Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001145.1 Hibiscus syriacus cultivar Beakdansim tig00002287_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: 134239
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:7612 original size:27 final size:27
Alignment explanation
Indices: 7581--7636 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
7571 CTAATTTGAT
7581 ACCAAATCATTATTCTCATGTAGGCCA
1 ACCAAATCATTATTCTCATGTAGGCCA
7608 ACCAAATCATTATTCTCATGTAGGCCA
1 ACCAAATCATTATTCTCATGTAGGCCA
7635 AC
1 AC
7637 GAAAGGGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.29
Consensus pattern (27 bp):
ACCAAATCATTATTCTCATGTAGGCCA
Found at i:8347 original size:15 final size:15
Alignment explanation
Indices: 8315--8343 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
8305 ATAAATACTG
8315 GTAAAACTAAACTAA
1 GTAAAACTAAACTAA
8330 GTAAAA-TAAACTAA
1 GTAAAACTAAACTAA
8344 AGTAGTTCTA
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:0.62, C:0.10, G:0.07, T:0.21
Consensus pattern (15 bp):
GTAAAACTAAACTAA
Found at i:17372 original size:10 final size:10
Alignment explanation
Indices: 17333--17365 Score: 66
Period size: 10 Copynumber: 3.3 Consensus size: 10
17323 ACAAGAAACC
17333 AAATAAAATG
1 AAATAAAATG
17343 AAATAAAATG
1 AAATAAAATG
17353 AAATAAAATG
1 AAATAAAATG
17363 AAA
1 AAA
17366 AAGAATGGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (10 bp):
AAATAAAATG
Found at i:21101 original size:311 final size:311
Alignment explanation
Indices: 20531--21162 Score: 1255
Period size: 311 Copynumber: 2.0 Consensus size: 311
20521 AGATGATGAC
*
20531 GCAAAAGGCTGATGGGGCGAAAACCGACAAAAGTTTTCAGATTAGTCACCTAGACTACCGTATAT
1 GCAAAAAGCTGATGGGGCGAAAACCGACAAAAGTTTTCAGATTAGTCACCTAGACTACCGTATAT
20596 GATATGAAGTGAGAAAGTTGCATGAACCATGGCACAAATAGATGGTTTGACAGTGTCCCAATTAT
66 GATATGAAGTGAGAAAGTTGCATGAACCATGGCACAAATAGATGGTTTGACAGTGTCCCAATTAT
20661 TTTGGAAAAACTGAGCATGAAGACCGTCGATACCGGGGTGCTTTTAGAGGCCTCATCGCAAACAA
131 TTTGGAAAAACTGAGCATGAAGACCGTCGATACCGGGGTGCTTTTAGAGGCCTCATCGCAAACAA
20726 AGCAAACTTGATTTCTTCTTACGAAGGAGTGGGTGATAAGATCAAGGTGAGTGTAGCAGACAACG
196 AGCAAACTTGATTTCTTCTTACGAAGGAGTGGGTGATAAGATCAAGGTGAGTGTAGCAGACAACG
20791 AAGGAAATCTGCTTGAAATAGGATACAAACCCGACGGGGGGCTCATTATCA
261 AAGGAAATCTGCTTGAAATAGGATACAAACCCGACGGGGGGCTCATTATCA
20842 GCAAAAAGCTGATGGGGCGAAAACCGACAAAAGTTTTCAGATTAGTCACCTAGACTACCGTATAT
1 GCAAAAAGCTGATGGGGCGAAAACCGACAAAAGTTTTCAGATTAGTCACCTAGACTACCGTATAT
20907 GATATGAAGTGAGAAAGTTGCATGAACCATGGCACAAATAGATGGTTTGACAGTGTCCCAATTAT
66 GATATGAAGTGAGAAAGTTGCATGAACCATGGCACAAATAGATGGTTTGACAGTGTCCCAATTAT
20972 TTTGGAAAAACTGAGCATGAAGACCGTCGATACCGGGGTGCTTTTAGAGGCCTCATCGCAAACAA
131 TTTGGAAAAACTGAGCATGAAGACCGTCGATACCGGGGTGCTTTTAGAGGCCTCATCGCAAACAA
21037 AGCAAACTTGATTTCTTCTTACGAAGGAGTGGGTGATAAGATCAAGGTGAGTGTAGCAGACAACG
196 AGCAAACTTGATTTCTTCTTACGAAGGAGTGGGTGATAAGATCAAGGTGAGTGTAGCAGACAACG
21102 AAGGAAATCTGCTTGAAATAGGATACAAACCCGACGGGGGGCTCATTATCA
261 AAGGAAATCTGCTTGAAATAGGATACAAACCCGACGGGGGGCTCATTATCA
21153 GCAAAAAGCT
1 GCAAAAAGCT
21163 CTACAAAGTA
Statistics
Matches: 320, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
311 320 1.00
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (311 bp):
GCAAAAAGCTGATGGGGCGAAAACCGACAAAAGTTTTCAGATTAGTCACCTAGACTACCGTATAT
GATATGAAGTGAGAAAGTTGCATGAACCATGGCACAAATAGATGGTTTGACAGTGTCCCAATTAT
TTTGGAAAAACTGAGCATGAAGACCGTCGATACCGGGGTGCTTTTAGAGGCCTCATCGCAAACAA
AGCAAACTTGATTTCTTCTTACGAAGGAGTGGGTGATAAGATCAAGGTGAGTGTAGCAGACAACG
AAGGAAATCTGCTTGAAATAGGATACAAACCCGACGGGGGGCTCATTATCA
Found at i:23275 original size:35 final size:35
Alignment explanation
Indices: 23227--23295 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
23217 CTTATGGAAG
* *
23227 TATTGATACTGAGGGTAGAGTATTTATACCCTCAA
1 TATTGATACTGAGGGCAGAGTATCTATACCCTCAA
* *
23262 TATTGATATTGAGGGCAGAGTATCTATACTCTCA
1 TATTGATACTGAGGGCAGAGTATCTATACCCTCA
23296 GTAAGGGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.35
Consensus pattern (35 bp):
TATTGATACTGAGGGCAGAGTATCTATACCCTCAA
Found at i:24804 original size:129 final size:129
Alignment explanation
Indices: 24544--24793 Score: 394
Period size: 132 Copynumber: 1.9 Consensus size: 129
24534 AACGCAAATG
* *
24544 TCAGGAGAGTGATCTCGTAGATACTGACGAGTAACTCTTATGAAATCCTGCTACCAAATCCCTGC
1 TCAGGAGAGTGATCTCCTAGATACTGACGAATAACTCTTATGAAATCCTGCTACCAAATCCCTGC
* *
24609 GCATTCCAAAAAAAAAAAAGTCTTTAAATCCATAAGAAAGGATTATAGGGAGAAGCCGAGAGGCA
66 GCATTCC---AAAAAAAAAGTCTTTAAATCCATAAGAAAGAATTATAGAGAGAAGCCGAGAGGCA
24674 TA
128 TA
*
24676 TCAGGAGTGTGATCTCCTAGATACTGACGAATAACTCTTATGAAATTCCTGCTACCAAATCCCTG
1 TCAGGAGAGTGATCTCCTAGATACTGACGAATAACTCTTATGAAA-TCCTGCTACCAAATCCCTG
* *
24741 CGCATTCC-AAACAAAAGTCTTTAAATCCATAGGAAAGAATTATAGAGAGAAGC
65 CGCATTCCAAAAAAAAAGTCTTTAAATCCATAAGAAAGAATTATAGAGAGAAGC
24794 TTAGATGCAT
Statistics
Matches: 110, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
129 41 0.37
132 42 0.38
133 27 0.25
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.24
Consensus pattern (129 bp):
TCAGGAGAGTGATCTCCTAGATACTGACGAATAACTCTTATGAAATCCTGCTACCAAATCCCTGC
GCATTCCAAAAAAAAAGTCTTTAAATCCATAAGAAAGAATTATAGAGAGAAGCCGAGAGGCATA
Found at i:26933 original size:32 final size:34
Alignment explanation
Indices: 26866--26950 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 34
26856 TCAGGCCAGA
26866 TATATATATATATTTAAATTAAATATATAAATAT
1 TATATATATATATTTAAATTAAATATATAAATAT
* * *
26900 TATATATATTTTTTAATTTAAATTAAATTTATTAATAT
1 TATATATA---TAT-ATTTAAATTAAATATATAAATAT
26938 TATATATATATAT
1 TATATATATATAT
26951 ATAATAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
34 10 0.23
35 2 0.05
37 2 0.05
38 29 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (34 bp):
TATATATATATATTTAAATTAAATATATAAATAT
Found at i:27083 original size:36 final size:36
Alignment explanation
Indices: 27033--27102 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
27023 CAAATCCGTC
*
27033 CCCGTCCCCATCCCCGTTTATCATAAACAATTTTTT
1 CCCGTCCCCATCCCCGTTTAGCATAAACAATTTTTT
* *
27069 CCCGTCCCCGTCCCCGTTTAGCATAAACGATTTT
1 CCCGTCCCCATCCCCGTTTAGCATAAACAATTTT
27103 CCCCATCCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.20, C:0.37, G:0.10, T:0.33
Consensus pattern (36 bp):
CCCGTCCCCATCCCCGTTTAGCATAAACAATTTTTT
Found at i:28143 original size:2 final size:2
Alignment explanation
Indices: 28136--28160 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28126 CTCCATGCTT
28136 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
28161 TTTTTGCTTG
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:29716 original size:2 final size:2
Alignment explanation
Indices: 29704--29763 Score: 111
Period size: 2 Copynumber: 30.0 Consensus size: 2
29694 AATAAAAGTA
*
29704 AT AT TT 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
29746 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
29764 TATTTTAGGG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:31307 original size:13 final size:13
Alignment explanation
Indices: 31272--31312 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
31262 TTTGTCCGGG
**
31272 TTTTTTATCGTTA
1 TTTTTTATTATTA
31285 TTTTATTATTATTA
1 TTTT-TTATTATTA
31299 TTTTTTATTATTA
1 TTTTTTATTATTA
31312 T
1 T
31313 GTTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:31324 original size:16 final size:14
Alignment explanation
Indices: 31282--31320 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
31272 TTTTTTATCG
31282 TTATTTTATTATTA
1 TTATTTTATTATTA
31296 TTATTTT-TTATTA
1 TTATTTTATTATTA
31309 TTATGTTTATTA
1 TTAT-TTTATTA
31321 ATTACATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 10 0.43
15 3 0.13
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:31455 original size:25 final size:25
Alignment explanation
