Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 155 of 182
Found at i:47678248 original size:14 final size:15
Alignment explanation
Indices: 47678222--47678254 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
47678212 TCCCAAGCTG
47678222 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
47678237 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
47678251 GGAA
1 GGAA
47678255 AAGAGTCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:47679637 original size:44 final size:42
Alignment explanation
Indices: 47679587--47679725 Score: 102
Period size: 43 Copynumber: 3.2 Consensus size: 42
47679577 GATAGTAGAT
47679587 CTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGC
1 CTTGCCTT-CTGTA-CGGCAGCGAAGCAGATCAAAGACACCAGC
* * * * * * * *
47679631 CTTGCC-TCTCTAGGTTGCAGTGGAGCAGA-CTGAAGATAGCAGAT
1 CTTGCCTTCTGTACG--GCAGCGAAGCAGATC-AAAGACACCAG-C
* *
47679675 CTTGCCTTCCTGTATCGGCAGCAAAGCAGATCAAAGACACGAGC
1 CTTGCCTT-CTGTA-CGGCAGCGAAGCAGATCAAAGACACCAGC
47679719 CTTGCCT
1 CTTGCCT
47679726 CCCTGGGTTA
Statistics
Matches: 69, Mismatches: 18, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
41 1 0.01
42 5 0.07
43 20 0.29
44 19 0.28
45 18 0.26
46 5 0.07
47 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.21
Consensus pattern (42 bp):
CTTGCCTTCTGTACGGCAGCGAAGCAGATCAAAGACACCAGC
Found at i:47680066 original size:263 final size:263
Alignment explanation
Indices: 47679578--47680204 Score: 724
Period size: 263 Copynumber: 2.4 Consensus size: 263
47679568 ATCATTGAAG
* * * *
47679578 ATAGTAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCTCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
* * * * * * * ***
47679643 GGTTGCAGTGGAGCAGACTGAAGATAGCAGATCTTGCCTTCCTGTATCGGCAGCAAAGCAGATCA
66 GGTTGCAGCGGAGCAG-TTGAAAATAGTAGATCTTACCTCCCTGAAGAAGCAGCAAAGCAGATCA
** * *
47679708 AAGACACGAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGTTGAAAATAGCAGATCTTGCCTTCC
130 AAGACACGAGCCTTGCCTCCCTCAGTGACAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCC
* * *
47679773 TGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTG-CTT-CCCTGGGGTGCAGCGGAGTAGG
195 TGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCCCT-GGG-GCAACAGAGCAGG
47679836 TTAAAA
258 TTAAAA
*
47679842 ATAGCATATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
* * * * *** * *
47679907 GGTTGCAGCGAAGCATGTTGAAAATTGTAGATCTTATCTCCCT-AAGAAGTAGTGGAGTAGATCG
66 GGTTGCAGCGGAGCA-GTTGAAAATAGTAGATCTTACCTCCCTGAAGAAGCAGCAAAGCAGATCA
* * * *
47679971 AATACACTAGCCTTGCCTCCCTCAGTGGCAGCAGAGCAGGTT-AAAGATAGCAGATCTTGCCTTT
130 AAGACACGAGCCTTGCCTCCCTCAGTGACAGCAGAGCAGGTTGAAA-ATAGCAGATCTTGCCTTC
* * *
47680035 TTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTCCCCTGTGGCAACAGAGCAGGT
194 CTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCCCTGGGGCAACAGAGCAGGT
*
47680100 TAAAG
259 TAAAA
* * ** ** * *
47680105 ATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGCAGATTGAAGACACTAGCCTTGCCTCCCTC
1 ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
*
47680170 GGTGGCAGCGGAGCAGGTT-AAAGATAGTAGATCTT
66 GGTTGCAGCGGAGCA-GTTGAAA-ATAGTAGATCTT
47680205 GTCTTCCCAT
Statistics
Matches: 306, Mismatches: 52, Indels: 11
0.83 0.14 0.03
Matches are distributed among these distances:
262 6 0.02
263 198 0.65
264 97 0.32
265 5 0.02
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.24
Consensus pattern (263 bp):
ATAGCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCCCTA
GGTTGCAGCGGAGCAGTTGAAAATAGTAGATCTTACCTCCCTGAAGAAGCAGCAAAGCAGATCAA
AGACACGAGCCTTGCCTCCCTCAGTGACAGCAGAGCAGGTTGAAAATAGCAGATCTTGCCTTCCT
GTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTTCCCCTGGGGCAACAGAGCAGGTTA
AAA
Found at i:47680218 original size:88 final size:88
Alignment explanation
Indices: 47679575--47680211 Score: 615
Period size: 88 Copynumber: 7.2 Consensus size: 88
47679565 CAGATCATTG
* * * * * * * *
47679575 AAGATAGTAGATCTTGCCTTACTGTACCGGCAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCT
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* * * ** *
47679640 CTAGGTTGCAGTGGAGCAGACTG
66 CTCGGTGGCAGCGGAGCAGGTTA
* ** * *
47679663 AAGATAGCAGATCTTGCCTTCCTGTA-TCGGCAGCAAAGCAGATCAAAGACACGAGCCTTGCCTC
1 AAGATAGCAGATCTTGCCTTCCTGTACT-GACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTC
* **
47679727 CCTGGGTTACAGCGGAGCAGGTTGA
65 CCTCGGTGGCAGCGGAGCAGGTT-A
* *
47679752 AA-ATAGCAGATCTTGCCTTCCTGTACTAACAGTGAAGCAGATCGAAGACACTAGCCTTGCTTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* *
47679816 CT-GGGGTGCAGCGGAGTAGGTTA
66 CTCGGTG-GCAGCGGAGCAGGTTA
* * * * * *
47679839 AAAATAGCATATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCAAAGACACCAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
* * * *
47679904 CTAGGTTGCAGCGAAGCATGTTGA
66 CTCGGTGGCAGCGGAGCAGGTT-A
* * ** * * * * * *
47679928 AA-ATTGTAGATCTTATC-TCC-CTA-AGAAGTAGTGGAGTAGATCGAATACACTAGCCTTGCCT
1 AAGATAGCAGATCTTGCCTTCCTGTACTG-A-CAGTGAAGCAGATCGAAGACACTAGCCTTGCCT
* *
47679989 CCCTCAGTGGCAGCAGAGCAGGTTA
64 CCCTCGGTGGCAGCGGAGCAGGTTA
** * *
47680014 AAGATAGCAGATCTTGCCTTTTTGTACTAACAGTGAAGCAGATTGAAGACACTAGCCTTGCCTTC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCC-TC
* * *
47680079 CC-CTGTGGCAACAGAGCAGGTTA
65 CCTCGGTGGCAGCGGAGCAGGTTA
* * *
47680102 AAGATAGCAGATCTTGCCTTCCTGTACTGATAATGAAGCAGATTGAAGACACTAGCCTTGCCTCC
1 AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
47680167 CTCGGTGGCAGCGGAGCAGGTTA
66 CTCGGTGGCAGCGGAGCAGGTTA
* *
47680190 AAGATAGTAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGCCTTCC
47680212 CATACTGGTG
Statistics
Matches: 453, Mismatches: 81, Indels: 30
0.80 0.14 0.05
Matches are distributed among these distances:
85 1 0.00
86 6 0.01
87 67 0.15
88 364 0.80
89 15 0.03
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (88 bp):
AAGATAGCAGATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGACACTAGCCTTGCCTCC
CTCGGTGGCAGCGGAGCAGGTTA
Found at i:47680278 original size:132 final size:131
Alignment explanation
Indices: 47680198--47680812 Score: 955
Period size: 132 Copynumber: 4.7 Consensus size: 131
47680188 TAAAGATAGT
*
47680198 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAG-ATGACAGATCTTGTCTTCATGTAT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAG-CAGATCTTGTCTTCATGTAT
* * * *
47680262 TGGCATGAAGTAGATTGAAGATAGCTGATCCTGTCTTCCTATATTGGTAGAAAGTGGATTGAAGA
65 TGGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGA
*
47680327 TTC
129 TGC
* * * * *
47680330 AGATCTTGTCTTCCTATACTGGTGGCGAAGTAGATCGAAGAAAGCGGATCTTATCTTTATGTGTT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
47680395 GGCGTGAAGTAGATTGAAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
66 GGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
47680460 GC
130 GC
* * *
47680462 AGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTTCGTGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* * *
47680527 GGCGTGAAGTTGATCGAAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
66 GGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGAT
47680592 GC
130 GC
47680594 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCAT-TATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
* *
47680658 GGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAGTGGATCGAAGA
66 GGCATGAAGTAGATCGAAGATAGCAGA-CCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGA
47680723 TGC
129 TGC
*
47680726 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
*
47680791 GGCGTGAAGTAGATCGAAGATA
66 GGCATGAAGTAGATCGAAGATA
47680813 TCAAATTTTG
Statistics
Matches: 449, Mismatches: 31, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
131 48 0.11
132 375 0.84
133 26 0.06
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (131 bp):
AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
GGCATGAAGTAGATCGAAGATAGCAGACCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATG
C
Found at i:47680297 original size:44 final size:43
Alignment explanation
Indices: 47680190--47680812 Score: 458
Period size: 44 Copynumber: 14.1 Consensus size: 43
47680180 GAGCAGGTTA
* **
47680190 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
* *
47680235 AAGAT-GACAGATCTTGTCTTCATGTATTGGCATGAAGTAGATTG
1 AAGATAG-CAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
* * * * * *
47680279 AAGATAGCTGATCCTGTCTTCCTATATTGGTAGAAAGTGGATTG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCAG-AAGTAGATCG
* *
47680323 AAGAT-TCAGATCTTGTCTTCCTATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATA-T--TGGCAGAAGTAGATCG
* * * * * * * *
47680367 AAGAAAGCGGATCTTATCTTTATGTGTTGGCGTGAAGTAGATTG
1 AAGATAGCAGATCTTGTCTTCATATATTGGC-AGAAGTAGATCG
* * * *
47680411 AAGATAGCAGATCCTGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
* **
47680455 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
* * * * * *
47680499 AAGAAAGCAGATCTTATCTTCGTGTATTGGCGTGAAGTTGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGC-AGAAGTAGATCG
* * * *
47680543 AAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
**
47680587 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
*
47680631 AAGAAAGCAGATCTTGTCTTCAT-TATTGGCATGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA-GAAGTAGATCG
* * * * * *
47680674 AGGATAGCAGATCCTGTCTTCCTAAATTGGTAGCGAAGTGGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGCA--GAAGTAGATCG
**
47680719 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGC-GAAGTAGATCG
1 AAGATAGCAGATCTTGTCTT--CATA-TATTGGCAGAAGTAGATCG
* * * *
47680763 AAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCG
1 AAGATAGCAGATCTTGTCTTCATATATTGGC-AGAAGTAGATCG
47680807 AAGATA
1 AAGATA
47680813 TCAAATTTTG
Statistics
Matches: 455, Mismatches: 90, Indels: 67
0.74 0.15 0.11
Matches are distributed among these distances:
41 5 0.01
42 19 0.04
43 84 0.18
44 237 0.52
45 93 0.20
46 14 0.03
47 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
AAGATAGCAGATCTTGTCTTCATATATTGGCAGAAGTAGATCG
Found at i:47680364 original size:88 final size:87
Alignment explanation
Indices: 47680190--47680812 Score: 524
Period size: 88 Copynumber: 7.1 Consensus size: 87
47680180 GAGCAGGTTA
* * * *
47680190 AAGATAGTAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGATGACAGATCTTGTCTT
1 AAGATAGCAGATCTTGTCTTCCTATATTGGT--AGAAGTAGATCGAAGATG-CAGATCTTGTCTT
* * * * *
47680255 CATGTATTGGCA-TGAAGTAGATTG
63 CCTATATTGGTAGCGAAGTAGATCG
* * * * *
47680279 AAGATAGCTGATCCTGTCTTCCTATATTGGTAGAAAGTGGATTGAAGATTCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTAG-AAGTAGATCGAAGATGCAGATCTTGTCTTCC
* *
47680344 TATACTGGTGGCGAAGTAGATCG
65 TATATTGGTAGCGAAGTAGATCG
* * * ** * * * *
47680367 AAGAAAGCGGATCTTATCTTTATGTGTTGGCGT-GAAGTAGATTGAAGATAGCAGATCCTGTCTT
1 AAGATAGCAGATCTTGTCTTCCTATATT-G-GTAGAAGTAGATCGAAGAT-GCAGATCTTGTCTT
*
47680431 CCTATATTGGTAG-GAAGTGGATCG
63 CCTATATTGGTAGCGAAGTAGATCG
* * * * * *
47680455 AAGAT-GCAGATCTTATCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTATCTT
1 AAGATAGCAGATCTTGTCTTCCTATATTGGT--AGAAGTAGATCGAAG-ATGCAGATCTTGTCTT
* * * * *
47680519 CGTGTATTGG-CGTGAAGTTGATCG
63 CCTATATTGGTAGCGAAGTAGATCG
* *
47680543 AAGATAGCAGATCATGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCC
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTA-GAAGTAGATCGAAGATGCAGATCTTGTCTTCC
* * *
47680608 CATACTGGTGGCGAAGTAGATCG
65 TATATTGGTAGCGAAGTAGATCG
* * * * *
47680631 AAGAAAGCAGATCTTGTCTTCAT-TATTGGCATGAAGTAGATCGAGGATAGCAGATCCTGTCTTC
