Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032255.1 Gossypioides kirkii chromosome KI_13
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: 42971368
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 71 of 143
Found at i:23159911 original size:101 final size:100
Alignment explanation
Indices: 23159785--23160110 Score: 431
Period size: 101 Copynumber: 3.2 Consensus size: 100
23159775 AGTACTATCA
* * *
23159785 TGAAGCCATATCCAAGTCCTATATCCTTGAAGATGCAGTGGATCAGATTCAACTAACAAATAGCA
1 TGAAGCCACATCCAAATCCTATATCCCTGAAGATGCAGTGGAT-AGATTCAACTAACAAATAGCA
* * * *
23159850 TATTTCAATCTCCACGGAAGTTGTAATGGAATAGAG
65 TATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAG
* * * * *
23159886 TGAAGCCACATCCAAATCTTGTATCCCTAAAGATGCAATGGATTGAATTCAACTAACAAATAGCA
1 TGAAGCCACATCCAAATCCTATATCCCTGAAGATGCAGTGGATAG-ATTCAACTAACAAATAGCA
23159951 TATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAG
65 TATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAG
* * *
23159987 TGAAGCCACATCTAAATCCTATATCCCTGAAGATGCAGTGGATTGGATTCAACTAAC-AGTAGCA
1 TGAAGCCACATCCAAATCCTATATCCCTGAAGATGCAGTGGA-TAGATTCAACTAACAAATAGCA
* * * *
23160051 TATCTAAATCTCCACTGATGTTGCAGTTGAATGGAG
65 TATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAG
*
23160087 TGAAGCCACA-CCAAATCATATATC
1 TGAAGCCACATCCAAATCCTATATC
23160111 ATTGAAGTTG
Statistics
Matches: 198, Mismatches: 25, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
99 12 0.06
100 49 0.25
101 135 0.68
102 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (100 bp):
TGAAGCCACATCCAAATCCTATATCCCTGAAGATGCAGTGGATAGATTCAACTAACAAATAGCAT
ATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAG
Found at i:23160160 original size:99 final size:100
Alignment explanation
Indices: 23159785--23160190 Score: 372
Period size: 101 Copynumber: 4.0 Consensus size: 100
23159775 AGTACTATCA
* * * * * ** *
23159785 TGAAGCCATATCCAAGTCCTATATC-CTTGAAGATGCAGTGGATCAGATTCAACTAACAAATAGC
1 TGAAGCCACATCCAAATCATATATCAC-TGAAGATGCAGAGGATCGGATAAAACTAAC-AGTAGC
* * * * *
23159849 ATATTTCAATCTCCACGGAAGTTGTAATGGAATAGAG
64 ATATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAG
* * * * * * ** *
23159886 TGAAGCCACATCCAAATCTTGTATCCCTAAAGATGCA-ATGGATTGAATTCAACTAACAAATAGC
1 TGAAGCCACATCCAAATCATATATCACTGAAGATGCAGA-GGATCGGATAAAACTAAC-AGTAGC
*
23159950 ATATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAG
64 ATATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAG
* * * * * **
23159987 TGAAGCCACATCTAAATCCTATATCCCTGAAGATGCAGTGGATTGGATTCAACTAACAGTAGCAT
1 TGAAGCCACATCCAAATCATATATCACTGAAGATGCAGAGGATCGGATAAAACTAACAGTAGCAT
* * *
23160052 ATCTAAATCTCCACTGATGTTGCAGTTGAATGGAG
66 ATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAG
* *
23160087 TGAAGCCACA-CCAAATCATATATCATTGAAGTTGCA-AGGATCGGACTAAAACTAATC-GTAGC
1 TGAAGCCACATCCAAATCATATATCACTGAAGATGCAGAGGATCGGA-TAAAACTAA-CAGTAGC
* ***
23160149 AGATCTCAATCTTTGCTGAAGTTGCAGTGGAATGGAG
64 ATATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAG
23160186 TGAAG
1 TGAAG
23160191 TTACAAACCC
Statistics
Matches: 260, Mismatches: 40, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
98 7 0.03
99 68 0.26
100 49 0.19
101 135 0.52
102 1 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (100 bp):
TGAAGCCACATCCAAATCATATATCACTGAAGATGCAGAGGATCGGATAAAACTAACAGTAGCAT
ATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAG
Found at i:23160209 original size:201 final size:201
Alignment explanation
Indices: 23159796--23160235 Score: 469
Period size: 201 Copynumber: 2.2 Consensus size: 201
23159786 GAAGCCATAT
* * ** * *
23159796 CCAAGTCCTATATCCTTGAAGATGCAGTGGATCAGATTCAACTAACAAATAGCATATTTCAATCT
1 CCAAATCCTATATCCCTGAAGATGCAGTGGATTGGATTCAACTAACAAATAGCATATCTAAATCT
* * * *
23159861 CCACGGAAGTTGTAATGGAATAGAGTGAAGCCACATCCAAATCTTGTATCCCTAAAGATGCAATG
66 CCACGGAAGTTGCAATGGAATAGAGTGAAGCCACATCCAAATCATATATCACTAAAGATGCAATG
* ** * *
23159926 GATTGAATTCAACTAACAAATAGCATATCTCAATCTCCACTGAAGTTGTAGTGGAATGGAGTGAA
131 GATGGAATAAAACTAAC-AATAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAA
* * *
23159991 GCCACAT
195 GACAAAC
* *
23159998 CTAAATCCTATATCCCTGAAGATGCAGTGGATTGGATTCAACTAAC-AGTAGCATATCTAAATCT
1 CCAAATCCTATATCCCTGAAGATGCAGTGGATTGGATTCAACTAACAAATAGCATATCTAAATCT
* * * * * * * *
23160062 CCACTGATGTTGCAGTTGAATGGAGTGAAGCCACA-CCAAATCATATATCATTGAAGTTGCAA-G
66 CCACGGAAGTTGCAATGGAATAGAGTGAAGCCACATCCAAATCATATATCACTAAAGATGCAATG
* * ***
23160125 GATCGGACTAAAACTAATC-GTAGCAGATCTCAATCTTTGCTGAAGTTGCAGTGGAATGGAGTGA
131 GAT-GGAATAAAACTAA-CAATAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGA
23160189 AGTTACAAAC
194 AG--ACAAAC
* *
23160199 CCAAATCCTATA-CCTCTGAAGTTACAG-GGATTGGATT
1 CCAAATCCTATATCC-CTGAAGATGCAGTGGATTGGATT
23160236 AAAGCTACAG
Statistics
Matches: 197, Mismatches: 36, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
199 45 0.23
200 42 0.21
201 69 0.35
202 41 0.21
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (201 bp):
CCAAATCCTATATCCCTGAAGATGCAGTGGATTGGATTCAACTAACAAATAGCATATCTAAATCT
CCACGGAAGTTGCAATGGAATAGAGTGAAGCCACATCCAAATCATATATCACTAAAGATGCAATG
GATGGAATAAAACTAACAATAGCAGATCTCAATCTCCACTGAAGTTGCAGTGGAATGGAGTGAAG
ACAAAC
Found at i:23160827 original size:59 final size:59
Alignment explanation
Indices: 23160763--23160887 Score: 250
Period size: 59 Copynumber: 2.1 Consensus size: 59
23160753 CAAATACATT
23160763 AAACCCAAATTTAAAATACAAAAAAACAAACTAACCCAAATCACCTAGCCCAATTACAC
1 AAACCCAAATTTAAAATACAAAAAAACAAACTAACCCAAATCACCTAGCCCAATTACAC
23160822 AAACCCAAATTTAAAATACAAAAAAACAAACTAACCCAAATCACCTAGCCCAATTACAC
1 AAACCCAAATTTAAAATACAAAAAAACAAACTAACCCAAATCACCTAGCCCAATTACAC
23160881 AAACCCA
1 AAACCCA
23160888 TTCAAGTCCA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 66 1.00
ACGTcount: A:0.54, C:0.30, G:0.02, T:0.14
Consensus pattern (59 bp):
AAACCCAAATTTAAAATACAAAAAAACAAACTAACCCAAATCACCTAGCCCAATTACAC
Found at i:23161112 original size:21 final size:20
Alignment explanation
Indices: 23161089--23161130 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
23161079 AAAAAAGGAC
23161089 AAAAATAATATACAAAAAATCA
1 AAAAAT-ATATA-AAAAAATCA
*
23161111 AAAAATATGTAAAAAAATCA
1 AAAAATATATAAAAAAATCA
23161131 TGCTATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.71, C:0.07, G:0.02, T:0.19
Consensus pattern (20 bp):
AAAAATATATAAAAAAATCA
Found at i:23161824 original size:23 final size:24
Alignment explanation
Indices: 23161798--23161853 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 24
23161788 AGTTTTGCCC
23161798 TTTCATATTTTT-ATTTT-TCTCAA
1 TTTCATATTTTTAATTTTAT-TCAA
23161821 TTTCAT-TTTTTAATTTTAATTCAA
1 TTTCATATTTTTAATTTT-ATTCAA
23161845 TTTCA-ATTT
1 TTTCATATTT
23161854 GCCCCTTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.17
23 11 0.38
24 12 0.41
25 1 0.03
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (24 bp):
TTTCATATTTTTAATTTTATTCAA
Found at i:23162136 original size:4 final size:4
Alignment explanation
Indices: 23162129--23162220 Score: 75
Period size: 4 Copynumber: 22.8 Consensus size: 4
23162119 TTTGGTCCTT
*
23162129 TTTA TTTA TTTTA TTTG TATTA TTTTA TTT- TTTA TTTAA TTTTA TTTA
1 TTTA TTTA -TTTA TTTA T-TTA -TTTA TTTA TTTA TTT-A -TTTA TTTA
* * *
23162177 -TTA TTTC TAT- TTTA TTCA TTTA TTTA TTTA TTTA -TTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
23162221 TTACGCAATT
Statistics
Matches: 72, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
3 11 0.15
4 46 0.64
5 11 0.15
6 4 0.06
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:23162154 original size:23 final size:22
Alignment explanation
Indices: 23162128--23162220 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 22
23162118 ATTTGGTCCT
23162128 TTTTATTTATTTTATTTGTATTA
1 TTTTATTTATTTTATTT-TATTA
* *
23162151 TTTTA-TT-TTTTATTTAATTT
1 TTTTATTTATTTTATTTTATTA
23162171 TATTTA-TTATTTCTATTTTATTCA
1 T-TTTATTTATTT-TATTTTATT-A
23162195 -TTTATTTA-TTTA-TTTATTA
1 TTTTATTTATTTTATTTTATTA
23162214 -TTTATTT
1 TTTTATTT
23162221 TTACGCAATT
Statistics
Matches: 61, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 8 0.13
20 10 0.16
21 16 0.26
22 11 0.18
23 16 0.26
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (22 bp):
TTTTATTTATTTTATTTTATTA
Found at i:23162163 original size:30 final size:29
Alignment explanation
Indices: 23162127--23162222 Score: 106
Period size: 30 Copynumber: 3.1 Consensus size: 29
23162117 AATTTGGTCC
23162127 TTTTTATTTATTTTATTTGTATTATTTTAT
1 TTTTTATTTATTTTATTT-TATTATTTTAT
23162157 TTTTTATTTAATTTTA-TTTATTATTTCTAT
1 TTTTTATTT-ATTTTATTTTATTATTT-TAT
*
23162187 TTTATTCATTTATTTATTTATTTATTA-TTTAT
1 TTT-TT-ATTTATTT-TAT-TTTATTATTTTAT
23162219 TTTT
1 TTTT
23162223 ACGCAATTTA
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
29 8 0.14
30 17 0.29
31 13 0.22
32 11 0.19
33 2 0.03
34 7 0.12
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.75
Consensus pattern (29 bp):
TTTTTATTTATTTTATTTTATTATTTTAT
Found at i:23162176 original size:40 final size:42
Alignment explanation
Indices: 23162128--23162221 Score: 117
Period size: 40 Copynumber: 2.3 Consensus size: 42
23162118 ATTTGGTCCT
*
23162128 TTTTATTTATTTTATTTGTATTATT-TT-ATTT-TTTATTTAA
1 TTTTATTTATTTTATTTCTATT-TTATTCATTTATTTATTTAA
*
23162168 TTTTATTTA--TTATTTCTATTTTATTCATTTATTTATTTAT
1 TTTTATTTATTTTATTTCTATTTTATTCATTTATTTATTTAA
23162208 TTATTATTTATTTT
1 TT-TTATTTATTTT
23162222 TACGCAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
37 2 0.04
38 12 0.26
39 4 0.09
40 19 0.41
41 7 0.15
43 2 0.04
ACGTcount: A:0.22, C:0.02, G:0.01, T:0.74
Consensus pattern (42 bp):
TTTTATTTATTTTATTTCTATTTTATTCATTTATTTATTTAA
Found at i:23162188 original size:44 final size:45
Alignment explanation
Indices: 23162129--23162220 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
23162119 TTTGGTCCTT
23162129 TTTATTTATTTTATTTGTATT-ATTTTATTT-TTTATTTAAT-TTTA
1 TTTATTTATTTTATTT-TATTCA-TTTATTTATTTATTTAATATTTA
*
23162173 TTTA-TTATTTCTATTTTATTCATTTATTTATTTATTTATTATTTA
1 TTTATTTATTT-TATTTTATTCATTTATTTATTTATTTAATATTTA
23162218 TTT
1 TTT
23162221 TTACGCAATT
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
43 17 0.40
44 19 0.44
45 7 0.16
ACGTcount: A:0.23, C:0.02, G:0.01, T:0.74
Consensus pattern (45 bp):
TTTATTTATTTTATTTTATTCATTTATTTATTTATTTAATATTTA
Found at i:23162232 original size:34 final size:36
Alignment explanation
Indices: 23162159--23162233 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 36
23162149 TATTTTATTT
* **
23162159 TTTATTTAATTTTATTTATTATTTCTATTTTATTCA
1 TTTATTTAATTTTATTTATTATTTATATTTTACGCA
23162195 TTTATTT-A-TTTATTTATTATTTAT-TTTTACGCAA
1 TTTATTTAATTTTATTTATTATTTATATTTTACGC-A
23162229 TTTAT
1 TTTAT
23162234 ATTACCGCCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
33 6 0.17
34 21 0.60
35 1 0.03
36 7 0.20
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (36 bp):
TTTATTTAATTTTATTTATTATTTATATTTTACGCA
Found at i:23177012 original size:21 final size:21
Alignment explanation
Indices: 23176987--23177037 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
23176977 ATGATTAGTT
*
23176987 TCGGTAGAAAT-ATGGATTGTA
1 TCGGTAGAAATCA-GAATTGTA
*
23177008 TCGGTAGAAGTCAGAATTGTA
1 TCGGTAGAAATCAGAATTGTA
23177029 TCGGTAGAA
1 TCGGTAGAA
23177038 CTCCTAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (21 bp):
TCGGTAGAAATCAGAATTGTA
Found at i:23177048 original size:21 final size:21
Alignment explanation
Indices: 23177002--23177058 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
23176992 AGAAATATGG
*
23177002 ATTGTATCGGTAGAAGTCAGA
1 ATTGTATCGGTAGAACTCAGA
**
23177023 ATTGTATCGGTAGAACTCCTA
1 ATTGTATCGGTAGAACTCAGA
* *
23177044 GTTGTATTGGTAGAA
1 ATTGTATCGGTAGAA
23177059 TTTTGTAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.33
Consensus pattern (21 bp):
ATTGTATCGGTAGAACTCAGA
Found at i:23191977 original size:16 final size:16
Alignment explanation
Indices: 23191956--23191986 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23191946 ATAATGTGAA
23191956 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
23191972 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
23191987 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:23192798 original size:26 final size:26
Alignment explanation
