Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008654.1 Hibiscus syriacus cultivar Beakdansim tig00111648_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: 3533819
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 18
Found at i:802666 original size:14 final size:15
Alignment explanation
Indices: 802648--802688 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
802638 ACCTTGCACC
802648 CTAAATCATAAACCA
1 CTAAATCATAAACCA
802663 -TAAA-CACTAAA-CA
1 CTAAATCA-TAAACCA
802676 CTAAATCATAAAC
1 CTAAATCATAAAC
802689 TAAAAAACCC
Statistics
Matches: 22, Mismatches: 0, Indels: 8
0.73 0.00 0.27
Matches are distributed among these distances:
13 4 0.18
14 16 0.73
15 2 0.09
ACGTcount: A:0.56, C:0.24, G:0.00, T:0.20
Consensus pattern (15 bp):
CTAAATCATAAACCA
Found at i:802746 original size:21 final size:21
Alignment explanation
Indices: 802645--802749 Score: 73
Period size: 21 Copynumber: 5.3 Consensus size: 21
802635 TAAACCTTGC
802645 ACCCTAAAT-CATAAACCATAA
1 ACCCTAAATAC-TAAACCATAA
* * *
802666 ACACTAAACACTAAATCATAA
1 ACCCTAAATACTAAACCATAA
*
802687 A--CT-AA-A--AAACCCTAA
1 ACCCTAAATACTAAACCATAA
* * *
802702 ATCCTATATCA-TATACCATAA
1 ACCCTAAAT-ACTAAACCATAA
802723 ACCCTAAATACTAAACCATAA
1 ACCCTAAATACTAAACCATAA
802744 ACCCTA
1 ACCCTA
802750 TCACATAATT
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
15 8 0.12
17 3 0.05
18 3 0.05
19 2 0.03
20 2 0.03
21 46 0.71
22 1 0.02
ACGTcount: A:0.51, C:0.28, G:0.00, T:0.21
Consensus pattern (21 bp):
ACCCTAAATACTAAACCATAA
Found at i:802846 original size:14 final size:14
Alignment explanation
Indices: 802827--802856 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
802817 TATAATTATC
*
802827 AATAATGTATTTTT
1 AATAATGTAATTTT
802841 AATAATGTAATTTT
1 AATAATGTAATTTT
802855 AA
1 AA
802857 AAAATCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATAATGTAATTTT
Found at i:804281 original size:25 final size:25
Alignment explanation
Indices: 804253--804302 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
804243 ATTTACATAT
* *
804253 ATTTAGTTTTGATTTTA-TAATAATA
1 ATTTA-TTTTAATTTAATTAATAATA
804278 ATTTATTTTAATTTAATTAATAATA
1 ATTTATTTTAATTTAATTAATAATA
804303 TAAAGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 9 0.41
25 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (25 bp):
ATTTATTTTAATTTAATTAATAATA
Found at i:805761 original size:23 final size:24
Alignment explanation
Indices: 805723--805768 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
805713 TAATTTAATT
805723 TTTTTATTTTTAAAATA-TAAAAG
1 TTTTTATTTTTAAAATAGTAAAAG
805746 TTTTTATATTTT-AAATAGTAAAA
1 TTTTTAT-TTTTAAAATAGTAAAA
805769 ACAATTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (24 bp):
TTTTTATTTTTAAAATAGTAAAAG
Found at i:806625 original size:20 final size:22
Alignment explanation
Indices: 806600--806640 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
806590 AATTTAACCA
806600 TTTAATT-T-TAAAAAAATTAG
1 TTTAATTATGTAAAAAAATTAG
*
806620 TTTAATTATGTAAAATAATTA
1 TTTAATTATGTAAAAAAATTA
806641 AATCTTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 1 0.06
22 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (22 bp):
TTTAATTATGTAAAAAAATTAG
Found at i:813351 original size:17 final size:17
Alignment explanation
Indices: 813314--813351 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
813304 AATTAAATAC
*
813314 AATA-TTAAATAATTTA
1 AATACTTAAATAAATTA
813330 AATACTTAAATAAATTA
1 AATACTTAAATAAATTA
*
813347 TATAC
1 AATAC
813352 AAAATATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
AATACTTAAATAAATTA
Found at i:814245 original size:24 final size:25
Alignment explanation
Indices: 814218--814270 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
814208 TTTAGATACT
814218 AAAATAAATAA-AAATGATAGTTTA
1 AAAATAAATAAGAAATGATAGTTTA
* *
814242 AAAATAAATAAGAATTGATGGTTTA
1 AAAATAAATAAGAAATGATAGTTTA
814267 AAAA
1 AAAA
814271 ATTAAACCGT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 11 0.42
25 15 0.58
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.28
Consensus pattern (25 bp):
AAAATAAATAAGAAATGATAGTTTA
Found at i:816787 original size:6 final size:6
Alignment explanation
Indices: 816776--816800 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
816766 CATATTTGTC
816776 ATTTCT ATTTCT ATTTCT ATTTCT A
1 ATTTCT ATTTCT ATTTCT ATTTCT A
816801 ATAAAGCTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTCT
Found at i:818682 original size:14 final size:14
Alignment explanation
Indices: 818659--818877 Score: 275
Period size: 14 Copynumber: 15.9 Consensus size: 14
818649 CTGGGAGATG
818659 TTTATGTCTTGCTA
1 TTTATGTCTTGCTA
* * *
818673 TTTATTTCTTACTG
1 TTTATGTCTTGCTA
818687 TTTATGTCTTGCTA
1 TTTATGTCTTGCTA
* *
818701 TTTATGTCTTACTG
1 TTTATGTCTTGCTA
818715 TTTATGTCTTGCTA
1 TTTATGTCTTGCTA
* *
818729 TTTATGTCTTACTG
1 TTTATGTCTTGCTA
818743 TTTATGTCTTGCTA
1 TTTATGTCTTGCTA
* *
818757 TTTATGTCTTACTG
1 TTTATGTCTTGCTA
818771 TTTATGTCTTGCTA
1 TTTATGTCTTGCTA
* *
818785 TTTATGTCTTACTG
1 TTTATGTCTTGCTA
818799 TTTATGTCTTGCTA
1 TTTATGTCTTGCTA
*
818813 TTTATGTCTTACT-
1 TTTATGTCTTGCTA
*
818826 GTT-TGTCTTGCTA
1 TTTATGTCTTGCTA
*
818839 TTTATGTCTTACT-
1 TTTATGTCTTGCTA
*
818852 GTT-TGTCTTGCTA
1 TTTATGTCTTGCTA
818865 TTTATGTCTTGCT
1 TTTATGTCTTGCT
818878 CGTCAAGGAA
Statistics
Matches: 171, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
12 16 0.09
13 8 0.05
14 147 0.86
ACGTcount: A:0.13, C:0.15, G:0.14, T:0.58
Consensus pattern (14 bp):
TTTATGTCTTGCTA
Found at i:818697 original size:28 final size:28
Alignment explanation
Indices: 818657--818874 Score: 399
Period size: 28 Copynumber: 7.9 Consensus size: 28
818647 ACCTGGGAGA
*
818657 TGTTTATGTCTTGCTATTTATTTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818685 TGTTTATGTCTTGCTATTTATGTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818713 TGTTTATGTCTTGCTATTTATGTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818741 TGTTTATGTCTTGCTATTTATGTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818769 TGTTTATGTCTTGCTATTTATGTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818797 TGTTTATGTCTTGCTATTTATGTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818825 TG-TT-TGTCTTGCTATTTATGTCTTAC
1 TGTTTATGTCTTGCTATTTATGTCTTAC
818851 TG-TT-TGTCTTGCTATTTATGTCTT
1 TGTTTATGTCTTGCTATTTATGTCTT
818875 GCTCGTCAAG
Statistics
Matches: 189, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
26 46 0.24
27 2 0.01
28 141 0.75
ACGTcount: A:0.13, C:0.14, G:0.14, T:0.58
Consensus pattern (28 bp):
TGTTTATGTCTTGCTATTTATGTCTTAC
Found at i:821989 original size:29 final size:27
Alignment explanation
Indices: 821923--821995 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 27
821913 GAATCTATCT
821923 TTTTATTTA-TTTTAATTTGGCCATGCAA
1 TTTTATTTATTTTTAATTTGGCCATG--A
821951 TTTTAGTTTATTTTTAATTTAGTGCCCATG-
1 TTTTA-TTTATTTTTAATTT-G-G-CCATGA
821981 TTTTATTTATTTTTA
1 TTTTATTTATTTTTA
821996 TTCTTTGTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
28 5 0.12
29 14 0.35
30 14 0.35
31 1 0.03
32 1 0.03
33 5 0.12
ACGTcount: A:0.22, C:0.08, G:0.10, T:0.60
Consensus pattern (27 bp):
TTTTATTTATTTTTAATTTGGCCATGA
Found at i:822841 original size:131 final size:131
Alignment explanation
Indices: 822593--822961 Score: 504
Period size: 131 Copynumber: 2.8 Consensus size: 131
822583 TTGATATTGA
* * * * * * * *
822593 GAATAGTAATATCTTTTCATTTTGGTTGGAGTAATAAATGACTGCTCTAAGGCATAAGAGGTCAC
1 GAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCAT
* ** * * * * *
822658 TTATTCTCGATTGGAAATAATTTGATATTATCATGCTCTCTTGAATTAATATTGATTTTTAATAT
66 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGAT
822723 G
131 G
*
822724 GAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTACTTTAAGGTATGAGAGGTCAT
1 GAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCAT
* * * *
822789 TTATTCTTGATTGGAAATCATTAGATATTATCGTTTTCACTCGAATCGATATTGAATTTTAAGAT
66 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGAT
822854 G
131 G
* *
822855 AAATAGTGATATCTCTTCATTTCGATTGGAATAATAAATGACTGCTTTAAGGTATGAGAGGTCAT
1 GAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCAT
** *
822920 TTATTCTCGATAAGAAATAATTAGATATTATCTTTTTCACTC
66 TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTC
822962 TTAAAATTAT
Statistics
Matches: 209, Mismatches: 29, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
131 209 1.00
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (131 bp):
GAATAGTGATATCTCTTCATTTCGATTGGAGTAATAAATGACTGCTTTAAGGTATGAGAGGTCAT
TTATTCTCGATTGGAAATAATTAGATATTATCATTTTCACTCGAATCAATATTGAATTTTAAGAT
G
Found at i:825309 original size:17 final size:17
Alignment explanation
Indices: 825287--825331 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
825277 AGGGTTTCTA
825287 GAAGGATTTTCACCTTT
1 GAAGGATTTTCACCTTT
825304 GAAGGATTTTCACCTTT
1 GAAGGATTTTCACCTTT
825321 GAAGGATTTTC
1 GAAGGATTTTC
825332 TTTCTCGGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (17 bp):
GAAGGATTTTCACCTTT
Found at i:842715 original size:14 final size:15
Alignment explanation
Indices: 842678--842715 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
842668 TTAAAATAAT
842678 AAATGAAATAAAAGAA
1 AAATG-AATAAAAGAA
*
842694 AAATGAATAAATGAA
1 AAATGAATAAAAGAA
842709 AAA-GAAT
1 AAATGAAT
842716 CTTTTCCCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 12 0.57
16 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.13, T:0.16
Consensus pattern (15 bp):
AAATGAATAAAAGAA
Found at i:863384 original size:237 final size:237
Alignment explanation
Indices: 862947--863583 Score: 831
Period size: 237 Copynumber: 2.7 Consensus size: 237
862937 TCTTACTTGG
* * * *
862947 TAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCATTTGGGCCATCTATATG
1 TAAATCTTTCGGGTCATTTGTAAGACTTTCGAGCAAGATGATAAGTCATTTGGGCCATCCATATG
* * * * *
863012 ACCTTCAAGCAAGATATTTTCATATGAATTTG-AAAATTAGAAAGCAATTTTCAAAGTTTCTCAT
66 ACCTTCAGGCAAGATGTCTTCACATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCAT
** * * *
863076 TTAAATCCTTTTTGAAAATGAAACTTTTGAAAAA-TAAGAAAATGATTTCCAAAGTTTCTTACTT
131 TT-AATGTTTTTTGAAGATGAAACTTTT-AAAAAGTAAGAAAACGATTTCCAAAGTTTATTACTT
* *
863140 GGTAAGTCCTTCGGG-ACATTAATAAGTCTTTCGAGCATGATGAT
194 AGTAAGTCCTTCGGGCA-ATCAATAAGTCTTTCGAGCATGATGAT
* * * * *
863184 TAAATCTTTTGGGTCATTTGTAAGCCTTTCGAGCAAGATGATCAGTCCTTTGGGCCATCCATAAG
1 TAAATCTTTCGGGTCATTTGTAAGACTTTCGAGCAAGATGATAAGTCATTTGGGCCATCCATATG
* * * *
863249 ACCTTCCGGCAGGATGTCTTCGCATGAATTTGAAAAAATGAGAAAGCGATTTTCAAAGTTTCTCA
66 ACCTTCAGGCAAGATGTCTTCACATGAATTTG-AAAAATGAGAAAGCAATTTTCAAAGTTTCTCA
*
863314 TTTAATGTTTTTTGAAGATGAAA-TTTTAAAAAGTAAGAAAACGGTTTCCAAAGTTTATTACTTA
130 TTTAATGTTTTTTGAAGATGAAACTTTTAAAAAGTAAGAAAACGATTTCCAAAGTTTATTACTTA
*
863378 GTAAGTCCTTCGGGCAATCAGTAAGTCTTTCGAGCATGATGAT
195 GTAAGTCCTTCGGGCAATCAATAAGTCTTTCGAGCATGATGAT
*
863421 TAAAT-TGTTCGGGTCATCTT-TAAGACTTTCGAGCAAGATGATAAGTCATTCGGGCCATCCATA
1 TAAATCT-TTCGGGTCAT-TTGTAAGACTTTCGAGCAAGATGATAAGTCATTTGGGCCATCCATA
* *
863484 TGACCTTCGGGCATA-ATGTCTTCACATGAATTTGAAAAATGAGAAAG-ATATTTTCAATGTTTC
64 TGACCTTCAGGCA-AGATGTCTTCACATGAATTTGAAAAATGAGAAAGCA-ATTTTCAAAGTTTC
* * * * *
863547 TCATTTCATGTTTTTTTAAGATTAAAGTTTTGAAAAG
127 TCATTTAATGTTTTTTGAAGATGAAACTTTTAAAAAG
863584 ATTCTGAACA
Statistics
Matches: 350, Mismatches: 41, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
236 55 0.16
237 243 0.69
238 20 0.06
239 32 0.09
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (237 bp):
TAAATCTTTCGGGTCATTTGTAAGACTTTCGAGCAAGATGATAAGTCATTTGGGCCATCCATATG
ACCTTCAGGCAAGATGTCTTCACATGAATTTGAAAAATGAGAAAGCAATTTTCAAAGTTTCTCAT
TTAATGTTTTTTGAAGATGAAACTTTTAAAAAGTAAGAAAACGATTTCCAAAGTTTATTACTTAG
TAAGTCCTTCGGGCAATCAATAAGTCTTTCGAGCATGATGAT
Found at i:863656 original size:37 final size:37
Alignment explanation
Indices: 863615--863837 Score: 338
Period size: 37 Copynumber: 6.0 Consensus size: 37
863605 TCTCTGGGAT
* * *
863615 ATCTTACGCCTTCATGGAAGATTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* *
863652 ATCTTAAGCCTCCACGGAAGATTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
*
863689 ATCTTAAGCCTTCACGGAAGAGTAATGAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
863726 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* * *
863763 ATCTTAAGCCTTCATGGAAGAGTAGTGAAGAAAATTA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
* **
