Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008007.1 Hibiscus syriacus cultivar Beakdansim tig00110469_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: 1953294
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 11
Found at i:733010 original size:165 final size:167
Alignment explanation
Indices: 732734--733047 Score: 497
Period size: 165 Copynumber: 1.9 Consensus size: 167
732724 AATTTTTAAG
* * *
732734 ACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAAGACCCCCGAGTTCGA
1 ACATCATTTACAGCATAACTCAAGGCGAGAAGGGATATCTG--ACCAAAAGACCCCCAAGTTCGA
* *
732799 TTACACTCAGCTTCGAGGGCAAATCATTTGCAGCATAACTTAAGTCGAGAATGGTTATCTGCCAA
64 TTACACTCAACTTCGAGGGCAAATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
732864 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
129 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
* * * * *
732903 ACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG-CC-AAAGACCCTCAAGTTCGATT
1 ACATCATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGACCAAAAGACCCCCAAGTTCGATT
732966 ACACTCAACTTCGAGGGCAAATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC
66 ACACTCAACTTCGAGGGCAAATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC
*
733031 AAATACCTTCGAGTTCG
131 AAAGACCTTCGAGTTCG
733048 TGATACATGC
Statistics
Matches: 134, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
165 97 0.72
166 2 0.01
169 35 0.26
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (167 bp):
ACATCATTTACAGCATAACTCAAGGCGAGAAGGGATATCTGACCAAAAGACCCCCAAGTTCGATT
ACACTCAACTTCGAGGGCAAATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC
AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGC
Found at i:733689 original size:14 final size:14
Alignment explanation
Indices: 733670--733702 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
733660 CCTTCGAAGC
733670 TTCTTCTCCTTGAG
1 TTCTTCTCCTTGAG
733684 TTCTTCTCCTTGAG
1 TTCTTCTCCTTGAG
733698 TTCTT
1 TTCTT
733703 TCAAGTTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.27, G:0.12, T:0.55
Consensus pattern (14 bp):
TTCTTCTCCTTGAG
Found at i:733981 original size:12 final size:12
Alignment explanation
Indices: 733951--733985 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
733941 TATATTTTAT
733951 TTATCTTGTTT-
1 TTATCTTGTTTC
*
733962 TAATCTTGTTTC
1 TTATCTTGTTTC
733974 TTATCTTGTTTC
1 TTATCTTGTTTC
733986 CAGCACCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.11, C:0.14, G:0.09, T:0.66
Consensus pattern (12 bp):
TTATCTTGTTTC
Found at i:734329 original size:165 final size:165
Alignment explanation
Indices: 734133--734534 Score: 671
Period size: 165 Copynumber: 2.4 Consensus size: 165
734123 CTTCCCTATC
* *
734133 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC
*
734198 TGCCAAAGAGCCC-CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCA
66 TGCCAAAGA-CCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCA
* *
734262 AGGCTAAAAGGGTTATCTGTGAGCAAAAGACCTTCG
130 AAGCTAAAAGGGTTATCTGTGACCAAAAGACCTTCG
* * *
734298 AGTTCGACTATGTTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC
734363 TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAA
66 TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAA
*
734428 AGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCG
131 AGCTAAAAGGGTTATCTGTGACCAAAAGACCTTCG
* * * *
734463 AGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC
734528 TGCCAAA
66 TGCCAAA
734535 CAAAGACCTT
Statistics
Matches: 220, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
164 3 0.01
165 217 0.99
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (165 bp):
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC
TGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAA
AGCTAAAAGGGTTATCTGTGACCAAAAGACCTTCG
Found at i:734540 original size:84 final size:82
Alignment explanation
Indices: 734133--734553 Score: 386
Period size: 84 Copynumber: 5.1 Consensus size: 82
734123 CTTCCCTATC
* * *
734133 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGAGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
*
734198 TGC--CAAAGAGCC-CCG
66 TGCAACAAAGA-CCTTCG
* * * * * * * * *
734213 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAAAAGGGTTAT
1 AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
* *
734278 CTGTGAGCAAAAGACCTTCG
65 CTG-CAAC-AAAGACCTTCG
* * * * * *
734298 AGTTCGACTATGTTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTTGAGAAGGGCTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
*
734363 TGC--CAAAGACCCTCG
66 TGCAACAAAGACCTTCG
* * * * * * * *
734378 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAACATAACTCAAAG-CTAGAAGGGTTA
1 AGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACT-TAAGTCGAGAAGGGTTA
* *
734442 TCTGTGACCAAAAGACCTTCG
64 TCTG-CAAC-AAAGACCTTCG
* * *
734463 AGTTCGACTACGCTCAACTCCAAGGCATATCATTTGCAGTATAACTTAAGTCGAGAAGGGTTATC
1 AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
*
734528 TGCCAAACAAAGACCTTCA
66 TG-C-AACAAAGACCTTCG
734547 AGTTCGA
1 AGTTCGA
734554 TTACATTCAA
Statistics
Matches: 265, Mismatches: 62, Indels: 24
0.75 0.18 0.07
Matches are distributed among these distances:
80 40 0.15
81 75 0.28
82 3 0.01
83 3 0.01
84 96 0.36
85 48 0.18
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (82 bp):
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC
TGCAACAAAGACCTTCG
Found at i:734961 original size:2 final size:2
Alignment explanation
Indices: 734954--734986 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
734944 CATTGTTTAT
*
734954 TA TA TA TA TA TA TA TA TA TA TA TA CA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
734987 GTTTGAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:735013 original size:2 final size:2
Alignment explanation
Indices: 735006--735035 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
734996 CCTTTTTAAA
735006 AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
735036 GTTTTGACAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:735068 original size:51 final size:49
Alignment explanation
Indices: 734961--735076 Score: 137
Period size: 49 Copynumber: 2.3 Consensus size: 49
734951 TATTATATAT
* * *
734961 ATATATATATATATATACATTATATAGTTTGAAAACCTTTTTAAAATAT
1 ATATATATATATATATACATAATATAGTTTGAAAACATTTTTAAAATAC
* *
735010 ATATATATATATATATATATAATATAGTTTTGACAAGCATGTTTTAAAA-AC
1 ATATATATATATATATACATAATATAG-TTTGA-AAACAT-TTTTAAAATAC
*
735061 ATTTATATAT-TATATA
1 ATATATATATATATATA
735077 GTTTTTAAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
49 25 0.43
50 11 0.19
51 14 0.24
52 8 0.14
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (49 bp):
ATATATATATATATATACATAATATAGTTTGAAAACATTTTTAAAATAC
Found at i:735111 original size:36 final size:35
Alignment explanation
Indices: 735065--735151 Score: 102
Period size: 36 Copynumber: 2.3 Consensus size: 35
735055 AAAAACATTT
*
735065 ATATATTATATAGTTTTTAAAACATTTTGAAAACTA
1 ATATAATATATAGTTTTTAAAACATTTTGAAAA-TA
* *
735101 ATATAATATATAGTTTTTAAAATATTTTTTGAATATA
1 ATATAATATATAGTTTTTAAAACA--TTTTGAAAATA
735138 TATATATATATATA
1 -ATATA-ATATATA
735152 TATATATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
36 22 0.50
37 2 0.05
38 13 0.30
39 7 0.16
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (35 bp):
ATATAATATATAGTTTTTAAAACATTTTGAAAATA
Found at i:735138 original size:2 final size:2
Alignment explanation
Indices: 735133--735161 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
735123 TATTTTTTGA
735133 AT 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 A
735162 GTTTTTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:735190 original size:49 final size:46
Alignment explanation
Indices: 735101--735197 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 46
735091 TTGAAAACTA
* * *
735101 ATATAATATATAGTTTTTAAAATATTTTTTGAATATATATATATATAT
1 ATATAATATATAGTTTTTAAAACA-TTTGTGAAAATATATAT-TATAT
735149 ATATATATATATAGTTTTTAAAACA-TTGTGAAAACTAATATATTATAT
1 ATATA-ATATATAGTTTTTAAAACATTTGTGAAAA-T-ATATATTATAT
735197 A
1 A
735198 GTTTTTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
47 7 0.16
48 12 0.28
49 24 0.56
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.47
Consensus pattern (46 bp):
ATATAATATATAGTTTTTAAAACATTTGTGAAAATATATATTATAT
Found at i:735202 original size:36 final size:35
Alignment explanation
Indices: 735149--735465 Score: 305
Period size: 36 Copynumber: 8.5 Consensus size: 35
735139 ATATATATAT
*
735149 ATATATATATATAGTTTTTAAAACATTGTGAAAACTA
1 ATATAT-TATATAGTTTTTAAAACATTTTGAAAA-TA
735186 ATATATTATATAGTTTTTAAAACATTTTGAAAACTA
1 ATATATTATATAGTTTTTAAAACATTTTGAAAA-TA
* *
735222 ATGTAATATATAGTTTTTAAAACATTTTTTGAAAATA
1 ATATATTATATAGTTTTTAAAACA--TTTTGAAAATA
* *
735259 TATATGTTATATACTTTTTAAAACATTTTGAAAATAA
1 -ATATATTATATAGTTTTTAAAACATTTTGAAAAT-A
* * *
735296 ATATAATATATAATTTTTAAAAATATTTTTGAAAAT-
1 ATATATTATATAGTTTTT-AAAACA-TTTTGAAAATA
735332 ATATATTATATAGTTTTTAAAACATTTTGGAAATATA
1 ATATATTATATAGTTTTTAAAACATTTT-GAAA-ATA
* *
735369 TATAATATTATATAGTTTTTGAAATATCTTTTTGGAAAATGC
1 -AT-ATATTATATAGTTTTT-AAA-A-CATTTT-GAAAAT-A
* * *
735411 TTATAATATATAGTTTTTAAAATAACATTTTAGAAATTA
1 ATATATTATATAGTTTTT--AA-AACATTTT-GAAAATA
735450 ATATATTATATA-TTTT
1 ATATATTATATAGTTTT
735466 CGAAATTGTT
Statistics
Matches: 238, Mismatches: 25, Indels: 33
0.80 0.08 0.11
Matches are distributed among these distances:
34 4 0.02
35 9 0.04
36 94 0.39
37 14 0.06
38 45 0.19
39 26 0.11
40 28 0.12
41 7 0.03
42 11 0.05
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (35 bp):
ATATATTATATAGTTTTTAAAACATTTTGAAAATA
Found at i:735231 original size:74 final size:73
Alignment explanation
Indices: 735147--735462 Score: 322
Period size: 74 Copynumber: 4.2 Consensus size: 73
735137 ATATATATAT
*
735147 ATATATATATATATAGTTTTTAAAACA-TTGTGAAAACTAATATATTATATAGTTTTTAAAACAT
1 ATATA-ATATATATAGTTTTTAAAACATTTTTGAAAA-TAATATATTATATAGTTTTTAAAACAT
735211 TTTGAAAACTA
64 TTTGAAAA-TA
* * *
735222 ATGT-A-ATATATAGTTTTTAAAACATTTTTTGAAAATATATATGTTATATACTTTTTAAAACAT
1 ATATAATATATATAGTTTTTAAAACA-TTTTTGAAAATA-ATATATTATATAGTTTTTAAAACAT
735285 TTTGAAAATAA
64 TTTGAAAAT-A
*
735296 ATATAATATATA-A-TTTTTAAAAATATTTTTGAAAAT-ATATATTATATAGTTTTTAAAACATT
1 ATATAATATATATAGTTTTT-AAAACATTTTTGAAAATAATATATTATATAGTTTTTAAAACATT
*
735358 TTGGAAATA
65 TTGAAAATA
** *
735367 TATATAATATTATATAGTTTTTGAAATATC-TTTTTGGAAAATGCTTATAATATATAGTTTTTAA
1 -ATATAATA-TATATAGTTTTT-AAA-A-CATTTTT-GAAAAT-AATATATTATATAGTTTTT--
*
735431 AATAACATTTTAGAAATTA
57 AA-AACATTTT-GAAAATA
*
735450 ATATATTATATAT
1 ATATAATATATAT
735463 TTTCGAAATT
Statistics
Matches: 205, Mismatches: 16, Indels: 34
0.80 0.06 0.13
Matches are distributed among these distances:
71 1 0.00
72 58 0.28
73 8 0.04
74 60 0.29
75 18 0.09
76 11 0.05
77 6 0.03
79 16 0.08
81 7 0.03
82 15 0.07
83 5 0.02
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (73 bp):
ATATAATATATATAGTTTTTAAAACATTTTTGAAAATAATATATTATATAGTTTTTAAAACATTT
