Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold150
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: 1465027
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.31
Warning! 98465 characters in sequence are not A, C, G, or T
File 5 of 9
Found at i:634208 original size:81 final size:81
Alignment explanation
Indices: 634065--634243 Score: 247
Period size: 81 Copynumber: 2.2 Consensus size: 81
634055 CCAAGATTTG
*
634065 GGCTTCTAAAAGTTCCAAGCATTATCCAATAGAGAAAAACTCCCAAAGTCAAGCTTTCAAAATTC
1 GGCTTCT-AAAGTTCCAAGCATTATCCAATACAGAAAAACTCCCAAAGTCAAGCTTTCAAAATTC
* *
634130 CAAGTTAAGTGCAACAA
65 CAAGATAAGCGCAACAA
* * *
634147 GGCTTCTGAAGTTCCAAGCATTCTCCAATACAG-AAGACTCCCCACAAGTCAAGCTTT-AAAATT
1 GGCTTCTAAAGTTCCAAGCATTATCCAATACAGAAAAACT-CCCA-AAGTCAAGCTTTCAAAATT
*
634210 CCAAGATAAGCGCAGCAA
64 CCAAGATAAGCGCAACAA
634228 GGCTTC-AAAGTTCCAA
1 GGCTTCTAAAGTTCCAA
634244 AAGAAGTCCA
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
80 14 0.16
81 54 0.62
82 19 0.22
ACGTcount: A:0.38, C:0.25, G:0.15, T:0.22
Consensus pattern (81 bp):
GGCTTCTAAAGTTCCAAGCATTATCCAATACAGAAAAACTCCCAAAGTCAAGCTTTCAAAATTCC
AAGATAAGCGCAACAA
Found at i:634264 original size:80 final size:81
Alignment explanation
Indices: 634065--634265 Score: 191
Period size: 81 Copynumber: 2.5 Consensus size: 81
634055 CCAAGATTTG
* *
634065 GGCTTCTAAAAGTTCCAAGCATTA-TCCAATAGAGA-AAAACT-CCCAAAGTCAAGCTTTCAAAA
1 GGCTTCT-AAAGTTCCAAGCA-TACTCCAACA-A-ACAAGACTCCCCAAAGTCAAGCTTTCAAAA
* *
634127 TTCCAAGTTAAGTGCAACAA
62 TTCCAAGATAAGCGCAACAA
* * * * *
634147 GGCTTCTGAAGTTCCAAGCATTCTCCAATACAGAAGACTCCCCACAAGTCAAGCTTT-AAAATTC
1 GGCTTCTAAAGTTCCAAGCATACTCCAACAAACAAGACTCCCCA-AAGTCAAGCTTTCAAAATTC
*
634211 CAAGATAAGCGCAGCAA
65 CAAGATAAGCGCAACAA
*
634228 GGCTTC-AAAGTTCCAAAAG-A-AGTCCAACAAACAAGACT
1 GGCTTCTAAAGTTCC--AAGCATACTCCAACAAACAAGACT
634266 TTAATAGAAT
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
79 1 0.01
80 26 0.26
81 51 0.51
82 22 0.22
ACGTcount: A:0.40, C:0.24, G:0.15, T:0.21
Consensus pattern (81 bp):
GGCTTCTAAAGTTCCAAGCATACTCCAACAAACAAGACTCCCCAAAGTCAAGCTTTCAAAATTCC
AAGATAAGCGCAACAA
Found at i:635047 original size:25 final size:24
Alignment explanation
Indices: 635019--635108 Score: 81
Period size: 25 Copynumber: 3.5 Consensus size: 24
635009 TATTTATTAA
*
635019 TTTACTTTTTAAATATAAATATAAT
1 TTTAATTTTT-AATATAAATATAAT
*
635044 TTTAATTATTATTTGATATAAATATAAT
1 TTT-A--ATT-TTTAATATAAATATAAT
*
635072 TTTAATTATTTAATATAAATATTTAT
1 TTTAATT-TTTAATATAAATA-TAAT
*
635098 TTTTATTTTTA
1 TTTAATTTTTA
635109 TTTTTTGATA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
25 23 0.42
26 10 0.18
27 1 0.02
28 18 0.33
29 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (24 bp):
TTTAATTTTTAATATAAATATAAT
Found at i:635064 original size:28 final size:28
Alignment explanation
Indices: 635031--635163 Score: 130
Period size: 30 Copynumber: 4.7 Consensus size: 28
635021 TACTTTTTAA
635031 ATATAAATATAATTTTAATTATTATTTG
1 ATATAAATATAATTTTAATTATTATTTG
*
635059 ATATAAATATAATTTT-A--ATTATTTA
1 ATATAAATATAATTTTAATTATTATTTG
* * * *
635084 ATATAAATATTTATTTTTATTTTTATTTT
1 ATATAAATA-TAATTTTAATTATTATTTG
*
635113 TTGATAAATATAATTTTTAATTATTATTTAAG
1 AT-ATAAATATAA-TTTTAATTATTATTT--G
*
635145 ATA-AAATATATTTTTAATT
1 ATATAAATATAATTTTAATT
635164 TATATTTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
25 16 0.19
26 6 0.07
27 2 0.02
28 16 0.19
29 17 0.20
30 27 0.31
31 1 0.01
32 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATATAAATATAATTTTAATTATTATTTG
Found at i:635110 original size:29 final size:28
Alignment explanation
Indices: 635030--635160 Score: 117
Period size: 29 Copynumber: 4.7 Consensus size: 28
635020 TTACTTTTTA
* *
635030 AATATAAATATAATTTTAATTATTATTT
1 AATATAAATATTATTTTTATTATTATTT
* *
635058 GATATAAATA-TAATTTTA--ATTATTT
1 AATATAAATATTATTTTTATTATTATTT
*
635083 AATATAAATATTTATTTTTATTTTTATTT
1 AATATAAATA-TTATTTTTATTATTATTT
** *
635112 TTTGATAAATATAATTTTTAATTATTATTT
1 AAT-ATAAATATTATTTTT-ATTATTATTT
*
635142 AAGATAAA-ATATATTTTTA
1 AATATAAATAT-TATTTTTA
635161 ATTTATATTT
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
25 16 0.20
27 12 0.15
28 12 0.15
29 25 0.31
30 16 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
AATATAAATATTATTTTTATTATTATTT
Found at i:635126 original size:55 final size:54
Alignment explanation
Indices: 635030--635137 Score: 146
Period size: 54 Copynumber: 2.0 Consensus size: 54
635020 TTACTTTTTA
635030 AATATAAATATAATTTTAATTATTATTTGATATAAATATAA-TTTTAATTATTT
1 AATATAAATATAATTTTAATTATTATTTGATATAAATATAATTTTTAATTATTT
* * * **
635083 AATATAAATATTTATTTTTATTTTTATTTTTTGATAAATATAATTTTTAATTATT
1 AATATAAATA-TAATTTTAATTATTATTTGAT-ATAAATATAATTTTTAATTATT
635138 ATTTAAGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
53 10 0.21
54 16 0.34
55 10 0.21
56 11 0.23
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (54 bp):
AATATAAATATAATTTTAATTATTATTTGATATAAATATAATTTTTAATTATTT
Found at i:635170 original size:29 final size:29
Alignment explanation
Indices: 635007--635163 Score: 116
Period size: 29 Copynumber: 5.4 Consensus size: 29
634997 TAAATTCTTT
635007 TATATTTATTAATTTACTT-TTTAA-ATATAAA
1 TATATTT-TTAA-TTA-TTATTTAAGATA-AAA
*
635038 TATAATTTTAATTATTATTT--GATATAAA
1 TATATTTTTAATTATTATTTAAGATA-AAA
* *
635066 TATAATTTT-A--ATTATTTAATATAAATA
1 TATATTTTTAATTATTATTTAAGATAAA-A
* * **
635093 TTTATTTTT-ATTTTTATTTTTTGAT-AAA
1 TATATTTTTAATTATTA-TTTAAGATAAAA
635121 TATAATTTTTAATTATTATTTAAGATAAAA
1 TAT-ATTTTTAATTATTATTTAAGATAAAA
635151 TATATTTTTAATT
1 TATATTTTTAATT
635164 TATATTTTAT
Statistics
Matches: 103, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
25 7 0.07
26 2 0.02
27 13 0.13
28 21 0.20
29 33 0.32
30 21 0.20
31 6 0.06
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TATATTTTTAATTATTATTTAAGATAAAA
Found at i:635182 original size:30 final size:28
Alignment explanation
Indices: 635007--635182 Score: 114
Period size: 30 Copynumber: 6.1 Consensus size: 28
634997 TAAATTCTTT
635007 TATATTTATTAATT-TACTTTTTAAATATAAA
1 TATATTT-TTAATTATA--TTTT-AATATAAA
* *
635038 TATAATTTTAATTAT-TATTTGATATAAA
1 TATATTTTTAATTATAT-TTTAATATAAA
*
635066 TATAATTTTAA-T-TA-TTTAATATAAA
1 TATATTTTTAATTATATTTTAATATAAA
* * *
635091 TATTTATTTTTATTTTTATTTT-TTGATAAA
1 TA--TATTTTTAATTATATTTTAAT-ATAAA
*
635121 TATAATTTTTAATTAT-TATTTAAGATAAAA
1 TAT-ATTTTTAATTATAT-TTTAATAT-AAA
*
635151 TATATTTTTAATTTATATTTTATTATGAAA
1 TATATTTTTAA-TTATATTTTAATAT-AAA
635181 TA
1 TA
635183 ATTGTAATAA
Statistics
Matches: 117, Mismatches: 13, Indels: 31
0.73 0.08 0.19
Matches are distributed among these distances:
25 12 0.10
26 1 0.01
27 8 0.07
28 22 0.19
29 29 0.25
30 37 0.32
31 8 0.07
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (28 bp):
TATATTTTTAATTATATTTTAATATAAA
Found at i:635248 original size:29 final size:29
Alignment explanation
Indices: 635213--635380 Score: 83
Period size: 29 Copynumber: 5.4 Consensus size: 29
635203 ATGAACCATA
635213 AATATAATTTTATTTAT-ATTTTATTACTT
1 AATATAATTTTATTTATAATTTTATTA-TT
*
635242 AATATAATTATAATTTTAATAATTGTT-TTGATAT
1 AATATAATT-TTA-TTT-ATAATT-TTATT-AT-T
* * * ** *
635276 GAATATAACTTTTAATTATCA-TTCACCATA
1 -AATATAA-TTTTATTTATAATTTTATTATT
635306 AATATAATTTTATTTAT-ATTTTATTATTT
1 AATATAATTTTATTTATAATTTTATTA-TT
* * *
635335 AATATAATTATAATTTTAATAATTTTTAATATA
1 AATATAATT-TTA-TTT-ATAA-TTTTATTATT
*
635368 AATATGATTTTAT
1 AATATAATTTTAT
635381 ATTTAATGGA
Statistics
Matches: 104, Mismatches: 18, Indels: 32
0.68 0.12 0.21
Matches are distributed among these distances:
27 1 0.01
28 13 0.12
29 26 0.25
30 4 0.04
31 10 0.10
32 7 0.07
33 19 0.18
34 13 0.12
35 9 0.09
36 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (29 bp):
AATATAATTTTATTTATAATTTTATTATT
Found at i:635281 original size:35 final size:34
Alignment explanation
Indices: 635180--635292 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 34
635170 TTATTATGAA
* * *
635180 ATAATTGTAATAATTGTTTTAATATGAACCATAAAT
1 ATAATTTTAATAATTGTTTT-ATATGAA-TATAATT
* * * *
635216 ATAATTTTATTTA-TATTTTATTACTTAATATAATT
1 ATAATTTTAATAATTGTTTTA-TA-TGAATATAATT
635251 ATAATTTTAATAATTGTTTTGATATGAATATAACTT
1 ATAATTTTAATAATTGTTTT-ATATGAATATAA-TT
*
635287 TTAATT
1 ATAATT
635293 ATCATTCACC
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
34 1 0.02
35 31 0.52
36 27 0.45
37 1 0.02
ACGTcount: A:0.40, C:0.04, G:0.05, T:0.51
Consensus pattern (34 bp):
ATAATTTTAATAATTGTTTTATATGAATATAATT
Found at i:636299 original size:25 final size:28
Alignment explanation
Indices: 636229--636299 Score: 69
Period size: 28 Copynumber: 2.6 Consensus size: 28
636219 CATGGGTTAG
*
636229 TTTTATTTATT-TAATTATGTAGTATGTA
1 TTTTATTT-TTATAATTATGTAGTATGAA
* **
636257 TTTTAATTTTATGCTTATGT-GTAT-AA
1 TTTTATTTTTATAATTATGTAGTATGAA
636283 TTTTATTTTTAT-ATTAT
1 TTTTATTTTTATAATTAT
636300 TAATTTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
25 4 0.11
26 12 0.33
27 6 0.17
28 14 0.39
ACGTcount: A:0.27, C:0.01, G:0.08, T:0.63
Consensus pattern (28 bp):
TTTTATTTTTATAATTATGTAGTATGAA
Found at i:637106 original size:5 final size:5
Alignment explanation
Indices: 637096--637125 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
637086 CTTGTACGTA
637096 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