863800 ATCTTAAACCTTCGTGGAAGAGTAGTGAAGCAAATCA
1 ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
863837 A
1 A
863838 GATCAAGTCT
Statistics
Matches: 172, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 172 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (37 bp):
ATCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCA
Found at i:863902 original size:56 final size:55
Alignment explanation
Indices: 863840--863959 Score: 136
Period size: 56 Copynumber: 2.1 Consensus size: 55
863830 CAAATCAAGA
* *
863840 TCAAGTCTGAT-CTCTCCTGAATGAATTGTGGAGCAGACCCAT-TTTCTAAAGATGTT
1 TCAAGTCT-ATACTC-CCTGAAAGAATAGTGGAGCAGACCCATCTTTC-AAAGATGTT
* * * *
863896 TCAAGTCCTATACTCCCTGAAAGAGTAGTGGAGCGGACCTATCTTTCAAAGATTTT
1 TCAAGT-CTATACTCCCTGAAAGAATAGTGGAGCAGACCCATCTTTCAAAGATGTT
863952 TCAAGTCT
1 TCAAGTCT
863960 CACGTATCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
55 2 0.04
56 44 0.80
57 9 0.16
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.33
Consensus pattern (55 bp):
TCAAGTCTATACTCCCTGAAAGAATAGTGGAGCAGACCCATCTTTCAAAGATGTT
Found at i:865522 original size:2 final size:2
Alignment explanation
Indices: 865515--865553 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
865505 CATTATTTTC
*
865515 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
865554 GTTTGGCATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:879631 original size:59 final size:59
Alignment explanation
Indices: 879532--879668 Score: 159
Period size: 59 Copynumber: 2.3 Consensus size: 59
879522 CAGCAGGCTG
** * *
879532 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
* ** * **
879591 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGATGCGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
*
879650 CATACTCGGG-ATAGCACTA
1 CATATTCGGGAATA-CACTA
879669 CGGTGCTTAT
Statistics
Matches: 62, Mismatches: 15, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
58 1 0.02
59 61 0.98
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
Found at i:886190 original size:131 final size:128
Alignment explanation
Indices: 885909--886200 Score: 316
Period size: 128 Copynumber: 2.3 Consensus size: 128
885899 ATATCTCATT
* * * ** ** * *
885909 TCGATTGGAAATAATTAGATATTATCATTCACTCTCGAATTAATATTGATTTTTAAGATGAAATA
1 TCGATTAGAAATAATCAGATATTATCGTTTTCAATCGAATTAATATTGAATTTTAAGACGAAATA
* ** * *
885974 GTGATATCTTCATTTCGATTAGAGCAATAATAATTGTTTTAAGGTATGGGAGGTCATTTATTC
66 GTGATATCTTCATTTCGATTAGAGCAATAATAACTACTTTAAGGTATGAGAGGTAATTTATTC
* * * * * *
886037 TCGATTGGAAATCATTATATATTATTGTTTTCAATCGAATTGAA-ATTGAATTTTAAGACGGAAT
1 TCGATTAGAAATAATCAGATATTATCGTTTTCAATCGAATT-AATATTGAATTTTAAGACGAAAT
** * * *
886101 AGTGATATCTCTTCATTTTTATTGGAGTAATAAATAACTACTTTAAGGTATGAGATGTAATTTAT
65 AGTGATA--TCTTCATTTCGATTAGAGCAAT-AATAACTACTTTAAGGTATGAGAGGTAATTTAT
886166 TC
127 TC
886168 TCGATTAGAAATAATCAGATATTATCGTTTTCA
1 TCGATTAGAAATAATCAGATATTATCGTTTTCA
886201 CTCTTAAATT
Statistics
Matches: 134, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
128 57 0.43
129 2 0.01
130 18 0.13
131 57 0.43
ACGTcount: A:0.34, C:0.09, G:0.15, T:0.41
Consensus pattern (128 bp):
TCGATTAGAAATAATCAGATATTATCGTTTTCAATCGAATTAATATTGAATTTTAAGACGAAATA
GTGATATCTTCATTTCGATTAGAGCAATAATAACTACTTTAAGGTATGAGAGGTAATTTATTC
Found at i:889453 original size:28 final size:26
Alignment explanation
Indices: 889422--889473 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 26
889412 TTTTTTTTCA
889422 TTGCACAATCTCT-CTTTCTTTATTTCCT
1 TTGCACAAT-T-TGCTTT-TTTATTTCCT
889450 TTGCACAATTTGCTTTTTTATTTC
1 TTGCACAATTTGCTTTTTTATTTC
889474 TTTTTTTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 9 0.39
27 5 0.22
28 9 0.39
ACGTcount: A:0.15, C:0.23, G:0.06, T:0.56
Consensus pattern (26 bp):
TTGCACAATTTGCTTTTTTATTTCCT
Found at i:890391 original size:25 final size:26
Alignment explanation
Indices: 890349--890398 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
890339 ATTGTACTCC
890349 GAATAATAAAGAAAAAAATA-AAATA
1 GAATAATAAAGAAAAAAATACAAATA
*
890374 GAATAA-AAAGAACGAAAATACAAAT
1 GAATAATAAAGAA-AAAAATACAAAT
890399 TAAAAAAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 6 0.27
25 12 0.55
26 4 0.18
ACGTcount: A:0.72, C:0.04, G:0.10, T:0.14
Consensus pattern (26 bp):
GAATAATAAAGAAAAAAATACAAATA
Found at i:890410 original size:20 final size:18
Alignment explanation
Indices: 890360--890411 Score: 50
Period size: 20 Copynumber: 2.7 Consensus size: 18
890350 AATAATAAAG
* *
890360 AAAAAAATAAAATAGAAT
1 AAAAAAAGAAAATAAAAT
890378 AAAAAGAACGAAAATACAAATT
1 AAAAA-AA-GAAAATA-AAA-T
890400 AAAAAAAGAAAA
1 AAAAAAAGAAAA
890412 AGAAAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 5 0.18
19 2 0.07
20 11 0.39
21 4 0.14
22 6 0.21
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.12
Consensus pattern (18 bp):
AAAAAAAGAAAATAAAAT
Found at i:897056 original size:2 final size:2
Alignment explanation
Indices: 897051--897087 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
897041 TACTAATAAG
*
897051 TA TA TA -A TA TA -A TA TA TT 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 TA TA TA T
897088 GTGTGTGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:906226 original size:16 final size:16
Alignment explanation
Indices: 906205--906252 Score: 87
Period size: 16 Copynumber: 3.0 Consensus size: 16
906195 ATATTTGGTT
906205 TAATTGAATGAAGCAA
1 TAATTGAATGAAGCAA
906221 TAATTGAATGAAGCAA
1 TAATTGAATGAAGCAA
*
906237 TAATTGAATAAAGCAA
1 TAATTGAATGAAGCAA
906253 GGTCAGGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.52, C:0.06, G:0.17, T:0.25
Consensus pattern (16 bp):
TAATTGAATGAAGCAA
Found at i:910924 original size:17 final size:17
Alignment explanation
Indices: 910902--910949 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
910892 GTATAATTAT
910902 TTAAATATTTTAAATAA
1 TTAAATATTTTAAATAA
910919 TTAAAT-TTTATAAA-AA
1 TTAAATATTT-TAAATAA
*
910935 -TATATATTTTAAATA
1 TTAAATATTTTAAATA
910950 TGAAGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
15 8 0.30
16 9 0.33
17 10 0.37
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAATATTTTAAATAA
Found at i:910928 original size:15 final size:16
Alignment explanation
Indices: 910908--910949 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
910898 TTATTTAAAT
910908 ATTTTAAATAAT-TAA
1 ATTTTAAATAATATAA
* *
910923 ATTTTATAAAAATATAT
1 ATTTTA-AATAATATAA
910940 ATTTTAAATA
1 ATTTTAAATA
910950 TGAAGATTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 8 0.36
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTAAATAATATAA
Found at i:910947 original size:32 final size:30
Alignment explanation
Indices: 910906--910979 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 30
910896 AATTATTTAA
*
910906 ATATTTTAAATAATTAA-ATTTTATAAAAATAT
1 ATATTTTAAAT-ATGAAGATTTT-TAAAAAT-T
910938 ATATTTTAAATATGAAGATTTTTAAAAATT
1 ATATTTTAAATATGAAGATTTTTAAAAATT
*
910968 AT-TTTTACATAT
1 ATATTTTAAATAT
910980 TTTTATCAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
29 9 0.23
30 3 0.08
31 11 0.28
32 16 0.41
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (30 bp):
ATATTTTAAATATGAAGATTTTTAAAAATT
Found at i:929769 original size:19 final size:19
Alignment explanation
Indices: 929747--929899 Score: 119
Period size: 19 Copynumber: 8.4 Consensus size: 19
929737 TAAAAAAGAA
929747 AAAGAAAAGGAAAAGGAAT
1 AAAGAAAAGGAAAAGGAAT
*
929766 AAAGAAAAAGAAAAAGGAA-
1 AAAG-AAAAGGAAAAGGAAT
*
929785 AAGGAAAAGGAAAAGGAAT
1 AAAGAAAAGGAAAAGGAAT
*
929804 AAAGAAAAAGATAAA-GAAT
1 AAAGAAAAGGA-AAAGGAAT
*
929823 AAAG--AA--TAAA-GAAT
1 AAAGAAAAGGAAAAGGAAT
* *
929837 AAAGAAAAAGAAAAAGAA-
1 AAAGAAAAGGAAAAGGAAT
*
929855 AAA-AAAAGGAAAAGAAAT
1 AAAGAAAAGGAAAAGGAAT
* * *
929873 AAATGAAAAAG-AAAGAAAA
1 AAA-GAAAAGGAAAAGGAAT
929892 AAAGAAAA
1 AAAGAAAA
929900 AGAATAATGA
Statistics
Matches: 111, Mismatches: 12, Indels: 23
0.76 0.08 0.16
Matches are distributed among these distances:
14 11 0.10
16 2 0.02
17 13 0.12
18 27 0.24
19 37 0.33
20 21 0.19
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (19 bp):
AAAGAAAAGGAAAAGGAAT
Found at i:929774 original size:26 final size:25
Alignment explanation
Indices: 929741--929886 Score: 127
Period size: 26 Copynumber: 5.5 Consensus size: 25
929731 TATGCATAAA
929741 AAAGAAAAAGAAAAGGAAAAGGAAT
1 AAAGAAAAAGAAAAGGAAAAGGAAT
*
929766 AAAGAAAAAGAAAAAGGAAAAGGAAAAGGA
1 AAAGAAAAAG-AAAAGGAAAAGG--AA--T
*
929796 AAAGGAATAAAGAAAAAGATAAA-GAAT
1 AAA-GAA-AAAGAAAAGGA-AAAGGAAT
* *
929823 AAAGAATAAAGAATAAAGAAAAAGAA-
1 AAAGAA-AAAGAA-AAGGAAAAGGAAT
*
929849 AAAGAAAAA-AAAAGGAAAAGAAAT
1 AAAGAAAAAGAAAAGGAAAAGGAAT
929873 AAATGAAAAAGAAA
1 AAA-GAAAAAGAAA
929887 GAAAAAAAGA
Statistics
Matches: 102, Mismatches: 6, Indels: 25
0.77 0.05 0.19
Matches are distributed among these distances:
23 9 0.09
24 5 0.05
25 19 0.19
26 34 0.33
27 11 0.11
28 2 0.02
29 2 0.02
30 3 0.03
31 10 0.10
32 7 0.07
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (25 bp):
AAAGAAAAAGAAAAGGAAAAGGAAT
Found at i:929785 original size:7 final size:6
Alignment explanation
Indices: 929739--929903 Score: 156
Period size: 6 Copynumber: 26.3 Consensus size: 6
929729 GTTATGCATA
* * *
929739 AAAAAG AAAAAG AAAAGG AAAAGG AATAAAG AAAAAG AAAAAGG AAAAGG
1 AAAAAG AAAAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAA-G AAAAAG
* * *
929789 AAAAGG AAAAGG AATAAAG AAAAAG ATAAAG AATAAAG AATAAAG AATAAAG
1 AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AA-AAAG AA-AAAG AA-AAAG
*
929841 AAAAAG AAAAAG -AAAA- AAAAAG GAAAAG AAATAAATG AAAAAG AAAGAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG -AA-AAA-G AAAAAG AAA-AAG
929890 AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AA
929904 TAATGAAAAT
Statistics
Matches: 140, Mismatches: 8, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
5 10 0.07
6 83 0.59
7 41 0.29
8 5 0.04
9 1 0.01
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (6 bp):
AAAAAG
Found at i:929899 original size:32 final size:30
Alignment explanation
Indices: 929766--929885 Score: 68
Period size: 33 Copynumber: 3.8 Consensus size: 30
929756 GAAAAGGAAT
* *
929766 AAAGAAAAAGAAAAAGGAAAAGGAA-AAGGAA
1 AAAGAAAAA-AAAAA-GAAAAAGAATAATGAA
* * *
929797 AAGGAATAAAGAAAAAGATAAAGAATAAAGAA
1 AAAGAA-AAA-AAAAAGAAAAAGAATAATGAA
929829 TAAAGAATAAAGAAAAAGAAAAAGAA-AA--AA
1 -AAAGAA-AAA-AAAAAGAAAAAGAATAATGAA
929859 AAAGGAAAAGAAATAAATGAAAAAGAA
1 AAA-GAAAA-AAA-AAA-GAAAAAGAA
929886 AGAAAAAAAG
Statistics
Matches: 76, Mismatches: 6, Indels: 14
0.79 0.06 0.15
Matches are distributed among these distances:
29 7 0.09
30 9 0.12
31 21 0.28
32 16 0.21
33 23 0.30
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (30 bp):
AAAGAAAAAAAAAAGAAAAAGAATAATGAA
Found at i:929906 original size:32 final size:29
Alignment explanation
Indices: 929739--929912 Score: 143
Period size: 31 Copynumber: 5.6 Consensus size: 29
929729 GTTATGCATA
* *
929739 AAAAAGAAAAAGAAAAGGAAAAGGAATAAAG
1 AAAAAGAAAAAGAAAAAGAAAA--AAAAAAG
* * *
929770 AAAAAGAAAAAGGAAAAGGAAAAGGAAAAGG
1 AAAAAGAAAAA-GAAAAAGAAAA-AAAAAAG
*
929801 AATAAAGAAAAAGATAAAGAATAAAGAATAAAG
1 AA-AAAGAAAAAGAAAAAGAA-AAA-AA-AAAG
929834 AATAAAGAAAAAGAAAAAG-AAAAAAAAAG
1 AA-AAAGAAAAAGAAAAAGAAAAAAAAAAG
*
929863 GAAAAGAAATAAATGAAAAAGAAAGAAAAAAAG
1 AAAAAG-AA-AAA-GAAAAAGAAA-AAAAAAAG
*
929896 AAAAAGAATAATGAAAA
1 AAAAAGAA-AAAGAAAA
929913 TAAAAAGGAG
Statistics
Matches: 122, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
28 4 0.03
29 7 0.06
30 5 0.04
31 40 0.33
32 32 0.26
33 34 0.28
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (29 bp):
AAAAAGAAAAAGAAAAAGAAAAAAAAAAG
Found at i:929918 original size:26 final size:24
Alignment explanation
Indices: 929739--929903 Score: 111
Period size: 25 Copynumber: 6.6 Consensus size: 24
929729 GTTATGCATA
** *
929739 AAAAAGAAAAAGAAAAGGAAAAGG
1 AAAAAGAAAAAGAAAAAAAAAAAG
* *
929763 AATAAAGAAAAAGAAAAAGGAAAAGG
1 AA-AAAGAAAAAGAAAAA-AAAAAAG
* * *
929789 AAAAGGAAAAGGAATAAAGAAAAAG
1 AAAAAGAAAAAGAA-AAAAAAAAAG
* *
929814 ATAAAGAATAAAGAATAAAGAATAAAG
1 AAAAAGAA-AAAGAA-AAA-AAAAAAG
929841 AAAAAGAAAAAG--AAAAAAAAAG
1 AAAAAGAAAAAGAAAAAAAAAAAG
* *
929863 GAAAAGAAATAAATGAAAAAGAAAGAA-
1 AAAAAG-AA-AAA-GAAAAA-AAAAAAG
929890 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
929904 TAATGAAAAT
Statistics
Matches: 116, Mismatches: 14, Indels: 22
0.76 0.09 0.14
Matches are distributed among these distances:
