Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004756.1 Hibiscus syriacus cultivar Beakdansim tig00010734_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: 139817
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:2485 original size:388 final size:389
Alignment explanation
Indices: 1727--2502 Score: 1261
Period size: 388 Copynumber: 2.0 Consensus size: 389
1717 ATGAAATTTA
* * *
1727 CATCTTTGCATTTATCATCATGTGAAATAAAGACATTTCCCCCCTCTCTTGAGGACAAACTCAAT
1 CATCTTTGCATTCATCATCATGTGAAATAAAGAAATTTCCCCCCTCTCTCGAGGACAAACTCAAT
1792 AATTCATCAAATCAAACACATCAAATAAACTTCATCTTGGCATCCATCATAACATCCAAGATAGT
66 AATTCATCAAATCAAACACATCAAATAAACTTCATCTTGGCATCCATCATAACATCCAAGATAGT
* * * *
1857 CAGTCATATATGCATCGTTTTGATCTTTTAGGAAATCAATGTTCGGAAATGATCGGGTGTCTTTA
131 CAGTAATATATGCATCGTTTTGATCTTTTAGGAAATCAATGTTCAGAAATGACCAGGTGTCTTTA
* * * * *
1922 ACCTGAAAGAACAATGATATCTACAGATTTGACTTCCTTAAATCAATAATCAGATCTTCTGAAGA
196 ACCTGAAAGAACAATGACATCCACAGATTTGACTTCCTGAAATCAACAATCAAATCTTCTGAAGA
* * *
1987 CATTTCCTTAACATGTAGGAACAAACAGACTGTCTATCGCCTTTGAGATTGTTTCTCTCAAAACA
261 CATTTCCTCAACATGCAGGAACAAACAGACTGTCTATCACCTTTGAGATTGTTTCTCTCAAAACA
* *
2052 AAGGGTCGTCTCACTAGAGACAATTTTCTTAAAAATAAATTTTGTCTCGTTTGAGGACA-TTTTG
326 AAGGGTCATCTCACTAGAGACAATTTTCTTAAAAATAAATTTTGTCTCGCTTGA-GACAGTTTTG
* * *
2116 CATCTTTGCATTCATCATCATGTGCAATAAAGAAATTT-TCTCCTCTCTCGAGGACAAACTCAAT
1 CATCTTTGCATTCATCATCATGTGAAATAAAGAAATTTCCCCCCTCTCTCGAGGACAAACTCAAT
2180 AATTCATCAAATCAAACACATCAAATAAACTTCATCTTGGCATCCATCATAACATCCAAGATAGT
66 AATTCATCAAATCAAACACATCAAATAAACTTCATCTTGGCATCCATCATAACATCCAAGATAGT
2245 CAGTAATATATGCATCGTTTTGATCTTTTAGGAAATCAATGTTCAGAAATGACCAGGTGTCTTTA
131 CAGTAATATATGCATCGTTTTGATCTTTTAGGAAATCAATGTTCAGAAATGACCAGGTGTCTTTA
* *
2310 ACCTGAAAGAACAATGCCATCCACAGATTTGACTTCCTGAAGTCAACAATCAAATCTTCTGAAGA
196 ACCTGAAAGAACAATGACATCCACAGATTTGACTTCCTGAAATCAACAATCAAATCTTCTGAAGA
* * * *
2375 CATTTCCTCAACATGCAGGAACAAGCAGACTGTTTATCACCTTTGAGATTGTTTCTCTCGAAATA
261 CATTTCCTCAACATGCAGGAACAAACAGACTGTCTATCACCTTTGAGATTGTTTCTCTCAAAACA
* *
2440 AAGGGTCATCT-AGCTAGAGGCAGTTTTCTTAAAAATAAATTTTGTCTCGCTTGAGACAGTTTT
326 AAGGGTCATCTCA-CTAGAGACAATTTTCTTAAAAATAAATTTTGTCTCGCTTGAGACAGTTTT
2503 CTCTAAAAAC
Statistics
Matches: 357, Mismatches: 28, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
387 5 0.01
388 317 0.89
389 35 0.10
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.32
Consensus pattern (389 bp):
CATCTTTGCATTCATCATCATGTGAAATAAAGAAATTTCCCCCCTCTCTCGAGGACAAACTCAAT
AATTCATCAAATCAAACACATCAAATAAACTTCATCTTGGCATCCATCATAACATCCAAGATAGT
CAGTAATATATGCATCGTTTTGATCTTTTAGGAAATCAATGTTCAGAAATGACCAGGTGTCTTTA
ACCTGAAAGAACAATGACATCCACAGATTTGACTTCCTGAAATCAACAATCAAATCTTCTGAAGA
CATTTCCTCAACATGCAGGAACAAACAGACTGTCTATCACCTTTGAGATTGTTTCTCTCAAAACA
AAGGGTCATCTCACTAGAGACAATTTTCTTAAAAATAAATTTTGTCTCGCTTGAGACAGTTTTG
Found at i:2510 original size:37 final size:37
Alignment explanation
Indices: 2460--2567 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
2450 TAGCTAGAGG
*
2460 CAGTTTTCT-TAAAAATAAATTTTGTCTCGCTTGAGA
1 CAGTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA
2496 CAGTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA
1 CAGTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA
* **
2533 TAG-TTT-TCTAAAAACAAATTTCATCTCGCTTGAGA
1 CAGTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA
2568 TATTTTTCCT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
35 27 0.40
36 12 0.18
37 28 0.42
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (37 bp):
CAGTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGA
Found at i:2550 original size:35 final size:35
Alignment explanation
Indices: 2461--2575 Score: 158
Period size: 35 Copynumber: 3.2 Consensus size: 35
2451 AGCTAGAGGC
* *
2461 AGTTTTCTTAAAAATAAATTTTGTCTCGCTTGAGAC
1 AGTTTTC-TAAAAACAAATTTTGTCTCGCTTGAGAT
2497 AGTTTTCTCTAAAAACAAATTTTGTCTCGCTTGAGAT
1 AG-TTT-TCTAAAAACAAATTTTGTCTCGCTTGAGAT
**
2534 AGTTTTCTAAAAACAAATTTCATCTCGCTTGAGAT
1 AGTTTTCTAAAAACAAATTTTGTCTCGCTTGAGAT
*
2569 ATTTTTC
1 AGTTTTC
2576 CTTTGAGAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
35 34 0.47
36 5 0.07
37 31 0.43
38 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.42
Consensus pattern (35 bp):
AGTTTTCTAAAAACAAATTTTGTCTCGCTTGAGAT
Found at i:2839 original size:36 final size:34
Alignment explanation
Indices: 2717--2910 Score: 109
Period size: 36 Copynumber: 5.8 Consensus size: 34
2707 TGGAAAATCT
* * *
2717 TTGAGATCGTTTCCCTTGAAACGAATTTTATCTCTC
1 TTGAGACCGTTTCTCTTGAAACAAATTTT-TCTC-C
* * **
2753 TTGAGACAGTTTCTCTTGAAACACATCATT-T--
1 TTGAGACCGTTTCTCTTGAAACAAATTTTTCTCC
* * *
2784 TTAAGTCTGTTTCTCTTGAAACAAATTTTGTCTCC
1 TTGAGACCGTTTCTCTTGAAACAAATTTT-TCTCC
*
2819 ATTGAGACCGTTTCTCTTGAAACACAA---ATCT--
1 -TTGAGACCGTTTCTCTTGAAACA-AATTTTTCTCC
* * * *
2850 TTGAG-TCGTTCCCCTTGAAACAAGTTTTGTCTCC
1 TTGAGACCGTTTCTCTTGAAACAAATTTT-TCTCC
* *
2884 ATTGAGACAGTTTCTCTTGAAATAAAT
1 -TTGAGACCGTTTCTCTTGAAACAAAT
2911 CCCTAAAGAT
Statistics
Matches: 116, Mismatches: 28, Indels: 28
0.67 0.16 0.16
Matches are distributed among these distances:
28 1 0.01
29 14 0.12
30 5 0.04
31 23 0.20
32 4 0.03
33 4 0.03
34 1 0.01
35 6 0.05
36 56 0.48
37 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (34 bp):
TTGAGACCGTTTCTCTTGAAACAAATTTTTCTCC
Found at i:2887 original size:65 final size:64
Alignment explanation
Indices: 2711--2905 Score: 257
Period size: 67 Copynumber: 3.0 Consensus size: 64
2701 TTCTCTTGGA
*
2711 AAATCTTTGAGATCGTTTCCCTTGAAACGAATTTTATCTCTC-TTGAGACAGTTTCTCTTGAAAC
1 AAATCTTTGAG-TCGTTTCCCTTGAAAC-AATTTTGTCTC-CATTGAGACAGTTTCTCTTGAAAC
2775 AC
63 AC
* * * * *
2777 ATCATTTTTAAGTCTGTTTCTCTTGAAACAAATTTTGTCTCCATTGAGACCGTTTCTCTTGAAAC
1 A-AATCTTTGAGTC-GTTTCCCTTGAAAC-AATTTTGTCTCCATTGAGACAGTTTCTCTTGAAAC
2842 AC
63 AC
*
2844 AAATCTTTGAGTCGTTCCCCTTGAAACAAGTTTTGTCTCCATTGAGACAGTTTCTCTTGAAA
1 AAATCTTTGAGTCGTTTCCCTTGAAACAA-TTTTGTCTCCATTGAGACAGTTTCTCTTGAAA
2906 TAAATCCCTA
Statistics
Matches: 112, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
64 2 0.02
65 43 0.38
66 13 0.12
67 54 0.48
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (64 bp):
AAATCTTTGAGTCGTTTCCCTTGAAACAATTTTGTCTCCATTGAGACAGTTTCTCTTGAAACAC
Found at i:3327 original size:2 final size:2
Alignment explanation
Indices: 3320--3353 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3310 CGGGTCTACA
3320 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
3354 TATTACATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4011 original size:19 final size:19
Alignment explanation
Indices: 3989--4027 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
3979 CAAACAAACA
*
3989 AAAAAAGAAAGAAAGAGAG
1 AAAAAAGAAAGAAAAAGAG
**
4008 AAAATCGAAAGAAAAAGAG
1 AAAAAAGAAAGAAAAAGAG
4027 A
1 A
4028 GATTACCTTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.03, G:0.23, T:0.03
Consensus pattern (19 bp):
AAAAAAGAAAGAAAAAGAG
Found at i:7920 original size:3 final size:3
Alignment explanation
Indices: 7912--7953 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7902 ATCATTTACG
7912 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7954 CTATAACTAG
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):
TAT
Found at i:8962 original size:2 final size:2
Alignment explanation
Indices: 8957--8983 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8947 AAACAATTAA
8957 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
