Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008973.1 Hibiscus syriacus cultivar Beakdansim tig00112319_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2070395
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 11
Found at i:862079 original size:52 final size:52
Alignment explanation
Indices: 862019--862350 Score: 583
Period size: 52 Copynumber: 6.4 Consensus size: 52
862009 CGATCGTTGG
862019 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
** *
862071 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCATTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
862123 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* * *
862175 AGATTATTGTTCGAGCTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTAAGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
*
862227 AGATTATTTTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
* *
862279 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGTCTCGTAGGA
1 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
862331 AGATTATTGTTCGAGTTCTA
1 AGATTATTGTTCGAGTTCTA
862351 TACTCCCTAA
Statistics
Matches: 264, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 264 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (52 bp):
AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGA
Found at i:862153 original size:28 final size:28
Alignment explanation
Indices: 862069--862153 Score: 79
Period size: 28 Copynumber: 3.2 Consensus size: 28
862059 AGACCCGTAG
862069 GAAGATTATTGTTCGAGTTCTAGTCCCT
1 GAAGATTATTGTTCGAGTTCTAGTCCCT
** ** * **
862097 GAAGAAAATTGGGC-A-TTCTCGT--AG
1 GAAGATTATTGTTCGAGTTCTAGTCCCT
862121 GAAGATTATTGTTCGAGTTCTAGTCCCT
1 GAAGATTATTGTTCGAGTTCTAGTCCCT
862149 GAAGA
1 GAAGA
862154 AAATTGGGCA
Statistics
Matches: 39, Mismatches: 14, Indels: 8
0.64 0.23 0.13
Matches are distributed among these distances:
24 10 0.26
25 1 0.03
26 12 0.31
27 1 0.03
28 15 0.38
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (28 bp):
GAAGATTATTGTTCGAGTTCTAGTCCCT
Found at i:862159 original size:28 final size:28
Alignment explanation
Indices: 862024--862159 Score: 78
Period size: 28 Copynumber: 5.1 Consensus size: 28
862014 GTTGGAGATT
862024 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
1 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
* **
862052 ATTG---G-G--C-AGACCCGTAGGAAGATT
1 ATTGTTCGAGTTCTAGTCCC-T--GAAGAAA
862076 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
1 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
** * ** **
862104 ATTGGGC-A-TTCTCGT--AGGAAGATT
1 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
862128 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
1 ATTGTTCGAGTTCTAGTCCCTGAAGAAA
862156 ATTG
1 ATTG
862160 GGCAGACCCG
Statistics
Matches: 74, Mismatches: 20, Indels: 28
0.61 0.16 0.23
Matches are distributed among these distances:
21 5 0.07
22 2 0.03
24 20 0.27
25 2 0.03
26 12 0.16
27 2 0.03
28 24 0.32
30 2 0.03
31 5 0.07
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (28 bp):
ATTGTTCGAGTTCTAGTCCCTGAAGAAA
Found at i:862415 original size:156 final size:153
Alignment explanation
Indices: 862019--862400 Score: 462
Period size: 156 Copynumber: 2.5 Consensus size: 153
862009 CGATCGTTGG
* * * * * * * *
862019 AGATTATTGTTCGAGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCG
1 AGATTATTGTTCGAGCTATACTCCCTAAAGAAAATGGGGCAAACCCGTAAGAAG---ATTGTTTG
** *
862084 AGTTCTAGTCCCTGAAGAAAATTGGGCATTCTCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
63 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
862149 GAAGAAAATTGGGCAGACCCGTAGGA
128 GAAGAAAATTGGGCAGACCCGTAGGA
* * * * * * *
862175 AGATTATTGTTCGAGCTCTAGTCCTTGAAGAAAATTGGGCAGACCCGTAAGAAGATTATTTTTCG
1 AGATTATTGTTCGAGCTATACTCCCTAAAGAAAATGGGGCAAACCCGTAAGAAGA-T-TGTTT-G
862240 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
63 AGTTCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCT
* *
862305 GAAGAAAATTGGGCAGTCTCGTAGGA
128 GAAGAAAATTGGGCAGACCCGTAGGA
* **
862331 AGATTATTGTTCGAGTTCTATACTCCCTAAAG-AGA-GGGAGCAAACCCGTTTGAAGATTGTTTG
1 AGATTATTGTTCGAG--CTATACTCCCTAAAGAAAATGGG-GCAAACCCGTAAGAAGATTGTTTG
862394 AGTTCTA
63 AGTTCTA
862401 TACTCCCTAA
Statistics
Matches: 200, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
153 1 0.00
154 9 0.05
155 7 0.04
156 156 0.78
157 16 0.08
158 11 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (153 bp):
AGATTATTGTTCGAGCTATACTCCCTAAAGAAAATGGGGCAAACCCGTAAGAAGATTGTTTGAGT
TCTAGTCCCTGAAGAAAATTGGGCAGACCCGTAGGAAGATTATTGTTCGAGTTCTAGTCCCTGAA
GAAAATTGGGCAGACCCGTAGGA
Found at i:862458 original size:55 final size:54
Alignment explanation
Indices: 862336--863161 Score: 600
Period size: 55 Copynumber: 15.4 Consensus size: 54
862326 TAGGAAGATT
* *
862336 ATTGTTCGAGTTCTATACTCCCTAAAG--AGAGGGAGCAAACCC-GTTT-GAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTAGAAG
*
862386 ATTGTTTGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTT-AGAAG
* * *
862441 ATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTCAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTT-AGAAG
* *
862496 ATTGTTCGAGTTATATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTT-AGAAG
* * * * * *
862551 ATTGTTCGAGTTTTATACTCCTTGAAGAAAAAAGGAGCGAACCC-GTTT-GAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTAGAAG
* ** *
862603 ATT-TTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTT-TAGAAG
* * * * * ***
862657 A-TATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACTCGTAAGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCAT-TTTAGAAG
* * * *
862711 A-TGTTCGAGTTCCATACTCCCTAAAG--AGAGAGAGCGAACTC-GTTT-GAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTAGAAG
* * * * *
862760 ATTGTTCGAGTTCTATACTTCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTT-TAGAAG
* * * * * * *
862815 A-TGTCCGAGTTTTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAAAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTT-TAGAAG
* * * * ***
862869 A-TATTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGAAG
1 ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCAT-TTTAGAAG
* * * * *** *
862923 ATTGTTCGAG-TCTCATACTCTCTGAAGGAATAGGGAGCAGAAATGATAGTT-GAAG
1 ATTGTTCGAGTTCT-ATACTCCCTAAAGAAAGAGGGAGC-GAACCCAT-TTTAGAAG
* * * * ** *
862978 ATTGTTCGAG-TCTTATACTCTCTAAAGGAATAGGGA--AAAGACATGATTGTTGAAG
1 ATTGTTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAACCCAT--TT-TAGAAG
* * * * * * * * *
863033 ATTGTTCAAG-TCTTATACTCTCTGAAGGAATAGGGAACAAACACGAGTGTT-GAAG
1 ATTGTTCGAGTTC-TATACTCCCTAAAGAAAGAGGGAGCGAAC-CCA-TTTTAGAAG
* * **
863088 A-TGTTTGAGTTCTATACTCCCTGAAAGAAAGAGGGAACGAACCCATTGGCAGAAG
1 ATTGTTCGAGTTCTATACTCCCT-AAAGAAAGAGGGAGCGAACCCATT-TTAGAAG
* *
863143 ACTGTTCGAGTTCCATACT
1 ATTGTTCGAGTTCTATACT
863162 TCAGGAGCGA
Statistics
Matches: 646, Mismatches: 97, Indels: 60
0.80 0.12 0.07
Matches are distributed among these distances:
49 5 0.01
50 49 0.08
51 35 0.05
52 52 0.08
53 9 0.01
54 185 0.29
55 283 0.44
56 22 0.03
57 4 0.01
58 1 0.00
59 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (54 bp):
ATTGTTCGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTAGAAG
Found at i:862524 original size:110 final size:110
Alignment explanation
Indices: 862336--863161 Score: 684
Period size: 110 Copynumber: 7.7 Consensus size: 110
862326 TAGGAAGATT
* * *
862336 ATTGTTCGAGTTCTATACTCCCT-AA-AGAGAGGGAGCAAACCCGTTT---GAAGATTGTTTGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGAG
* *
862396 TTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCAGAAG
66 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* **
862441 ATTGTTCGAGTTCTATACTCCCTGAAGAAAAAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGAG
* *
862506 TTATATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAG
66 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* * * *
862551 ATTGTTCGAGTTTTATACTCCTTGAAGAAAAAAGGAGCGAACCCGTTT---GAAGATT-TTCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGAG
** *
862612 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGAAGAAG
66 TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* * * **
862657 A-TATCCGAGTTCTATACTCCCT-AGAGAAAGAGGGAGCGAACTCGTAAGAAGAAGA-TGTTCGA
1 ATTGTTCGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGA
* * * * *
862719 GTTCCATACTCCCT-AA-AGAGAGAGAGCGAACTC-GTTT--GAAG
65 GTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
* * * * *
862760 ATTGTTCGAGTTCTATACTTCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAGA-TGTCCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGAG
* * * * *
862824 TTTTATACTCCCT-AGAGAAAGAGGGAGCAAACCCGTTTGAAAAAG
66 TTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTTTAAGAAG
* * **
862869 A-TATTCGAGTTCTATACTCTCTGAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGATTGTTCGAG
1 ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGAG
* * * *** *
862933 -TCTCATACTCTCTGAAGGAATAGGGAGCAGAAATGATAGTT--GAAG
66 TTCT-ATACTCCCTGAAGAAAGAGGGAGC-GAACCCAT-TTTAAGAAG
* * * * ** ** * ** *
862978 ATTGTTCGAG-TCTTATACTCTCTAAAGGAATAGGGA-AAAGACATGATTGTTGAAGATTGTTCA
1 ATTGTTCGAGTTC-TATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTGAAGAAGATTGTTCG
* * * * * * *
863041 AG-TCTTATACTCTCTGAAGGAATAGGGAACAAACACGAGTGTT--GAAG
64 AGTTC-TATACTCCCTGAAGAAAGAGGGAGCGAAC-CCA-TTTTAAGAAG
* * * * * *
863088 A-TGTTTGAGTTCTATACTCCCTGAAAGAAAGAGGGAACGAACCCATTGGCAGAAGACTGTTCGA
1 ATTGTTCGAGTTCTATACTCCCTG-AAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGA
*
863152 GTTCCATACT
65 GTTCTATACT
863162 TCAGGAGCGA
Statistics
Matches: 585, Mismatches: 104, Indels: 59
0.78 0.14 0.08
Matches are distributed among these distances:
103 5 0.01
104 64 0.11
105 62 0.11
106 75 0.13
107 30 0.05
108 71 0.12
109 55 0.09
110 217 0.37
111 6 0.01
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (110 bp):
ATTGTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTGTTCGAG
TTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAAGAAG
Found at i:862685 original size:54 final size:54
Alignment explanation
Indices: 862338--862942 Score: 614
Period size: 54 Copynumber: 11.3 Consensus size: 54
862328 GGAAGATTAT
* * *
862338 TGTTCGAGTTCTATACTCCCTA-A-AGAGAGGGAGCAAACCCGTTTGAAG-A-T
1 TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * **
862388 TGTTTGAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTTCAGAAGA
1 TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* **
862442 TTGTTCGAGTTCTATACTCCCT-GAAGAAAAAGGGAGCGAACCCGTTTTCAGAAGA
1 -TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * **
862497 TTGTTCGAGTTATATACTCCCT-GAAGAAAGAGGGAGCGAACCCATTTTCAGAAGA
