Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 113 of 295
Found at i:34047389 original size:34 final size:34
Alignment explanation
Indices: 34047317--34047449 Score: 106
Period size: 34 Copynumber: 3.9 Consensus size: 34
34047307 CATAAGTCAT
* * * * * * *
34047317 ACATAACATAGGCTCGTATAACAGAATAATTCAT
1 ACATAACATAGGTTCGCATCACAGTATAGTTTAC
*
34047351 ACATAACATAGGTTCGCATCACAGTATAGTTTGC
1 ACATAACATAGGTTCGCATCACAGTATAGTTTAC
** * **
34047385 ACATAGTATAGGTTCGCAT-ATAACATAGGTTTAC
1 ACATAACATAGGTTCGCATCACAGTATA-GTTTAC
* * *
34047419 ATATCACATGGGTTCGCATCACAGTATAGTT
1 ACATAACATAGGTTCGCATCACAGTATAGTT
34047450 CGCATATAGT
Statistics
Matches: 75, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
33 5 0.07
34 65 0.87
35 5 0.07
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (34 bp):
ACATAACATAGGTTCGCATCACAGTATAGTTTAC
Found at i:34047414 original size:17 final size:17
Alignment explanation
Indices: 34047392--34047496 Score: 86
Period size: 17 Copynumber: 6.2 Consensus size: 17
34047382 TGCACATAGT
34047392 ATAGGTTCGCATATAAC
1 ATAGGTTCGCATATAAC
** *
34047409 ATAGGTTTACATATCAC
1 ATAGGTTCGCATATAAC
* * **
34047426 ATGGGTTCGCATCACAGT
1 ATAGGTTCGCAT-ATAAC
**
34047444 ATA-GTTCGCATATAGT
1 ATAGGTTCGCATATAAC
* *
34047460 ATAGGTTTGCATATCAC
1 ATAGGTTCGCATATAAC
*
34047477 ATAGATTCGCATATAAC
1 ATAGGTTCGCATATAAC
34047494 ATA
1 ATA
34047497 ACAGGGCTCG
Statistics
Matches: 67, Mismatches: 19, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
16 7 0.10
17 57 0.85
18 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (17 bp):
ATAGGTTCGCATATAAC
Found at i:34047451 original size:51 final size:52
Alignment explanation
Indices: 34047389--34047488 Score: 148
Period size: 51 Copynumber: 1.9 Consensus size: 52
34047379 GTTTGCACAT
* *
34047389 AGTATAGGTTCGCATATAACATAGGTTTACATATCACATGGGTTCGCATCAC
1 AGTATAGGTTCGCATATAACATAGGTTTACATATCACATAGATTCGCATCAC
** *
34047441 AGTATA-GTTCGCATATAGTATAGGTTTGCATATCACATAGATTCGCAT
1 AGTATAGGTTCGCATATAACATAGGTTTACATATCACATAGATTCGCAT
34047489 ATAACATAAC
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
51 37 0.86
52 6 0.14
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (52 bp):
AGTATAGGTTCGCATATAACATAGGTTTACATATCACATAGATTCGCATCAC
Found at i:34047456 original size:34 final size:33
Alignment explanation
Indices: 34047352--34047471 Score: 100
Period size: 34 Copynumber: 3.6 Consensus size: 33
34047342 ATAATTCATA
34047352 CATA-ACATAGGTTCGCATCACAGTATAGTTTG
1 CATATACATAGGTTCGCATCACAGTATAGTTTG
* * * ** *
34047384 CACATAGTATAGGTTCGCAT-ATAACATAGGTTTA
1 CATATA-CATAGGTTCGCATCACAGTATA-GTTTG
* *
34047418 CATATCACATGGGTTCGCATCACAGTATAGTTCG
1 CATAT-ACATAGGTTCGCATCACAGTATAGTTTG
* *
34047452 CATATAGTATAGGTTTGCAT
1 CATATA-CATAGGTTCGCAT
34047472 ATCACATAGA
Statistics
Matches: 65, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
32 3 0.05
33 7 0.11
34 49 0.75
35 6 0.09
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (33 bp):
CATATACATAGGTTCGCATCACAGTATAGTTTG
Found at i:34047490 original size:68 final size:68
Alignment explanation
Indices: 34047353--34047496 Score: 207
Period size: 68 Copynumber: 2.1 Consensus size: 68
34047343 TAATTCATAC
* * *
34047353 ATAACATAGGTTCGCATCACAGTATAGTTTGCACATAGTATAGGTTCGCATATAACATAGGTTTA
1 ATAACATAGGTTCGCATCACAGTATAGTTCGCACATAGTATAGGTTCGCATATAACATAGATTCA
34047418 CAT
66 CAT
* * * * * *
34047421 ATCACATGGGTTCGCATCACAGTATAGTTCGCATATAGTATAGGTTTGCATATCACATAGATTCG
1 ATAACATAGGTTCGCATCACAGTATAGTTCGCACATAGTATAGGTTCGCATATAACATAGATTCA
34047486 CAT
66 CAT
34047489 ATAACATA
1 ATAACATA
34047497 ACAGGGCTCG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
68 65 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Consensus pattern (68 bp):
ATAACATAGGTTCGCATCACAGTATAGTTCGCACATAGTATAGGTTCGCATATAACATAGATTCA
CAT
Found at i:34066716 original size:15 final size:15
Alignment explanation
Indices: 34066674--34066723 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
34066664 ATAATTTTGA
* *
34066674 ATGCAAACG-ATGTG
1 ATGCAAATGCATGAG
34066688 ATG-AAATGCTATGAG
1 ATGCAAATGC-ATGAG
34066703 ATGCAAATGCATGA-
1 ATGCAAATGCATGAG
34066717 ATGCAAA
1 ATGCAAA
34066724 AAGGACATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 4 0.13
14 10 0.32
15 11 0.35
16 6 0.19
ACGTcount: A:0.42, C:0.12, G:0.24, T:0.22
Consensus pattern (15 bp):
ATGCAAATGCATGAG
Found at i:34066722 original size:14 final size:16
Alignment explanation
Indices: 34066687--34066723 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
34066677 CAAACGATGT
34066687 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
34066702 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
34066717 -ATGCAAA
1 GATGCAAA
34066724 AAGGACATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:34070230 original size:33 final size:33
Alignment explanation
Indices: 34070192--34070258 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
34070182 TAAGATATAC
34070192 ATAGCATATATTGAAGATGAATAAGCAAAATAT
1 ATAGCATATATTGAAGATGAATAAGCAAAATAT
34070225 ATAGCATATATTGAAGATGAATAAGCAAAATAT
1 ATAGCATATATTGAAGATGAATAAGCAAAATAT
34070258 A
1 A
34070259 CGAACATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (33 bp):
ATAGCATATATTGAAGATGAATAAGCAAAATAT
Found at i:34070747 original size:37 final size:36
Alignment explanation
Indices: 34070688--34070829 Score: 108
Period size: 37 Copynumber: 3.7 Consensus size: 36
34070678 AAATCTATCA
*
34070688 AAATAATAATATAGATAATAATATACAAAAATATATAAT
1 AAAT-ATAATGTA-ATAATAATATA-AAAAATATATAAT
*
34070727 AAATATGATGTAATAATAATATAAAATAACATATATTAAAGTGT
1 AAATATAATGTAATAATAATAT-AAA-AA-ATATA-T-AA---T
* * *
34070771 AAA-ATAATATAATAATAAAATATAAAATAGTATAAT
1 AAATATAATGTAATAATAATATAAAAAATA-TATAAT
*
34070807 AAATATTATGTAATAA-AATATAA
1 AAATATAATGTAATAATAATATAA
34070830 TATAGGTATA
Statistics
Matches: 83, Mismatches: 10, Indels: 23
0.72 0.09 0.20
Matches are distributed among these distances:
36 9 0.11
37 22 0.27
38 9 0.11
39 11 0.13
40 5 0.06
41 6 0.07
42 2 0.02
43 15 0.18
44 4 0.05
ACGTcount: A:0.61, C:0.01, G:0.05, T:0.32
Consensus pattern (36 bp):
AAATATAATGTAATAATAATATAAAAAATATATAAT
Found at i:34070796 original size:23 final size:23
Alignment explanation
Indices: 34070737--34070808 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
34070727 AAATATGATG
*
34070737 TAATAATAATATAAAATAACAT-A
1 TAATAA-AATATAAAATAATATAA
* * *
34070760 TATTAAAGTGTAAAATAATATAA
1 TAATAAAATATAAAATAATATAA
*
34070783 TAATAAAATATAAAATAGTATAA
1 TAATAAAATATAAAATAATATAA
34070806 TAA
1 TAA
34070809 ATATTATGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 12 0.30
23 28 0.70
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATAAAATATAAAATAATATAA
Found at i:34070863 original size:80 final size:79
Alignment explanation
Indices: 34070689--34070863 Score: 173
Period size: 80 Copynumber: 2.2 Consensus size: 79
34070679 AATCTATCAA
* *
34070689 AATAATAATATAGATAATAATATACAAAAATATATAATAAATATGATGTAATAATAATATAAAAT
1 AATAAT-ATATAAATAATAATAAACAAAAATATATAATAAATATGATGTAATAATAATATAAAAT
*
34070754 AACATATATTAAAGT
65 AACATATAGTAAAGT
* * *
34070769 -GTAA-A-ATAATATAATAATAAAATATAAAATAGTATAATAAATATTATGTAATAA-AATATAA
1 AATAATATATAA-ATAATAAT-AAACA-AAAATA-TATAATAAATATGATGTAATAATAATATAA
* **
34070830 TAT-AGGTATAGGTAAA-T
62 AATAACATATA-GTAAAGT
34070847 AATAATATATAAATAAT
1 AATAATATATAAATAAT
34070864 TTTTTTTTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 16
0.75 0.10 0.16
Matches are distributed among these distances:
76 3 0.04
77 9 0.12
78 9 0.12
79 25 0.32
80 27 0.35
81 4 0.05
ACGTcount: A:0.59, C:0.01, G:0.06, T:0.33
Consensus pattern (79 bp):
AATAATATATAAATAATAATAAACAAAAATATATAATAAATATGATGTAATAATAATATAAAATA
ACATATAGTAAAGT
Found at i:34072283 original size:3 final size:3
Alignment explanation
Indices: 34072263--34072354 Score: 71
Period size: 3 Copynumber: 30.7 Consensus size: 3
34072253 TTGTTAAACA
* * * * *
34072263 TAT TTT TAT TAT T-G TAT TAT TAT TAAA TAT TAT AAG TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * *
34072308 TAT AAG TAT TAT TAT T-G TAT GAT TAT TAAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
34072353 TA
1 TA
34072355 CTAAAGATAT
Statistics
Matches: 67, Mismatches: 18, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
2 2 0.03
3 60 0.90
4 5 0.07
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:34074691 original size:27 final size:27
Alignment explanation
Indices: 34074661--34074837 Score: 185
Period size: 27 Copynumber: 6.5 Consensus size: 27
34074651 AAATTGTACA
*
34074661 GCACTAAGTGTGCGATTTGAATATGTT
1 GCACTAAGTGTGCGATTTGAATATGTG
**
34074688 GCACTAAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGAATATG-TG
* ** *
34074715 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGAATATGTG
* *
34074742 GCACTAAGTGTGCGAGTCTGACTATGTG
1 GCACTAAGTGTGCGA-TTTGAATATGTG
* *
34074770 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGAATATGTG
* * * *
34074797 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGAATATGTG
*
34074824 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34074838 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGAATATGTG
Found at i:34074779 original size:82 final size:81
Alignment explanation
Indices: 34074661--34074816 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
34074651 AAATTGTACA
* * *
34074661 GCACTAAGTGTGCGATTTGAATATGTTGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
34074725 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
34074742 GCACTAAGTGTGCGAGTCTGACTATGTGGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGTGTGCGA-TCTGAATATGTGGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
34074807 TGCGAGTTGA
