Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005371.1 Hibiscus syriacus cultivar Beakdansim tig00012213_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: 362493
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:4331 original size:44 final size:43
Alignment explanation
Indices: 4173--4426 Score: 217
Period size: 43 Copynumber: 5.9 Consensus size: 43
4163 TGTGTACAAA
* ** * *
4173 AAACGCCGCAATAGGTGACGATATATAGCGGC-TTTTGT-TCAC
1 AAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTT-TCTTAC
* * * *
4215 AAAACGCCGCAATAGGTGTTGCTATGTAGCGGCGTTTTTATTAC
1 -AAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTTTCTTAC
* * *
4259 AAACGCTGCAATAGATGTTGATGTTTAGCGGCATTTTTCTTAC
1 AAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTTTCTTAC
* **
4302 AAACGCCGCAAATAGATGTTGATCTTTAGCGGCGTTTTTCCCAC
1 AAACGCCGC-AATAGATGTTGATATTTAGCGGCGTTTTTCTTAC
** * * * * * * **
4346 AAACATCGCAGTAGTTGTTTATATTTAGCGACGCTTTTATCGC
1 AAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTTTCTTAC
*
4389 AAACGCCGCAATA-ATTGTTGAGATTTAGCGGCGTTTTT
1 AAACGCCGCAATAGA-TGTTGATATTTAGCGGCGTTTTT
4427 TCCACACAAG
Statistics
Matches: 171, Mismatches: 36, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
43 127 0.74
44 44 0.26
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (43 bp):
AAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTTTCTTAC
Found at i:4348 original size:87 final size:86
Alignment explanation
Indices: 4211--4432 Score: 214
Period size: 87 Copynumber: 2.6 Consensus size: 86
4201 CGGCTTTTGT
* * * ** *
4211 TCACAAAACGCCGCAATAGGTGTTGCTATGTAGCGGCGTTTTTATTACAAAC-GCTGCAATAGAT
1 TCAC-AAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTTTACCACAAACATC-GCAATAGAT
* * * *
4275 GTTGATGTTTAGCGGCATTTTTC
64 GTTGATATTTAGCGACACTTTTA
* * * * *
4298 TTACAAACGCCGCAAATAGATGTTGATCTTTAGCGGCGTTTTTCCCACAAACATCGCAGTAGTTG
1 TCACAAACGCCGC-AATAGATGTTGATATTTAGCGGCGTTTTTACCACAAACATCGCAATAGATG
* *
4363 TTTATATTTAGCGACGCTTTTA
65 TTGATATTTAGCGACACTTTTA
* * *
4385 TCGCAAACGCCGCAATA-ATTGTTGAGATTTAGCGGCGTTTTTTCCACA
1 TCACAAACGCCGCAATAGA-TGTTGATATTTAGCGGCGTTTTTACCACA
4433 CAAGCCGCAA
Statistics
Matches: 110, Mismatches: 22, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
85 1 0.01
86 39 0.35
87 69 0.63
88 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (86 bp):
TCACAAACGCCGCAATAGATGTTGATATTTAGCGGCGTTTTTACCACAAACATCGCAATAGATGT
TGATATTTAGCGACACTTTTA
Found at i:4464 original size:86 final size:86
Alignment explanation
Indices: 4301--4469 Score: 184
Period size: 86 Copynumber: 2.0 Consensus size: 86
4291 ATTTTTCTTA
** * *
4301 CAAACGCCGCAAATAGATGTTGATCTTTAGCGGCGTTTTTCCCACAAACATCGCAGTAGTTGTTT
1 CAAACGCCGCAAATAGATGTTGAGATTTAGCGGCGTTTTTCCCACAAACA-CGCAATAGTTGTTG
* *
4366 ATATTTAGCGACGCTTTTATCG
65 AGATTTACCGACGCTTTTATCG
*
4388 CAAACGCCGC-AATA-ATTGTTGAGATTTAGCGGCGTTTTTTCCACACAAGC-CGCAATA-TGTG
1 CAAACGCCGCAAATAGA-TGTTGAGATTTAGCGGCG-TTTTTCC-CACAAACACGCAATAGT-TG
* *
4449 TTGAGATTTCCCGACGTTTTT
62 TTGAGATTTACCGACGCTTTT
4470 TCATACAAAG
Statistics
Matches: 69, Mismatches: 9, Indels: 9
0.79 0.10 0.10
Matches are distributed among these distances:
85 2 0.03
86 44 0.64
87 17 0.25
88 6 0.09
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (86 bp):
CAAACGCCGCAAATAGATGTTGAGATTTAGCGGCGTTTTTCCCACAAACACGCAATAGTTGTTGA
GATTTACCGACGCTTTTATCG
Found at i:4926 original size:20 final size:22
Alignment explanation
Indices: 4901--4947 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
4891 ATGCTGCTTT
4901 TCTGTGC-T-GTTACTGCTCTC
1 TCTGTGCTTCGTTACTGCTCTC
*
4921 TCTGTGCTTCCGTTGCTGCTCTC
1 TCTGTGCTT-CGTTACTGCTCTC
4944 TCTG
1 TCTG
4948 CTTCCCTTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 7 0.30
21 1 0.04
23 15 0.65
ACGTcount: A:0.02, C:0.32, G:0.21, T:0.45
Consensus pattern (22 bp):
TCTGTGCTTCGTTACTGCTCTC
Found at i:4944 original size:21 final size:20
Alignment explanation
Indices: 4914--4958 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
4904 GTGCTGTTAC
* *
4914 TGCTCTCTCTGTGCTTCCGT
1 TGCTCTCTCTCTGCTTCCCT
4934 TGCTGCTCTCTCTGCTTCCCT
1 TGCT-CTCTCTCTGCTTCCCT
4955 TGCT
1 TGCT
4959 TCATTTTCCG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.00, C:0.38, G:0.18, T:0.44
Consensus pattern (20 bp):
TGCTCTCTCTCTGCTTCCCT
Found at i:7745 original size:41 final size:41
Alignment explanation
Indices: 7707--7833 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 41
7697 ATGACTATAT
7707 ATTAACATTTTGCGGCGTTTATACAAAAAACACCACTATTG
1 ATTAACATTTTGCGGCGTTTATACAAAAAACACCACTATTG
* * * **
7748 ATT-ACACTATTGTGGCGTTTGTTA-AAAAAATGCCACTATTG
1 ATTAACA-TTTTGCGGCGTTT-ATACAAAAAACACCACTATTG
* **
7789 ATTAACATTATTGCGGCGTTTAT-CTAAAAACGTCACTATTG
1 ATTAACATT-TTGCGGCGTTTATACAAAAAACACCACTATTG
7830 ATTA
1 ATTA
7834 TACTATTACG
Statistics
Matches: 70, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
40 3 0.04
41 52 0.74
42 15 0.21
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (41 bp):
ATTAACATTTTGCGGCGTTTATACAAAAAACACCACTATTG
Found at i:7865 original size:82 final size:82
Alignment explanation
Indices: 7707--7868 Score: 191
Period size: 82 Copynumber: 2.0 Consensus size: 82
7697 ATGACTATAT
** * * **
7707 ATTAACATTTTGCGGCGTTTATACAAAAAACACCACTATTGATTACACTATTGTGGCGTTTGTTA
1 ATTAACATTTTGCGGCGTTTATACAAAAAACACCACTATTGATTACACTATTACGACATTTGAGA
*
7772 AAAAAATGCCACTATTG
66 AAAAAACGCCACTATTG
* ** *
7789 ATTAACATTATTGCGGCGTTTAT-CTAAAAACGTCACTATTGATTATACTATTACGACATTTGAG
1 ATTAACATT-TTGCGGCGTTTATACAAAAAACACCACTATTGATTACACTATTACGACATTTGAG
* *
7853 GAATAAACGCCACTAT
65 AAAAAAACGCCACTAT
7869 ATGTGTATAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
82 53 0.80
83 13 0.20
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (82 bp):
ATTAACATTTTGCGGCGTTTATACAAAAAACACCACTATTGATTACACTATTACGACATTTGAGA
AAAAAACGCCACTATTG
Found at i:7931 original size:42 final size:42
Alignment explanation
Indices: 7879--8099 Score: 210
Period size: 42 Copynumber: 5.4 Consensus size: 42
7869 ATGTGTATAA
*
7879 TATTACGGTGTTTTTGGTATAAACGCCGCTAATTTACCACTC
1 TATTGCGGTGTTTTTGGTATAAACGCCGCTAATTTACCACTC
* * *
7921 TATT-CTGGTG-TTTTGGCTA-AATCGCCGCAAAATTTA-TACTC
1 TATTGC-GGTGTTTTTGG-TATAAACGCCGC-TAATTTACCACTC
* *
7962 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCA-T-
1 TATTGCGGTGTTTTTGGTATAAACGCCGCTAATTTACCACTC
* * *
8002 TATTGCGGTG-TTTTGGCTA-AATCGCCGCAAAATTTA-TACTC
1 TATTGCGGTGTTTTTGG-TATAAACGCCGC-TAATTTACCACTC
* *
8043 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCAC-C
1 TATTGCGGTGTTTTTGGTATAAACGCCGCTAATTTACCACTC
*
8084 ATATTGCGGCGTTTTT
1 -TATTGCGGTGTTTTT
8100 ACAAAACCGC
Statistics
Matches: 145, Mismatches: 19, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
39 14 0.10
40 18 0.12
41 53 0.37
42 60 0.41
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (42 bp):
TATTGCGGTGTTTTTGGTATAAACGCCGCTAATTTACCACTC
Found at i:8032 original size:81 final size:83
Alignment explanation
Indices: 7879--8082 Score: 351
Period size: 81 Copynumber: 2.5 Consensus size: 83
7869 ATGTGTATAA
* * *
7879 TATTACGGTGTTTTTGGTATAAACGCCGCTAATTTACCACTCTATTCTGGTGTTTTGGCTAAATC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTCTGGTGTTTTGGCTAAATC
7944 GCCGCAAAATTTATACTC
66 GCCGCAAAATTTATACTC
7962 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCA-T-TATTGC-GGTGTTTTGGCTAAAT
1 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATT-CTGGTGTTTTGGCTAAAT
8024 CGCCGCAAAATTTATACTC
65 CGCCGCAAAATTTATACTC
8043 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCAC
1 TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCAC
8083 CATATTGCGG
Statistics
Matches: 116, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
81 78 0.67
82 2 0.02
83 36 0.31
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.36
Consensus pattern (83 bp):
TATTGCGGCGTTTGTGGTATAAACGCCGCTAATTTACCACTCTATTCTGGTGTTTTGGCTAAATC
GCCGCAAAATTTATACTC
Found at i:9039 original size:41 final size:41
Alignment explanation
Indices: 8989--9202 Score: 225
Period size: 41 Copynumber: 5.2 Consensus size: 41
8979 AATACTATAC
* * *
8989 TTTAGTGGCATTTGTATAAAAACGCCGCTAAAGAATCGTAA
1 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAA
* * *
9030 TGTAGTGGCATTTTTATACAAACGCCGCTATAA-ACTAGTAT
1 TTTAGTGGCATTTTTATACAAACGCCGCTA-AAGACTCGTAA
* * *
9071 TTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
1 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAA
* * * * *
9112 TTTAGTGGCGTTTTTACACAAACGCCGCTATAGACACGTAC
1 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAA
* * * *
9153 TTCT-GTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTAC
1 TT-TAGTGGCATTTTTATA-CAAACGCCGCTAAAGACTCGTAA
9195 TTTAGTGG
1 TTTAGTGG
9203 TTTAATACCA
Statistics
Matches: 152, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.01
41 120 0.79
42 31 0.20
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (41 bp):
TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCGTAA
Found at i:9095 original size:82 final size:82
Alignment explanation
Indices: 8966--9202 Score: 284
Period size: 82 Copynumber: 2.9 Consensus size: 82
8956 GCGTTTTTGA
* * * * * * *
8966 ACAAACGCCG-TAAAATACTA-TACTTTAGTGGCATTTGTATAAAAACGCCGCTAAAGAATCGTA
1 ACAAACGCCGCTATAA-ACTAGTATTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTA
* * *
9029 ATGTAGTGGCATTTTTAT
65 CTTTAGTGGCATTTTTAC
9047 ACAAACGCCGCTATAAACTAGTATTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
1 ACAAACGCCGCTATAAACTAGTATTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
*
9112 TTTAGTGGCGTTTTTAC
66 TTTAGTGGCATTTTTAC
* * *
9129 ACAAACGCCGCTATAGAC-ACGTACTTCT-GTGGCGTTTTAATACCAAACGCCGCTATAGACTCG
1 ACAAACGCCGCTATAAACTA-GTA-TTTTAGTGGCGTTTTTATA-CAAACGCCGCTATAGACTCG
9192 TACTTTAGTGG
63 TACTTTAGTGG
9203 TTTAATACCA
Statistics
Matches: 137, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
81 15 0.11
82 88 0.64
83 34 0.25
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (82 bp):
ACAAACGCCGCTATAAACTAGTATTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCGTAC
TTTAGTGGCATTTTTAC
Found at i:14868 original size:43 final size:43
Alignment explanation
Indices: 14807--15178 Score: 307
Period size: 43 Copynumber: 8.7 Consensus size: 43
14797 AAGGTAATTA
* * * *
14807 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
* *
14850 GCGGCGTTTGTGTTCAAAAACGCTGTTATAGGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
* * * *
14893 GCAGCGTTTGTGTCCAAAAACGCCGTTATAAGTCTGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
14936 GCGGCG-TT-TGTTCTAAAAACGCCAG-TATAGGTCTG-CTCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCC-GCTATAGGTCTGAC-CTTTT
* *
14978 GCGGCGTTTGT-ATCAAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTATAGGTCTGACCTTTT
* * ** * *
15021 GCGGTGTTT-T-TTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCTATAGGTC-TGACCTTTT
* * *
15064 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTT
1 GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCT-GACCTTTT
* * * * *
15107 GCGACG-TT-TGTTCAAAAAACGACG-TAATAGATATTGACCTATT
1 GCGGCGTTTGTGTTC-AAAAACGCCGCT-ATAGGT-CTGACCTTTT
* **
15150 GCGGCGTTTTTTGTTCTCAAACGCCGCTA
1 GCGGCG-TTTGTGTTCAAAAACGCCGCTA
15179 ACTTTAGCGG
Statistics
Matches: 272, Mismatches: 39, Indels: 34
0.79 0.11 0.10
Matches are distributed among these distances:
41 6 0.02
42 58 0.21
43 186 0.68