1 AAGATAGCAGATCTTGTCTTCCTATATTGGTA-GAAGTAGATCGAAGAT-GCAGATCTTGTCTTC
* *
47680695 CTAAATTGGTAGCGAAGTGGATCG
64 CTATATTGGTAGCGAAGTAGATCG
* * * * *
47680719 AAGAT-GCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTT
1 AAGATAGCAGATCTTGTCTTCCTATATTGGT--AGAAGTAGATCGAAG-ATGCAGATCTTGTCTT
* * * *
47680783 CATGTATTGG-CGTGAAGTAGATCG
63 CCTATATTGGTAGCGAAGTAGATCG
47680807 AAGATA
1 AAGATA
47680813 TCAAATTTTG
Statistics
Matches: 425, Mismatches: 90, Indels: 38
0.77 0.16 0.07
Matches are distributed among these distances:
85 2 0.00
86 1 0.00
87 93 0.22
88 221 0.52
89 105 0.25
90 3 0.01
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (87 bp):
AAGATAGCAGATCTTGTCTTCCTATATTGGTAGAAGTAGATCGAAGATGCAGATCTTGTCTTCCT
ATATTGGTAGCGAAGTAGATCG
Found at i:47681471 original size:19 final size:17
Alignment explanation
Indices: 47681437--47681489 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 17
47681427 ATTATCGTTC
*
47681437 TTTTATTTTTCATATATATA
1 TTTTATTTTT--T-TATATT
47681457 TTTTATTTTTTTATATT
1 TTTTATTTTTTTATATT
47681474 TTCTCTATTTTTTTAT
1 TT-T-TATTTTTTTAT
47681490 TTATTTCTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.23
18 2 0.07
19 11 0.37
20 10 0.33
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTTTATATT
Found at i:47682131 original size:3 final size:3
Alignment explanation
Indices: 47682123--47682166 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
47682113 ATAGTTTTAT
* * *
47682123 TTA TTA TTA TTA TTT TTG TTA TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
47682167 TCTATATTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:47682199 original size:21 final size:24
Alignment explanation
Indices: 47682175--47682223 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
47682165 TTTCTATATT
47682175 TATACACGCA-TTTTT-T-TAATA
1 TATACACGCAGTTTTTATATAATA
* *
47682196 TATATATGCAGTTTTTATATAATA
1 TATACACGCAGTTTTTATATAATA
47682220 TATA
1 TATA
47682224 TTTTTGACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 8 0.35
22 5 0.22
23 1 0.04
24 9 0.39
ACGTcount: A:0.37, C:0.08, G:0.06, T:0.49
Consensus pattern (24 bp):
TATACACGCAGTTTTTATATAATA
Found at i:47685992 original size:44 final size:44
Alignment explanation
Indices: 47685941--47686036 Score: 156
Period size: 44 Copynumber: 2.2 Consensus size: 44
47685931 ATATCTCAAG
*
47685941 GTCCATGTTTATAACATGGCAATTAAGGAAGAATTGACGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
* *
47685985 GTCCATGTTTATAACGTGGCAATTAAGAAAGAATTGATGGAAAA
1 GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
47686029 GTACCATG
1 GT-CCATG
47686037 GTTGATCAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 43 0.90
45 5 0.10
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (44 bp):
GTCCATGTTTATAACATGGCAATTAAGAAAGAATTGACGGAAAA
Found at i:47686114 original size:50 final size:50
Alignment explanation
Indices: 47686054--47686302 Score: 338
Period size: 50 Copynumber: 5.0 Consensus size: 50
47686044 AATGTCAACA
*
47686054 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * *
47686104 CAAGATGAGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* *
47686154 CGAGATGAGAGGTCCCATGAAAGACCATGTTTGGGACATGGCATTGGCAC
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * *
47686204 CGAGATGAGAGGTCCTC-CGTAAGACCATGTCTGGGACATGGCATGGGCAT
1 CGAGATGAGAGGTCC-CATGTAAGACCATGTCTGGGACATGGCATTGGCAC
* * ** * * *
47686254 CGATATAAGAACTCCCATGTAAGACCATATCTGGGATATGGTATTGGCA
1 CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
47686303 GTACAGGAAA
Statistics
Matches: 176, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 1 0.01
50 174 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
CGAGATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC
Found at i:47693118 original size:9 final size:9
Alignment explanation
Indices: 47693103--47693134 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
47693093 TTTTATATAT
47693103 TTATGTAAG
1 TTATGTAAG
*
47693112 CTATGTAAG
1 TTATGTAAG
47693121 TTATGTAAG
1 TTATGTAAG
47693130 TTATG
1 TTATG
47693135 ATAATCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.22, T:0.44
Consensus pattern (9 bp):
TTATGTAAG
Found at i:47693196 original size:13 final size:13
Alignment explanation
Indices: 47693178--47693204 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47693168 TGATTATCAT
47693178 CTTTAAATTTTAA
1 CTTTAAATTTTAA
47693191 CTTTAAATTTTAA
1 CTTTAAATTTTAA
47693204 C
1 C
47693205 CCTTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (13 bp):
CTTTAAATTTTAA
Found at i:47698003 original size:50 final size:50
Alignment explanation
Indices: 47697889--47698131 Score: 297
Period size: 50 Copynumber: 4.8 Consensus size: 50
47697879 GATAATAACA
* * * ** * *
47697889 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGA-CCTCTCATCTTGG
* * * *
47697940 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTGG
* * * * *
47697990 TGCTAACGCCATGTCCCAGGCATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTGG
*
47698040 TGCCAACGCCATGTCCCATACATGGTCTTACGTGGGACCTCTCATCTTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTGG
* * *
47698090 TGCCAACACCATGTCCCAGACATGGTCTTACATGTGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCT
47698132 TTACCCAAAT
Statistics
Matches: 163, Mismatches: 29, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
50 132 0.81
51 31 0.19
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATCTTGG
Found at i:47698057 original size:100 final size:100
Alignment explanation
Indices: 47697889--47698131 Score: 351
Period size: 100 Copynumber: 2.4 Consensus size: 100
47697879 GATAATAACA
* * * ** * *
47697889 TGCCAAAGCCATGTCCCAGACATGGTATTACATGGGATGTTCTCATATCGGTGCCCATGCCATGT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGA-CCTCTCATATCGGTGCCAACGCCATGT
47697954 CCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
65 CCCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
* * *
47697990 TGCTAACGCCATGTCCCAGGCATGGTCTTACATGAGACCTCTCATCTCGGTGCCAACGCCATGTC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTC
* *
47698055 CCATACATGGTCTTACGTGGGACCTCTCATCTTGG
66 CCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
* *
47698090 TGCCAACACCATGTCCCAGACATGGTCTTACATGTGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
47698132 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
100 94 0.75
101 32 0.25
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (100 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGGTGCCAACGCCATGTC
CCAAACATGGTCTTACGGGGGACCTCTCATCTTGG
Found at i:47704059 original size:27 final size:27
Alignment explanation
Indices: 47704029--47704083 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
47704019 AGAGGGGACA
*
47704029 GTCGACGGTGATGTAGCAGATGGTCGG
1 GTCGACGGTGATGCAGCAGATGGTCGG
* *
47704056 GTCGATGGTGATGCAGTAGATGGTCGG
1 GTCGACGGTGATGCAGCAGATGGTCGG
47704083 G
1 G
47704084 GAAATATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.45, T:0.24
Consensus pattern (27 bp):
GTCGACGGTGATGCAGCAGATGGTCGG
Found at i:47704296 original size:11 final size:12
Alignment explanation
Indices: 47704280--47704312 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
47704270 TCACAAAATG
47704280 ATTTCGT-GAAA
1 ATTTCGTCGAAA
47704291 ATTTCGTTCGAAA
1 ATTTCG-TCGAAA
47704304 ATTTCGTCG
1 ATTTCGTCG
47704313 TTTGGGCACT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 6 0.30
12 4 0.20
13 10 0.50
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.39
Consensus pattern (12 bp):
ATTTCGTCGAAA
Found at i:47705023 original size:50 final size:53
Alignment explanation
Indices: 47704912--47705060 Score: 196
Period size: 50 Copynumber: 2.8 Consensus size: 53
47704902 ATTTGGGTAA
*
47704912 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC-TGAGA--ATG
*
47704968 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GAG-ATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATG
** * *
47705018 AGAGGTCCCCCGTAAGACCATGTGTGGGACATGGCTTTGGCAT
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
47705061 GTTATGATCA
Statistics
Matches: 86, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
50 41 0.48
53 3 0.03
55 2 0.02
56 40 0.47
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (53 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTGAGAATG
Found at i:47712851 original size:41 final size:42
Alignment explanation
Indices: 47712789--47712898 Score: 154
Period size: 41 Copynumber: 2.7 Consensus size: 42
47712779 CATTGAATGT
*
47712789 AAGGGGTTACTAAGTGAAGATTCCT-CGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGAAGATTCCTCCGAATCACTGATCAAA
* *
47712830 AAGGGGTCGCTAAGTGCAGATT-CTCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGAAGATTCCTCCGAATCACTGATCAAA
* *
47712871 AAGGGGTTGCCAAGTGTAGATTCC-CCGA
1 AAGGGGTTGCTAAGTGAAGATTCCTCCGA
47712899 GGGGTTGCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.03
41 58 0.95
42 1 0.02
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (42 bp):
AAGGGGTTGCTAAGTGAAGATTCCTCCGAATCACTGATCAAA
Found at i:47712911 original size:26 final size:26
Alignment explanation
Indices: 47712872--47712924 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
47712862 CTGATCAAAA
47712872 AGGGGTTGCCAAGTGTAGATTCCCCG
1 AGGGGTTGCCAAGTGTAGATTCCCCG
* *
47712898 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGGTTGCCAAGTGTAGATTCCCCG
47712924 A
1 A
47712925 ATTATTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.19, C:0.21, G:0.34, T:0.26
Consensus pattern (26 bp):
AGGGGTTGCCAAGTGTAGATTCCCCG
Found at i:47713003 original size:43 final size:42
Alignment explanation
Indices: 47712898--47713012 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
47712888 AGATTCCCCG
*
47712898 AGGGGTTGCTAAGTGTTGATTCCCCGAAT-TATTGATTCTAA
1 AGGGGTTGCTAAGTGTTGATTCCCCGTATCTATTGATTCTAA
*
47712939 AGGTGGTT-CTTAAGTGTTGATTCCACCGTATCT-TTGATTGTGAA
1 AGG-GGTTGC-TAAGTGTTGATTCC-CCGTATCTATTGATTCT-AA
* *
47712983 AGGGGTTGCTATGTGCTGATTCCCCGTATC
1 AGGGGTTGCTAAGTGTTGATTCCCCGTATC
47713013 ACTGAATAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
41 4 0.06
42 25 0.39
43 28 0.44
44 7 0.11
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGTTGATTCCCCGTATCTATTGATTCTAA
Found at i:47715215 original size:18 final size:18
Alignment explanation
Indices: 47715165--47715216 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 18
47715155 TCTTTCTAGT
47715165 TTATTTTT-ATTTATTAAA
1 TTATTTTTCATTT-TTAAA
47715183 TT-TTTTTC---TTT-AA
1 TTATTTTTCATTTTTAAA
47715196 TTATTTTTCATTTTTAAA
1 TTATTTTTCATTTTTAAA
47715214 TTA
1 TTA
47715217 ATTATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
13 4 0.14
14 8 0.29
15 1 0.04
17 8 0.29
18 7 0.25
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTTTCATTTTTAAA
Found at i:47721212 original size:27 final size:27
Alignment explanation
Indices: 47721182--47721245 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
47721172 TTTCATTTTT
***
47721182 ATGCAATTTAGTTTGTAGGTCCAAATC
1 ATGCAATTTAGTCCATAGGTCCAAATC
47721209 ATGCAATTTAGTCCATAGGTCCAAATC
1 ATGCAATTTAGTCCATAGGTCCAAATC
47721236 ATGCAATTTA
1 ATGCAATTTA
47721246 ACCATTTTCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (27 bp):
ATGCAATTTAGTCCATAGGTCCAAATC
Found at i:47723026 original size:20 final size:20
Alignment explanation
Indices: 47722968--47723027 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
47722958 ATTTTGATGT
* *
47722968 GTTAAAATGATTTTAAATTG
1 GTTAAAATCATTTTAACTTG
* *