TGAAAATA
Found at i:735486 original size:4 final size:4
Alignment explanation
Indices: 735479--735514 Score: 54
Period size: 4 Copynumber: 8.5 Consensus size: 4
735469 AATTGTTTTT
735479 TTTA TTTA TTTA TTTA TTTA TTTA TTGTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA -T-TTA TTTA TT
735515 ATTATTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 25 0.83
5 2 0.07
6 3 0.10
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:735525 original size:18 final size:18
Alignment explanation
Indices: 735470--735514 Score: 62
Period size: 16 Copynumber: 2.7 Consensus size: 18
735460 TATTTTCGAA
735470 ATTGTT-TTT-TTTATTT
1 ATTGTTATTTATTTATTT
735486 A-T-TTATTTATTTATTT
1 ATTGTTATTTATTTATTT
735502 ATTGTTATTTATT
1 ATTGTTATTTATT
735515 ATTATTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.08
15 4 0.16
16 9 0.36
17 1 0.04
18 9 0.36
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (18 bp):
ATTGTTATTTATTTATTT
Found at i:735532 original size:26 final size:24
Alignment explanation
Indices: 735474--735533 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 24
735464 TTCGAAATTG
735474 TTTTTT-TTATTTATTTATTTATT
1 TTTTTTGTTATTTATTTATTTATT
735497 TATTTATTGTTATTTATTATTATTT-TGT
1 T-TTT-TTGTTATTTA-T-TTATTTAT-T
735525 TTTTTTGTT
1 TTTTTTGTT
735534 TAGGGTCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
23 1 0.03
24 3 0.10
25 2 0.06
26 12 0.39
27 5 0.16
28 8 0.26
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (24 bp):
TTTTTTGTTATTTATTTATTTATT
Found at i:736880 original size:4 final size:4
Alignment explanation
Indices: 736871--736982 Score: 54
Period size: 4 Copynumber: 27.5 Consensus size: 4
736861 TTTATTTCAC
* *
736871 ATTT ATTT ATTT ATTT ATTCT ACTTT ATTT -TTT ATCTT ATTT CCCTTAA
1 ATTT ATTT ATTT ATTT ATT-T A-TTT ATTT ATTT AT-TT ATTT --ATT-T
* * * * *
736920 ATTT ATTT -TAT ATTT TTTT CTTT ATTT ATTT -TAT ATTT -TTT ATTC
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
*
736965 ATTT -TTT CTTT GATTT AT
1 ATTT ATTT ATTT -ATTT AT
736983 ATTTTTTCCT
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
3 13 0.16
4 52 0.63
5 13 0.16
6 4 0.05
ACGTcount: A:0.21, C:0.08, G:0.01, T:0.71
Consensus pattern (4 bp):
ATTT
Found at i:743081 original size:7 final size:7
Alignment explanation
Indices: 743069--743095 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
743059 TTGGTTGATT
743069 GCCAAAG
1 GCCAAAG
743076 GCCAAAG
1 GCCAAAG
743083 GCCAAAG
1 GCCAAAG
743090 GCCAAA
1 GCCAAA
743096 TGCAAATAAA
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:0.30, G:0.26, T:0.00
Consensus pattern (7 bp):
GCCAAAG
Found at i:743712 original size:40 final size:39
Alignment explanation
Indices: 743644--743753 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 39
743634 TCATTCATAA
* *
743644 TTCTCAAATTATTTCAC-TATAACA-TTCTAAAATCCTATT
1 TTCTTAAATTATTTCACAT-TAA-AGTTCTAAAATCCTAAT
* * *
743683 TTCTTAAATT-TTTGACATCATAAAGTTCTAAATTCTTAAT
1 TTCTTAAATTATTTCACAT--TAAAGTTCTAAAATCCTAAT
*
743723 TTCTTAAATTATTTCACATTAATGTTCTAAA
1 TTCTTAAATTATTTCACATTAAAGTTCTAAA
743754 TTATTTTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
38 5 0.08
39 22 0.37
40 26 0.43
41 7 0.12
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.46
Consensus pattern (39 bp):
TTCTTAAATTATTTCACATTAAAGTTCTAAAATCCTAAT
Found at i:744292 original size:34 final size:32
Alignment explanation
Indices: 744239--744308 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
744229 CCTTACAAAC
*
744239 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
744271 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
744305 TCCC
1 TCCC
744309 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:744766 original size:15 final size:15
Alignment explanation
Indices: 744746--744802 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
744736 CCATGCAGGG
744746 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
744761 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
744777 TGGGGGGAATCTGTTCCC
1 ---GGGGAATCTGTACCC
744795 GGGGAATC
1 GGGGAATC
744803 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
18 3 0.09
19 9 0.26
20 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:744818 original size:36 final size:35
Alignment explanation
Indices: 744743--744830 Score: 151
Period size: 34 Copynumber: 2.5 Consensus size: 35
744733 AAACCATGCA
*
744743 GGGGGGGAATCTGTACCCGGGGAATCGATACCCCT
1 GGGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
744778 -GGGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 GGGGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
744813 GGGGGGGAATCTGTTCCC
1 GGGGGGGAATCTGTTCCC
744831 CCTGGGGGGG
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
34 28 0.56
35 5 0.10
36 17 0.34
ACGTcount: A:0.17, C:0.26, G:0.38, T:0.19
Consensus pattern (35 bp):
GGGGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:744831 original size:20 final size:21
Alignment explanation
Indices: 744795--744856 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
744785 ATCTGTTCCC
744795 GGGGAATC-GATACCCCCTGGG
1 GGGGAATCTG-TACCCCCTGGG
*
744816 GGGGAATCTGTTCCCCCTGGG
1 GGGGAATCTGTACCCCCTGGG
744837 GGGGAATCTGTACCCCCTGG
1 GGGGAATCTGTACCCCCTGG
744857 ACAATCTGAT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.19
Consensus pattern (21 bp):
GGGGAATCTGTACCCCCTGGG
Found at i:747854 original size:34 final size:32
Alignment explanation
Indices: 747801--747870 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
747791 CCTTACAAAC
* *
747801 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCCT
*
747833 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCCT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCCT
747867 TCCC
1 TCCC
747871 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.33, G:0.16, T:0.30
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCCT
Found at i:748179 original size:21 final size:21
Alignment explanation
Indices: 748153--748194 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
748143 CCAGAATGGG
*
748153 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
748174 GGGAATTGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
748195 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:748327 original size:15 final size:15
Alignment explanation
Indices: 748307--748363 Score: 53
Period size: 15 Copynumber: 3.5 Consensus size: 15
748297 AACCATGCAG
748307 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
748322 GGGGAATC-GATACCCC
1 GGGGAATCTG-TA-CCC
*
748338 TGGGGGGAATCTGTTCCC
1 ---GGGGAATCTGTACCC
748356 GGGGAATC
1 GGGGAATC
748364 GATACCCCCT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
14 1 0.03
15 18 0.51
16 3 0.09
18 3 0.09
19 9 0.26
20 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.37, T:0.19
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:748346 original size:19 final size:18
Alignment explanation
Indices: 748322--748409 Score: 60
Period size: 19 Copynumber: 4.9 Consensus size: 18
748312 ATCTGTACCC
748322 GGGGAATCGATACCCCTGG
1 GGGGAATCGATACCCCT-G
*
748341 GGGGAATCTG-T-TCCC--
1 GGGGAATC-GATACCCCTG
748356 GGGGAATCGATACCCCCTG
1 GGGGAATCGATA-CCCCTG
* *
748375 AGGGAATCTG-TTCCCCTGG
1 GGGGAATC-GATACCCCT-G
*
748394 GGGGAATCTATACCCC
1 GGGGAATCGATACCCC
748410 CTGGACAATC
Statistics
Matches: 53, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
14 1 0.02
15 9 0.17
17 3 0.06
18 8 0.15
19 30 0.57
20 2 0.04
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.20
Consensus pattern (18 bp):
GGGGAATCGATACCCCTG
Found at i:748346 original size:34 final size:34
Alignment explanation
Indices: 748306--748413 Score: 128
Period size: 34 Copynumber: 3.1 Consensus size: 34
748296 AAACCATGCA
748306 GGGGGAATCTGTACCCGGGGAATCGATA-CCCCT
1 GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
*
748339 GGGGGGAATCTGTTCCCGGGGAATCGATACCCCCT
1 -GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
* * *
748374 GAGGGAATCTGTTCCCCTGGGGGGAATCTATACCCCCT
1 GGGGGAATCTG-TACCC---GGGGAATCGATACCCCCT
748412 GG
1 GG
748414 ACAATCTGAT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
34 37 0.58
35 9 0.14
38 18 0.28
ACGTcount: A:0.19, C:0.28, G:0.33, T:0.20
Consensus pattern (34 bp):
GGGGGAATCTGTACCCGGGGAATCGATACCCCCT
Found at i:751563 original size:64 final size:64
Alignment explanation
Indices: 751495--751715 Score: 257
Period size: 64 Copynumber: 3.5 Consensus size: 64
751485 TTGAAGGTGT
* * * ** *
751495 ATCGATGCACATGAAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTT
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCGTG
751558 C
64 C
* *
751559 ATCGATGCTTAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTCGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
* * * * * **
751623 ATCGATGCATAAGTAGTGCATCGATGCATCCCAGTAATAATACAACATTGAATACATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
* *
751687 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
751716 ACCTTCATTA
Statistics
Matches: 136, Mismatches: 19, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
64 130 0.96
65 6 0.04
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
Found at i:752410 original size:31 final size:31
Alignment explanation
Indices: 752372--752434 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
752362 AGGGTCGAGG
*
752372 GTTTACCTATGTTCTTC-GGAACATATGGACT
1 GTTTACCTAGGTTCTTCGGGAAC-TATGGACT
*
752403 GTTTACCTAGGTTCTTCGGGATCTATGGACT
1 GTTTACCTAGGTTCTTCGGGAACTATGGACT
752434 G
1 G
752435 GTCCTTCGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 25 0.86
32 4 0.14
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGAACTATGGACT
Found at i:755579 original size:64 final size:64
Alignment explanation
Indices: 755494--755714 Score: 239
Period size: 64 Copynumber: 3.5 Consensus size: 64
755484 TTGAAGGTGT
* * * **
755494 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTCGTG
755557 C
64 C
* * * *
755558 ATTGATGCATAAGTAGTGCATCGATGCATCCCATTAATACTGAAACATCGAATGTAATTCGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
* * * * * * **
755622 ATCGATGTATAAGTAGTGCATCGATGCATCCAAGTAATAATACAACATCGAATACATTTTATGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
* *
755686 ACCGATGCATCAGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
755715 ACCTTTATTA
Statistics
Matches: 131, Mismatches: 24, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
64 126 0.96
65 5 0.04
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCGTGC
Found at i:756396 original size:31 final size:31
Alignment explanation
Indices: 756358--756420 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
756348 AGGGTCGAGG
*
756358 GTTTACCTATGTTCTTCGGAATATATGGACT
1 GTTTACCTAGGTTCTTCGGAATATATGGACT
* *
756389 GTTTACCTAGGTTCTTCGGGATCTATGGACT
1 GTTTACCTAGGTTCTTCGGAATATATGGACT
756420 G
1 G
756421 GTCCTTCGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGAATATATGGACT
Found at i:759161 original size:16 final size:16
