Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009078.1 Hibiscus syriacus cultivar Beakdansim tig00112517_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: 829977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:5212 original size:10 final size:10
Alignment explanation
Indices: 5151--5215 Score: 69
Period size: 10 Copynumber: 6.4 Consensus size: 10
5141 ATTATGCTTG
5151 AAGAAAAAAA
1 AAGAAAAAAA
*
5161 AAGAACAAAA
1 AAGAAAAAAA
*
5171 AAGAACAAAA
1 AAGAAAAAAA
5181 AAGAAAAAAA
1 AAGAAAAAAA
*
5191 TGAGGAAAAAAA
1 --AAGAAAAAAA
*
5203 AA-AAAGAAA
1 AAGAAAAAAA
5212 AAGA
1 AAGA
5216 GGGGTCAAGA
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
9 8 0.17
10 30 0.64
12 9 0.19
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.02
Consensus pattern (10 bp):
AAGAAAAAAA
Found at i:6098 original size:115 final size:115
Alignment explanation
Indices: 5899--6347 Score: 757
Period size: 115 Copynumber: 4.0 Consensus size: 115
5889 TACCACGTTA
5899 TCATAGTAGAAAT---AAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
*
5961 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTTGC
*
6011 TCATAGTAGAAATAAGAAGACTCAATAGCAGCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* *
6076 TTTGGTATGAACCCCAAAAACCAATCATTGGATTTGAAATATGAATTTGC
66 TTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTTGC
6126 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
6191 TTTGGTATGAACCCCAAAAACCAATCATTAGATTT-AAAGATGAATTTGC
66 TTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTTGC
* *
6240 TCATAGTAGAAATAAGGAGACCCAATAGCATC-TCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
1 TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
* * * * *
6304 TTCGGTAGGAACCAC-AGAACCAATCATTAGAATTGAAAGATGAA
66 TTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAA
6348 CTGCATGATC
Statistics
Matches: 321, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
112 30 0.09
113 53 0.17
114 43 0.13
115 195 0.61
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (115 bp):
TCATAGTAGAAATAAGAAGACTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG
TTTGGTATGAACCCCAAAAACCAATCATTAGATTTGAAAGATGAATTTGC
Found at i:7478 original size:116 final size:111
Alignment explanation
Indices: 7306--7725 Score: 379
Period size: 120 Copynumber: 3.7 Consensus size: 111
7296 TTTCCAGTTC
*
7306 GAGTTCATAATGAGAAGAACTCATCTG-A-AAGAAGGAAGAAGTTCATAATGAGAAGAATTTGTT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA-TTCATAATGAGAAGAATTTGTT
* * *
7369 CAACCTTTTGTTTGAATTCATCATTTGATGGATC-GACATTGCCAG-GTA
65 CAACCTTTTG-CTAAATCCATCATTTGATGGATCAG-CATTGCCAGAG-A
7417 GAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTT
1 GAGTTCATAATGAGAAGAA--C-TCATCTGAAGAAGAAAGAAG-AATTCATAATGAGAAGAATTT
* *
7482 GTTCAACCTTTTGCTAAATCCATCATTTGATGGATCAGCTTTTCCAGAGA
62 GTTCAACCTTTTGCTAAATCCATCATTTGATGGATCAGCATTGCCAGAGA
* * **
7532 AAGTTCATAATGAGAAGAACTCATCTGAAGAAG-AAGAAG--TTCACAATGAGAAGAGCTTGTTC
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAATTCATAATGAGAAGAATTTGTTC
* ** * * * * * *
7594 AACATTTTGCATAATTCTATCACAGAAAGAGATAGATTAGTATCAACCTTTCCAGAGA
66 AACCTTTTGC-TAA----ATC-C---ATCA-TTTGA-T-GGATCAGCATTGCCAGAGA
* * ** *
7652 AAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAA-AAAAAGTTCATAATGAGAAGAGCTTATT
1 GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAA-TTCATAATGAGAAGAATTTGTT
7716 CAACCTTTTG
65 CAACCTTTTG
7726 AATGACTCTA
Statistics
Matches: 263, Mismatches: 22, Indels: 36
0.82 0.07 0.11
Matches are distributed among these distances:
108 29 0.11
109 3 0.01
111 25 0.10
112 13 0.05
113 5 0.02
114 8 0.03
115 47 0.18
116 43 0.16
117 4 0.02
118 3 0.01
119 1 0.00
120 51 0.19
121 2 0.01
123 29 0.11
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.28
Consensus pattern (111 bp):
GAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGAATTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTAAATCCATCATTTGATGGATCAGCATTGCCAGAGA
Found at i:7566 original size:115 final size:114
Alignment explanation
Indices: 7307--7602 Score: 353
Period size: 115 Copynumber: 2.7 Consensus size: 114
7297 TTCCAGTTCG
*
7307 AGTTCATAATGAGAAGAACTCATCTGA-AAGAAG--GAAGAAGTTCATAATGAGAAGAATTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
* * * *
7369 CAACCTTTTGTTTGAATTCATCATTTGATGGATCGACATTGCCAGGTAG
66 CAACCTTTTGTCTAAATCCATCATTTGATGGATCGACATTGCCAGGTAA
* **
7418 AGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAAGAAGAAATTCATAATGAGAAGAATTTG
1 AGTTCATAATGAGAAGAACTCATC-TGAGAAGAAG-AAGAAGAAATTCATAATGAGAAGAATTTG
* *
7483 TTCAACCTTTTG-CTAAATCCATCATTTGATGGATC-AGCTTTTCCAGAG-AA
64 TTCAACCTTTTGTCTAAATCCATCATTTGATGGATCGA-CATTGCCAG-GTAA
* **
7533 AGTTCATAATGAGAAGAACTCATCT--GAAGAAGAAGAAG---TTCACAATGAGAAGAGCTTGTT
1 AGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
*
7593 CAACATTTTG
66 CAACCTTTTG
7603 CATAATTCTA
Statistics
Matches: 163, Mismatches: 15, Indels: 17
0.84 0.08 0.09
Matches are distributed among these distances:
108 28 0.17
111 29 0.18
112 8 0.05
113 6 0.04
114 2 0.01
115 51 0.31
116 39 0.24
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.29
Consensus pattern (114 bp):
AGTTCATAATGAGAAGAACTCATCTGAGAAGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGTCTAAATCCATCATTTGATGGATCGACATTGCCAGGTAA
Found at i:7738 original size:123 final size:120
Alignment explanation
Indices: 7522--7741 Score: 350
Period size: 123 Copynumber: 1.8 Consensus size: 120
7512 TGGATCAGCT
*
7522 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGTTCACAATGAGAAGAG
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAGTTCACAATGAGAAGAG
* * *
7587 CTTGTTCAACATTTTGCATAATTCTATCACAGAAAGAGATAGATTAGTATCAACC
66 CTTATTCAACATTTTGAATAACTCTATCACAGAAAGAGATAGATTAGTATCAACC
*
7642 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAAAAGTTCATAATGAGAA
1 TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAG---AAAAAGTTCACAATGAGAA
* *
7707 GAGCTTATTCAACCTTTTGAATGACTCTATCACAG
63 GAGCTTATTCAACATTTTGAATAACTCTATCACAG
7742 GAAATAGGAC
Statistics
Matches: 90, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
120 43 0.48
123 47 0.52
ACGTcount: A:0.41, C:0.15, G:0.18, T:0.26
Consensus pattern (120 bp):
TTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAAAGTTCACAATGAGAAGAG
CTTATTCAACATTTTGAATAACTCTATCACAGAAAGAGATAGATTAGTATCAACC
Found at i:7810 original size:346 final size:347
Alignment explanation
Indices: 7121--7810 Score: 832
Period size: 346 Copynumber: 2.0 Consensus size: 347
7111 ATCTGAAGAA
* *
7121 AGAAGAATTTGTTCAACCTTTTGCTCAAATTCATCATTCAATGGATCAGCGTTGCCAGAAGGTTC
1 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCGTTGCCAGAAAGTTC
* *
7186 ATAATGAGAAGAACTTATCTGAAGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCAATCTT
66 ATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAATC-T
* * * ****
7251 TTTTTGCTTAATTCTATCACAGAAGAAGATAGATTAGCATTAACATTTCCAGTTCGAGTTCATAA
130 ATTTTGCATAATTCTATCACAGAAGAAGATAGATTAGCATCAACATTTCCAGAGAAAGTTCATAA
* * * * **
7316 TGAGAAGAACTCATCTGAAAGAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTT
195 TGAGAAGAACTCATCTGAAAGAAGAAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGAA
*** * * * *
7381 TGAATTCATCATTTGATGGATCGACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCT
260 TGAATTCATCACAGGATGGATCAACATTCCCAGGGAAAGTTCATAATGAGAAGAAC-CGTCATCT
7446 GAAGAAGAAAGAAGAAATTCATAATG
324 --AGAAGAAAGAAGAAATTCATAATG
** * *
7472 AGAAGAATTTGTTCAACCTTTTGCT-AAATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGT
1 AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCGTTGCC--AGAAAGT
7536 TCATAATGAGAAGAACTCATCTG-A-AG-AAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAA-C
64 TCATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAATC
* *
7597 -ATTTTGCATAATTCTATCACAGAA-AGAGATAGATTAGTATCAACCTTTCCAGAGAAAGTTCAT
129 TATTTTGCATAATTCTATCACAGAAGA-AGATAGATTAGCATCAACATTTCCAGAGAAAGTTCAT
*
7660 AATGAGAAGAACTCATCTG-AAGAAGAAAAAAAAGTTCATAATGAGAAGAGCTTATTCAACCTTT
193 AATGAGAAGAACTCATCTGAAAGAAG--AAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTT
* *
7724 TGAATG-ACTCTATCACAGGAAATAGGA-CAACATCATCCCCAGCGGAAAGTTCATAATGAGAAT
256 TGAATGAATTC-ATCACAGG--AT-GGATCAACAT--T-CCCAG-GGAAAGTTCATAATGAGAAG
7787 AA-C-TCATCT-GAAGAAAG-AGAAATT
313 AACCGTCATCTAGAAGAAAGAAGAAATT
7811 ATTCAACATT
Statistics
Matches: 293, Mismatches: 33, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
345 7 0.02
346 81 0.28
347 49 0.17
348 1 0.00
349 40 0.14
350 36 0.12
351 28 0.10
352 32 0.11
353 19 0.06
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.28
Consensus pattern (347 bp):
AGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCAATGGATCAGCGTTGCCAGAAAGTTC
ATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAGTTCACAATGAGAAGAGCTTGTTCAATCTA
TTTTGCATAATTCTATCACAGAAGAAGATAGATTAGCATCAACATTTCCAGAGAAAGTTCATAAT
GAGAAGAACTCATCTGAAAGAAGAAAAAAGTTCATAATGAGAAGAACTTATTCAACCTTTTGAAT
GAATTCATCACAGGATGGATCAACATTCCCAGGGAAAGTTCATAATGAGAAGAACCGTCATCTAG
AAGAAAGAAGAAATTCATAATG
Found at i:7961 original size:3 final size:3
Alignment explanation
Indices: 7953--8012 Score: 66
Period size: 3 Copynumber: 18.3 Consensus size: 3
7943 ACTTATTTAT
*
7953 TTA TTA TTA TAA TTA TTA TTA TTA TTA TTA TATA TATA TATA TATA TATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA T-TA T-TA
8003 TTA TTA TTA T
1 TTA TTA TTA T
8013 AAAATAAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
3 35 0.65
4 19 0.35
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:12164 original size:16 final size:16
Alignment explanation
Indices: 12143--12177 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
12133 ATGATTAAGC
