Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004046.1 Hibiscus syriacus cultivar Beakdansim tig00008837_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: 85984
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Found at i:2560 original size:6 final size:6
Alignment explanation
Indices: 2549--2835 Score: 348
Period size: 6 Copynumber: 49.5 Consensus size: 6
2539 ATTAAAAAAA
* * * * * *
2549 TTCTTC TTCTTC TTCTTC TTCTCC TTCTTC TCCTTC -TCTCC TTCT-C
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
*
2595 TCCT-C TTCTCC TTCTCTTC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
1 TTCTCC TTCTCC TTCTC--C TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
2644 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC -TCTCC TTCTCC TTCTCC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
2691 TTCT-C TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC --CTCC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
2736 TTCTCC -T-TCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC
* * * *
2782 TTCTCC TTCT-C TTCTTC TT-T-C TTCTTC TTCTTC TT-TCTC TTCTTC
1 TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTCC TTCTC-C TTCTCC
*
2827 TTCTTC TTC
1 TTCTCC TTC
2836 GAAGTACTTT
Statistics
Matches: 257, Mismatches: 9, Indels: 30
0.87 0.03 0.10
Matches are distributed among these distances:
4 10 0.04
5 31 0.12
6 209 0.81
7 1 0.00
8 6 0.02
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
TTCTCC
Found at i:2928 original size:20 final size:21
Alignment explanation
Indices: 2903--2945 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
2893 AATTGTGTTA
*
2903 AATTATT-CTTTTCTTTCAAC
1 AATTATTACTTTTCTTTAAAC
2923 AATTATTGACTTTTCTTTAAAC
1 AATTATT-ACTTTTCTTTAAAC
2945 A
1 A
2946 TAGTCGGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
22 13 0.65
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTATTACTTTTCTTTAAAC
Found at i:4827 original size:17 final size:17
Alignment explanation
Indices: 4798--4833 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
4788 TTTAATATTA
4798 TAATTGTAAATATTTAT
1 TAATTGTAAATATTTAT
4815 TAATT-TAAGATATTTAT
1 TAATTGTAA-ATATTTAT
4832 TA
1 TA
4834 CTTTGAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 3 0.17
17 15 0.83
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (17 bp):
TAATTGTAAATATTTAT
Found at i:5927 original size:37 final size:37
Alignment explanation
Indices: 5885--5966 Score: 137
Period size: 37 Copynumber: 2.2 Consensus size: 37
5875 AACCGATGTA
* *
5885 GATTGAACCGGATTAGGCAACGGTTCCCGGTTGAATC
1 GATTGAACCGGATTAGACAACGATTCCCGGTTGAATC
*
5922 GATTGAACCGGATTAGACAACGATTTCCGGTTGAATC
1 GATTGAACCGGATTAGACAACGATTCCCGGTTGAATC
5959 GATTGAAC
1 GATTGAAC
5967 TGACCGATCC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (37 bp):
GATTGAACCGGATTAGACAACGATTCCCGGTTGAATC
Found at i:16289 original size:16 final size:18
Alignment explanation
Indices: 16257--16291 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
16247 ATATAAAAAC
16257 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
16275 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
16291 A
1 A
16292 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:16412 original size:2 final size:2
Alignment explanation
Indices: 16399--16433 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
16389 AAAATAAGAA
*
16399 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16434 ATAACACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16935 original size:37 final size:37
Alignment explanation
Indices: 16846--16978 Score: 138
Period size: 37 Copynumber: 3.8 Consensus size: 37
16836 GTGCTTGTGG
* * * ** *
16846 ATCCTATCTTTAGGAATTTAAATAATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
16883 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
16920 ATCCTATTTTTAGGAGTTTGAATCC---TAAAA-TC-
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
16952 A---TATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
16979 GGACGAAAAA
Statistics
Matches: 84, Mismatches: 9, Indels: 11
0.81 0.09 0.11
Matches are distributed among these distances:
29 21 0.25
32 3 0.04
33 1 0.01
34 5 0.06
37 54 0.64
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:27850 original size:59 final size:59
Alignment explanation
Indices: 27758--27886 Score: 233
Period size: 59 Copynumber: 2.2 Consensus size: 59
27748 TTTGCTCTCC
27758 AAACAAATACCTAATAAAGAATCAATTATGCATACTATAATAAGACTA-CCACTTCAGTT
1 AAACAAATACCTAATAAAGAATCAATTATGCATACTATAATAAGAC-AGCCACTTCAGTT
*
27817 AAACAAATACCTAATAAAGAATCAATTATGCATACTATAATAAGGCAGCCACTTCAGTT
1 AAACAAATACCTAATAAAGAATCAATTATGCATACTATAATAAGACAGCCACTTCAGTT
27876 AAACAAATACC
1 AAACAAATACC
27887 AACAATTGAT
Statistics
