Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_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: 2070395
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 11
Found at i:431199 original size:23 final size:22
Alignment explanation
Indices: 431169--431212 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
431159 AAGAAGAAGG
431169 AAAAAGAAAAAAGAAAAGAAAAA
1 AAAAAGAAAAAAGAAAA-AAAAA
*
431192 AAAAAGAAACAAGAAAAAAAA
1 AAAAAGAAAAAAGAAAAAAAA
431213 GAGGAGAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.86, C:0.02, G:0.11, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAGAAAAAAAAA
Found at i:431221 original size:21 final size:18
Alignment explanation
Indices: 431170--431212 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
431160 AGAAGAAGGA
431170 AAAAGAAAAAAG-AA-AAG
1 AAAA-AAAAAAGAAACAAG
431187 AAAAAAAAAAGAAACAAG
1 AAAAAAAAAAGAAACAAG
431205 AAAAAAAA
1 AAAAAAAA
431213 GAGGAGAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.29
17 6 0.25
18 11 0.46
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAGAAACAAG
Found at i:435871 original size:22 final size:22
Alignment explanation
Indices: 435845--435921 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
435835 ATCTACACTC
435845 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
435867 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
435889 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
435911 TTCAAAGATGA
1 TTCAAAGATGA
435922 AAGTTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:436725 original size:76 final size:76
Alignment explanation
Indices: 436599--438980 Score: 4424
Period size: 76 Copynumber: 31.3 Consensus size: 76
436589 CTATTTCCCA
* * *
436599 CATCTATAATTCCTACAGTGCATGATGTTACCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
436664 AGCCTTAGGGT
66 AGCCTTAGGGT
436675 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
436740 AGCCTTAGGGT
66 AGCCTTAGGGT
436751 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
436816 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
436827 CATCTGTAAGTCCTATAGTGCATGATGTTTCCAAAAATCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
436892 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
436903 CATCTGTAAGTCCTATATTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
436968 AGCCTTAGGGT
66 AGCCTTAGGGT
436979 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437044 AGCCTTAGGGT
66 AGCCTTAGGGT
437055 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437120 AGCCTTAGGGT
66 AGCCTTAGGGT
437131 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437196 AGCCTTAGGGT
66 AGCCTTAGGGT
*
437207 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAACGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437272 AGCCTTAGGGT
66 AGCCTTAGGGT
*
437283 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437348 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
437359 CATCTGTAAGTCCTATAGTGCATGATGTTTCGAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437424 AGCCTTAGGGT
66 AGCCTTAGGGT
437435 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437500 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
437511 TATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437576 AGCCTTAGGGT
66 AGCCTTAGGGT
437587 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437652 AGCCTTAGGGT
66 AGCCTTAGGGT
*
437663 CATCTGTAAGTCCTACAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437728 AGCCTTAGGGT
66 AGCCTTAGGGT
437739 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437804 AGCCTTAGGGT
66 AGCCTTAGGGT
437815 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437880 AGCCTTAGGGT
66 AGCCTTAGGGT
437891 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
437956 AGCCTTAGGGT
66 AGCCTTAGGGT
437967 CATCTGTAAGTCCTACAGTGCATGATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438031 AGCCTTAGGGT
66 AGCCTTAGGGT
438042 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438107 AGCCTTAGGGT
66 AGCCTTAGGGT
*
438118 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438183 AGCCTTAGGGT
66 AGCCTTAGGGT
* * *
438194 CATCTGTAAGTCCTATAGTGCATGATGTTTCGAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438259 AGCCTTAGGGT
66 AGCCTTAGGGT
*
438270 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAACCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438335 AGCCTTAGGGT
66 AGCCTTAGGGT
*
438346 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438411 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
438422 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGGAGCTTTTTGATTTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438487 AGCCTTAGGGT
66 AGCCTTAGGGT
438498 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438563 AGCCTTAGGGT
66 AGCCTTAGGGT
*
438574 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTACAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438639 AGCCTTAGGGT
66 AGCCTTAGGGT
438650 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTTCA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTTCA
*
438715 AAGCCTTAGGGC
65 AAGCCTTAGGGT
* * *
438727 CATCTGCAAGTCCTACAGTGCATGATATTTCCAAAAAGCCTTCGGGTGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
438792 AGCCATAGGAT
66 AGCCTTAGGGT
*
438803 CATCTGTAAGTCCTGCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
438868 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
438879 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCAGAAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
* *
438944 AACCTTCGGGT
66 AGCCTTAGGGT
* *
438955 CATCTGTAAGCCCTTCAGTGCATGAT
1 CATCTGTAAGTCCTACAGTGCATGAT
438981 TTTTTTAAGA
Statistics
Matches: 2245, Mismatches: 59, Indels: 4
0.97 0.03 0.00
Matches are distributed among these distances:
75 75 0.03
76 2099 0.93
77 71 0.03
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:439148 original size:3 final size:3
Alignment explanation
Indices: 439140--439201 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
439130 TTTACTTAAT
** * * *
439140 TTA TTA TTA TTA AAA TTA TTA ATA TTA TAA ATA TTA TTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
439188 TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA
439202 AATAATAATT
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
2 4 0.09
3 39 0.85
4 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:439160 original size:15 final size:16
Alignment explanation
Indices: 439140--439204 Score: 73
Period size: 15 Copynumber: 4.1 Consensus size: 16
439130 TTTACTTAAT
439140 TTATTATTATTA-AAA
1 TTATTATTATTATAAA
*
439155 TTATTAATATTATAAA
1 TTATTATTATTATAAA
439171 -TATTATTATTATATATA
1 TTATTATTATTATA-A-A
439188 TTA-TATTATTATTAAA
1 TTATTATTATTA-TAAA
439204 T
1 T
439205 AATAATTACA
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
15 23 0.53
16 6 0.14
17 10 0.23
18 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATTATTATTATAAA
Found at i:440244 original size:2 final size:2
Alignment explanation
Indices: 440237--440266 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
440227 CGTTATCAGC
440237 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
440267 TAGGGTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:440959 original size:29 final size:29
Alignment explanation
Indices: 440926--440982 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
440916 ATATTTCTAA
440926 ATAAATAAATATTTTATTT-ATAAATATAT
1 ATAAATAAATATTTT-TTTCATAAATATAT
* *
440955 ATAAATTAATATTTTTTTCATAATTATA
1 ATAAATAAATATTTTTTTCATAAATATA
440983 ATTTTGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 3 0.12
29 22 0.88
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (29 bp):
ATAAATAAATATTTTTTTCATAAATATAT
Found at i:447135 original size:100 final size:100
Alignment explanation
Indices: 446962--447167 Score: 412
Period size: 100 Copynumber: 2.1 Consensus size: 100
446952 GGTTTCATCC
446962 ATAGGTTGTATGTTGAACGCATAGAAGGTATTAGGTGCCATGATGGAGTCATAAGTAACTAGCTA
1 ATAGGTTGTATGTTGAACGCATAGAAGGTATTAGGTGCCATGATGGAGTCATAAGTAACTAGCTA
447027 GTGTAGTTAGATAGCTAGGTAGCTAGCTAAGTAGT
66 GTGTAGTTAGATAGCTAGGTAGCTAGCTAAGTAGT
447062 ATAGGTTGTATGTTGAACGCATAGAAGGTATTAGGTGCCATGATGGAGTCATAAGTAACTAGCTA
1 ATAGGTTGTATGTTGAACGCATAGAAGGTATTAGGTGCCATGATGGAGTCATAAGTAACTAGCTA
447127 GTGTAGTTAGATAGCTAGGTAGCTAGCTAAGTAGT
66 GTGTAGTTAGATAGCTAGGTAGCTAGCTAAGTAGT
447162 ATAGGT
1 ATAGGT
447168 AGCTAGTTAT
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 106 1.00
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.30
Consensus pattern (100 bp):
ATAGGTTGTATGTTGAACGCATAGAAGGTATTAGGTGCCATGATGGAGTCATAAGTAACTAGCTA
GTGTAGTTAGATAGCTAGGTAGCTAGCTAAGTAGT
Found at i:447988 original size:37 final size:37
Alignment explanation
Indices: 447913--447988 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 37
447903 TTTTTTACCC
*
447913 TTAATTTTGTAAAAAAAATTATATAAATATTATGAAT
1 TTAATTTTGTAAAAAAAATTATATAAATATTATCAAT
* * *
447950 TTAATTTTTTAAAGAAAA-TATATAAATATTTTACAAT
1 TTAATTTTGTAAAAAAAATTATATAAATATTAT-CAAT
447987 TT
1 TT
447989 GTAATATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.38
37 21 0.62
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (37 bp):
TTAATTTTGTAAAAAAAATTATATAAATATTATCAAT
Found at i:453145 original size:15 final size:15
Alignment explanation
Indices: 453125--453170 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
453115 TCGATTCGAG
453125 TAACACATATCCGAA
1 TAACACATATCCGAA
453140 TAACACATA-CTCGAA
1 TAACACATATC-CGAA
* *
453155 TAACATATATTCGAA
1 TAACACATATCCGAA
453170 T
1 T
453171 TTCGATGTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 26 0.96
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.26
Consensus pattern (15 bp):
TAACACATATCCGAA
Found at i:453860 original size:32 final size:32
Alignment explanation
Indices: 453813--453889 Score: 95
Period size: 32 Copynumber: 2.3 Consensus size: 32
453803 TTATATATAT
453813 ATATATAATATTAATAAATT-TA-ATTTAATTTAAA
1 ATATAT-ATA-TAAT-AATTATATATTTAATTT-AA
*
453847 ATATATATATAATATTTATATATTTAATTTAA
1 ATATATATATAATAATTATATATTTAATTTAA
453879 ATATATATATA
1 ATATATATATA
453890 CCCGGCCGAT
Statistics
Matches: 40, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
31 3 0.08
32 19 0.47
33 12 0.30
34 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATATATATATAATAATTATATATTTAATTTAA
Found at i:453868 original size:15 final size:15
Alignment explanation
Indices: 453808--453887 Score: 50
Period size: 13 Copynumber: 5.8 Consensus size: 15
453798 AATTATTATA
453808 TATATATATATAATAT
1 TATATATATATAAT-T
* *
453824 TA-ATAAATTTAATT
1 TATATATATATAATT
* *
453838 TA-AT-T-TAAAATA
1 TATATATATATAATT
453850 TATATATA-AT-ATT
1 TATATATATATAATT
453863 TATATAT-T-TAATT
1 TATATATATATAATT
*
453876 TAAATATATATA
1 TATATATATATA
453888 TACCCGGCCG
Statistics
Matches: 48, Mismatches: 9, Indels: 15
0.67 0.12 0.21
Matches are distributed among these distances:
12 7 0.15
13 20 0.42
14 8 0.17
15 11 0.23
16 2 0.04
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATATATATAATT
Found at i:453889 original size:38 final size:37
Alignment explanation
Indices: 453804--453889 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 37
453794 AAATAATTAT
453804 TATATATATATATATAATATTAATAAATTTAATTTAA
1 TATATATATATATATAATATTAATAAATTTAATTTAA
* * * *
453841 TTTAAAATATATATATAATATTTATATATTTAATTTAA
1 TAT-ATATATATATATAATATTAATAAATTTAATTTAA
453879 -ATATATATATA
1 TATATATATATA
453890 CCCGGCCGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 8 0.19
37 3 0.07
38 31 0.74
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (37 bp):
TATATATATATATATAATATTAATAAATTTAATTTAA
Found at i:454043 original size:25 final size:25
Alignment explanation
Indices: 453996--454044 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
453986 ATTTCCGCGG
* *
453996 TTTTTAAGCGGGGACGGATACAGAT
1 TTTTTAAACGGGGACGGAGACAGAT
*
454021 TTTTTAAACGGGGACGGGGACAGA
1 TTTTTAAACGGGGACGGAGACAGA
454045 GACGAGAGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.12, G:0.35, T:0.24
Consensus pattern (25 bp):
TTTTTAAACGGGGACGGAGACAGAT
Found at i:456557 original size:17 final size:16
Alignment explanation
Indices: 456529--456561 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
456519 AGCTACCTAC
456529 ACTACATAACTAGCTA
1 ACTACATAACTAGCTA
456545 ACTACACTAACTAGCTA
1 ACTACA-TAACTAGCTA
456562 CATATGACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.42, C:0.27, G:0.06, T:0.24
Consensus pattern (16 bp):
ACTACATAACTAGCTA
Found at i:461781 original size:17 final size:17
Alignment explanation
Indices: 461761--461795 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
