Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 8 of 144
Found at i:2011246 original size:295 final size:294
Alignment explanation
Indices: 2010782--2011456 Score: 820
Period size: 295 Copynumber: 2.3 Consensus size: 294
2010772 CCGTTACAGC
* * * * *
2010782 TTAAATCTTTCCCTTCAAGCTTTCGAGGTACAACGTTCGCCGTTACGACTTAAACCTTT-CCTTT
1 TTAAATCTTTCCCTTCATGCTCT-GAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
** * *
2010846 TATATCCTTGTGGTACTAGATTCGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTAC
65 TATATCCTTGTGGTACTAGATTCACCATTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGTAC
* * **
2010911 AAGGTTCACCGTTGCGATTTAAACCTTTCCCTTTATATCCTTGTGGTACTGGATTCGCCATTGCG
130 AAGGTTCACCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTGGATTCGCCATTGCG
* * *
2010976 GCTTAAATTTTTCCCTTCATG-TCTCTGAGGTATAAGGTTCGCCATTATGACTTAAACCTTTCCC
195 GCTTAAATCTTTCCCTTCATGCT-TCTGAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCCC
**** *
2011040 TTTGTGTCTTCGTGGAATTATAATCGCCGTTGCGGA
259 TTCAAATCTTCGTGGAATTAGAATCGCCGTTGCGGA
* * *
2011076 TTAAATCTTTCTCTTCATGTCTCTGAGGTATAAGGTTCGCCATTGTGACTTAAACCTTTCCCTTT
1 TTAAATCTTTCCCTTCATG-CTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
* * * * *
2011141 TATGT-CTTCGTGGTA-TTGAATTTACCATTGCGGCTTAAATTTTTCCCTTCATGCTTCCGAGGT
65 TATATCCTT-GTGGTACTAG-ATTCACCATTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGT
* * **
2011204 ATAAGGTTCGCCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTGGATTCGCTGTTG
128 ACAAGGTTCACCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTGGATTCGCCATTG
* * * * *
2011269 TGGCTTAAATCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCC
193 CGGCTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCC
* * * * * *
2011334 CTTCAAATCTTCGTGGTATTGGATTTGTCGTTGCGGC
258 CTTCAAATCTTCGTGGAATTAGAATCGCCGTTGCGGA
* * *
2011371 TTAAATCTTTCCCTTCATGCTTCAGAGGTACAAGGTTTGCCATTGCGACTTAAACCTTTCCC-TC
1 TTAAATCTTTCCCTTCATGC-TCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTT
* *
2011435 CATATCCTTGTGGCACTAGATT
65 TATATCCTTGTGGTACTAGATT
2011457 TGCCGTTCTG
Statistics
Matches: 319, Mismatches: 54, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
294 65 0.20
295 253 0.79
296 1 0.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (294 bp):
TTAAATCTTTCCCTTCATGCTCTGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTCCCTTTT
ATATCCTTGTGGTACTAGATTCACCATTGCGGCTTAAATCTTTCCCTTCATGCTTCCAAGGTACA
AGGTTCACCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTGGATTCGCCATTGCGG
CTTAAATCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCCCTT
CAAATCTTCGTGGAATTAGAATCGCCGTTGCGGA
Found at i:2011334 original size:49 final size:49
Alignment explanation
Indices: 2010781--2011433 Score: 352
Period size: 49 Copynumber: 13.3 Consensus size: 49
2010771 GCCGTTACAG
* * * *
2010781 CTTAAATCTTTCCCTTCAAGCTT-TCGAGGTACAACGTTCGCCGTTACGA
1 CTTAAACCTTTCCCTTCATGCTTCT-GAGGTACAAGGTTCGCCGTTGCGA
* * * * * * * * *
2010830 CTTAAACCTTTCCTTTTAT-ATCCTTGTGGTACTAGATTCGTCGTTGCGG
1 CTTAAACCTTTCCCTTCATGCTTC-TGAGGTACAAGGTTCGCCGTTGCGA
* * *
2010879 CTTAAATCTTTCCCTTCATGCTTCTAAGGTACAAGGTTCACCGTTGCGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * * * * * * *
2010928 TTTAAACCTTTCCCTTTAT-ATCCTTGTGGTAC-TGGATTCGCCATTGCGG
1 CTTAAACCTTTCCCTTCATGCTTC-TGAGGTACAAGG-TTCGCCGTTGCGA
** * * **
2010977 CTTAAATTTTTCCCTTCATG-TCTCTGAGGTATAAGGTTCGCCATTATGA
1 CTTAAACCTTTCCCTTCATGCT-TCTGAGGTACAAGGTTCGCCGTTGCGA
** ** *
2011026 CTTAAACCTTTCCCTTTGTGTCTTCGTGGAATTATAA---TCGCCGTTGCGGA
1 CTTAAACCTTTCCCTTCATG-CTTC-T-GAGGTACAAGGTTCGCCGTTGC-GA
* * * * *
2011076 -TTAAATCTTTCTCTTCATG-TCTCTGAGGTATAAGGTTCGCCATTGTGA
1 CTTAAACCTTTCCCTTCATGCT-TCTGAGGTACAAGGTTCGCCGTTGCGA
* * * ** * *
2011124 CTTAAACCTTTCCCTTTTATGTCTTC-GTGGTATTGAA--TTTACCATTGCGG
1 CTTAAACCTTTCCC-TTCATG-CTTCTGAGGTA--CAAGGTTCGCCGTTGCGA
** * * *
2011174 CTTAAATTTTTCCCTTCATGCTTCCGAGGTATAAGGTTCGCCATTGCGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* * * * * * * *
2011223 CTTAAACCTTTCCCTCCAT-ATCCTTGTGGTAC-TGGATTCGCTGTTGTGG
1 CTTAAACCTTTCCCTTCATGCTTC-TGAGGTACAAGG-TTCGCCGTTGCGA
* * *
2011272 CTTAAATCTTTCCCTTTATGCTTCTGAGGTACAAGGTTCGTCGTTGCGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
* ** * * *
2011321 CTTAAACCTTTCCCTTCAAAT-CTTC-GTGGTA-TTGGATTTGTCGTTGCGG
1 CTTAAACCTTTCCCTTC--ATGCTTCTGAGGTACAAGG-TTCGCCGTTGCGA
* * * *
2011370 CTTAAATCTTTCCCTTCATGCTTCAGAGGTACAAGGTTTGCCATTGCGA
1 CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
2011419 CTTAAACCTTTCCCT
1 CTTAAACCTTTCCCT
2011434 CCATATCCTT
Statistics
Matches: 448, Mismatches: 120, Indels: 72
0.70 0.19 0.11
Matches are distributed among these distances:
46 7 0.02
47 6 0.01
48 23 0.05
49 345 0.77
50 51 0.11
51 6 0.01
52 10 0.02
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.39
Consensus pattern (49 bp):
CTTAAACCTTTCCCTTCATGCTTCTGAGGTACAAGGTTCGCCGTTGCGA
Found at i:2011459 original size:49 final size:49
Alignment explanation
Indices: 2011217--2011463 Score: 171
Period size: 49 Copynumber: 5.0 Consensus size: 49
2011207 AGGTTCGCCA
* * *
2011217 TTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTGGATTCGCTG
1 TTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATTTGCCG
* * * * * * * * * *
2011266 TTGTGGCTTAAATCTTTCCCT--TTATGCTTCTGAGGTACAAGGTTCGTCG
1 TTGCGACTTAAACCTTTCCCTCCATAT-CCT-TGTGGTACTAGATTTGCCG
* * * * *
2011315 TTGCGACTTAAACCTTTCCCTTCAAAT-CTTCGTGGTATTGGATTTGTCG
1 TTGCGACTTAAACCTTTCCCTCCATATCCTT-GTGGTACTAGATTTGCCG
* * * * * * * *
2011364 TTGCGGCTTAAATCTTTCCCTTC--ATGCTTCAGAGGTACAAGGTTTGCCA
1 TTGCGACTTAAACCTTTCCCTCCATATCCTT--GTGGTACTAGATTTGCCG
*
2011413 TTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGCACTAGATTTGCCG
1 TTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATTTGCCG
2011462 TT
1 TT
2011464 CTGAGGTACA
Statistics
Matches: 147, Mismatches: 42, Indels: 18
0.71 0.20 0.09
Matches are distributed among these distances:
47 5 0.03
48 6 0.04
49 129 0.88
51 7 0.05
ACGTcount: A:0.18, C:0.25, G:0.19, T:0.38
Consensus pattern (49 bp):
TTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGTACTAGATTTGCCG
Found at i:2011533 original size:71 final size:71
Alignment explanation
Indices: 2011395--2011534 Score: 174
Period size: 71 Copynumber: 2.0 Consensus size: 71
2011385 TCATGCTTCA
* * * *
2011395 GAGGTACAAGGTTTGCCATTGCGACTTAAACCTTTCCCTCCATATCCTTGTGGCACTAGATTTGC
1 GAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCCCTCCAAATCCTTGTGGCACTAGATTCGC
2011460 CGTTCT
66 CGTTCT
* * * * * *
2011466 GAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCTCTTCAAAT-CTTCGTGGTACTGGATTCG
1 GAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCCCTCCAAATCCTT-GTGGCACTAGATTCG
2011530 CCGTT
65 CCGTT
2011535 GTGGCTTAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
70 3 0.05
71 55 0.95
ACGTcount: A:0.20, C:0.25, G:0.21, T:0.34
Consensus pattern (71 bp):
GAGGTACAAGGTTCGCCATTACGACTTAAACCTTTCCCTCCAAATCCTTGTGGCACTAGATTCGC
CGTTCT
Found at i:2011572 original size:169 final size:169
Alignment explanation
Indices: 2011293--2011616 Score: 497
Period size: 169 Copynumber: 1.9 Consensus size: 169
2011283 CCCTTTATGC
* *
2011293 TTCTGAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCAAATCTTCGTGGTATTGGAT
1 TTCTGAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGAT
* * * * *
2011358 TTGTCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCAGAGGTACAAGGTTTGCCATTGCGACTTA
66 TCGCCGTTGCGGCTTAAATCCTTCCCTTCATACTTCAGAGGTACAAGGTTCGCCATTGCGACTTA
*
2011423 AACCTTTCCCTCCATATCCTTGTGGCACTAGATTTGCCG
131 AACCTTTCCCTCCAAATCCTTGTGGCACTAGATTTGCCG
*
2011462 TTCTGAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCTCTTCAAATCTTCGTGGTACTGGAT
1 TTCTGAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGAT
* * * *
2011527 TCGCCGTTGTGGCTTAAATCCTTCCCTTGATACTTCTA-AGGTACAAGGTTCGTCGTTGCGACTT
66 TCGCCGTTGCGGCTTAAATCCTTCCCTTCATACTTC-AGAGGTACAAGGTTCGCCATTGCGACTT
* *
2011591 AAACCTTTCCCTTCAAATCTTTGTGG
130 AAACCTTTCCCTCCAAATCCTTGTGG
2011617 TATCGGATTC
Statistics
Matches: 139, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
169 138 0.99
170 1 0.01
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (169 bp):
TTCTGAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGAT
TCGCCGTTGCGGCTTAAATCCTTCCCTTCATACTTCAGAGGTACAAGGTTCGCCATTGCGACTTA
AACCTTTCCCTCCAAATCCTTGTGGCACTAGATTTGCCG
Found at i:2011633 original size:49 final size:49
Alignment explanation
Indices: 2011468--2011650 Score: 144
Period size: 49 Copynumber: 3.7 Consensus size: 49
2011458 GCCGTTCTGA
* * * *
2011468 GGTACAAGG-TTCGTCGTTACGACTTAAACCTTTCTCTTCAAATCTTCGT
