Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_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: 3548142
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 17
Found at i:847961 original size:14 final size:15
Alignment explanation
Indices: 847928--847966 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
847918 TACATTTACG
* *
847928 TTTTAATTATTATTA
1 TTTTATTTATTATAA
847943 TTTTATTTATT-TAA
1 TTTTATTTATTATAA
847957 TTTTATTTAT
1 TTTTATTTAT
847967 ACGCACATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTATTTATTATAA
Found at i:848078 original size:2 final size:2
Alignment explanation
Indices: 848073--848141 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
848063 ATATATATTT
848073 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C-
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
848114 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
848142 TATATATATA
Statistics
Matches: 66, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 65 0.98
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:848146 original size:2 final size:2
Alignment explanation
Indices: 848141--848166 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
848131 ACACACACAC
848141 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
848167 GTTTTTTGAT
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:848411 original size:5 final size:4
Alignment explanation
Indices: 848396--848468 Score: 53
Period size: 4 Copynumber: 17.8 Consensus size: 4
848386 TTTCTAGTAT
* **
848396 TTTA TTTA TTTCA TTT- TCT- TTTA TGGA TTTTA TTTA TTTA TTTTA TGTCT-
1 TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TT-TA TTTA TTTA -TTTA T-T-TA
848446 TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTT
848469 TTCTTTTCGT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
3 5 0.09
4 37 0.66
5 13 0.23
6 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.04, T:0.73
Consensus pattern (4 bp):
TTTA
Found at i:848442 original size:22 final size:22
Alignment explanation
Indices: 848400--848460 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
848390 TAGTATTTTA
*
848400 TTTATTTCATTTTCTTTTATGGAT
1 TTTATTT-A-TTTATTTTATGGAT
**
848424 TTTATTTATTTATTTTATGTCT
1 TTTATTTATTTATTTTATGGAT
848446 TTTATTTATTTATTT
1 TTTATTTATTTATTT
848461 ATTTATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
22 26 0.76
23 1 0.03
24 7 0.21
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.72
Consensus pattern (22 bp):
TTTATTTATTTATTTTATGGAT
Found at i:848470 original size:22 final size:21
Alignment explanation
Indices: 848423--848497 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 21
848413 CTTTTATGGA
* *
848423 TTTTATTTATTTATTTTATGTC
1 TTTTATTTATTTA-TTTATTTT
848445 TTTTATTTATTTATTTATTTAT
1 TTTTATTTATTTATTTATTT-T
* * *
848467 TTTTCTTTTCGTTTCTTTA-TTT
1 TTTT-ATTT-ATTTATTTATTTT
848489 TTTTATTTA
1 TTTTATTTA
848498 CTTGTTATCG
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 9 0.21
22 22 0.51
23 5 0.12
24 7 0.16
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTTATTTATTTATTTATTTT
Found at i:848495 original size:8 final size:8
Alignment explanation
Indices: 848422--848496 Score: 51
Period size: 8 Copynumber: 8.5 Consensus size: 8
848412 TCTTTTATGG
848422 ATTTTATTT
1 ATTTT-TTT
848431 ATTTATTTT
1 ATTT-TTTT
*
848440 ATGTCTTTT
1 AT-TTTTTT
*
848449 ATTTATTT
1 ATTTTTTT
*
848457 ATTTATTT
1 ATTTTTTT
848465 ATTTTTCTT
1 ATTTTT-TT
*
848474 TTCGTTTCTTT
1 AT--TTT-TTT
848485 ATTTTTTT
1 ATTTTTTT
848493 ATTT
1 ATTT
848497 ACTTGTTATC
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
8 24 0.44
9 21 0.39
10 2 0.04
11 6 0.11
12 1 0.02
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (8 bp):
ATTTTTTT
Found at i:857499 original size:106 final size:106
Alignment explanation
Indices: 857272--857499 Score: 253
Period size: 106 Copynumber: 2.2 Consensus size: 106
857262 CAGGCTCAAC
* * * * *
857272 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGATTGTCAACAAACAACTTCCC
1 ACTCGAGATAACACAAGCTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAACTTCCC
** *
857337 AATTTTAGAATCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTCCAGAACCAATTTCAACTTCACAGCGAAGGATATTAG
* ** * *
857378 ACTCGAGATAGCACAAGCTCAACTTCACAGTGAAGGGGCGACTGACTGTCAACAAACAATTTCCC
1 ACTCGAGATAACACAAGCTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAACTTCCC
* * * * * *
857443 AGTTCCATAGCCAATTTCAACTTCATTA-CGGAGGATATTGG
66 AATTCCAGAACCAATTTCAACTTCA-CAGCGAAGGATATTAG
857484 ACTCG-GAGTAACACAA
1 ACTCGAGA-TAACACAA
857500 CTTACATTGA
Statistics
Matches: 100, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
105 2 0.02
106 97 0.97
107 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
ACTCGAGATAACACAAGCTCAACTTCACAACGAAGGGACGACTGACTGTCAACAAACAACTTCCC
AATTCCAGAACCAATTTCAACTTCACAGCGAAGGATATTAG
Found at i:858065 original size:35 final size:35
Alignment explanation
Indices: 857973--858044 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
857963 CCAACAAAGA
* *
857973 AGAGTTGGATTAGGACTCAAATACTAGTCTAAAAT
1 AGAGTTAGATTAGGACTCAAATACTAGTATAAAAT
858008 AGAGTTAGATTAGGACTCAAATACTAGTATAAAAT
1 AGAGTTAGATTAGGACTCAAATACTAGTATAAAAT
858043 AG
1 AG
858045 GGTTTTTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (35 bp):
AGAGTTAGATTAGGACTCAAATACTAGTATAAAAT
Found at i:858550 original size:13 final size:13
Alignment explanation
Indices: 858528--858561 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
858518 TTCCATTATT
*
858528 ATTATTTTATTTC
1 ATTATATTATTTC
*
858541 ATTATATTATTTT
1 ATTATATTATTTC
858554 ATTATATT
1 ATTATATT
858562 TATATATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTATATTATTTC
Found at i:858550 original size:18 final size:18
Alignment explanation
Indices: 858515--858583 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 18
858505 TGTTTACTTA
858515 TATTTCCATTATTATTATTT
1 TATTT-CATTA-TATTATTT
858535 TATTTCATTATATTATTT
1 TATTTCATTATATTATTT
858553 TATTAT-ATTTATATATATATT
1 TATT-TCA-TTATAT-TAT-TT
858574 TACTTTCATT
1 TA-TTTCATT
858584 TCATATTCTT
Statistics
Matches: 43, Mismatches: 0, Indels: 11
0.80 0.00 0.20
Matches are distributed among these distances:
18 13 0.30
19 12 0.28
20 8 0.19
21 7 0.16
22 3 0.07
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTTCATTATATTATTT
Found at i:859923 original size:21 final size:21
Alignment explanation
Indices: 859892--859946 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
859882 ATAACAATAC
*
859892 AAAAATAAAAATAGAAGATAAA
1 AAAAAT-AAAATAGAAAATAAA
* *
859914 AAAAATAAAAGATAAAATAAA
1 AAAAATAAAATAGAAAATAAA
* *
859935 ATATATAAAATA
1 AAAAATAAAATA
859947 ATAAATATAT
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 21 0.78
22 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.18
Consensus pattern (21 bp):
AAAAATAAAATAGAAAATAAA
Found at i:859954 original size:14 final size:14
Alignment explanation
Indices: 859828--860005 Score: 63
Period size: 16 Copynumber: 12.4 Consensus size: 14
859818 ACAAAAACAA
859828 ATATAAAA-AAATAT
1 ATATAAAATAAA-AT
859842 ATATATAAATAAAAT
1 ATATA-AAATAAAAT
* *
859857 ACATAAAATAAAGAAG
1 ATATAAAAT-AA-AAT
859873 ATAATAACAATAACAAT
1 AT-ATAA-AATAA-AAT
*
859890 ACA-AAAATAAAA-
1 ATATAAAATAAAAT
* *
859902 ATAGAAGAT--AA-
1 ATATAAAATAAAAT
859913 A-A-AAAAT-AAA-
1 ATATAAAATAAAAT
*
859923 AGATAAAATAAAAT
1 ATATAAAATAAAAT
859937 ATATAAAATAATAAAT
1 ATATAAAAT-A-AAAT
*
859953 ATATATAACATATAAT
1 ATATA-AA-ATAAAAT
*
859969 -TATAGTAATAAAAAT
1 ATATA-AAAT-AAAAT
859984 ATATATAAATAATAAT
1 ATATA-AAATAA-AAT
860000 GATATA
1 -ATATA
860006 TTAAAAAGAA
Statistics
Matches: 128, Mismatches: 16, Indels: 37
0.71 0.09 0.20
Matches are distributed among these distances:
9 4 0.03
10 4 0.03
11 4 0.03
12 7 0.05
13 9 0.07
14 24 0.19
15 25 0.20
16 29 0.23
17 17 0.13
18 5 0.04
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.26
Consensus pattern (14 bp):
ATATAAAATAAAAT
Found at i:859954 original size:16 final size:17
Alignment explanation
Indices: 859933--859998 Score: 72
Period size: 16 Copynumber: 4.1 Consensus size: 17
859923 AGATAAAATA
859933 AAATATATA-AAATAAT
1 AAATATATATAAATAAT
859949 AAATATATATAACAT-AT
1 AAATATATATAA-ATAAT
859966 -AAT-TATAGT-AATAA-
1 AAATATATA-TAAATAAT
859980 AAATATATATAAATAAT
1 AAATATATATAAATAAT
859997 AA
1 AA
859999 TGATATATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 15
0.74 0.00 0.26
Matches are distributed among these distances:
14 2 0.05
15 10 0.24
16 22 0.52
17 6 0.14
18 2 0.05
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (17 bp):
AAATATATATAAATAAT
Found at i:859987 original size:31 final size:30
Alignment explanation
Indices: 859943--860012 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
859933 AAATATATAA
*
859943 AATAATAAATATATATAACAT-ATAATTATAGT
1 AATAA-AAATATATATAA-ATAATAATGATA-T
859975 AATAAAAATATATATAAATAATAATGATAT
1 AATAAAAATATATATAAATAATAATGATAT
*
860005 ATTAAAAA
1 AATAAAAA
860013 GAATTAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 10 0.29
31 20 0.57
32 5 0.14
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.34
Consensus pattern (30 bp):
AATAAAAATATATATAAATAATAATGATAT
Found at i:859996 original size:19 final size:19
Alignment explanation