44 6 0.02
45 10 0.04
46 6 0.02
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (43 bp):
GCGGCGTTTGTGTTCAAAAACGCCGCTATAGGTCTGACCTTTT
Found at i:14983 original size:128 final size:128
Alignment explanation
Indices: 14807--15159 Score: 378
Period size: 128 Copynumber: 2.7 Consensus size: 128
14797 AAGGTAATTA
* *
14807 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGTTC-AAAAAC
1 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGT-ATCAAAAAAC
* * * * *
14871 GCTGTTATAGGTCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGTTATA-AGTC-TGACCTT
64 GCCGCTATAGATCTGACCTTTTGCAGCGTTT-TGTCCAAAAACGCCGCTATATA-TCATAACCTT
14934 TT
127 TT
*
14936 GCGGCGTTTGTTCTAAAAACGCCAG-TATAGGTCTG-CTCTTTTGCGGCGTTTGTATCAAAAAAC
1 GCGGCGTTTGTTCCAAAAACGCC-GCTATAGGTCTGACT-TTTTGCGGCGTTTGTATCAAAAAAC
* * * * * *
14999 GCCGCTATAGATCTGACCTTTTGCGGTGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTT
64 GCCGCTATAGATCTGACCTTTTGCAGCGTTTTGTCCAAAAACGCCGCTATATATCATAACCTTTT
* * * *
15064 GCGGCGTTTGTTCCAAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGT-TCAAAAAACG
1 GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCT-GACTTTTTGCGGCGTTTGTATCAAAAAACG
* * * *
15128 ACG-TAATAGATATTGACCTATTGCGGCGTTTT
65 CCGCT-ATAGAT-CTGACCTTTTGCAGCGTTTT
15160 TTGTTCTCAA
Statistics
Matches: 191, Mismatches: 23, Indels: 20
0.82 0.10 0.09
Matches are distributed among these distances:
127 24 0.13
128 123 0.64
129 43 0.23
130 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.34
Consensus pattern (128 bp):
GCGGCGTTTGTTCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCAAAAAACGC
CGCTATAGATCTGACCTTTTGCAGCGTTTTGTCCAAAAACGCCGCTATATATCATAACCTTTT
Found at i:14997 original size:85 final size:85
Alignment explanation
Indices: 14807--15127 Score: 366
Period size: 85 Copynumber: 3.8 Consensus size: 85
14797 AAGGTAATTA
* * *
14807 GCGGCGTTTATATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
* *
14871 GCTGTTATAGGTCTGAC-CTTTT
64 GCCGCTATAGGTCTG-CTCTTTT
* * *
14893 GCAGCGTTTGTGTCCAAAAACGCCGTTATA-AGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGA-TCTGACCTTTTGCGGCGTTTGTTCTAAAAACG
14957 CCAG-TATAGGTCTGCTCTTTT
65 CC-GCTATAGGTCTGCTCTTTT
* * * *
14978 GCGGCGTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGTGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
** *
15043 CGCTATATATCATAACT-TTTT
66 CGCTATAGGTC-T-GCTCTTTT
* * *
15064 GCGGCGTTTGT-TCCAAAAACGCCGCTATAGATATCGACCTTTTGCGACGTTTGTTCAAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTTGTTCTAAAAACG
15128 ACGTAATAGA
Statistics
Matches: 202, Mismatches: 24, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
84 2 0.01
85 108 0.53
86 90 0.45
87 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.34
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CGCTATAGGTCTGCTCTTTT
Found at i:22335 original size:18 final size:18
Alignment explanation
Indices: 22312--22351 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22302 TGGTTCGGTT
*
22312 AATTCAGTTTTCGT-GATC
1 AATTCAGCTTTC-TCGATC
22330 AATTCAGCTTTCTCGATC
1 AATTCAGCTTTCTCGATC
22348 AATT
1 AATT
22352 TCTAAATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (18 bp):
AATTCAGCTTTCTCGATC
Found at i:32459 original size:229 final size:228
Alignment explanation
Indices: 32054--32540 Score: 875
Period size: 229 Copynumber: 2.1 Consensus size: 228
32044 GTAAATTATC
* * * *
32054 TATCCTTTTTATAAAAGTGTTCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
32119 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
32184 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
*
32249 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTTAAAAAAAGTATA
*
32282 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
32347 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
*
32412 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATT
32477 GAAACATAAATTACATAACTTTAAAAAAAGTATA
195 GAAACATAAATTACATAACTTTAAAAAAAGTATA
*
32511 TATCATTTTTATAAAAGTGTCTATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
32541 AAAAGTAGGT
Statistics
Matches: 248, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
228 35 0.14
229 213 0.86
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (228 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAAGTATA
Found at i:32841 original size:20 final size:19
Alignment explanation
Indices: 32818--32864 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 19
32808 CGATATACCA
32818 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
32838 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
32858 GGTAAAA
1 GGTAAAA
32865 CGTTACCGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.55, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:32975 original size:181 final size:181
Alignment explanation
Indices: 32607--33077 Score: 669
Period size: 180 Copynumber: 2.6 Consensus size: 181
32597 AATCCAAATT
* * * * *
32607 AAAAATGTGTCGATTCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATA-GAAATGAT
1 AAAAATGTATCGA-TCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTA-ACAAAATGAT
* * * * * *
32671 AAAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
64 AAAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* * *
32736 CGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
129 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
*
32789 AAAAATGTATCGATCCAAACGATATACCAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
1 AAAAATGTATCGATCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
* *
32854 AACCGGTAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTTTG
66 AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
** *
32918 TGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
131 TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * *
32969 AAAAA-ATATTGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCA-AACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATA
* *
33033 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
65 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
33078 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 26, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
179 9 0.03
180 157 0.60
181 83 0.32
182 12 0.05
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (181 bp):
AAAAATGTATCGATCCAAACGATATAACAGGTAAAAATATGATAAAACCGGTAACAAAATGATAA
AACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:33021 original size:20 final size:19
Alignment explanation
Indices: 32998--33044 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
32988 CGATATAACA
32998 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
33018 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
33038 GGTAAAA
1 GGTAAAA
33045 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:33046 original size:17 final size:19
Alignment explanation
Indices: 33007--33049 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
32997 AGGTAAAAAT
33007 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
33027 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
33044 ATGATA
1 ATGATA
33050 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:35299 original size:21 final size:21
Alignment explanation
Indices: 35272--35336 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
35262 AAGACAATCA
*
35272 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
35293 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
35314 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
35335 AG
1 AG
35337 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:35411 original size:32 final size:33
Alignment explanation
Indices: 35370--35434 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
35360 AAATAGATGG
*
35370 AGTGGTGAAAGAAGTAGAGGTG-TGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
35402 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
35435 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 20 0.69
33 9 0.31
ACGTcount: A:0.29, C:0.00, G:0.49, T:0.22
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:37247 original size:19 final size:19
Alignment explanation
Indices: 37223--37269 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
37213 AATGTAGGGT
37223 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
37242 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
37261 T--TTTTGTAT
1 TAATTTTGTAT
37270 GTGAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 8 0.30
19 19 0.70
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:37850 original size:198 final size:199
Alignment explanation
Indices: 37404--38139 Score: 1341
Period size: 199 Copynumber: 3.7 Consensus size: 199
37394 GTGCACCCAT
* * *
37404 AAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* * * *
37469 CCGGTACAAGTCTACCGGTTTTATGAGAGAATGTGTCTAAATAATGTGTCGACACTAATATAGTT
65 CCGGTACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTT
37534 TGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
130 TGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
37599 TATAA
195 TATAA
37604 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
37669 CGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTT
37734 GTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATAT
131 GTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATAT
37798 ATAA
196 ATAA
*
37802 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAGTGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
37867 CGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTT
37932 GTGTCGATATTTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
131 GTGTCGATA-TTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
37997 TATAA
195 TATAA
38002 AAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
1 AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
*
38066 CGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATATAGTTT
66 CGGTACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTT
38131 GTGTCGATA
131 GTGTCGATA
38140 CTAATTTAAA
Statistics
Matches: 520, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
198 195 0.38
199 230 0.44
200 95 0.18
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
AAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAAC
CGGTACAATTATACCGGTTTTATGAGAGAATATGTATAAATAATGTGTCGACACTAATATAGTTT
GTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATAT
ATAA
Found at i:38126 original size:23 final size:23
Alignment explanation
Indices: 38100--38151 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
38090 AGATAATATG
38100 TATAAATAATGTGTCGACACTAA
1 TATAAATAATGTGTCGACACTAA
* * *
38123 TAT-AGT-TTGTGTCGATACTAA
1 TATAAATAATGTGTCGACACTAA
*
38144 TTTAAATA
1 TATAAATA
38152 TCAAGTGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.68
22 4 0.18
23 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (23 bp):
TATAAATAATGTGTCGACACTAA
Found at i:38138 original size:397 final size:398
Alignment explanation
Indices: 37404--38139 Score: 1386
Period size: 397 Copynumber: 1.9 Consensus size: 398
37394 GTGCACCCAT
37404 AAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
* *
37469 CCGGTACAAGTCTACCGGTTTTATGAGAGAATGTGTCTAAATAATGTGTCGACACTAATATAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTT
37534 TGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
131 TGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
37599 TATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAAT
196 TATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAAT
37664 CTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATAT
261 CTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATAT
37729 AGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCC
326 AGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCC
37794 ATATATAA
391 ATATATAA
* * * *
37802 AAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTATAGTGTAATATGTAATTTTTCAATCTAA
1 AAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
*
37866 CCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTT
66 CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTT
37931 TGTGTCGATATTTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCAT
131 TGTGTCGATA-TTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCAT
37996 ATATAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAA
195 ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAA
38060 TCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATA
260 TCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATA
38125 TAGTTTGTGTCGATA
325 TAGTTTGTGTCGATA
38140 CTAATTTAAA
Statistics
Matches: 330, Mismatches: 7, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
397 234 0.71
398 96 0.29
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (398 bp):
AAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATCTAA
CCGGTACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTT
TGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATA
TATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAAT
CTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAATAATGTGTCGACACTAATAT
AGTTTGTGTCGATATTTTTTTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCC
ATATATAA
Found at i:39622 original size:18 final size:18
Alignment explanation
Indices: 39599--39660 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
39589 AACGGTCGCA
39599 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
39617 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
39635 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
39653 GAAGATGA
1 GAAGATGA
39661 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:39623 original size:6 final size:6
Alignment explanation
Indices: 39599--39690 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
39589 AACGGTCGCA
* * * * * *
39599 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
** * * * * *
39647 GGCGAT GAAGAT GATGAC GATGAT GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
39691 TGATCCAAAC
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (6 bp):
GAAGAT
Found at i:39634 original size:3 final size:3
Alignment explanation
Indices: 39614--39694 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
39604 TGAAGCTGAC
* * * * * ** *
39614 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* *
39662 GAC GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
39695 CCAAACAAGT
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.36, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:39653 original size:36 final size:36
Alignment explanation
Indices: 39602--39678 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
39592 GGTCGCAGAA
*
39602 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
39638 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
39674 GATGA
1 GATGA
39679 TGATGAAGAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:39694 original size:12 final size:12
Alignment explanation
Indices: 39602--39690 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
39592 GGTCGCAGAA
*
39602 GATGAAGCTGAC
1 GATGAAGATGAC
39614 GATGAAGATGAC
1 GATGAAGATGAC
*
39626 GATGATGATGAC
1 GATGAAGATGAC
* *
39638 GATGAAGCTGGC
1 GATGAAGATGAC
*
39650 GATGAAGATGAT
1 GATGAAGATGAC
* * *
39662 GACGATGATGAT
1 GATGAAGATGAC
* *
39674 GATGATGATGAA
1 GATGAAGATGAC
39686 GATGA
1 GATGA
39691 TGATCCAAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.36, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:39694 original size:18 final size:18
Alignment explanation
Indices: 39599--39690 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
39589 AACGGTCGCA
*
39599 GAAGATGAAGCTGACGAT
1 GAAGATGAAGATGACGAT
* *
39617 GAAGATGACGATGATGAT
1 GAAGATGAAGATGACGAT
* * *
39635 GACGATGAAGCTGGCGAT
1 GAAGATGAAGATGACGAT
* * *
39653 GAAGATGATGACGATGAT
1 GAAGATGAAGATGACGAT
* * *
39671 GATGATGATGATGAAGAT
1 GAAGATGAAGATGACGAT
39689 GA
1 GA
39691 TGATCCAAAC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.37, C:0.08, G:0.35, T:0.21
Consensus pattern (18 bp):
GAAGATGAAGATGACGAT
Found at i:40841 original size:20 final size:20
Alignment explanation
Indices: 40816--40854 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
40806 TAATATATTG
*
40816 TAAAGTATCTATCCTTTTTA
1 TAAAGTATCTATACTTTTTA
*
40836 TAAAGTGTCTATACTTTTT
1 TAAAGTATCTATACTTTTT
40855 CCACTGTGGA
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:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TAAAGTATCTATACTTTTTA
Found at i:41462 original size:180 final size:183
Alignment explanation
Indices: 41193--41679 Score: 817
Period size: 180 Copynumber: 2.7 Consensus size: 183
41183 GCAATGCTAT
*
41193 CGGTATAAATATACCGGTTTTATGCGCG-ATAGGTCTACAACC--TATCGACACTTTTTAATCTT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
41255 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTGTTAAAAAGTGTCGAC
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATT-TAAAAAAGTGTCGAC
* *
41319 ATTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 ATTTACACATCGGAACCCAGAATTATAATGTAATAAATAATTTTGTAATATAAC
41373 C-GTAT-AATATACCGG-TTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* **
41435 GTGTCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATATGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
*
41500 TTTACACATCGGAACCCAGATTTATAATGTAATAAATAATTTTGTAATATAAC
131 TTTACACATCGGAACCCAGAATTATAATGTAATAAATAATTTTGTAATATAAC
* * *
41553 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTATACAACCTATATCGACACTTTATAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
41618 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
41680 GTAATTTTAA
Statistics
Matches: 287, Mismatches: 13, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
177 10 0.03
178 24 0.08
179 4 0.01
180 129 0.45
181 7 0.02
182 10 0.03
183 103 0.36
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCGACA
TTTACACATCGGAACCCAGAATTATAATGTAATAAATAATTTTGTAATATAAC
Found at i:44164 original size:25 final size:25
Alignment explanation
Indices: 44136--44200 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
44126 TTATCATTAA
44136 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
44161 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
44186 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
44201 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:44526 original size:21 final size:22
Alignment explanation
Indices: 44480--44526 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
44470 AAATTACATA
44480 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* *
44502 -CTTTTTAAAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
44522 ACTTT
1 ACTTT
44527 CATATAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:44574 original size:23 final size:23
Alignment explanation
Indices: 44543--44592 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
44533 ATAGGTAAAC
*
44543 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
44566 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
44589 ATAT
1 ATAT
44593 TGTAAAGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.24, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:45041 original size:18 final size:18
Alignment explanation
Indices: 45020--45056 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
45010 GTAATTGGAG
45020 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
45038 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
45056 T
1 T
45057 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:45064 original size:24 final size:24
Alignment explanation
Indices: 45012--45058 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
45002 TTTCATATGT
* *
45012 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
45036 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
45059 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:45357 original size:39 final size:39
Alignment explanation
Indices: 45314--45400 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
45304 TCCGATGCTC
*
45314 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
* *
45353 ATCAAAATTCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
45392 ATCAAAATC
1 ATCAAAATC
45401 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:45853 original size:23 final size:23
Alignment explanation
Indices: 45822--45871 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
45812 ATAGGTAAAA
* *
45822 ATATGATGTAATATGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
45845 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
45868 ATAT
1 ATAT
45872 TGTAAAGTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:46076 original size:30 final size:29
Alignment explanation
Indices: 46017--46083 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 29
46007 GTTACGATAT
* *
46017 ATATTATTATTAAATTAAAAATTCTAAATA
1 ATATT-TTATAAAATTAAAAAATCTAAATA
46047 ATATTTTATAAAATATCAAAAAATC-AAATA
1 ATATTTTATAAAAT-T-AAAAAATCTAAATA
*
46077 ATTTTTT
1 ATATTTT
46084 GTGCAAATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 8 0.25
30 17 0.53
31 7 0.22
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATTTTATAAAATTAAAAAATCTAAATA
Found at i:49613 original size:16 final size:17
Alignment explanation
Indices: 49592--49626 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
49582 TTACTATTCA
49592 CGTGAATAGTG-AATTT
1 CGTGAATAGTGAAATTT
49608 CGTGAATAGTGAAATTT
1 CGTGAATAGTGAAATTT
49625 CG
1 CG
49627 GTCGGCGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.34
Consensus pattern (17 bp):
CGTGAATAGTGAAATTT
Found at i:76339 original size:15 final size:15
Alignment explanation
Indices: 76308--76341 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
76298 ATATAATATT
76308 AAAACTTGAACTCAA
1 AAAACTTGAACTCAA
76323 AAAAGCTTGAACT-AA
1 AAAA-CTTGAACTCAA
76338 AAAA
1 AAAA
76342 AAAATTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.59, C:0.15, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAACTTGAACTCAA
Found at i:76342 original size:16 final size:15
Alignment explanation
Indices: 76308--76342 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
76298 ATATAATATT
76308 AAAACTTGAACTCAAA
1 AAAACTTGAACT-AAA
*
76324 AAAGCTTGAACTAAA
1 AAAACTTGAACTAAA
76339 AAAA
1 AAAA
76343 AAATTTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.60, C:0.14, G:0.09, T:0.17
Consensus pattern (15 bp):
AAAACTTGAACTAAA
Found at i:86061 original size:21 final size:21
Alignment explanation
Indices: 86035--86078 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
86025 AAATTTTGAA
*
86035 TAAAATTAAAAGTTTAGGTAC
1 TAAAATGAAAAGTTTAGGTAC
