Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008294.1 Hibiscus syriacus cultivar Beakdansim tig00110959_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: 362436
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:3909 original size:20 final size:20
Alignment explanation
Indices: 3883--3928 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
3873 CACTTTTAAA
3883 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
3902 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
3923 TTTACC
1 TTTACC
3929 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:4431 original size:227 final size:226
Alignment explanation
Indices: 3994--4439 Score: 736
Period size: 227 Copynumber: 2.0 Consensus size: 226
3984 TTAAAACTGC
3994 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
** *
4059 TTAATTTAATAATTTAATTTACACAAATTTTATTTGATTGTTTTTATATTTTATAAAATATTATT
66 TTAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
* *
4124 AGCATTTAAATTTAAAAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAAGT
131 AGCATTTAAATTTAAAAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGT
* *
4189 ATGTACACTTTTATAAAAATGATATATACTT
196 ATGGACACTTTTATAAAAAGGATATATACTT
*
4220 TTTTGAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
4285 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACAC-AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
4350 TTTAG-ATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTC-ACAGTGAAAT
129 -TTAGCA-TTTAAATTTAAAAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAAT
4413 AAGTATGGACAC-TTTATAAAAAGGATA
192 AAGTATGGACACTTTTATAAAAAGGATA
4440 GATAATTTAC
Statistics
Matches: 205, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
226 4 0.02
227 97 0.47
228 58 0.28
229 46 0.22
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (226 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATT
AGCATTTAAATTTAAAAATATTAACCAAAGATAATAATAAATATATTTTCAACAGTGAAATAAGT
ATGGACACTTTTATAAAAAGGATATATACTT
Found at i:9536 original size:22 final size:21
Alignment explanation
Indices: 9501--9542 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
9491 ATGCTCAAAT
9501 TTTTTAATAATTTAGAATAATG
1 TTTTTAATAATTTA-AATAATG
**
9523 TTTTTAATTTTTTAAATAAT
1 TTTTTAATAATTTAAATAAT
9543 TGATAACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTTAATAATTTAAATAATG
Found at i:18225 original size:31 final size:31
Alignment explanation
Indices: 18188--18251 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
18178 GATCACATCA
18188 TAATTAAATAAAAACGAAAGTGACTATATCT
1 TAATTAAATAAAAACGAAAGTGACTATATCT
18219 TAATTAAATAAAAACGAAAGTGACTATATCT
1 TAATTAAATAAAAACGAAAGTGACTATATCT
18250 TA
1 TA
18252 TGTTTTTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (31 bp):
TAATTAAATAAAAACGAAAGTGACTATATCT
Found at i:30528 original size:16 final size:15
Alignment explanation
Indices: 30496--30529 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
30486 TTTTGACCAT
*
30496 AAATTAAAATGTTAA
1 AAATTAAAATCTTAA
30511 AAATTAAAATACTTAA
1 AAATTAAAAT-CTTAA
30527 AAA
1 AAA
30530 ATAGAACCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (15 bp):
AAATTAAAATCTTAA
Found at i:35466 original size:24 final size:20
Alignment explanation
Indices: 35409--35449 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
35399 TTCCCATTGC
*
35409 AGTGCATCGGTGCATTCTTT
1 AGTGCATCGATGCATTCTTT
35429 AGTGCATCGATGCATTCTTT
1 AGTGCATCGATGCATTCTTT
35449 A
1 A
35450 ACATGTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTTT
Found at i:50035 original size:21 final size:21
Alignment explanation
Indices: 49966--50035 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
49956 TAAGCATGCA
49966 AATAAGCTTACGAGCTTATGG
1 AATAAGCTTACGAGCTTATGG
* *
49987 AATAA--TGACAAG-TATATTGG
1 AATAAGCTTACGAGCT-TA-TGG
50007 TAAAATAAGCTTACGAGCTTATGG
1 ---AATAAGCTTACGAGCTTATGG
50031 AATAA
1 AATAA
50036 ATGGTAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 1 0.03
19 7 0.19
20 3 0.08
21 10 0.27
23 5 0.14
24 3 0.08
25 7 0.19
26 1 0.03
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (21 bp):
AATAAGCTTACGAGCTTATGG
Found at i:50060 original size:45 final size:45
Alignment explanation
Indices: 49965--50217 Score: 424
Period size: 45 Copynumber: 5.7 Consensus size: 45
49955 GTAAGCATGC
**
49965 AAATAAGCTTACGAGCTTATGGAAT-AATGACAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
50009 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
50054 AAATAAGCTTACGAGCTTATGGAAT-AATAGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
50098 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
50143 AAATAAGC-T-CGAGCTTATGGAATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* *
50186 AAATAAGCTTACAAGCTTATGGGATAAATGGT
1 AAATAAGCTTACGAGCTTATGGAATAAATGGT
50218 GAGAAATTTT
Statistics
Matches: 198, Mismatches: 7, Indels: 7
0.93 0.03 0.03
Matches are distributed among these distances:
43 41 0.21
44 70 0.35
45 87 0.44
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:50093 original size:89 final size:88
Alignment explanation
Indices: 49965--50217 Score: 420
Period size: 89 Copynumber: 2.9 Consensus size: 88
49955 GTAAGCATGC
*
49965 AAATAAGCTTACGAGCTTATGGAATAATGACAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGAATAATG-TAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
50030 GAATAAATGGTAAGTATATTGGTA
65 GAATAAATGGTAAGTATATTGGTA
50054 AAATAAGCTTACGAGCTTATGGAATAATAGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
1 AAATAAGCTTACGAGCTTATGGAATAAT-GTAAGTATATTGGTAAAATAAGCTTACGAGCTTATG
50119 GAATAAATGGTAAGTATATTGGTA
65 GAATAAATGGTAAGTATATTGGTA
* *
50143 AAATAAGC-T-CGAGCTTATGGAATAAATGGTAAGTATTTTGGTAAAATAAGCTTACAAGCTTAT
1 AAATAAGCTTACGAGCTTATGGAAT-AAT-GTAAGTATATTGGTAAAATAAGCTTACGAGCTTAT
*
50206 GGGATAAATGGT
64 GGAATAAATGGT
50218 GAGAAATTTT
Statistics
Matches: 157, Mismatches: 5, Indels: 5
0.94 0.03 0.03
Matches are distributed among these distances:
87 14 0.09
88 48 0.31
89 94 0.60
90 1 0.01
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.31
Consensus pattern (88 bp):
AAATAAGCTTACGAGCTTATGGAATAATGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGG
AATAAATGGTAAGTATATTGGTA
Found at i:54402 original size:21 final size:21
Alignment explanation
Indices: 54378--54428 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
54368 ATGGGTATTT
* * *
54378 GATGATCATAAAATAATTTAA
1 GATGAACATAAAACAATTCAA
54399 GATGAACATAAAACAATTCAA
1 GATGAACATAAAACAATTCAA
54420 GATGGAACA
1 GAT-GAACA
54429 AATTAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.53, C:0.10, G:0.14, T:0.24
Consensus pattern (21 bp):
GATGAACATAAAACAATTCAA
Found at i:55996 original size:126 final size:126
Alignment explanation
Indices: 55771--56022 Score: 441
Period size: 126 Copynumber: 2.0 Consensus size: 126
55761 AGAGGAACAT
* * *
55771 CAATACAAACTTGGTGGAGGTATTTAATAATACGCATGTGGGTTCAGTAGTGGCATTGGATGCTG
1 CAATACAAACGTGGTGGAGGAATTTAATAATACGCATGTGGGTTCAGTAGTGGCATTGGACGCTG
* * * *
55836 CTCACGAGGTAAATGCTTTCGATGGTCCTTTTACGCCTTTGGATAGGTCGTTAAACAAGGG
66 CTCACGAGGTAAATGCTTTCGAGGGTCCTTTTACGCCTCTGGATAAGTCATTAAACAAGGG
55897 CAATACAAACGTGGTGGAGGAATTTAATAATACGCATGTGGGTTCAGTAGTGGCATTGGACGCTG
1 CAATACAAACGTGGTGGAGGAATTTAATAATACGCATGTGGGTTCAGTAGTGGCATTGGACGCTG
55962 CTCACGAGGTAAATGCTTTCGAGGGTCCTTTTACGCCTCTGGATAAGTCATTAAACAAGGG
66 CTCACGAGGTAAATGCTTTCGAGGGTCCTTTTACGCCTCTGGATAAGTCATTAAACAAGGG
56023 TATTGTCGTT
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
126 119 1.00
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.29
Consensus pattern (126 bp):
CAATACAAACGTGGTGGAGGAATTTAATAATACGCATGTGGGTTCAGTAGTGGCATTGGACGCTG
CTCACGAGGTAAATGCTTTCGAGGGTCCTTTTACGCCTCTGGATAAGTCATTAAACAAGGG
Found at i:71096 original size:4 final size:4
Alignment explanation
Indices: 71087--71134 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
71077 TTTTTTCTTA
* * ** *
71087 TATG TATG TATG TATG CATG TATG CATG TATG CCTG TATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
71135 AAAAAATAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (4 bp):
TATG
Found at i:71100 original size:8 final size:8
Alignment explanation
Indices: 71088--71134 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
71078 TTTTTCTTAT
*
71088 ATGTATGT
1 ATGTATGC
71096 ATGTATGC
1 ATGTATGC
71104 ATGTATGC
1 ATGTATGC
71112 ATGTATGC
1 ATGTATGC
*
71120 CTGTATGC
1 ATGTATGC
71128 ATGTATG
1 ATGTATG
71135 AAAAAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 36 1.00
ACGTcount: A:0.23, C:0.11, G:0.26, T:0.40
Consensus pattern (8 bp):
ATGTATGC
Found at i:71325 original size:22 final size:22
Alignment explanation
Indices: 71282--71326 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
71272 CATTCTTATT
* *
71282 ATATTATGTTATACATAAAAAA
1 ATATAATGTTAAACATAAAAAA
*
71304 ATATAATGTTAAACA-AATAAA
1 ATATAATGTTAAACATAAAAAA
71325 AT
1 AT
71327 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATAATGTTAAACATAAAAAA
Found at i:73289 original size:23 final size:23
Alignment explanation
Indices: 73263--73354 Score: 73
Period size: 24 Copynumber: 3.9 Consensus size: 23
73253 AAATTAAGAT
73263 TTTTAATA-ATTTAATTTTTATTA
1 TTTTAATATATTTAATTTTTA-TA
73286 TTTT--TATATTTAATTTATTAAATA
1 TTTTAATATATTTAATTT-TT--ATA
* *
73310 TATTAATAATATTTTATATTTTATA
1 TTTTAAT-ATATTTAAT-TTTTATA
* *
73335 TTTAAATATTTTTAATTTTT
1 TTTTAATATATTTAATTTTT
73355 TATAAAAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
21 2 0.04
22 9 0.16
23 10 0.18
24 12 0.22
25 9 0.16
26 1 0.02
27 10 0.18
28 2 0.04
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTTAATATATTTAATTTTTATA
Found at i:74127 original size:3 final size:3
Alignment explanation
Indices: 74091--74154 Score: 53
Period size: 3 Copynumber: 20.7 Consensus size: 3
74081 CAAAAACATT
74091 TTA TTA -TA TTA TATA TTTA TTTA TTTA TTTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA T-TA -TTA -TTA -TTA -TTA TTA TTA TTA TTA TTA
*
74137 -TA TTT TTA TT- TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
74155 TTTGCATGCC
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 6 0.11
3 31 0.57
4 16 0.30
5 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:74156 original size:8 final size:8
Alignment explanation
Indices: 74088--74156 Score: 56
Period size: 8 Copynumber: 8.6 Consensus size: 8
74078 CTACAAAAAC
74088 ATTTTATT
1 ATTTTATT
*
74096 ATATTA-T
1 ATTTTATT
74103 ATATTTATT
1 AT-TTTATT
74112 -TATTTATT
1 AT-TTTATT
*
74120 -TATTATT
1 ATTTTATT
74127 ATTATTATT
1 ATT-TTATT
74136 ATATTT-TT
1 AT-TTTATT
74144 ATTTTATT
1 ATTTTATT
74152 ATTTT
1 ATTTT
74157 TGCATGCCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
7 11 0.22
8 29 0.57
9 10 0.20
10 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
ATTTTATT
Found at i:74250 original size:33 final size:33
Alignment explanation
Indices: 74204--74290 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 33
74194 TTCAGAAAAT
*
74204 AAACCAACGTATTTGAGTCCTATTGAAACACTA
1 AAACCAACATATTTGAGTCCTATTGAAACACTA
*
74237 AAACCAACATATTTAAGTCCTATTGAAACACTA
1 AAACCAACATATTTGAGTCCTATTGAAACACTA
74270 AAACCAAAGCAT-TTTGAGTCC
1 AAACC-AA-CATATTTGAGTCC
74291 AAGTAGGACT
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
33 36 0.73
34 10 0.20
35 3 0.06
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.26
Consensus pattern (33 bp):
AAACCAACATATTTGAGTCCTATTGAAACACTA
Found at i:74652 original size:32 final size:32
Alignment explanation
