Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 83 of 218
Found at i:24516424 original size:44 final size:44
Alignment explanation
Indices: 24516335--24516883 Score: 420
Period size: 44 Copynumber: 12.5 Consensus size: 44
24516325 GCATATCAGT
* * * * * * *
24516335 GAAGATAGCAGGTCCTGTCTTCATATATTAGTAG-AAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * *
24516379 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* *** * * * *
24516423 GAAAAAAAAAGATCTTATC-T--T-TATTAG-CGTGAAGTAGATT
1 G-AAGATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * * *
24516463 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * *
24516507 GAAGATGCAGATCTTGTCTTCCCATATTAGT-GACGGAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTCG-CGAAGTAGATC
* * * *
24516551 GAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * *
24516595 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * *
24516640 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * * * * *
24516684 GAAGAAAGTAGATCTTGTCTTCATGTATTGG-CGTGGAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * * *
24516728 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATC
1 GAAGAT-GCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * *
24516772 GAAGATGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATC
1 GAAGATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
* * * * * **
24516816 GAAGAAAGTAGATCTTGTTTTCATGTATTGG-CATGAAGTAGATC
1 GAAG-ATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
*
24516860 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGAT-GCAGATCTTGTCTTCCT
24516884 GCACCGACAG
Statistics
Matches: 390, Mismatches: 95, Indels: 40
0.74 0.18 0.08
Matches are distributed among these distances:
39 3 0.01
40 17 0.04
41 6 0.02
42 1 0.00
43 68 0.17
44 204 0.52
45 91 0.23
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (44 bp):
GAAGATGCAGATCTTGTCTTCCTATATTGGTCGCGAAGTAGATC
Found at i:24516841 original size:265 final size:260
Alignment explanation
Indices: 24516335--24516883 Score: 846
Period size: 265 Copynumber: 2.1 Consensus size: 260
24516325 GCATATCAGT
* * *
24516335 GAAGATAGCAGGTCCTGTCTTCATATATTAGTAGAAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGATCTTGTCTTCCTATATTAGTAGAAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * *
24516400 CCATATTGGTGGCGGAGTAGATCGAAAAAAAAAGATCTTATCTTTATTAGCGTGAAGTAGATTGA
66 CCATACTGGTGGCGAAGTAGATCGAAAAAAAAAGATCTTATCTTTATTAGCGTGAAGTAGATCGA
24516465 AGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
131 AGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
* * *
24516530 ATATTAGTGACGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATC
196 ATACTAGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
* * *
24516595 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGATCTTGTCTTCCTATATTAGTAG-AAAGTGGATCGAAGATGCAGATCTTGTCTT
* ** * * *
24516660 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGGAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAAAAAAAAGATCTTATC-T--T-TATTAGCGTGAAGTAG
24516725 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC
126 ATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTC
* * * *
24516790 TTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTTTTCATGTATTGGCATGAAGT
191 TTCCCATACTAGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGT
24516855 AGATC
256 AGATC
*
24516860 GAAGATAGCAGATCTTGCCTTCCT
1 GAAGATAGCAGATCTTGTCTTCCT
24516884 GCACCGACAG
Statistics
Matches: 260, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
260 29 0.11
261 66 0.25
262 1 0.00
264 1 0.00
265 163 0.63
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.30
Consensus pattern (260 bp):
GAAGATAGCAGATCTTGTCTTCCTATATTAGTAGAAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAAAAAAAAGATCTTATCTTTATTAGCGTGAAGTAGATCGA
AGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTCCC
ATACTAGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCATGAAGTAGATC
Found at i:24516883 original size:132 final size:132
Alignment explanation
Indices: 24516335--24516870 Score: 837
Period size: 132 Copynumber: 4.1 Consensus size: 132
24516325 GCATATCAGT
* * *
24516335 GAAGATAGCAGGTCCTGTCTTCATATATTAGTAGAAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * ** * *
24516400 CCATATTGGTGGCGGAGTAGATCGAAAAAAAAAGATCTTATC-T--T-TATTAGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
*
24516461 TT
131 TC
24516463 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* * * * *
24516528 CCATATTAGTGACGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
24516593 TC
131 TC
* * *
24516595 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGCAGATCTTGTCTT
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAG-GAAGTGGATCGAAGATGCAGATCTTGTCTT
*
24516660 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGGAGTAG
65 CCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAG
24516725 ATC
130 ATC
24516728 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
1 GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
* *
24516793 CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTTTTCATGTATTGGCATGAAGTAGA
66 CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
24516858 TC
131 TC
24516860 GAAGATAGCAG
1 GAAGATAGCAG
24516871 ATCTTGCCTT
Statistics
Matches: 377, Mismatches: 26, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
128 98 0.26
129 1 0.00
131 1 0.00
132 154 0.41
133 123 0.33
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.30
Consensus pattern (132 bp):
GAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGATCTTGTCTTC
CCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATTGGCGTGAAGTAGA
TC
Found at i:24516968 original size:88 final size:88
Alignment explanation
Indices: 24516864--24517170 Score: 479
Period size: 88 Copynumber: 3.5 Consensus size: 88
24516854 TAGATCGAAG
* * *
24516864 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACACTAGCCTTGCCTCCGTT
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
24516929 GGTTGCAGCGGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* * ** *
24516952 ATAGCAGATCTTGCCTTCCTGCATCGATAGCGAAGCAGATCGAAGACACTAGCCTTATCTCCCTG
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
*
24517017 GGTTGCAGCAGAGCAGGCTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
24517040 ATAGCAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
* *
24517105 GGTTGCAGCGGAGTAGGTTAAAA
66 GGTTGCAGCGGAGCAGGCTAAAA
* *
24517128 ATAGCAGATCTTGCCTTCCTGCACCGACAGCAAAACAGATCGA
1 ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
24517171 TGACCTCAGC
Statistics
Matches: 198, Mismatches: 21, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 198 1.00
ACGTcount: A:0.28, C:0.28, G:0.24, T:0.20
Consensus pattern (88 bp):
ATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTA
GGTTGCAGCGGAGCAGGCTAAAA
Found at i:24516994 original size:265 final size:264
Alignment explanation
Indices: 24516453--24516997 Score: 641
Period size: 265 Copynumber: 2.1 Consensus size: 264
24516443 TTATTAGCGT
*
24516453 GAAGTAGATTGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* *
24516518 TCTTGTCTTCCCATATTAGTGACGGAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
66 TCTTGTCTTCCCATACTAGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
* * * ** ** ** * **
24516583 GTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTGGTAGCGAAGTGGATCGAAGATGC
131 ATGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCAAAGACAC
* * * * * * * * *
24516648 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTCTTCATGTATT
196 AGACCTTGTCCTCCCATA-TGGTGGCGAAGCAGAGCGAAAAAAGCAGATCTTGCCTTCATGCATC
* *
24516713 GGCGT
260 GGAGC
*
24516718 GGAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
1 GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
* * * *
24516783 TCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGTAGATCTTGTTTTCATGTATTGGC
66 TCTTGTCTTCCCATACTAGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
* *
24516848 ATGAAGTAGATCGAAGATAGCAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCAAAGACAC
131 ATGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCAAAGACAC
* * * *
24516913 TAG-CCTTG-CCT-CCGT-TGGTTGCAGCGGAGCAG-GCTAAAAATAGCAGATCTTGCCTTCCTG
196 -AGACCTTGTCCTCCCATATGG-TG--GCGAAGCAGAGCGAAAAA-AGCAGATCTTGCCTTCATG
*
24516973 CATCGATAGC
256 CATCG-GAGC
*
24516983 GAAGCAGATCGAAGA
1 GAAGTAGATCGAAGA
24516998 CACTAGCCTT
Statistics
Matches: 234, Mismatches: 40, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
261 3 0.01
262 2 0.01
263 8 0.03
264 28 0.12
265 191 0.82
266 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (264 bp):
GAAGTAGATCGAAGATAGCAGGTCCTGTCTTCCTATATTGGTAGGAAGTGGATCGAAGATGCAGA
TCTTGTCTTCCCATACTAGTGACGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGC
ATGAAGTAGATCGAAGATAACAGATCTTGCCTTCCTACACCGACAGCGAAGCAGATCAAAGACAC
AGACCTTGTCCTCCCATATGGTGGCGAAGCAGAGCGAAAAAAGCAGATCTTGCCTTCATGCATCG
GAGC
Found at i:24517230 original size:44 final size:43
Alignment explanation
Indices: 24517182--24517346 Score: 213
Period size: 44 Copynumber: 3.7 Consensus size: 43
24517172 GACCTCAGCT
* *
24517182 CTATCTTCCTGGCCAACAGTGGAATAGGTTAAAGATTGTGAATC
1 CTATCTCCCTGG-CAGCAGTGGAATAGGTTAAAGATTGTGAATC
* * *
24517226 CTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
1 CTATCTCCCTGG-CAGCAGTGGAATAGGTTAAAGATTGTGAATC
* *
24517270 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAATC
1 CTATCTCCCT-GGCAGCAGTGGAATAGGTTAAAGATTGTGAATC
* *
24517314 CTATCTCCCTAAGCAGCAGTGGAGTAGGTTAAA
1 CTATCTCCCT-GGCAGCAGTGGAATAGGTTAAA
24517347 AATAGCAGAT
Statistics
Matches: 106, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
44 104 0.98
45 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
CTATCTCCCTGGCAGCAGTGGAATAGGTTAAAGATTGTGAATC
Found at i:24517292 original size:88 final size:88
Alignment explanation
Indices: 24517181--24517343 Score: 247
Period size: 88 Copynumber: 1.9 Consensus size: 88
24517171 TGACCTCAGC
* * *
24517181 TCTATCTTCCTGGCCAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCT-GGTCAGCAG
1 TCTATCTCCCTGGCCAACAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTAAG-CAGCAG
24517245 TGGAATAGGTTGAAGATTGAGAAT
65 TGGAATAGGTTGAAGATTGAGAAT
* * *
24517269 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTGAATCCTATCTCCCTAAGCAGCAGT
1 TCTATCTCCCTGGCCAACAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTAAGCAGCAGT
*
24517334 GGAGTAGGTT
66 GGAATAGGTT
24517344 AAAAATAGCA
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
88 66 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (88 bp):
TCTATCTCCCTGGCCAACAGTGGAATAGATTAAAGATTGTGAATCCTATCTCCCTAAGCAGCAGT
GGAATAGGTTGAAGATTGAGAAT
Found at i:24517476 original size:88 final size:88
Alignment explanation
Indices: 24517317--24517479 Score: 254
Period size: 88 Copynumber: 1.9 Consensus size: 88
24517307 GTGAATCCTA
* *
24517317 TCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCGGCAGCGAA
1 TCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCAGCAACGAA
*
24517382 GTAGATCGAAAACTCCAGCCTTG
66 GCAGATCGAAAACTCCAGCCTTG
* * * * *
24517405 TCTCCCTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGGTCTTGCCTTCCTGTACTAGCAATGAA
1 TCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCAGCAACGAA
24517470 GCAGATCGAA
66 GCAGATCGAA
24517480 GACATCAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 67 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.23
Consensus pattern (88 bp):
TCTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGCAGATCTTGCCTTCCTATACCAGCAACGAA
GCAGATCGAAAACTCCAGCCTTG
Found at i:24518068 original size:44 final size:44
Alignment explanation
Indices: 24517999--24518299 Score: 239
Period size: 44 Copynumber: 6.9 Consensus size: 44
24517989 TGCAATGACG
*
24517999 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * **
24518043 AATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAA-ACTTT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * * *
24518086 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CG-CATTT
1 -AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-AT
* * * *
24518127 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAA-T
* *
24518170 AAGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGC-A-
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A-GCCAAT
*
24518216 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * * *
24518260 AATCCTATCTCCCTGAAGTTGCAATGGAGTAGATTGAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGC
24518300 ACTAGTTCCT
Statistics
Matches: 207, Mismatches: 31, Indels: 38
0.75 0.11 0.14
Matches are distributed among these distances:
40 22 0.11
41 9 0.04
42 4 0.02
43 16 0.08
44 121 0.58
45 26 0.13
46 6 0.03
47 1 0.00
48 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:24520065 original size:25 final size:21
Alignment explanation
Indices: 24520002--24520057 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 21
24519992 CTCTCTTTTC
24520002 TTTATTTATTTATTTTTATTT
1 TTTATTTATTTATTTTTATTT
* *
24520023 TTTGTTGATTTATGTTTTCATATT
1 TTTATTTATTTAT-TTTT-AT-TT
24520047 TTTATTTATTT
1 TTTATTTATTT
24520058 GATATTTTGC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 11 0.39
22 4 0.14
23 2 0.07
24 11 0.39
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTATTTATTTATTTTTATTT
Found at i:24520154 original size:19 final size:20
Alignment explanation
Indices: 24520113--24520154 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24520103 ATTTCTATGC
* *
24520113 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
24520133 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
