Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008110.1 Hibiscus syriacus cultivar Beakdansim tig00110646_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: 844371
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 4 of 5
Found at i:563264 original size:12 final size:12
Alignment explanation
Indices: 563213--563272 Score: 52
Period size: 12 Copynumber: 4.8 Consensus size: 12
563203 TTATATATAT
*
563213 TTTTTCAAAATG
1 TTTTTCAAAATA
563225 TTTTTCAAAAATTA
1 TTTTTC-AAAA-TA
*
563239 TATTTT-ATATATA
1 T-TTTTCA-AAATA
563252 TTTTTCAAAATA
1 TTTTTCAAAATA
563264 -TTTTCAAAA
1 TTTTTCAAAA
563273 ACTATATATT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
11 9 0.22
12 14 0.35
13 9 0.22
14 4 0.10
15 4 0.10
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.52
Consensus pattern (12 bp):
TTTTTCAAAATA
Found at i:563383 original size:116 final size:111
Alignment explanation
Indices: 563079--563373 Score: 378
Period size: 116 Copynumber: 2.6 Consensus size: 111
563069 AATTTTTTTG
* * *
563079 AAACTATATATTATATACATTTTCAAAAATATTTTCAAAAACTATATATTATATATATGTTTTCA
1 AAACTATATATTATATATATTTTC-AAAATGTTTTCAAAAACTATATA--ATATATATTTTTTCA
* *
563144 AAATG-TTTTAAAAAATATATATTATATATATGTTTTCAAATTATTTTCA
63 AAA-GATTTTAAAAAATATATATTATATATATATTTTCAAAATATTTTCA
* * **
563193 AAACTATAAATTATATATATTTTTTCAAAATGTTTTTCAAAAATTATATTTTATATATATTTTTC
1 AAACTATATATTATATATA--TTTTCAAAATG-TTTTCAAAAACTATATAATATATAT-TTTTTC
* * *
563258 AAAATATTTTCAAAAACTATATATTATATATA-ATTTTCAAAATGTTTTCAA
62 AAAAGATTTT-AAAAAATATATATTATATATATATTTTCAAAATATTTTC-A
563309 AAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATAATATATATTTTTTCAAAA
1 AAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATAATATATATTTTTTCAAAA
563374 AACCGATTTT
Statistics
Matches: 158, Mismatches: 16, Indels: 16
0.83 0.08 0.08
Matches are distributed among these distances:
112 10 0.06
113 22 0.14
114 35 0.22
115 32 0.20
116 59 0.37
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (111 bp):
AAACTATATATTATATATATTTTCAAAATGTTTTCAAAAACTATATAATATATATTTTTTCAAAA
GATTTTAAAAAATATATATTATATATATATTTTCAAAATATTTTCA
Found at i:563406 original size:17 final size:16
Alignment explanation
Indices: 563366--563408 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
563356 ATATATATTT
*
563366 TTTCAAAAAACCGATT
1 TTTCAAAAAACCGATG
* *
563382 TTTAAAAAAACTGTATG
1 TTTCAAAAAACCG-ATG
563399 TTTCAAAAAA
1 TTTCAAAAAA
563409 AACTATACTA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.49, C:0.12, G:0.07, T:0.33
Consensus pattern (16 bp):
TTTCAAAAAACCGATG
Found at i:564173 original size:85 final size:85
Alignment explanation
Indices: 564019--564185 Score: 221
Period size: 85 Copynumber: 2.0 Consensus size: 85
564009 TACAATACAG
** * *
564019 TTGATACGCCCTCGAGCTGAATGAAAATGAACTCGAAAGTTTTCGTTGACAGATAGTCCTTCTCG
1 TTGATACGCCCTCGAGCTGAATGAAAATGAACTCGAAAGTTTTCGTTGACAGATAACCCTCCTCA
564084 CCTTGAGTTATGCTGTAAAT
66 CCTTGAGTTATGCTGTAAAT
* * * *
564104 TTGATATGCCCTTGAGCTGAATG-AAATCGAACTC-AAAGGTTTTTGTTGACAGCTAACCCTCCT
1 TTGATACGCCCTCGAGCTGAATGAAAAT-GAACTCGAAA-GTTTTCGTTGACAGATAACCCTCCT
*
564167 CACCTTGAGTTATGTTGTA
64 CACCTTGAGTTATGCTGTA
564186 CTAGATTGAG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
84 7 0.10
85 64 0.90
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (85 bp):
TTGATACGCCCTCGAGCTGAATGAAAATGAACTCGAAAGTTTTCGTTGACAGATAACCCTCCTCA
CCTTGAGTTATGCTGTAAAT
Found at i:570152 original size:2 final size:2
Alignment explanation
Indices: 570147--570171 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
570137 ATAAGAAGTA
570147 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
570172 ACAAAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:576944 original size:15 final size:16
Alignment explanation
Indices: 576912--576944 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
576902 AAAATCTTTC
576912 TTTCCCGTTCTAGATT
1 TTTCCCGTTCTAGATT
*
576928 TTTCCCG-TCTGGATT
1 TTTCCCGTTCTAGATT
576943 TT
1 TT
576945 GATCTGCCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.09, C:0.24, G:0.15, T:0.52
Consensus pattern (16 bp):
TTTCCCGTTCTAGATT
Found at i:577721 original size:16 final size:17
Alignment explanation
Indices: 577694--577728 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
577684 TATCGCCGAC
577694 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
577711 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
577727 CG
1 CG
577729 TGAATAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:578530 original size:29 final size:29
Alignment explanation
Indices: 578456--578534 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
578446 TACCCCTTCT
* *
578456 TGATTATACATGGGATTAATTCCCTATCC
1 TGATTCTACATGGGATTAATTCCATATCC
* * *
578485 TGATTCTACCTGAGATTAATTCCATGTCC
1 TGATTCTACATGGGATTAATTCCATATCC
*
578514 TGATTCTATATGGGATTAATT
1 TGATTCTACATGGGATTAATT
578535 TCTCGTCCTA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (29 bp):
TGATTCTACATGGGATTAATTCCATATCC
Found at i:578542 original size:29 final size:29
Alignment explanation
Indices: 578456--578560 Score: 90
Period size: 29 Copynumber: 3.6 Consensus size: 29
578446 TACCCCTTCT
* * *
578456 TGATTATACATGGGATTAA-TTCCCTATCC
1 TGATTCTACATGGGATTAATTTCTC-GTCC
* * *
578485 TGATTCTACCTGAGATTAATTCCAT-GTCC
1 TGATTCTACATGGGATTAATTTC-TCGTCC
*
578514 TGATTCTATATGGGATTAATTTCTCGTCC
1 TGATTCTACATGGGATTAATTTCTCGTCC
*
578543 T-ATTTCTGCATGGGATTA
1 TGA-TTCTACATGGGATTA
578561 TATCCTTATC
Statistics
Matches: 60, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
28 2 0.03
29 56 0.93
30 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.41
Consensus pattern (29 bp):
TGATTCTACATGGGATTAATTTCTCGTCC
Found at i:582322 original size:32 final size:32
Alignment explanation
Indices: 582278--582343 Score: 105
Period size: 32 Copynumber: 2.1 Consensus size: 32
582268 GCCGACATAC
* * *
582278 GGGAGTATCTTGGGGCCTTAGAGTCTACCCAA
1 GGGAGTACCTTGGGGCCTAAGAGCCTACCCAA
582310 GGGAGTACCTTGGGGCCTAAGAGCCTACCCAA
1 GGGAGTACCTTGGGGCCTAAGAGCCTACCCAA
582342 GG
1 GG
582344 ATCACCTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.24, G:0.33, T:0.20
Consensus pattern (32 bp):
GGGAGTACCTTGGGGCCTAAGAGCCTACCCAA
Found at i:584176 original size:29 final size:29
Alignment explanation
Indices: 584138--584276 Score: 142
Period size: 29 Copynumber: 4.8 Consensus size: 29
584128 ATAAAATTCT
*
584138 AAAC-TTTTA-AATATTACAATAAAAACCA
1 AAACTTTTTATAA-ATTACAATAAAGACCA
* **
584166 AAA-TTCTTTA-AATATTACAATATAGATTA
1 AAACTT-TTTATAA-ATTACAATAAAGACCA
*
584195 AAACTTTTTATAAATTACAATAAAGATCA
1 AAACTTTTTATAAATTACAATAAAGACCA
* *
584224 AAACTTTCTATAAATTACAATAAATACCA
1 AAACTTTTTATAAATTACAATAAAGACCA
* *
584253 AAACTTTCTATAAATTATAATAAA
1 AAACTTTTTATAAATTACAATAAA
584277 TACTTTTTAT
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
28 4 0.04
29 89 0.92
30 4 0.04
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.35
Consensus pattern (29 bp):
AAACTTTTTATAAATTACAATAAAGACCA
Found at i:584212 original size:58 final size:58
Alignment explanation
Indices: 584138--584389 Score: 150
Period size: 58 Copynumber: 4.4 Consensus size: 58
584128 ATAAAATTCT
* * **
584138 AAAC-TTTTA-AATATTACAATAAAAACCAAAA--TTCTTTAAATATTACAATATAGATTA
1 AAACTTTTTATAA-ATTACAATAAAAACCAAAACTTTCTAT-AA-ATTACAATAAAGACCA
* * *
584195 AAACTTTTTATAAATTACAATAAAGATCAAAACTTTCTATAAATTACAATAAATACCA
1 AAACTTTTTATAAATTACAATAAAAACCAAAACTTTCTATAAATTACAATAAAGACCA
* * * * * * **
584253 AAACTTTCTATAAATT---AT-AATA--AATACTTTTTATAAATTATAATAAATATGA
1 AAACTTTTTATAAATTACAATAAAAACCAAAACTTTCTATAAATTACAATAAAGACCA
* * ** * * *
584305 AAACTATTTATAAATTATAATAAAAAAGAAAAACTTCCCATAAATTACAATATTAG-CCTA
1 AAACTTTTTATAAATTACAAT-AAAAACCAAAACTTTCTATAAATTACAATA-AAGACC-A
* *
584365 TAA-TTTTTATAAATTACACTAAAAA
1 AAACTTTTTATAAATTACAATAAAAA
584390 TCTATATTTT
Statistics
Matches: 152, Mismatches: 30, Indels: 25
0.73 0.14 0.12
Matches are distributed among these distances:
52 39 0.26
54 3 0.02
55 4 0.03
57 7 0.05
58 54 0.36
59 36 0.24
60 9 0.06
ACGTcount: A:0.52, C:0.11, G:0.02, T:0.35
Consensus pattern (58 bp):
AAACTTTTTATAAATTACAATAAAAACCAAAACTTTCTATAAATTACAATAAAGACCA
Found at i:584277 original size:29 final size:29
Alignment explanation
Indices: 584194--584328 Score: 149
Period size: 29 Copynumber: 4.9 Consensus size: 29
584184 AATATAGATT
* * *
584194 AAAACTTTTTATAAATTACAATAAAGATC
1 AAAACTTTCTATAAATTATAATAAATATC
* *
584223 AAAACTTTCTATAAATTACAATAAATACC
1 AAAACTTTCTATAAATTATAATAAATATC
584252 AAAACTTTCTATAAATTATAAT-AA-AT-
1 AAAACTTTCTATAAATTATAATAAATATC
* *
584278 ---ACTTTTTATAAATTATAATAAATATG
1 AAAACTTTCTATAAATTATAATAAATATC
584304 AAAACTATT-TATAAATTATAATAAA
1 AAAACT-TTCTATAAATTATAATAAA
584329 AAAGAAAAAC
Statistics
Matches: 93, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
23 18 0.19
24 2 0.02
25 2 0.02
27 1 0.01
28 2 0.02
29 66 0.71
30 2 0.02
ACGTcount: A:0.53, C:0.09, G:0.01, T:0.37
Consensus pattern (29 bp):
AAAACTTTCTATAAATTATAATAAATATC
Found at i:584281 original size:23 final size:23