461751 AATTATAAAT
*
461761 TTTGTATAATTATTTTA
1 TTTGAATAATTATTTTA
*
461778 TTTGAATATTTATTTTA
1 TTTGAATAATTATTTTA
461795 T
1 T
461796 GTATTTTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.66
Consensus pattern (17 bp):
TTTGAATAATTATTTTA
Found at i:462431 original size:2 final size:2
Alignment explanation
Indices: 462424--462449 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
462414 AGTAATATTA
462424 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
462450 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:464478 original size:21 final size:21
Alignment explanation
Indices: 464449--464489 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
464439 ATCTATCATC
*
464449 ACCATCATCATCC-TAAAATCG
1 ACCACCATCA-CCATAAAATCG
464470 ACCACCATCACCATAAAATC
1 ACCACCATCACCATAAAATC
464490 CTAATTTGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.41, C:0.37, G:0.02, T:0.20
Consensus pattern (21 bp):
ACCACCATCACCATAAAATCG
Found at i:466782 original size:121 final size:121
Alignment explanation
Indices: 466568--466809 Score: 484
Period size: 121 Copynumber: 2.0 Consensus size: 121
466558 ACTCTTGTAG
466568 GCATACCAAAGACATTCTTTAGAACTCACCATAAACATTTTAAGTTCAAGATGATGCCTTTTGGA
1 GCATACCAAAGACATTCTTTAGAACTCACCATAAACATTTTAAGTTCAAGATGATGCCTTTTGGA
466633 TTAACAAACGCACCAGAAACATTCCAAACCTTGATGAATGAGCTATTTGGTCCCTA
66 TTAACAAACGCACCAGAAACATTCCAAACCTTGATGAATGAGCTATTTGGTCCCTA
466689 GCATACCAAAGACATTCTTTAGAACTCACCATAAACATTTTAAGTTCAAGATGATGCCTTTTGGA
1 GCATACCAAAGACATTCTTTAGAACTCACCATAAACATTTTAAGTTCAAGATGATGCCTTTTGGA
466754 TTAACAAACGCACCAGAAACATTCCAAACCTTGATGAATGAGCTATTTGGTCCCTA
66 TTAACAAACGCACCAGAAACATTCCAAACCTTGATGAATGAGCTATTTGGTCCCTA
466810 CTTGTGGAAG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (121 bp):
GCATACCAAAGACATTCTTTAGAACTCACCATAAACATTTTAAGTTCAAGATGATGCCTTTTGGA
TTAACAAACGCACCAGAAACATTCCAAACCTTGATGAATGAGCTATTTGGTCCCTA
Found at i:470208 original size:16 final size:16
Alignment explanation
Indices: 470187--470221 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
470177 GAATTTAGTT
470187 TTATATTTTGAT-AGAG
1 TTATATTTT-ATAAGAG
470203 TTATATTTTATAAGAG
1 TTATATTTTATAAGAG
470219 TTA
1 TTA
470222 AGATGGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 16 0.89
ACGTcount: A:0.34, C:0.00, G:0.14, T:0.51
Consensus pattern (16 bp):
TTATATTTTATAAGAG
Found at i:478964 original size:17 final size:16
Alignment explanation
Indices: 478933--478976 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
478923 TAGTAGAAAG
478933 TGATTTTTATACAATT
1 TGATTTTTATACAATT
*
478949 TGATTTTTATGCCAATT
1 TGATTTTTAT-ACAATT
478966 T-AGTTTTTATA
1 TGA-TTTTTATA
478977 AAATAAACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.57
Consensus pattern (16 bp):
TGATTTTTATACAATT
Found at i:481468 original size:13 final size:13
Alignment explanation
Indices: 481450--481530 Score: 126
Period size: 13 Copynumber: 6.2 Consensus size: 13
481440 TGCGTCATAA
481450 ATTTATGACGCGC
1 ATTTATGACGCGC
*
481463 ATTTATGACACGC
1 ATTTATGACGCGC
481476 ATTTATGACGCGC
1 ATTTATGACGCGC
481489 ATTTATGACGCGC
1 ATTTATGACGCGC
* *
481502 ATTTATGACACAC
1 ATTTATGACGCGC
*
481515 ATTTATGACGCTC
1 ATTTATGACGCGC
481528 ATT
1 ATT
481531 GCGCGTCATT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:481493 original size:39 final size:39
Alignment explanation
Indices: 481450--481530 Score: 144
Period size: 39 Copynumber: 2.1 Consensus size: 39
481440 TGCGTCATAA
*
481450 ATTTATGACGCGCATTTATGACACGCATTTATGACGCGC
1 ATTTATGACGCGCATTTATGACACACATTTATGACGCGC
*
481489 ATTTATGACGCGCATTTATGACACACATTTATGACGCTC
1 ATTTATGACGCGCATTTATGACACACATTTATGACGCGC
481528 ATT
1 ATT
481531 GCGCGTCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.33
Consensus pattern (39 bp):
ATTTATGACGCGCATTTATGACACACATTTATGACGCGC
Found at i:481654 original size:85 final size:84
Alignment explanation
Indices: 481502--481667 Score: 203
Period size: 85 Copynumber: 2.0 Consensus size: 84
481492 TATGACGCGC
* *
481502 ATTTATGACACACATTTATGACGCTCATTGCGCGTCATTGAAGCCCCCGTCATAAATGAAGACGA
1 ATTTATGACACACATTTATGACGCTCATTGCGCGTCATTGAAGCACACGTCATAAA-GAAGACGA
*
481567 CACACATTTGTGTGTCATAA
65 CACACATTCGTGTGTCATAA
* * *
481587 ATTTATGACACGA-ATTTATGAC-TTACATTGCGTGTCATTGAAGCACACGTTATTAGAA-AAGA
1 ATTTATGACAC-ACATTTATGACGCT-CATTGCGCGTCATTGAAGCACACGTCA-TA-AAGAAGA
*
481649 TGACACACATTCGTGTGTC
62 CGACACACATTCGTGTGTC
481668 GTGATTGTAT
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
84 1 0.01
85 64 0.91
86 3 0.04
87 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (84 bp):
ATTTATGACACACATTTATGACGCTCATTGCGCGTCATTGAAGCACACGTCATAAAGAAGACGAC
ACACATTCGTGTGTCATAA
Found at i:499057 original size:2 final size:2
Alignment explanation
Indices: 499050--499102 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
499040 AAGGCTTTTA
499050 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
499092 AT AT AT AT AT A
1 AT AT AT AT AT A
499103 AAATTGTCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:509890 original size:81 final size:81
Alignment explanation
Indices: 509748--510403 Score: 918
Period size: 81 Copynumber: 8.1 Consensus size: 81
509738 AGCATTTAGA
* * * * * * * * *
509748 CTTTTACCCAAAGGCATTTAGCCTTCCATAC-AATTTGCATGATTGACACATTTCTGCCAAATAC
1 CTTTTACTCAAAGGTATTTAACCTTTCAT-CTAACTGGCATAATTGACACATTTCTGTCAAATGC
* *
509812 ACAGTTAGTCCATTAAT
65 ACAGCTAGGCCATTAAT
* *
509829 CTTTTACTCAAAGGTATTTAACCTTTCATCTAATTGGCATAATTGACACATTTATGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* **
509894 CAACTATACCATTAAT
66 CAGCTAGGCCATTAAT
* * * * *
509910 CTTTTACTAAAAGGTATTTAACCTTTCATCTAACTGACATAATTGAAACCTTTCTATCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* *
509975 CATCTAGGTCATTAAT
66 CAGCTAGGCCATTAAT
* * * * *
509991 CTTTCACTCAAAGGTATTTAACATTTCATCTAACTGGCATAATTGACACCTTTCTATCATATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
510056 TAGCTAGGCCATTAAT
66 CAGCTAGGCCATTAAT
* *
510072 CTTTTACTCAAAGGTATTTAATCTTTCATTTAACTGGCATAATTGACACATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* *
510137 CAACTAGACCATTAAT
66 CAGCTAGGCCATTAAT
*
510153 ATTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
* *
510218 TAGCTAGACCATTAAT
66 CAGCTAGGCCATTAAT
* *
510234 CTTTTACTCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTATCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
*
510299 CAACTAGGCCATTAAT
66 CAGCTAGGCCATTAAT
* * *
510315 CGTTTACTCAAATGTATTTAACCTTTCATCTAACTGGCATAATTGACATATTTCTGTCAAATGCA
1 CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
510380 CAGCTAGGCCATTAAT
66 CAGCTAGGCCATTAAT
510396 CTTTTACT
1 CTTTTACT
510404 TAGGAATAGT
Statistics
Matches: 513, Mismatches: 61, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
80 1 0.00
81 512 1.00
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.36
Consensus pattern (81 bp):
CTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCA
CAGCTAGGCCATTAAT
Found at i:518074 original size:3 final size:3
Alignment explanation
Indices: 518066--518090 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
518056 CGAATCATAA
518066 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
518091 CGTAAGACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:526008 original size:20 final size:21
Alignment explanation
Indices: 525983--526027 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
525973 GGGTACCTAA
* *
525983 ACTAAATGG-TTAGTATCGAT
1 ACTAAAGGGCTTAATATCGAT
*
526003 ACTAAAGGGCTTAATATCGGT
1 ACTAAAGGGCTTAATATCGAT
526024 ACTA
1 ACTA
526028 TCATCCTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (21 bp):
ACTAAAGGGCTTAATATCGAT
Found at i:535624 original size:77 final size:78
Alignment explanation
Indices: 535484--535630 Score: 192
Period size: 77 Copynumber: 1.9 Consensus size: 78
535474 ATATAGTAAG
* *
535484 TAAACATTAAAAAAATGTAATTTAGATTACAACTCTTTTAATTTATATATAATTCATAATAATTA
1 TAAACATTAAAAAAATGTAATTCAGATTACAACTCTTTTAATGTATATATAATT-ATAATAATTA
535549 AATAAGTTTTTGAA
65 AATAAGTTTTTGAA
* * * *
535563 TAAACATT-AAAAATTGTAATTCAGATTATAAGTC-TTTAATGTATATTTAATT-TGAATTAATT
1 TAAACATTAAAAAAATGTAATTCAGATTACAACTCTTTTAATGTATATATAATTAT-AA-TAATT
535625 AAATAA
64 AAATAA
535631 TATTTTATTT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
75 1 0.02
76 2 0.03
77 27 0.45
78 22 0.37
79 8 0.13
ACGTcount: A:0.46, C:0.05, G:0.06, T:0.42
Consensus pattern (78 bp):
TAAACATTAAAAAAATGTAATTCAGATTACAACTCTTTTAATGTATATATAATTATAATAATTAA
ATAAGTTTTTGAA
Found at i:544041 original size:18 final size:18
Alignment explanation
Indices: 544018--544055 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
544008 ATTCTTCAAA
544018 TTCATATTTTCGTTATCG
1 TTCATATTTTCGTTATCG
544036 TTCATATTTTCGTTATCG
1 TTCATATTTTCGTTATCG
544054 TT
1 TT
544056 GAACAGTCAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.16, G:0.11, T:0.58
Consensus pattern (18 bp):
TTCATATTTTCGTTATCG
Found at i:551428 original size:3 final size:3
Alignment explanation
Indices: 551339--551414 Score: 129
Period size: 3 Copynumber: 26.0 Consensus size: 3
551329 CCACTCGTTT
*
551339 TTA TTA TT- CTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
551386 TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
551415 ATAAAATATT
Statistics
Matches: 69, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 3 0.04
3 66 0.96
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:553760 original size:28 final size:27
Alignment explanation
Indices: 553728--553781 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
553718 TAATTCTTTC
*
553728 TTTTCATAATTTTTATATATACTTATTA
1 TTTTCATAATATTTATATATA-TTATTA
553756 TTTTCATAATATTTATATATATTATT
1 TTTTCATAATATTTATATATATTATT
553782 TTTATTAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (27 bp):
TTTTCATAATATTTATATATATTATTA
Found at i:553787 original size:30 final size:30
Alignment explanation
Indices: 553701--553787 Score: 85
Period size: 29 Copynumber: 3.0 Consensus size: 30
553691 AAATTAAAAA
* * *
553701 TTCAT-ATATTTA-ATTTATAATTCTTTCTT
1 TTCATAATATTTATATATATTATT-TTTATT
*
553730 TTCATAAT-TTT-TATATA-TACTTATTATT
1 TTCATAATATTTATATATATTA-TTTTTATT
553758 TTCATAATATTTATATATATTATTTTTATT
1 TTCATAATATTTATATATATTATTTTTATT
553788 AATGTTTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 13 0.28
29 17 0.36
30 15 0.32
31 2 0.04
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (30 bp):
TTCATAATATTTATATATATTATTTTTATT
Found at i:555424 original size:27 final size:28
Alignment explanation
Indices: 555369--555434 Score: 91
Period size: 27 Copynumber: 2.4 Consensus size: 28
555359 GCATTGTTGT
*
555369 ATTTGCATTTGCATCTTTTCATTTTTAC
1 ATTTGCATTTGAATCTTTTCATTTTTAC
*
555397 ATTTGAATTTGAAT-TTTT-ATTTTCTAC
1 ATTTGCATTTGAATCTTTTCATTTT-TAC
555424 ATTTGCATTTG
1 ATTTGCATTTG
555435 TGCATAGGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 5 0.15
27 17 0.50
28 12 0.35
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (28 bp):
ATTTGCATTTGAATCTTTTCATTTTTAC
Found at i:561802 original size:75 final size:75
Alignment explanation
Indices: 561669--561838 Score: 189
Period size: 75 Copynumber: 2.3 Consensus size: 75
561659 AACAAGAAGC
* * * * * **
561669 AAATGATGGGGCATACTGAAAGCCCATTTCAATCAGAAGTTGGAATATTAATGTATTTTGAACGT
1 AAATGATGGGGCATACTGAAAGCCCATTTCAATAAGAAGTAGGAATATTAACGCATTTTAAACCC
561734 TTGTATCAGA
66 TTGTATCAGA
* ** * *
561744 AAATGCTGGGGCATACTGAAAGCTTATTTCAATAAGAA-TCAGGAATGTTGACGCATTTTAAACC
1 AAATGATGGGGCATACTGAAAGCCCATTTCAATAAGAAGT-AGGAATATTAACGCATTTTAAACC
*
561808 CTTGTATCAGC
65 CTTGTATCAGA
* *
561819 AAATGATTGGGCATGCTGAA
1 AAATGATGGGGCATACTGAA
561839 GACCCATATC
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
74 1 0.01
75 77 0.99
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.30
Consensus pattern (75 bp):
AAATGATGGGGCATACTGAAAGCCCATTTCAATAAGAAGTAGGAATATTAACGCATTTTAAACCC
TTGTATCAGA
Found at i:563196 original size:22 final size:22
Alignment explanation
Indices: 563166--563266 Score: 132
Period size: 22 Copynumber: 4.6 Consensus size: 22
563156 ACATCTACAT
* *
563166 TCTTCAAAGATAATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
563188 TCTTTAAAGATGATAGATTCTC
1 TCTTTAAAGATGATAGATTCTC
*
563210 TCTTTAAAGATGATAGATTTTC
1 TCTTTAAAGATGATAGATTCTC
* * *
563232 TCTTCAAAGATGATATATTATC
1 TCTTTAAAGATGATAGATTCTC
563254 T-TTTCAAAGATGA
1 TCTTT-AAAGATGA
563267 AAACTTTTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
21 2 0.03
22 69 0.97
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.41
Consensus pattern (22 bp):
TCTTTAAAGATGATAGATTCTC
Found at i:563688 original size:119 final size:119
