Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008198.1 Hibiscus syriacus cultivar Beakdansim tig00110818_pilon, 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: 177714
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
Found at i:889 original size:30 final size:30
Alignment explanation
Indices: 853--911 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
843 AAATGAACAA
*
853 AACATAAACAACTTCAAAAATAAACAAACG
1 AACATAAACAACTTCAAAAACAAACAAACG
* * *
883 AACATAAACCACTTTAAAAGCAAACAAAC
1 AACATAAACAACTTCAAAAACAAACAAAC
912 TGATACAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.61, C:0.22, G:0.03, T:0.14
Consensus pattern (30 bp):
AACATAAACAACTTCAAAAACAAACAAACG
Found at i:1507 original size:23 final size:23
Alignment explanation
Indices: 1480--1526 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
1470 AATTTTCAGA
*
1480 AAGATATATTA-ATATTTATAAAT
1 AAGATAT-TTATATATTTAGAAAT
*
1503 AAGATATTTATTTATTTAGAAAT
1 AAGATATTTATATATTTAGAAAT
1526 A
1 A
1527 TCATAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
AAGATATTTATATATTTAGAAAT
Found at i:1762 original size:29 final size:29
Alignment explanation
Indices: 1730--1785 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
1720 CCTAAAAGTA
1730 ATTTATATAAAATTAAAT-TTATAAATAGG
1 ATTTATATAAAA-TAAATATTATAAATAGG
* **
1759 ATTTTTATTTAATAAATATTATAAATA
1 ATTTATATAAAATAAATATTATAAATA
1786 AATAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (29 bp):
ATTTATATAAAATAAATATTATAAATAGG
Found at i:3222 original size:16 final size:17
Alignment explanation
Indices: 3188--3247 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 17
3178 GCCTGTAATG
*
3188 TAAATAATATTTAAT-AA
1 TAAATAATA-ATAATAAA
3205 T-AATAATAATAATAAA
1 TAAATAATAATAATAAA
3221 TAAATAAATAAATAAATAAA
1 TAAAT-AAT-AAT-AATAAA
3241 TAAATAA
1 TAAATAA
3248 AATGAAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
15 4 0.11
16 10 0.27
17 4 0.11
18 3 0.08
19 5 0.14
20 11 0.30
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAATAATAATAATAAA
Found at i:3224 original size:4 final size:4
Alignment explanation
Indices: 3215--3248 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
3205 TAATAATAAT
3215 AATA AATA AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AATA AATA AA
3249 ATGAAAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:3834 original size:217 final size:221
Alignment explanation
Indices: 3482--4011 Score: 816
Period size: 217 Copynumber: 2.3 Consensus size: 221
3472 ACAAGATCTA
* *
3482 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAATTTCTTATTCTTCAGATGAGTTCTTCTCATTA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
*
3547 TGAACTCTTCTGGAAATATTGACCTTCAAAAGAGGTATTGTTAATTCAACTTCAATATGTGATGA
66 TGAACTCTTCTGGAAATATTGACCTTCAAAAGAGGTATTGTTAATTCAACTTCAATATGTGATAA
3612 ATCAAATTAAGGTTG-AA-C-A-AGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGA
131 ATCAAATTAAGGTTGAAATCAAGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGA
*
3673 TCTATCTCCTTCTGTGATAGAGTCAT
196 TCTACCTCCTTCTGTGATAGAGTCAT
*
3699 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCAAATGAGTTCTTCTCATTA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
3764 TGAACTCTTCTGGAAATATTGACCTTCAAAAGAGGTATTGTTAATTCAACTTCAATATGTGATAA
66 TGAACTCTTCTGGAAATATTGACCTTCAAAAGAGGTATTGTTAATTCAACTTCAATATGTGATAA
3829 ATCAAATTAAGGTTGAACAAGTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACACTTCTGG
131 ATCAAATTAAGGTTG-A-AA-----------TCA-A-GAGTTCTTCTCATTATGAACACTTCTGG
3894 AAATGTTGATGCTGATCTACCTCCTTCTGTGATAGAGTCAT
181 AAATGTTGATGCTGATCTACCTCCTTCTGTGATAGAGTCAT
*
3935 GCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCA
1 GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC-T--TCTTCAGATGAGTTCTTCTCA
4000 TTATGAACTCTT
63 TTATGAACTCTT
4012 ATGAAAATGT
Statistics
Matches: 284, Mismatches: 7, Indels: 22
0.91 0.02 0.07
Matches are distributed among these distances:
217 141 0.50
220 2 0.01
232 1 0.00
234 1 0.00
236 106 0.37
237 1 0.00
239 32 0.11
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (221 bp):
GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTA
TGAACTCTTCTGGAAATATTGACCTTCAAAAGAGGTATTGTTAATTCAACTTCAATATGTGATAA
ATCAAATTAAGGTTGAAATCAAGAGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGA
TCTACCTCCTTCTGTGATAGAGTCAT
Found at i:4074 original size:122 final size:122
Alignment explanation
Indices: 3631--4269 Score: 800
Period size: 122 Copynumber: 5.3 Consensus size: 122
3621 AGGTTGAACA
* *
3631 AGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
1 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
*
3696 CATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTC-T--TCTTCAAATG
66 CATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
* * * * ****** * * *
3750 AGTTCTTCTCATTATGAACTCTTCTGGAAATATTGA-CCT--TCAAAAGAGGTAT-TGTTA-ATT
1 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
* * * * *** * * *** *
3810 CAACTTCAATATG-TGATA-AATCAAAT-TAAGGT-TGAACAAGTTCTTCTTCTTCAGATG
66 C-A-TGCAAAAGGTTGA-ACAAGCTCTTCTCA-TTATGAACTTCTTCTTCCTCTTCAGATG
* * *
3867 AGTTCTTCTCATTATGAACACTTCTGGAAATGTTGATGCTGATCTACCTCCTTCTGTGATAGAGT
1 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
*
3932 CATGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
66 CATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
* *
3989 AGTTCTTCTCATTATGAACTCTTATGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAAT
1 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
4054 CGA-GCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
66 C-ATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
*
4111 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGTTGATCTATCTCCTTCTGTGATAGAGT
1 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
* *
4176 CATGCAAAAGGTTAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTTAGATG
66 CATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
4233 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGAT
1 AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGAT
4270 TCATTGAATG
Statistics
Matches: 439, Mismatches: 63, Indels: 33
0.82 0.12 0.06
Matches are distributed among these distances:
114 13 0.03
115 14 0.03
116 12 0.03
117 43 0.10
118 4 0.01
119 34 0.08
120 12 0.03
121 14 0.03
122 292 0.67
123 1 0.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (122 bp):
AGTTCTTCTCATTATGAACTCTTCTGAAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGT
CATGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATG
Found at i:4593 original size:22 final size:22
Alignment explanation
Indices: 4559--4665 Score: 169
Period size: 22 Copynumber: 4.9 Consensus size: 22
4549 AAATCCAATA
* * *
4559 AATCTTTCTTCTTTGAAAAGAG
1 AATCTATCATCTTTGAAGAGAG
4581 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
*
4603 AATCTATCATCTTTGGAGAGAG
1 AATCTATCATCTTTGAAGAGAG
*
4625 AATCTATCATCTTTGGAGAGAG
1 AATCTATCATCTTTGAAGAGAG
4647 AATCTATCATCTTTGAAGA
1 AATCTATCATCTTTGAAGA
4666 ATGTATCATC
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 80 1.00
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:4625 original size:44 final size:43
Alignment explanation
Indices: 4559--4683 Score: 166
Period size: 44 Copynumber: 2.9 Consensus size: 43
4549 AAATCCAATA
* * *
4559 AATCTTTCTTCTTTGAAAAGAGAATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTG-AGAGAGAATCTATCATCTTTGAAGAGAG
*
4603 AATCTATCATCTTTGGAGAGAGAATCTATCATCTTTGGAGAGAG
1 AATCTATCATCTTT-GAGAGAGAATCTATCATCTTTGAAGAGAG
*
4647 AATCTATCATCTTT--GA-AGAATGTATCATCTTTGAAGA
1 AATCTATCATCTTTGAGAGAGAATCTATCATCTTTGAAGA
4684 ATGTAGATGT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
40 19 0.26
41 2 0.03
44 52 0.70
45 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.18, T:0.35
Consensus pattern (43 bp):
AATCTATCATCTTTGAGAGAGAATCTATCATCTTTGAAGAGAG
Found at i:4672 original size:18 final size:18
Alignment explanation
Indices: 4645--4688 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
4635 CTTTGGAGAG
*
4645 AGAATCTATCATCTTTGA
1 AGAATGTATCATCTTTGA
4663 AGAATGTATCATCTTTGA
1 AGAATGTATCATCTTTGA
4681 AGAATGTA
1 AGAATGTA
