Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008288.1 Hibiscus syriacus cultivar Beakdansim tig00110951_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: 310337
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:2232 original size:20 final size:21
Alignment explanation
Indices: 2203--2258 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
2193 TTTGTGCTTT
*
2203 ATGCACCGATGCAT-TT-AACA
1 ATGCATCGATGCATCTTGAA-A
*
2223 ATGCATCGATGCATCCTTGAAT
1 ATGCATCGATGCAT-CTTGAAA
2245 ATGCATCGATGCAT
1 ATGCATCGATGCAT
2259 AAGACATGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 16 0.52
23 2 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (21 bp):
ATGCATCGATGCATCTTGAAA
Found at i:3815 original size:21 final size:21
Alignment explanation
Indices: 3773--3816 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
3763 ACCCCGGGAG
*
3773 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
3794 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
3815 CT
1 CT
3817 CCTCCTTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:4843 original size:19 final size:19
Alignment explanation
Indices: 4807--4857 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
4797 ATTAATTGAA
4807 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
4825 CA-CTGATGCACTCTCCATG
1 CATC-GATGCACTCTCCATG
4844 CATCGATGCACTCT
1 CATCGATGCACTCT
4858 GAATATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.62
20 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:4897 original size:64 final size:63
Alignment explanation
Indices: 4805--4964 Score: 189
Period size: 64 Copynumber: 2.5 Consensus size: 63
4795 GAATTAATTG
*** *
4805 AACATCGAATGCATTCCATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTC
1 AACATCGAATGCATT-CATGCATC-GATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC
4868 AA
63 -A
* * **
4870 AACATCGAATGCATTGATGCATCGATGCACAAGCCATGCATCGATTCATCAGGTTATTTTTCA
1 AACATCGAATGCATTCATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCA
4933 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCA-TTCATGCATCGATGCACA
4965 CTTGGTGCAC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
63 19 0.23
64 48 0.58
65 16 0.19
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTCATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCA
Found at i:6354 original size:61 final size:61
Alignment explanation
Indices: 6259--6384 Score: 234
Period size: 61 Copynumber: 2.1 Consensus size: 61
6249 CCAAGATTGT
*
6259 CTTTACTGTTGTTTAAAACAAAACATTTACATCCAAAAGGATGAAAATAGCTAATGTTAGG
1 CTTTACCGTTGTTTAAAACAAAACATTTACATCCAAAAGGATGAAAATAGCTAATGTTAGG
*
6320 CTTTACCGTTGTTTAAAACAAAACATTTACATCCAAAAGGATTAAAATAGCTAATGTTAGG
1 CTTTACCGTTGTTTAAAACAAAACATTTACATCCAAAAGGATGAAAATAGCTAATGTTAGG
6381 CTTT
1 CTTT
6385 TTATTTTTAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (61 bp):
CTTTACCGTTGTTTAAAACAAAACATTTACATCCAAAAGGATGAAAATAGCTAATGTTAGG
Found at i:9849 original size:63 final size:63
Alignment explanation
Indices: 9779--9957 Score: 179
Period size: 65 Copynumber: 2.8 Consensus size: 63
9769 TTGGACCCTT
* * *
9779 AGTGCATCGGTGCACTAAGAGTGCATCGATGCATGAAATGCATTCGATGTTTCA-AATAGC-CAG
1 AGTGCATCGATGCA-TAAGAGTGCATCGATGCATGAAATACATTCGATGTTTCATAA-AACTCAG
* * * *
9842 AGTGCATCAATGCATGACTG-GTGCATCGATGCATCAAATACATTCGATGTTTTCATAAAACTCT
1 AGTGCATCGATGCAT-A-AGAGTGCATCGATGCATGAAATACATTCGATG-TTTCATAAAACTCA
9906 G
63 G
*
9907 AGTGCATCGATGTAT-AGTATGTGCATCGATGCATGAAATTA-ATTCGATGTT
1 AGTGCATCGATGCATAAG-A-GTGCATCGATGCATGAAA-TACATTCGATGTT
9958 CAATTTATTT
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
62 2 0.02
63 40 0.42
64 10 0.10
65 42 0.44
66 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (63 bp):
AGTGCATCGATGCATAAGAGTGCATCGATGCATGAAATACATTCGATGTTTCATAAAACTCAG
Found at i:9938 original size:65 final size:64
Alignment explanation
Indices: 9799--9957 Score: 184
Period size: 65 Copynumber: 2.5 Consensus size: 64
9789 TGCACTAAGA
* *
9799 GTGCATCGATGCATGAAATGCATTCGATG-TTTCAAATAGCCAGAGTGCATCAATGCATGACTG
1 GTGCATCGATGCATGAAATACATTCGATGTTTTCAAATAACCAGAGTGCATCAATGCATGACTG
* * * *
9862 GTGCATCGATGCATCAAATACATTCGATGTTTTCATAA-AACTCTGAGTGCATCGATGTATAGTA
1 GTGCATCGATGCATGAAATACATTCGATGTTTTCA-AATAAC-CAGAGTGCATCAATGCAT-G-A
9926 -T-
62 CTG
9927 GTGCATCGATGCATGAAATTA-ATTCGATGTT
1 GTGCATCGATGCATGAAA-TACATTCGATGTT
9958 CAATTTATTT
Statistics
Matches: 83, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
63 27 0.33
64 7 0.08
65 44 0.53
66 4 0.05
67 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATGAAATACATTCGATGTTTTCAAATAACCAGAGTGCATCAATGCATGACTG
Found at i:9996 original size:65 final size:65
Alignment explanation
Indices: 9799--10005 Score: 182
Period size: 65 Copynumber: 3.2 Consensus size: 65
9789 TGCACTAAGA
** * *
9799 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA-ATAGC-CA-GAGTGCATCAATGCATGACT
1 GTGCATCGATGCATGAAATTAATTCGATGTTTCAATATA-CTCATGAGTGCATCGATGCATGATT
9861 G
65 G
* * *
9862 GTGCATCGATGCATCAAA-TACATTCGATGTTTTC-ATAAAACTC-TGAGTGCATCGATGTAT-A
1 GTGCATCGATGCATGAAATTA-ATTCGATG-TTTCAAT-ATACTCATGAGTGCATCGATGCATGA
9923 GTAT-
63 -T-TG
* *
9927 GTGCATCGATGCATGAAATTAATTCGATG-TTCAATTTATTTCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATGAAATTAATTCGATGTTTCAATATA-CTCATGAGTGCATCGATGCAT-GAT
9990 TG
64 TG
*
9992 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
10006 CACCTTGAAA
Statistics
Matches: 116, Mismatches: 13, Indels: 28
0.74 0.08 0.18
Matches are distributed among these distances:
63 30 0.26
64 24 0.21
65 58 0.50
66 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATTAATTCGATGTTTCAATATACTCATGAGTGCATCGATGCATGATTG
Found at i:11533 original size:13 final size:13
Alignment explanation
Indices: 11515--11546 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
11505 TGGTCGCTCC
11515 ACTTCTTCTCCTT
1 ACTTCTTCTCCTT
11528 ACTTCTTCTCCTT
1 ACTTCTTCTCCTT
11541 -CTTCTT
1 ACTTCTT
11547 TGGAGAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.06, C:0.38, G:0.00, T:0.56
Consensus pattern (13 bp):
ACTTCTTCTCCTT
Found at i:12534 original size:13 final size:14
Alignment explanation
Indices: 12511--12540 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
12501 TTCCCATTAC
12511 AGACGTGCATATGA
1 AGACGTGCATATGA
12525 AGAC-TGCATATGA
1 AGACGTGCATATGA
12538 AGA
1 AGA
12541 TTGTCCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (14 bp):
AGACGTGCATATGA
Found at i:13089 original size:22 final size:22
Alignment explanation
Indices: 12944--13096 Score: 191
Period size: 22 Copynumber: 7.0 Consensus size: 22
12934 GATGTTTGAG
12944 CATTCATAGGGGTATCGGTACC
1 CATTCATAGGGGTATCGGTACC
*
12966 CATTC-TAGGGGTAACGGTACC
1 CATTCATAGGGGTATCGGTACC
* *
12987 CATTCATAAGGGTAACGGTACC
1 CATTCATAGGGGTATCGGTACC
* * *
13009 CATTCATAAGGGTATTGATACC
1 CATTCATAGGGGTATCGGTACC
**
13031 CATTCATAGGGGTATATGTACC
1 CATTCATAGGGGTATCGGTACC
* * *
13053 CATTCATAAGGGTATTGATACC
1 CATTCATAGGGGTATCGGTACC
*
13075 CATTCATAGGGGTATCAGTACC
1 CATTCATAGGGGTATCGGTACC
13097 TCTTAATATT
Statistics
Matches: 113, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
21 20 0.18
22 93 0.82
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (22 bp):
CATTCATAGGGGTATCGGTACC
Found at i:13096 original size:44 final size:44
Alignment explanation
Indices: 12944--13096 Score: 211
Period size: 44 Copynumber: 3.5 Consensus size: 44
12934 GATGTTTGAG
* * ** *
12944 CATTCATAGGGGTATCGGTACCCATTC-TAGGGGTAACGGTACC
1 CATTCATAGGGGTATCAGTACCCATTCATAAGGGTATTGATACC
* * *
12987 CATTCATAAGGGTAACGGTACCCATTCATAAGGGTATTGATACC
1 CATTCATAGGGGTATCAGTACCCATTCATAAGGGTATTGATACC
13031 CATTCATAGGGGTAT-ATGTACCCATTCATAAGGGTATTGATACC
1 CATTCATAGGGGTATCA-GTACCCATTCATAAGGGTATTGATACC
13075 CATTCATAGGGGTATCAGTACC
1 CATTCATAGGGGTATCAGTACC
13097 TCTTAATATT
Statistics
Matches: 98, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
43 25 0.26
44 72 0.73
45 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (44 bp):
CATTCATAGGGGTATCAGTACCCATTCATAAGGGTATTGATACC
Found at i:21172 original size:21 final size:21
Alignment explanation
Indices: 21147--21219 Score: 121
Period size: 21 Copynumber: 3.5 Consensus size: 21
21137 GTTATTCATT
21147 TGATGAATTACGTGAGGCTTA
1 TGATGAATTACGTGAGGCTTA
*
21168 TGATGAATTACATGAGGCTTA
1 TGATGAATTACGTGAGGCTTA
21189 TGATGAATTACAG-GAGGCTTA
1 TGATGAATTAC-GTGAGGCTTA
21210 TGATGAATTA
1 TGATGAATTA
21220 TCCTCAGAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.33, C:0.08, G:0.26, T:0.33
Consensus pattern (21 bp):
TGATGAATTACGTGAGGCTTA
Found at i:31206 original size:20 final size:20
Alignment explanation
Indices: 31177--31215 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
31167 AGAGCTCATA
*
31177 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
31197 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
31216 GTTGTGAAAT
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:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:41590 original size:20 final size:20
Alignment explanation
Indices: 41561--41599 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41551 AGAGCTCATA
*
41561 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
41581 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
41600 GTGGTGGAAA
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:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:49269 original size:2 final size:2
Alignment explanation
Indices: 49262--49287 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
49252 CTCATTAATA
49262 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
49288 GAAATTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:49521 original size:26 final size:27
Alignment explanation
Indices: 49492--49551 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
49482 ATTATATATG
* *
49492 AAATATATCAATTTA-AATTATAATAA
1 AAATATATAAAATTATAATTATAATAA
*
49518 AAATA-AAAAAATTATAATTATAATAA
1 AAATATATAAAATTATAATTATAATAA
*
49544 AAACATAT
1 AAATATAT
49552 TTTATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
25 6 0.22
26 20 0.74
27 1 0.04
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (27 bp):
AAATATATAAAATTATAATTATAATAA
Found at i:49529 original size:20 final size:20
Alignment explanation
Indices: 49506--49546 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
49496 ATATCAATTT
49506 AAATTATAATAAAAATAAAA
1 AAATTATAATAAAAATAAAA
* *
49526 AAATTATAATTATAATAAAA
1 AAATTATAATAAAAATAAAA
49546 A
1 A
49547 CATATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AAATTATAATAAAAATAAAA
Found at i:57852 original size:18 final size:17
Alignment explanation
Indices: 57829--57865 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
57819 CTAATTTAAC
57829 TTTTAAAAATAAAAGTTA
1 TTTTAAAAATAAAA-TTA
*
57847 TTTTAAATATAAAATTA
1 TTTTAAAAATAAAATTA
57864 TT
1 TT
57866 CAAATATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTTAAAAATAAAATTA
Found at i:63165 original size:105 final size:103
Alignment explanation
Indices: 62980--63183 Score: 381
Period size: 105 Copynumber: 2.0 Consensus size: 103
62970 CATCAGCTTG
62980 AGTACCATCCAAACAGCCAACATCAGCTCTCCCTTAACCTATTTCCCTGTCTATCCTCCAACCTA
1 AGTACCATCCAAACAGCCAACATCAGCTCTCCCTTAACCTATTTCCCTGTCTATCCTCCAACCTA
63045 TACCACTGTGGTGCCAGTGGACTGTCTGGTGGAAACCC
66 TACCACTGTGGTGCCAGTGGACTGTCTGGTGGAAACCC
*
63083 AGTACCCATCCAAACAGCCAACATCAGCTCTCCCTTGACCTTATTTCCCTGTCTATCCTCCAACC
1 AGTA-CCATCCAAACAGCCAACATCAGCTCTCCCTTAACC-TATTTCCCTGTCTATCCTCCAACC
63148 TATACCACTGTGGTGCCAGTGGACTGTCTGGTGGAA
64 TATACCACTGTGGTGCCAGTGGACTGTCTGGTGGAA
63184 CCCTTTTCGG
Statistics
Matches: 98, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
