Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 133 of 373
Found at i:43948937 original size:118 final size:118
Alignment explanation
Indices: 43948687--43948941 Score: 347
Period size: 118 Copynumber: 2.2 Consensus size: 118
43948677 TGGATGATAA
* * *
43948687 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
* *
43948752 TGCGAGTTATTACATCCGGGCTAAGTCCGAAGCATTTGTGCGAGTTACTATAT
66 TGCGAGTTACTACATCCGGGCTAAGTCCGAAGCATTTGAGCGAGTTACTATAT
* * *
43948805 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTG
1 CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTG
* *
43948869 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
65 GTGCGAGTTACTACATCCGGGCTAAGT-CCGAA-GCATTTGAGCGAGTTA-CTATAT
*
43948924 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAATCCCGAAGG
43948942 TACTTGGCTT
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
117 1 0.01
118 98 0.80
119 21 0.17
120 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (118 bp):
CCGGGCTAAATCCCGAAGGCATTTGCGCGAGTGACTAGTTCCGGGCTAAGTCCCGAAGGCATTGG
TGCGAGTTACTACATCCGGGCTAAGTCCGAAGCATTTGAGCGAGTTACTATAT
Found at i:43957045 original size:40 final size:40
Alignment explanation
Indices: 43956946--43957203 Score: 346
Period size: 40 Copynumber: 6.5 Consensus size: 40
43956936 TGGATGATAA
*
43956946 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTCACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* * *
43956987 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43957027 CCGGGCTAAGTCCTGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43957067 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43957107 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
43957147 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43957186 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43957204 TACTTGGCTT
Statistics
Matches: 196, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
38 15 0.08
39 15 0.08
40 139 0.71
41 23 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43966593 original size:11 final size:10
Alignment explanation
Indices: 43966573--43966611 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
43966563 AATGATGATG
43966573 AAAA-AAAGA
1 AAAAGAAAGA
43966582 AAAGAGAAAGA
1 AAA-AGAAAGA
*
43966593 AAAAGAAAAA
1 AAAAGAAAGA
43966603 AAAAGAAAG
1 AAAAGAAAG
43966612 GCTCTCATGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 3 0.12
10 15 0.58
11 8 0.31
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAAAGA
Found at i:43967924 original size:40 final size:40
Alignment explanation
Indices: 43967869--43968086 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
43967859 TGGATGATAA
* * *
43967869 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
43967909 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
43967949 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43967989 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
43968029 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43968069 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43968087 TACTTGGCTT
Statistics
Matches: 166, Mismatches: 10, Indels: 5
0.92 0.06 0.03
Matches are distributed among these distances:
39 16 0.10
40 150 0.90
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43970760 original size:27 final size:27
Alignment explanation
Indices: 43970743--43970949 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 27
43970733 ATATTAAGTC
43970743 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
43970770 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
43970798 CGCACACTTAGTGTTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
43970825 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
43970853 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * *
43970880 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * * *
43970908 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
*
43970935 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
43970950 GCACAATTTA
Statistics
Matches: 169, Mismatches: 8, Indels: 6
0.92 0.04 0.03
Matches are distributed among these distances:
27 91 0.54
28 78 0.46
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:43970827 original size:55 final size:55
Alignment explanation
Indices: 43970743--43970949 Score: 351
Period size: 55 Copynumber: 3.8 Consensus size: 55
43970733 ATATTAAGTC
* * * *
43970743 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
43970798 CGCACACTTAGTGTTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
43970853 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
*
43970908 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
43970950 GCACAATTTA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 145 1.00
ACGTcount: A:0.31, C:0.28, G:0.14, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
Found at i:43979301 original size:40 final size:40
Alignment explanation
Indices: 43979246--43979463 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
43979236 TGGATGATAA
* * *
43979246 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
43979286 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43979326 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
43979366 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
43979406 CCAGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
43979446 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
43979464 TACTTGGCTT
Statistics
Matches: 163, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.10
40 147 0.90
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:43989951 original size:40 final size:40
Alignment explanation
Indices: 43989891--43990074 Score: 223
Period size: 40 Copynumber: 4.6 Consensus size: 40
43989881 TATTCGAATG
*
43989891 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
43989931 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
43989971 ATATCCGGGCTAAGA-CCTGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCC-GAAGGCATTTATGCTAGTGACT
*
43990011 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
43990051 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
43990075 CTTGTGCGAG
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 3 0.02
40 116 0.94
41 5 0.04
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:43990024 original size:80 final size:80
Alignment explanation
Indices: 43989891--43990110 Score: 270
Period size: 80 Copynumber: 2.8 Consensus size: 80
43989881 TATTCGAATG
* * * *
43989891 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
* *
43989955 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* *
43989971 ATATCCGGGCTAAGACCTGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAG-TCCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGC
*
43990035 ATTTATGCTAGTGACC
65 ATTTATGCGAGTGACC
* * *
43990051 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCGAGTGGTTATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAG
43990111 ATACTTGGGT
Statistics
Matches: 122, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 14 0.11
79 20 0.16
80 88 0.72
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGTGATTATATCCGGGCTAAGATCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:43998233 original size:30 final size:30
Alignment explanation
Indices: 43998190--43998247 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
43998180 CATGAGCTGG
* * *
43998190 CACATGGGCGTGTGGCCAGCCTGTGTGACT
1 CACACGGGAGTGTGGCCAGCCCGTGTGACT
*
43998220 CACACGGGAGTGTGGCTAGCCCGTGTGA
1 CACACGGGAGTGTGGCCAGCCCGTGTGA
43998248 AAATGCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.26, G:0.38, T:0.21
Consensus pattern (30 bp):
CACACGGGAGTGTGGCCAGCCCGTGTGACT
Found at i:44002920 original size:21 final size:21
Alignment explanation
Indices: 44002884--44002934 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
44002874 AACCATTTCT
44002884 TTATTATTTTTAAATTT-TATTA
1 TTATTA-TTTTAAATTTAT-TTA
44002906 TT-TTATTTTATAATTTATTTA
1 TTATTATTTTA-AATTTATTTA
44002927 TTATTATT
1 TTATTATT
44002935 AAAAATACCA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
20 5 0.19
21 13 0.50
22 8 0.31
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATTATTTTAAATTTATTTA
Found at i:44003003 original size:14 final size:14
Alignment explanation
Indices: 44002986--44003033 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
44002976 TTTTCCTACA
44002986 TATATTATATTTAT
1 TATATTATATTTAT
* *
44003000 TATATAACATTTAT
1 TATATTATATTTAT
44003014 TATA-TATATTTA-
1 TATATTATATTTAT
44003026 TATATTAT
1 TATATTAT
44003034 CTATCATATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 4 0.14
13 9 0.31
14 16 0.55
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTATATTTAT
Found at i:44003009 original size:23 final size:24
Alignment explanation
Indices: 44002983--44003078 Score: 74
Period size: 23 Copynumber: 3.9 Consensus size: 24
44002973 TTATTTTCCT
*
44002983 ACATATATTATATTTA-TTATATA
1 ACATATATTATATATATTTATATA
*
44003006 ACATTTATTATATATATTTATATA
1 ACATATATTATATATATTTATATA
*
44003030 TTATCTATCATATTATATATATTTTATATT
1 --A-C-AT-ATATTATATATA-TTTATATA
*
44003060 AC-T-CATTATAT-TATTTATA
1 ACATATATTATATATATTTATA
44003079 ATTTTAAAAT
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
21 6 0.10
22 2 0.03
23 21 0.34
24 7 0.11
25 1 0.02
26 1 0.02
27 2 0.03
28 3 0.05
29 11 0.18
30 7 0.11
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (24 bp):
ACATATATTATATATATTTATATA
Found at i:44003031 original size:17 final size:19
Alignment explanation
Indices: 44003011--44003049 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
44003001 ATATAACATT
44003011 TATTATATAT-AT-TTATA
1 TATTATATATCATATTATA
*
44003028 TATTATCTATCATATTATA
1 TATTATATATCATATTATA
44003047 TAT
1 TAT
44003050 ATTTTATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATATATCATATTATA
Found at i:44003190 original size:20 final size:20
Alignment explanation
Indices: 44003149--44003190 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
44003139 TCATTATTAA
* *
44003149 TTATTTTTTATGTGATATTT
1 TTATTTATTATGTAATATTT
44003169 TTATTTATTATGTAATTATTT
1 TTATTTATTATGTAA-TATTT
44003190 T
1 T
44003191 GTAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (20 bp):
TTATTTATTATGTAATATTT
Found at i:44015461 original size:206 final size:206
Alignment explanation
Indices: 44015095--44015883 Score: 1086
Period size: 205 Copynumber: 3.8 Consensus size: 206
44015085 TAAGTCGCAG
* * * * * *
44015095 CATAGCAAATCTCACCTTCAGATGTTTATGCTGAAGC-AGATCCAGGATGATTTGGTATCCTTGT
1 CATAGCAGATCTGACCTTCAGACGATTATGCTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
* *
44015159 GCTTACAAGGAACAAATGGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
*
44015224 TAAAATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATG
131 TAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATG
44015289 GAGAGCAGATA
196 GAGAGCAGATA
*
44015300 TATAGCAGATCTGACCTTCAGACGATTATGCTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
1 CATAGCAGATCTGACCTTCAGACGATTATGCTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
* *
44015365 GCTTACAAGGAACAAATCGAAGACACAGCTGATTTGGCTTTCACGTGCTTACGATGAAGCAAATC
66 GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
* * * * * * **
44015430 TAGGATGATTTGGCATCTCTGTATTGTCAGAGAACGAGTCAAAGTCTAGCATCTTCACTTTGATG
131 TAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATG
***
44015495 GAGCTTAGATA
196 GAGAGCAGATA
* * * * * * * *
44015506 CATAGCAGATCTCG-CCTTCGGATGTTTATGCCGAAGCAA-ATCTAAGATGGTTTGGTACCCTTG