1 GGTAC-AGGATTCGCCGTTGCGACTTAAACCTTTCCCTTCAAATCTTTGT
* * * * * **
2011517 GGTACTGGATTCGCCGTTGTGGCTTAAATCC-TTCCCTTGATA-CTTCTAA
1 GGTACAGGATTCGCCGTTGCGACTTAAA-CCTTTCCCTTCAAATCTT-TGT
*
2011566 GGTACAAGG-TTCGTCGTTGCGACTTAAACCTTTCCCTTCAAATCTTTGT
1 GGTAC-AGGATTCGCCGTTGCGACTTAAACCTTTCCCTTCAAATCTTTGT
* *
2011615 GGTATC-GGATTCACCGTTGCTG-CTTAAATCTTTCCC
1 GGTA-CAGGATTCGCCGTTGC-GACTTAAACCTTTCCC
2011651 ATCTTATCTC
Statistics
Matches: 103, Mismatches: 22, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
48 9 0.09
49 85 0.83
50 9 0.09
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (49 bp):
GGTACAGGATTCGCCGTTGCGACTTAAACCTTTCCCTTCAAATCTTTGT
Found at i:2011640 original size:98 final size:98
Alignment explanation
Indices: 2011462--2011650 Score: 292
Period size: 98 Copynumber: 1.9 Consensus size: 98
2011452 AGATTTGCCG
* *
2011462 TTCTGAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCTCTTCAAATCTTCGTGGTACTGGAT
1 TTCTAAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGAT
*
2011527 TCGCCGTTGTGGCTTAAATCCTTCCCTTGATAC
66 TCACCGTTGTGGCTTAAATCCTTCCCTTGATAC
* *
2011560 TTCTAAGGTACAAGGTTCGTCGTTGCGACTTAAACCTTTCCCTTCAAATCTTTGTGGTA-TCGGA
1 TTCTAAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACT-GGA
*
2011624 TTCACCGTTGCT-GCTTAAATCTTTCCC
65 TTCACCGTTG-TGGCTTAAATCCTTCCC
2011651 ATCTTATCTC
Statistics
Matches: 83, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
97 1 0.01
98 81 0.98
99 1 0.01
ACGTcount: A:0.20, C:0.25, G:0.19, T:0.37
Consensus pattern (98 bp):
TTCTAAGGTACAAGGTTCGTCGTTACGACTTAAACCTTTCCCTTCAAATCTTCGTGGTACTGGAT
TCACCGTTGTGGCTTAAATCCTTCCCTTGATAC
Found at i:2012779 original size:7 final size:7
Alignment explanation
Indices: 2012759--2012837 Score: 51
Period size: 7 Copynumber: 11.7 Consensus size: 7
2012749 GACCTCTCCT
2012759 TTTC-TC
1 TTTCTTC
2012765 TTTCCTTC
1 TTT-CTTC
2012773 TTTCTTC
1 TTTCTTC
2012780 TTT-TT-
1 TTTCTTC
*
2012785 TTTTTTC
1 TTTCTTC
2012792 TTT-TTCC
1 TTTCTT-C
*
2012799 TTTTTTC
1 TTTCTTC
2012806 TTTCTT-
1 TTTCTTC
* *
2012812 GTTCTTT
1 TTTCTTC
*
2012819 TTTTTTC
1 TTTCTTC
*
2012826 TTTTTTC
1 TTTCTTC
2012833 TTTCT
1 TTTCT
2012838 CTTCTTTTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 13
0.76 0.08 0.16
Matches are distributed among these distances:
5 3 0.05
6 14 0.23
7 36 0.60
8 7 0.12
ACGTcount: A:0.00, C:0.20, G:0.01, T:0.78
Consensus pattern (7 bp):
TTTCTTC
Found at i:2012793 original size:27 final size:28
Alignment explanation
Indices: 2012758--2012862 Score: 92
Period size: 27 Copynumber: 3.8 Consensus size: 28
2012748 CGACCTCTCC
* *
2012758 TTTTCTCTTTCCTTCTTTC-TTCTTTTT
1 TTTTTTCTTTCCTTTTTTCTTTCTTTTT
*
2012785 TTTTTTCTTTTTCCTTTTTTCTTTCTTGTTC
1 TTTTTTC--TTTCCTTTTTTCTTTCTT-TTT
*
2012816 TTTTTT-TTT-CTTTTTTCTTTCTCTTCT
1 TTTTTTCTTTCCTTTTTTCTTTCT-TTTT
* *
2012843 TTTTTTATTT-ATTTTTTCTT
1 TTTTTTCTTTCCTTTTTTCTT
2012863 CATTGCATCT
Statistics
Matches: 66, Mismatches: 6, Indels: 11
0.80 0.07 0.13
Matches are distributed among these distances:
27 26 0.39
28 16 0.24
29 11 0.17
30 5 0.08
31 8 0.12
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (28 bp):
TTTTTTCTTTCCTTTTTTCTTTCTTTTT
Found at i:2012797 original size:29 final size:29
Alignment explanation
Indices: 2012758--2012863 Score: 97
Period size: 29 Copynumber: 3.5 Consensus size: 29
2012748 CGACCTCTCC
*
2012758 TTTTCTCTTTCCTTCTTTCTTCTTTTTTT
1 TTTTCTTTTTCCTTCTTTCTTCTTTTTTT
*
2012787 TTTTCTTTTTCCTTTTTTCTTTCTTGTTCTTTTT
1 TTTTCTTTTTCC----TTCTTTCTTCTT-TTTTT
* *
2012821 TTTTCTTTTTTCTT-TCTCTTCTTTTTTT
1 TTTTCTTTTTCCTTCTTTCTTCTTTTTTT
* * *
2012849 ATTTATTTTTTCTTC
1 TTTTCTTTTTCCTTC
2012864 ATTGCATCTA
Statistics
Matches: 64, Mismatches: 7, Indels: 12
0.77 0.08 0.14
Matches are distributed among these distances:
28 17 0.27
29 18 0.28
30 2 0.03
33 11 0.17
34 16 0.25
ACGTcount: A:0.02, C:0.19, G:0.01, T:0.78
Consensus pattern (29 bp):
TTTTCTTTTTCCTTCTTTCTTCTTTTTTT
Found at i:2012802 original size:41 final size:40
Alignment explanation
Indices: 2012755--2012835 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 40
2012745 CCTCGACCTC
*
2012755 TCCTTTTCTCTTTC-CTTCTTTCTTCTTTTTTTTTTTCTTTT
1 TCCTTTTCTCTTTCTCTTCTTT-TT-TTTTCTTTTTTCTTTT
* *
2012796 TCCTTTTTTCTTTCTTGTTCTTTTTTTTTCTTTTTTCTTT
1 TCCTTTTCTCTTTC-TCTTCTTTTTTTTTCTTTTTTCTTT
2012836 CTCTTCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 27 0.77
42 2 0.06
43 6 0.17
ACGTcount: A:0.00, C:0.21, G:0.01, T:0.78
Consensus pattern (40 bp):
TCCTTTTCTCTTTCTCTTCTTTTTTTTTCTTTTTTCTTTT
Found at i:2012804 original size:16 final size:16
Alignment explanation
Indices: 2012783--2012846 Score: 65
Period size: 16 Copynumber: 3.9 Consensus size: 16
2012773 TTTCTTCTTT
2012783 TTTTTTTTCTTTTTCC
1 TTTTTTTTCTTTTTCC
* *
2012799 TTTTTTCTTTCTTGTTCT
1 -TTTTT-TTTCTTTTTCC
*
2012817 TTTTTTTTCTTTTTTC
1 TTTTTTTTCTTTTTCC
* *
2012833 TTTCTCTTCTTTTT
1 TTTTTTTTCTTTTT
2012847 TTATTTATTT
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
16 20 0.51
17 10 0.26
18 9 0.23
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.81
Consensus pattern (16 bp):
TTTTTTTTCTTTTTCC
Found at i:2012820 original size:33 final size:36
Alignment explanation
Indices: 2012758--2012862 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 36
2012748 CGACCTCTCC
2012758 TTTTCTCTTTC-CTTCTTTCTTCTT-TTTTTTTTTCT
1 TTTTC-CTTTCTCTTCTTTCTTCTTCTTTTTTTTTCT
*
2012793 TTTTCCTTT-T-TTCTTTCTTGTTCTTTTTTTTTCT
1 TTTTCCTTTCTCTTCTTTCTTCTTCTTTTTTTTTCT
* *
2012827 TTTTTCTTTCTCTTCTTT-TT-TTATTTATTTTTTCT
1 TTTTCCTTTCTCTTCTTTCTTCTTCTTT-TTTTTTCT
2012862 T
1 T
2012863 CATTGCATCT
Statistics
Matches: 62, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
33 11 0.18
34 28 0.45
35 17 0.27
36 6 0.10
ACGTcount: A:0.02, C:0.18, G:0.01, T:0.79
Consensus pattern (36 bp):
TTTTCCTTTCTCTTCTTTCTTCTTCTTTTTTTTTCT
Found at i:2012842 original size:26 final size:24
Alignment explanation
Indices: 2012770--2012862 Score: 80
Period size: 24 Copynumber: 3.7 Consensus size: 24
2012760 TTCTCTTTCC
* *
2012770 TTCTTTCTTCTTTTTTTTTTTCTTT
1 TTCTTTTTTCTTTCTTTTTTT-TTT
2012795 TTCCTTTTTTCTTTCTTGTTCTTTTTTT
1 TT-CTTTTTTCTTTC-T-TT-TTTTTTT
* *
2012823 TTCTTTTTTCTTTCTCTTCTTTTT
1 TTCTTTTTTCTTTCTTTTTTTTTT
*
2012847 TTATTTATTT-TTTCTT
1 TTCTTT-TTTCTTTCTT
2012863 CATTGCATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
24 16 0.28
25 6 0.11
26 11 0.19
27 13 0.23
28 7 0.12
29 4 0.07
ACGTcount: A:0.02, C:0.16, G:0.01, T:0.81
Consensus pattern (24 bp):
TTCTTTTTTCTTTCTTTTTTTTTT
Found at i:2013702 original size:16 final size:17
Alignment explanation
Indices: 2013681--2013715 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
2013671 TGGCTTTTTC
2013681 TTCCTTTTCT-TTCTTT
1 TTCCTTTTCTCTTCTTT
*
2013697 TTCCTTTTTTCTTCTTT
1 TTCCTTTTCTCTTCTTT
2013714 TT
1 TT
2013716 ATTGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (17 bp):
TTCCTTTTCTCTTCTTT
Found at i:2013714 original size:9 final size:9
Alignment explanation
Indices: 2013674--2013715 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
2013664 TTCTTCTTGG
2013674 CTTTTTCTT
1 CTTTTTCTT
*
2013683 CCTTTTCTTT
1 CTTTTTC-TT
*
2013693 CTTTTTCCT
1 CTTTTTCTT
2013702 -TTTTTCTT
1 CTTTTTCTT
2013710 CTTTTT
1 CTTTTT
2013716 ATTGGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 7 0.26
9 12 0.44
10 8 0.30
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
CTTTTTCTT
Found at i:2017996 original size:27 final size:27
Alignment explanation
Indices: 2017964--2018048 Score: 118
Period size: 27 Copynumber: 3.1 Consensus size: 27
2017954 AATGAGACTT
2017964 TTTGGA-TACTCGGGGGCAAAATGGTAA
1 TTTGGACT-CTCGGGGGCAAAATGGTAA
*
2017991 TTTGGACTCTCGGGGGCAAAATGATAA
1 TTTGGACTCTCGGGGGCAAAATGGTAA
* *
2018018 TTTTGGACTCTTGAGGGCAAAATGGTAA
1 -TTTGGACTCTCGGGGGCAAAATGGTAA
2018046 TTT
1 TTT
2018049 TGGAAAAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
27 27 0.52
28 25 0.48
ACGTcount: A:0.28, C:0.12, G:0.29, T:0.31
Consensus pattern (27 bp):
TTTGGACTCTCGGGGGCAAAATGGTAA
Found at i:2018023 original size:28 final size:28
Alignment explanation
Indices: 2017963--2018052 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
2017953 AAATGAGACT
2017963 TTTTGGA-TACTCGGGGGCAAAATGGTAA
1 TTTTGGACT-CTCGGGGGCAAAATGGTAA
*
2017991 -TTTGGACTCTCGGGGGCAAAATGATAA
1 TTTTGGACTCTCGGGGGCAAAATGGTAA
* *
2018018 TTTTGGACTCTTGAGGGCAAAATGGTAA
1 TTTTGGACTCTCGGGGGCAAAATGGTAA
2018046 TTTTGGA
1 TTTTGGA
2018053 AAAGTTTAGG
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
27 24 0.43
28 32 0.57
ACGTcount: A:0.28, C:0.11, G:0.30, T:0.31
Consensus pattern (28 bp):
TTTTGGACTCTCGGGGGCAAAATGGTAA
