Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold319
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: 718924
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 5
Found at i:145662 original size:61 final size:56
Alignment explanation
Indices: 145376--145735 Score: 453
Period size: 55 Copynumber: 6.3 Consensus size: 56
145366 TTCGCCCTTT
* *
145376 AGTCCTCAAAGAGCAGGACGCCT-TTTAAAGCCCACACAAGTTGGTGGCACTTCCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
*
145431 AGTCCTCAAAGAGCATGACGCCTC-TTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* * *
145486 AGTGCTCAAAGAGTAGGACGCCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
145541 AGTCCTCAAAGAGCAGGACGCCTC-TTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
* **
145596 AGTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCC
1 AGTCCTCAAAGAGCAGGACGC---CTCTTT--AAAGCCCACACAAGTTGGTGGCATTTTCC
* * * *
145657 AGTCCTCAAAGAGCAGGACACATTTCCTTTTCAAAGCCCACACGAGTTGGTGACACATTTT--
1 AGTCCTCAAAGAGCAGGACGC--CT-C-TTT-AAAGCCCACACAAGTTGGTG--GCATTTTCC
145718 AGTCCTCAAAGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
145736 TGCACTTTAT
Statistics
Matches: 271, Mismatches: 21, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
55 172 0.63
58 3 0.01
59 2 0.01
60 2 0.01
61 85 0.31
62 3 0.01
63 4 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (56 bp):
AGTCCTCAAAGAGCAGGACGCCTCTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
Found at i:145807 original size:42 final size:42
Alignment explanation
Indices: 145719--145811 Score: 109
Period size: 42 Copynumber: 2.2 Consensus size: 42
145709 ACACATTTTA
* *
145719 GTCCTCAAAGAGCAGGATGCACTTTATTTTCCTCTTTCTTTC
1 GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTCTTTCTTTC
* * *
145761 GTCCTCAAAGAGCAGGACGTA-TTTCGTTTCCCTTTTTCCTTT-
1 GTCCTCAAAGAGCAGGACGCACTTT-ATTTCCCTCTTT-CTTTC
145803 GTCCTCAAA
1 GTCCTCAAA
145812 AAACGGGACG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
41 3 0.07
42 37 0.84
43 4 0.09
ACGTcount: A:0.19, C:0.27, G:0.15, T:0.39
Consensus pattern (42 bp):
GTCCTCAAAGAGCAGGACGCACTTTATTTCCCTCTTTCTTTC
Found at i:146544 original size:15 final size:15
Alignment explanation
Indices: 146524--146556 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
146514 TGAATTTCAA
*
146524 ACAATTTGTATCGAT
1 ACAATTTGTATCCAT
146539 ACAATTTGTATCCAT
1 ACAATTTGTATCCAT
146554 ACA
1 ACA
146557 CCCGAGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.36
Consensus pattern (15 bp):
ACAATTTGTATCCAT
Found at i:146929 original size:51 final size:51
Alignment explanation
Indices: 146853--147141 Score: 348
Period size: 51 Copynumber: 5.6 Consensus size: 51
146843 TTAAGTTTCT
* *
146853 CAATATTT-CATAATCGGGGGTACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAAT-TTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * * * *
146904 TAATTTTCCACAATTGGGGAAACTCCAACTCCGATTTTATTTTTGAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * *
146955 CAATTTTCCACAACCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACAC
* * *
147006 CAATTTTCTATAATCGAGGATACTCCAACTCCGATTTTATTTCTAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * ** *
147057 CAATTTTCTATAATCGGAGATACTCCAACTTCGATTTTATTTCCAAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTT-CTAAAACAC
*
147109 CAATTTTTCATAATCGGGGATACTCCAACCCCG
1 CAATTTTCCATAATCGGGGATACTCCAACCCCG
147142 TTAATCATCG
Statistics
Matches: 203, Mismatches: 31, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
50 4 0.02
51 162 0.80
52 37 0.18
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:147152 original size:27 final size:28
Alignment explanation
Indices: 147121--147196 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
147111 ATTTTTCATA
147121 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
* *
147148 ATCGGGGATACTCCAACCCCATTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
147176 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
147197 GCTTTATTCC
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:147231 original size:79 final size:79
Alignment explanation
Indices: 147148--147354 Score: 333
Period size: 79 Copynumber: 2.6 Consensus size: 79
147138 CCCGTTAATC
* *
147148 ATCGGGGATACTCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
*
147213 ATTGATTTCTCATA
66 ATTGATTTCTCACA
* * *
147227 ATCGGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTCTAACCCCGATTTTATTCCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
147292 ATTGATTTCTCACA
66 ATTGATTTCTCACA
* * *
147306 ATCGAGGATACTCCAACCCCGTTATTTTCGCGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
147355 TTATTTTTGA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 117 1.00
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCTAAAAT
ATTGATTTCTCACA
Found at i:147351 original size:28 final size:28
Alignment explanation
Indices: 147311--147380 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
147301 TCACAATCGA
*
147311 GGATACTCCAACCCCGTTATTTTCGCGG
1 GGATACTCCAACCCCGTTATTTTCGAGG
*
147339 GGATACTCCAACCCCGTTATTTTTGAGG
1 GGATACTCCAACCCCGTTATTTTCGAGG
147367 GGATACTCCAACCC
1 GGATACTCCAACCC
147381 TGATTTTATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.21, C:0.31, G:0.20, T:0.27
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTTCGAGG
Found at i:152153 original size:43 final size:43
Alignment explanation
Indices: 152092--152178 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
152082 AGGACCCCTA
152092 AGAATGAAAATTTTAATGTTTTAAGCATGTAATTAGGAACCTT
1 AGAATGAAAATTTTAATGTTTTAAGCATGTAATTAGGAACCTT
152135 AGAATGAAAATTTTAATGTTTTAAGCATGTAATTAGGAACCTT
1 AGAATGAAAATTTTAATGTTTTAAGCATGTAATTAGGAACCTT
152178 A
1 A
152179 AATAGATCCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (43 bp):
AGAATGAAAATTTTAATGTTTTAAGCATGTAATTAGGAACCTT
Found at i:159035 original size:20 final size:20
Alignment explanation
Indices: 159007--159075 Score: 102
Period size: 20 Copynumber: 3.4 Consensus size: 20
158997 CAAGGTTCAA
*
159007 TATCAATACATTCACTTATG
1 TATCGATACATTCACTTATG
159027 TATCGATACATTCACTTATG
1 TATCGATACATTCACTTATG
* *
159047 TATCGATACATTAACTTGTTG
1 TATCGATACATTCACTT-ATG
159068 TATCGATA
1 TATCGATA
159076 TATATTATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 35 0.78
21 10 0.22
ACGTcount: A:0.32, C:0.17, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACATTCACTTATG
Found at i:160074 original size:12 final size:13
Alignment explanation
Indices: 160047--160075 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
160037 CCTAATTTAA
160047 TTTAATTATAATT
1 TTTAATTATAATT
160060 TTTAATTAT-ATT
1 TTTAATTATAATT
160072 TTTA
1 TTTA
160076 TTCTTATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTAATTATAATT
Found at i:162998 original size:3 final size:3
Alignment explanation
Indices: 162990--163036 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
162980 TTTGCTACTT
162990 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
163037 TTCTGTTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:165775 original size:34 final size:35
Alignment explanation
Indices: 165737--165803 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
165727 CCTTACAACA
165737 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
165771 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
165804 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:166279 original size:13 final size:13
Alignment explanation
Indices: 166261--166286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
166251 CAATTTTTTG
166261 TGTATCGATACAT
1 TGTATCGATACAT
166274 TGTATCGATACAT
1 TGTATCGATACAT
166287 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:171281 original size:34 final size:35
Alignment explanation
Indices: 171243--171309 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
171233 CCTTACAACA
171243 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
171277 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
171310 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:171784 original size:13 final size:13
Alignment explanation
Indices: 171766--171791 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
171756 CAATTTTTTG
171766 TGTATCGATACAT
1 TGTATCGATACAT
171779 TGTATCGATACAT
1 TGTATCGATACAT
171792 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:174078 original size:19 final size:19
Alignment explanation
Indices: 174035--174090 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
174025 CTGCCAATTT
174035 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
*
174055 TATGTATCGATACAATGAG
1 CATGTATCGATACAATGAG
*
174074 CATGTATCTATACAATG
1 CATGTATCGATACAATG
174091 TATCGATACT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:177682 original size:20 final size:20
Alignment explanation
Indices: 177636--177675 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
177626 CTTTTTTGCG
177636 AAGGTGATTTCCACAATTCA
1 AAGGTGATTTCCACAATTCA
*
177656 AAGGTGATTTCCATAATTCA
1 AAGGTGATTTCCACAATTCA
177676 TTAGTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (20 bp):
AAGGTGATTTCCACAATTCA
Found at i:178429 original size:13 final size:13
Alignment explanation
Indices: 178411--178470 Score: 67
Period size: 13 Copynumber: 5.0 Consensus size: 13
178401 ATTAAGGAAA
178411 TGTATCGATACAT
1 TGTATCGATACAT
178424 TGTATCGATACA-
1 TGTATCGATACAT
**
178436 T-TAAGGA-A-A-
1 TGTATCGATACAT
178445 TGTATCGATACAT
1 TGTATCGATACAT
178458 TGTATCGATACAT
1 TGTATCGATACAT
178471 CGATCTTTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 2 0.05
10 5 0.13
11 5 0.13
12 2 0.05
13 25 0.64
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:178433 original size:34 final size:34
Alignment explanation
Indices: 178390--178470 Score: 162
Period size: 34 Copynumber: 2.4 Consensus size: 34
178380 GCCAAAGAAA
178390 TGTATCGATACATTAAGGAAATGTATCGATACAT
1 TGTATCGATACATTAAGGAAATGTATCGATACAT
178424 TGTATCGATACATTAAGGAAATGTATCGATACAT
1 TGTATCGATACATTAAGGAAATGTATCGATACAT
178458 TGTATCGATACAT
1 TGTATCGATACAT
178471 CGATCTTTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 47 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.33
Consensus pattern (34 bp):
TGTATCGATACATTAAGGAAATGTATCGATACAT
Found at i:180996 original size:51 final size:50
Alignment explanation
Indices: 180920--181087 Score: 214
Period size: 51 Copynumber: 3.4 Consensus size: 50
180910 TTATTTCCAA
**
180920 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATT-TCCACAATC
**
180971 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTT-TTC-ATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTCCACAATC
* ** * *
181019 GGGGATAGTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTC-CACAATC
*
181070 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
181088 TTATTTTCGA
Statistics
Matches: 101, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
48 41 0.41
49 1 0.01
50 1 0.01
51 58 0.57
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACATTAATTTCCACAATC
Found at i:181148 original size:178 final size:179
Alignment explanation
Indices: 180829--181164 Score: 478
Period size: 178 Copynumber: 1.9 Consensus size: 179
180819 AAATTTCTAG
* * *
180829 ATTTTTCATCTCGGGGATACTCTAACCCTGGTTCTATTTCTAAAACATCAATTTTTCATAATCGG
1 ATTTTTCA-CTCGGGGATACTCCAACCCCGGTTCTATTTCTAAAACATCAATTTCTCATAATCGG
* * *
180894 GGATACCCTCATCCCGTTATTTCCAAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACCAA
65 GGATACCCTAACCCCGTTATTTCCAAGGGGATAATCCAACCCCGATTTTATTTCTAAAACACCAA
180959 TTCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATTA
130 TTCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATTA
* * *
181009 ATTTTTCA-TCGGGGATAGTCCAACCCCGGCTT-TATTTCTAAAATATTAATTTCTCATAATCGG
1 ATTTTTCACTCGGGGATACTCCAACCCCGG-TTCTATTTCTAAAACATCAATTTCTCATAATCGG
* * * * * * *
181072 GGATACTCTAACCCCGTTATTTTCGAGGGGATAATCCAATCCCGATTTTATTTCTAAATCATCGA
65 GGATACCCTAACCCCGTTATTTCCAAGGGGATAATCCAACCCCGATTTTATTTCTAAAACACCAA
* *
181137 TTTTTCACAATCGGGGATACTCCAACCC
130 TTCTCCACAATCGGGGATACTCCAACCC
181165 TATTATTTTT
Statistics
Matches: 137, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
178 127 0.93
179 2 0.01
180 8 0.06
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (179 bp):
ATTTTTCACTCGGGGATACTCCAACCCCGGTTCTATTTCTAAAACATCAATTTCTCATAATCGGG
GATACCCTAACCCCGTTATTTCCAAGGGGATAATCCAACCCCGATTTTATTTCTAAAACACCAAT
TCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACATTA
Found at i:181149 original size:79 final size:79
Alignment explanation
Indices: 181004--181192 Score: 211
Period size: 79 Copynumber: 2.4 Consensus size: 79
180994 ATTTCTAAAA
* * * *
181004 CATTAATTTTTCATCGGGGATAGTCCAACCCCGGCTTTATTTCTAAAATATTAATTTCTCATAAT
1 CATT-ATTTTTCA--GGGGATAATCCAACCCCGACTTTATTTCTAAAATATCAATTTCTCACAAT
*
181069 CGGGGATACTCTAACCC
63 CGGGGATACTCCAACCC
* * * * *
181086 CGTTA-TTTTCGAGGGGATAATCCAATCCCGATTTTATTTCT-AAATCATCGATTTTTCACAATC
1 CATTATTTTTC-AGGGGATAATCCAACCCCGACTTTATTTCTAAAAT-ATCAATTTCTCACAATC
181149 GGGGATACTCCAACCC
64 GGGGATACTCCAACCC
* *
181165 TATTATTTTTCAGGGGATACTCCAACCC
1 CATTATTTTTCAGGGGATAATCCAACCC
181193 TGTTATTATC
Statistics
Matches: 90, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
78 4 0.04
79 71 0.79
80 10 0.11
81 2 0.02
82 3 0.03
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (79 bp):
CATTATTTTTCAGGGGATAATCCAACCCCGACTTTATTTCTAAAATATCAATTTCTCACAATCGG
GGATACTCCAACCC
Found at i:181207 original size:79 final size:79
Alignment explanation
Indices: 181057--181208 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 79
181047 TAAAATATTA
* * *
181057 ATTTCTCATAATCGGGGATACTCTAACCCCGTTATTTTCGAGGGGATAATCCAATCCCGATTTTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATAATCCAATCCCGATTTTA
*
181122 TTTCTAAATCATCG
66 TCTCTAAATCATCG
* * *
181136 ATTTTTCACAATCGGGGATACTCCAACCCTATTATTTTTC-AGGGGATACTCCAA-CCCTG-TTA
1 ATTTCTCACAATCGGGGATACTCCAACCCCATTA-TTTTCGAGGGGATAATCCAATCCC-GATT-
181198 TTATCTCTAAA
63 TTATCTCTAAA
181209 ATATTAAATT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
78 5 0.08
79 53 0.84
80 5 0.08
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (79 bp):
ATTTCTCACAATCGGGGATACTCCAACCCCATTATTTTCGAGGGGATAATCCAATCCCGATTTTA
TCTCTAAATCATCG
Found at i:182537 original size:93 final size:92
Alignment explanation
Indices: 182356--182575 Score: 270
Period size: 93 Copynumber: 2.4 Consensus size: 92
182346 TACATTTAGG
* *
182356 GATGTA-CGATACATT-ATATATTGTA-TGAATACATTTTCATGTGTATCAATACAAATGAGGGT
1 GATGTATCGATACATTCATATAATGTATTGAA-ACATTTGCATGTGTATCAATACAAATGAGGGT
*
182418 TTCAAGATTTCTTTAGCTATTACCAACCA
65 TTCAACATTTCTTTAGCTATTACCAA-CA