1 CATAGCAGATCT-GACCTTCAGACGATTATGCTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
* *
44015569 TACTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
65 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAAT
* *
44015634 CTAAGATGATTT-TCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAAT
130 CTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAAT
*
44015698 AGAGAGCAGATA
195 GGAGAGCAGATA
* * *
44015710 CATAGCAGATCTGACCTTCAAACGATTA-GACTGAAGGAAGATCCAAGATGATTTGGCATCTTTG
1 CATAGCAGATCTGACCTTCAGACGATTATG-CTGAAGCAAGATCCAAGATGATTTGGCATCCTTG
** * * *
44015774 TGCTTACAAGGAACAAATCGAAGATGTAGTTGATTTGGCTTTCACGTGTTTATC-CTAAAGCAAA
65 TGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTA-CGATGAAGCAAA
* * *
44015838 TCTAAGATGATTTGTTATCTCTGTATTGTTAGAGAGCAAATCAAAG
129 TCTAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAG
44015884 GAGCGGATTT
Statistics
Matches: 505, Mismatches: 72, Indels: 13
0.86 0.12 0.02
Matches are distributed among these distances:
203 2 0.00
204 80 0.16
205 211 0.42
206 211 0.42
207 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.30
Consensus pattern (206 bp):
CATAGCAGATCTGACCTTCAGACGATTATGCTGAAGCAAGATCCAAGATGATTTGGCATCCTTGT
GCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATC
TAAGATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATG
GAGAGCAGATA
Found at i:44015860 original size:410 final size:411
Alignment explanation
Indices: 44015095--44015872 Score: 1229
Period size: 410 Copynumber: 1.9 Consensus size: 411
44015085 TAAGTCGCAG
* * * * *
44015095 CATAGCAAATCTCACCTTCAGATGTTTATGCTGAAGCAGATCCAGGATGATTTGGTATCCTTGTG
1 CATAGCAAATCTCACCTTCAGATGTTTATGCCGAAGCAAATCCAAGATGATTTGGTACCCTTGTA
**
44015160 CTTACAAGGAACAAATGGAAGACATAGCTAATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAATCAAAGACATAGCTAATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
*
44015225 AAAATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATGG
131 AAAATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATAG
* *
44015290 AGAGCAGATATATAGCAGATCTGACCTTCAGACGATTATGCTGAAGCAAGATCCAAGATGATTTG
196 AGAGCAGATACATAGCAGATCTGACCTTCAAACGATTATGCTGAAGCAAGATCCAAGATGATTTG
44015355 GCATCCTTGTGCTTACAAGGAACAAATCGAAGACACAGCTGATTTGGCTTTCACGTGCTTACGAT
261 GCATCCTTGTGCTTACAAGGAACAAATCGAAGACACAGCTGATTTGGCTTTCACGTGCTTACGAT
* *
44015420 GAAGCAAATCTAGGATGATTTGGCATCTCTGTATTGTCAGAGAACGAGTCAAAGTCTAGCATCTT
326 AAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACGAGTCAAAGTCTAGCATCTT
44015485 CACTTTGATGGAGCTTAGATA
391 CACTTTGATGGAGCTTAGATA
* * * * *
44015506 CATAGCAGATCTCGCCTTCGGATGTTTATGCCGAAGCAAATCTAAGATGGTTTGGTACCCTTGTA
1 CATAGCAAATCTCACCTTCAGATGTTTATGCCGAAGCAAATCCAAGATGATTTGGTACCCTTGTA
*
44015571 CTTACAAGGAACAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
66 CTTACAAGGAACAAATCAAAGACATAGCTAATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
* * *
44015636 AAGATGATTT-TCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCTACTTCAATAG
131 AAAATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATAG
*
44015700 AGAGCAGATACATAGCAGATCTGACCTTCAAACGATTA-GACTGAAGGAAGATCCAAGATGATTT
196 AGAGCAGATACATAGCAGATCTGACCTTCAAACGATTATG-CTGAAGCAAGATCCAAGATGATTT
* *** * *
44015764 GGCATCTTTGTGCTTACAAGGAACAAATCGAAGATGTAGTTGATTTGGCTTTCACGTGTTTATC-
260 GGCATCCTTGTGCTTACAAGGAACAAATCGAAGACACAGCTGATTTGGCTTTCACGTGCTTA-CG
* ** *
44015828 CTAAAGCAAATCTAAGATGATTTGTTATCTCTGTATTGTTAGAGA
324 ATAAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGA
44015873 GCAAATCAAA
Statistics
Matches: 333, Mismatches: 32, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
409 1 0.00
410 205 0.62
411 127 0.38
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (411 bp):
CATAGCAAATCTCACCTTCAGATGTTTATGCCGAAGCAAATCCAAGATGATTTGGTACCCTTGTA
CTTACAAGGAACAAATCAAAGACATAGCTAATTTGGCTTTCACGTGTTTACGATGAAGCAAATCT
AAAATGATTTGTCATCTCTGTATTGTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAATAG
AGAGCAGATACATAGCAGATCTGACCTTCAAACGATTATGCTGAAGCAAGATCCAAGATGATTTG
GCATCCTTGTGCTTACAAGGAACAAATCGAAGACACAGCTGATTTGGCTTTCACGTGCTTACGAT
AAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACGAGTCAAAGTCTAGCATCTT
CACTTTGATGGAGCTTAGATA
Found at i:44017712 original size:17 final size:17
Alignment explanation
Indices: 44017668--44017713 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
44017658 ATTTAAAATC
*
44017668 TTTTATCATATATTATT
1 TTTTATCATATATTATA
44017685 TTCTTA-CATATATTATA
1 TT-TTATCATATATTATA
*
44017702 TTTTATGATATA
1 TTTTATCATATA
44017714 ACATTTATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 19 0.76
18 3 0.12
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTATCATATATTATA
Found at i:44042904 original size:34 final size:34
Alignment explanation
Indices: 44042857--44042925 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
44042847 TAATCCCACC
*
44042857 ATAAAATGCGAGGTTCGCGGGAGTGCGTATAGGG
1 ATAAAATGCGAGGTTCGCGGGAGTGCATATAGGG
*
44042891 ATAAAATGTGAGGTTCGCGGGAGTGCATATAGGG
1 ATAAAATGCGAGGTTCGCGGGAGTGCATATAGGG
44042925 A
1 A
44042926 ATGATCATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.10, G:0.39, T:0.22
Consensus pattern (34 bp):
ATAAAATGCGAGGTTCGCGGGAGTGCATATAGGG
Found at i:44044366 original size:48 final size:48
Alignment explanation
Indices: 44044295--44044535 Score: 358
Period size: 48 Copynumber: 5.0 Consensus size: 48
44044285 GAGGTGTTAC
* *
44044295 ATGCCATGTACCAGACATGGTCTTACACTGGCTCATGTAACAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCG
* *
44044343 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACGATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCG
* *
44044391 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCACGTAACAATGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCG
* * * *
44044439 ATGCCATGTCCCAAACATGG-CTTTACACTGGCTCACATAACGATGTCG
1 ATGCCATGTCCCAGACATGGTC-TTACACTGGCTCACGTAACAATGCCG
* *
44044487 ATGCCATGTCTCAGACATGGTCTTACACTTGCTCACGTAACAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCG
44044535 A
1 A
44044536 ATGGTCTTAC
Statistics
Matches: 173, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 1 0.01
48 171 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCG
Found at i:44044465 original size:96 final size:96
Alignment explanation
Indices: 44044295--44044535 Score: 396
Period size: 96 Copynumber: 2.5 Consensus size: 96
44044285 GAGGTGTTAC
* * *
44044295 ATGCCATGTACCAGACATGGTCTTACACTGGCTCATGTAACAATGCCGATGCCATGTCCCAGACA
1 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCGATGCCATGTCCCAAACA
44044360 TGGTCTTACACTGGCTCACATAACGATGCCG
66 TGGTCTTACACTGGCTCACATAACGATGCCG
*
44044391 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCACGTAACAATGTCGATGCCATGTCCCAAACA
1 ATGCCATGTTCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCGATGCCATGTCCCAAACA
*
44044456 TGG-CTTTACACTGGCTCACATAACGATGTCG
66 TGGTC-TTACACTGGCTCACATAACGATGCCG
*
44044487 ATGCCATG-TCTCAGACATGGTCTTACACTTGCTCACGTAACAATGCCGA
1 ATGCCATGTTC-CAGACATGGTCTTACACTGGCTCACGTAACAATGCCGA
44044536 ATGGTCTTAC
Statistics
Matches: 136, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
95 3 0.02
96 133 0.98
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (96 bp):
ATGCCATGTTCCAGACATGGTCTTACACTGGCTCACGTAACAATGCCGATGCCATGTCCCAAACA
TGGTCTTACACTGGCTCACATAACGATGCCG
Found at i:44044545 original size:33 final size:33
Alignment explanation
Indices: 44044503--44044568 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
44044493 TGTCTCAGAC
* *
44044503 ATGGTCTTACACTTGCTCACGTAACAATGCCGA
1 ATGGTCTTACACTGGCTCACATAACAATGCCGA
*
44044536 ATGGTCTTACACTGGCTCACATAACGATGCCGA
1 ATGGTCTTACACTGGCTCACATAACAATGCCGA
44044569 TGCCATATCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (33 bp):
ATGGTCTTACACTGGCTCACATAACAATGCCGA
Found at i:44049721 original size:45 final size:45
Alignment explanation
Indices: 44049657--44049746 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
44049647 GAAGAGAGAG
44049657 TAAGCATATAGCTTAGTAAGTAGGTATGTAAATAATAAACAATTT
1 TAAGCATATAGCTTAGTAAGTAGGTATGTAAATAATAAACAATTT
44049702 TAAGCATATAGCTTAGTAAGTAGGTATGTAAATAATAAACAATTT
1 TAAGCATATAGCTTAGTAAGTAGGTATGTAAATAATAAACAATTT
44049747 ATTAACATGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (45 bp):
TAAGCATATAGCTTAGTAAGTAGGTATGTAAATAATAAACAATTT
Found at i:44050645 original size:8 final size:8
Alignment explanation
Indices: 44050632--44050657 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
44050622 TACATTTCAT
44050632 AAGCATCA
1 AAGCATCA
44050640 AAGCATCA
1 AAGCATCA
44050648 AAGCATCA
1 AAGCATCA
44050656 AA
1 AA
44050658 TATTAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.12
Consensus pattern (8 bp):
AAGCATCA
Found at i:44050883 original size:15 final size:15
Alignment explanation
Indices: 44050863--44050893 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
44050853 AAACTGGGCA
44050863 TACATACTGATTTGC
1 TACATACTGATTTGC
44050878 TACATACTGATTTGC
1 TACATACTGATTTGC
44050893 T
1 T
44050894 CACACGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.13, T:0.42
Consensus pattern (15 bp):
TACATACTGATTTGC
Found at i:44051944 original size:42 final size:43
Alignment explanation
Indices: 44051888--44052034 Score: 158
Period size: 42 Copynumber: 3.4 Consensus size: 43
44051878 AATGCCAACA
* *
44051888 TCCCAGACGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTG
* *
44051931 T-CCAGACAAGGTCTTACACGAAATCAAATAT-GATGCCAAC-G
1 TCCCAGACATGGTCTTACACGTAATCAAATATCGATGCC-ACTG
* * * *
44051972 TCCCAAACATGGTCTTACACATAAATCATAA-GTCGATGCCACTA
1 TCCCAGACATGGTCTTACACGT-AATCA-AATATCGATGCCACTG
*
44052016 TCCCAGACGTGGTCTTACA
1 TCCCAGACATGGTCTTACA
44052035 TGAAAACACA
Statistics
Matches: 86, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
41 8 0.09
42 44 0.51
43 9 0.10
44 25 0.29
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCAAATATCGATGCCACTG
Found at i:44053768 original size:48 final size:48
Alignment explanation
Indices: 44053686--44054295 Score: 797
Period size: 48 Copynumber: 12.7 Consensus size: 48
44053676 ACAATGCCCC
* * *
44053686 ATGCCAATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * * * *
44053734 ATGTCGATGCCATGTTCCAAACATGGTCTCACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
*
44053782 ATGCCGATGCCATGTCCCAGACATGGTCTTACTCTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
*
44053830 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTTACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * **
44053878 ACGCCGATGCCATGTTCCAGACATGGTCTTACACTGGCTCACGTAATG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
** * * * *
44053926 ATTTCTATGCCATGTCCCAGACATGGTCTTACACTGCCTTACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
** * *
44053974 ATGCCGATGCCATGTCTTAGAGATGGTCTTACACTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
** *
44054022 ATGCCGATGCCATGTCCCAGGGATGGTCTTACAGTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* *
44054070 ATGCCGATGCCATGTTCCAGACATAGTCTTACACTGGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * *
44054118 ATACCGATGCCATGTCCTAGACATGGTCTTACATTGGCTCACGTAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * * *
44054166 ATGGCGATGCCATGTTCTAGACATGGTCTTACACTAGCTTACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * *
44054214 ATGTCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCACATAACG
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
* * * *
44054262 ATGCTGATGCCATATCCCAGATATGGTATTACAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
44054296 GATTACACAT
Statistics
Matches: 488, Mismatches: 74, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 488 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCACGTAACA
Found at i:44055981 original size:28 final size:27
Alignment explanation
Indices: 44055949--44056135 Score: 144
Period size: 28 Copynumber: 6.8 Consensus size: 27
44055939 AATTTTGGGC
* *
44055949 AAAACTATAAAATTTAAAAAATAAGGG
1 AAAACTGTAAAATCTAAAAAATAAGGG
* * *
44055976 TAAAACTATAAAAT-TTAAAAATTAGTGG
1 -AAAACTGTAAAATCTAAAAAATAAG-GG
* * *
44056004 AAAAGTTGTAAAATCTAGAAAATACGGG
1 AAAA-CTGTAAAATCTAAAAAATAAGGG
* *
44056032 AAAACTGT-AAATCTAGAAAATAAGGAA
1 AAAACTGTAAAATCTAAAAAATAAGG-G
** *
44056059 AAAACTGTAAAATCTGGAAAATAAGGTC
1 AAAACTGTAAAATCTAAAAAATAAGG-G
* * * * *
44056087 TAAACTATAAAATCTGAAAAGTAGGGG
1 AAAACTGTAAAATCTAAAAAATAAGGG
44056114 CAAAACTGTAAAATCTAAAAAA
1 -AAAACTGTAAAATCTAAAAAA
44056136 AGGGAACACA
Statistics
Matches: 129, Mismatches: 24, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
26 16 0.12
27 24 0.19
28 82 0.64
29 7 0.05
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.22
Consensus pattern (27 bp):
AAAACTGTAAAATCTAAAAAATAAGGG
Found at i:44056125 original size:56 final size:54
Alignment explanation
Indices: 44055945--44056138 Score: 171
Period size: 56 Copynumber: 3.6 Consensus size: 54
44055935 ATAAAATTTT
* * * * *
44055945 GGGCAAAACTATAAAATTTAAAAAATAAGGGTAAAACTATAAAATTTAAAAATTAG
1 GGGCAAAACTGTAAAATCTAGAAAATAA-GGTAAAACTATAAAATCTGAAAA-TAG
* * * * * *
44056001 TGG-AAAAGTTGTAAAATCTAGAAAATACGGGAAAACTGT-AAATCTAGAAAATAA
1 GGGCAAAA-CTGTAAAATCTAGAAAATAAGGTAAAACTATAAAATCT-GAAAATAG
** * *
44056055 GGAAAAAACTGTAAAATCTGGAAAATAAGGTCTAAACTATAAAATCTGAAAAGTAG
1 GGGCAAAACTGTAAAATCTAGAAAATAAGGT-AAAACTATAAAATCTGAAAA-TAG
44056111 GGGCAAAACTGTAAAATCTA-AAAA-AAGG
1 GGGCAAAACTGTAAAATCTAGAAAATAAGG
44056139 GAACACACGA
Statistics
Matches: 109, Mismatches: 23, Indels: 14
0.75 0.16 0.10
Matches are distributed among these distances:
54 31 0.28
55 36 0.33
56 42 0.39
ACGTcount: A:0.54, C:0.08, G:0.17, T:0.22
Consensus pattern (54 bp):
GGGCAAAACTGTAAAATCTAGAAAATAAGGTAAAACTATAAAATCTGAAAATAG
Found at i:44057534 original size:94 final size:94
Alignment explanation
Indices: 44057372--44057543 Score: 247
Period size: 94 Copynumber: 1.8 Consensus size: 94
44057362 GTTACAAGAA
* * *
44057372 GTGAGCTATGAGAGTATTTTCTAGTCAATATGGGATTAAAATTAACTTTTTAATGAAAATAGCAA
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAAATAGCAA
*
44057437 AGAAATTGTCACTTATTTATAAGGTAAAT
66 AGAAATTGACACTTATTTATAAGGTAAAT
* * * **
44057466 GTGAGATATGAGATTGTTCTCTAGTCAATGTGAGATTAAAATTAA-TCTTTTAATGAAAATAGTG
1 GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACT-TTTTAATGAAAATAGCA
44057530 AAGAAATTGACACT
65 AAGAAATTGACACT
44057544 AATTGTAAGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
93 1 0.01
94 67 0.99
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (94 bp):
GTGAGATATGAGAGTATTCTCTAGTCAATATGAGATTAAAATTAACTTTTTAATGAAAATAGCAA
AGAAATTGACACTTATTTATAAGGTAAAT
Found at i:44057680 original size:81 final size:81
Alignment explanation
Indices: 44057473--44057677 Score: 297
Period size: 81 Copynumber: 2.5 Consensus size: 81
44057463 AATGTGAGAT
* * *
44057473 ATGAGATTGTTCTCTAGTCAATGTGAGATTAAAATTAATCTTTTAATGAAAATAGTGAAGAAATT
1 ATGAGAGTGTTCTCTAGTCAATGTGGGATTAAAATTAATCTTTTAATGAAAATAGTGAAGAAACT
*
44057538 GACACTAATTGTAAGC
66 GACACTAATTATAAGC
* * *
44057554 ATGAGAGGGTT-TCGTAGTTAATGTGGAATTAAAATTAATCTTTTAATGAAAATAGTGAAGAAAC
1 ATGAGAGTGTTCTC-TAGTCAATGTGGGATTAAAATTAATCTTTTAATGAAAATAGTGAAGAAAC
* *
44057618 TGAGACTTATTATAAGC
65 TGACACTAATTATAAGC
*
44057635 ATGAGAGTGTTCTCTAGCCAATGTGGGATTAAAATTAA-CTTTT
1 ATGAGAGTGTTCTCTAGTCAATGTGGGATTAAAATTAATCTTTT
44057678 TAAGGGATTA
Statistics
Matches: 109, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
80 7 0.06
81 100 0.92
82 2 0.02
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.35
Consensus pattern (81 bp):
ATGAGAGTGTTCTCTAGTCAATGTGGGATTAAAATTAATCTTTTAATGAAAATAGTGAAGAAACT
GACACTAATTATAAGC
Found at i:44057783 original size:69 final size:69
Alignment explanation
Indices: 44057682--44057854 Score: 208
Period size: 69 Copynumber: 2.5 Consensus size: 69
44057672 ACTTTTTAAG
* * * * * * *
44057682 GGATTAAAATT-ATTTTTTACTGAAAA-ATATGAATAAGAGAGCTATGAGAGTATTTTCTAATTA
1 GGATTAAAATTAACTTTTTAATGAAAATA-ATGAAGAAGAGAACTATAAGAGTATTCTCTAATCA
44057745 ATGT-
65 ATGTA
*
44057749 GAGATTAAAATTAACTTTTTAATGAAAATAATGAAGAAGTGAACTATAAGAGTATTCTCTAATCA
1 G-GATTAAAATTAACTTTTTAATGAAAATAATGAAGAAGAGAACTATAAGAGTATTCTCTAATCA
44057814 ATGTA
65 ATGTA
* * *
44057819 GGATTAAAAATAACTTTTTAATAAAAATAATAAAGA
1 GGATTAAAATTAACTTTTTAATGAAAATAATGAAGA
44057855 TATTACCACT
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
67 1 0.01
68 10 0.11
69 78 0.86
70 2 0.02
ACGTcount: A:0.46, C:0.05, G:0.14, T:0.35
Consensus pattern (69 bp):
GGATTAAAATTAACTTTTTAATGAAAATAATGAAGAAGAGAACTATAAGAGTATTCTCTAATCAA
TGTA
Found at i:44058170 original size:12 final size:12
Alignment explanation
Indices: 44058153--44058197 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
44058143 TTTTAAAAAA
44058153 TAAAATATAATT
1 TAAAATATAATT
44058165 TAAAATATAA--
1 TAAAATATAATT
44058175 TAAAATATAATT
1 TAAAATATAATT
44058187 TAAAATATAAT
1 TAAAATATAAT
44058198 AATATATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 10 0.32
12 21 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:44058179 original size:22 final size:22
Alignment explanation
Indices: 44058139--44058214 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
44058129 TCAATTATAA
*
44058139 ATAATTTTAAA-A-AATAAAAT
1 ATAATTTAAAATATAATAAAAT
44058159 ATAATTTAAAATATAATAAAAT
1 ATAATTTAAAATATAATAAAAT
*
44058181 ATAATTTAAAATATAATAATAT
1 ATAATTTAAAATATAATAAAAT
* *
44058203 ATTATTTTAAAT
1 ATAATTTAAAAT
44058215 TTATTTATAC
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.20
21 1 0.02
22 39 0.78
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
ATAATTTAAAATATAATAAAAT
Found at i:44058180 original size:10 final size:10
Alignment explanation
Indices: 44058151--44058204 Score: 63
Period size: 12 Copynumber: 5.0 Consensus size: 10
44058141 AATTTTAAAA
44058151 AATAAAATAT
1 AATAAAATAT
44058161 AATTTAAAATAT
1 AA--TAAAATAT
44058173 AATAAAATAT
1 AATAAAATAT
44058183 AATTTAAAATAT
1 AA--TAAAATAT
*
44058195 AATAATATAT
1 AATAAAATAT
44058205 TATTTTAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
10 19 0.49
12 20 0.51
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATAAAATAT
Found at i:44058806 original size:38 final size:37
Alignment explanation
Indices: 44058760--44058837 Score: 120
Period size: 38 Copynumber: 2.1 Consensus size: 37
44058750 TTTCATGTTG
*
44058760 TTTTAAGTTTTTTTATTTTTAATTAATAAATATATTA
1 TTTTAAGTTCTTTTATTTTTAATTAATAAATATATTA
* *
44058797 TTTTCAAGTTCTTTTATTTTTAATTAATAATTATTTTA
1 TTTT-AAGTTCTTTTATTTTTAATTAATAAATATATTA
44058835 TTT
1 TTT
44058838 ATAAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (37 bp):
TTTTAAGTTCTTTTATTTTTAATTAATAAATATATTA
Found at i:44061033 original size:8 final size:8
Alignment explanation
Indices: 44061017--44061119 Score: 53
Period size: 9 Copynumber: 11.5 Consensus size: 8
44061007 GCCATCAATT
44061017 ATTTAAAA
1 ATTTAAAA
44061025 ATTTTAAAA
1 A-TTTAAAA
*
44061034 AGTTAAAAAA
1 A-TT-TAAAA
*
44061044 ATAATAAAA
1 AT-TTAAAA
44061053 ACTTATAAAA
1 A-TT-TAAAA
44061063 ATTTTTAAAA
1 A--TTTAAAA
*
44061073 AATTAAAA
1 ATTTAAAA
*
44061081 AGTATTTAAA
1 A-T-TTAAAA
*
44061091 ATTTAGAA
1 ATTTAAAA
44061099 ATTTAAAA
1 ATTTAAAA
*
44061107 ATTATTAAA
1 ATT-TAAAA
44061116 ATTT
1 ATTT
44061120 CATAAAGAGT
Statistics
Matches: 73, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
8 23 0.32
9 24 0.33
10 24 0.33
11 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (8 bp):
ATTTAAAA
Found at i:44061045 original size:19 final size:19
Alignment explanation
Indices: 44061021--44061081 Score: 68
Period size: 19 Copynumber: 3.2 Consensus size: 19
44061011 TCAATTATTT
*
44061021 AAAAATTTTAAAAAGTTAA
1 AAAAATTTTAAAAAATTAA
** *
44061040 AAAAATAATAAAAACTTATA
1 AAAAATTTTAAAAAATTA-A
*
44061060 AAAATTTTTAAAAAATTAA
1 AAAAATTTTAAAAAATTAA
44061079 AAA
1 AAA
44061082 GTATTTAAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
19 19 0.56
20 15 0.44
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (19 bp):
AAAAATTTTAAAAAATTAA
Found at i:44061071 original size:10 final size:9
Alignment explanation
Indices: 44061018--44061116 Score: 53
Period size: 10 Copynumber: 10.8 Consensus size: 9
44061008 CCATCAATTA
44061018 TTTAAAAAT
1 TTTAAAAAT
44061027 TTTAAAAAGT
1 TTTAAAAA-T
**
44061037 TAAAAAAAT
1 TTTAAAAAT
**
44061046 AATAAAAACT
1 TTTAAAAA-T
*
44061056 TATAAAAATT
1 TTTAAAAA-T
44061066 TTTAAAAA-
1 TTTAAAAAT
*
44061074 ATTAAAAAGT
1 TTTAAAAA-T
44061084 ATTT-AAAA-
1 -TTTAAAAAT
*
44061092 TTTAGAAA-
1 TTTAAAAAT
44061100 TTTAAAAAT
1 TTTAAAAAT
44061109 TATTAAAA
1 T-TTAAAA
44061117 TTTCATAAAG
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
7 3 0.04
8 17 0.24
9 16 0.23
10 33 0.46
11 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.35
Consensus pattern (9 bp):
TTTAAAAAT
Found at i:44061088 original size:19 final size:18
Alignment explanation
Indices: 44061019--44061091 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 18
44061009 CATCAATTAT
*
44061019 TTAAAAAT-TTTAAAAAG
1 TTAAAAATATTTAAAAAA
* * *
44061036 TTAAAAAAATAATAAAAACT
1 TTAAAAATAT-TTAAAAA-A
*
44061056 TATAAAAATTTTTAAAAAA
1 T-TAAAAATATTTAAAAAA
44061075 TTAAAAAGTATTTAAAA
1 TTAAAAA-TATTTAAAA
44061092 TTTAGAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
17 7 0.16
18 7 0.16
19 15 0.35
20 7 0.16
21 7 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (18 bp):
TTAAAAATATTTAAAAAA
Found at i:44061104 original size:26 final size:25
Alignment explanation
Indices: 44061066--44061119 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
44061056 TATAAAAATT
44061066 TTTAAAAAATTAAAAAGTATTTAAAA
1 TTTAAAAAATTAAAAAGTA-TTAAAA
* * *
44061092 TTTAGAAATTTAAAAATTATTAAAA
1 TTTAAAAAATTAAAAAGTATTAAAA
44061117 TTT
1 TTT
44061120 CATAAAGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (25 bp):
TTTAAAAAATTAAAAAGTATTAAAA
Found at i:44061106 original size:25 final size:25
Alignment explanation
Indices: 44061072--44061119 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
44061062 AATTTTTAAA
*
44061072 AAATT-AAAAAGTATTTAAAATTTAG
1 AAATTAAAAAATTA-TTAAAATTTAG
*
44061097 AAATTTAAAAATTATTAAAATTT
1 AAATTAAAAAATTATTAAAATTT
44061120 CATAAAGAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (25 bp):
AAATTAAAAAATTATTAAAATTTAG
Found at i:44062774 original size:43 final size:43
Alignment explanation
Indices: 44062711--44062796 Score: 115
Period size: 43 Copynumber: 2.0 Consensus size: 43
44062701 TATGTGATTC
*
44062711 CGATATGTGTTTACGAGTAAGACC-CTGTCTGGGACAG-TGGCAT
1 CGATATGTGGTTACGAGTAAGACCAC-GTCTGGGAC-GTTGGCAT
44062754 CGATATGTGGTTAC-ATGTAAGACCACGTCTGGGACGTTGGCAT
1 CGATATGTGGTTACGA-GTAAGACCACGTCTGGGACGTTGGCAT
44062797 TGTACGATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
42 2 0.05
43 36 0.92
44 1 0.03
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
CGATATGTGGTTACGAGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:44068174 original size:94 final size:94
Alignment explanation
Indices: 44068067--44068244 Score: 250
Period size: 94 Copynumber: 1.9 Consensus size: 94
44068057 CCATCATTGA
* * *
44068067 GGCTGATGCATGTCCCAAACACGTCTTACACTAG-CACTCATCTCTACACCAATGCCATGTCCCA
1 GGCTGATGCATGTCCCAAACACGTCCTACACTAGAC-CTCATATCAACACCAATGCCATGTCCCA
44068131 GACATGGTCTTACACAGGCTATCATAAAAT
65 GACATGGTCTTACACAGGCTATCATAAAAT
* * ** * *