12143 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
* *
12159 GCTGAATGGTTCAGAT
1 GCTGAATGATTCAAAT
12175 GCT
1 GCT
12178 CTGTATGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (16 bp):
GCTGAATGATTCAAAT
Found at i:16931 original size:31 final size:30
Alignment explanation
Indices: 16876--16941 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
16866 TTAAAAATAT
*
16876 AATT-TTTTTAAAATTACCTAAGCATGAC-
1 AATTATTTTTAAAATTACATAAGCATGACA
*
16904 AATTATTTTTAAAATTATATATGAGCATGACA
1 AATTATTTTTAAAATTACATA--AGCATGACA
16936 AATTAT
1 AATTAT
16942 GAAGAACGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.12
29 14 0.44
31 8 0.25
32 6 0.19
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (30 bp):
AATTATTTTTAAAATTACATAAGCATGACA
Found at i:18929 original size:4 final size:4
Alignment explanation
Indices: 18920--18955 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
18910 TTATCAAACA
* *
18920 GTAT GTAT GTAT GTAT ATAT ATAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
18956 AGACAGAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:21330 original size:2 final size:2
Alignment explanation
Indices: 21323--21391 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
21313 TCAGTAAATA
21323 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
21365 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 A
21392 CGTAGATATT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22253 original size:21 final size:19
Alignment explanation
Indices: 22208--22259 Score: 52
Period size: 21 Copynumber: 2.7 Consensus size: 19
22198 AAATCGATAA
* *
22208 AATATTTATTTAAAATATT
1 AATATTTATTTAAAACATC
*
22227 ATTATTTATACTTAAAACATC
1 AATATTTAT--TTAAAACATC
22248 AATATTT-TTTAA
1 AATATTTATTTAA
22260 TATTTACAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.15
19 8 0.30
20 1 0.04
21 14 0.52
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
AATATTTATTTAAAACATC
Found at i:22336 original size:18 final size:18
Alignment explanation
Indices: 22315--22354 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
22305 AACAAAATCG
*
22315 ATAAAA-CGTATAATAATA
1 ATAAAATCG-ATAAAAATA
22333 ATAAAATCGATAAAAATA
1 ATAAAATCGATAAAAATA
22351 ATAA
1 ATAA
22355 TAATTTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (18 bp):
ATAAAATCGATAAAAATA
Found at i:22338 original size:27 final size:24
Alignment explanation
Indices: 22302--22358 Score: 78
Period size: 27 Copynumber: 2.2 Consensus size: 24
22292 CGATAGAAAA
*
22302 AATAACAAAATCGATAAAACGTATAAT
1 AATAATAAAATCGATAAAA---ATAAT
22329 AATAATAAAATCGATAAAAATAAT
1 AATAATAAAATCGATAAAAATAAT
22353 AATAAT
1 AATAAT
22359 TTCTATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 11 0.38
27 18 0.62
ACGTcount: A:0.63, C:0.07, G:0.05, T:0.25
Consensus pattern (24 bp):
AATAATAAAATCGATAAAAATAAT
Found at i:24391 original size:36 final size:36
Alignment explanation
Indices: 24343--24412 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
24333 TTAAGAATAT
*
24343 TTTCACAGGCACTAAAGTTGCA-ATAATCAATCAATC
1 TTTCACAAGCACTAAAGTTG-ATATAATCAATCAATC
*
24379 TTTCACAAGCACTAAAGTTGATTTAATCAATCAA
1 TTTCACAAGCACTAAAGTTGATATAATCAATCAA
24413 AACCCATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 1 0.03
36 30 0.97
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (36 bp):
TTTCACAAGCACTAAAGTTGATATAATCAATCAATC
Found at i:28126 original size:14 final size:15
Alignment explanation
Indices: 28109--28137 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28099 TTGGAATTTA
28109 ATAATTTT-ATTATT
1 ATAATTTTAATTATT
28123 ATAATTTTAATTATT
1 ATAATTTTAATTATT
28138 GCATAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATAATTTTAATTATT
Found at i:40913 original size:23 final size:21
Alignment explanation
Indices: 40861--40913 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 21
40851 ATTAAAGCTT
40861 TAAAACAAC-AA-AAATACAG
1 TAAAACAACAAAGAAATACAG
*
40880 TAATA-AA-AAAGACAATACAG
1 TAAAACAACAAAGA-AATACAG
40900 CTAAAACAACAAAG
1 -TAAAACAACAAAG
40914 TGGGTGTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
18 4 0.15
19 5 0.19
20 7 0.27
21 4 0.15
22 2 0.08
23 4 0.15
ACGTcount: A:0.66, C:0.15, G:0.08, T:0.11
Consensus pattern (21 bp):
TAAAACAACAAAGAAATACAG
Found at i:43013 original size:2 final size:2
Alignment explanation
Indices: 43006--43036 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
42996 GCCAAGAATA
43006 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
43037 AGTCGGTCAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:44115 original size:18 final size:18
Alignment explanation
Indices: 44092--44126 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
44082 ACATGGTGAG
44092 TGAGA-TATGATGGTCATT
1 TGAGATTATG-TGGTCATT
44110 TGAGATTATGTGGTCAT
1 TGAGATTATGTGGTCAT
44127 ATTTTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.26, C:0.06, G:0.29, T:0.40
Consensus pattern (18 bp):
TGAGATTATGTGGTCATT
Found at i:45556 original size:60 final size:60
Alignment explanation
Indices: 45426--45563 Score: 156
Period size: 60 Copynumber: 2.3 Consensus size: 60
45416 ATAGTACAAT
* *
45426 GACCATTTTGTAACTTTTAATAGTCGAGAGACTCAACAAAGTAACATCATATAGTTAGGG
1 GACCATTTTGTAACTTTTAATAATCGAGAGACTCAACAAAGTAACATCATATAGTCAGGG
* * * * *
45486 GACTATTTTGTAACTTTTAATAATCGATG-GACTTAATAAAGTAATAT-ATGTATAGTCGGGG
1 GACCATTTTGTAACTTTTAATAATCGA-GAGACTCAACAAAGTAACATCA--TATAGTCAGGG
45547 GACCATTTGTGT-ACTTT
1 GACCATTT-TGTAACTTT
45564 ACCCTGTAGT
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
59 1 0.02
60 40 0.61
61 22 0.33
62 3 0.05
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (60 bp):
GACCATTTTGTAACTTTTAATAATCGAGAGACTCAACAAAGTAACATCATATAGTCAGGG
Found at i:51472 original size:21 final size:21
Alignment explanation
Indices: 51447--51487 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
51437 CATATGAAAT
51447 TTGTCCCGAAGGACCTATGAG
1 TTGTCCCGAAGGACCTATGAG
51468 TTGTCCCGAAGGACCTATGA
1 TTGTCCCGAAGGACCTATGA
51488 AACCCTCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAG
Found at i:52444 original size:19 final size:20
Alignment explanation
Indices: 52412--52449 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
52402 CGTTTGGAAG
*
52412 AAGAGAAGAGTGAAGAAGAT
1 AAGAGAAGAATGAAGAAGAT
52432 AAGA-AAGAATGAAGAAGA
1 AAGAGAAGAATGAAGAAGA
52450 GATGAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.08
Consensus pattern (20 bp):
AAGAGAAGAATGAAGAAGAT
Found at i:58302 original size:21 final size:21
Alignment explanation
Indices: 58249--58312 Score: 92
Period size: 21 Copynumber: 3.0 Consensus size: 21
58239 ATATAAAAAT
*
58249 TTGTCCCGAAGGACCTGTGAA
1 TTGTCCCGAAGGACCTATGAA
* *
58270 TATGTCCTGAAGGACCTATGAG
1 T-TGTCCCGAAGGACCTATGAA
58292 TTGTCCCGAAGGACCTATGAA
1 TTGTCCCGAAGGACCTATGAA
58313 ACCCTCGACT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 19 0.51
22 18 0.49
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.25
Consensus pattern (21 bp):
TTGTCCCGAAGGACCTATGAA
Found at i:59317 original size:19 final size:20
Alignment explanation
Indices: 59285--59322 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
59275 CGTTTGGAAG
*
59285 AAGAGAAGAGTGAAGAAGAT
1 AAGAGAAGAATGAAGAAGAT
59305 AAGA-AAGAATGAAGAAGA
1 AAGAGAAGAATGAAGAAGA
59323 GATGAGAGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.32, T:0.08
Consensus pattern (20 bp):
AAGAGAAGAATGAAGAAGAT
Found at i:70329 original size:22 final size:22
Alignment explanation
Indices: 70304--70352 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
70294 ACTATCTCTC
70304 GGTACTTGGAGATAGCCAAATG
1 GGTACTTGGAGATAGCCAAATG
*
70326 GGTACTTGGAGATAGCCGAATG
1 GGTACTTGGAGATAGCCAAATG
70348 GGTAC
1 GGTAC
70353 ACCCTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.14, G:0.35, T:0.22
Consensus pattern (22 bp):
GGTACTTGGAGATAGCCAAATG
Found at i:75324 original size:13 final size:13
Alignment explanation
Indices: 75308--75356 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
75298 AAATAAAATA
*
75308 AAAAACGAATAAT
1 AAAAACAAATAAT
**
75321 AAAAATGAA-AAT
1 AAAAACAAATAAT
75333 AAAAACAAATAAT
1 AAAAACAAATAAT
75346 AAAAACAAATA
1 AAAAACAAATA
75357 TATATTATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 10 0.31
13 22 0.69
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.14
Consensus pattern (13 bp):
AAAAACAAATAAT
Found at i:75336 original size:25 final size:25
Alignment explanation
Indices: 75290--75350 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
75280 GAGAGAAAGA
*
75290 AAATAA-ATAAATAAAATAAAAAAC
1 AAATAATAAAAATAAAATAAAAAAC
*
75314 GAATAATAAAAATGAAAAT-AAAAAC
1 AAATAATAAAAAT-AAAATAAAAAAC
75339 AAATAATAAAAA
1 AAATAATAAAAA
75351 CAAATATATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.16
25 22 0.69
26 5 0.16
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.16
Consensus pattern (25 bp):
AAATAATAAAAATAAAATAAAAAAC
Found at i:75499 original size:37 final size:36
Alignment explanation
Indices: 75458--75756 Score: 315
Period size: 37 Copynumber: 8.2 Consensus size: 36
75448 TTTTAAAAAA
75458 ATTATATAAATTTTCAAAATGATTTTAAAAACTATAT
1 ATTATATAAATTTTCAAAATG-TTTTAAAAACTATAT
* * * *
75495 ATTATATATATGTTTTTAAAATGTTTTTAAAATTATAT
1 ATTATATA-A-ATTTTCAAAATGTTTTAAAAACTATAT
* *
75533 ATTATATAAGTTTTCAAAAATAATTTTAAAAACTATAT
1 ATTATATAAATTTTC-AAAAT-GTTTTAAAAACTATAT
75571 ATTATAT--ATTTTCTAAAATG-TTT-AAAACTATAT
1 ATTATATAAATTTTC-AAAATGTTTTAAAAACTATAT
*
75604 ATTATAT-AGTTTTCAAAAATGTTTTTAAAAACTATAT
1 ATTATATAAATTTTC-AAAATG-TTTTAAAAACTATAT
* *
75641 ATTATATATATTTTCCAAATGTTTTAAAAACTATAT
1 ATTATATAAATTTTCAAAATGTTTTAAAAACTATAT
* ** *
75677 ATTATAT-AGTTTTCAATTTTTTTTTAAAAAACTATAT