24520152 CAT
1 CAT
24520155 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:24520650 original size:20 final size:20
Alignment explanation
Indices: 24520625--24520674 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
24520615 TGGCTTAAAA
24520625 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
24520645 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
24520662 GTGGTAGTGGATT
1 TTGGTAGTGGATT
24520675 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:24525279 original size:20 final size:20
Alignment explanation
Indices: 24525254--24525303 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
24525244 TGGCTTAAAA
24525254 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
24525274 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
24525291 GTGGTAGTGGATT
1 TTGGTAGTGGATT
24525304 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:24531131 original size:43 final size:43
Alignment explanation
Indices: 24531078--24531284 Score: 283
Period size: 43 Copynumber: 4.9 Consensus size: 43
24531068 TTTTAGAAAT
* * * *
24531078 AAACACCGCTATAGATCATGACTTTTAGCGGCGCTTCTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
24531121 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT-ACAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
24531163 -AATGCCACTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
**
24531205 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
24531248 AAACGCCGCTATAGCTCAGGACCTTTAGCGACGCTTT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTT
24531285 GTTTACAAAC
Statistics
Matches: 146, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 34 0.23
42 6 0.04
43 106 0.73
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:24531205 original size:84 final size:86
Alignment explanation
Indices: 24531086--24531284 Score: 294
Period size: 84 Copynumber: 2.3 Consensus size: 86
24531076 ATAAACACCG
* * * *
24531086 CTATAGATCATGACTTTTAGCGGCGCTTCTCCCACAAACGCCGCTATAGATCAGGACCTTTAGCG
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
*
24531151 GCGC-TTTTACAC-AATGCCA
66 GCGCTTTTTACACAAACGCCA
24531170 CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
1 CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
* *
24531235 GCGCTTTTTTCACAAACGCCG
66 GCGCTTTTTACACAAACGCCA
* * *
24531256 CTATAGCTCAGGACCTTTAGCGACGCTTT
1 CTATAGATCAAGACCTTTAGCGGCGCTTT
24531285 GTTTACAAAC
Statistics
Matches: 103, Mismatches: 10, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
84 65 0.63
85 7 0.07
86 31 0.30
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.27
Consensus pattern (86 bp):
CTATAGATCAAGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAAGACCTTTAGCG
GCGCTTTTTACACAAACGCCA
Found at i:24531355 original size:25 final size:25
Alignment explanation
Indices: 24531326--24531379 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
24531316 TTAAAAAACA
*
24531326 TTTAAAAATATTAA-ATATTAATTTT
1 TTTAAAAATA-TAATAAATTAATTTT
**
24531351 TTTAATCATATAATAAATTAATTTT
1 TTTAAAAATATAATAAATTAATTTT
24531376 TTTA
1 TTTA
24531380 GTCAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTAAAAATATAATAAATTAATTTT
Found at i:24543765 original size:16 final size:17
Alignment explanation
Indices: 24543744--24543775 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
24543734 TTTCCATTAA
24543744 ATATATATATA-AGCAT
1 ATATATATATAGAGCAT
24543760 ATATATATATAGAGCA
1 ATATATATATAGAGCA
24543776 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.34
Consensus pattern (17 bp):
ATATATATATAGAGCAT
Found at i:24549523 original size:31 final size:32
Alignment explanation
Indices: 24549488--24549548 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
24549478 AGAAAAAATC
*
24549488 AAAATCAAAATCAAAATAAAAAAAG-GAAAGA
1 AAAATCAAAATCAAAAGAAAAAAAGAGAAAGA
* *
24549519 AAAATCAGAGTCAAAAGAAAAAAAGAGAAA
1 AAAATCAAAATCAAAAGAAAAAAAGAGAAA
24549549 TCCATCAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.72, C:0.07, G:0.13, T:0.08
Consensus pattern (32 bp):
AAAATCAAAATCAAAAGAAAAAAAGAGAAAGA
Found at i:24551378 original size:87 final size:87
Alignment explanation
Indices: 24551196--24551787 Score: 882
Period size: 87 Copynumber: 6.8 Consensus size: 87
24551186 ATATCAGTGA
24551196 AGATCGAAAACGAAA-CCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGA-AGCAGATCTTG
1 AGATCGAAAAC-AAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTG
* *
24551259 TCTTCCTACATTAACAGCGAAGC
65 CCTTCCTGCATTAACAGCGAAGC
*
24551282 AGATCGAAAACAAAGCCTTGCCTCCATCAGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* *
24551347 ATTCCTACATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
24551369 AGATCGAAAACAAAACCTTACCTCCATCAGTTGCAGTGGAGCTAGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
24551434 CTTCCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
24551456 ATATCGAAAATAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCATATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* **
24551521 CTTCCTGCGTTAACAGCGAATT
66 CTTCCTGCATTAACAGCGAAGC
* * * * *
24551543 AGATCGAAAACGAAGCCTTGCCTCCATCAGTTGTAGTGGAGCTGGTTAAAGATAACAAATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
24551608 CTTTCTGCATTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * *
24551630 AGATCGAAAACAAAACCTTGCCTCCATCGGTTGCAGTGGAACTGGTTAAAGATAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
24551695 CTTCCTGCGTTAACAGCGAAGC
66 CTTCCTGCATTAACAGCGAAGC
* * * *
24551717 AGATCGAAAACAAAGTCTTGCCTCTATCGGTTACAATGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
24551782 ATTCCT
66 CTTCCT
24551788 AAGCACTAGC
Statistics
Matches: 459, Mismatches: 45, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
85 3 0.01
86 47 0.10
87 409 0.89
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGCAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGCATTAACAGCGAAGC
Found at i:24551738 original size:43 final size:43
Alignment explanation
Indices: 24551596--24551739 Score: 102
Period size: 43 Copynumber: 3.3 Consensus size: 43
24551586 GGTTAAAGAT
* *
24551596 AACAAA-TCTTGCCTTTCTGCATTAACAGCGAAGCAGATCGAA
1 AACAAAGTCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA
** * * * * *
24551638 AACAAAACCTTGCC-TCCAT-CGGTT-GCAGTGGAA-CTGGT-TAA
1 AACAAAGTCTTGCCTTCC-TGC-GTTAACAG-CGAAGCAGATCGAA
*
24551679 AGATAACAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA
1 A-ACAA-AG-TCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA
24551725 AACAAAGTCTTGCCT
1 AACAAAGTCTTGCCT
24551740 CTATCGGTTA
Statistics
Matches: 73, Mismatches: 17, Indels: 23
0.65 0.15 0.20
Matches are distributed among these distances:
41 3 0.04
42 18 0.25
43 21 0.29
44 15 0.21
45 13 0.18
46 3 0.04
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (43 bp):
AACAAAGTCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA
Found at i:24552045 original size:44 final size:44
Alignment explanation
Indices: 24551907--24552069 Score: 120
Period size: 44 Copynumber: 3.7 Consensus size: 44
24551897 AAATTACAAG
* * *
24551907 TCTTATCTCCCT-AAGTTGTAGCGGGGCAGACTGAAGAAG-C-A-AA
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGA-T-TA-AAGTCAATAA
* * *
24551950 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGATTAAAGTCGATAA
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTAAAGTCAATAA
* * * *
24551994 TCCTATCTCCCTAAAGTTGTAGTGGAGCGGATTAAAGT-AATAGA
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTAAAGTCAATA-A
* * * **
24552038 TCTTATCTCTCTGAACTTGCAGTAGAGCAGAT
1 TCTTATCTCCCTAAAGTTGCAGCGGAGCAGAT
24552070 CGCATCAAAT
Statistics
Matches: 97, Mismatches: 18, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 17 0.18
44 75 0.77
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGCGGAGCAGATTAAAGTCAATAA
Found at i:24556283 original size:15 final size:15
Alignment explanation
Indices: 24556259--24556295 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
24556249 AACACTCACA
*
24556259 AAAATTCCAAGAATG
1 AAAATCCCAAGAATG
24556274 AAAATCCCAAGAATG
1 AAAATCCCAAGAATG
24556289 AAAATCC
1 AAAATCC
24556296 AAGTTCATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.19, G:0.11, T:0.16
Consensus pattern (15 bp):
AAAATCCCAAGAATG
Found at i:24557319 original size:21 final size:21
Alignment explanation
Indices: 24557285--24557325 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
24557275 AACCCTAAAT
*
24557285 CCCTAACTCTTAACCTCTAAC
1 CCCTAACTCTTAACATCTAAC
24557306 CCCTAACT-TCTAACATCTAA
1 CCCTAACTCT-TAACATCTAA
24557326 ACCTTAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (21 bp):
CCCTAACTCTTAACATCTAAC
Found at i:24557377 original size:15 final size:15
Alignment explanation
Indices: 24557344--24557381 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
24557334 TCCCAACCCT
24557344 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
24557358 T-AATCCATAATCCC
1 TAAATCCATAATCCC
24557372 TAAATCCATA
1 TAAATCCATA
24557382 TATAATCCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:24557583 original size:25 final size:24
Alignment explanation
Indices: 24557537--24557592 Score: 67
Period size: 25 Copynumber: 2.3 Consensus size: 24
24557527 TATATGAAAT
*
24557537 TATTTAATATATAAATAAAAAAACA
1 TATTTAAAATATAAATAAAAAAA-A
**
24557562 TATTTAAAATATAAATTTAAAAAA
1 TATTTAAAATATAAATAAAAAAAA
*
24557586 TAATTAA
1 TATTTAA
24557593 TCTAAGCCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
24 7 0.26
25 20 0.74
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TATTTAAAATATAAATAAAAAAAA
Found at i:24557705 original size:28 final size:28
Alignment explanation
Indices: 24557673--24557726 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
24557663 CCTCACCCTC
* * *
24557673 ACCCTTAACCCCTAAACCTTAAATCCCA
1 ACCCTTAAACCATAAACCCTAAATCCCA
*
24557701 ACCCTTAAACCATAATCCCTAAATCC
1 ACCCTTAAACCATAAACCCTAAATCC
24557727 ATACTTCGTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.37, C:0.41, G:0.00, T:0.22
Consensus pattern (28 bp):
ACCCTTAAACCATAAACCCTAAATCCCA
Found at i:24557709 original size:21 final size:20
Alignment explanation
Indices: 24557679--24557719 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
24557669 CCTCACCCTT
*
24557679 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCAT-AATCCC
*
24557700 AACCCTTAAACCATAATCCC
1 AACCCCTAAACCATAATCCC
24557720 TAAATCCATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (20 bp):
AACCCCTAAACCATAATCCC
Found at i:24558143 original size:41 final size:41
Alignment explanation
Indices: 24558086--24558239 Score: 211
Period size: 41 Copynumber: 3.8 Consensus size: 41
24558076 TAAAATGTTT
* * *
24558086 TTAGCGACACTTTTTCAAAAACGCCGCTAAAGC-CAGCAGCA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACCG-AGCA
* *
24558127 TTAGCGGCGCTTTTTCAGAAACGCCGCTAAAACACCGAGCA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACCGAGCA
*
24558168 TTAGCGACGCTTTTTGAAAAACGCCGCTAAAACACCGAGCA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACCGAGCA
* **
24558209 TTAGCGGCGCTTTTTTTAAAACGCCGCTAAA
1 TTAGCGACGCTTTTTCAAAAACGCCGCTAAA
24558240 GCCCCGAAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
41 99 0.98
42 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (41 bp):
TTAGCGACGCTTTTTCAAAAACGCCGCTAAAACACCGAGCA
Found at i:24558348 original size:38 final size:40
Alignment explanation
Indices: 24558300--24558376 Score: 104
Period size: 38 Copynumber: 2.0 Consensus size: 40
24558290 TTTTTTGGAA
* * *
24558300 AAAAATGCCGCTAATTCTC-A-TTTTAGCGGCATTTTTTC
1 AAAAACGCCGCTAATGCTCAATTTTTACCGGCATTTTTTC
*
24558338 AAAAACGCCGCTAATGCTCAATTTTTACCGGCGTTTTTT
1 AAAAACGCCGCTAATGCTCAATTTTTACCGGCATTTTTT
24558377 GTCCAAATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 17 0.52
39 1 0.03
40 15 0.45
ACGTcount: A:0.26, C:0.22, G:0.14, T:0.38
Consensus pattern (40 bp):
AAAAACGCCGCTAATGCTCAATTTTTACCGGCATTTTTTC
Found at i:24561263 original size:13 final size:13
Alignment explanation
Indices: 24561245--24561271 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
24561235 GTAAAAACGC
24561245 TCTTTTCTTTTTT
1 TCTTTTCTTTTTT
24561258 TCTTTTCTTTTTT
1 TCTTTTCTTTTTT
24561271 T
1 T
24561272 ACAAGAACAA
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:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TCTTTTCTTTTTT
Found at i:24562533 original size:40 final size:40
Alignment explanation
Indices: 24562477--24562574 Score: 119
Period size: 40 Copynumber: 2.5 Consensus size: 40
24562467 GGCGTTTGGA
*
24562477 TAAAAAACGCCGCTAAAAATCA-AGCATTAGCGGCGC-TTC
1 TAAAAAACGCCACTAAAAAT-AGAGCATTAGCGGCGCTTTC
* * *
24562516 TAATAAAACGCCACTAAAGATAGAGTATTAGCGGCGCTTTT
1 TAA-AAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTC
*
24562557 TAAAAAATGCCACTAAAA
1 TAAAAAACGCCACTAAAA
24562575 CGCCGCAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
39 4 0.08
40 41 0.82
41 5 0.10
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.21
Consensus pattern (40 bp):
TAAAAAACGCCACTAAAAATAGAGCATTAGCGGCGCTTTC
Found at i:24562684 original size:41 final size:41
Alignment explanation
Indices: 24562622--24562952 Score: 414
Period size: 41 Copynumber: 8.0 Consensus size: 41
24562612 GAGTTTTTGG
* * *
24562622 GGGCATTAGCGACGTTTTTGAAGAAGCGCCGCTAAAGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* *
24562663 GGTCTTTAGCGGCATTTTTGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
*
24562704 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
24562745 GGGCTTTAGCGGCGTTTCTGAAAAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
** * *
24562786 GTTCTTTAGCGGCATTTTTAAAGAAGCGCCGCTAATGCTCTA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-A
* *
