Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005203.1 Hibiscus syriacus cultivar Beakdansim tig00011761_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1490345
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:1825 original size:12 final size:12
Alignment explanation
Indices: 1808--1866 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
1798 GGTCGCAGAA
*
1808 GATGAAGCTGAC
1 GATGAAGATGAC
1820 GATGAAGATGAC
1 GATGAAGATGAC
*
1832 GATGATGATGAC
1 GATGAAGATGAC
*
1844 GATGAAGCTGAC
1 GATGAAGATGAC
*
1856 GTTGAAGATGA
1 GATGAAGATGA
1867 TGACGATGAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 41 1.00
ACGTcount: A:0.36, C:0.10, G:0.34, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1829 original size:6 final size:6
Alignment explanation
Indices: 1805--1896 Score: 58
Period size: 6 Copynumber: 15.3 Consensus size: 6
1795 AGCGGTCGCA
* * * * * *
1805 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * * * * *
1853 GACGTT GAAGAT GATGAC GATGAT GATGAT TATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1897 TGATCCAAAC
Statistics
Matches: 67, Mismatches: 19, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.37, C:0.08, G:0.33, T:0.23
Consensus pattern (6 bp):
GAAGAT
Found at i:1840 original size:3 final size:3
Alignment explanation
Indices: 1820--1900 Score: 63
Period size: 3 Copynumber: 27.0 Consensus size: 3
1810 TGAAGCTGAC
* * * * * * * *
1820 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GAC GTT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * *
1868 GAC GAT GAT GAT GAT TAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1901 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 22, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.36, C:0.06, G:0.32, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:1855 original size:36 final size:36
Alignment explanation
Indices: 1808--1878 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
1798 GGTCGCAGAA
*
1808 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* *
1844 GATGAAGCTGACGTTGAAGATGATGACGATGATGA
1 GATGAAGCTGACGATGAAGATGACGACGATGATGA
1879 TGATTATGAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.34, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:1877 original size:12 final size:12
Alignment explanation
Indices: 1816--1900 Score: 80
Period size: 12 Copynumber: 7.1 Consensus size: 12
1806 AAGATGAAGC
*
1816 TGACGATGAAGA
1 TGACGATGATGA
1828 TGACGATGATGA
1 TGACGATGATGA
* *
1840 TGACGATGAAGC
1 TGACGATGATGA
* *
1852 TGACGTTGAAGA
1 TGACGATGATGA
* *
1864 TGATGACGATGA
1 TGACGATGATGA
* *
1876 TGATGATTATGA
1 TGACGATGATGA
*
1888 TGAAGATGATGA
1 TGACGATGATGA
1900 T
1 T
1901 CCAAACAAGT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 60 1.00
ACGTcount: A:0.35, C:0.07, G:0.32, T:0.26
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:6152 original size:25 final size:25
Alignment explanation
Indices: 6124--6188 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
6114 TTATCATTAA
6124 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
6149 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
*
6174 ATTTAGGTATATACA
1 ATTTAGGTATGTACA
6189 TCTTTTGAGT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:6509 original size:21 final size:22
Alignment explanation
Indices: 6463--6509 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
6453 AAATTACATA
6463 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* * *
6485 -CTTTTTATAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
6505 ACTTT
1 ACTTT
6510 CAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:6579 original size:23 final size:21
Alignment explanation
Indices: 6531--6572 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
6521 GTAAAAATAG
6531 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
* *
6552 ATGTAATAGGTATCGTTTATA
1 ATGTAATAGGTAGCGCTTATA
6573 TAATGTAGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.38
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:7029 original size:23 final size:23
Alignment explanation
Indices: 7002--7069 Score: 109
Period size: 23 Copynumber: 3.0 Consensus size: 23
6992 AGGTAAAAAT
7002 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
7025 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
*
7048 ATGTAATAGGTAGTGCTTATAT
1 ATGTAATAGGTAGCGCTTATAT
7070 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:7094 original size:46 final size:45
Alignment explanation
Indices: 7002--7094 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 45
6992 AGGTAAAAAT
* *
7002 ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATAT-ATGTAATAGCTATCCTTTATATA
* * *
7048 ATGTAATAGGTAGTGCTTATAT-TGTAAAGTATCTATCCTTTTTATA
1 ATGTAATAGGTAGCGCTTATATATGT-AA-TAGCTATCCTTTATATA
7094 A
1 A
7095 AAGTGTCCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
44 3 0.08
45 2 0.05
46 35 0.88
ACGTcount: A:0.33, C:0.08, G:0.17, T:0.42
Consensus pattern (45 bp):
ATGTAATAGGTAGCGCTTATATATGTAATAGCTATCCTTTATATA
Found at i:7378 original size:475 final size:478
Alignment explanation
Indices: 6188--7696 Score: 2666
Period size: 476 Copynumber: 3.2 Consensus size: 478
6178 AGGTATATAC
6188 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
6253 GTTACGGTATATATTATTATTAAATTAAAAACAATAAAC--ATATATTACAT-TTATTATTATCT
66 GTTACGG--TATA-TATTATTAAATTAAAAACAATAAACATATATATTACATATT-TTATTATCT
6315 TTGGTTAATGTTGTTAAATTTAAATTCT-AATATTATTTTATAAAATATCAAAACAATCAAATAA
127 TTGGTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAA
6379 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAA
192 TTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAA
*
6444 TTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCCTTTTTATAAAAGTATGGACACTT
257 TTGAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAGTATGGACACTT
6509 TCAATATAATAGGTAAAAATAGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATAT
322 TCAATATAATAGGTAAAAAT-GATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATAT
6574 AATG---TAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
386 AATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTT
6636 TCACTGTGGAAAACATTAATTTAAGGTT
451 TCACTGTGGAAAACATTAATTTAAGGTT
6664 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTT--
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
6727 -TTACGTTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTATATTATCTTTG
66 GTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTT-TATTATCTTTG
*
6791 GTTAATGTTGTTAAATTTAAATTCAAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
130 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
6856 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAATT
195 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTT-AAAAATT
6921 GAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAGTATGGACACTTTC
259 GAAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAGTATGGACACTTTC
6986 -A-ATAATAGGTAAAAAT-ATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
324 AATATAATAGGTAAAAATGATGTAATAGGTAGCGC-T-TATAATGTAATAGGTATCGTTTATATA
7048 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
387 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
7113 CACTGTGGAAAACATTAATTTAAGGTT
452 CACTGTGGAAAACATTAATTTAAGGTT
*
7140 ATC-TTTGAGTGAGTTTTTAAGATATTAATTTAGTAATTATAGGCGTATAATGA-TT-TTTTTTA
1 ATCTTTTGAGTGAG-TTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTA
7202 CGTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTTATTATCTTTG
65 CGTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTTATTATCTTTG
*
7267 GTTAATGTTGTTAAATTGAAATTCTAAATATTA-TTTATAAAATATCAAAACAATCAAATAATTT
130 GTTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTT
*
7331 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTTGAAAACATGAAACACTGTTAAAAATTG
195 TTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAATTG
7396 AAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAAGTATGGACACTTTC
260 AAACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTAT-AAAAGTATGGACACTTTC
*
7461 AATATAATAGGTAAAAATATGATGTAATTGGTAGCGCTTATAATGTAATAGGTATCGTTTATATA
324 AATATAATAGGT-AAAA-ATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATATA
*
7526 ATGTAATAGGTA--GCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTCTCCATACTTTTTT
387 ATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTT
7589 CACTGTGGAAAAC-TTAATTTAAGGTT
452 CACTGTGGAAAACATTAATTTAAGGTT
7615 -TCTTTTGAGTGAGTTTT-AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
*
7678 GTTACGATATATATTATTA
66 GTTACGGTATATATTATTA
7697 TTAAATTAAA
Statistics
Matches: 997, Mismatches: 12, Indels: 49
0.94 0.01 0.05
Matches are distributed among these distances:
470 25 0.03
471 20 0.02
472 13 0.01
473 120 0.12
474 165 0.17
475 237 0.24
476 296 0.30
477 60 0.06
478 43 0.04
479 3 0.00
480 15 0.02
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (478 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGGTATATATTATTAAATTAAAAACAATAAACATATATATTACATATTTTATTATCTTTGG
TTAATGTTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTT
TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAATTGA
AACATAAATTACATAACTTTTAAAAAAAGTATCGATCATTTTTATAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATGATGTAATAGGTAGCGCTTATAATGTAATAGGTATCGTTTATATAATGT
AATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
GTGGAAAACATTAATTTAAGGTT
Found at i:7508 original size:21 final size:23
Alignment explanation
Indices: 7477--7539 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
7467 ATAGGTAAAA
* *
7477 ATATGATGTAATTGGTAGCG-CT
1 ATATAATGTAATAGGTAGCGTCT
* *
7499 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGTCT
7521 ATATAATGTAATAGGTAGC
1 ATATAATGTAATAGGTAGC
7540 TTATATTGTA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 16 0.47
22 1 0.03
23 17 0.50
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTCT
Found at i:7543 original size:21 final size:21
Alignment explanation
Indices: 7477--7545 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
7467 ATAGGTAAAA
* * *
7477 ATATGATGTAATTGGTAGCGCT
1 ATATAATGTAATAGGTAGC-TT
*
7499 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTA--GCTT
7521 ATATAATGTAATAGGTAGCTT
1 ATATAATGTAATAGGTAGCTT
7542 ATAT
1 ATAT
7546 TGTAAAGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 21 0.54
22 1 0.03
23 17 0.44