* * *
182447 GATGTATCAATACATTCACATAATGTATTGAAACATTATGCAT-TGTATCGATACAAATGAGGGT
1 GATGTATCGATACATTCATATAATGTATTGAAACATT-TGCATGTGTATCAATACAAATGAGGGT
*
182511 TTCAACAGTTT-TTTAGCTATTGCCAACA
65 TTCAACA-TTTCTTTAGCTATTACCAACA
* * * *
182539 GACGTATCGATACATTCATATGATGTATCGATACATT
1 GATGTATCGATACATTCATATAATGTATTGAAACATT
182576 CAATCCTGAA
Statistics
Matches: 111, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 6 0.05
92 41 0.37
93 53 0.48
94 11 0.10
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (92 bp):
GATGTATCGATACATTCATATAATGTATTGAAACATTTGCATGTGTATCAATACAAATGAGGGTT
TCAACATTTCTTTAGCTATTACCAACA
Found at i:183213 original size:17 final size:17
Alignment explanation
Indices: 183187--183221 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
183177 AGTGAATGCA
183187 ATGAAAAGATTATCGAT
1 ATGAAAAGATTATCGAT
* *
183204 ATGAATAGATTTTCGAT
1 ATGAAAAGATTATCGAT
183221 A
1 A
183222 AAAAAGGCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.34
Consensus pattern (17 bp):
ATGAAAAGATTATCGAT
Found at i:189616 original size:30 final size:30
Alignment explanation
Indices: 189580--189642 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
189570 AGTAAGAGTA
189580 TTAAATATTTTATTAAAGGAGAGAAAAATC
1 TTAAATATTTTATTAAAGGAGAGAAAAATC
189610 TTAAATATTTTATTAAAGGAGAGAAAAATC
1 TTAAATATTTTATTAAAGGAGAGAAAAATC
189640 TTA
1 TTA
189643 TTAAGAGGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.49, C:0.03, G:0.13, T:0.35
Consensus pattern (30 bp):
TTAAATATTTTATTAAAGGAGAGAAAAATC
Found at i:190289 original size:21 final size:20
Alignment explanation
Indices: 190263--190301 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
190253 AGGTCAAAAC
190263 CCTAGAAAGTATCGATACACA
1 CCTAG-AAGTATCGATACACA
*
190284 CCTAGATGTATCGATACA
1 CCTAGAAGTATCGATACA
190302 TATTGCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.23
Consensus pattern (20 bp):
CCTAGAAGTATCGATACACA
Found at i:190329 original size:13 final size:13
Alignment explanation
Indices: 190311--190335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
190301 ATATTGCTTA
190311 GTATCGATACATT
1 GTATCGATACATT
190324 GTATCGATACAT
1 GTATCGATACAT
190336 GTTCATAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:190350 original size:32 final size:33
Alignment explanation
Indices: 190290--190353 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
190280 CACACCTAGA
*
190290 TGTATCGATACATATTGCTTAGTATCGATACAT
1 TGTATCGATACATATTGCATAGTATCGATACAT
*
190323 TGTATCGATACATGTT-CATAGTATCGATACA
1 TGTATCGATACATATTGCATAGTATCGATACA
190354 CCTTGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATATTGCATAGTATCGATACAT
Found at i:190508 original size:43 final size:43
Alignment explanation
Indices: 190447--190532 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
190437 GGTAAAATTG
*
190447 AGCCCAATGGCTATAAATTTCAAATGCATGTATCGATACATTA
1 AGCCCAATGACTATAAATTTCAAATGCATGTATCGATACATTA
190490 AGCCCAATGACTATAAATTTCAAATGCATGTATCGATACATTA
1 AGCCCAATGACTATAAATTTCAAATGCATGTATCGATACATTA
190533 TGAATTGTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (43 bp):
AGCCCAATGACTATAAATTTCAAATGCATGTATCGATACATTA
Found at i:193121 original size:26 final size:26
Alignment explanation
Indices: 193087--193139 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
193077 GCGGTTGGAG
*
193087 TATACTCGTTGATGAAAATTTTAATA
1 TATACTCGTTGATGAAAAATTTAATA
193113 TATACTCGTTGATGAAAAATTTAATA
1 TATACTCGTTGATGAAAAATTTAATA
193139 T
1 T
193140 TTTGGAGATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.11, T:0.42
Consensus pattern (26 bp):
TATACTCGTTGATGAAAAATTTAATA
Found at i:193230 original size:79 final size:79
Alignment explanation
Indices: 193139--193407 Score: 282
Period size: 79 Copynumber: 3.4 Consensus size: 79
193129 AAATTTAATA
* ** *
193139 TTTTGGAGATAAAGA-CAGGGTTGTAGTATCCTTTCAAAAATAATGGGACTAGAGTATCC-CTGA
1 TTTTGGAAATAAA-ATCAGGGTTG-AGTATCCCCTCAAAAATAATGGGATTAGAGTATCCTC-GA
193202 TTGTGGAAAATCTG-TG
63 TTGTGGAAAATCTGATG
** *
193218 TTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGGAAATAATAAGG-TTAGAGTATCCTCGAT
1 TTTTGGAAATAAAATCAGGGTT-GAGTATCCCCTCAAAAATAAT-GGGATTAGAGTATCCTCGAT
* *
193282 TATGGAAAATC-GATA
64 TGTGGAAAATCTGATG
* * * *
193297 TTTTAGAAATAAAATCGGGGTTAGAGTATCCCCTCAAAAATAACGGGATTAGAGTATCCTCGATG
1 TTTTGGAAATAAAATCAGGGTT-GAGTATCCCCTCAAAAATAATGGGATTAGAGTATCCTCGATT
*
193362 GT-GAAAATTTGATG
65 GTGGAAAATCTGATG
*
193376 TTCTGGAAATAAAATC-GAGGTTGGAGTATCCC
1 TTTTGGAAATAAAATCAG-GGTT-GAGTATCCC
193408 TGATTGTGAA
Statistics
Matches: 159, Mismatches: 23, Indels: 16
0.80 0.12 0.08
Matches are distributed among these distances:
78 11 0.07
79 144 0.91
80 4 0.03
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.30
Consensus pattern (79 bp):
TTTTGGAAATAAAATCAGGGTTGAGTATCCCCTCAAAAATAATGGGATTAGAGTATCCTCGATTG
TGGAAAATCTGATG
Found at i:193417 original size:51 final size:52
Alignment explanation
Indices: 193348--193463 Score: 137
Period size: 51 Copynumber: 2.2 Consensus size: 52
193338 AACGGGATTA
* * **
193348 GAGTAT-CCTCGATGGTGAAAATTTGATGTTCTGGAAATAAAATCGAGGTTG
1 GAGTATCCCTCGATGGTGAAAAATTGATATTCTAAAAATAAAATCGAGGTTG
* * * *
193399 GAGTATCCCT-GATTGTGAAAAATTGGTATTTTAAAAATAAAATCGGGGTTG
1 GAGTATCCCTCGATGGTGAAAAATTGATATTCTAAAAATAAAATCGAGGTTG
193450 GAGTATCCCCTCGA
1 GAGTAT-CCCTCGA
193464 AAATAACGGG
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
51 45 0.83
52 7 0.13
53 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.31
Consensus pattern (52 bp):
GAGTATCCCTCGATGGTGAAAAATTGATATTCTAAAAATAAAATCGAGGTTG
Found at i:193421 original size:130 final size:131
Alignment explanation
Indices: 193263--193537 Score: 358
Period size: 130 Copynumber: 2.1 Consensus size: 131
193253 GGAAATAATA
* *
193263 AGGTTAGAGTAT-CCTCGATTATGGAAAATCGATATTTTAGAAATAAAATCGGGGTTAGAGTATC
1 AGGTTAGAGTATCCCTCGATTATGAAAAATCGATATTTTAAAAATAAAATCGGGGTTAGAGTATC
* * * *
193327 CCCTCAAAAATAACGGGATTAGAGTATCCTCGATGGTG-AAAATTTGATGTTCTGGAAATAAAAT
66 CCCTCAAAAATAACGGGATTAGAGTATCCCCAATGGTGAAAAATTAG-TGTTCTGAAAATAAAAT
193391 CG
130 CG
* * * * *
193393 AGGTTGGAGTATCCCT-GATTGTGAAAAATTGGTATTTTAAAAATAAAATCGGGGTTGGAGTATC
1 AGGTTAGAGTATCCCTCGATTATGAAAAATCGATATTTTAAAAATAAAATCGGGGTTAGAGTATC
* * * * * *
193457 CCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAAATAAAATT
66 CCCTCAAAAATAACGGGATTAGAGTATCCCCAATGGTGAAAAATTAGTGTTCTGAAAATAAAATC
193522 G
131 G
*
193523 GGGTTAGAGTATCCC
1 AGGTTAGAGTATCCC
193538 CTCAGAAATA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
130 114 0.92
131 10 0.08
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (131 bp):
AGGTTAGAGTATCCCTCGATTATGAAAAATCGATATTTTAAAAATAAAATCGGGGTTAGAGTATC
CCCTCAAAAATAACGGGATTAGAGTATCCCCAATGGTGAAAAATTAGTGTTCTGAAAATAAAATC
G
Found at i:193479 original size:79 final size:79
Alignment explanation
Indices: 193394--193781 Score: 485
Period size: 79 Copynumber: 4.9 Consensus size: 79
193384 ATAAAATCGA
* * *
193394 GGTTGGAGTATCCCTGATTGTGAAAAATTGGTATTTTAAAAATAAAATCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCCC
193459 CTCGAAAATAACGG
66 CTCGAAAATAACGG
* * * ** *
193473 GGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAAATAAAATTGGGGTTAGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCCC
*
193538 CTC-AGAAATAACGA
66 CTCGA-AAATAACGG
* * * *
193552 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCCC
* *
193617 ATCGAAAGTAACGG
66 CTCGAAAATAACGG
* * * * * * *
193631 GATCGGAGTATTCCCGATTGTGAAAAATTGGCATTTTGGAAATAAAACTGGGG-TGGAGCATCCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCCC
* *
193695 CTAGGAAATAACGG
66 CTCGAAAATAACGG
* *
193709 GGTTAGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAAA-AAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTT-GAAAATAAAACCGGGGTTGGAGTATCC
193773 CCTCAGAAA
65 CCTC-GAAA
193782 TAAAAACATG
Statistics
Matches: 263, Mismatches: 41, Indels: 9
0.84 0.13 0.03
Matches are distributed among these distances:
78 61 0.23
79 198 0.75
80 4 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTATCCC
CTCGAAAATAACGG
Found at i:193550 original size:209 final size:209
Alignment explanation
Indices: 193190--193616 Score: 540
Period size: 209 Copynumber: 2.0 Consensus size: 209
193180 AATGGGACTA
* * ** *
193190 GAGTATCCCTGATTGTGGAAAATCTGTGTTTTGGAAATAAAATCAGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTGTGAAAAATCTGTATTTTAAAAATAAAATCAGGGTTGGAGTATCCCCTCGA
* * * * *
193255 AAATAATAAGGTTAGAGTATCCTCGATTATGGAAAATCGATATTTTAGAAATAAAATCGGGGTTA
66 AAATAACAAGGTTAGAGTATCCCCAATTATGAAAAATAGATATTTTAGAAATAAAATCGGGGTTA
* * *
193320 GAGTATCCCCTCAAAAATAACG-GGATTAGAGTATCCTCGATGGTG-AAAATTTGATGTTCTGGA
131 GAGTATCCCCTCAAAAATAACGAGG-TTAGAGTATCCCCGATGATGAAAAATTAG-TGTTCTGGA
*
193383 AATAAAATCGAGGTTG
194 AATAAAACCGAGGTTG
*
193399 GAGTATCCCTGATTGTGAAAAAT-TGGTATTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCG
1 GAGTATCCCTGATTGTGAAAAATCT-GTATTTTAAAAATAAAATCAGGGTTGGAGTATCCCCTCG
** * * * *
193463 AAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTAG-TGTTTT-GAAAATAAAATTGGGG
65 AAAATAACAAGGTTAGAGTATCCCCAATTATGAAAAA-TAGATATTTTAG-AAATAAAATCGGGG
* * * *
193526 TTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGG
128 TTAGAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAAATTAGTGTTCTGG
*
193591 AAATAAAACCGGGGTTG
193 AAATAAAACCGAGGTTG
193608 GAGTATCCC
1 GAGTATCCC
193617 ATCGAAAGTA
Statistics
Matches: 187, Mismatches: 26, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
208 2 0.01
209 174 0.93
210 11 0.06
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (209 bp):
GAGTATCCCTGATTGTGAAAAATCTGTATTTTAAAAATAAAATCAGGGTTGGAGTATCCCCTCGA
AAATAACAAGGTTAGAGTATCCCCAATTATGAAAAATAGATATTTTAGAAATAAAATCGGGGTTA
GAGTATCCCCTCAAAAATAACGAGGTTAGAGTATCCCCGATGATGAAAAATTAGTGTTCTGGAAA
TAAAACCGAGGTTG
Found at i:193562 original size:158 final size:157
Alignment explanation
Indices: 193391--193781 Score: 534
Period size: 158 Copynumber: 2.5 Consensus size: 157
193381 GAAATAAAAT
* * * *
193391 CGAGGTTGGAGTATCCCTGATTGTGAAAAATTGGTATTTTAAAAATAAAATCGGGGTTGGAGTAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTAT
* * ** *
193456 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATTAGTGTTTTGAAAATAAAAT
66 CCCCTCGAAAATAACGGGATCGGAGTATCCCCAATTGTGAAAAATTAGCATTTTGAAAATAAAAC
*
193521 TGGGGTTAGAGTATCCCCTCA-GAAATAA
131 TGGGG-TAGAGCATCCCCT-AGGAAATAA
* * *
193549 CGAGGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTAT
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTAT
* * * * * *
193614 CCCATCGAAAGTAACGGGATCGGAGTATTCCCGATTGTGAAAAATTGGCATTTTGGAAATAAAAC
66 CCCCTCGAAAATAACGGGATCGGAGTATCCCCAATTGTGAAAAATTAGCATTTTGAAAATAAAAC
*
193679 TGGGGTGGAGCATCCCCTAGGAAATAA
131 TGGGGTAGAGCATCCCCTAGGAAATAA
* *
193706 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGGTATTTTGGAAAA-AAAACCGGGGTTGGAGTA
1 CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTT-GAAAATAAAACCGGGGTTGGAGTA
193770 TCCCCTCAGAAA
65 TCCCCTC-GAAA
193782 TAAAAACATG
Statistics
Matches: 204, Mismatches: 26, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
156 1 0.00
157 78 0.38
158 125 0.61
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (157 bp):
CGAGGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGATCGGAGTATCCCCAATTGTGAAAAATTAGCATTTTGAAAATAAAAC
TGGGGTAGAGCATCCCCTAGGAAATAA
Found at i:193816 original size:157 final size:156
Alignment explanation
Indices: 193506--193790 Score: 360
Period size: 157 Copynumber: 1.8 Consensus size: 156
193496 AAAATTAGTG
* * *
193506 TTTTGAAAATAAAATTGGGGTTAGAGTATCCCCTCAGAAATAACGAGGTTGGAGTATCCCCGATT
1 TTTTGAAAATAAAACTGGGGTTAGAGCATCCCCTCAGAAATAACGAGGTTAGAGTATCCCCGATT
* * ****
193571 ATGAAAAATTAGTGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCATCGAAAGTAACGGGATCG
66 ATGAAAAATTAGTATTTTGGAAAAAAAACCGGGGTTGGAGTATCCCATCGAAAGTAAAAACATCG
* * *
193636 GAGTATTCCCGATTGTGAAAAATTGGCA
131 AAGAATT--CGATTATGAAAAATTGGCA
* * *
193664 TTTTGGAAATAAAACTGGGG-TGGAGCATCCCCT-AGGAAATAACGGGGTTAGAGTATCCCCGAT
1 TTTTGAAAATAAAACTGGGGTTAGAGCATCCCCTCA-GAAATAACGAGGTTAGAGTATCCCCGAT
* *
193727 TATGAAAAATTGGTATTTTGGAAAAAAAACCGGGGTTGGAGTATCCCCTCAGAAA-TAAAAACAT
65 TATGAAAAATTAGTATTTTGGAAAAAAAACCGGGGTTGGAGTATCCCATC-GAAAGTAAAAACAT
193791 GAATGAAATT
Statistics
Matches: 111, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
156 1 0.01
157 88 0.79
158 22 0.20
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (156 bp):
TTTTGAAAATAAAACTGGGGTTAGAGCATCCCCTCAGAAATAACGAGGTTAGAGTATCCCCGATT
ATGAAAAATTAGTATTTTGGAAAAAAAACCGGGGTTGGAGTATCCCATCGAAAGTAAAAACATCG
AAGAATTCGATTATGAAAAATTGGCA
Found at i:197675 original size:13 final size:13
Alignment explanation
Indices: 197657--197683 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
197647 ACAAACAGTA
197657 AATGTATTAATAC
1 AATGTATTAATAC
197670 AATGTATTAATAC
1 AATGTATTAATAC
197683 A
1 A
197684 TAAGTGTTGT
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:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (13 bp):
AATGTATTAATAC
Found at i:197701 original size:19 final size:19
Alignment explanation
Indices: 197679--197734 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
197669 CAATGTATTA
197679 ATACATAAGTGTTGTATCG
1 ATACATAAGTGTTGTATCG
*
197698 ATAC--AA----TGTATCA
1 ATACATAAGTGTTGTATCG
197711 ATACATAAGTGTTGTATCG
1 ATACATAAGTGTTGTATCG
197730 ATACA
1 ATACA
197735 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 12
0.67 0.05 0.28
Matches are distributed among these distances:
13 10 0.34
15 2 0.07
17 2 0.07
19 15 0.52
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.34
Consensus pattern (19 bp):
ATACATAAGTGTTGTATCG
Found at i:197702 original size:32 final size:32
Alignment explanation
Indices: 197666--197741 Score: 143
Period size: 32 Copynumber: 2.4 Consensus size: 32
197656 AAATGTATTA
*
197666 ATACAATGTATTAATACATAAGTGTTGTATCG
1 ATACAATGTATCAATACATAAGTGTTGTATCG
197698 ATACAATGTATCAATACATAAGTGTTGTATCG
1 ATACAATGTATCAATACATAAGTGTTGTATCG
197730 ATACAATGTATC
1 ATACAATGTATC
197742 GCTACAAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (32 bp):
ATACAATGTATCAATACATAAGTGTTGTATCG
Found at i:197804 original size:13 final size:13
Alignment explanation
Indices: 197786--197812 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
197776 CATTACTCAA
197786 TGTATCGATACAT
1 TGTATCGATACAT
197799 TGTATCGATACAT
1 TGTATCGATACAT
197812 T
1 T
197813 CATCTTTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:213233 original size:20 final size:20
Alignment explanation
Indices: 213159--213224 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
213149 AAAAAGATAG
*
