Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 38 of 132
Found at i:10250535 original size:18 final size:18
Alignment explanation
Indices: 10250514--10250560 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
10250504 CATTCAAACT
10250514 TGTGGCTGCATCTGAGTA
1 TGTGGCTGCATCTGAGTA
*
10250532 TGTGGCTACATCTGAGTA
1 TGTGGCTGCATCTGAGTA
*
10250550 TGTGACTGCAT
1 TGTGGCTGCAT
10250561 TTGGTTCTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.19, C:0.17, G:0.30, T:0.34
Consensus pattern (18 bp):
TGTGGCTGCATCTGAGTA
Found at i:10255256 original size:52 final size:52
Alignment explanation
Indices: 10255171--10255357 Score: 259
Period size: 52 Copynumber: 3.6 Consensus size: 52
10255161 TAAATGAAAA
* * *
10255171 AGGTCCGATGACTACGTGTCATTGTGAGTATATGAATCCTTTAAGGATTATG
1 AGGTCCGATGAATACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * *
10255223 AGGTCTGATGAATACGTGTCATCATGAGCATATGAATCCTTTACGGATTATG
1 AGGTCCGATGAATACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
* * * *
10255275 AGGTCTGATTACTACGTGTCATCGTGAGTATATGAATCCTTTACTGATTATG
1 AGGTCCGATGAATACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
*
10255327 AGGTCCGAT-AACTAGGTGTCATCGTGAGTAT
1 AGGTCCGATGAA-TACGTGTCATCGTGAGTAT
10255358 GTGATTCTTA
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
51 1 0.01
52 119 0.99
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (52 bp):
AGGTCCGATGAATACGTGTCATCGTGAGTATATGAATCCTTTACGGATTATG
Found at i:10256834 original size:29 final size:28
Alignment explanation
Indices: 10256802--10256867 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
10256792 AGAGTAAAAA
10256802 AATTTTTA-TAAATATTAAATTATTTATAT
1 AATTTTTATTAAATATTAAATT-TTT-TAT
* *
10256831 AA-TTTTATTATATATTATATTTTTTAT
1 AATTTTTATTAAATATTAAATTTTTTAT
*
10256858 AATTTGTATT
1 AATTTTTATT
10256868 TTATATTCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.16
28 14 0.44
29 13 0.41
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
AATTTTTATTAAATATTAAATTTTTTAT
Found at i:10261644 original size:18 final size:18
Alignment explanation
Indices: 10261621--10261663 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
10261611 ATTCAAGGTG
10261621 TAATTAATTTAAATTT-TT
1 TAATTAA-TTAAATTTATT
10261639 TAATTAATTAAATTTATT
1 TAATTAATTAAATTTATT
10261657 TAATTAA
1 TAATTAA
10261664 AAACCTATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAAATTTATT
Found at i:10274250 original size:8 final size:8
Alignment explanation
Indices: 10274239--10274296 Score: 53
Period size: 9 Copynumber: 6.6 Consensus size: 8
10274229 AAAAAAACCA
10274239 AAAAAAAG
1 AAAAAAAG
10274247 AAAAAAAAGG
1 -AAAAAAA-G
10274257 AAAAAAGAG
1 AAAAAA-AG
10274266 AAAAGAAAAG
1 -AAA-AAAAG
*
10274276 GAAAAAAG
1 AAAAAAAG
*
10274284 AAGAAAAG
1 AAAAAAAG
10274292 AAAAA
1 AAAAA
10274297 GAAAAAGGGG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 15 0.37
9 16 0.39
10 7 0.17
11 3 0.07
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10274252 original size:20 final size:20
Alignment explanation
Indices: 10274227--10274302 Score: 84
Period size: 19 Copynumber: 3.8 Consensus size: 20
10274217 GAAATTTCAA
**
10274227 AAAAAAAAACCAAAAAAAAG
1 AAAAAAAAAGGAAAAAAAAG
*
10274247 -AAAAAAAAGGAAAAAAGAG
1 AAAAAAAAAGGAAAAAAAAG
*
10274266 AAAAGAAAAGGAAAAAAGAAG
1 AAAAAAAAAGGAAAAAA-AAG
10274287 AAAAGAAAAA-GAAAAA
1 AAAA-AAAAAGGAAAAA
10274303 GGGGAGGTCG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
19 16 0.34
20 15 0.32
21 12 0.26
22 4 0.09
ACGTcount: A:0.82, C:0.03, G:0.16, T:0.00
Consensus pattern (20 bp):
AAAAAAAAAGGAAAAAAAAG
Found at i:10274262 original size:21 final size:21
Alignment explanation
Indices: 10274238--10274302 Score: 89
Period size: 21 Copynumber: 3.2 Consensus size: 21
10274228 AAAAAAAACC
10274238 AAAAAAAAGAAAA-AAAAGG-
1 AAAAAAAAGAAAAGAAAAGGA
*
10274257 AAAAAAGAGAAAAGAAAAGGA
1 AAAAAAAAGAAAAGAAAAGGA
* *
10274278 AAAAAGAAGAAAAGAAAAAGA
1 AAAAAAAAGAAAAGAAAAGGA
10274299 AAAA
1 AAAA
10274303 GGGGAGGTCG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 12 0.30
20 6 0.15
21 22 0.55
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (21 bp):
AAAAAAAAGAAAAGAAAAGGA
Found at i:10274269 original size:28 final size:31
Alignment explanation
Indices: 10274238--10274302 Score: 55
Period size: 32 Copynumber: 2.2 Consensus size: 31
10274228 AAAAAAAACC
* *
10274238 AAAAAAAA-GAAAAAA-AAGGAAA-AAAGAG
1 AAAAAAAAGGAAAAAAGAAGAAAAGAAAAAG
* * *
10274266 AAAAGAAAAGGAAAAAAGAAGAAAAGAAAAAG
1 AAAAAAAAGGAAAA-AAGAAGAAAAGAAAAAG
10274298 AAAAA
1 AAAAA
10274303 GGGGAGGTCG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
28 7 0.25
29 4 0.14
30 2 0.07
31 6 0.21
32 9 0.32
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (31 bp):
AAAAAAAAGGAAAAAAGAAGAAAAGAAAAAG
Found at i:10274304 original size:28 final size:28
Alignment explanation
Indices: 10274249--10274301 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
10274239 AAAAAAAGAA
10274249 AAAAAAGGAAAAAAGAGAAAAGAAAAGG
1 AAAAAAGGAAAAAAGAGAAAAGAAAAGG
10274277 AAAAAA-GAAGAAAAGA-AAAAGAAAA
1 AAAAAAGGAA-AAAAGAGAAAAGAAAA
10274302 AGGGGAGGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 12 0.50
28 12 0.50
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (28 bp):
AAAAAAGGAAAAAAGAGAAAAGAAAAGG
Found at i:10275080 original size:14 final size:14
Alignment explanation
Indices: 10275061--10275088 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10275051 AAACGTTCTC
10275061 AAAGATGACATTTT
1 AAAGATGACATTTT
10275075 AAAGATGACATTTT
1 AAAGATGACATTTT
10275089 TGCATTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
AAAGATGACATTTT
Found at i:10275414 original size:50 final size:50
Alignment explanation
Indices: 10275238--10275413 Score: 228
Period size: 50 Copynumber: 3.5 Consensus size: 50
10275228 ATCTTTTAGC
*
10275238 CCTAAAGCTGTGGAGGTGAAGATTGAAACTGCAATGGCAAATCTCATACA
1 CCTAAAGCTGTAGAGGTGAAGATTGAAACTGCAATGGCAAATCTCATACA
* * ** *
10275288 CCTAAAGCTGTGGA-GTGCAGATTGAAACCACAATGGTAAATCTCATACA
1 CCTAAAGCTGTAGAGGTGAAGATTGAAACTGCAATGGCAAATCTCATACA
* * * * * *
10275337 CCTAAAGCTGTAGAGGGGTAGAATGAAGCTGCAATGACAAATCTCATTCA
1 CCTAAAGCTGTAGAGGTGAAGATTGAAACTGCAATGGCAAATCTCATACA
*
10275387 CCTAAAGCTGTAGAGGAGAAGATTGAA
1 CCTAAAGCTGTAGAGGTGAAGATTGAA
10275414 GTCACAAGGA
Statistics
Matches: 108, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
49 44 0.41
50 64 0.59
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (50 bp):
CCTAAAGCTGTAGAGGTGAAGATTGAAACTGCAATGGCAAATCTCATACA
Found at i:10275543 original size:40 final size:40
Alignment explanation
Indices: 10275472--10276240 Score: 305
Period size: 40 Copynumber: 19.3 Consensus size: 40
10275462 ACAACCTCCA
* * *
10275472 ATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACCATTAG
1 ATCTTTTACCCTGATCATG-GGG-AAGATTGAAGACCATCAG
* *
10275513 ATCTTTTACTCTGATCATGGGGAAGATTGAAGA-AATCCA-
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCAT-CAG
* * **
10275552 ATCTTTTACCCTAACCA-GGGGCAAGATTGAAGACCATCCT
1 ATCTTTTACCCTGATCATGGGG-AAGATTGAAGACCATCAG
* * * *
10275592 ATCTTTTACCCCGATCATGAGGTAGATTGAAGA-AATCCA-
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCAT-CAG
* * * * *
10275631 ATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACCATCCG
1 ATCTTTTACCCTGA-TCATGGGGAAGATTGAAGACCATCAG
* *
10275672 ATCTTTTACCCT-AAC-TAGAGGGCAAGATTGAAGATCATTC-G
1 ATCTTTTACCCTGATCAT-G-GGG-AAGATTGAAGACCA-TCAG
* * *
10275713 ATCTTTTACCCCGATCATGGGGCAGATTGAAGA-AATCCA-
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCAT-CAG
* *
10275752 ATCTTTTACCCT-AAC-TAGAGGGCAAGATTGAAGACCATCCG
1 ATCTTTTACCCTGATCAT-G-GGG-AAGATTGAAGACCATCAG
** * ** *
10275793 ATCTTTTACCCCAATCATGAGGCGGATTGAAGA-AATCCA-
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCAT-CAG
* * * *
10275832 ATCTTTGACCCT-AAC-TAGAGGGCAA-ACTTGAATACCATCCG
1 ATCTTTTACCCTGATCAT-G-GGG-AAGA-TTGAAGACCATCAG
* *
10275873 ATCTTTTACCCTGATCAT-GGAACAGATTGAAGA-AATCCA-
1 ATCTTTTACCCTGATCATGGGGA-AGATTGAAGACCAT-CAG
* *
10275912 ATCTTTTACCCTAACCA-GAGGGTAAGATTGAAGACCATTC-G
1 ATCTTTTACCCTGATCATG-GGG-AAGATTGAAGACCA-TCAG
** * * * *
10275953 ATCTTTTACCCCAATCATGGTGCAGATTGAAAACTATCTA-
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCATC-AG
* * *
10275993 ATTTTTTACCCTAATCA-GAGGGCAGATTGAAGACCATCTA-
1 ATCTTTTACCCTGATCATG-GGGAAGATTGAAGACCATC-AG
* * * *
10276033 ATCTTTTACCCTAATCA-GAGGGCAGATTGAAGGCAATCCA-
1 ATCTTTTACCCTGATCATG-GGGAAGATTGAAGACCAT-CAG
* ** * * *
10276073 ATCTCTTACCCCAACCATGGGGCAGATTGAA-ACAATCCA-
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCAT-CAG
* * ** * *
10276112 ATCTTTTACCCTAACCA-AAGCACAGATTGAAG-CAATCCA-
1 ATCTTTTACCCTGATCATGGGGA-AGATTGAAGACCAT-CAG
* * * * * * *
10276151 ATCTTTTACCCTAACCATAGAGTAGATTAAAGACTATCAG
1 ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCATCAG
* * * *
10276191 ATCTCTTACCCCGACCATGGGGCAA-ATTGAA-ACAATCCA-
1 ATCTTTTACCCTGATCATGGGG-AAGATTGAAGACCAT-CAG
10276230 ATCTTTTACCC
1 ATCTTTTACCC
10276241 CTAAAGTTAT
Statistics
Matches: 567, Mismatches: 105, Indels: 114
0.72 0.13 0.15
Matches are distributed among these distances:
37 2 0.00
38 12 0.02
39 173 0.31
40 250 0.44
41 114 0.20
42 13 0.02
43 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (40 bp):
ATCTTTTACCCTGATCATGGGGAAGATTGAAGACCATCAG
Found at i:10275760 original size:80 final size:80
Alignment explanation
Indices: 10275650--10276240 Score: 585
Period size: 80 Copynumber: 7.4 Consensus size: 80
10275640 CCTAACTAAA
* * *
10275650 GGGCAAGATTGAAGACCATCCGATCTTTTACCCTAACTAGAGGGCAAGATTGAAGATCATTCGAT
1 GGGC-AGATTGAAGA-AATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTCGAT
*
10275715 CTTTTACCCCGATCATG
64 CTTTTACCCCAATCATG
*
10275732 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATCCGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTCGATCT
10275797 TTTACCCCAATCATG
66 TTTACCCCAATCATG
* * * * *
10275812 AGGCGGATTGAAGAAATCCAATCTTTGACCCTAACTAGAGGGCAA-ACTTGAATACCATCCGATC
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGA-TTGAAGACCATTCGATC
**
10275876 TTTTACCCTGATCATG
65 TTTTACCCCAATCATG
** * *
10275892 GAACAGATTGAAGAAATCCAATCTTTTACCCTAACCAGAGGGTAAGATTGAAGACCATTCGATCT
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTCGATCT
10275957 TTTACCCCAATCATG
66 TTTACCCCAATCATG
* * * *
10275972 GTGCAGATTGAA-AACTATCTAATTTTTTACCCTAA-TCAGAGGGC-AGATTGAAGACCA-TCTA
1 GGGCAGATTGAAGAA--ATCCAATCTTTTACCCTAACT-AGAGGGCAAGATTGAAGACCATTC-G
*
10276033 ATCTTTTACCCTAATCA-G
62 ATCTTTTACCCCAATCATG
* * * * * * *
10276051 AGGGCAGATTGAAGGCAATCCAATCTCTTACCCCAACCATG-GGGC-AGATTGAA-ACAATCCAA
1 -GGGCAGATTGAA-GAAATCCAATCTTTTACCCTAACTA-GAGGGCAAGATTGAAGACCATTCGA
* * **
10276113 TCTTTTACCCTAACCAAA
63 TCTTTTACCCCAATCATG
** * * * * * * *
10276131 GCACAGATTGAAGCAATCCAATCTTTTACCCTAACCATAGAG-TAGATTAAAGACTA-TCAGATC
1 GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTC-GATC
* * *
10276194 TCTTACCCCGACCATG
65 TTTTACCCCAATCATG
*
10276210 GGGCAAATTGAA-ACAATCCAATCTTTTACCC
1 GGGCAGATTGAAGA-AATCCAATCTTTTACCC
10276241 CTAAAGTTAT
Statistics
Matches: 431, Mismatches: 60, Indels: 39
0.81 0.11 0.07
Matches are distributed among these distances:
78 33 0.08
79 79 0.18
80 279 0.65
81 35 0.08
82 5 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (80 bp):
GGGCAGATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATTCGATCT
TTTACCCCAATCATG
Found at i:10275871 original size:201 final size:200
Alignment explanation
Indices: 10275472--10276240 Score: 690
Period size: 200 Copynumber: 3.9 Consensus size: 200
10275462 ACAACCTCCA
* *
10275472 ATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATTAGATCTTTTACTCTGATCATGGGGAA
1 ATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATTAGATCTTTTACCCCGATCATGGGGAA
*
10275537 GATTGAAGAAATCCAATCTTTTACCCTAACCAGGGGCAAGATTGAAGACCATCCTATCTTTTACC
66 GATTGAAGAAATCCAATCTTTTACCCTAACCAGGGGCAAGATTGAAGACCATCCGATCTTTTACC
* * *
10275602 CCGATCATGAGGTAGATTGAAGAAATCCAATCTTTTACCCTAACTAAAGGGCAAGATTGAAGACC
131 CCAATCATGAGGCAGATTGAAGAAATCCAATCTTTGACCCTAACTAAAGGGCAAGATTGAAGACC
10275667 ATCCG