Matches: 68, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
58 1 0.01
59 67 0.99
ACGTcount: A:0.48, C:0.19, G:0.08, T:0.25
Consensus pattern (59 bp):
AAACAAATACCTAATAAAGAATCAATTATGCATACTATAATAAGACAGCCACTTCAGTT
Found at i:30197 original size:11 final size:11
Alignment explanation
Indices: 30181--30205 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30171 TTGATCTCGG
30181 CTACCAAGGTT
1 CTACCAAGGTT
30192 CTACCAAGGTT
1 CTACCAAGGTT
30203 CTA
1 CTA
30206 GTTTTACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (11 bp):
CTACCAAGGTT
Found at i:34245 original size:36 final size:39
Alignment explanation
Indices: 34191--34263 Score: 98
Period size: 36 Copynumber: 1.9 Consensus size: 39
34181 ATGAGACCCG
* *
34191 ACCCAACCCAATCTAACCCGA-CTAAA-ATA-AAATTTC
1 ACCCAACCCAACCCAACCCGACCTAAATATATAAATTTC
*
34227 ACCCGACCCAACCCAACCCGACCTAAATATATAAATT
1 ACCCAACCCAACCCAACCCGACCTAAATATATAAATT
34264 AGAAACCCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 18 0.58
37 5 0.16
38 3 0.10
39 5 0.16
ACGTcount: A:0.42, C:0.36, G:0.04, T:0.18
Consensus pattern (39 bp):
ACCCAACCCAACCCAACCCGACCTAAATATATAAATTTC
Found at i:38835 original size:31 final size:31
Alignment explanation
Indices: 38797--38950 Score: 247
Period size: 31 Copynumber: 5.0 Consensus size: 31
38787 GGGTCGAGGG
38797 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
38828 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
38859 TTACCTGTGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
38890 ATACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
38921 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
38951 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:43346 original size:31 final size:31
Alignment explanation
Indices: 43308--43461 Score: 247
Period size: 31 Copynumber: 5.0 Consensus size: 31
43298 GGGTCGAGGG
43308 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
43339 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
43370 TTACCTGTGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
43401 ATACCTATGTTCTTCGGGACATATGGACTGA
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
43432 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
43462 GTCCTTCGGG
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 114 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.37
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:46863 original size:2 final size:2
Alignment explanation
Indices: 46858--46917 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
46848 AAAAATAAAG
46858 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
46900 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
46918 TTAACACTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:52339 original size:16 final size:17
Alignment explanation
Indices: 52313--52357 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
52303 ATTTTGTTAG
*
52313 TAATTTATTTAACTATT
1 TAATTTATTTAAATATT
52330 TAATTT-TTTAAATATT
1 TAATTTATTTAAATATT
* *
52346 TTATTTAATTAA
1 TAATTTATTTAA
52358 TTTTTTTTGC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TAATTTATTTAAATATT
Found at i:58699 original size:5 final size:5
Alignment explanation
Indices: 58689--58713 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
58679 GAATAATTTC
58689 TTTAA TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA
58714 ATTTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTAA
Found at i:58721 original size:7 final size:7
Alignment explanation
Indices: 58709--58735 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
58699 TTTAATTTAA
58709 TTTAAAT
1 TTTAAAT
58716 TTTAAAT
1 TTTAAAT
58723 TTTAAAT
1 TTTAAAT
58730 TTTAAA
1 TTTAAA
58736 AATTTAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
TTTAAAT
Found at i:58744 original size:14 final size:15
Alignment explanation
Indices: 58707--58747 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
58697 AATTTAATTT
58707 AATTTAAATTTT-AA
1 AATTTAAATTTTAAA
*
58721 ATTTTAAATTTTAAA
1 AATTTAAATTTTAAA
58736 AATTT-AATTTTA
1 AATTTAAATTTTA
58748 CATAAGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 18 0.75
15 6 0.25
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTTAAATTTTAAA
Found at i:59521 original size:45 final size:45
Alignment explanation
Indices: 59466--59561 Score: 183
Period size: 45 Copynumber: 2.1 Consensus size: 45
59456 ACATTGCATT
*
59466 TTTTAGTATATTAAGGGTTAGTTTGATATTATTTTTGAAAAATGA
1 TTTTAATATATTAAGGGTTAGTTTGATATTATTTTTGAAAAATGA
59511 TTTTAATATATTAAGGGTTAGTTTGATATTATTTTTGAAAAATGA
1 TTTTAATATATTAAGGGTTAGTTTGATATTATTTTTGAAAAATGA
59556 TTTTAA
1 TTTTAA
59562 AAGTGATGTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.50
Consensus pattern (45 bp):