1 ATTATATAAATTTTCAA-AATGTTTT-AAAAACTATAT
* * *
75714 ATTATATATATTTTCTAAATGTTTT-AAAATTATAT
1 ATTATATAAATTTTCAAAATGTTTTAAAAACTATAT
75749 ATTATATA
1 ATTATATA
75757 CGTAGTTTCA
Statistics
Matches: 221, Mismatches: 29, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
33 17 0.08
34 14 0.06
35 23 0.10
36 45 0.20
37 59 0.27
38 53 0.24
39 10 0.05
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (36 bp):
ATTATATAAATTTTCAAAATGTTTTAAAAACTATAT
Found at i:75546 original size:108 final size:110
Alignment explanation
Indices: 75434--75793 Score: 374
Period size: 108 Copynumber: 3.3 Consensus size: 110
75424 ATTAAAAAAT
*
75434 GTTTTCTAAAAATATTTTAAAAA-AAT-TA-TATAAATTTTCAAAATGATTTTAAAAACTATATA
1 GTTTTC-AAAAATATTTTAAAAACTATATATTATAAATTTTCAAAATG-TTTTAAAAACTATATA
75496 TTATATATATGTTTTTAAAATGTTTTTAAAATTATATATTATATA-A
64 TTATATATATGTTTTTAAAATGTTTTTAAAATTATATATTATATATA
*
75542 GTTTTCAAAAATAATTTTAAAAACTATATATTATATATTTTCTAAAATG-TTT-AAAACTATATA
1 GTTTTCAAAAAT-ATTTTAAAAACTATATATTATAAATTTTC-AAAATGTTTTAAAAACTATATA
* *
75605 -T-TATATA-GTTTTCAAAAATGTTTTTAAAAACTATATATTATATATA
64 TTATATATATGTTTT-TAAAATGTTTTT-AAAATTATATATTATATATA
* * * ** *
75651 -TTTTC-CAAATGTTTTAAAAACTATATATTATATAGTTTTCAATTTTTTTTTAAAAAACTATAT
1 GTTTTCAAAAATATTTTAAAAACTATATATTATA-AATTTTCAA-AATGTTTT-AAAAACTATAT
*
75714 ATTATATATAT-TTTCT-AAATG-TTTTAAAATTATATATTATATACGTA
63 ATTATATATATGTTTTTAAAATGTTTTTAAAATTATATATTATATA--TA
** *
75761 G-TTTCAAAAATCA-TTTGCAAACTATATAATATA
1 GTTTTCAAAAAT-ATTTTAAAAACTATATATTATA
75794 TATATAAAAT
Statistics
Matches: 212, Mismatches: 19, Indels: 39
0.79 0.07 0.14
Matches are distributed among these distances:
106 28 0.13
107 33 0.16
108 59 0.28
109 18 0.08
110 27 0.13
111 32 0.15
112 15 0.07
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.47
Consensus pattern (110 bp):
GTTTTCAAAAATATTTTAAAAACTATATATTATAAATTTTCAAAATGTTTTAAAAACTATATATT
ATATATATGTTTTTAAAATGTTTTTAAAATTATATATTATATATA
Found at i:75709 original size:73 final size:72
Alignment explanation
Indices: 75458--75798 Score: 383
Period size: 73 Copynumber: 4.7 Consensus size: 72
75448 TTTTAAAAAA
* *
75458 ATTATATAAATTTTC-AAAATGA-TTTTAAAAACTATATATTATATATATGTTTTTAAAATGTTT
1 ATTATAT-AGTTTTCAAAAAT-ATTTTTAAAAACTATATATTATATATA--TTTTCAAAATG-TT
*
75521 TTAAAATTATAT
61 TTAAAACTATAT
*
75533 ATTATATAAGTTTTCAAAAATAATTTTAAAAACTATATA-T-TATATATTTTCTAAAATG-TTTA
1 ATTATAT-AGTTTTCAAAAATATTTTTAAAAACTATATATTATATATATTTTC-AAAATGTTTTA
75595 AAACTATAT
64 AAACTATAT
* *
75604 ATTATATAGTTTTCAAAAATGTTTTTAAAAACTATATATTATATATATTTTCCAAATGTTTTAAA
1 ATTATATAGTTTTCAAAAATATTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTT-AA
75669 AACTATAT
65 AACTATAT
** * *
75677 ATTATATAGTTTTC-AATTTTTTTTTAAAAAACTATATATTATATATATTTTCTAAATGTTTTAA
1 ATTATATAGTTTTCAAAAATATTTTT-AAAAACTATATATTATATATATTTTCAAAATGTTTTAA
*
75741 AATTATAT
65 AACTATAT
** *
75749 ATTATATACGTAGTTTCAAAAATCA--TTTGCAAACTATATAATATATATAT
1 ATTATATA-GT--TTTCAAAAAT-ATTTTTAAAAACTATATATTATATATAT
75799 AAAATGATAT
Statistics
Matches: 236, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
70 29 0.12
71 25 0.11
72 43 0.18
73 67 0.28
74 25 0.11
75 23 0.10
76 24 0.10
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.48
Consensus pattern (72 bp):
ATTATATAGTTTTCAAAAATATTTTTAAAAACTATATATTATATATATTTTCAAAATGTTTTAAA
ACTATAT
Found at i:76731 original size:85 final size:83
Alignment explanation
Indices: 76409--76965 Score: 572
Period size: 85 Copynumber: 6.7 Consensus size: 83
76399 AGTGTAATCT
* *
76409 AACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCC
*
76474 TTGGAGCTGAGCGCAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * * * * **
76493 AACTCGAAGGTATTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTATTC
1 AACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGT-GCC
*** * *
76558 TCAAAGCTGAGTGTAATCG
65 TTGGAGCTGAGCGTAGTCG
* ** * * *
76577 AACTCGAGGGTCTTTGGT---AGATTGCCCTTTTCGACTTGAGTTTATGCTGCAAATGATGTGCA
1 AACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAG-TTATGCTGCAAATGATGTGCC
76639 TTGGAGCTGAGCGTAGTCG
65 TTGGAGCTGAGCGTAGTCG
* * * *
76658 AACTCGAAAGTCTTTGGATGGCAGATAACCCTTCTCGATTTAAGCTATGCTACAAAATGATGTGC
1 AACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGTTATGCTGC-AAATGATGTG-
*
76723 CCTT-GAGCTGAGCATAGTCG
63 CCTTGGAGCTGAGCGTAGTCG
* * * *
76743 AACTTGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTTAAGTTATGCTACAAATGATGTGCC
1 AACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTG-C
*** * *
76808 CTCAAAGCTGAGTGTAATCG
64 CTTGGAGCTGAGCGTAGTCG
* * *
76828 AACTCGAGGGTC-TT--TGGCAGATAGCCTTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCT
1 AACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCT
76890 TGGAGCTGAGCGTAGTCG
66 TGGAGCTGAGCGTAGTCG
** * * *
76908 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTC-CAGCCTTGAGTTATGCTGTAAATG
1 AACTCGAAGGTC-TTTGGTGGCAGATAACCCTTCTC-GACTTAAGTTATGCTGCAAATG
76966 TTGTCTTTAA
Statistics
Matches: 385, Mismatches: 73, Indels: 30
0.79 0.15 0.06
Matches are distributed among these distances:
80 27 0.07
81 87 0.23
82 20 0.05
83 41 0.11
84 97 0.25
85 106 0.28
86 7 0.02
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
AACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCT
TGGAGCTGAGCGTAGTCG
Found at i:76912 original size:250 final size:248
Alignment explanation
Indices: 76409--76941 Score: 757
Period size: 250 Copynumber: 2.1 Consensus size: 248
76399 AGTGTAATCT
* *
76409 AACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCC
1 AACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCC
* * * *
76474 TTGGAGCTGAGCGCAGTCGAACTCGAAGGTATTTGGTGACAGATAACCCTTCTAGCCTTGAGTTA
65 TTGGAGCTGAGCACAGTCGAACTCGAAGGTATTTGGTGACAGATAACCCTTATAGACTTAAGTTA
** ** * *
76539 TGCTGTAAATGATGTATTCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGTAGATTGCCC
130 TGCTACAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCC
*
76604 TTTTCGACTTGAGTTTATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCG
195 TTTTCGACTTAAGTTTATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCG
* *
76658 AACTCGAAAGTCTTTGGATGGCAGATAACCCTTCTCGATTTAAGCTATGCTACAAAATGATGTGC
1 AACTCGAAGGTCTTTGG-TGGCAGATAACCCTTCTCGACTTAAGCTATGCTAC-AAATGATGTG-
* * * * * *
76723 CCTT-GAGCTGAGCATAGTCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTTAAG
63 CCTTGGAGCTGAGCACAGTCGAACTCGAAGGT-ATTTGGTGACAGATAACCCTTATAGACTTAAG
*
76787 TTATGCTACAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAG
127 TTATGCTACAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAG
*
76852 -CCTTTCTCGACTTAAG-TTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCG
192 CCCTTT-TCGACTTAAGTTTATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCG
**
76908 AACTCGAAGGTCTTTTGGTCACAGATAACCCTTC
1 AACTCGAAGGTC-TTTGGTGGCAGATAACCCTTC
76942 CAGCCTTGAG
Statistics
Matches: 252, Mismatches: 27, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
249 48 0.19
250 103 0.41
251 101 0.40
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (248 bp):
AACTCGAAGGTCTTTGGTGGCAGATAACCCTTCTCGACTTAAGCTATGCTACAAATGATGTGCCT
TGGAGCTGAGCACAGTCGAACTCGAAGGTATTTGGTGACAGATAACCCTTATAGACTTAAGTTAT
GCTACAAATGATGTACCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGCCCT
TTTCGACTTAAGTTTATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCG
Found at i:76919 original size:165 final size:163
Alignment explanation
Indices: 76386--76940 Score: 542
Period size: 165 Copynumber: 3.3 Consensus size: 163
76376 AGATTTGGTT
* * * * ** *
76386 TGCCTCTGAGATGAGTGTAATCTAACTCGAAGGTCTTCGGTTGGCAGATAACCCTTCTCGACTTA
1 TGCCT-TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTTA
* * *
76451 AGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGCAGTCGAACTCGAAGGTATTTGGTGACAG
65 AGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-G-G-CAG
* * * *
76516 ATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG
127 ATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
** ** * * * * ** *
76553 TATTCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC---T-TTGGTAGATTGCCCTTTTCGACTT
1 T-GCCT-TGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTT
* * *
76614 GAGTTTATGCTGCAAATGATGTGCATTGGAGCTGAGCGTAGTCGAACTCGAAAGTCTTTGGATGG
64 AAG-TTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TT---TGG
* * *
76679 CAGATAACCCTTCTCGATTTAAGCTATGCTACAAAATGATG
124 CAGATAACCCTTCTCGACTTAAGTTATGCTGC-AAATGATG
* *
76720 TGCCCTTGAGCTGAGCATAGTCGAACTTGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTTA
1 TG-CCTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTTA
* *** * * *
76785 AGTTATGCTACAAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGAT
65 AGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGAT
* *
76850 AGCCTTTCTCGACTTAAGTTATGCTGCAAATGATG
129 AACCCTTCTCGACTTAAGTTATGCTGCAAATGATG
* **
76885 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTCACAGATAACCCTT
1 TGCCTT-GAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTT
76941 CCAGCCTTGA
Statistics
Matches: 316, Mismatches: 58, Indels: 30
0.78 0.14 0.07
Matches are distributed among these distances:
164 26 0.08
165 101 0.32
166 79 0.25
167 13 0.04
168 28 0.09
169 22 0.07
170 47 0.15
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (163 bp):
TGCCTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAGATAACCCTTATCGACTTAA
GTTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGCAGATAA
CCCTTCTCGACTTAAGTTATGCTGCAAATGATG
Found at i:81647 original size:6 final size:6
Alignment explanation
Indices: 81638--81664 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
81628 CGAAAATTAA