196 ATCCG
* * * *
10275672 ATCTTTTACCCTAACTAGAGGGCAAGATTGAAGATCATTCGATCTTTTACCCCGATCATGGGGCA
1 ATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATTAGATCTTTTACCCCGATCATGGGGAA
*
10275737 GATTGAAGAAATCCAATCTTTTACCCTAACTAGAGGGCAAGATTGAAGACCATCCGATCTTTTAC
66 GATTGAAGAAATCCAATCTTTTACCCTAACCAG-GGGCAAGATTGAAGACCATCCGATCTTTTAC
* * *
10275802 CCCAATCATGAGGCGGATTGAAGAAATCCAATCTTTGACCCTAACTAGAGGGCAA-ACTTGAATA
130 CCCAATCATGAGGCAGATTGAAGAAATCCAATCTTTGACCCTAACTAAAGGGCAAGA-TTGAAGA
10275866 CCATCCG
194 CCATCCG
* * * * * * ** *
10275873 ATCTTTTACCCTGATC--ATGGAACAGATTGAAGA-AATCCA-ATCTTTTACCCTAACCA-GAGG
1 ATCTTTTACCCTAACCAGAGGGCA-AGATTGAAGACCAT-TAGATCTTTTACCCCGATCATG-GG
* * * * * * * * ** *
10275933 GTAAGATTGAAGACCATTCGATCTTTTACCCCAATCATGGTGC-AGATTGAAAACTATCTAATTT
63 G-AAGATTGAAGA-AATCCAATCTTTTACCCTAACCA-GGGGCAAGATTGAAGACCATCCGATCT
* * * * *
10275997 TTTACCCTAATCA-GAGGGCAGATTGAAGACCATCTAATCTTTTACCCTAA-TCAGAGGGC-AGA
125 TTTACCCCAATCATGA-GGCAGATTGAAGA-AATCCAATCTTTGACCCTAACT-AAAGGGCAAGA
* * *
10276059 TTGAAGGCAATCCA
187 TTGAAGACCATCCG
* * * * ** * ** *
10276073 ATCTCTTACCCCAACCATG-GGGC-AGATTGAA-ACAATCCA-ATCTTTTACCCTAACCA-AAGC
1 ATCTTTTACCCTAACCA-GAGGGCAAGATTGAAGACCAT-TAGATCTTTTACCCCGATCATGGGG
* * * * * * * *
10276133 ACAGATTGAAGCAATCCAATCTTTTACCCTAACCATAGAG-TAGATTAAAGACTATCAGATCTCT
64 A-AGATTGAAGAAATCCAATCTTTTACCCTAACCA-GGGGCAAGATTGAAGACCATCCGATCTTT
* * * * *
10276197 TACCCCGACCATGGGGCAAATTGAA-ACAATCCAATCTTTTACCC
127 TACCCCAATCATGAGGCAGATTGAAGA-AATCCAATCTTTGACCC
10276241 CTAAAGTTAT
Statistics
Matches: 473, Mismatches: 77, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
197 17 0.04
198 58 0.12
199 37 0.08
200 207 0.44
201 151 0.32
202 3 0.01
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (200 bp):
ATCTTTTACCCTAACCAGAGGGCAAGATTGAAGACCATTAGATCTTTTACCCCGATCATGGGGAA
GATTGAAGAAATCCAATCTTTTACCCTAACCAGGGGCAAGATTGAAGACCATCCGATCTTTTACC
CCAATCATGAGGCAGATTGAAGAAATCCAATCTTTGACCCTAACTAAAGGGCAAGATTGAAGACC
ATCCG
Found at i:10276472 original size:155 final size:154
Alignment explanation
Indices: 10276265--10276608 Score: 478
Period size: 155 Copynumber: 2.2 Consensus size: 154
10276255 GGGCAAATTA
* * * * *
10276265 AAGCTACAA-AAGCAAACCCTATACCTCTAAAGTTATAGAGGGGCGAATTAAAACTCATAGTAGT
1 AAGCTA-AAGAAGCAAATCCTATACCCCTAAAGTTATAGAAGGGCGAATTAAAACTCACAATAGT
* *
10276329 AGACCTCGATCTTCATTGAAGTTACAAAGAAATAGAATGAAGCTACGAAGGTGAATCCTTATCTC
65 AGACCTCGATCTTCACTGAAGTTACAAAGAAATAGAATGAAGCTACGAAGGCGAATCCTTATCTC
* *
10276394 TCTGAAGTTTCAGTTAGAGTAAGATG
130 TCTGAAGTTGCAG-TAGAGCAAGATG
* *
10276420 AAGCTATAGAAGCAAATCCTATACCCCTAAAGTTGTAGAAGGGC-AGATTAAAACTCACAATAGT
1 AAGCTAAAGAAGCAAATCCTATACCCCTAAAGTTATAGAAGGGCGA-ATTAAAACTCACAATAGT
* * * * *
10276484 AGACCTTGATCTTCACTGAAGTTGCAAAGAAATAGAGTGAAGCTATGAAGGCGAATTCTTATCTC
65 AGACCTCGATCTTCACTGAAGTTACAAAGAAATAGAATGAAGCTACGAAGGCGAATCCTTATCTC
10276549 TCTGAAGTTGCAGTAGAGCAAGATG
130 TCTGAAGTTGCAGTAGAGCAAGATG
*
10276574 AAGCTACAAGAA-CAAATCCTATACCCTTAAAGTTA
1 AAGCTA-AAGAAGCAAATCCTATACCCCTAAAGTTA
10276609 AGTGGGTCGG
Statistics
Matches: 167, Mismatches: 19, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
154 40 0.24
155 127 0.76
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.25
Consensus pattern (154 bp):
AAGCTAAAGAAGCAAATCCTATACCCCTAAAGTTATAGAAGGGCGAATTAAAACTCACAATAGTA
GACCTCGATCTTCACTGAAGTTACAAAGAAATAGAATGAAGCTACGAAGGCGAATCCTTATCTCT
CTGAAGTTGCAGTAGAGCAAGATG
Found at i:10279252 original size:13 final size:14
Alignment explanation
Indices: 10279225--10279253 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10279215 CTTGATGACG
10279225 TGTTATTTGTGTGA
1 TGTTATTTGTGTGA
10279239 TGTTATTT-TGTGA
1 TGTTATTTGTGTGA
10279252 TG
1 TG
10279254 AGATATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.14, C:0.00, G:0.28, T:0.59
Consensus pattern (14 bp):
TGTTATTTGTGTGA
Found at i:10281279 original size:34 final size:34
Alignment explanation
Indices: 10281224--10281375 Score: 141
Period size: 34 Copynumber: 4.5 Consensus size: 34
10281214 ACACGGTTAA
*
10281224 CCATCCAACACA-CTAGATGCTCG-AATGAGCCAAT
1 CCATCCAACACACCAAG-TGCTCGTAA-GAGCCAAT
* * *
10281258 CTATCCAACACACCAAGTGCTCGTAAGAG-CTAG
1 CCATCCAACACACCAAGTGCTCGTAAGAGCCAAT
* *
10281291 CTCATCCAACACACCATA-TGCTCGTAAGAGCTAGT
1 C-CATCCAACACACCA-AGTGCTCGTAAGAGCCAAT
* * * *
10281326 CCCTCCAACACACCAGGTGCTCGTAGGAGCTAAT
1 CCATCCAACACACCAAGTGCTCGTAAGAGCCAAT
*
10281360 CCAACCAACACACCAA
1 CCATCCAACACACCAA
10281376 ATACACTATA
Statistics
Matches: 96, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
33 3 0.03
34 86 0.90
35 7 0.07
ACGTcount: A:0.34, C:0.34, G:0.15, T:0.17
Consensus pattern (34 bp):
CCATCCAACACACCAAGTGCTCGTAAGAGCCAAT
Found at i:10281334 original size:68 final size:68
Alignment explanation
Indices: 10281224--10281374 Score: 180
Period size: 68 Copynumber: 2.2 Consensus size: 68
10281214 ACACGGTTAA
* *
10281224 CCATCCAACACACTAGATGCTCGAATGAGCCAATCTATCCAACACACCAAGTGCTCGTAAGAGCT
1 CCATCCAACACACCAGATGCTCGAATGAGCCAATCCATCCAACACACCAAGTGCTCGTAAGAGCT
*
10281289 -AG
66 AAT
* * * * * *
10281291 CTCATCCAACACACCATATGCTCGTAA-GAGCTAGTCCCTCCAACACACCAGGTGCTCGTAGGAG
1 C-CATCCAACACACCAGATGCTCG-AATGAGCCAATCCATCCAACACACCAAGTGCTCGTAAGAG
10281355 CTAAT
64 CTAAT
*
10281360 CCAACCAACACACCA
1 CCATCCAACACACCA
10281375 AATACACTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 5
0.83 0.12 0.06
Matches are distributed among these distances:
67 1 0.01
68 66 0.93
69 4 0.06
ACGTcount: A:0.33, C:0.34, G:0.15, T:0.17
Consensus pattern (68 bp):
CCATCCAACACACCAGATGCTCGAATGAGCCAATCCATCCAACACACCAAGTGCTCGTAAGAGCT
AAT
Found at i:10284472 original size:16 final size:18
Alignment explanation
Indices: 10284438--10284476 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
10284428 TAAAATTTTT
*
10284438 AAAATATATACAATTTAA
1 AAAATATATACAATATAA
10284456 AAAATATATA-AA-ATAA
1 AAAATATATACAATATAA
10284472 AAAAT
1 AAAAT
10284477 GTAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATATATACAATATAA
Found at i:10293343 original size:51 final size:51
Alignment explanation
Indices: 10293260--10293452 Score: 262
Period size: 51 Copynumber: 3.8 Consensus size: 51
10293250 CTGTATAGGA
* * * * *
10293260 ATTCATATACTCACGATGACA-TTGAGTTATCGGACCGTTAATTCGTCATGG
1 ATTCATTTACTCACGATGACACTT-AGTCATCGGACCTTTAATCCGTAATGG
* * *
10293311 ATTCATTTACTCACAATGACACTTAATCATCGGACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAATGG
* **
10293362 ATTCATTTACTCACGATGACACTTAGTCATCGAACCTTTAATCCGTAATAA
1 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAATGG
10293413 ATTCATTTACTCACGATGACACTTAGTCATCGGACTCTTT
1 ATTCATTTACTCACGATGACACTTAGTCATCGGAC-CTTT
10293453 CGTTTATAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
51 119 0.95
52 6 0.05
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAATGG
Found at i:10297403 original size:52 final size:52
Alignment explanation
Indices: 10297335--10297494 Score: 191
Period size: 52 Copynumber: 3.1 Consensus size: 52
10297325 AAAAGGCGCC
* * *
10297335 CTTT-ATAGAATCAACCACAAAGACTACTTTTAACAGAATCAACCACAAAGG
1 CTTTCATAGAATCAACCACAAAGGCTACTTTTAACAAAATCAGCCACAAAGG
* * * *
10297386 CTTTCATAGAATCAACCATAAAGGCTCCTTTGAACAAAATCAGCCACAATGG
1 CTTTCATAGAATCAACCACAAAGGCTACTTTTAACAAAATCAGCCACAAAGG
* * * * *
10297438 CTTCCATAGAATCAGCTACAAAGGCTTC-TTTAACAAAATTAGCCACAAAGG
1 CTTTCATAGAATCAACCACAAAGGCTACTTTTAACAAAATCAGCCACAAAGG
10297489 -TTTCAT
1 CTTTCAT
10297495 TTAACAAAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
50 5 0.05
51 24 0.26
52 63 0.68
ACGTcount: A:0.40, C:0.24, G:0.12, T:0.24
Consensus pattern (52 bp):
CTTTCATAGAATCAACCACAAAGGCTACTTTTAACAAAATCAGCCACAAAGG
Found at i:10297439 original size:28 final size:27
Alignment explanation
Indices: 10297343--10297587 Score: 126
Period size: 28 Copynumber: 9.1 Consensus size: 27
10297333 CCCTTTATAG
* * * *
10297343 AATCAACCACAAAGACTACTTTTAACAG
1 AATCAGCCACAAAGGCT-CCTTTAACAA
* * * *
10297371 AATCAACCACAAAGG---CTTTCATAG
1 AATCAGCCACAAAGGCTCCTTTAACAA
* *
10297395 AATCAACCATAAAGGCTCCTTTGAACAA
1 AATCAGCCACAAAGGCTCCTTT-AACAA
* * *
10297423 AATCAGCCACAATGGCTTCC----ATAG
1 AATCAGCCACAAAGGC-TCCTTTAACAA
* *
10297447 AATCAGCTACAAAGGCTTCTTTAACAA
1 AATCAGCCACAAAGGCTCCTTTAACAA
* * *
10297474 AATTAGCCACAAAGGTTTCATTTAACAA
1 AATCAGCCACAAAGG-CTCCTTTAACAA
* * *
10297502 AATCAGCCACAAAGACTTCCTTTAATAG
1 AATCAGCCACAAAGGC-TCCTTTAACAA
* **
10297530 AATCAGCCACAAAGACTTATTTTAACAA
1 AATCAGCCACAAAGGC-TCCTTTAACAA
** * *
10297558 AATCAATCACAAATGCTTCCTTTTACAA
1 AATCAGCCACAAAGGC-TCCTTTAACAA
10297586 AA
1 AA
10297588 ACTGTTGTTT
Statistics
Matches: 166, Mismatches: 40, Indels: 22
0.73 0.18 0.10
Matches are distributed among these distances:
23 2 0.01
24 36 0.22
27 19 0.11
28 106 0.64
29 3 0.02
ACGTcount: A:0.42, C:0.24, G:0.10, T:0.24
Consensus pattern (27 bp):
AATCAGCCACAAAGGCTCCTTTAACAA
Found at i:10297540 original size:56 final size:55
Alignment explanation
Indices: 10297447--10297587 Score: 151
Period size: 56 Copynumber: 2.5 Consensus size: 55
10297437 GCTTCCATAG
* * **
10297447 AATCAGCTACAAAGGCTT-CTTTAACAAAATTAGCCACAAAGGTTTCA-TTTAACAA
1 AATCAGCCACAAA-GCTTCCTTTAACAAAATCAGCCACAAAGACTT-ATTTTAACAA
* *
10297502 AATCAGCCACAAAGACTTCCTTTAATAGAATCAGCCACAAAGACTTATTTTAACAA
1 AATCAGCCACAAAG-CTTCCTTTAACAAAATCAGCCACAAAGACTTATTTTAACAA
** *
10297558 AATCAATCACAAATGCTTCCTTTTACAAAA
1 AATCAGCCACAAA-GCTTCCTTTAACAAAA
10297588 ACTGTTGTTT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
54 1 0.01
55 16 0.23
56 53 0.75
57 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.09, T:0.27
Consensus pattern (55 bp):
AATCAGCCACAAAGCTTCCTTTAACAAAATCAGCCACAAAGACTTATTTTAACAA
Found at i:10304262 original size:31 final size:31
Alignment explanation
Indices: 10304227--10304327 Score: 88
Period size: 31 Copynumber: 3.4 Consensus size: 31
10304217 TTAATTTAAC
10304227 ATTTGGTATCTGAACTTGACACTTTTTTCTA
1 ATTTGGTATCTGAACTTGACACTTTTTTCTA
* *
10304258 ATTTGGTA-CTTAAACTT-----TTTTTTACCCA
1 ATTTGGTATC-TGAACTTGACACTTTTTT--CTA
* * *
10304286 ATTTGGTACCTGAACTTGACACATTTTCCTA
1 ATTTGGTATCTGAACTTGACACTTTTTTCTA
10304317 ATTTGGTATCT
1 ATTTGGTATCT
10304328 AAATTTTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 18
0.68 0.09 0.23
Matches are distributed among these distances:
26 6 0.11
28 16 0.30
29 1 0.02
30 1 0.02
31 26 0.48
33 4 0.07
ACGTcount: A:0.24, C:0.18, G:0.12, T:0.47
Consensus pattern (31 bp):
ATTTGGTATCTGAACTTGACACTTTTTTCTA
Found at i:10304396 original size:60 final size:59
Alignment explanation
Indices: 10304227--10304397 Score: 209
Period size: 59 Copynumber: 2.9 Consensus size: 59
10304217 TTAATTTAAC
* * ** *
10304227 ATTTGGTATCTGAACTTGACACTTTTTT-CTAATTTGGTACTTAAACTTTTTTTTACCCA
1 ATTTGGTACCTGAACTTGACA-TTTTTTCCTAATTTGGTACCTAAACTTTTTTGGACCAA
** * *
10304286 ATTTGGTACCTGAACTTGACACATTTTCCTAATTTGGTATCTAAATTTTTTTGGACCAA
1 ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTGGACCAA
* * *
10304345 ATTTTGTACTTGAACTTGACATTTTTTCCCTAATTTGGTACCTAAGCTTTTTT
1 ATTTGGTACCTGAACTTGACATTTTTT-CCTAATTTGGTACCTAAACTTTTTT
10304398 TAAGATTCAA
Statistics
Matches: 94, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
58 4 0.04
59 68 0.72
60 22 0.23
ACGTcount: A:0.24, C:0.17, G:0.12, T:0.47
Consensus pattern (59 bp):
ATTTGGTACCTGAACTTGACATTTTTTCCTAATTTGGTACCTAAACTTTTTTGGACCAA
Found at i:10304693 original size:31 final size:31
Alignment explanation
Indices: 10304618--10304706 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 31
10304608 GGACCCCAAA
*
10304618 AAGTTTAAGTACCAACTTA-AAAAAAGGTGTC
1 AAGTTT-AGTACCAAATTAGAAAAAAGGTGTC
*
10304649 AAGTTTAGATACCAAATTAGAAAAAA-GTGTG
1 AAGTTTAG-TACCAAATTAGAAAAAAGGTGTC
* *
10304680 ACGTTTGAGTACCAAATTGGATAAAAA
1 AAGTTT-AGTACCAAATTAGA-AAAAA
10304707 AAAAGTTTAG
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
30 2 0.04
31 35 0.70
32 13 0.26
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (31 bp):
AAGTTTAGTACCAAATTAGAAAAAAGGTGTC
Found at i:10304782 original size:18 final size:18
Alignment explanation
