Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000074.1 Hibiscus syriacus cultivar Beakdansim tig00000136_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: 1055225
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 5
Found at i:741026 original size:20 final size:20
Alignment explanation
Indices: 741001--741038 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
740991 AAAACTTACA
*
741001 GAGGGGTATCGGTACCCTAT
1 GAGGGGTATCGATACCCTAT
741021 GAGGGGTATCGATACCCT
1 GAGGGGTATCGATACCCT
741039 CTGGGCAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.24
Consensus pattern (20 bp):
GAGGGGTATCGATACCCTAT
Found at i:743138 original size:13 final size:13
Alignment explanation
Indices: 743120--743153 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
743110 AATGGGCGAT
*
743120 TTTGAAAACTTTA
1 TTTGAAAACTATA
*
743133 TTTGAAAACTATG
1 TTTGAAAACTATA
743146 TTTGAAAA
1 TTTGAAAA
743154 TCAATATGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (13 bp):
TTTGAAAACTATA
Found at i:743657 original size:23 final size:23
Alignment explanation
Indices: 743611--743712 Score: 156
Period size: 23 Copynumber: 4.6 Consensus size: 23
743601 AACCCGATGA
*
743611 GGGTATCGGTA-CCA-TC-ATGG
1 GGGTATCGGTACCCATTCAAAGG
*
743631 GGGTATCAGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGG
743654 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGG
743677 GGGTATCGGTACCCATTCAAAGG
1 GGGTATCGGTACCCATTCAAAGG
*
743700 GGGTATCGATACC
1 GGGTATCGGTACC
743713 TAGTGCACAA
Statistics
Matches: 75, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
20 10 0.13
21 3 0.04
22 2 0.03
23 60 0.80
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (23 bp):
GGGTATCGGTACCCATTCAAAGG
Found at i:748912 original size:16 final size:16
Alignment explanation
Indices: 748891--748926 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
748881 TTGCACAATG
748891 ATTTAGAGTGGTTCGA
1 ATTTAGAGTGGTTCGA
748907 ATTTAGAGTGGTTCGA
1 ATTTAGAGTGGTTCGA
748923 ATTT
1 ATTT
748927 CTCAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.06, G:0.28, T:0.42
Consensus pattern (16 bp):
ATTTAGAGTGGTTCGA
Found at i:750659 original size:2 final size:2
Alignment explanation
Indices: 750652--750676 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
750642 GAAGATAACG
750652 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
750677 CATACAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:751296 original size:16 final size:16
Alignment explanation
Indices: 751275--751306 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
751265 TAAGGTATGT
751275 AAATAAAAGAGCAAGA
1 AAATAAAAGAGCAAGA
*
751291 AAATAAAAGTGCAAGA
1 AAATAAAAGAGCAAGA
751307 CTTAACGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.06, G:0.19, T:0.09
Consensus pattern (16 bp):
AAATAAAAGAGCAAGA
Found at i:754207 original size:17 final size:17
Alignment explanation
Indices: 754173--754244 Score: 63
Period size: 17 Copynumber: 4.2 Consensus size: 17
754163 AATTAAGAGT
* * *
754173 TAGTGTAATAAATAAAC
1 TAGTTTAATGAATGAAC
*
754190 TAGTTTGATGAATGAAC
1 TAGTTTAATGAATGAAC
*
754207 TAGTTTAATTAATGAAC
1 TAGTTTAATGAATGAAC
* * *
754224 TAACTTTATTCAATGAAC
1 T-AGTTTAATGAATGAAC
754242 TAG
1 TAG
754245 ATGCATGAAT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
17 30 0.68
18 14 0.32
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (17 bp):
TAGTTTAATGAATGAAC
Found at i:754238 original size:18 final size:18
Alignment explanation
Indices: 754200--754243 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
754190 TAGTTTGATG
*
754200 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
754217 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
754234 CAATGAACTA
1 -AATGAACTA
754244 GATGCATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:755157 original size:23 final size:23
Alignment explanation
Indices: 755131--755179 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
755121 TCCCGAAGAA
*
755131 CCACATAGGTTTGCA-TCGAAGTG
1 CCACATAGGGTTGCACT-GAAGTG
*
755154 CCACATAGGGTTGTACTGAAGTG
1 CCACATAGGGTTGCACTGAAGTG
755177 CCA
1 CCA
755180 TATAATTGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (23 bp):
CCACATAGGGTTGCACTGAAGTG
Found at i:760011 original size:23 final size:23
Alignment explanation
Indices: 759950--760033 Score: 95
Period size: 23 Copynumber: 3.7 Consensus size: 23
759940 CATCTCGTAA
*
759950 TTTGCACCGAAGTGCCACATA-A
1 TTTGCACCGAAGTGCCACATAGG
759972 TTAT-C-CCGAAG-GACCACATAGG
1 TT-TGCACCGAAGTG-CCACATAGG
759994 TTTGCACCGAAGTGCCACATAGG
1 TTTGCACCGAAGTGCCACATAGG
* *
760017 GTTACACCGAAGTGCCA
1 TTTGCACCGAAGTGCCA
760034 TATAATTCTC
Statistics
Matches: 53, Mismatches: 3, Indels: 11
0.79 0.04 0.16
Matches are distributed among these distances:
20 1 0.02
21 14 0.26
22 6 0.11
23 31 0.58
24 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.23, T:0.20
Consensus pattern (23 bp):
TTTGCACCGAAGTGCCACATAGG
Found at i:764823 original size:17 final size:17
Alignment explanation
Indices: 764801--764862 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 17
764791 TTTTTTATTA
*
764801 AATGAACTAGTTTGATG
1 AATGAACTAGTTTAATG
*
764818 AATGAACTAGTTTAATT
1 AATGAACTAGTTTAATG
* * *
764835 AATGAACTAACTTTATTC
1 AATGAACT-AGTTTAATG
764853 AATGAACTAG
1 AATGAACTAG
764863 AAGAATGAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
17 24 0.63
18 14 0.37
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (17 bp):
AATGAACTAGTTTAATG
Found at i:764856 original size:18 final size:18
Alignment explanation
Indices: 764818--764861 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
764808 TAGTTTGATG
*
764818 AATGAACT-AGTTTAATT
1 AATGAACTAACTTTAATT
764835 AATGAACTAACTTT-ATT
1 AATGAACTAACTTTAATT
764852 CAATGAACTA
1 -AATGAACTA
764862 GAAGAATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTAATT
Found at i:764960 original size:17 final size:18
Alignment explanation
Indices: 764938--764983 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
764928 ACTAGATGCT
764938 TTAAATGCAATGCA-TGA
1 TTAAATGCAATGCATTGA
** *
764955 TTAAATG-AACACATTTA
1 TTAAATGCAATGCATTGA
764972 TTAAATGCAATG
1 TTAAATGCAATG
764984 AATGTCATGC
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
16 4 0.18
17 16 0.73
18 2 0.09
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (18 bp):
TTAAATGCAATGCATTGA
Found at i:767313 original size:14 final size:14
Alignment explanation
Indices: 767296--767327 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
767286 TCTATATTTT
767296 TTTTAATTTTTTAA
1 TTTTAATTTTTTAA
*
767310 TTTTAATTTTTTTA
1 TTTTAATTTTTTAA
767324 TTTT
1 TTTT
767328 TTTACTAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTAATTTTTTAA
Found at i:768866 original size:17 final size:17
Alignment explanation
Indices: 768819--768889 Score: 72
Period size: 17 Copynumber: 4.2 Consensus size: 17
768809 AATTAAGAGT
* * *
768819 TAGTTTAATAAATCAAT
1 TAGTTTAATTAATGAAC
* *
768836 TAGTTTGATGAATGAAC
1 TAGTTTAATTAATGAAC
768853 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
768870 TAATTT-ATTCAATGAAC
1 TAGTTTAATT-AATGAAC
768887 TAG
1 TAG
768890 ATGCATGAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
16 3 0.07
17 42 0.93
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:782728 original size:105 final size:105
Alignment explanation
Indices: 782554--783307 Score: 1215
Period size: 105 Copynumber: 7.2 Consensus size: 105
782544 GACAATTTTG
* * *
782554 GAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGATAACGCAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
*
782619 GAAGGGACCGCTGGTTGTCAATAACAACTTCCCAATTTCA
66 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
* *
782659 GAGCCAATTTCAACCTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
782724 GAAGGGACCGCT-GTTGTCAACAACAACTTCCCAATTTCA
66 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
*
782763 GAGCCAATTTCAAGTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* *
782828 GAAGGGACCGCTGTTTGTCAACAACAACTTCTCAATTTCA
66 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
*
782868 GAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* * * *
782933 GAAGGGACCACTGGTTGTCAATAATAACTTCCCAGTTTCA
66 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
* * **
782973 GAGCCAATTTCAACTTCACAGCGAAGGACATTGGACTCTAGACAACATAAGTTCAACTTCACGAC
1 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
783038 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
66 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
* * * * *
783078 AAGCCCATTTTTAACTTCACAGCGAAGGATATTGGACTCCAGA-AATGTAAGTTCAACTTCACGA
1 GAG-CCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
783142 CGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
65 CGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
* * * *
783183 GAGCCAATTTCAACTTTACAGCGAAGGATATTGGACTCTAGACAACACAAGTTCAAATTCACGAC
1 GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
* *
783248 GAAGGGACCGCTGGTTGTCAACAACAATTTCCTAATTTCA
66 GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
783288 GAGCCAATTTTCAACTTCAC
1 GAGCCAA-TTTCAACTTCAC
783308 GGTGAAAGAT
Statistics
Matches: 600, Mismatches: 45, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
104 135 0.22
105 419 0.70
106 46 0.08
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (105 bp):
GAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGAC
GAAGGGACCGCTGGTTGTCAACAACAACTTCCCAATTTCA
Found at i:785219 original size:2 final size:2
Alignment explanation
Indices: 785212--785241 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
785202 TTATTACTAT
785212 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
785242 CATTTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:786056 original size:16 final size:16
Alignment explanation
Indices: 786016--786056 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
786006 GTTCCTTTCA
*
786016 TCCACTC-TCTCATTT
1 TCCACTCTTTTCATTT
*
786031 T-CATTCTTTTCATTT
1 TCCACTCTTTTCATTT
786046 TCCACTCTTTT
1 TCCACTCTTTT
786057 TATTCCATGC
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
14 4 0.19
15 9 0.43
16 8 0.38
ACGTcount: A:0.12, C:0.32, G:0.00, T:0.56
Consensus pattern (16 bp):
TCCACTCTTTTCATTT
Found at i:788748 original size:17 final size:17
Alignment explanation
Indices: 788701--788750 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
788691 TAAGAGTTAA
*
788701 TTTAATAAATGAAATAG