Indices: 74616--74706 Score: 89
Period size: 32 Copynumber: 2.8 Consensus size: 32
74606 TTTCTCCTAA
* *
74616 TTTTAATA-ATTTTTATTTCTTTTTACATTGTT
1 TTTTAATATATATTTATTTATTTTTACATT-TT
*
74648 TTTT-ATATATATTTATTTATTTTTTCATTTT
1 TTTTAATATATATTTATTTATTTTTACATTTT
74679 TTATTAATAT-TATTATATTAATATTTTT
1 TT-TTAATATATATT-TATT--TATTTTT
74707 TTTATTCTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
31 7 0.14
32 28 0.56
33 8 0.16
35 7 0.14
ACGTcount: A:0.26, C:0.03, G:0.01, T:0.69
Consensus pattern (32 bp):
TTTTAATATATATTTATTTATTTTTACATTTT
Found at i:78554 original size:110 final size:110
Alignment explanation
Indices: 78353--78660 Score: 485
Period size: 110 Copynumber: 2.8 Consensus size: 110
78343 GATGGTGGTT
78353 GCTCAACTTCACAGCGAAGGGGTGACTGAC-AGTCAACAAATAACTTTTTCAGTTTCATTCAGAG
1 GCTCAACTTCACAGCGAAGGGGTGACTGACTA-TCAACAAATAA-TTTTTCAGTTTCATTCAGAG
* * *
78417 TCAATTTCAACTTCATAGCGAATGATATTGGACTCGAGACAACACAA
64 TCAATTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAA
*
78464 GCTCAACTTCACAGCGAAGGGGTGACTGACTATCAACAAA-AATTTTTTTAGTTTCATTCAGAGT
1 GCTCAACTTCACAGCGAAGGGGTGACTGACTATCAACAAATAA-TTTTTCAGTTTCATTCAGAGT
78528 CAATTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAA
65 CAATTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAA
* * * * *
78574 GCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGATTC
1 GCTCAACTTCACAGCGAAGGGGTGACTGACTATCAACAAATAATTTTTCAGTTTCATTCAGAGTC
*
78639 AATTTCAATTTCACAGCGAAGG
66 AATTTCAACTTCACAGCGAAGG
78661 GGCGACTGAC
Statistics
Matches: 183, Mismatches: 12, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
110 142 0.78
111 40 0.22
112 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (110 bp):
GCTCAACTTCACAGCGAAGGGGTGACTGACTATCAACAAATAATTTTTCAGTTTCATTCAGAGTC
AATTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAA
Found at i:78680 original size:177 final size:177
Alignment explanation
Indices: 78466--78907 Score: 628
Period size: 177 Copynumber: 2.5 Consensus size: 177
78456 CAACACAAGC
* * *
78466 TCAACTTCACAGCGAAGGGGTGACTGACTATCAACAAAAATTTTTTTAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAAAATCTTTTCAGTTTCATTCAGAGTCAA
78531 TTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
66 TTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
** * * *
78596 CGGCTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGATTCAATT
131 CAACTAACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* * *
78643 TCAATTTCACAGCGAAGGGGCGACTGACTGTCAACAAACATCTTTTCAGTTTCATTCAGAGTCAA
1 TCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAAAATCTTTTCAGTTTCATTCAGAGTCAA
* * * * *
78708 TTTCAATTTCACAGCAAACGATATTGGACTCGAGACAACACAAGCTCAACTTCACAGCGAATGGG
66 TTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
78773 CAACTAACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
131 CAACTAACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
* * * *
78820 TTAACTTCACAACGAAGGGGTGGCT-AGTTGTCAACAAATAA-CTTTTCAG-TT--TT-AGAGTC
1 TCAACTTCACAGCGAAGGGGTGACTGA-CTGTCAACAAA-AATCTTTTCAGTTTCATTCAGAGTC
78879 AATTTCAACTTCAC-GACGAAGGATATTGG
64 AATTTCAACTTCACAG-CGAAGGATATTGG
78908 CCTCGAAACA
Statistics
Matches: 236, Mismatches: 26, Indels: 10
0.87 0.10 0.04
Matches are distributed among these distances:
172 1 0.00
173 30 0.13
174 2 0.01
176 3 0.01
177 199 0.84
178 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (177 bp):
TCAACTTCACAGCGAAGGGGTGACTGACTGTCAACAAAAATCTTTTCAGTTTCATTCAGAGTCAA
TTTCAACTTCACAGCGAAGGATATTGGAATCGAGACAACACAAGCTCAACTTCACAGCGAAGGGG
CAACTAACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAATT
Found at i:78689 original size:67 final size:67
Alignment explanation
Indices: 78576--78722 Score: 249
Period size: 67 Copynumber: 2.2 Consensus size: 67
78566 CAACACAAGC
* * * *
78576 TCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAATAACTTTTCAGTTTCATTCAGATTCAA
1 TCAATTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
78641 TT
66 TT
*
78643 TCAATTTCACAGCGAAGGGGCGACTGACTGTCAACAAACATCTTTTCAGTTTCATTCAGAGTCAA
1 TCAATTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
78708 TT
66 TT
78710 TCAATTTCACAGC
1 TCAATTTCACAGC
78723 AAACGATATT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 75 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (67 bp):
TCAATTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCAA
TT
Found at i:79279 original size:84 final size:83
Alignment explanation
Indices: 79034--79797 Score: 724
Period size: 84 Copynumber: 9.2 Consensus size: 83
79024 GTGCCCACCA
* * *
79034 AAAG-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
79098 GAAGGGTTATCTGTCAACC
66 GAAGGGTTATCTGT-AACC
* * * * * * ** * * *
79117 GAAGA-CTCTCGAGTTTGATTATACTCAGCTTCGAGGGCACATCATTTATAACATAACTCAAGGC
1 AAAGACCT-TCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC
* *
79181 TAGAAGGGTTATCTGTGACC
64 GAGAAGGGTTATCTGTAACC
** * *
79201 AAAAGACCTTTAAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *
79266 AGAAGTGTTATCTGCCAACC
65 AGAAGGGTTATCTG-TAACC
* *
79286 AAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
79351 GAAGGGCTATCT-T--CC
66 GAAGGGTTATCTGTAACC
* * * * ** * * * *
79366 AAAAACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTATAGTATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
*
79431 AGAAGGGTTATCTGTGACC
65 AGAAGGGTTATCTGTAACC
* * * *
79450 AAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTACAGCATAACTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
* *
79515 ATAAGGGTTATCTGCCAACC
65 AGAAGGGTTATCTG-TAACC
* * * * * *
79535 AAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGTATAGCTTAAGTTGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
79600 GAAGGGCTATCTG---CC
66 GAAGGGTTATCTGTAACC
* * * ** * * * * * *
79615 AAAGACCCTCGAGTTCGATTACACTCAACTTTGAGGGCACATCATTTACAACATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCG
*
79680 ATAAGGGTTATCTGTCAA-C
65 AGAAGGGTTATCTGT-AACC
* * * * * *
79699 AAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTCG
**
79764 AGAAGGACTATCTG---CC
65 AGAAGGGTTATCTGTAACC
79780 AAAGACCTTCGAGTTCGA
1 AAAGACCTTCGAGTTCGA
79798 TTCCATTCAG
Statistics
Matches: 548, Mismatches: 114, Indels: 40
0.78 0.16 0.06
Matches are distributed among these distances:
80 53 0.10
81 93 0.17
82 1 0.00
83 11 0.02
84 297 0.54
85 91 0.17
86 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.25
Consensus pattern (83 bp):
AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
GAAGGGTTATCTGTAACC
Found at i:79480 original size:249 final size:249
Alignment explanation
Indices: 79025--79797 Score: 1074
Period size: 249 Copynumber: 3.1 Consensus size: 249
79015 AAGGGAATCG
* *
79025 TGCCCACCAAA-AGCCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAAC
1 TGCCAACCAAAGA-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGC
* * * * *
79089 TTAAGTCAAGAAGGGTTATCTGT-CAACCGAAGACTCTCGAGTTTGATTATACTCAGCTTCGAGG
65 TTAAGTCGAGAAGGGCTATCT-TCCAA---AA-ACCCTCGAGTTCGATTACACTCAGCTTCGAGG
**
79153 GCACATCATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTTAAGTTC
125 GCACATCATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTC
*
79218 GACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGTGTTATC
190 GACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
* * *
79278 TGCCAACCAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCT
*
79343 TAAGTCGAGAAGGGCTATCTTCCAAAAACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACAT
66 TAAGTCGAGAAGGGCTATCTTCCAAAAACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
**
79408 CATTTATAGTATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
131 CATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
* * *
79473 GCTCAGCTCCAAGACATATCATTTACAGCATAACTTAAGTCGATAAGGGTTATC
196 GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
* *
79527 TGCCAACCAAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGTATAGCT
1 TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCT
* * * * *
79592 TAAGTTGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAACTTTGAGGGCACAT
66 TAAGTCGAGAAGGGCTATCTTCCAAAAACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
* * * * *
79657 CATTTACAACATAACTCAAGGCTATAAGGGTTATCTGTCAAC-AAAGACCTTCGAGTTCGACTCC
131 CATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
* * * * * * * **
79721 ACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGACTATC
196 GCTCAGCTCCAAGGCA-TATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
79776 TG----CCAAAGACCTTCGAGTTCGA
1 TGCCAACCAAAGACCTTCGAGTTCGA
79798 TTCCATTCAG
Statistics
Matches: 467, Mismatches: 50, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
245 19 0.04
248 34 0.07
249 331 0.71
250 2 0.00
252 1 0.00
253 79 0.17
254 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (249 bp):
TGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCT
TAAGTCGAGAAGGGCTATCTTCCAAAAACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACAT
CATTTATAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTAC
GCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
Found at i:79798 original size:165 final size:164
Alignment explanation
Indices: 79034--79810 Score: 767
Period size: 165 Copynumber: 4.7 Consensus size: 164
79024 GTGCCCACCA
79034 AAAG-CCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAA
* * * * *
79098 GAAGGGTTATCTGTCAACCGAAGA-CTCTCGAGTTTGATTATACTCAGCTTCGAGGGCACATCAT
66 GAAGGGTTATCTG---ACCAAAGACCT-TCGAGTTCGATTACACTCAGC-TCCAAGGCACATCAT
* * * *
79162 TTATAACATAACTCAAGGCTAGAAGGGTTATCTGTGACC
126 TTACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC
** * * *
79201 AAAAGACCTTTAAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCG
1 -AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCA
* * *
79266 AGAAGTGTTATCTGCCAACCAAAGACCTTCGAGTTTGACTACACTCAGCTCCAAGGCACATCATT
65 AGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATT
* * * * * *
79331 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-TC--C
127 TACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC
* * * * * ** * * *
79366 AAAAACCCTCGAGTTCGATTACACTCAGCTTCGAAGGCACATCATTTATAGTATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGTATAACTTAAGTCA
* * * *
79431 AGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATATCATT
65 AGAAGGGTTATC--TGACC-AAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATT
* * * * *
79496 TACAGCATAACTTAAGTCGATAAGGGTTATCTGCCAACC
127 TACAACATAACTCAAGGCGAGAAGGGTTATCTGTCAA-C
* * * **
79535 AAAGACTTTCGAGTTCGACTACGCTCAGCTCCAAGGAACATCATTTGCAGTATAGCTTAAGTTGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAA
* * * ** *
79600 GAAGGGCTATCTG-CCAAAGACCCTCGAGTTCGATTACACTCAACTTTGAGGGCACATCATTTAC
66 GAAGGGTTATCTGACCAAAGACCTTCGAGTTCGATTACACTCAGC-TCCAAGGCACATCATTTAC
* *
79664 AACATAACTCAAGGCTATAAGGGTTATCTGTCAAC
130 AACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC
* * * * * * *
79699 AAAGACCTTCGAGTTCGACTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCA-CATCATTTGCAGTATAACTTAAGTCA
** * *
79764 AGAAGGACTATCTG-CCAAAGACCTTCGAGTTCGATTCCATTCAGCTC
65 AGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
79811 GAGGGCGTAT
Statistics
Matches: 507, Mismatches: 90, Indels: 28
0.81 0.14 0.04
Matches are distributed among these distances:
164 86 0.17
165 214 0.42
166 3 0.01
167 3 0.01
168 79 0.16
169 120 0.24
170 2 0.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (164 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAACTTAAGTCAA
GAAGGGTTATCTGACCAAAGACCTTCGAGTTCGATTACACTCAGCTCCAAGGCACATCATTTACA
ACATAACTCAAGGCGAGAAGGGTTATCTGTCAAC
Found at i:80180 original size:17 final size:20
Alignment explanation
Indices: 80142--80177 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
80132 ACAAAAACAT
80142 TTTATTATATTATATATTTA
1 TTTATTATATTATATATTTA
80162 TTTATTA-ATTAT-TATT
1 TTTATTATATTATATATT
80178 ATTATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.25
19 5 0.31
20 7 0.44
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTATTATATTATATATTTA
Found at i:80301 original size:33 final size:33
Alignment explanation
Indices: 80264--80326 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
80254 ATAAACTAAC
*
80264 GTATTTGAGTCTTATTAAAACACTAAAACCAAT
1 GTATTTGAGTCCTATTAAAACACTAAAACCAAT
*
80297 GTATTTGAGTCCTATTGAAACACTAAAACC
1 GTATTTGAGTCCTATTAAAACACTAAAACC
80327 GAAGCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (33 bp):
GTATTTGAGTCCTATTAAAACACTAAAACCAAT
Found at i:80743 original size:14 final size:14
Alignment explanation
Indices: 80726--80762 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
80716 TATTTTTTCA
80726 TATTTTATTAATAT
1 TATTTTATTAATAT
*
80740 TATTATATTAATAT
1 TATTTTATTAATAT
80754 T-TTTTATTA
1 TATTTTATTA
80763 TTTTTTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTTTATTAATAT
Found at i:81129 original size:3 final size:3
Alignment explanation
Indices: 81121--81160 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
81111 CGACCGCGAC
81121 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
81161 TTGATACATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:84207 original size:12 final size:12
Alignment explanation
Indices: 84192--84216 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
84182 AATAATAAAA
84192 TTATGTAATAAT
1 TTATGTAATAAT
84204 TTATGTAATAAT
1 TTATGTAATAAT
84216 T
1 T
84217 ATATTTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TTATGTAATAAT
Found at i:84473 original size:39 final size:40
Alignment explanation
Indices: 84393--84502 Score: 150
Period size: 39 Copynumber: 2.8 Consensus size: 40
84383 AAAACATAAA
* * *
84393 ATATTTTTTAGAACCAAATGAGTAAGATGATATACGAGTC
1 ATATTTTCTAGAACCAAACGAGTCAGATGATATACGAGTC
* * *
84433 ATATTTTCTAGAACCAAACG-GTCATATGATATATGGGTC
1 ATATTTTCTAGAACCAAACGAGTCAGATGATATACGAGTC
*
84472 ATATTTTCTAGAACCAAACGTGTCAGATGAT
1 ATATTTTCTAGAACCAAACGAGTCAGATGAT
84503 GTAATGATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 35 0.56
40 27 0.44
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (40 bp):
ATATTTTCTAGAACCAAACGAGTCAGATGATATACGAGTC
Found at i:87463 original size:17 final size:17
Alignment explanation
Indices: 87420--87466 Score: 67
Period size: 17 Copynumber: 2.8 Consensus size: 17
87410 TGAATCGAAT
* *
87420 GAACTCGACCCTAGCTC
1 GAACTCGACTCGAGCTC
87437 GAACTCGACTCGAGCTC
1 GAACTCGACTCGAGCTC
*
87454 GAACTTGACTCGA
1 GAACTCGACTCGA
87467 ATTCTTAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.26, C:0.34, G:0.21, T:0.19
Consensus pattern (17 bp):
GAACTCGACTCGAGCTC
Found at i:87577 original size:14 final size:14
Alignment explanation
Indices: 87558--87587 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
87548 TTAGATTTTT
*
87558 TTAAAATTACATTA
1 TTAAAAATACATTA
87572 TTAAAAATACATTA
1 TTAAAAATACATTA
87586 TT
1 TT
87588 CATAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:87682 original size:17 final size:17
Alignment explanation
Indices: 87660--87692 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
87650 TTCGAGTTTG
87660 AGTTCGAGCTTGAATCA
1 AGTTCGAGCTTGAATCA
87677 AGTTCGAGCTTGAATC
1 AGTTCGAGCTTGAATC
87693 GAGCTCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.30
Consensus pattern (17 bp):
AGTTCGAGCTTGAATCA
Found at i:92791 original size:21 final size:21
Alignment explanation
Indices: 92767--92819 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
92757 TTCTGACTCC
* *
92767 TCGTTGTCATCATCATCGTCA
1 TCGTCGTCATCACCATCGTCA
*
92788 TCGTCGTCGTCACCATCGTCA
1 TCGTCGTCATCACCATCGTCA
* *
92809 TCATCATCATC
1 TCGTCGTCATC
92820 GTCGTCCTGA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (21 bp):
TCGTCGTCATCACCATCGTCA
Found at i:92804 original size:15 final size:15
Alignment explanation
Indices: 92786--92825 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
92776 TCATCATCGT
*
92786 CATCGTCGTCGTCAC
1 CATCGTCGTCATCAC
* *
92801 CATCGTCATCATCAT
1 CATCGTCGTCATCAC
92816 CATCGTCGTC
1 CATCGTCGTC
92826 CTGAGCAGGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.17, C:0.38, G:0.15, T:0.30
Consensus pattern (15 bp):
CATCGTCGTCATCAC
Found at i:95038 original size:12 final size:10
Alignment explanation
Indices: 95024--95063 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
95014 ACCTTAAAAA
*
95024 GAGAGTATTT
1 GAGAGAATTT
95034 GAGAGAAATTT
1 GAGAG-AATTT
95045 -AGAGAATTT
1 GAGAGAATTT
95054 GAGAGAATTT
1 GAGAGAATTT
95064 AGTGTGATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
9 5 0.19
10 18 0.67
11 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.33
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:95053 original size:20 final size:19
Alignment explanation
Indices: 95025--95065 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
95015 CCTTAAAAAG
*
95025 AGAGTATTTGAGAGAAATTT
1 AGAGAATTTGAGAG-AATTT
95045 AGAGAATTTGAGAGAATTT
1 AGAGAATTTGAGAGAATTT
95064 AG
1 AG
95066 TGTGATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.41, C:0.00, G:0.27, T:0.32
Consensus pattern (19 bp):
AGAGAATTTGAGAGAATTT
Found at i:95238 original size:50 final size:50
Alignment explanation
Indices: 95184--95309 Score: 139
Period size: 50 Copynumber: 2.5 Consensus size: 50
95174 AGATATCCAA
* * * *
95184 GTATAGCGCGGATC-AGAGGGCGTGCTATACCCACGTGGTGCCAGATCACC
1 GTATAGCGCGGAGCAAG-GGGCGCGCTATACCCACGTGGCGCCAAATCACC
* * *
95234 GTATATCGCGGGGCAAGGGGCGCGCTATACCCACGTGGCGCCAAATCAGC
1 GTATAGCGCGGAGCAAGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
* *
95284 ATATAGCGCGGTA-CAGGGGGCGCGCT
1 GTATAGCGCGG-AGCAAGGGGCGCGCT
95310 TTTCTGCTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
50 61 0.97
51 2 0.03
ACGTcount: A:0.21, C:0.28, G:0.35, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGAGCAAGGGGCGCGCTATACCCACGTGGCGCCAAATCACC
Found at i:95944 original size:19 final size:20
Alignment explanation
Indices: 95920--95965 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
95910 TAAAATATTA
*
95920 TAAAATTTAAAATT-TAATT
1 TAAAATTTAAAATTATAACT
*
95939 TAAAA-TAAAAATTATAACT
1 TAAAATTTAAAATTATAACT
95958 TAAAATTT
1 TAAAATTT
95966 GATATAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 7 0.32
19 14 0.64
20 1 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAAATTTAAAATTATAACT
Found at i:96458 original size:13 final size:13
Alignment explanation
Indices: 96440--96466 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
96430 AGTTGCCATT
96440 ATCATCTCTGATA
1 ATCATCTCTGATA
96453 ATCATCTCTGATA
1 ATCATCTCTGATA
96466 A
1 A
96467 GGCCTTATGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (13 bp):
ATCATCTCTGATA
Found at i:104384 original size:84 final size:85
Alignment explanation
Indices: 104242--104417 Score: 264
Period size: 84 Copynumber: 2.1 Consensus size: 85
104232 TTAAGTTGGT
*
104242 ATTAAATTGGTTACTCCAAATTCAGTTAAACATTTAATAATAAAATTAGCTGTCTTTTAAAATAA
1 ATTAAATTGGCTACTCCAAATTCAGTTAAACATTTAATAATAAAATTAGCTGTCTTTTAAAATAA
* *
104307 GAGTGTTTCAGTTATATCTA
66 GAGTATTTCAATTATATCTA
* * * *
104327 ATTAAGTTGGCTAGTCCAAATTCAG-TAAACATTTAATAATAATATTAGTTGTCTTTTAAAATAA
1 ATTAAATTGGCTACTCCAAATTCAGTTAAACATTTAATAATAAAATTAGCTGTCTTTTAAAATAA
* *
104391 GAGTATTTTAATTATTTCTA
66 GAGTATTTCAATTATATCTA
104411 ATTAAAT
1 ATTAAAT
104418 AAATATAAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 59 0.73
85 22 0.27
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.41
Consensus pattern (85 bp):
ATTAAATTGGCTACTCCAAATTCAGTTAAACATTTAATAATAAAATTAGCTGTCTTTTAAAATAA
GAGTATTTCAATTATATCTA
Found at i:104493 original size:22 final size:25
Alignment explanation
Indices: 104455--104500 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 25
104445 CTTATAATTC
104455 AATAATGAATAATTAGTTA-AAAAT
1 AATAATGAATAATTAGTTATAAAAT
104479 AATAATG-A-AATTAGTTATAAAA
1 AATAATGAATAATTAGTTATAAAA
104501 ATTAATGGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 9 0.43
23 5 0.24
24 7 0.33
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.33
Consensus pattern (25 bp):
AATAATGAATAATTAGTTATAAAAT
Found at i:111288 original size:52 final size:52
Alignment explanation
Indices: 111182--111288 Score: 117
Period size: 52 Copynumber: 2.1 Consensus size: 52
111172 TGTCAAAAAT
* * * * *
111182 TATTTTTGTCACCTTTAAAATGAGTAATTGTGACTTATTTTTCTTTGATTAC
1 TATTTTTGTCACCTTTAAAATGAATAATTGTGACATATTTCTATTTGATCAC
* * * *
111234 TATTTTTGTCA-CTATTGAAGTGAATAATTGTGTCATATTTCTATTTGGTCAC
1 TATTTTTGTCACCT-TTAAAATGAATAATTGTGACATATTTCTATTTGATCAC
111286 TAT
1 TAT
111289 AAACTTTGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
51 2 0.04
52 43 0.96
ACGTcount: A:0.25, C:0.11, G:0.13, T:0.50
Consensus pattern (52 bp):
TATTTTTGTCACCTTTAAAATGAATAATTGTGACATATTTCTATTTGATCAC
Found at i:113050 original size:24 final size:25
Alignment explanation
Indices: 113026--113072 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
113016 TTTATGAACA
*
113026 AATCTA-TCGATGA-TTCATCATAC
1 AATCTACTCGATAATTTCATCATAC
*
113049 AATCTACTGGATAATTTCATCATA
1 AATCTACTCGATAATTTCATCATA
113073 ATATGAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (25 bp):
AATCTACTCGATAATTTCATCATAC
Found at i:114371 original size:19 final size:20
Alignment explanation
Indices: 114330--114371 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
114320 AAAACTAGGA
*
114330 TTAATTGTTTATAGAATTAT
1 TTAATTGTTTATAAAATTAT
114350 TTAATT-TTTAGTAAAATT-T
1 TTAATTGTTTA-TAAAATTAT
114369 TTA
1 TTA
114372 TTATTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
TTAATTGTTTATAAAATTAT
Found at i:115883 original size:84 final size:82
Alignment explanation
Indices: 115785--116305 Score: 321
Period size: 83 Copynumber: 6.3 Consensus size: 82
115775 AGGGGATGCG
*
115785 TTTTTTCATTATTATTCAGAGAATCTCTAG-AT-TATAATAGTGATCCATCCCATTCGAAATGAA
1 TTTTTTCATTATTATTCAGAGAATCTCTAGCATGT-T-AGAGTGATCCATCCCATTCGAAATGAA
115848 AGGTGCATTCTAGGAGAAACA
64 AGGTGCATT-TAGG-GAAACA
* * * * *
115869 TTTTTTCATTATTATTTAGAGAATCTCT-GGAT-TATAATAGTGATCTATCACA-TCTGAAATGA
1 TTTTTTCATTATTATTCAGAGAATCTCTAGCATGT-T-AGAGTGATCCATCCCATTC-GAAATGA
*** * * * *
115931 AAGACACGTTTCGAGAGAAGCG
63 AAGGTGCATTT--AGGGAAACA
* * * * * *
115953 TTTTTTTATTATTATTCAGAGAATCTC-AGCCATGTTAGAGTGTTCCATTCTATCCGAAATGAAT
1 TTTTTTCATTATTATTCAGAGAATCTCTAG-CATGTTAGAGTGATCCATCCCATTCGAAATGAAA
* *
116017 GGTGCATTTTGGGGAA-A
65 GGTGCATTTAGGGAAACA
* * * *
116034 TGTTTTCCATTATTATTCAGAGAATCTCTGGCATGTTAGAGTGTTTCATCCCATTCGAAATGAAA
1 T-TTTTTCATTATTATTCAGAGAATCTCTAGCATGTTAGAGTGATCCATCCCATTCGAAATGAAA
**
116099 GGTGTGTTTCAGGGAAAACA
65 GGTGCATTT-AGGG-AAACA
* * * * * * *
116119 -TTTTCCATTATTATTCAAAGAATCTCTACCATGTTAGAGT-ATTTCATCCTA-TCTAAAATAAA
1 TTTTTTCATTATTATTCAGAGAATCTCTAGCATGTTAGAGTGA-TCCATCCCATTC-GAAATGAA
* * *
116181 AGGCGTC-TTTCGAGGAAA-G
64 AGGTG-CATTTAG-GGAAACA
** * ** * *
116200 TGTTTTTCATTATTATTCAGAGAATCTCTTCCATGTTAGAGTGTTTTATCTCATTCAAAATGAAA
1 T-TTTTTCATTATTATTCAGAGAATCTCTAGCATGTTAGAGTGATCCATCCCATTCGAAATGAAA
* * * *
116265 TGAGCGTTTCAGGAACAAC-
65 GGTGCATTT-AGGGA-AACA
* *
116284 GTTTTCCATTATTATTCAGAGA
