Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000561.1 Hibiscus syriacus cultivar Beakdansim tig00001095_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: 332011
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
File 1 of 2
Found at i:1265 original size:3 final size:3
Alignment explanation
Indices: 1257--1306 Score: 82
Period size: 3 Copynumber: 16.0 Consensus size: 3
1247 TTATATTTGT
1257 TTA TTA TTA TTAA TTA TTA TTAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
1304 TTA
1 TTA
1307 CAAATGGACA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 39 0.87
4 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:1272 original size:10 final size:10
Alignment explanation
Indices: 1259--1306 Score: 82
Period size: 10 Copynumber: 5.0 Consensus size: 10
1249 ATATTTGTTT
1259 ATTATTATTA
1 ATTATTATTA
1269 ATTATTATTA
1 ATTATTATTA
1279 ATTATTATT-
1 ATTATTATTA
1288 ATTATTATT-
1 ATTATTATTA
1297 ATTATTATTA
1 ATTATTATTA
1307 CAAATGGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
9 18 0.49
10 19 0.51
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATTATTATTA
Found at i:7143 original size:30 final size:30
Alignment explanation
Indices: 7086--7153 Score: 82
Period size: 30 Copynumber: 2.3 Consensus size: 30
7076 ATGCATAAGT
* **
7086 AAATTCATCATTTATAATGCATCACCAATA
1 AAATGCATCATTTATAACACATCACCAATA
* *
7116 AAATGCATCATTTATAGCACATTACCAATA
1 AAATGCATCATTTATAACACATCACCAATA
*
7146 ATATGCAT
1 AAATGCAT
7154 TCGAATTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (30 bp):
AAATGCATCATTTATAACACATCACCAATA
Found at i:15247 original size:39 final size:40
Alignment explanation
Indices: 15193--15294 Score: 111
Period size: 39 Copynumber: 2.5 Consensus size: 40
15183 CATCAGCTGG
* * *
15193 CCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCC-G-A
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCA-CCCCAGAA
*
15232 CCAGATCTCCTCATCACGTAGGAGTCGTGTCACCCCAGATAA
1 CCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCCAG--AA
15274 CCAG-TCGTCCTCATCACGTAG
1 CCAGATC-TCCTCATCACGTAG
15295 AACCATGTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
38 4 0.07
39 29 0.54
41 2 0.04
42 19 0.35
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.23
Consensus pattern (40 bp):
CCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCCAGAA
Found at i:15330 original size:46 final size:45
Alignment explanation
Indices: 15261--15355 Score: 140
Period size: 46 Copynumber: 2.1 Consensus size: 45
15251 AGGAGTCGTG
15261 TCACCCCAGATAACCAGTCGTCCTCATCACGTA-GAACCATGTTA
1 TCACCCCAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTA
*
15305 TCACCCCATAGATAACCAG-CTGTCCTCATCACGTAGGAACCGTGTTA
1 TCACCCC--AGATAACCAGTC-GTCCTCATCACGTAGGAACCATGTTA
15352 TCAC
1 TCAC
15356 ATCTCCTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
44 7 0.15
45 1 0.02
46 24 0.52
47 14 0.30
ACGTcount: A:0.28, C:0.34, G:0.15, T:0.23
Consensus pattern (45 bp):
TCACCCCAGATAACCAGTCGTCCTCATCACGTAGGAACCATGTTA
Found at i:15485 original size:43 final size:40
Alignment explanation
Indices: 15374--15490 Score: 103
Period size: 43 Copynumber: 2.9 Consensus size: 40
15364 AAGATGGCCA
*
15374 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCCCGACC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCCACGACC
* * * * *
15414 AGATA-TCCTCATCATGTAGGATCCGTGTCA-CCCTTAGACGACC
1 AGA-ACTCTTCATCACGTATGAGCAGTGTCATCCC----ACGACC
* *
15457 CGAACTCTTCATCACGTATGAGCAGTGTCGTCCC
1 AGAACTCTTCATCACGTATGAGCAGTGTCATCCC
15491 CAACAACCAG
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
39 3 0.05
40 23 0.40
41 1 0.02
42 1 0.02
43 26 0.46
44 3 0.05
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (40 bp):
AGAACTCTTCATCACGTATGAGCAGTGTCATCCCACGACC
Found at i:26730 original size:12 final size:12
Alignment explanation
Indices: 26713--26743 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
26703 TAGCACACTC
26713 GATTGCTTGTTG
1 GATTGCTTGTTG
26725 GATTGCTTGTTG
1 GATTGCTTGTTG
*
26737 GTTTGCT
1 GATTGCT
26744 AGTTTTGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.10, G:0.32, T:0.52
Consensus pattern (12 bp):
GATTGCTTGTTG
Found at i:32714 original size:2 final size:2
Alignment explanation
Indices: 32701--32737 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
32691 TCCCATAGAT
* *
32701 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
32738 TATGAAAGCG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34673 original size:81 final size:80
Alignment explanation
Indices: 34552--36047 Score: 1456
Period size: 81 Copynumber: 18.6 Consensus size: 80
34542 TCTGAAGACA
* * ** * **
34552 GTTGTTGTTTCTCTTGAGAAGCTAGCATTGTTGAGTCTTCTTTCTTGGAATCCTCGTCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTT-TTGGAATCCTCGTCTTGCTGA
* *
34617 GGCTCTGAAGACAATT
65 GGCTCCGAAGACGATT
* * *
34633 GATGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTTCTTGGAATCCTTGTCTAGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTT-TTGGAATCCTCGTCTTGCTGA
* *
34698 CGTTCCGAAGACGATT
65 GGCTCCGAAGACGATT
* * * * *
34714 GCTGTTGGTTCTCTTGAGAAGATGGTGCTGGTGAACCTTCTATTTTGGAATCCTCGTCTTGCTCA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCT-TTTTGGAATCCTCGTCTTGCTGA
*
34779 GGCTCCGAAGACAATT
65 GGCTCCGAAGACGATT
* * * * *
34795 GTTGTTGGTTCTCTTGAGAAGCTAGCGCTGATGAACCTTCTTTCTTGGAATCATTGCCTTGGTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTT-TTGGAATCCTCGTCTTGCTGA
* * *
34860 TGCTCCAAAGACGGTT
65 GGCTCCGAAGACGATT
* * * * * ** *
34876 GTTGCTGGTTCTCGTGAGAAGCTGGCTCTAATGATCCTTCCTTTTCAGAATCCTCATCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT-CTTTTTGGAATCCTCGTCTTGCTGA
*
34941 GGCTCCGAAGATGATT
65 GGCTCCGAAGACGATT
** ** *
34957 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGAT-AACCTTCCTTTTCAGAATTGTCATCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT-CTTTTTGGAATCCTCGTCTTGCTGA
* *
35021 GGCTCCGAAAACAATT
65 GGCTCCGAAGACGATT
* * * * * * * *
35037 GCAT-TTGGTTCTCTTGAGAAGCTGGCTCTAATGATCCTTCCTTTTCGAAATCCTCATCTTGTTG
1 G-TTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT-CTTTTTGGAATCCTCGTCTTGCTG
* *
35101 AGGCTTCGAAGATGATT
64 AGGCTCCGAAGACGATT
* * * *
35118 GTTGTTGGTTCTCTTGAGAAGCTGGCACTGATGCA-CTTCCCTTTTCGGAA---TCATCTTGCTG
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT--CTTTTTGGAATCCTCGTCTTGCTG
*
35179 AGGCTCCGAAGACAATT
64 AGGCTCCGAAGACGATT
* * *
35196 GCATT-TT-GTTCTCTTGAGAAGCTGGCTCTAATGATCCTTCCTTTTTGGAATCCTCGTCTTGCT
1 G--TTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT-CTTTTTGGAATCCTCGTCTTGCT
*
35259 GAGGCTCCCAAGACGATT
63 GAGGCTCCGAAGACGATT
* * * * * * * *
35277 GTTGTTGGTTATATTGACAAGCTGGTGCTGATGAACTTTCCTTTTCGGAATCCTCGGCTTGTTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT-CTTTTTGGAATCCTCGTCTTGCTGA
* **
35342 GGCTCTGAAGAAAATT
65 GGCTCCGAAGACGATT
* * * * * * *
35358 GCAT-TTGGTTCTCTTGAGAAGCTGGCTCTAAT-AATCCTTCCTTTTCGGAATCCTCATCTAGTT
1 G-TTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAA-CCTT-CTTTTTGGAATCCTCGTCTTGCT
* *
35421 GAGGCTCTGAAGATGATT
63 GAGGCTCCGAAGACGATT
* * * * *
35439 GTTGTTGGTTCTCTTGAGAGGCTGGTGCTGATGATCCTTCCTTTTCGGAATCCTCGTCTTGTTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTT-CTTTTTGGAATCCTCGTCTTGCTGA
*
35504 GGCTCCGAAGATGATT
65 GGCTCCGAAGACGATT
**
35520 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCATTTTTGGAATCCTCACCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTC-TTTTTGGAATCCTCGTCTTGCTGA
*
35585 GGCTCTGAAGACGATT
65 GGCTCCGAAGACGATT
* * *
35601 GCTGTTGGTTCTCTTGAGAAGCTGGCGTTGATGAACCTT-TTTTTCCAGAATCCTCGTCTTGCTG
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTTTT--GGAATCCTCGTCTTGCTG
* * *
35665 AGGCTCAGAAGACAACT
64 AGGCTCCGAAGACGATT
* * ** **
35682 GCTGTTGGTTCTCTTGAGAAACTGGAACTGATGAACCTTCTTTTCCAGAATCCTCGTCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTTT-TGGAATCCTCGTCTTGCTGA
35747 GGCTCCGAAGACGATT
65 GGCTCCGAAGACGATT
* * * * * *
35763 GTTTTTGGTTCTCTTCAGAAGTTGGCTCTGATGAACCTTCTTTCTTGGAATCCTTGTTTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTT-TTGGAATCCTCGTCTTGCTGA
* * *
35828 GACTCTGAAGACAATT
65 GGCTCCGAAGACGATT
* * * *
35844 GTTGTTGGTTCTCTTCAGAAGCTGGTGCTGATGAACCTTCTTTAATGGAATCCTTGTCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTT-TTGGAATCCTCGTCTTGCTGA
* * * *
35909 GCCTCTGAAAATGATT
65 GGCTCCGAAGACGATT
* ** * * * *
35925 GCTGTTGGTTCTCTTGAGAAATTGGCACTGATGAACCTTCTTTTTTGGTATCTTTGTCTTGCTGA
1 GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTC-TTTTTGGAATCCTCGTCTTGCTGA
* *
35990 CGCTCCAAAGACGATT
65 GGCTCCGAAGACGATT
* * *
36006 TTTGTTGGTTCAT-TTTAGAAGCT-GCTCT--TGAACCTTCTTTTT
1 GTTGTTGGTTC-TCTTGAGAAGCTGGCGCTGATGAACCTTCTTTTT
36048 TGGCCTCCTT
Statistics
Matches: 1184, Mismatches: 204, Indels: 58
0.82 0.14 0.04
Matches are distributed among these distances:
77 5 0.00
78 68 0.06
79 12 0.01
80 87 0.07
81 995 0.84
82 17 0.01
ACGTcount: A:0.19, C:0.21, G:0.24, T:0.37
Consensus pattern (80 bp):
GTTGTTGGTTCTCTTGAGAAGCTGGCGCTGATGAACCTTCTTTTTGGAATCCTCGTCTTGCTGAG
GCTCCGAAGACGATT
Found at i:36565 original size:18 final size:18
Alignment explanation
Indices: 36542--36581 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
36532 GCCAAGGCTA
36542 GAGCCCTGGCTTGATGAT
1 GAGCCCTGGCTTGATGAT
*
36560 GAGCCCTGGTTTGATGAT
1 GAGCCCTGGCTTGATGAT
36578 GAGC
1 GAGC
36582 GAACACATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.17, C:0.20, G:0.35, T:0.28
Consensus pattern (18 bp):
GAGCCCTGGCTTGATGAT
Found at i:42198 original size:2 final size:2
Alignment explanation
Indices: 42191--42215 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
42181 ATTTTGTAAA
42191 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
42216 AATTTTATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45400 original size:23 final size:23
Alignment explanation
Indices: 45328--45379 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
45318 ATACTGTACA
* *
45328 ATATAAGCACTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
45351 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
45374 ATATAA
1 ATATAA
45380 GTGTTACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:45772 original size:435 final size:438
Alignment explanation
Indices: 45222--46097 Score: 1589
Period size: 435 Copynumber: 2.0 Consensus size: 438
45212 ATACATATAA
* *
45222 TTACTAAATTGATATCTTAAAACTCACTCAAAATATAACCTTAAATTAATGTTTTCCACAGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
* * *
45287 ATAAGTATGTACACTTTTATAAAAATGATAGATACTGTACAATATAAGCACTACCTATTACATTA
66 AAAAGTATGGACACTTTTATAAAAAGGATAGATACTGTACAATATAAGCACTACCTATTACATTA
** * *
45352 TATAAACGCTACCTATTACATTATATAAGTGTTACTTATTACATCATATTTTTACCTATTATATT
131 TATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATT
45417 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
196 GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
45482 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCAACAATATTAATTTAATAATTTCATTTGCACA
261 AATTTTTTTTAATAGTGTTTCATGTTTTCCACCAACAATATTAATTTAATAATTTCATTTGCACA
*
45547 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAATATTA
326 AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTAAAATTTAACAATATTA
45612 ACCAAAGATAATAATAAATATGT-A-ATATATGTTTATTGTTTTTAAT
391 ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
45658 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTT-CACAGTGAA
1 TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
**
45722 AAAAGTATGGACACTTTTATAAAAAGGATAGATAACT-TACAATATAAGCACTACCTATTATGTT
66 AAAAGTATGGACACTTTTATAAAAAGGATAGAT-ACTGTACAATATAAGCACTACCTATTACATT
45786 ATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATAT
130 ATATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATAT
*
45851 TGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
195 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTT
*
45916 CAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTGCAC
260 CAATTTTTTTTAATAGTGTTTCATGTTTTCCACCAACAATATTAATTTAATAATTTCATTTGCAC
45981 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTAAAATTTAACAATATT
325 AAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTAAAATTTAACAATATT
46046 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
390 AACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
46095 TTA
1 TTA
46098 ATAATAATAT
Statistics
Matches: 423, Mismatches: 14, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
435 341 0.81
436 57 0.13
437 25 0.06
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (438 bp):
TTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAA
AAAAGTATGGACACTTTTATAAAAAGGATAGATACTGTACAATATAAGCACTACCTATTACATTA
TATAAACGCTACCTATTACATTATATAAACGCTACCTATTACATCATATTTTTACCTATTATATT
GAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAGTTATGTAATTTATGTTTC
AATTTTTTTTAATAGTGTTTCATGTTTTCCACCAACAATATTAATTTAATAATTTCATTTGCACA
AAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTAAAATTTAACAATATTA
ACCAAAGATAATAATAAATATGTAATATATATGTTTATTGTTTTTAAT
Found at i:45790 original size:23 final size:23
Alignment explanation
Indices: 45763--45835 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
45753 ATAACTTACA
* * **
45763 ATATAAGCACTACCTATTATGTT
1 ATATAAACGCTACCTATTACATT
45786 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTATTACATT
*
45809 ATATAAACGCTACCTATTACATC
1 ATATAAACGCTACCTATTACATT
45832 ATAT
1 ATAT
45836 TTTTACCTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:48938 original size:183 final size:183
Alignment explanation
Indices: 48627--49204 Score: 1034
Period size: 183 Copynumber: 3.2 Consensus size: 183
48617 ACTCCTATTG
* *
48627 TAAAGTACCGACACAATATTTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACAG
48692 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGG-TTCTGATGTGT
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTC-GATGTGT
*
48756 AAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGAGA
130 AAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
48810 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACAG
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACAG
*
48875 GTATATTTATACCGGTTATATTACAAAATTATCTATTATATTATAATTCTGGGTTTCGATGTGTA
66 GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGTA
* *
48940 AATGTCGACACTTTTTGATAAGGTATCGACACATTTTTCTTCCAATCTGGACA
131 AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
48993 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCA
1 TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAA-CA
*
49058 -GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTCCGATGTGT
65 GGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGT
*
49122 AAATGTCGACACTTTTTGACAAGGTATCAACACATTTTTCTTCCATTCTGGACA
130 AAATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
**
49176 TAAAGTACATACACAATATTAAAAAGTGT
1 TAAAGTACCGACACAATATTAAAAAGTGT
49205 GAAAACTTTG
Statistics
Matches: 380, Mismatches: 13, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
183 375 0.99
184 5 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACAG
GTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTCTGGGTTTCGATGTGTA
AATGTCGACACTTTTTGACAAGGTATCGACACATTTTTCTTCCATTCTGGACA
Found at i:50725 original size:2 final size:2
Alignment explanation
Indices: 50718--50762 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
50708 ACATGTTACA
50718 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50759 AT AT
1 AT AT
50763 GAGTTGTGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:51169 original size:30 final size:30
Alignment explanation
Indices: 51135--51386 Score: 497
Period size: 30 Copynumber: 8.4 Consensus size: 30
51125 GGTTCTTCGG
51135 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51165 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51195 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51225 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51255 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51285 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51315 GACCTCTGGATAGTTA-CGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51344 GACCTCTGGATAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTTTAT
51374 GACCTCTGGATAG
1 GACCTCTGGATAG
51387 GTCATTCGGA
Statistics
Matches: 221, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
29 29 0.13
30 192 0.87
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTTTAT
Found at i:53004 original size:6 final size:6
Alignment explanation
Indices: 52993--53073 Score: 56
Period size: 6 Copynumber: 13.5 Consensus size: 6
52983 ACTTGTTTGG
* * * *
52993 ATCATC ATCATC ATCATC GTCATC ATCTTC AT-AGTC ATCTTC ATCGTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCA-TC ATCATC ATCATC
* * * * * *
53041 AGCTTC ATCGTC ATCTTC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATC
53074 GTCAGATTCA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 60 1.00
ACGTcount: A:0.22, C:0.32, G:0.07, T:0.38
Consensus pattern (6 bp):
ATCATC
Found at i:53010 original size:12 final size:12
Alignment explanation
Indices: 52997--53073 Score: 84
Period size: 12 Copynumber: 6.4 Consensus size: 12
52987 GTTTGGATCA
*
52997 TCATCATCATCA
1 TCATCATCATCT
*
53009 TCGTCATCATCT
1 TCATCATCATCT
53021 TCAT-AGTCATCT
1 TCATCA-TCATCT
* *
53033 TCATCGTCAGCT
1 TCATCATCATCT
*
53045 TCATCGTCATCT
1 TCATCATCATCT
*
53057 TCATCGTCATCT
1 TCATCATCATCT
53069 TCATC
1 TCATC
53074 GTCAGATTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
11 1 0.02
12 56 0.98
ACGTcount: A:0.21, C:0.32, G:0.08, T:0.39
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:53074 original size:12 final size:12
Alignment explanation
Indices: 53015--53077 Score: 108
Period size: 12 Copynumber: 5.2 Consensus size: 12
53005 ATCATCGTCA
*
53015 TCATCTTCATAG
1 TCATCTTCATCG
53027 TCATCTTCATCG
1 TCATCTTCATCG
*
53039 TCAGCTTCATCG
1 TCATCTTCATCG
53051 TCATCTTCATCG
1 TCATCTTCATCG
53063 TCATCTTCATCG
1 TCATCTTCATCG
53075 TCA
1 TCA
53078 GATTCATCTT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 48 1.00
ACGTcount: A:0.19, C:0.32, G:0.10, T:0.40
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:53083 original size:12 final size:12
Alignment explanation
Indices: 53019--53085 Score: 89
Period size: 12 Copynumber: 5.6 Consensus size: 12
53009 TCGTCATCAT
* *
53019 CTTCATAGTCAT
1 CTTCATCGTCAG
53031 CTTCATCGTCAG
1 CTTCATCGTCAG
*
53043 CTTCATCGTCAT
1 CTTCATCGTCAG
*
53055 CTTCATCGTCAT
1 CTTCATCGTCAG
53067 CTTCATCGTCAG
1 CTTCATCGTCAG
*
53079 ATTCATC
1 CTTCATC
53086 TTCATTGACC
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 50 1.00
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.39
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:53089 original size:6 final size:6
Alignment explanation
Indices: 53015--53090 Score: 71
Period size: 6 Copynumber: 12.7 Consensus size: 6
53005 ATCATCGTCA
** * * * *
53015 TCATCT TCATAG TCATCT TCATCG TCAGCT TCATCG TCATCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* **
53063 TCATCT TCATCG TCAGAT TCATCT TCAT
1 TCATCT TCATCT TCATCT TCATCT TCAT
53091 TGACCGCGTG
Statistics
Matches: 52, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
6 52 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (6 bp):
TCATCT
Found at i:53090 original size:24 final size:24
Alignment explanation
Indices: 52997--53077 Score: 108
Period size: 24 Copynumber: 3.4 Consensus size: 24
52987 GTTTGGATCA
* * * *
52997 TCATCATCATCATCGTCATCATCT
1 TCATCGTCATCTTCATCGTCATCT
* *
53021 TCATAGTCATCTTCATCGTCAGCT
1 TCATCGTCATCTTCATCGTCATCT
53045 TCATCGTCATCTTCATCGTCATCT
1 TCATCGTCATCTTCATCGTCATCT
53069 TCATCGTCA
1 TCATCGTCA
53078 GATTCATCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 49 1.00
ACGTcount: A:0.21, C:0.32, G:0.09, T:0.38
Consensus pattern (24 bp):
TCATCGTCATCTTCATCGTCATCT
Found at i:55087 original size:200 final size:200
Alignment explanation
Indices: 54566--55349 Score: 1338
Period size: 200 Copynumber: 3.9 Consensus size: 200
54556 TTTAAATTAG
* * * * *
54566 TATCGACA-AAACATTAAACAGTGTCGATACA-TATTATATACCAATTCTCTCATAAAACCGGTA
1 TATCGACACAAAC-TAAAAAAGTGTCGACACATTATT-TAGACCTATTCTCTCATAAAACCGGTA
* *
54629 TACTTGTACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTATGG
64 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGG
**
54694 GATCGACACTTTTTATATATGGATCGACACTTTATTGTTGCACCCTGTTTGCCATTCATTATGGA
129 GATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTATGGA
54759 CCAAAAA
194 CCAAAAA
*
54766 TATCGACACAAACTAAAAAAAGTGTCGACACATTATTTAGACCTATTATCTCATAAAACCGGTAT
1 TATCGACACAAACT-AAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTAT
*
54831 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTACGGG
65 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGG
*
54896 ATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCATGTTTGCCATTCATTATGGAC
130 ATCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTATGGAC
54961 CAAAAA
195 CAAAAA
*
54967 TATCGACACAAACTACAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
* *
55032 TTTGTACCGGTTAGTTTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
*
55097 TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTCTGGACC
131 TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTATGGACC
55162 AAAAA
196 AAAAA
*
55167 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
* *
55232 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
* *
55297 TCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTGTTTGCCAT
131 TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCAT
55350 ATTGTAAATT
Statistics
Matches: 554, Mismatches: 27, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
200 363 0.66
201 187 0.34
202 4 0.01
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (200 bp):
TATCGACACAAACTAAAAAAGTGTCGACACATTATTTAGACCTATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTTCGATGTTTATGGGA
TCGACACTTTTTATATATGGATCGACACTTTACGGTTGCACCCTGTTTGCCATTCATTATGGACC
AAAAA
Found at i:55489 original size:19 final size:19
Alignment explanation
Indices: 55461--55508 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
55451 ATATATTCAC
55461 ATAC-AAATTATAAATCGT
1 ATACAAAATTATAAATCGT
*
55479 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
55498 ATACAAAATTA
1 ATACAAAATTA
55509 ACCCTACATT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.54, C:0.10, G:0.02, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:57324 original size:32 final size:32
Alignment explanation
Indices: 57288--57351 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
57278 CATCTTAATA
*
57288 TCACCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCTCAACACCCCAACTTCTTTCACCACT
* *
57320 TCACCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCTCAACACCCCAACTTCTTTCACCACT
57352 CCATCTATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (32 bp):
TCACCCTCAACACCCCAACTTCTTTCACCACT
Found at i:57410 original size:21 final size:21
Alignment explanation
Indices: 57385--57449 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
57375 CCCCTTATGC
* *
57385 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
57406 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
*
57427 CTATCAAGTTTCTCTTCGACT
1 CTCTCAAGTTTCTCTTCGACT
57448 CT
1 CT
57450 TGATTGTCTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.17, C:0.31, G:0.11, T:0.42
Consensus pattern (21 bp):
CTCTCAAGTTTCTCTTCGACT
Found at i:59634 original size:20 final size:19
Alignment explanation
Indices: 59588--59634 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
59578 TCTGGTATCA
*
59588 TTTTACCGGTTTTATCATT
1 TTTTACCGATTTTATCATT
*
59607 TTGATACCGATTTTATCATAT
1 TT-TTACCGATTTTATCAT-T
59628 TTTTACC
1 TTTTACC
59635 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.21, C:0.17, G:0.09, T:0.53
Consensus pattern (19 bp):
TTTTACCGATTTTATCATT
Found at i:59800 original size:20 final size:20