Indices: 23192769--23192821 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
23192759 TTCTGTGCTT
* *
23192769 AATTTTGGACACATTCATGCAGCGAC
1 AATTCTGGACACATTCATGCAACGAC
* **
23192795 AATTCTGTACATGTTCATGCAACGAC
1 AATTCTGGACACATTCATGCAACGAC
23192821 A
1 A
23192822 TTCCTAGGTG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (26 bp):
AATTCTGGACACATTCATGCAACGAC
Found at i:23200232 original size:40 final size:40
Alignment explanation
Indices: 23200176--23200261 Score: 156
Period size: 40 Copynumber: 2.2 Consensus size: 40
23200166 ATGAGATGAA
23200176 GAAA-GCCTTTTCTGGAGGAGATTTGACTTTGACCAATAT
1 GAAAGGCCTTTTCTGGAGGAGATTTGACTTTGACCAATAT
*
23200215 GAAAGGCCTTTTTTGGAGGAGATTTGACTTTGACCAATAT
1 GAAAGGCCTTTTCTGGAGGAGATTTGACTTTGACCAATAT
23200255 GAAAGGC
1 GAAAGGC
23200262 AAAGACATGC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 4 0.09
40 41 0.91
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (40 bp):
GAAAGGCCTTTTCTGGAGGAGATTTGACTTTGACCAATAT
Found at i:23201354 original size:49 final size:49
Alignment explanation
Indices: 23201252--23201875 Score: 423
Period size: 49 Copynumber: 12.7 Consensus size: 49
23201242 CAGGTTTTAA
* * * * * *
23201252 GGGAAAGATTGAAGCCGCAATGGCAAACCTAATACCCTAAAGATATGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGT-GAT
* * * *
23201301 GGGAAAGGTTGAAGCTGCAATGGCGAACCTTATACCTTAGAGACGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* * * * * * *
23201350 GGGAAAGATTGAAGTCGCAACGGCGAATCTTGTAACATGGAGATATGGAAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGT-G-AT
* * * * * *
23201401 --GAAAGGTTGAAGCCACAATGGCGAACCTTGTACCTTAAAGCTGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* * * * * * * * * *
23201448 AGGAAAGATTAAAGTCACAACGACGAATCTTGTACCATGGAGATATGGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGT-GAT
* * * *
23201498 -GGAAAGGTTAAAGCCGTAATGGCGAACCTTATACCTTAGAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* * * * * * * * *
23201546 GGGAAAGATTGAAGCCACAACGGTGAATCTTGTACCATGGATATATGAA
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* * * * *
23201595 AGGAAAGGTTGAAGCCGTAACGGCGAACCTTGTACCTTAAAGATGTGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* * * * * *
23201644 GGGAAAGATTAAAGCCGCAACGGTGAATCTTATACCATGGAGATATTGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGAT-GTGAT
* * ** **
23201693 GGGAAAGGTTGAAGCCGCAATGGCGAACCTCGTACCTTAGAGACATGAT
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* *** * * * * *
23201742 GGAAAAGATTGAAGTTACAATGACGAATCTTATACCCTAAAGATGTGGA-
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGT-GAT
* ** ** *
23201791 GGGAAAGGTTGAAATCGCAACGATGAACCTTATACCTTAGAGATGTGAG
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
* * *
23201840 GGGAAAGATTGAGGCCGCAACGGTGAATCTTATACC
1 GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACC
23201876 CTGAGGATGA
Statistics
Matches: 436, Mismatches: 128, Indels: 22
0.74 0.22 0.04
Matches are distributed among these distances:
47 2 0.00
48 11 0.03
49 412 0.94
50 9 0.02
51 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (49 bp):
GGGAAAGATTGAAGCCGCAACGGCGAACCTTATACCTTAGAGATGTGAT
Found at i:23201877 original size:98 final size:98
Alignment explanation
Indices: 23201252--23201875 Score: 656
Period size: 98 Copynumber: 6.4 Consensus size: 98
23201242 CAGGTTTTAA
* * * * * ** * *
23201252 GGGAAAGATTGAAGCCGCAATGGCAAACCTAATACCCTAAAGATATGGAGGGAAAGGTTGAAGCT
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAACC
*
23201317 GCAATGGCGAACCTTATACCTTAGAGACGTGAT
66 GCAATGGCGAACCTTATACCTTAGAGATGTGAT
* * * ** *
23201350 GGGAAAGATTGAAGTCGCAACGGCGAATCTTGTAACATGGAGATATGGAATGAAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAACC
* * * *
23201415 ACAATGGCGAACCTTGTACCTTAAAGCTGTGAT
66 GCAATGGCGAACCTTATACCTTAGAGATGTGAT
* * * * * * *
23201448 AGGAAAGATTAAAGTCACAACGACGAATCTTGTACCATGGAGATATGGATGGAAAGGTT-AAAGC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAA-C
*
23201512 CGTAATGGCGAACCTTATACCTTAGAGATGTGAT
65 CGCAATGGCGAACCTTATACCTTAGAGATGTGAT
* * * * * * *
23201546 GGGAAAGATTGAAGCCACAACGGTGAATCTTGTACCATGGATATATGAAAGGAAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAACC
* * * *
23201611 GTAACGGCGAACCTTGTACCTTAAAGATGTGAT
66 GCAATGGCGAACCTTATACCTTAGAGATGTGAT
* * * *
23201644 GGGAAAGATTAAAGCCGCAACGGTGAATCTTATACCATGGAGATATTGAGGGAAAGGTTGAAGCC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAACC
** **
23201709 GCAATGGCGAACCTCGTACCTTAGAGACATGAT
66 GCAATGGCGAACCTTATACCTTAGAGATGTGAT
* *** * * * ** * *
23201742 GGAAAAGATTGAAGTTACAATGACGAATCTTATACCCTAAAGATGTGGAGGGAAAGGTTGAAATC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAACC
* ** *
23201807 GCAACGATGAACCTTATACCTTAGAGATGTGAG
66 GCAATGGCGAACCTTATACCTTAGAGATGTGAT
* *
23201840 GGGAAAGATTGAGGCCGCAACGGTGAATCTTATACC
1 GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACC
23201876 CTGAGGATGA
Statistics
Matches: 437, Mismatches: 87, Indels: 4
0.83 0.16 0.01
Matches are distributed among these distances:
97 2 0.00
98 433 0.99
99 2 0.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (98 bp):
GGGAAAGATTGAAGCCGCAACGGCGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAACC
GCAATGGCGAACCTTATACCTTAGAGATGTGAT
Found at i:23201916 original size:147 final size:145
Alignment explanation
Indices: 23201498--23201918 Score: 363
Period size: 147 Copynumber: 2.9 Consensus size: 145
23201488 AGATATGGAT
* * * ** *
23201498 GGAAAGGTTAAAGCCGTAATGGCGAACCTTATACCTTAGAGATGTGATGGGAAAGATTGAAGCCA
1 GGAAAGATTAAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGA-GGGAAAGATTGAAGCCG
* * ** *
23201563 CAACGGTGAATCTTGTACCAT--GGATATATGAAAGGAAAGGTTGAAGCCGTAACGGCGAACCTT
65 CAACGGTGAATCTTGTACCATGAGGAT-GATGAAA--AAAGATTGAAGCCGTAAAAGCGAATCTT
* *
23201626 GTACCTTAAAGATGTGATG
127 ATACCCTAAAGATGTGATG
* * * * * *
23201645 GGAAAGATTAAAGCCGCAACGGTGAATCTTATACCATGGAGATATTGAGGGAAAGGTTGAAGCCG
1 GGAAAGATTAAAGCCGCAACGATGAACCTTATACCTTAGAGAT-GTGAGGGAAAGATTGAAGCCG
* * * * * * * * *
23201710 CAATGGCGAACCTCGTACCTTAGAGACATGATG-GAAAAGATTGAAG--TTACAATGACGAATCT
65 CAACGGTGAATCTTGTACCAT-GAG-GATGATGAAAAAAGATTGAAGCCGTA-AAAG-CGAATCT
23201772 TATACCCTAAAGATGTGGA-G
126 TATACCCTAAAGATGT-GATG
* * *
23201792 GGAAAGGTTGAAA-TCGCAACGATGAACCTTATACCTTAGAGATGTGAGGGGAAAGATTGAGGCC
1 GGAAAGATT-AAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGA-GGGAAAGATTGAAGCC
* *
23201856 GCAACGGTGAATCTTATACCCTGAGGATGA-GAAAAAGTAGATTGAAGCCGTAAAAGCGAATCT
64 GCAACGGTGAATCTTGTACCATGAGGATGATGAAAAA--AGATTGAAGCCGTAAAAGCGAATCT
23201919 CAAGACTGAA
Statistics
Matches: 215, Mismatches: 44, Indels: 30
0.74 0.15 0.10
Matches are distributed among these distances:
144 1 0.00
145 9 0.04
146 8 0.04
147 177 0.82
148 11 0.05
149 3 0.01
150 4 0.02
151 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (145 bp):
GGAAAGATTAAAGCCGCAACGATGAACCTTATACCTTAGAGATGTGAGGGAAAGATTGAAGCCGC
AACGGTGAATCTTGTACCATGAGGATGATGAAAAAAGATTGAAGCCGTAAAAGCGAATCTTATAC
CCTAAAGATGTGATG
Found at i:23202245 original size:36 final size:37
Alignment explanation
Indices: 23202205--23202275 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
23202195 GAGGCAGAGT
*
23202205 GAAG-CATGCAATCTTACCTCGATTGTAGGGCAAAGC
1 GAAGCCATGCAATCTTACCTCGATCGTAGGGCAAAGC
*
23202241 GAAGCCATGCAATCTTACCTCGATCGTGGGGCAAA
1 GAAGCCATGCAATCTTACCTCGATCGTAGGGCAAA
23202276 TTGAAGACCA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 4 0.12
37 28 0.88
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (37 bp):
GAAGCCATGCAATCTTACCTCGATCGTAGGGCAAAGC
Found at i:23202429 original size:37 final size:36
Alignment explanation
Indices: 23202388--23202510 Score: 106
Period size: 37 Copynumber: 3.3 Consensus size: 36
23202378 CCCATTCAGA
23202388 GGGCAGATTGAAGCCATGCAATTTTACCCCGACCATG
1 GGGCAGATTGAAG-CATGCAATTTTACCCCGACCATG
* * * * * *
23202425 GGGCAAATGGAAGCATACAATCTTTTA--CCTATTCAGG
1 GGGCAGATTGAAGCATGCAA--TTTTACCCCGA-CCATG
* *
23202462 GGGCAGATTGAAGTCATGCAATCTTACCCCGACAATG
1 GGGCAGATTGAAG-CATGCAATTTTACCCCGACCATG
*
23202499 GAGCAGATTGAA
1 GGGCAGATTGAA
23202511 CATCACTAAT
Statistics
Matches: 65, Mismatches: 15, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
36 13 0.20
37 38 0.58
38 14 0.22
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (36 bp):
GGGCAGATTGAAGCATGCAATTTTACCCCGACCATG
Found at i:23202435 original size:74 final size:74
Alignment explanation
Indices: 23202357--23202499 Score: 232
Period size: 74 Copynumber: 1.9 Consensus size: 74
23202347 CATAAGGTAG
* * *
23202357 ATGGAAGCATCCAATCTTTTACCCATTCAGAGGGCAGATTGAAGCCATGCAATTTTACCCCGACC
1 ATGGAAGCATACAATCTTTTACCCATTCAGAGGGCAGATTGAAGCCATGCAATCTTACCCCGACA
23202422 ATGGGGCAA
66 ATGGGGCAA
* * *
23202431 ATGGAAGCATACAATCTTTTACCTATTCAGGGGGCAGATTGAAGTCATGCAATCTTACCCCGACA
1 ATGGAAGCATACAATCTTTTACCCATTCAGAGGGCAGATTGAAGCCATGCAATCTTACCCCGACA
23202496 ATGG
66 ATGG
23202500 AGCAGATTGA
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (74 bp):
ATGGAAGCATACAATCTTTTACCCATTCAGAGGGCAGATTGAAGCCATGCAATCTTACCCCGACA
ATGGGGCAA
Found at i:23202484 original size:38 final size:37
Alignment explanation
Indices: 23202355--23202486 Score: 126
Period size: 37 Copynumber: 3.5 Consensus size: 37
23202345 ATCATAAGGT
* *
23202355 AGATGGAAGCATCCAATCTTTTACCCATTCAGAGGGC
1 AGATGGAAGCATGCAATCTTTTACCCATTCAGGGGGC
* * *
23202392 AGATTGAAGCCATGCAA--TTTTACCCCGA-CCATGGGGC
1 AGATGGAAG-CATGCAATCTTTTA-CCC-ATTCAGGGGGC
* * *
23202429 AAATGGAAGCATACAATCTTTTACCTATTCAGGGGGC
1 AGATGGAAGCATGCAATCTTTTACCCATTCAGGGGGC
*
23202466 AGATTGAAGTCATGCAATCTT
1 AGATGGAAG-CATGCAATCTT
23202487 ACCCCGACAA
Statistics
Matches: 74, Mismatches: 14, Indels: 13
0.73 0.14 0.13
Matches are distributed among these distances:
36 12 0.16
37 40 0.54
38 22 0.30
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (37 bp):
AGATGGAAGCATGCAATCTTTTACCCATTCAGGGGGC
Found at i:23203693 original size:9 final size:9
Alignment explanation
Indices: 23203675--23203720 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
23203665 CATATATATA
*
23203675 TATTTGTTT
1 TATTTATTT
23203684 TATTTATTT
1 TATTTATTT
*
23203693 TATATATTT
1 TATTTATTT
* *
23203702 TTTTTGTTT
1 TATTTATTT
23203711 TATTTATTT
1 TATTTATTT
23203720 T
1 T
23203721 TCTTTTTATT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (9 bp):
TATTTATTT
Found at i:23203699 original size:22 final size:23
Alignment explanation
Indices: 23203671--23203715 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
23203661 TTTACATATA
23203671 TATATATTTGTTTT-ATTTATTT
1 TATATATTTGTTTTGATTTATTT
* *
23203693 TATATATTTTTTTTGTTTTATTT
1 TATATATTTGTTTTGATTTATTT
23203716 ATTTTTCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (23 bp):
TATATATTTGTTTTGATTTATTT
Found at i:23213190 original size:37 final size:38
Alignment explanation
Indices: 23213149--23213246 Score: 119
Period size: 38 Copynumber: 2.6 Consensus size: 38
23213139 GTACATGTTC
23213149 ATGCAGTGACATTCTTGGGTGCAA-TTGAAGAATACTT
1 ATGCAGTGACATTCTTGGGTGCAATTTGAAGAATACTT
* * * *
23213186 ATGCAGTGATAGTTC-TAGATGCAATTTGAAGAATATTT
1 ATGCAGTGACA-TTCTTGGGTGCAATTTGAAGAATACTT
* *
23213224 ATGCAGCGACAATCTTGGGTGCA
1 ATGCAGTGACATTCTTGGGTGCA
23213247 TTTCGAAAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
37 19 0.39
38 30 0.61
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (38 bp):
ATGCAGTGACATTCTTGGGTGCAATTTGAAGAATACTT
Found at i:23216838 original size:24 final size:24
Alignment explanation
Indices: 23216810--23216862 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
23216800 ATATATTTTT
*
23216810 TATAAAAGATTTAGTATTTATTAG
1 TATAAAAGATTTAGCATTTATTAG
* * *
23216834 TATAATATATTTTGCATTTATTAG
1 TATAAAAGATTTAGCATTTATTAG
*
23216858 CATAA
1 TATAA
23216863 TTTATTTGAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (24 bp):
TATAAAAGATTTAGCATTTATTAG
Found at i:23238259 original size:17 final size:17
Alignment explanation
Indices: 23238237--23238270 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
23238227 TCCCTTAGGC
23238237 AATAATCCCTCGTATGT
1 AATAATCCCTCGTATGT
23238254 AATAATCCCTCGTATGT
1 AATAATCCCTCGTATGT
23238271 GTGGAAAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.35
Consensus pattern (17 bp):
AATAATCCCTCGTATGT
Found at i:23241317 original size:19 final size:19
Alignment explanation