Alignment explanation
Indices: 563550--564237 Score: 827
Period size: 119 Copynumber: 5.8 Consensus size: 119
563540 CACTCAATGG
*
563550 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAATAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* ** *
563615 AATGAGAAGAACATGTTCAATATTTTGCTCGAATTCATCATTCGATGGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCATTCGATGGATCATC
* * *
563669 ATCAACTTTTCCAGGGAAAGTTCATAATGAGAAGAACTTATCTGAATAAGAAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
563734 AATGAGAAGAACTTGTTCAACCTTTTTCTCGAATTCTTCATTTGATGGATCATC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCATTCGATGGATCATC
*
563788 ATCAACTTTTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
563852 AATGAGAAGAACTTGTTCAACGTTTTGCTTGAATTCATCATTCGATGGATCAGC
66 AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCATTCGATGGATCATC
* *
563906 ATCAACTTTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAATAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * * ** *** * *
563970 AATGAGAAGAACTTATTCAACCTTTGCATGACTC-TATCACAGAAGGAGATAGACCATC
66 AATGAGAAGAACTTGTTCAACCTTT---TG-CTCGAAT-TCATCATTCGATGGATCATC
*
564028 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* *** * *
564092 AATGAGAAGAACTTGTTCAACC-TTTGCAT-G-ACTCTATCAAAGAAGGAAATAGATCAGC
66 AATGAGAAGAACTTGTTCAACCTTTTGC-TCGAATTC-ATC--A-TTCG--ATGGATCATC
* * ** * * * *
564150 ATCATCATTTCCAGA-AGTGTTCATAATTAGAAGAACTCATATGAAAAAGG-AGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
564213 AATGAGAAGAACTTGTTCAACCTTT
66 AATGAGAAGAACTTGTTCAACCTTT
564238 GCATGACTCT
Statistics
Matches: 496, Mismatches: 56, Indels: 31
0.85 0.10 0.05
Matches are distributed among these distances:
116 1 0.00
117 3 0.01
118 150 0.30
119 154 0.31
120 1 0.00
121 67 0.14
122 120 0.24
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (119 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCATTCGATGGATCATC
Found at i:563751 original size:20 final size:20
Alignment explanation
Indices: 563688--563752 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
563678 TCCAGGGAAA
563688 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* * ***
563708 -ATC-TGAATAAGAAAGAAGAA
1 GTTCAT-AATGAG-AAGAACTT
563728 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
563748 GTTCA
1 GTTCA
563753 ACCTTTTTCT
Statistics
Matches: 31, Mismatches: 10, Indels: 8
0.63 0.20 0.16
Matches are distributed among these distances:
18 1 0.03
19 7 0.23
20 15 0.48
21 7 0.23
22 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.26
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:563869 original size:20 final size:20
Alignment explanation
Indices: 563807--563870 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
563797 TTCAGAGAAA
563807 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
563827 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
563846 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
563866 GTTCA
1 GTTCA
563871 ACGTTTTGCT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:563988 original size:20 final size:20
Alignment explanation
Indices: 563926--563988 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
563916 ACAGAGAAAG
563926 TTCATAATGAGAAGAACTTA
1 TTCATAATGAGAAGAACTTA
*
563946 -TC-TGAA-GAAGAAGAA-TAA
1 TTCAT-AATG-AGAAGAACTTA
563964 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTTA
563985 TTCA
1 TTCA
563989 ACCTTTGCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
18 4 0.12
19 11 0.32
20 15 0.44
21 4 0.12
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTTA
Found at i:564109 original size:20 final size:20
Alignment explanation
Indices: 564047--564110 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
564037 TCCAGAGAAA
564047 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
* ***
564067 -ATC-TGAA-GAGGAAGAAGAA
1 GTTCAT-AATGA-GAAGAACTT
564086 GTTCATAATGAGAAGAACTT
1 GTTCATAATGAGAAGAACTT
564106 GTTCA
1 GTTCA
564111 ACCTTTGCAT
Statistics
Matches: 31, Mismatches: 8, Indels: 10
0.63 0.16 0.20
Matches are distributed among these distances:
18 3 0.10
19 10 0.32
20 15 0.48
21 3 0.10
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.25
Consensus pattern (20 bp):
GTTCATAATGAGAAGAACTT
Found at i:564315 original size:121 final size:121
Alignment explanation
Indices: 563550--564307 Score: 732
Period size: 122 Copynumber: 6.3 Consensus size: 121
563540 CACTCAATGG
* * *
563550 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAATAAGAAGTTCAT
1 ATCAACATTT-CAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGG-AGAAGAAGTTCAT
* ** * * ** *** * *
563615 AATGAGAAGAACATGTTCAATATTT---TG-CTCGAAT-TCATCATTCGATGGATCAAC
64 AATGAGAAGAACTTGTTCAACCTTTGCATGACTC-TATCACAGAAGGAGATAGATCAGC
* * * *
563669 ATCAACTTTTCCAGGGAAAGTTCATAATGAGAAGAACTTATCTGAATAAGAAAGAAGAAGTTCAT
1 ATCAACATTT-CAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAG-GAGAAGAAGTTCAT
* * *** * *
563734 AATGAGAAGAACTTGTTCAACCTTTTTC-TCGAATTCT-T--C---ATTTGATGGATCATC
64 AATGAGAAGAACTTGTTCAACC-TTTGCAT-G-ACTCTATCACAGAAGGAGATAGATCAGC
* *
563788 ATCAACTTTTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTG-AAGAGGAAGAAGAAGTTCAT
1 ATCAAC-ATTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGG-AGAAGAAGTTCAT
* * * *** *
563852 AATGAGAAGAACTTGTTCAACGTTTTGCTTGA--AT-TCATC---ATTCGATGGATCAGC
64 AATGAGAAGAACTTGTTCAAC-CTTTGCATGACTCTATCA-CAGAAGGAGATAGATCAGC
* * * *
563906 ATCAACTTTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGAAGAATAAGTTCATA
1 ATCAACATTT-CAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAGAAGAAGTTCATA
* * *
563971 ATGAGAAGAACTTATTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGACCATC
65 ATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
*
564028 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTG-AAGAGGAAGAAGAAGTTCAT
1 ATCAACATTT-CAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGG-AGAAGAAGTTCAT
* *
564092 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCAAAGAAGGAAATAGATCAGC
64 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* ** * * *
564150 ATCATCATTTCCAGA-AGTGTTCATAATTAGAAGAACTCATATGAAAAAGGAGAAGAAGTTCATA
1 ATCAACATTT-CAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAGAAGAAGTTCATA
564214 ATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
65 ATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* *
564271 ATCAGCATTTCTG-GAAGAGTTCATAATGAGAAGAACT
1 ATCAACATTTCAGAGAA-AGTTCATAATGAGAAGAACT
564308 CATATGAAGA
Statistics
Matches: 554, Mismatches: 59, Indels: 50
0.84 0.09 0.08
Matches are distributed among these distances:
115 2 0.00
117 13 0.02
118 127 0.23
119 136 0.25
120 13 0.02
121 122 0.22
122 137 0.25
123 2 0.00
125 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (121 bp):
ATCAACATTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAAAAGGAGAAGAAGTTCATAA
TGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:564327 original size:121 final size:123
Alignment explanation
Indices: 563550--564318 Score: 796
Period size: 119 Copynumber: 6.4 Consensus size: 123
563540 CACTCAATGG
* * *
563550 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAATAAGAAGTTCAT
1 ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* ** * * ** *** * *
563615 AATGAGAAGAACATGTTCAATATTT---TG-CTCGAAT-TCATCATTCGATGGATCAAC
66 AATGAGAAGAACTTGTTCAACCTTTGCATGACTC-TATCACAGAAGGAGATAGATCAGC
* * * * *
563669 ATCAACTTTTCCAGGGAAAGTTCATAATGAGAAGAACTTATCTGAATAAGAAAGAAGAAGTTCAT
1 ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * *** * *
563734 AATGAGAAGAACTTGTTCAACCTTTTTC-TCGAATTCT-T--C---ATTTGATGGATCATC
66 AATGAGAAGAACTTGTTCAACC-TTTGCAT-G-ACTCTATCACAGAAGGAGATAGATCAGC
* *
563788 ATCAACTTTTTCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * * *** *
563852 AATGAGAAGAACTTGTTCAACGTTTTGCTTGA--AT-TCATC---ATTCGATGGATCAGC
66 AATGAGAAGAACTTGTTCAAC-CTTTGCATGACTCTATCA-CAGAAGGAGATAGATCAGC
* *
563906 ATCAACTTTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAA-GAAGAATAAGTTCAT
1 ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* * *
563970 AATGAGAAGAACTTATTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGACCATC
66 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
*
564028 ATCAACATTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGGAAGAAGAAGTTCAT
1 ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
* *
564092 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCAAAGAAGGAAATAGATCAGC
66 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* * ** * * * *
564150 ATCATCATTTCCAGA-AGTGTTCATAATTAGAAGAACTCATATGAAAAAGG-AGAAGAAGTTCAT
1 ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
564213 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
66 AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
* * * *
564271 ATCAGCATTT-CTG-GAAGAGTTCATAATGAGAAGAACTCATATGAAGAA
1 ATCAACATTTACAGAGAA-AGTTCATAATGAGAAGAACTTATCTGAAGAA
564319 TGATAAGAAC
Statistics
Matches: 573, Mismatches: 55, Indels: 42
0.86 0.08 0.06
Matches are distributed among these distances:
115 2 0.00
117 9 0.02
118 136 0.24
119 141 0.25
120 9 0.02
121 132 0.23
122 140 0.24
123 2 0.00
125 2 0.00
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (123 bp):
ATCAACATTTACAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTTGCATGACTCTATCACAGAAGGAGATAGATCAGC
Found at i:564571 original size:11 final size:11
Alignment explanation
Indices: 564555--564608 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
564545 CCATTAGTTT
*
564555 TTATTATTCTA
1 TTATTATTTTA
564566 TTATTATTTTA
1 TTATTATTTTA
*
564577 TTATTATATTA
1 TTATTATTTTA
564588 TTTATTATTATTA
1 -TTATTATT-TTA
564601 TTATTATT
1 TTATTATT
564609 AATAAAAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
11 20 0.53
12 15 0.39
13 3 0.08
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:564605 original size:19 final size:19
Alignment explanation
Indices: 564554--564608 Score: 73
Period size: 16 Copynumber: 3.1 Consensus size: 19
564544 TCCATTAGTT
*
564554 TTTATTATT-CTATTATTA
1 TTTATTATTATTATTATTA
564572 -TT-TTATTATTA-TATTA
1 TTTATTATTATTATTATTA
564588 TTTATTATTATTATTATTA
1 TTTATTATTATTATTATTA
564607 TT
1 TT
564609 AATAAAAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
16 10 0.31
17 6 0.19
18 9 0.28
19 7 0.22
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTTATTATTATTATTATTA
Found at i:564626 original size:3 final size:3
Alignment explanation
Indices: 564555--564609 Score: 71
Period size: 3 Copynumber: 19.0 Consensus size: 3
564545 CCATTAGTTT
*
564555 TTA TTA TT- CTA TTA TTA TT- TTA TTA TTA -TA TTA TTTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
564598 TTA TTA TTA TTA
1 TTA TTA TTA TTA
564610 ATAAAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
2 5 0.11
3 38 0.83
4 3 0.07
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:574879 original size:15 final size:15
Alignment explanation
Indices: 574859--574969 Score: 156
Period size: 15 Copynumber: 7.6 Consensus size: 15
574849 TGCAATCAAA
574859 GAGTCAACTCGGTCT
1 GAGTCAACTCGGTCT
574874 GAGTCAACTCGGTCT
1 GAGTCAACTCGGTCT
574889 GAGTCAACTCGGTCT
1 GAGTCAACTCGGTCT
* *
574904 GAGTCAACTCAGTCC
1 GAGTCAACTCGGTCT
*
574919 GAGTCAAC-CCGTCT
1 GAGTCAACTCGGTCT
*
574933 GAGTCAAC-CCGTCT
1 GAGTCAACTCGGTCT
*
574947 GAGTCAACTC-GTCC
1 GAGTCAACTCGGTCT
574961 GAGTCAACT
1 GAGTCAACT
574970 TGTTGACTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
14 38 0.42
15 52 0.58
ACGTcount: A:0.23, C:0.31, G:0.23, T:0.23
Consensus pattern (15 bp):
GAGTCAACTCGGTCT
Found at i:579417 original size:61 final size:61
Alignment explanation
Indices: 579315--579429 Score: 151
Period size: 61 Copynumber: 1.9 Consensus size: 61
579305 GAAGATGGAT
* * * *
579315 ACGACCTTATGTATCATGTCTGGATTAGCACTAGAGTGTAAACCTAGTGTAGGTGGTGGGC
1 ACGACCTTATGTATCATATCCGGATTAGCACTAGAGCGTAAACCTAGTGCAGGTGGTGGGC
* * *
579376 ACGATCTTATGTGTCATATCCGGATTAGCACTATG-GCGTAAACTTAGTGCAGGT
1 ACGACCTTATGTATCATATCCGGATTAGCACTA-GAGCGTAAACCTAGTGCAGGT
579430 TTAGCACTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
61 45 0.98
62 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (61 bp):
ACGACCTTATGTATCATATCCGGATTAGCACTAGAGCGTAAACCTAGTGCAGGTGGTGGGC
Found at i:579616 original size:45 final size:45
Alignment explanation
Indices: 579512--579653 Score: 214
Period size: 45 Copynumber: 3.2 Consensus size: 45
579502 ACGATTTATG
* * * * *
579512 GTATAATGGTAAAATAAGCTTACGAGCGTCTGGAAT-AATGGTAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGATAA
*
579556 GTATATTGGTAAAATAATCTTACGAGCTTATGGGATAAATGATAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGATAA
*
579601 GTATATTGGTAAAATAAGCTTACGAGCTTATAGGATAAATGATAA