44068161 GGCTGATGCATGTCCCAGACACGTCCTACACTAGACCTCGTATCAATGCCGATGCCATGTCCTAG
1 GGCTGATGCATGTCCCAAACACGTCCTACACTAGACCTCATATCAACACCAATGCCATGTCCCAG
*
44068226 ACATGGTCTTACACTGGCT
66 ACATGGTCTTACACAGGCT
44068245 CTCACATAAC
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
94 72 0.99
95 1 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (94 bp):
GGCTGATGCATGTCCCAAACACGTCCTACACTAGACCTCATATCAACACCAATGCCATGTCCCAG
ACATGGTCTTACACAGGCTATCATAAAAT
Found at i:44070010 original size:46 final size:47
Alignment explanation
Indices: 44069860--44070082 Score: 199
Period size: 46 Copynumber: 4.7 Consensus size: 47
44069850 ATTTGTTTGT
* * * *
44069860 GAGCTAGTGTAAGACATGTCCGGGACATGCATCGGCCAC-A-TTGTGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGT-A
* *
44069906 GAGCCAGTGTAAGACCATGTCTGGGAAATGGCATCGGCAAT-GAGATG-A
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGTA
* * *
44069954 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
* *
44070001 -AGCCAGTGTAAGACATGTCTGGGACATGCATC-GACTATGAGATG-A
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTA
* ** *
44070046 TAGTTAGTGTAAGACCATGTCTAGGACATGGCATCGG
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
44070083 TACCTTACCC
Statistics
Matches: 147, Mismatches: 18, Indels: 21
0.79 0.10 0.11
Matches are distributed among these distances:
45 5 0.03
46 72 0.49
47 39 0.27
48 27 0.18
49 2 0.01
50 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (47 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATGTA
Found at i:44073097 original size:24 final size:24
Alignment explanation
Indices: 44073073--44073157 Score: 100
Period size: 24 Copynumber: 3.6 Consensus size: 24
44073063 ATCAGAAAGT
* *
44073073 TCACTAAGAACCTTATCGGGAAGT
1 TCACAAAGAACCTTATCGGGAAGC
*
44073097 TCACAAAGAACCATATCGGGAAGC
1 TCACAAAGAACCTTATCGGGAAGC
* * *
44073121 TCATAATGATCC-TATCGGGAAGC
1 TCACAAAGAACCTTATCGGGAAGC
*
44073144 TCACAAAGAGCCTT
1 TCACAAAGAACCTT
44073158 TAATTGGGAT
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
23 20 0.39
24 31 0.61
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (24 bp):
TCACAAAGAACCTTATCGGGAAGC
Found at i:44074761 original size:46 final size:46
Alignment explanation
Indices: 44074694--44074785 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
44074684 TTGTCTCACG
44074694 TGCCAGAATTTTGATCGGTTCCTCACTGTATGTCATATCAAGCTAA
1 TGCCAGAATTTTGATCGGTTCCTCACTGTATGTCATATCAAGCTAA
44074740 TGCCAGAATTTTGATCGGTTCCTCACTGTATGTCATATCAAGCTAA
1 TGCCAGAATTTTGATCGGTTCCTCACTGTATGTCATATCAAGCTAA
44074786 ATCTCAACTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (46 bp):
TGCCAGAATTTTGATCGGTTCCTCACTGTATGTCATATCAAGCTAA
Found at i:44081088 original size:23 final size:23
Alignment explanation
Indices: 44081062--44081108 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44081052 AAGTGAGCAT
*
44081062 TATCGGGAAGCTCATAAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
44081085 TATCGGGAAGCTCACAAAGAGCC
1 TATCGGGAAGCTCACAAAGAGCC
44081108 T
1 T
44081109 TTAATCAGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.26, T:0.17
Consensus pattern (23 bp):
TATCGGGAAGCTCACAAAGAGCC
Found at i:44086854 original size:44 final size:44
Alignment explanation
Indices: 44086805--44086931 Score: 148
Period size: 47 Copynumber: 2.8 Consensus size: 44
44086795 TCTATACGTA
* * *
44086805 CTGATGCATGTCCCAGACATGTCTTACACTAGCACAAC-TCTTAG
1 CTGATGCATGTCCTAGACATGTCTTACACTGGCACAACGTC-GAG
* * *
44086849 CTGATGCGTGTCCTAGACACGTCTTACACTGGCTATCATCGTCGAG
1 CTGATGCATGTCCTAGACATGTCTTACACTGGC-A-CAACGTCGAG
*
44086895 GTCGATGCATGTCCTAGACATGTCTTACACTGGCACA
1 CT-GATGCATGTCCTAGACATGTCTTACACTGGCACA
44086932 CAAGTAATCC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
44 29 0.41
45 3 0.04
46 7 0.10
47 31 0.44
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (44 bp):
CTGATGCATGTCCTAGACATGTCTTACACTGGCACAACGTCGAG
Found at i:44097039 original size:48 final size:48
Alignment explanation
Indices: 44096987--44097264 Score: 389
Period size: 48 Copynumber: 5.8 Consensus size: 48
44096977 AATCCACATG
* * *
44096987 TCATCGCCGATGCCATGTCCTAGATATGGTCTTACACTAGCACATATA
1 TCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
*
44097035 TCATCGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
1 TCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
*
44097083 TCATCGCCGATGCCATGTCCCAGATATGGTCTTACACTGGCACATATA
1 TCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
* *
44097131 TCATCGTCGATGCCATGTCCCAGACATGGTCTTACAGTGGCACATATA
1 TCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
* * * * * *
44097179 TCATCACTGATGCCATGTCCCATACATGGTCTTATA-TAGGAACATATC
1 TCATCGCCGATGCCATGTCCCAGACATGGTCTTACACT-GGCACATATA
*
44097227 TCGGAT-GTCGATGCCATGTCCCAGACATGGTCTTACAC
1 TC--ATCGCCGATGCCATGTCCCAGACATGGTCTTACAC
44097265 GGAATCTCAT
Statistics
Matches: 205, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
47 1 0.00
48 176 0.86
49 26 0.13
50 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
TCATCGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACATATA
Found at i:44103570 original size:50 final size:50
Alignment explanation
Indices: 44103512--44103801 Score: 342
Period size: 50 Copynumber: 5.9 Consensus size: 50
44103502 TGATGCTAGG
*
44103512 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
44103562 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
*
44103612 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * * * * * * *
44103662 ---ATATGTG-TC-AGCGTAAGACTATATCTGAGACATGACATCAGCAC-C
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTC
* * * * *
44103707 TATAGATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTC
1 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
* * *
44103757 GATATATAAGAG-TCAGTGTAAGACCATGTTTGGGACATGGCATCG
1 GAGATATGAGAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCG
44103802 ACTTTGATGT
Statistics
Matches: 203, Mismatches: 29, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
45 28 0.14
46 1 0.00
47 6 0.03
48 5 0.02
49 2 0.01
50 161 0.79
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.24
Consensus pattern (50 bp):
GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
Found at i:44103743 original size:95 final size:98
Alignment explanation
Indices: 44103512--44103761 Score: 310
Period size: 95 Copynumber: 2.6 Consensus size: 98
44103502 TGATGCTAGG
* *
44103512 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAGATATGAGAGCTA
1 GAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC--GATATGAGAGCTA
* * * *
44103577 GTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
64 GCGTAAGACCATATCTGAGACATGACATCAGCCTC
* * * *
44103612 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC-ATATGTG-TC-AGC
1 GAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCTAGC
*
44103674 GTAAGACTATATCTGAGACATGACATCAGCAC-C
66 GTAAGACCATATCTGAGACATGACATCAGC-CTC
* * * *
44103707 TATAGATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGATAT
1 GAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATAT
44103762 ATAAGAGTCA
Statistics
Matches: 133, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
95 73 0.55
96 6 0.05
97 6 0.05
100 48 0.36
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (98 bp):
GAGAGATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATGAGAGCTAGC
GTAAGACCATATCTGAGACATGACATCAGCCTC
Found at i:44103841 original size:48 final size:49
Alignment explanation
Indices: 44103515--44103844 Score: 255
Period size: 50 Copynumber: 6.7 Consensus size: 49
44103505 TGCTAGGGAG
* * * * *
44103515 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATTGGCCTCGAG
1 ATAT-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAT
* * *
44103565 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGAG
1 ATAT-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGA-CCTCGAT
* * * *
44103615 ATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTC---
1 ATAT-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAT
* * * * * *
44103662 ATAT-GTGTCAGCGTAAGACTATATCT-GAGACATGACATCAGCACCT--AT
1 ATATAGAGCCAGTGTAAGACCATGTCTAG-GACATGGCATC-G-ACCTCGAT
* *
44103710 AGATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCTCGAT
1 ATAT-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAT
* * * * *
44103760 ATATAAGAGTCAGTGTAAGACCATGTTTGGGACATGGCATCGACTTTGAT
1 ATAT-AGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAT
* * * *
44103810 GTGT-GAGCCAGTGTAAAACCATGTCCAGGACATGG
1 ATATAGAGCCAGTGTAAGACCATGTCTAGGACATGG
44103845 TGTGAGCACC
Statistics
Matches: 232, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.00
45 26 0.11
46 1 0.00
47 6 0.03
48 32 0.14
49 1 0.00
50 164 0.71
51 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (49 bp):
ATATAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGACCTCGAT
Found at i:44107803 original size:41 final size:41
Alignment explanation
Indices: 44107758--44107920 Score: 231
Period size: 41 Copynumber: 4.0 Consensus size: 41
44107748 AAAGCCTAGG
* * * *
44107758 ATAATACACCGGCACAGAGCCTGCTAGGCAATAGGCCTGAA
1 ATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGAT
* *
44107799 ATAATACACCGGCATAAAGCTTGCCAGGCAATAAGCCTGAT
1 ATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGAT
*
44107840 ATAATACACCAGCATAAAGCCTGCTAGGCAATAAGCCTGAT
1 ATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGAT
44107881 ATAA-ATCACCGGCATAAAGCCTGCTAGGCAGA-AAGCCTGA
1 ATAATA-CACCGGCATAAAGCCTGCTAGGCA-ATAAGCCTGA
44107921 ATATCACTGA
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 1 0.01
41 108 0.98
42 1 0.01
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (41 bp):
ATAATACACCGGCATAAAGCCTGCTAGGCAATAAGCCTGAT
Found at i:44114420 original size:41 final size:41
Alignment explanation
Indices: 44114374--44114456 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
44114364 TAACCATATA
44114374 ATCGGCTATGTGCAAATTTAAGCATATATCCAATTTCACTT
1 ATCGGCTATGTGCAAATTTAAGCATATATCCAATTTCACTT
44114415 ATCGGCTATGTGCAAATTTAAGCATATATCCAATTTCACTT
1 ATCGGCTATGTGCAAATTTAAGCATATATCCAATTTCACTT
44114456 A
1 A
44114457 CACACCAAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (41 bp):
ATCGGCTATGTGCAAATTTAAGCATATATCCAATTTCACTT
Found at i:44114473 original size:41 final size:41
Alignment explanation
Indices: 44114384--44114470 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
44114374 ATCGGCTATG
** * **
44114384 TGCAAATTTAAGCATATATCCAATTTCACTTATCGGCTATG
1 TGCAAATTTAAGCATATATCCAATTTCACTTATCCACCAAA
44114425 TGCAAATTTAAGCATATATCCAATTTCACTTA-CACACCAAA
1 TGCAAATTTAAGCATATATCCAATTTCACTTATC-CACCAAA
44114466 T-CAAA
1 TGCAAA
44114471 ATTACAAACA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 5 0.12
41 35 0.88
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (41 bp):
TGCAAATTTAAGCATATATCCAATTTCACTTATCCACCAAA
Found at i:44114617 original size:31 final size:31
Alignment explanation
Indices: 44114582--44114644 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
44114572 TCATTTTATG
44114582 ACATAACTTTTACATGGATACATTAACCAAA
1 ACATAACTTTTACATGGATACATTAACCAAA
44114613 ACATAACTTTTACATGGATACATTAACCAAA
1 ACATAACTTTTACATGGATACATTAACCAAA
44114644 A
1 A
44114645 TAAATAGCTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (31 bp):
ACATAACTTTTACATGGATACATTAACCAAA
Found at i:44115655 original size:41 final size:41
Alignment explanation
Indices: 44115627--44115771 Score: 220
Period size: 41 Copynumber: 3.5 Consensus size: 41
44115617 ATTGGCACAT
* *
44115627 AGCCTGTTAGGCAATAGGCCTGAAATAATACACCGGCATAA
1 AGCCTGCTAGGCAATAAGCCTGAAATAATACACCGGCATAA
*
44115668 AGCCTGCTAGGCAATAAGCCTGAAATAATACACCAGCATAA
