Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, whole genome shotgun sequence
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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 45 of 117
Found at i:10623953 original size:13 final size:12
Alignment explanation
Indices: 10623923--10623964 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
10623913 AAATCGTATA
10623923 CTGAATGGTTTG
1 CTGAATGGTTTG
*
10623935 CTGAATGGTATTT
1 CTGAATGGT-TTG
*
10623948 CTGAATGATTTG
1 CTGAATGGTTTG
10623960 CTGAA
1 CTGAA
10623965 GGATGTGTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 16 0.62
13 10 0.38
ACGTcount: A:0.24, C:0.10, G:0.26, T:0.40
Consensus pattern (12 bp):
CTGAATGGTTTG
Found at i:10627137 original size:36 final size:35
Alignment explanation
Indices: 10627071--10627140 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 35
10627061 ATATATAAAT
* *
10627071 CAAATATTTTCTGGACATAAATATATAACTAACTC
1 CAAATATTTTCTGGACATAAACATACAACTAACTC
* * *
10627106 CAAATATTTTTTTGGGCATAAACCTACAACTAACT
1 CAAATA-TTTTCTGGACATAAACATACAACTAACT
10627141 TGACATATAC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (35 bp):
CAAATATTTTCTGGACATAAACATACAACTAACTC
Found at i:10631300 original size:18 final size:18
Alignment explanation
Indices: 10631265--10631306 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
10631255 AAATATTAGA
*
10631265 AAATAATTTTTAATATTT
1 AAATAATATTTAATATTT
*
10631283 TAATAATATTT-ATAATTT
1 AAATAATATTTAAT-ATTT
10631301 AAATAA
1 AAATAA
10631307 ACAAGCCTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATAATATTTAATATTT
Found at i:10633447 original size:49 final size:49
Alignment explanation
Indices: 10633346--10633440 Score: 118
Period size: 50 Copynumber: 1.9 Consensus size: 49
10633336 ATATCTTCAC
* * *
10633346 TTTTTGAATTTCTAAAATTTCCACCATTTGGGTCAATTTAGAAATATAT
1 TTTTTGAATTTCTAAAATTTCCACCATTTCGGCCAATTTAAAAATATAT
* * * *
10633395 TTTTTGGAATTTCTAAATTTTTCATCATTTCGGCCTATTTAAAAAT
1 TTTTT-GAATTTCTAAAATTTCCACCATTTCGGCCAATTTAAAAAT
10633441 TCTTTTTATT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 5 0.13
50 33 0.87
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (49 bp):
TTTTTGAATTTCTAAAATTTCCACCATTTCGGCCAATTTAAAAATATAT
Found at i:10635167 original size:43 final size:43
Alignment explanation
Indices: 10635129--10635493 Score: 477
Period size: 43 Copynumber: 8.6 Consensus size: 43
10635119 AGAGGTAACG
* * * *
10635129 CAACTTTTGGAAAAATAAATTACTCTTCTAAATAGAGGTACCA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* *
10635172 CAAC-TTT-GAAAAATAAATTGTTCCTCTAAACAGACGCACCA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* * *
10635213 CAACTTTTGAAAAAATAAATTGCTCCTCTAAACAGAGGTATCA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* * *
10635256 TAAC-TTTGGAAAAATAAATTGCTCCTCTAAACAGAAGCACAA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* * *
10635298 CAACTTTTGGAAAACTAAATTGATCCTCTAAATAGAGGCACCA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* * * *
10635341 CAACTTTTGAAAAAATAAATTGTTGCTCTAAAGAGAGGCACCA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* * *
10635384 CAACTTTTAGAAAATTAAATTGCTCCTCTAAAGAGAGGCACCA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
* * *
10635427 TAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGATGCACTA
1 CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
10635470 CAAC-TTTGGAAAAATAAATTGCTC
1 CAACTTTTGGAAAAATAAATTGCTC
10635494 TTCGACAATC
Statistics
Matches: 279, Mismatches: 40, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
41 32 0.11
42 62 0.22
43 185 0.66
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (43 bp):
CAACTTTTGGAAAAATAAATTGCTCCTCTAAACAGAGGCACCA
Found at i:10639007 original size:43 final size:43
Alignment explanation
Indices: 10638905--10639212 Score: 312
Period size: 43 Copynumber: 7.3 Consensus size: 43
10638895 CAATCTACCT
* * * * *
10638905 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACAAC-TTTGG
1 AAAAATAAATTGATCCTCTAAATAGAAGCACCACAACTTTTGA
* * * * *
10638947 AAAAATAAATTGCTCCTCTAAATAGAAACACAACAATTTTTGG
1 AAAAATAAATTGATCCTCTAAATAGAAGCACCACAACTTTTGA
* * *
10638990 AAAACTAAATTGATCCTCTAAATAGAGGCACCATAACTTTTGA
1 AAAAATAAATTGATCCTCTAAATAGAAGCACCACAACTTTTGA
* *
10639033 AAAAATAAATT-ACTCCTCTAAACA-AA--AGCACAACTTTTGA
1 AAAAATAAATTGA-TCCTCTAAATAGAAGCACCACAACTTTTGA
* *
10639073 AAAAATAAATT-ACTCTTCTAAATAGAGGCACCACAACTTTTGA
1 AAAAATAAATTGA-TCCTCTAAATAGAAGCACCACAACTTTTGA
* *
10639116 AAAAATAAATTGCTCCTCTAAACA-AAGGCACCACAACTTTT-A
1 AAAAATAAATTGATCCTCTAAATAGAA-GCACCACAACTTTTGA
* *
10639158 GAAAAATAAATTGCTCTTCTAAATA-AAGGCACCACAAC-TTTGA
1 -AAAAATAAATTGATCCTCTAAATAGAA-GCACCACAACTTTTGA
10639201 AAAAATAAATTG
1 AAAAATAAATTG
10639213 CTTATAGACA
Statistics
Matches: 228, Mismatches: 29, Indels: 18
0.83 0.11 0.07
Matches are distributed among these distances:
40 34 0.15
41 1 0.00
42 50 0.22
43 143 0.63
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (43 bp):
AAAAATAAATTGATCCTCTAAATAGAAGCACCACAACTTTTGA
Found at i:10639133 original size:126 final size:125
Alignment explanation
Indices: 10638905--10639211 Score: 373
Period size: 126 Copynumber: 2.4 Consensus size: 125
10638895 CAATCTACCT
* * *
10638905 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACAACTTTGGAAAAATAAATTGCTCCTCTAAAT
1 AAAAATAAATTGCTCCTCTAAACA-A--AACCACAACTTTGAAAAAATAAATTACTCCTCTAAAT
* * * * * *
10638970 AGAAACACAACAATTTTTGGAAAACTAAATTGATCCTCTAAATAGAGGCACCATAACTTTT-G
63 AGAAACACAACAACTTTTGAAAAAATAAATTGATCCTCTAAACAAAGGCACCACAACTTTTAG
* * *
10639032 AAAAAATAAATTACTCCTCTAAACAAAAGCACAACTTTTGAAAAAATAAATTACTCTTCTAAATA
1 -AAAAATAAATTGCTCCTCTAAACAAAACCACAAC-TTTGAAAAAATAAATTACTCCTCTAAATA
** * *
10639097 GAGGCACCACAACTTTTGAAAAAATAAATTGCTCCTCTAAACAAAGGCACCACAACTTTTAG
64 GAAACACAACAACTTTTGAAAAAATAAATTGATCCTCTAAACAAAGGCACCACAACTTTTAG
* *
10639159 AAAAATAAATTGCTCTTCTAAATAAAGGCACCACAACTTTGAAAAAATAAATT
1 AAAAATAAATTGCTCCTCTAAACAAA---ACCACAACTTTGAAAAAATAAATT
10639212 GCTTATAGAC
Statistics
Matches: 154, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
125 7 0.05
126 99 0.64
127 2 0.01
128 39 0.25
129 7 0.05
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (125 bp):
AAAAATAAATTGCTCCTCTAAACAAAACCACAACTTTGAAAAAATAAATTACTCCTCTAAATAGA
AACACAACAACTTTTGAAAAAATAAATTGATCCTCTAAACAAAGGCACCACAACTTTTAG
Found at i:10639188 original size:86 final size:82
Alignment explanation
Indices: 10638905--10639214 Score: 397
Period size: 83 Copynumber: 3.7 Consensus size: 82
10638895 CAATCTACCT
* * *
10638905 AAAAATAAATTGCTCCTCTAAACAGAGGTACCACAACTTTGGAAAAATAAATTGCTCCTCTAAAT
1 AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCT-AA-
* * *
10638970 AGAAACACAACAATTTTTGG
64 ACAAACACCACAACTTTT-G
* * * *
10638990 AAAACTAAATTGATCCTCTAAATAGAGGCACCATAACTTTTGAAAAAATAAATTACTCCTCTAAA
1 AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAAC-TTTGAAAAAATAAATTGCTCCTCTAAA
*
10639055 CAAA-AGCACAACTTTTG
65 CAAACACCACAACTTTTG
* *
10639072 AAAAAATAAATTACTCTTCTAAATAGAGGCACCACAACTTTTGAAAAAATAAATTGCTCCTCTAA
1 -AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAAC-TTTGAAAAAATAAATTGCTCCTCTAA
10639137 ACAAAGGCACCACAACTTTTAG
64 ACAAA--CACCACAACTTTT-G
* *
10639159 AAAAATAAATTGCTCTTCTAAATAAAGGCACCACAACTTTGAAAAAATAAATTGCT
1 AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAAATAAATTGCT
10639215 TATAGACAAT
Statistics
Matches: 199, Mismatches: 20, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
82 1 0.01
83 72 0.36
84 4 0.02
85 53 0.27
86 68 0.34
87 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.26
Consensus pattern (82 bp):
AAAAATAAATTGCTCCTCTAAATAGAGGCACCACAACTTTGAAAAAATAAATTGCTCCTCTAAAC
AAACACCACAACTTTTG
Found at i:10649599 original size:34 final size:34
Alignment explanation
Indices: 10649549--10649619 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
10649539 ATGTTAAAAC
* *
10649549 ATGAACATGAAAATGATGCATAGAATGAAATGAT
1 ATGAACATGAAAATGATGCATAAAATGAAAAGAT
10649583 ATGAACAT-AAAGATGATGCATAAAATGAAAAGAT
1 ATGAACATGAAA-ATGATGCATAAAATGAAAAGAT
10649617 ATG
1 ATG
10649620 GAAATGCTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 3 0.09
34 31 0.91
ACGTcount: A:0.52, C:0.06, G:0.20, T:0.23
Consensus pattern (34 bp):
ATGAACATGAAAATGATGCATAAAATGAAAAGAT
Found at i:10650733 original size:53 final size:50
Alignment explanation
Indices: 10650652--10650768 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 50
10650642 AAATATATCT
* * *
10650652 AATTATTCCACTATTTGGGCCAAATTAGAAATATCCTCCCATTTTG-AATTTCTA
1 AATT-TTCCACCATTTGGGCCAAATTAGAAACAT-AT---ATTTTGAAATTTCTA
* * *
10650706 AATTTTCCACCATTTGGGTCAATTTAGAAACATATTTTTTGAAATTTCTA
1 AATTTTCCACCATTTGGGCCAAATTAGAAACATATATTTTGAAATTTCTA
10650756 AATTTTCCACCAT
1 AATTTTCCACCAT
10650769 GCGGGCCTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
49 5 0.09
50 21 0.38
52 1 0.02
53 25 0.45
54 4 0.07
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.41
Consensus pattern (50 bp):
AATTTTCCACCATTTGGGCCAAATTAGAAACATATATTTTGAAATTTCTA
Found at i:10651206 original size:8 final size:8
Alignment explanation
Indices: 10651149--10651186 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
10651139 CAATTCGATA
10651149 ATTTTTAT
1 ATTTTTAT
10651157 ATTTTTAT
1 ATTTTTAT
*
10651165 GTTTTTAT
1 ATTTTTAT
*
10651173 ATTTTTTT
1 ATTTTTAT
10651181 ATTTTT
1 ATTTTT
10651187 TCCTTGCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
ATTTTTAT
Found at i:10655241 original size:8 final size:8
Alignment explanation
Indices: 10655183--10655221 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