81638 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
81665 AACCAGATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:81824 original size:20 final size:19
Alignment explanation
Indices: 81799--81854 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
81789 GGGGAAAATT
81799 AAATAAATAAAAAGTTAAA-A
1 AAATAAATAAAAAG--AAAGA
81819 AAAT-AATAATAAAGAAAGA
1 AAATAAATAA-AAAGAAAGA
*
81838 AAAAAAATAAAAAGAAA
1 AAATAAATAAAAAGAAA
81855 CAGAAACAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
18 3 0.09
19 16 0.50
20 13 0.41
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (19 bp):
AAATAAATAAAAAGAAAGA
Found at i:83210 original size:6 final size:6
Alignment explanation
Indices: 83181--83252 Score: 67
Period size: 6 Copynumber: 11.8 Consensus size: 6
83171 TGGAGAGAGA
* *
83181 AAAAAT AAATAA- ATAAAT -AAAAT AAAAAT AAAAAAT GAATAAT AAAAAT
1 AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT -AAAAAT -AAAAAT AAAAAT
* *
83230 AAAAAT AAAAAC AAAAAC AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAA
83253 CAAATATATA
Statistics
Matches: 56, Mismatches: 6, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
5 6 0.11
6 37 0.66
7 13 0.23
ACGTcount: A:0.81, C:0.03, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:83222 original size:26 final size:26
Alignment explanation
Indices: 83187--83240 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
83177 GAGAAAAAAT
83187 AAATAAATAA-ATAAAATAAAAATAAA
1 AAATAAATAATA-AAAATAAAAATAAA
*
83213 AAATGAATAATAAAAATAAAAATAAA
1 AAATAAATAATAAAAATAAAAATAAA
83239 AA
1 AA
83241 CAAAAACAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 25 0.96
27 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.19
Consensus pattern (26 bp):
AAATAAATAATAAAAATAAAAATAAA
Found at i:83226 original size:20 final size:18
Alignment explanation
Indices: 83187--83239 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 18
83177 GAGAAAAAAT
83187 AAATAAATAAATAAAATAA
1 AAATAAA-AAATAAAATAA
83206 AAATAAAAAATGAATAATAA
1 AAATAAAAAAT-AA-AATAA
83226 AAAT-AAAAATAAAA
1 AAATAAAAAATAAAA
83240 ACAAAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.06
18 6 0.19
19 15 0.47
20 9 0.28
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAATAAAAAATAAAATAA
Found at i:83358 original size:13 final size:12
Alignment explanation
Indices: 83330--83370 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
83320 ATACATATTA
83330 AAAAATGTTTTC
1 AAAAATGTTTTC
83342 AAAAATGTTTTC
1 AAAAATGTTTTC
*
83354 TAAAAATATTTT-
1 -AAAAATGTTTTC
83366 AAAAA
1 AAAAA
83371 ACTATATAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 5 0.19
12 12 0.44
13 10 0.37
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.39
Consensus pattern (12 bp):
AAAAATGTTTTC
Found at i:83481 original size:37 final size:35
Alignment explanation
Indices: 83373--83490 Score: 146
Period size: 37 Copynumber: 3.2 Consensus size: 35
83363 TTTAAAAAAC
*
83373 TATATAAGTTTTGAAAATGATTTTAAAAACTATATATT
1 TATAT-AGTTTTAAAAATG-TTTTAAAAACTATATA-T
**
83411 ATATATATGTTTTTTAAATGTTTTAAAAACTATATAT
1 -TATATA-GTTTTAAAAATGTTTTAAAAACTATATAT
83448 TATATAGTTTTCAAAAATGTTTTTAAAAACTATATAT
1 TATATAGTTTT-AAAAATG-TTTTAAAAACTATATAT
83485 TATATA
1 TATATA
83491 TATTGTTGAG
Statistics
Matches: 72, Mismatches: 4, Indels: 8
0.86 0.05 0.10
Matches are distributed among these distances:
35 5 0.07
36 11 0.15
37 24 0.33
38 17 0.24
39 15 0.21
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.47
Consensus pattern (35 bp):
TATATAGTTTTAAAAATGTTTTAAAAACTATATAT
Found at i:84942 original size:15 final size:15
Alignment explanation
Indices: 84916--84963 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
84906 TTCAAACATC
*
84916 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
84932 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
84949 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
84964 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:86947 original size:21 final size:21
Alignment explanation
Indices: 86921--86960 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
86911 CAGAACCCCA
*
86921 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
86942 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
86961 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:90839 original size:22 final size:21
Alignment explanation
Indices: 90797--90836 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
90787 TGAGTTTATT
*
90797 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
90818 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
90837 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:93271 original size:2 final size:2
Alignment explanation
Indices: 93260--93302 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
93250 ATTTGCAAAC
*
93260 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TG 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
93301 TA
1 TA
93303 AAAAATGTGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:94215 original size:31 final size:31
Alignment explanation
Indices: 94158--94234 Score: 111
Period size: 31 Copynumber: 2.5 Consensus size: 31
94148 CTCAAAAGCC
* *
94158 TAACAAA-TGGTCACTAATATTATCGATTTG
1 TAACAAATTAGTCACTAATATTATCGATTTA
* *
94188 TAACAAATTAGTCATTAATGTTATCGATTTA
1 TAACAAATTAGTCACTAATATTATCGATTTA
94219 TAACAAATTAGTCACT
1 TAACAAATTAGTCACT
94235 CGTCGTTCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
30 7 0.17
31 34 0.83
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (31 bp):
TAACAAATTAGTCACTAATATTATCGATTTA
Found at i:95144 original size:31 final size:31
Alignment explanation
Indices: 95101--95159 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
95091 ACGGCGAGCA
*
95101 ACTAATTTGTTACAAATCGATACCATTATCG
1 ACTAATTTGTTACAAATCGATAACATTATCG
*
95132 ACTATTTTGTTACAAATCGATAACATTA
1 ACTAATTTGTTACAAATCGATAACATTA
95160 GTGACCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.37
Consensus pattern (31 bp):
ACTAATTTGTTACAAATCGATAACATTATCG
Found at i:95173 original size:30 final size:30
Alignment explanation
Indices: 95105--95173 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 30
95095 CGAGCAACTA
* *
95105 ATTTGTTACAAATCGATACCATTATCGACT
1 ATTTGTTACAAATCGATAACATTATCGACC
95135 ATTTTGTTACAAATCGATAACATTAGT-GACC
1 A-TTTGTTACAAATCGATAACATTA-TCGACC
95166 ATTTGTTA
1 ATTTGTTA
95174 GGCTTTTGGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
30 8 0.23
31 26 0.74
32 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (30 bp):
ATTTGTTACAAATCGATAACATTATCGACC
Found at i:100682 original size:59 final size:59
Alignment explanation
Indices: 100604--100776 Score: 177
Period size: 59 Copynumber: 2.9 Consensus size: 59
100594 AACTATGACC
* * * * * *
100604 CTCATTTTAAATTACTCCTTAAATTTTTAAAAATTACAATTTCATCCTCAAATTGTGATT
1 CTCATTATAAATTAGTCCTTAAACTTTTAAAAATT-CAATTTCATCCACAAATTATGAGT
* * * * *
100664 TTCATTAT-AATTAGTCCTTAAACTTTTGAACATTCTAATTTCATCCCCAAACTATGAGT
1 CTCATTATAAATTAGTCCTTAAACTTTTAAAAATTC-AATTTCATCCACAAATTATGAGT
* * **
100723 CTCATTTTAAATTAGTCCTTAAACTTTTAGATCTTCCAATTTCATCCACAAATT
1 CTCATTATAAATTAGTCCTTAAACTTTTAAAAATT-CAATTTCATCCACAAATT
100777 CATCCAAATA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
58 1 0.01
59 47 0.51
60 43 0.47
61 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.43
Consensus pattern (59 bp):
CTCATTATAAATTAGTCCTTAAACTTTTAAAAATTCAATTTCATCCACAAATTATGAGT
Found at i:100746 original size:60 final size:59
Alignment explanation
Indices: 100588--100774 Score: 198
Period size: 60 Copynumber: 3.1 Consensus size: 59
100578 TTGCATTGTG
* * * * *
100588 TCCCCAAACTATGACCCTCATTTTAAATTACTCCTTAAATTTTTAAAAATTACAATTTCA
1 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAACATT-CAATTTCA
* * * * * *
100648 TCCTCAAATTGTGATTTTCATTAT-AATTAGTCCTTAAACTTTTGAACATTCTAATTTCA
1 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAACATTC-AATTTCA
* *
100707 TCCCCAAACTATGAGTCTCATTTTAAATTAGTCCTTAAACTTTTAGATC-TTCCAATTTCA
1 TCCCCAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTT-GAACATT-CAATTTCA
*
100767 TCCACAAA
1 TCCCCAAA
100775 TTCATCCAAA
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
58 1 0.01
59 47 0.45
60 52 0.50
61 4 0.04
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (59 bp):
TCCCCAAACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAACATTCAATTTCA
Found at i:101000 original size:60 final size:61
Alignment explanation
Indices: 100902--101045 Score: 170
Period size: 60 Copynumber: 2.4 Consensus size: 61
100892 GCATAAATTT
* *
100902 GGATAAAATTAAAATATTCAAAAAGTTTGGGGATTAATTTAGAATGA-AGATCATAGTTTGG
1 GGATAAAATTAAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATAG-TCATAGTTTGG
* * *
100963 GGATGAAAA-TAAAATGTTC-AAAAGTTTGATGACTAATTTAGAATGATAGTCATAGTTTAAG
1 GGAT-AAAATTAAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATAGTCATAGTTT-GG
* *
101024 GG-TAAAATTGAAATATTTAAAA
1 GGATAAAATTAAAATATTCAAAA
101046 TTGCAATGAA
Statistics
Matches: 70, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
59 4 0.06
60 41 0.59
61 21 0.30
62 4 0.06
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (61 bp):
GGATAAAATTAAAATATTCAAAAAGTTTGAGGACTAATTTAGAATGATAGTCATAGTTTGG
Found at i:102148 original size:3 final size:3
Alignment explanation
Indices: 102140--102181 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
102130 TGCTAAATTC
102140 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
102182 TTGATTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:106956 original size:6 final size:6
Alignment explanation
Indices: 106945--106980 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