65 TGCGAATTGA
34074817 TTATATAGCA
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 16 0.25
82 49 0.75
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:34074828 original size:82 final size:81
Alignment explanation
Indices: 34074657--34074837 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
34074647 GATTAAATTG
* * *
34074657 TACAGCACTAAGTGTGCGATTTGAATATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
34074722 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * * ** *
34074738 TGCGGCACTAAGTGTGCGAGTCTGACTATGTGGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGAATATGTGGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
34074802 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
34074820 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
34074838 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGAATATGTGGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:34082737 original size:22 final size:24
Alignment explanation
Indices: 34082713--34082784 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 24
34082703 GCGATTTGGA
*
34082713 AATATGTTGCACTAAGTGTGGAAATG
1 AATATGATGCACTAAGTGTGG-AA-G
34082739 AATATGATGCACTAAGTGTGCGAATG
1 AATATGATGCACTAAGTGTG-GAA-G
34082765 AATATGATGCACTAAGTGTG
1 AATATGATGCACTAAGTGTG
34082785 CGAATTGACC
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
26 43 0.98
27 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (24 bp):
AATATGATGCACTAAGTGTGGAAG
Found at i:34082811 original size:27 final size:27
Alignment explanation
Indices: 34082692--34082894 Score: 191
Period size: 27 Copynumber: 7.5 Consensus size: 27
34082682 AAATTGTACA
* *
34082692 GCACTAAGTGTGCGATTTGGAAATATGTT
1 GCACTAAGTGTGCGAATT-G-AATATGAT
*
34082721 GCACTAAGTGTG-GAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGAATATGAT
34082747 GCACTAAGTGTGCGAA-TGAATATGAT
1 GCACTAAGTGTGCGAATTGAATATGAT
** **
34082773 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGAATATGAT
* *
34082800 GCACTAAGTGTGCGAGTCTGACTATG-T
1 GCACTAAGTGTGCGAAT-TGAATATGAT
* * *
34082827 GCACTAAGTGTGCGATTTGATTACG-T
1 GCACTAAGTGTGCGAATTGAATATGAT
* *
34082853 GGCACTAAGTGTGCGAGTTGATTAT-AT
1 -GCACTAAGTGTGCGAATTGAATATGAT
*
34082880 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
34082895 GGCTCAATAT
Statistics
Matches: 152, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
26 52 0.34
27 78 0.51
28 10 0.07
29 12 0.08
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGAATATGAT
Found at i:34095107 original size:13 final size:13
Alignment explanation
Indices: 34095089--34095113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34095079 GGTTTGTTTA
34095089 TTAAACTAATTAT
1 TTAAACTAATTAT
34095102 TTAAACTAATTA
1 TTAAACTAATTA
34095114 ATGGATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:34097487 original size:18 final size:18
Alignment explanation
Indices: 34097464--34097500 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34097454 TCAATTCTTT
34097464 AAGGTCCTATAATCAATA
1 AAGGTCCTATAATCAATA
34097482 AAGGTCCTATAATCAATA
1 AAGGTCCTATAATCAATA
34097500 A
1 A
34097501 TCATGCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (18 bp):
AAGGTCCTATAATCAATA
Found at i:34098068 original size:6 final size:6
Alignment explanation
Indices: 34098059--34098116 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
34098049 AATAAAATTG
* * * *
34098059 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA AAATAA AACTAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
*
34098107 ATA-AA AAATA
1 AAATAA AAATA
34098117 GGAGGATTCA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
5 4 0.10
6 38 0.90
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:34098074 original size:12 final size:11
Alignment explanation
Indices: 34098039--34098116 Score: 59
Period size: 12 Copynumber: 6.5 Consensus size: 11
34098029 TATGTCTTTC
34098039 AAAATAAAATAAT
1 AAAAT-AAA-AAT
**
34098052 AAAATTGAAAT
1 AAAATAAAAAT
34098063 GAAAATAAAAAT
1 -AAAATAAAAAT
*
34098075 CAAAAGAAAAAT
1 -AAAATAAAAAT
34098087 AAAAATAAAAAT
1 -AAAATAAAAAT
34098099 AAAACTAAATAA-
1 AAAA-TAAA-AAT
34098111 AAAATA
1 AAAATA
34098117 GGAGGATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
11 9 0.17
12 38 0.70
13 7 0.13
ACGTcount: A:0.76, C:0.03, G:0.04, T:0.18
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:34099646 original size:20 final size:20
Alignment explanation
Indices: 34099608--34099646 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34099598 GGCTGTTGTA
* **
34099608 TGGTGGGCACGGGTGTGTGG
1 TGGTGAGCACGGGCATGTGG
34099628 TGGTGAGCACGGGCATGTG
1 TGGTGAGCACGGGCATGTG
34099647 ACGCGGAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.10, C:0.13, G:0.54, T:0.23
Consensus pattern (20 bp):
TGGTGAGCACGGGCATGTGG
Found at i:34103451 original size:13 final size:13
Alignment explanation
Indices: 34103433--34103470 Score: 76
Period size: 13 Copynumber: 2.9 Consensus size: 13
34103423 GGTTTGTTTA
34103433 TTAAACTAATTAT
1 TTAAACTAATTAT
34103446 TTAAACTAATTAT
1 TTAAACTAATTAT
34103459 TTAAACTAATTA
1 TTAAACTAATTA
34103471 ACGGATTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:34109127 original size:19 final size:19
Alignment explanation
Indices: 34109100--34109136 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34109090 ATTCAATTTT
34109100 GAAAAAAAAAAAAAGAAAA
1 GAAAAAAAAAAAAAGAAAA
* *
34109119 GAAAGAAAAAGAAAGAAA
1 GAAAAAAAAAAAAAGAAA
34109137 GAAGAAGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (19 bp):
GAAAAAAAAAAAAAGAAAA
Found at i:34109128 original size:10 final size:10
Alignment explanation
Indices: 34109100--34109142 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
34109090 ATTCAATTTT
*
34109100 GAAAAAAAAA
1 GAAAGAAAAA
*
34109110 AAAAG-AAAA
1 GAAAGAAAAA
34109119 GAAAGAAAAA
1 GAAAGAAAAA
34109129 GAAAGAAAGAA
1 GAAAGAAA-AA
34109140 GAA
1 GAA
34109143 GAAGAAGCGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 8 0.29
10 15 0.54
11 5 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:34109148 original size:23 final size:23
Alignment explanation
Indices: 34109100--34109145 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
34109090 ATTCAATTTT
34109100 GAAAAAAAAAAAAAGAAAAGAAA
1 GAAAAAAAAAAAAAGAAAAGAAA
* *
34109123 GAAAAAGAAAGAAAGAAGAAGAA
1 GAAAAAAAAAAAAAGAA-AAGAA
34109146 GAAGCGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (23 bp):
GAAAAAAAAAAAAAGAAAAGAAA
Found at i:34109479 original size:12 final size:12
Alignment explanation
Indices: 34109464--34109514 Score: 50
Period size: 12 Copynumber: 4.1 Consensus size: 12
34109454 AGAAGAATAG
34109464 TAATATTATTAT
1 TAATATTATTAT
34109476 TAATATTGA-TAT
1 TAATATT-ATTAT
*
34109488 TAATAATATATTAA
1 TAAT-AT-TATTAT
*
34109502 TAATAATATTAT
1 TAATATTATTAT
34109514 T
1 T
34109515 GTTGCTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
12 20 0.62
13 5 0.16
14 7 0.22
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (12 bp):
TAATATTATTAT
Found at i:34113364 original size:28 final size:28
Alignment explanation
Indices: 34113301--34113426 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
34113291 ATATTAAGTC
*
34113301 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
34113328 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
34113356 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
34113384 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
34113413 CGCACACTTAGTGC
1 CGCACACTTAGTGC
34113427 CAATCTCATG
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.24
28 51 0.55
29 19 0.21
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:34113894 original size:14 final size:14
Alignment explanation
Indices: 34113875--34113904 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34113865 TGGGCATACT
34113875 TATGTATATATATA
1 TATGTATATATATA
34113889 TATGTATATATATA
1 TATGTATATATATA
34113903 TA
1 TA
34113905 CACTTCGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
TATGTATATATATA
Found at i:34117588 original size:33 final size:33
Alignment explanation
Indices: 34117543--34117636 Score: 99
Period size: 33 Copynumber: 2.9 Consensus size: 33
34117533 AACACAGTGT
* *
34117543 CAGTACAATCTGGGCCAAAGCCCTATTCAGTAA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
34117576 CAGTACAGTCTGGGCCTTAGCCC--TTC---AA
1 CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
*
34117604 CAGTAGCAGTATGGGCCTAAGCCCTAATTCAGT
1 CAGTA-CAGTCTGGGCCTAAGCCCT-ATTCAGT
34117637 CTCGACATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
28 7 0.14
29 16 0.33
31 3 0.06
32 3 0.06
33 20 0.41
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTAAGCCCTATTCAGTAA
Found at i:34117618 original size:29 final size:28
Alignment explanation
Indices: 34117574--34117628 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
34117564 CCTATTCAGT
* *
34117574 AACAGTACAGTCTGGGCCTTAGCCCTTC
1 AACAGTACAGTATGGGCCTAAGCCCTTC
34117602 AACAGTAGCAGTATGGGCCTAAGCCCT
1 AACAGTA-CAGTATGGGCCTAAGCCCT
34117629 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (28 bp):
AACAGTACAGTATGGGCCTAAGCCCTTC
Found at i:34117929 original size:24 final size:24
Alignment explanation
Indices: 34117888--34117934 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
34117878 GCTTTATCAT
* *
34117888 ATAACTGGAGGCATAGCCTCTTTTA
1 ATAACTAGAGGCAAAGCC-CTTTTA
34117913 ATAACTAG-GGCAAAGCCCTTTT
1 ATAACTAGAGGCAAAGCCCTTTT
34117935 TGGTAAACTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
ATAACTAGAGGCAAAGCCCTTTTA
Found at i:34117935 original size:24 final size:25
Alignment explanation
Indices: 34117908--34117959 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