1 AGCCTGCTAGGCAATAAGCCTGAAATAATACACCGGCATAA
* * *
44115709 AGCCTGCTAGGCAATAAGCCTGATATAATTCACCAGCATAA
1 AGCCTGCTAGGCAATAAGCCTGAAATAATACACCGGCATAA
44115750 AGCCTGCTAGGC-ATAAAGCCTG
1 AGCCTGCTAGGCAAT-AAGCCTG
44115772 CTAGGCAGAA
Statistics
Matches: 98, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.02
41 96 0.98
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (41 bp):
AGCCTGCTAGGCAATAAGCCTGAAATAATACACCGGCATAA
Found at i:44115765 original size:16 final size:16
Alignment explanation
Indices: 44115744--44115787 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
44115734 TAATTCACCA
44115744 GCATAAAGCCTGCTAG
1 GCATAAAGCCTGCTAG
44115760 GCATAAAGCCTGCTAG
1 GCATAAAGCCTGCTAG
*
44115776 GCAGAAAGCCTG
1 GCATAAAGCCTG
44115788 AATATCACTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.32, C:0.25, G:0.27, T:0.16
Consensus pattern (16 bp):
GCATAAAGCCTGCTAG
Found at i:44118147 original size:27 final size:27
Alignment explanation
Indices: 44118051--44118137 Score: 138
Period size: 27 Copynumber: 3.2 Consensus size: 27
44118041 TTAGTTTACC
* *
44118051 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTAGCAAAATACCCCTAGTTTGTA
44118078 AAATTAGCAAAATACCCCTAGTTTGTA
1 AAATTAGCAAAATACCCCTAGTTTGTA
* *
44118105 AAATTAGCAAAATACCCCTAATTTGTG
1 AAATTAGCAAAATACCCCTAGTTTGTA
44118132 AAATTA
1 AAATTA
44118138 CTGAAATACC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTAGCAAAATACCCCTAGTTTGTA
Found at i:44118162 original size:27 final size:27
Alignment explanation
Indices: 44118132--44118192 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
44118122 CTAATTTGTG
44118132 AAATTACTGAAATACCGTCAACCTATA
1 AAATTACTGAAATACCGTCAACCTATA
* * * *
44118159 AAATTATTGAAATACCGTCGACTTGTA
1 AAATTACTGAAATACCGTCAACCTATA
44118186 AAATTAC
1 AAATTAC
44118193 CAAAGTACCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCGTCAACCTATA
Found at i:44118255 original size:53 final size:54
Alignment explanation
Indices: 44118201--44118415 Score: 310
Period size: 53 Copynumber: 4.0 Consensus size: 54
44118191 ACCAAAGTAC
* * *
44118201 CCCT-AATTTACAAAATTACCATTTTACTCTC-ATTTACAAAATTATTGTTTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTA
* **
44118253 CCCTCGATTTACAAAATTACTGTTTTACCCTCGATTTACAAAATTACTATTTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTA
* *
44118307 CCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA-AAAATTACTATTTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTA
* * *
44118360 CCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTA
44118414 CC
1 CC
44118416 TTTAAGGTGT
Statistics
Matches: 149, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
52 4 0.03
53 73 0.49
54 72 0.48
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (54 bp):
CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTATTTTA
Found at i:44118270 original size:27 final size:27
Alignment explanation
Indices: 44118206--44118415 Score: 298
Period size: 27 Copynumber: 7.9 Consensus size: 27
44118196 AGTACCCCTA
* *
44118206 ATTTACAAAATTACCATTTTACTCTC-
1 ATTTACAAAATTACTATTTTACCCTCG
* *
44118232 ATTTACAAAATTATTGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
*
44118259 ATTTACAAAATTACTGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
44118286 ATTTACAAAATTACTATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
**
44118313 ATTTACAAAATTACCGTTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
*
44118340 ATTTA-AAAATTACTATTTTACCCTCA
1 ATTTACAAAATTACTATTTTACCCTCG
* *
44118366 ATTTACAGAATTACCATTTTACCCTCG
1 ATTTACAAAATTACTATTTTACCCTCG
* *
44118393 ATTTATAAAATTACCATTTTACC
1 ATTTACAAAATTACTATTTTACC
44118416 TTTAAGGTGT
Statistics
Matches: 166, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
26 45 0.27
27 121 0.73
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.41
Consensus pattern (27 bp):
ATTTACAAAATTACTATTTTACCCTCG
Found at i:44118282 original size:80 final size:80
Alignment explanation
Indices: 44118201--44118415 Score: 326
Period size: 80 Copynumber: 2.7 Consensus size: 80
44118191 ACCAAAGTAC
* **
44118201 CCCT-AATTTACAAAATTACCATTTTACTCTC-ATTTACAAAATTATTGTTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
*
44118264 CAAAATTACTGTTTTA
66 -AAAATTACTATTTTA
* *
44118280 CCCTCGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
44118345 AAAATTACTATTTTA
66 AAAATTACTATTTTA
* * *
44118360 CCCTCAATTTACAGAATTACCATTTTACCCTCGATTTATAAAATTACCATTTTACC
1 CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACC
44118416 TTTAAGGTGT
Statistics
Matches: 123, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
79 4 0.03
80 89 0.72
81 30 0.24
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (80 bp):
CCCTCAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTA
AAAATTACTATTTTA
Found at i:44118894 original size:6 final size:6
Alignment explanation
Indices: 44118855--44118966 Score: 84
Period size: 6 Copynumber: 18.3 Consensus size: 6
44118845 TTGCATTCAC
* * * *
44118855 ATTCTG ATTTTG ATTCTG TTTCCTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
* * * * * *
44118904 ATTCTG ATTCTA ATTCTG -TCACCTG ATTCTA ATTCTA ATTCTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
44118953 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
44118967 AATGTTTCTT
Statistics
Matches: 83, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
5 2 0.02
6 73 0.88
7 7 0.08
8 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.12, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:44118930 original size:37 final size:37
Alignment explanation
Indices: 44118855--44118945 Score: 96
Period size: 37 Copynumber: 2.5 Consensus size: 37
44118845 TTGCATTCAC
* * *
44118855 ATTCTGATTTTGATTCTGTTTCCTAATACTGATTCTG
1 ATTCTGATTCTGATTCTGATTCCTAATACTGATCCTG
*
44118892 ATTCTGATTCTGATTCTGATT-CTAATTCTG-TCACCTG
1 ATTCTGATTCTGATTCTGATTCCTAATACTGAT--CCTG
* *
44118929 ATTCTAATTCTAATTCT
1 ATTCTGATTCTGATTCT
44118946 CATTTTGATT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
35 1 0.02
36 8 0.17
37 37 0.80
ACGTcount: A:0.21, C:0.19, G:0.11, T:0.49
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGATTCCTAATACTGATCCTG
Found at i:44118930 original size:43 final size:43
Alignment explanation
Indices: 44118883--44118964 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
44118873 TTTCCTAATA
* * *
44118883 CTGATTCTGATTCTGATTCTGATTCTGATTCTAATTCTGTCAC
1 CTGATTCTAATTCTAATTCTCATTCTGATTCTAATTCTGTCAC
* *
44118926 CTGATTCTAATTCTAATTCTCATTTTGATTCTAGTTCTG
1 CTGATTCTAATTCTAATTCTCATTCTGATTCTAATTCTG
44118965 ATAATGTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.49
Consensus pattern (43 bp):
CTGATTCTAATTCTAATTCTCATTCTGATTCTAATTCTGTCAC
Found at i:44121132 original size:27 final size:27
Alignment explanation
Indices: 44120918--44121141 Score: 193
Period size: 27 Copynumber: 8.3 Consensus size: 27
44120908 TTAGTTTACC
*
44120918 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * * * ***
44120945 AAATTGCTAAACTACCCTTGATTTACC
1 AAATTACCAAAATACCCCTGATTTGTA
*
44120972 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
44120999 AAATTACCAAAATACCCCTTG-TTTGTA
1 AAATTACCAAAATACCCC-TGATTTGTA
* * *
44121026 AAATTACCAAAATACCTCTAATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
* * ** *
44121053 AAATTACTAAAATA-CCGTCGACCTATA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** *
44121080 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
*
44121107 AAATTACCAAAGTACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
44121134 GAATTACC
1 AAATTACC
44121142 GTTTTACCCT
Statistics
Matches: 155, Mismatches: 38, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
26 3 0.02
27 146 0.94
28 6 0.04
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:44121149 original size:27 final size:27
Alignment explanation
Indices: 44121135--44121394 Score: 367
Period size: 27 Copynumber: 9.6 Consensus size: 27
44121125 TGATTTGTAG
44121135 AATTACCGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
*
44121162 AATTATCGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
*** *
44121189 AATTATTATTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAA
* *
44121216 AATTACTGTTTTACCCACGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
* *
44121243 AATTACTGTTTTACCCTCGATTTACAG
1 AATTACCGTTTTACCCTCGATTTACAA
* *
44121270 AATTACCGTTTTACCCTCGATTGACAG
1 AATTACCGTTTTACCCTCGATTTACAA
* * *
44121297 AATTATCATTTTATCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
*
44121324 AATTACTGTTTTACCCTCGATTTACAA
1 AATTACCGTTTTACCCTCGATTTACAA
*
44121351 AATTACCGTTTTACCCTCGATTTATAA
1 AATTACCGTTTTACCCTCGATTTACAA
*
44121378 AATTACCATTTTACCCT
1 AATTACCGTTTTACCCT
44121395 TAGGGTGTTA
Statistics
Matches: 209, Mismatches: 24, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 209 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.40
Consensus pattern (27 bp):
AATTACCGTTTTACCCTCGATTTACAA
Found at i:44121164 original size:81 final size:81
Alignment explanation
Indices: 44121079--44121393 Score: 213
Period size: 81 Copynumber: 3.9 Consensus size: 81
44121069 GTCGACCTAT
* ** **
44121079 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC-CTGATTTGTAGAATTACCG
1 AAAATTATCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCTC-GATTTACAGAATTACCG
*
44121143 TTTTACCCTCGATTTAC
65 TTTTACCCACGATTTAC
*** * ** *** *
44121160 AAAATTATCGTTTTACCCTCGATTTACAAAATTATTATTTTACCCTCGATTTACAGAATTACTGT
1 AAAATTATCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGT
44121225 TTTACCCACGATTTAC
66 TTTACCCACGATTTAC
*** * * **** * * *
44121241 AAAATTA-CTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTGACAGAATTATCA
1 AAAATTATC-GAAATACCCTCGACTTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCG
* *
44121305 TTTTATCCTCGATTTAC
65 TTTTACCCACGATTTAC
*** * **** * * *
44121322 AAAATTA-CTGTTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTATAAAATTACCA
1 AAAATTATC-GAAATACCCTCGACTTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCG
44121386 TTTTACCC
65 TTTTACCC
44121394 TTAGGGTGTT
Statistics
Matches: 200, Mismatches: 32, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
80 1 0.00
81 198 0.99
82 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (81 bp):
AAAATTATCGAAATACCCTCGACTTACAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGT
TTTACCCACGATTTAC
Found at i:44121872 original size:6 final size:6
Alignment explanation
Indices: 44121833--44121887 Score: 56
Period size: 6 Copynumber: 9.0 Consensus size: 6
44121823 TTGCATTCAC
* * * * *
44121833 ATTCTG ATTTTG ATTTTG TTTCCTA ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG
44121882 ATTCTG
1 ATTCTG
44121888 TCACCTGATT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
6 38 0.95
7 2 0.05
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (6 bp):
ATTCTG
Found at i:44121922 original size:18 final size:17
Alignment explanation
Indices: 44121896--44121929 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
44121886 TGTCACCTGA
44121896 TTCTAATTCTGATAATGT
1 TTCTAATTCTG-TAATGT
*
44121914 TTCTTATTCTGTAATG
1 TTCTAATTCTGTAATG
44121930 GGCTAAGGCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.24, C:0.12, G:0.12, T:0.53
Consensus pattern (17 bp):
TTCTAATTCTGTAATGT
Found at i:44124301 original size:153 final size:153
Alignment explanation
Indices: 44124023--44124331 Score: 591
Period size: 153 Copynumber: 2.0 Consensus size: 153
44124013 GTAAGCTCGT
* *
44124023 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACATATTTAATGTATCATCATGTAACT
1 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
