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 38 of 143
Found at i:11681171 original size:45 final size:41
Alignment explanation
Indices: 11681071--11681178 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 41
11681061 CTTAAAATTG
*
11681071 AGATGAAAACCCGTAAAGGGCGTCTCCAAAAAAAAGGTTCA
1 AGATGAAAACCCGCAAAGGGCGTCTCCAAAAAAAAGGTTCA
* ** * *
11681112 AGATGAAAATCCGCAAAGGGCGTCTTGAAACCAAAAGGAATTTTA
1 AGATGAAAACCCGCAAAGGGCGTCTCCAAA-AAAAAGG---TTCA
*
11681157 AGTTGAAAACCCGCAAAGGGCG
1 AGATGAAAACCCGCAAAGGGCG
11681179 ACTCAAATTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 26 0.47
42 6 0.11
45 23 0.42
ACGTcount: A:0.42, C:0.19, G:0.24, T:0.16
Consensus pattern (41 bp):
AGATGAAAACCCGCAAAGGGCGTCTCCAAAAAAAAGGTTCA
Found at i:11682115 original size:78 final size:78
Alignment explanation
Indices: 11682031--11682448 Score: 441
Period size: 78 Copynumber: 5.4 Consensus size: 78
11682021 TTGAAAACTC
* **
11682031 GATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGTAAATCTCTTACCCCGATCATAAGGCAG
1 GATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCAAATCTCTTACCCCGATCATGGGGCAG
* *
11682096 ATTACAGCTATCT
66 ATTGCAGCCATCT
* * * * *
11682109 GATCTCTTACCCCGAGTCTGGGGTAAATCATCACCAGCAAATCTCTTACCCCGATCATGGGGCAG
1 GATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCAAATCTCTTACCCCGATCATGGGGCAG
*
11682174 ATTGCAGCCATCC
66 ATTGCAGCCATCT
* * * * * * *
11682187 AATCTCTTACCTCGAG-TTTAGGGCAGATCATCATCAGCAAATCTCTTACCACGAGCCTGGGGCA
1 GATCTCTTACCCCGAGCCTGA-GGCAGATCATCATCAGCAAATCTCTTACCCCGATCATGGGGCA
11682251 GATTGCAGCCAT-T
65 GATTGCAGCCATCT
* * * * ** *
11682264 CGATCTCTTACACCAAG-CTTAGGGCAAATCATTTTCAGCAAATCTCTTACCCCGAGTC-TAGGG
1 -GATCTCTTACCCCGAGCCTGA-GGCAGATCATCATCAGCAAATCTCTTACCCCGA-TCATGGGG
*
11682327 CAGATTGCAGCTAT-T
63 CAGATTGCAGCCATCT
* * * * *
11682342 CGATCTCTTACCCTGAGCTTGGGGCAGATCATCATCAGCAAGTCTCTTACCACGATCATGGGGCA
1 -GATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCAAATCTCTTACCCCGATCATGGGGCA
* *
11682407 GATTGCAACCATCC
65 GATTGCAGCCATCT
* *
11682421 GATCTTTTACCCCGAGCCTGGGGCAGAT
1 GATCTCTTACCCCGAGCCTGAGGCAGAT
11682449 TACAACCATT
Statistics
Matches: 281, Mismatches: 53, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
77 3 0.01
78 276 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (78 bp):
GATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGCAAATCTCTTACCCCGATCATGGGGCAG
ATTGCAGCCATCT
Found at i:11682445 original size:156 final size:156
Alignment explanation
Indices: 11682029--11682445 Score: 523
Period size: 156 Copynumber: 2.7 Consensus size: 156
11682019 GATTGAAAAC
* * * * * **
11682029 TCGATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGTAAATCTCTTACCCCGATCATAAGGC
1 TCGATCTCTTACCCTGAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGC
* * * * *
11682094 AGATTACAGCTATCTGATCTCTTACCCCGAGTCTGGGGTAAATCATCACCAGCAAATCTCTTACC
66 AGATTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCATCACCAGCAAATCTCTTACC
*
11682159 CCGATCATGGGGCAGATTGCAGCCAT
131 CCGATCATAGGGCAGATTGCAGCCAT
* * * * * *
11682185 CCAATCTCTTA-CCTCGAGTTTAGGGCAGATCATCATCAGCAAATCTCTTACCACGAGCCTGGGG
1 TCGATCTCTTACCCT-GAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGG
* * * * * ***
11682249 CAGATTGCAGCCATTCGATCTCTTACACCAAGCTTAGGGCAAATCATTTTCAGCAAATCTCTTAC
65 CAGATTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCATCACCAGCAAATCTCTTAC
*
11682314 CCCGAGTC-TAGGGCAGATTGCAGCTAT
130 CCCGA-TCATAGGGCAGATTGCAGCCAT
*
11682341 TCGATCTCTTACCCTGAGCTTGGGGCAGATCATCATCAGCAAGTCTCTTACCACGATCATGGGGC
1 TCGATCTCTTACCCTGAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGC
* *
11682406 AGATTGCAACCATCCGATCTTTTACCCCGAGCCTGGGGCA
66 AGATTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCA
11682446 GATTACAACC
Statistics
Matches: 216, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
155 2 0.01
156 209 0.97
157 5 0.02
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (156 bp):
TCGATCTCTTACCCTGAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGC
AGATTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCATCACCAGCAAATCTCTTACC
CCGATCATAGGGCAGATTGCAGCCAT
Found at i:11682513 original size:39 final size:38
Alignment explanation
Indices: 11682032--11682509 Score: 167
Period size: 39 Copynumber: 12.3 Consensus size: 38
11682022 TGAAAACTCG
* *
11682032 ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGTAA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAG-CA
* * * * *
11682071 ATCTCTTACCCCGATCATAAGGCAGATTACAGCTATCTG--
1 ATCTCTTACCCCGAGCCTGAGGCAGA-T-CA-CCATCAGCA
* * * * * *
11682110 ATCTCTTACCCCGAGTCTGGGGTAAATCATCACCAGCAA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGC-A
* * *
11682149 ATCTCTTACCCCGATCATGGGGCAGATTGCAGCCATC--CA
1 ATCTCTTACCCCGAGCCTGAGGCAGA-T-CA-CCATCAGCA
* * * *
11682188 ATCTCTTACCTCGAG-TTTAGGGCAGATCATCATCAGCAA
1 ATCTCTTACCCCGAGCCTGA-GGCAGATCACCATCAGC-A
* *
11682227 ATCTCTTACCACGAGCCTGGGGCAGATTGCAGCCATTC-G--
1 ATCTCTTACCCCGAGCCTGAGGCAGA-T-CA-CCA-TCAGCA
* * * * ***
11682266 ATCTCTTACACCAAG-CTTAGGGCAAATCATTTTCAGCAA
1 ATCTCTTACCCCGAGCCTGA-GGCAGATCACCATCAGC-A
* *
11682305 ATCTCTTACCCCGAGTCT-AGGGCAGATTGCAGCTATTC-G--
1 ATCTCTTACCCCGAGCCTGA-GGCAGA-T-CA-CCA-TCAGCA
* * * *
11682344 ATCTCTTACCCTGAGCTTGGGGCAGATCATCATCAGCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGCA
* * * * *
11682382 AGTCTCTTACCACGATCATGGGGCAGATTGCAACCATC--CG
1 A-TCTCTTACCCCGAGCCTGAGGCAGA-T-C-ACCATCAGCA
* * * * * * *
11682422 ATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATTCG
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCA-GCA
* *
11682461 ATCTTTTACCTCGAGCCTGAGGCAGATCACCATCAGTCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAG-CA
11682500 ATCTCTTACC
1 ATCTCTTACC
11682510 TCGATCATGG
Statistics
Matches: 323, Mismatches: 76, Indels: 80
0.67 0.16 0.17
Matches are distributed among these distances:
35 4 0.01
36 14 0.04
37 8 0.02
38 10 0.03
39 246 0.76
40 11 0.03
41 9 0.03
42 17 0.05
43 4 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (38 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATCACCATCAGCA
Found at i:11682521 original size:156 final size:156
Alignment explanation
Indices: 11682032--11682513 Score: 469
Period size: 156 Copynumber: 3.1 Consensus size: 156
11682022 TGAAAACTCG
* * * * * **
11682032 ATCTCTTACCCCGAGCCTGAGGCAGATCATCATCAGTAAATCTCTTACCCCGATCATAAGGCAGA
1 ATCTCTTACCTCGAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGCAGA
* * * * *
11682097 TTACAGCTATCTGATCTCTTACCCCGAGTCTGGGGTAAATCATCACCAGCAAATCTCTTACCCCG
66 TTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCA-CACCAGCAAATCTCTTACCCCG
* * *
11682162 ATCATGGGGCAGATTGCAGCCATC--CA
130 AGCCTGAGGCAGATTGCA-CCATCATCA
* * * *
11682188 ATCTCTTACCTCGAGTTTAGGGCAGATCATCATCAGCAAATCTCTTACCACGAGCCTGGGGCAGA
1 ATCTCTTACCTCGAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGCAGA
* * * * * ***
11682253 TTGCAGCCATTCGATCTCTTACACCAAGCTTAGGGCAAATCATTTTCAGCAAATCTCTTACCCCG
66 TTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCA-CACCAGCAAATCTCTTACCCCG
* * *
11682318 AGTCT-AGGGCAGATTGCAGC-T-ATTCG
130 AGCCTGA-GGCAGATTGCACCATCA-TCA
*
11682344 ATCTCTTACC-CTGAGCTTGGGGCAGATCATCATCAGCAAGTCTCTTACCACGATCATGGGGCAG
1 ATCTCTTACCTC-GAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGCAG
* * * * * * * *
11682408 ATTGCAACCATCCGATCTTTTACCCCGAGCCTGGGGCAGATTACAACCATTC-GATCTTTTACCT
65 ATTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCAC-ACCA-GCAAATCTCTTACCC
11682472 CGAGCCTGAGGCAGA-T-CACCATCAGTCA
128 CGAGCCTGAGGCAGATTGCACCATCA-TCA
11682500 ATCTCTTACCTCGA
1 ATCTCTTACCTCGA
11682514 TCATGGGGTA
Statistics
Matches: 260, Mismatches: 55, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
154 4 0.02
155 4 0.02
156 249 0.96
157 3 0.01
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (156 bp):
ATCTCTTACCTCGAGCTTGGGGCAGATCATCATCAGCAAATCTCTTACCACGATCATGGGGCAGA
TTGCAGCCATCCGATCTCTTACCCCGAGCCTGGGGCAAATCACACCAGCAAATCTCTTACCCCGA
GCCTGAGGCAGATTGCACCATCATCA
Found at i:11682973 original size:17 final size:17
Alignment explanation
Indices: 11682953--11683029 Score: 75
Period size: 17 Copynumber: 4.6 Consensus size: 17
11682943 CCAATTTTAA
11682953 ATTTTAAATTTTAATTT
1 ATTTTAAATTTTAATTT
* *
11682970 A-TTTAAGTTTGAATTT
1 ATTTTAAATTTTAATTT
** *
11682986 ATTTTAAATTAAAACTT
1 ATTTTAAATTTTAATTT
* * *
11683003 ATTTTGAGTATTAATTT
1 ATTTTAAATTTTAATTT
11683020 ATTTTAAATT
1 ATTTTAAATT
11683030 AAATTTAAAT
Statistics
Matches: 44, Mismatches: 15, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
16 14 0.32
17 30 0.68
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTTAATTT
Found at i:11682984 original size:16 final size:16
Alignment explanation
Indices: 11682955--11682995 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
11682945 AATTTTAAAT
*
11682955 TTTAAATTTTAATTTA
1 TTTAAATTTGAATTTA
*
11682971 TTTAAGTTTGAATTTA
1 TTTAAATTTGAATTTA
11682987 TTTTAAATT
1 -TTTAAATT
11682996 AAAACTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
16 14 0.67
17 7 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (16 bp):
TTTAAATTTGAATTTA
Found at i:11682992 original size:33 final size:34
Alignment explanation
Indices: 11682953--11683032 Score: 101
Period size: 34 Copynumber: 2.4 Consensus size: 34
11682943 CCAATTTTAA
** *
11682953 ATTTTAAATTTTAATTTA-TTTAAGT-TTGAATTT
1 ATTTTAAATTAAAACTTATTTTAAGTATT-AATTT
*
11682986 ATTTTAAATTAAAACTTATTTTGAGTATTAATTT
1 ATTTTAAATTAAAACTTATTTTAAGTATTAATTT
11683020 ATTTTAAATTAAA
1 ATTTTAAATTAAA
11683033 TTTAAATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
33 15 0.37
34 24 0.59
35 2 0.05
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.55
Consensus pattern (34 bp):
ATTTTAAATTAAAACTTATTTTAAGTATTAATTT
Found at i:11683086 original size:19 final size:20
Alignment explanation
Indices: 11683045--11683092 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
11683035 TAAATTTTAA
11683045 AAGTCCAAAATTACAAATTC
1 AAGTCCAAAATTACAAATTC
11683065 AAGTCCAAAA-TAC-AATTCC
1 AAGTCCAAAATTACAAATT-C
*
11683084 AAGCCCAAA
1 AAGTCCAAA
11683093 CACTAAAACC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 12 0.46
20 10 0.38
ACGTcount: A:0.50, C:0.25, G:0.06, T:0.19
Consensus pattern (20 bp):
AAGTCCAAAATTACAAATTC
Found at i:11684651 original size:29 final size:29
Alignment explanation
Indices: 11684588--11684790 Score: 132
Period size: 29 Copynumber: 7.0 Consensus size: 29
11684578 AAAGGTCCCT
* *
11684588 GAACTATC-CAAAAATCATATTTTGA-CCC
1 GAACT-TCTCAAAAATCACATTTTAACCCC
* * *
11684616 TATACTTTTCCAAAATCACATTTTAACCCC
1 GA-ACTTCTCAAAAATCACATTTTAACCCC
*
11684646 GAACTTCTCAAAAATCACATTTTTACCCCC
1 GAACTTCTCAAAAATCACA-TTTTAACCCC
* * **
11684676 AAACTTC-CAAAAATTACATTTTTAACCAT
1 GAACTTCTCAAAAATCACA-TTTTAACCCC
* *
11684705 TAACTTC-CAAAAATTACATTTT-ACCCC
1 GAACTTCTCAAAAATCACATTTTAACCCC
* * * *
11684732 TAAACTTCTCAAAAATTACATTTTTACCCTT
1 -GAACTTCTCAAAAATCACATTTTAACCC-C
* *
11684763 AAACTTC-CAAAAATTACCATTTT-ACCCC
1 GAACTTCTCAAAAATCA-CATTTTAACCCC
11684791 TAAACTTTTT
Statistics
Matches: 146, Mismatches: 20, Indels: 18
0.79 0.11 0.10
Matches are distributed among these distances:
27 3 0.02
28 12 0.08
29 95 0.65
30 36 0.25
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.33
Consensus pattern (29 bp):
GAACTTCTCAAAAATCACATTTTAACCCC
Found at i:11684681 original size:30 final size:29
Alignment explanation
Indices: 11684623--11684872 Score: 235
Period size: 29 Copynumber: 8.6 Consensus size: 29
11684613 CCCTATACTT
* * *
11684623 TTCC-AAAATCACATTTTAACCCC-GAAC
1 TTCCAAAAATTACATTTTTACCCCTAAAC
* *
11684650 TTCTCAAAAATCACATTTTTACCCCCAAAC
1 TTC-CAAAAATTACATTTTTACCCCTAAAC
* * *
11684680 TTCCAAAAATTACATTTTTAACCATTAAC
1 TTCCAAAAATTACATTTTTACCCCTAAAC
11684709 TTCCAAAAATTACA-TTTTACCCCTAAAC
1 TTCCAAAAATTACATTTTTACCCCTAAAC
*
11684737 TTCTCAAAAATTACATTTTTACCCTTAAAC
1 TTC-CAAAAATTACATTTTTACCCCTAAAC
11684767 TTCCAAAAATTACCA-TTTTACCCCTAAAC
1 TTCCAAAAATTA-CATTTTTACCCCTAAAC
** * *
11684796 TTTTTAAAAATTACCA-TTTTGCCCCCAAAC
1 -TTCCAAAAATTA-CATTTTTACCCCTAAAC
* *
11684826 ATCCAAAAAATTACCATTTTT--CCCTCAAAT
1 TTCC-AAAAATTA-CATTTTTACCCCT-AAAC
*
11684856 TTCCAAAAATCACATTT
1 TTCCAAAAATTACATTT
11684873 CTAACTTTAA
Statistics
Matches: 190, Mismatches: 23, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
27 3 0.02
28 20 0.11
29 97 0.51
30 66 0.35
31 4 0.02
ACGTcount: A:0.38, C:0.28, G:0.01, T:0.34
Consensus pattern (29 bp):
TTCCAAAAATTACATTTTTACCCCTAAAC
Found at i:11684831 original size:59 final size:59
Alignment explanation
Indices: 11684613--11684872 Score: 219
Period size: 59 Copynumber: 4.4 Consensus size: 59
11684603 CATATTTTGA
* * * * * * * *