22 11 0.09
23 5 0.04
24 8 0.07
25 40 0.34
26 27 0.23
27 20 0.17
28 5 0.04
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (24 bp):
AAAAAGAAAAAGAAAAAAAAAAAG
Found at i:931625 original size:23 final size:23
Alignment explanation
Indices: 931599--931672 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
931589 AGAACTGGGA
*
931599 CCAAACAAAACCCAAAACCGGGC
1 CCAAACCAAACCCAAAACCGGGC
*
931622 CCAAACCAAACCC-AATCTCGGGC
1 CCAAACCAAACCCAAAAC-CGGGC
* * *
931645 CTAAACCAAACCCAAACCCGAGC
1 CCAAACCAAACCCAAAACCGGGC
931668 CCAAA
1 CCAAA
931673 TTAAAACCTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
22 3 0.07
23 37 0.86
24 3 0.07
ACGTcount: A:0.43, C:0.42, G:0.11, T:0.04
Consensus pattern (23 bp):
CCAAACCAAACCCAAAACCGGGC
Found at i:936315 original size:12 final size:12
Alignment explanation
Indices: 936278--936333 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
936268 TTTCTAAATA
*
936278 TTAATTATCATT
1 TTAATTATAATT
936290 ATT-ATTATTGAATT
1 -TTAATTA-T-AATT
936304 TTAATTATAATT
1 TTAATTATAATT
*
936316 ATAATTATAATT
1 TTAATTATAATT
*
936328 ATAATT
1 TTAATT
936334 TTTTATTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
12 25 0.66
13 6 0.16
14 7 0.18
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (12 bp):
TTAATTATAATT
Found at i:939083 original size:13 final size:13
Alignment explanation
Indices: 939065--939093 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
939055 AATGATATAT
939065 TTTAAAAATTAAA
1 TTTAAAAATTAAA
939078 TTTAAAAATTAAA
1 TTTAAAAATTAAA
939091 TTT
1 TTT
939094 TTTTAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TTTAAAAATTAAA
Found at i:950807 original size:41 final size:42
Alignment explanation
Indices: 950747--950930 Score: 133
Period size: 41 Copynumber: 4.4 Consensus size: 42
950737 TTCAAGAATT
* * *
950747 AATCTT-CCTGAGGAACAGTGGAACAAATC-TACCTCGATTC
1 AATCTTCCCTGAAGAGCAGTGGAACAAATCATATCTCGATTC
* * ** * *
950787 AATCTTCCCTGAAGTGCAGTGAAATGAATCAATATTTTC-ATAAC
1 AATCTTCCCTGAAGAGCAGTGGAACAAATC-ATA-TCTCGAT-TC
* * * * * * * *
950831 TGATCTACCCTGAAGAGTAGCGGAACAAATCATTTTTCAATTT
1 -AATCTTCCCTGAAGAGCAGTGGAACAAATCATATCTCGATTC
* *
950874 GATCTTCCCTGAGGAGCAGTGGAACAAATC-TATCTCGATTC
1 AATCTTCCCTGAAGAGCAGTGGAACAAATCATATCTCGATTC
950915 AATCTTCCCTGAAGAG
1 AATCTTCCCTGAAGAG
950931 AAGTAAAATG
Statistics
Matches: 107, Mismatches: 30, Indels: 13
0.71 0.20 0.09
Matches are distributed among these distances:
40 6 0.06
41 38 0.36
42 26 0.24
43 8 0.07
44 7 0.07
45 22 0.21
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
AATCTTCCCTGAAGAGCAGTGGAACAAATCATATCTCGATTC
Found at i:950862 original size:45 final size:42
Alignment explanation
Indices: 950821--950903 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
950811 TGAATCAATA
*
950821 TTTTCATAACTGATCTACCCTGAAGAGTAGCGGAACAAATCAT
1 TTTTCA-AACTGATCTACCCTGAAGAGCAGCGGAACAAATCAT
** * * *
950864 TTTTCAATTTGATCTTCCCTGAGGAGCAGTGGAACAAATC
1 TTTTCAAACTGATCTACCCTGAAGAGCAGCGGAACAAATC
950904 TATCTCGATT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 28 0.82
43 6 0.18
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (42 bp):
TTTTCAAACTGATCTACCCTGAAGAGCAGCGGAACAAATCAT
Found at i:950884 original size:42 final size:41
Alignment explanation
Indices: 950831--950930 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
950821 TTTTCATAAC
* * * *
950831 TGATCTACCCTGAAGAGTAGCGGAACAAATCATTTTTCAATT
1 TGATCTTCCCTGAAGAGCAGCGGAACAAATC-TATCTCAATT
* * *
950873 TGATCTTCCCTGAGGAGCAGTGGAACAAATCTATCTCGATT
1 TGATCTTCCCTGAAGAGCAGCGGAACAAATCTATCTCAATT
**
950914 CAATCTTCCCTGAAGAG
1 TGATCTTCCCTGAAGAG
950931 AAGTAAAATG
Statistics
Matches: 48, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 21 0.44
42 27 0.56
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (41 bp):
TGATCTTCCCTGAAGAGCAGCGGAACAAATCTATCTCAATT
Found at i:950996 original size:128 final size:129
Alignment explanation
Indices: 950639--951009 Score: 316
Period size: 128 Copynumber: 2.9 Consensus size: 129
950629 GAAGACAAGA
* ** * * * * *
950639 GGAACAAAGCTACCTCGATTCAATCTTCCC-GAAGA-ACA-TTGAATGAATAAACATTTTTAGAT
1 GGAACAAATCTACCTCGATTCAATCTTCCCTGAAGAGA-AGTAAAATGAATCAATATTTTCATAA
** * * * *
950701 CTGATAAACCCT-AA-AGAAGCAAGAA-AGATCCCATTTTTCAAGAATTAATCTT-CCTGAGGAA
65 CTGATCTACCCTGAAGAGAAGC-AGAACAAAT--CACTTTTC-AGATTTCATCTTCCCTGAGGAA
950762 CAGT
126 CAGT
* * *
950766 GGAACAAATCTACCTCGATTCAATCTTCCCTGAAGTGCAGTGAAATGAATCAATATTTTCATAAC
1 GGAACAAATCTACCTCGATTCAATCTTCCCTGAAGAGAAGTAAAATGAATCAATATTTTCATAAC
* * * * *
950831 TGATCTACCCTGAAGAGTAGCGGAACAAATCATTTTTCA-ATTTGATCTTCCCTGAGGAGCAGT
66 TGATCTACCCTGAAGAGAAGCAGAACAAATCACTTTTCAGATTTCATCTTCCCTGAGGAACAGT
*
950894 GGAACAAATCTATCTCGATTCAATCTTCCCTGAAGAGAAGTAAAATGAATCAAT-TTTTCCA-AA
1 GGAACAAATCTACCTCGATTCAATCTTCCCTGAAGAGAAGTAAAATGAATCAATATTTT-CATAA
* * * * **
950957 TTTGATAC-ACCCTGAGGAGAAGTAGAGCAGGTTC-CTTTTCAGATTTCATCTTC
65 -CTGAT-CTACCCTGAAGAGAAGCAGAACA-AATCACTTTTCAGATTTCATCTTC
951010 AAAAATCTCT
Statistics
Matches: 200, Mismatches: 32, Indels: 22
0.79 0.13 0.09
Matches are distributed among these distances:
127 43 0.22
128 96 0.48
129 48 0.24
130 5 0.03
131 8 0.04
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (129 bp):
GGAACAAATCTACCTCGATTCAATCTTCCCTGAAGAGAAGTAAAATGAATCAATATTTTCATAAC
TGATCTACCCTGAAGAGAAGCAGAACAAATCACTTTTCAGATTTCATCTTCCCTGAGGAACAGT
Found at i:951749 original size:18 final size:18
Alignment explanation
Indices: 951727--951760 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
951717 GTTTTTGAAA
951727 AAAAAAAT-AGAGAGAAC
1 AAAAAAATAAGAGAGAAC
951744 AAAAAAATAAGAGAGAA
1 AAAAAAATAAGAGAGAA
951761 AGAAATAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.74, C:0.03, G:0.18, T:0.06
Consensus pattern (18 bp):
AAAAAAATAAGAGAGAAC
Found at i:951764 original size:22 final size:22
Alignment explanation
Indices: 951724--951794 Score: 53
Period size: 24 Copynumber: 3.3 Consensus size: 22
951714 TGGGTTTTTG
*
951724 AAAAAAAA-AATAGAG--AGAA
1 AAAAAAAATAAGAGAGAAAGAA
*
951743 CAAAAAAATAAGAGAGAAAGAAA
1 AAAAAAAATAAGAGAGAAAG-AA
*
951766 TAAAAAAACATAA-AGA-AAAGAG
1 -AAAAAAA-ATAAGAGAGAAAGAA
951788 AAAAAAA
1 AAAAAAA
951795 TATAGAGGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
19 7 0.17
20 6 0.14
21 7 0.17
22 3 0.07
23 6 0.14
24 9 0.21
25 4 0.10
ACGTcount: A:0.77, C:0.03, G:0.14, T:0.06
Consensus pattern (22 bp):
AAAAAAAATAAGAGAGAAAGAA
Found at i:951785 original size:23 final size:23
Alignment explanation
Indices: 951744--951794 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
951734 TAGAGAGAAC
951744 AAAAAAATAAGAGAGAAAGAAATA
1 AAAAAAATAAGAGAGAAAGAAA-A
*
951768 AAAAAACATAA-AGA-AAAGAGAA
1 AAAAAA-ATAAGAGAGAAAGAAAA
951790 AAAAA
1 AAAAA
951795 TATAGAGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 6 0.24
23 6 0.24
24 9 0.36
25 4 0.16
ACGTcount: A:0.78, C:0.02, G:0.14, T:0.06
Consensus pattern (23 bp):
AAAAAAATAAGAGAGAAAGAAAA
Found at i:951805 original size:22 final size:22
Alignment explanation
Indices: 951744--951812 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
951734 TAGAGAGAAC
* *
951744 AAAAAAATA-AGAGAGAAAGAAAT
1 AAAAAAATATAGAG-GAAA-AGAG
* *
951767 AAAAAAACATA-AAGAAAAGAG
1 AAAAAAATATAGAGGAAAAGAG
951788 AAAAAAATATAGAGGAAAAG-G
1 AAAAAAATATAGAGGAAAAGAG
951809 AAAA
1 AAAA
951813 CATAAAAAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
21 17 0.45
22 11 0.29
23 9 0.24
24 1 0.03
ACGTcount: A:0.74, C:0.01, G:0.17, T:0.07
Consensus pattern (22 bp):
AAAAAAATATAGAGGAAAAGAG
Found at i:953471 original size:13 final size:13
Alignment explanation
Indices: 953453--953480 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
953443 ATGCATGAAT
953453 AATAAAAAAATTA
1 AATAAAAAAATTA
953466 AATAAAAAAATTA
1 AATAAAAAAATTA
953479 AA
1 AA
953481 AATTACACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AATAAAAAAATTA
Found at i:954745 original size:13 final size:13
Alignment explanation
Indices: 954727--954752 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
954717 TAAATTGAGG
954727 GCTAAAAATAAAA
1 GCTAAAAATAAAA
954740 GCTAAAAATAAAA
1 GCTAAAAATAAAA
954753 ATAAAACTTT
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:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
GCTAAAAATAAAA
Found at i:956103 original size:25 final size:25
Alignment explanation
Indices: 956066--956118 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
956056 TAGGCCTTAT
* *
956066 GTTTGGGTATTGTAATTTAGGCCTG
1 GTTTGGGGATTGTAATTTAGGCATG
* *
956091 GTTTGGGGGTTGTAATTTGGGCATG
1 GTTTGGGGATTGTAATTTAGGCATG
956116 GTT
1 GTT
956119 GGCCCCTTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.13, C:0.06, G:0.38, T:0.43
Consensus pattern (25 bp):
GTTTGGGGATTGTAATTTAGGCATG
Found at i:956167 original size:3 final size:3
Alignment explanation
Indices: 956159--956198 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
956149 ATAAAATGAA
* *
956159 AAT AAT AAT TAG AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
956199 AAAATTGGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:957969 original size:80 final size:82
Alignment explanation
Indices: 957883--958038 Score: 246
Period size: 80 Copynumber: 1.9 Consensus size: 82
957873 AAATCGTTGC
*
957883 TATAGACTCGTACTTTAGTGGAATTTTTATACAAATGCCACTATAGA--CATATCTTTAGTGGCG
1 TATAGACTCGTACTTTAGTGGAATTTTTATACAAATACCACTATAGACTCATA-CTTTAGTGGCG
957946 -TTTTATACAAATACCGT
65 TTTTTATACAAATACCGT
* * *
957963 TATAGACTCGTACTTTAGTGGCATTTTTATACAAATACCGCTATAGACTCATACTTTAGTGGTGT
1 TATAGACTCGTACTTTAGTGGAATTTTTATACAAATACCACTATAGACTCATACTTTAGTGGCGT
958028 TTTTATACAAA
66 TTTTATACAAA
958039 CACCACAATA
Statistics
Matches: 69, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
80 44 0.64
81 10 0.14
82 15 0.22
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (82 bp):
TATAGACTCGTACTTTAGTGGAATTTTTATACAAATACCACTATAGACTCATACTTTAGTGGCGT
TTTTATACAAATACCGT
Found at i:957989 original size:121 final size:122
Alignment explanation
Indices: 957732--958038 Score: 352
Period size: 121 Copynumber: 2.5 Consensus size: 122
957722 AGACTGTTAA
* * * * * * *** ** *
957732 TTTAGTGGCATTTATATACAAATGCCCCTAAAGACTCTTACTTTAGTGGTGCTTGCATACAAACG
1 TTTAGTGGAATTTTTATACAAATACCGCTATAGACTCATACTTTAGTGGAATTTTTATACAAATG
* * *
957797 CCACTAAAGACTCAGAT-TTTCGTGGCGTTTATATACAAACACCGTTATAAACTCGTAC
66 CCACTATAGA--CATATCTTTAGTGGCGTTTATATACAAACACCGTTATAAACTCGTAC
* *
957855 TTTAGTGGAATTTTTATA-AAAT-CGTTGCTATAGACTCGTACTTTAGTGGAATTTTTATACAAA
1 TTTAGTGGAATTTTTATACAAATAC--CGCTATAGACTCATACTTTAGTGGAATTTTTATACAAA
* *
957918 TGCCACTATAGACATATCTTTAGTGGCGTTT-TATACAAATACCGTTATAGACTCGTAC
64 TGCCACTATAGACATATCTTTAGTGGCGTTTATATACAAACACCGTTATAAACTCGTAC
* **
957976 TTTAGTGGCATTTTTATACAAATACCGCTATAGACTCATACTTTAGTGGTGTTTTTATACAAA
1 TTTAGTGGAATTTTTATACAAATACCGCTATAGACTCATACTTTAGTGGAATTTTTATACAAA
958039 CACCACAATA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
121 81 0.52
122 20 0.13
123 56 0.36
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (122 bp):
TTTAGTGGAATTTTTATACAAATACCGCTATAGACTCATACTTTAGTGGAATTTTTATACAAATG
CCACTATAGACATATCTTTAGTGGCGTTTATATACAAACACCGTTATAAACTCGTAC
Found at i:958061 original size:41 final size:41
Alignment explanation
Indices: 957732--958049 Score: 234
Period size: 41 Copynumber: 7.8 Consensus size: 41
957722 AGACTGTTAA
* * * * * *
957732 TTTAGTGGCATTTATATACAAATGCCCCTAAAGACTCTTAC
1 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCGTAC
* * ** ** * *
957773 TTTAGTGGTGCTTGCATACAAACGCCACTAAAGACTCAG-AT
1 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTC-GTAC
* * * ** *
957814 TTTCGTGGCGTTTATATACAAACACCGTTATAAACTCGTAC
1 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCGTAC
** **
957855 TTTAGTGGAATTTTTATA-AAAT-CGTTGCTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAATAC--CACTATAGACTCGTAC
** * *
957896 TTTAGTGGAATTTTTATACAAATGCCACTATAGA--CATATC
1 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCGTA-C
**
957936 TTTAGTGGCG-TTTTATACAAATACCGTTATAGACTCGTAC
1 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCGTAC
* * *
957976 TTTAGTGGCATTTTTATACAAATACCGCTATAGACTCATAC
1 TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCGTAC
* * *
958017 TTTAGTGGTGTTTTTATACAAACACCACAATAG
1 TTTAGTGGCGTTTTTATACAAATACCACTATAG
958050 GCATGTACTT
Statistics
Matches: 222, Mismatches: 45, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