10655173 TAATTCTAAA
10655183 ATTTTTAT
1 ATTTTTAT
10655191 ATTTTTAT
1 ATTTTTAT
*
10655199 GTTTTTAT
1 ATTTTTAT
*
10655207 ATATTTTTT
1 AT-TTTTAT
10655216 ATTTTT
1 ATTTTT
10655222 TCCTTGGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
8 20 0.74
9 7 0.26
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (8 bp):
ATTTTTAT
Found at i:10662012 original size:35 final size:35
Alignment explanation
Indices: 10661961--10662038 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
10661951 TAAGTTTCCT
* * *
10661961 TATTTTACTTTAATTATATGCTATCAAACATTGAG
1 TATTGTACTTGAATTATATGCTATCAAACACTGAG
* *
10661996 TATTGTACTTGAATTATATGTTATGAAACACTGAG
1 TATTGTACTTGAATTATATGCTATCAAACACTGAG
10662031 TACTTGTA
1 TA-TTGTA
10662039 TATTTTAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
35 32 0.86
36 5 0.14
ACGTcount: A:0.33, C:0.10, G:0.13, T:0.44
Consensus pattern (35 bp):
TATTGTACTTGAATTATATGCTATCAAACACTGAG
Found at i:10663075 original size:52 final size:52
Alignment explanation
Indices: 10662989--10663135 Score: 197
Period size: 52 Copynumber: 2.8 Consensus size: 52
10662979 TATAACCATA
* * * *
10662989 CAAACTTACCCATTAAGAATCCCTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCCTGCAAGT
* * * *
10663041 CAAACTTGCTTATTAAGAATCCTTTTCCTTTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCCTGCAAGT
*
10663093 CAAACTTACCTATTAAGAATCATCTTT-CTCTTAGAATTCTTCT
1 CAAACTTACCTATTAAGAATCCT-TTTCCTCTTAGAATTCTTCT
10663136 TTTACAAGTC
Statistics
Matches: 82, Mismatches: 12, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
52 79 0.96
53 3 0.04
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCTTTTCCTCTTAGAATTCTTCTCCTGCAAGT
Found at i:10663456 original size:25 final size:26
Alignment explanation
Indices: 10663422--10663471 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
10663412 AATGACTTAA
*
10663422 ACCAAGCTCTTCCTATATCTCGAACT
1 ACCAAGCTCTTCCCATATCTCGAACT
*
10663448 ACCAA-CTCTTCCCATGTCTCGAAC
1 ACCAAGCTCTTCCCATATCTCGAAC
10663472 CATCGGCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.26, C:0.38, G:0.08, T:0.28
Consensus pattern (26 bp):
ACCAAGCTCTTCCCATATCTCGAACT
Found at i:10664206 original size:52 final size:52
Alignment explanation
Indices: 10664050--10664206 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
10664040 TATAACCATA
* * *
10664050 CAAACTTACCCATTAAGAATCC-CTCTCCTCTTAGAATTCTTCTCCTGTAAGT
1 CAAACTTACCTATTAAGAATCCTCT-TTCTCTTAGAATTCTTCTCTTGTAAGT
* * * *
10664102 CAAACTTGCATATTAAGAATCCT-TTTCCTTTTAAAATTCTTCTCTTGTAAGT
1 CAAACTTACCTATTAAGAATCCTCTTT-CTCTTAGAATTCTTCTCTTGTAAGT
* * *
10664154 CAAACTTACCTATTAAGAATCCTCTTTCTCTTGGAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTCTTGTAAGT
10664206 C
1 C
10664207 TTCTTGTCCA
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
51 1 0.01
52 84 0.95
53 3 0.03
ACGTcount: A:0.27, C:0.25, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTACCTATTAAGAATCCTCTTTCTCTTAGAATTCTTCTCTTGTAAGT
Found at i:10664247 original size:11 final size:11
Alignment explanation
Indices: 10664231--10664261 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
10664221 GCAATATCTG
10664231 ACAAATCTCAA
1 ACAAATCTCAA
10664242 ACAAATCTCAA
1 ACAAATCTCAA
10664253 ACAAATCTC
1 ACAAATCTC
10664262 TTATGGGATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.52, C:0.29, G:0.00, T:0.19
Consensus pattern (11 bp):
ACAAATCTCAA
Found at i:10670475 original size:10 final size:10
Alignment explanation
Indices: 10670460--10670499 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
10670450 AAAATATATA
10670460 TTATTTTTAT
1 TTATTTTTAT
10670470 TTATTTTTAAAT
1 TTATTTTT--AT
*
10670482 TAATTTTTAT
1 TTATTTTTAT
10670492 TTATTTTT
1 TTATTTTT
10670500 TCTTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 17 0.65
12 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:10672164 original size:24 final size:24
Alignment explanation
Indices: 10672136--10672208 Score: 85
Period size: 26 Copynumber: 3.0 Consensus size: 24
10672126 TTTATTAAAC
*
10672136 TTATTTTTTATTTCTATATAAATT
1 TTATTTTTTATTTATATATAAATT
* *
10672160 TTATTTTTAGTTTTTATATATAATTT
1 TTATTTTT--TATTTATATATAAATT
*
10672186 TTATTTTTT-TATATATATAAATT
1 TTATTTTTTATTTATATATAAATT
10672209 GAATATAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
23 12 0.29
24 9 0.21
26 21 0.50
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (24 bp):
TTATTTTTTATTTATATATAAATT
Found at i:10672194 original size:21 final size:20
Alignment explanation
Indices: 10672162--10672202 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
10672152 TATAAATTTT
10672162 ATTTTTAGTTTTTATATATA
1 ATTTTTAGTTTTTATATATA
*
10672182 ATTTTTATTTTTTTATATATA
1 ATTTTTA-GTTTTTATATATA
10672203 TAAATTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTTTAGTTTTTATATATA
Found at i:10673797 original size:23 final size:24
Alignment explanation
Indices: 10673762--10673808 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
10673752 AATTGTTTTT
10673762 CCTTTCCCTTTTCCCACTCTCCCC
1 CCTTTCCCTTTTCCCACTCTCCCC
*
10673786 CCTTT-CCTTTTCCCTCTCTCCCC
1 CCTTTCCCTTTTCCCACTCTCCCC
10673809 TCCGCCTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.40
Consensus pattern (24 bp):
CCTTTCCCTTTTCCCACTCTCCCC
Found at i:10673816 original size:22 final size:22
Alignment explanation
Indices: 10673768--10673816 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
10673758 TTTTCCTTTC
*
10673768 CCTTTTCCCACTCTCCCCCCTTT
1 CCTTTTCCCACTCTCCCCCC-TG
*
10673791 CCTTTTCCCTCTCTCCCCTCC-G
1 CCTTTTCCCACTCTCCCC-CCTG
10673813 CCTT
1 CCTT
10673817 ACAATACTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.02, C:0.57, G:0.02, T:0.39
Consensus pattern (22 bp):
CCTTTTCCCACTCTCCCCCCTG
Found at i:10674046 original size:59 final size:57
Alignment explanation
Indices: 10673978--10674104 Score: 164
Period size: 59 Copynumber: 2.2 Consensus size: 57
10673968 ATTTGTTTGA
** *
10673978 GTTTTGGTTATCAATGTATTGAGTTTTTGTTAGTTATTTGTTTGTTGAAATTTATTTAG
1 GTTTTGGTTATCAATGTATTGAGTTTTCATTAGTTA--TATTTGTTGAAATTTATTTAG
* * * * *
10674037 GTTTGGGTTACCAATTTATTGAGTTTTCATTAGTTATATTTGTTGAAATTTGTTTGG
1 GTTTTGGTTATCAATGTATTGAGTTTTCATTAGTTATATTTGTTGAAATTTATTTAG
10674094 GTTTTGGTTAT
1 GTTTTGGTTAT
10674105 ATATTTGTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
57 27 0.47
59 31 0.53
ACGTcount: A:0.20, C:0.03, G:0.21, T:0.56
Consensus pattern (57 bp):
GTTTTGGTTATCAATGTATTGAGTTTTCATTAGTTATATTTGTTGAAATTTATTTAG
Found at i:10675688 original size:15 final size:15
Alignment explanation
Indices: 10675668--10675717 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
10675658 TGCCTATGCC
10675668 TAATCATGTGTTGTA
1 TAATCATGTGTTGTA
10675683 TAATCATATGTGTAACTGTA
1 TAATC--ATGTGT---TGTA
10675703 TAATCATGTGTTGTA
1 TAATCATGTGTTGTA
10675718 ATTTTTTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 9 0.30
17 6 0.20
18 6 0.20
20 9 0.30
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (15 bp):
TAATCATGTGTTGTA
Found at i:10677581 original size:75 final size:74
Alignment explanation
Indices: 10677427--10677582 Score: 161
Period size: 75 Copynumber: 2.1 Consensus size: 74
10677417 ATAAATGTTG
* ** *
10677427 CTAAATTTAGTGCATTTTTGTACACAAATGCAACTAATTCCTAAATTTAGCGATGTTTGTCTTCA
1 CTAAATTTAGAGCATTTTTAAACACAAATGCAACTAATTCCTAAATTTAGCGATGTTTGTCATCA
* *
10677492 TAAATGCCG
66 TAAACGCCA
* * * * * * * *
10677501 TTAAATTTAGCAGCATTTTTAAATACAAATGCCATTAATTTCTAAATTTAGTGGTGTTTATTCAT
1 CTAAATTTAG-AGCATTTTTAAACACAAATGCAACTAATTCCTAAATTTAGCGATGTTT-GTCAT
10677566 -ATAAACGCCA
64 CATAAACGCCA
10677576 CTAAATT
1 CTAAATT
10677583 AATAAATTTA
Statistics
Matches: 65, Mismatches: 15, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
74 9 0.14
75 53 0.82
76 3 0.05
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (74 bp):
CTAAATTTAGAGCATTTTTAAACACAAATGCAACTAATTCCTAAATTTAGCGATGTTTGTCATCA
TAAACGCCA
Found at i:10679508 original size:24 final size:23
Alignment explanation
Indices: 10679463--10679508 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 23
10679453 AAGTTTAACA
10679463 TTCAATACAACTACATAATCAACT
1 TTCAATACAACTACAT-ATCAACT
10679487 TTCAATCACAACTAACAT-TCAA
1 TTCAAT-ACAACT-ACATATCAA
10679509 GTTTATAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
24 10 0.50
25 6 0.30
26 4 0.20
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (23 bp):
TTCAATACAACTACATATCAACT
Found at i:10680238 original size:62 final size:62
Alignment explanation
Indices: 10680155--10680457 Score: 270
Period size: 62 Copynumber: 4.8 Consensus size: 62
10680145 TTTTAATTAA
* * * * *
10680155 AAGGGATCATTCAAGGTATTTTTTGTCAAAAATATCTTGGATAACCCCATTCAATTTTTTGT
1 AAGGGATTATTCAAGGCATTTTTGGCCAAAAACATCTTGGATAACCCCATTCAATTTTTTGT
*
10680217 AAGGGATTATTCAAGGCATTTTTGGCCAAAAACGTCTTGGATAACCCCATTCAATTTTTTGT
1 AAGGGATTATTCAAGGCATTTTTGGCCAAAAACATCTTGGATAACCCCATTCAATTTTTTGT
* * * *
10680279 AAGGGATTATTCAAGGCATTTTCTAGCCAAAAACA-CTTTGAGT-ACTCTC-TTCTATTTTTTAA
1 AAGGGATTATTCAAGGCATTTT-TGGCCAAAAACATCTTGGA-TAAC-CCCATTCAATTTTTT--
*
10680341 TT
61 GT
* * * ** * *
10680343 AAAAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCCTTGAATAATCCCATTCAATTTTTTGT
1 --AAGGGATTATTCAAGGCATTTTTGGCCAAAAACATCTTGGATAACCCCATTCAATTTTTTGT
*** * * * * *
10680407 AAAAAATTATTTAAGGCATTTTCTAGCTAAAAACAACTTGAATAATCCCCA
1 AAGGGATTATTCAAGGCATTTT-TGGCCAAAAACATCTTGGATAA-CCCCA
10680458 AAAAAATTGG
Statistics
Matches: 197, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
62 114 0.58
63 30 0.15
64 6 0.03
65 12 0.06
66 35 0.18