24562828 --TCTTTAGCGGCGTTTATGAAGAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
* * * *
24562867 GGGCTTTAGCGGCATTTTTTGGAGAAGCGCCGCTAATGTTTA
1 GGGCTTTAGCGGC-GTTTTTGAAGAAGCGCCGCTAATGCTCA
* * *
24562909 GGGATTTAGCGGCGTTTTTTTGAAAAAGTGCCGCTAATGCTCA
1 GGGCTTTAGCGGCG--TTTTTGAAGAAGCGCCGCTAATGCTCA
24562952 G
1 G
24562953 ATTTATCATA
Statistics
Matches: 251, Mismatches: 33, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
39 1 0.00
40 35 0.14
41 156 0.62
42 36 0.14
43 23 0.09
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCA
Found at i:24563927 original size:21 final size:21
Alignment explanation
Indices: 24563903--24563958 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
24563893 ACAGCTATAA
24563903 GGGTTAGGGTTTAAGGGTTAG
1 GGGTTAGGGTTTAAGGGTTAG
* *
24563924 GGGTTAGGGGTTAGGGGTTAG
1 GGGTTAGGGTTTAAGGGTTAG
*
24563945 GGGTTTATGGTTTA
1 GGG-TTAGGGTTTA
24563959 TGTTTTACGA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (21 bp):
GGGTTAGGGTTTAAGGGTTAG
Found at i:24563929 original size:7 final size:7
Alignment explanation
Indices: 24563903--24563949 Score: 76
Period size: 7 Copynumber: 6.7 Consensus size: 7
24563893 ACAGCTATAA
24563903 GGGTTAG
1 GGGTTAG
* *
24563910 GGTTTAA
1 GGGTTAG
24563917 GGGTTAG
1 GGGTTAG
24563924 GGGTTAG
1 GGGTTAG
24563931 GGGTTAG
1 GGGTTAG
24563938 GGGTTAG
1 GGGTTAG
24563945 GGGTT
1 GGGTT
24563950 TATGGTTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.15, C:0.00, G:0.53, T:0.32
Consensus pattern (7 bp):
GGGTTAG
Found at i:24567091 original size:23 final size:23
Alignment explanation
Indices: 24567057--24567620 Score: 426
Period size: 23 Copynumber: 24.7 Consensus size: 23
24567047 GAATGTTGTT
24567057 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
24567080 AATTTAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
24567103 AATTGAAGTGTTTAAGTGTTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
24567126 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
24567149 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
24567172 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
24567194 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
24567217 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * *
24567240 AATTTAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
*
24567263 AATTGAAGTTTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
24567286 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* *
24567309 AATTGAAGTGCTT-AGTTGCTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* * *
24567332 AATTG-AGATGTTTTA-TCTCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
24567354 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
24567377 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
*
24567400 AATTTAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
* * * *
24567423 AATTTAAGTGCTT-AGTTGTTGGA
1 AATTGAAGTGTTTAAG-TGCTGCA
* *
24567446 AATTG-AGATGTTTTA-TCGCTG-T
1 AATTGAAG-TGTTTAAGT-GCTGCA
* * * * **
24567468 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAGTGCTGCA
24567491 AATTGATA-TGTTTAAGTGCTGCA
1 AATTGA-AGTGTTTAAGTGCTGCA
* * * *
24567514 AATTTAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAGTGCTGCA
24567537 AATTGAAGTGTTTAAGTGCTGCA
1 AATTGAAGTGTTTAAGTGCTGCA
*
24567560 AATTGAAGTGTTT-AGTTGCTGAA
1 AATTGAAGTGTTTAAG-TGCTGCA
*
24567583 AATTG-AGATGTTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAGTGCTGCA
24567606 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
24567621 ATTTAACTTG
Statistics
Matches: 433, Mismatches: 76, Indels: 64
0.76 0.13 0.11
Matches are distributed among these distances:
22 61 0.14
23 365 0.84
24 7 0.02
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.40
Consensus pattern (23 bp):
AATTGAAGTGTTTAAGTGCTGCA
Found at i:24567312 original size:160 final size:160
Alignment explanation
Indices: 24567048--24567620 Score: 748
Period size: 160 Copynumber: 3.6 Consensus size: 160
24567038 AGCAACATCG
*
24567048 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
*
24567113 TTTAAGTGTTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
24567178 GATGTTTTATCGCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
*
24567208 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTT
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
24567273 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
66 TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
*
24567338 GATGTTTTATCTCTGTAATTGAGGTGTATA
131 GATGTTTTATCGCTGTAATTGAGGTGTATA
* * *
24567368 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAATTTAAGTG
1 AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
* * * * * * ** * **
24567433 CTT-AGTTGTTGGAAATTG-AGATGTTTTA-TCGCTG-TAATTGAGGTG-TATAAATGTTGTTAA
66 TTTAAG-TGCTGCAAATTGAAG-TGTTTAAGT-GCTGCAAATTGAAGTGCT-TAGTTGCTGGAAA
* * * * * *
24567493 TTGATATGTTTAAGT-GCTGCAAATTTAAGTGTTTA
127 TTGAGATGTTTTA-TCGCTG-TAATTGAGGTGTATA
* * ** *
24567528 AATGTTGTAAATTGA-AGTGTTTAAGTGCTGCAAATTGAAGTGTTTAGTTGCTGAAAATTG-AGA
1 AATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAG-
*
24567591 TGTTAAAGTGCTGCAAATTGAAGTGTTTAA
64 TGTTTAAGTGCTGCAAATTGAAGTGTTTAA
24567621 ATTTAACTTG
Statistics
Matches: 366, Mismatches: 37, Indels: 20
0.87 0.09 0.05
Matches are distributed among these distances:
158 1 0.00
159 39 0.11
160 322 0.88
161 4 0.01
ACGTcount: A:0.30, C:0.06, G:0.24, T:0.41
Consensus pattern (160 bp):
AATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGCTGTAAATTGAAGTG
TTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTTAGTTGCTGGAAATTGA
GATGTTTTATCGCTGTAATTGAGGTGTATA
Found at i:24567572 original size:114 final size:114
Alignment explanation
Indices: 24567247--24567565 Score: 489
Period size: 114 Copynumber: 2.8 Consensus size: 114
24567237 GCAAATTTAA
* * * * *
24567247 GTGTTTAAATGCTGTAAATTGA-AGTTTTTAAGTGCTGCAAATTGAAGTGTTTAAGTGCTGCAAA
1 GTGTATAAATGTTGTTAATTGATA-TGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAA
*
24567311 TTGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCTCTGTAATTGAG
65 TTGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAG
24567361 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAAT
1 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAAT
* *
24567426 TTAAGTGCTTAGTTGTTGGAAATTGAGATGTTTTATCGCTGTAATTGAG
66 TGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAG
* * *
24567475 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAAT
1 GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAAT
* *
24567540 TGAAGTGTTTAAG-TGCTGCAAATTGA
66 TGAAGTGCTT-AGTTGCTGGAAATTGA
24567566 AGTGTTTAGT
Statistics
Matches: 188, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
114 185 0.98
115 3 0.02
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (114 bp):
GTGTATAAATGTTGTTAATTGATATGTTTAAGTGCTGCAAATTTAAGTGTTTAAGTGCTGCAAAT
TGAAGTGCTTAGTTGCTGGAAATTGAGATGTTTTATCGCTGTAATTGAG
Found at i:24568291 original size:43 final size:43
Alignment explanation
Indices: 24568225--24568473 Score: 365
Period size: 43 Copynumber: 5.8 Consensus size: 43
24568215 TTTCGTGACA
* * *
24568225 TTTAGTGGCGTTTTTGGGGAAAGCGCCGCTAAAGGTCCTAGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
* * *
24568268 TTTAGCGGCGTTTGTGGGAAAAGCTCCGCTAAATGTCCTAATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
* *
24568311 TTTAGCGGCGTTTGTGGGAAAAGCGACGCTAAAGGTCCTTGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
* * *
24568354 TTTAGCGGCGTTTGTGTGTAAAGCGCCACTAAAGGTCCT-GATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAG-TC
* *
24568397 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
24568440 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAG
24568474 TTAGCGACGT
Statistics
Matches: 186, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
42 1 0.01
43 184 0.99
44 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTAGTC
Found at i:24568573 original size:22 final size:22
Alignment explanation
Indices: 24568545--24568587 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
24568535 TAGCGACGCT
*
24568545 AAAAAGCGCCGCTAAATGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
24568567 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
24568588 GTTTTGGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:24568687 original size:41 final size:40
Alignment explanation
Indices: 24568605--24568704 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 40
24568595 TGTAGTGTAC
* *
24568605 ATACTTACATATACTTTTATATTTAATAATTTTAAAATAT
1 ATACATACATATATTTTTATATTTAATAATTTTAAAATAT
* * **
24568645 ATATATACATATATTTTTCATATTTTCATAATTTT-ATGTAT
1 ATACATACATATATTTTT-ATA-TTTAATAATTTTAAAATAT
24568686 ATACATACATATATATTTT
1 ATACATACATATAT-TTTT
24568705 TCTATATGTA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 15 0.30
41 20 0.40
42 15 0.30
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (40 bp):
ATACATACATATATTTTTATATTTAATAATTTTAAAATAT
Found at i:24568705 original size:26 final size:24
Alignment explanation
Indices: 24568676--24568738 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
24568666 ATTTTCATAA
*
24568676 TTTTATGTATATACATACATATATAT
1 TTTTATATATATACAT--ATATATAT
* *
24568702 TTTTCTATATGTACATATATATAT
1 TTTTATATATATACATATATATAT
*
24568726 TTTTATATTTATA
1 TTTTATATATATA
24568739 ATTTTTATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 18 0.58
26 13 0.42
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (24 bp):
TTTTATATATATACATATATATAT
Found at i:24568710 original size:22 final size:22
Alignment explanation
Indices: 24568685--24568732 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
24568675 ATTTTATGTA
24568685 TATACATACATATATAT-TTTT
1 TATACATACATATATATATTTT
**
24568706 CTATATGTACATATATATATTTT
1 -TATACATACATATATATATTTT
24568729 TATA
1 TATA
24568733 TTTATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.52
Consensus pattern (22 bp):
TATACATACATATATATATTTT
Found at i:24568733 original size:22 final size:22
Alignment explanation
Indices: 24568691--24568733 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
24568681 TGTATATACA
24568691 TACATATATATTTTTCTATATG
1 TACATATATATTTTTCTATATG
24568713 TACATATATATATTTT-TATAT
1 TACATATATAT-TTTTCTATAT
24568734 TTATAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.56
Consensus pattern (22 bp):
TACATATATATTTTTCTATATG
Found at i:24568911 original size:16 final size:16
Alignment explanation
Indices: 24568887--24568920 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24568877 TTGATTTTTC
*
24568887 TTATATATTTGTCTTT
1 TTATATATTTATCTTT
*
24568903 TTATTTATTTATCTTT
1 TTATATATTTATCTTT
24568919 TT
1 TT
24568921 GTTTTTACTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATATATTTATCTTT
Found at i:24580950 original size:17 final size:17
Alignment explanation
Indices: 24580930--24580962 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
24580920 CCCATTGTTT
24580930 TTTCTTTATTATTATTA
1 TTTCTTTATTATTATTA
24580947 TTTCTTTATTATTATT
1 TTTCTTTATTATTATT
24580963 TTATTATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TTTCTTTATTATTATTA
Found at i:24580957 original size:11 final size:11
Alignment explanation
Indices: 24580935--24580991 Score: 55
Period size: 11 Copynumber: 4.9 Consensus size: 11
24580925 TGTTTTTTCT
24580935 TTATTATTATTA
1 TTATT-TTATTA
24580947 TT-TCTTTATTA
1 TTAT-TTTATTA
24580958 TTATTTTATTA
1 TTATTTTATTA
24580969 TTATTGGTT-TTA
1 TTATT--TTATTA
24580981 TTGATTTTATT
1 TT-ATTTTATT
24580992 TATTGCTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
11 23 0.59
12 11 0.28
13 5 0.13
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.70
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:24580957 original size:14 final size:14
Alignment explanation
Indices: 24580934--24580992 Score: 68
Period size: 14 Copynumber: 4.1 Consensus size: 14
24580924 TTGTTTTTTC
24580934 TTTATTATTATTAT
1 TTTATTATTATTAT
24580948 TTCT-TTATTATTAT
1 TT-TATTATTATTAT
*
24580962 TTTATTATTATTGGT
1 TTTATTATTATT-AT
24580977 TTTATTGATT-TTAT
1 TTTATT-ATTATTAT
24580991 TT
1 TT
24580993 ATTGCTTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
13 1 0.03
14 25 0.64
15 10 0.26
16 3 0.08
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (14 bp):
TTTATTATTATTAT
Found at i:24580993 original size:28 final size:26
Alignment explanation
Indices: 24580934--24580995 Score: 67
Period size: 25 Copynumber: 2.4 Consensus size: 26
24580924 TTGTTTTTTC
24580934 TTTA-TTATTATTATTTCTTTATTAT
1 TTTATTTATTATTATTTCTTTATTAT
*
24580959 TAT-TTTATTATTATTGGT-TTTATTGAT
1 TTTATTTATTATTATT--TCTTTATT-AT
24580986 TTTATTTATT
1 TTTATTTATT
24580996 GCTTTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
25 13 0.43
26 6 0.20
27 5 0.17
28 6 0.20
ACGTcount: A:0.23, C:0.02, G:0.05, T:0.71
Consensus pattern (26 bp):
TTTATTTATTATTATTTCTTTATTAT
Found at i:24580995 original size:13 final size:12
Alignment explanation
Indices: 24580977--24581010 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24580967 TATTATTGGT
24580977 TTTATTGATTTTA
1 TTTATTG-TTTTA
*
24580990 TTTATTGCTTTA
1 TTTATTGTTTTA
24581002 TTTATTGTT
1 TTTATTGTT
24581011 GTTTATTTAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.18, C:0.03, G:0.09, T:0.71
Consensus pattern (12 bp):
TTTATTGTTTTA
Found at i:24582613 original size:6 final size:6
Alignment explanation
Indices: 24582602--24582628 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
24582592 ATTGAGTCCA
24582602 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
24582629 CTTCTACCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:24592486 original size:16 final size:16
Alignment explanation