Found at i:2018221 original size:58 final size:58
Alignment explanation
Indices: 2018153--2018399 Score: 241
Period size: 58 Copynumber: 4.2 Consensus size: 58
2018143 ATCCGGTGAT
* *
2018153 AAAATGGTAATTTTT-GAACGTTTCAGGTTAAAAATGGAATTTTTAGAAGTTCGAGGGTA
1 AAAAT-GTAATTTTTGGAA-GTTTCAGGGTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
* * * *
2018212 AAAATGTAATTTTTGGTAGTTTCGGGGTCAAAATTGAGATTTTTGGAAGTTC-AGGGGATA
1 AAAATGTAATTTTTGGAAGTTTCAGGGTAAAAATGGA-ATTTTTGGAAGTTCGA-GGG-TA
* ** * * * * *
2018272 AAAATATAATTTTAAGAAGTTTTAGGGTCAAAATGGAAATTTTGGAAATTTTG-GGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGGGTAAAAATGGAATTTTTGG-AAGTTCGAGGGTA
* * *
2018330 AAAATGTAATTTTTGGTAGTTT-AGGATTAAAAATGGAATTTTTGGAAGTTCAAGGGTA
1 AAAATGTAATTTTTGGAAGTTTCAGG-GTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
*
2018388 AAAATATAATTT
1 AAAATGTAATTT
2018400 ATAGATAGTT
Statistics
Matches: 153, Mismatches: 27, Indels: 17
0.78 0.14 0.09
Matches are distributed among these distances:
57 7 0.05
58 77 0.50
59 33 0.22
60 36 0.24
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.37
Consensus pattern (58 bp):
AAAATGTAATTTTTGGAAGTTTCAGGGTAAAAATGGAATTTTTGGAAGTTCGAGGGTA
Found at i:2018398 original size:29 final size:29
Alignment explanation
Indices: 2018153--2018399 Score: 173
Period size: 29 Copynumber: 8.4 Consensus size: 29
2018143 ATCCGGTGAT
*
2018153 AAAATGGTAATTTTT-GAACGTT-TCAGGTTA
1 AAAAT-GTAATTTTTGGAA-GTTCT-AGGGTA
* * *
2018183 AAAATGGAATTTTTAGAAGTTCGAGGGTA
1 AAAATGTAATTTTTGGAAGTTCTAGGGTA
* * *
2018212 AAAATGTAATTTTTGGTAGTT-TCGGGGTC
1 AAAATGTAATTTTTGGAAGTTCT-AGGGTA
2018241 AAAAT-TGAGATTTTTGGAAGTTC-AGGGGATA
1 AAAATGT-A-ATTTTTGGAAGTTCTA-GGG-TA
* ** * *
2018272 AAAATATAATTTTAAGAAGTTTTAGGGTC
1 AAAATGTAATTTTTGGAAGTTCTAGGGTA
* * * * *
2018301 AAAATGGAAATTTTGGAAATTTTGGGGTA
1 AAAATGTAATTTTTGGAAGTTCTAGGGTA
* *
2018330 AAAATGTAATTTTTGGTAGTT-TAGGATTA
1 AAAATGTAATTTTTGGAAGTTCTAGG-GTA
* *
2018359 AAAATGGAATTTTTGGAAGTTCAAGGGTA
1 AAAATGTAATTTTTGGAAGTTCTAGGGTA
*
2018388 AAAATATAATTT
1 AAAATGTAATTT
2018400 ATAGATAGTT
Statistics
Matches: 169, Mismatches: 36, Indels: 25
0.73 0.16 0.11
Matches are distributed among these distances:
28 4 0.02
29 116 0.69
30 40 0.24
31 8 0.05
32 1 0.01
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAATGTAATTTTTGGAAGTTCTAGGGTA
Found at i:2020078 original size:17 final size:17
Alignment explanation
Indices: 2020056--2020090 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2020046 TTAATTTAAT
2020056 TTTAATTTAAAAATAAA
1 TTTAATTTAAAAATAAA
* *
2020073 TTTAATTTTAAAGTAAA
1 TTTAATTTAAAAATAAA
2020090 T
1 T
2020091 CCAAACTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (17 bp):
TTTAATTTAAAAATAAA
Found at i:2020103 original size:34 final size:34
Alignment explanation
Indices: 2020065--2020131 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
2020055 TTTTAATTTA
*
2020065 AAAATAAATTT-AATTTTAAAGTAAATCCAAACTC
1 AAAATAAATTTGAA-TTTAAAATAAATCCAAACTC
* *
2020099 AAAATGAATTTGAATTTAAAATAAATTCAAACT
1 AAAATAAATTTGAATTTAAAATAAATCCAAACT
2020132 TATTTAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (34 bp):
AAAATAAATTTGAATTTAAAATAAATCCAAACTC
Found at i:2020125 original size:17 final size:16
Alignment explanation
Indices: 2020056--2020125 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 16
2020046 TTAATTTAAT
2020056 TTTAATTTAAAAATAAA
1 TTTAATTT-AAAATAAA
*
2020073 TTTAATTTTAAAGTAAA
1 TTTAA-TTTAAAATAAA
** * * *
2020090 TCCAAACTCAAAATGAA
1 T-TTAATTTAAAATAAA
2020107 TTTGAATTTAAAATAAA
1 TTT-AATTTAAAATAAA
2020124 TT
1 TT
2020126 CAAACTTATT
Statistics
Matches: 38, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
17 33 0.87
18 5 0.13
ACGTcount: A:0.51, C:0.06, G:0.04, T:0.39
Consensus pattern (16 bp):
TTTAATTTAAAATAAA
Found at i:2021041 original size:197 final size:197
Alignment explanation
Indices: 2020594--2021985 Score: 2084
Period size: 197 Copynumber: 7.0 Consensus size: 197
2020584 GGTTCACTTC
* * * * *
2020594 TTCGAAGATTTGCTCATATCGGGCGTAGGTTTGATTTGGTCTTCTTCTCAGTAGCTTATCAGGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
* *
2020659 GATGACCGCATTGCTTGTTTCAATCTGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCAC
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGG-----
* * * *
2020724 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATTTCTTATCA
126 ---TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
2020789 GGAAGCTGGG
188 GGAAGCTGGG
* *
2020799 TTCGAGGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
*
2020864 GATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* * *
2020929 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAGTAACTCATTAGGAAGCTG
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTG
2020994 GG
196 GG
* * *
2020996 CTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGTAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
* *
2021061 GATGACCGCATCGCTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGG
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* * * ** *
2021126 ATCTCATCAAGATGCTAACCATTTTATTGCTTTGACCTGCTTCGAAGTATCTCATTAGGAAGCTG
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTG
2021191 GG
196 GG
* *
2021193 TTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
*
2021258 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCAGT
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* * * * * *
2021323 ATCTCATCAGGTAGCTAACCATTTTATTACTTCGACTTGCTTCTCAATAACTCATCAGGAAACTG
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTG
2021388 GG
196 GG
* *
2021390 TTCGAAGATTTGCTCGCATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGG-
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATC-AGGA
* * *
2021454 AGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGATGAATTTGGTCCA
65 AGATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGG----
* *
2021519 CTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATATCTCATC
126 ----TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
*
2021584 AGGAAGTTGGG
187 AGGAAGCTGGG
* *
2021595 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTTATCAGGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
* * * *
2021660 GATGATCGCATCGCTTGTTTCAATCCGCTTCTCTATATCTCATCAAGAAGATGAATTTGGTCAGT
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* *
2021725 ATCTCATTAGGAAGCTAACCATTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGAAGCTG
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTG
2021790 GG
196 GG
* * *
2021792 TTCAAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
* *
2021857 GATGATCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* *
2021922 ATCTCTTCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGAAGCT
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCT
2021986 AACCATTTTA
Statistics
Matches: 1084, Mismatches: 93, Indels: 28
0.90 0.08 0.02
Matches are distributed among these distances:
197 787 0.73
198 2 0.00
204 3 0.00
205 292 0.27
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.35
Consensus pattern (197 bp):
TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTG
GG
Found at i:2021731 original size:599 final size:591
Alignment explanation
Indices: 2020594--2021978 Score: 2124
Period size: 599 Copynumber: 2.3 Consensus size: 591
2020584 GGTTCACTTC
* * * * *
2020594 TTCGAAGATTTGCTCATATCGGGCGTAGGTTTGATTTGGTCTTCTTCTCAGTAGCTTATCAGGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
* *
2020659 GATGACCGCATTGCTTGTTTCAATCTGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCCAC
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGG-----
* * *
2020724 TTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATTTCTTATCA
126 ---TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
* * *
2020789 GGAAGCTGGGTTCGAGGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATC
188 GGAAACTGGGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAATATC
*
2020854 TCATCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAA
253 TCATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAA
* *
2020919 TTTGGTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTGCTTCTCAGTAACTCAT
318 TTTGGTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTACTTCTCAATAACTCAT
* *
2020984 TAGGAAGCTGGGCTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTA
383 CAGGAAGCTGGGCTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATA
* * *
2021049 TCTCATCAGTAAGATGACCGCATCGCTTGTTTCAATCCACTTCTCTGTATCTCATCAGGAAGACG
448 TCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCACTTCTCTATATCTCATCAAGAAGACG
*
