Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 389 of 438
Found at i:121274271 original size:33 final size:32
Alignment explanation
Indices: 121274187--121274288 Score: 96
Period size: 33 Copynumber: 3.1 Consensus size: 32
121274177 CAAATCGGAG
* * * *
121274187 TAAACACAAAATAGAGATAGTTCACTAGAACAG
1 TAAACACAAAACAGAGATAG-TCTCTAGGACAA
* * *
121274220 TAAAAATAGAACAGAGATAGTCCTCTAGGACAA
1 TAAACACAAAACAGAGATAGT-CTCTAGGACAA
* *
121274253 TAAACACAAAACAAAGATAGTCTATTAGGACAA
1 TAAACACAAAACAGAGATAGTCT-CTAGGACAA
121274286 TAA
1 TAA
121274289 GTACAAGTGA
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
32 3 0.05
33 52 0.95
ACGTcount: A:0.52, C:0.15, G:0.15, T:0.19
Consensus pattern (32 bp):
TAAACACAAAACAGAGATAGTCTCTAGGACAA
Found at i:121276252 original size:17 final size:15
Alignment explanation
Indices: 121276222--121276255 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
121276212 CTCCCAGATT
121276222 TAATAAAATAATAAA
1 TAATAAAATAATAAA
121276237 TAATAAAACTTAATAAA
1 TAATAAAA--TAATAAA
121276254 TA
1 TA
121276256 CAATATTGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
TAATAAAATAATAAA
Found at i:121280088 original size:55 final size:54
Alignment explanation
Indices: 121280000--121280257 Score: 237
Period size: 55 Copynumber: 4.9 Consensus size: 54
121279990 CATTAGGGTT
* *
121280000 CAAGGATACCATGTAAGACCATGCCAAGGCATGGCAGTTGTTAAGGTCTCTAAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCA-TTGATAAGGTCTCTAAGG
* * * *
121280055 CAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTAC-AAGG
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGGT-CT-CTAAGG
* * * *
121280110 CAAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGA-GT-TCATAAGG
1 C-AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGGTCTC-TAAGG
* * * * *
121280163 CAAGGCTACCATGTAAGACCATGTCAAGACATGGCAATGGTAA-GTTTC-AA--
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGGTCTCTAAGG
* * * *
121280213 -AAGGATACCATGTAAGACCATGACAAGCCATGGCAATGGTAAGGT
1 CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGGT
121280258 ACCCGTGTAT
Statistics
Matches: 173, Mismatches: 22, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
49 39 0.23
50 2 0.01
51 1 0.01
52 7 0.04
53 39 0.23
54 11 0.06
55 69 0.40
56 5 0.03
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (54 bp):
CAAGGATACCATGTAAGACCATGCCAAGACATGGCATTGATAAGGTCTCTAAGG
Found at i:121280207 original size:108 final size:110
Alignment explanation
Indices: 121280008--121280208 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
121279998 TTCAAGGATA
* *
121280008 CCATGTAAGACCATGCCAAGGCATGGCAGTTGTTAAGGTCTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
*
121280073 CCATGTCAAGACATGGCATTGATAAGTTACTACAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTACAAGGCAAAGGTC
* **
121280118 CCATGTAAGACCATGCCAAGGCATGGCA-TTGGTGA-GT-TCATAAGGCAAGGCTACCATGTAAG
1 CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAG
*
121280180 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
121280209 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.58
109 5 0.06
110 28 0.34
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGCAGTTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTACAAGGCAAAGGTC
Found at i:121280468 original size:16 final size:16
Alignment explanation
Indices: 121280447--121280477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121280437 ATAAATTTGA
121280447 TTAAGTAAGTAAGTAT
1 TTAAGTAAGTAAGTAT
*
121280463 TTAAGTAAGTGAGTA
1 TTAAGTAAGTAAGTA
121280478 AGTGAAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.23, T:0.35
Consensus pattern (16 bp):
TTAAGTAAGTAAGTAT
Found at i:121283708 original size:42 final size:44
Alignment explanation
Indices: 121283608--121283720 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 44
121283598 CAATAAAAAT
* * * *
121283608 ATAGCCGAAGCTATCTCAATGATCTTGCACCCGAAATGCTAATATAT
1 ATAGCCGAAGCTATCTCAAT-AAC-TGCACACGAAATGCT-AGATAC
* *
121283655 ATAGCCCAAGCTATCTCAATAAC-GCATACGAAATGCT-GATAC
1 ATAGCCGAAGCTATCTCAATAACTGCACACGAAATGCTAGATAC
121283697 ATAGCCGAAGCTATCTCAATAACT
1 ATAGCCGAAGCTATCTCAATAACT
121283721 ACCGCTAATG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
42 25 0.43
44 12 0.21
46 2 0.03
47 19 0.33
ACGTcount: A:0.36, C:0.25, G:0.14, T:0.25
Consensus pattern (44 bp):
ATAGCCGAAGCTATCTCAATAACTGCACACGAAATGCTAGATAC
Found at i:121284298 original size:21 final size:20
Alignment explanation
Indices: 121284270--121284309 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
121284260 CAAAACTCGT
121284270 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
121284290 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
121284310 AAATCTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:121291055 original size:45 final size:44
Alignment explanation
Indices: 121291006--121291175 Score: 147
Period size: 45 Copynumber: 3.9 Consensus size: 44
121290996 AGGATTTTTG
*
121291006 ATATGTGTTCTCGTGTAAGACCACGTCTAGGACGTTGGCATCGAT
1 ATATGTGTT-TCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* * *
121291051 ATATGTGGTTACGTGTAAGACCATGTCTGGGACGTCGGCATC-AT
1 ATATGT-GTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
* *
121291095 AT-T-TGATTCGTGTAAGACC-CTATCTGGGACAG-TGGCATCG--
1 ATATGTGTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGAT
** * * *
121291135 ATATGTGATAGCATGGAAGACCACGTCTGAGACGTTGGCAT
1 ATATGTG-TTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
121291176 TGTACGATAT
Statistics
Matches: 100, Mismatches: 16, Indels: 20
0.74 0.12 0.15
Matches are distributed among these distances:
40 2 0.02
41 28 0.28
42 5 0.05
43 23 0.23
44 5 0.05
45 34 0.34
46 3 0.03
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.29
Consensus pattern (44 bp):
ATATGTGTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:121291121 original size:41 final size:41
Alignment explanation
Indices: 121291016--121291143 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 41
121291006 ATATGTGTTC
* *
121291016 TCGTGTAAGACCAC-GTCTAGGACGTTGGCATCGATATATGTGGT
1 TCGTGTAAGACC-CTGTCTGGGACG-TGGCATCGATAT-T-TGAT
*
121291060 TACGTGTAAGACCATGTCTGGGACGTCGGCATC-ATATTTGAT
1 T-CGTGTAAGACCCTGTCTGGGACGT-GGCATCGATATTTGAT
* *
121291102 TCGTGTAAGACCCTATCTGGGACAGTGGCATCGATATGTGAT
1 TCGTGTAAGACCCTGTCTGGGAC-GTGGCATCGATATTTGAT
121291144 AGCATGGAAG
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
41 26 0.36
42 14 0.19
43 1 0.01
44 6 0.08
45 26 0.36
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (41 bp):
TCGTGTAAGACCCTGTCTGGGACGTGGCATCGATATTTGAT
Found at i:121291379 original size:19 final size:20
Alignment explanation
Indices: 121291344--121291382 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
121291334 GTTGCAAATC
121291344 ATATATGATGTAAATGAAAA
1 ATATATGATGTAAATGAAAA
*
121291364 ATATATG-TGTATATGAAAA
1 ATATATGATGTAAATGAAAA
121291383 TGCATTCGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.51, C:0.00, G:0.15, T:0.33
Consensus pattern (20 bp):
ATATATGATGTAAATGAAAA
Found at i:121293409 original size:27 final size:27
Alignment explanation
Indices: 121293371--121293423 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
121293361 CTCAAGCGAT
121293371 TGATCCGTTGAGATTACATAATCCCCC
1 TGATCCGTTGAGATTACATAATCCCCC
121293398 TGATCCGTTGAGATTACATAATCCCC
1 TGATCCGTTGAGATTACATAATCCCC
121293424 TTGTTAATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (27 bp):
TGATCCGTTGAGATTACATAATCCCCC
Found at i:121298136 original size:14 final size:15
Alignment explanation
Indices: 121298099--121298140 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
121298089 AAATACGAAC
121298099 TATATATGCTGAAATG
1 TATATATG-TGAAATG
*
121298115 TATA-ATGTGATA-G
1 TATATATGTGAAATG
121298128 TATATATGTGAAA
1 TATATATGTGAAA
121298141 GCCAAATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 5 0.22
14 11 0.48
15 3 0.13
16 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.38
Consensus pattern (15 bp):
TATATATGTGAAATG
Found at i:121299786 original size:27 final size:26
Alignment explanation
Indices: 121299738--121299797 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
121299728 GCGAGGCTGC
*
121299738 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * * *
121299765 CAGATATTGTGGCTAGGCCACCAGAG
1 CAGATATTGTGACGAAGCCACCAGAA
121299791 CAGATAT
1 CAGATAT
121299798 ATACATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:121304433 original size:40 final size:39
Alignment explanation
Indices: 121304389--121304581 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
121304379 GTTCAAAACA
* * ** * *
121304389 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