Indices: 10304759--10304798 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
10304749 ACCAAATATT
*
10304759 ATATT-AAATCATTTAAAA
1 ATATTAAAAT-ATTAAAAA
10304777 ATATTAAAATATTAAAAA
1 ATATTAAAATATTAAAAA
10304795 ATAT
1 ATAT
10304799 GTTTATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATTAAAATATTAAAAA
Found at i:10308095 original size:18 final size:17
Alignment explanation
Indices: 10308048--10308096 Score: 71
Period size: 18 Copynumber: 2.8 Consensus size: 17
10308038 AAGTCATTAT
10308048 ATAATATCCAAATACAA
1 ATAATATCCAAATACAA
*
10308065 ATAATGTCCCAAATACAA
1 ATAATAT-CCAAATACAA
10308083 ATAATATCTCAAAT
1 ATAATATC-CAAAT
10308097 GTAGCACAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 7 0.25
18 21 0.75
ACGTcount: A:0.53, C:0.18, G:0.02, T:0.27
Consensus pattern (17 bp):
ATAATATCCAAATACAA
Found at i:10311042 original size:30 final size:29
Alignment explanation
Indices: 10310974--10311112 Score: 165
Period size: 30 Copynumber: 4.7 Consensus size: 29
10310964 GAAAAGTTCG
*
10310974 AGGGTTAAAAT-T-ATTTTTTGATAAGTTT
1 AGGGTTAAAATGTAATTTTTGGA-AAGTTT
* *
10311002 AAGGTCAAAATGTAATTTTTGGAAAGTTT
1 AGGGTTAAAATGTAATTTTTGGAAAGTTT
10311031 AGGGGTTAAAATGTAATTTTTGGAAAGTTT
1 A-GGGTTAAAATGTAATTTTTGGAAAGTTT
* *
10311061 AAGGTCAAAATGTAATTTTTGGAAAGTTTT
1 AGGGTTAAAATGTAATTTTTGGAAAG-TTT
* *
10311091 GGGGGTTAAAATGTATTTTTTG
1 -AGGGTTAAAATGTAATTTTTG
10311113 AAATGTTCGG
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
28 9 0.09
29 31 0.33
30 38 0.40
31 17 0.18
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.42
Consensus pattern (29 bp):
AGGGTTAAAATGTAATTTTTGGAAAGTTT
Found at i:10311069 original size:59 final size:61
Alignment explanation
Indices: 10310975--10311112 Score: 221
Period size: 59 Copynumber: 2.3 Consensus size: 61
10310965 AAAAGTTCGA
*
10310975 GGGTTAAAAT-T-ATTTTTTGATAAGTTTAAGGTCAAAATGTAATTTTTGGAAAG-TTTAG
1 GGGTTAAAATGTAATTTTTGGATAAGTTTAAGGTCAAAATGTAATTTTTGGAAAGTTTTAG
*
10311033 GGGTTAAAATGTAATTTTTGGA-AAGTTTAAGGTCAAAATGTAATTTTTGGAAAGTTTTGG
1 GGGTTAAAATGTAATTTTTGGATAAGTTTAAGGTCAAAATGTAATTTTTGGAAAGTTTTAG
*
10311093 GGGTTAAAATGTATTTTTTG
1 GGGTTAAAATGTAATTTTTG
10311113 AAATGTTCGG
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
58 10 0.14
59 33 0.45
60 31 0.42
ACGTcount: A:0.33, C:0.01, G:0.23, T:0.43
Consensus pattern (61 bp):
GGGTTAAAATGTAATTTTTGGATAAGTTTAAGGTCAAAATGTAATTTTTGGAAAGTTTTAG
Found at i:10311887 original size:14 final size:15
Alignment explanation
Indices: 10311863--10311898 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10311853 TAAGGTTTTA
*
10311863 ATATATTTTTTATTT
1 ATATATTTTTTATAT
10311878 ATAT-TTTTTTATAT
1 ATATATTTTTTATAT
10311892 ATATATT
1 ATATATT
10311899 GCCTTAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATATATTTTTTATAT
Found at i:10312406 original size:13 final size:13
Alignment explanation
Indices: 10312370--10312399 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10312360 GTGTCAGATG
10312370 GTGGCAGAGGCAA
1 GTGGCAGAGGCAA
*
10312383 GTGGCAAAGGCAA
1 GTGGCAGAGGCAA
10312396 GTGG
1 GTGG
10312400 GTGAGGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.47, T:0.10
Consensus pattern (13 bp):
GTGGCAGAGGCAA
Found at i:10313125 original size:48 final size:48
Alignment explanation
Indices: 10313073--10313166 Score: 125
Period size: 48 Copynumber: 2.0 Consensus size: 48
10313063 CATTAAACTT
** * * * *
10313073 CGCTTCATCGATTTGGTCTACTTCTTTGTATCTCATCAGGAAGATGAC
1 CGCTTCATCGATTTAATCCACTTCTCTATATCTCATCAAGAAGATGAC
*
10313121 CGCTTCATTGATTTAATCCACTTCTCTATATCTCATCAAGAAGATG
1 CGCTTCATCGATTTAATCCACTTCTCTATATCTCATCAAGAAGATG
10313167 GATTTGGTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 39 1.00
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.37
Consensus pattern (48 bp):
CGCTTCATCGATTTAATCCACTTCTCTATATCTCATCAAGAAGATGAC
Found at i:10313365 original size:39 final size:40
Alignment explanation
Indices: 10313322--10313648 Score: 109
Period size: 39 Copynumber: 8.4 Consensus size: 40
10313312 GCCTCATGAT
* *
10313322 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCT-TGTCG
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
* * * * * ** * *
10313361 CGGGGTAAGAGATTGGCTGATGGTGATCT-ACCTCAGGCT
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
* * *
10313400 CGGGGTAAAAAATCGGATGGTTGCAATCTGCCC-CAAGCT
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
* * * *
10313439 CGGGGTAAGAGATTGACTGATGG-TG--ATTTGCCCT-AGGCT
1 CGGGGTAAAAGA-T--CGGATGGTTGCAATCTGCCCTCAGGCG
* * * * * * * * *
10313478 CAGGGTAAGAGATCAGATTGCTACAATCTACCC-CAAGCT
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
* * * * * * * ** * *
10313517 TGGGTTAAGAGATTGGCTGATGGTGATCTGCCC-CAAGCT
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
* * * *
10313556 CGGGGTAAAAGATTGAATGGTTACAATCTGCCCT-AGGCT
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
* * * * ** *
10313595 CGGGGTAAGAGATTGGTTGATTGTGATCTGCCCT-AGGCT
1 CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
10313634 CGGGGTAAAAGATCG
1 CGGGGTAAAAGATCG
10313649 AAATCTTCAT
Statistics
Matches: 210, Mismatches: 67, Indels: 22
0.70 0.22 0.07
Matches are distributed among these distances:
36 5 0.02
37 1 0.00
38 4 0.02
39 189 0.90
40 3 0.01
41 2 0.01
42 6 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (40 bp):
CGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTCAGGCG
Found at i:10313403 original size:78 final size:77
Alignment explanation
Indices: 10313321--10313648 Score: 388
Period size: 78 Copynumber: 4.2 Consensus size: 77
10313311 TGCCTCATGA
* ** *
10313321 TCGGGGTAAAAGATCGGATGGTTGCAATCTGCCCTTGTCGCGGGGTAAGAGATTGGCTGATGGTG
1 TCGGGGTAAAAGATCGGATGGTTACAATCTGCCCAAG-CTCGGGGTAAGAGATTGGCTGATGGTG
*
10313386 ATCT-ACCTCAGGC
65 ATCTGCCCT-AGGC
* * *
10313399 TCGGGGTAAAAAATCGGATGGTTGCAATCTGCCCCAAGCTCGGGGTAAGAGATTGACTGATGGTG
1 TCGGGGTAAAAGATCGGATGGTTACAATCTG-CCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
*
10313464 ATTTGCCCTAGGC
65 ATCTGCCCTAGGC
* * * * * * * *
10313477 TCAGGGTAAGAGATCAGATTGCTACAATCTACCCCAAGCTTGGGTTAAGAGATTGGCTGATGGTG
1 TCGGGGTAAAAGATCGGATGGTTACAATCT-GCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTG
* *
10313542 ATCTGCCCCAAGC
65 ATCTGCCCTAGGC
* * * * *
10313555 TCGGGGTAAAAGATTGAATGGTTACAATCTGCCCTAGGCTCGGGGTAAGAGATTGGTTGATTGTG
1 TCGGGGTAAAAGATCGGATGGTTACAATCTGCCC-AAGCTCGGGGTAAGAGATTGGCTGATGGTG
10313620 ATCTGCCCTAGGC
65 ATCTGCCCTAGGC
10313633 TCGGGGTAAAAGATCG
1 TCGGGGTAAAAGATCG
10313649 AAATCTTCAT
Statistics
Matches: 209, Mismatches: 37, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
77 3 0.01
78 199 0.95
79 7 0.03
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (77 bp):
TCGGGGTAAAAGATCGGATGGTTACAATCTGCCCAAGCTCGGGGTAAGAGATTGGCTGATGGTGA
TCTGCCCTAGGC
Found at i:10313576 original size:156 final size:156
Alignment explanation
Indices: 10313366--10313647 Score: 429
Period size: 156 Copynumber: 1.8 Consensus size: 156
10313356 TGTCGCGGGG
* * * *
10313366 TAAGAGATTGGCTGATGGTGATCTACCTCAGGCTCGGGGTAAAAAATCGGATGGTTGCAATCTGC
1 TAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAAATCGAATGGTTACAATCTGC
* *
10313431 CCCAAGCTCGGGGTAAGAGATTGACTGATGGTGATTTGCCCTAGGCTCAGGGTAAGAGATCAGAT
66 CCCAAGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCTAGGCTCAGGGTAAAAGATCAGAT
10313496 TGCTACAATCTACCCCAAGCTTGGGT
131 TGCTACAATCTACCCCAAGCTTGGGT
* * *
10313522 TAAGAGATTGGCTGATGGTGATCTGCCCCAAGCTCGGGGTAAAAGATTGAATGGTTACAATCTGC
1 TAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAAATCGAATGGTTACAATCTGC
* * ** * *
10313587 CCTAGGCTCGGGGTAAGAGATTGGTTGATTGTGATCTGCCCTAGGCTCGGGGTAAAAGATC
66 CCCAAGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCTAGGCTCAGGGTAAAAGATC
10313648 GAAATCTTCA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
156 111 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (156 bp):
TAAGAGATTGGCTGATGGTGATCTACCCCAAGCTCGGGGTAAAAAATCGAATGGTTACAATCTGC
CCCAAGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCTAGGCTCAGGGTAAAAGATCAGAT
TGCTACAATCTACCCCAAGCTTGGGT
Found at i:10313682 original size:41 final size:41
Alignment explanation
Indices: 10313636--10313732 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
10313626 CCTAGGCTCG
* * *
10313636 GGGTAAAAGA-TCGAAATCTTCATTCTGCCATTCTTGATTAA
1 GGGTAAAAGACT-GAAATCTTCAATCTACCATTCTTGACTAA
* *
10313677 GGGTAAAAGACTGGAATCTTCAATCTACCTTTCTTGACTAA
1 GGGTAAAAGACTGAAATCTTCAATCTACCATTCTTGACTAA
10313718 GGGTAAAAGACTGAA
1 GGGTAAAAGACTGAA
10313733 TGATGATGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 48 0.98
42 1 0.02
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (41 bp):
GGGTAAAAGACTGAAATCTTCAATCTACCATTCTTGACTAA
Found at i:10314144 original size:50 final size:49
Alignment explanation
Indices: 10313987--10314648 Score: 552
Period size: 50 Copynumber: 13.4 Consensus size: 49
10313977 CGGGTTTACT
** * *
10313987 GTTGCGGCCTCAACCTTTCCTTTAAAATCTT-TATGGTACCGGGTTCGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCTA-GGTACCGGGTTCGCC
* * * * * *
10314036 ATTGCGACCTTAACCTTTCCCATCACAT-TTC-ATGGTACTGGATTCACC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCTA-GGTACCGGGTTCGCC
* * *
10314084 GTTGTGGCCTCAATCTTTCCCATCACATCTTCTGAGGTACCGGGTTTGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AGGTACCGGGTTCGCC
* * * * * * *
10314134 GTTACAGCCTCAACCTTTCTCGTCACATCTTTTAAGGTACCGAGTTCGTC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AGGTACCGGGTTCGCC
* * * * * **
10314184 GTTGCGGCCTAAACCTTACCCTTCAAATCTTCTGAGGTACCGGATTCGTT
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AGGTACCGGGTTCGCC
** * ***
10314234 GTCACGGCCTCAACCTTTCCCGTCACATCTTCTAAGGTACCGGGTTTATC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AGGTACCGGGTTCGCC
* * * * * * *
10314284 ATTGCGACCACAACCTTTCCCTTCAAATATTC-ATGGTACCAGGTTCGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCTA-GGTACCGGGTTCGCC
* * * *
10314333 GTTGTGGCCTCAACCTTTCCCGTCGCATCTTCTAAGGTACCGGGTTCGTC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AGGTACCGGGTTCGCC
* * * *
10314383 GTTGCGGCCACAACCTTTCCCTTCAAATCTTCATA-GTACCAGGTTCGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTC-TAGGTACCGGGTTCGCC
* *
10314432 GTTGCGGCCTCAACCTTTCCCATCACAT-TTC-ATGGTACCGGATTTGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCTA-GGTACCGGGTTCGCC
* * * *
10314480 ATTGCAGCCTCAATCTTTCCCATCACAT-TTATGAGGTACCAGGG-TCGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCT-AGGTACC-GGGTTCGCC
* * * * *
10314529 GTAGCGGCATCAACCTTTCCCTTCAAATCTTC-ATGGTACCAGGTTCGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTCTA-GGTACCGGGTTCGCC
* * *
10314578 GTTGCGGCCTCAACCTTTCCCATCACGTCTTCTTAAGTACCGGGTTTGCC
1 GTTGCGGCCTCAACCTTTCCCATCACATCTTC-TAGGTACCGGGTTCGCC
* *
10314628 GTTGCGGCTTCAACCCTTCCC
1 GTTGCGGCCTCAACCTTTCCC
10314649 TGTCAAACCT
Statistics
Matches: 482, Mismatches: 113, Indels: 35
0.77 0.18 0.06
Matches are distributed among these distances:
46 1 0.00
48 84 0.17
49 165 0.34
50 228 0.47
51 4 0.01
ACGTcount: A:0.18, C:0.32, G:0.18, T:0.31
Consensus pattern (49 bp):
GTTGCGGCCTCAACCTTTCCCATCACATCTTCTAGGTACCGGGTTCGCC
Found at i:10314219 original size:100 final size:99
Alignment explanation
Indices: 10313966--10314653 Score: 549
Period size: 99 Copynumber: 7.0 Consensus size: 99
10313956 CCATCTTGTT
* * * * *
10313966 TTCTAAGGTATCGGGTT--TACTGTTGCGGCCTCAACCTTTCCTTTAAAATCTT-TATGGTACCG
1 TTCTAAGGTACCGGGTTCGT-C-GTTGCGGCCACAACCTTTCCCTTCAAATCTTCTA-GGTACCA
* * * * *
10314028 GGTTCGCCATTGCGACCTTAACCTTTCCCATCACAT-
63 GGTTCGCCGTTACGGCCTCAACCTTTCCCGTCACATC
* * * ** * * * * * *
10314064 TTC-ATGGTACTGGATTCACCGTTGTGGCCTCAATCTTTCCCATCACATCTTCTGAGGTACCGGG
1 TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTCT-AGGTACCAGG
* * *
10314128 TTTGCCGTTACAGCCTCAACCTTTCTCGTCACATC
65 TTCGCCGTTACGGCCTCAACCTTTCCCGTCACATC
* * *
10314163 TTTTAAGGTACCGAGTTCGTCGTTGCGGCCTA-AACCTTACCCTTCAAATCTTCTGAGGTACC-G
1 TTCTAAGGTACCGGGTTCGTCGTTGCGGCC-ACAACCTTTCCCTTCAAATCTTCT-AGGTACCAG
** *
10314226 GATTCGTTGTCACGGCCTCAACCTTTCCCGTCACATC
64 G-TTCGCCGTTACGGCCTCAACCTTTCCCGTCACATC