Indices: 24592465--24592495 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
24592455 TGTGTAAAAA
*
24592465 ACATAAATATAAATAG
1 ACATAAAAATAAATAG
24592481 ACATAAAAATAAATA
1 ACATAAAAATAAATA
24592496 AAAATGGAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.23
Consensus pattern (16 bp):
ACATAAAAATAAATAG
Found at i:24592496 original size:10 final size:10
Alignment explanation
Indices: 24592462--24592521 Score: 57
Period size: 10 Copynumber: 5.6 Consensus size: 10
24592452 GAATGTGTAA
24592462 AAAACATAAAT
1 AAAA-ATAAAT
*
24592473 ATAAATAGACAT
1 AAAAATA-A-AT
24592485 AAAAATAAAT
1 AAAAATAAAT
*
24592495 AAAAATGGAAT
1 AAAAAT-AAAT
*
24592506 AAGAATAAAT
1 AAAAATAAAT
24592516 AAAAAT
1 AAAAAT
24592522 TATATAAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
10 19 0.47
11 13 0.32
12 8 0.20
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (10 bp):
AAAAATAAAT
Found at i:24592512 original size:21 final size:22
Alignment explanation
Indices: 24592462--24592521 Score: 77
Period size: 21 Copynumber: 2.7 Consensus size: 22
24592452 GAATGTGTAA
*
24592462 AAAACATAAATATAAATAGACAT
1 AAAA-ATAAATAAAAATAGACAT
*
24592485 AAAAATAAATAAAAATGGA-AT
1 AAAAATAAATAAAAATAGACAT
*
24592506 AAGAATAAATAAAAAT
1 AAAAATAAATAAAAAT
24592522 TATATAAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 17 0.50
22 13 0.38
23 4 0.12
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (22 bp):
AAAAATAAATAAAAATAGACAT
Found at i:24593097 original size:19 final size:20
Alignment explanation
Indices: 24593075--24593121 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 20
24593065 TTTTTTTTGT
24593075 AAAATCAATT-TTTTCTTTAA
1 AAAATCAATTATTTTC-TTAA
24593095 AAAATC-ATTACTTTTCTT-A
1 AAAATCAATTA-TTTTCTTAA
24593114 AAAATCAA
1 AAAATCAA
24593122 AACTTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
21 5 0.21
ACGTcount: A:0.45, C:0.13, G:0.00, T:0.43
Consensus pattern (20 bp):
AAAATCAATTATTTTCTTAA
Found at i:24593334 original size:20 final size:20
Alignment explanation
Indices: 24593294--24593337 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
24593284 AATAGTTAAA
**
24593294 AAAAATTAAAACTTTGTTTT
1 AAAAATTAAAACTTTCCTTT
*
24593314 AAAAATTTAAACTTTCCTTT
1 AAAAATTAAAACTTTCCTTT
24593334 AAAA
1 AAAA
24593338 TGATTAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (20 bp):
AAAAATTAAAACTTTCCTTT
Found at i:24593731 original size:3 final size:3
Alignment explanation
Indices: 24593723--24593776 Score: 63
Period size: 3 Copynumber: 17.7 Consensus size: 3
24593713 GTAAAAAATG
* * * *
24593723 ATA ATA ATA ATA ATA ATA TTTA ATA ATA ATA GTA ATA GTG ATA ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA
24593769 ATA ATA AT
1 ATA ATA AT
24593777 TTGGGCCCTT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:24596796 original size:28 final size:28
Alignment explanation
Indices: 24596765--24596819 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
24596755 TTCTAGTCCA
24596765 CTGTGTCTTGTTGCTTCGATCCACTCCT
1 CTGTGTCTTGTTGCTTCGATCCACTCCT
24596793 CTGTGTCTTGTTGCTTCGATCCACTCC
1 CTGTGTCTTGTTGCTTCGATCCACTCC
24596820 ACTACACTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.07, C:0.33, G:0.18, T:0.42
Consensus pattern (28 bp):
CTGTGTCTTGTTGCTTCGATCCACTCCT
Found at i:24597046 original size:44 final size:44
Alignment explanation
Indices: 24596938--24597344 Score: 297
Period size: 44 Copynumber: 9.3 Consensus size: 44
24596928 AGACTTGATG
* * *
24596938 CGATCTGCTCCACTACTGCTTAGGGAGATAGGACTCG-TGGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTCGCCGTCTT
** * * *
24596981 AAATCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTCGCCGTCTT
*****
24597025 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTTAATATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTCGCCGTCTT
* * * * ** *
24597069 TGACCTGCTCCACTACTTCTTAGGGAGATAGGACT-GGTGGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTCGCCGTCTT
** * * * *
24597112 AAATCTGCTTCACTATTGCTTAGGAAGAT-GAGATTCGCAGTCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAG-GATTCGCCGTCTT
** *
24597156 CGATCTGCTCCACTACTGCTTAGGGAGATAGGA-TCTAACATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTC-GCCGTCTT
* * * * ** *
24597200 TGACCTGCCCCACTACTGCTTAGGGAGATAGGACT-GGTGGCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTCGCCGTCTT
** * * ** * *
24597243 AAATCTGCTTCACTACTGCTTAGGAAGAT-GAGATTTACCATTTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAG-GATTCGCCGTCTT
* * *
24597287 CGATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACCATCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTC-GCCGTCTT
*
24597331 CGACCTGCTCCACT
1 CGATCTGCTCCACT
24597345 GTAACCTCAG
Statistics
Matches: 279, Mismatches: 75, Indels: 19
0.75 0.20 0.05
Matches are distributed among these distances:
42 2 0.01
43 92 0.33
44 183 0.66
45 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (44 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTCGCCGTCTT
Found at i:24597052 original size:87 final size:87
Alignment explanation
Indices: 24596938--24597316 Score: 332
Period size: 87 Copynumber: 4.3 Consensus size: 87
24596928 AGACTTGATG
*
24596938 CGATCTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTTCACTACTGCTTA
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTCCACTACTGCTTA
* *
24597003 GGAAGATAAGATTCGCCGTCTT
66 GGAAGATAAGATTCACCATCTT
* ** ** ** * *
24597025 CGATCTGCTCCACTACTGCTTAGGGAGATAGGATTTAATATCTTTGACCTGCTCCACTACTTCTT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGA-CTCGTGGCTTAAATCTGCTCCACTACTGCTT
* * * *****
24597090 AGGGAGATAGGACT-GGTGGCTT
65 AGGAAGATAAGATTCACCATCTT
** * * * * * * **
24597112 AAATCTGCTTCACTATTGCTTAGGAAGAT-GAGATTCGCAGTCTTCGATCTGCTCCACTACTGCT
1 CGATCTGCTCCACTACTGCTTAGGGAGATAG-GACTCG-TGGCTTAAATCTGCTCCACTACTGCT
* * *
24597176 TAGGGAGATAGGA-TCTAACATCTT
64 TAGGAAGATAAGATTC-ACCATCTT
* * * * *
24597200 TGACCTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTA
1 CGATCTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTCCACTACTGCTTA
* * *
24597265 GGAAGATGAGATTTACCATTTT
66 GGAAGATAAGATTCACCATCTT
24597287 CGATCTGCTCCACTACTGCTTAGGGAGATA
1 CGATCTGCTCCACTACTGCTTAGGGAGATA
24597317 AGATCTACCA
Statistics
Matches: 229, Mismatches: 56, Indels: 14
0.77 0.19 0.05
Matches are distributed among these distances:
86 4 0.02
87 162 0.71
88 62 0.27
89 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (87 bp):
CGATCTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTCCACTACTGCTTA
GGAAGATAAGATTCACCATCTT
Found at i:24597140 original size:131 final size:131
Alignment explanation
Indices: 24596942--24597344 Score: 671
Period size: 131 Copynumber: 3.1 Consensus size: 131
24596932 TTGATGCGAT
*
24596942 CTGCTCCACTACTGCTTAGGGAGATAGGACTCGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
* * *
24597007 GATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATTTAATATCTTTGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
24597072 C
131 C
* *
24597073 CTGCTCCACTACTTCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTATTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
*
24597138 GATGAGATTCGCAGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
24597203 C
131 C
*
24597204 CTGCCCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
** * * * * *
24597269 GATGAGATTTACCATTTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA
66 GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
24597334 C
131 C
24597335 CTGCTCCACT
1 CTGCTCCACT
24597345 GTAACCTCAG
Statistics
Matches: 253, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 253 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (131 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCTTAGGAA
GATGAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTAACATCTTTGA
C
Found at i:24597392 original size:46 final size:46
Alignment explanation
Indices: 24597308--24597809 Score: 323
Period size: 44 Copynumber: 11.3 Consensus size: 46
24597298 ACTACTGCTT
* * *
24597308 AGGGAGATAAGATCT-ACCA-TCTTCGACCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGA-AATTCTTCGATCTACTCCACTGTAACCTC
* * *
24597353 AGGGAGATAAGATCTGAAATTCTTCGGTTTACTCCACTGTAACCTT
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * *
24597399 AGGGAGATAAGATTTG----T-TGCGATCTACTCTACTGTAACTTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * ** * * * *
24597440 AGAGAGATGAGATCCT-TTATT-TT-AATCCACTCCATTGTAACTTC
1 AGGGAGATAAGAT-CTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * *
24597484 AGGGAGATAGGAT-T-ACTAGTTC--CAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGA--AATTCTTCGATCTACTCCACTGTAACCTC
* * *
24597528 AGGGAGATAAGATCTGAAATTATTCGGTCCACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * * *
24597574 AGGGAGATAAGA-CTTG-CA-TATTCAACCTGCCCCACTGTAACTTC
1 AGGGAGATAAGATC-TGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * * * * *
24597618 AAGGAGATAAGGTTTG---TGGCTTCGATCTGCTCCTCTGTAATCTC
1 AGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTC
* * * *
24597662 AGGGAGATAAGATCT---CTGGCTTCAATCTGCTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAAT-TCTTCGATCTACTCCACTGTAACCTC
* *
24597706 AGGGAGATAAGAAT-TGAAATTCTTCGGTCTACTCCACTGTAATCTC
1 AGGGAGATAAG-ATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
* * * *
24597752 AGGGAGATAAGACCTAAAATTATTCGGTCTACTCCACTGTAACCTC
1 AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
24597798 AGGGAGATAAGA
1 AGGGAGATAAGA
24597810 CTTGCATATT
Statistics
Matches: 359, Mismatches: 73, Indels: 49
0.75 0.15 0.10
Matches are distributed among these distances:
41 29 0.08
42 3 0.01
44 159 0.44
45 24 0.07
46 143 0.40
47 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (46 bp):
AGGGAGATAAGATCTGAAATTCTTCGATCTACTCCACTGTAACCTC
Found at i:24597611 original size:44 final size:44
Alignment explanation
Indices: 24597469--24597852 Score: 217
Period size: 44 Copynumber: 8.6 Consensus size: 44
24597459 TTTTAATCCA
* * * * *
24597469 CTCCATTGTAACTTCAGGGAGATAGGA-TTAC-TAGTTCCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATA-TT-CAACCTG
* ** *
24597513 CTCCACTGTAACCTCAGGGAGATAAGA-TCTGAAATTATTCGGTCC-A
1 CTCCACTGTAACCTCAGGGAGATAAGACT-TG-CA-TATTC-AACCTG
24597559 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
* * * ** **** * *
24597603 CCCCACTGTAACTTCAAGGAGATAAGGTTTGTGGCTTCGATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
* * *
24597647 CTCCTCTGTAATCTCAGGGAGATAAGATCTCTGGC---TTCAATCTG
1 CTCCACTGTAACCTCAGGGAGATAAGA-CT-T-GCATATTCAACCTG
* * ** *
24597691 CTCCACTGTAACCTCAGGGAGATAAGAATTG-AAATTCTTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAAC---CTG
* *** *** *
24597737 CTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTATTCGGTCTA
1 CTCCACTGTAACCTCAGGGAGATAAGA-CTTGCA-TATTCAACCTG
24597783 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
1 CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
* * ** *
24597827 CCCCAATGTAATTTTAGGGAGATAAG
1 CTCCACTGTAACCTCAGGGAGATAAG
24597853 GTTTGTGGCT
Statistics
Matches: 260, Mismatches: 61, Indels: 38
0.72 0.17 0.11
Matches are distributed among these distances:
41 1 0.00
42 1 0.00
43 6 0.02
44 145 0.56
45 6 0.02
46 88 0.34
47 6 0.02
48 3 0.01
49 4 0.02
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
CTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTG
Found at i:24597726 original size:178 final size:175
Alignment explanation
Indices: 24597308--24597764 Score: 525
Period size: 178 Copynumber: 2.6 Consensus size: 175
24597298 ACTACTGCTT
* * * *
24597308 AGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
1 AGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
* * * * * * *
24597373 TCTTCGGTTTACTCCACTGTAACCTTAGGGAGATAAGATTTGTTGCGATCTACTCTACTGTAACT
66 TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTTGCAACCTACCCCACTGTAACT
* * *
24597438 TCAGAGAGATGAGATCCTTTATTTTAATCCACTCCATTGTAACTTC
131 TCAGAGAGATAAGAT-CTTTACTTCAATCCACTCCATTGTAACTTC
*
24597484 AGGGAGATAGGAT-TACTAG-TTCCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
1 AGGGAGATAAGATCTACTAGCTT-CAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAA
* * * *
24597547 TTATTCGGTCCACTCCACTGTAACCTCAGGGAGATAAGACTTGCATATTCAACCTGCCCCACTGT
65 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTG--T-TGCAACCTACCCCACTGT
* * * **
24597612 AACTTCA-AGGAGATAAGGT-TTGTGGCTTCGATCTGCTCC-TCTGTAA-TCTC
127 AACTTCAGA-GAGATAAGATCTT-T-ACTTCAATCCACTCCAT-TGTAACT-TC
*
24597662 AGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAAT-TGAAA
1 AGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAG-ATCTGAAA
*
24597725 TTCTTCGGTCTACTCCACTGTAATCTCAGGGAGATAAGAC
65 TTCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGAC
24597765 CTAAAATTAT
Statistics
Matches: 240, Mismatches: 29, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
174 2 0.01
175 81 0.34
176 14 0.06
177 5 0.02
178 133 0.55
179 5 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (175 bp):
AGGGAGATAAGATCTACTAGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT
TCTTCGGTCTACTCCACTGTAACCTCAGGGAGATAAGACTTGTTGCAACCTACCCCACTGTAACT
TCAGAGAGATAAGATCTTTACTTCAATCCACTCCATTGTAACTTC
Found at i:24597934 original size:224 final size:222
Alignment explanation
Indices: 24597390--24597984 Score: 751
Period size: 224 Copynumber: 2.7 Consensus size: 222
24597380 TTTACTCCAC
* * * * *
24597390 TGTAACCTTAGGGAGATAAGATTTGT---TGCGATCTACTCTACTGTAACTTCAGAGAGAT-GAG
1 TGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAACTTCAGAGAGATAG-G
* * *
24597451 ATCCTTTATTTTAATCCACTCCATTGTAACTTCAGGGAGATAGGATTACTAGTTC--CAATCTGC
65 ATCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTA--AGTTCTTCGATCTGC
* * *