Indices: 31426--31474 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
31416 CCCAACCCAT
31426 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
*
31451 CAGATTAGGGTTTTAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
31475 TGTTCCAGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:35132 original size:31 final size:32
Alignment explanation
Indices: 35097--35158 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
35087 ATTTTGCATG
35097 TACTAACTTATTT-TTCTCTTTTGTTTGTGTA
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
35128 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
1 TACTAACTTATTTCTTCTCTTTTGTTTGTGT
35159 CATTTTGTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.43
32 17 0.57
ACGTcount: A:0.15, C:0.15, G:0.10, T:0.61
Consensus pattern (32 bp):
TACTAACTTATTTCTTCTCTTTTGTTTGTGTA
Found at i:35705 original size:210 final size:211
Alignment explanation
Indices: 35337--35721 Score: 451
Period size: 210 Copynumber: 1.8 Consensus size: 211
35327 ATGAGATTTT
* *
35337 CTCGAAGATCGTGCATCATTCGAGACTGATATGATAATCCACTGATCTACGGAGTAATCCAGCAG
1 CTCGAAGATCGTGCATCATTCGAGACTGAGATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
* * ** * * *
35402 TAGATTCTCATCCACAATTATTCCATCGTTAATCATCAGGGAGTGAAGCACAAACTTCAGCATAG
66 TAGAGTCTCATCCACAATCATTCCATCGTTAATCATCAAAGAGCGAAGCACAAACCTCAGCATAC
* * * * *
35467 ACGAGGTATTGATGGAGTTAGTTTACAGAGC-ATTGAGGGGCATCGGTTCCAAGTACAAAGATCC
131 ACGAGGCATTAACGGAGTCAGATTACAGAGCGATTGAGGGGCATCGGTTCCAAGTACAAAGATCC
35531 GAGACGAAGCAGTGAG
196 GAGACGAAGCAGTGAG
* *
35547 CTCGAAGATCGTGCATCATTCG-GTACTGAGATGATGATCCACTGAT-TCAAGGAGTAATCTAGC
1 CTCGAAGATCGTGCATCATTCGAG-ACTGAGATGATAATCCACTGATCT-AAGGAGTAATCCAGC
* * * * * * *
35610 AGTGGAGTCTTATCTACAATCATTTCATCGTTAGTTATCAAAGAGCGACATGC-C-GACCTCA-C
64 AGTAGAGTCTCATCCACAATCATTCCATCGTTAATCATCAAAGAGCGA-A-GCACAAACCTCAGC
*
35672 -TACCACCGAGGCATTAACGGAGTCAGATTACAGAGCGCTTGAGGGGCATC
127 ATA-CA-CGAGGCATTAACGGAGTCAGATTACAGAGCGATTGAGGGGCATC
35722 ATTATTGAGG
Statistics
Matches: 144, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
208 2 0.01
209 4 0.03
210 122 0.85
211 14 0.10
212 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (211 bp):
CTCGAAGATCGTGCATCATTCGAGACTGAGATGATAATCCACTGATCTAAGGAGTAATCCAGCAG
TAGAGTCTCATCCACAATCATTCCATCGTTAATCATCAAAGAGCGAAGCACAAACCTCAGCATAC
ACGAGGCATTAACGGAGTCAGATTACAGAGCGATTGAGGGGCATCGGTTCCAAGTACAAAGATCC
GAGACGAAGCAGTGAG
Found at i:38248 original size:22 final size:21
Alignment explanation
Indices: 38222--38347 Score: 85
Period size: 22 Copynumber: 5.5 Consensus size: 21
38212 AGATCCAATC
38222 AAAAACAAAGAAAAATCAAAGAG
1 AAAAACAAAGAAAAATC-AA-AG
* *
38245 AAAAGAGCAAAGAAAAA-AAAAC
1 AAAA-A-CAAAGAAAAATCAAAG
*
38267 AAAGAGCAGAGAGAAAAAAATCAAAG
1 AAA-AACA-A-AG--AAAAATCAAAG
38293 CAAAAACAAAGAAAAATCAAAG
1 -AAAAACAAAGAAAAATCAAAG
*
38315 CAAAAATCAAAGAAAAAGCAAAG
1 -AAAAA-CAAAGAAAAATCAAAG
*
38338 AACAA-AAAGA
1 AAAAACAAAGA
38348 GGACAAAGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 23
0.73 0.07 0.20
Matches are distributed among these distances:
20 5 0.06
21 2 0.02
22 26 0.31
23 24 0.28
24 3 0.04
25 16 0.19
26 6 0.07
27 3 0.04
ACGTcount: A:0.72, C:0.10, G:0.14, T:0.03
Consensus pattern (21 bp):
AAAAACAAAGAAAAATCAAAG
Found at i:38248 original size:23 final size:23
Alignment explanation
Indices: 38221--38345 Score: 107
Period size: 23 Copynumber: 5.3 Consensus size: 23
38211 AAGATCCAAT
38221 CAAAAACAAAGAAAAATCAAAGA
1 CAAAAACAAAGAAAAATCAAAGA
*
38244 GAAAAGAGCAAAGAAAAA--AAA-A
1 CAAAA-A-CAAAGAAAAATCAAAGA
*
38266 CAAAGAGCAGAGAGAAAAAAATCAAAG-
1 CAAA-AACA-A-AG--AAAAATCAAAGA
38293 CAAAAACAAAGAAAAATCAAAG-
1 CAAAAACAAAGAAAAATCAAAGA
*
38315 CAAAAATCAAAGAAAAAGCAAAGAA
1 CAAAAA-CAAAGAAAAATCAAAG-A
38340 CAAAAA
1 CAAAAA
38346 GAGGACAAAG
Statistics
Matches: 84, Mismatches: 5, Indels: 24
0.74 0.04 0.21
Matches are distributed among these distances:
21 2 0.02
22 22 0.26
23 25 0.30
24 3 0.04
25 22 0.26
26 3 0.04
27 7 0.08
ACGTcount: A:0.72, C:0.11, G:0.14, T:0.03
Consensus pattern (23 bp):
CAAAAACAAAGAAAAATCAAAGA
Found at i:38279 original size:28 final size:26
Alignment explanation
Indices: 38232--38286 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 26
38222 AAAAACAAAG
*
38232 AAAAATCAAAGAGAAAAGAGCAAAGAAA
1 AAAAAACAAAGAGAAAAGAG-AAA-AAA
* *
38260 AAAAAACAAAGAGCAGAGAGAAAAAA
1 AAAAAACAAAGAGAAAAGAGAAAAAA
38286 A
1 A
38287 TCAAAGCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 4 0.17
27 3 0.12
28 17 0.71
ACGTcount: A:0.73, C:0.07, G:0.18, T:0.02
Consensus pattern (26 bp):
AAAAAACAAAGAGAAAAGAGAAAAAA
Found at i:39932 original size:36 final size:35
Alignment explanation
Indices: 39869--39976 Score: 117
Period size: 38 Copynumber: 2.9 Consensus size: 35
39859 ATCTTATTAA
* * * *
39869 AAAAACAAAGTGTCGTCTCACTAGAGACAGTTTTCTT
1 AAAAACAAA-TTTTGTCTCGCTTGAGACA-TTTTCTT
39906 AAAAACAAATTTTGTCTCGCTTGAGACAACTTTCTCTT
1 AAAAACAAATTTTGTCTCGCTTGAGAC-A-TTT-TCTT
* *
39944 TAAAACAAATTATGTCTCGCTTGAGACATTTTC
1 AAAAACAAATTTTGTCTCGCTTGAGACATTTTC
39977 CACAAACTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
35 2 0.03
36 17 0.27
37 14 0.23
38 29 0.47
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (35 bp):
AAAAACAAATTTTGTCTCGCTTGAGACATTTTCTT
Found at i:40064 original size:90 final size:93
Alignment explanation
Indices: 39899--40065 Score: 252
Period size: 90 Copynumber: 1.8 Consensus size: 93
39889 CTAGAGACAG
* * *
39899 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTCTCTTTAAAACAAATTATGTCTCGC
1 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTATCTTCAAAACAAATTATGTCTCAC
39964 TTGAGACATTTTCCACAAACTTTGAGAT
66 TTGAGACATTTTCCACAAACTTTGAGAT
*
39992 TTTTC-TAAAAACAAATTTTGTCTCGCTTGAGGCAA-TTTAT-TTCAAAACAAATT-TCGTCTCA
1 TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTATCTTCAAAACAAATTAT-GTCTCA
*
40053 TTTGAGACATTTT
65 CTTGAGACATTTT
40066 TTTCCTTTGA
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
89 1 0.01
90 29 0.43
91 4 0.06
92 29 0.43
93 5 0.07
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (93 bp):
TTTTCTTAAAAACAAATTTTGTCTCGCTTGAGACAACTTTATCTTCAAAACAAATTATGTCTCAC
TTGAGACATTTTCCACAAACTTTGAGAT
Found at i:40232 original size:36 final size:35
Alignment explanation
Indices: 40177--40270 Score: 109
Period size: 34 Copynumber: 2.7 Consensus size: 35
40167 ATCGTTTTCT
* * *
40177 CAAACTTTGTCTCGCTTGAGACAATTTCTCTAAAAA
1 CAAATTTTGTCTCGCTTGAGAC-ATGTATCTAAAAA
** * *
40213 CAAATTTTGTCTCATTTGAGAC-TGTATCTTAAAG
1 CAAATTTTGTCTCGCTTGAGACATGTATCTAAAAA
40247 CAAATTTTGTCTCGCTTGAGACAT
1 CAAATTTTGTCTCGCTTGAGACAT
40271 CATTTTCTCT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
34 28 0.58
35 1 0.02
36 19 0.40
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (35 bp):
CAAATTTTGTCTCGCTTGAGACATGTATCTAAAAA
Found at i:40625 original size:40 final size:40
Alignment explanation
Indices: 40570--40649 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
40560 TTGTCTCTCG
*
40570 AGACAACTTCTTTTGAAAATACCCACCTTTGAGATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
*
40610 AGACAACTTCTTTTGAAAATACCCACATTTGATATCGTTT
1 AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
40650 CTATTAAAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.36
Consensus pattern (40 bp):
AGACAACTTCTTTTGAAAATACCCACATTTGAGATCGTTT
Found at i:41082 original size:35 final size:36
Alignment explanation
Indices: 41016--41090 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 36
41006 TATTTCTTTG
* *
41016 GAAACAAAATTTACCATCTTTGAATCTGTTTCCCTT
1 GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
*
41052 GAAACAAAA-TAAACATCTTTGAGATC-GTTTCTCTT
1 GAAACAAAATTAAACATCTTTGA-ATCTGTTTCCCTT
41087 GAAA
1 GAAA
41091 TGAATTTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
35 23 0.66
36 12 0.34
