Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 72 of 175
Found at i:21458571 original size:56 final size:50
Alignment explanation
Indices: 21458480--21458659 Score: 155
Period size: 50 Copynumber: 3.5 Consensus size: 50
21458470 GGGAATGAGA
* **
21458480 TCCCATGTAAGACCATGTCTGGGGCATGAAATTGGCATTATTGAGGTTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGAAATTGGC---ACCGA-G--ATGAGAGG
**
21458536 TCCCATGTAAGACCATGTCTGGGACAT-AGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGA-AATTGGCACCGAGATGAGAGG
* * ** * * * **
21458586 TCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACTGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGAAATTGGCACCGAGATGAGAGG
*
21458636 TCCCATGTAAGACCATATCTGGGA
1 TCCCATGTAAGACCATGTCTGGGA
21458660 AATGGCATTG
Statistics
Matches: 105, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
50 69 0.66
52 1 0.01
53 3 0.03
55 1 0.01
56 31 0.30
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGAAATTGGCACCGAGATGAGAGG
Found at i:21458665 original size:50 final size:50
Alignment explanation
Indices: 21458527--21458672 Score: 193
Period size: 50 Copynumber: 2.9 Consensus size: 50
21458517 TTATTGAGGT
* *
21458527 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATAGCGTTGGCACCGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * * * *
21458577 GATGAGAGGTCCCCTGTAAGACCATGTCTAGGACATGGCATGGGCACTGA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * *
21458627 TATGAGAACTCCCATGTAAGACCATATCTGGGAAATGGCATTGGCA
1 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
21458673 GTACAAAAAA
Statistics
Matches: 81, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 81 1.00
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (50 bp):
TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:21458946 original size:20 final size:20
Alignment explanation
Indices: 21458921--21458958 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
21458911 ATGAGTTATT
21458921 CAAGTAAGCA-AGTAAGTATA
1 CAAGTAAG-AGAGTAAGTATA
21458941 CAAGTAAGAGAGTAAGTA
1 CAAGTAAGAGAGTAAGTA
21458959 AAGAAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.50, C:0.08, G:0.24, T:0.18
Consensus pattern (20 bp):
CAAGTAAGAGAGTAAGTATA
Found at i:21463634 original size:24 final size:24
Alignment explanation
Indices: 21463585--21463634 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
21463575 TTTTCGAATT
* * *
21463585 TCCTTGATTTTCTCCCCAATCTCC
1 TCCTTGATTTGCTCCCAAAACTCC
21463609 TCCTTGATTTGCTCCACAAAAC-CC
1 TCCTTGATTTGCTCC-CAAAACTCC
21463633 TC
1 TC
21463635 TAAGACCAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.18, C:0.40, G:0.06, T:0.36
Consensus pattern (24 bp):
TCCTTGATTTGCTCCCAAAACTCC
Found at i:21488958 original size:13 final size:13
Alignment explanation
Indices: 21488940--21488965 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21488930 TCAAACTATC
21488940 AAATTTTCACACA
1 AAATTTTCACACA
21488953 AAATTTTCACACA
1 AAATTTTCACACA
21488966 TATAACTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (13 bp):
AAATTTTCACACA
Found at i:21496875 original size:13 final size:13
Alignment explanation
Indices: 21496857--21496881 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21496847 TCAAACTATC
21496857 AAATTTTCACACG
1 AAATTTTCACACG
21496870 AAATTTTCACAC
1 AAATTTTCACAC
21496882 ATATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:21501169 original size:11 final size:11
Alignment explanation
Indices: 21501153--21501202 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
21501143 TTTCAATCTT
21501153 TAACTTGAATC
1 TAACTTGAATC
21501164 TAACTTGACAT-
1 TAACTTGA-ATC
21501175 T--CTTGAATC
1 TAACTTGAATC
21501184 TAACTTGAATC
1 TAACTTGAATC
21501195 TAACTTGA
1 TAACTTGA
21501203 CATTATAGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 2 0.06
9 6 0.17
11 25 0.71
12 2 0.06
ACGTcount: A:0.34, C:0.18, G:0.10, T:0.38
Consensus pattern (11 bp):
TAACTTGAATC
Found at i:21501255 original size:13 final size:13
Alignment explanation
Indices: 21501237--21501266 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
21501227 TATTATTGAA
21501237 TCTAACTTGACAT
1 TCTAACTTGACAT
21501250 TCTAACTTGACAT
1 TCTAACTTGACAT
21501263 TCTA
1 TCTA
21501267 GCTCCCCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (13 bp):
TCTAACTTGACAT
Found at i:21501269 original size:57 final size:59
Alignment explanation
Indices: 21501177--21501312 Score: 192
Period size: 57 Copynumber: 2.4 Consensus size: 59
21501167 CTTGACATTC
* *
21501177 TTGAATCTAACTTGA-A-TCTAACTTGACATTATAGCTCCCCATTGTC-TCTT-TA-TTA
1 TTGAATCTAACTTGACATTCTAACTTGACATTATAGCTCCCCATT-CCAGCTTCTATTTA
* *
21501232 TTGAATCTAACTTGACATTCTAACTTGACATTCTAGCTCCCCATTCCAGCTTCTATTTC
1 TTGAATCTAACTTGACATTCTAACTTGACATTATAGCTCCCCATTCCAGCTTCTATTTA
21501291 TTGAATCTAACTTGACATTCTA
1 TTGAATCTAACTTGACATTCTA
21501313 GCTCCCCATT
Statistics
Matches: 72, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
55 15 0.21
56 2 0.03
57 29 0.40
58 2 0.03
59 24 0.33
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.40
Consensus pattern (59 bp):
TTGAATCTAACTTGACATTCTAACTTGACATTATAGCTCCCCATTCCAGCTTCTATTTA
Found at i:21501846 original size:30 final size:31
Alignment explanation
Indices: 21501794--21501851 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
21501784 CACCCTTAAA
** *
21501794 TATTTACACTATTAGTCCTTCAACTTTTTCG
1 TATTTACACTATTAACCCTTCAAATTTTTCG
21501825 TATTTACACT-TTAACCCTTCAAATTTT
1 TATTTACACTATTAACCCTTCAAATTTT
21501852 GAGTATTGGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 14 0.58
31 10 0.42
ACGTcount: A:0.26, C:0.22, G:0.03, T:0.48
Consensus pattern (31 bp):
TATTTACACTATTAACCCTTCAAATTTTTCG
Found at i:21501858 original size:30 final size:31
Alignment explanation
Indices: 21501794--21501858 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
21501784 CACCCTTAAA
** * **
21501794 TATTTACACTATTAGTCCTTCAACTTTTTCG
1 TATTTACACTATTAACCCTTCAAATTTTGAG
21501825 TATTTACACT-TTAACCCTTCAAATTTTGAG
1 TATTTACACTATTAACCCTTCAAATTTTGAG
21501855 TATT
1 TATT
21501859 GGGCAACAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 19 0.66
31 10 0.34
ACGTcount: A:0.26, C:0.20, G:0.06, T:0.48
Consensus pattern (31 bp):
TATTTACACTATTAACCCTTCAAATTTTGAG
Found at i:21503065 original size:12 final size:13
Alignment explanation
Indices: 21503048--21503076 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21503038 CTCATACATG
21503048 AATAAATAAA-GC
1 AATAAATAAATGC
21503060 AATAAATAAATGC
1 AATAAATAAATGC
21503073 AATA
1 AATA
21503077 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:21509317 original size:98 final size:98
Alignment explanation
Indices: 21509143--21509339 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
21509133 GTACAATAAA
*
21509143 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
21509208 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
* * *
21509241 ACTTTAAAAGAACATCTACTTATTCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
21509306 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
21509339 A
1 A
21509340 TTGTTTTTAG
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:21510052 original size:24 final size:24
Alignment explanation
Indices: 21509997--21510053 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
21509987 AAATATATAC
* *
21509997 ATATAAATATGAAAATATTCATTA
1 ATATATATAGGAAAATATTCATTA
* * *
21510021 AAAAATATAGGAAAATATTCGTTA
1 ATATATATAGGAAAATATTCATTA
21510045 ATATATATA
1 ATATATATA
21510054 TACATGTACA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (24 bp):
ATATATATAGGAAAATATTCATTA
Found at i:21510844 original size:19 final size:20
Alignment explanation
Indices: 21510786--21510899 Score: 124
Period size: 21 Copynumber: 5.5 Consensus size: 20
21510776 AAATTAAATC
* *
21510786 TCTAAGATTACAAAATCATA
1 TCTAAGATTGCAATATCATA
*
21510806 TCTTCTAAGATTGTATATATCATA
1 ---TCTAAGATTGCA-ATATCATA
21510830 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
21510851 TCT-AGATTGCATATATCATA
1 TCTAAGATTGCA-ATATCATA
21510871 TCTAAGATTGC-ATATCATA
1 TCTAAGATTGCAATATCATA
*
21510890 TCCAAGATTG
1 TCTAAGATTG
21510900 TATATCCTCG
Statistics
Matches: 84, Mismatches: 5, Indels: 8
0.87 0.05 0.08
Matches are distributed among these distances:
19 17 0.20
20 20 0.24
21 30 0.36
23 10 0.12
24 7 0.08
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.38
Consensus pattern (20 bp):
TCTAAGATTGCAATATCATA
Found at i:21510859 original size:20 final size:21
Alignment explanation
Indices: 21510809--21510904 Score: 144
Period size: 21 Copynumber: 4.7 Consensus size: 21
21510799 AATCATATCT
*
21510809 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
21510830 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
21510851 TCT-AGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
21510871 TCTAAGATTGC--ATATCATA
1 TCTAAGATTGCATATATCATA
* *
21510890 TCCAAGATTGTATAT
1 TCTAAGATTGCATAT
21510905 CCTCGAAAAT
Statistics
Matches: 69, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.25
20 20 0.29
21 32 0.46
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:21511291 original size:44 final size:44
Alignment explanation
Indices: 21511215--21511722 Score: 168
Period size: 44 Copynumber: 11.7 Consensus size: 44
21511205 CTCTAATCCA
* * * * * *
21511215 CTCCACTACAACTT-AGGGAGACAGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAGTCTG
21511258 C-CTCACTGCAACTTCAG-GAGGATAAGACTTGTTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGTTTACTTAGTCTG
* **
21511302 CTCCACTGCAACTTCAGAGAGATAAGACTAG---AC-GCGATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAG-TCTG
* ** * *
21511343 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TT-GATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA--CTTGTTTACTTAG-TCTG
* * * * *** *
21511386 CTCCACTGTAACTTCAGGGAGATAGGA-TTATCGGCTCTAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACT-TAGTCTG
* * * * ** *
21511430 CTCCATTGCAACTTTAGGGAGATAAGATTTG-CCATCTTCAGTCTA
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTA-CTT-AGTCTG
* * *
21511475 C-CTCACTGCAACTTCA-AGAGGATAAGACTTGCTTGCTGAGTCTG
1 CTC-CACTGCAACTTCAGAGA-GATAAGACTTGTTTACTTAGTCTG
* * *** *
21511519 CTCCACTGCAACTTCAGGGAGATAAGACTAG-AGGC-GA-TCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAGTCTG
* ** * * *
21511560 CT-CTCTGCAACTTCAGAGAGATAAGATCCAAGGTT--TTAATCCG
1 CTCCACTGCAACTTCAGAGAGATAAGA--CTTGTTTACTTAGTCTG
* * *** *
21511603 CTCCACTGCAACTTCA-AGGAGATAGGA-TTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGA-GAGATAAGACTTGTTTAC-TTAGTCTG
* * ** *
21511647 CTCCACTGCAACTTCCGAGAGATAAGATTTG-CCATCTTCAATCTG
1 CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTA-CTT-AGTCTG
21511692 C-CCTACTGCAACTTCAG-GAGGATAAGACTTG
1 CTCC-ACTGCAACTTCAGAGA-GATAAGACTTG
21511723 CTGGCTTAAA
Statistics
Matches: 355, Mismatches: 69, Indels: 80
0.70 0.14 0.16
Matches are distributed among these distances:
40 46 0.13
41 14 0.04
42 10 0.03
43 29 0.08
44 185 0.52
45 71 0.20
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGAGAGATAAGACTTGTTTACTTAGTCTG
Found at i:21511633 original size:217 final size:217
Alignment explanation
Indices: 21511252--21511724 Score: 786
Period size: 217 Copynumber: 2.2 Consensus size: 217
21511242 TTGTTTATTT
* *
21511252 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
*
21511317 AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTGA
66 AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* * * *
21511382 TCCGCTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTCTAATCTGCTCCATTGCAACTTTAG
131 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
*
21511447 GGAGATAAGATTTGCCATCTTC
196 AGAGATAAGATTTGCCATCTTC
* * *
21511469 AGTCTACCTCACTGCAACTTCAAGAGGATAAGACTTGCTTGCTGAGTCTGCTCCACTGCAACTTC
1 AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
* *
21511534 AGGGAGATAAGACTAGAGGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
66 AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
* *
21511599 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCCG
131 TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
21511664 AGAGATAAGATTTGCCATCTTC
196 AGAGATAAGATTTGCCATCTTC
*
