Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 71 of 135
Found at i:21378040 original size:50 final size:51
Alignment explanation
Indices: 21377982--21378114 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 51
21377972 CAGTTAAGCT
**
21377982 TGCATCATAAATAATGACATGCATTAAGTAACTTGCATGTTAGTTAAA-TA
1 TGCATCATAAATAATGACATGCATTAAGTAACTCCCATGTTAGTTAAAGTA
** * *
21378032 TGCATCATAAATCCT-ATCATGCATTATGTAACTCCCATGTTAGTTAAAGTT
1 TGCATCATAAATAATGA-CATGCATTAAGTAACTCCCATGTTAGTTAAAGTA
* *
21378083 TGCATCATTAAATCAA-GTCATGCATTTAGTAA
1 TGCATCA-TAAAT-AATGACATGCATTAAGTAA
21378115 TCCATTAGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 41 0.61
51 8 0.12
52 17 0.25
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (51 bp):
TGCATCATAAATAATGACATGCATTAAGTAACTCCCATGTTAGTTAAAGTA
Found at i:21379969 original size:28 final size:28
Alignment explanation
Indices: 21379937--21379990 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
21379927 AATTTAATTA
21379937 ATTACTAAATAGTTT-TA-TTTCTAATTTG
1 ATTACT-AATA-TTTCTATTTTCTAATTTG
21379965 ATTACTAATATTTCTATTTTCTAATT
1 ATTACTAATATTTCTATTTTCTAATT
21379991 CTGTACTCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 3 0.12
27 6 0.25
28 15 0.62
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (28 bp):
ATTACTAATATTTCTATTTTCTAATTTG
Found at i:21380390 original size:18 final size:18
Alignment explanation
Indices: 21380369--21380421 Score: 54
Period size: 20 Copynumber: 2.9 Consensus size: 18
21380359 ATGTAAACAA
21380369 AAATTATAAAAGATTTAG
1 AAATTATAAAAGATTTAG
* *
21380387 AAATGATAAAAGAATTTTGG
1 AAATTATAAAAG-A-TTTAG
*
21380407 AAATTTTAAAA-ATTT
1 AAATTATAAAAGATTT
21380422 CAAAAAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 3 0.10
18 12 0.41
19 1 0.03
20 13 0.45
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (18 bp):
AAATTATAAAAGATTTAG
Found at i:21381456 original size:22 final size:24
Alignment explanation
Indices: 21381423--21381470 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 24
21381413 ATGGTTATAA
*
21381423 AAAATTTAAAATTTTGAAAAATAA
1 AAAATTTAAAATTTTAAAAAATAA
21381447 AAAA-TT-AAATTTTAAAAAATAA
1 AAAATTTAAAATTTTAAAAAATAA
21381469 AA
1 AA
21381471 TTGAAGATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.74
23 2 0.09
24 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
AAAATTTAAAATTTTAAAAAATAA
Found at i:21381867 original size:32 final size:33
Alignment explanation
Indices: 21381808--21381870 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
21381798 AGGATCCAAA
21381808 AGATAAAAATATCTTTAAAATAATATTTATTTC
1 AGATAAAAATATCTTTAAAATAATATTTATTTC
*
21381841 AGATAAAAATAT-TCTT-AAATATTATTTATT
1 AGATAAAAATATCT-TTAAAATAATATTTATT
21381871 GTTTGGTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.50
33 14 0.50
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (33 bp):
AGATAAAAATATCTTTAAAATAATATTTATTTC
Found at i:21382442 original size:25 final size:25
Alignment explanation
Indices: 21382413--21382464 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
21382403 TTTTTTATTT
21382413 TTCATGTTTTAAAATTTGGATTCAA
1 TTCATGTTTTAAAATTTGGATTCAA
21382438 TTCATGTTTTAAAATTTGGATTCAA
1 TTCATGTTTTAAAATTTGGATTCAA
21382463 TT
1 TT
21382465 GTTAACTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (25 bp):
TTCATGTTTTAAAATTTGGATTCAA
Found at i:21383950 original size:141 final size:136
Alignment explanation
Indices: 21383730--21384106 Score: 427
Period size: 141 Copynumber: 2.8 Consensus size: 136
21383720 TAGCTTTTGG
* * ** ** * *
21383730 TTCAGTGTT-CAATTATGGGTTTTTAGCTGATGTGATG--AGGGTTTAGGTCTTTGCATTGAAAT
1 TTCAGT-TTCCAATTATGGGATTGTAGCTGAAATGATGTCAGGAATTAGGTCTTTGAATTGCAAT
** * * *
21383792 GGAAGGAGTCCTTCAAATCTATATGAAATATGATTCATCTTCATGCTTAATTAATAATCGTATAT
65 GGAAGGAACCCTTCAAATCTATATGTAATATGATTCATCTTCATGCTAAATTAATAATCGTATAC
21383857 ATTGCTT
130 ATTGCTT
*
21383864 TTCAGTTTTCAATTATGGGATTGTAGCTGAAATGATGTCAGGGTTTAGATTAGGTCTTTGAATTG
1 TTCAGTTTCCAATTATGGGATTGTAGCTGAAATGATGTCA-GG---A-ATTAGGTCTTTGAATTG
** * * * *
21383929 CAATGGAAGGAACCCTTCAAATCTATATGTGTTATGATTGATGTTCATGCTAAATTTATAATCTT
61 CAATGGAAGGAACCCTTCAAATCTATATGTAATATGATTCATCTTCATGCTAAATTAATAATCGT
* *
21383994 TTACCTTGCTT
126 ATACATTGCTT
* * *
21384005 TTCAGTTTCCAGTTATGGGATTGTAGCTGAAATGATGTCAGGATTTAGGTCTTTGAGTTGCAATG
1 TTCAGTTTCCAATTATGGGATTGTAGCTGAAATGATGTCAGGAATTAGGTCTTTGAATTGCAATG
* * *
21384070 GAAGGAACCCTTTAAATATATATGTACTATGATTCAT
66 GAAGGAACCCTTCAAATCTATATGTAATATGATTCAT
21384107 TTGCATAATC
Statistics
Matches: 205, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
133 2 0.01
134 30 0.15
136 53 0.26
137 3 0.01
140 2 0.01
141 115 0.56
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (136 bp):
TTCAGTTTCCAATTATGGGATTGTAGCTGAAATGATGTCAGGAATTAGGTCTTTGAATTGCAATG
GAAGGAACCCTTCAAATCTATATGTAATATGATTCATCTTCATGCTAAATTAATAATCGTATACA
TTGCTT
Found at i:21393323 original size:16 final size:17
Alignment explanation
Indices: 21393302--21393338 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
21393292 TCGTGGATTA
*
21393302 TTAAAAA-TTTTGAGAT
1 TTAAAAACTTTTGAAAT
21393318 TTAAAAACTTTTGAAAT
1 TTAAAAACTTTTGAAAT
21393335 TTAA
1 TTAA
21393339 TTTAATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (17 bp):
TTAAAAACTTTTGAAAT
Found at i:21395517 original size:24 final size:24
Alignment explanation
Indices: 21395485--21395557 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
21395475 AAAAATCTTC
*
21395485 CAATTAAACTCTTTTTATTTGTTT
1 CAATTAAACTCTATTTATTTGTTT
*
21395509 CAATTAAACTCTATTTATTTTTTT
1 CAATTAAACTCTATTTATTTGTTT
*
21395533 CAATTAAACTCTGTTTATTTGTTT
1 CAATTAAACTCTATTTATTTGTTT
21395557 C
1 C
21395558 TAGAAATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.26, C:0.14, G:0.04, T:0.56
Consensus pattern (24 bp):
CAATTAAACTCTATTTATTTGTTT
Found at i:21399501 original size:21 final size:22
Alignment explanation
Indices: 21399476--21399532 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 22
21399466 TCTAGAATTC
*
21399476 GTTGTATCGGTAGAAGGGTA-A
1 GTTGTATCGGTAGAAGCGTAGA
* *
21399497 GTTGTCTCGGTAG-AGCTTAGA
1 GTTGTATCGGTAGAAGCGTAGA
*
21399518 GTTGTATCGATAGAA
1 GTTGTATCGGTAGAA
21399533 CTTCCACTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 4 0.14
21 24 0.83
22 1 0.03
ACGTcount: A:0.26, C:0.09, G:0.33, T:0.32
Consensus pattern (22 bp):
GTTGTATCGGTAGAAGCGTAGA
Found at i:21400898 original size:25 final size:25
Alignment explanation
Indices: 21400854--21400924 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
21400844 TAGCTCATAT
* *
21400854 GAGCCTAGATAGAACATCGCTCTAAC
1 GAGCC-AGACAGAATATCGCTCTAAC
*
21400880 GAGCCAGACAGAATATCGCTCTTAC
1 GAGCCAGACAGAATATCGCTCTAAC
* *
21400905 AAGCCAGACAAAATATCGCT
1 GAGCCAGACAGAATATCGCT
21400925 TCATCGAGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (25 bp):
GAGCCAGACAGAATATCGCTCTAAC
Found at i:21403342 original size:20 final size:20
Alignment explanation
Indices: 21403257--21403345 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
21403247 ACAGATACAT
*
21403257 AACAGGGGCACTGAAGTGCA
1 AACAGGGGCACCGAAGTGCA
* * *
21403277 AAAAAGGGCACTGAAGTGCA
1 AACAGGGGCACCGAAGTGCA
*
21403297 AACAGAGG-ACCGAAGTGCA
1 AACAGGGGCACCGAAGTGCA
*
21403316 AATAGGGGCACCGAAGTGCA
1 AACAGGGGCACCGAAGTGCA
*
21403336 AGCAGGGGCA
1 AACAGGGGCA
21403346 TTTTTTTTCA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 16 0.28
20 42 0.72
ACGTcount: A:0.38, C:0.19, G:0.35, T:0.08
Consensus pattern (20 bp):
AACAGGGGCACCGAAGTGCA
Found at i:21405625 original size:24 final size:23
Alignment explanation
Indices: 21405593--21405638 Score: 83
Period size: 24 Copynumber: 2.0 Consensus size: 23
21405583 AGAAATAATC
21405593 TTTCAATTAAACTCTGTTTATTTG
1 TTTCAATTAAACTCTG-TTATTTG
21405617 TTTCAATTAAACTCTGTTATTT
1 TTTCAATTAAACTCTGTTATTT
21405639 ATTTGAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (23 bp):
TTTCAATTAAACTCTGTTATTTG
Found at i:21409000 original size:41 final size:41
Alignment explanation
Indices: 21408886--21409223 Score: 294
Period size: 41 Copynumber: 8.2 Consensus size: 41
21408876 AATGTAAAGC
* * * *
21408886 ATTAGCGGCGC-TTAACAAAAGCGCCGCTAAAGGTCTGGTC
1 ATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGGTCAGGTA
* * * *
21408926 ATTAGCGGCTCTATAACCACAAGCGCTGCTAAAGGTCAGGTA
1 ATTAGCGGCGCT-TTATCACAAGCGCCGCTAAAGGTCAGGTA
*
21408968 ATTAGCGACGCTTTATCACAAGCGCCGCTAAAGGTCAGGTA
1 ATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGGTCAGGTA
* *
21409009 ATTAGCGGCGCTTTCTCA-AATGCACCGCTAAAGGT-AGGGTA
1 ATTAGCGGCGCTTTATCACAA-GCGCCGCTAAAGGTCA-GGTA
* ** * * *
21409050 ATTAGCGACGCTTTCCCTCAAGCGCCTCTAAAGGTCAGGTC
1 ATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGGTCAGGTA
* **
21409091 ATTAACGGCGCTTTCCCTA-AAGCGCCGCTAAAGGT-AGGATCA
1 ATTAGCGGCGCTTTATC-ACAAGCGCCGCTAAAGGTCAGG-T-A
* ** * * *
21409133 TTTAGCGGCGCTTTCAT-TTAAGCGCCGCTAAAGTTCGGGTC
1 ATTAGCGGCGCTTT-ATCACAAGCGCCGCTAAAGGTCAGGTA
* *
21409174 ATTAGCGGCGCTTATAT-ATAAAGCGCCGCTAAAGGTCAGGTC
1 ATTAGCGGCGCTT-TATCA-CAAGCGCCGCTAAAGGTCAGGTA
21409216 ATTAGCGG
1 ATTAGCGG
21409224 TGTTTTTATA
Statistics
Matches: 245, Mismatches: 39, Indels: 26
0.79 0.13 0.08
Matches are distributed among these distances:
40 16 0.07
41 134 0.55
42 93 0.38
43 2 0.01
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.24
Consensus pattern (41 bp):
ATTAGCGGCGCTTTATCACAAGCGCCGCTAAAGGTCAGGTA
Found at i:21409240 original size:42 final size:41
Alignment explanation
Indices: 21408904--21409286 Score: 250
Period size: 41 Copynumber: 9.3 Consensus size: 41
21408894 CGCTTAACAA
* * * * *
21408904 AAGCGCCGCTAAAGGTCTGGTCATTAGCGGC-TCTATAACCAC
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGT-TTTCA-TAT
* * * * *
21408946 AAGCGCTGCTAAAGGTCAGGTAATTAGCGACGCTTT-ATCAC
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGTTTTCAT-AT
*
21408987 AAGCGCCGCTAAAGGTCAGGTAATTAGCGGCGCTTTCTCA-A-
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCG-TTT-TCATAT
* * * * * * *
21409028 ATGCACCGCTAAAGGT-AGGGTAATTAGCGACGCTTTCCCT-C
1 AAGCGCCGCTAAAGGTCA-GGTCATTAGCGGCG-TTTTCATAT
* * * *
21409069 AAGCGCCTCTAAAGGTCAGGTCATTAACGGCGCTTTCCCTA-
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCG-TTTTCATAT
* *
21409110 AAGCGCCGCTAAAGGT-AGGATCATTTAGCGGCGCTTTCATTT
1 AAGCGCCGCTAAAGGTCAGG-TCA-TTAGCGGCGTTTTCATAT
* * *
21409152 AAGCGCCGCTAAAGTTCGGGTCATTAGCGGCGCTTAT-ATAT
1 AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCG-TTTTCATAT
* *
21409193 AAAGCGCCGCTAAAGGTCAGGTCATTAGCGGTGTTTTTATAAT
1 -AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGTTTTCAT-AT
* * * * *
21409236 AAGCGTCACTAAAGGT---GTGAATTAGCGGCGCTTTCCTAT
1 AAGCGCCGCTAAAGGTCAGGT-CATTAGCGGCGTTTTCATAT
21409275 AAGCGCCGCTAA
1 AAGCGCCGCTAA
21409287 TGTATTTAAA
Statistics
Matches: 277, Mismatches: 45, Indels: 41
0.76 0.12 0.11
Matches are distributed among these distances:
39 14 0.05
40 18 0.06
41 133 0.48
42 106 0.38
43 5 0.02
44 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (41 bp):
AAGCGCCGCTAAAGGTCAGGTCATTAGCGGCGTTTTCATAT
Found at i:21409248 original size:84 final size:83
Alignment explanation
Indices: 21408845--21409286 Score: 279
Period size: 82 Copynumber: 5.4 Consensus size: 83
21408835 AAAGGTAAAG
* * * * * * *
21408845 CATTAGCGGCGCTTTTCT-TAATGTGCCGCAAAATGTA-AAGCA-TTAGCGGCGCTTAACA-A-A
1 CATTAGCGGCGC-TTTCTATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTT-TCATATA
* *
21408905 AGCGCCGCTAAAGGTCTGGT
64 AGCGCCACTAAAGGTCGGGT
* * * * * * *
21408925 CATTAGCGGCTCTATAACCA-CAAGCGCTGCTAAAGGTCAGG-T-AATTAGCGACGCTTT-ATCA
1 CATTAGCGGCGCT-T-TCTATAAAGCGCCGCTAAAGGT-AGGATCATTTAGCGGCGCTTTCAT-A
* * *
21408986 CAAGCGCCGCTAAAGGTCAGGT
62 TAAGCGCCACTAAAGGTCGGGT
* * * * * * * *
21409008 AATTAGCGGCGCTTTCTCA-AATGCACCGCTAAAGGTAGGGT-AATTAGCGACGCTTTCCCT-CA
1 CATTAGCGGCGCTTTCT-ATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTT-CATATA
* *
21409070 AGCGCCTCTAAAGGTCAGGT
64 AGCGCCACTAAAGGTCGGGT
* ** *
21409090 CATTAACGGCGCTTTCCCTAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCATTTAAG
1 CATTAGCGGCGCTTTCTATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCATATAAG
* *
21409155 CGCCGCTAAAGTTCGGGT
66 CGCCACTAAAGGTCGGGT
* * * *
21409173 CATTAGCGGCGCTTATATATAAAGCGCCGCTAAAGGTCAGG-TCA-TTAGCGGTGTTTTTATAAT
1 CATTAGCGGCGCTT-TCTATAAAGCGCCGCTAAAGGT-AGGATCATTTAGCGGCGCTTTCAT-AT
* *
21409236 AAGCGTCACTAAAGGT-GTG-
63 AAGCGCCACTAAAGGTCGGGT
*
21409255 AATTAGCGGCGCTTTCCTAT-AAGCGCCGCTAA
1 CATTAGCGGCGCTTT-CTATAAAGCGCCGCTAA
21409287 TGTATTTAAA
Statistics
Matches: 290, Mismatches: 52, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
79 1 0.00
80 13 0.04
81 30 0.10
82 116 0.40
83 90 0.31
84 37 0.13
85 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.25, T:0.25
Consensus pattern (83 bp):
CATTAGCGGCGCTTTCTATAAAGCGCCGCTAAAGGTAGGATCATTTAGCGGCGCTTTCATATAAG
CGCCACTAAAGGTCGGGT
Found at i:21411529 original size:13 final size:13
Alignment explanation
Indices: 21411513--21411537 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21411503 AAACTCAAGT
21411513 CACCAATACAAAC
1 CACCAATACAAAC
21411526 CACCAATACAAA
1 CACCAATACAAA
21411538 TCTAGAGGAC
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:0.56, C:0.36, G:0.00, T:0.08
Consensus pattern (13 bp):
CACCAATACAAAC
Found at i:21411859 original size:66 final size:66
Alignment explanation
Indices: 21411753--21411909 Score: 226
Period size: 66 Copynumber: 2.4 Consensus size: 66
21411743 CAAATTGCTC
*
21411753 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGATGAACTCCATC-T
1 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCA-CAT
21411817 AA
65 AA
* * *
21411819 AACTTAAAGAGGAGGTTGCAATGAGAGAAGCAGAGTCTCAAAAAAAATATGAAGAACTCCACATA
1 AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
*
21411884 C
66 A
* * *
21411885 AACTTAAAGTGGAGGCAGCAGCGAG
1 AACTTAAAGAGGAGGCTGCAACGAG
21411910 GCAAGCGAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 1 0.01
66 79 0.99
ACGTcount: A:0.45, C:0.16, G:0.24, T:0.15
Consensus pattern (66 bp):
AACTTAAAGAGGAGGCTGCAACGAGAGAAGCAGAGGCTCAAAAAAAATATGAAGAACTCCACATA
A
Found at i:21412259 original size:43 final size:43
Alignment explanation
Indices: 21412198--21412441 Score: 398
Period size: 43 Copynumber: 5.7 Consensus size: 43
21412188 AGGGTTTTAT
*
21412198 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGATAAAGCGCC
1 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
*
21412241 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAGAAAGCGCC
1 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
* *
21412284 GCTGAAGAACATGGCATTCAGCGGCGCTTGTGGAAAAAGCGCC
1 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
21412327 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
1 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
* *
21412370 GCTAAAGAACATGGCCTTCAGCGGCGCTTATGGGAAAAGCGCC
1 GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
* ** *
21412413 GCTAAAGACCATGTTCTTTAGCGGCGCTT
1 GCTAAAGAACATGGCCTTCAGCGGCGCTT
21412442 TTTCGCATAA
Statistics
Matches: 189, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 189 1.00
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.18
Consensus pattern (43 bp):
GCTAAAGAACATGGCCTTCAGCGGCGCTTGTGGAAAAAGCGCC
Found at i:21416582 original size:23 final size:22
Alignment explanation
Indices: 21416556--21416601 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
21416546 AAAATTCATT
* *
21416556 TAATTTAATTGTTTTTATTTTTA
1 TAATTTAATT-ATTTCATTTTTA
21416579 TAATTTAATTATTTCATTTTTA
1 TAATTTAATTATTTCATTTTTA
21416601 T
1 T
21416602 TTGTATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (22 bp):
TAATTTAATTATTTCATTTTTA
Found at i:21416585 original size:28 final size:29
Alignment explanation
Indices: 21416553--21416616 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 29
21416543 CTCAAAATTC
* *
21416553 ATTTAATTTAATT-GTTTTTATTTTTATA
1 ATTTAATTTAATTCATTTTTATTTGTATA
*
21416581 ATTTAA-TTATTTCATTTTTATTTGTATA
1 ATTTAATTTAATTCATTTTTATTTGTATA
21416609 ATTTAATT
1 ATTTAATT
21416617 ATTTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.16
28 25 0.81
29 1 0.03
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (29 bp):
ATTTAATTTAATTCATTTTTATTTGTATA
Found at i:21416617 original size:28 final size:28
Alignment explanation
Indices: 21416567--21416620 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
21416557 AATTTAATTG
*
21416567 TTTTTATTTTTATAATTTAATTATTTCA
1 TTTTTATTTGTATAATTTAATTATTTCA
21416595 TTTTTATTTGTATAATTTAATTATTT
1 TTTTTATTTGTATAATTTAATTATTT
21416621 TTTATTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (28 bp):
TTTTTATTTGTATAATTTAATTATTTCA
Found at i:21418052 original size:42 final size:42
Alignment explanation
Indices: 21418005--21418157 Score: 236
Period size: 42 Copynumber: 3.6 Consensus size: 42
21417995 AGCATGAAAA
21418005 TATGATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
1 TATGATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
* *
21418047 TATGATTAAATGAAGACTCATGTCTCGAGATGAGATTGAGAT
1 TATGATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
* *
21418089 TTTGATTAAAGGAAGACTCATGTCTCG-GAATGAGAATGAGAA
1 TATGATTAAAGGAAGACTCATGTCTCGAG-ATGAGAATGAGAT
* *
21418131 TATGATTAAAGGAAGACTTATGACTCG
1 TATGATTAAAGGAAGACTCATGTCTCG
21418158 TTAGAGCATA
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
41 1 0.01
42 100 0.99
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (42 bp):
TATGATTAAAGGAAGACTCATGTCTCGAGATGAGAATGAGAT
Found at i:21425011 original size:42 final size:42
Alignment explanation
Indices: 21424915--21425229 Score: 384
Period size: 42 Copynumber: 7.5 Consensus size: 42
21424905 TGATGTAAAA
* * * * **
21424915 AAAGGAATATTCATGTCTCGAGTTGAGCATGAGAATT-TGTACG
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAG-ATTATG-ATT
* * * * * *
21424958 AATGGAAGACTCGTGACTCG-GAATGAGCATGAAAATATGATT
1 AAAGGAAGACTCATGTCTCGAG-ATGAGAATGAGATTATGATT
21425000 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* *
21425042 AAATGAAGACTCATGTCTTGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
*
21425084 AAATGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
* * *