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (62 bp):
AAGGGATTATTCAAGGCATTTTTGGCCAAAAACATCTTGGATAACCCCATTCAATTTTTTGT
Found at i:10680274 original size:128 final size:126
Alignment explanation
Indices: 10680155--10680446 Score: 306
Period size: 128 Copynumber: 2.3 Consensus size: 126
10680145 TTTTAATTAA
* * * *
10680155 AAGGGATCATTCAAGGTATTTT-TTGTCAAAAATATCTTGGA-TAAC-CCCATTCAATTTTTT-G
1 AAGGGATCATTCAAGGCATTTTCTAGCCAAAAACA-CTTGGAGT-ACTCCC-TTCAATTTTTTAG
* * *
10680216 T-AAGGGATTATTCAAGGCATTTTTGGCCAAAAACGTCTTGGATAACCCCATTCAATTTTTTGT
63 TAAAAGGATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAACCCCATTCAATTTTTTGT
* * * * *
10680279 AAGGGATTATTCAAGGCATTTTCTAGCCAAAAACACTTTGAGTACTCTCTTCTATTTTTTAATTA
1 AAGGGATCATTCAAGGCATTTTCTAGCCAAAAACACTTGGAGTACTCCCTTCAATTTTTT-AGT-
* * *
10680344 AAAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCCTTGAATAATCCCATTCAATTTTTTGT
64 AAAAGGATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAACCCCATTCAATTTTTTGT
*** * * *
10680407 AAAAAATTATTTAAGGCATTTTCTAGCTAAAAACAACTTG
1 AAGGGATCATTCAAGGCATTTTCTAGCCAAAAAC-ACTTG
10680447 AATAATCCCC
Statistics
Matches: 139, Mismatches: 21, Indels: 11
0.81 0.12 0.06
Matches are distributed among these distances:
124 37 0.27
125 12 0.09
126 1 0.01
128 85 0.61
129 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.37
Consensus pattern (126 bp):
AAGGGATCATTCAAGGCATTTTCTAGCCAAAAACACTTGGAGTACTCCCTTCAATTTTTTAGTAA
AAGGATTATTCAAGGCATTTTTGGCCAAAAACGCCTTGAATAACCCCATTCAATTTTTTGT
Found at i:10680375 original size:190 final size:190
Alignment explanation
Indices: 10680068--10680428 Score: 470
Period size: 190 Copynumber: 1.9 Consensus size: 190
10680058 GCACCTTAAG
* * * * * * **
10680068 TAACCCCATTTAATTTTTTGTACGGAATTATTAAATGCATTTTTTGGTCAAAAATGCTTTAAATA
1 TAACCCCATTCAATTTTTTGTAAGGAATTATTAAAGGCATTTTCTAGCCAAAAACACTTTAAATA
* * * * * * *
10680133 ATCTCTTTTATTTTTTAATTAAAAGGGATCATTCAAGGTATTTTTTGTCAAAAATATCTTGGATA
66 ATCTCTTCTATTTTTTAATTAAAAAGGATCATTCAAGGCATTTTTGGTCAAAAACACCTTGAATA
***
10680198 ACCCCATTCAATTTTTTGTAAGGGATTATTCAAGGCATTTTTGGCCAAAAACGTCTTGGA
131 ACCCCATTCAATTTTTTGTAAAAAATTATTCAAGGCATTTTTGGCCAAAAACGTCTTGGA
* * * *
10680258 TAACCCCATTCAATTTTTTGTAAGGGATTATTCAAGGCATTTTCTAGCCAAAAACACTTTGAGTA
1 TAACCCCATTCAATTTTTTGTAAGGAATTATTAAAGGCATTTTCTAGCCAAAAACACTTTAAATA
* * * *
10680323 CTCTCTTCTATTTTTTAATTAAAAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCCTTGAATA
66 ATCTCTTCTATTTTTTAATTAAAAAGGATCATTCAAGGCATTTTTGGTCAAAAACACCTTGAATA
* *
10680388 ATCCCATTCAATTTTTTGTAAAAAATTATTTAAGGCATTTT
131 ACCCCATTCAATTTTTTGTAAAAAATTATTCAAGGCATTTT
10680429 CTAGCTAAAA
Statistics
Matches: 143, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
190 143 1.00
ACGTcount: A:0.32, C:0.14, G:0.13, T:0.41
Consensus pattern (190 bp):
TAACCCCATTCAATTTTTTGTAAGGAATTATTAAAGGCATTTTCTAGCCAAAAACACTTTAAATA
ATCTCTTCTATTTTTTAATTAAAAAGGATCATTCAAGGCATTTTTGGTCAAAAACACCTTGAATA
ACCCCATTCAATTTTTTGTAAAAAATTATTCAAGGCATTTTTGGCCAAAAACGTCTTGGA
Found at i:10680648 original size:185 final size:186
Alignment explanation
Indices: 10680327--10680666 Score: 407
Period size: 185 Copynumber: 1.8 Consensus size: 186
10680317 TGAGTACTCT
* * *
10680327 CTTCTATTTTTTAATTAAAAAGGATTATTGAAGGCATTTTTGGTCAAAAACGCCTTGAATAATCC
1 CTTCTATTTTTTAATTAAAAAGGATTATTAAAGGCATTTCTGGTCAAAAACGCCTTGAATAACCC
* * * * * * *
10680392 CATTCAATTTTTTGTAAAAAATTATTTAAGGCATTTTCTAGCTAAAAACAACTTGAATAATCCCC
66 CATTCAAGTTTTTATAAAAAATAATTCAAAGCATTTTCTAGCCAAAAACAACTTAAATAAT-CCC
*
10680457 AAAAAAATTGG-AGAGGATTATTGAATGCATTTTTTTCAAAAATACCTTGAATACCC
130 AAAAAAAATGGAAGAGGATTATTGAATGCATTTTTTTCAAAAATACCTTGAATACCC
* * ** * *
10680513 CTTC-ATTTTTTAATTGAAAGGGATTATTAAAGGTGTTTCTGG-CTAGAAATGCCTTGAATAACC
1 CTTCTATTTTTTAATTAAAAAGGATTATTAAAGGCATTTCTGGTC-AAAAACGCCTTGAATAACC
** * * * ** *
10680576 CCATTCAAGTTTTTATAAAGGATAATTCAAAGCATTTTTTGGCCAAAGACATTTTAAATAATCTC
65 CCATTCAAGTTTTTATAAAAAATAATTCAAAGCATTTTCTAGCCAAAAACAACTTAAATAATCCC
*
10680641 AAAAAAAATGGAAGGGGATTATTGAA
130 AAAAAAAATGGAAGAGGATTATTGAA
10680667 GGCGTTTAGG
Statistics
Matches: 126, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
184 13 0.10
185 109 0.87
186 4 0.03
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.35
Consensus pattern (186 bp):
CTTCTATTTTTTAATTAAAAAGGATTATTAAAGGCATTTCTGGTCAAAAACGCCTTGAATAACCC
CATTCAAGTTTTTATAAAAAATAATTCAAAGCATTTTCTAGCCAAAAACAACTTAAATAATCCCA
AAAAAAATGGAAGAGGATTATTGAATGCATTTTTTTCAAAAATACCTTGAATACCC
Found at i:10683108 original size:29 final size:29
Alignment explanation
Indices: 10683047--10683108 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
10683037 AATTGTTAAA
**
10683047 AAATAATATTACAAGGACTAAATCTCTTT
1 AAATAATATTACAAGGACTAAATCTCTAG
10683076 AAATAATATTA-AAGGGACTAAAT-TCCTAG
1 AAATAATATTACAA-GGACTAAATCT-CTAG
10683105 AAAT
1 AAAT
10683109 CGATGAGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (29 bp):
AAATAATATTACAAGGACTAAATCTCTAG
Found at i:10685083 original size:21 final size:20
Alignment explanation
Indices: 10685042--10685080 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10685032 ACCAAATTTA
10685042 AAATAAGTTTAGCAACTAATT
1 AAATAAGTTTA-CAACTAATT
10685063 AAATAACGTTTA-AACTAA
1 AAATAA-GTTTACAACTAA
10685081 ATTGGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 6 0.35
22 5 0.29
ACGTcount: A:0.51, C:0.10, G:0.08, T:0.31
Consensus pattern (20 bp):
AAATAAGTTTACAACTAATT
Found at i:10685266 original size:20 final size:20
Alignment explanation
Indices: 10685221--10685268 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10685211 AAAAGTGAGG
10685221 GAATTTCAAAAACTAATAAA
1 GAATTTCAAAAACTAATAAA
* *
10685241 -ATATTTCCAAAACTATTAAA
1 GA-ATTTCAAAAACTAATAAA
10685261 GAATTTCA
1 GAATTTCA
10685269 TAAGAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (20 bp):
GAATTTCAAAAACTAATAAA
Found at i:10688391 original size:24 final size:23
Alignment explanation
Indices: 10688342--10688422 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
10688332 ATTTATATAA
*
10688342 ATTTAATAA-AT-TATTT-TTTT
1 ATTTAATAATATAAATTTATTTT
10688362 ATTTAATAATATAAAGTTTATTTT
1 ATTTAATAATATAAA-TTTATTTT
* * *
10688386 AATTAATTAAAATTAATTTATTTGT
1 ATTTAA-TAATATAAATTTATTT-T
10688411 ATTTAA-AATATA
1 ATTTAATAATATA
10688423 TTTATAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.19
21 2 0.04
22 1 0.02
23 7 0.15
24 16 0.33
25 13 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTAATAATATAAATTTATTTT
Found at i:10688404 original size:20 final size:20
Alignment explanation
Indices: 10688363--10688404 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10688353 TATTTTTTTA
* *
10688363 TTTAATAATATAAAGTTTAT
1 TTTAATAATATAAAATTAAT
10688383 TTTAATTAAT-TAAAATTAAT
1 TTTAA-TAATATAAAATTAAT
10688403 TT
1 TT
10688405 ATTTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTAATAATATAAAATTAAT
Found at i:10693192 original size:20 final size:20
Alignment explanation
Indices: 10693169--10693207 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10693159 ATATAGAAAA
10693169 TTTTATTTAATTTTATATAT
1 TTTTATTTAATTTTATATAT
* *
10693189 TTTTATTTCATTTTTTATA
1 TTTTATTTAATTTTATATA
10693208 ATTATTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTAATTTTATATAT
Found at i:10694436 original size:5 final size:5
Alignment explanation
Indices: 10694428--10694458 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
10694418 TCCTATTTTA
10694428 GTGCT GTGCT GTGCT GTGCT GTGCT GTGCT G
1 GTGCT GTGCT GTGCT GTGCT GTGCT GTGCT G
10694459 GCCTATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.42, T:0.39
Consensus pattern (5 bp):
GTGCT
Found at i:10695786 original size:16 final size:16
Alignment explanation
Indices: 10695762--10695812 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
10695752 AAATTCAAAA
*
10695762 TTTTCTATTTTGATTT
1 TTTTATATTTTGATTT
*
10695778 TTTTATATTTTAATTT
1 TTTTATATTTTGATTT
10695794 TTTTAAATATTTTG-TTT
1 TTTT--ATATTTTGATTT
10695811 TT
1 TT
10695813 ATCCCTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.60
17 5 0.17
18 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTATATTTTGATTT
Found at i:10697614 original size:3 final size:3
Alignment explanation
Indices: 10697606--10697644 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10697596 ACATTTGTAC
10697606 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10697645 CACTTTATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10707650 original size:2 final size:2
Alignment explanation
Indices: 10707608--10707638 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10707598 AGAATTCTAA
10707608 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
10707639 TCTTTTTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10708821 original size:28 final size:28
Alignment explanation
Indices: 10708789--10708875 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
10708779 AAGACACACT
*
10708789 TAACTTGGGTAAGTTAGAAGAAGCATGA
1 TAACTTGGGTAAGTTAGAAGAAACATGA
* *
10708817 TAAC-T--GTTAGCTTAAAAGAAACACT--
1 TAACTTGGGTAAG-TTAGAAGAAACA-TGA
* *
10708842 TAGCTTGGGTAAAGTTAGAAGAACCATGA
1 TAACTTGGGT-AAGTTAGAAGAAACATGA
10708871 TAACT
1 TAACT
10708876 GTTAGCTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 15
0.65 0.12 0.23
Matches are distributed among these distances:
25 7 0.16
26 11 0.26
27 3 0.07
28 16 0.37
29 6 0.14
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (28 bp):
TAACTTGGGTAAGTTAGAAGAAACATGA
Found at i:10708870 original size:54 final size:53
Alignment explanation