1 TTTTTTCATTATTATTCAGAGA
116306 TTTTTTGTCA
Statistics
Matches: 345, Mismatches: 67, Indels: 51
0.75 0.14 0.11
Matches are distributed among these distances:
81 1 0.00
82 70 0.20
83 146 0.42
84 120 0.35
85 7 0.02
86 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (82 bp):
TTTTTTCATTATTATTCAGAGAATCTCTAGCATGTTAGAGTGATCCATCCCATTCGAAATGAAAG
GTGCATTTAGGGAAACA
Found at i:116152 original size:83 final size:83
Alignment explanation
Indices: 115960--116305 Score: 353
Period size: 83 Copynumber: 4.2 Consensus size: 83
115950 GCGTTTTTTT
* * * * * * *
115960 ATTATTATTCAGAGAATCTC-AGCCATGTTAGAGTGTTCCATTCTATCCGAAATGAATGGTGCAT
1 ATTATTATTCAGAGAATCTCTA-CCATGTTAGAGTGTTTCATCCCATTCAAAATGAAAGGTGCGT
* * *
116024 TT-TGGGGAAATGTTTTCC
65 TTCAGGGAAAACGTTTTCC
** * *
116042 ATTATTATTCAGAGAATCTCTGGCATGTTAGAGTGTTTCATCCCATTCGAAATGAAAGGTGTGTT
1 ATTATTATTCAGAGAATCTCTACCATGTTAGAGTGTTTCATCCCATTCAAAATGAAAGGTGCGTT
*
116107 TCAGGGAAAACATTTTCC
66 TCAGGGAAAACGTTTTCC
* * * * *
116125 ATTATTATTCAAAGAATCTCTACCATGTTAGAGTATTTCATCCTA-TCTAAAATAAAAGGCGTC-
1 ATTATTATTCAGAGAATCTCTACCATGTTAGAGTGTTTCATCCCATTC-AAAATGAAAGGTG-CG
** *
116188 TTTC-GAGGAAAGTGTTTTTC
64 TTTCAG-GGAAAACGTTTTCC
* * * * *
116208 ATTATTATTCAGAGAATCTCTTCCATGTTAGAGTGTTTTATCTCATTCAAAATGAAATGAGCGTT
1 ATTATTATTCAGAGAATCTCTACCATGTTAGAGTGTTTCATCCCATTCAAAATGAAAGGTGCGTT
116273 TCA-GGAACAACGTTTTCC
66 TCAGGGAA-AACGTTTTCC
116291 ATTATTATTCAGAGA
1 ATTATTATTCAGAGA
116306 TTTTTTGTCA
Statistics
Matches: 217, Mismatches: 38, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
82 64 0.29
83 151 0.70
84 2 0.01
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (83 bp):
ATTATTATTCAGAGAATCTCTACCATGTTAGAGTGTTTCATCCCATTCAAAATGAAAGGTGCGTT
TCAGGGAAAACGTTTTCC
Found at i:116213 original size:166 final size:165
Alignment explanation
Indices: 115960--116301 Score: 438
Period size: 166 Copynumber: 2.1 Consensus size: 165
115950 GCGTTTTTTT
* * * * * * *
115960 ATTATTATTCAGAGAATCTCAGCCATGTTAGAGTGTTCCATTCTATCCGAAATGAATGGTGCATT
1 ATTATTATTCAAAGAATCTCAGCCATGTTAGAGTATTCCATCCTATCCAAAATAAAAGGCGCATT
* * *
116025 TTGGGGAAATGTTTTCCATTATTATTCAGAGAATCTCTGGCATGTTAGAGTGTTTCATCCCATTC
66 TCGAGGAAATGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTTAGAGTGTTTCATCCCATTC
* * *
116090 GAAATGAAAGGTGTGTTTCAGGGAA-AACATTTTCC
131 AAAATGAAAGGAGCGTTTCA-GGAACAACATTTTCC
* *
116125 ATTATTATTCAAAGAATCTCTA-CCATGTTAGAGTATTTCATCCTATCTAAAATAAAAGGCGTC-
1 ATTATTATTCAAAGAATCTC-AGCCATGTTAGAGTATTCCATCCTATCCAAAATAAAAGGCG-CA
* * * *
116188 TTTCGAGGAAAGTGTTTTTCATTATTATTCAGAGAATCTCTTCCATGTTAGAGTGTTTTATCTCA
64 TTTCGAGGAAA-TGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTTAGAGTGTTTCATCCCA
* *
116253 TTCAAAATGAAATGAGCGTTTCAGGAACAACGTTTTCC
128 TTCAAAATGAAAGGAGCGTTTCAGGAACAACATTTTCC
116291 ATTATTATTCA
1 ATTATTATTCA
116302 GAGATTTTTT
Statistics
Matches: 152, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
165 63 0.41
166 89 0.59
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (165 bp):
ATTATTATTCAAAGAATCTCAGCCATGTTAGAGTATTCCATCCTATCCAAAATAAAAGGCGCATT
TCGAGGAAATGTTTTCCATTATTATTCAGAGAATCTCTGCCATGTTAGAGTGTTTCATCCCATTC
AAAATGAAAGGAGCGTTTCAGGAACAACATTTTCC
Found at i:116417 original size:16 final size:16
Alignment explanation
Indices: 116396--116435 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
116386 ACTCTGAACT
116396 CTCAAACATTCAAAAC-
1 CTCAAAC-TTCAAAACA
116412 CTCAAACTTCAAAACA
1 CTCAAACTTCAAAACA
116428 CTCAAACT
1 CTCAAACT
116436 ATAAAAATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (16 bp):
CTCAAACTTCAAAACA
Found at i:119411 original size:20 final size:20
Alignment explanation
Indices: 119388--119437 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
119378 CCGTACAAAT
*
119388 ATAACTTAAACCACTAATTA
1 ATAACCTAAACCACTAATTA
119408 ATAACCTAAACCACTAATTA
1 ATAACCTAAACCACTAATTA
119428 A-AACCCTAAA
1 ATAA-CCTAAA
119438 ACTATCTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAACCTAAACCACTAATTA
Found at i:120231 original size:45 final size:44
Alignment explanation
Indices: 120167--120261 Score: 163
Period size: 45 Copynumber: 2.1 Consensus size: 44
120157 TCATTTAGTG
120167 AGATAATAGAAACAATATTATAATAATCCTTACCTTTCTTTAATC
1 AGATAATAGAAACAATATTATAATAATCCTTACCTTTCTTT-ATC
* *
120212 AGATAATAGAAACAATATTATAATAGTCCTTACCTTTCTTTATG
1 AGATAATAGAAACAATATTATAATAATCCTTACCTTTCTTTATC
120256 AGATAA
1 AGATAA
120262 ATATCAAAGT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
44 8 0.17
45 40 0.83
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.37
Consensus pattern (44 bp):
AGATAATAGAAACAATATTATAATAATCCTTACCTTTCTTTATC
Found at i:123687 original size:35 final size:33
Alignment explanation
Indices: 123605--123689 Score: 81
Period size: 35 Copynumber: 2.6 Consensus size: 33
123595 AGAGTAAGAG
*
123605 TATTATATT-ATATT--ATATTTTAAAAATTAT
1 TATTATATTAATATTAAATATTTTAAAAAATAT
*
123635 TAATTA-ATATAAT-TTAAATATCTTTATTAAAATAT
1 T-ATTATAT-TAATATTAAATAT-TTTA-AAAAATAT
123670 TATTATATTAATATTAAATA
1 TATTATATTAATATTAAATA
123690 CATAAATAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
30 3 0.07
31 7 0.16
32 2 0.05
33 4 0.09
34 12 0.27
35 16 0.36
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (33 bp):
TATTATATTAATATTAAATATTTTAAAAAATAT
Found at i:123715 original size:26 final size:27
Alignment explanation
Indices: 123673--123732 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
123663 AAAATATTAT
123673 TATA-TTAATATTAAAT-ACATAAATAA
1 TATATTTAATATTAAATAAC-TAAATAA
* *
123699 TATATTTATTATT-AATAACTTAATAA
1 TATATTTAATATTAAATAACTAAATAA
123725 TATTATTT
1 TA-TATTT
123733 CTATGAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 15 0.52
27 14 0.48
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (27 bp):
TATATTTAATATTAAATAACTAAATAA
Found at i:124884 original size:52 final size:50
Alignment explanation
Indices: 124762--124905 Score: 155
Period size: 52 Copynumber: 2.8 Consensus size: 50
124752 TTGCACATGA
* ***
124762 CAATATTCAATAGTATAATATTCATATAAATATTTTTTTGAAAAAATAAAATT
1 CAATATTCAACA-TATAATATTCATATAAATA--TTTAAAAAAAAATAAAATT
*
124815 CAATAGTCAACGATATAATATTCATATAAATATTTAAAAATAAAATAAAATT
1 CAATATTCAAC-ATATAATATTCATATAAATATTTAAAAA-AAAATAAAATT
* *
124867 TAATATTCAACATTATAATATTTC-TATAAATATTCAAAA
1 CAATATTCAACA-TATAATA-TTCATATAAATATTTAAAA
124906 CAAAGTATCA
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
51 6 0.08
52 41 0.52
53 31 0.39
54 1 0.01
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (50 bp):
CAATATTCAACATATAATATTCATATAAATATTTAAAAAAAAATAAAATT
Found at i:128637 original size:17 final size:18
Alignment explanation
Indices: 128603--128638 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
128593 AGATTAAATC
128603 ATAATTCATTTAAATTTT
1 ATAATTCATTTAAATTTT
*
128621 ATAATTTATTT-AATTTT
1 ATAATTCATTTAAATTTT
128638 A
1 A
128639 GAGAATCTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
ATAATTCATTTAAATTTT
Found at i:135969 original size:12 final size:12
Alignment explanation
Indices: 135952--135979 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
135942 TAAGGAGCTA
135952 TTTTGATTTTAT
1 TTTTGATTTTAT
135964 TTTTGATTTTAT
1 TTTTGATTTTAT
135976 TTTT
1 TTTT
135980 AATTCTATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.14, C:0.00, G:0.07, T:0.79
Consensus pattern (12 bp):
TTTTGATTTTAT
Found at i:137671 original size:10 final size:10
Alignment explanation
Indices: 137645--137693 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
137635 TGACCGTTGA
*
137645 CTGTTGATCG
1 CTGTTGACCG
137655 C-GTTGACCG
1 CTGTTGACCG
*
137664 CTGTTGACCA
1 CTGTTGACCG
* *
137674 CCGTTAACCG
1 CTGTTGACCG
137684 CTGTTGACCG
1 CTGTTGACCG
137694 GACCTTTGAG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.14, C:0.31, G:0.27, T:0.29
Consensus pattern (10 bp):
CTGTTGACCG
Found at i:137683 original size:20 final size:20
Alignment explanation
Indices: 137655--137692 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
137645 CTGTTGATCG
*
137655 CGTTGACCGCTGTTGACCAC
1 CGTTAACCGCTGTTGACCAC
137675 CGTTAACCGCTGTTGACC
1 CGTTAACCGCTGTTGACC
137693 GGACCTTTGA
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:0.16, C:0.34, G:0.24, T:0.26
Consensus pattern (20 bp):
CGTTAACCGCTGTTGACCAC
Found at i:138480 original size:17 final size:18
Alignment explanation
Indices: 138458--138491 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
138448 TGTAAAGCCA
138458 TATTGATATG-ATGAAAC
1 TATTGATATGTATGAAAC
*
138475 TATTGATGTGTATGAAA
1 TATTGATATGTATGAAA
138492 AATACTAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.03, G:0.21, T:0.38
Consensus pattern (18 bp):
TATTGATATGTATGAAAC
Found at i:140123 original size:24 final size:24
Alignment explanation
Indices: 140102--140189 Score: 104
Period size: 24 Copynumber: 3.7 Consensus size: 24
140092 ATTTCTGATT
140102 TGAATTCTGTTATGATACCTGACC
1 TGAATTCTGTTATGATACCTGACC
* * *
140126 TGGATTCTGATATGATACTTGACC
1 TGAATTCTGTTATGATACCTGACC
* **
140150 TGAATTCTATTATGATATTTGACC
1 TGAATTCTGTTATGATACCTGACC
* *
140174 TGAATTATGTTTTGAT
1 TGAATTCTGTTATGAT
140190 TTTTGATATA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (24 bp):
TGAATTCTGTTATGATACCTGACC
Found at i:140298 original size:31 final size:31
Alignment explanation
Indices: 140260--140323 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
140250 CATACCTGGA
140260 GGCTCCTCAGCTTTGTGCTCAGGGCCTTACT
1 GGCTCCTCAGCTTTGTGCTCAGGGCCTTACT
*
140291 GGCTCCTCGGCTTTGTGCTCAGGGCCTTACT
1 GGCTCCTCAGCTTTGTGCTCAGGGCCTTACT
140322 GG
1 GG
140324 ACTTGACGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.08, C:0.31, G:0.30, T:0.31
Consensus pattern (31 bp):
GGCTCCTCAGCTTTGTGCTCAGGGCCTTACT
Found at i:162582 original size:24 final size:21
Alignment explanation
Indices: 162555--162612 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 21
162545 ATGTGAAATA
162555 ATGAAAGTGATCACATGTGTGTAT
1 ATGAAAGTGAT-ACATGT-T-TAT
162579 ATG-AAGTGAAATACATGTTTAT
1 ATGAAAGTG--ATACATGTTTAT
162601 ATGAAAAGTGAT
1 ATG-AAAGTGAT
162613 GATAATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
22 8 0.27
23 6 0.20
24 14 0.47
25 2 0.07
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (21 bp):
ATGAAAGTGATACATGTTTAT
Found at i:162862 original size:18 final size:18
Alignment explanation
Indices: 162836--162899 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
162826 ATATACAGTT
162836 GTCCTTCGAGACATAGTG
1 GTCCTTCGAGACATAGTG
* * *
162854 GTTCTTCGAAATAATTAGTG
1 GTCCTTCGAGA-CA-TAGTG
*
162874 GTCCTTCGGGACATAGTG
1 GTCCTTCGAGACATAGTG
*
162892 GTCATTCG
1 GTCCTTCG
162900 GGATAAATAT
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 21 0.58
19 2 0.06
20 13 0.36
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (18 bp):
GTCCTTCGAGACATAGTG
Found at i:190898 original size:2 final size:2
Alignment explanation
Indices: 190891--190962 Score: 144
Period size: 2 Copynumber: 36.0 Consensus size: 2
190881 CAGGTTCAAA
190891 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
190963 TCTACAGCTA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:192903 original size:21 final size:21
Alignment explanation
Indices: 192818--192909 Score: 69
Period size: 21 Copynumber: 4.4 Consensus size: 21
192808 CCCTTTGACC
**
192818 AAGGATCGATCCC-TCGAGTAA
1 AAGGATCGATCCCTTC-ACCAA
* * * *
192839 AATGATAGATCCTTTTACCAA
1 AAGGATCGATCCCTTCACCAA
* * * **
192860 AAGGATTGATCCATTGATGAA
1 AAGGATCGATCCCTTCACCAA
192881 AAGGATCGATCCCTTCACCAA