Indices: 23241295--23241339 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
23241285 TTATATTAGG
23241295 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
23241314 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
23241333 ATTTAAT
1 ATTTAAT
23241340 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:23242162 original size:15 final size:16
Alignment explanation
Indices: 23242142--23242171 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23242132 CTTTCCTATT
23242142 TTCTA-TTTCTTTTAA
1 TTCTATTTTCTTTTAA
23242157 TTCTATTTTCTTTTA
1 TTCTATTTTCTTTTA
23242172 TTTTTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.17, C:0.13, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTATTTTCTTTTAA
Found at i:23242164 original size:22 final size:22
Alignment explanation
Indices: 23242137--23242180 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23242127 TTCGACTTTC
23242137 CTATTTTCTATTT-CTTTTAATT
1 CTATTTTCT-TTTACTTTTAATT
*
23242159 CTATTTTCTTTTATTTTTAATT
1 CTATTTTCTTTTACTTTTAATT
23242181 TTGCTTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.18, C:0.11, G:0.00, T:0.70
Consensus pattern (22 bp):
CTATTTTCTTTTACTTTTAATT
Found at i:23247315 original size:48 final size:48
Alignment explanation
Indices: 23247254--23247411 Score: 144
Period size: 48 Copynumber: 3.3 Consensus size: 48
23247244 AGTTTTTTTT
23247254 ATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAA
1 ATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAA
* * ** * * ** ** **
23247302 A-TCTAATCAATCATATT--TAATAAAGTTGTTTA-AATTAATTTATTGTTT
1 ATTC-AATCAATCAT-TTAAGAAAAAAAATATTTACCA-TAA-AAATACTAA
23247350 ATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAA
1 ATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAA
23247398 ATTCAATCAATCAT
1 ATTCAATCAATCAT
23247412 AATTAATAAA
Statistics
Matches: 78, Mismatches: 24, Indels: 16
0.66 0.20 0.14
Matches are distributed among these distances:
46 1 0.01
47 17 0.22
48 42 0.54
49 17 0.22
50 1 0.01
ACGTcount: A:0.49, C:0.11, G:0.03, T:0.36
Consensus pattern (48 bp):
ATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAA
Found at i:23247363 original size:96 final size:96
Alignment explanation
Indices: 23247251--23247448 Score: 344
Period size: 96 Copynumber: 2.1 Consensus size: 96
23247241 TTAAGTTTTT
23247251 TTTATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAAA-TCTAATCAATCA
1 TTTATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAAATTC-AATCAATCA
* * * *
23247315 TATTTAATAAAGTTGTTTAAATTAATTTATTG
65 TAATTAATAAAATTGTCTAAATTAATTTATTA
23247347 TTTATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAAATTCAATCAATCAT
1 TTTATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAAATTCAATCAATCAT
23247412 AATTAATAAAATTGTCTAAATTAATTTATTA
66 AATTAATAAAATTGTCTAAATTAATTTATTA
23247443 TTTATT
1 TTTATT
23247449 AAATATGATT
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
96 95 0.98
97 2 0.02
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (96 bp):
TTTATTCAATCAATCATTTAAGAAAAAAAATATTTACCATAAAAATACTAAATTCAATCAATCAT
AATTAATAAAATTGTCTAAATTAATTTATTA
Found at i:23253282 original size:88 final size:88
Alignment explanation
Indices: 23253121--23253355 Score: 335
Period size: 88 Copynumber: 2.7 Consensus size: 88
23253111 CTTCAAATTT
** * * ** * *
23253121 TTTTTCAAAAAAAACAATTAAGCCATTACTTTTTTTTTCACTCAATTTCGTATTTAAACTATCAA
1 TTTTTCAAAAAAAACAATTAAGCCCCTAATTTTTTTGT-ACTCAATTGGGTACTTGAACTATCAA
*
23253186 AATGCATCAAAAAGGTCCTCAAAC
65 AATGCATCAAAAAGGCCCTCAAAC
* * *
23253210 TTTTTCAAAAAAAATAATTAAGCCCCTAATTTTTTTGTACTCAATTGGGTACTTGAACTTTCAAG
1 TTTTTCAAAAAAAACAATTAAGCCCCTAATTTTTTTGTACTCAATTGGGTACTTGAACTATCAAA
23253275 ATGCATCAAAAAGGCCCTCAAAC
66 ATGCATCAAAAAGGCCCTCAAAC
* *
23253298 TATTTCAAAAAAAACAATTAAACCCCTAATTTTTTTGTACTCAATTGGGTACTTGAAC
1 TTTTTCAAAAAAAACAATTAAGCCCCTAATTTTTTTGTACTCAATTGGGTACTTGAAC
23253356 CATCCCTAAT
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
88 98 0.75
89 33 0.25
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.35
Consensus pattern (88 bp):
TTTTTCAAAAAAAACAATTAAGCCCCTAATTTTTTTGTACTCAATTGGGTACTTGAACTATCAAA
ATGCATCAAAAAGGCCCTCAAAC
Found at i:23253492 original size:30 final size:30
Alignment explanation
Indices: 23253452--23253508 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
23253442 ATGAAGTTAT
*
23253452 AAAAATTATAAAAATTATT-AAATTTTAATA
1 AAAAACTATAAAAA-TATTCAAATTTTAATA
*
23253482 AAAAACTATAAAGATATTCAAATTTTA
1 AAAAACTATAAAAATATTCAAATTTTA
23253509 GTAATGACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.37
Consensus pattern (30 bp):
AAAAACTATAAAAATATTCAAATTTTAATA
Found at i:23254039 original size:22 final size:22
Alignment explanation
Indices: 23254014--23254070 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
23254004 GAGAATATTT
23254014 ACTATTCATGCCAGAAAATCTC
1 ACTATTCATGCCAGAAAATCTC
** *
23254036 ACTATTCATGTTAGAGAATCTC
1 ACTATTCATGCCAGAAAATCTC
*
23254058 ACTGTTCATGCCA
1 ACTATTCATGCCA
23254071 TTTTTTCTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.32
Consensus pattern (22 bp):
ACTATTCATGCCAGAAAATCTC
Found at i:23256530 original size:26 final size:26
Alignment explanation
Indices: 23256501--23256553 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
23256491 CTTCATTATA
23256501 AGATAAACCAGAAAAAGAAAGAAAGT
1 AGATAAACCAGAAAAAGAAAGAAAGT
23256527 AGATAAACCAGAAAAAGAAAGAAAGT
1 AGATAAACCAGAAAAAGAAAGAAAGT
23256553 A
1 A
23256554 TCTCTAGTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.66, C:0.08, G:0.19, T:0.08
Consensus pattern (26 bp):
AGATAAACCAGAAAAAGAAAGAAAGT
Found at i:23260284 original size:35 final size:35
Alignment explanation
Indices: 23260245--23260311 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
23260235 AATTGAACAT
* *
23260245 GAGATATTCCCCGTAAGAAAAAACGAAATGAATCG
1 GAGATATTCCCAGCAAGAAAAAACGAAATGAATCG
* *
23260280 GAGATATTCCTAGCAAGAAAAAATGAAATGAA
1 GAGATATTCCCAGCAAGAAAAAACGAAATGAA
23260312 CAGTGAGATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.49, C:0.13, G:0.19, T:0.18
Consensus pattern (35 bp):
GAGATATTCCCAGCAAGAAAAAACGAAATGAATCG
Found at i:23260353 original size:22 final size:22
Alignment explanation
Indices: 23260302--23260359 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
23260292 GCAAGAAAAA
* *
23260302 ATGAAATGAACAGTGAGATTCT
1 ATGACATGAACAGTGAGATTAT
* * *
23260324 CTGGCATGAATAGTGAGATTAT
1 ATGACATGAACAGTGAGATTAT
23260346 ATGACATGAACAGT
1 ATGACATGAACAGT
23260360 AAATATTCTC
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.10, G:0.24, T:0.28
Consensus pattern (22 bp):
ATGACATGAACAGTGAGATTAT
Found at i:23262870 original size:167 final size:167
Alignment explanation
Indices: 23262594--23262917 Score: 603
Period size: 167 Copynumber: 1.9 Consensus size: 167
23262584 AGTTCCCGGA
* *
23262594 GTGGAAGCATAGATCCCACCATGAAACTGCCCTAGTGGTTGAGTCCCCAGAGTGAAAGCATGATT
1 GTGGAAGCATAGATCCCACCATGAAACTGCCCTAGTGGTCGAGTCCCCAGAGTGAAAGCATGAAT
*
23262659 CCCACCCTGAAACTGCCATTGAGCTGCAAGAACAGGTCTCGGTTGATTCCAGGGCCCAGAAGGGA
66 CCCACCCTGAAACCGCCATTGAGCTGCAAGAACAGGTCTCGGTTGATTCCAGGGCCCAGAAGGGA
23262724 TCACCATTGGCTGAACTGCAGGGGCAGTGCCCCAGGT
131 TCACCATTGGCTGAACTGCAGGGGCAGTGCCCCAGGT
* *
23262761 GTGGAAGCATAGATCCCACCGTGAAACTGCCCTAGTGGTCGAGTCCCCGGAGTGAAAGCATGAAT
1 GTGGAAGCATAGATCCCACCATGAAACTGCCCTAGTGGTCGAGTCCCCAGAGTGAAAGCATGAAT
23262826 CCCACCCTGAAACCGCCATTGAGCTGCAAGAACAGGTCTCGGTTGATTCCAGGGCCCAGAAGGGA
66 CCCACCCTGAAACCGCCATTGAGCTGCAAGAACAGGTCTCGGTTGATTCCAGGGCCCAGAAGGGA
23262891 TCACCATTGGCTGAACTGCAGGGGCAG
131 TCACCATTGGCTGAACTGCAGGGGCAG
23262918 GGGCTGTTGC
Statistics
Matches: 152, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
167 152 1.00
ACGTcount: A:0.26, C:0.27, G:0.29, T:0.18
Consensus pattern (167 bp):
GTGGAAGCATAGATCCCACCATGAAACTGCCCTAGTGGTCGAGTCCCCAGAGTGAAAGCATGAAT
CCCACCCTGAAACCGCCATTGAGCTGCAAGAACAGGTCTCGGTTGATTCCAGGGCCCAGAAGGGA
TCACCATTGGCTGAACTGCAGGGGCAGTGCCCCAGGT
Found at i:23270176 original size:22 final size:22
Alignment explanation
Indices: 23270148--23270189 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
23270138 ACAAATTATA
23270148 AGAGAATATTTACTATTTATTT
1 AGAGAATATTTACTATTTATTT
23270170 AGAGAATATTTACTATTTAT
1 AGAGAATATTTACTATTTAT
23270190 GCCAGAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.48
Consensus pattern (22 bp):
AGAGAATATTTACTATTTATTT
Found at i:23272257 original size:27 final size:29
Alignment explanation
Indices: 23272220--23272274 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
23272210 CCAAGTATAG
23272220 AAAATATAGAAAAGA-AATAACAA-AAAAC
1 AAAATATAGAAAAGATAA-AACAATAAAAC
*
23272248 AAAA-ATAGAATAGATAAAACAATAAAA
1 AAAATATAGAAAAGATAAAACAATAAAA
23272275 TGCTATAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.75, C:0.05, G:0.07, T:0.13
Consensus pattern (29 bp):
AAAATATAGAAAAGATAAAACAATAAAAC
Found at i:23273635 original size:29 final size:29
Alignment explanation
Indices: 23273532--23273870 Score: 321
Period size: 29 Copynumber: 11.6 Consensus size: 29
23273522 AAGAATACGA
* * *
23273532 GGTTAAAATATATTTTTAGAAAAAGTTTAGG
1 GGTTAAAATGTAATTTT-GGAAAAGTTTA-G
*
23273563 GGTAAAAATGTAATTTTAGG-AAAGTTT-G
1 GGTTAAAATGTAATTTT-GGAAAAGTTTAG
* * * *
23273591 GGGT-CAATGTGATTTTGGAGAAGTTTAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG
* * *
23273619 TGTCAAAATGTGATTTTAGG-AAAGTTTAAG
1 GGTTAAAATGTAATTTT-GGAAAAGTTT-AG
* * *
23273649 GGTTAAAATGTAATTTTTGAAGAGTTTGGGG
1 GGTTAAAATGTAATTTTGGAAAAGTTT--AG
*
23273680 GGTTAAAATGTGATTTTGGAAAAGTTTAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG
*
23273709 GGTTAAAATGCAATTTTGGAAAAGTTTAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG
* *
23273738 GGTT-AAATGTAATTTTAGAAAAGTTTGG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG
*
23273766 GGTTAAAATGTAATTTTGGAAAAGTTTGGG
1 GGTTAAAATGTAATTTTGGAAAAGTTT-AG
* *
23273796 GGTTAAATTGTAATTTTAG-AAAGTTTAG
1 GGTTAAAATGTAATTTTGGAAAAGTTTAG
* * *
23273824 AGGTTAAAATGAAATTTTGAAAAAGTTAAG
1 -GGTTAAAATGTAATTTTGGAAAAGTTTAG
* *
23273854 GGTCAAAATATAATTTT
1 GGTTAAAATGTAATTTT
23273871 TAAAGAAAAT
Statistics
Matches: 255, Mismatches: 42, Indels: 24
0.79 0.13 0.07
Matches are distributed among these distances:
26 2 0.01
27 16 0.06
28 31 0.12
29 107 0.42
30 58 0.23
31 41 0.16
ACGTcount: A:0.37, C:0.01, G:0.25, T:0.37
Consensus pattern (29 bp):
GGTTAAAATGTAATTTTGGAAAAGTTTAG
Found at i:23273872 original size:59 final size:57
Alignment explanation
Indices: 23273552--23273870 Score: 266
Period size: 59 Copynumber: 5.5 Consensus size: 57
23273542 TATTTTTAGA
* * * * **
23273552 AAAAGTTTAGGGGTAAAAATGTAATTTTAGGAAAGTTT-GGGGT-CAATGTGATTTTGG
1 AAAAG-TTAAGGGT-AAAATGTAATTTTAGAAAAGTTTAGGGTTAAAATGAAATTTTGG
* * * * * * *
23273609 AGAAGTTTAGTGTCAAAATGTGATTTTAGGAAAGTTTAAGGGTTAAAATGTAATTTTTG
1 AAAAGTTAAGGGT-AAAATGTAATTTTAGAAAAGTTT-AGGGTTAAAATGAAATTTTGG
* ** * * *
23273668 AAGAGTTTGGGGGGTTAAAATGTGATTTTGGAAAAGTTTAGGGTTAAAATGCAATTTTGG
1 AAAAG-TT-AAGGG-TAAAATGTAATTTTAGAAAAGTTTAGGGTTAAAATGAAATTTTGG
* * * *
23273728 AAAAGTTTAGGGTTAAATGTAATTTTAGAAAAGTTTGGGGTTAAAATGTAATTTTGG
1 AAAAGTTAAGGGTAAAATGTAATTTTAGAAAAGTTTAGGGTTAAAATGAAATTTTGG
** * *
23273785 AAAAGTTTGGGGGTTAAATTGTAATTTTAG-AAAGTTTAGAGGTTAAAATGAAATTTTGA
1 AAAAG-TTAAGGG-TAAAATGTAATTTTAGAAAAGTTTAG-GGTTAAAATGAAATTTTGG
*
23273844 AAAAGTTAAGGGTCAAAATATAATTTT
1 AAAAGTTAAGGGT-AAAATGTAATTTT
23273871 TAAAGAAAAT
Statistics
Matches: 214, Mismatches: 38, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
56 27 0.13
57 50 0.23
58 36 0.17
59 52 0.24
60 25 0.12
61 23 0.11
62 1 0.00
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (57 bp):
AAAAGTTAAGGGTAAAATGTAATTTTAGAAAAGTTTAGGGTTAAAATGAAATTTTGG
Found at i:23274794 original size:22 final size:23
Alignment explanation
Indices: 23274750--23274842 Score: 82
Period size: 23 Copynumber: 4.1 Consensus size: 23
23274740 TAAATTTGTG
*
23274750 CCTAAGCCCAAACCCTTTTAAAA
1 CCTAAACCCAAACCCTTTTAAAA
*
23274773 CCTAAACCCAAATCC-TTTAAAA
1 CCTAAACCCAAACCCTTTTAAAA
* * * *
23274795 -TTAAATCCAATAACCTTTTTAAA
1 CCTAAACCCAA-ACCCTTTTAAAA
* * *
23274818 CCCATACCCAAACCCTTTAAAAA
1 CCTAAACCCAAACCCTTTTAAAA
23274841 CC
1 CC
23274843 AAGTCCAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 8 0.15
22 10 0.19
23 30 0.56
24 6 0.11
ACGTcount: A:0.42, C:0.32, G:0.01, T:0.25