21511686 AATCTGCC-CTACTGCAACTTCAGGAGGATAAGACTTGCT
1 AGTCTGCCTC-ACTGCAACTTCAGGAGGATAAGACTTGCT
21511725 GGCTTAAATC
Statistics
Matches: 237, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 236 1.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.27
Consensus pattern (217 bp):
AGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTGAGTCTGCTCCACTGCAACTTC
AGAGAGATAAGACTAGACGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAA
TCCGCTCCACTGCAACTTCAAGGAGATAGGATTATCGGCTCTAATCTGCTCCACTGCAACTTCAG
AGAGATAAGATTTGCCATCTTC
Found at i:21511943 original size:123 final size:123
Alignment explanation
Indices: 21511719--21512311 Score: 819
Period size: 132 Copynumber: 4.7 Consensus size: 123
21511709 GAGGATAAGA
* *
21511719 CTTGCTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
21511784 CACTACTGCTTAGGGAGACAATCTTCAACCTACTCCGTTGCTGCTCAAGGAGACAAGG
66 CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGG
21511842 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
21511907 CACTACTGCTTAGAGAGACAATCTTTAACCTACTCCGCTACTGCTC-AGGAAGACAAGG
66 CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAAGG-AGACAAGG
* * *
21511965 TTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTAATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* *
21512030 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAGCCTACTCCGCTCCTGCTCAAGGAGACAA
66 CACTACTGCTTA--GAG---AG----ACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAA
21512095 GG
122 GG
* * *
21512097 CTTGGTGGCTTAAATCTGTTTCCCACTATCTTGGAAAGATAAGATTTGTCGTCTTTGATCTGTTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
* * * *
21512162 CACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTACTCAGGGAGAAAA
66 CACTACTGCTTA--GAG---AG----ACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAA
21512227 GG
122 GG
* *
21512229 CTTGGTGGCTTAAATCTGCTTCCTACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTC
1 CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
*
21512294 CACTACTGCTTAGGGAGA
66 CACTACTGCTTAGAGAGA
21512312 TGAGATCTAC
Statistics
Matches: 431, Mismatches: 28, Indels: 22
0.90 0.06 0.05
Matches are distributed among these distances:
122 3 0.01
123 188 0.44
125 3 0.01
127 2 0.00
128 2 0.00
130 2 0.00
132 228 0.53
133 3 0.01
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (123 bp):
CTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTGCTC
CACTACTGCTTAGAGAGACAATCTTCAACCTACTCCGCTGCTGCTCAAGGAGACAAGG
Found at i:21512049 original size:44 final size:44
Alignment explanation
Indices: 21512001--21512317 Score: 123
Period size: 44 Copynumber: 7.2 Consensus size: 44
21511991 TATCTTGGAA
*
21512001 AGATAAGATTTGTCGTCTTTAATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * ** * * * * *
21512045 AGATAAGATCT-ACAATCTTCAGCCTACTCCGCTCCTGCTCAAGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * *
21512089 AGACAAGGCTTGGT-GGCTTAAATCTGTTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTG-CT-CCACTACTGCTTAGG-G
** *
21512133 AGATAAGATTTGTCGTCTTTGATCTGTTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * * * * *
21512177 AGATAAGATCT-ACAATCTTCAACCTTCTCCGCTGCTACTCAGGG
1 AGATAAGATTTGTC-GTCTTCAATCTGCTCCACTACTGCTTAGGG
* * * * * *
21512221 AGAAAAGGCTTGGT-GGCTTAAATCTGCTTCCTACTA-T-CTT-GGAA
1 AGATAA-GATTTGTCGTCTTCAATCTGC-TCC-ACTACTGCTTAGG-G
* *
21512265 AGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
*
21512309 AGATGAGAT
1 AGATAAGAT
21512318 CTACTTTCTT
Statistics
Matches: 183, Mismatches: 70, Indels: 40
0.62 0.24 0.14
Matches are distributed among these distances:
42 10 0.05
43 21 0.11
44 132 0.72
45 14 0.08
46 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTGTCGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:21512372 original size:44 final size:44
Alignment explanation
Indices: 21512314--21512849 Score: 535
Period size: 44 Copynumber: 12.2 Consensus size: 44
21512304 TAGGGAGATG
* * *
21512314 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * * *
21512359 GGATCTGC-ATCTTCGATCCACTTCCTACCAATATAAGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * *
21512402 GGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
21512446 AGATCTGCTTTCTTCGATCTACTTCGCTACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * * *
21512491 ATATCTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGATA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * *
21512534 GGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
21512578 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
** * *
21512623 AGATCTGC-ATCTTCGATCCCCTTCCTACTAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * *
21512666 GGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * *
21512710 AGATCTACTTTCTTCGATCTACTTCGCC-CCAATATGGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTC-CCACCAATATAGGAAGACA
* * *
21512754 AGATTTGC-ATCTTCGATCCACTTCCTACCAATATAGGAAGACA
1 AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
* * * * * * *
21512797 GGATCTACTATCCTT-AATCTACTTCACGCCAATACATGAAGACA
1 AGATCTGCTAT-CTTCGATCTACTTCCCACCAATATAGGAAGACA
21512841 AGATCTGCT
1 AGATCTGCT
21512850 TTTTCACTGA
Statistics
Matches: 398, Mismatches: 84, Indels: 19
0.79 0.17 0.04
Matches are distributed among these distances:
42 1 0.00
43 103 0.26
44 242 0.61
45 52 0.13
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (44 bp):
AGATCTGCTATCTTCGATCTACTTCCCACCAATATAGGAAGACA
Found at i:21512383 original size:132 final size:131
Alignment explanation
Indices: 21512314--21512851 Score: 828
Period size: 132 Copynumber: 4.1 Consensus size: 131
21512304 TAGGGAGATG
*
21512314 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAGGATCTGCATCTTCGATCCA
1 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* * * *
21512379 CTTCCTACCAATATAAGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CTATATAGGAAGATAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
21512444 CA
130 CA
* * *
21512446 AGATCTGCTTTCTTCGATCTACTTCGCTACCAATATGGGAAGACAATATCTGCATCTTCGATCCA
1 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* *
21512511 CTTCCTACCAATATAGGAAGATAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTA-CTATATAGGAAGATAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
21512576 CA
130 CA
* * *
21512578 AGATCTGCTTTCTTCGATCTACTTCGTCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCC
1 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
*
21512643 CTTCCTACTAATATAGGAAGACAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
66 CTTCCTACT-ATATAGGAAGATAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGA
21512708 CA
130 CA
*
21512710 AGATCTACTTTCTTCGATCTACTTCGCC-CCAATATGGGAAGACAAGATTTGCATCTTCGATCCA
1 AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
* * * * *
21512774 CTTCCTACCAATATAGGAAGACAGGATCTACTATCCTT-AATCTACTTCACGCCAATACATGAAG
66 CTTCCTA-CTATATAGGAAGATAGGATCTGCTGT-CTTCGATCTACTTCACGCCAATACATGAAG
21512838 ACA
129 ACA
*
21512841 AGATCTGCTTT
1 AGATCTACTTT
21512852 TTCACTGATC
Statistics
Matches: 381, Mismatches: 22, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
131 102 0.27
132 279 0.73
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (131 bp):
AGATCTACTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCA
CTTCCTACTATATAGGAAGATAGGATCTGCTGTCTTCGATCTACTTCACGCCAATACATGAAGAC
A
Found at i:21514081 original size:7 final size:8
Alignment explanation
Indices: 21514065--21514104 Score: 52
Period size: 7 Copynumber: 5.5 Consensus size: 8
21514055 AGCCTCTCTA
21514065 TTTT-ACT
1 TTTTCACT
21514072 TTTTCA-T
1 TTTTCACT
21514079 TTTTCACT
1 TTTTCACT
21514087 TTTT-ACT
1 TTTTCACT
21514094 TTTTCA-T
1 TTTTCACT
21514101 TTTT
1 TTTT
21514105 TTCATTTCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 23 0.77
8 7 0.23
ACGTcount: A:0.12, C:0.15, G:0.00, T:0.72
Consensus pattern (8 bp):
TTTTCACT
Found at i:21514089 original size:15 final size:15
Alignment explanation
Indices: 21514065--21514111 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
21514055 AGCCTCTCTA
21514065 TTTT-ACTTTTTCAT
1 TTTTCACTTTTTCAT
21514079 TTTTCACTTTTT-ACT
1 TTTTCACTTTTTCA-T
*
21514094 TTTTCATTTTTTTCAT
1 TTTTCA-CTTTTTCAT
21514110 TT
1 TT
21514112 CGTCATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 5 0.18
15 14 0.50
16 8 0.29
17 1 0.04
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCACTTTTTCAT
Found at i:21518136 original size:98 final size:98
Alignment explanation
Indices: 21517957--21518153 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
21517947 GTACAATAAA
*
21517957 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* * *
21518022 CCTCTAGAATCTCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
* *
21518055 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGTACAATT
1 ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
21518120 CCTTTAAAATCCCAAACTCGAAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
21518153 A
1 A
21518154 TTGTTTTTAG
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.38, C:0.24, G:0.09, T:0.29
Consensus pattern (98 bp):
ACTTTAAAACAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGAAATATTTCCTTT
Found at i:21518840 original size:23 final size:24
Alignment explanation
Indices: 21518812--21518857 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
21518802 ATATACATAT
21518812 AAATAT-GAAAATATTCATTAAAA
1 AAATATAGAAAATATTCATTAAAA
*
21518835 AAATATAGGAAAATATTCGTTAA
1 AAATATA-GAAAATATTCATTAA
21518858 TATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
25 14 0.70
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (24 bp):
AAATATAGAAAATATTCATTAAAA
Found at i:21519641 original size:21 final size:21
Alignment explanation
Indices: 21519615--21519690 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
21519605 AATCATATCT
21519615 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
21519636 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
*
21519657 TCTAAGATTG--CATATCATA
1 TCTAAGATTGTATATATCATA
*
21519676 TCCAAGATTGTATAT
1 TCTAAGATTGTATAT
21519691 CCTCGAAAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.35
21 32 0.65
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:21519650 original size:19 final size:19
Alignment explanation
Indices: 21519628--21519691 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
21519618 AAGATTGTAT
21519628 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
21519647 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
* *
21519668 ATATCATATCCAAGATTGT
1 ATATCATATCTAAGATTGC
21519687 ATATC
1 ATATC
21519692 CTCGAAAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
19 22 0.54
21 19 0.46
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:21528168 original size:58 final size:57
Alignment explanation
Indices: 21528017--21528170 Score: 150
Period size: 58 Copynumber: 2.7 Consensus size: 57
21528007 AACACCAACT
* * *
21528017 TCTA-TAAAAGGATGCCTTTGTGGCTATCTTTGTTAAAAGAAAGTCTTTGTAGCGATC
1 TCTATTAAAAGGAAGCC-TTGTGGCTATCTCTGTTAAAAGAAAGCCTTTGTAGCGATC
* * * * * * *
21528074 TTTGTTAAAAGGAAGCCTTACTGGCTATATCGGTTAAAAGCAAGCCTTTGT-GATGATC
1 TCTATTAAAAGGAAGCCTT-GTGGCTATCTCTGTTAAAAGAAAGCCTTTGTAG-CGATC
* *
21528132 TCTATTAAAAAGAAGCCTCTGTGGCGATCTCTGTTAAAA
1 TCTATTAAAAGGAAGCCT-TGTGGCTATCTCTGTTAAAA
21528171 AGATGTCTTG
Statistics
Matches: 76, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
57 5 0.07
58 70 0.92
59 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (57 bp):
TCTATTAAAAGGAAGCCTTGTGGCTATCTCTGTTAAAAGAAAGCCTTTGTAGCGATC
Found at i:21528171 original size:29 final size:29
Alignment explanation
Indices: 21528021--21528173 Score: 121
Period size: 29 Copynumber: 5.3 Consensus size: 29
21528011 CCAACTTCTA
* * * *
21528021 TAAAAGGATGCCTTTGTGGCTATCTTTGT
1 TAAAAAGAAGCCTTTGTGGCGATCTCTGT
* * *
21528050 T-AAAAGAAAGTCTTTGTAGCGATCTTTGT
1 TAAAAAG-AAGCCTTTGTGGCGATCTCTGT
* ** * * *
21528079 TAAAAGGAAGCCTTACTGGCTATATCGGT
1 TAAAAAGAAGCCTTTGTGGCGATCTCTGT
** *
21528108 T-AAAAGCAAGCCTTTGTGATGATCTCTAT
1 TAAAAAG-AAGCCTTTGTGGCGATCTCTGT
*
21528137 TAAAAAGAAGCCTCTGTGGCGATCTCTGT
1 TAAAAAGAAGCCTTTGTGGCGATCTCTGT
21528166 TAAAAAGA
1 TAAAAAGA
21528174 TGTCTTGTGG
Statistics