1 TTTAATAAATGAACTAG
* *
788718 TTTGATGAATGAACTAG
1 TTTAATAAATGAACTAG
*
788735 TTTAATTAATGAACTA
1 TTTAATAAATGAACTA
788751 ACTTTATCCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.44, C:0.04, G:0.14, T:0.38
Consensus pattern (17 bp):
TTTAATAAATGAACTAG
Found at i:790823 original size:39 final size:39
Alignment explanation
Indices: 790779--791129 Score: 160
Period size: 39 Copynumber: 8.7 Consensus size: 39
790769 AAATAAATTC
790779 AATCCAACGATTTATTTTCTTTTACAAAATAGGAAAAAA
1 AATCCAACGATTTATTTTCTTTTACAAAATAGGAAAAAA
* ** *
790818 AATCCAATGATTTA-TTTCTTTTTACAAACCATAATAATATAA
1 AATCCAACGATTTATTTTC-TTTTACAAA--ATAGGAA-AAAA
* * **
790860 ATTCCAAAAAAGTCATTGATTTATTTTCTTTTACAAAACAAAAAAAATA
1 AATCC----AA--C---GATTTATTTTCTTTTACAAAATAGGAAAAA-A
* * * * *
790909 AATCTAATGATTTATTTCCTTTTACAAAACAGGAAAATA
1 AATCCAACGATTTATTTTCTTTTACAAAATAGGAAAAAA
* * *
790948 AACCCAACAAATTATTTAT-TTTTACAAAATA-GAAAAATA
1 AATCCAACGATTTATTT-TCTTTTACAAAATAGGAAAAA-A
* * *
790987 AATTCAACGAGTTATTTCCTTTTACAAAATA-GAAAAATA
1 AATCCAACGATTTATTTTCTTTTACAAAATAGGAAAAA-A
** ** * * * *
791026 AATTAAAAAATTCA-CTTCATTTTACAAAACAAGG-AAATA
1 AATCCAACGATTTATTTTC-TTTTACAAAA-TAGGAAAAAA
* ** *
791065 AATCTAACGGA-TTA-TTTCTTTTTGTAAAATAGGAAAATA
1 AATCCAAC-GATTTATTTTC-TTTTACAAAATAGGAAAAAA
**
791104 AATCCAAATATTTATTTTCTTTTACA
1 AATCCAACGATTTATTTTCTTTTACA
791130 CACTAGAATC
Statistics
Matches: 234, Mismatches: 53, Indels: 50
0.69 0.16 0.15
Matches are distributed among these distances:
38 15 0.06
39 137 0.59
40 35 0.15
41 6 0.03
42 7 0.03
45 2 0.01
46 2 0.01
48 2 0.01
49 9 0.04
51 15 0.06
52 4 0.02
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.36
Consensus pattern (39 bp):
AATCCAACGATTTATTTTCTTTTACAAAATAGGAAAAAA
Found at i:791010 original size:78 final size:79
Alignment explanation
Indices: 790880--791129 Score: 219
Period size: 78 Copynumber: 3.2 Consensus size: 79
790870 AGTCATTGAT
* * *
790880 TTATTTTCTTTTACAAAACAAAAAAAATAAATCTAATGATTTATTTCCTTTTACAAAACAGGAAA
1 TTATTTTCTTTTACAAAACAAAAAAAATAAATCTAACGAGTTATTTCCTTTTACAAAACAGAAAA
790945 ATAAACCCAACAAA
66 ATAAACCCAACAAA
* * *
790959 TTATTTAT-TTTTACAAAA-TAGAAAAATAAAT-TCAACGAGTTATTTCCTTTTACAAAATAGAA
1 TTATTT-TCTTTTACAAAACAAAAAAAATAAATCT-AACGAGTTATTTCCTTTTACAAAACAGAA
** *
791021 AAATAAA-TTAAAAAA
64 AAATAAACCCAACAAA
* ** * ** * *
791036 TTCA-CTTCATTTTACAAAAC-AAGGAAATAAATCTAACG-GATTATTTCTTTTTGTAAAATAGG
1 TT-ATTTTC-TTTTACAAAACAAAAAAAATAAATCTAACGAG-TTATTTCCTTTTACAAAACAGA
* *
791098 AAAATAAATCCAA-ATAT
63 AAAATAAACCCAACA-AA
791115 TTATTTTCTTTTACA
1 TTATTTTCTTTTACA
791130 CACTAGAATC
Statistics
Matches: 139, Mismatches: 21, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
76 1 0.01
77 10 0.07
78 102 0.73
79 25 0.18
80 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.36
Consensus pattern (79 bp):
TTATTTTCTTTTACAAAACAAAAAAAATAAATCTAACGAGTTATTTCCTTTTACAAAACAGAAAA
ATAAACCCAACAAA
Found at i:791137 original size:117 final size:117
Alignment explanation
Indices: 790877--791137 Score: 283
Period size: 117 Copynumber: 2.2 Consensus size: 117
790867 AAAAGTCATT
* * ** * * *
790877 GATTTATTTTCTTTTACAAAACAAAAAAAATAAATCTAATGATTTATTTCCTTTTACAAAACAGG
1 GATTTATTTTCTTTTAC-AAACTAGAAAAATAAATCTAAAAATTCACTTCATTTTACAAAACAGG
* *
790942 AAAATAAACCCAACAAATTATTTATTTTTACAAAATAGAAAAATAAATTCAAC
65 AAAATAAACCCAACAAATTATTTATTTTTACAAAATAGAAAAATAAATCCAAA
* * *
790995 GAGTTATTTCCTTTTACAAAATAGAAAAATAAAT-TAAAAAATTCACTTCATTTTACAAAACAAG
1 GATTTATTTTCTTTTACAAACTAGAAAAATAAATCT-AAAAATTCACTTCATTTTACAAAAC-AG
* * ** * ** *
791059 G-AAATAAATCTAACGGATTATTTCTTTTTGTAAAATAGGAAAATAAATCCAAA
64 GAAAATAAACCCAACAAATTATTTATTTTTACAAAATAGAAAAATAAATCCAAA
* *
791112 TATTTATTTTCTTTTACACACTAGAA
1 GATTTATTTTCTTTTACAAACTAGAA
791138 TCATATAAGA
Statistics
Matches: 116, Mismatches: 25, Indels: 5
0.79 0.17 0.03
Matches are distributed among these distances:
116 1 0.01
117 97 0.84
118 18 0.16
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.35
Consensus pattern (117 bp):
GATTTATTTTCTTTTACAAACTAGAAAAATAAATCTAAAAATTCACTTCATTTTACAAAACAGGA
AAATAAACCCAACAAATTATTTATTTTTACAAAATAGAAAAATAAATCCAAA
Found at i:791320 original size:58 final size:58
Alignment explanation
Indices: 791194--791509 Score: 329
Period size: 58 Copynumber: 5.4 Consensus size: 58
791184 TACGAACTAG
* * * * *
791194 GGAAATAAATTCAATGATTTA-TTTCCTTTATATA-TTAGGATCCTTCAAGATTC-CTAA
1 GGAAATAAATTCAACGATTTATTTTCC-TTACAAAGTTAGAATCATTCAAGATTCTC-AA
* * * * *
791251 GAAAATAAATTCAAAC-ATTTATTTACTTTTACAAA-ATATAATCATTCAAGATTCTCAA
1 GGAAATAAATTC-AACGATTTATTTTC-CTTACAAAGTTAGAATCATTCAAGATTCTCAA
*
791309 GGAAATAAATTCAACTATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAA
1 GGAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAA
* *
791367 GGAGATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTTAAGATTCTCAA
1 GGAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAA
* * * * *
791425 AGAAATAAATTCAACGATTTA-TTTCATTTCAAAGTTAGAATCAACTCAAAATTCTAACAA
1 GGAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATC-ATTCAAGATTCT--CAA
* * **
791485 TGAAATAAATCCATTGATTTATTTT
1 GGAAATAAATTCAACGATTTATTTT
791510 TCTTTCTTTT
Statistics
Matches: 220, Mismatches: 29, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
57 45 0.20
58 151 0.69
59 1 0.00
60 20 0.09
61 3 0.01
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (58 bp):
GGAAATAAATTCAACGATTTATTTTCCTTACAAAGTTAGAATCATTCAAGATTCTCAA
Found at i:791700 original size:45 final size:45
Alignment explanation
Indices: 791645--791887 Score: 243
Period size: 45 Copynumber: 5.4 Consensus size: 45
791635 TTAAGTTTAG
* *
791645 CAACCCAATAATCAAAAGGAACTGATCCTTTTATTTTAATTTTCA
1 CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTTCA
* * * * *
791690 CAATCCAATAATCAAAATGAACTAATTCTTTGATTTTAAGTTTCG
1 CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTTCA
* * * *
791735 CAACCCAATAATCAAAAGGAAATGATCCCTTGATTTTAATTTCCA
1 CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTTCA
* * * ** * **
791780 CAACCCAATAATCGAAAGGAAGTAATCATTTTCTTTTAATTGTGT
1 CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTTCA
* * * * **
791825 TAAGCTAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGG
1 CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTTCA
* *
791870 TAACACAATAATCAAAAG
1 CAACCCAATAATCAAAAG
791888 CCTTGGATTA
Statistics
Matches: 157, Mismatches: 41, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
45 157 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (45 bp):
CAACCCAATAATCAAAAGGAACTAATCCTTTGATTTTAATTTTCA
Found at i:791740 original size:90 final size:89
Alignment explanation
Indices: 791634--791887 Score: 278
Period size: 90 Copynumber: 2.8 Consensus size: 89
791624 GAATTAATCA
* *
791634 TTTAAGTTTAGCAACCCAATAATCAAAAGGAACTGATCCTTTTATTTTAATTTTCACAATCCAAT
1 TTTAAGTTT-GCAACCCAATAATCAAAAGGAACTGATCCTTTGATTTTAATTTTCACAACCCAAT
*
791699 AATCAAAATGAACTAATTC-TTTGAT
65 AATCAAAAGGAACTAA-TCATTTGAT
* * *
791724 TTTAAGTTTCGCAACCCAATAATCAAAAGGAAATGATCCCTTGATTTTAATTTCCACAACCCAAT
1 TTTAAGTTT-GCAACCCAATAATCAAAAGGAACTGATCCTTTGATTTTAATTTTCACAACCCAAT
* * **
791789 AATCGAAAGGAAGTAATCATTTTCT
65 AATCAAAAGGAACTAATCATTTGAT
* * * * * *** *
791814 TTTAA-TTGTGTTAAGCTAATAATCAAAAGGAACTAATCCTTTGATTTTACTTTTGGTAACACAA
1 TTTAAGTT-TG-CAACCCAATAATCAAAAGGAACTGATCCTTTGATTTTAATTTTCACAACCCAA
791878 TAATCAAAAG
64 TAATCAAAAG
791888 CCTTGGATTA
Statistics
Matches: 137, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
89 5 0.04
90 132 0.96
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.35
Consensus pattern (89 bp):
TTTAAGTTTGCAACCCAATAATCAAAAGGAACTGATCCTTTGATTTTAATTTTCACAACCCAATA
ATCAAAAGGAACTAATCATTTGAT
Found at i:791879 original size:135 final size:135
Alignment explanation
Indices: 791645--791887 Score: 324
Period size: 135 Copynumber: 1.8 Consensus size: 135
791635 TTAAGTTTAG
* * * * *
791645 CAACCCAATAATCAAAAGGAACTGATCCTTTTATTTTAATTTTCACAATCCAATAATCAAAATGA
1 CAACCCAATAATCAAAAGGAACTAATCATTTTATTTTAATTGTCACAAGCCAATAATCAAAAGGA
* *
791710 ACTAATTCTTTGATTTTAAGTTTCGCAACCCAATAATCAAAAGGAAATGATCCCTTGATTTTAAT
66 ACTAATCCTTTGATTTTAAGTTTCGCAACACAATAATCAAAAGGAAATGATCCCTTGATTTTAAT
791775 TTCCA
131 TTCCA
* * * *** *
791780 CAACCCAATAATCGAAAGGAAGTAATCATTTTCTTTTAATTGTGTTAAGCTAATAATCAAAAGGA
1 CAACCCAATAATCAAAAGGAACTAATCATTTTATTTTAATTGTCACAAGCCAATAATCAAAAGGA
** * *
791845 ACTAATCCTTTGATTTTACTTTTGGTAACACAATAATCAAAAG
66 ACTAATCCTTTGATTTTAAGTTTCGCAACACAATAATCAAAAG
791888 CCTTGGATTA
Statistics
Matches: 90, Mismatches: 18, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
135 90 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (135 bp):
CAACCCAATAATCAAAAGGAACTAATCATTTTATTTTAATTGTCACAAGCCAATAATCAAAAGGA
ACTAATCCTTTGATTTTAAGTTTCGCAACACAATAATCAAAAGGAAATGATCCCTTGATTTTAAT
TTCCA
Found at i:795808 original size:137 final size:136
Alignment explanation
Indices: 795523--795809 Score: 382
Period size: 137 Copynumber: 2.1 Consensus size: 136
795513 TTTCTTAGCA
* * *
795523 TTGAAGACGTCTAGATGTATTTTGATAATTTAGGGAAACACAATTCCTTCTTGTTGAGGAAATAT
1 TTGAAGACGTCTAGAAGTATTTTGATAATTTAGAGAAACACAATTCCTTCGTGTTGAGGAAATAT
* * *
795588 GATTGTCTGATGATGACACTTCTCCTTTAAGTTGAGGAGATCTGGTCGATGGATGACATTATCCC
66 GATTGTCTGAAGATGACACTGCTCCTTTAAGTTGAGGAGATATGGTCGATGGATGACATTATCCC
*
795653 TTTATG
131 TTCATG
* * *
795659 TTG-AGAAGGTCTAGAAGTA-TTTGTATAATTTAGAGATAACACGATTCCTTCGTGTTGAGGAAG
1 TTGAAG-ACGTCTAGAAGTATTTTG-ATAATTTAGAGA-AACACAATTCCTTCGTGTTGAGGAAA
* ** * *
795722 TTTGATTGTCTGAAGATGACACTGCTCCTTTTTGTTGAGGAGATATGGTCGGTGGATGACATT-G
63 TATGATTGTCTGAAGATGACACTGCTCCTTTAAGTTGAGGAGATATGGTCGATGGATGACATTAT
795786 CTCCTTCATG
128 C-CCTTCATG
795796 TTGAAGACGTCTAG
1 TTGAAGACGTCTAG
795810 TTGTACTTTA
Statistics
Matches: 130, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
135 6 0.05
136 26 0.20
137 96 0.74
138 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (136 bp):
TTGAAGACGTCTAGAAGTATTTTGATAATTTAGAGAAACACAATTCCTTCGTGTTGAGGAAATAT
GATTGTCTGAAGATGACACTGCTCCTTTAAGTTGAGGAGATATGGTCGATGGATGACATTATCCC
TTCATG
Found at i:798677 original size:13 final size:13
Alignment explanation
Indices: 798643--798737 Score: 68
Period size: 13 Copynumber: 7.1 Consensus size: 13
798633 ATCCATTTTC
*
798643 TTTC-TTTTCCTT
1 TTTCTTTTTTCTT
798655 TGTTCTTTTTTCTT
1 T-TTCTTTTTTCTT
*
798669 TTCTCTTTTTT-TCC
1 TT-TCTTTTTTCT-T
* *
798683 CTTCTTTTTTCCT
1 TTTCTTTTTTCTT
* *
798696 CTTATTTTTTCTT
1 TTTCTTTTTTCTT