213159 AATGTATCGATACATTGAAG
1 AATGTATCGATACATTGAAA
* *
213179 AATGTATCGATACATTCATA
1 AATGTATCGATACATTGAAA
*
213199 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
213219 AATGTA
1 AATGTA
213225 CCGACACATC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.15, T:0.32
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:214063 original size:46 final size:49
Alignment explanation
Indices: 213943--214068 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
213933 AAGAGGAGTG
* *
213943 CCAATGTGCCAATTTAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
* *
213992 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAA-TG-AAGGTGGA
1 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
* * *
214039 -CAATGTGTTGATTCAAGGCTAGCGACATTG
1 CCAATGTGCTAATTCAAGGCCAGCGACATTG
214069 AGTTAACAAA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.39
47 7 0.10
48 1 0.01
49 35 0.50
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.22
Consensus pattern (49 bp):
CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
Found at i:214081 original size:46 final size:46
Alignment explanation
Indices: 213944--214108 Score: 152
Period size: 46 Copynumber: 3.5 Consensus size: 46
213934 AGAGGAGTGC
** * * * *
213944 CAATGTGCCAATTTAAGGCCAGCGACATTGGGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--CAAAGGTGGA
* * **
213992 CCAATGTGCTAATTCAAGGCCAGCGACATTGGGCTAATGAAGGTGGA
1 -CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAACAAAGGTGGA
* * * *
214039 CAATGTGTTGATTCAAGGCTAGCGACATTGAGTTAACAAAGGT-GC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAACAAAGGTGGA
* *
214084 CAATATGCTGATTCAATGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
214109 TATCAGACTT
Statistics
Matches: 99, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
45 22 0.22
46 36 0.36
47 7 0.07
49 34 0.34
ACGTcount: A:0.32, C:0.18, G:0.28, T:0.22
Consensus pattern (46 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAACAAAGGTGGA
Found at i:214405 original size:28 final size:28
Alignment explanation
Indices: 214201--215732 Score: 891
Period size: 28 Copynumber: 53.8 Consensus size: 28
214191 AACTTCTGTA
* *
214201 GGCTTTGAAAGGATGCCACTGATTTGTGTG
1 GGCTTTAAAAGGATGCCACTGA-CT-TGTG
*
214231 GGCTTTGAGAAGGATGCCACTGACTTGTG
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
* * *
214260 GGCTTTGAAATGGGTTGCCACCGACTTGTTTG
1 GGCTTT-AAA-AGGATGCCACTGACTTG--TG
* *
214292 GGCTTTGAGAAGGATGCCACTAACTTGTG
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
* *
214321 GGCTTTGAGAGGGATGCCACTGACTTGTG
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
* * **
214350 GGCTTTGAAATGGGTTGCCACCAACTTGTG
1 GGCTTT-AAA-AGGATGCCACTGACTTGTG
214380 GGCTTTAAAAGGATGCCACTGACTTGCGTG
1 GGCTTTAAAAGGATGCCACTGACTT--GTG
* *
214410 GGCTTTGAAAGGGTGCCACTGACTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* *
214438 GGCATTGAAA-GAGTGCCACTGACTTGTG
1 GGCTTTAAAAGGA-TGCCACTGACTTGTG
* * * * *
214466 GGCTTTGAAAGGGTACGATTGAC-TGTTG
1 GGCTTTAAAAGGATGCCACTGACTTG-TG
* * **
214494 GGCTTTGAAAGGGTGCCACTGACTCATG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* *
214522 GGCTTTGATAGGATGCCACTGACTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
214550 GGCTTTGAAAAGAGTTGCCGCCGACTTGTG
1 GGCTTT-AAAAG-GATGCCACTGACTTGTG
** * **
214580 GGCTTTGGAATGATGCCACCAACTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
214608 GGCTTTGAAAAAAGTTGCCACCGACTCGTGTG
1 GGCTTT--AAAAGGATGCCACTGACT--TGTG
* *
214640 GGCTTTGAAAA-AACGCCACTGACTTGTG
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
*
214668 GGCTTTGAAAA-CAGTGCCACTGACTTGTG
1 GGCTTT-AAAAGGA-TGCCACTGACTTGTG
* * *
214697 GGCTTTGAAAGGGTGCCACTGATTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
*
214725 GGCTTTGAAAGGATGCCACTGACTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* *
214753 GGCTTTGAAAA-GAGTGTCAATGACTTGTG
1 GGCTTT-AAAAGGA-TGCCACTGACTTGTG
* * * *
214782 GGCTTTGAAAGGGTGCCACCGACTCGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
214810 GGCTTTGAAAGGATGCTAC-GAACTTATG
1 GGCTTTAAAAGGATGCCACTG-ACTTGTG
* * * *
214838 GGCTTCGAAAAGAGTTGCCACCGACTCGTGTA
1 GGCTT-TAAAAG-GATGCCACTGACT--TGTG
* * * *
214870 GGCTTTGAAAGGGTGCCACCGACTCGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
214898 GGCTTTGAAAGGATGGCACTAACTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
214926 GGCTTTGAAAAGAGTTGCCACCGACTCGGGTG
1 GGCTTT-AAAAG-GATGCCACTGACT--TGTG
214958 GGCTTTGAAAA-GATGCCACTGACTTGTG
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
* * *
214986 GGCTTTGAAAAGAGTTACCACCGACTCGTGTG
1 GGCTTT-AAAAG-GATGCCACTGACT--TGTG
215018 GGCTTTGAAAA-GATGCCACTGACTTGTG
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
* * *
215046 GGCTTTGAAAAGAATGCCATTGACTTGTA
1 GGCTTT-AAAAGGATGCCACTGACTTGTG
* * *
215075 GGCTTAAAAAGGGGTGCCA-TGGAGTTGTG
1 GGCTTTAAAA-GGATGCCACT-GACTTGTG
* * * * *
215104 GAC-ATAAAATGATGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215131 GAC-TTAAAAGGGATGCCACGGAGTTGTG
1 GGCTTTAAAA-GGATGCCACTGACTTGTG
* * * * *
215159 GACTTTTAAAGGGTGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215187 GAC-TTAAAAGGATGCCAC-GAAGTTGTT
1 GGCTTTAAAAGGATGCCACTG-ACTTGTG
* * * *
215214 GAC-TTAAAAGGATGCCACGGAGTGGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * ** * *
215241 GACTTTAAAAGGGTGCCACAAAGTTATG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * *
215269 GAC-TTAAAAGGGTGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * * *
215296 GAC-TTAAAAGGGTGCCACGGAGTTATG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * *
215323 GAC-TTAAAAAGATGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * * *
215350 GACTTTAAAAGGGTGCCA-TAGAGTTATT
1 GGCTTTAAAAGGATGCCACT-GACTTGTG
* * *
215378 GACTTTAAAAGGATGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * *
215406 GAC-TTAAAAGGATGCCACGGAGTTATG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215433 GAC-TTAAAAGGGATGCCACGGAGTTGTG
1 GGCTTTAAAA-GGATGCCACTGACTTGTG
* * * * *
215461 GACTTTTAAAGGGTGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * *
215489 GACTTTGAAAGGATGCCACAGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215517 GAC-TTAAAAGGATGCCACGGACTGGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * ** * *
215544 GACTTTAAAAGGGTGCCACAAAGTTATG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * * *
215572 GAC-TTAAAAGGGTGCCACAGAGTTATG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215599 GAC-TTAAAAGGATGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * * * *
215626 GACTTTAAAAGGGTGTCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215654 GACTTTAAAAGGATGCCACGGAGTTGTG
1 GGCTTTAAAAGGATGCCACTGACTTGTG
* * *
215682 GAC-TTAAAAGGATGCCA-TGGAGTGGTG
1 GGCTTTAAAAGGATGCCACT-GACTTGTG
*
215709 GACTTTAAAAGGAAATGCCACTGA
1 GGCTTTAAAAGG--ATGCCACTGA
215733 ATCATGGTCT
Statistics
Matches: 1261, Mismatches: 184, Indels: 114
0.81 0.12 0.07
Matches are distributed among these distances:
26 1 0.00
27 274 0.22
28 558 0.44
29 154 0.12
30 180 0.14
31 37 0.03
32 57 0.05
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.26
Consensus pattern (28 bp):
GGCTTTAAAAGGATGCCACTGACTTGTG
Found at i:214643 original size:230 final size:229
Alignment explanation
Indices: 214201--215064 Score: 950
Period size: 230 Copynumber: 3.7 Consensus size: 229
214191 AACTTCTGTA
* *
214201 GGCTTTGAAAGGATGCCACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACT-TGTGGGCTT
1 GGCTTTGAAAGGATGCCACTGA-CT-TGTGGGCTTTGA-AAGGGTGCCACTGACTGTGTGGGCTT
* * * *
214265 TGAAATGGGTTGCCACCGACTTGTTTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAG
63 TGAAA--GGATGCCACTGACTTG--TGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGAA
* * * * *
214330 AGGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGGGCTTT--AAAAGGA
123 AGAG-TGCCACCGACTTGTGGGCTTTGAAAT--GATGCCACCAACTTGTGGGCTTTGAAAAAAGT
* * *
214393 TGCCACTGACTTGCGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
185 TGCCACCGACTCGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
* * * *
214438 GGCATTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTACGATTGACTGT-TGGGCTTTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTGTGTGGGCTTTG
* ** *
214501 AAAGGGTGCCACTGACTCATGGGCTTTGATAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTT
65 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGAG-T
* *
214566 GCCGCCGACTTGTGGGCTTTGGAATGATGCCACCAACTTGTGGGCTTTGAAAAAAGTTGCCACCG
128 GCCACCGACTTGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAAAGTTGCCACCG
****
214631 ACTCGTGTGGGCTTTGAAAAAACGCCACTGACTTGTG
193 ACTCGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
** *
214668 GGCTTTGAAAACAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA-TTTGTGGGCTTTG
1 GGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTGTGTGGGCTTTG
* * * *
214732 AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTGTCAATGACTTGTGGGCTTTGAAAGGGTG
65 AAAGGATGCCACTGACTTGTGGGCTTTGAAAGGA-TGCCACTGACTTGTGGGCTTTGAAAGAGTG
* * * * * * *
214797 CCACCGACTCGTGGGCTTTGAAAGGATGCTACGAACTTATGGGCTTCGAAAAGAGTTGCCACCGA
129 CCACCGACTTGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAAAGTTGCCACCGA
* * *
214862 CTCGTGTAGGCTTTGAAAGGGTGCCACCGACTCGTG
194 CTCGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
* * * * *
214898 GGCTTTGAAAGGATGGCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGGGTGGGCTT
1 GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GGTGCCACTGACT-GTGTGGGCTT
* * * *
214963 TGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAA
63 TGAAAGGATGCCACTGACTTGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAA
* *
215028 -AGATGCCACTGACTTGTGGGCTTTGAAAAGAATGCCA
124 GAG-TGCCACCGACTTGTGGGCTTTGAAATG-ATGCCA
215065 TTGACTTGTA
Statistics
Matches: 531, Mismatches: 78, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
228 22 0.04
229 45 0.08
230 193 0.36
231 88 0.17
232 33 0.06
233 37 0.07
234 34 0.06
235 15 0.03
236 41 0.08
237 23 0.04
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (229 bp):
GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTGTGTGGGCTTTGA
AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGAGTGCC
ACCGACTTGTGGGCTTTGAAATGATGCCACCAACTTGTGGGCTTTGAAAAAAGTTGCCACCGACT
CGTGTGGGCTTTGAAAGGGTGCCACTGACTTGTG
Found at i:214672 original size:88 final size:85
Alignment explanation
Indices: 214177--215698 Score: 899
Period size: 83 Copynumber: 17.8 Consensus size: 85
214167 GGGCTTTTAA
* * * *
214177 AAAAAGGTGCCACCAACTTCTGTAGGCTTTGAAAGGATGCCACTGATTTGTGTGGGCTTTGAGAA
1 AAAAGGGTGCCACCGAC-T-TGTGGGCTTTGAAAGGATGCCACTGA-CT-TGTGGGCTTTGA-AA
*
214242 GGATGCCACTGACTTGTGGGCTTTG
61 AGATGCCACTGACTTGTGGGCTTTG
* * *
214267 AAATGGGTTGCCACCGACTTGTTTGGGCTTTGAGAAGGATGCCACTAACTTGTGGGCTTTGAGAG
1 AAAAGGG-TGCCACCGACTTG--TGGGCTTTGA-AAGGATGCCACTGACTTGTGGGCTTTGA-AA
*
214332 GGATGCCACTGACTTGTGGGCTTTG
61 AGATGCCACTGACTTGTGGGCTTTG
* * * *
214357 AAATGGGTTGCCACCAACTTGTGGGCTTTAAAAGGATGCCACTGACTTGCGTGGGCTTTGAAAGG
1 AAAAGGG-TGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTT--GTGGGCTTTGAAAAG
* *
214422 GTGCCACTGACTTGTGGGCATTG
63 ATGCCACTGACTTGTGGGCTTTG
* * * * * * * *
214445 -AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTACGATTGAC-TGTTGGGCTTTGAAAGGGT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTG-TGGGCTTTGAAAAGAT
**
214508 GCCACTGACTCATGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * * * * * * *
214529 -ATAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTGCCGCCGACTTGTGGGCTTTGGAATGA
1 AAAAGGGTGCCACCGACTTGTGGGCTTTG-AAAG-GATGCCACTGACTTGTGGGCTTTGAAAAGA
**
214593 TGCCACCAACTTGTGGGCTTTG
64 TGCCACTGACTTGTGGGCTTTG
* * ** * *
214615 AAAAAAGTTGCCACCGACTCGTGTGGGCTTTGAAAAAACGCCACTGACTTGTGGGCTTTGAAAAC
1 -AAAAGGGTGCCACCGACT--TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAG
214680 AGTGCCACTGACTTGTGGGCTTTG
63 A-TGCCACTGACTTGTGGGCTTTG
* *
214704 -AAAGGGTGCCACTGATTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGAGT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-T
* *
214768 GTCAATGACTTGTGGGCTTTG
65 GCCACTGACTTGTGGGCTTTG
* * * *
214789 -AAAGGGTGCCACCGACTCGTGGGCTTTGAAAGGATGCTAC-GAACTTATGGGCTTCGAAAAGAG
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTG-ACTTGTGGGCTTTGAAAAGA-
* *
214852 TTGCCACCGACTCGTGTAGGCTTTG
64 -TGCCACTGACT--TGTGGGCTTTG
* * *
214877 -AAAGGGTGCCACCGACTCGTGGGCTTTGAAAGGATGGCACTAACTTGTGGGCTTTGAAAAGAGT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA--
* *
214941 TGCCACCGACTCGGGTGGGCTTTG
64 TGCCACTGACT--TGTGGGCTTTG
* * * * *
214965 AAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTGGGCTTTGAAAA
1 AAAAGGGTGCCACCGACTTGTGGGCTTTG-AAAG-GATGCCACTGACT--TGTGGGCTTTGAAAA
215029 GATGCCACTGACTTGTGGGCTTTG
62 GATGCCACTGACTTGTGGGCTTTG
** ** * ** * * * *
215053 AAAAGAATGCCATTGACTTGTAGGCTTAAAAAGGGGTGCCA-TGGAGTTGTGGAC-AT-AAAATG
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAA-GGATGCCACT-GACTTGTGGGCTTTGAAAA-G
* * *
215115 ATGCCACGGAGTTGTGGAC-TT-
63 ATGCCACTGACTTGTGGGCTTTG
* * * * * * * *
215136 AAAAGGGATGCCACGGAGTTGTGGACTTTTAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGA
1 AAAAGGG-TGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GA
* * *
215199 TGCCAC-GAAGTTGTTGAC-TT-
64 TGCCACTG-ACTTGTGGGCTTTG
* * * * * * * ** * * * *
215219 AAAAGGATGCCACGGAGTGGTGGACTTTAAAAGGGTGCCACAAAGTTATGGAC-TT-AAAAGGGT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAT
* * *
215282 GCCACGGAGTTGTGGAC-TT-
65 GCCACTGACTTGTGGGCTTTG
* * * * * * * * * *
215301 AAAAGGGTGCCACGGAGTTATGGAC-TTAAAAAGATGCCACGGAGTTGTGGACTTT-AAAAGGGT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAT
* * * *
215364 GCCA-TAGAGTTATTGACTTT-
65 GCCACT-GACTTGTGGGCTTTG
* * * * * * * * *
215384 AAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTATGGAC-TT-AAAAGGGA
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA--GA
* * *
215446 TGCCACGGAGTTGTGGACTTT-
64 TGCCACTGACTTGTGGGCTTTG
* * * * * * *
215467 TAAAGGGTGCCACGGAGTTGTGGACTTTGAAAGGATGCCACAGAGTTGTGGAC-TT-AAAAGGAT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAT
* * *
215530 GCCACGGACTGGTGGACTTT-
65 GCCACTGACTTGTGGGCTTTG
** * * * * * * * * *
215550 AAAAGGGTGCCACAAAGTTATGGAC-TTAAAAGGGTGCCACAGAGTTATGGAC-TT-AAAAGGAT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAT
* * *
215612 GCCACGGAGTTGTGGACTTT-
65 GCCACTGACTTGTGGGCTTTG
* * * * * * * *
215632 AAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TT-AAAAGGAT
1 AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAT
215695 GCCA
65 GCCA
215699 TGGAGTGGTG
Statistics
Matches: 1221, Mismatches: 171, Indels: 87
0.83 0.12 0.06
Matches are distributed among these distances:
81 22 0.02