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.35
Consensus pattern (36 bp):
GAAACAAAATTAAACATCTTTGAATCTGTTTCCCTT
Found at i:41413 original size:28 final size:28
Alignment explanation
Indices: 41363--41416 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
41353 CCAAAATCCA
* *
41363 ATCTTTGAGTTTGTTTCTATTGAAACAC
1 ATCTTTGAGTTGGTTCCTATTGAAACAC
41391 ATCTTTGAGTTGGTCTCCT-TTGAAAC
1 ATCTTTGAGTTGGT-TCCTATTGAAAC
41417 CATTATCCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 20 0.87
29 3 0.13
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (28 bp):
ATCTTTGAGTTGGTTCCTATTGAAACAC
Found at i:41585 original size:43 final size:43
Alignment explanation
Indices: 41428--41809 Score: 194
Period size: 40 Copynumber: 8.9 Consensus size: 43
41418 ATTATCCTAG
* * * *
41428 AGATAACCAG-CCATCCTCGTCACGTAGGAACCGTGTTATCACCTTT
1 AGATAACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-AT
** * * * * **
41474 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCC
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCAT
**
41517 AG---ACCAGATATCCTCATCACGTAGGAGCCGTGTCAACCAT
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* * * * *
41557 AGATAACCAG-CCGTCCTCGTCACATAGGAACCGTGTTATCACCTTT
1 AGATAACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-AT
** * * * * **
41603 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCC
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
41646 AG---ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCAT
* * * * *
41686 AGATAACCAG-CCGTCCTCGTCACGTAGGAACCATGTTATCACCTTT
1 AGATAACCAGACC-TCCTCATCACGTAGGAGCCGTGTCA--ACC-AT
** * * * * **
41732 AGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCC
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
41775 AG---ACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
1 AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCA
41810 CCTTTAGACG
Statistics
Matches: 252, Mismatches: 67, Indels: 40
0.70 0.19 0.11
Matches are distributed among these distances:
40 94 0.37
42 1 0.00
43 58 0.23
44 6 0.02
45 6 0.02
46 84 0.33
47 3 0.01
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (43 bp):
AGATAACCAGACCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:41834 original size:83 final size:83
Alignment explanation
Indices: 41441--41858 Score: 280
Period size: 83 Copynumber: 4.9 Consensus size: 83
41431 TAACCAGCCA
* *
41441 TCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATG-GCCAGAACTCTTCATCACGTATGAGC
1 TCCTCATCACGTAGGAGCCGTG---TCACCTTTAGA-GAGCCAGAACTCTTCATCACGTATGAGC
*
41505 CGTGTCATCCCCAGACCAGATA
62 CGTGTCATCCCCAGACCAGATC
* * * * * * * * *
41527 TCCTCATCACGTAGGAGCCGTGTCAACC-ATAGATAACCAG-CCGTCCTCGTCACATAGGAACCG
1 TCCTCATCACGTAGGAGCCGTGTC-ACCTTTAGAGAGCCAGAAC-TCTTCATCACGTATGAGCCG
* * *
41590 TGTTATCACCTTTAGATGGCCAGAAC
64 TGTCATC-CC--CAGA---CCAGATC
* * ** * * *
41616 TCTTCATCACGTATGAGCCGTGTCATCC---CCAGA-CCAGATCTCCTCATCACGTAGGAGCCGT
1 TCCTCATCACGTAGGAGCCGTGTCA-CCTTTAGAGAGCCAGAACTCTTCATCACGTATGAGCCGT
* ** *
41677 GTCAACCATAGATAACCAG-CC
65 GTCATCCCCAG---ACCAGATC
* * *
41698 GTCCTCGTCACGTAGGAACCATGTTATCACCTTTAGATG-GCCAGAACTCTTCATCACGTATGAG
1 -TCCTCATCACGTAGGAGCC--G-TGTCACCTTTAGA-GAGCCAGAACTCTTCATCACGTATGAG
41762 CCGTGTCATCCCCAGACCAGATC
61 CCGTGTCATCCCCAGACCAGATC
* *
41785 TCCTCATCACGTAGGAGCCGTGTCACCTTTAGACGACCCA-AACTCTTCATCACGTATGAGCAGT
1 TCCTCATCACGTAGGAGCCGTGTCACCTTTAGA-GAGCCAGAACTCTTCATCACGTATGAGCCGT
*
41849 GTCGTCCCCA
65 GTCATCCCCA
41859 ACAACCAATA
Statistics
Matches: 258, Mismatches: 49, Indels: 53
0.72 0.14 0.15
Matches are distributed among these distances:
82 2 0.01
83 98 0.38
84 9 0.03
85 4 0.02
86 76 0.29
87 4 0.02
88 2 0.01
89 63 0.24
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (83 bp):
TCCTCATCACGTAGGAGCCGTGTCACCTTTAGAGAGCCAGAACTCTTCATCACGTATGAGCCGTG
TCATCCCCAGACCAGATC
Found at i:41840 original size:129 final size:129
Alignment explanation
Indices: 41428--41809 Score: 728
Period size: 129 Copynumber: 3.0 Consensus size: 129
41418 ATTATCCTAG
*
41428 AGATAACCAGCCATCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
*
41493 TCACGTATGAGCCGTGTCATCCCCAGACCAGATATCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
41557 AGATAACCAGCCGTCCTCGTCACATAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
41622 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
*
41686 AGATAACCAGCCGTCCTCGTCACGTAGGAACCATGTTATCACCTTTAGATGGCCAGAACTCTTCA
1 AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
41751 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
66 TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCA
41810 CCTTTAGACG
Statistics
Matches: 248, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
129 248 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (129 bp):
AGATAACCAGCCGTCCTCGTCACGTAGGAACCGTGTTATCACCTTTAGATGGCCAGAACTCTTCA
TCACGTATGAGCCGTGTCATCCCCAGACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCAT
Found at i:42033 original size:13 final size:13
Alignment explanation
Indices: 41998--42038 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
41988 TTTGTCTGGG
**
41998 TTTTTTATCGTTA
1 TTTTTTATTATTA
42011 TTTTATTATTATTA
1 TTTT-TTATTATTA
42025 TTTTTTATTATTA
1 TTTTTTATTATTA
42038 T
1 T
42039 GTTTATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 14 0.56
14 11 0.44
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTTATTATTA
Found at i:42050 original size:16 final size:14
Alignment explanation
Indices: 42008--42046 Score: 62
Period size: 13 Copynumber: 2.8 Consensus size: 14
41998 TTTTTTATCG
42008 TTATTTTATTATTA
1 TTATTTTATTATTA
42022 TTATTTT-TTATTA
1 TTATTTTATTATTA
42035 TTATGTTTATTA
1 TTAT-TTTATTA
42047 ATTACATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.43
14 10 0.43
15 3 0.13
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.72
Consensus pattern (14 bp):
TTATTTTATTATTA
Found at i:42181 original size:25 final size:25
Alignment explanation
Indices: 42152--42200 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
42142 CCCAACCCAT
42152 CAGATTAGGGTTTCAAACCCTAAAA
1 CAGATTAGGGTTTCAAACCCTAAAA
42177 CAGATTAGGGTTTCAAACCCTAAA
1 CAGATTAGGGTTTCAAACCCTAAA
42201 TGTTCCAGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.24
Consensus pattern (25 bp):
CAGATTAGGGTTTCAAACCCTAAAA
Found at i:50412 original size:21 final size:21
Alignment explanation
Indices: 50388--50440 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
50378 ATACAAAGCC
*
50388 TTCGGTATAGATATTAATTCA
1 TTCGGTATAGATATTAACTCA
50409 TTCGGTAT-GTATATTAACTCA
1 TTCGGTATAG-ATATTAACTCA
* *
50430 TCCGATATAGA
1 TTCGGTATAGA
50441 CACTAGTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.32, C:0.13, G:0.15, T:0.40
Consensus pattern (21 bp):
TTCGGTATAGATATTAACTCA
Found at i:51150 original size:20 final size:20
Alignment explanation
Indices: 51125--51168 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
51115 GTAGAGTATT
51125 GATATTGTTCATGCAATATC
1 GATATTGTTCATGCAATATC
**
51145 GATATTGTTCATGTGATATC
1 GATATTGTTCATGCAATATC
51165 GATA
1 GATA
51169 CCAAAGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.41
Consensus pattern (20 bp):
GATATTGTTCATGCAATATC
Found at i:53081 original size:3 final size:3
Alignment explanation
Indices: 53073--53158 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
53063 CTAAAAAATA
53073 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
53121 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
53159 AAAAATCTAT
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.33
Consensus pattern (3 bp):
GAT
Found at i:53251 original size:15 final size:16
Alignment explanation
Indices: 53231--53274 Score: 72
Period size: 15 Copynumber: 2.8 Consensus size: 16
53221 TTAAATTTAG
53231 GTTACTTTCGGTTC-A
1 GTTACTTTCGGTTCGA
*