Indices: 859974--860030 Score: 51
Period size: 19 Copynumber: 2.9 Consensus size: 19
859964 ATAATTATAG
859974 TAATAAAAATATATATAAA
1 TAATAAAAATATATATAAA
** *
859993 TAATAATGATATATTAAAAA
1 TAATAAAAATATA-TATAAA
* *
860013 GAATTAAAAGTATATATA
1 TAA-TAAAAATATATATA
860031 TATATAACGA
Statistics
Matches: 28, Mismatches: 8, Indels: 3
0.72 0.21 0.08
Matches are distributed among these distances:
19 11 0.39
20 10 0.36
21 7 0.25
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAATAAAAATATATATAAA
Found at i:860103 original size:2 final size:2
Alignment explanation
Indices: 860096--860139 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
860086 GAAGATAATT
860096 TA TA TA TA TA TA 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 TA TA TA TA TA TA
860138 TA
1 TA
860140 ATAAGAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:861700 original size:111 final size:107
Alignment explanation
Indices: 861548--861936 Score: 439
Period size: 106 Copynumber: 3.6 Consensus size: 107
861538 GAAATTGGCT
* *
861548 CTGGAAA-TTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGA
1 CTGGAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGA
* * *
861612 GTTCAATATCATTCGCTATGAAGTTGAAATTGAATCTGAATGAAA
66 GTCCAATATCCTTCGCTGTGAAGTTGAAATTG--TCTG-ATGAAA
* * *
861657 CTGAAAAGTTATTTGTTGACAATCAGTCAC-CCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTT
1 CTGGAAAGTTGTTTGTTGACAATCAG-C-CGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTC
* * *
861721 GAGTCCAATATCCCTCGCTGTGAAGTTGAAATTGGCT-CTGAAA
64 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTGATGAAA
* * * * * * *
861764 CTGGGAAGTTGTTTGTTGATAGTCAGCCTCCCCTTC-TCTATGAAGTTGAGCTTGTGCTGTCTTG
1 CTGGAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCGT-TGTGAAGTTGAGCTTGTGTTGTCTCG
* *
861828 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCT-CTGAAA
65 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTGATGAAA
* * * * * *
861870 TTTGGAAA-TTGTTTTTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
1 -CTGGAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCG
861934 AGT
65 AGT
861937 GGCACGATAT
Statistics
Matches: 241, Mismatches: 32, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
105 2 0.01
106 119 0.49
107 32 0.13
109 8 0.03
110 16 0.07
111 63 0.26
112 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (107 bp):
CTGGAAAGTTGTTTGTTGACAATCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTCGA
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGTCTGATGAAA
Found at i:861810 original size:217 final size:212
Alignment explanation
Indices: 861550--861936 Score: 531
Period size: 217 Copynumber: 1.8 Consensus size: 212
861540 AATTGGCTCT
* * *
861550 GGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGTTGTCTCGAGTT
1 GGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTGTCTCGAGTC
*
861615 CAATATCATTCGCTATGAAGTTGAAATTGAATCTGAATGAAACTGAAAAGTTATTTGTTGACAAT
66 CAATATCATTCGCTATGAAGTTGAAATTGAATCTG-A--AAACTGAAAA-TTATTTGTTGACAAC
* *
861680 CAGTCACCCCCTTCGTTGTGAAGTTGAGCTTGTGTTGTCTTGAGTCCAATATCCCTCGCTGTGAA
127 CAGTC-CCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCCTCGCTGTGAA
861745 GTTGAAATTGGCTCTGAAACTG
191 GTTGAAATTGGCTCTGAAACTG
* * * * *
861767 GGAAGTTGTTTGTTGATAGTCAGCCTCCCCTTCTCTATGAAGTTGAGCTTGTGCTGTCTTGAGTC
1 GGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTGTCTCGAGTC
* * ** ** * * *
861832 CAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTTGGAAATTGTTTTTTGACAACCAGT
66 CAATATCATTCGCTATGAAGTTGAAATTGAATCTGAAAACTGAAAATTATTTGTTGACAACCAGT
**
861897 CGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
131 CCCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
861937 GGCACGATAT
Statistics
Matches: 148, Mismatches: 22, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
212 35 0.24
213 17 0.11
214 7 0.05
216 1 0.01
217 88 0.59
ACGTcount: A:0.22, C:0.18, G:0.24, T:0.36
Consensus pattern (212 bp):
GGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTATGAAGTTGAGCTTGTGCTGTCTCGAGTC
CAATATCATTCGCTATGAAGTTGAAATTGAATCTGAAAACTGAAAATTATTTGTTGACAACCAGT
CCCCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCCTCGCTGTGAAGTTGA
AATTGGCTCTGAAACTG
Found at i:863125 original size:14 final size:14
Alignment explanation
Indices: 863106--863152 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
863096 TGAAAGAGGG
863106 TGACGTAACTGCAA
1 TGACGTAACTGCAA
*
863120 TGACGTAA-TG--T
1 TGACGTAACTGCAA
863131 TGACGTAACTGCAA
1 TGACGTAACTGCAA
863145 TGACGTAA
1 TGACGTAA
863153 TGTCTAACTC
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 8 0.29
12 2 0.07
13 2 0.07
14 16 0.57
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (14 bp):
TGACGTAACTGCAA
Found at i:863134 original size:25 final size:25
Alignment explanation
Indices: 863106--863155 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
863096 TGAAAGAGGG
863106 TGACGTAACTGCAATGACGTAATGT
1 TGACGTAACTGCAATGACGTAATGT
863131 TGACGTAACTGCAATGACGTAATGT
1 TGACGTAACTGCAATGACGTAATGT
863156 CTAACTCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (25 bp):
TGACGTAACTGCAATGACGTAATGT
Found at i:865301 original size:31 final size:31
Alignment explanation
Indices: 865249--865307 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
865239 TGAGCTAAAA
* *
865249 ATTATTAAGCTCGACTTGAACTC-AAAATAT
1 ATTATTAAACTCGACTCGAACTCGAAAATAT
865279 ATTATTGAAACTCGACTCGAACTCGAAAA
1 ATTATT-AAACTCGACTCGAACTCGAAAA
865308 AGTTCAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 6 0.24
31 15 0.60
32 4 0.16
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (31 bp):
ATTATTAAACTCGACTCGAACTCGAAAATAT
Found at i:866037 original size:20 final size:20
Alignment explanation
Indices: 866012--866104 Score: 105
Period size: 21 Copynumber: 4.5 Consensus size: 20
866002 TTTTCCCAAT
866012 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
866032 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
866052 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* * *
866073 TCGCAACGCGAATTGAGAAAA
1 TCGCAATGCGAA-TAAGTAAA
866094 TCGCAATGCGA
1 TCGCAATGCGA
866105 TACTGACTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
20 27 0.46
21 32 0.54
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:866054 original size:41 final size:41
Alignment explanation
Indices: 866009--866104 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
865999 CGATTTTCCC
*
866009 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
866050 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
*
866091 AAATCGCAATGCGA
1 AATTCGCAATGCGA
866105 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGAGA
Found at i:866117 original size:41 final size:41
Alignment explanation
Indices: 866031--866165 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
866021 GAATAAGTAA
* * * *
866031 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCG-ATACTG-ACT
866072 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
* * * * * *
866113 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGAGAAAATCGCAATGCGATACTGACT
*
866154 TTCGCAACGCGA
1 ATCGCAACGCGA
866166 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.39, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGAGAAAATCGCAATGCGATACTGACT
Found at i:866118 original size:20 final size:20
Alignment explanation
Indices: 866093--866187 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
866083 AATTGAGAAA
*
866093 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
866113 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
866134 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
866154 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
866174 TTCGCAACGCGATA
1 ATCGCAACGCGATA
866188 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:866403 original size:22 final size:22
Alignment explanation
Indices: 866375--866418 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
866365 CACTCTCTCA
866375 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
866397 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
866419 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:866648 original size:19 final size:19
Alignment explanation
Indices: 866624--866674 Score: 102
Period size: 19 Copynumber: 2.7 Consensus size: 19
866614 ATCAACCAAG
866624 AATCGCAACGCGAAATGCA
1 AATCGCAACGCGAAATGCA
866643 AATCGCAACGCGAAATGCA
1 AATCGCAACGCGAAATGCA
866662 AATCGCAACGCGA
1 AATCGCAACGCGA
866675 TTTTAGTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.41, C:0.27, G:0.22, T:0.10
Consensus pattern (19 bp):
AATCGCAACGCGAAATGCA
Found at i:866726 original size:20 final size:20
Alignment explanation
Indices: 866701--866738 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
866691 CGATTCTCTC
866701 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
866721 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
866739 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:868077 original size:18 final size:18
Alignment explanation
Indices: 868056--868100 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
868046 TCCACTTCGG
*
868056 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
868074 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