47722988 GTTGAAATCATTTTGACTTG
1 GTTAAAATCATTTTAACTTG
*
47723008 GTTAAAATCATTCTAACTTG
1 GTTAAAATCATTTTAACTTG
47723028 AATTTAAAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (20 bp):
GTTAAAATCATTTTAACTTG
Found at i:47723698 original size:21 final size:21
Alignment explanation
Indices: 47723660--47723699 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
47723650 AAAGTAGATA
*
47723660 TATGAGAATTAACGTCTTCCC
1 TATGAGAATTAACCTCTTCCC
47723681 TATGAG-ATTGAACCTCTTC
1 TATGAGAATT-AACCTCTTC
47723700 TCGAAGACCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (21 bp):
TATGAGAATTAACCTCTTCCC
Found at i:47726334 original size:94 final size:94
Alignment explanation
Indices: 47726173--47726362 Score: 362
Period size: 94 Copynumber: 2.0 Consensus size: 94
47726163 CAAGCATACA
*
47726173 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAGAACCAATCATTGACCTATATAA
1 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
47726238 TTTTAAATCAACACATTTACCTACCTCAT
66 TTTTAAATCAACACATTTACCTACCTCAT
47726267 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
1 CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
*
47726332 TTTTAAATCAACACATTTACCTTCCTCAT
66 TTTTAAATCAACACATTTACCTACCTCAT
47726361 CT
1 CT
47726363 TTATCAAGCT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 94 1.00
ACGTcount: A:0.41, C:0.22, G:0.08, T:0.29
Consensus pattern (94 bp):
CTAAACATAATGTCGAGTCTACTTGCAATAAGATAAAGCAAAAAACCAATCATTGACCTATATAA
TTTTAAATCAACACATTTACCTACCTCAT
Found at i:47727232 original size:272 final size:271
Alignment explanation
Indices: 47726739--47727286 Score: 979
Period size: 272 Copynumber: 2.0 Consensus size: 271
47726729 CTCTAGGAGC
* *
47726739 TTGTTTTAAACCATATAAAGCTTTTGAAATTTTGAAAACATGGTTTGGAAATTTTAGATCTTCAA
1 TTGTTTTAAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCAA
* **
47726804 AACTTGGTGGTTGTTCAATATATGCTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACA
66 AACTTGGTGGTTGTTCAATAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACA
*
47726869 TCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAATCTAAAAGCATTCTAGTGGCTTCCAT
131 TCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCAT
* *
47726934 CCTAGCTACTGGAGCATAAGTTTCATCATAATCTATTCCTTCTTCTTGAGTGTAACCTTGAGCAA
196 CCTAGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCAA
47726999 CAAGTCTAGCA
261 CAAGTCTAGCA
*
47727010 TTGTTTTCAAACCATATAAAGCTTTTGAAAGTTTGAAAATATGGTTTGCAAATTTTAGATCTTCA
1 TTGTTTT-AAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCA
*
47727075 AAACTTGGTGGTTGTTCAATAGACACTTCTTTATTTATAAAACCATTTAGAAAAATACTTTTTAC
65 AAACTTGGTGGTTGTTCAATAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTAC
*
47727140 TTCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCA
130 ATCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCA
47727205 TCCTAGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCA
195 TCCTAGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCA
*
47727270 ACAAGTCTAGCC
260 ACAAGTCTAGCA
47727282 TTGTT
1 TTGTT
47727287 CCTCACTATG
Statistics
Matches: 264, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
271 7 0.03
272 257 0.97
ACGTcount: A:0.32, C:0.17, G:0.14, T:0.37
Consensus pattern (271 bp):
TTGTTTTAAACCATATAAAGCTTTTGAAAGTTTGAAAACATGGTTTGCAAATTTTAGATCTTCAA
AACTTGGTGGTTGTTCAATAGACACTTCTTTATTTACAAAACCATTTAGAAAAATACTTTTTACA
TCCATTTGATATAATTTGAAGTCATTAAAGCATGCAAAAGCTAAAAGCATTCTAGTGGCTTCCAT
CCTAGCTACGGGAGCATAAGTTTCATCATAATCTATTCCTTCCTCTTGAGTGTAACCTTGAGCAA
CAAGTCTAGCA
Found at i:47745981 original size:39 final size:38
Alignment explanation
Indices: 47745864--47745999 Score: 119
Period size: 39 Copynumber: 3.5 Consensus size: 38
47745854 GCGTTTGGAC
* * *
47745864 AAAAAACGCCGCTAAAAATGGAACATTAGCGGCGCTTTAT
1 AAAAAACGCCGCTAAAAAT-GAGCATTAGCGG-GATTTTT
* * * * * *
47745904 GAAAATCGCCACTAAAGATTGAGCAATAGCGGCATTTTT
1 AAAAAACGCCGCTAAA-AATGAGCATTAGCGGGATTTTT
* *
47745943 AAAAAACGCCGCTAAAAATGAGCTTTAGCGGTGTTTTTT
1 AAAAAACGCCGCTAAAAATGAGCATTAGCGG-GATTTTT
* *
47745982 GAAAAACGCCGCAAAAAA
1 AAAAAACGCCGCTAAAAA
47746000 CCTAAGTCCA
Statistics
Matches: 75, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
38 12 0.16
39 38 0.51
40 23 0.31
41 2 0.03
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (38 bp):
AAAAAACGCCGCTAAAAATGAGCATTAGCGGGATTTTT
Found at i:47746091 original size:30 final size:30
Alignment explanation
Indices: 47746055--47746111 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
47746045 GGCATTTTGG
*
47746055 AAAAGCGCCGCTAATGCTCTGGTCTTTTAT
1 AAAAGCGCCGCTAATGCTCTAGTCTTTTAT
47746085 AAAAGCGCCGCTAATGCTCTAGTCTTT
1 AAAAGCGCCGCTAATGCTCTAGTCTTT
47746112 AGCGGCGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (30 bp):
AAAAGCGCCGCTAATGCTCTAGTCTTTTAT
Found at i:47746142 original size:41 final size:41
Alignment explanation
Indices: 47746079--47746267 Score: 265
Period size: 41 Copynumber: 4.6 Consensus size: 41
47746069 TGCTCTGGTC
* * *
47746079 TTTTATAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGT
* *
47746120 TTTTGGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCAT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGT
*
47746161 TTTTAAAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGTTT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCG--T
*
47746204 TTTTAGAAAAGCGCCGCTAATGCTC-TGTTCTTTAGCGGCGT
1 TTTTAGAAAAGCGCCGCTAATGCTCTTG-CCTTTAGCGGCGT
47746245 TTTT-GCAAAAGCGCCGCTAATGC
1 TTTTAG-AAAAGCGCCGCTAATGC
47746268 AAAATACTAT
Statistics
Matches: 134, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.01
41 95 0.71
42 2 0.01
43 36 0.27
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (41 bp):
TTTTAGAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGT
Found at i:47746248 original size:84 final size:82
Alignment explanation
Indices: 47746079--47746267 Score: 272
Period size: 84 Copynumber: 2.3 Consensus size: 82
47746069 TGCTCTGGTC
* * *
47746079 TTTTATAAAAGCGCCGCTAATGCTCTAGTCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCT
1 TTTTAAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCT
47746144 CTTGCCTTTAGCGGCAT
66 CTTGCCTTTAGCGGCAT
*
47746161 TTTTAAAAAAGCGCCGCTAATGCTCTTGCCTTTAGCGGCGTTTTTTTAGAAAAGCGCCGCTAATG
1 TTTTAAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCG--TTTTTAGAAAAGCGCCGCTAATG
* *
47746226 CTC-TGTTCTTTAGCGGCGT
64 CTCTTG-CCTTTAGCGGCAT
**
47746245 TTTTGCAAAAGCGCCGCTAATGC
1 TTTTAAAAAAGCGCCGCTAATGC
47746268 AAAATACTAT
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
82 37 0.39
83 2 0.02
84 57 0.59
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (82 bp):
TTTTAAAAAAGCGCCGCTAATGCTCTAGCCTTTAGCGGCGTTTTTAGAAAAGCGCCGCTAATGCT
CTTGCCTTTAGCGGCAT
Found at i:47746388 original size:17 final size:19
Alignment explanation
Indices: 47746351--47746389 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
47746341 TAAATTTTTT
47746351 ATAGAATTAATTATATAAA
1 ATAGAATTAATTATATAAA
*
47746370 ATAGTATTAATT-T-TAAA
1 ATAGAATTAATTATATAAA
47746387 ATA
1 ATA
47746390 TTAAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (19 bp):
ATAGAATTAATTATATAAA
Found at i:47746526 original size:7 final size:7
Alignment explanation
Indices: 47746514--47746543 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
47746504 ATGAATTTAA
47746514 GGATTAT
1 GGATTAT
47746521 GGATTAT
1 GGATTAT
47746528 GGATTAT
1 GGATTAT
47746535 GGATTAT
1 GGATTAT
47746542 GG
1 GG
47746544 TTTAAGGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.27, C:0.00, G:0.33, T:0.40
Consensus pattern (7 bp):
GGATTAT
Found at i:47746528 original size:22 final size:22
Alignment explanation
Indices: 47746487--47746543 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
47746477 GAGTTACTAT
* *
47746487 TTTAAGGTTTAGGGAGTATGAA
1 TTTAAGGATTATGGAGTATGAA
* *
47746509 TTTAAGGATTATGGATTATGGA
1 TTTAAGGATTATGGAGTATGAA
*
47746531 -TTATGGATTATGG
1 TTTAAGGATTATGG
47746544 TTTAAGGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 12 0.40
22 18 0.60
ACGTcount: A:0.30, C:0.00, G:0.30, T:0.40
Consensus pattern (22 bp):
TTTAAGGATTATGGAGTATGAA
Found at i:47746586 original size:15 final size:15
Alignment explanation
Indices: 47746563--47746614 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
47746553 TAGAATTTAA
*
47746563 GGTTTAGGGGTTATG
1 GGTTAAGGGGTTATG
* *
47746578 GGTTAAGGGTTTAAG
1 GGTTAAGGGGTTATG
*
47746593 GGTT-AGAGGTTATGG
1 GGTTAAGGGGTTAT-G
47746608 GGTTAAG
1 GGTTAAG
47746615 AGTTAGGGAT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
14 6 0.21
15 21 0.72
16 2 0.07
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (15 bp):
GGTTAAGGGGTTATG
Found at i:47746595 original size:22 final size:22
Alignment explanation
Indices: 47746542--47746620 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
47746532 TATGGATTAT
**
47746542 GGTTTAAGGGTTAGAATTTAA-
1 GGTTTAAGGGTTAGAGGTTAAG
*
47746563 GGTTTAGGGGTTATG-GGTTAAG
1 GGTTTAAGGGTTA-GAGGTTAAG
*
47746585 GGTTTAAGGGTTAGAGGTTATG
1 GGTTTAAGGGTTAGAGGTTAAG
* *
47746607 GGGTTAAGAGTTAG
1 GGTTTAAGGGTTAG
47746621 GGATTCAAGG
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
21 17 0.35
22 31 0.65
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.35
Consensus pattern (22 bp):
GGTTTAAGGGTTAGAGGTTAAG
Found at i:47753045 original size:20 final size:20
Alignment explanation
Indices: 47753020--47753065 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 20
47753010 AAAATAAAAT
47753020 AAAATAAA-A-TATTTGTCATA
1 AAAATAAATATTATTTG--ATA
47753040 AAAATAAATATTATTTGATA
1 AAAATAAATATTATTTGATA
47753060 AAAATA
1 AAAATA
47753066 TGTATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 17 0.71
21 1 0.04
22 6 0.25
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (20 bp):
AAAATAAATATTATTTGATA
Found at i:47753144 original size:44 final size:44
Alignment explanation
Indices: 47753074--47753199 Score: 159
Period size: 43 Copynumber: 2.9 Consensus size: 44
47753064 TATGTATTTT
* * *
47753074 TAAAGGTT-ATGTTTTTAGCGGAGTTTGTGGGAAAAAGCGCCAC
1 TAAAGGTTAAGGTCTTTAGCGGCGTTTGTGGGAAAAAGCGCCAC
* * *
47753117 TAAAGGTTAAGGTCTTTAGCGGCGTTTGT-AGAAAAAGCGTCGC
1 TAAAGGTTAAGGTCTTTAGCGGCGTTTGTGGGAAAAAGCGCCAC
* *
47753160 TAAAAGTCAAGGTCTTTAGCGGCGTTTGTGGG-AAAAGCGC
1 TAAAGGTTAAGGTCTTTAGCGGCGTTTGTGGGAAAAAGCGC
47753200 AGCTAAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
43 53 0.75
44 18 0.25
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (44 bp):
TAAAGGTTAAGGTCTTTAGCGGCGTTTGTGGGAAAAAGCGCCAC
Found at i:47753205 original size:43 final size:44
Alignment explanation
Indices: 47753087--47753281 Score: 159
Period size: 43 Copynumber: 4.5 Consensus size: 44
47753077 AGGTTATGTT
* * *
47753087 TTTAGCGGAGTTTGTGGGAAAAAGCGCCA-CTAAAGGTTAAGGTC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCAGCTAAAAGTCAAGGTC
* * *
47753131 TTTAGCGGCGTTTGTAGAAAAAGCGTC-GCTAAAAGTCAAGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCAGCTAAAAGTCAAGGTC
** * *
47753174 TTTAGCGGCGTTTGTGGGAAAAGCG-CAGCTAAAAAACATGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCAGCTAAAAGTCAAGGTC
* * * * * *
47753217 TTTCGCGACGTTTAT-GCAGAAAGCGCC-GCT-AAAGAACATGGTC
1 TTTAGCGGCGTTTGTGGGA-AAAGCGCCAGCTAAAAG-TCAAGGTC
*
47753260 TTTAGCGGCGTTTATGGAGAAA
1 TTTAGCGGCGTTTGTGG-GAAA
47753282 GTGTCGCTAA
Statistics
Matches: 123, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
42 6 0.05
43 97 0.79
44 19 0.15
45 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (44 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCAGCTAAAAGTCAAGGTC
Found at i:47753282 original size:43 final size:43
Alignment explanation
Indices: 47753127--47753315 Score: 184
Period size: 43 Copynumber: 4.4 Consensus size: 43
47753117 TAAAGGTTAA
* * * * * *
47753127 GGTCTTTAGCGGCGTTTGTAGAAAAAGCGTCGCTAAA-AGTCAA
1 GGTCTTTAGCGGCGTTTATGGAGAAAGCGCCGCTAAAGA-ACAT
* * *
47753170 GGTCTTTAGCGGCGTTTGTGG-GAAAAGCGCAGCTAAAAAACAT
1 GGTCTTTAGCGGCGTTTATGGAG-AAAGCGCCGCTAAAGAACAT
* * * *
47753213 GATCTTTCGCGACGTTTATGCAGAAAGCGCCGCTAAAGAACAT
1 GGTCTTTAGCGGCGTTTATGGAGAAAGCGCCGCTAAAGAACAT
* *
47753256 GGTCTTTAGCGGCGTTTATGGAGAAAGTGTCGCTAAAGAACAT
1 GGTCTTTAGCGGCGTTTATGGAGAAAGCGCCGCTAAAGAACAT
** *
47753299 GACCTTTAGCGGTGTTT
1 GGTCTTTAGCGGCGTTT
47753316 TTAAAAATAA
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
43 119 0.98
44 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
GGTCTTTAGCGGCGTTTATGGAGAAAGCGCCGCTAAAGAACAT
Found at i:47753862 original size:28 final size:28
Alignment explanation
Indices: 47753793--47753863 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
47753783 TAAAATAAAA
* * * *
47753793 AATTTAATCATATTAAATATTGAAATTG
1 AATTTTATCATTTTAAATATTAAAATAG
* *
47753821 AATTATA-AATTTTTAAATATTAAAATAG
1 AATTTTATCA-TTTTAAATATTAAAATAG
47753849 AATTTTATCATTTTA
1 AATTTTATCATTTTA
47753864 TTAACTAATG
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
27 1 0.03
28 31 0.94
29 1 0.03
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (28 bp):
AATTTTATCATTTTAAATATTAAAATAG
Found at i:47754794 original size:20 final size:20
Alignment explanation
Indices: 47754761--47754800 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
47754751 CCAACCCTCA
*
47754761 AAACTTTTTATTTTCCCCCT
1 AAACTTTTTATTTTCACCCT
47754781 AAAC-TTTTATTTTTCACCCT
1 AAACTTTTTA-TTTTCACCCT
47754801 TTACCCCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.28, G:0.00, T:0.50
Consensus pattern (20 bp):
AAACTTTTTATTTTCACCCT
Found at i:47766459 original size:87 final size:88
Alignment explanation
Indices: 47766345--47766518 Score: 273
Period size: 87 Copynumber: 2.0 Consensus size: 88
47766335 GTCTTTCCTT
* *
47766345 TTTTTTTTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAA-ACCCTC-AAACTTC
1 TTTTTTCTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATT-
47766408 TTCAAAAAAAGCAATTAAACCCCTA
65 TTC-AAAAAAGCAATTAAACCCCTA
*
47766433 TTTTTTCTT-CACTCAATTGGGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
1 TTTTTTCTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
*
47766497 TCAAAAAAGCAATTAATCCCCT
66 TCAAAAAAGCAATTAAACCCCT
47766519 GCTCTTATTA
Statistics
Matches: 80, Mismatches: 4, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
87 58 0.73
88 17 0.21
89 5 0.06
ACGTcount: A:0.38, C:0.22, G:0.07, T:0.32
Consensus pattern (88 bp):
TTTTTTCTTGCACTCAATTGAGTACTTGAACTTTCAAAATGCATCAAAAAGACCCTCAAAAATTT
TCAAAAAAGCAATTAAACCCCTA
Found at i:47766549 original size:13 final size:13
Alignment explanation
Indices: 47766531--47766558 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
47766521 TCTTATTAAA
47766531 AATTAGAAAAAAT
1 AATTAGAAAAAAT
47766544 AATTAGAAAAAAT
1 AATTAGAAAAAAT
47766557 AA
1 AA
47766559 AAAATAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.21
Consensus pattern (13 bp):
AATTAGAAAAAAT
Found at i:47766579 original size:18 final size:19
Alignment explanation
Indices: 47766558--47766605 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
47766548 AGAAAAAATA
47766558 AAAAATAATAAATTTT-AG
1 AAAAATAATAAATTTTAAG
* * *
47766576 AAAATTATTAAATTTTAAT
1 AAAAATAATAAATTTTAAG
47766595 AAAAAT-ATAAA
1 AAAAATAATAAA
47766606 AATTAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
AAAAATAATAAATTTTAAG
Found at i:47766893 original size:19 final size:19
Alignment explanation
Indices: 47766869--47766939 Score: 79
Period size: 19 Copynumber: 3.7 Consensus size: 19
47766859 TTTCTATATA
47766869 TTTTATATTTTTTTACGAT
1 TTTTATATTTTTTTACGAT
**** *
47766888 TTTTATAAAAATTTACAAT
1 TTTTATATTTTTTTACGAT
*
47766907 TTTTTTATATTTTTTACGAT
1 TTTTATAT-TTTTTTACGAT
47766927 TTTTATATTTTTT
1 TTTTATATTTTTT
47766940 CTAATTATTA
Statistics
Matches: 39, Mismatches: 12, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
19 25 0.64
20 14 0.36
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATATTTTTTTACGAT
Found at i:47766894 original size:46 final size:47
Alignment explanation
Indices: 47766802--47766902 Score: 125
Period size: 46 Copynumber: 2.1 Consensus size: 47
47766792 TTTTTTTACG
*
47766802 AAATTTATATTTCTTTAAATTTTTTATAATTTTCTTACGACTTTATAA
1 AAATTTATATTTC-TTAAATATTTTATAATTTTCTTACGACTTTATAA
* * * *
47766850 AATTTTATATTTC-TATATATTTTAT-ATTTTTTTACGATTTTTATAA
1 AAATTTATATTTCTTAAATATTTTATAATTTTCTTACGA-CTTTATAA
47766896 AAATTTA
1 AAATTTA
47766903 CAATTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 11 0.24
46 23 0.50
48 12 0.26
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (47 bp):
AAATTTATATTTCTTAAATATTTTATAATTTTCTTACGACTTTATAA
Found at i:47766922 original size:20 final size:18
Alignment explanation
Indices: 47766869--47766939 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
47766859 TTTCTATATA
*
47766869 TTTTATATTTTTTTACGAT
1 TTTTATA-TTTTTTACAAT
***
47766888 TTTTATAAAAATTTACAATTT
1 TTTTAT-ATTTTTTACAA--T
*
47766909 TTTTATATTTTTTACGAT
1 TTTTATATTTTTTACAAT
47766927 TTTTATATTTTTT
1 TTTTATATTTTTT
47766940 CTAATTATTA
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
18 14 0.34
19 12 0.29
20 8 0.20
21 7 0.17
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (18 bp):
TTTTATATTTTTTACAAT
Found at i:47767133 original size:88 final size:89
Alignment explanation
Indices: 47767041--47767213 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
47767031 TAATAAAAGC
* *
47767041 AGGGGCTTAATTGCTTTTTTT-AAATA-AATTGAGGGTCTTTTTT-TATGCATTTTGAAAGTTCA
1 AGGGGCTTAATTGCTTTTTTTGAAA-AGAATTGAGGG-CTTTTTTCGATGCATTTTAAAAGTTCA
*
47767103 AGTACCCAATTGAGTGCAAAAAAAAT
64 AGTACCCAAATGAGTGCAAAAAAAAT
**
47767129 AGGGGCTTAATTGCTTTTTTTGAAAAGGTTTGAGGGCTTTTTTCGATGCATTTTAAAAGTTCAAG
1 AGGGGCTTAATTGCTTTTTTTGAAAAGAATTGAGGGCTTTTTTCGATGCATTTTAAAAGTTCAAG
*
47767194 TACCCAAATGATTGCAAAAA
66 TACCCAAATGAGTGCAAAAA
47767214 GAAAAGAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
88 29 0.38
89 47 0.62
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.38
Consensus pattern (89 bp):
AGGGGCTTAATTGCTTTTTTTGAAAAGAATTGAGGGCTTTTTTCGATGCATTTTAAAAGTTCAAG
TACCCAAATGAGTGCAAAAAAAAT
Found at i:47767699 original size:27 final size:26
Alignment explanation
Indices: 47767659--47767709 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
47767649 ATAAAAGCTA
**
47767659 TAAATATTTTAAATGTTAATAAAAAAT
1 TAAATATTAAAAAT-TTAATAAAAAAT
*
47767686 TAAATATTAAAAATTTATTAAAAA
1 TAAATATTAAAAATTTAATAAAAA
47767710 TTAGAAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
TAAATATTAAAAATTTAATAAAAAAT
Found at i:47767727 original size:8 final size:8
Alignment explanation
Indices: 47767716--47767751 Score: 54
Period size: 8 Copynumber: 4.2 Consensus size: 8
47767706 AAAATTAGAA
47767716 AAAAATAT
1 AAAAATAT
47767724 AAAAATAGT
1 AAAAATA-T
47767733 AAAAAATAT
1 -AAAAATAT
47767742 AAAAATAT
1 AAAAATAT
47767750 AA
1 AA
47767752 TATTTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 17 0.65
9 2 0.08
10 7 0.27
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:47767727 original size:18 final size:18
Alignment explanation
Indices: 47767704--47767748 Score: 72
Period size: 18 Copynumber: 2.4 Consensus size: 18
47767694 AAAAATTTAT
47767704 TAAAAATTAGAAAAAAATA
1 TAAAAA-TAGAAAAAAATA
*
47767723 TAAAAATAGTAAAAAATA
1 TAAAAATAGAAAAAAATA
47767741 TAAAAATA
1 TAAAAATA
47767749 TAATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (18 bp):
TAAAAATAGAAAAAAATA
Found at i:47768037 original size:27 final size:27
Alignment explanation
Indices: 47767985--47768037 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
47767975 GACATTATTA
**
47767985 TATTTTTCATAAATTTTAATTTTTTTG
1 TATTTTTCATAAATTTTAATAATTTTG
*
47768012 TATTTTT-ATTAAATTTTGATAATTTT
1 TATTTTTCA-TAAATTTTAATAATTTT
47768038 TTCTAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (27 bp):
TATTTTTCATAAATTTTAATAATTTTG
Found at i:47768057 original size:29 final size:31
Alignment explanation
Indices: 47768016--47768073 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
47768006 TTTTTGTATT
47768016 TTTATTAAATTTTGATAA-TTTTTTCTAAAA
1 TTTATTAAATTTTGATAATTTTTTTCTAAAA
* *
47768046 TTTATT-ATTTTTTATAATTTTTTTCTAA
1 TTTATTAAATTTTGATAATTTTTTTCTAA
47768074 TTTTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 9 0.36
30 16 0.64
ACGTcount: A:0.31, C:0.03, G:0.02, T:0.64
Consensus pattern (31 bp):
TTTATTAAATTTTGATAATTTTTTTCTAAAA
Found at i:47768232 original size:89 final size:89
Alignment explanation
Indices: 47768082--47768298 Score: 312
Period size: 89 Copynumber: 2.4 Consensus size: 89
47768072 AATTTTTAAT
* * * * *
47768082 AAGAGTAGGGGATTAATTGCTTTTTTGAAAAATTTTAAGGGTCTTTTTGATCCATTTTGAAAGTT
1 AAGAGAAGGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTT
47768147 CAAGTACCCAATTGAGTG-AAAAA
66 CAAGTACCCAATTGAGTGCAAAAA
* *
47768170 AAGAGAAGGGGCTTAATTGCTTTTCTTGAAGAAGTTTGAGGGCCTTTTTGATACATTTTGAAAGT
1 AAGAGAAGGGGCTTAATTGCTTTT-TTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGT
* *
47768235 TCAAGTGCTCAATTGAGTGCAAAAA
65 TCAAGTACCCAATTGAGTGCAAAAA
47768260 AAGA-AGAGGGGCTTAATTGCTTTTTTTGAAAAAGTTTAA
1 AAGAGA-AGGGGCTTAATTGC-TTTTTTGAAAAAGTTTAA
47768299 AGACTTTTTA
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
88 22 0.19
89 53 0.46
90 35 0.31
91 4 0.04
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (89 bp):
AAGAGAAGGGGCTTAATTGCTTTTTTGAAAAAGTTTAAGGGCCTTTTTGATACATTTTGAAAGTT
CAAGTACCCAATTGAGTGCAAAAA
Found at i:47769545 original size:18 final size:17
Alignment explanation
Indices: 47769522--47769555 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
47769512 TTAGTCTCTC
47769522 TTTCTTTCTTCCTTTTTT
1 TTTCTTT-TTCCTTTTTT
*
47769540 TTTCTTTTTTCTTTTT
1 TTTCTTTTTCCTTTTT
47769556 AAATTTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTCTTTTTCCTTTTTT
Found at i:47774379 original size:44 final size:45
Alignment explanation
Indices: 47774281--47774393 Score: 147
Period size: 44 Copynumber: 2.5 Consensus size: 45
47774271 AAGTGCTGCA
**
47774281 ATAGTATCTTTCAACTAAGGTCTTGATTCATTCACATTTAATGCC
1 ATAGTATCTTTCAACTAAGGTCTTGACCCATTCACATTTAATGCC
* * * **
47774326 ATAGCATCTTTCAACTAGGGTCTT-ACCCGTTCAGGTTTAATGCC
1 ATAGTATCTTTCAACTAAGGTCTTGACCCATTCACATTTAATGCC
*
47774370 ATAGTATCTTTCAACTATGGTCTT
1 ATAGTATCTTTCAACTAAGGTCTT
47774394 TCTCATTTCA
Statistics
Matches: 59, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 37 0.63
45 22 0.37
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (45 bp):
ATAGTATCTTTCAACTAAGGTCTTGACCCATTCACATTTAATGCC
Found at i:47774423 original size:45 final size:45
Alignment explanation
Indices: 47774281--47774441 Score: 152
Period size: 45 Copynumber: 3.6 Consensus size: 45
47774271 AAGTGCTGCA
* ** *
47774281 ATAGTATCTTTCAACTAAGGTCTTGAT-TCA-TTCACATTTAATGCC
1 ATAGTATCTTTCAACTATGGTCTT--TCTCAGTTCAGGTATAATGCC
* * * * *
47774326 ATAGCATCTTTCAACTAGGGTCTTAC-CCGTTCAGGTTTAATGCC
1 ATAGTATCTTTCAACTATGGTCTTTCTCAGTTCAGGTATAATGCC
*
47774370 ATAGTATCTTTCAACTATGGTCTTTCTCATTTCAGGTATAATG-C
1 ATAGTATCTTTCAACTATGGTCTTTCTCAGTTCAGGTATAATGCC
*
47774414 ACT-GATATCTTTCAACCATGGTCTTTCT
1 A-TAG-TATCTTTCAACTATGGTCTTTCT