34117898 GCATAGCCTC
34117908 TTTTAAT-AACTAGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
** *
34117932 TTTTGGTAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTAGGGCAAAGCCCT
34117957 TTT
1 TTT
34117960 CGCACTTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (25 bp):
TTTTAATAAACTAGGGCAAAGCCCT
Found at i:34118194 original size:27 final size:27
Alignment explanation
Indices: 34118164--34118359 Score: 221
Period size: 27 Copynumber: 7.3 Consensus size: 27
34118154 GGGGCAAAAT
* * * *
34118164 GGTAATTTTACCCCACAAAGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34118191 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
34118218 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
34118245 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
** * *
34118272 AATATTTCTACCTTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
34118299 GGTAACTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
34118326 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
34118353 GGTAATT
1 GGTAATT
34118360 TTACAAACTA
Statistics
Matches: 143, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:34118221 original size:54 final size:54
Alignment explanation
Indices: 34118163--34118388 Score: 260
Period size: 54 Copynumber: 4.2 Consensus size: 54
34118153 AGGGGCAAAA
* * *
34118163 TGGTAATTTTACCCCACAAAGGTATCTCGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*
34118217 TGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
*** * *
34118271 CAAT-ATTTCTACCTTACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTT
1 TGGTAATTT-TACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
* * * * * **
34118325 TAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTA-CAAACTAGGGGTATTT
1 TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGGGTATTT
34118379 TGGTAATTTT
1 TGGTAATTTT
34118389 GTAAACTAAG
Statistics
Matches: 147, Mismatches: 22, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
53 7 0.05
54 137 0.93
55 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.37
Consensus pattern (54 bp):
TGGTAATTTTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGGGGTATTT
Found at i:34118372 original size:27 final size:27
Alignment explanation
Indices: 34118315--34118658 Score: 347
Period size: 27 Copynumber: 12.7 Consensus size: 27
34118305 TCTACCCTAC
* * **
34118315 AGGGGTATTTTAGTAATTCTACCCTAC-
1 AGGGGTATTTTGGTAATTTTA-CAAACT
34118342 AGGGGTATTTTGGTAATTTTACAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
**
34118369 AGGGGTATTTTGGTAATTTTGTAAACT
1 AGGGGTATTTTGGTAATTTTACAAACT
* *
34118396 AAGGGTATTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
34118422 CGAGGGTATTTCAGTAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
34118449 CAGGGGTATTTTGGTAATTTTATAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
* *
34118477 AAGGGTATTTTGGTAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
34118504 AGGAGTATTTTGGTAATTTTGTAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
* * *
34118531 AAGGGTCTTTTGGTAATTTTAC-AAGT
1 AGGGGTATTTTGGTAATTTTACAAACT
* ** *
34118557 CGAGGGTATTTCAGTAATTTCACAAA-T
1 AG-GGGTATTTTGGTAATTTTACAAACT
*
34118584 CAGGGGTATTTTGGTAATTTCACAAACT
1 -AGGGGTATTTTGGTAATTTTACAAACT
* *
34118612 AGGGGTATTTTGATAATTTTACAAACC
1 AGGGGTATTTTGGTAATTTTACAAACT
34118639 AGGGGTATTTTGGTAATTTT
1 AGGGGTATTTTGGTAATTTT
34118659 GCTAATCGAG
Statistics
Matches: 261, Mismatches: 47, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
26 8 0.03
27 245 0.94
28 8 0.03
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGGTATTTTGGTAATTTTACAAACT
Found at i:34118375 original size:81 final size:81
Alignment explanation
Indices: 34118196--34118384 Score: 213
Period size: 81 Copynumber: 2.3 Consensus size: 81
34118186 ATCTCGGTAA
** ** *
34118196 TTCTACCCTACAGGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTAC
1 TTCTACCAAACAGGGGTATTTTGGTAACTCTACCCTACAAGGGTATTTAGATAATTCTACCCTAC
34118261 AGGGGTATTTCAATAT
66 AGGGGTATTTCAATAT
** * * *
34118277 TTCTACCTTACAAGGGTATTTCGGTAACTCTACCCTACAGGGGTATTTTAG-TAATTCTACCCTA
1 TTCTACCAAACAGGGGTATTTTGGTAACTCTACCCTACAAGGGTA-TTTAGATAATTCTACCCTA
***
34118341 CAGGGGTATTTTGGTAAT
65 CAGGGGTATTTCAAT-AT
34118359 TT-TA-CAAACTAGGGGTATTTTGGTAA
1 TTCTACCAAAC-AGGGGTATTTTGGTAA
34118385 TTTTGTAAAC
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 3 0.03
81 80 0.88
82 8 0.09
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
TTCTACCAAACAGGGGTATTTTGGTAACTCTACCCTACAAGGGTATTTAGATAATTCTACCCTAC
AGGGGTATTTCAATAT
Found at i:34118711 original size:135 final size:134
Alignment explanation
Indices: 34118342--34118659 Score: 555
Period size: 135 Copynumber: 2.4 Consensus size: 134
34118332 TCTACCCTAC
*
34118342 AGGGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTGTAAACTAAGGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAAC-AAGGGTATTTT
* *
34118407 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTTAT
65 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCAC
34118472 AAACT
130 AAACT
* * *
34118477 AAGGGTATTTTGGTAATTTTACAAACCAGGAGTATTTTGGTAATTTTGTAAACCAAGGGTCTTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAA-CAAGGGTATTTT
34118542 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCAC
65 GGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCAC
34118607 AAACT
130 AAACT
*
34118612 AGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTG
34118660 CTAATCGAGG
Statistics
Matches: 173, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
135 172 0.99
136 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.40
Consensus pattern (134 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACAAGGGTATTTTG
GTAATTTTACAAGTCGAGGGTATTTCAGTAATTTCACAAATCAGGGGTATTTTGGTAATTTCACA
AACT
Found at i:34123429 original size:30 final size:31
Alignment explanation
Indices: 34123370--34123433 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
34123360 ACTTAACAAG
34123370 CAAATGCCTCTAAAATAATAAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
* *
34123401 CAAATGCCTTTAAAATAAT-AAGAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAAATTAA
34123431 CAA
1 CAA
34123434 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.23
Consensus pattern (31 bp):
CAAATGCCTCTAAAATAATAAAAAAAATTAA
Found at i:34134808 original size:17 final size:18
Alignment explanation
Indices: 34134783--34134825 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
34134773 AGGCCAAGTT
*
34134783 GGGTATGTGTG-CTACAC
1 GGGTATGTGGGCCTACAC
*
34134800 GGGTGTGTGGGCCTACAC
1 GGGTATGTGGGCCTACAC
34134818 GGGTATGT
1 GGGTATGT
34134826 CACACGGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.14, C:0.16, G:0.42, T:0.28
Consensus pattern (18 bp):
GGGTATGTGGGCCTACAC
Found at i:34135384 original size:18 final size:18
Alignment explanation
Indices: 34135351--34135394 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
34135341 CTACTTCTGT
**
34135351 AATCTGAATCTGAATTT-
1 AATCTGAATCCAAATTTG
34135368 AGATCTGAATCCAAATTTG
1 A-ATCTGAATCCAAATTTG
34135387 AATCTGAA
1 AATCTGAA
34135395 ACTGTATCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
17 1 0.04
18 21 0.91
19 1 0.04
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.34
Consensus pattern (18 bp):
AATCTGAATCCAAATTTG
Found at i:34136753 original size:7 final size:8
Alignment explanation
Indices: 34136726--34136770 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
34136716 AAATAATTTA
34136726 AAAAATAT
1 AAAAATAT
*
34136734 GAAAATAT
1 AAAAATAT
34136742 AAAAATAT
1 AAAAATAT
34136750 -AAAATAT
1 AAAAATAT
*
34136757 AAAACTATT
1 AAAAATA-T
34136766 AAAAA
1 AAAAA
34136771 AAGATCATGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
7 7 0.23
8 19 0.61
9 5 0.16
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.24
Consensus pattern (8 bp):
AAAAATAT
Found at i:34136753 original size:15 final size:16
Alignment explanation
Indices: 34136726--34136760 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
34136716 AAATAATTTA
34136726 AAAAATATGAAAATAT
1 AAAAATATGAAAATAT
34136742 AAAAATAT-AAAATAT
1 AAAAATATGAAAATAT
34136757 AAAA
1 AAAA
34136761 CTATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (16 bp):
AAAAATATGAAAATAT
Found at i:34137406 original size:24 final size:24
Alignment explanation
Indices: 34137366--34137425 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
34137356 TAGGTAAAAT
34137366 AAATAAAAAATATTAAAAATATAAG
1 AAATAAAAAA-ATTAAAAATATAAG
* *
34137391 CAAATAAAAAAA-TAAATATATGAG
1 -AAATAAAAAAATTAAAAATATAAG
34137415 AAATAAAAAAA
1 AAATAAAAAAA
34137426 ATAACAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 11 0.34
24 10 0.31
25 1 0.03
26 10 0.31
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (24 bp):
AAATAAAAAAATTAAAAATATAAG
Found at i:34137426 original size:24 final size:25
Alignment explanation
Indices: 34137366--34137429 Score: 78
Period size: 24 Copynumber: 2.6 Consensus size: 25
34137356 TAGGTAAAAT
*
34137366 AAATAAAAAATATTAAAAATATAAGC
1 AAATAAAAAA-AATAAAAATATAAGC
* *
34137392 AAAT-AAAAAAATAAATATATGAG-
1 AAATAAAAAAAATAAAAATATAAGC
34137415 AAATAAAAAAAATAA
1 AAATAAAAAAAATAA
34137430 CAAAAAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
23 4 0.12
24 21 0.62
25 5 0.15
26 4 0.12
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (25 bp):
AAATAAAAAAAATAAAAATATAAGC
Found at i:34140304 original size:29 final size:30
Alignment explanation
Indices: 34140253--34140319 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 30
34140243 ACAGTTTTTT
*
34140253 TAAATAATAAACAATTAATAATTATTTTA-AA
1 TAAA-AATAAAAAATTAATAATT-TTTTATAA
* *
34140284 TAAAAATAAAAAATT-TTAATTTTTTATTA