1 -TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
862552 TTGTTCGAGTTTTATACT-CCTTGAAGAAAAAAGGAGCGAACCCGTTT---GAAGA
1 -TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* *
862604 TTTTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCTGTTTGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * **
862658 TATCCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACTCGTAAGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * * *
862712 TGTTCGAGTTCCATACTCCCTA-A-AGAGAGAGAGCGAACTCGTTTGAAG-A-T
1 TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
862762 TGTTCGAGTTCTATACTTCCTAAAGAAAGAGGAAGCAAACCCGTTTGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * * *
862816 TGTCCGAGTTTTATACTCCCTAGAGAAAGAGGGAGCAAACCCGTTTGAAAAAGA
1 TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
* * **
862870 TATTCGAGTTCTATACTCTCT-GAAGAAAGAGGGAGCGAACCCGTAAGAAGAAGA
1 TGTTCGAGTTCTATACTCCCTAG-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
862924 TTGTTCGAG-TCTCATACTC
1 -TGTTCGAGTTCT-ATACTC
862943 TCTGAAGGAA
Statistics
Matches: 476, Mismatches: 60, Indels: 33
0.84 0.11 0.06
Matches are distributed among these distances:
50 41 0.09
51 40 0.08
52 69 0.14
53 4 0.01
54 168 0.35
55 154 0.32
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (54 bp):
TGTTCGAGTTCTATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA
Found at i:863458 original size:3 final size:3
Alignment explanation
Indices: 863404--863443 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
863394 GGATTATAAA
863404 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
863444 ATGTTACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:867757 original size:69 final size:69
Alignment explanation
Indices: 867643--867793 Score: 257
Period size: 69 Copynumber: 2.2 Consensus size: 69
867633 TGTGTCTCTC
* *
867643 TTGATGCTCTATGATATTCGAGTGGAGTGATTCAGTGATTCAGAAATGATTGTGCTTGATCAATC
1 TTGATGCTCTATGATATTCGAGTGAAGTGATTCAGTGATTCAGAAATGACTGTGCTTGATCAATC
867708 ACAT
66 ACAT
* * *
867712 TTGATGCTCTATGATCTTCGAGTGAAGTGGTTCAGTGATTTAGAAATGACTGTGCTTGATCAATC
1 TTGATGCTCTATGATATTCGAGTGAAGTGATTCAGTGATTCAGAAATGACTGTGCTTGATCAATC
867777 ACAT
66 ACAT
867781 TTGATGCTCTATG
1 TTGATGCTCTATG
867794 CGATGCGTCG
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 77 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (69 bp):
TTGATGCTCTATGATATTCGAGTGAAGTGATTCAGTGATTCAGAAATGACTGTGCTTGATCAATC
ACAT
Found at i:867874 original size:11 final size:11
Alignment explanation
Indices: 867855--867918 Score: 60
Period size: 11 Copynumber: 5.5 Consensus size: 11
867845 TTTTCTTCAA
867855 TTTTC-CTTTT
1 TTTTCTCTTTT
867865 TTTTCTCTTTTT
1 TTTTCTC-TTTT
867877 ATTTTCTCTTTGCT
1 -TTTTCTCTTT--T
867891 TTTT-TCTCTTT
1 TTTTCTCT-TTT
867902 TTTTCTCTTTT
1 TTTTCTCTTTT
*
867913 TGTTCT
1 TTTTCT
867919 GATTGAATCT
Statistics
Matches: 46, Mismatches: 1, Indels: 13
0.77 0.02 0.22
Matches are distributed among these distances:
10 5 0.11
11 14 0.30
12 13 0.28
13 13 0.28
14 1 0.02
ACGTcount: A:0.02, C:0.19, G:0.03, T:0.77
Consensus pattern (11 bp):
TTTTCTCTTTT
Found at i:867895 original size:14 final size:12
Alignment explanation
Indices: 867861--867913 Score: 65
Period size: 13 Copynumber: 4.3 Consensus size: 12
867851 TCAATTTTCC
867861 TTTTTTTTCTCT
1 TTTTTTTTCTCT
867873 TTTTATTTTCTCT
1 TTTT-TTTTCTCT
867886 TTGCTTTTTTCTC-
1 TT--TTTTTTCTCT
867899 -TTTTTTTCTCT
1 TTTTTTTTCTCT
867910 TTTT
1 TTTT
867914 GTTCTGATTG
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
10 9 0.25
12 8 0.22
13 10 0.28
14 7 0.19
15 2 0.06
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTTCTCT
Found at i:871056 original size:18 final size:19
Alignment explanation
Indices: 871007--871062 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
870997 CAAACGTGAG
871007 AATAATAAATAAAACAAAAA
1 AATAA-AAATAAAACAAAAA
* * *
871027 AATGGAATATAATA-AAAAA
1 AAT-AAAAATAAAACAAAAA
871046 AATAAAAAT-AAACAAAA
1 AATAAAAATAAAACAAAA
871063 TGAATAAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
17 2 0.07
18 8 0.29
19 8 0.29
20 9 0.32
21 1 0.04
ACGTcount: A:0.77, C:0.04, G:0.04, T:0.16
Consensus pattern (19 bp):
AATAAAAATAAAACAAAAA
Found at i:871071 original size:18 final size:17
Alignment explanation
Indices: 871014--871072 Score: 52
Period size: 18 Copynumber: 3.5 Consensus size: 17
871004 GAGAATAATA
*
871014 AATAAAACAAAAAAATGG
1 AATAAAATAAAAAAAT-G
*
871032 AATATAAT-AAAAAA--
1 AATAAAATAAAAAAATG
871046 AATAAAAATAAACAAAATG
1 AAT-AAAATAAA-AAAATG
871065 AATAAAAT
1 AATAAAAT
871073 GTTAAAAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
14 3 0.09
15 4 0.12
16 2 0.06
17 10 0.30
18 11 0.33
19 3 0.09
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (17 bp):
AATAAAATAAAAAAATG
Found at i:871289 original size:18 final size:18
Alignment explanation
Indices: 871268--871323 Score: 53
Period size: 16 Copynumber: 3.2 Consensus size: 18
871258 TAAGAAAAAC
871268 AAATAATAGAAAAAAATA
1 AAATAATAGAAAAAAATA
*
871286 AAATAA-AG-TAAAAATA
1 AAATAATAGAAAAAAATA
* * *
871302 TAATATATATAAATAAATA
1 AAATA-ATAGAAAAAAATA
871321 AAA
1 AAA
871324 ACAAAAATAG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
16 11 0.38
17 3 0.10
18 7 0.24
19 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAATAATAGAAAAAAATA
Found at i:871427 original size:2 final size:2
Alignment explanation
Indices: 871420--871466 Score: 60
Period size: 2 Copynumber: 23.0 Consensus size: 2
871410 AAAAATTATC
*
871420 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TGA TA TGA GA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA TA TA
871463 TA TA
1 TA TA
871467 ATAAAAATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
1 1 0.03
2 36 0.90
3 3 0.08
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (2 bp):
TA
Found at i:871479 original size:25 final size:23
Alignment explanation
Indices: 871425--871524 Score: 64
Period size: 22 Copynumber: 4.3 Consensus size: 23
871415 TTATCTATAT
* *
871425 ATATATATATATATATATATATAATG
1 ATATA-ATATATATA-ATA-AAAATA
871451 ATATGAGATATATATAATAAAAATA
1 ATAT-A-ATATATATAATAAAAATA
* **
871476 ATATAATATAAATAA-AAAAGGA
1 ATATAATATATATAATAAAAATA
* *
871498 ATATAGTAAATA-AAT-AAAA-A
1 ATATAATATATATAATAAAAATA
871518 ATATAAT
1 ATATAAT
871525 TAAATATATA
Statistics
Matches: 61, Mismatches: 11, Indels: 10
0.74 0.13 0.12
Matches are distributed among these distances:
20 7 0.11
21 5 0.08
22 14 0.23
23 9 0.15
24 1 0.02
25 8 0.13
26 7 0.11
27 10 0.16
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (23 bp):
ATATAATATATATAATAAAAATA
Found at i:871520 original size:20 final size:20
Alignment explanation
Indices: 871484--871522 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
871474 TAATATAATA
*
871484 TAAATAAAAAAGGAATATAG
1 TAAATAAAAAAGAAATATAG
871504 TAAATAAATAAA-AAATATA
1 TAAATAAA-AAAGAAATATA
871523 ATTAAATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (20 bp):
TAAATAAAAAAGAAATATAG
Found at i:871976 original size:17 final size:17
Alignment explanation
Indices: 871939--871981 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
871929 TAACTATTTT
*
871939 TAGAATCCTATTAGCAA
1 TAGAATCCTAATAGCAA
871956 TAGAATCCTAAT-GCAA
1 TAGAATCCTAATAGCAA
*
871972 CTAGACTCCT
1 -TAGAATCCT
871982 TGCTCGGTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (17 bp):
TAGAATCCTAATAGCAA
Found at i:874395 original size:18 final size:18
Alignment explanation
Indices: 874372--874418 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
874362 TCAATATATT
874372 TTAATATTTTTATTTTT-A
1 TTAATATTTTT-TTTTTCA
874390 TTAATAATTTATTTTTTTCA
1 TTAAT-ATTT-TTTTTTTCA
874410 TTAA-ATTTT
1 TTAATATTTT
874419 ATACATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.04
18 9 0.35
19 9 0.35
20 7 0.27
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TTAATATTTTTTTTTTCA
Found at i:874420 original size:19 final size:19
Alignment explanation
Indices: 874372--874413 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
874362 TCAATATATT
874372 TTAAT-ATTT-TTATTTTTA
1 TTAATAATTTATT-TTTTTA
874390 TTAATAATTTATTTTTTTCA
1 TTAATAATTTATTTTTTT-A
874410 TTAA
1 TTAA
874414 ATTTTATACA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
18 5 0.24
19 9 0.43
20 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTAATAATTTATTTTTTTA
Found at i:874714 original size:26 final size:26
Alignment explanation
Indices: 874674--874729 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
874664 CATTCAAATC
874674 GGATTTGAGTAGGGTTATTTTGAGTT
1 GGATTTGAGTAGGGTTATTTTGAGTT
*
874700 GGATTTGAGTCGGGTTATTTTGAGTT
1 GGATTTGAGTAGGGTTATTTTGAGTT
874726 GGAT
1 GGAT
874730 CATTTCGGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.18, C:0.02, G:0.36, T:0.45
Consensus pattern (26 bp):
GGATTTGAGTAGGGTTATTTTGAGTT
Found at i:879116 original size:15 final size:15
Alignment explanation
Indices: 879096--879177 Score: 121
Period size: 15 Copynumber: 5.5 Consensus size: 15
879086 TTCCAGAAAA
879096 TGAATTACTGGAATT
1 TGAATTACTGGAATT
879111 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
879126 TGAATTACTGGAAAA
1 TGAATTACTGGAATT
879141 TGAATTACTGGAATT
1 TGAATTACTGGAATT
**
879156 TGAATT-CTGGAAAA
1 TGAATTACTGGAATT
879170 TGAATTAC
1 TGAATTAC
879178 ATTTCTGTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
14 12 0.20
15 48 0.80
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (15 bp):
TGAATTACTGGAATT
Found at i:879130 original size:30 final size:30
Alignment explanation
Indices: 879096--879177 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
879086 TTCCAGAAAA
**
879096 TGAATTACTGGAATTTGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
879126 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGGAATT
879156 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
879178 ATTTCTGTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 16 0.32
30 34 0.68
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGGAATT
Found at i:879155 original size:45 final size:44
Alignment explanation
Indices: 879091--879177 Score: 147
Period size: 45 Copynumber: 2.0 Consensus size: 44
879081 TGGTTTTCCA
**
879091 GAAAATGAATTACTGGAATTTGAATTACTGGAATTTGAATTACTG
1 GAAAATGAATTACTGGAATTTGAATT-CTGGAAAATGAATTACTG
879136 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
1 GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTAC
879178 ATTTCTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 14 0.35
45 26 0.65
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (44 bp):
GAAAATGAATTACTGGAATTTGAATTCTGGAAAATGAATTACTG