1 AAGGATCGATCCCTTCACCAA
192902 AAGGATCG
1 AAGGATCG
192910 GTTCTTTTCT
Statistics
Matches: 53, Mismatches: 17, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
21 52 0.98
22 1 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (21 bp):
AAGGATCGATCCCTTCACCAA
Found at i:194601 original size:19 final size:19
Alignment explanation
Indices: 194577--194614 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
194567 TAACAACAAT
194577 AATAATAATAATCA-ATGCA
1 AATAATAAT-ATCACATGCA
194596 AATAATAATATCACATGCA
1 AATAATAATATCACATGCA
194615 TGCTAATGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.55, C:0.13, G:0.05, T:0.26
Consensus pattern (19 bp):
AATAATAATATCACATGCA
Found at i:197080 original size:3 final size:3
Alignment explanation
Indices: 197074--197104 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
197064 CTCATCATCA
*
197074 TCT TCT TCT TCT TCT TCT TCT TCT CCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
197105 GATGAATTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:206149 original size:22 final size:21
Alignment explanation
Indices: 206075--206158 Score: 132
Period size: 21 Copynumber: 4.0 Consensus size: 21
206065 GTCGAGGGTT
206075 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
206096 TCATAGGTCTTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
206117 TCATAGGTCCTTCGGGACATAT
1 TCATAGGTCCTTCGGGACA-AC
*
206139 TCAAAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
206159 ATTTCATATG
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
21 39 0.67
22 19 0.33
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:206699 original size:22 final size:22
Alignment explanation
Indices: 206671--206716 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
206661 TGTAGCAGTA
*
206671 CTGTAGCAGGGGAACCGGTTCC
1 CTGTAGCAGGGGAACCGATTCC
*
206693 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAACCGATTCC
206715 CT
1 CT
206717 ATTTGTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.22
Consensus pattern (22 bp):
CTGTAGCAGGGGAACCGATTCC
Found at i:207141 original size:25 final size:23
Alignment explanation
Indices: 207100--207148 Score: 55
Period size: 25 Copynumber: 2.0 Consensus size: 23
207090 CTGGTATGGT
*
207100 AATGAGTATGTTGTTTTGCTAATAG
1 AATGAGTATGTTATTTT--TAATAG
207125 AATGA-TATGTTTATTTTTAATAG
1 AATGAGTATG-TTATTTTTAATAG
207148 A
1 A
207149 TGTCCGGACA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 7 0.32
24 4 0.18
25 11 0.50
ACGTcount: A:0.33, C:0.02, G:0.18, T:0.47
Consensus pattern (23 bp):
AATGAGTATGTTATTTTTAATAG
Found at i:212953 original size:21 final size:21
Alignment explanation
Indices: 212927--213010 Score: 132
Period size: 21 Copynumber: 4.0 Consensus size: 21
212917 GTCGAGGGTT
*
212927 TCATAGGTCCTTCGGGATAAC
1 TCATAGGTCCTTCGGGACAAC
212948 TCATAGGTCCTTCGGGACAAC
1 TCATAGGTCCTTCGGGACAAC
*
212969 TCATAGGTCCTTCGGGACATAT
1 TCATAGGTCCTTCGGGACA-AC
*
212991 TCAAAGGTCCTTCGGGACAA
1 TCATAGGTCCTTCGGGACAA
213011 ATTTCATATG
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
21 40 0.68
22 19 0.32
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (21 bp):
TCATAGGTCCTTCGGGACAAC
Found at i:213551 original size:22 final size:22
Alignment explanation
Indices: 213523--213568 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
213513 TGTAGCAGTA
*
213523 CTGTAGCAGGGGAATCGGTTCC
1 CTGTAGCAGGGGAATCGATTCC
213545 CTGTAGCAGGGGAATCGATTCC
1 CTGTAGCAGGGGAATCGATTCC
213567 CT
1 CT
213569 ATTTGTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.33, T:0.24
Consensus pattern (22 bp):
CTGTAGCAGGGGAATCGATTCC
Found at i:217909 original size:29 final size:28
Alignment explanation
Indices: 217876--217953 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
217866 TTCAGTTGTA
*
217876 TAAATTATAATCATAAAATTATATAAATT
1 TAAATT-TAATAATAAAATTATATAAATT
* ** *
217905 TAAATTGTAATTATTTAATTATCTAAATT
1 TAAATT-TAATAATAAAATTATATAAATT
217934 TAAACTTTAA-AATAAAATTA
1 TAAA-TTTAATAATAAAATTA
217954 AAGATTTAAT
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 7 0.17
29 31 0.77
30 2 0.05
ACGTcount: A:0.51, C:0.04, G:0.01, T:0.44
Consensus pattern (28 bp):
TAAATTTAATAATAAAATTATATAAATT
Found at i:219318 original size:21 final size:21
Alignment explanation
Indices: 219267--219319 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
219257 ATTATGACTA
219267 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
219288 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
219309 TCGCAATGCGA
1 TCGCAATGCGA
219320 GTAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:219373 original size:41 final size:42
Alignment explanation
Indices: 219328--219421 Score: 129
Period size: 41 Copynumber: 2.3 Consensus size: 42
219318 GAGTAAGTAA
* ** *
219328 ATCGCAACGCGAAT-TTGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATAATACAAAATCGCAACGCGATACTGACT
219369 ATCGCAACGCG-ATAATACAAAATCGCAACGCGATACTGACT
1 ATCGCAACGCGAATAATACAAAATCGCAACGCGATACTGACT
*
219410 TTCGCAACGCGA
1 ATCGCAACGCGA
219422 TACTTACTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
40 2 0.04
41 44 0.96
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (42 bp):
ATCGCAACGCGAATAATACAAAATCGCAACGCGATACTGACT
Found at i:219374 original size:20 final size:20
Alignment explanation
Indices: 219349--219463 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
219339 AATTTGGAAA
*
219349 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
219369 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
219390 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
219410 TTCGCAACGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * * *
219430 TTCGTAACGAGATGCTGACT
1 ATCGCAACGCGATACTGACT
* *
219450 TTCGCAACGAGATA
1 ATCGCAACGCGATA
219464 ATACATAATC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 60 0.76
21 15 0.19
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:219422 original size:41 final size:41
Alignment explanation
Indices: 219346--219483 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
219336 GCGAATTTGG
* *
219346 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
*
219387 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATACTTAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATA-ATAC
** * * * *
219429 --TTTCGTAACGAGATGCTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
219468 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
219484 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 3 0.04
40 29 0.37
41 44 0.56
42 3 0.04
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:219680 original size:22 final size:22
Alignment explanation
Indices: 219652--219693 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
219642 CTCTCTCACG
219652 CATCTCCGACGAAATCCGTCCC
1 CATCTCCGACGAAATCCGTCCC
**
219674 CATCTCCGGTGAAATCCGTC
1 CATCTCCGACGAAATCCGTC
219694 TATCTCCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.40, G:0.17, T:0.21
Consensus pattern (22 bp):
CATCTCCGACGAAATCCGTCCC
Found at i:220000 original size:20 final size:20
Alignment explanation
Indices: 219956--220015 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
219946 TTTATTCTCT
**
219956 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCATTTTCA
*
219976 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCA
* **
219996 TGTTGCGATTTTCATTTTCA
1 CGTTGCGATAGTCATTTTCA
220016 GAAACTATTC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCA
Found at i:220205 original size:25 final size:24
Alignment explanation
Indices: 220151--220205 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
220141 TGTTTATTAT
* *
220151 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
220175 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
220201 TGTTT
1 TGTTT
220206 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:221937 original size:19 final size:20
Alignment explanation
Indices: 221883--221949 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
221873 TAGTTTACTT
* *
221883 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
221903 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
221923 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
221942 TCGCAACG
1 TCGCAACG
221950 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:221945 original size:39 final size:34
Alignment explanation
Indices: 221921--221989 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
221911 CGGAAATGGC
*
221921 TATCGCAATGCGAAATGAAAATCGCAACGAC-AAA
1 TATCGCAATACGAAATGAAAATCGCAACG-CGAAA
221955 -ATCGCAATACGAAATGAAAATCGCAACGCGAAA
1 TATCGCAATACGAAATGAAAATCGCAACGCGAAA
221988 TA
1 TA
221990 AAAATCGCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 1 0.03
33 30 0.94
34 1 0.03
ACGTcount: A:0.48, C:0.20, G:0.17, T:0.14
Consensus pattern (34 bp):
TATCGCAATACGAAATGAAAATCGCAACGCGAAA
Found at i:222004 original size:19 final size:19
Alignment explanation
Indices: 221922--222004 Score: 95
Period size: 19 Copynumber: 4.6 Consensus size: 19
221912 GGAAATGGCT
221922 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
221941 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
221955 ATCGCAATACGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
221974 ATCGCAACGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
221993 ATCGCAATGCGA
1 ATCGCAATGCGA
222005 TTTGTGTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 37 0.70
ACGTcount: A:0.48, C:0.20, G:0.18, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:222035 original size:14 final size:14
Alignment explanation
Indices: 222016--222074 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
222006 TTGTGTTTCG
222016 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
222030 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
222047 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
222063 CGTTGAGATTTT
1 CGTTGCGATTTT
222075 CATTTCGCAT
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 17 0.46
15 3 0.08
16 4 0.11
17 4 0.11
18 3 0.08
19 6 0.16
ACGTcount: A:0.12, C:0.15, G:0.24, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:222048 original size:33 final size:33
Alignment explanation
Indices: 222011--222093 Score: 148
Period size: 33 Copynumber: 2.5 Consensus size: 33
222001 GCGATTTGTG
* *
222011 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGAGATTTTCA
222044 TTTCGCATTGCGATTTTGTCGTTGAGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGAGATTTTCA
222077 TTTCGCATTGCGATTTT
1 TTTCGCATTGCGATTTT
222094 TATTTCGCGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.12, C:0.17, G:0.22, T:0.49
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGAGATTTTCA
Found at i:222056 original size:19 final size:19
Alignment explanation
Indices: 222032--222109 Score: 85
Period size: 19 Copynumber: 4.4 Consensus size: 19
222022 GATTTTGTCG
222032 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
222051 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
*
222065 TTGAGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
* *
222084 TTGCGATTTTTATTTCGCG
1 TTGCGATTTTCATTTCGCA
222103 TTGCGAT
1 TTGCGAT
222110 AGCCATTTCC
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
14 5 0.10
15 3 0.06
16 4 0.08
17 4 0.08
18 3 0.06
19 29 0.60
ACGTcount: A:0.14, C:0.17, G:0.21, T:0.49
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:222548 original size:21 final size:20
Alignment explanation