11684613 CCCTATACTTTTCCAAAATCACA-TTTTAACCCCGAACTTCTCAAAAATCA-CATTTTTAC
1 CCCTAAACTTCTCAAAAATTACATTTTTACCCCCAAACATC-CAAAAATTACCA-TTTTAC
* * *** *
11684672 CCCCAAACTTC-CAAAAATTACATTTTTAACCATTAACTTCCAAAAATTA-CATTTTAC
1 CCCTAAACTTCTCAAAAATTACATTTTTACCCCCAAACATCCAAAAATTACCATTTTAC
** *
11684729 CCCTAAACTTCTCAAAAATTACATTTTTACCCTTAAACTTCCAAAAATTACCATTTTAC
1 CCCTAAACTTCTCAAAAATTACATTTTTACCCCCAAACATCCAAAAATTACCATTTTAC
* * * *
11684788 CCCTAAACTTTTTAAAAATTACCA-TTTTGCCCCCAAACATCCAAAAAATTACCATTTT-T
1 CCCTAAACTTCTCAAAAATTA-CATTTTTACCCCCAAACATCC-AAAAATTACCATTTTAC
* *
11684847 CCCTCAAATTTC-CAAAAATCACATTT
1 CCCT-AAACTTCTCAAAAATTACATTT
11684873 CTAACTTTAA
Statistics
Matches: 170, Mismatches: 24, Indels: 14
0.82 0.12 0.07
Matches are distributed among these distances:
57 16 0.09
58 56 0.33
59 76 0.45
60 22 0.13
ACGTcount: A:0.37, C:0.28, G:0.01, T:0.34
Consensus pattern (59 bp):
CCCTAAACTTCTCAAAAATTACATTTTTACCCCCAAACATCCAAAAATTACCATTTTAC
Found at i:11684912 original size:29 final size:31
Alignment explanation
Indices: 11684880--11684945 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 31
11684870 TTTCTAACTT
* *
11684880 TAAATTTTCCAAAAGTTT-GATTTTAAT-CC
1 TAAATTTTCCAAAAATTTCAATTTTAATCCC
*
11684909 TAAATTTTCCAAAAATTTCAATTTTGATCCC
1 TAAATTTTCCAAAAATTTCAATTTTAATCCC
11684940 TAAATT
1 TAAATT
11684946 CCTCGAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 17 0.53
30 7 0.22
31 8 0.25
ACGTcount: A:0.36, C:0.15, G:0.05, T:0.44
Consensus pattern (31 bp):
TAAATTTTCCAAAAATTTCAATTTTAATCCC
Found at i:11687847 original size:49 final size:47
Alignment explanation
Indices: 11687774--11688267 Score: 179
Period size: 49 Copynumber: 10.1 Consensus size: 47
11687764 ATCTTTTAGA
** * *
11687774 GTATAAGATTCGCCTTTGTAGCTTCAATCTGCCTCTCCTCATCTTCAAT
1 GTATAAGATTCGCAGTTGTGGCTTCAATCTGCC-CTCCTCATC-TCAAG
* * *
11687823 GTATAAGATTCGCAGTTGCGGCTTCAATCTTTCCCTCCTCATCTCTAG
1 GTATAAGATTCGCAGTTGTGGCTTCAATC-TGCCCTCCTCATCTCAAG
* * * * * *
11687871 GATATAAGATTCACTGTTGTGGCTTCAATCTTTCCCTTCACATCTCTGAG
1 G-TATAAGATTCGCAGTTGTGGCTTCAATC-TGCCCTCCTCATCTC-AAG
** * * * * * *
11687921 GTATAAGATTCGTC-GTTACGACTTTAATCTTTCCTTCCACATCTCTAGG
1 GTATAAGATTCG-CAGTTGTGGCTTCAATC-TGCCCTCCTCATCTC-AAG
*** * * * * *
11687970 GTATAAGATTCGTC-GTTGCATCTTCAATCTTTCCCTTCACATATCTAG
1 GTATAAGATTCG-CAGTTGTGGCTTCAATC-TGCCCTCCTCATCTCAAG
* * ** * * * *
11688018 TGTATAAGATTCACCGTTGCAGCTTCAATCTTTCCCTTCACATCTCTAGG
1 -GTATAAGATTCGCAGTTGTGGCTTCAATC-TGCCCTCCTCATCTC-AAG
* * * * * *
11688068 GCATAATATTCGTC-GTTGAGGCTTCAGTCTTTCCCTCCAT-ATCTCTAG
1 GTATAAGATTCG-CAGTTGTGGCTTCAATC-TGCCCTCC-TCATCTCAAG
* * * * * * *
11688116 AGTATAAGATTCATC-GTTGCGGCTTCAATCTTTCCCTTCACACCTCTAGG
1 -GTATAAGATTC-GCAGTTGTGGCTTCAATC-TGCCCTCCTCATCTC-AAG
* * * * * *
11688166 GTATAAGATTCACCGTTATGGCTACAATATTTCCCTCCTCATCTCTAAG
1 GTATAAGATTCGCAGTTGTGGCTTCAAT-CTGCCCTCCTCATCTC-AAG
* * * * * *
11688215 GTATAAGATTCGTAGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG
1 GTATAAGATTCGCAGTTGTGGCTTCAATC-TGCCCTCCTCATCTCAAG
11688263 GTATA
1 GTATA
11688268 TTAGATTAGC
Statistics
Matches: 354, Mismatches: 75, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
48 15 0.04
49 329 0.93
50 10 0.03
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (47 bp):
GTATAAGATTCGCAGTTGTGGCTTCAATCTGCCCTCCTCATCTCAAG
Found at i:11687899 original size:98 final size:96
Alignment explanation
Indices: 11687774--11688267 Score: 482
Period size: 98 Copynumber: 5.1 Consensus size: 96
11687764 ATCTTTTAGA
* * *
11687774 GTATAAGATTCGCCT-TTGTAGCTTCAATC-TGCCTCTCCTCATCT-TCAATGTATAAGATTCGC
1 GTATAAGATT--CCTGTTGTGGCTTCAATCTTTCC-CTCCTCATCTCT-AAGGTATAAGATTCGC
* *
11687836 AGTTGCGGCTTCAATCTTTCCCTCCTCATCTCTAGG
62 -GTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGG
* * * *
11687872 ATATAAGATTCACTGTTGTGGCTTCAATCTTTCCCTTCACATCTCTGAGGTATAAGATTCGTCGT
1 GTATAAGATTC-CTGTTGTGGCTTCAATCTTTCCCTCCTCATCTCTAAGGTATAAGATTCG-CGT
* * *
11687937 TACGACTTTAATCTTT-CCTTCCACATCTCTAGG
64 TGCGGCTTCAATCTTTCCCTT-CACATCTCTAGG
* *** * * * *
11687970 GTATAAGATTCGTCGTTGCATCTTCAATCTTTCCCTTCACATATCT-AGTGTATAAGATTCACCG
1 GTATAAGATTCCT-GTTGTGGCTTCAATCTTTCCCTCCTCATCTCTAAG-GTATAAGATTC-GCG
*
11688034 TTGCAGCTTCAATCTTTCCCTTCACATCTCTAGG
63 TTGCGGCTTCAATCTTTCCCTTCACATCTCTAGG
* * * * * *
11688068 GCATAATATTCGTCGTTGAGGCTTCAGTCTTTCCCTCCAT-ATCTCT-AGAGTATAAGATTCATC
1 GTATAAGATTCCT-GTTGTGGCTTCAATCTTTCCCTCC-TCATCTCTAAG-GTATAAGATTC-GC
*
11688131 GTTGCGGCTTCAATCTTTCCCTTCACACCTCTAGG
62 GTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGG
* * * * *
11688166 GTATAAGATTCACCGTTATGGCTACAATATTTCCCTCCTCATCTCTAAGGTATAAGATTCGTAGT
1 GTATAAGATTC-CTGTTGTGGCTTCAATCTTTCCCTCCTCATCTCTAAGGTATAAGATTCG-CGT
11688231 TGCGGCTTCAATCTTTCCCTTCACATCTCTA-G
64 TGCGGCTTCAATCTTTCCCTTCACATCTCTAGG
11688263 GTATA
1 GTATA
11688268 TTAGATTAGC
Statistics
Matches: 333, Mismatches: 48, Indels: 31
0.81 0.12 0.08
Matches are distributed among these distances:
96 1 0.00
97 15 0.05
98 306 0.92
99 11 0.03
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.37
Consensus pattern (96 bp):
GTATAAGATTCCTGTTGTGGCTTCAATCTTTCCCTCCTCATCTCTAAGGTATAAGATTCGCGTTG
CGGCTTCAATCTTTCCCTTCACATCTCTAGG
Found at i:11687981 original size:147 final size:145
Alignment explanation
Indices: 11687823--11688348 Score: 567
Period size: 147 Copynumber: 3.6 Consensus size: 145
11687813 CATCTTCAAT
* * * *
11687823 GTATAAGATTCGCAGTTGCGGCTTCAATCTTTCCCTCCTCATCTCTAGGATATAAGATTCACTGT
1 GTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGG-TATAAGATTCACCGT
* *
11687888 TGTGGCTTCAATCTTTCCCTTCACATCTCTGAGGTATAAGATTCGTCGTTACGACTTTAATCTTT
65 TGTGGCTTCAATCTTTCCCTTCACATCTCT-AGGTATAAGATTCGTCGTTACGGCTTCAATCTTT
11687953 CCTTCCACATCTCTAGG
129 CCTTCCACATCTCTAGG
* ** *
11687970 GTATAAGATTCGTCGTTGCATCTTCAATCTTTCCCTTCACATATCTAGTGTATAAGATTCACCGT
1 GTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAG-GTATAAGATTCACCGT
** * * *
11688035 TGCAGCTTCAATCTTTCCCTTCACATCTCTAGGGCATAATATTCGTCGTTGA-GGCTTCAGTCTT
65 TGTGGCTTCAATCTTTCCCTTCACATCTCTA-GGTATAAGATTCGTCGTT-ACGGCTTCAATCTT
* * *
11688099 TCCCTCCATATCTCTAGA
128 TCCTTCCACATCTCTAGG
** *
11688117 GTATAAGATTCATCGTTGCGGCTTCAATCTTTCCCTTCACACCTCTAGGGTATAAGATTCACCGT
1 GTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTA-GGTATAAGATTCACCGT
* * * * * * *
11688182 TATGGCTACAATATTTCCCTCCTCATCTCTAAGGTATAAGATTCGTAGTTGCGGCTTCAATCTTT
65 TGTGGCTTCAATCTTTCCCTTCACATCTCT-AGGTATAAGATTCGTCGTTACGGCTTCAATCTTT
11688247 CCCTT-CACATCTCTA-G
129 -CCTTCCACATCTCTAGG
* * * * * * *
11688263 GTATATTAGATTAGCCATTGCGGCTTCAAT-TTATTCCTTTATAGCTTTAGAGGTATAAGATTCA
1 GTATA--AGATTCGCCGTTGCGGCTTCAATCTT-TCCCTTCACATCTCT--AGGTATAAGATTCA
* *
11688327 CCCTTGCGGCTTCAAT-TTTCCC
61 CCGTTGTGGCTTCAATCTTTCCC
11688349 CTTTATAGCT
Statistics
Matches: 316, Mismatches: 51, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
146 6 0.02
147 242 0.77
148 42 0.13
149 25 0.08
150 1 0.00
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.37
Consensus pattern (145 bp):
GTATAAGATTCGCCGTTGCGGCTTCAATCTTTCCCTTCACATCTCTAGGTATAAGATTCACCGTT
GTGGCTTCAATCTTTCCCTTCACATCTCTAGGTATAAGATTCGTCGTTACGGCTTCAATCTTTCC
TTCCACATCTCTAGG
Found at i:11688324 original size:50 final size:51
Alignment explanation
Indices: 11688261--11688362 Score: 138
Period size: 50 Copynumber: 2.0 Consensus size: 51
11688251 TCACATCTCT
*
11688261 AGGTATATTAGATT-AGCCATTGCGGCTTCAATTTAT-TCCTTTATAGCTTTAG
1 AGGTATA-TAGATTCA-CCATTGCGGCTTCAATTT-TCCCCTTTATAGCTTTAG
*
11688313 AGGTATA-AGATTCACCCTTGCGGCTTCAATTTTCCCCTTTATAGCTTTAG
1 AGGTATATAGATTCACCATTGCGGCTTCAATTTTCCCCTTTATAGCTTTAG
11688363 GTGCAATAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
49 1 0.02
50 37 0.80
51 1 0.02
52 7 0.15
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.40
Consensus pattern (51 bp):
AGGTATATAGATTCACCATTGCGGCTTCAATTTTCCCCTTTATAGCTTTAG
Found at i:11688751 original size:99 final size:100
Alignment explanation
Indices: 11688368--11688876 Score: 343
Period size: 99 Copynumber: 5.2 Consensus size: 100
11688358 TTTAGGTGCA
* * * *
11688368 ATAG-ATTTGGTGTTGTAACTTCACTCTATTCCACTGTAACCTCAAGAACATTGAGAT-TGATTA
1 ATAGAATTTGGTGTTGTAACTTCATTCCATTCCACTATAACCTCAAGGACATTGAGATCTGATTA
* * *
11688431 CTTGTTTTACTTTGCCCTTCTGT-AATTTTAAGGGT
66 CTTGTTTTAATCTGCCCTTCT-TCAACTTTAAGGGT
* * * * * * *
11688466 ATA-AGAGTTGGTGTAGTAGCTTC-TCTCCATTCCACTGTAACCTCAAGGATATTGGGATCTG-C
1 ATAGA-ATTTGGTGTTGTAACTTCAT-TCCATTCCACTATAACCTCAAGGACATTGAGATCTGAT
* * *
11688528 TACTTGTTTTAATC--CGCTTCACTGCAGCTTT-AGGAAG-
64 TACTTGTTTTAATCTGCCCTT--CTTCAACTTTAAGG--GT
* * * * *
11688565 ATAGGATTTGTTGTTG-AAGCTTCACTT-AATTCCACTATAACCTCAAGGACATTGAGATTTGCT
1 ATAGAATTTGGTGTTGTAA-CTTCA-TTCCATTCCACTATAACCTCAAGGACATTGAGATCTGAT
* * * *
11688628 T-CTGGGTTTAATCTGACCC-ACTTCAACTTCAAGGGT
64 TACTTGTTTTAATCTG-CCCTTCTTCAACTTTAAGGGT
* * *
11688664 ATAGAATTTGGTGTTGTAACTTCATTCCATGCCACTATAACCTTAAGGACATTGAGATCCG-TTA
1 ATAGAATTTGGTGTTGTAACTTCATTCCATTCCACTATAACCTCAAGGACATTGAGATCTGATTA
* *
11688728 CTTGTTTTACTCTGCCCTTCTTCAATTTTAAGGGT
66 CTTGTTTTAATCTGCCCTTCTTCAACTTTAAGGGT
* * * * * * * * * * * * * *
11688763 ATAGGAGTTGGTGTAGTAGCTTCACTCCCTTTCATTGTAACCTCAGGGAAATTAAGGTCTG-CTA
1 ATAGAATTTGGTGTTGTAACTTCATTCCATTCCACTATAACCTCAAGGACATTGAGATCTGATTA
* * *
11688827 CTTGTTTTAAT-TCGACCC-ACTGCAACTTCAAGGGT
66 CTTGTTTTAATCT-G-CCCTTCTTCAACTTTAAGGGT
*
11688862 ATAGGATTTGGTGTT
1 ATAGAATTTGGTGTT
11688877 TACCTGGTCC
Statistics
Matches: 316, Mismatches: 70, Indels: 49
0.73 0.16 0.11
Matches are distributed among these distances:
97 4 0.01
98 16 0.05
99 280 0.89
100 13 0.04
101 1 0.00
102 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.37
Consensus pattern (100 bp):
ATAGAATTTGGTGTTGTAACTTCATTCCATTCCACTATAACCTCAAGGACATTGAGATCTGATTA
CTTGTTTTAATCTGCCCTTCTTCAACTTTAAGGGT
Found at i:11690736 original size:62 final size:66
Alignment explanation
Indices: 11690621--11690743 Score: 175
Period size: 62 Copynumber: 1.9 Consensus size: 66
11690611 TTTTTCCATC
*
11690621 TTTTTCTTTTATTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGCGGATTTCATCTCGACTATT
1 TTTTTCTTTTACTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGCGGATTTCATCTCGACTATT
11690686 T
66 T
* *
11690687 TTTTTCTTTT-CTTTT-TTT-TTT-GGTTTTAAGATGCC-CTTTGCGGGTTTTCATCTCGAC
1 TTTTTCTTTTACTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGC-GGATTTCATCTCGAC
11690744 CCTTTTTCTT
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
61 6 0.11
62 27 0.51
63 3 0.06
64 3 0.06
65 4 0.08
66 10 0.19
ACGTcount: A:0.11, C:0.18, G:0.14, T:0.57
Consensus pattern (66 bp):
TTTTTCTTTTACTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGCGGATTTCATCTCGACTATT
T
Found at i:11690750 original size:62 final size:65
Alignment explanation
Indices: 11690621--11690759 Score: 171
Period size: 62 Copynumber: 2.2 Consensus size: 65
11690611 TTTTTCCATC
* *
11690621 TTTTTCTTTTATTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGCGGATTTCATCTCGACTATT
1 TTTTTCTTTT-CTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGCGGATTTCATCTCGACCATT
11690686 T
65 T
* * *
11690687 TTTTTCTTTTCTTTT-TTT-TTT-GGTTTTAAGATGCC-CTTTGCGGGTTTTCATCTCGACCCTT
1 TTTTTCTTTTCTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGC-GGATTTCATCTCGACCATT
11690748 T
65 T
*
11690749 TTCTT-TTTTCT
1 TTTTTCTTTTCT
11690760 CTCTCTTTTT
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
61 12 0.18
62 34 0.52
63 3 0.05
64 3 0.05
65 4 0.06
66 10 0.15
ACGTcount: A:0.10, C:0.19, G:0.12, T:0.59
Consensus pattern (65 bp):
TTTTTCTTTTCTTTTCTTTCTTTGGGTTTTAAGATCCCACTTTGCGGATTTCATCTCGACCATTT
Found at i:11694361 original size:20 final size:20
Alignment explanation
Indices: 11694333--11694389 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
11694323 CCACATCAGC
*
11694333 AAATGATTTTAAAATTATTA
1 AAATTATTTTAAAATTATTA
11694353 AAATTATTTTTTAAAA-TA-TA
1 AAATTA--TTTTAAAATTATTA
11694373 AAATTA--TTAAAATTATT
1 AAATTATTTTAAAATTATT
11694390 TTTTTGAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 6 0.19
17 2 0.06
18 1 0.03
20 13 0.41
21 2 0.06
22 8 0.25
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
AAATTATTTTAAAATTATTA
Found at i:11694384 original size:29 final size:31
Alignment explanation
Indices: 11694342--11694414 Score: 123
Period size: 29 Copynumber: 2.4 Consensus size: 31
11694332 CAAATGATTT
11694342 TAAAATTATTAAAATTA-TTTTTTAAAAT-A
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
*
11694371 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATTAAAATTATTTTTTTAAAATAA
11694402 TAAAATTATTAAA
1 TAAAATTATTAAA
11694415 TAATTTTAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
29 17 0.41
30 10 0.24
31 14 0.34