637126 GGGCTGGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:641987 original size:2 final size:2
Alignment explanation
Indices: 641980--642014 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
641970 ATGTTTTTGT
641980 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
642015 TATTTCTTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:648117 original size:97 final size:97
Alignment explanation
Indices: 647973--648182 Score: 332
Period size: 97 Copynumber: 2.2 Consensus size: 97
647963 ATTGAAAAAC
* ** *
647973 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
1 GGGTTGGAGTATCCCCTCGAAAAAATGGGATTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
648038 ATAAAATTTAAACTTTGATGCGTTTAAAAGTA
66 ATAAAATTTAAACTTTGATGCGTTTAAAAGTA
648070 GGGTTGGAGTATCCCCTCGAAAAAATGGGATT-GAGTGTCCCCTGATGATGACAATTTAAGTGAG
1 GGGTTGGAGTATCCCCTCGAAAAAATGGGATTGGAGTGTCCCC-GATGATGACAATTTAAGTGAG
* * *
648134 AATAAGATTTAAACTTTGATGTGTTTAAAAGTG
65 AATAAAATTTAAACTTTGATGCGTTTAAAAGTA
*
648167 GGGTTAGAGTATCCCC
1 GGGTTGGAGTATCCCC
648183 GATAAATAAA
Statistics
Matches: 104, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 10 0.10
97 94 0.90
ACGTcount: A:0.30, C:0.13, G:0.28, T:0.30
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCTCGAAAAAATGGGATTGGAGTGTCCCCGATGATGACAATTTAAGTGAGA
ATAAAATTTAAACTTTGATGCGTTTAAAAGTA
Found at i:648958 original size:86 final size:84
Alignment explanation
Indices: 648801--649220 Score: 412
Period size: 86 Copynumber: 4.9 Consensus size: 84
648791 TCTAGAGGTA
* * * * *
648801 CCACTAACTTATGGGCTTTAAAAAGGTGCCATTGACTTGTGGGCTTTAAAAGGGTGCCACTGACT
1 CCACTAACTTGTGGGCTTTTAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
* * *
648866 TATGGGCTTTGGAAGGGTG
66 TGTGGGCTTTGAAAGGATG
** *
648885 CCACTGATTTGTGTGGGCTTTTAAAAGGTGCCACTGATTTGTGGGCTTTGAAAGGGTGCCACTAA
1 CCACT-AACT-TGTGGGCTTTTAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAA
* *
648950 CTTGTGGGCTTTAAAAGGGTG
64 CTTGTGGGCTTTGAAAGGATG
* ** * * *
648971 CCACTAATTTGTAAGC-TTTGAAAGGATACCACTGACTTGTGTGGGCTTTTAAAGGGTGCCACTG
1 CCACTAACTTGTGGGCTTTTAAAAGG-TGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACT-
** *
649035 ATTTGTGTGGGCTTTTAAAGGATG
62 AACT-TGTGGGCTTTGAAAGGATG
* * * * *
649059 TCACTAACTTGTGGGC-TTTGAAAGGATGCCATTAACTTGTGGGCTTTGAAAGGGTGCCACTGAC
1 CCACTAACTTGTGGGCTTTTAAAAGG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAAC
**
649123 TTGTGGGCTTTGAAAAAATG
65 TTGTGGGCTTTGAAAGGATG
* * * * * * * *
649143 CCACTGACTTGTGAGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCAATGACC
1 CCACTAACTTGTGGGCTTTTAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
*
649208 TATGGGCTTTGAA
66 TGTGGGCTTTGAA
649221 GAGATAAACA
Statistics
Matches: 280, Mismatches: 48, Indels: 16
0.81 0.14 0.05
Matches are distributed among these distances:
83 8 0.03
84 93 0.33
85 13 0.05
86 117 0.42
87 3 0.01
88 46 0.16
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (84 bp):
CCACTAACTTGTGGGCTTTTAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACT
TGTGGGCTTTGAAAGGATG
Found at i:649218 original size:28 final size:28
Alignment explanation
Indices: 648801--649220 Score: 421
Period size: 28 Copynumber: 14.8 Consensus size: 28
648791 TCTAGAGGTA
* * *
648801 CCACTAACTTATGGGCTTTAAAAAGG-TG
1 CCACTGACTTGTGGGCTTT-GAAAGGATG
* * *
648829 CCATTGACTTGTGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
648857 CCACTGACTTATGGGCTTTGGAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
648885 CCACTGATTTGTGTGGGCTTTTAAAAGG-TG
1 CCACTGA-CT-TGTGGGC-TTTGAAAGGATG
* *
648915 CCACTGATTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
648943 CCACTAACTTGTGGGCTTTAAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * ** *
648971 CCACTAATTTGTAAGCTTTGAAAGGATA
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
648999 CCACTGACTTGTGTGGGCTTTTAAAGGGTG
1 CCACTGAC-T-TGTGGGCTTTGAAAGGATG
* *
649029 CCACTGATTTGTGTGGGCTTTTAAAGGATG
1 CCACTGA-CT-TGTGGGCTTTGAAAGGATG
* *
649059 TCACTAACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
649087 CCATTAACTTGTGGGCTTTGAAAGGGTG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
**
649115 CCACTGACTTGTGGGCTTTGAAAAAATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* *
649143 CCACTGACTTGTGAGCTTTGAAAAGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
649171 CCACTGACTTGTGGGCTTTGAAAGGATG
1 CCACTGACTTGTGGGCTTTGAAAGGATG
* * *
649199 CCAATGACCTATGGGCTTTGAA
1 CCACTGACTTGTGGGCTTTGAA
649221 GAGATAAACA
Statistics
Matches: 335, Mismatches: 49, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
27 14 0.04
28 248 0.74
29 5 0.01
30 61 0.18
31 7 0.02
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (28 bp):
CCACTGACTTGTGGGCTTTGAAAGGATG
Found at i:650492 original size:7 final size:7
Alignment explanation
Indices: 650469--650556 Score: 90
Period size: 7 Copynumber: 11.9 Consensus size: 7
650459 TCTAGACCCC
650469 TTTTTTG
1 TTTTTTG
650476 TTTATTTG
1 TTT-TTTG
650484 TTTTTTG
1 TTTTTTG
650491 TTTTTTTG
1 -TTTTTTG
650499 TTTTTTG
1 TTTTTTG
650506 TTTTTTG
1 TTTTTTG
*
650513 CTTTTTGG
1 -TTTTTTG
650521 TTTTTT-
1 TTTTTTG
650527 TTTGTTT-
1 TTT-TTTG
650534 TTTTCTTGGG
1 TTTT-TT--G
650544 TTTTTTG
1 TTTTTTG
650551 TTTTTT
1 TTTTTT
650557 TATTTTTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
6 4 0.06
7 41 0.58
8 20 0.28
9 2 0.03
10 4 0.06
ACGTcount: A:0.01, C:0.02, G:0.15, T:0.82
Consensus pattern (7 bp):
TTTTTTG
Found at i:650557 original size:8 final size:8
Alignment explanation
Indices: 650469--650565 Score: 87
Period size: 8 Copynumber: 12.8 Consensus size: 8
650459 TCTAGACCCC
650469 TTTTTTGT
1 TTTTTTGT
*
650477 TTATTTG-
1 TTTTTTGT
650484 TTTTTTGT
1 TTTTTTGT
650492 TTTTTTG-
1 TTTTTTGT
650499 TTTTTTG-
1 TTTTTTGT
*
650506 TTTTTTGC
1 TTTTTTGT
*
650514 TTTTTGGT
1 TTTTTTGT
650522 TTTTTT-T
1 TTTTTTGT
*
650529 TGTTTT-T
1 TTTTTTGT
* * *
650536 TTCTTGGG
1 TTTTTTGT
650544 TTTTTTGT
1 TTTTTTGT
*
650552 TTTTTTAT
1 TTTTTTGT
650560 TTTTTT
1 TTTTTT
650566 TGTACGAAAG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
7 30 0.42
8 42 0.58
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.82
Consensus pattern (8 bp):
TTTTTTGT
Found at i:650562 original size:15 final size:15
Alignment explanation
Indices: 650469--650564 Score: 99
Period size: 15 Copynumber: 6.4 Consensus size: 15
650459 TCTAGACCCC
*
650469 TTTTTTGTTTATTTG
1 TTTTTTGTTTTTTTG
650484 TTTTTTGTTTTTTTG
1 TTTTTTGTTTTTTTG
650499 TTTTTTG-TTTTTTG
1 TTTTTTGTTTTTTTG
*
650513 CTTTTTGGTTTTTTT-
1 -TTTTTTGTTTTTTTG
**
650528 TTGTTTT-TTTCTTGGG
1 TT-TTTTGTTT-TTTTG
*
650544 TTTTTTGTTTTTTTA
1 TTTTTTGTTTTTTTG
650559 TTTTTT
1 TTTTTT
650565 TTGTACGAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
14 12 0.18
15 44 0.66
16 11 0.16
ACGTcount: A:0.02, C:0.02, G:0.14, T:0.82
Consensus pattern (15 bp):
TTTTTTGTTTTTTTG
Found at i:661934 original size:10 final size:11
Alignment explanation
Indices: 661912--661940 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
661902 GAAGTTTTTA
661912 TGAAAAATGTT
1 TGAAAAATGTT
661923 TGAAAAAT-TT
1 TGAAAAATGTT
661933 TGAAAAAT
1 TGAAAAAT
661941 CATCTGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:661972 original size:131 final size:130
Alignment explanation
Indices: 661833--662088 Score: 494
Period size: 131 Copynumber: 2.0 Consensus size: 130
661823 ACAAAATTTG
661833 AAAAATCATCTCGAATTCATTTAGTATCAAAAAAATACAAAATATACATTTCTAGAAAGATAATT
1 AAAAATCATCTCGAATTCATTTAGTATCAAAAAAATACAAAATATACATTTCTAGAAAGATAATT
661898 TCATGAAGTTTTTATGAAAAATGTTTGAAAAATTTTGAAAAATCATCTGGTGGGCCAAAATATAT
66 TCATGAAGTTTTTATGAAAAATGTTTGAAAAATTTTGAAAAATCATCTGGTGGGCCAAAATATAT
*
661963 AAAATATCATCTCGAATTCATTTAGTATCAAAAAAATACAAAATATACATTTCTAGAAAGGTAAT
1 AAAA-ATCATCTCGAATTCATTTAGTATCAAAAAAATACAAAATATACATTTCTAGAAAGATAAT
662028 TTCATGAAGTTTTTATGAAAAATGTTTGAAAAATTTTGAAAAATCATCTGGTGGGCCAAAA
65 TTCATGAAGTTTTTATGAAAAATGTTTGAAAAATTTTGAAAAATCATCTGGTGGGCCAAAA
662089 CGGCCCGACC
Statistics
Matches: 124, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
130 4 0.03
131 120 0.97
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (130 bp):
AAAAATCATCTCGAATTCATTTAGTATCAAAAAAATACAAAATATACATTTCTAGAAAGATAATT
TCATGAAGTTTTTATGAAAAATGTTTGAAAAATTTTGAAAAATCATCTGGTGGGCCAAAATATAT
Found at i:662065 original size:10 final size:11
Alignment explanation
Indices: 662043--662071 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
662033 GAAGTTTTTA
662043 TGAAAAATGTT
1 TGAAAAATGTT
662054 TGAAAAAT-TT
1 TGAAAAATGTT
662064 TGAAAAAT
1 TGAAAAAT
662072 CATCTGGTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:663777 original size:20 final size:19
Alignment explanation
Indices: 663752--663826 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 19
663742 AAAAAGATAG
*
663752 AATGTATCGATACATTGAAA
1 AATGTATCAATACATT-AAA
* **
663772 AATGTATCGATACATTCATG
1 AATGTATCAATACATT-AAA
*
663792 CATGTATCAATACATTAAA
1 AATGTATCAATACATTAAA
663811 GAATGTATCAATACAT
1 -AATGTATCAATACAT
663827 CTGGGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
19 1 0.02
20 45 0.98
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (19 bp):
AATGTATCAATACATTAAA
Found at i:663816 original size:40 final size:38
Alignment explanation
Indices: 663753--663894 Score: 118