Consensus pattern (23 bp):
CCTAAACCCAAACCCTTTTAAAA
Found at i:23274947 original size:27 final size:27
Alignment explanation
Indices: 23274915--23274986 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
23274905 TGATCGACCG
*
23274915 TTGACCGTTGACCGTTGATAATTGATT
1 TTGACCGTTGACCGTTGATAATTGACT
* * *
23274942 TTGACCGTTGGCTGTTGATAGTTGACT
1 TTGACCGTTGACCGTTGATAATTGACT
*
23274969 TTGACCGTTGATCGTTGA
1 TTGACCGTTGACCGTTGA
23274987 CTTTTTCTGA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.18, C:0.15, G:0.26, T:0.40
Consensus pattern (27 bp):
TTGACCGTTGACCGTTGATAATTGACT
Found at i:23276156 original size:21 final size:22
Alignment explanation
Indices: 23276121--23276170 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
23276111 TATTTTGGGA
23276121 ATTTTG-GTATTTTTTTCATTTT
1 ATTTTGAGT-TTTTTTTCATTTT
*
23276143 ATTTTGAGTTTTTTTTCTTTTT
1 ATTTTGAGTTTTTTTTCATTTT
23276165 ATTTTG
1 ATTTTG
23276171 GGATATTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 24 0.92
23 2 0.08
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.74
Consensus pattern (22 bp):
ATTTTGAGTTTTTTTTCATTTT
Found at i:23282170 original size:7 final size:7
Alignment explanation
Indices: 23282160--23282287 Score: 111
Period size: 7 Copynumber: 18.9 Consensus size: 7
23282150 TTAACCGACT
23282160 GTTGACC
1 GTTGACC
*
23282167 GTTGATC
1 GTTGACC
**
23282174 GTTGATT
1 GTTGACC
*
23282181 ATTGA-C
1 GTTGACC
* *
23282187 TTTGATC
1 GTTGACC
23282194 GTTGACC
1 GTTGACC
*
23282201 GCTGA-C
1 GTTGACC
*
23282207 TTTGACC
1 GTTGACC
23282214 GTTGACC
1 GTTGACC
*
23282221 GTTGACT
1 GTTGACC
*
23282228 GTTGACT
1 GTTGACC
*
23282235 ATTGA-C
1 GTTGACC
*
23282241 TTTGACC
1 GTTGACC
23282248 GTTGACC
1 GTTGACC
23282255 GTTGACC
1 GTTGACC
23282262 GTTGA-C
1 GTTGACC
*
23282268 TTTGACC
1 GTTGACC
23282275 GTTGACC
1 GTTGACC
23282282 GTTGAC
1 GTTGAC
23282288 TTTCTGAAAA
Statistics
Matches: 99, Mismatches: 18, Indels: 8
0.79 0.14 0.06
Matches are distributed among these distances:
6 17 0.17
7 82 0.83
ACGTcount: A:0.16, C:0.22, G:0.25, T:0.37
Consensus pattern (7 bp):
GTTGACC
Found at i:23282191 original size:27 final size:27
Alignment explanation
Indices: 23282156--23282288 Score: 169
Period size: 27 Copynumber: 4.9 Consensus size: 27
23282146 ACCGTTAACC
* *
23282156 GACTGTTGACCGTTGATCGTTGATTATT
1 GACT-TTGACCGTTGACCGTTGACTATT
* *
23282184 GACTTTGATCGTTGACCGCTGACT-TT
1 GACTTTGACCGTTGACCGTTGACTATT
* *
23282210 GACCGTTGACCGTTGACTGTTGACTATT
1 GA-CTTTGACCGTTGACCGTTGACTATT
**
23282238 GACTTTGACCGTTGACCGTTGACCGTT
1 GACTTTGACCGTTGACCGTTGACTATT
23282265 GACTTTGACCGTTGACCGTTGACT
1 GACTTTGACCGTTGACCGTTGACT
23282289 TTCTGAAAAG
Statistics
Matches: 90, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
26 4 0.04
27 78 0.87
28 8 0.09
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.37
Consensus pattern (27 bp):
GACTTTGACCGTTGACCGTTGACTATT
Found at i:23282206 original size:20 final size:20
Alignment explanation
Indices: 23282182--23282290 Score: 139
Period size: 20 Copynumber: 5.4 Consensus size: 20
23282172 TCGTTGATTA
*
23282182 TTGACTTTGATCGTTGACCG
1 TTGACTTTGACCGTTGACCG
*
23282202 CTGACTTTGACCGTTGACCG
1 TTGACTTTGACCGTTGACCG
** *
23282222 TTGACTGTTGACTATTGA-CT
1 TTGACT-TTGACCGTTGACCG
*
23282242 TTGACCGTTGACCGTTGACCG
1 TTGA-CTTTGACCGTTGACCG
23282263 TTGACTTTGACCGTTGACCG
1 TTGACTTTGACCGTTGACCG
23282283 TTGACTTT
1 TTGACTTT
23282291 CTGAAAAGCC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
20 60 0.80
21 15 0.20
ACGTcount: A:0.16, C:0.23, G:0.24, T:0.38
Consensus pattern (20 bp):
TTGACTTTGACCGTTGACCG
Found at i:23283402 original size:20 final size:20
Alignment explanation
Indices: 23283373--23283417 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
23283363 TGGGTTTTTA
23283373 TTATACCTTGTTCATTATAT
1 TTATACCTTGTTCATTATAT
*
23283393 TTATATCTTGTTCATTATAT
1 TTATACCTTGTTCATTATAT
23283413 TTATA
1 TTATA
23283418 ATTATTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (20 bp):
TTATACCTTGTTCATTATAT
Found at i:23283819 original size:29 final size:29
Alignment explanation
Indices: 23283743--23284058 Score: 221
Period size: 30 Copynumber: 10.6 Consensus size: 29
23283733 AGAGAATACG
* *
23283743 GGGTTAAAATATAATTTTAGAAAAAGTTT-A
1 GGGTTAAAATGTAATTTT-G-GAAAGTTTGA
*
23283773 GGAGTAAAAATGTAATTTTAGGAAAGTTTGA
1 GG-GTTAAAATGTAATTTT-GGAAAGTTTGA
* *
23283804 -GGTCAAAATGTGATTTTGGGAAAG-TTGA
1 GGGTTAAAATGTAATTTT-GGAAAGTTTGA
* * *
23283832 GGGGTCAAAAATATAATTTTGAAAGAGTTT-A
1 -GGGT-TAAAATGTAATTTTGGAA-AGTTTGA
** ** *
23283863 GCATTTAAAACATGATTTTGGAGAAGTTT-A
1 G-GGTTAAAATGTAATTTTGGA-AAGTTTGA
* * * *
23283893 AGGTTAAAATGCAATTTTTGAAAAGTTTAA
1 GGGTTAAAATGTAA-TTTTGGAAAGTTTGA
* *
23283923 GGGTCAAAATGTAATTTTAGAAAAGTTTGA
1 GGGTTAAAATGTAATTTT-GGAAAGTTTGA
23283953 GGGGTTAAAATGTAATTTTGGAAAAGTTTG-
1 -GGGTTAAAATGTAATTTTGG-AAAGTTTGA
* *
23283983 GGGTTAAAATGTAATTTTGGAAAATTTTA
1 GGGTTAAAATGTAATTTTGGAAAGTTTGA
* * * *
23284012 TGGGTTAAAAAGTGATTTTAGAAAGTTTAA
1 -GGGTTAAAATGTAATTTTGGAAAGTTTGA
*
23284042 GGGTTAAAATGAAATTT
1 GGGTTAAAATGTAATTT
23284059 CAAAAAAGTT
Statistics
Matches: 230, Mismatches: 40, Indels: 33
0.76 0.13 0.11
Matches are distributed among these distances:
28 10 0.04
29 71 0.31
30 89 0.39
31 58 0.25
32 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (29 bp):
GGGTTAAAATGTAATTTTGGAAAGTTTGA
Found at i:23283836 original size:90 final size:89
Alignment explanation
Indices: 23283742--23284035 Score: 301
Period size: 90 Copynumber: 3.3 Consensus size: 89
23283732 CAGAGAATAC
23283742 GGGGTTAAAATATAATTTTAGAAAAAGTTTAGGAGTAAAAATGTAATTTTAGGAAAGTTTGAGGT
1 GGGGTTAAAATATAATTTTAGAAAAAGTTTAGGAGTAAAAATGTAATTTT-GGAAAGTTTGAGGT
* * * *
23283807 CAAAATGTGATTTTGGGAAAGTTGA
65 TAAAATGTAATTTTGGAAAAGTTTA
* * * * *
23283832 GGGGTCAAAAATATAATTTT-GAAAGAGTTTAGCATTTAAAACATG--ATTTTGGAGAAGTTTAA
1 GGGGT-TAAAATATAATTTTAGAAAAAGTTTAGGA-GTAAAA-ATGTAATTTTGGA-AAGTTTGA
* *
23283894 GGTTAAAATGCAATTTTTGAAAAGTTTA
62 GGTTAAAATGTAATTTTGGAAAAGTTTA
* * * * * *
23283922 AGGGTCAAAATGTAATTTTAG-AAAAGTTTGAGGGGTTAAAATGTAATTTTGGAAAAGTTTGGGG
1 GGGGTTAAAATATAATTTTAGAAAAAGTTT-AGGAGTAAAAATGTAATTTTGG-AAAGTTTGAGG
*
23283986 TTAAAATGTAATTTTGGAAAATTTTA
64 TTAAAATGTAATTTTGGAAAAGTTTA
* *
23284012 TGGGTTAAAA-AGTGATTTTAGAAA
1 GGGGTTAAAATA-TAATTTTAGAAA
23284036 GTTTAAGGGT
Statistics
Matches: 165, Mismatches: 28, Indels: 21
0.77 0.13 0.10
Matches are distributed among these distances:
88 3 0.02
89 26 0.16
90 112 0.68
91 21 0.13
92 3 0.02
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.35
Consensus pattern (89 bp):
GGGGTTAAAATATAATTTTAGAAAAAGTTTAGGAGTAAAAATGTAATTTTGGAAAGTTTGAGGTT
AAAATGTAATTTTGGAAAAGTTTA
Found at i:23284046 original size:59 final size:61
Alignment explanation
Indices: 23283743--23284068 Score: 242
Period size: 59 Copynumber: 5.4 Consensus size: 61
23283733 AGAGAATACG
* * * *
23283743 GGGTTAAAATATAATTTTAGAAAAAGTTT-AGGAG-TAAAAATGTAATTTTAGGAAAGTTTGA
1 GGGTTAAAATGTAATTTTAG-AAAAGTTTGAGGGGTTAAAAA-GTAATTTTAGAAAAGTTTAA
* * * * * *
23283804 -GGTCAAAATGTGATTTTGGGAAAG-TTGAGGGGTCAAAAATATAATTTT-GAAAGAGTTT-A
1 GGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGGTTAAAAA-GTAATTTTAGAAA-AGTTTAA
** ** * * * * * * *
23283863 GCATTTAAAACATGATTTTGGAGAAGTTT-A-AGGTTAAAATGCAATTTTTGAAAAGTTTAA
1 G-GGTTAAAATGTAATTTTAGAAAAGTTTGAGGGGTTAAAAAGTAATTTTAGAAAAGTTTAA
* * * *
23283923 GGGTCAAAATGTAATTTTAGAAAAGTTTGAGGGGTTAAAATGTAATTTTGGAAAAGTTT-G
1 GGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGGTTAAAAAGTAATTTTAGAAAAGTTTAA
* * * *
23283983 GGGTTAAAATGTAATTTTGGAAAA-TTTTATGGGTTAAAAAGTGATTTTAG-AAAGTTTAA
1 GGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGGTTAAAAAGTAATTTTAGAAAAGTTTAA
* * *
23284042 GGGTTAAAATGAAATTTCAAAAAAGTT
1 GGGTTAAAATGTAATTTTAGAAAAGTT
23284069 AAGAGTCAAA
Statistics
Matches: 208, Mismatches: 45, Indels: 25
0.75 0.16 0.09
Matches are distributed among these distances:
58 9 0.04
59 83 0.40
60 71 0.34
61 43 0.21
62 2 0.01
ACGTcount: A:0.40, C:0.02, G:0.23, T:0.35
Consensus pattern (61 bp):
GGGTTAAAATGTAATTTTAGAAAAGTTTGAGGGGTTAAAAAGTAATTTTAGAAAAGTTTAA
Found at i:23284070 original size:29 final size:30
Alignment explanation
Indices: 23283743--23284088 Score: 202
Period size: 29 Copynumber: 11.6 Consensus size: 30
23283733 AGAGAATACG
*
23283743 GGGTTAAAATATAATTTTAGAAAAAGTTT-A
1 GGGTTAAAATGTAATTTTA-AAAAAGTTTAA
* ** *
23283773 GGAGTAAAAATGTAATTTTAGGAAAGTTTGA
1 GG-GTTAAAATGTAATTTTAAAAAAGTTTAA
* * *** * *
23283804 -GGTCAAAATGTGATTTTGGGAAAGTTGAG
1 GGGTTAAAATGTAATTTTAAAAAAGTTTAA
* * * *
23283833 GGGTCAAAAATATAATTTTGAAAGAGTTT-A
1 GGGT-TAAAATGTAATTTTAAAAAAGTTTAA
** ** * ** *
23283863 GCATTTAAAACATGATTTTGGAGAAGTTTAA
1 G-GGTTAAAATGTAATTTTAAAAAAGTTTAA
* **
23283894 -GGTTAAAATGCAATTTTTGAAAAGTTTAA
1 GGGTTAAAATGTAATTTTAAAAAAGTTTAA
* * *
23283923 GGGTCAAAATGTAATTTTAGAAAAGTTTGAG
1 GGGTTAAAATGTAATTTTAAAAAAGTTT-AA
** *
23283954 GGGTTAAAATGTAATTTTGGAAAAGTTT-G
1 GGGTTAAAATGTAATTTTAAAAAAGTTTAA
** * *
23283983 GGGTTAAAATGTAATTTTGGAAAATTTTAT
1 GGGTTAAAATGTAATTTTAAAAAAGTTTAA
* * *
23284013 GGGTTAAAAAGTGATTTT-AGAAAGTTTAA
1 GGGTTAAAATGTAATTTTAAAAAAGTTTAA
* *
23284042 GGGTTAAAATGAAATTTCAAAAAAG-TTAA
1 GGGTTAAAATGTAATTTTAAAAAAGTTTAA
* *
23284071 GAGTCAAAATGTAATTTT
1 GGGTTAAAATGTAATTTT
23284089 TAAAGAAAAT
Statistics
Matches: 249, Mismatches: 57, Indels: 21
0.76 0.17 0.06
Matches are distributed among these distances:
29 110 0.44
30 77 0.31
31 62 0.25
ACGTcount: A:0.40, C:0.02, G:0.22, T:0.35
Consensus pattern (30 bp):
GGGTTAAAATGTAATTTTAAAAAAGTTTAA
Found at i:23286169 original size:42 final size:42
Alignment explanation
Indices: 23286042--23286181 Score: 151
Period size: 42 Copynumber: 3.4 Consensus size: 42
23286032 TTGATTTAAA
* * * * *
23286042 GGTAGAAGATTGGATGATGTCTTCAATCTACCCCAAGATCGA
1 GGTAAAAGATTGGATGATGTCTTCAATATGCCCCATGATCGG
* * * **
23286084 GGTAAGAGATTGG-TG-TGTCTTTAATTTGCCCTC-TGATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATATGCCC-CATGATCGG
*
23286124 GGTAAAAGATTGGATGATATCTTCAATATGCCCCATGATCGG
1 GGTAAAAGATTGGATGATGTCTTCAATATGCCCCATGATCGG
23286166 GGTAAAAGATTGGATG
1 GGTAAAAGATTGGATG
23286182 GTTGCGATCT
Statistics
Matches: 79, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 28 0.35
41 6 0.08
42 45 0.57
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
GGTAAAAGATTGGATGATGTCTTCAATATGCCCCATGATCGG
Found at i:23286217 original size:39 final size:39
Alignment explanation
Indices: 23286163--23286599 Score: 135
Period size: 39 Copynumber: 11.2 Consensus size: 39
23286153 GCCCCATGAT
23286163 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
* * *** *
23286202 CGGGGTAAGAGATTGGCTGACGGTGATCTACCCCATGAT--
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCC-TG-TCG
* * * * * * *
23286241 TGGGGTAAAAGATCGAATGGTTGCAATTTGCCCCTATCG
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
** * * *** * *
23286280 TAGGATAAAAGATTGGTTGACGGTGATCTGCCCCATGAT--
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCC-TG-TCG
* * * * * *
23286319 CGGGGTAAAAGATCGAATGGTTGCAATCTGCCCTTATCG
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
* *
23286358 CGGGGTAAGAGATT-GACTGACGAT--GATCTACCCCATGAT--
1 CGGGGTAAAAGATTGGA-TG--GTTGCGATCTACCCC-TG-TCG
* * *
23286397 CGGGGTAAAAGATCGGATGGTTGCAATCTACCCCAGTCG
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
* * *** * * *
23286436 CGGGGTAAGAGATTGGCTGACGGTGATCT-GCCCTAT-G
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
* * * * * *
23286473 ATCGGGGTAAAAGATCGAATGGTTACAATCTGCCCTTGTCG
1 --CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
* *** * *
23286514 CGGGGTAAAAGATTGGCTGACGGTGATCTGCCCCATGAT--
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCC-TG-TCG
* * * * * *
23286553 CGGGGTAAAAGATCGAATGGTTACAAGCTGCCCCTGTCG
1 CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
23286592 CGGGGTAA
1 CGGGGTAA
23286600 GAGAATGGCT
Statistics
Matches: 271, Mismatches: 101, Indels: 52
0.64 0.24 0.12
Matches are distributed among these distances:
37 7 0.03
38 10 0.04
39 235 0.87
40 12 0.04
41 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (39 bp):
CGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCG
Found at i:23286246 original size:78 final size:78
Alignment explanation