103 4 0.04
104 34 0.35
105 60 0.61
ACGTcount: A:0.24, C:0.34, G:0.16, T:0.26
Consensus pattern (103 bp):
AGTACCATCCAAACAGCCAACATCAGCTCTCCCTTAACCTATTTCCCTGTCTATCCTCCAACCTA
TACCACTGTGGTGCCAGTGGACTGTCTGGTGGAAACCC
Found at i:64695 original size:6 final size:6
Alignment explanation
Indices: 64686--64711 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
64676 AGAAAAAGAA
64686 AGGGAT AGGGAT AGGGAT AGGGAT AG
1 AGGGAT AGGGAT AGGGAT AGGGAT AG
64712 AGAAAATTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.00, G:0.50, T:0.15
Consensus pattern (6 bp):
AGGGAT
Found at i:65128 original size:15 final size:15
Alignment explanation
Indices: 65099--65143 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 15
65089 TGATTAAAAT
65099 TTGAATAATATTTAAA
1 TTGAATAA-ATTTAAA
*
65115 TTGAATAAATTTAAT
1 TTGAATAAATTTAAA
65130 TTGAGGATAAATTT
1 TTGA--ATAAATTT
65144 GATTCAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 10 0.38
16 8 0.31
17 8 0.31
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (15 bp):
TTGAATAAATTTAAA
Found at i:67494 original size:20 final size:20
Alignment explanation
Indices: 67469--67520 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
67459 TGAGTGTTGC
*
67469 ATGAAGGTTTGGAATTTTCG
1 ATGAAGGTCTGGAATTTTCG
67489 ATGAAGGTCTGGAATTTTCG
1 ATGAAGGTCTGGAATTTTCG
67509 ATGAAGGTCTGG
1 ATGAAGGTCTGG
67521 GTTGATTCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.08, G:0.33, T:0.35
Consensus pattern (20 bp):
ATGAAGGTCTGGAATTTTCG
Found at i:71005 original size:28 final size:28
Alignment explanation
Indices: 70944--71019 Score: 98
Period size: 28 Copynumber: 2.7 Consensus size: 28
70934 AATAATACTT
*
70944 AGGCGGCAAAGCCGACCATATATCATTC
1 AGGCGGCAAAGCCGACCATATATCAATC
* * * *
70972 AAGCGGTAAAACCGACCATATATTAATC
1 AGGCGGCAAAGCCGACCATATATCAATC
*
71000 AGGCGGCAGAGCCGACCATA
1 AGGCGGCAAAGCCGACCATA
71020 CAATAGAACT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.36, C:0.26, G:0.22, T:0.16
Consensus pattern (28 bp):
AGGCGGCAAAGCCGACCATATATCAATC
Found at i:74206 original size:24 final size:24
Alignment explanation
Indices: 74179--74269 Score: 130
Period size: 24 Copynumber: 3.8 Consensus size: 24
74169 CATAATTCAA
*
74179 GTCAAGTATCATATCAGAATCCAG
1 GTCAAGTATCATATCAGAATCCAT
* *
74203 GTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
74227 GTCAA-TATCATATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAT
* *
74250 GTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAAT
74270 TCAAATTTGA
Statistics
Matches: 59, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
23 21 0.36
24 38 0.64
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (24 bp):
GTCAAGTATCATATCAGAATCCAT
Found at i:74259 original size:47 final size:48
Alignment explanation
Indices: 74179--74269 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 48
74169 CATAATTCAA
* *
74179 GTCAAGTATCATATCAGAATCCAGGTCATGTATCAGATCAGAATCCAT
1 GTCAAGTATCATATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
* *
74227 GTCAA-TATCATATCAGAATCCATGTCAGGTATCATAACAGAAT
1 GTCAAGTATCATATCAGAATCCAGGTCAGGTATCAGAACAGAAT
74270 TCAAATTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 34 0.87
48 5 0.13
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.27
Consensus pattern (48 bp):
GTCAAGTATCATATCAGAATCCAGGTCAGGTATCAGAACAGAATCCAT
Found at i:76570 original size:15 final size:16
Alignment explanation
Indices: 76540--76573 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
76530 GGTTAACAGT
76540 GGTCAACATCGGTCAAC
1 GGTCAACA-CGGTCAAC
76557 GGTCAACA-GGTCAAC
1 GGTCAACACGGTCAAC
76572 GG
1 GG
76574 GTCGGGTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.29, C:0.26, G:0.29, T:0.15
Consensus pattern (16 bp):
GGTCAACACGGTCAAC
Found at i:76583 original size:13 final size:13
Alignment explanation
Indices: 76565--76638 Score: 76
Period size: 13 Copynumber: 5.3 Consensus size: 13
76555 ACGGTCAACA
76565 GGTCAACGGGTCG
1 GGTCAACGGGTCG
76578 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
76591 GATCAACGGGTCGGAACG
1 GGTCAACGGGT-----CG
*
76609 GGTCAACTGGTCG
1 GGTCAACGGGTCG
*
76622 GGTAAACGGGTCG
1 GGTCAACGGGTCG
76635 GGTC
1 GGTC
76639 GGGTTATGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
13 39 0.78
18 11 0.22
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:76642 original size:31 final size:31
Alignment explanation
Indices: 76571--76642 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
76561 AACAGGTCAA
*
76571 CGGGTCGGGTCAACGGGTCGGATCAACGGGT
1 CGGGTCGGGTCAACGGGTCGGATAAACGGGT
** * *
76602 CGGAACGGGTCAACTGGTCGGGTAAACGGGT
1 CGGGTCGGGTCAACGGGTCGGATAAACGGGT
76633 CGGGTCGGGT
1 CGGGTCGGGT
76643 TATGACCGGT
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.17, C:0.21, G:0.46, T:0.17
Consensus pattern (31 bp):
CGGGTCGGGTCAACGGGTCGGATAAACGGGT
Found at i:78729 original size:23 final size:24
Alignment explanation
Indices: 78706--78788 Score: 105
Period size: 24 Copynumber: 3.5 Consensus size: 24
78696 AAAAATCAAT
*
78706 CAAGTCAAGTATCATATCAGAATC
1 CAAGTCAAGTATCAGATCAGAATC
* *
78730 CAGGTCATGTATCAGATCAGAATC
1 CAAGTCAAGTATCAGATCAGAATC
*
78754 CATGTCAA-TATCAGATCAGAATC
1 CAAGTCAAGTATCAGATCAGAATC
* *
78777 CAGGTCAGGTAT
1 CAAGTCAAGTAT
78789 TAACAGAATT
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.41
24 30 0.59
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.25
Consensus pattern (24 bp):
CAAGTCAAGTATCAGATCAGAATC
Found at i:78741 original size:24 final size:23
Alignment explanation
Indices: 78713--78784 Score: 108
Period size: 23 Copynumber: 3.1 Consensus size: 23
78703 AATCAAGTCA
*
78713 AGTATCATATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
*
78736 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCAGATCAGAATCCAGGTC
*
78760 AATATCAGATCAGAATCCAGGTC
1 AGTATCAGATCAGAATCCAGGTC
78783 AG
1 AG
78785 GTATTAACAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 22 0.51
24 21 0.49
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (23 bp):
AGTATCAGATCAGAATCCAGGTC
Found at i:81075 original size:7 final size:7
Alignment explanation
Indices: 81063--81093 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
81053 TGGTCAACGT
81063 CGGTCAA
1 CGGTCAA
81070 CGGTCAA
1 CGGTCAA
81077 CGGTCAA
1 CGGTCAA
81084 CGGTCAA
1 CGGTCAA
81091 CGG
1 CGG
81094 GTCGGGTCAA
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:0.29, G:0.32, T:0.13
Consensus pattern (7 bp):
CGGTCAA
Found at i:81103 original size:13 final size:13
Alignment explanation
Indices: 81085--81136 Score: 77
Period size: 13 Copynumber: 4.0 Consensus size: 13
81075 AACGGTCAAC
81085 GGTCAACGGGTCG
1 GGTCAACGGGTCG
81098 GGTCAACGGGTCG
1 GGTCAACGGGTCG
*
81111 GGTCAACTGGTCG
1 GGTCAACGGGTCG
* *
81124 GGTAAACCGGTCG
1 GGTCAACGGGTCG
81137 AGTCGGGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.17, C:0.23, G:0.42, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:88222 original size:193 final size:195
Alignment explanation
Indices: 87889--88279 Score: 741
Period size: 193 Copynumber: 2.0 Consensus size: 195
87879 ACATTGATAA
87889 AGGAATTTAATACCTCATCTTAATAGACCAACTTGTTGGTGATGGTTAGGGCTGTAAATGAGACG
1 AGGAATTTAATACCTCATCTTAATAGACCAAC---TTGGTGATGGTTAGGGCTGTAAATGAGACG
87954 AGACAGATCGCGAGTTATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGA
63 AGACAGATCGCGAGTTATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGA
88019 CTCGACTCGAGTTCTTAACGAGCTGAAACGAGCTACCCGATATTCGATTCG-AAAACTCGTGAGC
128 CTCGACTCGAGTTCTTAACGAGCTGAAACGAGCTACCCGATATTCGATTCGAAAAACTCGTGAGC
88083 AGC
193 AGC
88086 AGGAATTTAATACCTCATCTTAATAGACCAAC-TGGTGATGGTTAGGGCTGTAAATGAGACGAGA
1 AGGAATTTAATACCTCATCTTAATAGACCAACTTGGTGATGGTTAGGGCTGTAAATGAGACGAGA
88150 CAGATCGCGAGTTATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
66 CAGATCGCGAGTTATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
88215 GACTCGAGTTCTTAACGAGCTGAAACGAGCTACCCGATATTCGATTCGAAAAACTCGTGAGCAGC
131 GACTCGAGTTCTTAACGAGCTGAAACGAGCTACCCGATATTCGATTCGAAAAACTCGTGAGCAGC
88280 TCGAAAATAT
Statistics
Matches: 193, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
193 145 0.75
194 16 0.08
197 32 0.17
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (195 bp):
AGGAATTTAATACCTCATCTTAATAGACCAACTTGGTGATGGTTAGGGCTGTAAATGAGACGAGA
CAGATCGCGAGTTATTCGAGATCGACTCGATCAAGGCTCGATAAATACTCGGATCGAATGGACTC
GACTCGAGTTCTTAACGAGCTGAAACGAGCTACCCGATATTCGATTCGAAAAACTCGTGAGCAGC
Found at i:95176 original size:149 final size:146
Alignment explanation
Indices: 94979--95247 Score: 416
Period size: 149 Copynumber: 1.8 Consensus size: 146
94969 AAGAAAATCT
* *
94979 ATTAATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAATGACTTCTA
1 ATTAATATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTA
* *
95044 AGTGCCTTAAGACAGCTCTTTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATCTTTCT
66 AGTGCCTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATCTTTCT
95109 AAAAATAATTAAATAA
131 AAAAATAATTAAATAA
95125 ATTAATATATATATAATTTATAAA-AATATGATATTTATTTATTTA-AGAATATCAGAAAAGGAC
1 ATTAATATATATAT-ATTTATAAATAA-A--ATATTTATTTATTTAGA-AATATCAGAAAAGGAC
* * *
95188 TTCTAGGTGCTTTAAGAGAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATA
61 TTCTAAGTGCCTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATA
95248 TGATTATTTT
Statistics
Matches: 111, Mismatches: 7, Indels: 7
0.89 0.06 0.06
Matches are distributed among these distances:
146 15 0.14
147 10 0.09
148 1 0.01
149 85 0.77
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (146 bp):
ATTAATATATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGACTTCTA
AGTGCCTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATCTTTCT
AAAAATAATTAAATAA
Found at i:96782 original size:40 final size:40
Alignment explanation
Indices: 96661--96838 Score: 263
Period size: 40 Copynumber: 4.5 Consensus size: 40
96651 AGGTCGAACA
* *
96661 AGTTCTTATCATTATGAACTTCTTCTTCC-TC-TCAAGATG
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTC-AGATG
*
96700 AGTTCTTCTCATTATGAACTTATTCTT-CTTCTTTAGATG
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
* * *
96739 AGTTCTTCTCATTATTAATTTCTTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
*
96779 AGTTCTTCTCATTATGAATTTATTCTTCCTTCTTCAGATG
1 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
96819 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
96839 CTACCTGGCA
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 56 0.44
40 69 0.55
ACGTcount: A:0.21, C:0.21, G:0.10, T:0.49
Consensus pattern (40 bp):
AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATG
Found at i:96784 original size:20 final size:20
Alignment explanation
Indices: 96761--96826 Score: 59
Period size: 20 Copynumber: 3.3 Consensus size: 20
96751 TATTAATTTC
96761 TTCTTCCTTCTTCAGATGAG
1 TTCTTCCTTCTTCAGATGAG
*
96781 TTCTT-C-TCATT-ATGAATTTA-
1 TTCTTCCTTC-TTCA-G-A-TGAG
96801 TTCTTCCTTCTTCAGATGAG
1 TTCTTCCTTCTTCAGATGAG
96821 TTCTTC
1 TTCTTC
96827 TCATTATGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 16
0.67 0.04 0.30
Matches are distributed among these distances:
18 3 0.08
19 6 0.17
20 18 0.50
21 6 0.17
22 3 0.08
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.50
Consensus pattern (20 bp):
TTCTTCCTTCTTCAGATGAG
Found at i:97066 original size:113 final size:113
Alignment explanation
Indices: 96782--97068 Score: 477
Period size: 113 Copynumber: 2.5 Consensus size: 113
96772 TCAGATGAGT
* * *
96782 TCTTCTCATTATGAATTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTG
* * * *
96846 GCAATGCTGATCCATCAAGTGATGGATTTGAGGAAAAGGTTGAATAAGC
65 GAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