Period size: 40 Copynumber: 3.8 Consensus size: 38
663743 AAAAGATAGA
*
663753 ATGTATCGATACATTGAAAAATGTATCGATACATTCATG
1 ATGTATCAATACATT-AAAAATGTATCGATACATTCATG
*
663792 CATGTATCAATACATTAAAGAATGTATCAATACA-TC-TG
1 -ATGTATCAATACATTAAA-AATGTATCGATACATTCATG
* * * *
663830 -GGTA--AAAACA--CAAAATGTATCGATACATTCATAT
1 ATGTATCAATACATTAAAAATGTATCGATACATTCAT-G
* *
663864 ATGTATCGATAAATTAAAAAATGTATCGATA
1 ATGTATCAATACATT-AAAAATGTATCGATA
663895 TATCTGGTTA
Statistics
Matches: 80, Mismatches: 12, Indels: 20
0.71 0.11 0.18
Matches are distributed among these distances:
31 13 0.16
32 4 0.05
33 1 0.01
34 5 0.06
35 3 0.04
36 3 0.04
37 3 0.04
38 2 0.03
39 5 0.06
40 41 0.51
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (38 bp):
ATGTATCAATACATTAAAAATGTATCGATACATTCATG
Found at i:663845 original size:71 final size:71
Alignment explanation
Indices: 663770--663908 Score: 206
Period size: 71 Copynumber: 2.0 Consensus size: 71
663760 GATACATTGA
* * *
663770 AAAATGTATCGATACATTCATGCATGTATCAATACATTAAAGAATGTATCAATACATCTGGGTAA
1 AAAATGTATCGATACATTCATACATGTATCAATAAATTAAAAAATGTATCAATACATCTGGGTAA
663835 AAACAC
66 AAACAC
* * * * *
663841 AAAATGTATCGATACATTCATATATGTATCGATAAATTAAAAAATGTATCGATATATCTGGTTAA
1 AAAATGTATCGATACATTCATACATGTATCAATAAATTAAAAAATGTATCAATACATCTGGGTAA
663906 AAA
66 AAA
663909 TGTGACTTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.31
Consensus pattern (71 bp):
AAAATGTATCGATACATTCATACATGTATCAATAAATTAAAAAATGTATCAATACATCTGGGTAA
AAACAC
Found at i:663869 original size:20 final size:20
Alignment explanation
Indices: 663841--663894 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
663831 GTAAAAACAC
* *
663841 AAAATGTATCGATACATTCA
1 AAAATGTATCGATAAATTAA
* *
663861 TATATGTATCGATAAATTAA
1 AAAATGTATCGATAAATTAA
663881 AAAATGTATCGATA
1 AAAATGTATCGATA
663895 TATCTGGTTA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.33
Consensus pattern (20 bp):
AAAATGTATCGATAAATTAA
Found at i:668306 original size:2 final size:2
Alignment explanation
Indices: 668262--668296 Score: 52
Period size: 2 Copynumber: 17.0 Consensus size: 2
668252 GAAATATGAA
*
668262 AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
668297 TGGATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 28 0.93
3 2 0.07
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:670439 original size:2 final size:2
Alignment explanation
Indices: 670434--670477 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
670424 GGGGTGTGTG
*
670434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
670476 TA
1 TA
670478 CACTTATTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:671636 original size:14 final size:15
Alignment explanation
Indices: 671612--671646 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
671602 AACCGAACAA
671612 ATAAC-ATTACTTAT
1 ATAACAATTACTTAT
671626 A-AACAATTACTTAT
1 ATAACAATTACTTAT
671640 ATAACAA
1 ATAACAA
671647 GCTCTGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 3 0.16
14 11 0.58
15 5 0.26
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAACAATTACTTAT
Found at i:672433 original size:14 final size:13
Alignment explanation
Indices: 672401--672430 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
672391 GACACATATC
672401 TTTTATAAATTTT
1 TTTTATAAATTTT
*
672414 ATTTATAAATTTT
1 TTTTATAAATTTT
672427 TTTT
1 TTTT
672431 TATTGTTGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTATAAATTTT
Found at i:672966 original size:18 final size:19
Alignment explanation
Indices: 672943--672979 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
672933 CTTTTTCAAT
*
672943 AAGAAAATAAA-GAAAAAG
1 AAGAAAAAAAAGGAAAAAG
672961 AAGAAAAAAAAGGAAAAAG
1 AAGAAAAAAAAGGAAAAAG
672980 GAAAGCGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (19 bp):
AAGAAAAAAAAGGAAAAAG
Found at i:673644 original size:14 final size:14
Alignment explanation
Indices: 673606--673647 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
673596 CGTCGACAGA
*
673606 TTCTTCTTTATCTT
1 TTCTTCTTTTTCTT
*
673620 TTCTTCCTTTTCTT
1 TTCTTCTTTTTCTT
673634 TTCTT-TTTTT-TT
1 TTCTTCTTTTTCTT
673646 TT
1 TT
673648 TTTTTTCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 4 0.16
13 4 0.16
14 17 0.68
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (14 bp):
TTCTTCTTTTTCTT
Found at i:673805 original size:2 final size:2
Alignment explanation
Indices: 673798--673828 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
673788 TAGTGAATAC
673798 AT 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 AT A
673829 AATTGACACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:674458 original size:2 final size:2
Alignment explanation
Indices: 674453--674485 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
674443 CACACACATC
674453 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
674486 GGGAGAGCGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:680142 original size:14 final size:13
Alignment explanation
Indices: 680123--680168 Score: 56
Period size: 14 Copynumber: 3.4 Consensus size: 13
680113 TATATTTAGG
680123 ATTAAAATTAAAAT
1 ATTAAAA-TAAAAT
*
680137 ATTAAAATAAATT
1 ATTAAAATAAAAT
*
680150 ATATAAAATATAAT
1 AT-TAAAATAAAAT
680164 ATTAA
1 ATTAA
680169 TTAAGATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
ATTAAAATAAAAT
Found at i:680165 original size:12 final size:11
Alignment explanation
Indices: 680150--680248 Score: 58
Period size: 12 Copynumber: 8.6 Consensus size: 11
680140 AAAATAAATT
680150 ATATAAAATATA
1 ATATAAAATA-A
* *
680162 ATATTAATTAA
1 ATATAAAATAA
* *
680173 GATATGATATAAA
1 -ATATAAAAT-AA
* *
680186 AAATAACATAA
1 ATATAAAATAA
*
680197 ATATATAATAA
1 ATATAAAATAA
*
680208 ATATATAAATAT
1 ATATA-AAATAA
680220 ATA-AAAATATA
1 ATATAAAATA-A
680231 A-ATAAAATAA
1 ATATAAAATAA
680241 ATTATAAA
1 A-TATAAA
680249 TTTATAAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
10 8 0.12
11 24 0.36
12 32 0.48
13 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.02, T:0.32
Consensus pattern (11 bp):
ATATAAAATAA
Found at i:680204 original size:20 final size:19
Alignment explanation
Indices: 680179--680236 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 19
680169 TTAAGATATG
680179 ATATAAAAAATAACATAAAT
1 ATATAAAAAATAA-ATAAAT
* *
680199 ATATAATAAATATATAAAT
1 ATATAAAAAATAAATAAAT
680218 ATATAAAAATATAAATAAA
1 ATATAAAAA-ATAAATAAA
680237 ATAAATTATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 14 0.42
20 19 0.58
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
ATATAAAAAATAAATAAAT
Found at i:680211 original size:29 final size:27
Alignment explanation
Indices: 680179--680241 Score: 67
Period size: 29 Copynumber: 2.3 Consensus size: 27
680169 TTAAGATATG
680179 ATATAAAAAATA-ACATAAATATATAATAA
1 ATATAAAAAATATA-A-AAATATA-AATAA
*
680208 ATATATAAATATATAAAAATATAAATAA
1 ATATA-AAAAATATAAAAATATAAATAA
680236 A-ATAAA
1 ATATAAA
680242 TTATAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
26 2 0.06
27 3 0.10
28 6 0.19
29 12 0.39
30 7 0.23
31 1 0.03
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (27 bp):
ATATAAAAAATATAAAAATATAAATAA
Found at i:680215 original size:8 final size:8
Alignment explanation
Indices: 680199--680256 Score: 64
Period size: 8 Copynumber: 7.1 Consensus size: 8
680189 TAACATAAAT
680199 ATATAATAA
1 ATAT-ATAA
680208 ATATATAA
1 ATATATAA
680216 ATATATAA
1 ATATATAA
*
680224 AAATATAA
1 ATATATAA
*
680232 ATAAAATAA
1 AT-ATATAA
680241 AT-TATAA
1 ATATATAA
*
680248 ATTTATAA
1 ATATATAA
680256 A
1 A
680257 AAATTATATA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
7 6 0.14
8 26 0.60
9 11 0.26
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (8 bp):
ATATATAA
Found at i:680239 original size:40 final size:39
Alignment explanation
Indices: 680179--680256 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
680169 TTAAGATATG
*
680179 ATATAAAAAATAACATAAATATATAATAAATATATAAAT
1 ATATAAAAAATAACATAAATAAATAATAAATATATAAAT
* *
680218 ATATAAAAATATAA-ATAAAATAAATTATAAATTTATAAA
1 ATATAAAAA-ATAACAT-AAATAAATAATAAATATATAAA
680257 AAATTATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 11 0.32
40 23 0.68
ACGTcount: A:0.67, C:0.01, G:0.00, T:0.32
Consensus pattern (39 bp):
ATATAAAAAATAACATAAATAAATAATAAATATATAAAT
Found at i:680268 original size:32 final size:33
Alignment explanation
Indices: 680197--680276 Score: 96
Period size: 32 Copynumber: 2.5 Consensus size: 33
680187 AATAACATAA
*
680197 ATATATAATAAATATATAAATATATAAAAATAT
1 ATATAAAATAAATATATAAATATATAAAAATAT
* *
680230 AAATAAAATAAAT-TATAAATTTATAAAAA-AT
1 ATATAAAATAAATATATAAATATATAAAAATAT
680261 -TATATAAATAAA-ATAT
1 ATATA-AAATAAATATAT
680277 TATTAGAGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 3 0.07
31 12 0.29
32 15 0.37
33 11 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (33 bp):
ATATAAAATAAATATATAAATATATAAAAATAT
Found at i:680273 original size:16 final size:16
Alignment explanation
Indices: 680181--680279 Score: 51
Period size: 16 Copynumber: 5.8 Consensus size: 16
680171 AAGATATGAT
* *
680181 ATAAAAAATAACATAA
1 ATAAAAAATTATATAA
*
680197 ATATATAATAAATATATAA
1 ATA-A-AA-AATTATATAA
680216 ATATATAAAA--ATATAA
1 ATA-A-AAAATTATATAA
680232 ATAAAATAAATTATA-AA
1 AT-AAA-AAATTATATAA
680249 TTTATAAAAAATTATATAA
1 ---ATAAAAAATTATATAA