4689 GATGTAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.36, C:0.11, G:0.16, T:0.36
Consensus pattern (18 bp):
AGAATGTATCATCTTTGA
Found at i:5498 original size:18 final size:18
Alignment explanation
Indices: 5475--5512 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
5465 TATATAAAAG
5475 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
5493 AATAAATTGAATTTCGAA
1 AATAAATTGAATTTCGAA
5511 AA
1 AA
5513 GATAAACTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.05, G:0.11, T:0.32
Consensus pattern (18 bp):
AATAAATTGAATTTCGAA
Found at i:5898 original size:13 final size:13
Alignment explanation
Indices: 5870--5906 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
5860 TCTATTTTAT
5870 TTTTATTTTATTTG
1 TTTTATTTT-TTTG
5884 TTTTATTTTTTTG
1 TTTTATTTTTTTG
5897 TTTTATTTTT
1 TTTTATTTTT
5907 ATTCTTTAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 14 0.61
14 9 0.39
ACGTcount: A:0.11, C:0.00, G:0.05, T:0.84
Consensus pattern (13 bp):
TTTTATTTTTTTG
Found at i:8231 original size:295 final size:295
Alignment explanation
Indices: 7701--8278 Score: 1057
Period size: 295 Copynumber: 2.0 Consensus size: 295
7691 ATAACATCTG
*
7701 CCATCTAGCCATTTTGCATGTTAAAGCCGATGATTACATTAAGAACTTTAAAGGATCAAGTCTAG
1 CCATCTAGCCATTTTGCATGTTAAAGCAGATGATTACATTAAGAACTTTAAAGGATCAAGTCTAG
*
7766 ATATCAGCCAAGTGGTATGATATAACATGTATTGCCTGAGTCTTCGAGTAACCCACACCAAGGTA
66 ATATCAACCAAGTGGTATGATATAACATGTATTGCCTGAGTCTTCGAGTAACCCACACCAAGGTA
7831 CAACATAATTTTTGTATTAGTGGGTATCGAATTTCACAATCAGTAAACTTCTTACTCATATAATA
131 CAACATAATTTTTGTATTAGTGGGTATCGAATTTCACAATCAGTAAACTTCTTACTCATATAATA
* *
7896 AATGGCTTTTTCTTTTCTTCCAAATTCATCATGATGTCCCAATACGCATCCCATCGAATTTTCAA
196 AATGGCTTTTTCTTTTCTTCCAAATTCACCATGATGTCCCAATACACATCCCATCGAATTTTCAA
7961 AGACTGTCACGTAAAGAATTAACCCAGTACGCATC
261 AGACTGTCACGTAAAGAATTAACCCAGTACGCATC
*
7996 CCATCTAGCCATTTTGCATGTTAAAGCAGATGATTCCATTAAGAACTTTAAAGGATCAAGTCTAG
1 CCATCTAGCCATTTTGCATGTTAAAGCAGATGATTACATTAAGAACTTTAAAGGATCAAGTCTAG
* *
8061 ATCTCAACCAAGTGGTATGATATAACATGTATTGTCTGAGTCTTCGAGTAACCCACACCAAGGTA
66 ATATCAACCAAGTGGTATGATATAACATGTATTGCCTGAGTCTTCGAGTAACCCACACCAAGGTA
*
8126 CAACATAATTTTTGTATTGGTGGGTATCGAATTTCACAATCAGTAAACTTCTTACTCATATAATA
131 CAACATAATTTTTGTATTAGTGGGTATCGAATTTCACAATCAGTAAACTTCTTACTCATATAATA
* * *
8191 AATGGCTTTTTCTTTTCTTCCAGATTCACCATGCTGTCCCAGTACACATCCCATCGAATTTTCAA
196 AATGGCTTTTTCTTTTCTTCCAAATTCACCATGATGTCCCAATACACATCCCATCGAATTTTCAA
8256 AGACTGTCACGTAAAGAATTAAC
261 AGACTGTCACGTAAAGAATTAAC
8279 GGTCTATCAG
Statistics
Matches: 272, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
295 272 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (295 bp):
CCATCTAGCCATTTTGCATGTTAAAGCAGATGATTACATTAAGAACTTTAAAGGATCAAGTCTAG
ATATCAACCAAGTGGTATGATATAACATGTATTGCCTGAGTCTTCGAGTAACCCACACCAAGGTA
CAACATAATTTTTGTATTAGTGGGTATCGAATTTCACAATCAGTAAACTTCTTACTCATATAATA
AATGGCTTTTTCTTTTCTTCCAAATTCACCATGATGTCCCAATACACATCCCATCGAATTTTCAA
AGACTGTCACGTAAAGAATTAACCCAGTACGCATC
Found at i:17546 original size:29 final size:29
Alignment explanation
Indices: 17514--17569 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
17504 CCTAAAATTA
17514 ATTTATATAGAATTAAAT-TTATAAATAGG
1 ATTTATATAGAA-TAAATATTATAAATAGG
* **
17543 ATTTTTATTTAATAAATATTATAAATA
1 ATTTATATAGAATAAATATTATAAATA
17570 AATAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
29 18 0.78
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.46
Consensus pattern (29 bp):
ATTTATATAGAATAAATATTATAAATAGG
Found at i:28205 original size:2 final size:2
Alignment explanation
Indices: 28198--28228 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
28188 ATTACAATTA
28198 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
28229 ATTATAATCA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35524 original size:3 final size:3
Alignment explanation
Indices: 35518--35578 Score: 70
Period size: 3 Copynumber: 20.0 Consensus size: 3
35508 ATCAATTTTT
** *
35518 TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TGTA TTA -TA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T-TA
35564 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
35579 AAAAAATAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
2 2 0.04
3 41 0.84
4 6 0.12
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:36802 original size:27 final size:27
Alignment explanation
Indices: 36769--36832 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
36759 TTAATTACTA
*
36769 ATTATTTTTACC-ATAAGTTTTTATTTT
1 ATTATTTTTACCTAT-AGTTTTAATTTT
* *
36796 ATTATTTGTACCTATCGTTTTAATTTT
1 ATTATTTTTACCTATAGTTTTAATTTT
36823 ATTGATTTTT
1 ATT-ATTTTT
36833 GTCATTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (27 bp):
ATTATTTTTACCTATAGTTTTAATTTT
Found at i:36883 original size:15 final size:14
Alignment explanation
Indices: 36844--36891 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
36834 TCATTGTTTA
36844 TTTATAT-TTTAAT
1 TTTATATATTTAAT
* *
36857 TTTATATGTTTATT
1 TTTATATATTTAAT
36871 TTTAATATATTTAAT
1 TTT-ATATATTTAAT
36886 TATTAT
1 T-TTAT
36892 TACTATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 12 0.41
16 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATATATTTAAT
Found at i:36993 original size:15 final size:16
Alignment explanation
Indices: 36966--36996 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
36956 TTCTATTAAT
36966 TATAAATTTAATTTTA
1 TATAAATTTAATTTTA
36982 TATAAA-TTAATTTTA
1 TATAAATTTAATTTTA
36997 AGAAAAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAAATTTAATTTTA
Found at i:43033 original size:16 final size:16
Alignment explanation
Indices: 43014--43066 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
43004 AAAAAAAGAT
43014 GAAAAAGGAAAAATGA
1 GAAAAAGGAAAAATGA
*
43030 GAAAAAAGAAAAA-GAA
1 GAAAAAGGAAAAATG-A
*
43046 AAAAAAGGAAAAATGGA
1 GAAAAAGGAAAAAT-GA
43063 GAAA
1 GAAA
43067 TTGAATCAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
15 1 0.03
16 24 0.80
17 4 0.13
18 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.04
Consensus pattern (16 bp):
GAAAAAGGAAAAATGA
Found at i:43051 original size:32 final size:32
Alignment explanation
Indices: 42998--43066 Score: 95
Period size: 32 Copynumber: 2.2 Consensus size: 32
42988 CAAAGAAAGA
* **
42998 AGAAGAAAAAAAAGATGAAAAAGGAAAAAT-G
1 AGAAAAAAAAAAAGAAAAAAAAGGAAAAATGG
43029 AGAAAAAAGAAAAAGAAAAAAAAGGAAAAATGG
1 AGAAAAAA-AAAAAGAAAAAAAAGGAAAAATGG
43062 AGAAA
1 AGAAA
43067 TTGAATCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 7 0.21
32 20 0.61
33 6 0.18
ACGTcount: A:0.74, C:0.00, G:0.22, T:0.04
Consensus pattern (32 bp):
AGAAAAAAAAAAAGAAAAAAAAGGAAAAATGG
Found at i:45410 original size:114 final size:114
Alignment explanation
Indices: 45210--45429 Score: 368
Period size: 114 Copynumber: 1.9 Consensus size: 114
45200 CACGTTCTCG
* *
45210 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGATTT
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* * *
45275 GGTATGAACCCCAAAATCAATCATTAGATTTGAAAGATGAATTTGCTCA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
*
45324 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTC
1 TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
* *
45389 GGTAGGAACCCCAGAACCAATCATTGGAATTGAAAGATGAA
66 GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAA
45430 CTGCATGATA
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
114 98 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (114 bp):
TAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTC
GGTAGGAACCCCAAAACCAATCATTAGAATTGAAAGATGAATTTGCTCA
Found at i:48834 original size:165 final size:165
Alignment explanation
Indices: 48521--48847 Score: 557
Period size: 165 Copynumber: 2.0 Consensus size: 165
48511 CACAAGAATG
*
48521 AGCATTATCTTGAGATTGGGTCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
**
48586 CGATTTCCATAGTTTCTCATTTTATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
66 CGATTTCCATAGTTTCTCATTCAATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
* * * *
48651 TTCTTAGTTTTTTTACTTAGTAAACTATTTCCAAC
131 TCCATAGTTATCTTACTTAGTAAACTATTTCCAAC
*
48686 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTTGAAAAATAATGAGAAAA
1 AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
*
48751 CGATTTTCATAGTTTCTCATTCAATCTTTTCTGAAAATGAAATTGTTGAAAAGTAAGAAAACGAT
66 CGATTTCCATAGTTTCTCATTCAATCTTTTC-GAAAATGAAATTGTTGAAAAGTAAGAAAACGAT
48816 TTCCATAG-TATCTTACTTAGTAAACTATTTCC
130 TTCCATAGTTATCTTACTTAGTAAACTATTTCC
48848 CACATCCATA
Statistics
Matches: 152, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
165 113 0.74
166 39 0.26
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (165 bp):
AGCATTATCTTGAGATTGGGGCATGTTACCCAATCAACATGATATTTTGAAAAATAATGAGAAAA
CGATTTCCATAGTTTCTCATTCAATCTTTTCGAAAATGAAATTGTTGAAAAGTAAGAAAACGATT
TCCATAGTTATCTTACTTAGTAAACTATTTCCAAC
Found at i:48974 original size:37 final size:35
Alignment explanation
Indices: 48886--49091 Score: 151
Period size: 37 Copynumber: 5.7 Consensus size: 35
48876 GTTTTCACAT
** **
48886 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAATTTATCTCACTTGAGACAGTTTCACTTAAAAC
* * **
48921 AAATTTGTCTCGCTTGAGACAGTTTCACTCGAAAC
1 AAATTTATCTCACTTGAGACAGTTTCACTTAAAAC
** **
48956 AGAACTTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 A-AA-TTTATCTCACTTGAGACAGTTTCACTTAAAAC
* * * *
48993 AAATTTTGTCTCGCTTGAGACAATTTCACTTGAAACAA
1 AAA-TTTATCTCACTTGAGACAGTTTCACTT-AAA-AC
** **
49031 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC
1 AAATTTATCTCACTTGAGACAGTTTCACTTAAAAC
* *
49066 AAAGATTTGTCTCGCTTGAGACAGTT
1 -AA-ATTTATCTCACTTGAGACAGTT
49092 ATTTCGAGTT
Statistics
Matches: 128, Mismatches: 37, Indels: 10
0.73 0.21 0.06
Matches are distributed among these distances:
35 29 0.23
36 29 0.23
37 66 0.52
38 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (35 bp):
AAATTTATCTCACTTGAGACAGTTTCACTTAAAAC
Found at i:49040 original size:73 final size:72
Alignment explanation
Indices: 48886--49088 Score: 343
Period size: 73 Copynumber: 2.8 Consensus size: 72
48876 GTTTTCACAT
*
48886 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAGTTTCACTC
1 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAATTTCACTC
*
48951 GAAACAG
66 GAAACAA
*
48958 AACTTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTTGTCTCGCTTGAGACAATTTCACT
1 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAA-TTTGTCTCGCTTGAGACAATTTCACT
*
49023 TGAAACAA
65 CGAAACAA
49031 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAAGATTTGTCTCGCTTGAGACA
1 AAATTTATCTCACTTGAGATTGTTTTTCTTAAAAC-AA-ATTTGTCTCGCTTGAGACA
49089 GTTATTTCGA
Statistics
Matches: 123, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
72 37 0.30
73 65 0.53
74 20 0.16
75 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (72 bp):
AAATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAATTTGTCTCGCTTGAGACAATTTCACTC
GAAACAA
Found at i:49508 original size:3 final size:3
Alignment explanation
Indices: 49497--49570 Score: 71
Period size: 3 Copynumber: 24.0 Consensus size: 3
49487 TTTTTATTTT
** *
49497 TTA TT- TTA TTA TTA TTA TTA AAA TTA TCA TTA TTA TTA TGTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA
49542 -TA TATA TATA TATA TTA TTA TTA TTA TTA
1 TTA T-TA T-TA T-TA TTA TTA TTA TTA TTA
49571 AAAAAATAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
2 4 0.07
3 43 0.70
4 14 0.23
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (3 bp):
TTA
Found at i:50805 original size:27 final size:27
Alignment explanation
Indices: 50772--50835 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
50762 TTAATTACTA
*
50772 ATTATTTTTACC-ATAAGTTTTTATTTT
1 ATTATTTTTACCTAT-AGTTTTAATTTT
* *
50799 ATTATTTGTACCTATCGTTTTAATTTT
1 ATTATTTTTACCTATAGTTTTAATTTT
50826 ATTGATTTTT
1 ATT-ATTTTT
50836 GTCATTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 24 0.77
28 7 0.23
ACGTcount: A:0.23, C:0.08, G:0.06, T:0.62
Consensus pattern (27 bp):
ATTATTTTTACCTATAGTTTTAATTTT
Found at i:50886 original size:15 final size:14
Alignment explanation
Indices: 50847--50894 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
50837 TCATTGTTTA
50847 TTTATAT-TTTAAT
1 TTTATATATTTAAT
* *
50860 TTTATATGTTTATT
1 TTTATATATTTAAT
50874 TTTAATATATTTAAT
1 TTT-ATATATTTAAT
50889 TATTAT
1 T-TTAT
50895 TACTATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 7 0.24
14 8 0.28
15 12 0.41
16 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (14 bp):
TTTATATATTTAAT
Found at i:52081 original size:2 final size:2
Alignment explanation
Indices: 52074--52106 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52064 ATTTTGTAAA
52074 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
52107 AATTTTATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:52325 original size:20 final size:20
Alignment explanation
Indices: 52300--52358 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
52290 ATCTTATTCT
*
52300 CTGATAATCTTACATTCCGA
1 CTGATAATCTCACATTCCGA
52320 CTGATAATCTCACATTCCGA
1 CTGATAATCTCACATTCCGA
*
52340 CCGATAATCTCACATTCCG
1 CTGATAATCTCACATTCCG
52359 TGAATTAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (20 bp):
CTGATAATCTCACATTCCGA
Found at i:53019 original size:46 final size:46
Alignment explanation
Indices: 52836--53021 Score: 282
Period size: 46 Copynumber: 4.0 Consensus size: 46
52826 ATGAGAGAAT
* *
52836 AATGGAGACTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAC
1 AATGGAGGCTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAA
* * * **
52882 AATGGAAGCTGAGGGTTTAATATACCTTAAAGATGATGATCGGATC
1 AATGGAGGCTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAA
* *
52928 AACGGAGTCTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAA
1 AATGGAGGCTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAA
*
52974 AATGGAGGCTGAGGGTTTAATATAGCTTAGAGGTGATGATCGGAAA
1 AATGGAGGCTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAA
53020 AA
1 AA
53022 CGTGGTAACA
Statistics
Matches: 125, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.35, C:0.09, G:0.30, T:0.26
Consensus pattern (46 bp):
AATGGAGGCTGAGGGTTTAATATAGCTTAGAGATGATGATCGGAAA
Found at i:54278 original size:3 final size:3
Alignment explanation
Indices: 54270--54299 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
54260 TTGCACAATC
54270 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
54300 GATGATGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:56500 original size:23 final size:23
Alignment explanation
Indices: 56474--56522 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
56464 TGTTTAATGC
* *
56474 TCACGGATGTGTTCATTTAGCAT
1 TCACGAATATGTTCATTTAGCAT
*
56497 TCACGAATATGTTCGTTTAGCAT
1 TCACGAATATGTTCATTTAGCAT
56520 TCA
1 TCA
56523 TTTAATTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (23 bp):
TCACGAATATGTTCATTTAGCAT
Found at i:64736 original size:2 final size:2
Alignment explanation
Indices: 64719--64761 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
64709 AAGAAACTCT
64719 TA TA T- TA TA TA T- TA TA TA T- TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64758 TA TA
1 TA TA
64762 ACATATTAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
1 3 0.08
2 35 0.92
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:64738 original size:14 final size:15
Alignment explanation
Indices: 64719--64761 Score: 72
Period size: 14 Copynumber: 3.0 Consensus size: 15
64709 AAGAAACTCT
64719 TATATTATATAT-TA
1 TATATTATATATATA
64733 TATATTATATATATA
1 TATATTATATATATA
64748 TATA-TATATATATA
1 TATATTATATATATA
64762 ACATATTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 22 0.79
15 6 0.21
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATTATATATATA
Found at i:65712 original size:48 final size:50
Alignment explanation
Indices: 65614--65726 Score: 185
Period size: 48 Copynumber: 2.3 Consensus size: 50
65604 ATTTTTCTAC
* *
65614 AAGTATCGATACTATCGAATTTAAAAAAAATGGAAAATGAGAATAATGCA
1 AAGTATCGATACTTTCGAATTTAAAAAAAATGGAAAATGAGAAGAATGCA
*
65664 AAGTATCGATACTTTCGAA-TT-AAAAAAATGGAAAATGAGAAGACTGCA
1 AAGTATCGATACTTTCGAATTTAAAAAAAATGGAAAATGAGAAGAATGCA
65712 AAGTATCGATACTTT
1 AAGTATCGATACTTT
65727 TACAAAAATA
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 40 0.67
49 2 0.03
50 18 0.30
ACGTcount: A:0.48, C:0.10, G:0.17, T:0.26
Consensus pattern (50 bp):
AAGTATCGATACTTTCGAATTTAAAAAAAATGGAAAATGAGAAGAATGCA