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (21 bp):
ATATAATGTAATAGGTAGCTT
Found at i:7922 original size:23 final size:23
Alignment explanation
Indices: 7896--7968 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
7886 AATAGGTAAA
*
7896 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
7919 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
7942 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
7965 ATAT
1 ATAT
7969 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:13178 original size:23 final size:23
Alignment explanation
Indices: 13147--13207 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 23
13137 AATGCATTGA
* *
13147 CAAACGTTAAACGAACATGTTCG
1 CAAATGTTAAACAAACATGTTCG
* *
13170 CAAATGTTAAGCAAACATGTTTG
1 CAAATGTTAAACAAACATGTTCG
* *
13193 CGAATGCTAAACAAA
1 CAAATGTTAAACAAA
13208 TCAAACACGA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.23
Consensus pattern (23 bp):
CAAATGTTAAACAAACATGTTCG
Found at i:13632 original size:3 final size:3
Alignment explanation
Indices: 13624--13721 Score: 180
Period size: 3 Copynumber: 32.7 Consensus size: 3
13614 TATACTAATT
13624 TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13671 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA
13717 TTA TT
1 TTA TT
13722 TATATATCAA
Statistics
Matches: 93, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.02
3 88 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:14162 original size:152 final size:150
Alignment explanation
Indices: 13984--14264 Score: 415
Period size: 151 Copynumber: 1.9 Consensus size: 150
13974 GTGGTTTAAA
* *
13984 TTTGGTAAAAAAAACGAACTTAAAATAAATGACAAATTGAATG-AATAAGGAGATTATGAAAAA-
1 TTTGGTAAAAAAAACGAACTTAAAATAAACGACAAATTG-AGGAAATAAGGAGATTATGAAAAAT
* * * *
14047 TGAATGACTAAATTGAAAAATGAAAAAAGTTT-TTATCAAAAAGAGGAATTGAAAGTACACATGT
65 TGAAGGACTAAATTAAAAAAT--AAAAA-TTTGTTACCAAAAAGAGGAATTGAAAGTAAACATGT
14111 ATTCCACTATGTTTTTTACTCAAG
127 ATTCCACTATGTTTTTTACTCAAG
* * *
14135 TTTGGTAAAAAAAATTGAACTTGAAATAAACGACGAATTGAGGAAATAAGGAGATTATGAAAAAT
1 TTTGGTAAAAAAAA-CGAACTTAAAATAAACGACAAATTGAGGAAATAAGGAGATTATGAAAAAT
14200 TGAAGGACTAAATTAAAAAATAAAAATTTGTTACCAAAAAGAGGAATTGAAAGTAAACATGTATT
65 TGAAGGACTAAATTAAAAAATAAAAATTTGTTACCAAAAAGAGGAATTGAAAGTAAACATGTATT
14265 ATACTATGAT
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
150 3 0.03
151 54 0.46
152 41 0.35
153 19 0.16
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (150 bp):
TTTGGTAAAAAAAACGAACTTAAAATAAACGACAAATTGAGGAAATAAGGAGATTATGAAAAATT
GAAGGACTAAATTAAAAAATAAAAATTTGTTACCAAAAAGAGGAATTGAAAGTAAACATGTATTC
CACTATGTTTTTTACTCAAG
Found at i:19355 original size:3 final size:3
Alignment explanation
Indices: 19347--19396 Score: 84
Period size: 3 Copynumber: 16.7 Consensus size: 3
19337 GGCCCGTTTG
19347 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
19392 TAA TA
1 TAA TA
19397 GTAAATGGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.04
3 40 0.89
4 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:19676 original size:122 final size:123
Alignment explanation
Indices: 19533--19819 Score: 327
Period size: 121 Copynumber: 2.4 Consensus size: 123
19523 ATGTTGAATA
* * * *
19533 AATTCTTCTCT-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCGCTG-GGGAGGATGTTGA
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCGCTGAAGGAGGATGCTAA
* * * ** *
19596 CCTATTTCCTTCTGTGATAGAGTCCTTTAAAA-GGTTGAATAAGCTCTTCTCATTATG
66 CCTATCTCCTTCTGTGATAGAATCATGCAAAAGGGTTGAACAAGCTCTTCTCATTATG
* * **
19653 AACTTCTTCTTTCTTCTTCAGATGAGTTTTTCTCATTATGAAC-TTTCTCTGAAAAGGTTGATGC
1 AA-TTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCGCTG--AAGGAGGATGC
* * * *
19717 TAATCTATCTCTTTCTGTGATAGAATTATGCAAAAGGGTTGAACAAGCTCTTCTCATTGTG
63 TAACCTATCTCCTTCTGTGATAGAATCATGCAAAAGGGTTGAACAAGCTCTTCTCATTATG
*
19778 AA--CTTC-TTCTTCTTCAGATGAGTTCTTCTAATTATGAACTTT
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT
19820 CTCTGGAAAA
Statistics
Matches: 140, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
120 2 0.01
121 46 0.33
122 35 0.25
124 32 0.23
125 25 0.18
ACGTcount: A:0.23, C:0.18, G:0.16, T:0.43
Consensus pattern (123 bp):
AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTCGCTGAAGGAGGATGCTAA
CCTATCTCCTTCTGTGATAGAATCATGCAAAAGGGTTGAACAAGCTCTTCTCATTATG
Found at i:19932 original size:115 final size:110
Alignment explanation
Indices: 19746--20192 Score: 535
Period size: 115 Copynumber: 4.0 Consensus size: 110
19736 ATAGAATTAT
** * *
19746 GCAAAAGGGTTGAACAAGCTCTTCTCATTGTGAA--CTTCTTCTTCTTCAGATGAGTTCTTCTAA
1 GCAAAA-GGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCTTCTTCAGATGAGTTCTTCTCA
* *
19809 TTATGAACTTTCTCTGGAAAAGTTGATCCATCAAGTGATGGATTTA
65 TTATGAACTTTATCTGGAAAAGTTGATCCATCAATTGATGGATTTA
19855 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACAAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTC-TTCTTCTTCAGATG---AGTTCTT
* * * *
19920 CTCATTATGAACTTTATCTGGCAATGTTGATCCATCAAATGATGAATTTA
61 CTCATTATGAACTTTATCTGGAAAAGTTGATCCATCAATTGATGGATTTA
*
19970 GCAAAAGGTTGAACAAATTCTTCTCATTAT-AAAT-TTCTTCTTCTTCAGATGACGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCTTCTTCAGAT---GAGTTCTTCT
* * * * *
20033 CATTATGAACTCTACCTGTCAATA-CTGATCCATCAATTGATGGATTTGA
63 CATTATGAACTTTATCTG-GAAAAGTTGATCCATCAATTGATGGATTT-A
* *
20082 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGAGTTCTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTT-CTTCTTCAGATGAGTTCTTCTC
** * * *
20147 ATTATGAACTCGAACTGGTAATGTTGATCCATCAATTGATGGATTT
64 ATTATGAACTTTATCTGGAAAAGTTGATCCATCAATTGATGGATTT
20193 GAATCTTTGC
Statistics
Matches: 292, Mismatches: 29, Indels: 30
0.83 0.08 0.09
Matches are distributed among these distances:
108 24 0.08
109 6 0.02
111 62 0.21
112 50 0.17
113 50 0.17
114 4 0.01
115 85 0.29
116 11 0.04
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (110 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTATCTGGAAAAGTTGATCCATCAATTGATGGATTTA
Found at i:21163 original size:93 final size:93
Alignment explanation
Indices: 20982--21269 Score: 488
Period size: 94 Copynumber: 3.1 Consensus size: 93
20972 CTTAATTCTA
* * *
20982 CTATGAGTACATTCATCTTTCAAATCCAATGATTGGTTCTTTGAGGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTT-TTTGAGGTTCATATCAAACCAGATCA
21047 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* *
21076 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTT-AGGGTTTATATTAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGA-GGTTCATATCAAACCAGATCA
21140 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
21169 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCCAAATTCAATGATTGG-TTTTTGAGGTTCATATCAAACCAGATCA
*
21234 GATAACTCAAAGAACACTTCTAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
21263 CTATGAG
1 CTATGAG
21270 TCTACGGCAC
Statistics
Matches: 183, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
92 1 0.01
93 87 0.48
94 94 0.51
95 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGAGGTTCATATCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:22243 original size:11 final size:11
Alignment explanation
Indices: 22224--22252 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
22214 TGACCCCCTT
22224 TTTTC-TTTTC
1 TTTTCTTTTTC
22234 TTTTCTTTTTC
1 TTTTCTTTTTC
22245 TTTTCTTT
1 TTTTCTTT
22253 CTTCATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:26454 original size:3 final size:3
Alignment explanation
Indices: 26446--26501 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
26436 GGCCCGTTTG
26446 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA
26491 TAA TAA TAA TA
1 TAA TAA TAA TA
26502 GTAAATGGAG
Statistics
Matches: 51, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.90
4 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:27035 original size:115 final size:111
Alignment explanation
Indices: 26851--27185 Score: 424
Period size: 115 Copynumber: 3.0 Consensus size: 111
26841 ACAGAATTAT
** * *
26851 GCAAAAGGGTTGAACAAGCTCTTCTCATTGTGAA--CTTC-TTCTTCTTCAGATGAGTTCTTCTA
1 GCAAAA-GGTTGAACAAATTCTTCTCATTATGAATTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
* * * *
26913 ATTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTA
65 ATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTTA
*
26960 GCAAAAGGTTGAACAAATTATTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACAAGTTCTT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTTCTTCTTCAGATG---AGTTCTT
* *
27025 CTCATTATGAACTTTATCTGGCAATGTTGATCCATCAAATGATGAATTTA
62 CTCATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTTA
* * *
27075 GCAAAAGGTTGAACAAATTCTTCTCACTATGAACTTCTTCTTCCTTCTTTAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTTCTTCTTCAGATGAGTTCTTCTC
** * * *
27140 ATTATGAACTCGAACTGGTAATGTTGATCCATCAATTGATGGATTT
65 ATTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTT
27186 GAATCTTTGC
Statistics
Matches: 197, Mismatches: 22, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
108 23 0.12
109 6 0.03
111 4 0.02
112 64 0.32
115 100 0.51
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (111 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTATCTGGAAATGTTGATCCATCAAATGATGGATTTA
Found at i:28134 original size:93 final size:93
Alignment explanation
Indices: 27965--28251 Score: 497
Period size: 94 Copynumber: 3.1 Consensus size: 93
27955 TTATTTCTAA
* *
27965 TATGAGTACATTCATCTTTCAAA-TCAAATGATTGGTTCTTTGAGGTTCATATCAAACCAGATCA
1 TATGAGCACATTCATCTTCCAAATTC-AATGATTGGTT-TTTGAGGTTCATATCAAACCAGATCA
28029 GATAACTCAAAGAACACTTCCAGAAGATGC
64 GATAACTCAAAGAACACTTCCAGAAGATGC
*
28059 TATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTT-AGGGTTCATATTAAACCAGATCAG
1 TATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGA-GGTTCATATCAAACCAGATCAG
28123 ATAACTCAAAGAACACTTCCAGAAGATGC
65 ATAACTCAAAGAACACTTCCAGAAGATGC
28152 TATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTTGAGGTTCATATCAAACCAGATCAG
1 TATGAGCACATTCATCTTCCAAATTCAATGATTGG-TTTTTGAGGTTCATATCAAACCAGATCAG
28217 ATAACTCAAAGAACACTTCCAGAAGATGC
65 ATAACTCAAAGAACACTTCCAGAAGATGC
28246 TATGAG
1 TATGAG
28252 TCTACGGAAC
Statistics
Matches: 185, Mismatches: 4, Indels: 8
0.94 0.02 0.04
Matches are distributed among these distances:
92 1 0.01
93 88 0.48
94 93 0.50
95 3 0.02
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (93 bp):
TATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTGAGGTTCATATCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATGC
Found at i:29224 original size:6 final size:6
Alignment explanation
Indices: 29208--29245 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
29198 TTGACCCCCT
29208 TTTTTC TTTTT- TCTTTTC TTTTTC TTTTTC -TTTTC TTT
1 TTTTTC TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTT
29246 CTTCAAGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 6 0.21
6 22 0.76
7 1 0.03
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:29226 original size:12 final size:12
Alignment explanation
Indices: 29209--29245 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
29199 TGACCCCCTT
29209 TTTTCTTTTTTC
1 TTTTCTTTTTTC
29221 TTTTC-TTTTTC
1 TTTTCTTTTTTC
*
29232 TTTT-TCTTTTC
1 TTTTCTTTTTTC
29243 TTT
1 TTT
29246 CTTCAAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
11 18 0.78
12 5 0.22
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:29229 original size:17 final size:17
Alignment explanation
Indices: 29208--29245 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
29198 TTGACCCCCT
29208 TTTTTCTTTTTTCTTTTC
1 TTTTTC-TTTTTCTTTTC
29226 TTTTTCTTTTTCTTTTC
1 TTTTTCTTTTTCTTTTC
29243 TTT
1 TTT
29246 CTTCAAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTCTTTTTCTTTTC
Found at i:40637 original size:14 final size:15
Alignment explanation
Indices: 40613--40645 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
40603 TATTGAAAAA
40613 TAAATAAATAAATAT
1 TAAATAAATAAATAT
40628 TAAA-AAATAAATA-
1 TAAATAAATAAATAT
40641 TAAAT
1 TAAAT
40646 TATTATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 4 0.24
14 9 0.53
15 4 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TAAATAAATAAATAT
Found at i:42050 original size:3 final size:3
Alignment explanation
Indices: 42042--42085 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
42032 GGCCCGTTTG
42042 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
42086 GTAAATGGAG
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.05
3 34 0.87
4 3 0.08
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:42074 original size:19 final size:19
Alignment explanation
Indices: 42042--42091 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
42032 GGCCCGTTTG
42042 TAATAATAAAATAATAATAA
1 TAATAAT-AAATAATAATAA
42062 TAATAATAAATAATAATAA
1 TAATAATAAATAATAATAA
*
42081 TAATAGTAAAT
1 TAATAATAAAT
42092 GGAGAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 22 0.76
20 7 0.24
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
TAATAATAAATAATAATAA
Found at i:47682 original size:21 final size:21
Alignment explanation
Indices: 47631--47683 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
47621 ATTATTACTA
47631 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
47652 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
47673 TCGCAATGCGA
1 TCGCAATGCGA
47684 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:47715 original size:20 final size:20
Alignment explanation
Indices: 47692--47847 Score: 145
Period size: 20 Copynumber: 7.7 Consensus size: 20
47682 GAATAAGTAA
*
47692 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
47712 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
47733 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
47753 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
47774 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
47794 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * *
47814 TTCGCAACGCAATTCTGACT
1 ATCGCAACGCGATACTGACT
* *
47834 TTCGCAACGAGATA
1 ATCGCAACGCGATA
47848 ATACAGAATC
Statistics
Matches: 113, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
19 4 0.04
20 76 0.67
21 29 0.26
22 4 0.04
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:47735 original size:41 final size:41
Alignment explanation
Indices: 47690--47867 Score: 225
Period size: 41 Copynumber: 4.4 Consensus size: 41
47680 GCGAATAAGT
47690 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
1 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
47731 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
1 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
* * **
47772 AAATCGCAACGCGATACTGACTTTCGCAACGCGATTCTGAC-
1 AAATCGCAATGCGATACTGACTATCGCAACGCGATAAT-ACA
** * * * * *
47813 -TTTCGCAACGCAATTCTGACTTTCGCAACGAGATAATACA
1 AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
*
47853 GAATCGCAATGCGAT
1 AAATCGCAATGCGAT
47868 TTTCAAAGTT
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 30 0.25
41 85 0.71
42 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (41 bp):
AAATCGCAATGCGATACTGACTATCGCAACGCGATAATACA
Found at i:47738 original size:21 final size:21
Alignment explanation
Indices: 47712--47787 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
47702 GATACTGACT
47712 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
* * *
47733 ATCGCAATGCGATACTGAC--T
1 ATCGCAACGCGATAAT-ACAAA
47753 ATCGCAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
47774 ATCGCAACGCGATA
1 ATCGCAACGCGATA
47788 CTGACTTTCG
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.04
20 14 0.30
21 28 0.61
22 2 0.04
ACGTcount: A:0.41, C:0.25, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:48624 original size:24 final size:24
Alignment explanation
Indices: 48586--48639 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
48576 GTATTCGAAA
*
48586 TTTGATCTTGATCAATACTCGGAC
1 TTTGATATTGATCAATACTCGGAC
* *
48610 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGATCAATACTCGGAC
48634 TTTGAT
1 TTTGAT
48640 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATATTGATCAATACTCGGAC
Found at i:51167 original size:20 final size:19
Alignment explanation
Indices: 51139--51193 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
51129 CAATCATCTT
*
51139 AATGTCTATCGCAACGCGGA
1 AATGACTATCGCAACGC-GA
*
51159 AATGACTATCGCAATGCGA
1 AATGACTATCGCAACGCGA
**
51178 AATGAAAATCGCAACG
1 AATGACTATCGCAACG
51194 AGAGAATCGC
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (19 bp):
AATGACTATCGCAACGCGA
Found at i:51203 original size:14 final size:14
Alignment explanation
Indices: 51184--51238 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
51174 GCGAAATGAA
51184 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
51198 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
51217 AATCGCAACGAGAG
1 AATCGCAACGAGAG
51231 AATCGCAA
1 AATCGCAA
51239 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:51208 original size:33 final size:33
Alignment explanation
Indices: 51166--51292 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
51156 GGAAATGACT
51166 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
51199 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
51232 ATCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
51265 ATCACAAAGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
51293 CGAATTTAGT
Statistics
Matches: 91, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 91 1.00
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:51255 original size:19 final size:19
Alignment explanation
Indices: 51146--51257 Score: 100
Period size: 19 Copynumber: 6.4 Consensus size: 19
51136 CTTAATGTCT
* **
51146 ATCGCAACGCGGAAATGACT
1 ATCGCAATGC-GAAATGAAA
51166 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
51185 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
51199 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
51218 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
51232 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
51251 ATCGCAA
1 ATCGCAA
51258 CGAGGGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 21
0.73 0.07 0.20
Matches are distributed among these distances:
14 20 0.27
15 2 0.03
16 4 0.05
17 4 0.05
18 2 0.03
19 34 0.45
20 9 0.12
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:51295 original size:19 final size:18
Alignment explanation
Indices: 51146--51296 Score: 92
Period size: 19 Copynumber: 8.7 Consensus size: 18
51136 CTTAATGTCT
**
51146 ATCGCAACGCGGAAATGACT
1 ATCGCAA-GC-GAAATGAAA
51166 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
51185 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
51199 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
*
51218 ATCGCAA-CG--A-GAGA
1 ATCGCAAGCGAAATGAAA
51232 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCGAAATGAAA
**
51251 ATCGCAA-CG--A-GGGA
1 ATCGCAAGCGAAATGAAA
*
51265 ATCACAAAGCGAAATGAAA
1 ATCGC-AAGCGAAATGAAA
51284 ATCGCAACGCGAA
1 ATCGCAA-GCGAA
51297 TTTAGTTTCG
Statistics
Matches: 102, Mismatches: 13, Indels: 33
0.69 0.09 0.22
Matches are distributed among these distances:
14 26 0.25
15 5 0.05
16 6 0.06
17 6 0.06
18 5 0.05
19 45 0.44
20 9 0.09
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.12
Consensus pattern (18 bp):
ATCGCAAGCGAAATGAAA
Found at i:51344 original size:33 final size:33
Alignment explanation
Indices: 51302--51381 Score: 133
Period size: 33 Copynumber: 2.4 Consensus size: 33
51292 GCGAATTTAG
* *
51302 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
51335 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
*
51368 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
51382 AGTCATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 44 1.00
ACGTcount: A:0.10, C:0.21, G:0.23, T:0.46
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
Found at i:51345 original size:19 final size:19
Alignment explanation
Indices: 51321--51381 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
51311 GCGATTTTGT
51321 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
51340 CGTTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
51354 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
51373 CATTGCGAT
1 CGTTGCGAT
51382 AGTCATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 10
0.72 0.06 0.21
Matches are distributed among these distances:
14 10 0.29
16 3 0.09
17 3 0.09
19 18 0.53
ACGTcount: A:0.11, C:0.23, G:0.21, T:0.44
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:51507 original size:14 final size:14
Alignment explanation
Indices: 51488--51524 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
51478 CATCAATTAA
51488 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
51502 ACAAATCATCTTTT
1 ACAAATCAACTTTT