1 TAAAAATAAAAAATTAATAATTTTTTATAA
34140313 TAAAAAT
1 TAAAAAT
34140320 GATTTTCTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 5 0.16
29 13 0.41
30 10 0.31
31 4 0.12
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
TAAAAATAAAAAATTAATAATTTTTTATAA
Found at i:34148342 original size:33 final size:33
Alignment explanation
Indices: 34148305--34148374 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
34148295 GGCTTAAAAA
34148305 GGTAGTAGTAGAGACTTTGAGATTAATGTAGAT
1 GGTAGTAGTAGAGACTTTGAGATTAATGTAGAT
34148338 GGTAGTAGTAGAGACTTTGAGATTAATGTAGAT
1 GGTAGTAGTAGAGACTTTGAGATTAATGTAGAT
34148371 GGTA
1 GGTA
34148375 TTTTGGGTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.33, C:0.03, G:0.31, T:0.33
Consensus pattern (33 bp):
GGTAGTAGTAGAGACTTTGAGATTAATGTAGAT
Found at i:34153018 original size:23 final size:23
Alignment explanation
Indices: 34152988--34153057 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
34152978 AATTGAGCTG
34152988 AACAGTAAGCTCCGTAGAGTTGA
1 AACAGTAAGCTCCGTAGAGTTGA
*
34153011 AACAGTAAGC-CCCTA-AGGATTGA
1 AACAGTAAGCTCCGTAGA-G-TTGA
* *
34153034 AACAGTAAGCTCCGAAGAGCTGA
1 AACAGTAAGCTCCGTAGAGTTGA
34153057 A
1 A
34153058 CGATAAGCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 1 0.03
22 5 0.13
23 28 0.72
24 4 0.10
25 1 0.03
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (23 bp):
AACAGTAAGCTCCGTAGAGTTGA
Found at i:34153066 original size:22 final size:23
Alignment explanation
Indices: 34153039--34153091 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
34153029 ATTGAAACAG
* *
34153039 TAAGCTCCGAAGAGCT-GAACGA
1 TAAGCTCAGAAGAGCTAAAACGA
*
34153061 TAAGCTCATAAGAGCTAAAACGA
1 TAAGCTCAGAAGAGCTAAAACGA
34153084 TAAGCTCA
1 TAAGCTCA
34153092 TACAAGCTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.42, C:0.21, G:0.21, T:0.17
Consensus pattern (23 bp):
TAAGCTCAGAAGAGCTAAAACGA
Found at i:34153099 original size:23 final size:23
Alignment explanation
Indices: 34153039--34153093 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
34153029 ATTGAAACAG
** *
34153039 TAAGCTCCGAAGAGCT-GAACGA
1 TAAGCTCATAAGAGCTAAAACGA
34153061 TAAGCTCATAAGAGCTAAAACGA
1 TAAGCTCATAAGAGCTAAAACGA
34153084 TAAGCTCATA
1 TAAGCTCATA
34153094 CAAGCTGTGG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
TAAGCTCATAAGAGCTAAAACGA
Found at i:34155197 original size:20 final size:21
Alignment explanation
Indices: 34155160--34155199 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
34155150 GATGAAATTC
34155160 AATTTCGTTCCAAGATCTTGT
1 AATTTCGTTCCAAGATCTTGT
34155181 AATTTC-TTCC-AGAATCTTG
1 AATTTCGTTCCAAG-ATCTTG
34155200 ACGTAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 10 0.56
21 6 0.33
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (21 bp):
AATTTCGTTCCAAGATCTTGT
Found at i:34161876 original size:27 final size:27
Alignment explanation
Indices: 34161846--34162024 Score: 259
Period size: 27 Copynumber: 6.6 Consensus size: 27
34161836 ATATTAAGTC
* *
34161846 CGCACACTCAGTGCTATATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
34161873 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
34161901 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
34161928 CGTACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
* *
34161955 CGCACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
34161982 CGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGT-CAACT
34162010 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34162025 GTACAATTTA
Statistics
Matches: 140, Mismatches: 10, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
27 95 0.68
28 45 0.32
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:34161914 original size:55 final size:54
Alignment explanation
Indices: 34161846--34162024 Score: 268
Period size: 55 Copynumber: 3.3 Consensus size: 54
34161836 ATATTAAGTC
* * * *
34161846 CGCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTC-AACT
* * *
34161901 CGCACACTTAGTGCTACATAGTCAATTCGTACACTTAGTGCAACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAACT
*
34161955 CGCACACTTAGTGCAACATAGTCAATTCGCACACTTAGTGCTACATAGTCCAACT
1 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGT-CAACT
34162010 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
34162025 GTACAATTTA
Statistics
Matches: 111, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
54 49 0.44
55 62 0.56
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTACATAGTCAACT
Found at i:34162517 original size:16 final size:16
Alignment explanation
Indices: 34162493--34162529 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
34162483 CACGAATGGC
*
34162493 ATATTTATGTATATAT
1 ATATATATGTATATAT
34162509 ATATATATGTATATAT
1 ATATATATGTATATAT
34162525 ATATA
1 ATATA
34162530 CTTCGGAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (16 bp):
ATATATATGTATATAT
Found at i:34163890 original size:18 final size:17
Alignment explanation
Indices: 34163863--34163914 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 17
34163853 ATACTCTTAT
*
34163863 AACATATAATCCTTGTA
1 AACATATAATCCATGTA
34163880 AACATTATAATCCATGT-
1 AACA-TATAATCCATGTA
* *
34163897 AACATGTAATTCATGTA
1 AACATATAATCCATGTA
34163914 A
1 A
34163915 GGTATATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 10 0.33
17 9 0.30
18 11 0.37
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (17 bp):
AACATATAATCCATGTA
Found at i:34164137 original size:22 final size:23
Alignment explanation
Indices: 34164112--34164166 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 23
34164102 GAGCTGAACG
34164112 GTAAGCTCCGT-GAACTGAAACA
1 GTAAGCTCCGTAGAACTGAAACA
* *
34164134 GTAAGC-CCCTAAGGACTGAAACA
1 GTAAGCTCCGT-AGAACTGAAACA
*
34164157 ATAAGCTCCG
1 GTAAGCTCCG
34164167 AAGAGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.12
22 6 0.23
23 15 0.58
24 2 0.08
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.16
Consensus pattern (23 bp):
GTAAGCTCCGTAGAACTGAAACA
Found at i:34164206 original size:23 final size:23
Alignment explanation
Indices: 34164175--34164218 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
34164165 CGAAGAGTTG
34164175 AACGATAAGCTCATAAGAGCTAA
1 AACGATAAGCTCATAAGAGCTAA
* *
34164198 AACGGTAAGCTCATACGAGCT
1 AACGATAAGCTCATAAGAGCT
34164219 GTGGTGAGTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.18
Consensus pattern (23 bp):
AACGATAAGCTCATAAGAGCTAA
Found at i:34166117 original size:55 final size:54
Alignment explanation
Indices: 34166022--34166171 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
34166012 CTACTTTGTT
* ** * *
34166022 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
34166076 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
34166131 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
34166172 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:34166134 original size:27 final size:27
Alignment explanation
Indices: 34165994--34166171 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
34165984 TAAATTGTAC
34165994 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
34166021 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
34166047 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
34166075 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
34166103 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
34166130 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
34166157 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34166172 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:34166135 original size:82 final size:81
Alignment explanation
Indices: 34165995--34166150 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
34165985 AAATTGTACA
* * * *
34165995 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
34166060 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
34166076 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
34166139 TGTGCGAGTTGA
63 TGTGCGAATTGA
34166151 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:34174119 original size:55 final size:54
Alignment explanation
Indices: 34174024--34174173 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
34174014 CTACTTTGTT
* ** * *
34174024 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
34174078 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
34174133 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
34174174 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:34174136 original size:27 final size:27
Alignment explanation
Indices: 34173996--34174173 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
34173986 TAAATTGTAC
34173996 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
34174023 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
34174049 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
34174077 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
34174105 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
34174132 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
34174159 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34174174 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:34174137 original size:82 final size:81
Alignment explanation
Indices: 34173997--34174152 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
34173987 AAATTGTACA
* * * *
34173997 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
34174062 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
34174078 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
34174141 TGTGCGAGTTGA
63 TGTGCGAATTGA
34174153 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:34182079 original size:111 final size:110
Alignment explanation