Indices: 23286154--23286696 Score: 755
Period size: 78 Copynumber: 7.0 Consensus size: 78
23286144 CTTCAATATG
* * * *
23286154 CCCCATGATCGGGGTAAAAGATTGGATGGTTGCGATCTACCCCTGTCGCGGGGTAAGAGATTGGC
1 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
23286219 TGACGGTGATCTA
66 TGACGGTGATCTA
* * * ** * * *
23286232 CCCCATGATTGGGGTAAAAGATCGAATGGTTGCAATTTGCCCCTATCGTAGGATAAAAGATTGGT
1 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
*
23286297 TGACGGTGATCTG
66 TGACGGTGATCTA
* * *
23286310 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCTTATCGCGGGGTAAGAGATTGAC
1 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
*
23286375 TGACGATGATCTA
66 TGACGGTGATCTA
* * *
23286388 CCCCATGATCGGGGTAAAAGATCGGATGGTTGCAATCTACCCCAGTCGCGGGGTAAGAGATTGGC
1 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
*
23286453 TGACGGTGATCTG
66 TGACGGTGATCTA
* * * *
23286466 CCCTATGATCGGGGTAAAAGATCGAATGGTTACAATCTGCCCTTGTCGCGGGGTAAAAGATTGGC
1 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
*
23286531 TGACGGTGATCTG
66 TGACGGTGATCTA
* * *
23286544 CCCCATGATCGGGGTAAAAGATCGAATGGTTACAAGCTGCCCCTGTCGCGGGGTAAGAGAATGGC
1 CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
*
23286609 TGACGGTGATTTA
66 TGACGGTGATCTA
* ** *
23286622 CCCCATGATTGGGGTAAAAGATCTG-ATGGTTATAATCTGCCCCTGTCGCGTGGTAAGAGATTGG
1 CCCCATGATCGGGGTAAAAGATC-GAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGG
*
23286686 CTAACGGTGAT
65 CTGACGGTGAT
23286697 GTAACTTCAC
Statistics
Matches: 412, Mismatches: 52, Indels: 2
0.88 0.11 0.00
Matches are distributed among these distances:
78 411 1.00
79 1 0.00
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.25
Consensus pattern (78 bp):
CCCCATGATCGGGGTAAAAGATCGAATGGTTGCAATCTGCCCCTGTCGCGGGGTAAGAGATTGGC
TGACGGTGATCTA
Found at i:23297866 original size:21 final size:21
Alignment explanation
Indices: 23297840--23297899 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
23297830 AACAGTGCAG
23297840 ACTTCTACCAATACAAGTGAC
1 ACTTCTACCAATACAAGTGAC
* * * *
23297861 AGTTCTATCGATACAAGAGAC
1 ACTTCTACCAATACAAGTGAC
* *
23297882 TCTTCTACCAAAACAAGT
1 ACTTCTACCAATACAAGT
23297900 CCTACATCTA
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (21 bp):
ACTTCTACCAATACAAGTGAC
Found at i:23298608 original size:36 final size:36
Alignment explanation
Indices: 23298557--23298656 Score: 164
Period size: 36 Copynumber: 2.8 Consensus size: 36
23298547 TGTTATTCGT
*
23298557 TTTACTCCCTGTTGACCCAATGGTCATGATGCTCAC
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAC
* *
23298593 TTTACTCCCTATTGACCCAAAGGTCATGATGCTCAT
1 TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAC
*
23298629 TTTGCTCCCTGTTGACCCAAAGGTCATG
1 TTTACTCCCTGTTGACCCAAAGGTCATG
23298657 CCTGTTACCA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 59 1.00
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGGTCATGATGCTCAC
Found at i:23299647 original size:21 final size:19
Alignment explanation
Indices: 23299610--23299648 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
23299600 GAAACCCTAG
*
23299610 TTTTTCATTTTTTTTCATT
1 TTTTTCATTTTTATTCATT
23299629 TTTTTCTATTTTTAATTCAT
1 TTTTTC-ATTTTT-ATTCAT
23299649 ATATATACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.74
Consensus pattern (19 bp):
TTTTTCATTTTTATTCATT
Found at i:23305797 original size:36 final size:36
Alignment explanation
Indices: 23305753--23305888 Score: 218
Period size: 36 Copynumber: 3.8 Consensus size: 36
23305743 TTGTTATTTG
* *
23305753 TTTTACTCCCTGTTGAGCCAAAGGTCATGATGCTTA
1 TTTTACTCCCTGTTGACCCAAAGGTCATGATGCTCA
* *
23305789 TTTTACTCCCTATTGACCCAAAGGTCATAATGCTCA
1 TTTTACTCCCTGTTGACCCAAAGGTCATGATGCTCA
*
23305825 CTTTACTCCCTGTTGACCCAAAGGTCATGATGCTCA
1 TTTTACTCCCTGTTGACCCAAAGGTCATGATGCTCA
*
23305861 TTTTACTCCTTGTTGACCCAAAGGTCAT
1 TTTTACTCCCTGTTGACCCAAAGGTCAT
23305889 TCCTATTACC
Statistics
Matches: 91, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 91 1.00
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (36 bp):
TTTTACTCCCTGTTGACCCAAAGGTCATGATGCTCA
Found at i:23309685 original size:39 final size:39
Alignment explanation
Indices: 23309332--23309677 Score: 467
Period size: 39 Copynumber: 8.9 Consensus size: 39
23309322 CTTATGAATA
*
23309332 TATACTGAACTGGCAGTGACACTATAAACACTACAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
* * *
23309371 TATACTAAACTGGCAGTGACACTGTAAATACTGCAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
* * * * *
23309410 TATACTAAACTGGCACTGACACTGTGAACACTGCAACGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
23309449 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
* * * * **
23309488 TATATTGAACTAGCACTGACACTGTGAACACTGTAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
* *
23309527 TATACTGAACTGGCTGTGACACTGTAAACATTACAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
** **
23309566 TATACTGAACTAACAGTGACACTGTAAACACTGTAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
* * *
23309605 CATACTGAACTGGTAGTGACACTGTAAATACTACAATGC
1 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
*
23309644 TATACTGAACTGGCGGTGACACTGTAAACACTAC
1 TATACTGAACTGGCAGTGACACTGTAAACACTAC
23309678 TAGGCTATCA
Statistics
Matches: 263, Mismatches: 44, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 263 1.00
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (39 bp):
TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
Found at i:23317766 original size:117 final size:117
Alignment explanation
Indices: 23317557--23317783 Score: 310
Period size: 117 Copynumber: 1.9 Consensus size: 117
23317547 CTTAAGAATA
* *
23317557 TATACTGAACTGGTAGTGACAATGTAAACACTACAATGCTATACTGAACTGGCAGTGACACTGTA
1 TATACTGAACTGGCAGTGACAATATAAACACTACAATGCTATACTGAACTGGCAGTGACACTGTA
* *
23317622 AACACTACAATGCTATACTGAACTAGTAGTGACACTATAAACACTGTAATGC
66 AACACCACAACGCTATACTGAACTAGTAGTGACACTATAAACACTGTAATGC
* * * * **
23317674 TATACTGAACTGGCAGTGACACTATAAACACTGCGATGCTATACTGAATTGGTGGTGACACTGTA
1 TATACTGAACTGGCAGTGACAATATAAACACTACAATGCTATACTGAACTGGCAGTGACACTGTA
* ** * * *
23317739 AGCACCGTAACGCTATACTGAAGTAGTAGTGACACTGTAAGCACT
66 AACACCACAACGCTATACTGAACTAGTAGTGACACTATAAACACT
23317784 ATTAGGCTAT
Statistics
Matches: 94, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
117 94 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (117 bp):
TATACTGAACTGGCAGTGACAATATAAACACTACAATGCTATACTGAACTGGCAGTGACACTGTA
AACACCACAACGCTATACTGAACTAGTAGTGACACTATAAACACTGTAATGC
Found at i:23317793 original size:39 final size:39
Alignment explanation
Indices: 23317557--23317784 Score: 276
Period size: 39 Copynumber: 5.8 Consensus size: 39
23317547 CTTAAGAATA
*
23317557 TATACTGAACTGGTAGTGACAATGTAAACACTACAATGC
1 TATACTGAACTGGTAGTGACACTGTAAACACTACAATGC
*
23317596 TATACTGAACTGGCAGTGACACTGTAAACACTACAATGC
1 TATACTGAACTGGTAGTGACACTGTAAACACTACAATGC
* * **
23317635 TATACTGAACTAGTAGTGACACTATAAACACTGTAATGC
1 TATACTGAACTGGTAGTGACACTGTAAACACTACAATGC
* * * *
23317674 TATACTGAACTGGCAGTGACACTATAAACACTGCGATGC
1 TATACTGAACTGGTAGTGACACTGTAAACACTACAATGC
* * * *** *
23317713 TATACTGAATTGGTGGTGACACTGTAAGCACCGTAACGC
1 TATACTGAACTGGTAGTGACACTGTAAACACTACAATGC
* * *
23317752 TATACTGAAGTAGTAGTGACACTGTAAGCACTA
1 TATACTGAACTGGTAGTGACACTGTAAACACTA
23317785 TTAGGCTATC
Statistics
Matches: 164, Mismatches: 25, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 164 1.00
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (39 bp):
TATACTGAACTGGTAGTGACACTGTAAACACTACAATGC
Found at i:23320665 original size:18 final size:18
Alignment explanation
Indices: 23320623--23320666 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23320613 TAAATCCTTT
23320623 TATTTTTTATTTGTTTAA
1 TATTTTTTATTTGTTTAA
** **
23320641 TCCTTTTTATTTGTTTTG
1 TATTTTTTATTTGTTTAA
23320659 TATTTTTT
1 TATTTTTT
23320667 TTGTAATACG
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (18 bp):
TATTTTTTATTTGTTTAA
Found at i:23329312 original size:21 final size:21
Alignment explanation
Indices: 23329286--23329432 Score: 165
Period size: 21 Copynumber: 7.0 Consensus size: 21
23329276 CAAGTAAGAA
23329286 CCCTGTATTACACTTCGGTGC
1 CCCTGTATTACACTTCGGTGC
*
23329307 CCCTGTATTACACTCCGGTGC
1 CCCTGTATTACACTTCGGTGC
*
23329328 CCCTGTACTACAC-TCTGGTGC
1 CCCTGTATTACACTTC-GGTGC
*
23329349 CCCTGTATTGCACTGT-GGTGC
1 CCCTGTATTACACT-TCGGTGC
*
23329370 CCCAGTA-TAGCACTTCGGTGC
1 CCCTGTATTA-CACTTCGGTGC
*
23329391 CCCTGTATTGCACTTCGGTGC
1 CCCTGTATTACACTTCGGTGC
* * * *
23329412 CCTTGAAATGCACTTCGGTGC
1 CCCTGTATTACACTTCGGTGC
23329433 TCCCATGTGT
Statistics
Matches: 108, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
20 3 0.03
21 103 0.95
22 1 0.01
23 1 0.01
ACGTcount: A:0.14, C:0.33, G:0.22, T:0.30
Consensus pattern (21 bp):
CCCTGTATTACACTTCGGTGC
Found at i:23332930 original size:47 final size:47
Alignment explanation
Indices: 23332845--23333136 Score: 307
Period size: 47 Copynumber: 6.2 Consensus size: 47
23332835 GACTAGTGAC
* * * *
23332845 CATCCAATCTTATACCTCAAATTTAGAGGGCCAGATTAAAGCCATCA
1 CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGCCATCA
* * * * * *
23332892 CATCCAGTTTTATACCCCAAATCTAAAGGGGCAAATTAAAGTCATCA
1 CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGCCATCA
* * * * * *
23332939 CATCTAGTCTTTTACCCCAAATTTAGAGGGGCAGAATGAA-CTTATCA
1 CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGC-CATCA
* * *
23332986 TATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCA
1 CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGCCATCA
* * * *
23333033 CATCCAATCTTATTCCCTAAATCTAGAGGGGTAGATTGAAGTCATCA
1 CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGCCATCA
* * * * * *
23333080 CATCTAGTCTTATACCCTAAATCCAGAAGGGTAGATTGAAGCCATCA
1 CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGCCATCA
23333127 CATCCAATCT
1 CATCCAATCT
23333137 ATCATATCCA
Statistics
Matches: 203, Mismatches: 40, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 202 1.00
48 1 0.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (47 bp):
CATCCAATCTTATACCCCAAATCTAGAGGGGCAGATTGAAGCCATCA
Found at i:23333033 original size:94 final size:93
Alignment explanation
Indices: 23332845--23333505 Score: 345
Period size: 94 Copynumber: 6.9 Consensus size: 93
23332835 GACTAGTGAC
* * * * *
23332845 CATCCAATCTTATACCTCAAATTTAGAGGGCCAGATTAAAGC-CATCACATCCAGTTTTATACCC
1 CATCCAATCTTTTACCCCAAATTTAGAGGGGCAGATTGAA-CTCATCACATCCAGTCTTATA-CC
* * *
23332909 CAAATCTAAAGGGGCAAATTAAAG-TCATCA
64 CAAATCTAGAGGGGCAGATTGAAGCT-ATCA
* * * * * *
23332939 CATCTAGTCTTTTACCCCAAATTTAGAGGGGCAGAATGAACTTATCATATCCAATCTTATACCTC
1 CATCCAATCTTTTACCCCAAATTTAGAGGGGCAGATTGAACTCATCACATCCAGTCTTATACC-C
23333004 AAATCTAGAGGGGCAGATTGAAGCTATCA
65 AAATCTAGAGGGGCAGATTGAAGCTATCA
* * * * *
23333033 CATCCAATCTTATT-CCCTAAATCTAGAGGGGTAGATTGAAGTCATCACATCTAGTCTTATACCC
1 CATCCAATCTT-TTACCCCAAATTTAGAGGGGCAGATTGAACTCATCACATCCAGTCTTATACCC
* * * *
23333097 TAAATCCAGAAGGGTAGATTGAAGCCATCA
65 -AAATCTAGAGGGGCAGATTGAAGCTATCA
* * * *
23333127 CATCCAATCTATCATATCCAATCTTATACCTCAAATCTAAAAGGGTAGATTGAAGCT-ATCACAT
1 CATCCAATCT-T--T-T---A-C-----CC-CAAATTTAGAGGGGCAGATTGAA-CTCATCACAT
* * * *
23333191 CCAATCTTATACCCTAAATCTAGAAGGGTAGATTAAAG-TCATCA
51 CCAGTCTTATACCC-AAATCTAGAGGGGCAGATTGAAGCT-ATCA
* * ** * ** *
23333235 CATCTAATCTTATACCCCAAATCCAAAGGGGTGGATTGAAGC-CATCACATCCAATCTTATACCC
1 CATCCAATCTTTTACCCCAAATTTAGAGGGGCAGATTGAA-CTCATCACATCCAGTCTTATACCC
* * * * * *
23333299 AAAATCCAAAGAGGAAAATTGAAGTTATCA
65 -AAATCTAGAGGGGCAGATTGAAGCTATCA
* * * * * * * * * * **
23333329 TATCTAGT-TTTAAACCCTAAATTCAGAGGAGCAAATTAAAGCT-ATCGCATTGAGT-TTATACC
1 CATCCAATCTTT-TACCCCAAATTTAGAGGGGCAGATTGAA-CTCATCACATCCAGTCTTATA-C
* *
23333391 CCAAATCTAGAGGGGTAGATTGAAACTATCA
63 CCAAATCTAGAGGGGCAGATTGAAGCTATCA
* * ** * * * *
23333422 CATCTAGTCTTACACCTCAAATCTAGAGGGACA-ATTTGAAGCT-ATAACATCCAGTCTTATACC
1 CATCCAATCTTTTACCCCAAATTTAGAGGGGCAGA-TTGAA-CTCATCACATCCAGTCTTATACC
* *
23333485 TTAAATCTAGAGGGGAAGATT
64 -CAAATCTAGAGGGGCAGATT
23333506 AAAGTCACCG
Statistics
Matches: 447, Mismatches: 90, Indels: 60
0.75 0.15 0.10
Matches are distributed among these distances:
92 1 0.00
93 71 0.16
94 283 0.63
95 7 0.02
96 2 0.00
97 1 0.00
100 1 0.00
101 1 0.00
102 1 0.00
104 1 0.00
107 3 0.01
108 74 0.17
109 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (93 bp):