Alignment explanation
Indices: 759140--759174 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
759130 AGCTTAAGGA
759140 AAGCTTAAGTTATCTT
1 AAGCTTAAGTTATCTT
*
759156 AAGCTTAAGTTATTTT
1 AAGCTTAAGTTATCTT
759172 AAG
1 AAG
759175 TGCATCGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (16 bp):
AAGCTTAAGTTATCTT
Found at i:759274 original size:22 final size:22
Alignment explanation
Indices: 759249--759293 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
759239 TGCAACGATG
*
759249 CATCCCATTAATAATGA-AACAT
1 CATCCCAGTAATAAT-ACAACAT
759271 CATCCCAGTAATAATACAACAT
1 CATCCCAGTAATAATACAACAT
759293 C
1 C
759294 GAATACATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.44, C:0.27, G:0.04, T:0.24
Consensus pattern (22 bp):
CATCCCAGTAATAATACAACAT
Found at i:760019 original size:31 final size:31
Alignment explanation
Indices: 759981--760043 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
759971 AAGGTCGAGG
*
759981 GTTTACCTATGTTCTTCGGAATATATGGACT
1 GTTTACCTAGGTTCTTCGGAATATATGGACT
* *
760012 GTTTACCTAGGTTCTTCGGGATCTATGGACT
1 GTTTACCTAGGTTCTTCGGAATATATGGACT
760043 G
1 G
760044 GTCCTTCGGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGAATATATGGACT
Found at i:762642 original size:23 final size:23
Alignment explanation
Indices: 762616--762660 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
762606 CACCACAGTT
*
762616 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCG
*
762639 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGAAGTGCC
762661 ATATAATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.27, G:0.27, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCG
Found at i:763496 original size:2 final size:2
Alignment explanation
Indices: 763489--763588 Score: 200
Period size: 2 Copynumber: 50.0 Consensus size: 2
763479 TCTCTTAGAC
763489 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
763531 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
763573 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
763589 TCACATGTTC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 98 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:764542 original size:64 final size:64
Alignment explanation
Indices: 764442--764602 Score: 216
Period size: 64 Copynumber: 2.5 Consensus size: 64
764432 TAATGAAGGT
* *
764442 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATG-TTTGTATTTAATGGG
1 ATGCATCGATGCACTACA-TATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAAT-GG
*
764506 G
64 C
* * **
764507 ATGCATCGATGCACTACTTATGCATCGATGCATAAATCCTATTCGATGTTTTCTTTTTAATTTC
1 ATGCATCGATGCACTACATATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGC
* *
764571 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACTACATATGCATCGATGCA
764603 CCTTAAACAA
Statistics
Matches: 85, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
64 58 0.68
65 27 0.32
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (64 bp):
ATGCATCGATGCACTACATATGCATCGATGCATAAATCCTATTCGATGTTTTCTATTTAATGGC
Found at i:768058 original size:149 final size:148
Alignment explanation
Indices: 767821--768121 Score: 494
Period size: 149 Copynumber: 2.0 Consensus size: 148
767811 AAGTGCCACA
767821 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
* * * * * * * *
767886 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
66 TATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCACAAATGTTCCAAAGAATATACA
767951 TATATCCCGAAGGACCGCG
130 TATATCCCGAAGGACCGCG
*
767970 TAGAATTGCACCGTAGTGCCATATAATAATGTCCCTAAGGACCACATATTATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
*
768035 TATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCATAAATGTTCCAAAGAATATACAT
66 TATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCCAAAGAATATACAT
*
768100 ATGTCCCGAAGGACCGCG
131 ATATCCCGAAGGACCGCG
768118 TAGA
1 TAGA
768122 CCCTCGACTC
Statistics
Matches: 141, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
148 48 0.34
149 93 0.66
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (148 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATTATTCCTTAAGAATCA
TATACATATACTAAGGACCAAGTATGTGCCTCAAAGACCTCACAAATGTTCCAAAGAATATACAT
ATATCCCGAAGGACCGCG
Found at i:768674 original size:2 final size:2
Alignment explanation
Indices: 768667--768702 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
768657 TCTCTTAGAC
768667 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
768703 TCACATGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:771803 original size:22 final size:22
Alignment explanation
Indices: 771778--771822 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
771768 TGCATCGATG
*
771778 CATCCCATTAATAATGA-AACAT
1 CATCCCAGTAATAAT-ACAACAT
771800 CATCCCAGTAATAATACAACAT
1 CATCCCAGTAATAATACAACAT
771822 C
1 C
771823 GAATATATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 1 0.05
22 20 0.95
ACGTcount: A:0.44, C:0.27, G:0.04, T:0.24
Consensus pattern (22 bp):
CATCCCAGTAATAATACAACAT
Found at i:773327 original size:27 final size:26
Alignment explanation
Indices: 773274--773364 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 26
773264 TATATATTAA
773274 TTTAAAAATATTTTATATTAACTTAG
1 TTTAAAAATATTTTATATTAACTTAG
* *
773300 TTTAAATATATTTTCTTATTAACTTAG
1 TTTAAAAATATTTT-ATATTAACTTAG
* *
773327 TTTAAAAATATTTTATTTTAATTTTCA-
1 TTTAAAAATATTTTATATTAA-CTT-AG
773354 TTTAAAAATAT
1 TTTAAAAATAT
773365 ATAATTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
26 18 0.32
27 37 0.66
28 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
TTTAAAAATATTTTATATTAACTTAG
Found at i:778495 original size:210 final size:210
Alignment explanation
Indices: 778239--778657 Score: 838
Period size: 210 Copynumber: 2.0 Consensus size: 210
778229 AAGGTGCATC
778239 AATATTTTCAAAGATTGATCTTCGATCAGGGTATCATCAGTTAACCTAGATCTACTTTATTGGGT
1 AATATTTTCAAAGATTGATCTTCGATCAGGGTATCATCAGTTAACCTAGATCTACTTTATTGGGT
778304 GAAATGATAAAATGGTTTTTGTTTTGTAAGATATTAATTTTTTAAAATAAATAATTTTATTAAAC
66 GAAATGATAAAATGGTTTTTGTTTTGTAAGATATTAATTTTTTAAAATAAATAATTTTATTAAAC
778369 AAATAAAAAATAACTAAACTTCACAATTTCGAGAAACAAGAGTCCATTAAGAAAAAAAACTAATG
131 AAATAAAAAATAACTAAACTTCACAATTTCGAGAAACAAGAGTCCATTAAGAAAAAAAACTAATG
778434 ATTAATGAAAATAGA
196 ATTAATGAAAATAGA
778449 AATATTTTCAAAGATTGATCTTCGATCAGGGTATCATCAGTTAACCTAGATCTACTTTATTGGGT
1 AATATTTTCAAAGATTGATCTTCGATCAGGGTATCATCAGTTAACCTAGATCTACTTTATTGGGT
778514 GAAATGATAAAATGGTTTTTGTTTTGTAAGATATTAATTTTTTAAAATAAATAATTTTATTAAAC
66 GAAATGATAAAATGGTTTTTGTTTTGTAAGATATTAATTTTTTAAAATAAATAATTTTATTAAAC
778579 AAATAAAAAATAACTAAACTTCACAATTTCGAGAAACAAGAGTCCATTAAGAAAAAAAACTAATG
131 AAATAAAAAATAACTAAACTTCACAATTTCGAGAAACAAGAGTCCATTAAGAAAAAAAACTAATG
778644 ATTAATGAAAATAG
196 ATTAATGAAAATAG
778658 CAAACAACTA
Statistics
Matches: 209, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
210 209 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (210 bp):
AATATTTTCAAAGATTGATCTTCGATCAGGGTATCATCAGTTAACCTAGATCTACTTTATTGGGT
GAAATGATAAAATGGTTTTTGTTTTGTAAGATATTAATTTTTTAAAATAAATAATTTTATTAAAC
AAATAAAAAATAACTAAACTTCACAATTTCGAGAAACAAGAGTCCATTAAGAAAAAAAACTAATG
ATTAATGAAAATAGA
Found at i:784846 original size:2 final size:2
Alignment explanation
Indices: 784834--784895 Score: 115
Period size: 2 Copynumber: 31.0 Consensus size: 2
784824 CAAAGGCAAT
*
784834 TA TA AA 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
784876 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
784896 ATAAAGCTGA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:786278 original size:102 final size:104
Alignment explanation
Indices: 786104--786506 Score: 537
Period size: 102 Copynumber: 3.9 Consensus size: 104
786094 TTCTCTAAAA
* * *
786104 AAAACCAATTTCGTCTTGCTTGAGACATTTTTTCTTTGAGATACAAATTTCAAATTTGATTTACT
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCTTTGAGATACAAATTTCAAATTTGATTCACT
786169 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
65 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
* * **
786209 AAAACAAATTTTGTCTTGCTTGAGACA-TTTT-TTTGAGATACAAATTTTGAATTTGATTCACTT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCTTTGAGATACAAATTTCAAATTTGATTCACTT
* *
786272 GAAACAAAATTAATCTCATTTGAGATTATTATTTCTTTC
66 GAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
* * * *
786311 AAAACATATTTCGTCTCGCTTGAGACATTTTTCCTTTGATATATAAATTTCAAATTTGCTTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTT-CTTTGAGATACAAATTTCAAATTTGATTCACT
* * *
786376 T-TAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC
65 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
* * * * * *
786415 AAAACAAATTTCATCTCACTTGAGACATTTTTC-CTCAGAATACAAATTTTAAATTTG-TTGTAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCTTTGAG-ATACAAATTTCAAATTTGATT-CAC
786478 TTGAAACAAAATTAATCTCACTTGAGATT
64 TTGAAACAAAATTAATCTCACTTGAGATT
786507 TTCAAAATCG
Statistics
Matches: 262, Mismatches: 30, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
102 94 0.36
103 29 0.11
104 87 0.33
105 52 0.20
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (104 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTCTTTGAGATACAAATTTCAAATTTGATTCACTT
GAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
Found at i:786418 original size:104 final size:105
Alignment explanation
Indices: 786104--786506 Score: 548
Period size: 104 Copynumber: 3.9 Consensus size: 105
786094 TTCTCTAAAA
* * * *
786104 AAAACCAATTTCGTCTTGCTTGAGACATTTTTTCTTTGAGATACAAATTTCAAATTTGATTTACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATTTGATTCACT
786169 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
66 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
* * **
786209 AAAACAAATTTTGTCTTGCTTGAGACA-TTTT--TTTGAGATACAAATTTTGAATTTGATTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATTTGATTCACT
* *
786271 TGAAACAAAATTAATCTCATTTGAGATTATTATTTCTTTC
66 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
* * * *
786311 AAAACATATTTCGTCTCGCTTGAGACATTTTTCCTTTGATATATAAATTTCAAATTTGCTTCACT
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATTTGATTCACT
* * *
786376 T-TAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC
66 TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
* * ** * *
786415 AAAACAAATTTCATCTCACTTGAGACATTTTTCCTCAGA-ATACAAATTTTAAATTTG-TTGTAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATTTGATT-CAC
786478 TTGAAACAAAATTAATCTCACTTGAGATT
65 TTGAAACAAAATTAATCTCACTTGAGATT
786507 TTCAAAATCG
Statistics
Matches: 264, Mismatches: 29, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
102 92 0.35
103 24 0.09
104 96 0.36
105 52 0.20
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (105 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTCCTTTGAGATACAAATTTCAAATTTGATTCACT
TGAAACAAAATTAATCTCACTTGAGATTGTTATTTCTTTC
Found at i:787070 original size:66 final size:65
Alignment explanation
Indices: 786983--787183 Score: 201
Period size: 66 Copynumber: 3.1 Consensus size: 65