Indices: 10708779--10708882 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 53
10708769 TGCCGATTAT
* *
10708779 AAGACACACTTAACTTGGGTAAGTTAGAAGAAGCATGATAACTGTTAGCTTAA
1 AAGAAACACTTAACTTGGGTAAGTTAGAAGAACCATGATAACTGTTAGCTTAA
*
10708832 AAGAAACACTTAGCTTGGGTAAAGTTAGAAGAACCATGATAACTGTTAGCT
1 AAGAAACACTTAACTTGGGT-AAGTTAGAAGAACCATGATAACTGTTAGCT
10708883 ATCTTCCCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 18 0.38
54 29 0.62
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (53 bp):
AAGAAACACTTAACTTGGGTAAGTTAGAAGAACCATGATAACTGTTAGCTTAA
Found at i:10714860 original size:35 final size:35
Alignment explanation
Indices: 10714809--10714880 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
10714799 TAAGTTTCCT
*
10714809 TATTTTACTTGAATTATATGCTATCAAACATTGAG
1 TATTGTACTTGAATTATATGCTATCAAACATTGAG
* *
10714844 TATTGTACTTGAATTATATGTTATGAAACATTGAG
1 TATTGTACTTGAATTATATGCTATCAAACATTGAG
10714879 TA
1 TA
10714881 CTTGCATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (35 bp):
TATTGTACTTGAATTATATGCTATCAAACATTGAG
Found at i:10721511 original size:10 final size:10
Alignment explanation
Indices: 10721496--10721535 Score: 53
Period size: 10 Copynumber: 3.8 Consensus size: 10
10721486 AAAATATATA
10721496 TTATTTTTAT
1 TTATTTTTAT
10721506 TTATTTTTAAAT
1 TTATTTTT--AT
*
10721518 TAATTTTTAT
1 TTATTTTTAT
10721528 TTATTTTT
1 TTATTTTT
10721536 TCTTTCAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
10 17 0.65
12 9 0.35
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:10723154 original size:23 final size:23
Alignment explanation
Indices: 10723136--10723205 Score: 86
Period size: 23 Copynumber: 2.9 Consensus size: 23
10723126 ATTAAACTTA
*
10723136 ATTTTTATTTCTATATAAATTTT
1 ATTTTTATTTATATATAAATTTT
*
10723159 ATTTTTAGTTTTTATATATAATTTTT
1 ATTTTTA---TTTATATATAAATTTT
*
10723185 ATTTTTTTTTATATATAAATT
1 ATTTTTATTTATATATAAATT
10723206 GAATATAATC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 20 0.50
26 20 0.50
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (23 bp):
ATTTTTATTTATATATAAATTTT
Found at i:10723189 original size:25 final size:24
Alignment explanation
Indices: 10723137--10723205 Score: 86
Period size: 26 Copynumber: 2.8 Consensus size: 24
10723127 TTAAACTTAA
* *
10723137 TTTTTATTTCTATATAAATTTTAT
1 TTTTTTTTTATATATAAATTTTAT
*
10723161 TTTTAGTTTTTATATATAATTTTTA-
1 TTTT--TTTTTATATATAAATTTTAT
10723186 TTTTTTTTTATATATAAATT
1 TTTTTTTTTATATATAAATT
10723206 GAATATAATC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
23 15 0.38
24 4 0.10
25 4 0.10
26 16 0.41
ACGTcount: A:0.29, C:0.01, G:0.01, T:0.68
Consensus pattern (24 bp):
TTTTTTTTTATATATAAATTTTAT
Found at i:10724777 original size:23 final size:24
Alignment explanation
Indices: 10724742--10724788 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
10724732 AATTGTTTTT
10724742 CCTTTCCCTTTTCCCACTCTCCCC
1 CCTTTCCCTTTTCCCACTCTCCCC
*
10724766 CCTTT-CCTTTTCCCTCTCTCCCC
1 CCTTTCCCTTTTCCCACTCTCCCC
10724789 TCCGCCTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.02, C:0.57, G:0.00, T:0.40
Consensus pattern (24 bp):
CCTTTCCCTTTTCCCACTCTCCCC
Found at i:10724796 original size:22 final size:22
Alignment explanation
Indices: 10724748--10724796 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
10724738 TTTTCCTTTC
*
10724748 CCTTTTCCCACTCTCCCCCCTTT
1 CCTTTTCCCACTCTCCCCCC-TG
*
10724771 CCTTTTCCCTCTCTCCCCTCC-G
1 CCTTTTCCCACTCTCCCC-CCTG
10724793 CCTT
1 CCTT
10724797 ACAATACTCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 4 0.17
23 17 0.74
24 2 0.09
ACGTcount: A:0.02, C:0.57, G:0.02, T:0.39
Consensus pattern (22 bp):
CCTTTTCCCACTCTCCCCCCTG
Found at i:10725025 original size:59 final size:57
Alignment explanation
Indices: 10724957--10725082 Score: 171
Period size: 59 Copynumber: 2.2 Consensus size: 57
10724947 ATTTGTTTGA
** *
10724957 GTTTTGGTTACCAATGTATTGAGTTTTTGTTAGTTATTTGTTTGTTGAAATTTATTTAG
1 GTTTTGGTTACCAATGTATTGAGTTTTCATTAGTTA--TATTTGTTGAAATTTATTTAG
* * * *
10725016 GTTTGGGTTACCAATTTATTGAGTTTTCATTAGTTATATTTGTTGAAATTTGTTTGG
1 GTTTTGGTTACCAATGTATTGAGTTTTCATTAGTTATATTTGTTGAAATTTATTTAG
10725073 GTTTTGGTTA
1 GTTTTGGTTA
10725083 TATATTTGTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
57 27 0.46
59 32 0.54
ACGTcount: A:0.20, C:0.04, G:0.21, T:0.55
Consensus pattern (57 bp):
GTTTTGGTTACCAATGTATTGAGTTTTCATTAGTTATATTTGTTGAAATTTATTTAG
Found at i:10725254 original size:20 final size:20
Alignment explanation
Indices: 10725229--10725287 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
10725219 ATTTGTGAAA
*
10725229 GTTTTGTTAAGATTTGTTGG
1 GTTTTGTTAAGATTTATTGG
*
10725249 GTTTTGTTGAGATTTATTGG
1 GTTTTGTTAAGATTTATTGG
*
10725269 ATTTTGTTATAGATTTATT
1 GTTTTGTTA-AGATTTATT
10725288 AACTTTTAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 25 0.74
21 9 0.26
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.58
Consensus pattern (20 bp):
GTTTTGTTAAGATTTATTGG
Found at i:10726686 original size:15 final size:15
Alignment explanation
Indices: 10726666--10726715 Score: 55
Period size: 15 Copynumber: 3.0 Consensus size: 15
10726656 TGCCTATGCC
10726666 TAATCATGTGTTGTA
1 TAATCATGTGTTGTA
10726681 TAATCATATGTGTAACTGTA
1 TAATC--ATGTGT---TGTA
10726701 TAATCATGTGTTGTA
1 TAATCATGTGTTGTA
10726716 ATTTCTTCAC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
15 9 0.30
17 6 0.20
18 6 0.20
20 9 0.30
ACGTcount: A:0.30, C:0.08, G:0.18, T:0.44
Consensus pattern (15 bp):
TAATCATGTGTTGTA
Found at i:10731245 original size:62 final size:62
Alignment explanation
Indices: 10731027--10731297 Score: 215
Period size: 62 Copynumber: 4.3 Consensus size: 62
10731017 GGTAAGGTAT
** * * *
10731027 GGATTATTTAAGGCATTTTTTACCAAAAGCACCTTA-AGTAACCCCATTTAATTTTTTGTACG
1 GGATTATTTAAGGCATTTTTTGTCAAAAACACCTTAGA-TAACCCCATTCAATTTTTTGTAAG
* * * ** * * * * ** *
10731089 GAATTATTAAATGCATTTTTTGGTCAAAAATGCTTTAAATAATCTC-TTTTATTTTTTAATTAAA
1 GGATTATTTAAGGCATTTTTT-GTCAAAAACACCTTAGATAACCCCATTCAATTTTTT--GT--A
10731153 AG
61 AG
* * * * *
10731155 GGATCATTTAAGGCATTTTTGGTTAAAAATATCTTAGATAACCCCATTCAATTTTTTGTAAG
1 GGATTATTTAAGGCATTTTTTGTCAAAAACACCTTAGATAACCCCATTCAATTTTTTGTAAG
* * *
10731217 GGATTATTGAAGGCATTTTTTGTCAAAAACGCCTT-GAATAACCCCATTCAATTTTTTGTAAA
1 GGATTATTTAAGGCATTTTTTGTCAAAAACACCTTAG-ATAACCCCATTCAATTTTTTGTAAG
**
10731279 AAATTATTTAAGGCATTTT
1 GGATTATTTAAGGCATTTT
10731298 CTAGCTAAAA
Statistics
Matches: 161, Mismatches: 40, Indels: 16
0.74 0.18 0.07
Matches are distributed among these distances:
61 1 0.01
62 99 0.61
63 14 0.09
64 3 0.02
65 17 0.11
66 27 0.17
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (62 bp):
GGATTATTTAAGGCATTTTTTGTCAAAAACACCTTAGATAACCCCATTCAATTTTTTGTAAG
Found at i:10732441 original size:57 final size:57
Alignment explanation
Indices: 10732377--10732490 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 57
10732367 AAGTTTTACT
* *
10732377 ATCTTAAAAGTTAGTTCTAAATTTAGTACTAATTATGTTTAAGATTGAGGAAACATA
1 ATCTTAAAAATTAGTACTAAATTTAGTACTAATTATGTTTAAGATTGAGGAAACATA
10732434 ATCTTAAAAATTAGTACTAAATTTAGTACTAATTATGTTTAAGATTGAGGAAACATA
1 ATCTTAAAAATTAGTACTAAATTTAGTACTAATTATGTTTAAGATTGAGGAAACATA
10732491 TTCATTATGG
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 55 1.00
ACGTcount: A:0.42, C:0.07, G:0.13, T:0.38
Consensus pattern (57 bp):
ATCTTAAAAATTAGTACTAAATTTAGTACTAATTATGTTTAAGATTGAGGAAACATA
Found at i:10734073 original size:29 final size:29
Alignment explanation
Indices: 10734012--10734073 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
10734002 AATTGTTAAA
**
10734012 AAATAATATTACAAGGACTAAATCTCTTT
1 AAATAATATTACAAGGACTAAATCTCTAG
10734041 AAATAATATTA-AAGGGACTAAAT-TCCTAG
1 AAATAATATTACAA-GGACTAAATCT-CTAG
10734070 AAAT
1 AAAT
10734074 CGATGAGTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.48, C:0.11, G:0.10, T:0.31
Consensus pattern (29 bp):
AAATAATATTACAAGGACTAAATCTCTAG
Found at i:10736043 original size:22 final size:22
Alignment explanation
Indices: 10735996--10736043 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
10735986 AAAAAGAACC
* *
10735996 AAATTAAATAAGTTTAGCAACT
1 AAATTAAATAAATTTAGAAACT
10736018 -AATTAAATAACATTTA-AAACT
1 AAATTAAATAA-ATTTAGAAACT
10736039 AAATT
1 AAATT
10736044 GGATATTTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (22 bp):
AAATTAAATAAATTTAGAAACT
Found at i:10736226 original size:20 final size:20
Alignment explanation
Indices: 10736181--10736228 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
10736171 AAAAGTGAGG
10736181 GAATTTCAAAAACTAATAAA
1 GAATTTCAAAAACTAATAAA
* *
10736201 -ATATTTCCAAAACTATTAAA
1 GA-ATTTCAAAAACTAATAAA
10736221 GAATTTCA
1 GAATTTCA
10736229 TAAGAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.52, C:0.12, G:0.04, T:0.31
Consensus pattern (20 bp):
GAATTTCAAAAACTAATAAA
Found at i:10739349 original size:24 final size:23
Alignment explanation
Indices: 10739300--10739380 Score: 71
Period size: 24 Copynumber: 3.6 Consensus size: 23
10739290 ATTTATATAA
*
10739300 ATTTAATAA-AT-TATTT-TTTT
1 ATTTAATAATATAAATTTATTTT
10739320 ATTTAATAATATAAAGTTTATTTT
1 ATTTAATAATATAAA-TTTATTTT
* * *
10739344 AATTAATTAAAATTAATTTATTTGT
1 ATTTAA-TAATATAAATTTATTT-T
10739369 ATTTAA-AATATA
1 ATTTAATAATATA
10739381 TTTATAAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
20 9 0.19
21 2 0.04
22 1 0.02
23 7 0.15
24 16 0.33
25 13 0.27
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (23 bp):
ATTTAATAATATAAATTTATTTT
Found at i:10739362 original size:20 final size:20
Alignment explanation