* *
96895 TCTTCTCATTATAAACTTCTTCTTCCTTCTTCGGATGAGTTCTTCTCATTATGAACTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
96960 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
66 AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
97008 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCT
97069 TCTTCATTCT
Statistics
Matches: 162, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
112 2 0.01
113 160 0.99
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
Found at i:97081 original size:41 final size:41
Alignment explanation
Indices: 97008--97109 Score: 188
Period size: 41 Copynumber: 2.5 Consensus size: 41
96998 TTGAACAAGC
*
97008 TCTTCTCATTATGAAC-TTCTTCTTCCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTTCTTCTTCATTCTTCAGATGAGT
97048 TCTTCTCATTATGAACTTTCTTCTTCATTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTTCTTCTTCATTCTTCAGATGAGT
97089 TCTTCTCATTATGAACTTTCT
1 TCTTCTCATTATGAACTTTCT
97110 ATGGAAAAGT
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
40 16 0.27
41 44 0.73
ACGTcount: A:0.19, C:0.24, G:0.09, T:0.49
Consensus pattern (41 bp):
TCTTCTCATTATGAACTTTCTTCTTCATTCTTCAGATGAGT
Found at i:97217 original size:266 final size:265
Alignment explanation
Indices: 96742--97334 Score: 897
Period size: 266 Copynumber: 2.2 Consensus size: 265
96732 TTAGATGAGT
* * *
96742 TCTTCTCATTATTAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAA-TTTATTCTT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTT
* * * *
96806 CCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAATGCTGATCCATCAAGTGATGG
66 CATTCTTCAGATGAGTTCTTCTCATTATGAACTCTA-CTGGAAAAGCTAATCCATCAAGTGATGG
* * * * *
96871 ATTTGAGGAAAAGGTTGAATAAGCTCTTCTCATTATAAACTTCTTCTTCCTTCTTCGGATGAGTT
130 AATTCAGGAAAAGGTTGAATAAACTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAAGTT
* *
96936 CTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTG
195 CTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAGC-AAAGGTTA
97001 AACAAGC
259 AACAAGC
97008 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTT
*
97073 CATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTA-TGGAAAAGTTAATCCATCAAGTGAT-
66 CATTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTACTGGAAAAGCTAATCCATCAAGTGATG
* * * *
97136 GAATTCAGGCAAAAGGTTGAATAAATTCTTCTTATTATGAATTTCTTCTTCC-TCTTCAGATAAG
129 GAATTCAGG-AAAAGGTTGAATAAACTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAAG
* *
97200 TTCTTCTCATTATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAGCAAAGGTT
193 TTCTTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAGCAAAGGTT
*
97265 AAACAAGT
258 AAACAAGC
*
97273 TCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCT
97335 GGAAATGTTG
Statistics
Matches: 299, Mismatches: 23, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
265 69 0.23
266 129 0.43
267 97 0.32
269 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (265 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTTCTT
CATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACTGGAAAAGCTAATCCATCAAGTGATGGA
ATTCAGGAAAAGGTTGAATAAACTCTTCTCATTATAAACTTCTTCTTCCTTCTTCAGATAAGTTC
TTCTCATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTGAGCAAAGGTTAAA
CAAGC
Found at i:97435 original size:223 final size:224
Alignment explanation
Indices: 97045--97567 Score: 759
Period size: 223 Copynumber: 2.3 Consensus size: 224
97035 TCTTCAGATG
*
97045 AGTTCTTCTCATTATGAACTTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACT-TTC
1 AGTTCTTCTCATTATGAAC-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTC
* * * * * * *
97109 TATGGAAAAGTTAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAATAAATTCTTCTTATTAT
65 --TGGAAATGTTAATCCATCAAGTGATGAATTCAAGAAAAAAGTTAAACAAATTCTTCTCATTAT
* * *
97174 GAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCTCTGGAAATGTTGATCC
128 GAACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTCTAC-CTGGAAATGTTGATCC
* *
97238 ATCAAGTGATGAATTTGAGC-AAAGGTTAAACA
192 ATCAAGTGATGAATTCGAACAAAAGGTTAAACA
*
97270 AGTTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
* *
97335 GGAAATGTTGATCCATCGAA-TGATGAATTCAAGAAAAAAGTTAAACAAGTTCTTCTCATTATGA
66 GGAAATGTTAATCCATC-AAGTGATGAATTCAAGAAAAAAGTTAAACAAATTCTTCTCATTATGA
* *
97399 ACTTATTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATC
130 ACTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATC
*
97464 AAGTGATGGATTCGAACAAAAGGTTAAACA
195 AAGTGATGAATTCGAACAAAAGGTTAAACA
* * *
97494 AATTCTTCTCATTATGAACTTCCTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TC
97558 TGGAAATGTT
65 TGGAAATGTT
97568 TTAAGAAAAA
Statistics
Matches: 270, Mismatches: 23, Indels: 11
0.89 0.08 0.04
Matches are distributed among these distances:
223 158 0.59
224 91 0.34
225 21 0.08
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (224 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTTCT
GGAAATGTTAATCCATCAAGTGATGAATTCAAGAAAAAAGTTAAACAAATTCTTCTCATTATGAA
CTTATTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCATCA
AGTGATGAATTCGAACAAAAGGTTAAACA
Found at i:97553 original size:112 final size:112
Alignment explanation
Indices: 97047--97567 Score: 718
Period size: 112 Copynumber: 4.6 Consensus size: 112
97037 TTCAGATGAG
97047 TTCTTCTCATTATGAACTTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTA-
1 TTCTTCTCATTATGAAC-TTCTTCTTC-TTCTTCAGATGAGTTCTTCTCATTATGAAC--TCTAC
* * * * *
97111 -TGGAAAAGTTAATCCATCAAGTGATGAATTC-AGGCAAAAGGTTGAATAAA
62 CTGGAAATGTTGATCCATCAAGTGATGAATTCGA-ACAAAAGGTTAAACAAA
* * * * *
97161 TTCTTCTTATTATGAATTTCTTCTTCCTCTTCAGATAAGTTCTTCTCATTATGAACT-TTCTCTG
1 TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTG
* * *
97225 GAAATGTTGATCCATCAAGTGATGAATTTGAGC-AAAGGTTAAACAAG
65 GAAATGTTGATCCATCAAGTGATGAATTCGAACAAAAGGTTAAACAAA
* *
97272 TTCTTTTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-TCTG
1 TTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTG
*
97336 GAAATGTTGATCCATCGAA-TGATGAATTCAAGAA-AAAA-GTTAAACAAG
65 GAAATGTTGATCCATC-AAGTGATGAATTC--GAACAAAAGGTTAAACAAA
*
97384 TTCTTCTCATTATGAACTTATTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
*
97449 AAATGTTGATCCATCAAGTGATGGATTCGAACAAAAGGTTAAACAAA
66 AAATGTTGATCCATCAAGTGATGAATTCGAACAAAAGGTTAAACAAA
*
97496 TTCTTCTCATTATGAACTTCCTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
1 TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
97561 AAATGTT
66 AAATGTT
97568 TTAAGAAAAA
Statistics
Matches: 367, Mismatches: 26, Indels: 30
0.87 0.06 0.07
Matches are distributed among these distances:
109 1 0.00
110 4 0.01
111 101 0.28
112 230 0.63
113 16 0.04
114 15 0.04
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (112 bp):
TTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGG
AAATGTTGATCCATCAAGTGATGAATTCGAACAAAAGGTTAAACAAA
Found at i:97709 original size:76 final size:76
Alignment explanation
Indices: 97579--97760 Score: 258
Period size: 76 Copynumber: 2.4 Consensus size: 76
97569 TAAGAAAAAA
* * * * *
97579 AAACATTC-TGCACTGTAGGGCTTACAGCTGACTCGAAGGTTTTGAAAACATCAAAAAGTTCCCG
1 AAACA-TCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCG
97643 AAGGCTTTTTGG
65 AAGGCTTTTTGG
* * *
97655 AAACATCATGCATTGTAGGACTTATAGATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGA
1 AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
*
97720 AGGTTTTTTGG
66 AGGCTTTTTGG
*
97731 AAACATCATGAACTGTAGGACTTACAGATG
1 AAACATCATGCACTGTAGGACTTACAGATG
97761 TGGGAAATAA
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
75 2 0.02
76 91 0.98
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (76 bp):
AAACATCATGCACTGTAGGACTTACAGATGACCCGAAGGCTTTGAAAACATCAAAAAGCTCCCGA
AGGCTTTTTGG
Found at i:98463 original size:22 final size:22
Alignment explanation
Indices: 98438--98492 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
98428 AATAAAGCTT
98438 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
98460 TCATC-TTGAAAAAGAGAATCTA
1 TCATCTTTG-AAAAGAGAATCTA
98482 TCATCTTTGAA
1 TCATCTTTGAA
98493 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
21 3 0.10
22 25 0.81
23 3 0.10
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:101314 original size:114 final size:114
Alignment explanation
Indices: 101114--101333 Score: 361
Period size: 114 Copynumber: 1.9 Consensus size: 114
101104 GATCATGCAG
* * * *
101114 TTCATCTTTCAATTCCAATGATTAGTTCTGGGGTTCCCACCGAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTAGTTCTGGGGTTCACAACAAACCAGATCAGATAACTCAAAGA
101179 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* * *
101228 TTCATCTTTCAAATCCAATGATT-GTTTTTGGGGTTCATAACAAATCAGATCAGATAACTCAAAG
1 TTCATCTTTCAAATCCAATGATTAG-TTCTGGGGTTCACAACAAACCAGATCAGATAACTCAAAG
101292 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
65 AACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
101334 CGAGAACGTG
Statistics
Matches: 98, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
113 1 0.01
114 97 0.99
ACGTcount: A:0.30, C:0.22, G:0.15, T:0.33
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTAGTTCTGGGGTTCACAACAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:102794 original size:13 final size:13
Alignment explanation
Indices: 102776--102838 Score: 94
Period size: 13 Copynumber: 4.8 Consensus size: 13
102766 CTTGATTCAA
102776 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
102789 TTTTCTTTTTTTT
1 TTTTCTTTTTTTT
102802 TTTT-TTCTTTTTT
1 TTTTCTT-TTTTTT
102815 TTTT-TTTTTTTT
1 TTTTCTTTTTTTT
102827 TTTTCCTTTTTT
1 TTTT-CTTTTTT
102839 CCTTTTTTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.26
13 29 0.62
14 6 0.13
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (13 bp):
TTTTCTTTTTTTT
Found at i:102801 original size:15 final size:15
Alignment explanation
Indices: 102781--102847 Score: 100
Period size: 15 Copynumber: 4.3 Consensus size: 15
102771 TTCAATTTTC
102781 TTTTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
102796 TTTTTTTTTTTTCTT
1 TTTTTTTTTTTTCTT
102811 TTTTTTTTTTTT-TT
1 TTTTTTTTTTTTCTT
102825 TTTTTTCCTTTTTTCCTT
1 TTTTTT--TTTTTT-CTT
102843 TTTTT
1 TTTTT
102848 ATGTGTATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
14 8 0.17
15 27 0.56
16 6 0.12
18 7 0.15
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTTTTTTTCTT
Found at i:102807 original size:23 final size:23
Alignment explanation
Indices: 102776--102847 Score: 92
Period size: 23 Copynumber: 3.1 Consensus size: 23
102766 CTTGATTCAA
*
102776 TTTTCTTTTTTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTCTTTTT
102799 TTTTTTTTTCTTTTTTTT-TTTTT
1 TTTTTTTTT-TTTTTTTTCTTTTT
** *
102822 TTTTTTTTTCCTTTTTTCCTTTT
1 TTTTTTTTTTTTTTTTTCTTTTT
102845 TTT
1 TTT
102848 ATGTGTATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
22 6 0.14
23 29 0.67
24 8 0.19
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (23 bp):
TTTTTTTTTTTTTTTTTCTTTTT
Found at i:102811 original size:28 final size:27
Alignment explanation
Indices: 102776--102830 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 27
102766 CTTGATTCAA
102776 TTTTCTTTTTTTTTTTTCTTTTTTTTTT
1 TTTTCTTTTTTTTTTTT-TTTTTTTTTT
102804 TTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTCTTTTTTTTTTTTTTTTTTTTTT
102831 CCTTTTTTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (27 bp):
TTTTCTTTTTTTTTTTTTTTTTTTTTT
Found at i:102836 original size:7 final size:8
Alignment explanation
Indices: 102776--102846 Score: 53
Period size: 8 Copynumber: 9.5 Consensus size: 8
102766 CTTGATTCAA
102776 TTTT-CTT
1 TTTTCCTT
102783 TTTT--TT
1 TTTTCCTT
102789 TTTT-CTT
1 TTTTCCTT
*
102796 TTTT-TTT
1 TTTTCCTT
*
102803 TTTTTCTT