868092 GAGCCATCA
1 GAGCCATCA
868101 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:868626 original size:19 final size:20
Alignment explanation
Indices: 868572--868638 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
868562 TAGTTTACTT
* *
868572 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
868592 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
868612 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
868631 TCGCAACG
1 TCGCAACG
868639 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:868646 original size:14 final size:14
Alignment explanation
Indices: 868627--868684 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
868617 ATGCGAAATG
868627 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
868641 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
868657 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
868673 AAAATCGCAACG
1 AAAATCGCAACG
868685 TGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.26, G:0.17, T:0.09
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:868669 original size:32 final size:33
Alignment explanation
Indices: 868611--868701 Score: 157
Period size: 32 Copynumber: 2.8 Consensus size: 33
868601 GGAAATGGCT
*
868611 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
868644 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
868676 ATCGCAACGTGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
868702 TGCGATTTGT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 31 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:868695 original size:19 final size:18
Alignment explanation
Indices: 868611--868701 Score: 65
Period size: 14 Copynumber: 5.4 Consensus size: 18
868601 GGAAATGGCT
*
868611 ATCGCAATGCGAAATGAAA
1 ATCGCAACG-GAAATGAAA
*
868630 ATCGCAAC-G--A-CAAA
1 ATCGCAACGGAAATGAAA
868644 ATCGCAACGCGAAATG-AA
1 ATCGCAACG-GAAATGAAA
*
868662 ATCGCAAC-G--A-CAAA
1 ATCGCAACGGAAATGAAA
868676 ATCGCAACGTGAAATGAAA
1 ATCGCAACG-GAAATGAAA
868695 ATCGCAA
1 ATCGCAA
868702 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 5, Indels: 22
0.67 0.06 0.27
Matches are distributed among these distances:
14 22 0.39
15 1 0.02
16 3 0.05
17 1 0.02
18 12 0.21
19 17 0.30
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (18 bp):
ATCGCAACGGAAATGAAA
Found at i:868752 original size:32 final size:32
Alignment explanation
Indices: 868713--868823 Score: 204
Period size: 32 Copynumber: 3.4 Consensus size: 32
868703 GCGATTTGTG
868713 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
868745 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
868777 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
*
868810 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
868824 AGCCATTTCC
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 59 0.77
33 18 0.23
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (32 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTCA
Found at i:868822 original size:19 final size:18
Alignment explanation
Indices: 868713--868864 Score: 121
Period size: 14 Copynumber: 8.9 Consensus size: 18
868703 GCGATTTGTG
868713 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
868729 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
868745 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
868761 TGT--CGTTGCGATTTCA
1 TTTCGCGTTGCGATTTCA
868777 TTTCGCGTTGCGATTT--
1 TTTCGCGTTGCGATTTCA
*
868793 TGT--CGTTGCGATTTTCA
1 TTTCGCGTTGCGA-TTTCA
* **
868810 TTTCGCATTGCGATAGCCA
1 TTTCGCGTTGCGAT-TTCA
*
868829 TTTCCGCGTTGCGATAGTCA
1 TTT-CGCGTTGCGAT-TTCA
868849 TTTCGCGTTGCGATTT
1 TTTCGCGTTGCGATTT
868865 TAAGTTTCGT
Statistics
Matches: 109, Mismatches: 12, Indels: 28
0.73 0.08 0.19
Matches are distributed among these distances:
14 30 0.28
15 3 0.03
16 10 0.09
17 2 0.02
18 24 0.22
19 23 0.21
20 17 0.16
ACGTcount: A:0.11, C:0.20, G:0.24, T:0.44
Consensus pattern (18 bp):
TTTCGCGTTGCGATTTCA
Found at i:868842 original size:20 final size:19
Alignment explanation
Indices: 868808--868862 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 19
868798 TTGCGATTTT
*
868808 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
868827 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
868847 CATTTCGCGTTGCGAT
1 CATTTCGCGTTGCGAT
868863 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.16, C:0.25, G:0.24, T:0.35
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:870747 original size:14 final size:14
Alignment explanation
Indices: 870728--870763 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
870718 ATTGTTTAAT
870728 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
870742 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
870756 TGATTTGT
1 TGATTTGT
870764 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:872062 original size:24 final size:24
Alignment explanation
Indices: 872006--872064 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
871996 AGTCAGTATT
* *
872006 CGAAATTTGATCTTGGTCAATACT
1 CGAAATTTGATATTGGTCAATACA
* *
872030 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
872054 CGAATTTTGAT
1 CGAAATTTGAT
872065 GATGTTTCAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:872256 original size:12 final size:12
Alignment explanation
Indices: 872239--872263 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
872229 ATATAATCCT
872239 GAAGAAGAAAAA
1 GAAGAAGAAAAA
872251 GAAGAAGAAAAA
1 GAAGAAGAAAAA
872263 G
1 G
872264 TCCCCGAAGA
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:874578 original size:19 final size:19
Alignment explanation
Indices: 874556--874653 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
874546 GGAAATTACT
874556 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
874575 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
874589 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* **
874608 ATTGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
*
874622 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
874641 ATCGCAACGCGAA
1 ATCGCAATGCGAA
874654 TTTAATTTCG
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 18 0.31
15 2 0.03
16 3 0.05
17 4 0.07
18 2 0.03
19 29 0.50
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:874598 original size:33 final size:33
Alignment explanation
Indices: 874556--874649 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
874546 GGAAATTACT
874556 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
874589 ATCGCAATGCGAAATGAAAATTGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
874622 ATCGCAATGTGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
874650 CGAATTTAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.44, C:0.17, G:0.24, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:874671 original size:19 final size:20
Alignment explanation
Indices: 874649--874691 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
874639 AAATCGCAAC
874649 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
874668 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
874688 GCGA
1 GCGA
874692 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:874676 original size:14 final size:14
Alignment explanation
Indices: 874677--874710 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
874667 TGCGATTTTC
874677 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
874691 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
874705 ATTTTC
1 ATTTTC
874711 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:874849 original size:14 final size:14
Alignment explanation
Indices: 874832--874868 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
874822 CATCAATTAA
874832 ACAAATCAAATTTT
1 ACAAATCAAATTTT
**
874846 ACAAATCACCTTTT
1 ACAAATCAAATTTT
874860 ACAAATCAA
1 ACAAATCAA
874869 TTAAACAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAAATTTT
Found at i:876290 original size:21 final size:21
Alignment explanation
Indices: 876224--876290 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
876214 GTGAATCGGG
*
876224 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
876244 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
876266 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
876287 CTCT
1 CTCT
876291 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:876309 original size:42 final size:41
Alignment explanation
Indices: 876224--876346 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
876214 GTGAATCGGG
* * * * *
876224 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
876266 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
876308 CTCTTCAACGATAGGAGTGGACTCTTGATGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
876347 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.24
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:878387 original size:20 final size:19
Alignment explanation
Indices: 878342--878501 Score: 115
Period size: 19 Copynumber: 8.8 Consensus size: 19
878332 TCTTTTGGTT
878342 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* * *
878361 GATAATGAGAATTGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
878382 GAAATGACTATCGCAATGA
1 GAAATGAAAATCGCAACGA
*