47774442 TGTTTCTCAA
Statistics
Matches: 98, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
43 1 0.01
44 39 0.40
45 58 0.59
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.40
Consensus pattern (45 bp):
ATAGTATCTTTCAACTATGGTCTTTCTCAGTTCAGGTATAATGCC
Found at i:47776837 original size:142 final size:144
Alignment explanation
Indices: 47776650--47776951 Score: 335
Period size: 142 Copynumber: 2.1 Consensus size: 144
47776640 AGATAAAATG
* * * *
47776650 TTTTTCTATAAAAGTCCAGGTAATTCCCTGTAAAACCCCAAGTTTTTGCTTTTACTAGGGAAAAG
1 TTTTCCTATAAAA--CCAGGTAATTCCCTGTAAAACCCCAAGTTTTTCCTTTTACTAGGAAAAAA
** * * * * * * *
47776715 TTTAAAATTAATTCTAGAAAA-TGAAGAAAATTAAAGGAAATTAAAAAGACAAAATGATTTTTCC
64 AGTAAAACTAATTCTAAAAAAGAGAAAAAAAATAAAGAAAATTAAAAAGA-AAAATGACTTTTCC
* *
47776779 -TATAAAGACCTAA-GC
128 ACATAAAAACCTAAGGC
* * ** *
47776794 TTTTCCTATAAAACCAGTTAA-TCCCTTGTAAAACCTCGGGTTTTTCCTTTTATTAGGAAAAAAA
1 TTTTCCTATAAAACCAGGTAATTCCC-TGTAAAACCCCAAGTTTTTCCTTTTACTAGGAAAAAAA
*
47776858 GTAAAACTAATTCTAAAAAAGAGAAAAAAAATAAAGAAAATTAAAAAGATAAATGACTTTTCCAC
65 GTAAAACTAATTCTAAAAAAGAGAAAAAAAATAAAGAAAATTAAAAAGAAAAATGACTTTTCCAC
47776923 ATAAAAACCTAAGGC
130 ATAAAAACCTAAGGC
47776938 -TTTCCATATAAAAC
1 TTTTCC-TATAAAAC
47776952 TCAAGTTTTT
Statistics
Matches: 132, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
141 4 0.03
142 66 0.50
143 40 0.30
144 22 0.17
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (144 bp):
TTTTCCTATAAAACCAGGTAATTCCCTGTAAAACCCCAAGTTTTTCCTTTTACTAGGAAAAAAAG
TAAAACTAATTCTAAAAAAGAGAAAAAAAATAAAGAAAATTAAAAAGAAAAATGACTTTTCCACA
TAAAAACCTAAGGC
Found at i:47781039 original size:46 final size:46
Alignment explanation
Indices: 47780972--47781141 Score: 216
Period size: 46 Copynumber: 3.7 Consensus size: 46
47780962 TAATATTCCT
* * * *
47780972 GTATTCTCGAGTCTGCAACATATGCAGGAACTCGGACCCTAATCAC
1 GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
* * *
47781018 GTATTCTCGAGTCTGCAACATATGCAAGAGCTTGGAACCTAATCAT
1 GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
* * *
47781064 GTATTCTCGAGTCCGTAACATATGTAGGAGCTTGGAACCTATTC-C
1 GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
* *
47781109 TGTAATCTCGAGTCCACAACATATGCAGGAGCT
1 -GTATTCTCGAGTCCGCAACATATGCAGGAGCT
47781142 CAAAACTTGG
Statistics
Matches: 108, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 108 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.27
Consensus pattern (46 bp):
GTATTCTCGAGTCCGCAACATATGCAGGAGCTTGGAACCTAATCAC
Found at i:47783074 original size:25 final size:25
Alignment explanation
Indices: 47783043--47783094 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
47783033 AGACAAGGAA
*
47783043 AATGATGGGAGTGAGGAGATGGATG
1 AATGATGGGAGTGAGGAGATGAATG
47783068 AATGATGGGAGTGAGGAGATGAATG
1 AATGATGGGAGTGAGGAGATGAATG
47783093 AA
1 AA
47783095 GAGGACGGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.44, T:0.19
Consensus pattern (25 bp):
AATGATGGGAGTGAGGAGATGAATG
Found at i:47784502 original size:12 final size:12
Alignment explanation
Indices: 47784485--47784510 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47784475 AAAAAGGAAA
47784485 GATTTTTTTTTG
1 GATTTTTTTTTG
47784497 GATTTTTTTTTG
1 GATTTTTTTTTG
47784509 GA
1 GA
47784511 AATGGGGGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.12, C:0.00, G:0.19, T:0.69
Consensus pattern (12 bp):
GATTTTTTTTTG
Found at i:47792968 original size:9 final size:9
Alignment explanation
Indices: 47792952--47793018 Score: 82
Period size: 9 Copynumber: 7.4 Consensus size: 9
47792942 GTTAAATGAA
47792952 TCGAGTTAT
1 TCGAGTTAT
*
47792961 TTGAGTTAAT
1 TCGAGTT-AT
*
47792971 T-GGGTTAT
1 TCGAGTTAT
*
47792979 TCGAGTTAA
1 TCGAGTTAT
47792988 TCGAGTTAT
1 TCGAGTTAT
*
47792997 TCGAGTTAA
1 TCGAGTTAT
47793006 TCGAGTTAT
1 TCGAGTTAT
47793015 TCGA
1 TCGA
47793019 ATCAACTCGA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
8 3 0.06
9 43 0.88
10 3 0.06
ACGTcount: A:0.25, C:0.09, G:0.24, T:0.42
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:47792979 original size:18 final size:18
Alignment explanation
Indices: 47792950--47793018 Score: 111
Period size: 18 Copynumber: 3.8 Consensus size: 18
47792940 GAGTTAAATG
*
47792950 AATCGAGTTATTTGAGTT
1 AATCGAGTTATTCGAGTT
* *
47792968 AATTGGGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
47792986 AATCGAGTTATTCGAGTT
1 AATCGAGTTATTCGAGTT
47793004 AATCGAGTTATTCGA
1 AATCGAGTTATTCGA
47793019 ATCAACTCGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.41
Consensus pattern (18 bp):
AATCGAGTTATTCGAGTT
Found at i:47793087 original size:9 final size:9
Alignment explanation
Indices: 47793072--47793108 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
47793062 TAATTTTTTG
47793072 AATTCGAAT
1 AATTCGAAT
*
47793081 AACTCGAAT
1 AATTCGAAT
47793090 AATTCGAAT
1 AATTCGAAT
47793099 AATTCGAAT
1 AATTCGAAT
47793108 A
1 A
47793109 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:47793322 original size:30 final size:31
Alignment explanation
Indices: 47793287--47793346 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
47793277 AAACCTTTTA
* *
47793287 TTTTCCCCCAAAATTTTTA-CTCCTTCCCAC
1 TTTTCCCCCAAAACTTTTATCCCCTTCCCAC
*
47793317 TTTTCCCCTAAAACTTTTATCCCCTTCCCA
1 TTTTCCCCCAAAACTTTTATCCCCTTCCCA
47793347 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 17 0.65
31 9 0.35
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTATCCCCTTCCCAC
Found at i:47803400 original size:17 final size:17
Alignment explanation
Indices: 47803380--47803414 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47803370 ATGCATAATC
*
47803380 ACAGTTCATTCAATATA
1 ACAGTTCATACAATATA
47803397 ACAGTTCATACAATATA
1 ACAGTTCATACAATATA
47803414 A
1 A
47803415 TAATTCATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.46, C:0.17, G:0.06, T:0.31
Consensus pattern (17 bp):
ACAGTTCATACAATATA
Found at i:47803421 original size:17 final size:17
Alignment explanation
Indices: 47803384--47803422 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
47803374 ATAATCACAG
* *
47803384 TTCATTCAATATAACAG
1 TTCATACAATATAACAA
*
47803401 TTCATACAATATAATAA
1 TTCATACAATATAACAA
47803418 TTCAT
1 TTCAT
47803423 CCATACCACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.03, T:0.38
Consensus pattern (17 bp):
TTCATACAATATAACAA
Found at i:47804421 original size:28 final size:29
Alignment explanation
Indices: 47804365--47804435 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 29
47804355 CGTATATGCA
* *
47804365 TATATATTATATATAATCAAGACCTACACC
1 TATATATTATATATAATCAAAACCCACA-C
*
47804395 TATATATTATAT-TTA-CAAAACCCACAC
1 TATATATTATATATAATCAAAACCCACAC
47804422 -ATATATTATATATA
1 TATATATTATATATA
47804436 TACATACCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 11 0.31
27 2 0.06
28 9 0.25
29 2 0.06
30 12 0.33
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.37
Consensus pattern (29 bp):
TATATATTATATATAATCAAAACCCACAC
Found at i:47804439 original size:28 final size:30
Alignment explanation
Indices: 47804365--47804439 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
47804355 CGTATATGCA
* *
47804365 TATATATTATATATA-ATCAAGACCTACACC
1 TATATATTATATATATA-CAAAACCCACACC
47804395 TATATATTATAT-T-TACAAAACCCACA-C
1 TATATATTATATATATACAAAACCCACACC
47804422 -ATATATTATATATATACA
1 TATATATTATATATATACA
47804440 TACCTTTTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 11 0.28
27 2 0.05
28 13 0.32
29 2 0.05
30 12 0.30
ACGTcount: A:0.45, C:0.17, G:0.01, T:0.36
Consensus pattern (30 bp):
TATATATTATATATATACAAAACCCACACC
Found at i:47808248 original size:9 final size:9
Alignment explanation
Indices: 47808231--47808275 Score: 63
Period size: 9 Copynumber: 5.0 Consensus size: 9
47808221 ACCGAAGAAA
*
47808231 CATCATCCT
1 CATCGTCCT
47808240 CATCGTCCT
1 CATCGTCCT
*
47808249 CATCGTCTT
1 CATCGTCCT
47808258 CATCGTCCT
1 CATCGTCCT
*
47808267 CATCATCCT
1 CATCGTCCT
47808276 TTTTGCAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.16, C:0.42, G:0.07, T:0.36
Consensus pattern (9 bp):
CATCGTCCT
Found at i:47810446 original size:12 final size:10
Alignment explanation
Indices: 47810428--47810496 Score: 50
Period size: 10 Copynumber: 6.7 Consensus size: 10
47810418 TGTATTAAAA
47810428 TTATATA-AT
1 TTATATATAT
47810437 CTTATATATAT
1 -TTATATATAT
*
47810448 TTATATACAT
1 TTATATATAT
* *
47810458 ATATATTTAT
1 TTATATATAT
* * *
47810468 ATACAATAAAT
1 TTA-TATATAT
47810479 CTTATATATAT
1 -TTATATATAT
47810490 TTATATA
1 TTATATA
47810497 CATGTATCTA
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
10 33 0.72
11 11 0.24
12 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (10 bp):
TTATATATAT
Found at i:47810461 original size:16 final size:16
Alignment explanation
Indices: 47810440--47810486 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
47810430 ATATAATCTT
47810440 ATATATATTTATATAC
1 ATATATATTTATATAC
47810456 ATATATATTTATATAC
1 ATATATATTTATATAC
*
47810472 A-ATAAATCTTATATA
1 ATATATAT-TTATATA
47810487 TATTTATATA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATATTTATATAC
Found at i:47817803 original size:2 final size:2
Alignment explanation
Indices: 47817796--47817820 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
47817786 GAGCTTGTCA
47817796 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
47817821 AACAGCCAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:47818552 original size:24 final size:23
Alignment explanation
Indices: 47818503--47818552 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
47818493 TACTAAGTAA
*
47818503 TATTTATTATGTAAAATATGTAT
1 TATTTATTATGTAAAATATATAT
* * *
47818526 TATTTATTTATTTAAAATTTATTT
1 TATTTA-TTATGTAAAATATATAT
47818550 TAT
1 TAT
47818553 AATTTAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (23 bp):
TATTTATTATGTAAAATATATAT
Found at i:47819870 original size:15 final size:16
Alignment explanation
Indices: 47819844--47819873 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47819834 ATTAGTTAGT
47819844 TTTAAGTTTTGTTTTG
1 TTTAAGTTTTGTTTTG
47819860 TTTAA-TTTTGTTTT
1 TTTAAGTTTTGTTTT
47819874 ACTTTATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (16 bp):
TTTAAGTTTTGTTTTG
Found at i:47822841 original size:3 final size:3
Alignment explanation
Indices: 47822833--47822874 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
47822823 AATCTACCCA
47822833 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
47822875 GTCTCAACTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:47824119 original size:25 final size:25
Alignment explanation
Indices: 47824069--47824119 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
47824059 TATTGATAAC
*
47824069 TTAATATATAGATAATATATACATT
1 TTAATATATAGATAATATATAAATT
* *
47824094 TTAATAT-TATATATTATTATAAATT
1 TTAATATATAGATAATA-TATAAATT
47824119 T
1 T
47824120 ATTTTTTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (25 bp):
TTAATATATAGATAATATATAAATT
Found at i:47842515 original size:26 final size:26
Alignment explanation
Indices: 47842469--47842569 Score: 125
Period size: 26 Copynumber: 3.9 Consensus size: 26
47842459 TCTCATCTCA
* *
47842469 ATTTTACCCTAG-TAAAATTTTAACG
1 ATTTTACCCCAGATAAAATTTTAATG
* *
47842494 ATTTTACCCCCGATAAAATTTTGATG
1 ATTTTACCCCAGATAAAATTTTAATG
*
47842520 ATTTTACCCTTAG-TAAAATTTTAATG
1 ATTTTACCC-CAGATAAAATTTTAATG
*
47842546 ATTTTACCCTAGATAAAATTTTAA
1 ATTTTACCCCAGATAAAATTTTAA
47842570 GAAAATTCGT
Statistics