*
798709 TTTCTTTTCTTTTTT
1 TTTC-TTT-TTTCTT
798724 TTTCTTTTTTCTT
1 TTTCTTTTTTCTT
798737 T
1 T
798738 CTTTTTCTTC
Statistics
Matches: 65, Mismatches: 11, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
12 1 0.02
13 32 0.49
14 23 0.35
15 9 0.14
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.78
Consensus pattern (13 bp):
TTTCTTTTTTCTT
Found at i:798698 original size:10 final size:10
Alignment explanation
Indices: 798660--798749 Score: 71
Period size: 10 Copynumber: 9.0 Consensus size: 10
798650 TCCTTTGTTC
798660 TTTT-TTCTT
1 TTTTCTTCTT
*
798669 TTCTCTT-TT
1 TTTTCTTCTT
*
798678 TTTCCCTTCTT
1 TTT-TCTTCTT
*
798689 TTTTCCTCTT
1 TTTTCTTCTT
798699 ATTTT-TTCTT
1 -TTTTCTTCTT
*
798709 TTTCTTTTCTT
1 TTT-TCTTCTT
*
798720 TTTTTTTCTT
1 TTTTCTTCTT
798730 TTTTCTT-TCT
1 TTTTCTTCT-T
798740 TTTTCTTCTT
1 TTTTCTTCTT
798750 CGCCTTGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
9 11 0.17
10 37 0.56
11 18 0.27
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTCTTCTT
Found at i:798728 original size:21 final size:21
Alignment explanation
Indices: 798638--798743 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
798628 ACTTGATCCA
798638 TTTTC-TTTCTTTTCCTTTGTTCTT
1 TTTTCTTTTCTTTT--TTT-TTC-T
*
798662 TTTTCTTTTCTCTTTTTTTCCCT
1 TTTTCTTTTCT-TTTTTTT-TCT
*
798685 TCTTT-TTTCCTCTTATTTTTTCT
1 T-TTTCTTT--TCTTTTTTTTTCT
798708 TTTTCTTTTCTTTTTTTTTCT
1 TTTTCTTTTCTTTTTTTTTCT
798729 TTTT-TCTTTCTTTTT
1 TTTTCT-TTTCTTTTT
798744 CTTCTTCGCC
Statistics
Matches: 70, Mismatches: 4, Indels: 19
0.75 0.04 0.20
Matches are distributed among these distances:
20 1 0.01
21 25 0.36
22 3 0.04
23 12 0.17
24 18 0.26
25 8 0.11
26 3 0.04
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTCTTTTTTTTTCT
Found at i:798749 original size:41 final size:44
Alignment explanation
Indices: 798661--798749 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 44
798651 CCTTTGTTCT
*
798661 TTTTTCTTTTCTCTTTTTTTCCCTTCTTTTTTCCTCTTATTTTTTC
1 TTTTTCTTTTCTCTTTTTTT--CTTCTTTTTTCCTCTTATTTCTTC
*
798707 TTTTTC-TTT-TCTTTTTTT-TTCTTTTTTCTTTCTT-TTTCTTC
1 TTTTTCTTTTCTCTTTTTTTCTTCTTTTTTC-CTCTTATTTCTTC
798748 TT
1 TT
798750 CGCCTTGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
41 18 0.45
42 4 0.10
44 9 0.22
45 3 0.08
46 6 0.15
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (44 bp):
TTTTTCTTTTCTCTTTTTTTCTTCTTTTTTCCTCTTATTTCTTC
Found at i:806515 original size:4 final size:4
Alignment explanation
Indices: 806506--806552 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
806496 TTCTTCACGA
*
806506 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG ACAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
806553 AAACCCCATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.74, C:0.02, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:807852 original size:21 final size:22
Alignment explanation
Indices: 807827--807874 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
807817 GATAATAAAA
807827 ATAAAAGT-ACAAAAAATAGTAT
1 ATAAAA-TAACAAAAAATAGTAT
*
807849 -T-AAATAATAAAAAATAGTAT
1 ATAAAATAACAAAAAATAGTAT
807869 ATAAAA
1 ATAAAA
807875 AATATACGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 6
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.05
20 16 0.73
21 2 0.09
22 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.25
Consensus pattern (22 bp):
ATAAAATAACAAAAAATAGTAT
Found at i:807862 original size:20 final size:21
Alignment explanation
Indices: 807837--807878 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
807827 ATAAAAGTAC
*
807837 AAAAAATAGTAT-TAAATAAT
1 AAAAAATAGTATATAAAAAAT
807857 AAAAAATAGTATATAAAAAAT
1 AAAAAATAGTATATAAAAAAT
807878 A
1 A
807879 TACGATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (21 bp):
AAAAAATAGTATATAAAAAAT
Found at i:808073 original size:54 final size:54
Alignment explanation
Indices: 807991--808100 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
807981 GTCATCTGTC
807991 TCCCAAGATACAACAACAACTAGATGATCAACTACAGTTACACTGCTGCAAAGA
1 TCCCAAGATACAACAACAACTAGATGATCAACTACAGTTACACTGCTGCAAAGA
808045 TCCCAAGATACAACAACAACTAGATGATCAACTACAGTTACACTGCTGCAAAGA
1 TCCCAAGATACAACAACAACTAGATGATCAACTACAGTTACACTGCTGCAAAGA
808099 TC
1 TC
808101 ACAAACTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.42, C:0.26, G:0.13, T:0.19
Consensus pattern (54 bp):
TCCCAAGATACAACAACAACTAGATGATCAACTACAGTTACACTGCTGCAAAGA
Found at i:819919 original size:36 final size:36
Alignment explanation
Indices: 819872--819945 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
819862 CTAGAGTTAG
819872 TTTTATCATTCTCAATAGTCATTTACATTCAATTTT
1 TTTTATCATTCTCAATAGTCATTTACATTCAATTTT
819908 TTTTATCATTCTCAATAGTCATTTACATTCAATTTT
1 TTTTATCATTCTCAATAGTCATTTACATTCAATTTT
819944 TT
1 TT
819946 CATCATCATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.27, C:0.16, G:0.03, T:0.54
Consensus pattern (36 bp):
TTTTATCATTCTCAATAGTCATTTACATTCAATTTT
Found at i:819936 original size:19 final size:20
Alignment explanation
Indices: 819873--819937 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 20
819863 TAGAGTTAGT
819873 TTTATCATTCTCAATAGTCA
1 TTTATCATTCTCAATAGTCA
* **
819893 TTTA-CA-T-TCAAT-TTTT
1 TTTATCATTCTCAATAGTCA
819909 TTTATCATTCTCAATAGTCA
1 TTTATCATTCTCAATAGTCA
819929 TTTA-CATTC
1 TTTATCATTC
819938 AATTTTTTCA
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 5 0.14
17 7 0.20
18 2 0.06
19 12 0.34
20 9 0.26
ACGTcount: A:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (20 bp):
TTTATCATTCTCAATAGTCA
Found at i:823832 original size:44 final size:45
Alignment explanation
Indices: 823710--823835 Score: 182
Period size: 46 Copynumber: 2.8 Consensus size: 45
823700 GATAAAATCT
* *
823710 CTTACCATTTATCCCATAAGCTCCTAAGCTTATTTTACTAAAATA
1 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
823755 CTTACCATTTAATCCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTT-ATCCCATAAGCTCATAAGCTTATTTTACCAAAATA
* *
823801 CTTGCCA-TTATTCCATAAGCTCATAAGCTTATTTT
1 CTTACCATTTATCCCATAAGCTCATAAGCTTATTTT
823836 CCAGTTTATC
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
44 24 0.32
45 12 0.16
46 38 0.51
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATCCCATAAGCTCATAAGCTTATTTTACCAAAATA
Found at i:832419 original size:13 final size:13
Alignment explanation
Indices: 832401--832476 Score: 66
Period size: 13 Copynumber: 6.0 Consensus size: 13
832391 GTCATAAATC
*
832401 TATGACGCGTATT
1 TATGACACGTATT
*
832414 TATGACACATATT
1 TATGACACGTATT
832427 TATGACAC--ATT
1 TATGACACGTATT
* *
832438 TATGACGCGCATT
1 TATGACACGTATT
* *
832451 TATGACATGCATT
1 TATGACACGTATT
* *
832464 TATAACGCGTATT
1 TATGACACGTATT
832477 GCGTGTCATT
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
11 10 0.19
13 42 0.81
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (13 bp):
TATGACACGTATT
Found at i:832440 original size:24 final size:25
Alignment explanation
Indices: 832411--832466 Score: 69
Period size: 24 Copynumber: 2.2 Consensus size: 25
832401 TATGACGCGT
*
832411 ATTTATGACACATATTTATGACA-C
1 ATTTATGACACACATTTATGACAGC
* *
832435 ATTTATGACGCGCATTTATGACATGC
1 ATTTATGACACACATTTATGACA-GC
832461 ATTTAT
1 ATTTAT
832467 AACGCGTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 20 0.74
26 7 0.26
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (25 bp):
ATTTATGACACACATTTATGACAGC
Found at i:832560 original size:13 final size:13
Alignment explanation
Indices: 832533--832574 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
832523 TGTGTCATAA
**
832533 ATTTATGACACAC
1 ATTTATGACTTAC
832546 ATTTATGACTTAC
1 ATTTATGACTTAC
*
832559 ATTTACGACTTAC
1 ATTTATGACTTAC
832572 ATT
1 ATT
832575 GCGTTTCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.07, T:0.40
Consensus pattern (13 bp):
ATTTATGACTTAC
Found at i:832651 original size:2 final size:2
Alignment explanation
Indices: 832644--832677 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
832634 TATATCGTAA
832644 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
832678 TGTAGATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:849964 original size:25 final size:25
Alignment explanation
Indices: 849935--849985 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
849925 TTCTTATGTG
849935 GTTCAATATATCTTTTCATCATTTT
1 GTTCAATATATCTTTTCATCATTTT
849960 GTTCAATATATCTTTTCATCATTTT
1 GTTCAATATATCTTTTCATCATTTT
849985 G
1 G
849986 ATAAGTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.55
Consensus pattern (25 bp):
GTTCAATATATCTTTTCATCATTTT
Found at i:857290 original size:64 final size:63
Alignment explanation
Indices: 857197--857336 Score: 149
Period size: 64 Copynumber: 2.2 Consensus size: 63
857187 ACATTCAATG
* *
857197 TGCATCGATGCACTCTTTAAAGAAGAAACATCGAATGCAAATGGTGCATCGATGCATAAGG-AA
1 TGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCAT-AGGTAA
* * * * * * * *
857260 TGCATCGATGCATCCCTTTAAA-ATGAAAACATTGAAGGTAATTTGTGTATCGATGCATGGGTAG
1 TGCATCGATGCA-CCCTTTAAAGAAG-AAACATCGAAGGCAAATGGTGCATCGATGCATAGGTAA
857324 TGCATCGATGCAC
1 TGCATCGATGCAC
857337 ATATTAAAGA
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
63 17 0.27
64 47 0.73
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (63 bp):
TGCATCGATGCACCCTTTAAAGAAGAAACATCGAAGGCAAATGGTGCATCGATGCATAGGTAA
Found at i:858641 original size:31 final size:31
Alignment explanation
Indices: 858603--858680 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
858593 AGAGTCGAGG
*
858603 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTCTTT-GAGACATATGGACA
* *
858634 GTTTACCTAGGTTCTTTGGGACCTATGGACA
1 GTTTACCTAGGTTCTTTGAGACATATGGACA
* *
858665 G-TTGCCGAGGTTCTTT
1 GTTTACCTAGGTTCTTT
858681 ATGACCTCTG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
30 13 0.32
31 23 0.56
32 5 0.12
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTTGAGACATATGGACA
Found at i:858678 original size:30 final size:30
Alignment explanation
Indices: 858626--858721 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
858616 TTTCGAGACA
* * *
858626 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAG-TTGCCGAGGTTCTTTGTGACC
*
858657 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTGCCGAGGTTCTTTGTGACC
* * * *
858687 TCTGGATAGTTGTCG-GGGTCTTTGTGACC
1 TATGGACAGTTGCCGAGGTTCTTTGTGACC
*
858716 TCTGGA
1 TATGGA
858722 TAGGTCCTTC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
29 18 0.32
30 29 0.52