53246 GTTACTTTCGGTTCGG
1 GTTACTTTCGGTTCGA
53262 GTTACTTTCGGTT
1 GTTACTTTCGGTT
53275 GGCTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
15 14 0.52
16 13 0.48
ACGTcount: A:0.09, C:0.18, G:0.25, T:0.48
Consensus pattern (16 bp):
GTTACTTTCGGTTCGA
Found at i:54072 original size:21 final size:21
Alignment explanation
Indices: 54026--54073 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
54016 TATATTACAC
54026 CCTAAA-TCTAAACCCTAAAT
1 CCTAAACTCTAAACCCTAAAT
** *
54046 TATAAACTCTAAACCTTAAAT
1 CCTAAACTCTAAACCCTAAAT
54067 CCTAAAC
1 CCTAAAC
54074 CATAAATTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (21 bp):
CCTAAACTCTAAACCCTAAAT
Found at i:54179 original size:7 final size:7
Alignment explanation
Indices: 54169--54242 Score: 98
Period size: 7 Copynumber: 10.6 Consensus size: 7
54159 CCCTAAATTT
54169 TAAACTC
1 TAAACTC
54176 TAAACTC
1 TAAACTC
54183 TAAACTC
1 TAAACTC
54190 TAAACTC
1 TAAACTC
54197 TAAACTC
1 TAAACTC
54204 TAAACTC
1 TAAACTC
54211 TAAA-TC
1 TAAACTC
*
54217 ATAAACCC
1 -TAAACTC
54225 TAAA-TC
1 TAAACTC
*
54231 TCAAACCC
1 T-AAACTC
54239 TAAA
1 TAAA
54243 TCATAAGCCC
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
6 4 0.07
7 53 0.88
8 3 0.05
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAACTC
Found at i:54221 original size:28 final size:28
Alignment explanation
Indices: 54169--54257 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 28
54159 CCCTAAATTT
*
54169 TAAACTCTAAACTCTAAACTC-TAAACTC
1 TAAACTCTAAACTCTAAA-TCATAAACCC
54197 TAAACTCTAAACTCTAAATCATAAACCC
1 TAAACTCTAAACTCTAAATCATAAACCC
* *
54225 TAAA-TCTCAAACCCTAAATCATAAGCCC
1 TAAACTCT-AAACTCTAAATCATAAACCC
54253 TAAAC
1 TAAAC
54258 CATAAGTCCT
Statistics
Matches: 55, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
27 5 0.09
28 50 0.91
ACGTcount: A:0.45, C:0.29, G:0.01, T:0.25
Consensus pattern (28 bp):
TAAACTCTAAACTCTAAATCATAAACCC
Found at i:54253 original size:14 final size:14
Alignment explanation
Indices: 54176--54262 Score: 81
Period size: 14 Copynumber: 6.2 Consensus size: 14
54166 TTTTAAACTC
*
54176 TAAACTCTAAACTC-
1 TAAACCCTAAA-TCA
*
54190 TAAACTCTAAACTC-
1 TAAACCCTAAA-TCA
*
54204 TAAACTCTAAATCA
1 TAAACCCTAAATCA
54218 TAAACCCTAAATC-
1 TAAACCCTAAATCA
54231 TCAAACCCTAAATCA
1 T-AAACCCTAAATCA
* *
54246 TAAGCCCTAAACCA
1 TAAACCCTAAATCA
54260 TAA
1 TAA
54263 GTCCTAAGCC
Statistics
Matches: 67, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
13 3 0.04
14 63 0.94
15 1 0.01
ACGTcount: A:0.46, C:0.29, G:0.01, T:0.24
Consensus pattern (14 bp):
TAAACCCTAAATCA
Found at i:54257 original size:21 final size:21
Alignment explanation
Indices: 54246--54300 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
54236 CCCTAAATCA
54246 TAAGCCCTAAACCATAAGTCC
1 TAAGCCCTAAACCATAAGTCC
*
54267 TAAGCCCTAAAACATAAGTCC
1 TAAGCCCTAAACCATAAGTCC
54288 TAAGCCCTAAACC
1 TAAGCCCTAAACC
54301 CGATTATGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.40, C:0.33, G:0.09, T:0.18
Consensus pattern (21 bp):
TAAGCCCTAAACCATAAGTCC
Found at i:54289 original size:14 final size:14
Alignment explanation
Indices: 54210--54269 Score: 52
Period size: 14 Copynumber: 4.3 Consensus size: 14
54200 ACTCTAAACT
* *
54210 CTAAATCATAAACC
1 CTAAACCATAAGCC
54224 CTAAATCTCA-AA-CC
1 CTAAA-C-CATAAGCC
*
54238 CTAAATCATAAGCC
1 CTAAACCATAAGCC
*
54252 CTAAACCATAAGTC
1 CTAAACCATAAGCC
54266 CTAA
1 CTAA
54270 GCCCTAAAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 2 0.05
13 2 0.05
14 30 0.79
15 2 0.05
16 2 0.05
ACGTcount: A:0.45, C:0.30, G:0.03, T:0.22
Consensus pattern (14 bp):
CTAAACCATAAGCC
Found at i:56521 original size:31 final size:31
Alignment explanation
Indices: 56429--56547 Score: 113
Period size: 31 Copynumber: 3.9 Consensus size: 31
56419 ACTAATTTTT
56429 AATTTGACTCCTAAACTTTAGATAAAATA-C
1 AATTTGACTCCTAAACTTTAGATAAAATATC
* * * *
56459 TAATTTGAC-CCTAAACTTCATATATACTATC
1 -AATTTGACTCCTAAACTTTAGATAAAATATC
* *
56490 ATTTTGACTCCTAAATTTTAGATAAAATATC
1 AATTTGACTCCTAAACTTTAGATAAAATATC
*
56521 AGTTTGA-TCCCTAAA-TTT-GATGAAAAT
1 AATTTGACT-CCTAAACTTTAGAT-AAAAT
56548 CTCCCGTCGT
Statistics
Matches: 73, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
29 3 0.04
30 32 0.44
31 38 0.52
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (31 bp):
AATTTGACTCCTAAACTTTAGATAAAATATC
Found at i:56960 original size:3 final size:3
Alignment explanation
Indices: 56952--57025 Score: 121
Period size: 3 Copynumber: 24.7 Consensus size: 3
56942 TTTTTATCCA
* *
56952 TAT TAT TAT TAT TAA TAT TAT TAT TAC TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
57000 TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
57026 AATATATATT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:57521 original size:18 final size:18
Alignment explanation
Indices: 57500--57536 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
57490 AGAACGGGAC
*
57500 AGAGAGACAGAAAAAAAA
1 AGAGAGACACAAAAAAAA
*
57518 AGAGAGAGACAAAAAAAA
1 AGAGAGACACAAAAAAAA
57536 A
1 A
57537 AAAAACAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAGAGACACAAAAAAAA
Found at i:57523 original size:20 final size:19
Alignment explanation
Indices: 57500--57537 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 19
57490 AGAACGGGAC
57500 AGAGAGACAGAAAAAAAAAG
1 AGAGAGACA-AAAAAAAAAG
57520 AGAGAGACAAAAAAAAAA
1 AGAGAGACAAAAAAAAAA
57538 AAAACAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (19 bp):
AGAGAGACAAAAAAAAAAG
Found at i:57531 original size:16 final size:16
Alignment explanation
Indices: 57502--57535 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57492 AACGGGACAG
57502 AGAGACAGAAAAAAAA
1 AGAGACAGAAAAAAAA
*
57518 AGAGAGAGACAAAAAAA
1 AGAGACAGA-AAAAAAA
57535 A
1 A
57536 AAAAAACAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.74, C:0.06, G:0.21, T:0.00
Consensus pattern (16 bp):
AGAGACAGAAAAAAAA
Found at i:57538 original size:20 final size:20
Alignment explanation
Indices: 57500--57538 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
57490 AGAACGGGAC
*
57500 AGAGAGACAGAAAAAAAAAG
1 AGAGAGACAAAAAAAAAAAG
57520 AGAGAGACAAAAAAAAAAA
1 AGAGAGACAAAAAAAAAAA
57539 AAACAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.05, G:0.21, T:0.00
Consensus pattern (20 bp):
AGAGAGACAAAAAAAAAAAG
Found at i:58467 original size:17 final size:17
Alignment explanation
Indices: 58447--58479 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
58437 TTTTATTTTA
58447 TTATATTGT-TAAATATT
1 TTATATT-TATAAATATT
58464 TTATATTTATAAATAT
1 TTATATTTATAAATAT
58480 AATAAATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (17 bp):
TTATATTTATAAATATT
Found at i:69855 original size:1 final size:1
Alignment explanation
Indices: 69839--69902 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
69829 GCTTGAAGAG
* * * * * * * *
69839 AAAAGAAAAAAGAAAAAGAAAAAAAAAGAAAAAAAAGAAAGAAAAAAAAAGAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
69903 GGGGGGGGTC
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (1 bp):
A
Found at i:69857 original size:13 final size:13
Alignment explanation
Indices: 69834--69894 Score: 72
Period size: 13 Copynumber: 4.6 Consensus size: 13
69824 ATTATGCTTG
69834 AAGAGAAAAGAAAA
1 AAGA-AAAAGAAAA
69848 AAGAAAAAGAAAA
1 AAGAAAAAGAAAA
69861 AA-AAAGAA-AAAA
1 AAGAAA-AAGAAAA
*
69873 AAGAAAGAAAAAAA
1 AAGAAA-AAGAAAA
69887 AAGAAAAA
1 AAGAAAAA
69895 AAGAAAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
12 9 0.20
13 21 0.48
14 14 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGAAAA
Found at i:69866 original size:10 final size:10
Alignment explanation
Indices: 69846--69902 Score: 71
Period size: 11 Copynumber: 5.5 Consensus size: 10
69836 GAGAAAAGAA
69846 AAAAGAAAAAG
1 AAAA-AAAAAG
69857 AAAAAAAAAG
1 AAAAAAAAAG
69867 -AAAAAAAAG
1 AAAAAAAAAG