24597514 TCCACTGTAACCTCAGGGAGATAAGATCTGAAATTATTCGGTCCACTCCACTGTAACCTCAGGGA
128 TCCACTGTAATCTCAGGGAGATAAGACCTAAAATTATTCGGTCCACTCCACTGTAACCTCAGGGA
*
24597579 GATAAGACTTGCATATTCAACCTGCCCCAC
193 GATAAGACTTGCATATTCAACCTGCCCCAA
* * * * *
24597609 TGTAACTTCAAGGAGATAAGGTTTGTGGCTTCGATCTGCTCCTCTGTAA-TCTCAGGGAGATAAG
1 TGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAACT-TCAGAGAGATAGG
*** * * * * * * *
24597673 AT-CTCTGGCTTCAATCTGCTCCACTGTAACCTCAGGGAGATAAGAATTGAAATTCTTCGGTCTA
65 ATCCT-TTATTTTAATCCGCTCCACTGTAACTTCAGGGAGAT-AGGATT-AAGTTCTTCGATCTG
*
24597737 CTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTATTCGGTCTACTCCACTGTAACCTCAGGG
127 CTCCACTGTAATCTCAGGGAGATAAGACCTAAAATTATTCGGTCCACTCCACTGTAACCTCAGGG
24597802 AGATAAGACTTGCATATTCAACCTGCCCCAA
192 AGATAAGACTTGCATATTCAACCTGCCCCAA
*
24597833 TGTAATTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAACTTCAGAGAGATAGGA
1 TGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAACTTCAGAGAGATAGGA
* * *
24597898 TCCTTTATTTTAATCCGCTCTACTATAACTTCAGGGAGATAGGA-T-AGTGTCTTTGATCTGCTC
66 TCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAAGT-TCTTCGATCTGCTC
*
24597961 CGCTGTAATCTCAGGGAGATAAGA
130 CACTGTAATCTCAGGGAGATAAGA
24597985 TCTATCATAT
Statistics
Matches: 315, Mismatches: 48, Indels: 24
0.81 0.12 0.06
Matches are distributed among these distances:
219 22 0.07
220 2 0.01
221 37 0.12
222 61 0.19
223 8 0.03
224 182 0.58
225 3 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.31
Consensus pattern (222 bp):
TGTAACTTTAGGGAGATAAGGTTTGTGGCTTCGATCTGCTCTTCTGTAACTTCAGAGAGATAGGA
TCCTTTATTTTAATCCGCTCCACTGTAACTTCAGGGAGATAGGATTAAGTTCTTCGATCTGCTCC
ACTGTAATCTCAGGGAGATAAGACCTAAAATTATTCGGTCCACTCCACTGTAACCTCAGGGAGAT
AAGACTTGCATATTCAACCTGCCCCAA
Found at i:24600255 original size:22 final size:21
Alignment explanation
Indices: 24600215--24600260 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
24600205 TTCTTTCTTC
* *
24600215 TTTTTGTTTTTTTTATTTTGA
1 TTTTTGTTTTTTTCATTTTCA
*
24600236 TTTTTGATTTTTTTCCTTTTCA
1 TTTTTG-TTTTTTTCATTTTCA
24600258 TTT
1 TTT
24600261 CCATTTTAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.09, C:0.07, G:0.07, T:0.78
Consensus pattern (21 bp):
TTTTTGTTTTTTTCATTTTCA
Found at i:24604922 original size:11 final size:11
Alignment explanation
Indices: 24604908--24604947 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
24604898 AAAGATATAA
24604908 ATAATATCAAT
1 ATAATATCAAT
24604919 ATAATATCAATAT
1 ATAATATC-A-AT
24604932 AGTAATATCAAT
1 A-TAATATCAAT
24604944 ATAA
1 ATAA
24604948 AAACAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 11 0.42
12 4 0.15
13 4 0.15
14 7 0.27
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.35
Consensus pattern (11 bp):
ATAATATCAAT
Found at i:24604937 original size:14 final size:13
Alignment explanation
Indices: 24604908--24604946 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
24604898 AAAGATATAA
24604908 ATAATATC-A-AT
1 ATAATATCAATAT
24604919 ATAATATCAATAT
1 ATAATATCAATAT
24604932 AGTAATATCAATAT
1 A-TAATATCAATAT
24604946 A
1 A
24604947 AAAACAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 8 0.32
12 1 0.04
13 3 0.12
14 13 0.52
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.36
Consensus pattern (13 bp):
ATAATATCAATAT
Found at i:24607104 original size:10 final size:12
Alignment explanation
Indices: 24607076--24607103 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
24607066 TTTTATTTAA
24607076 TATATACATTTT
1 TATATACATTTT
24607088 TATATACATTTT
1 TATATACATTTT
24607100 TATA
1 TATA
24607104 CTCTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (12 bp):
TATATACATTTT
Found at i:24607693 original size:107 final size:107
Alignment explanation
Indices: 24607411--24607839 Score: 535
Period size: 106 Copynumber: 4.0 Consensus size: 107
24607401 ATAAAAAAGA
* * * *
24607411 AAATTTTCTAAATAAGGCAATGTTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACATGCTGG
1 AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
*
24607476 GTTTCGATTTCTCGTTTGACCAAAATAGCCAAATACCCTTTT
66 GTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
* * *
24607518 AAAACTTTCAAAATAAGGCCATATTTAGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCT-
1 -AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTG
*
24607582 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATAGCCTTTT
65 GGTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
* * * *
24607625 AAATTTTCAAAATAAGGCCATATTTCGCGTTTGGAAACTCGAGAAAACGTGCCCTAACGTGTTGG
1 AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * * * * *
24607690 GTTTCGATTAT-TCGTTTGGCC-GAATAGTCGAATATTCTTTCG
66 GTTTCGATT-TCTCGTTTGACCAAAATAGCCAAATATCCTTT-T
* ** * * * *
24607732 AAATTCT-AAAACGAGGCAATGTTTTACGTTTGGAAATTCGAGAGAACGTGCCCTAACGCGCTGG
1 AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
* * *
24607796 GTTTCAATTTCTCGTTTGA-CTAAATAGCCAAATATCCTCTT
66 GTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
24607837 AAA
1 AAA
24607840 ACTTCATAGT
Statistics
Matches: 278, Mismatches: 38, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
105 5 0.02
106 149 0.54
107 67 0.24
108 57 0.21
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (107 bp):
AAATTTTCAAAATAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAACGTGCTGG
GTTTCGATTTCTCGTTTGACCAAAATAGCCAAATATCCTTTT
Found at i:24610031 original size:14 final size:15
Alignment explanation
Indices: 24610004--24610032 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24609994 TATAACATTT
24610004 ATTAAAATAAATATA
1 ATTAAAATAAATATA
24610019 ATTAAAA-AAATATA
1 ATTAAAATAAATATA
24610033 TTTACCACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATTAAAATAAATATA
Found at i:24616129 original size:14 final size:15
Alignment explanation
Indices: 24616105--24616134 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
24616095 TATAGAGGAG
24616105 AGGCATCATTCTCCT
1 AGGCATCATTCTCCT
24616120 AGGC-TCATTCTCCT
1 AGGCATCATTCTCCT
24616134 A
1 A
24616135 TTTTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.33, G:0.13, T:0.33
Consensus pattern (15 bp):
AGGCATCATTCTCCT
Found at i:24618939 original size:25 final size:25
Alignment explanation
Indices: 24618891--24619022 Score: 95
Period size: 25 Copynumber: 5.2 Consensus size: 25
24618881 GAATTCTCTT
* **
24618891 GAAAGCCTTTGTGGCGTAGAATTTG
1 GAAAGCCTTTGTGGCGAATTATTTG
* *
24618916 GAAAGTCTTTGTGGCGAATTATTTA
1 GAAAGCCTTTGTGGCGAATTATTTG
* * * * * *
24618941 GAAAACCTCTGTGGTGTATCATTTC
1 GAAAGCCTTTGTGGCGAATTATTTG
* * *
24618966 GAAAGCCTTTGTAGTGAAACTT-TCTG
1 GAAAGCCTTTGTGGCG-AA-TTATTTG
* *
24618992 GAAAGCCTTTGTGCCAAATTATTTG
1 GAAAGCCTTTGTGGCGAATTATTTG
24619017 GAAAGC
1 GAAAGC
24619023 TGTTATTCCA
Statistics
Matches: 80, Mismatches: 24, Indels: 6
0.73 0.22 0.05
Matches are distributed among these distances:
24 2 0.03
25 62 0.77
26 15 0.19
27 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.34
Consensus pattern (25 bp):
GAAAGCCTTTGTGGCGAATTATTTG
Found at i:24627810 original size:29 final size:29
Alignment explanation
Indices: 24627778--24627852 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
24627768 AACTTACTTT
*
24627778 TTCTTTAATTTAAAAATTAAAA-AATTAAA
1 TTCTTAAATTTAAAAA-TAAAATAATTAAA
**
24627807 TTCTTAAAAATAATAAATAAAATAATTAAA
1 TTCTTAAATTTAA-AAATAAAATAATTAAA
24627837 TT-TTAAATTTATAAAA
1 TTCTTAAATTTA-AAAA
24627853 AATGGTATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 25 0.66
30 13 0.34
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (29 bp):
TTCTTAAATTTAAAAATAAAATAATTAAA
Found at i:24627829 original size:22 final size:23
Alignment explanation
Indices: 24627787--24627829 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
24627777 TTTCTTTAAT
*
24627787 TTAAAAATTAAAAAATTAAATTC
1 TTAAAAATTAAAAAATAAAATTC
*
24627810 TTAAAAA-TAATAAATAAAAT
1 TTAAAAATTAAAAAATAAAAT
24627830 AATTAAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
TTAAAAATTAAAAAATAAAATTC
Found at i:24640064 original size:432 final size:433
Alignment explanation
Indices: 24639230--24640091 Score: 1672
Period size: 432 Copynumber: 2.0 Consensus size: 433
24639220 TAACAAGCTT
*
24639230 GTAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGGTAATTGTGGTTTAATTATG
1 GTAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATG
24639295 CGCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAA
66 CGCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAA
*
24639360 TCGATGTTTATTTAGGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTAT
131 TCGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTAT
24639425 TATATATTTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAA
196 TATATA-TTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAA
24639490 TGGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGAGTTAG
260 TGGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGAGTTAG
*
24639555 TTAGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGGTAGTTTAATCATGTGGATA
325 TTAGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATA
24639620 ATTGTTTAATTATGTATAATATTGATATTGGTTCGTATATACTC
390 ATTGTTTAATTATGTATAATATTGATATTGGTTCGTATATACTC
24639664 GTAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATG
1 GTAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATG
24639729 CGCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAA
66 CGCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAA
*
24639794 TCGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGATTAT
131 TCGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTAT
24639859 TATATA-TATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAAT
196 TATATATTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAAT
24639923 GGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGAGTTAGT
261 GGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGAGTTAGT
24639988 TAGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAA
326 TAGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAA
24640053 TTGTTTAATTATGTATAATATTGATATTGGTTCGTATAT
391 TTGTTTAATTATGTATAATATTGATATTGGTTCGTATAT
24640092 GAATATTCAT
Statistics
Matches: 424, Mismatches: 4, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
432 226 0.53
434 198 0.47
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (433 bp):
GTAAATAATTTATATTGATATTAATTAATGTTATAAATTGATATGATAATTGTGGTTTAATTATG
CGCAAATGGGTAAATTTATATAATGAATGTGTTGATGTAAGTTGAGTATATGGAATAATATATAA
TCGATGTTTATTTAAGTGTTCAAATGCCTTATTATTTATCCACAAGTTTCAGCTAATGGGACTAT
TATATATTATGTATTATGATATAATGTTTTATAATAGTAAGATATGTTTGGTTAGTAGATTAAAT
GGTACACATGTATGATTATTATATCTTTATAACATATGGGTTGAATTTGGTTTTTGTGAGTTAGT
TAGATTAAACATTGATGTGTTTTGGTTGTGGATTGTTAAAAATGATAGTTTAATCATGTGGATAA
TTGTTTAATTATGTATAATATTGATATTGGTTCGTATATACTC
Found at i:24642795 original size:21 final size:22
Alignment explanation
Indices: 24642771--24642811 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
24642761 TAGGTTAAAG
24642771 GAGGAAGAT-GAAAA-AAAAGAA
1 GAGG-AGATAGAAAAGAAAAGAA
24642792 GAGGAGATAGAAAAGAAAAG
1 GAGGAGATAGAAAAGAAAAG
24642812 GAAAATAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 9 0.50
22 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.05
Consensus pattern (22 bp):
GAGGAGATAGAAAAGAAAAGAA
Found at i:24642807 original size:17 final size:18
Alignment explanation
Indices: 24642785--24642823 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
24642775 AAGATGAAAA
* *
24642785 AAAAGAAGAGG-AGATAG
1 AAAAGAAAAGGAAAATAG
24642802 AAAAGAAAAGGAAAATAG
1 AAAAGAAAAGGAAAATAG
24642820 AAAA
1 AAAA
24642824 AATAATAAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.69, C:0.00, G:0.26, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAGGAAAATAG
Found at i:24646213 original size:137 final size:137
Alignment explanation
Indices: 24646036--24646483 Score: 479
Period size: 137 Copynumber: 3.3 Consensus size: 137
24646026 TTGTTAGTTG
* * *
24646036 TTTTGGAGGTTGCAATCATAAACCGACAAA-CTTTAATGACATCAGCTGAGAGTGCAGGTCTACT
1 TTTTGGAGGTTGCGATCATAAACCGACAAACCTTT-ATGACATCAGCTGAGAGTGTAGGTCTGCT
** * * *
24646100 AGCTGTGTCAAAGCTGTGAGCATAACACTATGAACTCTTAAAATATCAGTTGGGAGCATA-GTTC
65 AGCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCATAGGTT-
24646164 CACTAGCTA
129 CACTAGCTA
* * * * *
24646173 TTTTGGAGTTTGCGATCATAAACCCACAAACCATTATGACATCAG-TTAGGAGTGTAGGTCCGCT
1 TTTTGGAGGTTGCGATCATAAACCGACAAACCTTTATGACATCAGCTGA-GAGTGTAGGTCTGCT
** * * * * * * *
24646237 AGCTGTGTCGGAGAGGCAAGCTTAACTCTGTGAGCTCTTATAATATCAGTTGGAAGCGTAGGTTT
65 AGCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCATAGGTTC
*
24646302 GCTAGCTA
130 ACTAGCTA
** * * * *
24646310 TTTTGGAGGTTGCGATCATAAATTGGCAAACCTTTGTGACATCAGCTGAAAGCGTAGGTCTGCTA
1 TTTTGGAGGTTGCGATCATAAACCGACAAACCTTTATGACATCAGCTGAGAGTGTAGGTCTGCTA
* * * * *
24646375 GCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTATAATATCAGCTGGGAGCGTAGGTTCG
66 GCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCATAGGTTCA
** *
24646440 CTAATTG
131 CTAGCTA
* * * *
24646447 TTTTAGAGGTTGCAATGATAAATCGACAAACCTTTAT
1 TTTTGGAGGTTGCGATCATAAACCGACAAACCTTTAT
24646484 ATAATACCAA
Statistics
Matches: 254, Mismatches: 53, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
136 2 0.01
137 244 0.96
138 8 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (137 bp):
TTTTGGAGGTTGCGATCATAAACCGACAAACCTTTATGACATCAGCTGAGAGTGTAGGTCTGCTA
GCTGTGTCGGAGCTGCGAGCTTAACACTATGAACTCTTATAATATCAGTTGGGAGCATAGGTTCA
CTAGCTA
Found at i:24646434 original size:68 final size:68
Alignment explanation
Indices: 24646076--24646436 Score: 158
Period size: 68 Copynumber: 5.3 Consensus size: 68
24646066 CTTTAATGAC
* * * * * ** * * * *