8984 ATTAACGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9388 original size:2 final size:2
Alignment explanation
Indices: 9377--9424 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
9367 TGCTAATAAT
9377 TA TA -A 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
9418 TA TA TA T
1 TA TA TA T
9425 GATTCTGCTC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9765 original size:34 final size:34
Alignment explanation
Indices: 9720--9786 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 34
9710 AATATGAATT
*
9720 ACAATTTCTCTC-GATCTAACAAGGAGAAAACAATG
1 ACAATTTCTCTCTGA--TAAAAAGGAGAAAACAATG
9755 ACAA-TTCTCTCTTGATAAAAAGGAGAAAACAA
1 ACAATTTCTCTC-TGATAAAAAGGAGAAAACAA
9787 CTCTCAAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
34 23 0.79
35 4 0.14
36 2 0.07
ACGTcount: A:0.46, C:0.18, G:0.13, T:0.22
Consensus pattern (34 bp):
ACAATTTCTCTCTGATAAAAAGGAGAAAACAATG
Found at i:10972 original size:28 final size:27
Alignment explanation
Indices: 10930--10983 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
10920 TTGATTCCTT
*
10930 TTTAATTTACCCCTTAACTTTTCTTATG
1 TTTAATTTAACCCTTAACTTTT-TTATG
* *
10958 TTTAATTTAATCCTTTACTTTTTTAT
1 TTTAATTTAACCCTTAACTTTTTTAT
10984 TTCATGTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.22, C:0.17, G:0.02, T:0.59
Consensus pattern (27 bp):
TTTAATTTAACCCTTAACTTTTTTATG
Found at i:16534 original size:15 final size:15
Alignment explanation
Indices: 16510--16539 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16500 ATGTGGCACC
16510 ACGTGAGGTAAGGCG
1 ACGTGAGGTAAGGCG
*
16525 ACGTGGGGTAAGGCG
1 ACGTGAGGTAAGGCG
16540 CGACCCATGC
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:0.23, C:0.13, G:0.50, T:0.13
Consensus pattern (15 bp):
ACGTGAGGTAAGGCG
Found at i:17516 original size:338 final size:330
Alignment explanation
Indices: 16752--17676 Score: 1358
Period size: 329 Copynumber: 2.8 Consensus size: 330
16742 AACTCGATAA
* * *
16752 ATTTTGATTTTTGCAT-AAAATTACACAATACGTATAATTTAGTATAGGAAAATTTTGAGGGTAA
1 ATTTTGATTTTTGCATGAAAA-TACACAATACGTATAATCTAGTATAGAAAAACTTTGAGGGTAA
* * *
16816 GTATTTTAAAATATAAATAATTTTATAAAAGTTTTATAACTAGTATTTGTTTTACAAAATGATGA
65 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTA-AAAA--ATGA
* * *
16881 TGATGATAATAATAATAAATATTTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAA
127 TGATGATGATGATGATAAATA-TTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAA
*
16946 ATTCATTGACTTTTAAAATTAATTGTTTAAAAATAT-TAAAAA-AAACTTTTAATTACAATTGAG
191 ATTTATTGACTTTTAAAATTAATTGTTTAAAAATATATAAAAATAAACTTTTAATTACAATTGAG
17009 GGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAGTTAATAATATTTATTCATTT
256 GGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAGTTAATAATATTTATTCATTT
17074 TAATAAAATT
321 TAATAAAATT
* * *
17084 ATTTTGAATTTTGCATGAAATTACACAATACGTATAATCTAGTATAAAAAAACTTTGAGGGTAAG
1 ATTTTGATTTTTGCATGAAAATACACAATACGTATAATCTAGTATAGAAAAACTTTGAGGGTAAG
17149 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTAAAAAATGATGAT
66 TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTAAAAAATGATGAT
17214 GATGATGATGATAAATATTTTATAATTTAAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
131 GATGATGATGATAAATATTTTATAATTT-AAAAAATTATAAATTTCATATATTTTTGAAAAATTT
*
17279 ATTGACTTTTAAAATTAATTGTTTAAAAATATAAAAATATTAAAATGAACTTTTAA-TACAATTG
195 ATTGACTTTTAAAATTAATTGTTTAAAAATAT----ATA--AAAATAAACTTTTAATTACAATTG
* * *
17343 AGGGATCAAATGAATTATTATTCATTAATTATTATTTTTAATAACATTTAATAATTTTTATTCAT
254 AGGGATCAAATGAATTATTATTCATTAATTATTATTTTTAACAACAGTTAATAATATTTATTCA-
17408 TTTTAATAAAATT
318 TTTTAATAAAATT
17421 ATTTTGATTTTTGCATGCAAAATACACAATACGTATAATCTAGTATAGAAAAACTTTGAGGGTAA
1 ATTTTGATTTTTGCATG-AAAATACACAATACGTATAATCTAGTATAGAAAAACTTTGAGGGTAA
* * *
17486 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAATATTTCTTTT---ACA--A--A
65 GTATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTAAAAAATGATGA
*
17544 --ATGATGATGATAAATATTTTATAATTTTAAAAATTATAAATTTCATATA----T------TTT
130 TGATGATGATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTT
*
17597 ATTGACTTTTAAAATTAATTGTTTAAAAA-ATATAAAAATTAACTTTTAATTACAATTGAGGGAT
195 ATTGACTTTTAAAATTAATTGTTTAAAAATATATAAAAATAAACTTTTAATTACAATTGAGGGAT
17661 CAAATGAATTATTATT
260 CAAATGAATTATTATT
17677 TTTTAACAAC
Statistics
Matches: 555, Mismatches: 25, Indels: 46
0.89 0.04 0.07
Matches are distributed among these distances:
311 14 0.03
312 30 0.05
313 3 0.01
317 2 0.00
318 32 0.06
324 1 0.00
328 32 0.06
329 116 0.21
331 5 0.01
332 105 0.19
333 4 0.01
334 2 0.00
335 2 0.00
336 73 0.13
337 38 0.07
338 96 0.17
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (330 bp):
ATTTTGATTTTTGCATGAAAATACACAATACGTATAATCTAGTATAGAAAAACTTTGAGGGTAAG
TATTTTAAAATATGAATAATTTTATAAAAGTTTTATAACCAGTATTTATTTTAAAAAATGATGAT
GATGATGATGATAAATATTTTATAATTTAAAAAATTATAAATTTCATATATTTTTGAAAAATTTA
TTGACTTTTAAAATTAATTGTTTAAAAATATATAAAAATAAACTTTTAATTACAATTGAGGGATC
AAATGAATTATTATTCATTAATTATTATTTTTAACAACAGTTAATAATATTTATTCATTTTAATA
AAATT
Found at i:17836 original size:21 final size:21
Alignment explanation
Indices: 17812--17868 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
17802 TTACATTCTT
*
17812 TTTTTATTGAATTTTATT-CA
1 TTTTTATTGATTTTTATTGCA
*
17832 CTTTTAATT-ATTTTTTATTGCA
1 -TTTTTATTGA-TTTTTATTGCA
17854 TTTTTATTGATTTTT
1 TTTTTATTGATTTTT
17869 TAAAAAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 26 0.87
22 3 0.10
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTATTGATTTTTATTGCA
Found at i:17857 original size:11 final size:10
Alignment explanation
Indices: 17812--17868 Score: 53
Period size: 10 Copynumber: 5.5 Consensus size: 10
17802 TTACATTCTT
17812 TTTTTATTGA
1 TTTTTATTGA
* *
17822 ATTTTATTCA
1 TTTTTATTGA
*
17832 CTTTTAATT-A
1 -TTTTTATTGA
17842 TTTTTTATTGCA
1 -TTTTTATTG-A
17854 TTTTTATTGA
1 TTTTTATTGA
17864 TTTTT
1 TTTTT
17869 TAAAAAGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
10 22 0.58
11 15 0.39
12 1 0.03
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.68
Consensus pattern (10 bp):
TTTTTATTGA
Found at i:17869 original size:11 final size:11
Alignment explanation
Indices: 17811--17870 Score: 54
Period size: 11 Copynumber: 5.6 Consensus size: 11
17801 TTTACATTCT
17811 TTTTTTATTGA
1 TTTTTTATTGA
* *
17822 -ATTTTATTCA
1 TTTTTTATTGA
* *
17832 CTTTTAATT-A
1 TTTTTTATTGA
17842 TTTTTTATTGCA
1 TTTTTTATTG-A
17854 -TTTTTATTGA
1 TTTTTTATTGA
17864 TTTTTTA
1 TTTTTTA
17871 AAAAGTGAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
10 17 0.44
11 21 0.54
12 1 0.03
ACGTcount: A:0.22, C:0.05, G:0.05, T:0.68
Consensus pattern (11 bp):
TTTTTTATTGA
Found at i:20350 original size:20 final size:21
Alignment explanation
Indices: 20327--20367 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
20317 TATTATATGT
**
20327 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
20347 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
20368 TAAAAATATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:21255 original size:19 final size:18
Alignment explanation
Indices: 21231--21270 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
21221 TTGGTATATT
*
21231 TGTTTTTTTTTCCTTTCTC
1 TGTTTTTTTTT-CGTTCTC
21250 TGTTTTTTTTTCGTTCTC
1 TGTTTTTTTTTCGTTCTC
21268 TGT
1 TGT
21271 CTCTGTCTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.72
Consensus pattern (18 bp):
TGTTTTTTTTTCGTTCTC
Found at i:21257 original size:18 final size:18