786973 TTCTTTTGAG
* *
786983 AAAAATTTTTAAGTTTGTTTCTTTGGAAACAAAATTTATCATCTTTGAGTCTTTTCTTTTGAAAC
1 AAAAATTTTTGAGTATGTTTCTTTGGAAACAAAATTTATCATCTTTGAGTCTTTTCTTTTGAAAC
* * * * *
787048 AAAAGATTTTTGAGTCTATTTCTTTTGAAACAAAATTTTATC-TCTCTTGAGACAGTTTCTTTTG
1 AAAA-ATTTTTGAGTATGTTTCTTTGGAAACAAAA-TTTATCATCT-TTGAGTC-TTTTCTTTTG
*
787112 --AG
62 AAAC
* * * * * **
787114 AAAAATCTTTGAGTATGTTTATTTGTAAACAAAATTTACCATATTTGAGTCTGTTTCCCTTGAAA
1 AAAAATTTTTGAGTATGTTTCTTTGGAAACAAAATTTATCATCTTTGAGTCT-TTTCTTTTGAAA
787179 C
65 C
787180 AAAA
1 AAAA
787184 CAAACATCTT
Statistics
Matches: 108, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
64 18 0.17
65 30 0.28
66 39 0.36
67 12 0.11
68 9 0.08
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (65 bp):
AAAAATTTTTGAGTATGTTTCTTTGGAAACAAAATTTATCATCTTTGAGTCTTTTCTTTTGAAAC
Found at i:787144 original size:65 final size:65
Alignment explanation
Indices: 786948--787150 Score: 234
Period size: 65 Copynumber: 3.1 Consensus size: 65
786938 GAGTCAAAAA
* * * *
786948 AAAATTTTGTCTCTCTTGAGACAGTTTCTTTTGAGAAAAATTTTTAAGTTTGTTTCTTTGGAAAC
1 AAAATTTTATCTCTCTTGAGACAGTTTCTTTTGAGAAAAATTTTTGAGTATGTTTCTTTGTAAAC
* * * * *
787013 AAAA-TTTATCATCT-TTGAGTC-TTTTCTTTTGAAACAAAAGATTTTTGAGTCTATTTCTTT-T
1 AAAATTTTATC-TCTCTTGAGACAGTTTCTTTTG--AGAAAA-ATTTTTGAGTATGTTTCTTTGT
787074 GAAAC
62 -AAAC
* *
787079 AAAATTTTATCTCTCTTGAGACAGTTTCTTTTGAGAAAAATCTTTGAGTATGTTTATTTGTAAAC
1 AAAATTTTATCTCTCTTGAGACAGTTTCTTTTGAGAAAAATTTTTGAGTATGTTTCTTTGTAAAC
787144 AAAATTT
1 AAAATTT
787151 ACCATATTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
63 9 0.08
64 11 0.10
65 39 0.34
66 34 0.30
67 12 0.11
68 9 0.08
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (65 bp):
AAAATTTTATCTCTCTTGAGACAGTTTCTTTTGAGAAAAATTTTTGAGTATGTTTCTTTGTAAAC
Found at i:787414 original size:28 final size:28
Alignment explanation
Indices: 787383--787436 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
787373 GAAGCACATC
* *
787383 ATCTTTGAGTTTGTTTTTCTTGAAACAA
1 ATCTTTGAGTTGGTTTCTCTTGAAACAA
787411 ATCTTTGAGTTGGTTTCTCTTGAAAC
1 ATCTTTGAGTTGGTTTCTCTTGAAAC
787437 CAGTCTCCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTTCTCTTGAAACAA
Found at i:787684 original size:134 final size:134
Alignment explanation
Indices: 787444--787888 Score: 629
Period size: 134 Copynumber: 3.3 Consensus size: 134
787434 AACCAGTCTC
* * * * * *
787444 CCTAAAGATGGCTAGAACTCTTCATCACGTATGAGCTGTGTCATCCCCCGATCAGATCTCTTTAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATCTCCTCAT
* * *
787509 CACGTATGAGCCGTGTCACCCCTAGATAACCAGTTGTCCTCATCGCGTAGGAACCGAGTTATCAC
66 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCAC
*
787574 CCTT
131 CATT
* *
787578 CCTAAAGATGACCATAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCCTCAT
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATCTCCTCAT
* * * *
787643 CACGTAGGAACCGTGTCACCCCTAGATAACCAGACATCCTCATCTCGTAGGAACCGAGTTATCAC
66 CACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCAC
787708 CATT
131 CATT
* * *
787712 CCTAAATATGTCCCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGACCTCCTCA
1 CCTAAAGATG-ACCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATCTCCTCA
* * * * *
787777 TCATGTAGGAGCTGTGTCACCCATAGAAAACCAGTCGTCCTCATCACGTAGGAACTGAGTTATCA
65 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCA
787842 CCATT
130 CCATT
** * *
787847 CCTTTAGATGACCCGAACTCTTCATCATGTATGAGCAGTGTC
1 CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCAGTGTC
787889 GTTCCCACCA
Statistics
Matches: 276, Mismatches: 34, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
134 158 0.57
135 118 0.43
ACGTcount: A:0.26, C:0.31, G:0.17, T:0.26
Consensus pattern (134 bp):
CCTAAAGATGACCAGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACCAGATCTCCTCAT
CACGTAGGAGCCGTGTCACCCCTAGATAACCAGTCGTCCTCATCACGTAGGAACCGAGTTATCAC
CATT
Found at i:788052 original size:3 final size:3
Alignment explanation
Indices: 788046--788075 Score: 51
Period size: 3 Copynumber: 9.7 Consensus size: 3
788036 CTTTTTTTAA
788046 TAT TAT TAT TAGT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TA
788076 ATCAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 23 0.88
4 3 0.12
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:792075 original size:42 final size:43
Alignment explanation
Indices: 792020--792112 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
792010 TGATTATTAA
* * * *
792020 AATAAAATCATTATAAATTATGTTAATTATTTATTAAAATGAG
1 AATAATATCATTATAAATCATATTAATTATTTATTAAAATAAG
* *
792063 AATAATAT-ATTATTAATCATATTAATTATTTATTAAAATAAT
1 AATAATATCATTATAAATCATATTAATTATTTATTAAAATAAG
792105 AATAATAT
1 AATAATAT
792113 TAAAACATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 37 0.84
43 7 0.16
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (43 bp):
AATAATATCATTATAAATCATATTAATTATTTATTAAAATAAG
Found at i:792107 original size:19 final size:19
Alignment explanation
Indices: 792043--792107 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 19
792033 TAAATTATGT
792043 TAATTATTTATTAAAATGAGAA
1 TAATTATTTATTAAAAT---AA
* *
792065 TAA-TATATTATTAATCATAT
1 TAATTAT-TTATTAA-AATAA
792085 TAATTATTTATTAAAATAA
1 TAATTATTTATTAAAATAA
792104 TAAT
1 TAAT
792108 AATATTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
19 7 0.19
20 11 0.31
21 6 0.17
22 10 0.28
23 2 0.06
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (19 bp):
TAATTATTTATTAAAATAA
Found at i:792153 original size:19 final size:19
Alignment explanation
Indices: 792089--792155 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 19
792079 TCATATTAAT
*
792089 TATT-TATTAAAATAATAA
1 TATTATATTAAAATAAAAA
792107 TA--ATATTAAAACATTAAAAA
1 TATTATATT-AAA-A-TAAAAA
* *
792127 TATAATATTAAAATAAGAA
1 TATTATATTAAAATAAAAA
792146 TATTATATTA
1 TATTATATTA
792156 TATTTTTAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
17 4 0.10
18 5 0.12
19 15 0.38
20 8 0.20
21 3 0.08
22 5 0.12
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (19 bp):
TATTATATTAAAATAAAAA
Found at i:792291 original size:29 final size:31
Alignment explanation
Indices: 792243--792300 Score: 86
Period size: 29 Copynumber: 1.9 Consensus size: 31
792233 ATTAATAATT
792243 TATTATATATTATTAAAATA-A-AATTATAA
1 TATTATATATTATTAAAATATATAATTATAA
792272 TATTATATATTA-TAATAATATATAATTAT
1 TATTATATATTATTAA-AATATATAATTAT
792301 CACAATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 3 0.12
29 16 0.62
30 1 0.04
31 6 0.23
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
TATTATATATTATTAAAATATATAATTATAA
Found at i:792344 original size:45 final size:45
Alignment explanation
Indices: 792246--792332 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
792236 AATAATTTAT
* * *
792246 TATAT-ATTATTAAAATAAAATTATAATATTATATATTATAATAA
1 TATATAATTATCACAATAAAATTATAATATTATATATTAAAATAA
792290 TATATAATTATCACAATAAAATATGATAATA-TAT-TATTAAAAT
1 TATATAATTATCACAATAAAAT-T-ATAATATTATATATTAAAAT
792333 TATCAATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
44 5 0.14
45 22 0.59
46 4 0.11
47 6 0.16
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (45 bp):
TATATAATTATCACAATAAAATTATAATATTATATATTAAAATAA
Found at i:794811 original size:19 final size:19
Alignment explanation
Indices: 794774--794865 Score: 105
Period size: 19 Copynumber: 4.7 Consensus size: 19
794764 AACACAGAAG
794774 TCAAATTCGCAACACTGAATT
1 TCAAATTCGC-A-ACTGAATT
*
794795 TCAAATTCGTAACTGAATT
1 TCAAATTCGCAACTGAATT
*
794814 TCAAATTCGCAACTCGATTT
1 TCAAATTCGCAACT-GAATT
*
794834 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
794854 T-AATTTCGCAAC
1 TCAAATTCGCAAC
794866 AGGTTTTAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
19 31 0.49
20 23 0.37
21 9 0.14
ACGTcount: A:0.36, C:0.23, G:0.10, T:0.32
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:794866 original size:19 final size:20
Alignment explanation
Indices: 794676--794866 Score: 137
Period size: 20 Copynumber: 9.7 Consensus size: 20
794666 AAATGACCAA
*
794676 CAAATTCGCAACGCG-ATCTT
1 CAAATTCGCAACACGAAT-TT
* *
794696 -AAATTCGCAACACGAACTC
1 CAAATTCGCAACACGAATTT
* * * *
794715 CTATTTCGCAAC-CCAGTTT
1 CAAATTCGCAACACGAATTT
*
794734 CCAAATTCGCAACGCG-ATTAT
1 -CAAATTCGCAACACGAATT-T
* *
794755 GTAAA-TCGCAACACAGAA-GT
1 -CAAATTCGCAACAC-GAATTT
794775 CAAATTCGCAACACTGAATTT
1 CAAATTCGCAACAC-GAATTT
* *
794796 CAAATTCGTAAC-TGAATTT
1 CAAATTCGCAACACGAATTT
* *
794815 CAAATTCGCAACTCGATTTT
1 CAAATTCGCAACACGAATTT
794835 CAAATTCGCAACACGAATTT
1 CAAATTCGCAACACGAATTT
*
794855 -AATTTCGCAACA
1 CAAATTCGCAACA
794867 GGTTTTAGTT
Statistics
Matches: 133, Mismatches: 28, Indels: 21
0.73 0.15 0.12
Matches are distributed among these distances:
19 48 0.36
20 66 0.50
21 18 0.14
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.12, T:0.27
Consensus pattern (20 bp):
CAAATTCGCAACACGAATTT
Found at i:795013 original size:22 final size:22
Alignment explanation
Indices: 794985--795036 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
794975 CTCCGGCGAC
794985 ATCCGTTCCTATATCCAACGAA
1 ATCCGTTCCTATATCCAACGAA
*
795007 ATCCGTTCCTATATCCAACGAC
1 ATCCGTTCCTATATCCAACGAA
795029 ATCC-TTCC
1 ATCCGTTCC
795037 CCATCTCTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.27, C:0.37, G:0.08, T:0.29
Consensus pattern (22 bp):
ATCCGTTCCTATATCCAACGAA
Found at i:796059 original size:3 final size:3
Alignment explanation
Indices: 796043--796085 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
796033 ATATAACCCT
* * *
796043 GAA GAA AAA AAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
796086 TCCCCGAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:796085 original size:18 final size:18
Alignment explanation
Indices: 796043--796085 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
796033 ATATAACCCT
*
796043 GAAGAAAAAAAAGAAGAA
1 GAAGAAGAAAAAGAAGAA
796061 GAAGAAGAAAAAGAAGAA
1 GAAGAAGAAAAAGAAGAA
796079 GAAGAAG
1 GAAGAAG
796086 TCCCCGAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAAAAGAAGAA
Found at i:798363 original size:13 final size:13
Alignment explanation
Indices: 798345--798379 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
798335 TCAAATTCAC
798345 GTTGCGATTTTTT
1 GTTGCGATTTTTT
798358 GTTGCGATTTTTT
1 GTTGCGATTTTTT
798371 GTTGCGATT
1 GTTGCGATT
798380 ATTGCGAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.09, C:0.09, G:0.26, T:0.57
Consensus pattern (13 bp):
GTTGCGATTTTTT
Found at i:798489 original size:20 final size:20
Alignment explanation
Indices: 798443--798492 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
798433 ATCGCAACGT
*
798443 GAATTTAACTTTAACGTTGC
1 GAATTTGACTTTAACGTTGC
**
798463 GAATTTGACTTTCTCGTTGC
1 GAATTTGACTTTAACGTTGC
798483 GAATTTGACT
1 GAATTTGACT
798493 ATCGCAACGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (20 bp):
GAATTTGACTTTAACGTTGC
Found at i:800114 original size:21 final size:21
Alignment explanation
Indices: 800090--800144 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