51516 ACAAATCAA
1 ACAAATCAA
51525 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:52918 original size:21 final size:21
Alignment explanation
Indices: 52889--52969 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
52879 GAATGGTGGG
*
52889 AGGGACCTCTTCAACGATGAT
1 AGGGGCCTCTTCAACGATGAT
* * *
52910 AGTGGCCTCTTGAACGGT-AT
1 AGGGGCCTCTTCAACGATGAT
* * *
52930 GAGGGGACTC-TCGAGGAATGAT
1 -AGGGGCCTCTTCAACG-ATGAT
52952 AGGGGCCTCTTCAACGAT
1 AGGGGCCTCTTCAACGAT
52970 AGGAGTGGAC
Statistics
Matches: 43, Mismatches: 13, Indels: 8
0.67 0.20 0.12
Matches are distributed among these distances:
20 5 0.12
21 32 0.74
22 6 0.14
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (21 bp):
AGGGGCCTCTTCAACGATGAT
Found at i:52951 original size:42 final size:42
Alignment explanation
Indices: 52905--52992 Score: 113
Period size: 42 Copynumber: 2.1 Consensus size: 42
52895 CTCTTCAACG
* * * *
52905 ATGATAGTGGCCTCTTGAACGGTATGAGGGGACTCTCGAGGA
1 ATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGGA
* * *
52947 ATGATAGGGGCCTCTTCAACGATAGGAGTGGACTCTTGAGGG
1 ATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGGA
52989 ATGA
1 ATGA
52993 CAGGCGAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (42 bp):
ATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGGA
Found at i:53309 original size:94 final size:91
Alignment explanation
Indices: 53184--53408 Score: 373
Period size: 94 Copynumber: 2.5 Consensus size: 91
53174 CAAAGACAAA
53184 ACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAAC-AAAG
1 ACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAAG
53248 ACAAATACTAACTTCACAGTGTTAAAGAAT
66 ACAAATACTAACTTCACAGTGTT----AAT
*
53278 ACACAATTTAGCAGAATTGGCAGCAACCGAATAAATTTAC-TTCAACCAAAAGACAAAACAAAAG
1 ACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAAG
53342 ACAAATACTAACTTCACAGTGTTAAT
66 ACAAATACTAACTTCACAGTGTTAAT
* *
53368 AAACAGTTTAGCAGTATTGGCAGCAACCGAATAAATTTACT
1 ACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
53409 AAGAAATCTA
Statistics
Matches: 125, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
90 40 0.32
93 19 0.15
94 66 0.53
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (91 bp):
ACACAGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACTTTCAACCAAAAGACAAAACAAAAG
ACAAATACTAACTTCACAGTGTTAAT
Found at i:55207 original size:20 final size:20
Alignment explanation
Indices: 55182--55436 Score: 153
Period size: 20 Copynumber: 12.6 Consensus size: 20
55172 GCTATGTAAA
55182 TCGCATTGCGATAGTTA-G-AT
1 TCGCATTGCGAT--TTACGTAT
55202 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* *
55222 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATTTACGT-AT
* *
55243 TCGCATTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
* * *
55263 TCGCGTTGCGATTTACTTAA
1 TCGCATTGCGATTTACGTAT
*
55283 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
* * * *
55303 TCGCATTGCGAATTATGAAAA
1 TCGCATTGCGATTTACG-TAT
** * *
55324 TCGCAACGCGA-ATACGTAAA
1 TCGCATTGCGATTTACGT-AT
* * * *
55344 TCGCAATGCGAATTAGGAAAAT
1 TCGCATTGCGATTTACG--TAT
*
55366 T-GCATTGCGATAGT-CAGTA-
1 TCGCATTGCGAT-TTAC-GTAT
* **
55385 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
*
55406 TCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTACGTAT
55426 TCGCATTGCGA
1 TCGCATTGCGA
55437 ATTGGGAAAA
Statistics
Matches: 187, Mismatches: 34, Indels: 28
0.75 0.14 0.11
Matches are distributed among these distances:
18 3 0.02
19 2 0.01
20 126 0.67
21 52 0.28
22 4 0.02
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:55252 original size:41 final size:41
Alignment explanation
Indices: 55200--55436 Score: 189
Period size: 41 Copynumber: 5.8 Consensus size: 41
55190 CGATAGTTAG
*
55200 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
* * * * **
55241 ATTCGCATTGCGATTTACTTAATCGCGTTGCGATTTACTTA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
* * *
55282 A-TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GAA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCG-ATTTTCCAA
* ** * * * ****
55322 AATCGCAACGCGA-ATACGTAAATCGCAATGCGAATTAGGAAA
1 ATTCGCATTGCGATTTACGT-ATTCGCATTGCG-ATTTTCCAA
*
55364 ATT-GCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGAT-TTAC-GTATTCGCATTGCGATTTTCCAA
*
55404 ATTCGCATTGCGATTTACTTATTCGCATTGCGA
1 ATTCGCATTGCGATTTACGTATTCGCATTGCGA
55437 ATTGGGAAAA
Statistics
Matches: 154, Mismatches: 32, Indels: 20
0.75 0.16 0.10
Matches are distributed among these distances:
40 44 0.29
41 101 0.66
42 6 0.04
43 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (41 bp):
ATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCAA
Found at i:55346 original size:81 final size:82
Alignment explanation
Indices: 55177--55354 Score: 186
Period size: 81 Copynumber: 2.2 Consensus size: 82
55167 ATGGCGCTAT
* * *
55177 GTAAATCGCATTGCGATAGTTAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAA
1 GTAAATCGCATTGCGATACTTAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAA
* ** *
55242 TTCGCATTGCGATTTAC
66 ATCGCAACGCGATATAC
* * * *
55259 -TTAATCGCGTTGCGATTTACTTA-A-TCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-G
1 GTAAATCGCATTGCGA--TACTTAGATTCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCC
55320 AAAATCGCAACGCGA-ATAC
63 AAAATCGCAACGCGATATAC
*
55339 GTAAATCGCAATGCGA
1 GTAAATCGCATTGCGA
55355 ATTAGGAAAA
Statistics
Matches: 78, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
80 3 0.04
81 65 0.83
82 5 0.06
83 5 0.06
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (82 bp):
GTAAATCGCATTGCGATACTTAGATTCGCATTGCGATTTACGTATTCGCATTGCGATTATCCAAA
ATCGCAACGCGATATAC
Found at i:55374 original size:21 final size:21
Alignment explanation
Indices: 55303--55375 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
55293 ATTTACGTAT
* *
55303 TCGCATTGCGAATTATGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
55324 TCGCAACGCGAA-TACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
55344 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
* *
55365 TTGCATTGCGA
1 TCGCAATGCGA
55376 TAGTCAGTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 17 0.40
21 25 0.60
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:55478 original size:21 final size:22
Alignment explanation
Indices: 55429--55478 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
55419 TACTTATTCG
*
55429 CATTGCG-AATTGGGAAAATCG
1 CATTGCGAAATTGGGAAAATCA
**
55450 CAACGCGAAATT-GGAAAATCA
1 CATTGCGAAATTGGGAAAATCA
55471 CATTGCGA
1 CATTGCGA
55479 TAGTAATAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (22 bp):
CATTGCGAAATTGGGAAAATCA
Found at i:59231 original size:31 final size:31
Alignment explanation
Indices: 59196--59270 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
59186 TTGATTTAGG
* *
59196 GTTAAATTGATATTTTGTATAAAGTTTAAAA
1 GTTAAATTAATATTTTATATAAAGTTTAAAA
* *
59227 GTTAAATTAATATTTTATGTAAAGTTTAAGA
1 GTTAAATTAATATTTTATATAAAGTTTAAAA
*
59258 -TCAAATTAATATT
1 GTTAAATTAATATT
59271 CTAACTAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 12 0.31
31 27 0.69
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.45
Consensus pattern (31 bp):
GTTAAATTAATATTTTATATAAAGTTTAAAA
Found at i:62957 original size:8 final size:8
Alignment explanation
Indices: 62944--62968 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
62934 TTACACACAC
62944 AACCACTT
1 AACCACTT
62952 AACCACTT
1 AACCACTT
62960 AACCACTT
1 AACCACTT
62968 A
1 A
62969 CCATTCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.36, G:0.00, T:0.24
Consensus pattern (8 bp):
AACCACTT
Found at i:64843 original size:2 final size:2
Alignment explanation
Indices: 64836--64864 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
64826 ACTTATTTGA
64836 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64865 TGTTCTACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:64855 original size:15 final size:15
Alignment explanation
Indices: 64835--64864 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
64825 TACTTATTTG
64835 AATATATATATATAT
1 AATATATATATATAT
64850 AATATATATATATAT
1 AATATATATATATAT
64865 TGTTCTACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AATATATATATATAT
Found at i:64856 original size:13 final size:13
Alignment explanation
Indices: 64838--64863 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
64828 TTATTTGAAT
64838 ATATATATATATA
1 ATATATATATATA
64851 ATATATATATATA
1 ATATATATATATA
64864 TTGTTCTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
ATATATATATATA
Found at i:67683 original size:16 final size:16
Alignment explanation
Indices: 67662--67703 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
67652 CGTAACAGTA
67662 ATTATTATATAATAAT-
1 ATTATTATATAA-AATC
*
67678 ATTATTATTTAAAATC
1 ATTATTATATAAAATC
*
67694 ATTGTTATAT
1 ATTATTATAT
67704 GATCGTGATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTATTATATAAAATC
Found at i:70648 original size:29 final size:29
Alignment explanation
Indices: 70615--70705 Score: 173
Period size: 29 Copynumber: 3.1 Consensus size: 29
70605 TTCTACAGTA
*
70615 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGCCATGGCATCCGAGCG
70644 ACCTTGGAGGTCGCCATGGCATCCGAGCG
1 ACCTTGGAGGTCGCCATGGCATCCGAGCG
70673 ACCTTGGAGGTCGCCATGGCATCCGAGCG
1 ACCTTGGAGGTCGCCATGGCATCCGAGCG
70702 ACCT
1 ACCT
70706 GTGTGTATTT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 61 1.00
ACGTcount: A:0.16, C:0.32, G:0.34, T:0.18
Consensus pattern (29 bp):
ACCTTGGAGGTCGCCATGGCATCCGAGCG
Found at i:71341 original size:21 final size:21
Alignment explanation
Indices: 71316--71359 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
71306 AATCTAGTTA
71316 ATTAGTTTGTTAGTATAAATT
1 ATTAGTTTGTTAGTATAAATT
* *
71337 ATTAGTTTGTTAGTTTAAGTT
1 ATTAGTTTGTTAGTATAAATT
71358 AT
1 AT
71360 ATTATATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
ATTAGTTTGTTAGTATAAATT
Found at i:71369 original size:28 final size:28
Alignment explanation
Indices: 71336--71389 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
71326 TAGTATAAAT
*
71336 TATTAGTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTATTAGTTTAAGTTATATTA
71364 TATTAGTTTATTAGTTTAAGTTATAT
1 TATTAGTTTATTAGTTTAAGTTATAT
71390 ATTATATATA
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:0.30, C:0.00, G:0.13, T:0.57
Consensus pattern (28 bp):
TATTAGTTTATTAGTTTAAGTTATATTA