1 TTTTCCTT
**
102811 TTTTTTTT
1 TTTTCCTT
**
102819 TTTTTTTT
1 TTTTCCTT
102827 TTTTCCTT
1 TTTTCCTT
102835 TTTTCCTT
1 TTTTCCTT
102843 TTTT
1 TTTT
102847 TATGTGTATA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
6 6 0.11
7 16 0.28
8 35 0.61
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTCCTT
Found at i:102836 original size:8 final size:7
Alignment explanation
Indices: 102776--102846 Score: 73
Period size: 6 Copynumber: 10.6 Consensus size: 7
102766 CTTGATTCAA
102776 TTTTCTT
1 TTTTCTT
102783 TTTT-TT
1 TTTTCTT
102789 TTTTCTT
1 TTTTCTT
102796 TTTT-TT
1 TTTTCTT
102802 TTTT-TT
1 TTTTCTT
102808 CTTTT-TT
1 -TTTTCTT
102815 TTTT-TT
1 TTTTCTT
102821 TTTT-TT
1 TTTTCTT
102827 TTTTCCTT
1 TTTT-CTT
102835 TTTTCCTT
1 TTTT-CTT
102843 TTTT
1 TTTT
102847 TATGTGTATA
Statistics
Matches: 60, Mismatches: 0, Indels: 7
0.90 0.00 0.10
Matches are distributed among these distances:
6 30 0.50
7 16 0.27
8 14 0.23
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (7 bp):
TTTTCTT
Found at i:102847 original size:1 final size:1
Alignment explanation
Indices: 102776--102830 Score: 83
Period size: 1 Copynumber: 55.0 Consensus size: 1
102766 CTTGATTCAA
* * *
102776 TTTTCTTTTTTTTTTTTCTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
102831 CCTTTTTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.05, G:0.00, T:0.95
Consensus pattern (1 bp):
T
Found at i:105279 original size:12 final size:12
Alignment explanation
Indices: 105264--105291 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
105254 AAACATAAAA
105264 AAATGCAAATGT
1 AAATGCAAATGT
105276 AAATGCAAATGT
1 AAATGCAAATGT
105288 AAAT
1 AAAT
105292 ATGTGAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.07, G:0.14, T:0.25
Consensus pattern (12 bp):
AAATGCAAATGT
Found at i:106922 original size:9 final size:8
Alignment explanation
Indices: 106895--106950 Score: 53
Period size: 9 Copynumber: 6.9 Consensus size: 8
106885 AATATTTGAA
106895 AATAAAAT
1 AATAAAAT
106903 AAT-AAAT
1 AATAAAAT
106910 AATAAATAT
1 AATAAA-AT
106919 AATAAATAT
1 AATAAA-AT
*
106928 TATGAAAAT
1 AAT-AAAAT
*
106937 AAT-AAGT
1 AATAAAAT
106944 AATAAAA
1 AATAAAA
106951 ATTTTGAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
7 13 0.32
8 7 0.17
9 17 0.43
10 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.29
Consensus pattern (8 bp):
AATAAAAT
Found at i:106958 original size:25 final size:23
Alignment explanation
Indices: 106910--106977 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
106900 AATAATAAAT
*
106910 AATAAATA-TAATAAATATTATGAA
1 AATAAA-AGTAATAAAAATTATG-A
*
106934 AATAATAAGTAATAAAAATTTTGA
1 AATAA-AAGTAATAAAAATTATGA
106958 AATAAAAG-AATTAAAAATTA
1 AATAAAAGTAA-TAAAAATTA
106978 AATAAATATG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 2 0.05
23 11 0.29
24 12 0.32
25 13 0.34
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (23 bp):
AATAAAAGTAATAAAAATTATGA
Found at i:107654 original size:151 final size:148
Alignment explanation
Indices: 107466--107738 Score: 440
Period size: 151 Copynumber: 1.8 Consensus size: 148
107456 AAGAAAATCT
* *
107466 ATTAATTTATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAATGACTTC
1 ATTAATATATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACTTC
* *
107531 TAAGTGCCTTAAGACAGCTCTTTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATCTTT
66 TAAGTGCCTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATCTTT
107596 CTAAAAATAATTAAATAA
131 CTAAAAATAATTAAATAA
*
107614 ATTAATATATATATATAATTTATAAA-AATATGATATTTATTTATTTAAGAATATCAGAAAAGGA
1 ATTAATATATATATAT-ATTTATAAATAA-A--ATATTTATTTATTTAAAAATATCAGAAAAGGA
* *
107678 CTTCTAGGTGCTTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATA
62 CTTCTAAGTGCCTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATA
107739 TGATTATTTT
Statistics
Matches: 114, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
148 17 0.15
149 10 0.09
151 87 0.76
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (148 bp):
ATTAATATATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAGGACTTC
TAAGTGCCTTAAGACAGCCCATTTCTTAATATTAAAAAATAAATAAATATTAAAATAACATCTTT
CTAAAAATAATTAAATAA
Found at i:112511 original size:22 final size:22
Alignment explanation
Indices: 112464--112512 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
112454 GAAAGTCAAC
*
112464 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCGGGTCGGGCCA
*
112486 GGTCAACGGTCGGGTCGGGCCG
1 GGTCAACGGTCGGGTCGGGCCA
112508 GGTCA
1 GGTCA
112513 GACCGGTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.12, C:0.24, G:0.47, T:0.16
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGCCA
Found at i:119798 original size:22 final size:22
Alignment explanation
Indices: 119770--119814 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
119760 GGAAGTCAAC
*
119770 GGTCAACGGTCGGGTCGGGTCA
1 GGTCAACGGTCAGGTCGGGTCA
119792 GGTCAACGGTCAGGTCGGGTCA
1 GGTCAACGGTCAGGTCGGGTCA
119814 G
1 G
119815 ACCGCTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.44, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCAGGTCGGGTCA
Found at i:119835 original size:19 final size:20
Alignment explanation
Indices: 119811--119849 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
119801 TCAGGTCGGG
119811 TCAGACC-GCTCAAACCGGT
1 TCAGACCGGCTCAAACCGGT
*
119830 TCAGACCGGTTCAAACCGGT
1 TCAGACCGGCTCAAACCGGT
119850 CAAACCGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.26, C:0.33, G:0.23, T:0.18
Consensus pattern (20 bp):
TCAGACCGGCTCAAACCGGT
Found at i:119839 original size:10 final size:10
Alignment explanation
Indices: 119820--119856 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
119810 GTCAGACCGC
119820 TCAAACCGGT
1 TCAAACCGGT
*
119830 TCAGACCGGT
1 TCAAACCGGT
119840 TCAAACCGG-
1 TCAAACCGGT
119849 TCAAACCG
1 TCAAACCG
119857 ATTTTACAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.30, C:0.32, G:0.22, T:0.16
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:122682 original size:23 final size:22
Alignment explanation
Indices: 122656--122699 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
122646 AATAATCACT
122656 AACACACATATATCATATCACAA
1 AACACACATATAT-ATATCACAA
**
122679 AACACATTTATATATATCACA
1 AACACACATATATATATCACA
122700 TACATTGTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (22 bp):
AACACACATATATATATCACAA
Found at i:127785 original size:17 final size:17
Alignment explanation
Indices: 127760--127793 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
127750 GATGCAATTA
127760 GTATCGATACTGATGGG
1 GTATCGATACTGATGGG
*
127777 GTATGGATACTGATGGG
1 GTATCGATACTGATGGG
127794 AAGTACCGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (17 bp):
GTATCGATACTGATGGG
Found at i:127960 original size:20 final size:22
Alignment explanation
Indices: 127916--127960 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
127906 GGGGTATCAG
*
127916 TACCATAGTATAGAAGTATCGA
1 TACCATAGTATAGAAGTACCGA
*
127938 TACCATAGTAT-G-TGTACCGA
1 TACCATAGTATAGAAGTACCGA
127958 TAC
1 TAC
127961 TATTGAGTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 11 0.52
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.29
Consensus pattern (22 bp):
TACCATAGTATAGAAGTACCGA
Found at i:130097 original size:32 final size:32
Alignment explanation
Indices: 130056--130137 Score: 112
Period size: 32 Copynumber: 2.6 Consensus size: 32
130046 TTGAGTTAAA
* *
130056 TTCGATTCGGGTTACTTTCGGA-TCGGGTTGCT
1 TTCGGTTCGGGTTAATTTC-GATTCGGGTTGCT
130088 TTCGGTTCGGGTTAATTTCGATTCGGGTTGCT
1 TTCGGTTCGGGTTAATTTCGATTCGGGTTGCT
* *
130120 TTTGGTTCAGGTTAATTT
1 TTCGGTTCGGGTTAATTT
130138 TGGTTCTGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
31 2 0.04
32 43 0.96
ACGTcount: A:0.11, C:0.15, G:0.29, T:0.45
Consensus pattern (32 bp):
TTCGGTTCGGGTTAATTTCGATTCGGGTTGCT
Found at i:130132 original size:16 final size:16
Alignment explanation
Indices: 130050--130143 Score: 80
Period size: 16 Copynumber: 5.9 Consensus size: 16
130040 TTCGGGTTGA
* *
130050 GTTAAATTCGATTCGG
1 GTTAATTTCGGTTCGG
* *
130066 GTTACTTTCGGATCGG
1 GTTAATTTCGGTTCGG
**
130082 GTTGCTTTCGGTTCGG
1 GTTAATTTCGGTTCGG
*
130098 GTTAATTTCGATTCGG
1 GTTAATTTCGGTTCGG
** * *
130114 GTTGCTTTTGGTTCAG
1 GTTAATTTCGGTTCGG
*
130130 GTTAATTTTGGTTC
1 GTTAATTTCGGTTC
130144 TGATTGATTT
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 62 1.00
ACGTcount: A:0.13, C:0.14, G:0.29, T:0.45
Consensus pattern (16 bp):
GTTAATTTCGGTTCGG
Found at i:130143 original size:48 final size:48
Alignment explanation
Indices: 130050--130143 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
130040 TTCGGGTTGA
* **
130050 GTTAAATTCGATTCGGGTTACTTTCGGATCGGGTTGCTTTCGGTTCGG
1 GTTAAATTCGATTCGGGTTACTTTCGGATCAGGTTAATTTCGGTTCGG
* * * * *
130098 GTTAATTTCGATTCGGGTTGCTTTTGGTTCAGGTTAATTTTGGTTC
1 GTTAAATTCGATTCGGGTTACTTTCGGATCAGGTTAATTTCGGTTC
130144 TGATTGATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.13, C:0.14, G:0.29, T:0.45
Consensus pattern (48 bp):
GTTAAATTCGATTCGGGTTACTTTCGGATCAGGTTAATTTCGGTTCGG
Found at i:130154 original size:48 final size:48
Alignment explanation
Indices: 130051--130154 Score: 109
Period size: 48 Copynumber: 2.2 Consensus size: 48
130041 TCGGGTTGAG
* * ** *
130051 TTAAATTCGATTCGGGTTACTTTCGGATCGGGTTGCTTTCGGTTCGGG
1 TTAATTTCGATTCGGGTTACTTTCGGATCAGGTTAATTTCGGTTCGGA
* * * * *
130099 TTAATTTCGATTCGGGTTGCTTTTGGTTCAGGTTAATTTTGGTTCTGA
1 TTAATTTCGATTCGGGTTACTTTCGGATCAGGTTAATTTCGGTTCGGA
*
130147 TTGATTTC
1 TTAATTTC
130155 ATTTTTTCTA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.13, C:0.13, G:0.27, T:0.46
Consensus pattern (48 bp):
TTAATTTCGATTCGGGTTACTTTCGGATCAGGTTAATTTCGGTTCGGA
Found at i:133260 original size:21 final size:21
Alignment explanation
Indices: 133234--133276 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
133224 ACCGCTATGG
133234 TACTGACT-TGACAATTCACGA
1 TACTGA-TATGACAATTCACGA
*
133255 TACTGATATGATAATTCACGA
1 TACTGATATGACAATTCACGA
133276 T
1 T
133277 GTTTACATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.33
Consensus pattern (21 bp):
TACTGATATGACAATTCACGA
Found at i:135440 original size:16 final size:17
Alignment explanation
Indices: 135405--135444 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
135395 TGGTTTGAGA
135405 TAATTATAAAATAATAT
1 TAATTATAAAATAATAT
* *
135422 TAATT-TAAAATATTTT
1 TAATTATAAAATAATAT
135438 TAATTAT
1 TAATTAT
135445 TTTATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTATAAAATAATAT
Found at i:138143 original size:30 final size:29
Alignment explanation
Indices: 138060--138144 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 29
138050 TTATATAATT
* *
138060 ATAGTTTGGGATGAAATTGGAATGTTCAA
1 ATAGTTTGGGATAAAATTGGAATGTACAA
* * * * * *
138089 AAAGTTTGGGGATCAATTTAGAATGTAGATC
1 ATAGTTT-GGGATAAAATTGGAATGTACA-A
138120 ATAGTTTGGGATAAAATTGGAATGT
1 ATAGTTTGGGATAAAATTGGAATGT
138145 TTAAAAGTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
29 6 0.14
30 31 0.72
31 6 0.14
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
ATAGTTTGGGATAAAATTGGAATGTACAA
Found at i:138180 original size:59 final size:60
Alignment explanation
Indices: 138060--138233 Score: 192
Period size: 60 Copynumber: 2.9 Consensus size: 60
138050 TTATATAATT
* * * *
138060 ATAGTTTGGGATGAAATTGGAATGTTCAAAAAGTTTGGGGA-TCAATTTAGAAT-GTAGATC
1 ATAGTTTGGGATGAAATTGGAATGTT-TAAAAGTTTAGGGACT-AATTTAAAATAATAGATC
* *
138120 ATAGTTTGGGATAAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATAAT-TATC
1 ATAGTTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATAATAGATC
* * * * * *
138179 ATAGAATAGGGATGAAATTGCAATATTTAAAAGATTAAGGACTAATTTAAAATAA