* *
86056 TAAAATGGATAGTTTAGGTAC
1 TAAAATGAAAAGTTTAGGTAC
86077 TA
1 TA
86079 CACACATTAA
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:0.43, C:0.05, G:0.18, T:0.34
Consensus pattern (21 bp):
TAAAATGAAAAGTTTAGGTAC
Found at i:86458 original size:19 final size:19
Alignment explanation
Indices: 86436--86472 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
86426 AATAAAATAT
86436 ATTT-TTTAAAATTAATTAA
1 ATTTATTTAAAA-TAATTAA
86455 ATTTATTTAAAATAATTA
1 ATTTATTTAAAATAATTA
86473 TACAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTATTTAAAATAATTAA
Found at i:90008 original size:89 final size:90
Alignment explanation
Indices: 89912--90082 Score: 251
Period size: 89 Copynumber: 1.9 Consensus size: 90
89902 AACCCACATT
* *
89912 AGAAGAAGAAGAAGACGACATGGGTTAATTTTGAATTTACACGT-GATTTGTTTGAATTTTTTTT
1 AGAAGAAGAAAAAGAAGACATGGGTT-ATTTTGAATTTACACGTGGATTTGTTT--ATTTTTTTT
89976 -A-TTTTT-AATTGCTAACTTAGGAATA
63 CATTTTTTAAATTGCTAACTTAGGAATA
* *
90001 AGAAGAAGAAAAAGAAGACATGTGTTGTTTTGAATTTACACGTGGATTTGTTTATTTTTTTTCAT
1 AGAAGAAGAAAAAGAAGACATGGGTTATTTTGAATTTACACGTGGATTTGTTTATTTTTTTTCAT
90066 TTTTTAAATTGCTAACT
66 TTTTTAAATTGCTAACT
90083 CAGACTTTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
87 9 0.12
88 17 0.23
89 37 0.50
90 11 0.15
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (90 bp):
AGAAGAAGAAAAAGAAGACATGGGTTATTTTGAATTTACACGTGGATTTGTTTATTTTTTTTCAT
TTTTTAAATTGCTAACTTAGGAATA
Found at i:92952 original size:20 final size:20
Alignment explanation
Indices: 92927--92964 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
92917 TTTGTTTCAC
*
92927 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAGTG
92947 GGAATAAAAGATTACCAG
1 GGAATAAAAGATTACCAG
92965 GGAATAGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.24, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCAGTG
Found at i:92967 original size:18 final size:19
Alignment explanation
Indices: 92927--92970 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
92917 TTTGTTTCAC
*
92927 GGAATATAAGATTACCAGTG
1 GGAATAAAAGATTACCAG-G
92947 GGAATAAAAGATTACCA-G
1 GGAATAAAAGATTACCAGG
92965 GGAATA
1 GGAATA
92971 GGATTACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.30
20 16 0.70
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (19 bp):
GGAATAAAAGATTACCAGG
Found at i:94662 original size:229 final size:229
Alignment explanation
Indices: 94262--94749 Score: 879
Period size: 229 Copynumber: 2.1 Consensus size: 229
94252 GTAAATTATT
* *
94262 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
*
94327 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
*
94392 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAAAAAAATTG
*
94457 AAACATAAATTACATAACTTT-CAAAAAAGTATA
196 AAACATAAATTACATAACTTTAAAAAAAAGTATA
*
94490 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
94555 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATT
* *
94620 TTGTGTAAATTAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAAAAAAATT
94685 GAAACATAAATTACATAACTTTAAAAAAAAGTATA
195 GAAACATAAATTACATAACTTTAAAAAAAAGTATA
94720 TATCATTTTTATAAAAGTGTCCATACTTAT
1 TATCATTTTTATAAAAGTGTCCATACTTAT
94750 AAAAGTAGGT
Statistics
Matches: 249, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
228 37 0.15
229 171 0.69
230 41 0.16
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (229 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAAGTGGAAAACATGAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAAAGTATA
Found at i:95051 original size:20 final size:20
Alignment explanation
Indices: 95028--95075 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
95018 CGATATACCA
*
95028 GGTAAAAATATGATAAAACC
1 GGTAAAAAAATGATAAAACC
95048 GGTAAAAAAATGATAAAACC
1 GGTAAAAAAATGATAAAACC
95068 GGTAAAAA
1 GGTAAAAA
95076 CGTTACCGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.58, C:0.08, G:0.17, T:0.17
Consensus pattern (20 bp):
GGTAAAAAAATGATAAAACC
Found at i:95115 original size:182 final size:182
Alignment explanation
Indices: 94816--95289 Score: 698
Period size: 182 Copynumber: 2.6 Consensus size: 182
94806 GATCCAAATT
* * * *
94816 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAATTATGACAAAACCGGTATAGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* * * * * *
94881 AAACCGGTCAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
94946 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* *
94998 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTAAAAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
*
95063 AAACCGGTAAAAACGTTACCGGATATATTAAAAGTGTCGATACTTT-ATATAAGGATCGACACTT
66 AAACCGGT-AAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTT
* ** *
95127 TGTGAATTTAAAAGAGAAGCAGTTATAGCGCCTATAATGTGTCGATACTTTAA
130 CGTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
95180 AAAAATATATCGATCCACAACGATATAACAGGTGAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
* *
95245 AAACCGGTAAAATGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTT
95290 CGTAAGTACG
Statistics
Matches: 263, Mismatches: 28, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
181 34 0.13
182 198 0.75
183 31 0.12
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATAAAAATGATA
AAACCGGTAAAACGATACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTATAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:95258 original size:17 final size:19
Alignment explanation
Indices: 95219--95261 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
95209 AGGTGAAAAT
95219 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
95239 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
95256 ATGATA
1 ATGATA
95262 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:97518 original size:21 final size:21
Alignment explanation
Indices: 97491--97555 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
97481 AAGACAATCA
*
97491 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
* * *
97512 CGAGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
97533 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
97554 AG
1 AG
97556 GCATAAGGGG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.38, C:0.14, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:97631 original size:33 final size:33
Alignment explanation
Indices: 97589--97654 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
97579 AAATAGATGG
*
97589 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
97622 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
97655 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:99475 original size:19 final size:19
Alignment explanation
Indices: 99451--99499 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
99441 AATGTAGGGT
99451 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
99470 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
99489 TATTTTTGTAT
1 TAATTTTGTAT
99500 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:99969 original size:198 final size:199
Alignment explanation
Indices: 99619--101575 Score: 3709
Period size: 198 Copynumber: 9.9 Consensus size: 199
99609 CAATATGGCC
*
99619 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
99684 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
99749 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
99814 GGAA
196 GGAA
*
99818 AACAGGGTGCA-CCATAAATTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
99882 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
99947 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100012 GGAA
196 GGAA
100016 AACAGGGTGCACCCATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
100079 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
100144 AATATGTATAAATAATATGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100209 GGAA
196 GGAA
100213 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
100278 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
100343 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100407 GGAA
196 GGAA
*
100411 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAGCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
100475 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
100540 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100605 GGAA
196 GGAA
100609 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
100673 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
100737 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100802 GGAA
196 GGAA
100806 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
100870 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
100934 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100999 GGAA
196 GGAA
*
101003 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAGCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
101068 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
101133 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
101197 GGAA
196 GGAA
101201 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
101266 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
101331 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
101396 GGAA
196 GGAA
*
101400 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGACCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
101465 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
101530 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
101576 CTAATTTAAA
Statistics
Matches: 1731, Mismatches: 18, Indels: 18
0.98 0.01 0.01
Matches are distributed among these distances:
196 26 0.02
197 617 0.36
198 634 0.37
199 454 0.26
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:100395 original size:395 final size:397
Alignment explanation
Indices: 99619--101575 Score: 3680
Period size: 395 Copynumber: 4.9 Consensus size: 397
99609 CAATATGGCC
*
99619 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTTGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
99684 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
99749 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
130 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
*
99814 GGAAAACAGGGTGCA-CCATAAATTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
99878 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
* *
99943 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
100008 GAATGGAA
390 GAATGGAA
100016 AACAGGGTGCACCCATAAAGTGTCGATCC-ATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
1 AACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
100080 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
66 AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
*
100145 ATATGTATAAATAATATGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
131 ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
100210 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
196 GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
*
100275 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGATTTTATGA
261 ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
100340 GATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATG
326 GATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
100404 AATGGAA
391 AATGGAA
*