1 GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGATAA
579646 GTATATTG
1 GTATATTG
579654 ATAAGAAATT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
44 31 0.35
45 58 0.65
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (45 bp):
GTATATTGGTAAAATAAGCTTACGAGCTTATGGGATAAATGATAA
Found at i:583323 original size:31 final size:32
Alignment explanation
Indices: 583259--583343 Score: 102
Period size: 31 Copynumber: 2.7 Consensus size: 32
583249 AGAAAGTTCG
*
583259 GGGCCACGGGGCCTACCTAAGAACACATCTTA
1 GGGCCGCGGGGCCTACCTAAGAACACATCTTA
**
583291 GGGCCGCGGGGCCTACCTGAA-AA-TGATCTTA
1 GGGCCGCGGGGCCTACCT-AAGAACACATCTTA
* *
583322 GGGCCGCAGAGCCTACCTAAGA
1 GGGCCGCGGGGCCTACCTAAGA
583344 GTCACATTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.04
31 23 0.50
32 19 0.41
33 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.29, T:0.15
Consensus pattern (32 bp):
GGGCCGCGGGGCCTACCTAAGAACACATCTTA
Found at i:595489 original size:18 final size:18
Alignment explanation
Indices: 595462--595497 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
595452 GATATCACTG
595462 GTCGACATGTGGTAAATA
1 GTCGACATGTGGTAAATA
*
595480 GTCGATATGTGGTAAATA
1 GTCGACATGTGGTAAATA
595498 TTATTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (18 bp):
GTCGACATGTGGTAAATA
Found at i:595513 original size:8 final size:8
Alignment explanation
Indices: 595496--595565 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
595486 ATGTGGTAAA
*
595496 TATTATTT
1 TATTAATT
595504 TATTAATT
1 TATTAATT
*
595512 TACTAAATT
1 TA-TTAATT
* *
595521 TATTTATC
1 TATTAATT
595529 TATTAATT
1 TATTAATT
*
595537 TCTTTAATT
1 T-ATTAATT
*
595546 TAGTAATT
1 TATTAATT
*
595554 TTTTATATT
1 TATTA-ATT
595563 TAT
1 TAT
595566 ACTAAATTTT
Statistics
Matches: 46, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
8 27 0.59
9 19 0.41
ACGTcount: A:0.31, C:0.04, G:0.01, T:0.63
Consensus pattern (8 bp):
TATTAATT
Found at i:595554 original size:17 final size:17
Alignment explanation
Indices: 595532--595564 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
595522 ATTTATCTAT
595532 TAATTTCTTTA-ATTTAG
1 TAATTT-TTTATATTTAG
595549 TAATTTTTTATATTTA
1 TAATTTTTTATATTTA
595565 TACTAAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (17 bp):
TAATTTTTTATATTTAG
Found at i:601087 original size:15 final size:14
Alignment explanation
Indices: 601062--601093 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
601052 TTTTGTAAAA
601062 AAATTATT--TTTT
1 AAATTATTACTTTT
601074 AAATTATTACTTTT
1 AAATTATTACTTTT
601088 AAATTA
1 AAATTA
601094 AATTTGACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 8 0.44
14 10 0.56
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (14 bp):
AAATTATTACTTTT
Found at i:602519 original size:32 final size:30
Alignment explanation
Indices: 602483--602558 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 30
602473 GAGGCCATGG
602483 GGCCTACCTAAGAACACATCTCAGGGCCGCAA
1 GGCCTACCTAAGAA-ACATCTCAGGGCCG-AA
** ** *
602515 GGCCTACCCGAGAATGATCTCAGGGCCGTA
1 GGCCTACCTAAGAAACATCTCAGGGCCGAA
602545 GAGCCTACCTAAGA
1 G-GCCTACCTAAGA
602559 GTCACATTAG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
30 2 0.06
31 22 0.61
32 12 0.33
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.14
Consensus pattern (30 bp):
GGCCTACCTAAGAAACATCTCAGGGCCGAA
Found at i:609264 original size:3 final size:3
Alignment explanation
Indices: 609250--609284 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
609240 GTTTGGTAAG
609250 TCT TCAT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TC-T TCT TCT TCT TCT TCT TCT TCT TCT TCT T
609285 ATGTTGGTCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:614228 original size:13 final size:13
Alignment explanation
Indices: 614204--614236 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
614194 AATTGGATTT
614204 AAGAATAATAAATG
1 AAGAA-AATAAATG
614218 AAGAAAATAAATG
1 AAGAAAATAAATG
614231 AA-AAAA
1 AAGAAAA
614237 AAAAACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 10 0.53
14 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.15
Consensus pattern (13 bp):
AAGAAAATAAATG
Found at i:616214 original size:21 final size:21
Alignment explanation
Indices: 616190--616246 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
616180 ACAGAAACTT
616190 TTCAGTGATATATCACTTCAA
1 TTCAGTGATATATCACTTCAA
616211 TTCAGTGATATATCACTTCAA
1 TTCAGTGATATATCACTTCAA
616232 TTCAGTGATATATCA
1 TTCAGTGATATATCA
616247 GACCATTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAGTGATATATCACTTCAA
Found at i:616267 original size:143 final size:143
Alignment explanation
Indices: 616067--616345 Score: 373
Period size: 143 Copynumber: 2.0 Consensus size: 143
616057 ATAGAAACTT
* * *
616067 TTCAGTGATATATCAATTTAACTTCAAAGATATATCAGACCATTCAATGATGTTTTTGACCAATT
1 TTCAGTGATATATCAATTCAACTTCAAAGATATATCAGACCATTCAAAGATATTTTTGACCAATT
* * * *
616132 ATTTAATGAAAAATGT-CTTTTTTCTCAGATACCATTTAATGCACAATGACAGAAACTTTTCAGT
66 ATTCAATGAAAAA-GTCCTTTTCTC-CAGAGACCATTTAATGCACAATGAAAGAAACTTTTCAGT
616196 GATATATCACTTCAA
129 GATATATCACTTCAA
* ** * *
616211 TTCAGTGATATATCACTTCAA-TTCAGTGATATATCAGACCATTGAAAGATATTTTTGACCTATT
1 TTCAGTGATATATCAATTCAACTTCAAAGATATATCAGACCATTCAAAGATATTTTTGACCAATT
* * ** *
616275 CTTCAATGAAAAAGTCCTTTTCTCCATAGACTGTTTAATGCACAATGAAATAAACTTTTCAGTGA
66 ATTCAATGAAAAAGTCCTTTTCTCCAGAGACCATTTAATGCACAATGAAAGAAACTTTTCAGTGA
616340 TATATC
131 TATATC
616346 TGATAATTGA
Statistics
Matches: 117, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
142 43 0.37
143 55 0.47
144 19 0.16
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.37
Consensus pattern (143 bp):
TTCAGTGATATATCAATTCAACTTCAAAGATATATCAGACCATTCAAAGATATTTTTGACCAATT
ATTCAATGAAAAAGTCCTTTTCTCCAGAGACCATTTAATGCACAATGAAAGAAACTTTTCAGTGA
TATATCACTTCAA
Found at i:617007 original size:26 final size:25
Alignment explanation
Indices: 616971--617030 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
616961 TATTGTATTG
* *
616971 TAATGCAATGTAGTAGTTAGTGTTTC
1 TAATGCAATGTAGGAGTTAATG-TTC
* *
616997 TAATGTAATGTAGGATTTAATGTTC
1 TAATGCAATGTAGGAGTTAATGTTC
617022 TAATGCAAT
1 TAATGCAAT
617031 TTTTGTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 11 0.38
26 18 0.62
ACGTcount: A:0.32, C:0.07, G:0.20, T:0.42
Consensus pattern (25 bp):
TAATGCAATGTAGGAGTTAATGTTC
Found at i:620945 original size:29 final size:28
Alignment explanation
Indices: 620896--621076 Score: 157
Period size: 29 Copynumber: 6.3 Consensus size: 28
620886 ACTGATGCAT
*
620896 TCCTAATTCTACATGCGATTAAATCCCCA
1 TCCTGATTCTACATG-GATTAAATCCCCA
* * *
620925 CCCTGATTCTACGTGGTATTAAATCCCCG
1 TCCTGATTCTACATGG-ATTAAATCCCCA
*
620954 TCCTGATTCTGCATGAGATTAAAT-CCCA
1 TCCTGATTCTACATG-GATTAAATCCCCA
* * * *
620982 TCTTGATTCAACATGGGATTAAATCTCCG
1 TCCTGATTCTACAT-GGATTAAATCCCCA
* * * *
621011 TCCTGATTTTGCAAGGGATTAAATCCTCA
1 TCCTGATTCTAC-ATGGATTAAATCCCCA
* * *
621040 TCCTGATTCAACATGGGTTTAAATCCCCG
1 TCCTGATTCTACAT-GGATTAAATCCCCA
621069 TCCTGATT
1 TCCTGATT
621077 TTATTTAGGA
Statistics
Matches: 118, Mismatches: 28, Indels: 12
0.75 0.18 0.08
Matches are distributed among these distances:
28 24 0.20
29 92 0.78
30 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (28 bp):
TCCTGATTCTACATGGATTAAATCCCCA
Found at i:621064 original size:58 final size:57
Alignment explanation
Indices: 620912--621078 Score: 219
Period size: 58 Copynumber: 2.9 Consensus size: 57
620902 TTCTACATGC
* * * * *
620912 GATTAAATCCCCACCCTGATTCTACGT-GGTATTAAATCCCCGTCCTGATTCTGCATGA
1 GATTAAAT-CCCATCCTGATTCAACATGGGT-TTAAATCCCCGTCCTGATTTTGCAAGA
* * * *
620970 GATTAAATCCCATCTTGATTCAACATGGGATTAAATCTCCGTCCTGATTTTGCAAGG
1 GATTAAATCCCATCCTGATTCAACATGGGTTTAAATCCCCGTCCTGATTTTGCAAGA
621027 GATTAAATCCTCATCCTGATTCAACATGGGTTTAAATCCCCGTCCTGATTTT
1 GATTAAATCC-CATCCTGATTCAACATGGGTTTAAATCCCCGTCCTGATTTT
621079 ATTTAGGATC
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
57 47 0.49
58 48 0.51
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.34
Consensus pattern (57 bp):
GATTAAATCCCATCCTGATTCAACATGGGTTTAAATCCCCGTCCTGATTTTGCAAGA
Found at i:630574 original size:22 final size:23
Alignment explanation
Indices: 630548--630591 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
630538 TAGTATTGTG
630548 TTGTAA-ATATTTTATTCTACAT
1 TTGTAACATATTTTATTCTACAT
*
630570 TTGTAATCATATTTTTTTCTAC
1 TTGTAA-CATATTTTATTCTAC
630592 TTTATTTCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
24 13 0.68
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (23 bp):
TTGTAACATATTTTATTCTACAT
Found at i:634002 original size:2 final size:2
Alignment explanation
Indices: 633993--634051 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
633983 AAAAGGAAAT
633993 TA TA -A 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
634034 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
634052 CACACACAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 55 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:635229 original size:22 final size:22
Alignment explanation
Indices: 635188--635229 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
635178 TCTCCTTTGA
* *
635188 TGTTGTTTCTCTCGAAACAAAG
1 TGTTGTTTCGCTAGAAACAAAG
*
635210 TGTTGTTTCGCTAGAGACAA
1 TGTTGTTTCGCTAGAAACAA
635230 TTTTTCTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (22 bp):
TGTTGTTTCGCTAGAAACAAAG
Found at i:635245 original size:39 final size:39
Alignment explanation
Indices: 635202--635279 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
635192 GTTTCTCTCG
**
635202 AAACAAAGTGTTGTTTCGCTAGAGACAAT-TTTTCTAAAA
1 AAACAAA-TGTTGCCTCGCTAGAGACAATCTTTTCTAAAA
* * *
635241 AAACAAATTTTGCCTCGCTTGAGACAGTCTTTTCTAAAA
1 AAACAAATGTTGCCTCGCTAGAGACAATCTTTTCTAAAA
635280 CAAAATTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
38 16 0.48
39 17 0.52
ACGTcount: A:0.36, C:0.17, G:0.14, T:0.33
Consensus pattern (39 bp):
AAACAAATGTTGCCTCGCTAGAGACAATCTTTTCTAAAA
Found at i:635295 original size:37 final size:37
Alignment explanation
Indices: 635217--635339 Score: 126
Period size: 37 Copynumber: 3.3 Consensus size: 37
635207 AAGTGTTGTT
* * * *
635217 TCGCTAGAGACAATTTTTCTAAAAAAACAAATTTTGCC
1 TCGCTTGAGACAATTTTTCTAAAAACA-AAATTTCGTC
*
635255 TCGCTTGAGACAGTCTTTTCT-AAAACAAAATTTCGTC
1 TCGCTTGAGACAAT-TTTTCTAAAAACAAAATTTCGTC
* * *
635292 TCGCTTGAGACAATTTCTCTCAAAACAAAA-TTCATC
1 TCGCTTGAGACAATTTTTCTAAAAACAAAATTTCGTC
635328 -CAGCTTGAGACA
1 TC-GCTTGAGACA
635340 TTCTCCCAAA
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
35 1 0.01
36 20 0.27
37 30 0.41
38 17 0.23
39 6 0.08
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (37 bp):
TCGCTTGAGACAATTTTTCTAAAAACAAAATTTCGTC
Found at i:635350 original size:34 final size:37
Alignment explanation
Indices: 635254--635350 Score: 96
Period size: 37 Copynumber: 2.7 Consensus size: 37
635244 CAAATTTTGC
* * * *
635254 CTCGCTTGAGACAGTCTT-TTCTAAAACAAAATTTCGT
1 CTCGCTTGAGACAAT-TTCTCCCAAAACAAAATTTCAT
*
635291 CTCGCTTGAGACAATTTCTCTCAAAACAAAA-TTCAT
1 CTCGCTTGAGACAATTTCTCCCAAAACAAAATTTCAT
635327 C-CAGCTTGAGAC-A-TTCTCCCAAAA
1 CTC-GCTTGAGACAATTTCTCCCAAAA
635351 TTTTTGAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
34 10 0.19
35 2 0.04
36 16 0.31
37 24 0.46
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (37 bp):
CTCGCTTGAGACAATTTCTCCCAAAACAAAATTTCAT
Found at i:635962 original size:180 final size:179
Alignment explanation
Indices: 635660--636107 Score: 442
Period size: 180 Copynumber: 2.5 Consensus size: 179
635650 AAATTGAAGG
* * * * * * * * * *
635660 CATATAGTGACAACTTTTGTAACCAAAAGTTTTAGTAACTATGATAGAAAAAATTGTCCCAACAA
1 CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAATTGTCACAACAA
* * * *** * *
635725 ATAATGAGATT-TAGATTTATTGTGACAAATTTTGTTTGTAATTATGTATTTTAATTATATTGAC
66 ATAATGAGATTCAAG-TTT-TTGTAAAAAACAATGTTTGTAATTATATATTTTAATTATAGTGAC
*
635789 AAAATGTATAGTCACAAATGATTAT-CTCCA-A-TTTTT-G-GTACAGAACAAAAT
129 AAAATATATAGTCACAAA-GATT-TCCTCCATATTTTTTCGCG-ACA-AA-AAAAT
** * * *
635840 CATATAGTGACATGTTTTGTAACTATAAG-GTATAATTATTGTTTCAAAAAAAATTGTCACAACA
1 CATATAGTGACAAATTTTGTAACTATAAGTGT-TAATAATTATTACAAAAAAAATTGTCACAACA
* *
635904 AATAATGAGATTCAAGTTTTTAGTAAAAAACAATGTTTGTCATTATATGTTTTAATTATAGTGAC
65 AATAATGAGATTCAAGTTTTT-GTAAAAAACAATGTTTGTAATTATATATTTTAATTATAGTGAC
* * *
635969 AAAATATATTGTCACAAAGATTTCCCTCCATATTTTTTCGCGCCAAAAAAGT
129 AAAATATATAGTCACAAAGATTT-CCTCCATATTTTTTCGCGACAAAAAAAT
* * *
636021 CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAGACATTGTCACAAAAA
1 CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAATTGTCACAACAA
* * *
636086 ATACTGATATTCACGTTTTTGT