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (31 bp):
TAAAATTATTAAAATTATTTTTTTAAAATAA
Found at i:11694421 original size:30 final size:29
Alignment explanation
Indices: 11694342--11694421 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
11694332 CAAATGATTT
*
11694342 TAAAATTATTAAA-ATTATTTTTTAAAATA
1 TAAAATTATTAAATAAT-TTTTTTAAAATA
* *
11694371 TAAAATTATTAAAATTATTTTTTTGAAATAA
1 TAAAATTATT-AAATAATTTTTTTAAAAT-A
11694402 TAAAATTATTAAATAATTTT
1 TAAAATTATTAAATAATTTT
11694422 AATTTCCAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
29 10 0.23
30 22 0.50
31 12 0.27
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
TAAAATTATTAAATAATTTTTTTAAAATA
Found at i:11695668 original size:29 final size:29
Alignment explanation
Indices: 11695630--11695729 Score: 150
Period size: 29 Copynumber: 3.4 Consensus size: 29
11695620 ATTAAAATTA
11695630 TTTAATAATTTTAT-TATTTAAAAAATAAT
1 TTTAATAATTTTATAT-TTTAAAAAATAAT
11695659 TTTAATAATTTTATATTTTAAAAAATAA-
1 TTTAATAATTTTATATTTTAAAAAATAAT
* *
11695687 TTAAAAAATTTTATATTTTAAAAAAATAAT
1 TTTAATAATTTTATATTTT-AAAAAATAAT
11695717 TTTAATAATTTTA
1 TTTAATAATTTTA
11695730 AAATCATTTA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
28 17 0.27
29 35 0.55
30 12 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTAATAATTTTATATTTTAAAAAATAAT
Found at i:11695717 original size:21 final size:22
Alignment explanation
Indices: 11695689--11695732 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
11695679 AAAAATAATT
11695689 AAAAAATTTT-AT-ATTTTAAA
1 AAAAAATTTTAATAATTTTAAA
11695709 AAAATAATTTTAATAATTTTAAA
1 AAAA-AATTTTAATAATTTTAAA
11695732 A
1 A
11695733 TCATTTACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.19
21 6 0.29
22 2 0.10
23 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AAAAAATTTTAATAATTTTAAA
Found at i:11697109 original size:14 final size:14
Alignment explanation
Indices: 11697090--11697123 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
11697080 AGTTGATCGA
*
11697090 TTTGACCCGTTGAC
1 TTTGACCCATTGAC
*
11697104 TTTGACCCATTGAG
1 TTTGACCCATTGAC
11697118 TTTGAC
1 TTTGAC
11697124 TTTGACTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (14 bp):
TTTGACCCATTGAC
Found at i:11697122 original size:6 final size:6
Alignment explanation
Indices: 11697099--11697191 Score: 78
Period size: 6 Copynumber: 14.3 Consensus size: 6
11697089 ATTTGACCCG
* * * *
11697099 TTGACT TTGACCCA TTGAGT TTGACT TTGACT ATTGACT TTGAGT ATTAACT
1 TTGACT TTGA--CT TTGACT TTGACT TTGACT -TTGACT TTGACT -TTGACT
*
11697151 TTGACCT TTAATCT TTGACT TTGACT TTGACT CTTGACT TT
1 TTGA-CT TTGA-CT TTGACT TTGACT TTGACT -TTGACT TT
11697192 TTTTTACCAA
Statistics
Matches: 70, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
6 39 0.56
7 26 0.37
8 5 0.07
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (6 bp):
TTGACT
Found at i:11697137 original size:13 final size:12
Alignment explanation
Indices: 11697099--11697191 Score: 78
Period size: 13 Copynumber: 7.2 Consensus size: 12
11697089 ATTTGACCCG
*
11697099 TTGACTTTGACCCA
1 TTGACTTTGA--CT
*
11697113 TTGAGTTTGACT
1 TTGACTTTGACT
11697125 TTGACTATTGACT
1 TTGACT-TTGACT
* *
11697138 TTGAGTATTAACT
1 TTGACT-TTGACT
*
11697151 TTGACCTTTAATCT
1 TTGA-CTTTGA-CT
11697165 TTGACTTTGACT
1 TTGACTTTGACT
11697177 TTGACTCTTGACT
1 TTGACT-TTGACT
11697190 TT
1 TT
11697192 TTTTTACCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
12 14 0.21
13 38 0.56
14 16 0.24
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (12 bp):
TTGACTTTGACT
Found at i:11697185 original size:20 final size:20
Alignment explanation
Indices: 11697123--11697191 Score: 63
Period size: 20 Copynumber: 3.5 Consensus size: 20
11697113 TTGAGTTTGA
*
11697123 CTTTGACTATTGACTTTGAGT
1 CTTTGACT-TTGACTTTGAAT
* *
11697144 -ATTAACTTTGACCTTT-AAT
1 CTTTGACTTTGA-CTTTGAAT
*
11697163 CTTTGACTTTGACTTTGACT
1 CTTTGACTTTGACTTTGAAT
11697183 C-TTGACTTT
1 CTTTGACTTT
11697192 TTTTTACCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
19 18 0.46
20 21 0.54
ACGTcount: A:0.20, C:0.17, G:0.13, T:0.49
Consensus pattern (20 bp):
CTTTGACTTTGACTTTGAAT
Found at i:11699532 original size:3 final size:3
Alignment explanation
Indices: 11699524--11699578 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
11699514 AAAAAATATT
11699524 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11699572 ATA ATA A
1 ATA ATA A
11699579 AACTTGTGGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11703795 original size:2 final size:2
Alignment explanation
Indices: 11703788--11703819 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
11703778 AATTTAAGCG
*
11703788 CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11703820 TATATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:11707278 original size:26 final size:27
Alignment explanation
Indices: 11707212--11707283 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 27
11707202 AAGAAATGAA
*
11707212 AAAATGGGAAAAATAGAAAAGTGACAAGC
1 AAAA-GGGAAAAAAAG-AAAGTGACAAGC
* **
11707241 AAAAGGG-GAAAAAGAAAGTGACGTG-
1 AAAAGGGAAAAAAAGAAAGTGACAAGC
11707266 AAAAGGGAAAAAATAGAA
1 AAAAGGGAAAAAA-AGAA
11707284 TTAATTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
25 7 0.19
26 13 0.36
27 9 0.25
28 3 0.08
29 4 0.11
ACGTcount: A:0.60, C:0.04, G:0.28, T:0.08
Consensus pattern (27 bp):
AAAAGGGAAAAAAAGAAAGTGACAAGC
Found at i:11709104 original size:352 final size:353
Alignment explanation
Indices: 11708407--11709454 Score: 2053
Period size: 352 Copynumber: 3.0 Consensus size: 353
11708397 GAGAAAATGT
* *
11708407 TTACCTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGGAG
1 TTACTTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGTAG
11708472 TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGGAAAGCA
66 TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGGAAAGCA
11708537 CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCATTTCCTTGCATAAGCCCGT
131 CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCATTTCCTTGCATAAGCCCGT
11708602 AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
196 AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
11708667 ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
261 ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
11708732 TACGATGTTTTCATAACCAAACAGGGTG
326 TACGATGTTTTCATAACCAAACAGGGTG
*
11708760 TTACTTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGTAA
1 TTACTTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGTAG
*
11708825 TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGAAAAGCA
66 TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGGAAAGCA
11708890 CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCA-TTCCTTGCATAAGCCCGT
131 CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCATTTCCTTGCATAAGCCCGT
11708954 AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
196 AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
11709019 ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
261 ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
11709084 TACGATGTTTTCATAACCAAACAGGGTG
326 TACGATGTTTTCATAACCAAACAGGGTG
11709112 TTACTTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGTAG
1 TTACTTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGTAG
11709177 TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGGAAAGCA
66 TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGGAAAGCA
11709242 CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCATTTCCTTGCATAAGCCCGT
131 CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCATTTCCTTGCATAAGCCCGT
11709307 AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
196 AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
11709372 ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
261 ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
11709437 TACGATGTTTTCATAACC
326 TACGATGTTTTCATAACC
11709455 CAAATGTTAA
Statistics
Matches: 688, Mismatches: 6, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
352 350 0.51
353 338 0.49
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (353 bp):
TTACTTGAAGGACGCTGCGATGAAAGGGAGGAGTGCTATGGTTGGAGTCCAAGGAAGCAAGGTAG
TGGCTGTCTAGTTGAGTGAGAGTGTTTTTTAGGTGAGAAAGGGTAAACTGGAAACATGGAAAGCA
CCGAATAAGTAATTAGTGGGGAAGAAACATAATAGAAATGACACCATTTCCTTGCATAAGCCCGT
AATGGAATAAACTTATAATAGGACATTTCACTAAACCAAGCAACTGTTTGTGGTGGGTCCGTAGA
ATAAATTTGTAATGACTGTGCTATTATATTGAACCAAACAGGGTGTTACTTGATAAGATTTGTTG
TACGATGTTTTCATAACCAAACAGGGTG
Found at i:11715038 original size:12 final size:12
Alignment explanation
Indices: 11715015--11715069 Score: 58
Period size: 12 Copynumber: 4.3 Consensus size: 12
11715005 GGAAACATTT
11715015 TTTTCTTCTTTTC
1 TTTTC-TCTTTTC
11715028 TTTTCTCTTTTC
1 TTTTCTCTTTTC
*
11715040 TTTT-TTTCTTTC
1 TTTTCTCT-TTTC
11715052 TTTTTCTCATTTTC
1 -TTTTCTC-TTTTC
11715066 TTTT
1 TTTT
11715070 TTCAAGTTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
11 2 0.06
12 15 0.42
13 13 0.36
14 5 0.14
15 1 0.03
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTCTCTTTTC
Found at i:11715048 original size:25 final size:26
Alignment explanation
Indices: 11715014--11715071 Score: 84
Period size: 26 Copynumber: 2.2 Consensus size: 26
11715004 AGGAAACATT
11715014 TTTTTCTTCTTT-TCTTTTCTC-TTTTC
1 TTTTT-TTCTTTCT-TTTTCTCATTTTC
11715040 TTTTTTTCTTTCTTTTTCTCATTTTC
1 TTTTTTTCTTTCTTTTTCTCATTTTC
11715066 TTTTTT
1 TTTTTT
11715072 CAAGTTACTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTTTCTTTCTTTTTCTCATTTTC
Found at i:11725524 original size:21 final size:24
Alignment explanation
Indices: 11725475--11725530 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 24
11725465 AAGCATGCAG
11725475 ACTACCGATACTTCTATACATACA
1 ACTACCGATACTTCTATACATACA
**
11725499 ACTACCGATAC-TC-ATA-ATTTA
1 ACTACCGATACTTCTATACATACA
11725520 ACTACCGATAC
1 ACTACCGATAC
11725531 AACTCAAGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 14 0.47
22 3 0.10
23 2 0.07
24 11 0.37
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.29
Consensus pattern (24 bp):
ACTACCGATACTTCTATACATACA
Found at i:11726240 original size:51 final size:51
Alignment explanation
Indices: 11726114--11726353 Score: 275
Period size: 51 Copynumber: 4.6 Consensus size: 51
11726104 TTTCATTTAA
* * ** * *
11726114 TACTCAAGATGACACTCAGTCATCGGACCACTTTGTTTCGT-ATAGGAATTTATA
1 TACTCACGATGACACTTAGTCATCGGA-C-CTTTAATTCGTCAT-GG-ATTCATT
* *
11726168 TACTCACGATGACACTGAGTCATCGGACCTTTAATTCGCCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTCATGGATTCATT
* * * *
11726219 TACTCACGATGATACTTAGTCATCGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTCATGGATTCATT
* * *
11726270 TACTCACGATAACACTTAGTCATCGAACCTTTAATTTGTCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTCATGGATTCATT
* *
11726321 TACTCACGATGATACTTAATCATCGGACTCTTT
1 TACTCACGATGACACTTAGTCATCGGAC-CTTT
11726354 CGTTTATAGC
Statistics
Matches: 160, Mismatches: 24, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
51 118 0.74
52 14 0.09
53 3 0.02
54 25 0.16
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATTCGTCATGGATTCATT
Found at i:11726294 original size:102 final size:104
Alignment explanation
Indices: 11726114--11726353 Score: 313
Period size: 102 Copynumber: 2.3 Consensus size: 104
11726104 TTTCATTTAA
* * * ** * * * *
11726114 TACTCAAGATGACACTCAGTCATCGGACCACTTTGTTTCGTATAGGAATTTATATACTCACGATG
1 TACTCACGATGATACTTAGTCATCGGA-CACTTTAATCCGTAAAGGAATTCATATACTCACGATA
*
11726179 ACACTGAGTCATCGGACCTTTAATTCGCCATGGATTCATT
65 ACACTGAGTCATCGAACCTTTAATTCGCCATGGATTCATT
*
11726219 TACTCACGATGATACTTAGTCATCGGAC-CTTTAATCCGTAAAGG-ATTCATTTACTCACGATAA
1 TACTCACGATGATACTTAGTCATCGGACACTTTAATCCGTAAAGGAATTCATATACTCACGATAA
* * *
11726282 CACTTAGTCATCGAACCTTTAATTTGTCATGGATTCATT
66 CACTGAGTCATCGAACCTTTAATTCGCCATGGATTCATT
* *
11726321 TACTCACGATGATACTTAATCATCGGACTCTTT
1 TACTCACGATGATACTTAGTCATCGGACACTTT
11726354 CGTTTATAGC
Statistics
Matches: 119, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
102 78 0.66
103 16 0.13
104 1 0.01
105 24 0.20
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (104 bp):
TACTCACGATGATACTTAGTCATCGGACACTTTAATCCGTAAAGGAATTCATATACTCACGATAA
CACTGAGTCATCGAACCTTTAATTCGCCATGGATTCATT
Found at i:11739092 original size:22 final size:22
Alignment explanation
Indices: 11739065--11739118 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
11739055 GTCTCTAATT
*
11739065 AAAATAAAATAT-TAAATCTCCC
1 AAAATAAAATATCAAAATC-CCC
11739087 AAAATAAAATATCAAAATCCCC
1 AAAATAAAATATCAAAATCCCC
11739109 AAAATAAAAT
1 AAAATAAAAT
11739119 GTACTTACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 25 0.83
23 5 0.17