CATCCAATCTTTTACCCCAAATTTAGAGGGGCAGATTGAACTCATCACATCCAGTCTTATACCCA
AATCTAGAGGGGCAGATTGAAGCTATCA
Found at i:23333132 original size:141 final size:141
Alignment explanation
Indices: 23332845--23333532 Score: 627
Period size: 141 Copynumber: 4.8 Consensus size: 141
23332835 GACTAGTGAC
* * * * * *
23332845 CATCCAATCTTATACCTCAAATTTAGAGGGCCAGATTAAAGCCATCACATCCAGTTTTATACCCC
1 CATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCACATCCAGTCTTATACCCT
* * * ** * * *
23332910 AAATCTAAAGGGGCAAATTAAAGTCATCACATCTAGTCTTTTACCCCAAATTTAGAGGGGCAGAA
66 AAATCTAGAGGGGCAGATTAAAGTCATCACATCTAGTCTTATACCCCAAATCCAGAAGGGTAGAT
*
23332975 TGAA-CTTATCA
131 TGAAGC-CATCA
* * *
23332986 TATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCACATCCAATCTTATTCCCT
1 CATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCACATCCAGTCTTATACCCT
* * *
23333051 AAATCTAGAGGGGTAGATTGAAGTCATCACATCTAGTCTTATACCCTAAATCCAGAAGGGTAGAT
66 AAATCTAGAGGGGCAGATTAAAGTCATCACATCTAGTCTTATACCCCAAATCCAGAAGGGTAGAT
23333116 TGAAGCCATCACATCCAATCTA
131 TGAAG---------CC-ATC-A
* * * *
23333138 TCATATCCAATCTTATACCTCAAATCTAAAAGGGTAGATTGAAGCTATCACATCCAATCTTATAC
1 -C--ATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCACATCCAGTCTTATAC
* * *
23333203 CCTAAATCTAGAAGGGTAGATTAAAGTCATCACATCTAATCTTATACCCCAAATCCA-AAGGGGT
63 CCTAAATCTAGAGGGGCAGATTAAAGTCATCACATCTAGTCTTATACCCCAAATCCAGAA-GGGT
*
23333267 GGATTGAAGCCATCA
127 AGATTGAAGCCATCA
* * * * * * * * * *
23333282 CATCCAATCTTATACC-CAAAATCCAAAGAGGAAAATTGAAGTTATCATATCTAGTTTTAAACCC
1 CATCCAATCTTATACCTC-AAATCTAGAGGGGCAGATTGAAGCTATCACATCCAGTCTTATACCC
* * * * *
23333346 TAAAT-TCAGAGGAGCAAATTAAAG-CTATCGCAT-TGAGT-TTATACCCCAAATCTAGAGGGGT
65 TAAATCT-AGAGGGGCAGATTAAAGTC-ATCACATCT-AGTCTTATACCCCAAATCCAGAAGGGT
* *
23333407 AGATTGAAACTATCA
127 AGATTGAAGCCATCA
* * * * * *
23333422 CATCTAGTCTTACACCTCAAATCTAGAGGGACA-ATTTGAAGCTATAACATCCAGTCTTATACCT
1 CATCCAATCTTATACCTCAAATCTAGAGGGGCAGA-TTGAAGCTATCACATCCAGTCTTATACCC
* * * *
23333486 TAAATCTAGAGGGGAAGATTAAAGTCACCGCATTTAGTCTTATACCC
65 TAAATCTAGAGGGGCAGATTAAAGTCATCACATCTAGTCTTATACCC
23333533 AATGTAACAG
Statistics
Matches: 448, Mismatches: 72, Indels: 54
0.78 0.13 0.09
Matches are distributed among these distances:
139 1 0.00
140 108 0.24
141 203 0.45
143 1 0.00
144 1 0.00
145 3 0.01
146 2 0.00
151 4 0.01
152 1 0.00
154 2 0.00
155 122 0.27
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (141 bp):
CATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCACATCCAGTCTTATACCCT
AAATCTAGAGGGGCAGATTAAAGTCATCACATCTAGTCTTATACCCCAAATCCAGAAGGGTAGAT
TGAAGCCATCA
Found at i:23333210 original size:47 final size:47
Alignment explanation
Indices: 23333135--23333493 Score: 239
Period size: 47 Copynumber: 7.7 Consensus size: 47
23333125 CACATCCAAT
*
23333135 CTATCATATCCAATCTTATA-CCTCAAATCTAAAAGGGTAGATTGAAG
1 CTATCACATCCAATCTTATACCCT-AAATCTAAAAGGGTAGATTGAAG
* *
23333182 CTATCACATCCAATCTTATACCCTAAATCTAGAAGGGTAGATTAAAG
1 CTATCACATCCAATCTTATACCCTAAATCTAAAAGGGTAGATTGAAG
* * * * *
23333229 -TCATCACATCTAATCTTATACCCCAAATCCAAAGGGGTGGATTGAAG
1 CT-ATCACATCCAATCTTATACCCTAAATCTAAAAGGGTAGATTGAAG
* * * * *
23333276 CCATCACATCCAATCTTATACCCAAAATC-CAAAGAGGAAAATTGAAG
1 CTATCACATCCAATCTTATACCCTAAATCTAAAAG-GGTAGATTGAAG
* * * * * * * * * * *
23333323 TTATCATATCTAGTTTTAAACCCTAAAT-TCAGAGGAGCAAATTAAAG
1 CTATCACATCCAATCTTATACCCTAAATCTAAAAGG-GTAGATTGAAG
* ** * * * * *
23333370 CTATCGCATTGAGT-TTATACCCCAAATCTAGAGGGGTAGATTGAAA
1 CTATCACATCCAATCTTATACCCTAAATCTAAAAGGGTAGATTGAAG
* * * * *
23333416 CTATCACATCTAGTCTTACA-CCTCAAATCT-AGAGGG-ACAATTTGAAG
1 CTATCACATCCAATCTTATACCCT-AAATCTAAAAGGGTA-GA-TTGAAG
* * *
23333463 CTATAACATCCAGTCTTATACCTTAAATCTA
1 CTATCACATCCAATCTTATACCCTAAATCTA
23333494 GAGGGGAAGA
Statistics
Matches: 241, Mismatches: 58, Indels: 25
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.00
46 40 0.17
47 195 0.81
48 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (47 bp):
CTATCACATCCAATCTTATACCCTAAATCTAAAAGGGTAGATTGAAG
Found at i:23333211 original size:61 final size:61
Alignment explanation
Indices: 23333087--23333204 Score: 170
Period size: 61 Copynumber: 2.0 Consensus size: 61
23333077 TCACATCTAG
* *
23333087 TCTTATACCCTAAATCCAGAAGGGTAGATTGAAGCCATCACATCCAATCTATCATATCCAA
1 TCTTATACCCTAAATCCAAAAGGGTAGATTGAAGCCATCACATCCAATCTATCATACCCAA
* *
23333148 TCTTATA-CCTCAAATCTAAAAGGGTAGATTGAAGCTATCACATCCAATCT-T-ATACCC
1 TCTTATACCCT-AAATCCAAAAGGGTAGATTGAAGCCATCACATCCAATCTATCATACCC
23333205 TAAATCTAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
59 5 0.10
60 4 0.08
61 43 0.83
ACGTcount: A:0.36, C:0.25, G:0.11, T:0.28
Consensus pattern (61 bp):
TCTTATACCCTAAATCCAAAAGGGTAGATTGAAGCCATCACATCCAATCTATCATACCCAA
Found at i:23333216 original size:108 final size:108
Alignment explanation
Indices: 23333027--23333244 Score: 314
Period size: 108 Copynumber: 2.0 Consensus size: 108
23333017 CAGATTGAAG
* * * * *
23333027 CTATCACATCCAATCTTATTCCCTAAATCTAGAGGGGTAGATTGAAGTCATCACATCTAGTCTTA
1 CTATCACATCCAATCTTATTACCTAAATCTAAAAGGGTAGATTGAAGTCATCACATCCAATCTTA
*
23333092 TACCCTAAATCCAGAAGGGTAGATTGAAGCCATCACATCCAAT
66 TACCCTAAATCCAGAAGGGTAGATTAAAGCCATCACATCCAAT
*
23333135 CTATCATATCCAATCTTA-TACCTCAAATCTAAAAGGGTAGATTGAAG-CTATCACATCCAATCT
1 CTATCACATCCAATCTTATTACCT-AAATCTAAAAGGGTAGATTGAAGTC-ATCACATCCAATCT
* * *
23333198 TATACCCTAAATCTAGAAGGGTAGATTAAAGTCATCACATCTAAT
64 TATACCCTAAATCCAGAAGGGTAGATTAAAGCCATCACATCCAAT
23333243 CT
1 CT
23333245 TATACCCCAA
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
107 5 0.05
108 93 0.95
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (108 bp):
CTATCACATCCAATCTTATTACCTAAATCTAAAAGGGTAGATTGAAGTCATCACATCCAATCTTA
TACCCTAAATCCAGAAGGGTAGATTAAAGCCATCACATCCAAT
Found at i:23333272 original size:155 final size:155
Alignment explanation
Indices: 23332981--23333291 Score: 525
Period size: 155 Copynumber: 2.0 Consensus size: 155
23332971 AGAATGAACT
* *
23332981 TATCATATCCAATCTTATACCTCAAATCTAGAGGGGCAGATTGAAGCTATCACATCCAATCTTAT
1 TATCATATCCAATCTTATACCTCAAATCTAAAAGGGCAGATTGAAGCTATCACATCCAATCTTAT
* * * * *
23333046 TCCCTAAATCTAGAGGGGTAGATTGAAGTCATCACATCTAGTCTTATACCCTAAATCCAGAAGGG
66 ACCCTAAATCTAGAAGGGTAGATTAAAGTCATCACATCTAATCTTATACCCCAAATCCAGAAGGG
23333111 TAGATTGAAGCCATCACATCCAATC
131 TAGATTGAAGCCATCACATCCAATC
*
23333136 TATCATATCCAATCTTATACCTCAAATCTAAAAGGGTAGATTGAAGCTATCACATCCAATCTTAT
1 TATCATATCCAATCTTATACCTCAAATCTAAAAGGGCAGATTGAAGCTATCACATCCAATCTTAT
23333201 ACCCTAAATCTAGAAGGGTAGATTAAAGTCATCACATCTAATCTTATACCCCAAATCCA-AAGGG
66 ACCCTAAATCTAGAAGGGTAGATTAAAGTCATCACATCTAATCTTATACCCCAAATCCAGAA-GG
*
23333265 GTGGATTGAAGCCATCACATCCAATC
130 GTAGATTGAAGCCATCACATCCAATC
23333291 T
1 T
23333292 TATACCCAAA
Statistics
Matches: 146, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
154 2 0.01
155 144 0.99
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.28
Consensus pattern (155 bp):
TATCATATCCAATCTTATACCTCAAATCTAAAAGGGCAGATTGAAGCTATCACATCCAATCTTAT
ACCCTAAATCTAGAAGGGTAGATTAAAGTCATCACATCTAATCTTATACCCCAAATCCAGAAGGG
TAGATTGAAGCCATCACATCCAATC
Found at i:23335892 original size:37 final size:36
Alignment explanation
Indices: 23335842--23335972 Score: 181
Period size: 37 Copynumber: 3.6 Consensus size: 36
23335832 TTGATGGAAG
* *
23335842 GCTTACGTCTCGGTTAGAGTGTAATGTTATATAGAAA
1 GCTTACGTCTCGATTAGAGCGTAATGTTATAT-GAAA
* *
23335879 GCTTACGTCTCGGTTAGAGCGTAATGTTATATGTAA
1 GCTTACGTCTCGATTAGAGCGTAATGTTATATGAAA
*
23335915 GACTTACGTCTCGATTAGAGCGTAATGTTATATGGAAG
1 G-CTTACGTCTCGATTAGAGCGTAATGTTATAT-GAAA
*
23335953 GCTTACATCTCGATTAGAGC
1 GCTTACGTCTCGATTAGAGC
23335973 ATAACGCTTG
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
36 4 0.05
37 79 0.92
38 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (36 bp):
GCTTACGTCTCGATTAGAGCGTAATGTTATATGAAA
Found at i:23336000 original size:74 final size:73
Alignment explanation
Indices: 23335842--23336009 Score: 196
Period size: 74 Copynumber: 2.3 Consensus size: 73
23335832 TTGATGGAAG
* * * * * *
23335842 GCTTACGTCTCGGTTAGAGTGTAATGTTATATAGAAAGCTTACGTCTCGGTTAGAGCGTAATGTT
1 GCTTACGTCTCGATTAGAGCGTAATGTTATATAGAAAGCTTACATCTCGATTAGAGCATAACGTT
23335907 ATATGTAA
66 ATATGTAA
* *
23335915 GACTTACGTCTCGATTAGAGCGTAATGTTATATGGAAGGCTTACATCTCGATTAGAGCATAACGC
1 G-CTTACGTCTCGATTAGAGCGTAATGTTATATAGAAAGCTTACATCTCGATTAGAGCATAACG-
*
23335980 TTGATGAT-T-T
64 TT-AT-ATGTAA
*
23335990 GCTTATGTCTCGATTAGAGC
1 GCTTACGTCTCGATTAGAGC
23336010 ATAAGACCAT
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
73 1 0.01
74 72 0.89
75 3 0.04
76 3 0.04
77 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.35
Consensus pattern (73 bp):
GCTTACGTCTCGATTAGAGCGTAATGTTATATAGAAAGCTTACATCTCGATTAGAGCATAACGTT
ATATGTAA
Found at i:23337723 original size:186 final size:187
Alignment explanation
Indices: 23337446--23337798 Score: 456
Period size: 186 Copynumber: 1.9 Consensus size: 187
23337436 GAAACTATCA
* * *
23337446 CATCCAATCTTATGCCCTAAATCCAAAGTGACAGATTGAAGCTATCACATCCAATCTTATACCCC
1 CATCCAATCTTATACCCTAAATCCAAAGGGACAGATTGAAGCTACCACATCCAATCTTATACCCC
* * * ** *
23337511 AAATCCAGAAGGGCAGATTGAAGCCATCGCATCCAGTCTTATACTCCAAATTAAGAGGGGTAGAT
66 AAATCCAGAAGGGCAGATTAAAGCCATCACATCCAGTCTTATACCCCAAATTAAGAGGGACAAAT
* * *
23337576 TAAAGTCATCACATCCAATCTTATA-CCCTAAATCCAAATGGACAGATTAAAGCCAC
131 TAAAGCCACCAAATCCAATCTTATACCCCTAAATCCAAATGGACAGATTAAAGCCAC
* * * * * * * *
23337632 CATCCAATCTTATACCTTAAATCGAGAGGGGCCGATTGAAGCTACCACATCTAGTCTTCTACCCC
1 CATCCAATCTTATACCCTAAATCCAAAGGGACAGATTGAAGCTACCACATCCAATCTTATACCCC
* * * * * *
23337697 AAATTCAGAGGGGCATATTAAAGCCATCATATCTAGTCTTATACCCCAAATTTAGAGGGACAAAT
66 AAATCCAGAAGGGCAGATTAAAGCCATCACATCCAGTCTTATACCCCAAATTAAGAGGGACAAAT
*
23337762 TGAAGCCACCAAATCCAATCTTATACCCCTAAATCCA
131 TAAAGCCACCAAATCCAATCTTATACCCCTAAATCCA
23337799 GAGGGGCAAA
Statistics
Matches: 139, Mismatches: 27, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
186 128 0.92
187 11 0.08
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.24
Consensus pattern (187 bp):
CATCCAATCTTATACCCTAAATCCAAAGGGACAGATTGAAGCTACCACATCCAATCTTATACCCC
AAATCCAGAAGGGCAGATTAAAGCCATCACATCCAGTCTTATACCCCAAATTAAGAGGGACAAAT
TAAAGCCACCAAATCCAATCTTATACCCCTAAATCCAAATGGACAGATTAAAGCCAC
Found at i:23337731 original size:47 final size:47
Alignment explanation
Indices: 23337365--23337815 Score: 359
Period size: 47 Copynumber: 9.6 Consensus size: 47
23337355 TGAGTGTTAC
* * * * ** *
23337365 ACCCCAAATTCAAAAGGGCAAATTGAAGCCACCGTATCCAATCATAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
** * * * * *
23337412 ACTTCAAATTCAAAGAGGTAGATTGAAACTATCACATCCAATCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* * * * * * *
23337459 GCCCTAAATCCAAAGTGACAGATTGAAGCTATCACATCCAATCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* * * *
23337506 ACCCCAAATCCAGAAGGGCAGATTGAAGCCATCGCATCCAGTCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* * * * *
23337553 ACTCCAAATTAAGAGGGGTAGATTAAAGTCATCACATCCAATCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* * * * * *
23337600 ACCCTAAATCCAAATGGACAGATTAAAGCCA-C-CATCCAATCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
** * * * * * *
23337645 ACCTTAAA-TCGAGAGGGGCCGATTGAAGCTACCACATCTAGTCTTCT
1 ACCCCAAATTC-AGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* * * * *
23337692 ACCCCAAATTCAGAGGGGCATATTAAAGCCATCATATCTAGTCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* * * * *
23337739 ACCCCAAATTTAGAGGGACAAATTGAAGCCACCAAATCCAATCTTAT
1 ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
* *
23337786 ACCCCTAAATCCAGAGGGGCAAATTGAAGC
1 ACCCC-AAATTCAGAGGGGCAGATTGAAGC
23337816 TACATAAGCA
Statistics
Matches: 320, Mismatches: 79, Indels: 9
0.78 0.19 0.02
Matches are distributed among these distances:
44 1 0.00
45 34 0.11
46 2 0.01
47 260 0.81
48 23 0.07
ACGTcount: A:0.37, C:0.25, G:0.15, T:0.24
Consensus pattern (47 bp):
ACCCCAAATTCAGAGGGGCAGATTGAAGCCATCACATCCAATCTTAT
Found at i:23337835 original size:48 final size:47
Alignment explanation
Indices: 23337691--23337842 Score: 117
Period size: 47 Copynumber: 3.2 Consensus size: 47
23337681 TCTAGTCTTC
* * * * * * * * * *
23337691 TACCCCAAATTCAGAGGGGCATATTAAAGCCATCATATCTAGTCTTA
1 TACCCCAAATCCAGAGGGACAAATTGAAGCCACCAAAGCAAATCCTA