*
680268 ATAAAATATTAT
1 ATAAAAAATTAT
680280 TAGAGACGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 22
0.72 0.04 0.23
Matches are distributed among these distances:
15 1 0.01
16 26 0.38
17 4 0.06
18 15 0.22
19 20 0.29
20 2 0.03
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAAATTATATAA
Found at i:681001 original size:22 final size:23
Alignment explanation
Indices: 680976--681020 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
680966 AATATTTAAT
680976 TTTTAA-ATTAAAAATATA-ATTA
1 TTTTAATA-TAAAAATATACATTA
*
680998 TTTTAATATATAAATATACATTA
1 TTTTAATATAAAAATATACATTA
681021 AATATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
TTTTAATATAAAAATATACATTA
Found at i:681288 original size:11 final size:11
Alignment explanation
Indices: 681272--681350 Score: 71
Period size: 11 Copynumber: 7.5 Consensus size: 11
681262 GTAAACTTAA
681272 ATTATATTTAT
1 ATTATATTTAT
681283 ATTATA--T-T
1 ATTATATTTAT
681291 -TTAT-TTTA-
1 ATTATATTTAT
*
681299 ATTATTTTTAT
1 ATTATATTTAT
681310 ATTATATTTAT
1 ATTATATTTAT
681321 ATTATATAATTAT
1 ATTATAT--TTAT
*
681334 ATTTTATTTAAT
1 ATTATATTT-AT
681346 ATTAT
1 ATTAT
681351 TAATTTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
7 4 0.07
8 2 0.04
9 5 0.09
10 4 0.07
11 25 0.45
12 6 0.11
13 10 0.18
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTATATTTAT
Found at i:681289 original size:5 final size:5
Alignment explanation
Indices: 681272--681341 Score: 54
Period size: 5 Copynumber: 13.6 Consensus size: 5
681262 GTAAACTTAA
* * *
681272 ATTAT ATTTAT ATTAT ATTTT ATTTT AATTATT TTTAT ATTAT ATTTAT
1 ATTAT A-TTAT ATTAT ATTAT ATTAT -ATTA-T ATTAT ATTAT A-TTAT
*
681321 ATTAT A-TA- ATTAT ATTTT ATT
1 ATTAT ATTAT ATTAT ATTAT ATT
681342 TAATATTATT
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 1 0.02
4 4 0.07
5 32 0.59
6 16 0.30
7 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
ATTAT
Found at i:681303 original size:27 final size:30
Alignment explanation
Indices: 681271--681341 Score: 105
Period size: 27 Copynumber: 2.5 Consensus size: 30
681261 AGTAAACTTA
681271 AATTATATTTATATTATATTT-TATT-T-T
1 AATTATATTTATATTATATTTATATTATAT
*
681298 AATTATTTTTATATTATATTTATATTATAT
1 AATTATATTTATATTATATTTATATTATAT
681328 AATTATATTT-TATT
1 AATTATATTTATATT
681342 TAATATTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
27 20 0.51
28 4 0.10
29 5 0.13
30 10 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
AATTATATTTATATTATATTTATATTATAT
Found at i:681377 original size:19 final size:19
Alignment explanation
Indices: 681271--681370 Score: 64
Period size: 19 Copynumber: 5.0 Consensus size: 19
681261 AGTAAACTTA
*
681271 AATTATATTT-ATATTA-T
1 AATTTTATTTAATATTATT
*
681288 -ATTTTATTTTAATTATTTTT
1 AATTTTA-TTTAA-TATTATT
*
681308 ATATTATATTTATATTATATAATT
1 A-ATTTTATTTA-A-TAT-T-ATT
681332 ATATTTTATTTAATATTATT
1 A-ATTTTATTTAATATTATT
681352 AATTTTA-TTAATCATTATT
1 AATTTTATTTAAT-ATTATT
681371 TTTTTTACCA
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.07
17 3 0.04
18 6 0.09
19 16 0.24
20 5 0.07
21 5 0.07
22 13 0.19
23 2 0.03
24 13 0.19
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTATTTAATATTATT
Found at i:681483 original size:17 final size:19
Alignment explanation
Indices: 681461--681506 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
681451 TTTTTTAATG
681461 TAAAAAGTAA-ATA-AAAA
1 TAAAAAGTAATATAGAAAA
* *
681478 TAAAAATTAATATAGAATA
1 TAAAAAGTAATATAGAAAA
681497 TGAAAAAGTA
1 T-AAAAAGTA
681507 CGAATTATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 9 0.39
18 3 0.13
19 4 0.17
20 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (19 bp):
TAAAAAGTAATATAGAAAA
Found at i:682187 original size:11 final size:10
Alignment explanation
Indices: 682167--682212 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
682157 TGTAATTATT
682167 TAATATAAATA
1 TAATA-AAATA
682178 TAATAAAA-A
1 TAATAAAATA
682187 TAATTAAAATA
1 TAA-TAAAATA
*
682198 TAATATAATA
1 TAATAAAATA
682208 TAATA
1 TAATA
682213 CATAACATAT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
9 4 0.12
10 19 0.59
11 9 0.28
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
TAATAAAATA
Found at i:682204 original size:5 final size:5
Alignment explanation
Indices: 682150--682212 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
682140 AATAATTTTA
* * * *
682150 AATAT AATGT AAT-T -ATTT AATAT AAATAT AATA- AAAAT AATTAA AATAT
1 AATAT AATAT AATAT AATAT AATAT -AATAT AATAT AATAT AA-TAT AATAT
682199 AATAT AATAT AATA
1 AATAT AATAT AATA
682213 CATAACATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
3 2 0.04
4 5 0.11
5 32 0.68
6 8 0.17
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:682212 original size:24 final size:24
Alignment explanation
Indices: 682148--682212 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 24
682138 ATAATAATTT
* * *
682148 TAAATATAATGTAATTATTTAATA
1 TAAATATAATATAATAATTAAATA
*
682172 TAAATATAATAAAAATAATTAAA-A
1 TAAATATAAT-ATAATAATTAAATA
682196 TATAATATAATATAATA
1 TA-AATATAATATAATA
682213 CATAACATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAATATAATATAATAATTAAATA
Found at i:683142 original size:25 final size:26
Alignment explanation
Indices: 683108--683158 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
683098 AAAAAATATA
*
683108 TAATTATAAAATTATATTAA-TAATT
1 TAATTATAAAAATATATTAATTAATT
*
683133 TAATTTTAAAAATATATTAATTAATT
1 TAATTATAAAAATATATTAATTAATT
683159 ATTATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATTATAAAAATATATTAATTAATT
Found at i:683229 original size:26 final size:26
Alignment explanation
Indices: 683193--683250 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
683183 AAAATAATCA
683193 TTTTAAATTTTTCAA-TACTTTTAAAT
1 TTTTAAATTTTTCAATTA-TTTTAAAT
* * *
683219 TTTTAAGTTTTTTAATTATTTTACAT
1 TTTTAAATTTTTCAATTATTTTAAAT
683245 TTTTAA
1 TTTTAA
683251 TAGACTAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTAAATTTTTCAATTATTTTAAAT
Found at i:683318 original size:20 final size:20
Alignment explanation
Indices: 683295--683333 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
683285 ATAAATAAAA
683295 GAATTAGAAGATAATATCAG
1 GAATTAGAAGATAATATCAG
*
683315 GAATTAGGAGATAATATCA
1 GAATTAGAAGATAATATCA
683334 TTTATAATTT
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:0.49, C:0.05, G:0.21, T:0.26
Consensus pattern (20 bp):
GAATTAGAAGATAATATCAG
Found at i:689921 original size:2 final size:2
Alignment explanation
Indices: 689914--689943 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
689904 ACAAATTAAT
689914 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
689944 TTTGAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:690588 original size:27 final size:28
Alignment explanation
Indices: 690557--690614 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
690547 TATTGAAATC
*
690557 TAAAAAATGTGACTAATGTATGAATT-T
1 TAAAAAATATGACTAATGTATGAATTAT
* * *
690584 TAAAAGATATTAGTAATGTATGAATTAT
1 TAAAAAATATGACTAATGTATGAATTAT
690612 TAA
1 TAA
690615 TTGAAATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.14, T:0.38
Consensus pattern (28 bp):
TAAAAAATATGACTAATGTATGAATTAT
Found at i:695088 original size:24 final size:25
Alignment explanation
Indices: 695040--695145 Score: 71
Period size: 24 Copynumber: 4.3 Consensus size: 25
695030 ATAATTTTAA
695040 ACTTTAACAAACAAAAATAAATCAT
1 ACTTTAACAAACAAAAATAAATCAT
*
695065 ACTTTAA-AAA-AAATATAAAATCAT
1 ACTTTAACAAACAAAAAT-AAATCAT
*
695089 A---TAATCAAACAAAAAATAAAT-TT
1 ACTTTAA-CAAAC-AAAAATAAATCAT
* * *
695112 AAATTTCTACAAATAAAAATAAATCAT
1 -ACTTT-AACAAACAAAAATAAATCAT
*
695139 ACCTTAA
1 ACTTTAA
695146 AAAATTTGAA
Statistics
Matches: 61, Mismatches: 9, Indels: 22
0.66 0.10 0.24
Matches are distributed among these distances:
21 3 0.05
23 9 0.15
24 16 0.26
25 13 0.21
26 13 0.21
27 6 0.10
28 1 0.02
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.27
Consensus pattern (25 bp):
ACTTTAACAAACAAAAATAAATCAT
Found at i:696532 original size:15 final size:15
Alignment explanation
Indices: 696512--696543 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
696502 CTTAAGGTCC
696512 ATGCATGTTGTTGTT
1 ATGCATGTTGTTGTT
696527 ATGCATGTTGTTGTT
1 ATGCATGTTGTTGTT
696542 AT
1 AT
696544 TTTAAAGGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.16, C:0.06, G:0.25, T:0.53
Consensus pattern (15 bp):
ATGCATGTTGTTGTT
Found at i:697274 original size:23 final size:24
Alignment explanation
Indices: 697247--697299 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 24
697237 TATTAATGAG
697247 ATATAC-ATTATATAGACATACAT
1 ATATACTATTATATAGACATACAT
*
697270 ATATACTTTTATTATATATACATACAT
1 ATATAC---TATTATATAGACATACAT
697297 ATA
1 ATA
697300 AATATGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 6 0.24
27 19 0.76
ACGTcount: A:0.45, C:0.11, G:0.02, T:0.42
Consensus pattern (24 bp):
ATATACTATTATATAGACATACAT
Found at i:697336 original size:15 final size:16
Alignment explanation
Indices: 697316--697356 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
697306 CATATACAAA
697316 TATAAATTTTAAAAT-
1 TATAAATTTTAAAATC
*
697331 TATAAATATTTAATATC
1 TATAAAT-TTTAAAATC
697348 TA-AAATTTT
1 TATAAATTTT
697357 TAACTATCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 10 0.43