878401 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
** *
878415 GAAATGACTATCGCGACGA
1 GAAATGAAAATCGCAACGA
*
878434 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
878448 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
*
878467 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGA
878486 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
878502 TGCGATTTGG
Statistics
Matches: 112, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
14 18 0.16
16 4 0.04
17 4 0.04
19 58 0.52
20 26 0.23
21 2 0.02
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:878424 original size:33 final size:33
Alignment explanation
Indices: 878367--878501 Score: 144
Period size: 33 Copynumber: 3.9 Consensus size: 33
878357 ACGAGATAAT
* *
878367 GAGAATTGCAACGCGGAAATGACTATCGCAATGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACGA
*
878401 GAGAATCGCAACGCGAAATGACTATCGCGACGA
1 GAGAATCGCAACGCGAAATGACTATCGCAACGA
**
878434 GAGAATCGCAACGCGAAATGAAAATCGCAACGCGAAA
1 GAGAATCGCAACGCGAAATGACTATCGCAA--CG--A
* **
878471 TGAAAATCGCAACGCGAAATGAAAATCGCAA
1 -GAGAATCGCAACGCGAAATGACTATCGCAA
878502 TGCGATTTGG
Statistics
Matches: 89, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
33 44 0.49
34 13 0.15
35 2 0.02
37 1 0.01
38 29 0.33
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACGA
Found at i:878459 original size:19 final size:19
Alignment explanation
Indices: 878437--878506 Score: 131
Period size: 19 Copynumber: 3.7 Consensus size: 19
878427 GCGACGAGAG
878437 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
878456 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
878475 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
878494 AATCGCAATGCGA
1 AATCGCAACGCGA
878507 TTTGGTTTCG
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 50 1.00
ACGTcount: A:0.46, C:0.21, G:0.21, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:878523 original size:18 final size:18
Alignment explanation
Indices: 878502--878566 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
878492 AAAATCGCAA
*
878502 TGCGATTTGGTTTCGCGT
1 TGCGATTTGATTTCGCGT
*
878520 TGCGATTTTTATTTCGCGT
1 TGCGA-TTTGATTTCGCGT
*
878539 TGCGATAGTT-ATTTCCGCTT
1 TGCGAT--TTGATTT-CGCGT
878559 TGCGATTT
1 TGCGATTT
878567 TCATTCTCGA
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
18 8 0.20
19 20 0.50
20 12 0.30
ACGTcount: A:0.11, C:0.17, G:0.25, T:0.48
Consensus pattern (18 bp):
TGCGATTTGATTTCGCGT
Found at i:878536 original size:19 final size:19
Alignment explanation
Indices: 878512--878567 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
878502 TGCGATTTGG
878512 TTTCGCGTTGCGATTTTTA
1 TTTCGCGTTGCGATTTTTA
**
878531 TTTCGCGTTGCGATAGTTA
1 TTTCGCGTTGCGATTTTTA
*
878550 TTTCCGCTTTGCGATTTT
1 TTT-CGCGTTGCGATTTT
878568 CATTCTCGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 20 0.65
20 11 0.35
ACGTcount: A:0.11, C:0.18, G:0.21, T:0.50
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTTA
Found at i:879115 original size:20 final size:20
Alignment explanation
Indices: 879090--879203 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
879080 CGCTAAGTAA
* *
879090 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
879110 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
879130 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
879151 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
879171 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
879191 ATCGCATTGCGAT
1 ATCGCATTGCGAT
879204 TTTCCCAATT
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
20 67 0.84
21 13 0.16
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:879192 original size:61 final size:61
Alignment explanation
Indices: 879090--879206 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 61
879080 CGCTAAGTAA
* * * *
879090 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTATT
* * *
879151 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT
879207 CCCAATTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTTTATT
Found at i:879222 original size:41 final size:41
Alignment explanation
Indices: 879192--879287 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
879182 ATAGTCAGTA
* * *
879192 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
879233 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
879274 TCGCATTGCGAATT
1 TCGCATTGCGAATT
879288 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:879222 original size:61 final size:61
Alignment explanation
Indices: 879090--879224 Score: 164
Period size: 61 Copynumber: 2.2 Consensus size: 61
879080 CGCTAAGTAA
* * * * ** *
879090 ATCGCGTTGCGAAAGTCAGTATCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTCCAAT
* * *
879151 ATCGCATTGCGATAGTCAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTT-CCAAT
879213 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
879225 TTACTTATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
61 60 0.97
62 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTCAGTATCGCATTGCGAAAGTAAGTATCGCATTGCGATTTTCCAAT
Found at i:879236 original size:20 final size:20
Alignment explanation
Indices: 879192--879284 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
879182 ATAGTCAGTA
* **
879192 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
879213 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
879233 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
879254 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
879274 TCGCATTGCGA
1 TCGCATTGCGA
879285 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:879388 original size:20 final size:19
Alignment explanation
Indices: 879363--879426 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
879353 CAACGCGTAT
*
879363 TTGCGATAATGGAGATCGCG
1 TTGCGA-AATAGAGATCGCG
* *
879383 TTGCGAATTAGCGATCGCG
1 TTGCGAAATAGAGATCGCG
* * *
879402 TTGCGAATTAGCGATCGCA
1 TTGCGAAATAGAGATCGCG
879421 TTGCGA
1 TTGCGA
879427 TTTTGTTGGT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 34 0.85
20 6 0.15
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (19 bp):
TTGCGAAATAGAGATCGCG
Found at i:879400 original size:19 final size:19
Alignment explanation
Indices: 879376--879426 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
879366 CGATAATGGA
879376 GATCGCGTTGCGAATTAGC
1 GATCGCGTTGCGAATTAGC
879395 GATCGCGTTGCGAATTAGC
1 GATCGCGTTGCGAATTAGC
*
879414 GATCGCATTGCGA
1 GATCGCGTTGCGA
879427 TTTTGTTGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.25
Consensus pattern (19 bp):
GATCGCGTTGCGAATTAGC
Found at i:880915 original size:7 final size:7
Alignment explanation
Indices: 880891--880971 Score: 72
Period size: 7 Copynumber: 11.4 Consensus size: 7
880881 GCCCTAAATG
880891 CTAAACC
1 CTAAACC
* *
880898 ATAAAATC
1 CT-AAACC
880906 CTAAACC
1 CTAAACC
**
880913 CTAAATA
1 CTAAACC
*
880920 CTAAACT
1 CTAAACC
880927 CTAAACC
1 CTAAACC
*
880934 CTAAACT
1 CTAAACC
**
880941 CTAAATA
1 CTAAACC
880948 CTAAACC
1 CTAAACC
*
880955 ATAAACC
1 CTAAACC
880962 CTAAACC
1 CTAAACC
880969 CTA
1 CTA
880972 TCACACGATT
Statistics
Matches: 57, Mismatches: 16, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
7 52 0.91
8 5 0.09
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:880945 original size:28 final size:28
Alignment explanation
Indices: 880882--880971 Score: 128
Period size: 28 Copynumber: 3.2 Consensus size: 28
880872 AAACTTTAGG
* *
880882 CCCTAAATGCTAAACCATAAAATCCTAAA
1 CCCTAAATACTAAACCAT-AAACCCTAAA
880911 CCCTAAATACTAAACTC-TAAACCCTAAA
1 CCCTAAATACTAAAC-CATAAACCCTAAA
*
880939 CTCTAAATACTAAACCATAAACCCTAAA
1 CCCTAAATACTAAACCATAAACCCTAAA
880967 CCCTA
1 CCCTA
880972 TCACACGATT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 38 0.69
29 15 0.27
30 1 0.02
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (28 bp):
CCCTAAATACTAAACCATAAACCCTAAA
Found at i:881380 original size:22 final size:22
Alignment explanation
Indices: 881352--881398 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
881342 ATGTCGTGAT
881352 GCTTATGTATATCATTATATTA
1 GCTTATGTATATCATTATATTA
881374 GCTTATGTATATCATTATATTA
1 GCTTATGTATATCATTATATTA
881396 GCT
1 GCT
881399 GCTGCGCGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (22 bp):
GCTTATGTATATCATTATATTA
Found at i:881492 original size:2 final size:2
Alignment explanation
Indices: 881487--881517 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
881477 TCTCTCTCTC
881487 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
881518 AACCCTAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:885254 original size:21 final size:22
Alignment explanation
Indices: 885204--885276 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
885194 GTCAAGGGTT
*
885204 CTATGTGGTCTTTCGGGACAAA
1 CTATGTGGTCCTTCGGGACAAA
*
885226 CCTATGTGGTCCTTCGGGATAAA
1 -CTATGTGGTCCTTCGGGACAAA
885249 -TATGTGG-CACTTCGGTG-CAAA
1 CTATGTGGTC-CTTCGG-GACAAA
*
885270 TTATGTG
1 CTATGTG
885277 AGCAATGGTG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
20 1 0.02
21 16 0.36
22 7 0.16
23 20 0.45
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (22 bp):
CTATGTGGTCCTTCGGGACAAA
Found at i:886488 original size:33 final size:33
Alignment explanation