24646076 ATCAGCTGAGAGTGCAGGTCTACTAGCTGTGTCAAAGCTGTGAGCATAACACTATGAACTCTTAA
1 ATCAGCTGGGAGCGTAGGTCTGCTAGCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTAT
24646141 AAT
66 AAT
* * * ** * * * * * **
24646144 ATCAGTTGGGAGCATAGTTCCACTAGCTATTTTGGAGTTTGCGATCATAAACCC-ACAAAC-CAT
1 ATCAGCTGGGAGCGTAGGTCTGCTAGCTATGTCGGAG-CTGCGAGC-TTAACCCTATGAACTC-T
* *
24646207 TATGAC
63 TATAAT
* * * * * ** * * * *
24646213 ATCAGTTAGGAGTGTAGGTCCGCTAGCTGTGTCGGAGAGGCAAGCTTAACTCTGTGAGCTCTTAT
1 ATCAGCTGGGAGCGTAGGTCTGCTAGCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTAT
24646278 AAT
66 AAT
* * * * * * * * *
24646281 ATCAGTTGGAAGCGTAGGTTTGCTAGCTATTTTGGAGGTTGCGATCATAA--AT-TGGCAAAC-C
1 ATCAGCTGGGAGCGTAGGTCTGCTAGCTATGTCGGA-GCTGCGAGCTTAACCCTAT-G--AACTC
* * *
24646342 TTTGTGAC
62 -TTATAAT
**
24646350 ATCAGCTGAAAGCGTAGGTCTGCTAGCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTAT
1 ATCAGCTGGGAGCGTAGGTCTGCTAGCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTAT
24646415 AAT
66 AAT
24646418 ATCAGCTGGGAGCGTAGGT
1 ATCAGCTGGGAGCGTAGGT
24646437 TCGCTAATTG
Statistics
Matches: 204, Mismatches: 75, Indels: 28
0.66 0.24 0.09
Matches are distributed among these distances:
66 1 0.00
67 7 0.03
68 100 0.49
69 89 0.44
70 6 0.03
71 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (68 bp):
ATCAGCTGGGAGCGTAGGTCTGCTAGCTATGTCGGAGCTGCGAGCTTAACCCTATGAACTCTTAT
AAT
Found at i:24646478 original size:274 final size:274
Alignment explanation
Indices: 24645981--24646483 Score: 618
Period size: 274 Copynumber: 1.8 Consensus size: 274
24645971 TGGATCTACG
* * * * * *
24645981 AGCTTAATTCTATGAGCATTTATAGTATTAGTTGAGAGCGTAGGTTTGTTAGTTGTTTTGGAGGT
1 AGCTTAACTCTATGAGCATTTATAATATCAGTTGAGAGCGTAGGTTTGCTAGCTATTTTGGAGGT
* * *
24646046 TGCAATCATAAACCGACAAACTTTAATGACATCAGCTGAGAGTGCAGGTCTACTAGCTGTGTCAA
66 TGCAATCATAAACCGACAAACTTTAATGACATCAGCTGAAAGCGCAGGTCTACTAGCTATGTCAA
* * *
24646111 AGCTGTGAGCATAACACTATGAACTCTTAAAATATCAGTTGGGAGCATAGTTCCACTAGCTATTT
131 AGCTGCGAGCATAACACTATGAACTCTTAAAATATCAGCTGGGAGCATAGTTCCACTAACTATTT
* * *
24646176 TGGAGTTTGCGATCATAAACCCACAAACCATTATGACATCAGTTAGGAGTGTAGGTCCGCTAGCT
196 TAGAGGTTGCAATCATAAACCCACAAACCATTATGACATCAGTTAGGAGTGTAGGTCCGCTAGCT
24646241 GTGTCGGAGAGGCA
261 GTGTCGGAGAGGCA
*
24646255 AGCTTAACTCTGTGAGC-TCTTATAATATCAGTTG-GAAGCGTAGGTTTGCTAGCTATTTTGGAG
1 AGCTTAACTCTATGAGCAT-TTATAATATCAGTTGAG-AGCGTAGGTTTGCTAGCTATTTTGGAG
* ** * * * *
24646318 GTTGCGATCATAAATTGGCAAACCTTT-GTGACATCAGCTGAAAGCGTAGGTCTGCTAGCTATGT
64 GTTGCAATCATAAACCGACAAA-CTTTAATGACATCAGCTGAAAGCGCAGGTCTACTAGCTATGT
** * * * * * *
24646382 CGGAGCTGCGAGCTTAACCCTATGAACTCTTATAATATCAGCTGGGAGCGTAGGTT-CGCTAATT
128 CAAAGCTGCGAGCATAACACTATGAACTCTTAAAATATCAGCTGGGAGCATA-GTTCCACTAACT
* * * * *
24646446 GTTTTAGAGGTTGCAATGATAAATCGACAAACCTTTAT
192 ATTTTAGAGGTTGCAATCATAAACCCACAAACCATTAT
24646484 ATAATACCAA
Statistics
Matches: 189, Mismatches: 36, Indels: 8
0.81 0.15 0.03
Matches are distributed among these distances:
273 2 0.01
274 180 0.95
275 7 0.04
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (274 bp):
AGCTTAACTCTATGAGCATTTATAATATCAGTTGAGAGCGTAGGTTTGCTAGCTATTTTGGAGGT
TGCAATCATAAACCGACAAACTTTAATGACATCAGCTGAAAGCGCAGGTCTACTAGCTATGTCAA
AGCTGCGAGCATAACACTATGAACTCTTAAAATATCAGCTGGGAGCATAGTTCCACTAACTATTT
TAGAGGTTGCAATCATAAACCCACAAACCATTATGACATCAGTTAGGAGTGTAGGTCCGCTAGCT
GTGTCGGAGAGGCA
Found at i:24653143 original size:213 final size:212
Alignment explanation
Indices: 24652777--24653186 Score: 622
Period size: 213 Copynumber: 1.9 Consensus size: 212
24652767 AAGTTAATAA
* * *
24652777 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCTAGCACGTTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCAAAT
* * * *
24652842 TTCCGAACACAATTATTGCCTCACTTCGAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATGA
66 TTCCAAACACAAATATTACCTCACTTCAAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATGA
* *
24652907 GAAGTCGAAACCCAACACGTTAGGGTACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTAT
131 GAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTAT
24652972 TTTAAAAGTTTAAAAAG
196 TTTAAAAGTTTAAAAAG
* * * *
24652989 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCAAAT
* * * * * *
24653054 TTTCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAGGATATTTGGCTATTTGGTCCAATG
66 TTCCAAACAC-AAATATTACCTCACTTCAAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATG
* *
24653119 AGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATTTTCCAAACGCGAAATATTGCCTTA
130 AGAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTA
24653184 TTT
195 TTT
24653187 AGAAAAACCT
Statistics
Matches: 176, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
212 65 0.37
213 111 0.63
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (212 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTCTCTCAAAT
TTCCAAACACAAATATTACCTCACTTCAAAAGTTTAAAAGGATATTTGGCTATTTGGTCAAATGA
GAAATCGAAACCCAACACGTTAGGGCACGTTTCCTCGATTTTCCAAACGCGAAATATTGCCTTAT
TTTAAAAGTTTAAAAAG
Found at i:24653145 original size:106 final size:106
Alignment explanation
Indices: 24652777--24653186 Score: 597
Period size: 106 Copynumber: 3.9 Consensus size: 106
24652767 AAGTTAATAA
* * * * * *
24652777 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCTAGCACGTTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* * * * * **
24652842 TTCCGAACAC-AATTATTGCCTCACTTCGAAAGTTTAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAG
* * * * *
24652882 GATATTTGGCTATTTGGTCAAATGAGAAGTCGAAACCCAACACGTTAGGGTACGTTTCCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
24652947 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTT-AAAAG
*
24652989 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
* *
24653054 TTTCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAG
66 TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAG
* *
24653095 GATATTTGGCTATTTGGTCCAATGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
24653160 TTCCAAACGCGAAATATTGCCTTATTT
66 TTCCAAACGCGAAATATTGCCTTATTT
24653187 AGAAAAACCT
Statistics
Matches: 273, Mismatches: 30, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
105 62 0.23
106 113 0.41
107 98 0.36
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (106 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTGCCTTATTTTAAAAGTTTAAAAG
Found at i:24653963 original size:15 final size:15
Alignment explanation
Indices: 24653936--24653970 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
24653926 AAATATTTTA
24653936 ATAT-AGATAATAAT
1 ATATAAGATAATAAT
*
24653950 ATATAAGATGATAAT
1 ATATAAGATAATAAT
24653965 ATATAA
1 ATATAA
24653971 ATTTAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATATAAGATAATAAT
Found at i:24655647 original size:44 final size:44
Alignment explanation
Indices: 24655590--24656153 Score: 209
Period size: 44 Copynumber: 12.9 Consensus size: 44
24655580 AGGACCTGCA
* *
24655590 TCTTCGATTTACTTCACGCAAATACATGAAGACAAGATTTACTT
1 TCTTCGATCTACTTCACGCAAATACATGAAGACAAGATCTACTT
* *
24655634 TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCAAATACATGAAGACAAGATCTACTT
* *** * *
24655678 TCTTCGATCTACTTTGCCAC-C-AGTATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTAC-TT--CACGCAAATACATGAAGACAAGATCTACTT
* * * * * * *
24655722 TCTTCGATCCACTTCCTAC-C-AATATAGGAAGATAGGACCT-GTT
1 TCTTCGATCTACTT-C-ACGCAAATACATGAAGACAAGATCTACTT
* * * * * * * *
24655765 ATCTTCGATCCACTTCCTAC-C-AATATAGGAAGATAGGACCTGC-A
1 -TCTTCGATCTACTT-C-ACGCAAATACATGAAGACAAGATCTACTT
* *
24655809 TCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
1 TCTTCGATCTACTTCACGCAAATACATGAAGACAAGATCTACTT
* * *** * *
24655853 TCTTCGATCTACTTCGC-CACCAGTATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCACGCA--AATACATGAAGACAAGATCTACTT
* * * * * *
24655897 TCTTCGATCCACTTCCTAC-C-AATATAGGAAGATAGGACCTA-TT
1 TCTTCGATCTACTT-C-ACGCAAATACATGAAGACAAGATCTACTT
* * * * * * * *
24655940 ATCTTTGATCTACTTCACGCCAATATAGGAAGATAGGA-CATGC-A
1 -TCTTCGATCTACTTCACGCAAATACATGAAGACAAGATC-TACTT
* * * *
24655984 TCTTCGATCTACTTCACGCCAATACATAAAGATAAGATCTGCTT
1 TCTTCGATCTACTTCACGCAAATACATGAAGACAAGATCTACTT
* * *** * *
24656028 TCTTCGATCTACTTCGC-CACCAGTATGGGAAGACAAGATCTGC-A
1 TCTTCGATCTACTTCACGCA--AATACATGAAGACAAGATCTACTT
* * * *
24656072 TCTTTGATCCACTTACTAC-CAATATA-A-GAAGACAGGA-CTTACTA
1 TCTTCGATCTACTT-C-ACGCAA-ATACATGAAGACAAGATC-TACTT
* *
24656116 TCTTCGATTTACTTCACGCCAATACATGAAGACAAGAT
1 TCTTCGATCTACTTCACGCAAATACATGAAGACAAGAT
24656154 TTGCTTTAAT
Statistics
Matches: 414, Mismatches: 73, Indels: 65
0.75 0.13 0.12
Matches are distributed among these distances:
41 2 0.00
42 12 0.03
43 120 0.29
44 213 0.51
45 58 0.14
46 6 0.01
47 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTACTTCACGCAAATACATGAAGACAAGATCTACTT
Found at i:24655815 original size:175 final size:174
Alignment explanation
Indices: 24655503--24656139 Score: 936
Period size: 175 Copynumber: 3.6 Consensus size: 174
24655493 AGATCTGTGG
* *
24655503 TCTTCGATCTACTTTGCCACCAGTATGAGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
** * * * * * ** *
24655568 ATATAGGAAGATAGGACCT-GCATCTTCGATTTACTT-CACGCAAATACATGAAGACAAGATTTA
66 ATATAGGAAGATAGGACCTATTATCTTCGATCTACTTCCAC-C-AATATAGGAAGATAGGACATG
*
24655631 CTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
129 C-ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
*
24655678 TCTTCGATCTACTTTGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* * *
24655743 ATATAGGAAGATAGGACCTGTTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGC
66 ATATAGGAAGATAGGACCTATTATCTTCGATCTACTTCC-ACCAATATAGGAAGATAGGACATGC
*
24655808 ATCTTCGATCTACTTCACGCTAATACATGAAGACAAGATCTGCTT
130 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
24655853 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* *
24655918 ATATAGGAAGATAGGACCTATTATCTTTGATCTACTTCACGCCAATATAGGAAGATAGGACATGC
66 ATATAGGAAGATAGGACCTATTATCTTCGATCTACTTC-CACCAATATAGGAAGATAGGACATGC
* *
24655983 ATCTTCGATCTACTTCACGCCAATACATAAAGATAAGATCTGCTT
130 ATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
* *
24656028 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTTGATCCACTTACTACCA
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
* * * * * *
24656093 ATATAAGAAGACAGGACTTACTATCTTCGATTTACTTCACGCCAATA
66 ATATAGGAAGATAGGACCTATTATCTTCGATCTACTTC-CACCAATA
24656140 CATGAAGACA
Statistics
Matches: 427, Mismatches: 31, Indels: 8
0.92 0.07 0.02
Matches are distributed among these distances:
175 394 0.92
176 29 0.07
177 2 0.00
178 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (174 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCA
ATATAGGAAGATAGGACCTATTATCTTCGATCTACTTCCACCAATATAGGAAGATAGGACATGCA
TCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT
Found at i:24655903 original size:219 final size:218
Alignment explanation
Indices: 24655543--24656042 Score: 614
Period size: 219 Copynumber: 2.3 Consensus size: 218
24655533 AGACAAGATC
*
24655543 TGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCATCTTCGATTTACTTCACG
1 TGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCATCTTCGATCTACTTCACG
* * *
24655608 CAAATACATGAAGACAAGATTTACTTTCTTCGATCTACTTCACGCCAATACATGAAGACAAGATC
66 CAAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACACCAATACAGGAAGACAAGATC
* * * * *
24655673 TGCTTTCTTCGATCTACTTTGCC-ACCAGTATGGGAAGACAAGATCT-GCATCTTCGATCCACTT
131 TGCTATCTTCGATCCAC-TT-CCTACCAATATAGGAAGACAAGACCTAGCATCTTCGATCCACTT
*
24655736 C-CTACCAATATAGGAAGATAGGACC
194 CAC-ACCAATATAGGAAGATAGGACA
*
24655761 TGTTATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCATCTTCGATCTACTTCAC
1 TG-CATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCATCTTCGATCTACTTCAC
* * * * **
24655826 GCTAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGA
65 GCAAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTC-ACACCAATACAGGAAGACAAGA
* * ** * *
24655891 TCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTATTATCTTTGATCTACTT
129 TCTGCTATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTAGCATCTTCGATCCACTT
*
24655955 CACGCCAATATAGGAAGATAGGACA
194 CACACCAATATAGGAAGATAGGACA
* * * ** * * *
24655980 TGCATCTTCGATCTACTTCAC-GCCAATACATAAAGATAAGATCTGCTTTCTTCGATCTACTTC
1 TGCATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGGACCTGC-ATCTTCGATCTACTTC
24656043 GCCACCAGTA
Statistics
Matches: 242, Mismatches: 33, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
217 2 0.01
218 56 0.23
219 162 0.67
220 22 0.09
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.29
Consensus pattern (218 bp):
TGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGACCTGCATCTTCGATCTACTTCACG
CAAATACATGAAGACAAGATCTACTTTCTTCGATCTACTTCACACCAATACAGGAAGACAAGATC
TGCTATCTTCGATCCACTTCCTACCAATATAGGAAGACAAGACCTAGCATCTTCGATCCACTTCA
CACCAATATAGGAAGATAGGACA
Found at i:24663006 original size:12 final size:12
Alignment explanation
Indices: 24662989--24663033 Score: 72
Period size: 12 Copynumber: 3.8 Consensus size: 12
24662979 GAAGTCTCTC
*
24662989 TGTGTTAGGCCT
1 TGTGTTGGGCCT
24663001 TGTGTTGGGCCT
1 TGTGTTGGGCCT
*
24663013 TGGGTTGGGCCT
1 TGTGTTGGGCCT
24663025 TGTGTTGGG
1 TGTGTTGGG
24663034 TTCTTGCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.02, C:0.13, G:0.44, T:0.40
Consensus pattern (12 bp):
TGTGTTGGGCCT
Found at i:24667492 original size:107 final size:106
Alignment explanation
Indices: 24667262--24667671 Score: 583
Period size: 107 Copynumber: 3.9 Consensus size: 106
24667252 AAGTTAATAA
* * * * *
24667262 GATATTTGGCTATTTGGTCAAACGAGAAATTGAGACCCAGCACGTTAGGGCACGTTCTCTCAAAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
** * * * * **
24667327 TTCTGAACAC-AAATATTGCCTCACTTCGAAAGTTT-AAAG