Found at i:71466 original size:41 final size:44
Alignment explanation
Indices: 71358--71466 Score: 134
Period size: 47 Copynumber: 2.5 Consensus size: 44
71348 AGTTTAAGTT
71358 ATATTATATTAGTTTATTAGTTTAAGTTATATATTATATATAAAAA
1 ATATTA-ATTAGTTTATTAGTTTAAGTTATATA-TATATATAAAAA
*
71404 ATTAGTTAATTAGTTTCTTAGTTTAAGTTAT-TA-A-ATATAAAAA
1 A-TA-TTAATTAGTTTATTAGTTTAAGTTATATATATATATAAAAA
* *
71447 ATATTAATTAATTTGTTAGT
1 ATATTAATTAGTTTATTAGT
71467 GTCTTTAAAC
Statistics
Matches: 58, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
41 15 0.26
42 2 0.03
43 10 0.17
44 1 0.02
46 3 0.05
47 24 0.41
48 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.08, T:0.50
Consensus pattern (44 bp):
ATATTAATTAGTTTATTAGTTTAAGTTATATATATATATAAAAA
Found at i:71944 original size:20 final size:21
Alignment explanation
Indices: 71900--71944 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
71890 AAATATTGTG
**
71900 TTTAAAAATATTTAGTGTTGT
1 TTTAAAAATATTTAGTGTTAA
*
71921 TTTAAAAATATTTTGT-TTAA
1 TTTAAAAATATTTAGTGTTAA
71941 TTTA
1 TTTA
71945 CATTGTATGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.56
Consensus pattern (21 bp):
TTTAAAAATATTTAGTGTTAA
Found at i:72234 original size:26 final size:25
Alignment explanation
Indices: 72205--72263 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
72195 AAATCATATT
*
72205 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
72231 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
72257 ATTATTA
1 ATTATTA
72264 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Found at i:75174 original size:26 final size:26
Alignment explanation
Indices: 75145--75717 Score: 468
Period size: 26 Copynumber: 23.2 Consensus size: 26
75135 TTTGATGATT
75145 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
75171 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
75197 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
* * * * *
75223 TA-AAATGATTTAATAATGATTA-AA
1 TAGTAATGATTTGATAATAATCATTA
* *
75247 TATTTAATGATTTG------ATGATT-
1 TA-GTAATGATTTGATAATAATCATTA
75267 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
75293 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
75319 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
75345 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
75367 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
75391 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
75417 TAGTAATAATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
75443 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
75469 TAATAATGATTT-AGTAATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
75495 TAAAAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
75517 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
75541 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
75567 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
75593 TA-TAATGATTTAATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* *
75618 TA-AAATGA-TT--TAATAATGATT-
1 TAGTAATGATTTGATAATAATCATTA
* * * *
75639 TA--AAT-ATTTAATGATTTGATGATT-
1 TAGTAATGATTTGAT-A-ATAATCATTA
75663 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
75689 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
75714 TAGT
1 TAGT
75718 TATTATTTAG
Statistics
Matches: 462, Mismatches: 44, Indels: 83
0.78 0.07 0.14
Matches are distributed among these distances:
19 13 0.03
20 20 0.04
21 2 0.00
22 17 0.04
23 23 0.05
24 32 0.07
25 77 0.17
26 260 0.56
27 18 0.04
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.44
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:75462 original size:124 final size:124
Alignment explanation
Indices: 75090--75709 Score: 760
Period size: 122 Copynumber: 5.0 Consensus size: 124
75080 ATGTATTTAT
75090 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
75155 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
75214 TAATCATTAT-AAAATGATTTAATAATGA-TTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
75277 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
75336 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
* *
75401 TTGATAATAATCATTATAGTAATAATTTGATAATAATCATTATAGTAATGATTT-GATAA
66 TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAG-TAA
* *
75460 TAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTAAT-A----ATGATTTA-
1 TAATCATTATAAAAATGA-TT--TAATAATGATT-T--AAAT-ATTTAATGATTTGATGATTTAG
* * * * *
75519 -AAT-ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTATAGTAATGATTT-G
59 TAATGATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAG
75580 ATAA
122 -TAA
* * * * ** *
75584 TAATCATTAT-ATAATGATTTAATAAT-A-ATCATTATAAAATGATTTAATAATGATTTA--AAT
1 TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGA-TT--TGATGATTTAGTAAT
* * * *
75644 -ATTTAATGATTTGATGATT-TAGTAATGATTTGATAATAATCATTATAATAATGATTTTA-TAA
63 GATTTGAT-A-ATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGA-TTTAGTAA
75706 TAAT
1 TAAT
75710 TATTTAGTTA
Statistics
Matches: 459, Mismatches: 15, Indels: 46
0.88 0.03 0.09
Matches are distributed among these distances:
114 5 0.01
115 3 0.01
117 1 0.00
119 1 0.00
120 7 0.02
122 177 0.39
123 53 0.12
124 173 0.38
125 8 0.02
126 8 0.02
127 10 0.02
128 1 0.00
130 5 0.01
131 7 0.02
ACGTcount: A:0.44, C:0.02, G:0.10, T:0.44
Consensus pattern (124 bp):
TAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGAT
TTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAA
Found at i:75468 original size:150 final size:150
Alignment explanation
Indices: 75145--75634 Score: 719
Period size: 150 Copynumber: 3.3 Consensus size: 150
75135 TTTGATGATT
* *
75145 TAGTAATGATTTGATAATAATCATTATAGTAATGATTT-GATAATAATCATTATAATAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAG-TAATAATCATTATAAAAATGATTT
* * * * ** * * * * * *
75209 AGTAAT-A-ATCATTATAAAATGATTTAATAATGATTA--AAT-ATTTAATGATTTGATGATT-T
65 AATAATGATTTAAATATTTAATGATTTGATGAT--TTAGTAATGATTTGAT-A-ATAATCATTAT
75268 AGTAATGATTTGATAATAATCATTA
126 AGTAATGATTTGATAATAATCATTA
75293 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
75358 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAA
66 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAA
*
75423 TAATTTGATAATAATCATTA
131 TGATTTGATAATAATCATTA
75443 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
75508 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAA
66 ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAA
75573 TGATTTGATAATAATCATTA
131 TGATTTGATAATAATCATTA
* *
75593 TA-TAATGATTTAATAATAATCATTATAA-AATGATTTAATAAT
1 TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAAT
75635 GATTTAAATA
Statistics
Matches: 317, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
148 81 0.26
149 33 0.10
150 197 0.62
151 6 0.02
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (150 bp):
TAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAATCATTATAAAAATGATTTA
ATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAA
TGATTTGATAATAATCATTA
Found at i:75625 original size:272 final size:272
Alignment explanation
Indices: 75145--75750 Score: 1071
Period size: 272 Copynumber: 2.2 Consensus size: 272
75135 TTTGATGATT
75145 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
75210 GTAATAATCATTATAAAATGATTTAATAATGATTAAATATTTAATGATTTGATGATTTAGTAATG
66 GTAATAATCATTATAAAATGATTTAATAATGATTAAATATTTAATGATTTGATGATTTAGTAATG
*
75275 ATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAGTAATAAT
131 ATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATAAT
75340 CATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGA
196 CATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGA
75405 TAATAATCATTA
261 TAATAATCATTA
*
75417 TAGTAATAATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
75482 GTAATAATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAA
66 GTAATAATCATTAT-AAAATGATTTAATAATGA-TTAAATATTTAATGATTTGATGATTTAGTAA
75547 TGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTAT-ATAATGATTTAATAATA
129 TGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATA
75611 ATCATTAT-AAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTT
194 ATCATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTT
75675 GATAATAATCATTA
259 GATAATAATCATTA
* * * * * *
75689 TAATAATGATTTTATAATAATTATT-TAGTTATTATTT-AGTAATTAT--TTATAATAATGATTT
1 TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGA-TAATAATCATTATAATAATGATTT
75750 A
65 A
75751 ATACTAATGA
Statistics
Matches: 322, Mismatches: 9, Indels: 9
0.95 0.03 0.03
Matches are distributed among these distances:
269 16 0.05
270 1 0.00
271 16 0.05
272 169 0.52
273 42 0.13
274 78 0.24
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (272 bp):
TAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTA
GTAATAATCATTATAAAATGATTTAATAATGATTAAATATTTAATGATTTGATGATTTAGTAATG
ATTTGATAATAATCATTATAGTAATGATTTGATAATAATCATTATAATAATGATTTAATAATAAT
CATTATAAAAATGATTTAATAATGATTTAAATATTTAATGATTTGATGATTTAGTAATGATTTGA
TAATAATCATTA
Found at i:75738 original size:35 final size:37
Alignment explanation
Indices: 75270--75785 Score: 119
Period size: 37 Copynumber: 13.8 Consensus size: 37
75260 GATGATTTAG
* * * * *
75270 TAATGATTTGATAATAATCATTATAGTAATGATTTGATAA
1 TAATGATTTAATAATTAT--TTATAATAATTATTTAAT-A
* * *
75310 TAATCATTATAATAATGATTTAGTAATAATCATTATAA-A
1 TAATGATT-TAATAATTATTTA-TAATAATTATT-TAATA
* * * * *
75349 -AATGATTTAATAATGATTTA-AATATTTA-ATGATT
1 TAATGATTTAATAATTATTTATAATAATTATTTAATA
* * * *
75383 TGATGATTTAGTAATGATTTGATAATAATCA-TT-ATA
1 TAATGATTTAATAATTATTT-ATAATAATTATTTAATA
* * * * * *
75419 GTAATAATTTGATAATAATCATTATAGTAATGATTTGATAA
1 -TAATGATTTAATAATTAT--TTATAATAATTATTTAAT-A
* * *
75460 TAATCATTATAATAATGATTTAGTAATAATCATTATAA-A
1 TAATGATT-TAATAATTATTTA-TAATAATTATT-TAATA
* * * * *
75499 -AATGATTTAATAATGATTTA-AATATTTA-ATGATT
1 TAATGATTTAATAATTATTTATAATAATTATTTAATA
* * * *
75533 TGATGATTTAGTAATGATTTGATAATAATCA-TT-ATA
1 TAATGATTTAATAATTATTT-ATAATAATTATTTAATA
* * *
75569 GTAATGATTTGATAATAATCATTAT-ATAATGATTTAATAA
1 -TAATGATTTAATAATTAT--TTATAATAATTATTTAAT-A
* * *
75609 TAATCATTATAA-AATGA-TT-TAATAATGATTTAAATA
1 TAATGATT-TAATAATTATTTATAATAATTATTT-AATA
* * * *
75645 TTTAATGA-TT--TGATGATTTAGTAATGATT-TGATAATAA
1 --TAATGATTTAATAATTATTTA-TAATAATTAT-TTAAT-A
* * * * *
75683 TCATTATAATAATGA-T-TTTATAATAATTATTTAGT-
1 TAATGAT-TTAATAATTATTTATAATAATTATTTAATA
* * *