Matches: 93, Mismatches: 27, Indels: 8
0.73 0.21 0.06
Matches are distributed among these distances:
28 8 0.09
29 76 0.82
30 9 0.10
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (29 bp):
TAAAAAGAAGCCTTTGTGGCGATCTCTGT
Found at i:21532190 original size:29 final size:29
Alignment explanation
Indices: 21532137--21532241 Score: 104
Period size: 29 Copynumber: 3.6 Consensus size: 29
21532127 TGTTTAAAAA
* *
21532137 AAGCCTTTGTGG-TGATGTATGTTAAAAGG
1 AAGCCTTTGTGGCT-ATCTATATTAAAAGG
21532166 AAGCCTTTGTGGCTATCTATATTAAAAGG
1 AAGCCTTTGTGGCTATCTATATTAAAAGG
* * ** ** *
21532195 AAGCTTTTATGGAAATCTCCATCAAAAGG
1 AAGCCTTTGTGGCTATCTATATTAAAAGG
*
21532224 AAGCCTTTGTGGCGATCT
1 AAGCCTTTGTGGCTATCT
21532242 TTGTTAACAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
29 61 0.98
30 1 0.02
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (29 bp):
AAGCCTTTGTGGCTATCTATATTAAAAGG
Found at i:21543742 original size:39 final size:39
Alignment explanation
Indices: 21543488--21543750 Score: 241
Period size: 40 Copynumber: 6.6 Consensus size: 39
21543478 TTGAATGCTG
* * * * *
21543488 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
21543528 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
*
21543567 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATAC-AAA
1 -TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
21543607 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
21543648 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG-T-CGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATAC--TAAA
* * *
21543688 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
21543727 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
21543751 TGAACGAGGA
Statistics
Matches: 196, Mismatches: 15, Indels: 25
0.83 0.06 0.11
Matches are distributed among these distances:
38 1 0.01
39 38 0.19
40 142 0.72
41 14 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:21543770 original size:79 final size:80
Alignment explanation
Indices: 21543541--21543785 Score: 205
Period size: 80 Copynumber: 3.1 Consensus size: 80
21543531 GGACTAAGAT
* * * * ** *
21543541 CCGAAGG-CATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCATTTGTGCGA-GATA
1 CCGAAGGCCA-TTGTGCGAGATACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-G
*
21543603 C-AAATTCCGGGTTAAGCC
63 CTAAA-TCCGGGTTAAGTC
* * * ** ** *
21543621 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCGTTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
21543686 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * * *
21543701 CCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
21543765 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
21543779 CCGAAGG
1 CCGAAGG
21543786 TACGTGATTT
Statistics
Matches: 137, Mismatches: 24, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
78 14 0.10
79 49 0.36
80 67 0.49
81 7 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:21549397 original size:27 final size:27
Alignment explanation
Indices: 21549366--21549419 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
21549356 TTTGTTAAGA
21549366 AGAAATTTTCTAATTAAGACTTAATTT
1 AGAAATTTTCTAATTAAGACTTAATTT
*
21549393 AGAAATTTTCTAATTAAGAGTTAATTT
1 AGAAATTTTCTAATTAAGACTTAATTT
21549420 TTTTTAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (27 bp):
AGAAATTTTCTAATTAAGACTTAATTT
Found at i:21553029 original size:13 final size:13
Alignment explanation
Indices: 21553011--21553035 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21553001 ATTGGGTTTT
21553011 AATTAATTAATTA
1 AATTAATTAATTA
21553024 AATTAATTAATT
1 AATTAATTAATT
21553036 GAAGTGGTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
AATTAATTAATTA
Found at i:21558998 original size:43 final size:43
Alignment explanation
Indices: 21558962--21559099 Score: 134
Period size: 43 Copynumber: 3.2 Consensus size: 43
21558952 AGATCATGGT
* * * *
21558962 CTTTAGCAGCACTTTTGCCACAAACGCCACTAAAGATCATAAC
1 CTTTAGCAGCACTTTTGCCACAAAAGCCGCTAAAAATCATGAC
* * * * * *
21559005 CTTTAGC-GACGCTTCTACAACAAATGCCGCTAAAAATCATGGTC
1 CTTTAGCAG-CACTTTTGCCACAAAAGCCGCTAAAAATCAT-GAC
* * *
21559049 TTTTAGCGGCACTTTTGTCACAAAAGCCGCTAAAAATCATGAC
1 CTTTAGCAGCACTTTTGCCACAAAAGCCGCTAAAAATCATGAC
21559092 CTTTAGCA
1 CTTTAGCA
21559100 ACGCTTCTAT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
42 1 0.01
43 39 0.53
44 32 0.44
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (43 bp):
CTTTAGCAGCACTTTTGCCACAAAAGCCGCTAAAAATCATGAC
Found at i:21559064 original size:87 final size:86
Alignment explanation
Indices: 21558940--21559128 Score: 243
Period size: 87 Copynumber: 2.2 Consensus size: 86
21558930 TTATGTGAAA
* * * * *
21558940 AAACACCGTTAAAGATCATGGTCTTTAGCAGCACTTTTGCCACAAACGCCACTAAAGATCATAAC
1 AAACGCCGCTAAAAATCATGGTCTTTAGCAGCACTTTTGCCACAAAAGCCACTAAAAATCATAAC
*
21559005 CTTTAGCGACGCTTCTACAAC
66 CTTTAGCAACGCTTCTACAAC
* * * * *
21559026 AAATGCCGCTAAAAATCATGGTCTTTTAGCGGCACTTTTGTCACAAAAGCCGCTAAAAATCATGA
1 AAACGCCGCTAAAAATCATGGTC-TTTAGCAGCACTTTTGCCACAAAAGCCACTAAAAATCATAA
**
21559091 CCTTTAGCAACGCTTCTATTAC
65 CCTTTAGCAACGCTTCTACAAC
21559113 AAACGCCGCTATAAAA
1 AAACGCCGCTA-AAAA
21559129 ATGACTTTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
86 19 0.22
87 64 0.74
88 4 0.05
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAAATCATGGTCTTTAGCAGCACTTTTGCCACAAAAGCCACTAAAAATCATAAC
CTTTAGCAACGCTTCTACAAC
Found at i:21559115 original size:43 final size:43
Alignment explanation
Indices: 21558981--21559172 Score: 158
Period size: 43 Copynumber: 4.5 Consensus size: 43
21558971 CACTTTTGCC
* * * *
21558981 ACAAACGCCACTAAAGATCATAACCTTTAGCGACGCTTCTACA
1 ACAAACGCCGCTAAAAATCATGACCTTTAGCGACGCTTCTATA
* * * * * * * *
21559024 ACAAATGCCGCTAAAAATCATGGTCTTTTAGCGGCACTTTTGTC
1 ACAAACGCCGCTAAAAATCAT-GACCTTTAGCGACGCTTCTATA
* * *
21559068 ACAAAAGCCGCTAAAAATCATGACCTTTAGCAACGCTTCTATT
1 ACAAACGCCGCTAAAAATCATGACCTTTAGCGACGCTTCTATA
* * * *
21559111 ACAAACGCCGCTATAAAA--ATGACTTTTAGTGACGCTT-TTTC
1 ACAAACGCCGCTA-AAAATCATGACCTTTAGCGACGCTTCTATA
*
21559152 ACAAACGCCGTTAAAAA-CATG
1 ACAAACGCCGCTAAAAATCATG
21559173 CTTATAAAAA
Statistics
Matches: 118, Mismatches: 28, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
40 4 0.03
41 17 0.14
42 16 0.14
43 44 0.37
44 37 0.31
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAATCATGACCTTTAGCGACGCTTCTATA
Found at i:21559146 original size:42 final size:41
Alignment explanation
Indices: 21559060--21559168 Score: 109
Period size: 42 Copynumber: 2.6 Consensus size: 41
21559050 TTTAGCGGCA
*
21559060 CTTTTGTCACAAAAGCCGCTA-AAAATCATGACCTTTAGCAACG
1 CTTTT-TCACAAACGCCGCTATAAAA--ATGACCTTTAGCAACG
* **
21559103 CTTCTATT-ACAAACGCCGCTATAAAAATGACTTTTAGTGACG
1 CTT-T-TTCACAAACGCCGCTATAAAAATGACCTTTAGCAACG
21559145 CTTTTTCACAAACGCCG-T-TAAAAA
1 CTTTTTCACAAACGCCGCTATAAAAA
21559169 CATGCTTATA
Statistics
Matches: 58, Mismatches: 4, Indels: 12
0.78 0.05 0.16
Matches are distributed among these distances:
39 6 0.10
40 3 0.05
41 11 0.19
42 16 0.28
43 15 0.26
44 6 0.10
45 1 0.02
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (41 bp):
CTTTTTCACAAACGCCGCTATAAAAATGACCTTTAGCAACG
Found at i:21563478 original size:40 final size:40
Alignment explanation
Indices: 21563377--21563479 Score: 152
Period size: 40 Copynumber: 2.5 Consensus size: 40
21563367 TTTTGTGGCA
* *
21563377 TTTTTAAAATAGCACCGCTAAAGCTCAATCTATAGCGGCGT
1 TTTTTAAAA-AGCGCCGCTAATGCTCAATCTATAGCGGCGT
* *
21563418 TTTTTAAGAAGCGCCGCTAATGCTCGATCTATAGCGGCGT
1 TTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGT
*
21563458 TTTTTAAAAATCGCCGCTAATG
1 TTTTTAAAAAGCGCCGCTAATG
21563480 TCTTTTATTT
Statistics
Matches: 56, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
40 48 0.86
41 8 0.14
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.31
Consensus pattern (40 bp):
TTTTTAAAAAGCGCCGCTAATGCTCAATCTATAGCGGCGT
Found at i:21563791 original size:27 final size:27
Alignment explanation
Indices: 21563730--21563798 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
21563720 AAATTAACCA
* * *
21563730 TTCAATACATATAAAGTATACTCATAT
1 TTCAATACATTTAAACTACACTCATAT
*
21563757 TTAAAATA-ATTTAAACTACACTCATAAT
1 TT-CAATACATTTAAACTACACTCAT-AT
*
21563785 TTCAATATATTTAA
1 TTCAATACATTTAA
21563799 TTTATTATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
27 20 0.59
28 14 0.41
ACGTcount: A:0.46, C:0.13, G:0.01, T:0.39
Consensus pattern (27 bp):
TTCAATACATTTAAACTACACTCATAT
Found at i:21563913 original size:15 final size:16
Alignment explanation
Indices: 21563888--21563918 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
21563878 CCCTAACTTG
21563888 ACCCTTAAATCCCTAA
1 ACCCTTAAATCCCTAA
21563904 ACCC-TAAATCCCTAA
1 ACCCTTAAATCCCTAA
21563919 CTCTTAACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.23
Consensus pattern (16 bp):
ACCCTTAAATCCCTAA
Found at i:21564009 original size:15 final size:14
Alignment explanation
Indices: 21563987--21564021 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
21563977 TCTGAACCCT
21563987 TAAACCATAATCCC
1 TAAACCATAATCCC
*
21564001 TAAATCCATACTCCC
1 TAAA-CCATAATCCC
21564016 TAAACC
1 TAAACC
21564022 TTAAAATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.40, C:0.37, G:0.00, T:0.23
Consensus pattern (14 bp):
TAAACCATAATCCC
Found at i:21564264 original size:21 final size:21
Alignment explanation
Indices: 21564240--21564325 Score: 68
Period size: 21 Copynumber: 4.0 Consensus size: 21
21564230 ATCAAACCCC
*
21564240 TAAACCCTTACCCCTAAACCT
1 TAAACCCTAACCCCTAAACCT
* *
21564261 TAAATCCC-AACCCTTAAACCA
1 TAAA-CCCTAACCCCTAAACCT
* * * *
21564282 TAATCCCTAACCCATAATCCC
1 TAAACCCTAACCCCTAAACCT
21564303 TAAACCC-ATACTCCCTAAACCT
1 TAAACCCTA-AC-CCCTAAACCT
21564325 T
1 T
21564326 TAAATAGTAA
Statistics
Matches: 50, Mismatches: 11, Indels: 7
0.74 0.16 0.10
Matches are distributed among these distances:
20 4 0.08
21 35 0.70
22 11 0.22
ACGTcount: A:0.36, C:0.41, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAACCCCTAAACCT
Found at i:21564296 original size:14 final size:14
Alignment explanation
Indices: 21564279--21564320 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
21564269 AACCCTTAAA
21564279 CCATAATCCCTAAC
1 CCATAATCCCTAAC
21564293 CCATAATCCCTAAAC
1 CCATAATCCCT-AAC
*
21564308 CCATACTCCCTAA
1 CCATAATCCCTAA
21564321 ACCTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.36, C:0.43, G:0.00, T:0.21
Consensus pattern (14 bp):
CCATAATCCCTAAC
Found at i:21564308 original size:15 final size:15
Alignment explanation
Indices: 21564275--21564323 Score: 75
Period size: 15 Copynumber: 3.4 Consensus size: 15
21564265 TCCCAACCCT
21564275 TAAA-CCATAATCCC
1 TAAACCCATAATCCC
21564289 T-AACCCATAATCCC
1 TAAACCCATAATCCC
*
21564303 TAAACCCATACTCCC
1 TAAACCCATAATCCC
21564318 TAAACC
1 TAAACC
21564324 TTTAAATAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
13 2 0.06
14 12 0.38
15 18 0.56
ACGTcount: A:0.39, C:0.41, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCC
Found at i:21564371 original size:302 final size:297
Alignment explanation
Indices: 21563797--21564394 Score: 864
Period size: 302 Copynumber: 2.0 Consensus size: 297
21563787 CAATATATTT
*
21563797 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAATTCAAAAAATAAT
1 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAACTCAAAAAATAAT
** *
21563862 TAATCTAAACCCAAAACCCTAACTTGACCCTTAAATCCCTAAACCCTAAATCCCTAACTCTTAAC
66 TAATCTAAACCCAAAACCCTAACCCGACCCTTAAATCCCTAAACCCTAAATCCCTAACTCATAAC
** * * * *
21563927 CTTTAACTTCTAACCCCGAAACCCTTAACCCATAACCCCTAAACCTTAAATCTGAACCCTTAAAC
131 CCCTAACATCAAACCCCGAAACCCTTAACCCATAACCCCCAAACCTTAAACCTGAACCCTTAAAC
* *
21563992 CATAATCCCTAAATCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGTCTTAAATATT
196 CATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATT
* *
21564057 AAATTAATCATATACCCTAAACTAAAAACCCTAAACA
261 AAATAAATCATATACCCTAAACCAAAAACCCTAAACA
21564094 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAACT-AAAAAATAAT
1 AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAACTCAAAAAATAAT
* **
21564158 TAATCTAAACCCAAAACCCTAACCCGACCCTTGAATCCCTAAACCCTAAATCTTTAACTCATAAC
66 TAATCTAAACCCAAAACCCTAACCCGACCCTTAAATCCCTAAACCCTAAATCCCTAACTCATAAC