Indices: 886446--886511 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
886436 ACAATGAGAG
*
886446 CATCTAAAGATCAAGTGAGGTGGCCGTTCTTTT
1 CATCTAAAGATCAAGTGACGTGGCCGTTCTTTT
*
886479 CATCTAAAGATCAAGTGACGTGGTCGTTCTTTT
1 CATCTAAAGATCAAGTGACGTGGCCGTTCTTTT
886512 TGGAAGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.24, C:0.18, G:0.23, T:0.35
Consensus pattern (33 bp):
CATCTAAAGATCAAGTGACGTGGCCGTTCTTTT
Found at i:893239 original size:30 final size:30
Alignment explanation
Indices: 893203--893272 Score: 106
Period size: 30 Copynumber: 2.3 Consensus size: 30
893193 AGCTGAGATG
893203 TGCAGTTTTTGCTCAT-TATATATCATTCGA
1 TGCAGTTTTTGCTCATGTA-ATATCATTCGA
*
893233 TGCAGTTTTTGCTCATGTAATGTCATTCGA
1 TGCAGTTTTTGCTCATGTAATATCATTCGA
*
893263 TACAGTTTTT
1 TGCAGTTTTT
893273 ACCACAAGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 35 0.95
31 2 0.05
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (30 bp):
TGCAGTTTTTGCTCATGTAATATCATTCGA
Found at i:896595 original size:21 final size:20
Alignment explanation
Indices: 896549--896602 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
896539 GATTCTGACT
896549 ATCGCATTGCGATTTCTCAA
1 ATCGCATTGCGATTTCTCAA
*
896569 ATTCGCGTTGCGATTT-TCCTAA
1 A-TCGCATTGCGATTTCT-C-AA
*
896591 ATCGCAATGCGA
1 ATCGCATTGCGA
896603 AGTAGAATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 2 0.07
21 23 0.82
22 3 0.11
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATTTCTCAA
Found at i:896653 original size:21 final size:21
Alignment explanation
Indices: 896610--896720 Score: 154
Period size: 21 Copynumber: 5.4 Consensus size: 21
896600 CGAAGTAGAA
* *
896610 TGCGATTTACGTAA-TCGCAT
1 TGCGATTTTCCTAATTCGCAT
* *
896630 TGCAATTTTCCTAATTCGCTT
1 TGCGATTTTCCTAATTCGCAT
* *
896651 TGCGATTTACGTAA-TCGCAT
1 TGCGATTTTCCTAATTCGCAT
896671 TGCGATTTTCCTAATTCGCAT
1 TGCGATTTTCCTAATTCGCAT
896692 TGCGATTTTCCTAATTCGCAT
1 TGCGATTTTCCTAATTCGCAT
896713 TGCGATTT
1 TGCGATTT
896721 ACATAGCGCC
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
20 28 0.35
21 51 0.65
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (21 bp):
TGCGATTTTCCTAATTCGCAT
Found at i:896655 original size:41 final size:41
Alignment explanation
Indices: 896610--896720 Score: 177
Period size: 41 Copynumber: 2.7 Consensus size: 41
896600 CGAAGTAGAA
* *
896610 TGCGATTTACGTAATCGCATTGCAATTTTCCTAATTCGCTT
1 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCAT
896651 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCAT
1 TGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCAT
* *
896692 TGCGATTTTCCTAATTCGCATTGCGATTT
1 TGCGATTTACGTAA-TCGCATTGCGATTT
896721 ACATAGCGCC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
41 51 0.78
42 14 0.22
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (41 bp):
TGCGATTTACGTAATCGCATTGCGATTTTCCTAATTCGCAT
Found at i:897315 original size:21 final size:21
Alignment explanation
Indices: 897254--897332 Score: 83
Period size: 20 Copynumber: 3.9 Consensus size: 21
897244 TTCTAAACTT
*
897254 AAAATCGCAAC-ATGA-AAACG
1 AAAATCGCAACGA-GAGAAATG
* *
897274 AAAATCGCAAC-ACAAAAATG
1 AAAATCGCAACGAGAGAAATG
**
897294 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGAGAAATG
897315 AAAATCGCAACGAGAGAA
1 AAAATCGCAACGAGAGAA
897333 TCGCAACGCG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
19 1 0.02
20 25 0.51
21 23 0.47
ACGTcount: A:0.53, C:0.19, G:0.18, T:0.10
Consensus pattern (21 bp):
AAAATCGCAACGAGAGAAATG
Found at i:897465 original size:20 final size:19
Alignment explanation
Indices: 897352--897488 Score: 202
Period size: 19 Copynumber: 7.1 Consensus size: 19
897342 GAAACCAAAA
*
897352 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
897371 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
897390 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
897409 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
897428 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
897447 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
897467 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
897487 TC
1 TC
897489 AACCAAAAGA
Statistics
Matches: 108, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
19 74 0.69
20 33 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.21, G:0.20, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:899440 original size:94 final size:94
Alignment explanation
Indices: 899279--899628 Score: 630
Period size: 94 Copynumber: 3.7 Consensus size: 94
899269 CGGTTGCTGC
*
899279 CTAAACTGCGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
1 CTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
899344 GTAAATTTGTTCGGTTGCTGCCAATTCTG
66 GTAAATTTGTTCGGTTGCTGCCAATTCTG
899373 CTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
1 CTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
899438 GTAAATTTGTTCGGTTGCTGCCAATTCTG
66 GTAAATTTGTTCGGTTGCTGCCAATTCTG
* *
899467 CTAAACTGTGTATTATTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAAA
1 CTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
*
899532 GTAAATTTGTTCGTTTGCTGCCAATTCTG
66 GTAAATTTGTTCGGTTGCTGCCAATTCTG
* * *
899561 CTAAACTGTGTATTCTTTAATACTCTGAAGTTAGTATTTGTCTTTGTTTTGTCATTTGGTTG-AA
1 CTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
899625 GTAA
66 GTAA
899629 TGCAATCCAT
Statistics
Matches: 248, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
93 6 0.02
94 242 0.98
ACGTcount: A:0.21, C:0.13, G:0.19, T:0.47
Consensus pattern (94 bp):
CTAAACTGTGTATTCTTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAAA
GTAAATTTGTTCGGTTGCTGCCAATTCTG
Found at i:899565 original size:188 final size:179
Alignment explanation
Indices: 899169--899628 Score: 687
Period size: 188 Copynumber: 2.5 Consensus size: 179
899159 TAGATTGCTT
* * *
899169 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
* * *
899230 ATTTATCTTT-TGTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCTAAACTGCGTATTC
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCTAAACTGCGTATTA
*
899294 TTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
899343 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
899408 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAAC
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-AAGTAAATTTATTCGGTTGCTG------C--CTAAAC
*
899473 TGTGTATTATTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
122 TGCGTATTATTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
* * *
899531 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
899596 ATTTGTCTTTGTTTTGTCATTTGGTTGAAGTAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAA
899629 TGCAATCCAT
Statistics
Matches: 259, Mismatches: 13, Indels: 15
0.90 0.05 0.05
Matches are distributed among these distances:
174 34 0.13
176 3 0.01
177 2 0.01
178 28 0.11
179 15 0.06
180 21 0.08
186 1 0.00
187 6 0.02
188 149 0.58
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (179 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGAAGTAAATTTATTCGGTTGCTGCCTAAACTGCGTATTA
TTTAACACTGTGAAGTTAGTATTTGTCTTTGTTTTGTCCTTTGGTTGAA
Found at i:899735 original size:20 final size:19
Alignment explanation
Indices: 899710--899823 Score: 147
Period size: 20 Copynumber: 5.8 Consensus size: 19
899700 TCTTTTGGTT
*
899710 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
899729 GAGAATGAAAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
*
899749 GAAACGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
899768 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
899787 GAAACCAAAAAGCGCAACGC
1 GAAA-TGAAAATCGCAACGC
*
899807 GAAATCAAAAATCGCAA
1 GAAAT-GAAAATCGCAA
899824 TCATTCCGCA
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
19 40 0.48
20 44 0.52
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.08
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:899775 original size:58 final size:59
Alignment explanation
Indices: 899710--899823 Score: 160
Period size: 58 Copynumber: 1.9 Consensus size: 59
899700 TCTTTTGGTT
** * *
899710 GAAATGAAAATCGCAACGAGAGAA-TGAAAATCGCAACGCGAAA-CGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGAGA-AACCAAAAAGCGCAACGCGAAATCAAAAATCGCAACGC
*
899768 GAAATGAAAATCGCAACGCGAAACCAAAAAGCGCAACGCGAAATCAAAAATCGCAA
1 GAAATGAAAATCGCAACGAGAAACCAAAAAGCGCAACGCGAAATCAAAAATCGCAA
899824 TCATTCCGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 2 0.04
58 36 0.73
59 11 0.22
ACGTcount: A:0.50, C:0.22, G:0.20, T:0.08
Consensus pattern (59 bp):
GAAATGAAAATCGCAACGAGAAACCAAAAAGCGCAACGCGAAATCAAAAATCGCAACGC
Found at i:899876 original size:33 final size:33
Alignment explanation
Indices: 899824--899906 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
899814 AAAATCGCAA
* * *
899824 TCATTCCGCATTGCAATTCTCTCGTTACGATTT
1 TCATTTCGCGTTGCGATTCTCTCGTTACGATTT
* *
899857 TCATTTCGTGTTGCGATTCTCTCGTTGCGATTT
1 TCATTTCGCGTTGCGATTCTCTCGTTACGATTT
899890 TCATTTCGCGTTGCGAT
1 TCATTTCGCGTTGCGAT
899907 AATCATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTTACGATTT
Found at i:899903 original size:19 final size:19
Alignment explanation
Indices: 899846--899906 Score: 60
Period size: 19 Copynumber: 3.5 Consensus size: 19
899836 GCAATTCTCT
*
899846 CGTTACGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