800080 GCGGGCGGGA
*
800090 CCTCTTGAACGATGACAGGGG
1 CCTCTTGAACGATGACAAGGG
**
800111 CCTCTTGAAC-AGTGGGAAGGG
1 CCTCTTGAACGA-TGACAAGGG
800132 CCTCTTGAACGAT
1 CCTCTTGAACGAT
800145 AGGATACGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 1 0.03
21 27 0.93
22 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.31, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGACAAGGG
Found at i:800340 original size:4 final size:4
Alignment explanation
Indices: 800310--800355 Score: 65
Period size: 4 Copynumber: 11.5 Consensus size: 4
800300 GGGCCGCTGA
* * *
800310 AAAT AAAT TAAT ACAT AAAT CAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
800356 TGCCGAAAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 36 1.00
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:802391 original size:20 final size:20
Alignment explanation
Indices: 802366--802416 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
802356 GAAACTAAAA
802366 TCGCGTTGCAATTTTCATTT
1 TCGCGTTGCAATTTTCATTT
*
802386 TCGCGTTGCGATTTTCATTT
1 TCGCGTTGCAATTTTCATTT
*
802406 TCGTGTTGCAA
1 TCGCGTTGCAA
802417 ATTTAAGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.20, G:0.20, T:0.47
Consensus pattern (20 bp):
TCGCGTTGCAATTTTCATTT
Found at i:802781 original size:22 final size:22
Alignment explanation
Indices: 802726--802781 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
802716 GATGGAGATA
*
802726 GATGGATTTCGCCGGAGATGGG
1 GATGGATTTCGTCGGAGATGGG
**
802748 GACAGATTTCGTCGGAGATGGG
1 GATGGATTTCGTCGGAGATGGG
*
802770 GATGGATGTCGT
1 GATGGATTTCGT
802782 TGTAGAGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.12, G:0.43, T:0.25
Consensus pattern (22 bp):
GATGGATTTCGTCGGAGATGGG
Found at i:802959 original size:20 final size:20
Alignment explanation
Indices: 802934--802972 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
802924 ACGCGCTTTG
*
802934 CGAATTTGACTTCTGTGTTA
1 CGAATTTGACTTATGTGTTA
802954 CGAATTTGACTTATGTGTT
1 CGAATTTGACTTATGTGTT
802973 GCGATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.46
Consensus pattern (20 bp):
CGAATTTGACTTATGTGTTA
Found at i:806234 original size:16 final size:17
Alignment explanation
Indices: 806207--806240 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
806197 GTGAGTTACC
*
806207 ACAAACCATACATTCAT
1 ACAAACCATACATACAT
806224 ACAAA-CATACATACAT
1 ACAAACCATACATACAT
806240 A
1 A
806241 GCTATTTGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (17 bp):
ACAAACCATACATACAT
Found at i:806365 original size:3 final size:3
Alignment explanation
Indices: 806357--806431 Score: 71
Period size: 3 Copynumber: 24.7 Consensus size: 3
806347 ATTTTATTTA
* *
806357 TAT TAT TAT TAT CAT TAT TA- TAT TAT TAT TAAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * * *
806402 TAA TAT TTT TAT TAAT AAA TAT TAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
806432 CATATTACAG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:806400 original size:16 final size:16
Alignment explanation
Indices: 806359--806431 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 16
806349 TTTATTTATA
806359 TTATTATTATCATTATTAT
1 TTATTATTA--ATTATT-T
806378 ATTATTATTAATTATTT
1 -TTATTATTAATTATTT
806395 TTATTATTAA-TATTT
1 TTATTATTAATTATTT
* * *
806410 TTATTAATAAATATTA
1 TTATTATTAATTATTT
806426 TTATTA
1 TTATTA
806432 CATATTACAG
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
15 14 0.28
16 20 0.40
17 1 0.02
18 6 0.12
20 9 0.18
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTATTAATTATTT
Found at i:811979 original size:15 final size:15
Alignment explanation
Indices: 811959--811990 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
811949 GATCAATACC
811959 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
811974 TTTTGCATACATTCA
1 TTTTGCATACATGCA
811989 TT
1 TT
811991 ATTCATTGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:814997 original size:113 final size:112
Alignment explanation
Indices: 814796--815695 Score: 747
Period size: 113 Copynumber: 7.9 Consensus size: 112
814786 ATCCATTACA
* *
814796 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
814861 TCATAATGAGAAGAGCTTGTTCAACCTTTTGCTCAAATCCGTCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCCATCA-TTG
* *
814909 ATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
814974 TCATAATGAGAAGAGCTTATTCAACCTTTTGCTCAAATCCATCACTTG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCCATCA-TTG
* * *
815022 ATGGATCAACTTTTCCAGAGAAAGTTTATAATAATAAGAACTTATCTGAA-AAGGAAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * ** **
815086 TCATAATGAGAAGAGCTTATTCAACCTTTTGCAT-GATTCTATCACAGAAGGAGATAA
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGC-TCGA----ATC-C---A--TCATTG
* * ** * * * ** *
815143 ATCAGCATCAACATTTCCAGA-AGTGTTCATAATGAGAAAAACTCATCTGAAAAAAAAAGAAAAA
1 AT--GGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAG-AAGA
* **** * * * * * *
815207 ATTGTTCA-ACCTTG-CCTTAA-TT-TATC-ACATATGAAGTTGAATCAACAACACCTCTTTTG
63 A--GTTCATA--ATGAGAAGAACTTGT-TCAACCT-T----TTG-CTCGA-ATC-CATC-ATTG
* * * * *
815266 A-AGATCAACATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGTAGAAGAAGT
1 ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
* * *
815329 TCATAATGAGAAGAACTTGTTCAACCTTTCGCTTGAATTCATCATTCG
66 TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCCATCATT-G
* * *
815377 ATGGATCAACATTACCAG-GTAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
1 ATGGATCAACTTTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * * *
815441 TTCATAATAAGAAGAACTTGTTCAACCTTTCGCTTGAATTCATCATTCG
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCCATCATT-G
* * *
815490 ATGGATCAACATTACCAG-GTAGAGTTCATAATAAGAAGAACTCATCTGAAGAA--AAGAAGAAG
1 ATGGATCAACTTTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAG
* * *
815552 TTCATAATGAGAAGAACTTGTTCAACTTTTTGCTCGATTTCATCATTCG
65 TTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCCATCATT-G
* * *
815601 ATGAATCAA-TATTGCCAG-GAAGAGTTCATAATAAGAAGAACTCATTTGAAG-AGG-AGAAGAA
1 ATGGATCAACT-TTTCCAGAGAA-AGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAA
* *
815662 GTTCATAATGAGAAGAATTTGTTCAGCCTTTTGC
64 GTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
815696 ATGACTCTAT
Statistics
Matches: 664, Mismatches: 82, Indels: 84
0.80 0.10 0.10
Matches are distributed among these distances:
110 4 0.01
111 139 0.21
112 62 0.09
113 302 0.45
114 2 0.00
116 5 0.01
117 8 0.01
118 6 0.01
119 8 0.01
120 48 0.07
121 3 0.00
122 24 0.04
123 22 0.03
124 8 0.01
125 6 0.01
126 6 0.01
127 6 0.01
129 4 0.01
130 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (112 bp):
ATGGATCAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
TCATAATGAGAAGAACTTGTTCAACCTTTTGCTCGAATCCATCATTG
Found at i:815575 original size:224 final size:222
Alignment explanation
Indices: 815268--815692 Score: 663
Period size: 224 Copynumber: 1.9 Consensus size: 222
815258 CTCTTTTGAA
* * *
815268 GATCAACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGTAGAAGAAGTTCAT
1 GATCAACATTACCAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCAT
* * *
815333 AATGAGAAGAACTTGTTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAACATTACCAGGTA
65 AATGAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCATTCGATGAATCAACATTACCAGGAA
815398 GAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
130 GAGTTCATAATAAGAAGAACTCATCTGAAG-AGG-AGAAGAAGTTCATAATAAGAAGAACTTGTT
815463 CAACCTTTCGCTTGAATTCATCATTCGATG
193 CAACCTTTCGCTTGAATTCATCATTCGATG
*
815493 GATCAACATTACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAA-AAGAAGAAGTTCAT
1 GATCAACATTACCA-GAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCAT
* * * * *
815557 AATGAGAAGAACTTGTTCAACTTTTTGCTCGATTTCATCATTCGATGAATCAATATTGCCAGGAA
65 AATGAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCATTCGATGAATCAACATTACCAGGAA
* * *
815622 GAGTTCATAATAAGAAGAACTCATTTGAAGAGGAGAAGAAGTTCATAATGAGAAGAATTTGTTCA
130 GAGTTCATAATAAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCA
*
815687 GCCTTT
195 ACCTTT
815693 TGCATGACTC
Statistics
Matches: 183, Mismatches: 16, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
222 35 0.19
223 3 0.02
224 99 0.54
225 13 0.07
226 33 0.18
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (222 bp):
GATCAACATTACCAGAAGAGTTCATAATAAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTTCGCTCGAATTCATCATTCGATGAATCAACATTACCAGGAAG
AGTTCATAATAAGAAGAACTCATCTGAAGAGGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA
CCTTTCGCTTGAATTCATCATTCGATG
Found at i:816032 original size:3 final size:3
Alignment explanation
Indices: 816024--816098 Score: 71
Period size: 3 Copynumber: 24.7 Consensus size: 3
816014 ATTTTATTTA
* *
816024 TAT TAT TAT TAT CAT TAT TA- TAT TAT TAT TAAT TAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
* * * *
816069 TAA TAT TTT TAT TAAT AAA TAT TAT TAT TA
1 TAT TAT TAT TAT T-AT TAT TAT TAT TAT TA
816099 CATATTACAG
Statistics
Matches: 57, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
2 2 0.04
3 50 0.88
4 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:816067 original size:16 final size:16
Alignment explanation
Indices: 816026--816098 Score: 76
Period size: 16 Copynumber: 4.4 Consensus size: 16
816016 TTTATTTATA
816026 TTATTATTATCATTATTAT
1 TTATTATTA--ATTATT-T
816045 ATTATTATTAATTATTT
1 -TTATTATTAATTATTT
816062 TTATTATTAA-TATTT
1 TTATTATTAATTATTT
* * *
816077 TTATTAATAAATATTA
1 TTATTATTAATTATTT
816093 TTATTA
1 TTATTA
816099 CATATTACAG
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
15 14 0.28
16 20 0.40
17 1 0.02
18 6 0.12
20 9 0.18
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (16 bp):
TTATTATTAATTATTT
Found at i:817489 original size:3 final size:3
Alignment explanation
Indices: 817481--817510 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
817471 TTTACTTTTA
*
817481 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
817511 TAACTATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:817533 original size:24 final size:23
Alignment explanation
Indices: 817516--817564 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
817506 TTATTTAACT
*
817516 ATAAAT-ATATATA-TTTATATA
1 ATAAATAATATATATTTTATTTA
*
817537 ATAAATAATATGTATTTTATTTA
1 ATAAATAATATATATTTTATTTA
*
817560 TTAAA
1 ATAAA
817565 ATCTTAGTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 6 0.26
23 11 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (23 bp):
ATAAATAATATATATTTTATTTA
Found at i:822831 original size:21 final size:21
Alignment explanation
Indices: 822755--822819 Score: 94
Period size: 21 Copynumber: 3.0 Consensus size: 21
822745 ACTCAACCAT
*
822755 AATCCTTAATCCCTAAGCACTA
1 AATCC-TAAACCCTAAGCACTA
*
822777 AATCCTAAACCCTGAGCACTA
1 AATCCTAAACCCTAAGCACTA
*
822798 AATCCTAAACCCTAAGCCCTA
1 AATCCTAAACCCTAAGCACTA
822819 A
1 A
822820 GCCCTAAGCC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
21 34 0.87