31 9 0.16
ACGTcount: A:0.17, C:0.19, G:0.29, T:0.35
Consensus pattern (30 bp):
TATGGACAGTTGCCGAGGTTCTTTGTGACC
Found at i:858715 original size:29 final size:30
Alignment explanation
Indices: 858646--858724 Score: 97
Period size: 29 Copynumber: 2.7 Consensus size: 30
858636 TTACCTAGGT
* * * *
858646 TCTTTGGGACCTATGGACAGTTGCCGAGGT
1 TCTTTGTGACCTCTGGATAGTTGCCGAGGG
* *
858676 TCTTTATGACCTCTGGATAGTTGTCG-GGG
1 TCTTTGTGACCTCTGGATAGTTGCCGAGGG
858705 TCTTTGTGACCTCTGGATAG
1 TCTTTGTGACCTCTGGATAG
858725 GTCCTTCGAG
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 21 0.50
30 21 0.50
ACGTcount: A:0.15, C:0.19, G:0.30, T:0.35
Consensus pattern (30 bp):
TCTTTGTGACCTCTGGATAGTTGCCGAGGG
Found at i:863223 original size:31 final size:31
Alignment explanation
Indices: 863185--863249 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
863175 AGAGTCAAGG
*
863185 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTCTTT-GAGACATATGGACA
* * *
863216 GTTTACCTCGGTTCTTTGGGACCTATGGACA
1 GTTTACCTAGGTTCTTTGAGACATATGGACA
863247 GTT
1 GTT
863250 GTGAGGTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.20, C:0.20, G:0.23, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTTGAGACATATGGACA
Found at i:866818 original size:2 final size:2
Alignment explanation
Indices: 866813--866856 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
866803 GTGATATCAA
866813 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
866855 AT
1 AT
866857 GTCGTTTTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:870229 original size:12 final size:12
Alignment explanation
Indices: 870212--870255 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
870202 CTCCTCAAAG
870212 CTCTCAAAAGCT
1 CTCTCAAAAGCT
*
870224 CTCTCAAAA-TT
1 CTCTCAAAAGCT
*
870235 CTCTTAAAAGCT
1 CTCTCAAAAGCT
870247 CTCTCAAAA
1 CTCTCAAAA
870256 TTCTTTGTAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.33
12 18 0.67
ACGTcount: A:0.36, C:0.30, G:0.05, T:0.30
Consensus pattern (12 bp):
CTCTCAAAAGCT
Found at i:870243 original size:23 final size:23
Alignment explanation
Indices: 870212--870259 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
870202 CTCCTCAAAG
870212 CTCTCAAAAGCTCTCTCAAAATT
1 CTCTCAAAAGCTCTCTCAAAATT
*
870235 CTCTTAAAAGCTCTCTCAAAATT
1 CTCTCAAAAGCTCTCTCAAAATT
870258 CT
1 CT
870260 TTGTAGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (23 bp):
CTCTCAAAAGCTCTCTCAAAATT
Found at i:871792 original size:29 final size:29
Alignment explanation
Indices: 871750--871826 Score: 154
Period size: 29 Copynumber: 2.7 Consensus size: 29
871740 TGCATATTAT
871750 TTGAAACCTTAACTTTGAATTAGGTAGAA
1 TTGAAACCTTAACTTTGAATTAGGTAGAA
871779 TTGAAACCTTAACTTTGAATTAGGTAGAA
1 TTGAAACCTTAACTTTGAATTAGGTAGAA
871808 TTGAAACCTTAACTTTGAA
1 TTGAAACCTTAACTTTGAA
871827 ACTAACTATT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 48 1.00
ACGTcount: A:0.38, C:0.12, G:0.16, T:0.35
Consensus pattern (29 bp):
TTGAAACCTTAACTTTGAATTAGGTAGAA
Found at i:881333 original size:166 final size:166
Alignment explanation
Indices: 881053--881368 Score: 596
Period size: 166 Copynumber: 1.9 Consensus size: 166
881043 GATAAGGTTT
881053 ATGAAATTGATGATGAATCTTGATGTTTGTGAGGTAGTAGATTCATATTCAAGCATGTATGATGA
1 ATGAAATTGATGATGAATCTTGATGTTTGTGAGGTAGTAGATTCATATTCAAGCATGTATGATGA
*
881118 TTAGAACATGTTTAATCTTTCTAGAATTTGTTCTTTAAGTTTCGGCCATGGATTGTTTGAGTGAG
66 TTAGAACATGTTTAATATTTCTAGAATTTGTTCTTTAAGTTTCGGCCATGGATTGTTTGAGTGAG
881183 AAAAATTACGGAAAAATTATATATGAATTGGAAATG
131 AAAAATTACGGAAAAATTATATATGAATTGGAAATG
*
881219 ATGAAATTGATGATGAATCTTGATTTTTGTGAGGTAGTAGATTCATATTCAAGCATGTATGATGA
1 ATGAAATTGATGATGAATCTTGATGTTTGTGAGGTAGTAGATTCATATTCAAGCATGTATGATGA
*
881284 TTAGAACATGTTTAATATTTCTAGAATTTGTTCTTTAAGTTTTGGCCATGGATTGTTTGAGTGAG
66 TTAGAACATGTTTAATATTTCTAGAATTTGTTCTTTAAGTTTCGGCCATGGATTGTTTGAGTGAG
*
881349 AAAAATTATGGAAAAATTAT
131 AAAAATTACGGAAAAATTAT
881369 GGAAAAATTA
Statistics
Matches: 146, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
166 146 1.00
ACGTcount: A:0.33, C:0.07, G:0.21, T:0.39
Consensus pattern (166 bp):
ATGAAATTGATGATGAATCTTGATGTTTGTGAGGTAGTAGATTCATATTCAAGCATGTATGATGA
TTAGAACATGTTTAATATTTCTAGAATTTGTTCTTTAAGTTTCGGCCATGGATTGTTTGAGTGAG
AAAAATTACGGAAAAATTATATATGAATTGGAAATG
Found at i:881364 original size:11 final size:11
Alignment explanation
Indices: 881348--881379 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
881338 GTTTGAGTGA
881348 GAAAAATTATG
1 GAAAAATTATG
881359 GAAAAATTATG
1 GAAAAATTATG
881370 GAAAAATTAT
1 GAAAAATTAT
881380 ATATGAGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (11 bp):
GAAAAATTATG
Found at i:889725 original size:40 final size:40
Alignment explanation
Indices: 889669--889950 Score: 501
Period size: 40 Copynumber: 7.0 Consensus size: 40
889659 AGCAGGTTTA
*
889669 TAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
889709 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
889749 TAATACACTTCGGTGTATAGGGTGGGCATGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
889789 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
889829 TAATACACTTCGATGTATATGGTGGGAACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
889869 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
* *
889909 TAATACATTTCGCTGTATATGGTGGGCACGACCTTATGTG
1 TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
889949 TA
1 TA
889951 GCACTACAGT
Statistics
Matches: 231, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 231 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.33
Consensus pattern (40 bp):
TAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTG
Found at i:890285 original size:40 final size:40
Alignment explanation
Indices: 890230--890465 Score: 427
Period size: 40 Copynumber: 5.9 Consensus size: 40
890220 CTAAGTATAT
890230 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
*
890270 ACTTCGGTGTATATGGTGGGCACGACCTTATTTGTAATAC
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
*
890310 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
*
890350 ACTTCGGTGTATATGGTGGGCACTACCTTATGTGTAATAC
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
890390 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
* *
890430 ATTTCAGTGTATATGGTGGGCACGACCTTATGTGTA
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTA
890466 GCTCTACGGT
Statistics
Matches: 188, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 188 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (40 bp):
ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
Found at i:890686 original size:515 final size:515
Alignment explanation
Indices: 889715--891263 Score: 2947
Period size: 515 Copynumber: 3.0 Consensus size: 515
889705 TGTGTAATAC
* *
889715 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATAGGGTGGGCATGA
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGA
* * *
889780 CCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGATGT
66 CCTTATTTGTAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGT
*
889845 ATATGGTGGGAACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
131 ATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
* *
889910 AATACATTTC-GCTGTATATGGTGGGCACGACCTTATGTGTAGCACTACAGTGCAAATATTACTC
196 AATACATTTCAG-TGTATATGGTGGGCACGACCTTATGTGTAGCTCTACGGTGCAAATATTACTC
889974 GAATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAA
260 GAATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAA
890039 TAAATGGTAACCAAGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCAT
325 TAAATGGTAACCAAGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCAT
890104 TTTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACAT
390 TTTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACAT
890169 TGAAATTCATGCATGAATTGTATTGCACTATTTATCATTTTAATTGCCTCACTAAGTATAT
455 TGAAATTCATGCATGAATTGTATTGCACTATTTATCATTTTAATTGCCTCACTAAGTATAT
890230 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGA
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGA
890295 CCTTATTTGTAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGT
66 CCTTATTTGTAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGT
*
890360 ATATGGTGGGCACTACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
131 ATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
890425 AATACATTTCAGTGTATATGGTGGGCACGACCTTATGTGTAGCTCTACGGTGCAAATATTACTCG
196 AATACATTTCAGTGTATATGGTGGGCACGACCTTATGTGTAGCTCTACGGTGCAAATATTACTCG
890490 AATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAAT
261 AATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAAT
890555 AAATGGTAACCAAGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCATT
326 AAATGGTAACCAAGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCATT
890620 TTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACATT
391 TTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACATT
890685 GAAATTCATGCATGAATTGTATTGCACTATTTATCATTTTAATTGCCTCACTAAGTATAT
456 GAAATTCATGCATGAATTGTATTGCACTATTTATCATTTTAATTGCCTCACTAAGTATAT
*
890745 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCAGTGTATATGGTGGGCACGA
1 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGA
890810 CCTTATTTGTAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGT
66 CCTTATTTGTAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGT
*
890875 ATATAGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
131 ATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
*
890940 AATACATTTCAGTGTATATGGTGGGCACAACCTTATGTGTAGCTCTACGGTGCAAATATTACTCG
196 AATACATTTCAGTGTATATGGTGGGCACGACCTTATGTGTAGCTCTACGGTGCAAATATTACTCG
891005 AATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAAT
261 AATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAAT
*
891070 AAATGGTAACCAGGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCATT
326 AAATGGTAACCAAGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCATT
891135 TTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACATT
391 TTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACATT
* *
891200 GAAATTCATGCATGAATTGTATTGCACTGTTTATCGTTTTAATTGCCTCACTAAGTATAT
456 GAAATTCATGCATGAATTGTATTGCACTATTTATCATTTTAATTGCCTCACTAAGTATAT
891260 ACTT
1 ACTT
891264 AGCGTGTGAT
Statistics
Matches: 1017, Mismatches: 16, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
515 1016 1.00
516 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.36
Consensus pattern (515 bp):
ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGA
CCTTATTTGTAATACACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGT
ATATGGTGGGCACGACCTTATGTGTAATACACTTCGGTGTATATGGTGGGCACGACCTTATGTGT
AATACATTTCAGTGTATATGGTGGGCACGACCTTATGTGTAGCTCTACGGTGCAAATATTACTCG
AATACCCAGGGTCCTCAGGGTGTTATATTGGGCTATTATCTATGGTTTATAGTTTATTGGTTAAT
AAATGGTAACCAAGCGAATAAGCCTACGAGCTTATAGGATAAATGATAAGAAATTTTATATCATT
TTTTATCATTGTAAAATATTGGATATGTTGGTAACATGATTTTATGGCATTTTGAAATTGACATT
GAAATTCATGCATGAATTGTATTGCACTATTTATCATTTTAATTGCCTCACTAAGTATAT
Found at i:890800 original size:40 final size:40
Alignment explanation
Indices: 890745--890980 Score: 409
Period size: 40 Copynumber: 5.9 Consensus size: 40
890735 CTAAGTATAT
*
890745 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
*
890785 ACTTCAGTGTATATGGTGGGCACGACCTTATTTGTAATAC
1 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
890825 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
* *
890865 ACTTCGGTGTATATAGTGGGCACGACCTTATGTGTAATAC
1 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
*
890905 ACTTCGGTGTATATGGTGGGCACGACCTTATGTGTAATAC
1 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
* *
890945 ATTTCAGTGTATATGGTGGGCACAACCTTATGTGTA
1 ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTA
890981 GCTCTACGGT
Statistics
Matches: 187, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 187 1.00
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.33
Consensus pattern (40 bp):
ACTTCAGTGTATATGGTGGGCACGACCTTATGTGTAATAC
Found at i:901580 original size:20 final size:22
Alignment explanation
Indices: 901541--901581 Score: 59
Period size: 20 Copynumber: 1.9 Consensus size: 22
901531 TCTAAGAAAT
901541 GATAGATTATAGTATATTAATTG
1 GATAGATTATAG-ATATTAATTG
901564 GATA-ATTATAG-TATTAAT
1 GATAGATTATAGATATTAAT
901582 ACATGATTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
22 7 0.39
23 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (22 bp):
GATAGATTATAGATATTAATTG
Found at i:901797 original size:25 final size:25
Alignment explanation
Indices: 901768--901817 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
901758 GATTAGGGGT
901768 ACTGAAGCATAAACATGTAGGGATA
1 ACTGAAGCATAAACATGTAGGGATA
*
901793 ACTGAAGCATAAACATGTAGTGATA
1 ACTGAAGCATAAACATGTAGGGATA
901818 TGGTGCTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.22, T:0.22
Consensus pattern (25 bp):
ACTGAAGCATAAACATGTAGGGATA
Found at i:902321 original size:18 final size:18
Alignment explanation
Indices: 902298--902393 Score: 93
Period size: 18 Copynumber: 5.8 Consensus size: 18
902288 AGGGTTCTAC
*
902298 GTGGTCCTACGGGATATA
1 GTGGTCCTACGGGACATA
902316 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
*
902334 -TGTGT--T-C----TAT-
1 GTG-GTCCTACGGGACATA
902344 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
902362 GTGGTCCTACGGGACATA
1 GTGGTCCTACGGGACATA
*
902380 GTGGCCCTACGGGA
1 GTGGTCCTACGGGA
902394 AAAATTCTAC
Statistics
Matches: 64, Mismatches: 4, Indels: 20
0.73 0.05 0.23
Matches are distributed among these distances:
10 2 0.03
11 4 0.06
12 1 0.02
13 1 0.02
15 1 0.02
16 1 0.02
17 4 0.06
18 50 0.78
ACGTcount: A:0.20, C:0.21, G:0.33, T:0.26
Consensus pattern (18 bp):
GTGGTCCTACGGGACATA
Found at i:902348 original size:46 final size:46
Alignment explanation
Indices: 902291--902379 Score: 160
Period size: 46 Copynumber: 1.9 Consensus size: 46
902281 AGAGTCGAGG
*
902291 GTTCTACGTGGTCCTACGGGATATAGTGGTCCTACGGGACATATGT
1 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATGT
*
902337 GTTCTATGTGGTCCTACGGGACATAGTGGTCCTACGGGACATA
1 GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATA
902380 GTGGCCCTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GTTCTACGTGGTCCTACGGGACATAGTGGTCCTACGGGACATATGT
Found at i:905847 original size:18 final size:18
Alignment explanation
Indices: 905804--905840 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
905794 GTTGACCGGT
905804 TGAGAGTCTTAAATGTAG
1 TGAGAGTCTTAAATGTAG
*
905822 TGAGAGTCTTCAATGTAG
1 TGAGAGTCTTAAATGTAG
905840 T
1 T
905841 AGAAGTCGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.35
Consensus pattern (18 bp):
TGAGAGTCTTAAATGTAG
Found at i:912358 original size:36 final size:37
Alignment explanation
Indices: 912317--912403 Score: 140
Period size: 36 Copynumber: 2.3 Consensus size: 37
912307 TCAAATTAAA
*
912317 ATAAATTTAGTTTTTCGAGTCAACAAA-TTGTATTTT
1 ATAAATTTAGTTTTTCGAGTCAACAAATTTATATTTT
912353 ATAAATTTAGTTTTTCGAGTCAACAAATTTTATATTTT
1 ATAAATTTAGTTTTTCGAGTCAACAAA-TTTATATTTT
912391 ATAAATTTGAGTT
1 ATAAATTT-AGTT
912404 CTAGAGTAGT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
36 27 0.57
38 16 0.34
39 4 0.09
ACGTcount: A:0.34, C:0.07, G:0.10, T:0.48
Consensus pattern (37 bp):
ATAAATTTAGTTTTTCGAGTCAACAAATTTATATTTT
Found at i:914809 original size:19 final size:18
Alignment explanation
Indices: 914785--914830 Score: 60
Period size: 16 Copynumber: 2.6 Consensus size: 18
914775 TATGATTTTA
*
914785 ATTAAAATTAATTTATTAT
1 ATTAAAA-TAATATATTAT
914804 ATT-AAA-AATATATTAT
1 ATTAAAATAATATATTAT
914820 ATTAAAATAAT
1 ATTAAAATAAT
914831 CAATCGCTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 12 0.50
17 3 0.12
18 6 0.25
19 3 0.12
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATTAAAATAATATATTAT
Found at i:915542 original size:6 final size:6
Alignment explanation
Indices: 915531--915555 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
915521 ATAGTTGAGC
915531 TCAAAT TCAAAT TCAAAT TCAAAT T
1 TCAAAT TCAAAT TCAAAT TCAAAT T
915556 TACATTTACA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (6 bp):
TCAAAT
Found at i:917482 original size:22 final size:23
Alignment explanation
Indices: 917429--917483 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
917419 AAGTCGAGGG
*
917429 TTCTATGTGGTCCTTTGGAACAA
1 TTCTATGTGGTCCTTCGGAACAA
*
917452 TACTATGTGGTCCTTCGGAAC-A
1 TTCTATGTGGTCCTTCGGAACAA
917474 TTCTATGTGG
1 TTCTATGTGG
917484 CAGTTCGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.38
Consensus pattern (23 bp):
TTCTATGTGGTCCTTCGGAACAA
Found at i:921787 original size:23 final size:22
Alignment explanation
Indices: 921755--921853 Score: 101
Period size: 23 Copynumber: 4.5 Consensus size: 22
921745 GAGTCGAGGG
*
921755 TTCTATGTGGTCCTTCGGGACAA
1 TTCTATGTGGTCCTTCAGGAC-A
* *
921778 TACTATGTGGTCCTTCAGAACA
1 TTCTATGTGGTCCTTCAGGACA
* * * *
921800 TTTCTACGCGGTCTTTCGGGACA
1 -TTCTATGTGGTCCTTCAGGACA
*
921823 -TCTATGTGGTCTTTCAGGACA
1 TTCTATGTGGTCCTTCAGGACA
921844 TTCTATGTGG
1 TTCTATGTGG
921854 CAGTTTGGTG
Statistics
Matches: 62, Mismatches: 12, Indels: 5
0.78 0.15 0.06
Matches are distributed among these distances:
21 18 0.29
22 10 0.16
23 34 0.55
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.36
Consensus pattern (22 bp):
TTCTATGTGGTCCTTCAGGACA
Found at i:922079 original size:2 final size:2
Alignment explanation
Indices: 922074--922098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
922064 TATATATATA
922074 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
922099 TTTCATTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:923246 original size:2 final size:2
Alignment explanation
Indices: 923239--923319 Score: 162
Period size: 2 Copynumber: 40.5 Consensus size: 2
923229 CCACAAACAC
923239 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
923281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
923320 CTCTTATGGC
Statistics
Matches: 79, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:929282 original size:14 final size:13
Alignment explanation
Indices: 929246--929273 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
929236 AAACTAATTC
929246 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
929259 AAGAAAAAAAAGA
1 AAGAAAAAAAAGA
929272 AA
1 AA
929274 CGACAAAAAC
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:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAAAGA
Found at i:929635 original size:13 final size:13
Alignment explanation
Indices: 929617--929647 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
929607 ACAGTGTATA
929617 AAAATATACAAAT
1 AAAATATACAAAT
*
929630 AAAATATTCAAAT
1 AAAATATACAAAT
929643 AAAAT
1 AAAAT
929648 CGGTTATCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATATACAAAT
Found at i:929900 original size:117 final size:117
Alignment explanation
Indices: 929730--930021 Score: 446
Period size: 117 Copynumber: 2.5 Consensus size: 117
929720 TTTCCCGAAA
* * **
929730 CATACACCCACCTGCACACCAGTAAGGACTTACCCTAAGCACGA-AGCCGAGGAGCCTGCAGTAA
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCAC-ACAACAAAGGAGCCTGCAGTAA
929794 TAACGT-CTCCATCCAGTCACTTCC-ATCACTACAATGTGTAGGTTCCCCAGAAC
65 TAACGTCCT-CATCCAGTCAC-TCCAATCACTACAATGTGTAGGTTCCCCAGAAC
*
929847 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCATGCAGTAAT
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCTGCAGTAAT
* *
929912 AACTTCCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCTAGAAC
66 AACGTCCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
* * *
929964 TATACACCTACCTACACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCTG
1 CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCTG
930022 AAATACTTCC
Statistics
Matches: 161, Mismatches: 11, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
116 4 0.02
117 155 0.96
118 2 0.01
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.18
Consensus pattern (117 bp):
CATACACCCACCTGCACACCAGTAAGGACTTACCCTGAGCACACAACAAAGGAGCCTGCAGTAAT
AACGTCCTCATCCAGTCACTCCAATCACTACAATGTGTAGGTTCCCCAGAAC
Found at i:931005 original size:29 final size:29
Alignment explanation
Indices: 930973--931107 Score: 234
Period size: 29 Copynumber: 4.7 Consensus size: 29
930963 TTTTTTAAAA
* *
930973 TAATTACTAAAATAGCACCCATTTTGAAT
1 TAATTACTAAAATAGCACCTATTTCGAAT
*
931002 TAATTACTAAAATATCACCTATTTCGAAT
1 TAATTACTAAAATAGCACCTATTTCGAAT
931031 TAATTACTAAAATAGCACCTATTTCGAAT
1 TAATTACTAAAATAGCACCTATTTCGAAT
*
931060 TAATTATTAAAATAGCACCTATTTCGAAT
1 TAATTACTAAAATAGCACCTATTTCGAAT
931089 TAATTACTAAAATAGCACC
1 TAATTACTAAAATAGCACC
931108 CGGTCAACGG
Statistics
Matches: 100, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 100 1.00
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (29 bp):
TAATTACTAAAATAGCACCTATTTCGAAT
Found at i:937519 original size:108 final size:107
Alignment explanation
Indices: 937326--937523 Score: 362