Alignment explanation
Indices: 59777--59814 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59767 GTTTTACCAA
59777 TTTTATCAT-TTTGTTACCGG
1 TTTTATCATATTT-TTACCGG
59797 TTTTATCATATTTTTACC
1 TTTTATCATATTTTTACC
59815 TGGTATATCG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (20 bp):
TTTTATCATATTTTTACCGG
Found at i:59867 original size:162 final size:163
Alignment explanation
Indices: 59690--60006 Score: 433
Period size: 163 Copynumber: 2.0 Consensus size: 163
59680 TTATAGGCGC
* * *
59690 TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-TAAAGTATCGACACTTTCAA
1 TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAATACCGACACTTTAAA
* *** *
59754 TATATCCGGTAACG-T-TTTACCAATTTTATCATTTTGTTACCGGTTTTATCATATTTTTACCTG
66 TATATCCAGT-A-GTTCTTTACCAATTTTATCATTTCAATACCGGTTTTATCATAGTTTTACCTG
*
59817 GTATATCGTTTTGGATCGATACATTTTATAGGATT
129 GTATATCGTTTTGGATCGACACATTTTATAGGATT
* * *
59852 TAAAATTGTTTCTCTTTTAAATTCACGAAGTGTCGATCCTTATATTAAAATACCGACACTTTAAA
1 TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAATACCGACACTTTAAA
* * ** * *
59917 TGTATCTAGTAGTTCTTTACCGGTTTTATCATTTCAATACCGGTTTTGTCATAGTTTTACCTGTT
66 TATATCCAGTAGTTCTTTACCAATTTTATCATTTCAATACCGGTTTTATCATAGTTTTACCTGGT
59982 ATATCGTTTTGGATCGACACATTTT
131 ATATCGTTTTGGATCGACACATTTT
60007 TAATTTGGAT
Statistics
Matches: 134, Mismatches: 18, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
161 1 0.01
162 43 0.32
163 90 0.67
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.44
Consensus pattern (163 bp):
TAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATATTAAAATACCGACACTTTAAA
TATATCCAGTAGTTCTTTACCAATTTTATCATTTCAATACCGGTTTTATCATAGTTTTACCTGGT
ATATCGTTTTGGATCGACACATTTTATAGGATT
Found at i:64778 original size:12 final size:13
Alignment explanation
Indices: 64752--64784 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
64742 AAAAATATAT
*
64752 AATTTTGTATAAA
1 AATTTTATATAAA
64765 AATTTTATATAAA
1 AATTTTATATAAA
64778 AATTTTA
1 AATTTTA
64785 AAATTATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (13 bp):
AATTTTATATAAA
Found at i:70160 original size:14 final size:15
Alignment explanation
Indices: 70135--70164 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
70125 TAATCACTCA
70135 AAAAAATATATATTT
1 AAAAAATATATATTT
70150 AAAAAAT-TATATTT
1 AAAAAATATATATTT
70164 A
1 A
70165 TTTAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAAATATATATTT
Found at i:70811 original size:2 final size:2
Alignment explanation
Indices: 70799--70849 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
70789 TATTTTACTT
* * *
70799 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TC TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
70841 TA T- TA TA TA
1 TA TA TA TA TA
70850 GTTCGCAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:71435 original size:24 final size:24
Alignment explanation
Indices: 71408--71463 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
71398 AGGAGATCAC
* *
71408 CAGAACCGGACGAGAGAAACCATA
1 CAGAACCAGACGAGAGAAACCACA
71432 CAGAACCAGACGAGAGAAACCACA
1 CAGAACCAGACGAGAGAAACCACA
71456 CAGAACCA
1 CAGAACCA
71464 TCACCAAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.29, G:0.21, T:0.02
Consensus pattern (24 bp):
CAGAACCAGACGAGAGAAACCACA
Found at i:73016 original size:17 final size:17
Alignment explanation
Indices: 72996--73028 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
72986 CTCACTAACC
*
72996 CTTTTATTTTTTGTTCT
1 CTTTTATTTTGTGTTCT
73013 CTTTTATTTTGTGTTC
1 CTTTTATTTTGTGTTC
73029 ATCGTTTGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.09, T:0.73
Consensus pattern (17 bp):
CTTTTATTTTGTGTTCT
Found at i:76317 original size:106 final size:105
Alignment explanation
Indices: 75427--76313 Score: 1448
Period size: 105 Copynumber: 8.5 Consensus size: 105
75417 ATTGTACAGC
* *
75427 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAGCGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
75492 ACGACGAAGGGACCGCTGGTTGTCAATAAACAATTTCCTAA
66 ACGACGAAGGGACCGCTGGTTGTCAA-CAACAACTTCCCAA
* * *
75533 TTTCAGAGCCAACTTCAACTTCCCAGCGAAGGATATTGGACTCGAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* *
75598 ACGACGAAGGGACCGCTGGTTGTCGA-TA-AA-----CAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
* *
75631 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGAAAGTTTAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
75696 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
*
75736 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
75801 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
*
75841 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
75906 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
*
75946 TTTCATAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
76011 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
* *
76051 TTTCAGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACGCAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
*
76116 ACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAA
66 ACGACGAAGGGACCGCTGGTTGTCAAC-AACAACTTCCCAA
* * *
76157 TTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
* * *
76222 ACAACGAAGGGA-CGACTGGTTGTCAACAAACAATTTCCTAA
66 ACGACGAAGGGACCG-CTGGTTGTCAAC-AACAACTTCCCAA
* *
76263 TTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGGACTCGAGACAAC
1 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAAC
76314 ACAACTTTCA
Statistics
Matches: 738, Mismatches: 34, Indels: 18
0.93 0.04 0.02
Matches are distributed among these distances:
98 87 0.12
99 1 0.00
100 2 0.00
103 2 0.00
104 1 0.00
105 402 0.54
106 243 0.33
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTC
ACGACGAAGGGACCGCTGGTTGTCAACAACAACTTCCCAA
Found at i:77034 original size:2 final size:2
Alignment explanation
Indices: 77022--77082 Score: 97
Period size: 2 Copynumber: 31.0 Consensus size: 2
77012 TATTTTACTT
*
77022 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
77064 TA TA CA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
77083 GTTCGCAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
1 1 0.02
2 53 0.98
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:77668 original size:24 final size:24
Alignment explanation
Indices: 77641--77696 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
77631 AGGAGATCAC
* *
77641 CAGAACCGGACGAGAGAAACCATA
1 CAGAACCAGACGAGAGAAACCACA
77665 CAGAACCAGACGAGAGAAACCACA
1 CAGAACCAGACGAGAGAAACCACA
77689 CAGAACCA
1 CAGAACCA
77697 TCACCGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.48, C:0.29, G:0.21, T:0.02
Consensus pattern (24 bp):
CAGAACCAGACGAGAGAAACCACA
Found at i:77705 original size:24 final size:24
Alignment explanation
Indices: 77641--77707 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 24
77631 AGGAGATCAC
** *
77641 CAGAACCGGACGAGAGAAACCATA
1 CAGAACCACACGAGAGAAACCACA
*
77665 CAGAACCAGACGAGAGAAACCACA
1 CAGAACCACACGAGAGAAACCACA
77689 CAGAACCATCACCGAGAGA
1 CAGAACCA-CA-CGAGAGA
77708 CAAAGGAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
24 30 0.79
25 1 0.03
26 7 0.18
ACGTcount: A:0.46, C:0.28, G:0.22, T:0.03
Consensus pattern (24 bp):
CAGAACCACACGAGAGAAACCACA
Found at i:78776 original size:311 final size:311
Alignment explanation
Indices: 78213--78834 Score: 1226
Period size: 311 Copynumber: 2.0 Consensus size: 311
78203 ACTTTTTAAG
78213 GGAATTTTTTTTCCGATCAAAGGTAAGCAATTCGAAACGAATATTTTAAATTTTAATTTAAATTT
1 GGAATTTTTTTTCCGATCAAAGGTAAGCAATTCGAAACGAATATTTTAAATTTTAATTTAAATTT
78278 CAAAATTTCGCTGCTAAGACAACCGATAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTGCTA
66 CAAAATTTCGCTGCTAAGACAACCGATAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTGCTA
78343 ATCCTTCCTTGACCGTAACCGACTCCCGATCCCGACATATTTCTGGTAAGACGCAGATCGGGTAA
131 ATCCTTCCTTGACCGTAACCGACTCCCGATCCCGACATATTTCTGGTAAGACGCAGATCGGGTAA
78408 GAAATAGGGTATCCGATCAACCCATTTATTTTTAAATAAATGATCGGTGGCGACTCCAACCCATC
196 GAAATAGGGTATCCGATCAACCCATTTATTTTTAAATAAATGATCGGTGGCGACTCCAACCCATC
*
78473 AATTCAAGTCGAAGCCCAATTCCGGGGCCCAAACGAAAGACGGTTGCGACA
261 AATTCAAGTCGAAGCCCAATTCCGGGACCCAAACGAAAGACGGTTGCGACA
78524 GGAATTTTTTTTCCGATCAAAGGTAAGCAATTCGAAACGAATATTTTAAATTTTAATTTAAATTT
1 GGAATTTTTTTTCCGATCAAAGGTAAGCAATTCGAAACGAATATTTTAAATTTTAATTTAAATTT
*
78589 CAAATTTTCGCTGCTAAGACAACCGATAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTGCTA
66 CAAAATTTCGCTGCTAAGACAACCGATAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTGCTA
78654 ATCCTTCCTTGACCGTAACCGACTCCCGATCCCGACATATTTCTGGTAAGACGCAGATCGGGTAA
131 ATCCTTCCTTGACCGTAACCGACTCCCGATCCCGACATATTTCTGGTAAGACGCAGATCGGGTAA
78719 GAAATAGGGTATCCGATCAACCCATTTATTTTTAAATAAATGATCGGTGGCGACTCCAACCCATC
196 GAAATAGGGTATCCGATCAACCCATTTATTTTTAAATAAATGATCGGTGGCGACTCCAACCCATC
78784 AATTCAAGTCGAAGCCCAATTCCGGGACCCAAACGAAAGACGGTTGCGACA
261 AATTCAAGTCGAAGCCCAATTCCGGGACCCAAACGAAAGACGGTTGCGACA
78835 ACAATATCTA
Statistics
Matches: 309, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
311 309 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (311 bp):
GGAATTTTTTTTCCGATCAAAGGTAAGCAATTCGAAACGAATATTTTAAATTTTAATTTAAATTT
CAAAATTTCGCTGCTAAGACAACCGATAAATTAATTGGTACCGAAAGGGCGGTTCAAGGGTGCTA
ATCCTTCCTTGACCGTAACCGACTCCCGATCCCGACATATTTCTGGTAAGACGCAGATCGGGTAA
GAAATAGGGTATCCGATCAACCCATTTATTTTTAAATAAATGATCGGTGGCGACTCCAACCCATC
AATTCAAGTCGAAGCCCAATTCCGGGACCCAAACGAAAGACGGTTGCGACA
Found at i:78929 original size:31 final size:31
Alignment explanation
Indices: 78894--78963 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
78884 TACAACAACT
* * * *
78894 TTAATATATGGCTATCTCAGGTACGATAATC
1 TTAATATAAGACTATCTCAAGTACGAAAATC
* *
78925 TTAATGTAAGATTATCTCAAGTACGAAAATC
1 TTAATATAAGACTATCTCAAGTACGAAAATC
78956 TTAATATA
1 TTAATATA
78964 CAATTAAGAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.36
Consensus pattern (31 bp):
TTAATATAAGACTATCTCAAGTACGAAAATC
Found at i:81723 original size:20 final size:20
Alignment explanation
Indices: 81700--81744 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
81690 TGCGATTTTC
* *
81700 CAAATTTGCAACGCGATAGT
1 CAAATTCGCAACGCGAAAGT
*
81720 CAAATTCGCAACGTGAAAGT
1 CAAATTCGCAACGCGAAAGT
81740 CAAAT
1 CAAAT
81745 GTTTTTACGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.20, G:0.18, T:0.22
Consensus pattern (20 bp):
CAAATTCGCAACGCGAAAGT
Found at i:81897 original size:22 final size:22
Alignment explanation
Indices: 81872--81922 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
81862 CTACGGCGAC
81872 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* * *
81894 ATCCATCCTCATTTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
81916 ATCCGTC
1 ATCCGTC
81923 TATCTCCATC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.24, C:0.41, G:0.12, T:0.24
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:82154 original size:13 final size:13
Alignment explanation
Indices: 82136--82180 Score: 81
Period size: 13 Copynumber: 3.5 Consensus size: 13
82126 AGTATTTGTC
*
82136 TTTGTTCTGTCTT
1 TTTGTTTTGTCTT
82149 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
82162 TTTGTTTTGTCTT
1 TTTGTTTTGTCTT
82175 TTTGTT
1 TTTGTT
82181 GAAGAAACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
13 31 1.00
ACGTcount: A:0.00, C:0.09, G:0.16, T:0.76
Consensus pattern (13 bp):
TTTGTTTTGTCTT
Found at i:82260 original size:20 final size:21
Alignment explanation
Indices: 82235--82276 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
82225 AAATCGCGCA
82235 ATTTTCA-TTTTCGCGTTGCG
1 ATTTTCATTTTTCGCGTTGCG
82255 ATTTTCATTTTTCGCGTTGCG
1 ATTTTCATTTTTCGCGTTGCG
82276 A
1 A
82277 ATTTAAGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.12, C:0.19, G:0.19, T:0.50
Consensus pattern (21 bp):
ATTTTCATTTTTCGCGTTGCG
Found at i:84483 original size:42 final size:42
Alignment explanation
Indices: 84436--84558 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
84426 GCCCAATGCA
* * * * *