Found at i:65794 original size:68 final size:68
Alignment explanation
Indices: 65667--65795 Score: 206
Period size: 68 Copynumber: 1.9 Consensus size: 68
65657 TAATGCAAAG
* * *
65667 TATCGATACTTTCGAATTAAAAAAATGGAAAATGAGAAGACTGCAAAGTATCGATACTTTTACAA
1 TATCGATACATTCGAATTAAAAAAATAGAAAATGAGAAGACTGCAAAGTATCGAAACTTTTACAA
65732 AAA
66 AAA
*
65735 TATCGATACATTCGAATTAAAAAACATAGAAAATGAGAAGGCTGCAAAGTATC-AAACTTTT
1 TATCGATACATTCGAATTAAAAAA-ATAGAAAATGAGAAGACTGCAAAGTATCGAAACTTTT
65796 CCGCAAAGTA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
68 30 0.54
69 26 0.46
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.26
Consensus pattern (68 bp):
TATCGATACATTCGAATTAAAAAAATAGAAAATGAGAAGACTGCAAAGTATCGAAACTTTTACAA
AAA
Found at i:65808 original size:69 final size:69
Alignment explanation
Indices: 65661--65812 Score: 218
Period size: 69 Copynumber: 2.2 Consensus size: 69
65651 TGAGAATAAT
* * *
65661 GCAAAGTATCGATACTTTCGAATTAAAAAAATGGAAAATGAGAAGACTGCAAAGTATCGATACTT
1 GCAAAGTATCGATACATTCGAATTAAAAAAATAGAAAATGAGAAGACTGCAAAGTATCGAAACTT
65726 TTAC
66 TTAC
* * *
65730 -AAAAATATCGATACATTCGAATTAAAAAACATAGAAAATGAGAAGGCTGCAAAGTATC-AAACT
1 GCAAAGTATCGATACATTCGAATTAAAAAA-ATAGAAAATGAGAAGACTGCAAAGTATCGAAACT
*
65793 TTTCC
65 TTTAC
65798 GCAAAGTATCGATAC
1 GCAAAGTATCGATAC
65813 TTCCGAGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
68 34 0.47
69 38 0.53
ACGTcount: A:0.45, C:0.14, G:0.16, T:0.24
Consensus pattern (69 bp):
GCAAAGTATCGATACATTCGAATTAAAAAAATAGAAAATGAGAAGACTGCAAAGTATCGAAACTT
TTAC
Found at i:65962 original size:20 final size:19
Alignment explanation
Indices: 65913--65965 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
65903 TTGTTATTTT
*
65913 TAACAAGTTTCTATCATCA
1 TAACAAGTTTCGATCATCA
*
65932 TAACAAGTTTCGATCCTCA
1 TAACAAGTTTCGATCATCA
65951 TAACAGAGTTTCGAT
1 TAACA-AGTTTCGAT
65966 ACTCTGTATT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 22 0.71
20 9 0.29
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (19 bp):
TAACAAGTTTCGATCATCA
Found at i:66109 original size:54 final size:54
Alignment explanation
Indices: 66041--66501 Score: 444
Period size: 54 Copynumber: 8.4 Consensus size: 54
66031 CATTCTTGAA
*
66041 TAACGTTATA-GGTTGTGCCTTGTTATTTTTAACTGGTTACCTTATAAGTAGGAG
1 TAACGTT-TACGGTTGTGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
* * * *
66095 TAACGTTTACGGTTGTGTCTTGTTTTGTTTTTTTACCGATTACCTTATAAGTAGGAG
1 TAACGTTTACGGTTGTGCCTTG--TT-ATTTTTAACCGGTTACCTTATAAGTAGGAG
* **** * * * * *
66152 TAACGTTAACGGTTGCAATTTTTTATTTTCAACCGATTATCTTATAAGTAGAAG
1 TAACGTTTACGGTTGTGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
* * * * * *
66206 TAAAGTTTATGGTTGTGCCTTGTGTTTTATTTAACCAGTAACCTTATAAGTAAGAG
1 TAACGTTTACGGTTGTGCCTTGT-TATT-TTTAACCGGTTACCTTATAAGTAGGAG
* ** *
66262 TAACGTTGACGGTTGCACCTTGTTATTTTTAACCGGTTACTTTATAAGTAGGAG
1 TAACGTTTACGGTTGTGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
* ** * * * *
66316 TAACGTTAACGGTTACGGCTTGTTATTTTTAACTGGTTACCTTATAAGAATGAG
1 TAACGTTTACGGTTGTGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
* * * *
66370 TAACGTTAACGGTTGCT-CATTGTTATTTTTAACCTGTCACCTTATAAGTAGGAG
1 TAACGTTTACGGTTG-TGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
* * * *
66424 TAAC-TTTAACGGTTGCGCCTTGTTATTTTCAATCGGTAACCTTATAAGTAGGAG
1 TAACGTTT-ACGGTTGTGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
*
66478 TAACG-TTATCGGTTGTGCTTTGTT
1 TAACGTTTA-CGGTTGTGCCTTGTT
66502 TTGTTTTTTT
Statistics
Matches: 328, Mismatches: 68, Indels: 22
0.78 0.16 0.05
Matches are distributed among these distances:
53 5 0.02
54 233 0.71
55 8 0.02
56 40 0.12
57 42 0.13
ACGTcount: A:0.25, C:0.13, G:0.20, T:0.41
Consensus pattern (54 bp):
TAACGTTTACGGTTGTGCCTTGTTATTTTTAACCGGTTACCTTATAAGTAGGAG
Found at i:66448 original size:162 final size:161
Alignment explanation
Indices: 66051--66491 Score: 474
Period size: 164 Copynumber: 2.7 Consensus size: 161
66041 TAACGTTATA
* * * *
66051 GGTTGTGCCTTGTTATTTTTAA-CTGGTTACCTTATAAGTAGGAGTAACGTTTACGGTTGTGTCT
1 GGTTGTGCATTGTTATTTTTAACCT-GTAACCTTATAAGTAGGAGTAAC-TTTACGGTTGCGCCT
* * * * * *
66115 TGTTTTGTTTTTTTACCGATTACCTTATAAGTAGGAGTAACGTTAACGGTTGCAATTTTTTATTT
64 TG--TT-ATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTACAACTTGTTATTT
* * * *
66180 TCAACCGATTATCTTATAAGTAGAAGTAAAGTTTAT
126 TCAACCGATTACCTTATAAGAAGAAGTAAAGTTAAC
* * * * * *
66216 GGTTGTGCCTTGTGTTTTATTTAACCAGTAACCTTATAAGTAAGAGTAACGTTGACGGTTGCACC
1 GGTTGTGCATTGT-TATT-TTTAACCTGTAACCTTATAAGTAGGAGTAAC-TTTACGGTTGCGCC
* ** *
66281 TTGTTATTTTTAACCGGTTACTTTATAAGTAGGAGTAACGTTAACGGTTACGGCTTGTTATTTTT
63 TTGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTACAACTTGTTATTTTC
* * *
66346 AACTGGTTACCTTATAAGAATG-AGTAACGTTAAC
128 AACCGATTACCTTATAAGAA-GAAGTAAAGTTAAC
*
66380 GGTTGCT-CATTGTTATTTTTAACCTGTCACCTTATAAGTAGGAGTAACTTTAACGGTTGCGCCT
1 GGTTG-TGCATTGTTATTTTTAACCTGTAACCTTATAAGTAGGAGTAACTTT-ACGGTTGCGCCT
* * * *
66444 TGTTATTTTCAATCGGTAACCTTATAAGTAGGAGTAACGTTATCGGTT
64 TGTTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTT
66492 GTGCTTTGTT
Statistics
Matches: 233, Mismatches: 37, Indels: 15
0.82 0.13 0.05
Matches are distributed among these distances:
161 2 0.01
162 82 0.35
163 3 0.01
164 85 0.36
165 17 0.07
166 3 0.01
167 40 0.17
168 1 0.00
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (161 bp):
GGTTGTGCATTGTTATTTTTAACCTGTAACCTTATAAGTAGGAGTAACTTTACGGTTGCGCCTTG
TTATTTTTAACCGGTTACCTTATAAGTAGGAGTAACGTTAACGGTTACAACTTGTTATTTTCAAC
CGATTACCTTATAAGAAGAAGTAAAGTTAAC
Found at i:66846 original size:49 final size:49
Alignment explanation
Indices: 66790--66887 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
66780 GCACAACCGA
66790 ATATATTGTAGAGAATCTATATTACATTATAAGTAATTAACTTATTTTG
1 ATATATTGTAGAGAATCTATATTACATTATAAGTAATTAACTTATTTTG
*
66839 ATATATTGTAGAGAATTTATATTACATTATAAGTAATTAACTTATTTTG
1 ATATATTGTAGAGAATCTATATTACATTATAAGTAATTAACTTATTTTG
66888 TTATCGTGAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (49 bp):
ATATATTGTAGAGAATCTATATTACATTATAAGTAATTAACTTATTTTG
Found at i:67068 original size:108 final size:109
Alignment explanation
Indices: 66867--67079 Score: 277
Period size: 108 Copynumber: 2.0 Consensus size: 109
66857 ATATTACATT
* * *
66867 ATAAGTAATTAACTTATTTTGTTATCGTGAGATTGTCTAAGGCCCCATCAACTTAAACTTTAGTA
1 ATAAGTAATTAACTTATTTTATTATCATGAGATTGTATAAGGCCCCATCAACTTAAACTTTAGTA
* *
66932 ACATTTTAGGCGCAACCTAATATCTTAATAATATTTATAACAAA
66 ACATTTTAGGCACAACCGAATATCTTAATAATATTTATAACAAA
* * * * * *
66976 ATAAGTAATTAACTTATTTTATTATCATGATATT-TATATGGTCTCATCATCTTAAACTTTGGTA
1 ATAAGTAATTAACTTATTTTATTATCATGAGATTGTATAAGGCCCCATCAACTTAAACTTTAGTA
* * *
67040 ACATTTTAGGCATAATCG-ATAATGTTAATAATATTTATAA
66 ACATTTTAGGCACAACCGAAT-ATCTTAATAATATTTATAA
67080 TTGTCGGAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
107 2 0.02
108 56 0.63
109 31 0.35
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.40
Consensus pattern (109 bp):
ATAAGTAATTAACTTATTTTATTATCATGAGATTGTATAAGGCCCCATCAACTTAAACTTTAGTA
ACATTTTAGGCACAACCGAATATCTTAATAATATTTATAACAAA
Found at i:67958 original size:2 final size:2
Alignment explanation
Indices: 67951--67977 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
67941 CGTATGCTAA
67951 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
67978 AGGGAATAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:70501 original size:24 final size:23
Alignment explanation
Indices: 70474--70548 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 23
70464 ACCCACCTTA
70474 TTTTCTTTTCTTTTTCTTTTGTTT
1 TTTTCTTTTCTTTTTCTTTT-TTT
* *
70498 TTTTC-TCTCTTTTTTCTCTCTTTT
1 TTTTCTTTTC-TTTTTCT-TTTTTT
* *
70522 TTCTCTTTTCCTTTTCTTTTTTT
1 TTTTCTTTTCTTTTTCTTTTTTT
70545 TTTT
1 TTTT
70549 AATTTAGGGT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
23 11 0.27
24 25 0.61
25 5 0.12
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTCTTTTTTT
Found at i:70547 original size:11 final size:11
Alignment explanation
Indices: 70474--70547 Score: 58
Period size: 11 Copynumber: 6.4 Consensus size: 11
70464 ACCCACCTTA
*
70474 TTTTCTTTTCT
1 TTTTCTTTTTT
70485 TTTTCTTTTGTTT
1 TTTTC-TTT-TTT
70498 TTTTCTCTCTTTT
1 TTTTCT-T-TTTT
* *
70511 TTCTCTCTTTT
1 TTTTCTTTTTT