* * *
21564223 CCCTAACATCAAACCCCTAAACCCTT-ACCCCTAAACCTTAAATCCCAACCCTTAAACCAT-AAT
131 CCCTAACATCAAACCCCGAAACCCTTAACCCAT-AACC------CCCAAACCTTAAACC-TGAA-
* *
21564286 CCC-TAACCCATAATCCCTAAACCCATACTCCCTAAACCTTTAAATA-GTAACTCCTAAACCGGC
187 CCCTTAAACCATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATG-AACTCCTAAACCGGC
*
21564349 CTTAAATCTTAAATAAATCATATACCCTAAACCAAAAACCCTAAAC
251 CTTAAATATTAAATAAATCATATACCCTAAACCAAAAACCCTAAAC
21564395 TATAGTGATA
Statistics
Matches: 268, Mismatches: 23, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
295 5 0.02
296 94 0.35
297 53 0.20
301 1 0.00
302 111 0.41
303 4 0.01
ACGTcount: A:0.42, C:0.28, G:0.02, T:0.28
Consensus pattern (297 bp):
AATTTATTATTATCTCTTTTACAATTATATAAGAACATATTTAAAATATAAACTCAAAAAATAAT
TAATCTAAACCCAAAACCCTAACCCGACCCTTAAATCCCTAAACCCTAAATCCCTAACTCATAAC
CCCTAACATCAAACCCCGAAACCCTTAACCCATAACCCCCAAACCTTAAACCTGAACCCTTAAAC
CATAATCCCTAAACCCATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATATT
AAATAAATCATATACCCTAAACCAAAAACCCTAAACA
Found at i:21564733 original size:41 final size:41
Alignment explanation
Indices: 21564670--21565052 Score: 407
Period size: 41 Copynumber: 9.3 Consensus size: 41
21564660 TAAAATGTTT
*
21564670 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCACCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* * *
21564711 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAAGCACCCAACT
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* **
21564752 TTAGCGACGCTTTTCCAAAAATTCCGCTAAAG-ACCCTAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCC-AGCA
* *
21564793 TTAGCGGCGCTTTTCCAGAAACGCCACTAAAG-ACCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCA-CCCAGCA
*
21564834 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
** *
21564875 TTAGCGGCGCTTTTTAAAAAACGCCGCTAAAACACCCAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* ** * * ** **
21564916 TTAGCGGCGGTTTTTAAAAAATGCCACTAAAAAACAGAGCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
* * * * *
21564957 TTAGCGGCGCTTTTCCAAAAACACCACTAAATC-CTCGACCA
1 TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCAC-CCAGCA
* * * *
21564998 TTAGCAGCGCATTTT-CAAAAATGCCGCTAAAGC-CCTGACCA
1 TTAGCGGCGC-TTTTCCAAAAACGCCGCTAAAGCACC-CAGCA
21565039 TTAGCGGCGCTTTT
1 TTAGCGGCGCTTTT
21565053 TTGAAAACGA
Statistics
Matches: 293, Mismatches: 43, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
40 10 0.03
41 276 0.94
42 7 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTCCAAAAACGCCGCTAAAGCACCCAGCA
Found at i:21564895 original size:123 final size:123
Alignment explanation
Indices: 21564670--21565053 Score: 459
Period size: 123 Copynumber: 3.1 Consensus size: 123
21564660 TAAAATGTTT
* *
21564670 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG-CACCCAGCATTAGCGGCGCTTTTCCAGAAACG
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGAC-CCCAGCATTAGCGGCGCTTTTCCAAAAACG
* * * * *
21564734 CCGCTAAAGCACCCAACTTTAGCGACGCTTTTCCAAAAATTCCGCTAAAGACCCTAGCA
65 CCGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCTAGCA
* *
21564793 TTAGCGGCGCTTTTCCAGAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
* * * *
21564858 CGCTAAAGCCCCCAGCATTAGCGGCGCTTTTTAAAAAACGCCGCTAAA-ACACCCAGCA
66 CGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGAC-CCTAGCA
* * * * * ** *
21564916 TTAGCGGCGGTTTTTAAAAAATGCCACTAAAAAACAGAGCATTAGCGGCGCTTTTCCAAAAACAC
1 TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
* * * * * * * *
21564981 CACTAAATCCTCGACCATTAGCAGCGCATTTTCAAAAATGCCGCTAAAG-CCCTGACCA
66 CGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCT-AGCA
21565039 TTAGCGGCGCTTTTT
1 TTAGCGGCGCTTTTT
21565054 TGAAAACGAC
Statistics
Matches: 222, Mismatches: 35, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
122 4 0.02
123 217 0.98
124 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (123 bp):
TTAGCGGCGCTTTTTCAAAAACGCCACTAAAGACCCCAGCATTAGCGGCGCTTTTCCAAAAACGC
CGCTAAAGCCCCCAACATTAGCGGCGCTTTTTCAAAAATGCCGCTAAAGACCCTAGCA
Found at i:21572008 original size:25 final size:25
Alignment explanation
Indices: 21571948--21572008 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
21571938 CTCCTAAATT
*
21571948 TTAATTTAATTATCTAATTTTTTAA
1 TTAATTAAATTATCTAATTTTTTAA
* *
21571973 TTTATTGAATTAT-TAATATTTTCT-A
1 TTAATTAAATTATCTAAT-TTTT-TAA
21571998 TTAATTAAATT
1 TTAATTAAATT
21572009 TTTTAGAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 4 0.13
25 25 0.83
26 1 0.03
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (25 bp):
TTAATTAAATTATCTAATTTTTTAA
Found at i:21576171 original size:53 final size:53
Alignment explanation
Indices: 21576110--21576216 Score: 189
Period size: 53 Copynumber: 2.0 Consensus size: 53
21576100 AGTCTTTTAT
21576110 GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATA-GAGATATGTACAAGA
1 GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATAGGA-ATATGTACAAGA
*
21576163 GTGCTTATTAAATTGAGTTAATTGTTTGAATTGACATAGGAATATGTACAAGA
1 GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATAGGAATATGTACAAGA
21576216 G
1 G
21576217 ATTATTTCAA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
53 50 0.96
54 2 0.04
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGCTTATTAAATCGAGTTAATTGTTTGAATTGACATAGGAATATGTACAAGA
Found at i:21582952 original size:19 final size:19
Alignment explanation
Indices: 21582919--21582968 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
21582909 TGGACTTATG
** *
21582919 TTGCTTCAACATATTTTCC
1 TTGCTTCAATTTATTATCC
*
21582938 TTGCTTCAATTTATTATCG
1 TTGCTTCAATTTATTATCC
*
21582957 TTGCTTTAATTT
1 TTGCTTCAATTT
21582969 TTACCAGTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (19 bp):
TTGCTTCAATTTATTATCC
Found at i:21588151 original size:50 final size:50
Alignment explanation
Indices: 21588062--21588402 Score: 353
Period size: 50 Copynumber: 6.8 Consensus size: 50
21588052 ATTTGGGTAA
* * * *
21588062 AGAGATCCTATGTAAGACCATGTCTGGAACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
21588112 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * *
21588162 AGAGGTCCCATGTAAGACCATGTTTGGGACATGACATTGGCACAGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
21588212 AGAGGTCCCATGTAAGACCATGTTTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
21588262 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * * * *
21588312 AGAACTCTCATGTACGACCATATCTAGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** * * *
21588361 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
21588403 TGTTATATTC
Statistics
Matches: 243, Mismatches: 47, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
49 34 0.14
50 209 0.86
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:21588604 original size:12 final size:12
Alignment explanation
Indices: 21588587--21588630 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
21588577 AGGAGTAAGT
*
21588587 TAAGTAAGCAAG
1 TAAGTAAACAAG
*
21588599 TAAGTAAACGAG
1 TAAGTAAACAAG
*
21588611 TAAGTAAAGAAG
1 TAAGTAAACAAG
*
21588623 AAAGTAAA
1 TAAGTAAA
21588631 GATCTTACTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.57, C:0.05, G:0.23, T:0.16
Consensus pattern (12 bp):
TAAGTAAACAAG
Found at i:21595526 original size:8 final size:9
Alignment explanation
Indices: 21595494--21595526 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
21595484 TTGCCACCCT
21595494 AGTGATTTC
1 AGTGATTTC
21595503 AGTGATTTC
1 AGTGATTTC
*
21595512 GGTGATTTC
1 AGTGATTTC
21595521 -GTGATT
1 AGTGATT
21595527 CAATTTGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
8 6 0.26
9 17 0.74
ACGTcount: A:0.18, C:0.09, G:0.27, T:0.45
Consensus pattern (9 bp):
AGTGATTTC
Found at i:21600964 original size:40 final size:40
Alignment explanation
Indices: 21600934--21601143 Score: 305
Period size: 40 Copynumber: 5.3 Consensus size: 40
21600924 GGACTAAGAT
* * * *
21600934 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
21600974 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
21601014 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
21601054 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
21601094 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
21601133 CCAAAGGCATT
1 CCGAAGGCATT
21601144 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 33 0.21
40 125 0.79
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:21601018 original size:80 final size:80
Alignment explanation
Indices: 21600881--21601143 Score: 307
Period size: 80 Copynumber: 3.3 Consensus size: 80
21600871 TTGAATGCTG
* * * * * **
21600881 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
21600944 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
21600961 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
21601026 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * *
21601041 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
21601105 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
21601120 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21601144 TGAACGAGGA
Statistics
Matches: 158, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
79 35 0.22
80 117 0.74
81 6 0.04
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:21601095 original size:120 final size:120
Alignment explanation
Indices: 21600881--21601143 Score: 316
Period size: 120 Copynumber: 2.2 Consensus size: 120
21600871 TTGAATGCTG
* * *
21600881 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
21600945 TGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
66 CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
* * * * **
21601001 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * *
21601064 TCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
21601120 ACCGGGCTATGTCCCAAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
21601144 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
119 34 0.28
120 81 0.67
121 6 0.05
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:21608871 original size:40 final size:40
Alignment explanation
Indices: 21608828--21609083 Score: 284
Period size: 40 Copynumber: 6.4 Consensus size: 40
21608818 CTGTCCCGGC
* * * * **
21608828 TAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGAC
1 TAAGTCCCGAAGGCATTCGTGC-AAGTTATTAAATCCGGGT
* * * * *
21608868 TAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
21608908 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
*
21608948 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
* *
21608988 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
* ** * * *
21609028 TATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
*
21609067 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
21609084 TGAACGAGGA
Statistics
Matches: 193, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 150 0.78
41 8 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGT
Found at i:21608970 original size:80 final size:79
Alignment explanation
Indices: 21608828--21609083 Score: 318
Period size: 80 Copynumber: 3.2 Consensus size: 79
21608818 CTGTCCCGGC
* * * * ** *
21608828 TAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTTTGTGCG
1 TAAGTCCCGAAGGCATTCGTGC-AAGTTATTAAATCCGGGTTAAG-TCCCGAAGG-CATTGTGCG
*
21608891 AGATACTAAATCCGGGT
63 AGTTACTAAATCCGGGT
21608908 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAG
1 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGCGAG
*
21608973 TTATTAAATCCGGGT
65 TTACTAAATCCGGGT
* * * *
21608988 TAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGT
1 TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGT
* *
21609053 TACTAAAACCGGGC
66 TACTAAATCCGGGT
*
21609067 TATGTCCCGAAGGCATT
1 TAAGTCCCGAAGGCATT
21609084 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
79 38 0.24
80 112 0.72
81 6 0.04
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
TAAGTCCCGAAGGCATTCGTGCAAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGCGAGT
TACTAAATCCGGGT
Found at i:21617674 original size:50 final size:50
Alignment explanation
Indices: 21617599--21617940 Score: 477
Period size: 50 Copynumber: 6.8 Consensus size: 50
21617589 ATCATAACAA
* * *