Matches: 66, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
25 13 0.20
26 52 0.79
27 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCAGATAAAATTTTAATG
Found at i:47842540 original size:52 final size:51
Alignment explanation
Indices: 47842469--47842567 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 51
47842459 TCTCATCTCA
*
47842469 ATTTTACCCTAGTAAAATTTTAACGATTTTACCCCCGATAAAATTTTGATG
1 ATTTTACCCTAGTAAAATTTTAACGATTTTACCCCAGATAAAATTTTGATG
* *
47842520 ATTTTACCCTTAGTAAAATTTTAATGATTTTACCCTAGATAAAATTTT
1 ATTTTACCC-TAGTAAAATTTTAACGATTTTACCCCAGATAAAATTTT
47842568 AAGAAAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 9 0.20
52 35 0.80
ACGTcount: A:0.34, C:0.15, G:0.08, T:0.42
Consensus pattern (51 bp):
ATTTTACCCTAGTAAAATTTTAACGATTTTACCCCAGATAAAATTTTGATG
Found at i:47849694 original size:24 final size:24
Alignment explanation
Indices: 47849667--47849717 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
47849657 TAGAAAAGAA
*
47849667 GACTTATTCTTCCTTAACACAAGG
1 GACTCATTCTTCCTTAACACAAGG
47849691 GACTCATTCTTCCTTAACACAAGG
1 GACTCATTCTTCCTTAACACAAGG
47849715 GAC
1 GAC
47849718 GACAACCATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.29
Consensus pattern (24 bp):
GACTCATTCTTCCTTAACACAAGG
Found at i:47850990 original size:25 final size:25
Alignment explanation
Indices: 47850956--47851004 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
47850946 ACTCTTTTAC
47850956 TTACTACTTATTACTTATACGACCG
1 TTACTACTTATTACTTATACGACCG
47850981 TTACTACTTATTACTTATACGACC
1 TTACTACTTATTACTTATACGACC
47851005 ATGTATGTAA
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:0.29, C:0.24, G:0.06, T:0.41
Consensus pattern (25 bp):
TTACTACTTATTACTTATACGACCG
Found at i:47851817 original size:9 final size:9
Alignment explanation
Indices: 47851799--47851842 Score: 79
Period size: 9 Copynumber: 4.9 Consensus size: 9
47851789 ATAGGTTTAA
47851799 GTTAAATTG
1 GTTAAATTG
*
47851808 GTTGAATTG
1 GTTAAATTG
47851817 GTTAAATTG
1 GTTAAATTG
47851826 GTTAAATTG
1 GTTAAATTG
47851835 GTTAAATT
1 GTTAAATT
47851843 TCAAGTTATG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.45
Consensus pattern (9 bp):
GTTAAATTG
Found at i:47855707 original size:44 final size:44
Alignment explanation
Indices: 47855645--47855775 Score: 237
Period size: 44 Copynumber: 3.0 Consensus size: 44
47855635 GCAGCCTGCT
* *
47855645 TCAGTT-AAAAGCATAATTGTTTTGCTCATCGGACTATTTCAAA
1 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
47855688 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
1 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
47855732 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
1 TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
47855776 CAACAGGTGG
Statistics
Matches: 85, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
43 6 0.07
44 79 0.93
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (44 bp):
TCAGTTAAAAAGCTTAATTGTTTCGCTCATCGGACTATTTCAAA
Found at i:47869276 original size:15 final size:15
Alignment explanation
Indices: 47869256--47869285 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47869246 CATATTCAAA
*
47869256 CCATCATTTTACCTT
1 CCATCATTCTACCTT
47869271 CCATCATTCTACCTT
1 CCATCATTCTACCTT
47869286 ATCAAGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (15 bp):
CCATCATTCTACCTT
Found at i:47870025 original size:25 final size:25
Alignment explanation
Indices: 47869997--47870077 Score: 96
Period size: 25 Copynumber: 3.3 Consensus size: 25
47869987 GTATGTTCCC
47869997 ACGAGCTAGAAATCGGTAAGCTCAT
1 ACGAGCTAGAAATCGGTAAGCTCAT
47870022 ACGAGCT-GAGAATCGGTAAGCTC-T
1 ACGAGCTAGA-AATCGGTAAGCTCAT
* *
47870046 CATGAACTA-AAATCGGTAAGCTCAT
1 -ACGAGCTAGAAATCGGTAAGCTCAT
*
47870071 ACCAGCT
1 ACGAGCT
47870078 GTGGTGTGTC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
24 20 0.43
25 27 0.57
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (25 bp):
ACGAGCTAGAAATCGGTAAGCTCAT
Found at i:47878861 original size:2 final size:2
Alignment explanation
Indices: 47878854--47878910 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
47878844 ACATATCTAC
47878854 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
47878896 GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA G
47878911 CAAATCAAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:47880547 original size:43 final size:42
Alignment explanation
Indices: 47880458--47880750 Score: 378
Period size: 42 Copynumber: 6.9 Consensus size: 42
47880448 GCGCTTACAT
47880458 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
* *
47880500 AAAAAAACGCCACTAAAGATCATGTTCTTTAGCAGCGCTTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
*
47880542 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCCTAG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
47880584 AAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGG
1 -AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTA-G
* * *
47880628 AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTCGG
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AG
** * * *
47880671 AGGAAAACGCCTCTAAA-AGTAATGTTCTATAGCGGCGCTT-G
1 AAAAAAACGCCGCTAAAGA-TCATGTTCTTTAGCGGCGCTTAG
**
47880712 TTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGC
1 -AAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGC
47880751 ATATTTCACA
Statistics
Matches: 224, Mismatches: 21, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.01
42 111 0.50
43 110 0.49
44 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (42 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG
Found at i:47880610 original size:85 final size:84
Alignment explanation
Indices: 47880458--47880750 Score: 378
Period size: 86 Copynumber: 3.5 Consensus size: 84
47880448 GCGCTTACAT
47880458 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCAT
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCAT
*
47880523 GTTCTTTAGCAGCGCTTAG
66 GTTCTTTAGCGGCGCTTAG
* *
47880542 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCCTAGAAAAAAAACGCCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCACTAAAGATCA
47880607 TGTTCTTTAGCGGCGCTTAGG
65 TGTTCTTTAGCGGCGCTTA-G
* * * ** * *
47880628 AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTCGGAGGAAAACGCCTCTAAA-AGTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAAAAAAACGCCACTAAAGA-TC
*
47880692 ATGTTCTATAGCGGCGCTT-G
64 ATGTTCTTTAGCGGCGCTTAG
**
47880712 TTCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGC
1 -AAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGC
47880751 ATATTTCACA
Statistics
Matches: 186, Mismatches: 16, Indels: 13
0.87 0.07 0.06
Matches are distributed among these distances:
84 44 0.24
85 70 0.38
86 71 0.38
87 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (84 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCAT
GTTCTTTAGCGGCGCTTAG
Found at i:47880658 original size:86 final size:85
Alignment explanation
Indices: 47880458--47880750 Score: 380
Period size: 85 Copynumber: 3.4 Consensus size: 85
47880448 GCGCTTACAT
47880458 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCAT
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCAT
*
47880523 GTTCTTTAGCAGCGCTTA-G
66 GTTCTTTAGCGGCGCTTAGG
* *
47880542 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCCTAGAAAAAAAACGCCGCTAAAGATCA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAAAAAACGCCACTAAAGATCA
47880607 TGTTCTTTAGCGGCGCTTAGG
65 TGTTCTTTAGCGGCGCTTAGG
* * * ** * *
47880628 AAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTCGGAGGAAAACGCCTCTAAA-AGTA
1 AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTT-AGAAAAAAACGCCACTAAAGA-TC
* *
47880692 ATGTTCTATAGCGGCGCTT-GT
64 ATGTTCTTTAGCGGCGCTTAGG
**
47880713 TCAAAAACGCCGCTAAA-AGT-AGTGTTCTTTAGCGGCGC
1 AAAAAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGCGC
47880751 ATATTTCACA
Statistics
Matches: 186, Mismatches: 17, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
84 43 0.23
85 71 0.38
86 71 0.38
87 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.23
Consensus pattern (85 bp):
AAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCACTAAAGATCAT
GTTCTTTAGCGGCGCTTAGG
Found at i:47881188 original size:12 final size:12
Alignment explanation
Indices: 47881171--47881210 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
47881161 TTTTGAACTT
*
47881171 CTGCTTCTATTG
1 CTGCTTCTATCG
*
47881183 CTGCTTCTCTCG
1 CTGCTTCTATCG
*
47881195 CTGCTTCTCTCG
1 CTGCTTCTATCG
47881207 CTGC
1 CTGC
47881211 GGCCTCTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.03, C:0.38, G:0.17, T:0.42
Consensus pattern (12 bp):
CTGCTTCTATCG
Found at i:47881221 original size:21 final size:21
Alignment explanation
Indices: 47881195--47881263 Score: 93
Period size: 21 Copynumber: 3.3 Consensus size: 21
47881185 GCTTCTCTCG
*
47881195 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
47881216 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* * *
47881237 CTGCTTCCCTCGCTGCCGCAT
1 CTGCTTCTCTCGCTGCAGCCT
47881258 CTGCTT
1 CTGCTT
47881264 TAAGTTGCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:47883078 original size:40 final size:39
Alignment explanation
Indices: 47883033--47883111 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
47883023 TTGGGATTTA
* *
47883033 GGGAAATTAAATCGGGGAAACTGGGGGAATAAGAATTGGG
1 GGGAAATGAAATCGGGG-AACTGGGGGAATAAGAAATGGG
* *
47883073 GGGAAATGAAATCGGGGAATTGGGGGAATACGAAATGGG
1 GGGAAATGAAATCGGGGAACTGGGGGAATAAGAAATGGG
47883112 AAATTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.37, C:0.05, G:0.42, T:0.16
Consensus pattern (39 bp):
GGGAAATGAAATCGGGGAACTGGGGGAATAAGAAATGGG
Found at i:47883116 original size:23 final size:24
Alignment explanation
Indices: 47883066--47883116 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
47883056 GGGGAATAAG
* *
47883066 AATTGGGGGGAAATGAAATCGGGG
1 AATTGGGGGGAAACGAAATCGGGA
47883090 AATT-GGGGGAATACGAAAT-GGGA
1 AATTGGGGGGAA-ACGAAATCGGGA
47883113 AATT
1 AATT
47883117 AGGGAATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.20
Consensus pattern (24 bp):
AATTGGGGGGAAACGAAATCGGGA
Found at i:47883684 original size:22 final size:22
Alignment explanation
Indices: 47883650--47883702 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
47883640 ATAGGCCTCT
47883650 AACTTT-AACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
47883671 AACTTTAAACCCGTAACCTTTA
1 AACTTTAAACCCGTAACCTTTA
47883693 AACTTTAAAC
1 AACTTTAAAC
47883703 TCTTAAACCC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 6 0.19
22 25 0.81
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AACTTTAAACCCGTAACCTTTA
Found at i:47883708 original size:15 final size:14
Alignment explanation
Indices: 47883663--47883739 Score: 55
Period size: 15 Copynumber: 5.3 Consensus size: 14
47883653 TTTAACCCGT
47883663 AACCTTTAAACTTTA
1 AACC-TTAAACTTTA
* *
47883678 AACCCGTAACCTTTA
1 AA-CCTTAAACTTTA
*
47883693 AACTTTAAACTCTTA
1 AACCTTAAACT-TTA
* **
47883708 AACCCTAAACTACA
1 AACCTTAAACTTTA
* *
47883722 AACCTTACACTCTA
1 AACCTTAAACTTTA
47883736 AACC
1 AACC
47883740 CGTAACCTTA
Statistics
Matches: 47, Mismatches: 13, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
14 21 0.45
15 24 0.51
16 2 0.04
ACGTcount: A:0.40, C:0.30, G:0.01, T:0.29
Consensus pattern (14 bp):
AACCTTAAACTTTA
Found at i:47883724 original size:29 final size:30
Alignment explanation
Indices: 47883666--47883744 Score: 92