* **
70522 TTCTCTTTTCC
1 TTTTCTTTTTT
70533 TTTTCTTTTTT
1 TTTTCTTTTTT
70544 TTTT
1 TTTT
70548 TAATTTAGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
11 29 0.58
12 4 0.08
13 16 0.32
14 1 0.02
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:70650 original size:78 final size:75
Alignment explanation
Indices: 70518--70659 Score: 178
Period size: 78 Copynumber: 1.9 Consensus size: 75
70508 TTTTTCTCTC
* ** *
70518 TTTTTTCTCTTTTCCTTTTCTTTTTTTTTTTAATTTAGGGTGCCCTTTCAGGTTTTCACCCTAAA
1 TTTTTTCTCTTTTCCTTTTCTTTTTTTTTTTAACTTAGGACGCCCTCTCAGGTTTTCACCCTAAA
70583 CGATTTTTAT
66 CGATTTTTAT
* * *
70593 TTTTTTC-CTTTTTCTTCTTCTTTTTCTTTTTTCCAACTTAGGACGCCCTCTCGGGTTTTCATCC
1 TTTTTTCTCTTTTCCTT-TTCTTTTT-TTTTTT--AACTTAGGACGCCCTCTCAGGTTTTCACCC
70657 TAA
62 TAA
70660 GCGAAGTACT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
74 8 0.14
75 15 0.27
76 6 0.11
78 27 0.48
ACGTcount: A:0.12, C:0.23, G:0.09, T:0.56
Consensus pattern (75 bp):
TTTTTTCTCTTTTCCTTTTCTTTTTTTTTTTAACTTAGGACGCCCTCTCAGGTTTTCACCCTAAA
CGATTTTTAT
Found at i:84916 original size:3 final size:3
Alignment explanation
Indices: 84908--84972 Score: 121
Period size: 3 Copynumber: 21.3 Consensus size: 3
84898 GGATTGAAAT
84908 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
84954 TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
84973 GTCATGTCAT
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 58 0.95
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:99305 original size:12 final size:12
Alignment explanation
Indices: 99288--99346 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
99278 AAAAAAATTA
99288 ATTAAATAAAAT
1 ATTAAATAAAAT
*
99300 ATTAAAAAAAAT
1 ATTAAATAAAAT
99312 ACTTAAAT-AAAT
1 A-TTAAATAAAAT
*
99324 -TAAAAT-AAAT
1 ATTAAATAAAAT
*
99334 ATTAAATATAAT
1 ATTAAATAAAAT
99346 A
1 A
99347 AAATATATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
10 9 0.23
11 5 0.13
12 20 0.51
13 5 0.13
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTAAATAAAAT
Found at i:99325 original size:22 final size:22
Alignment explanation
Indices: 99300--99349 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
99290 TAAATAAAAT
99300 ATTAAAAAAAATACTTAAATA-A
1 ATTAAAAAAAATA-TTAAATATA
*
99322 ATTAAAATAAATATTAAATATA
1 ATTAAAAAAAATATTAAATATA
99344 A-TAAAA
1 ATTAAAA
99350 TATATCTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (22 bp):
ATTAAAAAAAATATTAAATATA
Found at i:99328 original size:21 final size:21
Alignment explanation
Indices: 99294--99360 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
99284 ATTAATTAAA
* *
99294 TAAA-ATATTAAAAAAAATACT
1 TAAATATAATAAAATAAATA-T
99315 TAAATA-AATTAAAATAAATAT
1 TAAATATAA-TAAAATAAATAT
* *
99336 TAAATATAATAAAATATATCT
1 TAAATATAATAAAATAAATAT
99357 TAAA
1 TAAA
99361 CAGTTAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 26 0.67
22 13 0.33
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
TAAATATAATAAAATAAATAT
Found at i:101286 original size:28 final size:28
Alignment explanation
Indices: 101254--101370 Score: 191
Period size: 28 Copynumber: 4.1 Consensus size: 28
101244 TTTCATATGT
101254 TCATGTA-CTCATGTCATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTC-TGTGA
*
101282 TCATGTAGTTCATGTCATTTCTCTGTGA
1 TCATGTAGCTCATGTCATTTCTCTGTGA
101310 TCATGTAGCTCATGTCATTTCTCTGTGA
1 TCATGTAGCTCATGTCATTTCTCTGTGA
*
101338 TCATGTAGCTCATGTTATTTCTCTTGTGA
1 TCATGTAGCTCATGTCATTTCTC-TGTGA
101367 TCAT
1 TCAT
101371 CATGTTCTCA
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
28 61 0.73
29 23 0.27
ACGTcount: A:0.18, C:0.20, G:0.16, T:0.46
Consensus pattern (28 bp):
TCATGTAGCTCATGTCATTTCTCTGTGA
Found at i:102275 original size:18 final size:18
Alignment explanation
Indices: 102252--102306 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
102242 TTCGATAATA
102252 AAATTAAAATTTTATCAC
1 AAATTAAAATTTTATCAC
* *
102270 AAATT-AGA--TAAT-A-
1 AAATTAAAATTTTATCAC
102283 AAATTAAAATTTTATCAC
1 AAATTAAAATTTTATCAC
102301 AAATTA
1 AAATTA
102307 GATAATAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 10
0.67 0.10 0.24
Matches are distributed among these distances:
13 5 0.18
14 3 0.11
15 3 0.11
16 3 0.11
17 3 0.11
18 11 0.39
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (18 bp):
AAATTAAAATTTTATCAC
Found at i:102280 original size:31 final size:31
Alignment explanation
Indices: 102245--102326 Score: 164
Period size: 31 Copynumber: 2.6 Consensus size: 31
102235 AAAAATATTC
102245 GATAATAAAATTAAAATTTTATCACAAATTA
1 GATAATAAAATTAAAATTTTATCACAAATTA
102276 GATAATAAAATTAAAATTTTATCACAAATTA
1 GATAATAAAATTAAAATTTTATCACAAATTA
102307 GATAATAAAATTAAAATTTT
1 GATAATAAAATTAAAATTTT
102327 TGATAAAAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 51 1.00
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.37
Consensus pattern (31 bp):
GATAATAAAATTAAAATTTTATCACAAATTA
Found at i:131300 original size:74 final size:72
Alignment explanation
Indices: 131178--131320 Score: 180
Period size: 74 Copynumber: 2.0 Consensus size: 72
131168 CTTAATAACT
* *
131178 CGGTATCTAGCCAATGTAAAATTTGAATCTCAACATCTGAACCATATTCTTACTTTAAAAAAACA
1 CGGTATCAAGCCAATGTAAAATTCGAATCTCAACATCTGAACCATATTCTTA-TTTAAAAAAAC-
131243 TCGAAATAC
64 TCGAAATAC
* * * * * *
131252 CGGTATCAAGCGAGTGTAAAGTTCGAATTTCAACATTTGAAACC-TATTCTTATTTAAAAAATCT
1 CGGTATCAAGCCAATGTAAAATTCGAATCTCAACATCTG-AACCATATTCTTATTTAAAAAAACT
131316 CGAAA
65 CGAAA
131321 CCCGAACCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
72 6 0.10
73 10 0.17
74 40 0.67
75 4 0.07
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (72 bp):
CGGTATCAAGCCAATGTAAAATTCGAATCTCAACATCTGAACCATATTCTTATTTAAAAAAACTC
GAAATAC
Found at i:132328 original size:31 final size:31
Alignment explanation
Indices: 132290--132371 Score: 128
Period size: 31 Copynumber: 2.6 Consensus size: 31
132280 TGCTGTTAAG
* *
132290 AGTGGGAGTTGTGCATGTGGCCCTGGCTGAC
1 AGTGGGAGCTCTGCATGTGGCCCTGGCTGAC
* *
132321 AGTGGGAGCTCTGTATGTGGCCCTGGCTGAT
1 AGTGGGAGCTCTGCATGTGGCCCTGGCTGAC
132352 AGTGGGAGCTCTGCATGTGG
1 AGTGGGAGCTCTGCATGTGG
132372 GGCTCAACGT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.13, C:0.18, G:0.41, T:0.27
Consensus pattern (31 bp):
AGTGGGAGCTCTGCATGTGGCCCTGGCTGAC
Found at i:132515 original size:32 final size:32
Alignment explanation
Indices: 132479--132592 Score: 192
Period size: 32 Copynumber: 3.6 Consensus size: 32
132469 ATTAGAGGAA
* *
132479 TACTCGGCGTCTTCTTCACATTTGGGGTGGAG
1 TACTCGGCGTCTTCTTCACTTTTCGGGTGGAG
*
132511 TACTCGGCGTATTCTTCACTTTTCGGGTGGAG
1 TACTCGGCGTCTTCTTCACTTTTCGGGTGGAG
132543 TACTCGGCGTCTTCTTCACTTTTCGGGTGGAG
1 TACTCGGCGTCTTCTTCACTTTTCGGGTGGAG
*
132575 TACTCGGTGTCTTCTTCA
1 TACTCGGCGTCTTCTTCA
132593 TGGAAGGGGG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 77 1.00
ACGTcount: A:0.11, C:0.24, G:0.27, T:0.38
Consensus pattern (32 bp):
TACTCGGCGTCTTCTTCACTTTTCGGGTGGAG
Found at i:134238 original size:14 final size:14
Alignment explanation
Indices: 134221--134563 Score: 134
Period size: 14 Copynumber: 25.0 Consensus size: 14
134211 GGGCGTGGTT
* *
134221 ATTATTATTAAATT
1 ATTATAATTAAATA
*
134235 ATTA-AAGTTAAATT
1 ATTATAA-TTAAATA
134249 ATTA-AAGTTAAATA
1 ATTATAA-TTAAATA
134263 ATTA-AAGTTAAAT-
1 ATTATAA-TTAAATA
* *
134276 ATTATTATTAAATC
1 ATTATAATTAAATA
* *
134290 ATTAAAATTAAATC
1 ATTATAATTAAATA
134304 ATTA-AAGTTAAATA
1 ATTATAA-TTAAATA
* *
134318 ATTATTATTAAATC
1 ATTATAATTAAATA
*
134332 ATTA-AAGTTAAGTA
1 ATTATAA-TTAAATA
* * *
134346 ATGATTATTAAATT
1 ATTATAATTAAATA
*
134360 ATT-TAATTTAAATC
1 ATTATAA-TTAAATA
134374 ATTA-AAGTTAAATA
1 ATTATAA-TTAAATA
*
134388 A-T-T-ATT-ACTA
1 ATTATAATTAAATA
*
134398 A--ATAGTTAAATA
1 ATTATAATTAAATA
* * *
134410 TTTATTATTAAATC
1 ATTATAATTAAATA
*
134424 ATTA-AAGTTAAGTA
1 ATTATAA-TTAAATA
* * *
134438 ATGATTATTAAATT
1 ATTATAATTAAATA
* *
134452 GTT-TAATTTAAATC
1 ATTATAA-TTAAATA
134466 ATTA-AAGTTAAATA
1 ATTATAA-TTAAATA
* *
134480 ATTATTATTAAATC
1 ATTATAATTAAATA
134494 ATTA-AAGTTAAATA
1 ATTATAA-TTAAATA
*
134508 ATTATTATTAAAT-
1 ATTATAATTAAATA
* *
134521 -TTTTAATTTTAAATC
1 ATTATAA--TTAAATA
134536 ATTA-AATATAAATA
1 ATTATAAT-TAAATA
*
134550 ATTATTATTAAATA
1 ATTATAATTAAATA