*
69876 AAAGAAAAAAA
1 AAA-AAAAAAG
69887 AAGAAAAAAAG
1 AA-AAAAAAAG
69898 AAAAA
1 AAAAA
69903 GGGGGGGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 9 0.22
10 11 0.27
11 20 0.49
12 1 0.02
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:69869 original size:23 final size:23
Alignment explanation
Indices: 69839--69903 Score: 105
Period size: 23 Copynumber: 2.8 Consensus size: 23
69829 GCTTGAAGAG
69839 AAAAGAAAAAAGAAAAAGAAAAA
1 AAAAGAAAAAAGAAAAAGAAAAA
69862 AAAAGAAAAAA-AAGAAAGAAAAA
1 AAAAGAAAAAAGAA-AAAGAAAAA
69885 AAAAGAAAAAAAGAAAAAG
1 AAAAG-AAAAAAGAAAAAG
69904 GGGGGGGTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
22 2 0.05
23 25 0.64
24 10 0.26
25 2 0.05
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (23 bp):
AAAAGAAAAAAGAAAAAGAAAAA
Found at i:69896 original size:13 final size:13
Alignment explanation
Indices: 69834--69903 Score: 79
Period size: 14 Copynumber: 5.2 Consensus size: 13
69824 ATTATGCTTG
*
69834 AAGAGAAAAGAAAA
1 AAGA-AAAAAAAAA
*
69848 AAGAAAAAGAAAA
1 AAGAAAAAAAAAA
*
69861 AA-AAAGAAAAAA
1 AAGAAAAAAAAAA
69873 AAGAAAGAAAAAAA
1 AAGAAA-AAAAAAA
69887 AAGAAAAAAAGAAA
1 AAGAAAAAAA-AAA
69901 AAG
1 AAG
69904 GGGGGGGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
12 10 0.20
13 18 0.36
14 22 0.44
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAAA
Found at i:70271 original size:19 final size:20
Alignment explanation
Indices: 70238--70279 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
70228 TTCAAGTTCA
*
70238 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
70258 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
70277 ATT
1 ATT
70280 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Found at i:71143 original size:84 final size:84
Alignment explanation
Indices: 71044--71524 Score: 910
Period size: 84 Copynumber: 5.7 Consensus size: 84
71034 CATTAACTGA
71044 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
71109 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
*
71128 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGACAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
71193 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
71212 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
71277 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
71296 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
71361 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
71380 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
71445 AACCAATCATTGAATTTGG
66 AACCAATCATTGAATTTGG
* * * *
71464 AAGATGAATTTGC-CAATAGCATCTTTTGAAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG
1 AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGG
71525 TAAAAATTAC
Statistics
Matches: 391, Mismatches: 6, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
83 44 0.11
84 347 0.89
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.37
Consensus pattern (84 bp):
AAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGCAG
AACCAATCATTGAATTTGG
Found at i:72456 original size:113 final size:113
Alignment explanation
Indices: 72254--72815 Score: 921
Period size: 113 Copynumber: 5.0 Consensus size: 113
72244 CAAAGATTCA
* * ** *
72254 AATCTATCATTTGATGGATTATTTTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAAA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72318 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
72366 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72431 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
72479 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
72544 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
72592 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
72657 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTAAACCTTTTGCTTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * *
72705 AATTCATCATTTGATGGATCAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTG
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTG
* * * *
72769 AAGAAGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTT
62 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
72816 GCATAATTCT
Statistics
Matches: 427, Mismatches: 18, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
112 30 0.07
113 347 0.81
115 1 0.00
116 49 0.11
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:73142 original size:3 final size:3
Alignment explanation
Indices: 73134--73225 Score: 157
Period size: 3 Copynumber: 30.7 Consensus size: 3
73124 TTTTTATCCA
*
73134 TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
73182 TAT TAT TAT TAT TAT TAT TAT CAT CAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
73226 AATATATATT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:73725 original size:20 final size:20
Alignment explanation
Indices: 73702--73740 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
73692 AGAACGGGAC
73702 AGAGAGACAGAAAAAAAAAG
1 AGAGAGACAGAAAAAAAAAG
73722 AGAGAGACAGAAAAAAAAA
1 AGAGAGACAGAAAAAAAAA
73741 ACCAGAGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.05, G:0.23, T:0.00
Consensus pattern (20 bp):
AGAGAGACAGAAAAAAAAAG
Found at i:77420 original size:20 final size:21
Alignment explanation
Indices: 77371--77420 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
77361 ATTGTTAGTT
* *
77371 TAAAGATTAAAATTTTATATTA
1 TAAATATTAAAATTGTATA-TA
77393 TAAATATTAAAATTGTATA-A
1 TAAATATTAAAATTGTATATA
*
77413 TTAATATT
1 TAAATATT
77421 TTAAACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 8 0.32
22 17 0.68
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (21 bp):
TAAATATTAAAATTGTATATA
Found at i:77425 original size:22 final size:22
Alignment explanation
Indices: 77359--77411 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
77349 AGTCCAAATG
*
77359 AAATTGT-TAGTT-TAAAGATTA
1 AAATTGTATA-TTATAAATATTA
*
77380 AAATTTTATATTATAAATATTA
1 AAATTGTATATTATAAATATTA
77402 AAATTGTATA
1 AAATTGTATA
77412 ATTAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (22 bp):
AAATTGTATATTATAAATATTA
Found at i:79695 original size:24 final size:23
Alignment explanation
Indices: 79668--79722 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
79658 GTCTTTTTGG
*
79668 CACGTTTTAACTCTGCTCTTGTGC
1 CACGTTTT-ACTATGCTCTTGTGC
* *
79692 CACGCTTTACTATGCTCTTGTGG
1 CACGTTTTACTATGCTCTTGTGC
*
79715 CACATTTT
1 CACGTTTT
79723 CTCTGTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.15, C:0.27, G:0.16, T:0.42
Consensus pattern (23 bp):
CACGTTTTACTATGCTCTTGTGC
Found at i:82563 original size:72 final size:72
Alignment explanation
Indices: 82445--82594 Score: 275
Period size: 72 Copynumber: 2.1 Consensus size: 72
82435 AATTAATCGA
*
82445 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCATTCTCCACACGTAATCGACTCCCGAAC
1 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCATTCCCCACACGTAATCGACTCCCGAAC
82510 TCATTTT
66 TCATTTT
*
82517 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCCTTCCCCACACGTAATCGACTCCCGAAC
1 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCATTCCCCACACGTAATCGACTCCCGAAC
82582 TCATTTT
66 TCATTTT
82589 TT-GGTA
1 TTAGGTA
82595 ATGCAGACCT
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 4 0.05
72 72 0.95
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.33
Consensus pattern (72 bp):
TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCATTCCCCACACGTAATCGACTCCCGAAC
TCATTTT
Found at i:90370 original size:39 final size:38
Alignment explanation
Indices: 90311--90424 Score: 146
Period size: 34 Copynumber: 3.1 Consensus size: 38
90301 AAAGTCAAGT
* * *
90311 CTTCACCAAAGAGTAATGAAGCAAATCCATTTTGTAAGC
1 CTTCACCGAAGAGTAGTGAAGCAAATCCA-TCTGTAAGC
90350 CTTCACCGAAGAGTAGTGAAGC--A-CCATCT-TAAGC
1 CTTCACCGAAGAGTAGTGAAGCAAATCCATCTGTAAGC