22 5 0.13
ACGTcount: A:0.38, C:0.34, G:0.06, T:0.22
Consensus pattern (21 bp):
AATCCTAAACCCTAAGCACTA
Found at i:824910 original size:23 final size:23
Alignment explanation
Indices: 824884--824975 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 23
824874 TAACCTGTCA
* *
824884 AGCTTGAATCGAGTTCCAAGTCG
1 AGCTTGAATCGAGCTCCAAATCG
*
824907 AGCTTGAATCGAGCTCCAAATTG
1 AGCTTGAATCGAGCTCCAAATCG
** **
824930 AGCTCCAAATTAAGCTCCAAATCG
1 AGCT-TGAATCGAGCTCCAAATCG
*
824954 AGCTTGAATCGAGCTCTAAATC
1 AGCTTGAATCGAGCTCCAAATC
824976 AAGTTCAATT
Statistics
Matches: 55, Mismatches: 13, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
23 37 0.67
24 18 0.33
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
AGCTTGAATCGAGCTCCAAATCG
Found at i:824975 original size:12 final size:12
Alignment explanation
Indices: 824890--824975 Score: 68
Period size: 12 Copynumber: 7.3 Consensus size: 12
824880 GTCAAGCTTG
*
824890 AATCGAGTTCCA
1 AATCGAGCTCCA
* **
824902 AGTCGAGCT-TG
1 AATCGAGCTCCA
824913 AATCGAGCTCCA
1 AATCGAGCTCCA
*
824925 AATTGAGCTCCA
1 AATCGAGCTCCA
**
824937 AATTAAGCTCCA
1 AATCGAGCTCCA
**
824949 AATCGAGCT-TG
1 AATCGAGCTCCA
*
824960 AATCGAGCTCTA
1 AATCGAGCTCCA
824972 AATC
1 AATC
824976 AAGTTCAATT
Statistics
Matches: 58, Mismatches: 14, Indels: 4
0.76 0.18 0.05
Matches are distributed among these distances:
11 17 0.29
12 41 0.71
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (12 bp):
AATCGAGCTCCA
Found at i:826155 original size:28 final size:29
Alignment explanation
Indices: 826124--826181 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
826114 AAATTAATGT
826124 TAAATAACAA-AA-TAAAAGAAATATT-AAA
1 TAAATAA-AAGAATTAAAAGAAA-ATTCAAA
826152 TAAATAAAAGAATTAAAAGAAAATTCAAA
1 TAAATAAAAGAATTAAAAGAAAATTCAAA
826181 T
1 T
826182 TAAAAATGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
27 2 0.07
28 12 0.44
29 13 0.48
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (29 bp):
TAAATAAAAGAATTAAAAGAAAATTCAAA
Found at i:827270 original size:11 final size:11
Alignment explanation
Indices: 827251--827291 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
827241 TTTGGACCTG
827251 AAATAAAAATA
1 AAATAAAAATA
*
827262 AAATTAAAATA
1 AAATAAAAATA
827273 AAATAAATAATA
1 AAATAAA-AATA
827285 ATAATAA
1 A-AATAA
827292 TAAGCTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
11 16 0.62
12 5 0.19
13 5 0.19
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:827366 original size:26 final size:24
Alignment explanation
Indices: 827321--827410 Score: 80
Period size: 26 Copynumber: 3.7 Consensus size: 24
827311 ATATATTGTA
*
827321 TTTTCAAAAT-CATATA--ATATG
1 TTTTCAAAATATATATATTATATG
*
827342 TTTTCGAAATATATATATTACATATG
1 TTTTCAAAATATATATATT--ATATG
*
827368 TTTTTCAAAAACTATATATATTATACG
1 -TTTTC-AAAA-TATATATATTATATG
827395 TTTTCAAAAT-TATATA
1 TTTTCAAAATATATATA
827411 ATAATACGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
21 9 0.16
22 5 0.09
23 6 0.11
24 1 0.02
25 4 0.07
26 10 0.18
27 9 0.16
28 3 0.05
29 10 0.18
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (24 bp):
TTTTCAAAATATATATATTATATG
Found at i:827383 original size:27 final size:26
Alignment explanation
Indices: 827337--827456 Score: 81
Period size: 26 Copynumber: 4.6 Consensus size: 26
827327 AAATCATATA
* *
827337 ATATGTTTTCGAAATA-TATATATTAC
1 ATATGTTTTC-AAAAACTATATATTAT
827363 ATATGTTTTTCAAAAACTATATA-TATT
1 ATATG-TTTTCAAAAACTATATATTA-T
* * *
827390 ATACGTTTTC-AAAATTATATAATA-
1 ATATGTTTTCAAAAACTATATATTAT
* *
827414 ATACGTTTTTTTAAAAAC--TATATTAT
1 ATA--TGTTTTCAAAAACTATATATTAT
827440 ATATGTTTTCTAAAAAC
1 ATATGTTTTC-AAAAAC
827457 CATTTTTTAA
Statistics
Matches: 74, Mismatches: 11, Indels: 19
0.71 0.11 0.18
Matches are distributed among these distances:
24 8 0.11
25 22 0.30
26 25 0.34
27 19 0.26
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (26 bp):
ATATGTTTTCAAAAACTATATATTAT
Found at i:827486 original size:39 final size:38
Alignment explanation
Indices: 827420--827529 Score: 143
Period size: 38 Copynumber: 2.9 Consensus size: 38
827410 AATAATACGT
827420 TTTTTTAAAAACTATAT-TATATATGTTTTCTAAAAACCA
1 TTTTTTAAAAACTATATAT-TATATGTTTTC-AAAAACCA
* *
827459 TTTTTTAAAAAACTATATATTAT-TGTTTTCAAAAATCG
1 TTTTTT-AAAAACTATATATTATATGTTTTCAAAAACCA
* *
827497 CTTTTTAAAAACTATATATTATATATTTTCAAA
1 TTTTTTAAAAACTATATATTATATGTTTTCAAA
827530 CCATATTATA
Statistics
Matches: 64, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
37 16 0.25
38 20 0.31
39 13 0.20
40 14 0.22
41 1 0.02
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (38 bp):
TTTTTTAAAAACTATATATTATATGTTTTCAAAAACCA
Found at i:832416 original size:64 final size:64
Alignment explanation
Indices: 832337--832475 Score: 190
Period size: 64 Copynumber: 2.2 Consensus size: 64
832327 CGGATCTTGA
* * *
832337 CAGGTCGGGTAAAATCGGATTCAGGTCA-ATTCAGGTTGATTTGACACCAGATCCAGATCGGGTT
1 CAGGTCGGGTCAAATCAG-TTCAGGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGATT
* * * *
832401 CAGGTCAGGTCAAATCAGTTCGGGTTATTTTCAGGTTGATTTGACACCAGATCCAGATCGGATT
1 CAGGTCGGGTCAAATCAGTTCAGGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGATT
*
832465 CAAGTCGGGTC
1 CAGGTCGGGTC
832476 GTTTTCAGTT
Statistics
Matches: 65, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
63 7 0.11
64 58 0.89
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.28
Consensus pattern (64 bp):
CAGGTCGGGTCAAATCAGTTCAGGTCATATTCAGGTTGATTTGACACCAGATCCAGATCGGATT
Found at i:832488 original size:16 final size:16
Alignment explanation
Indices: 832469--832507 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
832459 CGGATTCAAG
*
832469 TCGGGTCGTTTTCAGT
1 TCGGGTCGATTTCAGT
*
832485 TCGGATCGATTTCAGT
1 TCGGGTCGATTTCAGT
*
832501 TCTGGTC
1 TCGGGTC
832508 AAAACAATTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.10, C:0.21, G:0.28, T:0.41
Consensus pattern (16 bp):
TCGGGTCGATTTCAGT
Found at i:833319 original size:2 final size:2
Alignment explanation
Indices: 833260--833310 Score: 84
Period size: 2 Copynumber: 25.0 Consensus size: 2
833250 CCATGCATAG
*
833260 TA TA TA TA AA CTA 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
833303 TA TA TA TA
1 TA TA TA TA
833311 AACTATATAA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 45 0.98
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:833396 original size:48 final size:49
Alignment explanation
Indices: 833303--833397 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
833293 TATATATATA
* * **
833303 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
833352 TATACATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAAC
833398 CTTAAATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 21 0.51
49 20 0.49
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:833409 original size:49 final size:49
Alignment explanation
Indices: 833308--833411 Score: 131
Period size: 48 Copynumber: 2.1 Consensus size: 49
833298 ATATATATAT
* ** *
833308 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
833357 ATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC-CTTAAATC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC-TAAA-C
833406 ATAAAC
1 ATAAAC
833412 CCTAATTCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 24 0.50
49 23 0.48
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:833457 original size:14 final size:14
Alignment explanation
Indices: 833394--833457 Score: 58
Period size: 14 Copynumber: 4.6 Consensus size: 14
833384 TAGTTTATAG
*
833394 AAACCTTAAATCAT
1 AAACCCTAAATCAT
*
833408 AAACCCTAATTC-T
1 AAACCCTAAATCAT
**
833421 AAACTTTAAATCAT
1 AAACCCTAAATCAT
** *
833435 AAATACTAAACCAT
1 AAACCCTAAATCAT
833449 AAACCCTAA
1 AAACCCTAA
833458 TTTAAATGGA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
13 10 0.26
14 28 0.74
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:833779 original size:9 final size:9
Alignment explanation
Indices: 833767--833809 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
833757 TACATTTAAA
833767 TAATTTTAT
1 TAATTTTAT
833776 TAATTTTAT
1 TAATTTTAT
833785 TAA----A-
1 TAATTTTAT
833789 TAATTTTAT
1 TAATTTTAT
833798 TAATTTTAT
1 TAATTTTAT
833807 TAA
1 TAA
833810 ATAATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
4 3 0.10
5 1 0.03
8 1 0.03
9 24 0.83
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (9 bp):
TAATTTTAT
Found at i:833790 original size:22 final size:22
Alignment explanation
Indices: 833762--833824 Score: 117
Period size: 22 Copynumber: 2.8 Consensus size: 22
833752 TAATTTACAT
833762 TTAAATAATTTTATTAATTTTA
1 TTAAATAATTTTATTAATTTTA
833784 TTAAATAATTTTATTAATTTTA
1 TTAAATAATTTTATTAATTTTA
833806 TTAAATAATTTTATATAAT
1 TTAAATAATTTTAT-TAAT
833825 ATGTATGTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 36 0.90
23 4 0.10
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAAATAATTTTATTAATTTTA
Found at i:833825 original size:13 final size:13
Alignment explanation
Indices: 833776--833819 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
833766 ATAATTTTAT
833776 TAATTTTATTAAA
1 TAATTTTATTAAA
833789 TAATTTTA-T---
1 TAATTTTATTAAA
833798 TAATTTTATTAAA
1 TAATTTTATTAAA
833811 TAATTTTAT
1 TAATTTTAT
833820 ATAATATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
9 8 0.30
10 1 0.04
12 1 0.04
13 17 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAATTTTATTAAA
Found at i:833855 original size:20 final size:19
Alignment explanation
Indices: 833823--833881 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 19
833813 ATTTTATATA
*
833823 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACC-T
*
833842 GTATAGTATATATAAA-CT
1 ATATAGTATATATAAACCT
833860 ATATA-TATATATAAA-CT
1 ATATAGTATATATAAACCT
833877 ATATA
1 ATATA
833882 AAGTAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 17 0.47
18 5 0.14
19 4 0.11
20 10 0.28
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (19 bp):
ATATAGTATATATAAACCT
Found at i:833862 original size:9 final size:9
Alignment explanation
Indices: 833850--833883 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
833840 ATGTATAGTA
833850 TATATAAAC
1 TATATAAAC
*
833859 TATATATA-
1 TATATAAAC
833867 TATATAAAC
1 TATATAAAC
833876 TATATAAA
1 TATATAAA
833884 GTAAATTACT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (9 bp):
TATATAAAC
Found at i:833870 original size:17 final size:18
Alignment explanation
Indices: 833843--833881 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
833833 ATAAACCATG
833843 TATAGTATATATAAACTA
1 TATAGTATATATAAACTA
833861 TATA-TATATATAAACTA
1 TATAGTATATATAAACTA
833878 TATA
1 TATA
833882 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (18 bp):
TATAGTATATATAAACTA
Found at i:833958 original size:48 final size:49
Alignment explanation
Indices: 833865--833959 Score: 138
Period size: 48 Copynumber: 2.0 Consensus size: 49
833855 AAACTATATA
* * **
833865 TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