Alignment explanation
Indices: 21234--21270 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21224 GTATATTTGT
*
21234 TTTTTTTTCCTTTCTCTG
1 TTTTTTTTCCGTTCTCTG
*
21252 TTTTTTTTTCGTTCTCTG
1 TTTTTTTTCCGTTCTCTG
21270 T
1 T
21271 CTCTGTCTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (18 bp):
TTTTTTTTCCGTTCTCTG
Found at i:21779 original size:3 final size:3
Alignment explanation
Indices: 21771--21943 Score: 310
Period size: 3 Copynumber: 57.7 Consensus size: 3
21761 AATATATATT
*
21771 TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
21819 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
21867 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
21915 TAA TAA TAA AAA TAC TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21944 TGGATAAAAA
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 162 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:22225 original size:117 final size:116
Alignment explanation
Indices: 22078--22838 Score: 995
Period size: 114 Copynumber: 6.6 Consensus size: 116
22068 ATTGAATAAA
* * ** * *
22078 TTCTT-TTCTTTCTTCAGAT-GAGTTCTTCTCATTATGAACTTTCT-GCTGGGGATGATGATCCA
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAAC-TTCTACCTGGCAAAGATAATCCA
*
22140 TCAA-ATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
65 TCAACATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* * *
22191 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCT-GCAATGTTGATCC
1 TTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTTCTACCTGGCAAAGATAATCC
*
22254 ATCAA-ATGATGAATTCAAGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 ATCAACATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
22306 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTTCTACCTGGCAAAGATAATCC
* * *
22370 ATCAACTTGATGAATTCAGGCAAAAGATTGAACAAGTTCTTCTCATTATGAAC
64 ATCAACATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
22423 TTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCTACCTGGCAAAGATAATCC
1 TTCTTCTTCCTTCTTCAGAT-A-GAGTTCTTCTCATTATGAACTTCTACCTGGCAAAGATAATCC
* * *
22487 ATCAACTTGATGAATTC-AGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 ATCAACATGATGAATTCAAG-CAAAAGATTGAACAAATTCTTCTCATTATGAAC
* *
22540 TTCTTCTTCCTTCTTCAGATA-AGTTCTTCTCATTATGAACTT-T-CTCTGGAAAAGACTGATCC
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTTCTAC-CTGGCAAAGA-TAATCC
* ** * *
22602 ATCAA-ATGATGGATTCGGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
64 ATCAACATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
* * *
22654 TTCTTCTTCATTCTTCAAAT-GAGTTCTTCTCATTATGAACCTTCT--CTGGAAAAGATAATCCA
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAA-CTTCTACCTGGCAAAGATAATCCA
** * * *
22716 TCAATTTGATGAATTCAGGTAAAAGGTTGAACAAATTCTTCTCATTATGAAC
65 TCAACATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
22768 TTCTTCTTCCTTCTTCAGAT-GAGTTCTTCTCATTATGAACTT-TACCTGGCAAAGATAATCCAT
1 TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTTCTACCTGGCAAAGATAATCCAT
22831 CAA-ATGAT
66 CAACATGAT
22839 AGATTTGAAT
Statistics
Matches: 600, Mismatches: 30, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
112 1 0.00
113 23 0.04
114 230 0.38
115 130 0.22
116 20 0.03
117 196 0.33
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (116 bp):
TTCTTCTTCCTTCTTCAGATAGAGTTCTTCTCATTATGAACTTCTACCTGGCAAAGATAATCCAT
CAACATGATGAATTCAAGCAAAAGATTGAACAAATTCTTCTCATTATGAAC
Found at i:23711 original size:83 final size:83
Alignment explanation
Indices: 23571--23879 Score: 516
Period size: 83 Copynumber: 3.7 Consensus size: 83
23561 TAGTTCTTAC
* **
23571 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCCCAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
23636 TTCAATGATTGGTTCTG-
66 TTCAATGATTGGTTCTGT
23653 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCTA
1 C-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTTCTA
23717 AATTCAATGATTGGTTCTGT
64 AATTCAATGATTGGTTCTGT
*
23737 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAACAAATTCATCTTCTAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-ACAAATTCATCTTCTAA
23801 ATTCAATGATTGGTTCTGT
65 ATTCAATGATTGGTTCTGT
* *
23820 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTT
23880 TCATTTAATG
Statistics
Matches: 218, Mismatches: 5, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
82 3 0.01
83 212 0.97
84 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGACAAATTCATCTTCTAAA
TTCAATGATTGGTTCTGT
Found at i:24625 original size:20 final size:20
Alignment explanation
Indices: 24600--24639 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
24590 GAAATATATA
24600 TAATTGTATTCAAAGTTATG
1 TAATTGTATTCAAAGTTATG
24620 TAATTGTATTCAAAGTTATG
1 TAATTGTATTCAAAGTTATG
24640 GCAAGCATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (20 bp):
TAATTGTATTCAAAGTTATG
Found at i:24967 original size:7 final size:6
Alignment explanation
Indices: 24932--25002 Score: 60
Period size: 6 Copynumber: 12.0 Consensus size: 6
24922 CTTGACCCCC
* * *
24932 TTTCTT TTTC-T TCTC-T TTT-TT TTTCTT TTTCAT TTTCTAT TTTTTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT-T TTTCTT
24978 TCTTCTT TTT-TT TTTCTT TTCTCTT
1 T-TTCTT TTTCTT TTTCTT TT-TCTT
25003 CAAGCATAAT
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
5 16 0.30
6 23 0.43
7 14 0.26
ACGTcount: A:0.03, C:0.17, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:33101 original size:21 final size:20
Alignment explanation
Indices: 33077--33115 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33067 TGACTTCAAG
33077 TTCAGCAATCAACTGGTTCAT
1 TTCAG-AATCAACTGGTTCAT
*
33098 TTCAGATTCAACTGGTTC
1 TTCAGAATCAACTGGTTC
33116 TTCGGTAGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (20 bp):
TTCAGAATCAACTGGTTCAT
Found at i:34456 original size:13 final size:15
Alignment explanation
Indices: 34434--34470 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
34424 TTTGACAGAA
34434 AAAT-AAATAC-TG-
1 AAATAAAATACTTGC
34446 AAATAAAATACTTGC
1 AAATAAAATACTTGC
34461 AAATAAAATA
1 AAATAAAATA
34471 AAACATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 6 0.27
14 2 0.09
15 10 0.45
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.24
Consensus pattern (15 bp):
AAATAAAATACTTGC
Found at i:34509 original size:18 final size:17
Alignment explanation
Indices: 34461--34511 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
34451 AAATACTTGC
*
34461 AAATAAAATAAAACATAT
1 AAAT-AAATAAAAAATAT
*
34479 AAAT-ATTATAAAAATAAT
1 AAATAAATA-AAAAAT-AT
34497 AAATAAATAAAAAAT
1 AAATAAATAAAAAAT
34512 TTGAAAAGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
16 3 0.11
17 5 0.19
18 16 0.59
19 3 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATAAAAAATAT
Found at i:35233 original size:20 final size:21
Alignment explanation
Indices: 35210--35253 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
35200 TATTATATGT
**
35210 ATATTTATGAATAT-ATAAAA
1 ATATTTAACAATATAATAAAA
35230 ATATTTAACAATATAATAAAA
1 ATATTTAACAATATAATAAAA
35251 ATA
1 ATA
35254 AAAATATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (21 bp):
ATATTTAACAATATAATAAAA
Found at i:36169 original size:20 final size:19
Alignment explanation
Indices: 36142--36182 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
36132 TTGGTATATT
* *
36142 TGTTTTTTTTTCCTTTCTC
1 TGTTTTTTTTTTCGTTCTC
36161 TGTTTTTTTTTTCGTTCTC
1 TGTTTTTTTTTTCGTTCTC
36180 TGT
1 TGT