66 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAG
* * * *
24667366 GATATTTGGCTATTTGGTCAAACAAGAAGTCGAAACCCAACACGTTAGGGTACG-TTTCTTCGAT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTC-TCGAT
24667430 TTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTCAAAAG
65 TTTCCAAACGCGAAATATTACCTTATTTTAAAAGTTT-AAAAG
24667473 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
24667538 TTCCAAACGCGAAATATTACATTATTTTAAAAGTTTAAAAAG
66 TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTT-AAAAG
* *
24667580 GATATTTGGCTATTTGGTCGAACGAGAAATCGAAACCCAGCACGTTAGGGTACGTTTTCTCGATT
1 GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
*
24667645 TTCCAAACGCGAAATATTGCCTTATTT
66 TTCCAAACGCGAAATATTACCTTATTT
24667672 AGAAAAACCT
Statistics
Matches: 274, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
103 3 0.01
104 59 0.22
105 20 0.07
107 188 0.69
108 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (106 bp):
GATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGCACGTTTTCTCGATT
TTCCAAACGCGAAATATTACCTTATTTTAAAAGTTTAAAAG
Found at i:24670626 original size:17 final size:16
Alignment explanation
Indices: 24670591--24670660 Score: 52
Period size: 18 Copynumber: 4.2 Consensus size: 16
24670581 GCTTTATATT
* *
24670591 TTTTAAGGTTTAGTG-
1 TTTTACGGTTTAGGGA
24670606 TTTTACGAGTTTAGGGA
1 TTTTACG-GTTTAGGGA
* * *
24670623 TTTTTATGGTTCAGGGT
1 -TTTTACGGTTTAGGGA
24670640 TTTTACTGGGTTTAGGGA
1 TTTTAC--GGTTTAGGGA
24670658 TTT
1 TTT
24670661 GATGTAGACA
Statistics
Matches: 42, Mismatches: 8, Indels: 7
0.74 0.14 0.12
Matches are distributed among these distances:
15 6 0.14
16 12 0.29
17 7 0.17
18 17 0.40
ACGTcount: A:0.17, C:0.04, G:0.29, T:0.50
Consensus pattern (16 bp):
TTTTACGGTTTAGGGA
Found at i:24670656 original size:18 final size:18
Alignment explanation
Indices: 24670597--24670656 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 18
24670587 TATTTTTTAA
*
24670597 GGTTTAGTG-TTTTAC-G
1 GGTTTAGGGTTTTTACTG
*
24670613 AGTTTAGGGATTTTTA-T-
1 GGTTTAGGG-TTTTTACTG
*
24670630 GGTTCAGGGTTTTTACTG
1 GGTTTAGGGTTTTTACTG
24670648 GGTTTAGGG
1 GGTTTAGGG
24670657 ATTTGATGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 13 0.38
17 8 0.24
18 13 0.38
ACGTcount: A:0.15, C:0.05, G:0.33, T:0.47
Consensus pattern (18 bp):
GGTTTAGGGTTTTTACTG
Found at i:24674185 original size:14 final size:15
Alignment explanation
Indices: 24674166--24674203 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
24674156 AAAATAATAC
24674166 TAATAATATAG-TAT
1 TAATAATATAGATAT
*
24674180 TAATAAAAT-GATAT
1 TAATAATATAGATAT
24674194 TAATAATATA
1 TAATAATATA
24674204 ACTACTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (15 bp):
TAATAATATAGATAT
Found at i:24674186 original size:28 final size:27
Alignment explanation
Indices: 24674142--24674203 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 27
24674132 GGGTAATATA
*
24674142 AATATAAGATTATTAAAATAATACTAAT
1 AATAT-AGATTAATAAAATAATACTAAT
* *
24674170 AATATAGTATTAATAAAATGATATTAAT
1 AATATAG-ATTAATAAAATAATACTAAT
24674198 AATATA
1 AATATA
24674204 ACTACTTCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 2 0.07
28 28 0.93
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (27 bp):
AATATAGATTAATAAAATAATACTAAT
Found at i:24674789 original size:112 final size:114
Alignment explanation
Indices: 24674502--24674830 Score: 352
Period size: 112 Copynumber: 2.9 Consensus size: 114
24674492 AAAATAAACA
* * * *
24674502 TTAGCGGCGATTTC-CAGAAAGCGCCGC-TAAAAATCTAAGCCCAACGACGTCGTTTTCGGAG-T
1 TTAGCGGCG-TTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
*
24674564 TTCGGGGATTTGAGCGGCGTTTTCAAGAAAGCGCCCCAAAAGATCAGGGCT
65 TTTGGGGATTTGAGCGGCGTTTTCAAGAAAGCGCCCCAAAAGA-CAGGGCT
* *
24674615 TTAGCGGGGTTTCTGAGAAAGCGCCGCAAACAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* * * * *
24674680 TTGGGGATTT-AGCGGTGTTTT-TAGTAAAGCGCCGCTAATG-CGAGGGCT
66 TTGGGGATTTGAGCGGCGTTTTCAAG-AAAGCGCCCCAAAAGAC-AGGGCT
* * * * *
24674728 TTAGCGGCGTTT-TGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* * * * *
24674792 TTGTGGATAT-AGTGACGGTTTT-AAGAAAGCGCCGCAAAA
66 TTGGGGATTTGAGCGGC-GTTTTCAAGAAAGCGCCCCAAAA
24674831 AAACCTAAAC
Statistics
Matches: 183, Mismatches: 27, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
112 74 0.40
113 46 0.25
114 52 0.28
115 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (114 bp):
TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
TTGGGGATTTGAGCGGCGTTTTCAAGAAAGCGCCCCAAAAGACAGGGCT
Found at i:24674925 original size:72 final size:72
Alignment explanation
Indices: 24674729--24674968 Score: 277
Period size: 73 Copynumber: 3.3 Consensus size: 72
24674719 GCGAGGGCTT
* * *
24674729 TAGCGGCG-TTTTGGGAAAGCGCTGCAAAAAAACCTAAGCCCAACGATGCCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCGC-GCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
24674793 TGTGGATA
65 TGTGGATA
* * * * * * *
24674801 TAGTGACGGTTTTAAGAAAGCGCCGCAAAAAAACCTAAACCCAACGACGTCGTTTTCTGATCTTT
1 TAGCGGCGTTTTTAGGAAAGCG-CGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
* *
24674866 TGGGGATT
65 TGTGGATA
* * **
24674874 TAGCGGCGTTTTTGGGAAAGCGTCGC-TAAAAACCTAAACGAAACGATGTCGTTTTTTGAGCTTT
1 TAGCGGCGTTTTTAGGAAAGCG-CGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTT
*
24674938 CGTGGATA
65 TGTGGATA
*
24674946 TAGCGGTGTTTTTAGGAAAGCGC
1 TAGCGGCGTTTTTAGGAAAGCGC
24674969 CACTAATGCT
Statistics
Matches: 138, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
71 1 0.01
72 63 0.46
73 73 0.53
74 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (72 bp):
TAGCGGCGTTTTTAGGAAAGCGCGCAAAAAAACCTAAACCCAACGATGTCGTTTTTTGAGCTTTT
GTGGATA
Found at i:24675110 original size:10 final size:10
Alignment explanation
Indices: 24675095--24675119 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
24675085 GCTAATGCTC
24675095 AAATAGTTTA
1 AAATAGTTTA
24675105 AAATAGTTTA
1 AAATAGTTTA
24675115 AAATA
1 AAATA
24675120 TTTGTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (10 bp):
AAATAGTTTA
Found at i:24675373 original size:22 final size:22
Alignment explanation
Indices: 24675309--24675369 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
24675299 AGGGTTAGGA
*
24675309 GCTTATGATTTAGGGGTT-ATGG
1 GCTTATGGTTTA-GGGTTAATGG
* *
24675331 GCTTAAGGTCTATGGGTTAAT-G
1 GCTTATGGTTTA-GGGTTAATGG
24675353 GCTTATGGTTTAGGGTT
1 GCTTATGGTTTAGGGTT
24675370 TAATTAAGAG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
21 5 0.16
22 25 0.78
23 2 0.06
ACGTcount: A:0.18, C:0.07, G:0.34, T:0.41
Consensus pattern (22 bp):
GCTTATGGTTTAGGGTTAATGG
Found at i:24675397 original size:7 final size:7
Alignment explanation
Indices: 24675373--24675442 Score: 68
Period size: 7 Copynumber: 9.4 Consensus size: 7
24675363 TAGGGTTTAA
24675373 TTAAGAGT
1 TTAAG-GT
* *
24675381 TTATGAT
1 TTAAGGT
24675388 TTAAGGT
1 TTAAGGT
24675395 TTAAGGGT
1 TTAA-GGT
* *
24675403 TTATGCT
1 TTAAGGT
24675410 TTAGAGGT
1 TTA-AGGT
24675418 TTAAGGT
1 TTAAGGT
24675425 TTAAAGGT
1 TT-AAGGT
24675433 TTAAGGT
1 TTAAGGT
24675440 TTA
1 TTA
24675443 GGGGTTTAGG
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
7 29 0.57
8 22 0.43
ACGTcount: A:0.29, C:0.01, G:0.26, T:0.44
Consensus pattern (7 bp):
TTAAGGT
Found at i:24675405 original size:15 final size:15
Alignment explanation
Indices: 24675387--24675454 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
24675377 GAGTTTATGA
24675387 TTTAAGGTTTAAGGG
1 TTTAAGGTTTAAGGG
* *
24675402 TTTATGCTTT-AGAGG
1 TTTAAGGTTTAAG-GG
*
24675417 TTTAAGGTTTAAAGG
1 TTTAAGGTTTAAGGG
*
24675432 TTTAAGGTTTAGGGG
1 TTTAAGGTTTAAGGG
24675447 TTT-AGGTT
1 TTTAAGGTT
24675455 ATTGTCTTAG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
14 7 0.16
15 36 0.82
16 1 0.02
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (15 bp):
TTTAAGGTTTAAGGG
Found at i:24675422 original size:30 final size:30
Alignment explanation
Indices: 24675387--24675454 Score: 93
Period size: 30 Copynumber: 2.3 Consensus size: 30
24675377 GAGTTTATGA
* *
24675387 TTTAAGGTTTAAGGGTTTATGCTTTAGAGG
1 TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
* *
24675417 TTTAAGGTTTAAAGGTTTAAGGTTTAGGGG
1 TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
24675447 TTT-AGGTT
1 TTTAAGGTT
24675455 ATTGTCTTAG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 5 0.15
30 29 0.85
ACGTcount: A:0.24, C:0.01, G:0.31, T:0.44
Consensus pattern (30 bp):
TTTAAGGTTTAAAGGTTTAAGCTTTAGAGG
Found at i:24675498 original size:14 final size:14
Alignment explanation
Indices: 24675481--24675507 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
24675471 AGGGTTATTG
24675481 GTTTACGGTTTAGT
1 GTTTACGGTTTAGT
24675495 GTTTACGGTTTAG
1 GTTTACGGTTTAG
24675508 GGTGTAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.30, T:0.48
Consensus pattern (14 bp):
GTTTACGGTTTAGT
Found at i:24675506 original size:21 final size:20
Alignment explanation
Indices: 24675480--24675525 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
24675470 AAGGGTTATT
*
24675480 GGTTTACGGTTTAGTGTTTAC
1 GGTTTACGGTGTAG-GTTTAC
* *
24675501 GGTTTAGGGTGTAGGTTTAT
1 GGTTTACGGTGTAGGTTTAC
24675521 GGTTT
1 GGTTT
24675526 TAAGTATGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 10 0.45
21 12 0.55
ACGTcount: A:0.13, C:0.04, G:0.35, T:0.48
Consensus pattern (20 bp):
GGTTTACGGTGTAGGTTTAC
Found at i:24675567 original size:28 final size:26
Alignment explanation
Indices: 24675536--24675620 Score: 80
Period size: 28 Copynumber: 3.0 Consensus size: 26
24675526 TAAGTATGCA
*
24675536 GTTTATGATTTAGTGTTAAGAGTTTAGT
1 GTTTATG-TTTAGTGTT-AGAGTTTAGG
* *
24675564 GTTTATGGTTTAGGGTGTAGGGTTTAGG
1 GTTTAT-GTTTAGTGT-TAGAGTTTAGG
*
24675592 GTTTATTGTTTATTGTTTAGAGTTTAGG
1 GTTTA-TGTTTAGTG-TTAGAGTTTAGG
24675620 G
1 G
24675621 ATTAATACGG
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
28 43 0.91
29 4 0.09
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (26 bp):
GTTTATGTTTAGTGTTAGAGTTTAGG
Found at i:24675574 original size:7 final size:7
Alignment explanation
Indices: 24675557--24675620 Score: 56
Period size: 7 Copynumber: 9.1 Consensus size: 7
24675547 AGTGTTAAGA
*
24675557 GTTTAGT
1 GTTTAGG
*
24675564 GTTTATG
1 GTTTAGG
24675571 GTTTAGG
1 GTTTAGG
*
24675578 GTGTAGG
1 GTTTAGG
24675585 GTTTAGG
1 GTTTAGG
**
24675592 GTTTATT
1 GTTTAGG
**
24675599 GTTTATT
1 GTTTAGG
*
24675606 GTTTAGA
1 GTTTAGG
24675613 GTTTAGG
1 GTTTAGG
24675620 G
1 G
24675621 ATTAATACGG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 47 1.00
ACGTcount: A:0.16, C:0.00, G:0.34, T:0.50
Consensus pattern (7 bp):
GTTTAGG
Found at i:24675574 original size:14 final size:14
Alignment explanation
Indices: 24675536--24675610 Score: 62
Period size: 14 Copynumber: 5.4 Consensus size: 14
24675526 TAAGTATGCA
*
24675536 GTTTATGATTTAGT
1 GTTTATGGTTTAGT
*
24675550 G-TTAAGAGTTTAGT
1 GTTTATG-GTTTAGT
*
24675564 GTTTATGGTTTAGG
1 GTTTATGGTTTAGT
* * *
24675578 GTGTAGGGTTTAGG
1 GTTTATGGTTTAGT
* *
24675592 GTTTATTGTTTATT
1 GTTTATGGTTTAGT
24675606 GTTTA
1 GTTTA
24675611 GAGTTTAGGG
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
13 4 0.08
14 40 0.83
15 4 0.08
ACGTcount: A:0.19, C:0.00, G:0.29, T:0.52
Consensus pattern (14 bp):
GTTTATGGTTTAGT
Found at i:24675738 original size:103 final size:103
Alignment explanation
Indices: 24675608--24675799 Score: 339
Period size: 103 Copynumber: 1.9 Consensus size: 103
24675598 TGTTTATTGT
** *
24675608 TTAGAGTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTT
1 TTAGAGTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTT
24675673 AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
66 AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
*
24675711 TTAGAGTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAGGGCATATGGTTTAGGGTTT
1 TTAGAGTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTT
*
24675776 AAATTTTATATTTTAGGGTTTAGG
66 AAATTTTATATTTTAAGGTTTAGG
24675800 ATTATGGTAA
Statistics
Matches: 84, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 84 1.00
ACGTcount: A:0.29, C:0.04, G:0.29, T:0.38
Consensus pattern (103 bp):
TTAGAGTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAAGGCATATGGTTTAGGGTTT
AAATTTTATATTTTAAGGTTTAGGGTTTAGCTAGTAGC
Found at i:24675772 original size:49 final size:49
Alignment explanation
Indices: 24675613--24675777 Score: 118
Period size: 49 Copynumber: 3.3 Consensus size: 49
24675603 ATTGTTTAGA
** * *
24675613 GTTTAGGGATTAATACGGGCATAGGGTATATGGGTTAAGAAGGCATATG
1 GTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAGGGCATATG
* ** *** * * * *
24675662 GTTTAGGGTTTAAATTTTATATTTTAAGGTTTA-GGGTTTAGCTAGTAGCTTA-G
1 GTTTAGGGATT-AA-TACA-AGCATAAGGTATATGGGTTAAG--AG-GGCATATG
24675715 AGTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAGGGCATATG
1 -GTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAGGGCATATG
*
24675765 GTTTAGGGTTTAA
1 GTTTAGGGATTAA
24675778 ATTTTATATT
Statistics
Matches: 82, Mismatches: 25, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
49 26 0.32
50 5 0.06
51 17 0.21
52 16 0.20
53 4 0.05
54 14 0.17
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.36
Consensus pattern (49 bp):
GTTTAGGGATTAATACAAGCATAAGGTATATGGGTTAAGAGGGCATATG
Found at i:24676332 original size:116 final size:114
Alignment explanation
Indices: 24676040--24676338 Score: 329
Period size: 116 Copynumber: 2.6 Consensus size: 114
24676030 TTAGTTTTCA
* * *
24676040 TTTTAGTGGCGTTTCTTC-ATAAACGCCGCAATTATGTTTTAAGTCTTAGCTAAACACTGTCG-T
1 TTTTAGTGGCGTTT-TTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
* * ** **
24676103 TTTAAATTGCGTTTTAGTGGCGTTTTCTCTTATGCGCCGCAAAATTTCAG