** * * *
10314263 TTCTAAGGTACCGGGTTTATCATTGCGACCACAACCTTTCCCTTCAAATATTC-ATGGTACCAGG
1 TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTCTA-GGTACCAGG
** *
10314327 TTCGCCGTTGTGGCCTCAACCTTTCCCGTCGCATC
65 TTCGCCGTTACGGCCTCAACCTTTCCCGTCACATC
10314362 TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTCATA-GTACCAGG
1 TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTC-TAGGTACCAGG
* *
10314426 TTCGCCGTTGCGGCCTCAACCTTTCCCATCACAT-
65 TTCGCCGTTACGGCCTCAACCTTTCCCGTCACATC
* * * * * * * * * * *
10314460 TTC-ATGGTACCGGATTTGCCATTGCAGCCTCAATCTTTCCCATCACAT-TTATGAGGTACCAGG
1 TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTCT-AGGTACCAGG
* * * *
10314523 GTCGCCG-TAGCGGCATCAACCTTTCCCTTCAAATC
65 TTCGCCGTTA-CGGCCTCAACCTTTCCCGTCACATC
* * * * * ** * *
10314558 TTC-ATGGTACCAGGTTCGCCGTTGCGGCCTCAACCTTTCCCATCACGTCTTCTTAAGTACCGGG
1 TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTC-TAGGTACCAGG
* * * *
10314622 TTTGCCGTTGCGGCTTCAACCCTTCCCTGTCA
65 TTCGCCGTTACGGCCTCAACCTTTCCC-GTCA
10314654 AACCTGTAGA
Statistics
Matches: 477, Mismatches: 92, Indels: 40
0.78 0.15 0.07
Matches are distributed among these distances:
95 1 0.00
96 4 0.01
97 104 0.22
98 85 0.18
99 158 0.33
100 124 0.26
101 1 0.00
ACGTcount: A:0.18, C:0.31, G:0.19, T:0.32
Consensus pattern (99 bp):
TTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTTCTAGGTACCAGGT
TCGCCGTTACGGCCTCAACCTTTCCCGTCACATC
Found at i:10314551 original size:146 final size:148
Alignment explanation
Indices: 10313987--10314603 Score: 477
Period size: 149 Copynumber: 4.2 Consensus size: 148
10313977 CGGGTTTACT
** * * * * * *
10313987 GTTGCGGCCTCAACCTTTCCTTTAAAATCTTTATGGTACCGGGTTCGCCATTGC-GACCTTAACC
1 GTTGCGGCCTCAACCTTTCCCATCACATATTCATGGTACCAGGTTCGCCATTGCAG-CCTCAACC
* * * * * * * * *
10314051 TTTCCCATCACAT-TTCAT--GGTACTGGATTCACCGTTGTGGCCTCAATCTTTCCCATCACATC
65 TTTCCCATCACATCTT-ATAAGGTACCGGGTTCGCCGTAGCGGCCACAACCTTTCCCTTCAAATC
* *
10314113 TTC-TGAGGTACCGGGTTTGCC
129 TTCAT-A-GTACCAGGTTCGCC
* * * * * * * * * * *
10314134 GTTACAGCCTCAACCTTTCTCGTCACATCTTTTAAGGTACC-GAGTTCGTCGTTGCGGCCTAAAC
1 GTTGCGGCCTCAACCTTTCCCATCACAT-ATTCATGGTACCAG-GTTCGCCATTGCAGCCTCAAC
* * * * * * ** * * *
10314198 CTTACCCTTCAAATCTTCTGAGGTACCGGATTCGTTGTCA-CGGCCTCAACCTTTCCCGTCACAT
64 CTTTCCCATCACATCTTATAAGGTACCGGGTTCGCCGT-AGCGGCCACAACCTTTCCCTTCAAAT
* ***
10314262 CTTC-TAAGGTACCGGGTTTATC
128 CTTCAT-A-GTACCAGGTTCGCC
* * * * * * **
10314284 ATTGCGACCACAACCTTTCCCTTCAAATATTCATGGTACCAGGTTCGCCGTTGTGGCCTCAACCT
1 GTTGCGGCCTCAACCTTTCCCATCACATATTCATGGTACCAGGTTCGCCATTGCAGCCTCAACCT
* * * * *
10314349 TTCCCGTCGCATCTTCTAAGGTACCGGGTTCGTCGTTGCGGCCACAACCTTTCCCTTCAAATCTT
66 TTCCCATCACATCTTATAAGGTACCGGGTTCGCCGTAGCGGCCACAACCTTTCCCTTCAAATCTT
10314414 CATAGTACCAGGTTCGCC
131 CATAGTACCAGGTTCGCC
* *
10314432 GTTGCGGCCTCAACCTTTCCCATCACAT-TTCATGGTACC-GGATTTGCCATTGCAGCCTCAATC
1 GTTGCGGCCTCAACCTTTCCCATCACATATTCATGGTACCAGG-TTCGCCATTGCAGCCTCAACC
*
10314495 TTTCCCATCACAT-TTATGAGGTACCAGGG-TCGCCGTAGCGG-CATCAACCTTTCCCTTCAAAT
65 TTTCCCATCACATCTTATAAGGTACC-GGGTTCGCCGTAGCGGCCA-CAACCTTTCCCTTCAAAT
*
10314557 CTTCATGGTACCAGGTTCGCC
128 CTTCATAGTACCAGGTTCGCC
10314578 GTTGCGGCCTCAACCTTTCCCATCAC
1 GTTGCGGCCTCAACCTTTCCCATCAC
10314604 GTCTTCTTAA
Statistics
Matches: 384, Mismatches: 73, Indels: 27
0.79 0.15 0.06
Matches are distributed among these distances:
145 2 0.01
146 86 0.22
147 63 0.16
148 71 0.18
149 87 0.23
150 75 0.20
ACGTcount: A:0.19, C:0.32, G:0.18, T:0.31
Consensus pattern (148 bp):
GTTGCGGCCTCAACCTTTCCCATCACATATTCATGGTACCAGGTTCGCCATTGCAGCCTCAACCT
TTCCCATCACATCTTATAAGGTACCGGGTTCGCCGTAGCGGCCACAACCTTTCCCTTCAAATCTT
CATAGTACCAGGTTCGCC
Found at i:10315597 original size:19 final size:18
Alignment explanation
Indices: 10315582--10315623 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
10315572 TTTTTTTATT
10315582 TTTTTCCTTTTCTTTTTCC
1 TTTTTCCTTTT-TTTTTCC
10315601 TTTTTCCTTTTTTCTTT-C
1 TTTTTCCTTTTTT-TTTCC
10315619 TTTTT
1 TTTTT
10315624 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCCTTTTTTTTTCC
Found at i:10315637 original size:26 final size:25
Alignment explanation
Indices: 10315574--10315642 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 25
10315564 TTTCCCGTTT
*
10315574 TTTTTATTTTTTTCCTTTTCTTTTTCC
1 TTTTTATTTTTTT-C-TTTCTTTTTAC
** *
10315601 TTTTTCCTTTTTTCTTTCTTTTTAT
1 TTTTTATTTTTTTCTTTCTTTTTAC
10315626 TTATTTATTTTTTTCTT
1 TT-TTTATTTTTTTCTT
10315643 CATTGAATCC
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
25 11 0.31
26 13 0.37
27 11 0.31
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (25 bp):
TTTTTATTTTTTTCTTTCTTTTTAC
Found at i:10320485 original size:30 final size:30
Alignment explanation
Indices: 10320450--10320635 Score: 204
Period size: 30 Copynumber: 6.2 Consensus size: 30
10320440 AAGTTTCGGA
*
10320450 AAGTTTGAGAGTCAAAATGTAATTTTTGAG
1 AAGTTTGAGGGTCAAAATGTAATTTTTGAG
*
10320480 AAGTTTAAGGGTCAAAATGTAATTTTTGAG
1 AAGTTTGAGGGTCAAAATGTAATTTTTGAG
* *
10320510 AAGTTTGGGGGTTAAAATGTAATTTTTG-G
1 AAGTTTGAGGGTCAAAATGTAATTTTTGAG
* *
10320539 AAAGTTT-AGGGGTTACAATGTAATTTTTTGA-
1 -AAGTTTGA-GGGTCAAAATGTAA-TTTTTGAG
*
10320570 AA-TTTTAGGGTCAAAATGTAATTTTTTGA-
1 AAGTTTGAGGGTCAAAATGTAA-TTTTTGAG
* *
10320599 AAGTTTAAGGGTTAAAATGTAATTTTTG-G
1 AAGTTTGAGGGTCAAAATGTAATTTTTGAG
10320628 AAAGTTTG
1 -AAGTTTG
10320636 GGACCTTTTA
Statistics
Matches: 136, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
29 32 0.24
30 98 0.72
31 6 0.04
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (30 bp):
AAGTTTGAGGGTCAAAATGTAATTTTTGAG
Found at i:10320514 original size:60 final size:60
Alignment explanation
Indices: 10320450--10320635 Score: 238
Period size: 60 Copynumber: 3.1 Consensus size: 60
10320440 AAGTTTCGGA
* *
10320450 AAGTTTGAGAGTCAAAATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTAATTTTTGAG
1 AAGTTTGAGGGTCAAAATGTAATTTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTGAG
* * * *
10320510 AAGTTTGGGGGTTAAAATGTAATTTTTG-GAAAGTTTAGGGGTTACAATGTAATTTTTTGA-
1 AAGTTTGAGGGTCAAAATGTAATTTTTGAG-AAGTTTAAGGGTTAAAATGTAA-TTTTTGAG
*
10320570 AA-TTTTAGGGTCAAAATGTAATTTTTTGA-AAGTTTAAGGGTTAAAATGTAATTTTTG-G
1 AAGTTTGAGGGTCAAAATGTAA-TTTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTGAG
10320628 AAAGTTTG
1 -AAGTTTG
10320636 GGACCTTTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
58 6 0.06
59 39 0.36
60 55 0.51
61 7 0.07
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (60 bp):
AAGTTTGAGGGTCAAAATGTAATTTTTGAGAAGTTTAAGGGTTAAAATGTAATTTTTGAG
Found at i:10320595 original size:89 final size:90
Alignment explanation
Indices: 10320465--10320634 Score: 274
Period size: 89 Copynumber: 1.9 Consensus size: 90
10320455 TGAGAGTCAA
**
10320465 AATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTAA-TTTTTGAGAAGTTTGGGGGTTAAAATG
1 AATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTAATTTTTTGA-AAGTTTAAGGGTTAAAATG
10320529 TAATTTTTGGAAAGTTTAGGGGTTAC
65 TAATTTTTGGAAAGTTTAGGGGTTAC
*
10320555 AATGTAATTTTTTGA-AA-TTTTAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATG
1 AATGTAA-TTTTTGAGAAGTTTAAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATG
10320618 TAATTTTTGGAAAGTTT
65 TAATTTTTGGAAAGTTT
10320635 GGGACCTTTT
Statistics
Matches: 75, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
89 52 0.69
90 16 0.21
91 7 0.09
ACGTcount: A:0.34, C:0.02, G:0.23, T:0.42
Consensus pattern (90 bp):
AATGTAATTTTTGAGAAGTTTAAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATGT
AATTTTTGGAAAGTTTAGGGGTTAC
Found at i:10320611 original size:59 final size:60
Alignment explanation
Indices: 10320448--10320635 Score: 256
Period size: 59 Copynumber: 3.1 Consensus size: 60
10320438 TGAAGTTTCG
* *
10320448 GAAAGTTTGAGAGTCAAAATGTAA-TTTTTGAGAAGTTTAAGGGTCAAAATGTAA-TTTTT
1 GAAAGTTTGAGGGTCAAAATGTAATTTTTTGA-AAGTTTAAGGGTTAAAATGTAATTTTTT
* * * * *
10320507 GAGAAGTTTGGGGGTTAAAATGTAATTTTTGGAAAGTTTAGGGGTTACAATGTAATTTTTT
1 GA-AAGTTTGAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATGTAATTTTTT
* *
10320568 GAAA-TTTTAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATGTAATTTTTG
1 GAAAGTTTGAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATGTAATTTTTT
10320627 GAAAGTTTG
1 GAAAGTTTG
10320636 GGACCTTTTA
Statistics
Matches: 110, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
59 54 0.49
60 43 0.39
61 13 0.12
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (60 bp):
GAAAGTTTGAGGGTCAAAATGTAATTTTTTGAAAGTTTAAGGGTTAAAATGTAATTTTTT
Found at i:10321919 original size:13 final size:13
Alignment explanation
Indices: 10321883--10321912 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10321873 GATGGCGATG
10321883 GTGGCAGAGGCAA
1 GTGGCAGAGGCAA
*
10321896 GTGGCAAAGGCAA
1 GTGGCAGAGGCAA
10321909 GTGG
1 GTGG
10321913 GTGAGGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.47, T:0.10
Consensus pattern (13 bp):
GTGGCAGAGGCAA
Found at i:10322099 original size:17 final size:17
Alignment explanation
Indices: 10322077--10322109 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10322067 GCATTTGGAC
10322077 AATTTAAATTTAAAATA
1 AATTTAAATTTAAAATA
10322094 AATTTAAATTTAAAAT
1 AATTTAAATTTAAAAT
10322110 TGTATTTTAT
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:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:10327859 original size:15 final size:15
Alignment explanation
Indices: 10327839--10327868 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10327829 TTCAAAACAG
10327839 TAAATTTTGTTAAAT
1 TAAATTTTGTTAAAT
*
10327854 TAAATTTTTTTAAAT
1 TAAATTTTGTTAAAT
10327869 GTATTGGTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (15 bp):
TAAATTTTGTTAAAT
Found at i:10330036 original size:10 final size:10
Alignment explanation
Indices: 10330021--10330060 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
10330011 TATCTTAAAA
10330021 TATTTAAATT
1 TATTTAAATT
*
10330031 TATTTAAATAAA
1 TATTTAAAT--T
10330043 TATTTAAATT
1 TATTTAAATT
10330053 TATTTAAA
1 TATTTAAA
10330061 CAAATATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 17 0.65
12 9 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATTTAAATT
Found at i:10330076 original size:22 final size:22
Alignment explanation
Indices: 10330018--10330069 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
10330008 GATTATCTTA
*
10330018 AAATATTTAAATTTATTTAAAT
1 AAATATTTAAATTTATTTAAAC
10330040 AAATATTTAAATTTATTTAAAC
1 AAATATTTAAATTTATTTAAAC
10330062 AAATATTT
1 AAATATTT
10330070 TGGTTTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATATTTAAATTTATTTAAAC
Found at i:10337298 original size:70 final size:70
Alignment explanation
Indices: 10337181--10337327 Score: 206
Period size: 70 Copynumber: 2.1 Consensus size: 70
10337171 CAAAGATCAA
* * *
10337181 AATGAATTTAAGAATGATTGATTGTATGGTATGAGTATGAATAAAATGTTTGTCAAATTGAATAA
1 AATGAATTTAAGAATGATTAATTGTATGATATGAGTATAAATAAAATGTTTGTCAAATTGAATAA
10337246 GAACG
66 GAACG
* * * *
10337251 AATGAATTTAAGAATGATTAATTGTGTAGAT-TGAGTATAAATGAAATGTTTGTCGAATTGGATA
1 AATGAATTTAAGAATGATTAATTGTAT-GATATGAGTATAAATAAAATGTTTGTCAAATTGAATA
10337315 AGAACG
65 AGAACG
*
10337321 AAAGAAT
1 AATGAAT
10337328 GATTAGTAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 66 0.97
71 2 0.03
ACGTcount: A:0.42, C:0.03, G:0.22, T:0.33
Consensus pattern (70 bp):
AATGAATTTAAGAATGATTAATTGTATGATATGAGTATAAATAAAATGTTTGTCAAATTGAATAA
GAACG
Found at i:10340484 original size:15 final size:15
Alignment explanation
Indices: 10340464--10340495 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10340454 TAACAAAATT
*
10340464 ATAATAATGATAATG
1 ATAATAATAATAATG
10340479 ATAATAATAATAATG
1 ATAATAATAATAATG
10340494 AT
1 AT
10340496 GTGTCAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
ATAATAATAATAATG
Found at i:10343109 original size:15 final size:15
Alignment explanation
Indices: 10343089--10343134 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
10343079 TCATAAATTT
10343089 TTTTTCTTCTTTTTC
1 TTTTTCTTCTTTTTC
10343104 TTTTTCTTCCTTTTTC
1 TTTTTCTT-CTTTTTC