2021114 AATTTGGTCAGGATCTCATCAAGATGCTAACCATTTTATTGCTTTGACCTGCTTCGAAGTATCTC
513 AATTTGGTCAGGATCTCATCAAGAAGCTAACCATTTTATTGCTTTGACCTGCTTCGAAGTATCTC
*
2021179 ATTAGGAAGCTGGG
578 ATCAGGAAGCTGGG
* *
2021193 TTCGAAGATTTTCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
*
2021258 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAAGAAGACGAATTTGGTCAGT
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* * * *
2021323 ATCTCATCAGGTAGCTAACCATTTTATTACTTCGACTTGCTTCTCAATAACTCATCAGGAAACTG
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAACTG
* *
2021388 GGTTCGAAGATTTGCTCGCATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAAG
196 GGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAATATCTCATC-AG
*
2021453 G-AGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGATGAATTTGGTC
260 GAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGG--
* *
2021517 CACTTCTCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTACTTCTCAATATCTCA
323 ------TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTACTTCTCAATAACTCA
* * *
2021582 TCAGGAAGTTGGGTTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAAT
382 TCAGGAAGCTGGGCTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAAT
* * * *
2021647 ATCTTATCAGGAAGATGATCGCATCGCTTGTTTCAATCCGCTTCTCTATATCTCATCAAGAAGAT
447 ATCTCATCAGGAAGATGACCGCATCGCTTGTTTCAATCCACTTCTCTATATCTCATCAAGAAGAC
* * * **
2021712 GAATTTGGTCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTTGACCTGCTTCTCAGTATCT
512 GAATTTGGTCAGGATCTCATCAAGAAGCTAACCATTTTATTGCTTTGACCTGCTTCGAAGTATCT
2021777 CATCAGGAAGCTGGG
577 CATCAGGAAGCTGGG
* * *
2021792 TTCAAAGATTTGCTCACATCAAGCGTGAGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
1 TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
* *
2021857 GATGATCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
66 GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
* *
2021922 ATCTCTTCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCA
131 ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCA
2021979 AGAAGCTAAC
Statistics
Matches: 716, Mismatches: 61, Indels: 18
0.90 0.08 0.02
Matches are distributed among these distances:
591 179 0.25
592 3 0.00
599 534 0.75
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (591 bp):
TTCGAAGATTTGCTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAGTATCTCATCAGGAA
GATGACCGCATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCAGT
ATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAACTG
GGTTCGAAGATTTGCTCACATCGAGCATGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCAGG
AAGATGACCACATCACTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAATTTGGTCA
GTATCTCATCAGGAAGCTAACCATTTTATTGCTTCAACCTACTTCTCAATAACTCATCAGGAAGC
TGGGCTCGAAGATTTACTCACATCGAGCGTGGGTTTGATTTGGTCTTCTTCTCAATATCTCATCA
GGAAGATGACCGCATCGCTTGTTTCAATCCACTTCTCTATATCTCATCAAGAAGACGAATTTGGT
CAGGATCTCATCAAGAAGCTAACCATTTTATTGCTTTGACCTGCTTCGAAGTATCTCATCAGGAA
GCTGGG
Found at i:2021988 original size:48 final size:48
Alignment explanation
Indices: 2021917--2022033 Score: 216
Period size: 48 Copynumber: 2.4 Consensus size: 48
2021907 ACGAATTTGG
* *
2021917 TCAGTATCTCTTCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
1 TCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
2021965 TCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
1 TCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
2022013 TCAGTATCTCATCAAGAAGCT
1 TCAGTATCTCATCAAGAAGCT
2022034 GAGTTTGAAG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 67 1.00
ACGTcount: A:0.25, C:0.26, G:0.14, T:0.35
Consensus pattern (48 bp):
TCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
Found at i:2021999 original size:245 final size:247
Alignment explanation
Indices: 2021720--2022239 Score: 803
Period size: 245 Copynumber: 2.1 Consensus size: 247
2021710 ATGAATTTGG
* * *
2021720 TCAGTATCTCATTAGGAAGCTAACCATTTTATTGCTTTGACCTGCTTCTCAGTATCTCATCAGGA
1 TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGA
*
2021785 AGCTGGGTTCAAAGATTTGCTCACATCAAGCGT-GAGTTTGATTTGGTCTTCTTCTCAGTATCTC
66 AGCTGAGTTCAAAGATTTGCTCACATCAAGCGTAG-GTTTGATTTGGTCTTCTTCTCAGTATCTC
* * * *
2021849 ATCAGGAAGATGATCACATCGCTTGTTTCAATCCGCTTCTCTGTATCTCATCAGGAAGACGAA-T
130 ATCAGGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAAGAAGACGAATT
* * *
2021913 TTG-GTCAGTATCTCTTCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTC
195 TTGCCTCAGTATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTC
*
2021965 TCAGTATCTCATCAAGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGA
1 TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGA
** * *
2022030 AGCTGAGTTTGAAGATTTGCTCACATCGAGCGTAGGTTTGATTTGGTCTTCTTCTCAGTATCTTA
66 AGCTGAGTTCAAAGATTTGCTCACATCAAGCGTAGGTTTGATTTGGTCTTCTTCTCAGTATCTCA
*
2022095 TCAGGAAGATGACCGCATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAAGAAGACGAATTT
131 TCAGGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAAGAAGACGAATTT
2022160 TGTCCACTTCTCAGTATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTC
196 TG----C--CTCAGTATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTC
2022218 TCAGTATCTCATCAGGAAGCTA
1 TCAGTATCTCATCAGGAAGCTA
2022240 GGGGTTCGAA
Statistics
Matches: 248, Mismatches: 18, Indels: 10
0.90 0.07 0.04
Matches are distributed among these distances:
245 176 0.71
246 5 0.02
253 67 0.27
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.35
Consensus pattern (247 bp):
TCAGTATCTCATCAGGAAGCTAACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATCAAGA
AGCTGAGTTCAAAGATTTGCTCACATCAAGCGTAGGTTTGATTTGGTCTTCTTCTCAGTATCTCA
TCAGGAAGATGACCACATCACTTGTTTCAATCCGCTTCTCTATATCTCATCAAGAAGACGAATTT
TGCCTCAGTATCTCATCAGAAAGCTAACCATTTTATTGCTTCGACCTGCTTC
Found at i:2022902 original size:100 final size:100
Alignment explanation
Indices: 2022796--2023011 Score: 245
Period size: 100 Copynumber: 2.2 Consensus size: 100
2022786 GTTACGGCCA
** * * *
2022796 TAGATCTTTCCCGTCGTGTCTCTGAGGTACAAGGTTTGCTGTTGCGA-CTTAAACCCCTCCCTTT
1 TAGATCTTTCCCGTCGTGTCTCTGAGGTACAAGGTTCACCGTTGCAATCGT-AACCCCTCCCTTT
*
2022860 TGTATCTTTGCAGTACTGAATCCGTCGTTGCGATCT
65 TGTATCTTTGCAGTACTGAATCCGCCGTTGCGATCT
** ** * * **
2022896 TAGATCTTTCCAATTATGTCTCTGAGGTATAAGGTTCACCGTTGCAATCGTCACCTTTCCCTTTT
1 TAGATCTTTCCCGTCGTGTCTCTGAGGTACAAGGTTCACCGTTGCAATCGTAACCCCTCCCTTTT
* * * *
2022961 GTATCTTTGCGGTATTGGATCTGCCGTTGCGATCT
66 GTATCTTTGCAGTACTGAATCCGCCGTTGCGATCT
*
2022996 TAGATCTTTCTCGTCG
1 TAGATCTTTCCCGTCG
2023012 AGTTTCATGG
Statistics
Matches: 92, Mismatches: 23, Indels: 2
0.79 0.20 0.02
Matches are distributed among these distances:
100 90 0.98
101 2 0.02
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.39
Consensus pattern (100 bp):
TAGATCTTTCCCGTCGTGTCTCTGAGGTACAAGGTTCACCGTTGCAATCGTAACCCCTCCCTTTT
GTATCTTTGCAGTACTGAATCCGCCGTTGCGATCT
Found at i:2024173 original size:6 final size:6
Alignment explanation
Indices: 2024164--2024240 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
2024154 CGACCTCTCC
* * *
2024164 TTTTCT TTTTCT TTTTCTT TTTTCT CTTTTTT TTTTGTT TTTTCT TTCTCT
1 TTTTCT TTTTCT TTTTC-T TTTTCT -TTTTCT TTTT-CT TTTTCT TTTTCT
** *
2024215 TTTTCT TTCCCT TTTTCT TTTCCT TT
1 TTTTCT TTTTCT TTTTCT TTTTCT TT
2024241 ATTCATTGAA
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
6 42 0.71
7 17 0.29
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:2029700 original size:29 final size:29
Alignment explanation
Indices: 2029638--2029877 Score: 122
Period size: 29 Copynumber: 8.2 Consensus size: 29
2029628 ATCCGGGGAT
*
2029638 AAAATGACAATTTTTAAAAGTTTC-GGGTCAA
1 AAAATGA-AATTTTTAGAAGTTTCAGGGT--A
2029669 AAAATGAAATTTTTAGAAG-TTCGAGGGTA
1 AAAATGAAATTTTTAGAAGTTTC-AGGGTA
* *
2029698 AAAATGTAA-TTTTCGATAGTTTC-GAGGT-
1 AAAATGAAATTTTTAGA-AGTTTCAG-GGTA
* * * * *
2029726 CAATTGAGATTTTT-GGAGGTTCAGGGGTA
1 AAAATGAAATTTTTAGAAGTTTCA-GGGTA
* * *
2029755 AAAATGTAATTTTAAGAAGTTT-TGGAGTTA
1 AAAATGAAATTTTTAGAAGTTTCAGG-G-TA
* * *
2029785 AAAATGGAATTTTTGGAAATTT-AGGGGTA
1 AAAATGAAATTTTTAGAAGTTTCA-GGGTA
* * *
2029814 AAAATGTAATTTTT-GATAGTTTCATTGTTA
1 AAAATGAAATTTTTAGA-AGTTTCA-GGGTA
* *
2029844 AAAATGGAATTTTTGGAAG-TTCAGGGATA
1 AAAATGAAATTTTTAGAAGTTTCAGGG-TA
2029873 AAAAT
1 AAAAT
2029878 ATAATTTCTA
Statistics
Matches: 162, Mismatches: 30, Indels: 36
0.71 0.13 0.16
Matches are distributed among these distances:
27 5 0.03
28 21 0.13
29 62 0.38
30 59 0.36
31 15 0.09
ACGTcount: A:0.37, C:0.04, G:0.23, T:0.36
Consensus pattern (29 bp):
AAAATGAAATTTTTAGAAGTTTCAGGGTA
Found at i:2029709 original size:59 final size:58
Alignment explanation
Indices: 2029646--2029895 Score: 220