106935 TTTCAACTAC
* *
106945 GATGAA GATGAA GAAGAA GATGAA GATAAA GATGAA
1 GATGAA GATGAA GATGAA GATGAA GATGAA GATGAA
106981 TAGGTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.31, T:0.14
Consensus pattern (6 bp):
GATGAA
Found at i:107561 original size:40 final size:39
Alignment explanation
Indices: 107516--107636 Score: 99
Period size: 39 Copynumber: 3.2 Consensus size: 39
107506 GTTATATACC
*
107516 TTATTTGATTTGTTTAATAAAAAAATAAAATTATAGTGTT
1 TTATTTGATTT-TTTAATAAAAAAATAAAGTTATAGTGTT
* *** * *
107556 TTATTT-ATATTTTAATAGTGCAAAT---GTTATA-TATC
1 TTATTTGATTTTTTAATA-AAAAAATAAAGTTATAGTGTT
*
107591 TTATTTGATTTATTTAATAAAAACATAAAGTTATAGTGTT
1 TTATTTGATTT-TTTAATAAAAAAATAAAGTTATAGTGTT
*
107631 TGATTT
1 TTATTT
107637 ATATTTTGAA
Statistics
Matches: 59, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
35 8 0.14
36 11 0.19
37 7 0.12
38 7 0.12
39 13 0.22
40 13 0.22
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (39 bp):
TTATTTGATTTTTTAATAAAAAAATAAAGTTATAGTGTT
Found at i:107585 original size:75 final size:75
Alignment explanation
Indices: 107494--107643 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 75
107484 TACGAGATAC
* *
107494 AATAGTGCAAATGTTATATACCTTATTTGATTTGTTTAATAAAAAAATAAAATTATAGTGTTTTA
1 AATAGTGCAAATGTTATATACCTTATTTGATTTATTTAATAAAAAAATAAAATTATAGTGTTTGA
107559 TTTATATTTT
66 TTTATATTTT
* * *
107569 AATAGTGCAAATGTTATATATCTTATTTGATTTATTTAATAAAAACATAAAGTTATAGTGTTTGA
1 AATAGTGCAAATGTTATATACCTTATTTGATTTATTTAATAAAAAAATAAAATTATAGTGTTTGA
107634 TTTATATTTT
66 TTTATATTTT
107644 GAATTTCTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 70 1.00
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (75 bp):
AATAGTGCAAATGTTATATACCTTATTTGATTTATTTAATAAAAAAATAAAATTATAGTGTTTGA
TTTATATTTT
Found at i:110377 original size:21 final size:21
Alignment explanation
Indices: 110326--110378 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
110316 ATTATGACTA
110326 TCGCAATGCGATTTTACAATT
1 TCGCAATGCGATTTTACAATT
** *
110347 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-ACAATT
110368 TCGCAATGCGA
1 TCGCAATGCGA
110379 ATAAGTAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 23 0.88
22 3 0.12
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTACAATT
Found at i:110393 original size:20 final size:21
Alignment explanation
Indices: 110368--110419 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
110358 TTTTCCCAAT
*
110368 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
**
110388 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTAAGAAAA
110409 TCGCAATGCGA
1 TCGCAATGCGA
110420 TACTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 12 0.43
21 16 0.57
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:110433 original size:20 final size:20
Alignment explanation
Indices: 110408--110497 Score: 101
Period size: 20 Copynumber: 4.5 Consensus size: 20
110398 AATTTGGAAA
*
110408 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
110428 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
110449 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
110469 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
110489 TTCGCAACG
1 ATCGCAACG
110498 AAATTCTGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
19 2 0.03
20 41 0.68
21 15 0.25
22 2 0.03
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:110503 original size:20 final size:20
Alignment explanation
Indices: 110463--110506 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
110453 CAACGCGATA
**
110463 CTGACTTTCGCAACGCGATT
1 CTGACTTTCGCAACGAAATT
110483 CTGACTTTCGCAACGAAATT
1 CTGACTTTCGCAACGAAATT
110503 CTGA
1 CTGA
110507 AAATCGCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.30
Consensus pattern (20 bp):
CTGACTTTCGCAACGAAATT
Found at i:112410 original size:41 final size:42
Alignment explanation
Indices: 112365--112443 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
112355 CGATGACAGT
112365 GGCCTCTTGAACG-GTGGAGGGGACTCTTGAGGAATGATAGG
1 GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGAATGATAGG
* *
112406 GGCCTCTTGAACGATTGGAGGGGACTCTTGAGGGATGA
1 GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGAATGA
112444 CAGGTGAGTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.23
Consensus pattern (42 bp):
GGCCTCTTGAACGAGTGGAGGGGACTCTTGAGGAATGATAGG
Found at i:112427 original size:21 final size:20
Alignment explanation
Indices: 112339--112436 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
112329 TGGAATGGTG
* *
112339 GGAGGGACCTCTTCAACGAT
1 GGAGGGGCCTCTTGAACGAT
* * *
112359 GACAGTGGCCTCTTGAACGGT
1 G-GAGGGGCCTCTTGAACGAT
* *
112380 GGAGGGGACTCTTG-AGGAAT
1 GGAGGGGCCTCTTGAACG-AT
*
112400 GATAGGGGCCTCTTGAACGATT
1 G-GAGGGGCCTCTTGAACGA-T
*
112422 GGAGGGGACTCTTGA
1 GGAGGGGCCTCTTGA
112437 GGGATGACAG
Statistics
Matches: 58, Mismatches: 15, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
19 2 0.03
20 13 0.22
21 39 0.67
22 4 0.07
ACGTcount: A:0.22, C:0.18, G:0.37, T:0.22
Consensus pattern (20 bp):
GGAGGGGCCTCTTGAACGAT
Found at i:112810 original size:20 final size:20
Alignment explanation
Indices: 112785--112823 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
112775 GAATAATAGT
112785 TTACTTTCGCAACACGAAAC
1 TTACTTTCGCAACACGAAAC
*
112805 TTACTTTCGCAACGCGAAA
1 TTACTTTCGCAACACGAAA
112824 AATGGCTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (20 bp):
TTACTTTCGCAACACGAAAC
Found at i:112853 original size:19 final size:19
Alignment explanation
Indices: 112831--112889 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
112821 AAAAATGGCT
112831 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
112850 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
112864 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
112883 ATCGCAA
1 ATCGCAA
112890 CGACAAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.47, C:0.20, G:0.19, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:112866 original size:14 final size:14
Alignment explanation
Indices: 112847--112903 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
112837 ATGCGAAATG
112847 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
112861 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
112880 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
112894 AAAATAGCAA
1 AAAATCGCAA
112904 AGCGAAATAC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 19 0.54
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.53, C:0.21, G:0.16, T:0.11
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:112873 original size:33 final size:33
Alignment explanation
Indices: 112831--112921 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
112821 AAAAATGGCT
112831 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
112864 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
112897 ATAGCAAAGCGAAAT-ACAAATCGCA
1 ATCGCAATGCGAAATGA-AAATCGCA
112922 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
32 1 0.02
33 54 0.98
ACGTcount: A:0.49, C:0.21, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:112939 original size:19 final size:19
Alignment explanation
Indices: 112917--113066 Score: 105
Period size: 19 Copynumber: 8.6 Consensus size: 19
112907 GAAATACAAA
112917 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
112936 TCGCGTTGCGA-TTT--TG
1 TCGCATTGCGATTTTCATT
112952 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
112969 TCGCATTACGA-TTT--TG
1 TCGCATTGCGATTTTCATT
112985 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
113002 TCGCATTACGA-TTT--TG
1 TCGCATTGCGATTTTCATT
113018 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
***
113035 TCGCATTGCGATAGCCATT
1 TCGCATTGCGATTTTCATT
113054 TCCGCATTGCGAT
1 T-CGCATTGCGAT
113067 AGTCATTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 31
0.69 0.10 0.21
Matches are distributed among these distances:
14 16 0.16
15 9 0.09
16 12 0.12
17 12 0.12
18 9 0.09
19 32 0.32
20 11 0.11
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:112958 original size:14 final size:14
Alignment explanation
Indices: 112939--113030 Score: 58
Period size: 14 Copynumber: 5.9 Consensus size: 14
112929 TTTCATTTCG
112939 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
112953 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
112970 CGCATTACGATTTTGT
1 CG--TTGCGATTTTGT
*
112986 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
*
113003 CGCATTACGATTTTGT
1 CG--TTGCGATTTTGT
113019 CGTTGCGATTTT
1 CGTTGCGATTTT
113031 CATTTCGCAT
Statistics
Matches: 60, Mismatches: 8, Indels: 20
0.68 0.09 0.23
Matches are distributed among these distances:
14 22 0.37
15 6 0.10
16 8 0.13
17 8 0.13
18 6 0.10
19 10 0.17
ACGTcount: A:0.13, C:0.17, G:0.21, T:0.49
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:112964 original size:33 final size:33
Alignment explanation
Indices: 112922--113046 Score: 223
Period size: 33 Copynumber: 3.8 Consensus size: 33
112912 ACAAATCGCA
* *
112922 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
112955 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
112988 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTACGATTTTGTCG
*
113021 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTACGAT
113047 AGCCATTTCC
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 89 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTACGATTTTGTCG
Found at i:113085 original size:20 final size:20
Alignment explanation
Indices: 113031--113074 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
113021 TTGCGATTTT
113031 CATTT-CGCATTGCGATAGC
1 CATTTCCGCATTGCGATAGC
*
113050 CATTTCCGCATTGCGATAGT