Indices: 10739321--10739362 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
10739311 TATTTTTTTA
* *
10739321 TTTAATAATATAAAGTTTAT
1 TTTAATAATATAAAATTAAT
10739341 TTTAATTAAT-TAAAATTAAT
1 TTTAA-TAATATAAAATTAAT
10739361 TT
1 TT
10739363 ATTTGTATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
TTTAATAATATAAAATTAAT
Found at i:10745391 original size:5 final size:5
Alignment explanation
Indices: 10745383--10745413 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
10745373 TCCTAGTTTA
10745383 GTGCT GTGCT GTGCT GTGCT GTGCT GTGCT G
1 GTGCT GTGCT GTGCT GTGCT GTGCT GTGCT G
10745414 GCCTATTTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.19, G:0.42, T:0.39
Consensus pattern (5 bp):
GTGCT
Found at i:10746739 original size:16 final size:16
Alignment explanation
Indices: 10746715--10746765 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
10746705 AAATTCAAAA
*
10746715 TTTTCTATTTTGATTT
1 TTTTATATTTTGATTT
*
10746731 TTTTATATTTTAATTT
1 TTTTATATTTTGATTT
10746747 TTTTAAATATTTTG-TTT
1 TTTT--ATATTTTGATTT
10746764 TT
1 TT
10746766 ACCCCTTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 18 0.60
17 5 0.17
18 7 0.23
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.75
Consensus pattern (16 bp):
TTTTATATTTTGATTT
Found at i:10748571 original size:3 final size:3
Alignment explanation
Indices: 10748563--10748622 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
10748553 ACATTTGTAC
10748563 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
10748611 ATT ATT ATT ATT
1 ATT ATT ATT ATT
10748623 CACTTTATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10753672 original size:2 final size:2
Alignment explanation
Indices: 10753665--10753712 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
10753655 AGGACCTAGA
10753665 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
10753707 TG TG TG
1 TG TG TG
10753713 CACATACATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:10758668 original size:2 final size:2
Alignment explanation
Indices: 10758629--10758655 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10758619 CAGAATTCTA
10758629 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
10758656 TTCTTTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:10759837 original size:28 final size:28
Alignment explanation
Indices: 10759805--10759891 Score: 67
Period size: 28 Copynumber: 3.2 Consensus size: 28
10759795 AAGACACACT
*
10759805 TAACTTGGGTAAGTTAGAAGAAGCATGA
1 TAACTTGGGTAAGTTAGAAGAAACATGA
* *
10759833 TAAC-T--GTTAGCTTAAAAGAAACACT--
1 TAACTTGGGTAAG-TTAGAAGAAACA-TGA
* *
10759858 TAGCTTGGGTAAAGTTAGAAGAACCATGA
1 TAACTTGGGT-AAGTTAGAAGAAACATGA
10759887 TAACT
1 TAACT
10759892 GTTAGCTATC
Statistics
Matches: 43, Mismatches: 8, Indels: 15
0.65 0.12 0.23
Matches are distributed among these distances:
25 7 0.16
26 11 0.26
27 3 0.07
28 16 0.37
29 6 0.14
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.26
Consensus pattern (28 bp):
TAACTTGGGTAAGTTAGAAGAAACATGA
Found at i:10759886 original size:54 final size:53
Alignment explanation
Indices: 10759795--10759898 Score: 172
Period size: 54 Copynumber: 1.9 Consensus size: 53
10759785 TGCCGATTAT
* *
10759795 AAGACACACTTAACTTGGGTAAGTTAGAAGAAGCATGATAACTGTTAGCTTAA
1 AAGAAACACTTAACTTGGGTAAGTTAGAAGAACCATGATAACTGTTAGCTTAA
*
10759848 AAGAAACACTTAGCTTGGGTAAAGTTAGAAGAACCATGATAACTGTTAGCT
1 AAGAAACACTTAACTTGGGT-AAGTTAGAAGAACCATGATAACTGTTAGCT
10759899 ATCTTCCCAT
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
53 18 0.38
54 29 0.62
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.26
Consensus pattern (53 bp):
AAGAAACACTTAACTTGGGTAAGTTAGAAGAACCATGATAACTGTTAGCTTAA
Found at i:10763970 original size:17 final size:17
Alignment explanation
Indices: 10763948--10763981 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10763938 TTATCGAACA
10763948 GTCTTAGTATCACATTG
1 GTCTTAGTATCACATTG
*
10763965 GTCTTAGTATCATATTG
1 GTCTTAGTATCACATTG
10763982 ATAAATGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (17 bp):
GTCTTAGTATCACATTG
Found at i:10770050 original size:24 final size:26
Alignment explanation
Indices: 10770015--10770062 Score: 73
Period size: 24 Copynumber: 1.9 Consensus size: 26
10770005 ATTTTAATTT
10770015 TTATCATATTTTATT-TAT-TTTTCA
1 TTATCATATTTTATTGTATATTTTCA
*
10770039 TTATCATTTTTTATTGTATATTTT
1 TTATCATATTTTATTGTATATTTT
10770063 TCTTTATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 14 0.67
25 3 0.14
26 4 0.19
ACGTcount: A:0.23, C:0.06, G:0.02, T:0.69
Consensus pattern (26 bp):
TTATCATATTTTATTGTATATTTTCA
Found at i:10770221 original size:23 final size:22
Alignment explanation
Indices: 10770183--10770237 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
10770173 AAAGTTATAC
10770183 AAAAATA-AAATAAAATAACAA
1 AAAAATATAAATAAAATAACAA
* *
10770204 AAAAATCATAAATTAAATAACTA
1 AAAAAT-ATAAATAAAATAACAA
*
10770227 AAATATATAAA
1 AAAAATATAAA
10770238 ACAATTAAGC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.21
22 6 0.21
23 17 0.59
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAATATAAATAAAATAACAA
Found at i:10771235 original size:16 final size:16
Alignment explanation
Indices: 10771213--10771246 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
10771203 AAGATGCCAA
*
10771213 AAAAAAAAAAAGAAAAG
1 AAAAAAGAAAA-AAAAG
10771230 AAAAAAGAAAAAAAAG
1 AAAAAAGAAAAAAAAG
10771246 A
1 A
10771247 GAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAAAAG
Found at i:10772012 original size:42 final size:42
Alignment explanation
Indices: 10771966--10772051 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 42
10771956 AAGATAATAA
* **
10771966 AATTCAAGCTTTAACTCTCGTATATCACTATCAAAAAAATGT
1 AATTCAAGCTTTAACACTCAAATATCACTATCAAAAAAATGT
* * *
10772008 AATTCCAGCTTTAACACTCAAATATCACTATCGAAAAGATGT
1 AATTCAAGCTTTAACACTCAAATATCACTATCAAAAAAATGT
10772050 AA
1 AA
10772052 ATGACTTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (42 bp):
AATTCAAGCTTTAACACTCAAATATCACTATCAAAAAAATGT
Found at i:10772083 original size:40 final size:42
Alignment explanation
Indices: 10771987--10772117 Score: 119
Period size: 41 Copynumber: 3.2 Consensus size: 42
10771977 TAACTCTCGT
* * *
10771987 ATATCACTATC-AAAAAAATGTAATTCCAGC-TTTAACACTCAA
1 ATATCACTACCGAAAAAAATGTAAAT-GA-CTTTTAACACTCAA
* * *
10772029 ATATCACTATCG-AAAAGATGTAAATGACTTTTAATACTC-A
1 ATATCACTACCGAAAAAAATGTAAATGACTTTTAACACTCAA
* **
10772069 ATATCA-TCACCGAAAAAAATGTAAATGATTTTTAACACTCGG
1 ATATCACT-ACCGAAAAAAATGTAAATGACTTTTAACACTCAA
10772111 ATATCAC
1 ATATCAC
10772118 CATTGAGAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 11
0.79 0.10 0.12
Matches are distributed among these distances:
39 1 0.01
40 11 0.15
41 34 0.46
42 28 0.38
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (42 bp):
ATATCACTACCGAAAAAAATGTAAATGACTTTTAACACTCAA
Found at i:10772129 original size:41 final size:39
Alignment explanation
Indices: 10772017--10772130 Score: 111
Period size: 41 Copynumber: 2.8 Consensus size: 39
10772007 TAATTCCAGC
*
10772017 TTTAACACTCAAATATCACTATCGAAAAGATGTAAATGACT
1 TTTAACACTC-AATATCACCATCGAAAA-ATGTAAATGACT
* * * *
10772058 TTTAATACTCAATATCATCACCGAAAAAAATGTAAATGATT
1 TTTAACACTCAATATCACCATCG--AAAAATGTAAATGACT
* *
10772099 TTTAACACTCGGATATCACCATTGAGAAAATG
1 TTTAACACTC-AATATCACCATCGA-AAAATG
10772131 CAATTCCATA
Statistics
Matches: 59, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
40 11 0.19
41 35 0.59
42 13 0.22
ACGTcount: A:0.43, C:0.17, G:0.11, T:0.30
Consensus pattern (39 bp):
TTTAACACTCAATATCACCATCGAAAAATGTAAATGACT
Found at i:10772447 original size:35 final size:37
Alignment explanation
Indices: 10772375--10772455 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
10772365 CACCACTATG
10772375 ATGCAAATGTTTTCTCTTAAAATAATGATGCAAATGAA
1 ATGCAAATGTTTTCTCTT-AAATAATGATGCAAATGAA
* *
10772413 ATGCAAATGTTTTTTCTT-AA-AATGATGCATATGAA
1 ATGCAAATGTTTTCTCTTAAATAATGATGCAAATGAA
10772448 ATGCAAAT
1 ATGCAAAT
10772456 ATCTTTTCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
35 22 0.54
36 2 0.05
38 17 0.41
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.36
Consensus pattern (37 bp):
ATGCAAATGTTTTCTCTTAAATAATGATGCAAATGAA
Found at i:10772470 original size:35 final size:35
Alignment explanation
Indices: 10772398--10772470 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
10772388 CTCTTAAAAT
* * **
10772398 AATGATGCAAATGAAATGCAAATGTTTTTTCTTAA
1 AATGATGCAAATGAAATGCAAATATCTTTTCCAAA
*
10772433 AATGATGCATATGAAATGCAAATATCTTTTCCAAA
1 AATGATGCAAATGAAATGCAAATATCTTTTCCAAA
10772468 AAT
1 AAT
10772471 ACCAATGCAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.34
Consensus pattern (35 bp):
AATGATGCAAATGAAATGCAAATATCTTTTCCAAA
Found at i:10774156 original size:23 final size:23
Alignment explanation
Indices: 10774112--10774156 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
10774102 TTATCACCTC
* *
10774112 TTTTTTTATCATTTTTTATTTTA
1 TTTTTTTATCACTTTCTATTTTA
* *
10774135 TTTTTTTTTCACTTTCTCTTTT
1 TTTTTTTATCACTTTCTATTTT
10774157 TGGGATATTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTTATCACTTTCTATTTTA
Found at i:10794211 original size:10 final size:9
Alignment explanation
Indices: 10794197--10794221 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
10794187 TTTTTTTTTT
10794197 TGGGGGGGG
1 TGGGGGGGG
10794206 TGGGGGGGG
1 TGGGGGGGG
10794215 TGGGGGG
1 TGGGGGG
10794222 TTGGTGGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.88, T:0.12
Consensus pattern (9 bp):
TGGGGGGGG
Found at i:10795335 original size:22 final size:22