21425126 AAATGAAGACTCATGTCTCGAGATGAGATTGAGATTTTGATT
1 AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
*
21425168 AAAGGAAGACTCATGTCTCG-GAATGAGAATGAGAATATGATT
1 AAAGGAAGACTCATGTCTCGAG-ATGAGAATGAGATTATGATT
* *
21425210 AAAGGAAGACTTATGACTCG
1 AAAGGAAGACTCATGTCTCG
21425230 TTAGAGCATA
Statistics
Matches: 241, Mismatches: 27, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.00
42 213 0.88
43 27 0.11
ACGTcount: A:0.37, C:0.10, G:0.25, T:0.28
Consensus pattern (42 bp):
AAAGGAAGACTCATGTCTCGAGATGAGAATGAGATTATGATT
Found at i:21432353 original size:532 final size:534
Alignment explanation
Indices: 21431346--21432405 Score: 1590
Period size: 532 Copynumber: 2.0 Consensus size: 534
21431336 ATTAAAAGCT
* * * * *
21431346 CGAAACTCGTAATTCCGGTCATAATCACGTCTAAAAATTCTGCTCGCGCAGTCTTTATTAAAACA
1 CGAAACTCGTAATTCCCGTCATAATCACGTCCAAAAATTCTCCTCACACAGTCTTTATTAAAACA
* * ** * *
21431411 ATTATAACTTGACCTCCTAAACTTGAAATTGAGTGATTCAAAGTGCGTTTTAAAGATAAAAGATA
66 ATCATAACTTGACATCCTAAACTCAAAATTGAGTGATTCAAAGTGCGTTTCAAAGATAAAAGACA
* * *
21431476 GATATTTGAAATACATGCAGACATCTCAGCCTATAAATTCCTGGATCCCATCCAAAAAGTCATTG
131 GATATTAGAAATACATGCAGACATCTCAACCCATAAATTCCTGGATCCCATCCAAAAAGTCATTG
* *
21431541 CAAGTCTGCTGATTTCCCTAACTTGAAAAAATTGGCAGCTTCGATTTCTTGGTCCAAGATTTCAA
196 CAAGTCTGCTGATTTCCCTAACATG-AAAAATTGGCAGCTTCGATTTCTTGGACCAAGATTTCAA
* *
21431606 AGATTTGAATTCTTGATTTTCTTGATTCTTGATATTGTTTGGAATGGAAAAATTGGACCAAGATT
260 AGATTTGAAATCTTGATTTTCTTGATTCTTGAAATTGTTTGGAATGGAAAAATTGGACCAAGATT
** * *
21431671 TGGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTGTTTTTCGGCCGTGTGCGCA
325 CAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCGACCGTGTGCGCA
* * * *
21431736 TCTATGGCCTTGGTTACAAAGTCTTGGATGGTCCCGTTTAATCTTACTCGAATTTGCTTGGCCTT
390 TCTAGGGCCTTGGTAACAAAGTCTTAGATGGTCCCGTTCAATCTTACTCGAATTTGCTTGGCCTT
* * * *
21431801 TGACCTCATTATTGGGCCTTGAGAAAATTTGATCCCATTACATTCATAAGCTTGAATTTGGTCCT
455 CGACCTCATTATTGGGCCTTGAGAAAATTTGATCCAATCACATTCATAAGCTTGAATTTGGGCCT
21431866 TGCGACTCGTATAAC
520 TGCGACTCGTATAAC
21431881 CGAAACTCGTAATTCCCGTCATAATCACGTCCAAAAATTCTACCT-ACACAGTCTTTATTAAAAC
1 CGAAACTCGTAATTCCCGTCATAATCACGTCCAAAAATTCT-CCTCACACAGTCTTTATTAAAAC
* * * * *
21431945 GATCATAACTTGAGATCCTGAACTCAAAATCT-AGTGATTCAAAGTGCGTTTCGAAGATAAGAGA
65 AATCATAACTTGACATCCTAAACTCAAAAT-TGAGTGATTCAAAGTGCGTTTCAAAGATAAAAGA
* * *
21432009 CAGATCTTAGAAATACATGCAGACATCTCAACCCATAAATTCCTGGATCCCATGCAAAAAGTCGT
129 CAGATATTAGAAATACATGCAGACATCTCAACCCATAAATTCCTGGATCCCATCCAAAAAGTCAT
* * *
21432074 TGCAAGTTTGCTGATTTCCC-AACATG-AAAATTGGCAGCTTCGGTTTCTTGGACCAAGATTTCC
194 TGCAAGTCTGCTGATTTCCCTAACATGAAAAATTGGCAGCTTCGATTTCTTGGACCAAGATTTCA
21432137 AAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATT-TGTTGGAATGGAAAAATTGGACCAAGA
259 AAGATTTGAAATCTTGATTTTCTTGATTCTTGAAATTGT-TTGGAATGGAAAAATTGGACCAAGA
* *
21432201 TTCATTTTCTTGATTTTCTTGAAAACAATAAAGTGAATCTTGATTTTCTTTTTCGACCGTGTGCG
323 TTCAGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCGACCGTGTGCG
* ** * *
21432266 CATTTAGGGCCTTGGTAATGAAGTCTTAGATGGTCCCGTTCAATCTTTCTTGAATTTGCTTGGCC
388 CATCTAGGGCCTTGGTAACAAAGTCTTAGATGGTCCCGTTCAATCTTACTCGAATTTGCTTGGCC
* *
21432331 TTCGACCTCGTTATTGGGCCTTGAGAAACTTTGATCCAATCACATTCATAAGCTTGAATTTGGGC
453 TTCGACCTCATTATTGGGCCTTGAGAAAATTTGATCCAATCACATTCATAAGCTTGAATTTGGGC
*
21432396 CTTGTGACTC
518 CTTGCGACTC
21432406 TATCATTAGT
Statistics
Matches: 471, Mismatches: 51, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
531 1 0.00
532 277 0.59
534 5 0.01
535 185 0.39
536 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (534 bp):
CGAAACTCGTAATTCCCGTCATAATCACGTCCAAAAATTCTCCTCACACAGTCTTTATTAAAACA
ATCATAACTTGACATCCTAAACTCAAAATTGAGTGATTCAAAGTGCGTTTCAAAGATAAAAGACA
GATATTAGAAATACATGCAGACATCTCAACCCATAAATTCCTGGATCCCATCCAAAAAGTCATTG
CAAGTCTGCTGATTTCCCTAACATGAAAAATTGGCAGCTTCGATTTCTTGGACCAAGATTTCAAA
GATTTGAAATCTTGATTTTCTTGATTCTTGAAATTGTTTGGAATGGAAAAATTGGACCAAGATTC
AGTTTCTTGATTTTCTTGAAAACAAGAAAGTGAATCTTGATTTTCTTTTTCGACCGTGTGCGCAT
CTAGGGCCTTGGTAACAAAGTCTTAGATGGTCCCGTTCAATCTTACTCGAATTTGCTTGGCCTTC
GACCTCATTATTGGGCCTTGAGAAAATTTGATCCAATCACATTCATAAGCTTGAATTTGGGCCTT
GCGACTCGTATAAC
Found at i:21433557 original size:3 final size:3
Alignment explanation
Indices: 21433540--21433611 Score: 128
Period size: 3 Copynumber: 24.0 Consensus size: 3
21433530 CGAAATTTAT
21433540 AAG AAG AA- AAGG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AA-G AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
21433585 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
21433612 TGTGCAATTT
Statistics
Matches: 67, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.03
3 63 0.94
4 2 0.03
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:21433826 original size:15 final size:17
Alignment explanation
Indices: 21433796--21433827 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
21433786 CTTCGAACAA
21433796 GCAACGAGTGGTAAAAG
1 GCAACGAGTGGTAAAAG
21433813 GCAA-GAGT-GTAAAAG
1 GCAACGAGTGGTAAAAG
21433828 AGCATTAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.44, C:0.09, G:0.34, T:0.12
Consensus pattern (17 bp):
GCAACGAGTGGTAAAAG
Found at i:21434227 original size:21 final size:20
Alignment explanation
Indices: 21434202--21434279 Score: 54
Period size: 21 Copynumber: 3.9 Consensus size: 20
21434192 TGGTAATGAG
21434202 AGAAAATGAGAGAAAAATAAA
1 AGAAAATGAGAGAAAAA-AAA
*
21434223 AG-AAATAGGGAGAAGAAAAAA
1 AGAAAAT-GAGAGAA-AAAAAA
* * *
21434244 AGAAATTGA-A-AGAGAAAA
1 AGAAAATGAGAGAAAAAAAA
**
21434262 AGAACTTGAGAGAAAAAA
1 AGAAAATGAGAGAAAAAA
21434280 GAGAGAAGAA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
18 13 0.30
19 2 0.05
20 9 0.20
21 14 0.32
22 6 0.14
ACGTcount: A:0.67, C:0.01, G:0.23, T:0.09
Consensus pattern (20 bp):
AGAAAATGAGAGAAAAAAAA
Found at i:21434256 original size:18 final size:18
Alignment explanation
Indices: 21434235--21434279 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
21434225 AAATAGGGAG
21434235 AAGAAAAAAAGAAATTGA
1 AAGAAAAAAAGAAATTGA
* *
21434253 AAGAGAAAAAGAACTTGA
1 AAGAAAAAAAGAAATTGA
*
21434271 GAGAAAAAA
1 AAGAAAAAA
21434280 GAGAGAAGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.69, C:0.02, G:0.20, T:0.09
Consensus pattern (18 bp):
AAGAAAAAAAGAAATTGA
Found at i:21434335 original size:99 final size:98
Alignment explanation
Indices: 21434200--21434382 Score: 235
Period size: 99 Copynumber: 1.9 Consensus size: 98
21434190 GTTGGTAATG
* *
21434200 AGAGAAAATGAGAGAAAAATAAAAGAAATAGGGAG-AAGAAAAAAAGAAATTGA-AAGAGAAAAA
1 AGAGAAAATAAGAGAAAAATAAAAGAAATAGAGAGAAAG-AAAAAAGAAATTGAGAA-AGAAAAA
* *
21434263 GAACTTGAGAGAAAAAAGAGAGAAGAATTGTTGATA
64 GAAATTGAAAG-AAAAAGAGAGAAGAATTGTTGATA
* ** * * *
21434299 AGAGAAAATAAGAGAAAAATCAAAGAGTTAGAGAGAAAGAAACAAGAAATTGAGAATGAAAAGGA
1 AGAGAAAATAAGAGAAAAATAAAAGAAATAGAGAGAAAGAAAAAAGAAATTGAGAAAGAAAAAGA
21434364 AATTGAAAGAAAAAGAGAG
66 AATTGAAAGAAAAAGAGAG
21434383 CTTGAGAGAA
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
98 10 0.14
99 57 0.79
100 5 0.07
ACGTcount: A:0.62, C:0.02, G:0.25, T:0.11
Consensus pattern (98 bp):
AGAGAAAATAAGAGAAAAATAAAAGAAATAGAGAGAAAGAAAAAAGAAATTGAGAAAGAAAAAGA
AATTGAAAGAAAAAGAGAGAAGAATTGTTGATA
Found at i:21434359 original size:19 final size:18
Alignment explanation
Indices: 21434331--21434379 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 18
21434321 AAGAGTTAGA
21434331 GAGAAAGAAACAAGAAATT
1 GAGAAAGAAA-AAGAAATT
* *
21434350 GAGAATGAAAAGGAAATT
1 GAGAAAGAAAAAGAAATT
21434368 --GAAAGAAAAAGA
1 GAGAAAGAAAAAGA
21434380 GAGCTTGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 10 0.38
18 7 0.27
19 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.24, T:0.10
Consensus pattern (18 bp):
GAGAAAGAAAAAGAAATT
Found at i:21434511 original size:15 final size:16
Alignment explanation
Indices: 21434493--21434522 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21434483 AAAAAGAAAG
21434493 TGAGAGTGA-AAAGAT
1 TGAGAGTGAGAAAGAT
21434508 TGAGAGTGAGAAAGA
1 TGAGAGTGAGAAAGA
21434523 ACTCGAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.47, C:0.00, G:0.37, T:0.17
Consensus pattern (16 bp):
TGAGAGTGAGAAAGAT
Found at i:21436744 original size:30 final size:30
Alignment explanation
Indices: 21436708--21436768 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
21436698 GCATGGAAGA
* * *
21436708 TGCGAGCACTCATGTTGCGAACACTCATGT
1 TGCGAGCACTCATATTGAGAACACTAATGT
21436738 TGCGAGCACTCATATTGAGAACACTAATGT
1 TGCGAGCACTCATATTGAGAACACTAATGT
21436768 T
1 T
21436769 ACAAACACTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (30 bp):
TGCGAGCACTCATATTGAGAACACTAATGT
Found at i:21436762 original size:15 final size:15
Alignment explanation
Indices: 21436708--21436778 Score: 79
Period size: 15 Copynumber: 4.7 Consensus size: 15
21436698 GCATGGAAGA
*
21436708 TGCGAGCACTCATGT
1 TGCGAACACTCATGT
21436723 TGCGAACACTCATGT
1 TGCGAACACTCATGT
* *
21436738 TGCGAGCACTCATAT
1 TGCGAACACTCATGT
* *
21436753 TGAGAACACTAATGT
1 TGCGAACACTCATGT
* *
21436768 TACAAACACTC
1 TGCGAACACTC
21436779 GCGTTGCGAG
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (15 bp):
TGCGAACACTCATGT
Found at i:21436946 original size:18 final size:18
Alignment explanation
Indices: 21436923--21436966 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
21436913 TCATGCATTC
21436923 CATGCATTTCATACAACT
1 CATGCATTTCATACAACT
* * * *
21436941 CGTGCACTTCTTGCAACT
1 CATGCATTTCATACAACT
21436959 CATGCATT
1 CATGCATT
21436967 CCATGCAATG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.25, C:0.30, G:0.11, T:0.34
Consensus pattern (18 bp):
CATGCATTTCATACAACT
Found at i:21436973 original size:18 final size:17
Alignment explanation
Indices: 21436923--21436974 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
21436913 TCATGCATTC
*
21436923 CATGCATTTCATACAACT
1 CATGCA-TTCATGCAACT
* *
21436941 CGTGCACTTCTTGCAACT
1 CATGCA-TTCATGCAACT
21436959 CATGCATTCCATGCAA
1 CATGCATT-CATGCAA
21436975 TGTGCTGCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.27, C:0.31, G:0.12, T:0.31
Consensus pattern (17 bp):
CATGCATTCATGCAACT
Found at i:21440125 original size:218 final size:216
Alignment explanation
Indices: 21439726--21440309 Score: 794
Period size: 217 Copynumber: 2.7 Consensus size: 216
21439716 GCTCGCATCA
* * * * ** *
21439726 TTTGGTCTTTGAACTAAAAACTTATTTACGTGAGAATCGTTTCTCTCTTGGCTCTTGGCTGAACT
1 TTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGGCCGAACT
* * * **
21439791 CCCGAACTTGTCAAAA-TTTTACAAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGATGA
66 TCCGAACTTG-AAAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAA
*
21439855 TCCATTCATTCGAGCAATTTTCCAAACTTTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATA
130 TCCATTCATTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATA
* *
21439920 GTTTGTCATTTTGTACACAGCT
195 GTTTGTCATTTTGTAAACAACT
* * * *
21439942 TTTGGTCTTTGAATTAAAAAACTTATGTAGGTGAGAATTGTTTCTATCTTGGTTCACGACCGAAT
1 TTTGGTCTTTGAATT-AAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGGCCGAAC
** * * *
21440007 TTCCGAACAAGAAAAACTTTTACAAGTTCTTGTATAACTTCGATTCCTTAAAAATATTCAAGGCA
65 TTCCGAACTTGAAAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTT-AAAGTATTCAAGACA
* *
21440072 ATCCATTCATTCGAGCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAAT
129 ATCCATTCATTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAAT
21440137 AGTTTGTCATTTTGTAAACAACT
194 AGTTTGTCATTTTGTAAACAACT
* * * * * *
21440160 TTTGGTCTTTGAATTGAAAACTTATTTAGGTGAAAATTGCTTCTCTCTTCGTTTACGGTCGAACT
1 TTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGGCCGAACT
* * *
21440225 TCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAAT
66 TCCGAACTTGAAAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAAT
*
21440290 TCATTCCATT-GAGCAATTTT
131 CCATT-CATTCGAGCAATTTT
21440310 TTGCATAATA
Statistics
Matches: 319, Mismatches: 45, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
216 47 0.15
217 163 0.51
218 109 0.34
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (216 bp):
TTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGGCCGAACT
TCCGAACTTGAAAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACAAT
CCATTCATTCGAGCAATTTTCCAAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAG
TTTGTCATTTTGTAAACAACT
Found at i:21440529 original size:17 final size:17
Alignment explanation
Indices: 21440509--21440541 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21440499 TTTAAGGACT
21440509 TTTTAATTTTA-TTTAAG
1 TTTT-ATTTTACTTTAAG
21440526 TTTTATTTTACTTTAA
1 TTTTATTTTACTTTAA
21440542 TAAGTGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.27, C:0.03, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTATTTTACTTTAAG
Found at i:21440817 original size:50 final size:51
Alignment explanation
Indices: 21440759--21440891 Score: 146
Period size: 50 Copynumber: 2.6 Consensus size: 51
21440749 CAGTTAAGCT
*
21440759 TGCATCATAAATAATGACATGCATTAAGTAACTTACATGTTAGTTAAA-TA
1 TGCATCATAAATAATGACATGCATTAAGTAACTCACATGTTAGTTAAAGTA
** * * *
21440809 TGCATCATAAATCCT-ATCATGCATTATGTAACTCCCATGTTAGTTAAAGTT
1 TGCATCATAAATAATGA-CATGCATTAAGTAACTCACATGTTAGTTAAAGTA
* *
21440860 TGCATCATTAAATCAA-GTCATGCATTTAGTAA
1 TGCATCA-TAAAT-AATGACATGCATTAAGTAA
21440892 TCCATTAGTT
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
49 1 0.01
50 41 0.61
51 8 0.12
52 17 0.25
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (51 bp):
TGCATCATAAATAATGACATGCATTAAGTAACTCACATGTTAGTTAAAGTA
Found at i:21442316 original size:215 final size:215
Alignment explanation
Indices: 21442024--21442851 Score: 1031
Period size: 215 Copynumber: 3.8 Consensus size: 215
21442014 TCATTCAAGC
* * * *
21442024 ACTTATTTACATGAGAATTGTTTCTCTCTTGGTTCTCGGCCAAACTTCCAAACTTGACAAACTTT
1 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCT-TGTCGAACTTCCAAACTTGACAAACTTT
* * *
21442089 TATGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTTGTTTGAGCAATTT
65 TACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTT
* * * * *
21442154 TTCGATCATTCCATGCGCTG-GAAGTCACATCATTTGCTCTAAATAGTTTGTCATTTTGTTA-AC
130 TTCGAACATTCCATGCTC-GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG-TACAC
*
21442217 AACTATTT-GTCTTTGAATTAAAG
193 AACT-TTTGGTCTTTGAATTAAAA
* * **
21442240 ACTTATTTATGTGAGAATTATTTCTCTCTTGGTTCTTGTCGAACTTCCAAACTTCTCAAACTTTT
1 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGTCGAACTTCCAAACTTGACAAACTTTT
* * * *
21442305 ACGAGTTCTTTTATAACCTT-GGTTCCTTAAAGTAATCAAGACAATCCATTCTTTCGAGCAATTT
66 ACGAGTTCTTTTATAA-CTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTT
* * * * * * *
21442369 TTTGAACATTCCTTGCTCGGGAAATCGCATCATTTGGTCTAAATTGTTAGTCATTTTGGATACAA
130 TTCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACACAA
21442434 CTTTTGGTCTTTGAATTAAAA
195 CTTTTGGTCTTTGAATTAAAA
* * * * * **
21442455 ATTTATTTACGTGAGAATTGTTTCTCTCTTGGCTCTTGGCTGAACTTTCGAACTTTTCAAACTTT
1 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGTC-GAACTTCCAAACTTGACAAACTTT
* *
21442520 TAC-ACATTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGA-TATCCATTCGTTCGAGCAA-T
65 TACGA-GTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATT
* *
21442582 TTTCCAAGCTTTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
129 TTTCGAA-CATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
21442647 AACTTTTGGTCTTTGAATTAAAA
193 AACTTTTGGTCTTTGAATTAAAA
* * ** * * *
21442670 ACTTATTTAAGTAAGAATTGTTTCTCTCTTGGTTCACGATTGAACTTCCGAACTTGAAAAACTTT
1 ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTG-TCGAACTTCCAAACTTGACAAACTTT
* * * * * * * *
21442735 TACAAGTTCTTGTATAACTTCGTTTCCTTAAAATATTTAAGGCGATCCATTCATTCAAGCAATTT
65 TACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTT
21442800 TTCGAACATTCCATGCTCGAGAAATCGCATCATTTTGGTCTAAATAGTTTGT
130 TTCGAACATTCCATGCTCGAGAAATCGCATCA-TTTGGTCTAAATAGTTTGT
21442852 AATAAGATCA
Statistics
Matches: 528, Mismatches: 71, Indels: 25
0.85 0.11 0.04
Matches are distributed among these distances:
214 11 0.02
215 359 0.68
216 132 0.25
217 26 0.05
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (215 bp):
ACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGTCGAACTTCCAAACTTGACAAACTTTT
ACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTTT
TCGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACACAAC
TTTTGGTCTTTGAATTAAAA
Found at i:21442829 original size:431 final size:432
Alignment explanation
Indices: 21442026--21442844 Score: 1121
Period size: 431 Copynumber: 1.9 Consensus size: 432
21442016 ATTCAAGCAC
*
21442026 TTATTTACATGAGAATTGTTTCTCTCTTGGTTCTCGGCCAAACTTCCAAACTTGACAAACTTTTA
1 TTATTTACATGAGAATTGTTTCTCTCTTGGCTCTCGGCCAAACTTCCAAACTTGACAAACTTTTA
* * * * *
21442091 TGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTTGTTTGAGCAATTTTT
66 TCAATTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTTTC
* * *
21442156 CGATCATTCCATGCGCTGGAAGTCACATCATTTGCTCTAAATAGTTTGTCATTTTGTTAACAACT
131 CAAGCATTCCATGCGCTGGAAATCACATCATTTGCTCTAAATAGTTTGTCATTTTGTTAACAACT
* * * **
21442221 ATTTGTCTTTGAATTAAAGACTTATTTATGTGAGAATTATTTCTCTCTTGGTTCTTGTCGAACTT
196 ATTTGTCTTTGAATTAAAAACTTATTTAAGTAAGAATTATTTCTCTCTTGGTTCACGTCGAACTT
** * * *
21442286 CCAAACTTCTCAAACTTTTACGAGTTCTTTTATAACCTTGGTTCCTTAAAGTAATCAAGACAATC
261 CCAAACTTCAAAAACTTTTACAAGTTCTTGTATAACCTTGGTTCCTTAAAATAATCAAGACAATC
* * * * *
21442351 CATTCTTTCGAGCAATTTTTTGAACATTCCTTGCTCGGGAAATCGCATCA-TTTGGTCTAAATTG
326 CATTCATTCAAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTTGGTCTAAATTG
21442415 TTAGTCATTTTGGATACAACTTTTGGTCTTTGAATTAAAAAT
391 TTAGTCATTTTGGATACAACTTTTGGTCTTTGAATTAAAAAT
* * ** * * **
21442457 TTATTTACGTGAGAATTGTTTCTCTCTTGGCTCTTGGCTGAACTTTCGAACTTTTCAAACTTTTA
1 TTATTTACATGAGAATTGTTTCTCTCTTGGCTCTCGGCCAAACTTCCAAACTTGACAAACTTTTA
*
21442522 -CACATTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGA-TATCCATTCGTTCGAGCAATTTT
66 TCA-ATTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTTT
* * * *
21442585 CCAAGCTTTCCATGCTC-GAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG-TACACA
130 CCAAGCATTCCATGCGCTG-GAAATCACATCATTTGCTCTAAATAGTTTGTCATTTTGTTA-ACA
* *
21442648 ACT-TTTGGTCTTTGAATTAAAAACTTATTTAAGTAAGAATTGTTTCTCTCTTGGTTCACGATTG