100411 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCC-AAAGCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
100475 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
100540 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
130 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
100605 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
100669 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATA-CGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
100733 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
325 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
100798 GAATGGAA
390 GAATGGAA
100806 AACAGGGTGCACCCATAAAGTGTCGATCC-ATATATAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCAATATA-AAAAGTGTCGATCCCAAAATCATCGAACC
*
100870 CAAAAGTATAATGTAATATGTAA-TTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
*
100934 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
130 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
*
100999 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAGCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
101064 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
* *
101129 AGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAAT
325 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAAT
101193 GAATGGAA
390 GAATGGAA
101201 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCA-ATATAAAAAGTGTCGATCCCAAAATCATCGAACC
101266 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
65 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAT
101331 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
130 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
*
101396 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGACCCCAAAATCATCG
195 GGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG
101461 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
260 AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATG
101526 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
325 AGATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
101576 CTAATTTAAA
Statistics
Matches: 1526, Mismatches: 23, Indels: 22
0.97 0.01 0.01
Matches are distributed among these distances:
393 5 0.00
394 217 0.14
395 520 0.34
396 450 0.29
397 334 0.22
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (397 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCAATATAAAAAGTGTCGATCCCAAAATCATCGAACCC
AAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATA
ATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATG
GAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGA
ACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGA
GATAATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATG
AATGGAA
Found at i:101562 original size:23 final size:23
Alignment explanation
Indices: 101536--101587 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
101526 AGATAATATG
101536 TATAAATAATGTGTCGACACTAA
1 TATAAATAATGTGTCGACACTAA
* * *
101559 TAT-AGT-TTGTGTCGATACTAA
1 TATAAATAATGTGTCGACACTAA
*
101580 TTTAAATA
1 TATAAATA
101588 TCAAGTGTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
21 15 0.68
22 4 0.18
23 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (23 bp):
TATAAATAATGTGTCGACACTAA
Found at i:103696 original size:25 final size:25
Alignment explanation
Indices: 103662--103726 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
103652 TTATCATTAA
103662 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
103687 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
103712 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
103727 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:104056 original size:21 final size:22
Alignment explanation
Indices: 104008--104058 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
103998 AAATTACATA
104008 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* *
104030 -CTTTTTATAAAAAGTATGGA-C
1 AC-TTTTAAAAAAAGTATCGATC
104051 ACTTTTAA
1 ACTTTTAA
104059 TATAATAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:104104 original size:23 final size:23
Alignment explanation
Indices: 104073--104145 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
104063 ATAGGTAAAC
*
104073 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
104096 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
104119 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
104142 ATAT
1 ATAT
104146 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:104594 original size:18 final size:18
Alignment explanation
Indices: 104573--104609 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
104563 GTAATTGGAG
104573 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
104591 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
104609 T
1 T
104610 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:104617 original size:24 final size:24
Alignment explanation
Indices: 104565--104611 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
104555 TTTCATATGT
* *
104565 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
104589 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
104612 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:104911 original size:39 final size:39
Alignment explanation
Indices: 104868--104954 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
104858 TCCGATGCTC
**
104868 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAATGCCAAGCAAAAGGAA
* *
104907 ATCAAAATTCAAATCTCATATAATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAATGCCAAGCAAAAGGAA
104946 ATCAAAATC
1 ATCAAAATC
104955 TACAACTTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATAATGCCAAGCAAAAGGAA
Found at i:105402 original size:23 final size:23
Alignment explanation
Indices: 105371--105443 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
105361 ATAGGTAAAC
*
105371 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
105394 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
105417 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
105440 ATAT
1 ATAT
105444 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:115239 original size:15 final size:15
Alignment explanation
Indices: 115221--115250 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
115211 CCACGGTGCT
115221 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
115236 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
115251 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:115714 original size:36 final size:36
Alignment explanation
Indices: 115672--115747 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
115662 GTTATAGCTA
*
115672 AAAAATCGTCTTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
115708 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
1 AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
115744 AAAA
1 AAAA
115748 TCCCGAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (36 bp):
AAAAATCGTATTTATTCGAATTTTGCCAAAAATAGC
Found at i:120197 original size:15 final size:15
Alignment explanation
Indices: 120177--120206 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
120167 CCACGGTGCT
120177 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
120192 CCCGGAATCCTGCGC
1 CCCGGAATCCTGCGC
120207 GATTGTGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.47, G:0.27, T:0.13
Consensus pattern (15 bp):
CCCGGAATCCTGCGC
Found at i:120749 original size:185 final size:180
Alignment explanation
Indices: 120409--120761 Score: 620
Period size: 185 Copynumber: 1.9 Consensus size: 180
120399 ACCTCAGCCA
120409 TTGAAATGTGAAATTTCCCAAGAAGATGTTGAAGCTCTGATACCAACTGACGCCAGACAGAATAG
1 TTGAAATGTGAAATTTCCCAAGAAGATGTTGAAGCTCTGATACCAACTGACGCCAGACAGAATAG
120474 TGATTATCCTGTAGGCTAGCTCGACAGACGATTCACAAGAGAAAATTCGCCCAAAAACCAGAGAA
66 TGATTATCCTGTAGGCTAGCTCGACA-ACGATTCACAAGAGAAAATTCGCCCAAAAACCAGAGAA
120539 AAAAGTCTCTAGGGTTAATAAATATTATAAATCAATAACTGTCTCAAAAGCAG
130 AAAAGTCTCTAGGGTTAATAAATATTATAAA--AATAACTGTCTCAAAAGCAG
120592 TTGAAACTGGTGAAATTTCCCAAGAAGATGTTGAAGCTCTGATACCAACTGACGCCAGACAGAAT
1 TTGAAA-T-GTGAAATTTCCCAAGAAGATGTTGAAGCTCTGATACCAACTGACGCCAGACAGAAT
120657 AGTGATTATCCTGTAGGCTAGCTCCGAC-A-GATTCACAAGAGAAAATTCGCCCAAAAACCAGAG
64 AGTGATTATCCTGTAGGCTAGCT-CGACAACGATTCACAAGAGAAAATTCGCCCAAAAACCAGAG
120720 AAAAAAGTCTCTAGGGTTTAATAAAATATTATAAAAATAACT
128 AAAAAAGTCTCTAGGG-TTAAT-AAATATTATAAAAATAACT
120762 TATTCGAATT
Statistics
Matches: 165, Mismatches: 0, Indels: 10
0.94 0.00 0.06
Matches are distributed among these distances:
183 63 0.38
184 7 0.04
185 91 0.55
186 4 0.02
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.23
Consensus pattern (180 bp):
TTGAAATGTGAAATTTCCCAAGAAGATGTTGAAGCTCTGATACCAACTGACGCCAGACAGAATAG
TGATTATCCTGTAGGCTAGCTCGACAACGATTCACAAGAGAAAATTCGCCCAAAAACCAGAGAAA
AAAGTCTCTAGGGTTAATAAATATTATAAAAATAACTGTCTCAAAAGCAG
Found at i:122488 original size:29 final size:28
Alignment explanation
Indices: 122446--122502 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
122436 CAGGAACAAT
*
122446 TTGAAAGTCCAATGAGTAAATTAGAAAAG
1 TTGAAAGTACAATGAGTAAATTA-AAAAG
*
122475 TTGAAAGTATAATGAGTAAATTAAAAAG
1 TTGAAAGTACAATGAGTAAATTAAAAAG
122503 AGTAAAATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.51, C:0.04, G:0.19, T:0.26
Consensus pattern (28 bp):
TTGAAAGTACAATGAGTAAATTAAAAAG
Found at i:128114 original size:31 final size:31
Alignment explanation
Indices: 128076--128231 Score: 260
Period size: 31 Copynumber: 5.0 Consensus size: 31
128066 CCCGAAGGAC
* * *
128076 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
128107 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
128138 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
128169 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
128200 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
128231 C
1 C
128232 CCTCGACCCT
Statistics
Matches: 120, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
31 119 0.99
32 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.20
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:138677 original size:12 final size:13
Alignment explanation
Indices: 138642--138689 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
138632 TAATTATCGG
138642 TATTTAATTTATCTT
1 TATTT-ATTTAT-TT
138657 TAATATTATTTA-TT
1 T-AT-TTATTTATTT
138671 TATTTATTTATTT
1 TATTTATTTATTT
138684 TATTTA
1 TATTTA
138690 CGTATTTTTC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.23
13 10 0.33
14 3 0.10
15 1 0.03
16 7 0.23
17 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTTATTTATTT
Found at i:138772 original size:2 final size:2
Alignment explanation
Indices: 138765--138800 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
138755 CTTCATTCAA
138765 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
138801 ATATATATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:145334 original size:62 final size:63
Alignment explanation
Indices: 145213--145340 Score: 204
Period size: 62 Copynumber: 2.0 Consensus size: 63
145203 ATTAGTTGCA
* *
145213 CTCACCTGATGCCTCACTAGCTTTCTAGTAATTTTTATCGCTTTCCTTATACACCTTATCTCT
1 CTCACCAGATGCCTCACTAGCTTTCTAGCAATTTTTATCGCTTTCCTTATACACCTTATCTCT
** *
145276 CTCACCAGATGCCTCACTAGCTTTCTA-CCGTTTTTATCGCTTTCCTTATACACTTTATCTCT
1 CTCACCAGATGCCTCACTAGCTTTCTAGCAATTTTTATCGCTTTCCTTATACACCTTATCTCT