Alignment explanation
Indices: 10795305--10795354 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
10795295 AACATTGGCT
*
10795305 AATTACATTAATATAGAAACCC
1 AATTCCATTAATATAGAAACCC
*
10795327 AATTCCATTAATATAGAAAGCC
1 AATTCCATTAATATAGAAACCC
10795349 AATTCC
1 AATTCC
10795355 CCGATCAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.06, T:0.28
Consensus pattern (22 bp):
AATTCCATTAATATAGAAACCC
Found at i:10795652 original size:18 final size:19
Alignment explanation
Indices: 10795629--10795665 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
10795619 TTTATGTTAG
*
10795629 AAAAAATAA-ATAAGAGAA
1 AAAAAATAATATAAAAGAA
10795647 AAAAAATAATATAAAAGAA
1 AAAAAATAATATAAAAGAA
10795666 TTTTAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAAAATAATATAAAAGAA
Found at i:10801883 original size:27 final size:27
Alignment explanation
Indices: 10801853--10801904 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
10801843 ACAAATAACT
*
10801853 TTCAATAATTATATAATAAA-AACAATC
1 TTCAATAATTACATAA-AAATAACAATC
10801880 TTCAATAATTACATAAAAATAACAA
1 TTCAATAATTACATAAAAATAACAA
10801905 GAATTAATCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 3 0.13
27 20 0.87
ACGTcount: A:0.58, C:0.12, G:0.00, T:0.31
Consensus pattern (27 bp):
TTCAATAATTACATAAAAATAACAATC
Found at i:10801955 original size:19 final size:19
Alignment explanation
Indices: 10801931--10801969 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10801921 AAAAAAATTG
*
10801931 ACAACAATAAAATATCAAA
1 ACAACAAAAAAATATCAAA
*
10801950 ACAACAAAAAAATATTAAA
1 ACAACAAAAAAATATCAAA
10801969 A
1 A
10801970 TTCAAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.72, C:0.13, G:0.00, T:0.15
Consensus pattern (19 bp):
ACAACAAAAAAATATCAAA
Found at i:10809512 original size:21 final size:21
Alignment explanation
Indices: 10809458--10809512 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
10809448 TTAAATTAAT
* *
10809458 TAAAAATAATATATTTTTATA
1 TAAAAATATTATATTATTATA
10809479 TAAAAATATATTATATATATT-TA
1 T-AAAA-ATATTATAT-TATTATA
10809502 TAAAAATATTA
1 TAAAAATATTA
10809513 CATAAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 7 0.24
22 8 0.28
23 11 0.38
24 3 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAATATTATATTATTATA
Found at i:10809521 original size:23 final size:23
Alignment explanation
Indices: 10809477--10809521 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10809467 TATATTTTTA
* *
10809477 TATAAAAATATATTATATATATT
1 TATAAAAATATATCATAAATATT
10809500 TATAAAAATAT-TACATAAATAT
1 TATAAAAATATAT-CATAAATAT
10809522 GTAAGATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
TATAAAAATATATCATAAATATT
Found at i:10809798 original size:22 final size:22
Alignment explanation
Indices: 10809758--10809799 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
10809748 TAAATGTTTT
* * *
10809758 TTTATTTTTTTTTGTTTTTTGC
1 TTTATTTTTATTAGATTTTTGC
10809780 TTTATTTTTATTAGATTTTT
1 TTTATTTTTATTAGATTTTT
10809800 TTCATTTTCC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.02, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTATTTTTATTAGATTTTTGC
Found at i:10809840 original size:15 final size:13
Alignment explanation
Indices: 10809820--10809862 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 13
10809810 TTTCTGTTGT
10809820 TTTTTATTTTTGTA
1 TTTTTATTTTT-TA
10809834 TTGTTTATTTAATTTA
1 TT-TTTATTT--TTTA
10809850 TTTTTATTTTTTA
1 TTTTTATTTTTTA
10809863 ATCATTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.15
14 2 0.08
15 14 0.54
16 4 0.15
17 2 0.08
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.77
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:10811935 original size:3 final size:3
Alignment explanation
Indices: 10811927--10811951 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10811917 GATTCATTCG
10811927 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
10811952 GATCCTCGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10812570 original size:1 final size:1
Alignment explanation
Indices: 10812564--10812593 Score: 60
Period size: 1 Copynumber: 30.0 Consensus size: 1
10812554 TAGTTTAGTG
10812564 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
10812594 CCTATGGAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:10815666 original size:3 final size:3
Alignment explanation
Indices: 10815658--10815695 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
10815648 GTAGACATTA
10815658 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10815696 CATTTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10817017 original size:20 final size:20
Alignment explanation
Indices: 10816960--10817018 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
10816950 AATTTTTAAT
10816960 TAAA-AATAAAAAATAGTAAAAA
1 TAAACAATAAAAAAT--T-AAAA
*
10816982 TAACCAA-AAAATAATTAAAA
1 TAAACAATAAAA-AATTAAAA
10817002 TAAACAATAAAAAATTA
1 TAAACAATAAAAAATTA
10817019 GTAAAAATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 15 0.47
21 5 0.16
22 7 0.22
23 5 0.16
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (20 bp):
TAAACAATAAAAAATTAAAA
Found at i:10829258 original size:49 final size:48
Alignment explanation
Indices: 10829195--10829360 Score: 156
Period size: 49 Copynumber: 3.4 Consensus size: 48
10829185 ATTTTGAGAA
*
10829195 AAGAT-AAAATTTTTAAAGTTGTTAAGCTTCTACTTAGAGGAGTATTTTA
1 AAGATGAAAA-TTTTAAAGTTGTTAAGCTTCTACTTAGAGGAGT-TTTTC
* * * ** * *
10829244 AAGACGAAAATTTTAAAGTTGTTGAGCCTCTTTTTAGAGAAACTTTTTC
1 AAGATGAAAATTTTAAAGTTGTTAAGCTTCTACTTAGAG-GAGTTTTTC
* * * *
10829293 AAGATGAAATTTTTAAAGTTGTTGAA-CTTTTACTTAAAAGAGCTTTTTC
1 AAGATGAAAATTTTAAAGTTGTT-AAGCTTCTACTTAGAGGAG-TTTTTC
*
10829342 AAGATGAAAATTTGAAAGT
1 AAGATGAAAATTTTAAAGT
10829361 CATTGAGCCT
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
48 1 0.01
49 84 0.91
50 7 0.08
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (48 bp):
AAGATGAAAATTTTAAAGTTGTTAAGCTTCTACTTAGAGGAGTTTTTC
Found at i:10829367 original size:98 final size:98
Alignment explanation
Indices: 10829195--10829371 Score: 241
Period size: 98 Copynumber: 1.8 Consensus size: 98
10829185 ATTTTGAGAA
* * *
10829195 AAGATAAAATTTTTAAAGTTGTTAAGCTTCTACTTAGAGGAGTATTTTAAAGACGAAAATTTTAA
1 AAGATAAAATTTTTAAAGTTGTTAAGCTTCTACTTAAAAGAGTATTTTAAAGACGAAAATTTGAA
**
10829260 AGTTGTTGAGCCTCTTTTTAGAGAAACTTTTTC
66 AGTCATTGAGCCTCTTTTTAGAGAAACTTTTTC
* * * *
10829293 AAGATGAAATTTTTAAAGTTGTTGAA-CTTTTACTTAAAAGAGCT-TTTTCAAGATGAAAATTTG
1 AAGATAAAATTTTTAAAGTTGTT-AAGCTTCTACTTAAAAGAG-TATTTTAAAGACGAAAATTTG
10829356 AAAGTCATTGAGCCTC
64 AAAGTCATTGAGCCTC
10829372 GTTGAACTTT
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
98 65 0.96
99 3 0.04
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (98 bp):
AAGATAAAATTTTTAAAGTTGTTAAGCTTCTACTTAAAAGAGTATTTTAAAGACGAAAATTTGAA
AGTCATTGAGCCTCTTTTTAGAGAAACTTTTTC
Found at i:10829608 original size:47 final size:46
Alignment explanation
Indices: 10829529--10829623 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 46
10829519 AGAGCTTTTT
* * *
10829529 AAAATTGTCGAGCTTCTATTTAGAAGGACCTTTTAAA-TTTTCAAAA
1 AAAATTGTCAAGCCTCTATTTAAAAGGACC-TTTAAATTTTTCAAAA
*
10829575 AAAAGTTGTCAAGCCTCTATTTAAAAGGGCCTTTAAATTTTTCAAAA
1 AAAA-TTGTCAAGCCTCTATTTAAAAGGACCTTTAAATTTTTCAAAA
10829622 AA
1 AA
10829624 GTTGTTAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
46 10 0.23
47 33 0.77
ACGTcount: A:0.39, C:0.14, G:0.13, T:0.35
Consensus pattern (46 bp):
AAAATTGTCAAGCCTCTATTTAAAAGGACCTTTAAATTTTTCAAAA
Found at i:10829820 original size:15 final size:15
Alignment explanation
Indices: 10829797--10829836 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10829787 TATTATTATA
*
10829797 TTTTCTTTTCTTTCT
1 TTTTCTTTTCTCTCT
*
10829812 TTTTTTTTTCTCTCT
1 TTTTCTTTTCTCTCT
10829827 TTTTCTTTTC
1 TTTTCTTTTC
10829837 CCTTTTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTCTCTCT
Found at i:10830793 original size:18 final size:18
Alignment explanation
Indices: 10830770--10830827 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 18
10830760 TAAAAAAAAA
10830770 TTTTTTAATTTTTTAATT
1 TTTTTTAATTTTTTAATT
*
10830788 TTTTTTGAAATTTTTATATT
1 TTTTTT-AATTTTTTA-ATT
*
10830808 TTTTGTT-ATTTTTAAATT
1 TTTT-TTAATTTTTTAATT
10830826 TT
1 TT
10830828 ATCATTAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 11 0.32
19 14 0.41
20 7 0.21
21 2 0.06
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTTAATTTTTTAATT
Found at i:10831131 original size:20 final size:22
Alignment explanation
Indices: 10831072--10831131 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 22
10831062 AATTAAAAAC
10831072 AAAAAA-TAGTAAAAATAACCAA
1 AAAAAATTAGTAAAAATAA-CAA
* * *
10831094 AAAATAATTAATATAAAT-A-AT
1 AAAA-AATTAGTAAAAATAACAA
10831115 AAAAAATTAGTAAAAAT
1 AAAAAATTAGTAAAAAT
10831132 GTAAGAAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.35
21 5 0.16
22 4 0.13
23 3 0.10
24 8 0.26
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (22 bp):
AAAAAATTAGTAAAAATAACAA
Found at i:10834398 original size:463 final size:464
Alignment explanation
Indices: 10833529--10834445 Score: 1674
Period size: 463 Copynumber: 2.0 Consensus size: 464
10833519 TATTTAAAAA
*
10833529 GAATATCTCTTTTGTATTGGGTTAAGAAGTTATCTTCCTAATATGAAGTTAAAAGTTCTCCTTGG
1 GAATATCTCTTTTGTATTGGGTTAAGAAGTTATCTTCCTAATATGAAGTCAAAAGTTCTCCTTGG
10833594 CAATGCACATAATTATATTAATGTTACTATTATACACCTTGTTTACCTCATAAGTGGAGGTATTA
66 CAATGCACATAATTATATTAATGTTACTATTATACACCTTGTTTACCTCATAAGTGGAGGTATTA
* *