899865 TGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
899879 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
899898 CGTTGCGAT
1 CGTTGCGAT
899907 AATCATTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 10
0.68 0.11 0.21
Matches are distributed among these distances:
14 9 0.28
16 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:900401 original size:21 final size:21
Alignment explanation
Indices: 900377--900443 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
900367 TCATTCCTCG
900377 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
900398 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
900419 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
900440 AGAG
1 AGAG
900444 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:900401 original size:42 final size:42
Alignment explanation
Indices: 900325--900443 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
900315 GACTCGCCTG
* * * * * * *
900325 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
900367 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
900409 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
900444 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:901829 original size:14 final size:14
Alignment explanation
Indices: 901798--901833 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
901788 GATTGTTTAA
901798 TTGATTTG-AAAAG
1 TTGATTTGTAAAAG
*
901811 ATGATTTGTAAAAG
1 TTGATTTGTAAAAG
901825 TTGATTTGT
1 TTGATTTGT
901834 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:901962 original size:19 final size:19
Alignment explanation
Indices: 901940--902038 Score: 76
Period size: 19 Copynumber: 5.7 Consensus size: 19
901930 AAAAATGACT
*
901940 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
901959 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
*
901973 ATTGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
901992 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATGAAA
902006 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TGAAA
902025 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
902039 CTAAATTCGT
Statistics
Matches: 64, Mismatches: 5, Indels: 22
0.70 0.05 0.24
Matches are distributed among these distances:
14 19 0.30
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 33 0.52
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:901990 original size:33 final size:33
Alignment explanation
Indices: 901940--902033 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
901930 AAAAATGACT
* * *
901940 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
901973 ATTGCAACGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
902006 ATCGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAACGCGAAA-TGAAAATCGCAACG
902034 CGAAACTAAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 54 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:902039 original size:19 final size:19
Alignment explanation
Indices: 901976--902043 Score: 85
Period size: 19 Copynumber: 3.8 Consensus size: 19
901966 CGAGAGAATT
901976 GCAACGCGAAA-TGAAAATC
1 GCAACGCGAAACT-AAAATC
901995 GCAA--CG--AC-AAAATC
1 GCAACGCGAAACTAAAATC
902009 GCAACGCGAAACTAAAATC
1 GCAACGCGAAACTAAAATC
902028 GCAACGCGAAACTAAA
1 GCAACGCGAAACTAAA
902044 TTCGTGTTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
14 10 0.23
15 1 0.02
16 2 0.05
17 2 0.05
18 2 0.05
19 26 0.60
ACGTcount: A:0.49, C:0.25, G:0.18, T:0.09
Consensus pattern (19 bp):
GCAACGCGAAACTAAAATC
Found at i:902091 original size:33 final size:33
Alignment explanation
Indices: 902049--902174 Score: 198
Period size: 33 Copynumber: 3.8 Consensus size: 33
902039 CTAAATTCGT
* * *
902049 GTTGCGATTTTCATTTCGCTTTGTGATTCCCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
902082 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* *
902115 GTTGCAATTTTCATTTCACATTGCGATTCTCTC
1 GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
*
902148 GTTGTGATTTTCATTTCGCATTGCGAT
1 GTTGCGATTTTCATTTCGCATTGCGAT
902175 AGTCATTTCC
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.13, C:0.22, G:0.17, T:0.47
Consensus pattern (33 bp):
GTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:902107 original size:19 final size:19
Alignment explanation
Indices: 902083--902174 Score: 69
Period size: 19 Copynumber: 5.4 Consensus size: 19
902073 GATTCCCTCG
902083 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
902102 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
* *
902116 TTGCAATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
*
902135 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
902149 TTGTGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
902168 TTGCGAT
1 TTGCGAT
902175 AGTCATTTCC
Statistics
Matches: 53, Mismatches: 10, Indels: 20
0.64 0.12 0.24
Matches are distributed among these distances:
14 10 0.19
16 13 0.25
17 13 0.25
19 17 0.32
ACGTcount: A:0.15, C:0.22, G:0.16, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:902196 original size:20 final size:19
Alignment explanation
Indices: 902158--902201 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
902148 GTTGTGATTT
*
902158 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTACGATAG
*
902177 TCATTTCCGCGTTACGATAG
1 TCATTT-CGCATTACGATAG
*
902197 ACATT
1 TCATT
902202 AAGATGATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (19 bp):
TCATTTCGCATTACGATAG
Found at i:902240 original size:20 final size:20
Alignment explanation
Indices: 902168--902240 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
902158 TCATTTCGCA
*
902168 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGTG
* * **
902188 TTACGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTCCG-TG
902208 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTCCGTG
902229 TTGCGATAGTCA
1 TTGCGATAGTCA
902241 AATGAATGCC
Statistics
Matches: 39, Mismatches: 9, Indels: 10
0.67 0.16 0.17
Matches are distributed among these distances:
19 3 0.08
20 22 0.56
21 11 0.28
22 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGTG
Found at i:904738 original size:22 final size:23
Alignment explanation
Indices: 904708--904751 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
904698 ATCATCAAAA
904708 TCCGAGTA-TGACCAAGATCAAG
1 TCCGAGTATTGACCAAGATCAAG
*
904730 TCCGGGTATTGACCAAGATCAA
1 TCCGAGTATTGACCAAGATCAA
904752 ATTTCGAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (23 bp):
TCCGAGTATTGACCAAGATCAAG
Found at i:905663 original size:21 final size:21
Alignment explanation
Indices: 905619--905796 Score: 121
Period size: 21 Copynumber: 8.7 Consensus size: 21
905609 GCGATTTACT
* *
905619 AAATCACAATGCG-ATTACGT
1 AAATCGCAATGCGAATTACGA
*
905639 AAATCGCAATGCGAATTAGGA
1 AAATCGCAATGCGAATTACGA
* *
905660 AAATCGCAATGCGAAGTAGGA
1 AAATCGCAATGCGAATTACGA
905681 AAATCGCAATGCGAA-TACG-
1 AAATCGCAATGCGAATTACGA
* * * * **
905700 TAATCGCATTGCGATTTTCCT
1 AAATCGCAATGCGAATTACGA
** * *
905721 ACTTCGCATTGCGATTTACG-
1 AAATCGCAATGCGAATTACGA
* * * *
905741 TAATCGCATTGCGATTTAGGA
1 AAATCGCAATGCGAATTACGA
* ** *
905762 AAATCGCAACGCGAATTTGGG
1 AAATCGCAATGCGAATTACGA
905783 AAATCGCAATGCGA
1 AAATCGCAATGCGA
905797 TAGTCAGAAT
Statistics
Matches: 128, Mismatches: 26, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
19 12 0.09
20 33 0.26
21 83 0.65
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (21 bp):
AAATCGCAATGCGAATTACGA
Found at i:905713 original size:81 final size:81
Alignment explanation
Indices: 905628--905777 Score: 176
Period size: 81 Copynumber: 1.9 Consensus size: 81
905618 TAAATCACAA
* * *
905628 TGCGA-TTACGTAAATCGCAATGCGAATTAGGAAAATCGCAATGCGAAGTAGGAAAATCGCAATG
1 TGCGATTTACCTAAATCGCAATGCGAATTACG-AAATCGCAATGCGAAGTAGGAAAATCGCAACG
905692 CGAATACGTAATCGCAT
65 CGAATACGTAATCGCAT
* ** * * * * **
905709 TGCGATTTTCCTACTTCGCATTGCGATTTACGTAATCGCATTGCGATTTAGGAAAATCGCAACGC
1 TGCGATTTACCTAAATCGCAATGCGAATTACGAAATCGCAATGCGAAGTAGGAAAATCGCAACGC
905774 GAAT
66 GAAT
905778 TTGGGAAATC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
81 37 0.66
82 19 0.34
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (81 bp):
TGCGATTTACCTAAATCGCAATGCGAATTACGAAATCGCAATGCGAAGTAGGAAAATCGCAACGC
GAATACGTAATCGCAT
Found at i:906300 original size:13 final size:13
Alignment explanation
Indices: 906282--906306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
906272 TGCATTACAG
906282 TTCAATTAGTTAA
1 TTCAATTAGTTAA
906295 TTCAATTAGTTA
1 TTCAATTAGTTA
906307 GTTAACAAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TTCAATTAGTTAA
Found at i:908799 original size:21 final size:21
Alignment explanation
Indices: 908775--908815 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
908765 GAGTGATAGT
908775 ATAAAGGAAAAATACATGCAC
1 ATAAAGGAAAAATACATGCAC
* * *
908796 ATAAAGTATAAATATATGCA
1 ATAAAGGAAAAATACATGCA
908816 AGGAAACATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (21 bp):
ATAAAGGAAAAATACATGCAC
Found at i:910973 original size:2 final size:2
Alignment explanation
Indices: 910966--911031 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
910956 AAAAATGATA
910966 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
911008 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