21617599 GCCAAAGCCAAGTCCCAGACATGGTCTTACATGGGACATCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
**** * ***
21617649 GCCAATAAAATCTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* *
21617699 GCCAACGCCATGTCCAAGACATGGTCTTACATGTGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * **
21617749 GCCAACACCATGTCCCAGACATGGTCTTACATGAGACCTCTTATCTTAGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
21617799 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
* * * *
21617849 GCCAACGTCGTGTCCTAGACATGGTCTTACGTGGGACCTCTCATCTCGGT
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
*
21617899 GCCAACGCCATGTCCCAGACATGTTCTTACATGGGACCTCTC
1 GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC
21617941 TACTCAAATG
Statistics
Matches: 252, Mismatches: 40, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 252 1.00
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.25
Consensus pattern (50 bp):
GCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGT
Found at i:21618313 original size:30 final size:30
Alignment explanation
Indices: 21618278--21618335 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 30
21618268 CCTCGAATCT
21618278 AACTTTGT-CAAAATTACGATT-TTGCCCCTA
1 AACTTT-TACAAAATTAC-ATTATTGCCCCTA
*
21618308 AACTTTTACATAATTACATTATTGCCCC
1 AACTTTTACAAAATTACATTATTGCCCC
21618336 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTACAAAATTACATTATTGCCCCTA
Found at i:21623234 original size:20 final size:19
Alignment explanation
Indices: 21623187--21623245 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 19
21623177 TCAAGTTCAT
21623187 TCAGCTCAATTTTAGCTC-A
1 TCAGCTC-ATTTTAGCTCAA
* *
21623206 CCGAACTCACTTTTAGCTCAA
1 TC-AGCTCA-TTTTAGCTCAA
21623227 TCAGCTCATTTTAAGCTCA
1 TCAGCTCATTTT-AGCTCA
21623246 TTTGTGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 6 0.19
20 24 0.75
21 2 0.06
ACGTcount: A:0.27, C:0.29, G:0.10, T:0.34
Consensus pattern (19 bp):
TCAGCTCATTTTAGCTCAA
Found at i:21625892 original size:39 final size:40
Alignment explanation
Indices: 21625849--21626018 Score: 243
Period size: 40 Copynumber: 4.3 Consensus size: 40
21625839 TCCTCGTTCA
* * *
21625849 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
21625888 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
* *
21625928 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
* * * * *
21625968 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
21626008 AATGCCTTCGG
1 AATGCCTTCGG
21626019 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 8, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 36 0.30
40 86 0.70
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCACACG
Found at i:21625947 original size:40 final size:39
Alignment explanation
Indices: 21625849--21626071 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 39
21625839 TCCTCGTTCA
* * * *
21625849 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC
*
21625888 AATGCCTTCGGGACATAACCCGGATTTAATAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC
*
21625927 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC
* * *
21625967 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC
** * * * *
21626007 AAATGCCTTC-GGATCTTAGTCCGGATGTATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAATAACTCA-CAC
* *
21626048 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21626072 CAGCATTCAA
Statistics
Matches: 162, Mismatches: 18, Indels: 7
0.87 0.10 0.04
Matches are distributed among these distances:
39 39 0.24
40 117 0.72
41 6 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCACAC
Found at i:21626071 original size:120 final size:119
Alignment explanation
Indices: 21625849--21626071 Score: 279
Period size: 120 Copynumber: 1.9 Consensus size: 119
21625839 TCCTCGTTCA
* * *
21625849 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATG
*
21625914 TAATAACTCACACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 TAATAACTCACACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * **
21625968 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AATGCCTTCGGGA-CATAACCCGGA
* * * *
21626032 TGTATTCACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TGTAATAACTCA-CACGAAAGCCTTCGGGACTTAACCCGGA
21626072 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.43
120 47 0.54
121 3 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATG
TAATAACTCACACGAAAGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21626080 original size:41 final size:41
Alignment explanation
Indices: 21626003--21626080 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21625993 TTAGTATCTC
* * *
21626003 GCACAAATGCCTTCGGATCTTAGTCCGGATGTATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGAAGCATTCACTTA
21626044 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGA-AGCATTCA
21626081 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGAAGCATTCACTTA
Found at i:21633441 original size:40 final size:40
Alignment explanation
Indices: 21633341--21633565 Score: 267
Period size: 40 Copynumber: 5.7 Consensus size: 40
21633331 GCTCCTCGTT
* * * * *
21633341 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
*
21633381 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
21633420 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
* * *
21633460 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
** * * * *
21633500 CAAATGCCTTC-GGATCTTAGTCCGGATGTATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCA
*
21633541 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
21633566 CAGCATTCAA
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 38 0.23
40 115 0.70
41 11 0.07
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
Found at i:21633574 original size:41 final size:41
Alignment explanation
Indices: 21633497--21633574 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21633487 TTAGTATCTC
* * *
21633497 GCACAAATGCCTTCGGATCTTAGTCCGGATGTATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGAAGCATTCACTTA
21633538 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGA-AGCATTCA
21633575 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 16 0.50
41 16 0.50
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGAAGCATTCACTTA
Found at i:21652687 original size:246 final size:246
Alignment explanation
Indices: 21652253--21652728 Score: 790
Period size: 246 Copynumber: 1.9 Consensus size: 246
21652243 AGCTTACTAA
*
21652253 ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGATACAAAAACTACCAACTTAGAT
1 ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
*
21652318 GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTCTCTACAAAACAATCC
66 GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTATCTACAAAACAATCC
* * * *
21652383 ACAATAAGAGATAAGCTTACATAACTCAGTATGGACATAGTATAACATTTAATCTAAATACAATT
131 ACAAGAACAGATAAGCTTACATAACTCAGTAAGGACATAGTATAACATATAATCTAAATACAATT
* *
21652448 AGACACAATCCATATACTATTTGATTTAGGGTTATGAAACTATTTAACCAC
196 AGACACAACCCATATACTATTTGACTTAGGGTTATGAAACTATTTAACCAC
*
21652499 ACCAACATATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
1 ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
* * * * * *
21652564 GGATAGTGTGAGTCGATTGATTGATCCTTCCAAAATGTCAGTAACGATTATCTACAAAACAATCC
66 GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTATCTACAAAACAATCC
* * *
21652629 ACAAGAACCGGTAAGCTTACATAACTTAGTAAGGACATAGTATAACATATAATCTAAATACAATT
131 ACAAGAACAGATAAGCTTACATAACTCAGTAAGGACATAGTATAACATATAATCTAAATACAATT
21652694 AGACACAACCCATATACTATTTGACTTAGGGTTAT
196 AGACACAACCCATATACTATTTGACTTAGGGTTAT
21652729 CAAAGTATAA
Statistics
Matches: 212, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
246 212 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (246 bp):
ACCAACACATTTATCTATATATACATGCCACTACCCTAGGAGACACAAAAACTACCAACTTAGAT
GGATAATATGAGCCAATTGATCGATCCTTCCAAAATGTCAGCAACGATTATCTACAAAACAATCC
ACAAGAACAGATAAGCTTACATAACTCAGTAAGGACATAGTATAACATATAATCTAAATACAATT
AGACACAACCCATATACTATTTGACTTAGGGTTATGAAACTATTTAACCAC
Found at i:21656027 original size:47 final size:47
Alignment explanation
Indices: 21655958--21656050 Score: 159
Period size: 47 Copynumber: 2.0 Consensus size: 47
21655948 GTGGAAATCT
* * *
21655958 AAGTGCAGAACAAGGGGAAATAGAGAGATCTAGTTGATTAGCCTAGA
1 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAGA
21656005 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAG
1 AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAG
21656051 GAATAGTATT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.41, C:0.12, G:0.30, T:0.17
Consensus pattern (47 bp):
AAGTGCAGAACAAAGGGAAATAGAGAGATCCAGTTGAGTAGCCTAGA
Found at i:21674627 original size:27 final size:27
Alignment explanation
Indices: 21674346--21674743 Score: 354
Period size: 27 Copynumber: 15.2 Consensus size: 27
21674336 ACAGTCATTC
* * * *
21674346 TACCATTCGGGGGTATATCAGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
21674373 TACCCTTCGAGGGTATTT-GAATAATTT
1 TACCCTTCGAGGGTATTTCG-GTAATTT
*
21674400 TACCCTTTGAGGGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
* ***
21674427 TACAC-AAAAGGGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
* * *
21674453 TACCTTTCGAGGGTATTTCTGTAATTC
1 TACCCTTCGAGGGTATTTCGGTAATTT
* * *
21674480 CACCCTTCAAGGGTATTTCGG----TC
1 TACCCTTCGAGGGTATTTCGGTAATTT
* ***
21674503 TACCCTTCTAGGGTATTTCAAAAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
21674530 TACCCTTCGAGGGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
* *
21674557 TACCCTTCGAGGGTATTTCGATAACTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
21674584 TACCCTTCGAGGGTATTTAGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
21674611 TACCCTTCAAGGGTA-TTC--TAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*** *
21674635 TACCC-AAAAGGGTATTTCAGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*** * *
21674661 TACCC-AAAAGGATATTTCAGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*
21674687 TACCCTTCGAGCGTATTTCGGTAATTT
1 TACCCTTCGAGGGTATTTCGGTAATTT
*** *
21674714 TACCC-AAAAGGGTATTTCGATAA-TT
1 TACCCTTCGAGGGTATTTCGGTAATTT
21674739 TACCC
1 TACCC
21674744 ACGAATCATA
Statistics
Matches: 308, Mismatches: 52, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
23 26 0.08
24 14 0.05
25 7 0.02
26 72 0.23
27 188 0.61
28 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (27 bp):
TACCCTTCGAGGGTATTTCGGTAATTT
Found at i:21674677 original size:157 final size:155
Alignment explanation
Indices: 21674368--21674744 Score: 397
Period size: 157 Copynumber: 2.4 Consensus size: 155
21674358 GTATATCAGT
* * * *
21674368 AATTTTACCCTTCGAGGGTATTT-GAATAATTTTACCCTTTGAGGGTATTTCGGTAATTTTACAC
1 AATTTTACCCTTCGAGGGTATTTCG-GTAATTTTACCCTTAGAGGGTATTTCGATAA-TTTACCC
* * * **
21674432 AAAAGGGTATTTCGGTAATTTTACCTTTCGAGGGTATTTCTGTAATTCCACCCTTCAAGGGTATT
64 AAAAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTC-GTAATTCCACCCTAAAAGGGTATT
*** *
21674497 TCGGTCTACCCTTCTAGGGTATTTCAAA
128 TCGGTCTACCCTAAAAGGATATTTCAAA
*
21674525 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTCGAGGGTATTTCGATAACTTTACCCT
1 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTAGAGGGTATTTCGATAA-TTTACCC-
*** **
21674590 TCGAGGGTATTTAGGTAATTTTACCCTTCAAGGGTA-TTC-TAATTTTACCC-AAAAGGGTATTT
64 AAAAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTCGTAATTCCACCCTAAAAGGGTATTT
* * **
21674652 CAGTAATTTTACCC-AAAAGGATATTTCAGT
129 C-G---GTCTACCCTAAAAGGATATTTCAAA
* * *
21674682 AATTTTACCCTTCGAGCGTATTTCGGTAATTTTACCC-AAAAGGGTATTTCGATAATTTACCCA
1 AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTAGAGGGTATTTCGATAATTTACCCA
21674745 CGAATCATAG
Statistics
Matches: 186, Mismatches: 28, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
154 11 0.06
155 17 0.09
156 15 0.08
157 106 0.57
158 37 0.20
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.38
Consensus pattern (155 bp):
AATTTTACCCTTCGAGGGTATTTCGGTAATTTTACCCTTAGAGGGTATTTCGATAATTTACCCAA
AAGGGTATTTAGGTAATTTTACCCTTCAAGGGTATTTCGTAATTCCACCCTAAAAGGGTATTTCG
GTCTACCCTAAAAGGATATTTCAAA
Found at i:21677494 original size:40 final size:40
Alignment explanation
Indices: 21677263--21677487 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
21677253 TCGAATGATG