833914 TATACATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC
1 TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAAC
833960 CTTAAATCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 21 0.51
49 20 0.49
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (49 bp):
TATACATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:833971 original size:49 final size:49
Alignment explanation
Indices: 833870--833973 Score: 131
Period size: 48 Copynumber: 2.1 Consensus size: 49
833860 ATATATATAT
* ** *
833870 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATAC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
*
833919 ATAAACTATATAAAGT-AGTAAAATATATAGTTTATAGAAAC-CTTAAATC
1 ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC-TAAA-C
833968 ATAAAC
1 ATAAAC
833974 CATAAACTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 1 0.02
48 24 0.50
49 23 0.48
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACACTAAAC
Found at i:834325 original size:573 final size:575
Alignment explanation
Indices: 832899--834930 Score: 3249
Period size: 549 Copynumber: 3.6 Consensus size: 575
832889 AATGTAAAAA
* * * * * *
832899 GACTATCACTAATGCATATATATTTGCAATAAAAGAGTGGGCTTACATTGGGCCTATCTAAATTA
1 GACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
832964 ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
66 ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
* * *
833029 CAACAAAATAAATGGGCTATTAATGTGAATTAACCTAACATGCAACTAAAATACTAATTATGCAA
131 CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
* * * * *
833094 ATGAAATT-A-ATGACATGTACTATTATTTATGAACCATATAATAAGGAATGTGACATACTAATT
196 TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
833157 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
261 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
* ** ** * * * *
833222 ATAATTTTATATAATATGTATGTATAA-ACCA-TGCATAGTATATATAAACTATATATA-TATAT
326 ATAATTTTATATAATATTTAT-TA-AATA--ATTTTATA-TA-ATATGTA-TGTATAAACCATGT
*
833284 ATA-TATATATATA-TATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGA
384 ATAGTATATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGA
833347 AACACTATACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAAC
449 AACACTATACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAAC
* * * *
833412 CCT-AA-TTCTAAACTTT-----A-AATCA-TAAATACTAAACCATAAACCCTAATTTAAATG
514 CATAAACTT-TAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATG
* *
833466 GACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGAGCCTATGTAAACTA
1 GACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
833531 ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCAT--
66 ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
*
833594 -AACAAAATAAATGAGTCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
131 CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
833658 TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
196 TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
833723 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
261 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
833788 ATAATTTTAT-TAAT-TTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTAT
326 ATAATTTTATATAATATTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTAT
833851 ATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
391 ATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
833916 TACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCATAAAC
456 TACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCATAAAC
833981 TTTAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATG
521 TTTAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATG
*
834036 GACTAACACTAATACATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
1 GACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
* * *
834101 ATGTTAATAGACTAGCACTATTTCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
66 ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
834166 CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
131 CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
*
834231 TTTAAATTAATATGACATGTATTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
196 TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
834296 ATTTAACACCTAATTAATCATGTTTTATATAATTTAC------------------A---T-TTAA
261 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
834339 ATAATTTTAT-TAAT-TTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTAT
326 ATAATTTTATATAATATTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTAT
*
834402 ATATAAAC--TATATATATATAAACTATATAAAATAAATTACTTATATAGTTTATAGAAACACTA
391 ATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
* *
834465 TACATAAACTATATAAAGTAGTAAAATATATAGTTTATATAAACCTTAAATCATAAAGCATAAAC
456 TACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCATAAAC
** *
834530 CCTAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATGTAAATG
521 TTTAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATG
* *
834585 GACTAGCACTATTGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
1 GACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
* *
834650 ATGTTAATGGACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCATAA
66 ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
834715 CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
131 CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
834780 TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
196 TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
834845 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
261 ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
834910 ATAATTTTATATAATATTTAT
326 ATAATTTTATATAATATTTAT
834931 GTATAAACCA
Statistics
Matches: 1372, Mismatches: 50, Indels: 80
0.91 0.03 0.05
Matches are distributed among these distances:
549 459 0.33
551 75 0.05
552 1 0.00
555 1 0.00
559 6 0.00
560 11 0.01
561 12 0.01
562 123 0.09
563 13 0.01
564 72 0.05
565 5 0.00
566 126 0.09
567 123 0.09
568 1 0.00
569 4 0.00
570 153 0.11
571 14 0.01
572 4 0.00
573 169 0.12
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (575 bp):
GACTAACACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTA
ATGTTAATGGACTAGCAATATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAA
CAACAAAATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAA
TTTAAATTAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATT
ATTTAACACCTAATTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTAATTTTATTAA
ATAATTTTATATAATATTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGTAT
ATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
TACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCATAAAC
TTTAAACTTTAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATG
Found at i:834419 original size:15 final size:15
Alignment explanation
Indices: 834394--834430 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
834384 ATAAACCATG
834394 TATAGTATATATAAAC
1 TATA-TATATATAAAC
834410 TATATATATATAAAC
1 TATATATATATAAAC
834425 TATATA
1 TATATA
834431 AAATAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:834538 original size:549 final size:548
Alignment explanation
Indices: 833784--835676 Score: 3018
Period size: 549 Copynumber: 3.5 Consensus size: 548
833774 ATTAATTTTA
833784 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
1 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
833849 ATATATAAACTATATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
66 ATATATAAAC--TATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACAC
* *
833914 TATACATAAACTATATAAAGTAGTAAAATATATAGTTTATAGAAACCTTAAATCATAAACCATAA
129 TATACATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCATAAATCATAA
** * *
833979 ACTTTAAACTT-TAAACCACAAACACTAAATACTAAATCATAAACCCTAATATAAATGGACTAAC
194 ACCCTAAA-TTCTAAACCACAAAC-CTAAATACTAAACCATAAACCCTAATTTAAATGGACTAAC
*
834043 ACTAATACATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAA
257 ACTAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAA
* *
834108 TAGACTAGCACTATTTCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
322 TGGACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAA
834173 ATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAAT
387 ATAAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAAT
*
834238 TAATATGACATGTATTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
452 TAATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAAC
834303 ACCTAATTAATCATGTTTTATATAATTTACAT
517 ACCTAATTAATCATGTTTTATATAATTTACAT
834335 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
1 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
*
834400 ATATATAAACTATATATATATAAACTATATAAAATAAATTACTTATATAGTTTATAGAAACACTA
66 ATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
* * *
834465 TACATAAACTATATAAAGTAGTAAAATATATAGTTTATATAAACCTTAAATCATAAAGCATAAAC
131 TACATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCATAAATCATAAAC
* * *
834530 CCTAAACTT-TAAACCACAAACACTAAATACTAAATCATAAACCCTAATGTAAATGGACTAGCAC
196 CCTAAA-TTCTAAACCACAAAC-CTAAATACTAAACCATAAACCCTAATTTAAATGGACTAACAC
*
834594 TATTGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAATG
259 TAATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAATG
*
834659 GACTAGCACTATTGCAAATGGACTTATTTTTTGGTTTTATTATTACTTATTCATAACAACAAAAT
324 GACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAAT
834724 AAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTA
389 AAATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTA
834789 ATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACAC
454 ATATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACAC
834854 CTAATTAATCATGTTTTATATAATTTACAT
519 CTAATTAATCATGTTTTATATAATTTACAT
*
834884 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATTTATGTATAAACCATGTATAG-
1 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
834948 --------------TATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
66 ATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
* *
834999 TGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAA-CTCTAAATCTTAAATCATAAA
131 TACATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCT-TAAATCATAAATCATAAA
*** * *
835063 CCCT-AATTCTAAACTTTAAACC-----A-TAAACCCTAAACCCTAATTTAAATGGACTAGCACT
195 CCCTAAATTCTAAACCACAAACCTAAATACTAAACCATAAACCCTAATTTAAATGGACTAACACT
*
835121 AATGCATATATATTTGTAATAAAAGAGTGGGCTTGCATTGGGCCTATGTAAACTAATGTTAATGG
260 AATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAATGG
835186 ACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATA
325 ACTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATA
835251 AATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAA
390 AATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAA
835316 TATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACC
455 TATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACC
*
