Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009088.1 Hibiscus syriacus cultivar Beakdansim tig00112532_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 200037
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:3270 original size:15 final size:15
Alignment explanation
Indices: 3250--3281 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3240 ATCAATACCT
3250 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
3265 TTTTGCATACATTCA
1 TTTTGCATACATGCA
3280 TT
1 TT
3282 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:10589 original size:21 final size:20
Alignment explanation
Indices: 10560--10623 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 20
10550 TATTATGCTT
*
10560 GAAAAAAAAAAGAAGAAGAAA
1 GAAAAAAAAAA-AAGAAAAAA
*
10581 GAAATAAAAAAAAGAAAAAAA
1 GAAAAAAAAAAAAG-AAAAAA
*
10602 GAGAGAAAAAAAAAGAAAAAA
1 GA-AAAAAAAAAAAGAAAAAA
10623 G
1 G
10624 GGGGGTCAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.08
21 24 0.65
22 10 0.27
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (20 bp):
GAAAAAAAAAAAAGAAAAAA
Found at i:10589 original size:25 final size:24
Alignment explanation
Indices: 10561--10622 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
10551 ATTATGCTTG
* *
10561 AAAAAAAAAAGAAGAAGAAAGAAA
1 AAAAAAAAAAAAAAAAGAAAGAAA
* *
10585 TAAAAAAAAGAAAAAAAGAGAGAAA
1 -AAAAAAAAAAAAAAAAGAAAGAAA
*
10610 AAAAAAGAAAAAA
1 AAAAAAAAAAAAA
10623 GGGGGGTCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (24 bp):
AAAAAAAAAAAAAAAAGAAAGAAA
Found at i:10593 original size:23 final size:22
Alignment explanation
Indices: 10562--10622 Score: 81
Period size: 22 Copynumber: 2.7 Consensus size: 22
10552 TTATGCTTGA
10562 AAAAAAAAAGAAGAAGAAAGA-A-
1 AAAAAAAAAGAA-AA-AAAGAGAG
10584 ATAAAAAAAAGAAAAAAAGAGAG
1 A-AAAAAAAAGAAAAAAAGAGAG
10607 AAAAAAAAAGAAAAAA
1 AAAAAAAAAGAAAAAA
10623 GGGGGGTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.14
22 19 0.53
23 12 0.33
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAAAAAAAGAAAAAAAGAGAG
Found at i:10608 original size:12 final size:10
Alignment explanation
Indices: 10562--10622 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 10
10552 TTATGCTTGA
10562 AAAAAAAAAG
1 AAAAAAAAAG
10572 AAGAAGAAAGAA-
1 AA-AA-AAA-AAG
10584 ATAAAAAAAAG
1 A-AAAAAAAAG
10595 AAAAAAAGAGAG
1 AAAAAAA-A-AG
10607 AAAAAAAAAG
1 AAAAAAAAAG
10617 AAAAAA
1 AAAAAA
10623 GGGGGGTCAA
Statistics
Matches: 44, Mismatches: 0, Indels: 14
0.76 0.00 0.24
Matches are distributed among these distances:
10 18 0.41
11 8 0.18
12 15 0.34
13 3 0.07
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:12127 original size:83 final size:84
Alignment explanation
Indices: 11988--12399 Score: 567
Period size: 83 Copynumber: 4.7 Consensus size: 84
11978 AAATGCCATA
*
11988 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGTA-AAACCAATCAT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCAATCAT
12052 TGAATTTGAAAGATGAATG
66 TGAATTTGAAAGATGAATG
12071 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-AAACCAATCAT
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCAATCAT
12135 TGAATTTGAAAGATGAATG
66 TGAATTTGAAAGATGAATG
*
12154 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-AAACC-----
*
12219 AAAGTAATCATTAAATTTGAAAGATGAATG
60 -----AATCATTGAATTTGAAAGATGAATG
*
12249 TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-------A-AA
* *
12314 CCAATTATTGAATTTGGAAGATGAATG
58 CCAATCATTGAATTTGAAAGATGAATG
* *
12341 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGATATAAACC
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACC
12400 CAGAACCAAT
Statistics
Matches: 298, Mismatches: 12, Indels: 37
0.86 0.03 0.11
Matches are distributed among these distances:
83 135 0.45
84 4 0.01
85 5 0.02
92 73 0.24
95 77 0.26
101 1 0.00
102 3 0.01
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (84 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAAACCAATCAT
TGAATTTGAAAGATGAATG
Found at i:12292 original size:95 final size:93
Alignment explanation
Indices: 12040--12430 Score: 540
Period size: 95 Copynumber: 4.3 Consensus size: 93
12030 CTGGTTTGGT
12040 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
12105 TATCTGATCTGGTTTGG--T--------
66 TATCTGATCTGGTTTGGTATGAACCCAA
12123 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
12188 TATCTGATCTGGTTTGGTATGAACCCTAAA
66 TATCTGATCTGGTTTGGTATGAACCC--AA
** * *
12218 AAAAGTAATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
12283 TATCTGATCTGGTTTGGTATGAA-CCAC
66 TATCTGATCTGGTTTGGTATGAACCCAA
* * *
12310 AGAACCAATTATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
* * *
12375 TATCTGATTTGGTTTGATATAAACCC--
66 TATCTGATCTGGTTTGGTATGAACCCAA
* *
12401 AGAACCAATCATTGGAA-TTAAAAGATGAAT
1 AAAACCAATCATT-GAATTTGAAAGATGAAT
12431 TGTATGATCG
Statistics
Matches: 276, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
83 82 0.30
85 1 0.00
91 23 0.08
92 82 0.30
93 2 0.01
94 2 0.01
95 84 0.30
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (93 bp):
AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGGTTTGGTATGAACCCAA
Found at i:12390 original size:187 final size:178
Alignment explanation
Indices: 12046--12400 Score: 566
Period size: 187 Copynumber: 1.9 Consensus size: 178
12036 TGGTAAAACC
* *
12046 AATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 AATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
12111 ATCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAG
66 ATCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAG
* *
12176 TGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAAAAAGT
131 TGTTCTTTGAGTTATCTGATCTGGTTTGATATAAACCCTAAAAAAAGT
12224 AATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
1 AATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
* *
12289 ATCTGGTTTGGTATGAACCACAGAACCAATTATTGAATTTGGAAGATGAATGTGCTCATAGCATC
66 ATCTGGTTTGG--T-----A-A-AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATC
*
12354 TTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGATATAAACCC
122 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGATATAAACCC
12401 AGAACCAATC
Statistics
Matches: 161, Mismatches: 7, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
178 74 0.46
180 1 0.01
185 1 0.01
186 1 0.01
187 84 0.52
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.37
Consensus pattern (178 bp):
AATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGTAAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAG
TGTTCTTTGAGTTATCTGATCTGGTTTGATATAAACCCTAAAAAAAGT
Found at i:12455 original size:92 final size:92
Alignment explanation
Indices: 12125--12430 Score: 391
Period size: 92 Copynumber: 3.3 Consensus size: 92
12115 GGTTTGGTAA
* *
12125 AACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGAATTTAAAAGATGAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTA
* * * *
12190 TCTGATCTGGTTTGGTATGAACCCTAAAAA
66 TCTGATCTGGTTTGATAT-AAACC--ACAG
** * * * *
12220 AAGTAATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGAATTTAAAAGATGAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTA
* *
12285 TCTGATCTGGTTTGGTATGAACCACAG
66 TCTGATCTGGTTTGATATAAACCACAG
* ** *
12312 AACCAATTATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTA
1 AACCAATCATTGAATTTAAAAGATGAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTA
*
12377 TCTGATTTGGTTTGATATAAACC-CAG
66 TCTGATCTGGTTTGATATAAACCACAG
12403 AACCAATCATTGGAA-TTAAAAGATGAAT
1 AACCAATCATT-GAATTTAAAAGATGAAT
12431 TGTATGATCG
Statistics
Matches: 190, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
91 24 0.13
92 84 0.44
94 3 0.02
95 79 0.42
ACGTcount: A:0.32, C:0.13, G:0.20, T:0.35
Consensus pattern (92 bp):
AACCAATCATTGAATTTAAAAGATGAATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTA
TCTGATCTGGTTTGATATAAACCACAG
Found at i:13313 original size:113 final size:113
Alignment explanation
Indices: 13115--14015 Score: 1389
Period size: 113 Copynumber: 8.0 Consensus size: 113
13105 TAGCAAAGAT
* * *
13115 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
13180 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
13228 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
13293 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
13341 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
13406 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCCTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
13454 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
13519 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTTTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
13567 TTAAATCCATCACTTGATGGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
13632 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
13680 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGGGAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
13745 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
13793 TCAAATCCATCATTTGATGGATCAGCTTCT-CCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATAGATCAGCTT-TGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
13857 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
* * * * *
13906 TCGAATTCATCACTCGATAGATCAACTTT-TCAGAG--AGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * ** *
13968 AGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
14016 ATAATCCTAT
Statistics
Matches: 744, Mismatches: 41, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
110 66 0.09
111 5 0.01
112 10 0.01
113 662 0.89
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:13772 original size:24 final size:23
Alignment explanation
Indices: 13729--13773 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
13719 GTTCATAATG
*
13729 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
13752 AGAAGAAATTCATAATG-AGAAG
1 AGAAG-AATTCAT-ATGAAGAAG
13774 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 5 0.26
24 12 0.63
25 2 0.11
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.18
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:14134 original size:84 final size:82
Alignment explanation
Indices: 13980--14163 Score: 228
Period size: 84 Copynumber: 2.2 Consensus size: 82
13970 AAAGAAGAAG
* * * * *
13980 AAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGCATAATCCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAATCCTATCACAGAAGGAAATAGATCA
*
14045 GCATCAACCTTTCCAG-AGA
66 ACATCAACC---CCAGCAGA
* * *
14064 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGA-CTCTATCACAGAAGGAAATAGGTC
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAATC-CTATCACAGAAGGAAATAGATC
*
14128 AACATCATCCCCAGCAGA
65 AACATCAACCCCAGCAGA
14146 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
14164 ACTCATCTGA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
81 4 0.05
82 21 0.24
83 1 0.01
84 62 0.70
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAATCCTATCACAGAAGGAAATAGATCA
ACATCAACCCCAGCAGA
Found at i:14327 original size:3 final size:3
Alignment explanation
Indices: 14321--14401 Score: 123
Period size: 3 Copynumber: 27.7 Consensus size: 3
14311 TTCCATTTAC
*
14321 TAT TAT TAT TATT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14367 TAT TAT TAT TAT TAT T-T T-T TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14402 CAAACGGGCC
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
2 6 0.08
3 64 0.88
4 3 0.04
ACGTcount: A:0.31, C:0.00, G:0.01, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15871 original size:22 final size:23
Alignment explanation
Indices: 15843--15887 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
15833 TTCTTATATT
15843 TTATAAA-TAAATAAATATTTTA
1 TTATAAAGTAAATAAATATTTTA
*
15865 TTATAAATGTAAATTAATATTTT
1 TTATAAA-GTAAATAAATATTTT
15888 TTAATAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
TTATAAAGTAAATAAATATTTTA