Period size: 29 Copynumber: 2.7 Consensus size: 30
47883656 AACCCGTAAC
* **
47883666 CTTTAAACT-TTAAACCCGTAACCTTTAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
47883695 CTTTAAACTCTTAAACCC-TAAACTACAAA
1 CTTTAAACTCTTAAACCCGTAAACTACAAA
* *
47883724 CCTTACACTC-TAAACCCGTAA
1 CTTTAAACTCTTAAACCCGTAA
47883745 CCTTACACTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
28 7 0.16
29 28 0.65
30 8 0.19
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (30 bp):
CTTTAAACTCTTAAACCCGTAAACTACAAA
Found at i:47884753 original size:259 final size:261
Alignment explanation
Indices: 47884290--47884821 Score: 860
Period size: 259 Copynumber: 2.0 Consensus size: 261
47884280 TATTTTGCTT
47884290 TTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTT
1 TTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTT
*
47884355 TGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAAA
66 TGGTTCAGATATTTTACGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAAA
47884420 CACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGATCCAAAGCGCCGCTAAAGTTATTCTTTAAC
131 CACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGATCCAAAGCGCCGCTAAAGTTATTCTTTAAC
* *
47884485 GGTGTTTTCTAGTAAGCGCCAC-TAA-TATA-ATCAAAATTAAAACTACGCATTTTAGTTAAGAT
196 GGCGTTTTCTAGTAAGCGCCACATAAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGAT
47884547 A
261 A
*
47884548 CTTTTGCGGCGTTTTAACGTTAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 -TTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
47884613 TTGGTTCAGATTTTTTACGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACCAA
65 TTGGTTCAGATATTTTACGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
* * *
47884678 ACACTGCGTTTTGTTAAGATATGTTGCGGTGCTTTG-GCTC-AAGCGCCGCTAAA-TCTATTCTT
130 ACACTGCGTTTTGTTAAGATACGTTGCGGCGC-TTGATC-CAAAGCGCCGCTAAAGT-TATTCTT
*
47884740 TAACGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTA
192 TAACGGCGTTTTCTAGTAAGCGCCAC----ATAAGTATACATCAAAATTAAAACTACGCATTTTA
47884805 GTAAAGATA
253 GTAAAGATA
47884814 TTTTGCGG
1 TTTTGCGG
47884822 TGCTTTCTAC
Statistics
Matches: 253, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
258 1 0.00
259 201 0.79
260 4 0.02
264 3 0.01
265 12 0.05
266 32 0.13
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (261 bp):
TTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTTT
TGGTTCAGATATTTTACGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAAA
CACTGCGTTTTGTTAAGATACGTTGCGGCGCTTGATCCAAAGCGCCGCTAAAGTTATTCTTTAAC
GGCGTTTTCTAGTAAGCGCCACATAAGTATACATCAAAATTAAAACTACGCATTTTAGTAAAGAT
A
Found at i:47885121 original size:114 final size:112
Alignment explanation
Indices: 47884880--47885161 Score: 287
Period size: 113 Copynumber: 2.5 Consensus size: 112
47884870 GCATATCACA
* * * * * * ** *
47884880 AAGCGCCACTAAATCTAGGATAAATCAACAAAAAAAATGATGCATTTTGGTTAAGATATTTTGCG
1 AAGCGCCACTAATTCTAGGATACATCAAC-ATAAAAATGATGCGTTTTGGTTAGGAGAAATTACG
* *
47884945 CCGCATATCGCAAAACGCCGCTAAGACGCTTTTGCGGCGTTTTTTGAG
65 CCGCATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTTTTTTGAG
47884993 AAGCGCCACTAATTCTAGGATACATCAACACTAAAAATGATGCGTTTTGGTTAGGAGAAATTACG
1 AAGCGCCACTAATTCTAGGATACATCAACA-TAAAAATGATGCGTTTTGGTTAGGAGAAATTACG
* * * * * * * *
47885058 GCGCGTTGTTGTAAAATGCTGCTAAGACACTTTAGCGGCGTGTTTTT-TG
65 CCGC-ATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGT-TTTTTGAG
* * * * * * *
47885107 AAGCGCCACTAATTCTTGCATACATAAAGATGAAAATGTTGCGTTTTGGATAGGA
1 AAGCGCCACTAATTCTAGGATACATCAACATAAAAATGATGCGTTTTGGTTAGGA
47885162 TATTTTGCGG
Statistics
Matches: 140, Mismatches: 26, Indels: 6
0.81 0.15 0.03
Matches are distributed among these distances:
112 1 0.01
113 79 0.56
114 55 0.39
115 5 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (112 bp):
AAGCGCCACTAATTCTAGGATACATCAACATAAAAATGATGCGTTTTGGTTAGGAGAAATTACGC
CGCATATCGCAAAACGCCGCTAAGACACTTTAGCGGCGTTTTTTGAG
Found at i:47897411 original size:33 final size:34
Alignment explanation
Indices: 47897357--47897439 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 34
47897347 GACATAAAGC
* *
47897357 TTAAC-TTATAATTCAATAATTTAGATTTAATAG
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
47897390 TTAACTTTATAATTTAA-AATTTAGATTTAATAA
1 TTAACTTTATAATTTAATAATTTAGATTTAATAA
* *
47897423 TGAACTTCATAATTTAA
1 TTAACTTTATAATTTAA
47897440 GTATTAAAAG
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
33 35 0.78
34 10 0.22
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (34 bp):
TTAACTTTATAATTTAATAATTTAGATTTAATAA
Found at i:47907740 original size:17 final size:17
Alignment explanation
Indices: 47907718--47907763 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
47907708 CCAAAAACTA
47907718 CGAGCTCACCAAATGTG
1 CGAGCTCACCAAATGTG
*
47907735 CGAGCTCGCCAAATGTG
1 CGAGCTCACCAAATGTG
*
47907752 GGAGCTCACCAA
1 CGAGCTCACCAA
47907764 GATCGTGAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.28, C:0.30, G:0.26, T:0.15
Consensus pattern (17 bp):
CGAGCTCACCAAATGTG
Found at i:47907796 original size:17 final size:17
Alignment explanation
Indices: 47907753--47907797 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
47907743 CCAAATGTGG
*
47907753 GAGCTCACCAAGATCGT
1 GAGCTCACCAACATCGT
* *
47907770 GAACTCACCAACATTGT
1 GAGCTCACCAACATCGT
*
47907787 GAGCTTACCAA
1 GAGCTCACCAA
47907798 GCAAGAGAGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.33, C:0.29, G:0.18, T:0.20
Consensus pattern (17 bp):
GAGCTCACCAACATCGT
Found at i:47918092 original size:205 final size:205
Alignment explanation
Indices: 47917740--47918149 Score: 820
Period size: 205 Copynumber: 2.0 Consensus size: 205
47917730 TTACACTTTA
47917740 CACTTTTATATTCTAGCATAAAACATCAAAACACATACAAGTTATCCATGGGTAAATTTTTAAAC
1 CACTTTTATATTCTAGCATAAAACATCAAAACACATACAAGTTATCCATGGGTAAATTTTTAAAC
47917805 ACAAACCCTAGCTCAAAATAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTAGAAAATGTA
66 ACAAACCCTAGCTCAAAATAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTAGAAAATGTA
47917870 AAGAACATTAAAAACGAGGATAAAATAGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGC
131 AAGAACATTAAAAACGAGGATAAAATAGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGC
47917935 TATGTCTTCC
196 TATGTCTTCC
47917945 CACTTTTATATTCTAGCATAAAACATCAAAACACATACAAGTTATCCATGGGTAAATTTTTAAAC
1 CACTTTTATATTCTAGCATAAAACATCAAAACACATACAAGTTATCCATGGGTAAATTTTTAAAC
47918010 ACAAACCCTAGCTCAAAATAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTAGAAAATGTA
66 ACAAACCCTAGCTCAAAATAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTAGAAAATGTA
47918075 AAGAACATTAAAAACGAGGATAAAATAGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGC
131 AAGAACATTAAAAACGAGGATAAAATAGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGC
47918140 TATGTCTTCC
196 TATGTCTTCC
47918150 TCATGTGAAA
Statistics
Matches: 205, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
205 205 1.00
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (205 bp):
CACTTTTATATTCTAGCATAAAACATCAAAACACATACAAGTTATCCATGGGTAAATTTTTAAAC
ACAAACCCTAGCTCAAAATAATGGTAGAAATAGCTAAACCGAGCTACGAGGATCTAGAAAATGTA
AAGAACATTAAAAACGAGGATAAAATAGACTTACAATCGAGCTTGGAAGCTTGAAAAACCCTAGC
TATGTCTTCC
Found at i:47919747 original size:17 final size:18
Alignment explanation
Indices: 47919725--47919872 Score: 77
Period size: 17 Copynumber: 8.8 Consensus size: 18
47919715 AACTGCGAAC
* *
47919725 TGCGAGCTCCCCAAATG-
1 TGCGAGCTCACCAAAAGA
47919742 TGCGAGCTCACCAAAAGA
1 TGCGAGCTCACCAAAAGA
*
47919760 TGCGAGCTCACC--ATGA
1 TGCGAGCTCACCAAAAGA
* *
47919776 CTACGAGCTCACC-AGA-A
1 -TGCGAGCTCACCAAAAGA
* *
47919793 T---AACTCACCAAAAAA
1 TGCGAGCTCACCAAAAGA
** *
47919808 TATGAGCTCACCAAATG-
1 TGCGAGCTCACCAAAAGA
47919825 TGCGAGCTCACC--AAGA
1 TGCGAGCTCACCAAAAGA
* * *
47919841 TCGCGAGCTTACCAACA-C
1 T-GCGAGCTCACCAAAAGA
47919859 TGCGAGCTCACCAA
1 TGCGAGCTCACCAA
47919873 GCATGAGAGT
Statistics
Matches: 101, Mismatches: 18, Indels: 24
0.71 0.13 0.17
Matches are distributed among these distances:
13 7 0.07
14 2 0.02
15 4 0.04
16 5 0.05
17 59 0.58
18 23 0.23
19 1 0.01
ACGTcount: A:0.34, C:0.32, G:0.19, T:0.16
Consensus pattern (18 bp):
TGCGAGCTCACCAAAAGA
Found at i:47923246 original size:34 final size:34
Alignment explanation
Indices: 47923203--47923270 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
47923193 AAATGGTTGT
47923203 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
47923237 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
1 GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
47923271 CAACGAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (34 bp):
GGTTCACAATCTGGGGATAGCAGAGCTTTCCAAA
Found at i:47927777 original size:54 final size:54
Alignment explanation
Indices: 47927718--47927833 Score: 144
Period size: 54 Copynumber: 2.1 Consensus size: 54
47927708 TACTCAGTGA
** * * *
47927718 GTTACACGGGC-AGAGACATGGGCTGGGACATGGCTGTGTGTCTCTAGTTCGAAT
1 GTTACACGGGCAAG-GACACAGACTGGGACATGACTGTGTGTCCCTAGTTCGAAT
* * *
47927772 GTTACACGGGCAAGGACACAGACTGGGACATGACTGTGTGTCCCTATTTTGATT
1 GTTACACGGGCAAGGACACAGACTGGGACATGACTGTGTGTCCCTAGTTCGAAT
47927826 GTTACACG
1 GTTACACG
47927834 ACCTAATACA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.22, C:0.20, G:0.31, T:0.27
Consensus pattern (54 bp):
GTTACACGGGCAAGGACACAGACTGGGACATGACTGTGTGTCCCTAGTTCGAAT
Found at i:47934180 original size:19 final size:19
Alignment explanation
Indices: 47934138--47934178 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
47934128 AGAAAAAGTC
47934138 AAAAGTAAGAACGAGAAGA
1 AAAAGTAAGAACGAGAAGA
47934157 AAAAGTACAGAAC-A-AAGA
1 AAAAGTA-AGAACGAGAAGA
47934175 AAAA
1 AAAA
47934179 AGCATTGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.68, C:0.07, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAAGTAAGAACGAGAAGA
Found at i:47934223 original size:23 final size:24
Alignment explanation
Indices: 47934194--47934242 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
47934184 TGTGACTGAG
*
47934194 AAAAAAGT-A-AAAAGTCAAGTGAA
1 AAAAAAGTCATAAAAGT-AAGAGAA
47934217 AAAAAAGTCATAAAAGTAAGAGAA
1 AAAAAAGTCATAAAAGTAAGAGAA
47934241 AA
1 AA
47934243 CTCAGTCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 8 0.35
24 9 0.39
25 6 0.26
ACGTcount: A:0.67, C:0.04, G:0.16, T:0.12
Consensus pattern (24 bp):
AAAAAAGTCATAAAAGTAAGAGAA
Found at i:47951762 original size:43 final size:42
Alignment explanation
Indices: 47951715--47951978 Score: 153
Period size: 43 Copynumber: 6.2 Consensus size: 42
47951705 ACTTCAGAGT
* *
47951715 GATAAGATCTGTGCTTTTGATCTACTCCACTATTGCTTAGGGA
1 GATAAGAT-TGTGCTTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
47951758 GATAAGA-TCTACAATCTTCGACCTACTCCACTGCTGCTCAGGGA
1 GATAAGATTGTGC--T-TTCGATCTACTCCACTACTGCTTAGGGA
* * *
47951802 GATAAG--GGTGCTTTCGATCTGCTCCATTACTG-TGTAGGGA
1 GATAAGATTGTGCTTTCGATCTACTCCACTACTGCT-TAGGGA
* * * * * ** *
47951842 GATAAGA-TCTACAATCTTCAACCTACTCCGCTGTTGCTCAGGGA
1 GATAAGATTGTGC--T-TTCGATCTACTCCACTACTGCTTAGGGA
* * *
47951886 GATAAGGTTGGTGCTTTCGATCTGCTCCACTACTGCTTAGAGA
1 GATAAGATT-GTGCTTTCGATCTACTCCACTACTGCTTAGGGA
* * * * *
47951929 GATAAGATTGGTTTCTTTTG-TCTGCTTCACTACTGTTTAGGGA
1 GATAAGATT-G-TGCTTTCGATCTACTCCACTACTGCTTAGGGA
47951972 GATAAGA
1 GATAAGA
47951979 CTTGATGCGA
Statistics
Matches: 166, Mismatches: 43, Indels: 24
0.71 0.18 0.10
Matches are distributed among these distances:
39 1 0.01
40 27 0.16
41 6 0.04
43 68 0.41
44 60 0.36
45 2 0.01
46 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.33
Consensus pattern (42 bp):