TTTTAATATATTAAGGGTTAGTTTGATATTATTTTTGAAAAATGA
Found at i:60308 original size:40 final size:40
Alignment explanation
Indices: 60226--60594 Score: 433
Period size: 40 Copynumber: 9.2 Consensus size: 40
60216 GATTTTCCAT
* ** * * *
60226 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CGTA
* *
60266 AATCGTAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
** *
60306 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
60346 TATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
* *
60386 AA-CTGCAACGTGCATCCGTAAATCGCAACGCGTATCCGTA
1 AATC-GCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
60426 AATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
*
60466 AATCGCAACG-ATAATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
* * * *
60506 AATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
* * * *
60546 AATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
*
60586 AATCACAAC
1 AATCGCAAC
60595 ACTTAAATTT
Statistics
Matches: 296, Mismatches: 29, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
39 2 0.01
40 291 0.98
41 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
Found at i:60309 original size:60 final size:60
Alignment explanation
Indices: 60226--60594 Score: 433
Period size: 60 Copynumber: 6.2 Consensus size: 60
60216 GATTTTCCAT
* ** * * * *
60226 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATAAATCGTAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAACGCGTATCCGTA
* ** *
60286 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
* * *
60346 TATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAA-CTGCAACGTGCATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATC-GCAACGCGTATCCGTA
*
60406 AATCGCAACGCGTATCCGTAAATCGCAATGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
* *
60466 AATCGCAACG-ATAATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTA
* * * * * * *
60526 AATCGCAACGAGAATCTGTAAATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGT-ATCCGTAAATCGCAACGCGTATCCGTA
*
60586 AATCACAAC
1 AATCGCAAC
60595 ACTTAAATTT
Statistics
Matches: 268, Mismatches: 33, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
59 4 0.01
60 262 0.98
61 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
Found at i:60576 original size:20 final size:19
Alignment explanation
Indices: 60264--60594 Score: 367
Period size: 20 Copynumber: 16.6 Consensus size: 19
60254 CGCGAACACA
*
60264 TAAATCGTAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
60284 TAAATCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
**
60304 TAAATCGCAACGCGTATGGG
1 TAAATCGCAACG-GTATCCG
*
60324 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
60344 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
60364 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
60384 TAAA-CTGCAACGTGCATCCG
1 TAAATC-GCAACG-GTATCCG
60404 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
60424 TAAATCGCAATGCGTATCCG
1 TAAATCGCAACG-GTATCCG
60444 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
60464 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
60484 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
60504 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
60524 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
60544 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
60564 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
60584 TAAATCACAAC
1 TAAATCGCAAC
60595 ACTTAAATTT
Statistics
Matches: 273, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
19 3 0.01
20 268 0.98
21 2 0.01
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:61315 original size:24 final size:24
Alignment explanation
Indices: 61276--61322 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
61266 AAATTTGGTC
61276 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
61300 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
61323 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:61512 original size:12 final size:12
Alignment explanation
Indices: 61495--61519 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
61485 ATATAATCCT
61495 GAAGAAGAAAAA
1 GAAGAAGAAAAA
61507 GAAGAAGAAAAA
1 GAAGAAGAAAAA
61519 G
1 G
61520 TCCCGAAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:63881 original size:19 final size:19
Alignment explanation
Indices: 63818--64100 Score: 418
Period size: 19 Copynumber: 15.7 Consensus size: 19
63808 AAAATCCCAC
63818 ATGAAAATCGCAATGCGGAA
1 ATGAAAATCGCAATGC-GAA
63838 ATGAAAATCGCAA--CG--
1 ATGAAAATCGCAATGCGAA
*
63853 A-GAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
63871 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
63890 ATG-AAATCGCAA--CGAC
1 ATGAAAATCGCAATGCGAA