66 ATAATGAGATTCAAGTTTTTGT
636108 GACAAATTAT
Statistics
Matches: 219, Mismatches: 39, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
178 1 0.00
179 7 0.03
180 120 0.55
181 78 0.36
182 9 0.04
183 3 0.01
184 1 0.00
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (179 bp):
CATATAGTGACAAATTTTGTAACTATAAGTGTTAATAATTATTACAAAAAAAATTGTCACAACAA
ATAATGAGATTCAAGTTTTTGTAAAAAACAATGTTTGTAATTATATATTTTAATTATAGTGACAA
AATATATAGTCACAAAGATTTCCTCCATATTTTTTCGCGACAAAAAAAT
Found at i:642167 original size:22 final size:22
Alignment explanation
Indices: 642140--642182 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
642130 TAAAATATAT
*
642140 TTTTAGTTATCATAACCAATTA
1 TTTTAGTTATCATAACAAATTA
*
642162 TTTTAGTTATGATAACAAATT
1 TTTTAGTTATCATAACAAATT
642183 TAAATAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
TTTTAGTTATCATAACAAATTA
Found at i:642432 original size:22 final size:22
Alignment explanation
Indices: 642406--642462 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
642396 ATAATCAATT
*
642406 ATAACAAATTTATTTAGTCACA
1 ATAACAAATTTATTTAGTCAAA
* *
642428 ATAACATATTAAATTTAGTCAAA
1 ATAACAAATT-TATTTAGTCAAA
642451 ATAA-AAATTTAT
1 ATAACAAATTTAT
642463 GTTAAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.07
22 13 0.45
23 14 0.48
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.37
Consensus pattern (22 bp):
ATAACAAATTTATTTAGTCAAA
Found at i:642531 original size:199 final size:197
Alignment explanation
Indices: 642267--643026 Score: 979
Period size: 199 Copynumber: 3.8 Consensus size: 197
642257 TTAAAATAAA
** * * * ** * * *
642267 AAATTTATTTATTCAAAATATTTTATCAAAATAACAAATTATGACAAATTTAAATAGTTATAATA
1 AAATTTATTTCGTCACAATATTTTTTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATA
* * * * * *
642332 ATAAATTATAATAAATATTAATTTCTCACTATAAAAAGTTATGACAAATAATTTTTTTTTCACAA
66 ACAATTTATAACAAATATTAATTTCTCA-TATAAAAAATTATGACAAATAA-TATTCTTTCACAA
* *
642397 TAATC-AATTATAACAAATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAATTT
129 TAA-CAAATTGTAACAAAATTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAATTT
642461 ATGTT
193 ATGTT
* * * * * *
642466 AAATTTATTTCGTCACAATATTTTCTCAAAATAACAACTTTTGACAAATTTATTTAGTCATAATA
1 AAATTTATTTCGTCACAATATTTTTTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATA
* * *
642531 ACAATTTATAACAAATATTAA-TTCTTCAATATAAAAAATTATGAAAAATAATGTTCTTTCACGA
66 ACAATTTATAACAAATATTAATTTC-TC-ATATAAAAAATTATGACAAATAATATTCTTTCACAA
* * * *
642595 TAACAAATTGTAACAAATTTATTTAGTTACAATAACATAGTAAATTTAGTCAAAATAATAATTTA
129 TAACAAATTGTAACAAAATTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAATTTA
642660 TGTT
194 TGTT
* * * *
642664 AAATTTATTTTGTTACAATATTTTTTCAAAATAAAAAAAATATGAAAAATTTATTTAATCAAAAT
1 AAATTTATTTCGTCACAATATTTTTTCAAAAT-AAAAAATTATGACAAATTTATTTAATCAAAAT
* *
642729 AATC-ATTTGTAACAAATATTAATTTCTCATCATAAAAAATTGTGACAAATAATATTCTTTCACA
65 AA-CAATTTATAACAAATATTAATTTCTCAT-ATAAAAAATTATGACAAATAATATTCTTTCACA
* * * * *
642793 ATAACAAATTGTAACAAAATGATTTAGTCACAAAAACACATTAAATTTAGTCAAAGTAAAAAGTT
128 ATAACAAATTGTAACAAAATTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAATTT
* *
642858 CTGTC
193 ATGTT
* *
642863 AAATTTATTTCGTC-CTAATATTTTTTCAAAATAAAAAATTGTTACAAATTTATTTAATCAAAAT
1 AAATTTATTTCGTCAC-AATATTTTTTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAAT
*
642927 AACAATTTATAACAAATATTAATTTCTCATTATAAAAAATTGTGACAAATAATATTCTTTCACAA
65 AACAATTTATAACAAATATTAATTTCTCA-TATAAAAAATTATGACAAATAATATTCTTTCACAA
642992 TAACAAATTGTAACAAAATTATTTAGTCACAATAA
129 TAACAAATTGTAACAAAATTATTTAGTCACAATAA
643027 AAAGTTAAAA
Statistics
Matches: 495, Mismatches: 56, Indels: 21
0.87 0.10 0.04
Matches are distributed among these distances:
197 2 0.00
198 229 0.46
199 259 0.52
200 5 0.01
ACGTcount: A:0.47, C:0.10, G:0.05, T:0.38
Consensus pattern (197 bp):
AAATTTATTTCGTCACAATATTTTTTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATA
ACAATTTATAACAAATATTAATTTCTCATATAAAAAATTATGACAAATAATATTCTTTCACAATA
ACAAATTGTAACAAAATTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAATTTATG
TT
Found at i:643038 original size:29 final size:32
Alignment explanation
Indices: 642986--643047 Score: 85
Period size: 29 Copynumber: 2.0 Consensus size: 32
642976 TAATATTCTT
* *
642986 TCACAATAACAAATTGTAACAAAATTATTTAG
1 TCACAATAACAAAGTGTAACAAAAGTATTTAG
643018 TCACAATAA-AAAGT-TAA-AAAAGTATTTAG
1 TCACAATAACAAAGTGTAACAAAAGTATTTAG
643047 T
1 T
643048 TACTGTAGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
29 12 0.43
30 3 0.11
31 4 0.14
32 9 0.32
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (32 bp):
TCACAATAACAAAGTGTAACAAAAGTATTTAG
Found at i:643236 original size:37 final size:35
Alignment explanation
Indices: 643182--643539 Score: 224
Period size: 37 Copynumber: 10.5 Consensus size: 35
643172 CGATTTTCGA
* * *
643182 AAATTTATATATTATATAGTTTTTGAAAACATTTTT
1 AAATATATATAATATATAG-TTTTAAAAACATTTTT
*
643218 AATATATATATAATATATAGTTTTGAAAACA---TT
1 AA-ATATATATAATATATAGTTTTAAAAACATTTTT
*
643251 ---TATATAT--TATATAG-TTT-AAAACAATTTTG
1 AAATATATATAATATATAGTTTTAAAAAC-ATTTTT
* *
643280 AAA-ACTTATATAATATATAGTTTTTTAAAACATTTTA
1 AAATA--TATATAATATATAG-TTTTAAAAACATTTTT
* *
643317 AAGAAATTATATAATATATAGTTTTAAAAACTTTTTT
1 AA-ATA-TATATAATATATAGTTTTAAAAACATTTTT
*
643354 GAAAAATTATATAATATATAGTTTTAAAAACATTTTT
1 -AAATA-TATATAATATATAGTTTTAAAAACATTTTT
* * *
643391 GAAAT-TATATAAT-GATAGTTTTAAAAATACTTTTC
1 -AAATATATATAATATATAGTTTTAAAAACA-TTTTT
* * * *
643426 AAAAATTTAT-ATA-ATA-TTTTTAAAACATTTTG
1 AAATATATATAATATATAGTTTTAAAAACATTTTT
* *
643458 AAA-ACTATATAATGTATAGTTTTGAAAAC-TTCTTT
1 AAATA-TATATAATATATAGTTTTAAAAACATT-TTT
* *
643493 AAA-A-ATAT-A-ATAT-GGTTTAAAAATATTTTT
1 AAATATATATAATATATAGTTTTAAAAACATTTTT
*
643523 AAA-ATATATATTATATA
1 AAATATATATAATATATA
643540 ATTTATACTA
Statistics
Matches: 265, Mismatches: 26, Indels: 64
0.75 0.07 0.18
Matches are distributed among these distances:
25 5 0.02
26 4 0.02
27 7 0.03
29 8 0.03
30 15 0.06
31 11 0.04
32 12 0.05
33 26 0.10
34 27 0.10
35 38 0.14
36 13 0.05
37 75 0.28
38 23 0.09
39 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.45
Consensus pattern (35 bp):
AAATATATATAATATATAGTTTTAAAAACATTTTT
Found at i:643252 original size:64 final size:63
Alignment explanation
Indices: 643184--643314 Score: 178
Period size: 62 Copynumber: 2.1 Consensus size: 63
643174 ATTTTCGAAA
* *
643184 ATTTATATATTATATAGTTTTTGAAAAC-ATTTTTAATA-TATATATAATATATAG-TTTTGAAA
1 ATTTATATATTATATAG--TTT-AAAACAATTTTGAAAACT-TATATAATATATAGTTTTTGAAA
643246 AC
62 AC
*
643248 ATTTATATATTATATAGTTTAAAACAATTTTGAAAACTTATATAATATATAGTTTTTTAAAAC
1 ATTTATATATTATATAGTTTAAAACAATTTTGAAAACTTATATAATATATAGTTTTTGAAAAC
643311 ATTT
1 ATTT
643315 TAAAGAAATT
Statistics
Matches: 61, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
61 5 0.08
62 25 0.41
63 14 0.23
64 17 0.28
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.48
Consensus pattern (63 bp):
ATTTATATATTATATAGTTTAAAACAATTTTGAAAACTTATATAATATATAGTTTTTGAAAAC
Found at i:644396 original size:19 final size:19
Alignment explanation
Indices: 644368--644410 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
644358 GAGCGGCGGT
644368 CCGGCCGGTGGAGGAGTCA
1 CCGGCCGGTGGAGGAGTCA
*
644387 CCGGCTGGTGGAGGAGTCA
1 CCGGCCGGTGGAGGAGTCA
*
644406 TCGGC
1 CCGGC
644411 GCTGGACGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.14, C:0.26, G:0.47, T:0.14
Consensus pattern (19 bp):
CCGGCCGGTGGAGGAGTCA
Found at i:644987 original size:9 final size:9
Alignment explanation
Indices: 644957--644990 Score: 50
Period size: 10 Copynumber: 3.6 Consensus size: 9
644947 TTTTTCTCTC
644957 TTTTTAATT
1 TTTTTAATT
644966 TTATTTAATT
1 TT-TTTAATT
644976 TTTTTAACTT
1 TTTTTAA-TT
644986 TTTTT
1 TTTTT
644991 TCTTTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.30
10 16 0.70
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:650408 original size:84 final size:84
Alignment explanation
Indices: 650307--650975 Score: 601
Period size: 84 Copynumber: 8.0 Consensus size: 84
650297 TCAGTCAGTC
*
650307 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
650372 CAGGGTTATCTGCCAACCA
66 AAGGGTTATCTGCCAACCA
* * *
650391 AAGACCTTCGAGTTCGACTACACTAAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
650456 AAGGGCTATCTGCCAA--A
66 AAGGGTTATCTGCCAACCA
* * * * ** * * * * *
650473 GA-ACC-TCGAGTTCGATTACACCCAGCTTTGAGGGCACATCATTTACAGTATAACTCAAAG-CT
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACT-TAAGTCG
***
650535 AGAAGGGTTATCT-ATTACCAA
64 AGAAGGGTTATCTGCCAACC-A
* * *
650556 AAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCATATCATTTGCAGTATAACTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
*
650621 AAGGGTTATCTGCCAACTA
66 AAGGGTTATCTGCCAACCA
* * * *
650640 AAGACCTTCGAGTTCGAATAAGCTCAGCTCCAAGGCACATCATTTGCAGAATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
* * ** **
650705 CTTAAGTCGAG-AAGGGCTATCTTCCA
66 ---AAG--G-GTTA--TCTGCCAACCA
* * * * * * * * * *
650731 AAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACGTCATTTACAGCATAACTCAAGGCTA
1 AAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* **
650796 GAAGAGTTATCTGTTAA-CA
65 GAAGGGTTATCTGCCAACCA
* * * *
650815 AAGACCTGT-GAGTTCTACTAAGCTCAGCTCCAAGGCACATCATTTACAGCATAGCTTAAGTCGA
1 AAGACCT-TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
* *
650879 GAAGGGCTATTTG----CCA
65 GAAGGGTTATCTGCCAACCA
* * *
650895 AAGACCTGT-GAGTTTGACTACGCTCATCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCT-TCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGA
*
650959 GAAGGGCTATCTGCCAA
65 GAAGGGTTATCTGCCAA
650976 ATACATTCGA
Statistics
Matches: 468, Mismatches: 92, Indels: 50
0.77 0.15 0.08
Matches are distributed among these distances:
80 92 0.20
81 38 0.08
82 5 0.01
83 44 0.09
84 198 0.42
85 23 0.05
86 1 0.00
87 4 0.01
89 5 0.01
90 1 0.00
91 29 0.06
92 28 0.06
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (84 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAG
AAGGGTTATCTGCCAACCA
Found at i:650820 original size:175 final size:175
Alignment explanation
Indices: 650555--650975 Score: 440
Period size: 175 Copynumber: 2.5 Consensus size: 175
650545 TCTATTACCA
* * * * * * * *
650555 AAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCATATCATTTGCAGTATAACTTAAGTCGA
1 AAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
*
650620 GAAGGGTTATCTGCCAACTAAAGACCT-TCGAGTTCGAATAAGCTCAGCTCCAAGGCACATCATT
66 GAAGAGTTATCTGCCAACTAAAGACCTGT-GAGTTCGAATAAGCTCAGCTCCAAGGCACATCATT
*
650684 TGCAGAATAGCTTAAGTCGAGCTTAAGTCGAGAAGGGCTATCTTCC
130 TACAGAATAGCTTAAGTCGAGCTTAAGTCGAGAAGGGCTATCTTCC
* * * * *
650730 AAAGACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACGTCATTTACAGCATAACTCAAGGCT
1 AAAGACCCTCGAGTTCGACTACACTCAGC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCG
** * *
650795 AGAAGAGTTATCTGTTAAC-AAAGACCTGTGAGTTCTACTAAGCTCAGCTCCAAGGCACATCATT
65 AGAAGAGTTATCTGCCAACTAAAGACCTGTGAGTTCGAATAAGCTCAGCTCCAAGGCACATCATT
650859 TAC-----AGC---A-T--AGCTTAAGTCGAGAAGGGCTAT-TTGCC
130 TACAGAATAGCTTAAGTCGAGCTTAAGTCGAGAAGGGCTATCTT-CC
* * * * * * * *
650894 AAAGA-CCTGTGAGTTTGACTACGCTCATCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
1 AAAGACCCT-CGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCG
* *
650958 AGAAGGGCTATCTGCCAA
65 AGAAGAGTTATCTGCCAA
650976 ATACATTCGA
Statistics
Matches: 206, Mismatches: 36, Indels: 20
0.79 0.14 0.08
Matches are distributed among these distances:
163 46 0.22
164 44 0.21
166 1 0.00
167 1 0.00
170 3 0.01
175 68 0.33
176 43 0.21
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (175 bp):
AAAGACCCTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTACAGCATAACTCAAGGCGA
GAAGAGTTATCTGCCAACTAAAGACCTGTGAGTTCGAATAAGCTCAGCTCCAAGGCACATCATTT
ACAGAATAGCTTAAGTCGAGCTTAAGTCGAGAAGGGCTATCTTCC
Found at i:651011 original size:80 final size:80
Alignment explanation
Indices: 650703--651004 Score: 313
Period size: 80 Copynumber: 3.7 Consensus size: 80
650693 GCTTAAGTCG
* * * * *
650703 AGCTTAAGTCGAGAAGGGCTATCTTCCAAAGACCCT-CGAGTTCGATTACACTCAGCTTCGAGGG
1 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCTGTGAGTTCGACTACACTCAGC-TCCAAGG
*
650767 CACGTCATTTACAGCAT
64 CACATCATTTACAGCAT
* * * * * * * *
650784 AACTCAAGGCTAGAAGAGTTATCTGTTAACAAAGACCTGTGAGTTCTACTA-AGCTCAGCTCCAA
1 AGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTGTGAGTTCGACTACA-CTCAGCTCCAA
650848 GGCACATCATTTACAGCAT
62 GGCACATCATTTACAGCAT
* * * *
650867 AGCTTAAGTCGAGAAGGGCTATTTGCCAAAGACCTGTGAGTTTGACTACGCTCATCTCCAAGGCA
1 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTGTGAGTTCGACTACACTCAGCTCCAAGGCA
*
650932 CATCATTTGCAGCAT