911032 GCAGCCCTAG
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:911972 original size:14 final size:14
Alignment explanation
Indices: 911953--911979 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
911943 TTTATAGCTA
911953 TAAAATATTTTTCG
1 TAAAATATTTTTCG
911967 TAAAATATTTTTC
1 TAAAATATTTTTC
911980 AGTGTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.07, G:0.04, T:0.52
Consensus pattern (14 bp):
TAAAATATTTTTCG
Found at i:912402 original size:19 final size:19
Alignment explanation
Indices: 912364--912409 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
912354 TAATAATGAA
*
912364 TAATATTAATTTATACATT
1 TAATATTAATTAATACATT
912383 TAATATTAATATAATA-ATT
1 TAATATTAAT-TAATACATT
*
912402 TAGTATTA
1 TAATATTA
912410 TGTTATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATATTAATTAATACATT
Found at i:912770 original size:30 final size:30
Alignment explanation
Indices: 912725--912801 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
912715 CAGAAAATGC
* *
912725 AATTTATTTTACGTAAAACAATTTTCATGT
1 AATTCATTTTACGTAAAACAATTTTCAGGT
*
912755 AATTCATTCTACGTAAAACAATTTTCAGGT
1 AATTCATTTTACGTAAAACAATTTTCAGGT
*
912785 AATTCATTTTACATAAA
1 AATTCATTTTACGTAAA
912802 TTATTTTCCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.39, C:0.13, G:0.06, T:0.42
Consensus pattern (30 bp):
AATTCATTTTACGTAAAACAATTTTCAGGT
Found at i:914079 original size:168 final size:169
Alignment explanation
Indices: 913800--914137 Score: 669
Period size: 168 Copynumber: 2.0 Consensus size: 169
913790 TTCACGATCG
913800 GCTTGGAGCTCTCCATCATGGACCCAAATATTCCTCCTATTTCAAAGGTTCCAAAGAAGAATTAC
1 GCTTGGAGCTCTCCATCATGGACCCAAATATTCCTCCTATTTCAAAGGTTCCAAAGAAGAATTAC
913865 CATCCGAGCAAATCCCTCTCTGTCCAGCAAGTTGCTTGCGTGTTCGAGCCATTCTTTGCATGAAT
66 CATCCGAGCAAATCCCTCTCTGTCCAGCAAGTTGCTTGCGTGTTCGAGCCATTCTTTGCATGAAT
913930 CTATTTGCATGCAAACAATCGAATGGTTCATCCCAGAAA
131 CTATTTGCATGCAAACAATCGAATGGTTCATCCCAGAAA
913969 GCTTGGAGCTCTCCATCATGGACCCAAATATTCCTCCTATTTCAAAGGTTCCAAA-AAGAATTAC
1 GCTTGGAGCTCTCCATCATGGACCCAAATATTCCTCCTATTTCAAAGGTTCCAAAGAAGAATTAC
914033 CATCCGAGCAAATCCCTCTCTGTCCAGCAAGTTGCTTGCGTGTTCGAGCCATTCTTTGCATGAAT
66 CATCCGAGCAAATCCCTCTCTGTCCAGCAAGTTGCTTGCGTGTTCGAGCCATTCTTTGCATGAAT
914098 CTATTTGCATGCAAACAATCGAATGGTTCATCCCAGAAA
131 CTATTTGCATGCAAACAATCGAATGGTTCATCCCAGAAA
914137 G
1 G
914138 GGTGAATATA
Statistics
Matches: 169, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
168 114 0.67
169 55 0.33
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (169 bp):
GCTTGGAGCTCTCCATCATGGACCCAAATATTCCTCCTATTTCAAAGGTTCCAAAGAAGAATTAC
CATCCGAGCAAATCCCTCTCTGTCCAGCAAGTTGCTTGCGTGTTCGAGCCATTCTTTGCATGAAT
CTATTTGCATGCAAACAATCGAATGGTTCATCCCAGAAA
Found at i:924716 original size:85 final size:85
Alignment explanation
Indices: 924573--924742 Score: 331
Period size: 85 Copynumber: 2.0 Consensus size: 85
924563 ATGGTGAAGG
*
924573 ATTATTATGGATTAAATAGGAAAGTTGATATGAAATCTAAAAAGAATCTATAATTAGTGGTTGGA
1 ATTATTATGGATTAAATAGGAAAGTTGATATGAAATCTAAAAAGAATATATAATTAGTGGTTGGA
924638 TTATGAAATTAGTAAAAGTT
66 TTATGAAATTAGTAAAAGTT
924658 ATTATTATGGATTAAATAGGAAAGTTGATATGAAATCTAAAAAGAATATATAATTAGTGGTTGGA
1 ATTATTATGGATTAAATAGGAAAGTTGATATGAAATCTAAAAAGAATATATAATTAGTGGTTGGA
924723 TTATGAAATTAGTAAAAGTT
66 TTATGAAATTAGTAAAAGTT
924743 GAAGAGTTGA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 84 1.00
ACGTcount: A:0.44, C:0.02, G:0.19, T:0.35
Consensus pattern (85 bp):
ATTATTATGGATTAAATAGGAAAGTTGATATGAAATCTAAAAAGAATATATAATTAGTGGTTGGA
TTATGAAATTAGTAAAAGTT
Found at i:925934 original size:17 final size:17
Alignment explanation
Indices: 925912--925969 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
925902 ATGATTTTTT
925912 AGTTATAAGATATTTAC
1 AGTTATAAGATATTTAC
**
925929 AGTTATCAA-ATGATTTTT
1 AGTTAT-AAGAT-ATTTAC
* *
925947 AGTTGTCAGATATTTAC
1 AGTTATAAGATATTTAC
925964 AGTTAT
1 AGTTAT
925970 CAAATGTTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
17 18 0.58
18 13 0.42
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (17 bp):
AGTTATAAGATATTTAC
Found at i:925935 original size:36 final size:36
Alignment explanation
Indices: 925894--925979 Score: 131
Period size: 35 Copynumber: 2.4 Consensus size: 36
925884 AATGTTTGTG
*
925894 GTTATCATATGATTTTTTAGTTATAAGATATTTACA
1 GTTATCAAATGATTTTTTAGTTATAAGATATTTACA
* *
925930 GTTATCAAATGA-TTTTTAGTTGTCAGATATTTACA
1 GTTATCAAATGATTTTTTAGTTATAAGATATTTACA
925965 GTTATCAAATG-TTTT
1 GTTATCAAATGATTTT
925980 ACAATTATCA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
35 35 0.76
36 11 0.24
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.49
Consensus pattern (36 bp):
GTTATCAAATGATTTTTTAGTTATAAGATATTTACA
Found at i:925944 original size:18 final size:18
Alignment explanation
Indices: 925923--925989 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
925913 GTTATAAGAT
925923 ATTTACAGTTATCAAATG
1 ATTTACAGTTATCAAATG
** * *
925941 ATTTTTAGTTGTCAGAT-
1 ATTTACAGTTATCAAATG
925958 ATTTACAGTTATCAAATG
1 ATTTACAGTTATCAAATG
* *
925976 TTTTACAATTATCA
1 ATTTACAGTTATCA
925990 GATGTAGATT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
17 13 0.34
18 25 0.66
ACGTcount: A:0.34, C:0.10, G:0.10, T:0.45
Consensus pattern (18 bp):
ATTTACAGTTATCAAATG
Found at i:925991 original size:35 final size:35
Alignment explanation
Indices: 925894--925992 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
925884 AATGTTTGTG
* * * *
925894 GTTATCATATGATTTTTTAGTTATAAGATATTTACA
1 GTTATCAAATGA-TTTTCAATTATCAGATATTTACA
* * *
925930 GTTATCAAATGATTTTTAGTTGTCAGATATTTACA
1 GTTATCAAATGATTTTCAATTATCAGATATTTACA
925965 GTTATCAAATG-TTTTACAATTATCAGAT
1 GTTATCAAATGATTTT-CAATTATCAGAT
925993 GTAGATTAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
34 4 0.07
35 41 0.73
36 11 0.20
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.46
Consensus pattern (35 bp):
GTTATCAAATGATTTTCAATTATCAGATATTTACA
Found at i:925994 original size:18 final size:18
Alignment explanation
Indices: 925959--925994 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
925949 TTGTCAGATA
*
925959 TTTACAGTTATCAAATGT
1 TTTACAATTATCAAATGT
*
925977 TTTACAATTATCAGATGT
1 TTTACAATTATCAAATGT
925995 AGATTAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (18 bp):
TTTACAATTATCAAATGT
Found at i:943414 original size:10 final size:10
Alignment explanation
Indices: 943399--943425 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
943389 ACTTGATGAT
943399 TTTGAATTAA
1 TTTGAATTAA
943409 TTTGAATTAA
1 TTTGAATTAA
943419 TTTGAAT
1 TTTGAAT
943426 AGGAGTCGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (10 bp):
TTTGAATTAA
Found at i:944183 original size:16 final size:16
Alignment explanation
Indices: 944162--944208 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
944152 GTAATCAGCG
**
944162 GTTAGAAAAGTTAGTT
1 GTTAGAAAAGTTAGCA
944178 GTTAGAAAAGTTAGCA
1 GTTAGAAAAGTTAGCA
944194 GTTAGAAAAGTTAGC
1 GTTAGAAAAGTTAGC
944209 GATTACCAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.40, C:0.04, G:0.26, T:0.30
Consensus pattern (16 bp):
GTTAGAAAAGTTAGCA
Found at i:944473 original size:139 final size:135
Alignment explanation
Indices: 944321--944601 Score: 384
Period size: 139 Copynumber: 2.1 Consensus size: 135
944311 TAAAAAAGTT
* * * *
944321 GTAGTTAGTAGAGTTTGAACCATTATAATGTAGATCATACCCTGGATC-GAGTCACCACAAGGTC
1 GTAGTTAGCAGAGTCTGAACCATAATAATGTAGATCATACCCCGGATCTG-GTCACCACAAGGTC
*** * * *
944385 GGTTCAAATATTAGAAATAATAAGTAAATAAATAAATAAATAAACAATGGTTAGAGTGCAATAAA
65 AAATCAAATATTAGAAACAATAAG----TAAATAAATAAATAAACAATGATTAGAGTGAAATAAA
944450 ATAAAAGTCA
126 ATAAAAGTCA
*
944460 GTAGTTAGCAGAGTCTGAACCATAATAATGTGGATCATACCCCGGATCTGGTCACCACAAGGTCA
1 GTAGTTAGCAGAGTCTGAACCATAATAATGTAGATCATACCCCGGATCTGGTCACCACAAGGTCA
*
944525 AATCGAATATTAGAAACAATAAGTAAATAAATAAATAAACAATGATTAGAGTGAAATAAAATAAA
66 AATCAAATATTAGAAACAATAAGTAAATAAATAAATAAACAATGATTAGAGTGAAATAAAATAAA
* *
944590 ATTTA
131 AGTCA
944595 GTAGTTA
1 GTAGTTA
944602 ACTTGAAATA
Statistics
Matches: 127, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
135 50 0.39
139 76 0.60
140 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (135 bp):
GTAGTTAGCAGAGTCTGAACCATAATAATGTAGATCATACCCCGGATCTGGTCACCACAAGGTCA
AATCAAATATTAGAAACAATAAGTAAATAAATAAATAAACAATGATTAGAGTGAAATAAAATAAA
AGTCA
Found at i:946347 original size:18 final size:17
Alignment explanation
Indices: 946314--946346 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
946304 ATACTTATTT
946314 ATATAAAATATAATATA
1 ATATAAAATATAATATA
*
946331 ATATGAAA-ATAATATA
1 ATATAAAATATAATATA
946347 TTGATCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (17 bp):
ATATAAAATATAATATA
Found at i:949853 original size:77 final size:80
Alignment explanation
Indices: 949760--949920 Score: 258
Period size: 77 Copynumber: 2.0 Consensus size: 80
949750 AATTTTAATA
949760 TATATATATTTAATTTGATATAA-TTTTTTATTTAATAAAATTATA-TTTTTATTGGT-GCGTGA
1 TATATATATTTAATTTGATATAAGTTTTTTATTTAATAAAATTATATTTTTTATTGGTAGCGTGA
*
949822 AT-TCAATGTAATATT
66 ATAT-AATATAATATT
*
949837 TATATATATTTAATTTGATATAAGTTTTTTATTTAATAAAATTATATTTTTTATTGGTACGGGTG
1 TATATATATTTAATTTGATATAAGTTTTTTATTTAATAAAATTATATTTTTTATTGGTA-GCGTG
949902 AATATAATATAATATT
65 AATATAATATAATATT