Found at i:879183 original size:20 final size:20
Alignment explanation
Indices: 879160--879229 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
879150 GGAATTTGAA
879160 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
879180 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
879200 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
879220 TTCTGGAAAA
1 TTCTGGAAAA
879230 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:879451 original size:28 final size:27
Alignment explanation
Indices: 879396--879460 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 27
879386 TTTACTAAAA
*
879396 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAATATTAT
879424 TCATTATTAAATATATAAAAAA-ATTTAT
1 T-ATTATTAAATATATAAAAAATA-TTAT
879452 TATATATTA
1 TAT-TATTA
879461 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.09
28 24 0.73
29 6 0.18
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAATATTAT
Found at i:879478 original size:60 final size:60
Alignment explanation
Indices: 879395--879554 Score: 149
Period size: 57 Copynumber: 2.7 Consensus size: 60
879385 CTTTACTAAA
* * *
879395 ATATTATTGAAATATATAA-ATAATATTAT-TCATTATTAAATATATAAAAAAATTTATTAT
1 ATATTATTAAAATA-AAAATATAATATTATAT-ATTATTAAATATATAAAAAAATTGATTAT
* *
879455 ATATTATTAAAATAAAAATATAATATCT-TATATTATT--AT-TATAATATAATTGATTAT
1 ATATTATTAAAATAAAAATATAATAT-TATATATTATTAAATATATAAAAAAATTGATTAT
*
879512 -T-TTATATAATATTAAAAATATAATATTATATTATTA-TAAATAT
1 ATATTAT-TAA-AATAAAAATATAATATTATA-TATTATTAAATAT
879555 TAATAAATAT
Statistics
Matches: 84, Mismatches: 6, Indels: 20
0.76 0.05 0.18
Matches are distributed among these distances:
55 4 0.05
56 5 0.06
57 33 0.39
58 7 0.08
59 5 0.06
60 28 0.33
61 2 0.02
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (60 bp):
ATATTATTAAAATAAAAATATAATATTATATATTATTAAATATATAAAAAAATTGATTAT
Found at i:879538 original size:26 final size:26
Alignment explanation
Indices: 879467--879593 Score: 64
Period size: 31 Copynumber: 4.7 Consensus size: 26
879457 ATTATTAAAA
* *
879467 TAAAAATATAATATCTTATATTATTAT
1 TAAAAATATAATATTTTATA-TAATAT
* *
879494 TATAATATAATTGATTATTTTATATAATAT
1 TA-AAAAT-A-T-AATATTTTATATAATAT
879524 TAAAAATATAATATTATATTATTATAAATAT
1 TAAAAATATAATA-T-T-TTA-TAT-AATAT
* * *
879555 TAATAA-AT-ATATTTTAAAT-ATTT
1 TAAAAATATAATATTTTATATAATAT
*
879578 TAATAAT-TAATATTTT
1 TAAAAATATAATATTTT
879594 GATGAAAATG
Statistics
Matches: 80, Mismatches: 9, Indels: 25
0.70 0.08 0.22
Matches are distributed among these distances:
23 10 0.12
24 7 0.09
25 2 0.03
26 6 0.08
27 5 0.06
28 7 0.09
29 11 0.14
30 13 0.16
31 19 0.24
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (26 bp):
TAAAAATATAATATTTTATATAATAT
Found at i:879541 original size:22 final size:23
Alignment explanation
Indices: 879516--879559 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
879506 GATTATTTTA
879516 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
879538 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
879560 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:879554 original size:31 final size:31
Alignment explanation
Indices: 879414--879565 Score: 105
Period size: 31 Copynumber: 5.1 Consensus size: 31
879404 AAATATATAA
* *
879414 ATAATATTAT-TCATTATTAAATATATAAAAAA
1 ATAATATTATATTATTA-TAAATAT-TAAAAAT
*
879446 AT-TTATTATA-TATTATTAAA-A-TAAAAAT
1 ATAATATTATATTATTA-TAAATATTAAAAAT
*
879474 ATAATATCT-TA-TATTAT---TATT-ATAAT
1 ATAATAT-TATATTATTATAAATATTAAAAAT
*
879500 ATAAT-TGATTATT-TTATATAATATTAAAAAT
1 ATAATATTA-TATTATTATA-AATATTAAAAAT
879531 ATAATATTATATTATTATAAATATTAATAAAT
1 ATAATATTATATTATTATAAATATTAA-AAAT
879563 ATA
1 ATA
879566 TTTTAAATAT
Statistics
Matches: 96, Mismatches: 8, Indels: 32
0.71 0.06 0.24
Matches are distributed among these distances:
25 1 0.01
26 16 0.17
27 2 0.02
28 9 0.09
29 10 0.10
30 6 0.06
31 36 0.38
32 16 0.17
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (31 bp):
ATAATATTATATTATTATAAATATTAAAAAT
Found at i:879564 original size:22 final size:22
Alignment explanation
Indices: 879453--879576 Score: 64
Period size: 21 Copynumber: 5.7 Consensus size: 22
879443 AAAATTTATT
**
879453 ATATATTATTAAAATAAAAATATA
1 ATATATTA-T-AAATATTAATATA
* * *
879477 ATATCTTAT-ATTATTATTATA
1 ATATATTATAAATATTAATATA
* *
879498 ATATAATTGAT-TAT-TTTATAT-
1 ATAT-ATT-ATAAATATTAATATA
* *
879519 A-ATATTAAAAATA-TAATATT
1 ATATATTATAAATATTAATATA
879539 ATATTATTATAAATATTAATA-A
1 ATA-TATTATAAATATTAATATA
*
879561 ATATATTTTAAATATT
1 ATATATTATAAATATT
879577 TTAATAATTA
Statistics
Matches: 76, Mismatches: 16, Indels: 19
0.68 0.14 0.17
Matches are distributed among these distances:
18 1 0.01
19 10 0.13
20 3 0.04
21 26 0.34
22 20 0.26
23 9 0.12
24 7 0.09
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (22 bp):
ATATATTATAAATATTAATATA
Found at i:879824 original size:42 final size:42
Alignment explanation
Indices: 879765--879884 Score: 222
Period size: 42 Copynumber: 2.9 Consensus size: 42
879755 ATGAATTACA
*
879765 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
879807 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
879849 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
879885 TTCAGGGAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 76 1.00
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:880177 original size:54 final size:53
Alignment explanation
Indices: 880099--880719 Score: 762
Period size: 54 Copynumber: 11.6 Consensus size: 53
880089 TCTCATTATA
* * * * * * *
880099 AATTTGTGGGTTGTACACTTAGTGCCTATACGGTCATTCATAAACACATTATG
1 AATTCGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* * *
880152 AATTACGTGGGTTGTACACTTAGTGCCTATACGGTCGTTCATCAACATATGATA
1 AATT-CGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* ** *
880206 AATTCCATGGGTTGCACACATAGTGTTTATACGGTTGTTCATCAACATATGATG
1 AATT-CGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* * *
880260 AATTCTGTGGGTTGGACACATAGTGCCTATACGGTCGTTCATCAACAAAAGATG
1 AATTC-GTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
*
880314 AATTTCGTGGGTTGCACACATAGTGCCTATACAGTCGTTCATCAACATATGATG
1 AA-TTCGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* *
880368 AATTCTGTGGGTTGCACACATAATGCCTATATGGTCGTTCAT-AACATATGATG
1 AATTC-GTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
** *
880421 AATTCCAAGGGTTGCACACAAAGTGCCTATA--GTCGTTCATCAACATATGATG
1 AATT-CGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* * *
880473 AATTACATGGGTTACACACATAGTGCCTATACGGTCGTTCATCAACATATGATA
1 AATT-CGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* * ** *
880527 AATTTTGTGGGTTGCACACATAATGTATATACGGTCATTCATCAACATATGATG
1 AA-TTCGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* *
880581 AATTCCGTGGGTTGCACACATAGTGCTTATACTGTCGTTCATCAACATATGATG
1 AATT-CGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
** * *
880635 AATTATTCAGGTTGTACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
1 AATTCGT-GGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
* * *
880689 AATTTCATAGGTTGCATACATAGTGCCTATA
1 AA-TTCGTGGGTTGCACACATAGTGCCTATA
880720 GTACACTTAG
Statistics
Matches: 495, Mismatches: 61, Indels: 23
0.85 0.11 0.04
Matches are distributed among these distances:
51 9 0.02
52 38 0.08
53 47 0.09
54 393 0.79
55 8 0.02
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (53 bp):
AATTCGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATG
Found at i:882868 original size:89 final size:89
Alignment explanation
Indices: 882707--882975 Score: 360
Period size: 89 Copynumber: 3.0 Consensus size: 89
882697 AAACTACATC
* * *
882707 CGTAGGGCTTACCCTCAGCACACAGCAAAAAGGGAGCCAACCTAAGGATATTCCTTGGGGCCTAT
1 CGTAGGG-TTACCCTAAGCACACAGC--AAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTAT
*
882772 GGGCCTACCCAAGAGTATCCTTAGATT
63 GGGCCTACCCAAGGGTATCCTTAGATT
* *
882799 CGTAGGGTTACCCTAAGCACATAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATAGG
1 CGTAGGGTTACCCTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGG
*
882864 CCTACCCAAGGGTATCCTTA-AAT
66 CCTACCCAAGGGTATCCTTAGATT
* * * * * * *
882887 CTATAAGGTTACCTTAAGCACACAGCAAAGGGAACCAACCTAAAGATATGTCTTAGGTCCTATGG
1 C-GTAGGGTTACCCTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGG
*
882952 GCCTACCCAAGGGTATCTTTAGAT
65 GCCTACCCAAGGGTATCCTTAGAT
882976 CTGTATGGTC
Statistics
Matches: 157, Mismatches: 18, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
88 3 0.02
89 130 0.83
90 1 0.01
91 16 0.10
92 7 0.04
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.22
Consensus pattern (89 bp):
CGTAGGGTTACCCTAAGCACACAGCAAAGGGAACCAACCTAAGGATATGCCTTGGGGCCTATGGG
CCTACCCAAGGGTATCCTTAGATT
Found at i:889797 original size:54 final size:54
Alignment explanation
Indices: 889718--890222 Score: 547
Period size: 54 Copynumber: 9.4 Consensus size: 54
889708 TTCTTTGGAG
* * * * * *
889718 TGCACACGTAGAGCCGATACGGTCATTCAT-AATCTCATTATGAATTATGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATCT-ATGATGAATTCTGTGGGT
* * * * * * * *
889772 TGTACACTTAGTGCCTATATGGTCATTCAT-AAACACATTATGAATTATGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATC-TATGATGAATTCTGTGGGT
*
889826 TGCACACTTAGTGCCTATACGGTCGTTCATCAA-CATATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATC-TATGATGAATTCTGTGGGT
* * * ** * *
889880 TGTAGATATAGTGCCTATACTCTCTTTCATCAATATATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATCTATGATGAATTCTGTGGGT
* * * *
889934 TGCACACATAGTTCCTATACGGTCGTTCATTAA-CATATGATGAATTTTGTAGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATC-TATGATGAATTCTGTGGGT
* * *
889988 TACACACATAGTGCCTATATGGTCATTCATCAA-CATATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATC-TATGATGAATTCTGTGGGT
* *
890042 TGCACACATAGTGCCTATACGATCGTTCATCAATATATGATGAATT-TCGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATCTATGATGAATTCT-GTGGGT
* * **
890096 TGCACACATAGTGCCTAAACGATCGTTCATCAAAATATGATGAATTCTGTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATCTATGATGAATTCTGTGGGT
* *
890150 TGCACACATTGTGCCTATACGGTCGTTCATCAATATATGATGAATTAC-GTGGGT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAATCTATGATGAATT-CTGTGGGT
* *
890204 TGTACACATAGAGCCTATA
1 TGCACACATAGTGCCTATA
890223 GTACACTTAG
Statistics
Matches: 390, Mismatches: 53, Indels: 16
0.85 0.12 0.03
Matches are distributed among these distances:
53 1 0.00
54 385 0.99
55 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (54 bp):
TGCACACATAGTGCCTATACGGTCGTTCATCAATCTATGATGAATTCTGTGGGT
Found at i:889892 original size:108 final size:108
Alignment explanation
Indices: 889718--890222 Score: 608
Period size: 108 Copynumber: 4.7 Consensus size: 108