Alignment explanation
Indices: 584255--584301 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
584245 AAATACCAAA
584255 ACTTTCTATAAATTATAATAAAT
1 ACTTTCTATAAATTATAATAAAT
*
584278 ACTTTTTATAAATTATAATAAAT
1 ACTTTCTATAAATTATAATAAAT
584301 A
1 A
584302 TGAAAACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (23 bp):
ACTTTCTATAAATTATAATAAAT
Found at i:584289 original size:52 final size:52
Alignment explanation
Indices: 584226--584328 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
584216 AAAGATCAAA
584226 ACTTTCTATAAATTACAATAAATACCAAAACT-TTCTATAAATTATAATAAAT
1 ACTTTCTATAAATTACAATAAATACCAAAACTATT-TATAAATTATAATAAAT
* * **
584278 ACTTTTTATAAATTATAATAAATATGAAAACTATTTATAAATTATAATAAA
1 ACTTTCTATAAATTACAATAAATACCAAAACTATTTATAAATTATAATAAA
584329 AAAGAAAAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 44 0.96
53 2 0.04
ACGTcount: A:0.51, C:0.09, G:0.01, T:0.39
Consensus pattern (52 bp):
ACTTTCTATAAATTACAATAAATACCAAAACTATTTATAAATTATAATAAAT
Found at i:585193 original size:20 final size:21
Alignment explanation
Indices: 585163--585242 Score: 96
Period size: 20 Copynumber: 4.0 Consensus size: 21
585153 AGCCGTTGGG
585163 GCCTGATGGTAAT-GATACTAT
1 GCCT-ATGGTAATCGATACTAT
*
585184 GCTTATGGT-ATCGATACTAT
1 GCCTATGGTAATCGATACTAT
* *
585204 GCCTATGGT-ATCAATACAAT
1 GCCTATGGTAATCGATACTAT
585224 GCCTATGGT-ATCGATACTA
1 GCCTATGGTAATCGATACTA
585243 CTATATAGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
19 2 0.04
20 47 0.90
21 3 0.06
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (21 bp):
GCCTATGGTAATCGATACTAT
Found at i:589084 original size:11 final size:11
Alignment explanation
Indices: 589070--589131 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
589060 TTACTTTATC
589070 TTTATTTTTTA
1 TTTATTTTTTA
589081 TTTATTTATTTA
1 TTTATTT-TTTA
*
589093 -TTATTCTATTA
1 TTTATT-TTTTA
589104 TTCTATTTTTTA
1 TT-TATTTTTTA
589116 --TATTTTTTA
1 TTTATTTTTTA
*
589125 TTCATTT
1 TTTATTT
589132 GTTGTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
9 9 0.21
11 19 0.45
12 10 0.24
13 4 0.10
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:589090 original size:8 final size:8
Alignment explanation
Indices: 589070--589131 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
589060 TTACTTTATC
589070 TTTATTT-
1 TTTATTTA
589077 TTTATTTA
1 TTTATTTA
589085 TTTATTTA
1 TTTATTTA
589093 -TTATTCTA
1 TTTATT-TA
589101 -TTATTCTA
1 TTTATT-TA
589109 TTT-TTTA
1 TTTATTTA
*
589116 TATTTTTTA
1 T-TTATTTA
*
589125 TTCATTT
1 TTTATTT
589132 GTTGTGATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
7 15 0.31
8 26 0.54
9 7 0.15
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTATTTA
Found at i:589093 original size:36 final size:36
Alignment explanation
Indices: 589053--589131 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 36
589043 ATGCCTTACT
*
589053 TTTATTTTTACT-TTATCTTTATTTTTTAT-TTATTTA
1 TTTATTTTT-CTATTAT-TCTATTTTTTATATTATTTA
* *
589089 TTTATTATTCTATTATTCTATTTTTTATATTTTTTA
1 TTTATTTTTCTATTATTCTATTTTTTATATTATTTA
*
589125 TTCATTT
1 TTTATTT
589132 GTTGTGATTA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
35 13 0.36
36 23 0.64
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.73
Consensus pattern (36 bp):
TTTATTTTTCTATTATTCTATTTTTTATATTATTTA
Found at i:596928 original size:29 final size:29
Alignment explanation
Indices: 596869--596928 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
596859 TTCATTGTGG
* * *
596869 ATGAGTAGTGTCGTTCCTAACATTAAATT
1 ATGAGTAATGTCGTTCCCAACATCAAATT
*
596898 ATGAGTAATGTCGTTCCCAACATCAACTT
1 ATGAGTAATGTCGTTCCCAACATCAAATT
596927 AT
1 AT
596929 CTCCAGACAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.32, C:0.18, G:0.15, T:0.35
Consensus pattern (29 bp):
ATGAGTAATGTCGTTCCCAACATCAAATT
Found at i:597088 original size:217 final size:217
Alignment explanation
Indices: 596697--597116 Score: 552
Period size: 217 Copynumber: 1.9 Consensus size: 217
596687 TAGTTCATTT
* * * * * * * ** *
596697 CCAATATCAAATTATCTCTAGGCCATCATATTTCCTTAATAAGAATGAGTAGTGTTGTCTTCAAA
1 CCAACATCAAATTATCTCCAGACAATCAGATTTCCTTAATAAAAAGGAACAGTGTTATCTTCAAA
* * * *
596762 CGCGACTAGAAGTCCTCATCAAGTAGGAACAATATCGTCCACTAATTAGACCTCCTCAACATGAA
66 CGCGACTAGAAGTCCTAATCAAGTAGGAACAATATCGTCCACTAACTAGACCACCTCAACATAAA
* * * * * *
596827 TGAGCAATTTCATCATAAGAAGCCATATTCTCTTCATTGTGGATGAGTAGTGTCGTTCCTAACAT
131 GGAGCAATATCATCATAAGAACCCATATTCTCTTCATCGTGGATGAGTAGTGTAGTTCCCAACAT
*
596892 TAAATTATGAGTAATGTCGTTC
196 CAAATTATGAGTAATGTCGTTC
* * *
596914 CCAACATCAACTTATCTCCAGACAATCAGATTTCCTTTATAAAAAGGAACAGTGTTATCTTCAGA
1 CCAACATCAAATTATCTCCAGACAATCAGATTTCCTTAATAAAAAGGAACAGTGTTATCTTCAAA
* * * * * *
596979 TGCTACTAGATGTCCTAATCAAGTAGGAACAATGTCGTCCATTGACTAGACCACCTCAACATAAA
66 CGCGACTAGAAGTCCTAATCAAGTAGGAACAATATCGTCCACTAACTAGACCACCTCAACATAAA
* *
597044 GGAGCAATATCATCATAAGCACCCATATTCTCTTCATCGTGGATGAGTAGTGTATTTCCCAACAT
131 GGAGCAATATCATCATAAGAACCCATATTCTCTTCATCGTGGATGAGTAGTGTAGTTCCCAACAT
597109 CAAATTAT
196 CAAATTAT
597117 CTCCAGAAAA
Statistics
Matches: 171, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
217 171 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (217 bp):
CCAACATCAAATTATCTCCAGACAATCAGATTTCCTTAATAAAAAGGAACAGTGTTATCTTCAAA
CGCGACTAGAAGTCCTAATCAAGTAGGAACAATATCGTCCACTAACTAGACCACCTCAACATAAA
GGAGCAATATCATCATAAGAACCCATATTCTCTTCATCGTGGATGAGTAGTGTAGTTCCCAACAT
CAAATTATGAGTAATGTCGTTC
Found at i:597215 original size:188 final size:188
Alignment explanation
Indices: 596910--597356 Score: 467
Period size: 188 Copynumber: 2.4 Consensus size: 188
596900 GAGTAATGTC
* * ** * * * * *
596910 GTTCCCAACATCAACTTATCTCCAGACAATCAGATTTCCTTTATAAAAAGGAACAGTGTTATCTT
1 GTTCCCAACATCAAATTATCTCCAGAAAATCAGATTTCCTCAACAAGAATGAACAATGTTGTCTT
*** * *
596975 CAGATGCTACTAGATGTCCTAATCAAGTAGGAACAATGTCGTCCATTGACTAGACCA-CCTCAAC
66 CAGATGCTACTAGACACCCTAATCAAGTAGGAACAATGTCGTACACTGACTAGA-CATCCTCAA-
* * * *
597039 A-TAAAGGAGCAATATCATCATAAGCACCCATATTCTCTTCATCGTGGATGAGTAGTGTAT
129 ATTAAAGGAGCAATATAATCATAAGCACCCAGATTCTCTTCATCATGGATGAGCAGTGT-T
* *
597099 -TTCCCAACATCAAATTATCTCCAGAAAATTAGATTTTCTCAACAAGAATGAACAATGTTGTCTT
1 GTTCCCAACATCAAATTATCTCCAGAAAATCAGATTTCCTCAACAAGAATGAACAATGTTGTCTT
* * * *
597163 CGGATG-TTCTTAGACACCCTCATCTAGTAGGAACAATGTCGTACACTGACTAGACATCCTCAAA
66 CAGATGCTAC-TAGACACCCTAATCAAGTAGGAACAATGTCGTACACTGACTAGACATCCTCAAA
* * * **
597227 TTGAAGTAGCAATGTAATCATAAGCGGCCAGATTCTCTTCATCATGGATGAGCAGTGTT
130 TTAAAGGAGCAATATAATCATAAGCACCCAGATTCTCTTCATCATGGATGAGCAGTGTT
* * * * *
597286 GTTACGAACATCAAGTTATCTACAAGTAAA-CAGATTTCCTCAACAAGAAAT-AAC-ATAGTTGT
1 GTTCCCAACATCAAATTATCT-CCAGAAAATCAGATTTCCTCAACAAG-AATGAACAAT-GTTGT
*
597348 CTTTAGATG
63 CTTCAGATG
597357 TATAGTCATT
Statistics
Matches: 213, Mismatches: 38, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
187 8 0.04
188 196 0.92
189 9 0.04
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (188 bp):
GTTCCCAACATCAAATTATCTCCAGAAAATCAGATTTCCTCAACAAGAATGAACAATGTTGTCTT
CAGATGCTACTAGACACCCTAATCAAGTAGGAACAATGTCGTACACTGACTAGACATCCTCAAAT
TAAAGGAGCAATATAATCATAAGCACCCAGATTCTCTTCATCATGGATGAGCAGTGTT
Found at i:597688 original size:21 final size:21
Alignment explanation
Indices: 597664--597703 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
597654 CAGATTGCCC
*
597664 AGAGAGTACCGATACCCCCCA
1 AGAGAGTACCAATACCCCCCA
*
597685 AGAGGGTACCAATACCCCC
1 AGAGAGTACCAATACCCCC
597704 ATGTAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.38, G:0.20, T:0.10
Consensus pattern (21 bp):
AGAGAGTACCAATACCCCCCA
Found at i:603565 original size:22 final size:23
Alignment explanation
Indices: 603534--603594 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
603524 TGGGTGCAGG
*
603534 AGGTATCGATACCCCC-TTTAAT
1 AGGTACCGATACCCCCTTTTAAT
*
603556 AGGTACCGAT-CCTCCCTTTTAGT
1 AGGTACCGATACC-CCCTTTTAAT
*
603579 GGGTACCGATACCCCC
1 AGGTACCGATACCCCC
603595 AAGAGGGTAC
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 2 0.06
22 12 0.36
23 17 0.52
24 2 0.06
ACGTcount: A:0.21, C:0.33, G:0.18, T:0.28
Consensus pattern (23 bp):
AGGTACCGATACCCCCTTTTAAT
Found at i:604034 original size:14 final size:13
Alignment explanation
Indices: 604007--604037 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
603997 TTTTTAAAAA
604007 AAATTGGATTTTT
1 AAATTGGATTTTT
604020 AAATTGGATTTTT
1 AAATTGGATTTTT
*
604033 TAATT
1 AAATT
604038 TAATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (13 bp):
AAATTGGATTTTT
Found at i:604095 original size:13 final size:14
Alignment explanation
Indices: 604072--604115 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
604062 TTATACATAT
604072 ATTGATTTTCAAAC
1 ATTGATTTTCAAAC
604086 ATTG-TTTTCAAAC
1 ATTGATTTTCAAAC
* *
604099 -TCGATTTTCAAAA
1 ATTGATTTTCAAAC
604112 ATTG
1 ATTG
604116 CCCATTAGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 17 0.68
14 6 0.24
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (14 bp):
ATTGATTTTCAAAC
Found at i:606335 original size:20 final size:21
Alignment explanation