66 CATCATTTACAGCAT
* * * *
650947 AGCTTAAGTCGAGAAGGGCTATCTGCCAAATACAT-TCGAGTTCGATTGCACTCAGCTC
1 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTGT-GAGTTCGACTACACTCAGCTC
651005 AGAGGCAAAC
Statistics
Matches: 179, Mismatches: 35, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
79 1 0.01
80 96 0.54
81 18 0.10
83 43 0.24
84 21 0.12
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.25
Consensus pattern (80 bp):
AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTGTGAGTTCGACTACACTCAGCTCCAAGGCA
CATCATTTACAGCAT
Found at i:651956 original size:3 final size:3
Alignment explanation
Indices: 651950--651998 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
651940 AATAATAATA
* *
651950 ATT ATT ATT ATT ATT ATT ACT ATT ACT ATT ATT ATT ATT ACTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT
651996 ATT
1 ATT
651999 GTTAATAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:657351 original size:95 final size:95
Alignment explanation
Indices: 657175--657434 Score: 351
Period size: 95 Copynumber: 2.7 Consensus size: 95
657165 AGATTATAAT
* * * * *
657175 ATTATATATATACAATAAAGGTTGAGTTGTCCCTCTAAAACAATTGGTTAAATGTCCCGACTTTA
1 ATTATA-ATATATAATAAAGATTGAGTTGTCCCTCTAGAACAATTGGTTAAACGCCCCGACTTTA
657240 TGGATAAGATTAAGCTAGCCTGATAAAGGTG
65 TGGATAAGATTAAGCTAGCCTGATAAAGGTG
* *
657271 ATTATAATATATAATAAAGCTTGAGTTGTCCCTCTAGAACAATTGGCTAAACGCCCCGACTTTAT
1 ATTATAATATATAATAAAGATTGAGTTGTCCCTCTAGAACAATTGGTTAAACGCCCCGACTTTAT
* *
657336 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTAAGCTAGCCTGATAAAGGTG
* * * *
657366 ATTATAATATGT-ATACAATGATATTGAGATGTCCCTCTAGAGCAATTGGTTAAACGCCCCGGCT
1 ATTATAATATATAATA-AA-G--ATTGAGTTGTCCCTCTAGAACAATTGGTTAAACGCCCCGACT
657430 TTATG
62 TTATG
657435 ATCCAGCCAG
Statistics
Matches: 146, Mismatches: 14, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
94 3 0.02
95 94 0.64
96 7 0.05
98 42 0.29
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (95 bp):
ATTATAATATATAATAAAGATTGAGTTGTCCCTCTAGAACAATTGGTTAAACGCCCCGACTTTAT
GGATAAGATTAAGCTAGCCTGATAAAGGTG
Found at i:657736 original size:197 final size:197
Alignment explanation
Indices: 657401--657795 Score: 682
Period size: 197 Copynumber: 2.0 Consensus size: 197
657391 GAGATGTCCC
* * * *
657401 TCTAGAGCAATTGGTTAAACGCCCCGGCTTTATGATCCAGCCAGCCAGACAATGTAAAATTAAAT
1 TCTAGAGCAATTGGTTAAACACCCCGGCTTTATGATCCAACCAACCAGACAATGGAAAATTAAAT
*
657466 AAGGAGTTTCAGTAAAGATGGACTAAGGGAGTTAAGGAACACCTGTTATAGTCAATCTCACACGA
66 AAGGAGTTTCAGTAAAGATGGACTAAGGGAGTTAAGGAACACCTGTTATAGTCAATCTCACAAGA
* *
657531 GCACTCAGGAATTTCATTTTTAGACCGATATTTTTGCATTACCTTTGTTAGAGGAGCCTACGCAG
131 GCACTCAGGAATTTCAGTTTTAGACCGATATTTCTGCATTACCTTTGTTAGAGGAGCCTACGCAG
657596 CT
196 CT
657598 TCTAGAGCAATTGGTTAAACACCCCGGCTTTATGATCCAACCAACCAGACAATGGAAAATTAAAT
1 TCTAGAGCAATTGGTTAAACACCCCGGCTTTATGATCCAACCAACCAGACAATGGAAAATTAAAT
** * *
657663 AAGGAGTTTTGGTAAAGATGGACTAAGGGAGTTAAGGAACATCTGTTATAGTCAATCTCATAAGA
66 AAGGAGTTTCAGTAAAGATGGACTAAGGGAGTTAAGGAACACCTGTTATAGTCAATCTCACAAGA
*
657728 GCACTCAGGAATTTCAGTTTTAGACCGATATTTCTGCATTGCCTTTGTTAGAGGAGCCTACGCAG
131 GCACTCAGGAATTTCAGTTTTAGACCGATATTTCTGCATTACCTTTGTTAGAGGAGCCTACGCAG
657793 CT
196 CT
657795 T
1 T
657796 GAATAAATGG
Statistics
Matches: 186, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
197 186 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (197 bp):
TCTAGAGCAATTGGTTAAACACCCCGGCTTTATGATCCAACCAACCAGACAATGGAAAATTAAAT
AAGGAGTTTCAGTAAAGATGGACTAAGGGAGTTAAGGAACACCTGTTATAGTCAATCTCACAAGA
GCACTCAGGAATTTCAGTTTTAGACCGATATTTCTGCATTACCTTTGTTAGAGGAGCCTACGCAG
CT
Found at i:658510 original size:80 final size:80
Alignment explanation
Indices: 658375--659307 Score: 1240
Period size: 80 Copynumber: 11.7 Consensus size: 80
658365 ACCTCCAACA
* * ** *
658375 AAAGACCTTCGAGTACGATTACACTCAGCTCAAAGGCAAATCATTTATAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
658440 GAAGGTCTATCTGCC
66 GAAGGGCTATCTGCC
* * * *
658455 AAAGACATTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTACAGTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
658520 GAAGGGCTATCTGCC
66 GAAGGGCTATCTGCC
* * * *
658535 AAAGACCTTCGAGTTCAATTACACCCAGCTCAAAGGCACATTATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
658600 GAAGGGCTATCTACC
66 GAAGGGCTATCTGCC
* * ** * * *
658615 AAAGACCATGGAGTTCGATTACACTCAGCTCAAAACCATATCATTTGCAGCGTAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
658680 GAAGGGCTATCTACC
66 GAAGGGCTATCTGCC
* * * *
658695 AAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTCCAGCCTAGCTCAAGACAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
658760 GAAGGGCTATCTACC
66 GAAGGGCTATCTGCC
** * * *
658775 AAAGACCTTCGAGTTCGATTATGCTCAGCTCAAAGGAACATCATTTGCAACATAGCTCAAGGTAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
658840 AAAGGGCTATCT-AC
66 GAAGGGCTATCTGCC
* * *
658854 ATAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATATCTCAAGGCA
1 A-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
658919 AGAAGGCCTATCTGCC
65 AGAAGGGCTATCTGCC
* * * *
658935 AAAGACCTTTGAGTTAGATTACACTCAACTCAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
659000 GAAGGGCTATGTGCC
66 GAAGGGCTATCTGCC
* * * *
659015 AAAGACCTTCGAGTTCGATTACACTCATCTTAAAGGCACATTATTTGCAGCACAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
659080 GAAGGTCTATCTGCC
66 GAAGGGCTATCTGCC
* *
659095 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* ** *
659160 GAATGTATATCTTCC
66 GAAGGGCTATCTGCC
* * * *
659175 AAAGAGCTTCGAGTTCGATTACACTCAGCTCAAAGGGC-CATCACTTGCAGTATAGCTCAAGGAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GGCACATCATTTGCAGCATAGCTCAAGGCA
* * *
659239 AGAGGGGCTATATTCC
65 AGAAGGGCTATCTGCC
* * * *
659255 AAAGACCTTCGAGTTCGATTACACTTAGCTCTAATGCATATCATTTGCAGCAT
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCAT
659308 CAACTCAAAT
Statistics
Matches: 749, Mismatches: 100, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
79 4 0.01
80 740 0.99
81 5 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTATCTGCC
Found at i:658639 original size:160 final size:160
Alignment explanation
Indices: 658375--659853 Score: 1417
Period size: 160 Copynumber: 9.0 Consensus size: 160
658365 ACCTCCAACA
* * ** *
658375 AAAGACCTTCGAGTACGATTACACTCAGCTCAAAGGCAAATCATTTATAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * *
658440 GAAGGTCTATCTGCCAAAGACATTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTACAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCAG
*
658505 TATAGCTCAAGGCAAGAAGGGCTATCTGCC
131 CATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * * *
658535 AAAGACCTTCGAGTTCAATTACACCCAGCTCAAAGGCACATTATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * *
658600 GAAGGGCTATCTACCAAAGACCATGGAGTTCGATTACACTCAGCTCAAA-ACCATATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGA-CACATCATTTGCA
* * *
658664 GCGTAACTCAAGGCAAGAAGGGCTATCTACC
130 GCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * * *
658695 AAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTCCAGCCTAGCTCAAGACAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* **
658760 GAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTATGCTCAGCTCAAAGGA-ACATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GACACATCATTTGCA
* * * *
658824 ACATAGCTCAAGGTAAAAAGGGCTATCT-AC
130 GCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * *
658854 ATAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATATCTCAAGGCA
1 A-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* * * * *
658919 AGAAGGCCTATCTGCCAAAGACCTTTGAGTTAGATTACACTCAACTCAAAGGCACATCATTTGCA
65 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCA
* *
658984 GCGTAGCTCAAGGCAAGAAGGGCTATGTGCC
130 GCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * * *
659015 AAAGACCTTCGAGTTCGATTACACTCATCTTAAAGGCACATTATTTGCAGCACAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * *
659080 GAAGGTCTATCTGCCAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCAG
* * ** *
659145 TATAGCTCAAGGCAAGAATGTATATCTTCC
131 CATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * * *
659175 AAAGAGCTTCGAGTTCGATTACACTCAGCTCAAAGGGC-CATCACTTGCAGTATAGCTCAAGGAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GGCACATCATTTGCAGCATAGCTCAAGGCA
* * * * * *
659239 AGAGGGGCTATATTCCAAAGACCTTCGAGTTCGATTACACTTAGCTCTAATG-CATATCATTTGC
65 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTC-AAAGACACATCATTTGC
* * * * * * *
659303 AGCATCAACTCAAATGCATATCATTTGTAGCATAGCT-CA
129 AGCAT-AGCTC-AAGGCA-A-GA--AG-GGC-TATCTGCC
**** * * ** * *
659342 AGGTAAGAAGGGCTATTTGCCAAAGACCTT-CGGGTTCAATTACACTCAGCTTAAAGGCACATAA
1 A---AAGACCTTCGAGTT--C---GA--TTAC--ACTC-A---------GCTCAAAGGCACATCA
* * *
659406 TTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAG
44 TTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAG
* * * * * *
659471 CTCAAAGGCACGTCATTTGTAGCATAGCTCAAGCCAAGAAGGGCTATTTTCTAACA
109 CTCAAAGACACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTA---TCT-GCC
* * * * *
659527 AAAGACCTTCGAGTTTGATTACACTCAGCTCAATGGCAAATCATTTGTAGCATAGTTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
659592 GAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGAGA-ATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA-GACACATCATTTGCA
* * * * *
659656 GTATAGTTCAAGGCAAGAAGGGTTAACTGTCAAAA
130 GCATAGCTCAAGGCAAGAAGGGCTATCTG-C---C
* ** * * *
659691 AAAGAACTTCGAGTTCGATTACACAAAGCTTAAAGGCATATCATTTGCAGAATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
659756 GAAGGGCTATCTGCCAACAAAAGATCTTTGAGTTCGATTACACTCAGCTCAAAGACACATCAAAT
66 GAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC--AT
* * * * * *
659821 TTACAACATAACTCAAGGCGAGAGGGGTTATCT
125 TTGCAGCATAGCTCAAGGCAAGAAGGGCTATCT
659854 ATCAATAAAG
Statistics
Matches: 1079, Mismatches: 182, Indels: 106
0.79 0.13 0.08
Matches are distributed among these distances:
159 4 0.00
160 657 0.61
161 15 0.01
162 6 0.01
163 1 0.00
164 179 0.17
165 3 0.00
167 6 0.01
168 39 0.04
170 35 0.03
172 1 0.00
173 1 0.00
174 2 0.00
175 4 0.00
176 2 0.00
177 4 0.00
178 2 0.00
179 1 0.00
180 2 0.00
181 2 0.00
182 9 0.01
183 2 0.00
184 1 0.00
185 4 0.00
186 4 0.00
187 10 0.01
188 83 0.08
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (160 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCAG
CATAGCTCAAGGCAAGAAGGGCTATCTGCC
Found at i:658806 original size:240 final size:240
Alignment explanation
Indices: 658375--659854 Score: 1460
Period size: 240 Copynumber: 6.0 Consensus size: 240
658365 ACCTCCAACA
* * ** *
658375 AAAGACCTTCGAGTACGATTACACTCAGCTCAAAGGCAAATCATTTATAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * * *
658440 GAAGGTCTATCTGCCAAAGACATTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTACAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAG
* * * *
658505 TATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCAATTACACCCAGCTCAAAG
131 CATAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
*
658570 GCACATTATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACC
196 GCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACC
* * ** * * *
658615 AAAGACCATGGAGTTCGATTACACTCAGCTCAAAACCATATCATTTGCAGCGTAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
658680 GAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTCCAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAG
* * **
658745 CCTAGCTCAAGACAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTATGCTCAGCTCAAAG
131 CATAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* * * * *
658810 GAACATCATTTGCAACATAGCTCAAGGTAAAAAGGGCTATCTA-C
196 GCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACC
* * *
658854 ATAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATATCTCAAGGCA
1 A-AAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* * *
658919 AGAAGGCCTATCTGCCAAAGACCTTTGAGTTAGATTACACTCAACTCAAAGGCACATCATTTGCA
65 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCA
* * * * *
658984 GCGTAGCTCAAGGCAAGAAGGGCTATGTGCCAAAGACCTTCGAGTTCGATTACACTCATCTTAAA
130 GCATAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
* * * * *
659049 GGCACATTATTTGCAGCACAGCTCAAGGCAAGAAGGTCTATCTGCC
195 GGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACC
* *
659095 AAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGCAGTATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* ** * * * *
659160 GAATGTATATCTTCCAAAGAGCTTCGAGTTCGATTACACTCAGCTCAAAGGGC-CATCACTTGCA
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAA-GGCACATCATTTGCA
* * * * * * *
659224 GTATAGCTCAAGGAAAGAGGGGCTATATTCCAAAGACCTTCGAGTTCGATTACACTTAGCTCTAA
130 GCATAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