84436 CCTATCATTATTCAAGAGGCGCCTCCTATCGTTCAAGAGGCC
1 CCTATCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCC
84478 CCTATCATCA-TCGAAGAAGCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCATTC-AAGAAGCCCCTCCCACCGTTCAAGAGGCC
* * ** * * *
84520 ACTGTCATCATTCAAGTGGTCCCACCCGCCGTTCAAGAG
1 CCTATCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAG
84559 CCTGATTAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.03
42 63 0.94
43 2 0.03
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (42 bp):
CCTATCATCATTCAAGAAGCCCCTCCCACCGTTCAAGAGGCC
Found at i:85977 original size:61 final size:64
Alignment explanation
Indices: 85909--86049 Score: 173
Period size: 66 Copynumber: 2.2 Consensus size: 64
85899 TTTTACATTG
85909 AAAGTTGATTTGTTACAATTGATGAGGAAATAAG-A-T-TTATTTT-TTGATTAATTGATTTGTA
1 AAAGTTGATTTGTTA-AATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
* ** * * *
85970 AAAGTTGATTTGTTTAATTTGATTTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGT
1 AAAGTTGATTTG-TTAAATTGATGAGGAAATAAGAATTATTATTTT-CTTGATTAATTGATTTGT
86035 A
64 A
86036 AAAGTTGATTTGTT
1 AAAGTTGATTTGTT
86050 TTTTCTAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
61 26 0.38
62 4 0.06
63 1 0.01
64 6 0.09
65 2 0.03
66 29 0.43
ACGTcount: A:0.31, C:0.01, G:0.17, T:0.50
Consensus pattern (64 bp):
AAAGTTGATTTGTTAAATTGATGAGGAAATAAGAATTATTATTTTCTTGATTAATTGATTTGTA
Found at i:85979 original size:14 final size:14
Alignment explanation
Indices: 85960--85999 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
85950 TTTTGATTAA
85960 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
** *
85974 TTGATTTGTTTAAT
1 TTGATTTGTAAAAG
85988 TTGATTTGTAAA
1 TTGATTTGTAAA
86000 TAAGAATTAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:86495 original size:18 final size:18
Alignment explanation
Indices: 86472--86507 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
86462 AAGCCGGTTG
*
86472 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
86490 TGATTGCGATTTTGATTT
1 TGATTGCGATTTTGATTT
86508 CCTTTTGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.25, T:0.56
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:88934 original size:12 final size:12
Alignment explanation
Indices: 88913--88946 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
88903 GGTTGTGGGT
*
88913 TTTGAGATTGTG
1 TTTGATATTGTG
88925 TTTGATATTGTG
1 TTTGATATTGTG
*
88937 TTTGGTATTG
1 TTTGATATTG
88947 GAAATGTGGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.29, T:0.56
Consensus pattern (12 bp):
TTTGATATTGTG
Found at i:89726 original size:20 final size:19
Alignment explanation
Indices: 89690--89739 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
89680 ACTAAAACCT
* *
89690 GTTGCGAAATT-AAATTCGC
1 GTTGCGAATTTGAAATTC-A
*
89709 GTTGTGAATTTGAAATTCA
1 GTTGCGAATTTGAAATTCA
89728 GTTGCGAATTTG
1 GTTGCGAATTTG
89740 GAAAATCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (19 bp):
GTTGCGAATTTGAAATTCA
Found at i:89812 original size:20 final size:20
Alignment explanation
Indices: 89690--89818 Score: 63
Period size: 20 Copynumber: 6.5 Consensus size: 20
89680 ACTAAAACCT
89690 GTTGCGAAATTA-AATTCGC
1 GTTGCGAAATTAGAATTCGC
* * *
89709 GTTGTG-AATTTGAAATTC-A
1 GTTGCGAAATTAG-AATTCGC
* * *
89728 GTTGCGAATTTGGAAAATCGC
1 GTTGCGAAATTAG-AATTCGC
** * *
89749 AATGCG-ATTTACATATTCGC
1 GTTGCGAAATTAGA-ATTCGC
* * *
89769 GTTGCGAAATTGGAA-ACTGG
1 GTTGCGAAATTAGAATTC-GC
89789 GTTGCGAAATTAGAATTCGC
1 GTTGCGAAATTAGAATTCGC
89809 GTTGC-AAATT
1 GTTGCGAAATT
89819 TGTTGGTCAT
Statistics
Matches: 79, Mismatches: 23, Indels: 16
0.67 0.19 0.14
Matches are distributed among these distances:
18 4 0.05
19 17 0.22
20 49 0.62
21 9 0.11
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (20 bp):
GTTGCGAAATTAGAATTCGC
Found at i:93932 original size:3 final size:3
Alignment explanation
Indices: 93926--93955 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
93916 AATTATTTAT
93926 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93956 AAATTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:98059 original size:20 final size:21
Alignment explanation
Indices: 98016--98069 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
98006 GTTGAACAGT
98016 GGGGGAATCGGTACCCCTTGG
1 GGGGGAATCGGTACCCCTTGG
*
98037 GGGGGAATTGGTACCCCTTGG
1 GGGGGAATCGGTACCCCTTGG
98058 GGGGGAATCGGT
1 GGGGGAATCGGT
98070 TCCCTCCGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.15, C:0.19, G:0.46, T:0.20
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCTTGG
Found at i:102461 original size:189 final size:189
Alignment explanation
Indices: 102136--102489 Score: 582
Period size: 189 Copynumber: 1.9 Consensus size: 189
102126 AAAGCTAAGT
102136 TATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGACTACAT
1 TATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGACTACAT
* * * * *
102201 TCAAACCATGACATTGATCAGGTACTCGGCAATTTAGTGTATGCTCCACTTTGATTGTCAAGTCG
66 TCAAACCATGACATTGATCAGGCACTCGGCAATTCAGTGTATGCTCCACTGTAATTGTCAAGTCA
*
102266 AAGACTTTGTGACGACATGAATCATTCAGTTAGCCGAACAAAGAAAATAATGGCCGAGA
131 AAGACTTTGTGACGACATGAATCATTCAGCTAGCCGAACAAAGAAAATAATGGCCGAGA
* *
102325 TATTCCACTAAGGCAATTGGTTTTAGAGGAAACTTGAAAGCCCTGGCTTTATGAATAGACTACAT
1 TATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGACTACAT
* * * * *
102390 TCAAACCATGACATTGATTAGGCACTCGGTAATTCGGTGTATGCTTCACTGTAATTGTCAAGTTA
66 TCAAACCATGACATTGATCAGGCACTCGGCAATTCAGTGTATGCTCCACTGTAATTGTCAAGTCA
*
102455 AAGACTTTGTGACGACATGAATCCTTCAGCTAGCC
131 AAGACTTTGTGACGACATGAATCATTCAGCTAGCC
102490 AAATAAAGGC
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 151 1.00
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (189 bp):
TATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGAATAGACTACAT
TCAAACCATGACATTGATCAGGCACTCGGCAATTCAGTGTATGCTCCACTGTAATTGTCAAGTCA
AAGACTTTGTGACGACATGAATCATTCAGCTAGCCGAACAAAGAAAATAATGGCCGAGA
Found at i:104543 original size:82 final size:83
Alignment explanation
Indices: 104170--104912 Score: 913
Period size: 83 Copynumber: 9.0 Consensus size: 83
104160 TCTCCTAGCC
* * * * *
104170 TTACAGTATAGCTCAAGGTGAGAAGGTCTATCTGTCAGCAAACCTTCGAGTTTGATTACATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
*
104235 CTCAAGGACATATCAAAT
66 CTCAAGGGCATATCAAAT
* * *
104253 TTATAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTTGATTACATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
104318 CTCAAGGGCATATCAAAT
66 CTCAAGGGCATATCAAAT
* * * * * * *
104336 TTACAGCATAACTTAAGGCGAGAAGGGATATATGTCAGCAAACCTTCAATTTCGATTACATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
* *
104401 CCCAAGGACATATCAAAT
66 CTCAAGGGCATATCAAAT
* * * *
104419 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAGCAAACCTTTGAGTTCAATTATATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
104484 CTCAAGGGCATATCAAA-
66 CTCAAGGGCATATCAAAT
* * *
104501 TTATAGCATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAACCTTCAAGTTCGATT-CTATTCA
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTAC-ATTCA
104565 GCTCAAGGGCATATCAAAT
65 GCTCAAGGGCATATCAAAT
** * * * * *
104584 TTACAATATAGTTCAAGGCGAGAAGGGCTATCTGTTAACAAACCTTCGAGTTCAATTACACTCAT
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
* **
104649 CTCAAGGACA-GCCAAAT
66 CTCAAGGGCATATCAAAT
* * * *
104666 TTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAACCTTCGAGTTCAATTACATTCAT
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
**
104731 CTCAAGGGCA-GCCAAAT
66 CTCAAGGGCATATCAAAT
* * *
104748 TTACAGTATAGCTCAAGACGAAAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
*
104813 CTCAAGGG--TAGCCAAAT
66 CTCAAGGGCATA-TCAAAT
* * * * * **
104830 TTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAGAATCTTCGAGTTCAATTTTATTC
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAAC-A-AACCTTCGAGTTCGATTACATTC
* * *
104895 AGTTCAAAGACATATCAA
64 AGCTCAAGGGCATATCAA
104913 CCGCATGGTA
Statistics
Matches: 579, Mismatches: 72, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
82 264 0.46
83 283 0.49
84 27 0.05
85 3 0.01
86 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (83 bp):
TTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTCGAGTTCGATTACATTCAG
CTCAAGGGCATATCAAAT
Found at i:104602 original size:165 final size:166
Alignment explanation
Indices: 104170--104912 Score: 922
Period size: 165 Copynumber: 4.5 Consensus size: 166
104160 TCTCCTAGCC
* * * * * *
104170 TTACAGTATAGCTCAAGGTGAGAAGGTCTATCTGTCAGCAAACCTTCGAGTTTGATTACATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTACATTCAG
* *
104235 CTCAAGGACATATCAAATTTATAGCATAACTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTC
66 CTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTC
** *
104300 GAGTTTGATTACATTCAGCTCAAGGGCATATCAAAT
131 GAGTTCAATTACATTCAGCTCAAGGGCATACCAAAT
* * * * * *
104336 TTACAGCATAACTTAAGGCGAGAAGGGATATATGTCAGCAAACCTTCAATTTCGATTACATTCAG
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTACATTCAG
* * *
104401 CCCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAGCAAACCTTT
66 CTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTC
* *
104466 GAGTTCAATTATATTCAGCTCAAGGGCATATCAAA-
131 GAGTTCAATTACATTCAGCTCAAGGGCATACCAAAT
* * *
104501 TTATAGCATAGCTCAAGGCGAGAAGGGCTATTTGTCAACAAACCTTCAAGTTCGATT-CTATTCA
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTAC-ATTCA
* ** * *
104565 GCTCAAGGGCATATCAAATTTACAATATAGTTCAAGGCGAGAAGGGCTATCTGTTAACAAACCTT
65 GCTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTT
* * * *
104630 CGAGTTCAATTACACTCATCTCAAGGACA-GCCAAAT
130 CGAGTTCAATTACATTCAGCTCAAGGGCATACCAAAT
* * * * *
104666 TTACAGTATAGCTCAAGGCGAGAAGGGCTATCTGTTAACAAACCTTCGAGTTCAATTACATTCAT
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTACATTCAG
* ** * * *
104731 CTCAAGGGCA-GCCAAATTTACAGTATAGCTCAAGACGAAAAGGGCTATCTGTCAACAAACCTTC
66 CTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTC
*
104795 GAGTTCGATTACATTCAGCTCAAGGG--TAGCCAAAT
131 GAGTTCAATTACATTCAGCTCAAGGGCATA-CCAAAT
* * * * **
104830 TTACAGCATAACTCAAGGCGAGAAGGGTTATATGTCAACAAGAATCTTCGAGTTCAATTTTATTC
1 TTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAAC-A-AACCTTCGAGTTCGATTACATTC
* *
104895 AGTTCAAAGACATATCAA
64 AGCTCAAGGACATATCAA
104913 CCGCATGGTA
Statistics
Matches: 497, Mismatches: 72, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
164 114 0.23
165 204 0.41
166 176 0.35
167 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (166 bp):
TTACAGCATAGCTCAAGGCGAGAAGGGCTATATGTCAACAAACCTTCGAGTTCGATTACATTCAG
CTCAAGGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAGGGCTATCTGTCAACAAACCTTC
GAGTTCAATTACATTCAGCTCAAGGGCATACCAAAT
Found at i:105217 original size:24 final size:24
Alignment explanation
Indices: 105185--105245 Score: 104
Period size: 24 Copynumber: 2.5 Consensus size: 24
105175 GAGAAGAATA
105185 CCAAAGCCCAATTCCAGGCTCAAT
1 CCAAAGCCCAATTCCAGGCTCAAT
*
105209 CCAAAGCCCAATTCCAGGTTCAAT
1 CCAAAGCCCAATTCCAGGCTCAAT
*
105233 TCAAAGCCCAATT
1 CCAAAGCCCAATT
105246 ACAGTTGTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (24 bp):
CCAAAGCCCAATTCCAGGCTCAAT
Found at i:106985 original size:19 final size:20
Alignment explanation
Indices: 106949--106998 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
106939 AAATGTAAGT
*
106949 ATTTCGAATTGAATTTTTAA
1 ATTTCGAATTGAAATTTTAA
*
106969 ATTTC-AATTTAAATTTTAA
1 ATTTCGAATTGAAATTTTAA
*
106988 TTTTCGCAATT
1 ATTTCG-AATT
106999 AAGACAACCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 16 0.64
20 5 0.20
21 4 0.16
ACGTcount: A:0.34, C:0.08, G:0.06, T:0.52
Consensus pattern (20 bp):
ATTTCGAATTGAAATTTTAA
Found at i:108713 original size:23 final size:25
Alignment explanation
Indices: 108664--108715 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
108654 CTCCTCAGAC
* **
108664 CCTCTCTTGCTTCCTCGCTCTCTAT
1 CCTCTCTTGCTTCATCGCAATCTAT
108689 CCTCTCTT-CTTCATCGCAATC-AT
1 CCTCTCTTGCTTCATCGCAATCTAT
108712 CCTC
1 CCTC