Period size: 108 Copynumber: 1.8 Consensus size: 107
937316 TCCAGTCACT
937326 TCCATCACTACAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTAC
1 TCCATCACTACAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTAC
937391 CCTGAGCACACATCAAAGGAGCCTGCAGTAATAACTTTCCCA
66 CCTGAGCACACATCAAAGGAGCCTGCAGTAATAACTTTCCCA
*
937433 TCCAGTCACTACAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACTAGTAAGGACTTA
1 TCCA-TCACTACAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTA
937498 CCCTGAGCACACAGT-AAAGGAGCCTG
65 CCCTGAGCACACA-TCAAAGGAGCCTG
937524 AAATACTTCC
Statistics
Matches: 88, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
107 4 0.05
108 83 0.94
109 1 0.01
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (107 bp):
TCCATCACTACAATGTGTAGGTTCCCCAGAACCATACACCCACCTGCACACCAGTAAGGACTTAC
CCTGAGCACACATCAAAGGAGCCTGCAGTAATAACTTTCCCA
Found at i:938507 original size:29 final size:29
Alignment explanation
Indices: 938475--938630 Score: 208
Period size: 29 Copynumber: 5.4 Consensus size: 29
938465 TAAAAATAAA
* *
938475 TACTAAAATAGCACTCATTTTGAATTATT
1 TACTAAAATAGCACTCATTTCGAATTAAT
*
938504 TACTAAAATAGCAC-CGATTTCAAATTAAT
1 TACTAAAATAGCACTC-ATTTCGAATTAAT
* *
938533 TACTAAAATAGTACTTATTTCGAATTAAT
1 TACTAAAATAGCACTCATTTCGAATTAAT
* *
938562 TACTAAAATAGTACTTATTTCGAATTAAT
1 TACTAAAATAGCACTCATTTCGAATTAAT
*
938591 TACTAAAATAACA-TCTATTTCGAATTAAT
1 TACTAAAATAGCACTC-ATTTCGAATTAAT
938620 TACTAAAATAG
1 TACTAAAATAG
938631 AACCCGGTCA
Statistics
Matches: 114, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
28 2 0.02
29 112 0.98
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.38
Consensus pattern (29 bp):
TACTAAAATAGCACTCATTTCGAATTAAT
Found at i:939890 original size:3 final size:3
Alignment explanation
Indices: 939882--939907 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
939872 AGATAATTCA
939882 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
939908 GAAGAAGAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:946167 original size:17 final size:17
Alignment explanation
Indices: 946145--946211 Score: 70
Period size: 15 Copynumber: 4.2 Consensus size: 17
946135 CCGTGTCCCG
*
946145 ACCCGGATGTTACGGGT
1 ACCCGGATATTACGGGT
*
946162 ACCCGG-TAAT-CGGGT
1 ACCCGGATATTACGGGT
*
946177 ACCCGGATTTTACGGGT
1 ACCCGGATATTACGGGT
*
946194 ACCCGG-TAAT-CGGGT
1 ACCCGGATATTACGGGT
946209 ACC
1 ACC
946212 ATGTTTTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
15 19 0.45
16 6 0.14
17 17 0.40
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.22
Consensus pattern (17 bp):
ACCCGGATATTACGGGT
Found at i:946177 original size:15 final size:15
Alignment explanation
Indices: 946157--946211 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
946147 CCGGATGTTA
946157 CGGGTACCCGGTAAT
1 CGGGTACCCGGTAAT
**
946172 CGGGTACCCGGATTTT
1 CGGGTACCCGG-TAAT
946188 ACGGGTACCCGGTAAT
1 -CGGGTACCCGGTAAT
946204 CGGGTACC
1 CGGGTACC
946212 ATGTTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 19 0.56
16 4 0.12
17 11 0.32
ACGTcount: A:0.18, C:0.27, G:0.33, T:0.22
Consensus pattern (15 bp):
CGGGTACCCGGTAAT
Found at i:946181 original size:32 final size:32
Alignment explanation
Indices: 946145--946211 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
946135 CCGTGTCCCG
946145 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
*
946177 ACCCGGATTTTACGGGTACCCGGTAATCGGGT
1 ACCCGGATGTTACGGGTACCCGGTAATCGGGT
946209 ACC
1 ACC
946212 ATGTTTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.19, C:0.27, G:0.31, T:0.22
Consensus pattern (32 bp):
ACCCGGATGTTACGGGTACCCGGTAATCGGGT
Found at i:948575 original size:18 final size:18
Alignment explanation
Indices: 948552--948592 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
948542 ACCGGTTCCA
*
948552 ACCCGACCCGACCCGTTG
1 ACCCGACCCAACCCGTTG
948570 ACCCGACCCAACCCGTTG
1 ACCCGACCCAACCCGTTG
948588 ACCCG
1 ACCCG
948593 TTGACCGGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.20, C:0.51, G:0.20, T:0.10
Consensus pattern (18 bp):
ACCCGACCCAACCCGTTG
Found at i:950106 original size:5 final size:5
Alignment explanation
Indices: 950093--950127 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
950083 GGACACGTTT
*
950093 ACCCG ACCCA ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG ACCCG
950128 TTGACCGTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.23, C:0.60, G:0.17, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:952681 original size:48 final size:48
Alignment explanation
Indices: 952625--952735 Score: 125
Period size: 48 Copynumber: 2.3 Consensus size: 48
952615 AAATATTTTA
* *
952625 TCTGATTTCTAACT-TGAATTCTGTTCTGATACATGACCTGTATTCTGT
1 TCTGATTTCTAA-TATGAATTCTGTTATGATACATGACCTGAATTCTGT
* ** **
952673 TCTGATTTCTAATATGGATTCTGTTATGATATTTGTTCTGAATTCTGT
1 TCTGATTTCTAATATGAATTCTGTTATGATACATGACCTGAATTCTGT
* *
952721 TTTGATTTCTGATAT
1 TCTGATTTCTAATAT
952736 CTCCGTTTTC
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
47 1 0.02
48 52 0.98
ACGTcount: A:0.21, C:0.14, G:0.15, T:0.50
Consensus pattern (48 bp):
TCTGATTTCTAATATGAATTCTGTTATGATACATGACCTGAATTCTGT
Found at i:957355 original size:24 final size:24
Alignment explanation
Indices: 957277--957364 Score: 81
Period size: 24 Copynumber: 3.7 Consensus size: 24
957267 ATTTTCGACT
* ** *
957277 TGAATTCTGTTCTGATACATGACC
1 TGAATTCTGTTATGATATTTGATC
*
957301 TGAATTCTGTTATGAT-TTCTAATC
1 TGAATTCTGTTATGATATT-TGATC
*
957325 T-AGATTCTGTTATGATATTTGTTC
1 TGA-ATTCTGTTATGATATTTGATC
*
957349 TGAATTCTGTTTTGAT
1 TGAATTCTGTTATGAT
957365 TTATGATATC
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.02
24 48 0.92
25 3 0.06
ACGTcount: A:0.23, C:0.12, G:0.16, T:0.49
Consensus pattern (24 bp):
TGAATTCTGTTATGATATTTGATC
Found at i:959790 original size:26 final size:27
Alignment explanation
Indices: 959753--959811 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 27
959743 ACATATTTAA
* *
959753 TGCATTCTTACACCTTTA-ATGTAT-CT
1 TGCATTCCTACACATTTATATGT-TGCT
959779 TGCATTCCTACACATTTATATGTTGCT
1 TGCATTCCTACACATTTATATGTTGCT
959806 TGCATT
1 TGCATT
959812 GTTTAAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 17 0.59
27 12 0.41
ACGTcount: A:0.22, C:0.22, G:0.10, T:0.46
Consensus pattern (27 bp):
TGCATTCCTACACATTTATATGTTGCT
Found at i:961152 original size:21 final size:21
Alignment explanation
Indices: 961113--961166 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
961103 ACTATACGGT
*
961113 ATGAACAGTACCGTGGACAGTA
1 ATGAACAGTA-CATGGACAGTA
*
961135 ATGAACAGTACATGGACATTA
1 ATGAACAGTACATGGACAGTA
961156 ATGAACAGTAC
1 ATGAACAGTAC
961167 CGTGAGCAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.67
22 10 0.33
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (21 bp):
ATGAACAGTACATGGACAGTA
Found at i:961188 original size:12 final size:11
Alignment explanation
Indices: 961113--961188 Score: 57
Period size: 12 Copynumber: 6.8 Consensus size: 11
961103 ACTATACGGT
961113 ATGAACAGTACC
1 ATGAACAGTA-C
* *
961125 GTGGACAGTA-
1 ATGAACAGTAC
961135 ATGAACAGTAC
1 ATGAACAGTAC
* *
961146 ATGGACATTA-
1 ATGAACAGTAC
961156 ATGAACAGTACC
1 ATGAACAGTA-C
* *
961168 GTGAGCAGTACC
1 ATGAACAGTA-C
961180 ATGAACAGT
1 ATGAACAGT
961189 GAAAATTTTC
Statistics
Matches: 49, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
10 16 0.33
11 8 0.16
12 25 0.51
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (11 bp):
ATGAACAGTAC
Found at i:961238 original size:21 final size:21
Alignment explanation
Indices: 961214--961253 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
961204 TCAATTGTGT
961214 ATCGATGCACTGCGACAATGC
1 ATCGATGCACTGCGACAATGC
*
961235 ATCGATGCACTGCTACAAT
1 ATCGATGCACTGCGACAAT
961254 AACTTTCGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (21 bp):
ATCGATGCACTGCGACAATGC
Found at i:961951 original size:31 final size:31
Alignment explanation
Indices: 961898--962051 Score: 209
Period size: 31 Copynumber: 5.0 Consensus size: 31
961888 AACCTCGACA
* * ** * *
961898 ACTGTCCATAGGTCCCGAAGAACCTAGGTAA
1 ACTGTCCATATGTTCCTTAGAACATAGGTAT
*
961929 ACTGCCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTTCCTTAGAACATAGGTAT
* *
961960 ACTGTCCATATGTTTCTTAGAACATAGATAT
1 ACTGTCCATATGTTCCTTAGAACATAGGTAT
961991 ACTGTCCATATGTTCCTTAGAACATAGGTAT
1 ACTGTCCATATGTTCCTTAGAACATAGGTAT
* *
962022 ACTTTCCATATGTTCCATAGAACATAGGTA
1 ACTGTCCATATGTTCCTTAGAACATAGGTA
962052 AACCCTCGAC
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 109 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (31 bp):
ACTGTCCATATGTTCCTTAGAACATAGGTAT
Found at i:967862 original size:12 final size:12
Alignment explanation
Indices: 967823--967865 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
967813 ACTATACGGT
*
967823 ATGAATAGTACC
1 ATGAACAGTACC
*
967835 ATGAACAATA--
1 ATGAACAGTACC
967845 ATGAACAGTACC
1 ATGAACAGTACC
967857 ATGAACAGT
1 ATGAACAGT
967866 GAAAAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.35
12 17 0.65
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (12 bp):
ATGAACAGTACC
Found at i:968612 original size:31 final size:31
Alignment explanation
Indices: 968577--968713 Score: 150
Period size: 31 Copynumber: 4.4 Consensus size: 31
968567 TAGGTACCGA
* * * *
968577 AGAACCTAGGTAAACTGCCCATATGTTCTTT
1 AGAACATAGGTATACTGTCCATATGTTCCTT
968608 AGAACATAGGTATACTGTCCATATGTTCCTT
1 AGAACATAGGTATACTGTCCATATGTTCCTT
***
968639 AGAACATAGGTATACTGTCCATATGTCTCAAA
1 AGAACATAGGTATACTGTCCATATGT-TCCTT
* * *
968671 AG-ACATATGTAATTCTGTCCATATGTTCCGT
1 AGAACATAGGT-ATACTGTCCATATGTTCCTT
*
968702 AGAGCATAGGTA
1 AGAACATAGGTA
968714 AACCCTCGAC
Statistics
Matches: 89, Mismatches: 14, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
31 65 0.73
32 24 0.27
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
AGAACATAGGTATACTGTCCATATGTTCCTT
Found at i:974037 original size:20 final size:20
Alignment explanation
Indices: 974000--974038 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
973990 CGATTGAGTG
* * *
974000 GATTTTGATGTTGTTTGCAT
1 GATTTTAATGATGATTGCAT
974020 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
974039 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.49
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAT
Found at i:974260 original size:20 final size:21
Alignment explanation
Indices: 974214--974274 Score: 70
Period size: 20 Copynumber: 2.9 Consensus size: 21
974204 TTCCCCTGTG
*