Period size: 59 Copynumber: 4.3 Consensus size: 58
2029636 ATAAAATGAC
* *
2029646 AATTTTTAAAAGTTTCGGGTCAAAAAATGAAATTTTTAGAAGTTC-GAGGGTAAAAATGT
1 AATTTTTAAAAGTTTCGGGT-TAAAAATGAAATTTTTGGAAGTTCAG-GGGTAAAAATGT
** * * * * *
2029705 AATTTTCGATAGTTTCGAGG-T-CAATTGAGATTTTTGGAGGTTCAGGGGTAAAAATGT
1 AATTTTTAAAAGTTTCG-GGTTAAAAATGAAATTTTTGGAAGTTCAGGGGTAAAAATGT
* * * *
2029762 AA-TTTTAAGAAGTTTTGGAGTTAAAAATGGAATTTTTGGAAATTTAGGGGTAAAAATGT
1 AATTTTTAA-AAGTTTCGG-GTTAAAAATGAAATTTTTGGAAGTTCAGGGGTAAAAATGT
* * ** * * *
2029821 AATTTTTGATAGTTTCATTGTTAAAAATGGAATTTTTGGAAGTTCAGGGATAAAAATAT
1 AATTTTTAAAAGTTTC-GGGTTAAAAATGAAATTTTTGGAAGTTCAGGGGTAAAAATGT
*
2029880 AATTTCTAAACAGTTT
1 AATTTTTAAA-AGTTT
2029896 AGGGACCTCC
Statistics
Matches: 150, Mismatches: 32, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
56 5 0.03
57 38 0.25
58 2 0.01
59 93 0.62
60 12 0.08
ACGTcount: A:0.36, C:0.04, G:0.22, T:0.38
Consensus pattern (58 bp):
AATTTTTAAAAGTTTCGGGTTAAAAATGAAATTTTTGGAAGTTCAGGGGTAAAAATGT
Found at i:2029789 original size:30 final size:29
Alignment explanation
Indices: 2029748--2029826 Score: 95
Period size: 30 Copynumber: 2.7 Consensus size: 29
2029738 TTGGAGGTTC
*
2029748 AGGGGTAAAAATGTAATTTTAAGAAGTTT
1 AGGGGTAAAAATGTAATTTTAAGAAATTT
* * * **
2029777 TGGAGTTAAAAATGGAATTTTTGGAAATTT
1 AGG-GGTAAAAATGTAATTTTAAGAAATTT
2029807 AGGGGTAAAAATGTAATTTT
1 AGGGGTAAAAATGTAATTTT
2029827 TGATAGTTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
29 17 0.43
30 23 0.57
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (29 bp):
AGGGGTAAAAATGTAATTTTAAGAAATTT
Found at i:2029883 original size:29 final size:29
Alignment explanation
Indices: 2029668--2029884 Score: 140
Period size: 29 Copynumber: 7.4 Consensus size: 29
2029658 TTTCGGGTCA
* *
2029668 AAAAATGAAATTTTTAGAAGTTC-GAGGGT
1 AAAAATGTAATTTTTGGAAGTTCAG-GGGT
* *
2029697 AAAAATGTAA-TTTTCGATAGTTTC-GAGGT
1 AAAAATGTAATTTTTGGA-AG-TTCAGGGGT
* * *
2029726 -CAATTG-AGATTTTTGGAGGTTCAGGGGT
1 AAAAATGTA-ATTTTTGGAAGTTCAGGGGT
** ** *
2029754 AAAAATGTAATTTTAAGAAGTTTTGGAGTT
1 AAAAATGTAATTTTTGGAAGTTCAGG-GGT
* * *
2029784 AAAAATGGAATTTTTGGAAATTTAGGGGT
1 AAAAATGTAATTTTTGGAAGTTCAGGGGT
** *
2029813 AAAAATGTAATTTTT-GATAGTTTCATTGTT
1 AAAAATGTAATTTTTGGA-AG-TTCAGGGGT
* *
2029843 AAAAATGGAATTTTTGGAAGTTCAGGGAT
1 AAAAATGTAATTTTTGGAAGTTCAGGGGT
*
2029872 AAAAATATAATTT
1 AAAAATGTAATTT
2029885 CTAAACAGTT
Statistics
Matches: 143, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
27 4 0.03
28 18 0.13
29 70 0.49
30 49 0.34
31 2 0.01
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (29 bp):
AAAAATGTAATTTTTGGAAGTTCAGGGGT
Found at i:2032441 original size:97 final size:97
Alignment explanation
Indices: 2032271--2032459 Score: 247
Period size: 97 Copynumber: 1.9 Consensus size: 97
2032261 CTTTTAAAGA
* * * * *
2032271 TATTCGATTATCTCGATTTGAAGAAAAGTCGCACCAAGTAAGTTAAGGCACAAATTTTCAGAATC
1 TATTCGATTATCTCAATTTGAACAAAAATCGCACCAAGTAAGTTAAAGCACAAATTTTCAAAATC
*
2032336 AGAGATAAAGAAATATTG-CTTCGATTTAAGGG
66 AGAAATAAAGAAATATTGTCTT-GATTTAAGGG
* * * *
2032368 TATTCGATTATTTCAATTTGAACAAAAATCGCGCCTAGTGAGTTAAAGCACAAATTTTCAAAACT
1 TATTCGATTATCTCAATTTGAACAAAAATCGCACCAAGTAAGTTAAAGCACAAATTTTCAAAA-T
*
2032433 C-GAAATAAAGGAATATTGTCTTGATTT
65 CAGAAATAAAGAAATATTGTCTTGATTT
2032460 CAAATGTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
97 74 0.94
98 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (97 bp):
TATTCGATTATCTCAATTTGAACAAAAATCGCACCAAGTAAGTTAAAGCACAAATTTTCAAAATC
AGAAATAAAGAAATATTGTCTTGATTTAAGGG
Found at i:2032786 original size:58 final size:58
Alignment explanation
Indices: 2032687--2032913 Score: 207
Period size: 58 Copynumber: 4.0 Consensus size: 58
2032677 TTTGGATACT
* * * * *
2032687 TCGAGGGCAAAACGGTAATTTTT-GAATATT-GGGGGC-AAAATGTAATTTTTGGACA
1 TCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTCAAAAATGTAATTTTTGGACA
* ** ***
2032742 CTCGGGGGTAAGGT-GTAATTTTTGGAAAATTCAGGGTCAAAAATGTAATTTTCAAACA
1 -TCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTCAAAAATGTAATTTTTGGACA
* * *
2032800 TCCAAGGGTAAAATGGTAA-TTTTGGAAAGTTCAAGGTCAAAAATGGT-ATTTTTGGACA
1 T-CGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTCAAAAAT-GTAATTTTTGGACA
** * *
2032858 TTCGAGGGTAAAATGGTAATTTTTGGAAGTTTAAGGG-CCAAAATGTAATTTTTGGA
1 -TCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTCAAAAATGTAATTTTTGGA
2032914 AAGTTTGAGG
Statistics
Matches: 136, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
55 9 0.07
56 14 0.10
57 7 0.05
58 86 0.63
59 20 0.15
ACGTcount: A:0.34, C:0.08, G:0.26, T:0.32
Consensus pattern (58 bp):
TCGAGGGTAAAATGGTAATTTTTGGAAAATTCAGGGTCAAAAATGTAATTTTTGGACA
Found at i:2032834 original size:29 final size:30
Alignment explanation
Indices: 2032756--2032918 Score: 130
Period size: 29 Copynumber: 5.6 Consensus size: 30
2032746 GGGGTAAGGT
*
2032756 GTAATTTTTGGAAAATTC-AGGGTCAAAAAT-
1 GTAATTTTTGGAAAGTTCAAGGGT--AAAATG
* * *
2032786 GTAA-TTTT-CAAACATCCAAGGGTAAAATG
1 GTAATTTTTGGAAA-GTTCAAGGGTAAAATG
2032815 GTAA-TTTTGGAAAGTTCAA-GGTCAAAAATG
1 GTAATTTTTGGAAAGTTCAAGGGT--AAAATG
* *
2032845 GT-ATTTTTGGACA-TTCGAGGGTAAAATG
1 GTAATTTTTGGAAAGTTCAAGGGTAAAATG
* *
2032873 GTAATTTTTGG-AAGTTTAAGGGCCAAAAT-
1 GTAATTTTTGGAAAGTTCAAGGG-TAAAATG
2032902 GTAATTTTTGGAAAGTT
1 GTAATTTTTGGAAAGTT
2032919 TGAGGGTCAA
Statistics
Matches: 110, Mismatches: 11, Indels: 24
0.76 0.08 0.17
Matches are distributed among these distances:
28 20 0.18
29 49 0.45
30 41 0.37
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (30 bp):
GTAATTTTTGGAAAGTTCAAGGGTAAAATG
Found at i:2032880 original size:28 final size:28
Alignment explanation
Indices: 2032676--2032880 Score: 98
Period size: 28 Copynumber: 7.1 Consensus size: 28
2032666 AAATTCAATT
* * *
2032676 TTTTGGATACTTCGAGGGCAAAACGGTAA
1 TTTTGGACA-TTCGAGGGTAAAATGGTAA
* * * *
2032705 TTTTTGA-ATATTGGGGGCAAAAT-GTAA
1 TTTTGGACAT-TCGAGGGTAAAATGGTAA
* * **
2032732 TTTTTGGACACTCGGGGGTAAGGT-GTAA
1 -TTTTGGACATTCGAGGGTAAAATGGTAA
*
2032760 TTTTTGGAAAATTC-AGGGTCAAAAAT-GTAA
1 -TTTTGG-ACATTCGAGGGT--AAAATGGTAA
** * *
2032790 TTTTCAAACATCCAAGGGTAAAATGGTAA
1 TTTT-GGACATTCGAGGGTAAAATGGTAA
* * *
2032819 TTTTGGAAAGTTC-AAGGTCAAAAATGGTAT
1 TTTTGGACA-TTCGAGGGT--AAAATGGTAA
2032849 TTTTGGACATTCGAGGGTAAAATGGTAA
1 TTTTGGACATTCGAGGGTAAAATGGTAA
2032877 TTTT
1 TTTT
2032881 TGGAAGTTTA
Statistics
Matches: 135, Mismatches: 28, Indels: 27
0.71 0.15 0.14
Matches are distributed among these distances:
27 5 0.04
28 65 0.48
29 32 0.24
30 33 0.24
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (28 bp):
TTTTGGACATTCGAGGGTAAAATGGTAA
Found at i:2032930 original size:29 final size:30
Alignment explanation
Indices: 2032804--2032930 Score: 113
Period size: 30 Copynumber: 4.3 Consensus size: 30
2032794 CAAACATCCA
* *
2032804 AGGGTAAAATGGTAA-TTTTGGAAAG-TTC
1 AGGGTCAAATGGTAATTTTTGGAAAGTTTG
* * *
2032832 AAGGTCAAAAATGGT-ATTTTTGGACA-TTCG
1 AGGGTC--AAATGGTAATTTTTGGAAAGTTTG
* *
2032862 AGGGTAAAATGGTAATTTTTGG-AAGTTTA
1 AGGGTCAAATGGTAATTTTTGGAAAGTTTG
*
2032891 AGGGCCAAAAT-GTAATTTTTGGAAAGTTTG
1 AGGGTC-AAATGGTAATTTTTGGAAAGTTTG
2032921 AGGGTCAAAT
1 AGGGTCAAAT
2032931 ATGATTTCTA
Statistics
Matches: 77, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
28 12 0.16
29 30 0.39
30 35 0.45
ACGTcount: A:0.35, C:0.06, G:0.27, T:0.33
Consensus pattern (30 bp):
AGGGTCAAATGGTAATTTTTGGAAAGTTTG
Found at i:2032937 original size:29 final size:30
Alignment explanation
Indices: 2032819--2032937 Score: 90
Period size: 29 Copynumber: 4.1 Consensus size: 30
2032809 AAAATGGTAA
* * *
2032819 TTTTGGAAAG-TTCAAGGTCAAAAATGGTAT
1 TTTTGGAAAGTTTGAGGGTCAAATAT-GTAT
* *
2032849 TTTTGGACA-TTCGAGGGT-AAA-ATGGTAAT
1 TTTTGGAAAGTTTGAGGGTCAAATAT-GT-AT
* *
2032878 TTTTGG-AAGTTTAAGGGCCAAA-ATGTAAT
1 TTTTGGAAAGTTTGAGGGTCAAATATGT-AT
2032907 TTTTGGAAAGTTTGAGGGTCAAATATG-AT
1 TTTTGGAAAGTTTGAGGGTCAAATATGTAT
2032936 TT
1 TT
2032938 CTAGATAGTT
Statistics
Matches: 73, Mismatches: 10, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
28 6 0.08
29 32 0.44
30 32 0.44
31 3 0.04
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (30 bp):
TTTTGGAAAGTTTGAGGGTCAAATATGTAT
Found at i:2034791 original size:17 final size:17
Alignment explanation
Indices: 2034770--2034879 Score: 98
Period size: 17 Copynumber: 6.4 Consensus size: 17
2034760 TTATTTATTT
2034770 ATTTAAATTTATTATAA
1 ATTTAAATTTATTATAA
* *
2034787 TTTTAAATTTAAATATAA
1 ATTTAAATTT-ATTATAA
*
2034805 ATTTAAACTTAATT-TAA
1 ATTTAAA-TTTATTATAA
** *
2034822 ATTTAAATTTAAAACAA
1 ATTTAAATTTATTATAA
**
2034839 ATTTAAATTTAAAATAA
1 ATTTAAATTTATTATAA
*
2034856 ATTT-AATCTTATAATAA
1 ATTTAAAT-TTATTATAA