63906 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
*
63922 ATTAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
63941 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
63960 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
63979 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
63998 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
64017 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
64036 ATGAAAATCGCAA--CGAA
1 ATGAAAATCGCAATGCGAA
64053 A-G--AATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
64069 ATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAA
64088 ATGAAAATCGCAA
1 ATGAAAATCGCAA
64101 CGAGATAATC
Statistics
Matches: 242, Mismatches: 6, Indels: 31
0.87 0.02 0.11
Matches are distributed among these distances:
14 26 0.11
15 2 0.01
16 16 0.07
17 7 0.03
18 11 0.05
19 167 0.69
20 13 0.05
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
ATGAAAATCGCAATGCGAA
Found at i:64237 original size:19 final size:19
Alignment explanation
Indices: 64129--64229 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
64119 AAATTATAAA
64129 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
64148 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
64168 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
64184 CG--TTGCGA-TTTCATTT
1 CGCATTGCGATTTTCATTT
64200 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
64219 CGCATTGCGAT
1 CGCATTGCGAT
64230 AGTCATTTTT
Statistics
Matches: 74, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 6 0.08
15 3 0.04
16 8 0.11
17 3 0.04
18 6 0.08
19 29 0.39
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:64352 original size:13 final size:14
Alignment explanation
Indices: 64336--64371 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
64326 CATCAATTAC
64336 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
64349 ACAAATCATCTTTT
1 ACAAATCAACTTTT
64363 ACAAATCAA
1 ACAAATCAA
64372 TTAAACAATC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:66343 original size:14 final size:14
Alignment explanation
Indices: 66324--66380 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
66314 GCGAAATGAA
*
66324 AATCGCAACGACAG
1 AATCGCAACGAAAG
66338 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
66355 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
66371 AATCGCAACG
1 AATCGCAACG
66381 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:66351 original size:33 final size:33
Alignment explanation
Indices: 66305--66397 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
66295 GCGAAACCAA
*
66305 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
66338 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
66371 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
66398 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:66362 original size:19 final size:19
Alignment explanation
Indices: 66268--66402 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
66258 TAGTTTACTT
* *
66268 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
66288 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
66307 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
66326 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
66340 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
66359 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
66373 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
66392 TCGCAATGCGA
1 TCGCAACGCGA
66403 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:66414 original size:19 final size:19
Alignment explanation
Indices: 66398--66493 Score: 103
Period size: 19 Copynumber: 5.3 Consensus size: 19
66388 AAAATCGCAA
66398 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
66417 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
66431 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
66450 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
66469 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
66489 TGCGA
1 TGCGA
66494 AAGTAAACTA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
14 11 0.17
16 1 0.02
17 1 0.02
18 1 0.02
19 37 0.58
20 13 0.20
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:66827 original size:93 final size:93
Alignment explanation
Indices: 66537--67098 Score: 1062
Period size: 93 Copynumber: 6.1 Consensus size: 93
66527 TTGAATGGAT
66537 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66602 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
66630 AAATTTACTTTCAACC-AAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66693 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
66721 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66786 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