*
44124088 CATATTAACTAACAAACCTTTCACTTATTTAATCAGAAGATTATATGTGATCTTCACAAATCACT
66 CATATTAACTAACAAACCTTTCACTTATTCAATCAGAAGATTATATGTGATCTTCACAAATCACT
44124153 TCAATTTAAAGCTTATACAGTTC
131 TCAATTTAAAGCTTATACAGTTC
44124176 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
1 ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
44124241 CATATTAACTAACAAACCTTTCACTTATTCAATCAGAAGATTATATGTGATCTTCACAAATCACT
66 CATATTAACTAACAAACCTTTCACTTATTCAATCAGAAGATTATATGTGATCTTCACAAATCACT
44124306 TCAATTTAAAGCTTATACAGTTC
131 TCAATTTAAAGCTTATACAGTTC
44124329 ATG
1 ATG
44124332 TACATACTGG
Statistics
Matches: 153, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (153 bp):
ATGCAATAAACTTAATATAATCATCAATACACAATTCAACAAATTTAATATATCATCATGTAACT
CATATTAACTAACAAACCTTTCACTTATTCAATCAGAAGATTATATGTGATCTTCACAAATCACT
TCAATTTAAAGCTTATACAGTTC
Found at i:44125691 original size:18 final size:18
Alignment explanation
Indices: 44125668--44125703 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
44125658 AACTTTCACA
44125668 CCAACATACTATCATACT
1 CCAACATACTATCATACT
44125686 CCAACATACTATCATACT
1 CCAACATACTATCATACT
44125704 GTAAGCATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.28
Consensus pattern (18 bp):
CCAACATACTATCATACT
Found at i:44129892 original size:29 final size:29
Alignment explanation
Indices: 44129849--44129926 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 29
44129839 GCTGCACTAG
**
44129849 GACATATTAAAAACATGT-TTTAATTTGAA
1 GACATATTAAAAACATGTATTTAAGCT-AA
*
44129878 GACATATTAATAACATGTATTTAAGCTAA
1 GACATATTAAAAACATGTATTTAAGCTAA
* *
44129907 GACATATTAAAGACTTGTAT
1 GACATATTAAAAACATGTAT
44129927 AAAATATGAC
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 36 0.86
30 6 0.14
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.36
Consensus pattern (29 bp):
GACATATTAAAAACATGTATTTAAGCTAA
Found at i:44138990 original size:42 final size:42
Alignment explanation
Indices: 44138912--44138992 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
44138902 GTGCAGGATT
* **
44138912 CACACGGCTAAGACACATACCCGTGTTCTTGGCCATGTGTCA
1 CACACGGCTAAGACACACACCCGTGTTCTTACCCATGTGTCA
* *
44138954 CACACGGCTGAGACACACGCCCGTG-TCTCTACCCATGTG
1 CACACGGCTAAGACACACACCCGTGTTCT-TACCCATGTG
44138993 CCTAATTTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.22, C:0.35, G:0.22, T:0.21
Consensus pattern (42 bp):
CACACGGCTAAGACACACACCCGTGTTCTTACCCATGTGTCA
Found at i:44156971 original size:47 final size:51
Alignment explanation
Indices: 44156904--44157007 Score: 119
Period size: 50 Copynumber: 2.1 Consensus size: 51
44156894 AGCTCCTCCT
* *
44156904 GAGCTGATGGACAGTAAGCT-CTGACGAGCA-A-A-ATTAGTAAGCTCATAC
1 GAGCTGATGAACAATAAGCTCCT-ACGAGCAGATATATTAGTAAGCTCATAC
* *
44156952 GAGCTGA-GAACAATAAGCTCCTATGAGCAGATATATTGGTAAGCTCATAC
1 GAGCTGATGAACAATAAGCTCCTACGAGCAGATATATTAGTAAGCTCATAC
*
44157002 AAGCTG
1 GAGCTG
44157008 TGGTGAGTTC
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
47 16 0.34
48 10 0.21
49 1 0.02
50 20 0.43
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (51 bp):
GAGCTGATGAACAATAAGCTCCTACGAGCAGATATATTAGTAAGCTCATAC
Found at i:44160354 original size:47 final size:47
Alignment explanation
Indices: 44160275--44160634 Score: 594
Period size: 47 Copynumber: 7.6 Consensus size: 47
44160265 TATTTGAATA
44160275 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44160324 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44160371 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44160418 AATGTGAAAGTGTATATATGTGATAAGGCTTAATGGTCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44160465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44160514 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
44160561 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44160608 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44160635 TCCCGAAGGG
Statistics
Matches: 295, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 238 0.81
49 57 0.19
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44160533 original size:143 final size:143
Alignment explanation
Indices: 44160275--44160634 Score: 593
Period size: 143 Copynumber: 2.5 Consensus size: 143
44160265 TATTTGAATA
44160275 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
44160338 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
44160403 ATGGCCGATGTGATG
129 ATGGCCGATGTGATG
* *
44160418 AATGTGAAAGTGTATATATGTGATAAGGCTTAATGGTCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44160483 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
44160548 GGCCGATGTGATG
131 GGCCGATGTGATG
* * * * * * *
44160561 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44160625 -ATGTGATAAG
66 TATGTGATAAG
44160635 TCCCGAAGGG
Statistics
Matches: 204, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
141 55 0.27
142 1 0.00
143 148 0.73
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
GGCCGATGTGATG
Found at i:44160615 original size:190 final size:190
Alignment explanation
Indices: 44160275--44160634 Score: 648
Period size: 190 Copynumber: 1.9 Consensus size: 190
44160265 TATTTGAATA
44160275 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
44160340 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
* * *
44160405 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGTCGATGTGATG
131 GGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCTTAATGGTCGATGTGATG
44160465 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
44160530 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
*
44160595 GGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 GGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
44160635 TCCCGAAGGG
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
190 162 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (190 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAAT
GGCCAACGTGATGAATGTGAAAGTGTATAAATGTGATAAGGCTTAATGGTCGATGTGATG
Found at i:44162126 original size:29 final size:29
Alignment explanation
Indices: 44162091--44162164 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
44162081 GTTGTGAGAT
* *
44162091 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44162120 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
44162149 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44162165 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44162600 original size:40 final size:40
Alignment explanation
Indices: 44162477--44162712 Score: 201
Period size: 40 Copynumber: 5.9 Consensus size: 40
44162467 TTGAATGATG
** *
44162477 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
44162517 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
44162557 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
** *
44162597 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
44162637 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
44162677 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
44162713 CGTGTATTCG
Statistics
Matches: 160, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 140 0.88
41 19 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:44167094 original size:47 final size:47
Alignment explanation
Indices: 44166949--44167298 Score: 522
Period size: 47 Copynumber: 7.6 Consensus size: 47
44166939 TATTTGAATA
44166949 AATGTGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44166997 AATGTGAAAGTGTATATATGTGATAAGG-CTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44167043 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44167090 AATGTGAAAGTGTATATATGTGATAA-G-CTAA-GG--GATG-GATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44167131 AA--TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44167178 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
44167225 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44167272 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44167299 TCCCGAAGGG
Statistics
Matches: 281, Mismatches: 10, Indels: 23
0.89 0.03 0.07
Matches are distributed among these distances:
39 8 0.03
41 20 0.07
42 5 0.02
43 4 0.01
44 4 0.01
45 4 0.01
46 67 0.24
47 149 0.53
48 12 0.04
49 8 0.03
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44167184 original size:135 final size:137
Alignment explanation
Indices: 44166949--44167298 Score: 503
Period size: 135 Copynumber: 2.5 Consensus size: 137
44166939 TATTTGAATA
44166949 AATGTGAAAGTGTATATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
1 AATGTGAAAGTG--TATATATGTGATAAGGCTAATGG-CGATGTGATGAA-GTGAAAGTGTATAT
44167014 ATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
62 ATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
44167079 CCGATGTGATG
127 CCGATGTGATG
44167090 AATGTGAAAGTGTATATATGTGATAA-GCTAA-GG-GATG-GATGAA-TGAAAGTGTATATATAT
1 AATGTGAAAGTGTATATATGTGATAAGGCTAATGGCGATGTGATGAAGTGAAAGTG--TATATAT
44167150 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
64 GTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
44167215 CGATGTGATG
128 CGATGTGATG
* * * * * * * *
44167225 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGG-CTAATGG-CGATGTGAT-GAAGTGAAAGTGTATATA
44167290 TGTGATAAG
63 TGTGATAAG
44167299 TCCCGAAGGG
Statistics
Matches: 190, Mismatches: 8, Indels: 22
0.86 0.04 0.10
Matches are distributed among these distances:
132 8 0.04
134 22 0.12
135 93 0.49
136 1 0.01
137 4 0.02
138 7 0.04
139 14 0.07
140 2 0.01
141 29 0.15
142 2 0.01
143 8 0.04
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (137 bp):
AATGTGAAAGTGTATATATGTGATAAGGCTAATGGCGATGTGATGAAGTGAAAGTGTATATATGT
GATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
TGTGATG
Found at i:44167279 original size:182 final size:180
Alignment explanation
Indices: 44166953--44167298 Score: 602
Period size: 182 Copynumber: 1.9 Consensus size: 180
44166943 TGAATAAATG
44166953 TGAAAGTGTATATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 TGAAAGTGTATATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* * *
44167018 GATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGA
66 GATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAA
* *
44167083 TGTGATGAATGTGAAAGTGTATATATGTGATAAGCTAAGGGATGGATGAA
131 CGTGATGAATGTGAAAGTGTATAAATGTGATAAGCTAAGGGATGGATGAA
44167133 TGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
1 TGAAAGTGTATATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG
* *
44167198 TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCC
65 TGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCC
*
44167263 AACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
129 AACGTGATGAATGTGAAAGTGTATAAATGTGATAAG
44167299 TCCCGAAGGG
Statistics
Matches: 156, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
180 26 0.17
181 46 0.29
182 84 0.54
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.29
Consensus pattern (180 bp):
TGAAAGTGTATATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
GATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGAATGGCCAA
CGTGATGAATGTGAAAGTGTATAAATGTGATAAGCTAAGGGATGGATGAA
Found at i:44168787 original size:29 final size:29
Alignment explanation
Indices: 44168752--44168825 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
44168742 GTTGTGAGAT
* *
44168752 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
44168781 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
44168810 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
44168826 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:44169261 original size:40 final size:40
Alignment explanation
Indices: 44169138--44169373 Score: 201