Found at i:18196 original size:30 final size:30
Alignment explanation
Indices: 18140--18268 Score: 199
Period size: 30 Copynumber: 4.3 Consensus size: 30
18130 GAAGGACCTA
* * *
18140 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
18169 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
18199 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
18229 TCCAGAGGTCATAAAGAT-CTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
18259 TCCATAGGTC
1 TCCAGAGGTC
18269 CCGAAGAACC
Statistics
Matches: 94, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
29 22 0.23
30 72 0.77
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:18285 original size:60 final size:60
Alignment explanation
Indices: 18140--18293 Score: 195
Period size: 60 Copynumber: 2.6 Consensus size: 60
18130 GAAGGACCTA
** *
18140 TCCAGAGGTCACAAAG-ACCCCGGTAACTATCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCACAAAGAACCTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
* * *
18199 TCCAGAGGTCATAAAGATCCTCGGTAACTGTCCAGAGGTCATAAAGAT-CTCGGTAAACTG
1 TCCAGAGGTCACAAAGAACCTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGT-AACTG
* * *
18259 TCCATAGGTCCCGAAGAACCTAGGTAAACTGTCCA
1 TCCAGAGGTCACAAAGAACCTAGGT-AACTGTCCA
18294 TATGTCTCGA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
59 21 0.26
60 52 0.63
61 9 0.11
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.21
Consensus pattern (60 bp):
TCCAGAGGTCACAAAGAACCTAGGTAACTGTCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:18288 original size:31 final size:31
Alignment explanation
Indices: 18250--18318 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 31
18240 TAAAGATCTC
*
18250 GGTAAACTGTCCATAGGTCCCG-AAGAACCTA
1 GGTAAACTGTCCATAGGTCCCGAAAG-ACATA
* *
18281 GGTAAACTGTCCATATGTCTCGAAAGACATA
1 GGTAAACTGTCCATAGGTCCCGAAAGACATA
18312 GGTAAAC
1 GGTAAAC
18319 CCTCGACTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (31 bp):
GGTAAACTGTCCATAGGTCCCGAAAGACATA
Found at i:19560 original size:21 final size:21
Alignment explanation
Indices: 19530--19574 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
19520 ATTCTGTCGT
* *
19530 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
19551 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
19572 TTG
1 TTG
19575 TCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:23220 original size:3 final size:3
Alignment explanation
Indices: 23214--23287 Score: 87
Period size: 3 Copynumber: 24.7 Consensus size: 3
23204 TTCCATTTAC
* * *
23214 TAT TAT TAT TATT TAT TAT TAT TAT GAT TAT GAT TAT TAT TTT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
23260 TTT TAT TTT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
23288 CAAACGGGCC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.03
3 54 0.92
4 3 0.05
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:24833 original size:25 final size:23
Alignment explanation
Indices: 24791--24837 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
24781 TTTCTTATAT
24791 TTTATAAATAAATAAATATTTTA
1 TTTATAAATAAATAAATATTTTA
*
24814 TTTATAAATGTAAATTAATATTTT
1 TTTATAAA--TAAATAAATATTTT
24838 TTAATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTATAAATAAATAAATATTTTA
Found at i:24840 original size:23 final size:22
Alignment explanation
Indices: 24790--24844 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 22
24780 TTTTCTTATA
24790 TTTTATAAATAAATAAATATTT
1 TTTTATAAATAAATAAATATTT
*
24812 TATTTATAAATGTAAATTAATATTT
1 T-TTTATAAA--TAAATAAATATTT
*
24837 TTTAATAA
1 TTTTATAA
24845 TAGGATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 6 0.21
25 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTTATAAATAAATAAATATTT
Found at i:28654 original size:15 final size:15
Alignment explanation
Indices: 28634--28665 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
28624 ATCAATACCT
28634 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
28649 TTTTGCATACATTCA
1 TTTTGCATACATGCA
28664 TT
1 TT
28666 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:36015 original size:21 final size:21
Alignment explanation
Indices: 35986--36052 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 21
35976 TATTATGCTT
35986 GAAAAAAAAAAAAGAAGAAAA
1 GAAAAAAAAAAAAGAAGAAAA
* *
36007 GAAATAAAAAAAAGAAAAAAAAA
1 GAAA-AAAAAAAA-AGAAGAAAA
36030 GAGAGAAAAAAAAAAGAA-AAAA
1 GA-A-AAAAAAAAAAGAAGAAAA
36052 G
1 G
36053 GGGGGTCAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 4 0.10
22 13 0.33
23 12 0.31
24 9 0.23
25 1 0.03
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (21 bp):
GAAAAAAAAAAAAGAAGAAAA
Found at i:36019 original size:13 final size:12
Alignment explanation
Indices: 35987--36051 Score: 78
Period size: 13 Copynumber: 5.3 Consensus size: 12
35977 ATTATGCTTG
35987 AAAAAAAAA-AA
1 AAAAAAAAAGAA
* *
35998 AGAAGAAAAGAA
1 AAAAAAAAAGAA
36010 ATAAAAAAAAGAA
1 A-AAAAAAAAGAA
*
36023 AAAAAAAGAGAGA
1 AAAAAAAAAGA-A
36036 AAAAAAAAAGAA
1 AAAAAAAAAGAA
36048 AAAA
1 AAAA
36052 GGGGGGTCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
11 7 0.16
12 17 0.38
13 21 0.47
ACGTcount: A:0.86, C:0.00, G:0.12, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:36046 original size:25 final size:24
Alignment explanation
Indices: 35986--36051 Score: 82
Period size: 23 Copynumber: 2.8 Consensus size: 24
35976 TATTATGCTT
*
35986 GAAAAAAAAAA-AAGAAGAAAAGAA
1 GAAAAAAAAAAGAA-AAAAAAAGAA
*
36010 -ATAAAAAAAAGAAAAAAAAAGAGA
1 GAAAAAAAAAAGAAAAAAAAAGA-A
36034 GAAAAAAAAAAGAAAAAA
1 GAAAAAAAAAAGAAAAAA
36052 GGGGGGTCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 17 0.47
24 3 0.08
25 16 0.44
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.02
Consensus pattern (24 bp):
GAAAAAAAAAAGAAAAAAAAAGAA
Found at i:37726 original size:95 final size:92
Alignment explanation
Indices: 37474--37865 Score: 536
Period size: 92 Copynumber: 4.3 Consensus size: 92
37464 CTGGTTTGGT
37474 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
37539 TATCTGATCTGGTTTGG--T-------
66 TATCTGATCTGGTTTGGTATGAACCAA
37557 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
37622 TATCTGATCTGGTTTGGTATGAACCCTAAA
66 TATCTGATCTGGTTTGGTATGAA-CC--AA
** * *
37652 AAAAGTAATCATTAAATTTGAAAGATGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
*
37717 TATCTGATCTGGTTTGGTATGAACCAC
66 TATCTGATCTGGTTTGGTATGAACCAA
* * *
37744 AGAACCAATTATTGAATTTGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
1 AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
* * * *
37809 TATCTGATTTGGTTTGATATAAAACC-C
66 TATCTGATCTGGTTTGGTAT-GAACCAA
* *
37836 AGAACCAATCATTGGAA-TTAAAAGATGAAT
1 AAAACCAATCATT-GAATTTGAAAGATGAAT
37866 TGTATGATCG
Statistics
Matches: 277, Mismatches: 18, Indels: 19
0.88 0.06 0.06
Matches are distributed among these distances:
83 82 0.30
85 1 0.00
92 101 0.36
93 7 0.03
94 2 0.01
95 84 0.30
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (92 bp):
AAAACCAATCATTGAATTTGAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGT
TATCTGATCTGGTTTGGTATGAACCAA
Found at i:37813 original size:92 final size:89
Alignment explanation
Indices: 37422--37865 Score: 581
Period size: 83 Copynumber: 5.0 Consensus size: 89
37412 AAATTCCATA
*
37422 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG--T----AAAACCA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAACCAAAACCA
37481 ATCATTGAATTTGAAAGATGAATG
66 ATCATTGAATTTGAAAGATGAATG
37505 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGG--T----AAAACCA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAACCAAAACCA
37564 ATCATTGAATTTGAAAGATGAATG
66 ATCATTGAATTTGAAAGATGAATG
37588 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCCTAAAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-AA-CC----A
** *
37653 AAAGTAATCATTAAATTTGAAAGATGAATG
60 AAACCAATCATTGAATTTGAAAGATGAATG
*
37683 TGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACAGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT-AACCA-A-AA
* *
37748 CCAATTATTGAATTTGGAAGATGAATG
63 CCAATCATTGAATTTGAAAGATGAATG
* * *
37775 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGATATAAAACCCAGAA
1 TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAT--AA-CCAAAA
*
37840 CCAATCATTGGAA-TTAAAAGATGAAT
63 CCAATCATT-GAATTTGAAAGATGAAT
37866 TGTATGATCG
Statistics
Matches: 326, Mismatches: 18, Indels: 25
0.88 0.05 0.07
Matches are distributed among these distances:
83 133 0.41
85 1 0.00
90 1 0.00
91 1 0.00
92 96 0.29
93 5 0.02
94 5 0.02
95 84 0.26
ACGTcount: A:0.30, C:0.13, G:0.21, T:0.36
Consensus pattern (89 bp):
TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATAACCAAAACCA
ATCATTGAATTTGAAAGATGAATG
Found at i:38750 original size:113 final size:113
Alignment explanation
Indices: 38552--39454 Score: 1398
Period size: 113 Copynumber: 8.0 Consensus size: 113
38542 TAGCAAAGAT
* * *
38552 TCAAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
38617 AGAATGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
38665 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATAATAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
38730 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
38778 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
38843 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCCTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
38891 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* *
38956 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTTTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* *
39004 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
39069 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTTAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
39117 TTAAATCCATCACTTGATAGATTAGCTTTGCCAGGGAAAGTTCATAATGAGAAGAATTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
39182 AGAAGGAAGAAGAATTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
39230 TCAAATCCATCATTTGATGGATCAGCTTCT-CCAGAAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATCCATCACTTGATAGATCAGCTT-TGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG
* *
39294 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTT-GC
* * * * * *
39343 TCGAATTCATCACTCGATAGATCAACTTT-TCAGAGAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * ** *
39407 AGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGC
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
39455 ATAATCCTAT
Statistics
Matches: 746, Mismatches: 41, Indels: 7
0.94 0.05 0.01
Matches are distributed among these distances:
112 77 0.10
113 668 0.90
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.29
Consensus pattern (113 bp):
TCAAATCCATCACTTGATAGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:39209 original size:24 final size:23
Alignment explanation
Indices: 39166--39210 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 23
39156 GTTCATAATG
*
39166 AGAAGAATTCATCTGAAGAAGGA
1 AGAAGAATTCATATGAAGAAGGA
39189 AGAAGAATTTCATAATG-AGAAG
1 AGAAGAA-TTCAT-ATGAAGAAG
39211 AATTTGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 7 0.37
24 10 0.53
25 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.24, T:0.20
Consensus pattern (23 bp):
AGAAGAATTCATATGAAGAAGGA
Found at i:39573 original size:84 final size:82
Alignment explanation
Indices: 39419--39602 Score: 228
Period size: 84 Copynumber: 2.2 Consensus size: 82
39409 AAAGAAGAAG
* * * * *
39419 AAGTTCATAATGAGAAGAGCTTGTTCGACCTTTTGCATAATCCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAATCCTATCACAGAAGGAAATAGATCA
*
39484 GCATCAACCTTTCCAG-AGA
66 ACATCAACC---CCAGCAGA
* * *
39503 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTGAATGA-CTCTATCACAGAAGGAAATAGGTC
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAATC-CTATCACAGAAGGAAATAGATC
*
39567 AACATCATCCCCAGCAGA
65 AACATCAACCCCAGCAGA
39585 AAGTTCATAATGAGAAGA