75718 T-ATTATTTAGTAATTATTTATAATAATGATTTAATA
1 TAATGATTTAATAATTATTTATAATAATTATTTAATA
75754 CTAATGATTTAATAATTA-TTACTAATAATTAT
1 -TAATGATTTAATAATTATTTA-TAATAATTAT
75786 AGAATACTAA
Statistics
Matches: 357, Mismatches: 71, Indels: 98
0.68 0.13 0.19
Matches are distributed among these distances:
33 8 0.02
34 6 0.02
35 69 0.19
36 26 0.07
37 95 0.27
38 65 0.18
39 27 0.08
40 40 0.11
41 21 0.06
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.45
Consensus pattern (37 bp):
TAATGATTTAATAATTATTTATAATAATTATTTAATA
Found at i:75760 original size:14 final size:14
Alignment explanation
Indices: 75148--75769 Score: 201
Period size: 14 Copynumber: 46.1 Consensus size: 14
75138 GATGATTTAG
*
75148 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
75162 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
75174 TAATGATTTGATAA
1 TAATGATTTAATAA
*
75188 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
75200 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
75214 TAATCA-TT-ATAA
1 TAATGATTTAATAA
75226 -AATGA-TT--TAA
1 TAATGATTTAATAA
* *
75236 TAATGATTAAATATT
1 TAATGATTTAATA-A
*
75251 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
75270 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
75284 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
75296 TAATGATTTGATAA
1 TAATGATTTAATAA
*
75310 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
75322 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
75336 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
75348 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
75359 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
75375 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
75394 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
75408 TAATCA-TT-ATAG
1 TAATGATTTAATAA
* *
75420 TAATAATTTGATAA
1 TAATGATTTAATAA
* *
75434 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
75446 TAATGATTTGATAA
1 TAATGATTTAATAA
*
75460 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
75472 TAATGATTTAGTAA
1 TAATGATTTAATAA
*
75486 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
75498 AAATGA-TT--TAA
1 TAATGATTTAATAA
*
75509 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
75525 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
75544 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
75558 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
75570 TAATGATTTGATAA
1 TAATGATTTAATAA
*
75584 TAATCA-TT-AT-A
1 TAATGATTTAATAA
75595 TAATGATTTAATAA
1 TAATGATTTAATAA
*
75609 TAATCA-TT-ATAA
1 TAATGATTTAATAA
75621 -AATGA-TT--TAA
1 TAATGATTTAATAA
*
75631 TAATGATTTAAATATT
1 TAATGATTT-AATA-A
*
75647 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
75666 TAATGATTTGATAA
1 TAATGATTTAATAA
*
75680 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
75692 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
75706 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
75718 T-ATTATTTAGTAA
1 TAATGATTTAATAA
75731 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
75741 TAATGATTTAATAC
1 TAATGATTTAATAA
75755 TAATGATTTAATAA
1 TAATGATTTAATAA
75769 T
1 T
75770 TATTACTAAT
Statistics
Matches: 468, Mismatches: 75, Indels: 130
0.70 0.11 0.19
Matches are distributed among these distances:
10 10 0.02
11 58 0.12
12 115 0.25
13 53 0.11
14 135 0.29
15 14 0.03
16 35 0.07
18 4 0.01
19 36 0.08
20 8 0.02
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:75792 original size:38 final size:38
Alignment explanation
Indices: 75722--75795 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
75712 TTTAGTTATT
* **
75722 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
75760 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
75796 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:76002 original size:17 final size:17
Alignment explanation
Indices: 75977--76009 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
75967 ACTAAATATT
*
75977 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
75994 TAATGATTTGATACTA
1 TAATGATTTGATACTA
76010 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:76002 original size:25 final size:23
Alignment explanation
Indices: 75923--76002 Score: 67
Period size: 24 Copynumber: 3.3 Consensus size: 23
75913 GATTTATTGT
75923 TAATATTTAATTATTTGATAC--
1 TAATATTTAATTATTTGATACTA
* *
75944 TAATGATTTAAAATAGTTGATTTACTA
1 TAAT-ATTT-AATTATTTGA--TACTA
75971 -AATATTTAATTATTTGATACTA
1 TAATATTTAATTATTTGATACTA
75993 GTAATGATTT
1 -TAAT-ATTT
76003 GATACTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
21 4 0.09
22 9 0.20
23 8 0.17
24 11 0.24
25 11 0.24
26 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.49
Consensus pattern (23 bp):
TAATATTTAATTATTTGATACTA
Found at i:78176 original size:15 final size:14
Alignment explanation
Indices: 78153--78183 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
78143 TACAACACTA
78153 AACTTTAATATAAT
1 AACTTTAATATAAT
78167 AACTTATAATATAAT
1 AACTT-TAATATAAT
78182 AA
1 AA
78184 ACTAATAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (14 bp):
AACTTTAATATAAT
Found at i:78189 original size:8 final size:8
Alignment explanation
Indices: 78178--78212 Score: 61
Period size: 8 Copynumber: 4.4 Consensus size: 8
78168 ACTTATAATA
78178 TAATAAAC
1 TAATAAAC
78186 TAATAAAC
1 TAATAAAC
78194 TAATAAAC
1 TAATAAAC
*
78202 TAACAAAC
1 TAATAAAC
78210 TAA
1 TAA
78213 ACTTTTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.63, C:0.14, G:0.00, T:0.23
Consensus pattern (8 bp):
TAATAAAC
Found at i:78191 original size:16 final size:16
Alignment explanation
Indices: 78158--78204 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
78148 CACTAAACTT
*
78158 TAATATAAT-AACTTA
1 TAATATAATAAACTAA
78173 TAATATAATAAACTAA
1 TAATATAATAAACTAA
78189 TAA-ACTAATAAACTAA
1 TAATA-TAATAAACTAA
78205 CAAACTAAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 10 0.34
16 19 0.66
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.32
Consensus pattern (16 bp):
TAATATAATAAACTAA
Found at i:78333 original size:32 final size:34
Alignment explanation
Indices: 78253--78334 Score: 93
Period size: 34 Copynumber: 2.5 Consensus size: 34
78243 CTAAACCCTT
*
78253 AAAC-AACTAATAAAATATTCTTTTATATAACTA
1 AAACTAACTAATAAACTATTCTTTTATATAACTA
78286 AAACTAACTAATAAACTATT-TTTTCATTATAA-T-
1 AAACTAACTAATAAACTATTCTTTT-A-TATAACTA
*
78319 ATACT-ACTAATAAACT
1 AAACTAACTAATAAACT
78335 TACTAACTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
32 11 0.25
33 12 0.27
34 16 0.36
35 5 0.11
ACGTcount: A:0.49, C:0.13, G:0.00, T:0.38
Consensus pattern (34 bp):
AAACTAACTAATAAACTATTCTTTTATATAACTA
Found at i:78466 original size:43 final size:47
Alignment explanation
Indices: 78375--78475 Score: 138
Period size: 43 Copynumber: 2.2 Consensus size: 47
78365 CAACAAACAA
* *
78375 ATATAACTTAACTATTTAACTAACACAAACTAATTAAATAATTTTTTTT
1 ATATAAC-TAACTATTTAACTAAAACAAACTAATTAAAT-ATATTTTTT
78424 ATATAACTAACTA-TTAAC-AAAACAAACTAATT-AAT-TATTTTTT
1 ATATAACTAACTATTTAACTAAAACAAACTAATTAAATATATTTTTT
78467 ATATAACTA
1 ATATAACTA
78476 TCAAACATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
43 16 0.32
45 3 0.06
46 13 0.26
47 5 0.10
48 6 0.12
49 7 0.14
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.41
Consensus pattern (47 bp):
ATATAACTAACTATTTAACTAAAACAAACTAATTAAATATATTTTTT
Found at i:78688 original size:23 final size:23
Alignment explanation
Indices: 78658--78703 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
78648 TCTTTCTCGG
78658 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
78681 CTGCAATCTCTTCTCCCTTTCTT
1 CTGCAATCTCTTCTCCCTTTCTT
78704 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.09, C:0.39, G:0.04, T:0.48
Consensus pattern (23 bp):
CTGCAATCTCTTCTCCCTTTCTT
Found at i:78879 original size:27 final size:27
Alignment explanation
Indices: 78849--78904 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
78839 AATAATTCAC
78849 GGCTCAAATGGTTCACATGCATGCATT
1 GGCTCAAATGGTTCACATGCATGCATT
78876 GGCTCAAATGGTTCACATGCATGCATT
1 GGCTCAAATGGTTCACATGCATGCATT
78903 GG
1 GG
78905 GAGCTGTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (27 bp):
GGCTCAAATGGTTCACATGCATGCATT
Found at i:79012 original size:29 final size:29
Alignment explanation
Indices: 78980--79059 Score: 126
Period size: 29 Copynumber: 2.8 Consensus size: 29
78970 ATGGGAATGG
78980 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
79009 CGCCGGGACTACATGGCGACCTACAAGGT
1 CGCCGGGACTACATGGCGACCTACAAGGT
* *
79038 CGCCTAGG-CTGCATGGCGACCT
1 CGCC-GGGACTACATGGCGACCT
79060 CTCTATTGGC
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
29 46 0.96
30 2 0.04
ACGTcount: A:0.21, C:0.33, G:0.31, T:0.15
Consensus pattern (29 bp):
CGCCGGGACTACATGGCGACCTACAAGGT
Found at i:79110 original size:28 final size:28
Alignment explanation
Indices: 79078--79134 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
79068 GCTCGTACGA
* *
79078 CTCGTCTAAGCCTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
79106 CTCGTATAAGACTGCATGGCGACCTCTC
1 CTCGTATAAGACTGCATGGCGACCTCTC
79134 C
1 C
79135 ATTGGCTCGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.37, G:0.21, T:0.25
Consensus pattern (28 bp):
CTCGTATAAGACTGCATGGCGACCTCTC
Found at i:79151 original size:9 final size:9
Alignment explanation
Indices: 79137--79176 Score: 53
Period size: 9 Copynumber: 4.2 Consensus size: 9
79127 ACCTCTCCAT
79137 TGGCTCGTA
1 TGGCTCGTA
79146 TGGCTCGTATA
1 TGGCTCG--TA
*
79157 TGGCTTGTA
1 TGGCTCGTA
79166 TGGCTCGTA
1 TGGCTCGTA
79175 TG
1 TG
79177 TCACCCCGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
9 19 0.70
11 8 0.30
ACGTcount: A:0.12, C:0.17, G:0.33, T:0.38
Consensus pattern (9 bp):
TGGCTCGTA
Found at i:79166 original size:20 final size:20
Alignment explanation
Indices: 79137--79175 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
79127 ACCTCTCCAT
79137 TGGCTCGTATGGCTCGTATA
1 TGGCTCGTATGGCTCGTATA
*
79157 TGGCTTGTATGGCTCGTAT
1 TGGCTCGTATGGCTCGTAT
79176 GTCACCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.31, T:0.38
Consensus pattern (20 bp):
TGGCTCGTATGGCTCGTATA
Found at i:80482 original size:13 final size:13
Alignment explanation
Indices: 80460--80494 Score: 61
Period size: 13 Copynumber: 2.6 Consensus size: 13
80450 TGACTGGACT
80460 TGAAGACTCTAAAA
1 TGAAG-CTCTAAAA
80474 TGAAGCTCTAAAA
1 TGAAGCTCTAAAA
80487 TGAAGCTC