** * * *
23337738 TACCCCAAATTTAGAGGGACAAATTGAAGCCACCAAATCCAATCTTA
1 TACCCCAAATCCAGAGGGACAAATTGAAGCCACCAAAGCAAATCCTA
* *
23337785 TACCCCTAAATCCAGAGGGGCAAATTGAAGCTA-CATAAGCAAATCCTA
1 TACCCC-AAATCCAGAGGGACAAATTGAAGCCACCA-AAGCAAATCCTA
23337833 TACTCCCAAA
1 TAC-CCCAAA
23337843 GTTGTAGAGG
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
47 47 0.54
48 37 0.43
49 3 0.03
ACGTcount: A:0.38, C:0.26, G:0.14, T:0.22
Consensus pattern (47 bp):
TACCCCAAATCCAGAGGGACAAATTGAAGCCACCAAAGCAAATCCTA
Found at i:23344980 original size:17 final size:17
Alignment explanation
Indices: 23344958--23344991 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23344948 CTAATTTAAC
* *
23344958 CCTCAATTTGTTTTTTT
1 CCTCAAATTATTTTTTT
23344975 CCTCAAATTATTTTTTT
1 CCTCAAATTATTTTTTT
23344992 TTAATTTTCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.62
Consensus pattern (17 bp):
CCTCAAATTATTTTTTT
Found at i:23345077 original size:18 final size:18
Alignment explanation
Indices: 23345035--23345078 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23345025 TAAATCCTTT
23345035 TATTTTTTATTTGTTTAA
1 TATTTTTTATTTGTTTAA
** **
23345053 TCCTTTTTATTTGTTTTG
1 TATTTTTTATTTGTTTAA
23345071 TATTTTTT
1 TATTTTTT
23345079 TGTAATGTGA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.14, C:0.05, G:0.07, T:0.75
Consensus pattern (18 bp):
TATTTTTTATTTGTTTAA
Found at i:23346590 original size:95 final size:95
Alignment explanation
Indices: 23346427--23346616 Score: 371
Period size: 95 Copynumber: 2.0 Consensus size: 95
23346417 ATCGGGGTTA
23346427 GGGCACACCTGCATGATGTGAGCGATGCGAAATGTCTAGACTAATAGAGGGCCCAAGAAGGGCCA
1 GGGCACACCTGCATGATGTGAGCGATGCGAAATGTCTAGACTAATAGAGGGCCCAAGAAGGGCCA
23346492 GTGGATATCATAAATTATATTTATCTTTGC
66 GTGGATATCATAAATTATATTTATCTTTGC
*
23346522 GGGCACACCTGCATGATGTGGGCGATGCGAAATGTCTAGACTAATAGAGGGCCCAAGAAGGGCCA
1 GGGCACACCTGCATGATGTGAGCGATGCGAAATGTCTAGACTAATAGAGGGCCCAAGAAGGGCCA
23346587 GTGGATATCATAAATTATATTTATCTTTGC
66 GTGGATATCATAAATTATATTTATCTTTGC
23346617 ACACAACGGT
Statistics
Matches: 94, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.25
Consensus pattern (95 bp):
GGGCACACCTGCATGATGTGAGCGATGCGAAATGTCTAGACTAATAGAGGGCCCAAGAAGGGCCA
GTGGATATCATAAATTATATTTATCTTTGC
Found at i:23346917 original size:51 final size:50
Alignment explanation
Indices: 23346846--23346979 Score: 141
Period size: 51 Copynumber: 2.7 Consensus size: 50
23346836 TTTTTTTTCA
* *
23346846 GATCTGATATTTTTAAATAAATATAAATATTTATTTA-ATGTGATTTGATT-T
1 GATCTGAT-GTTTTATATAAATATAAATATTTATTTATAT-T-ATTTGATTGT
* *
23346897 GAATCTGATGTTTTATATAAACATAAATATTTATTTATATTATTTTATTGT
1 G-ATCTGATGTTTTATATAAATATAAATATTTATTTATATTATTTGATTGT
**
23346948 GATCT--TGTTTTGATATAAATATTTATATTTAT
1 GATCTGATGTTTT-ATATAAATATAAATATTTAT
23346980 ATGTGTTTGC
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
48 6 0.08
49 17 0.24
50 11 0.15
51 29 0.40
52 9 0.12
ACGTcount: A:0.35, C:0.03, G:0.09, T:0.53
Consensus pattern (50 bp):
GATCTGATGTTTTATATAAATATAAATATTTATTTATATTATTTGATTGT
Found at i:23347168 original size:23 final size:23
Alignment explanation
Indices: 23347142--23347188 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
23347132 GTGAGATTTT
*
23347142 TTTGGCATGAACAGTAAATATTC
1 TTTGGCATAAACAGTAAATATTC
*
23347165 TTTGGCATAAACAGTGAATATTC
1 TTTGGCATAAACAGTAAATATTC
23347188 T
1 T
23347189 CTTGTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (23 bp):
TTTGGCATAAACAGTAAATATTC
Found at i:23348751 original size:6 final size:6
Alignment explanation
Indices: 23348740--23348766 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
23348730 GATTATTGTC
23348740 GGTCCG GGTCCG GGTCCG GGTCCG GGT
1 GGTCCG GGTCCG GGTCCG GGTCCG GGT
23348767 TAGGGCTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.30, G:0.52, T:0.19
Consensus pattern (6 bp):
GGTCCG
Found at i:23354180 original size:27 final size:25
Alignment explanation
Indices: 23354150--23354200 Score: 84
Period size: 27 Copynumber: 2.0 Consensus size: 25
23354140 ATAATTTAAT
23354150 AATTTAGATACCAATTCTGATAAAAAA
1 AATTTAGATACCAATT-TGA-AAAAAA
23354177 AATTTAGATACCAATTTGAAAAAA
1 AATTTAGATACCAATTTGAAAAAA
23354201 TTAATATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 16 0.67
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.29
Consensus pattern (25 bp):
AATTTAGATACCAATTTGAAAAAAA
Found at i:23358005 original size:3 final size:3
Alignment explanation
Indices: 23357947--23357995 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
23357937 TGATGTTTTA
*
23357947 AAT AAT AAAT TAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23357993 AAT
1 AAT
23357996 GTGATAATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:23358384 original size:14 final size:14
Alignment explanation
Indices: 23358365--23358435 Score: 65
Period size: 14 Copynumber: 5.2 Consensus size: 14
23358355 TGTTCATCTC
23358365 TTTCTTAGTTTTCT
1 TTTCTTAGTTTTCT
** *
23358379 TTTCTTCTTTTTGT
1 TTTCTTAGTTTTCT
23358393 TTT-TTAGTTTTCT
1 TTTCTTAGTTTTCT
* ** *
23358406 TTTCCTCTTTTTGT
1 TTTCTTAGTTTTCT
23358420 TTT-TTAGTTTTCT
1 TTTCTTAGTTTTCT
23358433 TTT
1 TTT
23358436 TCATTTGATT
Statistics
Matches: 42, Mismatches: 14, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
13 19 0.45
14 23 0.55
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTCTTAGTTTTCT
Found at i:23358407 original size:27 final size:27
Alignment explanation
Indices: 23358369--23358435 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
23358359 CATCTCTTTC
*
23358369 TTAGTTTTCTTTTCTTCTTTTTGTTTT
1 TTAGTTTTCTTTTCCTCTTTTTGTTTT
23358396 TTAGTTTTCTTTTCCTCTTTTTGTTTT
1 TTAGTTTTCTTTTCCTCTTTTTGTTTT
23358423 TTAGTTTTCTTTT
1 TTAGTTTTCTTTT
23358436 TCATTTGATT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.04, C:0.12, G:0.07, T:0.76
Consensus pattern (27 bp):
TTAGTTTTCTTTTCCTCTTTTTGTTTT
Found at i:23373808 original size:21 final size:21
Alignment explanation
Indices: 23373783--23373838 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
23373773 AATAATGAAG
23373783 ACTTCTACCGATACAAGTGACT
1 ACTTCTACCGATACAAGT-ACT
* *
23373805 -CTTCTACCGAAACAAGTATT
1 ACTTCTACCGATACAAGTACT
*
23373825 ACTTCTATCGATAC
1 ACTTCTACCGATAC
23373839 TAAAAACTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (21 bp):
ACTTCTACCGATACAAGTACT
Found at i:23385082 original size:13 final size:13
Alignment explanation
Indices: 23385064--23385089 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23385054 ACCAAATGGT
23385064 ATTAAATGATTTA
1 ATTAAATGATTTA
23385077 ATTAAATGATTTA
1 ATTAAATGATTTA
23385090 TTGAGAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTAAATGATTTA
Found at i:23387126 original size:23 final size:21
Alignment explanation
Indices: 23387101--23387165 Score: 80
Period size: 20 Copynumber: 3.0 Consensus size: 21
23387091 AAAACACATA
*
23387101 AAAAAATAACATCCAAACAAC
1 AAAAAATAACAACCAAACAAC
23387122 -AAAAATAACAACCAGAACAAC
1 AAAAAATAACAACCA-AACAAC
23387143 AGAAAAATAACAA-CAAATCAAC
1 A-AAAAATAACAACCAAA-CAAC
23387165 A
1 A
23387166 TTAAAAACAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 13 0.33
21 8 0.21
22 7 0.18
23 11 0.28
ACGTcount: A:0.68, C:0.22, G:0.03, T:0.08
Consensus pattern (21 bp):
AAAAAATAACAACCAAACAAC
Found at i:23387133 original size:12 final size:12
Alignment explanation
Indices: 23387116--23387217 Score: 81
Period size: 12 Copynumber: 8.9 Consensus size: 12
23387106 ATAACATCCA
23387116 AACAACAAAAAT
1 AACAACAAAAAT
* * *
23387128 AACAACCAGAAC
1 AACAACAAAAAT
*
23387140 AAC-AGAAAAAT
1 AACAACAAAAAT
23387151 AACAAC--AAAT
1 AACAACAAAAAT
*
23387161 --CAACATTAAA-
1 AACAACA-AAAAT
23387171 AACAACAAAAAT
1 AACAACAAAAAT
* *
23387183 AGCAACAAAAAC
1 AACAACAAAAAT
23387195 AACAACAAAAAT
1 AACAACAAAAAT
*
23387207 AACAGCAAAAA
1 AACAACAAAAA
23387218 AAAACACAAA
Statistics
Matches: 69, Mismatches: 14, Indels: 14
0.71 0.14 0.14
Matches are distributed among these distances:
8 4 0.06
10 4 0.06
11 13 0.19
12 48 0.70
ACGTcount: A:0.70, C:0.20, G:0.04, T:0.07
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:23387171 original size:23 final size:22
Alignment explanation
Indices: 23387102--23387217 Score: 66
Period size: 23 Copynumber: 5.2 Consensus size: 22
23387092 AAACACATAA
*
23387102 AAAAATAACATCCAAA-CAAC--
1 AAAAATAACA-ACAAATCAACAG
23387122 AAAAATAACAACCAGAA-CAACAG
1 AAAAATAACAA-CA-AATCAACAG
*
23387145 AAAAATAACAACAAATCAACATT
1 AAAAATAACAACAAATCAACA-G
* *
23387168 AAAAACAACAA-AAATAGCAACAA
1 AAAAATAACAACAAAT--CAACAG
*
23387191 AAACAACAACAA-AAAT-AACAG
1 AAA-AATAACAACAAATCAACAG
23387212 CAAAAA
1 -AAAAA
23387218 AAAACACAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 19
0.77 0.05 0.18
Matches are distributed among these distances:
20 12 0.15
21 14 0.17
22 14 0.17
23 24 0.30
24 17 0.21
ACGTcount: A:0.69, C:0.20, G:0.03, T:0.08
Consensus pattern (22 bp):
AAAAATAACAACAAATCAACAG
Found at i:23387188 original size:24 final size:22
Alignment explanation
Indices: 23387117--23387229 Score: 79
Period size: 24 Copynumber: 5.0 Consensus size: 22
23387107 TAACATCCAA
* *
23387117 ACAACAAAAATAACAAC-CAGA-
1 ACAACAAAAA-AACAACAAAAAT
* *
23387138 ACAACAGAAAAATAACAACAAAT
1 ACAACAAAAAAACAACAA-AAAT
*
23387161 -CAACATTAAAAACAACAAAAAT
1 ACAACA-AAAAAACAACAAAAAT
23387183 AGCAACAAAAACAACAACAAAAAT
1 A-CAACAAAAA-AACAACAAAAAT
* *
23387207 AACAGCAAAAAAAAACACAAAAA
1 -ACAACAAAAAAACA-ACAAAAA
23387230 CAGCAACCAA
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
20 5 0.07
21 9 0.12
22 11 0.15
23 16 0.22
24 32 0.43
25 1 0.01
ACGTcount: A:0.71, C:0.19, G:0.04, T:0.06
Consensus pattern (22 bp):
ACAACAAAAAAACAACAAAAAT
Found at i:23387194 original size:21 final size:20
Alignment explanation
Indices: 23387168--23387297 Score: 70
Period size: 21 Copynumber: 6.1 Consensus size: 20
23387158 AATCAACATT
23387168 AAAAACAACAAAAATAGCAAC
1 AAAAACAACAAAAA-AGCAAC
23387189 AAAAACAACAACAAAAATAACAGCAA-
1 --AAA-AACAAC--AAA-AA-AGCAAC
*
23387215 AAAAAAACACAAAAACAGCAAC
1 AAAAACA-ACAAAAA-AGCAAC
* **
23387237 CAAAACAGTAAAAAAGCAAC
1 AAAAACAACAAAAAAGCAAC
*
23387257 -AAAACAATAAAAAA-CAAC
1 AAAAACAACAAAAAAGCAAC
*
23387275 ATAGAAACAGCAAAAAA-CAAC
1 A-A-AAACAACAAAAAAGCAAC
23387296 AA
1 AA
23387298 CCAAAATAGT
Statistics
Matches: 89, Mismatches: 9, Indels: 21
0.75 0.08 0.18
Matches are distributed among these distances:
18 4 0.04
19 13 0.15
20 8 0.09
21 29 0.33
22 8 0.09
23 6 0.07
24 11 0.12
26 3 0.03
27 7 0.08
ACGTcount: A:0.72, C:0.19, G:0.05, T:0.04
Consensus pattern (20 bp):
AAAAACAACAAAAAAGCAAC
Found at i:23387241 original size:24 final size:25
Alignment explanation
Indices: 23387168--23387241 Score: 89
Period size: 24 Copynumber: 3.0 Consensus size: 25
23387158 AATCAACATT
23387168 AAAAACAACAAAAATAGCAA-CAAA
1 AAAAACAACAAAAATAGCAACCAAA
* * * *
23387192 AACAACAACAAAAATAACAGCAAAA
1 AAAAACAACAAAAATAGCAACCAAA
*
23387217 AAAAAC-ACAAAAACAGCAACCAAA
1 AAAAACAACAAAAATAGCAACCAAA
23387241 A
1 A
23387242 CAGTAAAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
24 32 0.80
25 8 0.20
ACGTcount: A:0.73, C:0.20, G:0.04, T:0.03
Consensus pattern (25 bp):
AAAAACAACAAAAATAGCAACCAAA
Found at i:23387270 original size:20 final size:21
Alignment explanation
Indices: 23387225--23387329 Score: 67
Period size: 20 Copynumber: 5.1 Consensus size: 21
23387215 AAAAAAACAC
* *
23387225 AAAAACAGCAACCAAAACAGT
1 AAAAAAAGCAACCAAAACAAT
23387246 -AAAAAAGCAA-CAAAACAAT
1 AAAAAAAGCAACCAAAACAAT
* **
23387265 -AAAAAA-CAACATAGAAACAGC
1 AAAAAAAGCAAC-CA-AAACAAT
* * *
23387286 AAAAAACAACAACCAAAATAGT
1 AAAAAA-AGCAACCAAAACAAT
*
23387308 GAAAAAAGC-ACCAAAACAAT
1 AAAAAAAGCAACCAAAACAAT
23387328 AA
1 AA
23387330 TATAATTTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
18 3 0.05
19 14 0.22
20 20 0.31
21 7 0.11
22 15 0.23
23 2 0.03
24 4 0.06
ACGTcount: A:0.68, C:0.19, G:0.08, T:0.06
Consensus pattern (21 bp):
AAAAAAAGCAACCAAAACAAT
Found at i:23387274 original size:18 final size:19
Alignment explanation
Indices: 23387225--23387275 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
23387215 AAAAAAACAC
*
23387225 AAAAACAGCAACCAAAACAGT
1 AAAAA-AGCAA-CAAAACAAT
23387246 AAAAAAGCAACAAAACAAT
1 AAAAAAGCAACAAAACAAT
23387265 AAAAAA-CAACA
1 AAAAAAGCAACA
23387276 TAGAAACAGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 14 0.48