121304429 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
121304469 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
121304508 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
121304547 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
121304582 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:121304500 original size:39 final size:39
Alignment explanation
Indices: 121304419--121304581 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
121304409 TATGGTAACC
* *
121304419 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
121304459 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
121304498 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
121304537 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
121304576 CGCACA
1 CGCACA
121304582 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:121312419 original size:40 final size:40
Alignment explanation
Indices: 121312375--121312559 Score: 205
Period size: 39 Copynumber: 4.7 Consensus size: 40
121312365 GTTCAAAACA
* * ***
121312375 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
121312415 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * * *
121312455 CCTTCGGG-CTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* ** *
121312494 CCTTCCGG-CTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
121312533 CCTTCGGG-CTTAGCCCGGATATCACAA
1 CCTTCGGGACTTAGCCCGGATATCACAA
121312560 TTCGCACATT
Statistics
Matches: 129, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 89 0.69
40 40 0.31
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:121312486 original size:39 final size:39
Alignment explanation
Indices: 121312405--121312567 Score: 254
Period size: 39 Copynumber: 4.2 Consensus size: 39
121312395 TATGGTAACC
* *
121312405 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
121312445 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
121312484 CGCACAATTGCCTTCCGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
121312523 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
121312562 CGCACA
1 CGCACA
121312568 TTCATTCACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:121314082 original size:33 final size:34
Alignment explanation
Indices: 121314053--121314121 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 34
121314043 TTTATTTTTG
121314053 CATGC-TGATTAACTAGTCATCACTATATTTCCC
1 CATGCATGATTAACTAGTCATCACTATATTTCCC
*
121314086 CATGCATGATTAACTAGTCATCAC-ACATTTCCC
1 CATGCATGATTAACTAGTCATCACTATATTTCCC
121314119 CAT
1 CAT
121314122 CATACTTTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 16 0.47
34 18 0.53
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (34 bp):
CATGCATGATTAACTAGTCATCACTATATTTCCC
Found at i:121328142 original size:40 final size:40
Alignment explanation
Indices: 121327933--121328118 Score: 354
Period size: 40 Copynumber: 4.7 Consensus size: 40
121327923 AACATTGGAA
121327933 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
121327973 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
121328013 ATATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
121328053 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
121328093 ATATATCCGGGCTAAGACCCGAAGGC
1 ATATATCCGGGCTAAGACCCGAAGGC
121328119 CTTTGTGCAA
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:121328152 original size:120 final size:120
Alignment explanation
Indices: 121327933--121328182 Score: 358
Period size: 120 Copynumber: 2.1 Consensus size: 120
121327923 AACATTGGAA
121327933 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * * * * *
121327998 CATTCGTGCGAGATGATATATCCGGGCTAAGACCCGAAGGCATTCATGCGAGTTG
66 CATTCGTGCAAGATCACAAATCCGGACTAAGACCCGAAGGAAATCATGCGAGTCG
121328053 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
* * * * *
121328118 CCTTTGTGCAAG-TCACCAAATCCGGATTATGACCCGAAGGAAATCGTGCGAGTCG
66 CATTCGTGCAAGATCA-CAAATCCGGACTAAGACCCGAAGGAAATCATGCGAGTCG
*
121328173 CTATATCCGG
1 ATATATCCGG
121328183 TTAAATCCCG
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
119 2 0.02
120 113 0.98
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (120 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGATATATCCGGGCTAAGACCCGAAGG
CATTCGTGCAAGATCACAAATCCGGACTAAGACCCGAAGGAAATCATGCGAGTCG
Found at i:121329572 original size:10 final size:10
Alignment explanation
Indices: 121329557--121329596 Score: 64
Period size: 10 Copynumber: 4.0 Consensus size: 10
121329547 TGACCCGGTG
121329557 TACTTTCACA
1 TACTTTCACA
121329567 TACTTTCGA-A
1 TACTTTC-ACA
121329577 TACTTTCACA
1 TACTTTCACA
121329587 TACTTTCACA
1 TACTTTCACA
121329597 CCCTGACCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.04
10 26 0.93
11 1 0.04
ACGTcount: A:0.30, C:0.28, G:0.03, T:0.40
Consensus pattern (10 bp):
TACTTTCACA
Found at i:121329891 original size:45 final size:45
Alignment explanation
Indices: 121329791--121329917 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
121329781 TTTTCTCAAA
* *
121329791 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
121329833 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* * *
121329877 CTCACCGGCATTATAGCTTGCTAAGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
121329918 ATCAAGTCAA
Statistics
Matches: 75, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 41 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:121330306 original size:16 final size:16
Alignment explanation
Indices: 121330282--121330322 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
121330272 ACACATCACC
121330282 GGCACGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
*
121330298 GGCATGAAGCCTGCTA
1 GGCACGAAGCCTGCTA
121330314 GGCACGAAG
1 GGCACGAAG
121330323 GCCCGAATGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.27, C:0.27, G:0.34, T:0.12
Consensus pattern (16 bp):
GGCACGAAGCCTGCTA
Found at i:121330311 original size:59 final size:59
Alignment explanation
Indices: 121330247--121330359 Score: 190
Period size: 59 Copynumber: 1.9 Consensus size: 59
121330237 CTGGCATTAC
121330247 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCATGAA
* * * *
121330306 GCCTGCTAGGCACGAAGGCCCGAATGCATATCACCGGCACTAAGCTTGCTAGGC
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGC
121330360 TCGAAGGCCC
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.27, C:0.32, G:0.27, T:0.14
Consensus pattern (59 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCATGAA
Found at i:121330370 original size:43 final size:43
Alignment explanation
Indices: 121330304--121330417 Score: 174
Period size: 43 Copynumber: 2.7 Consensus size: 43
121330294 GCTAGGCATG
* * *
121330304 AAGCCTGCTAGGCACGAAGGCCCGAATGCATATCACCGGCACT
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAAT
* *
121330347 AAGCTTGCTAGGCTCGAAGGCCCGAATACACATCACCGGCAAT
1 AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAAT
*
121330390 AAGCCTGCTAGGCACGAAGGCCTGAATA
1 AAGCCTGCTAGGCACGAAGGCCCGAATA
121330418 TAATACCAGC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 63 1.00
ACGTcount: A:0.30, C:0.30, G:0.25, T:0.15
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCAAT
Found at i:121330453 original size:38 final size:38
Alignment explanation
Indices: 121330410--121330493 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 38
121330400 GGCACGAAGG
* * *
121330410 CCTGAATATAATACCAGCACTAGGCCTGCGGGATTTAT
1 CCTGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
121330448 CCTGAATATAATACCAGCACGAAGCCTGTGGGATTTAA
1 CCTGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
*
121330486 CCCGAATA
1 CCTGAATA
121330494 CACATCAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (38 bp):
CCTGAATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:121339618 original size:2 final size:2
Alignment explanation
Indices: 121339568--121339602 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
121339558 TTAGTATCTT
121339568 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121339603 GTTATTTGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:121344979 original size:31 final size:31
Alignment explanation
Indices: 121344941--121345004 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
121344931 CCTTTTCATA
121344941 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
**
121344972 TTTCATATTTCATGTTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
121345003 TT
1 TT
121345005 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:121345248 original size:24 final size:24
Alignment explanation
Indices: 121345196--121345291 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
121345186 GCTTTATCAT
* *
121345196 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