193 ACTATTT-GTCTTTGAATTAAAAACTTATTTAAGTAAGAATTATTTCTCTCTTGGTTCACG-TCG
* * * * *
21442712 AACTTCCGAACTTGAAAAACTTTTACAAGTTCTTGTATAA-CTTCGTTTCCTTAAAATATTTAAG
256 AACTTCCAAACTTCAAAAACTTTTACAAGTTCTTGTATAACCTT-GGTTCCTTAAAATAATCAAG
* *
21442776 GCGATCCATTCATTCAAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTTGGTCT
320 ACAATCCATTCATTCAAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTTGGTCT
21442841 AAAT
385 AAAT
21442845 AGTTTGTAAT
Statistics
Matches: 335, Mismatches: 46, Indels: 13
0.85 0.12 0.03
Matches are distributed among these distances:
429 6 0.02
430 124 0.37
431 193 0.58
432 12 0.04
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.41
Consensus pattern (432 bp):
TTATTTACATGAGAATTGTTTCTCTCTTGGCTCTCGGCCAAACTTCCAAACTTGACAAACTTTTA
TCAATTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCGTTCGAGCAATTTTC
CAAGCATTCCATGCGCTGGAAATCACATCATTTGCTCTAAATAGTTTGTCATTTTGTTAACAACT
ATTTGTCTTTGAATTAAAAACTTATTTAAGTAAGAATTATTTCTCTCTTGGTTCACGTCGAACTT
CCAAACTTCAAAAACTTTTACAAGTTCTTGTATAACCTTGGTTCCTTAAAATAATCAAGACAATC
CATTCATTCAAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCATCATTTTGGTCTAAATTG
TTAGTCATTTTGGATACAACTTTTGGTCTTTGAATTAAAAAT
Found at i:21444283 original size:49 final size:52
Alignment explanation
Indices: 21444195--21444303 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 52
21444185 TGGATTACTA
* * *
21444195 AATGCATGACTTGATTTAATGATGCAAACTTTAATTAACATGGGAGTTACAT
1 AATGCATGACTAGATTTAATGATGCAAACTTTAACTAACATGGAAGTTACAT
* * *
21444247 AATGCATGA-TAGATTT-ATGATGCATA-TTTAACTAACATGTAAGTTACTT
1 AATGCATGACTAGATTTAATGATGCAAACTTTAACTAACATGGAAGTTACAT
21444296 AATGCATG
1 AATGCATG
21444304 TCTGATACGG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
49 27 0.53
50 9 0.18
51 6 0.12
52 9 0.18
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (52 bp):
AATGCATGACTAGATTTAATGATGCAAACTTTAACTAACATGGAAGTTACAT
Found at i:21444817 original size:32 final size:32
Alignment explanation
Indices: 21444772--21444834 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
21444762 AGCCGAAATT
* * *
21444772 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTAATTAATATATTTCAGGTACATGC
21444804 AATTAGCTAATTAATATATTTCAGGTACATG
1 AATTAGCTAATTAATATATTTCAGGTACATG
21444835 TATGGATGGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (32 bp):
AATTAGCTAATTAATATATTTCAGGTACATGC
Found at i:21448116 original size:31 final size:28
Alignment explanation
Indices: 21448062--21448154 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 28
21448052 AAGAAAATTG
*
21448062 AAAAAAAGAAAGG-AAAAATGAGAGAAA
1 AAAAAAAGAAAGGAAAAAAAGAGAGAAA
*
21448089 AAAGCAAAGAAAGTGAAAAGAAAGAGAGAAA
1 AAA-AAAAGAAAG-GAAAA-AAAGAGAGAAA
21448120 AGAAAAAGATGAAAGGGAAGAAAAAGAGAGAAA
1 A-AAAAA-A-GAAA-GGAA-AAAAAGAGAGAAA
21448153 AA
1 AA
21448155 TTAAATGTGT
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
27 3 0.06
28 8 0.15
29 1 0.02
30 3 0.06
31 13 0.24
32 4 0.07
33 19 0.35
34 3 0.06
ACGTcount: A:0.70, C:0.01, G:0.26, T:0.03
Consensus pattern (28 bp):
AAAAAAAGAAAGGAAAAAAAGAGAGAAA
Found at i:21448120 original size:29 final size:28
Alignment explanation
Indices: 21448066--21448121 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
21448056 AAATTGAAAA
*
21448066 AAAGAAAGGAAAAATGAGAGAAAAAAGC
1 AAAGAAAGGAAAAATAAGAGAAAAAAGC
*
21448094 AAAGAAAGTGAAAAGA-AAGAGAGAAAAG
1 AAAGAAAG-GAAAA-ATAAGAGAAAAAAG
21448122 AAAAAGATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 8 0.33
29 15 0.62
30 1 0.04
ACGTcount: A:0.68, C:0.02, G:0.27, T:0.04
Consensus pattern (28 bp):
AAAGAAAGGAAAAATAAGAGAAAAAAGC
Found at i:21451401 original size:32 final size:32
Alignment explanation
Indices: 21451365--21451427 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 32
21451355 AGCCGAAATT
* * * *
21451365 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGATGATTAATATATTCCAGGTACATGC
21451397 AATTAGATGATTAATATATTCCAGGTACATG
1 AATTAGATGATTAATATATTCCAGGTACATG
21451428 TATGGATGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (32 bp):
AATTAGATGATTAATATATTCCAGGTACATGC
Found at i:21452452 original size:14 final size:14
Alignment explanation
Indices: 21452431--21452467 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
21452421 AGTAAGTTCT
21452431 TGAAAAAAAATTCG
1 TGAAAAAAAATTCG
21452445 T-AAAAAAAATTCG
1 TGAAAAAAAATTCG
21452458 TGAAAAAAAA
1 TGAAAAAAAA
21452468 GACTAGATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.19
Consensus pattern (14 bp):
TGAAAAAAAATTCG
Found at i:21452525 original size:23 final size:22
Alignment explanation
Indices: 21452494--21452536 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
21452484 AGAAGTGCAA
21452494 AGTTTGAAA-TATTAAAAAAAAG
1 AGTTTGAAAGTA-TAAAAAAAAG
21452516 AGTTTCGAAAGTATAAAAAAA
1 AGTTT-GAAAGTATAAAAAAA
21452537 CAAAAGGCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.58, C:0.02, G:0.14, T:0.26
Consensus pattern (22 bp):
AGTTTGAAAGTATAAAAAAAAG
Found at i:21454323 original size:32 final size:32
Alignment explanation
Indices: 21454277--21454339 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
21454267 ATTGGGATTG
*
21454277 CCAAAAACTAAGCACCCCCATCCTTACAAGCA
1 CCAAAAACTAAGCACCCCCATCCCTACAAGCA
*
21454309 CCAACAACTAAGCACCCCCATCCCTACAAGC
1 CCAAAAACTAAGCACCCCCATCCCTACAAGC
21454340 TTTAATGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.38, C:0.44, G:0.06, T:0.11
Consensus pattern (32 bp):
CCAAAAACTAAGCACCCCCATCCCTACAAGCA
Found at i:21454716 original size:31 final size:32
Alignment explanation
Indices: 21454675--21454760 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 32
21454665 TTGAAAAAAA
*
21454675 GGAAGGAAAAATGAGAGAAAAAAGCAA-A-GAAAG
1 GGAA-GAAAAA-GAGAGAAAAAA-AAAGATGAAAG
* *
21454708 TGAAAAAAAAGAGAGAAAAGAAAAAGATGAAAG
1 GGAAGAAAAAGAGAGAAAA-AAAAAGATGAAAG
21454741 GGAAGAAAAAGAGAGAAAAA
1 GGAAGAAAAAGAGAGAAAAA
21454761 TTAAATGTGT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 11 0.24
32 9 0.20
33 25 0.56
ACGTcount: A:0.67, C:0.01, G:0.28, T:0.03
Consensus pattern (32 bp):
GGAAGAAAAAGAGAGAAAAAAAAAGATGAAAG
Found at i:21454727 original size:20 final size:19
Alignment explanation
Indices: 21454648--21454727 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 19
21454638 AGAGTGAGAA
* *
21454648 TGAAAAAGAA-AAGAAAAT
1 TGAAAAAAAAGAAGAAAAG
* *
21454666 TGAAAAAAAGGAAGGAAAAA
1 TGAAAAAAAAGAA-GAAAAG
21454686 TGAGAGAAAAAAGCAA-AGAAAG
1 TGA-A-AAAAAAG-AAGA-AAAG
21454708 TGAAAAAAAAGAGAGAAAAG
1 TGAAAAAAAAGA-AGAAAAG
21454728 AAAAAGATGA
Statistics
Matches: 49, Mismatches: 5, Indels: 14
0.72 0.07 0.21
Matches are distributed among these distances:
18 8 0.16
19 3 0.06
20 20 0.41
21 4 0.08
22 12 0.24
23 2 0.04
ACGTcount: A:0.69, C:0.01, G:0.24, T:0.06
Consensus pattern (19 bp):
TGAAAAAAAAGAAGAAAAG
Found at i:21458009 original size:32 final size:32
Alignment explanation
Indices: 21457973--21458099 Score: 218
Period size: 32 Copynumber: 4.0 Consensus size: 32
21457963 AGCCGAAATT
*
21457973 AATTAGCTGATTAATGTGTTTCATGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
21458005 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
21458037 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
* * *
21458069 AATTAGCTGATTAATATATTCCAGGTACATG
1 AATTAGCTGATTAATGTGTTTCAGGTACATG
21458100 TATGGATGGC
Statistics
Matches: 91, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 91 1.00
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.38
Consensus pattern (32 bp):
AATTAGCTGATTAATGTGTTTCAGGTACATGC
Found at i:21460755 original size:18 final size:18
Alignment explanation
Indices: 21460719--21460763 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
21460709 CACTCTTTCT
21460719 TTTCTTTCTTCATTCTCGA
1 TTTCTTT-TTCATTCTCGA
21460738 TTTCTTTTTCAATT-TCGA
1 TTTCTTTTTC-ATTCTCGA
*
21460756 TCTCTTTT
1 TTTCTTTT
21460764 CTCACACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.11, C:0.22, G:0.04, T:0.62
Consensus pattern (18 bp):
TTTCTTTTTCATTCTCGA
Found at i:21461806 original size:25 final size:23
Alignment explanation
Indices: 21461766--21461811 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
21461756 TTTTTCTTCT
21461766 TTCGATTCTTTTTTCTTTTTTAA
1 TTCGATTCTTTTTTCTTTTTTAA
*
21461789 TTCGAATTTTTTTCTTCTTTTTT
1 TTCG-ATTCTTTT-TTCTTTTTT
21461812 TTCAAACTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 7 0.35
25 9 0.45
ACGTcount: A:0.11, C:0.13, G:0.04, T:0.72
Consensus pattern (23 bp):
TTCGATTCTTTTTTCTTTTTTAA
Found at i:21461847 original size:19 final size:18
Alignment explanation
Indices: 21461823--21461867 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
21461813 TCAAACTTTG
21461823 AAATTTTTTATTTTTTTC
1 AAATTTTTTATTTTTTTC
*
21461841 -AATATTTTGATTTTTTTC
1 AAAT-TTTTTATTTTTTTC
21461859 AAATTTTTT
1 AAATTTTTT
21461868 TCACTTTTCG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (18 bp):
AAATTTTTTATTTTTTTC
Found at i:21463232 original size:10 final size:10
Alignment explanation
Indices: 21463217--21463249 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
21463207 AATTAAGCAA
21463217 GGAGCTGAAT
1 GGAGCTGAAT
21463227 GGAGCTGAAT
1 GGAGCTGAAT
*
21463237 GGAACTGAAT
1 GGAGCTGAAT
21463247 GGA
1 GGA
21463250 CTACGCTAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.33, C:0.09, G:0.39, T:0.18
Consensus pattern (10 bp):
GGAGCTGAAT
Found at i:21463594 original size:32 final size:32
Alignment explanation
Indices: 21463542--21463604 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
21463532 GCCATCCATA
* * *
21463542 CATGTACCTGAAATATATTAATCAGCTAATTG
1 CATGTACCTAAAACACATTAATCAGCTAATTG
21463574 CATGTACCTAAAACACATTAATCAGCTAATT
1 CATGTACCTAAAACACATTAATCAGCTAATT
21463605 AATTTCAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (32 bp):
CATGTACCTAAAACACATTAATCAGCTAATTG
Found at i:21463693 original size:39 final size:39
Alignment explanation
Indices: 21463650--21463748 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 39
21463640 TTAATTTGTC
* *
21463650 TCAAACTTAGACACCTTAAAAAAAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
* *
21463689 TCAAAATAAGACACATTAAAAACAACTATTAAATATGTA
1 TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
21463728 TCAAACTAAGACACATTAAAA
1 TCAAACTAAGACACATTAAAA
21463749 CCCTATTTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.55, C:0.15, G:0.05, T:0.25
Consensus pattern (39 bp):
TCAAACTAAGACACATTAAAAAAAACTATTAAATATGTA
Found at i:21464725 original size:50 final size:50
Alignment explanation
Indices: 21464639--21464762 Score: 151
Period size: 50 Copynumber: 2.4 Consensus size: 50
21464629 TGCATGACTT
*
21464639 GATTTAATGATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGAT-AG
1 GATTT-ATGATGCAAA-TTTAACTAACATGGAAGTTACATAATGCATG-TCAG
* * * *
21464691 GATTTATGATGCATATTTAACTAACATGTAAGTTACTTAATGCATGTCAT
1 GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
* *
21464741 TATTTATGATGCAAACTTAACT
1 GATTTATGATGCAAATTTAACT
21464763 GATCATGAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
49 1 0.02
50 48 0.76
51 9 0.14
52 5 0.08
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (50 bp):
GATTTATGATGCAAATTTAACTAACATGGAAGTTACATAATGCATGTCAG
Found at i:21465000 original size:17 final size:17
Alignment explanation
Indices: 21464969--21465001 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21464959 CAAACACTTA
21464969 TTAAACTAAAATAAAAC
1 TTAAACTAAAATAAAAC
21464986 TTAAA-TAAAATTAAAA
1 TTAAACTAAAA-TAAAA
21465002 AGTCCTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (17 bp):
TTAAACTAAAATAAAAC
Found at i:21466434 original size:45 final size:45
Alignment explanation
Indices: 21466370--21466460 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
21466360 GCTTTTATCT
21466370 TTTAAATCACTTCTAACGAATTTGTTTGTGTTTTTATTTTCCAGG
1 TTTAAATCACTTCTAACGAATTTGTTTGTGTTTTTATTTTCCAGG
21466415 TTTAAATCACTTCTAACGAATTTGTTTGTGTTTTTATTTTCCAGG
1 TTTAAATCACTTCTAACGAATTTGTTTGTGTTTTTATTTTCCAGG
21466460 T
1 T
21466461 CTGGTTGGGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.22, C:0.13, G:0.13, T:0.52
Consensus pattern (45 bp):
TTTAAATCACTTCTAACGAATTTGTTTGTGTTTTTATTTTCCAGG
Found at i:21470488 original size:18 final size:18
Alignment explanation
Indices: 21470454--21470490 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21470444 ACTCTTCTAC
*
21470454 TTCTAAATGGAGTCAGAA
1 TTCTAAATGGAGACAGAA
*
21470472 TTCTAAATGGGGACAGAA
1 TTCTAAATGGAGACAGAA
21470490 T
1 T
21470491 GCTCTTAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (18 bp):
TTCTAAATGGAGACAGAA
Found at i:21473647 original size:15 final size:15
Alignment explanation
Indices: 21473627--21473665 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
21473617 AGATCATGTG
*
21473627 ATGCGAGCACGAGTA
1 ATGCGAGCACGAATA
* *
21473642 ATGCGAGCTCTAATA
1 ATGCGAGCACGAATA
21473657 ATGCGAGCA
1 ATGCGAGCA
21473666 TGCGAGCACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.28, T:0.18
Consensus pattern (15 bp):
ATGCGAGCACGAATA
Found at i:21475837 original size:74 final size:75
Alignment explanation
Indices: 21475693--21475830 Score: 260
Period size: 74 Copynumber: 1.9 Consensus size: 75
21475683 GGAGGGATAT
21475693 AATGTTTCATTCAAGAGTTTTTCAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCC
1 AATGTTTCATTCAAGAGTTTTTCAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCC
21475758 ATTCACATTC
66 ATTCACATTC
*
21475768 AATGTTTCATTCAAGGGTTTTT-AAATGAATCAACACATTCATTTATGAATGATGAATGATGGC
1 AATGTTTCATTCAAGAGTTTTTCAAATGAATCAACACATTCATTTATGAATGATGAATGATGGC
21475831 TGTTCACTTT
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
74 41 0.66
75 21 0.34
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.36
Consensus pattern (75 bp):
AATGTTTCATTCAAGAGTTTTTCAAATGAATCAACACATTCATTTATGAATGATGAATGATGGCC
ATTCACATTC
Found at i:21476761 original size:216 final size:216
Alignment explanation
Indices: 21476388--21476988 Score: 787
Period size: 216 Copynumber: 2.8 Consensus size: 216
21476378 CAAACTTTCA
** * * *
21476388 AACTTCCGAACTTGTCAAACTTTTACACGTTCTTTTATAACTTTGATTCCTTAAAGTA-TCAAGA
1 AACTTCCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTCGATTCCTTAAAGTATTCAAGA
* * * * *
21476452 CAATCCATTCGTTCGAGCAATTTTCCA-AACTTTTCATGCTCGGGAAATCGCATCATTTGATCTA
66 CGATCCATTCATTCGAGCAATTTT-CAGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTA
* * *
21476516 AATAGTTTGTCCTTTTGTACACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTG
130 AATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAAAATTG
* * *
21476581 TTTCTATCTTGGTTC-GCGACTG
195 TTTCTATCTTAGTTCAGAG-CCG
* ** * *
21476603 AACTTCCGAACCTGAAAAACTTTTACAAGTTCTTGTATAACTTCGGCTCCTTAAAATATTCAAGG
1 AACTTCCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTCGATTCCTTAAAGTATTCAAGA
* *
21476668 CGATCCATTCATTCGAGCAATTTTCAGAACATTCCATGCTCAGGAAATCACATCATTTGGTCTAA
66 CGATCCATTCATTCGAGCAATTTTCAGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAA
*
21476733 ATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTGAAAACTTATTTAGGTGAAAATTGT
131 ATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAAAATTGT
* * *
21476798 TTCTCTTTTAGTTCATAGCCG
196 TTCTATCTTAGTTCAGAGCCG
* * *
21476819 AACTCCCAAACTTGAAAAACTTTTACAAGTTC-TGTTATAACTTCGATTTCTTAAAGTATTCAAG
1 AACTTCCGAACTTGAAAAACTTTTACAAGTTCTTG-TATAACTTCGATTCCTTAAAGTATTCAAG
* * ** *
21476883 ACGATCCATTCCTTCAAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGTATCATTTGGTCTA
65 ACGATCCATTCATTCGAGCAATTTTCAGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTA
* * * * *
21476948 AACACTTTGTCATTTTGTAAATAACTTTTGGCCTTCGAATT
130 AATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT
21476989 TTCTATCTTG
Statistics
Matches: 335, Mismatches: 47, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
215 53 0.16
216 281 0.84
217 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (216 bp):
AACTTCCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTCGATTCCTTAAAGTATTCAAGA
CGATCCATTCATTCGAGCAATTTTCAGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAA
ATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAAAATTGT
TTCTATCTTAGTTCAGAGCCG
Found at i:21477397 original size:215 final size:214
Alignment explanation
Indices: 21477025--21478043 Score: 1122
Period size: 215 Copynumber: 4.7 Consensus size: 214
21477015 TCGAACTCGT
* * **
21477025 CAAACTTTTACGAGTTCCTTTTTAACTT-TAGTTCCTTAAAGTAGGCAAGACGATCCATTCCTTC
1 CAAACTTTTACAAGTT-CTTTTTAACTTCGA-TTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* ** *
21477089 GAGAAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGTCTTAATAGTTTGTCATTT
64 GAG-CATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTT
* *
21477154 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTAGGCAAAAATTGTTTCTCTCTTCGTTC
128 TGTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTAAAAATTGTTTCTCTCTTCGTTC
* *
21477219 ATAGCCAAACTTCCAAACTTGA
193 ACAGCCGAACTTCCAAACTTGA
* *
21477241 CAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCC
1 CAAACTTTTACAAGTTCTTTT-TAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* * * * *
21477306 AGCATTTTTTGAACATTCCATGCAT-TGGAAATCACTTCATTAGGTCTAAAGAGTTTGTCATTTT
65 AGCATTTTTCGAACATTCCATGC-TCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTT
* *** * *
21477370 GTACACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGTGAATTGTTTCTCTCGTGGTTCA
129 GTAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTAAAAATTGTTTCTCTCTTCGTTCA
** *
21477435 CAATCGAACTTCCGAACTTGA
194 CAGCCGAACTTCCAAACTTGA
* * * * *
21477456 CAAACTTTTACAAGTTCTTGTTTAAGTTTTG-TTCCTTAAAATATTCAAGATGATCCATTCCTTT
1 CAAACTTTTACAAGTTCTT-TTTAA-CTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* * * * * * * *
21477520 GAGCAATCTTCCGAACATTCCATGCTTGGGAAATCGCATCATTTAGTCTCAATATTTTTTCATTT
64 GAGC-ATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTT
* * * * * * * * * * * *
21477585 TGCATACTACTTTTGGTATTTTATCTTATACACTTATTTAAGTGAGAATTGTTTCTCTCTTAGTT
128 TGTAAACAACTTTTGGTCTTTGA-ATTAAAAACTTATTTAGGTAAAAATTGTTTCTCTCTTCGTT
*
21477650 CACGGCCGAACTTCCAAACTTGA
192 CACAGCCGAACTTCCAAACTTGA
* * * * * *
21477673 CAAACTTTTACAAGTTCTTGTATAACTTTGGTTCCTTAAAATATTCAAGGCGATCCATTCCTTAG