1 AAGTTCATAATGAGAAGA
39603 ACTCATCTGA
Statistics
Matches: 88, Mismatches: 10, Indels: 6
0.85 0.10 0.06
Matches are distributed among these distances:
81 4 0.05
82 21 0.24
83 1 0.01
84 62 0.70
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTGAATAATCCTATCACAGAAGGAAATAGATCA
ACATCAACCCCAGCAGA
Found at i:39771 original size:3 final size:3
Alignment explanation
Indices: 39765--39850 Score: 129
Period size: 3 Copynumber: 28.7 Consensus size: 3
39755 TTCCATTTAC
* *
39765 TAT TAT TAT TATT TAT TAT TAT TAT GAT GAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
39811 TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
39851 CAAATGGGCC
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.03
3 72 0.94
4 3 0.04
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:41378 original size:25 final size:23
Alignment explanation
Indices: 41336--41382 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
41326 TTTCTTATAT
41336 TTTATAAATAAATAAATATTTTA
1 TTTATAAATAAATAAATATTTTA
*
41359 TTTATAAATGTAAATTAATATTTT
1 TTTATAAA--TAAATAAATATTTT
41383 TTAATAATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
25 13 0.62
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (23 bp):
TTTATAAATAAATAAATATTTTA
Found at i:41385 original size:23 final size:22
Alignment explanation
Indices: 41335--41389 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 22
41325 TTTTCTTATA
41335 TTTTATAAATAAATAAATATTT
1 TTTTATAAATAAATAAATATTT
*
41357 TATTTATAAATGTAAATTAATATTT
1 T-TTTATAAA--TAAATAAATATTT
*
41382 TTTAATAA
1 TTTTATAA
41390 TAGGATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 8 0.29
24 6 0.21
25 13 0.46
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTTTATAAATAAATAAATATTT
Found at i:43768 original size:31 final size:30
Alignment explanation
Indices: 43646--43775 Score: 208
Period size: 30 Copynumber: 4.3 Consensus size: 30
43636 GAAGGACCTA
* * *
43646 TCCAGAGGTCACAAAGA-CCCCGGTAACTA
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
43675 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
43705 TCCAGAGGTCATAAAGATCCTCGGTAACTG
1 TCCAGAGGTCATAAAGATCCTCGGTAACTG
43735 TCCAGAGGTCATAAAGATCCTCGGTAAACTG
1 TCCAGAGGTCATAAAGATCCTCGGT-AACTG
*
43766 TCCATAGGTC
1 TCCAGAGGTC
43776 CCGAAGAACC
Statistics
Matches: 95, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.17
30 65 0.68
31 14 0.15
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (30 bp):
TCCAGAGGTCATAAAGATCCTCGGTAACTG
Found at i:43792 original size:31 final size:31
Alignment explanation
Indices: 43700--43825 Score: 103
Period size: 31 Copynumber: 4.1 Consensus size: 31
43690 GATCCTCGGT
* ** * *
43700 AACTGTCCAGAGGTCATAAAGATCCTCGGT-
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* ** * *
43730 AACTGTCCAGAGGTCATAAAGATCCTCGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
*
43761 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTGTCCATAGGTCACGAAGAACCTAGGTA
* * *
43792 AACTGTCCATATGTCTCGAA-AGACATAGGTA
1 AACTGTCCATAGGTCACGAAGA-ACCTAGGTA
43823 AAC
1 AAC
43826 CCTCGACTCT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
30 31 0.36
31 54 0.64
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.22
Consensus pattern (31 bp):
AACTGTCCATAGGTCACGAAGAACCTAGGTA
Found at i:45072 original size:21 final size:21
Alignment explanation
Indices: 45042--45086 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
45032 ATTCTGTCGT
*
45042 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
45063 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
45084 TTG
1 TTG
45087 CCCAGAAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.29, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:50854 original size:94 final size:94
Alignment explanation
Indices: 50693--50876 Score: 314
Period size: 94 Copynumber: 2.0 Consensus size: 94
50683 GGTATAATTT
* *
50693 AGAAAGGGTATTTGGCTTAAGTAAGGCAGAAGAGTTAGGAGAAGTGATGGTTTTAAAAGTAAGTA
1 AGAAAGGGTATTGGGCTTAAGTAAGGCACAAGAGTTAGGAGAAGTGATGGTTTTAAAAGTAAGTA
50758 AATAGGAGAAGGACCTAAAGTGTAGTTTA
66 AATAGGAGAAGGACCTAAAGTGTAGTTTA
* * *
50787 AGAAAGGGTATTGGGCTTAAGTAAGGCCCAATAGTTAGGAGAAGTGGTGGTTTTAAAAGTAAGTA
1 AGAAAGGGTATTGGGCTTAAGTAAGGCACAAGAGTTAGGAGAAGTGATGGTTTTAAAAGTAAGTA
*
50852 AATAGGAGAATGACCTAAAGTGTAG
66 AATAGGAGAAGGACCTAAAGTGTAG
50877 ATTACCCTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.39, C:0.05, G:0.31, T:0.25
Consensus pattern (94 bp):
AGAAAGGGTATTGGGCTTAAGTAAGGCACAAGAGTTAGGAGAAGTGATGGTTTTAAAAGTAAGTA
AATAGGAGAAGGACCTAAAGTGTAGTTTA
Found at i:51890 original size:23 final size:23
Alignment explanation
Indices: 51864--51930 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
51854 CAGGATACCC
51864 GAGTTCCTTTAGAAATGATAGCA
1 GAGTTCCTTTAGAAATGATAGCA
* *
51887 GAG-T-C----GAAAGGATA-CTC
1 GAGTTCCTTTAGAAATGATAGC-A
51904 GAGTTCCTTTAGAAATGATAGCA
1 GAGTTCCTTTAGAAATGATAGCA
51927 GAGT
1 GAGT
51931 CGAAAGTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
16 1 0.03
17 11 0.34
18 1 0.03
19 1 0.03
21 1 0.03
22 1 0.03
23 15 0.47
24 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (23 bp):
GAGTTCCTTTAGAAATGATAGCA
Found at i:51910 original size:40 final size:40
Alignment explanation
Indices: 51855--51936 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
51845 GAAAATGACC
51855 AGGATACCCGAGTTCCTTTAGAAATGATAGCAGAGTCGAA
1 AGGATACCCGAGTTCCTTTAGAAATGATAGCAGAGTCGAA
*
51895 AGGATACTCGAGTTCCTTTAGAAATGATAGCAGAGTCGAA
1 AGGATACCCGAGTTCCTTTAGAAATGATAGCAGAGTCGAA
51935 AG
1 AG
51937 TATATATTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.35, C:0.16, G:0.26, T:0.23
Consensus pattern (40 bp):
AGGATACCCGAGTTCCTTTAGAAATGATAGCAGAGTCGAA
Found at i:52802 original size:9 final size:9
Alignment explanation
Indices: 52788--52825 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
52778 ATGTGTGTTT
*
52788 TCCCTCCTC
1 TCCCTCCCC
52797 TCCCTCCCC
1 TCCCTCCCC
52806 TCCCTCCCC
1 TCCCTCCCC
*
52815 TCTCTCCCC
1 TCCCTCCCC
52824 TC
1 TC
52826 TCCTTTCGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (9 bp):
TCCCTCCCC
Found at i:53012 original size:16 final size:16
Alignment explanation
Indices: 52991--53022 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
52981 ATTAAGGATT
52991 GAAATTTTAGGATTTG
1 GAAATTTTAGGATTTG
*
53007 GAAATTTTAGGTTTTG
1 GAAATTTTAGGATTTG
53023 AGATTATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (16 bp):
GAAATTTTAGGATTTG
Found at i:53830 original size:31 final size:31
Alignment explanation
Indices: 53789--53855 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
53779 ATGTTACATA
*
53789 ATTTATAAACAAGTCATCAAACACTGTATTT
1 ATTTACAAACAAGTCATCAAACACTGTATTT
*
53820 ATTTACAAACAAGTCATCAAACATTGTATTT
1 ATTTACAAACAAGTCATCAAACACTGTATTT
53851 ATTTA
1 ATTTA
53856 GAGCTCACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.15, G:0.06, T:0.37
Consensus pattern (31 bp):
ATTTACAAACAAGTCATCAAACACTGTATTT
Found at i:55915 original size:43 final size:44
Alignment explanation
Indices: 55866--55949 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
55856 TAAGACGATT
*
55866 ACGGGTCTCTCTGTTTAATA-CCCGAAACGGTATAAACGCTATA
1 ACGGGTCTCTCTGTCTAATACCCCGAAACGGTATAAACGCTATA
55909 ACGGGTCTCTCTGTCTAATACCCCGAAACGGTATAAACGCT
1 ACGGGTCTCTCTGTCTAATACCCCGAAACGGTATAAACGCT
55950 TATGTCATAT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 19 0.49
44 20 0.51
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (44 bp):
ACGGGTCTCTCTGTCTAATACCCCGAAACGGTATAAACGCTATA
Found at i:57144 original size:37 final size:32
Alignment explanation
Indices: 57103--57177 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 32
57093 AAATAAATCA
*
57103 ATAATATTTTTATCAAAATAATATTATTTAAATTATT
1 ATAATA-TTTTA--AAAATAATAATA-TT-AATTATT
*
57140 ATAATATTTTAAAAATAATAATATTAATTTTT
1 ATAATATTTTAAAAATAATAATATTAATTATT
57172 ATAATA
1 ATAATA
57178 AAAATATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 12 0.33
33 2 0.06
34 11 0.31
36 5 0.14
37 6 0.17
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATTTTAAAAATAATAATATTAATTATT
Found at i:57160 original size:17 final size:17
Alignment explanation
Indices: 57097--57164 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
57087 TAGTACAAAT
57097 AAATCAATAATATTTTTATCA
1 AAAT-AATAATA-TTTTA--A
*
57118 AAATAATATTA-TTTAA
1 AAATAATAATATTTTAA
* *
57134 ATTATTATAATATTTTAA
1 A-AATAATAATATTTTAA
57152 AAATAATAATATT
1 AAATAATAATATT
57165 AATTTTTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
16 2 0.05
17 17 0.44
18 10 0.26
20 6 0.15
21 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATAATAATATTTTAA
Found at i:57177 original size:21 final size:21
Alignment explanation
Indices: 57153--57195 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
57143 ATATTTTAAA
*
57153 AATAATAATATTAATTT-TTAT
1 AATAAAAATATT-ATTTATTAT
57174 AATAAAAATATTATTTATTAT
1 AATAAAAATATTATTTATTAT
57195 A
1 A
57196 TTTTAATATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAAAAATATTATTTATTAT
Found at i:58367 original size:2 final size:2
Alignment explanation
Indices: 58360--58389 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
58350 TTCTTTTTAT
58360 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
58390 GTCTTTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58443 original size:37 final size:33
Alignment explanation
Indices: 58402--58751 Score: 243
Period size: 33 Copynumber: 10.1 Consensus size: 33
58392 CTTTTTTCTC
*
58402 AAAACATTTTTGACAAAGTATAATATATAGTTTTCAG
1 AAAACA-TTTTGA-AAAATATAATATATAGTTTT--G
* * * *
58439 AAAACGGTTTTTCAAAAATATATATTGTATAATTTTG
1 AAAAC--ATTTTGAAAAATATA-A-TATATAGTTTTG
* **
58476 AAAACATTTTTAAAAATTATATAATATATAGTTTCA
1 AAAACA-TTTTGAAAA--ATATAATATATAGTTTTG
* *
58512 AAAACA-TTT-----ATATATTATATAGTTTTT
1 AAAACATTTTGAAAAATATAATATATAGTTTTG
*
58539 AAAAGTCATTTTGAAAATATATATAATATATAGTTTTT
1 AAAA--CATTTTG-AAA-A-ATATAATATATAGTTTTG
58577 AAAACATTTTGAAAATTATATATAGTATATAGTTTTG
1 AAAACATTTTGAAAA--ATATA-A-TATATAGTTTTG
*
58614 AAAACATTTTGAAAATTATAATATATAGTTTTG
1 AAAACATTTTGAAAAATATAATATATAGTTTTG
* *
58647 AAAACATTTTGAAAATTATAATATATAATTTTG
1 AAAACATTTTGAAAAATATAATATATAGTTTTG
*
58680 AAAACATTTTTG-AAAATAT-TTATATA-TTATAT-
1 AAAACA-TTTTGAAAAATATAATATATAGTT-T-TG
* *
58712 AAGACATTTTGAAAATATATATAATATATAGTTTTT
1 AAAACATTTTG-AAA-A-ATATAATATATAGTTTTG
58748 AAAA
1 AAAA
58752 AATATTTTTG
Statistics
Matches: 259, Mismatches: 23, Indels: 63
0.75 0.07 0.18
Matches are distributed among these distances:
27 19 0.07
29 2 0.01
30 3 0.01
31 7 0.03
32 12 0.05
33 59 0.23
34 11 0.04
35 18 0.07
36 40 0.15
37 47 0.18
38 32 0.12
39 9 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (33 bp):
AAAACATTTTGAAAAATATAATATATAGTTTTG
Found at i:58542 original size:27 final size:25
Alignment explanation
Indices: 58482--58542 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 25
58472 TTTGAAAACA
58482 TTTTTAAAAATTATATAATATATAG
1 TTTTTAAAAATTATATAATATATAG
** *
58507 TTTCAAAAACATTTATATATTATATAG
1 TTTTTAAAA-A-TTATATAATATATAG
58534 TTTTTAAAA
1 TTTTTAAAA
58543 GTCATTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 7 0.24
26 1 0.03
27 21 0.72
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (25 bp):
TTTTTAAAAATTATATAATATATAG
Found at i:58549 original size:65 final size:63
Alignment explanation
Indices: 58457--58712 Score: 178
Period size: 70 Copynumber: 3.8 Consensus size: 63
58447 TTTTCAAAAA
*
58457 TATATATTGTATAATTTTGAAAACATTTTTAAAAAT-TATATAATATATAGTTTCAAAAACATT
1 TATATATTATATAATTTTGAAAACA-TTTTAAAAATATATATAATATATAGTTTCAAAAACATT
* * * **
58520 TATATATTATATAGTTTTTAAAAGTCATTTTGAAAATATATATAATATATAGTTTTTAAAACATT
1 TATATATTATATAATTTTGAAAA--CATTTTAAAAATATATATAATATATAGTTTCAAAAACA-T
58585 T
63 T
* **
58586 TGAAAATTATATATAGTATATAGTTTTGAAAACATTTT-GAAA-AT-TATAATATATAGTTTTGA
1 T----A-TATAT-TA-TATA-A-TTTTGAAAACATTTTAAAAATATATATAATATATAGTTTCAA