949918 TAT
1 TAT
949921 TTGAAAGACT
Statistics
Matches: 77, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
77 23 0.30
78 22 0.29
79 11 0.14
81 20 0.26
82 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.09, T:0.53
Consensus pattern (80 bp):
TATATATATTTAATTTGATATAAGTTTTTTATTTAATAAAATTATATTTTTTATTGGTAGCGTGA
ATATAATATAATATT
Found at i:956172 original size:122 final size:122
Alignment explanation
Indices: 956022--956253 Score: 295
Period size: 122 Copynumber: 1.9 Consensus size: 122
956012 TTAACATAAG
* ** * * * *
956022 TTTTGAAAAAATTACAAGTTTAGGTACTAAAACGAATAAAAAATTATAGTTTAGGTACTAAACAC
1 TTTTGAAAAAATTACAAGGTTAAATACTAAAACGAACAAAAAATGATAATTTAGGTAATAAACAC
* ** * *
956087 ATTAAGTTTTTAATGATGTGGTAGTAAAATGAAATGAAAACTAAACATTAGGCATGT
66 ATTAAGTTATTAATGATGAAGTAATAAAATAAAATGAAAACTAAACATTAGGCATGT
* * *
956144 TTTTGAAAAAATTGA-AAGGTTAAATACTAAAACGAACCAAAACTGATAATTTATGTAATAAACA
1 TTTTGAAAAAATT-ACAAGGTTAAATACTAAAACGAACAAAAAATGATAATTTAGGTAATAAACA
* *
956208 CGTTAAGTTATTAATGGTGAAGTAATAAAATAAAATGAAAACTAAA
65 CATTAAGTTATTAATGATGAAGTAATAAAATAAAATGAAAACTAAA
956254 TATGATTTTG
Statistics
Matches: 92, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
122 91 0.99
123 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.14, T:0.30
Consensus pattern (122 bp):
TTTTGAAAAAATTACAAGGTTAAATACTAAAACGAACAAAAAATGATAATTTAGGTAATAAACAC
ATTAAGTTATTAATGATGAAGTAATAAAATAAAATGAAAACTAAACATTAGGCATGT
Found at i:957115 original size:2 final size:2
Alignment explanation
Indices: 957105--957170 Score: 123
Period size: 2 Copynumber: 32.5 Consensus size: 2
957095 AAAAGAAATA
957105 AT AT CAT 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
957148 AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT A
957171 ATTCAATTTA
Statistics
Matches: 63, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 61 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:973674 original size:26 final size:26
Alignment explanation
Indices: 973640--973691 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
973630 TTGAGTCCAA
*
973640 TATCCTTCGTTGTGAAATTGTAATTG
1 TATCATTCGTTGTGAAATTGTAATTG
*
973666 TATCATTCGTTGTGAAGTTGTAATTG
1 TATCATTCGTTGTGAAATTGTAATTG
973692 GCTCTGAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.23, C:0.10, G:0.21, T:0.46
Consensus pattern (26 bp):
TATCATTCGTTGTGAAATTGTAATTG
Found at i:974391 original size:378 final size:378
Alignment explanation
Indices: 973696--974436 Score: 1428
Period size: 378 Copynumber: 2.0 Consensus size: 378
973686 TAATTGGCTC
*
973696 TGAAATTGGAAAGTTGACAGTTAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGTGCTGTCTTGTGT
1 TGAAATTGGAAAGTTGACAGTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGTGT
973761 GCACGATTCCATTTGTCGTGAAGTTGAAACCACGGGTTGTGTGGGTACGATATCCTCCGTCGTGG
66 GCACGATTCCATTTGTCGTGAAGTTGAAACCACGGGTTGTGTGGGTACGATATCCTCCGTCGTGG
973826 AGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTTGTG
131 AGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTTGTG
973891 AAGTTGAAATCCAAGTATTGTATGTTACGGGTGGACACGATTCCCTTCGTCGTGAAGTTGAAACC
196 AAGTTGAAATCCAAGTATTGTATGTTACGGGTGGACACGATTCCCTTCGTCGTGAAGTTGAAACC
973956 GTAGATGACCCCTTTATTTTGAAGTTTGGCTTCGAGCTAGATATCCTTCGTTGTGAAGTTAAAAT
261 GTAGATGACCCCTTTATTTTGAAGTTTGGCTTCGAGCTAGATATCCTTCGTTGTGAAGTTAAAAT
974021 CCACTCTCGAGCAAACTGTGTCACTTTGAGTTCAAAATCCTCCGCTGTGAAGT
326 CCACTCTCGAGCAAACTGTGTCACTTTGAGTTCAAAATCCTCCGCTGTGAAGT
974074 TGAAATTGGAAAGTTGACAGTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGTGT
1 TGAAATTGGAAAGTTGACAGTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGTGT
*
974139 GCACGATTCCCTTTGTCGTGAAGTTGAAACCACGGGTTGTGTGGGTACGATATCCTCCGTCGTGG
66 GCACGATTCCATTTGTCGTGAAGTTGAAACCACGGGTTGTGTGGGTACGATATCCTCCGTCGTGG
*
974204 AGTTGAAATCGTGGATGGCCCTTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTTGTG
131 AGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTTGTG
*
974269 AAGTTGAAATCCAAGTATTGTATGTTACGGGTGGACACGATTCCTTTCGTCGTGAAGTTGAAACC
196 AAGTTGAAATCCAAGTATTGTATGTTACGGGTGGACACGATTCCCTTCGTCGTGAAGTTGAAACC
*
974334 GTGGATGACCCCTTTATTTTGAAGTTTGGCTTCGAGCTAGATATCCTTCGTTGTGAAGTTAAAAT
261 GTAGATGACCCCTTTATTTTGAAGTTTGGCTTCGAGCTAGATATCCTTCGTTGTGAAGTTAAAAT
*
974399 CTACTCTCGAGCAAACTGTGTCACTTTGAGTTCAAAAT
326 CCACTCTCGAGCAAACTGTGTCACTTTGAGTTCAAAAT
974437 ACATATGCAA
Statistics
Matches: 357, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
378 357 1.00
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (378 bp):
TGAAATTGGAAAGTTGACAGTTAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGTGT
GCACGATTCCATTTGTCGTGAAGTTGAAACCACGGGTTGTGTGGGTACGATATCCTCCGTCGTGG
AGTTGAAATCGTGGATGGCCCCTTCGTCGTGAAGTTGAGCCTTGACTTGAATATCCTTCGTTGTG
AAGTTGAAATCCAAGTATTGTATGTTACGGGTGGACACGATTCCCTTCGTCGTGAAGTTGAAACC
GTAGATGACCCCTTTATTTTGAAGTTTGGCTTCGAGCTAGATATCCTTCGTTGTGAAGTTAAAAT
CCACTCTCGAGCAAACTGTGTCACTTTGAGTTCAAAATCCTCCGCTGTGAAGT
Found at i:975152 original size:21 final size:20
Alignment explanation
Indices: 975127--975180 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
975117 TGAACCCACC
*
975127 TTATTTTCTTTTCTTTTTCTT
1 TTATTTT-TTTTCTTTTCCTT
975148 TTATTTTTTTCTCTTTTCCTT
1 TTATTTTTTT-TCTTTTCCTT
975169 TTATTTTTTTTC
1 TTATTTTTTTTC
975181 AATTTAGGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 5 0.16
21 26 0.84
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.80
Consensus pattern (20 bp):
TTATTTTTTTTCTTTTCCTT
Found at i:985543 original size:33 final size:33
Alignment explanation
Indices: 985505--985577 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
985495 GGTAAAAACG
*
985505 AAAATAAAAAAACACA-ATAAAATAGAATAATAA-
1 AAAATAAAAAAACA-ATATAAAATAAAATAA-AAT
* *
985538 AAAATAAAACAATAATATAAAATAAAATAAAAT
1 AAAATAAAAAAACAATATAAAATAAAATAAAAT
985571 AAAATAA
1 AAAATAA
985578 TATAATATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
32 3 0.09
33 32 0.91
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (33 bp):
AAAATAAAAAAACAATATAAAATAAAATAAAAT
Found at i:985550 original size:28 final size:28
Alignment explanation
Indices: 985510--985594 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 28
985500 AAACGAAAAT
* *
985510 AAAAA-AACACAATAAAATAGAATAATA
1 AAAAATAAAACAATAAAATAAAATAATA
*
985537 AAAAATAAAACAATAATATAAAATAA-A
1 AAAAATAAAACAATAAAATAAAATAATA
* * * *
985564 ATAAAATAAAATAATATAATATAATAGTA
1 A-AAAATAAAACAATAAAATAAAATAATA
985593 AA
1 AA
985595 GAACCAAAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
27 7 0.15
28 38 0.81
29 2 0.04
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (28 bp):
AAAAATAAAACAATAAAATAAAATAATA
Found at i:985566 original size:15 final size:15
Alignment explanation
Indices: 985521--985587 Score: 71
Period size: 15 Copynumber: 4.3 Consensus size: 15
985511 AAAAAACACA
*
985521 ATAAAATAGAATAAT
1 ATAAAATAAAATAAT
*
985536 AAAAAATAAAACAATAAT
1 ATAAAAT--AA-AATAAT
*
985554 ATAAAATAAAATAAA
1 ATAAAATAAAATAAT
*
985569 ATAAAATAATATAAT
1 ATAAAATAAAATAAT
985584 ATAA
1 ATAA
985588 TAGTAAAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 28 0.65
16 2 0.05
17 1 0.02
18 12 0.28
ACGTcount: A:0.73, C:0.01, G:0.01, T:0.24
Consensus pattern (15 bp):
ATAAAATAAAATAAT
Found at i:985589 original size:5 final size:5
Alignment explanation
Indices: 985520--985587 Score: 61
Period size: 5 Copynumber: 14.0 Consensus size: 5
985510 AAAAAAACAC
* * *
985520 AATAA AATAG AATAA TAA-AA AAT-A AA-AC AATAA TATAA AATAA AATAA
1 AATAA AATAA AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA
* *
985568 AATAA AATAA TATAA TATAA
1 AATAA AATAA AATAA AATAA
985588 TAGTAAAGAA
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
4 7 0.13
5 43 0.83
6 2 0.04
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:991037 original size:32 final size:34
Alignment explanation
Indices: 990974--991037 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 34
990964 TTTAAAAATG
990974 GTTTTTGAAAATATATAGTATGGTTTTGAAAATAC
1 GTTTTTGAAAATATATAGTA-GGTTTTGAAAATAC
991009 GTTTTT-AAAATCATATA-TA-GTTTTGAAAA
1 GTTTTTGAAAAT-ATATAGTAGGTTTTGAAAA
991038 CATATTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
32 10 0.36
34 7 0.25
35 11 0.39
ACGTcount: A:0.39, C:0.03, G:0.14, T:0.44
Consensus pattern (34 bp):
GTTTTTGAAAATATATAGTAGGTTTTGAAAATAC
Found at i:991049 original size:15 final size:15
Alignment explanation
Indices: 991029--991060 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
991019 TCATATATAG
991029 TTTTGAAAACATATT
1 TTTTGAAAACATATT
991044 TTTTGAAAACATATT
1 TTTTGAAAACATATT
991059 TT
1 TT
991061 AAAAACATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (15 bp):
TTTTGAAAACATATT
Found at i:991057 original size:33 final size:34
Alignment explanation
Indices: 990974--991057 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 34
990964 TTTAAAAATG
*
990974 GTTTTTGAAAATATATAGTATGGTTTTGAAAATAC
1 GTTTTTGAAAACATATAGTA-GGTTTTGAAAATAC
991009 GTTTTT-AAAATCATATA-TA-GTTTTGAAAACATA-
1 GTTTTTGAAAA-CATATAGTAGGTTTTG-AAA-ATAC
*
991042 TTTTTTGAAAACATAT
1 GTTTTTGAAAACATAT
991058 TTTAAAAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
32 6 0.14
33 13 0.30
34 13 0.30
35 11 0.26
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (34 bp):
GTTTTTGAAAACATATAGTAGGTTTTGAAAATAC
Done.