10833659 AAATTTCAATGAAATGCTAATATTATTAAGACTTTTCGAACATCAAAGTTGAAAAACCTTATGAG
131 AAATTTCAATGAAATGCTAATATTATTAAGACTTTTCGAACATCAAAGTTGAAAAACCTCACGAG
** *
10833724 CAGTATGTCATATATGTGTTATTATATAACTTATATTTTATAGGTTAAGAAATTCACCTTACTAC
196 CAGTACATCATATATGTGTTATTATATAACTTATATTTTATAGCTTAAGAAATTCACCTTACTAC
*
10833789 GAAAGTAATCTACATATGAAACATTTAAAACTTTTTGGAATATATTGGAGCAAAAATGCATAGTG
261 GAAAGTAATCTACATATGAAACATTTAAAACTTTTTGGAATATAATGGAGCAAAAATGCATAGTG
10833854 CATACATATGATGATACAAATTTGAAAGAAAAGTTAATTCCAAACTTAAAAATTTTTCTCAAAGA
326 CATACATATGATGATACAAATTTGAAAGAAAAGTTAATTCCAAACTTAAAAATTTTTCTCAAAGA
10833919 TAAAAAATACTCCTAAAGGAAGCCAAACATCTTAAATCTTACTATTTCATTTAGTTTACGTACAT
391 TAAAAAATACTCCTAAAGGAAGCCAAACATCTTAAATCTTACTATTTCATTTAGTTTACGTACAT
10833984 ATTTGAATT
456 ATTTGAATT
* *
10833993 GAATATCTCTTTTGTATTGGGTTGAGAAGTTATCTTCCTAATATGAAGTCAAAAGTTCTCTTTGG
1 GAATATCTCTTTTGTATTGGGTTAAGAAGTTATCTTCCTAATATGAAGTCAAAAGTTCTCCTTGG
10834058 CAATGCACATAATTATATTAATGTTACTATTATACACCTTGTTTACCTCATAAGTGGAGGTATTA
66 CAATGCACATAATTATATTAATGTTACTATTATACACCTTGTTTACCTCATAAGTGGAGGTATTA
* * *
10834123 GAATTTCAATGAAATGTTAATATTATTAAGACTTTTTGAACATCAAAGTTG-AAAACCTCACGAG
131 AAATTTCAATGAAATGCTAATATTATTAAGACTTTTCGAACATCAAAGTTGAAAAACCTCACGAG
* *
10834187 CATTACATCATATATGTGTTATTATATAACTTATATTTTATAGCTTAAGAAATTCACCTTACTAT
196 CAGTACATCATATATGTGTTATTATATAACTTATATTTTATAGCTTAAGAAATTCACCTTACTAC
10834252 GAAAGTAATCTACATATGAAACATTTAAAACTTTTTGGAATATAATGGAGCAAAAATGCATAGTG
261 GAAAGTAATCTACATATGAAACATTTAAAACTTTTTGGAATATAATGGAGCAAAAATGCATAGTG
*
10834317 CATACATATGATGATACAAATTTGAAAGAAAAGTTAATTCCAAACTTGAAAATTTTTCTCAAAGA
326 CATACATATGATGATACAAATTTGAAAGAAAAGTTAATTCCAAACTTAAAAATTTTTCTCAAAGA
* *
10834382 TAAAAAATATTCCTAAAGGAAGCCAAACATCTTAAATCTTACTATTTCATTTAGTTTGCGTACA
391 TAAAAAATACTCCTAAAGGAAGCCAAACATCTTAAATCTTACTATTTCATTTAGTTTACGTACA
10834446 AGTTCTTCTA
Statistics
Matches: 436, Mismatches: 17, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
463 261 0.60
464 175 0.40
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (464 bp):
GAATATCTCTTTTGTATTGGGTTAAGAAGTTATCTTCCTAATATGAAGTCAAAAGTTCTCCTTGG
CAATGCACATAATTATATTAATGTTACTATTATACACCTTGTTTACCTCATAAGTGGAGGTATTA
AAATTTCAATGAAATGCTAATATTATTAAGACTTTTCGAACATCAAAGTTGAAAAACCTCACGAG
CAGTACATCATATATGTGTTATTATATAACTTATATTTTATAGCTTAAGAAATTCACCTTACTAC
GAAAGTAATCTACATATGAAACATTTAAAACTTTTTGGAATATAATGGAGCAAAAATGCATAGTG
CATACATATGATGATACAAATTTGAAAGAAAAGTTAATTCCAAACTTAAAAATTTTTCTCAAAGA
TAAAAAATACTCCTAAAGGAAGCCAAACATCTTAAATCTTACTATTTCATTTAGTTTACGTACAT
ATTTGAATT
Found at i:10836145 original size:21 final size:22
Alignment explanation
Indices: 10836101--10836150 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10836091 ACATAATAAA
* *
10836101 AAAAATTTCAAAGATCTTAGGG
1 AAAAGTTTCAAAAATCTTAGGG
*
10836123 AAAAGTTTCAAAAATCTT-TGG
1 AAAAGTTTCAAAAATCTTAGGG
10836144 AAAAGTT
1 AAAAGTT
10836151 GAAATATCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (22 bp):
AAAAGTTTCAAAAATCTTAGGG
Found at i:10836187 original size:54 final size:52
Alignment explanation
Indices: 10836128--10836483 Score: 258
Period size: 54 Copynumber: 6.6 Consensus size: 52
10836118 TAGGGAAAAG
*
10836128 TTTCAAAAATCTTTGGAAAAGTTGAAATATCAATTTTTTCTTAAACAAAAATAA
1 TTTCAAAAAT-TTAGGAAAAGTTGAAATATCAA-TTTTTCTTAAACAAAAATAA
* * * * * *
10836182 TTTCAAAAATTAAGGAAAATTTTGCAATATTAACTCTTCATTAAACAAAAATAA
1 TTTCAAAAATTTAGGAAAA-GTTGAAATATCAATTTTTC-TTAAACAAAAATAA
* * **
10836236 TTTCAAAAATTATAGAAAAAGTTGAAATATCAAAATTTTCTTGCACAAAAGAATAA
1 TTTCAAAAATT-TAGGAAAAGTTGAAATATC-AATTTTTCTTAAAC-AAA-AATAA
* * *
10836292 TTTCAAGAAA-TGAGGAAAAAGTTAAAATATTAATTTCTTCTT-AA-AAAAATAA
1 TTTCAA-AAATTTAGG-AAAAGTTGAAATATCAATTT-TTCTTAAACAAAAATAA
* *
10836344 TTTCAAAAAGTTTGGAGGAAAAAGTTGAAATATCAATTTTCCTTAAA-AGAAAATTA
1 TTTCAAAAA-TTT--AGG-AAAAGTTGAAATATCAATTTTTCTTAAACA-AAAATAA
* * * * *
10836400 TTTC-AAAATTTAAGGAAAAAGATAAAATAACCAATTTTTCTTAAAATAAAAATAC
1 TTTCAAAAATTT-AGG-AAAAGTTGAAAT-ATCAATTTTTCTT-AAACAAAAATAA
* *
10836455 TATT--AAGATTTGAAGAAAAGTTGAAATAT
1 T-TTCAAAAATTT-AGGAAAAGTTGAAATAT
10836484 TAAAATTTCT
Statistics
Matches: 243, Mismatches: 40, Indels: 39
0.75 0.12 0.12
Matches are distributed among these distances:
51 3 0.01
52 11 0.05
53 30 0.12
54 85 0.35
55 68 0.28
56 43 0.18
57 3 0.01
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (52 bp):
TTTCAAAAATTTAGGAAAAGTTGAAATATCAATTTTTCTTAAACAAAAATAA
Found at i:10836256 original size:108 final size:107
Alignment explanation
Indices: 10836144--10836428 Score: 312
Period size: 108 Copynumber: 2.6 Consensus size: 107
10836134 AAATCTTTGG
** **
10836144 AAAAGTTGAAATATCAATTTTTTCTTAAACAAAAATAATTTCAAAAATTAAGGAAAATTTTGCAA
1 AAAAGTTGAAATATCAA-TTTTTCTTAAACAAAAATAATTTCAAAAATTAAGGAAAAAGTTAAAA
10836209 TATTAA-CTCTTCATTAAACAAAAATAATTTCAAAAA-TTAT-A-GA
65 TATTAATCTCTTC-TT-AA-AAAAATAATTTCAAAAAGTT-TGAGGA
* ** *
10836252 AAAAGTTGAAATATCAAAATTTTCTTGCACAAAAGAATAATTTCAAGAAA-TGAGGAAAAAGTTA
1 AAAAGTTGAAATATC-AATTTTTCTTAAAC-AAA-AATAATTTCAA-AAATTAAGGAAAAAGTTA
*
10836316 AAATATTAATTTCTTCTTAAAAAAATAATTTCAAAAAGTTTGGAGGA
62 AAATATTAATCTCTTCTTAAAAAAATAATTTCAAAAAGTTT-GAGGA
* * * *
10836363 AAAAGTTGAAATATCAATTTTCCTTAAA-AGAAAATTATTTCAAAATTTAAGGAAAAAGATAAAA
1 AAAAGTTGAAATATCAATTTTTCTTAAACA-AAAATAATTTCAAAAATTAAGGAAAAAGTTAAAA
10836427 TA
65 TA
10836429 ACCAATTTTT
Statistics
Matches: 149, Mismatches: 17, Indels: 22
0.79 0.09 0.12
Matches are distributed among these distances:
107 2 0.01
108 70 0.47
109 11 0.07
110 41 0.28
111 25 0.17
ACGTcount: A:0.51, C:0.08, G:0.09, T:0.32
Consensus pattern (107 bp):
AAAAGTTGAAATATCAATTTTTCTTAAACAAAAATAATTTCAAAAATTAAGGAAAAAGTTAAAAT
ATTAATCTCTTCTTAAAAAAATAATTTCAAAAAGTTTGAGGA
Found at i:10836375 original size:55 final size:52
Alignment explanation
Indices: 10836144--10836450 Score: 269
Period size: 54 Copynumber: 5.6 Consensus size: 52
10836134 AAATCTTTGG
*
10836144 AAAAGTTGAAATATCAATTTTTTCTTAAACAAAAATAATTTCAAAAATTAAGGA
1 AAAAGTTGAAATATCAA-TTTTTCTTAAA-AAAAATAATTTCAAAAATTGAGGA
** * * * * *
10836198 AAATTTTGCAATATTAACTCTTCATTAAACAAAAATAATTTCAAAAATT-ATAGA
1 AAAAGTTGAAATATCAATTTTTC-TTAAA-AAAAATAATTTCAAAAATTGA-GGA
* *
10836252 AAAAGTTGAAATATCAAAATTTTCTTGCACAAAAGAATAATTTCAAGAAA-TGAGGA
1 AAAAGTTGAAATATC-AATTTTTCTT--A-AAAAAAATAATTTCAA-AAATTGAGGA
* *
10836308 AAAAGTTAAAATATTAATTTCTTCTT-AAAAAAATAATTTCAAAAAGTTTGGAGGA
1 AAAAGTTGAAATATCAATTT-TTCTTAAAAAAAATAATTTCAAAAA--TT-GAGGA
* * * *
10836363 AAAAGTTGAAATATCAATTTTCCTTAAAAGAAAATTATTTCAAAATTTAAGGA
1 AAAAGTTGAAATATCAATTTTTCTTAAAA-AAAATAATTTCAAAAATTGAGGA
* * *
10836416 AAAAGATAAAATAACCAATTTTTCTTAAAATAAAA
1 AAAAGTTGAAAT-ATCAATTTTTCTTAAAA-AAAA
10836451 ATACTATTAA
Statistics
Matches: 207, Mismatches: 30, Indels: 32
0.77 0.11 0.12
Matches are distributed among these distances:
51 3 0.01
52 15 0.07
53 19 0.09
54 79 0.38
55 36 0.17
56 49 0.24
57 6 0.03
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (52 bp):
AAAAGTTGAAATATCAATTTTTCTTAAAAAAAATAATTTCAAAAATTGAGGA
Found at i:10836441 original size:164 final size:164
Alignment explanation
Indices: 10836144--10836441 Score: 363
Period size: 164 Copynumber: 1.8 Consensus size: 164
10836134 AAATCTTTGG
* * ** *
10836144 AAAAGTTGAAATATCAATTTTTTCTTAAACAAAAATAATTTCAAAAATTAAGGAAAATTTTGCAA
1 AAAAGTTAAAATATCAATTTCTTCTTAAACAAAAATAATTTCAAAAATTAAGGAAAAAGTTGAAA
* * * *
10836209 TATTAACTCTTCATTAAACAAAAATAATTTCAAAAATTATAGAAAAAGTTGAAATATCAAAATTT
66 TATCAACTCTTCATTAAACAAAAATAATTTCAAAAATTATAGAAAAAGATAAAATAACAAAATTT
10836274 TCTTGCACAAAAGAATAATTTCAAGAAATGAGGA
131 TCTTGCACAAAAGAATAATTTCAAGAAATGAGGA
* *
10836308 AAAAGTTAAAATATTAATTTCTTCTT-AA-AAAAATAATTTCAAAAAGTTTGGAGGAAAAAGTTG
1 AAAAGTTAAAATATCAATTTCTTCTTAAACAAAAATAATTTCAAAAA--TT-AAGGAAAAAGTTG
* * * * *
10836371 AAATATCAA-TTTTCCTTAAA-AGAAAATTATTTCAAAATTTA-AGGAAAAAGATAAAATAACCA
63 AAATATCAACTCTTCATTAAACA-AAAATAATTTCAAAAATTATA-GAAAAAGATAAAATAACAA
*
10836433 ATTTTTCTT
126 AATTTTCTT
10836442 AAAATAAAAA
Statistics
Matches: 112, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
162 17 0.15
163 4 0.04
164 74 0.66
165 17 0.15
ACGTcount: A:0.50, C:0.08, G:0.09, T:0.33
Consensus pattern (164 bp):
AAAAGTTAAAATATCAATTTCTTCTTAAACAAAAATAATTTCAAAAATTAAGGAAAAAGTTGAAA
TATCAACTCTTCATTAAACAAAAATAATTTCAAAAATTATAGAAAAAGATAAAATAACAAAATTT
TCTTGCACAAAAGAATAATTTCAAGAAATGAGGA
Found at i:10838610 original size:42 final size:44
Alignment explanation
Indices: 10838539--10838622 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 44
10838529 GAACAACCTC
* *
10838539 ATTATTTGTTATAATATTTTTTTATTTTTTGGCAAAACACTTTT
1 ATTATTTGTTATAATATTTTCTTATTTTTTGGAAAAACACTTTT
*
10838583 ATTATTT-TT-TAATAATTTTCTT-TTTTTTTGAAAAACACTT
1 ATTATTTGTTATAAT-ATTTTCTTATTTTTTGGAAAAACACTT
10838623 CCATTATCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
42 20 0.56
43 9 0.25
44 7 0.19
ACGTcount: A:0.29, C:0.07, G:0.05, T:0.60
Consensus pattern (44 bp):
ATTATTTGTTATAATATTTTCTTATTTTTTGGAAAAACACTTTT
Found at i:10838827 original size:2 final size:2
Alignment explanation
Indices: 10838820--10838850 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10838810 GGCGTTCCTT
10838820 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10838851 TATTACTTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10839397 original size:15 final size:16
Alignment explanation
Indices: 10839368--10839400 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10839358 TTTGTGGAAC
10839368 AACTCTTTCAAAGAAT
1 AACTCTTTCAAAGAAT
*
10839384 AACT-TTTCACAGAAT
1 AACTCTTTCAAAGAAT
10839399 AA
1 AA
10839401 TTATTAAAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.45, C:0.18, G:0.06, T:0.30