121345221 ATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
121345245 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
121345269 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
121345292 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 3
0.90 0.05 0.04
Matches are distributed among these distances:
24 54 0.82
25 12 0.18
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:121345367 original size:20 final size:20
Alignment explanation
Indices: 121345342--121345401 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
121345332 TATGATTACC
121345342 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
121345362 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
121345382 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
121345402 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:121345476 original size:25 final size:25
Alignment explanation
Indices: 121345444--121345491 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
121345434 ATACATAAAC
* * *
121345444 CCTAGGGGTATAATGGTCATTTTGA
1 CCTAGGGGCAAAACGGTCATTTTGA
121345469 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
121345492 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTGA
Found at i:121352880 original size:71 final size:71
Alignment explanation
Indices: 121352796--121352959 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
121352786 CGATTTGTCT
121352796 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
121352861 CTTTCA
66 CTTTCA
121352867 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
121352932 CTTTCA
66 CTTTCA
121352938 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
121352960 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:121352997 original size:71 final size:70
Alignment explanation
Indices: 121352796--121352993 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
121352786 CGATTTGTCT
* * * *
121352796 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
121352861 CTTTCA
65 CTTTCA
* * * *
121352867 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
121352932 CTTTCA
65 CTTTCA
* *
121352938 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
121352994 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:121360457 original size:71 final size:71
Alignment explanation
Indices: 121360373--121360536 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
121360363 CGATTTGTCT
121360373 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
121360438 CTTTCA
66 CTTTCA
121360444 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
121360509 CTTTCA
66 CTTTCA
121360515 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
121360537 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:121360574 original size:71 final size:70
Alignment explanation
Indices: 121360373--121360570 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
121360363 CGATTTGTCT
* * * *
121360373 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
121360438 CTTTCA
65 CTTTCA
* * * *
121360444 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
121360509 CTTTCA
65 CTTTCA
* *
121360515 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
121360571 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:121363387 original size:31 final size:31
Alignment explanation
Indices: 121363349--121363412 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
121363339 CCTTTTCATA
121363349 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
**
121363380 TTTCATATTTCATGTTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
121363411 TT
1 TT
121363413 ACTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:121363656 original size:24 final size:24
Alignment explanation
Indices: 121363604--121363723 Score: 188
Period size: 24 Copynumber: 5.0 Consensus size: 24
121363594 GCTTTATCAT
* *
121363604 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTG
*
121363629 ATAACTGGGGCAAAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
121363653 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
121363677 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
121363701 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
121363724 TCACTTCCTC
Statistics
Matches: 90, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
24 78 0.87
25 12 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTG
Found at i:121363799 original size:20 final size:20
Alignment explanation
Indices: 121363774--121363833 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
121363764 TATGATTACC
121363774 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
121363794 TCATGTGCATAGCATACATT
1 TCATGTGCATATCATACATA
121363814 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
121363834 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:121363904 original size:25 final size:25
Alignment explanation
Indices: 121363876--121363923 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
121363866 ATACATAAAC
* * *
121363876 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
121363901 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
121363924 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:121367917 original size:64 final size:63
Alignment explanation
Indices: 121367813--121367941 Score: 204
Period size: 64 Copynumber: 2.0 Consensus size: 63
121367803 TTCATAACAC
* *
121367813 ATCTAGTTAGGAGCATTTGATTCATGTCAATCATAGCATCCTAATTATTTGACATAAGCATCAG
1 ATCTAGTTAGGAGCATTTGATTCATGTCAATCATAACATCCTAACTATTTGACATAAGCAT-AG
* * *
121367877 ATCTAGTTAGGAGCATTTGATTCATTTCGATCATAACATCCTAACTATTTGGCATAAGCATAG
1 ATCTAGTTAGGAGCATTTGATTCATGTCAATCATAACATCCTAACTATTTGACATAAGCATAG
121367940 AT
1 AT
121367942 ACATGAAACT
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
63 4 0.07
64 56 0.93
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.35
Consensus pattern (63 bp):
ATCTAGTTAGGAGCATTTGATTCATGTCAATCATAACATCCTAACTATTTGACATAAGCATAG
Found at i:121368293 original size:88 final size:88
Alignment explanation
Indices: 121368162--121368532 Score: 442
Period size: 88 Copynumber: 4.2 Consensus size: 88
121368152 GAAGTTGCAA
* ***
121368162 TGGAGCAGATCGAAGACGATGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATAACA
1 TGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTTA
*
121368227 GATCTTGTCTCCCTAAGCAGTAG
66 GATCTTATCTCCCTAAGCAGTAG
* * * * * * * * *
121368250 CGGAGTAGATCGAGGACGGTGAGCCTTAACCCCCTAAGTAGTAGGTTAATAGGCAGGACATTTTA
1 TGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTTA
121368315 GATCTTATCTCCCTAAGCAGTAG
66 GATCTTATCTCCCTAAGCAGTAG
* * * * * * * *
121368338 TGGAGCAAATCAAAGACAGTGAGCCTTAACCCCCTAAGTAGTAGGGTAGCAGGCCGAAGATTGTA
1 TGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTTA
*
121368403 GATCTTGTCTCCCTAAGCAGTAG
66 GATCTTATCTCCCTAAGCAGTAG
* * * * *
121368426 TGGAGCAAATCAAAGACGGTGAGCTTTAA-CCCCTAAGCAGTAGCGTAACAGGCTGGAAATTTTA
1 TGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTTA
*
121368490 GA--TTATCTCCCTAAGGAGTAG
66 GATCTTATCTCCCTAAGCAGTAG
**
121368511 TGGAGTTGATCGAAGACGGTGA
1 TGGAGCAGATCGAAGACGGTGA
121368533 ATCTTGTCTC
Statistics
Matches: 240, Mismatches: 43, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
85 35 0.15
87 30 0.12
88 175 0.73
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.22
Consensus pattern (88 bp):
TGGAGCAGATCGAAGACGGTGAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAAATTTTA
GATCTTATCTCCCTAAGCAGTAG
Found at i:121368463 original size:43 final size:43
Alignment explanation
Indices: 121368325--121368468 Score: 132
Period size: 44 Copynumber: 3.3 Consensus size: 43
121368315 GATCTTATCT
*
121368325 CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCCTTAACC
1 CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCTTTAA-C
* *** * ** *
121368369 CCCTAAGTAGTAG-GGTAGCAGGCCGAAGATTGTAGATCTTGT--C
1 CCCTAAGCAGTAGTGG-AGCAAATCAAAGACAGT-GAGCTT-TAAC
*
121368412 TCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCTTTAAC
1 -CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCTTTAAC
121368456 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
121368469 CGTAACAGGC
Statistics
Matches: 76, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
42 1 0.01
43 21 0.28
44 47 0.62
45 6 0.08
46 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.20
Consensus pattern (43 bp):
CCCTAAGCAGTAGTGGAGCAAATCAAAGACAGTGAGCTTTAAC
Found at i:121369705 original size:22 final size:21
Alignment explanation
Indices: 121369679--121369725 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
121369669 ACAAGGTGAT
121369679 TTTAATCTCGT-TTTTCTTTCGA
1 TTTAATCTC-TATTTTCTTT-GA
*
121369701 TTTAATTTCTATTTTCTTTGA
1 TTTAATCTCTATTTTCTTTGA