39 24 0.11
40 23 0.10
41 170 0.77
42 4 0.02
43 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (41 bp):
TTTAGTGGCGTTTTTATACAAATACCACTATAGACTCGTAC
Found at i:958114 original size:42 final size:42
Alignment explanation
Indices: 958044--958161 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
958034 ACAAACACCA
* * * **
958044 CAATAGGCATGTACTTTATTTG-TGTTTTTGTAATAAATGTTG
1 CAATAGTCATGTACTTTAGTGGCT-TTTTTGTAATAAATGACG
* *
958086 TAATAGTCATGTACTTTAGTGGCTTTTTTGTAACAAATGACG
1 CAATAGTCATGTACTTTAGTGGCTTTTTTGTAATAAATGACG
* * * *
958128 CAATAATCATGTACCTTAGTGGCGTTTTTATAAT
1 CAATAGTCATGTACTTTAGTGGCTTTTTTGTAAT
958162 GAACGTCATA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.28, C:0.11, G:0.18, T:0.43
Consensus pattern (42 bp):
CAATAGTCATGTACTTTAGTGGCTTTTTTGTAATAAATGACG
Found at i:958582 original size:18 final size:18
Alignment explanation
Indices: 958544--958582 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
958534 ATATGATTAT
* *
958544 TTTAGGTTTTCATCTCCG
1 TTTAGCTTTTCATATCCG
*
958562 TTTAGCTTTTCATATCTG
1 TTTAGCTTTTCATATCCG
958580 TTT
1 TTT
958583 GTTGTTGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (18 bp):
TTTAGCTTTTCATATCCG
Found at i:959805 original size:194 final size:194
Alignment explanation
Indices: 959461--959847 Score: 706
Period size: 194 Copynumber: 2.0 Consensus size: 194
959451 AAAATCACTT
* * *
959461 GGTGTCACAATATTTTTGTTTATTCTCTGTCAGTGTTAATATTTTACCAAAATATGTTTGTTTTA
1 GGTGTCACAATATTGTTGTTTATTCTCAGTCAGTGTTAATATTTTACCAAAATATGTTCGTTTTA
959526 CTGTGTTTTGGGTGGTTTTATGATGGTGTCTTAAAAAGCATGCTTTGATTGTCAAACTTAGGGAT
66 CTGTGTTTTGGGTGGTTTTATGATGGTGTCTTAAAAAGCATGCTTTGATTGTCAAACTTAGGGAT
*
959591 TTCTAGCAGAGAAGACCAAGAAGAAACATGGATCGTAAAGGGGTGGTCAGATCAATTTCAATTC
131 TTCTAGCAGAGAAGACCAAGAAGAAACATGGATCATAAAGGGGTGGTCAGATCAATTTCAATTC
959655 GGTGTCACAATATTGTTG-TTATTCTCAGTCAGTGTTAATATTTTACCAAAATATGTTCGTTTTA
1 GGTGTCACAATATTGTTGTTTATTCTCAGTCAGTGTTAATATTTTACCAAAATATGTTCGTTTTA
959719 CTGT-TCTTTGGGTGGTTTTATGATGGTGTCTTAAAAAGCATGCTTCTGATTGTCAAACTTAGGG
66 CTGTGT-TTTGGGTGGTTTTATGATGGTGTCTTAAAAAGCATGCTT-TGATTGTCAAACTTAGGG
959783 ATTTCTAGCAGAGAAGACCAAGAAGAAACATGGATCATAAAGGGGTGGTCAGATCAATTTCAATT
129 ATTTCTAGCAGAGAAGACCAAGAAGAAACATGGATCATAAAGGGGTGGTCAGATCAATTTCAATT
959848 TGCACTCGGC
Statistics
Matches: 187, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
192 1 0.01
193 87 0.47
194 99 0.53
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.37
Consensus pattern (194 bp):
GGTGTCACAATATTGTTGTTTATTCTCAGTCAGTGTTAATATTTTACCAAAATATGTTCGTTTTA
CTGTGTTTTGGGTGGTTTTATGATGGTGTCTTAAAAAGCATGCTTTGATTGTCAAACTTAGGGAT
TTCTAGCAGAGAAGACCAAGAAGAAACATGGATCATAAAGGGGTGGTCAGATCAATTTCAATTC
Found at i:960877 original size:23 final size:24
Alignment explanation
Indices: 960830--960878 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
960820 TCAAAATCTC
* *
960830 GATTGAAGCTCGAGACTCAAGCTT
1 GATTCAAGCTCGAGACTCAAACTT
960854 GATTCAAGCTCGA-ACTCAAACTT
1 GATTCAAGCTCGAGACTCAAACTT
960877 GA
1 GA
960879 ATTTCAACCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.48
24 12 0.52
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.24
Consensus pattern (24 bp):
GATTCAAGCTCGAGACTCAAACTT
Found at i:961118 original size:37 final size:36
Alignment explanation
Indices: 961077--961151 Score: 96
Period size: 37 Copynumber: 2.1 Consensus size: 36
961067 AGAGTTTACA
*
961077 AAATATGAAAACACATCTAAATTTATAAAAAGATGAC
1 AAATATGAAAACACATCCAAATTTAT-AAAAGATGAC
* * * *
961114 AAATATGACAATATATCCAAATTTATACAAGATGAC
1 AAATATGAAAACACATCCAAATTTATAAAAGATGAC
961150 AA
1 AA
961152 TATTTTCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
36 11 0.33
37 22 0.67
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (36 bp):
AAATATGAAAACACATCCAAATTTATAAAAGATGAC
Found at i:961333 original size:31 final size:32
Alignment explanation
Indices: 961239--961334 Score: 97
Period size: 33 Copynumber: 3.0 Consensus size: 32
961229 AAAAATATGA
* * * * *
961239 TACAAAAAATGATAGAAACAAGTTAAGCTTACT
1 TACAAAAGATG-TAGCAACATGTCAAGTTTACT
*
961272 TACAAAAGATGGTAGCAATATGTCAAGTTTACT
1 TACAAAAGAT-GTAGCAACATGTCAAGTTTACT
961305 TACAAAAGAT-T-GCAACATGTCCAAGTTTAC
1 TACAAAAGATGTAGCAACATGT-CAAGTTTAC
961335 AAAAGATGGT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 8 0.15
31 10 0.19
33 35 0.65
34 1 0.02
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.27
Consensus pattern (32 bp):
TACAAAAGATGTAGCAACATGTCAAGTTTACT
Found at i:967687 original size:14 final size:15
Alignment explanation
Indices: 967656--967688 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
967646 TATATATATA
*
967656 TGAAAGTGCTTGATG
1 TGAAAGTACTTGATG
967671 TGAAAGTACTT-ATG
1 TGAAAGTACTTGATG
967685 TGAA
1 TGAA
967689 CAAAACACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.33, C:0.06, G:0.27, T:0.33
Consensus pattern (15 bp):
TGAAAGTACTTGATG
Found at i:967838 original size:23 final size:23
Alignment explanation
Indices: 967795--967854 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
967785 GTTGAGGTTT
*
967795 CTATGTGGTCTTTC-GGAACAAAA
1 CTATGTGGTCCTTCAGGAAC-AAA
967818 CTATGTGGTCCTTCAGG-ACAAA
1 CTATGTGGTCCTTCAGGAACAAA
967840 -TATGTGG-CACTTCAG
1 CTATGTGGTC-CTTCAG
967855 TGCAAATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
20 1 0.03
21 13 0.38
22 3 0.09
23 15 0.44
24 2 0.06
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (23 bp):
CTATGTGGTCCTTCAGGAACAAA
Found at i:967845 original size:21 final size:22
Alignment explanation
Indices: 967795--967867 Score: 64
Period size: 21 Copynumber: 3.3 Consensus size: 22
967785 GTTGAGGTTT
*
967795 CTATGTGGTCTTTC-GGAACAAAA
1 CTATGTGGTCCTTCAGG-AC-AAA
967818 CTATGTGGTCCTTCAGGACAAA
1 CTATGTGGTCCTTCAGGACAAA
967840 -TATGTGG-CACTTCAGTG-CAAA
1 CTATGTGGTC-CTTCAG-GACAAA
*
967861 TTATGTG
1 CTATGTG
967868 AGTTTTGGTG
Statistics
Matches: 45, Mismatches: 1, Indels: 9
0.82 0.02 0.16
Matches are distributed among these distances:
20 1 0.02
21 17 0.38
22 10 0.22
23 15 0.33
24 2 0.04
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (22 bp):
CTATGTGGTCCTTCAGGACAAA
Found at i:971307 original size:24 final size:24
Alignment explanation
Indices: 971280--971329 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
971270 GGTTATGAGT
971280 AATGACAAGATTGAAAACTGATAA
1 AATGACAAGATTGAAAACTGATAA
* *
971304 AATGACAAGATTGAAAATTTATAA
1 AATGACAAGATTGAAAACTGATAA
971328 AA
1 AA
971330 CAAGGACCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.14, T:0.24
Consensus pattern (24 bp):
AATGACAAGATTGAAAACTGATAA
Found at i:973083 original size:32 final size:32
Alignment explanation
Indices: 973038--973607 Score: 176
Period size: 32 Copynumber: 16.1 Consensus size: 32
973028 GACAGTTTCA
* *
973038 TTTAATACGAAGATTTATCTCACTTGAGATTGT
1 TTTAAAAC-AAGATTTATCTCACTTGAGATAGT
* * *
973071 TTTAAAACAAGATTCATCTCTCTTGAGATTGT
1 TTTAAAACAAGATTTATCTCACTTGAGATAGT
* * * *
973103 TTTAAAATAGGATTCATCTCTCTTGAGATAGT
1 TTTAAAACAAGATTTATCTCACTTGAGATAGT
* **
973135 TTCACTCGAAAC-AGAATATTAGTCTCACTTGAGATTTTTT
1 TT---T-AAAACAAG-AT-TTA-TCTCACTTGAGA--TAGT
* * *
973175 TCTTAAAACAATATTTTACCACACTTGAGATAGTT
1 T-TTAAAACAAGA-TTTATCTCACTTGAGATAG-T
* * ** * *
973210 TCACTTGAAACAAGACATTTCATTTCACTCAAAATTGTTTT
1 T---TTAAAACAAG--ATTT-ATCTCACTTGAGATAG---T
* *
973251 TCTTAAAACAAGATTCATCTCGCTTGAGATAGT
1 T-TTAAAACAAGATTTATCTCACTTGAGATAGT
* * * *
973284 TTCACTCGAAACAGAAGATTCATTTCACTTGAGATTGTTTT
1 TT---T--AAA-ACAAGATTTATCTCACTTGAGATAG---T
* ** *
973325 TTTAAAACAAGATTCATCTTGCTTGAGATAAT
1 TTTAAAACAAGATTTATCTCACTTGAGATAGT
* *
973357 TTTACGCGAAGTAAAAAATTTATCTCACTTGAGATAGT
1 TTTA----AA--ACAAGATTTATCTCACTTGAGATAGT
* * *
973395 TTCACTCAAAACAATATTGATCTCACTTGAGATTGT
1 TT---T-AAAACAAGATTTATCTCACTTGAGATAGT
973431 TTTAAAACAAGATTTATCTCACTTGAGATAGTT
1 TTTAAAACAAGATTTATCTCACTTGAGATAG-T
* * *
973464 TCATTCAAAACAATATTGATCTCACTTGAGATCATTTT
1 T--TT-AAAACAAGATTTATCTCACTTGAGAT-A--GT
*
973502 TCTTTAAA-AA-ATATTATCTCACTTGAGATAGT
1 T-TTAAAACAAGAT-TTATCTCACTTGAGATAGT
**
973534 TTCACTCGAAATA-AAGATTTATCTCACTTGAGATTTTTT
1 TT---T--AAA-ACAAGATTTATCTCACTTGAGA--TAGT
* *
973573 TCTTAAAACAAGATTCATCTCGCTTGAGATAGT
1 T-TTAAAACAAGATTTATCTCACTTGAGATAGT
973606 TT
1 TT
973608 CACTTGAAAC
Statistics
Matches: 406, Mismatches: 73, Indels: 117
0.68 0.12 0.20
Matches are distributed among these distances:
31 1 0.00
32 87 0.21
33 15 0.04
34 6 0.01
35 64 0.16
36 83 0.20
37 47 0.12
38 67 0.17
39 23 0.06
40 4 0.01
41 8 0.02
42 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (32 bp):
TTTAAAACAAGATTTATCTCACTTGAGATAGT
Found at i:973288 original size:75 final size:73
Alignment explanation
Indices: 973104--973432 Score: 297
Period size: 74 Copynumber: 4.5 Consensus size: 73
973094 TGAGATTGTT
* * * *
973104 TTAAAATAGGATTCATCTCTCTTGAGATAGTTTCACTCGAAACAGAATATT-AGTCTCACTTGAG
1 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAT-TTCA-TTTCACTTGAG
973168 ATT-TTTTTC
64 ATTGTTTTTC
* * * * * * **
973177 TTAAAACAATATTTTACCACACTTGAGATAGTTTCACTTGAAACAAGACATTTCATTTCACTCAA
1 TTAAAACAAGA-TTCATCTCGCTTGAGATAGTTTCACTCGAAAC-AGA-ATTTCATTTCACTTGA
*
973242 AATTGTTTTTC
63 GATTGTTTTTC
*
973253 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGATTCATTTCACTTGAGA
1 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAA-TTTCATTTCACTTGAGA
973318 TTGTTTTT-
65 TTGTTTTTC
* * * * * * *
973326 TTAAAACAAGATTCATCTTGCTTGAGATAATTTTACGCGAAGTAAAAAATTT-ATCTCACTTGAG
1 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAA--ACAGAATTTCATTTCACTTGAG
* **
973390 ATAGTTTCAC
64 ATTGTTTTTC
* * * * *
973400 TCAAAACAATATTGATCTCACTTGAGATTGTTT
1 TTAAAACAAGATTCATCTCGCTTGAGATAGTTT
973433 TAAAACAAGA
Statistics
Matches: 207, Mismatches: 40, Indels: 17
0.78 0.15 0.06
Matches are distributed among these distances:
73 63 0.30
74 79 0.38
75 46 0.22
76 19 0.09
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (73 bp):
TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCACTCGAAACAGAATTTCATTTCACTTGAGAT
TGTTTTTC
Found at i:973296 original size:36 final size:36
Alignment explanation
Indices: 973003--973637 Score: 333
Period size: 36 Copynumber: 17.7 Consensus size: 36
972993 TTCAACATTT
* * * *
973003 TCAAAACAAAAATT-ATCTCACTTTAGACAGTTTCAT
1 TCAAAAC-AAGATTCATCTCACTTGAGATAGTTTCAC
* * * *
973039 TTAATACGAAGATTTATCTCACTTGAGATTGTTT---
1 TCAAAAC-AAGATTCATCTCACTTGAGATAGTTTCAC
* *
973073 T-AAAACAAGATTCATCTCTCTTGAGATTGTTT---
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * *
973105 T-AAAATAGGATTCATCTCTCTTGAGATAGTTTCAC
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * * **
973140 TCGAAAC-AGAATATTAGTCTCACTTGAGAT-TTTTTTC
1 TCAAAACAAG-AT-TCA-TCTCACTTGAGATAGTTTCAC
* * * * *
973177 TTAAAACAATATTTTACCACACTTGAGATAGTTTCAC
1 TCAAAACAAGA-TTCATCTCACTTGAGATAGTTTCAC
** * ** * * **
973214 TTGAAACAAGACATTTCATTTCACTCAAAATTGTTTTTC
1 TCAAAACAAG--A-TTCATCTCACTTGAGATAGTTTCAC
* *
973253 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * * **
973289 TCGAAACAGAAGATTCATTTCACTTGAGATTGTTT-TT
1 TC-AAA-ACAAGATTCATCTCACTTGAGATAGTTTCAC
* ** * *
973326 TTAAAACAAGATTCATCTTGCTTGAGATAATTTTAC
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * *
973362 GCGAAGTAA-AAAATTTATCTCACTTGAGATAGTTTCAC
1 TC-AA--AACAAGATTCATCTCACTTGAGATAGTTTCAC
* * *
973400 TCAAAACAATATTGATCTCACTTGAGATTGTTT---
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* *
973433 T-AAAACAAGATTTATCTCACTTGAGATAGTTTCAT
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * * *
973468 TCAAAACAATATTGATCTCACTTGAGATCATTTTTC-T
1 TCAAAACAAGATTCATCTCACTTGAGAT-A-GTTTCAC
* *
973505 TTAAAA-AATATT-ATCTCACTTGAGATAGTTTCAC
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * **
973539 TCGAAATA-AAGATTTATCTCACTTGAGAT-TTTTTTC
1 TC-AAA-ACAAGATTCATCTCACTTGAGATAGTTTCAC
* *
973575 TTAAAACAAGATTCATCTCGCTTGAGATAGTTTCAC
1 TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
* * *
973611 TTGAAACAGAAGATTTATCTCACTTGA
1 -TCAAA-ACAAGATTCATCTCACTTGA
973638 AATATTTTTT
Statistics
Matches: 463, Mismatches: 102, Indels: 66
0.73 0.16 0.10
Matches are distributed among these distances:
32 81 0.17
33 9 0.02
34 4 0.01
35 66 0.14
36 115 0.25
37 77 0.17
38 83 0.18
39 28 0.06
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (36 bp):
TCAAAACAAGATTCATCTCACTTGAGATAGTTTCAC
Found at i:973350 original size:35 final size:35
Alignment explanation
Indices: 973243--973353 Score: 107