20 5 0.17
21 5 0.17
ACGTcount: A:0.71, C:0.20, G:0.06, T:0.04
Consensus pattern (19 bp):
AAAAAAGCAACAAAACAAT
Found at i:23389570 original size:26 final size:24
Alignment explanation
Indices: 23389527--23389586 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
23389517 TAAAATATTC
23389527 AATAAATTAATATATATTTAAAATAA
1 AATAAATTAATATATA-TT-AAATAA
*
23389553 AATAAATTTAA-ATCTATTAAATAA
1 AATAAA-TTAATATATATTAAATAA
*
23389577 AA-AAAGTAAT
1 AATAAATTAAT
23389587 TTACTACATT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
22 3 0.10
23 3 0.10
24 8 0.27
25 2 0.07
26 10 0.33
27 4 0.13
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
AATAAATTAATATATATTAAATAA
Found at i:23393010 original size:15 final size:15
Alignment explanation
Indices: 23392990--23393018 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23392980 AGGATTCATT
23392990 TACTCACGATGACAA
1 TACTCACGATGACAA
23393005 TACTCACGATGACA
1 TACTCACGATGACA
23393019 CTTAGTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (15 bp):
TACTCACGATGACAA
Found at i:23393045 original size:67 final size:67
Alignment explanation
Indices: 23392937--23393070 Score: 259
Period size: 67 Copynumber: 2.0 Consensus size: 67
23392927 AAGGAATTAT
*
23392937 ATACTCACGATGACACTTAGTCATCGGACGTTATAATCCATGAAGGATTCATTTACTCACGATGA
1 ATACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATTTACTCACGATGA
23393002 CA
66 CA
23393004 ATACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATTTACTCACGATGA
1 ATACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATTTACTCACGATGA
23393069 CA
66 CA
23393071 CTTAGTAATC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 66 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (67 bp):
ATACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATTTACTCACGATGA
CA
Found at i:23393061 original size:119 final size:119
Alignment explanation
Indices: 23392884--23393122 Score: 313
Period size: 119 Copynumber: 2.0 Consensus size: 119
23392874 CATTTCATTT
** *
23392884 AATACTCACAATGACATATAGTCATCGGACCTCTTGTTCCGTAAAGGAATTATATACTCACGATG
1 AATACTCACAATGACATATAGTCATCGGACCTCTTAATCCATAAAGGAATTATATACTCACGATG
* * * *
23392949 ACACTTAGTCATCGGACGTTATAATCCATGAAGGATTCATTTACTCACGATGAC
66 ACACTTAGTAATCAGACCTTATAATCCATGAAGGATTCATGTACTCACGATGAC
* * *
23393003 AATACTCACGATGACACT-TAGTCATCGGACCT-TATAATCCATGAAGG-ATTCATTTACTCACG
1 AATACTCACAATGACA-TATAGTCATCGGACCTCT-TAATCCATAAAGGAATT-ATATACTCACG
* * *
23393065 ATGACACTTAGTAATCAGACCTTATAATCCGTGAAGGATTCATGTACTTATGATGAC
63 ATGACACTTAGTAATCAGACCTTATAATCCATGAAGGATTCATGTACTCACGATGAC
23393122 A
1 A
23393123 CTTAGTCATC
Statistics
Matches: 104, Mismatches: 13, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
118 4 0.04
119 99 0.95
120 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (119 bp):
AATACTCACAATGACATATAGTCATCGGACCTCTTAATCCATAAAGGAATTATATACTCACGATG
ACACTTAGTAATCAGACCTTATAATCCATGAAGGATTCATGTACTCACGATGAC
Found at i:23393086 original size:52 final size:52
Alignment explanation
Indices: 23393005--23393189 Score: 307
Period size: 52 Copynumber: 3.6 Consensus size: 52
23392995 ACGATGACAA
* * *
23393005 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCATGAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCAGACCTTATAATCCGTGAAGGATTCATG
*
23393057 TACTCACGATGACACTTAGTAATCAGACCTTATAATCCGTGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCAGACCTTATAATCCGTGAAGGATTCATG
* *
23393109 TACTTATGATGACACTTAGTCATCAGACCTTATAATCCGTGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCAGACCTTATAATCCGTGAAGGATTCATG
*
23393161 TACTCACGATGACACTTAGTCATCGGACC
1 TACTCACGATGACACTTAGTCATCAGACC
23393190 CTTTTTCATT
Statistics
Matches: 123, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 123 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (52 bp):
TACTCACGATGACACTTAGTCATCAGACCTTATAATCCGTGAAGGATTCATG
Found at i:23399580 original size:21 final size:23
Alignment explanation
Indices: 23399556--23399610 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 23
23399546 CCTATAACTT
23399556 CTACCGATACAAGTATGC-A-AA
1 CTACCGATACAAGTATGCAATAA
* **
23399577 CTACTGATACATTTATGCATATAA
1 CTACCGATACAAGTATGCA-ATAA
23399601 CTACCGATAC
1 CTACCGATAC
23399611 TCACAATTCA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 15 0.56
23 1 0.04
24 11 0.41
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (23 bp):
CTACCGATACAAGTATGCAATAA
Found at i:23400342 original size:52 final size:52
Alignment explanation
Indices: 23400217--23400506 Score: 395
Period size: 52 Copynumber: 5.6 Consensus size: 52
23400207 TTTCATTTAA
** * * * *
23400217 TACTCACGATGACA-TATAGTCATCGGACCTCT-TGTTCCATAAAGGAATTCGTA
1 TACTCACGATGACACT-TAGTCATCGGACCT-TATAATCCGTGAAGG-ATTCATG
*
23400270 TACTCACGATGACACTTAGTCATCAGACCTTATAATCCGTGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCGTGAAGGATTCATG
* * *
23400322 TACTCACGATGACACATAGTCATCGGACCATATAATCCATGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCGTGAAGGATTCATG
* *
23400374 TACTCACGATGACACTTAGTCATCGGTCCTTATAATCTGTGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCGTGAAGGATTCATG
* * *
23400426 TACTCACGATGACACTTAGTCATCGGTCCGTATAATCTGTGAAGGATTCATG
1 TACTCACGATGACACTTAGTCATCGGACCTTATAATCCGTGAAGGATTCATG
*
23400478 TACTCACGATGACACTTAATCATCGGACC
1 TACTCACGATGACACTTAGTCATCGGACC
23400507 CTTTTTCATT
Statistics
Matches: 216, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
52 179 0.83
53 36 0.17
54 1 0.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (52 bp):
TACTCACGATGACACTTAGTCATCGGACCTTATAATCCGTGAAGGATTCATG
Found at i:23402495 original size:24 final size:24
Alignment explanation
Indices: 23402457--23402544 Score: 140
Period size: 24 Copynumber: 3.6 Consensus size: 24
23402447 GAGAAATAAT
*
23402457 TTTCAAATTAAACTCTATTTATTTG
1 TTTC-AATCAAACTCTATTTATTTG
23402482 TTTCAATCAAACTCTATTTATTTG
1 TTTCAATCAAACTCTATTTATTTG
23402506 TTTCAATCAAACTCTATTTATTTG
1 TTTCAATCAAACTCTATTTATTTG
* *
23402530 TTTCAGTTAAACTCT
1 TTTCAATCAAACTCT
23402545 TATTAGTCTA
Statistics
Matches: 60, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
24 56 0.93
25 4 0.07
ACGTcount: A:0.30, C:0.16, G:0.05, T:0.50
Consensus pattern (24 bp):
TTTCAATCAAACTCTATTTATTTG
Found at i:23406084 original size:26 final size:24
Alignment explanation
Indices: 23406041--23406092 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
23406031 TAAAATATTC
23406041 AATAAATTAATATATATTTAAAATAA
1 AATAAATTAATATATA-TT-AAATAA
*
23406067 AATAAATTTAA-ATCTATTAAATAA
1 AATAAA-TTAATATATATTAAATAA
23406091 AA
1 AA
23406093 ACAGTAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 8 0.33
25 2 0.08
26 10 0.42
27 4 0.17
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
AATAAATTAATATATATTAAATAA
Found at i:23406423 original size:20 final size:20
Alignment explanation
Indices: 23406398--23406438 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
23406388 GCTTAAGGGT
*
23406398 TAGCTAACAAACTTTGTGAG
1 TAGCTAACAAACTTTGAGAG
23406418 TAGCTAACAAACTTTGAGAG
1 TAGCTAACAAACTTTGAGAG
23406438 T
1 T
23406439 GTGAAGGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (20 bp):
TAGCTAACAAACTTTGAGAG
Found at i:23411931 original size:21 final size:22
Alignment explanation
Indices: 23411905--23411946 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
23411895 AATTAAAAAG
23411905 AAAAGAAAAATGAGT-AGAAAC
1 AAAAGAAAAATGAGTAAGAAAC
**
23411926 AAAAGAATCATGAGTAAGAAA
1 AAAAGAAAAATGAGTAAGAAA
23411947 ACGTGTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.64, C:0.05, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAGAAAAATGAGTAAGAAAC
Found at i:23424875 original size:19 final size:22
Alignment explanation
Indices: 23424837--23424876 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
23424827 TAATTTAGGA
23424837 TTTATAATTGTTTGTTTGTTAT
1 TTTATAATTGTTTGTTTGTTAT
23424859 TTTA-AATT-TTT-TTTGTTA
1 TTTATAATTGTTTGTTTGTTA
23424877 AATTTTGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.39
20 3 0.17
21 4 0.22
22 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (22 bp):
TTTATAATTGTTTGTTTGTTAT
Found at i:23425063 original size:26 final size:25
Alignment explanation
Indices: 23425018--23425074 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 25
23425008 ATGTTTGTTA
23425018 TTTTTATAATTTAATTTAAAATTATT
1 TTTTTATAATTTAATTT-AAATTATT
23425044 TTTTTCATAA-TT-ATTATAAATTATT
1 TTTTT-ATAATTTAATT-TAAATTATT
23425069 TGTTTT
1 T-TTTT
23425075 GTTTTGTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
25 12 0.43
26 12 0.43
27 4 0.14
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TTTTTATAATTTAATTTAAATTATT
Found at i:23425324 original size:23 final size:22
Alignment explanation
Indices: 23425298--23425373 Score: 62
Period size: 25 Copynumber: 3.0 Consensus size: 22
23425288 AAGAAAGGTA
23425298 TTTATTATAAATTATTTTTTCAG
1 TTTATTATAAATTATTTTTT-AG
23425321 TTTATTTTAATTTAAAGTTATTTTTTAG
1 TTTA--TT-A--TAAA-TTATTTTTTAG
23425349 TAATTATTATAAATTATTTGTTTAG
1 T--TTATTATAAATTATTT-TTTAG
23425374 CTTTTTAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
23 4 0.09
24 6 0.14
25 11 0.25
26 1 0.02
27 1 0.02
28 9 0.20
29 9 0.20
30 3 0.07
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTATTATAAATTATTTTTTAG
Found at i:23425499 original size:17 final size:17
Alignment explanation
Indices: 23425477--23425511 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23425467 AATTTAATTT
*
23425477 AATTTTGTTAGTAAGTA
1 AATTTTATTAGTAAGTA
*
23425494 AATTTTATTATTAAGTA
1 AATTTTATTAGTAAGTA
23425511 A
1 A
23425512 GTCATATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (17 bp):
AATTTTATTAGTAAGTA
Found at i:23427840 original size:7 final size:7
Alignment explanation
Indices: 23427828--23427855 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
23427818 ATTTGGTTCC
23427828 ATGGTTT
1 ATGGTTT
23427835 ATGGTTT
1 ATGGTTT
23427842 ATGGTTT
1 ATGGTTT
23427849 ATGGTTT
1 ATGGTTT
23427856 TGGGTTAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.29, T:0.57
Consensus pattern (7 bp):
ATGGTTT
Found at i:23427894 original size:7 final size:7
Alignment explanation
Indices: 23427874--23427903 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23427864 AGGTTTGTGA
23427874 TTAGAGT
1 TTAGAGT
23427881 TTAGAGT
1 TTAGAGT
23427888 TTAGAGT
1 TTAGAGT
*
23427895 TTAAAGT
1 TTAGAGT
23427902 TT
1 TT
23427904 TAAGATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (7 bp):
TTAGAGT
Found at i:23430557 original size:53 final size:53
Alignment explanation
Indices: 23430477--23430664 Score: 331
Period size: 53 Copynumber: 3.5 Consensus size: 53
23430467 TAAATGCTAC
*
23430477 AGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTACTACGGATTAA
1 AGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATTAA
*
23430530 AGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACAGATTAA
1 AGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATTAA
* *
23430583 AGGTTCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTGCGGATTAA
1 AGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATTAA
*
23430636 AGGTCCGATGACTCTGTGTCATCATGAGT
1 AGGTCCGATGACTCTGTGTCATCGTGAGT
23430665 AATCAAATGT
Statistics
Matches: 128, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 128 1.00
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.34
Consensus pattern (53 bp):
AGGTCCGATGACTCTGTGTCATCGTGAGTTATATGAATCCTATTACGGATTAA
Found at i:23431361 original size:21 final size:21
Alignment explanation
Indices: 23431337--23431395 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
23431327 TAGAAGTAAG
*
23431337 ACTTGTTTCGGTAGAAGAGTC
1 ACTTGTATCGGTAGAAGAGTC
* * **
23431358 ACTTGTATCGATAAAACTGTC
1 ACTTGTATCGGTAGAAGAGTC
23431379 ACTTGTATCGGTAGAAG
1 ACTTGTATCGGTAGAAG
23431396 TCTACACTAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAGAGTC
Found at i:23433071 original size:19 final size:19
Alignment explanation
Indices: 23433047--23433085 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
23433037 ATCCATCTTC
23433047 AATAAATATGTTAA-AAATA
1 AATAAA-ATGTTAATAAATA
*
23433066 AATAAAATTTTAATAAATA
1 AATAAAATGTTAATAAATA
23433085 A
1 A
23433086 CAAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AATAAAATGTTAATAAATA
Done.