65 TTTATATTGCATTTTAGTGGCGTTTTCTCTTAAACGCCGCAAAAGGTCAG
* * *
24676153 TTTTTGTGGCGTTTTT-ATGATAAACGCCGCAGTTATGTTTTAAGTATTTGCTAAACGCAGTCGT
1 TTTTAGTGGCGTTTTTCA--ATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGT
* * *
24676217 TTTTATTTTGCATTATTAGTGGTGTTTT-TCGTTAAACGCCGCAATAGGT-ATG
64 TTTTATATTGCATT-TTAGTGGCGTTTTCTC-TTAAACGCCGCAAAAGGTCA-G
* * * *
24676269 TTTTAGTGGCGTTTTGTCAATAAACGCCGCAAATATGTTTTAAGTGTTTGCTAAACGGTGTCGTA
1 TTTTAGTGGCGTTTT-TCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTT
24676334 TTTAT
65 TTTAT
24676339 CTGCCATTTT
Statistics
Matches: 155, Mismatches: 22, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
112 2 0.01
113 13 0.08
114 39 0.25
115 14 0.09
116 85 0.55
117 1 0.01
118 1 0.01
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.42
Consensus pattern (114 bp):
TTTTAGTGGCGTTTTTCAATAAACGCCGCAATTATGTTTTAAGTATTTGCTAAACGCTGTCGTTT
TTATATTGCATTTTAGTGGCGTTTTCTCTTAAACGCCGCAAAAGGTCAG
Found at i:24678736 original size:9 final size:9
Alignment explanation
Indices: 24678691--24678975 Score: 223
Period size: 9 Copynumber: 30.2 Consensus size: 9
24678681 CTTATATATA
*
24678691 AACTTGCAT
1 AACTTACAT
24678700 AACTTACTCAGT
1 AACTTA--CA-T
*
24678712 AACATA-AT
1 AACTTACAT
*
24678720 ATCTTACAT
1 AACTTACAT
24678729 AACTTACAT
1 AACTTACAT
*
24678738 AAATTACAT
1 AACTTACAT
* *
24678747 AAATTAAAT
1 AACTTACAT
24678756 AACTTACAT
1 AACTTACAT
24678765 AACTTACAT
1 AACTTACAT
* *
24678774 AAATTAAAT
1 AACTTACAT
24678783 AACTTACAT
1 AACTTACAT
24678792 AACTTACAT
1 AACTTACAT
*
24678801 AAATTACAT
1 AACTTACAT
* *
24678810 AAATTAAAT
1 AACTTACAT
24678819 AACTTACAT
1 AACTTACAT
24678828 AACTTACAT
1 AACTTACAT
* *
24678837 AAATTAAAT
1 AACTTACAT
24678846 AACTTACAT
1 AACTTACAT
24678855 AACTTACAT
1 AACTTACAT
* * *
24678864 AAATTAAAA
1 AACTTACAT
24678873 AACTTACTTATT
1 AACTTAC--A-T
24678885 AACTTACAT
1 AACTTACAT
* *
24678894 AAGTTATCTAC
1 AACTTA-C-AT
*
24678905 AAGCTTATATAT
1 AA-C-T-TACAT
*
24678917 AAACTTGCAT
1 -AACTTACAT
24678927 AACTTACAT
1 AACTTACAT
*
24678936 AA-TAACAT
1 AACTTACAT
24678944 AATATCTTACAT
1 -A-A-CTTACAT
24678956 AACTTACAT
1 AACTTACAT
*
24678965 AAATTACAT
1 AACTTACAT
24678974 AA
1 AA
24678976 ATTAAATATC
Statistics
Matches: 221, Mismatches: 38, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
8 10 0.05
9 171 0.77
10 7 0.03
11 8 0.04
12 20 0.09
13 3 0.01
14 2 0.01
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (9 bp):
AACTTACAT
Found at i:24678799 original size:63 final size:64
Alignment explanation
Indices: 24678717--24678983 Score: 319
Period size: 63 Copynumber: 4.1 Consensus size: 64
24678707 TCAGTAACAT
*
24678717 AATATCTTACATAACTTACATAAATTACATAAA-TTAAATAACTTACATAACTTACATAAATTA
1 AATAACTTACATAACTTACATAAATTACATAAACTTAAATAACTTACATAACTTACATAAATTA
24678780 AATAACTTACATAACTTACATAAATTACATAAA-TTAAATAACTTACATAACTTACATAAATTA
1 AATAACTTACATAACTTACATAAATTACATAAACTTAAATAACTTACATAACTTACATAAATTA
* * *
24678843 AATAACTTACATAACTTACATAAATTA-AAAAACTTACTTATTAACTTACATAAGTTATC-TACA
1 AATAACTTACATAACTTACATAAATTACATAAACTTA---AATAACTTACATAACTTA-CATA-A
24678906 AGCTTA
61 A--TTA
* * * *
24678912 TATATAAACTTGCATAACTTACAT-AATAACATAATATCTTACATAACTTACATAAATTACATAA
1 -A-AT-AACTTACATAACTTACATAAATTACATAA-A-CTTAAATAACTTACATAACTTACATAA
24678976 ATTA
61 ATTA
24678980 AATA
1 AATA
24678984 TCTGGCGTTT
Statistics
Matches: 179, Mismatches: 10, Indels: 28
0.82 0.05 0.13
Matches are distributed among these distances:
62 4 0.02
63 92 0.51
65 1 0.01
66 20 0.11
67 4 0.02
68 3 0.02
69 3 0.02
70 4 0.02
71 23 0.13
72 20 0.11
73 1 0.01
74 4 0.02
ACGTcount: A:0.50, C:0.15, G:0.01, T:0.34
Consensus pattern (64 bp):
AATAACTTACATAACTTACATAAATTACATAAACTTAAATAACTTACATAACTTACATAAATTA
Found at i:24678976 original size:9 final size:9
Alignment explanation
Indices: 24678950--24678979 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24678940 ACATAATATC
*
24678950 TTACATAAC
1 TTACATAAA
24678959 TTACATAAA
1 TTACATAAA
24678968 TTACATAAA
1 TTACATAAA
24678977 TTA
1 TTA
24678980 AATATCTGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (9 bp):
TTACATAAA
Found at i:24684473 original size:21 final size:21
Alignment explanation
Indices: 24684447--24684507 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
24684437 AGCAGAGGTG
* *
24684447 GCAGCGAGGGAAGTAGTGACT
1 GCAGCGAGGGAAGCAGAGACT
*
24684468 GCAGCGAGGGAAGCAGAGGCT
1 GCAGCGAGGGAAGCAGAGACT
*
24684489 GCAGCGAGAGAAGCAGAGA
1 GCAGCGAGGGAAGCAGAGA
24684508 AGAGCAAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.44, T:0.07
Consensus pattern (21 bp):
GCAGCGAGGGAAGCAGAGACT
Found at i:24685862 original size:20 final size:22
Alignment explanation
Indices: 24685832--24685875 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
24685822 AGAAAAAGAG
24685832 AAATACAAAAA-AGAATAG-ATC
1 AAATACAAAAAGA-AATAGAATC
24685853 AAAT-CAAAAAGAAATAGAATC
1 AAATACAAAAAGAAATAGAATC
24685874 AA
1 AA
24685876 CAATTTGCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.68, C:0.09, G:0.09, T:0.14
Consensus pattern (22 bp):
AAATACAAAAAGAAATAGAATC
Found at i:24688761 original size:35 final size:34
Alignment explanation
Indices: 24688674--24688947 Score: 335
Period size: 35 Copynumber: 8.1 Consensus size: 34
24688664 GTCCAAAAAG
* *
24688674 AAATAATACATGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
24688708 AAATGAT-GTGAACAGGAGAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
24688741 AAATAATCCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
24688775 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
*
24688808 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
*
24688843 AAATAATGCGTGAACAGGAGAGATTCCCTGCAA-G
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
* *
24688877 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACA
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
* * * *
24688910 GAATAATGCGTGAACAGGAAATATTCCCTGCAAGA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAACA
24688945 AAA
1 AAA
24688948 GACAAGTGAA
Statistics
Matches: 211, Mismatches: 20, Indels: 17
0.85 0.08 0.07
Matches are distributed among these distances:
32 69 0.33
33 17 0.08
34 18 0.09
35 107 0.51
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (34 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAACA
Found at i:24688782 original size:67 final size:67
Alignment explanation
Indices: 24688674--24688947 Score: 340
Period size: 67 Copynumber: 4.0 Consensus size: 67
24688664 GTCCAAAAAG
* * *
24688674 AAATAATACATGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAGAGATTCCCTGCA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
24688738 ACA
65 ACA
*
24688741 AAATAATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGAT-GTGAACAGGAAAGATTCCCTGCA
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCA
24688805 ACA
65 ACA
* * *
24688808 AAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATAATGCGTGAACAGGAGAGATTCCCTG
1 AAATAAT-CGTGAACAGGAGAGATTCCCTGCAA-GAAATAAT-CGTGAACAGGAAAGATTCCCTG
*
24688873 CAA-G
63 CAACA
* * * *
24688877 AAATGAT-GTGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGC
1 AAATAATCGTGAACAGGAGAGATTCCCTGCAAGA-AATAAT-CGTGAACAGGAAAGATTCCCTGC
*
24688941 AAGA
64 AACA
24688945 AAA
1 AAA
24688948 GACAAGTGAA
Statistics
Matches: 187, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
66 1 0.01
67 148 0.79
68 9 0.05
69 6 0.03
70 23 0.12
ACGTcount: A:0.41, C:0.18, G:0.23, T:0.18
Consensus pattern (67 bp):
AAATAATCGTGAACAGGAGAGATTCCCTGCAAGAAATAATCGTGAACAGGAAAGATTCCCTGCAA
CA
Found at i:24688857 original size:102 final size:102
Alignment explanation
Indices: 24688684--24688947 Score: 426
Period size: 102 Copynumber: 2.6 Consensus size: 102
24688674 AAATAATACA
* * *
24688684 TGAACAGGAGAGATTCCCTGCAA-GAAATGA--TGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
24688746 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
24688783 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
*
24688848 ATGCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
66 ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
* * * * *
24688885 TGAACAGGAAAGATTCCCTGCAACAGAATAATGCGTGAACAGGAAATATTCCCTGCAAGAAAA
1 TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAA
24688948 GACAAGTGAA
Statistics
Matches: 153, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
99 22 0.14
100 5 0.03
102 126 0.82
ACGTcount: A:0.40, C:0.18, G:0.23, T:0.18
Consensus pattern (102 bp):
TGAACAGGAAAGATTCCCTGCAACAAAATAATGTGTGAACAGGAGAGATTCCCTGCAACAAAATA
ATCCGTGAACAGGAGAGATTCCCTGCAAGAAATGATG
Found at i:24693235 original size:21 final size:22
Alignment explanation
Indices: 24693205--24693249 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
24693195 GAGCAAATTG
24693205 TTGATTCTATTTCCTTTTTG-AT
1 TTGATTCTA-TTCCTTTTTGTAT
*
24693227 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCCTTTTTGTAT
24693248 TT
1 TT
24693250 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCCTTTTTGTAT
Found at i:24695136 original size:35 final size:34
Alignment explanation
Indices: 24695085--24695341 Score: 274
Period size: 35 Copynumber: 7.6 Consensus size: 34
24695075 TTGTCTTTTC
* * *
24695085 TTGCAGGGAATATTTCCTGTTTACGCATTATTCTG
1 TTGCAGGGAATCTCTCCTGTTTACACATTATT-TG
* * *
24695120 TTGCAGGGAATCTTTCCTG-TT-CACATCATTTC
1 TTGCAGGGAATCTCTCCTGTTTACACATTATTTG
* *
24695152 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTTACACATTA-TTTG
*
24695187 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTTACACATTA-TTTG
* * * *
24695222 TTTCAGGGAATCTTTCCTG-TT-CACATCATTTC
1 TTGCAGGGAATCTCTCCTGTTTACACATTATTTG
* **
24695254 TTGCAGGGAATCTCTCCTGTTCACGGATTATTTTG
1 TTGCAGGGAATCTCTCCTGTTTACACATTA-TTTG
* *
24695289 TTGCAGGGAATCTCTCCTG-TT-CACATCATTTC
1 TTGCAGGGAATCTCTCCTGTTTACACATTATTTG
24695321 TTGCAGGGAATCTCTCCTGTT
1 TTGCAGGGAATCTCTCCTGTT
24695342 CATGTATTAT
Statistics
Matches: 188, Mismatches: 27, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
32 61 0.32
33 20 0.11
34 13 0.07
35 94 0.50
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.40
Consensus pattern (34 bp):
TTGCAGGGAATCTCTCCTGTTTACACATTATTTG
Found at i:24695189 original size:67 final size:64
Alignment explanation
Indices: 24695081--24695343 Score: 294
Period size: 67 Copynumber: 3.9 Consensus size: 64
24695071 TCACTTGTCT
* * * * * *
24695081 TTTCTTGCAGGGAATATTTCCTGTTTACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACAT
1 TTTCTTGCAGGGAATCTCTCCTG-TT-CACATCATT-TCTTGCAGGGAATCTCTCCTGTTCACAT
24695146 CA
63 CA
* *
24695148 TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACA-
1 TTTCTTGCAGGGAATCTCTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACAT
24695212 CA
63 CA
* *
24695214 TTATTTTGTTTCAGGGAATCTTTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACG
1 TT-TCTTG---CAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCAC-
*
24695279 GATTA
61 -ATCA
*
24695284 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCA
24695344 TGTATTATTT
Statistics
Matches: 174, Mismatches: 11, Indels: 22
0.84 0.05 0.11
Matches are distributed among these distances:
65 1 0.01
66 6 0.03
67 134 0.77
68 6 0.03
69 1 0.01
70 24 0.14
71 2 0.01
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (64 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACATCATTTCTTGCAGGGAATCTCTCCTGTTCACATCA
Found at i:24695261 original size:102 final size:101
Alignment explanation
Indices: 24695080--24695343 Score: 399
Period size: 102 Copynumber: 2.6 Consensus size: 101
24695070 TTCACTTGTC
* * * * * *
24695080 TTTTCTTGCAGGGAATATTTCCTGTTTACGCATTATTCTGTTGCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTT-CAGGGAATCTTTCCTGTTCACA
24695145 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
65 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
24695182 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTTCAGGGAATCTTTCCTGTTCACA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTG-TTCAGGGAATCTTTCCTGTTCACA
*
24695247 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGGATTA
65 TCATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
* *
24695284 TTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT-TCTTG--CAGGGAATCTCTCCTGTTCA
1 TTTTGTTGCAGGGAATCTCTCCTGTTCACA-CATTATTTTGTTCAGGGAATCTTTCCTGTTCA
24695344 TGTATTATTT
Statistics
Matches: 151, Mismatches: 9, Indels: 7
0.90 0.05 0.04
Matches are distributed among these distances:
99 19 0.13
102 126 0.83
103 6 0.04
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (101 bp):
TTTTGTTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTCAGGGAATCTTTCCTGTTCACAT
CATTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
Found at i:24695351 original size:67 final size:67
Alignment explanation
Indices: 24695120--24695353 Score: 321
Period size: 67 Copynumber: 3.5 Consensus size: 67
24695110 CATTATTCTG
* * * *
24695120 TTGCAGGGAATCTTTCCTGTTCA--CATCA-TTTCTTGCAGGGAATCTCTCCTGTTCACGCATTA
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCA--CATCA
*
24695182 TTTTG
64 -TTTC
* * *
24695187 TTGCAGGGAATCTCTCCTGTTCACACATTATTTTGTTTCAGGGAATCTTTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
24695252 TC
66 TC
*
24695254 TTGCAGGGAATCTCTCCTGTTCACGGATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
24695319 TC
66 TC
* *
24695321 TTGCAGGGAATCTCTCCTGTTCATGTATTATTT
1 TTGCAGGGAATCTCTCCTGTTCACGCATTATTT
24695354 CTTTTTGGAC
Statistics
Matches: 151, Mismatches: 13, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
67 119 0.79
68 4 0.03
69 4 0.03
70 24 0.16
ACGTcount: A:0.18, C:0.23, G:0.18, T:0.41
Consensus pattern (67 bp):
TTGCAGGGAATCTCTCCTGTTCACGCATTATTTTGTTGCAGGGAATCTCTCCTGTTCACATCATT
TC
Done.