108716 AACCGCGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 6 0.25
24 10 0.42
25 8 0.33
ACGTcount: A:0.10, C:0.44, G:0.06, T:0.40
Consensus pattern (25 bp):
CCTCTCTTGCTTCATCGCAATCTAT
Found at i:112295 original size:42 final size:42
Alignment explanation
Indices: 112236--112330 Score: 165
Period size: 42 Copynumber: 2.3 Consensus size: 42
112226 TTTCCCGAAA
*
112236 TCTCGTGTTTGTTTCACGTAATTCGTTTTCCGGAAAATGTTT
1 TCTCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
112278 TCTCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
1 TCTCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
112320 TC-CAGTGTTTG
1 TCTC-GTGTTTG
112331 GTTGGAGGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 1 0.02
42 50 0.98
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.47
Consensus pattern (42 bp):
TCTCGTGTTTGTTTCACGTAATTCATTTTCCGGAAAATGTTT
Found at i:112591 original size:22 final size:23
Alignment explanation
Indices: 112561--112607 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
112551 AAAATATATT
112561 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
*
112584 TATT-ATATTTTTAATAATATAA
1 TATTAATATTTCTAATAATATAA
112606 TA
1 TA
112608 AAATAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:112630 original size:18 final size:18
Alignment explanation
Indices: 112609--112663 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
112599 AATATAATAA
112609 AATAATTAATTATATTAT
1 AATAATTAATTATATTAT
*
112627 AATAATCAATTATATTAT
1 AATAATTAATTATATTAT
*
112645 AATAATATAA-GATATTAT
1 AATAAT-TAATTATATTAT
112663 A
1 A
112664 TTATATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
18 31 0.94
19 2 0.06
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
AATAATTAATTATATTAT
Found at i:112631 original size:23 final size:25
Alignment explanation
Indices: 112601--112677 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 25
112591 TTTTTAATAA
112601 TATAATAAA-ATAATTA-ATTATAT
1 TATAATAAAGATAATTATATTATAT
112624 TATAAT--A-ATCAATTATATTATA-
1 TATAATAAAGAT-AATTATATTATAT
112646 -ATAATATAAGAT-ATTATATTATAT
1 TATAATA-AAGATAATTATATTATAT
*
112670 TTTAATAA
1 TATAATAA
112678 TATATAATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 15
0.74 0.02 0.25
Matches are distributed among these distances:
21 8 0.18
22 5 0.11
23 23 0.51
24 2 0.04
25 7 0.16
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (25 bp):
TATAATAAAGATAATTATATTATAT
Found at i:112830 original size:23 final size:23
Alignment explanation
Indices: 112804--112848 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
112794 AATAATATTT
112804 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
112827 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
112849 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:113228 original size:15 final size:14
Alignment explanation
Indices: 113196--113254 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
113186 CTAGAAATGT
*
113196 AATTCATTTTCCAG
1 AATTCAATTTCCAG
113210 AATTCAATTTCCAG
1 AATTCAATTTCCAG
* *
113224 TAATTCATTTTTCAG
1 -AATTCAATTTCCAG
*
113239 AACTCAATTTCCAG
1 AATTCAATTTCCAG
113253 AA
1 AA
113255 AATTAATTAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 26 0.68
15 12 0.32
ACGTcount: A:0.34, C:0.20, G:0.07, T:0.39
Consensus pattern (14 bp):
AATTCAATTTCCAG
Found at i:113239 original size:29 final size:29
Alignment explanation
Indices: 113194--113252 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
113184 TTCTAGAAAT
*
113194 GTAATTCATTTTCCAGAATTCAATTTCCA
1 GTAATTCATTTTCCAGAACTCAATTTCCA
*
113223 GTAATTCATTTTTCAGAACTCAATTTCCA
1 GTAATTCATTTTCCAGAACTCAATTTCCA
113252 G
1 G
113253 AAAATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (29 bp):
GTAATTCATTTTCCAGAACTCAATTTCCA
Found at i:114543 original size:60 final size:61
Alignment explanation
Indices: 114479--114608 Score: 185
Period size: 60 Copynumber: 2.1 Consensus size: 61
114469 ATTTTAAATG
* * * *
114479 TTTCAATTTCATCCCTAAACTATGA-CTATCATTCTAAAT-TAGTTCTCAAACT-TTTGTACA
1 TTTCAATTTCATCCCCAAACTATGACCT-TCATTCTAAATCT-GTCCCCAAACTCTTTGAACA
114539 TTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATCTGTCCCCAAACTCTTTGAACA
1 TTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATCTGTCCCCAAACTCTTTGAACA
114600 TTTCAATTT
1 TTTCAATTT
114609 TATCTTAAAC
Statistics
Matches: 63, Mismatches: 4, Indels: 5
0.88 0.06 0.07
Matches are distributed among these distances:
60 44 0.70
61 19 0.30
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.40
Consensus pattern (61 bp):
TTTCAATTTCATCCCCAAACTATGACCTTCATTCTAAATCTGTCCCCAAACTCTTTGAACA
Found at i:114858 original size:60 final size:58
Alignment explanation
Indices: 114778--114920 Score: 153
Period size: 60 Copynumber: 2.4 Consensus size: 58
114768 AAAAGTTTAT
* * * * *
114778 GGACCAATTTAGAATGAGAGTTACATTTTAAGAATGAAATTAGAATGTTAAAAAAATTAA
1 GGACTAATTTAAAATGAGAGTTA-ATTTGAAG-ATGAAATTAAAATATTAAAAAAATTAA
* * * *
114838 GGACTAATTTAAAATAAGAGTCATAATTTGATGATGAAATTAAAATATTCAAAAATTTAA
1 GGACTAATTTAAAATGAGAGT--TAATTTGAAGATGAAATTAAAATATTAAAAAAATTAA
114898 GGA-TCAATTTAAAATGAGAGTTA
1 GGACT-AATTTAAAATGAGAGTTA
114921 TAGAATAATC
Statistics
Matches: 70, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
58 2 0.03
59 1 0.01
60 59 0.84
61 6 0.09
62 2 0.03
ACGTcount: A:0.48, C:0.05, G:0.15, T:0.31
Consensus pattern (58 bp):
GGACTAATTTAAAATGAGAGTTAATTTGAAGATGAAATTAAAATATTAAAAAAATTAA
Found at i:115069 original size:31 final size:31
Alignment explanation
Indices: 115003--115076 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
114993 TAAACTTAAA
115003 GATTATTTTATAATAATTTATAAATTTAATT
1 GATTATTTTATAATAATTTATAAATTTAATT
** *
115034 -ATTATTTTATAATTGTTCTATAAGTTT-ATT
1 GATTATTTTATAATAATT-TATAAATTTAATT
115064 GATTATTTTATAA
1 GATTATTTTATAA
115077 GTTTTAAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 18 0.47
31 20 0.53
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (31 bp):
GATTATTTTATAATAATTTATAAATTTAATT
Found at i:119325 original size:23 final size:23
Alignment explanation
Indices: 119297--119377 Score: 110
Period size: 23 Copynumber: 3.5 Consensus size: 23
119287 TTCAGAATCA
* *
119297 AAAACTTTGTTTACTAGAA-TCGG
1 AAAACTCTGTTTACCA-AAGTCGG
119320 AAAACTCTGTTTACCAAAGTCGG
1 AAAACTCTGTTTACCAAAGTCGG
* *
119343 AAAACTCTGTTTACCAAAGCCGA
1 AAAACTCTGTTTACCAAAGTCGG
119366 AAAACTCTGTTT
1 AAAACTCTGTTT
119378 CTACATGGTG
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
22 2 0.04
23 51 0.96
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.30
Consensus pattern (23 bp):
AAAACTCTGTTTACCAAAGTCGG
Found at i:123749 original size:23 final size:23
Alignment explanation
Indices: 123721--123832 Score: 149
Period size: 23 Copynumber: 4.9 Consensus size: 23
123711 TCGGGATAAA
123721 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
123744 TATGTGGCACTTCGGTGCAAACC
1 TATGTGGCACTTCGGTGCAAACC
* * *
123767 TATGTGACACTTTGGTGTAAACC
1 TATGTGGCACTTCGGTGCAAACC
*
123790 TATGTGGTCA-TTCGGGGACAAA--
1 TATGTGG-CACTTCGGTG-CAAACC
123812 TATGTGGCACTTCGGTGCAAA
1 TATGTGGCACTTCGGTGCAAA
123833 TTACGAGCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
21 6 0.08
22 13 0.17
23 54 0.69
24 5 0.06
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (23 bp):
TATGTGGCACTTCGGTGCAAACC
Found at i:164734 original size:34 final size:35
Alignment explanation
Indices: 164665--164742 Score: 81
Period size: 34 Copynumber: 2.3 Consensus size: 35
164655 AAATTTTAAA
**
164665 AGTATAAAATAATTTTTCAATTATATCAAAATATT
1 AGTATAAAATAATTTTAAAATTATATCAAAATATT
* *
164700 AGTAT-AAATAATATTTAAAATT-TATTAAATTATT
1 AGTATAAAATAAT-TTTAAAATTATATCAAAATATT
*
164734 A-TAAAAAAT
1 AGTATAAAAT
164743 CACCAAATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
33 2 0.06
34 22 0.61
35 12 0.33
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (35 bp):
AGTATAAAATAATTTTAAAATTATATCAAAATATT
Found at i:181155 original size:24 final size:27
Alignment explanation
Indices: 181094--181149 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
181084 TCTTAATTTA
*
181094 TTATGAG-GAAAAAAATAATCTCTAAC
1 TTATGAGAAAAAAAAATAATCTCTAAC
*
181120 TTATGAGAAAAAAAAATAATCTTTAAC
1 TTATGAGAAAAAAAAATAATCTCTAAC
181147 TTA
1 TTA
181150 GAAAAACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (27 bp):
TTATGAGAAAAAAAAATAATCTCTAAC
Found at i:184531 original size:3 final size:3
Alignment explanation
Indices: 184523--184581 Score: 66
Period size: 3 Copynumber: 20.0 Consensus size: 3
184513 TAAAATTATT
* * * *
184523 TAA TAA TAA TAA TAA TAA -AA TAA TTA TAA TTA TTA TTA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
184570 TAA AAA TAA TAA
1 TAA TAA TAA TAA
184582 AACCTGGATA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
2 2 0.04
3 47 0.96
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:185841 original size:21 final size:20
Alignment explanation
Indices: 185808--185847 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
185798 CTGAAAAATA
*
185808 ATTTTTAAAAAATTATTTAC
1 ATTTTTAAAAAATAATTTAC
*
185828 ATTTTCTAGAAAATAATTTA
1 ATTTT-TAAAAAATAATTTA
185848 TAAAAAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
ATTTTTAAAAAATAATTTAC
Found at i:191795 original size:2 final size:2
Alignment explanation
Indices: 191788--191818 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
191778 AAAAGTATTA
191788 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
191819 AGATCCTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:209248 original size:32 final size:34
Alignment explanation
Indices: 209175--209251 Score: 90
Period size: 36 Copynumber: 2.3 Consensus size: 34
209165 TAGAAACTTG
209175 ATTTTATAAATAAATAAAATTAGATTTAAATGATC
1 ATTTTATAAATAAATAAAATTAGATTTAAATGA-C
209210 ATTTTTATAAATTATAATAAAATTA-A-TTAAAT-A-
1 A-TTTTATAAA-TA-AATAAAATTAGATTTAAATGAC
209243 ATTTTATAA
1 ATTTTATAA
209252 TTTAGATTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
32 8 0.21
33 1 0.03
35 2 0.05
36 15 0.38
37 3 0.08
38 10 0.26
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (34 bp):
ATTTTATAAATAAATAAAATTAGATTTAAATGAC
Found at i:212674 original size:53 final size:53
Alignment explanation
Indices: 212538--213333 Score: 1012
Period size: 53 Copynumber: 15.1 Consensus size: 53
212528 GGGAAAATAA
* * *
212538 AACTCGTATAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAATAGG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTA-G
* ** ** *
212592 AACTCGAATAATCTTCTGCCTACCAGTTCGCTCTCTCTCACTTCAAGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* *
212645 AACTCGAATAATCTTCTACCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * *
212698 AACTCGAACAATCTTTTGCCTATGGGTTCACTCTCTCTTGCTTCAGGGAGTAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * ** * *
212751 AACTTGAACAATTTTCTGCCTACGGGTTCATTCCCTCTTGCTTCAAGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* ** *
212804 AACTCGAACAATCTTCTGCCTGCATGTTCG--ATCTCTTG-TTACAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTT-CAGGGAGTAG
* *
212855 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* *
212908 AACTCGAACAATCTTCTCCCTACGGGTTTG--CTCTCTTGCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * *
212959 AACTCGAACGATCTTCTGCCTACGGGTTCGCT-TCCTCTTGCTTTAAGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCT-CTCTTGCTTCAGGGAGTAG
* * ** *
213012 AACTCGAACAATCTTCTGCCTACGGGTTCGCT-TCCTTTTGCTTTAAAGAGTAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCT-CTCTTGCTTCAGGGAGTAG
*** * * * * *
213065 AACTCGAACAATCTTCTGCCTATAAGTTCGCTCCCTTTTGCTTCATGTAGTAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * *
213118 AACTCGAACAATCTTCTGCCTACGGGTTCTCTCTCTCTTGCTTCAGAGAGTAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * *
213171 AACTCAAACAATCTTCTGCCTGCGGGTTCGCTCTCTCTTGTTTCAGGAAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
*
213224 AACTCGAACAATCTTCTGCCTACGGGTTTGCTCTCTCTTGCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* *