58648 AAACATTT
57 AAACA-TT
* * *
58656 TGAAAATTATAATATATAATTTTGAAAACATTTTTGAAAATATTTATATATTATATA
1 T----A-TATATTATATAATTTTGAAAACA-TTTT-AAAA-ATATATATAATATATA
58713 AGACATTTTG
Statistics
Matches: 160, Mismatches: 14, Indels: 29
0.79 0.07 0.14
Matches are distributed among these distances:
63 20 0.12
64 9 0.06
65 25 0.16
66 14 0.09
67 5 0.03
68 4 0.03
69 4 0.03
70 38 0.24
71 8 0.05
72 15 0.09
73 10 0.06
75 8 0.05
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (63 bp):
TATATATTATATAATTTTGAAAACATTTTAAAAATATATATAATATATAGTTTCAAAAACATT
Found at i:58763 original size:70 final size:67
Alignment explanation
Indices: 58520--58830 Score: 229
Period size: 70 Copynumber: 4.4 Consensus size: 67
58510 CAAAAACATT
* *
58520 TATATATTATATAGTTTTTAAAAGTCATTTTGAAAATATATATAATATATAGTTTTTAAAACATT
1 TATATAATATATAGTTTTTAAAA-ACATTTTG-AAA-ATATAT--TATATA--TTTTAAAACATT
58585 TTGAAAATTA
59 TTGAAAA-TA
* * *
58595 TATATAGTATATAG-TTTTGAAAACATTTTGAAAATTATAATATATAGTTTTGAAAACATTTTG-
1 TATATAATATATAGTTTTTAAAAACATTTTGAAAA-TATATTATATA-TTTT-AAAACATTTTGA
58658 AAA-A
63 AAATA
* * *
58662 T-TATAATATATA-ATTTTGAAAACATTTTTGAAAATAT-TTATATATTATATAAGACATTTTGA
1 TATATAATATATAGTTTTTAAAAACA-TTTTGAAAATATATTATATATT-T-TAAAACATTTTGA
58724 AAATA
63 AAATA
* *
58729 TATATAATATATAGTTTTTAAAAAATATTTTTGAAGTTATATATATTGTATATGTTTTTAAAAAC
1 TATATAATATATAGTTTTT-AAAAACA-TTTTGAA---A-ATATA-T-TATAT-ATTTT-AAAAC
*
58794 GTTTCTGAAAATA
56 ATTT-TGAAAATA
** *
58807 CGTATAATATATAGTTTTAAAAAA
1 TATATAATATATAGTTTTTAAAAA
58831 AAAGCATTTT
Statistics
Matches: 198, Mismatches: 17, Indels: 40
0.78 0.07 0.16
Matches are distributed among these distances:
64 2 0.01
65 17 0.09
66 28 0.14
67 13 0.07
68 11 0.06
69 11 0.06
70 30 0.15
71 1 0.01
72 7 0.04
73 8 0.04
74 11 0.06
75 13 0.07
76 2 0.01
77 18 0.09
78 26 0.13
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (67 bp):
TATATAATATATAGTTTTTAAAAACATTTTGAAAATATATTATATATTTTAAAACATTTTGAAAA
TA
Found at i:58792 original size:39 final size:39
Alignment explanation
Indices: 58520--58876 Score: 121
Period size: 33 Copynumber: 9.8 Consensus size: 39
58510 CAAAAACATT
* *
58520 TATATATTATATAGTTTTT-AAAAGTCA-TTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAAAT-ATTTTTGAAAATA
*
58558 TATATAATATATAGTTTTT--AAAACA-TTTTGAAAATTA
1 TATATAATATATAGTTTTTAAAAAATATTTTTGAAAA-TA
* * *
58595 TATATAGTATATAG-TTTT-GAAAACA-TTTTG-AAA-A
1 TATATAATATATAGTTTTTAAAAAATATTTTTGAAAATA
* *
58629 T-TATAATATATAG-TTTT-GAAAACA-TTTTG-AAA-A
1 TATATAATATATAGTTTTTAAAAAATATTTTTGAAAATA
* * *
58662 T-TATAATATATA-ATTTT-GAAAACATTTTTGAAAATA
1 TATATAATATATAGTTTTTAAAAAATATTTTTGAAAATA
* * * * *** *
58698 T-T-T-ATATAT--TATATAAGACAT-TTTGAAAATATA
1 TATATAATATATAGTTTTTAAAAAATATTTTTGAAAATA
* **
58731 TATAAT-ATATAG--TTTTTAAAAAATATTTTTGAAGTTA
1 TAT-ATAATATATAGTTTTTAAAAAATATTTTTGAAAATA
* * ** *
58768 TATATATTGTATATGTTTTT-AAAAACGTTTCTGAAAATA
1 TATATAATATATA-GTTTTTAAAAAATATTTTTGAAAATA
** * * *
58807 CGTATAATATATAGTTTTAAAAAAAAAGCATTTTGAAAAGT-
1 TATATAATATATAGTTTTTAAAAAATA--TTTTTGAAAA-TA
*
58848 TATATATTATAT-GTTTTTGAAAAAA-ATTT
1 TATATAATATATAGTTTTT-AAAAAATATTT
58877 ATATAGATTA
Statistics
Matches: 251, Mismatches: 48, Indels: 40
0.74 0.14 0.12
Matches are distributed among these distances:
33 65 0.26
34 16 0.06
35 4 0.02
36 36 0.14
37 42 0.17
38 25 0.10
39 28 0.11
40 11 0.04
41 23 0.09
42 1 0.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (39 bp):
TATATAATATATAGTTTTTAAAAAATATTTTTGAAAATA
Found at i:58826 original size:37 final size:34
Alignment explanation
Indices: 58520--58829 Score: 256
Period size: 33 Copynumber: 8.7 Consensus size: 34
58510 CAAAAACATT
* *
58520 TATATATTATATAGTTTTTAAAAGTCATTTTGAAAATA
1 TATATAATATATAGTTTTGAAAA--CATTTTG-AAA-A
*
58558 TATATAATATATAGTTTTTAAAACATTTTGAAAA
1 TATATAATATATAGTTTTGAAAACATTTTGAAAA
58592 TTATATATAGTATATAGTTTTGAAAACATTTTGAAAA
1 -TATATA-A-TATATAGTTTTGAAAACATTTTGAAAA
58629 T-TATAATATATAGTTTTGAAAACATTTTGAAAA
1 TATATAATATATAGTTTTGAAAACATTTTGAAAA
*
58662 T-TATAATATATAATTTTGAAAACATTTTTGAAAA
1 TATATAATATATAGTTTTGAAAACA-TTTTGAAAA
*
58696 TAT-T--TATATA-TTATAT-AAGACATTTTGAAAATA
1 TATATAATATATAGTT-T-TGAAAACATTTTG-AAA-A
* * *
58729 TATATAATATATAGTTTTTAAAAAATATTTTTGAAGTTA
1 TATATAATATATAG-TTTT-GAAAACA-TTTTGAA--AA
* * * *
58768 TATATATTGTATATGTTTTTAAAAACGTTTCTGAAAA
1 TATATAATATATA-G-TTTTGAAAACATTT-TGAAAA
*
58805 TACGTATAATATATAGTTTTAAAAA
1 TA--TATAATATATAGTTTTGAAAA
58830 AAAAGCATTT
Statistics
Matches: 235, Mismatches: 14, Indels: 47
0.79 0.05 0.16
Matches are distributed among these distances:
31 7 0.03
32 15 0.06
33 55 0.23
34 14 0.06
35 14 0.06
36 16 0.07
37 39 0.17
38 34 0.14
39 35 0.15
40 6 0.03
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (34 bp):
TATATAATATATAGTTTTGAAAACATTTTGAAAA
Found at i:58889 original size:3 final size:3
Alignment explanation
Indices: 58883--58931 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
58873 ATTTATATAG
*
58883 ATT ATT ATT ATTT ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
58929 ATT
1 ATT
58932 TCCTATTTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:60066 original size:23 final size:22
Alignment explanation
Indices: 60028--60083 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 22
60018 ATTCTTATTT
* *
60028 TATTTTATTTATTTATTATTA-
1 TATTTTTTTTAATTATTATTAG
60049 TCATGTTTTTTTAATTATTATTAG
1 T-AT-TTTTTTTAATTATTATTAG
60073 TATTTTTTTTA
1 TATTTTTTTTA
60084 CCTCATATGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 1 0.03
22 10 0.33
23 18 0.60
24 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (22 bp):
TATTTTTTTTAATTATTATTAG
Found at i:60078 original size:20 final size:20
Alignment explanation
Indices: 60033--60080 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
60023 TATTTTATTT
60033 TATTTATTTATTATTATCATG
1 TATTT-TTTATTATTATCATG
*
60054 T-TTTTTTAATTATTATTA-G
1 TATTTTTT-ATTATTATCATG
60073 TATTTTTT
1 TATTTTTT
60081 TTACCTCATA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 5 0.21
20 18 0.75
21 1 0.04
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.69
Consensus pattern (20 bp):
TATTTTTTATTATTATCATG
Found at i:60185 original size:5 final size:5
Alignment explanation
Indices: 60140--60185 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
60130 TTAATACTTC
* *
60140 TTTAT TTT-T TTTA- TTTAT TTAAT TTTAAT TTTAT TGTAT TTTAT TT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTT-AT TTTAT TTTAT TTTAT TT
60186 CTTTGGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
4 8 0.24
5 21 0.62
6 5 0.15
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTAT
Found at i:61781 original size:21 final size:21
Alignment explanation
Indices: 61757--61842 Score: 59
Period size: 21 Copynumber: 4.1 Consensus size: 21
61747 GCAAATTCGC
61757 GTTGCATTTCGCGTTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* ** *
61778 GTTGAAAATCGCGTTGTGAT-
1 GTTGCATTTCGCGTTGCGATA
* * *
61798 TTTCCATTTCGCGGTGCGATA
1 GTTGCATTTCGCGTTGCGATA
* *
61819 GTCTACAGTT-GTCGTTGCGATA
1 GT-TGCATTTCG-CGTTGCGATA
61841 GT
1 GT
61843 CTACGGTTGT
Statistics
Matches: 47, Mismatches: 15, Indels: 5
0.70 0.22 0.07
Matches are distributed among these distances:
20 13 0.28
21 18 0.38
22 16 0.34
ACGTcount: A:0.17, C:0.17, G:0.28, T:0.37
Consensus pattern (21 bp):
GTTGCATTTCGCGTTGCGATA
Found at i:61840 original size:22 final size:22
Alignment explanation
Indices: 61812--61861 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
61802 CATTTCGCGG
61812 TGCGATAGTCTACAGTTGTCGT
1 TGCGATAGTCTACAGTTGTCGT
* *
61834 TGCGATAGTCTACGGTTGTTGT
1 TGCGATAGTCTACAGTTGTCGT
61856 TGCGAT
1 TGCGAT
61862 TTTCCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.30, T:0.38
Consensus pattern (22 bp):
TGCGATAGTCTACAGTTGTCGT
Found at i:62464 original size:6 final size:6
Alignment explanation
Indices: 62455--62479 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
62445 CCATCTCGTC
62455 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
62480 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:62599 original size:27 final size:27
Alignment explanation
Indices: 62561--62613 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
62551 TTTTAACTAT
62561 CACAACGAATTTGGAAAATCGCAACGG
1 CACAACGAATTTGGAAAATCGCAACGG
*
62588 CACAACGGATTTGGAAAATCGCAACG
1 CACAACGAATTTGGAAAATCGCAACG
62614 ACAACTGTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (27 bp):
CACAACGAATTTGGAAAATCGCAACGG
Found at i:62651 original size:19 final size:19
Alignment explanation
Indices: 62627--62674 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
62617 ACTGTAGACT
62627 ATCGCAACGAATTTCGAAA
1 ATCGCAACGAATTTCGAAA
*
62646 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTCGAAA
62665 ATCGCAACGA
1 ATCGCAACGA
62675 CAACTGTAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTCGAAA
Found at i:62663 original size:60 final size:60
Alignment explanation
Indices: 62590--62754 Score: 219
Period size: 60 Copynumber: 2.7 Consensus size: 60
62580 CGCAACGGCA
* *
62590 CAACGGATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAA-CG-AATTTCGAAAATCG
1 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAAATGT--AAAATCG
*
62650 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACGCGAAATGTAAAATTG
1 CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAAC-CGAAATGTAAAATCG
* *
62711 CAACGCGAA-ATGGAAAAACGCAACGACAACTGTAGACTATCGCA
1 CAA--CGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCA
62755 CCGCGATTTT
Statistics
Matches: 95, Mismatches: 5, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
60 43 0.45
61 9 0.09
62 35 0.37
63 8 0.08
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.18
Consensus pattern (60 bp):
CAACGAATTTGGAAAATCGCAACGACAACTGTAGACTATCGCAACCGAAATGTAAAATCG
Found at i:62733 original size:20 final size:20
Alignment explanation
Indices: 62689--62735 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
62679 TGTAGACTAT
* *
62689 CGCAACGCGAAATGTAAAAT
1 CGCAACGCGAAATGGAAAAA
*
62709 TGCAACGCGAAATGGAAAAA
1 CGCAACGCGAAATGGAAAAA
62729 CGCAACG
1 CGCAACG
62736 ACAACTGTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (20 bp):
CGCAACGCGAAATGGAAAAA
Found at i:66080 original size:135 final size:129
Alignment explanation
Indices: 65825--66156 Score: 412
Period size: 135 Copynumber: 2.5 Consensus size: 129
65815 CAATAGTTCA
* * * * * **
65825 GTTCCATTTTGCTGCCCTTCATTCAGTCTAGTTTCGTCAAGCATACCACGATTGCTTTCACCATC
1 GTTCCATTCTGCTGCCCTTCATTCAATCTACTTTCATCAAGCATAACACGATCACTTTCACCATC
* * * * * *
65890 ACTATCTCCGAATGTATTTCGATCCTTCTCGTAGCGATCTAATGATTCCACCCGCAACAATCCG
66 ACTATATCCGAACGTATTTCGATCCTTCTCGCACCAATCTAAAGATTCCACCCGCAACAATCCG
* *
65954 GTTTCATTCTGCTGCCCTTCATTCAATCTACTTTCATCAAGCATATCACGATCACTTCCATCATC
1 GTTCCATTCTGCTGCCCTTCATTCAATCTACTTTCATCAAGCATAACACGATCACTT---TCA--
* * **
66019 GCCATCACTATATCCGGACGTATTTCGATCCTTCTCGCACCAATCTAAAGTTTCCGTCCGCAACA
61 -CCATCACTATATCCGAACGTATTTCGATCCTTCTCGCACCAATCTAAAGATTCCACCCGCAACA
66084 ATCCG
125 ATCCG
* **
66089 GTTCCATTCTGCTGCCCTTCATTCAATCTACTTTCATCAAGCATAACACGACCACTTAAACCATC
1 GTTCCATTCTGCTGCCCTTCATTCAATCTACTTTCATCAAGCATAACACGATCACTTTCACCATC
66154 ACT
66 ACT
66157 CTCTCCGGAT
Statistics
Matches: 174, Mismatches: 23, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
129 57 0.33
132 4 0.02
135 113 0.65
ACGTcount: A:0.24, C:0.33, G:0.11, T:0.32
Consensus pattern (129 bp):
GTTCCATTCTGCTGCCCTTCATTCAATCTACTTTCATCAAGCATAACACGATCACTTTCACCATC
ACTATATCCGAACGTATTTCGATCCTTCTCGCACCAATCTAAAGATTCCACCCGCAACAATCCG
Found at i:67262 original size:25 final size:24
Alignment explanation
Indices: 67234--67281 Score: 78
Period size: 25 Copynumber: 2.0 Consensus size: 24
67224 TTTTTTCATT
67234 TGTGTATTTCCCAAGTAATATTTTA
1 TGTGTATTTCCCAAG-AATATTTTA
*
67259 TGTGTATTTCCCAAGAATCTTTT
1 TGTGTATTTCCCAAGAATATTTT