974214 GGGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
974237 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
974257 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
974275 TGCACTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.51
21 2 0.06
22 3 0.09
23 12 0.34
ACGTcount: A:0.20, C:0.26, G:0.33, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:980456 original size:11 final size:11
Alignment explanation
Indices: 980442--980469 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
980432 CTTCTTTCTT
980442 TCTTCTCTCAA
1 TCTTCTCTCAA
980453 TCTTCTCTCAA
1 TCTTCTCTCAA
980464 TCTTCT
1 TCTTCT
980470 TATTCACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.14, C:0.36, G:0.00, T:0.50
Consensus pattern (11 bp):
TCTTCTCTCAA
Found at i:981827 original size:15 final size:14
Alignment explanation
Indices: 981786--981833 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
981776 GCTAGAATAA
981786 TAAATACTAAAAAT
1 TAAATACTAAAAAT
* *
981800 TAAAGTGCCAAAAAT
1 TAAA-TACTAAAAAT
*
981815 TAAATACTAAAAAG
1 TAAATACTAAAAAT
981829 TAAAT
1 TAAAT
981834 GATATAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.60, C:0.08, G:0.06, T:0.25
Consensus pattern (14 bp):
TAAATACTAAAAAT
Found at i:981911 original size:29 final size:29
Alignment explanation
Indices: 981870--981925 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
981860 TAGTAAATGA
*
981870 AAATAAAATTATTGAAATATAAATAAATT
1 AAATAAAAGTATTGAAATATAAATAAATT
* *
981899 AAATAAAGGTATTGAAATGTAAATAAA
1 AAATAAAAGTATTGAAATATAAATAAA
981926 GAAAGTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (29 bp):
AAATAAAAGTATTGAAATATAAATAAATT
Found at i:982290 original size:14 final size:14
Alignment explanation
Indices: 982271--982297 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
982261 TAAAGGGCAT
982271 AAATAAAAACAATA
1 AAATAAAAACAATA
982285 AAATAAAAACAAT
1 AAATAAAAACAAT
982298 TAAAGATAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.78, C:0.07, G:0.00, T:0.15
Consensus pattern (14 bp):
AAATAAAAACAATA
Found at i:983637 original size:22 final size:21
Alignment explanation
Indices: 983611--983669 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
983601 AAGTTTCCAC
* *
983611 TAAAATATTAATATCATTAAAA
1 TAAAACATTAATAACA-TAAAA
*
983633 TAAAACAATAATAAACATAAAA
1 TAAAACATTAAT-AACATAAAA
983655 TAAAAACATTAATAA
1 T-AAAACATTAATAA
983670 AACATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 18 0.58
23 13 0.42
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (21 bp):
TAAAACATTAATAACATAAAA
Found at i:983667 original size:23 final size:23
Alignment explanation
Indices: 983628--983675 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
983618 TTAATATCAT
983628 TAAAATAAAACAATAAT-AAACA
1 TAAAATAAAACAATAATAAAACA
*
983650 TAAAATAAAAACATTAATAAAACA
1 TAAAAT-AAAACAATAATAAAACA
983674 TA
1 TA
983676 TTTATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.26
23 10 0.43
24 7 0.30
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (23 bp):
TAAAATAAAACAATAATAAAACA
Found at i:983921 original size:30 final size:31
Alignment explanation
Indices: 983853--983922 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 31
983843 AAGCTTTTTA
983853 TTTCATTCACATCATATTATATCATAGCATG
1 TTTCATTCACATCATATTATATCATAGCATG
* *
983884 TTCCATTCACTTCAT-TTAT-TCCATAGCAT-
1 TTTCATTCACATCATATTATAT-CATAGCATG
983913 TTATCATTCA
1 TT-TCATTCA
983923 TTTTTATCTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 18 0.53
31 13 0.38
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (31 bp):
TTTCATTCACATCATATTATATCATAGCATG
Found at i:984460 original size:90 final size:89
Alignment explanation
Indices: 984308--984480 Score: 276
Period size: 90 Copynumber: 1.9 Consensus size: 89
984298 ACACACCATT
* *
984308 TTATAGCCAAGTTACCCAAATCATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTA
1 TTATAGCCAAGTTACACAAATCATATTAGGGTTTTATTATTTCAAATTAATTAAACCTATATTTA
*
984373 ATTAATTGAAATTTAATAATCCTC
66 ATTAATTGAAATTAAATAATCCTC
* *
984397 TTATATCCAAGTTACACTAATCATATT-GGGAATTTTATTATTTCAAATTAATTAAACCTATATT
1 TTATAGCCAAGTTACACAAATCATATTAGGG--TTTTATTATTTCAAATTAATTAAACCTATATT
984461 TAATTAATTGAAATTAAATA
64 TAATTAATTGAAATTAAATA
984481 TTCGGGATTA
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
88 3 0.04
89 24 0.31
90 50 0.65
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (89 bp):
TTATAGCCAAGTTACACAAATCATATTAGGGTTTTATTATTTCAAATTAATTAAACCTATATTTA
ATTAATTGAAATTAAATAATCCTC
Found at i:989358 original size:35 final size:35
Alignment explanation
Indices: 989307--989379 Score: 128
Period size: 35 Copynumber: 2.1 Consensus size: 35
989297 TCTTCAAGGT
* *
989307 TTTCGTACCCATGGAGGTCAATAAGATGAGTGATG
1 TTTCATACCCATGGAGGTCAAGAAGATGAGTGATG
989342 TTTCATACCCATGGAGGTCAAGAAGATGAGTGATG
1 TTTCATACCCATGGAGGTCAAGAAGATGAGTGATG
989377 TTT
1 TTT
989380 GAGTACAAGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (35 bp):
TTTCATACCCATGGAGGTCAAGAAGATGAGTGATG
Found at i:990926 original size:18 final size:18
Alignment explanation
Indices: 990890--990929 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
990880 AATTTTTCAA
*
990890 TTTTGTATTTTTTGGCTT
1 TTTTGTATTTTTCGGCTT
990908 TTTTG-ATTTTTCGGCCTT
1 TTTTGTATTTTTCGG-CTT
990926 TTTT
1 TTTT
990930 TTTTAAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.05, C:0.10, G:0.15, T:0.70
Consensus pattern (18 bp):
TTTTGTATTTTTCGGCTT
Found at i:991636 original size:43 final size:47
Alignment explanation
Indices: 991570--991674 Score: 112
Period size: 49 Copynumber: 2.3 Consensus size: 47
991560 ATAACTAATG
* *
991570 AATAATATAATAACAAACT-AAAAATGTCTTAAC-T-C-TAATTCCT
1 AATAAAATAATAACAAACTAAAAAATGTCTTAACTTACTTAATTCCA
* *
991613 AATAAAATAATAA-TAACTAAAAAAATGTTTTAACTTAACCTTAATTCCA
1 AATAAAATAATAACAAACT-AAAAAATGTCTTAACTT-A-CTTAATTCCA
991662 AATAAAATAATAA
1 AATAAAATAATAA
991675 ATCTAATCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.08
43 12 0.24
44 13 0.25
45 1 0.02
48 1 0.02
49 20 0.39
ACGTcount: A:0.54, C:0.12, G:0.02, T:0.31
Consensus pattern (47 bp):
AATAAAATAATAACAAACTAAAAAATGTCTTAACTTACTTAATTCCA
Found at i:993324 original size:44 final size:45
Alignment explanation
Indices: 993226--993370 Score: 136
Period size: 46 Copynumber: 3.2 Consensus size: 45
993216 ACGGTTTTGA
* * * *
993226 AAATACATATATAATATATAGTTTTTTTTAAAAAAAACA-TGTTGG
1 AAATACATATATATTATATAGCTTTTTTTAAAAAAAGCATTG-TCG
993271 AAA-ACATATATATTATATAG-TTTTTTTAAAAAAAGCATTGTCG
1 AAATACATATATATTATATAGCTTTTTTTAAAAAAAGCATTGTCG
* * * * **
993314 AAATATATATA-ATTTTTGAAAGCATTTTAAAAAAAAAGCATTGTCG
1 AAATACATATATA-TTAT-ATAGCTTTTTTTAAAAAAAGCATTGTCG
*
993360 AAATATATATA
1 AAATACATATA
993371 CTTTTTGAAA
Statistics
Matches: 86, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
43 22 0.26
44 27 0.31
45 6 0.07
46 31 0.36
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.38
Consensus pattern (45 bp):
AAATACATATATATTATATAGCTTTTTTTAAAAAAAGCATTGTCG
Found at i:993359 original size:46 final size:46
Alignment explanation
Indices: 993298--993387 Score: 171
Period size: 46 Copynumber: 2.0 Consensus size: 46
993288 TAGTTTTTTT
993298 AAAAAAAGCATTGTCGAAATATATATAATTTTTGAAAGCATTTTAA
1 AAAAAAAGCATTGTCGAAATATATATAATTTTTGAAAGCATTTTAA
*
993344 AAAAAAAGCATTGTCGAAATATATATACTTTTTGAAAGCATTTT
1 AAAAAAAGCATTGTCGAAATATATATAATTTTTGAAAGCATTTT
993388 TGAAAACATA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.36
Consensus pattern (46 bp):
AAAAAAAGCATTGTCGAAATATATATAATTTTTGAAAGCATTTTAA
Found at i:993438 original size:71 final size:70
Alignment explanation
Indices: 993385--993554 Score: 180
Period size: 73 Copynumber: 2.3 Consensus size: 70
993375 TTGAAAGCAT
* *
993385 TTTTGAAAACATATATATTATATAGTTTTATAAAAAACATTTTGGAATATATATAATATAATTTT
1 TTTTAAAAACATATATAATATATAGTTTTA-AAAAAACATTTTGGAA-ATATATAATAT-ATTTT
993450 CAAAAACA
63 CAAAAACA
* * *
993458 TTTTAAAAATATATATAATATATAGTTTTAAAAAAACAGTTTGAAAAATATTTATAATATATAGT
1 TTTTAAAAACATATATAATATATAGTTTTAAAAAAACATTTTG-GAAATA--TATAATATAT--T
**
993523 TTTTAAAACA
61 TTCAAAAACA
* *
993533 TATTAAAAAC-TATATAGTATAT
1 TTTTAAAAACATATATAATATAT
993555 GATTTTGAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
72 15 0.18
73 31 0.38
74 19 0.23
75 17 0.21
ACGTcount: A:0.49, C:0.04, G:0.05, T:0.41
Consensus pattern (70 bp):
TTTTAAAAACATATATAATATATAGTTTTAAAAAAACATTTTGGAAATATATAATATATTTTCAA
AAACA
Found at i:993469 original size:35 final size:35
Alignment explanation
Indices: 993385--993571 Score: 148
Period size: 35 Copynumber: 5.1 Consensus size: 35
993375 TTGAAAGCAT
*
993385 TTTTGAAAACATATATATTATATAGT-TTTATAAAAAACA
1 TTTT-AAAA-ATATATATAATATA-TATTT-T-AAAAACA
**
993424 TTTT-GGAATATATATAATATA-ATTTTCAAAAACA
1 TTTTAAAAATATATATAATATATATTTT-AAAAACA
993458 TTTTAAAAATATATATAATATATAGTTTTAAAAAAACA
1 TTTTAAAAATATATATAATATATA-TTTT--AAAAACA
* * *
993496 GTTTGAAAAATATTTATAATATATAGTTTTTAAAACA
1 -TTTTAAAAATATATATAATATATA-TTTTAAAAACA
* * * *
993533 TATTAAAAA-CTATATAGTATATGATTTTGAAAACA
1 TTTTAAAAATATATATAATATAT-ATTTTAAAAACA
993568 TTTT
1 TTTT
993572 TTTTAGAAAG
Statistics
Matches: 124, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
34 12 0.10
35 41 0.33
36 22 0.18
37 11 0.09
38 7 0.06
39 31 0.25
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (35 bp):
TTTTAAAAATATATATAATATATATTTTAAAAACA
Found at i:993505 original size:39 final size:38
Alignment explanation
Indices: 993386--993530 Score: 160
Period size: 39 Copynumber: 3.9 Consensus size: 38
993376 TGAAAGCATT
993386 TTTGAAAACATATATAT--TATATAGTTTTATAAAAAACA
1 TTTGAAAA-ATATATATAATATATAGTTTTA-AAAAAACA
* *
993424 TTTTG--GAATATATATAATATA-A-TTTT-CAAAAACA
1 -TTTGAAAAATATATATAATATATAGTTTTAAAAAAACA
*
993458 TTTTAAAAATATATATAATATATAGTTTTAAAAAAACA
1 TTTGAAAAATATATATAATATATAGTTTTAAAAAAACA
* *
993496 GTTTGAAAAATATTTATAATATATAGTTTTTAAAA
1 -TTTGAAAAATATATATAATATATAGTTTTAAAAA
993531 CATATTAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
33 3 0.03
34 7 0.08
35 15 0.17
36 13 0.14
37 6 0.07
38 11 0.12
39 35 0.39
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (38 bp):
TTTGAAAAATATATATAATATATAGTTTTAAAAAAACA
Found at i:993685 original size:80 final size:79
Alignment explanation
Indices: 993501--993690 Score: 178
Period size: 79 Copynumber: 2.4 Consensus size: 79
993491 AAACAGTTTG
*
993501 AAAA-ATATTTATA-ATATATAGT-TTTTAAAACATATTAAAAACTATATAGTATATGATTTTGA
1 AAAACATATATATATATATATA-TATTTTAAAACATATTAAAAACTATATAGTATATGATTTTGA