213277 AACTCGAACAATTTTCTGCCTACGGTTTCGCTCTCTCTTGCTTCAGGGAGTAG
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
213330 AACT
1 AACT
213334 AGAAACGGGT
Statistics
Matches: 647, Mismatches: 87, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
50 2 0.00
51 88 0.14
52 1 0.00
53 509 0.79
54 47 0.07
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (53 bp):
AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
Found at i:212773 original size:106 final size:106
Alignment explanation
Indices: 212538--213596 Score: 1267
Period size: 106 Copynumber: 10.1 Consensus size: 106
212528 GGGAAAATAA
* * * *
212538 AACTCGTATAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAATAGGAACTCGAATAA
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTA-GAACTCGAACAA
** ** *
212603 TCTTCTGCCTACCAGTTCGCTCTCTCTCACTTCAAGGAGTAG
65 TCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* *
212645 AACTCGAATAATCTTCTACCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * * *
212710 CTTTTGCCTATGGGTTCACTCTCTCTTGCTTCAGGGAGTAT
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * ** * *
212751 AACTTGAACAATTTTCTGCCTACGGGTTCATTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* ** *
212816 CTTCTGCCTGCATGTTCG--ATCTCTTG-TTACAGGGAGTAG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTT-CAGGGAGTAG
* *
212855 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* *
212920 CTTCTCCCTACGGGTTTG--CTCTCTTGCTTCAGGGAGTAG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * *
212959 AACTCGAACGATCTTCTGCCTACGGGTTCGCT-TCCTCTTGCTTTAAGGAGTAGAACTCGAACAA
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCT-CTCTTGCTTCAGGGAGTAGAACTCGAACAA
* * ** *
213023 TCTTCTGCCTACGGGTTCGCT-TCCTTTTGCTTTAAAGAGTAT
65 TCTTCTGCCTACGGGTTCGCTCT-CTCTTGCTTCAGGGAGTAG
*** * * * * *
213065 AACTCGAACAATCTTCTGCCTATAAGTTCGCTCCCTTTTGCTTCATGTAGTATAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * *
213130 CTTCTGCCTACGGGTTCTCTCTCTCTTGCTTCAGAGAGTAT
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * *
213171 AACTCAAACAATCTTCTGCCTGCGGGTTCGCTCTCTCTTGTTTCAGGAAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
*
213236 CTTCTGCCTACGGGTTTGCTCTCTCTTGCTTCAGGGAGTAG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * *
213277 AACTCGAACAATTTTCTGCCTACGGTTTCGCTCTCTCTTGCTTCAGGGAGTAGAACT---AGAA-
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * *
213338 ---------ACGGGTTCACTCTCTCTTACTTCAGGGAGTAT
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* *
213370 AACTCGAACAATCTTCTGCCTACAGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * * * *
213435 CTTTTGCCTACGAGTTTGCTCCCTCTTGCTTCAGGGAGTTG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * * * *
213476 AACTAGAACAATCTTATGCCTACGAGTTTGCTCTCTCTTACTTCAGGGCGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * *
213541 CTTCTGCCTATGGGTTCGCTCCCTTTTGCTTCAGGGAGTAG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
213582 AACTCGAACAATCTT
1 AACTCGAACAATCTT
213597 ATTTTGCTTC
Statistics
Matches: 811, Mismatches: 120, Indels: 43
0.83 0.12 0.04
Matches are distributed among these distances:
93 81 0.10
96 3 0.00
103 5 0.01
104 180 0.22
105 3 0.00
106 489 0.60
107 50 0.06
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (106 bp):
AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
Found at i:212805 original size:159 final size:159
Alignment explanation
Indices: 212538--213596 Score: 1267
Period size: 159 Copynumber: 6.8 Consensus size: 159
212528 GGGAAAATAA
* * * *
212538 AACTCGTATAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAATAGGAACTCGAATAA
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTA-GAACTCGAACAA
** ** * *
212603 TCTTCTGCCTACCAGTTCGCTCTCTCTCACTTCAAGGAGTAGAACTCGAATAATCTTCTACCTAC
65 TCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTAC
212668 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
130 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * * *
212698 AACTCGAACAATCTTTTGCCTATGGGTTCACTCTCTCTTGCTTCAGGGAGTATAACTTGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* ** * * *
212763 TTTCTGCCTACGGGTTCATTCCCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTGCA
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACG
* *
212828 TGTTCG--ATCTCTTG-TTACAGGGAGTAG
131 GGTTCGCTCTCTCTTGCTT-CAGGGAGTAG
* *
212855 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCCCTCTTTCTTCAGGGAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * * *
212920 CTTCTCCCTACGGGTTTG--CTCTCTTGCTTCAGGGAGTAGAACTCGAACGATCTTCTGCCTACG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACG
* *
212983 GGTTCGCT-TCCTCTTGCTTTAAGGAGTAG
131 GGTTCGCTCT-CTCTTGCTTCAGGGAGTAG
* * ** *
213012 AACTCGAACAATCTTCTGCCTACGGGTTCGCT-TCCTTTTGCTTTAAAGAGTATAACTCGAACAA
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCT-CTCTTGCTTCAGGGAGTAGAACTCGAACAA
*** * * * * *
213076 TCTTCTGCCTATAAGTTCGCTCCCTTTTGCTTCATGTAGTATAACTCGAACAATCTTCTGCCTAC
65 TCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
213141 GGGTTCTCTCTCTCTTGCTTCAGAGAGTAT
130 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * *
213171 AACTCAAACAATCTTCTGCCTGCGGGTTCGCTCTCTCTTGTTTCAGGAAGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * *
213236 CTTCTGCCTACGGGTTTGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTACG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACG
*
213301 GTTTCGCTCTCTCTTGCTTCAGGGAGTAG
131 GGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * *
213330 AACT---AGAA----------ACGGGTTCACTCTCTCTTACTTCAGGGAGTATAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* *
213382 CTTCTGCCTACAGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTTTGCCTACG
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACG
* * * *
213447 AGTTTGCTCCCTCTTGCTTCAGGGAGTTG
131 GGTTCGCTCTCTCTTGCTTCAGGGAGTAG
* * * * * *
213476 AACTAGAACAATCTTATGCCTACGAGTTTGCTCTCTCTTACTTCAGGGCGTAGAACTCGAACAAT
1 AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
* * * *
213541 CTTCTGCCTATGGGTTCGCTCCCTTTTGCTTCAGGGAGTAGAACTCGAACAATCTT
66 CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTT
213597 ATTTTGCTTC
Statistics
Matches: 760, Mismatches: 116, Indels: 47
0.82 0.13 0.05
Matches are distributed among these distances:
146 126 0.17
149 3 0.00
155 45 0.06
156 6 0.01
157 173 0.23
158 2 0.00
159 357 0.47
160 48 0.06
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (159 bp):
AACTCGAACAATCTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAAT
CTTCTGCCTACGGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTCTGCCTACG
GGTTCGCTCTCTCTTGCTTCAGGGAGTAG
Found at i:213362 original size:40 final size:40
Alignment explanation
Indices: 213298--213373 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
213288 TTTTCTGCCT
* * *
213298 ACGGTTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTAGAA
1 ACGGGTTCACTCTCTCTTACTTCAGGGAGTAGAACTAGAA
*
213338 ACGGGTTCACTCTCTCTTACTTCAGGGAGTATAACT
1 ACGGGTTCACTCTCTCTTACTTCAGGGAGTAGAACT
213374 CGAACAATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.24, G:0.22, T:0.32
Consensus pattern (40 bp):
ACGGGTTCACTCTCTCTTACTTCAGGGAGTAGAACTAGAA
Found at i:213367 original size:93 final size:93
Alignment explanation
Indices: 213245--213426 Score: 294
Period size: 93 Copynumber: 2.0 Consensus size: 93
213235 TCTTCTGCCT
** * *
213245 ACGGGTTTGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTAC-GGTTTCGCT
1 ACGGGTTCACTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACAGG-TTCGCT
*
213309 CTCTCTTGCTTCAGGGAGTAGAACTAGAA
65 CTCTCTTGCTTCAAGGAGTAGAACTAGAA
*
213338 ACGGGTTCACTCTCTCTTACTTCAGGGAGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTC
1 ACGGGTTCACTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTC
213403 TCTCTTGCTTCAAGGAGTAGAACT
66 TCTCTTGCTTCAAGGAGTAGAACT
213427 CGAACAATCT
Statistics
Matches: 82, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
93 80 0.98
94 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (93 bp):
ACGGGTTCACTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACAGGTTCGCTC
TCTCTTGCTTCAAGGAGTAGAACTAGAA
Found at i:213421 original size:53 final size:52
Alignment explanation
Indices: 213341--213596 Score: 332
Period size: 53 Copynumber: 4.8 Consensus size: 52
213331 ACTAGAAACG
* * *
213341 GGTTCACTCTCTCTTACTTCAGGGAGTATAACTCGAACAATCTTCTGCCTAC
1 GGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* *
213393 AGGTTCGCTCTCTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTTTGCCTAC
1 -GGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * * *
213446 GAGTTTGCTCCCTCTTGCTTCAGGGAGTTGAACTAGAACAATCTTATGCCTAC
1 G-GTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * *
213499 GAGTTTGCTCTCTCTTACTTCAGGGCGTAGAACTCGAACAATCTTCTGCCTATG
1 G-GTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTA-C
* *
213553 GGTTCGCTCCCTTTTGCTTCAGGGAGTAGAACTCGAACAATCTT
1 GGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
213597 ATTTTGCTTC
Statistics
Matches: 178, Mismatches: 23, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.01
53 176 0.99
54 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (52 bp):
GGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
Found at i:213435 original size:252 final size:252
Alignment explanation
Indices: 213113--213585 Score: 732
Period size: 252 Copynumber: 1.9 Consensus size: 252
213103 TGCTTCATGT
* * *
213113 AGTATAACTCGAACAATCTTCTGCCTACGGGTTCTCTCTCTCTTGCTTCAGAGAGTATAACTCAA
1 AGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTCTCTCTTGCTTCAGAGAGTAGAACTCAA
* * * * * *
213178 ACAATCTTCTGCCTGCGGGTTCGCTCTCTCTTGTTTCAGGAAGTAGAACTCGAACAATCTTCTGC
66 ACAATCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTAGAACAATCTTATGC
* * * *
213243 CTACGGGTTTGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATTTTCTGCCTACGGTTTCGC
131 CTACGAGTTTGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGC
*
213308 TCTCTCTTGCTTCAGGGAGTAGAACTAGAAACGGGTTCACTCTCTCTTACTTCAGGG
196 TCCCTCTTGCTTCAGGGAGTAGAACTAGAAACGGGTTCACTCTCTCTTACTTCAGGG
*
213365 AGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTCTCTCTTGCTTCA-AGGAGTAGAACTCG
1 AGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTCTCTCTTGCTTCAGA-GAGTAGAACTCA
* * * *
213429 AACAATCTTTTGCCTACGAGTTTGCTCCCTCTTGCTTCAGGGAGTTGAACTAGAACAATCTTATG
65 AACAATCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTAGAACAATCTTATG
* *
213494 CCTACGAGTTTGCTCTCTCTTACTTCAGGGCGTAGAACTCGAACAATCTTCTGCCTATGGGTTCG
130 CCTACGAGTTTGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCG
*
213559 CTCCCTTTTGCTTCAGGGAGTAGAACT
195 CTCCCTCTTGCTTCAGGGAGTAGAACT
213586 CGAACAATCT
Statistics
Matches: 198, Mismatches: 22, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
251 1 0.01
252 197 0.99
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (252 bp):
AGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTCTCTCTTGCTTCAGAGAGTAGAACTCAA
ACAATCTTCTGCCTACGAGTTCGCTCCCTCTTGCTTCAGGAAGTAGAACTAGAACAATCTTATGC
CTACGAGTTTGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGC
TCCCTCTTGCTTCAGGGAGTAGAACTAGAAACGGGTTCACTCTCTCTTACTTCAGGG
Found at i:213461 original size:146 final size:150
Alignment explanation
Indices: 213193--213596 Score: 532
Period size: 146 Copynumber: 2.7 Consensus size: 150
213183 CTTCTGCCTG
** * *
213193 CGGGTTCGCTCTCTCTTGTTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACGGGTTTGCTCT
1 CGGGTTCGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCT
*
213258 CTCTTGCTTCAGGGAGTAGAACTCGAACAAT-TTTCTGCCTACGGTTTCGCTCTCTCTTGCTTCA
66 CTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTTCTGCCTACGGTTTCGCTCCCTCTTGCTTCA
213322 GGGAGTAGAACTAG-A-AA-
131 GGGAGTAGAACTAGAACAAT
* * *
213339 CGGGTTCACTCTCTCTTACTTCAGGGAGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTCT
1 CGGGTTCGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCT
*
213404 CTCTTGCTTCAAGGAGTAGAACTCGAACAATCTTT-TGCCTACGAGTTT-GCTCCCTCTTGCTTC