1 TGAAGCTC
80495 GACTCGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 16 0.76
14 5 0.24
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (13 bp):
TGAAGCTCTAAAA
Found at i:82491 original size:83 final size:83
Alignment explanation
Indices: 82352--82514 Score: 263
Period size: 83 Copynumber: 2.0 Consensus size: 83
82342 GAGTGGTAAC
* *
82352 ATGCATAAATGTATGAGTTAGCCCGCATATGAACGTTTAAATTACTTAGATTCAAGAATATTTTC
1 ATGCATAAATGTATGAGTTAGCCCGCATATGAACATTTAAATTACTTAGATTCAAGAATATTTTA
* *
82417 AAGTTAAGAAGAAGAAGA
66 AAATGAAGAAGAAGAAGA
* * *
82435 ATGCATAAATGTATGAGTTAGCCGGCATATGAACATTTAAGTTACTTAGATTCAAGAATCTTTTA
1 ATGCATAAATGTATGAGTTAGCCCGCATATGAACATTTAAATTACTTAGATTCAAGAATATTTTA
82500 AAATGAAGAAGAAGA
66 AAATGAAGAAGAAGA
82515 CTCTATGTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
83 73 1.00
ACGTcount: A:0.41, C:0.10, G:0.18, T:0.30
Consensus pattern (83 bp):
ATGCATAAATGTATGAGTTAGCCCGCATATGAACATTTAAATTACTTAGATTCAAGAATATTTTA
AAATGAAGAAGAAGAAGA
Found at i:85011 original size:15 final size:15
Alignment explanation
Indices: 84991--85022 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84981 CTTTGCTTTT
84991 AAATATTAAGAACCA
1 AAATATTAAGAACCA
*
85006 AAATATTACGAACCA
1 AAATATTAAGAACCA
85021 AA
1 AA
85023 CGATTTTGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.59, C:0.16, G:0.06, T:0.19
Consensus pattern (15 bp):
AAATATTAAGAACCA
Found at i:86068 original size:12 final size:12
Alignment explanation
Indices: 86028--86074 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
86018 CACAAACAAT
*
86028 CTCATTTATTGA
1 CTCATTTATTAA
86040 CTCATTTA-TAA
1 CTCATTTATTAA
86051 CCTCATTTATTAA
1 -CTCATTTATTAA
*
86064 ATCATTT-TTAA
1 CTCATTTATTAA
86075 GCGTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
11 6 0.19
12 22 0.71
13 3 0.10
ACGTcount: A:0.32, C:0.17, G:0.02, T:0.49
Consensus pattern (12 bp):
CTCATTTATTAA
Found at i:91460 original size:16 final size:16
Alignment explanation
Indices: 91439--91469 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
91429 ATATAGAGCC
91439 TTTGAATCATTCAGCA
1 TTTGAATCATTCAGCA
91455 TTTGAATCATTCAGC
1 TTTGAATCATTCAGC
91470 GCTTAATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.39
Consensus pattern (16 bp):
TTTGAATCATTCAGCA
Found at i:91479 original size:15 final size:16
Alignment explanation
Indices: 91440--91481 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
91430 TATAGAGCCT
*
91440 TTGAATCATTCAGCAT
1 TTGAATCATTCAGCAC
*
91456 TTGAATCATTCAGCGC
1 TTGAATCATTCAGCAC
91472 TT-AATCATTC
1 TTGAATCATTC
91482 TGAAGTAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 8 0.33
16 16 0.67
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (16 bp):
TTGAATCATTCAGCAC
Found at i:94838 original size:115 final size:115
Alignment explanation
Indices: 94621--94838 Score: 355
Period size: 115 Copynumber: 1.9 Consensus size: 115
94611 TATACATAAA
* * *
94621 TAAGATATTTACTTATTCAGAAATATCAGAAAAGAGCTTCTAGGTGCTTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
*** *
94686 TTTGATATTAAAAAATAAATAAATATTTAAAATATTTTATTTTGATATAG
66 TTTGATATTAAAAAATAAATAAATAACCAAAACATTTTATTTTGATATAG
*
94736 TAAGATATTTATTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
1 TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
*
94801 TTTGATATTGAAAAATAAATAAATAACCAAAACATTTT
66 TTTGATATTAAAAAATAAATAAATAACCAAAACATTTT
94839 CTTAAAATAA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
115 94 1.00
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.38
Consensus pattern (115 bp):
TAAGATATTTACTTATTCAAAAATATCAGAAAAGAGCTTCTAGGTACCTTAAGACAGCTCTTTTC
TTTGATATTAAAAAATAAATAAATAACCAAAACATTTTATTTTGATATAG
Found at i:94960 original size:23 final size:22
Alignment explanation
Indices: 94936--94980 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
94926 CTTCGATATT
94936 AATAAATATTAATATAATAATTTA
1 AATAAA-ATTAA-ATAATAATTTA
*
94960 AATAAAATTAAATTATAATTT
1 AATAAAATTAAATAATAATTT
94981 TTCATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 9 0.45
23 5 0.25
24 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AATAAAATTAAATAATAATTTA
Found at i:100637 original size:22 final size:23
Alignment explanation
Indices: 100612--100667 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
100602 TTATTTTAAA
*
100612 TTAAGTTAATAGTAAAATATA-T
1 TTAAGTTAATAATAAAATATATT
100634 TTAA--TAAGTTAATAAAATATATT
1 TTAAGTTAA--TAATAAAATATATT
100657 TTAAGTTAATA
1 TTAAGTTAATA
100668 TATATAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
20 3 0.11
22 15 0.54
23 7 0.25
25 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (23 bp):
TTAAGTTAATAATAAAATATATT
Found at i:100661 original size:20 final size:21
Alignment explanation
Indices: 100624--100667 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
100614 AAGTTAATAG
100624 TAAAATATATTTAATAAGTTAA
1 TAAAATATATTT-ATAAGTTAA
100646 TAAAATATATTT-TAAGTTAA
1 TAAAATATATTTATAAGTTAA
100666 TA
1 TA
100668 TATATAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
22 12 0.55
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TAAAATATATTTATAAGTTAA
Found at i:101235 original size:13 final size:13
Alignment explanation
Indices: 101217--101248 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
101207 GTCATAAATC
*
101217 TATGACGCGCATT
1 TATGACGCGCATG
101230 TATGACGCGCATG
1 TATGACGCGCATG
101243 TATGAC
1 TATGAC
101249 TTACATTGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (13 bp):
TATGACGCGCATG
Found at i:101370 original size:85 final size:85
Alignment explanation
Indices: 101227--101523 Score: 497
Period size: 85 Copynumber: 3.5 Consensus size: 85
101217 TATGACGCGC
*
101227 ATTTATGACGCGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
101292 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
*
101312 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAAGATGA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
101377 CACACATTTGTGCGTCATAA
66 CACACATTTGTGCGTCATAA
* **
101397 ATTTATGACACGCATGTATGACTAACATTGCGCGTCATTGAAGCCCCCGTCATAAATCTGCT-TG
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAAT-TAATATG
* *
101461 ACATACATTTGTGTGTCATAA
65 ACACACATTTGTGCGTCATAA
* *
101482 ATTTATGACACGCATATATGACTTACATTGCGTGTCATTGAA
1 ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAA
101524 ACACACATCA
Statistics
Matches: 200, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
85 199 1.00
86 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.31
Consensus pattern (85 bp):
ATTTATGACACGCATGTATGACTTACATTGCGCGTCATTGAAGCCCCCGTCATAAATTAATATGA
CACACATTTGTGCGTCATAA
Found at i:101589 original size:2 final size:2
Alignment explanation
Indices: 101582--101610 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
101572 TTTCAGAAAT
101582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
101611 TGACATAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:101913 original size:2 final size:2
Alignment explanation
Indices: 101900--101969 Score: 97
Period size: 2 Copynumber: 35.0 Consensus size: 2
101890 TGCATGCTCC
* * *
101900 AT AT AG AT AT AT AT AT A- AGT AC AA AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT
101942 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
101970 GTAGAATGAC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
1 1 0.02
2 59 0.97
3 1 0.02
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:111542 original size:14 final size:14
Alignment explanation
Indices: 111465--111553 Score: 51
Period size: 14 Copynumber: 6.2 Consensus size: 14
111455 TTTTTCTAAG
111465 TTTTA-ATTTTAATT
1 TTTTATATTTT-ATT
*
111479 TTTTATATTATA-T
1 TTTTATATTTTATT
* *
111492 TATAATATTTATATAT
1 TTTTATATTT-TAT-T
*
111508 ATTTTATAGTATTA-T
1 -TTTTATA-TTTTATT
*
111523 TATTAT-TTTTAGTT
1 TTTTATATTTTA-TT
111537 TTTTATATTTTATT
1 TTTTATATTTTATT
111551 TTT
1 TTT
111554 ACATACATGT
Statistics
Matches: 56, Mismatches: 10, Indels: 18
0.67 0.12 0.21
Matches are distributed among these distances:
12 4 0.07
13 8 0.14
14 24 0.43
15 10 0.18
16 1 0.02
17 7 0.12
18 2 0.04
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (14 bp):
TTTTATATTTTATT
Found at i:111621 original size:13 final size:13
Alignment explanation
Indices: 111605--111688 Score: 52
Period size: 13 Copynumber: 6.6 Consensus size: 13
111595 ATTTATATGT
111605 TATATTATATATA
1 TATATTATATATA
* *
111618 TATATTATTTCT-
1 TATATTATATATA
*
111630 TAATATT-T-T-TC
1 T-ATATTATATATA
* *
111641 TAT-TTTTATTTA
1 TATATTATATATA
*
111653 TATGTTATATATA
1 TATATTATATATA
111666 TTATATATATATATA
1 -TATAT-TATATATA
111681 TATATTAT
1 TATATTAT
111689 TTTTTAATAT
Statistics
Matches: 57, Mismatches: 6, Indels: 16
0.72 0.08 0.20
Matches are distributed among these distances:
9 2 0.04
10 4 0.07
11 3 0.05
12 6 0.11
13 25 0.44
14 9 0.16
15 8 0.14
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (13 bp):
TATATTATATATA
Found at i:111663 original size:9 final size:9
Alignment explanation
Indices: 111647--111688 Score: 59
Period size: 9 Copynumber: 4.7 Consensus size: 9
111637 TTTCTATTTT
111647 TATT-TATA
1 TATTATATA
*
111655 TGTTATATA
1 TATTATATA
111664 TATTATATA
1 TATTATATA
111673 TATATATATA
1 TAT-TATATA
111683 TATTAT
1 TATTAT
111689 TTTTTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
8 3 0.10
9 18 0.60
10 9 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (9 bp):
TATTATATA
Found at i:111690 original size:53 final size:52
Alignment explanation
Indices: 111577--111694 Score: 159
Period size: 53 Copynumber: 2.2 Consensus size: 52
111567 ATTAGTATTT
* *
111577 TATTATTTATTTATTTTTATTTATATGTTATATTATATATATATATTATTTCT
1 TATTATTT-TTTATTTTTATTTATATGTTATATTATATATATATATTATATCA
*
111630 TAATATTTTTCTATTTTTATTTATATGTTATA-TATATTATATATATATATAT-A
1 TATTATTTTT-TATTTTTATTTATATGTTATATTATA-TATATATAT-TATATCA
111683 TATTATTTTTTA
1 TATTATTTTTTA
111695 ATATTTTTCT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
52 8 0.14
53 46 0.79
54 4 0.07
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (52 bp):
TATTATTTTTTATTTTTATTTATATGTTATATTATATATATATATTATATCA
Found at i:111698 original size:19 final size:19
Alignment explanation
Indices: 111605--111688 Score: 64
Period size: 19 Copynumber: 4.4 Consensus size: 19
111595 ATTTATATGT
111605 TATATTATATATATATATTA
1 TATATTATATATATATA-TA
* * * * *
111625 TTTCTTA-ATATTTTTCTA
1 TATATTATATATATATATA
* * *
111643 T-TTTTATTTATATGTTATA