1 CAAACTTTTACAAGTTCTT-TTTAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* * *
21477738 AGCATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTA
65 AGCATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG
*
21477803 TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAAAAA---ATT-T-TC-TCGATTC
130 TAAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGT-AAAAATTGTTTCTCTCTTCG-TTC
** *
21477862 ATGGCCGAACTTCCAAACTTGT
193 ACAGCCGAACTTCCAAACTTGA
* * * * * *
21477884 CAAAATTTTACAAGTTCTTTTGTAACTACGGTTCCTTAAAGTGTTCAAGACGAACCATTCCTTCA
1 CAAACTTTTACAAGTTCTTTT-TAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCG
* * *
21477949 AGCAATTTTTCAAACATTCCATG-TGCGGTAAATCACATCATTTGGTCTAAATAGGTTGTCATTT
65 AGC-ATTTTTCGAACATTCCATGCT-CGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTT
* * *
21478013 TGTACACAATTTTTGGTTTTTGAATTAAAAA
128 TGTAAACAACTTTTGGTCTTTGAATTAAAAA
21478044 GACCGAACTT
Statistics
Matches: 682, Mismatches: 107, Indels: 32
0.83 0.13 0.04
Matches are distributed among these distances:
210 3 0.00
211 82 0.12
212 81 0.12
213 2 0.00
215 201 0.29
216 201 0.29
217 112 0.16
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (214 bp):
CAAACTTTTACAAGTTCTTTTTAACTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGA
GCATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGT
AAACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTAAAAATTGTTTCTCTCTTCGTTCACA
GCCGAACTTCCAAACTTGA
Found at i:21477827 original size:432 final size:431
Alignment explanation
Indices: 21477006--21478043 Score: 1158
Period size: 432 Copynumber: 2.4 Consensus size: 431
21476996 TTGGTTCTTT
* * * *
21477006 ATCGAAATTTCGAACTCGTCAAACTTTTACGAGTTCCTTTTTAACTTTAGTTCCTTAAAGTAGGC
1 ATCGAAATTCCGAACTCGACAAACTTTTACAAGTTCCTTTTTAACTTTAGTTCCTTAAAATAGGC
* ** *
21477071 AAGACGATCCATTCCTTCGAGAAATTTTTTAAACATTCCATGCTCGGGAAATCACATCATTTGGT
66 AAGACGATCCATTCCTTCGAGAAATCTTCCAAACATTCCATGCTCGGGAAATCACATCATTTAGT
* * * * *
21477136 CTTAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTAGGCAAAAA
131 CTCAATAGTTTGTCATTTTGCAAACAACTTTTGGTATTTGAATTAAAAACTTATTTAAGCAAAAA
* * * *
21477201 TTGTTTCTCTCTTCGTTCATAGCCAAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAA
196 TTGTTTCTCTCTTAGTTCACAGCCAAACTTCCAAACTTGACAAACTTTTACAAGTTCTTGTATAA
* * *
21477266 CTTCGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCCAGCATTTTTTGAACATTCCATGCAT
261 CTTCGATTCCTTAAAATATTCAAGACGATCCATTCCTTACAGCATTTTTCGAACATTCCATGCAT
* * * * *
21477331 TGGAAATCACTTCATTAGGTCTAAAGAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTA
326 GGGAAATCACATCATTAGATCTAAAGAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAATTA
21477396 AAAACTTATTTAGGTGTGAATTGTTTCTCTCGTGGTTCACA
391 AAAACTTATTTAGGTGTGAATTGTTTCTCTCGTGGTTCACA
* * * * **
21477437 ATCGAACTTCCGAACTTGACAAACTTTTACAAGTT-CTTGTTTAAGTTTTGTTCCTTAAAATATT
1 ATCGAAATTCCGAACTCGACAAACTTTTACAAGTTCCTT-TTTAACTTTAGTTCCTTAAAATAGG
* * * * * *
21477501 CAAGATGATCCATTCCTTTGAGCAATCTTCCGAACATTCCATGCTTGGGAAATCGCATCATTTAG
65 CAAGACGATCCATTCCTTCGAGAAATCTTCCAAACATTCCATGCTCGGGAAATCACATCATTTAG
* * * * * * * * ** *
21477566 TCTCAATATTTTTTCATTTTGCATACTACTTTTGGTATTTTATCTTATACACTTATTTAAGTGAG
130 TCTCAATAGTTTGTCATTTTGCAAACAACTTTTGGTATTTGA-ATTAAAAACTTATTTAAGCAAA
* *
21477631 AATTGTTTCTCTCTTAGTTCACGGCCGAACTTCCAAACTTGACAAACTTTTACAAGTTCTTGTAT
194 AATTGTTTCTCTCTTAGTTCACAGCCAAACTTCCAAACTTGACAAACTTTTACAAGTTCTTGTAT
* * * *
21477696 AACTTTGGTTCCTTAAAATATTCAAGGCGATCCATTCCTTAGAGCATTTTTCGAACATTCCATGC
259 AACTTCGATTCCTTAAAATATTCAAGACGATCCATTCCTTACAGCATTTTTCGAACATTCCATGC
* * *
21477761 -TCGGGAAATCGCATCATTTGATCTAAATAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAA
324 AT-GGGAAATCACATCATTAGATCTAAAGAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAA
* *** * **
21477825 TTAAAAACTTATTTAGGTG-AAAAAATTT-TCTC--GATTCATG
388 TTAAAAACTTATTTAGGTGTGAATTGTTTCTCTCGTGGTTCACA
** * * * * * *** *
21477865 GCCGAACTTCCAAACTTGTCAAAATTTTACAAGTT-CTTTTGTAACTACGGTTCCTTAAAGT-GT
1 ATCGAAATTCCGAACTCGACAAACTTTTACAAGTTCCTTTT-TAACTTTAGTTCCTTAAAATAG-
* * * * * * *
21477928 TCAAGACGAACCATTCCTTCAAGCAATTTTTCAAACATTCCATG-TGCGGTAAATCACATCATTT
64 GCAAGACGATCCATTCCTTCGAGAAATCTTCCAAACATTCCATGCT-CGGGAAATCACATCATTT
* * * * * * *
21477992 GGTCTAAATAGGTTGTCATTTTGTACACAATTTTTGGTTTTTGAATTAAAAA
128 AGTCTCAATAGTTTGTCATTTTGCAAACAACTTTTGGTATTTGAATTAAAAA
21478044 GACCGAACTT
Statistics
Matches: 502, Mismatches: 99, Indels: 16
0.81 0.16 0.03
Matches are distributed among these distances:
427 8 0.02
428 138 0.27
430 7 0.01
431 144 0.29
432 205 0.41
ACGTcount: A:0.29, C:0.18, G:0.14, T:0.39
Consensus pattern (431 bp):
ATCGAAATTCCGAACTCGACAAACTTTTACAAGTTCCTTTTTAACTTTAGTTCCTTAAAATAGGC
AAGACGATCCATTCCTTCGAGAAATCTTCCAAACATTCCATGCTCGGGAAATCACATCATTTAGT
CTCAATAGTTTGTCATTTTGCAAACAACTTTTGGTATTTGAATTAAAAACTTATTTAAGCAAAAA
TTGTTTCTCTCTTAGTTCACAGCCAAACTTCCAAACTTGACAAACTTTTACAAGTTCTTGTATAA
CTTCGATTCCTTAAAATATTCAAGACGATCCATTCCTTACAGCATTTTTCGAACATTCCATGCAT
GGGAAATCACATCATTAGATCTAAAGAGTTTGTCATTTTATAAACAACTTTTGGTCTTTGAATTA
AAAACTTATTTAGGTGTGAATTGTTTCTCTCGTGGTTCACA
Found at i:21478173 original size:180 final size:180
Alignment explanation
Indices: 21477866--21478194 Score: 448
Period size: 180 Copynumber: 1.8 Consensus size: 180
21477856 CGATTCATGG
* * * * * *
21477866 CCGAACTTCCAAACTTGTCAAAATTTTACAAGTTCTTTTGTAACTACGGTTCCTTAAAGTGTTCA
1 CCGAACTTCCAAACTTGACAAAATTTTACAAGTTCCTTTATAACTACGATTCCTTAAAATATTCA
* *
21477931 AGACGAACCATTCCTTCAAGCAATTTTTCAAACATTCCATGTGCGGTAAATCACATCATTTGGTC
66 AGACGAACAATTCCTTCAAGCAATTTTTCAAACATTCCATGTGCGGTAAATCACAACATTTGGTC
21477996 TAAATAGGTTGTCATTTTGTACACAATTTTTGGTTTTTGAATTAAAAAGA
131 TAAATAGGTTGTCATTTTGTACACAATTTTTGGTTTTTGAATTAAAAAGA
** * *
21478046 CCGAACTTCTGAACTTGACAAACTTTTACAAGTTCCTTTATAACTTCGATTCCTTAAAATATTCA
1 CCGAACTTCCAAACTTGACAAAATTTTACAAGTTCCTTTATAACTACGATTCCTTAAAATATTCA
* * * *
21478111 AGAC-AATCAATTCCTTCGAGCAATTTTTCAAACATTTCAT-TCTCGAG-AAATCGCAACATTTG
66 AGACGAA-CAATTCCTTCAAGCAATTTTTCAAACATTCCATGT-GCG-GTAAATCACAACATTTG
**
21478173 GTCTAAATATTTTGTCATTTTG
128 GTCTAAATAGGTTGTCATTTTG
21478195 CATACTACTT
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
179 3 0.02
180 124 0.97
181 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (180 bp):
CCGAACTTCCAAACTTGACAAAATTTTACAAGTTCCTTTATAACTACGATTCCTTAAAATATTCA
AGACGAACAATTCCTTCAAGCAATTTTTCAAACATTCCATGTGCGGTAAATCACAACATTTGGTC
TAAATAGGTTGTCATTTTGTACACAATTTTTGGTTTTTGAATTAAAAAGA
Found at i:21478432 original size:217 final size:216
Alignment explanation
Indices: 21478046--21481057 Score: 3307
Period size: 216 Copynumber: 13.9 Consensus size: 216
21478036 ATTAAAAAGA
* *
21478046 CCGAACTTCTGAACTTGACAAACTTTTACAAGTTCCTTTATAACTTCGATTCCTTAAAATATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * * * * *
21478111 AGACAATCAATTCCTTCGAGCAATTTTTCAAACATTTCATTCTCGAGAAATCGCAACATTTGGTC
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
* * * * * * *
21478176 TAAATATTTTGTCATTTTGCATACTACTTTTGGTCTTTTATTTTAAACACATATTTACTTGAGAA
131 TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGA-ATTAAAAACTTATTTACGTGAGAA
*
21478241 TTATTTCTCTCTTGGTTCACGG
195 TTGTTTCTCTCTTGGTTCACGG
* * * * * * *
21478263 CCAAACTTCCAAACTTGAAAAACTTTTACGAGTTCTTTTAAAACTTCGATTCCTTAAATTATTTA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* *
21478328 AGACTATCTATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
* * ** * * *
21478393 TAAATATTTTTTCATTTTGCATACTGCTTTTGGTCTTTTATTTTAAACACTTATTTAC-TAGAGA
131 TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGA-ATTAAAAACTTATTTACGT-GAGA
21478457 ATTGTTTCTCTCTTGGTTCACGG
194 ATTGTTTCTCTCTTGGTTCACGG
* * * * * *
21478480 CCAAACTTCCAAACTTGACAAACTTTTACGAGTTCTTTTATAACTTCGACTCCTTCAAGTATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* ** * * * * *
21478545 AGACTATAAATTCCTTCGATCAA-TTTTCTGATCATTCCATGCGCGAGAAATCACATCATTTGGT
66 AGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGT
** ** * *
21478609 CTAAATAGTTTAACATTTT-TTTAACAAATGTTT-GTCTTTGAATTAAAAACTTATTTATGTGAG
130 CTAAATAGTTTGTCATTTTGCAT-ACAACT-TTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
* **
21478672 AATTGTTTCTCTCTTGGATCTTGG
193 AATTGTTTCTCTCTTGGTTCACGG
** * ** * *
21478696 TTGAACTTCCAAACTTCTCAAACTTTTACAAGTTCTTTTATAACCTT-GGTTCCTTAAAGTATTC
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAA-CTTCGATTCCTTAAAATATTC
* * * * *
21478760 AAGACGATCCATTCCTTCGAGCAA-TTTTCTTAACTTTCCATTCTTGGGAAATTGCATCATTTGG
65 AAGACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGG
* * * * *
21478824 TCTAAATAGTTTGTCATTTTGTACACAACTTTTGGCCTTTGACTTAAAAACTTATTTAGGTGAGA
129 TCTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
**
21478889 ATTGTTTCTCTCTTGGTTCACAA
194 ATTGTTTCTCTCTTGGTTCACGG
* * *
21478912 CCTAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * *
21478977 AGATGATCCATTCCTTCGTGCAATTTTTCGAACATTTCATGCTCGGGAAATCGCATCAATTGGTC
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
* * * * * * *
21479042 TGAATAGTTTGTTATTTTGTAAACAACTTTTGGTCTTTGAATTAACATCTTATTTAGGTGAGAAT
131 TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT
* * *
21479107 TGTTTCTCTCTTAGATCTCGG
196 TGTTTCTCTCTTGGTTCACGG
* * *
21479128 CCGAACTTCCGAACTTGACAAACTTTTCCAAGTTCTTGTATAACTTC-AGTTCCTAAAAAT-TTC
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGA-TTCCTTAAAATATTC
* * * * *
21479191 AAGATGATCCATTCCTTC-ATGCAA-TTTTCGAATCATTCCGTGCGCAGGAAATCACATCATTTG
65 AAGACGATCCATTCCTTCGA-GCAATTTTTCGAA-CATTCCATGCTCGGGAAATCGCATCATTTG
* * **
21479254 GTCTAAATAATTTGTCATTTTGCATAAAACTTTTGGTCTTTGAATTAAAAACTTATTTATATGAG
128 GTCTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAG
* * *
21479319 AATTATTTCTCTCTTGACTT--TGG
193 AATTGTTTCTCTCTTG-GTTCACGG
* * * ** *
21479342 CCGAACTTCCGAACTTGTCAAACTTTTACAAGTTCCTTTATAACTTTGATTAATTAAAGTATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * * *
21479407 AGACGATCCATTCCTTC-ATGCAATTTTACAAACATTTCATGCGCGGGAAATCACATCATTTGGT
66 AGACGATCCATTCCTTCGA-GCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGT
* * ** * * *
21479471 CCAAATAGTTTGTCGTTTTTTACACAACTTTTGGTCTTTTAATTAAAAACTTATTTAGGTGAGAA
130 CTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
**
21479536 TTGTTTCTCTCTTGGTTCACAA
195 TTGTTTCTCTCTTGGTTCACGG
* *
21479558 CTGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGATTCCTTAAAATATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
*
21479623 AGACTATCCATTCCTTC-ATGCAA-TTTTCTGAACATTCCATGCTCGGGAAATCGCATCATTTGG
66 AGACGATCCATTCCTTCGA-GCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGG
* * * * * * *
21479686 TCTAAATATTTTGTCATTTTGCATACTACTTTTAGTCTTTTATTTTAAACACATATTTACGTGAG
129 TCTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGA-ATTAAAAACTTATTTACGTGAG
**
21479751 AATTGTTTCTCTCTTGGTTCATAG
193 AATTGTTTCTCTCTTGGTTCACGG
* * * * * * *
21479775 CCAAACTTCCAAAGTTGACAAACTTTTGCGATTTATTTTATAACTTCGATTCCTTAAAATATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * *
21479840 AGACGATCCATTCCTTCGAGCAATTTTTTGATCATTCCATGCGT-GGGAAATCACATC-TTTAGG
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGC-TCGGGAAATCGCATCATTT-GG
* * * *
21479903 TCTAAATAGTTTGTCATTTT-CATAAAACGTTTGGTCTTTGAATTAAAAACTTGTTTAGGTGAGA
129 TCTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * *
21479967 AGTGTTTCTTTCTTGGTTCACGA
194 ATTGTTTCTCTCTTGGTTCACGG
* * * * *
21479990 TCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACATCGGTTCCTCAAAATATT-A
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * *
21480054 AGGACTATCCATTCCTTCGTGCAA-TTTTCTGAACTTTCCATGCTCGGGAAATCGCATCATTTGG
66 A-GACGATCCATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGG
** * * * * * * * * * *
21480118 TCTCTATATTTTGTCATTTAGCAAACTACTTTTGTTCTTTTATTTTAAACACATATTTATGTGAG
129 TCTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGA-ATTAAAAACTTATTTACGTGAG
**
21480183 AATTGACTCTCTCTTGGTTCACGG
193 AATTGTTTCTCTCTTGGTTCACGG
* *** * * *
21480207 CCGAACTTCCAAACTTGACAAACTTTTGTGAGATC-TTTATAATTTCGATTCCTTAAAGTATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * * * * * * *
21480271 AGGCGATCCATTCCTTTGAGTAA-TTCTCCAATCATTTCGTGCGCGGGAAATCACATCATTTGGT
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAA-CATTCCATGCTCGGGAAATCGCATCATTTGGT
* * * * *
21480335 CTAAATAGTTTGCCATTTTGCATAAAACCTTTGGTCTTTAAATTAAAAACTTATTTACGTGAGTA
130 CTAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAA
* * * **
21480400 TTATTTCTCTCTTAGCTCTTGG
195 TTGTTTCTCTCTTGGTTCACGG
* * * * * * *
21480422 CCGAACTTTCGAACTTGTCAAACTTTTACAAGATCCTTAATAACTTTGATTCCTT-AAGTATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * * * * *
21480486 AGACGATCCAGTCCTTCGAGCAATTTTCCGAACTTTCCATACTCGAGAAATTGTATCATTTGGTC
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
* * * *
21480551 TAAATAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGCGAGAAT
131 TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT
* *
21480616 TGTTTCTATCTTGGTTCACGA
196 TGTTTCTCTCTTGGTTCACGG
** * * * * * *
21480637 TTGAACTTCCGAACATGAAAAACTTTTACGAGTTCTTATATAACTTTGGTTCCTTAAAATATTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * * * * *
21480702 AGGCGATCCATTCCTTCGAGCAATTTTCCGAGCATTCTATGCTCTGGAAATCACATCAATTGGTC
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
* * * * *
21480767 TAAATATTTTGTCATTTTGCATACTACTTTTGGTCTTTTATCTTAAACACTTATTTACGTGAGAA
131 TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGA-ATTAAAAACTTATTTACGTGAGAA
*
21480832 TTGTTTCTCTCTTTGTTCACGG
195 TTGTTTCTCTCTTGGTTCACGG
* * * * * *
21480854 TCGAACTTCCAAACCTCACAAACTTTTACGAGTTCTTTTATAACTTCGATTCCTTAAAATTTTCA
1 CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
* * * * ** *
21480919 AGACGATCCATTCCTTCAAGAAATTTTTCGAGCTTTCCATGCTCGAAAAATTGCATCATTTGGTC
66 AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
* * *
21480984 TAAATAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTAAAAACATATTTACGTGAGAAT
131 TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT
21481049 TGTTTCTCT
196 TGTTTCTCT
21481058 TAGTTCACTA
Statistics
Matches: 2341, Mismatches: 417, Indels: 75
0.83 0.15 0.03
Matches are distributed among these distances:
214 68 0.03
215 630 0.27
216 882 0.38
217 752 0.32
218 9 0.00
ACGTcount: A:0.28, C:0.19, G:0.13, T:0.40
Consensus pattern (216 bp):
CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTTTATAACTTCGATTCCTTAAAATATTCA
AGACGATCCATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTC
TAAATAGTTTGTCATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAAT
TGTTTCTCTCTTGGTTCACGG
Found at i:21482878 original size:7 final size:8
Alignment explanation
Indices: 21482846--21482888 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
21482836 CAAAAAGTCG
21482846 ATAAAAAA
1 ATAAAAAA
*
21482854 AGAAAAAA
1 ATAAAAAA
*
21482862 TATGAGAAAA
1 -AT-AAAAAA
21482872 ATAAAAAA
1 ATAAAAAA
21482880 ATAAAAAA
1 ATAAAAAA
21482888 A
1 A
21482889 AATTCTATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 21 0.72
9 3 0.10
10 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.12
Consensus pattern (8 bp):
ATAAAAAA
Found at i:21485732 original size:25 final size:25
Alignment explanation
Indices: 21485704--21485755 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
21485694 TTAAAACAAC
21485704 TTCTAAAAAAAAAACTC-AAGAGCAA
1 TTCTAAAAAAAAAACTCAAAGAG-AA
** *
21485729 TTCTTGAAGAAAAACTCAAAGAGAA
1 TTCTAAAAAAAAAACTCAAAGAGAA
21485754 TT
1 TT
21485756 ATTATTAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.54, C:0.13, G:0.12, T:0.21
Consensus pattern (25 bp):
TTCTAAAAAAAAAACTCAAAGAGAA
Found at i:21487613 original size:215 final size:214
Alignment explanation
Indices: 21487193--21487694 Score: 645
Period size: 215 Copynumber: 2.3 Consensus size: 214
21487183 CGTTCTTATC
* *
21487193 AAAAACTTTTACAAGTTCTTGTATAACCTCGTTAACTTAAAATATTCAAGGTGATCCATTCTTTC
1 AAAAACTTTTACAAGTTCTTGTATAACATCGTTAA-TTAAAATATTCAAGGTGATCCATTCCTTC
* * * *
21487258 GAGCAATTTTTTGAACATTTCATGCTCGGGAAATCACATCAGTTGGTCTAAATAGTTTGTCATTT
65 GAGCAATATTCTAAACATTTCATGCTCGGGAAATCACATCAGTTGGTCTAAATAATTTGTCATTT
* * *
21487323 TGCATAAAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGCTT
130 TGCACAAAACTTTTGGTCTTTGAATTAAAAACTAATTTACGTGAGAATTATTTCTATCTTGGCTT
* *
21487388 TGGCCGAACTTCCGAAC-TT
195 CGACCGAACTTCCGAACGTT
** * * *
21487407 GTCAAACTTTTACAAGTTCCTT-TATAACTTTGATTAATTAAAATATTCAAGATGATCCATTCCT
1 -AAAAACTTTTACAAGTT-CTTGTATAACATCG-TTAATTAAAATATTCAAGGTGATCCATTCCT
*
21487471 TCGAGCAATATTCTAAAC-TTTCCATGCTCGGGAAATCACATCA-TTGTTCTAAATAATTTGTCA
63 TCGAGCAATATTCTAAACATTT-CATGCTCGGGAAATCACATCAGTTGGTCTAAATAATTTGTCA
* * * * *
21487534 TTTTGTACACAACTTTTGGTCTTTTAATTAAAAACTAATTTAGGTGAGAATTGTTTCTATCTTGG
127 TTTTGCACAAAACTTTTGGTCTTTGAATTAAAAACTAATTTACGTGAGAATTATTTCTATCTTGG
*
21487599 -TTCACGATCGAACTTCCGAACGTT
192 CTT--CGACCGAACTTCCGAACGTT
* ** * *
21487623 AAAAACTTTTACCAGTTCTTGTATAACATCGGTTCCTTAAAATATTCAAGGCGATCCATTTCTTC
1 AAAAACTTTTACAAGTTCTTGTATAACATC-GTTAATTAAAATATTCAAGGTGATCCATTCCTTC
21487688 GAGCAAT
65 GAGCAAT
21487695 TTTTTGAGCA
Statistics
Matches: 247, Mismatches: 32, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
213 2 0.01
214 81 0.33
215 154 0.62
216 10 0.04
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (214 bp):
AAAAACTTTTACAAGTTCTTGTATAACATCGTTAATTAAAATATTCAAGGTGATCCATTCCTTCG
AGCAATATTCTAAACATTTCATGCTCGGGAAATCACATCAGTTGGTCTAAATAATTTGTCATTTT
GCACAAAACTTTTGGTCTTTGAATTAAAAACTAATTTACGTGAGAATTATTTCTATCTTGGCTTC
GACCGAACTTCCGAACGTT
Found at i:21488631 original size:80 final size:80
Alignment explanation
Indices: 21488542--21488691 Score: 255
Period size: 80 Copynumber: 1.9 Consensus size: 80
21488532 GGAGAAATGT
* * **
21488542 CATGCCTTTTCAGCTACATCAGATCCTAATGAAAAGACATGACTCATTGGCTTTTCTACAAGAGT
1 CATGCCTTTTCAACTACATCAGATCCTAATGAAAAGACATGACTCATTAGCTTCCCTACAAGAGT
21488607 TAAAAACGAAATTGC
66 TAAAAACGAAATTGC
*
21488622 CATGCCTTTTCAACTACATCAGATCCTAATGAAGAGACATGACTCATTAGCTTCCCTACAAGAGT
1 CATGCCTTTTCAACTACATCAGATCCTAATGAAAAGACATGACTCATTAGCTTCCCTACAAGAGT
21488687 TAAAA
66 TAAAA
21488692 TGAAATTAGT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
80 65 1.00
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (80 bp):
CATGCCTTTTCAACTACATCAGATCCTAATGAAAAGACATGACTCATTAGCTTCCCTACAAGAGT