121369722 TTTA
1 TTTA
121369726 TCTACTGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.17, C:0.13, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTAATCTCTATTTTCTTTGA
Found at i:121370689 original size:2 final size:2
Alignment explanation
Indices: 121370682--121370712 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
121370672 TTTAATCTAT
*
121370682 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121370713 TTTCTTTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:121373525 original size:42 final size:41
Alignment explanation
Indices: 121373411--121373530 Score: 118
Period size: 42 Copynumber: 2.9 Consensus size: 41
121373401 ACATCTATTT
* * *
121373411 GAGATATCGTGTAAGACCGTGTCTAGGACACAGGGCTCGATT
1 GAGATTTCGTGTAAGACCATGTCTAGGACACA-GGCTCGATC
* * *
121373453 GAGATTTACATATAAGACCATGTCTGGGACATCA-GCATCGTATC
1 GAGATTT-CGTGTAAGACCATGTCTAGGACA-CAGGC-TCG-ATC
*
121373497 G-GATTTCGTGTAAGACCATGTCTAGGACAGAGGC
1 GAGATTTCGTGTAAGACCATGTCTAGGACACAGGC
121373531 ATTGATATTG
Statistics
Matches: 63, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
41 1 0.02
42 30 0.48
43 27 0.43
44 5 0.08
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (41 bp):
GAGATTTCGTGTAAGACCATGTCTAGGACACAGGCTCGATC
Found at i:121373563 original size:85 final size:85
Alignment explanation
Indices: 121373417--121373573 Score: 203
Period size: 85 Copynumber: 1.8 Consensus size: 85
121373407 ATTTGAGATA
* * *
121373417 TCGTGTAAGACCGTGTCTAGGACACAGGGCTCGATTGAGATTTACATATAAGACCATGTCTGGGA
1 TCGTGTAAGACCATGTCTAGGACACAGGGCTCGATTGAGATTCACATATAAGACCACGTCTGGGA
121373482 CATCAGCATCGTATCGGATT
66 CATCAGCATCGTATCGGATT
* * *
121373502 TCGTGTAAGACCATGTCTAGGACAGA-GGCATTGATATTGA-A-TCACATGTAAGACCACGTCTG
1 TCGTGTAAGACCATGTCTAGGACACAGGGC-TCG--ATTGAGATTCACATATAAGACCACGTCTG
*
121373564 GGACGTCAGC
63 GGACATCAGC
121373574 GTTGTACGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
84 3 0.05
85 53 0.85
86 1 0.02
87 5 0.08
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.25
Consensus pattern (85 bp):
TCGTGTAAGACCATGTCTAGGACACAGGGCTCGATTGAGATTCACATATAAGACCACGTCTGGGA
CATCAGCATCGTATCGGATT
Found at i:121376491 original size:19 final size:19
Alignment explanation
Indices: 121376467--121376506 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
121376457 TGTGTCATCA
121376467 TAAATTCATAGACATAACT
1 TAAATTCATAGACATAACT
** *
121376486 TAAATTTGTAGATATAACT
1 TAAATTCATAGACATAACT
121376505 TA
1 TA
121376507 CACATTTTCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (19 bp):
TAAATTCATAGACATAACT
Found at i:121385632 original size:19 final size:20
Alignment explanation
Indices: 121385602--121385643 Score: 77
Period size: 19 Copynumber: 2.1 Consensus size: 20
121385592 GTAAAAAAAA
121385602 AATTTCTTATTGTCAGCTCC
1 AATTTCTTATTGTCAGCTCC
121385622 AATTT-TTATTGTCAGCTCC
1 AATTTCTTATTGTCAGCTCC
121385641 AAT
1 AAT
121385644 ATTGAAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (20 bp):
AATTTCTTATTGTCAGCTCC
Found at i:121386575 original size:24 final size:23
Alignment explanation
Indices: 121386541--121386587 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
121386531 TTTACGTTCT
121386541 GGAAAGCTAAAAGAAAAAGAAAAA
1 GGAAAGCTAAAAG-AAAAGAAAAA
*
121386565 GGAAAGTTAAAAGAAAAGAAAAA
1 GGAAAGCTAAAAGAAAAGAAAAA
121386588 TTAAAATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.70, C:0.02, G:0.21, T:0.06
Consensus pattern (23 bp):
GGAAAGCTAAAAGAAAAGAAAAA
Found at i:121386582 original size:17 final size:18
Alignment explanation
Indices: 121386555--121386593 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
121386545 AGCTAAAAGA
* *
121386555 AAAAGAAAAAGGAAAGTT
1 AAAAGAAAAAGAAAAATT
121386573 AAAAG-AAAAGAAAAATT
1 AAAAGAAAAAGAAAAATT
121386590 AAAA
1 AAAA
121386594 TTATTGGGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.15, T:0.10
Consensus pattern (18 bp):
AAAAGAAAAAGAAAAATT
Found at i:121389735 original size:5 final size:5
Alignment explanation
Indices: 121389725--121389755 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
121389715 AGGATTGTAT
121389725 ATATA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA A
121389756 GCATGAGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:121389912 original size:17 final size:16
Alignment explanation
Indices: 121389890--121389921 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
121389880 AATAGTTGTG
121389890 ATAATTATACATTTAAA
1 ATAATTATA-ATTTAAA
121389907 ATAATTATAATTTAA
1 ATAATTATAATTTAA
121389922 TAGAAGTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAATTATAATTTAAA
Found at i:121389953 original size:44 final size:43
Alignment explanation
Indices: 121389872--121389975 Score: 109
Period size: 44 Copynumber: 2.3 Consensus size: 43
121389862 TTTAAAAAGT
* * * *
121389872 TGAAATAAAATAGTTGTGATAATTATACATTTAAAATAATTATAA
1 TGAAAT-AAA-AGTTATGGTAATAATACATTTAAAATAATTAGAA
** * *
121389917 TTTAATAGAAGTTATGGTAATAATATATTTACAAATAATTAGAA
1 TGAAATAAAAGTTATGGTAATAATACATTTA-AAATAATTAGAA
121389961 TGAAATAAAAGTTAT
1 TGAAATAAAAGTTAT
121389976 TCTAATTTTA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
43 18 0.38
44 25 0.53
45 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.11, T:0.38
Consensus pattern (43 bp):
TGAAATAAAAGTTATGGTAATAATACATTTAAAATAATTAGAA
Found at i:121404936 original size:43 final size:42
Alignment explanation
Indices: 121404875--121404977 Score: 120
Period size: 42 Copynumber: 2.4 Consensus size: 42
121404865 CAACGGTGAA
* * * *
121404875 GTCCCGGACATGGTCTTACATGTAATTCA-ATATCGATGCCT-CT
1 GTCCCAGACATGGTCTTACACGGAA-TCAGATAT-GATG-CTGAT
*
121404918 GTCCCAGACAGGGTCTTACACGGAATCAGATATGATGCTGAT
1 GTCCCAGACATGGTCTTACACGGAATCAGATATGATGCTGAT
121404960 GTCCCAGACATGGTCTTA
1 GTCCCAGACATGGTCTTA
121404978 TACATAAATC
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
41 2 0.04
42 25 0.48
43 25 0.48
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (42 bp):
GTCCCAGACATGGTCTTACACGGAATCAGATATGATGCTGAT
Found at i:121405494 original size:48 final size:48
Alignment explanation
Indices: 121405440--121405535 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
121405430 TAAAATTTCT
121405440 TTGCAACAAGGGCTAGCCGAATTTTCATGGCTTCTACACAAGCCCATA
1 TTGCAACAAGGGCTAGCCGAATTTTCATGGCTTCTACACAAGCCCATA
*
121405488 TTGCAACAAGGGCTAGCCGAATTTTCATGGCTTCTATACAAGCCCATA
1 TTGCAACAAGGGCTAGCCGAATTTTCATGGCTTCTACACAAGCCCATA
121405536 CAATATTATT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (48 bp):
TTGCAACAAGGGCTAGCCGAATTTTCATGGCTTCTACACAAGCCCATA
Found at i:121413439 original size:26 final size:26
Alignment explanation
Indices: 121413403--121413538 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
121413393 TGATACAAAT
*
121413403 TGATAATAGGTTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
121413429 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
121413455 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
121413481 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
121413507 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
121413533 TGATAA
1 TGATAA
121413539 GAATTTCATG
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 107 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:121415167 original size:27 final size:27
Alignment explanation
Indices: 121415126--121415238 Score: 111
Period size: 27 Copynumber: 4.2 Consensus size: 27
121415116 GAGGAAGCGT
* *
121415126 TCTGGTGGCTATGCCACAAATATTTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
121415153 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* * *
121415180 TCTTGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
121415208 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
121415234 TCTGG
1 TCTGG
121415239 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 5 0.07
27 53 0.74
28 14 0.19
ACGTcount: A:0.17, C:0.23, G:0.22, T:0.38
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:121415231 original size:54 final size:54
Alignment explanation
Indices: 121415124--121415238 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
121415114 TGGAGGAAGC
* *
121415124 GTTCTGGTGGCTATGCCACAAATATTTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * * *
121415178 GTTCTTGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
121415232 GTTCTGG
1 GTTCTGG
121415239 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.38
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:121416435 original size:44 final size:44
Alignment explanation
Indices: 121416382--121416467 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
121416372 GCATACATGA
121416382 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTCTT
1 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTCTT
121416426 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTC
1 ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTC
121416468 CAAGGATCTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (44 bp):
ACCCTAGCTTAAAATATGGGTAGAAATGGAGAGAACATGTTCTT
Found at i:121426999 original size:40 final size:40
Alignment explanation
Indices: 121426893--121427076 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
121426883 TGCTGGAAAT
* * * * * **
121426893 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
121426933 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
121426973 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
121427011 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
121427052 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
121427077 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:121447768 original size:28 final size:28
Alignment explanation
Indices: 121447735--121447791 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
121447725 GAGGTATATT
121447735 GGTAATTTTGCTATTTAGGGGTAATTTC
1 GGTAATTTTGCTATTTAGGGGTAATTTC
*
121447763 GGTAATTTTGCTCTTTAGGGGTAATTTC
1 GGTAATTTTGCTATTTAGGGGTAATTTC
121447791 G
1 G
121447792 TGATCTACGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.09, G:0.26, T:0.46
Consensus pattern (28 bp):
GGTAATTTTGCTATTTAGGGGTAATTTC
Found at i:121449439 original size:20 final size:20
Alignment explanation
Indices: 121449416--121449453 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
121449406 CACATCCAAA
*
121449416 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
121449436 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
121449454 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:121452600 original size:20 final size:19
Alignment explanation
Indices: 121452577--121452618 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
121452567 TAAAGAAAGT
121452577 AAATAC-AATGGAAAGTAATG
1 AAATACAAAT-GAAAGTAA-G
*
121452597 AAATGCAAATGAAAGTAAG
1 AAATACAAATGAAAGTAAG
121452616 AAA
1 AAA
121452619 ATTTGAAAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 13 0.65
21 3 0.15
ACGTcount: A:0.60, C:0.05, G:0.19, T:0.17
Consensus pattern (19 bp):
AAATACAAATGAAAGTAAG
Found at i:121459558 original size:40 final size:40
Alignment explanation
Indices: 121459478--121459763 Score: 448
Period size: 40 Copynumber: 7.2 Consensus size: 40
121459468 AACCCAAGTA
* *
121459478 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
121459517 CCTTCGGGACTTAGCCCGGGTATATTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
121459557 CCTTCAGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
121459597 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAGTG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
121459637 CCTTCGGGACTTAGCCTGGATATATTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
121459677 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
121459717 CCTTTGAGACTTAGCCCGGATATAGTAACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
121459757 CCTTCGG
1 CCTTCGG
121459764 ATCTGTAACG
Statistics
Matches: 223, Mismatches: 23, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
39 13 0.06
40 210 0.94
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:121461508 original size:28 final size:28
Alignment explanation
Indices: 121461468--121461531 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
121461458 TGTACTAGAG
*
121461468 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
*
121461496 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
121461524 TACCCCTA
1 TACCCCTA
121461532 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:121461695 original size:27 final size:28
Alignment explanation
Indices: 121461637--121461726 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
121461627 AGGAAGCGTC
*
121461637 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
121461665 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
121461692 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
121461721 CTGGTG
1 CTGGTG
121461727 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:121461737 original size:29 final size:28
Alignment explanation
Indices: 121461647--121461737 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
121461637 CTGGTGGCTA
* * *
121461647 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
121461675 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
121461702 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
121461731 TGTCACA
1 TGCCACA
121461738 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:121461745 original size:55 final size:56
Alignment explanation
Indices: 121461637--121461751 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
121461627 AGGAAGCGTC
* * *
121461637 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
121461692 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
121461748 CTGG
1 CTGG
121461752 CAGCCATGTT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:121462837 original size:11 final size:10
Alignment explanation
Indices: 121462809--121462842 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
121462799 AGTCTGTAAG
121462809 TATTCTGAAT
1 TATTCTGAAT
*
121462819 TTTTCTGAAT
1 TATTCTGAAT
121462829 ATATTCTGAAT
1 -TATTCTGAAT
121462840 TAT
1 TAT
121462843 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:121469367 original size:28 final size:28
Alignment explanation
Indices: 121469327--121469390 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 28
121469317 TGTACTAGAG
*
121469327 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
*
121469355 TACCCCTATGTATGCAAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
121469383 TACCCCTA
1 TACCCCTA
121469391 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.33, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:121469554 original size:27 final size:28
Alignment explanation
Indices: 121469496--121469585 Score: 112
Period size: 27 Copynumber: 3.2 Consensus size: 28
121469486 AGGAAGCGTC
*
121469496 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
121469524 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
121469551 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
121469580 CTGGTG
1 CTGGTG
121469586 ACTCTGTCAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.19, C:0.24, G:0.24, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:121469596 original size:29 final size:28
Alignment explanation
Indices: 121469506--121469596 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
121469496 CTGGTGGCTA
* * *
121469506 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
121469534 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
121469561 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
121469590 TGTCACA
1 TGCCACA
121469597 TTTTCTGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
27 23 0.44
28 14 0.27
29 15 0.29
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:121469604 original size:55 final size:56
Alignment explanation
Indices: 121469496--121469610 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
121469486 AGGAAGCGTC
* * *
121469496 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACGTATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
121469551 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
121469607 CTGG
1 CTGG
121469611 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.18, C:0.24, G:0.23, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:121470078 original size:18 final size:18
Alignment explanation
Indices: 121470039--121470079 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
121470029 TAATAAGGCC
* *
121470039 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
121470057 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
121470075 TTTTA
1 TTTTA
121470080 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:121474125 original size:35 final size:35
Alignment explanation
Indices: 121474077--121474281 Score: 191
Period size: 35 Copynumber: 5.9 Consensus size: 35
121474067 AGGTAAGTAT
* * *
121474077 ATGTGAGGCTATATTGAACTTGTATATTCGGCTGC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
*
121474112 ATGTGAGGTTATATTGAACTTGTGA-ATTCGATTAC
1 ATGTGAGGTTATATTGAACTTGT-ATATTCGGTTAC
* *
121474147 ATGTGAGCTTATATTGAACTTGTATATTCAGTTAC
1 ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
* ** *
121474182 ATGTGAGGTTATATTGAA-TTGGTATATTCAGCCAT
1 ATGTGAGGTTATATTGAACTT-GTATATTCGGTTAC
* * * * *
121474217 ATGAGATGTT-TATTTGAACTTGAACATTAGGTTAC
1 ATGTGAGGTTATA-TTGAACTTGTATATTCGGTTAC
* * * *