66 CTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTTCTGCCTACG-GTTTCGCTCCCTCTTGCTTC
*
213467 AGGGAGTTGAACTAGAACAAT
130 AGGGAGTAGAACTAGAACAAT
* * *
213488 CTTATGCCTACGAGTTTGCTCTCTCTTACTTCAGGGCGTAGAACTCGAACAATCTTCTGCCTATG
1 C----G-----G-GTTCGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACG
* *
213553 GGTTCGCTCCCTTTTGCTTCAGGGAGTAGAACTCGAACAATCTT
56 GGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTT
213597 ATTTTGCTTC
Statistics
Matches: 224, Mismatches: 19, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
146 124 0.55
147 8 0.04
148 2 0.01
149 1 0.00
153 1 0.00
158 1 0.00
159 87 0.39
ACGTcount: A:0.21, C:0.26, G:0.21, T:0.32
Consensus pattern (150 bp):
CGGGTTCGCTCTCTCTTACTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTCT
CTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTTCTGCCTACGGTTTCGCTCCCTCTTGCTTCA
GGGAGTAGAACTAGAACAAT
Found at i:213487 original size:199 final size:199
Alignment explanation
Indices: 213139--213532 Score: 612
Period size: 199 Copynumber: 2.0 Consensus size: 199
213129 TCTTCTGCCT
* * * *
213139 ACGGGTTCTCTCTCTCTTGCTTCAGAGAGTATAACTCAAACAATCTTCTGCCTGCGGGTTCGCTC
1 ACGGGTTCACTCTCTCTTACTTCAGAGAGTATAACTCAAACAATCTTCTGCCTACAGGTTCGCTC
* * *
213204 TCTCTTGTTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACGGGTTTGCTCTCTCTTGCTTCA
66 TCTCTTGCTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACGAGTTTGCTCCCTCTTGCTTCA
* * * *
213269 GGGAGTAGAACTCGAACAATTTTCTGCCTACG-GTTTCGCTCTCTCTTGCTTCAGGGAGTAGAAC
131 GGGAGTAGAACTAGAACAATCTTATGCCTACGAGTTT-GCTCTCTCTTACTTCAGGGAGTAGAAC
213333 TAGAA
195 TAGAA
* *
213338 ACGGGTTCACTCTCTCTTACTTCAGGGAGTATAACTCGAACAATCTTCTGCCTACAGGTTCGCTC
1 ACGGGTTCACTCTCTCTTACTTCAGAGAGTATAACTCAAACAATCTTCTGCCTACAGGTTCGCTC
*
213403 TCTCTTGCTTCAAGG-AGTAGAACTCGAACAATCTTTTGCCTACGAGTTTGCTCCCTCTTGCTTC
66 TCTCTTGCTTC-AGGAAGTAGAACTCGAACAATCTTCTGCCTACGAGTTTGCTCCCTCTTGCTTC
* *
213467 AGGGAGTTGAACTAGAACAATCTTATGCCTACGAGTTTGCTCTCTCTTACTTCAGGGCGTAGAAC
130 AGGGAGTAGAACTAGAACAATCTTATGCCTACGAGTTTGCTCTCTCTTACTTCAGGGAGTAGAAC
213532 T
195 T
213533 CGAACAATCT
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
199 170 0.96
200 7 0.04
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.32
Consensus pattern (199 bp):
ACGGGTTCACTCTCTCTTACTTCAGAGAGTATAACTCAAACAATCTTCTGCCTACAGGTTCGCTC
TCTCTTGCTTCAGGAAGTAGAACTCGAACAATCTTCTGCCTACGAGTTTGCTCCCTCTTGCTTCA
GGGAGTAGAACTAGAACAATCTTATGCCTACGAGTTTGCTCTCTCTTACTTCAGGGAGTAGAACT
AGAA
Found at i:213655 original size:37 final size:37
Alignment explanation
Indices: 213599--213680 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
213589 ACAATCTTAT
* *
213599 TTTGCTTCACTACTTTTCTATGAAGGCTTATAG-ATGA
1 TTTGCTTCACTACTCTTCTATAAAGGCTTA-AGTATGA
* *
213636 TTTGCTTCATTACTCTTCTATAAAGGCTTAAGTTTGA
1 TTTGCTTCACTACTCTTCTATAAAGGCTTAAGTATGA
213673 TTTGCTTC
1 TTTGCTTC
213681 GAAGGTCGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.22, C:0.17, G:0.15, T:0.46
Consensus pattern (37 bp):
TTTGCTTCACTACTCTTCTATAAAGGCTTAAGTATGA
Found at i:214914 original size:15 final size:15
Alignment explanation
Indices: 214887--214983 Score: 92
Period size: 16 Copynumber: 6.3 Consensus size: 15
214877 TCTCTCTTTA
214887 TTTTCCTTCTTTTCAT
1 TTTTCCTT-TTTTCAT
214903 TTTTCCTTTTTTCATT
1 TTTTCCTTTTTTCA-T
*
214919 TGTTTCATTTGTTT--T
1 T-TTTCCTTT-TTTCAT
*
214934 TGTTTCCTTTTTTCCT
1 T-TTTCCTTTTTTCAT
*
214950 TTTT-CTTTTTTCCT
1 TTTTCCTTTTTTCAT
214964 TTTTCCTTTTTTTCAT
1 TTTTCC-TTTTTTCAT
214980 TTTT
1 TTTT
214984 TTTCATTTTT
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
14 17 0.24
15 20 0.28
16 24 0.34
17 7 0.10
18 3 0.04
ACGTcount: A:0.04, C:0.19, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTCCTTTTTTCAT
Found at i:214959 original size:14 final size:15
Alignment explanation
Indices: 214887--214975 Score: 85
Period size: 15 Copynumber: 5.8 Consensus size: 15
214877 TCTCTCTTTA
*
214887 TTTTCCTTCTTTTCAT
1 TTTTCCTT-TTTTCCT
*
214903 TTTTCCTTTTTTCATT
1 TTTTCCTTTTTTC-CT
*
214919 TGTTTCATTTGTTT--T
1 T-TTTCCTTT-TTTCCT
214934 TGTTTCCTTTTTTCCT
1 T-TTTCCTTTTTTCCT
214950 TTTT-CTTTTTTCCT
1 TTTTCCTTTTTTCCT
214964 TTTTCCTTTTTT
1 TTTTCCTTTTTT
214976 TCATTTTTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
14 17 0.27
15 25 0.39
16 12 0.19
17 7 0.11
18 3 0.05
ACGTcount: A:0.03, C:0.19, G:0.03, T:0.74
Consensus pattern (15 bp):
TTTTCCTTTTTTCCT
Found at i:214982 original size:8 final size:8
Alignment explanation
Indices: 214896--214994 Score: 64
Period size: 8 Copynumber: 12.5 Consensus size: 8
214886 ATTTTCCTTC
214896 TTTTCA-T
1 TTTTCATT
*
214903 TTTTCCTT
1 TTTTCATT
214911 TTTTCATT
1 TTTTCATT
214919 TGTTTCATT
1 T-TTTCATT
214928 TGTTT--TT
1 T-TTTCATT
* *
214935 GTTTCCTT
1 TTTTCATT
*
214943 TTTTC-CT
1 TTTTCATT
214950 TTTTC-TT
1 TTTTCATT
*
214957 TTTTCCTT
1 TTTTCATT
* *
214965 TTTCCTTT
1 TTTTCATT
214973 TTTTCATTTT
1 TTTTCA--TT
214983 TTTTCATT
1 TTTTCATT
214991 TTTT
1 TTTT
214995 TCTCTTTTAT
Statistics
Matches: 75, Mismatches: 10, Indels: 13
0.77 0.10 0.13
Matches are distributed among these distances:
6 3 0.04
7 19 0.25
8 33 0.44
9 12 0.16
10 8 0.11
ACGTcount: A:0.05, C:0.16, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTTCATT
Found at i:214983 original size:10 final size:10
Alignment explanation
Indices: 214970--214995 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
214960 TCCTTTTTCC
214970 TTTTTTTCAT
1 TTTTTTTCAT
214980 TTTTTTTCAT
1 TTTTTTTCAT
214990 TTTTTT
1 TTTTTT
214996 CTCTTTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTTCAT
Found at i:214993 original size:7 final size:7
Alignment explanation
Indices: 214896--214975 Score: 54
Period size: 7 Copynumber: 10.6 Consensus size: 7
214886 ATTTTCCTTC
214896 TTTTCATT
1 TTTTC-TT
*
214904 TTTCCTT
1 TTTTCTT
214911 TTTTCATT
1 TTTTC-TT
214919 TGTTTCATT
1 T-TTTC-TT
214928 TGTTT-TT
1 T-TTTCTT
*
214935 GTTTCCTT
1 -TTTTCTT
*
214943 TTTTCCT
1 TTTTCTT
214950 TTTTCTT
1 TTTTCTT
214957 TTTTCCTT
1 TTTT-CTT
*
214965 TTTCCTT
1 TTTTCTT
214972 TTTT
1 TTTT
214976 TCATTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
7 31 0.53
8 16 0.27
9 12 0.20
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (7 bp):
TTTTCTT
Found at i:219771 original size:55 final size:55
Alignment explanation
Indices: 219687--219792 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 55
219677 ATCGGTCAAC
**
219687 TTCAAACTTCTTCATTCATCAGATGTCTTTCTTCATGGATTTGTCTTCAATCAGT
1 TTCAAACTTCTTCATTCATCAGATGTCTTTCTTCATGGATCAGTCTTCAATCAGT
* * *
219742 TTCAAATTTCTTCATTTATTAGATGTCTTTCTTCATGGATCAGTCTTCAAT
1 TTCAAACTTCTTCATTCATCAGATGTCTTTCTTCATGGATCAGTCTTCAAT
219793 AAAATAGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
55 46 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (55 bp):
TTCAAACTTCTTCATTCATCAGATGTCTTTCTTCATGGATCAGTCTTCAATCAGT
Found at i:223288 original size:3 final size:3
Alignment explanation
Indices: 223269--223353 Score: 61
Period size: 3 Copynumber: 29.0 Consensus size: 3
223259 TGCAAAATGC
* * *
223269 ATA AGTA ATA TTA ATA ATA ATA ATA ATA ATA ATTA CT- ATT ATA AT-
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * *
223314 ATA ATA GTT ATA ATA ATA ATT TTA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
223354 TTTATAACTC
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
2 7 0.11
3 51 0.81
4 5 0.08
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (3 bp):
ATA
Found at i:223326 original size:14 final size:14
Alignment explanation
Indices: 223307--223348 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
223297 ATAATTACTA
223307 TTATAATATAATAG
1 TTATAATATAATAG
*
223321 TTATAATAATAAT-T
1 TTATAAT-ATAATAG
223335 TTAATAATATAATA
1 TT-ATAATATAATA
223349 TAATATTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (14 bp):
TTATAATATAATAG
Found at i:223766 original size:53 final size:53
Alignment explanation
Indices: 223598--224705 Score: 1436
Period size: 53 Copynumber: 20.9 Consensus size: 53
223588 TTCTAAAAAT
* * * * * *
223598 GGGTTCGCTCCCTATCGCTTCATGGAGAATAGAACTCGTATAATCTTCTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCA-GG-GAGTAGAACTCGAACAATCTTCTGCCTAC
** * * * * *
223653 ACGTTCACACTCTCTTGTTTCAAGGAGTAGGAACTCGAACAATCTTCTACCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTA-GAACTCGAACAATCTTCTGCCTAC
* * *
223707 GGGTTCGCTCTCTCTTGCTTTAGGGAGTAGAACTCAAACAATCTTCTGCCTTC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* *
223760 GAGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
223813 GGGTTCGCTCTTTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTATGCCTAT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* *
223866 GGTTTTGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*** * **
223919 GGGTTTATTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTATCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * * *
223972 GAGTTCGATCTCT-TAT--TTCAGGGAGTAGAAATTGAACAATCTTATGCCTAC
1 GGGTTCGCTCTCTCT-TGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*
224023 GGGTTTGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
** * * *
224076 GGGTTTACTCCCTCTTGCTTCAGGGAGTAGAACTCGAGCAATCTTCTGCCTAT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*
224129 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTTGAACAATCTTCTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
224182 GGGTTCACTCTCTCTTGCTTCAGGGAGTAGAATTCGAACAATCTTCTGCCTAT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*
224235 GGGTTCACTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * * ** * *
224288 GAGTTTGCTCCCTCTT-CATCCACAGAGTATAACTCGAACAATCTTCTGCCTAT
1 GGGTTCGCTCTCTCTTGC-TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* *
224341 GGGTTCGCTCTCACTTGCTTCAGGGAGTAGAACTCGAACAATCTTGTGCCTAC
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
224394 GGGTTCGCTCTCTCTTGCTTCAGGGAGTATAATTCGAACAATCTTCTGCCTAT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * * * *
224447 GAGTTCACTCTTTCTTGTTTCAGGGAGTAGAACTCGAGCAATCTTCTGCCTAT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * * *
224500 GGGTTTGCTCCCTCTT-CATTCAGGGAGTAGAACTCGAATAATCTTTTGCCTAC
1 GGGTTCGCTCTCTCTTGC-TTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
224553 GGGTTCACTCTCTCTTGCTTCAGGGAGTAGAACTCAAACAATCTTCTGCCTAT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
*
224606 GGGTTCACT-TCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
1 GGGTTCGCTCT-CTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
* * *
224659 GGGTTTGTTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
1 GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCT
224706 TTTTCTTTAC
Statistics
Matches: 912, Mismatches: 130, Indels: 24
0.86 0.12 0.02
Matches are distributed among these distances:
51 41 0.04
52 4 0.00
53 807 0.88
54 46 0.05
55 14 0.02
ACGTcount: A:0.21, C:0.26, G:0.20, T:0.33
Consensus pattern (53 bp):
GGGTTCGCTCTCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCTAC
Found at i:224781 original size:37 final size:37
Alignment explanation
Indices: 224714--224788 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
224704 CTTTTTCTTT
* * *
224714 ACTACTTTTCTATGAAGGCTTATAGATGATTTGTTTC
1 ACTACTCTTCCATGAAGGCTTATAGATGATTTGCTTC
*
224751 ACTACTCTTCCATGAAGGCTTA-AGTTTGATTTGCTTC
1 ACTACTCTTCCATGAAGGCTTATAG-ATGATTTGCTTC
224788 A
1 A
224789 AAGGTCGAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 2 0.06
37 31 0.94
ACGTcount: A:0.24, C:0.17, G:0.16, T:0.43
Consensus pattern (37 bp):
ACTACTCTTCCATGAAGGCTTATAGATGATTTGCTTC
Found at i:226012 original size:8 final size:8
Alignment explanation
Indices: 225992--226096 Score: 105
Period size: 8 Copynumber: 13.2 Consensus size: 8
225982 CTTCTTTGTA
*
225992 TTTTTCTC
1 TTTTTTTC
226000 TTTTTTT-
1 TTTTTTTC
226007 TCTTTTTTC
1 T-TTTTTTC
226016 --TTTTTC
1 TTTTTTTC
226022 -TTTTTTC
1 TTTTTTTC
226029 TTTTTTTC
1 TTTTTTTC
226037 -TTTTTTC
1 TTTTTTTC
226044 TTTTTTTC
1 TTTTTTTC
226052 TTTTTCTT-
1 TTTTT-TTC
226060 TTTTTTTC
1 TTTTTTTC
*