36183 CTCTGTCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.73
Consensus pattern (19 bp):
TGTTTTTTTTTTCGTTCTC
Found at i:36691 original size:3 final size:3
Alignment explanation
Indices: 36673--36840 Score: 282
Period size: 3 Copynumber: 55.7 Consensus size: 3
36663 TATATATGTT
* * *
36673 TAA TATA TAT TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAG
1 TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
36719 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
36767 TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
36815 TAA TAA TAA TAC TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
36841 TGGATAAAAA
Statistics
Matches: 154, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
3 151 0.98
4 3 0.02
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:41895 original size:2 final size:2
Alignment explanation
Indices: 41890--41934 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
41880 AGAAAATCGT
*
41890 TA TA TA TA TA TA TA -A TA TA TA CA -A 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
41930 TA TA T
1 TA TA T
41935 CCTAGAATTA
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:43657 original size:17 final size:17
Alignment explanation
Indices: 43612--43662 Score: 50
Period size: 18 Copynumber: 3.0 Consensus size: 17
43602 AATTTCTAAA
* *
43612 AGAAATTAA-AAAAATA
1 AGAAAATAATAAAAATT
*
43628 ACAAAATATATAAAAATT
1 AGAAAATA-ATAAAAATT
*
43646 AGAAAATAATAATAATT
1 AGAAAATAATAAAAATT
43663 TTTATAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 6 0.21
17 9 0.32
18 13 0.46
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (17 bp):
AGAAAATAATAAAAATT
Found at i:43935 original size:22 final size:20
Alignment explanation
Indices: 43878--43931 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
43868 CAAAATGCAA
43878 AAATTAAAATAACAGTAGCT
1 AAATTAAAATAACAGTAGCT
*
43898 AAATCAGAAATTAACAGT-GACT
1 AAATTA-AAA-TAACAGTAG-CT
43920 AAATTAAAATAA
1 AAATTAAAATAA
43932 AACAACATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 8 0.28
21 7 0.24
22 14 0.48
ACGTcount: A:0.57, C:0.09, G:0.09, T:0.24
Consensus pattern (20 bp):
AAATTAAAATAACAGTAGCT
Found at i:45303 original size:84 final size:83
Alignment explanation
Indices: 44970--45462 Score: 464
Period size: 84 Copynumber: 5.9 Consensus size: 83
44960 CCATACGGTG
* * * * ** * * * *
44970 GATGTGCCTTCGAACTGAATGAAATCAAACTTGAAAATTCTTGTTGACAGATAACCCTTCTCGTC
1 GATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGCC
*
45035 TTGAGCTATGTTGTAAATTT
66 TTGAGCTATGCTGTAAA--T
* * * * *
45055 GATATGTCC-ATGAGCTGAATGTAATCGAACTCGAAGG--TTTGTTGACAGATAGCTCTTCTCGC
1 GATGTG-CCTTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGC
* *
45117 CTTAAGCTATACTGTAAATTT
65 CTTGAGCTATGCTGTAAA--T
* * * *
45138 GATATGTCC-ATGAGCTGAATGTAATCGAACTCGAAGG-TTTT-CTGACAGATAGCCCTTCTTGC
1 GATGTG-CCTTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGC
* *
45200 CTTGAGCTATACTGCAAAT
65 CTTGAGCTATGCTGTAAAT
* *
45219 GATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTTGTTGGA-AGATAACCCTTCTTG
1 GATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGT-TTTTGTT-GACAGATAGCCCTTCTTG
45283 CCTTGAGCTATGCTGTAAAT
64 CCTTGAGCTATGCTGTAAAT
* *
45303 GATGTGTCTTTGAGCT-AAGTGTAAT-AGAACTCGAAGGTCTTTTGTTGGCAGATAGCCCTTCTT
1 GATGTGCCTTTGAGCTGAA-TGTAATCA-AACTCGAAGGT-TTTTGTTGACAGATAGCCCTTCTT
* *
45366 GCCTTAAGCTATGCTGCAAAT
63 GCCTTGAGCTATGCTGTAAAT
** * * * * * *
45387 GATGTGCCTTTGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGTTGGCAAATAGCCGTTCTTGT
1 GATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGT-TTTTGTTGACAGATAGCCCTTCTTGC
*
45452 CTTGAGTTATG
65 CTTGAGCTATG
45463 TTACAAATGA
Statistics
Matches: 351, Mismatches: 45, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
80 2 0.01
81 31 0.09
83 117 0.33
84 171 0.49
85 28 0.08
86 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (83 bp):
GATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTTTTTGTTGACAGATAGCCCTTCTTGCC
TTGAGCTATGCTGTAAAT
Found at i:47679 original size:2 final size:2
Alignment explanation
Indices: 47672--47751 Score: 151
Period size: 2 Copynumber: 40.0 Consensus size: 2
47662 ACAACAAGGG
47672 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
*
47714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47752 GGATAAATGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 76 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:50125 original size:12 final size:12
Alignment explanation
Indices: 50108--50135 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
50098 ACTTCCCTAA
50108 AGTCCCCAGCGG
1 AGTCCCCAGCGG
50120 AGTCCCCAGCGG
1 AGTCCCCAGCGG
50132 AGTC
1 AGTC
50136 ACGAAGCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.39, G:0.32, T:0.11
Consensus pattern (12 bp):
AGTCCCCAGCGG
Found at i:50575 original size:20 final size:20
Alignment explanation
Indices: 50538--50575 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
50528 AAAATCAAAC
*
50538 AAAATATTAGATGGTAAAAT
1 AAAATATTAGATGCTAAAAT
50558 AAAATATT-GAATGCTAAA
1 AAAATATTAG-ATGCTAAA
50576 CAAAAAGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 1 0.06
20 15 0.94
ACGTcount: A:0.55, C:0.03, G:0.13, T:0.29
Consensus pattern (20 bp):
AAAATATTAGATGCTAAAAT
Found at i:51024 original size:22 final size:20
Alignment explanation
Indices: 50967--51020 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
50957 CAAAATGCCA
50967 AAATTAAAATAACAGTAGCT
1 AAATTAAAATAACAGTAGCT
*
50987 AAATCTTAAATTAACAGT-GACT
1 AAA--TTAAAATAACAGTAG-CT
51009 AAATTAAAATAA
1 AAATTAAAATAA
51021 AACAACATCA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
20 11 0.38
21 1 0.03
22 17 0.59
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.28
Consensus pattern (20 bp):
AAATTAAAATAACAGTAGCT
Found at i:54585 original size:32 final size:32
Alignment explanation
Indices: 54538--54604 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
54528 GGAATAAAAA
* * * *
54538 AGTCAGTATTGCATTCAAATAATGCATAGTAG
1 AGTCAATATTACATTCAAATAATACATAGCAG
*
54570 AGTCAATATTACATTCAGATAATACATAGCAG
1 AGTCAATATTACATTCAAATAATACATAGCAG
54602 AGT
1 AGT
54605 TATTGTTGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.16, T:0.30
Consensus pattern (32 bp):
AGTCAATATTACATTCAAATAATACATAGCAG
Found at i:60516 original size:5 final size:5
Alignment explanation
Indices: 60506--60532 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
60496 TATGACCAAG
60506 AAATA AAATA AAATA AAATA AAATA AA
1 AAATA AAATA AAATA AAATA AAATA AA
60533 CTATTTATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:60765 original size:50 final size:50
Alignment explanation
Indices: 60688--60804 Score: 171
Period size: 50 Copynumber: 2.3 Consensus size: 50
60678 TATAACTCTC
* * *
60688 TAGAAGCTTGTGGAAGAGTGTGAAATCCTCTGGAATATTCTGGATATGTG
1 TAGAAGCTTGTGGAAGAATGTGAAATCCTCTGAAATATTCTGGAGATGTG
*
60738 TAGAAGCTTGTGGAAGAATGTGGAATCCTCTGAAATATTCTGGAGATGTG
1 TAGAAGCTTGTGGAAGAATGTGAAATCCTCTGAAATATTCTGGAGATGTG
* * *
60788 TGGAACCTTATGGAAGA
1 TAGAAGCTTGTGGAAGA
60805 GTATGAAAGA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.30
Consensus pattern (50 bp):
TAGAAGCTTGTGGAAGAATGTGAAATCCTCTGAAATATTCTGGAGATGTG
Found at i:64413 original size:50 final size:50
Alignment explanation
Indices: 64337--64453 Score: 162
Period size: 50 Copynumber: 2.3 Consensus size: 50
64327 TAGAACTCTC
* *
64337 TAGAAGCTTGTGGAAGAGTGTAGAATCCTCTGGAATATTATGGATATGTG