ACGTcount: A:0.61, C:0.17, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAATAAAATATCAAAATCCCC
Found at i:11745527 original size:22 final size:22
Alignment explanation
Indices: 11745500--11745553 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
11745490 GTCTCTAATT
* *
11745500 AAAATAAAGTAT-TAAATCTCCC
1 AAAATAAAATATCAAAATC-CCC
11745522 AAAATAAAATATCAAAATCCCC
1 AAAATAAAATATCAAAATCCCC
11745544 AAAATAAAAT
1 AAAATAAAAT
11745554 GTACTTACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 24 0.83
23 5 0.17
ACGTcount: A:0.59, C:0.17, G:0.02, T:0.22
Consensus pattern (22 bp):
AAAATAAAATATCAAAATCCCC
Found at i:11745601 original size:13 final size:13
Alignment explanation
Indices: 11745585--11745609 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11745575 TAAAAACCCA
11745585 AAAATAAAATAAC
1 AAAATAAAATAAC
11745598 AAAATAAAATAA
1 AAAATAAAATAA
11745610 GTCTATAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.04, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATAAAATAAC
Found at i:11753769 original size:32 final size:32
Alignment explanation
Indices: 11753722--11753790 Score: 104
Period size: 32 Copynumber: 2.2 Consensus size: 32
11753712 CTAGACGAAC
*
11753722 AGTG-ATAGAACAGACTGTTCTCGAGTGCCGA
1 AGTGCATAGAACAGACTATTCTCGAGTGCCGA
* *
11753753 AGTGCATAGAATAGACTATTCTCGAGTGTCGA
1 AGTGCATAGAACAGACTATTCTCGAGTGCCGA
11753785 AGTGCA
1 AGTGCA
11753791 CACTAACACT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
31 4 0.12
32 30 0.88
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (32 bp):
AGTGCATAGAACAGACTATTCTCGAGTGCCGA
Found at i:11760475 original size:52 final size:52
Alignment explanation
Indices: 11760397--11760687 Score: 474
Period size: 52 Copynumber: 5.6 Consensus size: 52
11760387 TTCTCATTTG
* * *
11760397 ATACTCACAACGACACATAGTCATCGGACCTCATAATCCGAAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
11760449 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTATAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
11760501 ATACTCACAATGACACATAGTCATCAGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* * *
11760553 ATAATCACGATGACACATAGTCATTGGACCTCATAATCCGTAAAAGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
11760605 ATACTCACGATGAGACATATTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
11760657 ATATTCACGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
11760688 TTTGCATTTA
Statistics
Matches: 219, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 219 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:11776869 original size:11 final size:11
Alignment explanation
Indices: 11776853--11776877 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
11776843 TTCAAAATTC
11776853 TTGAAAATTTT
1 TTGAAAATTTT
11776864 TTGAAAATTTT
1 TTGAAAATTTT
11776875 TTG
1 TTG
11776878 TTATTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (11 bp):
TTGAAAATTTT
Found at i:11784244 original size:32 final size:32
Alignment explanation
Indices: 11784181--11784251 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
11784171 AATGGGAAAA
*
11784181 AGTCAACTCGGGTCAACGGATCGGGTAGGGTC
1 AGTCAACTCGGGTCAACGGATCAGGTAGGGTC
* * * * *
11784213 AGTCAACTTGGGTCAATGGGTTAGGTTGGGTC
1 AGTCAACTCGGGTCAACGGATCAGGTAGGGTC
*
11784245 GGTCAAC
1 AGTCAAC
11784252 GAGTGGGCCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.21, C:0.18, G:0.37, T:0.24
Consensus pattern (32 bp):
AGTCAACTCGGGTCAACGGATCAGGTAGGGTC
Found at i:11784317 original size:21 final size:22
Alignment explanation
Indices: 11784274--11784319 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
11784264 TCGAATTATG
* *
11784274 TTTAGGGTTTTAGTGATTTGGT
1 TTTAGGGTTTGAGTGATTGGGT
*
11784296 TTTAGGGTTTGGGT-ATTGGGT
1 TTTAGGGTTTGAGTGATTGGGT
11784317 TTT
1 TTT
11784320 CATGGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.11, C:0.00, G:0.35, T:0.54
Consensus pattern (22 bp):
TTTAGGGTTTGAGTGATTGGGT
Found at i:11787190 original size:21 final size:21
Alignment explanation
Indices: 11787166--11787227 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
11787156 TTACTCAAAA
* *
11787166 TTTTTACGTAGGTATCGATAG
1 TTTTTAAGGAGGTATCGATAG
11787187 TTTTTAAGGAGGTATCGATAG
1 TTTTTAAGGAGGTATCGATAG
**
11787208 TTTCAAAAGG-GGTATCGATA
1 TTT-TTAAGGAGGTATCGATA
11787228 CTATTTGGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
21 32 0.89
22 4 0.11
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (21 bp):
TTTTTAAGGAGGTATCGATAG
Found at i:11791228 original size:18 final size:18
Alignment explanation
Indices: 11791205--11791353 Score: 190
Period size: 18 Copynumber: 8.3 Consensus size: 18
11791195 CAATCTAGTA
* * *
11791205 ATGCTCTTATGAGTCAGT
1 ATGCTCTAACGAGCCAGT
11791223 ATGCTCTAACGAGCCAGT
1 ATGCTCTAACGAGCCAGT
* *
11791241 ACGCTCTAAAGAGCCAGT
1 ATGCTCTAACGAGCCAGT
*
11791259 ATGCTCAAACGAGCCAGT
1 ATGCTCTAACGAGCCAGT
* *
11791277 ATGCTCAAACGAGCTAGT
1 ATGCTCTAACGAGCCAGT
*
11791295 ATGCTCTAACGAGCTAGT
1 ATGCTCTAACGAGCCAGT
11791313 ATGCTCTAACGAGCCAGT
1 ATGCTCTAACGAGCCAGT
* * *
11791331 ATGTTCAAATGAGCCAGT
1 ATGCTCTAACGAGCCAGT
11791349 ATGCT
1 ATGCT
11791354 ATTCCTTCTG
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 116 1.00
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (18 bp):
ATGCTCTAACGAGCCAGT
Found at i:11794706 original size:21 final size:22
Alignment explanation
Indices: 11794664--11794706 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
11794654 AAAATTTCTG
*
11794664 CTTTTCTCTTCTTCTTTGTTTT
1 CTTTTCTCTTCTTCTTTATTTT
11794686 CTTTT-TCTTCTT-TTCTATTTT
1 CTTTTCTCTTCTTCTT-TATTTT
11794707 TGCACGTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 12 0.63
22 5 0.26
ACGTcount: A:0.02, C:0.21, G:0.02, T:0.74
Consensus pattern (22 bp):
CTTTTCTCTTCTTCTTTATTTT
Found at i:11795313 original size:18 final size:18
Alignment explanation
Indices: 11795284--11795327 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
11795274 AAATGTACTA
*
11795284 ACAAAT-AAAATGCATTG
1 ACAAATAAAAATGCAATG
11795301 ACAAATAAAAATGCAATG
1 ACAAATAAAAATGCAATG
*
11795319 ACAACTAAA
1 ACAAATAAA
11795328 TGCTATGCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.59, C:0.14, G:0.09, T:0.18
Consensus pattern (18 bp):
ACAAATAAAAATGCAATG
Found at i:11809128 original size:18 final size:18
Alignment explanation
Indices: 11809105--11809225 Score: 136
Period size: 18 Copynumber: 6.7 Consensus size: 18
11809095 CGATCCAGTA
*
11809105 ATGCTCTAACGAGCCAAT
1 ATGCTCAAACGAGCCAAT
*
11809123 ATGCTCAAACGAGCCAAA
1 ATGCTCAAACGAGCCAAT
11809141 ATGC-CAAAACGAGCCAAT
1 ATGCTC-AAACGAGCCAAT
** *
11809159 ATGCTCTGATGAGCCAAT
1 ATGCTCAAACGAGCCAAT
* *
11809177 ATGCTCAAATGAGCCAGT
1 ATGCTCAAACGAGCCAAT
* * *
11809195 ATGCTCTAACGAGGCAGT
1 ATGCTCAAACGAGCCAAT
11809213 ATGCTCAAACGAG
1 ATGCTCAAACGAG
11809226 AAAGTATGCT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
17 1 0.01
18 86 0.98
19 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.19
Consensus pattern (18 bp):
ATGCTCAAACGAGCCAAT
Found at i:11809231 original size:18 final size:18
Alignment explanation
Indices: 11809100--11809235 Score: 85
Period size: 18 Copynumber: 7.5 Consensus size: 18
11809090 TCTTGCGATC
* *
11809100 CAGTAATGCTCTAACGAGC
1 CAGT-ATGCTCAAACGAGA
* *
11809119 CAATATGCTCAAACGAGC
1 CAGTATGCTCAAACGAGA
** *
11809137 CAAAATGC-CAAAACGAGC
1 CAGTATGCTC-AAACGAGA
* ** * *
11809155 CAATATGCTCTGATGAGC
1 CAGTATGCTCAAACGAGA
* * *
11809173 CAATATGCTCAAATGAGC
1 CAGTATGCTCAAACGAGA
* *
11809191 CAGTATGCTCTAACGAGG
1 CAGTATGCTCAAACGAGA
11809209 CAGTATGCTCAAACGAGA
1 CAGTATGCTCAAACGAGA
*
11809227 AAGTATGCT
1 CAGTATGCT
11809236 ATTCCTTTCA
Statistics
Matches: 99, Mismatches: 16, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
17 1 0.01
18 94 0.95
19 4 0.04
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.20
Consensus pattern (18 bp):
CAGTATGCTCAAACGAGA
Found at i:11815347 original size:23 final size:23
Alignment explanation
Indices: 11815317--11815734 Score: 658
Period size: 23 Copynumber: 18.2 Consensus size: 23
11815307 TCTTATATCA
*
11815317 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
* * *
11815340 ATGATTAAATATTAATCTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815363 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815386 GTGCTCAAAT-TTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815408 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815431 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11815454 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815477 GTGCTTAAATGTTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
11815500 GTGCTTAAATAGTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815523 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11815546 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11815569 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
**
11815592 AAGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11815615 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11815638 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
**
11815661 AAGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11815684 TTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
11815707 ATGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
11815730 GTGCT
1 GTGCT
11815735 CAAAGAATTA
Statistics
Matches: 362, Mismatches: 32, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
22 20 0.06
23 342 0.94
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (23 bp):
GTGCTTAAATATTAATGTGATTT
Found at i:11819195 original size:17 final size:16
Alignment explanation
Indices: 11819173--11819206 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11819163 TACACCTAGA
11819173 TATTAGAATTTAAAGTT
1 TATTAG-ATTTAAAGTT
*
11819190 TATTAGGTTTAAAGTT
1 TATTAGATTTAAAGTT
11819206 T
1 T
11819207 CAGTTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (16 bp):
TATTAGATTTAAAGTT
Found at i:11819533 original size:23 final size:23
Alignment explanation
Indices: 11819503--11819948 Score: 685
Period size: 23 Copynumber: 19.4 Consensus size: 23
11819493 TCTTATATTC
*
11819503 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
* * *
11819526 ATGATTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819549 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819572 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
11819595 ATGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819618 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819641 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819664 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819687 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
11819710 ATGCTTAAATATTGATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819733 GTACTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819756 GTGCTTAAATATTGATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819779 GTACTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
* *
11819802 ATGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819825 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819848 GTGCTTAAATATTAATATGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819871 GTGCTCAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
*
11819894 ATGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11819917 GTGCTTAAATATTAATGTGATTT
1 GTGCTTAAATATTAATGTGATTT
11819940 GTGCTTAAA
1 GTGCTTAAA
11819949 GAATTAAGAT
Statistics
Matches: 384, Mismatches: 39, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 384 1.00
ACGTcount: A:0.33, C:0.06, G:0.15, T:0.46
Consensus pattern (23 bp):
GTGCTTAAATATTAATGTGATTT
Found at i:11820068 original size:36 final size:35
Alignment explanation
Indices: 11820028--11820131 Score: 140
Period size: 36 Copynumber: 2.9 Consensus size: 35
11820018 TGTGAAAGCG
11820028 AATATGTGGGTATGATTTTTATGTCATGTGACAGAA
1 AATATGTGGGTATGATTTTTATG-CATGTGACAGAA
*
11820064 AATATGTGGGTAT-ATTCTTCATGCAATGTGACAGAA
1 AATATGTGGGTATGATT-TTTATGC-ATGTGACAGAA
11820100 AATATGTGGGTATG-TTTTTAATGCCATGTGAC
1 AATATGTGGGTATGATTTTT-ATG-CATGTGAC
11820132 TGATTATATT
Statistics
Matches: 61, Mismatches: 2, Indels: 10
0.84 0.03 0.14
Matches are distributed among these distances:
35 6 0.10
36 54 0.89
37 1 0.02
ACGTcount: A:0.30, C:0.09, G:0.24, T:0.38
Consensus pattern (35 bp):
AATATGTGGGTATGATTTTTATGCATGTGACAGAA
Found at i:11823351 original size:32 final size:32
Alignment explanation
Indices: 11823310--11823388 Score: 122
Period size: 32 Copynumber: 2.5 Consensus size: 32
11823300 TATCAATCAT
*
11823310 TTCAATATCCTACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
* *
11823342 TTCAATATCCAACAAGTTTAAAACATAATAAT