67282 GATGCATAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (24 bp):
TGTGTATTTCCCAAGAATATTTTA
Found at i:67622 original size:4 final size:4
Alignment explanation
Indices: 67615--67678 Score: 56
Period size: 4 Copynumber: 16.0 Consensus size: 4
67605 TTTAATTGTA
* * ** * *
67615 CGTG CGTG CGTG TGTG CGTG CGTA CGTG CGTG TTTG CGCG CGTA CGTG
1 CGTG CGTG CGTG CGTG CGTG CGTG CGTG CGTG CGTG CGTG CGTG CGTG
* *
67663 CGAG TGTG CGTG CGTG
1 CGTG CGTG CGTG CGTG
67679 TGAAAAAGCC
Statistics
Matches: 44, Mismatches: 16, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.05, C:0.22, G:0.45, T:0.28
Consensus pattern (4 bp):
CGTG
Found at i:67644 original size:20 final size:20
Alignment explanation
Indices: 67619--67677 Score: 91
Period size: 20 Copynumber: 3.0 Consensus size: 20
67609 ATTGTACGTG
67619 CGTGCGTGTGTGCGTGCGTA
1 CGTGCGTGTGTGCGTGCGTA
* *
67639 CGTGCGTGTTTGCGCGCGTA
1 CGTGCGTGTGTGCGTGCGTA
*
67659 CGTGCGAGTGTGCGTGCGT
1 CGTGCGTGTGTGCGTGCGT
67678 GTGAAAAAGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.05, C:0.22, G:0.44, T:0.29
Consensus pattern (20 bp):
CGTGCGTGTGTGCGTGCGTA
Found at i:70184 original size:10 final size:9
Alignment explanation
Indices: 70169--70230 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
70159 CTGGTTTTCA
70169 ACCGGTTCTG
1 ACCGGTT-TG
70179 ACCGGTTTCG
1 ACCGGTTT-G
*
70189 ACCGGTTCG
1 ACCGGTTTG
70198 AACCGGTTTG
1 -ACCGGTTTG
* *
70208 ACCGATCTG
1 ACCGGTTTG
*
70217 AACTGGTTTG
1 -ACCGGTTTG
70227 ACCG
1 ACCG
70231 ATCTGACCCG
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
9 12 0.29
10 29 0.71
ACGTcount: A:0.16, C:0.27, G:0.29, T:0.27
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:70187 original size:20 final size:20
Alignment explanation
Indices: 70164--70206 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
70154 TTTAACTGGT
70164 TTTCAACCGGTTCTG-ACCGG
1 TTTCAACCGGTTC-GAACCGG
*
70184 TTTCGACCGGTTCGAACCGG
1 TTTCAACCGGTTCGAACCGG
70204 TTT
1 TTT
70207 GACCGATCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.14, C:0.28, G:0.26, T:0.33
Consensus pattern (20 bp):
TTTCAACCGGTTCGAACCGG
Found at i:70219 original size:19 final size:19
Alignment explanation
Indices: 70175--70236 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
70165 TTCAACCGGT
*
70175 TCTG-ACCGGTTTCGACCGG
1 TCTGAACCGGTTT-GACCGA
70194 T-TCGAACCGGTTTGACCGA
1 TCT-GAACCGGTTTGACCGA
*
70213 TCTGAACTGGTTTGACCGA
1 TCTGAACCGGTTTGACCGA
70232 TCTGA
1 TCTGA
70237 CCCGACCGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 1 0.03
19 28 0.74
20 9 0.24
ACGTcount: A:0.18, C:0.26, G:0.27, T:0.29
Consensus pattern (19 bp):
TCTGAACCGGTTTGACCGA
Found at i:70254 original size:5 final size:5
Alignment explanation
Indices: 70235--70288 Score: 67
Period size: 5 Copynumber: 10.8 Consensus size: 5
70225 TGACCGATCT
*
70235 GACCC GA-CC GA-CC GACCC GACCC GACCC GACCGTT GACCC GACCC GACCC
1 GACCC GACCC GACCC GACCC GACCC GACCC GACC--C GACCC GACCC GACCC
70285 GACC
1 GACC
70289 ATTGACCGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
4 8 0.18
5 32 0.73
7 4 0.09
ACGTcount: A:0.20, C:0.54, G:0.22, T:0.04
Consensus pattern (5 bp):
GACCC
Found at i:70276 original size:22 final size:22
Alignment explanation
Indices: 70248--70295 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
70238 CCGACCGACC
*
70248 GACCCGACCCGACCCGACCGTT
1 GACCCGACCCGACCCGACCATT
70270 GACCCGACCCGACCCGACCATT
1 GACCCGACCCGACCCGACCATT
70292 GACC
1 GACC
70296 GTTGACTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.08
Consensus pattern (22 bp):
GACCCGACCCGACCCGACCATT
Found at i:77567 original size:27 final size:26
Alignment explanation
Indices: 77518--77585 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 26
77508 TTGACCGATC
*
77518 TGACCCGACCGACCCGACTCGACCAT
1 TGACCCGACCGACCCGACCCGACCAT
*
77544 TGACCCGACTCGACTCGACCCGACCAT
1 TGACCCGAC-CGACCCGACCCGACCAT
77571 TGACCCGACCCGACC
1 TGACCCGA-CCGACC
77586 GTTGACCGTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 9 0.24
27 27 0.73
28 1 0.03
ACGTcount: A:0.22, C:0.47, G:0.19, T:0.12
Consensus pattern (26 bp):
TGACCCGACCGACCCGACCCGACCAT
Found at i:77581 original size:17 final size:17
Alignment explanation
Indices: 77559--77592 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
77549 CGACTCGACT
77559 CGACCCGACCATTGACC
1 CGACCCGACCATTGACC
*
77576 CGACCCGACCGTTGACC
1 CGACCCGACCATTGACC
77593 GTTGACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.47, G:0.21, T:0.12
Consensus pattern (17 bp):
CGACCCGACCATTGACC
Found at i:77592 original size:12 final size:12
Alignment explanation
Indices: 77537--77580 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
77527 CGACCCGACT
77537 CGACCATTGACC
1 CGACCATTGACC
*
77549 CGACTCGACTCGACC
1 CGAC-C-A-TTGACC
77564 CGACCATTGACC
1 CGACCATTGACC
77576 CGACC
1 CGACC
77581 CGACCGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 14 0.52
13 2 0.07
14 2 0.07
15 9 0.33
ACGTcount: A:0.23, C:0.45, G:0.18, T:0.14
Consensus pattern (12 bp):
CGACCATTGACC
Found at i:83939 original size:21 final size:21
Alignment explanation
Indices: 83915--83959 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
83905 ATTATAAATA
*
83915 TTTATAATATTTTAAT-ATTAT
1 TTTATAATAATTTAATGATT-T
*
83936 TTTATTATAATTTAATGATTT
1 TTTATAATAATTTAATGATTT
83957 TTT
1 TTT
83960 GTGATCATAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 18 0.86
22 3 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
TTTATAATAATTTAATGATTT
Found at i:84012 original size:19 final size:17
Alignment explanation
Indices: 83983--84023 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
83973 ATACATAATA
83983 TATATATATATATATTT
1 TATATATATATATATTT
84000 TCATATCATATATATATTT
1 T-ATAT-ATATATATATTT
84019 TATAT
1 TATAT
84024 TTTTTCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 1 0.05
18 8 0.36
19 13 0.59
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.56
Consensus pattern (17 bp):
TATATATATATATATTT
Found at i:84031 original size:23 final size:26
Alignment explanation
Indices: 83980--84048 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
83970 ATAATACATA
83980 ATATATATATATATATATTTTCATATC
1 ATATATATATATATATATTTT-ATATC
*
84007 ATATATATAT-TTTATATTTT-T-TC
1 ATATATATATATATATATTTTATATC
* *
84030 ATATGTTATATACATATAT
1 ATAT-ATATATATATATAT
84049 CATATAGACT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
23 6 0.17
24 6 0.17
25 5 0.14
26 9 0.25
27 10 0.28
ACGTcount: A:0.38, C:0.06, G:0.01, T:0.55
Consensus pattern (26 bp):
ATATATATATATATATATTTTATATC
Found at i:84039 original size:28 final size:29
Alignment explanation
Indices: 83980--84054 Score: 89
Period size: 28 Copynumber: 2.6 Consensus size: 29
83970 ATAATACATA
83980 ATATATATATATATATATTTTCATATCAT
1 ATATATATATATATATATTTTCATATCAT
* * **
84009 ATATATAT-TTTATATTTTTTCATATGTT
1 ATATATATATATATATATTTTCATATCAT
*
84037 ATATACATATATCATATA
1 ATATATATATAT-ATATA
84055 GACTCCAACT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
28 23 0.62
29 10 0.27
30 4 0.11
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (29 bp):
ATATATATATATATATATTTTCATATCAT
Found at i:86946 original size:71 final size:73
Alignment explanation
Indices: 86818--86965 Score: 210
Period size: 71 Copynumber: 2.0 Consensus size: 73
86808 TCAAACTTAA
* * *
86818 TGTCAACAATAAAGAATTGTGCAGAAGCTACAAGAAACACGTGGCAACATGTGACAATTATCAAG
1 TGTCAACAAAAAAGAATTGTGCAGAAG----AAGAAACACGTGGCAACACGTGACAATTATCAAA
86883 GATTCAAGGCGG
62 GATTCAAGGCGG
*
86895 TGTCAACAAAAAAGAATTGTGCAG-AG-AGAAACATGTGGCAACACGTGACAATTATCAAAGATT
1 TGTCAACAAAAAAGAATTGTGCAGAAGAAGAAACACGTGGCAACACGTGACAATTATCAAAGATT
86958 CAAGGCGG
66 CAAGGCGG
86966 CGAACAGGTG
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
71 42 0.63
76 2 0.03
77 23 0.34
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (73 bp):
TGTCAACAAAAAAGAATTGTGCAGAAGAAGAAACACGTGGCAACACGTGACAATTATCAAAGATT
CAAGGCGG
Found at i:87093 original size:20 final size:21
Alignment explanation
Indices: 87060--87099 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
87050 TGATAAAGTA
* *
87060 TTATTTAAATTATT-ATTTTT
1 TTATTAAAAATATTAATTTTT
87080 TTATTAAAAATATTAATTTT
1 TTATTAAAAATATTAATTTT
87100 ACAATTTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTAAAAATATTAATTTTT
Found at i:89265 original size:2 final size:2
Alignment explanation
Indices: 89258--89299 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
89248 GTACTAAACA
89258 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
89300 TGATTTGATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:90818 original size:64 final size:63
Alignment explanation
Indices: 90741--90958 Score: 201
Period size: 64 Copynumber: 3.4 Consensus size: 63
90731 AATGTGCACT
** *
90741 GATGCATTGGTAGTGCATCGATGCACTCTTTTAA-AATAAATACATCGAATGCAATTCATGCATC
1 GATGCATAAGTAGTGCATCGATGCA-TC-TTTAACAATAAATACATCGAATACAATTCATGCATC
* * * * *
90805 GATGCATAAGTAGTGCATCGATGCATCCTATTAATAGTGAA-ACATCGAATCCAA-TCGGTGCAT
1 GATGCATAAGTAGTGCATCGATGCAT-CT-TTAACAATAAATACATCGAATACAATTC-ATGCAT
90868 C
63 C
* ** ** * *
90869 GATGCATAAGGAGTGCATCGATGCATC-CCAACAATAATACTACATCGAATACCTTTTATGCACC
1 GATGCATAAGTAGTGCATCGATGCATCTTTAACAATAA-A-TACATCGAATACAATTCATGCATC
*
90933 GATGCATCAGTAGTGCATCGATGCAT
1 GATGCATAAGTAGTGCATCGATGCAT
90959 ACCTTCATTA
Statistics
Matches: 126, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
61 5 0.04
62 1 0.01
63 5 0.04
64 110 0.87
65 5 0.04
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.28
Consensus pattern (63 bp):
GATGCATAAGTAGTGCATCGATGCATCTTTAACAATAAATACATCGAATACAATTCATGCATC
Found at i:91284 original size:12 final size:12
Alignment explanation
Indices: 91266--91301 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
91256 TATATATGTT
91266 CATGTGATATGA
1 CATGTGATATGA
*
91278 TATGTGATATGA
1 CATGTGATATGA
*
91290 CATGCGATATGA
1 CATGTGATATGA
91302 GAACATGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.25, T:0.33
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:91346 original size:29 final size:28
Alignment explanation
Indices: 91313--91390 Score: 129
Period size: 29 Copynumber: 2.7 Consensus size: 28
91303 AACATGATAT
*
91313 GAAATGACTTGAGTTACATGATCACAAGA
1 GAAATGACATGAG-TACATGATCACAAGA
91342 GAAATGACATGAGCTACATGATCACAAGA
1 GAAATGACATGAG-TACATGATCACAAGA
91371 GAAATGACATGAGTACATGA
1 GAAATGACATGAGTACATGA
91391 ACATATAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
28 7 0.15
29 40 0.85
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.21
Consensus pattern (28 bp):
GAAATGACATGAGTACATGATCACAAGA
Found at i:98386 original size:64 final size:64
Alignment explanation
Indices: 98333--98495 Score: 211
Period size: 65 Copynumber: 2.5 Consensus size: 64
98323 CGGTGCACCA
*
98333 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * * **
98397 CTTGTGCATCGATGCATCAAATGTATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
98462 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
98496 CAATTAATTC
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
64 38 0.46
65 45 0.54
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:98467 original size:19 final size:19
Alignment explanation
Indices: 98443--98493 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
98433 GAAAATATTC
98443 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
98462 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
98481 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
98494 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:99172 original size:17 final size:17
Alignment explanation
Indices: 99150--99193 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
99140 AATAGTCAAG
*
99150 CATCCAAATATCATAAA
1 CATCCAAATAACATAAA
*
99167 CATCCAAACAAACATAAA
1 CATCCAAA-TAACATAAA
99185 CATCCAAAT
1 CATCCAAAT
99194 CAAAAAGTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.55, C:0.27, G:0.00, T:0.18