Period size: 38 Copynumber: 3.1 Consensus size: 35
973233 TTCACTCAAA
*
973243 ATTGTTTTTCTTAAAACAAGATTCATCTCGCTTGAG
1 ATTGTTTTT-TTAAAACAAGATTCATCTTGCTTGAG
* * ** * *
973279 ATAGTTTCACTCGAAACAGAAGATTCAT-TTCACTTGAG
1 ATTGTTT--TTTTAAA-ACAAGATTCATCTT-GCTTGAG
973317 ATTGTTTTTTTAAAACAAGATTCATCTTGCTTGAG
1 ATTGTTTTTTTAAAACAAGATTCATCTTGCTTGAG
973352 AT
1 AT
973354 AATTTTACGC
Statistics
Matches: 57, Mismatches: 13, Indels: 11
0.70 0.16 0.14
Matches are distributed among these distances:
35 18 0.32
36 12 0.21
37 4 0.07
38 23 0.40
ACGTcount: A:0.31, C:0.15, G:0.14, T:0.40
Consensus pattern (35 bp):
ATTGTTTTTTTAAAACAAGATTCATCTTGCTTGAG
Found at i:973453 original size:68 final size:69
Alignment explanation
Indices: 973374--973611 Score: 313
Period size: 68 Copynumber: 3.4 Consensus size: 69
973364 GAAGTAAAAA
*
973374 ATTTATCTCACTTGAGATAGTTTCACTCAAAACAATATTGATCTCACTTGAGATTGTT-TTAAAA
1 ATTTATCTCACTTGAGATAGTTTCACTCAAAACAATATTGATCTCACTTGAGATTTTTCTTAAAA
973438 CAAG
66 CAAG
* *
973442 ATTTATCTCACTTGAGATAGTTTCATTCAAAACAATATTGATCTCACTTGAGATCATTTTTCTTT
1 ATTTATCTCACTTGAGATAGTTTCACTCAAAACAATATTGATCTCACTTGAG---ATTTTTCTTA
973507 AAA-AA-
63 AAACAAG
* *
973512 ATATTATCTCACTTGAGATAGTTTCACTCGAAATA-AAGATTTATCTCACTTGAGATTTTTTTCT
1 AT-TTATCTCACTTGAGATAGTTTCACTC-AAA-ACAATATTGATCTCACTTGAGA--TTTTTCT
973576 TAAAACAAG
61 TAAAACAAG
* *
973585 ATTCATCTCGCTTGAGATAGTTTCACT
1 ATTTATCTCACTTGAGATAGTTTCACT
973612 TGAAACAGAA
Statistics
Matches: 150, Mismatches: 9, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
68 51 0.34
69 1 0.01
70 2 0.01
71 43 0.29
72 50 0.33
73 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.39
Consensus pattern (69 bp):
ATTTATCTCACTTGAGATAGTTTCACTCAAAACAATATTGATCTCACTTGAGATTTTTCTTAAAA
CAAG
Found at i:973762 original size:58 final size:59
Alignment explanation
Indices: 973700--973832 Score: 178
Period size: 59 Copynumber: 2.3 Consensus size: 59
973690 TTCTAGATTC
* * * * *
973700 ACAACACTTTGAATCAGTAATACCTCACTTGA-GGCTCAAGATTTCCTTTGCTCAATTT
1 ACAACACTTTGAATCAGCAACACCTCACTTCAGGGATCAAGATTTCCTTTGCTCAATTA
* * *
973758 ACAACACTTTGAATCAGCAACGCCTTACTTCAGGGATCAATATTTCCTTTGCTCAATTA
1 ACAACACTTTGAATCAGCAACACCTCACTTCAGGGATCAAGATTTCCTTTGCTCAATTA
*
973817 ACAACACTTCGAATCA
1 ACAACACTTTGAATCA
973833 ACGACGCCTA
Statistics
Matches: 65, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
58 27 0.42
59 38 0.58
ACGTcount: A:0.32, C:0.26, G:0.11, T:0.32
Consensus pattern (59 bp):
ACAACACTTTGAATCAGCAACACCTCACTTCAGGGATCAAGATTTCCTTTGCTCAATTA
Found at i:973852 original size:59 final size:59
Alignment explanation
Indices: 973735--973863 Score: 161
Period size: 59 Copynumber: 2.2 Consensus size: 59
973725 CACTTGAGGC
* * * * * *
973735 TCAAGATTTCCTTTGCTCAATTTACAACACTTTGAATCAGCAACGCCTTACTTCAGGGA
1 TCAAAATTTCCTTTGCTCAATTAACAACACTTCGAATCAACAACGCCTAACTACAGGGA
* *
973794 TCAATATTTCCTTTGCTCAATTAACAACACTTCGAATCAACGACGCCTAAC-ACGAGGGA
1 TCAAAATTTCCTTTGCTCAATTAACAACACTTCGAATCAACAACGCCTAACTAC-AGGGA
*
973853 CCAAAATTTCC
1 TCAAAATTTCC
973864 AGTAGAGAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
58 1 0.02
59 59 0.98
ACGTcount: A:0.32, C:0.27, G:0.12, T:0.29
Consensus pattern (59 bp):
TCAAAATTTCCTTTGCTCAATTAACAACACTTCGAATCAACAACGCCTAACTACAGGGA
Found at i:973970 original size:92 final size:93
Alignment explanation
Indices: 973803--974010 Score: 258
Period size: 92 Copynumber: 2.2 Consensus size: 93
973793 ATCAATATTT
* * * * *
973803 CCTTTGCTCAATTAACAACACTTCGAATCAACGACGCCTAACACGAGGGACCAAAATTTCCAGTA
1 CCTTCGCTCAATTAACGACATTTCGAATCAACGACGCCTAACACAAGAGACCAAAATTTCCAGTA
*
973868 GAGAATTCAT-ATGACGAACTTATTCAA
66 GAGAATTCATAATGAAGAACTTATTCAA
** * * * *
973895 CCTTCGCT-AGATTAACGACATTTCGAATCAGTGACGCCTCACTCAAGAGACCAACATTTCCTGT
1 CCTTCGCTCA-ATTAACGACATTTCGAATCAACGACGCCTAACACAAGAGACCAAAATTTCCAGT
*
973959 AGAGAATTCATAATGAAGAACTTGTTCAA
65 AGAGAATTCATAATGAAGAACTTATTCAA
* *
973988 CCTTTGCTCAATTCACGACATTT
1 CCTTCGCTCAATTAACGACATTT
974011 TTAATCAGCA
Statistics
Matches: 98, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
91 1 0.01
92 62 0.63
93 34 0.35
94 1 0.01
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (93 bp):
CCTTCGCTCAATTAACGACATTTCGAATCAACGACGCCTAACACAAGAGACCAAAATTTCCAGTA
GAGAATTCATAATGAAGAACTTATTCAA
Found at i:974043 original size:93 final size:92
Alignment explanation
Indices: 973848--974051 Score: 239
Period size: 93 Copynumber: 2.2 Consensus size: 92
973838 GCCTAACACG
* *
973848 AGGGACCAAAATTTCCAGTAGAGAATTCATATGACGAACTTATTCAACCTTCGCTAGATTAACGA
1 AGGGACCAACATTTCCAGTAGAGAATTCATATGAAGAACTTATTCAACCTTCGCTAGATTAACGA
** *
973913 CATTTCGAATCAGTGACGCCTCACTCA
66 CATTTCGAATCAGCAACACCTCACTCA
* * * * *
973940 AGAGACCAACATTTCCTGTAGAGAATTCATAATGAAGAACTTGTTCAACCTTTGCTCA-ATTCAC
1 AGGGACCAACATTTCCAGTAGAGAATTCAT-ATGAAGAACTTATTCAACCTTCGCT-AGATTAAC
** **
974004 GACATTTTTAATCAGCAACACCTCACTTG
64 GACATTTCGAATCAGCAACACCTCACTCA
* *
974033 TGGGATCAACATTTCCAGT
1 AGGGACCAACATTTCCAGT
974052 GGAAAGATCA
Statistics
Matches: 92, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
92 27 0.29
93 64 0.70
94 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (92 bp):
AGGGACCAACATTTCCAGTAGAGAATTCATATGAAGAACTTATTCAACCTTCGCTAGATTAACGA
CATTTCGAATCAGCAACACCTCACTCA
Found at i:980043 original size:82 final size:81
Alignment explanation
Indices: 979836--980151 Score: 338
Period size: 82 Copynumber: 3.9 Consensus size: 81
979826 CGTGGCGTTC
* ** * *
979836 TTGAAAAATGCCACTATGAATGAACCCTATTGCGGTGTTTGTATACAAAACA--TCAAAAGTACT
1 TTGAAAAATGCCACTATGGATGAACCCTATTGCGGCATTTGTATA-AAAACACCGCTAAAGTACT
* * *
979899 ACTCTATCATGGTGTTTG
65 ACTCTGTCA-CGCGTTTG
* ** **
979917 TTGAGAAA-GCCACTATGG-TGAACCCTATTGTTGCATTTGTATAAAAACATTGCTAAAGTACTA
1 TTGAAAAATGCCACTATGGATGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTA
*
979980 CTATGTTGCA-GCGTTTG
66 CTCTG-T-CACGCGTTTG
* * * * *
979997 TTGAAAAATGCCACTATGGATGAACCCTATTACGGTATTTGCATAAAAATACCACTAAAGTACTA
1 TTGAAAAATGCCACTATGGATGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTA
980062 CTCTGTCACGACGTTTG
66 CTCTGTCACG-CGTTTG
* * *
980079 TTGAAAAATGTCACTATGGATGAA-CCTATTGCAGCGTTTGTATAAAAACACCGCTAAAGTACTA
1 TTGAAAAATGCCACTATGGATGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTA
*
980143 CTCTATCAC
66 CTCTGTCAC
980152 AGTATTTTGT
Statistics
Matches: 196, Mismatches: 31, Indels: 16
0.81 0.13 0.07
Matches are distributed among these distances:
78 6 0.03
79 21 0.11
80 37 0.19
81 61 0.31
82 71 0.36
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (81 bp):
TTGAAAAATGCCACTATGGATGAACCCTATTGCGGCATTTGTATAAAAACACCGCTAAAGTACTA
CTCTGTCACGCGTTTG
Found at i:980137 original size:163 final size:161
Alignment explanation
Indices: 979836--980144 Score: 415
Period size: 163 Copynumber: 1.9 Consensus size: 161
979826 CGTGGCGTTC
* * * *
979836 TTGAAAAATGCCACTATGAATGAACCCTATTGCGGTGTTTGTATACAAAACATCAAAAGTACTAC
1 TTGAAAAATGCCACTATGAATGAACCCTATTACGGTATTTGCATAAAAAACATCAAAAGTACTAC
* ** * **
979901 TCTATCATGGTGTTTGTTGAGAAAGCCACTATGGTGAACCCTATTGTTGCATTTGTATAAAAACA
66 TCTATCACGACGTTTGTTGAAAAAGCCACTATGGTGAACCCTATTGCAGCATTTGTATAAAAACA
**
979966 TTGCTAAAGTACTACTATGTTGCAGCGTTTG
131 CCGCTAAAGTACTACTATGTTGCAGCGTTTG
* *
979997 TTGAAAAATGCCACTATGGATGAACCCTATTACGGTATTTGCATAAAAATACCA-CTAAAGTACT
1 TTGAAAAATGCCACTATGAATGAACCCTATTACGGTATTTGCATAAAAA-A-CATCAAAAGTACT
* * *
980061 ACTCTGTCACGACGTTTGTTGAAAAATGTCACTATGGATGAA-CCTATTGCAGCGTTTGTATAAA
64 ACTCTATCACGACGTTTGTTGAAAAA-GCCACTATGG-TGAACCCTATTGCAGCATTTGTATAAA
980125 AACACCGCTAAAGTACTACT
127 AACACCGCTAAAGTACTACT
980145 CTATCACAGT
Statistics
Matches: 127, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
161 44 0.35
162 31 0.24
163 48 0.38
164 4 0.03
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (161 bp):
TTGAAAAATGCCACTATGAATGAACCCTATTACGGTATTTGCATAAAAAACATCAAAAGTACTAC
TCTATCACGACGTTTGTTGAAAAAGCCACTATGGTGAACCCTATTGCAGCATTTGTATAAAAACA
CCGCTAAAGTACTACTATGTTGCAGCGTTTG
Found at i:983091 original size:3 final size:3
Alignment explanation
Indices: 983083--983124 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
983073 ATAGAATTTT
* *
983083 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTT CTT CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC
983125 TTCTTCTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (3 bp):
CTC
Found at i:983129 original size:3 final size:3
Alignment explanation
Indices: 983110--983170 Score: 61
Period size: 3 Copynumber: 20.7 Consensus size: 3
983100 CCTCCTCCTC
* * * * * *
983110 CTT CTT C-T CCT CCT CTT CTT CTT CTC CTC CTT CTA CCT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
983157 CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CT
983171 ATAATTTTTC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.02, C:0.43, G:0.00, T:0.56
Consensus pattern (3 bp):
CTT
Found at i:983605 original size:3 final size:3
Alignment explanation
Indices: 983597--983648 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
983587 CAATCATATC
983597 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
983645 TCT T
1 TCT T
983649 GTAATTTTTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:983801 original size:124 final size:124
Alignment explanation
Indices: 983653--983900 Score: 469
Period size: 124 Copynumber: 2.0 Consensus size: 124
983643 CTTCTTGTAA
*
983653 TTTTTTTGGTTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
1 TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
*
983718 TCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATC
66 TCCCATCGTATTCACTGTAGATTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATC
*
983777 TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGATGAGGAGTTGTAT
1 TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
983842 TCCCATCGTATTCACTGTAGATTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATC
66 TCCCATCGTATTCACTGTAGATTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATC
983901 ATATCTCTTC
Statistics
Matches: 121, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 121 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (124 bp):
TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
TCCCATCGTATTCACTGTAGATTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATC
Found at i:984053 original size:152 final size:151
Alignment explanation
Indices: 983777--984236 Score: 589
Period size: 152 Copynumber: 3.0 Consensus size: 151
983767 TATACCAATC
*
983777 TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGATGAGGAGTTGTAT
1 TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
*
983842 TCCCATCGTATTCACTGTAGATTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATCATATCT
66 TCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATCATATCT
983907 CTTCTTCTTCTTCTTCTTGTAA
131 CTTCTTCTTCTTCTTCTT-TAA
*
983929 TTTTTTTGGTTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
1 TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
*
983994 TCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGATGTTTTGTATACCAATCATATCT
66 TCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATCATATCT
**
984059 CTTCTTCTTCTTCTTCTTTCT
131 CTTCTTCTTCTTCTTCTTTAA
** ** * * * * ** ***** * ** *
984080 TCTTTCTTCTTCTTCTTC-TTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCATCGTGACGA
1 T-TTT-TT-TGATT-AACAATATAC-AC--GAT-TGAAAGTT-TTCTT-TTGTGAATAGTGACGA
984144 GGAGTTGTATTCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGACGTTTTGTATACC
56 GGAGTTGTATTCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGACGTTTTGTATACC
984209 AATCATATCTCTTCTTCTTCTTCTTCTT
121 AATCATATCTCTTCTTCTTCTTCTTCTT
984237 CTATAATTTT
Statistics
Matches: 272, Mismatches: 26, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
151 2 0.01
152 147 0.54
153 2 0.01
154 6 0.02
155 2 0.01
157 1 0.00
158 3 0.01
159 5 0.02
160 104 0.38
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.47
Consensus pattern (151 bp):
TTTTTTTGATTAACAATATACACGATTGAAAGTTTTCTTTTGTGAATAGTGACGAGGAGTTGTAT
TCCCATCGTATTCACTGTAGCTTTTTTAGTGAATAGTGAAGACGTTTTGTATACCAATCATATCT
CTTCTTCTTCTTCTTCTTTAA
Found at i:984066 original size:3 final size:3
Alignment explanation
Indices: 984058--984133 Score: 134
Period size: 3 Copynumber: 24.7 Consensus size: 3
984048 CAATCATATC
984058 TCT TCT TCT TCT TCT TCTT TCT TCTT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TC-T TCT TC-T TCT TCT TCT TCT TCT TCT TCT