*
10343120 TCATTT-TTCTTTTTC
1 T-TTTTCTTCTTTTTC
10343135 AAGTGACTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 10 0.36
17 3 0.11
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTCTTCTTTTTC
Found at i:10354360 original size:13 final size:13
Alignment explanation
Indices: 10354339--10354368 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10354329 CACTACAATT
*
10354339 TTTAGTAAAAATA
1 TTTAATAAAAATA
10354352 TTTAATAAAAATA
1 TTTAATAAAAATA
10354365 TTTA
1 TTTA
10354369 CGAAAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.43
Consensus pattern (13 bp):
TTTAATAAAAATA
Found at i:10355308 original size:13 final size:14
Alignment explanation
Indices: 10355287--10355315 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10355277 CTCAGAGTGG
10355287 AAATCAAGGTATGA
1 AAATCAAGGTATGA
10355301 AAAT-AAGGTATGA
1 AAATCAAGGTATGA
10355314 AA
1 AA
10355316 TTCTCTACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.55, C:0.03, G:0.21, T:0.21
Consensus pattern (14 bp):
AAATCAAGGTATGA
Found at i:10356943 original size:15 final size:15
Alignment explanation
Indices: 10356904--10356943 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10356894 CGATGTTTTA
10356904 AATAATAAATTATAAT
1 AATAAT-AATTATAAT
**
10356920 AATGTTAATTATAAT
1 AATAATAATTATAAT
10356935 AATAATAAT
1 AATAATAAT
10356944 GTGATAGTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (15 bp):
AATAATAATTATAAT
Found at i:10363206 original size:19 final size:20
Alignment explanation
Indices: 10363182--10363228 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
10363172 TTGGTTTAAA
10363182 AAAGTCAACGATCAA-AGTC
1 AAAGTCAACGATCAACAGTC
* *
10363201 AAAGTCAATGATCAACGGTC
1 AAAGTCAACGATCAACAGTC
10363221 AAAGTCAA
1 AAAGTCAA
10363229 TAAGTCGGGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAGTCAACGATCAACAGTC
Found at i:10363261 original size:21 final size:21
Alignment explanation
Indices: 10363236--10363279 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
10363226 CAATAAGTCG
*
10363236 GGTCAACGGGCCAAAGTCAAT
1 GGTCAACGGGCCAAAGTAAAT
* *
10363257 GGTCAATGGGTCAAAGTAAAT
1 GGTCAACGGGCCAAAGTAAAT
10363278 GG
1 GG
10363280 GTCGATCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.16, G:0.32, T:0.18
Consensus pattern (21 bp):
GGTCAACGGGCCAAAGTAAAT
Found at i:10374649 original size:50 final size:52
Alignment explanation
Indices: 10374572--10374669 Score: 155
Period size: 50 Copynumber: 1.9 Consensus size: 52
10374562 CTAAAAAAGA
* *
10374572 AAAAAAAAGGAAGAGGTCGAGATGAAAACTCGCAAAGGGCGTTTCGAAAGCT
1 AAAAAAAAGGAAGAGGTCGAGATGAAAACCCGCAAAGGGCGTCTCGAAAGCT
*
10374624 AAAAAAAA-G-AGAGGTTGAGATGAAAACCCGCAAAGGGCGTCTCGAA
1 AAAAAAAAGGAAGAGGTCGAGATGAAAACCCGCAAAGGGCGTCTCGAA
10374670 GCCTAAGGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
50 34 0.79
51 1 0.02
52 8 0.19
ACGTcount: A:0.45, C:0.14, G:0.29, T:0.12
Consensus pattern (52 bp):
AAAAAAAAGGAAGAGGTCGAGATGAAAACCCGCAAAGGGCGTCTCGAAAGCT
Found at i:10375602 original size:50 final size:50
Alignment explanation
Indices: 10375466--10375603 Score: 132
Period size: 51 Copynumber: 2.7 Consensus size: 50
10375456 AGGGATTAGC
* * *
10375466 ACAACACCAACTCCTATATCCCTGAAGTTACAGTGGAATGGAGTAAAAAA
1 ACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGAATGGAGTAAAAAA
* * ** * * * * * ***
10375516 ACAATAGCGGATCTCAATCTCCCTAAAGTTGTAGTGGAATGGAGTGAAGTT
1 ACAACACCAAATCT-TATATCCCTGAAGTTGCAGTGGAATGGAGTAAAAAA
10375567 ACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGA
1 ACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGA
10375604 TCAGATTGAA
Statistics
Matches: 64, Mismatches: 23, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
50 27 0.42
51 37 0.58
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (50 bp):
ACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGAATGGAGTAAAAAA
Found at i:10375614 original size:50 final size:50
Alignment explanation
Indices: 10375560--10376023 Score: 188
Period size: 50 Copynumber: 9.2 Consensus size: 50
10375550 TGGAATGGAG
*
10375560 TGAAGTTACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGATCAGAT
1 TGAAGCTACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGATCAGAT
* * * * * * *
10375610 TGAAGCTAAAAAAACAAAT-TTTTATCTCTCTAAAGTTGCAGTAGAGCAAGA-
1 TGAAGCTACAACACCAAATCTTATATC-C-CTGAAGTTGCAGTGGATC-AGAT
* * * **
10375661 TGAAGCTACGAAAAAAACCAAATCCTATA-CCCTTGAAGTTGTAGTAGG-TTGGAT
1 TGAAGCTAC----AACACCAAATCTTATATCCC-TGAAGTTGCAGT-GGATCAGAT
** * * * *
10375715 TGAAGCTACAGA-AGAAAATATTTATCTCCCTGAAGTTACAGTGGAGCAAGA-
1 TGAAGCTACA-ACACCAAAT-CTTATATCCCTGAAGTTGCAGTGGATC-AGAT
* * * * * *
10375766 TGAAGCTACGACATCAAATCCTATATCCTTGAAGTTGTAGTGGATCAAAT
1 TGAAGCTACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGATCAGAT
** * * * * *
10375816 TGAATTTACGAA-AGCAAATATT-TATCTCTTTGAAG-T--AGTAGAGCAAGA-
1 TGAAGCTAC-AACACCAAATCTTATATC-C-CTGAAGTTGCAGTGGATC-AGAT
* *
10375864 TGAAGCTGCAACATCC-AATCTTATA-CCCATGAAGTTGCAGTAGG-TCGGAT
1 TGAAGCTACAACA-CCAAATCTTATATCCC-TGAAGTTGCAGT-GGATCAGAT
* * * * * * *
10375914 TGAAACTACAGA-AGCAAATCTTATTTCCCTGAAGATGTAGTGCAGCAAGA-
1 TGAAGCTACA-ACACCAAATCTTATATCCCTGAAGTTGCAGTGGATC-AGAT
* ** * *
10375964 TAAAATTACAACATCAAATCTTCTATCCCTGAAGTTGCAGTGGATCAGAT
1 TGAAGCTACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGATCAGAT
* *
10376014 TAAAGTTACA
1 TGAAGCTACA
10376024 TTAGCAGGCC
Statistics
Matches: 300, Mismatches: 76, Indels: 76
0.66 0.17 0.17
Matches are distributed among these distances:
47 8 0.03
48 20 0.07
49 25 0.08
50 137 0.46
51 65 0.22
52 8 0.03
53 3 0.01
54 20 0.07
55 11 0.04
56 3 0.01
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (50 bp):
TGAAGCTACAACACCAAATCTTATATCCCTGAAGTTGCAGTGGATCAGAT
Found at i:10375637 original size:101 final size:98
Alignment explanation
Indices: 10375532--10376014 Score: 314
Period size: 101 Copynumber: 4.8 Consensus size: 98
10375522 GCGGATCTCA
* *
10375532 ATCTCCCTAAAGTTGTAGTGGAATGGAGTGAAGTTACAACACCAAATCTTATATCCCTGAAGTTG
1 ATCTCCCTGAAGTTGTAGTGGAA--GA-TGAAGCTACAACACCAAATCTTATATCCCTGAAGTTG
*
10375597 CAGTGGATCAGATTGAAGCTAAAAAAACAAATTTTT
63 CAGTGGATCAGATTGAAGCTAAAAAAACAAATATTT
* * * * *
10375633 ATCTCTCTAAAGTTGCAGTAGAGCAAGATGAAGCTACGAAAAAAACCAAATCCTATA-CCCTTGA
1 ATCTCCCTGAAGTTGTAGT-G-G-AAGATGAAGCTAC----AACACCAAATCTTATATCCC-TGA
* ** * *
10375697 AGTTGTAGTAGG-TTGGATTGAAGCTACAGAAGA-AAATATTT
58 AGTTGCAGT-GGATCAGATTGAAGCTA-AAAAAACAAATATTT
** * * * *
10375738 ATCTCCCTGAAGTTACAGTGGAGCAAGATGAAGCTACGACATCAAATCCTATATCCTTGAAGTTG
1 ATCTCCCTGAAGTTGTAGT-G-G-AAGATGAAGCTACAACACCAAATCTTATATCCCTGAAGTTG
* * ** ** *
10375803 TAGTGGATCAAATTGAATTTACGAAAGCAAATATTT
63 CAGTGGATCAGATTGAAGCTAAAAAAACAAATATTT
** * * * *
10375839 ATCTCTTTGAAGTAGTAGAGCAAGATGAAGCTGCAACATCC-AATCTTATA-CCCATGAAGTTGC
1 ATCTCCCTGAAGTTGTAGTGGAAGATGAAGCTACAACA-CCAAATCTTATATCCC-TGAAGTTGC
* * * * * *
10375902 AGTAGG-TCGGATTGAAACTACAGAAGCAAAT-CTT
64 AGT-GGATCAGATTGAAGCTAAAAAAACAAATATTT
* * * ** * *
10375936 ATTTCCCTGAAGATGTAGTGCAGCAAGATAAAATTACAACATCAAATCTTCTATCCCTGAAGTTG
1 ATCTCCCTGAAGTTGTAGTG--G-AAGATGAAGCTACAACACCAAATCTTATATCCCTGAAGTTG
10376001 CAGTGGATCAGATT
63 CAGTGGATCAGATT
10376015 AAAGTTACAT
Statistics
Matches: 299, Mismatches: 61, Indels: 45
0.74 0.15 0.11
Matches are distributed among these distances:
97 18 0.06
98 53 0.18
99 6 0.02
100 45 0.15
101 83 0.28
102 5 0.02
103 1 0.00
104 5 0.02
105 77 0.26
106 6 0.02
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (98 bp):
ATCTCCCTGAAGTTGTAGTGGAAGATGAAGCTACAACACCAAATCTTATATCCCTGAAGTTGCAG
TGGATCAGATTGAAGCTAAAAAAACAAATATTT
Found at i:10375716 original size:105 final size:101
Alignment explanation
Indices: 10375572--10375923 Score: 290
Period size: 105 Copynumber: 3.5 Consensus size: 101
10375562 AAGTTACAAC
* * *
10375572 ACCAAATCTTATATCCC-TGAAGTTGCAGTGGATCAGATTGAAGCTA-AAAAAACAAATTTTTAT
1 ACCAAATCCTATA-CCCTTGAAGTTGTAGTGGATCAGATTGAAGCTACAAAAAA-AAATATTTAT
* *
10375635 CTCTCTAAAGTTGCAGTAGAGCAAGATGAAGCTACGAAAAAA
64 CTCCCTAAAGTTACAGTAGAGCAAGATGAAGCTACG----AA
** * *
10375677 ACCAAATCCTATACCCTTGAAGTTGTAGTAGG-TTGGATTGAAGCTACAGAAGAAAATATTTATC
1 ACCAAATCCTATACCCTTGAAGTTGTAGT-GGATCAGATTGAAGCTACAAAAAAAAATATTTATC
* * *
10375741 TCCCTGAAGTTACAGTGGAGCAAGATGAAGCTACGAC
65 TCCCTAAAGTTACAGTAGAGCAAGATGAAGCTACGAA
* * * ** * **
10375778 ATCAAATCCTATATCCTTGAAGTTGTAGTGGATCAAATTGAATTTACGAAAGCAAATATTTATCT
1 ACCAAATCCTATACCCTTGAAGTTGTAGTGGATCAGATTGAAGCTACAAAAAAAAATATTTATCT
** * *
10375843 CTTTGAAG-T--AGTAGAGCAAGATGAAGCTGC-AA
66 CCCTAAAGTTACAGTAGAGCAAGATGAAGCTACGAA
* * * * *
10375875 CATCC-AATCTTATACCCATGAAGTTGCAGTAGG-TCGGATTGAAACTACA
1 -A-CCAAATCCTATACCCTTGAAGTTGTAGT-GGATCAGATTGAAGCTACA
10375924 GAAGCAAATC
Statistics
Matches: 203, Mismatches: 37, Indels: 21
0.78 0.14 0.08
Matches are distributed among these distances:
97 1 0.00
98 52 0.26
99 3 0.01
100 3 0.01
101 59 0.29
104 3 0.01
105 76 0.37
106 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (101 bp):
ACCAAATCCTATACCCTTGAAGTTGTAGTGGATCAGATTGAAGCTACAAAAAAAAATATTTATCT
CCCTAAAGTTACAGTAGAGCAAGATGAAGCTACGAA
Found at i:10378049 original size:18 final size:17
Alignment explanation
Indices: 10378026--10378082 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
10378016 ATTATGTTCC
*
10378026 TTTTATTATTTGTTTTTA
1 TTTTATTATTT-ATTTTA
10378044 TTTTATTTATTTATTTTA
1 TTTTA-TTATTTATTTTA
*
10378062 TTTTA-TCTTTATCTTTA
1 TTTTATTATTTAT-TTTA
10378079 TTTT
1 TTTT
10378083 TATGTTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
16 6 0.17
17 8 0.23
18 15 0.43
19 6 0.17
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTTATTATTTATTTTA
Found at i:10378074 original size:6 final size:5
Alignment explanation
Indices: 10378039--10378108 Score: 67
Period size: 5 Copynumber: 13.8 Consensus size: 5
10378029 TATTATTTGT
10378039 TTTTA TTTTA -TTTA -TTTA TTTTA TTTTA TCTTTA TCTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T-TTTA T-TTTA -TTTTA
10378085 TGTTT- TGTTTA TTTTA -TTTA TTTT
1 T-TTTA T-TTTA TTTTA TTTTA TTTT
10378109 TCTAGTATTT
Statistics
Matches: 59, Mismatches: 0, Indels: 12
0.83 0.00 0.17
Matches are distributed among these distances:
4 12 0.20
5 28 0.47
6 18 0.31
7 1 0.02
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:10378080 original size:17 final size:16
Alignment explanation
Indices: 10378040--10378101 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
10378030 ATTATTTGTT
10378040 TTTATTTTA-TTTA--
1 TTTATTTTATTTTATC
10378053 TTTATTTTATTTTATC
1 TTTATTTTATTTTATC
*
10378069 TTTATCTTTATTTTTATG
1 TTTAT-TTTA-TTTTATC
10378087 TTT-TGTTTATTTTAT
1 TTTAT-TTTATTTTAT
10378102 TTATTTTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
13 9 0.21
14 4 0.10
16 11 0.26
17 9 0.21
18 9 0.21
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTATTTTATTTTATC
Found at i:10379266 original size:21 final size:21
Alignment explanation
Indices: 10379240--10379281 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10379230 TTGATGTATT
* *
10379240 AATAATAGTGTAATGAAGAGA
1 AATAATAGTGAAATAAAGAGA
*
10379261 AATAATGGTGAAATAAAGAGA
1 AATAATAGTGAAATAAAGAGA
10379282 CAAAAGAAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (21 bp):
AATAATAGTGAAATAAAGAGA
Found at i:10393263 original size:26 final size:27
Alignment explanation
Indices: 10393224--10393296 Score: 85
Period size: 26 Copynumber: 2.7 Consensus size: 27
10393214 AAATATTTTA
* * *
10393224 GCTCATTCGAGCCAGAATCAGAATAGC
1 GCTCTTTCAAGCCAGAATCAGAATAAC
*
10393251 GCT-TTTCAAGCCAGAATTAGAATAAC
1 GCTCTTTCAAGCCAGAATCAGAATAAC
* *
10393277 GCTCTTTCGAGCCAAAATCA
1 GCTCTTTCAAGCCAGAATCA
10393297 ATTACTCCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 22 0.58
27 16 0.42
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (27 bp):
GCTCTTTCAAGCCAGAATCAGAATAAC
Found at i:10396751 original size:41 final size:41
Alignment explanation
Indices: 10396694--10396789 Score: 140
Period size: 41 Copynumber: 2.3 Consensus size: 41
10396684 AAATTTTATT
10396694 TTAACAAGAATTCTAGTC-ACACAATTCTAACAATATCCACC
1 TTAACAAGAATTCTAGTCAAC-CAATTCTAACAATATCCACC