Indices: 222496--222556 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
222486 GACTCACATG
222496 TCATCCCTCAAGAGTCCCCT
1 TCATCCCTCAAGAGTCCCCT
* ** *
222516 CCAATCGTTCAAGAGGCCCCT
1 TC-ATCCCTCAAGAGTCCCCT
222537 ATCATCCCTCAAGAGTCCCC
1 -TCATCCCTCAAGAGTCCCC
222557 CCTCCCACCG
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.43, G:0.13, T:0.21
Consensus pattern (20 bp):
TCATCCCTCAAGAGTCCCCT
Found at i:222555 original size:42 final size:43
Alignment explanation
Indices: 222496--222586 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 43
222486 GACTCACATG
* *
222496 TCATCCCTCAAGAGT-CCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGTCCCCCTCCAACCGTTCAAGAGGCCACTA
* *
222538 TCATCCCTCAAGAGTCCCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGT-CCCCCTCCAACCGTTCAAGAGGCCACTA
222582 TCATC
1 TCATC
222587 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 15 0.35
44 28 0.65
ACGTcount: A:0.22, C:0.43, G:0.14, T:0.21
Consensus pattern (43 bp):
TCATCCCTCAAGAGTCCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:222595 original size:44 final size:45
Alignment explanation
Indices: 222496--222600 Score: 119
Period size: 44 Copynumber: 2.4 Consensus size: 45
222486 GACTCACATG
* *
222496 TCATCCCTCAAGA-GT--CCCCTCCAATCGTTCAAGAGGCCCCTA
1 TCATCCCTCAAGAGGTCCCCCCTCCAACCGTTCAAGAGGCCACTA
* *
222538 TCATCCCTCAAGA-GTCCCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATCCCTCAAGAGGTCCCCCCTCCAACCGTTCAAGAGGCCACTA
** *
222582 TCATCGTTGAAGAGGTCCC
1 TCATCCCTCAAGAGGTCCC
222601 TCCCACCATT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 15 0.28
44 33 0.62
45 5 0.09
ACGTcount: A:0.22, C:0.40, G:0.17, T:0.21
Consensus pattern (45 bp):
TCATCCCTCAAGAGGTCCCCCCTCCAACCGTTCAAGAGGCCACTA
Found at i:224028 original size:14 final size:14
Alignment explanation
Indices: 223994--224032 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
223984 TTGATTGTTT
223994 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
224008 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
224022 TGTTGATTTGT
1 AATTGATTTGT
224033 TTAATTGATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:224196 original size:19 final size:19
Alignment explanation
Indices: 224172--224312 Score: 247
Period size: 19 Copynumber: 7.7 Consensus size: 19
224162 GCAACGAGAG
224172 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
224191 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
224210 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
224229 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
224248 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
224267 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
224286 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
224300 AATCGCAATGCGA
1 AATCGCAATGCGA
224313 TTTTCATTTC
Statistics
Matches: 119, Mismatches: 0, Indels: 8
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.09
15 1 0.01
16 2 0.02
17 2 0.02
19 103 0.87
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:224356 original size:20 final size:20
Alignment explanation
Indices: 224331--224386 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
224321 TCGCATTGCG
*
224331 ATTTTCACGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
224351 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
224371 ATTTTCGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
224387 TTCCCCGTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.16, C:0.23, G:0.23, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:225138 original size:20 final size:20
Alignment explanation
Indices: 225126--225204 Score: 131
Period size: 20 Copynumber: 4.0 Consensus size: 20
225116 TCGTTACGAT
*
225126 AGTCAGAATCTCGTTGCGAA
1 AGTCAGAATCGCGTTGCGAA
225146 AGTCAGAATCGCGTTGCGAA
1 AGTCAGAATCGCGTTGCGAA
*
225166 AGTCAAAATCGCGTTGCGAA
1 AGTCAGAATCGCGTTGCGAA
*
225186 AGTCAGTATCGCGTTGCGA
1 AGTCAGAATCGCGTTGCGA
225205 TTTTGTATTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (20 bp):
AGTCAGAATCGCGTTGCGAA
Found at i:225238 original size:20 final size:20
Alignment explanation
Indices: 225112--225246 Score: 128
Period size: 20 Copynumber: 6.7 Consensus size: 20
225102 GATTCTGTAT
* *
225112 TATCTCGTTACGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
225132 AATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* * *
225152 AATCGCGTTGCGAAAGTCAA
1 TATCGCGTTGCGATAGTCAG
* *
225172 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGATAGTCAG
* *
225192 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--TAGTCAG
225213 TATCGCGTTGCGATAGTCAG
1 TATCGCGTTGCGATAGTCAG
*
225233 TATCGCATTGCGAT
1 TATCGCGTTGCGAT
225247 TTTCCAAATT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
19 3 0.03
20 80 0.81
21 14 0.14
22 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (20 bp):
TATCGCGTTGCGATAGTCAG
Found at i:225265 original size:41 final size:40
Alignment explanation
Indices: 225137--225267 Score: 127
Period size: 41 Copynumber: 3.2 Consensus size: 40
225127 GTCAGAATCT
* * * *** *
225137 CGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAAAATCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAATTCG
* * ** *
225177 CGTTGCGAAAGTCAGTATCGCGTTGCGATTTTGTATTATCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAAT-TCG
225218 CGTTGCGATAGTCAGTATCGCATTGCGATTTTCCAAATTCG
1 CGTTGCGATAGTCAGTATCGCATTGCGATTTT-CAAATTCG
*
225259 CATTGCGAT
1 CGTTGCGAT
225268 TTTCCAAATT
Statistics
Matches: 75, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 29 0.39
41 44 0.59
42 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (40 bp):
CGTTGCGATAGTCAGTATCGCATTGCGATTTTCAAATTCG
Found at i:225300 original size:20 final size:21
Alignment explanation
Indices: 225235--225307 Score: 112
Period size: 21 Copynumber: 3.5 Consensus size: 21
225225 ATAGTCAGTA
225235 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
225256 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
225277 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
225297 TCGCATTGCGA
1 TCGCATTGCGA
225308 ATTGGGAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 17 0.35
21 32 0.65
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:225322 original size:41 final size:42
Alignment explanation
Indices: 225234--225322 Score: 99
Period size: 41 Copynumber: 2.1 Consensus size: 42
225224 GATAGTCAGT
* * *
225234 ATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTTCCAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTGCCAAA
* ** **
225276 TTCGCATTGCGA-TTTACTTATTCGCATTGCGAATTGGGAAA
1 ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTGCCAAA
225317 ATCGCA
1 ATCGCA
225323 AAGCGAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
41 27 0.71
42 11 0.29
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (42 bp):
ATCGCATTGCGATTTTACAAATTCGCATTGCGAATTGCCAAA
Found at i:225349 original size:21 final size:22
Alignment explanation
Indices: 225297--225349 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
225287 ATTTACTTAT
225297 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
225318 TCGCAAAGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
225339 TCGCATTGCGA
1 TCGCATTGCGA
225350 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:227038 original size:225 final size:227
Alignment explanation
Indices: 226562--227225 Score: 1190
Period size: 225 Copynumber: 2.9 Consensus size: 227
226552 GTTATATTGT
* * *
226562 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAATATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
*
226626 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
* *
226691 ATAATTTTGTGTGTAAATAAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTA
130 ATAATTTT-TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-
226756 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
193 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
*
226791 AAAGTATATATCATTTTTATAAAAGTGTCTATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
226856 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAAT-ATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
226920 TAATTTTT-TGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 TAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
226984 AAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAATTGAAACATAAATTACATAACTTTAAAA
227016 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
227081 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
66 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
227146 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATCTT
131 TAA-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA--TT
227211 AAAAAAATTGAAACA
193 AAAAAAATTGAAACA
227226 CTATTAATTT
Statistics
Matches: 421, Mismatches: 8, Indels: 11
0.96 0.02 0.03
Matches are distributed among these distances:
225 135 0.32
226 82 0.19
227 6 0.01
228 68 0.16
229 60 0.14
230 70 0.17
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (227 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
TAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:227681 original size:23 final size:23
Alignment explanation
Indices: 227650--227713 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
227640 ATAGGTAAAA
*
227650 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
227673 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
227696 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
227714 TTGTAAAGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:228113 original size:21 final size:22
Alignment explanation
Indices: 228067--228113 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
228057 AAATTACATA
228067 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* * *
228089 -CTTTTTATAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
228109 ACTTT
1 ACTTT
228114 CAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:228162 original size:23 final size:23
Alignment explanation
Indices: 228131--228194 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
228121 ATAGGTAAAA
*
228131 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
228154 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
228177 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
228195 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:228200 original size:481 final size:481
Alignment explanation
Indices: 227242--230517 Score: 5991
Period size: 481 Copynumber: 6.8 Consensus size: 481
227232 ATTTTTTGTG
227242 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
227307 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
*
227372 CGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATCTTTG
131 CGATATATATTATTATTAAATTAAAAACAATAAA-ATATATATTACATATTTATTATTATCTTTG
227437 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
195 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
227502 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAAA
260 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
227567 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
325 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
227632 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
*
227697 TATAATGTAATAGGTAGTTGTAAAGTG
455 TATAATGTAATAGGTAGTTGTAAAGTA
227724 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
227789 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
*