Indices: 606294--606334 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
606284 CAGATTGCCC
606294 AGAGAGTATCGATACCCCCCCA
1 AGAGAGTATCGATA-CCCCCCA
*
606316 AGAGGGTATCGATACCCCC
1 AGAGAGTATCGATACCCCC
606335 ATGTAAGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.29, C:0.34, G:0.22, T:0.15
Consensus pattern (21 bp):
AGAGAGTATCGATACCCCCCA
Found at i:607603 original size:7 final size:7
Alignment explanation
Indices: 607591--607651 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
607581 GTTTTAATTG
607591 ATTATTT
1 ATTATTT
607598 ATTATTT
1 ATTATTT
607605 ATTATTT
1 ATTATTT
*
607612 -TTATTC
1 ATTATTT
607618 A-TA-TT
1 ATTATTT
*
607623 ATTAGTAAT
1 ATTA-T-TT
607632 ATTATTT
1 ATTATTT
607639 ATTATTAT
1 ATTATT-T
607647 ATTAT
1 ATTAT
607652 CGGTTACATC
Statistics
Matches: 44, Mismatches: 4, Indels: 11
0.75 0.07 0.19
Matches are distributed among these distances:
5 2 0.05
6 9 0.20
7 21 0.48
8 7 0.16
9 5 0.11
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (7 bp):
ATTATTT
Found at i:609446 original size:20 final size:22
Alignment explanation
Indices: 609390--609450 Score: 67
Period size: 22 Copynumber: 2.9 Consensus size: 22
609380 TGTGTATTTC
609390 TTAAGGGTAGTATCGATACAAG
1 TTAAGGGTAGTATCGATACAAG
*
609412 TTGAAGAGG--GTATCGATAC-TG
1 TT-AAG-GGTAGTATCGATACAAG
609433 -TAAGGGTAGTATCGATAC
1 TTAAGGGTAGTATCGATAC
609451 CAGGGGGATG
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
18 2 0.06
19 3 0.09
20 11 0.32
21 1 0.03
22 12 0.35
23 3 0.09
24 2 0.06
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (22 bp):
TTAAGGGTAGTATCGATACAAG
Found at i:609545 original size:19 final size:19
Alignment explanation
Indices: 609504--609545 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
609494 ATGCCAAATC
* *
609504 GGTATCGATACCTTGAGGA
1 GGTATCGATACCATGAAGA
609523 GGTATCGATACCCATGAAG-
1 GGTATCGATA-CCATGAAGA
609542 GGTA
1 GGTA
609546 GTATCGATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (19 bp):
GGTATCGATACCATGAAGA
Found at i:616805 original size:21 final size:21
Alignment explanation
Indices: 616781--616895 Score: 162
Period size: 21 Copynumber: 5.4 Consensus size: 21
616771 GTTGAGGGTT
616781 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
616802 TTATGTGGTCCTTCGGGACAA
1 TTATGTGGTCCTTCGGGACAA
*
616823 TTATGTGGTCCTTCGAGACAA
1 TTATGTGGTCCTTCGGGACAA
616844 TTATGTGG-CACTTCGGTG-CAAA
1 TTATGTGGTC-CTTCGG-GAC-AA
*
616866 CTTATGTGGTCCATCGGGACAA
1 -TTATGTGGTCCTTCGGGACAA
616888 TTATGTGG
1 TTATGTGG
616896 CATTTCGATT
Statistics
Matches: 85, Mismatches: 3, Indels: 12
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.01
21 63 0.74
22 6 0.07
23 14 0.16
24 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (21 bp):
TTATGTGGTCCTTCGGGACAA
Found at i:618468 original size:18 final size:18
Alignment explanation
Indices: 618445--618508 Score: 119
Period size: 18 Copynumber: 3.6 Consensus size: 18
618435 CTGAATTTTT
618445 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
618463 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATG
*
618481 TCCCGAAGGACCATTATG
1 TCCCGAAGGACCACTATG
618499 TCCCGAAGGA
1 TCCCGAAGGA
618509 TAACTATTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 45 1.00
ACGTcount: A:0.28, C:0.31, G:0.23, T:0.17
Consensus pattern (18 bp):
TCCCGAAGGACCACTATG
Found at i:623591 original size:44 final size:44
Alignment explanation
Indices: 623528--623622 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
623518 TAGCTCATGT
*
623528 ACACATGTGAGAATCTGAGGTACATGAGTACACTGAGGTTGTGC
1 ACACATGTGAGAATCTGAGGTACATGAGTACACTAAGGTTGTGC
*
623572 ACACATGTGAGAATCTGAGGTACGTGAGTACACTAAGGTTGTGC
1 ACACATGTGAGAATCTGAGGTACATGAGTACACTAAGGTTGTGC
623616 ACACATG
1 ACACATG
623623 CTGTCACCAC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.24
Consensus pattern (44 bp):
ACACATGTGAGAATCTGAGGTACATGAGTACACTAAGGTTGTGC
Found at i:626001 original size:17 final size:18
Alignment explanation
Indices: 625979--626015 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
625969 TATTTTTATT
*
625979 TTTTATTTT-TTATTTTA
1 TTTTATTTTATCATTTTA
625996 TTTTATTTTATCATTTTA
1 TTTTATTTTATCATTTTA
626014 TT
1 TT
626016 CATTTGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTATTTTATCATTTTA
Found at i:626732 original size:25 final size:24
Alignment explanation
Indices: 626690--626749 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
626680 TTAATATTTT
* *
626690 TAATTTTAAA-ATATTATTAAAAA
1 TAATTTTAAATTTTTTATTAAAAA
* **
626713 TATTTTTATAATTTTTTATTTTAAA
1 TAATTTTA-AATTTTTTATTAAAAA
626738 TAATTTTAAATT
1 TAATTTTAAATT
626750 AAAGTTCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 7 0.24
24 6 0.21
25 16 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TAATTTTAAATTTTTTATTAAAAA
Found at i:629028 original size:31 final size:32
Alignment explanation
Indices: 628958--629032 Score: 91
Period size: 32 Copynumber: 2.4 Consensus size: 32
628948 ATAATGATCA
*
628958 ATGAGTAAATTAGAAAATAAAATGAAAGTATT
1 ATGAGTAAAATAGAAAATAAAATGAAAGTATT
* * *
628990 ATAAGTAAAATAGGATATAAAAT-AAAGT-TT
1 ATGAGTAAAATAGAAAATAAAATGAAAGTATT
629020 AGTGAGTAAAATA
1 A-TGAGTAAAATA
629033 ATAAATTAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 3 0.08
31 15 0.41
32 19 0.51
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (32 bp):
ATGAGTAAAATAGAAAATAAAATGAAAGTATT
Found at i:637340 original size:20 final size:20
Alignment explanation
Indices: 637317--637363 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
637307 TCTTCACACT
* *
637317 AACAACCAAGTTATTTTATC
1 AACAACAAAGTTATTTGATC
637337 AACAACAAAGTTATTTGATC
1 AACAACAAAGTTATTTGATC
637357 AACAACA
1 AACAACA
637364 CAAATCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.28
Consensus pattern (20 bp):
AACAACAAAGTTATTTGATC
Found at i:640854 original size:148 final size:148
Alignment explanation
Indices: 640593--640884 Score: 392
Period size: 148 Copynumber: 2.0 Consensus size: 148
640583 AATTTTGTCA
* * *
640593 GTGATTTCGAAACTTTAATTTTCTCTCTTGAAGAGAAAGATCGCAGAAGATTTTTTTACCTAAGC
1 GTGATTTCGAAACTTTAATCTTCTCTCTTGAAGAGAAAGATCGCAAAAGATTTTTTTACCTAAAC
* * *
640658 TTGTTTAATGATTACCGAACTATCTTGGGTTACTTGTTCGGGAATTTATTTTCTCAACTGCATTA
66 TTGTATAATGATTACCGAACGATCTTGGGTTACTGGTTCGGGAATTTATTTTCTCAACTGCATTA
640723 TTTAAGAAT-TTTTGTGG
131 TTTAAGAATGTTTTGTGG
* * * * *
640740 GTGATTTC-AAATCTTTTATCTTCTTTCTTGATGAGAAAGATCTCAAAAGATTTTTTTTATCTAA
1 GTGATTTCGAAA-CTTTAATCTTCTCTCTTGAAGAGAAAGATCGCAAAAGA-TTTTTTTACCTAA
* * *
640804 ATTTGTATACTGATTACCGAACGATCTTGGGTTACTGGTTTC-TGAATTTATTTTCTCAACTGCA
64 ACTTGTATAATGATTACCGAACGATCTTGGGTTACTGG-TTCGGGAATTTATTTTCTCAACTGCA
* *
640868 TTGTTTAATAATGTTTT
128 TTATTTAAGAATGTTTT
640885 CCGGCGATCT
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
146 3 0.02
147 40 0.32
148 75 0.60
149 7 0.06
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (148 bp):
GTGATTTCGAAACTTTAATCTTCTCTCTTGAAGAGAAAGATCGCAAAAGATTTTTTTACCTAAAC
TTGTATAATGATTACCGAACGATCTTGGGTTACTGGTTCGGGAATTTATTTTCTCAACTGCATTA
TTTAAGAATGTTTTGTGG
Found at i:641279 original size:78 final size:77
Alignment explanation
Indices: 641171--641325 Score: 256
Period size: 78 Copynumber: 2.0 Consensus size: 77
641161 TCCATCTAAG
* * * *
641171 CTTGTATATTGATTATCGAACGATCTTGGCTTACTGGTTCGGGAAGTCCTTTGTATTTCAAAAAG
1 CTTGTATACTAATTACCGAACGATCTTGGCTTACTGGTTCGGGAAGTCCTTTGGATTTC-AAAAG
*
641236 AGAAGGTTGATAA
65 AGAAGGTTCATAA
641249 CTTGTATACTAATTACCGAACGATCTTGGCTTACTGGTTCGGGAAGTCCTTTGGATTTCAAAAGA
1 CTTGTATACTAATTACCGAACGATCTTGGCTTACTGGTTCGGGAAGTCCTTTGGATTTCAAAAGA
641314 GAAGGTTCATAA
66 GAAGGTTCATAA
641326 TGTCGCGGAG
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
77 17 0.24
78 55 0.76
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (77 bp):
CTTGTATACTAATTACCGAACGATCTTGGCTTACTGGTTCGGGAAGTCCTTTGGATTTCAAAAGA
GAAGGTTCATAA
Found at i:642210 original size:21 final size:21
Alignment explanation
Indices: 642186--642246 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
642176 TTCAAAGAAA
642186 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
642207 CATTT-TCAAA----G-AAA-
1 CATTTACCAAACTTTGAAAAC
642221 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
642242 CATTT
1 CATTT
642247 TTCAAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
16 1 0.03
19 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.05, T:0.31
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:642220 original size:35 final size:36
Alignment explanation
Indices: 642135--642253 Score: 188
Period size: 35 Copynumber: 3.3 Consensus size: 36
642125 ATCTCATTAT
* *
642135 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
*
642171 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
642207 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
642242 CATTTTTCAAAG
1 CATTTTTCAAAG
642254 TTTGTTACCA
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
35 35 0.45
36 22 0.29
37 20 0.26
ACGTcount: A:0.44, C:0.20, G:0.05, T:0.31
Consensus pattern (36 bp):
CATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
Found at i:642267 original size:34 final size:34
Alignment explanation
Indices: 642135--642280 Score: 163
Period size: 35 Copynumber: 4.2 Consensus size: 34
642125 ATCTCATTAT
* *
642135 CATTTTTCAACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAA-AGACATTTACCAAACTTTG-AAAAC
*
642171 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAG--ACATTTACCAAACTTTGAAAAC
642207 CA-TTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAG--ACATTTACCAAACTTTGAAAAC
**
642242 CATTTTTCAAAG-TTTGTTACCAAAC-TTGAAAAC
1 CATTTTTCAAAGACAT-TTACCAAACTTTGAAAAC
642275 CATTTT
1 CATTTT
642281 AATACTTTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 11
0.85 0.05 0.09
Matches are distributed among these distances:
33 15 0.15
34 9 0.09
35 36 0.36
36 24 0.24
37 16 0.16
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (34 bp):
CATTTTTCAAAGACATTTACCAAACTTTGAAAAC
Found at i:646333 original size:16 final size:16
Alignment explanation
Indices: 646309--646341 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
646299 TATCGCCGAC
*
646309 CGAATTTCACTATTCA
1 CGAAATTCACTATTCA
646325 CGAAATTCACTATTCA
1 CGAAATTCACTATTCA
646341 C
1 C
646342 ATGAATAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.33
Consensus pattern (16 bp):
CGAAATTCACTATTCA
Found at i:646360 original size:12 final size:12
Alignment explanation
Indices: 646343--646367 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
646333 ACTATTCACA
646343 TGAATAGTAACC
1 TGAATAGTAACC
646355 TGAATAGTAACC
1 TGAATAGTAACC
646367 T
1 T
646368 CGCAAAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (12 bp):
TGAATAGTAACC
Found at i:646821 original size:36 final size:37
Alignment explanation
Indices: 646750--646833 Score: 127
Period size: 36 Copynumber: 2.3 Consensus size: 37
646740 ATCCCATTAT
*
646750 CATTTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
* *
646786 TATTTTTCAAAGAAACATTTACCAAACTTTG-AAAAC
1 CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
646822 CATTTTTCAAAG
1 CATTTTTCAAAG
646834 TTTGTTACCA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 23 0.53
37 20 0.47
ACGTcount: A:0.43, C:0.20, G:0.05, T:0.32
Consensus pattern (37 bp):
CATTTTTCAAAGAAACATCTACCAAACTTTGAAAAAC
Found at i:646847 original size:34 final size:34
Alignment explanation
Indices: 646750--646860 Score: 118
Period size: 36 Copynumber: 3.2 Consensus size: 34
646740 ATCCCATTAT
* *
646750 CATTTTTCAACAAACATCTACCAAACTTTGAAAAAC
1 CATTTTTCAA-AGACATTTACCAAACTTTG-AAAAC
*
646786 TATTTTTCAAAGAAACATTTACCAAACTTTGAAAAC
1 CATTTTTCAAAG--ACATTTACCAAACTTTGAAAAC
**
646822 CATTTTTCAAAG-TTTGTTACCAAAC-TTGAAAAC
1 CATTTTTCAAAGACAT-TTACCAAACTTTGAAAAC
646855 CATTTT
1 CATTTT
646861 AATACTTTCA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
33 15 0.23
34 9 0.14
35 1 0.02
36 25 0.38
37 16 0.24
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (34 bp):
CATTTTTCAAAGACATTTACCAAACTTTGAAAAC
Found at i:650382 original size:24 final size:24
Alignment explanation
Indices: 650307--650382 Score: 57
Period size: 24 Copynumber: 3.0 Consensus size: 24
650297 TTTTTTATAA
650307 TTTTATTATAGTTTATGTTAA-ACT
1 TTTTATTATAGTTTATGTTAATA-T
* * *
650331 TTTT-TCATATTTTTATTGTAAAATATAT
1 TTTTATTATA-GTTTA-TGT--TA-ATAT
650359 TTTTATTATAGTTTATGTTAATAT
1 TTTTATTATAGTTTATGTTAATAT
650383 ATTTCATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
23 4 0.10
24 12 0.31
25 4 0.10
27 4 0.10
28 10 0.26
29 5 0.13
ACGTcount: A:0.30, C:0.03, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTTATTATAGTTTATGTTAATAT
Found at i:650392 original size:24 final size:24
Alignment explanation
Indices: 650313--650392 Score: 56
Period size: 26 Copynumber: 3.2 Consensus size: 24
650303 ATAATTTTAT
*
650313 TATAGTTTATGTTAA-ACTTTTTTCA
1 TATAGTTTATGTTAATA--TATTTCA
* * *
650338 TAT-TTTTATTGTAAAATATATTTTTA
1 TATAGTTTA-TGT-TAATATA-TTTCA
650364 TTATAGTTTATGTTAATATATTTCA
1 -TATAGTTTATGTTAATATATTTCA
650389 TATA
1 TATA
650393 TTAAAATATA
Statistics
Matches: 42, Mismatches: 7, Indels: 13
0.68 0.11 0.21
Matches are distributed among these distances:
24 8 0.19
25 11 0.26
26 12 0.29
27 7 0.17
28 4 0.10
ACGTcount: A:0.33, C:0.04, G:0.06, T:0.57
Consensus pattern (24 bp):
TATAGTTTATGTTAATATATTTCA
Found at i:656182 original size:26 final size:27
Alignment explanation
Indices: 656145--656202 Score: 75
Period size: 28 Copynumber: 2.2 Consensus size: 27
656135 TTATATTTTT
*
656145 TAAAAATTTTATT-TTTA-AAAAAAAC
1 TAAAAATATTATTATTTAGAAAAAAAC
*
656170 TAAAAAGTATTATTATTTAGAAAAACAC
1 TAAAAA-TATTATTATTTAGAAAAAAAC
656198 TAAAA
1 TAAAA
656203 TTTTCATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 6 0.21
26 6 0.21
27 4 0.14
28 12 0.43
ACGTcount: A:0.57, C:0.05, G:0.03, T:0.34
Consensus pattern (27 bp):
TAAAAATATTATTATTTAGAAAAAAAC
Found at i:656372 original size:77 final size:77
Alignment explanation
Indices: 656245--656400 Score: 276
Period size: 77 Copynumber: 2.0 Consensus size: 77
656235 TTTAGAATTA
*
656245 GTGGGTGAGATCAATGGATGGGTGGTCGGAGATGGTTGACGGTAGGAGTTGAGGGATTAGGGATT
1 GTGGGTGAGATCAATGGATGGGTGGTCGGAGATGGTTGACGGCAGGAGTTGAGGGATTAGGGATT
656310 TTAAAAATTTGG
66 TTAAAAATTTGG
* *
656322 GTGGGTGGGCTCAATGGATGGGTGGTCGGAGATGGTTGACGGCAGGAGTTGAGGGATTAGGGATT
1 GTGGGTGAGATCAATGGATGGGTGGTCGGAGATGGTTGACGGCAGGAGTTGAGGGATTAGGGATT
*
656387 TTAAAATTTTGG
66 TTAAAAATTTGG
656399 GT
1 GT
656401 TTTTTTTAAA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 75 1.00
ACGTcount: A:0.22, C:0.05, G:0.44, T:0.29
Consensus pattern (77 bp):
GTGGGTGAGATCAATGGATGGGTGGTCGGAGATGGTTGACGGCAGGAGTTGAGGGATTAGGGATT
TTAAAAATTTGG
Found at i:667705 original size:34 final size:32
Alignment explanation
Indices: 667666--667734 Score: 84
Period size: 34 Copynumber: 2.1 Consensus size: 32
667656 TTTTGTAAAG
* * *
667666 GGGAAATGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
667700 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
667732 GGG
1 GGG
667735 GGTTTGTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 10 0.32
33 1 0.03
34 20 0.65
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:672363 original size:2 final size:2
Alignment explanation
Indices: 672356--672381 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
672346 AATGAAATGA
672356 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
672382 GGTTAAAGCC
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:672520 original size:24 final size:24
Alignment explanation
Indices: 672452--672563 Score: 115
Period size: 24 Copynumber: 4.8 Consensus size: 24
672442 GGGTTCTAGC
* * *
672452 GGTCCTTCGGGGCAAA-TCTATGT
1 GGTCATTCGGGACAAATTCTACGT
* *
672475 GGTCTTTCGGGA-TAATTCTACGT
1 GGTCATTCGGGACAAATTCTACGT
*
672498 GGTCATTCGGGACAAATTCTACGC
1 GGTCATTCGGGACAAATTCTACGT
*
672522 GGTCATTCGAGACAAATTCTACGT
1 GGTCATTCGGGACAAATTCTACGT
672546 GG-CACTTCGGTG-CAAATT
1 GGTCA-TTCGG-GACAAATT
672564 ATATGAGCAG
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
22 2 0.03
23 29 0.39
24 43 0.57
25 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.30
Consensus pattern (24 bp):
GGTCATTCGGGACAAATTCTACGT
Found at i:676172 original size:20 final size:20
Alignment explanation
Indices: 676143--676185 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
676133 ATTCCACCAC
*
676143 ATGCAACTATATGTTCCTAA
1 ATGCAACTATATGATCCTAA
*
676163 ATGCATCTATATGATCCTAA
1 ATGCAACTATATGATCCTAA
676183 ATG
1 ATG
676186 GGATTTTAGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.19, G:0.12, T:0.35
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:677552 original size:24 final size:24
Alignment explanation
Indices: 677525--677573 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
677515 TCAGTTGGTT
*
677525 CCTCCTCATCGGCTGGCTGGTGAA
1 CCTCCTCATCGGCGGGCTGGTGAA
* *
677549 CCTCTTCATTGGCGGGCTGGTGAA
1 CCTCCTCATCGGCGGGCTGGTGAA
677573 C
1 C
677574 ATCTTCAGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.12, C:0.31, G:0.31, T:0.27
Consensus pattern (24 bp):
CCTCCTCATCGGCGGGCTGGTGAA
Found at i:677578 original size:24 final size:24
Alignment explanation
Indices: 677530--677580 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
677520 TGGTTCCTCC
* *
677530 TCATCGGCTGGCTGGTGAACCTCT
1 TCATCGGCGGGCTGGTGAACATCT
*
677554 TCATTGGCGGGCTGGTGAACATCT
1 TCATCGGCGGGCTGGTGAACATCT
677578 TCA
1 TCA
677581 GATGCTTCGG
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:0.16, C:0.25, G:0.29, T:0.29
Consensus pattern (24 bp):
TCATCGGCGGGCTGGTGAACATCT
Found at i:686051 original size:81 final size:81
Alignment explanation
Indices: 685946--687083 Score: 1566
Period size: 81 Copynumber: 14.1 Consensus size: 81
685936 TATTCCAAAA
* * * *
685946 TAAAATATTAATAGCCTAGCTGTGCATTTGGCATAAAGGTGTCAATTATGCTAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686011 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
686027 TAAAATATTAATAGTCTAGTTGTGCATTTGGTATAATGGTGTCAATTATGCCAGTTATATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686092 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