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
11823374 TTCAAAATCCAACAA
1 TTCAATATCCAACAA
11823389 TCTTGATTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 43 1.00
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:11824496 original size:17 final size:18
Alignment explanation
Indices: 11824474--11824510 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
11824464 AAAGACACAA
11824474 ATCATTATAACAAA-GAG
1 ATCATTATAACAAAGGAG
*
11824491 ATCATTATTACAAAGGAG
1 ATCATTATAACAAAGGAG
11824509 AT
1 AT
11824511 ACAATGCAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.27
Consensus pattern (18 bp):
ATCATTATAACAAAGGAG
Found at i:11834522 original size:20 final size:21
Alignment explanation
Indices: 11834494--11834534 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
11834484 AAACCCAAAT
11834494 TAAACTC-AATACCCAAACCC
1 TAAACTCAAATACCCAAACCC
*
11834514 TAAAGTCAAATACCCAAACCC
1 TAAACTCAAATACCCAAACCC
11834535 GTATGACCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.46, C:0.37, G:0.02, T:0.15
Consensus pattern (21 bp):
TAAACTCAAATACCCAAACCC
Found at i:11836991 original size:3 final size:3
Alignment explanation
Indices: 11836977--11837013 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
11836967 GGGGAAAAAT
*
11836977 ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
11837014 AACTTGTGGG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11841245 original size:12 final size:12
Alignment explanation
Indices: 11841226--11841274 Score: 62
Period size: 12 Copynumber: 3.9 Consensus size: 12
11841216 ATTGACCGTT
11841226 ATCGTTGACTTG
1 ATCGTTGACTTG
*
11841238 ACCGTTGACTTG
1 ATCGTTGACTTG
*
11841250 ATAGTTGACCATTG
1 ATCGTTGA-C-TTG
11841264 ATCGTTGACTT
1 ATCGTTGACTT
11841275 TTTGGGTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
12 19 0.61
13 2 0.06
14 10 0.32
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (12 bp):
ATCGTTGACTTG
Found at i:11847790 original size:65 final size:65
Alignment explanation
Indices: 11847708--11847838 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
11847698 TTTTCAAAGA
*
11847708 GTGCAAGAATTGGGTCATTATCTTGGCATTCCCCTCTTTCATCAGAGAGTTACCAATAGCACAAT
1 GTGCAAGAATTAGGTCATTATCTTGGCATTCCCCTCTTTCATCAGAGAGTTACCAATAGCACAAT
*
11847773 GTGCAAGAATTAGGTCATTATCTTGGCATTCCCCTCTTTCATCAGTGAGTTACCAATAGCACAAT
1 GTGCAAGAATTAGGTCATTATCTTGGCATTCCCCTCTTTCATCAGAGAGTTACCAATAGCACAAT
11847838 G
1 G
11847839 CATTTCGTGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (65 bp):
GTGCAAGAATTAGGTCATTATCTTGGCATTCCCCTCTTTCATCAGAGAGTTACCAATAGCACAAT
Found at i:11852673 original size:21 final size:22
Alignment explanation
Indices: 11852636--11852688 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
11852626 AATATATATT
*
11852636 AAATTCATAAATATATATAAAGA
1 AAATT-ATAAATATATAAAAAGA
*
11852659 AAATTATAAAT-TATAAAAATA
1 AAATTATAAATATATAAAAAGA
11852680 AAATT-TAAA
1 AAATTATAAA
11852689 AAAATACAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 4 0.14
21 13 0.46
22 6 0.21
23 5 0.18
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATTATAAATATATAAAAAGA
Found at i:11854579 original size:13 final size:13
Alignment explanation
Indices: 11854561--11854611 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 13
11854551 CAAATGTGTT
11854561 AATATTTAATATA
1 AATATTTAATATA
11854574 AATATTTAAT-TA
1 AATATTTAATATA
*
11854586 TTATATTTAAATATTTA
1 -AATATTT-AATA--TA
11854603 AATATTTAA
1 AATATTTAA
11854612 AATATAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 2 0.06
13 16 0.52
14 3 0.10
15 2 0.06
16 6 0.19
17 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AATATTTAATATA
Found at i:11854587 original size:21 final size:20
Alignment explanation
Indices: 11854559--11854611 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 20
11854549 TACAAATGTG
11854559 TTAATATTTAATATAAATAT
1 TTAATATTTAATATAAATAT
*
11854579 TTAAT-TATTATATTTAAATAT
1 TTAATAT-TTA-ATATAAATAT
11854600 TTAAATATTTAA
1 TT-AATATTTAA
11854612 AATATAGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 1 0.04
20 8 0.29
21 12 0.43
22 6 0.21
23 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTAATATTTAATATAAATAT
Found at i:11854616 original size:9 final size:8
Alignment explanation
Indices: 11854561--11854612 Score: 53
Period size: 8 Copynumber: 7.2 Consensus size: 8
11854551 CAAATGTGTT
11854561 AATATTT-
1 AATATTTA
11854568 AATA--TA
1 AATATTTA
11854574 AATATTTA
1 AATATTTA
*
11854582 ATTA-TT-
1 AATATTTA
11854588 -ATATTTA
1 AATATTTA
11854595 AATATTTA
1 AATATTTA
11854603 AATATTTA
1 AATATTTA
11854611 AA
1 AA
11854613 ATATAGTTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
5 3 0.08
6 6 0.16
7 6 0.16
8 22 0.59
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (8 bp):
AATATTTA
Found at i:11857945 original size:12 final size:12
Alignment explanation
Indices: 11857928--11857952 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11857918 TTTATTTACT
11857928 ATCCCTATGTAA
1 ATCCCTATGTAA
11857940 ATCCCTATGTAA
1 ATCCCTATGTAA
11857952 A
1 A
11857953 GTGCTGGACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (12 bp):
ATCCCTATGTAA
Found at i:11858004 original size:16 final size:15
Alignment explanation
Indices: 11857970--11858003 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
11857960 ACTAGGACTT
11857970 AAAATAATTTTTCTC
1 AAAATAATTTTTCTC
11857985 AAAATAATTTTTCTC
1 AAAATAATTTTTCTC
11858000 AAAA
1 AAAA
11858004 ACCAATCACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATAATTTTTCTC
Found at i:11861692 original size:6 final size:6
Alignment explanation
Indices: 11861683--11861731 Score: 62
Period size: 6 Copynumber: 8.0 Consensus size: 6
11861673 TAATTTTTAT
** *
11861683 TTAATA TTAATA TTAATA TTTTTA TTTAATA TTAATA TTAATA TCAATA
1 TTAATA TTAATA TTAATA TTAATA -TTAATA TTAATA TTAATA TTAATA
11861732 CAAAATTTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 33 0.89
7 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAATA
Found at i:11861704 original size:25 final size:25
Alignment explanation
Indices: 11861675--11861726 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
11861665 TTTGATCCTA
11861675 ATTTTTATTTAATATTAATATTAAT
1 ATTTTTATTTAATATTAATATTAAT
11861700 ATTTTTATTTAATATTAATATTAAT
1 ATTTTTATTTAATATTAATATTAAT
11861725 AT
1 AT
11861727 CAATACAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTATTTAATATTAATATTAAT
Found at i:11865654 original size:24 final size:24
Alignment explanation
Indices: 11865608--11865661 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
11865598 CCCTTTTTAG
*
11865608 TATCTCATTCCTCTCATCACCTTA
1 TATCTCATTCCTCTCACCACCTTA
* *
11865632 TTTCTCATT-CTCTCACCTTCCTTA
1 TATCTCATTCCTCTCACC-ACCTTA
11865656 TATCTC
1 TATCTC
11865662 CTTTTTAGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 7 0.28
24 18 0.72
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (24 bp):
TATCTCATTCCTCTCACCACCTTA
Found at i:11874521 original size:17 final size:17
Alignment explanation
Indices: 11874499--11874538 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
11874489 CTGTAGTATA
*
11874499 ATTGTCCCTCCATTTTT
1 ATTGTCACTCCATTTTT
* *
11874516 ATTGTCAGTGCATTTTT
1 ATTGTCACTCCATTTTT
11874533 ATTGTC
1 ATTGTC
11874539 GCTGTATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.20, G:0.12, T:0.53
Consensus pattern (17 bp):
ATTGTCACTCCATTTTT
Found at i:11876918 original size:27 final size:28
Alignment explanation
Indices: 11876883--11876935 Score: 67
Period size: 27 Copynumber: 1.9 Consensus size: 28
11876873 ATAATTTTAT
11876883 ATTTAAAAAA-A-TTATTAATTTTAAAATA
1 ATTTAAAAAAGATTTA-T-ATTTTAAAATA
11876911 ATTT-AAAAAGATTTATATTTTAAAA
1 ATTTAAAAAAGATTTATATTTTAAAA
11876936 AATAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
27 14 0.61
28 6 0.26
29 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (28 bp):
ATTTAAAAAAGATTTATATTTTAAAATA
Found at i:11876936 original size:28 final size:29
Alignment explanation
Indices: 11876883--11876943 Score: 74
Period size: 28 Copynumber: 2.1 Consensus size: 29
11876873 ATAATTTTAT
11876883 ATTTAAAAAAATTATTAATTTT-AAAATA
1 ATTTAAAAAAATTATTAATTTTAAAAATA
*
11876911 ATTTAAAAAGA-T-TTATATTTTAAAAAATA
1 ATTTAAAAAAATTATTA-ATTTT-AAAAATA
11876940 ATTT
1 ATTT
11876944 TAATAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 6 0.21
28 10 0.34
29 10 0.34
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTTAAAAAAATTATTAATTTTAAAAATA
Found at i:11903774 original size:25 final size:25
Alignment explanation
Indices: 11903726--11903774 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
11903716 GGATCAAAAT
*
11903726 ATTAAATTAACCCAATTATTTAATA
1 ATTAAATTAACCCAATTATCTAATA
11903751 ATTAAATTAACCCAAATTA-CTAAT
1 ATTAAATTAACCC-AATTATCTAAT
11903775 GAAAAAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (25 bp):
ATTAAATTAACCCAATTATCTAATA
Found at i:11903782 original size:25 final size:25
Alignment explanation
Indices: 11903729--11903783 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
11903719 TCAAAATATT
* *
11903729 AAATTAACCCAATTATTTAATAATT
1 AAATTAACCCAATTATCTAATAATA
11903754 AAATTAACCCAAATTA-CTAATGAA-A
1 AAATTAACCC-AATTATCTAAT-AATA
11903779 AAATT
1 AAATT
11903784 CATATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
25 19 0.73
26 7 0.27
ACGTcount: A:0.53, C:0.13, G:0.02, T:0.33
Consensus pattern (25 bp):
AAATTAACCCAATTATCTAATAATA
Found at i:11921922 original size:20 final size:20
Alignment explanation
Indices: 11921876--11921947 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
11921866 TATAAAATGA
* ** *
11921876 TATCGATACCTTGTCAAGGA
1 TATCGATACTTTGAAAAGGG
*
11921896 TACCGATACTTTGAAGAA-GG
1 TATCGATACTTTGAA-AAGGG
*
11921916 TATCGATACTATGAAAAGGG
1 TATCGATACTTTGAAAAGGG
*
11921936 TATCGAAACTTT
1 TATCGATACTTT
11921948 TGATATTTGC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 2 0.05
20 37 0.90
21 2 0.05
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (20 bp):
TATCGATACTTTGAAAAGGG
Found at i:11923960 original size:20 final size:20
Alignment explanation
Indices: 11923921--11923960 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
11923911 ATGATGGTTT
* **
11923921 CAATGCAACTTTTCGTAAAA
1 CAATGCAAATTTTCAAAAAA
11923941 CAATGCAAATTTTCAAAAAA
1 CAATGCAAATTTTCAAAAAA
11923961 TATTCCTATC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.28
Consensus pattern (20 bp):
CAATGCAAATTTTCAAAAAA
Found at i:11927158 original size:16 final size:17
Alignment explanation
Indices: 11927137--11927168 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11927127 ATTCTAAACT
11927137 AAATTAAAT-TAAGTTA
1 AAATTAAATCTAAGTTA
11927153 AAATTAAATCTAAGTT
1 AAATTAAATCTAAGTT
11927169 GAATTCCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (17 bp):
AAATTAAATCTAAGTTA
Found at i:11927871 original size:12 final size:12
Alignment explanation
Indices: 11927856--11927881 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11927846 AATTAAATAA
11927856 ATAATAGCATTC
1 ATAATAGCATTC
11927868 ATAATAGCATTC
1 ATAATAGCATTC
11927880 AT
1 AT
11927882 CATGATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (12 bp):
ATAATAGCATTC
Found at i:11952261 original size:38 final size:37
Alignment explanation
Indices: 11952201--11952319 Score: 109
Period size: 37 Copynumber: 3.2 Consensus size: 37
11952191 GACATTCCTG
*
11952201 GGTGCAATT-GAAGAATACTTATGTAGTGATAGTTTT
1 GGTGCAATTCGAAGAATATTTATGTAGTGATAGTTTT
* ** * *
11952237 GGATGCAATTCGAAGAATATTTATGCAGCAACAGTCTTG
1 GG-TGCAATTCGAAGAATATTTATGTAGTGATAGT-TTT
* **
11952276 GGTGC-ATTCTGGA-AATATTCCTGTAGTGATAGTTTT
1 GGTGCAATTC-GAAGAATATTTATGTAGTGATAGTTTT
11952312 GGTGCAAT
1 GGTGCAAT
11952320 CTGGAAGTGC
Statistics
Matches: 64, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
36 9 0.14
37 27 0.42
38 24 0.38
39 4 0.06
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.35
Consensus pattern (37 bp):
GGTGCAATTCGAAGAATATTTATGTAGTGATAGTTTT
Found at i:11952386 original size:37 final size:38
Alignment explanation
Indices: 11952307--11952393 Score: 106
Period size: 37 Copynumber: 2.3 Consensus size: 38
11952297 TGTAGTGATA
* * **
11952307 GTTTTGGTGCAATCTGGAAGTGCTCATGTGGCAATAAT
1 GTTTGGGTGCAATCTAGAAGTGCTCATGCAGCAATAAT
* *
11952345 -TTTGGGTGCAATCTAGAAGTGCTCATGCAGCGA-CAT
1 GTTTGGGTGCAATCTAGAAGTGCTCATGCAGCAATAAT
11952381 GTTTGGGTGCAAT
1 GTTTGGGTGCAAT
11952394 TCTGGATTAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
36 2 0.05
37 40 0.95
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (38 bp):
GTTTGGGTGCAATCTAGAAGTGCTCATGCAGCAATAAT
Found at i:11959504 original size:25 final size:26
Alignment explanation