* * * * *
21677263 TCCGGGCTAAGTCCCGAAGGC-TTTATGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
21677303 TCCGGACTAACAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21677343 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
21677382 TCCGGGTTAAGTCCCGAAGGCGTTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21677422 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21677463 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21677488 AACGAGTAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 34 0.22
40 115 0.73
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21684047 original size:56 final size:56
Alignment explanation
Indices: 21683961--21684136 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
21683951 ACAAGGGATG
*
21683961 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
21684017 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
21684073 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
21684129 ATGGGCAA
1 ATGGGCAA
21684137 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:21685496 original size:40 final size:40
Alignment explanation
Indices: 21685265--21685489 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
21685255 TCGAATGATG
* * * *
21685265 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
21685305 TCCGGACTAACAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAA-GTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
21685345 TCCGGGCTAAG-CCTGAAGGTATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21685384 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21685424 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
21685465 -CCGGGCTATGTTCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21685490 AACGAGTAGC
Statistics
Matches: 156, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
39 31 0.20
40 115 0.74
41 10 0.06
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21691021 original size:30 final size:30
Alignment explanation
Indices: 21690961--21691022 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 30
21690951 GCTTTTTGAA
** * * *
21690961 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGAAACCAAAATTTT
21690991 AATATTTACAAAAAGAGAAACCAAAATTTT
1 AATATTTACAAAAAGAGAAACCAAAATTTT
21691021 AA
1 AA
21691023 AAATAATTCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (30 bp):
AATATTTACAAAAAGAGAAACCAAAATTTT
Found at i:21707022 original size:15 final size:15
Alignment explanation
Indices: 21707002--21707058 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
21706992 TCTTTAGATA
21707002 TGAAACTATAGACTT-
1 TGAAACTATAGA-TTG
*
21707017 TGAAACTATAAAATTG
1 TGAAACTAT-AGATTG
21707033 TGAAAACTATAGATTG
1 TG-AAACTATAGATTG
*
21707049 TGAGACTATA
1 TGAAACTATA
21707059 AGAAACTGTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
15 18 0.50
16 11 0.31
17 7 0.19
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (15 bp):
TGAAACTATAGATTG
Found at i:21707048 original size:16 final size:16
Alignment explanation
Indices: 21707004--21707051 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
21706994 TTTAGATATG
21707004 AAACTATAGACTT-TG-
1 AAACTATAGA-TTGTGA
*
21707019 AAACTATAAAATTGTGA
1 AAACTAT-AGATTGTGA
21707036 AAACTATAGATTGTGA
1 AAACTATAGATTGTGA
21707052 GACTATAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 7 0.25
ACGTcount: A:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (16 bp):
AAACTATAGATTGTGA
Found at i:21707758 original size:19 final size:19
Alignment explanation
Indices: 21707734--21707770 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
21707724 AGTTAGATAT
21707734 GTGGAGGCCAGGAGCCTTA
1 GTGGAGGCCAGGAGCCTTA
21707753 GTGGAGGCCAGGAGCCTT
1 GTGGAGGCCAGGAGCCTT
21707771 GAGTTTATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.19, C:0.22, G:0.43, T:0.16
Consensus pattern (19 bp):
GTGGAGGCCAGGAGCCTTA
Found at i:21711957 original size:20 final size:22
Alignment explanation
Indices: 21711913--21711959 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
21711903 ACTGATTTAT
21711913 TAAA-ATTGTAAAATTCAAGGA
1 TAAATATTGTAAAATTCAAGGA
*
21711934 -AAATATTGT-AAATT-ATGGA
1 TAAATATTGTAAAATTCAAGGA
21711953 TAAATAT
1 TAAATAT
21711960 GGGCTCTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.51, C:0.02, G:0.13, T:0.34
Consensus pattern (22 bp):
TAAATATTGTAAAATTCAAGGA
Found at i:21718804 original size:50 final size:50
Alignment explanation
Indices: 21718744--21718865 Score: 235
Period size: 50 Copynumber: 2.4 Consensus size: 50
21718734 TCATTCGATA
21718744 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
*
21718794 CACGTAGTAGCCTTCATATAGTACTACACACGTGATCAAGTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
21718844 CACGTAGTAGCCTTCACATAGT
1 CACGTAGTAGCCTTCACATAGT
21718866 GTAACACCCC
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
50 70 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (50 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTT
Found at i:21720245 original size:27 final size:27
Alignment explanation
Indices: 21720215--21720392 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
21720205 ATATTGAGCC
* *
21720215 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
21720242 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21720269 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
* ** ** *
21720297 CGCACTCTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21720324 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
21720351 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21720378 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
21720393 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 101 0.81
28 23 0.19
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21720354 original size:82 final size:81
Alignment explanation
Indices: 21720236--21720391 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
21720226 TGCTATATAA
* * *
21720236 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCA-AATCGCA
*
21720301 CTCTTAGTGCCGCATGG
65 CCCTTAGTGCCGCATGG
* * **
21720318 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
21720382 CCCTTAGTGC
65 CCCTTAGTGC
21720392 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 17 0.26
82 48 0.74
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
CCTTAGTGCCGCATGG
Found at i:21722291 original size:51 final size:50
Alignment explanation
Indices: 21722094--21722517 Score: 383
Period size: 51 Copynumber: 8.4 Consensus size: 50
21722084 TGGGCTGTCA
* *
21722094 CACATAGTACTACACACGTGATCAAGTTT-TACGGTTCACATAGTAGCCTT
1 CACATAGTACTACACACGTGACCAAATTTAT-CGGTTCACATAGTAGCCTT
* * * *
21722144 CACATAATACTACACACGTGATCAAGTTT-TACGGTTCACGTAGTAGCCTT
1 CACATAGTACTACACACGTGACCAAATTTAT-CGGTTCACATAGTAGCCTT
*
21722194 CACATAGTACT--ACACGTGACCAAAGCTTT-TCGGTACACATAGTAGCCTT
1 CACATAGTACTACACACGTGACCAAA--TTTATCGGTTCACATAGTAGCCTT
* * * * *
21722243 CACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
1 CACATAGTACTACACACGTGACCA-AATTTATCGGTTCACATAGTAGCCTT
* * * * * *
21722294 CACACAGTACTACACACGTGACGAAAGCTTCTCGGTACACATTGT-GACCTT
1 CACATAGTACTACACACGTGACCAAA-TTTATCGGTTCACATAGTAG-CCTT
* * * * * *
21722345 TACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
1 CACATAGTACTACACACGTGACCA-AATTTATCGGTTCACATAGTAGCCTT
** * * * * *
21722396 CACACGGTACTACATACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTT
1 CACATAGTACTACACACGTGACCAAA-TTTATCGGTTCACATAGTAGCCTT
* * * * *
21722447 CACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
1 CACATAGTACTACACACGTGACCA-AATTTATCGGTTCACATAGTAGCCTT
*
21722498 CACACAGTACTACACACGTG
1 CACATAGTACTACACACGTG
21722518 TTCATCGATA
Statistics
Matches: 298, Mismatches: 64, Indels: 23
0.77 0.17 0.06
Matches are distributed among these distances:
48 11 0.04
49 27 0.09
50 68 0.23
51 188 0.63
52 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (50 bp):
CACATAGTACTACACACGTGACCAAATTTATCGGTTCACATAGTAGCCTT
Found at i:21722352 original size:102 final size:102
Alignment explanation
Indices: 21722094--21722517 Score: 608
Period size: 102 Copynumber: 4.2 Consensus size: 102
21722084 TGGGCTGTCA
* * * * * * *
21722094 CACATAGTACTACACACGTGATC-AAG-TTTTACGGTTCACATAGTAGCCTTCACATAATACTAC
1 CACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTGTAGCCTTCACTTAGTACTAC
* * *** *
21722157 ACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCCTT
65 ACATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
* * *
21722194 CACATAGTACT--ACACGTGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTACTACA
1 CACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTTCACTTAGTACTACA
21722257 CATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
66 CATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
* *
21722294 CACACAGTACTACACACGTGACGAAAGCTTCTCGGTACACATTGT-GACCTTTACTTAGTACTAC
1 CACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAG-CCTTCACTTAGTACTAC
21722358 ACATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
65 ACATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
* *
21722396 CACACGGTACTACATACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTTCACTTAGTACTACA
1 CACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTTCACTTAGTACTACA
21722461 CATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
66 CATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
21722498 CACACAGTACTACACACGTG
1 CACACAGTACTACACACGTG
21722518 TTCATCGATA
Statistics
Matches: 296, Mismatches: 21, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
98 9 0.03
99 45 0.15
100 43 0.15
101 1 0.00
102 197 0.67
103 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (102 bp):
CACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGTAGCCTTCACTTAGTACTACA
CATGTGACCATCATTTATCGATTCACGTAGTAGCCTT
Found at i:21735494 original size:22 final size:22
Alignment explanation
Indices: 21735460--21735502 Score: 77
Period size: 23 Copynumber: 1.9 Consensus size: 22
21735450 GAATGGCAAT
21735460 TTGTCACATTTTTACTGACAAC
1 TTGTCACATTTTTACTGACAAC
21735482 TTGTCTACATTTTTACTGACA
1 TTGTC-ACATTTTTACTGACA
21735503 GAATTTTTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (22 bp):
TTGTCACATTTTTACTGACAAC
Found at i:21748628 original size:47 final size:49
Alignment explanation
Indices: 21748558--21748666 Score: 150
Period size: 48 Copynumber: 2.2 Consensus size: 49
21748548 AAATATATTT
* *
21748558 ATTTTTTAAAATTTTAAAATATTTTT-ACATACTTTTTTTAATTTTTTA
1 ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTA
* **
21748606 ATTTTTT-TAATTTTAAAATATTTTTAAAATACTTTTTTAAATTTTAAA
1 ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTA
21748654 ATATTTTTAAAAT
1 AT-TTTTTAAAAT
21748667 ACTTTTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
47 17 0.33
48 27 0.52
49 5 0.10
50 3 0.06
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (49 bp):
ATTTTTTAAAATTTTAAAATATTTTTAAAATACTTTTTTAAATTTTTTA
Found at i:21748629 original size:17 final size:17
Alignment explanation
Indices: 21748592--21748632 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
21748582 TTACATACTT
** *
21748592 TTTTTAATTTTTTAATT
1 TTTTTAATTTTAAAATA
21748609 TTTTTAATTTTAAAATA
1 TTTTTAATTTTAAAATA
21748626 TTTTTAA
1 TTTTTAA
21748633 AATACTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAATTTTAAAATA
Found at i:21748630 original size:11 final size:11
Alignment explanation
Indices: 21748616--21748753 Score: 98
Period size: 11 Copynumber: 13.0 Consensus size: 11
21748606 ATTTTTTTAA
21748616 TTTTAAAATAT
1 TTTTAAAATAT
21748627 TTTTAAAATACT
1 TTTTAAAATA-T
*
21748639 TTTT-TAA-A-
1 TTTTAAAATAT
21748647 TTTTAAAATAT
1 TTTTAAAATAT
21748658 TTTTAAAATACTTT
1 TTTTAAAATA---T
*
21748672 TTTTAAAAAAT
1 TTTTAAAATAT
*
21748683 TTTT----TAA
1 TTTTAAAATAT
21748690 TTTTAAAATA-
1 TTTTAAAATAT
21748700 TTTTAAAATAT
1 TTTTAAAATAT
21748711 TTTTAAAATACT
1 TTTTAAAATA-T
**
21748723 TTTTTTAAT-T
1 TTTTAAAATAT
**
21748733 TTTTTCAA-AT
1 TTTTAAAATAT
21748743 TTTTAAAATAT
1 TTTTAAAATAT
21748754 AAATGGGCCG
Statistics
Matches: 102, Mismatches: 10, Indels: 30
0.72 0.07 0.21
Matches are distributed among these distances:
7 5 0.05