1 TAGAAGCTTGTGGAAGAATGTAGAATCCTCTGGAATATTATGGAGATGTG
* * *
64387 TAGAAGCTTGTGGAAGAATGTGGAATCCTTTGGAATATTCTGGAGATGTG
1 TAGAAGCTTGTGGAAGAATGTAGAATCCTCTGGAATATTATGGAGATGTG
* * *
64437 TGGAACCTTATGGAAGA
1 TAGAAGCTTGTGGAAGA
64454 GTATGAAAGA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.30, C:0.09, G:0.31, T:0.31
Consensus pattern (50 bp):
TAGAAGCTTGTGGAAGAATGTAGAATCCTCTGGAATATTATGGAGATGTG
Found at i:71042 original size:16 final size:17
Alignment explanation
Indices: 71015--71047 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
71005 TATCACCGAC
71015 CGAAATTTCACTATTCA
1 CGAAATTTCACTATTCA
71032 CGAAA-TTCACTATTCA
1 CGAAATTTCACTATTCA
71048 TGTGAATAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.33
Consensus pattern (17 bp):
CGAAATTTCACTATTCA
Found at i:72729 original size:13 final size:13
Alignment explanation
Indices: 72684--72729 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
72674 TAAAATATCC
72684 TAAATTTAAACCT
1 TAAATTTAAACCT
*
72697 TAAACTTAAACCT
1 TAAATTTAAACCT
72710 TATAATTTTAAACC-
1 TA-AA-TTTAAACCT
72724 TAAATT
1 TAAATT
72730 AAGAAGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
12 2 0.07
13 16 0.55
14 4 0.14
15 7 0.24
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAATTTAAACCT
Found at i:73528 original size:18 final size:18
Alignment explanation
Indices: 73505--73539 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
73495 CTAGTAATCT
73505 GGTGTAACAGAATACAAA
1 GGTGTAACAGAATACAAA
73523 GGTGTAACAGAATACAA
1 GGTGTAACAGAATACAA
73540 CAAACTAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.11, G:0.23, T:0.17
Consensus pattern (18 bp):
GGTGTAACAGAATACAAA
Found at i:73643 original size:27 final size:27
Alignment explanation
Indices: 73605--73659 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
73595 TTCAGCAACA
73605 TTCTAGATTCATTCTAGAACATTTACT
1 TTCTAGATTCATTCTAGAACATTTACT
73632 TTCTAGATTCATTCTAGAACATTTACT
1 TTCTAGATTCATTCTAGAACATTTACT
73659 T
1 T
73660 CAATATTCCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.29, C:0.18, G:0.07, T:0.45
Consensus pattern (27 bp):
TTCTAGATTCATTCTAGAACATTTACT
Found at i:77646 original size:27 final size:25
Alignment explanation
Indices: 77597--77656 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 25
77587 TCTAATTGAA
*
77597 ATAATATATATATACTGATATTATTCT
1 ATAATATATATA-A-TGATATTATACT
*
77624 TTAATATATATAATGAATAATTATACT
1 ATAATATATATAATG-AT-ATTATACT
77651 ATAATA
1 ATAATA
77657 CTCTGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
25 2 0.07
26 3 0.11
27 23 0.82
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (25 bp):
ATAATATATATAATGATATTATACT
Found at i:77860 original size:18 final size:19
Alignment explanation
Indices: 77837--77873 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
77827 TAATATCTGA
77837 AAAATACATGAA-TAAATT
1 AAAATACATGAATTAAATT
*
77855 AAAATATATGAATTAAATT
1 AAAATACATGAATTAAATT
77874 CATAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAATACATGAATTAAATT
Found at i:79969 original size:20 final size:20
Alignment explanation
Indices: 79944--80036 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
79934 TTTTCCCAAT
79944 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGTAAA
* ** *
79964 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGTAAA
79984 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGTAAA
* ** *
80005 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAA-TAAGTAAA
80026 TCGCAATGCGA
1 TCGCAATGCGA
80037 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGTAAA
Found at i:79986 original size:41 final size:41
Alignment explanation
Indices: 79941--80036 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
79931 CGATTTTCCC
79941 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
79982 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
80023 AAATCGCAATGCGA
1 AATTCGCAATGCGA
80037 TACTGACTAT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.19
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:79990 original size:21 final size:20
Alignment explanation
Indices: 79944--80036 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
79934 TTTTCCCAAT
*
79944 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATAAGGAAA
* **
79964 TCGCAACGCGAATTGGGAAA
1 TCGCAATGCGAATAAGGAAA
*
79984 TTCGCAATGCGAATAAGTAAA
1 -TCGCAATGCGAATAAGGAAA
* **
80005 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGG-AAA
80026 TCGCAATGCGA
1 TCGCAATGCGA
80037 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 29 0.50
21 29 0.50
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.18
Consensus pattern (20 bp):
TCGCAATGCGAATAAGGAAA
Found at i:80049 original size:41 final size:41
Alignment explanation
Indices: 79963--80097 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
79953 GAATAAGTAA
* * *
79963 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
80004 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
80045 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
80086 TTCGCAACGCGA
1 ATCGCAACGCGA
80098 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:80050 original size:20 final size:20
Alignment explanation
Indices: 80025--80118 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
80015 AATTGGGAAA
*
80025 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
80045 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
80066 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
80086 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
80106 TTCGCAACGCGAT
1 ATCGCAACGCGAT
80119 TTACTTAGCG
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 46 0.77
21 14 0.23
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:80296 original size:20 final size:20
Alignment explanation
Indices: 80203--80296 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
80193 CGCTAAGTAA
*
80203 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* *
80223 ATCGCGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
80243 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
80264 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
80284 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
80297 TTTCCCAATT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:80315 original size:41 final size:41
Alignment explanation
Indices: 80224--80358 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
80214 AAAGTCAGTA
* * * ** *
80224 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* *
80264 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* ** *
80306 TCGCGTTGCGAT-TTACTTATTCGCATTGCGAATTTCCCAAT
1 TCGCGTTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
80347 TCGCGTTGCGAT
1 TCGCGTTGCGAT
80359 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCGTTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:80329 original size:20 final size:20
Alignment explanation
Indices: 80285--80377 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
80275 ATAGTCAGTA
* **
80285 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
80306 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
80326 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
80347 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
80367 TCGCATTGCGA
1 TCGCATTGCGA
80378 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:80359 original size:41 final size:41
Alignment explanation