66814 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT--AC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66877 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
66905 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66969 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
66997 AAATTTACTTTAAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
67062 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
67090 AAATTTACT
1 AAATTTACT
67099 AAGCAATCTA
Statistics
Matches: 461, Mismatches: 3, Indels: 10
0.97 0.01 0.02
Matches are distributed among these distances:
90 21 0.05
91 138 0.30
92 112 0.24
93 190 0.41
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:66881 original size:184 final size:185
Alignment explanation
Indices: 66537--67098 Score: 1051
Period size: 184 Copynumber: 3.0 Consensus size: 185
66527 TTGAATGGAT
66537 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66602 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66666 TA-TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATA-ACAGTTTAGCAGAATTGGCAGCAACCGAAC
66721 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
66786 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66851 TACTATTTCACAGTGTTAAAGAAT-ACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATAACAGTTTAGCAGAATTGGCAGCAACCGAAC
*
66905 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
66969 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTAAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
67034 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATA-ACAGTTTAGCAGAATTGGCAGCAACCGAAC
67090 AAATTTACT
1 AAATTTACT
67099 AAGCAATCTA
Statistics
Matches: 371, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
183 112 0.30
184 178 0.48
185 60 0.16
186 21 0.06
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (185 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATAACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:67031 original size:276 final size:276
Alignment explanation
Indices: 66537--67098 Score: 1072
Period size: 276 Copynumber: 2.0 Consensus size: 276
66527 TTGAATGGAT
66537 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATA-AC
66602 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAAT
65 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAAT
66667 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
130 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
*
66732 CAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
195 AAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
66797 ATTGGCAGCAACCGAAC
260 ATTGGCAGCAACCGAAC
66814 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAAT-ACA
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAACA
66878 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGACAAAT
*
66943 ATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
130 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTT
67008 AAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
195 AAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGA
*
67073 ATTGGCAGCAACCGAAT
260 ATTGGCAGCAACCGAAC
67090 AAATTTACT
1 AAATTTACT
67099 AAGCAATCTA
Statistics
Matches: 281, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
275 46 0.16
276 174 0.62
277 61 0.22
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (276 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATAACA
GTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAGACAAAACAAAGACAAATA
TATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTA
AACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAA
TTGGCAGCAACCGAAC
Found at i:68819 original size:14 final size:14
Alignment explanation
Indices: 68800--68889 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
68790 TTGAAATGAA
68800 AATCGCAACGAGAG
1 AATCGCAACGAGAG
68814 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
68831 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
68847 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
68866 AATCGCAACGAGAG
1 AATCGCAACGAGAG
68880 AATCGCAACG
1 AATCGCAACG
68890 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:68837 original size:33 final size:33
Alignment explanation
Indices: 68792--68906 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
68782 TCTTTTGGTT
68792 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
68825 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
68858 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
68891 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
68907 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:68838 original size:19 final size:18
Alignment explanation