984105 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
984134 ATCGTGACGA
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 65 0.92
4 6 0.08
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:991860 original size:17 final size:17
Alignment explanation
Indices: 991838--991872 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
991828 TTTCTCAACG
991838 TAAATACATACTTGAGC
1 TAAATACATACTTGAGC
991855 TAAATACATACTTGAGC
1 TAAATACATACTTGAGC
991872 T
1 T
991873 TTTGGTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.31
Consensus pattern (17 bp):
TAAATACATACTTGAGC
Found at i:998177 original size:23 final size:23
Alignment explanation
Indices: 998151--998219 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
998141 GAGTCGAAGG
998151 TTCTACGCGGTCCTTCGAGACAA
1 TTCTACGCGGTCCTTCGAGACAA
* * * *
998174 TTCTATGTGGTCATTCGAGATAA
1 TTCTACGCGGTCCTTCGAGACAA
*
998197 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGCGGTCCTTCGAGACAA
998220 ATTTATATGG
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (23 bp):
TTCTACGCGGTCCTTCGAGACAA
Found at i:1001006 original size:2 final size:2
Alignment explanation
Indices: 1000999--1001024 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1000989 ATTATTACTA
1000999 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
1001025 CTTAAAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1002602 original size:391 final size:391
Alignment explanation
Indices: 1001879--1002659 Score: 1413
Period size: 391 Copynumber: 2.0 Consensus size: 391
1001869 TTTAAGCAAC
1001879 AAGAATATCAGGAGTACAAGTGTTTAATGTCAAATGATTGAGAGTTGTCTTTGAACATATATTAT
1 AAGAATATCAGGAGTACAAGTGTTTAATGTCAAATGATTGAGAGTTGTCTTTGAACATATATTAT
*
1001944 CTTATACTTAGCTCATATTATAAAAAAAAAGTAAAAAAACCATAAATAGTATTGTATTTATTAAA
66 CTTATACTTAGCTCATATTAT-AAAAAAAAGTAAAAAAACCATAAAAAGTATTGTATTTATTAAA
1002009 AATAATAATGAATCGAGACGTGTCAATTTTTTTTTGTCTAAATACTATATATATAATGATTATTT
130 AATAATAATGAATCGAGACGTGTCAA-TTTTTTTTGTCTAAATACTATATATATAATGATTATTT
*
1002074 GGTAAATATATTAAAATTTGTTCTAATTTCTTAGGTCAAAATTAAAATTTAAATATATTAACGTC
194 GGTAAATATATTAAAATTTGTTCTAATTTCTTAGGTCAAAATTAAAATATAAATATATTAACGTC
* *
1002139 CGACTCAAACGACCGTGAATTTTAACGAAAAAGTATGAGTTTGGAAAATATGAATATTCAGTGAT
259 CGACTCAAACGACCATGAATTTTAACGAAAAAATATGAGTTTGGAAAATATGAATATTCAGTGAT
* *
1002204 CATTTTGTAACTTTTAACAGTCGATGGACTCAACAAAACAATGATTTATAGTTAGGGGATTATTT
324 CATTTTGTAACTTTTAACAGTCGATGGACTCAAAAAAACAATGATTTATAGTTAGGGGATCATTT
1002269 GGT
389 GGT
* *
1002272 AAGAATATCAGGAGTATAAGTGTTTAATGTCAAATGATTGAGAGTTGTCTTTGAACGTATATTAT
1 AAGAATATCAGGAGTACAAGTGTTTAATGTCAAATGATTGAGAGTTGTCTTTGAACATATATTAT
*
1002337 CTTATACTTAGCTCATATTAT-AAAAAAAGTAAAAAATCCATAAAAAGTATTGTATTTATTAAAA
66 CTTATACTTAGCTCATATTATAAAAAAAAGTAAAAAAACCATAAAAAGTATTGTATTTATTAAAA
1002401 ATAATAATGAATCGAGACGTGTCAA-TTTTTTTGTCTAAATACTATATATATATAATGATTATTT
131 ATAATAATGAATCGAGACGTGTCAATTTTTTTTGTCTAAATAC--TATATATATAATGATTATTT
1002465 GGTAAATATATTAAAATTTGTTCTAATTTCTTAGGTCAAAATTAAAATATAAATATATTAACGTC
194 GGTAAATATATTAAAATTTGTTCTAATTTCTTAGGTCAAAATTAAAATATAAATATATTAACGTC
1002530 CGACTCAAACGACCATGAATTTTAACGAAAAAATATGAGTTTGGAAAATATGAATATTCAGTGAT
259 CGACTCAAACGACCATGAATTTTAACGAAAAAATATGAGTTTGGAAAATATGAATATTCAGTGAT
**
1002595 CATTTTGTAACTTTTAACAGTCGATGGACTCAAAAAAATTATGATTTATAGTTAGGGGATCATTT
324 CATTTTGTAACTTTTAACAGTCGATGGACTCAAAAAAACAATGATTTATAGTTAGGGGATCATTT
1002660 TGTAGCTTTT
Statistics
Matches: 375, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
389 17 0.05
391 274 0.73
393 84 0.22
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (391 bp):
AAGAATATCAGGAGTACAAGTGTTTAATGTCAAATGATTGAGAGTTGTCTTTGAACATATATTAT
CTTATACTTAGCTCATATTATAAAAAAAAGTAAAAAAACCATAAAAAGTATTGTATTTATTAAAA
ATAATAATGAATCGAGACGTGTCAATTTTTTTTGTCTAAATACTATATATATAATGATTATTTGG
TAAATATATTAAAATTTGTTCTAATTTCTTAGGTCAAAATTAAAATATAAATATATTAACGTCCG
ACTCAAACGACCATGAATTTTAACGAAAAAATATGAGTTTGGAAAATATGAATATTCAGTGATCA
TTTTGTAACTTTTAACAGTCGATGGACTCAAAAAAACAATGATTTATAGTTAGGGGATCATTTGG
T
Found at i:1003710 original size:24 final size:24
Alignment explanation
Indices: 1003673--1003726 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1003663 TAATATATTT
*
1003673 TAATTTAAGGATAAAAAATATAAA
1 TAATTTAAAGATAAAAAATATAAA
* ** *
1003697 TAATTTAAATATAAATTATATATA
1 TAATTTAAAGATAAAAAATATAAA
1003721 TAATTT
1 TAATTT
1003727 CAATTCATAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.41
Consensus pattern (24 bp):
TAATTTAAAGATAAAAAATATAAA
Found at i:1005305 original size:14 final size:15
Alignment explanation
Indices: 1005282--1005311 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1005272 TGGGTATTTG
1005282 TGTGTGTTTTTAACC
1 TGTGTGTTTTTAACC
1005297 TGTGT-TTTTTAACC
1 TGTGTGTTTTTAACC
1005311 T
1 T
1005312 CTATGAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (15 bp):
TGTGTGTTTTTAACC
Found at i:1010257 original size:27 final size:28
Alignment explanation
Indices: 1010209--1010261 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
1010199 ATATAGTTTT
**
1010209 TAAAAAAAATCCAAATTTTTTGAAAATC
1 TAAAAAAAATCCAAATAATTTGAAAATC
*
1010237 TAAAAAAAATTCAAA-AATTTGAAAA
1 TAAAAAAAATCCAAATAATTTGAAAA
1010262 CCTTTATTCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.60, C:0.08, G:0.04, T:0.28
Consensus pattern (28 bp):
TAAAAAAAATCCAAATAATTTGAAAATC
Found at i:1010817 original size:3 final size:3
Alignment explanation
Indices: 1010811--1010856 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
1010801 TTTTTTTTTA
*
1010811 TAT TAT TAT TAAT TAT TAT TAAC TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
1010857 GCTTATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 5 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1010827 original size:10 final size:10
Alignment explanation
Indices: 1010812--1010856 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
1010802 TTTTTTTTAT
1010812 ATTATTATTA
1 ATTATTATTA
1010822 ATTATTATTA
1 ATTATTATTA
*
1010832 ACTATTATT-
1 ATTATTATTA
1010841 ATTATTATTA
1 ATTATTATTA
1010851 TATTAT
1 -ATTAT
1010857 GCTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 8 0.26
10 18 0.58
11 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATTATTA
Found at i:1025768 original size:141 final size:141
Alignment explanation
Indices: 1025550--1025820 Score: 377
Period size: 141 Copynumber: 1.9 Consensus size: 141
1025540 AACATCAACT
1025550 GACCAGATCTCCTCGACACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
1 GACCAGATCTCCTCGACACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
* ** *
1025615 GGAACCGAGTTATCACCCTTCCTAAAGATGGCCAGAGTTCTTCATCATGTATGAACCATGTCATC
66 GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
1025680 TACCCTTAGAC
131 TACCCTTAGAC
* * * *
1025691 GACCAGA-CTTCCTC-ATCACGTAGGAGCCGTGTCAACCTTA-GATAATCAGCCGTCCTCATTAC
1 GACCAGATC-TCCTCGA-CACGTAGGAG-AGTGTCAACATTAGGATAACCAGCCGTCCTCATCAC
* * * * *
1025753 GTAGGAACCTAGTTATCACCCTTCTTAAAGATGACCAGAACTCTTCATCGCGTATGAGCCGTGTC
63 GTAGGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTC
1025818 ATC
128 ATC
1025821 CCTTGACCAG
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
140 2 0.02
141 101 0.89
142 11 0.10
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (141 bp):
GACCAGATCTCCTCGACACGTAGGAGAGTGTCAACATTAGGATAACCAGCCGTCCTCATCACGTA
GGAACCGAGTTATCACCCTTCCTAAAGATGACCAGAACTCTTCATCACGTATGAACCATGTCATC
TACCCTTAGAC
Found at i:1026059 original size:3 final size:3
Alignment explanation
Indices: 1026053--1026098 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
1026043 GTTTTTTTTA
*
1026053 TAT TAT TAT TAAT TAT TAT TAAC TAT TAT TAT TAT TAT TA- TAT TAT
1 TAT TAT TAT T-AT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT
1026099 GCTTATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 5 0.13
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:1026069 original size:10 final size:10
Alignment explanation
Indices: 1026054--1026098 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
1026044 TTTTTTTTAT
1026054 ATTATTATTA
1 ATTATTATTA
1026064 ATTATTATTA
1 ATTATTATTA
*
1026074 ACTATTATT-
1 ATTATTATTA
1026083 ATTATTATTA
1 ATTATTATTA
1026093 TATTAT
1 -ATTAT
1026099 GCTTATTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 8 0.26
10 18 0.58
11 5 0.16
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (10 bp):
ATTATTATTA
Found at i:1036860 original size:49 final size:49
Alignment explanation
Indices: 1036783--1037062 Score: 346
Period size: 49 Copynumber: 5.7 Consensus size: 49
1036773 ACTGTTCTAA
* * * * *
1036783 AATGAAAGTTAAATGCCTAACGGTGCATTTTTGGTAGAAAGGTGCCACT
1 AATGCAAGTTAGATGACAAACGATGCATTTTTGGTAGAAAGGTGCCACT
* * *
1036832 AATGCAAGTTAGATGACAAATGGTGCATTTTTGGCAGAAAGGTGCCACT
1 AATGCAAGTTAGATGACAAACGATGCATTTTTGGTAGAAAGGTGCCACT
* * * * *
1036881 AATGCAAGTTAAATGCCTAACGATGCATTTTTGGTAAAAAGATGCCACT
1 AATGCAAGTTAGATGACAAACGATGCATTTTTGGTAGAAAGGTGCCACT
* * * *
1036930 AATGCAAGTTAGATGAAAAATGATGCATTTTT-TTTGCAAAAGGTGCCACT
1 AATGCAAGTTAGATGACAAACGATGCATTTTTGGTAG--AAAGGTGCCACT
* *
1036980 AATGCAAGTTAAATGACGAACGATGCATTTTTGGTAGAAAGGTGCCACT
1 AATGCAAGTTAGATGACAAACGATGCATTTTTGGTAGAAAGGTGCCACT
* *
1037029 AATGCAAGTTAGATGACAAACGGTGCATTATTGG
1 AATGCAAGTTAGATGACAAACGATGCATTTTTGG
1037063 CATTATTGGA
Statistics
Matches: 195, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
48 1 0.01
49 153 0.78
50 39 0.20
51 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (49 bp):
AATGCAAGTTAGATGACAAACGATGCATTTTTGGTAGAAAGGTGCCACT
Found at i:1037014 original size:99 final size:98
Alignment explanation
Indices: 1036783--1037064 Score: 422
Period size: 99 Copynumber: 2.9 Consensus size: 98
1036773 ACTGTTCTAA
* *
1036783 AATGAAAGTTAAATGCCTAACGGTGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
1 AATGCAAGTTAAATGCCTAACGATGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
* *
1036848 CAAATGGTGCATTTTTGGCAGAAAGGTGCCACT
66 AAAATGATGCATTTTTGGCAGAAAGGTGCCACT
* *
1036881 AATGCAAGTTAAATGCCTAACGATGCATTTTTGGTAAAAAGATGCCACTAATGCAAGTTAGATGA
1 AATGCAAGTTAAATGCCTAACGATGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
*
1036946 AAAATGATGCATTTTTTTTGCA-AAAGGTGCCACT
66 AAAATGATGCA--TTTTTGGCAGAAAGGTGCCACT
* *
1036980 AATGCAAGTTAAATGACGAACGATGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
1 AATGCAAGTTAAATGCCTAACGATGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
* * * *
1037045 CAAACGGTGCATTATTGGCA
66 AAAATGATGCATTTTTGGCA
1037065 TTATTGGATG
Statistics
Matches: 166, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
97 7 0.04
98 70 0.42
99 81 0.49
100 8 0.05
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (98 bp):
AATGCAAGTTAAATGCCTAACGATGCATTTTTGGTAGAAAGGTGCCACTAATGCAAGTTAGATGA
AAAATGATGCATTTTTGGCAGAAAGGTGCCACT
Found at i:1037099 original size:46 final size:46
Alignment explanation
Indices: 1037047--1037582 Score: 637
Period size: 46 Copynumber: 11.7 Consensus size: 46
1037037 TTAGATGACA
* * ** *
1037047 AACGGTGCATTATTGGCATTATTGGATGCCATAAATGAAAATGTAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
*
1037093 AACGGTGCATTATTGGCATGAAAGGATGCCATAAATGAAAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* * *
1037139 AACAGTGTATTATCGGCATGAAAGGATGCCATAAATGAAAATTCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* * *
1037185 AATGATGCATTATCAGCATGAAAGGATGCCATAAATGAAAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* * *
1037231 AATGGTGCATTATCCGCATGAAATGATGCCATAAATGAAAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* *
1037277 AACGATGCATTATCGGCATGAAAAGATGCCATAAATGAAAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* * * *
1037323 AATGGTGCATTATCGACATAAAAGGATGCCATAAAT-AAAAGTACAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA-TGCAT
* *
1037369 AACGGTGCATTATCAGCATGAAAGGATGTCATAAATGAAAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
** * * *
1037415 ATTGGTGCATTATCGACATGAAAGGATACCATAAATGATAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* * * * * *
1037461 AACGCTACGTTATCGGCAGGAAAAGATACCATAAATGAAAATGCAT
1 AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
* * * * *
1037507 AACGATGCATAATCGACATGACAA-GATGCCACAAATGAAAATACAT
1 AACGGTGCATTATCGGCATGA-AAGGATGCCATAAATGAAAATGCAT
* * * * *
1037553 AACAGTGTATTAACGACATAAAAGG-TGCCA
1 AACGGTGCATTATCGGCATGAAAGGATGCCA
1037583 CTCATGGTAT
Statistics