GATAAGATTGTGCTTTCGATCTACTCCACTACTGCTTAGGGA
Found at i:47951784 original size:44 final size:44
Alignment explanation
Indices: 47951736--47951891 Score: 142
Period size: 44 Copynumber: 3.6 Consensus size: 44
47951726 TGCTTTTGAT
* *
47951736 CTACTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCGAC
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCGAC
* ** * *
47951780 CTACTCCACTGCTGCTCAGGGAGATAAG-GGTGC--T-TTCGAT
1 CTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCGAC
* * * *
47951820 CTGCTCCATTACTG-TGTAGGGAGATAAGATCTACAATCTTCAAC
1 CTACTCCACTACTGCT-CAGGGAGATAAGATCTACAATCTTCGAC
* **
47951864 CTACTCCGCTGTTGCTCAGGGAGATAAG
1 CTACTCCACTACTGCTCAGGGAGATAAG
47951892 GTTGGTGCTT
Statistics
Matches: 84, Mismatches: 22, Indels: 12
0.71 0.19 0.10
Matches are distributed among these distances:
39 1 0.01
40 27 0.32
41 3 0.04
43 3 0.04
44 49 0.58
45 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
CTACTCCACTACTGCTCAGGGAGATAAGATCTACAATCTTCGAC
Found at i:47951827 original size:84 final size:86
Alignment explanation
Indices: 47951725--47951936 Score: 313
Period size: 84 Copynumber: 2.5 Consensus size: 86
47951715 GATAAGATCT
* * * *
47951725 GTGCTTTTGATCTACTCCACTATTGCTTAGGGAGATAAGATCTACAATCTTCGACCTACTCCACT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACT
47951790 GCTGCTCAGGGAGATAA-G-G
66 GCTGCTCAGGGAGATAAGGTG
* *
47951809 GTGCTTTCGATCTGCTCCATTACTG-TGTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGC
1 GTGCTTTCGATCTGCTCCACTACTGCT-TAGGGAGATAAGATCTACAATCTTCAACCTACTCCAC
*
47951873 TGTTGCTCAGGGAGATAAGGTTG
65 TGCTGCTCAGGGAGATAAGG-TG
*
47951896 GTGCTTTCGATCTGCTCCACTACTGCTTAGAGAGATAAGAT
1 GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
47951937 TGGTTTCTTT
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
83 1 0.01
84 73 0.64
85 1 0.01
87 38 0.33
88 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (86 bp):
GTGCTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACT
GCTGCTCAGGGAGATAAGGTG
Found at i:47973872 original size:21 final size:21
Alignment explanation
Indices: 47973842--47973921 Score: 72
Period size: 21 Copynumber: 3.8 Consensus size: 21
47973832 AAAAGCTAAC
*
47973842 AAAATGCCACAAAGGCCTTAT
1 AAAATACCACAAAGGCCTTAT
* * * *
47973863 TAAATACCACAGAGG-CTAACA
1 AAAATACCACAAAGGCCTTA-T
*
47973884 AAAATACCACAAAGGCCATAT
1 AAAATACCACAAAGGCCTTAT
*
47973905 CAAAATACCACATAGGC
1 -AAAATACCACAAAGGC
47973922 TAACAGAATG
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
20 3 0.07
21 25 0.56
22 17 0.38
ACGTcount: A:0.47, C:0.25, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAATACCACAAAGGCCTTAT
Found at i:47973894 original size:42 final size:43
Alignment explanation
Indices: 47973836--47973954 Score: 154
Period size: 42 Copynumber: 2.8 Consensus size: 43
47973826 TGCCATAAAA
* * *
47973836 GCTAAC-AAAATGCCACAAAGGCCTTAT-TAAATACCACAGAG
1 GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACAGAG
*
47973877 GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACATAG
1 GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACAGAG
* **
47973920 GCTAAC-AGAATGTCACAAAGGCCATATCAAAATAC
1 GCTAACAAAAATACCACAAAGGCCATATCAAAATAC
47973955 TCTATAAAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
41 6 0.09
42 45 0.65
43 18 0.26
ACGTcount: A:0.47, C:0.24, G:0.13, T:0.16
Consensus pattern (43 bp):
GCTAACAAAAATACCACAAAGGCCATATCAAAATACCACAGAG
Found at i:47979093 original size:13 final size:13
Alignment explanation
Indices: 47979075--47979120 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
47979065 TCTGATACTC
*
47979075 TGTTTTCAAGATA
1 TGTTTTAAAGATA
* * *
47979088 TGTTTTTAGGTTA
1 TGTTTTAAAGATA
47979101 TGTTTTAAAGATA
1 TGTTTTAAAGATA
47979114 TGTTTTA
1 TGTTTTA
47979121 CACGTGCTCC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.26, C:0.02, G:0.17, T:0.54
Consensus pattern (13 bp):
TGTTTTAAAGATA
Found at i:47986519 original size:659 final size:658
Alignment explanation
Indices: 47985263--47986586 Score: 2235
Period size: 659 Copynumber: 2.0 Consensus size: 658
47985253 TTTCTTGATG
* * *
47985263 ACGTCCATCTAAGTCAACCAGAAACTACTCTATATTTGAACTATGTTTCTTATTTTAATAAGGTT
1 ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTATGTTTCTTATATTAATAAGGTT
* * * *
47985328 ATGATTAAGAATTATAGGCTTGGACACCCTAATATTTACTATTTAGACTTTTGTTACCTAATTTA
66 ATGATTAAGAATTATAGGCTTGGAAACCCTAATATTTACTATTTAGACATTTGCTACCTAATCTA
*
47985393 TTTAAGAATAAAAATCCTTCATATTACTGTGAATTTTGTGAATTGGCTAAACATCATCGGTCATT
131 TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
* *
47985458 CTTTCTACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTTAATTCATAGTGATGTTTGGGGA
196 CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTTAATTCATAGTGATGTATGGGGA
*
47985523 CATTCAATAATCTCAAATTTTTCAGGCAAATGTTGGCTTGTCACATTTATTGATGATCATACTCA
261 CATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATCATACTCA
* *
47985588 CATTTATTAAGTGTTTTACTAAAAGATAAGTCTGAAGTTAAATTGTGTTTTAATCGTTTTATGCC
326 CATTTATTAAGTGTTTTACTAAAAGATAAGTCTGAAGTTAAAATGTGTTTCAATCGTTTTATGCC
*
47985653 ACGGAGGAAACACAATTTGGTGTGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAATTTTT
391 ACGGAGGAAACACAATTTGGAGTGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAATTTTT
* *
47985718 TTGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGTATAAATA
456 TGGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGTACAAATA
47985783 CACCACAACAAAATGGAATTGCAGAAAGGAAAAATCGCCATATTTTGGAAGCAACTAGAGCCTTA
521 CACCACAACAAAATGGAATTGCAGAAAGGAAAAATCGCCATATTTTGGAAGCAACTAGAGCCTTA
* *
47985848 ATGTTCACTAGTCATGTACCATATTATCTTTGGGGAGAGGC-TTTTTTAACGGCCACATATATTA
586 ATGTTCACTAGTCAGGTACCATATTATCTTTGGGGAGAGGCTTTTTTTAACAGCCACATATATTA
47985912 TTAATAGA
651 TTAATAGA
* *
47985920 ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTCTGTTTCTTATATTGATAAGGTT
1 ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTATGTTTCTTATATTAATAAGGTT
* * *
47985985 ATGATTAAGAATTATAGGCTTGGAAACCCTAATTTTTAGTATTTAGGCATTTGCTACCTAATCTA
66 ATGATTAAGAATTATAGGCTTGGAAACCCTAATATTTACTATTTAGACATTTGCTACCTAATCTA
47986050 TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
131 TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
47986115 CTTTCCACCTCAAAAATATAAGACTTCCAAACC-TTTTTTTTTAATTCATAGTGATGTATGGGGA
196 CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTTAATTCATAGTGATGTATGGGGA
*
47986179 CATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATTATACTCA
261 CATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATCATACTCA
* * *
47986244 CATTTATTAAGTTTTTTTTTATTAAAAGATAAGTCTG-AGTTAAAAATGTGTTTCAATCTTTTTA
326 CATTTATTAAG---TGTTTTACTAAAAGATAAGTCTGAAGTT-AAAATGTGTTTCAATCGTTTTA
* * *
47986308 TGCTATGGAGGAAACACAATTTGGAGTGAAAATCAAAATATTTTGGAGTGACAATAGAGGGGAAT
387 TGCCACGGAGGAAACACAATTTGGAGTGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAAT
* *
47986373 TTTTTGGTAACCAATTAGGAATTTTCTTAATCAAACATGGAATAGTCCATCAAAGCTCTTGTACA
452 TTTTTGGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGTACA
*
47986438 AATACACCACAACAAAATGGAATTGCAGAAAGGAAAAA-C-CACAGTATTTTGGAAGTAACTAGA
517 AATACACCACAACAAAATGGAATTGCAGAAAGGAAAAATCGC-CA-TATTTTGGAAGCAACTAGA
* *
47986501 GCCTTAATGTTCACTAGTCAGGTACCATGTTATCTTTGGGGAGAGGCTTTTTTTAACAGCTACAT
580 GCCTTAATGTTCACTAGTCAGGTACCATATTATCTTTGGGGAGAGGCTTTTTTTAACAGCCACAT
*
47986566 ATCTTATTAATAGA
645 ATATTATTAATAGA
47986580 ACGTCCA
1 ACGTCCA
47986587 GTAAGATTAT
Statistics
Matches: 624, Mismatches: 36, Indels: 11
0.93 0.05 0.02
Matches are distributed among these distances:
656 104 0.17
657 215 0.34
658 7 0.01
659 263 0.42
660 35 0.06
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (658 bp):
ACGTCCATCTAAGTCAACAAGAAAATACTCTATATTTGAACTATGTTTCTTATATTAATAAGGTT
ATGATTAAGAATTATAGGCTTGGAAACCCTAATATTTACTATTTAGACATTTGCTACCTAATCTA
TTTAAGAATAAAAATCCTTCATATTACTGTGAAATTTGTGAATTGGCTAAACATCATCGGTCATT
CTTTCCACCTCAAAAATATAAGACTTCCAAACCTTTTTTTTTTAATTCATAGTGATGTATGGGGA
CATTCAATAATCTCAAATTTTTCAGGAAAATGTTGGCTTGTCACATTTATTGATGATCATACTCA
CATTTATTAAGTGTTTTACTAAAAGATAAGTCTGAAGTTAAAATGTGTTTCAATCGTTTTATGCC
ACGGAGGAAACACAATTTGGAGTGAAAATCAAAATATTTTGGAGTGACAATAGAGAGGAATTTTT
TGGTAACCAATTAGCAATTTTCTTAACCAAACATGGAATAGTCCATCAAAGCTCTTGTACAAATA
CACCACAACAAAATGGAATTGCAGAAAGGAAAAATCGCCATATTTTGGAAGCAACTAGAGCCTTA
ATGTTCACTAGTCAGGTACCATATTATCTTTGGGGAGAGGCTTTTTTTAACAGCCACATATATTA
TTAATAGA
Found at i:47989556 original size:20 final size:20
Alignment explanation
Indices: 47989531--47989570 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
47989521 GCAATTATAC
47989531 CAAATCAATTCATATTTCAT
1 CAAATCAATTCATATTTCAT
*
47989551 CAAATCATTTCATATTTCAT
1 CAAATCAATTCATATTTCAT
47989571 TTCAATCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
CAAATCAATTCATATTTCAT
Found at i:47989891 original size:42 final size:42
Alignment explanation
Indices: 47989804--47989994 Score: 127
Period size: 42 Copynumber: 4.5 Consensus size: 42
47989794 AATTATGCCA
* ** * * * *
47989804 GCACATAAGTGCATCATCGGACGTATCAAAAAAAATATA-TCG
1 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACT-G
47989846 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
1 GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
** * ** **
47989888 GCACGCGAAGTGCATCATTGGATAAACTGAAG-TAATTATGTTG
1 GCAC-ATAAGTGCATCATTGGATATACCAAAGAT-ATTATACTG
* *** *
47989931 GCACGTAAGTGCATCATCAAATATACCGAAA-ATATTATACTA
1 GCACATAAGTGCATCATTGGATATACC-AAAGATATTATACTG
* *
47989973 GCACACATAGTGCATCAATGGA
1 GCACATA-AGTGCATCATTGGA
47989995 CAAACTGAAG
Statistics
Matches: 112, Mismatches: 31, Indels: 11
0.73 0.20 0.07
Matches are distributed among these distances:
42 65 0.58
43 47 0.42
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (42 bp):
GCACATAAGTGCATCATTGGATATACCAAAGATATTATACTG
Found at i:47989905 original size:43 final size:42
Alignment explanation
Indices: 47989852--47989994 Score: 128
Period size: 43 Copynumber: 3.4 Consensus size: 42
47989842 ATCGGCACAT
47989852 AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
1 AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
* ** ** *
47989894 GAAGTGCATCATTGGATAAACTGAAG-TAATTATGTTGGCACGT
1 -AAGTGCATCATTGGATATACCAAAGAT-ATTATACTGGCACGC
*** * *
47989937 AAGTGCATCATCAAATATACCGAAA-ATATTATACTAGCACAC
1 AAGTGCATCATTGGATATACC-AAAGATATTATACTGGCACGC
*
47989979 ATAGTGCATCAATGGA
1 A-AGTGCATCATTGGA
47989995 CAAACTGAAG
Statistics
Matches: 75, Mismatches: 21, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
42 28 0.37
43 47 0.63
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.27
Consensus pattern (42 bp):
AAGTGCATCATTGGATATACCAAAGATATTATACTGGCACGC
Found at i:47989940 original size:85 final size:85
Alignment explanation
Indices: 47989845--47990006 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 85
47989835 AAAATATATC
*** * * *
47989845 GGCACATAAGTGCATCATTGGATATACC-AAAGATATTATACTGGCACGCGA-AGTGCATCATTG
1 GGCACATAAGTGCATCATCAAATATACCGAAA-ATATTATACTAGCACAC-ATAGTGCATCAATG
*
47989908 GATAAACTGAAGTAATTATGTT
64 GACAAACTGAAGTAATTATGTT
*
47989930 GGCACGTAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACATAGTGCATCAATGGA
1 GGCACATAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACATAGTGCATCAATGGA
47989995 CAAACTGAAGTA
66 CAAACTGAAGTA
47990007 TAGCTTATAC
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
84 1 0.01
85 63 0.94
86 3 0.04
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (85 bp):
GGCACATAAGTGCATCATCAAATATACCGAAAATATTATACTAGCACACATAGTGCATCAATGGA
CAAACTGAAGTAATTATGTT
Done.