Period size: 40 Copynumber: 5.9 Consensus size: 40
44169128 TTGAATGATG
** *
44169138 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
44169178 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
44169218 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
** *
44169258 TCCGGGCTAAGTTTCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * * *
44169298 TCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGTGTTATG
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
44169338 TCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
44169374 CGTGTATTCG
Statistics
Matches: 160, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
39 1 0.01
40 140 0.88
41 19 0.12
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:44173689 original size:47 final size:47
Alignment explanation
Indices: 44173610--44173968 Score: 594
Period size: 47 Copynumber: 7.6 Consensus size: 47
44173600 TATTTGAATA
44173610 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44173659 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44173706 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
44173753 AATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
44173800 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
44173849 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
44173896 AATGTGAAAGTGTATATATGTGA-CAGGGCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
44173942 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
44173969 TCCCGAAGGG
Statistics
Matches: 296, Mismatches: 11, Indels: 8
0.94 0.03 0.03
Matches are distributed among these distances:
46 38 0.13
47 200 0.68
49 58 0.20
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:44173868 original size:143 final size:142
Alignment explanation
Indices: 44173610--44173968 Score: 591
Period size: 143 Copynumber: 2.5 Consensus size: 142
44173600 TATTTGAATA
44173610 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TA
1 AATGTGAAAGTG--TATATATGTGATAAGG-CTAATGGCCGATGTGATGAATGTGAAAGTGTATA
44173673 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
63 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
44173738 ATGGCCGATGTGATG
128 ATGGCCGATGTGATG
44173753 AATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGC-TAATGGCCGATGTGATGAATGTGAAAGTGTATATA
44173818 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
65 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
44173883 GGCCGATGTGATG
130 GGCCGATGTGATG
* * * * * * *
44173896 AATGTGAAAGTGTATATATGTGACAGGGCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA-A-
1 AATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
44173959 ATGTGATAAG
66 ATGTGATAAG
44173969 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 7, Indels: 9
0.93 0.03 0.04
Matches are distributed among these distances:
140 11 0.05
141 46 0.22
142 28 0.14
143 121 0.59
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.30
Consensus pattern (142 bp):
AATGTGAAAGTGTATATATGTGATAAGGCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
GCCGATGTGATG
Found at i:44179885 original size:11 final size:11
Alignment explanation
Indices: 44179869--44179927 Score: 72
Period size: 11 Copynumber: 5.7 Consensus size: 11
44179859 ACTTGATTTG
44179869 ACATGATATGC
1 ACATGATATGC
44179880 ACATGATATG-
1 ACATGATATGC
*
44179890 -TATGATATGC
1 ACATGATATGC
44179900 ACATGATATG-
1 ACATGATATGC
*
44179910 -TATGATATGC
1 ACATGATATGC
44179920 ACATGATA
1 ACATGATA
44179928 AATTCATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.40
11 24 0.60
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.32
Consensus pattern (11 bp):
ACATGATATGC
Found at i:44179896 original size:20 final size:20
Alignment explanation
Indices: 44179871--44179927 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
44179861 TTGATTTGAC
44179871 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
44179891 ATGATATGCACATGATATGT
1 ATGATATGCACATGATATGT
44179911 ATGATATGCACATGATA
1 ATGATATGCACATGATA
44179928 AATTCATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGATATGCACATGATATGT
Found at i:44180037 original size:25 final size:25
Alignment explanation
Indices: 44179975--44180070 Score: 165
Period size: 25 Copynumber: 3.8 Consensus size: 25
44179965 GAGGAAGTGC
44179975 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
44180000 AAAAAGGGCTTTGCCCCAGTTTACCG
1 -AAAAGGGCTTTGCCCCAGTTTACCG
* *
44180026 AAAAGGGTTTTGCCCCAGTTTATCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
44180051 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
44180071 ATTAAAAGAG
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
25 42 0.63
26 25 0.37
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:44180053 original size:51 final size:50
Alignment explanation
Indices: 44179975--44180070 Score: 165
Period size: 51 Copynumber: 1.9 Consensus size: 50
44179965 GAGGAAGTGC
44179975 AAAAGGGCTTTGCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG-AAAAGGGCTTTGCCCCAGTTTACCG
* *
44180026 AAAAGGGTTTTGCCCCAGTTTATCGAAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTT
44180071 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
50 20 0.47
51 23 0.53
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTACCG
Found at i:44180094 original size:50 final size:51
Alignment explanation
Indices: 44179986--44180095 Score: 127
Period size: 50 Copynumber: 2.2 Consensus size: 51
44179976 AAAGGGCTTT
* **
44179986 GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGTTTT
1 GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGGTAG
* **
44180037 GCCCCAGTTTATCG-AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGGTAG
1 GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAG-GGGTAG
44180086 GCCTCCAGTT
1 GCC-CCAGTT
44180096 ATGTGATAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
48 5 0.10
49 9 0.18
50 24 0.47
51 13 0.25
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (51 bp):
GCCCCAGTTTACCGAAAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGGTAG
Found at i:44180324 original size:30 final size:31
Alignment explanation
Indices: 44180290--44180363 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
44180280 CGTTTGCAGT
*
44180290 AAAGGCTTCGGCCCAATGATATG-ATAATGA
1 AAAGGCTTCGGCCCAATGACATGAATAATGA
* * *
44180320 AAAGGCTTCGGCCTAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAATGACATGAATAATGA
44180351 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
44180364 AAGTATATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 20 0.51
31 19 0.49
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGACATGAATAATGA
Found at i:44187819 original size:11 final size:11
Alignment explanation
Indices: 44187803--44187841 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
44187793 ACATGATTCG
44187803 ACATGATATGC
1 ACATGATATGC
44187814 ACATGATATG-
1 ACATGATATGC
*
44187824 -TATGATATGC
1 ACATGATATGC
44187834 ACATGATA
1 ACATGATA
44187842 AATTCATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
9 8 0.33
11 16 0.67
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (11 bp):
ACATGATATGC
Found at i:44187945 original size:25 final size:25
Alignment explanation
Indices: 44187889--44187945 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
44187879 GAGGAAGTGC
* *
44187889 AAAAGGGCTTTGCCCCAGTTTATCC
1 AAAAGGGCTTTGCCCCAGGTTATCA
*
44187914 AAAAGGGCTTTGCCCC-GGTTATTA
1 AAAAGGGCTTTGCCCCAGGTTATCA
44187938 AAAGAGGG
1 AAA-AGGG
44187946 TAGGCCTCCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 8 0.29
25 20 0.71
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGGTTATCA
Found at i:44188199 original size:30 final size:31
Alignment explanation
Indices: 44188163--44188235 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
44188153 AAAGGATTCA
44188163 GCCCAGTGATATG-ATAATGAAAACGCTTCG
1 GCCCAGTGATATGAATAATGAAAACGCTTCG
* * *
44188193 GCCCAGTGACATGAATAATGCAAAGGCTTCG
1 GCCCAGTGATATGAATAATGAAAACGCTTCG
*
44188224 GCCAAGT-ATATG
1 GCCCAGTGATATG
44188236 TTGAGATTGA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 16 0.43
31 21 0.57
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.22
Consensus pattern (31 bp):
GCCCAGTGATATGAATAATGAAAACGCTTCG
Found at i:44188222 original size:31 final size:30
Alignment explanation
Indices: 44188153--44188226 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 30
44188143 CGTTTACAGT
* * *
44188153 AAAGGATTCAGCCCAGTGATATGATAATGA
1 AAAGGCTTCGGCCCAGTGACATGATAATGA
* *
44188183 AAACGCTTCGGCCCAGTGACATGAATAATGC
1 AAAGGCTTCGGCCCAGTGACATG-ATAATGA
44188214 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
44188227 AAGTATATGT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
30 19 0.51
31 18 0.49
ACGTcount: A:0.34, C:0.22, G:0.24, T:0.20
Consensus pattern (30 bp):
AAAGGCTTCGGCCCAGTGACATGATAATGA
Found at i:44189395 original size:20 final size:18
Alignment explanation
Indices: 44189348--44189396 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
44189338 CAAAATAAAC
44189348 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
44189365 ATTAAGA-TAATCACTTTAAT
1 ATTAA-ATTAAT-A-TTTAAT
44189385 ATTAAATTAATA
1 ATTAAATTAATA
44189397 AAATACTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 8 0.30
18 1 0.04
19 3 0.11
20 15 0.56
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:44192120 original size:46 final size:46
Alignment explanation
Indices: 44191977--44192120 Score: 143
Period size: 46 Copynumber: 3.1 Consensus size: 46
44191967 CTCGCCCATA
* *
44191977 AGTGAACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA--TACATC-CT
* * * *
44192026 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCC-T
* *
44192069 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
44192116 AGTGA
1 AGTGA
44192121 CATGTCACTT
Statistics
Matches: 77, Mismatches: 12, Indels: 15
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.01
43 6 0.08
45 2 0.03
46 34 0.44
47 28 0.36
48 6 0.08
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTATACATCCT
Found at i:44195765 original size:20 final size:20
Alignment explanation
Indices: 44195723--44195769 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
44195713 TGGGAAATTG
* *
44195723 AATCAATTTGATTAAAATCA
1 AATCAAATTGATTAAAATAA
*
44195743 AATCAAATTGATTAGAATAA
1 AATCAAATTGATTAAAATAA
44195763 AAT-AAAT
1 AATCAAAT
44195770 CAGAATATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.32
Consensus pattern (20 bp):
AATCAAATTGATTAAAATAA
Found at i:44197826 original size:22 final size:22
Alignment explanation
Indices: 44197801--44197884 Score: 84
Period size: 22 Copynumber: 4.0 Consensus size: 22
44197791 CAGTTGATTT
44197801 ATTTAGTCTCCTTCTAAAATTA
1 ATTTAGTCTCCTTCTAAAATTA
* * ** * *
44197823 ATTTAATGTCAGT-T--GATTT
1 ATTTAGTCTCCTTCTAAAATTA
44197842 ATTTAGTCTCCTTCTAAAATTA
1 ATTTAGTCTCCTTCTAAAATTA
*
44197864 ATTTAGTCTGCTTCTAAAATT
1 ATTTAGTCTCCTTCTAAAATT
44197885 TGAAAGTTTA
Statistics
Matches: 46, Mismatches: 13, Indels: 6
0.71 0.20 0.09
Matches are distributed among these distances:
19 12 0.26
20 1 0.02
21 1 0.02
22 32 0.70
ACGTcount: A:0.30, C:0.14, G:0.08, T:0.48
Consensus pattern (22 bp):
ATTTAGTCTCCTTCTAAAATTA
Found at i:44197845 original size:41 final size:41
Alignment explanation
Indices: 44197788--44197868 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
44197778 CTCTTGATAG
44197788 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
1 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
44197829 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTA
1 TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTA
44197869 GTCTGCTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.49
Consensus pattern (41 bp):
TGTCAGTTGATTTATTTAGTCTCCTTCTAAAATTAATTTAA
Found at i:44200810 original size:21 final size:21
Alignment explanation
Indices: 44200770--44201023 Score: 106
Period size: 21 Copynumber: 12.2 Consensus size: 21
44200760 CATTGTTAAT
44200770 AGAAGCTCG-TA-AGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
*
44200789 AGAAGCTCGTTAGAGCTAAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * **
44200810 AGAAACTC-TTAAGAGTTGATT
1 AGAAGCTCGTT-AGAGCTGAAC
* * *
44200831 AGAAGCTCATAAGAGCTAAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * * * *
44200852 AAAAACTCATAAGAGTTTAAC
1 AGAAGCTCGTTAGAGCTGAAC
* **
44200873 ATAAGCTCAATAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * *
44200894 -GAAAACTC-ATATGAGTTAAAC
1 AG-AAGCTCGTTA-GAGCTGAAC
*
44200915 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * ** *
44200936 AAAAACTCGCGAGAGTTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
**
44200957 AGAAGCTCAATAGAGCTGAAC
1 AGAAGCTCGTTAGAGCTGAAC
* * * * *
44200978 GGAAACTC-ATATGAGTTAAAC
1 AGAAGCTCGTTA-GAGCTGAAC
* *
44200999 AGAAGCTCGTAAGAGCTAAAC
1 AGAAGCTCGTTAGAGCTGAAC
44201020 AGAA
1 AGAA
44201024 AGTAAAACAT
Statistics
Matches: 174, Mismatches: 51, Indels: 18
0.72 0.21 0.07
Matches are distributed among these distances:
19 9 0.05
20 10 0.06
21 151 0.87
22 4 0.02
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAAGCTCGTTAGAGCTGAAC
Found at i:44200848 original size:42 final size:42
Alignment explanation
Indices: 44200786--44201024 Score: 232
Period size: 42 Copynumber: 5.7 Consensus size: 42
44200776 TCGTAAGCTG
* * * *
44200786 AACAGAAGCTCGTTAGAGCTAAACAGAAACTCTTAAGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
** * *
44200828 ATTAGAAGCTCATAAGAGCTAAACAAAAACTCATAAGAGTTT
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
* * *
44200870 AACATAAGCTCA-ATAGAGCTGAAC-GAAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACAG-AAACTCATAAGAGTTA
* * * *** *
44200912 AACAGAAGCTCGTAAGAGCTGAACAAAAACTCGCGAGAGTTG
1 AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
* * *
44200954 AACAGAAGCTCA-ATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTAAACAGAAACTCATAAGAGTTA
*
44200996 AACAGAAGCTCGTAAGAGCTAAACAGAAA
1 AACAGAAGCTCATAAGAGCTAAACAGAAA
44201025 GTAAAACATG
Statistics
Matches: 158, Mismatches: 33, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
41 2 0.01
42 154 0.97
43 2 0.01
ACGTcount: A:0.44, C:0.17, G:0.20, T:0.19
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTAAACAGAAACTCATAAGAGTTA
Found at i:44200937 original size:84 final size:84
Alignment explanation
Indices: 44200784--44201020 Score: 314
Period size: 84 Copynumber: 2.8 Consensus size: 84
44200774 GCTCGTAAGC
** * * * * ** *
44200784 TGAACAGAAGCTCGTTAGAGCTAAAC-AGAAACTCTTAAGAGTTGATTAGAAGCTCATAAGAGCT
1 TGAACAGAAGCTCAATAGAGCTGAACGA-AAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCT
*
44200848 AAACAAAAACTCATAAGAGT
65 AAACAAAAACTCACAAGAGT
* * *
44200868 TTAACATAAGCTCAATAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTG
1 TGAACAGAAGCTCAATAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
* *
44200933 AACAAAAACTCGCGAGAGT
66 AACAAAAACTCACAAGAGT
*
44200952 TGAACAGAAGCTCAATAGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
1 TGAACAGAAGCTCAATAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
44201017 AACA
66 AACA
44201021 GAAAGTAAAA
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
84 132 0.99
85 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.19
Consensus pattern (84 bp):
TGAACAGAAGCTCAATAGAGCTGAACGAAAACTCATATGAGTTAAACAGAAGCTCGTAAGAGCTA
AACAAAAACTCACAAGAGT
Found at i:44205800 original size:12 final size:12
Alignment explanation
Indices: 44205783--44205807 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44205773 GCCGACTACT
44205783 GTTACTGTTACC
1 GTTACTGTTACC
44205795 GTTACTGTTACC
1 GTTACTGTTACC
44205807 G
1 G
44205808 ATTCAGCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:44206095 original size:18 final size:18
Alignment explanation
Indices: 44206032--44206102 Score: 63
Period size: 18 Copynumber: 3.9 Consensus size: 18
44206022 TGGAAAGATC
44206032 GACTGTTACTGAATAATTT
1 GACTGTTACTGAATAA-TT
* * *
44206051 AATTGTTACTGTAT-ATCT
1 GACTGTTACTGAATAAT-T
* *
44206069 GATTTTTACTGAATAATT
1 GACTGTTACTGAATAATT
*
44206087 GACTGTTACTGGATAA
1 GACTGTTACTGAATAA
44206103 CCGATCAGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.02
18 27 0.66
19 13 0.32
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (18 bp):
GACTGTTACTGAATAATT
Found at i:44206151 original size:18 final size:18
Alignment explanation
Indices: 44206119--44206182 Score: 74
Period size: 18 Copynumber: 3.6 Consensus size: 18
44206109 AGTTGATTGA
*
44206119 TACTGAACAACTGATTAT
1 TACTGAATAACTGATTAT
* * *
44206137 TATTGAATAATTGATTGT
1 TACTGAATAACTGATTAT
* *
44206155 TACCGAATAACTGACTAT
1 TACTGAATAACTGATTAT
44206173 TACTGAATAA
1 TACTGAATAA
44206183 ATAATTGTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGATTAT
Found at i:44206167 original size:36 final size:36
Alignment explanation
Indices: 44206111--44206191 Score: 99
Period size: 36 Copynumber: 2.2 Consensus size: 36
44206101 AACCGATCAG
* * * *
44206111 TTGATTGATACTGAACAACTGATTATTATTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
*
44206147 TTGATTGTTACCGAATAACTGACTATTACTGAATAA
1 TTGATTGTTACCGAACAACTGACTATTACTGAATAA
* *
44206183 ATAATTGTT
1 TTGATTGTT
44206192 CTGATTGTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGATTGTTACCGAACAACTGACTATTACTGAATAA
Found at i:44213894 original size:32 final size:32
Alignment explanation
Indices: 44213848--44213916 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
44213838 TTTAGGATTT
44213848 CCTATTAATGAAACGTTGAGTTTTACTATCAG
1 CCTATTAATGAAACGTTGAGTTTTACTATCAG
* *
44213880 TCTATTAATTAAACGTTGAGTTTTACTATCAG
1 CCTATTAATGAAACGTTGAGTTTTACTATCAG
44213912 CCTAT
1 CCTAT
44213917 GTAAACGTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (32 bp):
CCTATTAATGAAACGTTGAGTTTTACTATCAG
Found at i:44218038 original size:139 final size:139
Alignment explanation
Indices: 44217788--44218068 Score: 562
Period size: 139 Copynumber: 2.0 Consensus size: 139
44217778 GTAACGCAAA
44217788 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
1 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
44217853 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
66 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
44217918 TAAGTGAGG
131 TAAGTGAGG
44217927 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
1 TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
44217992 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
66 CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
44218057 TAAGTGAGG
131 TAAGTGAGG
44218066 TTG
1 TTG
44218069 GGGCACAAAA
Statistics
Matches: 142, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
139 142 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (139 bp):
TTGTTTAAATGGGGAAATGTTTTATCAATGACTTAATTTTCGAAAGCACTTTCATGTGACACCGC
CAGATTCAGCCATAATGTCTAGGCTGGGTTTGGGGGTGTTACAGCAATTTTAATTAAAGATGTCA
TAAGTGAGG
Found at i:44218261 original size:21 final size:21
Alignment explanation
Indices: 44218235--44218274 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
44218225 AAGAATGAGG
44218235 TTACATATGATGTTCTGTTGA
1 TTACATATGATGTTCTGTTGA
*
44218256 TTACATATGATGTTTTGTT
1 TTACATATGATGTTCTGTT
44218275 TTGGACAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.07, G:0.17, T:0.53
Consensus pattern (21 bp):
TTACATATGATGTTCTGTTGA
Found at i:44225561 original size:47 final size:45
Alignment explanation
Indices: 44225493--44225665 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
44225483 GGATTGTTGT
* *
44225493 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCATTACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-GACGA
* * *
44225539 GAGCCAGTGTAAGAACATGTCTGGGACATGGCATCGGCATTGAGATGA
1 GAGCCAGTGTAAG-ACATGTCTGGGACAT-GCATCGGC-CTCAGACGA
* * **
44225587 GAGCTAGCGTAAGACATGTCTGGGACATGCATCAACCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTC-AGACG-A
* *
44225634 -AGCCAGAGTAAGACATGTCTAGGACATGCATC
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC
44225666 AACTATGAGT
Statistics
Matches: 107, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
45 1 0.01
46 51 0.48
47 31 0.29
48 22 0.21
49 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAGACGA
Found at i:44227177 original size:16 final size:16
Alignment explanation
Indices: 44227158--44227188 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44227148 CTTTTTAACT
44227158 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
44227174 TACTTACTTACTTAA
1 TACTCACTTACTTAA
44227189 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:44227194 original size:20 final size:20
Alignment explanation
Indices: 44227155--44227194 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
44227145 AAACTTTTTA
* *
44227155 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
44227175 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
44227195 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:44227315 original size:5 final size:5
Alignment explanation
Indices: 44227305--44227332 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44227295 TATAACTCAT
44227305 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
1 CTTAC CTTAC CTTAC CTTAC CTTAC CTT
44227333 GATATTCTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.39, G:0.00, T:0.43
Consensus pattern (5 bp):
CTTAC
Found at i:44227581 original size:55 final size:53
Alignment explanation
Indices: 44227450--44227645 Score: 173
Period size: 55 Copynumber: 3.6 Consensus size: 53
44227440 CTTACCATTT
* *
44227450 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * *
44227503 CCAT-ACGTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATAGTAACTTATCAATG
1 CCATGTC-TTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
* ** * *
44227558 CCATGTCTTAACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTTACCGATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACC-AATG
* * * *
44227613 TCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
44227646 AAACCCTAGT
Statistics
Matches: 116, Mismatches: 19, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
52 3 0.03
53 34 0.29
54 6 0.05
55 70 0.60
56 3 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:44242732 original size:46 final size:45
Alignment explanation
Indices: 44242674--44242892 Score: 200
Period size: 46 Copynumber: 4.7 Consensus size: 45
44242664 GGATTATTGT
44242674 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACGA
*
44242720 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGG--CATTGAGACGA
1 GAGCTAGTGTAAGAC-ATGTCTGGGACAT-GCATCGGCCCATT---ACGA
* * * **
44242768 GAGCTAGTGTAAGGCATGTCTGGGACGTGCATCAGCCTCAAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTACG-A
*
44242815 -AGCTAGAGTAAGACATGTCTGGGACATGCATCGG--C--TACGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
*
44242855 GTTGAGCTAGTGTAAGACCATGTCCGGGACATGGCATC
1 ---GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATC
44242893 AGCATCCTAC
Statistics
Matches: 144, Mismatches: 14, Indels: 30
0.77 0.07 0.16
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
43 1 0.01
44 12 0.08
45 17 0.12
46 58 0.40
47 26 0.18
48 24 0.17
49 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTACGA
Done.