82 191 0.16
83 229 0.19
84 114 0.09
85 139 0.11
86 81 0.07
87 35 0.03
88 204 0.17
89 63 0.05
90 94 0.08
91 19 0.02
92 30 0.02
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (85 bp):
AAAAGGGTGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATG
CCACTGACTTGTGGGCTTTG
Found at i:214988 original size:60 final size:57
Alignment explanation
Indices: 214201--215079 Score: 794
Period size: 60 Copynumber: 15.1 Consensus size: 57
214191 AACTTCTGTA
* * *
214201 GGCTTTGAAAGGATGCCACTGATTTGTGTGGGCTTTGAGAAGGATGCCACTGACTTGTG
1 GGCTTTGAAAAGATGCCACTGA-CT-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * * * *
214260 GGCTTTGAAATGGGTTGCCACCGACTTGTTTGGGCTTTGAGAAGGATGCCACTAACTTGTG
1 GGCTTTGAAA--AGATGCCACTGACTTG--TGGGCTTTGAAAAGGATGCCACTGACTTGTG
** * * **
214321 GGCTTTGAGAGGGATGCCACTGACTTGTGGGCTTTGAAATGGGTTGCCACCAACTTGTG
1 GGCTTTGA-AAAGATGCCACTGACTTGTGGGCTTTGAAA-AGGATGCCACTGACTTGTG
*
214380 GGCTTT-AAAAGGATGCCACTGACTTGCGTGGGCTTTG-AAAGGGTGCCACTGACTTGTG
1 GGCTTTGAAAA-GATGCCACTGACTT--GTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * * * *
214438 GGCATTG-AAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTACGATTGAC-TGTTG
1 GGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTG-TG
* * ** *
214494 GGCTTTGAAAGGGTGCCACTGACTCATGGGCTTTG-ATAGGATGCCACTGACTTGTG
1 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * * * **
214550 GGCTTTGAAAAGAGTTGCCGCCGACTTGTGGGCTTTG-GAATGATGCCACCAACTTGTG
1 GGCTTTGAAAAGA--TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * * *
214608 GGCTTTGAAAAAAGTTGCCACCGACTCGTGTGGGCTTTGAAAA-AACGCCACTGACTTGTG
1 GGCTTTG--AAAAGATGCCACTGACT--TGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * *
214668 GGCTTTGAAAACAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTG
1 GGCTTTGAAAAGA-TGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * *
214725 GGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GAGTGTCAATGACTTGTG
1 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGA-TGCCACTGACTTGTG
* * * * * *
214782 GGCTTTGAAAGGGTGCCACCGACTCGTGGGCTTTG-AAAGGATGCTAC-GAACTTATG
1 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG-ACTTGTG
* * * * * *
214838 GGCTTCGAAAAGAGTTGCCACCGACTCGTGTAGGCTTTG-AAAGGGTGCCACCGACTCGTG
1 GGCTTTGAAAAGA--TGCCACTGACT--TGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
* * * * * *
214898 GGCTTTGAAAGGATGGCACTAACTTGTGGGCTTTGAAAAGAGTTGCCACCGACTCGGGTG
1 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAG-GATGCCACTGACT--TGTG
* * *
214958 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAGTTACCACCGACTCGTGTG
1 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAG-GATGCCACTGACT--TGTG
* * *
215018 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGAATGCCATTGACTTGTA
1 GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
215075 GGCTT
1 GGCTT
215080 AAAAAGGGGT
Statistics
Matches: 687, Mismatches: 97, Indels: 74
0.80 0.11 0.09
Matches are distributed among these distances:
55 3 0.00
56 133 0.19
57 104 0.15
58 147 0.21
59 54 0.08
60 194 0.28
61 51 0.07
62 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (57 bp):
GGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
Found at i:215125 original size:27 final size:27
Alignment explanation
Indices: 215089--215721 Score: 807
Period size: 27 Copynumber: 23.0 Consensus size: 27
215079 TAAAAAGGGG
* * *
215089 TGCCATGGAGTTGTGGACATAAAATGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
215116 TGCCACGGAGTTGTGGACTTAAAAGGGA
1 TGCCACGGAGTTGTGGACTTAAAA-GGA
* *
215144 TGCCACGGAGTTGTGGACTTTTAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
215172 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
215199 TGCCACGAAGTTGTTGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
215226 TGCCACGGAGTGGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** * *
215254 TGCCACAAAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
215281 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
215308 TGCCACGGAGTTATGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
215335 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** * *
215363 TGCCATAGAGTTATTGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
215391 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
215418 TGCCACGGAGTTATGGACTTAAAAGGGA
1 TGCCACGGAGTTGTGGACTTAAAA-GGA
* *
215446 TGCCACGGAGTTGTGGACTTTTAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
215474 TGCCACGGAGTTGTGGACTTTGAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
215502 TGCCACAGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* * *
215529 TGCCACGGACTGGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
** * *
215557 TGCCACAAAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
215584 TGCCACAGAGTTATGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
*
215611 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
215639 TGTCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
215667 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
215694 TGCCATGGAGTGGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
215722 AATGCCACTG
Statistics
Matches: 535, Mismatches: 62, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
27 273 0.51
28 252 0.47
29 10 0.02
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:215154 original size:55 final size:54
Alignment explanation
Indices: 215081--215721 Score: 832
Period size: 55 Copynumber: 11.6 Consensus size: 54
215071 TGTAGGCTTA
* * *
215081 AAAAGGGGTGCCATGGAGTTGTGGACATAAAATGATGCCACGGAGTTGTGGACTT
1 AAAA-GGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
* *
215136 AAAAGGGATGCCACGGAGTTGTGGACTTTTAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGG-TGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* * * *
215192 AAAAGGATGCCACGAAGTTGTTGACTTAAAAGGATGCCACGGAGTGGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TT
** * *
215247 AAAAGGGTGCCACAAAGTTATGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
* *
215301 AAAAGGGTGCCACGGAGTTATGGACTTAAAAAGATGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TT
** * *
215356 AAAAGGGTGCCATAGAGTTATTGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* *
215411 AAAAGGATGCCACGGAGTTATGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAA-GGATGCCACGGAGTTGTGGAC-TT
* * *
215467 TAAAGGGTGCCACGGAGTTGTGGACTTTGAAAGGATGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* * * * ** *
215522 AAAAGGATGCCACGGACTGGTGGACTTTAAAAGGGTGCCACAAAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* *
215577 AAAAGGGTGCCACAGAGTTATGGACTTAAAAGGATGCCACGGAGTTGTGGACTTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TT
*
215632 AAAAGGGTGTCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT
* * *
215687 AAAAGGATGCCATGGAGTGGTGGACTTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA
215722 AATGCCACTG
Statistics
Matches: 518, Mismatches: 58, Indels: 20
0.87 0.10 0.03
Matches are distributed among these distances:
54 106 0.20
55 279 0.54
56 128 0.25
57 5 0.01
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (54 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
Found at i:217047 original size:35 final size:36
Alignment explanation
Indices: 216990--217058 Score: 88
Period size: 35 Copynumber: 1.9 Consensus size: 36
216980 TTTTTTTGGA
*
216990 TTTTTGTTGTTCTATTTTTATTTTG-CTTTTGCACT
1 TTTTTGTTGTTCTATTTATATTTTGACTTTTGCACT
*
217025 TTTTTGTTTTTCT-TTTCATATTTTGTACTTTTGC
1 TTTTTGTTGTTCTATTT-ATATTTTG-ACTTTTGC
217059 TTTTGACCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 3 0.10
35 19 0.66
37 7 0.24
ACGTcount: A:0.09, C:0.12, G:0.10, T:0.70
Consensus pattern (36 bp):
TTTTTGTTGTTCTATTTATATTTTGACTTTTGCACT
Found at i:225346 original size:38 final size:38
Alignment explanation
Indices: 225251--225347 Score: 122
Period size: 38 Copynumber: 2.6 Consensus size: 38
225241 CATGCCATTG
* * *
225251 GTTTAGAATATTGGCTTTCGTTTTGAACCGTGCCACCA
1 GTTTAGAATAATGGCTTTTGTTTCGAACCGTGCCACCA
* ** *
225289 ATTTAGAATAATGATTTTTGTTTCGAACTGTGCCACCA
1 GTTTAGAATAATGGCTTTTGTTTCGAACCGTGCCACCA
*
225327 GTTTAGAATAGTGGCTTTTGT
1 GTTTAGAATAATGGCTTTTGT
225348 CCATAACTTA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 48 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (38 bp):
GTTTAGAATAATGGCTTTTGTTTCGAACCGTGCCACCA
Found at i:227126 original size:7 final size:7
Alignment explanation
Indices: 227117--227151 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
227107 GCACCTGCAC
*
227117 GTGCCAC
1 GTGCCAA
227124 GTGTCCAA
1 GTG-CCAA
227132 GTGCCAA
1 GTGCCAA
227139 GTGCCAA
1 GTGCCAA
227146 GTGCCA
1 GTGCCA
227152 TATAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (7 bp):
GTGCCAA
Found at i:232397 original size:7 final size:7
Alignment explanation
Indices: 232388--232422 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
232378 GCACCTGCAC
*
232388 GTGCCAC
1 GTGCCAA
232395 GTGTCCAA
1 GTG-CCAA
232403 GTGCCAA
1 GTGCCAA
232410 GTGCCAA
1 GTGCCAA
232417 GTGCCA
1 GTGCCA
232423 TATAATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 20 0.77
8 6 0.23
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (7 bp):
GTGCCAA
Found at i:234504 original size:13 final size:13
Alignment explanation
Indices: 234486--234511 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
234476 TACACCAAGT
234486 ATGTATCGATACA
1 ATGTATCGATACA
234499 ATGTATCGATACA
1 ATGTATCGATACA
234512 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:234509 original size:32 final size:33
Alignment explanation
Indices: 234468--234531 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
234458 TAGCCAAACT
* **
234468 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
234500 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
234532 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:239801 original size:13 final size:13
Alignment explanation
Indices: 239783--239808 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
239773 TACACCAAGT
239783 ATGTATCGATACA
1 ATGTATCGATACA
239796 ATGTATCGATACA
1 ATGTATCGATACA
239809 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:239806 original size:32 final size:33
Alignment explanation
Indices: 239765--239828 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
239755 TAGCCAAACT
* **
239765 TGTATCGATACACCAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
239797 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
239829 TTGGCTTGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 16 0.57
33 12 0.43
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:246465 original size:33 final size:33
Alignment explanation
Indices: 246428--246494 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
246418 TTCAACGATT
246428 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
246461 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
246494 T
1 T
246495 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:246466 original size:13 final size:13
Alignment explanation
Indices: 246448--246472 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246438 CATAAAATGT
246448 TGTATCGATACAA
1 TGTATCGATACAA
246461 TGTATCGATACA
1 TGTATCGATACA
246473 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:246555 original size:13 final size:13
Alignment explanation
Indices: 246537--246561 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
246527 ATTACTCACA
246537 TGTATCGATACAT
1 TGTATCGATACAT
246550 TGTATCGATACA
1 TGTATCGATACA
246562 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:246613 original size:52 final size:50
Alignment explanation
Indices: 246550--246690 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 50
246540 ATCGATACAT
*
246550 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
246602 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
246654 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTATT--ATGTATCGATACATGCAG
246691 TAACTCTTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:249949 original size:21 final size:21
Alignment explanation
Indices: 249924--249966 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
249914 CATGTCAGGA
*
249924 GCATCTCGTTATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
249945 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
249966 G
1 G
249967 TCATTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:254006 original size:17 final size:17
Alignment explanation
Indices: 253986--254023 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
253976 AAAAAGATGC
253986 AAAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAAG
* *
254003 AAAAAAAAACAAAACAG
1 AAAAAAAAAAAAAAAAG
254020 AAAA
1 AAAA
254024 TCTCGATAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.89, C:0.05, G:0.05, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAAAG
Found at i:254017 original size:91 final size:90
Alignment explanation
Indices: 253901--254097 Score: 385
Period size: 91 Copynumber: 2.2 Consensus size: 90
253891 AAAAAGGGAC
253901 AAAAAAAAAAGAAAAAAAAACAAAACAGAAAATCTCGATAAGACACAAGTTTCGAGGCTCACCTA
1 AAAAAAAAAAGAAAAAAAAACAAAACAGAAAATCTCGATAAGACACAAGTTTCGAGGCTCACCTA
253966 ATCTTCACAAAAAAAGATGCAAAAAA
66 ATCTTCACAAAAAAAGATGC-AAAAA
253992 AAAAAAAAAAGAAAAAAAAACAAAACAGAAAATCTCGATAAGACACAAGTTTCGAGGCTCACCTA
1 AAAAAAAAAAGAAAAAAAAACAAAACAGAAAATCTCGATAAGACACAAGTTTCGAGGCTCACCTA
254057 ATCTTCACAAAAAAAGATGCAAAAA
66 ATCTTCACAAAAAAAGATGCAAAAA
254082 AAAAAAAAAAGAAAAA
1 AAAAAAAAAAGAAAAA
254098 CCCCTTTTTC
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
90 21 0.20
91 85 0.80
ACGTcount: A:0.62, C:0.15, G:0.11, T:0.12
Consensus pattern (90 bp):
AAAAAAAAAAGAAAAAAAAACAAAACAGAAAATCTCGATAAGACACAAGTTTCGAGGCTCACCTA
ATCTTCACAAAAAAAGATGCAAAAA
Found at i:255064 original size:31 final size:31
Alignment explanation
Indices: 255026--255170 Score: 197
Period size: 31 Copynumber: 4.7 Consensus size: 31
255016 ATACCTTTTT
255026 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
255057 AAAGTCCACGACCCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
* *
255088 AAAGTCCACGACTCAGTGGC-ATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCAATCTCTT-C-TC
*
255120 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
255150 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
255171 TTTTTTCTTC
Statistics
Matches: 103, Mismatches: 7, Indels: 8
0.87 0.06 0.07
Matches are distributed among these distances:
30 26 0.25
31 53 0.51
32 24 0.23
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:255167 original size:93 final size:93
Alignment explanation
Indices: 255023--255233 Score: 259