* * * * * * * *
659289 TGCATATCATTTGCAGCATCAACTCAAATGCATATCATTTGTAGCATAGCT-CA
195 GGCACATCATTTGCAGCAT-AACTC-AAGGCA-A-GA--AG-GGC-TATCTACC
* * * * *
659342 AGGTAAGAAGGGCTATTTGCCAAAGACCTTCGGGTT-CAATTACACTCAGCTTAAAGGCACATAA
1 A---AAG-A---C--CTT--C---GA-GTTC-GATTAC-A-----CTCAGCTCAAAGGCACATCA
* * * *
659406 TTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAG
44 TTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAA
* * * *
659471 CTCAAAGGCACGTCATTTGTAGCATAGCTCAAGCCAAGAAGGGCTATTTTCTAACAAAAGACCTT
109 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTA---TCT-ACCAAAGACCTT
* * * * ** *
659536 CGAGTTTGATTACACTCAGCTCAATGGCAAATCATTTGTAGCATAGTTCAAGGCAAGAAGGGTTA
170 CGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTA
*
659601 TCTGCC
235 TCTACC
* * *
659607 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGG-AGAATCATTTGCAGTATAGTTCAAGGCA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA-CATCATTTGCAGCATAGCTCAAGGCA
* * * * * * *
659671 AGAAGGGTTAACTGTCAAAAAAAGAACTTCGAGTTCGATTACAC-AAAGCTTAAAGGCATATCAT
65 AGAAGGGCTATCTG-C---CAAAGACCTTCGAGTTCGATTACACTCAA-CTCAAAGGCACATCAT
* * * *
659735 TTGCAGAATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGATCTTTGAGTTCGATTACACT
125 TTGCAGCATAGCTCAAGGCAAGAAGGGCTATCT----ACCAAAGACCTTCGAGTTCGATTACACT
* * * * * *
659800 CAGCTCAAAGACACATCAAATTTACAACATAACTCAAGGCGAGAGGGGTTATCTA
186 CAGCTCAAAGGCACATC--ATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTA
659855 TCAATAAAGA
Statistics
Matches: 1020, Mismatches: 169, Indels: 92
0.80 0.13 0.07
Matches are distributed among these distances:
239 2 0.00
240 596 0.58
241 9 0.01
242 5 0.00
243 2 0.00
244 47 0.05
245 4 0.00
246 1 0.00
247 4 0.00
248 107 0.10
249 4 0.00
250 35 0.03
251 3 0.00
254 2 0.00
256 4 0.00
258 2 0.00
261 3 0.00
262 6 0.01
263 4 0.00
264 4 0.00
265 3 0.00
266 1 0.00
267 3 0.00
268 111 0.11
269 1 0.00
270 5 0.00
271 5 0.00
272 47 0.05
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (240 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAG
CATAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
GCACATCATTTGCAGCATAACTCAAGGCAAGAAGGGCTATCTACC
Found at i:659451 original size:188 final size:188
Alignment explanation
Indices: 659123--659473 Score: 472
Period size: 188 Copynumber: 1.9 Consensus size: 188
659113 TTACACTCAG
* * * *
659123 CTCAAAGGCACATCATTTGCAGTATAGCTCAAGGCAAGAATGTATATCTTCCAAAGAGCTTCGAG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTTCCAAAGACCTTCGAG
* * * * *
659188 TTCGATTACACTCAGCTCAAAGGGCCATCACTTGCAGTATAGCTCAAGGAAAGAGGGGCTATATT
66 TTCAATTACACTCAGCTCAAAGGGCCATAACTTGCAGAATAGCTCAAGGAAAGAAGGGCTATATG
*
659253 CCAAAGACCTTCGAGTTCGATTACACTTAGCTCTAATGCATATCATTTGCAGCATCAA
131 CCAAAGACCTTCGAGTTCGATTACACTCAGCTCTAATGCATATCATTTGCAGCATCAA
* * * * * *
659311 CTCAAATGCATATCATTTGTAGCATAGCTCAAGGTAAGAAGGGCTAT-TTGCCAAAGACCTTCGG
1 CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTT-CCAAAGACCTTCGA
* * * * * *
659375 GTTCAATTACACTCAGCTTAAA-GGCACATAATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATC
65 GTTCAATTACACTCAGCTCAAAGGGC-CATAACTTGCAGAATAGCTCAAGGAAAGAAGGGCTATA
659439 TGCCAAAGACCTTCGAGTTCGATTACACTCAGCTC
129 TGCCAAAGACCTTCGAGTTCGATTACACTCAGCTC
659474 AAAGGCACGT
Statistics
Matches: 139, Mismatches: 22, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
187 5 0.04
188 134 0.96
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (188 bp):
CTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGATATCTTCCAAAGACCTTCGAG
TTCAATTACACTCAGCTCAAAGGGCCATAACTTGCAGAATAGCTCAAGGAAAGAAGGGCTATATG
CCAAAGACCTTCGAGTTCGATTACACTCAGCTCTAATGCATATCATTTGCAGCATCAA
Found at i:659464 original size:80 final size:80
Alignment explanation
Indices: 659311--659817 Score: 566
Period size: 80 Copynumber: 6.2 Consensus size: 80
659301 GCAGCATCAA
* * * * *
659311 CTCAAATGCATATCATTTGTAGCATAGCTCAAGGTAAGAAGGGCTATTTGCCAAAGACCTTCGGG
1 CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAG
*
659376 TTCAATTACACTCAG
66 TTCGATTACACTCAG
* * * *
659391 CTTAAAGGCACATAATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAG
1 CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAG
659456 TTCGATTACACTCAG
66 TTCGATTACACTCAG
* * * *
659471 CTCAAAGGCACGTCATTTGTAGCATAGCTCAAGCCAAGAAGGGCTATTTTCTAACAAAAGACCTT
1 CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTA---TCT-GCCAAAGACCTT
*
659536 CGAGTTTGATTACACTCAG
62 CGAGTTCGATTACACTCAG
* * * *
659555 CTCAATGGCAAATCATTTGTAGCATAGTTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAG
1 CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAG
659620 TTCGATTACACTCAG
66 TTCGATTACACTCAG
* * * * * * * *
659635 CTCAAAGG-AGAATCATTTGCAGTATAGTTCAAGGCAAGAAGGGTTAACTGTCAAAAAAAGAACT
1 CTCAAAGGCA-CATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C---CAAAGACCT
**
659699 TCGAGTTCGATTACACAAAG
61 TCGAGTTCGATTACACTCAG
* * * * *
659719 CTTAAAGGCATATCATTTGCAGAATAGCTCAAGGCAAGAAGGGCTATCTGCCAACAAAAGATCTT
1 CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--C-AAAGACCTT
*
659784 TGAGTTCGATTACACTCAG
62 CGAGTTCGATTACACTCAG
*
659803 CTCAAAGACACATCA
1 CTCAAAGGCACATCA
659818 AATTTACAAC
Statistics
Matches: 365, Mismatches: 51, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
79 1 0.00
80 182 0.50
81 4 0.01
83 5 0.01
84 172 0.47
85 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (80 bp):
CTCAAAGGCACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAG
TTCGATTACACTCAG
Found at i:659634 original size:164 final size:162
Alignment explanation
Indices: 659322--659809 Score: 624
Period size: 164 Copynumber: 3.0 Consensus size: 162
659312 TCAAATGCAT
* * * *
659322 ATCATTTGTAGCATAGCTCAAGGTAAGAAGGGCTATTTGC--C-AAAGACCTTCGGGTTCAATTA
1 ATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATTTTCAACAAAAGACCTTCGAGTTCGATTA
* *
659384 CACTCAGCTTAAAGGCACATAATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGAC
66 CACTCAGCTTAAAGGCAAATCATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGAC
659449 CTTCGAGTTCGATTACACTCAGCTCAAAGGCACG
131 CTTCGAGTTCGATTACACTCAGCTCAAAGG-A-G
* *
659483 -TCATTTGTAGCATAGCTCAAGCCAAGAAGGGCTATTTTCTAACAAAAGACCTTCGAGTTTGATT
1 ATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATTTTC-AACAAAAGACCTTCGAGTTCGATT
* * * *
659547 ACACTCAGCTCAATGGCAAATCATTTGTAGCATAGTTCAAGGCAAGAAGGGTTATCTGCCAAAGA
65 ACACTCAGCTTAAAGGCAAATCATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGA
659612 CCTTCGAGTTCGATTACACTCAGCTCAAAGGAG
130 CCTTCGAGTTCGATTACACTCAGCTCAAAGGAG
* * * * * * * *
659645 AATCATTTGCAGTATAGTTCAAGGCAAGAAGGGTTAACTGTCAAAAAAAGAACTTCGAGTTCGAT
1 -ATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCT-ATTTTCAACAAAAGACCTTCGAGTTCGAT
** * * *
659710 TACACAAAGCTTAAAGGCATATCATTTGCAGAATAGCTCAAGGCAAGAAGGGCTATCTGCCAACA
64 TACACTCAGCTTAAAGGCAAATCATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTG-C--C-
* *
659775 AAAGATCTTTGAGTTCGATTACACTCAGCTCAAAG
125 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
659810 ACACATCAAA
Statistics
Matches: 283, Mismatches: 33, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
160 36 0.13
162 1 0.00
163 2 0.01
164 205 0.72
165 5 0.02
167 1 0.00
168 33 0.12
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (162 bp):
ATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATTTTCAACAAAAGACCTTCGAGTTCGATTA
CACTCAGCTTAAAGGCAAATCATTTGTAGAATAGTTCAAGGCAAGAAGGGCTATCTGCCAAAGAC
CTTCGAGTTCGATTACACTCAGCTCAAAGGAG
Found at i:663400 original size:30 final size:30
Alignment explanation
Indices: 663364--663420 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
663354 TCTCATGCAT
*
663364 TTCATTTTCTTATTTT-TCATTGCATTTATG
1 TTCATTTT-TTATTTTGACATTGCATTTATG
*
663394 TTCATTTTTTGTTTTGACATTGCATTT
1 TTCATTTTTTATTTTGACATTGCATTT
663421 TGTCACTGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 18 0.75
ACGTcount: A:0.16, C:0.12, G:0.09, T:0.63
Consensus pattern (30 bp):
TTCATTTTTTATTTTGACATTGCATTTATG
Found at i:663403 original size:24 final size:24
Alignment explanation
Indices: 663349--663403 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 24
663339 TCTTTTTAAT
*
663349 TTTTTTCTCATGCATTTCATTTTC
1 TTTTTTCTCATGCATTTCATGTTC
663373 TTATTTT-TCATTGCATTT-ATGTTC
1 TT-TTTTCTCA-TGCATTTCATGTTC
663397 ATTTTTT
1 -TTTTTT
663404 GTTTTGACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.15, C:0.15, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTTTTCTCATGCATTTCATGTTC
Found at i:666200 original size:21 final size:20
Alignment explanation
Indices: 666158--666224 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
666148 AATATGTAAA
666158 TCGCATTGCGATTTT-ATGAAT
1 TCGCATTGCGATTTTCA--AAT
*
666179 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTT-CAAAT
**
666200 TCGCAACGCGATTTTCAAAT
1 TCGCATTGCGATTTTCAAAT
666220 TCGCA
1 TCGCA
666225 ACGCGAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 10 0.25
21 29 0.73
23 1 0.03
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTTCAAAT
Found at i:666220 original size:20 final size:20
Alignment explanation
Indices: 666186--666406 Score: 100
Period size: 20 Copynumber: 11.0 Consensus size: 20
666176 AATTCGCGTT
666186 GCGATTTTCCAAATTCGCAAC
1 GCGATTTT-CAAATTCGCAAC
666207 GCGATTTTCAAATTCGCAAC
1 GCGATTTTCAAATTCGCAAC
*
666227 GCGAATATGT-AAA-TCGCAAC
1 GCG-AT-TTTCAAATTCGCAAC
* *
666247 GCGAATCTGT-AAA-TCGTAAC
1 GCG-AT-TTTCAAATTCGCAAC
* *
666267 GTGAATCTGT-AAA-TCGCAAC
1 GCG-AT-TTTCAAATTCGCAAC
* ** *
666287 ACAGA-AGTCAAATTCGTAAC
1 GC-GATTTTCAAATTCGCAAC
* * *
666307 GCGATTTCCAAATTCGCCAT
1 GCGATTTTCAAATTCGCAAC
666327 GCGA-TTTCTAAATTCGCAAC
1 GCGATTTTC-AAATTCGCAAC
* * * ***
666347 GTGATTTACAAATTCACGTT
1 GCGATTTTCAAATTCGCAAC
*
666367 GCGATTTACAAATTCGCAAC
1 GCGATTTTCAAATTCGCAAC
* *
666387 TCGATATTT-GAATTCGCAAC
1 GCGAT-TTTCAAATTCGCAAC
666407 ACGAATTTTA
Statistics
Matches: 158, Mismatches: 33, Indels: 19
0.75 0.16 0.09
Matches are distributed among these distances:
18 2 0.01
19 8 0.05
20 127 0.80
21 19 0.12
22 2 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (20 bp):
GCGATTTTCAAATTCGCAAC
Found at i:666247 original size:40 final size:39
Alignment explanation
Indices: 666134--666286 Score: 128
Period size: 41 Copynumber: 3.8 Consensus size: 39
666124 CTCAGTTTCC
**
666134 AAATTCGCAACGCGAATATGTAAATCGCATTGCGATTTT
1 AAATTCGCAACGCGAATATGTAAATCGCAACGCGATTTT
*** * * **
666173 ATGAATTCGCGTTGCGATTTTCCAAATTCGCAACGCGATTTT
1 A--AATTCGCAACGCGAATATGTAAA-TCGCAACGCGATTTT
*
666215 CAAATTCGCAACGCGAATATGTAAATCGCAACGCGAATCTGT
1 -AAATTCGCAACGCGAATATGTAAATCGCAACGCG-AT-TTT
* * *
666257 AAA-TCGTAACGTGAATCTGTAAATCGCAAC
1 AAATTCGCAACGCGAATATGTAAATCGCAAC
666287 ACAGAAGTCA
Statistics
Matches: 88, Mismatches: 20, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
39 1 0.01
40 34 0.39
41 37 0.42
42 15 0.17
43 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (39 bp):
AAATTCGCAACGCGAATATGTAAATCGCAACGCGATTTT
Found at i:666370 original size:40 final size:40
Alignment explanation
Indices: 666295--666391 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
666285 ACACAGAAGT
* * *
666295 CAAATTCGTAACGCGATTTCCAAATTCGCCATGCGATTT-
1 CAAATTCGCAACGCGATTTACAAATTCACCATGCGATTTA
* **
666334 CTAAATTCGCAACGTGATTTACAAATTCACGTTGCGATTTA
1 C-AAATTCGCAACGCGATTTACAAATTCACCATGCGATTTA
*
666375 CAAATTCGCAACTCGAT
1 CAAATTCGCAACGCGAT
666392 ATTTGAATTC
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.02
40 46 0.96
41 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.31
Consensus pattern (40 bp):
CAAATTCGCAACGCGATTTACAAATTCACCATGCGATTTA
Found at i:666419 original size:19 final size:20
Alignment explanation
Indices: 666377--666419 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
666367 GCGATTTACA
*
666377 AATTCGCAACTCGATATTTG
1 AATTCGCAACACGATATTTG
*
666397 AATTCGCAACACGA-ATTTT
1 AATTCGCAACACGATATTTG
666416 AATT
1 AATT
666420 TTGCAACACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
AATTCGCAACACGATATTTG
Found at i:667216 original size:12 final size:12
Alignment explanation
Indices: 667195--667228 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
667185 ACCACATTTC
*
667195 CAATACCAAACA
1 CAATATCAAACA
667207 CAATATCAAACA
1 CAATATCAAACA
*
667219 CAATCTCAAA
1 CAATATCAAA
667229 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:667405 original size:24 final size:24
Alignment explanation
Indices: 667354--667407 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
667344 GTATTCAAAA
* *
667354 TTTGATCTTGGTTAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
667378 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
667402 TTTGAT