134564 TATACTCGAG
Statistics
Matches: 249, Mismatches: 52, Indels: 56
0.70 0.15 0.16
Matches are distributed among these distances:
10 5 0.02
11 4 0.02
12 8 0.03
13 22 0.09
14 199 0.80
15 9 0.04
16 2 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (14 bp):
ATTATAATTAAATA
Found at i:134259 original size:28 final size:28
Alignment explanation
Indices: 134228--134511 Score: 153
Period size: 28 Copynumber: 10.4 Consensus size: 28
134218 GTTATTATTA
*
134228 TTAAATTATTAAAGTTAAATTATTAAAG
1 TTAAATAATTAAAGTTAAATTATTAAAG
*
134256 TTAAATAATTAAAGTTAAA-TATTATTA-
1 TTAAATAATTAAAGTTAAATTATTA-AAG
* * *
134283 TTAAATCATTAAAATTAAATCATTAAAG
1 TTAAATAATTAAAGTTAAATTATTAAAG
* *
134311 TTAAATAATTATTA-TTAAATCATTAAAG
1 TTAAATAATTA-AAGTTAAATTATTAAAG
* * * * *
134339 TTAAGTAATGATTA-TTAAATTATTTAAT
1 TTAAATAATTA-AAGTTAAATTATTAAAG
* * *
134367 TTAAATCATTAAAGTTAAATAATTATTA-
1 TTAAATAATTAAAGTTAAATTATTA-AAG
* * *
134395 CTAAATAGTTAAA--T-ATTTATT--A-
1 TTAAATAATTAAAGTTAAATTATTAAAG
* * * * *
134417 TTAAATCATTAAAGTTAAGTAATGATTA-
1 TTAAATAATTAAAGTTAAATTATTA-AAG
** * * *
134445 TTAAATTGTTTAATTTAAATCATTAAAG
1 TTAAATAATTAAAGTTAAATTATTAAAG
* *
134473 TTAAATAATTATTA-TTAAATCATTAAAG
1 TTAAATAATTA-AAGTTAAATTATTAAAG
134501 TTAAATAATTA
1 TTAAATAATTA
134512 TTATTAAATT
Statistics
Matches: 199, Mismatches: 43, Indels: 28
0.74 0.16 0.10
Matches are distributed among these distances:
22 11 0.06
24 1 0.01
25 9 0.05
26 1 0.01
27 25 0.13
28 149 0.75
29 3 0.02
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (28 bp):
TTAAATAATTAAAGTTAAATTATTAAAG
Found at i:134275 original size:42 final size:42
Alignment explanation
Indices: 134228--134483 Score: 211
Period size: 42 Copynumber: 5.9 Consensus size: 42
134218 GTTATTATTA
*
134228 TTAAATTATTA-AAGTTAAATTATTAAAGTTAAATAATTAAAG
1 TTAAATTATTATAA-TTAAATCATTAAAGTTAAATAATTAAAG
* * *
134270 TTAAA-TATTATTATTAAATCATTAAAATTAAATCATTAAAG
1 TTAAATTATTATAATTAAATCATTAAAGTTAAATAATTAAAG
* * * * *
134311 TTAAATAATTATTATTAAATCATTAAAGTTAAGTAATGATTA-
1 TTAAATTATTATAATTAAATCATTAAAGTTAAATAATTA-AAG
134353 TTAAATTATT-TAATTTAAATCATTAAAGTTAAATAATTATTACTAAATAG
1 TTAAATTATTATAA-TTAAATCATTAAAGTTAAAT-A--A-T--T-AA-AG
* * * *
134403 TTAAA-TATTTATTATTAAATCATTAAAGTTAAGTAATGATTA-
1 TTAAATTA-TTATAATTAAATCATTAAAGTTAAATAATTA-AAG
*
134445 TTAAATTGTT-TAATTTAAATCATTAAAGTTAAATAATTA
1 TTAAATTATTATAA-TTAAATCATTAAAGTTAAATAATTA
134484 TTATTAAATC
Statistics
Matches: 173, Mismatches: 23, Indels: 36
0.75 0.10 0.16
Matches are distributed among these distances:
41 39 0.23
42 92 0.53
43 5 0.03
45 1 0.01
46 2 0.01
47 1 0.01
49 5 0.03
50 26 0.15
51 2 0.01
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.43
Consensus pattern (42 bp):
TTAAATTATTATAATTAAATCATTAAAGTTAAATAATTAAAG
Found at i:134378 original size:50 final size:50
Alignment explanation
Indices: 134324--134471 Score: 154
Period size: 50 Copynumber: 3.1 Consensus size: 50
134314 AATAATTATT
134324 ATTAAATCATTAAAGTTAAGTAATGATTATTAAATTATTTAATTTAAATC
1 ATTAAATCATTAAAGTTAAGTAATGATTATTAAATTATTTAATTTAAATC
* * * * *
134374 ATTAAA--GTTAAA--TAA-T--T-ATTACTAAA-TAGTTAAATATT-TATT
1 ATTAAATCATTAAAGTTAAGTAATGATTATTAAATTA-TTTAAT-TTAAATC
*
134416 ATTAAATCATTAAAGTTAAGTAATGATTATTAAATTGTTTAATTTAAATC
1 ATTAAATCATTAAAGTTAAGTAATGATTATTAAATTATTTAATTTAAATC
134466 ATTAAA
1 ATTAAA
134472 GTTAAATAAT
Statistics
Matches: 75, Mismatches: 11, Indels: 24
0.68 0.10 0.22
Matches are distributed among these distances:
41 2 0.03
42 21 0.28
43 3 0.04
44 5 0.07
45 1 0.01
46 6 0.08
47 1 0.01
48 5 0.07
49 3 0.04
50 27 0.36
51 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (50 bp):
ATTAAATCATTAAAGTTAAGTAATGATTATTAAATTATTTAATTTAAATC
Found at i:134520 original size:70 final size:70
Alignment explanation
Indices: 134242--134562 Score: 283
Period size: 70 Copynumber: 4.7 Consensus size: 70
134232 ATTATTAAAG
* ** * * *
134242 TTAAATTATTAAAGTTAAATAATTAAAGTTAAAT-ATTATTATTAAATCATTAAAATTAAATCAT
1 TTAAATTTTTAATTTTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATAAT
* *
134306 TA-AA
66 GATTA
** * * * * * *
134310 GTTAAATAATT-ATTATTAAATCATTAAAGTTAAGTAATGATTATTAAATTATTTAATTTAAATC
1 -TTAAATTTTTAATT-TTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATA
* *
134374 ATTA-AA
64 ATGATTA
* * *
134380 GTTAAA----TAATTATT--A-C-TAAATAGTTAAATATTTATTATTAAATCATTAAAGTTAAGT
1 -TTAAATTTTTAATT-TTAAATCATTAA-AGTTAAATAATTATTATTAAATCATTAAAGTTAAAT
134437 AATGATTA
63 AATGATTA
134445 TTAAATTGTTTAA-TTTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATAA
1 TTAAATT-TTTAATTTTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATAA
*
134509 TTATTA
65 TGATTA
134515 TTAAATTTTTAATTTTAAATCATTAAA-TATAAATAATTATTATTAAAT
1 TTAAATTTTTAATTTTAAATCATTAAAGT-TAAATAATTATTATTAAAT
134563 ATATACTCGA
Statistics
Matches: 212, Mismatches: 24, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
63 3 0.01
64 38 0.18
65 2 0.01
66 1 0.00
67 8 0.04
68 2 0.01
69 37 0.17
70 118 0.56
71 3 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (70 bp):
TTAAATTTTTAATTTTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAATAAT
GATTA
Found at i:134542 original size:92 final size:96
Alignment explanation
Indices: 134296--134520 Score: 345
Period size: 92 Copynumber: 2.4 Consensus size: 96
134286 AATCATTAAA
134296 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAAGTAATGATTATTAAATTA
1 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTT-AGTAA-GATTATTAAATTA
134361 TTTAATTTAAATCATTAAAGTTAAATAATTATT
64 TTTAATTTAAATCATTAAAGTTAAATAATTATT
* * *
134394 ACT-AA--A-T--AGTTAAATATTTATTATTAAATCATTAAAGTTAAGTAATGATTATTAAATTG
1 ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTT-AGTAA-GATTATTAAATTA
134453 TTTAATTTAAATCATTAAAGTTAAATAATTATT
64 TTTAATTTAAATCATTAAAGTTAAATAATTATT
134486 ATTAAATCATTAAAGTTAAATAATTATTATTAAAT
1 ATTAAATCATTAAAGTTAAATAATTATTATTAAAT
134521 TTTTAATTTT
Statistics
Matches: 116, Mismatches: 5, Indels: 12
0.87 0.04 0.09
Matches are distributed among these distances:
92 85 0.73
93 2 0.02
94 1 0.01
95 2 0.02
96 1 0.01
97 2 0.02
98 23 0.20
ACGTcount: A:0.48, C:0.03, G:0.05, T:0.44
Consensus pattern (96 bp):
ATTAAATCATTAAAGTTAAATAATTATTATTAAATCATTAAAGTTAGTAAGATTATTAAATTATT
TAATTTAAATCATTAAAGTTAAATAATTATT
Found at i:135643 original size:21 final size:21
Alignment explanation
Indices: 135617--135667 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
135607 CTTCCCAACT
135617 GATAATTCACCAGAGTTATCG
1 GATAATTCACCAGAGTTATCG
135638 GATAATTCACCAGAGTTATCG
1 GATAATTCACCAGAGTTATCG
135659 GATAATTCA
1 GATAATTCA
135668 ATCATGTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (21 bp):
GATAATTCACCAGAGTTATCG
Found at i:137840 original size:2 final size:2
Alignment explanation
Indices: 137833--137861 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
137823 ATTATATTTA
137833 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
137862 AATTCACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:138336 original size:10 final size:10
Alignment explanation
Indices: 138316--138356 Score: 57
Period size: 10 Copynumber: 4.2 Consensus size: 10
138306 TTTCATCACA
138316 CTAAA-TTCT
1 CTAAACTTCT
* *
138325 CTCAATTTCT
1 CTAAACTTCT
138335 CTAAACTTCT
1 CTAAACTTCT
138345 CTAAACTTCT
1 CTAAACTTCT
138355 CT
1 CT
138357 CAAATACTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 4 0.14
10 24 0.86
ACGTcount: A:0.27, C:0.29, G:0.00, T:0.44
Consensus pattern (10 bp):
CTAAACTTCT
Found at i:138346 original size:20 final size:19
Alignment explanation
Indices: 138316--138366 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
138306 TTTCATCACA
* *
138316 CTAAATTCTCTCAATTTCT
1 CTAAATTCTCTAAACTTCT
138335 CTAAACTTCTCTAAACTTCT
1 CTAAA-TTCTCTAAACTTCT
*
138355 CTCAAATACTCT
1 CT-AAATTCTCT
138367 TATAATCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.19
20 19 0.70
21 3 0.11
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.41
Consensus pattern (19 bp):
CTAAATTCTCTAAACTTCT
Found at i:138424 original size:9 final size:9
Alignment explanation
Indices: 138412--138463 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
138402 TAATATTTTG
138412 TATTTAATT
1 TATTTAATT
*