TAAAAACGAAATTGC
Found at i:21489162 original size:216 final size:215
Alignment explanation
Indices: 21488837--21493346 Score: 4668
Period size: 217 Copynumber: 20.8 Consensus size: 215
21488827 TTGTGAGAAA
* *
21488837 TTCTCTCTTGGTTCACGATCGAACTTCCGAACTTGACAAACTCTTTACAAATTCTTGTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACT-TTTACAAGTTCTTGTATAACTT
* * * * *
21488902 CT-ATTCCTTAAAATATTAAAGATGATCCATTCCTTCGTGCAATTTTCCGAACATTTCAAGCTCG
64 -TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCG
* *
21488966 GGAAATCGCATCATTTGGTCTGAATAGTTTGTTATTTTGTAAACAACTTTTGGTCTTTGAATTAA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
*
21489031 AATCTTATTTAGGTGAGAATTGT
193 AAACTTATTTAGGTGAGAATTGT
* * *
21489054 TTCTCTCTTGGCTT-TGGCCGAACTTCCGAACTTGTCAAACTTTTACAAGTTCCTT-TATAACTT
1 TTCTCTCTTGG-TTACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTT-CTTGTATAACTT
** * *
21489117 TGATTAATTAAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACTTTCCATGCTCG
64 TGATTCCTTAAAA-TATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCG
* * *
21489182 GGAAATTGCATCATTTGGTTTAAATAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTAA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
*
21489247 ATACTTATTTAGGTGAGAATTGT
193 AAACTTATTTAGGTGAGAATTGT
* * * * * * *
21489270 TTCTATCTTGGTTCATGACCAAACTTCTGAACCTGAAAAACTTTTACCAGTTCTTGTATAACTTC
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTT-
* * * * *
21489335 TG-TTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTCTGAGCATTCCATGGTAGG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * * * * *
21489399 GAAATCGCATCATTTAGTCTAAATATTTTTTCATTTAGCATATAA-AACTTTTGGTCTTTCATCT
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG--TA-AACAACTTTTGGTCTTTGA-AT
* * * *
21489463 TAAACACTTATTTACGTGATAATTAT
190 TAAAAACTTATTTAGGTGAGAATTGT
* * * *
21489489 TTCTCTCTTGGCTCT-TGGCCGAACTTTCGAACTTGTCAAACTTTTACAAGTTCCTT-TATAACT
1 TTCTCTCTTGG-T-TACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTT-CTTGTATAACT
** * * **
21489552 TTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTTGAAC-TTCCCATGCTC
63 TTGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATT-CCATGCTC
* * * * *
21489616 GAGAAATCACATCATCTGGTCTAAATAGTTTGTCATTTTGTACACAGCTTTTGGTCTTTGAATTA
127 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTA
*
21489681 CAAACTTATTTAGGTGAGAATTGT
192 AAAACTTATTTAGGTGAGAATTGT
* * * *
21489705 TTCTATCTTGGTTCACGACCGAACTTCTGAACCTT-AAAAACTTTTACCAGTTCTTGTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAA-CTTGACAAACTTTTACAAGTTCTTGTATAACTT
* * * * * ** * *
21489769 TGGTTCCTTAAAATATCCAAGGCAATCCATTCCTTCGAGAAATTTTTTGAGCATTCCATGCTCGA
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * * * * * * * **
21489834 GAAATCGCATCATTTAGTCTAAATATTTTGTCATTTAGCATACTACTTTTGGTATTT-TATTTTA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
* *
21489898 ATCATATATTTACGTGAGAATTGT
194 AAC-T-TATTTAGGTGAGAATTGT
* * * * *
21489922 TTCTCTCTTGGTTCATGGCCGAATTTCC-ATACTTGACAAACATTTACAAGTTCTTTTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGA-ACTTGACAAACTTTTACAAGTTCTTGTATAACTT
* * ** * *
21489986 TGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGATTATTCCGTGCGCGG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * *
21490051 GAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTATATAA-AAC-TTTGTGTCTATGAATTA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AACAACTTTTG-GTCTTTGAATT-
21490114 AAAAAGCTTATTTAGGTGAGAATTGT
191 AAAAA-CTTATTTAGGTGAGAATTGT
** * * * * *
21490140 TTCTCTCTTGGTTCATAACCGAACTTTCGAATTTGAAAAACTTTCACAAGTTCTTCTATAA-TTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTT
* * * *
21490204 CAGTTCCTTAAAATATTCAAGGCAATCCATTCCTTCGTGCAATTTTCCGAACATTCCATGC-CGG
65 GA-TTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * **
21490268 GAAATCACATCATTTGGTCTAAATAGTTTGTTATTTTACATAA-AACTTTTGGTCTTTGAATTAA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AACAACTTTTGGTCTTTGAATTAA
*
21490332 AAACTTATTTAGGTGAGAATTGA
193 AAACTTATTTAGGTGAGAATTGT
* * *
21490355 TTCTCTCTTGGTTCACGATCGAACTTTCAAACTTGACAAACTCTTTACAAGTTCTTGTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACT-TTTACAAGTTCTTGTATAACTT
* * * * *
21490420 CGGTTCCTTAAAATATTCAAGATGATCCATTCCTTCGTGCAAATTTT-CGAACATTTCATGCTCG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGC-AATTTTCCGAACATTCCATGCTCG
* * * * *
21490484 GAAAATTGCATCACTTGGTCTGAATAGTTTGTTATTTTGTAAACAACTTTTGGTCTTTGAATTAA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
*
21490549 AATCTTATTTAGGTGAGAATTGT
193 AAACTTATTTAGGTGAGAATTGT
*
21490572 TTCTCTCTTGGATCT-CGACCGAACTTCCAAACTTGACAAACTTTTACAAGTTCTTGTATAAC-T
1 TTCTCTCTTGG-T-TACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTT
* * * ** * * * *
21490635 TCAGTTCCTTAAAATTTTCAAGATGATCCATTCCTTC-ATGCAATTTTTGGATCATTTCGTGCAC
64 TGA-TTCCTTAAAATATTCAAGACGATCCATTCCTTCGA-GCAATTTTCCGAACATTCCATGCTC
* * * *
21490699 GAGAAATCACATCATTTGGTCTAAATAGTTTGTCA-TTTGCATAA-AACTTTTGGTCTTTAAATT
127 GGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AACAACTTTTGGTCTTTGAATT
* **
21490762 AAAAACTTATTTACGTGAGAATTAA
191 AAAAACTTATTTAGGTGAGAATTGT
* * * *
21490787 TTCTCTCTTGGCTT-CGGCCGAAATTCTGAACTTGTCAAACTTTTACAAGTTCCTT-TATAACTT
1 TTCTCTCTTGG-TTACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTT-CTTGTATAACTT
* ** * * * *
21490850 TGCTTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCAACTTTT-TGAACTTTCCATGCTCA
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAA-TTTTCCGAACATTCCATGCTCG
* *
21490914 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCGTTTTGTACACAACTTTTGGTCTTTGAATTAA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
21490979 AAACTTATTTAGGTGAGAATTGT
193 AAACTTATTTAGGTGAGAATTGT
* * * * * * * * *
21491002 TTCTATCATGGTTCACGACCGAACTTTCGAACCTGAAAAACTTTTACCAGTTCTTTTACAACTTC
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTT
* * * * * * * * *
21491067 AATTCCTTAAAGTGTTCAAGATGATCCATTCCTTCGAGCAATTTTTCGATCATTCCGTGCGCGAG
65 GATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGGG
* * * ** * *
21491132 AAATCACATCAATTGGTCTAAATAGTTTATCATTTTACATAATAA-TTTTTGTCTTTGAATTAAA
130 AAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AACAACTTTTGGTCTTTGAATTAAA
*
21491196 AACTTATTTAGGTGAGCATTGT
194 AACTTATTTAGGTGAGAATTGT
* * * * *
21491218 TTCTCTCTTGGTTCACGGCCAAACTTTCGAACTTAGA-AAACTCTTGACAAGTTTTTGTATAACT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTT-GACAAACT-TTTACAAGTTCTTGTATAACT
* * * * * * *
21491282 TCGGTT-CTTGAAAATATTCAAGACAATCCATTCCTTCGTGCAA-TTTCCTAAACATTTCATGTT
63 TTGATTCCTT-AAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCC-GAACATTCCATGCT
* *
21491345 CGGGAAATCGCATCATTTGGTCTGAATAGTTTGTCATTTTGTATAATAA-TTTTGGTCTTTGAAT
126 CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AACAACTTTTGGTCTTTGAAT
21491409 TAAAAACTTATTTAGGTGAGAATTGT
190 TAAAAACTTATTTAGGTGAGAATTGT
*
21491435 TTCTCTCTTGGATCT-CGATCC-AACTTCCGAACTTGACAAACTTTTAGAAGTTCTTGTATAACT
1 TTCTCTCTTGG-T-TACGA-CCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACT
* * * * * * * * * * *
21491498 TCGGTTCCTTAAAATTTTCAAGGCGATCCATTCCTTCGTA-CTATTTTCTGATCCTTTCGTGCGC
63 TTGATTCCTTAAAATATTCAAGACGATCCATTCCTTCG-AGCAATTTTCCGAACATTCCATGCTC
* * * * *
21491562 GGGAAATCACATCATTAGGTCTAAATAGTTT-TCCATTTTGCATAA-AACTTTTGGTCTTTCATC
127 GGGAAATCGCATCATTTGGTCTAAATAGTTTGT-CATTTTGTA-AACAACTTTTGGTCTTTGA-A
* * *
21491625 TTAAACACTTATTTACGTGAGAATTAT
189 TTAAAAACTTATTTAGGTGAGAATTGT
* * * * *
21491652 TTCTCTCTTGGCTCT-TGGCCGAACTTCTGAACTTGTCAAACTTTTACAAGTTCCTT-TATAAAT
1 TTCTCTCTTGG-T-TACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTT-CTTGTATAACT
* ** * * * * *
21491715 TAGATTAATTAAAGTATTCAAAATGATCCATTCCTTCGAGCAATTTTCTGAACTTTCCATGCTCG
63 TTGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCG
* *
21491780 AGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTAA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATT-A
21491845 AAAACTTATTTAGGTGAGAATTGT
192 AAAACTTATTTAGGTGAGAATTGT
* * * * *
21491869 TTCTATCTTGGTTCACGACCAAACTTTCGAACCTGGA-AAACTCTTACAAGTTCTTGTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAA-CTTGACAAACTTTTACAAGTTCTTGTATAACTT
* * * * *
21491933 CGGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * * * * * * * * * *
21491998 GAAATCACATCCTTTTGTCTAAATATTTTGTAATCTTGCATACTACTTTTGGTCTTTTATCTTAA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGA-ATTAA
* * *
21492063 ACACTTATTTACGTGAGAATTAT
193 AAACTTATTTAGGTGAGAATTGT
* * * * * * *
21492086 TTCTCTCTTGGCTCT-TGGCCGAACTTTCGAACTTGTCAAACTTTTACAAATTTTTTTATAACTT
1 TTCTCTCTTGG-T-TACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTT
** * * * *
21492150 TGATTAATTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTCTGAACGTTCCATGCTCGG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* *
21492215 GAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTAAA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAA
21492280 AACTTATTTAGGTGAGAATTGT
194 AACTTATTTAGGTGAGAATTGT
* * * * *
21492302 TTCTATCTTGGTTCACGACCAAACTTTCGAACCTGGA-AAACTCTTACAAGTTCTTGTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAA-CTTGACAAACTTTTACAAGTTCTTGTATAACTT
* * * * * *
21492366 CGGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCAG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * * * * * * * * * *
21492431 GAAATCACATCTTTTTGTCTAAATATTTTGTAATCTTGCATACTACTTTTGGTCTTTTATCTTAA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGA-ATTAA
* * * *
21492496 ACACTTATTTACGTGATAATTAT
193 AAACTTATTTAGGTGAGAATTGT
* * * * * * * *
21492519 TTCTCTCTTAGCTCT-TGGCCGAACTTTCGAACTTGTCAAACTTTTACAAATTTTTTTATAACTT
1 TTCTCTCTT-GGT-TACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTT
** * * *
21492583 TGATTAATTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATTTTCTC-AACGTTCCATGCTCG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTC-CGAACATTCCATGCTCG
* *
21492647 GG-AATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACACAACTTTTGGTCTTTGAATTAA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAA
*
21492711 ATACTTATTTAGGTGAGAATTGT
193 AAACTTATTTAGGTGAGAATTGT
* * * * *
21492734 TTCTATCTTGGTTCACGACCGAACTTTCGAACCTGAAAAACTTTTACCAGTTCTTGTATAAC-TT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTT
* * *
21492798 CAGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGG
65 GA-TTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* * * * * * *
21492863 GAAATCGCATCATTTAGTCTAAATATTTTGTCATTTTGCATACTACTTTTGGTCTTTTATTTTAA
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGA-ATTAA
* ** *
21492928 ACACAGATTTACGTGAGAATTGT
193 AAACTTATTTAGGTGAGAATTGT
* * *** * * * * *
21492951 TTATCTCTTTGTTCACGGTTGAACTTCCAAACTTGACAAACTTTTGCGAGTTCTTTTATAACTTC
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTT
* * * * * * * ** *
21493016 AATTCCTTATAGTATTCAAGATGATTCATTCCCTCGAGCAA-TTTCCCAATCATTCTGTG-TGTG
65 GATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAA-CATTCCATGCT-CG
* ** *
21493079 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTACATAA-AACTTTGGGTCTTTGAATTA
128 GGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA-AACAACTTTTGGTCTTTGAATTA
*
21493143 AAAACTTATTTAGCTGAGAATTGT
192 AAAACTTATTTAGGTGAGAATTGT
* *
21493167 TTCTCTCTTGGTTCACGATCGAACTTCTGAACTTGACAAACTCTTTACAAGTTCTTGTATAACTT
1 TTCTCTCTTGGTT-ACGACCGAACTTCCGAACTTGACAAACT-TTTACAAGTTCTTGTATAACTT
* * * ** *
21493232 TGGTTCCTTAAAATATTCAAGATGATCCATTCCTTCGTGCAATTTTTTGAACATTTCATGCTCGG
64 TGATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGG
* *
21493297 GAAATCGCATCATTTGGTCTAAATAGTTTATTATTTTGTAAACAACTTTT
129 GAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTT
21493347 TGATACAGCC
Statistics
Matches: 3560, Mismatches: 626, Indels: 214
0.81 0.14 0.05
Matches are distributed among these distances:
213 1 0.00
214 124 0.03
215 355 0.10
216 1244 0.35
217 1494 0.42
218 176 0.05
219 160 0.04
220 5 0.00
221 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (215 bp):
TTCTCTCTTGGTTACGACCGAACTTCCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTTG
ATTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTCCGAACATTCCATGCTCGGGA
AATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAACTTTTGGTCTTTGAATTAAAAA
CTTATTTAGGTGAGAATTGT
Found at i:21490350 original size:433 final size:433
Alignment explanation
Indices: 21488837--21493334 Score: 5455
Period size: 433 Copynumber: 10.4 Consensus size: 433
21488827 TTGTGAGAAA
* * * * *
21488837 TTCTCTCTTGGTTCACGATCGAACTTCCGAACTTGACAAACTCTTTACAAATTCTTGTATAACTT
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACT-TTTACAAGTTCTTGTATAACTT
* ** * * * * *
21488902 CTA-TTCCTTAAAATATTAAAGATGATCCATTCCTTCGTGCAATTTTCCGAACATTTCAAGCTCG
65 C-AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCG
* * * *
21488966 GGAAATCGCATCATTTGGTCTGAATAGTTTGTTATTTTGTA-AACAACTTTTGGTCTTTGA-ATT
129 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAA-AACTTTTGGTCTTTGATATT
* * * *
21489029 AAAATCTTATTTAGGTGAGAATTGTTTCTCTCTTGGCTT--TGGCCGAACTTCCGAACTTGTCAA
193 AAAAACTTATTTACGTGAGAATTATTTCTCTCTTGG-TTCATGGCCGAACTTTCGAACTTGTCAA
*
21489092 ACTTTTACAAGTTCCTTTATAACTTTGATTAATTAAAAGTATTCAAGACGATCCATTCCTTCGAG
257 ACTTTTACAAGTTCTTTTATAACTTTGATTAATT-AAAGTATTCAAGACGATCCATTCCTTCGAG
* * *
21489157 CAA-TTTTCTGAACTTTCCATGCTCGGGAAATTGCATCATTTGGTTTAAATAGTTTGTCATTTTG
321 CAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
*
21489221 TACACAACTTTTGGTCTTTGAATTAAATACTTATTTAGGTGAGAATTGT
385 TACACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* * * *
21489270 TTCTATCTTGGTTCATGACCAAAC-TTCTGAACCTGAAAAACTTTTACCAGTTCTTGTATAACTT
1 TTCTATCTTGGTTCACGACCGAACTTTC-GAACTTGAAAAACTTTTACAAGTTCTTGTATAACTT
* * *
21489334 CTGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAA-TTTTCTGAGCATTCCATGGTAG
65 CAGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTC-GAGCATTCCATGCTCG
* * * * * * *
21489398 GGAAATCGCATCATTTAGTCTAAATATTTTTTCATTTAGCATATAAAACTTTTGGTCTTTCATCT
129 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGC--ATAAAACTTTTGGTCTTTGATAT
* * * *
21489463 TAAACACTTATTTACGTGATAATTATTTCTCTCTTGGCTCTTGGCCGAACTTTCGAACTTGTCAA
192 TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTTGTCAA
* *
21489528 ACTTTTACAAGTTCCTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGT
257 ACTTTTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGC
* * * *
21489593 AATTTTTTGAAC-TTCCCATGCTCGAGAAATCACATCATCTGGTCTAAATAGTTTGTCATTTTGT
322 AATTTTTCGAACATT-CCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGT
* *
21489657 ACACAGCTTTTGGTCTTTGAATTACAAACTTATTTAGGTGAGAATTGT
386 ACACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
*
21489705 TTCTATCTTGGTTCACGACCGAAC-TTCTGAACCTT-AAAAACTTTTACCAGTTCTTGTATAACT
1 TTCTATCTTGGTTCACGACCGAACTTTC-GAA-CTTGAAAAACTTTTACAAGTTCTTGTATAACT
** * * * *
21489768 TTGGTTCCTTAAAATATCCAAGGCAATCCATTCCTTCGAGAAATTTTTTGAGCATTCCATGCTCG
64 TCAGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCG
* * * * * ** * * *
21489833 AGAAATCGCATCATTTAGTCTAAATATTTTGTCATTTAGCATACTACTTTTGGTATTTTATTTTA
129 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTA
** * * *
21489898 ATCA-TATATTTACGTGAGAATTGTTTCTCTCTTGGTTCATGGCCGAA-TTTCCATACTTGACAA
194 AAAACT-TATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGA-ACTTGTCAA
* **
21489961 ACATTTACAAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGC
257 ACTTTTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGC
** * * * *
21490026 AATTTTTCGATTATTCCGTGCGCGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTATA
322 AATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
* * *
21490091 TAAAAC-TTTGTGTCTATGAATTAAAAAAGCTTATTTAGGTGAGAATTGT
387 CACAACTTTTG-GTCTTTGAATT-AAAAA-CTTATTTAGGTGAGAATTGT
* ** * * * *
21490140 TTCTCTCTTGGTTCATAACCGAACTTTCGAATTTGAAAAACTTTCACAAGTTCTTCTATAATTTC
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
* * * *
21490205 AGTTCCTTAAAATATTCAAGGCAATCCATTCCTTCGTGCAATTTTCCGAACATTCCATGC-CGGG
66 AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
* *
21490269 AAATCACATCATTTGGTCTAAATAGTTTGTTATTTTACATAAAACTTTTGGTCTTTGA-ATTAAA
131 AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTAAA
* * ** * *
21490333 AACTTATTTAGGTGAGAATTGA-TTCTCTCTTGGTTCACGATCGAACTTTCAAACTTGACAAACT
196 AACTTATTTACGTGAGAATT-ATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTTGTCAAACT
* * * ** * * *
21490397 CTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAGATGATCCATTCCTTCGTGCAA
260 -TTTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCAA
* * * * * * * *
21490462 ATTTTCGAACATTTCATGCTCGGAAAATTGCATCACTTGGTCTGAATAGTTTGTTATTTTGTAAA
324 TTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACA
*
21490527 CAACTTTTGGTCTTTGAATTAAAATCTTATTTAGGTGAGAATTGT
389 CAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* * * * * *
21490572 TTCTCTCTTGGATCTCGACCGAACTTCCAAACTTGACAAACTTTTACAAGTTCTTGTATAACTTC
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
* ** * * * * * *
21490637 AGTTCCTTAAAATTTTCAAGATGATCCATTCCTTC-ATGCAATTTTTGGATCATTTCGTGCACGA
66 AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGA-GCAATTTTTCGAGCATTCCATGCTCGG
*
21490701 GAAATCACATCATTTGGTCTAAATAGTTTGTCA-TTTGCATAAAACTTTTGGTCTTT-AAATTAA
130 GAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTAA
* *
21490764 AAACTTATTTACGTGAGAATTAATTCTCTCTTGGCTTC--GGCCGAA-ATTCTGAACTTGTCAAA
195 AAACTTATTTACGTGAGAATTATTTCTCTCTTGG-TTCATGGCCGAACTTTC-GAACTTGTCAAA
* *
21490826 CTTTTACAAGTTCCTTTATAACTTTGCTTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
258 CTTTTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCA
* * *
21490891 ACTTTTT-GAACTTTCCATGCTCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTCGTTTTGTA
323 A-TTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTA
21490955 CACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
387 CACAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* * * * *
21491002 TTCTATCATGGTTCACGACCGAACTTTCGAACCTGAAAAACTTTTACCAGTTCTTTTACAACTTC
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
* * * ** * * * *
21491067 AATTCCTTAAAGTGTTCAAGATGATCCATTCCTTCGAGCAATTTTTCGATCATTCCGTGCGCGAG