889708 TTCTTTGGAG
* * * * * * *
889718 TGCACACGTAGAGCCGATACGGTCATTCAT-AATC-TCATTATGAATTATGTGGGTTGTACACTT
1 TGCACACATAGTGCCTATACGGTCGTTCATCAA-CAT-ATGATGAATTCTGTGGGTTGTACACAT
* * *
889781 AGTGCCTATATGGTCATTCATAAACACATTATGAATTATGTGGGT
64 AGTGCCTATATGGTCATTCATAAACATATGATGAATTCTGTGGGT
* * *
889826 TGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTAGATATAG
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTACACATAG
* * * *
889891 TGCCTATACT-CTCTTTCATCAATATATGATGAATTCTGTGGGT
66 TGCCTATA-TGGTCATTCATAAACATATGATGAATTCTGTGGGT
* * * * **
889934 TGCACACATAGTTCCTATACGGTCGTTCATTAACATATGATGAATTTTGTAGGTTACACACATAG
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTACACATAG
*
889999 TGCCTATATGGTCATTCATCAACATATGATGAATTCTGTGGGT
66 TGCCTATATGGTCATTCATAAACATATGATGAATTCTGTGGGT
* * *
890042 TGCACACATAGTGCCTATACGATCGTTCATCAATATATGATGAATT-TCGTGGGTTGCACACATA
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCT-GTGGGTTGTACACATA
* * * *
890106 GTGCCTAAACGATCGTTCATCAAA-ATATGATGAATTCTGTGGGT
65 GTGCCTATATGGTCATTCAT-AAACATATGATGAATTCTGTGGGT
* *
890150 TGCACACATTGTGCCTATACGGTCGTTCATCAATATATGATGAATTAC-GTGGGTTGTACACATA
1 TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-CTGTGGGTTGTACACATA
*
890214 GAGCCTATA
65 GTGCCTATA
890223 GTACACTTAG
Statistics
Matches: 345, Mismatches: 44, Indels: 16
0.85 0.11 0.04
Matches are distributed among these distances:
107 2 0.01
108 337 0.98
109 6 0.02
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.34
Consensus pattern (108 bp):
TGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTACACATAG
TGCCTATATGGTCATTCATAAACATATGATGAATTCTGTGGGT
Found at i:890024 original size:162 final size:161
Alignment explanation
Indices: 889757--890222 Score: 639
Period size: 162 Copynumber: 2.9 Consensus size: 161
889747 TAATCTCATT
* * * * * *
889757 ATGAATTATGTGGGTTGTACACTTAGTGCCTATATGGTCATTCATAAACACATTATGAATTATGT
1 ATGAATT-TGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATAAACATATGATGAATTATGT
* * *
889822 GGGTTGCACACTTAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTAGAT
65 GGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTACAC
** *
889887 ATAGTGCCTATACTCTCTTTCATCAATATATG
130 ATAGTGCCTATACGATCGTTCATCAATATATG
* * *
889919 ATGAATTCTGTGGGTTGCACACATAGTTCCTATACGGTCGTTCATTAACATATGATGAATTTTGT
1 ATGAATT-TGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATAAACATATGATGAATTATGT
* * * * *
889984 AGGTTACACACATAGTGCCTATATGGTCATTCATCAACATATGATGAATTCTGTGGGTTGCACAC
65 GGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTACAC
890049 ATAGTGCCTATACGATCGTTCATCAATATATG
130 ATAGTGCCTATACGATCGTTCATCAATATATG
* * *
890081 ATGAATTTCGTGGGTTGCACACATAGTGCCTAAACGATCGTTCATCAAA-ATATGATGAATTCTG
1 ATGAATTT-GTGGGTTGCACACATAGTGCCTATACGGTCGTTCAT-AAACATATGATGAATTATG
* *
890145 TGGGTTGCACACATTGTGCCTATACGGTCGTTCATCAATATATGATGAATTAC-GTGGGTTGTAC
64 TGGGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATT-CTGTGGGTTGTAC
*
890209 ACATAGAGCCTATA
128 ACATAGTGCCTATA
890223 GTACACTTAG
Statistics
Matches: 267, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
161 1 0.00
162 263 0.99
163 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (161 bp):
ATGAATTTGTGGGTTGCACACATAGTGCCTATACGGTCGTTCATAAACATATGATGAATTATGTG
GGTTGCACACATAGTGCCTATACGGTCGTTCATCAACATATGATGAATTCTGTGGGTTGTACACA
TAGTGCCTATACGATCGTTCATCAATATATG
Found at i:892512 original size:34 final size:32
Alignment explanation
Indices: 892459--892528 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
892449 CCTTACAAAC
* *
892459 TCCCTAGTTTTTCCGGGCTAAACTATAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
892491 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
892525 TCCC
1 TCCC
892529 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:892768 original size:20 final size:22
Alignment explanation
Indices: 892743--892782 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
892733 AGTCGTATAT
892743 AGCCG-TTGGGGATG-TTTTAG
1 AGCCGTTTGGGGATGATTTTAG
892763 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
892783 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.15, C:0.10, G:0.38, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTAG
Found at i:892837 original size:21 final size:21
Alignment explanation
Indices: 892811--892852 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
892801 CCAGAATGGG
*
892811 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
892832 GGGAATTGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
892853 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:892914 original size:21 final size:21
Alignment explanation
Indices: 892888--892930 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
892878 CTGTTGAACA
892888 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
892909 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
892930 G
1 G
892931 ACATTCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:892981 original size:21 final size:21
Alignment explanation
Indices: 892956--893034 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
892946 GCTTTAGACA
*
892956 GGGGGAATCGGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
892977 GGGGGTATCTGTA--CCC---
1 GGGGGAATCTGTACCCCCTGG
*
892993 -GGGGTATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
893013 GGGGGAATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
893034 G
1 G
893035 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
19 3 0.06
21 31 0.63
ACGTcount: A:0.13, C:0.28, G:0.39, T:0.20
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:892996 original size:15 final size:15
Alignment explanation
Indices: 892978--893007 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
892968 ACCCCCTGGG
892978 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
892993 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
893008 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:893013 original size:36 final size:36
Alignment explanation
Indices: 892957--893028 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
892947 CTTTAGACAG
*
892957 GGGGAATCGGTACCCCCTGGGGGGGTATCTGTACCC
1 GGGGAATCGGTACCCCCTGGGGGGGAATCTGTACCC
* *
892993 GGGGTATCTGTACCCCCTGGGGGGGAATCTGTACCC
1 GGGGAATCGGTACCCCCTGGGGGGGAATCTGTACCC
893029 CCTGGGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.14, C:0.28, G:0.38, T:0.21
Consensus pattern (36 bp):
GGGGAATCGGTACCCCCTGGGGGGGAATCTGTACCC
Found at i:894432 original size:22 final size:22
Alignment explanation
Indices: 894389--894436 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
894379 GTTATTTTTT
*
894389 TAAAATAAAAATAAGAATTAAA
1 TAAAATAAAAATAAGAAATAAA
*
894411 TAAAAT-AAAATAATTAAATAAA
1 TAAAATAAAAATAA-GAAATAAA
894433 TAAA
1 TAAA
894437 TAATTTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 7 0.30
22 16 0.70
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
TAAAATAAAAATAAGAAATAAA
Found at i:896025 original size:11 final size:9
Alignment explanation
Indices: 895992--896051 Score: 65
Period size: 9 Copynumber: 7.0 Consensus size: 9
895982 AACATAAACA
895992 TTTT-TTCT
1 TTTTATTCT
896000 TTTTATTCT
1 TTTTATTCT
* *
896009 TTTT-CTAT
1 TTTTATTCT
896017 TTTTATTCT
1 TTTTATTCT
896026 TTTT-TTCAT
1 TTTTATTC-T
896035 TTTTATTCT
1 TTTTATTCT
896044 TTTT-TTCT
1 TTTTATTCT
896052 CTTGCTATTT
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
8 17 0.39
9 24 0.55
10 3 0.07
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTATTCT
Found at i:896029 original size:18 final size:18
Alignment explanation
Indices: 895992--896050 Score: 95
Period size: 17 Copynumber: 3.4 Consensus size: 18
895982 AACATAAACA
895992 TTTTTTC-TTTTTATTCT
1 TTTTTTCATTTTTATTCT
*
896009 TTTTCT-ATTTTTATTCT
1 TTTTTTCATTTTTATTCT
896026 TTTTTTCATTTTTATTCT
1 TTTTTTCATTTTTATTCT
896044 TTTTTTC
1 TTTTTTC
896051 TCTTGCTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 20 0.53
18 18 0.47
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTCATTTTTATTCT
Found at i:897717 original size:9 final size:9
Alignment explanation
Indices: 897679--898132 Score: 115
Period size: 9 Copynumber: 48.9 Consensus size: 9
897669 AAAGGTAATG
897679 AAAATAAAAT
1 AAAAT-AAAT
*
897689 AAAATAAAA
1 AAAATAAAT
897698 ACAAATGAAAT
1 A-AAAT-AAAT
897709 -AAATAAAAT
1 AAAAT-AAAT
* * *
897718 GAGATAAAG
1 AAAATAAAT
*
897727 AAAACAAA-
1 AAAATAAAT
*
897735 AAAGATGAAGT
1 AAA-AT-AAAT
897746 AAAGATAAA-
1 AAA-ATAAAT
*
897755 AAAATAAAG
1 AAAATAAAT
897764 AAAATAAAGAT
1 AAAAT-AA-AT
897775 AAAGA-AAAT
1 AAA-ATAAAT
*
897784 AAAAGAAAT
1 AAAATAAAT
897793 AAAAATAAACAT
1 -AAAAT-AA-AT
897805 AAACATAAAGAT
1 AAA-AT-AA-AT
*
897817 AAAGATATA-
1 AAA-ATAAAT
* *
897826 AAAACAAAG
1 AAAATAAAT
897835 AAAAT-AAT
1 AAAATAAAT
897843 AACAATATACAT
1 AA-AATA-A-AT
**
897855 TTAATAAAT
1 AAAATAAAT
897864 -AAATAAAT
1 AAAATAAAT
* *
897872 AAATAAAAAC
1 AAA-ATAAAT
897882 AAGAATACAAT
1 AA-AATA-AAT
897893 AAAAATAAAT
1 -AAAATAAAT
897903 -AAATAAAT
1 AAAATAAAT
897911 AAAATAAAT
1 AAAATAAAT
*
897920 -AAAT--GT
1 AAAATAAAT
*
897926 AAAGGT-AAT
1 AAA-ATAAAT
897935 AAAAATAAAGT
1 -AAAATAAA-T
*
897946 AAAGATAAAG
1 AAA-ATAAAT
897956 AAAATAAA-
1 AAAATAAAT
*
897964 AAGATAAA-
1 AAAATAAAT
897972 AAAATAAA-
1 AAAATAAAT
*
897980 AATAAAAAAT
1 AA-AATAAAT
**
897990 AAAGATGTA-
1 AAA-ATAAAT
*
897999 AAAATAAAG
1 AAAATAAAT
*** *
898008 ACGGTAAAG
1 AAAATAAAT
*
898017 AAAATAAAG
1 AAAATAAAT
898026 AAAAT-AAT
1 AAAATAAAT
* *
898034 AATATACAT
1 AAAATAAAT
*
898043 ATAATAAAT
1 AAAATAAAT
898052 -AAATAAAT
1 AAAATAAAT
*
898060 AAAA-ACA-
1 AAAATAAAT
*
898067 AGAA-AAAT
1 AAAATAAAT
*
898075 AAAAAGAAAT
1 -AAAATAAAT
898085 -AAATAAAT
1 AAAATAAAT
898093 AAAATAAAT
1 AAAATAAAT
*
898102 ATAAAGGAAAT
1 A-AAA-TAAAT
898113 AAAAATAAAAAT
1 -AAAAT--AAAT
898125 AAAATAAA
1 AAAATAAA
898133 AAATAATAGT
Statistics
Matches: 336, Mismatches: 60, Indels: 97
0.68 0.12 0.20
Matches are distributed among these distances:
6 1 0.00
7 7 0.02
8 77 0.23
9 119 0.35
10 59 0.18
11 49 0.15
12 24 0.07
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (9 bp):
AAAATAAAT
Found at i:897719 original size:14 final size:14
Alignment explanation
Indices: 897680--897730 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
897670 AAGGTAATGA
*
897680 AAATAAAATAAAAT
1 AAATAAAATGAAAT
*
897694 AAAAACAAATGAAAT
1 AAATA-AAATGAAAT
*
897709 AAATAAAATGAGAT
1 AAATAAAATGAAAT
*
897723 AAAGAAAA
1 AAATAAAA
897731 CAAAAAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 19 0.61
15 12 0.39
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.16
Consensus pattern (14 bp):