Indices: 68799--68911 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
68789 GTTGAAATGA
68799 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
68814 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
68831 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
68847 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
68864 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
68880 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
68897 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
68912 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:68942 original size:14 final size:14
Alignment explanation
Indices: 68923--68977 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
68913 TTTGGTTTCG
68923 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
68937 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
68956 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
68970 CGTTGCGA
1 CGTTGCGA
68978 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:68955 original size:33 final size:33
Alignment explanation
Indices: 68907--68977 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
68897 AAAATCGCAA
**
68907 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
68940 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
68973 TGCGA
1 TGCGA
68978 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:68985 original size:33 final size:33
Alignment explanation
Indices: 68918--68999 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
68908 GCGATTTTGG
***
68918 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
68951 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
68984 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
69000 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:69004 original size:20 final size:20
Alignment explanation
Indices: 68930--69018 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
68920 TCGCGTTGCG
68930 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
68950 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
68963 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
68983 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
69003 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
69019 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:69139 original size:33 final size:33
Alignment explanation
Indices: 69097--69167 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
69087 AATACTAACT
*
69097 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
69130 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
69163 TGAAA
1 TGAAA
69168 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:69399 original size:22 final size:22
Alignment explanation
Indices: 69348--69401 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
69338 TGGTTGTGAG
*
69348 GGATTTC-GCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
69369 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
69391 GGATTTCTTCG
1 GGATTTCTTCG
69402 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 5 0.19
22 22 0.81
ACGTcount: A:0.20, C:0.15, G:0.41, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:69568 original size:20 final size:20
Alignment explanation
Indices: 69543--69735 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
69533 CTTTAAATAT
69543 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
69563 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
69585 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
69604 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
69624 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
69644 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
69664 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
69684 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
69704 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
69724 CGCGTTGCGATT
1 CGCGTTGCGATT
69736 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:69730 original size:60 final size:60
Alignment explanation
Indices: 69543--69735 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
69533 CTTTAAATAT
**
69543 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
69604 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
69664 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
69724 CGCGTTGCGATT
1 CGCGTTGCGATT
69736 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:69816 original size:20 final size:20
Alignment explanation
Indices: 69791--69842 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
69781 AAGAATCGCG
*
69791 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
69811 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
69831 TTGCGATTCTGG