1 ATAG-TTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATAA
138234 GGGTCATACT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
59 28 0.29
60 70 0.71
ACGTcount: A:0.42, C:0.04, G:0.21, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATAATAGATC
Found at i:138809 original size:20 final size:19
Alignment explanation
Indices: 138777--138851 Score: 66
Period size: 20 Copynumber: 3.8 Consensus size: 19
138767 TTCTACAAAA
138777 ATATTTTATTTTATTATATT
1 ATATTTTA-TTTATTATATT
138797 ATATATTTATTTATT-TATT
1 ATAT-TTTATTTATTATATT
*
138816 -TATTGTTA-TTATTATTAAT
1 ATATT-TTATTTATTA-TATT
*
138835 ATATTATTATTTTTTAT
1 ATATT-TTATTTATTAT
138852 TTTTGTAGGC
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
17 6 0.13
18 6 0.13
19 7 0.15
20 18 0.39
21 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (19 bp):
ATATTTTATTTATTATATT
Found at i:139278 original size:84 final size:84
Alignment explanation
Indices: 139053--139520 Score: 489
Period size: 84 Copynumber: 5.6 Consensus size: 84
139043 CGTGGAACCA
* ** * * * *
139053 AAGGCACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGCTAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* *
139118 TTCGATTACACTCAGCTTCG
66 TTCGACTACACTCAGC-TCC
* * * * * **
139138 AGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTTG-TGACCAAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACC-AAAGACCTTCGA
*
139202 GTTCGACTACGCTCAGCTCC
65 GTTCGACTACACTCAGCTCC
* * * * *
139222 AAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
*
139287 TTCGACTACGCTCAGCTCC
66 TTCGACTACACTCAGCTCC
* * * * * *
139306 AAGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG----CCAAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* * *
139367 TTTGATTACACTCAGCTTCG
66 TTCGACTACACTCAGC-TCC
* * * * *
139387 AGGGCACATCATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGTCAA-CAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
* *
139451 TTCGACTCCACTCAGCTCA
66 TTCGACTACACTCAGCTCC
* *
139470 AAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAA
1 AAGGCA-CATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAA
139521 AGACCTTCGA
Statistics
Matches: 322, Mismatches: 53, Indels: 17
0.82 0.14 0.04
Matches are distributed among these distances:
80 27 0.08
81 40 0.12
83 7 0.02
84 183 0.57
85 65 0.20
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (84 bp):
AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAG
TTCGACTACACTCAGCTCC
Found at i:139509 original size:165 final size:163
Alignment explanation
Indices: 139055--139555 Score: 581
Period size: 165 Copynumber: 3.0 Consensus size: 163
139045 TGGAACCAAA
* * * *
139055 GGCACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGCTAACCGAAGACCCTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGC-AACCAAAGACCTTCGAGTT
* * * * * * * *
139120 CGATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTTGT
65 CGACTACACTCAGC-TCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTA--TCT
* * * * *
139185 GACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA
127 G-CC-AAAGACCTTCGAGTTTGATTACACTCAGCTCGAG
* * *
139224 GGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTT
* * * * * *
139289 CGACTACGCTCAGCTCCAAGACACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTGCC
65 CGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC
*
139354 AAAGACCCTCGAGTTTGATTACACTCAGCTTCGAG
130 AAAGACCTTCGAGTTTGATTACACTCAGC-TCGAG
* * * * *
139389 GGCACATCATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGTCAA-CAAAGACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTG-CAACCAAAGACCTTCGAGTT
* *
139453 CGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
65 CGACTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGC
* *
139518 CAAAGACCTTCGAGTTTGATTCCATTCAGCTCGAG
129 CAAAGACCTTCGAGTTTGATTACACTCAGCTCGAG
139553 GGC
1 GGC
139556 GTATCAACCG
Statistics
Matches: 285, Mismatches: 44, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
164 68 0.24
165 109 0.38
166 3 0.01
168 36 0.13
169 68 0.24
170 1 0.00
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (163 bp):
GGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCAACCAAAGACCTTCGAGTTC
GACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCA
AAGACCTTCGAGTTTGATTACACTCAGCTCGAG
Found at i:139509 original size:249 final size:250
Alignment explanation
Indices: 139057--139520 Score: 689
Period size: 249 Copynumber: 1.8 Consensus size: 250
139047 GAACCAAAGG
*
139057 CACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGCTAACCGAAGACCCTCGAGTTCG
1 CACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTG---ACCAAAGACCCTCGAGTTCG
* * *
139122 ATTACACTCAGCTTCGAGGGCACATCATTTACAGTATAACTCAAGGCTAGAAGGGTTATTTGTGA
63 ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
* * * * * * *
139187 CCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGTATAACTTAAGT
128 ACAAAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGG
* *
139252 CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGA
193 CAAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGA
* * * * *
139310 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGTTATCTG-CCAAAGACCCTCGAGTTTGATT
1 CACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGACCAAAGACCCTCGAGTTCGATT
*
139374 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTATAAGGGTTATCTGTCAAC-
66 ACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACA
* *
139438 AAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCA
131 AAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAACTCAAGGCA
139503 AGAAGGGCTATCTGCCAA
195 AGAAGGGCTATCTGCCAA
139521 AGACCTTCGA
Statistics
Matches: 189, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
248 35 0.19
249 116 0.61
253 38 0.20
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (250 bp):
CACATCATTTGCAGCATAACTTAAATCAAGAAAGGTTATCTGACCAAAGACCCTCGAGTTCGATT
ACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCAACA
AAAGACCTTCGAGTTCGACTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
GAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGA
Found at i:139910 original size:3 final size:3
Alignment explanation
Indices: 139882--139937 Score: 55
Period size: 3 Copynumber: 18.7 Consensus size: 3
139872 CGAAAACATT
*
139882 TTA TTA -TA TTA TATA TTTA TTTA TTA TTA TTA TTA TTA -TA TTT TTA
1 TTA TTA TTA TTA T-TA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
139928 TT- TTA TTA TT
1 TTA TTA TTA TT
139938 TTTTTAGGCC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
2 6 0.13
3 31 0.67
4 8 0.17
5 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:139939 original size:8 final size:8
Alignment explanation
Indices: 139879--139939 Score: 56
Period size: 8 Copynumber: 7.6 Consensus size: 8
139869 CTACGAAAAC
139879 ATTTTATT
1 ATTTTATT
*
139887 ATATTA-T
1 ATTTTATT
139894 ATATTTATT
1 AT-TTTATT
*
139903 -TATTATT
1 ATTTTATT
139910 ATTATTATT
1 ATT-TTATT
139919 ATATTT-TT
1 AT-TTTATT
139927 ATTTTATT
1 ATTTTATT
139935 ATTTT
1 ATTTT
139940 TTTAGGCCCC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 11 0.26
8 21 0.49
9 10 0.23
10 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
ATTTTATT
Found at i:140034 original size:33 final size:33
Alignment explanation
Indices: 139987--140059 Score: 128
Period size: 33 Copynumber: 2.2 Consensus size: 33
139977 TTCAGAAAAT
* *
139987 AAACTAACGTATTTGTGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
140020 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
140053 AAACCAA
1 AAACCAA
140060 AACATTTTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.41, C:0.21, G:0.11, T:0.27
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAACACTA
Found at i:144382 original size:110 final size:110
Alignment explanation
Indices: 144185--145051 Score: 1218
Period size: 110 Copynumber: 8.0 Consensus size: 110
144175 GTGGTTGCTT
* * * *
144185 AACTTCACAGCGAAAGGGCGACTAACGGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* * * *
144250 TCAACTTCACAGTGAAGGATATTGGACTCAAGATAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* *
144295 AACTTCACAGCGAAGGGGCAACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
*
144360 TCAACTTCACAGCGAATAATATTGGACTCGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* *
144405 AACTTCACAGCGAAGGGGCGGCTGACTATCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* *
144470 TCAACTTCACAGCGAAAGATATTGGACTCAAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* *
144515 AA-TTTACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
*
144579 TCAACTTCACAGAGAATGATATTGGACTCGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
*
144624 AACTTCACAGCGAAGGGGCGACTGACTGTCAATAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* * *
144689 TCAAATTCACAACGAA-GTATATTGGACTTGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATG-ATATTGGACTCGAGACAACACAAGCTC
*
144734 AACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* *
144799 TCAACTTCACAGTGAATGATATTAGACTCGAGACAACACAAGCTC
66 TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* * * * *
144844 AACTTTACAGCGAAGGGGCGGCTGGCTGTCAACAAATAAC-TTT-A-TGGT--TTCAGAGTCAAT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGT-TTCATTCAGAGTCAAT
* * * *
144904 TTCAACTTCACGGTGAAGGATATTAGACTCGAGACAACACAAGCTC
65 TTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
* ** * * *
144950 AACTTCACAGCGAAGGGGTGGTTGGCTGTCAACAAATAAC-TTT-A-TGGT--TTCAGAGTCAAT
1 AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGT-TTCATTCAGAGTCAAT
* * * * *
145010 TTCAACTTCACGGCGAAGGATATTGGCCTCGAAACAGCACAA
65 TTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAA
145052 ATATTTGGAT
Statistics
Matches: 698, Mismatches: 55, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
106 150 0.21
107 1 0.00
108 2 0.00
109 106 0.15
110 438 0.63
111 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.24
Consensus pattern (110 bp):
AACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
TCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAGCTC
Found at i:144789 original size:329 final size:330
Alignment explanation
Indices: 144185--144967 Score: 1247
Period size: 329 Copynumber: 2.4 Consensus size: 330
144175 GTGGTTGCTT
* * * *
144185 AACTTCACAGCGAAAGGGCGACTAACGGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTTACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
* *
144250 TCAACTTCACAGTGAAGGATATTGGACTCAAGATAACACAAGCTCAACTTCACAGCGAAGGGGCA
66 TCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCA
* *
144315 ACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAACTTCACAGCGAATAAT
131 ACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAAATTCACAACGAATAAT
*
144380 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTATCAACAAACAAC
196 ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTATCAACAAACAAC
*
144445 TTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTGGACTCAAGACAACACA
261 TTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACA
144510 AGCTC
326 AGCTC
* *
144515 AA-TTTACAGCGAAGGGGCGACTGACTGCCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
1 AACTTTACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
* * *
144579 TCAACTTCACAGAGAATGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCG
66 TCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCA
* *
144644 ACTGACTGTCAATAAACAACTTTTCAGTTTCATTCAGAGTCAATTTCAAATTCACAACGAAGT-A
131 ACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAAATTCACAACGAA-TAA
* * *
144708 TATTGGACTTGAGACAACACAAGCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAA
195 TATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTATCAACAAACAA
* * *
144773 CTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGTGAATGATATTAGACTCGAGACAACAC
260 CTTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACAC
144838 AAGCTC
325 AAGCTC
* * *
144844 AACTTTACAGCGAAGGGGCGGCTGGCTGTCAACAAATAAC-TTT-A-TGGT--TTCAGAGTCAAT
1 AACTTTACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGT-TTCATTCAGAGTCAAT
* *
144904 TTCAACTTCACGGTGAAGGATATTAGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
65 TTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
144968 TGGTTGGCTG
Statistics
Matches: 418, Mismatches: 32, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
326 72 0.17
327 1 0.00
328 2 0.00
329 307 0.73
330 36 0.09
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (330 bp):
AACTTTACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGAGTCAATT
TCAACTTCACAGTGAAGGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCA
ACTGACTGTCAACAAACAACTTTTCAATTTCATTCAGAGTCAATTTCAAATTCACAACGAATAAT
ATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGACTGACTATCAACAAACAAC
TTTTCAGTTTCATTCAGAGTCAATTTCAACTTCACAGCGAAAGATATTAGACTCAAGACAACACA
AGCTC
Found at i:145404 original size:84 final size:82
Alignment explanation
Indices: 145160--145923 Score: 607
Period size: 84 Copynumber: 9.2 Consensus size: 82
145150 CGTGCCCACC
* * * * ** * * * **
145160 AAAGGCCTTCGAGTTTGACTACACTCAGCTCAAAGTAACATAAATTGTAGCATAACTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
*
145225 GAAGGGTTATTTGCCAA
66 GAAGGGTTATCTGCCAA
* * * * * * * *
145242 CCGAAGACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTACAGTATAACTCAAGG
1 --AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA-G
* * *
145307 CT-AGAAGGGTTATCTGTGTCTA
62 TTGAGAAGGGTTATC--TGCCAA
* * * *
145329 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCATGACTTAAATTGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
* *
145394 GAAGGTTTATCTACCAA
66 GAAGGGTTATCTGCCAA
* * * *
145411 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGTC
1 --AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTT
*
145476 GAGAAGGGCTATCTGCC--
64 GAGAAGGGTTATCTGCCAA
* * * * * * * * *
145493 AAAGACCCTT-GAGTTTGATTACACTCAGTTTCGAGGGCACATCATTTACAGCATAACTCAAGGC
1 AAAGA-CCTTCGAGTTCGACTACGCTCAG-CTCCAAGGCACATCATTTGCAGCATAACTTAA-GT
145557 T-AGAAGGGTTATCTGTGACC-A
63 TGAGAAGGGTTATC--TG-CCAA
* * *
145578 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
145643 GAAGGGTTATCTGCCAA
66 GAAGGGTTATCTGCCAA
* * * *
145660 CCAAAGACCTTCGAGTTCGACTACCCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGTC
1 --AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTT
* *
145725 AAGAA-TGTTATCTGCC--
64 GAGAAGGGTTATCTGCCAA
* * * * * * * * * *
145741 AAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTTACGGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAA-GTT
* *
145806 -AGAAGTGTTATCTGTCAA
64 GAGAAGGGTTATCTGCCAA
* * * * * **
145824 CAAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGAC
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTT
* *
145889 AAGAAGGGCTATCTGCC--
64 GAGAAGGGTTATCTGCCAA
145906 AAAGACCTTCGAGTTCGA
1 AAAGACCTTCGAGTTCGA
145924 TTCCATTCAG
Statistics
Matches: 546, Mismatches: 107, Indels: 57
0.77 0.15 0.08
Matches are distributed among these distances:
79 25 0.05
80 48 0.09
81 70 0.13
82 7 0.01
83 22 0.04
84 291 0.53
85 78 0.14
86 1 0.00
87 4 0.01
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (82 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTTGA
GAAGGGTTATCTGCCAA
Found at i:145599 original size:249 final size:249
Alignment explanation
Indices: 145157--145879 Score: 1029
Period size: 249 Copynumber: 2.9 Consensus size: 249
145147 AATCGTGCCC
* * * * * *
145157 ACCAAAGGCCTTCGAGTTTGACTACACTCAGCTCAAAGTA-ACATAAATTGTAGCATAACTTAAG
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAG-ACACATCATTTGTAGCATAGCTTAAG
* *
145221 TCAAGAAGGGTTATTTGCCAACCGAAGACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACAT
65 TCAAGAAGGGTTATCTGCC-A---AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * *
145286 CATTTACAGTATAACTCAAGGCTAGAAGGGTTATCTGTGTCTAAAAGACCTTCGAGTTCGACTAC
126 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
* * * *
145351 GCTCAGCTCTAAGGCATATCATTTGCAGCATGACTTAAATTGAGAAGGTTTATCTACCA
191 GCTCAGCTCAAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCA
*
145410 ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
* * * * *
145475 CGAGAAGGGCTATCTGCCAAAGACCCTTGAGTTTGATTACACTCAGTTTCGAGGGCACATCATTT
66 CAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
145540 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
* * * *
145605 GCTCCAAGGCATATTATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCA
196 GCTCAAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCA
* * * *
145659 ACCAAAGACCTTCGAGTTCGACTACCCTCAGCTTCAAGGCACATCATTTGCAGCATAGCTTAAGT
1 ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
* *
145724 CAAGAA-TGTTATCTGCCAAAGACCCTCGAGTTCAATTACACTCAGCTTCGAGGGCACATCATTT
66 CAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
* * * * * *
145788 ACGGCATAACTCAAGGCTAGAAGTGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTCCACTCA
131 ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
*
145852 GCTCAAAGGCACCATCATTTGCAGCATA
196 GCTCAAAGGCA-TATCATTTGCAGCATA
145880 GCTCAAGACA
Statistics
Matches: 424, Mismatches: 44, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
247 35 0.08
248 99 0.23
249 217 0.51
252 2 0.00
253 71 0.17
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (249 bp):
ACCAAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGACACATCATTTGTAGCATAGCTTAAGT
CAAGAAGGGTTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTT
ACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCA
GCTCAAAGGCATATCATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTACCA
Found at i:147943 original size:166 final size:166
Alignment explanation
Indices: 147667--147999 Score: 515
Period size: 166 Copynumber: 2.0 Consensus size: 166
147657 ACTTTTGAGT
* * * *
147667 ATTCCAATTTCACCCATAAGCTATGAATTTAATTCTAAATTAGCCCTTAAATTTTTTATCATTCT
1 ATTCCAATTTCACCCACAAACTATGAATTTAATTATAAATTAGCCCTTAAATTTTTTATCATTCC
** * *
147732 AATTTCATCCCTAAACTCAACCCTCTTTCTAAATTGATCCCCCAAACTTTTGAATATTCTAATTT
66 AATGACATCCCTAAACTCAACACTCTTTCTAAATTGATCCCCCAAACTTTTAAATATTCTAATTT
147797 TATCCCTCAAATTCATCCAAATATATAATTAGTTTC
131 TATCCCTCAAATTCATCCAAATATATAATTAGTTTC
* * *
147833 ATTCCAATTTCATCCACAAACTATGAATTTAATTATAAATTAGTCCTTAAATTTTTTATGATTCC
1 ATTCCAATTTCACCCACAAACTATGAATTTAATTATAAATTAGCCCTTAAATTTTTTATCATTCC
**
147898 AATGACATCTTTAAACTACAACACTCTTTCTAAATTGAT-CCCCAAACTTTTAAATATTCTAATT
66 AATGACATCCCTAAACT-CAACACTCTTTCTAAATTGATCCCCCAAACTTTTAAATATTCTAATT
* *
147962 TTATCCCTCAAATTCATCCAAATATGTAATTATTTTC
130 TTATCCCTCAAATTCATCCAAATATATAATTAGTTTC
147999 A
1 A
148000 ACCCTAGTTT
Statistics
Matches: 151, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
166 131 0.87
167 20 0.13
ACGTcount: A:0.34, C:0.22, G:0.04, T:0.41
Consensus pattern (166 bp):
ATTCCAATTTCACCCACAAACTATGAATTTAATTATAAATTAGCCCTTAAATTTTTTATCATTCC
AATGACATCCCTAAACTCAACACTCTTTCTAAATTGATCCCCCAAACTTTTAAATATTCTAATTT
TATCCCTCAAATTCATCCAAATATATAATTAGTTTC
Found at i:148178 original size:30 final size:29
Alignment explanation
Indices: 148095--148179 Score: 80
Period size: 30 Copynumber: 2.9 Consensus size: 29
148085 TTATATAATT
* **
148095 ATAGTTTGGGATGAAATTGGAATGTTTAA
1 ATAGTTTGGGATAAAATTGGAATGTAGAA
* * * * *
148124 AAAGTTTGGGGATCAATTTAGAATGTAGACC
1 ATAGTTT-GGGATAAAATTGGAATGTAGA-A
148155 ATAGTTTGGGATAAAATTGGAATGT
1 ATAGTTTGGGATAAAATTGGAATGT
148180 TTAAAAGTTT
Statistics
Matches: 43, Mismatches: 11, Indels: 3
0.75 0.19 0.05
Matches are distributed among these distances:
29 6 0.14
30 31 0.72
31 6 0.14
ACGTcount: A:0.35, C:0.04, G:0.27, T:0.34
Consensus pattern (29 bp):
ATAGTTTGGGATAAAATTGGAATGTAGAA
Found at i:148217 original size:59 final size:60
Alignment explanation
Indices: 148095--148268 Score: 192
Period size: 60 Copynumber: 2.9 Consensus size: 60
148085 TTATATAATT
* *
148095 ATAGTTTGGGATGAAATTGGAATGTTTAAAAAGTTTGGGGA-TCAATTTAGAATG-TAGACC
1 ATAGTTTGGGATGAAATTGGAATGTTT-AAAAGTTTAGGGACT-AATTTAAAATGATAGACC
* * *
148155 ATAGTTTGGGATAAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATGATTG-TC
1 ATAGTTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATGATAGACC
* * ** * **
148214 ATAGATTAGGGATGAAATTGCAACATTTAAAAGCTTAATGACTAATTTAAAATGA
1 ATAG-TTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATGA
148269 GGGTCATACT
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
59 27 0.28
60 71 0.72
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGGAATGTTTAAAAGTTTAGGGACTAATTTAAAATGATAGACC
Found at i:148323 original size:2 final size:2
Alignment explanation
Indices: 148316--148343 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
148306 ATAAAATAAA
148316 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
148344 TGAAATAAAA
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:148849 original size:3 final size:3
Alignment explanation
Indices: 148823--148887 Score: 64
Period size: 3 Copynumber: 21.7 Consensus size: 3
148813 CTACAAAAAC
*
148823 ATT A-T ATT ATAT ATTT ATTT ATT ATT ATT ATT ATT ATT AAT A-T ATT
1 ATT ATT ATT AT-T A-TT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
148869 ATT ATT -TT ATT ATT TTT AT
1 ATT ATT ATT ATT ATT ATT AT
148888 ATGCCCTACA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
2 6 0.11
3 39 0.72
4 8 0.15
5 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:148850 original size:23 final size:22
Alignment explanation
Indices: 148823--148889 Score: 80
Period size: 23 Copynumber: 3.0 Consensus size: 22
148813 CTACAAAAAC
*
148823 ATTATATTATATATTTATTTATT
1 ATTATATTAT-TATTTATATATT
*
148846 ATTATTATTATTATTAATATATT
1 ATTA-TATTATTATTTATATATT
* *
148869 ATTATTTTATTATTTTTATAT
1 ATTATATTATTATTTATATAT
148890 GCCCTACATT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
22 14 0.37
23 18 0.47
24 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTATATTATTATTTATATATT
Found at i:148879 original size:31 final size:30
Alignment explanation
Indices: 148823--148887 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 30
148813 CTACAAAAAC
148823 ATTA-TATTATATATTTATTTATTATTATT
1 ATTATTATTATATATTTATTTATTATTATT
148852 ATTATTATTA-ATATATTA-TTATT-TTATT
1 ATTATTATTATATAT-TTATTTATTATTATT
*
148880 ATTTTTAT
1 ATTATTAT
148888 ATGCCCTACA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
28 12 0.36
29 13 0.39
30 8 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (30 bp):
ATTATTATTATATATTTATTTATTATTATT
Found at i:148882 original size:14 final size:15
Alignment explanation
Indices: 148823--148887 Score: 64
Period size: 14 Copynumber: 4.3 Consensus size: 15
148813 CTACAAAAAC
148823 ATTA-TATTATATATTT
1 ATTATTATTAT-TA-TT
148839 ATTTATTATTATTATT
1 A-TTATTATTATTATT
*
148855 ATTATTAATA-TATT
1 ATTATTATTATTATT
148869 ATTATT-TTATTATT
1 ATTATTATTATTATT
*
148883 TTTAT
1 ATTAT
148888 ATGCCCTACA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
13 2 0.05
14 18 0.42
15 8 0.19
16 4 0.09
17 5 0.12
18 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTATTATTATTATT
Found at i:148974 original size:33 final size:33
Alignment explanation
Indices: 148932--149000 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
148922 TTTAGAAAAT
148932 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
*
148965 AAACCAACGTATTTGATTCCTATTGAAACACTA
1 AAACCAACGTATTTGAGTCCTATTGAAACACTA