16 11 0.48
17 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (16 bp):
TATAAATTTTAAAATC
Found at i:699037 original size:13 final size:13
Alignment explanation
Indices: 699019--699044 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
699009 TACACAAAGT
699019 ATGTATCGATACA
1 ATGTATCGATACA
699032 ATGTATCGATACA
1 ATGTATCGATACA
699045 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:699042 original size:32 final size:33
Alignment explanation
Indices: 699001--699064 Score: 103
Period size: 32 Copynumber: 2.0 Consensus size: 33
698991 TAGCCAAACT
**
699001 TGTATCGATACACAAAGTA-TGTATCGATACAA
1 TGTATCGATACACAAAAAATTGTATCGATACAA
699033 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
699065 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 17 0.59
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:703416 original size:24 final size:24
Alignment explanation
Indices: 703384--703430 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
703374 TTGCCAGGCC
703384 CACAATTTCACAAAATCGACTAAA
1 CACAATTTCACAAAATCGACTAAA
703408 CACAATTTCACAAAATCGACTAA
1 CACAATTTCACAAAATCGACTAA
703431 TCATAGGTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.49, C:0.26, G:0.04, T:0.21
Consensus pattern (24 bp):
CACAATTTCACAAAATCGACTAAA
Found at i:705785 original size:26 final size:26
Alignment explanation
Indices: 705749--705800 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
705739 TCACTTTAAC
705749 CTTCAAATTATTGGGAAATTATATAT
1 CTTCAAATTATTGGGAAATTATATAT
705775 CTTCAAATTATTGGGAAATTATATAT
1 CTTCAAATTATTGGGAAATTATATAT
705801 TTTTTCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (26 bp):
CTTCAAATTATTGGGAAATTATATAT
Found at i:708379 original size:16 final size:16
Alignment explanation
Indices: 708355--708392 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
708345 TTTGGTGATT
*
708355 ATTATAATAAAATATA
1 ATTAAAATAAAATATA
708371 ATTAAAATAAAATATA
1 ATTAAAATAAAATATA
708387 A-TAAAA
1 ATTAAAA
708393 AAATTGAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTAAAATAAAATATA
Found at i:709940 original size:50 final size:50
Alignment explanation
Indices: 709898--710020 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
709888 ACTTAGATTT
* *
709898 TATAATACTTGACTTTTTTATCAAA-TGCGAGTTAGTGCAGACTCAAAATA
1 TATAAAACTTGACTCTTTTATCAAATTGC-AGTTAGTGCAGACTCAAAATA
* * *
709948 TATAAAACTTGACTCTTTTATCAAATTTCAGTTAGTGCAGACTCGAAATC
1 TATAAAACTTGACTCTTTTATCAAATTGCAGTTAGTGCAGACTCAAAATA
* *
709998 TCTAAGACTTGACT-TTCTTATCA
1 TATAAAACTTGACTCTT-TTATCA
710021 GGAGCCAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
49 2 0.03
50 60 0.94
51 2 0.03
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.37
Consensus pattern (50 bp):
TATAAAACTTGACTCTTTTATCAAATTGCAGTTAGTGCAGACTCAAAATA
Found at i:710144 original size:50 final size:50
Alignment explanation
Indices: 710090--710201 Score: 145
Period size: 50 Copynumber: 2.2 Consensus size: 50
710080 TAATATGAAT
* *
710090 TTTGACTCTATATAAA-TTGACTTTTCTATTGGGTGCTAACTTGTGTGGAC
1 TTTGACTTTATA-AAACTTGACCTTTCTATTGGGTGCTAACTTGTGTGGAC
* ** *
710140 TTTGACTTTCTAAAACTTGACCTTTCTATTGGGTGCTAGTTTGTGTGTAC
1 TTTGACTTTATAAAACTTGACCTTTCTATTGGGTGCTAACTTGTGTGGAC
*
710190 TTTAACTTTATA
1 TTTGACTTTATA
710202 GGATTTAACC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
49 3 0.06
50 50 0.94
ACGTcount: A:0.21, C:0.14, G:0.18, T:0.46
Consensus pattern (50 bp):
TTTGACTTTATAAAACTTGACCTTTCTATTGGGTGCTAACTTGTGTGGAC
Found at i:710319 original size:16 final size:17
Alignment explanation
Indices: 710298--710339 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
710288 TAGAAAATGC
*
710298 AAAAAAT-ATTTTTTTA
1 AAAAAATAATTTTTATA
710314 AAAAAATTAATTTTTATA
1 AAAAAA-TAATTTTTATA
710332 AAATAAAT
1 AAA-AAAT
710340 GAATATTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.27
17 1 0.05
18 12 0.55
19 3 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAAAATAATTTTTATA
Found at i:711275 original size:28 final size:29
Alignment explanation
Indices: 711243--711304 Score: 83
Period size: 28 Copynumber: 2.2 Consensus size: 29
711233 TTAAAGAAAA
*
711243 AATTTATTAAAAAATTAT-TTTTATAA-TT
1 AATTTA-TAAAAAATTATATTTTAAAATTT
*
711271 AATTTATAAAAGATTATATTTTAAAATTT
1 AATTTATAAAAAATTATATTTTAAAATTT
711300 AATTT
1 AATTT
711305 TATTTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 10 0.33
28 13 0.43
29 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
AATTTATAAAAAATTATATTTTAAAATTT
Found at i:712006 original size:19 final size:18
Alignment explanation
Indices: 711982--712017 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
711972 TTTTATTAAA
*
711982 TTAATATTAAAATAATAAT
1 TTAATAATAAAA-AATAAT
712001 TTAATAATAAAAAATAA
1 TTAATAATAAAAAATAA
712018 ACACTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TTAATAATAAAAAATAAT
Found at i:715321 original size:94 final size:93
Alignment explanation
Indices: 715160--715349 Score: 335
Period size: 94 Copynumber: 2.0 Consensus size: 93
715150 TTTTATGCTC
*
715160 TGACAAAATGCATTTTGGGTTAGTTTATGCTTTGAAACTTCATTTCCTTTTTGGGTATTCACCAC
1 TGACAAAATGCATTTTGGGTTAGTTTATGCTTTGAAACTTCATTTCCTTTTTGGGTATCCACCAC
* * *
715225 ATAGTCGTTGCCACCGGCATCAATGTGTG
66 ATAGTCATTG-CACCAGCATCAATGTGCG
715254 TGACAAAATGCATTTTGGGTTAGTTTATGCTTTGAAACTTCATTTCCTTTTTGGGTATCCACCAC
1 TGACAAAATGCATTTTGGGTTAGTTTATGCTTTGAAACTTCATTTCCTTTTTGGGTATCCACCAC
715319 ATAGTCATTGCACCAGCATCAATGTGCG
66 ATAGTCATTGCACCAGCATCAATGTGCG
715347 TGA
1 TGA
715350 TGAATCCTAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
93 19 0.21
94 73 0.79
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (93 bp):
TGACAAAATGCATTTTGGGTTAGTTTATGCTTTGAAACTTCATTTCCTTTTTGGGTATCCACCAC
ATAGTCATTGCACCAGCATCAATGTGCG
Found at i:721238 original size:28 final size:30
Alignment explanation
Indices: 721207--721267 Score: 90
Period size: 28 Copynumber: 2.1 Consensus size: 30
721197 GGGGGTTTTT
* *
721207 ATTGGTTGGGTCTAGTTTTG-T-GGACATG
1 ATTGGTCGGGTATAGTTTTGTTAGGACATG
721235 ATTGGTCGGGTATAGTTTTGTTAGGACATG
1 ATTGGTCGGGTATAGTTTTGTTAGGACATG
721265 ATT
1 ATT
721268 ATTGAACTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 18 0.62
29 1 0.03
30 10 0.34
ACGTcount: A:0.18, C:0.07, G:0.33, T:0.43
Consensus pattern (30 bp):
ATTGGTCGGGTATAGTTTTGTTAGGACATG
Found at i:722030 original size:18 final size:17
Alignment explanation
Indices: 722002--722036 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
721992 GTTTTTTTTT
722002 TAAAAAAAATAAATAAA
1 TAAAAAAAATAAATAAA
722019 TAAAATAAAATAAATAAA
1 TAAAA-AAAATAAATAAA
722037 GAATCAGTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
TAAAAAAAATAAATAAA
Found at i:724132 original size:18 final size:18
Alignment explanation
Indices: 724084--724149 Score: 82
Period size: 18 Copynumber: 3.7 Consensus size: 18
724074 TCTACACATG
724084 ATATCCTTACCCA-CACC
1 ATATCCTTACCCACCACC
* *
724101 ATATCTTTTA-CCACCATC
1 ATATC-CTTACCCACCACC
724119 ATATCCTTACCCACCACC
1 ATATCCTTACCCACCACC
*
724137 GTATCCTTACCCA
1 ATATCCTTACCCA
724150 TCACAATTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 11 0.27
18 30 0.73
ACGTcount: A:0.27, C:0.42, G:0.02, T:0.29
Consensus pattern (18 bp):
ATATCCTTACCCACCACC
Found at i:724624 original size:13 final size:13
Alignment explanation
Indices: 724606--724632 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
724596 TTATGTTTCA
724606 TATATTATTTATT
1 TATATTATTTATT
724619 TATATTATTTATT
1 TATATTATTTATT
724632 T
1 T
724633 GTGTAGAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATATTATTTATT
Found at i:728906 original size:14 final size:14
Alignment explanation
Indices: 728878--728929 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
728868 AATAAAAAAT
*
728878 ATATTTAAATCTTT-
1 ATATTTTAAT-TTTA
728892 ATATTATTAATTTTA
1 ATATT-TTAATTTTA
*
728907 ATATTTTAATTTTT
1 ATATTTTAATTTTA
*
728921 GTATTTTAA
1 ATATTTTAA
728930 AAAGAGATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 24 0.73
15 9 0.27
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (14 bp):
ATATTTTAATTTTA
Found at i:733410 original size:12 final size:12
Alignment explanation
Indices: 733393--733418 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
733383 ATTGATTCCA
733393 CTGATTTTATTC
1 CTGATTTTATTC
733405 CTGATTTTATTC
1 CTGATTTTATTC
733417 CT
1 CT
733419 AAGAATCCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.08, T:0.58
Consensus pattern (12 bp):
CTGATTTTATTC
Found at i:735635 original size:27 final size:27
Alignment explanation
Indices: 735597--735678 Score: 146
Period size: 27 Copynumber: 3.0 Consensus size: 27
735587 GATTCTAACT
*
735597 TACCTCCCTTCCTCTTGTGAACAAAAC
1 TACCTCCATTCCTCTTGTGAACAAAAC
*
735624 TACCTCCATTCCTCTTGTGAACAAGAC
1 TACCTCCATTCCTCTTGTGAACAAAAC
735651 TACCTCCATTCCTCTTGTGAACAAAAC
1 TACCTCCATTCCTCTTGTGAACAAAAC
735678 T
1 T
735679 CATGCACACA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.27, C:0.34, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCTCCATTCCTCTTGTGAACAAAAC
Found at i:739294 original size:6 final size:6
Alignment explanation
Indices: 739284--739346 Score: 58
Period size: 6 Copynumber: 10.8 Consensus size: 6
739274 ATTGCATCCT
* * * * *
739284 TATATT TATATG TATATG TATATA TACATG GATA-- TATATG TATGTG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