121474252 ATGTAATGATATATTGAACTTATATATTCG
1 ATGTGAGGTTATATTGAACTTGTATATTCG
121474282 ACAATATAGG
Statistics
Matches: 137, Mismatches: 27, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
34 5 0.04
35 127 0.93
36 5 0.04
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.40
Consensus pattern (35 bp):
ATGTGAGGTTATATTGAACTTGTATATTCGGTTAC
Found at i:121475199 original size:23 final size:23
Alignment explanation
Indices: 121475172--121475218 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
121475162 TTGAAATCTC
121475172 TTTCTAATTAAAACCCCTAGTGT
1 TTTCTAATTAAAACCCCTAGTGT
121475195 TTTCTAATTAAAACCCCTAGTGT
1 TTTCTAATTAAAACCCCTAGTGT
121475218 T
1 T
121475219 GCATTAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (23 bp):
TTTCTAATTAAAACCCCTAGTGT
Found at i:121490104 original size:25 final size:26
Alignment explanation
Indices: 121490069--121490137 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 26
121490059 ATTTCTGATT
*
121490069 TTGATGCATATTTT-GAGTTATGCCA
1 TTGATGAATATTTTAGAGTTATGCCA
121490094 TTGATGAATATTTTTGTTTAGAGTTATGCCA
1 TTGATGAATA----T-TTTAGAGTTATGCCA
121490125 TTGATGAATATTT
1 TTGATGAATATTT
121490138 GTGTTTAGTG
Statistics
Matches: 37, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
25 9 0.24
26 2 0.05
27 1 0.03
29 1 0.03
30 3 0.08
31 21 0.57
ACGTcount: A:0.26, C:0.07, G:0.19, T:0.48
Consensus pattern (26 bp):
TTGATGAATATTTTAGAGTTATGCCA
Found at i:121490121 original size:31 final size:31
Alignment explanation
Indices: 121490083--121490145 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
121490073 TGCATATTTT
*
121490083 GAGTTATGCCATTGATGAATATTTTTGTTTA
1 GAGTTATGCCATTGATGAATATTTGTGTTTA
121490114 GAGTTATGCCATTGATGAATATTTGTGTTTA
1 GAGTTATGCCATTGATGAATATTTGTGTTTA
121490145 G
1 G
121490146 TGATGTTTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.25, C:0.06, G:0.22, T:0.46
Consensus pattern (31 bp):
GAGTTATGCCATTGATGAATATTTGTGTTTA
Found at i:121490507 original size:35 final size:35
Alignment explanation
Indices: 121490461--121490666 Score: 165
Period size: 35 Copynumber: 5.9 Consensus size: 35
121490451 AAGTAAGTAT
* * **
121490461 ATGTGAAGTTATATTGAACTTGTATATTTGGCTGG
1 ATGTGAAGTTATATTGAACTTGTATATTCGGTTAC
* * *
121490496 ATGTGAGGTTATATTGAACTAGTGA-ATTCGATTAC
1 ATGTGAAGTTATATTGAACTTGT-ATATTCGGTTAC
*
121490531 ATGTG-AGCTTATATTGAACTTGTATATTCAGTTAC
1 ATGTGAAG-TTATATTGAACTTGTATATTCGGTTAC
*
121490566 ATGTGAAGTTATATTGAA-TTGGTATATTCGG--CC
1 ATGTGAAGTTATATTGAACTT-GTATATTCGGTTAC
* * * *
121490599 ATCTGAGATGTT-TATTTGAACTTGAACATTAGGTTAC
1 ATGTGA-A-GTTATA-TTGAACTTGTATATTCGGTTAC
* *
121490636 ATGT-AATGATATATTGAACTTATATATTCGG
1 ATGTGAA-GTTATATTGAACTTGTATATTCGG
121490667 CCATATGAAA
Statistics
Matches: 135, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
33 6 0.04
34 7 0.05
35 110 0.81
36 8 0.06
37 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (35 bp):
ATGTGAAGTTATATTGAACTTGTATATTCGGTTAC
Found at i:121491462 original size:19 final size:19
Alignment explanation
Indices: 121491419--121491464 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
121491409 CTAGTTCTGG
* *
121491419 ACACGAGCGTGTGCAAGGG
1 ACACGGGCGTGTGCAAGGC
121491438 ACACGGGCGTGTGCAAGGC
1 ACACGGGCGTGTGCAAGGC
121491457 ACACGGGC
1 ACACGGGC
121491465 TGGACACACG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.41, T:0.09
Consensus pattern (19 bp):
ACACGGGCGTGTGCAAGGC
Found at i:121491735 original size:18 final size:18
Alignment explanation
Indices: 121491712--121491749 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
121491702 GAATGCATGA
121491712 TTTTAAATTGTATGCAAG
1 TTTTAAATTGTATGCAAG
121491730 TTTTAAATTGTATGCAAG
1 TTTTAAATTGTATGCAAG
121491748 TT
1 TT
121491750 ATTGTTGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (18 bp):
TTTTAAATTGTATGCAAG
Found at i:121493691 original size:29 final size:29
Alignment explanation
Indices: 121493654--121493734 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
121493644 CACCTTGACA
* *
121493654 CGAATTCTCAATGAACAAGTTCTTCATCG
1 CGAACTCTCAACGAACAAGTTCTTCATCG
* * *
121493683 CGAACTCTCAACGAACGAGTTCTTTATTG
1 CGAACTCTCAACGAACAAGTTCTTCATCG
121493712 CGAACTCTCAACGAACAAGTTCT
1 CGAACTCTCAACGAACAAGTTCT
121493735 CCACCTCTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTTCATCG
Found at i:121504357 original size:29 final size:29
Alignment explanation
Indices: 121504324--121504397 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
121504314 GTGACGAGAT
121504324 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
121504353 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
121504382 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
121504398 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:121504413 original size:29 final size:29
Alignment explanation
Indices: 121504381--121504456 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
121504371 CTGGAAATAT
* *
121504381 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
** * * *
121504410 ATGGCACTGTGTGTGCGGGCTTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTCAAAGCGC
121504439 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
121504457 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.22, C:0.20, G:0.36, T:0.22
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCTCAAAGCGC
Found at i:121504424 original size:58 final size:58
Alignment explanation
Indices: 121504324--121504456 Score: 133
Period size: 58 Copynumber: 2.3 Consensus size: 58
121504314 GTGACGAGAT
* * * * * *
121504324 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT-GAAATCACA
* * ** * * *
121504382 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
121504440 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
121504457 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
57 4 0.07
58 57 0.93
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (58 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTGAAATCACA
Found at i:121512222 original size:29 final size:29
Alignment explanation
Indices: 121512189--121512262 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
121512179 GTGACGAGAT
121512189 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
121512218 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
121512247 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
121512263 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:121512278 original size:29 final size:28
Alignment explanation
Indices: 121512246--121512320 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
121512236 CTGGAAATAT
* *
121512246 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
121512275 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
121512303 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
121512321 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:121512289 original size:58 final size:57
Alignment explanation
Indices: 121512189--121512320 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
121512179 GTGACGAGAT
* * * * * *
121512189 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
121512247 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
121512304 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
121512321 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:121515661 original size:51 final size:49
Alignment explanation
Indices: 121515434--121515658 Score: 288
Period size: 49 Copynumber: 4.5 Consensus size: 49
121515424 CTGGTACGCA
*
121515434 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATTCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
* * ** * *
121515483 TAGTAGCCTACACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACC-AATTATCCGGTACACG
* * * * * *
121515533 TAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCGGGTACGCA
1 TAGTAGCCTACACTTAGTACTACACATGCGA-CCAA-TTATCCGGTACACG
* *
121515584 TAGTAGTCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
121515633 TAGTAGCCTACACTTAGTACTACACA
1 TAGTAGCCTACACTTAGTACTACACA
121515659 CATGACCTCA
Statistics
Matches: 149, Mismatches: 24, Indels: 6
0.83 0.13 0.03
Matches are distributed among these distances:
49 66 0.44
50 45 0.30
51 38 0.26
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTACACTTAGTACTACACATGCGACCAATTATCCGGTACACG
Found at i:121518388 original size:16 final size:17
Alignment explanation
Indices: 121518355--121518395 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
121518345 TATCATTACT
*
121518355 AATT-TAAAATTTTATA
1 AATTATAAAAATTTATA
121518371 AATTATAAAAATTT-TA
1 AATTATAAAAATTTATA
121518387 AATTA-AAAA
1 AATTATAAAA
121518396 TTTGTCATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 4 0.17