* * *
10396735 TTAACAAGAATTCTAGTCAACCAATTCTAGCAATCTCTACC
1 TTAACAAGAATTCTAGTCAACCAATTCTAACAATATCCACC
*
10396776 TTGACAAGAATTCT
1 TTAACAAGAATTCT
10396790 TTATGAACAA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
41 48 0.96
42 2 0.04
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCAACCAATTCTAACAATATCCACC
Found at i:10396801 original size:17 final size:17
Alignment explanation
Indices: 10396779--10396817 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
10396769 CTCTACCTTG
* * *
10396779 ACAAGAATTCTTTATGA
1 ACAAGAACTCTTAACGA
10396796 ACAAGAACTCTTAACGA
1 ACAAGAACTCTTAACGA
10396813 ACAAG
1 ACAAG
10396818 TTCTCCACCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.23
Consensus pattern (17 bp):
ACAAGAACTCTTAACGA
Found at i:10406674 original size:23 final size:23
Alignment explanation
Indices: 10406635--10406687 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
10406625 CCAATTTATA
* *
10406635 AATATTTTATAGTATAAAATTTG
1 AATATTTTATAGCATAAAATATG
10406658 AATATTTTAATA-CATAAAATATG
1 AATATTTT-ATAGCATAAAATATG
*
10406681 AGTATTT
1 AATATTT
10406688 GTTTAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 23 0.88
24 3 0.12
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (23 bp):
AATATTTTATAGCATAAAATATG
Found at i:10410383 original size:10 final size:9
Alignment explanation
Indices: 10410370--10410557 Score: 87
Period size: 9 Copynumber: 20.0 Consensus size: 9
10410360 AATTTTAATA
10410370 AAAAATTATT
1 AAAAATTA-T
*
10410380 AAAAATTAGA
1 AAAAATTA-T
*
10410390 AAAAAATAT
1 AAAAATTAT
*
10410399 AAAAATCAT
1 AAAAATTAT
*
10410408 AAAAAATAT
1 AAAAATTAT
*
10410417 AAAAAATTGT
1 -AAAAATTAT
**
10410427 AAATTTTAT
1 AAAAATTAT
*
10410436 AAAAATCAT
1 AAAAATTAT
*
10410445 AAAAAATAT
1 AAAAATTAT
10410454 -AAAATATAT
1 AAAAAT-TAT
*
10410463 AGAAA-TAT
1 AAAAATTAT
10410471 AAAAAATTAT
1 -AAAAATTAT
*
10410481 -AAAATTTT
1 AAAAATTAT
* *
10410489 ATAAAGTTGT
1 A-AAAATTAT
10410499 AAGAAAATTAT
1 -A-AAAATTAT
10410510 ACAAAA-TAT
1 A-AAAATTAT
*
10410519 AAAGAAATAT
1 AAA-AATTAT
* *
10410529 AAAATTCGTAA
1 AAAAAT--TAT
10410540 AAAAATTAT
1 AAAAATTAT
*
10410549 AAATATTAT
1 AAAAATTAT
10410558 CGTACCAAAA
Statistics
Matches: 132, Mismatches: 34, Indels: 25
0.69 0.18 0.13
Matches are distributed among these distances:
8 16 0.12
9 57 0.43
10 45 0.34
11 14 0.11
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (9 bp):
AAAAATTAT
Found at i:10410446 original size:9 final size:8
Alignment explanation
Indices: 10410433--10410475 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
10410423 TTGTAAATTT
10410433 TATAAAAA
1 TATAAAAA
10410441 TCATAAAAAA
1 T-AT-AAAAA
10410451 TATAAAATA
1 TATAAAA-A
*
10410460 TATAGAAA
1 TATAAAAA
10410468 TATAAAAA
1 TATAAAAA
10410476 ATTATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 13 0.43
9 11 0.37
10 6 0.20
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (8 bp):
TATAAAAA
Found at i:10410477 original size:9 final size:9
Alignment explanation
Indices: 10410367--10410484 Score: 80
Period size: 10 Copynumber: 12.7 Consensus size: 9
10410357 TTAAATTTTA
10410367 ATAAAAAATT
1 ATAAAAAA-T
*
10410377 ATTAAAAAT
1 ATAAAAAAT
*
10410386 -TAGAAAAAA
1 ATA-AAAAAT
10410395 ATATAAAAAT
1 ATA-AAAAAT
10410405 CATAAAAAAT
1 -ATAAAAAAT
10410415 ATAAAAAAT
1 ATAAAAAAT
** *
10410424 -TGTAAATT
1 ATAAAAAAT
*
10410432 TTATAAAAAT
1 ATA-AAAAAT
10410442 CATAAAAAAT
1 -ATAAAAAAT
*
10410452 ATAAAATAT
1 ATAAAAAAT
*
10410461 AT-AGAAAT
1 ATAAAAAAT
10410469 ATAAAAAATT
1 ATAAAAAA-T
10410479 ATAAAA
1 ATAAAA
10410485 TTTTATAAAG
Statistics
Matches: 84, Mismatches: 16, Indels: 16
0.72 0.14 0.14
Matches are distributed among these distances:
8 12 0.14
9 30 0.36
10 37 0.44
11 5 0.06
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.28
Consensus pattern (9 bp):
ATAAAAAAT
Found at i:10411088 original size:83 final size:86
Alignment explanation
Indices: 10410893--10411096 Score: 242
Period size: 89 Copynumber: 2.4 Consensus size: 86
10410883 GCAAGGGCTC
* * *
10410893 AATTG-TTTTTTTAAAAATTTTGAG-GGTCTTTTTTATGCATTTTGAAAGTTCAAGTATCCAATT
1 AATTGATTTTTTTAAAAAGTTTGAGAGCT-TTTTTTATGCATTTTGAAAGTTCAAG--T-CAACT
*
10410956 AAGTAGAAAAAAAAGGTAGGGACTT
62 AAGTAGAAAAAAAAGGTAGGAACTT
* * *
10410981 AATTGCTTTTTTTGAAAAGTTTGAGAGCTTTTTTTATGCATTTTGAAAGTTCAAG-C-ACTCAGT
1 AATTGATTTTTTTAAAAAGTTTGAGAGCTTTTTTTATGCATTTTGAAAGTTCAAGTCAACTAAGT
10411044 -GCAAAAAAAAGG-AGGAACTT
66 AG-AAAAAAAAGGTAGGAACTT
10411064 AATT-ATATTTTTTAAAAAGTTTGAGAGCTTTTT
1 AATTGAT-TTTTTTAAAAAGTTTGAGAGCTTTTT
10411097 ACACCTTTAA
Statistics
Matches: 104, Mismatches: 8, Indels: 13
0.83 0.06 0.10
Matches are distributed among these distances:
82 1 0.01
83 37 0.36
84 15 0.14
85 1 0.01
88 5 0.05
89 43 0.41
90 2 0.02
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (86 bp):
AATTGATTTTTTTAAAAAGTTTGAGAGCTTTTTTTATGCATTTTGAAAGTTCAAGTCAACTAAGT
AGAAAAAAAAGGTAGGAACTT
Found at i:10412863 original size:2 final size:2
Alignment explanation
Indices: 10412858--10412882 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10412848 TATATGTAGG
10412858 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10412883 GCATTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10414707 original size:2 final size:2
Alignment explanation
Indices: 10414700--10414728 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10414690 TCATATTAGC
10414700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10414729 CCATAGTAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10415390 original size:31 final size:31
Alignment explanation
Indices: 10415344--10415422 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
10415334 CCAATGGCTA
10415344 ATATATTT-TTTAAATAAGTTCTTAAATGATT
1 ATAT-TTTATTTAAATAAGTTCTTAAATGATT
*
10415375 ATATTTTATTTAAATAAGTTCTTAAATTATT
1 ATATTTTATTTAAATAAGTTCTTAAATGATT
* *
10415406 -T-TTGTAGTTAAATAAGT
1 ATATTTTATTTAAATAAGT
10415423 ACCTATGTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
29 14 0.32
30 4 0.09
31 26 0.59
ACGTcount: A:0.38, C:0.03, G:0.08, T:0.52
Consensus pattern (31 bp):
ATATTTTATTTAAATAAGTTCTTAAATGATT
Found at i:10418654 original size:58 final size:58
Alignment explanation
Indices: 10418566--10418711 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 58
10418556 ATATATTATA
* *
10418566 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
10418623 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
*
10418683 ATTTTTATTCAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
10418712 CATTAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 47 0.61
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:10418849 original size:39 final size:44
Alignment explanation
Indices: 10418794--10418898 Score: 114
Period size: 46 Copynumber: 2.5 Consensus size: 44
10418784 TTTCTTATGC
*
10418794 TATTACAGCATC-ATTCCATT-CAACCAA-ACACAA-GAA-TA-T
1 TATTACAGC-TCTATTCCATTCCAACCAACAAACAATGAATTACT
*
10418833 TATTACAGCTCTATTCCATTCCAATCAACCAAACAATTGAATTACT
1 TATTACAGCTCTATTCCATTCCAACCAA-CAAACAA-TGAATTACT
*
10418879 GATTACAGCTCTATTCCATT
1 TATTACAGCTCTATTCCATT
10418899 ACAGCTCTAT
Statistics
Matches: 55, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
38 2 0.04
39 17 0.31
40 6 0.11
42 5 0.09
44 3 0.05
45 2 0.04
46 20 0.36
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (44 bp):
TATTACAGCTCTATTCCATTCCAACCAACAAACAATGAATTACT
Found at i:10418897 original size:46 final size:44
Alignment explanation
Indices: 10418805--10418898 Score: 127
Period size: 44 Copynumber: 2.1 Consensus size: 44
10418795 ATTACAGCAT
* *
10418805 CATTCCATTCAACCAAACACAAGAATATTATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
*
10418849 CATTCCAATCAACCAAACA-ATTGAATTACTGATTACAGCTCTATTC
1 CATTCCAATCAACCAAACACA-AGAA-TA-TGATTACAGCTCTATTC
10418895 CATT
1 CATT
10418899 ACAGCTCTAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.48
45 2 0.05
46 20 0.45
ACGTcount: A:0.37, C:0.27, G:0.05, T:0.31
Consensus pattern (44 bp):
CATTCCAATCAACCAAACACAAGAATATGATTACAGCTCTATTC
Found at i:10418901 original size:16 final size:16
Alignment explanation
Indices: 10418880--10418951 Score: 126
Period size: 16 Copynumber: 4.5 Consensus size: 16
10418870 TGAATTACTG
10418880 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
10418896 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
*
10418912 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
*
10418928 ATTACATCTCTATTCC
1 ATTACAGCTCTATTCC
10418944 ATTACAGC
1 ATTACAGC
10418952 GAACCAAACG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:10420215 original size:188 final size:188
Alignment explanation
Indices: 10419898--10420273 Score: 734
Period size: 188 Copynumber: 2.0 Consensus size: 188
10419888 AAATTATTTT
10419898 ACTTTATATTTGATAACATAATTCAAATAGTTAAATTATGTTATTAGTATTGTATTTTGTGTAAA
1 ACTTTATATTTGATAACATAATTCAAATAGTTAAATTATGTTATTAGTATTGTATTTTGTGTAAA
*
10419963 TTGTGAGTTTAGTACCTGTACTTTAATTTGATCAATTTTAGTTCTTATACTTTTCGAATTTTGAA
66 TTGTGAGTTTAGTACCTGTACTTTAATTTGATCAATTTTAGCTCTTATACTTTTCGAATTTTGAA
*
10420028 ATTTTAGTCTTGACTCAATGGTAACAATTAAATCTGTTTGGTTAAATTATGTCATTGG
131 ACTTTAGTCTTGACTCAATGGTAACAATTAAATCTGTTTGGTTAAATTATGTCATTGG
10420086 ACTTTATATTTGATAACATAATTCAAATAGTTAAATTATGTTATTAGTATTGTATTTTGTGTAAA
1 ACTTTATATTTGATAACATAATTCAAATAGTTAAATTATGTTATTAGTATTGTATTTTGTGTAAA
10420151 TTGTGAGTTTAGTACCTGTACTTTAATTTGATCAATTTTAGCTCTTATACTTTTCGAATTTTGAA
66 TTGTGAGTTTAGTACCTGTACTTTAATTTGATCAATTTTAGCTCTTATACTTTTCGAATTTTGAA
10420216 ACTTTAGTCTTGACTCAATGGTAACAATTAAATCTGTTTGGTTAAATTATGTCATTGG
131 ACTTTAGTCTTGACTCAATGGTAACAATTAAATCTGTTTGGTTAAATTATGTCATTGG
10420274 TCATGTATTA
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
188 186 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (188 bp):
ACTTTATATTTGATAACATAATTCAAATAGTTAAATTATGTTATTAGTATTGTATTTTGTGTAAA
TTGTGAGTTTAGTACCTGTACTTTAATTTGATCAATTTTAGCTCTTATACTTTTCGAATTTTGAA
ACTTTAGTCTTGACTCAATGGTAACAATTAAATCTGTTTGGTTAAATTATGTCATTGG
Found at i:10420704 original size:2 final size:2
Alignment explanation
Indices: 10420699--10420733 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10420689 ATATATATAT
10420699 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10420734 TCATGGTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10427023 original size:19 final size:19
Alignment explanation
Indices: 10426999--10427038 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
10426989 TTTAAGACAC
10426999 TAAACTTATGTCTTGGCAT
1 TAAACTTATGTCTTGGCAT
10427018 TAAACTTATGTCTTGGCAT
1 TAAACTTATGTCTTGGCAT
10427037 TA
1 TA
10427039 TTATTGAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (19 bp):
TAAACTTATGTCTTGGCAT
Found at i:10427306 original size:21 final size:21
Alignment explanation
Indices: 10427263--10427316 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
10427253 TAGTTGCATG
* * *
10427263 ACTTATATCAGTAGAAATCGT
1 ACTTGTATCGGTAGAAATAGT
*
10427284 ACTTGTATCGGTAGAACTAGT
1 ACTTGTATCGGTAGAAATAGT
**
10427305 ACCGGTATCGGT
1 ACTTGTATCGGT
10427317 GGAAGTCTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAATAGT
Found at i:10430640 original size:59 final size:59
Alignment explanation
Indices: 10430511--10430705 Score: 216
Period size: 59 Copynumber: 3.3 Consensus size: 59
10430501 GGACTGTCGG
* * * * * * * ** *
10430511 GGGTAAAATGGTAA-CTTTAGGAAAATTTAGGGTTAAAAATGACATTTT-GGACGTTTGG
1 GGGTAAAATGGTAATTTTTA-GAAAAATCAGGATCAAAAATGAAATTTTCGGACATCCGA
* * *
10430569 GGGTAAAGTGGTAATTTTTAGAAAAATCAGGATCAAAAAT-AGAATTTTCGGATATTCGA
1 GGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGA-AATTTTCGGACATCCGA
* *
10430628 GGGTAAAATGGTAGTTTTTAGAAAAATCGGGATCAAAAATGAAATTTTCGGACATCCGA
1 GGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGAAATTTTCGGACATCCGA
10430687 GGGTAAAATGGTAATTTTT
1 GGGTAAAATGGTAATTTTT
10430706 GGAGTTTCGG
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
57 1 0.01
58 34 0.29
59 80 0.69
60 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTAGAAAAATCAGGATCAAAAATGAAATTTTCGGACATCCGA