*
739330 TATATG TATATA TATAT
1 TATATG TATATG TATAT
739347 ATATGTGTGT
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
4 3 0.07
6 42 0.93
ACGTcount: A:0.37, C:0.02, G:0.13, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:739331 original size:28 final size:28
Alignment explanation
Indices: 739290--739358 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
739280 TCCTTATATT
* *
739290 TATATGTATATGTATATATACATGGATA
1 TATATGTATGTGTATATATACATAGATA
* * *
739318 TATATGTATGTGTATATGTATATATATA
1 TATATGTATGTGTATATATACATAGATA
*
739346 TATATGTGTGTGT
1 TATATGTATGTGT
739359 GTGTGTGTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.33, C:0.01, G:0.17, T:0.48
Consensus pattern (28 bp):
TATATGTATGTGTATATATACATAGATA
Found at i:739394 original size:2 final size:2
Alignment explanation
Indices: 739389--739425 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
739379 ATATATATAT
739389 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
739426 CACACACACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:739430 original size:2 final size:2
Alignment explanation
Indices: 739425--739455 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
739415 AGAGAGAGAG
739425 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
739456 AACTCAGTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:744948 original size:14 final size:14
Alignment explanation
Indices: 744931--744981 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
744921 ATTATTAGAT
744931 TATAATTAAATTTA
1 TATAATTAAATTTA
744945 TATAATATAAA-TTA
1 TATAAT-TAAATTTA
744959 TTAATAGATTAAAATTTA
1 -T-ATA-ATT-AAATTTA
744977 TATAA
1 TATAA
744982 ATATATAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
14 9 0.29
15 6 0.19
16 7 0.23
17 6 0.19
18 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TATAATTAAATTTA
Found at i:744948 original size:33 final size:31
Alignment explanation
Indices: 744909--744986 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 31
744899 AAAATAACAC
744909 TTATATAATATAATTATTAGATTATAATT-AAAT
1 TTATATAATATAATTATTA-A-TA-AATTAAAAT
*
744942 TTATATAATATAAATTATTAATAGATTAAAAT
1 TTATATAATAT-AATTATTAATAAATTAAAAT
744974 TTATATAAATATA
1 TTATAT-AATATA
744987 TAATATTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
31 3 0.07
32 13 0.32
33 17 0.41
34 8 0.20
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (31 bp):
TTATATAATATAATTATTAATAAATTAAAAT
Found at i:751313 original size:13 final size:13
Alignment explanation
Indices: 751295--751320 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
751285 CTATTTATGA
751295 TGTATCGATACAC
1 TGTATCGATACAC
751308 TGTATCGATACAC
1 TGTATCGATACAC
751321 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:751451 original size:10 final size:10
Alignment explanation
Indices: 751432--751462 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
751422 GTATCGATAC
751432 ATGAACAGTG
1 ATGAACAGTG
*
751442 ATGAATAGTG
1 ATGAACAGTG
751452 ATGAACAGTG
1 ATGAACAGTG
751462 A
1 A
751463 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:751566 original size:53 final size:53
Alignment explanation
Indices: 751486--751622 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
751476 CTATTTCCAA
* *
751486 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCTAATGACC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
*
751539 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
751592 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATA-TTGTGTGTATCGATAC
751623 TATGCAATTT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 64 0.80
54 16 0.20
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (53 bp):
TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Found at i:751655 original size:20 final size:20
Alignment explanation
Indices: 751592--751662 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
751582 GCCAATGTCC
**
751592 TGTATCGATACATATTTGTG
1 TGTATCGATACATATTAATG
* *
751612 TGTATCGATAC-TATGCAATT
1 TGTATCGATACATAT-TAATG
751632 TGTATCGATACAT-TTAAATG
1 TGTATCGATACATATT-AATG
751652 TGTATCGATAC
1 TGTATCGATAC
751663 TTTTCAGGGT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 38 0.90
21 1 0.02
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.41
Consensus pattern (20 bp):
TGTATCGATACATATTAATG
Found at i:751728 original size:21 final size:21
Alignment explanation
Indices: 751702--751742 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
751692 GTCAACCTTG
751702 TGTATTAATACCAATA-GTATA
1 TGTATTAATA-CAATACGTATA
*
751723 TGTATTGATACAATACGTAT
1 TGTATTAATACAATACGTAT
751743 TTTCACTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (21 bp):
TGTATTAATACAATACGTATA
Found at i:753600 original size:164 final size:164
Alignment explanation
Indices: 753399--753696 Score: 391
Period size: 164 Copynumber: 1.8 Consensus size: 164
753389 ATTCTGCTTG
* *
753399 TTTTCAAAATACGGAGTTTTCTACTTCGTAAATTTTTTTGGAAGG-ATTTTCATTGATCCAAAAT
1 TTTTCAAAATACGGAGTTTTCTACTCCGTAAATTTTTTCGGAAGGTATTTTC-TTGATCCAAAAT
* * * * * * * *
753463 TTTTAAAATTCATCAAATATTATTATTTAATTCATGTTAAATTAGTTTTTAAAAATTCATTTATT
65 TTTCAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATCTTGAAAAAATAATTTATT
753528 TTCATAAATCAATTTTTTTTCTTAAAAATCCATTA
130 TTCATAAATCAATTTTTTTTCTTAAAAATCCATTA
* * * * * * ****
753563 TTTTCGAAATATGGAGTTTTCTACTCCGTATATTTTTTCGGAGGGTTTTTTCTTGGTTTTTAATT
1 TTTTCAAAATACGGAGTTTTCTACTCCGTAAATTTTTTCGGAAGGTATTTTCTTGATCCAAAATT
*
753628 TTCAAAATTCATCAAATATTATTATTTGATTCATATTAAATCAATCTTGAAAAAATAATTTATTT
66 TTCAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATCTTGAAAAAATAATTTATTT
753693 TCAT
131 TCAT
753697 GAGTTTTGAA
Statistics
Matches: 112, Mismatches: 21, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
164 107 0.96
165 5 0.04
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.49
Consensus pattern (164 bp):
TTTTCAAAATACGGAGTTTTCTACTCCGTAAATTTTTTCGGAAGGTATTTTCTTGATCCAAAATT
TTCAAAATTCATCAAATATTATTATTTAATTCATATTAAATCAATCTTGAAAAAATAATTTATTT
TCATAAATCAATTTTTTTTCTTAAAAATCCATTA
Found at i:754265 original size:23 final size:22
Alignment explanation
Indices: 754206--754271 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
754196 TTTAGCTAGT
754206 AGGAAAAATTAGAG-AGAAAA-G
1 AGGAAAAA-TAGAGAAGAAAATG
*
754227 AGAGAAGAAA-AAAGAAAGAAAATG
1 AG-GAA-AAATAGAG-AAGAAAATG
754251 AGGAAAAATAGAGAAGAAAAT
1 AGGAAAAATAGAGAAGAAAAT
754272 AGAAAACTAG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
21 5 0.14
22 14 0.38
23 15 0.41
24 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.26, T:0.08
Consensus pattern (22 bp):
AGGAAAAATAGAGAAGAAAATG
Found at i:754272 original size:12 final size:12
Alignment explanation
Indices: 754210--754274 Score: 66
Period size: 12 Copynumber: 5.7 Consensus size: 12
754200 GCTAGTAGGA
754210 AAAATTAGAG-AG
1 AAAA-TAGAGAAG
*
754222 AAAAGAGAGAAG
1 AAAATAGAGAAG
*
754234 AAAAAAGA-AAG
1 AAAATAGAGAAG
*
754245 AAAAT-GAGGA-
1 AAAATAGAGAAG
754255 AAAATAGAGAAG
1 AAAATAGAGAAG
754267 AAAATAGA
1 AAAATAGA
754275 AAACTAGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
10 7 0.16
11 16 0.36
12 21 0.48
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.08
Consensus pattern (12 bp):
AAAATAGAGAAG
Found at i:754704 original size:12 final size:13
Alignment explanation
Indices: 754687--754715 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
754677 TAAGAGAGCC
754687 TTTTTGCTG-TAT
1 TTTTTGCTGCTAT
754699 TTTTTGCTGCTAT
1 TTTTTGCTGCTAT
754712 TTTT
1 TTTT
754716 GAGCTGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.07, C:0.10, G:0.14, T:0.69
Consensus pattern (13 bp):
TTTTTGCTGCTAT
Found at i:757517 original size:10 final size:10
Alignment explanation
Indices: 757498--757538 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
757488 AATCTTATTT
757498 TCACTGTTCA
1 TCACTGTTCA
*
757508 TCACTATTCA
1 TCACTGTTCA
*
757518 TCAATGTTCA
1 TCACTGTTCA
757528 TCACTGTTCA
1 TCACTGTTCA
757538 T
1 T
757539 GTATCGATAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.24, C:0.27, G:0.07, T:0.41
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:757594 original size:52 final size:52
Alignment explanation
Indices: 757516--757622 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
757506 CATCACTATT
*
757516 CATCAATGTTCATCACTGTTCATGTATCGATACATTGTGAATTGTATTGATA
1 CATCAATGTTCATCACTGTTCATGTATCGATACATTGTGAATAGTATTGATA
*
757568 CATCACTGTTCATCACTGTTCATGTATCGATACATTGTGAATAGTATTGATA
1 CATCAATGTTCATCACTGTTCATGTATCGATACATTGTGAATAGTATTGATA
757620 CAT
1 CAT
757623 TGAGTCCAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (52 bp):
CATCAATGTTCATCACTGTTCATGTATCGATACATTGTGAATAGTATTGATA
Found at i:761155 original size:25 final size:25
Alignment explanation
Indices: 761115--761170 Score: 89
Period size: 25 Copynumber: 2.3 Consensus size: 25
761105 AGACATTGCC
761115 TTATTT-TTTTTTT-AAATTTGATTT
1 TTATTTATTTTTTTAAAATTTGA-TT
761139 TTATTTATTTTTTTAAAATTTGATT
1 TTATTTATTTTTTTAAAATTTGATT
761164 TTATTTA
1 TTATTTA
761171 AAATATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
24 6 0.20
25 16 0.53
26 8 0.27
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (25 bp):
TTATTTATTTTTTTAAAATTTGATT
Found at i:761172 original size:17 final size:15