2034873 ATTTAAA
1 ATTTAAA
2034880 ATGGGTTTAA
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
16 6 0.08
17 53 0.69
18 16 0.21
19 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTTAAATTTATTATAA
Found at i:2034797 original size:6 final size:6
Alignment explanation
Indices: 2034770--2034861 Score: 86
Period size: 6 Copynumber: 16.0 Consensus size: 6
2034760 TTATTTATTT
* * *
2034770 ATTTAA ATTT-- ATTATAA TTTTAA ATTTAA ATATAA ATTTAA ACTT-A
1 ATTTAA ATTTAA ATT-TAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
** *
2034816 ATTTAA ATTTAA ATTTAA A-ACAA ATTTAA ATTTAA A-ATAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
2034862 TCTTATAATA
Statistics
Matches: 68, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
4 3 0.04
5 12 0.18
6 51 0.75
7 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (6 bp):
ATTTAA
Found at i:2034805 original size:29 final size:28
Alignment explanation
Indices: 2034788--2034879 Score: 79
Period size: 28 Copynumber: 3.4 Consensus size: 28
2034778 TTATTATAAT
2034788 TTTAAATTTAAATATAAATTTAAACTTAA
1 TTTAAATTTAAATATAAATTTAAAC-TAA
* *
2034817 TTTAAATTT-AA-AT---TTAAAACAAA
1 TTTAAATTTAAATATAAATTTAAACTAA
* *
2034840 TTTAAATTTAAA-ATAAATTTAATCTTA
1 TTTAAATTTAAATATAAATTTAAACTAA
*
2034867 TAATAAATTTAAA
1 T-TTAAATTTAAA
2034880 ATGGGTTTAA
Statistics
Matches: 51, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
23 11 0.22
24 10 0.20
27 9 0.18
28 12 0.24
29 9 0.18
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTAAATTTAAATATAAATTTAAACTAA
Found at i:2034818 original size:23 final size:23
Alignment explanation
Indices: 2034792--2034879 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
2034782 TATAATTTTA
2034792 AATTTAAATATAAATTTAAACTT
1 AATTTAAATATAAATTTAAACTT
* *
2034815 AATTTAAATTTAAATTTAAAAC-A
1 AATTTAAATATAAATTT-AAACTT
* * *
2034838 AATTTAAATTTAAA-ATAAATTT
1 AATTTAAATATAAATTTAAACTT
*
2034860 AATCTTATA-ATAAATTTAAA
1 AAT-TTAAATATAAATTTAAA
2034880 ATGGGTTTAA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
21 3 0.06
22 8 0.15
23 38 0.72
24 4 0.08
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (23 bp):
AATTTAAATATAAATTTAAACTT
Found at i:2036229 original size:11 final size:11
Alignment explanation
Indices: 2036213--2036268 Score: 67
Period size: 11 Copynumber: 5.0 Consensus size: 11
2036203 TACTTTGAAA
*
2036213 TTAAATTTATT
1 TTAAATTTAAT
*
2036224 TTAAATTCAAT
1 TTAAATTTAAT
*
2036235 TTTAATTTAAAT
1 TTAAATTT-AAT
*
2036247 TTGAATTTAAT
1 TTAAATTTAAT
2036258 TTAAATTTAAT
1 TTAAATTTAAT
2036269 ATTATTATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:2036238 original size:17 final size:16
Alignment explanation
Indices: 2036200--2036281 Score: 58
Period size: 17 Copynumber: 4.9 Consensus size: 16
2036190 CCCAAACCAT
*
2036200 TTTTACTTTGAAATTAA
1 TTTTA-TTTTAAATTAA
*
2036217 ATTTATTTTAAATTCAA
1 TTTTATTTTAAATT-AA
*
2036234 TTTTAATTTAAATTTGAA
1 TTTTATTTTAAA-TT-AA
*
2036252 -TTTAATTTAAATTTAA
1 TTTTATTTTAAA-TTAA
* *
2036268 TATTATTATAAATT
1 TTTTATTTTAAATT
2036282 TAAAAAGAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
16 12 0.22
17 38 0.70
18 4 0.07
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (16 bp):
TTTTATTTTAAATTAA
Found at i:2036280 original size:34 final size:34
Alignment explanation
Indices: 2036216--2036282 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
2036206 TTTGAAATTA
* *
2036216 AATTTATTTTAAATTCAATTTTAATTTAAATTTG
1 AATTTAATTTAAATTCAATATTAATTTAAATTTG
*
2036250 AATTTAATTTAAATTTAATATT-ATTATAAATTT
1 AATTTAATTTAAATTCAATATTAATT-TAAATTT
2036283 AAAAAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 3 0.10
34 26 0.90
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (34 bp):
AATTTAATTTAAATTCAATATTAATTTAAATTTG
Found at i:2036282 original size:17 final size:16
Alignment explanation
Indices: 2036210--2036284 Score: 80
Period size: 17 Copynumber: 4.5 Consensus size: 16
2036200 TTTTACTTTG
* *
2036210 AAATTAAATTTATTTT
1 AAATTTAATTTAATTT
*
2036226 AAATTCAATTTTAATTT
1 AAATTTAA-TTTAATTT
2036243 AAATTTGAATTTAATTT
1 AAATTT-AATTTAATTT
2036260 AAATTTAATATT-ATTAT
1 AAATTTAAT-TTAATT-T
2036277 AAATTTAA
1 AAATTTAA
2036285 AAAGAAAAGT
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
16 13 0.25
17 37 0.71
18 2 0.04
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (16 bp):
AAATTTAATTTAATTT
Found at i:2036285 original size:6 final size:6
Alignment explanation
Indices: 2036213--2036267 Score: 53
Period size: 6 Copynumber: 9.7 Consensus size: 6
2036203 TACTTTGAAA
* * * *
2036213 TTAAAT TT-ATT TTAAA- TTCAAT TTTAAT TTAAAT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
2036258 TTAAAT TTAA
1 TTAAAT TTAA
2036268 TATTATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
5 13 0.32
6 27 0.68
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:2038327 original size:59 final size:59
Alignment explanation
Indices: 2038252--2038571 Score: 308
Period size: 59 Copynumber: 5.4 Consensus size: 59
2038242 GGGATTCCTT
* * * *
2038252 AAACTATCCAAAAATTACATTTTGACCTCGAAACTTTTCTAAAATTACA-TTTTAACCCTG
1 AAACT-TCCAAAAATTACATTTTGACCTCGAAAC-TTCCAAAAATTACATTTTTGACCCTA
* * * *
2038312 AAACTTCTAAAAATTACATTTTTGCCCTCG-AACTTCCAAAAATTTCA-TTTTGA-CCTT
1 AAACTTCCAAAAATTACA-TTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTA
* * * * *
2038369 GAACTTCCAAAAATTCCATTTTGACCTCAAAACTTCCAAAAATTTCATTTTTGACCCCA
1 AAACTTCCAAAAATTACATTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTA
** * * * *
2038428 AAACTTTTAAAAATTACATTTTTACCCCTAAACTTCTAAAAATTACATTTTTGACCCTA
1 AAACTTCCAAAAATTACATTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTA
* * ** * * * *
2038487 AAACTTCCAAAAAATGCATTTTTCCCCCTAAACTTCCAAAAATTCCATTTTTGA-CCTC
1 AAACTTCCAAAAATTACATTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTA
* *
2038545 GAACTTCCAAAAATTCCATTTTTGACC
1 AAACTTCCAAAAATTACA-TTTTGACC
2038572 CTGAGACTCC
Statistics
Matches: 218, Mismatches: 37, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
56 9 0.04
57 35 0.16
58 40 0.18
59 119 0.55
60 15 0.07
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.35
Consensus pattern (59 bp):
AAACTTCCAAAAATTACATTTTGACCTCGAAACTTCCAAAAATTACATTTTTGACCCTA
Found at i:2038339 original size:29 final size:29
Alignment explanation
Indices: 2038252--2038575 Score: 259
Period size: 29 Copynumber: 11.0 Consensus size: 29
2038242 GGGATTCCTT
*
2038252 AAACTATCCAAAAATTACA-TTTTGACCTCG
1 AAACT-TCCAAAAATTACATTTTTGCCCT-G
* * **
2038282 AAACTTTTCTAAAATTACATTTTAACCCTG
1 AAAC-TTCCAAAAATTACATTTTTGCCCTG
*
2038312 AAACTTCTAAAAATTACATTTTTGCCCTCG
1 AAACTTCCAAAAATTACATTTTTGCCCT-G
* *
2038342 -AACTTCCAAAAATTTCA-TTTTGACCTTG
1 AAACTTCCAAAAATTACATTTTTG-CCCTG
* * *
2038370 -AACTTCCAAAAATTCCA-TTTTGACCTCA
1 AAACTTCCAAAAATTACATTTTTGCCCT-G
* **
2038398 AAACTTCCAAAAATTTCATTTTTGACCCCA
1 AAACTTCCAAAAATTACATTTTTG-CCCTG
** *
2038428 AAACTTTTAAAAATTACATTTTTACCCCT-
1 AAACTTCCAAAAATTACATTTTT-GCCCTG
* *
2038457 AAACTTCTAAAAATTACATTTTTGACCCTA
1 AAACTTCCAAAAATTACATTTTTG-CCCTG
* * *
2038487 AAACTTCCAAAAAATGCATTTTTCCCCCT-
1 AAACTTCCAAAAATTACATTTTT-GCCCTG
* *
2038516 AAACTTCCAAAAATTCCATTTTTGACCTCG
1 AAACTTCCAAAAATTACATTTTTGCCCT-G
*
2038546 -AACTTCCAAAAATTCCATTTTTGACCCTG
1 AAACTTCCAAAAATTACATTTTTG-CCCTG
2038575 A
1 A
2038576 GACTCCCGAA
Statistics
Matches: 242, Mismatches: 36, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.01
28 30 0.12
29 124 0.51
30 77 0.32
31 9 0.04
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTGCCCTG
Found at i:2038616 original size:29 final size:31
Alignment explanation
Indices: 2038320--2038655 Score: 101
Period size: 29 Copynumber: 11.5 Consensus size: 31
2038310 TGAAACTTCT
2038320 AAAAATTA-CATTTTTG-CCCTCGAACT-TCC
1 AAAAATTACCATTTTTGACCCTCGAA-TGTCC
* *
2038349 AAAAATT-TCA-TTTTGA-CCTTGAACT-TCC
1 AAAAATTACCATTTTTGACCCTCGAA-TGTCC
*
2038377 AAAAATT-CCA-TTTTGA-CCTCAAAACT-TCC
1 AAAAATTACCATTTTTGACCCTC-GAA-TGTCC
* * **
2038406 AAAAATT-TCATTTTTGACCC-CAAAACT-TTT
1 AAAAATTACCATTTTTGACCCTC-GAA-TGTCC
* *
2038436 AAAAATTA-CATTTTT-ACCC-CTAAACT-TCT
1 AAAAATTACCATTTTTGACCCTC-GAA-TGTCC
**
2038465 AAAAATTA-CATTTTTGACCCTAAAACT-TCC
1 AAAAATTACCATTTTTGACCCTCGAA-TGTCC
* * ** *
2038495 AAAAAAT-GCATTTTTCCCCCT-AAACT-TCC
1 AAAAATTACCATTTTTGACCCTCGAA-TGTCC
2038524 AAAAATT-CCATTTTTGA-CCTCGAACT-TCC
1 AAAAATTACCATTTTTGACCCTCGAA-TGTCC
*
2038553 AAAAATT-CCATTTTTGACCCT-GAGA-CTCC
1 AAAAATTACCATTTTTGACCCTCGA-ATGTCC
**
2038582 CGAAATTACCA-TTTT-ACCCTCGAATGTCC
1 AAAAATTACCATTTTTGACCCTCGAATGTCC
* * *
2038611 AAAAA-T-CTCATTTTTGATCC-CGATTTTTCC
1 AAAAATTAC-CATTTTTGACCCTCGA-ATGTCC
*
2038641 AAAAATTACCGTTTT