66 AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
* * * *
21491132 AAATCACATCAATTGGTCTAAATAGTTTATCATTTTACATAATAA-TTTTTGTCTTTGA-ATTAA
131 AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAA-AACTTTTGGTCTTTGATATTAA
* * * * * *
21491195 AAACTTATTTAGGTGAGCATTGTTTCTCTCTTGGTTCACGGCCAAACTTTCGAACTTAG-AAAAC
195 AAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTT-GTCAAAC
* * * * * * *
21491259 TCTTGACAAGTT-TTTGTATAACTTCGGTT-CTTGAAAATATTCAAGACAATCCATTCCTTCGTG
259 T-TTTACAAGTTCTTT-TATAACTTTGATTAATT-AAAGTATTCAAGACGATCCATTCCTTCGAG
* * * * *
21491322 CAA-TTTCCTAAACATTTCATGTTCGGGAAATCGCATCATTTGGTCTGAATAGTTTGTCATTTTG
321 CAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
* *
21491386 TATA-ATAATTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
385 TACACA-ACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* * * * * *
21491435 TTCTCTCTTGGATCTCGATCC-AACTTCCGAACTTGACAAACTTTTAGAAGTTCTTGTATAACTT
1 TTCTATCTTGGTTCACGA-CCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTT
* * * * * * * *
21491499 CGGTTCCTTAAAATTTTCAAGGCGATCCATTCCTTCGTA-CTA-TTTTCTGATCCTTTCGTGCGC
65 CAGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCG-AGCAATTTTTC-GAGCATTCCATGCTC
* * *
21491562 GGGAAATCACATCATTAGGTCTAAATAGTTT-TCCATTTTGCATAAAACTTTTGGTCTTTCATCT
128 GGGAAATCACATCATTTGGTCTAAATAGTTTGT-CATTTTGCATAAAACTTTTGGTCTTTGATAT
* * *
21491626 TAAACACTTATTTACGTGAGAATTATTTCTCTCTTGGCTCTTGGCCGAAC-TTCTGAACTTGTCA
192 TAAAAACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTC-GAACTTGTCA
* * * * *
21491690 AACTTTTACAAGTTCCTTTATAAATTAGATTAATTAAAGTATTCAAAATGATCCATTCCTTCGAG
256 AACTTTTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAG
* *
21491755 CAA-TTTTCTGAACTTTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
321 CAATTTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTG
21491819 TACACAACTTTTGGTCTTTGAATTAAAAAACTTATTTAGGTGAGAATTGT
385 TACACAACTTTTGGTCTTTGAATT-AAAAACTTATTTAGGTGAGAATTGT
* * * *
21491869 TTCTATCTTGGTTCACGACCAAACTTTCGAACCTGGAAAACTCTTACAAGTTCTTGTATAACTTC
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
*
21491934 GGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
66 AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
* * * * * ** * *
21491999 AAATCACATCCTTTTGTCTAAATATTTTGTAATCTTGCATACTACTTTTGGTCTTTTATCTTAAA
131 AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTAAA
* * *
21492064 CACTTATTTACGTGAGAATTATTTCTCTCTTGGCTCTTGGCCGAACTTTCGAACTTGTCAAACTT
196 AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTTGTCAAACTT
* * *
21492129 TTACAAATTTTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATTCATTCCTTCGAGCAA-T
261 TTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* *
21492193 TTTCTGAACGTTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
326 TTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
21492258 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
390 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* * * *
21492302 TTCTATCTTGGTTCACGACCAAACTTTCGAACCTGGAAAACTCTTACAAGTTCTTGTATAACTTC
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
* *
21492367 GGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCAGG
66 AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
* * * * * ** * *
21492432 AAATCACATCTTTTTGTCTAAATATTTTGTAATCTTGCATACTACTTTTGGTCTTTTATCTTAAA
131 AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTAAA
* * * * *
21492497 CACTTATTTACGTGATAATTATTTCTCTCTTAGCTCTTGGCCGAACTTTCGAACTTGTCAAACTT
196 AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTTGTCAAACTT
* * *
21492562 TTACAAATTTTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATTCATTCCTTCGAGCAATT
261 TTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* *
21492627 TTCTC-AACGTTCCATGCTCGGG-AATTGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
326 TT-TCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACAC
*
21492690 AACTTTTGGTCTTTGAATTAAATACTTATTTAGGTGAGAATTGT
390 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* *
21492734 TTCTATCTTGGTTCACGACCGAACTTTCGAACCTGAAAAACTTTTACCAGTTCTTGTATAACTTC
1 TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
*
21492799 AGTTCCTTAAAATATTCAAGACGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
66 AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
* * * ** * *
21492864 AAATCGCATCATTTAGTCTAAATATTTTGTCATTTTGCATACTACTTTTGGTCTTTTATTTTAAA
131 AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTAAA
* ** * * * * ** * * *
21492929 CACAGATTTACGTGAGAATTGTTTATCTCTTTGTTCACGGTTGAACTTCCAAACTTGACAAACTT
196 AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTTGTCAAACTT
* * ** ** * * * *
21492994 TTGCGAGTTCTTTTATAACTTCAATTCCTTATAGTATTCAAGATGATTCATTCCCTCGAGCAA-T
261 TTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
* * ** * * ** *
21493058 TTCCCAATCATTCTGTG-TGTGGGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTACATA
326 TTTCGAA-CATTCCATGCT-CGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACA
* * *
21493122 AAACTTTGGGTCTTTGAATTAAAAACTTATTTAGCTGAGAATTGT
389 CAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
* * *
21493167 TTCTCTCTTGGTTCACGATCGAAC-TTCTGAACTTGACAAACTCTTTACAAGTTCTTGTATAACT
1 TTCTATCTTGGTTCACGACCGAACTTTC-GAACTTGAAAAACT-TTTACAAGTTCTTGTATAACT
** ** * * * *
21493231 TTGGTTCCTTAAAATATTCAAGATGATCCATTCCTTCGTGCAATTTTTTGAACATTTCATGCTCG
64 TCAGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCG
* * *
21493296 GGAAATCGCATCATTTGGTCTAAATAGTTTATTATTTTG
129 GGAAATCACATCATTTGGTCTAAATAGTTTGTCATTTTG
21493335 TAAACAACTT
Statistics
Matches: 3582, Mismatches: 411, Indels: 143
0.87 0.10 0.03
Matches are distributed among these distances:
430 296 0.08
431 90 0.03
432 707 0.20
433 1211 0.34
434 764 0.21
435 444 0.12
436 70 0.02
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.40
Consensus pattern (433 bp):
TTCTATCTTGGTTCACGACCGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAACTTC
AGTTCCTTAAAATATTCAAGGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCCATGCTCGGG
AAATCACATCATTTGGTCTAAATAGTTTGTCATTTTGCATAAAACTTTTGGTCTTTGATATTAAA
AACTTATTTACGTGAGAATTATTTCTCTCTTGGTTCATGGCCGAACTTTCGAACTTGTCAAACTT
TTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATT
TTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTTTGTACACA
ACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGT
Found at i:21493810 original size:32 final size:32
Alignment explanation
Indices: 21493774--21493868 Score: 145
Period size: 32 Copynumber: 3.0 Consensus size: 32
21493764 AGCCGAAATT
21493774 AATTAGCTGATTAATGTGTTTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
* *
21493806 AATTAGCTTATTAATGTGTCTCAGGTACATGC
1 AATTAGCTGATTAATGTGTTTCAGGTACATGC
* * *
21493838 AATTAGTTGATTAATATATTTCAGGTACATG
1 AATTAGCTGATTAATGTGTTTCAGGTACATG
21493869 TATGGACAGC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 56 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.39
Consensus pattern (32 bp):
AATTAGCTGATTAATGTGTTTCAGGTACATGC
Found at i:21495816 original size:216 final size:216
Alignment explanation
Indices: 21494837--21497921 Score: 3161
Period size: 216 Copynumber: 14.2 Consensus size: 216
21494827 GAGACCGTAT
* * * *
21494837 AACTTTTGGTCGTTGAATTAAAATCTTATTTAGGTGAGAATTGTTTCTCTCTTGGATCTCGACCG
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACCG
* *
21494902 AAC-TTCTGAATTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATTTTCAAG
66 AACTTTC-GAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
* * * *
21494966 ACAATCCATTCCTTC-ATGCAA-TTTTCCAATCATTTCGA-GCGCGGGAAATCACATCATTTGGT
130 ACGATCCATTCCTTCGAT-CAATTTTTCGAA-CA-TTCCATGCTCGGGAAATCACATCATTTGGT
*
21495028 CT--A-AGTATGTCATTTTGCATAA
192 CTAAATAGTTTGTCATTTTGCATAA
** * * * *
21495050 AACTTTTGGTCTTTGAATTAAAAACTTATTTACATGAGAATTATTTCTCTCATGGCTT--TGGCC
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGG-TTCACGACC
* * * * * * ** *
21495113 GATCTTCCGAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTTGATTAATTAAAGTATTCAAG
65 GAACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
* * * * *
21495178 ACGATCCATTCCTTCGAGCCA-TTTTCTGAACTTTCCATGCTCGAGAAATCGCATCATTTGGTCT
130 ACGATCCATTCCTTCGATCAATTTTTC-GAACATTCCATGCTCGGGAAATCACATCATTTGGTCT
* * * *
21495242 AAATAGTTTGACATTTTGTACAC
194 AAATAGTTTGTCATTTTGCATAA
*
21495265 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTATCTTGGTTCACGACCG
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACCG
* * * *
21495330 AACTTCCGAACCTT-AAAAACTTTTACCATTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
66 AACTTTCGAA-CTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
* * ** * * * *
21495394 GCGATCCATTCCCTCGAGAAATTTTTTTGAACATTCCACGCTCGGGAAATCGCATCATTTTGTCT
130 ACGATCCATTCCTTCGATCAA-TTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCT
*
21495459 AAATA-TTCTGTCATTTTGCATAC
194 AAATAGTT-TGTCATTTTGCATAA
* * * * * * * *
21495482 TACTTTTGGTATTTTATTTTAAACACATATTTACGTGACAATTGTTTCTCTCTTGGTTCACGACC
1 AACTTTTGGTCTTTGA-ATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACC
* * * * * * * * * *
21495547 GAACTTCCAAACATGACAAACTTCTGCAAGTTCTTTTATTACTTTGATTCCTTAAAGTATTCAAG
65 GAACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
* * * *
21495612 ATGATCCATTCCTTCGATCAATTTTTCGATCATTCCATACGCGGGAAATCACATCATTTGGTCTA
130 ACGATCCATTCCTTCGATCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTA
*
21495677 AATAGTTTGTCATTTTACATAA
195 AATAGTTTGTCATTTTGCATAA
* * * * *
21495699 AAC-TAT-GTCTATGAATTAAAAAAGCTTATGTAGGTGAGAATTGTTTCTCTCTTGGTTCATGAT
1 AACTTTTGGTCTTTGAATT-AAAAA-CTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGAC
* *
21495762 CGAACTTTCGAACTTGAAAAACTTTTACAAGTTCTTGTATAATTTCGGTTCCTTAAAATATTCAA
64 CGAACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAA
* * *
21495827 GACGATCCATTCCTTCG-TGCAATTTTCCAAACATTCCATGCTCGGGAAATCAAATCATTTGGTC
129 GACGATCCATTCCTTCGAT-CAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTC
*
21495891 TAAATAGTTTGTCATTTTACATAA
193 TAAATAGTTTGTCATTTTGCATAA
* *
21495915 AACTTTTGGTCTTTGAATCAAAAA-TTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGATCG
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACCG
* *
21495979 AACTTTCGAACTTGACAAACTCTTTACAAGTTCTTGTATAACTTCGATTCCTTAAAATATTCAAT
66 AACTTTCGAACTTGACAAACT-TTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
* * * * * *
21496044 ATGATCCATTCCTTCG-TGCAA-ATTTCTGAACATTTCATGCTCAGGAAATCGCATCATTTGATC
130 ACGATCCATTCCTTCGAT-CAATTTTTC-GAACATTCCATGCTCGGGAAATCACATCATTTGGTC
* * *
21496107 TGAATAGTTTGTTATTTTG-TTAA
193 TAAATAGTTTGTCATTTTGCATAA
* * * * ** *
21496130 CAACTTTTGGTCTTTGAATTAAAATCTTATTTAGGTGAAAATTGTTTCTTTCTTGGATCTTGGCC
1 -AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACC
* * *
21496195 GAAC-TTCTAAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATTTTTAA
65 GAACTTTC-GAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAA
* * * * *
21496259 GACGATCCATTCCTTC-ATGCAATTTTTTGATCATTTCGTGCGCGGGAAATCACATCATTTGGTC
129 GACGATCCATTCCTTCGAT-CAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTC
21496323 TAAATAGTTTGTCATTTTGCATAA
193 TAAATAGTTTGTCATTTTGCATAA
* * * * * * *
21496347 AACTTTTGGTCTTTAAATTAAAAACCTATTTACGTGAGAATTATTTCTCTCTTGGCTT--TGGCT
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGG-TTCACGACC
* * * * **
21496410 GAACTTCCGAACTTGTCAAACTTTTACAAGTTCCTT-TATAACTTTGATTAATTAAAAGTATTCA
65 GAACTTTCGAACTTGACAAACTTTTACAAGTT-CTTGTATAACTTCGGTTCCTTAAAA-TATTCA
* * * * *
21496474 AGATGATCCATTCCTTCGAGCAA-CTTTCTGAACTTTCCATGCTCGGGAAATCACATCATTTGTT
128 AGACGATCCATTCCTTCGATCAATTTTTC-GAACATTCCATGCTCGGGAAATCACATCATTTGGT
* * *
21496538 CTAAATAGTTTGTCATTTTGTACAC
192 CTAAATAGTTTGTCATTTTGCATAA
* *
21496563 AACTTTTGGTCTTTGAATTAAAAAACTAATTTAGGTGAGAATTGTTTCTATCTTGGTTCACGACC
1 AACTTTTGGTCTTTGAATT-AAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACC
* * *
21496628 AAACTTTCGAACCTAGA-AAACTCTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAA
65 GAACTTTCGAA-CTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAA
* * * * * * *
21496692 GGCGATCCATTCCTTCGAGCAATTTTTCGAGCATTCGATGCTCAGGAAATCGCATCATTTTGTCT
129 GACGATCCATTCCTTCGATCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCT
*
21496757 AAATATTTTGTCATTTTGCAT-A
194 AAATAGTTTGTCATTTTGCATAA
* * * * * * * ** **
21496779 TACTTTTGGTCTTTTATCTTAAACACTTATTTACGTGAGAATTATTTCTCTCTTGGCTCTTGGTC
1 AACTTTTGGTCTTTGA-ATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACC
* * * * * * ** *
21496844 GAACTTCCGAACTTGTCAAACTTTTACAAATT-TTCTTATAACTTAGATTAATTAAAGTATTCAA
65 GAACTTTCGAACTTGACAAACTTTTACAAGTTCTT-GTATAACTTCGGTTCCTTAAAATATTCAA
* * * * *
21496908 GACGATTCATTCCTTCGAGCAA-TTTTCTGAACTTTCCATGCTTGGGAAA-CTGCATCATTTGGT
129 GACGATCCATTCCTTCGATCAATTTTTC-GAACATTCCATGCTCGGGAAATC-ACATCATTTGGT
* * *
21496971 CTAAATAGTTTGTCATTTTGTACAC
192 CTAAATAGTTTGTCATTTTGCATAA
* * * * *
21496996 AACTTTTAGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTATTTTTATCTTGGTTCACGATCG
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACCG
* * * * * *
21497061 AACTTTCGAACCTGAAAAACTTTTACCAGTTCTTGTATAACTTCGGTTCCTTAAAATATTTAGGG
66 AACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAGA
* * * *
21497126 CGATCCATTCCTTCGAGCAATTTTCGAGCAATTTTCGAGCATTCCATGCTTGGGAAATCGCATCA
131 CGATCCATTCCTTC--G--A---TC-A--ATTTTTCGAACATTCCATGCTCGGGAAATCACATCA
* * *
21497191 TTTAGTCTAAATATTTTGTCATTTTGCATAC
186 TTTGGTCTAAATAGTTTGTCATTTTGCATAA
* * * * * ** * * **
21497222 TACTTTTGGTATTTTATTTTAAACACAGAATTACGTGAGAATTGTTTCTCTCTTGGTTCACGGTC
1 AACTTTTGGTCTTTGA-ATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACC
* *** * ** * *
21497287 GAA-TTTCCAAACTTGACAAACTTTTGTGAGTTCTTTTATAACTTCAATTCCTTATAGTATTCAA
65 GAACTTT-CGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAA
* * * * ** *
21497351 GATGATCCATTCCTTCGATCAA-TTTCCCAGTCATTCTGTG-TGTGGGAAATCACATCATTTGGT
129 GACGATCCATTCCTTCGATCAATTTTTCGA-ACATTCCATGCT-CGGGAAATCACATCATTTGGT
*
21497414 CTAAATAGTTTGTCATTTTACATAA
192 CTAAATAGTTTGTCATTTTGCATAA
* * * * *
21497439 AACTTTTGGTCTTTGAATTAAAAACTTATCTAGCTGAGAATTGTTTATCTCTTGGTTCACGATCA
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACCG
* * *
21497504 AACTTTTGAACTTCACAAACTCTTTACAAGTTCTTGTATAACTTCGGTTGCTTAAAATATTCAAG
66 AACTTTCGAACTTGACAAACT-TTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAG
* * * *
21497569 ATGATCCATTCCTTCG-TGCAATTTTCCGAACATTTCATGCTCGGGAAATCGCATCATTTGGTCT
130 ACGATCCATTCCTTCGAT-CAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCT
* * * *
21497633 GAATAGTTTATTATTTTGTA-AA
194 AAATAGTTTGTCATTTTGCATAA
* * * * * * *
21497655 CAACTTTTGGTCTTTGAACTAAAATCTTATTTAGGTGAGAATTATTTCTCTCTTGGATCTCGGCT
1 -AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACC
* *
21497720 GAAC-TTCTGAATTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATTTTCAA
65 GAACTTTC-GAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAA
* * * * * * * *
21497784 GACAATCCATTGCTTC-ATGTAATTTTTTGATCATTTCGA-GCACTGGAAAT-ACATCATTTGGT
129 GACGATCCATTCCTTCGAT-CAATTTTTCGAACA-TTCCATGCTCGGGAAATCACATCATTTGGT
*
21497846 CTAAGTAGTTTGTCATTTTGCATAA
192 CTAAATAGTTTGTCATTTTGCATAA
* *
21497871 AACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTC
1 AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTC
21497922 ATGGCTTTGG
Statistics
Matches: 2369, Mismatches: 428, Indels: 148
0.80 0.15 0.05
Matches are distributed among these distances:
211 4 0.00
212 99 0.04
213 54 0.02
214 6 0.00
215 275 0.12
216 1025 0.43
217 545 0.23
218 177 0.07
219 4 0.00
220 3 0.00
223 2 0.00
224 1 0.00
225 1 0.00
226 68 0.03
227 105 0.04
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
AACTTTTGGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTGTTTCTCTCTTGGTTCACGACCG
AACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATATTCAAGA
CGATCCATTCCTTCGATCAATTTTTCGAACATTCCATGCTCGGGAAATCACATCATTTGGTCTAA
ATAGTTTGTCATTTTGCATAA
Found at i:21497153 original size:11 final size:11
Alignment explanation
Indices: 21497137--21497166 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
21497127 GATCCATTCC
21497137 TTCGAGCAATT
1 TTCGAGCAATT
21497148 TTCGAGCAATT
1 TTCGAGCAATT
21497159 TTCGAGCA
1 TTCGAGCA
21497167 TTCCATGCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (11 bp):
TTCGAGCAATT
Found at i:21497321 original size:227 final size:224
Alignment explanation
Indices: 21496921--21497921 Score: 847
Period size: 217 Copynumber: 4.5 Consensus size: 224
21496911 GATTCATTCC
* *
21496921 TTCGAGCAATTTTCTGAACTTTCCATGCTTGGGAAA-CTGCATCATTTGGTCTAAATAGTTTGTC
1 TTCGAGCAATTTTC-GAGCATTCCATGCTTGGGAAATC-GCATCATTTGGTCTAAATAGTTTGTC
* * * * * * *
21496985 ATTTTGTACACAACTTTTAGTCTTTGAATTAAAAACTTATTTAGGTGAGAATTATTTTTATCTTG
64 ATTTTGCATACAACTTTTGGTCTTTGAATTAAAAAC-TAATTA-GTGAGAATTGTTTATCTCTTG
* * *
21497050 GTTCACGATCGAACTTTCGAACCTGAAAAACTTTTACCAGTTCTTGTATAACTTCGGTTCCTTAA
127 GTTCACGATCGAACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAA
* * **
21497115 AATATTTAGGGCGATCCATTCCTTCGAGCAATT
192 AATATTCAAGATGATCCATTCCTTCGAGCAATT
* *
21497148 TTCGAGCAATTTTCGAGCATTCCATGCTTGGGAAATCGCATCATTTAGTCTAAATATTTTGTCAT
1 TTCGAGCAATTTTCGAGCATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
* * * * * * *
21497213 TTTGCATACTACTTTTGGTATTTTATTTTAAACACAGAATTACGTGAGAATTGTTTCTCTCTTGG
66 TTTGCATACAACTTTTGGTCTTTGA-ATTAAAAAC-TAATTA-GTGAGAATTGTTTATCTCTTGG
* * *** * ** *
21497278 TTCACGGTCGAA-TTTCCAAACTTGACAAACTTTTGTGAGTTCTTTTATAACTTCAATTCCTTAT
128 TTCACGATCGAACTTT-CGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAA
* *
21497342 AGTATTCAAGATGATCCATTCCTTCGATCAA-T
192 AATATTCAAGATGATCCATTCCTTCGAGCAATT
** *
21497374 TTC---C------C-AGTCATTCTGTG-TGTGGGAAATCACATCATTTGGTCTAAATAGTTTGTC
1 TTCGAGCAATTTTCGAG-CATTCCATGCT-TGGGAAATCGCATCATTTGGTCTAAATAGTTTGTC
* * *
21497428 ATTTTACATAAAACTTTTGGTCTTTGAATTAAAAACTTATCTAGCTGAGAATTGTTTATCTCTTG
64 ATTTTGCATACAACTTTTGGTCTTTGAATTAAAAACTAAT-TAG-TGAGAATTGTTTATCTCTTG
* * * *
21497493 GTTCACGATCAAACTTTTGAACTTCACAAACTCTTTACAAGTTCTTGTATAACTTCGGTTGCTTA
127 GTTCACGATCGAACTTTCGAACTTGACAAACT-TTTACAAGTTCTTGTATAACTTCGGTTCCTTA
*
21497558 AAATATTCAAGATGATCCATTCCTTCGTGCAATT
191 AAATATTCAAGATGATCCATTCCTTCGAGCAATT