145338 CTC
1 CTC
145341 TTTTAGTTCA
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
62 34 0.57
63 26 0.43
ACGTcount: A:0.18, C:0.32, G:0.08, T:0.42
Consensus pattern (63 bp):
CTCACCAGATGCCTCACTAGCTTTCTAGCAATTTTTATCGCTTTCCTTATACACCTTATCTCT
Found at i:149762 original size:14 final size:14
Alignment explanation
Indices: 149745--149778 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
149735 AATTTTATTA
149745 ACTGTCATGTAAAT
1 ACTGTCATGTAAAT
149759 ACTGTCATGTAAAT
1 ACTGTCATGTAAAT
149773 ACTGTC
1 ACTGTC
149779 TTTAAATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (14 bp):
ACTGTCATGTAAAT
Found at i:150618 original size:58 final size:59
Alignment explanation
Indices: 150503--150629 Score: 159
Period size: 58 Copynumber: 2.2 Consensus size: 59
150493 ATGGGTCAAA
* * *
150503 TACACAAATGGTCATCGATTATAGGGTATTGCTTTATTAAATCCTTCGACTATTAAAAGT
1 TACA-AAATGATCATCGATTATAGGATATTGCTTTATTAAATCCTTCAACTATTAAAAGT
* * * *
150563 TATAAAATGATCATCTGA-TATAGGATGTTG-TTTTTTAAGTCCTTCAACTATTAAAAGT
1 TACAAAATGATCATC-GATTATAGGATATTGCTTTATTAAATCCTTCAACTATTAAAAGT
150621 TACAAAATG
1 TACAAAATG
150630 GTCGCTCGAC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
58 33 0.57
59 20 0.34
60 5 0.09
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (59 bp):
TACAAAATGATCATCGATTATAGGATATTGCTTTATTAAATCCTTCAACTATTAAAAGT
Found at i:163419 original size:8 final size:9
Alignment explanation
Indices: 163401--163431 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
163391 TAAAGACTTG
163401 AAATAAAAA
1 AAATAAAAA
163410 AAATAAAAA
1 AAATAAAAA
163419 AAATAAAAA
1 AAATAAAAA
163428 AAAT
1 AAAT
163432 CTAGGGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAATAAAAA
Found at i:168359 original size:2 final size:2
Alignment explanation
Indices: 168352--168381 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
168342 TGATAATTAT
168352 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
168382 CGTTGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:168761 original size:23 final size:23
Alignment explanation
Indices: 168730--168789 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
168720 GGATATAAAT
168730 AAATATAAACGAACACAATAAAAG
1 AAAT-TAAACGAACACAATAAAAG
* *
168754 AAATTAAATGAACACAATAAATG
1 AAATTAAACGAACACAATAAAAG
168777 AACA-TAAACGAAC
1 AA-ATTAAACGAAC
168790 GTAACCGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 27 0.84
24 5 0.16
ACGTcount: A:0.63, C:0.13, G:0.08, T:0.15
Consensus pattern (23 bp):
AAATTAAACGAACACAATAAAAG
Found at i:169007 original size:14 final size:14
Alignment explanation
Indices: 168973--169022 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
168963 TATTGGACTA
*
168973 AACAAACATAAATG
1 AACAAACATAAACG
168987 AAC--ACATAAACG
1 AACAAACATAAACG
*
168999 AACAAACATAAACA
1 AACAAACATAAACG
169013 AACAAACATA
1 AACAAACATA
169023 TTACTAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 11 0.34
14 21 0.66
ACGTcount: A:0.66, C:0.20, G:0.04, T:0.10
Consensus pattern (14 bp):
AACAAACATAAACG
Found at i:172205 original size:21 final size:21
Alignment explanation
Indices: 172180--172224 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
172170 AAATTACACG
172180 TTTAGTATATAAACTATCAAT
1 TTTAGTATATAAACTATCAAT
* * *
172201 TTTAGTATTTAAACTTTTAAT
1 TTTAGTATATAAACTATCAAT
172222 TTT
1 TTT
172225 TTTCAAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTAGTATATAAACTATCAAT
Found at i:175266 original size:20 final size:18
Alignment explanation
Indices: 175233--175273 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
175223 TAATCTGAGT
*
175233 TTTTGTTATTTTTTATTC
1 TTTTGTTATTTTTTACTC
175251 TTTTGTTGATTTTTTTACTC
1 TTTTGTT-A-TTTTTTACTC
175271 TTT
1 TTT
175274 GATTTGCTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 1 0.05
20 12 0.60
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTGTTATTTTTTACTC
Found at i:183278 original size:120 final size:121
Alignment explanation
Indices: 183024--183297 Score: 390
Period size: 120 Copynumber: 2.3 Consensus size: 121
183014 TAACGTTAAG
* *
183024 TTTTGAAAAAAAATTGAAAGCTTAAGTACTAAAATGGACCAAAACTAATAGTTCAGGTACTAAAC
1 TTTTG-AAAAAAA-TG-AAGTTTAGGTACTAAAATGGACCAAAACTAATAGTTCAGGTACTAAAC
*
183089 AAATTAAGTTTTTAAACGGTGGGTACTAAAATGAAACAAAAACTAAACATTAGGTATGG
63 AAATTAAGTTTTTAAACGGTGGGTACTAAAATGAAACAAAAACTAAACATTAGGTATGA
* * * * * *
183148 TTTTGAAAAAAATGAAGTTTAGGCACTAAAATGGATCAAAATTGATAGTTTATGTACTAAACAAA
1 TTTTGAAAAAAATGAAGTTTAGGTACTAAAATGGACCAAAACTAATAGTTCAGGTACTAAACAAA
* *
183213 TTAAGTTTTT-AATGGTGGGTACTAAAATGAAACAAAAACTAAACGTTAGGTATGA
66 TTAAGTTTTTAAACGGTGGGTACTAAAATGAAACAAAAACTAAACATTAGGTATGA
* *
183268 TTTTGAAAAAAA-AAAGTTTAGATACTAAAA
1 TTTTGAAAAAAATGAAGTTTAGGTACTAAAA
183298 CATAACAAAA
Statistics
Matches: 136, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
119 15 0.11
120 54 0.40
121 53 0.39
122 2 0.01
123 7 0.05
124 5 0.04
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (121 bp):
TTTTGAAAAAAATGAAGTTTAGGTACTAAAATGGACCAAAACTAATAGTTCAGGTACTAAACAAA
TTAAGTTTTTAAACGGTGGGTACTAAAATGAAACAAAAACTAAACATTAGGTATGA
Found at i:189391 original size:62 final size:62
Alignment explanation
Indices: 189290--189412 Score: 183
Period size: 62 Copynumber: 2.0 Consensus size: 62
189280 GTCCACGCAT
* *
189290 TGTAAATTTTTTAGTTTCATATCATTTTAAAATTATTGAATAAATAAGTAGACGACTGAACG
1 TGTAAATTGTTTAGTTTCATATCATTTTAAAATTATTGAATAAATAAATAGACGACTGAACG
* * * * *
189352 TGTAAATTGTTTAGTTTTATATCATTTTAAAGTTGTTGAATAAATAAATAGATGATTGAAC
1 TGTAAATTGTTTAGTTTCATATCATTTTAAAATTATTGAATAAATAAATAGACGACTGAAC
189413 ATCCATTATC
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
62 54 1.00
ACGTcount: A:0.38, C:0.06, G:0.14, T:0.42
Consensus pattern (62 bp):
TGTAAATTGTTTAGTTTCATATCATTTTAAAATTATTGAATAAATAAATAGACGACTGAACG
Found at i:191263 original size:31 final size:31
Alignment explanation
Indices: 191225--191380 Score: 233
Period size: 31 Copynumber: 5.0 Consensus size: 31
191215 CCCGAAGGAC
* * *
191225 CAGTCCATA-GATTCCGAAGAACCTAGGTAAT
1 CAGTCCATATG-TCCCGAAGAACATAGGTAAA
*
191256 CAGTCCATATGTCCCGAAGGACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
* *
191287 CAGTCCGTATGTTCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
*
191318 CAATCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
191349 CAGTCCATATGTCCCGAAGAACATAGGTAAA
1 CAGTCCATATGTCCCGAAGAACATAGGTAAA
191380 C
1 C
191381 CCTCGACCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
31 112 0.99
32 1 0.01
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (31 bp):
CAGTCCATATGTCCCGAAGAACATAGGTAAA
Found at i:191683 original size:23 final size:24
Alignment explanation
Indices: 191657--191703 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
191647 ATATACTTGT
*
191657 TTTCACATATATA-TTTCATATCA
1 TTTCACATATACACTTTCATATCA
191680 TTTCACATATACACTTTCATATCA
1 TTTCACATATACACTTTCATATCA
191704 CATGCCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.34, C:0.21, G:0.00, T:0.45
Consensus pattern (24 bp):
TTTCACATATACACTTTCATATCA
Found at i:192375 original size:21 final size:21
Alignment explanation
Indices: 192336--192380 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
192326 ATTCTGTCGT
* * *
192336 TTGAAGGGGTATCGGTTCCTC
1 TTGAAGGGGTACCGATTCCCC
*
192357 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
192378 TTG
1 TTG
192381 CCCAGAAATC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:193233 original size:59 final size:59
Alignment explanation
Indices: 193134--193260 Score: 148
Period size: 59 Copynumber: 2.1 Consensus size: 59
193124 AAGGGTAAAA
* * ** **
193134 TATACAAATGGTCTTCGACTATAAGATACTATTTTATTGAGTCTTTTGACTATTAAAAGT
1 TATA-AAATGGTCTTCGACTATAAGAAACTACTTTATTGAGTCACTCAACTATTAAAAGT
* *
193194 TATAAAATGGTC-TCAGACTATAAGAAATTACTTTGTTGAGTCACTCAACTATTAAAAGT
1 TATAAAATGGTCTTC-GACTATAAGAAACTACTTTATTGAGTCACTCAACTATTAAAAGT
*
193253 TACAAAAT
1 TATAAAAT
193261 AGTAACTCGA
Statistics
Matches: 57, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
58 2 0.04
59 51 0.89
60 4 0.07
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (59 bp):
TATAAAATGGTCTTCGACTATAAGAAACTACTTTATTGAGTCACTCAACTATTAAAAGT
Found at i:194083 original size:60 final size:59
Alignment explanation
Indices: 193999--194142 Score: 148
Period size: 60 Copynumber: 2.4 Consensus size: 59
193989 ACTGGGGACC
* * * *
193999 AATTTAGAATGAGGGTTATAGTTTG-GGAATGAAATTGGAATGCTCAAAAGTTT-AAGGATT
1 AATTTAGAATGA-GATTATAGTTTGAGGAATG-AATTGAAATACTCAAAA-TTTAAAGGAAT
* * * *
194059 CATTTAGAATGAGATTCATGGTTTGAGGATTGAATTGAAATATTCAAAATTTAAAGGAAT
1 AATTTAGAATGAGATT-ATAGTTTGAGGAATGAATTGAAATACTCAAAATTTAAAGGAAT
*
194119 AATTCAGAATGAAGATTATAGTTT
1 AATTTAGAATG-AGATTATAGTTT
194143 AAGAATGTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 8
0.78 0.12 0.09
Matches are distributed among these distances:
59 6 0.09
60 53 0.77
61 10 0.14
ACGTcount: A:0.39, C:0.04, G:0.22, T:0.35
Consensus pattern (59 bp):
AATTTAGAATGAGATTATAGTTTGAGGAATGAATTGAAATACTCAAAATTTAAAGGAAT
Found at i:196017 original size:367 final size:364
Alignment explanation
Indices: 194842--196043 Score: 1514
Period size: 347 Copynumber: 3.3 Consensus size: 364
194832 AAATAAAATT
* ** *
194842 TAATTTACCAAACCTTACTTTCCACGTGGGAT-AAATTAATAATTTATTGTACCAAAAATGCCAC
1 TAATTTACCAAACCTTACTTTTCACGTGGCCTAAAATTAATAATTTACTGTACCAAAAATGCCAC
* * * * *
194906 GGAACATTCATGAAG-AAGTATGTACTTTCCTTTGACTTTATCCGCATTAAGTTTGTCGTTTTAA
66 GGTACATTCATGAAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGTCGTTTTAA
* ** * * *
194970 TAATTAGTATATGTTTTATTGATAAATTAATAAATAAATTTCATATTTAATATTTAAATTATTAA
131 TAATTAGTATATGATTTATTGATAAATTAATGGATAAATGTCATATTTAGTATCTAAATTATTAA
* * *
195035 TTTTGATCTATTTTAATATTT--A-----AA-TTTTT-AAATTATACCTAATATTTAATTTTTAT
196 TTTT-ATCAATTTTAATATTTAAATTTTTAATTTTTTAAAATTATATCTAACATTTAATTTTTAT
* * * * ** * * * * *
195091 TTTATATTAATACCTATATATTAAAATC-TAACGATACTGTATCTTTTATAAATAAATTATAAT-
260 TTCATGTTAATACTTAAACGTTAAAAACTTAACGACACTATAT-TTTTATGAGTAAATTAT-ATC
* * *
195154 ATTTATTACTCAACTATC-TG-----CGTA--A--C-----A
323 ATTCATTACTTAACTATCTTGTTACTCCTATTATTCGTAGTA
195181 TAATTTACCAAACCTTACTTTTCACGTGGCTTACATGATTAAATTAATAATATT-CTGTACCAAA
1 TAATTTACCAAACCTTACTTTTCACGTGGC---C-T-A--AAATTAATAAT-TTACTGTACCAAA
* *
195245 ACTGCCACGTTACATTCAT-AAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGT
58 AATGCCACGGTACATTCATGAAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGT
* * * * *
195309 CGTTTTAATAATTAGTATATGATTTATTGATAAATTAATGGGTAAATTTTATATTTAGTATTTAT
123 CGTTTTAATAATTAGTATATGATTTATTGATAAATTAATGGATAAATGTCATATTTAGTATCTAA
* *
195374 ATTATTAATTTTATCAGTTTTAATATTTAAATTTTTAATTTTTTAAAATTATATCTAACGTTTAA
188 ATTATTAATTTTATCAATTTTAATATTTAAATTTTTAATTTTTTAAAATTATATCTAACATTTAA
* * *
195439 TTTTTATTTTATGTTAGTACTTAGACGTTAAAAACTTAACGACACTATATTTTTATGAGTAAATT
253 TTTTTATTTCATGTTAATACTTAAACGTTAAAAACTTAACGACACTATATTTTTATGAGTAAATT
* *
195504 ATATTATTCATTACTTAACTATCTTGTTACTCTTATTATTCGTAGTA
318 ATATCATTCATTACTTAACTATCTTGTTACTCCTATTATTCGTAGTA
*
195551 TAATTTACCAAACCTTACTTTTCACGTGGCCTAAAATTAATAATTTACTGTACCAAAGATGCCAC
1 TAATTTACCAAACCTTACTTTTCACGTGGCCTAAAATTAATAATTTACTGTACCAAAAATGCCAC
195616 GGTACATTCATGAAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGTCGTTTTAA
66 GGTACATTCATGAAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGTCGTTTTAA
*
195681 TAATTAGTATATTATTTATTGATAAATTAATGGATAAATGTCATATTTAGTATCTAAATTATTAA
131 TAATTAGTATATGATTTATTGATAAATTAATGGATAAATGTCATATTTAGTATCTAAATTATTAA
* * * * *
195746 TTTTGAT-ATATTTTAGTATTTAAATTTTTTATTTTTTAAAATTATATTTAATATTTAGTTTTTA
196 TTTT-ATCA-ATTTTAATATTTAAATTTTTAATTTTTTAAAATTATATCTAACATTTAATTTTTA
195810 TTTCATGTTAATACTTAAACGTTAAAAACTTAACGACACTATATTTTTTATGTA-TAAATTATAT
259 TTTCATGTTAATACTTAAACGTTAAAAACTTAACGACACTATA-TTTTTATG-AGTAAATTATAT
*
195874 CATTCATTACTTAACTATCTTTTTCACTCCTATTATTCGTAGTA
322 CATTCATTACTTAACTATCTTGTT-ACTCCTATTATTCGTAGTA
*
195918 TAATTTACCAAACCTTACTTTTCACGTGGCCTAAAATTAATAATTTACTGTACCAAAAATGACAC
1 TAATTTACCAAACCTTACTTTTCACGTGGCCTAAAATTAATAATTTACTGTACCAAAAATGCCAC
* * *
195983 GGTACATTCATGAAGCCACTATGTGCTTTCCTTTGGCTTTATCCACATTAAGTTTGTCGTT
66 GGTACATTCATGAAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGTCGTT
196044 CTATGTATAA
Statistics
Matches: 756, Mismatches: 64, Indels: 58
0.86 0.07 0.07
Matches are distributed among these distances:
339 28 0.04
343 1 0.00
346 17 0.02
347 143 0.19
348 3 0.00
353 2 0.00
354 7 0.01
355 76 0.10
356 14 0.02
361 3 0.00
362 2 0.00
363 38 0.05
364 117 0.15
365 92 0.12
366 41 0.05
367 141 0.19
370 31 0.04
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (364 bp):
TAATTTACCAAACCTTACTTTTCACGTGGCCTAAAATTAATAATTTACTGTACCAAAAATGCCAC
GGTACATTCATGAAGCCACTATGTACTTTCCTTTGACTTTATCCACATTAAGGTTGTCGTTTTAA
TAATTAGTATATGATTTATTGATAAATTAATGGATAAATGTCATATTTAGTATCTAAATTATTAA
TTTTATCAATTTTAATATTTAAATTTTTAATTTTTTAAAATTATATCTAACATTTAATTTTTATT
TCATGTTAATACTTAAACGTTAAAAACTTAACGACACTATATTTTTATGAGTAAATTATATCATT
CATTACTTAACTATCTTGTTACTCCTATTATTCGTAGTA
Found at i:197546 original size:53 final size:53
Alignment explanation
Indices: 197447--197547 Score: 139
Period size: 53 Copynumber: 1.9 Consensus size: 53
197437 TAAACATATA
* * *
197447 TTATTAACTTCTAATGTATTAAGGTATATAGTTCTATAGATTATTAGTCATTC
1 TTATTAACTTCTAATGTATTAAGGTATATAATTCTATACATCATTAGTCATTC
* * * *
197500 TTATTAACTTGTAATTTATTAAGGTATATAATTTTGTACATCATTAGT
1 TTATTAACTTCTAATGTATTAAGGTATATAATTCTATACATCATTAGT
197548 TAATAAGATG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
53 41 1.00
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.49
Consensus pattern (53 bp):
TTATTAACTTCTAATGTATTAAGGTATATAATTCTATACATCATTAGTCATTC
Found at i:198254 original size:17 final size:17
Alignment explanation
Indices: 198234--198276 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
198224 TATCCACCAC
*
198234 ATGCAATTATAGCCTAA
1 ATGCAACTATAGCCTAA
198251 ATGCAACTATAGCCTAA
1 ATGCAACTATAGCCTAA
198268 ATGCAACTA
1 ATGCAACTA
198277 ATATGCTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.42, C:0.21, G:0.12, T:0.26
Consensus pattern (17 bp):
ATGCAACTATAGCCTAA
Found at i:201022 original size:36 final size:36
Alignment explanation
Indices: 200982--201286 Score: 201
Period size: 36 Copynumber: 8.6 Consensus size: 36
200972 ATATATATAT
* *
200982 ATATATATATTATATAGTTTCGAAAACATTTCGAAA
1 ATATATATATTATATAGTTTTGAAAACATTTTGAAA
*
201018 ATATATATATTTTATAGTTTTTGAAAA-ATTTTGAAA
1 ATATATATATTATATAG-TTTTGAAAACATTTTGAAA
* * *
201054 ACATATATAATGTATA-ATTTTTGAAAATACTTTTGAAA
1 ATATATAT-AT-TATATAGTTTTGAAAACA-TTTTGAAA
201092 ATATATA-A-TATATAGTTTT-AAAATCATTTTGAAAAA
1 ATATATATATTATATAGTTTTGAAAA-CATTTTG--AAA
*
201128 ATATATATAATATATAGTTTTGAAAACATTTTTTG-AA
1 ATATATATATTATATAGTTTTGAAAACA--TTTTGAAA
* * ** *
201165 ATCT-TATA-TA-ATA-TTTTTAAATTATTTTTTAAA
1 ATATATATATTATATAGTTTTGAAAACA-TTTTGAAA
* * * *
201198 ACTATATA-A-TATATAGTTTTGTAAA-TTTTTTAAG
1 A-TATATATATTATATAGTTTTGAAAACATTTTGAAA
* * *
201232 A-ATATA-A-TATATAGTTTTAAAAAAATATTTTTAAA
1 ATATATATATTATATAGTTTT--GAAAACATTTTGAAA
*
201267 AGATATATATTATATAGTTT
1 ATATATATATTATATAGTTT
201287 ATATTATATT
Statistics
Matches: 220, Mismatches: 24, Indels: 48
0.75 0.08 0.16
Matches are distributed among these distances:
32 22 0.10
33 11 0.05
34 32 0.15
35 21 0.10
36 66 0.30
37 19 0.09
38 40 0.18
39 4 0.02
40 5 0.02
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTGAAAACATTTTGAAA
Found at i:202071 original size:22 final size:22
Alignment explanation
Indices: 202030--202096 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
202020 CTCGTATAAA
202030 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
202053 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
202075 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
202097 GATGTCCATA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 31 0.72
23 12 0.28
ACGTcount: A:0.25, C:0.28, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:203695 original size:21 final size:21
Alignment explanation
Indices: 203671--203715 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
203661 TCTTGTTCGT
* *
203671 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
203692 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
203713 TTG
1 TTG
203716 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:206879 original size:22 final size:22
Alignment explanation
Indices: 206847--206910 Score: 96
Period size: 21 Copynumber: 3.0 Consensus size: 22
206837 CTCGTATAAA
*
206847 TGCA-CGAAGTGCCCGTAGGAT
1 TGCACCGAAGTGCCCGTAGAAT
206868 TGCACCGAAGTG-CCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
*
206889 TGCACCGTAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
206911 GATGTCCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
21 23 0.59
22 16 0.41
ACGTcount: A:0.25, C:0.25, G:0.30, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:208506 original size:21 final size:21
Alignment explanation
Indices: 208482--208526 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
208472 TCTTGTTCGT
* *
208482 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
208503 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
208524 TTG
1 TTG
208527 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:210691 original size:7 final size:7
Alignment explanation
Indices: 210665--210704 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
210655 ATTCGAACCG
*
210665 AATTATT
1 AATTTTT
*
210672 AAATTTT
1 AATTTTT
210679 AA-TTTT
1 AATTTTT
210685 AATTTTT
1 AATTTTT
210692 AATTTTT
1 AATTTTT
210699 AATTTT
1 AATTTT
210705 CGCAATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.20
7 24 0.80
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (7 bp):
AATTTTT
Found at i:210693 original size:20 final size:20
Alignment explanation
Indices: 210665--210704 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
210655 ATTCGAACCG
210665 AATTATTAAATTTTAATTTT
1 AATTATTAAATTTTAATTTT
* *
210685 AATTTTTAATTTTTAATTTT
1 AATTATTAAATTTTAATTTT
210705 CGCAATTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
AATTATTAAATTTTAATTTT
Found at i:212413 original size:21 final size:21
Alignment explanation
Indices: 212388--212428 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
212378 GCATTTAGAC
*
212388 TTTTTGCATTTTGTTATTTTT
1 TTTTTGCATTTGGTTATTTTT
212409 TTTTTGCATTTGGTTATTTT
1 TTTTTGCATTTGGTTATTTT
212429 CTTTGTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.05, G:0.12, T:0.73
Consensus pattern (21 bp):
TTTTTGCATTTGGTTATTTTT
Found at i:217075 original size:165 final size:166
Alignment explanation
Indices: 215880--217076 Score: 1342
Period size: 165 Copynumber: 7.2 Consensus size: 166
215870 TAAACAAACT
* * *
215880 ATTTGCAGCATAGCTTAAGCCGAGAAGGGCTATCTG-CCAAAGACCTTCGAGTTAGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGATTACACTC
* *
215944 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATTTGTCACCAAAGACC
66 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACC
216009 TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
131 TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * ** *
216045 ATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACCACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCTTCGAGTTCGATTACA
* * * * *
216110 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC---CGCCAAAG
63 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAG
** **
216171 ACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCATGTC
128 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * * *
216210 ATCTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCTTCGAGTTCGATTACAC
* * *
216275 TCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGTTATCTGCCAACCAAAG
64 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAG
** * * *
216340 ACCTTCGAGTTCGACCACGCTCAGC-TCCAAGGCACATC
128 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* **
216378 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGATTACACTC
* * * * * *
216442 AGCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACC
66 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACC
*
216507 TTCGAGTTCGATTACACTCAGCTTTGAGGGCACATC
131 TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * ** *
216543 ATTTGCAGCATAACTTAAATCGAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACCACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAGACCTTCGAGTTCGATTACA
* * * *
216608 CTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAG
63 CTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAG
** * *
216669 ACCCCCAAGTTCGATTACACTCAGCTTCGAGGGCATATC
128 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * * * * *
216708 ATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG--ACCAAAGACCTTCGAGTTCGATTACAC
* ** * * *
216773 TCAGCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTTTAGAAGGGTTTTCTGCCAACAAAAG
64 TCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTC-ACCAAAG
* * * * *
216838 ACCTTTGAGTTCGACTACGCTCAGC-TCAACGGCACATC
128 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * **
216876 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACCCCCGAGTTCGATTACACTC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGATTACACTC
* * * * * *
216940 AGCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGAC
66 AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACC-AAAGAC
* * * * *
217005 CTTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
130 CTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
* * **
217041 ATTTGCAGCATAGCTTAAGCCGAGAAAAGCTATCTG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG
217077 TCAACGAAGA
Statistics
Matches: 865, Mismatches: 147, Indels: 40
0.82 0.14 0.04
Matches are distributed among these distances:
164 89 0.10
165 517 0.60
168 156 0.18
169 103 0.12
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (166 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCTTCGAGTTCGATTACACTC
AGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGTCACCAAAGACC
TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
Found at i:217113 original size:249 final size:249
Alignment explanation
Indices: 215880--217097 Score: 1983
Period size: 249 Copynumber: 4.9 Consensus size: 249
215870 TAAACAAACT
* ** *
215880 ATTTGCAGCATAGCTTAAGCCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTAGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * * * * * *
215945 GCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGAGTTATTTGTCACCAAAGACCT
66 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
*
216010 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