1 AAAAATTACCATTTT
2038656 ACCATTAAGT
Statistics
Matches: 257, Mismatches: 28, Indels: 42
0.79 0.09 0.13
Matches are distributed among these distances:
27 1 0.00
28 46 0.18
29 126 0.49
30 75 0.29
31 8 0.03
32 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.06, T:0.35
Consensus pattern (31 bp):
AAAAATTACCATTTTTGACCCTCGAATGTCC
Found at i:2038704 original size:146 final size:145
Alignment explanation
Indices: 2038549--2038893 Score: 369
Period size: 146 Copynumber: 2.4 Consensus size: 145
2038539 GACCTCGAAC
* * * *
2038549 TTCCAAAAATT-CCATTTTTGACCCTGAGACTCCCGAAATTACCATTTTACCCTCGAATG-TCCA
1 TTCCCAAAATTACCA-TTTTGACCCTGAGAGT-CCAAAATTACCATTTTACCCTCCAA-GATCCA
* * ** * * *
2038612 AAAATCTCATTTTTGATCCCGA-TTTTTCCAAAAATTACC-GTTTTACCATTAAGTGTCTAAAAT
63 AAAACCCCATTTTTGATCCCGATTTTTTAAAAAAATTACCAGTTGT-CC-TAAAATGTCTAAAAT
2038675 GACATTTTTAACCCCAAATT
126 GACATTTTTAACCCCAAATT
*
2038695 TTCCCAAAATTACCATTTT-ACCCTCGAGAGTCTAAAATTACCATTTTACCC-CCAAGCATCCAA
1 TTCCCAAAATTACCATTTTGACCCT-GAGAGTCCAAAATTACCATTTTACCCTCCAAG-ATCCAA
* * * * * *
2038758 AAACCCCGTTTTTTATCTCTATTTTTTAAAAAAATTACCATGTTGTCCTAAAATGTTTAAAATGT
64 AAACCCCATTTTTGATCCCGATTTTTTAAAAAAATTACCA-GTTGTCCTAAAATGTCTAAAATGA
* *
2038823 CATTTTTAACTCGAAATT
128 CATTTTTAACCCCAAATT
* * *
2038841 TTCCCAAAATTACCATTTTGTCCCTAAAAGTCCAAAATTACCATTTTACCCTC
1 TTCCCAAAATTACCATTTTGACCCTGAGAGTCCAAAATTACCATTTTACCCTC
2038894 AGGTATCCAA
Statistics
Matches: 166, Mismatches: 24, Indels: 17
0.80 0.12 0.08
Matches are distributed among these distances:
143 1 0.01
144 3 0.02
145 43 0.26
146 105 0.63
147 10 0.06
148 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (145 bp):
TTCCCAAAATTACCATTTTGACCCTGAGAGTCCAAAATTACCATTTTACCCTCCAAGATCCAAAA
ACCCCATTTTTGATCCCGATTTTTTAAAAAAATTACCAGTTGTCCTAAAATGTCTAAAATGACAT
TTTTAACCCCAAATT
Found at i:2038728 original size:58 final size:58
Alignment explanation
Indices: 2038579--2038749 Score: 157
Period size: 58 Copynumber: 2.9 Consensus size: 58
2038569 ACCCTGAGAC
* * * * * * *
2038579 TCCCGAAATTACCATTTTACCCTCGA-ATGTCCAAAAATCTCATTTTTGATCCCGATTTT
1 TCCCAAAATTACCATTTTACCCTCGAGA-GT-CTAAAATCACATTTTTAACCCCAAATTT
* * * ** * *
2038638 TCCAAAAATTACCGTTTTACCATTAAGTGTCTAAAATGACATTTTTAACCCCAAATTT
1 TCCCAAAATTACCATTTTACCCTCGAGAGTCTAAAATCACATTTTTAACCCCAAATTT
* *
2038696 TCCCAAAATTACCATTTTACCCTCGAGAGTCTAAAATTACCA-TTTTACCCCCAA
1 TCCCAAAATTACCATTTTACCCTCGAGAGTCTAAAATCA-CATTTTTAACCCCAA
2038750 GCATCCAAAA
Statistics
Matches: 88, Mismatches: 22, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
58 64 0.73
59 24 0.27
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (58 bp):
TCCCAAAATTACCATTTTACCCTCGAGAGTCTAAAATCACATTTTTAACCCCAAATTT
Found at i:2038759 original size:28 final size:28
Alignment explanation
Indices: 2038698--2038759 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
2038688 CCAAATTTTC
* *
2038698 CCAAAATTACCATTTTACCCTCGAGAGT
1 CCAAAATTACCATTTTACCCCCAAGAGT
*
2038726 CTAAAATTACCATTTTACCCCCAAGCA-T
1 CCAAAATTACCATTTTACCCCCAAG-AGT
2038754 CCAAAA
1 CCAAAA
2038760 ACCCCGTTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.37, C:0.31, G:0.06, T:0.26
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCAAGAGT
Found at i:2042886 original size:15 final size:15
Alignment explanation
Indices: 2042866--2042915 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
2042856 TGACTATATA
2042866 AAAAAATTTAAAAAT
1 AAAAAATTTAAAAAT
2042881 AAAAAATTTATAAAATT
1 AAAAAATTTA-AAAA-T
2042898 ATAAAAA-TT-AAAAT
1 A-AAAAATTTAAAAAT
2042912 AAAA
1 AAAA
2042916 CAATATAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.09
14 2 0.06
15 14 0.44
16 4 0.12
17 4 0.12
18 5 0.16
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAAAATTTAAAAAT
Found at i:2043563 original size:4 final size:4
Alignment explanation
Indices: 2043556--2043590 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
2043546 TATATATATA
* *
2043556 TATG TATG TATG TATG TCTG TATG TCTG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
2043591 ATCATAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.20, C:0.06, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:2051711 original size:13 final size:13
Alignment explanation
Indices: 2051693--2051717 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2051683 ATTAAATTAT
2051693 TTTTTAGAATCAA
1 TTTTTAGAATCAA
2051706 TTTTTAGAATCA
1 TTTTTAGAATCA
2051718 GCACGAAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (13 bp):
TTTTTAGAATCAA
Found at i:2052081 original size:9 final size:9
Alignment explanation
Indices: 2052067--2052099 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2052057 AAAGATTTTT
2052067 TTTTATAAA
1 TTTTATAAA
2052076 TTTTATAAA
1 TTTTATAAA
2052085 TTTT-TAATA
1 TTTTATAA-A
2052094 TTTTAT
1 TTTTAT
2052100 CATTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.14
9 18 0.82
10 1 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTATAAA
Found at i:2052188 original size:20 final size:19
Alignment explanation
Indices: 2052147--2052254 Score: 92
Period size: 20 Copynumber: 5.4 Consensus size: 19
2052137 TTTAATAAAG
* *
2052147 TTTTATAATATTTATAAGTT
1 TTTTATAATTTTTATGA-TT
*
2052167 TTTTATGATTTTTCATGATT
1 TTTTATAATTTTT-ATGATT
*
2052187 TTCTTATAATTTAGTA-GATT
1 TT-TTATAATTT-TTATGATT
2052207 TTTTATAAATTTTTATGATT
1 TTTTAT-AATTTTTATGATT
* *
2052227 CTTTATAATTTTTTATAATT
1 TTTTATAA-TTTTTATGATT
*
2052247 TATTATAA
1 TTTTATAA
2052255 AAATTTAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 12
0.77 0.11 0.13
Matches are distributed among these distances:
19 8 0.11
20 51 0.71
21 12 0.17
22 1 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTATAATTTTTATGATT
Found at i:2058860 original size:3 final size:3
Alignment explanation
Indices: 2058852--2058934 Score: 96
Period size: 3 Copynumber: 27.7 Consensus size: 3
2058842 TTATAAAACA
* * * * * *
2058852 AAG AAG AAG AAG AAG AAG AAG GAG GAG GAG GAG GAG GAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
2058900 AAG AAG AA- ATAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG A-AG AAG AAG AAG AAG AAG AAG AAG AA
2058935 AGGGGTTATT
Statistics
Matches: 76, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
2 1 0.01
3 74 0.97
4 1 0.01
ACGTcount: A:0.60, C:0.00, G:0.39, T:0.01
Consensus pattern (3 bp):
AAG
Found at i:2059520 original size:14 final size:13
Alignment explanation
Indices: 2059481--2059523 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
2059471 TTTTCACGTA
2059481 ATAATATTAATAA-
1 ATAAT-TTAATAAT
2059494 ATAATTATAATAAT
1 ATAATT-TAATAAT
2059508 ATCAATTTAATAAT
1 AT-AATTTAATAAT
2059522 AT
1 AT
2059524 TCTCTTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.04
13 11 0.41
14 11 0.41
15 4 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (13 bp):
ATAATTTAATAAT
Found at i:2061262 original size:12 final size:13
Alignment explanation
Indices: 2061245--2061274 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
2061235 AAAAATATCG
2061245 TTTTAATTC-CAA
1 TTTTAATTCACAA
2061257 TTTTAATTCACAA
1 TTTTAATTCACAA
2061270 TTTTA
1 TTTTA
2061275 TTATTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.53
Consensus pattern (13 bp):
TTTTAATTCACAA
Found at i:2074412 original size:11 final size:13
Alignment explanation
Indices: 2074392--2074423 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
2074382 TTAAGAGGAT
2074392 ATAAATAGG-AAA
1 ATAAATAGGAAAA
2074404 ATAAA-AGGAAAA
1 ATAAATAGGAAAA
2074416 ATAAATAG
1 ATAAATAG
2074424 CCACCAAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.17
12 13 0.72
13 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (13 bp):
ATAAATAGGAAAA
Found at i:2079324 original size:19 final size:18
Alignment explanation
Indices: 2079300--2079352 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
2079290 TAATTAATAC
*
2079300 TTTTTTTAATTTTTATAAA
1 TTTTTTTAATATTTAT-AA
2079319 TTTTTTTGAATATTTATAA
1 TTTTTTT-AATATTTATAA
2079338 TTTTTTTATATATTT
1 TTTTTTTA-ATATTT
2079353 TTAAAAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 1 0.03
19 22 0.71
20 8 0.26
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTTAATATTTATAA
Found at i:2079325 original size:20 final size:19
Alignment explanation
Indices: 2079300--2079355 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
2079290 TAATTAATAC
2079300 TTTTTTTAATTTTTATAAAT
1 TTTTTTTAATTTTTAT-AAT
* *
2079320 TTTTTTGAATATTTATAAT
1 TTTTTTTAATTTTTATAAT
2079339 TTTTTTATATATTTTTA
1 TTTTTT-TA-ATTTTTA
2079356 AAAAAAATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 9 0.30
20 15 0.50
21 6 0.20
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (19 bp):