Period size: 93 Copynumber: 2.3 Consensus size: 93
255013 CAAATACCTT
255023 TTTAAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACCCAGTGGCAATCTCTGC-T
1 TTTAAAGTCCACGACTCAGTGGC-ATCTCTTCTCAAAGTCCACGACCCAGTGGC-ATCTCTGCTT
* *
255087 CAAAGTCCAC-GAC-TCAGTGGCATCTTTTCC
64 CAAAGCCCACAG-CTTC-GTGGCACCTTTTCC
* * * * *
255117 TTTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 TTTAAAGTCCACGACTCAGTGGCATCTCT-TCTCAAAGTCCACGACCCAGTGGCATCTCTGCTTC
255181 AAAGCCCACAGCTTCGTGGCACCTTTTCC
65 AAAGCCCACAGCTTCGTGGCACCTTTTCC
* * *
255210 TTTAAAGCCCACAACTCCGTGGCA
1 TTTAAAGTCCACGACTCAGTGGCA
255234 CCCTTTTAAG
Statistics
Matches: 103, Mismatches: 10, Indels: 9
0.84 0.08 0.07
Matches are distributed among these distances:
92 7 0.07
93 70 0.68
94 26 0.25
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.28
Consensus pattern (93 bp):
TTTAAAGTCCACGACTCAGTGGCATCTCTTCTCAAAGTCCACGACCCAGTGGCATCTCTGCTTCA
AAGCCCACAGCTTCGTGGCACCTTTTCC
Found at i:255171 original size:62 final size:62
Alignment explanation
Indices: 255026--255189 Score: 217
Period size: 62 Copynumber: 2.6 Consensus size: 62
255016 ATACCTTTTT
*
255026 AAAGTCCACGACTCAGTGGCAATCTCTT-CTCAAAGTCCACGACCCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTTCCTCAAAGTCCACGACCCAGTGGCAATCTCTGCTC
* * *
255088 AAAGTCCACGACTCAGTGGCATCTTTTCCTTTAAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTTCC-TCAAAGTCCACGACCCAGTGGCAATCTCTG-CTC
* * *
255150 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGCCCAC
1 AAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCAC
255190 AGCTTCGTGG
Statistics
Matches: 91, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
61 18 0.20
62 53 0.58
63 20 0.22
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (62 bp):
AAAGTCCACGACTCAGTGGCATCTTTTCCTCAAAGTCCACGACCCAGTGGCAATCTCTGCTC
Found at i:255200 original size:31 final size:31
Alignment explanation
Indices: 255135--255233 Score: 87
Period size: 32 Copynumber: 3.2 Consensus size: 31
255125 CCACGACTCA
* *
255135 GTGGCATTTTGTC-TCAAAGTCCAC-GAC-TC
1 GTGGCATTTTTTCTTCAAAGCCCACAG-CTTC
255164 AGTGGCATTTTTTCTTCAAAGCCCACAGCTTC
1 -GTGGCATTTTTTCTTCAAAGCCCACAGCTTC
* * * * *
255196 GTGGCACCTTTTCCTTTAAAGCCCACAACTCC
1 GTGGCA-TTTTTTCTTCAAAGCCCACAGCTTC
255228 GTGGCA
1 GTGGCA
255234 CCCTTTTAAG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
30 12 0.21
31 17 0.29
32 29 0.50
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.30
Consensus pattern (31 bp):
GTGGCATTTTTTCTTCAAAGCCCACAGCTTC
Found at i:255248 original size:27 final size:27
Alignment explanation
Indices: 255208--255261 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
255198 GGCACCTTTT
255208 CCTTTAAAGCCCACAACTCCGTGGCAC
1 CCTTTAAAGCCCACAACTCCGTGGCAC
* * *
255235 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTAAAGCCCACAACTCCGTGGCAC
255262 TTTTTTCATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.39, G:0.17, T:0.22
Consensus pattern (27 bp):
CCTTTAAAGCCCACAACTCCGTGGCAC
Found at i:255482 original size:105 final size:102
Alignment explanation
Indices: 255181--256107 Score: 1084
Period size: 105 Copynumber: 8.9 Consensus size: 102
255171 TTTTTTCTTC
* *
255181 AAAGCCCACAGCTTCGTGGCAC-C-TTTTCC-TTTAAAGCCCACAACTCCGTGGCACC-----CT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * * *
255238 TTT-AAGTCCACGACTCCGTGGCACTTTTTTCATCTTT
66 TTTAAAGCCCACAACTCCGTGGCACCTTTTTC-TTTTT
* *
255275 -AAGTCCACAACTCCGTGGCAC-CTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
*
255338 GTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
66 -TTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
255377 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
* *
255442 CTTTTGAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
64 CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
*
255482 AAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTC-TTTTTCCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
* * *
255547 CCGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
64 -CTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
255590 AAAGCCCACAACTCCGTGGCAC-CTTTTT-CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT
*
255653 CCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTC-TTTT
64 --CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
255694 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTTAAAGCCCACAACTCCGTGGCACCTTT-T-
* * * * * *
255758 CCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCTTTTC
63 TCTT-TTAAAG-CC-CACAACTCCGTGGC-ACCTTTTTCTTTTT
* **
255802 AAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-C-TTTTT
**
255865 CCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTT
64 -CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
255906 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTT
*
255971 CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
64 CT-TTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
256014 AAAGCCCACAACTCCGTGGCACT-TTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-
* *
256077 CCTTTT-AAGTCCACAACTCCGTGGCATCTTT
64 -CTTTTAAAGCCCACAACTCCGTGGCACCTTT
256108 CTCCCTTCCC
Statistics
Matches: 731, Mismatches: 54, Indels: 86
0.84 0.06 0.10
Matches are distributed among these distances:
93 19 0.03
94 5 0.01
95 26 0.04
100 2 0.00
101 3 0.00
102 22 0.03
103 26 0.04
104 99 0.14
105 230 0.31
106 132 0.18
107 47 0.06
108 120 0.16
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (102 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:255558 original size:71 final size:71
Alignment explanation
Indices: 255245--256107 Score: 1147
Period size: 71 Copynumber: 12.3 Consensus size: 71
255235 CCTTTTAAGT
* * *
255245 CCACGACTCCGTGGCACTTTTTTCATC-TTT-AAGTCCACAACTCCGTGGCAC-CTTTTT--CTT
1 CCACAACTCCGTGGCACCTTTTTC--CGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
*
255305 TTTAAAGC
64 TTCAAAGC
* * *
255313 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACACTTTTT--CTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
*
255376 TAAAGC
66 CAAAGC
*
255382 CCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT--CT
1 CCACAACTCCGTGGCAC-CTTTTT-CCGTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
*
255444 TTT-GAAGC
63 TTTCAAAGC
* ** * *
255452 CCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTTCCTTT
1 CCACAACTCCGTGGCAC-CTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
255517 TCAAAGC
65 TCAAAGC
*
255524 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
255589 CAAAGC
66 CAAAGC
*
255595 CCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
255660 CAAAGC
66 CAAAGC
* *
255666 CCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
*
255730 --AAGT
66 CAAAGC
* * * * * *
255734 CCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-CTTCTT--
1 CCACAACTCCGTGGCACCTTTTTCCGTT--TAAAG-CC-CACAACTCCGTGGC-ACTCTTTTTCC
255796 CTTTTCAAAGC
61 CTTTTCAAAGC
* * ** *
255807 CCACAACTCCGTGGCACCTTCTT-CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTTTCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
255871 CAAAGC
66 CAAAGC
255877 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
255942 CAAAGC
66 CAAAGC
* *
255948 CCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
256013 CAAAGC
66 CAAAGC
* *
256019 CCACAACTCCGTGGCA-CTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
*
256083 --AAGT
66 CAAAGC
*
256087 CCACAACTCCGTGGCATCTTT
1 CCACAACTCCGTGGCACCTTT
256108 CTCCCTTCCC
Statistics
Matches: 721, Mismatches: 51, Indels: 45
0.88 0.06 0.06
Matches are distributed among these distances:
67 5 0.01
68 116 0.16
69 59 0.08
70 160 0.22
71 293 0.41
72 46 0.06
73 40 0.06
74 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.34
Consensus pattern (71 bp):
CCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
CAAAGC
Found at i:255855 original size:353 final size:353
Alignment explanation
Indices: 255178--256125 Score: 1454
Period size: 353 Copynumber: 2.7 Consensus size: 353
255168 GCATTTTTTC
* *
255178 TTCAAAGCCCACAGCTTCGTGGCACC-TTTTCC-TTTAAAGCCCACAACTCCGTGGCA-------
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* * * * *
255234 -CCCTTTT--AAGTCCACGACTCCGTGGCACTTTTTTCATCTTT-AAGTCCACAACTCCGTGGCA
66 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-TGTTTAAAGCCCACAACTCCGTGGCA
* * *
255295 C-CTTTTT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCT
130 CTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT-TTTAAAGCCCACAACTCC
* * * * *
255357 GTGGCACACTTTTT-CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT-TTCAAAG-C
194 GTGGCACTCTTTTTCCCTTTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCT-AAAGCC
* * * *
255419 C-CACAACTCCGTGGCACCTTTTTCTTTTGAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTA
256 CACACAACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACACTTCTTCTTTTTA
255483 AAGCCCACAACTCTGTGGCACTCTTTTTTCCTT
321 AAGCCCACAACTCTGTGGCACTCTTTTTTCCTT
*
255516 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCTGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
255581 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
66 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
255646 TCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGT
131 TCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGT
255711 GGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACAC
196 GGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACAC
* *
255776 AAGTCGGTGGCAACCTTCTTCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTCTTC-TTTTAAAG
261 AACTCCGTGGC-ACCTTCTTCTTTT-AAAGCCCACAACTCCGTGGCACACTTCTTCTTTTTAAAG
*
255839 CCCACAACTTTGTGGCACTCTTTTTTCCTT
324 CCCACAACTCTGTGGCACTCTTTTTTCCTT
255869 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
*
255934 TCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
66 TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
255999 TCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGT
131 TCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGT
*
256064 GGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCCAAAGCCCA
196 GGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCA
256126 ACCTTCTTCC
Statistics
Matches: 562, Mismatches: 26, Indels: 29
0.91 0.04 0.05
Matches are distributed among these distances:
338 24 0.04
339 6 0.01
340 23 0.04
348 7 0.01
349 4 0.01
350 45 0.08
351 21 0.04
352 52 0.09
353 342 0.61
354 18 0.03
355 20 0.04
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (353 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
TCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCAC
TCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGT
GGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACAC
AACTCCGTGGCACCTTCTTCTTTTAAAGCCCACAACTCCGTGGCACACTTCTTCTTTTTAAAGCC
CACAACTCTGTGGCACTCTTTTTTCCTT
Found at i:256113 original size:34 final size:35
Alignment explanation
Indices: 255234--256114 Score: 959
Period size: 34 Copynumber: 25.1 Consensus size: 35
255224 CTCCGTGGCA
* *
255234 CCCTTTT-AAGTCCACGACTCCGTGGCA-CTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
* * * *
255267 TCATCTTT-AAGTCCACAACTCCGTGGCACCTTTTT
1 CCCT-TTTAAAGCCCACAACTCCGTGGCATCTTTTT
* *
255302 -CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
* *
255336 --CTGTTTAAAGCCCACAACTCTGTGGCACACTTTTT
1 CCCT-TTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
*
255371 -CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
*
255406 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
* * *
255442 --CTTTTGAAGCCCACAACTCTGTGGCACACTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
255476 -CTTTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
255511 TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
* *
255547 -CCGTTTAAAGCCCACAACTCTGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
*
255582 CCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
255618 --CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCT-TTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
255653 CCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
*
255688 -TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
255723 CCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
* * * * *
255757 CCCTTCCTAAAGCCCACACAAGTCGGTGGCAACCTTCTT
1 CCCTT-TTAAAG-CC-CACAACTCCGTGGC-ATCTTTTT
* *
255796 --CTTTTCAAAGCCCACAACTCCGTGGCACCTTCTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
**
255830 --CTTTTAAAGCCCACAACTTTGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
255864 TCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
*
255900 -CCGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
255935 CCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
255971 --CTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCT-TTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
256006 CCCTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT
1 CCCTTTT-AAAGCCCACAACTCCGTGGCATCTTTTT
*
256041 -TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCCTTTTAAAGCCCACAACTCCGTGGCA-TCTTTTT
* *
256076 CCCTTTT-AAGTCCACAACTCCGTGGCATCTTTCT
1 CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
256110 CCCTT
1 CCCTT
256115 CCCAAAGCCC
Statistics
Matches: 743, Mismatches: 61, Indels: 87
0.83 0.07 0.10
Matches are distributed among these distances:
33 86 0.12
34 220 0.30
35 188 0.25
36 78 0.10
37 154 0.21
38 12 0.02
39 5 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (35 bp):
CCCTTTTAAAGCCCACAACTCCGTGGCATCTTTTT
Found at i:256125 original size:141 final size:140
Alignment explanation
Indices: 255178--256107 Score: 1137
Period size: 141 Copynumber: 6.7 Consensus size: 140
255168 GCATTTTTTC
* * *
255178 TTCAAAGCCCACAGCTTCGTGGCACC-TTTTCCTTTAAAGCCCACAACTCCGTGGCA--------
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
* * *
255234 CCCTTTT-AAGTCCACGACTCCGTGGCACTTTTT-TCATCTTT-AAGTCCACAACTCCGTGGCAC
66 CCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTCTC-T-TTTAAAGCCCACAACTCCGTGGCAC
255296 -CTTTTT--CTT
129 TCTTTTTCCCTT
* * *
255305 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCTGTGGCACACTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
* *
255370 T-CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGC
65 TCCCTTTTAAAGCCCACAACTCCGTGGCA--CTTTTTCTCTTTT-AAAGCCCACAACTCCGTGGC
255434 AC-CTTTTT--CTT
127 ACTCTTTTTCCCTT
* * *
255445 TT-GAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTCTGTGGCACTCTTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTTTTC-TTTTAAAGCCCACAACTCCGTGGCACTCTTT
* * *