** *
993563 AAACATTTTTTTTAG
65 AAACATTTTTTAAAA
** * * * *
993578 AAAGTATATATATATA-AAATATAATTTTAAAACGTTATTTGAAAA-TATATATTATATGATTTT
1 AAAACATATATATATATATATAT-ATTTTAAAAC-ATA-TTAAAAACTATATAGTATATGATTTT
993641 -AAAA-ATATTTTTAAAA
63 GAAAACAT-TTTTTAAAA
993657 AAAACATATATATAGTATATATATATTTTTAAAA
1 AAAACATATATATA-TATATATATA-TTTTAAAA
993691 TGTTCCTTTT
Statistics
Matches: 91, Mismatches: 12, Indels: 16
0.76 0.10 0.13
Matches are distributed among these distances:
77 4 0.04
78 14 0.15
79 32 0.35
80 22 0.24
81 19 0.21
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (79 bp):
AAAACATATATATATATATATATATTTTAAAACATATTAAAAACTATATAGTATATGATTTTGAA
AACATTTTTTAAAA
Found at i:994892 original size:14 final size:15
Alignment explanation
Indices: 994875--994916 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
994865 TTTTTCTCCA
994875 TTTTTTATATTACGT
1 TTTTTTATATTACGT
*
994890 TTTTATTATTATTTC-T
1 TTTT-TTA-TATTACGT
994906 TTTTTTATATT
1 TTTTTTATATT
994917 GTTATTTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 8 0.33
17 5 0.21
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTTATATTACGT
Found at i:995146 original size:14 final size:14
Alignment explanation
Indices: 995108--995172 Score: 60
Period size: 14 Copynumber: 4.3 Consensus size: 14
995098 TTACATTTTC
995108 TTTTTATTTATAATATT
1 TTTTTATTT-T-ATA-T
995125 TTTCTTATTTTATAT
1 TTT-TTATTTTATAT
995140 TTTTTATTCTT-TAT
1 TTTTTATT-TTATAT
*
995154 TCTTTATTTTTATAT
1 TTTTTA-TTTTATAT
995169 TTTT
1 TTTT
995173 AATTCATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
14 15 0.36
15 14 0.33
16 3 0.07
17 4 0.10
18 6 0.14
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTTATTTTATAT
Found at i:995187 original size:29 final size:30
Alignment explanation
Indices: 995132--995194 Score: 85
Period size: 29 Copynumber: 2.1 Consensus size: 30
995122 ATTTTTCTTA
* *
995132 TTTTATATTTTTTATTCTTTATTC-TTTAT
1 TTTTATATTTTTAATTCTTTATACTTTTAT
995161 TTTTATATTTTTAATTCATTTA-ACTTTTAT
1 TTTTATATTTTTAATTC-TTTATACTTTTAT
995191 TTTT
1 TTTT
995195 CGTCTAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTATATTTTTAATTCTTTATACTTTTAT
Found at i:995191 original size:22 final size:20
Alignment explanation
Indices: 995141--995194 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
995131 ATTTTATATT
**
995141 TTTTATTCTTTATTCTTTATT
1 TTTTATT-TTTATTCTTTAAC
995162 TTTATATTTTTAATTCATTTAAC
1 TTT-TATTTTT-ATTC-TTTAAC
995185 TTTTATTTTT
1 TTTTATTTTT
995195 CGTCTAGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 15 0.54
23 7 0.25
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTTATTTTTATTCTTTAAC
Found at i:1000491 original size:80 final size:80
Alignment explanation
Indices: 1000362--1000765 Score: 406
Period size: 80 Copynumber: 5.0 Consensus size: 80
1000352 TCTGTGATCA
** *
1000362 AAAGACCTTCGAGTTCGACTACGTTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
*
1000427 GAAGGGATATCTGCC
66 GAAGGGCTATCTGCC
* * * ** * * * *
1000442 AAAGACC-CCGAGTTCGATTACACTCAGTTTTGAGGGCACATCATTTGCAGCACAACTTAAGTCA
1 AAAGACCTTCGAGTTCGACTACACTCAG-CTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCG
*
1000506 AGAAGGGTTATCTGCCAACC
65 AGAAGGGCTATCTG----CC
**
1000526 AAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
*
1000591 GAAGGGCTATCTACC
66 GAAGGGCTATCTGCC
* ** * * * *
1000606 AAAGA-CTCTCGAG-TCTGATTACACTCAGCTTTGAGGGTACATCATTTGCAGTATAACTTAAGT
1 AAAGACCT-TCGAGTTC-GACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGT
* *
1000669 CAAGAAGGGTTATCT---
63 CGAGAAGGGCTATCTGCC
* * * **
1000684 ACAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAATATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
*
1000749 GAAGGGCTATTTGCC
66 GAAGGGCTATCTGCC
1000764 AA
1 AA
1000766 CCGAATACCT
Statistics
Matches: 259, Mismatches: 51, Indels: 28
0.77 0.15 0.08
Matches are distributed among these distances:
77 39 0.15
78 19 0.07
79 23 0.09
80 72 0.28
81 40 0.15
84 50 0.19
85 16 0.06
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.26
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
GAAGGGCTATCTGCC
Found at i:1000575 original size:84 final size:81
Alignment explanation
Indices: 1000319--1000754 Score: 422
Period size: 84 Copynumber: 5.4 Consensus size: 81
1000309 AAAAAGACAA
* * * * *
1000319 CATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGATCAAAAGACCTTCGAGTTCGACTAC
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATC--TGA-CCAAAGACCTTCGAGTTCGACTAC
* *
1000384 GTTTAGCTCCAAGGCACAT
63 GCTCAGCTCCAAGGCACAT
* * * * *
1000403 CATTTGCAGCATAGCTTAAGTCGAGAAGGGATATCTG-CCAAAGACC-CCGAGTTCGATTACACT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
* ** *
1000466 CAGTTTTGAGGGCACAT
66 CAG-CTCCAAGGCACAT
* * *
1000483 CATTTGCAGCACAACTTAAGTCAAGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTAT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTG---ACCAAAGACCTTCGAGTTCGACTAC
1000548 GCTCAGCTCCAAGGCACAT
63 GCTCAGCTCCAAGGCACAT
* * * *
1000567 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT-ACCAAAGA-CTCTCGAG-TCTGATTACA
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCT-TCGAGTTC-GACTACG
** * *
1000629 CTCAGCTTTGAGGGTACAT
64 CTCAGC-TCCAAGGCACAT
* * *
1000648 CATTTGCAGTATAACTTAAGTCAAGAAGGGTTATCT-A-C--AGACCTTTGAGTTCGACTACGCT
1 CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
1000709 CAGCTCCAAGGCACAT
66 CAGCTCCAAGGCACAT
** *
1000725 CATTTGCAATATAGCTTAAGTCGAGAAGGG
1 CATTTGCAGCATAACTTAAGTCGAGAAGGG
1000755 CTATTTGCCA
Statistics
Matches: 288, Mismatches: 53, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
77 35 0.12
78 18 0.06
79 23 0.08
80 74 0.26
81 41 0.14
82 2 0.01
84 79 0.27
85 16 0.06
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (81 bp):
CATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGACCAAAGACCTTCGAGTTCGACTACGCT
CAGCTCCAAGGCACAT
Found at i:1000746 original size:158 final size:160
Alignment explanation
Indices: 1000363--1000758 Score: 593
Period size: 164 Copynumber: 2.5 Consensus size: 160
1000353 CTGTGATCAA
* *
1000363 AAGACCTTCGAGTTCGACTACGTTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* * *
1000428 AAGGGATATCTGCCAAAGACCCCGAGTTCGATTACACTCAGTTTTGAGGGCACATCATTTGCAGC
66 AAGGGCTATCTACCAAAGACCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGC
1000493 ACAACTTAAGTCAAGAAGGGTTATCTGCCAACC
131 ACAACTTAAGTCAAGAAGGGTTATCT--C-ACC
*
1000526 AAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 -AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
* *
1000591 GAAGGGCTATCTACCAAAGACTCTCGAG-TCTGATTACACTCAGCTTTGAGGGTACATCATTTGC
65 GAAGGGCTATCTACCAAAGAC-CCCGAGTTC-GATTACACTCAGCTTTGAGGGCACATCATTTGC
* *
1000655 AGTATAACTTAAGTCAAGAAGGGTTATCT-A-C
128 AGCACAACTTAAGTCAAGAAGGGTTATCTCACC
* **
1000686 -AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAATATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1000750 AAGGGCTAT
66 AAGGGCTAT
1000759 TTGCCAACCG
Statistics
Matches: 216, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
158 69 0.32
160 1 0.00
161 1 0.00
164 82 0.38
165 63 0.29
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (160 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTACCAAAGACCCCGAGTTCGATTACACTCAGCTTTGAGGGCACATCATTTGCAGC
ACAACTTAAGTCAAGAAGGGTTATCTCACC
Found at i:1000830 original size:158 final size:155
Alignment explanation
Indices: 1000364--1000823 Score: 399
Period size: 158 Copynumber: 2.9 Consensus size: 155
1000354 TGTGATCAAA
* * *
1000364 AGACCTTCGAGTTCGACTACGTTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGA
1 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGA
* * * * * * ** * * *
1000429 AGGGATATCTGCCAAAG-ACCCCGAGT-TCGATTACACTCAGTTTTGAGGGCACATCATTTGCAG
66 AGGGCTATCTACCAAAGAATCTCGAGTCT-GATTACACTAAGCTCAGAGGGCAAACCAATT---G
* *
1000492 CACAACTTAAGTCAAGAAGGGTTATCTGCCAACC
127 TACAACATAAGTCAAGAAGGGTTATCT----A-C
* *
1000526 AAAGACCTTCGAGTTCGACTATGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 --AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGA
* * ** * * * *
1000591 GAAGGGCTATCTACCAAAGACTCTCGAGTCTGATTACACTCAGCTTTGAGGGTACATCATTTGCA
64 GAAGGGCTATCTACCAAAGAATCTCGAGTCTGATTACACTAAGCTCAGAGGGCAAACCAATT---
* *
1000656 GTATAACTTAAGTCAAGAAGGGTTATCTAC
126 GTACAACATAAGTCAAGAAGGGTTATCTAC
* *
1000686 AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAATATAGCTTAAGTCGAGA
1 AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGA
* * * *
1000751 AGGGCTATTTGCCAACCGAATACCTTCGAGT-TCGATTACATTAAGCTCAGA-GGCAAACCAAAT
66 AGGGCTATCTACCAA-AGAAT--C-TCGAGTCT-GATTACACTAAGCTCAGAGGGCAAACC-AAT
1000814 T-TACAACATA
125 TGTACAACATA
1000824 GCTCAAGGCA
Statistics
Matches: 258, Mismatches: 30, Indels: 22
0.83 0.10 0.07
Matches are distributed among these distances:
158 81 0.31
159 3 0.01
160 1 0.00
161 8 0.03
162 23 0.09
164 77 0.30
165 64 0.25
166 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (155 bp):
AGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAACATAGCTTAAGTCGAGA
AGGGCTATCTACCAAAGAATCTCGAGTCTGATTACACTAAGCTCAGAGGGCAAACCAATTGTACA
ACATAAGTCAAGAAGGGTTATCTAC
Found at i:1001529 original size:40 final size:41
Alignment explanation
Indices: 1001441--1001533 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
1001431 TTTTGAAAAT
*
1001441 ACATATATAATATATAGTTTTTTTAAAAAAACATGTTGGAAA
1 ACATATATAATATATAG-TTTTTTAAAAAAACATGTTAGAAA
*
1001483 ACATATATATTATATAG-TTTTTAAAAAAAGCAT-TGTAG-AA
1 ACATATATAATATATAGTTTTTTAAAAAAA-CATGT-TAGAAA
*
1001523 ATATATATAAT
1 ACATATATAAT
1001534 TTTTGAAAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
40 24 0.53
41 5 0.11
42 16 0.36
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (41 bp):
ACATATATAATATATAGTTTTTTAAAAAAACATGTTAGAAA
Found at i:1001531 original size:42 final size:42
Alignment explanation
Indices: 1001437--1001531 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 42
1001427 ACGGTTTTGA
*
1001437 AAATACATATATAATATATAGTTTTTTTAAAAAAACATGTTGG
1 AAATACATATATAATATATAG-TTTTTTAAAAAAACATGTTAG
*
1001480 AAA-ACATATATATTATATAG-TTTTTAAAAAAAGCAT-TGTAG
1 AAATACATATATAATATATAGTTTTTTAAAAAAA-CATGT-TAG
*
1001521 AAATATATATA
1 AAATACATATA
1001532 ATTTTTGAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
40 13 0.28
41 8 0.17
42 22 0.48
43 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.08, T:0.38
Consensus pattern (42 bp):
AAATACATATATAATATATAGTTTTTTAAAAAAACATGTTAG
Done.