1 TTTGAT
667408 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:670169 original size:25 final size:25
Alignment explanation
Indices: 670141--670190 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
670131 AAATCAATTA
*
670141 AACATTACTGTGGGTAAATTATTTG
1 AACATTACTATGGGTAAATTATTTG
** *
670166 AACATTGTTATGGGTACATTATTTG
1 AACATTACTATGGGTAAATTATTTG
670191 GAAAATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (25 bp):
AACATTACTATGGGTAAATTATTTG
Found at i:670594 original size:18 final size:18
Alignment explanation
Indices: 670573--670607 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
670563 GTAATTGGAG
670573 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
670591 TTTGAGTTTGAATTTCA
1 TTTGAATTTAAATTTCA
670608 CTATAAATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:670616 original size:24 final size:24
Alignment explanation
Indices: 670565--670617 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
670555 TTTCATATGT
* * *
670565 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
670589 AATTTGAGTTTGAATTTCACTATA
1 AATTTGAGTTTGAATTTAAATATA
670613 AATTT
1 AATTT
670618 CGGCTCCACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.06, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:671788 original size:6 final size:6
Alignment explanation
Indices: 671777--671823 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
671767 AAGTAAAAGG
* * * *
671777 AAATCA AAATCA AAATCG CAATCG CAATCA AAATCA AAATCA AAATC
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATCA AAATC
671824 CCAATTACAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.57, C:0.21, G:0.04, T:0.17
Consensus pattern (6 bp):
AAATCA
Found at i:671823 original size:24 final size:24
Alignment explanation
Indices: 671778--671828 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
671768 AGTAAAAGGA
** *
671778 AATCAAAATCAAAATCGCAATCGC
1 AATCAAAATCAAAATCAAAATCCC
671802 AATCAAAATCAAAATCAAAATCCC
1 AATCAAAATCAAAATCAAAATCCC
671826 AAT
1 AAT
671829 TACAACCGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.55, C:0.24, G:0.04, T:0.18
Consensus pattern (24 bp):
AATCAAAATCAAAATCAAAATCCC
Found at i:672118 original size:20 final size:20
Alignment explanation
Indices: 672095--672198 Score: 109
Period size: 20 Copynumber: 5.2 Consensus size: 20
672085 AAATGCGAAA
*
672095 TCGCAACGCGAATTTGACTT
1 TCGCAACGCAAATTTGACTT
*
672115 TCGCAACGCGAATTTGACTT
1 TCGCAACGCAAATTTGACTT
***
672135 TCGCGTTGCAAATTTGACTT
1 TCGCAACGCAAATTTGACTT
*** * *
672155 TCGCGTTGCAAATTTGAATA
1 TCGCAACGCAAATTTGACTT
*
672175 TCGCAACGTAAATTTGACTT
1 TCGCAACGCAAATTTGACTT
672195 TCGC
1 TCGC
672199 GTTGCGAAAG
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 72 1.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (20 bp):
TCGCAACGCAAATTTGACTT
Found at i:672169 original size:40 final size:40
Alignment explanation
Indices: 672094--672203 Score: 121
Period size: 40 Copynumber: 2.8 Consensus size: 40
672084 GAAATGCGAA
* *** * *
672094 ATCGCAACGCGAATTTGACTTTCGCAACGCGAATTTGACT
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCAAATTTGAAT
* ***
672134 TTCGCGTTGCAAATTTGACTTTCGCGTTGCAAATTTGAAT
1 ATCGCAACGCAAATTTGACTTTCGCGTTGCAAATTTGAAT
*
672174 ATCGCAACGTAAATTTGACTTTCGCGTTGC
1 ATCGCAACGCAAATTTGACTTTCGCGTTGC
672204 GAAAGTGTAC
Statistics
Matches: 55, Mismatches: 15, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.34
Consensus pattern (40 bp):
ATCGCAACGCAAATTTGACTTTCGCGTTGCAAATTTGAAT
Found at i:672377 original size:64 final size:65
Alignment explanation
Indices: 672266--672400 Score: 209
Period size: 64 Copynumber: 2.1 Consensus size: 65
672256 ATTTAAAACA
*
672266 ACAAATCAATTAAACAAGTAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
1 ACAAATCAATTAAACAAGCAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
*** * *
672331 ACAAATCAATTAAACAAGCAAAA-AATAATTCTTATTTCCTCATCAATTAAACAAATCAACTTTT
1 ACAAATCAATTAAACAAGCAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
672395 ACAAAT
1 ACAAAT
672401 ACATCAATTT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
64 42 0.66
65 22 0.34
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (65 bp):
ACAAATCAATTAAACAAGCAAAATAATAAGAATTATTTACACATCAATTAAACAAATCAACTTTT
Found at i:673624 original size:21 final size:21
Alignment explanation
Indices: 673595--673712 Score: 96
Period size: 21 Copynumber: 5.6 Consensus size: 21
673585 GTGAATCGGG
*
673595 CTCTCGAACGATGGGAGGGAC
1 CTCTTGAACGATGGGAGGGAC
** *
673616 CTCTTGAACGATGACAGGGGC
1 CTCTTGAACGATGGGAGGGAC
* * *
673637 GTCTTGAACGGTGGGAAGGAC
1 CTCTTGAACGATGGGAGGGAC
** *
673658 CTCTTGCAA-GATGATAGGGGC
1 CTCTTG-AACGATGGGAGGGAC
* *
673679 CTCTTGAATGATAGGAGAGG-C
1 CTCTTGAACGATGGGAG-GGAC
673700 CTCTTGAACGATG
1 CTCTTGAACGATG
673713 ACAGGTGAAT
Statistics
Matches: 73, Mismatches: 21, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
20 2 0.03
21 67 0.92
22 4 0.05
ACGTcount: A:0.25, C:0.19, G:0.35, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGATGGGAGGGAC
Found at i:673659 original size:42 final size:41
Alignment explanation
Indices: 673592--673717 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 41
673582 CATGTGAATC
* *
673592 GGGCTCTCGAACGATGGGAGGGACCTCTTGAACGATGACAG
1 GGGCTCTTGAACGATGGGAAGGACCTCTTGAACGATGACAG
* *
673633 GGGCGTCTTGAACGGTGGGAAGGACCTCTTGCAA-GATGATAG
1 GGGC-TCTTGAACGATGGGAAGGACCTCTTG-AACGATGACAG
* *
673675 GGGCCTCTTGAATGATAGGAGAGG-CCTCTTGAACGATGACAG
1 GGG-CTCTTGAACGATGGGA-AGGACCTCTTGAACGATGACAG
673717 G
1 G
673718 TGAATCGAGC
Statistics
Matches: 72, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
41 6 0.08
42 60 0.83
43 6 0.08
ACGTcount: A:0.25, C:0.19, G:0.37, T:0.20
Consensus pattern (41 bp):
GGGCTCTTGAACGATGGGAAGGACCTCTTGAACGATGACAG
Found at i:675790 original size:17 final size:16
Alignment explanation
Indices: 675768--675804 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 16
675758 GAAGTAATGT
675768 AATTCATTCAAGTTTGC
1 AATTCATTCAAGTTT-C
675785 AATTCATTCAAGTTTC
1 AATTCATTCAAGTTTC
675801 AATT
1 AATT
675805 TGCAGAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.43
Consensus pattern (16 bp):
AATTCATTCAAGTTTC
Found at i:675894 original size:19 final size:20
Alignment explanation
Indices: 675826--675896 Score: 92
Period size: 19 Copynumber: 3.6 Consensus size: 20
675816 AATAGTTTCT
* *
675826 GAAACTTAAGATCGCAACGC
1 GAAACTGAAAATCGCAACGC
*
675846 GAAAATGAAAATCGCAACGC
1 GAAACTGAAAATCGCAACGC
*
675866 CAAA-TGAAAATCGCAACGC
1 GAAACTGAAAATCGCAACGC
675885 GAAACT-AAAATC
1 GAAACTGAAAATC
675897 ATGTTGCGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
19 24 0.53
20 21 0.47
ACGTcount: A:0.48, C:0.23, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAACTGAAAATCGCAACGC
Found at i:676390 original size:25 final size:26
Alignment explanation
Indices: 676362--676410 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
676352 ATTTGTATTG
* * *
676362 CGAAATTAATATT-GTGTTTCGAATT
1 CGAAAATAAAATTCGTGTTGCGAATT
676387 CGAAAATAAAATTCGTGTTGCGAA
1 CGAAAATAAAATTCGTGTTGCGAA
676411 AATAAACGCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (26 bp):
CGAAAATAAAATTCGTGTTGCGAATT
Found at i:676401 original size:19 final size:20
Alignment explanation
Indices: 676379--676416 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
676369 AATATTGTGT
676379 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
676398 TTCGTGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
676417 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.11, G:0.16, T:0.29
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:677692 original size:15 final size:15
Alignment explanation
Indices: 677655--677696 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
677645 GGTGTGCAAA
677655 TCCGGGTACCCGGATT
1 TCCGGGTACCC-GATT
**
677671 T-TTGGTACCCGATT
1 TCCGGGTACCCGATT
677685 TCCGGGTACCCG
1 TCCGGGTACCCG
677697 GAACTTCCGG
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
14 5 0.24
15 15 0.71
16 1 0.05
ACGTcount: A:0.12, C:0.31, G:0.29, T:0.29
Consensus pattern (15 bp):
TCCGGGTACCCGATT
Found at i:678325 original size:28 final size:26
Alignment explanation
Indices: 678294--678417 Score: 122
Period size: 26 Copynumber: 4.5 Consensus size: 26
678284 TATTTTCAAA
678294 ATATTTTCAAAAACTATAATATATATAT
1 ATATTTTCAAAAACTAT-ATAT-TATAT
** * * **
678322 ATATATATTCAAAATGTTTTAAAAAACTAT
1 ATAT-T-TTCAAAA-ACTATATATTA-TAT
678352 ATATATTTTCAAAAACTATATATTATAT
1 ATAT--TTTCAAAAACTATATATTATAT
678380 ATATTTTCAAAAACTATATATTATAT
1 ATATTTTCAAAAACTATATATTATAT
678406 ATATTTTCAAAA
1 ATATTTTCAAAA
678418 TATTTTCAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 12
0.76 0.13 0.12
Matches are distributed among these distances:
26 34 0.44
28 11 0.14
29 7 0.09
30 23 0.29
31 3 0.04
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (26 bp):
ATATTTTCAAAAACTATATATTATAT
Found at i:678365 original size:19 final size:19
Alignment explanation
Indices: 678338--678374 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
678328 ATTCAAAATG
678338 TTTTAAAAAACTATATATA
1 TTTTAAAAAACTATATATA
*
678357 TTTTCAAAAACTATATAT
1 TTTTAAAAAACTATATAT
678375 TATATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTTAAAAAACTATATATA
Found at i:678431 original size:63 final size:62
Alignment explanation
Indices: 678261--678494 Score: 275
Period size: 63 Copynumber: 3.7 Consensus size: 62
678251 ATTCAAAATG
678261 TTTTCATAAAAT-TATATTATATATATTTTCAAAATATTTTCAAAAACTATAATATATATATATA
1 TTTTCA-AAAATATATATTATATATATTTTCAAAATATTTTCAAAAACTAT-ATAT-TATATATA
* * * * * *
678325 TATATTC-AAAATGT-T-TTA-AAAAACTAT--ATATATTTTCAAAAACTATATATTATATATA
1 T-T-TTCAAAAATATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATA
678383 TTTTCAAAAACTATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATA
1 TTTTCAAAAA-TATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATA
*
678446 TTTTCAAAAACTATATATTATATATACGTTTTCAAAATGTTTTCAAAAA
1 TTTTCAAAAA-TATATATTATATATA--TTTTCAAAATATTTTCAAAAA
678495 AATATTTTCA
Statistics
Matches: 146, Mismatches: 12, Indels: 23
0.81 0.07 0.13
Matches are distributed among these distances:
56 3 0.02
57 5 0.03
58 11 0.08
59 5 0.03
60 21 0.14
61 5 0.03
62 5 0.03
63 59 0.40
64 7 0.05
65 22 0.15
66 3 0.02
ACGTcount: A:0.46, C:0.08, G:0.01, T:0.45
Consensus pattern (62 bp):
TTTTCAAAAATATATATTATATATATTTTCAAAATATTTTCAAAAACTATATATTATATATA
Found at i:678434 original size:26 final size:26
Alignment explanation
Indices: 678415--678535 Score: 102
Period size: 26 Copynumber: 4.5 Consensus size: 26
678405 TATATTTTCA
678415 AAATATTTTCAAAAACTATATATTAT
1 AAATATTTTCAAAAACTATATATTAT
*
678441 ATATATTTTCAAAAACTATATATTAT
1 AAATATTTTCAAAAACTATATATTAT
* ** * * *
678467 ATATACGTTTTCAAAATGT-TTTCA-AAA
1 AAATA--TTTTCAAAAACTATAT-ATTAT
*
678494 AAATATTTTCAAAAACCATATATTAT
1 AAATATTTTCAAAAACTATATATTAT
*
678520 ATATACATTTTCAAAA
1 A-A-ATATTTTCAAAA
678536 TGTTTTCAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
25 10 0.14
26 34 0.46
27 8 0.11
28 22 0.30
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (26 bp):
AAATATTTTCAAAAACTATATATTAT
Found at i:678514 original size:15 final size:14
Alignment explanation
Indices: 678479--678561 Score: 57
Period size: 14 Copynumber: 6.1 Consensus size: 14
678469 ATACGTTTTC
*
678479 AAAATGTTTTCAAA
1 AAAATATTTTCAAA
678493 AAAATATTTTCAAA
1 AAAATATTTTCAAA
* * *
678507 AACCATATATT-ATA
1 AA-AATATTTTCAAA
* * *
678521 TATACATTTTC---
1 AAAATATTTTCAAA
*
678532 AAAATGTTTTCAAA
1 AAAATATTTTCAAA
678546 AAAATATTTTCAAA
1 AAAATATTTTCAAA
678560 AA
1 AA
678562 CCAAATATTA
Statistics
Matches: 51, Mismatches: 13, Indels: 10
0.69 0.18 0.14
Matches are distributed among these distances:
11 7 0.14
13 5 0.10
14 33 0.65
15 6 0.12
ACGTcount: A:0.51, C:0.10, G:0.02, T:0.37
Consensus pattern (14 bp):
AAAATATTTTCAAA
Found at i:678515 original size:53 final size:53
Alignment explanation
Indices: 678443--678599 Score: 251
Period size: 53 Copynumber: 2.9 Consensus size: 53
678433 TATATTATAT
*
678443 ATATTTTCAAAAACTATATATTATATATACGTTTTCAAAATGTTTTCAAAAAA
1 ATATTTTCAAAAACCATATATTATATATACGTTTTCAAAATGTTTTCAAAAAA
*
678496 ATATTTTCAAAAACCATATATTATATATACATTTTCAAAATGTTTTCAAAAAA
1 ATATTTTCAAAAACCATATATTATATATACGTTTTCAAAATGTTTTCAAAAAA
* * * *
678549 ATATTTTCAAAAACCAAATATTATATATATGGTTTTTAAAACGTTTTCAAA
1 ATATTTTCAAAAACCATATATTATATATA-CGTTTTCAAAATGTTTTCAAA
678600 TTCTCTATAT
Statistics
Matches: 96, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 79 0.82
54 17 0.18
ACGTcount: A:0.45, C:0.10, G:0.04, T:0.41
Consensus pattern (53 bp):
ATATTTTCAAAAACCATATATTATATATACGTTTTCAAAATGTTTTCAAAAAA
Done.