138421 TATTTAA-G
1 TATTTAATT
138429 TATTTAATT
1 TATTTAATT
138438 TATTTAA--
1 TATTTAATT
* *
138445 TATTTTACT
1 TATTTAATT
138454 TATTTAATT
1 TATTTAATT
138463 T
1 T
138464 TTTTGCATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:138433 original size:17 final size:17
Alignment explanation
Indices: 138411--138460 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
138401 TTAATATTTT
138411 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
138428 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
138445 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
138461 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:138456 original size:16 final size:16
Alignment explanation
Indices: 138420--138465 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
138410 TGTATTTAAT
* *
138420 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
138437 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
138453 TTATTTAAT-TTTT
1 TTATTTAATATTTT
138466 TTGCATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:140440 original size:3 final size:3
Alignment explanation
Indices: 140432--140457 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
140422 TACTCAGGAT
140432 GAC GAC GAC GAC GAC GAC GAC GAC GA
1 GAC GAC GAC GAC GAC GAC GAC GAC GA
140458 TGATGACAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.35, T:0.00
Consensus pattern (3 bp):
GAC
Found at i:145399 original size:20 final size:20
Alignment explanation
Indices: 145371--145413 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
145361 ATATAAAAAA
145371 TTAT-TTTTTATTAAATATTT
1 TTATATTTTTATTAAAT-TTT
*
145391 TTATATTTTTATTTAATTTT
1 TTATATTTTTATTAAATTTT
145411 TTA
1 TTA
145414 AATAATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATATTTTTATTAAATTTT
Found at i:150143 original size:20 final size:21
Alignment explanation
Indices: 150095--150144 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
150085 TTTATCAAAT
150095 TGATTTTAATATAATATAATAA
1 TGATTTTAATATAATAT-ATAA
*
150117 T-ATTTTTAATCTAATAT-TAA
1 TGA-TTTTAATATAATATATAA
150137 TGATTTTA
1 TGATTTTA
150145 TAAATTTATC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 9 0.36
21 2 0.08
22 14 0.56
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (21 bp):
TGATTTTAATATAATATATAA
Found at i:159359 original size:37 final size:37
Alignment explanation
Indices: 159308--159404 Score: 131
Period size: 37 Copynumber: 2.6 Consensus size: 37
159298 CATTTTCGTC
*
159308 CTGCTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 CTGCTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
159345 TTGCTAAGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTGCTAAGATTCAAACTCCTAAAAATAGGATAAAATT
* * *
159382 CTACTAAGATTTAAATTCCTAAA
1 CTGCTAAGATTCAAACTCCTAAA
159405 GATAAGATCC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.30
Consensus pattern (37 bp):
CTGCTAAGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:159805 original size:18 final size:17
Alignment explanation
Indices: 159766--159808 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
159756 ATTATATAGA
159766 TATT-TTATTCATTTAT
1 TATTATTATTCATTTAT
*
159782 TTTTATTATTCATGTTAT
1 TATTATTATTCAT-TTAT
159800 TATTATTAT
1 TATTATTAT
159809 CGTATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTATTATTCATTTAT
Found at i:159927 original size:27 final size:27
Alignment explanation
Indices: 159897--159950 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
159887 ATTTTACTTA
159897 TAAGTCTAATATTACTATATATATATT
1 TAAGTCTAATATTACTATATATATATT
159924 TAAGTCTAATATTACTATATATATATT
1 TAAGTCTAATATTACTATATATATATT
159951 GTAATTATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (27 bp):
TAAGTCTAATATTACTATATATATATT
Found at i:166236 original size:182 final size:183
Alignment explanation
Indices: 165800--166335 Score: 914
Period size: 182 Copynumber: 2.9 Consensus size: 183
165790 ATTAAATCCG
*
165800 TAAAGTTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
165865 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTACTCCACTACTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
**
165930 TTGTTTGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
*
165983 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCAAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
166048 ATAGATTATGTTCAAACTATGACACTGCTTGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
166113 TTGTCAGGCCAAAGAC-TTGTGATGAGACGAACCCTTCAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
* * *
166165 TAAAGCTGATCTATCCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAATCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
** *
166230 ATAGATTACATTCAAA-TCATGACATTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
66 ATAGATTATGTTCAAACT-ATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCT
*
166294 TTTGTCAGGTCAAAGACTTTGTGATGAGATGAACCCTTCAGT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGT
166336 TAAACCTGAT
Statistics
Matches: 333, Mismatches: 18, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
181 1 0.00
182 170 0.51
183 162 0.49
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTATGTTCAAACTATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTCAGTGATTTGTCCCTC
Found at i:167559 original size:71 final size:75
Alignment explanation
Indices: 167476--167649 Score: 216
Period size: 71 Copynumber: 2.4 Consensus size: 75
167466 AATGCAGAGA
* * * *
167476 TTATCTCACTCAA-ATTTGTTTTTCTTAAAAC-ATACTTGTCTCACTTGAGACTGTTTT-TCTCG
1 TTATTTCACTCAAGA-TTGTTTTTCTTAAAACAAGACTTGTCTCACTTGAGACCGTTTTCACTCG
167538 AAAGAA-G-AT
65 AAAGAAGGCAT
* *
167547 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGA
1 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGACTTGTCTCACTTGAGACCGTTTTCACTCGA
167612 AAGAAGGCAT
66 AAGAAGGCAT
**
167622 TTCATTTCACTCAAGGCTGTTTTT-TTAA
1 TT-ATTTCACTCAAGATTGTTTTTCTTAA
167650 GAAGATTTTA
Statistics
Matches: 89, Mismatches: 8, Indels: 8
0.85 0.08 0.08
Matches are distributed among these distances:
71 28 0.31
72 23 0.26
73 10 0.11
74 1 0.01
75 8 0.09
76 19 0.21
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (75 bp):
TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGACTTGTCTCACTTGAGACCGTTTTCACTCGA
AAGAAGGCAT
Found at i:167582 original size:36 final size:36
Alignment explanation
Indices: 167476--167589 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
167466 AATGCAGAGA
* *
167476 TTATCTCACTCAA-ATTTGTTTTTCTTAAAAC-ATAC
1 TTATCTCACTCAAGA-TTGTTTTTCTTAAAACAAGAT
* ** * ** *
167511 TTGTCTCACTTGAGACTGTTTTTCTCGAAAGAAGAT
1 TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
*
167547 TTATTTCACTCAAGATTGTTTTTCTTAAAACAAGAT
1 TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
*
167583 TTGTCTC
1 TTATCTC
167590 GCTTGAGACC
Statistics
Matches: 58, Mismatches: 19, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
35 22 0.38
36 36 0.62
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.44
Consensus pattern (36 bp):
TTATCTCACTCAAGATTGTTTTTCTTAAAACAAGAT
Found at i:167604 original size:36 final size:36
Alignment explanation
Indices: 167492--167604 Score: 111
Period size: 36 Copynumber: 3.2 Consensus size: 36
167482 CACTCAAATT
* *
167492 TGTTTTTCTTAAAAC-ATACTTGTCTCACTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
** * * * ** *
167527 TGTTTTTCTCGAAAGAAGATTTATTTCACTCAAGAT
1 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
*
167563 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGAC
1 TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
*
167599 CGTTTT
1 TGTTTT
167605 CACTCGAAAG
Statistics
Matches: 57, Mismatches: 20, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
35 12 0.21
36 45 0.79
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (36 bp):
TGTTTTTCTTAAAACAAGATTTGTCTCACTTGAGAC
Found at i:167684 original size:73 final size:72
Alignment explanation
Indices: 167492--167686 Score: 175
Period size: 73 Copynumber: 2.7 Consensus size: 72
167482 CACTCAAATT
* * * * * *
167492 TGTTTTTCTTAAA-ACATACTTGTCTCACTTGAGACTGTTTT-TCTCGAAAGAAGATTTATTTCA
1 TGTTTTTCTTAAACA-AGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTCA
*