Found at i:10430770 original size:58 final size:57
Alignment explanation
Indices: 10430699--10430928 Score: 214
Period size: 58 Copynumber: 3.9 Consensus size: 57
10430689 GTAAAATGGT
* * * *
10430699 AATTTTTG-GAGTTTCGGGGTCAAAATGAAATTTTTGGAAGTTCGAGGTCAAAAATAA
1 AATTTTTGAAAGTTT-GGGGTCAAAATGAAATTTTTGGAAGTTTGAGGTTAAAAATGA
* * *
10430756 AATTTTTGAAAGTTTAGGGG-CGAAAGTGAAATTTTTGGAAGTTTTGGGGTTAAAAATGG
1 AATTTTTGAAAGTTT-GGGGTC-AAAATGAAATTTTTGGAAG-TTTGAGGTTAAAAATGA
* ** * * * *
10430815 AATTTTTGGAAGTTTGGGGGGAAAATGTAATTTTTAGAAGTTTTAGGGTTAAAAATGT
1 AATTTTTGAAAGTTTGGGGTCAAAATGAAATTTTTGGAAGTTTGA-GGTTAAAAATGA
* *
10430873 AATTTTGGAAAAGTTTGGGGTCAAAAT-ATAATTTTAGAGAAGTTTGAGGGTTAAAA
1 AATTTTTG-AAAGTTTGGGGTCAAAATGA-AATTTTTG-GAAGTTTGA-GGTTAAAA
10430929 TACAATTTCT
Statistics
Matches: 141, Mismatches: 24, Indels: 13
0.79 0.13 0.07
Matches are distributed among these distances:
57 12 0.09
58 65 0.46
59 47 0.33
60 17 0.12
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (57 bp):
AATTTTTGAAAGTTTGGGGTCAAAATGAAATTTTTGGAAGTTTGAGGTTAAAAATGA
Found at i:10430821 original size:30 final size:29
Alignment explanation
Indices: 10430699--10430928 Score: 168
Period size: 29 Copynumber: 7.9 Consensus size: 29
10430689 GTAAAATGGT
*
10430699 AATTTTTGG-AGTTTCGGGG-TCAAAATGA
1 AATTTTTGGAAGTTT-GGGGTTAAAAATGA
* * * *
10430727 AATTTTTGGAAGTTCGAGGTCAAAAATAA
1 AATTTTTGGAAGTTTGGGGTTAAAAATGA
* ** *
10430756 AATTTTTGAAAGTTTAGGGG-CGAAAGTGA
1 AATTTTTGGAAGTTT-GGGGTTAAAAATGA
*
10430785 AATTTTTGGAAGTTTTGGGGTTAAAAATGG
1 AATTTTTGGAAG-TTTGGGGTTAAAAATGA
** *
10430815 AATTTTTGGAAGTTTGGGG-GGAAAATGT
1 AATTTTTGGAAGTTTGGGGTTAAAAATGA
* * *
10430843 AATTTTTAGAAGTTTTAGGGTTAAAAATGT
1 AATTTTTGGAAG-TTTGGGGTTAAAAATGA
*
10430873 AA-TTTTGGAAAAGTTTGGGG-TCAAAAT-A
1 AATTTTTGG--AAGTTTGGGGTTAAAAATGA
*
10430901 TAATTTTAGAGAAGTTTGAGGGTTAAAA
1 -AATTTTTG-GAAGTTTG-GGGTTAAAA
10430929 TACAATTTCT
Statistics
Matches: 159, Mismatches: 29, Indels: 25
0.75 0.14 0.12
Matches are distributed among these distances:
28 29 0.18
29 77 0.48
30 45 0.28
31 8 0.05
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.36
Consensus pattern (29 bp):
AATTTTTGGAAGTTTGGGGTTAAAAATGA
Found at i:10430936 original size:30 final size:30
Alignment explanation
Indices: 10430785--10430936 Score: 111
Period size: 30 Copynumber: 5.2 Consensus size: 30
10430775 GCGAAAGTGA
*
10430785 AATTTTTG-GAAGTTTTG-GGGTTAAAA-AT
1 AATTTTAGAGAAG-TTTGAGGGTTAAAATAT
* ** *
10430813 GGAATTTTTG-GAAGTTTG-GGGGGAAAATGT
1 --AATTTTAGAGAAGTTTGAGGGTTAAAATAT
* * *
10430843 AATTTT-TAGAAGTTTTAGGGTTAAAAATGT
1 AATTTTAGAGAAGTTTGAGGGTT-AAAATAT
* * *
10430873 AATTTTGGAAAAGTTTG-GGGTCAAAATAT
1 AATTTTAGAGAAGTTTGAGGGTTAAAATAT
*
10430902 AATTTTAGAGAAGTTTGAGGGTTAAAATAC
1 AATTTTAGAGAAGTTTGAGGGTTAAAATAT
10430932 AATTT
1 AATTT
10430937 CTAAACAGTT
Statistics
Matches: 100, Mismatches: 16, Indels: 12
0.78 0.12 0.09
Matches are distributed among these distances:
28 13 0.13
29 35 0.35
30 45 0.45
31 7 0.07
ACGTcount: A:0.35, C:0.01, G:0.26, T:0.38
Consensus pattern (30 bp):
AATTTTAGAGAAGTTTGAGGGTTAAAATAT
Found at i:10430947 original size:59 final size:58
Alignment explanation
Indices: 10430708--10430936 Score: 152
Period size: 59 Copynumber: 3.9 Consensus size: 58
10430698 TAATTTTTGG
* * * *
10430708 AGTTTCGGGGTCAAAATGA-AATTTTTG-GAAGTTCGA-GGTCAAAAATAAAATTTTTG-AA
1 AGTTT-GGGGGCAAAAT-ATAA-TTTTGAGAAGTTTGAGGGTTAAAAATACAA-TTTTGAAA
* * ** *
10430766 AGTTTAGGGGCGAAAGTGA-AATTTTTG-GAAGTTTTG-GGGTTAAAAATGGAATTTTTG-GA
1 AGTTTGGGGGC-AAAAT-ATAA-TTTTGAGAAG-TTTGAGGGTTAAAAATACAA-TTTTGAAA
* * * * **
10430825 AGTTTGGGGGGAAAATGTAATTTTTAGAAGTTTTAGGGTTAAAAATGTAATTTTGGAAA
1 AGTTTGGGGGCAAAATATAATTTTGAGAAGTTTGAGGGTTAAAAATACAATTTT-GAAA
*
10430884 AGTTTGGGGTCAAAATATAATTTTAGAGAAGTTTGAGGGTT-AAAATACAATTT
1 AGTTTGGGGGCAAAATATAATTTT-GAGAAGTTTGAGGGTTAAAAATACAATTT
10430937 CTAAACAGTT
Statistics
Matches: 139, Mismatches: 23, Indels: 17
0.78 0.13 0.09
Matches are distributed among these distances:
57 15 0.11
58 48 0.35
59 62 0.45
60 14 0.10
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (58 bp):
AGTTTGGGGGCAAAATATAATTTTGAGAAGTTTGAGGGTTAAAAATACAATTTTGAAA
Found at i:10432825 original size:19 final size:19
Alignment explanation
Indices: 10432803--10432841 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10432793 TTGATGTAAA
*
10432803 TGGAC-TTTGAATTTGTATT
1 TGGACATTT-AATTTATATT
10432822 TGGACATTTAATTTATATT
1 TGGACATTTAATTTATATT
10432841 T
1 T
10432842 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.26, C:0.05, G:0.15, T:0.54
Consensus pattern (19 bp):
TGGACATTTAATTTATATT
Found at i:10432857 original size:23 final size:22
Alignment explanation
Indices: 10432827--10432875 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
10432817 GTATTTGGAC
* * *
10432827 ATTTAATTTATATTTATTTTAA
1 ATTTAATTTATAATAAGTTTAA
10432849 ATTTAAATTTATAATAAGTTTAA
1 ATTT-AATTTATAATAAGTTTAA
10432872 ATTT
1 ATTT
10432876 TAGATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTAATTTATAATAAGTTTAA
Found at i:10432870 original size:17 final size:17
Alignment explanation
Indices: 10432846--10432889 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
10432836 ATATTTATTT
10432846 TAAATTTAAATTTATA-A
1 TAAATTTAAATTT-TAGA
*
10432863 TAAGTTTAAATTTTAGA
1 TAAATTTAAATTTTAGA
10432880 TAAATTTAAA
1 TAAATTTAAA
10432890 CCTAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 2 0.08
17 22 0.92
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTTAGA
Found at i:10432899 original size:17 final size:16
Alignment explanation
Indices: 10432879--10432923 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
10432869 TAAATTTTAG
10432879 ATAAATTTAAACCTAAA
1 ATAAATTTAAACC-AAA
**
10432896 ATAAATTTAATTCAAA
1 ATAAATTTAAACCAAA
*
10432912 ACAAATTTAAAC
1 ATAAATTTAAAC
10432924 TCTGTTGGGC
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.58, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
ATAAATTTAAACCAAA
Found at i:10434068 original size:26 final size:26
Alignment explanation
Indices: 10434032--10434083 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
10434022 AGACTCTGAA
10434032 GATATACTGAACTGGCTCGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
*
10434058 GATATACTGAACTGGCTGGTAAGAGC
1 GATATACTGAACTGGCTCGTAAGAGC
10434084 TATACCCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (26 bp):
GATATACTGAACTGGCTCGTAAGAGC
Found at i:10438458 original size:21 final size:21
Alignment explanation
Indices: 10438413--10438467 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
10438403 CAGTGCAGAT
* *
10438413 TTCTACCAATACAAGTGATAG
1 TTCTACCGATACAAGTGATAC
10438434 TTCTACCGATACAAGTGACT-C
1 TTCTACCGATACAAGTGA-TAC
10438455 TTCTACCGATACA
1 TTCTACCGATACA
10438468 GGTTTCACCT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (21 bp):
TTCTACCGATACAAGTGATAC
Found at i:10439768 original size:37 final size:38
Alignment explanation
Indices: 10439726--10439807 Score: 96
Period size: 37 Copynumber: 2.2 Consensus size: 38
10439716 CTGTACATGT
* *
10439726 TTATGCAGTGACA-TTCCTGGGTACAA-TTGAAGAATAC
1 TTATGCAGGGACAGTT-CTGGATACAATTTGAAGAATAC
* * *
10439763 TTATGCAGGGATAGTTCTGGATGCAATTTGAAGAATAT
1 TTATGCAGGGACAGTTCTGGATACAATTTGAAGAATAC
10439801 TTATGCA
1 TTATGCA
10439808 ACGACAATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
37 19 0.50
38 19 0.50
ACGTcount: A:0.32, C:0.12, G:0.23, T:0.33
Consensus pattern (38 bp):
TTATGCAGGGACAGTTCTGGATACAATTTGAAGAATAC
Found at i:10448242 original size:22 final size:22
Alignment explanation
Indices: 10448204--10448247 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
10448194 ACTTTCATCA
*
10448204 TTAAGCCTTAATTAACCCATTT
1 TTAAGCCTTAATAAACCCATTT
*
10448226 TTAA-CCTTAATCAAACCTATTT
1 TTAAGCCTTAAT-AAACCCATTT
10448248 ATACTTAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.34, C:0.23, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAGCCTTAATAAACCCATTT
Found at i:10450250 original size:17 final size:17
Alignment explanation
Indices: 10450228--10450262 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
10450218 TTCGCTCTGT
10450228 CATCCCTCCAAATATCA
1 CATCCCTCCAAATATCA
10450245 CATCCCTCCAAATATCA
1 CATCCCTCCAAATATCA
10450262 C
1 C
10450263 CACCATTGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.43, G:0.00, T:0.23
Consensus pattern (17 bp):
CATCCCTCCAAATATCA
Found at i:10453532 original size:8 final size:8
Alignment explanation
Indices: 10453501--10453534 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
10453491 ATATCTTTAT
*
10453501 TAATTAAA
1 TAATAAAA
*
10453509 TAATAAAG
1 TAATAAAA
10453517 TAATAAAA
1 TAATAAAA
10453525 TAATAAAA
1 TAATAAAA
10453533 TA
1 TA
10453535 CTCCAACCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (8 bp):
TAATAAAA
Found at i:10457006 original size:30 final size:29
Alignment explanation
Indices: 10456964--10457147 Score: 169
Period size: 30 Copynumber: 6.2 Consensus size: 29
10456954 GAGGGTGGTG
*
10456964 ATTTTT-AGAAGTTTGTAGGCAAAAATGTA
1 ATTTTTAAGAAGTTTG-AGGTAAAAATGTA
*
10456993 ATTTTTAAGAAGTTTGAAGGTAAAAATGTG
1 ATTTTTAAGAAGTTTG-AGGTAAAAATGTA
*
10457023 ATTTTTGAGAAGTTTGAGAGTAAAAATGTA
1 ATTTTTAAGAAGTTTGAG-GTAAAAATGTA
* * *
10457053 AATTTTACA-AAGTTTAGGGGTAAAAATGTG
1 ATTTTTA-AGAAGTTT-GAGGTAAAAATGTA
* * * *
10457083 ATTTTT-TGAAGTTCGAGGGTGAAAATATA
1 ATTTTTAAGAAGTTTGA-GGTAAAAATGTA
*
10457112 ATTTTTGGAA-AAGTTTGAGGTCAAAATGTA
1 ATTTTT--AAGAAGTTTGAGGTAAAAATGTA
10457142 ATTTTT
1 ATTTTT
10457148 GGAAAGTTTA
Statistics
Matches: 126, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
28 1 0.01
29 28 0.22
30 87 0.69
31 10 0.08
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (29 bp):
ATTTTTAAGAAGTTTGAGGTAAAAATGTA
Found at i:10457048 original size:60 final size:58
Alignment explanation
Indices: 10456961--10457178 Score: 210
Period size: 60 Copynumber: 3.7 Consensus size: 58
10456951 GCCGAGGGTG
*
10456961 GTGATTTTTAGAAGTTTGTA-GGCAAAAATGTAATTTTTAAGAAGTTTGAAGGTAAAAAT
1 GTGATTTTTAGAAGTTTG-AGGGTAAAAATGTAATTTTTAA-AAGTTTGAAGGTAAAAAT
* * *
10457020 GTGATTTTTGAGAAGTTTGAGAGTAAAAATGTAAATTTTACAAAGTTT-AGGGGTAAAAAT
1 GTGATTTTT-AGAAGTTTGAGGGTAAAAATGTAATTTTTA-AAAGTTTGA-AGGTAAAAAT
* * * * *
10457080 GTGATTTTTTGAAGTTCGAGGGTGAAAATATAATTTTTGGAAAAGTTTG-AGGTCAAAAT
1 GTGATTTTTAGAAGTTTGAGGGTAAAAATGTAATTTTT--AAAAGTTTGAAGGTAAAAAT
* * * *
10457139 GTAATTTTTGGAAAGTTT-AGGGATCAAAATGTGATTTTTA
1 GTGATTTTTAG-AAGTTTGAGGG-TAAAAATGTAATTTTTA
10457179 GATAATTCAA
Statistics
Matches: 132, Mismatches: 18, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
58 1 0.01
59 55 0.42
60 74 0.56
61 2 0.02
ACGTcount: A:0.37, C:0.02, G:0.23, T:0.38
Consensus pattern (58 bp):
GTGATTTTTAGAAGTTTGAGGGTAAAAATGTAATTTTTAAAAGTTTGAAGGTAAAAAT
Found at i:10457154 original size:89 final size:90
Alignment explanation
Indices: 10456984--10457178 Score: 241
Period size: 89 Copynumber: 2.2 Consensus size: 90
10456974 GTTTGTAGGC
* * * * *
10456984 AAAAATGTAATTTTTAAGAAGTTTGAAGGTAAAAATGTGATTTTTGAGAAGTTTGAGAGTAAAAA
1 AAAAATGTGATTTTTAAGAAGTTCGAAGGTAAAAATATAATTTTTGAAAAGTTTGAGAGTAAAAA
*
10457049 TGTAAATTTTACAAAGTTTAGGGGT
66 TGTAAATTTTACAAAGTTTAGGGAT
* * * *
10457074 AAAAATGTGATTTTT-TGAAGTTCGAGGGTGAAAATATAATTTTTGGAAAAGTTTGAG-GTCAAA
1 AAAAATGTGATTTTTAAGAAGTTCGAAGGTAAAAATATAATTTTT-GAAAAGTTTGAGAGTAAAA
* **
10457137 ATGTAATTTTTGGAAAGTTTAGGGAT
65 ATGTAAATTTTACAAAGTTTAGGGAT
*
10457163 CAAAATGTGATTTTTA
1 AAAAATGTGATTTTTA
10457179 GATAATTCAA
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
89 64 0.72
90 25 0.28
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (90 bp):
AAAAATGTGATTTTTAAGAAGTTCGAAGGTAAAAATATAATTTTTGAAAAGTTTGAGAGTAAAAA
TGTAAATTTTACAAAGTTTAGGGAT
Found at i:10457166 original size:30 final size:28
Alignment explanation
Indices: 10456984--10457177 Score: 140
Period size: 30 Copynumber: 6.5 Consensus size: 28
10456974 GTTTGTAGGC
* *
10456984 AAAAATGTAATTTTTAAGAAGTTTGAAGGT
1 AAAAATGTAATTTTTGA-AAGTTT-AGGGT
* *
10457014 AAAAATGTGATTTTTGAGAAGTTTGAGAGT
1 AAAAATGTAATTTTTGA-AAGTTT-AGGGT