16 11 0.48
17 8 0.35
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATTATAAAAATTTATA
Found at i:121521343 original size:22 final size:22
Alignment explanation
Indices: 121521315--121521370 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
121521305 ATACAGAGCC
121521315 ACACGCCCGTGTGAGATAGGGG
1 ACACGCCCGTGTGAGATAGGGG
* *
121521337 ACACGCCTGTATGAGATAGGGG
1 ACACGCCCGTGTGAGATAGGGG
*
121521359 ACATGCCCGTGT
1 ACACGCCCGTGT
121521371 CCTCCAGCCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.23, G:0.36, T:0.18
Consensus pattern (22 bp):
ACACGCCCGTGTGAGATAGGGG
Found at i:121528103 original size:21 final size:21
Alignment explanation
Indices: 121528079--121528118 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121528069 GCCTAAGATG
*
121528079 TGAATTGGATTGAATTGAGTA
1 TGAATTGGATTAAATTGAGTA
*
121528100 TGAATTGTATTAAATTGAG
1 TGAATTGGATTAAATTGAG
121528119 CTAAATTTAC
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:0.35, C:0.00, G:0.25, T:0.40
Consensus pattern (21 bp):
TGAATTGGATTAAATTGAGTA
Found at i:121528621 original size:25 final size:24
Alignment explanation
Indices: 121528593--121528648 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
121528583 CTCGCTTGAA
121528593 CTTCCCGATATATGGCTATCTGGAG
1 CTTCCCGATA-ATGGCTATCTGGAG
* * * *
121528618 CTTCCTGTTAATGGCTTTTTGGAG
1 CTTCCCGATAATGGCTATCTGGAG
*
121528642 CTACCCG
1 CTTCCCG
121528649 TTATTGAATC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (24 bp):
CTTCCCGATAATGGCTATCTGGAG
Found at i:121528651 original size:24 final size:24
Alignment explanation
Indices: 121528604--121528651 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
121528594 TTCCCGATAT
* *
121528604 ATGGCTATCTGGAGCTTCCTGTTA
1 ATGGCTATCTGGAGCTACCCGTTA
* *
121528628 ATGGCTTTTTGGAGCTACCCGTTA
1 ATGGCTATCTGGAGCTACCCGTTA
121528652 TTGAATCGCA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.21, G:0.25, T:0.38
Consensus pattern (24 bp):
ATGGCTATCTGGAGCTACCCGTTA
Found at i:121537362 original size:40 final size:40
Alignment explanation
Indices: 121537261--121537445 Score: 228
Period size: 40 Copynumber: 4.6 Consensus size: 40
121537251 TATTCGAATG
* * * *
121537261 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGTTAAGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCT-AGTGACT
* * * *
121537302 ATATCCGGACTAAGATCCGAAGGCATTTATGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
* * * *
121537342 ATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
*
121537382 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGA-T
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
121537421 CATATCCGGGCTAAGACCCGAAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
121537446 CTTGTGCGAG
Statistics
Matches: 121, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 94 0.78
41 26 0.21
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGTGACT
Found at i:121551717 original size:34 final size:33
Alignment explanation
Indices: 121551670--121551733 Score: 83
Period size: 34 Copynumber: 1.9 Consensus size: 33
121551660 TTGTTTGCAT
*
121551670 ACTGTACTGAAATGAGCTAAGGCCCAGACTGAC
1 ACTGTACTAAAATGAGCTAAGGCCCAGACTGAC
* * *
121551703 ACTGTTACTAAAATGGGCTCAGGCCTAGACT
1 ACTG-TACTAAAATGAGCTAAGGCCCAGACT
121551734 ACTACTACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 4 0.15
34 22 0.85
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.22
Consensus pattern (33 bp):
ACTGTACTAAAATGAGCTAAGGCCCAGACTGAC
Found at i:121554797 original size:20 final size:20
Alignment explanation
Indices: 121554772--121554822 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
121554762 ATGTGGTCGT
121554772 ACACGCCCGTGTGGCTTAGG
1 ACACGCCCGTGTGGCTTAGG
121554792 ACACGCCCGTGTGGCTTAGG
1 ACACGCCCGTGTGGCTTAGG
121554812 ACACGCCCGTG
1 ACACGCCCGTG
121554823 CCCTCAGCCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.16, C:0.33, G:0.33, T:0.18
Consensus pattern (20 bp):
ACACGCCCGTGTGGCTTAGG
Found at i:121562297 original size:25 final size:25
Alignment explanation
Indices: 121562269--121562316 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
121562259 TTATACCATG
* * *
121562269 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
121562294 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
121562317 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:121562419 original size:20 final size:20
Alignment explanation
Indices: 121562359--121562419 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
121562349 ATAAATATGG
*
121562359 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
121562379 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
121562399 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
121562419 T
1 T
121562420 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:121562496 original size:24 final size:24
Alignment explanation
Indices: 121562469--121562611 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
121562459 GAGGAAGTGA
121562469 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
121562493 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
121562517 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
121562540 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
121562564 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
121562588 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
121562612 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:121562562 original size:47 final size:47
Alignment explanation
Indices: 121562469--121562611 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
121562459 GAGGAAGTGA
121562469 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
121562517 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
121562564 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
121562612 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:121562585 original size:71 final size:72
Alignment explanation
Indices: 121562469--121562612 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
121562459 GAGGAAGTGA
*
121562469 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
121562532 CCAGTTAT
65 CCAGTTAT
** * *
121562540 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
121562605 CAGTTAT
66 CAGTTAT
121562612 A
1 A
121562613 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:121562838 original size:31 final size:31
Alignment explanation
Indices: 121562803--121562866 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
121562793 CGTTTACAGT
121562803 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
121562834 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
121562865 AA
1 AA
121562867 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:121567362 original size:25 final size:25
Alignment explanation
Indices: 121567334--121567381 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
121567324 TTATACCATG
* * *
121567334 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
121567359 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
121567382 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:121567484 original size:20 final size:20
Alignment explanation
Indices: 121567424--121567484 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
121567414 ATAAATATGG
*
121567424 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
121567444 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
121567464 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
121567484 T
1 T
121567485 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:121567561 original size:24 final size:24
Alignment explanation
Indices: 121567534--121567676 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
121567524 GAGGAAGTGA
121567534 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
121567558 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
121567582 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
121567605 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
121567629 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
121567653 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
121567677 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:121567627 original size:47 final size:47
Alignment explanation
Indices: 121567534--121567676 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
121567524 GAGGAAGTGA
121567534 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
121567582 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
121567629 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
121567677 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:121567650 original size:71 final size:72