686108 TAAAAGATTAATAGCCCAGATGTGCATTTGGCAGAAAGGTGTCATTTATGTCAGGTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686173 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* *
686189 TAAAAGATTAATAGCATAGTTGTGTATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686254 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * * *
686270 TAAAATATTAATAGCCTAGATGTGCATTTGACATAAATGTGTCATTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686335 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * *
686351 TAAAAGATTAATGGCCTAGTTGTGTATTTGGCAGAAAGATGTCATTTATGCCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* *
686416 GTTAAATACCTTTTAC
66 GTTAAATACCTTTGAG
* * *
686432 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCATAAATGTGTCAATTATG-CAATTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
686496 GTTAAATACCTTAGAG
66 GTTAAATACCTTTGAG
** *
686512 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAATATGTCAATTATGTCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
*
686577 GTTAAATACCTTTGAC
66 GTTAAATACCTTTGAG
* * * * * *
686593 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAAAAATGTGTC-ATTAATACCATTTAGATGAAA
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATT-ATGCCAGTTAGATGAAA
686657 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * *
686674 TAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAATGTGTCATTTATGCCA-TATAGATGAAA
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGT-TAGATGAAA
686738 GGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * *
686755 TAAAAGATTAATAACCTAGTTGTGCATTTGGCAGAAAGGTGTCATTTATGTCAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686820 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * *
686836 TAAAAGATTAATAGCCTAGTTGTGCATTTGGAAGAAAAGTGTCAATTATGCCAATTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
686901 GTTAAATACCTTTGAG
66 GTTAAATACCTTTGAG
* * * * *
686917 TAAAAGATTAATGGTCTA-TCTATGCATTTGGCATAAAGGTGTCAATTATGTCAGTTAGATGAAA
1 TAAAAGATTAATAGCCTAGT-TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAA
*
686981 TGTTAAATACCTTTGAG
65 GGTTAAATACCTTTGAG
* * * * ** * * * *
686998 TAAAATATTAATGGCCTAGCTATGCATTTGATAGGAATGTGTCAATCATGCAAGTTAGATGAAAG
1 TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
* * *
687063 GCTATATGCCTTTG-G
66 GTTAAATACCTTTGAG
687078 TAAAAG
1 TAAAAG
687084 TCTAAATGTT
Statistics
Matches: 946, Mismatches: 104, Indels: 15
0.89 0.10 0.01
Matches are distributed among these distances:
80 85 0.09
81 858 0.91
82 3 0.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (81 bp):
TAAAAGATTAATAGCCTAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAG
GTTAAATACCTTTGAG
Found at i:688378 original size:24 final size:24
Alignment explanation
Indices: 688305--688359 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
688295 GAGTTAATGG
*
688305 TTCTATGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
688329 TTCTACGCGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
688353 TTCTACG
1 TTCTACG
688360 TGGCACTTCG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:692804 original size:14 final size:15
Alignment explanation
Indices: 692785--692813 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
692775 ATATCTATAT
692785 TATTGTTA-TATTTA
1 TATTGTTATTATTTA
692799 TATTGTTATTATTTA
1 TATTGTTATTATTTA
692814 CGTTATCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.66
Consensus pattern (15 bp):
TATTGTTATTATTTA
Found at i:693413 original size:31 final size:32
Alignment explanation
Indices: 693370--693449 Score: 117
Period size: 32 Copynumber: 2.5 Consensus size: 32
693360 ATTCAACGTC
*
693370 TAAGTGATCAAAACTTAAT-AAAACAATAACG
1 TAAGTGACCAAAACTTAATAAAAACAATAACG
* *
693401 TAATTGACCAAAACTTAATAAAAACAATAATG
1 TAAGTGACCAAAACTTAATAAAAACAATAACG
*
693433 TAAGTGACTAAAACTTA
1 TAAGTGACCAAAACTTA
693450 TGTTTTTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 17 0.40
32 26 0.60
ACGTcount: A:0.54, C:0.12, G:0.09, T:0.25
Consensus pattern (32 bp):
TAAGTGACCAAAACTTAATAAAAACAATAACG
Found at i:694081 original size:2 final size:2
Alignment explanation
Indices: 694074--694121 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
694064 GAATTGAAAC
694074 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
694116 TA -A TA T
1 TA TA TA T
694122 TTATTTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:710045 original size:21 final size:22
Alignment explanation
Indices: 710021--710075 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
710011 AGACTCTATC
710021 AATCCTACCA-CCACTACTGAA
1 AATCCTACCAGCCACTACTGAA
*
710042 AATCCTA-CAGCCACTGCTGAA
1 AATCCTACCAGCCACTACTGAA
*
710063 AGTCCTA-CAGCCA
1 AATCCTACCAGCCA
710076 TTGTAATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.35, C:0.36, G:0.11, T:0.18
Consensus pattern (22 bp):
AATCCTACCAGCCACTACTGAA
Found at i:715085 original size:20 final size:21
Alignment explanation
Indices: 715050--715088 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
715040 TCAAGGGTTA
715050 GGGATTGAGGGAATTGAAAAG
1 GGGATTGAGGGAATTGAAAAG
*
715071 GGGATTTAGGG-ATTGAAA
1 GGGATTGAGGGAATTGAAA
715089 TACGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (21 bp):
GGGATTGAGGGAATTGAAAAG
Found at i:718465 original size:20 final size:21
Alignment explanation
Indices: 718430--718468 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
718420 TCAAGGGTTA
718430 GGGATTGAGGGAATTGAAAAG
1 GGGATTGAGGGAATTGAAAAG
*
718451 GGGATTTAGGG-ATTGAAA
1 GGGATTGAGGGAATTGAAA
718469 CACGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (21 bp):
GGGATTGAGGGAATTGAAAAG
Found at i:724455 original size:59 final size:59
Alignment explanation
Indices: 724363--724480 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
724353 TTGGTCAGAA
724363 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
1 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
724422 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
1 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
724481 TATGGTAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (59 bp):
AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
Found at i:730190 original size:18 final size:18
Alignment explanation
Indices: 730166--730225 Score: 111
Period size: 18 Copynumber: 3.3 Consensus size: 18
730156 AATTAGATAC
730166 CTGAAAGCTTTCCTGGGA
1 CTGAAAGCTTTCCTGGGA
*
730184 TTGAAAGCTTTCCTGGGA
1 CTGAAAGCTTTCCTGGGA
730202 CTGAAAGCTTTCCTGGGA
1 CTGAAAGCTTTCCTGGGA
730220 CTGAAA
1 CTGAAA
730226 ATATTCACGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (18 bp):
CTGAAAGCTTTCCTGGGA
Found at i:732735 original size:21 final size:22
Alignment explanation
Indices: 732702--732742 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
732692 AAAATATTAA
*
732702 AAAAAAAATTAATGTTTTAAGT
1 AAAAAAAATTAATATTTTAAGT
*
732724 AAAAATAA-TAATATTTTAA
1 AAAAAAAATTAATATTTTAA
732743 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
AAAAAAAATTAATATTTTAAGT
Found at i:734417 original size:20 final size:20
Alignment explanation
Indices: 734394--734433 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
734384 CGCGAACTCC
734394 AATTTCGCAACACAGTTTCT
1 AATTTCGCAACACAGTTTCT
*
734414 AATTTCGCAACTCAGTTTCT
1 AATTTCGCAACACAGTTTCT
734434 GCAATCGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (20 bp):
AATTTCGCAACACAGTTTCT
Found at i:734461 original size:20 final size:20
Alignment explanation
Indices: 734438--734513 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
734428 GTTTCTGCAA
734438 TCGCAACGCG-ATTTCCAAAT
1 TCGCAACGCGAATTTCC-AAT
*
734458 TCGCAACACGAAATTT-CAAT
1 TCGCAACGCG-AATTTCCAAT
* * *
734478 TCACAACTCG-ATTTCTGAAT
1 TCGCAACGCGAATTTC-CAAT
734498 TCGCAACGCGAATTTC
1 TCGCAACGCGAATTTC
734514 TTTTTCGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.09
20 31 0.69
21 6 0.13
22 4 0.09
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGAATTTCCAAT
Found at i:734461 original size:60 final size:59
Alignment explanation
Indices: 734375--734533 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 59
734365 ATGACCAACA
* ** * * *
734375 AATTCGTAACGCGAACTCCAATTTCGCAACAC-AGTTTCTAATTTCGCAACTC-AGTTTCTG
1 AATTCGCAACGCGATTTCCAAATTCGCAACACAAATTTC-AA-TTCACAACTCGA-TTTCTG
734435 CAA-TCGCAACGCGATTTCCAAATTCGCAACACGAAATTTCAATTCACAACTCGATTTCTG
1 -AATTCGCAACGCGATTTCCAAATTCGCAACAC-AAATTTCAATTCACAACTCGATTTCTG
***
734495 AATTCGCAACGCGAATTT-CTTTTTCGCAACACAAATTTC
1 AATTCGCAACGCG-ATTTCCAAATTCGCAACACAAATTTC
734534 CTTTTCGCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
59 9 0.11
60 61 0.73
61 9 0.11
62 5 0.06
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (59 bp):
AATTCGCAACGCGATTTCCAAATTCGCAACACAAATTTCAATTCACAACTCGATTTCTG
Found at i:734520 original size:20 final size:20
Alignment explanation
Indices: 734497--734612 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
734487 GATTTCTGAA
* * *
734497 TTCGCAACGCGAATTTCTTT
1 TTCGCAACACAAATTTCCTT
734517 TTCGCAACACAAATTTCCTT