1 CATTTCCGCATTGCGATAGC
113070 CATTT
1 CATTT
113075 TCGTGTTGCG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (20 bp):
CATTTCCGCATTGCGATAGC
Found at i:113649 original size:18 final size:18
Alignment explanation
Indices: 113626--113673 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
113616 CGGGTCGATC
113626 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
113644 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
113662 AGGTGATGGCTC
1 AGGTGATGGCTC
113674 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:115041 original size:20 final size:20
Alignment explanation
Indices: 114993--115051 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
114983 AATAGTTTCT
* *
114993 GAAAATGAAAATCGCAACAC
1 GAAAATGACAATCGCAACGC
115013 GAAAATGACAATCGCAACGC
1 GAAAATGACAATCGCAACGC
** *
115033 GAATTTGACTATCGCAACG
1 GAAAATGACAATCGCAACG
115052 AGAGAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.22, G:0.19, T:0.15
Consensus pattern (20 bp):
GAAAATGACAATCGCAACGC
Found at i:115341 original size:22 final size:22
Alignment explanation
Indices: 115314--115379 Score: 123
Period size: 22 Copynumber: 3.0 Consensus size: 22
115304 GATGGAGATA
115314 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
115336 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
115358 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
115380 TGAGAGAGTG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.18, C:0.17, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:115591 original size:20 final size:20
Alignment explanation
Indices: 115566--115609 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
115556 GATTATGTAT
115566 TATCTCGTTGCGAAAGTCAG
1 TATCTCGTTGCGAAAGTCAG
115586 TATCTCGTTGCGAAAGTCAG
1 TATCTCGTTGCGAAAGTCAG
115606 TATC
1 TATC
115610 GCTTTTGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (20 bp):
TATCTCGTTGCGAAAGTCAG
Found at i:115671 original size:21 final size:21
Alignment explanation
Indices: 115642--115714 Score: 103
Period size: 21 Copynumber: 3.5 Consensus size: 21
115632 ATAGTTAGTA
*
115642 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
115663 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* **
115684 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCAAAT
115704 TCGCATTGCGA
1 TCGCATTGCGA
115715 ATTGGGAAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
20 17 0.35
21 31 0.65
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:115927 original size:68 final size:68
Alignment explanation
Indices: 115798--115935 Score: 204
Period size: 68 Copynumber: 2.0 Consensus size: 68
115788 GATTTGCGAT
* * * ** *
115798 AATGGAGATCGCGTTGCGAATTAGCGATCGCATTGCGATTTTGTTGGTCATTTTGGCAAATCCGG
1 AATGGAGATCGCGTTACGAATTAGCGATCGAATTGCAATTTTGTTGGTCATTTTAACAAATCCGA
115863 AAA
66 AAA
* *
115866 AATGGAGATCGCGTTACGAATTAGCGATTGAATTGCAATTTTGTTGGTCATTTTAATAAATCCGA
1 AATGGAGATCGCGTTACGAATTAGCGATCGAATTGCAATTTTGTTGGTCATTTTAACAAATCCGA
115931 AAA
66 AAA
115934 AA
1 AA
115936 ATTAATTAAA
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
68 62 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (68 bp):
AATGGAGATCGCGTTACGAATTAGCGATCGAATTGCAATTTTGTTGGTCATTTTAACAAATCCGA
AAA
Found at i:117544 original size:2 final size:2
Alignment explanation
Indices: 117537--117598 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
117527 CCATACATAC
117537 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
117579 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
117599 TGTCAACTTG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121847 original size:18 final size:18
Alignment explanation
Indices: 121824--121863 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
121814 TTTCTAGAAA
121824 TTTAAA-ATTTATTTGTAT
1 TTTAAATATTT-TTTGTAT
121842 TTTAAATATTTTTTGTAT
1 TTTAAATATTTTTTGTAT
121860 TTTA
1 TTTA
121864 TATGAATTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.81
19 4 0.19
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TTTAAATATTTTTTGTAT
Found at i:129727 original size:29 final size:30
Alignment explanation
Indices: 129666--129738 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 30
129656 GATCCCTAAT
129666 TTTTTTTGGAATTTT-TAGGAATTTAGGAG
1 TTTTTTTGGAATTTTATAGGAATTTAGGAG
*
129695 -TTTTTTGAAATTTTAT-GGAATTTAAGG-G
1 TTTTTTTGGAATTTTATAGGAATTT-AGGAG
129723 TTTTTTTGGAATTTTA
1 TTTTTTTGGAATTTTA
129739 ATAATTTCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
28 21 0.54
29 18 0.46
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.55
Consensus pattern (30 bp):
TTTTTTTGGAATTTTATAGGAATTTAGGAG
Found at i:131979 original size:31 final size:32
Alignment explanation
Indices: 131926--131999 Score: 89
Period size: 31 Copynumber: 2.3 Consensus size: 32
131916 TAAACCCGAC
* *
131926 CCCGACCCGAACCCAA-TTTTTTTATAAAAAAA
1 CCCGACCCGAACCCAACATTTTTT-GAAAAAAA
*
131958 CCCGACCC-ATCCCAACATTTTTTGAAAAAAA
1 CCCGACCCGAACCCAACATTTTTTGAAAAAAA
*
131989 CCCAACCCGAA
1 CCCGACCCGAA
132000 TATCACACTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
31 20 0.57
32 15 0.43
ACGTcount: A:0.39, C:0.34, G:0.07, T:0.20
Consensus pattern (32 bp):
CCCGACCCGAACCCAACATTTTTTGAAAAAAA
Found at i:132032 original size:33 final size:33
Alignment explanation
Indices: 131988--132059 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
131978 TTTGAAAAAA
* * *
131988 ACCCAACCCGAATATCACACTTGCAAAAACTCG
1 ACCCAACCCGAATATCAAACTTGAAAAAACCCG
* *
132021 ACCCGACCCGAATATCAAACTTTAAAAAACCCG
1 ACCCAACCCGAATATCAAACTTGAAAAAACCCG
132054 ACCCAA
1 ACCCAA
132060 ACCCAAATTA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.42, C:0.36, G:0.08, T:0.14
Consensus pattern (33 bp):
ACCCAACCCGAATATCAAACTTGAAAAAACCCG
Found at i:133515 original size:42 final size:42
Alignment explanation
Indices: 133456--133567 Score: 145
Period size: 42 Copynumber: 2.7 Consensus size: 42
133446 AATTTACGTG
* **
133456 TTTGTTTCACGTAATTCGTTTTTC-AGAAAATATTTTTTCGTA
1 TTTGTTTCACATAATTCGTTTTTCGA-AAAATATTTTCCCGTA
* *
133498 TTTGTTTCACTTAATTCGTTTTTCGAAAAATATTTTCCCGTG
1 TTTGTTTCACATAATTCGTTTTTCGAAAAATATTTTCCCGTA
**
133540 TTTGTTTCACATAATTAATTTTTCGAAA
1 TTTGTTTCACATAATTCGTTTTTCGAAA
133568 TGTAATTCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.25, C:0.13, G:0.11, T:0.51
Consensus pattern (42 bp):
TTTGTTTCACATAATTCGTTTTTCGAAAAATATTTTCCCGTA
Found at i:133769 original size:14 final size:14
Alignment explanation
Indices: 133750--133795 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
133740 AAATATTATT
133750 TATTTATTTATTAA
1 TATTTATTTATTAA
*
133764 TATTTA-TAATATAA
1 TATTTATTTAT-TAA
133778 TATTATATTT-TTAA
1 TATT-TATTTATTAA
133792 TATT
1 TATT
133796 ATATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
13 3 0.11
14 20 0.74
15 3 0.11
16 1 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TATTTATTTATTAA
Found at i:133787 original size:19 final size:20
Alignment explanation
Indices: 133758--133799 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
133748 TTTATTTATT
133758 TATTAATATTTATAATATAA
1 TATTAATATTTATAATATAA
* *
133778 TATT-ATATTTTTAATATTA
1 TATTAATATTTATAATATAA
133797 TAT
1 TAT
133800 AAAATAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTAATATTTATAATATAA
Found at i:133787 original size:29 final size:30
Alignment explanation
Indices: 133750--133828 Score: 87
Period size: 29 Copynumber: 2.7 Consensus size: 30
133740 AAATATTATT
*
133750 TATT-TATTTATTAATATT-TATAATATAA
1 TATTATATTTATTAATATTATATAAAATAA
133778 TATTATATTT-TTAATATTATATAAAATAA
1 TATTATATTTATTAATATTATATAAAATAA
*
133807 TCAATTAT-TTTA-TAATAATATA
1 T--ATTATATTTATTAATATTATA
133829 AGATATTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 12 0.27
29 15 0.34
30 12 0.27
31 5 0.11
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (30 bp):
TATTATATTTATTAATATTATATAAAATAA
Found at i:133882 original size:30 final size:28
Alignment explanation
Indices: 133741--133915 Score: 113
Period size: 30 Copynumber: 5.9 Consensus size: 28
133731 TTTTCATCAA
* *
133741 AATATTATTTATTTATTTATTAATATTTAT
1 AATATTATTTATATATTTAATAATA--TAT
* * *
133771 AATATAATATTATATTTTTAATATTATAT
1 AATATTAT-TTATATATTTAATAATATAT
* * ** *
133800 AAAATAATCAAT-TATTTTATAATAATAT
1 AATATTATTTATATATTTAATAAT-ATAT
*
133828 AAGATATTATAATTTTAT-TTTAATAATATAT
1 -A-ATATTAT--TTATATATTTAATAATATAT
*
133859 AATAATTTTTTTATATATTTAATAATGA-AT
1 AAT-A-TTATTTATATATTTAATAAT-ATAT
133889 AATATTATTTATATATTTAAATAATAT
1 AATATTATTTATATATTT-AATAATAT
133916 TTTAATAAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 27
0.70 0.13 0.17
Matches are distributed among these distances:
27 8 0.07
28 20 0.18
29 25 0.22
30 28 0.25
31 21 0.19
32 9 0.08
33 1 0.01
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (28 bp):
AATATTATTTATATATTTAATAATATAT
Found at i:133908 original size:28 final size:26
Alignment explanation
Indices: 133851--133914 Score: 83
Period size: 28 Copynumber: 2.3 Consensus size: 26
133841 TTTATTTTAA
*
133851 TAATATATAATAATTTTTTTATATATT
1 TAATA-ATAATAATTTATTTATATATT
133878 TAATAATGAATAATATTATTTATATATT
1 TAATAAT-AATAAT-TTATTTATATATT
133906 TAAATAATA
1 T-AATAATA
133915 TTTTAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
26 2 0.06
27 11 0.33
28 14 0.42
29 6 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATAATAATAATTTATTTATATATT
Found at i:133926 original size:12 final size:11
Alignment explanation
Indices: 133843--133953 Score: 51
Period size: 11 Copynumber: 10.5 Consensus size: 11
133833 ATTATAATTT
133843 TATTTTAATAA
1 TATTTTAATAA
*
133854 TA-TATAATAA
1 TATTTTAATAA
* *
133864 TTTTTTTAT-A
1 TATTTTAATAA
133874 TA-TTTAAT-A