216075 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
*
216129 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCCGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* *
216194 GCTTCGAGGGCATGTCATCTACAGCATAACTCAAGGCTAGAAAGGTTATCTGTCACCAAAGACCT
66 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
* *
216259 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAGCTTAAGTCAAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
216324 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
216378 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
216443 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
66 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
* *
216508 TCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGCATAACTTAAATCGAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
216573 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
*
216627 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCAAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
216692 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
66 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
* **
216757 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCACAACTTAAGTTTAGAAGGGT
131 TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
* * * *
216822 TTTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATC
196 TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAA-GGCACATC
*
216876 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
* * * *
216941 GCTTTGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACC
* * * * * * * **
217006 TTTGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGCCGAGAAAAG
130 TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
* * *
217070 CTATCTGTCAA-CGAAGACCTTTCGAGTT
195 TTATCTGCCAACCAAAGACC-TTCGAGTT
217098 TGATCTCATT
Statistics
Matches: 907, Mismatches: 59, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
248 9 0.01
249 872 0.96
250 26 0.03
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (249 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCGAGGGCATATCATCTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCT
TCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGT
TATCTGCCAACCAAAGACCTTCGAGTTCGACCACGCTCAGCTCCAAGGCACATC
Found at i:217529 original size:38 final size:36
Alignment explanation
Indices: 217489--217793 Score: 219
Period size: 36 Copynumber: 8.6 Consensus size: 36
217479 AAAAATATAT
*
217489 ATATATATATTATATAGTTTCGAAAACATTTTGAAA
1 ATATATATATTATATAGTTTTGAAAACATTTTGAAA
217525 ATATATATATTATATAGTTTTTGAAAA-ATTTTGAAA
1 ATATATATATTATATAG-TTTTGAAAACATTTTGAAA
* * *
217561 ACATATATAATGTATA-ATTTTTGAAAATACTTTTGAAA
1 ATATATAT-AT-TATATAGTTTTGAAAACA-TTTTGAAA
217599 ATATATA-A-TATATAGTTTT-AAAATCATTTTGAAAAA
1 ATATATATATTATATAGTTTTGAAAA-CATTTTG--AAA
*
217635 ATATATATAATATATAGTTTTGAAAACATTTTTTG-AA
1 ATATATATATTATATAGTTTTGAAAACA--TTTTGAAA
* * ** *
217672 ATCT-TATA-TA-ATA-TTTTTAAATTATTTTTTAAA
1 ATATATATATTATATAGTTTTGAAAACA-TTTTGAAA
* * * *
217705 ACTATATA-A-TATATAGTTTTGTAAA-TTTTTTAAG
1 A-TATATATATTATATAGTTTTGAAAACATTTTGAAA
* * *
217739 A-ATATA-A-TATATAGTTTTAAAAAAATATTTTTAAA
1 ATATATATATTATATAGTTTT--GAAAACATTTTGAAA
*
217774 AAATATATATTATATAGTTT
1 ATATATATATTATATAGTTT
217794 ATATTATATT
Statistics
Matches: 223, Mismatches: 21, Indels: 48
0.76 0.07 0.16
Matches are distributed among these distances:
32 22 0.10
33 11 0.05
34 32 0.14
35 21 0.09
36 68 0.30
37 19 0.09
38 41 0.18
39 4 0.02
40 5 0.02
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (36 bp):
ATATATATATTATATAGTTTTGAAAACATTTTGAAA
Found at i:220051 original size:30 final size:31
Alignment explanation
Indices: 220017--220078 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
220007 TTATCGTCTT
* *
220017 ATAGATCAAAATATAA-TAATTTATAATATA
1 ATAGATCAAAATATAATTAATTGATAACATA
* *
220047 ATAGATTAAAATTTAATTAATTGATAACATA
1 ATAGATCAAAATATAATTAATTGATAACATA
220078 A
1 A
220079 GTGACTATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (31 bp):
ATAGATCAAAATATAATTAATTGATAACATA
Found at i:220063 original size:15 final size:15
Alignment explanation
Indices: 220017--220063 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
220007 TTATCGTCTT
*
220017 ATAGATCAAAATATA
1 ATAGATTAAAATATA
*
220032 ATA-ATTTATAATATA
1 ATAGA-TTAAAATATA
*
220047 ATAGATTAAAATTTA
1 ATAGATTAAAATATA
220062 AT
1 AT
220064 TAATTGATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.92
16 1 0.04
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (15 bp):
ATAGATTAAAATATA
Found at i:220362 original size:31 final size:30
Alignment explanation
Indices: 220279--220362 Score: 75
Period size: 29 Copynumber: 2.8 Consensus size: 30
220269 ATTATGACTT
* *
220279 TCATTCTAAATTAGTCTTTAAACCATTGAA
1 TCATTCTAAATTAGTCCTTAAACTATTGAA
* **
220309 -CATTCTAATTTTA-TCCCCAAACTA-TGAATA
1 TCATTCTAA-ATTAGTCCTTAAACTATTG-A-A
220339 TCATTCTAAATTAGTCCTTAAACT
1 TCATTCTAAATTAGTCCTTAAACT
220363 TTTTCATATT
Statistics
Matches: 41, Mismatches: 8, Indels: 9
0.71 0.14 0.16
Matches are distributed among these distances:
28 2 0.05
29 16 0.39
30 7 0.17
31 16 0.39
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (30 bp):
TCATTCTAAATTAGTCCTTAAACTATTGAA
Found at i:220574 original size:58 final size:58
Alignment explanation
Indices: 220470--220629 Score: 157
Period size: 58 Copynumber: 2.7 Consensus size: 58
220460 AAACATATAA
* * * *
220470 TTTA-GGATTAAATTGAAATGTTAAAAACGTGTAGGGACCAATTTAGAATGA-AGATCATAG
1 TTTAGGGA-TAAAATGAAATGTTAAAAA-GTTTAGGGACTAATTTAGAAT-ATAG-TCACAG
*
220530 TTT-GGGATGAAAATGAAATGTT-AAAAGTTTGGGGACTAATTTAGAATATTAGTCACAG
1 TTTAGGGAT-AAAATGAAATGTTAAAAAGTTTAGGGACTAATTTAGAATA-TAGTCACAG
* * * *
220588 TTTAGGGATAAAATTAAATTTTCAAAAGTTTAGGGATTAATT
1 TTTAGGGATAAAATGAAATGTTAAAAAGTTTAGGGACTAATT
220630 GGAAATAATG
Statistics
Matches: 85, Mismatches: 9, Indels: 13
0.79 0.08 0.12
Matches are distributed among these distances:
57 1 0.01
58 37 0.44
59 29 0.34
60 18 0.21
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (58 bp):
TTTAGGGATAAAATGAAATGTTAAAAAGTTTAGGGACTAATTTAGAATATAGTCACAG
Found at i:243201 original size:21 final size:21
Alignment explanation
Indices: 243175--243228 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
243165 GCGTTGCATT
243175 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
243196 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAATTGAAAA
*
243217 TAGCGTTGCGAT
1 TCGCGTTGCGAT
243229 TTTCCATTTC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAATTGAAAA
Found at i:243268 original size:22 final size:20
Alignment explanation
Indices: 243219--243276 Score: 73
Period size: 22 Copynumber: 2.8 Consensus size: 20
243209 GTTGAAAATA
*
243219 GCGTTGCGATTTTCCATTTC
1 GCGTTGCGATTTTCCAGTTC
243239 GCGTTGCGATTTTCTACAGTT-
1 GCGTTGCGATTTTC--CAGTTC
243260 GTCGTTGCGATTTTCCA
1 G-CGTTGCGATTTTCCA
243277 AATTCGTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 16 0.47
21 1 0.03
22 17 0.50
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
GCGTTGCGATTTTCCAGTTC
Found at i:244291 original size:16 final size:15
Alignment explanation
Indices: 244272--244301 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
244262 TTGTTTATGT
244272 TATATTTTAATATATA
1 TATATTTTAA-ATATA
244288 TATATTTTAAATAT
1 TATATTTTAAATAT
244302 TTAAATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTAAATATA
Found at i:245050 original size:18 final size:19
Alignment explanation
Indices: 245009--245050 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
244999 ATTGATTATT
*
245009 TAAATATTTTTAAAATAATA
1 TAAACATTTTTAAAAT-ATA
245029 TAAACATTTTTAAAAT-TA
1 TAAACATTTTTAAAATATA
245047 TAAA
1 TAAA
245051 GTCTAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAACATTTTTAAAATATA
Found at i:262195 original size:19 final size:20
Alignment explanation
Indices: 262152--262203 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
262142 GCTGCTGGAA
*
262152 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCAGTCTCG
*
262172 AACCGGTTTGACCGGTCT-G
1 AACCGGTTTGACCAGTCTCG
*
262191 AACCGGGTTGACC
1 AACCGGTTTGACC
262204 CGACCCGACT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (20 bp):
AACCGGTTTGACCAGTCTCG
Found at i:262225 original size:17 final size:17
Alignment explanation
Indices: 262197--262271 Score: 123
Period size: 17 Copynumber: 4.4 Consensus size: 17
262187 TCTGAACCGG
*
262197 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACC
* *
262214 GTGGATCCGACCCGACC
1 GTTGACCCGACCCGACC
262231 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
262248 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACC
262265 GTTGACC
1 GTTGACC
262272 GTGACCGTTG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 53 1.00
ACGTcount: A:0.17, C:0.43, G:0.25, T:0.15
Consensus pattern (17 bp):
GTTGACCCGACCCGACC
Found at i:262278 original size:6 final size:7
Alignment explanation
Indices: 262261--262290 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
262251 GACCCGACCC
262261 GACCGTT
1 GACCGTT
262268 GACCG-T
1 GACCGTT
262274 GACCGTT
1 GACCGTT
262281 GACCGTT
1 GACCGTT
262288 GAC
1 GAC
262291 TTTCTTTGAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (7 bp):
GACCGTT
Found at i:262279 original size:13 final size:13
Alignment explanation
Indices: 262261--262286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
262251 GACCCGACCC
262261 GACCGTTGACCGT
1 GACCGTTGACCGT
262274 GACCGTTGACCGT
1 GACCGTTGACCGT
262287 TGACTTTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
GACCGTTGACCGT
Found at i:268887 original size:9 final size:9
Alignment explanation
Indices: 268855--268924 Score: 68
Period size: 9 Copynumber: 7.3 Consensus size: 9
268845 CTGCTGGAAA
268855 ACCGGTTTG
1 ACCGGTTTG
*
268864 ACCAGTTTCG
1 ACCGGTTT-G
268874 AACCGGTTTG
1 -ACCGGTTTG
*
268884 ACCGGTCTG
1 ACCGGTTTG
268893 AACCGGTTTG
1 -ACCGGTTTG
*
268903 ACCGGTCTG
1 ACCGGTTTG
*
268912 AACCGGGTTG
1 -ACCGGTTTG
268922 ACC
1 ACC
268925 CGACCCGACT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
9 26 0.52
10 17 0.34
11 7 0.14
ACGTcount: A:0.17, C:0.27, G:0.30, T:0.26
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:268897 original size:19 final size:19
Alignment explanation
Indices: 268854--268924 Score: 106
Period size: 19 Copynumber: 3.7 Consensus size: 19
268844 GCTGCTGGAA
* *
268854 AACCGGTTTGACCAGTTTCG
1 AACCGGTTTGACCGGTCT-G
268874 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
268893 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
*
268912 AACCGGGTTGACC
1 AACCGGTTTGACC
268925 CGACCCGACT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
19 32 0.67
20 16 0.33
ACGTcount: A:0.18, C:0.27, G:0.30, T:0.25
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:268943 original size:17 final size:17
Alignment explanation
Indices: 268918--268992 Score: 114
Period size: 17 Copynumber: 4.4 Consensus size: 17
268908 TCTGAACCGG
268918 GTTGACCCGACCCGACT
1 GTTGACCCGACCCGACT
*
268935 GTGGACCCGACCCGACT
1 GTTGACCCGACCCGACT
*
268952 GTTGACCCGACCCGACC
1 GTTGACCCGACCCGACT
* *
268969 GTTGACCCTACCCGACC
1 GTTGACCCGACCCGACT
268986 GTTGACC
1 GTTGACC
268993 GTTGACCGTG
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 54 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (17 bp):
GTTGACCCGACCCGACT
Done.