Alignment explanation
Indices: 761141--761174 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
761131 TTTGATTTTT
761141 ATTTATTTTTTTAAA
1 ATTTATTTTTTTAAA
761156 ATTTGATTTTATTTAAA
1 ATTT-ATTTT-TTTAAA
761173 AT
1 AT
761175 ATAAATAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
ATTTATTTTTTTAAA
Found at i:761602 original size:154 final size:156
Alignment explanation
Indices: 761260--761879 Score: 665
Period size: 156 Copynumber: 4.0 Consensus size: 156
761250 ACCTTAAAGG
* ** * * * *
761260 AAAATGATCATAAATAAGATGAATCTATCCTAAATACCCATCTTTGGCATAAAAGCATCTCGATG
1 AAAATGATCGTAAATGGGATGAACCTATCCTAAATACACACCTTTGGCATAAAAGCATCTCGGTG
* * *** ** *
761325 ACAACCTAAG-CTTTAATTCT-AGAAAAATTATAAAAATACCCTTGGGGTATACTTTCGACATGA
66 ATAACCTAGGAC-TCGGTTCTGA-AAAAATTATAAAAATACCCTTATGGTATACCTTCGACATGA
* *
761388 AAATATCTCGGTAACCCTAAAGGACTTA
129 AAGTATCTCAGTAACCCTAAAGGACTTA
* * * *
761416 AAAATGATCGTAAATGGGATGAACCTAACCTAAATGCACACATTTGGCATAAAAGCATTTCGGTG
1 AAAATGATCGTAAATGGGATGAACCTATCCTAAATACACACCTTTGGCATAAAAGCATCTCGGTG
* * * * * *
761481 ATAACCTAGGACTCGGGTCTGTAAAAATTATGAAAAT-GCCTTAAGGTATACTTTCGACATGAAA
66 ATAACCTAGGACTCGGTTCTGAAAAAATTATAAAAATACCCTTATGGTATACCTTCGACATGAAA
* *
761545 GTATCTTAGT-ACCCTAAAAGACTTA
131 GTATCTCAGTAACCCTAAAGGACTTA
* * * * *
761570 AAAATGATCGTAAATGGAACGAACCTATCCTAAATACACACCTTTGACATAAAAGCATCCCAGTG
1 AAAATGATCGTAAATGGGATGAACCTATCCTAAATACACACCTTTGGCATAAAAGCATCTCGGTG
* * * * * * *
761635 ATAACCTAGAACTCAGTTCTGGAAAAATTATGAAAATGCCGTTATGAGTATACCTTCGACATAAA
66 ATAACCTAGGACTCGGTTCTGAAAAAATTATAAAAATACCCTTATG-GTATACCTTCGACATGAA
* *
761700 AGTATCCCAATAACCCTAAAGGACTTA
130 AGTATCTCAGTAACCCTAAAGGACTTA
* * *
761727 AAAAGGATCATAAATGGGATGAATCTATCCTAAATAC-CAACCTTTGGCATAAAAGCATCTCGGT
1 AAAATGATCGTAAATGGGATGAACCTATCCTAAATACAC-ACCTTTGGCATAAAAGCATCTCGGT
* * * * * ** *
761791 GACAACCTAAGACTTGATTTTGAAAAAATTCCAAAAATACCCTTATGGTATACCTTCGATATGAA
65 GATAACCTAGGACTCGGTTCTGAAAAAATTATAAAAATACCCTTATGGTATACCTTCGACATGAA
**
761856 AGTATCTTGGTAACCCTAAAGGAC
130 AGTATCTCAGTAACCCTAAAGGAC
761880 AAGAAAATAA
Statistics
Matches: 383, Mismatches: 75, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
154 103 0.27
155 36 0.09
156 141 0.37
157 103 0.27
ACGTcount: A:0.39, C:0.19, G:0.15, T:0.27
Consensus pattern (156 bp):
AAAATGATCGTAAATGGGATGAACCTATCCTAAATACACACCTTTGGCATAAAAGCATCTCGGTG
ATAACCTAGGACTCGGTTCTGAAAAAATTATAAAAATACCCTTATGGTATACCTTCGACATGAAA
GTATCTCAGTAACCCTAAAGGACTTA
Found at i:762274 original size:165 final size:166
Alignment explanation
Indices: 762002--762321 Score: 385
Period size: 166 Copynumber: 1.9 Consensus size: 166
761992 TAACCGATGG
* * ** *
762002 AAAACTGAGAGGATACAAAAAGTTTTAAAAATATCTATATCCCTATGGAGCTATAGGAATAATAG
1 AAAACTGAGAGGATACAAAAAGTTTGAAAAATATCTATACCCCTATAAAGCCATAGGAATAATAG
** * * * *
762067 AAATCTAAAGAAAATGACTAAAATGATGATTTTGCTTCT-AAAATCCAAATTTGCTATTTAGTCC
66 AAATCTAAAGAAAATGACTAAAATGATGATTTCACCTCTAAAAATCAAAACTTGCTATTTAATCC
762131 CAAAACTTTGAAA-AATTTCATTTTGTATTCGACAA
131 CAAAACTTTGAAACAATTTCATTTTGTATTCGACAA
* ** *
762166 AAAATTGAGAGGATATGAAAAGTTTGAAAAATTTCTATACCCCTATAAAAGACCATAGGAATAAT
1 AAAACTGAGAGGATACAAAAAGTTTGAAAAATATCTATACCCCTAT-AAAG-CCATAGGAATAAT
* ** * * *
762231 AGAAATTTTTA-AAAATGCCTAAAATGATGATTTCACCTCTAAAAATTAAAACTTGCTCTTTAAT
64 AGAAATCTAAAGAAAATGACTAAAATGATGATTTCACCTCTAAAAATCAAAACTTGCTATTTAAT
* * *
762295 CCCTAAACTTTTAAACATTTTCATTTT
129 CCCAAAACTTTGAAACAATTTCATTTT
762322 AGTCCCTGCA
Statistics
Matches: 128, Mismatches: 24, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
164 40 0.31
165 27 0.21
166 51 0.40
167 10 0.08
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (166 bp):
AAAACTGAGAGGATACAAAAAGTTTGAAAAATATCTATACCCCTATAAAGCCATAGGAATAATAG
AAATCTAAAGAAAATGACTAAAATGATGATTTCACCTCTAAAAATCAAAACTTGCTATTTAATCC
CAAAACTTTGAAACAATTTCATTTTGTATTCGACAA
Found at i:763833 original size:154 final size:149
Alignment explanation
Indices: 763655--764117 Score: 522
Period size: 154 Copynumber: 3.0 Consensus size: 149
763645 GAAAAAATGA
* * * *
763655 AAAACTCATAAAATAAATTAAATTTTCACAAACTAATTTAATATGAATTTAATAAAAATATTTGA
1 AAAACTTATAAAATAAATTGAATTTTCA-AAACTGATTTAATATGAA-TTAACAAAAATATTTGA
* ** *
763720 TGAATTTTAAAAATTTTAAATTGAGAAAAATCTAATCAAAGAAATTTATAGAGTAGAAAACTCCG
64 TGAATTTTAAAAATTATAAATT-AGAAAAATCT-ATCGGAGAAATTTATAGAGTAGAAAACTCTG
763785 TATCTTGGAAACATAAAAAATTCT
127 TATCTTGGAAA-ATAAAAAATTCT
* *
763809 AAAACTTATAAAATAAATTGAATTTTTTAAAACTGATTTAATATGAATTAGACAACAATATTTGA
1 AAAACTTATAAAATAAATTGAA-TTTTCAAAACTGATTTAATATGAATTA-ACAAAAATATTTGA
* ** *
763874 AGAATTTTTGAAATTATAAATTTAGAAAAATCCT-TCCGGAGAAATTTATGGAGTAGAAAACTCT
64 TGAATTTTAAAAATTATAAA-TTAGAAAAAT-CTAT-CGGAGAAATTTATAGAGTAGAAAACTCT
* * * *
763938 ATATTCTAGTAATAA-GAAAAATTCT
126 GTA-TCTTGGAA-AATAAAAAATTCT
* *
763963 AAAA-TTCATAAAATAAATTGAATTTCTCTAAACTGATTTAATAT-AATTAAGCAATAATATTTG
1 AAAACTT-ATAAAATAAATTGAATTT-TCAAAACTGATTTAATATGAATTAA-CAAAAATATTTG
* * *
764026 ATGAATTTTGAAAATTATAAACTTAGAAAAATTTTATCGGAGAAATTTACAGAGTAGAAAACTCT
63 ATGAATTTTAAAAATTATAAA-TTAGAAAAA-TCTATCGGAGAAATTTATAGAGTAGAAAACTCT
*
764091 GTATCTT-GAAAATAAAAAAATCT
126 GTATCTTGGAAAATAAAAAATTCT
764114 AAAA
1 AAAA
764118 GAAAATACAA
Statistics
Matches: 263, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
150 2 0.01
151 14 0.05
152 4 0.02
153 81 0.31
154 145 0.55
155 16 0.06
156 1 0.00
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.34
Consensus pattern (149 bp):
AAAACTTATAAAATAAATTGAATTTTCAAAACTGATTTAATATGAATTAACAAAAATATTTGATG
AATTTTAAAAATTATAAATTAGAAAAATCTATCGGAGAAATTTATAGAGTAGAAAACTCTGTATC
TTGGAAAATAAAAAATTCT
Found at i:767498 original size:114 final size:114
Alignment explanation
Indices: 767298--767526 Score: 440
Period size: 114 Copynumber: 2.0 Consensus size: 114
767288 AAGAAAAGTA
*
767298 TAATGATCGAGATGTATCTCGTAATTATCATCGATTATCTTATGATAACTTAATTGATAACTTAA
1 TAATGATCGAGATGTATCTCGTAATTATCATCGATTATCTTAAGATAACTTAATTGATAACTTAA
767363 AAACTTATCTAGATTCTTTGATTAATTAAAGTCCAAAAACGGATATGAC
66 AAACTTATCTAGATTCTTTGATTAATTAAAGTCCAAAAACGGATATGAC
*
767412 TAATGATCGAGATGTATCTCGTAATTATCATCGATTATCTTAAGATAACTTAATTGATAACTTAG
1 TAATGATCGAGATGTATCTCGTAATTATCATCGATTATCTTAAGATAACTTAATTGATAACTTAA
767477 AAACTTATCTAGATTCTTTGATTAATTAAAGTCCAAAAACGGATATGAC
66 AAACTTATCTAGATTCTTTGATTAATTAAAGTCCAAAAACGGATATGAC
767526 T
1 T
767527 TGAAATTCGA
Statistics
Matches: 113, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
114 113 1.00
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.37
Consensus pattern (114 bp):
TAATGATCGAGATGTATCTCGTAATTATCATCGATTATCTTAAGATAACTTAATTGATAACTTAA
AAACTTATCTAGATTCTTTGATTAATTAAAGTCCAAAAACGGATATGAC
Found at i:769049 original size:20 final size:21
Alignment explanation
Indices: 769009--769049 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
768999 ATAGGTTGGA
* *
769009 CATAAACTGCATGGCACATGG
1 CATAAAATGCATGGAACATGG
769030 CATAAAATGCAT-GAACATGG
1 CATAAAATGCATGGAACATGG
769050 GTGGTTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.39, C:0.20, G:0.22, T:0.20
Consensus pattern (21 bp):
CATAAAATGCATGGAACATGG
Found at i:770107 original size:21 final size:21
Alignment explanation
Indices: 770078--770129 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
770068 AATGGTCCAG
*
770078 TATCGATACAATAAGCCTTAC
1 TATCAATACAATAAGCCTTAC
770099 TATCAATACAATAAGCCTTAC
1 TATCAATACAATAAGCCTTAC
770120 TATCAATACA
1 TATCAATACA
770130 TTCACTTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.42, C:0.23, G:0.06, T:0.29
Consensus pattern (21 bp):
TATCAATACAATAAGCCTTAC
Found at i:770220 original size:112 final size:112
Alignment explanation
Indices: 770008--770209 Score: 334
Period size: 112 Copynumber: 1.8 Consensus size: 112
769998 TGCAAGCATG
* * * *
770008 TATCGATACATTCACTAATGTATCAGTACAATTTTTTCAGAAAGCAAAATTTTGCCTCGAAATGG
1 TATCAATACATTCACTAATGTATCAATACAATTTTTCCAGAAAGCAAAATTTTACCTCGAAATGG
770073 TCCAGTATCGATACAATAAGCCTTACTATCAATACAATAAGCCTTAC
66 TCCAGTATCGATACAATAAGCCTTACTATCAATACAATAAGCCTTAC
* *
770120 TATCAATACATTCACTTATGTATCAATACAATTTTTCCA-AAATGTAAAATTTTACCTCGAAATG
1 TATCAATACATTCACTAATGTATCAATACAATTTTTCCAGAAA-GCAAAATTTTACCTCGAAATG
770184 GTCCAGTATCGATACAATAAGCCTTA
65 GTCCAGTATCGATACAATAAGCCTTA
770210 GTATTGATAC
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
111 3 0.04
112 80 0.96
ACGTcount: A:0.37, C:0.20, G:0.10, T:0.33
Consensus pattern (112 bp):
TATCAATACATTCACTAATGTATCAATACAATTTTTCCAGAAAGCAAAATTTTACCTCGAAATGG
TCCAGTATCGATACAATAAGCCTTACTATCAATACAATAAGCCTTAC
Found at i:770239 original size:20 final size:21
Alignment explanation
Indices: 770216--770261 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
770206 CTTAGTATTG
*
770216 ATACATTCACTT-ATGTATCA
1 ATACATTAACTTGATGTATCA
* *
770236 ATACATTAACTTGTTGTATCG
1 ATACATTAACTTGATGTATCA
770257 ATACA
1 ATACA
770262 AATTGTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.35, C:0.17, G:0.09, T:0.39
Consensus pattern (21 bp):
ATACATTAACTTGATGTATCA
Found at i:770254 original size:112 final size:111
Alignment explanation
Indices: 770008--770262 Score: 316
Period size: 112 Copynumber: 2.3 Consensus size: 111
769998 TGCAAGCATG
* * * * * *
770008 TATCGATACATTCACTAATGTATCAGTACAATTTTTTCAGAAAGCAAAATTTTGCCTCGAAATGG