* *
90384 CTTCACGGAAGAGTAGTGAAGCAAATTCATCTGTAAGC
1 CTTCACCGAAGAGTAGTGAAGCAAATCCATCTGTAAGC
90422 CTT
1 CTT
90425 TAGAGCAAGA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
34 26 0.39
35 2 0.03
36 4 0.06
37 6 0.09
38 8 0.12
39 20 0.30
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (38 bp):
CTTCACCGAAGAGTAGTGAAGCAAATCCATCTGTAAGC
Found at i:90700 original size:173 final size:173
Alignment explanation
Indices: 90411--90797 Score: 661
Period size: 173 Copynumber: 2.2 Consensus size: 173
90401 GAAGCAAATT
90411 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
* *
90476 TGTTTTTACATGAATTTGAAAATGAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAAA
66 TGTTTTCACATGAATTTGAAAATAAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAAA
90541 GAATGCGATTTTCAAAATTTCACAATTTATAA-ACCTGTCGGGC
131 GAATGCGATTTTCAAAATTTCACAATTTATAAGACCT-TCGGGC
*
90584 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCGTAAAACCTTCGGGTAGGA
1 CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
90649 TGTTTTCACATGAATTTGAAAATAAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAAA
66 TGTTTTCACATGAATTTGAAAATAAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAAA
*
90714 GAATGCGATTTTCAAAATTTCACAATTTATAAGCCCTTCGGGC
131 GAATGCGATTTTCAAAATTTCACAATTTATAAGACCTTCGGGC
* * * *
90757 CAT-TAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGG
1 CATCT-GTAAGCCTTTAGAGCAAGATGA-TAAGTCCTTCGGG
90798 TAATTTGCAA
Statistics
Matches: 203, Mismatches: 8, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
172 1 0.00
173 187 0.92
174 15 0.07
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (173 bp):
CATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAAACCTTCGGGTAGGA
TGTTTTCACATGAATTTGAAAATAAAAAAACGATGTTTTGAGAAGATGAAATTTTTGAAAACAAA
GAATGCGATTTTCAAAATTTCACAATTTATAAGACCTTCGGGC
Found at i:90882 original size:42 final size:42
Alignment explanation
Indices: 90835--90915 Score: 162
Period size: 42 Copynumber: 1.9 Consensus size: 42
90825 GTGAAACAAA
90835 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
1 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
90877 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT
1 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT
90916 CGGGTCATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (42 bp):
TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
Found at i:90925 original size:42 final size:42
Alignment explanation
Indices: 90835--90927 Score: 161
Period size: 42 Copynumber: 2.2 Consensus size: 42
90825 GTGAAACAAA
*
90835 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTTGG
1 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTGGG
90877 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGG
1 TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTT-GGG
90920 T-CATCAGT
1 TCCATCAGT
90928 TTAACCTTCG
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 46 0.94
43 3 0.06
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (42 bp):
TCCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTGGG
Found at i:91185 original size:53 final size:53
Alignment explanation
Indices: 90982--91207 Score: 251
Period size: 53 Copynumber: 4.3 Consensus size: 53
90972 ATCACACCAT
* *
90982 AAGATTGTTCGAGTTCTACTCCATGAAGCAAGAGGGAGCGAACCCATAGGCAG
1 AAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* * * *
91035 AATATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACTCGTAGGCAG
1 AAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
* *
91088 AAGACTGTTCAAGTTCTACTCCCTT-AAGCAAGAGGGAGCGAACCCGCT-GGTC-G
1 AAGATTGTTCGAGTTCTACT-CCTTGAAGCAAGAGGGAGCGAACCCG-TAGG-CAG
* * * ** ** **
91141 GAGATTGTTCGAGTTCTACTCCTTGAAGCAATAAGGAGAAAACCCGTTTGTTG
1 AAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
91194 AAGATTGTTCGAGT
1 AAGATTGTTCGAGT
91208 CCTATACTCC
Statistics
Matches: 146, Mismatches: 21, Indels: 12
0.82 0.12 0.07
Matches are distributed among these distances:
52 5 0.03
53 136 0.93
54 5 0.03
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (53 bp):
AAGATTGTTCGAGTTCTACTCCTTGAAGCAAGAGGGAGCGAACCCGTAGGCAG
Found at i:93954 original size:72 final size:72
Alignment explanation
Indices: 93836--93985 Score: 284
Period size: 72 Copynumber: 2.1 Consensus size: 72
93826 AATTAATCGA
*
93836 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCCTTCTCCACACGTAATCGACTCCCGAAC
1 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCCTTCCCCACACGTAATCGACTCCCGAAC
93901 TCATTTT
66 TCATTTT
93908 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCCTTCCCCACACGTAATCGACTCCCGAAC
1 TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCCTTCCCCACACGTAATCGACTCCCGAAC
93973 TCATTTT
66 TCATTTT
93980 TT-GGTA
1 TTAGGTA
93986 ATGCAGACCT
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
71 4 0.05
72 73 0.95
ACGTcount: A:0.19, C:0.25, G:0.23, T:0.33
Consensus pattern (72 bp):
TTAGGTACCGATTTAGGGCGTTGTGGGGTTGCTAATCCTTCCCCACACGTAATCGACTCCCGAAC
TCATTTT
Found at i:94316 original size:31 final size:32
Alignment explanation
Indices: 94279--94339 Score: 97
Period size: 32 Copynumber: 1.9 Consensus size: 32
94269 TTTTATCGAA
* *
94279 TTTAGGA-GTCCAATTGATATTTTATCTAAAG
1 TTTAGGAGGTCAAAGTGATATTTTATCTAAAG
94310 TTTAGGAGGTCAAAGTGATATTTTATCTAA
1 TTTAGGAGGTCAAAGTGATATTTTATCTAA
94340 TGTTCAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 7 0.26
32 20 0.74
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (32 bp):
TTTAGGAGGTCAAAGTGATATTTTATCTAAAG
Found at i:99005 original size:20 final size:20
Alignment explanation
Indices: 98982--99073 Score: 139
Period size: 20 Copynumber: 4.6 Consensus size: 20
98972 GTTTCCAGAT
* *
98982 TCGCAACACGATTTTGACTA
1 TCGCAACGCGATTCTGACTA
*
99002 TCGCAACGCGATTCTGATTA
1 TCGCAACGCGATTCTGACTA
*
99022 TCGCAACGCGATTCTGATTA
1 TCGCAACGCGATTCTGACTA
*
99042 TCGCAACGCGATTCTGTCTA
1 TCGCAACGCGATTCTGACTA
99062 TCGCAACGCGAT
1 TCGCAACGCGAT
99074 AATACAAAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTA
Found at i:99682 original size:19 final size:20
Alignment explanation
Indices: 99660--99772 Score: 97
Period size: 20 Copynumber: 5.8 Consensus size: 20
99650 AAATCGCAAC
99660 GCGATTTT-AGTTTCGCGTT
1 GCGATTTTCAGTTTCGCGTT
*
99679 GCGATTTTCA-TTTCTCGTT
1 GCGATTTTCAGTTTCGCGTT
** *
99698 GCGATAGTCAAATTT-GCGTT
1 GCGATTTTC-AGTTTCGCGTT
** * *
99718 GCGATAGTCATTTTCGTGTT
1 GCGATTTTCAGTTTCGCGTT
* *
99738 GCGATTTTCATTTTCGTGTT
1 GCGATTTTCAGTTTCGCGTT
*
99758 GCGATTTTAAGTTTC
1 GCGATTTTCAGTTTC
99773 AGAAACTATT
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
19 27 0.34
20 50 0.62
21 3 0.04
ACGTcount: A:0.15, C:0.16, G:0.22, T:0.47
Consensus pattern (20 bp):
GCGATTTTCAGTTTCGCGTT
Found at i:101171 original size:21 final size:20
Alignment explanation
Indices: 101100--101172 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
101090 CTCCACTTCG
101100 AGAGCCATCACCTCAC--CC
1 AGAGCCATCACCTCACAACC
*
101118 AGAGCCATCACCTGATCAACC
1 AGAGCCATCACCTCA-CAACC
* * *
101139 ACA-CTATACACCTCTACAACG
1 AGAGCCAT-CACCTC-ACAACC
101160 AGAGCCATCACCT
1 AGAGCCATCACCT
101173 ATTCCGTCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
18 14 0.33
19 1 0.02
20 3 0.07
21 20 0.48
22 4 0.10
ACGTcount: A:0.33, C:0.41, G:0.11, T:0.15
Consensus pattern (20 bp):
AGAGCCATCACCTCACAACC
Found at i:101746 original size:33 final size:33
Alignment explanation
Indices: 101700--101770 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
101690 TTGACTATCG
* * * *
101700 CAACGGGATAATCGCAATGCGAAATAAAAATCA
1 CAACGAGAAAATCGCAACGCGAAACAAAAATCA
* *
101733 CAACGAGAAAATCGCAACGCGAAACCAAAATCG
1 CAACGAGAAAATCGCAACGCGAAACAAAAATCA
101766 CAACG
1 CAACG
101771 CGAATTTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.24, G:0.18, T:0.10
Consensus pattern (33 bp):