**
10457044 AAAAATGTAAATTTTACAAAGTTTAGGGGT
1 AAAAATGT-AATTTTTGAAAGTTTA-GGGT
* *
10457074 AAAAATGTGATTTTTTG-AAGTTCGAGGGT
1 AAAAATGT-AATTTTTGAAAGTT-TAGGGT
* *
10457103 GAAAATATAATTTTTGGAAAAGTTT-GAGGT
1 AAAAATGTAATTTTT-G-AAAGTTTAG-GGT
*
10457133 CAAAATGTAATTTTTGGAAAGTTTAGGGAT
1 AAAAATGTAATTTTT-GAAAGTTTAGGG-T
* *
10457163 CAAAATGTGATTTTT
1 AAAAATGTAATTTTT
10457178 AGATAATTCA
Statistics
Matches: 135, Mismatches: 20, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
28 6 0.04
29 27 0.20
30 91 0.67
31 11 0.08
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (28 bp):
AAAAATGTAATTTTTGAAAGTTTAGGGT
Found at i:10457712 original size:27 final size:28
Alignment explanation
Indices: 10457673--10457727 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
10457663 AATTTCAAAC
10457673 AAAAAAAATCC-TTTGAAACCCTATTTTT
1 AAAAAAAATCCTTTTGAAACCCT-TTTTT
*
10457701 AAAAAAAA-CCTTTTGAACCCCTTTTTT
1 AAAAAAAATCCTTTTGAAACCCTTTTTT
10457728 CTCTGAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
27 7 0.28
28 18 0.72
ACGTcount: A:0.40, C:0.20, G:0.04, T:0.36
Consensus pattern (28 bp):
AAAAAAAATCCTTTTGAAACCCTTTTTT
Found at i:10459000 original size:6 final size:6
Alignment explanation
Indices: 10458989--10459049 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
10458979 TAGATTTGAA
* * * *
10458989 TAAATT TAAATT TAAA-A TAAATT TAGACT TAAAAT T-AATT TAAATT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
*
10459035 TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAA
10459050 CCTAAAACAA
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
5 12 0.28
6 31 0.72
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (6 bp):
TAAATT
Found at i:10459007 original size:17 final size:17
Alignment explanation
Indices: 10458987--10459049 Score: 99
Period size: 17 Copynumber: 3.7 Consensus size: 17
10458977 TTTAGATTTG
10458987 AATAAATTTAAATTTAA
1 AATAAATTTAAATTTAA
* *
10459004 AATAAATTTAGACTTAA
1 AATAAATTTAAATTTAA
*
10459021 AATTAATTTAAATTTAA
1 AATAAATTTAAATTTAA
10459038 AATAAATTTAAA
1 AATAAATTTAAA
10459050 CCTAAAACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Found at i:10459011 original size:11 final size:11
Alignment explanation
Indices: 10458995--10459049 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
10458985 TGAATAAATT
10458995 TAAATTTAAAA
1 TAAATTTAAAA
**
10459006 TAAATTTAGACT
1 TAAATTTA-AAA
* **
10459018 TAAAATTAATT
1 TAAATTTAAAA
10459029 TAAATTTAAAA
1 TAAATTTAAAA
10459040 TAAATTTAAA
1 TAAATTTAAA
10459050 CCTAAAACAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 28 0.78
12 8 0.22
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
TAAATTTAAAA
Found at i:10459034 original size:34 final size:34
Alignment explanation
Indices: 10458991--10459056 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
10458981 GATTTGAATA
* *
10458991 AATTTAAATTTAAAATAAATTTAGACTTAAAATT
1 AATTTAAATTTAAAATAAATTTAAACCTAAAATT
10459025 AATTTAAATTTAAAATAAATTTAAACCTAAAA
1 AATTTAAATTTAAAATAAATTTAAACCTAAAA
10459057 CAAATTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (34 bp):
AATTTAAATTTAAAATAAATTTAAACCTAAAATT
Found at i:10459055 original size:17 final size:17
Alignment explanation
Indices: 10458987--10459062 Score: 98
Period size: 17 Copynumber: 4.5 Consensus size: 17
10458977 TTTAGATTTG
*
10458987 AATAAATTTAAATTTAA
1 AATAAATTTAAACTTAA
*
10459004 AATAAATTTAGACTTAA
1 AATAAATTTAAACTTAA
* *
10459021 AATTAATTTAAATTTAA
1 AATAAATTTAAACTTAA
*
10459038 AATAAATTTAAACCTAA
1 AATAAATTTAAACTTAA
*
10459055 AACAAATT
1 AATAAATT
10459063 AAAAAAATGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (17 bp):
AATAAATTTAAACTTAA
Found at i:10459486 original size:39 final size:39
Alignment explanation
Indices: 10459443--10459859 Score: 221
Period size: 39 Copynumber: 10.7 Consensus size: 39
10459433 AATGACTGCA
* *
10459443 ATCTGCCCCATGATCGGGGTAAGAGATTTGCTAATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGGTG
* * *
10459482 ATCTGCCCTAGGCTCGGGGTAAGAGA-TTG--AACGGCTACA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGG-T--G
* *
10459521 ATCTGCCCCTGGCTCGGGGTAAGAGA--T-CGAATGGCTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGG-TG
* * * *
10459558 CAATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTG
1 --ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGGTG
* * * * * * *
10459599 ATCTGCCTCAAGCTCGAGGTAAAAGA--T-CGAATGTCTACA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATG-GT--G
* * * * *
10459638 ATCTGCCTCTGGCTCGAGGTAAGAGATTGGCTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGGTG
* * *
10459677 ATCTGCCCCAGGCTAGGGGTAAGAGATTAGCTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGGTG
* * * * * *
10459716 ATCTGCCCCAAGCTCTGAGTAAGAGA-TCGAATGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTG-CTAATGGTG
* * * * * *
10459755 ATCTACCCCAAGCTCAGGGTAAGAGA--T-CGAATGACTACT
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATG-GT--G
* ** *
10459794 ATCTACCCCAGGCTCGGGGTAAGAGATTCACTGATGGTG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGGTG
* * *
10459833 ATCTGCCCCAAGCTCGAGGTAAAAGAT
1 ATCTGCCCCAGGCTCGGGGTAAGAGAT
10459860 CAAATCTTCA
Statistics
Matches: 290, Mismatches: 65, Indels: 46
0.72 0.16 0.11
Matches are distributed among these distances:
36 11 0.04
37 3 0.01
38 6 0.02
39 253 0.87
41 4 0.01
42 13 0.04
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.24
Consensus pattern (39 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTTGCTAATGGTG
Found at i:10459603 original size:78 final size:78
Alignment explanation
Indices: 10459482--10459860 Score: 354
Period size: 78 Copynumber: 4.9 Consensus size: 78
10459472 GCTAATGGTG
* * * *** **
10459482 ATCTGCCCTAGGCTCGGGGTAAGAGATTGAACGGCT-ACAATCTGCCCCTGGCTCGGGGTAAGAG
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTG-ACTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAG
*
10459546 ATCGAATGGCTGCA
65 ATCGAATGGCTACA
* * * * * *
10459560 ATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGCTCGAGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
*
10459625 TCGAATGTCTACA
66 TCGAATGGCTACA
* * * * * *
10459638 ATCTGCCTCTGGCTCGAGGTAAGAGATTGGCTGATGGTGATCTGCCCCAGGCTAGGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
*
10459703 TTAGCTG-ATGG-T--G
66 -T--C-GAATGGCTACA
* * * * * * *
10459716 ATCTGCCCCAAGCTCTGAGTAAGAGATCGAATGATGGTGATCTACCCCAAGCTCAGGGTAAGAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
* *
10459781 TCGAATGACTACT
66 TCGAATGGCTACA
* * * *
10459794 ATCTACCCCAGGCTCGGGGTAAGAGATTCACTGATGGTGATCTGCCCCAAGCTCGAGGTAAAAGA
1 ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
10459859 TC
66 TC
10459861 AAATCTTCAA
Statistics
Matches: 240, Mismatches: 52, Indels: 18
0.77 0.17 0.06
Matches are distributed among these distances:
74 1 0.00
75 4 0.02
76 1 0.00
77 4 0.02
78 223 0.93
79 1 0.00
80 1 0.00
81 4 0.02
82 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (78 bp):
ATCTGCCCCAGGCTCGGGGTAAGAGATTGACTGATGGTGATCTGCCCCAAGCTCGGGGTAAGAGA
TCGAATGGCTACA
Found at i:10459637 original size:117 final size:117
Alignment explanation
Indices: 10459430--10459860 Score: 476
Period size: 117 Copynumber: 3.7 Consensus size: 117
10459420 CTTTATTGCT
* * * * * *
10459430 TCGAATGACTGCAATCTGCCCCATGATCGGGGTAAGAGATTTGCTAATGGTGATCTGCCCTAGGC
1 TCGAATGACTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGC
* * * * *
10459495 TCGGGGTAAGAGATTGAACGGCTACAATCTGCCCCTGGCTCGGGGTAAGAGA
66 TCGAGGTAAAAGATCGAATGTCTACAATCTGCCCCTGGCTCGGGGTAAGAGA
* * * * *
10459547 TCGAATGGCTGCAATCTTCCCTAGGCTCGGGGTAAGAGATTGGCTGATGGTGATCTGCCTCAAGC
1 TCGAATGACTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGC
* *
10459612 TCGAGGTAAAAGATCGAATGTCTACAATCTGCCTCTGGCTCGAGGTAAGAGA
66 TCGAGGTAAAAGATCGAATGTCTACAATCTGCCCCTGGCTCGGGGTAAGAGA
* ** ** *
10459664 TTGGCTGA-TGGTGATCTGCCCCAGGCTAGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAG
1 TCGAATGACT-GCAATCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAG
* * * * ** *
10459728 CTCTGA-GTAAGAGATCGAATGATGGT--GATCTACCCCAAGCTCAGGGTAAGAGA
65 CTC-GAGGTAAAAGATCGAATG-T-CTACAATCTGCCCCTGGCTCGGGGTAAGAGA
* * *
10459781 TCGAATGACTACTATCTACCCCAGGCTCGGGGTAAGAGATTCA-CTGATGGTGATCTGCCCCAAG
1 TCGAATGACTGCAATCTGCCCCAGGCTCGGGGTAAGAGATT-AGCTGATGGTGATCTGCCCCAAG
10459845 CTCGAGGTAAAAGATC
65 CTCGAGGTAAAAGATC
10459861 AAATCTTCAA
Statistics
Matches: 261, Mismatches: 46, Indels: 14
0.81 0.14 0.04
Matches are distributed among these distances:
116 3 0.01
117 252 0.97
118 5 0.02
119 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.23
Consensus pattern (117 bp):
TCGAATGACTGCAATCTGCCCCAGGCTCGGGGTAAGAGATTAGCTGATGGTGATCTGCCCCAAGC
TCGAGGTAAAAGATCGAATGTCTACAATCTGCCCCTGGCTCGGGGTAAGAGA
Found at i:10471821 original size:29 final size:29
Alignment explanation
Indices: 10471789--10471854 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
10471779 GAAGTGGAAC
*
10471789 TTTTGGAAAATTGAGGGTAAAATGGTAAT
1 TTTTGGAAAATCGAGGGTAAAATGGTAAT
*** *
10471818 TTTTGGATGCTCGAGGGTAAAATGGTGAT
1 TTTTGGAAAATCGAGGGTAAAATGGTAAT
10471847 TTTTGGAA
1 TTTTGGAA
10471855 GTTTTGTAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.03, G:0.30, T:0.36
Consensus pattern (29 bp):
TTTTGGAAAATCGAGGGTAAAATGGTAAT
Found at i:10471899 original size:30 final size:30
Alignment explanation
Indices: 10471859--10472025 Score: 137
Period size: 30 Copynumber: 5.6 Consensus size: 30
10471849 TTGGAAGTTT
*
10471859 TGTAATTTTTGAAAAGTTTAGGGGTAAACA
1 TGTAATTTTTGAAAAGTTTAGGGGTAAAAA
* * *
10471889 TGTGATTTTTGAGAAGTTTATGGGTAAAAA
1 TGTAATTTTTGAAAAGTTTAGGGGTAAAAA
**
10471919 TGTAAATTTTATG--AAGTTCGGGGGTAAAAA
1 TGT-AATTTT-TGAAAAGTTTAGGGGTAAAAA
* * *
10471949 TGTAAATTTT-ACAAAGTTTTGTGGT-AAAA
1 TGTAATTTTTGA-AAAGTTTAGGGGTAAAAA
* * * * *
10471978 TGTGATTTTTG-AAAGTTCAAGAGCAAAAA
1 TGTAATTTTTGAAAAGTTTAGGGGTAAAAA
*
10472007 TGTAATTTCTGAAAAGTTT
1 TGTAATTTTTGAAAAGTTT
10472026 GAGGATCAAA
Statistics
Matches: 106, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
28 8 0.08
29 30 0.28
30 61 0.58
31 5 0.05
32 2 0.02
ACGTcount: A:0.37, C:0.04, G:0.22, T:0.38
Consensus pattern (30 bp):
TGTAATTTTTGAAAAGTTTAGGGGTAAAAA
Found at i:10473866 original size:16 final size:16
Alignment explanation
Indices: 10473847--10473935 Score: 106
Period size: 17 Copynumber: 5.4 Consensus size: 16
10473837 CATTATTTAT
* *
10473847 TTTAGATTTGAATAAA
1 TTTAAATTTAAATAAA
*
10473863 TTTAAATTTAAATAAT
1 TTTAAATTTAAATAAA
10473879 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
* *
10473896 TTTAAACTTAAAATTAA
1 TTTAAA-TTTAAATAAA
10473913 TTTAAATTTAAAATAAA
1 TTTAAATTT-AAATAAA
10473930 TTTAAA
1 TTTAAA
10473936 CCTAAAACAA
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
16 24 0.39
17 36 0.58
18 2 0.03
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (16 bp):
TTTAAATTTAAATAAA
Found at i:10473870 original size:6 final size:6
Alignment explanation
Indices: 10473859--10473935 Score: 74
Period size: 6 Copynumber: 13.7 Consensus size: 6
10473849 TAGATTTGAA
* * *
10473859 TAAATT TAAATT TAAA-- TAATTT TAAATT TAAA-A TAAATT TAAACT
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT TAAATT
* *
10473904 TAAAAT T-AATT TAAATT TAAA-A TAAATT TAAA
1 TAAATT TAAATT TAAATT TAAATT TAAATT TAAA
10473936 CCTAAAACAA
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
4 3 0.05
5 12 0.21
6 42 0.74
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (6 bp):
TAAATT
Found at i:10473894 original size:17 final size:17
Alignment explanation
Indices: 10473857--10473935 Score: 124
Period size: 17 Copynumber: 4.7 Consensus size: 17
10473847 TTTAGATTTG
10473857 AATAAATTTAAATTT-A
1 AATAAATTTAAATTTAA
*
10473873 AATAATTTTAAATTTAA
1 AATAAATTTAAATTTAA
*
10473890 AATAAATTTAAACTTAA
1 AATAAATTTAAATTTAA
*
10473907 AATTAATTTAAATTTAA
1 AATAAATTTAAATTTAA
10473924 AATAAATTTAAA
1 AATAAATTTAAA
10473936 CCTAAAACAA
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
16 14 0.25
17 42 0.75
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAATTTAAATTTAA
Done.