Matches: 422, Mismatches: 64, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
45 11 0.03
46 405 0.96
47 6 0.01
ACGTcount: A:0.42, C:0.14, G:0.20, T:0.24
Consensus pattern (46 bp):
AACGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAATGCAT
Found at i:1042818 original size:49 final size:49
Alignment explanation
Indices: 1042756--1042978 Score: 182
Period size: 49 Copynumber: 4.6 Consensus size: 49
1042746 ACTACTCTAA
* * * *
1042756 AATGAAAGTTAAATGCCTAACGGTGCATTTTTGGTAGAAAGGTGCCACT
1 AATGCAAGTTAAATGACAAATGGTGCATTTTTGGTAGAAAGGTGCCACT
* * * * * * *
1042805 GATGCAAGTTAAATGTCTAATGGTGTATTTTTGGTA-ATACGATTCCACT
1 AATGCAAGTTAAATGACAAATGGTGCATTTTTGGTAGA-AAGGTGCCACT
* * * * * * * **
1042854 AAAGCAAGTTAGATGACAAATGGTGCATATCTAGCATAAAATTGCCACT
1 AATGCAAGTTAAATGACAAATGGTGCATTTTTGGTAGAAAGGTGCCACT
* * *
1042903 AATGCAAGTTAAAT-TCGAATGATGCATTTTT-GTAGAAAGGTGCCACT
1 AATGCAAGTTAAATGACAAATGGTGCATTTTTGGTAGAAAGGTGCCACT
* * *
1042950 AACGCAAGTTAGATGACAAACGGTGCATT
1 AATGCAAGTTAAATGACAAATGGTGCATT
1042979 ATGGTGCATT
Statistics
Matches: 132, Mismatches: 39, Indels: 7
0.74 0.22 0.04
Matches are distributed among these distances:
47 24 0.18
48 23 0.17
49 84 0.64
50 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.30
Consensus pattern (49 bp):
AATGCAAGTTAAATGACAAATGGTGCATTTTTGGTAGAAAGGTGCCACT
Found at i:1042975 original size:96 final size:98
Alignment explanation
Indices: 1042798--1042977 Score: 249
Period size: 96 Copynumber: 1.9 Consensus size: 98
1042788 GGTAGAAAGG
* * * * * *
1042798 TGCCACTGATGCAAGTTAAATGTCTAATGGTGTATTTTTGGTAATACGATTCCACTAAAGCAAGT
1 TGCCACTAATGCAAGTTAAATGTCGAATGATGCATTTTTGGTAATAAGATGCCACTAAAGCAAGT
*
1042863 TAGATGACAAATGGTGCATATCTAGCATAAAAT
66 TAGATGACAAACGGTGCATATCTAGCATAAAAT
* *
1042896 TGCCACTAATGCAAGTTAAAT-TCGAATGATGCATTTTT-GTAGA-AAGGTGCCACTAACGCAAG
1 TGCCACTAATGCAAGTTAAATGTCGAATGATGCATTTTTGGTA-ATAAGATGCCACTAAAGCAAG
1042958 TTAGATGACAAACGGTGCAT
65 TTAGATGACAAACGGTGCAT
1042978 TATGGTGCAT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
96 37 0.51
97 15 0.21
98 20 0.28
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (98 bp):
TGCCACTAATGCAAGTTAAATGTCGAATGATGCATTTTTGGTAATAAGATGCCACTAAAGCAAGT
TAGATGACAAACGGTGCATATCTAGCATAAAAT
Found at i:1043042 original size:46 final size:46
Alignment explanation
Indices: 1042973--1043346 Score: 444
Period size: 46 Copynumber: 8.1 Consensus size: 46
1042963 TGACAAACGG
* * * ** * *
1042973 TGCATTATGGTGCATTATTGGCATTATTGGATGCCAGAAATGAGAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
*
1043019 TGCATAATGGTGCATTATCGGCATGAAAGGA-GTCTATAAATGAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATG-CCATAAATGAAAA
1043065 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
* * * *
1043111 TGCATAACGGTGCATTATTGGCATGAAAAGATGCCATAAATAAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
* * ** * * *
1043157 TGCATAATGGCGCATTATCTGCACAAAATGATGTCATAAATTAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
** * * *
1043203 TGCATAACAGTGCATTATTGGCATGAAAGGATGTCAAAAATGAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
* * **
1043249 TGCATAATGGTGCATTATTGACATGAAAGGATATCATAAATGAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
* * * *
1043295 TGCATAAAGGTGTATTATCGGCATGAAAAGATTCCATAAATGAAAA
1 TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
1043341 TGCATA
1 TGCATA
1043347 GTGTCGCACA
Statistics
Matches: 282, Mismatches: 44, Indels: 4
0.85 0.13 0.01
Matches are distributed among these distances:
45 1 0.00
46 280 0.99
47 1 0.00
ACGTcount: A:0.40, C:0.12, G:0.21, T:0.27
Consensus pattern (46 bp):
TGCATAATGGTGCATTATCGGCATGAAAGGATGCCATAAATGAAAA
Found at i:1047544 original size:49 final size:49
Alignment explanation
Indices: 1047491--1047740 Score: 288
Period size: 49 Copynumber: 5.1 Consensus size: 49
1047481 ATGCCTAACA
*
1047491 TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAATGG
1 TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAACGG
* * * * * * *
1047540 TGCATTTTTTGCAGAAAGGTGCCATTAATACAAGTTAAATGCCTAACAG
1 TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAACGG
* * * *
1047589 TGCATTTTTGGTAGAAATGTGCCACTAATGCAAGTTAGATAACAAATGG
1 TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAACGG
* * * * *
1047638 TGCATTTTTTGCAGAAAGGTGCCACTAATGCAAGCTAAATGCCTAACGG
1 TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAACGG
* * * *
1047687 TGCATTTTAT-GTAGAAATGTGCCACTAATGCATGTTAGAT-ACAAACAG
1 TGCATTTT-TGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAACGG
1047735 TGCATT
1 TGCATT
1047741 ATTGAAATGA
Statistics
Matches: 164, Mismatches: 36, Indels: 3
0.81 0.18 0.01
Matches are distributed among these distances:
48 11 0.07
49 152 0.93
50 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (49 bp):
TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAACGG
Found at i:1047614 original size:98 final size:97
Alignment explanation
Indices: 1047474--1047740 Score: 412
Period size: 98 Copynumber: 2.7 Consensus size: 97
1047464 TCTAAAATGA
* *
1047474 AAGTTAAATGCCTAACA-TGCATTTTTGGCAGAAAGGTGCCACTAATGCAAGTTAGATGACAAAT
1 AAGTTAAATGCCTAACAGTGCATTTTTGGTAGAAATGTGCCACTAATGCAAGTTAGAT-ACAAAT
*
1047538 GGTGCATTTTTTGCAGAAAGGTGCCATTAATAC
65 GGTGCATTTTTTGCAGAAAGGTGCCACTAATAC
1047571 AAGTTAAATGCCTAACAGTGCATTTTTGGTAGAAATGTGCCACTAATGCAAGTTAGATAACAAAT
1 AAGTTAAATGCCTAACAGTGCATTTTTGGTAGAAATGTGCCACTAATGCAAGTTAGAT-ACAAAT
*
1047636 GGTGCATTTTTTGCAGAAAGGTGCCACTAATGC
65 GGTGCATTTTTTGCAGAAAGGTGCCACTAATAC
* * * *
1047669 AAGCTAAATGCCTAACGGTGCATTTTAT-GTAGAAATGTGCCACTAATGCATGTTAGATACAAAC
1 AAGTTAAATGCCTAACAGTGCATTTT-TGGTAGAAATGTGCCACTAATGCAAGTTAGATACAAAT
*
1047733 AGTGCATT
65 GGTGCATT
1047741 ATTGAAATGA
Statistics
Matches: 158, Mismatches: 10, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
97 29 0.18
98 128 0.81
99 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (97 bp):
AAGTTAAATGCCTAACAGTGCATTTTTGGTAGAAATGTGCCACTAATGCAAGTTAGATACAAATG
GTGCATTTTTTGCAGAAAGGTGCCACTAATAC
Found at i:1047786 original size:46 final size:46
Alignment explanation
Indices: 1047747--1048265 Score: 763
Period size: 46 Copynumber: 11.3 Consensus size: 46
1047737 CATTATTGAA
* * *
1047747 ATGAAAGGATGCCATAAATGAAAATGTATAATGGTGCATTATCGAC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
1047793 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
** * *
1047839 ATGAAAGGATATCATAAATGAAAATGCATAACGGTACATTATCGAC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
**
1047885 ATGAAATTATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
*
1047931 ATGAAAGGATGCCATAAATGAAAATGCATAACGTTGCATTATCGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
* *
1047977 ATGAAAGGATGCCATAAATGAAAATGCATAACGTTGCATTATCGAC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
* *
1048023 ATGAAAGGATGTCATAAATGAAAATGCATAACGGTGCATTATTGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
* * * *
1048069 AT-AGAAGGATGACATAAATCAAAATACATAATGGTGCATTATCGGC
1 ATGA-AAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
*
1048115 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGAATTATCGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
* *
1048161 ATGAAATGATGCCATAAATGAAAATGCATAACGGTGCATAATCGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
* * * * * *
1048207 ATGAAAGAATGTCACAAATGAAAATGCATAACAGTGTATTAACGGC
1 ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
*
1048253 ATAAAAGG-TGCCA
1 ATGAAAGGATGCCA
1048266 CTCATGGTAT
Statistics
Matches: 426, Mismatches: 45, Indels: 5
0.89 0.09 0.01
Matches are distributed among these distances:
45 5 0.01
46 420 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.21, T:0.24
Consensus pattern (46 bp):
ATGAAAGGATGCCATAAATGAAAATGCATAACGGTGCATTATCGGC
Found at i:1055378 original size:40 final size:40
Alignment explanation
Indices: 1055331--1055438 Score: 107
Period size: 41 Copynumber: 2.6 Consensus size: 40
1055321 AACTTTAGCA
1055331 GCGTTTTTATAAAAACGCCGCAATAG-GT--TCATCGATAGTG
1 GCGTTTTTATAAAAACGCCGCAA-AGAGTAGT-A-CGATAGTG
**
1055371 GCGTTTTT-TCAACAAACGCCGCAAAGAGTAGTACTTTAGTG
1 GCGTTTTTAT-AA-AAACGCCGCAAAGAGTAGTACGATAGTG
*
1055412 GCGTTTTTATACAAACGCCGCTAAAGA
1 GCGTTTTTATAAAAACGCCGC-AAAGA
1055439 CTCGTAATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
39 1 0.02
40 21 0.36
41 33 0.57
42 2 0.03
43 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (40 bp):
GCGTTTTTATAAAAACGCCGCAAAGAGTAGTACGATAGTG
Found at i:1055411 original size:41 final size:42
Alignment explanation
Indices: 1055366--1055475 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 42
1055356 GGTTCATCGA
* *
1055366 TAGTGGCGTTTTTTCA-ACAAACGCCGC-AAAGAGTAGTACTT
1 TAGTGGCGTTTTTT-ATACAAACGCCGCTAAAGACTAGTAATT
*
1055407 TAGTGGCG-TTTTTATACAAACGCCGCTAAAGACTCGTAATT
1 TAGTGGCGTTTTTTATACAAACGCCGCTAAAGACTAGTAATT
* *
1055448 TAGTGGC-ATTTTTATACAAACACCGCTA
1 TAGTGGCGTTTTTTATACAAACGCCGCTA
1055476 TAGAATTGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 16 0.26
41 45 0.73
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (42 bp):
TAGTGGCGTTTTTTATACAAACGCCGCTAAAGACTAGTAATT
Found at i:1055579 original size:41 final size:41
Alignment explanation
Indices: 1055525--1055839 Score: 371
Period size: 41 Copynumber: 7.7 Consensus size: 41
1055515 CGTTTGTGTT
*
1055525 TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTTTTA
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
* * *
1055566 TACAAATGTCGCTAAAGACTCATACTTTAGTGGCGTTTTTA
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
* * * *
1055607 TACAAACTCCGCTAAAGACGCGTACTTTAGTGACATTTTTA
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
* * * * ** * * *
1055648 TTCAAACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTT
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTT-T-TA
* * *
1055691 TAAAAACGTCGCTAAAGACTCATAATTTAGTGGCATTTTTA
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
* * *
1055732 TACAAACGCCGGTAAAGACTCATACTTTATTGACA-TTTTA
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
*
1055772 TACAAACGCCGCTAAAGACTCGTACTTTAGTGGCATTTTTA
1 TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
* *
1055813 TTCAAACGCCGCTAAAGACTCGTACTT
1 TACAAACGCCGCTAAAGACTCATACTT
1055840 AGTTCAAACG
Statistics
Matches: 226, Mismatches: 45, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
40 36 0.16
41 160 0.71
42 2 0.01
43 28 0.12
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (41 bp):
TACAAACGCCGCTAAAGACTCATACTTTAGTGGCATTTTTA
Found at i:1055730 original size:125 final size:124
Alignment explanation
Indices: 1055525--1055805 Score: 350
Period size: 125 Copynumber: 2.3 Consensus size: 124
1055515 CGTTTGTGTT
* * * * * * * *
1055525 TACAAACGCCGCTAAAGACTCATAATTTAGTGGCATTT-T-TATACAAATGTCGCTAAAGACTCA
1 TACAAACGCCGCTAAACACTCGTACTATAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCA
* * * *
1055588 TACTTTAGTGGCGTTTTTATACAAACTCCGCTAAAGACGCGTACTTTAGTGACATTTTTA
66 TAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACGCATACTTTAGTGACA-TTTTA
* * * *
1055648 TTCAAACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCA
1 TACAAACGCCGCTAAACACTCGTACTATAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCA
* * *
1055713 TAATTTAGTGGCATTTTTATACAAACGCCGGTAAAGACTCATACTTTATTGACATTTTA
66 TAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACGCATACTTTAGTGACATTTTA
* *
1055772 TACAAACGCCGCTAAAGACTCGTACTTTAGTGGC
1 TACAAACGCCGCTAAACACTCGTACTATAGTGGC
1055806 ATTTTTATTC
Statistics
Matches: 131, Mismatches: 25, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
123 29 0.22
124 34 0.26
125 68 0.52
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (124 bp):
TACAAACGCCGCTAAACACTCGTACTATAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCA
TAATTTAGTGGCATTTTTATACAAACGCCGCTAAAGACGCATACTTTAGTGACATTTTA
Found at i:1055759 original size:166 final size:165
Alignment explanation
Indices: 1055485--1055823 Score: 561
Period size: 166 Copynumber: 2.0 Consensus size: 165
1055475 ATAGAATTGT
*
1055485 AAACGCCGTTATACACATGTACTATAGTGGCGTTTGTGTTTACAAACGCCGCTAAAGACTCATAA
1 AAACGCCGTTATACACATGTACTATAGTGGCGTTTGTGTTTAAAAACGCCGCTAAAGACTCATAA
* * * * *
1055550 TTTAGTGGCATTTTTATACAAATGTCGCTAAAGACTCATACTTTAGTGGCGTTTTTATACAAACT
66 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGAC-ATTTTATACAAACG
1055615 CCGCTAAAGACGCGTACTTTAGTGACATTTTTATTC
130 CCGCTAAAGACGCGTACTTTAGTGACATTTTTATTC