1 TATCAATACATTAACTTATGTATCAATACAATTTTTCCAGAAAGCAAAATTTTACCTCGAAATGG
770073 TCCAGTATCGATACAATAAGCCTTACTATCAATACAATAAGCCTTAC
66 TCCAGTATCGATACAATAAGCCTTACTATCAATACAATAA-CCTTAC
* *
770120 TATCAATACATTCACTTATGTATCAATACAATTTTTCCA-AAATGTAAAATTTTACCTCGAAATG
1 TATCAATACATTAACTTATGTATCAATACAATTTTTCCAGAAA-GCAAAATTTTACCTCGAAATG
* ** * * *
770184 GTCCAGTATCGATACAATAAGCCTTAGTATTGATACATTCA-CTTATG
65 GTCCAGTATCGATACAATAAGCCTTACTATCAATACAATAACCTTA-C
* *
770231 TATCAATACATTAACTTGTTGTATCGATACAA
1 TATCAATACATTAACTT-ATGTATCAATACAA
770263 ATTGTAGAAT
Statistics
Matches: 125, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
110 4 0.03
111 19 0.15
112 102 0.82
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.34
Consensus pattern (111 bp):
TATCAATACATTAACTTATGTATCAATACAATTTTTCCAGAAAGCAAAATTTTACCTCGAAATGG
TCCAGTATCGATACAATAAGCCTTACTATCAATACAATAACCTTAC
Found at i:771326 original size:28 final size:28
Alignment explanation
Indices: 771271--771328 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
771261 TTCTGGAAAA
* **
771271 TTTTGAGTGCCACCAGTTTGTGTGGGCT
1 TTTTGAGTGCCACCAGCTTGTGCAGGCT
* *
771299 TTTTGGGTGCCGCCAGCTTGTGCAGGCT
1 TTTTGAGTGCCACCAGCTTGTGCAGGCT
771327 TT
1 TT
771329 AAGAAAGGAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.09, C:0.21, G:0.33, T:0.38
Consensus pattern (28 bp):
TTTTGAGTGCCACCAGCTTGTGCAGGCT
Found at i:771462 original size:20 final size:20
Alignment explanation
Indices: 771404--771462 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
771394 AAATAGACTA
*
771404 GTATCGATACAATAAGCTTTG
1 GTATCGATACATTAA-CTTTG
* * *
771425 GTATCAATACGTTCACTTAT-
1 GTATCGATACATTAACTT-TG
771445 GTATCGATACATTAACTT
1 GTATCGATACATTAACTT
771463 GTTGTGTCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (20 bp):
GTATCGATACATTAACTTTG
Found at i:773273 original size:51 final size:51
Alignment explanation
Indices: 773207--773344 Score: 177
Period size: 51 Copynumber: 2.7 Consensus size: 51
773197 GAAAAATTTA
* * * * *
773207 ATATTTTGGAGATAAAAACAAGGTTAGAGTATCCTCGATGGTGAGAAGTCG
1 ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCGATGGTGAAAAGTCG
* * * *
773258 ATATTTTGAAAATAAAAACGGGGTTGGAGCATCCCCGATGGTGAAAAGTTG
1 ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCGATGGTGAAAAGTCG
* *
773309 ATATTTTGGAAACAAAATCAGGGTTGGAGTATCCCC
1 ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCC
773345 TCGAAAATAA
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 73 1.00
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (51 bp):
ATATTTTGGAAATAAAAACAGGGTTGGAGTATCCCCGATGGTGAAAAGTCG
Found at i:773361 original size:28 final size:28
Alignment explanation
Indices: 773329--773400 Score: 117
Period size: 28 Copynumber: 2.6 Consensus size: 28
773319 AACAAAATCA
*
773329 GGGTTGGAGTATCCCCTCGAAAATAATG
1 GGGTTGGAGTATCCCCTCGAAAATAACG
*
773357 GGGTTGGAGTATCCTCTCGAAAATAACG
1 GGGTTGGAGTATCCCCTCGAAAATAACG
*
773385 GGGTTAGAGTATCCCC
1 GGGTTGGAGTATCCCC
773401 GATGGTGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCTCGAAAATAACG
Found at i:773403 original size:107 final size:107
Alignment explanation
Indices: 773274--773477 Score: 318
Period size: 107 Copynumber: 1.9 Consensus size: 107
773264 TGAAAATAAA
* * * *
773274 AACGGGGTTGGAGCATCCCCGATGGTGAAAAGTTGATATTTTGGAAACAAAATCAGGGTTGGAGT
1 AACGGGGTTAGAGCATCCCCGATGGTGAAAAATCGATATTTTAGAAACAAAATCAGGGTTGGAGT
773339 ATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCTCGAAAAT
66 ATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCTCGAAAAT
* * ** *
773381 AACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTTTTAGAATTAAAATCGGGGTTGGAGT
1 AACGGGGTTAGAGCATCCCCGATGGTGAAAAATCGATATTTTAGAAACAAAATCAGGGTTGGAGT
*
773446 ATCCTCTCGAAAATAATGGGGTTGGAGTATCC
66 ATCCCCTCGAAAATAATGGGGTTGGAGTATCC
773478 CTGATGGTGG
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
107 87 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (107 bp):
AACGGGGTTAGAGCATCCCCGATGGTGAAAAATCGATATTTTAGAAACAAAATCAGGGTTGGAGT
ATCCCCTCGAAAATAATGGGGTTGGAGTATCCTCTCGAAAAT
Found at i:773442 original size:79 final size:79
Alignment explanation
Indices: 773356--773530 Score: 271
Period size: 79 Copynumber: 2.2 Consensus size: 79
773346 CGAAAATAAT
773356 GGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTT
1 GGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTT
*
773421 TTAGAATTAAAATC-
66 TTAGAAATAAAA-CA
* * * *
773435 GGGGTTGGAGTATCCTCTCGAAAATAATGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTT
1 GGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTT
773500 TTAGAAATAAAACA
66 TTAGAAATAAAACA
**
773514 AAGGTTGGAGTATCCTC
1 GGGGTTGGAGTATCCTC
773531 GATGGTGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
78 1 0.01
79 87 0.99
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.28
Consensus pattern (79 bp):
GGGGTTGGAGTATCCTCTCGAAAATAACGGGGTTAGAGTATCCCCGATGGTGAAAAATCGATGTT
TTAGAAATAAAACA
Found at i:773571 original size:51 final size:51
Alignment explanation
Indices: 773462--773578 Score: 157
Period size: 51 Copynumber: 2.3 Consensus size: 51
773452 TCGAAAATAA
773462 TGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAAC
1 TGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAAC
*** * *
773513 AAAGGTTGGAGTAT-CCTCGATGGT-GAAATATCGGTGTTTTAGAAATAAAAT
1 TGGGGTTGGAGTATCCCT-GATGGTGGAAA-ATCGATGTTTTAGAAATAAAAC
773564 TGGGGTTGGAGTATC
1 TGGGGTTGGAGTATC
773579 TCTTCGAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
50 7 0.13
51 48 0.87
ACGTcount: A:0.31, C:0.09, G:0.30, T:0.31
Consensus pattern (51 bp):
TGGGGTTGGAGTATCCCTGATGGTGGAAAATCGATGTTTTAGAAATAAAAC
Found at i:773742 original size:78 final size:78
Alignment explanation
Indices: 773601--773861 Score: 339
Period size: 79 Copynumber: 3.3 Consensus size: 78
773591 ACAGGCAATA
* * *
773601 GTGGAAAATCGATGTTTTAGAAATAAAATTGGGGTTGGAGTATCCTCTCAAAAATAACGAGGTTG
1 GTGGAAAATCGATGTTTTAGAAATAAAATAGAGGTTGGAGTATCC-CTCGAAAATAACGAGGTTG
773666 GAGTATCCTCGATG
65 GAGTATCCTCGATG
* * * * *
773680 GTGAAAAATC-AGTGTTTTAGAAATAAAATCGCGG-TGAAGTATTCCCTCGAAAATAATGAGGTT
1 GTGGAAAATCGA-TGTTTTAGAAATAAAATAGAGGTTGGAGTA-TCCCTCGAAAATAACGAGGTT
773743 GGAGTATCCTCGATG
64 GGAGTATCCTCGATG
* *
773758 GTGGAAAATCGATGTTTTAGAAATGAAATAGAGGTTGGAGTATCGCCTCGAAAATAACGGGGTTG
1 GTGGAAAATCGATGTTTTAGAAATAAAATAGAGGTTGGAGTATC-CCTCGAAAATAACGAGGTTG
*
773823 GAATAT-CTCCGATG
65 GAGTATCCT-CGATG
* *
773837 GTGGAAAATTGGTGTTTTAGAAATA
1 GTGGAAAATCGATGTTTTAGAAATA
773862 GAAACATTAA
Statistics
Matches: 159, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
78 70 0.44
79 89 0.56
ACGTcount: A:0.34, C:0.11, G:0.27, T:0.29
Consensus pattern (78 bp):
GTGGAAAATCGATGTTTTAGAAATAAAATAGAGGTTGGAGTATCCCTCGAAAATAACGAGGTTGG
AGTATCCTCGATG
Found at i:777546 original size:14 final size:14
Alignment explanation
Indices: 777520--777558 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
777510 AAATTATACC
777520 ATAAAAATT-AATT
1 ATAAAAATTAAATT
777533 A-AAAATATTAAATT
1 ATAAAA-ATTAAATT
777547 ATAAAAATTAAA
1 ATAAAAATTAAA
777559 AATTATTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 4 0.17
13 4 0.17
14 11 0.48
15 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
ATAAAAATTAAATT
Found at i:777630 original size:15 final size:15
Alignment explanation
Indices: 777610--777638 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
777600 TCAATAACAA
777610 ATGCAATTTTAATGG
1 ATGCAATTTTAATGG
777625 ATGCAATTTTAATG
1 ATGCAATTTTAATG
777639 TTAAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.07, G:0.17, T:0.41
Consensus pattern (15 bp):
ATGCAATTTTAATGG
Found at i:782992 original size:13 final size:13
Alignment explanation
Indices: 782974--782998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
782964 ACTGAAGCAA
782974 TGTATCGATACAT
1 TGTATCGATACAT
782987 TGTATCGATACA
1 TGTATCGATACA
782999 ATTTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:786771 original size:13 final size:13
Alignment explanation
Indices: 786753--786778 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
786743 CTATTTATGA
786753 TGTATCGATACAC
1 TGTATCGATACAC
786766 TGTATCGATACAC
1 TGTATCGATACAC
786779 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:786895 original size:22 final size:22
Alignment explanation
Indices: 786868--786920 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
786858 ACAGTGACCT
786868 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
786890 ATGAACAGTGATGTATCGATAC
1 ATGAACAGTGATGTATCGATAC
786912 ATGAACAGT
1 ATGAACAGT
786921 AATGAATAGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (22 bp):
ATGAACAGTGATGTATCGATAC
Found at i:787029 original size:53 final size:53
Alignment explanation
Indices: 786965--787101 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
786955 CTACTTCCAA
786965 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
* *
787018 TGTATCGATACATATTGTGTGTATCGATACAAATTTGGCTACTGCCAATGTCC
1 TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
787071 TGTATCGATACATATTTGTGTGTATCGATAC
1 TGTATCGATACATATTT-TGTGTATCGATAC
787102 TATGCAATCT
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 67 0.84
54 13 0.16
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.37
Consensus pattern (53 bp):
TGTATCGATACATATTTTGTGTATCGATACAAATTTGGCTACTGCCAATGACC
Done.