1 TTCGCAACACAAATTTCCTT
* * *
734537 TTCGCAACA-AGATTTTCTAA
1 TTCGCAACACAAATTTCCT-T
* **
734557 ATCGCAACACAAATTTTGTT
1 TTCGCAACACAAATTTCCTT
* * * ***
734577 TTCGCAACTCGATTTTCGAA
1 TTCGCAACACAAATTTCCTT
734597 TTCGCAACACAAATTT
1 TTCGCAACACAAATTT
734613 TAATTTCGCA
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
19 7 0.09
20 60 0.81
21 7 0.09
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (20 bp):
TTCGCAACACAAATTTCCTT
Found at i:734541 original size:40 final size:40
Alignment explanation
Indices: 734497--734648 Score: 146
Period size: 40 Copynumber: 3.9 Consensus size: 40
734487 GATTTCTGAA
* * **
734497 TTCGCAACGCGAATTTCTTTTTCGCAACACAAATTTCCTT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
* * **
734537 TTCGCAACAAGATTTTCTAAATCGCAACACAAATTTTGTT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
* * ***
734577 TTCGCAACTCGATTTTCGAATTCGCAACACAAATTTTAAT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
* * *
734617 TTCGCAACA-GCTTTTAT-TTTCGCAACACAAAT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAAT
734649 GTTTTGGGTA
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
38 14 0.15
39 5 0.05
40 74 0.80
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (40 bp):
TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
Found at i:734620 original size:20 final size:20
Alignment explanation
Indices: 734516--734648 Score: 82
Period size: 20 Copynumber: 6.8 Consensus size: 20
734506 CGAATTTCTT
***
734516 TTTCGCAACACAAATTTCCT
1 TTTCGCAACACAAATTTTAA
*
734536 TTTCGCAACA-AGATTTTCTAA
1 TTTCGCAACACA-AATTT-TAA
* **
734557 -ATCGCAACACAAATTTTGT
1 TTTCGCAACACAAATTTTAA
* *
734576 TTTCGCAACTC-GATTTTCGAA
1 TTTCGCAACACAAATTTT--AA
734597 -TTCGCAACACAAATTTTAA
1 TTTCGCAACACAAATTTTAA
*
734616 TTTCGCAACAGC---TTTTAT
1 TTTCGCAACA-CAAATTTTAA
734634 TTTCGCAACACAAAT
1 TTTCGCAACACAAAT
734649 GTTTTGGGTA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
17 1 0.01
18 15 0.18
19 9 0.11
20 53 0.62
21 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (20 bp):
TTTCGCAACACAAATTTTAA
Found at i:734801 original size:14 final size:15
Alignment explanation
Indices: 734782--734819 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
734772 TCCCCATCTC
734782 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
734796 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
734812 TAATTTTT
1 TAATTTTT
734820 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:735434 original size:12 final size:12
Alignment explanation
Indices: 735413--735446 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
735403 ACCACATTTC
*
735413 CAATACCAAACA
1 CAATATCAAACA
735425 CAATATCAAACA
1 CAATATCAAACA
*
735437 CAATCTCAAA
1 CAATATCAAA
735447 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:735618 original size:24 final size:24
Alignment explanation
Indices: 735573--735618 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
735563 TATTCGAAAT
* *
735573 TTGATCTTGGTTAATTCCCGGACA
1 TTGATCTTGGTCAATACCCGGACA
*
735597 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
735619 TTTTGATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACA
Found at i:735624 original size:24 final size:24
Alignment explanation
Indices: 735572--735625 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
735562 GTATTCGAAA
* *
735572 TTTGATCTTGGTTAATTCCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
735596 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
735620 TTTGAT
1 TTTGAT
735626 GTTCAGAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:738267 original size:20 final size:20
Alignment explanation
Indices: 738216--738273 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
738206 TCGTAACGCG
* *
738216 AATTTGACTTCCGCGTTGTG
1 AATTTGACTTTCGCGTTGTA
738236 AATTTGACTTTCGCGTTGTA
1 AATTTGACTTTCGCGTTGTA
* *
738256 AATTTGATTTTCGTGTTG
1 AATTTGACTTTCGCGTTG
738274 CGAAAGTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGTA
Found at i:739808 original size:42 final size:42
Alignment explanation
Indices: 739745--739834 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
739735 AATCGGGCTC
* * *
739745 TTGAATGGTGGGAGTGACCTCTTGCACGATGAGAGGGGCCTA
1 TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
* * *
739787 TTGAACGGTGGGAGAGGCCTCTTGAACGATGAGAGGGTCCTC
1 TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
739829 TTGAAC
1 TTGAAC
739835 AATAGGAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (42 bp):
TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
Found at i:739811 original size:21 final size:20
Alignment explanation
Indices: 739762--739860 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 20
739752 GTGGGAGTGA
*
739762 CCTCTTGCACGATGAGAGGGG
1 CCTCTTGAACGATGAGA-GGG
* * *
739783 CCTATTGAACGGTGGGAGAGG
1 CCTCTTGAACGATGAGAG-GG
739804 CCTCTTGAACGATGAGAGGG
1 CCTCTTGAACGATGAGAGGG
*
739824 TCCTCTTGAACAAT-AGGAGGGG
1 -CCTCTTGAACGATGA-GA-GGG
*
739846 CCTATTGAACGATGA
1 CCTCTTGAACGATGA
739861 CAGGTGAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
20 4 0.06
21 55 0.87
22 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.21
Consensus pattern (20 bp):
CCTCTTGAACGATGAGAGGG
Found at i:739848 original size:42 final size:42
Alignment explanation
Indices: 739762--739860 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
739752 GTGGGAGTGA
* ** *
739762 CCTCTTGCACGATGAGAGGGGCCTATTGAACGGTGGGAGAGG
1 CCTCTTGAACGATGAGAGGGGCCTATTGAACAATAGGAGAGG
* * *
739804 CCTCTTGAACGATGAGAGGGTCCTCTTGAACAATAGGAGGGG
1 CCTCTTGAACGATGAGAGGGGCCTATTGAACAATAGGAGAGG
*
739846 CCTATTGAACGATGA
1 CCTCTTGAACGATGA
739861 CAGGTGAATC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.21
Consensus pattern (42 bp):
CCTCTTGAACGATGAGAGGGGCCTATTGAACAATAGGAGAGG
Found at i:740165 original size:21 final size:21
Alignment explanation
Indices: 740141--740182 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
740131 TGAAACAATC
*
740141 TCACGTAGAGT-GACTACCTCA
1 TCACGTAAAGTAGA-TACCTCA
740162 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGTAGATACCTCA
740183 CCACATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (21 bp):
TCACGTAAAGTAGATACCTCA
Found at i:740294 original size:21 final size:21
Alignment explanation
Indices: 740268--740314 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
740258 ATTATCGTCG
*
740268 CGTAAAGTACCGACCTCATCA
1 CGTAAAGCACCGACCTCATCA
*
740289 CGTAAAGCACTGACCTCATCA
1 CGTAAAGCACCGACCTCATCA
740310 CGTAA
1 CGTAA
740315 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (21 bp):
CGTAAAGCACCGACCTCATCA
Found at i:740314 original size:42 final size:41
Alignment explanation
Indices: 740215--740314 Score: 103
Period size: 42 Copynumber: 2.4 Consensus size: 41
740205 CGTAAAACAT
* *
740215 CTACCTCACCACGTAAAGACCGTACCTCATCACGCCAAGCA
1 CTACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCA
** * * *
740256 CTATTATCGTCGCGTAAAGTACCG-ACCTCATCACGTAAAGCA
1 CTA-CCTCATCACGTAAAG-ACCGTACCTCATCACGCAAAGCA
740298 CTGACCTCATCACGTAA
1 CT-ACCTCATCACGTAA
740315 CTCCCCTAAC
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
41 3 0.07
42 37 0.82
43 5 0.11
ACGTcount: A:0.31, C:0.35, G:0.14, T:0.20
Consensus pattern (41 bp):
CTACCTCATCACGTAAAGACCGTACCTCATCACGCAAAGCA
Found at i:741214 original size:21 final size:22
Alignment explanation
Indices: 741190--741244 Score: 71
Period size: 21 Copynumber: 2.6 Consensus size: 22
741180 AGACTCTATC
741190 AATCCTACCA-CCACTACTGAA
1 AATCCTACCAGCCACTACTGAA
*
741211 AATCCTA-CAGCCACTGCTGAA
1 AATCCTACCAGCCACTACTGAA
*
741232 AGTCCTA-CAGCCA
1 AATCCTACCAGCCA
741245 TTGTAATTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 2 0.06
21 29 0.94
ACGTcount: A:0.35, C:0.36, G:0.11, T:0.18
Consensus pattern (22 bp):
AATCCTACCAGCCACTACTGAA
Found at i:746260 original size:20 final size:21
Alignment explanation
Indices: 746225--746263 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
746215 TCAAGGGTTA
746225 GGGATTGAGGGAATTGAAAAG
1 GGGATTGAGGGAATTGAAAAG
*
746246 GGGATTTAGGG-ATTGAAA
1 GGGATTGAGGGAATTGAAA
746264 TACGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (21 bp):
GGGATTGAGGGAATTGAAAAG
Found at i:749847 original size:20 final size:21
Alignment explanation
Indices: 749812--749850 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
749802 TCAAGGGTTA
749812 GGGATTGAGGGAATTGAAAAG
1 GGGATTGAGGGAATTGAAAAG
*
749833 GGGATTTAGGG-ATTGAAA
1 GGGATTGAGGGAATTGAAA
749851 CACGAGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.36, C:0.00, G:0.41, T:0.23
Consensus pattern (21 bp):
GGGATTGAGGGAATTGAAAAG
Found at i:755837 original size:59 final size:59
Alignment explanation
Indices: 755745--755862 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
755735 TTGGTCAGAA
755745 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
1 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
755804 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
1 AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