* *
1055651 AAACGCCGTTATACACTTGTACTATAGTGGCGTTTGTGTTTAAAAACGTCGCTAAAGACTCATAA
1 AAACGCCGTTATACACATGTACTATAGTGGCGTTTGTGTTTAAAAACGCCGCTAAAGACTCATAA
* *
1055716 TTTAGTGGCATTTTTATACAAACGCCGGTAAAGACTCATACTTTATTGACATTTTATACAAACGC
66 TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGACATTTTATACAAACGC
* *
1055781 CGCTAAAGACTCGTACTTTAGTGGCATTTTTATTC
131 CGCTAAAGACGCGTACTTTAGTGACATTTTTATTC
1055816 AAACGCCG
1 AAACGCCG
1055824 CTAAAGACTC
Statistics
Matches: 161, Mismatches: 12, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
165 54 0.34
166 107 0.66
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (165 bp):
AAACGCCGTTATACACATGTACTATAGTGGCGTTTGTGTTTAAAAACGCCGCTAAAGACTCATAA
TTTAGTGGCATTTTTATACAAACGCCGCTAAAGACTCATACTTTAGTGACATTTTATACAAACGC
CGCTAAAGACGCGTACTTTAGTGACATTTTTATTC
Found at i:1059003 original size:43 final size:43
Alignment explanation
Indices: 1058937--1059202 Score: 288
Period size: 43 Copynumber: 6.2 Consensus size: 43
1058927 AAGGTAATTA
* * * * *
1058937 GCGGTGTTTGTATCCAAAAACGCCGCTATTGGTCTGACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* *
1058980 GCGGCGTTTGTGTTCAAAAACGCCGTTATAGGTCTAACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * *
1059023 GCAGCGTTTGTGTCCAAAAACGCTGCTATAGGTTTAACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* *
1059066 GCGGCGTTTGT-TCTAAAAACGCCAG-TATAGGTCT-TCTCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCC-GCTATAGGTCTAAC-CTTTT
* * *
1059108 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
* * * ** *
1059151 GCGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTTTT
1 GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTC-TAACCTTTT
1059194 GCGGCGTTT
1 GCGGCGTTT
1059203 TTGCTATAGA
Statistics
Matches: 191, Mismatches: 26, Indels: 12
0.83 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 55 0.29
43 134 0.70
44 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (43 bp):
GCGGCGTTTGTGTCCAAAAACGCCGCTATAGGTCTAACCTTTT
Found at i:1059124 original size:85 final size:85
Alignment explanation
Indices: 1058937--1059202 Score: 322
Period size: 85 Copynumber: 3.1 Consensus size: 85
1058927 AAGGTAATTA
* * *
1058937 GCGGTGTTTGTATCCAAAAACGCCGCTATTGGTCTGACTTTTTGCGGCGTTTGTGT-TCAAAAAC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TCT-AAAAAC
1059001 GCCGTTATAGGTCTAACCTTTT
64 GCCGTTATAGGTCTAACCTTTT
* * * * *
1059023 GCAGCGTTTGTGTCCAAAAACGCTGCTATAGGTTTAACCTTTTGCGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
*
1059088 CAG-TATAGGTCT-TCTCTTTT
66 C-GTTATAGGTCTAAC-CTTTT
* * *
1059108 GCGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGC
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
* ** *
1059173 CGCTATATATCATAACTTTTT
66 CGTTATAGGTC-TAACCTTTT
1059194 GCGGCGTTT
1 GCGGCGTTT
1059203 TTGCTATAGA
Statistics
Matches: 153, Mismatches: 21, Indels: 12
0.82 0.11 0.06
Matches are distributed among these distances:
84 2 0.01
85 88 0.58
86 62 0.41
87 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (85 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGC
CGTTATAGGTCTAACCTTTT
Found at i:1059194 original size:128 final size:129
Alignment explanation
Indices: 1058937--1059202 Score: 315
Period size: 128 Copynumber: 2.1 Consensus size: 129
1058927 AAGGTAATTA
* * * *
1058937 GCGGTGTTTGTATCCAAAAACGCCGCTATTGGTCTGACTTTTTGCGGCGTTTGTGTTCAAAAACG
1 GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAAACG
* * * * *
1059002 CCGTTATAGGTCTAACCTTTTGCAGCGTTTGTGTCCAAAAACGCTGCTATAGGTTTAACCTTTT
66 CCGCTATAGATCTAACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGATATAACCTTTT
* *
1059066 GCGGCGTTTGT-TCTAAAAACGCCAG-TATAGGTCT-TCTCTTTTGCGGCGTTTGTATCCAAAAA
1 GCGGCGTTTGTATCCAAAAACGCC-GCTATAGGTCTGACT-TTTTGCGGCGTTTGTATCCAAAAA
* * * * * * *
1059128 CGCCGCTATAGATCTGACCTTTTGCGGCGTTT-TTTCTAGAAACGCCGCTATATATCATAACTTT
64 CGCCGCTATAGATCTAACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGAT-ATAACCTT
1059192 TT
128 TT
1059194 GCGGCGTTT
1 GCGGCGTTT
1059203 TTGCTATAGA
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
127 19 0.16
128 86 0.74
129 11 0.09
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.36
Consensus pattern (129 bp):
GCGGCGTTTGTATCCAAAAACGCCGCTATAGGTCTGACTTTTTGCGGCGTTTGTATCCAAAAACG
CCGCTATAGATCTAACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGCTATAGATATAACCTTTT
Found at i:1059275 original size:74 final size:73
Alignment explanation
Indices: 1059132--1059278 Score: 172
Period size: 74 Copynumber: 2.0 Consensus size: 73
1059122 CAAAAACGCC
* * * * * * * *
1059132 GCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAACTTTTTGCG
1 GCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAACGCCGCTATAGATCATAACCTATTGCA
1059197 GCGTTTTT
66 GCGTTTTT
*
1059205 GCTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAACGCCG-TAATAGAT-ATTGACCTATT
1 GCTATAGATAT-GACCTTTTGCGGCGTTTGTTCAAAAAACGCCGCT-ATAGATCA-TAACCTATT
1059268 GCAGCGTTTTT
63 GCAGCGTTTTT
1059279 TGTTCTCAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
73 12 0.19
74 50 0.81
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (73 bp):
GCTATAGATATGACCTTTTGCGGCGTTTGTTCAAAAAACGCCGCTATAGATCATAACCTATTGCA
GCGTTTTT
Found at i:1059661 original size:34 final size:34
Alignment explanation
Indices: 1059618--1059684 Score: 80
Period size: 34 Copynumber: 2.0 Consensus size: 34
1059608 AAACTAATAA
* * *
1059618 ATTGTTCACTGACGTTATCGATTTATAACAAATT
1 ATTGATCACTAACATTATCGATTTATAACAAATT
* * *
1059652 ATTGATCACTAATATTATTGATTTATAATAAAT
1 ATTGATCACTAACATTATCGATTTATAACAAAT
1059685 CAGTTACTTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.43
Consensus pattern (34 bp):
ATTGATCACTAACATTATCGATTTATAACAAATT
Found at i:1060621 original size:31 final size:31
Alignment explanation
Indices: 1060575--1060650 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
1060565 TAATGTCGAG
* * * *
1060575 TGACCGATTTATTATAAATCGATAATATTAA
1 TGACCAATTTGTTATAAATCGACAACATTAA
* *
1060606 TGACCAATTTGTTATAAATCGACGACATTAG
1 TGACCAATTTGTTATAAATCGACAACATTAA
1060637 TGACCAATTTGTTA
1 TGACCAATTTGTTA
1060651 GTTTTGAAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (31 bp):
TGACCAATTTGTTATAAATCGACAACATTAA
Found at i:1062998 original size:17 final size:15
Alignment explanation
Indices: 1062975--1063019 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 15
1062965 TTTTAAATTC
1062975 TATTTAAATTTTAAT
1 TATTTAAATTTTAAT
*
1062990 TATTGTTAATATTTTATT
1 TA-T-TTAA-ATTTTAAT
1063008 TATTTAAATTTT
1 TATTTAAATTTT
1063020 TTAGTATTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 7 0.27
16 5 0.19
17 5 0.19
18 9 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (15 bp):
TATTTAAATTTTAAT
Found at i:1063037 original size:35 final size:33
Alignment explanation
Indices: 1062975--1063040 Score: 87
Period size: 35 Copynumber: 1.9 Consensus size: 33
1062965 TTTTAAATTC
*
1062975 TATTTAAATTTTAATTATTGTTAATATTTTATT
1 TATTTAAATTTTAAGTATTGTTAATATTTTATT
* *
1063008 TATTTAAATTTTTTAGTATTAGTTTATATTTTA
1 TATTTAAA-TTTTAAGTATT-GTTAATATTTTA
1063041 ATTTCTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 8 0.29
34 9 0.32
35 11 0.39
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.64
Consensus pattern (33 bp):
TATTTAAATTTTAAGTATTGTTAATATTTTATT
Found at i:1072603 original size:82 final size:82
Alignment explanation
Indices: 1072511--1072772 Score: 225
Period size: 82 Copynumber: 3.2 Consensus size: 82
1072501 ATGTCGCGAG
* *
1072511 AGAGTAGTACTTTAGCGTCATTTTTATACAAACGCCGCAATAGGTTCATCA-ATAGTGG-TGTTT
1 AGAGTAGTACTTTAGCGTCATTTTTATAAAAACGCCGCAATAGGGTCAT-ATATAGTGGCT-TTT
1072574 TTTTTAAAAACGCCG-TAA
64 TTTTTAAAAACGCCGCTAA
* * * * * *
1072592 CATAGTTGTACTTTAGTGGT-GTTTTTATAAAAATGCCGCAATAGGGTCATATATGGTGGCTTTT
1 -AGAGTAGTACTTTAG-CGTCATTTTTATAAAAACGCCGCAATAGGGTCATATATAGTGGCTTTT
* *
1072656 TTTTTACAAACTCCGCTAA
64 TTTTTAAAAACGCCGCTAA
* * ** * * *
1072675 AGAGTAGTA-TTGTAGCGGCATTTTTATAAAAATGATGCAATAGGGTTA-AGTATAGTGGC-GTA
1 AGAGTAGTACTT-TAGCGTCATTTTTATAAAAACGCCGCAATAGGGTCATA-TATAGTGGCTTTT
* * *
1072737 TTTTGACAAACGACGCTAA
64 TTTTTAAAAACGCCGCTAA
1072756 AGAGTAGTA-TTGTAGCG
1 AGAGTAGTACTT-TAGCG
1072773 GCGTTTTTTG
Statistics
Matches: 149, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
81 39 0.26
82 104 0.70
83 6 0.04
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.35
Consensus pattern (82 bp):
AGAGTAGTACTTTAGCGTCATTTTTATAAAAACGCCGCAATAGGGTCATATATAGTGGCTTTTTT
TTTAAAAACGCCGCTAA
Found at i:1072781 original size:82 final size:82
Alignment explanation
Indices: 1072613--1072780 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 82
1072603 TTTAGTGGTG
* * * * * **
1072613 TTTTTATAAAAATGCCGCAATAGGGTCATATATGGTGGCTTTTTTTTTACAAACTCCGCTAAAGA
1 TTTTTATAAAAATGACGCAATAGGGTCATATATAGTGGCTGTATTTTGACAAACGACGCTAAAGA
1072678 GTAGTATTGTAGCGGCA
66 GTAGTATTGTAGCGGCA
* *
1072695 TTTTTATAAAAATGATGCAATAGGGTTA-AGTATAGTGGC-GTATTTTGACAAACGACGCTAAAG
1 TTTTTATAAAAATGACGCAATAGGGTCATA-TATAGTGGCTGTATTTTGACAAACGACGCTAAAG
*
1072758 AGTAGTATTGTAGCGGCG
65 AGTAGTATTGTAGCGGCA
1072776 TTTTT
1 TTTTT
1072781 TGACAAACGC
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
81 42 0.56
82 33 0.44
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (82 bp):
TTTTTATAAAAATGACGCAATAGGGTCATATATAGTGGCTGTATTTTGACAAACGACGCTAAAGA
GTAGTATTGTAGCGGCA
Found at i:1072817 original size:40 final size:39
Alignment explanation
Indices: 1072727--1072831 Score: 104
Period size: 40 Copynumber: 2.6 Consensus size: 39
1072717 GGGTTAAGTA
* *
1072727 TAGTGGCGTATTTTGACAAACGACGCTAAAGAGTAGTATTG
1 TAGTGGCGTTTTTTGACAAACG-C-CTAAAGACTAGTATTG
* ** * *
1072768 TAGCGGCGTTTTTTGACAAACGCCATGTAGACTTGTATTT
1 TAGTGGCGTTTTTTGACAAACGCC-TAAAGACTAGTATTG
1072808 TAGTGGCGTTTTTAT-ACAAACGCC
1 TAGTGGCGTTTTT-TGACAAACGCC
1072832 GCTATGGACT
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 32 0.59
41 21 0.39
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (39 bp):
TAGTGGCGTTTTTTGACAAACGCCTAAAGACTAGTATTG
Found at i:1074107 original size:13 final size:13
Alignment explanation
Indices: 1074089--1074140 Score: 86
Period size: 13 Copynumber: 4.0 Consensus size: 13
1074079 GCCATAAATC
1074089 TATGACGCGCATT
1 TATGACGCGCATT
*
1074102 TATGACACGCATT
1 TATGACGCGCATT
1074115 TATGACGCGCATT
1 TATGACGCGCATT
*
1074128 TATGACGCTCATT
1 TATGACGCGCATT
1074141 GCACGTCATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (13 bp):
TATGACGCGCATT
Found at i:1077005 original size:64 final size:66
Alignment explanation
Indices: 1076909--1077117 Score: 236
Period size: 65 Copynumber: 3.2 Consensus size: 66
1076899 TTTCAAAGTG
* * * **
1076909 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CTAGCCATGCATCGATGCACTCATGGAATATTTTGAAACATCGAATGCATT
1076972 TC
65 TC
* * *
1076974 ATGCATCGATGCACATA-CTATGCATCGATGCACTCA--GAGT-TTTATGAAAACATCGAGTGCA
1 ATGCATCGATGCAC-TAGCCATGCATCGATGCACTCATGGAATATTT-TG-AAACATCGAATGCA
*
1077035 TTTG
63 TTTC
*
1077039 ATGCATCGATGCACTAGCCATGCATCGATGCACTC-TGG-CTATTTTGAAACATCGAATGCATTT
1 ATGCATCGATGCACTAGCCATGCATCGATGCACTCATGGAATATTTTGAAACATCGAATGCATTT
1077102 C
66 C
1077103 ATGCATCGATGCACT
1 ATGCATCGATGCACT
1077118 CTTAGTGCAC
Statistics
Matches: 123, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 1 0.01
63 5 0.04
64 49 0.40
65 64 0.52
66 4 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (66 bp):
ATGCATCGATGCACTAGCCATGCATCGATGCACTCATGGAATATTTTGAAACATCGAATGCATTT
C
Found at i:1086035 original size:65 final size:65
Alignment explanation
Indices: 1085960--1086152 Score: 180
Period size: 65 Copynumber: 3.0 Consensus size: 65
1085950 GCACTAAGAG
* * *
1085960 TGCATTCGATGTTTT-A-AAAATAGCCAGAGTGTATCGATGCATGGCT-GGTGCATCGATGCATC
1 TGCATTCGATGTTTTCATAAAAT--CCAGAGTGCATCGATGCAT-GATACGTGCATCGATGCATC
1086022 AAA
63 AAA
** * *
1086025 TGCATTCGATGTTTTCATAAAATCCTTAGTGCATCGGTGCATGATACGTGCATCGATGCATGAAA
1 TGCATTCGATGTTTTCATAAAATCCAGAGTGCATCGATGCATGATACGTGCATCGATGCATCAAA
* ** * ** *
1086090 TGCATTCGATG-TTTAATTTAATTCATG-GTGCATCGATGCATGGATTGGTGCATCAATGCATCA
1 TGCATTCGATGTTTTCATAAAATCCA-GAGTGCATCGATGCAT-GATACGTGCATCGATGCATCA
1086153 CTCTGAAAAA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
64 24 0.23
65 75 0.71
66 1 0.01
67 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.33
Consensus pattern (65 bp):
TGCATTCGATGTTTTCATAAAATCCAGAGTGCATCGATGCATGATACGTGCATCGATGCATCAAA
Done.