1 TTGCGATTCTGG
69843 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:70664 original size:21 final size:21
Alignment explanation
Indices: 70639--70691 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
70629 ATTCTGACTA
70639 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
70660 TCGCATTGTGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
70681 TCGCAATGCGA
1 TCGCATTGCGA
70692 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:70706 original size:20 final size:20
Alignment explanation
Indices: 70681--70726 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
70671 TTTTCCTAAT
70681 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
70701 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
70721 TCGCAA
1 TCGCAA
70727 CGCAATTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:70744 original size:40 final size:40
Alignment explanation
Indices: 70700--70791 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
70690 GAATATGTAA
*
70700 ATCGCAATGCGAATATGTA-AATCGCAACGCAATTCTGACT
1 ATCGCAACGCGAATATG-ACAATCGCAACGCAATTCTGACT
* * * * *
70740 ATCGCAACGAGATTCTGACTATCGCAACGCGATTCTGACT
1 ATCGCAACGCGAATATGACAATCGCAACGCAATTCTGACT
*
70780 ATCACAACGCGA
1 ATCGCAACGCGA
70792 TGCTGTCGCA
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.02
40 42 0.98
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (40 bp):
ATCGCAACGCGAATATGACAATCGCAACGCAATTCTGACT
Found at i:70790 original size:20 final size:20
Alignment explanation
Indices: 70720--70792 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
70710 GAATATGTAA
*
70720 ATCGCAACGCAATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
70740 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
70760 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
70780 ATCACAACGCGAT
1 ATCGCAACGCGAT
70793 GCTGTCGCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:71666 original size:24 final size:22
Alignment explanation
Indices: 71618--71668 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
71608 GATATTCGAA
*
71618 TTGATCTGTCAATACCCGGACT
1 TTGATCTGTCAATACCCAGACT
* *
71640 TTGATCTTGGTCAATACTCAGATT
1 TTGATC-T-GTCAATACCCAGACT
71664 TTGAT
1 TTGAT
71669 GATGTTTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 6 0.25
23 1 0.04
24 17 0.71
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.39
Consensus pattern (22 bp):
TTGATCTGTCAATACCCAGACT
Found at i:73929 original size:18 final size:18
Alignment explanation
Indices: 73906--73945 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
73896 AGAAAAAGGC
*
73906 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
*
73924 AATCAAAATCCCAATCAC
1 AATCAAAATCCCAATCAA
73942 AATC
1 AATC
73946 GGCTTCACCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.28, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:74136 original size:20 final size:20
Alignment explanation
Indices: 74111--74261 Score: 170
Period size: 20 Copynumber: 7.8 Consensus size: 20
74101 TTACACATTC
*
74111 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
74131 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
74151 ATTTGACTATCGCAACGCGG
1 ATTTGACTATCGCAACGCGA
* *
74171 ATTTGATTATCGCAACTC-A
1 ATTTGACTATCGCAACGCGA
*
74190 A----A-AATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
74205 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
74225 ATTTGATTATCGCAACGGGT
1 ATTTGACTATCGCAACGCGA
* *
74245 ATTCGACCATCGCAACG
1 ATTTGACTATCGCAACG
74262 AGAAAATCGC
Statistics
Matches: 111, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
14 9 0.08
15 3 0.03
19 2 0.02
20 97 0.87
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:74240 original size:74 final size:74
Alignment explanation
Indices: 74119--74311 Score: 257
Period size: 74 Copynumber: 2.6 Consensus size: 74
74109 TCATTTGAAT
* **
74119 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGCGG-ATTTGATTATCG
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACG-GGTATTCGACCATCG
74183 CAACTCA-AAA
65 CAAC-CAGAAA
*
74193 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGATTATCGCAACGGGTATTCGACCATCGC
1 ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGGTATTCGACCATCGC
*
74258 AACGAGAAA
66 AACCAGAAA
* * * *
74267 ATCGCAAAGCGTAA-TAGACTATCGCAATGCGAATTTGACTTTCGC
1 ATCGCAACGCG-AATTTGACTATCGCAACGCGAATTTGACTATCGC
74312 GTTGCGATTT
Statistics
Matches: 106, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
73 3 0.03
74 101 0.95
75 2 0.02
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (74 bp):
ATCGCAACGCGAATTTGACTATCGCAACGCGAATTTGACTATCGCAACGGGTATTCGACCATCGC
AACCAGAAA
Found at i:74306 original size:20 final size:20
Alignment explanation
Indices: 74283--74358 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