Consensus pattern (17 bp):
CATCCAAATAACATAAA
Found at i:99184 original size:18 final size:19
Alignment explanation
Indices: 99161--99197 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
99151 ATCCAAATAT
99161 CATAAACATCCAAA-CAAA
1 CATAAACATCCAAATCAAA
99179 CATAAACATCCAAATCAAA
1 CATAAACATCCAAATCAAA
99198 AAGTTTAACA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.59, C:0.27, G:0.00, T:0.14
Consensus pattern (19 bp):
CATAAACATCCAAATCAAA
Found at i:106984 original size:64 final size:64
Alignment explanation
Indices: 106931--107093 Score: 220
Period size: 65 Copynumber: 2.5 Consensus size: 64
106921 CGGTGCACCA
*
106931 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCCAGAGTGCATCGATGCATGG
** * **
106995 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
107060 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
107094 CAATTAATTC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 39 0.46
65 46 0.54
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:107065 original size:19 final size:19
Alignment explanation
Indices: 107041--107091 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
107031 GAAAATATTC
107041 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
107060 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
107079 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
107092 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:107133 original size:65 final size:65
Alignment explanation
Indices: 106935--107142 Score: 207
Period size: 65 Copynumber: 3.2 Consensus size: 65
106925 GCACCAAGTG
* * ** *
106935 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCCTG-GTGCATCGATGCATGG-CTT
1 TGCATCGGTGCATGAAATGCATTCGATGTTT-CAAAATATTCAGAGTGCATCGATGCATGGAC-T
106998 G-
64 GA
* * *
106999 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
107062 A
65 A
* *
107063 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATTGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
107125 CTGA
62 CTGA
107129 TGCATCGGTGCATG
1 TGCATCGGTGCATG
107143 CATTTGAATA
Statistics
Matches: 124, Mismatches: 10, Indels: 19
0.81 0.07 0.12
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 51 0.41
65 60 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:107519 original size:19 final size:19
Alignment explanation
Indices: 107495--107546 Score: 104
Period size: 19 Copynumber: 2.7 Consensus size: 19
107485 AATGCAATCG
107495 GTGCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGGA
107514 GTGCATCGATGCATAAGGA
1 GTGCATCGATGCATAAGGA
107533 GTGCATCGATGCAT
1 GTGCATCGATGCAT
107547 CCCAGCAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (19 bp):
GTGCATCGATGCATAAGGA
Found at i:107588 original size:83 final size:83
Alignment explanation
Indices: 107432--107611 Score: 209
Period size: 83 Copynumber: 2.2 Consensus size: 83
107422 ATGCAATTCA
* * ** * * *
107432 TGCATCGATGCATAAGTAGTGCATCGATGCATCCTATTAATAGTGAAACATCGAATGCAATCGGT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATGAAACATCGAATACAATCGAT
*
107497 GCATCGATGCATAAGGAG
66 GCACCGATGCATAAGGAG
* ** **
107515 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAAT-ACTACATCGAATACCTTTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATGA-AACATCGAATACAATCGA
* *
107579 TGCACCGATGCATCAGTAG
65 TGCACCGATGCATAAGGAG
107598 TGCATCGATGCATA
1 TGCATCGATGCATA
107612 CCTTCATTAA
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
82 1 0.01
83 80 0.99
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.26
Consensus pattern (83 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATGAAACATCGAATACAATCGAT
GCACCGATGCATAAGGAG
Found at i:107936 original size:12 final size:12
Alignment explanation
Indices: 107918--107953 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
107908 TATATATGTT
107918 CATGTGATATGA
1 CATGTGATATGA
*
107930 TATGTGATATGA
1 CATGTGATATGA
107942 CATGTGATATGA
1 CATGTGATATGA
107954 GAACATGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (12 bp):
CATGTGATATGA
Found at i:108001 original size:29 final size:28
Alignment explanation
Indices: 107965--108042 Score: 138
Period size: 29 Copynumber: 2.7 Consensus size: 28
107955 AACATGATAT
107965 GAAATGACATGAGTTACATGATCACAAGA
1 GAAATGACATGAG-TACATGATCACAAGA
107994 GAAATGACATGAGCTACATGATCACAAGA
1 GAAATGACATGAG-TACATGATCACAAGA
108023 GAAATGACATGAGTACATGA
1 GAAATGACATGAGTACATGA
108043 ACATATGAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
28 7 0.15
29 41 0.85
ACGTcount: A:0.45, C:0.14, G:0.22, T:0.19
Consensus pattern (28 bp):
GAAATGACATGAGTACATGATCACAAGA
Found at i:108248 original size:15 final size:15
Alignment explanation
Indices: 108228--108259 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
108218 CTTAAGGAGA
108228 AGTCCTTCGGGACGT
1 AGTCCTTCGGGACGT
*
108243 AGTCCTTCGGGATGT
1 AGTCCTTCGGGACGT
108258 AG
1 AG
108260 GAGTCCTACG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.22, G:0.34, T:0.28
Consensus pattern (15 bp):
AGTCCTTCGGGACGT
Found at i:110719 original size:12 final size:12
Alignment explanation
Indices: 110704--110738 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
110694 GAACCTGGAT
110704 TATCACCTTTTG
1 TATCACCTTTTG
*
110716 TATCACCTTTAG
1 TATCACCTTTTG
*
110728 CATCACCTTTT
1 TATCACCTTTT
110739 CCACTACCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.20, C:0.29, G:0.06, T:0.46
Consensus pattern (12 bp):
TATCACCTTTTG
Found at i:111090 original size:24 final size:22
Alignment explanation
Indices: 111046--111094 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 22
111036 ATTCAAACCA
111046 AAATCATATAAAAATCATTTAGT
1 AAATCATATAAAAATCATTTA-T
*
111069 AAATCAGTATAAAGAT-ATTTTAT
1 AAATCA-TATAAAAATCA-TTTAT
111092 AAA
1 AAA
111095 ATAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (22 bp):
AAATCATATAAAAATCATTTAT
Found at i:115377 original size:6 final size:6
Alignment explanation
Indices: 115366--115398 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
115356 AAGTATAGGG
*
115366 TCCAAT TCCAAT TTCAAT TCCAAT TCCAAT TCC
1 TCCAAT TCCAAT TCCAAT TCCAAT TCCAAT TCC
115399 GACTCTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (6 bp):
TCCAAT
Found at i:116304 original size:2 final size:2
Alignment explanation
Indices: 116297--116322 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
116287 TATTTTGAGC
116297 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
116323 CATAAAAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123352 original size:15 final size:15
Alignment explanation
Indices: 123332--123362 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
123322 CTTATTTTTT
123332 AATCTAATAAATAAA
1 AATCTAATAAATAAA
*
123347 AATCTATTAAATAAA
1 AATCTAATAAATAAA
123362 A
1 A
123363 TAAAACATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AATCTAATAAATAAA
Found at i:124992 original size:23 final size:23
Alignment explanation
Indices: 124965--125037 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
124955 ATACTTTATA
**
124965 ATATAAGCATTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
*
124988 ATATAAACGCTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
125011 ATATAAGTGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
125034 ATAT
1 ATAT
125038 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:125127 original size:489 final size:489
Alignment explanation
Indices: 124520--126735 Score: 3774
Period size: 489 Copynumber: 4.6 Consensus size: 489
124510 ATATTTTACA
* * *
124520 ATATAAGCGCTACCTATTACATTATATTTTTACCTGA-TATATTGTAAAGTATCGATCCTTTTTA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCT-ATTATATTG-AAAGTATCAATACTTTTTA
* *
124584 TAAAAAGGATCGATATTTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGCGTTT
64 TAAAAAGGATCGATA-CTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTT
* *
124649 CATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTT
128 CATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTT
* *
124714 GATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAAGATAATAATAAATA
193 GATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATA
124779 TGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATC
258 TGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATC
*
124844 ATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTTAAAAGATAACCTTAAATTAAT
323 ATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAAT
* * * *
124909 GTTTTCTACAGTAAAAAAAATATGGACACTTTTATAAAAAGGATAGATACTTTATAATATAAGCA
388 GTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCA
*
124974 TTACCTATTACATTATATAAACGCTACCTATTACATT
453 CTACCTATTACATTATATAAACGCTACCTATTACATT
* * *
125011 ATATAAGTGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATACTTTTTATA
*
125076 AAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
66 AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
125141 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
131 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
125206 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
196 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
*
125271 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATTATT
261 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
*
125336 AGACGA-CTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACTTTAAATTAATGT
326 AGAC-ACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGT
*
125400 TTTCCAAAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAG----
390 TTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACT
125461 --------C---------A--CTACCTATTACATT
455 ACCTATTACATTATATAAACGCTACCTATTACATT
*
125477 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAATATCAATACTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATACTTTTTATA
*
125542 AAAAGTATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
66 AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
* *
125607 ATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGAT
131 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
125672 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
196 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
125737 -A-ATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA-CGTAACGTAAAAAATAAATCA-T
261 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
* *
125796 AGACGCCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
326 AGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
*
125861 TTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
391 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
*
125926 CCTATTACATTATATAAACGCTACCTATTATATT
456 CCTATTACATTATATAAACGCTACCTATTACATT
*
125960 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATATTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATACTTTTTATA
126025 AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
66 AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
* *
126090 ATTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
131 GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
126155 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
196 ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
* *
126220 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAATAAATCAAT
261 AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
*
126285 AGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
326 AGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
* *
126350 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGATAGATACTTTACAACATAAGCACTA
391 TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
*
126415 CCTATTACATTATATAAACACTACCTATTACATT
456 CCTATTACATTATATAAACGCTACCTATTACATT
* *
126449 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATA
1 ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATACTTTTTATA
*
126514 GAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCA
66 AAAAGGATCGATACTTTTTTT-AAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCA
*
126579 TGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTTGA
130 TGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGA
*
126644 TATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATG
195 TATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATG
126709 TAATATATATGTTTATTGTTTTTAATT
260 TAATATATATGTTTATTGTTTTTAATT
126736 ATTGGTTTTG
Statistics
Matches: 1638, Mismatches: 54, Indels: 67
0.93 0.03 0.04
Matches are distributed among these distances:
460 120 0.07
461 20 0.01
462 5 0.00
463 1 0.00
464 30 0.02
465 1 0.00
466 266 0.16
468 1 0.00
472 1 0.00
477 1 0.00
481 1 0.00
483 268 0.16
484 1 0.00
485 30 0.02
486 1 0.00
487 5 0.00
488 21 0.01
489 597 0.36
490 228 0.14
491 40 0.02
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.42
Consensus pattern (489 bp):
ATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATACTTTTTATA
AAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCAT
GTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGAT
ATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGT
AATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATT
AGACACCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTT
TTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATATAAGCACTA
CCTATTACATTATATAAACGCTACCTATTACATT
Found at i:125484 original size:23 final size:23
Alignment explanation
Indices: 125454--125503 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
125444 ATACTTTACA
*
125454 ATATAAGCACTACCTATTACATT
1 ATATAAGCACTACCTATTACATC
*
125477 ATATAAGCGCTACCTATTACATC
1 ATATAAGCACTACCTATTACATC
125500 ATAT
1 ATAT
125504 TTTTACCTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (23 bp):
ATATAAGCACTACCTATTACATC
Found at i:125555 original size:22 final size:21
Alignment explanation
Indices: 125521--125565 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
125511 TATTATATTG
125521 AAAATATCAATACTTTTTATA
1 AAAATATCAATACTTTTTATA
* *
125542 AAAAGTATCGATACTTTTTTTA
1 AAAA-TATCAATACTTTTTATA
125564 AA
1 AA
125566 GTTATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (21 bp):
AAAATATCAATACTTTTTATA
Found at i:125949 original size:23 final size:23
Alignment explanation
Indices: 125914--125986 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
125904 ATACTTTACA
*
125914 ATATAAGCACTACCTATTACATT
1 ATATAAGCGCTACCTATTACATT
* *
125937 ATATAAACGCTACCTATTATATT
1 ATATAAGCGCTACCTATTACATT
*
125960 ATATAAGCGCTACCTATTACATC
1 ATATAAGCGCTACCTATTACATT
125983 ATAT
1 ATAT
125987 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAGCGCTACCTATTACATT
Found at i:126108 original size:949 final size:953
Alignment explanation
Indices: 124134--126735 Score: 4195
Period size: 949 Copynumber: 2.7 Consensus size: 953
124124 GTGTCTACAC
*
124134 TTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTTAA-TTTTTTAATA
1 TTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
* * * * *
124198 GTATTTCATGTTTTCAACCTATAATATTAATTTAATAATTTTATTTGTACAAAAAATTATTTGAT
66 GTGTTTCATTTTTTC-ACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGAT
*
124263 TGTTTTGATATTTTATAAAATAATATTTAGAAATTAAATTTAACAATATTAACCAAAGATAATAA
130 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
* * * *
124328 TAAATATGTAATATATATGCTTATTATTTTTAATTTAATGATAATATATACCGTAACATAAAAAA
195 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAA
* *
124393 TAAATCATTAGA-TACATATAATTACTAAATTAATATCTTAAAACTCACTCAGAAGATAACCTTA
260 TAAATCATTAGACGAC-TATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTA
* *
124457 AATTAATGTTTTCCACAGTGAAATAAGTATGGACACTTCTATAAAAAGGATAG------------
324 AATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAAT
*
124510 AT---A-T---T-TTACA--ATATAAGCGCTACCTATTACATTATATTTTTACCTGA-TATATTG
389 ATAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCT-ATTATATTG
* * *
124564 TAAAGTATCGATCCTTTTTATAAAAAGGATCGATATTTTTTTTTAAAGTTATGTAATTTATGTTT
453 -AAAGTATCAATACTTTTTATAAAAAGGATCGATA-CTTTTTTTAAAGTTATGTAATTTATGTTT
* *
124629 CAATTTTTTTAATAGCGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACACA
516 CAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
* *
124694 AAAAATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTA
581 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
124759 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
646 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAC
* *
124824 CGTAACGTAAAAAATAAATCATTAGACACCTATAATTACTAAATTAATATCTTAAAACTCACTTA
711 CGTAACGTAAAAAATAAATCATTAGACACCAATAATTACTAAATTAATATCTTAAAACTCACTCA
* *
124889 AAAGATAACCTTAAATTAATGTTTTCTACAGTAAAAAAAATATGGACACTTTTATAAAAAGGATA
776 AAAGATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAATATGAACACTTTTATAAAAAGGATA
* * *
124954 GATACTTTATAATATAAGCATTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGT
841 GATACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGC
* *
125019 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTGTCCATA
906 GCTACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATA
* *
125067 CTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1 TTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
*
125132 GTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGAT
66 GTGTTTCAT-TTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGAT
125197 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
130 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
125262 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAA
195 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAA
* *
125327 TAAATTATTAGACGACTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACTTTAA
260 TAAATCATTAGACGACTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
*
125392 ATTAATGTTTTCCAAAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATA
325 ATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATA
125457 TAAGCACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGA
390 TAA-CACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGA
* *
125522 AAATATCAATACTTTTTATAAAAAGTATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA
454 AAGTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA
*
125587 TTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
519 TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAA
125652 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACC
584 AATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACC
125717 AAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA-CGT
649 AAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGT
*
125777 AACGTAAAAAATAAATCA-TAGACGCCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
714 AACGTAAAAAATAAATCATTAGACACCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
* *
125841 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGAT
779 GATAACCTTAAATTAATGTTTTCCACAGTAAAAAAAATATGAACACTTTTATAAAAAGGATAGAT
*
125906 ACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTATATTATATAAGCGCT
844 ACTTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCT
125971 ACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATA
909 ACCTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATA
*
126016 TTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
1 TTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
126081 GTGTTTCATATTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGAT
66 GTGTTTCAT-TTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGAT
126146 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
130 TGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAA
*
126211 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATATCGTAACGTAAAAAA
195 TAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAA
* *
126276 TAAATCAATAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
260 TAAATCATTAGACGACTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAA
126341 ATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGATAGATACTTTACAACA
325 ATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTAT-AAAAAG---G------------A
126406 TAAGCACTACCTATTACATTATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACAT
374 T-AG-A-TA-CT-TTACA--ATAT-AACACTACCTATTACATTATATAAGCGCTACCTATTACAT
* * *
126471 CATATTTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAGAAAGGATCGATACTTTTTTTA
431 CATATTTTTACCTATTATATTGAAAGTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTT-
126536 AAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
495 AAAGTTATGTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAA
* *
126601 TTTAATAATTTCATTTGCACAAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAG
560 TTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAG
*
126666 AATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTT
625 AATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTT
126731 TAATT
690 TAATT
126736 ATTGGTTTTG
Statistics
Matches: 1551, Mismatches: 64, Indels: 66
0.92 0.04 0.04
Matches are distributed among these distances:
933 51 0.03
934 296 0.19
935 6 0.00
946 2 0.00
949 564 0.36
950 28 0.02
951 6 0.00
952 1 0.00
953 31 0.02
954 2 0.00
955 181 0.12
956 31 0.02
957 41 0.03
965 2 0.00
966 2 0.00
967 1 0.00
968 2 0.00
969 2 0.00
970 5 0.00
972 101 0.07
973 172 0.11
974 1 0.00
975 23 0.01
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.42
Consensus pattern (953 bp):
TTTTTTATAAAAAAGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTAATA
GTGTTTCATTTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACAAAAAATTATTTGATT
GTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAAT
AAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAAT
AAATCATTAGACGACTATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAA
TTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGATACTTTACAATAT
AACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATATTGAAA
GTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAA
TTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTAACCAA
AGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATACCGTAA
CGTAAAAAATAAATCATTAGACACCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGA
TAACCTTAAATTAATGTTTTCCACAGTAAAAAAAATATGAACACTTTTATAAAAAGGATAGATAC
TTTACAATATAAGCACTACCTATTACATTATATAAACGCTACCTATTACATTATATAAGCGCTAC
CTATTACATCATATTTTTACCTATTATATTGAAAGTATCAATA
Found at i:126436 original size:23 final size:23
Alignment explanation
Indices: 126405--126475 Score: 115
Period size: 23 Copynumber: 3.1 Consensus size: 23
126395 ACTTTACAAC
126405 ATAAGCACTACCTATTACATTAT
1 ATAAGCACTACCTATTACATTAT
*
126428 ATAAACACTACCTATTACATTAT
1 ATAAGCACTACCTATTACATTAT
* *
126451 ATAAGCGCTACCTATTACATCAT
1 ATAAGCACTACCTATTACATTAT
126474 AT
1 AT
126476 TTTTACCTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (23 bp):
ATAAGCACTACCTATTACATTAT
Found at i:126518 original size:22 final size:23
Alignment explanation
Indices: 126492--126540 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
126482 CTATTATATT
126492 GAAAGTG-TCCATACTTTTTATA
1 GAAAGTGATCCATACTTTTTATA
* *
126514 GAAAG-GATCGATACTTTTTTTA
1 GAAAGTGATCCATACTTTTTATA
126536 -AAAGT
1 GAAAGT
126541 TATGTAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (23 bp):
GAAAGTGATCCATACTTTTTATA
Found at i:126644 original size:490 final size:485
Alignment explanation
Indices: 125454--126735 Score: 2343
Period size: 483 Copynumber: 2.6 Consensus size: 485
125444 ATACTTTACA
*
125454 ATATAAGCACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
1 ATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
* *
125519 TGAAAATATCAATACTTTTTATAAAAAGTATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
66 TGAAAGTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