Alignment explanation
Indices: 121567534--121567677 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
121567524 GAGGAAGTGA
*
121567534 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
121567597 CCAGTTAT
65 CCAGTTAT
** * *
121567605 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
121567670 CAGTTAT
66 CAGTTAT
121567677 A
1 A
121567678 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:121567903 original size:31 final size:31
Alignment explanation
Indices: 121567868--121567931 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
121567858 CGTTTACAGT
121567868 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
121567899 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
121567930 AA
1 AA
121567932 CATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:121576643 original size:2 final size:2
Alignment explanation
Indices: 121576636--121576666 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
121576626 TGTATTATTT
*
121576636 TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
121576667 TACGAACACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:121580997 original size:41 final size:41
Alignment explanation
Indices: 121580952--121581069 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
121580942 TGAAAGATAA
121580952 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
121580993 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
121581023 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
121581064 ATGTAG
1 ATGTAG
121581070 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:121581009 original size:71 final size:71
Alignment explanation
Indices: 121580920--121581154 Score: 452
Period size: 71 Copynumber: 3.3 Consensus size: 71
121580910 GAGATGTATC
121580920 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
121580985 AGGACA
66 AGGACA
121580991 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
121581056 AGGACA
66 AGGACA
*
121581062 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
121581127 CGGACA
66 AGGACA
121581133 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
121581155 AGACAAATCG
Statistics
Matches: 162, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 162 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:121603871 original size:43 final size:43
Alignment explanation
Indices: 121603824--121603917 Score: 109
Period size: 43 Copynumber: 2.2 Consensus size: 43
121603814 CCCAGGTAGG
* * *
121603824 GTCTTACACGAAATC-GATTAACGATGCCAATCTCCCAGACATA
1 GTCTTACACGAAATCTCAAT-ACAATGCCAATCTCCCAGACATA
* * * *
121603867 GTCTTACACGTAATCTCAATACAATGCCAATGTCCCAGATATG
1 GTCTTACACGAAATCTCAATACAATGCCAATCTCCCAGACATA
121603910 GTCTTACA
1 GTCTTACA
121603918 TGTAGTCACA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 41 0.95
44 2 0.05
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (43 bp):
GTCTTACACGAAATCTCAATACAATGCCAATCTCCCAGACATA
Found at i:121610175 original size:46 final size:46
Alignment explanation
Indices: 121610005--121610178 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
121609995 ATTATTGTGG
* * * * * * *
121610005 GCTAGTGCAAGACATGTCTGGGACATGCATTGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGAAGAGA
* * * * *
121610051 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCATTGAGACGAGA
1 GCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGTGAAGAGA
121610099 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGAAGTA-A
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGAAG-AGA
* *
121610145 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGGC
121610179 TACGAGATGC
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 56 0.52
47 28 0.26
48 23 0.21
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.22
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGTGAAGAGA
Found at i:121614003 original size:25 final size:25
Alignment explanation
Indices: 121613971--121614040 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
121613961 CTCTTTTAAT
**
121613971 AACTGGGGTGAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
121613996 AATTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
121614021 AACTAGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
121614041 AGCACTTCCT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:121614275 original size:27 final size:27
Alignment explanation
Indices: 121614245--121614406 Score: 175
Period size: 27 Copynumber: 6.0 Consensus size: 27
121614235 GGGGCAAAAT
* *
121614245 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAAGGGTATTTC
* *
121614272 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
121614299 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
121614326 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
*
121614353 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAAGGGTATTTC
* * * *
121614380 GGCAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAAGGGTATTTC
121614407 AATATTTTAC
Statistics
Matches: 111, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
26 6 0.05
27 99 0.89
28 6 0.05
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTTTACCCTACAAGGGTATTTC
Found at i:121614413 original size:54 final size:54
Alignment explanation
Indices: 121614249--121614406 Score: 255
Period size: 54 Copynumber: 2.9 Consensus size: 54
121614239 CAAAATGGTA
* * *
121614249 ATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
*
121614302 ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGGT
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
* *
121614356 ATTTCTACCCTACAAGGGTATTTTGGCAATTCTACCCTATAGGGGTATTTC
1 ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTC
121614407 AATATTTTAC
Statistics
Matches: 97, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 4 0.04
54 93 0.96
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (54 bp):
ATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT
Found at i:121614441 original size:81 final size:81
Alignment explanation
Indices: 121614277--121614441 Score: 181
Period size: 81 Copynumber: 2.0 Consensus size: 81
121614267 ATCTCGGTAA
* * * * **
121614277 TTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTAT
1 TTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAAT
* *
121614342 AGGGGTATTTCGGTAT
66 AGGAGTATTTCGATAT
* * * *
121614358 TTCTACCCTACAAGGGTATTTTGGCAATTCTACCCTATAGGGGTATTTCAAT-ATTTTA-CAAAT
1 TTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAAT
*
121614421 CGAGAGTATTTCGATAAT
66 AG-GAGTATTTCGAT-AT
121614439 TTC
1 TTC
121614442 ACAAATCAGG
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
79 4 0.06
80 15 0.22
81 50 0.72
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (81 bp):
TTCTACCCTACAAGGGTATTTCGGCAATTCTACCCTACAAGGGTATTTCAATAATTCTACCAAAT
AGGAGTATTTCGATAT
Found at i:121614456 original size:27 final size:27
Alignment explanation
Indices: 121614396--121614602 Score: 147
Period size: 27 Copynumber: 7.7 Consensus size: 27
121614386 TCTACCCTAT
* *
121614396 AGGGGTATTTCAAT-ATTTTACAAATC
1 AGGGGTATTTCGATAATTTTACAAACC
* * *
121614422 -GAGAGTATTTCGATAATTTCACAAATC
1 AG-GGGTATTTCGATAATTTTACAAACC
* * *
121614449 AGGGGTATTTTGGTAATTTTACAAGCC
1 AGGGGTATTTCGATAATTTTACAAACC
* *
121614476 AGGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTCGATAATTTTACAAACC
*
121614503 AGGGGTATTT-TAGTAATTTTACAAACC
1 AGGGGTATTTCGA-TAATTTTACAAACC
* * ** *
121614530 AGGGGT-TTTTGGTAATTTTACTGATC
1 AGGGGTATTTCGATAATTTTACAAACC
* * * *
121614556 -GAGGGTATTTTGGTAATTTTATAAACT
1 AG-GGGTATTTCGATAATTTTACAAACC
*
121614583 AAGGGTATTTC-AGTAATTTT
1 AGGGGTATTTCGA-TAATTTT
121614603 GTAAATTGAA
Statistics
Matches: 147, Mismatches: 25, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
25 2 0.01
26 28 0.19
27 116 0.79
28 1 0.01
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTCGATAATTTTACAAACC
Found at i:121614484 original size:54 final size:54
Alignment explanation
Indices: 121614426--121614602 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
121614416 CAAATCGAGA
* * * *
121614426 GTATTTCGATAATTTCACAAATCAGGGGTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGG
* *
121614480 GTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGG
** * * *
121614534 GT-TTTTGGTAATTTTACTGATC-GAGGGTATTTTGGTAATTTTATAAACTAAGG
1 GTATTTTGGTAATTTTACAAATCAG-GGGTATTTTGGTAATTTTACAAACCAGGG
**
121614587 GTATTTCAGTAATTTT
1 GTATTTTGGTAATTTT
121614603 GTAAATTGAA
Statistics
Matches: 106, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
52 1 0.01
53 44 0.42
54 61 0.58
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.41
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATCAGGGGTATTTTGGTAATTTTACAAACCAGGG
Done.