1 TATTTTAATAA
*
133883 -A--TGAATAA
1 TATTTTAATAA
*
133891 TATTATTTAT-A
1 TATT-TTAATAA
*
133902 TATTTAAATAA
1 TATTTTAATAA
133913 TATTTTAATAAA
1 TATTTTAAT-AA
133925 TATATTTAA-AA
1 TAT-TTTAATAA
**
133936 TATACTAATTAA
1 TATTTTAA-TAA
133948 TATTTT
1 TATTTT
133954 TAAAATATAA
Statistics
Matches: 73, Mismatches: 16, Indels: 21
0.66 0.15 0.19
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 7 0.10
10 16 0.22
11 25 0.34
12 14 0.19
13 5 0.07
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
TATTTTAATAA
Found at i:133937 original size:15 final size:14
Alignment explanation
Indices: 133899--133934 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
133889 AATATTATTT
133899 ATATATTTAAAT-A
1 ATATATTTAAATAA
133912 ATAT-TTT-AATAA
1 ATATATTTAAATAA
133924 ATATATTTAAA
1 ATATATTTAAA
133935 ATATACTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 7 0.35
14 2 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATATTTAAATAA
Found at i:133937 original size:23 final size:23
Alignment explanation
Indices: 133899--133962 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
133889 AATATTATTT
**
133899 ATATATTTAAATAATATTTTAATAA
1 ATATATTT-AA-AATATACTAATAA
*
133924 ATATATTTAAAATATACTAATTA
1 ATATATTTAAAATATACTAATAA
*
133947 ATATTTTTAAAATATA
1 ATATATTTAAAATATA
133963 ATATAACACT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
23 25 0.71
24 2 0.06
25 8 0.23
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATATATTTAAAATATACTAATAA
Found at i:134068 original size:29 final size:32
Alignment explanation
Indices: 134002--134071 Score: 85
Period size: 29 Copynumber: 2.3 Consensus size: 32
133992 AATATAATTT
*
134002 ATAATA-TTTTATTTCACTAAAATATACAAAA
1 ATAATATTTTTATTTCAATAAAATATACAAAA
*
134033 ATTAATATTTTTA-TT-AATAAAAT-TATAAAA
1 A-TAATATTTTTATTTCAATAAAATATACAAAA
134063 ATAATATTT
1 ATAATATTT
134072 AATAATAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 8 0.23
30 7 0.20
31 8 0.23
32 7 0.20
33 5 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (32 bp):
ATAATATTTTTATTTCAATAAAATATACAAAA
Found at i:144895 original size:13 final size:13
Alignment explanation
Indices: 144877--144902 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
144867 ATAAAACCCT
144877 TTTTTATTTTTTA
1 TTTTTATTTTTTA
144890 TTTTTATTTTTTA
1 TTTTTATTTTTTA
144903 CATTTCCTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:147688 original size:33 final size:33
Alignment explanation
Indices: 147651--147715 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
147641 GTTTCACGTC
* *
147651 AGAGGATTGGAA-TTGTGATTTTTCCTTTTTTTT
1 AGAGGATT-GAAGTTGTGATTTCTCATTTTTTTT
147684 AGAGGATTGAAGTTGTGATTTCTCATTTTTTT
1 AGAGGATTGAAGTTGTGATTTCTCATTTTTTT
147716 CCTACCACCC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 26 0.90
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (33 bp):
AGAGGATTGAAGTTGTGATTTCTCATTTTTTTT
Found at i:151070 original size:16 final size:17
Alignment explanation
Indices: 151040--151073 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
151030 TCAAACTCCA
151040 AAACACGATAAATAGAT
1 AAACACGATAAATAGAT
*
151057 AAACA-GATAGATAGAT
1 AAACACGATAAATAGAT
151073 A
1 A
151074 TATATAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.59, C:0.09, G:0.15, T:0.18
Consensus pattern (17 bp):
AAACACGATAAATAGAT
Found at i:152341 original size:26 final size:29
Alignment explanation
Indices: 152312--152364 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
152302 GGCATAAAGG
*
152312 TTTTC-AAAGTT-TT-GGTTTTTTTTAGA
1 TTTTCAAAAGTTCTTCGGCTTTTTTTAGA
152338 TTTTCAAAAGTTCTTCGGCTTTTTTTA
1 TTTTCAAAAGTTCTTCGGCTTTTTTTA
152365 AATAAAATTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.22
27 6 0.26
28 2 0.09
29 10 0.43
ACGTcount: A:0.19, C:0.09, G:0.13, T:0.58
Consensus pattern (29 bp):
TTTTCAAAAGTTCTTCGGCTTTTTTTAGA
Found at i:156519 original size:16 final size:15
Alignment explanation
Indices: 156468--156520 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
156458 TGAAAGTTAC
* *
156468 CCGAACCGAAATTAA
1 CCGAACTGAAATAAA
*
156483 CCTGAACTAGAAATAAC
1 CC-GAACT-GAAATAAA
156500 CCGAACTGAAATCAAA
1 CCGAACTGAAAT-AAA
156516 CCGAA
1 CCGAA
156521 TTTAATTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 7 0.23
16 16 0.52
17 8 0.26
ACGTcount: A:0.47, C:0.26, G:0.13, T:0.13
Consensus pattern (15 bp):
CCGAACTGAAATAAA
Found at i:158929 original size:14 final size:15
Alignment explanation
Indices: 158895--158923 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
158885 TTTAAACTAA
158895 ATTTATTATTTTAAT
1 ATTTATTATTTTAAT
158910 ATTTATT-TTTTAAT
1 ATTTATTATTTTAAT
158924 GATTATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTATTATTTTAAT
Found at i:159136 original size:15 final size:15
Alignment explanation
Indices: 159116--159145 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
159106 AAAATCACTA
159116 ATAAATAAACTTAAT
1 ATAAATAAACTTAAT
*
159131 ATAAATAAATTTAAT
1 ATAAATAAACTTAAT
159146 TCAAAAAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
ATAAATAAACTTAAT
Found at i:160037 original size:36 final size:36
Alignment explanation
Indices: 159989--160070 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
159979 TCGGGGCTCA
*
159989 AGGCGGGACAGATTATATAGTAAAAAAATTTAGGGC
1 AGGCGGGGCAGATTATATAGTAAAAAAATTTAGGGC
*
160025 AGGCGGGGCAGATTATATAGTAAAAAAATTTGGGGC
1 AGGCGGGGCAGATTATATAGTAAAAAAATTTAGGGC
160061 AGGCGGGGCA
1 AGGCGGGGCA
160071 AGACTGTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.37, C:0.10, G:0.34, T:0.20
Consensus pattern (36 bp):
AGGCGGGGCAGATTATATAGTAAAAAAATTTAGGGC
Found at i:160187 original size:24 final size:22
Alignment explanation
Indices: 160161--160205 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
160151 TAATAATTTT
160161 TATT-TTTATATTATT-AAAATA
1 TATTATTTA-ATTATTAAAAATA
160182 TATTATTTAATTATTAAAAATA
1 TATTATTTAATTATTAAAAATA
160204 TA
1 TA
160206 AAATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
TATTATTTAATTATTAAAAATA
Found at i:160279 original size:15 final size:15
Alignment explanation
Indices: 160256--160288 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
160246 ATATTAAATA
*
160256 ATTATAAAATATATT
1 ATTACAAAATATATT
160271 ATTACAAAATATATT
1 ATTACAAAATATATT
160286 ATT
1 ATT
160289 TTAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
ATTACAAAATATATT
Found at i:160292 original size:57 final size:54
Alignment explanation
Indices: 160193--160309 Score: 137
Period size: 57 Copynumber: 2.1 Consensus size: 54
160183 ATTATTTAAT
*
160193 TATTAAAAATATAAAATAAATATTATAAAATACATTAATTTAA-CAGTTTAAATA
1 TATTAAAAATATAAAATAAATATTACAAAATACATTAATTTAATCAGTTTAAA-A
* * * * *
160247 TATTAAATAATTATAAAATATATTATTACAAAATATATTATTTTAATTATTTTAAAA
1 TATTAAA-AA-TATAAAATA-AATATTACAAAATACATTAATTTAATCAGTTTAAAA
160304 TATTAA
1 TATTAA
160310 TATATTTGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
54 7 0.13
55 2 0.04
56 9 0.17
57 28 0.53
58 7 0.13
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (54 bp):
TATTAAAAATATAAAATAAATATTACAAAATACATTAATTTAATCAGTTTAAAA
Found at i:161770 original size:3 final size:3
Alignment explanation
Indices: 161762--161814 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
161752 TTTTATTACT
161762 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
1 GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC GTC
161810 GTC GT
1 GTC GT
161815 GGCAGCAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.32, G:0.34, T:0.34
Consensus pattern (3 bp):
GTC
Found at i:181446 original size:59 final size:58
Alignment explanation
Indices: 181304--181486 Score: 188
Period size: 59 Copynumber: 3.1 Consensus size: 58
181294 CATCATTACT
* *** *
181304 TAAACTATGACCCTCCTTTTAAATTAGTCCCTACTTTTTTTTAATATTCCAATTTTATCCC
1 TAAACTATGACCCTCATTTTAAATTAGT-CCTA-AACTTTTGAATATTCCAA-TTTATCCC
* * * * * *
181365 CAAA-TATGACTCTCATTCTAAATTAATCCTTAAACTTTTGAACATTCTAATTTATCCC
1 TAAACTATGACCCTCATTTTAAATTAGTCC-TAAACTTTTGAATATTCCAATTTATCCC
* *
181423 TAAACTATGACCCTCTTTTTAAATTAGTACCTAAACTTTTGGATATTCCAATTTCATCCC
1 TAAACTATGACCCTCATTTTAAATTAGT-CCTAAACTTTTGAATATTCCAATTT-ATCCC
181483 TAAA
1 TAAA
181487 TCCATCCAAA
Statistics
Matches: 99, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
58 11 0.11
59 53 0.54
60 32 0.32
61 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (58 bp):
TAAACTATGACCCTCATTTTAAATTAGTCCTAAACTTTTGAATATTCCAATTTATCCC
Found at i:187930 original size:21 final size:21
Alignment explanation
Indices: 187904--187978 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
187894 CGATTTCATA
187904 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
187925 TTCGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
187946 TTTGCATTGCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
187967 TTCGCGTTGCGA
1 TTCGCATTGCGA
187979 ATCTGGAAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:188997 original size:25 final size:23
Alignment explanation
Indices: 188958--189020 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
188948 GAAATTAAAT
*
188958 AAAATTAAATTTTAAGTATTATTTAA
1 AAAATTAAA-ATTAAGTATTA--TAA
188984 AAAATTAAAATTAAGTATTATAA
1 AAAATTAAAATTAAGTATTATAA
* *
189007 CAAATAAAAATTAA
1 AAAATTAAAATTAA
189021 TAATTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.44
25 10 0.29
26 9 0.26
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.37
Consensus pattern (23 bp):
AAAATTAAAATTAAGTATTATAA
Found at i:189874 original size:13 final size:13
Alignment explanation
Indices: 189835--189877 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
189825 ATAATTTAAC
189835 TTTCTTTTAATATT
1 TTTCTTTTAAT-TT