Indices: 80285--80380 Score: 183
Period size: 41 Copynumber: 2.3 Consensus size: 41
80275 ATAGTCAGTA
*
80285 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
80326 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
80367 TCGCATTGCGAATT
1 TCGCATTGCGAATT
80381 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
Found at i:92970 original size:20 final size:20
Alignment explanation
Indices: 92945--92996 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
92935 ATTTAGCTTG
92945 GGGTATCGATACTGAAGGAA
1 GGGTATCGATACTGAAGGAA
*
92965 GGGTATTGATACTGAAGGAA
1 GGGTATCGATACTGAAGGAA
92985 GGGTATCGATAC
1 GGGTATCGATAC
92997 CATATGATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.10, G:0.35, T:0.23
Consensus pattern (20 bp):
GGGTATCGATACTGAAGGAA
Found at i:95401 original size:3 final size:3
Alignment explanation
Indices: 95376--95434 Score: 64
Period size: 3 Copynumber: 19.0 Consensus size: 3
95366 TTGGGCTTTG
* * * *
95376 TAA TAT TAA TAAA TAA TTAA TAA TAA TTA TAA TAA TAA TAA TTA TTA
1 TAA TAA TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
95423 TAA TAA TAA TAA
1 TAA TAA TAA TAA
95435 AAATGGGTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 42 0.88
4 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:95413 original size:15 final size:15
Alignment explanation
Indices: 95376--95432 Score: 73
Period size: 15 Copynumber: 3.9 Consensus size: 15
95366 TTGGGCTTTG
*
95376 TAATATTAATAA--A
1 TAATAATAATAATTA
95389 TAATTAATAATAATTA
1 TAA-TAATAATAATTA
95405 TAATAATAATAATTA
1 TAATAATAATAATTA
*
95420 TTATAATAATAAT
1 TAATAATAATAAT
95433 AAAAATGGGT
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
13 3 0.08
14 8 0.21
15 24 0.62
16 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
TAATAATAATAATTA
Found at i:95416 original size:18 final size:18
Alignment explanation
Indices: 95387--95434 Score: 78
Period size: 18 Copynumber: 2.6 Consensus size: 18
95377 AATATTAATA
95387 AATAATTAATAATAATTAT
1 AATAA-TAATAATAATTAT
*
95406 AATAATAATAATTATTAT
1 AATAATAATAATAATTAT
95424 AATAATAATAA
1 AATAATAATAA
95435 AAATGGGTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
18 23 0.82
19 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAATAATAATAATTAT
Found at i:96031 original size:113 final size:112
Alignment explanation
Indices: 95780--96335 Score: 749
Period size: 113 Copynumber: 5.0 Consensus size: 112
95770 ATAGAGTTAT
* **
95780 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTC-TCCTTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGTTCTTCT
* * *
95844 CATTATGAACT-TTCTCTGG-AAAGTTGATCCATCAAATGATAGATTTGA
65 CATTATGAACTCTAC-CTGGCAAAGCTGATCCATC-AATGATGGATTTGA
* *
95892 GCAAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
*
95957 ATTATGAACTCTACCTGGCAAAGCTGATTCATCAAGTGATGGATTTGA
66 ATTATGAACTCTACCTGGCAAAGCTGATCCATCAA-TGATGGATTTGA
96005 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * **
96070 ATTATGAACT-TTCTCTGGCAAAGCTGATCCATCAAATGATGAATTCAA
66 ATTATGAACTCTAC-CTGGCAAAGCTGATCCATC-AATGATGGATTTGA
* * *
96118 G-AAAAAGTTGAACAAGTTCTTCTTATTATGAA------CTT-CTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
96175 ATTATGAACTCTACCTGGTAAAGCTGATCCATTGAATGATGGATTTGA
66 ATTATGAACTCTACCTGGCAAAGCTGATCCA-TCAATGATGGATTTGA
*
96223 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * * *
96288 ATTATGAACTCGAACTGGAAAAGCTGATCCATTGAATGATGGATTTGA
66 ATTATGAACTCTACCTGGCAAAGCTGATCCA-TCAATGATGGATTTGA
96336 ATTTTTGCTA
Statistics
Matches: 397, Mismatches: 31, Indels: 31
0.86 0.07 0.07
Matches are distributed among these distances:
105 60 0.15
106 34 0.09
112 105 0.26
113 196 0.49
114 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (112 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTCTACCTGGCAAAGCTGATCCATCAATGATGGATTTGA
Found at i:96156 original size:17 final size:17
Alignment explanation
Indices: 96134--96184 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
96124 GTTGAACAAG
96134 TTCTTCTTATTATGAAC
1 TTCTTCTTATTATGAAC
* *
96151 TTCTTCTTCA-GATG-AG
1 TTCTTCTT-ATTATGAAC
*
96167 TTCTTCTCATTATGAAC
1 TTCTTCTTATTATGAAC
96184 T
1 T
96185 CTACCTGGTA
Statistics
Matches: 26, Mismatches: 5, Indels: 6
0.70 0.14 0.16
Matches are distributed among these distances:
15 1 0.04
16 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.49
Consensus pattern (17 bp):
TTCTTCTTATTATGAAC
Found at i:96313 original size:218 final size:222
Alignment explanation
Indices: 95780--96332 Score: 800
Period size: 218 Copynumber: 2.5 Consensus size: 222
95770 ATAGAGTTAT
* **
95780 GCAAAAGGTCGAACAAGCTCTTCTCATTATGAACTTCTTC-TCCTTTCTTCAGATGAGTTCTTCT
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TTCTTCAGATGAGTTCTTCT
* ** *
95844 CATTATGAACTTTCTCTGGAAAGTTGATCCATCAAATGAT-AGATTTGAGCAAAAGGTTGAACAA
65 CATTATGAACTTTCTCTGGAAAGCTGATCCATCAAATGATGAGATTCAAGCAAAAAGTTGAACAA
95908 ATTCTTCTCATTATGAATTTCTTTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCT
130 ATTCTTCTCATTATGAA--TC--TTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCT
*
95973 GGCAAAGCTGATTCATCAAGTGATGGATTTGA
191 GGCAAAGCTGATCCATCAAGTGATGGATTTGA
96005 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
96070 ATTATGAACTTTCTCTGGCAAAGCTGATCCATCAAATGATGA-ATTCAAG-AAAAAGTTGAACAA
66 ATTATGAACTTTCTCTGG-AAAGCTGATCCATCAAATGATGAGATTCAAGCAAAAAGTTGAACAA
* * *
96133 GTTCTTCTTATTATGAA-C-TT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGTA
130 ATTCTTCTCATTATGAATCTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCA
*
96195 AAGCTGATCCATTGAA-TGATGGATTTGA
195 AAGCTGATCCA-TCAAGTGATGGATTTGA
*
96223 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTTTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
**** **
96288 ATTATGAACTCGAACTGGAAAAGCTGATCCATTGAATGATG-GATT
66 ATTATGAACTTTCTCTGG-AAAGCTGATCCATCAAATGATGAGATT
96333 TGAATTTTTG
Statistics
Matches: 303, Mismatches: 20, Indels: 17
0.89 0.06 0.05
Matches are distributed among these distances:
218 164 0.54
219 5 0.02
222 1 0.00
225 104 0.34
226 28 0.09
227 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.37
Consensus pattern (222 bp):
GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAGCTGATCCATCAAATGATGAGATTCAAGCAAAAAGTTGAACAAA
TTCTTCTCATTATGAATCTTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGCAA
AGCTGATCCATCAAGTGATGGATTTGA
Found at i:97163 original size:83 final size:83
Alignment explanation
Indices: 97024--97243 Score: 388
Period size: 83 Copynumber: 2.7 Consensus size: 83
97014 GGTTTTATAT
*
97024 CAAACCTA-ATCAGATAACTCAAAGAACACTTCCAAAAGATGCTATTAGCACATTCATCTTTCAA
1 CAAACC-AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTTCAA
97088 AATCAATAACTGGTTTTAC
65 AATCAATAACTGGTTTTAC
97107 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTTCAAA
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTTCAAA
* *
97172 ATCAATGATTGGTTTTAC
66 ATCAATAACTGGTTTTAC
*
97190 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATT
1 CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATT
97244 GCATTTGTTC
Statistics
Matches: 132, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
82 1 0.01
83 131 0.99
ACGTcount: A:0.40, C:0.23, G:0.11, T:0.25
Consensus pattern (83 bp):
CAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAGCACATTCATCTTTCAAA
ATCAATAACTGGTTTTAC
Found at i:98264 original size:19 final size:17
Alignment explanation
Indices: 98240--98301 Score: 83