Indices: 11959471--11959534 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 26
11959461 TATTAGTATT
*
11959471 GAAG-AGGAAGAAGAGAAAAG-AGAA
1 GAAGAAGGAAGAAGAGAAAAGAAAAA
* *
11959495 GAAGAAGGAAGAAAAGACAAGAAAAA
1 GAAGAAGGAAGAAGAGAAAAGAAAAA
*
11959521 GAA-AATGAAGAAGA
1 GAAGAAGGAAGAAGA
11959535 TTTTGTGCCG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
24 4 0.12
25 23 0.70
26 6 0.18
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.02
Consensus pattern (26 bp):
GAAGAAGGAAGAAGAGAAAAGAAAAA
Found at i:11960085 original size:6 final size:6
Alignment explanation
Indices: 11960071--11960105 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
11960061 ATAAAAAGAA
*
11960071 ATATAT ATATGT ATATGT ATATGT ATATGT ATATG
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATATG
11960106 ACTGGTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (6 bp):
ATATGT
Found at i:11965927 original size:16 final size:14
Alignment explanation
Indices: 11965905--11965938 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
11965895 GTAATCAGAG
*
11965905 ATTTTTAATAAATAT
1 ATTTTTTATAAAT-T
11965920 ATTTTTTATAAATT
1 ATTTTTTATAAATT
11965934 ATTTT
1 ATTTT
11965939 CTTACTTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATTTTTTATAAATT
Found at i:11981933 original size:6 final size:6
Alignment explanation
Indices: 11981924--11981968 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
11981914 AATATAAATA
*
11981924 TTTTTC TTTTTC TTTTTC -TTTTC -TTTTC TTCTTC TTCTTT- TTTTT
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TT-TTTC TTTTT
11981969 ATATGTGACT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
5 13 0.37
6 20 0.57
7 2 0.06
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTC
Found at i:11981953 original size:22 final size:23
Alignment explanation
Indices: 11981925--11981968 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
11981915 ATATAAATAT
*
11981925 TTTTCTTTTTCTT-TTTCTTTTC
1 TTTTCTTCTTCTTCTTTCTTTTC
*
11981947 TTTTCTTCTTCTTCTTTTTTTT
1 TTTTCTTCTTCTTCTTTCTTTT
11981969 ATATGTGACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTCTTCTTCTTCTTTCTTTTC
Found at i:11983052 original size:24 final size:25
Alignment explanation
Indices: 11983006--11983054 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
11982996 TTTGCTCTGG
*
11983006 CTTCTTCCTCTTCTTTTTCTTCTTT
1 CTTCTTCCTCTTCTTTGTCTTCTTT
11983031 CTTC-TCCTCTTCTCTTGT-TTCTTT
1 CTTCTTCCTCTTCT-TTGTCTTCTTT
11983055 AACGGATGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (25 bp):
CTTCTTCCTCTTCTTTGTCTTCTTT
Found at i:12005429 original size:17 final size:17
Alignment explanation
Indices: 12005407--12005439 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
12005397 GCACTAACAT
12005407 TAAAATGCAATGACAAA
1 TAAAATGCAATGACAAA
12005424 TAAAATGCAATGACAA
1 TAAAATGCAATGACAA
12005440 TGTGCACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.58, C:0.12, G:0.12, T:0.18
Consensus pattern (17 bp):
TAAAATGCAATGACAAA
Found at i:12012750 original size:30 final size:31
Alignment explanation
Indices: 12012705--12012763 Score: 102
Period size: 30 Copynumber: 1.9 Consensus size: 31
12012695 GGCGAAAGTG
12012705 TTGAAGAGATGCGAGGACACAAATCTAGTCC
1 TTGAAGAGATGCGAGGACACAAATCTAGTCC
*
12012736 TTGAAGAG-TGCGAGGGCACAAATCTAGT
1 TTGAAGAGATGCGAGGACACAAATCTAGT
12012764 GCTAAATTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.34, C:0.17, G:0.29, T:0.20
Consensus pattern (31 bp):
TTGAAGAGATGCGAGGACACAAATCTAGTCC
Found at i:12014517 original size:14 final size:15
Alignment explanation
Indices: 12014495--12014532 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
12014485 CATTTATACA
12014495 TTTCA-TTTTATCT-
1 TTTCACTTTTATCTG
12014508 TTTCACTTTTATCTG
1 TTTCACTTTTATCTG
12014523 TTTC-CTTTTA
1 TTTCACTTTTA
12014533 AATTCCATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 14 0.61
15 4 0.17
ACGTcount: A:0.13, C:0.18, G:0.03, T:0.66
Consensus pattern (15 bp):
TTTCACTTTTATCTG
Found at i:12016801 original size:17 final size:17
Alignment explanation
Indices: 12016779--12016815 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12016769 ATCATTGCAT
12016779 TTTCATTTGTCACTACA
1 TTTCATTTGTCACTACA
* *
12016796 TTTCATTTGTTAGTACA
1 TTTCATTTGTCACTACA
12016813 TTT
1 TTT
12016816 GTATTGTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.22, C:0.16, G:0.08, T:0.54
Consensus pattern (17 bp):
TTTCATTTGTCACTACA
Found at i:12016822 original size:17 final size:17
Alignment explanation
Indices: 12016792--12016837 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
12016782 CATTTGTCAC
12016792 TACATTTC-ATTTGTTAG-
1 TACATTTCTA-TTG-TAGT
*
12016809 TACATTTGTATTGTAGT
1 TACATTTCTATTGTAGT
12016826 TACATTTCTATT
1 TACATTTCTATT
12016838 CTTATCTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 3 0.12
17 21 0.84
18 1 0.04
ACGTcount: A:0.24, C:0.11, G:0.11, T:0.54
Consensus pattern (17 bp):
TACATTTCTATTGTAGT
Found at i:12017414 original size:10 final size:10
Alignment explanation
Indices: 12017401--12017443 Score: 61
Period size: 10 Copynumber: 4.3 Consensus size: 10
12017391 AAAAATTCAC
12017401 AAAAAGAAAG
1 AAAAAGAAAG
12017411 AAAAAGAAAG
1 AAAAAGAAAG
*
12017421 AAGAAGAAA-
1 AAAAAGAAAG
12017430 AAAAAGAAAAG
1 AAAAAG-AAAG
12017441 AAA
1 AAA
12017444 TATATTGTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
9 5 0.17
10 21 0.72
11 3 0.10
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:12032770 original size:84 final size:83
Alignment explanation
Indices: 12032351--12033161 Score: 540
Period size: 77 Copynumber: 10.2 Consensus size: 83
12032341 ATTAAATCTT
* * * * * * * *
12032351 GAAATAGAATTATTTAATTATTTATTATTTTGAAACAACATCAAA-AT--AA-AATATGT-TTAA
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATATAGAATAAAATTTGTTGA
** *
12032411 ACGACAATAATAAATTCC
66 ACGACAGGAATAAATCCC
* * * * * * * **
12032429 AAAACAAAACTATCCAATTCATTATTGTTT-GAAACAAAATCAAA-ATCA-AATTAAACATGTTG
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATAT-AGAATAAAATTTGTTG
** * *
12032491 AACG-GTGAGAATGAATCCT
65 AACGACAG-GAATAAATCCC
* * * * *
12032510 GGAACAAAATTATTCAATTAATTCTTATTTGAAAACAAAATCCCAAT-T--AAT----TTTGTTG
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAAT-CAAATATAGAATAAAATTTGTTG
* **
12032568 AACGGCAGGAATAAATCTT
65 AACGACAGGAATAAATCCC
* * * * *
12032587 GGAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAA-AT-CAAT----TTTGTTGA
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATATAGAATAAAATTTGTTGA
12032646 ACGACAGGAATAAATCCC
66 ACGACAGGAATAAATCCC
* * *
12032664 GGAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAAATATAGAATAAAATTTGTTG
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAAT-CAAATATAGAATAAAATTTGTTG
* **
12032729 AACGACGGGAATAAATCTT
65 AACGACAGGAATAAATCCC
* * * * * *
12032748 GAAATAGAATTATTCAATTAATTATTAATTGGGAACAAAGTCAAA-ATAAAATAAAATTTGTTTA
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATATAGAATAAAATTTG-TTG
* **
12032812 AATGGTAGGAATAAAT-CC
65 AACGACAGGAATAAATCCC
* *
12032830 GAAAACAGAATTATTCAATT-A--ATTCTTTGGAAACAAAATCAAAT-TA-AAT---A--TATTG
1 G-AAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATATAGAATAAAATTTGTTG
* *
12032885 AAC-AGCGGGAATGAATCCC
65 AACGA-CAGGAATAAATCCC
* * *
12032904 GAAACAGAATTATTCAATTAATTCTTATTTGGGAACAAAATCCAGAT-T--AAT----TTTGTTG
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAAT-CAAATATAGAATAAAATTTGTTG
12032962 AACGACAGGAATAAATCCC
65 AACGACAGGAATAAATCCC
* * * * * *
12032981 GAAATAGAATTATTCAATTAATTATAATTTGAAAATAAAATCCAAATATAGAATAAAATCTATTG
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAAT-CAAATATAGAATAAAATTTGTTG
* * ***
12033046 AACAACGGGAATAAATTTT
65 AACGACAGGAATAAATCCC
* * * * *
12033065 GAAATAGAATTATTCAATTAATTAATAATTGGAAACAAAATTAAA-ATAGAATAAAATCTGTTGA
1 GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATATAGAATAAAATTTGTTGA
*
12033129 ACGACAGGAATAAATCTC
66 ACGACAGGAATAAATCCC
12033147 GAAACA-AATTTATTC
1 GAAACAGAA-TTATTC
12033162 GATTTTAATT
Statistics
Matches: 585, Mismatches: 110, Indels: 72
0.76 0.14 0.09
Matches are distributed among these distances:
73 30 0.05
74 5 0.01
76 24 0.04
77 200 0.34
78 27 0.05
79 7 0.01
80 29 0.05
81 41 0.07
82 68 0.12
83 42 0.07
84 112 0.19
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (83 bp):
GAAACAGAATTATTCAATTAATTATTATTTGGAAACAAAATCAAATATAGAATAAAATTTGTTGA
ACGACAGGAATAAATCCC
Found at i:12032845 original size:83 final size:83
Alignment explanation
Indices: 12032638--12033161 Score: 405
Period size: 84 Copynumber: 6.5 Consensus size: 83
12032628 CCAAATCAAT
* * * * *
12032638 TTTGTTGAACGACAGGAATAAATCCCGGAACAGAATTAATCAAATAATTATTATTTGGAAACAAA
1 TTTGTTAAACGACAGGAATAAAT-CCGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAA
*
12032703 ATCCAAATATAGAATAAAA
65 ATCCAAATATAAAATAAAA
* * * * *
12032722 TTTGTTGAACGACGGGAATAAATCTTGAAATAGAATTATTCAATTAATTATTAATTGGGAACAAA
1 TTTGTTAAACGACAGGAATAAATC-CGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAA
*
12032787 GT-CAAA-ATAAAATAAAA
65 ATCCAAATATAAAATAAAA
* ** *
12032804 TTTGTTTAAATGGTAGGAATAAATCCGAAAACAGAATTATTCAATTAATT-CT--TTGGAAACAA
1 TTTG-TTAAACGACAGGAATAAATCCG-AAACAGAATTATTCAATTAATTATTAATTGGAAACAA
*
12032866 AAT-CAAAT-T-AAAT-ATA
64 AATCCAAATATAAAATAAAA
* * * * *
12032882 -TTG---AAC-AGCGGGAATGAATCCCGAAACAGAATTATTCAATTAATTCTTATTTGGGAACAA
1 TTTGTTAAACGA-CAGGAATAAAT-CCGAAACAGAATTATTCAATTAATTATTAATTGGAAACAA
*
12032942 AATCCAGAT-T--AAT----
64 AATCCAAATATAAAATAAAA
* * * *
12032955 TTTGTTGAACGACAGGAATAAATCCCGAAATAGAATTATTCAATTAATTA-TAATTTGAAAATAA
1 TTTGTTAAACGACAGGAATAAAT-CCGAAACAGAATTATTCAATTAATTATTAA-TTGGAAACAA
*
12033019 AATCCAAATATAGAATAAAA
64 AATCCAAATATAAAATAAAA
* * * * * ** * *
12033039 TCTATTGAACAACGGGAATAAATTTTGAAATAGAATTATTCAATTAATTAATAATTGGAAACAAA
1 TTTGTTAAACGACAGGAATAAA-TCCGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAA
* *
12033104 AT-TAAA-ATAGAATAAAA
65 ATCCAAATATAAAATAAAA
* *
12033121 TCTGTTGAACGACAGGAATAAATCTCGAAACA-AATTTATTC
1 TTTGTTAAACGACAGGAATAAATC-CGAAACAGAA-TTATTC
12033162 GATTTTAATT
Statistics
Matches: 360, Mismatches: 53, Indels: 56
0.77 0.11 0.12
Matches are distributed among these distances:
73 32 0.09
74 7 0.02
76 17 0.05
77 60 0.17
78 4 0.01
79 4 0.01
80 19 0.05
81 3 0.01
82 57 0.16
83 44 0.12
84 109 0.30
85 4 0.01
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (83 bp):
TTTGTTAAACGACAGGAATAAATCCGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAAA
TCCAAATATAAAATAAAA
Found at i:12032958 original size:317 final size:319
Alignment explanation
Indices: 12032512--12033161 Score: 885
Period size: 317 Copynumber: 2.0 Consensus size: 319
12032502 TGAATCCTGG
* * * * *
12032512 AACAAAATTATTCAATTAATTCTTATTTGAAAACAAAATCCCAATTAATTTTGTTGAACGGCAGG
1 AACAAAATTATTCAATTAATTC-T-TTTGAAAACAAAATCCAAATTAAATATATTGAACAGCAGG
** *
12032577 AATAAATCTTGGAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAAATCAATTTTG
64 AATAAATCCCGAAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAAATCAATTTTG
* * *
12032642 TTGAACGACAGGAATAAATCCCGGAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCC
129 TTGAACGACAGGAATAAATCCCGAAACAGAATTAATCAAATAATTATAATTTGAAAACAAAATCC
* * *
12032707 AAATATAGAATAAAATTTGTTGAACGACGGGAATAAATCTTGAAATAGAATTATTCAATTAATTA
194 AAATATAGAATAAAATCTATTGAACAACGGGAATAAATCTTGAAATAGAATTATTCAATTAATTA
* * * *
12032772 TTAATTGGGAACAAAGTCAAAATAAAATAAAATTTGTTTAAATGGTAGGAATAAATCCGAA
259 ATAATTGGAAACAAAATCAAAATAAAATAAAATCTGTTTAAATGGTAGGAATAAATCCGAA
* * *
12032833 AACAGAATTATTCAATTAATTC-TTTGGAAACAAAAT-CAAATTAAATATATTGAACAGCGGGAA
1 AACAAAATTATTCAATTAATTCTTTTGAAAACAAAATCCAAATTAAATATATTGAACAGCAGGAA
* * * * * * *
12032896 TGAATCCCGAAACAGAATTATTCAATTAATTCTTATTTGGGAACAAAATCCAGATTAATTTTGTT
66 TAAATCCCGAAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAAATCAATTTTGTT
* * * *
12032961 GAACGACAGGAATAAATCCCGAAATAGAATTATTCAATTAATTATAATTTGAAAATAAAATCCAA
131 GAACGACAGGAATAAATCCCGAAACAGAATTAATCAAATAATTATAATTTGAAAACAAAATCCAA
*
12033026 ATATAGAATAAAATCTATTGAACAACGGGAATAAATTTTGAAATAGAATTATTCAATTAATTAAT
196 ATATAGAATAAAATCTATTGAACAACGGGAATAAATCTTGAAATAGAATTATTCAATTAATTAAT
* * * * **
12033091 AATTGGAAACAAAATTAAAATAGAATAAAATCTG-TTGAACGACAGGAATAAATCTCG-A
261 AATTGGAAACAAAATCAAAATAAAATAAAATCTGTTTAAATGGTAGGAATAAATC-CGAA
*
12033149 AACAAATTTATTC
1 AACAAAATTATTC
12033162 GATTTTAATT
Statistics
Matches: 287, Mismatches: 41, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
316 28 0.10
317 225 0.78
318 13 0.05
321 21 0.07
ACGTcount: A:0.47, C:0.11, G:0.12, T:0.30
Consensus pattern (319 bp):
AACAAAATTATTCAATTAATTCTTTTGAAAACAAAATCCAAATTAAATATATTGAACAGCAGGAA
TAAATCCCGAAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAAATCAATTTTGTT
GAACGACAGGAATAAATCCCGAAACAGAATTAATCAAATAATTATAATTTGAAAACAAAATCCAA
ATATAGAATAAAATCTATTGAACAACGGGAATAAATCTTGAAATAGAATTATTCAATTAATTAAT
AATTGGAAACAAAATCAAAATAAAATAAAATCTGTTTAAATGGTAGGAATAAATCCGAA
Found at i:12033082 original size:161 final size:159
Alignment explanation
Indices: 12032575--12033161 Score: 593
Period size: 161 Copynumber: 3.7 Consensus size: 159
12032565 TTGAACGGCA
* * * * *
12032575 GGAATAAATCTTGGAACAGAATTAATCAAATAATTATTATTTGGAAACAAAATCCAAATCAATTT
1 GGAATAAATCTTGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAAATCCAAATTAATTT
* * *
12032640 TGTTGAACGACAGGAATAAATCCCGGAACAGAATTAATCAAATAATTATTATTTGGAAACAAAAT
66 TGTTGAACGACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTA-TATTTGGAAACAAAAT
* *
12032705 CCAAATATAGAATAAAATTTGTTGAACGACG
130 CCAAATATAGAATAAAA-TTATTGAACAACG
* * * *
12032736 GGAATAAATCTTGAAATAGAATTATTCAATTAATTATTAATTGGGAACAAAGTCAAAATAAAATA
1 GGAATAAATCTTGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAAATCCAAAT----T-
* * * ** *
12032801 AAATTTGTTTAAATGGTAGGAATAAAT-CCGAAAACAGAATTATTCAATTAA-T-TCTTTGGAAA
61 AATTTTG-TTGAACGACAGGAATAAATCCCG-AAACAGAATTATTCAATTAATTATATTTGGAAA
*
12032863 CAAAAT-CAAAT-TA-AAT---A-TATTGAACAGCG
124 CAAAATCCAAATATAGAATAAAATTATTGAACAACG
* ** * * * *
12032892 GGAATGAATCCCGAAACAGAATTATTCAATTAATTCTTATTTGGGAACAAAATCCAGATTAATTT
1 GGAATAAATCTTGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAAATCCAAATTAATTT
* * *
12032957 TGTTGAACGACAGGAATAAATCCCGAAATAGAATTATTCAATTAATTATAATTTGAAAATAAAAT
66 TGTTGAACGACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTAT-ATTTGGAAACAAAAT
12033022 CCAAATATAGAATAAAATCTATTGAACAACG
130 CCAAATATAGAATAAAAT-TATTGAACAACG
* * * **
12033053 GGAATAAATTTTGAAATAGAATTATTCAATTAATTAATAATTGGAAACAAAATTAAAATAGAATA
1 GGAATAAATCTTGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAAATCCAAAT----T-
* * *
12033118 AAATCTGTTGAACGACAGGAATAAATCTCGAAACA-AATTTATTC
61 AATTTTGTTGAACGACAGGAATAAATCCCGAAACAGAA-TTATTC
12033162 GATTTTAATT
Statistics
Matches: 345, Mismatches: 56, Indels: 45
0.77 0.13 0.10
Matches are distributed among these distances:
150 34 0.10
151 10 0.03
152 2 0.01
153 12 0.03
154 5 0.01
155 2 0.01
156 62 0.18
158 1 0.00
159 1 0.00
161 112 0.32
162 2 0.01
163 5 0.01
164 15 0.04
165 3 0.01
166 47 0.14
167 32 0.09
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (159 bp):
GGAATAAATCTTGAAACAGAATTATTCAATTAATTATTAATTGGAAACAAAATCCAAATTAATTT
TGTTGAACGACAGGAATAAATCCCGAAACAGAATTATTCAATTAATTATATTTGGAAACAAAATC
CAAATATAGAATAAAATTATTGAACAACG
Found at i:12033357 original size:49 final size:52
Alignment explanation
Indices: 12033291--12033430 Score: 128
Period size: 53 Copynumber: 2.7 Consensus size: 52
12033281 GCGAACACAT
** * * * *
12033291 ATAAATATAAATATTTATATAAATACA-GGATC-TCAAC-AAAA-TAATATAA
1 ATAAATATTTATATTTATATAAAAACACAGATCTTAAACGAAAACAAAT-TAA
* *
12033340 ATCAATATTTATATTTATGTAAAAACACCAGATCTTAAACGAAAACAAATTAA
1 ATAAATATTTATATTTATATAAAAACA-CAGATCTTAAACGAAAACAAATTAA
* *
12033393 ATAAATATTTATATTTAT-TTAAAACATCATATCTTAAA
1 ATAAATATTTATATTTATATAAAAACA-CAGATCTTAAA
12033431 AATAAATTAA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
49 22 0.30
51 4 0.05
52 21 0.28
53 24 0.32
54 3 0.04
ACGTcount: A:0.52, C:0.10, G:0.04, T:0.34
Consensus pattern (52 bp):
ATAAATATTTATATTTATATAAAAACACAGATCTTAAACGAAAACAAATTAA
Found at i:12033443 original size:52 final size:53
Alignment explanation
Indices: 12033328--12033445 Score: 134
Period size: 52 Copynumber: 2.2 Consensus size: 53
12033318 GGATCTCAAC
* *
12033328 AAAA-TAATATAAATCAATATTTATATTTATGTAAAAACACCAGATCTTAAACG
1 AAAACTAAT-TAAATAAATATTTATATTTATGTAAAAACACCAGATCTTAAACA
* * * *
12033381 AAAACAAATTAAATAAATATTTATATTTAT-TTAAAACATCATATCTTAAA-A
1 AAAACTAATTAAATAAATATTTATATTTATGTAAAAACACCAGATCTTAAACA
*
12033432 ATAAATTAATTAAA
1 A-AAACTAATTAAA
12033446 CAAGATCTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
51 1 0.02
52 27 0.49
53 24 0.44
54 3 0.05
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (53 bp):
AAAACTAATTAAATAAATATTTATATTTATGTAAAAACACCAGATCTTAAACA
Found at i:12036585 original size:218 final size:218
Alignment explanation
Indices: 12036294--12036804 Score: 839
Period size: 218 Copynumber: 2.4 Consensus size: 218
12036284 ATGAAAATGT
* * * * *
12036294 TGAAATTAAGAATGAAAATACTGATGTGGCATAAAACTATTGGAAAGAGATAATATCCCTATTTC
1 TGAAATTTAGGATGAAATTACTGATGTGTCATAAAACTATTGGAAAGAGATAATATCCCTGTTTC
* * * *
12036359 ATACAATCCTTTCTCAATGGGGAAAATGATTAAATAAAATAGTGATACCACGTCATTTGTGTCCT
66 ATACAATCCTTTCTCAATGGGGAAAAGGATTAAATAAAACAGTGACACCACGTCATTTGTGTCCC
*
12036424 TTTTCCAATAGTTTTATGCCACATAAGTATTTTCACTCTTAATTTCAA-CATTTTCATCCTGAAA
131 TTTTCCAATAGTTTTATGCCACATAAGTATTTTCACTCTTAATTTCAATAATTTT-ATCCTGAAA
12036488 AAAATCAAATTACAATTAAAATCC
195 AAAATCAAATTACAATTAAAATCC
* *
12036512 TGAAATTTAGGATGAAATTATTGATGTGTCATAAAACTATTGGAAAGAGATAATATCACTGTTTC
1 TGAAATTTAGGATGAAATTACTGATGTGTCATAAAACTATTGGAAAGAGATAATATCCCTGTTTC
*
12036577 ATACAATCCTTTCTCAATGGGGAAAAGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCC
66 ATACAATCCTTTCTCAATGGGGAAAAGGATTAAATAAAACAGTGACACCACGTCATTTGTGTCCC
* *
12036642 TTTTCCAATAGTTTTATGCCACATCAGTATTTTCACTCTTAATTTCAATAATTTTATCCTGGAAA
131 TTTTCCAATAGTTTTATGCCACATAAGTATTTTCACTCTTAATTTCAATAATTTTATCCTGAAAA
12036707 AAATCAAATTACAATTAAAATCC
196 AAATCAAATTACAATTAAAATCC
* *
12036730 TGAAATTTAGGATGAAATT-GTGATGTGTCATAAAACTATTAGAAAGAGATAATATCCCTGTTTC
1 TGAAATTTAGGATGAAATTACTGATGTGTCATAAAACTATTGGAAAGAGATAATATCCCTGTTTC
12036794 ATACAA-CCTTT
66 ATACAATCCTTT
12036805 TCTCTTGAGA
Statistics
Matches: 274, Mismatches: 18, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
216 5 0.02
217 48 0.18
218 216 0.79
219 5 0.02
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.34
Consensus pattern (218 bp):
TGAAATTTAGGATGAAATTACTGATGTGTCATAAAACTATTGGAAAGAGATAATATCCCTGTTTC
ATACAATCCTTTCTCAATGGGGAAAAGGATTAAATAAAACAGTGACACCACGTCATTTGTGTCCC
TTTTCCAATAGTTTTATGCCACATAAGTATTTTCACTCTTAATTTCAATAATTTTATCCTGAAAA
AAATCAAATTACAATTAAAATCC
Found at i:12037092 original size:51 final size:51
Alignment explanation
Indices: 12037032--12037134 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
12037022 CTTTTCTCAA
12037032 TGGGGAAATGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTT
1 TGGGGAAATGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTT
12037083 TGGGGAAATGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTT
1 TGGGGAAATGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTT
12037134 T
1 T
12037135 TCAATAGTTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (51 bp):
TGGGGAAATGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTT
Found at i:12037461 original size:218 final size:218
Alignment explanation
Indices: 12037083--12037516 Score: 805
Period size: 218 Copynumber: 2.0 Consensus size: 218
12037073 GTGTCCCTTT
* *
12037083 TGGGGAAATGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTTCAATAGTTTTAT
1 TGGGGAAAAGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGTTTTAT
*
12037148 GCCACATCAGTATTTTCACTCTTAATTTCAACATTTTCATCTTGGAAAAAATCAAATTACAATTA
66 GCCACATCAGTATTTTCACTCTTAATTTCAACATTTTCATCCTGGAAAAAATCAAATTACAATTA
*
12037213 AAATCCTGAAATTTAGGATGAAATTGTTGATGTGTCATAAAACTATTGGAAAGAGATAATATCCC
131 AAATCCTGAAATTTAGGATGAAATTGTTGATGTGTCATAAAACTATTGAAAAGAGATAATATCCC
*
12037278 TGTTTCATATAATCCTTTCTCAA
196 TGTTTCATACAATCCTTTCTCAA
*
12037301 TGGGGAAAAGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCTCTTTTCCAATAGTTTTAT
1 TGGGGAAAAGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGTTTTAT
12037366 GCCACATCAGTATTTTCACTCTTAATTTCAACATTTTCATCCTGGAAAAAATCAAATTACAATTA
66 GCCACATCAGTATTTTCACTCTTAATTTCAACATTTTCATCCTGGAAAAAATCAAATTACAATTA
12037431 AAATCCTGAAATTTAGGATGAAATTGTTGATGTGTCATAAAACTATTGAAAAGAGATAATATCCC
131 AAATCCTGAAATTTAGGATGAAATTGTTGATGTGTCATAAAACTATTGAAAAGAGATAATATCCC
*
12037496 TGTTTCATACAATCTTTTCTC
196 TGTTTCATACAATCCTTTCTC
12037517 TATCAATGGG
Statistics
Matches: 209, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
218 209 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (218 bp):
TGGGGAAAAGGATTAAATGAAACAGTGACACCACGTCATTTGTGTCCCTTTTCCAATAGTTTTAT
GCCACATCAGTATTTTCACTCTTAATTTCAACATTTTCATCCTGGAAAAAATCAAATTACAATTA
AAATCCTGAAATTTAGGATGAAATTGTTGATGTGTCATAAAACTATTGAAAAGAGATAATATCCC
TGTTTCATACAATCCTTTCTCAA
Found at i:12050495 original size:17 final size:19
Alignment explanation
Indices: 12050473--12050508 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12050463 CAAAAAAGGG
12050473 AAAT-AAAAGG-CCAAATT
1 AAATAAAAAGGACCAAATT
12050490 AAATAAAAAGGACCAAATT
1 AAATAAAAAGGACCAAATT
12050509 GAAACCTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.17
Consensus pattern (19 bp):
AAATAAAAAGGACCAAATT
Found at i:12051498 original size:20 final size:20
Alignment explanation
Indices: 12051457--12051509 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
12051447 AAATCAAAAT
* *
12051457 TATCGATACCCTTGTCATAG
1 TATCGATACCCTTCTCAAAG
12051477 TATCGATA-CCTTACTCAAAG
1 TATCGATACCCTT-CTCAAAG
12051497 TATC-AGTACCCTT
1 TATCGA-TACCCTT
12051510 GGTGTAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 5 0.18
20 19 0.68
21 4 0.14
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.34
Consensus pattern (20 bp):
TATCGATACCCTTCTCAAAG
Found at i:12053163 original size:27 final size:27
Alignment explanation
Indices: 12053029--12053163 Score: 92
Period size: 27 Copynumber: 5.0 Consensus size: 27
12053019 TTGGCGAATC
* * * * *
12053029 CCAGCTCGCCAAACTAACTAGCGAGCA
1 CCAGCTCACCAAACAAACTGGTGAACA
* * * *
12053056 CTAGCTCACAAAATAGACTGGTGAACA
1 CCAGCTCACCAAACAAACTGGTGAACA
* * **
12053083 CCAACTCGCCAAACAAACTGGCAAAACA
1 CCAGCTCACCAAACAAACTGG-TGAACA
***
12053111 CCAGCTCACCAAACAAACTTACGAACA
1 CCAGCTCACCAAACAAACTGGTGAACA
*
12053138 CTAGCTCACCAAA-AACACTGGTGAAC
1 CCAGCTCACCAAACAA-ACTGGTGAAC
12053164 CCAAATGGTA
Statistics
Matches: 79, Mismatches: 27, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
26 2 0.03
27 56 0.71
28 21 0.27
ACGTcount: A:0.41, C:0.33, G:0.14, T:0.13
Consensus pattern (27 bp):
CCAGCTCACCAAACAAACTGGTGAACA
Found at i:12055444 original size:52 final size:52
Alignment explanation
Indices: 12055380--12055630 Score: 333
Period size: 52 Copynumber: 4.8 Consensus size: 52
12055370 ATTTCACTTT
* * * *
12055380 ATTCATAAACTCACGATGACACATAGCCATCGGACCT-TATAATCCGTAAGGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCT-TAATCCATAAAGG
* *
12055432 ATTCATATACTCACGATGACATAGAGTCATCGGACCTCTTAATCCATAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCATAAAGG
* ** * *
12055484 GTTCATATACTCACGATGACACCCAGTCATCAGACCTCTTAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCATAAAGG
* * *
12055536 ATTCATATACTCACGATGACACTTAGTCATCGGACCTCTTATTCTATAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCATAAAGG
* * *
12055588 TTTCATATACTCACGACGACACTTAGTCATCGGACCTCTTAAT
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAAT
12055631 TTATGGCTCA
Statistics
Matches: 176, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
52 175 0.99
53 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTCTTAATCCATAAAGG
Found at i:12060332 original size:23 final size:23
Alignment explanation
Indices: 12060298--12060718 Score: 551
Period size: 23 Copynumber: 18.3 Consensus size: 23
12060288 CTTATATACA
*
12060298 TGCTT-AATATTAATCTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
12060320 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
* * *
12060343 AGATTAAATATTAATGTGACTTG
1 TGCTTAAATATTAATGTGATTTG
* * *
12060366 TGCATAAGTATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
12060389 TGCTTAAATATAAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
12060412 TGCTTAAATATTAACGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
12060435 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
12060458 TGCTCAAATATTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
12060481 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
12060504 TGCTTAAATATTAATGTAACTTG
1 TGCTTAAATATTAATGTGATTTG
*
12060527 TGCTTAAATATTAATTTGATTT-
1 TGCTTAAATATTAATGTGATTTG
*
12060549 TAGCTCAAATATTAATGTGATTTG
1 T-GCTTAAATATTAATGTGATTTG
*
12060573 TGCTCAAATATTAATGTGATTT-
1 TGCTTAAATATTAATGTGATTTG
*
12060595 TAGCTTAAATATTAATATGATTTG
1 T-GCTTAAATATTAATGTGATTTG
* * *
12060619 TGCTCAAATACTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
12060642 TGCTTAAATACTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
12060665 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
*
12060688 TGATTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
12060711 TGCTTAAA
1 TGCTTAAA
12060719 GAATTAAGAT