* * * * * *
21497592 TT----C------CGAACATTTCATGCTCGGGAAATCGCATCATTTGGTCTGAATAGTTTATTAT
1 TTCGAGCAATTTTCGAGCATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
* * * * * * * *
21497647 TTTGTAAACAACTTTTGGTCTTTGAACTAAAATCTTATTTAGGTGAGAATTATTTCTCTCTTGGA
66 TTTGCATACAACTTTTGGTCTTTGAATTAAAAAC-TAATTA-GTGAGAATTGTTTATCTCTTGGT
* * *
21497712 TCTCG-GCTGAAC-TTCTGAATTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAA
129 TCACGATC-GAACTTTC-GAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAA
* ** * *
21497775 AATTTTCAAGACAATCCATTGCTTC-ATGTAATTT
192 AATATTCAAGATGATCCATTCCTTCGA-GCAA-TT
* * * *
21497809 TTTGATC-A-TTTCGAG-----CA--C-T-GGAAAT-ACATCATTTGGTCTAAGTAGTTTGTCAT
1 TTCGAGCAATTTTCGAGCATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
* * * *
21497862 TTTGCATAAAACTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTATTTCTCTC
66 TTTGCATACAACTTTTGGTCTTTGAATTAAAAAC-TAATTA-GTGAGAATTGTTTATCTC
21497922 ATGGCTTTGG
Statistics
Matches: 635, Mismatches: 113, Indels: 64
0.78 0.14 0.08
Matches are distributed among these distances:
215 80 0.13
216 119 0.19
217 230 0.36
218 9 0.01
220 2 0.00
221 1 0.00
223 1 0.00
225 3 0.00
226 71 0.11
227 119 0.19
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (224 bp):
TTCGAGCAATTTTCGAGCATTCCATGCTTGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
TTTGCATACAACTTTTGGTCTTTGAATTAAAAACTAATTAGTGAGAATTGTTTATCTCTTGGTTC
ACGATCGAACTTTCGAACTTGACAAACTTTTACAAGTTCTTGTATAACTTCGGTTCCTTAAAATA
TTCAAGATGATCCATTCCTTCGAGCAATT
Found at i:21498530 original size:48 final size:48
Alignment explanation
Indices: 21498466--21498577 Score: 170
Period size: 48 Copynumber: 2.3 Consensus size: 48
21498456 TTTAACAAAA
* * * *
21498466 CATTTAACAAACAAAACAGTTAATAATGCAGCTTACTAAACAAAGATG
1 CATTTAACAAAAAAAACACTGAATAATGCAGATTACTAAACAAAGATG
* *
21498514 CATTTAACAAAAAAAACACTGAATGATGCAGATTATTAAACAAAGATG
1 CATTTAACAAAAAAAACACTGAATAATGCAGATTACTAAACAAAGATG
21498562 CATTTAACAAAAAAAA
1 CATTTAACAAAAAAAA
21498578 ACTTAGTGAA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.54, C:0.14, G:0.10, T:0.22
Consensus pattern (48 bp):
CATTTAACAAAAAAAACACTGAATAATGCAGATTACTAAACAAAGATG
Found at i:21505994 original size:15 final size:15
Alignment explanation
Indices: 21505974--21506042 Score: 50
Period size: 15 Copynumber: 4.6 Consensus size: 15
21505964 TCATCCATGC
21505974 TCGTAACACGAGTGT
1 TCGTAACACGAGTGT
21505989 TCGTAACATC-AGTGT
1 TCGTAACA-CGAGTGT
** * * *
21506004 TCACAGCTCTAGTGT
1 TCGTAACACGAGTGT
* *
21506019 TCGTAACATGAGTGC
1 TCGTAACACGAGTGT
*
21506034 TCGCAACAC
1 TCGTAACAC
21506043 CAATGCTTAC
Statistics
Matches: 39, Mismatches: 13, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
14 1 0.03
15 37 0.95
16 1 0.03
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.28
Consensus pattern (15 bp):
TCGTAACACGAGTGT
Found at i:21506521 original size:217 final size:215
Alignment explanation
Indices: 21506120--21506969 Score: 928
Period size: 217 Copynumber: 3.9 Consensus size: 215
21506110 CGCATCAAAT
* * * * *
21506120 TATTCAAGACGATCCATTCCTTCGTGCAATATTCCAAACATTTCATGCTC-AGGAAATTGCATCA
1 TATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACTTTTCATGCTCGA-GAAATCGCATCA
* * * *
21506184 TTTGGTC-GAATAGTTTGTCATTTTGTAAACAATTTTTGGTCTTTGAATTAAAAACTTATTCAGG
65 TTTGGTCTAAATAGTTTGTCATTTTGTAAATAACTTTTGGTCTTTGAATTAAAAACTTATTTAGG
*
21506248 TGAGAATTGTTTCTCTCTTGGATGTTG-GCCGAACTTCCGAACTTGACAAACTTTTACGAGTTCC
130 TGAGAATTGTTTCTCTCTTGG-T-TCGCGCCGAACTTCCGAACTTGACAAACTTTTACGAGTTCC
* **
21506312 TTTATAACTTTAATTAATTAAAG
193 TTTATAACTTTGATTCCTTAAAG
* *
21506335 TATTCAAGACGATCTATTCCTTCGAACAA-TTTTCTAAACTTTTCATGCTCGAGAAATCGCATCA
1 TATTCAAGACGATCCATTCCTTCGAGCAATTTTTC-AAACTTTTCATGCTCGAGAAATCGCATCA
*
21506399 TTTGGTCTAAATAGTTTGTCATTTTGTACATAACTTTTGGTCTTTGAATTAAAAAACTTATTTAG
65 TTTGGTCTAAATAGTTTGTCATTTTGTAAATAACTTTTGGTCTTTGAATT-AAAAACTTATTTAG
* * * * *
21506464 GTGAGAATTGTTTCTATCTTGGTTCGCGACCGAACTTTCGAACCTGAAAAACTTTTACAAGTT-C
129 GTGAGAATTGTTTCTCTCTTGGTTCGCG-CCGAACTTCCGAACTTGACAAACTTTTACGAGTTCC
* * *
21506528 TTGTATAACTTCGCTTCCTTAAAA
193 TT-TATAACTTTGATTCCTTAAAG
* * * * * * * *
21506552 TATTCAAGGCGATCCATTCCTTTGAGCTATTTTTCGAGC-ATTCTATGCTCAAGAAATCACATCA
1 TATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACTTTTC-ATGCTCGAGAAATCGCATCA
* * * * * * *
21506616 TTTGGTCAAAATATTTTGTCATTTTGCATACT-ACTTTTGGTCTTTTATCTTAAACACTTATTTA
65 TTTGGTCTAAATAGTTTGTCATTTTGTA-AATAACTTTTGGTCTTTGA-ATTAAAAACTTATTTA
* * * * *
21506680 CGTGAGAATTGTTTCTCTCTTGGTTCACGGTCGAACTTCCAAACTTGACAAACTTTTATGAGTTC
128 GGTGAGAATTGTTTCTCTCTTGGTTCGC-GCCGAACTTCCGAACTTGACAAACTTTTACGAGTTC
* *
21506745 TTTTTTAACTTTGATTCCTTAAAG
192 CTTTATAACTTTGATTCCTTAAAG
* * * *
21506769 TATTCAAGACGATCCATTCCTTCGAGTAATTTTTCGAACTTTCCATGCTCGGGAAATCGCATC-T
1 TATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACTTTTCATGCTCGAGAAATCGCATCAT
* * * * *
21506833 TTGGTCTAAATAGTTTGTCATTTTTTAAATAACTTTTGGCCTTCG-ATTTAAAACTTATTTATGT
66 TTGGTCTAAATAGTTTGTCATTTTGTAAATAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGT
* * * * * * * * *
21506897 GAGAATTGTTCCTGTCTTGGTTCTTG-GTCGAAATTCTGAACTAGTCAAACTTTTATGAGTTCTT
131 GAGAATTGTTTCTCTCTTGGTTC--GCGCCGAACTTCCGAACTTGACAAACTTTTACGAGTTCCT
*
21506961 TTTTAACTT
194 TTATAACTT
21506970 CGTGATAAAA
Statistics
Matches: 531, Mismatches: 87, Indels: 35
0.81 0.13 0.05
Matches are distributed among these distances:
214 81 0.15
215 62 0.12
216 82 0.15
217 293 0.55
218 13 0.02
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (215 bp):
TATTCAAGACGATCCATTCCTTCGAGCAATTTTTCAAACTTTTCATGCTCGAGAAATCGCATCAT
TTGGTCTAAATAGTTTGTCATTTTGTAAATAACTTTTGGTCTTTGAATTAAAAACTTATTTAGGT
GAGAATTGTTTCTCTCTTGGTTCGCGCCGAACTTCCGAACTTGACAAACTTTTACGAGTTCCTTT
ATAACTTTGATTCCTTAAAG
Found at i:21510567 original size:15 final size:15
Alignment explanation
Indices: 21510549--21510581 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
21510539 ACTGGAGCTA
21510549 CGAACACTCATGTTG
1 CGAACACTCATGTTG
21510564 CGAACACTCATGTTG
1 CGAACACTCATGTTG
21510579 CGA
1 CGA
21510582 GCATGGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (15 bp):
CGAACACTCATGTTG
Found at i:21517701 original size:52 final size:52
Alignment explanation
Indices: 21517639--21517743 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 52
21517629 TATTAATCTA
* **
21517639 AACAACATAATAAATAAC-TATTTAA-AATTAAATAATTTGATAATATTTTCTT
1 AACAACATAATAAATAACGGA-TTAATAA-TAAATAATTAAATAATATTTTCTT
* *
21517691 AACATCATAATAATTAACGGATTAATAATAAATAATTAAATAATATTTTCTT
1 AACAACATAATAAATAACGGATTAATAATAAATAATTAAATAATATTTTCTT
21517743 A
1 A
21517744 CTATTTATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
52 43 0.93
53 3 0.07
ACGTcount: A:0.50, C:0.08, G:0.03, T:0.39
Consensus pattern (52 bp):
AACAACATAATAAATAACGGATTAATAATAAATAATTAAATAATATTTTCTT
Found at i:21531642 original size:11 final size:11
Alignment explanation
Indices: 21531626--21531663 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
21531616 CATTTTTATT
21531626 AAATTCAAATG
1 AAATTCAAATG
*
21531637 AAATTCAACTG
1 AAATTCAAATG
*
21531648 AAA-TGAAATG
1 AAATTCAAATG
21531658 AAATTC
1 AAATTC
21531664 CAAAGACTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
10 8 0.36
11 14 0.64
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (11 bp):
AAATTCAAATG
Found at i:21532241 original size:22 final size:23
Alignment explanation
Indices: 21532191--21532248 Score: 73
Period size: 23 Copynumber: 2.6 Consensus size: 23
21532181 ATACAAATTT
* *
21532191 TTAAATTATAATTTTTACGATAG
1 TTAAATTATAATTTTTACAATAA
*
21532214 TAAAATTATAATTTTTA-AATAA
1 TTAAATTATAATTTTTACAATAA
*
21532236 TTAAATTAAAATT
1 TTAAATTATAATT
21532249 ATATCATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.47
23 16 0.53
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (23 bp):
TTAAATTATAATTTTTACAATAA
Found at i:21533572 original size:37 final size:37
Alignment explanation
Indices: 21533516--21533669 Score: 200
Period size: 37 Copynumber: 4.2 Consensus size: 37
21533506 TTACATTTAA
*
21533516 GTATTCGGGCTATGTGCCTAGCAGACTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * * *
21533553 GTGTTTGGGCTATGTGCCTAGCAGGCTTTGTGTCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* *
21533590 GTATTCGGGCTATGTGCCTAGCAGGCTTCATGCTGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * * * *
21533627 GCATTCGGGCTCTGTGCATAGCAGGCTTCGTGTCAGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
21533664 GTATTC
1 GTATTC
21533670 AAACTTTGTG
Statistics
Matches: 98, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 98 1.00
ACGTcount: A:0.12, C:0.21, G:0.33, T:0.33
Consensus pattern (37 bp):
GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
Found at i:21533680 original size:74 final size:74
Alignment explanation
Indices: 21533525--21533686 Score: 189
Period size: 74 Copynumber: 2.2 Consensus size: 74
21533515 AGTATTCGGG
* ** * * * *
21533525 CTATGTGCCTAGCAGACTTCGTGCCGGTGTGTTTGGGCTATGTGCCTAGCAGGCTTTGTGTCGGT
1 CTATGTGCCTAGCAGACTTCATGCCGGTGCATTCGGGCTATGTGCATAGCAGGCTTCGTGTCAGT
***
21533590 GTATTCGGG
66 GTATTCAAA
* * *
21533599 CTATGTGCCTAGCAGGCTTCATGCTGGTGCATTCGGGCTCTGTGCATAGCAGGCTTCGTGTCAGT
1 CTATGTGCCTAGCAGACTTCATGCCGGTGCATTCGGGCTATGTGCATAGCAGGCTTCGTGTCAGT
21533664 GTATTCAAA
66 GTATTCAAA
* *
21533673 CTTTGTGCCAAGCA
1 CTATGTGCCTAGCA
21533687 AGCCATTGTG
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.15, C:0.22, G:0.31, T:0.32
Consensus pattern (74 bp):
CTATGTGCCTAGCAGACTTCATGCCGGTGCATTCGGGCTATGTGCATAGCAGGCTTCGTGTCAGT
GTATTCAAA
Found at i:21534491 original size:22 final size:22
Alignment explanation
Indices: 21534450--21534491 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21534440 GACGATACCT
*
21534450 GCAAAAGAAAAATGGACAGAAA
1 GCAAAAGAAAAATAGACAGAAA
21534472 GCAAAAGCAAAAATAG-CAGA
1 GCAAAAG-AAAAATAGACAGA
21534492 GATAGATAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.62, C:0.12, G:0.21, T:0.05
Consensus pattern (22 bp):
GCAAAAGAAAAATAGACAGAAA
Found at i:21548102 original size:38 final size:39
Alignment explanation
Indices: 21548050--21548629 Score: 367
Period size: 38 Copynumber: 14.7 Consensus size: 39
21548040 AGAGCGAAGC
* *
21548050 GAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATT
1 GAAGACA-TCCAATCTCTTACCCCGATCATGGGGCAGATT
* ** **
21548090 GAAG-CATCCAATCTTTTACCCTAATCAAAGGGCAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
21548128 GAAGACACGCCAATCTCTTACCCCTATCATGGGGTAGATT
1 GAAGACA-TCCAATCTCTTACCCCGATCATGGGGCAGATT
** * *
21548168 GAAG-CATATAATCTTTTA-CCCTAGTCA-GAGGGCAGATT
1 GAAGACATCCAATCTCTTACCCCGA-TCATG-GGGCAGATT
* *
21548206 GAAGGCACA-ACAATCTCTTACCCCGATCATGGGGCAAATT
1 GAA-G-ACATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
21548246 GAAGCCATCCAACCTCTTACCCCGATCATGGGGTAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * *
21548285 GAAGCCACTATCCAATCT-TTACCCCCAAGTTAAGAGGGGTAGATT
1 GAAG--AC-ATCCAATCTCTTA-CCCC--GATCA-TGGGGCAGATT
* * *
21548330 GAAGCCATAATCCAATATTTTACCCCGATCATGGGGCAGATT
1 GAAG--A-CATCCAATCTCTTACCCCGATCATGGGGCAGATT
*** *
21548372 GAAGA-ATCCAATCTCTTACCTTAATCA-GAAGGCAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATG-GGGCAGATT
** * ** *
21548410 GAAGACAAGCAATCTTTTACCTTGATCATGAGGCAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * * * **
21548449 GAAG-CATTCATTTTTTTACCCTAATCA-GAGGGCAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATG-GGGCAGATT
*** * * * *
21548487 GAAGACAAATAATCTCTTACTCCAATCATGGAGTAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * ** *
21548526 GAAG-CATCCAATTTTTTACCCTAATCA-GAGGGTAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATG-GGGCAGATT
**
21548564 GAAGACAAACAATCTCTTACCCCGATCATGGGGCAGATT
1 GAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
21548603 GAA-ACATCCAACCTTTTACCCTGATCA
1 GAAGACATCCAATCTCTTACCCCGATCA
21548630 GAGGGAAAAT
Statistics
Matches: 426, Mismatches: 86, Indels: 58
0.75 0.15 0.10
Matches are distributed among these distances:
37 9 0.02
38 159 0.37
39 124 0.29
40 60 0.14
41 11 0.03
42 25 0.06
43 3 0.01
44 3 0.01
45 29 0.07
46 3 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (39 bp):
GAAGACATCCAATCTCTTACCCCGATCATGGGGCAGATT
Found at i:21548145 original size:78 final size:78
Alignment explanation
Indices: 21548050--21548309 Score: 324
Period size: 78 Copynumber: 3.3 Consensus size: 78
21548040 AGAGCGAAGC
21548050 GAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTAAT
1 GAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTAAT
21548115 CAAAGGGCAGATT
66 CAAAGGGCAGATT
* * ** *
21548128 GAAGACACGCCAATCTCTTACCCCTATCATGGGGTAGATTGAAGCATATAATCTTTTACCCTAGT
1 GAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTAAT
*
21548193 CAGAGGGCAGATT
66 CAAAGGGCAGATT
* * * * * * **
21548206 GAAGGCACAACAATCTCTTACCCCGATCATGGGGCAAATTGAAGCCATCCAACCTCTTACCCCGA
1 GAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAG-CATCCAATCTTTTACCCTAA
** *
21548271 TCATGGGGTAGATT
65 TCAAAGGGCAGATT
*
21548285 GAAGCCACTATCCAATCT-TTACCCC
1 GAAGACAC-A-CCAATCTCTTACCCC
21548310 CAAGTTAAGA
Statistics
Matches: 155, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
78 110 0.71
79 31 0.20
80 8 0.05
81 6 0.04
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (78 bp):
GAAGACACACCAATCTCTTACCCCGATCATGGGGTAGATTGAAGCATCCAATCTTTTACCCTAAT
CAAAGGGCAGATT
Found at i:21548437 original size:77 final size:77
Alignment explanation
Indices: 21548259--21548645 Score: 373
Period size: 77 Copynumber: 4.9 Consensus size: 77
21548249 GCCATCCAAC
* * *
21548259 CTCTTACCCCGATCATGGGGTAGATTGAAGCCACTATCCAATC-TTTACCCCCAAGTTAAGAGGG
1 CTCTTACCCCGATCATGGGGCAGATTGAAG--A--ATCCAATCTTTTA-CCCTAA--TCAGA-GG
* *
21548323 GTAGATTGAAGCCATAATCCAAT
58 GCAGATTGAAGACA-AA--CAAT
* * * * *
21548346 ATTTTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTCTTACCTTAATCAGAAGGCAGATTG
1 CTCTTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCCTAATCAGAGGGCAGATTG
*
21548411 AAGACAAGCAAT
66 AAGACAAACAAT
* ** * * * * *
21548423 CTTTTACCTTGATCATGAGGCAGATTGAAGCATTCATTTTTTTACCCTAATCAGAGGGCAGATTG
1 CTCTTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCCTAATCAGAGGGCAGATTG
*
21548488 AAGACAAATAAT
66 AAGACAAACAAT
* * * * * * *
21548500 CTCTTACTCCAATCATGGAGTAGATTGAAGCATCCAATTTTTTACCCTAATCAGAGGGTAGATTG
1 CTCTTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCCTAATCAGAGGGCAGATTG
21548565 AAGACAAACAAT
66 AAGACAAACAAT
* * * *
21548577 CTCTTACCCCGATCATGGGGCAGATTGAA-ACATCCAACCTTTTACCCTGATCAGAGGGAAAATT
1 CTCTTACCCCGATCATGGGGCAGATTGAAGA-ATCCAATCTTTTACCCTAATCAGAGGGCAGATT
21548641 GAAGA
65 GAAGA
21548646 TAAGTTGCGA
Statistics
Matches: 252, Mismatches: 46, Indels: 14
0.81 0.15 0.04
Matches are distributed among these distances:
77 191 0.76
79 1 0.00
80 13 0.05
81 4 0.02
83 12 0.05
84 3 0.01
85 1 0.00
87 27 0.11
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (77 bp):
CTCTTACCCCGATCATGGGGCAGATTGAAGAATCCAATCTTTTACCCTAATCAGAGGGCAGATTG
AAGACAAACAAT
Found at i:21549181 original size:22 final size:22
Alignment explanation
Indices: 21549141--21549182 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
21549131 GACGATACCT
*
21549141 GCAAAAGAAAAACGGACAGAAA
1 GCAAAAGAAAAACGAACAGAAA
21549163 GCAAAAGCAAAAAC-AACAGA
1 GCAAAAG-AAAAACGAACAGA
21549183 GATAGATAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.64, C:0.17, G:0.19, T:0.00
Consensus pattern (22 bp):
GCAAAAGAAAAACGAACAGAAA
Found at i:21556201 original size:41 final size:40
Alignment explanation
Indices: 21556112--21556274 Score: 191
Period size: 41 Copynumber: 3.9 Consensus size: 40
21556102 CTTTTTAAAC
* *
21556112 ATATTCTCATGCTCATTTCGAGTCACGAGTCTTCCTTTGAC
1 ATATTCTCATGCTCA-TTCGAGTCACGAGTCTTCCTTTAAT
* * * * *
21556153 ACATTCTCATTCTCATCACGAGACATGAGTCTTCCTTTAAT
1 ATATTCTCATGCTCAT-TCGAGTCACGAGTCTTCCTTTAAT
*
21556194 ATTTTCTCATGCTCATTCGAAGTCACGAGTCTTCCTTTTATAT
1 ATATTCTCATGCTCATTCG-AGTCACGAGTCTTCC-TTTA-AT
*
21556237 AAATTCTCATGCTCATTCTGAGTCACGAGTCTTCCTTT
1 ATATTCTCATGCTCATTC-GAGTCACGAGTCTTCCTTT
21556275 TATACATCAA
Statistics
Matches: 102, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.03
41 58 0.57
42 7 0.07
43 33 0.32
44 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.12, T:0.40
Consensus pattern (40 bp):
ATATTCTCATGCTCATTCGAGTCACGAGTCTTCCTTTAAT
Found at i:21556251 original size:43 final size:42
Alignment explanation
Indices: 21556095--21556278 Score: 189
Period size: 41 Copynumber: 4.4 Consensus size: 42
21556085 AAGAGTCATA
*
21556095 AGTCTTCCTTTT-TAAACATATTCTCATGCTCATTTCGAGTCACG
1 AGTCTTCCTTTTATATA-A-ATTCTCATGCTCA-TTCGAGTCACG
* * * * * * *
21556139 AGTCTTCC-TTT-GACACATTCTCATTCTCATCACGAGACATG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCAT-TCGAGTCACG
**
21556180 AGTCTTCC-TTTA-ATATTTTCTCATGCTCATTCGAAGTCACG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCG-AGTCACG
21556221 AGTCTTCCTTTTATATAAATTCTCATGCTCATTCTGAGTCACG
1 AGTCTTCCTTTTATATAAATTCTCATGCTCATTC-GAGTCACG
21556264 AGTCTTCCTTTTATA
1 AGTCTTCCTTTTATA
21556279 CATCAAGTTT
Statistics
Matches: 118, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
40 3 0.03
41 57 0.48
42 4 0.03
43 45 0.38
44 9 0.08
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.41
Consensus pattern (42 bp):
AGTCTTCCTTTTATATAAATTCTCATGCTCATTCGAGTCACG
Found at i:21560415 original size:37 final size:37
Alignment explanation
Indices: 21560282--21560579 Score: 402
Period size: 37 Copynumber: 8.0 Consensus size: 37
21560272 TTACATGTAA
* * *
21560282 GTATTTGGGCTATGTGCCTAGCAGACTTTGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* *
21560319 -TATTCGGGCTATGTGCCTAACAGGCTTCGTGCTGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * *
21560355 GTATTCGGGGCTATGTGCTTAGCAGGTTTCGTGCCGAT
1 GTATTC-GGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
*
21560393 GTATCCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
*
21560430 GTATTCGGGCTATGTGCCTAGCAAGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
* * * * *
21560467 GTATTCGGGCTCTGTACCTAGCAAGCTTCGTGTCGAT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
*
21560504 GTATTCGGGCTATGTGTCTAGCAGGCTTCGTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