227854 CGGTATATATTATTATTAAATTAAAAACAATAAAA-ATATATTACATATTTATTATTATCTTTGG
131 CGATATATATTATTATTAAATTAAAAACAATAAAATATATATTACATATTTATTATTATCTTTGG
* * *
227918 TTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATATTTTT
196 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA-ATTT
* *
227983 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAAG
260 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
* *
228048 TTGGAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTAT-AAAAGTATGGACACT
325 TTGAAACATAAATTACATAAC-TTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACT
228112 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
389 TTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTT
228177 ATATAATGTAATAGGTAGTTGTAAAGTA
454 ATATAATGTAATAGGTAGTTGTAAAGTA
228205 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
228270 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
* * *
228335 CAATATATATTATTATTATATTAAAAACAAT-AAACATATATTACATATTTATTATTATCTTTGG
131 CGATATATATTATTATTAAATTAAAAACAATAAAATATATATTACATATTTATTATTATCTTTGG
228399 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
196 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
228464 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAT
261 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
228528 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
326 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
*
228593 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCATTTAT
391 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
228658 ATAATGTAATAGGTAGTTGTAAAGTA
456 ATAATGTAATAGGTAGTTGTAAAGTA
* *
228684 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCT
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
* *
228749 TTTGTGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
*
228814 CGGTATATATTATTATTAAATTAAAAACAATAAAAATATATATTACATATTTATTATTATCTTTG
131 CGATATATATTATTATTAAATTAAAAACAAT-AAAATATATATTACATATTTATTATTATCTTTG
* * * *
228879 GTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAAAATATCAAAATAATCAAATATTTT
195 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATA-ATT
*
228944 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAA
259 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* * *
229009 GTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACAC
324 ATTGAAACATAAATTACATAAC-TTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACAC
229074 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
388 TTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTT
229139 TATATAATGTAATAGGTAGTTGTAAAGTA
453 TATATAATGTAATAGGTAGTTGTAAAGTA
229168 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
229233 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
* *
229298 CAATATATATTATTATTATATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
131 CGATATATATTATTATTAAATTAAAAACAATAAA-ATATATATTACATATTTATTATTATCTTTG
229363 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
195 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
229428 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
260 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
229492 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
325 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
229557 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
*
229622 TATAATGTAATAGGTAGTTGTAAAGTG
455 TATAATGTAATAGGTAGTTGTAAAGTA
229649 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
229714 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
* *
229779 CGATATATATTATTATTAAATTAAAAATAAT-AAACATATATTACATATTTATTATTATCTTTGG
131 CGATATATATTATTATTAAATTAAAAACAATAAAATATATATTACATATTTATTATTATCTTTGG
229843 TTAATATTGTTAAATTTAAATTCTAAATATTA-TTTAT-AAATATCAAAACAATCAAATAATTTT
196 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
* *
229906 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACAATATTAAAAAAAAT
261 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
229971 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
326 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
*
230036 CAATATAATAGGTAAAAATATGATGTAATAGGTAACGCTTATATAATGTAATAGGTATCGTTTAT
391 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
230101 ATAATGTAATAGGTAGTTGTAAAGTA
456 ATAATGTAATAGGTAGTTGTAAAGTA
* *
230127 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATC
1 TCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTTCATTGTGGAAAACATTAATTTAAGGTTATC
* *
230192 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
65 GTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
230256 ACG--ATATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
130 ACGATATATATTATTATTAAATTAAAAACAATAAA-ATATATATTACATATTTATTATTATCTTT
230318 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
194 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
230383 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAA
259 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* *
230448 ATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTTATAAAAAGTATGGACACT
324 ATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACT
230513 TTCAA
389 TTCAA
230518 CATATTATAA
Statistics
Matches: 2703, Mismatches: 75, Indels: 35
0.96 0.03 0.01
Matches are distributed among these distances:
475 20 0.01
476 7 0.00
477 142 0.05
478 239 0.09
479 588 0.22
480 151 0.06
481 819 0.30
482 273 0.10
483 88 0.03
484 376 0.14
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (481 bp):
TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
CGATATATATTATTATTAAATTAAAAACAATAAAATATATATTACATATTTATTATTATCTTTGG
TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
ATAATGTAATAGGTAGTTGTAAAGTA
Found at i:228641 original size:23 final size:23
Alignment explanation
Indices: 228610--228673 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
228600 ATAGGTAAAA
* *
228610 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCACTT
* *
228633 ATATAATGTAATAGGTATCATTT
1 ATATAATGTAATAGGTAGCACTT
228656 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
228674 TTGTAAAGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCACTT
Found at i:229125 original size:23 final size:23
Alignment explanation
Indices: 229094--229157 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
229084 ATAGGTAAAA
*
229094 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
229117 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
229140 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
229158 TTGTAAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:229205 original size:963 final size:963
Alignment explanation
Indices: 227242--230517 Score: 6117
Period size: 963 Copynumber: 3.4 Consensus size: 963
227232 ATTTTTTGTG
227242 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
227307 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
* * *
227372 CGATATATATTATTATTAAATTAAAAATAATAAACATATATATTACATATTTATTATTATCTTTG
131 CAATATATATTATTATTATATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTG
227437 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
195 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
227502 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAAA
260 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
227567 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
325 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
227632 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
227697 TATAATGTAATAGGTAGTTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATT
455 TATAATGTAATAGGTAGTTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATT
227762 GTGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAG
520 GTGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAG
227827 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATA
585 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATA
227892 TATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATA
650 TATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATA
227957 AAATATCAAAACAATCAAATATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
715 AAATATCAAAACAATCAAATATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
228022 AAAACATGAAACACTGTTAAAAAAAGTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCGA
780 AAAACATGAAACACTGTTAAAAAAAGTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCGA
228087 TCCTTTTTAT-AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG
845 TCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG
228151 CTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
910 CTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
228205 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
228270 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
228335 CAATATATATTATTATTATATTAAAAACAATAAAC-ATATATTACATATTTATTATTATCTTTGG
131 CAATATATATTATTATTATATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGG
228399 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
196 TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
228464 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAAT
261 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
228528 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
326 TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
*
228593 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCATTTAT
391 CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
* *
228658 ATAATGTAATAGGTAGTTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTG
456 ATAATGTAATAGGTAGTTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTG
* * *
228723 TGGAAAACATTAATTTAAGGTTATCTTTTGTGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
521 TGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGG
228788 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATAT
586 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAAT-AAAA-AT
228853 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTAT
649 ATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTAT
*
228918 AAAATATCAAAATAATCAAATATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTG
714 AAAATATCAAAACAATCAAATATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTG
228983 GAAAACATGAAACACTGTTAAAAAAAGTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCG
779 GAAAACATGAAACACTGTTAAAAAAAGTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCG
229048 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGC
844 ATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGC
229113 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
909 GCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
229168 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
1 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
229233 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
66 TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
229298 CAATATATATTATTATTATATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTG
131 CAATATATATTATTATTATATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTTG
229363 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
195 GTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
229428 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAA
260 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAA
229492 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