Indices: 34181926--34182152 Score: 375
Period size: 111 Copynumber: 2.1 Consensus size: 110
34181916 CACGGCTAAG
*
34181926 ACACACGGCCGTGTCGTTGCCTGTGTGTTTACTACTGGCAATCTGTTTTGCATCATTAGGGTGCA
1 ACACACGGCCGTGTCGTTGCCTGTGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCA
**
34181991 GGGGACACACGACCGAATCACACACCCCTAGGGCAGGCCGTGTGTC
66 GGGGACACACGACCGAATCACACACCCCTA-GGCAAACCGTGTGTC
*
34182037 ACACACGGCCGTGTC-TCTGCCTGTGTGTTTACTATTGGCAATCTATTTTGCATCATTAGGGTGC
1 ACACACGGCCGTGTCGT-TGCCTGTGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGC
* *
34182101 AGGGGACACACGATCGAATCATACACCCCTAGGCAAACCGTGTGTC
65 AGGGGACACACGACCGAATCACACACCCCTAGGCAAACCGTGTGTC
34182147 ACACAC
1 ACACAC
34182153 TGCCAAGATA
Statistics
Matches: 109, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 20 0.18
111 89 0.82
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (110 bp):
ACACACGGCCGTGTCGTTGCCTGTGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCA
GGGGACACACGACCGAATCACACACCCCTAGGCAAACCGTGTGTC
Found at i:34182175 original size:111 final size:111
Alignment explanation
Indices: 34181949--34182175 Score: 314
Period size: 111 Copynumber: 2.0 Consensus size: 111
34181939 TCGTTGCCTG
*
34181949 TGTGTTTACTACTGGCAATCTGTTTTGCATCATTAGGGTGCAGGGGACACACGACCGAATCACAC
1 TGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCAGGGGACACACGACCGAATCACAC
** ** * **
34182014 ACCCCTAGGGCAGGCCGTGTGTCACACACGGCCGTGTCTCTGCCTG
66 ACCCCTAGGGCAAACCGTGTGTCACACACGGCCAAGTCTATGCCCA
* * *
34182060 TGTGTTTACTATTGGCAATCTATTTTGCATCATTAGGGTGCAGGGGACACACGATCGAATCATAC
1 TGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCAGGGGACACACGACCGAATCACAC
*
34182125 ACCCCTA-GGCAAACCGTGTGTCACACACTGCCAAGATAC-ATGCCCA
66 ACCCCTAGGGCAAACCGTGTGTCACACACGGCCAAG-T-CTATGCCCA
34182171 TGTGT
1 TGTGT
34182176 CTAACCATGT
Statistics
Matches: 102, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
110 23 0.23
111 78 0.76
112 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (111 bp):
TGTGTTTACTACTGGCAATCTATTTTGCATCATTAGGGTGCAGGGGACACACGACCGAATCACAC
ACCCCTAGGGCAAACCGTGTGTCACACACGGCCAAGTCTATGCCCA
Found at i:34183361 original size:45 final size:45
Alignment explanation
Indices: 34183311--34183398 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
34183301 AAACATATGC
*
34183311 CACATACATCATGAATTCAGACCACAACTCAATAAGTTTAGATGT
1 CACATACATCATGAACTCAGACCACAACTCAATAAGTTTAGATGT
* *
34183356 CACATATATCATGAACTCAGACCATAACTCAATAAGTTTAGAT
1 CACATACATCATGAACTCAGACCACAACTCAATAAGTTTAGAT
34183399 CACATAGCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.27
Consensus pattern (45 bp):
CACATACATCATGAACTCAGACCACAACTCAATAAGTTTAGATGT
Found at i:34196767 original size:47 final size:46
Alignment explanation
Indices: 34196691--34196860 Score: 187
Period size: 47 Copynumber: 3.6 Consensus size: 46
34196681 ACTGACGTTG
* * * *
34196691 CTAAAATACATTGTAGATATACCACTGGTCGAGAAGGTGACTGCGCA
1 CTAAAATACGTTGTGGATAAACCACTGGTCGAGCAGGTGACTGC-CA
* * * *
34196738 CTAAAATACGTTATGGATAAACCAGTGGTCAAGCAGGTGACTACCGA
1 CTAAAATACGTTGTGGATAAACCACTGGTCGAGCAGGTGACTGCC-A
* * * * *
34196785 CTAAAGTACGTTGTGGATAAACCACTGGTAGAGCAGATGATTGTCAA
1 CTAAAATACGTTGTGGATAAACCACTGGTCGAGCAGGTGACTG-CCA
*
34196832 CTAAGATACGTTGTGGATAAACCACTGGT
1 CTAAAATACGTTGTGGATAAACCACTGGT
34196861 GAAGTAGGTG
Statistics
Matches: 102, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
46 1 0.01
47 100 0.98
48 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (46 bp):
CTAAAATACGTTGTGGATAAACCACTGGTCGAGCAGGTGACTGCCA
Found at i:34197582 original size:21 final size:21
Alignment explanation
Indices: 34197540--34197582 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
34197530 ACACTATCCG
**
34197540 TATTTGGTAGCTTCTTTGCAA
1 TATTTGGTAGCTTCTTCACAA
34197561 TATTTGGTAGCTT-TTCCACAA
1 TATTTGGTAGCTTCTT-CACAA
34197582 T
1 T
34197583 TTGGTGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.21, C:0.16, G:0.16, T:0.47
Consensus pattern (21 bp):
TATTTGGTAGCTTCTTCACAA
Found at i:34200045 original size:3 final size:3
Alignment explanation
Indices: 34200037--34200082 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
34200027 CAATTAATTG
34200037 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
34200083 ATATCTTTTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:34214149 original size:26 final size:26
Alignment explanation
Indices: 34214103--34214169 Score: 75
Period size: 26 Copynumber: 2.6 Consensus size: 26
34214093 CTCAAATTGT
*
34214103 ATTTCTCATTTCA-TCTTATAATATCA
1 ATTTCTCATTTCATTCTAATAAT-TCA
*
34214129 CTTTCTCATTTCATTC-AATAATTCA
1 ATTTCTCATTTCATTCTAATAATTCA
*
34214154 ATTTATCAATTTCATT
1 ATTTCTC-ATTTCATT
34214170 TGATTTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
25 8 0.23
26 25 0.71
27 2 0.06
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTCTCATTTCATTCTAATAATTCA
Found at i:34215419 original size:6 final size:6
Alignment explanation
Indices: 34215401--34215496 Score: 65
Period size: 6 Copynumber: 15.8 Consensus size: 6
34215391 AAGAAACATT
* *
34215401 ATCAGA A-CTAGA ATCAGA ATCAGA AT-AGA ATTAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
34215449 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ACCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
34215497 GTAACAGAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 18
0.72 0.10 0.18
Matches are distributed among these distances:
5 9 0.13
6 54 0.76
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:34215476 original size:31 final size:31
Alignment explanation
Indices: 34215410--34215505 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 31
34215400 TATCAGAACT
* * *
34215410 AGAATCAGAATCAGAAT-AGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
34215440 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
* *
34215471 AGAATCAAAATCAGAACCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGTATCAGGTAAC
34215502 AGAA
1 AGAA
34215506 AATGCAATCC
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
30 17 0.28
31 43 0.72
ACGTcount: A:0.48, C:0.15, G:0.20, T:0.18
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGTATCAGGTAAC
Found at i:34215702 original size:27 final size:26
Alignment explanation
Indices: 34215639--34215740 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
34215629 GCTCAGTTAT
* * *
34215639 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAAAGCCACCAGA-A
*
34215666 CAGATATTGTGGCAAAGCCACTAGAA
1 CAGATATTGTGGCAAAGCCACCAGAA
*
34215692 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAAAGCCACCAG-AA
* *
34215720 CAGATAATATGGCAAAGCCAC
1 CAGATATTGTGGCAAAGCCAC
34215741 TTAACAGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
26 7 0.11
27 49 0.77
28 8 0.12
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAAAGCCACCAGAA
Found at i:34215723 original size:54 final size:53
Alignment explanation
Indices: 34215639--34215741 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 53
34215629 GCTCAGTTAT
* * * *
34215639 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAAAGCCACTAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCACTAGAA
* *
34215692 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATATGGCAAAGCCACT
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCACT
34215742 TAACAGAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 6 0.14
54 37 0.86
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.20
Consensus pattern (53 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATATGGCAAAGCCACTAGAA
Found at i:34215926 original size:22 final size:22
Alignment explanation
Indices: 34215898--34215962 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
34215888 GCAAATACGT
*
34215898 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
34215920 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
34215942 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
34215963 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:34216446 original size:27 final size:27
Alignment explanation
Indices: 34216389--34217334 Score: 1323
Period size: 27 Copynumber: 35.3 Consensus size: 27
34216379 GGGGCAAAAT
* * * *
34216389 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34216415 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216442 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216469 GGTAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216496 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34216523 GGTAATTCTACCCTACA-GGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34216549 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216576 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216603 GATAATTCTACCC-AGCAGGGGTATTTC
1 GGTAATTCTACCCTA-CAGGGGTATTTC
* * *
34216630 GGTAATTTTACCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* **
34216657 GATAATTCTACCCTGTAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216684 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34216711 GATAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34216738 TGTAATTCTACCCTGCAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * **
34216765 GGTAATTTTACCCTATAGGGGTATACC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216792 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216819 GGTAATTCTACCCTA-TGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34216845 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34216871 TGGTAATTCTACCCTATAGGGGTATTTC
1 -GGTAATTCTACCCTACAGGGGTATTTC
*
34216899 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34216926 GGTAATTCTACCCTACAGGGGTA-TTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * **
34216952 CGTAATTCTACCCTATAAGGGTATCCC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
34216979 GGTAATTCTACTTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34217006 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
34217033 GGTAATTCTATCCTATAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
34217060 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34217087 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
34217114 GATAATTCTACCCTACTGGGATATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34217141 GGTAATTCTACCCTAC--GGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34217166 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
34217193 AGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34217220 GGTAATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
34217247 GATAATTCTACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34217274 GGTAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
34217301 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
34217328 AGTAATT
1 GGTAATT
34217335 TTGTAAATCG
Statistics
Matches: 822, Mismatches: 88, Indels: 19
0.88 0.09 0.02
Matches are distributed among these distances:
25 24 0.03
26 91 0.11
27 703 0.86
28 4 0.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:34217349 original size:27 final size:27
Alignment explanation
Indices: 34217327--34217429 Score: 116
Period size: 27 Copynumber: 3.8 Consensus size: 27
34217317 AGGGGTATTT
34217327 CAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAA
* *
34217354 CGGTAATTTTGTAAATCGAGGGTGAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAA
* * * *
34217381 CGGTAATTCTATAAATCAAGGGTAAAA
1 CAGTAATTTTGTAAATCGAGGGTAAAA
* * **
34217408 CGGTAATTCTACAAATCGAGGG
1 CAGTAATTTTGTAAATCGAGGG
34217430 CATTTCAGTA
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (27 bp):
CAGTAATTTTGTAAATCGAGGGTAAAA
Found at i:34217441 original size:54 final size:55
Alignment explanation
Indices: 34217319--34217442 Score: 137
Period size: 54 Copynumber: 2.3 Consensus size: 55
34217309 TACCCTACAG
* * * * **
34217319 GGGT-ATTTCAGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTCATTTCAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTACAAATCGA
* ** *
34217373 GGGTGA-AACGGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTACAAATCGA
1 GGGTCATTTCAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTACAAATCGA
34217427 GGG-CATTTCAGTAATT
1 GGGTCATTTCAGTAATT
34217443 TGGTAAACTA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
53 1 0.02
54 53 0.96
55 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.31
Consensus pattern (55 bp):
GGGTCATTTCAGTAATTCTATAAATCAAGGGTAAAACGGTAATTCTACAAATCGA
Found at i:34218661 original size:21 final size:22
Alignment explanation
Indices: 34218615--34218661 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
34218605 CAATCCTTTA
34218615 ATCAATTTAAATCAAAATTTCT
1 ATCAATTTAAATCAAAATTTCT
*
34218637 ATCAA-TTAAACTCATAATTTC-
1 ATCAATTTAAA-TCAAAATTTCT
34218658 ATCA
1 ATCA
34218662 TTAGATCAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.45, C:0.17, G:0.00, T:0.38
Consensus pattern (22 bp):
ATCAATTTAAATCAAAATTTCT
Found at i:34224041 original size:40 final size:40
Alignment explanation
Indices: 34223986--34224253 Score: 464
Period size: 40 Copynumber: 6.7 Consensus size: 40
34223976 AGCATTTGAA
34223986 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34224026 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34224066 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34224106 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34224146 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34224186 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
34224226 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34224254 AGGTGTTTGC
Statistics
Matches: 215, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 215 1.00
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:34231288 original size:40 final size:40
Alignment explanation
Indices: 34231229--34231495 Score: 437
Period size: 40 Copynumber: 6.7 Consensus size: 40
34231219 GAACATTGGA
* *
34231229 ATATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34231269 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
34231309 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34231349 ACATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
34231389 ATATATCCGGGCTATGA-CCGAAGGCAATTATGCGGGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
34231428 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTC
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
34231468 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
34231496 ATGTGTTTGT
Statistics
Matches: 211, Mismatches: 15, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
39 36 0.17
40 175 0.83
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:34231530 original size:119 final size:119
Alignment explanation
Indices: 34231231--34231497 Score: 399
Period size: 119 Copynumber: 2.2 Consensus size: 119
34231221 ACATTGGAAT
* * * * * *
34231231 ATATCCGGGTTATGACCCGAAGGCAATTATGCGAGTTGACATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAAATATGCGAGTGGATATATCCGGGCTATGA-CCGAAGGCA
* *
34231296 ATTATGCGAGTTGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGAC
65 ATTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAC
* *
34231351 ATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTGATATATCCGGGCTATGACCGAAGGCAA
1 ATATCCGGGCTAAGACCCGAAGGCAAATATGCGAGTGGATATATCCGGGCTATGACCGAAGGCAA
* *
34231416 TTATGCGGGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAT
66 TTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAC
* *
34231470 ATGTCCGGGTTAAGACCCGAAGGCAAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAAT
34231498 GTGTTTGTGG
Statistics
Matches: 136, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 85 0.62
120 51 0.38
ACGTcount: A:0.30, C:0.21, G:0.28, T:0.22
Consensus pattern (119 bp):
ATATCCGGGCTAAGACCCGAAGGCAAATATGCGAGTGGATATATCCGGGCTATGACCGAAGGCAA
TTATGCGAGATGATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTCAC
Found at i:34234928 original size:40 final size:39
Alignment explanation
Indices: 34234844--34235067 Score: 265
Period size: 40 Copynumber: 5.6 Consensus size: 39
34234834 TTGAATGATG
* * * * *
34234844 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
34234884 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
34234924 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
34234962 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
*
34235002 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
34235043 -CCGGGCTATGTCACGAAGGCATTTG
1 TCCGGGCTAAGTC-CGAAGGCATTTG
34235068 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 35 0.21
39 1 0.01
40 118 0.72
41 9 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:34235085 original size:80 final size:78
Alignment explanation
Indices: 34234883--34235090 Score: 219
Period size: 80 Copynumber: 2.7 Consensus size: 78
34234873 AAGTGACCAT
* ** * *
34234883 ATCCGGACTAAGATC-CGAAGGCATTTGTGCGAGAT-ACTAATTCCGGGCTAAGCCGAAGGCATT
1 ATCCGGGCTAAG-TCACGAAGGCATTTGAACGAG-TGACTAAATCCGGGTTAAGCCGAAGGCATT
34234946 TGTGCGAGTTACTAA
64 TGTGCGAGTTACTAA
* * ** *
34234961 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCTCGAAGGCATT
1 ATCCGGGCTAAGTCACGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAG-C-CGAAGGCATT
34235026 TGTGCGAGTTACTATA
64 TGTGCGAGTTACTA-A
* *
34235042 A-CCGGGCTATGTCACGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAA
1 ATCCGGGCTAAGTCACGAAGGCATTTGAACGAGTGA-CTAAATCCGGGTTAA
34235091 ATTCCGAAGG
Statistics
Matches: 113, Mismatches: 11, Indels: 11
0.84 0.08 0.08
Matches are distributed among these distances:
77 3 0.03
78 43 0.38
79 8 0.07
80 57 0.50
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (78 bp):
ATCCGGGCTAAGTCACGAAGGCATTTGAACGAGTGACTAAATCCGGGTTAAGCCGAAGGCATTTG
TGCGAGTTACTAA
Found at i:34239645 original size:15 final size:15
Alignment explanation
Indices: 34239625--34239661 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
34239615 ATAAAATTGG
34239625 TGTCTATCATGAACA
1 TGTCTATCATGAACA
*
34239640 TGTCTAGCATGAACA
1 TGTCTATCATGAACA
34239655 TGTCTAT
1 TGTCTAT
34239662 AGAACCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (15 bp):
TGTCTATCATGAACA
Found at i:34243673 original size:49 final size:49
Alignment explanation
Indices: 34243617--34243836 Score: 238
Period size: 48 Copynumber: 4.5 Consensus size: 49
34243607 CCGGTACGCA
*
34243617 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCTGATACACG
*
34243666 TAGTAGCCTGCACTTA-TACTACACA--CAGACCTAACCATCTGATACA-G
1 TAGTAGCCTGCACTTAGTACTACACATGC-GACC-AACTATCTGATACACG
* * * * * * *
34243713 TAGTAGCCTGCAC-TAGTACTACACACGTGATCGAAGTTAT-TAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-CTATCT-GATACACG
* * *
34243763 TAGTAGCCTGCACTTAGTACTACACATGCGACTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCTGATACACG
34243812 TAGTAGCCTG-ACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
34243837 CGTGACCTCA
Statistics
Matches: 144, Mismatches: 16, Indels: 23
0.79 0.09 0.13
Matches are distributed among these distances:
46 3 0.02
47 27 0.19
48 41 0.28
49 41 0.28
50 17 0.12
51 15 0.10
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAACTATCTGATACACG
Found at i:34243835 original size:99 final size:96
Alignment explanation
Indices: 34243617--34243843 Score: 284
Period size: 99 Copynumber: 2.3 Consensus size: 96
34243607 CCGGTACGCA
* * *
34243617 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACATAGTAGCCTGCACTTA
*
34243682 TACTACACACAGACCTAACCATCTGATACAG
66 TACTACACACAGACCTAACAATCTGATACAG
* * *
34243713 TAGTAGCCTGCAC-TAGTACTACACACGTGATCGAAGTTAT-TAGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCT-GATACACATAGTAGCCTGCAC
*
34243776 TTAGTACTACACATGC-GA-CTAACAATCTGGTACACG
63 TTA-TACTACACA--CAGACCTAACAATCTGATACA-G
34243812 TAGTAGCCTG-ACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC
34243844 TCACAATAGT
Statistics
Matches: 114, Mismatches: 9, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
95 15 0.13
96 17 0.15
97 25 0.22
98 26 0.23
99 30 0.26
100 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (96 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCTGATACACATAGTAGCCTGCACTTA
TACTACACACAGACCTAACAATCTGATACAG
Found at i:34243850 original size:49 final size:50
Alignment explanation
Indices: 34243617--34243850 Score: 241
Period size: 49 Copynumber: 4.8 Consensus size: 50
34243607 CCGGTACGCA
* **
34243617 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
* *
34243666 TAGTAGCCTGCACTTA-TACTACACAC-AGACCTAACCATCTGATACA-G
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
* * * ** * * *
34243713 TAGTAGCCTGCAC-TAGTACTACACACGTGATCGAAGTTAT-TAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAA-CAATCT-GATACACG
* *
34243763 TAGTAGCCTGCACTTAGTACTACACATGCGA-CTAACAATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
* *
34243812 TAGTAGCCTG-ACTTAGTACTACACACGTGACCTCACAAT
1 TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAAT
34243851 AGTTATTTGT
Statistics
Matches: 154, Mismatches: 22, Indels: 18
0.79 0.11 0.09
Matches are distributed among these distances:
46 2 0.01
47 28 0.18
48 45 0.29
49 47 0.31
50 17 0.11
51 15 0.10
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGCGACCTAACAATCTGATACACG
Found at i:34263537 original size:10 final size:10
Alignment explanation
Indices: 34263512--34263578 Score: 64
Period size: 10 Copynumber: 6.6 Consensus size: 10
34263502 CATAAGATTT
34263512 TGATAT-ACA
1 TGATATGACA
34263521 TGATATGACA
1 TGATATGACA
*
34263531 AGATATGACA
1 TGATATGACA
34263541 TGATATGCACA
1 TGATATG-ACA
* **
34263552 CGATATGTTA
1 TGATATGACA
*
34263562 TGAGATGCACA
1 TGATATG-ACA
34263573 TGATAT
1 TGATAT
34263579 ACTCATTATA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
9 6 0.13
10 24 0.53
11 15 0.33
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (10 bp):
TGATATGACA
Found at i:34263558 original size:21 final size:21
Alignment explanation
Indices: 34263513--34263578 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
34263503 ATAAGATTTT
34263513 GATAT-ACATGATATG-ACAA
1 GATATGACATGATATGCACAA
*
34263532 GATATGACATGATATGCACAC
1 GATATGACATGATATGCACAA
** * *
34263553 GATATGTTATGAGATGCACAT
1 GATATGACATGATATGCACAA
34263574 GATAT
1 GATAT
34263579 ACTCATTATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 5 0.12
20 10 0.25
21 25 0.62
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (21 bp):
GATATGACATGATATGCACAA
Found at i:34267388 original size:37 final size:37
Alignment explanation
Indices: 34267338--34267484 Score: 249
Period size: 37 Copynumber: 4.0 Consensus size: 37
34267328 CTTTAGCTCA
* *
34267338 GACAAAATCTCCACACGAAGTTATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
34267375 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
* *
34267412 GACATAATCTTCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
*
34267449 GACATAATCTCCACACGTAGTCATCGGGTCTTACCC
1 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCC
34267485 AGAATATATT
Statistics
Matches: 105, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 105 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (37 bp):
GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
Found at i:34267753 original size:47 final size:47
Alignment explanation
Indices: 34267692--34267876 Score: 271
Period size: 47 Copynumber: 3.9 Consensus size: 47
34267682 TACATATATT
* * * *
34267692 TCACATTAGCCATTCGACTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
* * *
34267739 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
* *
34267786 TCACATTGGCCATTTGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
**
34267833 TCACATTGGCCATTCGACCTTATCACATATATGCACATTCACAT
1 TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACAT
34267877 CAAAATTATC
Statistics
Matches: 124, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 124 1.00
ACGTcount: A:0.28, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGACCTTATCACATATATGCATGTTCACATTCA
Found at i:34267860 original size:22 final size:22
Alignment explanation
Indices: 34267738--34267860 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
34267728 GTTCATATTC
*
34267738 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGACCTT
*
34267760 ATCACACATAT-G-CATGCTC-ACATT
1 AT--CACAT-TGGCCAT--TCGACCTT
* *
34267784 CATCACATTGGCCATTTGGCCTT
1 -ATCACATTGGCCATTCGACCTT
* *
34267807 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGACCTT
34267831 CATCACATTGGCCATTCGACCTT
1 -ATCACATTGGCCATTCGACCTT
34267854 ATCACAT
1 ATCACAT
34267861 ATATGCACAT
Statistics
Matches: 74, Mismatches: 11, Indels: 32
0.63 0.09 0.27
Matches are distributed among these distances:
22 21 0.28
23 20 0.27
24 19 0.26
25 14 0.19
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGACCTT
Found at i:34268959 original size:11 final size:11
Alignment explanation
Indices: 34268943--34268968 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34268933 CTTTTCCCTT
34268943 ATCCGACTTTG
1 ATCCGACTTTG
34268954 ATCCGACTTTG
1 ATCCGACTTTG
34268965 ATCC
1 ATCC
34268969 TCTTTGCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (11 bp):
ATCCGACTTTG
Found at i:34276557 original size:28 final size:29
Alignment explanation
Indices: 34276526--34276582 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 29
34276516 TAAAGAGATT
*
34276526 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
* * *
34276554 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGACAAAAATGTAAATTGAGGGATTAA
34276583 ATTGTGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.32
Consensus pattern (29 bp):
TTTGACAAAAATGTAAATTGAGGGATTAA
Found at i:34276591 original size:29 final size:28
Alignment explanation
Indices: 34276527--34276591 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 28
34276517 AAAGAGATTT
* * *
34276527 TTGACAAAAATGTCAATTAGGGATTAAT
1 TTGAGAAAAATGTAAATTAGGGATTAAA
* *
34276555 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGAGAAAAATGTAAATT-AGGGATTAAA
*
34276584 TTGTGAAA
1 TTGAGAAA
34276592 TAAATGAAAG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.42, C:0.03, G:0.25, T:0.31
Consensus pattern (28 bp):
TTGAGAAAAATGTAAATTAGGGATTAAA
Found at i:34278461 original size:46 final size:45
Alignment explanation
Indices: 34278404--34278528 Score: 139
Period size: 46 Copynumber: 2.7 Consensus size: 45
34278394 ATTGAGATAA
*
34278404 GTGCTAATGTAAGACATGTCTGGGACATGCATCAGCCT-CGAGAC
1 GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGAC
* * * *
34278448 GTAAGCTAGTGTAAGACATGTCTGAGACATGCAT-TGGCTACGAGAT
1 GT--GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGAC
34278494 GTG-TCAGTGTAAGACCATGTCTGGGACATGTCATC
1 GTGCT-AGTGTAAGA-CATGTCTGGGACATG-CATC
34278529 GACACAGATA
Statistics
Matches: 68, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 12 0.18
45 17 0.25
46 38 0.56
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (45 bp):
GTGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTACGAGAC
Found at i:34300294 original size:28 final size:28
Alignment explanation
Indices: 34300263--34300328 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 28
34300253 TAAAGAGATT
*
34300263 TTTGACAAAAATGTCAATT-AGGGATTAA
1 TTTGA-AAAAATGTAAATTGAGGGATTAA
* *
34300291 TTTGAGAAAAGTGTAAATTGAGGGGTTAA
1 TTTGA-AAAAATGTAAATTGAGGGATTAA
*
34300320 ATTGAAAAA
1 TTTGAAAAA
34300329 TAAATGGAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 20 0.62
29 12 0.38
ACGTcount: A:0.44, C:0.03, G:0.23, T:0.30
Consensus pattern (28 bp):
TTTGAAAAAATGTAAATTGAGGGATTAA
Found at i:34301119 original size:33 final size:33
Alignment explanation
Indices: 34301075--34301155 Score: 126
Period size: 33 Copynumber: 2.5 Consensus size: 33
34301065 GTTAATAACA
34301075 CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
* * *
34301108 CAGTATTAGTACAGTTTGGGCCAAAGCCCTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
*
34301141 CAGTATCGGTACAGT
1 CAGTATCAGTACAGT
34301156 GCAAAATGCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGCCCAAAGCCCTATT
Found at i:34301327 original size:26 final size:27
Alignment explanation
Indices: 34301295--34301358 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
34301285 AGCGTAGCTG
* *
34301295 CCAGTAACAGTAAGTGTGGC-AAGCCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
* *
34301321 CCAGTAACAATAAATGTGACAAAGTCA
1 CCAGTAACAGTAAATGTGACAAAGCCA
34301348 CCAGT-ACAGTA
1 CCAGTAACAGTA
34301359 CTTCCTCCAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.69
27 10 0.31
ACGTcount: A:0.41, C:0.22, G:0.20, T:0.17
Consensus pattern (27 bp):
CCAGTAACAGTAAATGTGACAAAGCCA
Found at i:34308846 original size:33 final size:33
Alignment explanation
Indices: 34308804--34308884 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
34308794 GTGAATAACA
34308804 CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
* *
34308837 CAGTATCAGTACAGTTTGGGCCAAAGCCTTATT
1 CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
*
34308870 CAGTATCGGTACAGT
1 CAGTATCAGTACAGT
34308885 GCAAAATGCA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.28
Consensus pattern (33 bp):