*
21560541 GTATTCGGGCTTTGTGCCTAGCAGGCCATT-GTGCCGGT
1 GTATTCGGGCTATGTGCCTAGCAGG-C-TTCGTGCCGGT
21560579 G
1 G
21560580 ACCAAGGAAT
Statistics
Matches: 229, Mismatches: 28, Indels: 7
0.87 0.11 0.03
Matches are distributed among these distances:
36 31 0.14
37 155 0.68
38 41 0.18
39 2 0.01
ACGTcount: A:0.13, C:0.22, G:0.33, T:0.32
Consensus pattern (37 bp):
GTATTCGGGCTATGTGCCTAGCAGGCTTCGTGCCGGT
Found at i:21568307 original size:19 final size:18
Alignment explanation
Indices: 21568263--21568322 Score: 61
Period size: 17 Copynumber: 3.3 Consensus size: 18
21568253 AAAAGTGATC
*
21568263 AAAAAATCGAGAAAAA-A
1 AAAAAATAGAGAAAAATA
*
21568280 AGAAGAATATGAGAAAAATA
1 A-AAAAATA-GAGAAAAATA
*
21568300 AAAAAATA-AAAAAAATA
1 AAAAAATAGAGAAAAATA
21568317 AAAAAA
1 AAAAAA
21568323 ATATTCTGTG
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 15 0.42
18 5 0.14
19 14 0.39
20 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.10, T:0.10
Consensus pattern (18 bp):
AAAAAATAGAGAAAAATA
Found at i:21568310 original size:7 final size:8
Alignment explanation
Indices: 21568293--21568322 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
21568283 AGAATATGAG
21568293 AAAAATAA
1 AAAAATAA
21568301 AAAAATAAA
1 AAAAAT-AA
21568310 AAAAATAA
1 AAAAATAA
21568318 AAAAA
1 AAAAA
21568323 ATATTCTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAATAA
Found at i:21568314 original size:10 final size:9
Alignment explanation
Indices: 21568293--21568325 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
21568283 AGAATATGAG
21568293 AAAAAT-AA
1 AAAAATAAA
21568301 AAAAATAAA
1 AAAAATAAA
21568310 AAAAATAAA
1 AAAAATAAA
21568319 AAAAATA
1 AAAAATA
21568326 TTCTGTGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:21572384 original size:97 final size:97
Alignment explanation
Indices: 21572218--21572411 Score: 307
Period size: 97 Copynumber: 2.0 Consensus size: 97
21572208 AACCTTAGAA
*
21572218 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCACGCCTAGTAAGTTAACGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCACGCCTAGTAAGTTAACGCACAAATTTTCA
*
21572283 AAACCAAAGATAAAGAAACATTGCCTCGATTT
66 AAACCAAAGATAAAGAAACATTACCTCGATTT
* * *
21572315 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCTCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCACGCCTAGTAAGTTAACGCACAAATTTTCA
** * *
21572380 AAACCCGAGATAAAGGAATATTACCTCGATTT
66 AAACCAAAGATAAAGAAACATTACCTCGATTT
21572412 TAAATATATT
Statistics
Matches: 88, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
97 88 1.00
ACGTcount: A:0.38, C:0.18, G:0.17, T:0.27
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCACGCCTAGTAAGTTAACGCACAAATTTTCA
AAACCAAAGATAAAGAAACATTACCTCGATTT
Found at i:21572848 original size:29 final size:29
Alignment explanation
Indices: 21572768--21573010 Score: 187
Period size: 29 Copynumber: 8.4 Consensus size: 29
21572758 AAAGTGTGAT
* *
21572768 TTTTTGGAAATTCT-AGGGCAAAATGGTAA
1 TTTTTGGAAGTT-TGAGGGTAAAATGGTAA
* * *
21572797 -TTTTGGATGTTCGGGGGTAAAATGGTAA
1 TTTTTGGAAGTTTGAGGGTAAAATGGTAA
* * * *
21572825 TTTTTAGACGTTTGAGGGCAAAATGGTGA
1 TTTTTGGAAGTTTGAGGGTAAAATGGTAA
*
21572854 TTTTTGGATGTTTGAGGGTAAAATGGTAA
1 TTTTTGGAAGTTTGAGGGTAAAATGGTAA
* *
21572883 TTTTTGGAAGTTCGAGGG-AAAAT-GTGA
1 TTTTTGGAAGTTTGAGGGTAAAATGGTAA
** *
21572910 TTTTTGAGAAGTTTG-GGGTAAAA-CATGA
1 TTTTTG-GAAGTTTGAGGGTAAAATGGTAA
* * **
21572938 TTTTTGAAAGGTCAAGGGTCAAAAT-GTAA
1 TTTTTGGAAGTTTGAGGGT-AAAATGGTAA
* *
21572967 TTTTTGGAAAGTTTGGAGGTTAAAGT-GTAA
1 TTTTTGG-AAGTTT-GAGGGTAAAATGGTAA
21572997 TTTTTGGAAAGTTT
1 TTTTTGG-AAGTTT
21573011 AGCGGTTTTT
Statistics
Matches: 172, Mismatches: 32, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
27 16 0.09
28 51 0.30
29 75 0.44
30 26 0.15
31 4 0.02
ACGTcount: A:0.30, C:0.04, G:0.29, T:0.37
Consensus pattern (29 bp):
TTTTTGGAAGTTTGAGGGTAAAATGGTAA
Found at i:21573041 original size:79 final size:78
Alignment explanation
Indices: 21572938--21573090 Score: 243
Period size: 79 Copynumber: 1.9 Consensus size: 78
21572928 TAAAACATGA
* *
21572938 TTTTTGAAAGGTCAAGGGTCAAAATGTAATTTTTGGAAAGTTTGGAGGTTAAAGTGTAATTTTTG
1 TTTTTGAAAGGTCAAGGGTCAAAATGTAATTTTTGGAAAGTTTGGAGGTCAAAATGTAATTTTTG
21573003 GAAAGTTTAGCGG
66 GAAAGTTTAGCGG
* * * *
21573016 TTTTTGGAAAGTTTAAGGGTTAAAATGTAATTTTTGGAAAGTTTGGGGGTCAAAATGTAATTTTT
1 TTTTT-GAAAGGTCAAGGGTCAAAATGTAATTTTTGGAAAGTTTGGAGGTCAAAATGTAATTTTT
21573081 GGAAAGTTTA
65 GGAAAGTTTA
21573091 AGGGTTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
78 5 0.07
79 63 0.93
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (78 bp):
TTTTTGAAAGGTCAAGGGTCAAAATGTAATTTTTGGAAAGTTTGGAGGTCAAAATGTAATTTTTG
GAAAGTTTAGCGG
Found at i:21573052 original size:30 final size:30
Alignment explanation
Indices: 21573016--21573122 Score: 171
Period size: 30 Copynumber: 3.6 Consensus size: 30
21573006 AGTTTAGCGG
21573016 TTTTTGGAAAGTTTAAGGGTTAAAATGTAA
1 TTTTTGGAAAGTTTAAGGGTTAAAATGTAA
** *
21573046 TTTTTGGAAAGTTTGGGGGTCAAAATGTAA
1 TTTTTGGAAAGTTTAAGGGTTAAAATGTAA
21573076 TTTTTGGAAAGTTTAAGGGTTAAAATGTAA
1 TTTTTGGAAAGTTTAAGGGTTAAAATGTAA
21573106 TTTTTGGACAA-TTTAAG
1 TTTTTGGA-AAGTTTAAG
21573123 AACCTTTTAG
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
30 68 0.97
31 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.24, T:0.40
Consensus pattern (30 bp):
TTTTTGGAAAGTTTAAGGGTTAAAATGTAA
Found at i:21573831 original size:16 final size:17
Alignment explanation
Indices: 21573810--21573849 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
21573800 TGTTATTCCC
* *
21573810 TTTTATTTTTCAAA-TT
1 TTTTATTTTTAAAACTA
21573826 TTTTATTTTTAAAACTA
1 TTTTATTTTTAAAACTA
21573843 TTTTATT
1 TTTTATT
21573850 AATTTATATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTATTTTTAAAACTA
Found at i:21574938 original size:11 final size:10
Alignment explanation
Indices: 21574916--21574961 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
21574906 GGACATTATT
21574916 AATTTAAATA
1 AATTTAAATA
21574926 AATTTATAATA
1 AATTTA-AATA
21574937 AATTTAAAT-
1 AATTTAAATA
*
21574946 --TTCAAATA
1 AATTTAAATA
21574954 AATTTAAA
1 AATTTAAA
21574962 CTCTGTTGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 6 0.20
10 14 0.47
11 10 0.33
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAATA
Found at i:21574944 original size:17 final size:17
Alignment explanation
Indices: 21574924--21574961 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
21574914 TTAATTTAAA
21574924 TAAATTT-ATAATAAATT
1 TAAATTTCA-AATAAATT
21574941 TAAATTTCAAATAAATT
1 TAAATTTCAAATAAATT
21574958 TAAA
1 TAAA
21574962 CTCTGTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 19 0.95
18 1 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTTCAAATAAATT
Found at i:21575886 original size:210 final size:209
Alignment explanation
Indices: 21575380--21576064 Score: 921
Period size: 210 Copynumber: 3.3 Consensus size: 209
21575370 TTAATCGCAT
* * * * * * *
21575380 TTGATTCGGTCTACTTCTCTGTATCTCATCAGGGAGTTGATCGCCTCACTTGTTTTAATCTGCTT
1 TTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCGCTT
* * * * * *
21575445 C-CTTGTATCTTATCAGAAAGACAGATTTGATCCACTTCTCTGTATCTCATCAAGAAGACGACCA
66 CTC-TGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCG
* * *
21575509 TTTTATTACTTCGACCTGCTTCTCAGTA-CATCATCAGGAAGCTAGGGTTTGAAGTTTCGATCGC
130 TTTTATTGCTTCGACCTGCTTCTCAGTATC-TCATCAGGAAGCTAGGGTTTGAAGTTTTGATCAC
*
21575573 ATTGATCTTTGTTTCA
194 ATTGAGCTTTGTTTCA
** * *
21575589 TTGATTTGG-CATACTTCTTTGTATCTCATCAGGAAGATGACCGCATCACTTGTTTCAATTCGCT
1 TTGATTTGGTC-TACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCGCT
* * *
21575653 TCTCTGTATCTCATCAAGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGGCGATCG
65 TCTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCG
* * *
21575718 TTTTATTGCTTCGACTTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTTGAAGTTTTGCTCACA
130 TTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTTGAAGTTTTGATCACA
21575783 TCT-AGCTTTGGTTTCA
195 T-TGAGCTTT-GTTTCA
* *
21575799 TTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCATTTGTTTTGATCCGCTT
1 TTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCGCTT
* * *
21575864 CTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTTATTAGGAAGACGACCGC
66 CTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCGT
* * *
21575929 TTTATTGCTTCGACCTGCTTCTTAGTATCTCATCAGGAAGCTAGGGTTCGAAGTTTTGTTCACAT
131 TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTTGAAGTTTTGATCACAT
*
21575994 TGGGCCTTTGTTTCA
196 TGAG-CTTTGTTTCA
* * *
21576009 TTGATTTGGTATACTTCTCTA-TATCTCATCAGGAAGATGACCGCCTCATTTGTTTT
1 TTGATTTGGTCTACTTCTC-AGTATCTCATCAGGAAGATGACCGCATCACTTGTTTT
21576065 GGATAACTGC
Statistics
Matches: 422, Mismatches: 45, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
208 1 0.00
209 171 0.41
210 244 0.58
211 6 0.01
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (209 bp):
TTGATTTGGTCTACTTCTCAGTATCTCATCAGGAAGATGACCGCATCACTTGTTTTAATCCGCTT
CTCTGTATCTCATCAGGAAGACGGATTTGGTCCACTTCTCTGTATCTCATCAGGAAGACGACCGT
TTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTAGGGTTTGAAGTTTTGATCACAT
TGAGCTTTGTTTCA
Found at i:21575919 original size:37 final size:37
Alignment explanation
Indices: 21575852--21575923 Score: 108
Period size: 37 Copynumber: 1.9 Consensus size: 37
21575842 CATCATTTGT
*
21575852 TTTGATCCGCTTCTCTGTATCTCATCAGGAAGACGGA
1 TTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGA
* * *
21575889 TTTGGTCCACTTCTCTGTATCTTATTAGGAAGACG
1 TTTGATCCACTTCTCTGTATCTCATCAGGAAGACG
21575924 ACCGCTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (37 bp):
TTTGATCCACTTCTCTGTATCTCATCAGGAAGACGGA
Found at i:21578269 original size:3 final size:3
Alignment explanation
Indices: 21578261--21578300 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
21578251 AGTCATCTCT
21578261 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
21578301 GTTTTGATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:21587749 original size:97 final size:97
Alignment explanation
Indices: 21587577--21587770 Score: 282
Period size: 97 Copynumber: 2.0 Consensus size: 97
21587567 AACCTTAGAA
* *
21587577 AAGGGTATTCGATTATCCTGATTTGAAGAAAAGTCACGCCTAGTAAGTTAAGGCACAAATTTTCA
1 AAGGGTATTCGATTATCCAGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
*
21587642 AAACTAGAGATAAAGAAACATTGCCTCGATTT
66 AAACCAGAGATAAAGAAACATTGCCTCGATTT
* * *
21587674 AAGGGTATTCGATTATCCCAG-TTTGAAGAAAAATTACGCCTGGTAAGTTAAGGCACAAATTTTT
1 AAGGGTATTCGATTAT-CCAGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTC
* * * *
21587738 AGAACCCGAGATAAAGGAATATTGCCTCGATTT
65 AAAACCAGAGATAAAGAAACATTGCCTCGATTT
21587771 TAAATATTTT
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
97 83 0.97
98 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (97 bp):
AAGGGTATTCGATTATCCAGATTTGAAGAAAAATCACGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCAGAGATAAAGAAACATTGCCTCGATTT
Found at i:21588088 original size:30 final size:30
Alignment explanation
Indices: 21588038--21588111 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
21588028 GAAAATGTAA
* *
21588038 TTTTGGAAAGTTTAGGGATTAAAATCAAAG
1 TTTTGGAAAATTTAGGGATTAAAATCAAAC
* *
21588068 TTGTTGGAAAATTT-GGGATTAAAGTTAAAC
1 TT-TTGGAAAATTTAGGGATTAAAATCAAAC
21588098 TTTTGGAAAATTTA
1 TTTTGGAAAATTTA
21588112 AAGTCGAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 11 0.29
30 17 0.45
31 10 0.26
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.38
Consensus pattern (30 bp):
TTTTGGAAAATTTAGGGATTAAAATCAAAC
Found at i:21588178 original size:28 final size:27
Alignment explanation
Indices: 21588139--21588244 Score: 115
Period size: 28 Copynumber: 3.8 Consensus size: 27
21588129 TTTTGGAAAT
21588139 TCTAGGGCAAAATGGTAATTTTGGATG
1 TCTAGGGCAAAATGGTAATTTTGGATG
*
21588166 TCTAGGGGTAAAATGGTAATTTTTGGATG
1 TCTA-GGGCAAAATGGTAA-TTTTGGATG
* * *
21588195 TCCATGGCAAAATGGTGACTTTTGGATG
1 TCTAGGGCAAAATGGT-AATTTTGGATG
* *
21588223 T-TCGGGGTAAAATGGTAATTTT
1 TCT-AGGGCAAAATGGTAATTTT
21588245 TGAAAGTTCG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
27 9 0.14
28 43 0.66
29 13 0.20
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.36
Consensus pattern (27 bp):
TCTAGGGCAAAATGGTAATTTTGGATG
Found at i:21588339 original size:30 final size:30
Alignment explanation
Indices: 21588128--21588483 Score: 255
Period size: 30 Copynumber: 12.3 Consensus size: 30
21588118 AATGTGTGAT
*
21588128 TTTTTGGAAA-TTCTAGGG-CAAAATGGTAA
1 TTTTTGGAAAGTTCGAGGGTCAAAAT-GTAA
* *
21588157 -TTTTGG-ATG-TCTAGGGGT-AAAATGGTAA
1 TTTTTGGAAAGTTCGA-GGGTCAAAAT-GTAA
* * * *
21588185 TTTTTGG-ATG-TCCATGG-CAAAATGGTGA
1 TTTTTGGAAAGTTCGAGGGTCAAAAT-GTAA
* *
21588213 CTTTTGG-ATGTTCG-GGGT-AAAATGGTAA
1 TTTTTGGAAAGTTCGAGGGTCAAAAT-GTAA
* * *
21588241 TTTTT-GAAAGTTCGAGGGTAAAAATATGA
1 TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
* *
21588270 TTTTT-GAGAAGTT-TAGGGT-AAAATGTGA
1 TTTTTGGA-AAGTTCGAGGGTCAAAATGTAA
*
21588298 TATTT-GAAAGTTCGAGGGTCAAAATGTAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
* * *
21588327 TTTTTGGAAAGTTTGAAGGTCAAAGTGTAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
* *
21588357 TTTTTGGAAAGTT-TAGGGTCAAAGTGTAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
* * *
21588386 TTTTTGAAAAGTT-TAGAGGTTAAAATGTAA
1 TTTTTGGAAAGTTCGAG-GGTCAAAATGTAA
* * * *
21588416 TTTTTGGAAACTTTGGGGGTCAAAATATAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
* *
21588446 TTTTTGGAAAGTTCAAGGGTCAAAATATAA
1 TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
21588476 TTTTTGGA
1 TTTTTGGA
21588484 TAATTTAGGG
Statistics
Matches: 275, Mismatches: 36, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
27 11 0.04
28 79 0.29
29 73 0.27
30 111 0.40
31 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (30 bp):
TTTTTGGAAAGTTCGAGGGTCAAAATGTAA
Found at i:21588385 original size:59 final size:58
Alignment explanation
Indices: 21588231--21588493 Score: 257
Period size: 59 Copynumber: 4.5 Consensus size: 58
21588221 TGTTCGGGGT
* * * * *
21588231 AAAATGGTAATTTTT-GAAAGTTCGAGGGTAAAAATATGATTTTT-GAGAAGTTTAGGGT-
1 AAAAT-GTAATTTTTGGAAAGTT-TAGGGTCAAAATGTAATTTTTGGA-AAGTTTAAGGTC
* * *
21588289 AAAATGTGATATTT-GAAAGTTCGAGGGTCAAAATGTAATTTTTGGAAAGTTTGAAGGTC
1 AAAATGTAATTTTTGGAAAGTT-TAGGGTCAAAATGTAATTTTTGGAAAGTTT-AAGGTC
* * * *
21588348 AAAGTGTAATTTTTGGAAAGTTTAGGGTCAAAGTGTAATTTTTGAAAAGTTTAGAGGTT
1 AAAATGTAATTTTTGGAAAGTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTA-AGGTC
* * * *
21588407 AAAATGTAATTTTTGGAAACTTTGGGGGTCAAAATATAATTTTTGGAAAGTTCAAGGGTC
1 AAAATGTAATTTTTGGAAAGTTT-AGGGTCAAAATGTAATTTTTGGAAAGTTTAA-GGTC
*
21588467 AAAATATAATTTTTGGATAA-TTTAGGG
1 AAAATGTAATTTTTGGA-AAGTTTAGGG
21588494 ACCTTTTGGG
Statistics
Matches: 174, Mismatches: 23, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
57 39 0.22
58 12 0.07
59 67 0.39
60 54 0.31
61 2 0.01
ACGTcount: A:0.36, C:0.03, G:0.24, T:0.37
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAAGTTTAGGGTCAAAATGTAATTTTTGGAAAGTTTAAGGTC
Found at i:21589483 original size:12 final size:12
Alignment explanation
Indices: 21589468--21589516 Score: 57
Period size: 12 Copynumber: 4.2 Consensus size: 12
21589458 ATATTATAAA
21589468 TATTATATTTAT
1 TATTATATTTAT
21589480 TATTATATTTAT
1 TATTATATTTAT
*
21589492 GA--AGTATTTAT
1 TATTA-TATTTAT
*
21589503 TACTATATTTAT
1 TATTATATTTAT
21589515 TA
1 TA
21589517 AATACCATGA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 1 0.03
11 8 0.25
12 22 0.69
13 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.59
Consensus pattern (12 bp):
TATTATATTTAT
Found at i:21590218 original size:11 final size:10
Alignment explanation
Indices: 21590182--21590239 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
21590172 GGACATTATT
21590182 AATTTAAATA
1 AATTTAAATA
21590192 AATTTAAACTTA
1 AATTTAAA--TA
21590204 AATTTATAATA
1 AATTTA-AATA
21590215 AATTTAAAT-
1 AATTTAAATA
*
21590224 --TTCAAATA
1 AATTTAAATA
21590232 AATTTAAA
1 AATTTAAA
21590240 CTTAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 6 0.15
10 16 0.40
11 8 0.20
12 8 0.20
13 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
AATTTAAATA
Found at i:21590221 original size:17 final size:16
Alignment explanation
Indices: 21590196--21590258 Score: 81
Period size: 17 Copynumber: 3.8 Consensus size: 16
21590186 TAAATAAATT
*
21590196 TAAACTTAAATTTATAA
1 TAAATTTAAATTTA-AA
21590213 TAAATTTAAATTTCAAA
1 TAAATTTAAATTT-AAA
*
21590230 TAAATTTAAACTTAAAA
1 TAAATTTAAA-TTTAAA
21590247 TAAATTTAAATT
1 TAAATTTAAATT
21590259 CTGTTGGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
16 2 0.05
17 37 0.88
18 3 0.07
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
TAAATTTAAATTTAAA
Found at i:21590222 original size:6 final size:6
Alignment explanation
Indices: 21590182--21590258 Score: 60
Period size: 6 Copynumber: 13.7 Consensus size: 6
21590172 GGACATTATT
*
21590182 AATTTA AA--TA AATTTA AACTTA AATTTA TAA--TA AATTTA AATTTCA
1 AATTTA AATTTA AATTTA AATTTA AATTTA -AATTTA AATTTA AATTT-A
* *
21590228 AA--TA AATTTA AACTTA AA-ATA AATTTA AATT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATT
21590259 CTGTTGGGTC
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
4 9 0.16
5 7 0.12
6 36 0.63
7 5 0.09
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:21600882 original size:16 final size:16
Alignment explanation
Indices: 21600861--21600893 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21600851 GGTATTCTTA
21600861 TCTTTT-TTCTATTTAT
1 TCTTTTATT-TATTTAT
21600877 TCTTTTATTTATTTAT
1 TCTTTTATTTATTTAT
21600893 T
1 T
21600894 ATATGTCCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TCTTTTATTTATTTAT
Found at i:21610073 original size:13 final size:13
Alignment explanation
Indices: 21610055--21610084 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
21610045 GCATTACCTC
21610055 AAGACCCAACAAT
1 AAGACCCAACAAT
21610068 AAGACCCAACAAT
1 AAGACCCAACAAT
21610081 AAGA
1 AAGA
21610085 TCAAATGCCA
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:0.57, C:0.27, G:0.10, T:0.07
Consensus pattern (13 bp):
AAGACCCAACAAT
Done.