Period size: 16 Copynumber: 3.6 Consensus size: 17
98230 TTCATAGAAG
*
98240 AATAAATTGAATTTTCGAA
1 AATAAATTGAATTCTC--A
98259 AATAAATTGAA-TCTCA
1 AATAAATTGAATTCTCA
98275 AATAAATTGAA-TCTCA
1 AATAAATTGAATTCTCA
98291 AATAAATTGAA
1 AATAAATTGAA
98302 CTTGAAATAG
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
16 28 0.67
18 3 0.07
19 11 0.26
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (17 bp):
AATAAATTGAATTCTCA
Found at i:98310 original size:16 final size:16
Alignment explanation
Indices: 98258--98301 Score: 88
Period size: 16 Copynumber: 2.8 Consensus size: 16
98248 GAATTTTCGA
98258 AAATAAATTGAATCTC
1 AAATAAATTGAATCTC
98274 AAATAAATTGAATCTC
1 AAATAAATTGAATCTC
98290 AAATAAATTGAA
1 AAATAAATTGAA
98302 CTTGAAATAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.55, C:0.09, G:0.07, T:0.30
Consensus pattern (16 bp):
AAATAAATTGAATCTC
Found at i:98652 original size:19 final size:18
Alignment explanation
Indices: 98630--98671 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
98620 CTTGACCCCC
*
98630 TTTTTTCTT-TTTTCTTT
1 TTTTTTTTTCTTTTCTTT
98647 CTTTTTTTTTCTTTTCTTT
1 -TTTTTTTTTCTTTTCTTT
98666 TTTTTT
1 TTTTTT
98672 CTTCAAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTCTTTTCTTT
Found at i:98662 original size:15 final size:15
Alignment explanation
Indices: 98637--98674 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
98627 CCCTTTTTTC
98637 TTTTTTC-TTTCTTT
1 TTTTTTCTTTTCTTT
98651 TTTTTTCTTTTCTTT
1 TTTTTTCTTTTCTTT
98666 TTTTTTCTT
1 TTTTTTCTT
98675 CAAGCATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTCTTTTCTTT
Found at i:105994 original size:15 final size:15
Alignment explanation
Indices: 105970--106002 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
105960 GAAAATCATG
105970 AAATGAATGTATGCA
1 AAATGAATGTATGCA
*
105985 AAATGCATGTATGCA
1 AAATGAATGTATGCA
106000 AAA
1 AAA
106003 AAGGTATTGA
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:0.48, C:0.09, G:0.18, T:0.24
Consensus pattern (15 bp):
AAATGAATGTATGCA
Found at i:109460 original size:211 final size:211
Alignment explanation
Indices: 109091--109518 Score: 731
Period size: 208 Copynumber: 2.0 Consensus size: 211
109081 AAGTATATGA
109091 ACCCCGAAAGTTACTTGCTAGGTATGACACGGAGAATAAATTCTCACGAAGACTCGCTTTCACTC
1 ACCCCGAAAGTTACTTGCTAGGTATGACACGGAGAATAAATTCTCACGAAGACTCGCTTTCACTC
109156 TTACTTAAAGGGACAAACTCATTATAGAGCTTTATGTTATGCAATGCAAGTGTTGTGTGAGGAGA
66 TTACTTAAAGGGACAAACTCATTATAGAGCTTTATGTTATGCAATGCAAGTGTTGTGTGAGGAGA
109221 AATGTTCAAACCTCTAATAGAAAAAAAAAATGAAAT-A-AAAT-A-ACTTGCAAATAAAAATGAA
131 AATGTTCAAACCTCTAATAG-AAAAAAAAAT-AAATAAGAAATAATACTTGCAAATAAAAATGAA
109282 ATATTAATAAGAAAATAT
194 ATATTAATAAGAAAATAT
109300 ACCCCGAAA-TTACTTGCTAGGTATGACACGGAGAATAAATTCTCACGAAGACGTCGCTTTCACT
1 ACCCCGAAAGTTACTTGCTAGGTATGACACGGAGAATAAATTCTCACGAAGAC-TCGCTTTCACT
109364 CTTACTTAAAAGGGACAAACTCAATTATAGAGCTTTATGTTATGCAATGCAAGTGTTGTGTGTGA
65 CTTACTT-AAAGGGACAAACTC-ATTATAGAGCTTTATGTTATGCAATGCAAGTG-T-TGTGTGA
109429 GGAGAAATGTTCAAACCTCTAATAGAAAAAAAAATAAATAATGAAATAAAATACTTGCAAATAAA
126 GGAGAAATGTTCAAACCTCTAATAGAAAAAAAAATAAATAA-GAAAT--AATACTTGCAAATAAA
109494 AATGAAATATTAATAAGAAAATAT
188 AATGAAATATTAATAAGAAAATAT
109518 A
1 A
109519 TAAATACTAT
Statistics
Matches: 207, Mismatches: 0, Indels: 15
0.93 0.00 0.07
Matches are distributed among these distances:
208 43 0.21
209 27 0.13
210 14 0.07
211 36 0.17
212 12 0.06
213 32 0.15
214 4 0.02
217 1 0.00
218 38 0.18
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (211 bp):
ACCCCGAAAGTTACTTGCTAGGTATGACACGGAGAATAAATTCTCACGAAGACTCGCTTTCACTC
TTACTTAAAGGGACAAACTCATTATAGAGCTTTATGTTATGCAATGCAAGTGTTGTGTGAGGAGA
AATGTTCAAACCTCTAATAGAAAAAAAAATAAATAAGAAATAATACTTGCAAATAAAAATGAAAT
ATTAATAAGAAAATAT
Found at i:110134 original size:26 final size:29
Alignment explanation
Indices: 110074--110127 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
110064 CTCTTTCTTG
110074 ATATTAATAATTAATTTGAATGAAAAAAA
1 ATATTAATAATTAATTTGAATGAAAAAAA
*
110103 ATATTAA-AA-TAATTT-ATTGAAAAAA
1 ATATTAATAATTAATTTGAATGAAAAAA
110128 TAAATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 6 0.25
28 2 0.08
29 7 0.29
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (29 bp):
ATATTAATAATTAATTTGAATGAAAAAAA
Found at i:112067 original size:21 final size:21
Alignment explanation
Indices: 112043--112082 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
112033 TTCTACGTGG
112043 TCCTTC-GAGACATATATGTAA
1 TCCTTCGGA-ACATATATGTAA
*
112064 TCCTTTGGAACATATATGT
1 TCCTTCGGAACATATATGT
112083 GGTACTTCGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (21 bp):
TCCTTCGGAACATATATGTAA
Found at i:115560 original size:41 final size:41
Alignment explanation
Indices: 115514--115595 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
115504 AAATAGAGAG
115514 AGTGAATTTCACTATAGTAGAGGGTCCTTTGTAAGAATTAA
1 AGTGAATTTCACTATAGTAGAGGGTCCTTTGTAAGAATTAA
115555 AGTGAATTTCACTATAGTAGAGGGTCCTTTGTAAGAATTAA
1 AGTGAATTTCACTATAGTAGAGGGTCCTTTGTAAGAATTAA
115596 GCCAAAACAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (41 bp):
AGTGAATTTCACTATAGTAGAGGGTCCTTTGTAAGAATTAA
Found at i:118126 original size:2 final size:2
Alignment explanation
Indices: 118119--118154 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
118109 CTCGTTTTCC
*
118119 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
118155 CCACTACTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118356 original size:3 final size:3
Alignment explanation
Indices: 118348--118419 Score: 81
Period size: 3 Copynumber: 23.3 Consensus size: 3
118338 TTCATTTTAA
** *
118348 ATT ATT ATT ATT AAA ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
118396 AGT AAT ATT ATTT ATT ATTT ATT A
1 ATT ATT ATT A-TT ATT A-TT ATT A
118420 AATATTACAA
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
3 53 0.90
4 6 0.10
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:120014 original size:19 final size:19
Alignment explanation
Indices: 119990--120026 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
119980 GATATGTTTA
*
119990 ATTTATATTTTAGATATTT
1 ATTTATATTTTAAATATTT
*
120009 ATTTATTTTTTAAATATT
1 ATTTATATTTTAAATATT
120027 GAAGGAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTATATTTTAAATATTT
Found at i:125030 original size:2 final size:2
Alignment explanation
Indices: 125023--125048 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
125013 TTATCCTTTA
125023 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
125049 CATTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127802 original size:93 final size:93
Alignment explanation
Indices: 127625--127806 Score: 262
Period size: 93 Copynumber: 2.0 Consensus size: 93
127615 CAATAGTATA
* * *
127625 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAGTCATTGAA
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAACCACAAAACCAATCATTGAA
*
127690 TTTGGAAGATGAATGTGCTCATAGCATC
66 TTTGAAAGATGAATGTGCTCATAGCATC
*
127718 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATG-AACTC-CAAAATCAATCATT-A
1 TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAAC-CACAAAACCAATCATTGA
*
127780 GATTTGAAAGATGAATTTTGCTCATAG
65 -ATTTGAAAGATGAA-TGTGCTCATAG
127807 TAGAAATAAG
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
91 1 0.01
92 27 0.34
93 52 0.65
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (93 bp):
TTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAAACCACAAAACCAATCATTGAA
TTTGAAAGATGAATGTGCTCATAGCATC
Found at i:127934 original size:115 final size:115
Alignment explanation
Indices: 127710--127921 Score: 280
Period size: 115 Copynumber: 1.8 Consensus size: 115
127700 GAATGTGCTC
* * * * *
127710 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAATCAAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGATTCGGTAGGAACCCCAAAACCAAT
* ** * *
127775 CATTAGATTTGAAAGATGAATTTTGCTCATAGTAGAAATAAGAAGACCCA
66 CATTAGAATTGAAAGATGAATCATGATCATACTAGAAATAAGAAGACCCA
* * *
127825 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATTTGATTCGGTAGGAACCCCAGAACCGAT
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGATTCGGTAGGAACCCCAAAACCAAT
*
127890 CATTGGAATTGAAAGATGAACTGCATGATCAT
66 CATTAGAATTGAAAGATGAA-T-CATGATCAT
127922 CTTCATTAAG
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
115 75 0.91
116 1 0.01
117 6 0.07
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATATGATCTGATTCGGTAGGAACCCCAAAACCAAT
CATTAGAATTGAAAGATGAATCATGATCATACTAGAAATAAGAAGACCCA
Found at i:130150 original size:54 final size:54
Alignment explanation
Indices: 130065--130224 Score: 212
Period size: 59 Copynumber: 2.9 Consensus size: 54
130055 GAAATCTTGG
*
130065 CAGAAGCCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCTGAA
1 CAGAAGCCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCCGAA
* * * *
130119 CAGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTCCTTGACCAATAATCCGAG
1 CAGAAGCCACAGGAAAGGATGAATGTATTGTCAAATG-TT--TT-ACGAA-CATCCGAA
* *
130178 CAGAAACCACAGGAAAAGATGAATGTATTGTCAAATGTTTTACGAAC
1 CAGAAGCCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAAC
130225 CAGTGATTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
54 36 0.40
55 6 0.07
56 2 0.02
57 2 0.02
58 6 0.07
59 39 0.43
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
CAGAAGCCACAGGAAAGGATGAATGTATTGTCAAATGTTTTACGAACATCCGAA
Found at i:131420 original size:76 final size:76
Alignment explanation
Indices: 131294--132206 Score: 1740
Period size: 76 Copynumber: 12.0 Consensus size: 76
131284 ATTTCCCACG
131294 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131359 CCTTCGGGTCA
66 CCTTCGGGTCA
131370 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131435 CCTTCGGGTCA
66 CCTTCGGGTCA
131446 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131511 CCTTCGGGTCA
66 CCTTCGGGTCA
131522 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131587 CCTTCGGGTCA
66 CCTTCGGGTCA
131598 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131663 CCTTCGGGTCA
66 CCTTCGGGTCA
131674 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGC-TTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131738 CCTTCGGGTCA
66 CCTTCGGGTCA
*
131749 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGACTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131814 CCTTCGGGTCA
66 CCTTCGGGTCA
131825 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131890 CCTTCGGGTCA
66 CCTTCGGGTCA
131901 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
131966 CCTTCGGGTCA
66 CCTTCGGGTCA
* *
131977 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGATCTTTTTGATATTTTCAAAG
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
132042 CCTTCGGGTCA
66 CCTTCGGGTCA
*
132053 TCTGTAAGCCCTTCAGTGCATGATGTTTCAAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
1 TCTGTAAGCCCTTCAGTGCATGATGTTTC-CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA
132118 GCCTTCGGGTCA
65 GCCTTCGGGTCA
*
132130 TCTGTAAGCCCTTCAGTGCATGCTGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAA-
1 TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
*
132194 CCCTCAGGGTCA
66 CCTTC-GGGTCA
132206 T
1 T
132207 TCATAAGACC
Statistics
Matches: 824, Mismatches: 10, Indels: 6
0.98 0.01 0.01
Matches are distributed among these distances:
75 78 0.09
76 674 0.82
77 72 0.09
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.34
Consensus pattern (76 bp):
TCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAG
CCTTCGGGTCA
Found at i:133921 original size:19 final size:19
Alignment explanation
Indices: 133897--133933 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
133887 GATATGTTTA
*
133897 ATTTATATTTTAGATATTT
1 ATTTATATTTTAAATATTT
*
133916 ATTTATTTTTTAAATATT
1 ATTTATATTTTAAATATT
133934 GAAGGAAAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (19 bp):
ATTTATATTTTAAATATTT
Found at i:136089 original size:3 final size:3
Alignment explanation
Indices: 136081--136105 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
136071 TCTCTTCTCC
136081 CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT C
136106 ACGTGGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:136695 original size:64 final size:64
Alignment explanation
Indices: 136627--136851 Score: 215
Period size: 64 Copynumber: 3.5 Consensus size: 64
136617 TTATTTGAAG
** ** *
136627 GTGCATCGATGCATTGGTAGTGCATAGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATT
1 GTGCATCGATGCATAAGTAGTGCATAGATGCATC-CCATTAATAAGAAA-ACATCGAATGCAATT
*
136690 T
64 A
* *
136691 GTGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCGAATGCAATTA
1 GTGCATCGATGCATAAGTAGTGCATAGATGCATCCCATTAATAAGAAAACATCGAATGCAATTA
* * * * * * * *
136755 GTGCATCGATGCATAAGGCA-TGCATCGATGCATCCCAGTAATAATACAACATCAAATACATTTT
1 GTGCATCGATGCATAA-GTAGTGCATAGATGCATCCCATTAATAAGAAAACATCGAATGCA-ATT
136819 A
64 A
* * *
136820 -TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 GTGCATCGATGCATAAGTAGTGCATAGATGCAT
136852 ACCTTCATTA
Statistics
Matches: 137, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
63 2 0.01
64 125 0.91
65 10 0.07
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.28
Consensus pattern (64 bp):
GTGCATCGATGCATAAGTAGTGCATAGATGCATCCCATTAATAAGAAAACATCGAATGCAATTA
Found at i:137786 original size:101 final size:101
Alignment explanation
Indices: 137589--137807 Score: 379
Period size: 101 Copynumber: 2.2 Consensus size: 101
137579 GTCGAGGGTC
*
137589 TATGTGGTCC-TCGGGATATATATGTATTCTTTGGAACATGTGTGAAGTCCGGTGAGACACATAC
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATATGTGAAGTCCGGT-AGACACATAC
*
137653 TTTATCCTAGTATATGTATATGATTCTTAAGGAGTGA
65 TTGATCCTAGTATATGTATATGATTCTTAAGGAGTGA
*
137690 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATATGTGAAGTCTGGT-GACACATACT
1 TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATATGTGAAGTCCGGTAGACACATACT
137754 TGATCCCTAGTATATGTATATGATTCTTAAGGAGTGA
66 TGAT-CCTAGTATATGTATATGATTCTTAAGGAGTGA
137791 TATGTGGTCCTTCGGGA
1 TATGTGGTCCTTCGGGA
137808 CATTATTATA
Statistics
Matches: 113, Mismatches: 3, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
100 13 0.12
101 59 0.52
102 41 0.36
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (101 bp):
TATGTGGTCCTTCGGGATATATATGTATTCTTTGGAACATATGTGAAGTCCGGTAGACACATACT
TGATCCTAGTATATGTATATGATTCTTAAGGAGTGA
Found at i:137852 original size:23 final size:23
Alignment explanation
Indices: 137819--137881 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
137809 ATTATTATAT
137819 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTCTACGC
* *
137842 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTACGC
*
137865 GGCACTTCGGTGCAATT
1 GGCACTACGGTGCAATT
137882 ATATGAGCTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.19, C:0.29, G:0.27, T:0.25
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTACGC
Done.