Consensus pattern (16 bp):
AACTCTTTCAAAGAAT
Found at i:10845153 original size:24 final size:26
Alignment explanation
Indices: 10845108--10845156 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
10845098 AAAAAAGGTT
*
10845108 ATTATTAAAAAAATCATAAATTTTAAA
1 ATTAATAAAAAAAT-ATAAATTTTAAA
10845135 ATTAATAAAAAAAT-T-AATTTTA
1 ATTAATAAAAAAATATAAATTTTA
10845157 TTATTTTGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 1 0.05
27 13 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
ATTAATAAAAAAATATAAATTTTAAA
Found at i:10845271 original size:24 final size:23
Alignment explanation
Indices: 10845212--10845264 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
10845202 AAACTAAAGA
10845212 TAAAATAGTAAATATAATTTTTT
1 TAAAATAGTAAATATAATTTTTT
10845235 TAAAATAGTAAATATAATTTTTT
1 TAAAATAGTAAATATAATTTTTT
10845258 TATAAAT
1 TA-AAAT
10845265 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 25 0.86
24 4 0.14
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAAATAGTAAATATAATTTTTT
Found at i:10845290 original size:17 final size:17
Alignment explanation
Indices: 10845243--10845295 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 17
10845233 TTTAAAATAG
10845243 TAAATATAATTTTTTT-A
1 TAAATAT-ATTTTTTTAA
*
10845260 TAAATTTAAAATTTTTTTAA
1 TAAA--T-ATATTTTTTTAA
10845280 TAAATATATTTTTTTA
1 TAAATATATTTTTTTA
10845296 GTATTGATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 14 0.47
18 1 0.03
19 9 0.30
20 6 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATATATTTTTTTAA
Found at i:10845611 original size:18 final size:17
Alignment explanation
Indices: 10845566--10845603 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
10845556 TTATTAGTGC
*
10845566 AATAAAAAATATTTTAA
1 AATATAAAATATTTTAA
10845583 AATATATAAATATTTTAA
1 AATATA-AAATATTTTAA
10845601 AAT
1 AAT
10845604 TTTAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATATAAAATATTTTAA
Found at i:10845816 original size:23 final size:23
Alignment explanation
Indices: 10845787--10845866 Score: 65
Period size: 23 Copynumber: 3.3 Consensus size: 23
10845777 ATAGTTAGAA
10845787 ATAATATTTATATTTTAATAAAT
1 ATAATATTTATATTTTAATAAAT
* **
10845810 ATAATATATA-ATAACTAATAAAT
1 ATAATATTTATAT-TTTAATAAAT
*
10845833 AATTAATATTTATA-TTTATTAAAAT
1 -A-TAATATTTATATTTTAAT-AAAT
10845858 ATAAATATT
1 AT-AATATT
10845867 ATTTATTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
22 2 0.05
23 18 0.41
24 11 0.25
25 12 0.27
26 1 0.02
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (23 bp):
ATAATATTTATATTTTAATAAAT
Found at i:10846104 original size:22 final size:22
Alignment explanation
Indices: 10846079--10846121 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10846069 AATTAATCAC
*
10846079 TTTTATTAA-TATTTTTTATTAA
1 TTTTA-TAATTATTTTTAATTAA
10846101 TTTTATAATTATTTTTAATTA
1 TTTTATAATTATTTTTAATTA
10846122 TGACATCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 3 0.16
22 16 0.84
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTATAATTATTTTTAATTAA
Found at i:10852852 original size:36 final size:37
Alignment explanation
Indices: 10852788--10852882 Score: 131
Period size: 36 Copynumber: 2.6 Consensus size: 37
10852778 ATCTCCCATC
* * *
10852788 AAACCCTAAA-TCCAAACCTTAAATCTCAATCCTTAG
1 AAACCTTAAATTCCAAACCTCAAATCTCAATCCTCAG
10852824 AAACCTTAAATTCCAAACCTCAAA-CTCAATCCTCAG
1 AAACCTTAAATTCCAAACCTCAAATCTCAATCCTCAG
* *
10852860 AAATCTTAAATTACAAACCTCAA
1 AAACCTTAAATTCCAAACCTCAA
10852883 TTCTAAATGC
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
36 41 0.77
37 12 0.23
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.24
Consensus pattern (37 bp):
AAACCTTAAATTCCAAACCTCAAATCTCAATCCTCAG
Found at i:10852976 original size:52 final size:52
Alignment explanation
Indices: 10852920--10853021 Score: 136
Period size: 53 Copynumber: 2.0 Consensus size: 52
10852910 TCCTAAACCC
* *
10852920 TAACCCTAAA-CGTAAACCTT-AATCCTAAAACCCTAAATTCTAACTCTAGACT
1 TAACCCTAAACCCT-AACCTTAAATCCTAAAACCCTAAACTCTAAC-CTAGACT
* *
10852972 TAACCCTAAACCCTAACCTTAAATCTTAAAACCTTAAACTCTAACCTAGA
1 TAACCCTAAACCCTAACCTTAAATCCTAAAACCCTAAACTCTAACCTAGA
10853022 TCCTAAATCA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
52 21 0.48
53 23 0.52
ACGTcount: A:0.41, C:0.29, G:0.03, T:0.26
Consensus pattern (52 bp):
TAACCCTAAACCCTAACCTTAAATCCTAAAACCCTAAACTCTAACCTAGACT
Found at i:10853046 original size:18 final size:18
Alignment explanation
Indices: 10853000--10853051 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
10852990 TTAAATCTTA
*
10853000 AAACCTTAAACTCTAACCT
1 AAACCTTAAA-TCAAACCT
*
10853019 AGATCC-TAAATCAAACCT
1 A-AACCTTAAATCAAACCT
10853037 AAACCTTAAAATCAA
1 AAACCTT-AAATCAA
10853052 CTCTCAAACC
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 3 0.11
18 9 0.33
19 12 0.44
20 3 0.11
ACGTcount: A:0.48, C:0.27, G:0.02, T:0.23
Consensus pattern (18 bp):
AAACCTTAAATCAAACCT
Found at i:10853049 original size:53 final size:53
Alignment explanation
Indices: 10852918--10853046 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 53
10852908 AATCCTAAAC
* * *
10852918 CCTAACCCTAAACGTAAACCTT-AATCCTAAAACCCTAAATTCTAACTCTAGA
1 CCTAAACCTAAACCTAAACCTTAAATCCTAAAACCCTAAACTCTAACTCTAGA
* * * *
10852970 CTTAACCCTAAACCCT-AACCTTAAATCTTAAAACCTTAAACTCTAAC-CTAGA
1 CCTAAACCTAAA-CCTAAACCTTAAATCCTAAAACCCTAAACTCTAACTCTAGA
*
10853022 TCCTAAATC-AAACCTAAACCTTAAA
1 -CCTAAACCTAAACCTAAACCTTAAA
10853047 ATCAACTCTC
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
51 3 0.05
52 34 0.52
53 28 0.43
ACGTcount: A:0.42, C:0.30, G:0.02, T:0.26
Consensus pattern (53 bp):
CCTAAACCTAAACCTAAACCTTAAATCCTAAAACCCTAAACTCTAACTCTAGA
Found at i:10853143 original size:18 final size:17
Alignment explanation
Indices: 10853105--10853168 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 17
10853095 CTTGTCATCA
* *
10853105 CATGCATTTTTATATTAT
1 CATGCATTTATAT-TTGT
10853123 CATGCATTTATATTTTGT
1 CATGCATTTATA-TTTGT
**
10853141 CATTTATATTATA-TTGT
1 CATGCAT-TTATATTTGT
10853158 CATGCATTTAT
1 CATGCATTTAT
10853169 CACATGATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 19 0.50
19 6 0.16
ACGTcount: A:0.27, C:0.11, G:0.08, T:0.55
Consensus pattern (17 bp):
CATGCATTTATATTTGT
Found at i:10854289 original size:14 final size:14
Alignment explanation
Indices: 10854270--10854336 Score: 50
Period size: 14 Copynumber: 4.7 Consensus size: 14
10854260 ATTTCATACA
10854270 TATTTTAATTATAT
1 TATTTTAATTATAT
*
10854284 TATTTT-A-TACA-
1 TATTTTAATTATAT
10854295 TATTTTAATTATAT
1 TATTTTAATTATAT
* *
10854309 CATTTATTATATACTAT
1 TATTT-TAAT-TA-TAT
10854326 TATTCTTAATT
1 TATT-TTAATT
10854337 TGTTCTTAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
11 6 0.15
12 4 0.10
13 4 0.10
14 10 0.25
15 3 0.08
16 3 0.08
17 9 0.22
18 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTTTAATTATAT
Found at i:10854294 original size:25 final size:25
Alignment explanation
Indices: 10854259--10854313 Score: 92
Period size: 25 Copynumber: 2.2 Consensus size: 25
10854249 ATGTGTTTTA
10854259 CATTTCATACATATTTTAATTATAT
1 CATTTCATACATATTTTAATTATAT
* *
10854284 TATTTTATACATATTTTAATTATAT
1 CATTTCATACATATTTTAATTATAT
10854309 CATTT
1 CATTT
10854314 ATTATATACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (25 bp):
CATTTCATACATATTTTAATTATAT
Found at i:10856439 original size:2 final size:2
Alignment explanation
Indices: 10856432--10856468 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
10856422 TACTTCTTTT
*
10856432 TA TA TA TA TA TA TA TA TA TA TA TA TA TCA TC TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
10856469 GAGACACACA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10856886 original size:40 final size:41
Alignment explanation
Indices: 10856826--10856903 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 41
10856816 TTTTTTCATG
*
10856826 TTTTTAACAAAGGCTATGTTTT-TATCATAAAAACATTGTT
1 TTTTTAACAAAGACTATGTTTTCTATCATAAAAACATTGTT
* * * *
10856866 TTTTTAACAAAGATTGTGTTTTCTATCGTAAAAGCATT
1 TTTTTAACAAAGACTATGTTTTCTATCATAAAAACATT
10856904 ATCTTTATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 19 0.59
41 13 0.41
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (41 bp):
TTTTTAACAAAGACTATGTTTTCTATCATAAAAACATTGTT
Found at i:10860150 original size:62 final size:62
Alignment explanation
Indices: 10860033--10860151 Score: 152
Period size: 62 Copynumber: 1.9 Consensus size: 62
10860023 TTTTTAACAT
*
10860033 AAATTATTGAAGGCAATTTTTTTCAAAAATGCCTTCAATAATCCATACACAATATTTGGTAC
1 AAATTATTGAAGGCAATTTTTTTCAAAAATGCCTTCAATAATCCACACACAATATTTGGTAC
* * * * *
10860095 AAATTCTTGAAGGCATTTTTTTTTC-AAAATGCCTTTAATATTTCACACA-ATATATTT
1 AAATTATTGAAGGCA-ATTTTTTTCAAAAATGCCTTCAATAATCCACACACA-ATATTT
10860152 TTAAGTGAGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
61 1 0.02
62 40 0.82
63 8 0.16
ACGTcount: A:0.36, C:0.15, G:0.08, T:0.40
Consensus pattern (62 bp):
AAATTATTGAAGGCAATTTTTTTCAAAAATGCCTTCAATAATCCACACACAATATTTGGTAC
Found at i:10860335 original size:35 final size:35
Alignment explanation
Indices: 10860289--10860358 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
10860279 TGTATATGTC
10860289 AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
1 AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
* *
10860324 AAGTCAATTGTATATTTATGCCCAAAAAATATTTG
1 AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
10860359 GTTTATATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (35 bp):
AAGTCAATTGTAGATTTATGCCCAAAAAACATTTG
Done.