8 4 0.04
9 2 0.02
10 27 0.26
11 41 0.40
12 13 0.13
14 10 0.10
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:21748649 original size:31 final size:31
Alignment explanation
Indices: 21748607--21748674 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
21748597 AATTTTTTAA
*
21748607 TTTTTTTAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTAAAATATTTTTAAAATAC
21748638 TTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTAAATTTTAAAATATTTTTAAAATAC
21748669 TTTTTT
1 TTTTTT
21748675 TAAAAAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (31 bp):
TTTTTTAAATTTTAAAATATTTTTAAAATAC
Found at i:21748747 original size:53 final size:51
Alignment explanation
Indices: 21748646--21748753 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 51
21748636 ACTTTTTTAA
21748646 ATTTTAAAATATTTTTAAAATACTTTTTTTAAAAAATTTTTTAATTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTT--AAAATTTTTTAATTTTAAAAT
*
21748699 ATTTTAAAATATTTTTAAAATACTTTTTTT-AATTTTTTTCAAATTTTTAAAAT
1 ATTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTT--AA-TTTTAAAAT
21748752 AT
1 AT
21748754 AAATGGGCCG
Statistics
Matches: 51, Mismatches: 1, Indels: 6
0.88 0.02 0.10
Matches are distributed among these distances:
50 8 0.16
52 2 0.04
53 41 0.80
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (51 bp):
ATTTTAAAATATTTTTAAAATACTTTTTTTAAAATTTTTTAATTTTAAAAT
Found at i:21754165 original size:6 final size:6
Alignment explanation
Indices: 21754154--21754180 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21754144 CATCTTAAAA
21754154 TATATT TATATT TATATT TATATT TAT
1 TATATT TATATT TATATT TATATT TAT
21754181 TTGTTTTATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATATT
Found at i:21754515 original size:17 final size:17
Alignment explanation
Indices: 21754472--21754508 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
21754462 AACAATTTCA
*
21754472 ATAATATTTTAAAAAAT
1 ATAAAATTTTAAAAAAT
21754489 ATAAAATTTTAAAAAAT
1 ATAAAATTTTAAAAAAT
21754506 ATA
1 ATA
21754509 TATTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAAAATTTTAAAAAAT
Found at i:21758457 original size:12 final size:11
Alignment explanation
Indices: 21758440--21758469 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
21758430 TCTTTTTCTT
21758440 AAGAAAAAGAAA
1 AAGAAAAAG-AA
21758452 AAGAAAAAGAA
1 AAGAAAAAGAA
21758463 AAGAAAA
1 AAGAAAA
21758470 CTTCTCTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 9 0.50
12 9 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:21758458 original size:5 final size:6
Alignment explanation
Indices: 21758440--21758469 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
21758430 TCTTTTTCTT
21758440 AAGAAA AAGAAA AAGAAA AAG-AA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA A
21758470 CTTCTCTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:21760883 original size:28 final size:29
Alignment explanation
Indices: 21760848--21760929 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 29
21760838 GCGATTAGAT
*
21760848 TTAAATTTTAAAATATTAAAATAA-AG-AA
1 TTAAATTTTAAAATA-TAAAAAAATAGAAA
21760876 TTAAATTTTTGAAAATA-AAAAAAATAGAAA
1 TTAAA-TTTT-AAAATATAAAAAAATAGAAA
*
21760906 TTAAATTTCAAAACTATAAAAAAA
1 TTAAATTTTAAAA-TATAAAAAAA
21760930 ACACAAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
28 15 0.33
29 11 0.24
30 20 0.43
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (29 bp):
TTAAATTTTAAAATATAAAAAAATAGAAA
Found at i:21761531 original size:17 final size:19
Alignment explanation
Indices: 21761502--21761537 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21761492 CATAACTTTT
21761502 TAAAGTAAAAATT-AAAAA
1 TAAAGTAAAAATTGAAAAA
21761520 TAAAGT-AAAATTGAAAAA
1 TAAAGTAAAAATTGAAAAA
21761538 GAGAGAGTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.22
Consensus pattern (19 bp):
TAAAGTAAAAATTGAAAAA
Found at i:21762418 original size:42 final size:42
Alignment explanation
Indices: 21762334--21762523 Score: 218
Period size: 42 Copynumber: 4.5 Consensus size: 42
21762324 TGAAGCACTG
* * * ** * *
21762334 CTAAAGAACATGATCTTCAGCGGCGCTTGTGAAAAAGACGCCG
1 CTAAAGATCATGTTCTTTAGCGGCGCTT-CAAAAAAAACGCCA
* * * * * * *
21762377 CTGAAGATCATCTTCTTTAACGGCACTTTATAAAAAACGCCG
1 CTAAAGATCATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCA
* * *
21762419 CTAAAGAACATGATCTTTAGCAGCGCTTCAAAAAAAACGCCA
1 CTAAAGATCATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCA
21762461 CTAAAGATCATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCA
1 CTAAAGATCATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCA
21762503 CTAAAGATCATGTTCTTTAGC
1 CTAAAGATCATGTTCTTTAGC
21762524 AACATTTTAT
Statistics
Matches: 124, Mismatches: 23, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
42 103 0.83
43 21 0.17
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (42 bp):
CTAAAGATCATGTTCTTTAGCGGCGCTTCAAAAAAAACGCCA
Found at i:21762496 original size:84 final size:85
Alignment explanation
Indices: 21762333--21762524 Score: 242
Period size: 84 Copynumber: 2.3 Consensus size: 85
21762323 TTGAAGCACT
* * ** * * *
21762333 GCTAAAGAACATGATCTTCAGCGGCGCTTGTGAAAAAGACGCCGCTGAAGATCATCTTCTTTAAC
1 GCTAAAGAACATGATCTTTAGCAGCGCTTGCAAAAAAAACGCCACTAAAGATCATCTTCTTTAAC
* *
21762398 GGCACTTTATAAAAAACGCC
66 GGCACTTCAAAAAAAACGCC
* *
21762418 GCTAAAGAACATGATCTTTAGCAGCGCTT-CAAAAAAAACGCCACTAAAGATCATGTTCTTTAGC
1 GCTAAAGAACATGATCTTTAGCAGCGCTTGCAAAAAAAACGCCACTAAAGATCATCTTCTTTAAC
*
21762482 GGCGCTTCAAAAAAAACGCC
66 GGCACTTCAAAAAAAACGCC
* * *
21762502 ACTAAAGATCATGTTCTTTAGCA
1 GCTAAAGAACATGATCTTTAGCA
21762525 ACATTTTATT
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 65 0.71
85 27 0.29
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (85 bp):
GCTAAAGAACATGATCTTTAGCAGCGCTTGCAAAAAAAACGCCACTAAAGATCATCTTCTTTAAC
GGCACTTCAAAAAAAACGCC
Found at i:21762585 original size:43 final size:42
Alignment explanation
Indices: 21762402--21762588 Score: 171
Period size: 42 Copynumber: 4.4 Consensus size: 42
21762392 TTTAACGGCA
* * *
21762402 CTTTATAAAAAACGCCGCTAAAGA-ACATGATCTTTAGCAGCG
1 CTTTATAAAAAACGCCACTAAAGATA-ATGTTCTTTAGCAACG
* * * **
21762444 CTTCAAAAAAAACGCCACTAAAGATCATGTTCTTTAGCGGCG
1 CTTTATAAAAAACGCCACTAAAGATAATGTTCTTTAGCAACG
* * * *
21762486 CTTCAAAAAAAACGCCACTAAAGATCATGTTCTTTAGCAACA
1 CTTTATAAAAAACGCCACTAAAGATAATGTTCTTTAGCAACG
* * * * *
21762528 TTTTATTCACAAACGTCGCTAAAAGA-AATGTTCTTTAGCAACG
1 CTTTA-TAAAAAACGCCACT-AAAGATAATGTTCTTTAGCAACG
21762571 CTTTTATAAAAAACGCCA
1 C-TTTATAAAAAACGCCA
21762589 GTATTTTTGG
Statistics
Matches: 118, Mismatches: 23, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
42 77 0.65
43 32 0.27
44 9 0.08
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (42 bp):
CTTTATAAAAAACGCCACTAAAGATAATGTTCTTTAGCAACG
Found at i:21762934 original size:21 final size:21
Alignment explanation
Indices: 21762893--21762959 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
21762883 TTCTGCTCTG
* * *
21762893 CTCTGCTTCTCTCACTACAGC
1 CTCTGCTTCCCTCGCTGCAGC
21762914 CTCTGCTTCCCTCGCTGCAG-
1 CTCTGCTTCCCTCGCTGCAGC
* *
21762934 CTGTTGCTTCCCTCGCTGCCGC
1 CT-CTGCTTCCCTCGCTGCAGC
21762956 CTCT
1 CTCT
21762960 ACTTTAAGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
20 2 0.05
21 34 0.89
22 2 0.05
ACGTcount: A:0.06, C:0.45, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:21765731 original size:20 final size:21
Alignment explanation
Indices: 21765703--21765828 Score: 72
Period size: 20 Copynumber: 6.3 Consensus size: 21
21765693 TTGTACGGGA
*
21765703 TTTGCACTTTGGTG-CCCTTG
1 TTTGCACTTCGGTGCCCCTTG
*
21765723 TTTGTACTTCGGTGCCCCTTG
1 TTTGCACTTCGGTGCCCCTTG
* * *
21765744 --TACACTTCAGTGTCCC-TG
1 TTTGCACTTCGGTGCCCCTTG
* *
21765762 TTCGCA-TTACAGTGCCCC-TG
1 TTTGCACTT-CGGTGCCCCTTG
*
21765782 TTTGCACATT-TGTGCCCC-TG
1 TTTGCAC-TTCGGTGCCCCTTG
* *
21765802 TCTGTACTTCGGTGCCCC-TG
1 TTTGCACTTCGGTGCCCCTTG
21765822 TTATGCA
1 TT-TGCA
21765829 TCTATGATGC
Statistics
Matches: 82, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
18 2 0.02
19 16 0.20
20 53 0.65
21 9 0.11
22 2 0.02
ACGTcount: A:0.10, C:0.30, G:0.21, T:0.38
Consensus pattern (21 bp):
TTTGCACTTCGGTGCCCCTTG
Found at i:21767108 original size:12 final size:12
Alignment explanation
Indices: 21767091--21767115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21767081 TGTCCACATA
21767091 GCCTAAGACACG
1 GCCTAAGACACG
21767103 GCCTAAGACACG
1 GCCTAAGACACG
21767115 G
1 G
21767116 GCGTGTGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.32, G:0.28, T:0.08
Consensus pattern (12 bp):
GCCTAAGACACG
Found at i:21767667 original size:10 final size:10
Alignment explanation
Indices: 21767652--21767676 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21767642 ATTGAAATAA
21767652 TAAAATATTT
1 TAAAATATTT
21767662 TAAAATATTT
1 TAAAATATTT
21767672 TAAAA
1 TAAAA
21767677 ATTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TAAAATATTT
Found at i:21768629 original size:73 final size:72
Alignment explanation
Indices: 21768407--21768616 Score: 262
Period size: 73 Copynumber: 2.9 Consensus size: 72
21768397 GTTTCCTATA
* * ** * *
21768407 AAGCGCCGCAAA-AAATCTCAGCCCAACGACTTCGTTTTCTG-CCATTCGGGGATTTAGCGGCAT
1 AAGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGT
*
21768470 TTTTAAG
66 TTTTGAG
* * * *
21768477 AATGTGCCACAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGTGACTTAGCGGCG
1 AA-GCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCG
21768542 TTTTTGAGG
65 TTTTTGA-G
* * *
21768551 AAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGTATTCGGGGATTTAGCGGCGT
1 AAGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGT
21768616 T
66 T
21768617 CATGGAGAAG
Statistics
Matches: 118, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
70 2 0.02
71 8 0.07
72 25 0.21
73 80 0.68
74 3 0.03
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (72 bp):
AAGCGCCGCAAAGAAACCTAAGCCCAACGACGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGT
TTTTGAG
Found at i:21768742 original size:114 final size:114
Alignment explanation
Indices: 21768533--21768743 Score: 255
Period size: 114 Copynumber: 1.9 Consensus size: 114
21768523 ATTCGGTGAC
*
21768533 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGTAT
1 TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGCAT
** *
21768598 TCGGGGATTTAGCGGCGTTCATGGAGAAGCGCTGCTAATTCTCAGGTCT
66 TCGGGGATTTAGCGGCGTTCATAAACAAGCGCTGCTAATTCTCAGGTCT
* * * * ** *
21768647 TTAGTGGCGTTTTTG-GGAAAGCGCCGCAAA-AAACCTCAGCCTAACGATGTTGTTTTACTGAGC
1 TTAGCGGCGTTTTTGAGG-AAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCT-CTGAGC
* * **
21768710 ATTGGGGGATTTAGTGGCGTTTTTAAACAAGCGC
64 ATTCGGGGATTTAGCGGCGTTCATAAACAAGCGC
21768744 CACAAAATAA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
113 22 0.28
114 58 0.73
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGGAAGCGCCGCAAAGAAACCTAAGCCCAACGAGGCCGTTCTCTGAGCAT
TCGGGGATTTAGCGGCGTTCATAAACAAGCGCTGCTAATTCTCAGGTCT
Found at i:21770268 original size:147 final size:147
Alignment explanation
Indices: 21770117--21770514 Score: 344
Period size: 147 Copynumber: 2.7 Consensus size: 147
21770107 TTGTCTATGG
* * * * * *
21770117 TATTAGTGGCGTTTTTTTGGAAACGCCACAAGCTTGAGTTAACTGTTGGGGAAACGACTTC-GTT
1 TATTAGTGGCGATTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACTGCAGTT
* * * *
21770181 TGATCTTATATTTAGTGGCGCTTTACTTAAAACGCCTCAAAATTGTTCTAACATTTATAGAAATG
66 TGAT-TTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATATTCTAACATTTATAGAAATG
21770246 TTGCCATTTTTTAAATAT
130 TTGCCATTTTTTAAATAT
* ** * * * * *
21770264 TATTAGTGGCGATTTTTCGAAAATGCCACGGGTTTGAGGTAAGTGTTGATGAAGCGACTGCATTT
1 TATTAGTGGCGATTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACTGCAGTT
* * * * * *
21770329 TGATTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATATTTTAACATTTATCGATACGA
66 TGATTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATATTCTAACATTTATAGAAATGT
* * * *
21770394 GGCCGTTTTGCT--GTAT
131 TGCCATTTT-TTAAATAT
* * * ** *
21770410 TATTAGTGGCG-TTTATTCAAAAACGCCAC-AGGTGTGAGCTATTTGTTGATGG-AACGACT-CC
1 TATTAGTGGCGATTT-TTCGAAAACGCCACAAGCT-TGAGGTAACTGTTGA-GGAAACGACTGCA
* * *
21770471 GTTTCGACTTATAGTTAGTGGTGC-TTATTTATAAACGCCGCAAA