755863 TATGGTAGAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.29
Consensus pattern (59 bp):
AGGTAAGGGCTTAGGACAAAGTTGAAATATTCTCTACCATTGTCAGTTCGGAGAGTATG
Found at i:760964 original size:18 final size:18
Alignment explanation
Indices: 760940--760999 Score: 111
Period size: 18 Copynumber: 3.3 Consensus size: 18
760930 AATTAGATAC
760940 CTGAAAGCTTTCCTGGGA
1 CTGAAAGCTTTCCTGGGA
*
760958 TTGAAAGCTTTCCTGGGA
1 CTGAAAGCTTTCCTGGGA
760976 CTGAAAGCTTTCCTGGGA
1 CTGAAAGCTTTCCTGGGA
760994 CTGAAA
1 CTGAAA
761000 ATATTCACGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (18 bp):
CTGAAAGCTTTCCTGGGA
Found at i:763499 original size:21 final size:22
Alignment explanation
Indices: 763466--763506 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
763456 AAAAATATTA
*
763466 AAAAAAAATTAATGTTTTAAGT
1 AAAAAAAATTAATATTTTAAGT
*
763488 AAAAATAA-TAATATTTTAA
1 AAAAAAAATTAATATTTTAA
763507 ATAATTTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.37
Consensus pattern (22 bp):
AAAAAAAATTAATATTTTAAGT
Found at i:765173 original size:20 final size:20
Alignment explanation
Indices: 765150--765189 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
765140 CGCGAACTCC
765150 AATTTCGCAACACAGTTTCT
1 AATTTCGCAACACAGTTTCT
*
765170 AATTTCGCAACTCAGTTTCT
1 AATTTCGCAACACAGTTTCT
765190 GCAATCGCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.38
Consensus pattern (20 bp):
AATTTCGCAACACAGTTTCT
Found at i:765217 original size:20 final size:20
Alignment explanation
Indices: 765194--765269 Score: 68
Period size: 20 Copynumber: 3.8 Consensus size: 20
765184 GTTTCTGCAA
765194 TCGCAACGCG-ATTTCCAAAT
1 TCGCAACGCGAATTTCC-AAT
*
765214 TCGCAACACGAAATTT-CAAT
1 TCGCAACGCG-AATTTCCAAT
* * *
765234 TCACAACTCG-ATTTCTGAAT
1 TCGCAACGCGAATTTC-CAAT
765254 TCGCAACGCGAATTTC
1 TCGCAACGCGAATTTC
765270 TTTTTCGCAA
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
18 4 0.09
20 31 0.69
21 6 0.13
22 4 0.09
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGAATTTCCAAT
Found at i:765217 original size:60 final size:59
Alignment explanation
Indices: 765131--765289 Score: 155
Period size: 60 Copynumber: 2.7 Consensus size: 59
765121 ATGACCAACA
* ** * * *
765131 AATTCGTAACGCGAACTCCAATTTCGCAACAC-AGTTTCTAATTTCGCAACTC-AGTTTCTG
1 AATTCGCAACGCGATTTCCAAATTCGCAACACAAATTTC-AA-TTCACAACTCGA-TTTCTG
765191 CAA-TCGCAACGCGATTTCCAAATTCGCAACACGAAATTTCAATTCACAACTCGATTTCTG
1 -AATTCGCAACGCGATTTCCAAATTCGCAACAC-AAATTTCAATTCACAACTCGATTTCTG
***
765251 AATTCGCAACGCGAATTT-CTTTTTCGCAACACAAATTTC
1 AATTCGCAACGCG-ATTTCCAAATTCGCAACACAAATTTC
765290 CTTTTCGCAA
Statistics
Matches: 84, Mismatches: 9, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
59 9 0.11
60 61 0.73
61 9 0.11
62 5 0.06
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (59 bp):
AATTCGCAACGCGATTTCCAAATTCGCAACACAAATTTCAATTCACAACTCGATTTCTG
Found at i:765276 original size:20 final size:20
Alignment explanation
Indices: 765253--765368 Score: 81
Period size: 20 Copynumber: 5.8 Consensus size: 20
765243 GATTTCTGAA
* * *
765253 TTCGCAACGCGAATTTCTTT
1 TTCGCAACACAAATTTCCTT
765273 TTCGCAACACAAATTTCCTT
1 TTCGCAACACAAATTTCCTT
* * *
765293 TTCGCAACA-AGATTTTCTAA
1 TTCGCAACACAAATTTCCT-T
* **
765313 ATCGCAACACAAATTTTGTT
1 TTCGCAACACAAATTTCCTT
* * * ***
765333 TTCGCAACTCGATTTTCGAA
1 TTCGCAACACAAATTTCCTT
765353 TTCGCAACACAAATTT
1 TTCGCAACACAAATTT
765369 TAATTTCGCA
Statistics
Matches: 74, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
19 7 0.09
20 60 0.81
21 7 0.09
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.35
Consensus pattern (20 bp):
TTCGCAACACAAATTTCCTT
Found at i:765297 original size:40 final size:40
Alignment explanation
Indices: 765253--765404 Score: 146
Period size: 40 Copynumber: 3.9 Consensus size: 40
765243 GATTTCTGAA
* * **
765253 TTCGCAACGCGAATTTCTTTTTCGCAACACAAATTTCCTT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
* * **
765293 TTCGCAACAAGATTTTCTAAATCGCAACACAAATTTTGTT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
* * ***
765333 TTCGCAACTCGATTTTCGAATTCGCAACACAAATTTTAAT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
* * *
765373 TTCGCAACA-GCTTTTAT-TTTCGCAACACAAAT
1 TTCGCAACACGATTTTCTAATTCGCAACACAAAT
765405 GTTTTGGGTA
Statistics
Matches: 93, Mismatches: 19, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
38 14 0.15
39 5 0.05
40 74 0.80
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.36
Consensus pattern (40 bp):
TTCGCAACACGATTTTCTAATTCGCAACACAAATTTCCTT
Found at i:765376 original size:20 final size:20
Alignment explanation
Indices: 765272--765404 Score: 82
Period size: 20 Copynumber: 6.8 Consensus size: 20
765262 CGAATTTCTT
***
765272 TTTCGCAACACAAATTTCCT
1 TTTCGCAACACAAATTTTAA
*
765292 TTTCGCAACA-AGATTTTCTAA
1 TTTCGCAACACA-AATTT-TAA
* **
765313 -ATCGCAACACAAATTTTGT
1 TTTCGCAACACAAATTTTAA
* *
765332 TTTCGCAACTC-GATTTTCGAA
1 TTTCGCAACACAAATTTT--AA
765353 -TTCGCAACACAAATTTTAA
1 TTTCGCAACACAAATTTTAA
*
765372 TTTCGCAACAGC---TTTTAT
1 TTTCGCAACA-CAAATTTTAA
765390 TTTCGCAACACAAAT
1 TTTCGCAACACAAAT
765405 GTTTTGGGTA
Statistics
Matches: 85, Mismatches: 16, Indels: 24
0.68 0.13 0.19
Matches are distributed among these distances:
17 1 0.01
18 15 0.18
19 9 0.11
20 53 0.62
21 7 0.08
ACGTcount: A:0.32, C:0.23, G:0.09, T:0.35
Consensus pattern (20 bp):
TTTCGCAACACAAATTTTAA
Found at i:765557 original size:14 final size:15
Alignment explanation
Indices: 765538--765575 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
765528 TCCCCATCTC
765538 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
765552 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
765568 TAATTTTT
1 TAATTTTT
765576 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:766191 original size:12 final size:12
Alignment explanation
Indices: 766170--766204 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
766160 ACCACATTTC
*
766170 CAATACCAAACA
1 CAATATCAAACA
766182 CAATATCAAACA
1 CAATATCAAACA
*
766194 CAATCTCAAAC
1 CAATATCAAAC
766205 CCACAACCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.14
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:766374 original size:24 final size:24
Alignment explanation
Indices: 766329--766374 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
766319 TATTCGAAAT
* *
766329 TTGATCTTGGTTAATTCCCGGACA
1 TTGATCTTGGTCAATACCCGGACA
*
766353 TTGATCTTGGTCAATACTCGGA
1 TTGATCTTGGTCAATACCCGGA
766375 TTTTGATGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (24 bp):
TTGATCTTGGTCAATACCCGGACA
Found at i:766380 original size:24 final size:24
Alignment explanation
Indices: 766328--766381 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
766318 GTATTCGAAA
* *
766328 TTTGATCTTGGTTAATTCCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* * *
766352 ATTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
766376 TTTGAT
1 TTTGAT
766382 GTTCAGAAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:769001 original size:20 final size:20
Alignment explanation
Indices: 768950--769007 Score: 80
Period size: 20 Copynumber: 2.9 Consensus size: 20
768940 TCGTAACGCG
* *
768950 AATTTGACTTCCGCGTTGTG
1 AATTTGACTTTCGCGTTGTA
768970 AATTTGACTTTCGCGTTGTA
1 AATTTGACTTTCGCGTTGTA
* *
768990 AATTTGATTTTCGTGTTG
1 AATTTGACTTTCGCGTTG
769008 CGAAAGTGTA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.17, C:0.14, G:0.22, T:0.47
Consensus pattern (20 bp):
AATTTGACTTTCGCGTTGTA
Found at i:770357 original size:42 final size:42
Alignment explanation
Indices: 770294--770383 Score: 126
Period size: 42 Copynumber: 2.1 Consensus size: 42
770284 AATCGGGCTC
* * *
770294 TTGAATGGTGGGAGTGACCTCTTGCACGATGAGAGGGGCCTA
1 TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
* * *
770336 TTGAACGGTGGGAGAGGCCTCTTGAACGATGAGAGGGTCCTC
1 TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
770378 TTGAAC
1 TTGAAC
770384 AATAGGAGGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.23
Consensus pattern (42 bp):
TTGAACGGTGGGAGAGACCTCTTGAACGATGAGAGGGGCCTA
Found at i:770360 original size:21 final size:20
Alignment explanation
Indices: 770311--770409 Score: 92
Period size: 21 Copynumber: 4.8 Consensus size: 20
770301 GTGGGAGTGA
*
770311 CCTCTTGCACGATGAGAGGGG
1 CCTCTTGAACGATGAGA-GGG
* * *
770332 CCTATTGAACGGTGGGAGAGG
1 CCTCTTGAACGATGAGAG-GG
770353 CCTCTTGAACGATGAGAGGG
1 CCTCTTGAACGATGAGAGGG
*
770373 TCCTCTTGAACAAT-AGGAGGGG
1 -CCTCTTGAACGATGA-GA-GGG
*
770395 CCTATTGAACGATGA
1 CCTCTTGAACGATGA
770410 CAGGTGAATC
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
20 4 0.06
21 55 0.87
22 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.21
Consensus pattern (20 bp):
CCTCTTGAACGATGAGAGGG
Found at i:770397 original size:42 final size:42
Alignment explanation
Indices: 770311--770409 Score: 126
Period size: 42 Copynumber: 2.4 Consensus size: 42
770301 GTGGGAGTGA
* ** *
770311 CCTCTTGCACGATGAGAGGGGCCTATTGAACGGTGGGAGAGG
1 CCTCTTGAACGATGAGAGGGGCCTATTGAACAATAGGAGAGG
* * *
770353 CCTCTTGAACGATGAGAGGGTCCTCTTGAACAATAGGAGGGG