325 TTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTT
229557 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
390 TCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTA
229622 TATAATGTAATAGGTAGTTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATT
455 TATAATGTAATAGGTAGTTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATT
229687 GTGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAG
520 GTGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAG
* * *
229752 GCGTCTAATGATTTATTTTTTACGTTACGATATATATTATTATTAAATTAAAAATAATAAACATA
585 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATA
* *
229817 TATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTA-TTTAT-
650 TATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATA
*
229880 AAATATCAAAACAATCAAATA-ATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
715 AAATATCAAAACAATCAAATATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGG
* * * * * *
229944 AAAACATAAAACAATATTAAAAAAAATTGAAACATAAATTACATAAC-TTTAAAAAAAGTGTCGA
780 AAAACATGAAACACTGTTAAAAAAAGTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCGA
*
230008 TCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAACG
845 TCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCG
230073 CTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
910 CTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
* *
230127 TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTCACTGTGGAAAATATTAATTTAAGGTTATC
1 TCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTTCATTGTGGAAAACATTAATTTAAGGTTATC
* *
230192 TTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTA-TTTTTACGTT
65 GTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTT
*
230256 ACGATATATATTATTA--A-ATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTT
130 ACAATATATATTATTATTATATTAAAAACAATAAACA-ATATATTACATATTTATTATTATCTTT
230318 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
194 GGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATT
* *
230383 TTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAAAAAAA
259 TTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAA
* *
230448 ATTGAAACATAAATTACATAACTTTAAAAAAATTATCGATCCTTTTTATAAAAAGTATGGACACT
324 ATTGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACT
230513 TTCAA
389 TTCAA
230518 CATATTATAA
Statistics
Matches: 2266, Mismatches: 40, Indels: 20
0.97 0.02 0.01
Matches are distributed among these distances:
956 166 0.07
957 75 0.03
959 187 0.08
960 489 0.22
961 173 0.08
962 212 0.09
963 494 0.22
964 3 0.00
965 467 0.21
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (963 bp):
TCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTGTGGAAAACATTAATTTAAGGTTATCG
TTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTA
CAATATATATTATTATTATATTAAAAACAATAAACAATATATTACATATTTATTATTATCTTTGG
TTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAAT
TGAAACATAAATTACATAACTTTAAAAAAAGTGTCGATCCTTTTTATAAAAAGTATGGACACTTT
CAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTAT
ATAATGTAATAGGTAGTTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCATTG
TGGAAAACATTAATTTAAGGTTATCGTTTGAGTGAATTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAAATAT
ATTACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATACTAAATAATATTTTATAA
AATATCAAAACAATCAAATATTTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGA
AAACATGAAACACTGTTAAAAAAAGTTGGAACATAAATTACATAACTTTTAAAAAAAGTATCGAT
CCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGC
TTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTTGTAAAGTA
Found at i:229606 original size:23 final size:23
Alignment explanation
Indices: 229575--229638 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
229565 ATAGGTAAAA
*
229575 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
229598 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
229621 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
229639 TTGTAAAGTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:230084 original size:23 final size:23
Alignment explanation
Indices: 230053--230115 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
230043 ATAGGTAAAA
*
230053 ATATGATGTAATAGGTAACGCTT
1 ATATAATGTAATAGGTAACGCTT
* *
230076 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAACGCTT
230099 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
230116 GTTGTAAAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAACGCTT
Found at i:236936 original size:151 final size:151
Alignment explanation
Indices: 236662--237115 Score: 899
Period size: 151 Copynumber: 3.0 Consensus size: 151
236652 AAGCTAAAGC
236662 TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
1 TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
236727 ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTATTTTAACCTATAAAAGGGTAGCAAGA
66 ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTATTTTAACCTATAAAAGGGTAGCAAGA
236792 GGCACTAACATTACAGGAGAA
131 GGCACTAACATTACAGGAGAA
236813 TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
1 TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
236878 ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTATTTTAACCTATAAAAGGGTAGCAAGA
66 ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTATTTTAACCTATAAAAGGGTAGCAAGA
236943 GGCACTAACATTACAGGAGAA
131 GGCACTAACATTACAGGAGAA
236964 TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
1 TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
*
237029 ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTCTTTTAACCTATAAAAGGGTAGCAAGA
66 ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTATTTTAACCTATAAAAGGGTAGCAAGA
237094 GGCACTAACATTACAGGAGAA
131 GGCACTAACATTACAGGAGAA
237115 T
1 T
237116 AACAGCATCT
Statistics
Matches: 302, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
151 302 1.00
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.30
Consensus pattern (151 bp):
TTGCTTCGTTAATATTGAGGATGACGTGCTAATAAATATGAATTGTACATATTTCCACATAGACG
ACGTGCTAATAAATAGTTCAAGCTAGTGTTAGGCAGTTATTTTAACCTATAAAAGGGTAGCAAGA
GGCACTAACATTACAGGAGAA
Found at i:245380 original size:20 final size:20
Alignment explanation
Indices: 245355--245405 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
245345 ATTCTATTCT
245355 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
245375 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTTTATTCCCA
*
245395 CTGATAATCTT
1 CTGGTAATCTT
245406 ACATTCTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.22, C:0.24, G:0.10, T:0.45
Consensus pattern (20 bp):
CTGGTAATCTTTTATTCCCA
Found at i:245411 original size:20 final size:20
Alignment explanation
Indices: 245368--245411 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
245358 GTAATCTTTT
* **
245368 ATTCCCACTGGTAATCTTTT
1 ATTCCCACTGATAATCTTAC
245388 ATTCCCACTGATAATCTTAC
1 ATTCCCACTGATAATCTTAC
245408 ATTC
1 ATTC
245412 TGTGAACCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.25, C:0.27, G:0.07, T:0.41
Consensus pattern (20 bp):
ATTCCCACTGATAATCTTAC
Found at i:249330 original size:29 final size:28
Alignment explanation
Indices: 249248--249322 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
249238 GCACGTCGGG
* *
249248 GTAGGTCGCCATGCACGCCCAGTGACCT
1 GTAGGTCGCCATGCACGCCCAGCGACAT
* * *
249276 GTAGGTCGCTATGCAAGCCCCGCGACAT
1 GTAGGTCGCCATGCACGCCCAGCGACAT
249304 GCTAGGTCGCCATGCACGC
1 G-TAGGTCGCCATGCACGC
249323 TCGGCGACCA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 24 0.62
29 15 0.38
ACGTcount: A:0.19, C:0.35, G:0.29, T:0.17
Consensus pattern (28 bp):
GTAGGTCGCCATGCACGCCCAGCGACAT
Found at i:249435 original size:24 final size:24
Alignment explanation
Indices: 249408--249494 Score: 158
Period size: 24 Copynumber: 3.7 Consensus size: 24
249398 GAATTCAGCT
249408 GCTGCATTATTGCAACACTTATTC
1 GCTGCATTATTGCAACACTTATTC
249432 GCTGCATTATTGCAACACTTATTC
1 GCTGCATTATTGCAACACTTATTC
249456 GCTGCATTATTGCAACACTTATT-
1 GCTGCATTATTGCAACACTTATTC
*
249479 GTTGCATTATTGCAAC
1 GCTGCATTATTGCAAC
249495 CTTCAATGCA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
23 15 0.24
24 47 0.76
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (24 bp):
GCTGCATTATTGCAACACTTATTC
Found at i:249441 original size:12 final size:11
Alignment explanation
Indices: 249407--249491 Score: 62
Period size: 12 Copynumber: 7.3 Consensus size: 11
249397 TGAATTCAGC
249407 TGCTGCATTAT
1 TGCTGCATTAT
**
249418 TGCAACACTTAT
1 TGCTGCA-TTAT
249430 TCGCTGCATTAT
1 T-GCTGCATTAT
**
249442 TGCAACACTTAT
1 TGCTGCA-TTAT
249454 TCGCTGCATTAT
1 T-GCTGCATTAT
**
249466 TGCAACACTTAT
1 TGCTGCA-TTAT
*
249478 TGTTGCATTAT
1 TGCTGCATTAT
249489 TGC
1 TGC
249492 AACCTTCAAT
Statistics
Matches: 55, Mismatches: 14, Indels: 10
0.70 0.18 0.13
Matches are distributed among these distances:
11 19 0.35
12 28 0.51
13 8 0.15
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.40
Consensus pattern (11 bp):
TGCTGCATTAT
Found at i:249656 original size:24 final size:24
Alignment explanation
Indices: 249611--249659 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
249601 AATCATAAAA
*
249611 GAAAGAAAGGGAGAAGAGAGAAAG
1 GAAAGAAAGGAAGAAGAGAGAAAG
249635 GAAATGAAAGGAAGAAGA-AGAAAG
1 GAAA-GAAAGGAAGAAGAGAGAAAG
249659 G
1 G
249660 GAGATAAGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.59, C:0.00, G:0.39, T:0.02
Consensus pattern (24 bp):
GAAAGAAAGGAAGAAGAGAGAAAG
Found at i:249710 original size:17 final size:18
Alignment explanation
Indices: 249688--249721 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
249678 GAGGTAATTT
249688 TTTATTA-TTTAAATTAG
1 TTTATTATTTTAAATTAG
249705 TTTATTATTTTAAATTA
1 TTTATTATTTTAAATTA
249722 TTAGTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
TTTATTATTTTAAATTAG
Found at i:249797 original size:21 final size:21
Alignment explanation
Indices: 249773--249812 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
249763 GTTAATTAGT
249773 TTGTTAGTTTAAGTTATATTA
1 TTGTTAGTTTAAGTTATATTA
249794 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAGTTATAT
249813 CATACATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAGTTATATTA
Found at i:249879 original size:39 final size:41
Alignment explanation
Indices: 249834--249926 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 41
249824 ATAAAATTAT
249834 TTAATTAGTTTGTTTGATAGTTA--TATAT-TAAAAAAATAA
1 TTAATTAGTTTGTTTGATAGTTAGTTATATAT-AAAAAATAA
* *
249873 TTAATTAGTTTGTTTGTTAGTTAGTTATATATAAAAAATAT
1 TTAATTAGTTTGTTTGATAGTTAGTTATATATAAAAAATAA
249914 TTAATTAGTTTGT
1 TTAATTAGTTTGT
249927 GTTTTTAAGT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 22 0.45
41 26 0.53
42 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.51
Consensus pattern (41 bp):
TTAATTAGTTTGTTTGATAGTTAGTTATATATAAAAAATAA
Found at i:249930 original size:43 final size:39
Alignment explanation
Indices: 249822--249926 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
249812 TCATACATAA
*
249822 ATAT-AAAATTATTTAATTAGTTTGTTTGATAGTTATAT
1 ATATAAAAAATATTTAATTAGTTTGTTTGATAGTTATAT
* *
249860 AT-TAAAAAAATAATTAATTAGTTTGTTTGTTAGTTAGTTAT
1 ATAT-AAAAAATATTTAATTAGTTTGTTTGATAGTTA--TAT
249901 ATATAAAAAATATTTAATTAGTTTGT
1 ATATAAAAAATATTTAATTAGTTTGT
249927 GTTTTTAAGT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
37 1 0.02
38 2 0.03
39 28 0.48
41 26 0.45
42 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (39 bp):
ATATAAAAAATATTTAATTAGTTTGTTTGATAGTTATAT
Done.