63 GTTT-GATTTATAGTTAGTGGCGCTTTACTTA-AAACGCCGCAAA
21770515 TGGTTAATTT
Statistics
Matches: 201, Mismatches: 43, Indels: 15
0.78 0.17 0.06
Matches are distributed among these distances:
145 14 0.07
146 73 0.36
147 107 0.53
148 7 0.03
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (147 bp):
TATTAGTGGCGATTTTTCGAAAACGCCACAAGCTTGAGGTAACTGTTGAGGAAACGACTGCAGTT
TGATTTATAGTTAGTGGCGCTTTACTTAAAACGCCGCAAAAATATTCTAACATTTATAGAAATGT
TGCCATTTTTTAAATAT
Found at i:21770485 original size:146 final size:143
Alignment explanation
Indices: 21770169--21770514 Score: 338
Period size: 146 Copynumber: 2.4 Consensus size: 143
21770159 CTGTTGGGGA
* * * * *
21770169 AACGACTTCGTTTGATCTTATATTTAGTGGCGCTTTACTTAAAACGCCTCAAAATTGTTCTAACA
1 AACGACTCCGTTTGA-CTTATAGTTAGTGGCGCTTT-CTTAAAACGCCGCAAAAATATTCTAACA
* ** * * * * *
21770234 TTTATAGAAATGTTGCCATTTTTTAAATATTATTAGTGGCGATTTTTCGAAAATGCCACGGGTTT
64 TTTATAGAAACGAGGCCATTTTCT-AATATTATTAGTGGCGATTTTTCAAAAACGCCACAGGTGT
*
21770299 GAGGTAAGTGTTGATG
128 GAGCTAAGTGTTGATG
** * *
21770315 AAGCGACTGCATTTTGATTTATAGTTAGTGGCGCTTTGCTTAAAACGCCGCAAAAATATTTTAAC
1 AA-CGACT-CCGTTTGACTTATAGTTAGTGGCGCTTT-CTTAAAACGCCGCAAAAATATTCTAAC
* * * *
21770380 ATTTATCGATACGAGGCCGTTTTGCT-GTATTATTAGTGGCG-TTTATTCAAAAACGCCACAGGT
63 ATTTATAGAAACGAGGCCATTTT-CTAATATTATTAGTGGCGATTT-TTCAAAAACGCCACAGGT
**
21770443 GTGAGCTATTTGTTGATGG
126 GTGAGCTAAGTGTTGAT-G
*
21770462 AACGACTCCGTTTCGACTTATAGTTAGTGGTGCTTAT-TTATAAACGCCGCAAA
1 AACGACTCCGTTT-GACTTATAGTTAGTGGCGCTT-TCTTA-AAACGCCGCAAA
21770515 TGGTTAATTT
Statistics
Matches: 163, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
145 10 0.06
146 80 0.49
147 67 0.41
148 6 0.04
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (143 bp):
AACGACTCCGTTTGACTTATAGTTAGTGGCGCTTTCTTAAAACGCCGCAAAAATATTCTAACATT
TATAGAAACGAGGCCATTTTCTAATATTATTAGTGGCGATTTTTCAAAAACGCCACAGGTGTGAG
CTAAGTGTTGATG
Found at i:21770618 original size:23 final size:23
Alignment explanation
Indices: 21770588--21770633 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21770578 CGAGATATTT
21770588 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAGTTATCCCCCAAAAC
21770611 CTCCATCAGTTATCCCCCAAAAC
1 CTCCATCAGTTATCCCCCAAAAC
21770634 TCATTCTCCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.43, G:0.04, T:0.22
Consensus pattern (23 bp):
CTCCATCAGTTATCCCCCAAAAC
Found at i:21773818 original size:56 final size:56
Alignment explanation
Indices: 21773723--21773854 Score: 219
Period size: 56 Copynumber: 2.3 Consensus size: 56
21773713 CAGGACACTT
* * *
21773723 CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTA
1 CATAACTTATATAATATT-ACATAACTTATATAATATTAAGATAAAATATCGAATTA
21773780 CATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTA
1 CATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTA
*
21773836 CATAATTTATATAATATTA
1 CATAACTTATATAATATTA
21773855 AGATCAAATT
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
56 53 0.75
57 18 0.25
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (56 bp):
CATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATATCGAATTA
Found at i:21773846 original size:37 final size:37
Alignment explanation
Indices: 21773795--21773897 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
21773785 CTTATATAAT
21773795 ATTACATAACTTATATAATATTAAGATAAAATATCGA
1 ATTACATAACTTATATAATATTAAGATAAAATATCGA
* * * *
21773832 ATTACATAATTTATATAATATTAAGATCAAATTTCTA
1 ATTACATAACTTATATAATATTAAGATAAAATATCGA
** *
21773869 ATTACATAACTCGTTTAATATTAAGATAA
1 ATTACATAACTTATATAATATTAAGATAA
21773898 CTTATATAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.48, C:0.09, G:0.05, T:0.39
Consensus pattern (37 bp):
ATTACATAACTTATATAATATTAAGATAAAATATCGA
Found at i:21773930 original size:57 final size:57
Alignment explanation
Indices: 21773837--21773949 Score: 208
Period size: 57 Copynumber: 2.0 Consensus size: 57
21773827 ATCGAATTAC
* *
21773837 ATAATTTATATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAAG
21773894 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAA
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAA
21773950 TTTCTAATTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAAG
Found at i:21773948 original size:94 final size:93
Alignment explanation
Indices: 21773744--21774046 Score: 358
Period size: 94 Copynumber: 3.2 Consensus size: 93
21773734 TAATATTAAG
* * * *
21773744 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTACATAACTTAT
1 ATAACTTATATAATATTAAGATCAAATTTCTAATTACATAACTAATTTAATATTAGATAACTTAT
* *
21773809 ATAATATTAAGATAAAATATCGAATTAC
66 ATAATATTAAGATAAAATTTCTAATTAC
* **
21773837 ATAATTTATATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTA
1 ATAACTTATATAATATTAAGATCAAATTTCTAATTACATAACTAATTTAATATT-AGATAACTTA
21773902 TATAATATTAAGATAAAATTTCTAATTAC
65 TATAATATTAAGATAAAATTTCTAATTAC
** * ** * * * * * * *
21773931 ATAACTCGTTTAATATTAATTTCTAATTTGTAAGTACACATC-AATTTCTCATTTTAGATAACTT
1 ATAACTTATATAATATTAAGATCAAATTTCTAATTACATAACTAA-TT-TAATATTAGATAACTT
*
21773995 ATACAATATTAAGATAAAATTT-TGAATTAC
64 ATATAATATTAAGATAAAATTTCT-AATTAC
21774025 ATAACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
21774047 TACTTATATA
Statistics
Matches: 177, Mismatches: 29, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
93 50 0.28
94 122 0.69
95 5 0.03
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (93 bp):
ATAACTTATATAATATTAAGATCAAATTTCTAATTACATAACTAATTTAATATTAGATAACTTAT
ATAATATTAAGATAAAATTTCTAATTAC
Found at i:21774029 original size:37 final size:37
Alignment explanation
Indices: 21773988--21774192 Score: 120
Period size: 37 Copynumber: 5.5 Consensus size: 37
21773978 CTCATTTTAG
* *
21773988 ATAACTTATACAATATTAAGATAAAATTT-TGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTATAAATTAC
* * *
21774025 ATAACTTATATAATATTAAGATTACTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAATT-TATAA-ATT-AC
* ** * * *
21774065 ATCAAATT-T-CGA-ATT-ACATAACTTATATAATATTAAG
1 AT-AACTTATATAATATTAAGATAAATT-TATAA-ATT-AC
* **
21774102 ATTACTTATATAATATTAAGATCAAATTT-CGAATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTATAAATTAC
*
21774139 ATAACTTATATAATATTAAGATAAAATTTCT-AATTAC
1 ATAACTTATATAATATTAAGAT-AAATTTATAAATTAC
*
21774176 ATAACTTACATAA-ATTA
1 ATAACTTATATAATATTA
21774193 CATAACTTAC
Statistics
Matches: 134, Mismatches: 23, Indels: 23
0.74 0.13 0.13
Matches are distributed among these distances:
36 10 0.07
37 91 0.68
38 9 0.07
39 8 0.06
40 8 0.06
41 8 0.06
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (37 bp):
ATAACTTATATAATATTAAGATAAATTTATAAATTAC
Found at i:21774052 original size:57 final size:57
Alignment explanation
Indices: 21773986--21774160 Score: 314
Period size: 57 Copynumber: 3.1 Consensus size: 57
21773976 TTCTCATTTT
* * * *
21773986 AGATAACTTATACAATATTAAGATAAAATTTTGAATTACATAACTTATATAATATTA
1 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
21774043 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
1 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
21774100 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
1 AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
21774157 AGAT
1 AGAT
21774161 AAAATTTCTA
Statistics
Matches: 114, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 114 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (57 bp):
AGATTACTTATATAATATTAAGATCAAATTTCGAATTACATAACTTATATAATATTA
Found at i:21774086 original size:94 final size:94
Alignment explanation
Indices: 21773744--21774103 Score: 310
Period size: 94 Copynumber: 3.8 Consensus size: 94
21773734 TAATATTAAG
** * * *
21773744 ATAACTTATATAATATTAAGATAAAATTTCT-A-ATTACAT-AACTTATATAATATTACATAACT
1 ATAACTTATATAATATTAAGATCTAATTTATAATATTACATCAAATT-T-CAATATTACATAACT
* *
21773806 TATATAATATTAAGATAAAATATCGAATTAC
64 TATATAATATTAAGATAAAATTTTGAATTAC
* * * * * *
21773837 ATAATTTATATAATATTAAGATCAAATTTCT-A-ATTACAT-AACTCGTTTAATATTAAGATAAC
1 ATAACTTATATAATATTAAGATCTAATTTATAATATTACATCAAAT--TTCAATATT-ACATAAC
21773899 TTATATAATATTAAGATAAAATTTCT-AATTAC
63 TTATATAATATTAAGATAAAATTT-TGAATTAC
** * ** * * * * *
21773931 ATAACTCGTTTAATATTAATTTCTAATTTGTAAGTA-CACATC-AATTTCTCATTTTAGATAACT
1 ATAACTTATATAATATTAAGATCTAATTTATAA-TATTACATCAAATTTC-AATATTACATAACT
*
21773994 TATACAATATTAAGATAAAATTTTGAATTAC
64 TATATAATATTAAGATAAAATTTTGAATTAC
* * *
21774025 ATAACTTATATAATATTAAGAT-TACTTATATAATATTAAGATCAAATTTCGA-ATTACATAACT
1 ATAACTTATATAATATTAAGATCTAATT-TATAATATT-ACATCAAATTTCAATATTACATAACT
21774088 TATATAATATTAAGAT
64 TATATAATATTAAGAT
21774104 TACTTATATA
Statistics
Matches: 221, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
93 55 0.25
94 142 0.64
95 11 0.05
96 12 0.05
97 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (94 bp):
ATAACTTATATAATATTAAGATCTAATTTATAATATTACATCAAATTTCAATATTACATAACTTA
TATAATATTAAGATAAAATTTTGAATTAC
Found at i:21774186 original size:9 final size:9
Alignment explanation
Indices: 21774172--21774396 Score: 261
Period size: 9 Copynumber: 25.9 Consensus size: 9
21774162 AAATTTCTAA
21774172 TTACATAAC
1 TTACATAAC
*
21774181 TTACATAAA
1 TTACATAAC
21774190 TTACATAAC
1 TTACATAAC
21774199 TTACATAAC
1 TTACATAAC
*
21774208 TTACATAAA
1 TTACATAAC
*
21774217 TTAAATAAC
1 TTACATAAC
21774226 TTACATAAC
1 TTACATAAC
*
21774235 TTAAATAAC
1 TTACATAAC
21774244 TTACATAA-
1 TTACATAAC
21774252 -TACATAACC
1 TTACATAA-C
*
21774261 TT-CCTAAC
1 TTACATAAC
* *
21774269 TTACATTAT
1 TTACATAAC
*
21774278 TTAGATAA-
1 TTACATAAC
*
21774286 -TACATAGC
1 TTACATAAC
*
21774294 CTACATAAC
1 TTACATAAC
21774303 TTACATAAC
1 TTACATAAC
21774312 TTACATAAC
1 TTACATAAC
21774321 TTACATAAC
1 TTACATAAC
*
21774330 TTCCATAAC
1 TTACATAAC
21774339 TTACATAAC
1 TTACATAAC
*
21774348 TCACATAA-
1 TTACATAAC
*
21774356 -TACACAAC
1 TTACATAAC
21774364 TTACATAAC
1 TTACATAAC
21774373 TTACATAA-
1 TTACATAAC
21774381 -TACATAAC
1 TTACATAAC
21774389 TTACATAA
1 TTACATAA
21774397 TACATAAAAA
Statistics
Matches: 182, Mismatches: 24, Indels: 20
0.81 0.11 0.09
Matches are distributed among these distances:
7 24 0.13
8 3 0.02
9 154 0.85
10 1 0.01
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
TTACATAAC
Found at i:21774307 original size:95 final size:95
Alignment explanation
Indices: 21774172--21774404 Score: 296
Period size: 95 Copynumber: 2.5 Consensus size: 95
21774162 AAATTTCTAA
21774172 TTACATAACTTACATAAATTACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTT
1 TTACATAACTTACAT-AA-TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTT
*
21774237 AAATAACTTACATAA-T-ACATAACCTTC-CTAAC
64 AAATAACTTACATAACTCACATAA--TACAC-AAC
* * * * * * * **
21774269 TTACATTATTTAGATAATACATAGCCTACATAACTTACATAACTTACATAACTTACATAACTTCC
1 TTACATAACTTACATAATACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAA
21774334 ATAACTTACATAACTCACATAATACACAAC
66 ATAACTTACATAACTCACATAATACACAAC
21774364 TTACATAACTTACATAATACATAACTTACATAA--TACATAAA
1 TTACATAACTTACATAATACATAACTTACATAACTTACATAAA
21774405 AATATATCAT
Statistics
Matches: 117, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
93 7 0.06
95 88 0.75
96 4 0.03
97 18 0.15
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (95 bp):
TTACATAACTTACATAATACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAA
ATAACTTACATAACTCACATAATACACAAC
Found at i:21774307 original size:104 final size:104
Alignment explanation
Indices: 21774191--21774378 Score: 297
Period size: 104 Copynumber: 1.8 Consensus size: 104
21774181 TTACATAAAT
*
21774191 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTTACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
* *
21774256 TAACCTT-CCTAACTTACATTATTTAGATAATACATAGCC
66 CAA-CTTACATAACTTACATTATTTAGATAATACATAGCC
* * * *
21774295 TACATAACTTACATAACTTACATAACTTACATAACTTCCATAACTTACATAACTCACATAATACA
1 TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
21774360 CAACTTACATAACTTACAT
66 CAACTTACATAACTTACAT
21774379 AATACATAAC
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
103 3 0.04
104 73 0.96
ACGTcount: A:0.45, C:0.22, G:0.01, T:0.32
Consensus pattern (104 bp):
TACATAACTTACATAACTTACATAAATTAAATAACTTACATAACTTAAATAACTCACATAATACA
CAACTTACATAACTTACATTATTTAGATAATACATAGCC
Done.