CAACGAGAAAATCGCAACGCGAAACAAAAATCA
Found at i:101857 original size:20 final size:20
Alignment explanation
Indices: 101832--101880 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
101822 GTGATTATCC
101832 CGTTGCGATAGTCATTTCAG
1 CGTTGCGATAGTCATTTCAG
**
101852 CGTTGCGATAGTCATTTTTG
1 CGTTGCGATAGTCATTTCAG
101872 CGTTGCGAT
1 CGTTGCGAT
101881 TTTAAGTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.16, C:0.18, G:0.27, T:0.39
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCAG
Found at i:102481 original size:21 final size:21
Alignment explanation
Indices: 102391--102508 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
102381 ACTCAACTGT
*
102391 CATCGTTCAAGAGGCCTCTCC
1 CATCGTTCAAGAGGCCCCTCC
* * **
102412 TATCGTTTAAGAGGCCCCTAT
1 CATCGTTCAAGAGGCCCCTCC
** *
102433 CATCCCTCAAGAGTCCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
* **
102454 CACCGTTCAAGAGGCCCCTGT
1 CATCGTTCAAGAGGCCCCTCC
* *
102475 CATCGTTGAAGAGGTCCCTCC
1 CATCGTTCAAGAGGCCCCTCC
*
102496 CATCATTCAAGAG
1 CATCGTTCAAGAG
102509 CCCGATTCAC
Statistics
Matches: 72, Mismatches: 25, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.24
Consensus pattern (21 bp):
CATCGTTCAAGAGGCCCCTCC
Found at i:104043 original size:20 final size:20
Alignment explanation
Indices: 104018--104083 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
104008 AGGTACACTT
*
104018 TCGCAACGCTAAACTCAAAA
1 TCGCAACGCGAAACTCAAAA
* *
104038 TCGCAATGCGAAAGTCAAAA
1 TCGCAACGCGAAACTCAAAA
* * *
104058 TCGTAATGTGAAAGC-CAAAA
1 TCGCAACGCGAAA-CTCAAAA
104078 TCGCAA
1 TCGCAA
104084 AGAGAAAGTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (20 bp):
TCGCAACGCGAAACTCAAAA
Found at i:104090 original size:20 final size:20
Alignment explanation
Indices: 104033--104091 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
104023 ACGCTAAACT
* *
104033 CAAAATCGCAATGCGAAAGT
1 CAAAATCGCAATGAGAAAGC
* *
104053 CAAAATCGTAATGTGAAAGC
1 CAAAATCGCAATGAGAAAGC
*
104073 CAAAATCGCAAAGAGAAAG
1 CAAAATCGCAATGAGAAAG
104092 TCAATTCGTG
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:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (20 bp):
CAAAATCGCAATGAGAAAGC
Found at i:104182 original size:20 final size:20
Alignment explanation
Indices: 104154--104323 Score: 208
Period size: 20 Copynumber: 8.8 Consensus size: 20
104144 CGATTTTCTT
*
104154 GTTGCGATAGTCAAATTTGC
1 GTTGCGATAGTCAAATTCGC
*
104174 GTTGTGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
* *
104194 GTTGCGATATTCAAATTCAC
1 GTTGCGATAGTCAAATTCGC
104214 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
*
104234 GTTGCGAT--T----TTTGC
1 GTTGCGATAGTCAAATTCGC
*
104248 GTTGCGATAGTCAAATTCGT
1 GTTGCGATAGTCAAATTCGC
* *
104268 GTTGTGATATTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
104288 GTTGCGATAGTCAAATTCGC
1 GTTGCGATAGTCAAATTCGC
* *
104308 GTTACGATATTCAAAT
1 GTTGCGATAGTCAAAT
104324 GAATGTGTAA
Statistics
Matches: 127, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
14 12 0.09
16 1 0.01
18 1 0.01
20 113 0.89
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (20 bp):
GTTGCGATAGTCAAATTCGC
Found at i:104199 original size:54 final size:55
Alignment explanation
Indices: 104100--104320 Score: 161
Period size: 54 Copynumber: 4.0 Consensus size: 55
104090 AGTCAATTCG
* * * * *
104100 TGTTGCGAAAGTC-AATTCGCGTTACGATAGTCTAATACGCTTTGCGATTTTC-T
1 TGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATATTCAT
* * *
104153 TGTTGCGATAGTCAAATTTGCGTTGTGATAGTCAAATTCGCGTTGCGATATTCAAAT
1 TGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATATTC--AT
** *
104210 TCACGTTGCGATAGTCAAATTCGCGTTGCGAT--T----TTTGCGTTGCGATAGTCAAATT
1 T---GTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATATTC--A-T
* * * *
104265 CGTGTTGTGATATTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATATTCA
1 --TGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATATTCA
104321 AATGAATGTG
Statistics
Matches: 135, Mismatches: 17, Indels: 27
0.75 0.09 0.15
Matches are distributed among these distances:
53 12 0.09
54 76 0.56
55 1 0.01
56 1 0.01
57 3 0.02
58 2 0.01
60 40 0.30
ACGTcount: A:0.24, C:0.17, G:0.22, T:0.37
Consensus pattern (55 bp):
TGTTGCGATAGTCAAATTCGCGTTGCGATAGTCAAATACGCGTTGCGATATTCAT
Found at i:104209 original size:40 final size:40
Alignment explanation
Indices: 104154--104323 Score: 235
Period size: 40 Copynumber: 4.4 Consensus size: 40
104144 CGATTTTCTT
* * *
104154 GTTGCGATAGTCAAATTTGCGTTGTGATAGTCAAATTCGC
1 GTTGCGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
*
104194 GTTGCGATATTCAAATTCACGTTGCGATAGTCAAATTCGC
1 GTTGCGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
*
104234 GTTGCGAT-TT----TT-GCGTTGCGATAGTCAAATTCGT
1 GTTGCGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
*
104268 GTTGTGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
1 GTTGCGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
*
104308 GTTACGATATTCAAAT
1 GTTGCGATATTCAAAT
104324 GAATGTGTAA
Statistics
Matches: 114, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
34 27 0.24
35 4 0.04
39 4 0.04
40 79 0.69
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.36
Consensus pattern (40 bp):
GTTGCGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
Found at i:104225 original size:94 final size:94
Alignment explanation
Indices: 104090--104323 Score: 321
Period size: 94 Copynumber: 2.5 Consensus size: 94
104080 GCAAAGAGAA
* * * *
104090 AGTC-AATTCGTGTTGCGAAAGTC-AATTCGCGTTACGATAGTCTAATACGCTTTGCGATTTTCT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATAGTCAAATACGCGTTGCGATTTT-T
* *
104153 -TGTTGCGATAGTCAAATTTGCGTTGTGAT
65 GCGTTGCGATAGTCAAATTCGCGTTGTGAT
* * * *
104182 AGTCAAATTCGCGTTGCGATATTCAAATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTTTG
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATAGTCAAATACGCGTTGCGATTTTTG
*
104247 CGTTGCGATAGTCAAATTCGTGTTGTGAT
66 CGTTGCGATAGTCAAATTCGCGTTGTGAT
* *
104276 ATTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATATTCAAAT
1 AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATAGTCAAAT
104324 GAATGTGTAA
Statistics
Matches: 123, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
92 4 0.03
93 17 0.14
94 102 0.83
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.36
Consensus pattern (94 bp):
AGTCAAATTCGCGTTGCGATAGTCAAATTCGCGTTACGATAGTCAAATACGCGTTGCGATTTTTG
CGTTGCGATAGTCAAATTCGCGTTGTGAT
Found at i:104247 original size:74 final size:74
Alignment explanation
Indices: 104169--104315 Score: 249
Period size: 74 Copynumber: 2.0 Consensus size: 74
104159 GATAGTCAAA
*
104169 TTTGCGTTGTGATAGTCAAATTCGCGTTGCGATATTCAAATTCACGTTGCGATAGTCAAATTCGC
1 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAATTCACGTTGCGATAGTCAAATTCGC
*
104234 GTTGCGATT
66 GTTACGATT
* * *
104243 TTTGCGTTGCGATAGTCAAATTCGTGTTGTGATATTCAAATTCGCGTTGCGATAGTCAAATTCGC
1 TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAATTCACGTTGCGATAGTCAAATTCGC
104308 GTTACGAT
66 GTTACGAT
104316 ATTCAAATGA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (74 bp):
TTTGCGTTGCGATAGTCAAATTCGCGTTGCGATATTCAAATTCACGTTGCGATAGTCAAATTCGC
GTTACGATT
Found at i:104516 original size:12 final size:12
Alignment explanation
Indices: 104491--104529 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
104481 ATGAAGCCGG
**
104491 TTGTGATTGAGA
1 TTGTGATTTTGA
*
104503 TTTTGATTTTGA
1 TTGTGATTTTGA
104515 TTGTGATTTTGA
1 TTGTGATTTTGA
104527 TTG
1 TTG
104530 CCTTTTGCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.26, T:0.56
Consensus pattern (12 bp):
TTGTGATTTTGA
Found at i:104517 original size:18 final size:18
Alignment explanation
Indices: 104494--104528 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
104484 AAGCCGGTTG
104494 TGATTGAGATTTTGATTT
1 TGATTGAGATTTTGATTT