255509 TTTCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC-CGTTTAAAGCCCACAACTCTGTGGC
64 TTCCCTTTT-AAAGCCCACAACTCCGTGGCA-CTTTTTCTCTTTTAAAGCCCACAACTCCGTGGC
255573 ACTCTTTTTCCCTT
127 ACTCTTTTTCCCTT
255587 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTT
255652 TCCCTTTTCAAAGCCCACAACTCCGTGGCACTTTTT-TCTTTTAAAGCCCACAACTCCGTGGCAC
65 TCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCAC
255716 TCTTTTTCCCTT
129 TCTTTTTCCCTT
* * * * * *
255728 TT--AAGTCCACAACTCCGTGGCATCTTTCTCCCTTCCTAAAGCCCACACAAGTCGGTGGCAAC-
1 TTCAAAGCCCACAACTCCGTGGCACCTTT-T-TCTT-TTAAAG-CC-CACAACTCCGTGGC-ACT
* * * **
255790 CTTCTT--CTTTTCAAAGCCCACAACTCCGTGGCACCTTCT-TCTTTTAAAGCCCACAACTTTGT
60 CTTTTTCCCTTTT-AAAGCCCACAACTCCGTGGCACTTTTTCTCTTTTAAAGCCCACAACTCCGT
*
255852 GGCACTCTTTTTTCCTT
124 GGCACTCTTTTTCCCTT
*
255869 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCGTTTAAAGCCCACAACTCCGTGGCACTCTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTT-CTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
* *
255934 TCCCTTTTCAAAGCCCACAATTCCGTGGCACCTTTTTCT-GTTTAAAGCCCACAACTCCGTGGCA
65 TCCCTTTT-AAAGCCCACAACTCCGTGGCA-CTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCA
255998 CTCTTTTTCCCTT
128 CTCTTTTTCCCTT
*
256011 TTCAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
*
256076 CCCTTTT-AAGTCCACAACTCCGTGGCATCTTT
66 CCCTTTTAAAGCCCACAACTCCGTGGCA-CTTT
256108 CTCCCTTCCC
Statistics
Matches: 708, Mismatches: 55, Indels: 68
0.85 0.07 0.08
Matches are distributed among these distances:
127 23 0.03
128 5 0.01
129 23 0.03
136 5 0.01
137 18 0.03
138 5 0.01
139 110 0.16
140 84 0.12
141 207 0.29
142 165 0.23
143 61 0.09
144 2 0.00
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (140 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
CCCTTTTAAAGCCCACAACTCCGTGGCACTTTTTCTCTTTTAAAGCCCACAACTCCGTGGCACTC
TTTTTCCCTT
Found at i:256284 original size:49 final size:48
Alignment explanation
Indices: 256163--256810 Score: 770
Period size: 49 Copynumber: 13.7 Consensus size: 48
256153 GTGGCAACCC
* *
256163 CTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C--TT-CAT
* *
256215 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
256264 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
256313 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA---C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* *
256356 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
256405 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA---C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* *
256448 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
*
256497 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* *
256540 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
* *
256589 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAACACATTGGCA---C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
* *
256632 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CTTCAT
*
256681 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA---C--
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
*
256724 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC---TT-CAT
* *
256776 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCAC
256811 GTTGACATCC
Statistics
Matches: 516, Mismatches: 47, Indels: 66
0.82 0.07 0.10
Matches are distributed among these distances:
43 193 0.37
45 5 0.01
47 4 0.01
49 239 0.46
50 3 0.01
52 72 0.14
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACTTCAT
Found at i:256384 original size:92 final size:92
Alignment explanation
Indices: 256264--256810 Score: 1013
Period size: 92 Copynumber: 5.9 Consensus size: 92
256254 GCACCTTCAT
256264 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
256329 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
256356 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
256421 GCTGGCCTTGACTCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
256448 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
256513 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
256540 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
256605 GCTGGCCTTGAATCAACACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
256632 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
256697 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* * *
256724 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTCCAAT
256789 GTAGCTGGCCTTGAATCAGCAC
63 GTAGCTGGCCTTGAATCAGCAC
256811 GTTGACATCC
Statistics
Matches: 446, Mismatches: 6, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
92 404 0.91
94 5 0.01
95 37 0.08
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:256496 original size:184 final size:185
Alignment explanation
Indices: 256162--256810 Score: 1104
Period size: 184 Copynumber: 3.5 Consensus size: 185
256152 GGTGGCAACC
* *
256162 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTTCCATCTTTAAGTCCAA
*
256227 TGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTGGCCTTGAA
64 TGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCTGGCCTTGAA
*
256292 TCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA
123 TCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
256355 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-CATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAATG
*
256419 TAGCTGGCCTTGACTCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
256484 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
*
256539 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT-CATCTTTAAGTCCAATG
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAATG
*
256603 TAGCTGGCCTTGAATCAACACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
256668 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
131 TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
* *
256723 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAA
1 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTTCCATCTTTAAGTCCAA
256788 TGTAGCTGGCCTTGAATCAGCAC
64 TGTAGCTGGCCTTGAATCAGCAC
256811 GTTGACATCC
Statistics
Matches: 443, Mismatches: 10, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
184 312 0.70
186 6 0.01
187 36 0.08
190 45 0.10
191 3 0.01
193 41 0.09
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (185 bp):
CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCCATCTTTAAGTCCAATG
TAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
TTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA
Found at i:256853 original size:55 final size:52
Alignment explanation
Indices: 256724--256861 Score: 159
Period size: 52 Copynumber: 2.6 Consensus size: 52
256714 ACATTGGCAC
* *
256724 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
256776 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
256831 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
256862 ACATATTGGC
Statistics
Matches: 71, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
52 37 0.52
54 6 0.08
55 28 0.39
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:257014 original size:171 final size:171
Alignment explanation
Indices: 256724--257118 Score: 691
Period size: 171 Copynumber: 2.3 Consensus size: 171
256714 ACATTGGCAC
*
256724 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG--CATCTT-CATCTTTAAGTTCAAT
256789 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
63 GTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCC
256854 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
128 ATGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
256898 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
*
256963 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAGGCCCAATATCGTTGGCCATG
66 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
* *
257028 AATCAACATATTGGCATCTTTATCACTTTTCTCATCTTCAT
131 AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
* *
257069 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATC
257119 ATCTCTAAAA
Statistics
Matches: 212, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
171 169 0.80
172 5 0.02
174 38 0.18
ACGTcount: A:0.24, C:0.25, G:0.14, T:0.37
Consensus pattern (171 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTA
GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCATG
AATCAACATATTGGCATCTTTATCACTCTTCTCATCATCAT
Found at i:257925 original size:33 final size:33
Alignment explanation
Indices: 257888--257954 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
257878 TTCAACGATT
257888 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
257921 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
257954 T
1 T
257955 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:257926 original size:13 final size:13
Alignment explanation
Indices: 257908--257932 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
257898 CATAAAATGT
257908 TGTATCGATACAA
1 TGTATCGATACAA
257921 TGTATCGATACA
1 TGTATCGATACA
257933 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:258073 original size:52 final size:50
Alignment explanation
Indices: 258010--258150 Score: 201
Period size: 52 Copynumber: 2.7 Consensus size: 50
258000 ATCGATATAT
*
258010 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
258062 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAGA
258114 TGTATCGATACACTATTAAATGTATCGATACATGCAG
1 TGTATCGATACACTATT--ATGTATCGATACATGCAG
258151 TAACTCTTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
51 2 0.03
52 78 0.98
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.30
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:261409 original size:21 final size:21
Alignment explanation
Indices: 261384--261426 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
261374 CATGTCAGGA
*
261384 GCATCTCGTTATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
261405 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
261426 G
1 G
261427 TCATTTTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:262609 original size:52 final size:52
Alignment explanation
Indices: 262528--262653 Score: 164
Period size: 52 Copynumber: 2.4 Consensus size: 52
262518 TCCTCTCCAA
262528 AAAATGTAGGGTTAGAGTATCCCCAAAGAT-GAAATATTTGATATTTTTAGCAGT
1 AAAAT-TA-GGTTAGAGTATCCCCAAAGATGGAAA-ATTTGATATTTTTAGCAGT
* * * *
262582 AAAATTAGGTTGGAGTATCCTCGAAGATGGAAAATTTGATATTTTTAGGAGT
1 AAAATTAGGTTAGAGTATCCCCAAAGATGGAAAATTTGATATTTTTAGCAGT
*
262634 AAAAATAGGATTAGAGTATC
1 AAAATTAGG-TTAGAGTATC
262654 TCTTCGAAAT
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
52 44 0.69
53 15 0.23
54 5 0.08
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (52 bp):
AAAATTAGGTTAGAGTATCCCCAAAGATGGAAAATTTGATATTTTTAGCAGT
Found at i:262744 original size:80 final size:80
Alignment explanation
Indices: 262588--262946 Score: 424
Period size: 80 Copynumber: 4.5 Consensus size: 80
262578 CAGTAAAATT
* *
262588 AGGTTGGAGTATCCTCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGATTAGAGTAT
1 AGGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGG-TTAGAGTAT
**
262653 -CTCTTCG-AAATGGCA
65 CCTC-TCGAAAATGGTG
* * *
262668 AGGTTGGAATATCCCCAAAGATGGAAAAGTTGATATTTTTAGGAGTAAAACA-AGGTTGGAGTAT
1 AGGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAA-ATAGGTTAGAGTAT
262732 CCTCTCGAAAATGGTG
65 CCTCTCGAAAATGGTG
* *
262748 GGGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACA-GGGTTAGAGTAT
1 AGGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAA-ATAGGTTAGAGTAT
* *
262812 CCCCTTGAAAATGGTG
65 CCTCTCGAAAATGGTG
* * * *
262828 GGGTTGGAGTATCCCTGAAGAT-GAAAATTTTGATATTTTTAGGAGTAAAAATAGGGTTGGAGTA
1 AGGTTGGAATATCCCCGAAGATGGAAAA-TTTGATATTTTTAGGAGTAAAAATA-GGTTAGAGTA
* *
262892 TCTTCTCGAAAATGATG
64 TCCTCTCGAAAATGGTG
* * * * *
262909 GGGTTGGAGTATCCCCGATGGT-GAAAAATTGATATTTT
1 AGGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTT
262947 GGAAGTAAAA
Statistics
Matches: 247, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
79 17 0.07
80 183 0.74
81 47 0.19
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (80 bp):
AGGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGTTAGAGTATC
CTCTCGAAAATGGTG
Found at i:262755 original size:160 final size:161
Alignment explanation
Indices: 262589--262946 Score: 485
Period size: 160 Copynumber: 2.2 Consensus size: 161
262579 AGTAAAATTA
* *
262589 GGTTGGAGTATCCTCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAAATAGGATTAGAGTAT-
1 GGTTGGAGTATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGT-AAAACAGGATTAGAGTATC
*
262653 CTCTTCG-AAATGGCAAGGTTGGAATATCCCCAAAGATGGAAAA-GTTGATATTTTTAGGAGTAA
65 CCCTT-GAAAATGGCAAGGTTGGAATATCCCCAAAGAT-GAAAATGTTGATATTTTTAGGAGTAA
*
262716 AACA-A-GGTTGGAGTATCCTCTCGAAAATGGTGG
128 AA-ATAGGGTTGGAGTATCCTCTCGAAAATGATGG
* *
262749 GGTTGGAATATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACAGGGTTAGAGTATCC
1 GGTTGGAGTATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACAGGATTAGAGTATCC
*** * ** *
262814 CCTTGAAAATGGTGGGGTTGGAGTATCCCTGAAGATGAAAATTTTGATATTTTTAGGAGTAAAAA
66 CCTTGAAAATGGCAAGGTTGGAATATCCCCAAAGATGAAAATGTTGATATTTTTAGGAGTAAAAA
*
262879 TAGGGTTGGAGTATCTTCTCGAAAATGATGG
131 TAGGGTTGGAGTATCCTCTCGAAAATGATGG
* * *
262910 GGTTGGAGTATCCCCGATGGT-GAAAAATTGATATTTT
1 GGTTGGAGTATCCCCGAAGATGGAAAATTTGATATTTT
262947 GGAAGTAAAA
Statistics
Matches: 175, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
159 23 0.13
160 108 0.62
161 44 0.25
ACGTcount: A:0.33, C:0.10, G:0.27, T:0.31
Consensus pattern (161 bp):
GGTTGGAGTATCCCCGAAGATGGAAAATTTGATATTTTTAGGAGTAAAACAGGATTAGAGTATCC
CCTTGAAAATGGCAAGGTTGGAATATCCCCAAAGATGAAAATGTTGATATTTTTAGGAGTAAAAA
TAGGGTTGGAGTATCCTCTCGAAAATGATGG
Found at i:263253 original size:3 final size:3
Alignment explanation
Indices: 263236--263275 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
263226 TAAATAAATA
*
263236 AAT AAA AAT -AT AAT AAT AA- AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
263276 TAAAAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 4 0.12
3 29 0.88
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:263253 original size:14 final size:14
Alignment explanation
Indices: 263227--263273 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
263217 TTAAATAAAT
263227 AAATA-AATAAATAA
1 AAATATAAT-AATAA
263241 AAATATAATAAT-A
1 AAATATAATAATAA
263254 AAATAATAATAATAA
1 AAAT-ATAATAATAA
*
263269 TAATA
1 AAATA
263274 ATTAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
13 5 0.17
14 17 0.59
15 7 0.24
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATATAATAATAA
Found at i:263379 original size:34 final size:33
Alignment explanation