AAATAAAATGAAAT
Found at i:897777 original size:29 final size:28
Alignment explanation
Indices: 897679--898132 Score: 113
Period size: 29 Copynumber: 15.7 Consensus size: 28
897669 AAAGGTAATG
*
897679 AAAATAAAATAAA-ATAAAAACAAATGAAA
1 AAAATAAAATAAAGATAAAGA-AAAT-AAA
* * *
897708 TAAATAAAAT-GAGATAAAGAAAACAAA
1 AAAATAAAATAAAGATAAAGAAAATAAA
* *
897735 AAAGATGAAGTAAAGATAAA-AAAATAAA
1 AAA-ATAAAATAAAGATAAAGAAAATAAA
* *
897763 GAAAATAAAGATAAAGA-AAATAAAAGAAATA
1 -AAAATAAA-ATAAAGATAAAGAAAA-TAA-A
* *
897794 AAAATAAACATAAACATAAAGATAAAGATATA
1 AAAATAAA-ATAAAGATAAAG--AAA-ATAAA
* *
897826 AAAA-CAAAGAAA-ATAATA-ACAATATACATTTA
1 AAAATAAAATAAAGATAA-AGA-AA-ATA-A---A
* *
897858 ATAAAT-AAAT-AA-ATAAATAAAA-ACA
1 A-AAATAAAATAAAGATAAAGAAAATAAA
* * * *
897883 AGAATACAATAAAAATAAA-TAAATAAA
1 AAAATAAAATAAAGATAAAGAAAATAAA
**
897910 TAAAAT-AAATAAATG-TAAAGGTAAT--A
1 -AAAATAAAATAAA-GATAAAGAAAATAAA
*
897936 AAAATAAAGTAAAGATAAAGAAAATAAAA
1 AAAATAAAATAAAGATAAAGAAAAT-AAA
* *
897965 AGATAAAAAAATAAAAAT-AA-AAAATAAA
1 A-A-AATAAAATAAAGATAAAGAAAATAAA
* **
897993 GATGTAAAAATAAAGACGGTAAAGAAAATAAA
1 AAAAT-AAAATAAAGA---TAAAGAAAATAAA
* *
898025 GAAAATAATAATATACATATAATAAATAAATAAA
1 -AAAATAA-AATA-A-AGATAA-AGA-AAATAAA
* * * *
898059 TAAAA-ACAAGAAAAATAAAAAGAAATAAA
1 -AAAATAAAATAAAGATAAAGA-AAATAAA
* * *
898088 TAAATAAAATAAATATAAAGGAAATAAA
1 AAAATAAAATAAAGATAAAGAAAATAAA
*
898116 AATA-AAAATAAA-ATAAA
1 AAAATAAAATAAAGATAAA
898133 AAATAATAGT
Statistics
Matches: 316, Mismatches: 61, Indels: 99
0.66 0.13 0.21
Matches are distributed among these distances:
24 3 0.01
25 11 0.03
26 25 0.08
27 41 0.13
28 50 0.16
29 68 0.22
30 31 0.10
31 23 0.07
32 30 0.09
33 19 0.06
34 13 0.04
35 2 0.01
ACGTcount: A:0.72, C:0.03, G:0.07, T:0.18
Consensus pattern (28 bp):
AAAATAAAATAAAGATAAAGAAAATAAA
Found at i:897792 original size:24 final size:23
Alignment explanation
Indices: 897709--897801 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 23
897699 CAAATGAAAT
*
897709 AAATAAAATGAGATAAAGA-AAACA
1 AAATAAAA-GAAATAAAGATAAA-A
* *
897733 AAA-AAGATGAAGTAAAGATAAAA
1 AAATAA-AAGAAATAAAGATAAAA
897756 AAAT-AAAGAAAATAAAGATAAAGA
1 AAATAAAAG-AAATAAAGATAAA-A
*
897780 AAATAAAAGAAATAAAAATAAA
1 AAATAAAAGAAATAAAGATAAA
897802 CATAAACATA
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
22 2 0.04
23 27 0.47
24 24 0.42
25 4 0.07
ACGTcount: A:0.74, C:0.01, G:0.12, T:0.13
Consensus pattern (23 bp):
AAATAAAAGAAATAAAGATAAAA
Found at i:897866 original size:4 final size:4
Alignment explanation
Indices: 897857--897923 Score: 70
Period size: 4 Copynumber: 16.8 Consensus size: 4
897847 ATATACATTT
897857 AATA AATA AATA AATA AATA AA-A ACA-A GAATA CAAT- AA-A AATA AATA
1 AATA AATA AATA AATA AATA AATA A-ATA -AATA -AATA AATA AATA AATA
897904 AATA AATAA AATA AATA AAT
1 AATA AAT-A AATA AATA AAT
897924 GTAAAGGTAA
Statistics
Matches: 56, Mismatches: 1, Indels: 12
0.81 0.01 0.17
Matches are distributed among these distances:
3 6 0.11
4 41 0.73
5 9 0.16
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (4 bp):
AATA
Found at i:897914 original size:17 final size:17
Alignment explanation
Indices: 897860--898138 Score: 105
Period size: 17 Copynumber: 16.8 Consensus size: 17
897850 TACATTTAAT
897860 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
*
897877 AAA-ACAA-GAATACAATAA
1 AAATA-AATAAATA-AAT-A
897895 AAATAAATAAATAAATA
1 AAATAAATAAATAAATA
*
897912 AAATAAATAAAT--GTA
1 AAATAAATAAATAAATA
*
897927 AAGGT-AAT-AA-AAATA
1 AA-ATAAATAAATAAATA
* * *
897942 AAGT-AA-AGATAAAGA
1 AAATAAATAAATAAATA
897957 AAATAAA-AAGATAAA-A
1 AAATAAATAA-ATAAATA
897973 AAATAAAAATAAA-AAATA
1 AAAT--AAATAAATAAATA
* *
897991 AAGATGTAA-AAATAAAGA
1 AA-AT-AAATAAATAAATA
*** * *
898009 CGGTAAAGAAAATAAAGA
1 AAATAAA-TAAATAAATA
*
898027 AAAT-AATAATATACATA
1 AAATAAATAA-ATAAATA
*
898044 TAATAAATAAATAAATA
1 AAATAAATAAATAAATA
*
898061 AAA-ACAA-GAA-AAATAA
1 AAATA-AATAAATAAAT-A
*
898077 AAAGAAATAAATAAATA
1 AAATAAATAAATAAATA
**
898094 AAATAAAT--ATAAAGG
1 AAATAAATAAATAAATA
*
898109 AAATAAA-AATAAAAATA
1 AAATAAATAA-ATAAATA
898126 AAATAAA-AAATAA
1 AAATAAATAAATAA
898139 TAGTAAATAT
Statistics
Matches: 198, Mismatches: 34, Indels: 61
0.68 0.12 0.21
Matches are distributed among these distances:
14 7 0.04
15 34 0.17
16 30 0.15
17 77 0.39
18 41 0.21
19 9 0.05
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (17 bp):
AAATAAATAAATAAATA
Found at i:897949 original size:20 final size:21
Alignment explanation
Indices: 897916--897963 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
897906 TAAATAAAAT
*
897916 AAATAAATGTAAAGGTAATA-A
1 AAATAAATGTAAAGATAA-AGA
897937 AAATAAA-GTAAAGATAAAGA
1 AAATAAATGTAAAGATAAAGA
897957 AAATAAA
1 AAATAAA
897964 AAGATAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 1 0.04
20 17 0.68
21 7 0.28
ACGTcount: A:0.69, C:0.00, G:0.12, T:0.19
Consensus pattern (21 bp):
AAATAAATGTAAAGATAAAGA
Found at i:897954 original size:26 final size:25
Alignment explanation
Indices: 897907--897965 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
897897 ATAAATAAAT
*
897907 AAAT-AAAATAAATAAATGTAAAGG
1 AAATAAAAATAAATAAATGTAAAGA
*
897931 TAATAAAAATAAAGTAAA-GATAAAGA
1 AAATAAAAATAAA-TAAATG-TAAAGA
897957 AAATAAAAA
1 AAATAAAAA
897966 GATAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 3 0.10
25 9 0.31
26 17 0.59
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (25 bp):
AAATAAAAATAAATAAATGTAAAGA
Found at i:903284 original size:3 final size:3
Alignment explanation
Indices: 903276--903334 Score: 109
Period size: 3 Copynumber: 19.7 Consensus size: 3
903266 ATGAATGAAT
903276 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
*
903324 GAA GAA AAA GA
1 GAA GAA GAA GA
903335 TGAAAGAAAG
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:904979 original size:15 final size:15
Alignment explanation
Indices: 904959--904999 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
904949 AAGTACATTG
904959 TTTCTTTTTTTCCTT
1 TTTCTTTTTTTCCTT
*
904974 TTTCTTTTTTTTCTT
1 TTTCTTTTTTTCCTT
*
904989 TGT-TTTTTTTC
1 TTTCTTTTTTTC
905000 TAAAAGAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (15 bp):
TTTCTTTTTTTCCTT
Found at i:907270 original size:18 final size:18
Alignment explanation
Indices: 907247--907282 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
907237 ACAGTTGTAT
907247 TAATACTGCTCATTAATA
1 TAATACTGCTCATTAATA
907265 TAATACTGCTCATTAATA
1 TAATACTGCTCATTAATA
907283 GTCAGTGGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.06, T:0.39
Consensus pattern (18 bp):
TAATACTGCTCATTAATA
Found at i:913326 original size:17 final size:17
Alignment explanation
Indices: 913301--913334 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
913291 CGTTAGTAAA
*
913301 CCCCATTTTTTCTTTTC
1 CCCCATTTTTTATTTTC
*
913318 CCCCCTTTTTTATTTTC
1 CCCCATTTTTTATTTTC
913335 TTCCTGCCAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.35, G:0.00, T:0.59
Consensus pattern (17 bp):
CCCCATTTTTTATTTTC
Found at i:921346 original size:32 final size:32
Alignment explanation
Indices: 921311--921370 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
921301 TTTACCTTCT
*
921311 TTTTTTATTG-AATTATATTCACTTTTAATTA
1 TTTTTTATTGTAATTATATTCAATTTTAATTA
* *
921342 TTTTTTATTGTATTTATATTGAATTTTAA
1 TTTTTTATTGTAATTATATTCAATTTTAA
921371 ATATATGAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 10 0.40
32 15 0.60
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.63
Consensus pattern (32 bp):
TTTTTTATTGTAATTATATTCAATTTTAATTA
Found at i:925831 original size:17 final size:17
Alignment explanation
Indices: 925809--925847 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
925799 ATTTACCATA
*
925809 TGATATTTTATATAAT-T
1 TGATATGTTATA-AATGT
925826 TGATATGTTATAAATGT
1 TGATATGTTATAAATGT
925843 TGATA
1 TGATA
925848 CATCTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.36, C:0.00, G:0.13, T:0.51
Consensus pattern (17 bp):
TGATATGTTATAAATGT
Found at i:926991 original size:30 final size:30
Alignment explanation
Indices: 926957--927019 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
926947 CTGCAAAACA
*
926957 TCTATTAAAAACTCTGTTCTGCTTTACTTT
1 TCTATTAAAAACTCTGTTCAGCTTTACTTT
926987 TCTATTAAAAACTCTGTTCAGCTTTACTTT
1 TCTATTAAAAACTCTGTTCAGCTTTACTTT
927017 TCT
1 TCT
927020 TAGTGCAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.21, G:0.06, T:0.49
Consensus pattern (30 bp):
TCTATTAAAAACTCTGTTCAGCTTTACTTT
Found at i:941078 original size:21 final size:21
Alignment explanation
Indices: 941052--941107 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
941042 GCAAATAAGT
941052 AAATCGCAATGCGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
*
941073 AAATCGCAATGTGAATTTGGA
1 AAATCGCAATGCGAATTTGGA
941094 AAATCGCAATGCGA
1 AAATCGCAATGCGA
941108 TACTGACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (21 bp):
AAATCGCAATGCGAATTTGGA
Found at i:941120 original size:41 final size:41
Alignment explanation
Indices: 941093--941170 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
941083 GTGAATTTGG
* *
941093 AAAATCGCAATGCGATACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAATGCGATAATAC
*
941134 AAAATCGCAACGCGATACTGACTTTCGCAATGCGATA
1 AAAATCGCAACGCGATACTGACTATCGCAATGCGATA
941171 CTGACTTTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAATGCGATAATAC
Found at i:941121 original size:20 final size:20
Alignment explanation
Indices: 941096--941230 Score: 137
Period size: 20 Copynumber: 6.7 Consensus size: 20
941086 AATTTGGAAA
*
941096 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
941116 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
941137 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
941157 TTCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
941177 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
* * * *
941197 TTCGAAACGAGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
941217 ATCGCAACGAGATA
1 ATCGCAACGCGATA
941231 ATACAGAATC
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 2 0.02
20 79 0.81
21 15 0.15
22 2 0.02
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:941799 original size:20 final size:20
Alignment explanation
Indices: 941774--941849 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 20
941764 CAACAGGGAA
* *
941774 ATCGCAACACGAAAATGATT
1 ATCGCAACGCGAAAATGACT
*
941794 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
941814 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGACT
* *
941834 ATCGCATCGAGAAAAT
1 ATCGCAACGCGAAAAT
941850 CGCAATGCGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.39, C:0.22, G:0.21, T:0.17