226068 ATTTTTTC
1 TTTTTTTC
226076 ATTTTTTTC
1 -TTTTTTTC
226085 TCTTTTCTTC
1 T-TTTT-TTC
226095 TT
1 TT
226097 CAAGCAAAAT
Statistics
Matches: 84, Mismatches: 3, Indels: 19
0.79 0.03 0.18
Matches are distributed among these distances:
6 6 0.07
7 16 0.19
8 44 0.52
9 14 0.17
10 4 0.05
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTTC
Found at i:226025 original size:29 final size:29
Alignment explanation
Indices: 225993--226090 Score: 114
Period size: 28 Copynumber: 3.4 Consensus size: 29
225983 TTCTTTGTAT
225993 TTTTCTCTTTTTTTTCTTTTTTCTTTTTC
1 TTTTCTCTTTTTTTTCTTTTTTCTTTTTC
*
226022 TTTTTTC-TTTTTTTCTTTTTTCTTTTTTTC
1 TTTTCTCTTTTTTTTCTTTTTTC--TTTTTC
*
226052 TTTT-TCTTTTTTTTTCATTTTTTC-ATTT-
1 TTTTCTC-TTTTTTTTC-TTTTTTCTTTTTC
226080 TTTTCTCTTTT
1 TTTTCTCTTTT
226091 CTTCTTCAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 13
0.80 0.03 0.17
Matches are distributed among these distances:
28 23 0.38
29 13 0.21
30 10 0.16
31 8 0.13
32 7 0.11
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (29 bp):
TTTTCTCTTTTTTTTCTTTTTTCTTTTTC
Found at i:226083 original size:1 final size:1
Alignment explanation
Indices: 226000--226066 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
225990 TATTTTTCTC
* * * * * * * *
226000 TTTTTTTTCTTTTTTCTTTTTCTTTTTTCTTTTTTTCTTTTTTCTTTTTTTCTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
226065 TT
1 TT
226067 CATTTTTTCA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:228688 original size:90 final size:89
Alignment explanation
Indices: 228574--228748 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 89
228564 TCCCGAATAT
* * * * *
228574 TTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTGATATGATTAG
1 TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTAG
228639 GGTAACTTGGATATAAAAGGATTA
66 GGTAACTTGGATATAAAAGGATTA
228663 TTAAATTCTAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTA
1 TTAAATTC-AATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTA
228728 GGGTAACTTGGATATAAAAGG
65 GGGTAACTTGGATATAAAAGG
228749 GTGTGTTAGG
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
89 7 0.09
90 73 0.91
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (89 bp):
TTAAATTCAATTAATTAAATATAGATTTAATTAATTTAAAATAATAAAAACCCTAATATGACTAG
GGTAACTTGGATATAAAAGGATTA
Found at i:234381 original size:55 final size:55
Alignment explanation
Indices: 234293--234403 Score: 186
Period size: 55 Copynumber: 2.0 Consensus size: 55
234283 ACTTCTCTTA
* * *
234293 GGTTTTTGTCTCTTGTATATGCTTTTATGGGGAAGTTTGTCTGGGTTGAATACTT
1 GGTTTTTATCTCTTGCATATGCTTTTATAGGGAAGTTTGTCTGGGTTGAATACTT
*
234348 GGTTTTTATCTCTTGCATATGCTTTTATAGGGAAGTTTGTCTGGTTTGAATACTT
1 GGTTTTTATCTCTTGCATATGCTTTTATAGGGAAGTTTGTCTGGGTTGAATACTT
234403 G
1 G
234404 AGTTATAAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.16, C:0.10, G:0.25, T:0.49
Consensus pattern (55 bp):
GGTTTTTATCTCTTGCATATGCTTTTATAGGGAAGTTTGTCTGGGTTGAATACTT
Found at i:238719 original size:37 final size:36
Alignment explanation
Indices: 238664--238748 Score: 118
Period size: 37 Copynumber: 2.3 Consensus size: 36
238654 TGGTAACCAA
238664 CTTTGGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTT-GAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
* *
238701 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
*
238738 -GTTGAAAAATG
1 CTTTGAAAAATG
238749 ATAATGGGAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
35 1 0.02
36 16 0.36
37 27 0.61
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:240178 original size:45 final size:45
Alignment explanation
Indices: 240105--240191 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
240095 CAATGGGGGC
* * *
240105 ATGATAGTTGATCTCACATTGTCTATGTATGACATGTCTAACTTT
1 ATGATACTTGATCTCACATGGTCAATGTATGACATGTCTAACTTT
* *
240150 ATGATACTTTATCTCACATGGTCAATGTATGACATTTCTAAC
1 ATGATACTTGATCTCACATGGTCAATGTATGACATGTCTAAC
240192 AAGTTGAAGC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (45 bp):
ATGATACTTGATCTCACATGGTCAATGTATGACATGTCTAACTTT
Found at i:241078 original size:39 final size:39
Alignment explanation
Indices: 241024--241100 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
241014 TACGAGAAAA
241024 CTCGAAAAAGAATTAAAAATATTAGTATCGAACATTCAT
1 CTCGAAAAAGAATTAAAAATATTAGTATCGAACATTCAT
* * **
241063 CTCGAAAAAGAATTAAACATATTCGTATCTCACATTCA
1 CTCGAAAAAGAATTAAAAATATTAGTATCGAACATTCA
241101 CGTTTCGGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (39 bp):
CTCGAAAAAGAATTAAAAATATTAGTATCGAACATTCAT
Found at i:242645 original size:24 final size:24
Alignment explanation
Indices: 242618--242690 Score: 128
Period size: 24 Copynumber: 3.0 Consensus size: 24
242608 AAGGCCGGAG
242618 ACAACTCAATAGAGATGTAAGAAC
1 ACAACTCAATAGAGATGTAAGAAC
242642 ACAACTCAATAGAGATGTAAGAAC
1 ACAACTCAATAGAGATGTAAGAAC
* *
242666 ACAAATCAATGGAGATGTAAGAAC
1 ACAACTCAATAGAGATGTAAGAAC
242690 A
1 A
242691 AATTACATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 47 1.00
ACGTcount: A:0.51, C:0.15, G:0.18, T:0.16
Consensus pattern (24 bp):
ACAACTCAATAGAGATGTAAGAAC
Found at i:247403 original size:40 final size:40
Alignment explanation
Indices: 247312--247404 Score: 105
Period size: 40 Copynumber: 2.3 Consensus size: 40
247302 GCGTTTTTCA
* * *
247312 ATAAACGCCGTAACAGATTAGTATTTTAGCGGCGTTTATAT
1 ATAAACGCCG-CACAGATTAGTACTTTAGCGGCATTTATAT
* * ** *
247353 ACAAATGCCGCACAGATTAGTACTTTAGCGTTATTTTTAT
1 ATAAACGCCGCACAGATTAGTACTTTAGCGGCATTTATAT
247393 ATAAACGCCGCA
1 ATAAACGCCGCA
247405 ATAGGTCCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
40 34 0.81
41 8 0.19
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Consensus pattern (40 bp):
ATAAACGCCGCACAGATTAGTACTTTAGCGGCATTTATAT
Found at i:247477 original size:42 final size:41
Alignment explanation
Indices: 247297--247504 Score: 165
Period size: 41 Copynumber: 5.1 Consensus size: 41
247287 AGTCCATCTA
* * *
247297 TAGTTGCGTTTTTCAATAAACGCCGTAACAGATTAGTATTT
1 TAGTGGCGTTTTTCAATAAACGCCGCAACAGATTAGTACTT
* * * *
247338 TAGCGGCGTTTAT-ATACAAATGCCGC-ACAGATTAGTACTT
1 TAGTGGCGTTTTTCA-ATAAACGCCGCAACAGATTAGTACTT
* *** * * * *
247378 TAGCGTTATTTTT-ATATAAACGCCGCAATAGGTCCA-T-CTA
1 TAGTGGCGTTTTTCA-ATAAACGCCGCAACAGAT-TAGTACTT
*
247418 TAGTGGCGGTTTTTCAATAAACACCGCAACAGATTAGTACTT
1 TAGTGGC-GTTTTTCAATAAACGCCGCAACAGATTAGTACTT
* * *
247460 TAGTGGCGTTTTTTCAATAAACGCCACAACATATTAGTAATT
1 TAGTGGCG-TTTTTCAATAAACGCCGCAACAGATTAGTACTT
247502 TAG
1 TAG
247505 CGGCATTTGC
Statistics
Matches: 129, Mismatches: 30, Indels: 15
0.74 0.17 0.09
Matches are distributed among these distances:
40 41 0.32
41 45 0.35
42 43 0.33
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (41 bp):
TAGTGGCGTTTTTCAATAAACGCCGCAACAGATTAGTACTT
Found at i:248925 original size:2 final size:2
Alignment explanation
Indices: 248918--248983 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
248908 TACATAAGCA
248918 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
248960 AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT
248984 TCTTTTATAT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:251353 original size:21 final size:21
Alignment explanation
Indices: 251327--251369 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
251317 AAGGAAAATA
251327 TGTTCTTATGCTTTGATTGGT
1 TGTTCTTATGCTTTGATTGGT
251348 TGTTCTTATGCTTTGATTGGT
1 TGTTCTTATGCTTTGATTGGT
251369 T
1 T
251370 AGCCCCAGTT
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:0.09, C:0.09, G:0.23, T:0.58
Consensus pattern (21 bp):
TGTTCTTATGCTTTGATTGGT
Found at i:254422 original size:19 final size:19
Alignment explanation
Indices: 254398--254437 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
254388 ACAAACCAAT
254398 TAGTCTTGTTGGAAGTTTG
1 TAGTCTTGTTGGAAGTTTG
254417 TAGTCTTGTTGGAAGTTTG
1 TAGTCTTGTTGGAAGTTTG
254436 TA
1 TA
254438 CAAAATTATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.30, T:0.47
Consensus pattern (19 bp):
TAGTCTTGTTGGAAGTTTG
Found at i:259036 original size:20 final size:20
Alignment explanation
Indices: 258999--259037 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
258989 AGATTGAGTG
* * *
258999 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
259019 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
259038 AGTTTAAGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:259213 original size:21 final size:21
Alignment explanation
Indices: 259187--259226 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
259177 CAGAACCCCA
*
259187 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
259208 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
259227 TCAAAGGGGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:259258 original size:21 final size:23
Alignment explanation
Indices: 259207--259266 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
259197 GATTCCCCTG
*
259207 TGGGGGGAATCGGTTCCCCTTCA
1 TGGGGGGAATCGGTTCCACTTCA
**
259230 AAGGGGGAATCGGTT-CAC-TCA
1 TGGGGGGAATCGGTTCCACTTCA
*
259251 TGGGGGG-ATCGATTCC
1 TGGGGGGAATCGGTTCC
259267 CTCTGCACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 6 0.20
21 9 0.30
22 2 0.07
23 13 0.43
ACGTcount: A:0.18, C:0.22, G:0.37, T:0.23
Consensus pattern (23 bp):
TGGGGGGAATCGGTTCCACTTCA
Found at i:260816 original size:17 final size:17
Alignment explanation
Indices: 260794--260835 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
260784 CATCATAGTC
260794 TATACCCTCTTCTTGAG
1 TATACCCTCTTCTTGAG
260811 TATACCCTCTTCTTGAG
1 TATACCCTCTTCTTGAG
260828 TATACCCT
1 TATACCCT
260836 TGAGCAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.31, G:0.10, T:0.40
Consensus pattern (17 bp):
TATACCCTCTTCTTGAG
Found at i:264696 original size:18 final size:19
Alignment explanation
Indices: 264664--264704 Score: 75
Period size: 18 Copynumber: 2.2 Consensus size: 19
264654 AAACCATTCA
264664 GGGGAATCGGTACCCCCTT
1 GGGGAATCGGTACCCCCTT
264683 GGGGAATC-GTACCCCCTT
1 GGGGAATCGGTACCCCCTT
264701 GGGG
1 GGGG
264705 GGAATCGTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.15, C:0.29, G:0.37, T:0.20
Consensus pattern (19 bp):
GGGGAATCGGTACCCCCTT
Found at i:264705 original size:19 final size:19
Alignment explanation
Indices: 264664--264712 Score: 73
Period size: 18 Copynumber: 2.5 Consensus size: 19
264654 AAACCATTCA
264664 GGGGAATCGGTACCCCCTT-
1 GGGGAATC-GTACCCCCTTG
264683 GGGGAATCGTACCCCCTTGG
1 GGGGAATCGTACCCCCTT-G
264703 GGGGAATCGT
1 GGGGAATCGT
264713 TCCCTCTGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.36
19 8 0.29
20 10 0.36
ACGTcount: A:0.16, C:0.27, G:0.37, T:0.20
Consensus pattern (19 bp):
GGGGAATCGTACCCCCTTG
Found at i:267738 original size:43 final size:43
Alignment explanation
Indices: 267621--267741 Score: 172
Period size: 43 Copynumber: 2.8 Consensus size: 43
267611 CTTCTGCGTC
*
267621 AAACGCCGCTATAGATCTGACCTTTTGCGGCATTTGTTCCAAA
1 AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
* *
267664 AAACGCCGCTATATATATGACCTTTTGCGGCGTTTGTTCC-AA
1 AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
* * *
267706 AAACGCCACAATAGATCTCGACCTATTGCGGCGTTT
1 AAACGCCGCTATAGATCT-GACCTTTTGCGGCGTTT
267742 TTTATTCTCA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 16 0.23
43 53 0.77
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (43 bp):
AAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTGTTCCAAA
Found at i:268071 original size:24 final size:24
Alignment explanation
Indices: 268011--268080 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 24
268001 TGAGAAACCT
*
268011 ATTATAACCATTTT-TTTAAAAAATA
1 ATTATAA-C-TTTTATTTAAAAAACA
*
268036 ATTA-AA-TATTATTTAAAAAACA
1 ATTATAACTTTTATTTAAAAAACA
268058 ATTATAACTTTTATTTAGAAAAA
1 ATTATAACTTTTATTTA-AAAAA
268081 TTGGGGATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 3 0.08
22 14 0.37
23 2 0.05
24 10 0.26
25 9 0.24
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.41
Consensus pattern (24 bp):
ATTATAACTTTTATTTAAAAAACA
Done.