1 TATATTATATATAT-ATATA
111662 TATATTATATATATATATA
1 TATATTATATATATATATA
111681 TATATTAT
1 TATATTAT
111689 TTTTTAATAT
Statistics
Matches: 49, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
17 4 0.08
18 7 0.14
19 23 0.47
20 15 0.31
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (19 bp):
TATATTATATATATATATA
Found at i:111734 original size:63 final size:63
Alignment explanation
Indices: 111598--111742 Score: 197
Period size: 63 Copynumber: 2.3 Consensus size: 63
111588 TATTTTTATT
* * * * *
111598 TATATGTTATAT-TATATATATATATTATTTCTTAATATTTTTCTATTTTTATTTATATGTTA
1 TATATATTATATATATATATATATATTATTTCTTAATATTTTTCTATTTTTATCTACAAGCTA
*
111660 TATATATTATATATATATATATATATTATTTTTTAATATTTTTCTATTTTTTAGTCTACAAGCTA
1 TATATATTATATATATATATATATATTATTTCTTAATATTTTTCTA-TTTTTA-TCTACAAGCTA
111725 -ATATA-TATATATATATAT
1 TATATATTATATATATATAT
111743 TATCTTCTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
62 11 0.15
63 45 0.61
64 11 0.15
65 7 0.09
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (63 bp):
TATATATTATATATATATATATATATTATTTCTTAATATTTTTCTATTTTTATCTACAAGCTA
Found at i:111775 original size:4 final size:4
Alignment explanation
Indices: 111766--111869 Score: 79
Period size: 4 Copynumber: 24.8 Consensus size: 4
111756 CTCGTTTTTG
* *
111766 TTTA TTTA TTTTA TTTCTA TTTT TTTA TTTA TTGA TTTA TTT- TTTCA
1 TTTA TTTA -TTTA -TT-TA TTTA TTTA TTTA TTTA TTTA TTTA TTT-A
* *
111813 TAT- TTTA TTTA TTTA TCTTTG TTTA TTTA TTTA TATTA TTCTA TTT-
1 TTTA TTTA TTTA TTTA --TTTA TTTA TTTA TTTA T-TTA TT-TA TTTA
111859 TTTA TTTA TTT
1 TTTA TTTA TTT
111870 TTATTAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
3 8 0.10
4 50 0.61
5 19 0.23
6 5 0.06
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:111798 original size:18 final size:17
Alignment explanation
Indices: 111770--111870 Score: 66
Period size: 18 Copynumber: 5.7 Consensus size: 17
111760 TTTTTGTTTA
111770 TTTATTTTATTTCTATTTT
1 TTTA-TTTATTT-TATTTT
*
111789 TTTATTTA-TTGATTTAT
1 TTTATTTATTTTATTT-T
*
111806 TTT-TTCATATTTTATTTA
1 TTTATT--TATTTTATTTT
*
111824 TTTATCTT-TGTTTATTTA
1 TTTAT-TTAT-TTTATTTT
*
111842 TTTATATTATTCTA-TTT
1 TTTAT-TTATTTTATTTT
111859 TTTATTTATTTT
1 TTTATTTATTTT
111871 TATTAATTTC
Statistics
Matches: 67, Mismatches: 7, Indels: 19
0.72 0.08 0.20
Matches are distributed among these distances:
16 12 0.18
17 14 0.21
18 28 0.42
19 12 0.18
20 1 0.01
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTTATTTT
Found at i:111798 original size:27 final size:26
Alignment explanation
Indices: 111760--111871 Score: 86
Period size: 27 Copynumber: 4.1 Consensus size: 26
111750 TTTTCTCTCG
*
111760 TTTTTGTTTATTTATTTTATTTCTATT
1 TTTTTATTTATTTATTTTATTT-TATT
*
111787 TTTTTATTTATTGA-TTTATTTT-TT
1 TTTTTATTTATTTATTTTATTTTATT
*
111811 CATATTTTATTTATTTATCTTT-GTTTATT
1 --T-TTTTATTTATTTAT-TTTATTTTATT
* *
111840 TATTTATATTATTCTATTTTTTATTTATT
1 TTTTTAT-TTATT-TATTTTAT-TTTATT
111869 TTT
1 TTT
111872 ATTAATTTCA
Statistics
Matches: 68, Mismatches: 7, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
24 2 0.03
25 1 0.01
26 13 0.19
27 33 0.49
28 6 0.09
29 13 0.19
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTTATTTATTTATTTTATTTTATT
Found at i:111822 original size:41 final size:44
Alignment explanation
Indices: 111772--111869 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 44
111762 TTTGTTTATT
*
111772 TATTTTATTTCTATTT-T-TTTATTTATTGATTTAT-TTTTTC-A
1 TATTTTATTT-TATTTATCTTTATTTATTGATTTATATTATTCTA
* *
111813 TATTTTA-TTTATTTATCTTTGTTTATTTATTTATATTATTCTA
1 TATTTTATTTTATTTATCTTTATTTATTGATTTATATTATTCTA
*
111856 TTTTTTA-TTTATTT
1 TATTTTATTTTATTT
111870 TTATTAATTT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 5 0.10
40 3 0.06
41 22 0.45
42 5 0.10
43 14 0.29
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (44 bp):
TATTTTATTTTATTTATCTTTATTTATTGATTTATATTATTCTA
Found at i:111959 original size:18 final size:19
Alignment explanation
Indices: 111938--111981 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
111928 TTTTATCTAT
*
111938 TGTTATTTA-TTTATTTTC
1 TGTTATTTATTTTACTTTC
*
111956 TGTTCTTTATTTTACTTTC
1 TGTTATTTATTTTACTTTC
111975 T-TTATTT
1 TGTTATTT
111982 TCAATTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (19 bp):
TGTTATTTATTTTACTTTC
Found at i:111964 original size:14 final size:13
Alignment explanation
Indices: 111947--111983 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
111937 TTGTTATTTA
111947 TTTATTTTCTGTTC
1 TTTATTTTCT-TTC
111961 TTTATTTTACTTTC
1 TTTATTTT-CTTTC
111975 TTTATTTTC
1 TTTATTTTC
111984 AATTTATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.86
15 2 0.09
ACGTcount: A:0.11, C:0.14, G:0.03, T:0.73
Consensus pattern (13 bp):
TTTATTTTCTTTC
Found at i:121877 original size:71 final size:70
Alignment explanation
Indices: 121793--121928 Score: 184
Period size: 71 Copynumber: 1.9 Consensus size: 70
121783 AATACTTTGC
* * * * *
121793 TTAGGGTGAAAACCCAAAAGGGCGTCCTAAGTCGAAGAAGAAA-AAAAAGAACAAAAAACATAAA
1 TTAGGGTGAAAACCCAAAAGGGCATCCTAAAT-GAAAAAAAAAGAAAAAGAA-AAAAAAAATAAA
121857 AAAATGT
64 AAAATGT
* *
121864 TTAGGGTGAAAACCCGAAAGGGCATCCTAAATTAAAAAAAAAGAAAAAGAAAAAAAAAATAAAAA
1 TTAGGGTGAAAACCCAAAAGGGCATCCTAAATGAAAAAAAAAGAAAAAGAAAAAAAAAATAAAAA
121929 TTAGGTGGGT
Statistics
Matches: 57, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
70 20 0.35
71 37 0.65
ACGTcount: A:0.59, C:0.11, G:0.18, T:0.12
Consensus pattern (70 bp):
TTAGGGTGAAAACCCAAAAGGGCATCCTAAATGAAAAAAAAAGAAAAAGAAAAAAAAAATAAAAA
AATGT
Found at i:124997 original size:70 final size:68
Alignment explanation
Indices: 124908--125049 Score: 166
Period size: 70 Copynumber: 2.0 Consensus size: 68
124898 CATACATGTA
* * *
124908 TTATTAGTATTTTATTA-TTTATTTATTCATTTTATATGT-TATATGT-TATATTATATATATAT
1 TTATTAATATTTTATTATTTTATTTA-T-ATGTTATAT-TATATATATATATA-TATATATATAT
124970 TATTTTAT
62 TATTTT-T
124978 TTATTAATATTTT-TCTATTTTTATTTATATGTTATATTATATATATATATATATATATATATTA
1 TTATTAATATTTTAT-TA-TTTTATTTATATGTTATATTATATATATATATATATATATATATTA
125042 TTTTT
64 TTTTT
125047 TTA
1 TTA
125050 ATATTTTCTA
Statistics
Matches: 64, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
69 6 0.09
70 45 0.70
71 5 0.08
72 8 0.12
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (68 bp):
TTATTAATATTTTATTATTTTATTTATATGTTATATTATATATATATATATATATATATATTATT
TTT
Found at i:125022 original size:2 final size:2
Alignment explanation
Indices: 125010--125039 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
125000 ATTTATATGT
125010 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
125040 TATTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:125055 original size:58 final size:57
Alignment explanation
Indices: 124839--125062 Score: 174
Period size: 56 Copynumber: 3.9 Consensus size: 57
124829 TTACATTATA
* * *
124839 ATATT-TATATATATT-TTATAGTATTATTATTATTATTAGTTTTTTATATTT-TAT-TT
1 ATATTATATATATATTATTATA-TA-TATTATT-TTTTTAATATTTTATATTTATATGTT
* * * * * * *
124895 TTA-CATACATGTATTATTAGTATTTTATTATTTATTTATTCATTTTATATGTTATATGTT
1 ATATTATATATATATTATTA-TA-TATATTATTTTTTTAAT-ATTTTATAT-TTATATGTT
* * * *
124955 ATATTATATATATATTATTTTATTTATTAATATTTTT-CTATTTT-TATTTATATGTT
1 ATATTATATATATATTATTATATATATT-ATTTTTTTAATATTTTATATTTATATGTT
*
125011 ATATTATATATATATATATATATATATATTATTTTTTTAATATTTTCTATTT
1 ATATTATATATATAT-TAT-TATATATATTATTTTTTTAATATTTTATATTT
125063 TTAGTCCACA
Statistics
Matches: 133, Mismatches: 22, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
56 39 0.29
57 31 0.23
58 24 0.18
59 15 0.11
60 12 0.09
61 12 0.09
ACGTcount: A:0.31, C:0.02, G:0.03, T:0.63
Consensus pattern (57 bp):
ATATTATATATATATTATTATATATATTATTTTTTTAATATTTTATATTTATATGTT
Found at i:125196 original size:21 final size:25
Alignment explanation
Indices: 125172--125224 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 25
125162 ATTTTCATAT
125172 TTTATTTAT-TTA-TCT-TTGT-TC
1 TTTATTTATCTTATTCTATTGTGTC
*
125193 TTTATTTATCTTATTCTATTTTGTC
1 TTTATTTATCTTATTCTATTGTGTC
125218 TTTATTT
1 TTTATTT
125225 TTATTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 9 0.33
22 3 0.11
23 3 0.11
24 3 0.11
25 9 0.33
ACGTcount: A:0.15, C:0.09, G:0.04, T:0.72
Consensus pattern (25 bp):
TTTATTTATCTTATTCTATTGTGTC
Found at i:125319 original size:14 final size:13
Alignment explanation
Indices: 125302--125338 Score: 56
Period size: 14 Copynumber: 2.7 Consensus size: 13
125292 TAGTTATTTA
125302 TTTATTTTCTCTTC
1 TTTATTTTCT-TTC
125316 TTTATTTTACTTTC
1 TTTATTTT-CTTTC
125330 TTTATTTTC
1 TTTATTTTC
125339 AATTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 19 0.86
15 2 0.09
ACGTcount: A:0.11, C:0.16, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTTCTTTC
Found at i:125888 original size:3 final size:3
Alignment explanation
Indices: 125880--125920 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
125870 TAATATCTAT
*
125880 TTA TTA TTA TTA TTA TTC TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
125921 TTGTTTTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:126124 original size:2 final size:2
Alignment explanation
Indices: 126117--126149 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
126107 TTTATAATTT
126117 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
126150 TATTATGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:126818 original size:14 final size:15
Alignment explanation
Indices: 126789--126839 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
126779 AATTATATGT
126789 TTAATATTTAAATTA
1 TTAATATTTAAATTA
*
126804 TTAAT-TTTAATTTA
1 TTAATATTTAAATTA
* *
126818 TTTTAGTATTTAAATTT
1 --TTAATATTTAAATTA
126835 TTAAT
1 TTAAT
126840 TTTTTAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
14 8 0.29
15 9 0.32
16 4 0.14
17 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (15 bp):
TTAATATTTAAATTA
Found at i:126828 original size:31 final size:33
Alignment explanation
Indices: 126779--126842 Score: 96
Period size: 31 Copynumber: 2.0 Consensus size: 33
126769 ATTAAAGGTA
126779 AATTATATGTTTAATATTTAAATTATTAATTTT
1 AATTATATGTTTAATATTTAAATTATTAATTTT
* *
126812 AATT-TAT-TTTAGTATTTAAATTTTTAATTTT
1 AATTATATGTTTAATATTTAAATTATTAATTTT
126843 TTAAAATCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 22 0.76
32 3 0.10
33 4 0.14
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (33 bp):
AATTATATGTTTAATATTTAAATTATTAATTTT
Done.