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:941909 original size:19 final size:19
Alignment explanation
Indices: 941868--941932 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
941858 GAAATGAAAA
941868 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
941884 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
941901 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
941920 TCGCATTGTGATT
1 TCGCATTGCGATT
941933 CTTTCGTTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
14 11 0.26
16 3 0.07
17 3 0.07
19 26 0.60
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.48
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:941963 original size:20 final size:20
Alignment explanation
Indices: 941938--941976 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
941928 TGATTCTTTC
941938 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
941958 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
941977 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:943573 original size:41 final size:42
Alignment explanation
Indices: 943519--943610 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
943509 CCTCTTCAAC
* *
943519 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
943560 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
943602 GATGACAGG
1 GATGACAGG
943611 TGAGTCGGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 20 0.44
42 25 0.56
ACGTcount: A:0.21, C:0.15, G:0.42, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:943575 original size:21 final size:21
Alignment explanation
Indices: 943546--943606 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
943536 GAACGGTGGG
*
943546 GGGGACTCTTGAGGGATGATA
1 GGGGACTCTTGAGGGATGAGA
* **
943567 GGGGCCTCTTGAACGATTG-GA
1 GGGGACTCTTGAGGGA-TGAGA
943588 GGGGACTCTTGAGGGATGA
1 GGGGACTCTTGAGGGATGA
943607 CAGGTGAGTC
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
20 2 0.06
21 27 0.87
22 2 0.06
ACGTcount: A:0.21, C:0.13, G:0.43, T:0.23
Consensus pattern (21 bp):
GGGGACTCTTGAGGGATGAGA
Found at i:943996 original size:20 final size:20
Alignment explanation
Indices: 943973--944047 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
943963 AAACTTACTT
943973 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
943993 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
944013 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGGCTA
*
944033 TCGCAATGC-GAAATG
1 TCGCAACGCGGAAATG
944048 AAAATTGCAA
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 6 0.11
20 48 0.89
ACGTcount: A:0.31, C:0.24, G:0.29, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGGCTA
Found at i:943997 original size:40 final size:40
Alignment explanation
Indices: 943953--944038 Score: 120
Period size: 40 Copynumber: 2.1 Consensus size: 40
943943 TAGTTTACTT
* *
943953 TCGCAACAC-GAAACTTACTTTCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAA-TGACTATCGCAACGCGGAAATGGCTA
* *
943993 TCGCAACGCGGAAATGGCTATCGCAACGCGGAAATGGCTA
1 TCGCAACACGGAAATGACTATCGCAACGCGGAAATGGCTA
944033 TCGCAA
1 TCGCAA
944039 TGCGAAATGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 37 0.90
41 4 0.10
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.17
Consensus pattern (40 bp):
TCGCAACACGGAAATGACTATCGCAACGCGGAAATGGCTA
Found at i:944057 original size:19 final size:19
Alignment explanation
Indices: 944032--944090 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
944022 GGAAATGGCT
944032 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
944051 ATTGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
944065 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
944084 ATCGCAA
1 ATCGCAA
944091 CGACAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.19, G:0.19, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:944071 original size:14 final size:14
Alignment explanation
Indices: 944048--944106 Score: 55
Period size: 14 Copynumber: 3.9 Consensus size: 14
944038 ATGCGAAATG
*
944048 AAAATTGCAACGAC
1 AAAATCGCAACGAC
*
944062 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
944081 AAAATCGCAACGAC
1 AAAATCGCAACGAC
944095 AAAATCGCAACG
1 AAAATCGCAACG
944107 CGAAACACAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
14 21 0.57
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.27
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:944120 original size:33 final size:33
Alignment explanation
Indices: 944032--944111 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
944022 GGAAATGGCT
*
944032 ATCGCAATGCGAAATGAAAATTGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
944065 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
944098 ATCGCAACGCGAAA
1 ATCGCAATGCGAAA
944112 CACAAATCGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:944181 original size:20 final size:19
Alignment explanation
Indices: 944147--944201 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
944137 TTGCGATTTT
*
944147 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
944166 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
944186 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
944202 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:944759 original size:18 final size:18
Alignment explanation
Indices: 944736--944783 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
944726 CGGGTCGATC
944736 AGGTGATGGCTCTAGGTG
1 AGGTGATGGCTCTAGGTG
* *
944754 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTAGGTG
944772 AGGTGATGGCTC
1 AGGTGATGGCTC
944784 CCGAAGTGGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.17, C:0.12, G:0.44, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTAGGTG
Found at i:946438 original size:22 final size:22
Alignment explanation
Indices: 946411--946454 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
946401 GATGGAGATA
946411 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
946433 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
946455 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:946782 original size:20 final size:20
Alignment explanation
Indices: 946711--946784 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
946701 TCGTGTTGCA
946711 TTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
** * ** *
946731 TTCGATTTGCGATAGTTGAAA
1 TTCGCGTTGCGAT-TTTCCAT
*
946752 ATCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATTTTCCAT
*
946772 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
946785 AGTCTACAGT
Statistics
Matches: 38, Mismatches: 15, Indels: 2
0.69 0.27 0.04
Matches are distributed among these distances:
20 25 0.66
21 13 0.34
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCCAT
Found at i:946804 original size:22 final size:22
Alignment explanation
Indices: 946777--946847 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
946767 TCCATTTCGT
946777 GTTGCGATAGTCTACAGTTGTC
1 GTTGCGATAGTCTACAGTTGTC
** * *
946799 GTTGCGATTTTCCA-AATT-T-
1 GTTGCGATAGTCTACAGTTGTC
*
946818 GTTGCGATAGTTTACAGTTGTC
1 GTTGCGATAGTCTACAGTTGTC
946840 GTTGCGAT
1 GTTGCGAT
946848 TTTCCAAATT
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 10 0.27
20 4 0.11
21 4 0.11
22 19 0.51
ACGTcount: A:0.18, C:0.15, G:0.25, T:0.41
Consensus pattern (22 bp):
GTTGCGATAGTCTACAGTTGTC
Found at i:946823 original size:19 final size:19
Alignment explanation
Indices: 946799--946866 Score: 66
Period size: 19 Copynumber: 3.4 Consensus size: 19
946789 TACAGTTGTC
946799 GTTGCGATTTTCCAAATTT
1 GTTGCGATTTTCCAAATTT
* *
946818 GTTGCGATAGTTTAC-AGTTGT
1 GTTGCGAT--TTTCCAAATT-T
*
946839 CGTTGCGATTTTCCAAATTC
1 -GTTGCGATTTTCCAAATTT
946859 GTTGCGAT
1 GTTGCGAT
946867 AGTTAAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
19 16 0.41
20 7 0.18
21 8 0.21
22 8 0.21
ACGTcount: A:0.19, C:0.16, G:0.22, T:0.43
Consensus pattern (19 bp):
GTTGCGATTTTCCAAATTT
Found at i:946870 original size:41 final size:40
Alignment explanation
Indices: 946715--946870 Score: 179
Period size: 41 Copynumber: 3.8 Consensus size: 40
946705 GTTGCATTCG
* * * * *
946715 CGTTGCGATTTTCCATTTCGATTTGCGATAGTTGAAAATCG-
1 CGTTGCGATTTTCCAATTCG--TTGCGATAGTTTACAGTTGT
* *
946756 CGTTGCGATTTTCCATTTCGTGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATTTTCCAATTC--GTTGCGATAGTTTACAGTTGT
*
946798 CGTTGCGATTTTCCAAATTTGTTGCGATAGTTTACAGTTGT
1 CGTTGCGATTTTCC-AATTCGTTGCGATAGTTTACAGTTGT
946839 CGTTGCGATTTTCCAAATTCGTTGCGATAGTT
1 CGTTGCGATTTTCC-AATTCGTTGCGATAGTT
946871 AAAAAAAAGA
Statistics
Matches: 102, Mismatches: 9, Indels: 8
0.86 0.08 0.07
Matches are distributed among these distances:
41 84 0.82
42 14 0.14
43 4 0.04
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (40 bp):
CGTTGCGATTTTCCAATTCGTTGCGATAGTTTACAGTTGT
Found at i:946957 original size:6 final size:6
Alignment explanation
Indices: 946946--946970 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
946936 GACACGTATT
946946 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
946971 GACGAGACGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:947535 original size:6 final size:6
Alignment explanation
Indices: 947509--947550 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
947499 TCTCGTCTTG
*
947509 GGTCG- GGTCG- GGTCG- GGTCGT GGTCGT GGTCGT GGTTGT GGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGT
947551 AATACGTGTC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
5 15 0.43
6 20 0.57
ACGTcount: A:0.00, C:0.14, G:0.55, T:0.31
Consensus pattern (6 bp):
GGTCGT
Found at i:947541 original size:12 final size:11
Alignment explanation
Indices: 947509--947544 Score: 56
Period size: 10 Copynumber: 3.3 Consensus size: 11
947499 TCTCGTCTTG
947509 GGTCGGGTCG-
1 GGTCGGGTCGT
947519 GGTCGGGTCGT
1 GGTCGGGTCGT
947530 GGTCGTGGTCGT
1 GGTCG-GGTCGT
947542 GGT
1 GGT
947545 TGTGGTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 10 0.42
11 5 0.21
12 9 0.38
ACGTcount: A:0.00, C:0.17, G:0.56, T:0.28
Consensus pattern (11 bp):
GGTCGGGTCGT
Found at i:947654 original size:19 final size:19
Alignment explanation
Indices: 947630--947699 Score: 77
Period size: 19 Copynumber: 3.5 Consensus size: 19
947620 TTTTTTAACT
947630 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* **
947649 ATCGCAACGACAATTGTAGACT
1 ATCGCAACG--AATT-TGGAAA
*
947671 ATCGCAACAAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
947690 ATCGCAACGA
1 ATCGCAACGA
947700 CACTGTAGAC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 21 0.52
20 4 0.10
21 4 0.10
22 11 0.28
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:947718 original size:40 final size:41