* *
189849 TTTATTGTAATTT
1 TTTCTTTTAATTT
*
189862 TTTCTTTTTATTT
1 TTTCTTTTAATTT
189875 TTT
1 TTT
189878 AGTTTAATAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTCTTTTAATTT
Found at i:190035 original size:56 final size:55
Alignment explanation
Indices: 189974--190147 Score: 224
Period size: 56 Copynumber: 3.1 Consensus size: 55
189964 AGGGCTCCCA
* *
189974 AAAAATAGGGGTC-CCAAAATCGAGTATATCTATCATTTGTTGCCATTAATAAGCAT
1 AAAAATAGGGG-CACCAAAATCGAGTATATCTATCAATTGTT-CCATTAAGAAGCAT
* *
190030 AAAAATAGGGGCACCAAACTCGAGTATATCTATCAATTATTTCCATTAAGAAGCAT
1 AAAAATAGGGGCACCAAAATCGAGTATATCTATCAATT-GTTCCATTAAGAAGCAT
* * * * * *
190086 AAAAATAGAGGCTCCGAAATCGAGTATATGTATCAGTTGTTCTATTAAGAAGCAT
1 AAAAATAGGGGCACCAAAATCGAGTATATCTATCAATTGTTCCATTAAGAAGCAT
190141 AAAAATA
1 AAAAATA
190148 TGAGCCACGA
Statistics
Matches: 104, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
55 23 0.22
56 79 0.76
57 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (55 bp):
AAAAATAGGGGCACCAAAATCGAGTATATCTATCAATTGTTCCATTAAGAAGCAT
Found at i:190159 original size:55 final size:54
Alignment explanation
Indices: 189990--190172 Score: 206
Period size: 56 Copynumber: 3.3 Consensus size: 54
189980 AGGGGTCCCA
* * * * *
189990 AAATCGAGTATATCTATCATTTGTTGCCATTAATAAGCATAAAAATAGGGGCACC
1 AAATCGAGTATATCTATCAATTGTT-CCATTAAGAAGCATAAAAATAGAGCCACG
*
190045 AAACTCGAGTATATCTATCAATTATTTCCATTAAGAAGCATAAAAATAGAGGCTC-CG
1 AAA-TCGAGTATATCTATCAATT-GTTCCATTAAGAAGCATAAAAATAGA-GC-CACG
* * *
190102 AAATCGAGTATATGTATCAGTTGTTCTATTAAGAAGCATAAAAATATGAGCCACG
1 AAATCGAGTATATCTATCAATTGTTCCATTAAGAAGCATAAAAATA-GAGCCACG
* *
190157 AAATTGAATATATCTA
1 AAATCGAGTATATCTA
190173 GAAAATATGA
Statistics
Matches: 109, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
54 1 0.01
55 42 0.39
56 58 0.53
57 7 0.06
58 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (54 bp):
AAATCGAGTATATCTATCAATTGTTCCATTAAGAAGCATAAAAATAGAGCCACG
Found at i:193347 original size:15 final size:16
Alignment explanation
Indices: 193327--193356 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
193317 TCTAGTTTTT
193327 CCGAGTA-CCGGTTAC
1 CCGAGTACCCGGTTAC
193342 CCGAGTACCCGGTTA
1 CCGAGTACCCGGTTA
193357 GTTTTATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (16 bp):
CCGAGTACCCGGTTAC
Found at i:193733 original size:152 final size:151
Alignment explanation
Indices: 193457--193760 Score: 558
Period size: 152 Copynumber: 2.0 Consensus size: 151
193447 TTCTATGTCG
193457 GATATTAGAGTATGTAATTCGAAGTTTCAAACATTTAAATTTGTGTATATATTTTTTTAAATTAA
1 GATATTAGAGTATGTAATTCGAAGTTTCAAACATTTAAATTTGTG-ATATATTTTTTTAAATTAA
193522 TAATTTAAAAATAAAAAAATTAAAACTGGGTATCGGGTACCCGATACGGGTACCCGCAAAATCCG
65 TAATTTAAAAATAAAAAAATTAAAACTGGGTATCGGGTACCCGATACGGGTACCCGCAAAATCCG
193587 GATCGAAACACGGGCCGAGAAA
130 GATCGAAACACGGGCCGAGAAA
193609 GATATTAGAGTATGTAATTCGAAGTTTCAAACATTTAAATTTGTG-TATATTTTTTTAAATTAAT
1 GATATTAGAGTATGTAATTCGAAGTTTCAAACATTTAAATTTGTGATATATTTTTTTAAATTAAT
193673 AATTTAAAAAT-AAAAAATTAAAAACTGGGTATCGGGTACCCGATTACCGGGTACCCGCAAAATC
66 AATTTAAAAATAAAAAAATT-AAAACTGGGTATCGGGTACCCGA-TA-CGGGTACCCGCAAAATC
193737 CGGATCGAAACACGGGCCGAGAAA
128 CGGATCGAAACACGGGCCGAGAAA
193761 TCGTCGATCC
Statistics
Matches: 149, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
149 8 0.05
150 53 0.36
151 2 0.01
152 86 0.58
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (151 bp):
GATATTAGAGTATGTAATTCGAAGTTTCAAACATTTAAATTTGTGATATATTTTTTTAAATTAAT
AATTTAAAAATAAAAAAATTAAAACTGGGTATCGGGTACCCGATACGGGTACCCGCAAAATCCGG
ATCGAAACACGGGCCGAGAAA
Found at i:202763 original size:17 final size:17
Alignment explanation
Indices: 202741--202804 Score: 52
Period size: 16 Copynumber: 4.1 Consensus size: 17
202731 CAGGCCGGGT
202741 ATATATATTTAAATTAA
1 ATATATATTTAAATTAA
202758 ATATATA---AATATT--
1 ATATATATTTAA-ATTAA
*
202771 ATATATATATAAA-TAA
1 ATATATATTTAAATTAA
*
202787 ATATAT-TTTAATTTAA
1 ATATATATTTAAATTAA
202803 AT
1 AT
202805 TAAATTTATT
Statistics
Matches: 38, Mismatches: 2, Indels: 15
0.69 0.04 0.27
Matches are distributed among these distances:
13 7 0.18
14 3 0.08
15 8 0.21
16 13 0.34
17 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATTTAAATTAA
Found at i:202851 original size:50 final size:51
Alignment explanation
Indices: 202744--202851 Score: 159
Period size: 50 Copynumber: 2.2 Consensus size: 51
202734 GCCGGGTATA
202744 TATATTTAAATTAAATATATAAATATTATATATATATAAATAAATATATTT
1 TATATTTAAATTAAATATATAAATATTATATATATATAAATAAATATATTT
* * *
202795 TA-ATTTAAATTAAATTTATTAATATTATATATATAT-AATAATTAT-TTT
1 TATATTTAAATTAAATATATAAATATTATATATATATAAATAAATATATTT
202843 TAATATTTA
1 T-ATATTTA
202852 TCGGGCCGGG
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
48 4 0.08
49 9 0.17
50 37 0.71
51 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (51 bp):
TATATTTAAATTAAATATATAAATATTATATATATATAAATAAATATATTT
Found at i:206487 original size:31 final size:31
Alignment explanation
Indices: 206449--206517 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
206439 CTTTTAAAAC
206449 TTGCAATACAG-TCCCCCAACATTTAGTCCGT
1 TTGCAATA-AGATCCCCCAACATTTAGTCCGT
* * * *
206480 TTGCAATATGATCCCTCAATATTTAGTCTGT
1 TTGCAATAAGATCCCCCAACATTTAGTCCGT
206511 TTGCAAT
1 TTGCAAT
206518 GTGGTCCCCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 1 0.03
31 32 0.97
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (31 bp):
TTGCAATAAGATCCCCCAACATTTAGTCCGT
Found at i:209398 original size:33 final size:33
Alignment explanation
Indices: 209361--209451 Score: 164
Period size: 33 Copynumber: 2.8 Consensus size: 33
209351 TATATGGGGT
*
209361 ACGACCTTATGTGACATACTGATTATGGTGGAC
1 ACGACCTTATGTGTCATACTGATTATGGTGGAC
209394 ACGACCTTATGTGTCATACTGATTATGGTGGAC
1 ACGACCTTATGTGTCATACTGATTATGGTGGAC
*
209427 ACGACCTTATGTGTCATACAGATTA
1 ACGACCTTATGTGTCATACTGATTA
209452 GCACTACGGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (33 bp):
ACGACCTTATGTGTCATACTGATTATGGTGGAC
Found at i:209598 original size:44 final size:44
Alignment explanation
Indices: 209530--209667 Score: 242
Period size: 44 Copynumber: 3.1 Consensus size: 44
209520 TGGTATATGG
* *
209530 TTATGGA-ATAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGATA-AATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
209574 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
209618 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
209662 TTATGG
1 TTATGG
209668 TATTAAATAG
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
44 90 0.99
45 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.32
Consensus pattern (44 bp):
TTATGGATAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:209628 original size:25 final size:25
Alignment explanation
Indices: 209556--209628 Score: 61
Period size: 25 Copynumber: 3.2 Consensus size: 25
209546 AGTGTATTGG
209556 TAAAATAAGCTTACGAGCTTATGGA
1 TAAAATAAGCTTACGAGCTTATGGA
* **
209581 T-AAAT--G-GTA--AGTATATTGG-
1 TAAAATAAGCTTACGAGCTTA-TGGA
209600 TAAAATAAGCTTACGAGCTTATGGA
1 TAAAATAAGCTTACGAGCTTATGGA
209625 TAAA
1 TAAA
209629 TGGTAAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 16
0.61 0.11 0.29
Matches are distributed among these distances:
19 5 0.15
20 7 0.21
21 2 0.06
22 2 0.06
23 2 0.06
24 7 0.21
25 9 0.26
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (25 bp):
TAAAATAAGCTTACGAGCTTATGGA
Found at i:209629 original size:24 final size:24
Alignment explanation
Indices: 209558--209629 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
209548 TGTATTGGTA
209558 AAATAAGCTTACGAGCTTATGGAT
1 AAATAAGCTTACGAGCTTATGGAT
*
209582 AAAT--G-GTA--AG-TATATTGG-T
1 AAATAAGCTTACGAGCT-TA-TGGAT
209601 AAAATAAGCTTACGAGCTTATGGAT
1 -AAATAAGCTTACGAGCTTATGGAT
209626 AAAT
1 AAAT
209630 GGTAAGTATA
Statistics
Matches: 36, Mismatches: 2, Indels: 20
0.62 0.03 0.34
Matches are distributed among these distances:
18 1 0.03
19 5 0.14
20 7 0.19
21 2 0.06
22 2 0.06
23 2 0.06
24 11 0.31
25 5 0.14
26 1 0.03
ACGTcount: A:0.40, C:0.08, G:0.21, T:0.31
Consensus pattern (24 bp):
AAATAAGCTTACGAGCTTATGGAT
Found at i:211077 original size:30 final size:31
Alignment explanation
Indices: 211043--211118 Score: 109
Period size: 31 Copynumber: 2.5 Consensus size: 31
211033 GGTTATGTCA
*
211043 GGGACTATA-TGCAAACAGACTAAATGTTGG
1 GGGACTATATTGCAAACAGACTAAATGTTAG
* *
211073 GGGACCATATTACAAACAGACTAAATGTTAG
1 GGGACTATATTGCAAACAGACTAAATGTTAG
*
211104 GGGACTGTATTGCAA
1 GGGACTATATTGCAA
211119 GTTTTAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
30 8 0.21
31 31 0.79
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (31 bp):
GGGACTATATTGCAAACAGACTAAATGTTAG
Found at i:211634 original size:2 final size:2
Alignment explanation
Indices: 211627--211664 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
211617 CCAAAACCCA
* *
211627 TC TC TC TC TC TC TC TC TG TC TC TG TC TC TC T- TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
211665 ATATTATATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.00, C:0.42, G:0.05, T:0.53
Consensus pattern (2 bp):
TC
Found at i:212413 original size:3 final size:3
Alignment explanation
Indices: 212405--212440 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
212395 CTTATAAGAT
212405 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
212441 TCAATCAAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:216992 original size:3 final size:3
Alignment explanation
Indices: 216984--217023 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
216974 ACTATTTTCC
216984 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
217024 CTCTGATTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Done.