167555 CTCAAGAT
65 CTCAAGAC
* *
167563 TGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAAGGCATTTCATT
1 TGTTTTTCTT-AAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAA-G-ATTT-ATT
*
167628 TCACTCAAGGC
62 TCACTCAAGAC
* * * *
167639 TGTTTTT-TT-AAGAAGATTTTATCTTGCTTGAGATAG-TTTCCCTCGAAA
1 TGTTTTTCTTAAACAAGA-TTTATCTCGCTTGAGACAGTTTTCACTCGAAA
167687 CAGAAAATTT
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
71 10 0.10
72 25 0.24
73 28 0.27
74 16 0.15
75 6 0.06
76 19 0.18
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (72 bp):
TGTTTTTCTTAAACAAGATTTATCTCGCTTGAGACAGTTTTCACTCGAAAGAAGATTTATTTCAC
TCAAGAC
Found at i:167929 original size:106 final size:105
Alignment explanation
Indices: 167720--168037 Score: 506
Period size: 106 Copynumber: 3.1 Consensus size: 105
167710 ACAGTTTCTC
*
167720 TTGAAAA-ATTTCCCTTGAAATTA-ATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
167783 TTTT-TCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
167822 TTGAAAACATTTCCCTTGAAATGATTTTTTTTTCTCTCTTAAGATAGTTTCCCTCGAAACAGAAA
1 TTGAAAACATTTCCCTTGAAATGA-TATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAA
167887 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
65 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
* *
167928 TTGAAAACATTTCCCTTGAAATGA-ATTTTTTCTCGCTTGAGATAGTTTCCCTTGAAAC-G--AA
1 TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
** *
167989 TTTTGTCTCCCTTGAGACAGTTTCTCTCCAAACATAAACT
66 TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
168029 TTGAAAACA
1 TTGAAAACA
168038 ATTTAACGAA
Statistics
Matches: 202, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
101 48 0.24
102 7 0.03
103 16 0.08
104 30 0.15
105 42 0.21
106 59 0.29
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.38
Consensus pattern (105 bp):
TTGAAAACATTTCCCTTGAAATGATATTTTTTCTCTCTTGAGATAGTTTCCCTCGAAACAGAAAA
TTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATAAACA
Found at i:167984 original size:36 final size:36
Alignment explanation
Indices: 167937--168012 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
167927 ATTGAAAACA
* * * *
167937 TTTCCCTTGAAATGAATTTTTTCTCGCTTGAGATAG
1 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
167973 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
168009 TTTC
1 TTTC
168013 TCTCCAAACA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.21, C:0.21, G:0.16, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACGAATTTTGTCTCCCTTGAGACAG
Found at i:168411 original size:105 final size:105
Alignment explanation
Indices: 168212--168839 Score: 880
Period size: 105 Copynumber: 6.0 Consensus size: 105
168202 ATACCGTGAC
* * * * * * *
168212 ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGGTTGGTTGTCAACAAACAAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AAC-AACTTCT
168277 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
64 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
168319 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
168384 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
168424 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGA-C-CTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
168487 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
168527 ACTCTAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-ATAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
*
168591 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
168631 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAACCGCTGCTTGTCAACAA-AA-TT-TC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG-ACCGCTGCTTGTCAACAACAACTTCTC
* * *
168693 -A-TTCAGTGTCAATTTCAACTTCACAGCGAAGGATATTGG
65 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * *
168732 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG-CTGCTTGTCAAC-AACAACTTCT
** * * *
168795 CTGGTTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
64 C-AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
168838 AC
1 AC
168840 GCGGAACAAT
Statistics
Matches: 477, Mismatches: 32, Indels: 25
0.89 0.06 0.05
Matches are distributed among these distances:
99 2 0.00
100 12 0.03
101 70 0.15
102 3 0.01
103 102 0.21
104 90 0.19
105 115 0.24
106 38 0.08
107 45 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAACAACTTCTCA
ATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:168808 original size:207 final size:208
Alignment explanation
Indices: 168212--168839 Score: 846
Period size: 207 Copynumber: 3.0 Consensus size: 208
168202 ATACCGTGAC
* * * * * * *
168212 ACTCGAGACAACACAAGTTCAACTTCACAACAAAGGGACGGTTGGTTGTCAACAAACAAACTTCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC--A-AAACTTCT
*
168277 CAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAAC
63 CAA-TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAAC
*
168342 TTCACGACGAAGGGACCGCTGCTTGTCAAC-AACAACTT-CTCAATTTCAGAGCCAATTTCAACT
127 TTCACGACGAAGGGACCGCTGCTTGTCAACAAACAA-TTCCT-AATTCCAGAGCCAATTTCAACT
168405 TCACAACGAAGGATATTGG
190 TCACAACGAAGGATATTGG
* *
168424 ACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGGA-C-CTGCTTGTCAACAACAACTTCCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAA-AACTTCTCA
*
168487 ATCTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTT
65 AT-TCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTT
*
168552 CACGACGAAGGGACCGCTGCTTGTCAACATAAC--TTCCCAA-TCTCAGAGCCAATTTCAACTTC
129 CACGACGAAGGGACCGCTGCTTGTCAACA-AACAATTCCTAATTC-CAGAGCCAATTTCAACTTC
168614 ACAACGAAGGATATTGG
192 ACAACGAAGGATATTGG
168631 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGAACCGCTGCTTGTCAACAAAA-TT-TC-
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG-ACCGCTGCTTGTCAACAAAACTTCTCA
* * * * *
168693 ATTCAGTGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTC
65 ATTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * **
168758 ACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCTGGTTCCAGAGCCAATTTCAACTTCA
130 ACGACGAAGGGACCG-CTGCTTGTCAACAAACAA-TTCCTAATTCCAGAGCCAATTTCAACTTCA
* *
168822 CGACGGAGGATATTGG
193 CAACGAAGGATATTGG
168838 AC
1 AC
168840 GCGGAACAAT
Statistics
Matches: 375, Mismatches: 27, Indels: 33
0.86 0.06 0.08
Matches are distributed among these distances:
204 5 0.01
205 81 0.22
206 3 0.01
207 119 0.32
208 104 0.28
209 3 0.01
210 27 0.07
212 33 0.09
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (208 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAACTTCTCAA
TTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCA
CGACGAAGGGACCGCTGCTTGTCAACAAACAATTCCTAATTCCAGAGCCAATTTCAACTTCACAA
CGAAGGATATTGG
Found at i:169431 original size:37 final size:37
Alignment explanation
Indices: 169378--169481 Score: 129
Period size: 36 Copynumber: 2.8 Consensus size: 37
169368 CATTTTCGTC
169378 ATACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
1 ATACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
169415 TTGCTAGGATTCAAACTCCT-AAAATAGGATAGAGTT
1 ATACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
* * * *
169451 ATACTAAGATTTAAATTCCTAAAGATAGGAT
1 ATACTAGGATTCAAACTCCTAAAAATAGGAT
169482 CCACAAGCAC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 29 0.52
37 27 0.48
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (37 bp):
ATACTAGGATTCAAACTCCTAAAAATAGGATAAAATT
Found at i:170462 original size:20 final size:21
Alignment explanation
Indices: 170434--170473 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
170424 TATATAATTA
*
170434 TTATTTTAC-TATTTTTTTTC
1 TTATCTTACTTATTTTTTTTC
170454 TTATCTTACTTATTTTTTTT
1 TTATCTTACTTATTTTTTTT
170474 TCCTTGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (21 bp):
TTATCTTACTTATTTTTTTTC
Found at i:170483 original size:25 final size:25
Alignment explanation
Indices: 170455--170505 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
170445 TTTTTTTTCT
* *
170455 TATCTTACTTATTTTTTTTTCCTTG
1 TATCTTACTTATTTTCTTTACCTTG
* *
170480 TATCTTATTTGTTTTCTTTACCTTG
1 TATCTTACTTATTTTCTTTACCTTG
170505 T
1 T
170506 TTATCTAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.12, C:0.16, G:0.06, T:0.67
Consensus pattern (25 bp):
TATCTTACTTATTTTCTTTACCTTG
Done.