CAGTATCAGTACAGTCTGGCCCAAAGCCTTATT
Found at i:34309070 original size:26 final size:27
Alignment explanation
Indices: 34309027--34309085 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
34309017 AGCGTAGCTT
* *
34309027 CCAGTAACAGTAAGTGTGGC-AAGCCA
1 CCAGTAACAATAAGTGTGACAAAGCCA
*
34309053 CCAGTAACAATATA-TGTGACAAAGTCA
1 CCAGTAACAATA-AGTGTGACAAAGCCA
34309080 CCAGTA
1 CCAGTA
34309086 CAGTACTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (27 bp):
CCAGTAACAATAAGTGTGACAAAGCCA
Found at i:34309898 original size:37 final size:37
Alignment explanation
Indices: 34309848--34309921 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
34309838 CACTTTATTA
34309848 CCTAACCTAAACATAATCCACTTAATCCCTGAAAACT
1 CCTAACCTAAACATAATCCACTTAATCCCTGAAAACT
34309885 CCTAACCTAAACATAATCCACTTAATCCCTGAAAACT
1 CCTAACCTAAACATAATCCACTTAATCCCTGAAAACT
34309922 ACTTACCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.41, C:0.32, G:0.03, T:0.24
Consensus pattern (37 bp):
CCTAACCTAAACATAATCCACTTAATCCCTGAAAACT
Found at i:34314382 original size:24 final size:22
Alignment explanation
Indices: 34314352--34314400 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 22
34314342 TGGTTAGAAG
34314352 TTTAAGT-TATTGATTTTGATATGT
1 TTTAAGTGTA-TG-TTTTGAT-TGT
34314376 TTTAAGTGTATGTTTTGATTGT
1 TTTAAGTGTATGTTTTGATTGT
34314398 TTT
1 TTT
34314401 GGCCATGAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 7 0.29
24 9 0.38
25 2 0.08
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.61
Consensus pattern (22 bp):
TTTAAGTGTATGTTTTGATTGT
Found at i:34314946 original size:22 final size:22
Alignment explanation
Indices: 34314921--34314966 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
34314911 TTATTATATG
34314921 AATTGATATATGT-TTCTAAATT
1 AATTGA-ATATGTGTTCTAAATT
*
34314943 AATTGAATATTTGTTCTAAATT
1 AATTGAATATGTGTTCTAAATT
34314965 AA
1 AA
34314967 GATAAATTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (22 bp):
AATTGAATATGTGTTCTAAATT
Found at i:34314996 original size:27 final size:27
Alignment explanation
Indices: 34314964--34315020 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
34314954 TGTTCTAAAT
34314964 TAAGATAAATTGCTCTATTTGGTTCTG
1 TAAGATAAATTGCTCTATTTGGTTCTG
*
34314991 TAAGATAAATTGTTCTATTTGGTTCTG
1 TAAGATAAATTGCTCTATTTGGTTCTG
34315018 TAA
1 TAA
34315021 CACTTTGATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.46
Consensus pattern (27 bp):
TAAGATAAATTGCTCTATTTGGTTCTG
Found at i:34316088 original size:12 final size:14
Alignment explanation
Indices: 34316058--34316098 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
34316048 TAAAAAATGT
34316058 TAAAGAAATAGATA
1 TAAAGAAATAGATA
34316072 TAAAG-AATAGA-A
1 TAAAGAAATAGATA
34316084 TAAAGGAAAATAGAT
1 TAAA-G-AAATAGAT
34316099 GCTCATGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.22
13 7 0.30
14 5 0.22
15 6 0.26
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (14 bp):
TAAAGAAATAGATA
Found at i:34317896 original size:19 final size:21
Alignment explanation
Indices: 34317872--34317910 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
34317862 TTGTTAGCTA
34317872 ATATAT-GTTAAA-TGTTGAT
1 ATATATAGTTAAATTGTTGAT
*
34317891 ATATATATTTAAATTGTTGA
1 ATATATAGTTAAATTGTTGA
34317911 ATTATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 5 0.29
21 6 0.35
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (21 bp):
ATATATAGTTAAATTGTTGAT
Found at i:34324441 original size:18 final size:18
Alignment explanation
Indices: 34324414--34324457 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
34324404 TCAAAGGCCA
*
34324414 CAACATCCCCCAGGCTTT
1 CAACAACCCCCAGGCTTT
34324432 CAACAACCCCCAGGCTTT
1 CAACAACCCCCAGGCTTT
*
34324450 AAACAACC
1 CAACAACC
34324458 ATTTTACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.32, C:0.43, G:0.09, T:0.16
Consensus pattern (18 bp):
CAACAACCCCCAGGCTTT
Found at i:34326324 original size:18 final size:20
Alignment explanation
Indices: 34326303--34326345 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34326293 GCACACAGCC
*
34326303 GCGTGTTCG-TAC-ACACGG
1 GCGTGTGCGATACTACACGG
*
34326321 GCGTGTGGGATACTACACGG
1 GCGTGTGCGATACTACACGG
34326341 GCGTG
1 GCGTG
34326346 GGAGAAGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 3 0.14
20 11 0.52
ACGTcount: A:0.16, C:0.23, G:0.40, T:0.21
Consensus pattern (20 bp):
GCGTGTGCGATACTACACGG
Found at i:34326820 original size:30 final size:30
Alignment explanation
Indices: 34326763--34326820 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
34326753 TAGGCAGTTT
* * *
34326763 CACACGGGTAATCCACATGCTCGTGTGTGA
1 CACACGGGTAATCCACACGCCCATGTGTGA
34326793 CACACGGGTAGA-CCACACGCCCATGTGT
1 CACACGGGTA-ATCCACACGCCCATGTGT
34326821 CATGGCCGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.24, C:0.31, G:0.26, T:0.19
Consensus pattern (30 bp):
CACACGGGTAATCCACACGCCCATGTGTGA
Found at i:34331473 original size:119 final size:120
Alignment explanation
Indices: 34331267--34331489 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
34331257 TCCTCGTTCA
**
34331267 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
* *
34331332 TTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * ** *
34331387 AATGCCTTCGGG-CTTAGCCCGAA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGAATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCAG
* * *
34331449 ATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
64 ATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAACCCGGA
34331490 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCAGAT
ATAGTAACTAGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:34331489 original size:40 final size:40
Alignment explanation
Indices: 34331265--34331489 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
34331255 GCTCCTCGTT
* *
34331265 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
34331305 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
34331345 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
34331385 CCAATGCCTTCGGG-CTTAGCCC-GAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
34331424 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
34331465 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
34331490 CATCATTCAA
Statistics
Matches: 160, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
38 4 0.03
39 28 0.17
40 114 0.71
41 14 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:34337540 original size:22 final size:22
Alignment explanation
Indices: 34337497--34337555 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 22
34337487 AACCAGCCAC
* *
34337497 CCTTTTCTTCTCCATTTTTC-TT
1 CCTTTTCTT-TTCTTTTTTCTTT
34337519 CCTTTTCTTTTCTTTTTATCTTT
1 CCTTTTCTTTTCTTTTT-TCTTT
*
34337542 TCTTTTC-TTTCTTT
1 CCTTTTCTTTTCTTT
34337556 CTCTCCCCTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 6 0.19
22 18 0.56
23 8 0.25
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.71
Consensus pattern (22 bp):
CCTTTTCTTTTCTTTTTTCTTT
Found at i:34337585 original size:26 final size:26
Alignment explanation
Indices: 34337538--34337595 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
34337528 TTCTTTTTAT
* * *
34337538 CTTTTCTTTTCTTTCTTTCTCTC-CC
1 CTTTTCTTTCCTTTCCTCCTCTCTCC
*
34337563 CTTTTCTTTCCCTTTCCTCCTCTCTTC
1 CTTTTCTTT-CCTTTCCTCCTCTCTCC
34337590 CTTTTC
1 CTTTTC
34337596 ACCCCTCCTC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 9 0.33
26 11 0.41
27 7 0.26
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (26 bp):
CTTTTCTTTCCTTTCCTCCTCTCTCC
Found at i:34340996 original size:9 final size:9
Alignment explanation
Indices: 34340984--34341020 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34340974 TATATTTTAA
34340984 TATTCGAAT
1 TATTCGAAT
*
34340993 TATTTGAAT
1 TATTCGAAT
*
34341002 TATTCGAGT
1 TATTCGAAT
34341011 TATTCGAAT
1 TATTCGAAT
34341020 T
1 T
34341021 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34342734 original size:6 final size:6
Alignment explanation
Indices: 34342723--34342773 Score: 61
Period size: 6 Copynumber: 8.8 Consensus size: 6
34342713 ATTTATTAAC
* * *
34342723 ATTTTT ATTTTT ATTTTC ATTTTT ATTTTC A-TTTT ATTTTC A-TTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
34342769 ATTTT
1 ATTTT
34342774 GTCTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
5 8 0.22
6 29 0.78
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (6 bp):
ATTTTT
Found at i:34342737 original size:18 final size:18
Alignment explanation
Indices: 34342714--34342751 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
34342704 AGTCTATTTA
34342714 TTTATTAACATTTTTATT
1 TTTATTAACATTTTTATT
**
34342732 TTTATTTTCATTTTTATT
1 TTTATTAACATTTTTATT
34342750 TT
1 TT
34342752 CATTTTATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTAACATTTTTATT
Found at i:34342745 original size:11 final size:11
Alignment explanation
Indices: 34342731--34342773 Score: 77
Period size: 11 Copynumber: 3.8 Consensus size: 11
34342721 ACATTTTTAT
34342731 TTTTATTTTCA
1 TTTTATTTTCA
34342742 TTTTTATTTTCA
1 -TTTTATTTTCA
34342754 TTTTATTTTCA
1 TTTTATTTTCA
34342765 TTTTATTTT
1 TTTTATTTT
34342774 GTCTTTTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
11 20 0.65
12 11 0.35
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTATTTTCA
Found at i:34342784 original size:23 final size:23
Alignment explanation
Indices: 34342731--34342773 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
34342721 ACATTTTTAT
34342731 TTTTATTTTCATTTTTATTTTCA
1 TTTTATTTTCATTTTTATTTTCA
34342754 TTTTATTTTCA-TTTTATTTT
1 TTTTATTTTCATTTTTATTTT
34342774 GTCTTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTATTTTCATTTTTATTTTCA
Done.