Indices: 263314--263380 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
263304 TGGCATTTCA
* *
263314 GCCACCTAATTGATTTAGGTGGCATTGCATGCT
1 GCCACCTAATTGAATTAGGTGGAATTGCATGCT
263347 GCCACCTAAATTGAATTAGGTGGTAATT-CATGCT
1 GCCACCT-AATTGAATTAGGTGG-AATTGCATGCT
263381 TGCATGCAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 7 0.23
34 20 0.67
35 3 0.10
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (33 bp):
GCCACCTAATTGAATTAGGTGGAATTGCATGCT
Found at i:263589 original size:21 final size:21
Alignment explanation
Indices: 263562--263603 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
263552 AATTCATGCT
* *
263562 AAAAAAAGCTGCTGCAATGAAG
1 AAAAAAA-CAGCTACAATGAAG
263584 AAAAAAACAGCTACAATGAA
1 AAAAAAACAGCTACAATGAA
263604 AGTAGCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAAAAACAGCTACAATGAAG
Found at i:263650 original size:24 final size:24
Alignment explanation
Indices: 263614--263683 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
263604 AGTAGCAATC
* *
263614 GAAACAGCAGCAAATGAAAGAAAT
1 GAAATAGCTGCAAATGAAAGAAAT
263638 GAAATAGCTGC-AAT-AAAG--AT
1 GAAATAGCTGCAAATGAAAGAAAT
263658 GAAATAGCTATAGCAAATGAAAGAAA
1 GAAATAGC--T-GCAAATGAAAGAAA
263684 CGGCATCAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
20 10 0.27
22 5 0.14
23 5 0.14
24 12 0.32
25 4 0.11
27 1 0.03
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.14
Consensus pattern (24 bp):
GAAATAGCTGCAAATGAAAGAAAT
Found at i:263895 original size:17 final size:17
Alignment explanation
Indices: 263875--263926 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
263865 TCGAAACAAG
263875 AAAAAAGAAAAAAGAAA
1 AAAAAAGAAAAAAGAAA
* * *
263892 AAAATAGCAAAAATAAA
1 AAAAAAGAAAAAAGAAA
* *
263909 AGAAAAGCAAAACAGAAA
1 AAAAAAG-AAAAAAGAAA
263927 CAAAGCAACA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
17 19 0.73
18 7 0.27
ACGTcount: A:0.79, C:0.06, G:0.12, T:0.04
Consensus pattern (17 bp):
AAAAAAGAAAAAAGAAA
Found at i:264243 original size:17 final size:17
Alignment explanation
Indices: 264221--264265 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
264211 TTGACAAGAT
*
264221 GAAGAAGGAAAAAGAAA
1 GAAGAAGGAAAAAAAAA
*
264238 GAAGAAGAAAAAAAAAA
1 GAAGAAGGAAAAAAAAA
*
264255 G-AGAAAGAAAA
1 GAAGAAGGAAAA
264266 TACTTGGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (17 bp):
GAAGAAGGAAAAAAAAA
Found at i:267938 original size:20 final size:21
Alignment explanation
Indices: 267894--267967 Score: 78
Period size: 21 Copynumber: 3.6 Consensus size: 21
267884 TTCTGCAATT
*
267894 TGTATCGATACAAATAGAAAA
1 TGTATCGATACATATAGAAAA
**
267915 TGTATCGATACATA-AGTGAA
1 TGTATCGATACATATAGAAAA
****
267935 TGTATCGATACATGCCTAAAA
1 TGTATCGATACATATAGAAAA
267956 TGTATCGATACA
1 TGTATCGATACA
267968 AAACCACTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.39
21 27 0.61
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (21 bp):
TGTATCGATACATATAGAAAA
Found at i:268017 original size:20 final size:20
Alignment explanation
Indices: 267992--268049 Score: 80
Period size: 20 Copynumber: 2.8 Consensus size: 20
267982 ATTGCCAAGG
267992 AAATGTATCGATACATAAGT
1 AAATGTATCGATACATAAGT
**
268012 AAATGTATCGATACATATTT
1 AAATGTATCGATACATAAGT
268032 ACAATTGTATCGATACAT
1 A-AA-TGTATCGATACAT
268050 TTCTCATTGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
20 19 0.56
21 2 0.06
22 13 0.38
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATAAGT
Found at i:268043 original size:22 final size:22
Alignment explanation
Indices: 267995--268069 Score: 79
Period size: 20 Copynumber: 3.6 Consensus size: 22
267985 GCCAAGGAAA
**
267995 TGTATCGATACATAAGTA-AA-
1 TGTATCGATACATATTTACAAT
268015 TGTATCGATACATATTTACAAT
1 TGTATCGATACATATTTACAAT
268037 TGTATCGATACAT-TTCT-C-AT
1 TGTATCGATACATATT-TACAAT
*
268057 TGTATTGATACAT
1 TGTATCGATACAT
268070 TCTGGGTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
20 30 0.61
21 5 0.10
22 14 0.29
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (22 bp):
TGTATCGATACATATTTACAAT
Found at i:270530 original size:27 final size:29
Alignment explanation
Indices: 270453--270530 Score: 85
Period size: 28 Copynumber: 2.8 Consensus size: 29
270443 TTCATTTCGT
*
270453 GGATACTCCAATCCCTT-TACTTTCGAAGG
1 GGATACTCCAA-CCCTTGTATTTTCGAAGG
*
270482 GG-TACTCCAA-CCTAGTTATTTTC-AAGG
1 GGATACTCCAACCCTTG-TATTTTCGAAGG
270509 GGATACTCCAACCCTTGT-TTTT
1 GGATACTCCAACCCTTGTATTTT
270531 ATTTTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
26 3 0.07
27 10 0.24
28 23 0.55
29 6 0.14
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (29 bp):
GGATACTCCAACCCTTGTATTTTCGAAGG
Found at i:270896 original size:51 final size:53
Alignment explanation
Indices: 270818--270921 Score: 151
Period size: 52 Copynumber: 2.0 Consensus size: 53
270808 CCAGCCCTAC
* *
270818 TTTTATTTCCAAAAATATTAAAATTTTCA-TCTGGA-GGATACTCCAACCCCGT
1 TTTTATTTCCAAAAATATTAAAATTTTCATTATCGACGG-TACTCCAACCCCGT
*
270870 TTTTATTTCC-AAAATATTAAATTTTTCATTATCGACGGTACTCCAACCCCGT
1 TTTTATTTCCAAAAATATTAAAATTTTCATTATCGACGGTACTCCAACCCCGT
270922 ATTCAAAAGG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
51 17 0.36
52 28 0.60
53 2 0.04
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (53 bp):
TTTTATTTCCAAAAATATTAAAATTTTCATTATCGACGGTACTCCAACCCCGT
Found at i:272856 original size:25 final size:25
Alignment explanation
Indices: 272802--272884 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
272792 GGTTGAAATG
* *
272802 TCCCTTCGGAATATGAGGTTAGAGT-
1 TCCCCTCGGAATATG-GGTTGGAGTA
*
272827 GCCCCTCGGAATATGGGTTGGAGTA
1 TCCCCTCGGAATATGGGTTGGAGTA
* * *
272852 TCCCCTTAGAAATGACGGGGTTGGAGTA
1 TCCCC-TCGGAAT-A-TGGGTTGGAGTA
272880 TCCCC
1 TCCCC
272885 AAGATGAAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
24 8 0.17
25 17 0.36
26 5 0.11
27 1 0.02
28 16 0.34
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (25 bp):
TCCCCTCGGAATATGGGTTGGAGTA
Found at i:273081 original size:79 final size:78
Alignment explanation
Indices: 272841--273150 Score: 303
Period size: 79 Copynumber: 4.0 Consensus size: 78
272831 CTCGGAATAT
* * * *
272841 GGGTTGGAGTATCCCCT-TAGAAATGACGGGGTTGGAGTATCCCCAAGATGAAAAATTGATATTT
1 GGGTTGGAGTATCCCCTCGA-AAATAACGGGGTTAGAGTATCCCCAAGATGAAAAATTAATATTT
*
272905 TTGGAAATAAAAAC
65 TTGGAAAGAAAAAC
* * * ** *
272919 AGGGTTGGAGTAT-CCCTCGAAAATAATGGGATTGGAGTA--CCCTTGA-GAAAAATTTCATA-T
1 -GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAAGATGAAAAA-TTAATATT
*
272979 TTTGG-AAGTAAAAATA
64 TTTGGAAAG-AAAAA-C
* * * * * *
272995 GGGTTGGAGTATCTCCTCGAAATTGATGGGGTTAGAGTATCCCCGAGATGAAAATTTTAATATTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAAGATGAAAA-ATTAATATTT
273060 TT-GAAAGAAAAAC
65 TTGGAAAGAAAAAC
* * *
273073 GGGATTGGAGTATCCCCTCGAAAATAACAGGGTTAGAATATCCCCAAGATGAAAAATCAATATTT
1 GGG-TTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAAGATGAAAAATTAATATTT
*
273138 TTGGAAATAAAAA
65 TTGGAAAGAAAAA
273151 TTTAGAAATT
Statistics
Matches: 189, Mismatches: 29, Indels: 26
0.77 0.12 0.11
Matches are distributed among these distances:
74 2 0.01
75 29 0.15
76 31 0.16
78 38 0.20
79 82 0.43
80 7 0.04
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (78 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAAGATGAAAAATTAATATTTT
TGGAAAGAAAAAC
Found at i:277298 original size:79 final size:79
Alignment explanation
Indices: 277206--277439 Score: 244
Period size: 78 Copynumber: 3.0 Consensus size: 79
277196 AAATTTCTAA
* * *
277206 ATTTTTCCTTCAAAAAATGTTGATTTTTCATCTCGGGGATACTCCAACCCTGTTATTTTCGAGGG
1 ATTTTTACTTCAAAAAAT-TAGATTTTTCATCTCAGGGATACTCCAACCCTGTTATTTTCGAGGG
277271 GATAC-CTCAACCCT-
65 GATACTC-CAACCCTC
* * * * * * * * *
277285 ATTTTTATTTCAAAAATATTAAATTTTTCATATTAGGGATACTCCAACCC-ATAAATTCCGAAGG
1 ATTTTTACTTCAAAAA-ATTAGATTTTTCATCTCAGGGATACTCCAACCCTGTTATTTTCGAGGG
277349 GATACTCCAA-CCTC
65 GATACTCCAACCCTC
* * * * *
277363 GTTTTTACTTC-TAAAATATCGATTTTTCATCCCAGGGATACTTCAACCCTGTTATTTTCGAGGG
1 ATTTTTACTTCAAAAAAT-TAGATTTTTCATCTCAGGGATACTCCAACCCTGTTATTTTCGAGGG
277427 GATACTCCAACCC
65 GATACTCCAACCC
277440 GTTGTTTCTA
Statistics
Matches: 123, Mismatches: 26, Indels: 12
0.76 0.16 0.07
Matches are distributed among these distances:
76 2 0.02
77 31 0.25
78 45 0.37
79 43 0.35
80 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (79 bp):
ATTTTTACTTCAAAAAATTAGATTTTTCATCTCAGGGATACTCCAACCCTGTTATTTTCGAGGGG
ATACTCCAACCCTC
Found at i:277460 original size:27 final size:28
Alignment explanation
Indices: 277397--277465 Score: 88
Period size: 27 Copynumber: 2.5 Consensus size: 28
277387 TTTCATCCCA
* *
277397 GGGATACTTCAACCCTGTTATTTTCGAG
1 GGGATACTCCAACCCTGTTATTTTCAAG
*
277425 GGGATACTCCAACCC-GTT-GTTTCTAAG
1 GGGATACTCCAACCCTGTTATTTTC-AAG
277452 GGGATACTCCAACC
1 GGGATACTCCAACC
277466 TTGGTTTTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.11
27 19 0.51
28 14 0.38
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (28 bp):
GGGATACTCCAACCCTGTTATTTTCAAG
Found at i:280622 original size:44 final size:42
Alignment explanation
Indices: 280468--280651 Score: 178
Period size: 42 Copynumber: 4.3 Consensus size: 42
280458 CCTACTCTTT
* * *
280468 GAGAATAAAAGGAAAGAGAGTACATCCTGCT-TTTCAAGGACAAA
1 GAGAA-AAAAGGAATGA-AATACATCCTGCTCTTT-GAGGACAAA
* * *
280512 -AGAAAAAAGAGAATAAAATGCATCCTGCTTTTTGAGGACAAA
1 GAGAAAAAAG-GAATGAAATACATCCTGCTCTTTGAGGACAAA
* *
280554 G-GAAAAAAAGAAATGAAATGCATCCTGCTCTTTGAGGACAAA
1 GAG-AAAAAAGGAATGAAATACATCCTGCTCTTTGAGGACAAA
* *
280596 GAGAAAAAATGGTAATGAAGTACATCCTACTCTTTGAGGACAAA
1 GAGAAAAAA-GG-AATGAAATACATCCTGCTCTTTGAGGACAAA
*
280640 G-GAGAAAAGGAA
1 GAGAAAAAAGGAA
280652 ATTAAGTGTG
Statistics
Matches: 120, Mismatches: 13, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 63 0.52
43 26 0.22
44 29 0.24
ACGTcount: A:0.46, C:0.12, G:0.22, T:0.19
Consensus pattern (42 bp):
GAGAAAAAAGGAATGAAATACATCCTGCTCTTTGAGGACAAA
Found at i:280638 original size:86 final size:84
Alignment explanation
Indices: 280490--280733 Score: 267
Period size: 86 Copynumber: 2.9 Consensus size: 84
280480 AAAGAGAGTA
* *
280490 CATCCTGCT-TTTCAAGGACAAAAGAAAAAA-GAGAATAAAATGCATCCTGCTTTTTGAGGACAA
1 CATCCTGCTCTTT-AAGGACAAAAGAAAAAATG-GAATAAAATGCATCCTACTCTTTGAGGACAA
280553 AGGAAAAAAAGAAATGAAATG
64 AGGAAAAAAAGAAATGAAATG
* * * *
280574 CATCCTGCTCTTTGAGGACAAAGAGAAAAAATGGTAATGAAGTACATCCTACTCTTTGAGGACAA
1 CATCCTGCTCTTTAAGGACAAA-AGAAAAAATGG-AATAAAATGCATCCTACTCTTTGAGGACAA
* * * *
280639 AGGAGAAAAGGAAATTAAGTG
64 AGGAAAAAAAGAAATGAAATG
** * * * * * *
280660 TGTTCGGCTCTTTAAGGACAAAAGAAAAAATGAAATAAAATGCGTCTTACTCTTTGAGGATAAAG
1 CATCCTGCTCTTTAAGGACAAAAGAAAAAATGGAATAAAATGCATCCTACTCTTTGAGGACAAA-
280725 GGAAAAAAA
65 GGAAAAAAA
280734 TGCGTCTTGC
Statistics
Matches: 131, Mismatches: 24, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
84 42 0.32
85 29 0.22
86 60 0.46
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (84 bp):
CATCCTGCTCTTTAAGGACAAAAGAAAAAATGGAATAAAATGCATCCTACTCTTTGAGGACAAAG
GAAAAAAAGAAATGAAATG
Found at i:280648 original size:128 final size:128
Alignment explanation
Indices: 280486--280732 Score: 282
Period size: 128 Copynumber: 1.9 Consensus size: 128
280476 AAGGAAAGAG
* * * *
280486 AGTACATCCTGCTTTTCAAGGACAAAAGAAAAAA-GAGAATAAAATGCATCCTGCTTTTTGAGGA
1 AGTACATCCTACTTTTCAAGGACAAAAGAAAAAAGGA-AATAAAATGCATCCGGCTCTTTAAGGA
* * *
280550 CAAAGGAAAAAAAGAAATGAAATGCATCCTGCTCTTTGAGGACAAAGAGAAAAAATGGTAATGA
65 CAAAAGAAAAAAAGAAATAAAATGCATCCTACTCTTTGAGGACAAAGAGAAAAAATGGTAATGA
* * * * * ** *
280614 AGTACATCCTACTCTTT-GAGGACAAAGGAGAAAAGGAAATTAAGTGTGTTCGGCTCTTTAAGGA
1 AGTACATCCTACT-TTTCAAGGACAAAAGAAAAAAGGAAATAAAATGCATCCGGCTCTTTAAGGA
* * * * *
280678 CAAAAGAAAAAATGAAATAAAATGCGTCTTACTCTTTGAGGATAAAGGGAAAAAA
65 CAAAAGAAAAAAAGAAATAAAATGCATCCTACTCTTTGAGGACAAAGAGAAAAAA
280733 ATGCGTCTTG
Statistics
Matches: 97, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
128 92 0.95
129 5 0.05
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (128 bp):
AGTACATCCTACTTTTCAAGGACAAAAGAAAAAAGGAAATAAAATGCATCCGGCTCTTTAAGGAC
AAAAGAAAAAAAGAAATAAAATGCATCCTACTCTTTGAGGACAAAGAGAAAAAATGGTAATGA
Found at i:280731 original size:42 final size:42
Alignment explanation
Indices: 280490--280733 Score: 204
Period size: 42 Copynumber: 5.7 Consensus size: 42
280480 AAAGAGAGTA
* *
280490 CATCCTGCT-TTTCAAGGACAAAAG-AAAAAAGAGAATAAAATG
1 CATCCTGCTCTTT-GAGGACAAAGGAAAAAAAGA-AATAAAATG
* *
280532 CATCCTGCTTTTTGAGGACAAAGGAAAAAAAGAAATGAAATG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATAAAATG
* * * * *
280574 CATCCTGCTCTTTGAGGACAAAGAGAAAAAATGGTAATGAAGTA
1 CATCCTGCTCTTTGAGGACAAAG-GAAAAAA-AGAAATAAAATG
* * * * *
280618 CATCCTACTCTTTGAGGACAAAGGAGAAAAGGAAATTAAGTG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATAAAATG
** * * * * *
280660 TGTTCGGCTCTTTAAGGACAAAAGAAAAAATGAAATAAAATG
1 CATCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATAAAATG
* * * *
280702 CGTCTTACTCTTTGAGGATAAAGGGAAAAAAA
1 CATCCTGCTCTTTGAGGACAAA-GGAAAAAAA
280734 TGCGTCTTGC
Statistics
Matches: 164, Mismatches: 33, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
42 103 0.63
43 31 0.19
44 30 0.18
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.22
Consensus pattern (42 bp):
CATCCTGCTCTTTGAGGACAAAGGAAAAAAAGAAATAAAATG
Found at i:280739 original size:34 final size:36
Alignment explanation
Indices: 280691--280758 Score: 113
Period size: 34 Copynumber: 1.9 Consensus size: 36
280681 AAGAAAAAAT
280691 GAAATAAAATGCGTCTTACTCTTTGAGGA-TAAAGG
1 GAAATAAAATGCGTCTTACTCTTTGAGGACTAAAGG
*
280726 GAAA-AAAATGCGTCTTGCTCTTTGAGGACTAAA
1 GAAATAAAATGCGTCTTACTCTTTGAGGACTAAA
280759 AGGTGCCATC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 23 0.74
35 8 0.26
ACGTcount: A:0.37, C:0.13, G:0.22, T:0.28
Consensus pattern (36 bp):
GAAATAAAATGCGTCTTACTCTTTGAGGACTAAAGG
Found at i:280795 original size:62 final size:62
Alignment explanation
Indices: 280729--281068 Score: 436
Period size: 62 Copynumber: 5.5 Consensus size: 62
280719 ATAAAGGGAA
* * *
280729 AAAAATGCGTCTTGCTCTTTGAGGACTAAAAGGTGCCATCAACTCGTGTGGGCTTTAAAAAG
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG
* *
280791 AAAAAGGCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGATTTAAAAAG
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG
** * *
280853 AAAAAGATG-CCGTGCTCTTTGAGGACTAAAAGGTGCTACCAACTCATGTGGGCTTT-AAAAG
1 AAAAAGGCGTCC-TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG
* * * * *
280914 AAAAAAGCGTCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAA-
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG
* * * * * *
280975 AGAAAA-GCTATCCTGCTGTTTGAGGACTAAAAGGTGTCACCAACTTGTATGGTCTTTAAAAAG