835381 TCATTAATCATGTTTTATATAATTTAC--
520 TAATTAATCATGTTTTATATAATTTACAT
835408 ----------------A---T-TTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
1 TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
835453 ATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
66 ATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
* * * * *
835518 TGCATAAACTATATAAAGTAATAAAATATATAGTTTATAGGAACCCTAAACCCTAAATCATAAA-
131 TACATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCATAAATCATAAAC
* *** * *
835582 CCTCAATTCTAAACTTTAAACCATAAACACTAAACCATAAATCCTAATTTAAATGGACTAACACT
196 CCTAAATTCTAAACCACAAACC-TAAATACTAAACCATAAACCCTAATTTAAATGGACTAACACT
835647 AATGCATATATATTTGTAATAAAAGAGTGG
260 AATGCATATATATTTGTAATAAAAGAGTGG
835677 ACTTATGTAT
Statistics
Matches: 1278, Mismatches: 38, Indels: 77
0.92 0.03 0.06
Matches are distributed among these distances:
504 41 0.03
505 1 0.00
508 1 0.00
518 3 0.00
519 127 0.10
520 1 0.00
525 1 0.00
526 377 0.29
527 1 0.00
532 3 0.00
533 13 0.01
534 110 0.09
549 524 0.41
551 75 0.06
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (548 bp):
TTAAATAATTTTATTAATTTTATTAAATAATTTTATATAATATGTATGTATAAACCATGTATAGT
ATATATAAACTATATATATATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTA
TACATAAACTATATAAAGTAATAAAATATATAGTTTATAGAAACCTTAAATCATAAATCATAAAC
CCTAAATTCTAAACCACAAACCTAAATACTAAACCATAAACCCTAATTTAAATGGACTAACACTA
ATGCATATATATTTGTAATAAAAGAGTGGGCTTGCACTGGGCCTATGTAAACTAATGTTAATGGA
CTAGCACTATTGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAA
ATGAGCCATTAATGTGAATTAACCTAACATGCAACTAAAATACAAATTATGCAATTTAAATTAAT
ATGACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCT
AATTAATCATGTTTTATATAATTTACAT
Found at i:834542 original size:21 final size:21
Alignment explanation
Indices: 834503--834576 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
834493 TATAGTTTAT
* *
834503 ATAAACCTTAAAT-CATAAAGC
1 ATAAACCCTAAATAC-TAAACC
*
834524 ATAAACCCTAAACT-TTAAACC
1 ATAAACCCTAAA-TACTAAACC
* * *
834545 ACAAACACTAAATACTAAATC
1 ATAAACCCTAAATACTAAACC
834566 ATAAACCCTAA
1 ATAAACCCTAA
834577 TGTAAATGGA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
20 1 0.02
21 40 0.95
22 1 0.02
ACGTcount: A:0.53, C:0.24, G:0.01, T:0.22
Consensus pattern (21 bp):
ATAAACCCTAAATACTAAACC
Found at i:834912 original size:22 final size:24
Alignment explanation
Indices: 834867--834930 Score: 80
Period size: 22 Copynumber: 2.7 Consensus size: 24
834857 ATTAATCATG
*
834867 TTTTATATAAT-TTACATTTAAATAA
1 TTTTATATAATATT-TA-TTAAATAA
834892 TTTTAT-TAAT-TTTATTAAATAA
1 TTTTATATAATATTTATTAAATAA
834914 TTTTATATAATATTTAT
1 TTTTATATAATATTTAT
834931 GTATAAACCA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
22 14 0.39
23 5 0.14
24 11 0.31
25 6 0.17
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTATATAATATTTATTAAATAA
Found at i:835077 original size:34 final size:33
Alignment explanation
Indices: 835039--835108 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 33
835029 TAGTTTATAG
* * *
835039 AAACTCTAAATCTTAAATCATAAACCCTAATTCT
1 AAACTCTAAACCATAAACCATAAACCCTAATT-T
* *
835073 AAACTTTAAACCATAAACCCTAAACCCTAATTT
1 AAACTCTAAACCATAAACCATAAACCCTAATTT
835106 AAA
1 AAA
835109 TGGACTAGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 4 0.13
34 27 0.87
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (33 bp):
AAACTCTAAACCATAAACCATAAACCCTAATTT
Found at i:835081 original size:27 final size:27
Alignment explanation
Indices: 835043--835095 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
835033 TTATAGAAAC
*
835043 TCTAAATCTTAAATCATAAACCCTAAT
1 TCTAAATCTTAAACCATAAACCCTAAT
835070 TCTAAA-CTTTAAACCATAAACCCTAA
1 TCTAAATC-TTAAACCATAAACCCTAA
835096 ACCCTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (27 bp):
TCTAAATCTTAAACCATAAACCCTAAT
Found at i:835472 original size:15 final size:15
Alignment explanation
Indices: 835447--835483 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
835437 ATAAACCATG
835447 TATAGTATATATAAAC
1 TATA-TATATATAAAC
835463 TATATATATATAAAC
1 TATATATATATAAAC
835478 TATATA
1 TATATA
835484 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:835812 original size:14 final size:14
Alignment explanation
Indices: 835793--835839 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
835783 ATTTTATCAT
835793 TATATAAATTAAAC
1 TATATAAATTAAAC
835807 TATAT-AATT----
1 TATATAAATTAAAC
835816 TATATAAATTAAAC
1 TATATAAATTAAAC
*
835830 TATATTAATT
1 TATATAAATT
835840 TTCCTTTGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:835819 original size:23 final size:24
Alignment explanation
Indices: 835792--835840 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
835782 TATTTTATCA
835792 TTATATAAATTAAACTATA-TAAT
1 TTATATAAATTAAACTATATTAAT
835815 TTATATAAATTAAACTATATTAAT
1 TTATATAAATTAAACTATATTAAT
835839 TT
1 TT
835841 TCCTTTGCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 19 0.76
24 6 0.24
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (24 bp):
TTATATAAATTAAACTATATTAAT
Found at i:836129 original size:16 final size:16
Alignment explanation
Indices: 836108--836178 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
836098 TGGATCATTT
836108 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
836124 ACAGGTCAGGTTTAAA
1 ACAGGTCAGGTTAAAA
836140 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
836156 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
836172 ACAGGTC
1 ACAGGTC
836179 GGGTAATACT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.20
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:843810 original size:17 final size:17
Alignment explanation
Indices: 843788--843830 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
843778 AATTAAGTGT
843788 TGAATGATTCAATGGCC
1 TGAATGATTCAATGGCC
843805 TGAATGATTCAATGGCC
1 TGAATGATTCAATGGCC
843822 TGAATGATT
1 TGAATGATT
843831 TAAAAACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (17 bp):
TGAATGATTCAATGGCC
Found at i:844153 original size:20 final size:20
Alignment explanation
Indices: 844128--844174 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
844118 AATCGTTCAG
844128 CATTCAGCGCTGAATGGTTC
1 CATTCAGCGCTGAATGGTTC
*
844148 CATTCAACGCTGAATGGTTC
1 CATTCAGCGCTGAATGGTTC
844168 CATTCAG
1 CATTCAG
844175 GAACCATTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.26, G:0.21, T:0.30
Consensus pattern (20 bp):
CATTCAGCGCTGAATGGTTC
Found at i:861545 original size:24 final size:24
Alignment explanation
Indices: 861513--861560 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
861503 ATTGGGAAGG
861513 ACCTTATGTCGTGAAAAAGGCTTT
1 ACCTTATGTCGTGAAAAAGGCTTT
861537 ACCTTATGTCGTGAAAAAGGCTTT
1 ACCTTATGTCGTGAAAAAGGCTTT
861561 CTCCGGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (24 bp):
ACCTTATGTCGTGAAAAAGGCTTT
Found at i:862698 original size:105 final size:105
Alignment explanation
Indices: 862516--863186 Score: 1162
Period size: 105 Copynumber: 6.4 Consensus size: 105
862506 AGGTTTTACC
* *
862516 CAGAGTCAATTTCAACTTCACAACGAAGGATGTTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
862581 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
* *
862621 CAGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCATACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
862686 ACGAAGGAACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
*
862726 CAGAGCCAATTTCAACTTCACGACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
862791 ACGAAGGGACCACTGGTTGTCAATAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
862831 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
862896 ACGAAGGGACCGCTGGTTGTCAACAAATATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
862936 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
863001 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
863041 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * * *
863106 ACGAATGGACCGCTGGTTGTCAACAAACAACTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAAATT
* * * *
863147 CAGAGCCAATTTTAACTTCACAGCGGATGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
863187 GGAACAGTAC
Statistics
Matches: 539, Mismatches: 26, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
105 493 0.91
106 46 0.09
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
Found at i:869371 original size:39 final size:39
Alignment explanation
Indices: 869325--869410 Score: 172
Period size: 39 Copynumber: 2.2 Consensus size: 39
869315 AATTGTGTTT
869325 GTTACTATTTTAGACTATTTATTGTAACAATAAAATTTC
1 GTTACTATTTTAGACTATTTATTGTAACAATAAAATTTC
869364 GTTACTATTTTAGACTATTTATTGTAACAATAAAATTTC
1 GTTACTATTTTAGACTATTTATTGTAACAATAAAATTTC
869403 GTTACTAT
1 GTTACTAT
869411 AATTAACTTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (39 bp):
GTTACTATTTTAGACTATTTATTGTAACAATAAAATTTC
Found at i:869823 original size:34 final size:32
Alignment explanation
Indices: 869785--869901 Score: 85
Period size: 32 Copynumber: 3.6 Consensus size: 32
869775 ACTAAATAAC
*
869785 TTTGTTATAATTTGTTATTGTAAAAAAAATATTA
1 TTTGTTATAATTTGTTATT-T-AAAAAAATAATA
* * *
869819 TTTGTCATAATTT-TTATATTTAAAAATTAATA
1 TTTGTTATAATTTGTTAT-TTAAAAAAATAATA
* * * **
869851 TTTGTTATAAATCGTTATTATGATTAAATAA-A
1 TTTGTTATAATTTGTTATT-TAAAAAAATAATA
* *
869883 TTTGTCATAATTTATTATT
1 TTTGTTATAATTTGTTATT
869902 CCAATAAACT
Statistics
Matches: 65, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
32 36 0.55
33 16 0.25
34 13 0.20
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.52
Consensus pattern (32 bp):
TTTGTTATAATTTGTTATTTAAAAAAATAATA
Found at i:869979 original size:23 final size:23
Alignment explanation
Indices: 869935--869979 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
869925 AAATTTGACA
** *
869935 TAATATTTTATTTTGACTAAATT
1 TAATATTTTATTACGACAAAATT
869958 TAATATTTTATTACGACAAAAT
1 TAATATTTTATTACGACAAAAT
869980 AAATTTGTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (23 bp):
TAATATTTTATTACGACAAAATT
Found at i:871955 original size:31 final size:31
Alignment explanation
Indices: 871883--871943 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
871873 GTTACATCGG
*
871883 GGACCATATTGCAAATAGACTAAATGTTGGA
1 GGACCATATTGAAAATAGACTAAATGTTGGA
871914 GGACCATATTGAAAATAGACTAAATGTTGG
1 GGACCATATTGAAAATAGACTAAATGTTGG
871944 GGGATTGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.23, T:0.26
Consensus pattern (31 bp):
GGACCATATTGAAAATAGACTAAATGTTGGA
Found at i:872874 original size:31 final size:31
Alignment explanation
Indices: 872839--872906 Score: 136
Period size: 31 Copynumber: 2.2 Consensus size: 31
872829 TTACAATACA
872839 GTCCCCCAACATTTAGTCCGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTGCAATATG
872870 GTCCCCCAACATTTAGTCCGTTTGCAATATG
1 GTCCCCCAACATTTAGTCCGTTTGCAATATG
872901 GTCCCC
1 GTCCCC
872907 GACGTAACTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.21, C:0.32, G:0.16, T:0.31
Consensus pattern (31 bp):
GTCCCCCAACATTTAGTCCGTTTGCAATATG
Done.