Alignment explanation
Indices: 947627--947718 Score: 159
Period size: 41 Copynumber: 2.3 Consensus size: 41
947617 CTTTTTTTTA
* *
947627 ACTATCGCAACGAATTTGGAAAATCGCAACGACAATTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
947668 ACTATCGCAACAAATTTGGAAAATCGCAACGAC-ACTGTAG
1 ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
947708 ACTATCGCAAC
1 ACTATCGCAAC
947719 GCGAAATAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 17 0.35
41 32 0.65
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (41 bp):
ACTATCGCAACAAATTTGGAAAATCGCAACGACAACTGTAG
Found at i:947731 original size:41 final size:40
Alignment explanation
Indices: 947627--947739 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 40
947617 CTTTTTTTTA
* * *
947627 ACTATCGCAACGAATTTGGAAAATCGCAACGACAATTGTAG
1 ACTATCGCAAC-AAATTAGAAAATCGCAACGACAACTGTAG
*
947668 ACTATCGCAACAAATTTGGAAAATCGCAACGAC-ACTGTAG
1 ACTATCGCAACAAA-TTAGAAAATCGCAACGACAACTGTAG
947708 ACTATCGCAACGCGAAA-TAGAAAATCGCAACG
1 ACTATCGCAA--C-AAATTAGAAAATCGCAACG
947740 CGATTTTCAA
Statistics
Matches: 65, Mismatches: 3, Indels: 8
0.86 0.04 0.11
Matches are distributed among these distances:
40 18 0.28
41 43 0.66
42 1 0.02
43 3 0.05
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.19
Consensus pattern (40 bp):
ACTATCGCAACAAATTAGAAAATCGCAACGACAACTGTAG
Found at i:947757 original size:21 final size:21
Alignment explanation
Indices: 947731--947784 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
947721 GAAATAGAAA
947731 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
947752 ATCGCAACTCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
*
947773 ATCGCAATGCGA
1 ATCGCAACGCGA
947785 AATGCAACGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:947792 original size:21 final size:21
Alignment explanation
Indices: 947708--947792 Score: 66
Period size: 21 Copynumber: 4.1 Consensus size: 21
947698 GACACTGTAG
947708 ACTATCGCAACGCGAAATAG-A
1 ACTATCGCAACGCGAAAT-GCA
* ** *
947729 A-AATCGCAACGCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
* ** *
947749 ACTATCGCAACTCGATTTTCA
1 ACTATCGCAACGCGAAATGCA
*
947770 ACTATCGCAATGCGAAATGCA
1 ACTATCGCAACGCGAAATGCA
947791 AC
1 AC
947793 GCGAATTTGC
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
20 15 0.29
21 36 0.71
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.22
Consensus pattern (21 bp):
ACTATCGCAACGCGAAATGCA
Found at i:948126 original size:20 final size:20
Alignment explanation
Indices: 948019--948125 Score: 117
Period size: 20 Copynumber: 5.3 Consensus size: 20
948009 TATTATCTCA
948019 TTGCGAAAGTCAGTATCGCG
1 TTGCGAAAGTCAGTATCGCG
*
948039 TTGCGAAAGTAAGTATCGCG
1 TTGCGAAAGTCAGTATCGCG
*
948059 TTGCCAAAGTCAGTATCGCG
1 TTGCGAAAGTCAGTATCGCG
** *
948079 TTGCGATTTTGT-ATTATCGCG
1 TTGCGA--AAGTCAGTATCGCG
* * *
948100 TTGCGATAGTTAGTATCGCA
1 TTGCGAAAGTCAGTATCGCG
948120 TTGCGA
1 TTGCGA
948126 TTTTCCAAAT
Statistics
Matches: 74, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.04
20 55 0.74
21 14 0.19
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
TTGCGAAAGTCAGTATCGCG
Found at i:948129 original size:41 final size:41
Alignment explanation
Indices: 947992--948127 Score: 150
Period size: 41 Copynumber: 3.3 Consensus size: 41
947982 CGCTTTGAAA
* * *
947992 ATCGCATTGCAATTATGTATTATCTCATTGCGAAAGTCAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
* * * *
948033 ATCGCGTTGCGA--AAGTAAGTATCGCGTTGCCAAAGTCAGT
1 ATCGCATTGCGATTATGT-ATTATCGCGTTGCGAAAGTCAGT
* * * *
948073 ATCGCGTTGCGATTTTGTATTATCGCGTTGCGATAGTTAGT
1 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
948114 ATCGCATTGCGATT
1 ATCGCATTGCGATT
948128 TTCCAAATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 31 0.40
41 42 0.54
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (41 bp):
ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGT
Found at i:948159 original size:20 final size:21
Alignment explanation
Indices: 948115--948166 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
948105 ATAGTTAGTA
*
948115 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
948136 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
948156 TCGCATTGCGA
1 TCGCATTGCGA
948167 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:948208 original size:21 final size:22
Alignment explanation
Indices: 948156--948208 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
948146 ATTTACTTAT
948156 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
948177 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
948198 TCGCATTGCGA
1 TCGCATTGCGA
948209 TAGTAATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:954336 original size:80 final size:82
Alignment explanation
Indices: 954246--954412 Score: 320
Period size: 81 Copynumber: 2.1 Consensus size: 82
954236 ATCAAATAAA
954246 TAATATTATTATAAGTATA-TTTTTTTCTTTTCATTCTTTTACATAATCCTTAAATAAAATAAG-
1 TAATATTATTATAAGTATATTTTTTTTCTTTTCATTCTTTTACATAATCCTTAAATAAAATAAGA
954309 AAAATATTATTTAGGGT
66 AAAATATTATTTAGGGT
954326 TAATATTATTATAAGTATATTTTTTTTCTTTTCATTCTTTTACATAATCCTTAAATAAAATAAGA
1 TAATATTATTATAAGTATATTTTTTTTCTTTTCATTCTTTTACATAATCCTTAAATAAAATAAGA
954391 AAAATATTATTTAGGGT
66 AAAATATTATTTAGGGT
954408 TAATA
1 TAATA
954413 GCCCTTTTTT
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
80 19 0.22
81 44 0.52
82 22 0.26
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (82 bp):
TAATATTATTATAAGTATATTTTTTTTCTTTTCATTCTTTTACATAATCCTTAAATAAAATAAGA
AAAATATTATTTAGGGT
Found at i:956683 original size:186 final size:186
Alignment explanation
Indices: 956341--956745 Score: 492
Period size: 186 Copynumber: 2.2 Consensus size: 186
956331 GCCACCCCTA
* * * *
956341 GTTGAGCCTAAAGTATTACCAAAGTTTAAGCTGATGAAGCCTTAGATTTTCTCACCTTAACAAAA
1 GTTGAGCCTAAAATATTACCAAAGTTTAAGCTAATGAAGCCTTAGATTTTCCCACCATAACAAAA
* * ** * * * * *
956406 TAAGTTAAAAGATGAAAATGTTATGAATATTTATAATAAATACGGTTGCGCCCAACATGTTATGG
66 TAAGTTAAAAGATGAAAATGATATGAATATCTATAATAAATACAATTACACCAAAAATGTCATGG
* *
956471 TTCACTAAGAAAGTACGTTATGATATGGAATTTTAATATTTTTATTAATAAAATAG
131 TTCACTAAGAAAATACGTTATGATATGGAATGTTAATATTTTTATTAATAAAATAG
* * * * **
956527 GTTGTGCCTAAAATTTTACCAAAGTTTAATCTAATGGAGCCTTAGATTTTCCCATGATAACAAAA
1 GTTGAGCCTAAAATATTACCAAAGTTTAAGCTAATGAAGCCTTAGATTTTCCCACCATAACAAAA
* *
956592 TAAGTTAAAAGTTGGAAATGATATGAATATCTATAATAAATACAATTACACCAAAAAATGTCATG
66 TAAGTTAAAAGATGAAAATGATATGAATATCTATAATAAATACAATTACACC-AAAAATGTCATG
* * * * *
956657 GTTCACTAA-AAAATAGGTTGTGATATGGAATGTTAATATTTTTATTGATATAATTG
130 GTTCACTAAGAAAATACGTTATGATATGGAATGTTAATATTTTTATTAATAAAATAG
* *
956713 CTTGCA-CCTAAAATGTTACCGAAA-TTTAAGCTA
1 GTTG-AGCCTAAAATATTACC-AAAGTTTAAGCTA
956746 TGTTACCGAA
Statistics
Matches: 184, Mismatches: 32, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
186 163 0.89
187 21 0.11
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (186 bp):
GTTGAGCCTAAAATATTACCAAAGTTTAAGCTAATGAAGCCTTAGATTTTCCCACCATAACAAAA
TAAGTTAAAAGATGAAAATGATATGAATATCTATAATAAATACAATTACACCAAAAATGTCATGG
TTCACTAAGAAAATACGTTATGATATGGAATGTTAATATTTTTATTAATAAAATAG
Found at i:956750 original size:20 final size:20
Alignment explanation
Indices: 956725--956765 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
956715 TGCACCTAAA
956725 ATGTTACCGAAATTTAAGCT
1 ATGTTACCGAAATTTAAGCT
*
956745 ATGTTACCGAATTTTAAGCT
1 ATGTTACCGAAATTTAAGCT
956765 A
1 A
956766 ATGGAATCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (20 bp):
ATGTTACCGAAATTTAAGCT
Found at i:970264 original size:31 final size:31
Alignment explanation
Indices: 970205--970300 Score: 124
Period size: 31 Copynumber: 3.1 Consensus size: 31
970195 GTCCCGAAGG
*
970205 ACCTATCTATATGT-TCCG-AAGAACATAGGTA
1 ACCTATCCATATGTCT-CGAAAG-ACATAGGTA
* *
970236 ACCTGTCCATATGTCTCGAAAGATATAGGTA
1 ACCTATCCATATGTCTCGAAAGACATAGGTA
*
970267 AACTATCCATATGTCTCGAAAGACATAGGTA
1 ACCTATCCATATGTCTCGAAAGACATAGGTA
970298 ACC
1 ACC
970301 CTCTACTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
31 52 0.93
32 4 0.07
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (31 bp):
ACCTATCCATATGTCTCGAAAGACATAGGTA
Found at i:973568 original size:21 final size:21
Alignment explanation
Indices: 973544--973590 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
973534 ATTCTGACTA
973544 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
973565 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
973586 TCGCA
1 TCGCA
973591 ACGCGAATAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:973596 original size:21 final size:21
Alignment explanation
Indices: 973551--973596 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
973541 CTATCGCATT
***
973551 GCGATTTTCCAAATTCGCGTT
1 GCGATTTTCCAAATTCGCAAC
*
973572 GCGATTTTCCTAATTCGCAAC
1 GCGATTTTCCAAATTCGCAAC
973593 GCGA
1 GCGA
973597 ATACGTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (21 bp):
GCGATTTTCCAAATTCGCAAC
Found at i:973662 original size:20 final size:20
Alignment explanation
Indices: 973637--973752 Score: 169
Period size: 20 Copynumber: 5.8 Consensus size: 20
973627 CGAATTTGGA
*
973637 AAATCGCAATGCGATTACGT
1 AAATCGCAATGCGAATACGT
*
973657 AAATCGCAATGTGAATACGT
1 AAATCGCAATGCGAATACGT
* *
973677 AAATCTCAATGCGAATATGT
1 AAATCGCAATGCGAATACGT
973697 AAATCGCAATGCGAATACGT
1 AAATCGCAATGCGAATACGT
* **
973717 AAATCACAATGCGAATATAT
1 AAATCGCAATGCGAATACGT
973737 AAATCGCAATGCGAAT
1 AAATCGCAATGCGAAT
973753 CTGACTATCG
Statistics
Matches: 85, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 85 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
AAATCGCAATGCGAATACGT
Found at i:973710 original size:60 final size:59
Alignment explanation
Indices: 973616--973772 Score: 188
Period size: 60 Copynumber: 2.6 Consensus size: 59
973606 TCAAAACGCG
* * * * *
973616 AAATCGCAACGCGAATTTGGAAAATCGCAATGCGATTACGTAAATCGCAATGTGAATACGT
1 AAATCGCAATGCGAATAT-G-AAATCGCAATGCGATTACGTAAATCACAATGCGAATACAT
* * *
973677 AAATCTCAATGCGAATATGTAAATCGCAATGCGAATACGTAAATCACAATGCGAATATAT
1 AAATCGCAATGCGAATATG-AAATCGCAATGCGATTACGTAAATCACAATGCGAATACAT
* *
973737 AAATCGCAATGCGAATCTGACTATCGCAATGCGATT
1 AAATCGCAATGCGAATATGA-AATCGCAATGCGATT
973773 TACATAGCGC
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
59 1 0.01
60 66 0.80
61 15 0.18
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.24
Consensus pattern (59 bp):
AAATCGCAATGCGAATATGAAATCGCAATGCGATTACGTAAATCACAATGCGAATACAT
Found at i:973974 original size:22 final size:22
Alignment explanation
Indices: 973949--974014 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
973939 GGCGACATCC
973949 GTCCCCATCTCCAACGAAATCA