1 CCTCTTGAACGATGAGAGGGGCCTATTGAACAATAGGAGAGG
*
770395 CCTATTGAACGATGA
1 CCTCTTGAACGATGA
770410 CAGGTGAATC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.21
Consensus pattern (42 bp):
CCTCTTGAACGATGAGAGGGGCCTATTGAACAATAGGAGAGG
Found at i:770706 original size:21 final size:21
Alignment explanation
Indices: 770682--770723 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
770672 TGAAACAATC
*
770682 TCACGTAGAGT-GACTACCTCA
1 TCACGTAAAGTAGA-TACCTCA
770703 TCACGTAAAGTAGATACCTCA
1 TCACGTAAAGTAGATACCTCA
770724 CCACATAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (21 bp):
TCACGTAAAGTAGATACCTCA
Found at i:770832 original size:21 final size:21
Alignment explanation
Indices: 770806--770852 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
770796 CTATTATCGT
*
770806 CGTAAAGTACCGACCTCATCA
1 CGTAAAGCACCGACCTCATCA
*
770827 CGTAAAGCACTGACCTCATCA
1 CGTAAAGCACCGACCTCATCA
770848 CGTAA
1 CGTAA
770853 CTCCCCTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.34, C:0.32, G:0.15, T:0.19
Consensus pattern (21 bp):
CGTAAAGCACCGACCTCATCA
Found at i:771467 original size:20 final size:20
Alignment explanation
Indices: 771442--771485 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
771432 TGTTCCATGC
*
771442 ATTTGACTTCCGCGCTGCGA
1 ATTTGACTTCCACGCTGCGA
* *
771462 ATTTGACTTTCACGTTGCGA
1 ATTTGACTTCCACGCTGCGA
771482 ATTT
1 ATTT
771486 TATTATCGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (20 bp):
ATTTGACTTCCACGCTGCGA
Found at i:771535 original size:20 final size:20
Alignment explanation
Indices: 771510--771549 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
771500 GAAAATCGTA
771510 ATGCAAATTTAACTTTCGCG
1 ATGCAAATTTAACTTTCGCG
* *
771530 ATGCAAATTTGATTTTCGCG
1 ATGCAAATTTAACTTTCGCG
771550 TTGCGAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.38
Consensus pattern (20 bp):
ATGCAAATTTAACTTTCGCG
Found at i:773053 original size:21 final size:21
Alignment explanation
Indices: 773027--773123 Score: 119
Period size: 21 Copynumber: 4.7 Consensus size: 21
773017 GTGGGAGTGA
773027 CCTCTTGAACGATGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
773048 CCTCTTGAACG--GGGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
773067 CCTCTTGAATGATGAGAGGGG
1 CCTCTTGAACGATGAGAGGGG
*
773088 CCTCTTGAACAAT-AGGAGGGG
1 CCTCTTGAACGATGA-GAGGGG
* *
773109 CCTATTGAATGATGA
1 CCTCTTGAACGATGA
773124 TAGGTAAATG
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
19 17 0.27
20 1 0.02
21 45 0.70
22 1 0.02
ACGTcount: A:0.25, C:0.18, G:0.36, T:0.22
Consensus pattern (21 bp):
CCTCTTGAACGATGAGAGGGG
Found at i:773066 original size:19 final size:20
Alignment explanation
Indices: 773008--773097 Score: 101
Period size: 21 Copynumber: 4.5 Consensus size: 20
772998 GTGAATCGGG
* * * *
773008 CTCTTGAAGGTGGGAGTGAC
1 CTCTTGAACGTGAGAGGGGC
773028 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAACG-TGAGAGGGGC
*
773049 CTCTTGAACG-GGGAGGGGC
1 CTCTTGAACGTGAGAGGGGC
*
773068 CTCTTGAATGATGAGAGGGGC
1 CTCTTGAACG-TGAGAGGGGC
773089 CTCTTGAAC
1 CTCTTGAAC
773098 AATAGGAGGG
Statistics
Matches: 59, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
19 17 0.29
20 9 0.15
21 33 0.56
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (20 bp):
CTCTTGAACGTGAGAGGGGC
Found at i:773071 original size:40 final size:41
Alignment explanation
Indices: 773008--773097 Score: 137
Period size: 40 Copynumber: 2.2 Consensus size: 41
772998 GTGAATCGGG
* *
773008 CTCTTGAAGGTGGGAGTGACCTCTTGAACGATGAGAGGGGC
1 CTCTTGAACGTGGGAGGGACCTCTTGAACGATGAGAGGGGC
* *
773049 CTCTTGAACG-GGGAGGGGCCTCTTGAATGATGAGAGGGGC
1 CTCTTGAACGTGGGAGGGACCTCTTGAACGATGAGAGGGGC
773089 CTCTTGAAC
1 CTCTTGAAC
773098 AATAGGAGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 36 0.80
41 9 0.20
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGTGGGAGGGACCTCTTGAACGATGAGAGGGGC
Found at i:773119 original size:42 final size:40
Alignment explanation
Indices: 773031--773123 Score: 132
Period size: 40 Copynumber: 2.3 Consensus size: 40
773021 GAGTGACCTC
* * *
773031 TTGAACGATGAGAGGGGCCTCTTGAACGGGGAGGGGCCTC
1 TTGAATGATGAGAGGGGCCTCTTGAACGAGGAGGGGCCTA
*
773071 TTGAATGATGAGAGGGGCCTCTTGAACAATAGGAGGGGCCTA
1 TTGAATGATGAGAGGGGCCTCTTGAAC--GAGGAGGGGCCTA
773113 TTGAATGATGA
1 TTGAATGATGA
773124 TAGGTAAATG
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
40 26 0.55
42 21 0.45
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.22
Consensus pattern (40 bp):
TTGAATGATGAGAGGGGCCTCTTGAACGAGGAGGGGCCTA
Found at i:773542 original size:21 final size:21
Alignment explanation
Indices: 773518--773558 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
773508 GTCGTCATGT
*
773518 AAAGTACCGACCTCATCACGC
1 AAAGCACCGACCTCATCACGC
*
773539 AAAGCACTGACCTCATCACG
1 AAAGCACCGACCTCATCACG
773559 TAACTCCCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.15
Consensus pattern (21 bp):
AAAGCACCGACCTCATCACGC
Found at i:773897 original size:64 final size:63
Alignment explanation
Indices: 773796--773925 Score: 242
Period size: 64 Copynumber: 2.0 Consensus size: 63
773786 CAATCAGTGA
773796 CAAGCTCAGCCTCTGGGTGTCAGCCTCTATAATGGATAGTTTGCCTCCTAATAATATAAAAGCT
1 CAAGCTCAGCCTCTGGGTGTCAGCCTCTATAATGGATAGTTTGCCTCCTAATAATAT-AAAGCT
*
773860 CAAGCTCAGCCTCTGGTTGTCAGCCTCTATAATGGATAGTTTGCCTCCTAATAATATAAAGCT
1 CAAGCTCAGCCTCTGGGTGTCAGCCTCTATAATGGATAGTTTGCCTCCTAATAATATAAAGCT
773923 CAA
1 CAA
773926 ACAAAGTCAA
Statistics
Matches: 65, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
63 9 0.14
64 56 0.86
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (63 bp):
CAAGCTCAGCCTCTGGGTGTCAGCCTCTATAATGGATAGTTTGCCTCCTAATAATATAAAGCT
Found at i:775163 original size:20 final size:20
Alignment explanation
Indices: 775134--775192 Score: 82
Period size: 20 Copynumber: 3.0 Consensus size: 20
775124 TCGCGTTGCG
*
775134 ATTTTTGTGTTGCGAATTTC
1 ATTTTCGTGTTGCGAATTTC
* *
775154 ATTTTCGTGTTACAAATTTC
1 ATTTTCGTGTTGCGAATTTC
*
775174 ATTTTCGTGTTGTGAATTT
1 ATTTTCGTGTTGCGAATTT
775193 AAGTTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.19, C:0.10, G:0.17, T:0.54
Consensus pattern (20 bp):
ATTTTCGTGTTGCGAATTTC
Found at i:775586 original size:21 final size:22
Alignment explanation
Indices: 775537--775586 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
775527 ATAGAGGGGG
* *
775537 GTCGTCGGATATGAGGACAGAT
1 GTCGCCGGAGATGAGGACAGAT
* *
775559 TTCGCCGGAGATGGGGAC-GAT
1 GTCGCCGGAGATGAGGACAGAT
775580 GTCGCCG
1 GTCGCCG
775587 TAGAGAGTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.20, C:0.20, G:0.40, T:0.20
Consensus pattern (22 bp):
GTCGCCGGAGATGAGGACAGAT
Found at i:775732 original size:18 final size:19
Alignment explanation
Indices: 775711--775756 Score: 76
Period size: 18 Copynumber: 2.5 Consensus size: 19
775701 ATAACGTGCT
775711 TTGCGAATTTGACT-TATG
1 TTGCGAATTTGACTCTATG
775729 TTGCGAATTTGACTCTATG
1 TTGCGAATTTGACTCTATG
*
775748 TTACGAATT
1 TTGCGAATT
775757 ACAAATTCGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 14 0.54
19 12 0.46
ACGTcount: A:0.24, C:0.13, G:0.20, T:0.43
Consensus pattern (19 bp):
TTGCGAATTTGACTCTATG
Found at i:789576 original size:29 final size:29
Alignment explanation
Indices: 789523--789605 Score: 103
Period size: 29 Copynumber: 2.8 Consensus size: 29
789513 AATTAACATC
*
789523 TTAACATTAAAAATATAATTATATTCTAATA
1 TTAAC-TTAAAAATAT-ATTTTATTCTAATA
* * *
789554 TTAACTTAAAAATCTATTTTATTCTTATT
1 TTAACTTAAAAATATATTTTATTCTAATA
*
789583 TTAACTTAAAAATATTTTTTATT
1 TTAACTTAAAAATATATTTTATT
789606 AACTTAAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 32 0.70
30 9 0.20
31 5 0.11
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.51
Consensus pattern (29 bp):
TTAACTTAAAAATATATTTTATTCTAATA
Found at i:789623 original size:20 final size:21
Alignment explanation
Indices: 789583--789625 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
789573 TATTCTTATT
**
789583 TTAACTTAAAAATATTTTTTA
1 TTAACTTAAAAATATAATTTA
789604 TTAACTTAAAAA-ATAATTTA
1 TTAACTTAAAAATATAATTTA
789624 TT
1 TT
789626 CTCACATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAACTTAAAAATATAATTTA
Found at i:789704 original size:32 final size:31
Alignment explanation
Indices: 789668--789815 Score: 159
Period size: 32 Copynumber: 4.9 Consensus size: 31
789658 TTATAATATT
789668 TTAAAATTAAAATAAAAATATATATTTTTAAA
1 TTAAAA-TAAAATAAAAATATATATTTTTAAA
789700 TT-AAA-AAAAT--AAA-ATATATTTTTAAA
1 TTAAAATAAAATAAAAATATATATTTTTAAA
* *
789726 TTAAAACAAAA-ACAAAATATACATTTTTAAA
1 TTAAAATAAAATA-AAAATATATATTTTTAAA
* *
789757 TTAAAATAAAAATAAAAATATACATTTTTAAG
1 TTAAAAT-AAAATAAAAATATATATTTTTAAA
789789 TTAAAAATAAGAAT-AAAATATAT-TTTT
1 TT-AAAATAA-AATAAAAATATATATTTT
789816 ATGTTAAAAT
Statistics
Matches: 102, Mismatches: 4, Indels: 21
0.80 0.03 0.17
Matches are distributed among these distances:
26 15 0.15
27 6 0.06
28 4 0.04
29 5 0.05
30 3 0.03
31 25 0.25
32 35 0.34
33 9 0.09
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.36
Consensus pattern (31 bp):
TTAAAATAAAATAAAAATATATATTTTTAAA
Done.