*
104512 TGATTGTGATTTTGATT
1 TGATTGAGATTTTGATT
104529 GCCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.23, T:0.57
Consensus pattern (18 bp):
TGATTGAGATTTTGATTT
Found at i:106853 original size:24 final size:24
Alignment explanation
Indices: 106802--106853 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
106792 ATCCAAGTAT
** *
106802 TGACCAAGATCAAAGTTCGGGTAT
1 TGACCAAGATCAAAGTTCGAATAC
* *
106826 TGACCAAGATCAAATTTTGAATAC
1 TGACCAAGATCAAAGTTCGAATAC
106850 TGAC
1 TGAC
106854 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (24 bp):
TGACCAAGATCAAAGTTCGAATAC
Found at i:107520 original size:22 final size:22
Alignment explanation
Indices: 107491--107573 Score: 150
Period size: 22 Copynumber: 3.8 Consensus size: 22
107481 TGTCGGATGG
*
107491 GGAA-GGATGTCGTTGGATATA
1 GGAACGGATGTCGTCGGATATA
107512 GGAACGGATGTCGTCGGATATA
1 GGAACGGATGTCGTCGGATATA
107534 GGAACGGATGTCGTCGGATATA
1 GGAACGGATGTCGTCGGATATA
107556 GGAACGGATGTCGTCGGA
1 GGAACGGATGTCGTCGGA
107574 GAGAGTGATA
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
21 4 0.07
22 56 0.93
ACGTcount: A:0.27, C:0.12, G:0.39, T:0.23
Consensus pattern (22 bp):
GGAACGGATGTCGTCGGATATA
Found at i:107731 original size:20 final size:20
Alignment explanation
Indices: 107706--107772 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
107696 AAATTCAGTG
107706 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
107726 TTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCA
* *
107746 TTGCGATAGTTAGAATCGCG
1 TTGCGATAGTCAGAATCGCA
107766 TTGCGAT
1 TTGCGAT
107773 TTACATATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCA
Found at i:107751 original size:40 final size:40
Alignment explanation
Indices: 107706--107825 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
107696 AAATTCAGTG
*
107706 TTGCGATAGTCAGAATCGCATTGCGATAGTCAGAATCGCA
1 TTGCGATAGTCAGAATCGCATTGCGATAGTCAAAATCGCA
* * * * *
107746 TTGCGATAGTTAGAATCGCGTTGCGAT-TTACATATTCGCA
1 TTGCGATAGTCAGAATCGCATTGCGATAGT-CAAAATCGCA
** * * *
107786 TTGCGATTTTCTAAAATCACAATGCGATAGTCAAAATCGC
1 TTGCGATAGTC-AGAATCGCATTGCGATAGTCAAAATCGC
107826 GTTACGAATC
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
39 1 0.02
40 41 0.66
41 19 0.31
42 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCGATAGTCAGAATCGCATTGCGATAGTCAAAATCGCA
Found at i:107872 original size:20 final size:19
Alignment explanation
Indices: 107847--107892 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
107837 GGAAACTGAT
*
107847 TTGCGATACTAGAGATCGCG
1 TTGCGAT-CTAGAGATCGCA
*
107867 TTGCGATTTAGAGATCGCA
1 TTGCGATCTAGAGATCGCA
107886 TTGCGAT
1 TTGCGAT
107893 TTTGTTGGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.30
Consensus pattern (19 bp):
TTGCGATCTAGAGATCGCA
Found at i:107880 original size:19 final size:19
Alignment explanation
Indices: 107856--107894 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
107846 TTTGCGATAC
*
107856 TAGAGATCGCGTTGCGATT
1 TAGAGATCGCATTGCGATT
107875 TAGAGATCGCATTGCGATT
1 TAGAGATCGCATTGCGATT
107894 T
1 T
107895 TGTTGGTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.33
Consensus pattern (19 bp):
TAGAGATCGCATTGCGATT
Found at i:108831 original size:15 final size:16
Alignment explanation
Indices: 108806--108837 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
108796 TACTATTTCA
108806 TACCATAATTTAAAAT
1 TACCATAATTTAAAAT
108822 TACC-TAATTTAAAAT
1 TACCATAATTTAAAAT
108837 T
1 T
108838 TAACCGATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
TACCATAATTTAAAAT
Found at i:109316 original size:17 final size:18
Alignment explanation
Indices: 109285--109334 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
109275 TCACTATACT
*
109285 ATTCTTTTTCATGTATC-G
1 ATTCTTTTT-TTGTATCTG
*
109303 CTTCTTTTTTTGTA-CTG
1 ATTCTTTTTTTGTATCTG
*
109320 ATTCTTTTATTGTAT
1 ATTCTTTTTTTGTAT
109335 AATTTCTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 1 0.04
17 17 0.65
18 8 0.31
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.62
Consensus pattern (18 bp):
ATTCTTTTTTTGTATCTG
Found at i:109356 original size:17 final size:17
Alignment explanation
Indices: 109321--109396 Score: 64
Period size: 17 Copynumber: 4.5 Consensus size: 17
109311 TTTGTACTGA
*
109321 TTCTTTTATTGTA-TAAT
1 TTCTTTTATTATACT-AT
109338 TTCTTTTATTATACTAT
1 TTCTTTTATTATACTAT
** * *
109355 TTCACTTATTGTACTGT
1 TTCTTTTATTATACTAT
* *
109372 ATCTTTTGTTATACTAT
1 TTCTTTTATTATACTAT
*
109389 ATCTTTTA
1 TTCTTTTA
109397 GTTTTACTTT
Statistics
Matches: 46, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
17 45 0.98
18 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.05, T:0.61
Consensus pattern (17 bp):
TTCTTTTATTATACTAT
Found at i:112752 original size:86 final size:86
Alignment explanation
Indices: 112607--112768 Score: 256
Period size: 86 Copynumber: 1.9 Consensus size: 86
112597 TTCTTGTTTC
* * *
112607 TAATTATTTGAAGTTAAATTATATGGGTTCTCAGTTGTAAGAAAAGCTATAAAAAGAAGTAATGA
1 TAATTATTTGAAGTTAAATTATATAGGTTCTCAGTTGTAAGAAAAGATATAAAAAGAAGTAATAA
112672 AAATCGTGAAATTATTAGTTG
66 AAATCGTGAAATTATTAGTTG
*
112693 TAATTATTTGAA-TTCAATT-TAAGTAGGTTCTCAGTTGTAAGAAAAGATATAAAAAGAAGTAAT
1 TAATTATTTGAAGTTAAATTAT-A-TAGGTTCTCAGTTGTAAGAAAAGATATAAAAAGAAGTAAT
112756 AAAAATCGTGAAA
64 AAAAATCGTGAAA
112769 AATGCAGAGA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
84 1 0.01
85 7 0.10
86 62 0.89
ACGTcount: A:0.44, C:0.05, G:0.17, T:0.33
Consensus pattern (86 bp):
TAATTATTTGAAGTTAAATTATATAGGTTCTCAGTTGTAAGAAAAGATATAAAAAGAAGTAATAA
AAATCGTGAAATTATTAGTTG
Found at i:113868 original size:20 final size:19
Alignment explanation
Indices: 113841--113883 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 19
113831 GTATTGACCT
113841 CTTAGTATCGATACTT-TAC
1 CTTAGTATCGATA-TTCTAC
113860 CTTAGGTATCGATATTCTAC
1 CTTA-GTATCGATATTCTAC
113880 CTTA
1 CTTA
113884 TATTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.42
Consensus pattern (19 bp):
CTTAGTATCGATATTCTAC
Found at i:118996 original size:80 final size:80
Alignment explanation
Indices: 118863--119024 Score: 272
Period size: 80 Copynumber: 2.0 Consensus size: 80
118853 TTTTATCATA
* *
118863 TAAACATGTACTATCATTTCACAACAAAGCACACATAGTATCAATCCAAGTTTATTTATTTA-TT
1 TAAACATGTACTATCATTTCACAACAAAGCACAAATAGTATCAAGCCAAGTTTATTTATTTATTT
118927 CTCTTTAAAGCCCATG
66 C-CTTTAAAGCCCATG
*
118943 TAAACATGTACTATCATTTCACAATAAAGCACAAATAGTATCAAGCCAAGTTTATTTATTTATTT
1 TAAACATGTACTATCATTTCACAACAAAGCACAAATAGTATCAAGCCAAGTTTATTTATTTATTT
*
119008 CCTTTAAATCCCATG
66 CCTTTAAAGCCCATG
119023 TA
1 TA
119025 TACTTCTGAG
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
80 74 0.96
81 3 0.04
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (80 bp):
TAAACATGTACTATCATTTCACAACAAAGCACAAATAGTATCAAGCCAAGTTTATTTATTTATTT
CCTTTAAAGCCCATG
Found at i:123128 original size:18 final size:18
Alignment explanation
Indices: 123101--123152 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
123091 ACTTAGAATT
* *
123101 TGTCCTGAAGAACCACTA
1 TGTCCCGAAGGACCACTA
*
123119 TGTCCCGAAGGACCAATA
1 TGTCCCGAAGGACCACTA
*
123137 AGTCCCGAAGGACCAC
1 TGTCCCGAAGGACCAC
123153 ATATCACATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.33, C:0.31, G:0.21, T:0.15
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:124034 original size:21 final size:22
Alignment explanation
Indices: 124008--124063 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
123998 CGATGTTTTC
124008 TGGTATCGATAC-CC-TCCACAA
1 TGGTATCGATACTCCTTCC-CAA
* **
124029 TGGTATTGATACTCCTTCCTTA
1 TGGTATCGATACTCCTTCCCAA
124051 TGGTATCGATACT
1 TGGTATCGATACT
124064 GTTCATACAG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 11 0.38
22 15 0.52
23 3 0.10
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (22 bp):
TGGTATCGATACTCCTTCCCAA
Done.