74273 AAGCGTAATA
* * *
74283 GACTATCGCAATGCGAATTT
1 GACTTTCGCATTGCGATTTT
*
74303 GACTTTCGCGTTGCGATTTT
1 GACTTTCGCATTGCGATTTT
*
74323 GGCTTTCGCATTGCGATTTT
1 GACTTTCGCATTGCGATTTT
* * *
74343 GAGTTTAGCGTTGCGA
1 GACTTTCGCATTGCGA
74359 AAGTGTACCT
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.38
Consensus pattern (20 bp):
GACTTTCGCATTGCGATTTT
Found at i:74501 original size:29 final size:28
Alignment explanation
Indices: 74462--74516 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
74452 ATAAGAATTA
*
74462 TTTACACATCAATATTAAACAAATCAACT
1 TTTACAAATCAAT-TTAAACAAATCAACT
**
74491 TTTACAAATCAATTTTTACAAATCAA
1 TTTACAAATCAATTTAAACAAATCAA
74517 TTAAACAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (28 bp):
TTTACAAATCAATTTAAACAAATCAACT
Found at i:74517 original size:14 final size:14
Alignment explanation
Indices: 74457--74518 Score: 70
Period size: 14 Copynumber: 4.3 Consensus size: 14
74447 AACAAATAAG
*
74457 AATTATTTACACATC
1 AATT-TTTACAAATC
**
74472 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
74487 AACTTTTACAAATC
1 AATTTTTACAAATC
74501 AATTTTTACAAATC
1 AATTTTTACAAATC
74515 AATT
1 AATT
74519 AAACAAGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
14 26 0.67
15 12 0.31
16 1 0.03
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:76025 original size:42 final size:42
Alignment explanation
Indices: 75918--76029 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
75908 TCTAGAATGT
* * *
75918 TGGGAG-GGACCTCTTCAACGATGACAGTGGCCTCTGGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGACAGGGGCCTCTGGAACGA
* * ** * *
75960 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTGGAACGA
76002 TAGGG-GAGGCCTCTTGAACGATGACAGG
1 T-GGGAGAGGCCTCTTGAACGATGACAGG
76030 TGAGTCGGGC
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
42 50 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.19, G:0.39, T:0.20
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGACAGGGGCCTCTGGAACGA
Found at i:76643 original size:20 final size:20
Alignment explanation
Indices: 76585--76655 Score: 106
Period size: 20 Copynumber: 3.5 Consensus size: 20
76575 CGATTCTTTT
* *
76585 GTTGCGATAGTCATTTTCAC
1 GTTGCGAAAGTCATTTTCGC
* *
76605 ATTGCGATAGTCATTTTCGC
1 GTTGCGAAAGTCATTTTCGC
76625 GTTGCGAAAGTCATTTTCGC
1 GTTGCGAAAGTCATTTTCGC
76645 GTTGCGAAAGT
1 GTTGCGAAAGT
76656 AAACTATTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTGCGAAAGTCATTTTCGC
Found at i:76826 original size:18 final size:18
Alignment explanation
Indices: 76803--76848 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
76793 CTAAGCAATC
76803 TAAGTGAAATGGTTAATA
1 TAAGTGAAATGGTTAATA
*
76821 TAAGTGAAATGGTTAATC
1 TAAGTGAAATGGTTAATA
76839 TAAGTGAAAT
1 TAAGTGAAAT
76849 TACGAGTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (18 bp):
TAAGTGAAATGGTTAATA
Found at i:78605 original size:19 final size:20
Alignment explanation
Indices: 78569--78654 Score: 106
Period size: 19 Copynumber: 4.5 Consensus size: 20
78559 TATGAAACTT
*
78569 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCGAAAATG
78589 AAAATCGCAAC-CGAAAATG
1 AAAATCGCAACGCGAAAATG
** *
78608 ACTATCGCAACGCG-AAATA
1 AAAATCGCAACGCGAAAATG
*
78627 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAAATG
78646 AAAATCGCA
1 AAAATCGCA
78655 TTGCAATTCT
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
19 42 0.72
20 16 0.28
ACGTcount: A:0.50, C:0.23, G:0.15, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGCGAAAATG
Found at i:79067 original size:22 final size:22
Alignment explanation
Indices: 79040--79082 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
79030 GAGATAGACG
79040 GATTTCGTCGGAGATGGGGACT
1 GATTTCGTCGGAGATGGGGACT
79062 GATTTCGTCGGAGATGGGGAC
1 GATTTCGTCGGAGATGGGGAC
79083 AGATGTCGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.42, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACT
Found at i:79290 original size:20 final size:20
Alignment explanation
Indices: 79258--79311 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
79248 GCGCTTTGAA
*
79258 AATCACATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
79278 CATCGCGTTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
79298 AATCGCATTGCGAT
1 AATCGCATTGCGAT
79312 TTACATATTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:79353 original size:21 final size:21
Alignment explanation
Indices: 79328--79373 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
79318 ATTCGCATTT
79328 GCGAATTCGAAAAATCGCAAC
1 GCGAATTCGAAAAATCGCAAC
* * *
79349 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGAAAAATCGCAAC
79370 GCGA
1 GCGA
79374 TAATCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTCGAAAAATCGCAAC
Done.