Statistics
Matches: 344, Mismatches: 50, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
22 7 0.02
23 335 0.97
24 2 0.01
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.45
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:12060828 original size:36 final size:36
Alignment explanation
Indices: 12060788--12060900 Score: 140
Period size: 36 Copynumber: 3.1 Consensus size: 36
12060778 TGATAACTGT
* *
12060788 TGTGAAAGTGAATATGTGAGTATGTTCTTCATGCCA
1 TGTGAAAGAGAATATGTGGGTATGTTCTTCATGCCA
* * *
12060824 TGTGACAA-AAAATATATGGGTATGCTCTTCATGCCA
1 TGTGA-AAGAGAATATGTGGGTATGTTCTTCATGCCA
*
12060860 TGT-AACAGAGAATATGTGGGTATGTTTTTCATGCCA
1 TGTGAA-AGAGAATATGTGGGTATGTTCTTCATGCCA
12060896 TGTGA
1 TGTGA
12060901 TTGATTATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
34 1 0.02
35 2 0.03
36 58 0.91
37 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (36 bp):
TGTGAAAGAGAATATGTGGGTATGTTCTTCATGCCA
Found at i:12066714 original size:18 final size:18
Alignment explanation
Indices: 12066682--12066725 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
12066672 CGATCACATG
12066682 ACCAGATGCGATCATAAA
1 ACCAGATGCGATCATAAA
* *
12066700 ATCAGATGC-AGTCATATA
1 ACCAGATGCGA-TCATAAA
12066718 ACCAGATG
1 ACCAGATG
12066726 GAGCCAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 1 0.05
18 21 0.95
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.20
Consensus pattern (18 bp):
ACCAGATGCGATCATAAA
Found at i:12073139 original size:16 final size:17
Alignment explanation
Indices: 12073103--12073142 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
12073093 AAGGAAAAGA
*
12073103 AAAGAAAAGGAACGGAC
1 AAAGAAAAGGAACGCAC
12073120 -AAGAAAAGGAA-GCAC
1 AAAGAAAAGGAACGCAC
12073135 AAAGAAAA
1 AAAGAAAA
12073143 AAAAAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 18 0.86
ACGTcount: A:0.65, C:0.10, G:0.25, T:0.00
Consensus pattern (17 bp):
AAAGAAAAGGAACGCAC
Found at i:12090966 original size:29 final size:28
Alignment explanation
Indices: 12090933--12091346 Score: 155
Period size: 29 Copynumber: 14.2 Consensus size: 28
12090923 CAAAACTACG
*
12090933 ATTTTTGGATACCTAGGGGTAAAATGGTA
1 ATTTTTGGA-ACTTAGGGGTAAAATGGTA
* * * *
12090962 ATTTTTAGAAGTTCGAGGGTAAAATGATA
1 ATTTTTGGAACTTAG-GGGTAAAATGGTA
* * *
12090991 ATTTTTGGACATTTCGGGGGCAAAATGGTA
1 ATTTTTGGA-ACTT-AGGGGTAAAATGGTA
* * * *
12091021 ATTTTTGGAAAATTTGAGGTCAAAAATGAT-
1 ATTTTTGG-AACTTAGGGGT--AAAATGGTA
*
12091051 ATTTTTGGAAGTTTTA-GGGTAAAATGGTA
1 ATTTTTGGAA--CTTAGGGGTAAAATGGTA
* * *
12091080 ATTTTTGGAAGATTCGGGGTCAAAAATGAT-
1 ATTTTTGGAA-CTTAGGGGT--AAAATGGTA
* * * *
12091110 ATTTTTGAAAGTTTGAGGGTAAATTGGTA
1 ATTTTTGGAACTTAG-GGGTAAAATGGTA
* * * *
12091139 A-TTTTGGAAGATTCGAGGTCAAAGAT-GAA
1 ATTTTTGGAA-CTTAGGGGT-AAA-ATGGTA
* *
12091168 ATTTTTGGAAGTTTCGAGGGTAAAATGGTA
1 ATTTTTGGAA-CTTAG-GGGTAAAATGGTA
* *
12091198 ATTTTTGGAATGTTTGGGGTCAAAGATGG-A
1 ATTTTTGGAA-CTTAGGGGT-AAA-ATGGTA
* * * *
12091228 ATTTTT-GAAGTTCGAGGTCAAATGG-A
1 ATTTTTGGAACTTAGGGGTAAAATGGTA
* * *
12091254 ATTTTTAGAAATTTGAGGGTAAAATGGTA
1 ATTTTTGGAACTTAG-GGGTAAAATGGTA
* * *
12091283 ATTTTTAGAAAGTTTAGGGGCAAAAT-GTA
1 ATTTTT-GGAA-CTTAGGGGTAAAATGGTA
* * *
12091312 ATTTTTGTGAAGTTCGGGGGAAAAAT-GTA
1 ATTTTTG-GAACTT-AGGGGTAAAATGGTA
12091341 ATTTTT
1 ATTTTT
12091347 CAAAAGTTTG
Statistics
Matches: 300, Mismatches: 56, Indels: 58
0.72 0.14 0.14
Matches are distributed among these distances:
26 11 0.04
27 8 0.03
28 47 0.16
29 105 0.35
30 101 0.34
31 28 0.09
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (28 bp):
ATTTTTGGAACTTAGGGGTAAAATGGTA
Found at i:12091023 original size:30 final size:29
Alignment explanation
Indices: 12090953--12091346 Score: 246
Period size: 30 Copynumber: 13.5 Consensus size: 29
12090943 ACCTAGGGGT
* * *
12090953 AAAATGGTAATTTTTAGAAGTTCGAGGGT
1 AAAATGGTAATTTTTGGAATTTCGAGGGC
* *
12090982 AAAATGATAATTTTTGGACATTTCGGGGGC
1 AAAATGGTAATTTTTGGA-ATTTCGAGGGC
*
12091012 AAAATGGTAATTTTTGGAAAATTT-GAGGTC
1 AAAATGGTAATTTTTGG--AATTTCGAGGGC
* * *
12091042 AAAAATGAT-ATTTTTGGAAGTTT-TAGGGT
1 -AAAATGGTAATTTTTGGAA-TTTCGAGGGC
*
12091071 AAAATGGTAATTTTTGGAAGATTCG-GGGTC
1 AAAATGGTAATTTTTGGAA-TTTCGAGGG-C
* * *
12091101 AAAAATGAT-ATTTTTGAAAGTTT-GAGGGT
1 -AAAATGGTAATTTTTGGAA-TTTCGAGGGC
* * *
12091130 AAATTGGTAA-TTTTGGAAGATTCGAGGTC
1 AAAATGGTAATTTTTGGAA-TTTCGAGGGC
* *
12091159 AAAGAT-GAAATTTTTGGAAGTTTCGAGGGT
1 AAA-ATGGTAATTTTTGGAA-TTTCGAGGGC
*
12091189 AAAATGGTAATTTTTGGAATGTTTG-GGGTC
1 AAAATGGTAATTTTTGGAAT-TTCGAGGG-C
* *
12091219 AAAGATGG-AATTTTT-GAAGTTCGAGGTC
1 AAA-ATGGTAATTTTTGGAATTTCGAGGGC
* *
12091247 -AAATGG-AATTTTTAGAAATTT-GAGGGT
1 AAAATGGTAATTTTT-GGAATTTCGAGGGC
* *
12091274 AAAATGGTAATTTTTAGAAAGTTTAG-GGGC
1 AAAATGGTAATTTTT-GGAA-TTTCGAGGGC
* * *
12091304 AAAAT-GTAATTTTTGTGAAGTTCGGGGGA
1 AAAATGGTAATTTTTG-GAATTTCGAGGGC
12091333 AAAAT-GTAATTTTT
1 AAAATGGTAATTTTT
12091347 CAAAAGTTTG
Statistics
Matches: 292, Mismatches: 46, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
26 11 0.04
27 6 0.02
28 43 0.15
29 101 0.35
30 107 0.37
31 23 0.08
32 1 0.00
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (29 bp):
AAAATGGTAATTTTTGGAATTTCGAGGGC
Found at i:12091024 original size:59 final size:59
Alignment explanation
Indices: 12090949--12091346 Score: 357
Period size: 59 Copynumber: 6.8 Consensus size: 59
12090939 GGATACCTAG
* *
12090949 GGGTAAAATGGTAATTTTTAGAAGTTCGAGGGT-AAAATGATAATTTTTGGACA-TTTCGG
1 GGGTAAAATGGTAATTTTTGGAAGTTCGAGGGTCAAAATGATAATTTTTGGA-AGTTT-GA
* * * *
12091008 GGGCAAAATGGTAATTTTTGGAAAATTTGA-GGTCAAAAATGAT-ATTTTTGGAAGTTTTA
1 GGGTAAAATGGTAATTTTTGG-AAGTTCGAGGGTC-AAAATGATAATTTTTGGAAGTTTGA
*
12091067 GGGTAAAATGGTAATTTTTGGAAGATTCG-GGGTCAAAAATGAT-ATTTTTGAAAGTTTGA
1 GGGTAAAATGGTAATTTTTGGAAG-TTCGAGGGTC-AAAATGATAATTTTTGGAAGTTTGA
*
12091126 GGGTAAATTGGTAA-TTTTGGAAGATTCGA-GGTCAAAGATGA-AATTTTTGGAAGTTTCGA
1 GGGTAAAATGGTAATTTTTGGAAG-TTCGAGGGTCAAA-ATGATAATTTTTGGAAGTTT-GA
* * *
12091185 GGGTAAAATGGTAATTTTTGGAATGTTTG-GGGTCAAAGATG-GAATTTTT-GAAGTTCGA
1 GGGTAAAATGGTAATTTTTGGAA-GTTCGAGGGTCAAA-ATGATAATTTTTGGAAGTTTGA
* * * * * *
12091243 -GGTCAAATGG-AATTTTTAGAAATTTGAGGGT-AAAATGGTAATTTTTAGAAAGTTT-A
1 GGGTAAAATGGTAATTTTTGGAAGTTCGAGGGTCAAAATGATAATTTTT-GGAAGTTTGA
* **
12091299 GGGGCAAAAT-GTAATTTTTGTGAAGTTCG-GGGGAAAAATG-TAATTTTT
1 -GGGTAAAATGGTAATTTTTG-GAAGTTCGAGGGTCAAAATGATAATTTTT
12091347 CAAAAGTTTG
Statistics
Matches: 288, Mismatches: 28, Indels: 47
0.79 0.08 0.13
Matches are distributed among these distances:
54 3 0.01
55 14 0.05
56 15 0.05
57 18 0.06
58 63 0.22
59 119 0.41
60 47 0.16
61 9 0.03
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (59 bp):
GGGTAAAATGGTAATTTTTGGAAGTTCGAGGGTCAAAATGATAATTTTTGGAAGTTTGA
Found at i:12091177 original size:88 final size:88
Alignment explanation
Indices: 12090948--12091327 Score: 283
Period size: 89 Copynumber: 4.3 Consensus size: 88
12090938 TGGATACCTA
* * *
12090948 GGGGT-AAA-ATGGTAATTTTTAGAAGTTCGAGGGT-AAA-ATGATAATTTTTGGACA-TTTCGG
1 GGGGTCAAAGATGG-AA-TTTTGGAAGTTCGA-GGTCAAAGATGA-AATTTTTGGA-AGATTCGA
* * *
12091008 GGGCAAAATGGTAATTTTTGGAAAATTT
61 GGGTAAAATGATAATTTTTGGAAAGTTT
* * ** *
12091036 GAGGTCAAAAAT-GATATTTTTGGAAGTTTTAGGGT-AAA-ATGGTAATTTTTGGAAGATTCG-G
1 GGGGTCAAAGATGGA-A-TTTTGGAAGTTCGA-GGTCAAAGAT-GAAATTTTTGGAAGATTCGAG
12091097 GGTCAAAAATGAT-ATTTTT-GAAAGTTT
62 GGT--AAAATGATAATTTTTGGAAAGTTT
* *
12091124 GAGGGT-AAA-TTGGTAATTTTGGAAGATTCGAGGTCAAAGATGAAATTTTTGGAAGTTTCGAGG
1 G-GGGTCAAAGATGG-AATTTTGGAAG-TTCGAGGTCAAAGATGAAATTTTTGGAAGATTCGAGG
* *
12091187 GTAAAATGGTAATTTTTGGAATGTTT
63 GTAAAATGATAATTTTTGGAAAGTTT
* * * *
12091213 GGGGTCAAAGATGGAATTTTTGAAGTTCGAGGTC-AA-ATGGAATTTTTAGAA-ATTTGAGGGTA
1 GGGGTCAAAGATGGAATTTTGGAAGTTCGAGGTCAAAGATGAAATTTTTGGAAGATTCGAGGGTA
* *
12091275 AAATGGTAATTTTTAGAAAGTTT
66 AAATGATAATTTTTGGAAAGTTT
*
12091298 AGGGG-CAAA-ATGTAATTTTTGTGAAGTTCG
1 -GGGGTCAAAGATGGAA-TTTTG-GAAGTTCG
12091328 GGGGAAAAAT
Statistics
Matches: 244, Mismatches: 27, Indels: 44
0.77 0.09 0.14
Matches are distributed among these distances:
84 5 0.02
85 38 0.16
86 25 0.10
87 22 0.09
88 64 0.26
89 77 0.32
90 13 0.05
ACGTcount: A:0.33, C:0.04, G:0.27, T:0.36
Consensus pattern (88 bp):
GGGGTCAAAGATGGAATTTTGGAAGTTCGAGGTCAAAGATGAAATTTTTGGAAGATTCGAGGGTA
AAATGATAATTTTTGGAAAGTTT
Found at i:12091353 original size:29 final size:28
Alignment explanation
Indices: 12091247--12091359 Score: 102
Period size: 29 Copynumber: 3.9 Consensus size: 28
12091237 GTTCGAGGTC
* * *
12091247 AAATGGAATTTTTAGAAA-TTTGAGGGTA
1 AAATGTAATTTTTA-AAAGTTTGGGGGAA
* *
12091275 AAATGGTAATTTTTAGAAAGTTTAGGGGCA
1 AAAT-GTAATTTTTA-AAAGTTTGGGGGAA
** *
12091305 AAATGTAATTTTTGTGAAGTTCGGGGGAA
1 AAATGTAATTTTT-AAAAGTTTGGGGGAA
12091334 AAATGTAATTTTTCAAAAGTTTGGGG
1 AAATGTAATTTTT-AAAAGTTTGGGG
12091360 CCTTTTGGGT
Statistics
Matches: 69, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 4 0.06
29 54 0.78
30 11 0.16
ACGTcount: A:0.35, C:0.03, G:0.27, T:0.35
Consensus pattern (28 bp):
AAATGTAATTTTTAAAAGTTTGGGGGAA
Found at i:12092496 original size:3 final size:3
Alignment explanation
Indices: 12092476--12092509 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
12092466 TTTTTTTCAG
*
12092476 TTA TTA ATA TTAA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
12092510 AAGTCATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:12093270 original size:17 final size:18
Alignment explanation
Indices: 12093247--12093288 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
12093237 GCTTTTATTT
*
12093247 ATTTAAATTT-AGAATAA
1 ATTTAAATTTGAAAATAA
*
12093264 TTTTAAATTTGAAAATAA
1 ATTTAAATTTGAAAATAA
12093282 ATTTAAA
1 ATTTAAA
12093289 AAATGGGTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
ATTTAAATTTGAAAATAA
Found at i:12100569 original size:138 final size:139
Alignment explanation
Indices: 12100156--12100846 Score: 821
Period size: 138 Copynumber: 5.0 Consensus size: 139
12100146 ACATGGAGAA
* * **
12100156 AATTAATATATGAATTTGATTCATACAAAATATTAATCGTATATATTTTATCAAAATT-ATTAAT
1 AATTAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTTTA-CCGAATTGATTAAT
* * * * * *
12100220 ATAAATAGTTATAATAATTAATTTCGGTCAAAATTTAAAAGACATGAAAATTAATATTCTTTTAG
65 ATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTCG
*
12100285 -AAAGAATAT
130 AAAAGAACAT
* * * *
12100294 AATTAATATATGAAATTGATTCATAG-AAAATATTAA-T-TATATATTTTGCCAAATTTATTAAT
1 AATTAATATATGAATTTGATTCAT-GCAAAATATTAATTGTATATATTTTACCGAATTGATTAAT
* * * *
12100356 ATAAACAGTTATA-TAAATCATTT-AGGTCAAAATATAAAAGACTTGAAAATTAATATTC-TTTC
65 ATAAACAATTATATTAATTAATTTCA-GTCAAAATATAAAAGACATGAAAATTAATATTCTTTTC
* *
12100418 GGATAGAACAT
129 GAAAAGAACAT
12100429 AATTAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTTTACCGAATTGATTAATA
1 AATTAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTTTACCGAATTGATTAATA
* * * * * *
12100494 TAAACGATTATATTCATTCATTTCAGTCAAAATATAAAAAACAAGAATATTAATATT-TTTTCGA
66 TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTCGA
*
12100558 AAATAACAT
131 AAAGAACAT
** * * * * *
12100567 AATTAATATATGAATTTGATTTGTACAAAATGTTACTTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTTTACCGAATTGATTAATA
* * * *
12100632 TAAACAATTATATTAATTAATTT-TGATCAAAATATAAAAGACATGGAAATTAATATTGTTTTGG
66 TAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAAGACATGAAAATTAATATTCTTTTCG
*
12100696 AAAA-AATAT
130 AAAAGAACAT
* * *
12100705 AATTAATATTTGAATTCGATTCATGCAAAATATTTATTGTATATATTTTACCGAATTGATTAATA
1 AATTAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTTTACCGAATTGATTAATA
* * * * *
12100770 CAAAAAATTATATTTATTAATTTCAGTCAAATTATAAAAGACATGAAAATTAATATTCTTTT-GG
66 TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTCGA
*
12100834 AAAGAATAT
131 AAAGAACAT
12100843 AATT
1 AATT
12100847 CATTTTTCTA
Statistics
Matches: 475, Mismatches: 64, Indels: 28
0.84 0.11 0.05
Matches are distributed among these distances:
134 5 0.01
135 85 0.18
136 29 0.06
137 38 0.08
138 307 0.65
139 11 0.02
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (139 bp):
AATTAATATATGAATTTGATTCATGCAAAATATTAATTGTATATATTTTACCGAATTGATTAATA
TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTCGA
AAAGAACAT
Found at i:12103918 original size:15 final size:16
Alignment explanation
Indices: 12103874--12103918 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 16
12103864 CAGCAATTTA
12103874 TTCTTCTTTTTCTTTCCT
1 TTCTTCTTTTTC--TCCT
12103892 TTCTTCTTTTTCTCCT
1 TTCTTCTTTTTCTCCT
*
12103908 TT-TTGTTTTTC
1 TTCTTCTTTTTC
12103919 AAGTGACTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 6 0.23
18 12 0.46
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.73
Consensus pattern (16 bp):
TTCTTCTTTTTCTCCT
Done.