148998 AAA
1 AAA
149001 TCGAAGCATT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (33 bp):
AAACCAACGTATTTGAGTCCTATTGAAACACTA
Found at i:149341 original size:84 final size:83
Alignment explanation
Indices: 149116--149821 Score: 696
Period size: 84 Copynumber: 8.5 Consensus size: 83
149106 CGTGGAACCA
* * * * *
149116 AAGGCACGTCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACCAAAGACCTTCGAG
* *
149181 TTCGATTACACTCAGCTTCG
65 TTCGACTACACTCAGC-TCC
* * * * * * **
149201 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGATTATCTGT-GGCCAAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACC-AAAGACCTTCGA
*
149265 GTTCGACTACGCTCAGCTCC
64 GTTCGACTACACTCAGCTCC
* *
149285 AAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTT-CAACCAAAGACCTTCGAG
*
149350 TTCGACTACGCTCAGCTCC
65 TTCGACTACACTCAGCTCC
* * * *
149369 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTT---CCAAAGACCCTCGAGT
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAGT
* * *
149431 TTGATTACACTCTA-CTTCG
66 TCGACTACACTC-AGC-TCC
* * * * * *
149450 AAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTAT-GACCAAAAGACCTTCGA
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACC-AAAGACCTTCGA
*
149514 GTTCGACTCCACTCAGCTCC
64 GTTCGACTACACTCAGCTCC
* * * * *
149534 AAGGTATATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCT-TCAACCAAAGACCTTCGAG
*
149599 TTCGACTACGCTCAGCTCC
65 TTCGACTACACTCAGCTCC
* * * *
149618 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATC-T--GCCAAAGACCCTCGAGT
1 AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAGT
** * *
149680 TAAATTACACTCAGCTTCG
66 TCGACTACACTCAGC-TCC
* * * * *
149699 AGGGCACATCATTTAC-GACATAACTCAAGGCTAGAAGGGTTATCTGTCAA-CAAAGACCTTCGA
1 AAGGCACATCATTTGCAG-CATAACTTAAGTCAAGAAGGGTTATCT-TCAACCAAAGACCTTCGA
* *
149762 GTTCGACTCCACTCAGCTCA
64 GTTCGACTACACTCAGCTCC
* * *
149782 AATGCACCATCATTTGCAGCATAACTCAAGGCAAGAAGGG
1 AAGGCA-CATCATTTGCAGCATAACTTAAGTCAAGAAGGG
149822 CTATATGCGA
Statistics
Matches: 514, Mismatches: 88, Indels: 39
0.80 0.14 0.06
Matches are distributed among these distances:
80 52 0.10
81 78 0.15
82 1 0.00
83 8 0.02
84 283 0.55
85 92 0.18
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (83 bp):
AAGGCACATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTTCAACCAAAGACCTTCGAGT
TCGACTACACTCAGCTCC
Found at i:149508 original size:165 final size:163
Alignment explanation
Indices: 149116--149848 Score: 708
Period size: 165 Copynumber: 4.4 Consensus size: 163
149106 CGTGGAACCA
* * * * * *
149116 AAGGCACGTCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATC-TGCCAACCGAAGACCCTCGA
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTTGCC-A---AAGACCTTCGA
* * * * *
149180 GTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGATTATC
62 GTTCGACTACACTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATC
*
149245 TGTGGCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
127 TGT--CC-AAAGACCTTCGAGTTCGACTACACTCAGCTCC
* * * * * *
149285 AAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTT---GCCAAAGACCTTCGAG
* * * * * *
149350 TTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT
63 TTCGACTACACTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCT
* * * *
149414 -TCCAAAGACCCTCGAGTTTGATTACACTCTA-CTTCG
128 GTCCAAAGACCTTCGAGTTCGACTACACTC-AGC-TCC
* * * *
149450 AAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTATGACCAAAAGACCTTCGAG
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCT-TG-CC-AAAGACCTTCGAG
* * * * * * *
149515 TTCGACTCCACTCAGC-TCCAAGGTATATCATTTGCAGCATAACTTAAGTCGAGAAAGGTTATCT
63 TTCGACTACACTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCT
* *
149579 GCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
128 G---TCCAAAGACCTTCGAGTTCGACTACACTCAGCTCC
* * * * *
149618 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATC-TGCCAAAGACCCTCGAGTTA
1 AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTTGCCAAAGACCTTCGAGTTC
* * * * *
149682 AATTACACTCAGCTTCGAGGGCACATCATTTAC-GACATAACTCAAGGCTAGAAGGGTTATCTGT
66 GACTACACTCAGCTTCCAAGGCACATCATTTACAG-CATAACTCAAGGCGAGAAGGGTTATCTGT
* *
149746 CAACAAAGACCTTCGAGTTCGACTCCACTCAGCTCA
130 C--CAAAGACCTTCGAGTTCGACTACACTCAGCTCC
* * *
149782 AATGCACCATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTAT-ATGCGAAAGACCTTCGAGTT
1 AAGGCA-CATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTTGCCAAAGACCTTCGAGTT
149846 CGA
65 CGA
149849 TTCCATTCAA
Statistics
Matches: 469, Mismatches: 75, Indels: 44
0.80 0.13 0.07
Matches are distributed among these distances:
162 1 0.00
164 85 0.18
165 206 0.44
166 3 0.01
167 1 0.00
168 79 0.17
169 90 0.19
170 1 0.00
172 1 0.00
173 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (163 bp):
AAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTTGCCAAAGACCTTCGAGTTC
GACTACACTCAGCTTCCAAGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGTC
CAAAGACCTTCGAGTTCGACTACACTCAGCTCC
Found at i:149558 original size:249 final size:249
Alignment explanation
Indices: 149116--149821 Score: 1078
Period size: 249 Copynumber: 2.8 Consensus size: 249
149106 CGTGGAACCA
* * * *
149116 AAGGCACGTCATTTGTAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACCGAAGACCCTCGAG
1 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCC-A---AAGACCCTCGAG
*
149181 TTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAG-AAGGATTATC
62 TTAGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGG-TTATC
* * *
149245 TGTGGCCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACT
126 TGTGACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCATATCATTTGCAGCATAACT
*
149310 TAAGTCGAGAAGGGTTATCTTCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
191 TAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
* * *
149369 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCTCGAGTTTG
1 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAG
* *
149434 ATTACACTCTA-CTTCGAAGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTATG
66 ATTACACTC-AGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTG
*
149498 ACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGTATATCATTTGCAGCATAACTTAAG
130 ACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAG
*
149563 TCGAGAAAGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
195 TCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
149618 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAA
1 AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAG
* *
149683 ATTACACTCAGCTTCGAGGGCACATCATTTAC-GACATAACTCAAGGCTAGAAGGGTTATCTGTC
66 ATTACACTCAGCTTCGAGGGCACATCATTTACAG-CATAACTCAAGGCTAGAAAGGTTATCTGTG
* * * * *
149747 AAC-AAAGACCTTCGAGTTCGACTCCACTCAGCTCAAATGCACCATCATTTGCAGCATAACTCAA
130 ACCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCA-TATCATTTGCAGCATAACTTAA
* *
149811 GGCAAGAAGGG
194 GTCGAGAAGGG
149822 CTATATGCGA
Statistics
Matches: 416, Mismatches: 32, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
248 37 0.09
249 331 0.80
250 5 0.01
252 1 0.00
253 42 0.10
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (249 bp):
AAGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCTCGAGTTAG
ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTGA
CCAAAAGACCTTCGAGTTCGACTCCACTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGT
CGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
Found at i:150215 original size:21 final size:20
Alignment explanation
Indices: 150191--150247 Score: 64
Period size: 22 Copynumber: 2.8 Consensus size: 20
150181 CTACAAAAAC
150191 ATTTTA-TTA-TATTATATAT
1 ATTTTATTTATTATTA-ATAT
150210 ATATTTATTTATTATTAATAT
1 AT-TTTATTTATTATTAATAT
150231 ATTTTTATTTTATTATT
1 A-TTTTA-TTTATTATT
150248 TTTGTAGGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
19 2 0.06
20 4 0.12
21 12 0.36
22 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
ATTTTATTTATTATTAATAT
Found at i:150247 original size:25 final size:22
Alignment explanation
Indices: 150191--150246 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
150181 CTACAAAAAC
150191 ATTTTATTA-TATTATATATAT
1 ATTTTATTATTATTATATATAT
150212 A-TTTATTTATTATTA-ATATAT
1 ATTTTA-TTATTATTATATATAT
150233 -TTTTATT-TTATTAT
1 ATTTTATTATTATTAT
150247 TTTTGTAGGC
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
19 6 0.19
20 6 0.19
21 14 0.45
22 5 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
ATTTTATTATTATTATATATAT
Found at i:150348 original size:33 final size:33
Alignment explanation
Indices: 150297--150383 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
150287 TTCAGAAAAT
* * *
150297 AAACTAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACATATTTGAGTCCGATTGAAACACTA
150330 AAACCAACATATTTGAGTCCGATTGAAACACTA
1 AAACCAACATATTTGAGTCCGATTGAAACACTA
150363 AAACCGAAGCAT-TTTGAGTCC
1 AAACC-AA-CATATTTGAGTCC
150384 AAGTAGGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 35 0.71
34 11 0.22
35 3 0.06
ACGTcount: A:0.39, C:0.21, G:0.14, T:0.26
Consensus pattern (33 bp):
AAACCAACATATTTGAGTCCGATTGAAACACTA
Found at i:150799 original size:14 final size:15
Alignment explanation
Indices: 150780--150809 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
150770 TTCATTTTTT
150780 TATTAATA-TTATTA
1 TATTAATATTTATTA
150794 TATTAATATTTATTA
1 TATTAATATTTATTA
150809 T
1 T
150810 TATTCTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTAATATTTATTA
Found at i:152419 original size:17 final size:18
Alignment explanation
Indices: 152386--152419 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
152376 CAATAAAGAA
152386 TAACCAACTTAAACAACT
1 TAACCAACTTAAACAACT
152404 TAACCAACTT-AACAAC
1 TAACCAACTTAAACAAC
152420 CATCCTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (18 bp):
TAACCAACTTAAACAACT
Found at i:154615 original size:14 final size:14
Alignment explanation
Indices: 154596--154648 Score: 106
Period size: 14 Copynumber: 3.8 Consensus size: 14
154586 CTCTTTCGAG
154596 CACTTACATTTCAA
1 CACTTACATTTCAA
154610 CACTTACATTTCAA
1 CACTTACATTTCAA
154624 CACTTACATTTCAA
1 CACTTACATTTCAA
154638 CACTTACATTT
1 CACTTACATTT
154649 AAGTCACTAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (14 bp):
CACTTACATTTCAA
Found at i:157853 original size:20 final size:18
Alignment explanation
Indices: 157816--157849 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
157806 CAATAAAGAA
157816 TAACCAACTTAAACAACC
1 TAACCAACTTAAACAACC
157834 TAACCAACTT-AACAAC
1 TAACCAACTTAAACAAC
157850 AACCATCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (18 bp):
TAACCAACTTAAACAACC
Found at i:158038 original size:2 final size:2
Alignment explanation
Indices: 158031--158064 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
158021 GAGAGTTTGC
158031 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
158065 TCAATTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:163451 original size:2 final size:2
Alignment explanation
Indices: 163444--163468 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
163434 GAAATCATTG
163444 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 A
163469 GTACTGCCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:175084 original size:18 final size:18
Alignment explanation
Indices: 175061--175102 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
175051 ACAAAATAAC
175061 TTAAAACGCAAAATTTCA
1 TTAAAACGCAAAATTTCA
**
175079 TTAAAATTCAAAATTTCA
1 TTAAAACGCAAAATTTCA
175097 TTAAAA
1 TTAAAA
175103 TAACAGGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.12, G:0.02, T:0.33
Consensus pattern (18 bp):
TTAAAACGCAAAATTTCA
Found at i:175103 original size:18 final size:18