1 A-AAAAGGC-GTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG
*
281038 AAAAAGGCATCCTGCTCTTTGAGGACTAAAA
1 AAAAAGGCGTCCTGCTCTTTGAGGACTAAAA
281069 AAATAAAAAG
Statistics
Matches: 242, Mismatches: 29, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
61 57 0.24
62 182 0.75
63 3 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (62 bp):
AAAAAGGCGTCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTTAAAAAG
Found at i:280997 original size:123 final size:123
Alignment explanation
Indices: 280741--281068 Score: 432
Period size: 123 Copynumber: 2.7 Consensus size: 123
280731 AAATGCGTCT
* * *
280741 TGCTCTTTGAGGACTAAAAGGTGCCATCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCCAGC
1 TGCTCTTTGAGGACTAAAAGGTGCTACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTA-C
* *
280806 TCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGATTTAAAAAGAAAAAGATGCCG
65 TCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGATTTAAAAAGAAAAAGATGCCG
* *
280865 TGCTCTTTGAGGACTAAAAGGTGCTACCAACTCATGTGGGCTTT-AAAAGAAAAAAGCGTCTTAC
1 TGCTCTTTGAGGACTAAAAGGTGCTACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTC-TAC
*
280929 TCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAA-AGAAAAGCTAT-CC-
65 TCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGATTTAAAAAGA-AAAAG--ATGCCG
* * * * * *
280988 TGCTGTTTGAGGACTAAAAGGTG-TCACCAACTTGTATGGTCTTTAAAAAGAAAAAGGCATCCTG
1 TGCTCTTTGAGGACTAAAAGGTGCT-ACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGT-CTA
281052 CTCTTTGAGGACTAAAA
64 CTCTTTGAGGACTAAAA
281069 AAATAAAAAG
Statistics
Matches: 181, Mismatches: 16, Indels: 14
0.86 0.08 0.07
Matches are distributed among these distances:
122 2 0.01
123 101 0.56
124 75 0.41
125 3 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (123 bp):
TGCTCTTTGAGGACTAAAAGGTGCTACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGCGTCTACT
CTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGATTTAAAAAGAAAAAGATGCCG
Found at i:281056 original size:185 final size:186
Alignment explanation
Indices: 280728--281068 Score: 503
Period size: 185 Copynumber: 1.8 Consensus size: 186
280718 GATAAAGGGA
* * * *
280728 AAAAAATGCGTCTTGCTCTTTGAGGACTAAAAGGTGCCATCAACTCGTGTGGGCTTTAAAAAGAA
1 AAAAAATGCGTCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAAGAA
* *
280793 AAAGGCGTCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGATTTAAAAAGAAAAA
66 AAAGGCATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGATTTAAAAAGAAAAA
280858 GATGCCGTGCTCTTTGAGGACTAAAAGGTGCTACCAACTCATGTGGGCTTTAAAAG
131 GATGCCGTGCTCTTTGAGGACTAAAAGGTGCTACCAACTCATGTGGGCTTTAAAAG
280914 AAAAAA-GCGTCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAA-AG
1 AAAAAATGCGTCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAAGA-
* * * * **
280977 AAAA-GCTATCCTGCTGTTTGAGGACTAAAAGGTGTCACCAACTTGTATGGTCTTTAAAAAGAAA
65 AAAAGGC-ATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGATTTAAAAAGAAA
281041 AAGGCAT-CC-TGCTCTTTGAGGACTAAAA
129 AA-G-ATGCCGTGCTCTTTGAGGACTAAAA
281069 AAATAAAAAG
Statistics
Matches: 139, Mismatches: 12, Indels: 9
0.87 0.08 0.06
Matches are distributed among these distances:
184 3 0.02
185 125 0.90
186 9 0.06
187 2 0.01
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (186 bp):
AAAAAATGCGTCTTACTCTTTGAGGACTAAAAGGTGCCACCAACTCATGTGAGCTTTAAAAAGAA
AAAGGCATCCAGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTATGGGATTTAAAAAGAAAAA
GATGCCGTGCTCTTTGAGGACTAAAAGGTGCTACCAACTCATGTGGGCTTTAAAAG
Found at i:281141 original size:32 final size:31
Alignment explanation
Indices: 281088--281193 Score: 110
Period size: 31 Copynumber: 3.4 Consensus size: 31
281078 GGGTGCCATG
*
281088 GAGTCATGGACTTTG-A-AAAGAGATGT-CACT
1 GAGTCGTGGAC-TTGAAGAAAGAGAT-TCCACT
* *
281118 AAGTCGTGGACTATGAAGAAAGAGATTCCATT
1 GAGTCGTGGACT-TGAAGAAAGAGATTCCACT
* *
281150 GAGTCGTGGACTTAAAGAAAAAGATTCCACT
1 GAGTCGTGGACTTGAAGAAAGAGATTCCACT
*
281181 GAGTCATGGACTT
1 GAGTCGTGGACTT
281194 TGAAAAGGTT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
29 1 0.02
30 11 0.17
31 30 0.47
32 22 0.34
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (31 bp):
GAGTCGTGGACTTGAAGAAAGAGATTCCACT
Found at i:282948 original size:154 final size:154
Alignment explanation
Indices: 282743--283406 Score: 592
Period size: 155 Copynumber: 4.3 Consensus size: 154
282733 TAAGTTTAAG
* * * * * *
282743 AAAAAAATATGAAAATGCTCCTAGGGGATAACTTCA-ACGTAAAAATACCTGATACCCCTAAAGG
1 AAAAAATTACGAAAATGCCCCTAAGGGATACCTT-AGACGTAAAAGTACCTGATACCCCTAAAGG
282807 ACTTAAAAAGGATTTAG-AAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGAC
65 ACTTAAAAAGGA-TTAGAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGAC
* * *
282871 CGGGTGATAATCTAGGTCTTGATTCT
129 CTGGTGACAATCTAGGACTTGATTCT
* * * *
282897 AAAAAATTATGAAACTGCCCCTAAGGGATACCTTAGACATAAAAGTACCTGATACCTCTAAAGGA
1 AAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACGTAAAAGTACCTGATACCCCTAAAGGA
* * * * * * *
282962 CTTAAAAA--ATTAGAAATGAGATGAACTTATCCTAAATGTCCA-CTTTCAGGATAAAAGCGGAC
66 CTTAAAAAGGATTAGAAA-GGGATGAACCTATCCTAAATATCTACCTTTGA-CATAAAAGCAGAC
* * * *
283024 TTGGTGACGATCTAGAAATTGATTCT
129 CTGGTGACAATCTAGGACTTGATTCT
* * * * * **
283050 AAAAAATTACGAAAATGCTCTTATGGGTATACCTTCGACGTAAAAGTATCTCGATAATCCTAAAG
1 AAAAAATTACGAAAATGCCCCTAAGGG-ATACCTTAGACGTAAAAGTACCT-GATACCCCTAAAG
* * * * * *
283115 GACTTAAAAATGATATAG-ATGGG-TGAACCTATCCTAAATACCAACCTTTGGCACAAAAGCAGA
64 GACTTAAAAAGGAT-TAGAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGA
* *
283178 CCTAGTGACAA-CTTAGGACTTGGTTCT
128 CCTGGTGACAATC-TAGGACTTGATTCT
* * * * * * * *
283205 GAAAAATTACGAAAATGTCTC-AAGGAGATACCTTCGACGTAAAAGTACTTGGTATCTCTAAAGG
1 AAAAAATTACGAAAATGCCCCTAAGG-GATACCTTAGACGTAAAAGTACCTGATACCCCTAAAGG
* * * *
283269 ACTTAAAAAGGATAATGAAAGGGGTGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAAC
65 ACTTAAAAAGGATTA-GAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGAC
* * * * *
283334 TTGGTGATAACCTAGGACTCGATTTT
129 CTGGTGACAATCTAGGACTTGATTCT
* * * ** * * *
283360 GAAAAATTACAAAAAT-ACCCTTGGGGATATCTTCGAAGTAAAAGTAC
1 AAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACGTAAAAGTAC
283407 TCGATATCTC
Statistics
Matches: 409, Mismatches: 84, Indels: 34
0.78 0.16 0.06
Matches are distributed among these distances:
151 4 0.01
152 9 0.02
153 97 0.24
154 134 0.33
155 152 0.37
156 7 0.02
157 3 0.01
158 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (154 bp):
AAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACGTAAAAGTACCTGATACCCCTAAAGGA
CTTAAAAAGGATTAGAAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGACCT
GGTGACAATCTAGGACTTGATTCT
Found at i:283173 original size:155 final size:151
Alignment explanation
Indices: 282743--283426 Score: 569
Period size: 154 Copynumber: 4.5 Consensus size: 151
282733 TAAGTTTAAG
* * * * * * *
282743 AAAAAAATATGAAAATGCTCCTAGGGGATAACTTCAACGTAAAAATACCTGATACCCCTAAAGGA
1 AAAAAATTACGAAAATGCTCCTAAGGGATACCTTCGACGTAAAAGTACCTGATACCTCTAAAGGA
* * * * *
282808 CTTAAAAAGGATTTAGAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGACCG
66 CTTAAAAAGGATATAGATGGG-TGAACCTATCCTAAATA-CCACCTTTGGCATAAAAGCAGACCT
* *
282873 GGTGATAATCTAGGTCTTGATTCT
129 GGTGA-CATCTAGGACTTGATTCT
* * * * *
282897 AAAAAATTATGAAACTGCCCCTAAGGGATACCTTAGACATAAAAGTACCTGATACCTCTAAAGGA
1 AAAAAATTACGAAAATGCTCCTAAGGGATACCTTCGACGTAAAAGTACCTGATACCTCTAAAGGA
* * * *
282962 CTTAAAAA--AT-TAGAAATGAGATGAACTTATCCTAAATGTCCA-CTTTCAGG-ATAAAAGCGG
66 CTTAAAAAGGATATAG--ATG-GGTGAACCTATCCTAAAT-ACCACCTTT--GGCATAAAAGCAG
* * *
283022 ACTTGGTGACGATCTAGAAATTGATTCT
125 ACCTGGTGAC-ATCTAGGACTTGATTCT
* * * *
283050 AAAAAATTACGAAAATGCTCTTATGGGTATACCTTCGACGTAAAAGTATCTCGATA-ATCCTAAA
1 AAAAAATTACGAAAATGCTCCTAAGGG-ATACCTTCGACGTAAAAGTACCT-GATACCT-CTAAA
* *
283114 GGACTTAAAAATGATATAGATGGGTGAACCTATCCTAAATACCAACCTTTGGCACAAAAGCAGAC
63 GGACTTAAAAAGGATATAGATGGGTGAACCTATCCTAAATACC-ACCTTTGGCATAAAAGCAGAC
* * *
283179 CTAGTGACAACTTAGGACTTGGTTCT
127 CTGGTGACATC-TAGGACTTGATTCT
* * * *
283205 GAAAAATTACGAAAATG-T-CTCAAGGAGATACCTTCGACGTAAAAGTACTTGGTATCTCTAAAG
1 AAAAAATTACGAAAATGCTCCT-AAGG-GATACCTTCGACGTAAAAGTACCTGATACCTCTAAAG
* * * * * *
283268 GACTTAAAAAGGATAATGAAAGGGGTGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAA
64 GACTTAAAAAGGAT-AT-AGATGGGTGAACCTATCCTAAATA-CCACCTTTGGCATAAAAGCAGA
* * * * *
283333 CTTGGTGATAACCTAGGACTCGATTTT
126 CCTGGTGA-CATCTAGGACTTGATTCT
* * * ** * * * *
283360 GAAAAATTACAAAAATAC-CCTTGGGGATATCTTCGAAGTAAAAGTA-CTCGATATCTCTAAAAG
1 AAAAAATTACGAAAATGCTCCTAAGGGATACCTTCGACGTAAAAGTACCT-GATACCTCTAAAGG
283423 ACTT
65 ACTT
283427 GAAGGATTTA
Statistics
Matches: 429, Mismatches: 74, Indels: 54
0.77 0.13 0.10
Matches are distributed among these distances:
151 3 0.01
152 6 0.01
153 95 0.22
154 155 0.36
155 153 0.36
156 12 0.03
157 2 0.00
158 3 0.01
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.26
Consensus pattern (151 bp):
AAAAAATTACGAAAATGCTCCTAAGGGATACCTTCGACGTAAAAGTACCTGATACCTCTAAAGGA
CTTAAAAAGGATATAGATGGGTGAACCTATCCTAAATACCACCTTTGGCATAAAAGCAGACCTGG
TGACATCTAGGACTTGATTCT
Found at i:283403 original size:308 final size:307
Alignment explanation
Indices: 282754--283426 Score: 709
Period size: 308 Copynumber: 2.2 Consensus size: 307
282744 AAAAAATATG
* * * *
282754 AAAATGCTCCTA-GGGGATAACTTC-AACGTAAAAATAC-CTGATACCCCTAAAGGACTTAAAAA
1 AAAATACTCCTATGGGGATACCTTCGAA-GTAAAAGTACTC-GATA-TCCTAAAGGACTTAAAAA
* * * * * *
282816 GGATTTAGAAGGGATGAACCTATCCTAAATATCTACCTTTGACATAAAAGCAGACCGGGTGATAA
63 GGATATAGAAGGGATGAACCTATCCTAAATACCAACCTTTGACACAAAAGCAGACCGAGTGACAA
* * *
282881 TCTAGGTCTTGATTCTAAAAAATTATGAAACTGCCCCTAAGGGATACCTTAGACATAAAAGTACC
128 TCTAGGACTTGATTCTAAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACATAAAAGTACC
* * * *
282946 TGATACCTCTAAAGGACTTAAAAAATTAGAAATGAGATGAACTTATCCTAAATGTCCACTTTCAG
193 TGATACCTCTAAAGGACTTAAAAAATAAGAAATGAGATGAACCTATCCTAAATATCCACCTTCAG
* ** * * * *
283011 GATAAAAGCGGACTTGGTGACGATCTAGAAATTGATTCTAAAAAATTACG
258 CATAAAAGCAAACTTGGTGACAACCTAGAAATCGATTCTAAAAAATTACA
* * * * *
283061 AAAATGCTCTTATGGGTATACCTTCGACGTAAAAGTATCTCGATAATCCTAAAGGACTTAAAAAT
1 AAAATACTCCTATGGGGATACCTTCGAAGTAAAAGTA-CTCGAT-ATCCTAAAGGACTTAAAAAG
* * *
283126 GATATAGATGGG-TGAACCTATCCTAAATACCAACCTTTGGCACAAAAGCAGACCTAGTGACAA-
64 GATATAGAAGGGATGAACCTATCCTAAATACCAACCTTTGACACAAAAGCAGACCGAGTGACAAT
* * * * * *
283189 CTTAGGACTTGGTTCTGAAAAATTACGAAAATGTCTC-AAGGAGATACCTTCGACGTAAAAGTAC
129 C-TAGGACTTGATTCTAAAAAATTACGAAAATGCCCCTAAGG-GATACCTTAGACATAAAAGTAC
* * * * * *
283253 TTGGTATCTCTAAAGGACTTAAAAAGGATAATGAAA-GGGGTGAACCTATCCTAAATATCTACCT
192 CTGATACCTCTAAAGGACTTAAAAA--ATAA-GAAATGAGATGAACCTATCCTAAATATCCACCT
* * * * *
283317 TC-GACATAAAAGCAAACTTGGTGATAACCTAGGACTCGATTTTGAAAAATTACA
254 TCAG-CATAAAAGCAAACTTGGTGACAACCTAGAAATCGATTCTAAAAAATTACA
* *
283371 AAAATAC-CCT-TGGGGATATCTTCGAAGTAAAAGTACTCGATATCTCTAAAAGACTT
1 AAAATACTCCTATGGGGATACCTTCGAAGTAAAAGTACTCGATATC-CTAAAGGACTT
283427 GAAGGATTTA
Statistics
Matches: 301, Mismatches: 53, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
306 3 0.01
307 32 0.11
308 154 0.51
309 35 0.12
310 73 0.24
311 4 0.01
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.26
Consensus pattern (307 bp):
AAAATACTCCTATGGGGATACCTTCGAAGTAAAAGTACTCGATATCCTAAAGGACTTAAAAAGGA
TATAGAAGGGATGAACCTATCCTAAATACCAACCTTTGACACAAAAGCAGACCGAGTGACAATCT
AGGACTTGATTCTAAAAAATTACGAAAATGCCCCTAAGGGATACCTTAGACATAAAAGTACCTGA
TACCTCTAAAGGACTTAAAAAATAAGAAATGAGATGAACCTATCCTAAATATCCACCTTCAGCAT
AAAAGCAAACTTGGTGACAACCTAGAAATCGATTCTAAAAAATTACA
Found at i:284546 original size:20 final size:21
Alignment explanation
Indices: 284523--284561 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
284513 GAAATCATGG
*
284523 AAAACATG-TTGAAAACACCA
1 AAAACAAGCTTGAAAACACCA
284543 AAAACAAGCTTGAAAACAC
1 AAAACAAGCTTGAAAACAC
284562 TAGTTTGTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.56, C:0.21, G:0.10, T:0.13
Consensus pattern (21 bp):
AAAACAAGCTTGAAAACACCA
Found at i:285777 original size:166 final size:161
Alignment explanation
Indices: 285460--285981 Score: 633
Period size: 166 Copynumber: 3.1 Consensus size: 161
285450 TAATAATAAT
* * * *
285460 AATAATAATAATTAATGGATTTTAAAAAT-AAAAAATCAAGAAAAATCCCCTCGAAAAAAATTTA
1 AATAATAATATTTGATGAATTTTAAAAATCAAAAAA-CAAGAAAAATCCCCCCG-AAAAAATTTA
* * *
285524 CGGAGTAGAAAACTC-TACATTTAAAAAAAAAGAGAATTTCAAGAAAAAAATTCAAAATTTATGG
64 TGGAGTAGAAAACTCGT--ATTTCAAAAAAAAGAGAATTTCAAG-AAAAAATTCAAAATTTA-GA
* *
285588 AAATGAATGAACTTTTGAAAACTAAATAACTATGAGATA
125 AAATGAATGAA-TTTTAAAAACTAAATAA-TATGAAATA
* *
285627 AATAATAATATTTGATCAATTTTAAAAATCAAAAAACAAGAAAAATCCCCCCGAAAAAATTTATA
1 AATAATAATATTTGATGAATTTTAAAAATCAAAAAACAAGAAAAATCCCCCCGAAAAAATTTATG
285692 GAGTA-AAAAGCTTCGTATTTCAAAAAAAAGAGAATTTCAAAGAAAAAATTCAAAATTTACGAAA
66 GAGTAGAAAA-C-TCGTATTTCAAAAAAAAGAGAATTTC-AAGAAAAAATTCAAAATTTA-GAAA
285756 ATGAATGAATTTCTAAAAACTAAATTAATAAT-AAATA
127 ATGAATGAATTT-TAAAAACTAAA-TAAT-ATGAAATA
*
285793 AATAATAATATTTGATGAATTTTAAAAATCAAAAACCAAGAAAAATCCCCCCGAAAAAATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATCAAAAAACAAGAAAAATCCCCCCGAAAAAATTTATG
* * * *
285858 GATTAGAAAACTCTGTATTTCAAAAAAAAGAGAATTTTAAGTAAAAATGCAAAAACTGTT-GAAA
66 GAGTAGAAAACTC-GTATTTCAAAAAAAAGAGAATTTCAAGAAAAAATTC-AAAA-T-TTAGAAA
* * *
285922 ATGAATTAATTTTTGAAAAA-GAATTTAATATGAAATA
127 ATGAATGAA-TTTT-AAAAACTAA-ATAATATGAAATA
285959 AATAATAATATTTGATGAATTTT
1 AATAATAATATTTGATGAATTTT
285982 GATGTTTGAA
Statistics
Matches: 316, Mismatches: 22, Indels: 35
0.85 0.06 0.09
Matches are distributed among these distances:
165 21 0.07
166 222 0.70
167 64 0.20
168 9 0.03
ACGTcount: A:0.53, C:0.09, G:0.10, T:0.28
Consensus pattern (161 bp):
AATAATAATATTTGATGAATTTTAAAAATCAAAAAACAAGAAAAATCCCCCCGAAAAAATTTATG
GAGTAGAAAACTCGTATTTCAAAAAAAAGAGAATTTCAAGAAAAAATTCAAAATTTAGAAAATGA
ATGAATTTTAAAAACTAAATAATATGAAATA
Found at i:287360 original size:22 final size:24
Alignment explanation
Indices: 287330--287378 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
287320 ATTTTTGTCA
*
287330 TTATTTTTTCTCTCTTTTCATTTT
1 TTATTTTTGCTCTCTTTTCATTTT
*
287354 TTATTTTTGCTCTTTTTTCATTTT
1 TTATTTTTGCTCTCTTTTCATTTT
287378 T
1 T
287379 GTTTCTCTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.08, C:0.14, G:0.02, T:0.76
Consensus pattern (24 bp):
TTATTTTTGCTCTCTTTTCATTTT
Found at i:291429 original size:13 final size:13
Alignment explanation
Indices: 291411--291436 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
291401 CAATTTTTTG
291411 TGTATCGATACAT
1 TGTATCGATACAT
291424 TGTATCGATACAT
1 TGTATCGATACAT
291437 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Done.