*
125584 CAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTACACA
131 CAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
125649 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
196 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
125714 ACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAATTTAATAATAATATACGT
261 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATACGT
125777 AACGTAAAAAATAAATCATAGACGCCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
326 AACGTAAAAAATAAATCATAGACGCCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
*
125842 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAGGATAGATA
391 ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAAGATAGATA
*
125907 CTTTACAATATAAGCACTACCTATTACATT
456 CTTTACAACATAAGCACTACCTATTACATT
* *
125937 ATATAAACGCTACCTATTATATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
1 ATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
*
126002 TGAAAGTATCAATATTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
66 TGAAAGTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
*
126067 CAATTTTTTTAATAGTGTTTCATATTTTTCACCTACAATATTAATTTAATAATTTCATTTGCACA
131 CAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
126132 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
196 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
126197 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATATAT
261 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAAT-A-ATATA-
*
126262 CGTAACGTAAAAAATAAATCAATAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCA
323 CGTAACGTAAAAAATAAATC-ATAGACGCCAATAATTACTAAATTAATATCTTAAAACTCACTCA
*
126327 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAAGATA
387 AAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAAGATA
126392 GATACTTTACAACATAAGCACTACCTATTACATT
452 GATACTTTACAACATAAGCACTACCTATTACATT
126426 ATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
1 ATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
* * *
126491 TGAAAGTGTCCATACTTTTTATAGAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTT
66 TGAAAGTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTT-AAAGTTATGTAATTTATGTT
*
126556 TCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
130 TCAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
*
126621 AAAAAATTATTTGATTATTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
195 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATT
*
126686 AACCAAATATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATT
260 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATT
126736 ATTGGTTTTG
Statistics
Matches: 770, Mismatches: 22, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
483 275 0.36
484 1 0.00
485 30 0.04
486 1 0.00
487 5 0.01
488 20 0.03
489 242 0.31
490 196 0.25
ACGTcount: A:0.40, C:0.11, G:0.07, T:0.41
Consensus pattern (485 bp):
ATATAAACACTACCTATTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTATTATAT
TGAAAGTATCAATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
CAATTTTTTTAATAGTGTTTCATATTTTCCACCTACAATATTAATTTAATAATTTCATTTGCACA
AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAATTTAATAATAATATACGT
AACGTAAAAAATAAATCATAGACGCCAATAATTACTAAATTAATATCTTAAAACTCACTCAAAAG
ATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTTTTATAAAAAAGATAGATA
CTTTACAACATAAGCACTACCTATTACATT
Found at i:129588 original size:120 final size:120
Alignment explanation
Indices: 129375--129619 Score: 418
Period size: 120 Copynumber: 2.0 Consensus size: 120
129365 TTTTTCTTCC
* *
129375 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCACT
*
129440 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATCTAGTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATATAGTACATTATA
* *
129495 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGATATATGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCACT
* * *
129560 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATATATTACATTATA
66 AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATATAGTACATTATA
129615 ATTCT
1 ATTCT
129620 AGGTTCCGAT
Statistics
Matches: 117, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.39, C:0.15, G:0.13, T:0.33
Consensus pattern (120 bp):
ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGACATAGGTTGTAGACCTATTCACT
AATAAAACCGGTATACTTATACCGGTTATATTACAAAATTATATAGTACATTATA
Found at i:129757 original size:303 final size:303
Alignment explanation
Indices: 129210--129804 Score: 1091
Period size: 303 Copynumber: 2.0 Consensus size: 303
129200 TTAAAATTAG
* *
129210 CGACACAATATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
* *
129275 ATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTAGGTTCCGATGTGTAAATGTCGA
*
129340 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
*
129405 AAAAAGTGTTGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
129470 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
261 TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
*
129513 CGACACAAAATTAAAAAGTGTTGATATATGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
1 CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
129578 ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTAGGTTCCGATGTGTAAATGTCGA
66 ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTAGGTTCCGATGTGTAAATGTCGA
129643 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
131 CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
* * *
129708 AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTTATA
196 AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
*
129773 TTACAAAATTATCTATTACATTATAATTCTGG
261 TTACAAAATTATCTAGTACATTATAATTCTGG
129805 GTTCCGATGT
Statistics
Matches: 281, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
303 281 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (303 bp):
CGACACAAAATTAAAAAGTGTTGATATAGGTTGTAGACCTATTCACTCATAAAACCGGTATATTT
ATACCGGTTATATTACAAAATTATATATTACATTATAATTCTAGGTTCCGATGTGTAAATGTCGA
CACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTATGGACATAAAGTACCGACACAATATT
AAAAAGTGTCGACATAGGTTGTAGACCTATTCGCTAATAAAACCGGTATACTTATACCGGTTATA
TTACAAAATTATCTAGTACATTATAATTCTGGACATAAAGTAC
Found at i:129810 original size:183 final size:183
Alignment explanation
Indices: 129495--130083 Score: 1020
Period size: 183 Copynumber: 3.2 Consensus size: 183
129485 GTACATTATA
* * * *
129495 ATTCTGGACATAAAGTACCGACACAAAATTAAAAAGTGTTGATATATGTTGTAGACCTATTCACT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* *
129560 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATATATTACATTATAATTCTAGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
129625 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
*
129678 ATTATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
129743 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
129808 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
131 CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
129861 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
* * *
129926 CATAAAACCGGCATATTTATACCGATTATATTACAAAATTATCTATTACATTATAATTATGGGTT
66 CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
* * *
129991 CCGATGTTTTTTCAA--TCGACACTTTTTGAAAAGGTATCGACACATTTTTCTTCC
131 CCGATG---TGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
130045 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
1 ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGT
130084 GAAAACTTTG
Statistics
Matches: 389, Mismatches: 14, Indels: 5
0.95 0.03 0.01
Matches are distributed among these distances:
183 308 0.79
184 77 0.20
186 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (183 bp):
ATTCTGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCT
CATAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTT
CCGATGTGTAAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCC
Found at i:133094 original size:200 final size:200
Alignment explanation
Indices: 132743--133506 Score: 1341
Period size: 200 Copynumber: 3.8 Consensus size: 200
132733 AACATTAAAC
* * * * *
132743 AGTGTCGATACA-TATTATATACCAATTCTCCCATAAAACTGGTATACTTATACCGGTTAGATTG
1 AGTGTCGATACATTATT-TAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTG
* *
132807 AAAAATTACCTAATACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
65 AAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATAT
*
132872 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAATTATCGACACAAAC
130 GGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAAC
132937 TACAAA
195 TACAAA
*
132943 AGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
133008 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
* * *
133073 GATCGACATTTTATTGTTGCACCCTGTTTGCCATTCATTCAGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
133138 ACAAA
196 ACAAA
133143 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
133208 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATCGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
133273 GATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
133338 ACAAA
196 ACAAA
* * *
133343 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTATCGATTAGATTAA
1 AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
*
133408 AAAATTACCTATTACATTATACTTTTGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
66 AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
*
133473 GATCGACACTTTATGGTTGCACCTTGTTTGCCAT
131 GATCGACACTTTATGGTTGCACCCTGTTTGCCAT
133507 ATTGTAAATT
Statistics
Matches: 540, Mismatches: 23, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
200 536 0.99
201 4 0.01
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.36
Consensus pattern (200 bp):
AGTGTCGATACATTATTTAGACCTATTCTCTCATAAAACCGGTATACTTGTACCGGTTAGATTGA
AAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGGGATCGACACTTTTTATATATG
GATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGACCAAAAATATCGACACAAACT
ACAAA
Found at i:133750 original size:18 final size:18
Alignment explanation
Indices: 133727--133787 Score: 59
Period size: 19 Copynumber: 3.3 Consensus size: 18
133717 TCTCATTAAT
*
133727 AATTATATTCACATACAA
1 AATTATAATCACATACAA
**
133745 AATTATAAATCGTATACAA
1 AATTAT-AATCACATACAA
**
133764 AATTATAAATCTTATACAA
1 AATTAT-AATCACATACAA
133783 AATTA
1 AATTA
133788 ACCTTACATT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
18 6 0.16
19 32 0.84
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.34
Consensus pattern (18 bp):
AATTATAATCACATACAA
Found at i:133763 original size:19 final size:19
Alignment explanation
Indices: 133739--133787 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
133729 TTATATTCAC
133739 ATACAAAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
133758 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
133777 ATACAAAATTA
1 ATACAAAATTA
133788 ACCTTACATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:135700 original size:21 final size:21
Alignment explanation
Indices: 135675--135739 Score: 94
Period size: 21 Copynumber: 3.1 Consensus size: 21
135665 CCCCTTATGC
* *
135675 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
135696 CTCTCAAGTTTCTCTTCGATT
1 CTCTCAAGTTTCTCTTCGACT
*
135717 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
135738 CT
1 CT
135740 TGATTGTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.17, C:0.29, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:138010 original size:20 final size:19
Alignment explanation
Indices: 137964--138010 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
137954 TCATGTATAG
*
137964 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
137983 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
138004 TTTTACC
1 TTTTACC
138011 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Done.