Alignment explanation
Indices: 175069--175103 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
175059 ACTTAAAACG
175069 CAAAATTTCATTAAAATT
1 CAAAATTTCATTAAAATT
175087 CAAAATTTCATTAAAAT
1 CAAAATTTCATTAAAAT
175104 AACAGGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
CAAAATTTCATTAAAATT
Found at i:175466 original size:2 final size:2
Alignment explanation
Indices: 175461--175522 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
175451 ACACACACAC
175461 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
175503 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
175523 CATTATTCAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:178420 original size:2 final size:2
Alignment explanation
Indices: 178413--178445 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
178403 TGTTGTACAT
178413 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 T
178446 CATCCATTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:178750 original size:81 final size:81
Alignment explanation
Indices: 178613--179098 Score: 758
Period size: 81 Copynumber: 6.0 Consensus size: 81
178603 TTGACTCTTC
* * * * *
178613 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGTCATAATTAACATCTTTCTTCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
178678 GCACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
* * *
178694 ATTCTTTTACTCAATGGTATTTAACCGTTCATCTAACTGGTATGACTGACACCTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
178759 GCACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
* * * **
178775 ATT-TTTTACTCAACGGTATTTAATCGTTCATCTAACCGGCATAATTGACATTTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
* *
178839 ACACAGTTAGGTCATT
66 GCACAGTTAGGCCATT
*
178855 ATTCTTTTACTCAACGGTATTTAACAGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
*
178920 GTACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
* *
178936 ATTCTTTTACTCAACGGTATTTAACCATTCATCTAACTAGCATGATTGACACCTTTCTGCCAATT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
*
179001 GCACAGTTAGGTCATT
66 GCACAGTTAGGCCATT
* * *
179017 ATTCTTTTACTCAACAGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAGTT
1 ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
179082 GCACAGTTAGGCCATT
66 GCACAGTTAGGCCATT
179098 A
1 A
179099 AAGACACTTA
Statistics
Matches: 366, Mismatches: 38, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
80 70 0.19
81 296 0.81
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.38
Consensus pattern (81 bp):
ATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACCTTTCTGCCAATT
GCACAGTTAGGCCATT
Found at i:179197 original size:68 final size:68
Alignment explanation
Indices: 179044--179233 Score: 245
Period size: 68 Copynumber: 2.8 Consensus size: 68
179034 TATTTAACCG
* * * * *
179044 TTCATCTAACTGGCATGATTGACACATTTCTGCCAGTTGCACAGTTAGGCCATTAAAGACACTTA
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCC-TCAAAGACACTTA
*
179109 GCCT
65 GCAT
* * * * **
179113 TTCATCTAACTGGCATAAATGACACTTTTCTATCAAATGTACAGTTAGGCCTCAAAGGTACTTAG
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTCAAAGACACTTAG
*
179178 TAT
66 CAT
*
179181 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGTCCTC
1 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTC
179234 TTAATCTTTT
Statistics
Matches: 103, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 60 0.58
69 43 0.42
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAGTTAGGCCTCAAAGACACTTAG
CAT
Found at i:179549 original size:58 final size:57
Alignment explanation
Indices: 179484--179602 Score: 159
Period size: 58 Copynumber: 2.1 Consensus size: 57
179474 TTTCATATCT
* ** *
179484 TTTTGCAC-CTAAGGTGCCCAATACGGAAATTCATACACTCAGTATTAATTTCTTAACA
1 TTTTGCACAC-AAAGTGCCCAATACAAAAATTCATACACTCAGTATCAATTTCTTAA-A
* *
179542 TTTTGCACACAAAGTGTCCAATACAAAAATTCATACACTTAGTATCAATTTCTTAAA
1 TTTTGCACACAAAGTGCCCAATACAAAAATTCATACACTCAGTATCAATTTCTTAAA
179599 TTTT
1 TTTT
179603 TTGCACACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
57 5 0.09
58 48 0.89
59 1 0.02
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.35
Consensus pattern (57 bp):
TTTTGCACACAAAGTGCCCAATACAAAAATTCATACACTCAGTATCAATTTCTTAAA
Found at i:179656 original size:19 final size:19
Alignment explanation
Indices: 179632--179674 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
179622 TGGTAATCAC
179632 CATACTTACATTAAAAAAT
1 CATACTTACATTAAAAAAT
*
179651 CATACTTACATTAATAAAT
1 CATACTTACATTAAAAAAT
179670 CATAC
1 CATAC
179675 AACTAGGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.33
Consensus pattern (19 bp):
CATACTTACATTAAAAAAT
Found at i:179928 original size:12 final size:12
Alignment explanation
Indices: 179911--179940 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
179901 ATTATTATCT
179911 CAATTTCTATAA
1 CAATTTCTATAA
179923 CAATTTCTATAA
1 CAATTTCTATAA
179935 CAATTT
1 CAATTT
179941 TAACCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (12 bp):
CAATTTCTATAA
Found at i:180133 original size:95 final size:95
Alignment explanation
Indices: 179995--180192 Score: 324
Period size: 95 Copynumber: 2.1 Consensus size: 95
179985 CACCGGTAAT
* * * * * *
179995 GATACTTCTATACTATGGTACTAATACCCCCTTCCGGTATCGATACCAATTTTAGGTTCGATGTT
1 GATACTACCATACTATGGTACCAATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
180060 GCCTGGTATCGATACCCTTACCATGATATC
66 GCCTGGTATCGATACCCTTACCATGATATC
*
180090 GATACTACCATACTATGGTACCGATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
1 GATACTACCATACTATGGTACCAATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
*
180155 GCCTGGTATCGATACCCTTACCATGGTATC
66 GCCTGGTATCGATACCCTTACCATGATATC
180185 GATACTAC
1 GATACTAC
180193 TCAGCTAATT
Statistics
Matches: 95, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (95 bp):
GATACTACCATACTATGGTACCAATACCCACTTCCGGTATCGATACCAATTTTAGATTCGATGTG
GCCTGGTATCGATACCCTTACCATGATATC
Found at i:184480 original size:81 final size:81
Alignment explanation
Indices: 184345--184909 Score: 756
Period size: 81 Copynumber: 7.0 Consensus size: 81
184335 ATTTGACCCT
** * * *
184345 TTATTCTTTTACTCAACAATATTTAATCGTTCAACTAACTGGCATGATTAACACATTTCTGCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
184410 TTGCATAGTTAGGCCA
66 TTGCACAGTTAGGCCA
* * * *
184426 TTATTCGTTTACTCAATGGTATTTAACCGTTCATCTAACTGGAATGATTGACACATTTCTACCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
184491 TTGCACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
* * * * *
184507 TTATTCTTTTACTCAACGGTATTTAATCGTTCATCTAACTAGCATGATTGACACCTTTTTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
184572 TTGCACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
* *
184588 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTTGCATGATTGACACATCTCTGCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
184653 TTGCACAGTTAGGCCA
66 TTGCACAGTTAGGCCA
** ** * * *
184669 TTATTCTTTTACTCAACAATATTTAATTGTTCATCTAATTGTCATGATTGACACATTTCTTCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
184734 TTGCACAGTTAGACCAA
66 TTGCACAGTTAGGCC-A
* * * * * *
184751 TT-TTCTTTTAATCAAC-GTATTTAACCGTTCATCTAACTGACATGATTAAAACCTTTCTGTCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
184814 TTGCACAATTAGGCCA
66 TTGCACAGTTAGGCCA
* * * * * *
184830 TTATTCTTTTACTCAATGGCATTTAACTGTTCATCTCACTGGCATGATTGACACCTTTCTTCCAA
1 TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
*
184895 TTGAACAGTTAGGCC
66 TTGCACAGTTAGGCC
184910 TCAAAGGCAC
Statistics
Matches: 421, Mismatches: 60, Indels: 6
0.86 0.12 0.01
Matches are distributed among these distances:
79 3 0.01
80 62 0.15
81 353 0.84
82 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (81 bp):
TTATTCTTTTACTCAACGGTATTTAACCGTTCATCTAACTGGCATGATTGACACATTTCTGCCAA
TTGCACAGTTAGGCCA
Found at i:184950 original size:68 final size:68
Alignment explanation
Indices: 184859--185115 Score: 372
Period size: 68 Copynumber: 3.8 Consensus size: 68
184849 CATTTAACTG
* * * * * * *
184859 TTCATCTCACTGGCATGATTGACACCTTTCT-TCCAATTGAACAGTTAGGCCTCAAAGGCACTTA
1 TTCATCTAACTGGCATAAATGACACTTTTATGT-CAAATGCACAGTTAGGCCTCAAAGGCACTTA
184923 GCCT
65 GCCT
* *
184927 TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACATTTAGGCCTCAAAGGCACATAG
1 TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
184992 CCT
66 CCT
*
184995 TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACAGTTAGGCCACAAAGGCACTTAG
1 TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
185060 CCT
66 CCT
* * * *
185063 TTCATCTAACTGGCATAAATGACACATTTCTGTCAATTGCACAATTAGGCCTC
1 TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACAGTTAGGCCTC
185116 TTAATCTTTT
Statistics
Matches: 171, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
68 170 0.99
69 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (68 bp):
TTCATCTAACTGGCATAAATGACACTTTTATGTCAAATGCACAGTTAGGCCTCAAAGGCACTTAG
CCT
Found at i:192632 original size:21 final size:21
Alignment explanation
Indices: 192607--192700 Score: 93
Period size: 21 Copynumber: 4.4 Consensus size: 21
192597 CACTGAAGTG
*
192607 CCACATAATTGTCCCGAATGA
1 CCACATAATTGTCCCGAAGGA
*
192628 CCACATAGGTT-TGCACCGAAGTG-
1 CCACATA-ATTGT-C-CCGAAG-GA
* *
192651 TCACATATTTGTCCCGAAGGA
1 CCACATAATTGTCCCGAAGGA
*
192672 CCACATAATTGTCCCGGAGGA
1 CCACATAATTGTCCCGAAGGA
192693 CCACATAA
1 CCACATAA
192701 AACCCTCGAC
Statistics
Matches: 60, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 40 0.67
22 6 0.10
23 12 0.20
24 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (21 bp):
CCACATAATTGTCCCGAAGGA
Found at i:192643 original size:44 final size:44
Alignment explanation
Indices: 192593--192678 Score: 136
Period size: 44 Copynumber: 2.0 Consensus size: 44
192583 CAACTCGTAA
* *
192593 TTTGCACTGAAGTGCCACATAATTGTCCCGAATGACCACATAGG
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
* *
192637 TTTGCACCGAAGTGTCACATATTTGTCCCGAAGGACCACATA
1 TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATA
192679 ATTGTCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.26
Consensus pattern (44 bp):
TTTGCACCGAAGTGCCACATAATTGTCCCGAAGGACCACATAGG
Found at i:193661 original size:42 final size:42
Alignment explanation
Indices: 193560--193661 Score: 134
Period size: 42 Copynumber: 2.4 Consensus size: 42
193550 TACCATACCC
*
193560 ATGGTATCGATAATACCAGCTCAGTATCGATACCTCCTTCAA
1 ATGGTATCGATAATACCTGCTCAGTATCGATACCTCCTTCAA
* * * *
193602 ATGGTATCGATATTACCTGTTCAGTATCTATACCTTCTTCAA
1 ATGGTATCGATAATACCTGCTCAGTATCGATACCTCCTTCAA
*
193644 ACT-GTATCGATACTACCT
1 A-TGGTATCGATAATACCT
193662 TTAACAAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 52 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (42 bp):
ATGGTATCGATAATACCTGCTCAGTATCGATACCTCCTTCAA
Found at i:196183 original size:3 final size:3
Alignment explanation
Indices: 196175--196220 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
196165 AGATAGAGAT
196175 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
196221 AAATGACCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:205397 original size:18 final size:18
Alignment explanation
Indices: 205339--205398 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
205329 GTTCTAATTA
205339 AAGAAAATAATTTAAAGT
1 AAGAAAATAATTTAAAGT
* *
205357 AA-AAGAATAA-ATAAATT
1 AAGAA-AATAATTTAAAGT
* *
205374 AGGAAAATAATTTAAAGG
1 AAGAAAATAATTTAAAGT
205392 AAGAAAA
1 AAGAAAA
205399 ATTTAAAATA
Statistics
Matches: 32, Mismatches: 7, Indels: 6
0.71 0.16 0.13
Matches are distributed among these distances:
17 13 0.41
18 19 0.59
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.22
Consensus pattern (18 bp):
AAGAAAATAATTTAAAGT
Done.