1 GTCCCCATCTCCAACGAAATCA
* *
973971 GTCCCCATCTTCGAA-GATATCA
1 GTCCCCATC-TCCAACGAAATCA
* **
973993 GTCTCCATCTCCGGCGAAATCA
1 GTCCCCATCTCCAACGAAATCA
974015 TTCACGGTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
21 2 0.06
22 29 0.83
23 4 0.11
ACGTcount: A:0.27, C:0.36, G:0.14, T:0.23
Consensus pattern (22 bp):
GTCCCCATCTCCAACGAAATCA
Found at i:974390 original size:20 final size:20
Alignment explanation
Indices: 974365--974417 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
974355 CGATTTTCAT
974365 TTCGCGTTGCGATAGTCAAA
1 TTCGCGTTGCGATAGTCAAA
**
974385 TTCGCGTTGCGATAGTCATT
1 TTCGCGTTGCGATAGTCAAA
*
974405 TTCGTGTTGCGAT
1 TTCGCGTTGCGAT
974418 TTAAAGTTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCAAA
Found at i:976330 original size:20 final size:20
Alignment explanation
Indices: 976305--976480 Score: 166
Period size: 20 Copynumber: 9.5 Consensus size: 20
976295 AATAGTTTAT
976305 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
976325 TATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
976345 TATCGCAA--CG-AGA-GA-
1 TATCGCAATGCGAAAATGAC
*
976360 -AT-GCAATGCG-AAATGAA
1 TATCGCAATGCGAAAATGAC
*
976377 AATCGCAA--C-AACAA--A-
1 TATCGCAATGCGAA-AATGAC
*
976392 -ATCGCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
976411 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
976431 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
** *
976451 TATCGCAATGCGAATTTGAT
1 TATCGCAATGCGAAAATGAC
976471 TATCGCAATG
1 TATCGCAATG
976481 AAAGAATCGC
Statistics
Matches: 134, Mismatches: 7, Indels: 30
0.78 0.04 0.18
Matches are distributed among these distances:
13 4 0.03
14 9 0.07
15 4 0.03
16 8 0.06
17 6 0.04
18 7 0.05
19 4 0.03
20 92 0.69
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.19
Consensus pattern (20 bp):
TATCGCAATGCGAAAATGAC
Found at i:976404 original size:33 final size:33
Alignment explanation
Indices: 976326--976405 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
976316 GAAAATGACT
** * * *
976326 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCG-AAATGAAAATCGCAACAACAAA
*
976360 AT-GCAATGCGAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACAACAAA
976392 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
976406 ATGACTATCG
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
32 19 0.50
33 17 0.45
34 2 0.05
ACGTcount: A:0.46, C:0.23, G:0.20, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACAACAAA
Found at i:976623 original size:60 final size:60
Alignment explanation
Indices: 976539--976651 Score: 181
Period size: 60 Copynumber: 1.9 Consensus size: 60
976529 GATAGTTAAA
976539 TTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTACGATAGTCATT
1 TTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTACGATAGTCATT
* ** * *
976599 TTCGCGTTGCGATAGTCATGTTCGCGTTGCGATAGTCATTTTCGCGTTACGAT
1 TTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTACGAT
976652 TTTAAGTTTC
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.37
Consensus pattern (60 bp):
TTCGCATTGCGATAGTCAAATTCGCATTGCGATAGTCATTTTCGCATTACGATAGTCATT
Found at i:976644 original size:20 final size:20
Alignment explanation
Indices: 976523--976651 Score: 159
Period size: 20 Copynumber: 6.5 Consensus size: 20
976513 GCAATTCTCT
* **
976523 CGTTGCGATAGTTAAATTCG
1 CGTTGCGATAGTCATTTTCG
* **
976543 CATTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
*
976563 CATTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
976583 CATTACGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
976603 CGTTGCGATAGTCATGTTCG
1 CGTTGCGATAGTCATTTTCG
976623 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
*
976643 CGTTACGAT
1 CGTTGCGAT
976652 TTTAAGTTTC
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 99 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.36
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:977226 original size:21 final size:21
Alignment explanation
Indices: 977135--977239 Score: 86
Period size: 21 Copynumber: 5.0 Consensus size: 21
977125 GACTCACCTG
*
977135 TCATCGTTCAAGAGGCCTCCCC
1 TCATCGTTCAAGAGGCC-CCTC
* *
977157 T-ATCATTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTC
** *
977177 TCATCCCTCAAGAGTCCCCTC
1 TCATCGTTCAAGAGGCCCCTC
* * * *
977198 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTC
* *
977219 TCATCGTTGAAGAGGTCCCTC
1 TCATCGTTCAAGAGGCCCCTC
977240 CCAACATTCT
Statistics
Matches: 62, Mismatches: 20, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
20 3 0.05
21 58 0.94
22 1 0.02
ACGTcount: A:0.22, C:0.37, G:0.18, T:0.23
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTC
Found at i:977232 original size:42 final size:42
Alignment explanation
Indices: 977162--977242 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
977152 TCCCCTATCA
*
977162 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCG
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCACCG
* ** *
977204 TTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCA
977243 ACATTCTAGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
42 31 0.94
43 2 0.06
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.21
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCACCG
Found at i:978646 original size:14 final size:14
Alignment explanation
Indices: 978614--978648 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
978604 GATTGTTTAA
978614 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
978628 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
978642 TTGATTT
1 TTGATTT
978649 CTTTAATTGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:978795 original size:14 final size:14
Alignment explanation
Indices: 978776--978829 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
978766 GGAAATGACT
978776 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
978790 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
978809 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
978823 ATCGCAA
1 ATCGCAA
978830 TGCGAAAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:978844 original size:34 final size:33
Alignment explanation
Indices: 978756--978851 Score: 147
Period size: 33 Copynumber: 2.8 Consensus size: 33
978746 AAAACAAACT
* **
978756 ATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
978790 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
978823 ATCGCAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
978852 CGAATTAGTT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
33 32 0.55
34 26 0.45
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:978847 original size:20 final size:19
Alignment explanation
Indices: 978789--978855 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 19
978779 GCAACGAGAG
978789 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
978808 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
978822 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
978842 AATCGCAACGCGAA
1 AATCGCAATGCGAA
978856 TTAGTTTCGC
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
19 11 0.28
20 13 0.33
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.12
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:978906 original size:14 final size:14
Alignment explanation
Indices: 978887--978940 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
978877 TATTTTCGCA
978887 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
978901 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
978918 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
978934 TTGCGAT
1 TTGCGAT
978941 AGTCATTTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 13 0.39
16 7 0.21
17 7 0.21
19 6 0.18
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.44
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:978922 original size:33 final size:33
Alignment explanation
Indices: 978865--978960 Score: 138
Period size: 33 Copynumber: 2.8 Consensus size: 33
978855 ATTAGTTTCG
*
978865 CGTTGCGATTTTTATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
978899 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
978932 CGTTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
978961 AGTCAATTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 34 0.60
34 23 0.40
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:978957 original size:20 final size:20
Alignment explanation
Indices: 978932--979020 Score: 144
Period size: 20 Copynumber: 4.5 Consensus size: 20
978922 GCGATTCTCT
978932 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
978952 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCATTTCCG
978972 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
978992 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
979012 CGTTGCGAT
1 CGTTGCGAT
979021 TTCCGTGTTG
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
20 62 0.97
21 2 0.03
ACGTcount: A:0.17, C:0.22, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:981263 original size:3 final size:3
Alignment explanation
Indices: 981255--981281 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
981245 CTTTGGGGAT
981255 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
981282 AGGGTTATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:982376 original size:20 final size:20
Alignment explanation
Indices: 982351--982444 Score: 152
Period size: 20 Copynumber: 4.7 Consensus size: 20
982341 AAATTCAGTA
982351 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
982371 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
982391 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
* * *
982411 TTGCGATAGTCAGATTCGCA
1 TTGCGATAGTCAGAATCTCG
*
982431 TTGTGATAGTCAGA
1 TTGCGATAGTCAGA
982445 TTCACATTGC
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 70 1.00
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.31
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:982445 original size:20 final size:20
Alignment explanation
Indices: 982350--982457 Score: 144
Period size: 20 Copynumber: 5.4 Consensus size: 20
982340 GAAATTCAGT
982350 ATTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
*
982370 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
*
982390 GTTGCGATAGTCAGAATCTC
1 ATTGCGATAGTCAGAATCTC
* * *
982410 GTTGCGATAGTCAGATTCGC
1 ATTGCGATAGTCAGAATCTC
* * *
982430 ATTGTGATAGTCAGATTCAC
1 ATTGCGATAGTCAGAATCTC
982450 ATTGCGAT
1 ATTGCGAT
982458 TTACGTAATC
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 81 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
ATTGCGATAGTCAGAATCTC
Done.