TTTTTTTAATTTTTATAAT
Found at i:2079406 original size:9 final size:9
Alignment explanation
Indices: 2079394--2079440 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
2079384 TATATTACAA
2079394 TTTTTAATT
1 TTTTTAATT
**
2079403 TTTTATAAAA
1 TTTT-TAATT
2079413 TTTTTAA-T
1 TTTTTAATT
2079421 TTTTTAATT
1 TTTTTAATT
*
2079430 TTTATAATT
1 TTTTTAATT
2079439 TT
1 TT
2079441 AGAGTTTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 7 0.22
9 18 0.56
10 7 0.22
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTTAATT
Found at i:2079437 original size:17 final size:17
Alignment explanation
Indices: 2079403--2079477 Score: 71
Period size: 17 Copynumber: 4.2 Consensus size: 17
2079393 ATTTTTAATT
*
2079403 TTTTATAAAATTTT-TAA
1 TTTTAT-AATTTTTATAA
*
2079420 TTTTTTAATTTTTATAA
1 TTTTATAATTTTTATAA
* *
2079437 TTTTAGAGTTTTTATAA
1 TTTTATAATTTTTATAA
2079454 TTTTAATAATTTCTTATATA
1 TTTT-ATAATTT-TTATA-A
2079474 TTTT
1 TTTT
2079478 TAAAAACAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
16 6 0.13
17 26 0.55
18 5 0.11
19 5 0.11
20 5 0.11
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTTATAATTTTTATAA
Found at i:2079457 original size:9 final size:9
Alignment explanation
Indices: 2079392--2079479 Score: 76
Period size: 8 Copynumber: 9.9 Consensus size: 9
2079382 TATATATTAC
2079392 AATTTTTA-
1 AATTTTTAT
*
2079400 ATTTTTTAT
1 AATTTTTAT
*
2079409 AAAATTTT-T
1 -AATTTTTAT
2079418 AATTTTT-T
1 AATTTTTAT
2079426 AATTTTTAT
1 AATTTTTAT
*
2079435 AA-TTTTAG
1 AATTTTTAT
*
2079443 AGTTTTTAT
1 AATTTTTAT
*
2079452 AATTTTAAT
1 AATTTTTAT
2079461 AATTTCTTAT
1 AATTT-TTAT
2079471 ATATTTTTA
1 A-ATTTTTA
2079480 AAAACAATAT
Statistics
Matches: 64, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
8 27 0.42
9 21 0.33
10 12 0.19
11 4 0.06
ACGTcount: A:0.33, C:0.01, G:0.02, T:0.64
Consensus pattern (9 bp):
AATTTTTAT
Found at i:2081871 original size:25 final size:25
Alignment explanation
Indices: 2081843--2081898 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
2081833 ACATATCCTA
2081843 TCAATTTGGTCTTGATTTAACAAAT
1 TCAATTTGGTCTTGATTTAACAAAT
2081868 TCAA-TTGGTCTTGATTTAACAAAT
1 TCAATTTGGTCTTGATTTAACAAAT
2081892 TCAATTT
1 TCAATTT
2081899 TCAACAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
24 24 0.80
25 6 0.20
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (25 bp):
TCAATTTGGTCTTGATTTAACAAAT
Found at i:2091013 original size:272 final size:272
Alignment explanation
Indices: 2090527--2091073 Score: 1076
Period size: 272 Copynumber: 2.0 Consensus size: 272
2090517 CTAGACTCAA
2090527 TTGAACTTTAGAAGATTGCAATTCTCTTTTGAAAGTATTGGAGTCTGGAAATAACTCTTTATCTG
1 TTGAACTTTAGAAGATTGCAATTCTCTTTTGAAAGTATTGGAGTCTGGAAATAACTCTTTATCTG
2090592 AGGACCACCATGAAGATGTTTCATCAAACACTACATTGCGGAACATATAGCATTTTCTCGTTGTA
66 AGGACCACCATGAAGATGTTTCATCAAACACTACATTGCGGAACATATAGCATTTTCTCGTTGTA
2090657 GGACCACAACATCTCCACCCTTTTCTCTGACCGTCGTACCCTACAAAAATGCATCTAATAACTTT
131 GGACCACAACATCTCCACCCTTTTCTCTGACCGTCGTACCCTACAAAAATGCATCTAATAACTTT
*
2090722 TTTGTCCATTTTTCTTTGTAAGTGGCTAGACAAAAATGCATCACAAACACTTTCAAAAATTCGAA
196 TTTGTCCATTTTTCTTTGTAAGTGGCTAGACAAAAATGCATCACAAACACTTCCAAAAATTCGAA
2090787 AATAACTAACTG
261 AATAACTAACTG
2090799 TTGAACTTTAGAAGATTGCAATTCTCTTTTGAAAGTATTGGAGTCTGGAAATAACTCTTTATCTG
1 TTGAACTTTAGAAGATTGCAATTCTCTTTTGAAAGTATTGGAGTCTGGAAATAACTCTTTATCTG
*
2090864 AGGACCACCATGAAGATGTTTCATCAAACACTACATTGCGGGACATATAGCATTTTCTCGTTGTA
66 AGGACCACCATGAAGATGTTTCATCAAACACTACATTGCGGAACATATAGCATTTTCTCGTTGTA
2090929 GGACCACAACATCTCCACCCTTTTCTCTGACCGTCGTACCCTACAAAAATGCATCTAATAACTTT
131 GGACCACAACATCTCCACCCTTTTCTCTGACCGTCGTACCCTACAAAAATGCATCTAATAACTTT
2090994 TTTGTCCATTTTTCTTTGTAAGTGGCTAGACAAAAATGCATCACAAACACTTCCAAAAATTCGAA
196 TTTGTCCATTTTTCTTTGTAAGTGGCTAGACAAAAATGCATCACAAACACTTCCAAAAATTCGAA
2091059 AATAACTAACTG
261 AATAACTAACTG
2091071 TTG
1 TTG
2091074 GTTACATTTT
Statistics
Matches: 273, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
272 273 1.00
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (272 bp):
TTGAACTTTAGAAGATTGCAATTCTCTTTTGAAAGTATTGGAGTCTGGAAATAACTCTTTATCTG
AGGACCACCATGAAGATGTTTCATCAAACACTACATTGCGGAACATATAGCATTTTCTCGTTGTA
GGACCACAACATCTCCACCCTTTTCTCTGACCGTCGTACCCTACAAAAATGCATCTAATAACTTT
TTTGTCCATTTTTCTTTGTAAGTGGCTAGACAAAAATGCATCACAAACACTTCCAAAAATTCGAA
AATAACTAACTG
Found at i:2095508 original size:32 final size:31
Alignment explanation
Indices: 2095456--2095516 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 31
2095446 ATAAAAAATG
* *
2095456 TATAAAATTATTAAATATTAAAATAATATAA
1 TATAAAATTATTAAAAATTAAAAAAATATAA
2095487 TATAAATATT-TTAAAAAATTAAAAAAATAT
1 TATAAA-ATTATT-AAAAATTAAAAAAATAT
2095517 TGTTGGGCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 8 0.31
32 18 0.69
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (31 bp):
TATAAAATTATTAAAAATTAAAAAAATATAA
Found at i:2099049 original size:17 final size:17
Alignment explanation
Indices: 2099029--2099068 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
2099019 TATTAAAAAT
2099029 ATAATTTTATTAT-TTTA
1 ATAATTTTA-TATCTTTA
2099046 ATAA-TTTATATCTTTA
1 ATAATTTTATATCTTTA
2099062 A-AATTTT
1 ATAATTTT
2099069 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.24
16 12 0.57
17 4 0.19
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATATCTTTA
Found at i:2104734 original size:54 final size:54
Alignment explanation
Indices: 2104669--2104776 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
2104659 GTGTGGTTCG
*
2104669 AATTGGAATCCTCGATTTACTTCTCGATTTTGAAAGAAATTACATGAGGCTCTA
1 AATTGGAATCCTCGATTTACTTCTCGATTTTGAAAGAAATTAAATGAGGCTCTA
* *
2104723 AATTGGCATCCTCGATTTACTTCTTGATTTTGAAAGAAATTAAATGAGGCTCTA
1 AATTGGAATCCTCGATTTACTTCTCGATTTTGAAAGAAATTAAATGAGGCTCTA
2104777 GGTACTCGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (54 bp):
AATTGGAATCCTCGATTTACTTCTCGATTTTGAAAGAAATTAAATGAGGCTCTA
Found at i:2112702 original size:21 final size:21
Alignment explanation
Indices: 2112678--2112720 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
2112668 TATAATTCAG
*
2112678 GGGTGATTGTTAAACTCTCAA
1 GGGTGATTGTAAAACTCTCAA
*
2112699 GGGTGATTGTAAAACTTTCAA
1 GGGTGATTGTAAAACTCTCAA
2112720 G
1 G
2112721 TGCTCTTCGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.33
Consensus pattern (21 bp):
GGGTGATTGTAAAACTCTCAA
Found at i:2114631 original size:20 final size:20
Alignment explanation
Indices: 2114606--2114643 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2114596 AATATTTTTG
*
2114606 AATTGAGCCGAGTGAAATGA
1 AATTGAGCCGAGTCAAATGA
*
2114626 AATTGAGTCGAGTCAAAT
1 AATTGAGCCGAGTCAAAT
2114644 CGAGTGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (20 bp):
AATTGAGCCGAGTCAAATGA
Found at i:2114817 original size:29 final size:29
Alignment explanation
Indices: 2114775--2114832 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
2114765 TTGAAAGCAA
2114775 AATAAAAAATACTTTAGTATAATAAACTT
1 AATAAAAAATACTTTAGTATAATAAACTT
2114804 AATAAAAAATACTTTAGTATAATAAACTT
1 AATAAAAAATACTTTAGTATAATAAACTT
2114833 GAATTATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (29 bp):
AATAAAAAATACTTTAGTATAATAAACTT
Found at i:2114913 original size:11 final size:11
Alignment explanation
Indices: 2114899--2114936 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
2114889 TTTTTTAACT
2114899 TTTTTTATATA
1 TTTTTTATATA
2114910 TTTTTTATATA
1 TTTTTTATATA
*
2114921 TTTTTTAGA-A
1 TTTTTTATATA
2114931 TTTTTT
1 TTTTTT
2114937 TGAAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 7 0.27
11 19 0.73
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (11 bp):
TTTTTTATATA
Found at i:2114937 original size:11 final size:10
Alignment explanation
Indices: 2114887--2114951 Score: 58
Period size: 11 Copynumber: 6.0 Consensus size: 10
2114877 GAAAATTTTT
2114887 ATTTTTTTAA
1 ATTTTTTTAA
* *
2114897 CTTTTTTTAT
1 ATTTTTTTAA
*
2114907 ATATTTTTTAT
1 AT-TTTTTTAA
2114918 ATATTTTTTAGA
1 AT-TTTTTTA-A
2114930 ATTTTTTTGAA
1 ATTTTTTT-AA
2114941 ATTTTTATTAA
1 ATTTTT-TTAA
2114952 TACTTTGAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
10 9 0.19
11 33 0.70
12 5 0.11
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (10 bp):
ATTTTTTTAA
Found at i:2119506 original size:10 final size:9
Alignment explanation
Indices: 2119489--2119589 Score: 62
Period size: 9 Copynumber: 10.8 Consensus size: 9
2119479 TATTATTTCA
2119489 TAAAATTTT
1 TAAAATTTT
2119498 TAAATATTTT
1 TAAA-ATTTT
* *
2119508 ATATATATCTT
1 -TA-AAATTTT
*
2119519 TAGAATTTT
1 TAAAATTTT
2119528 TAAAATTTTT
1 TAAAA-TTTT
** *
2119538 TAAAAAATA
1 TAAAATTTT
2119547 TAAAA-TTT
1 TAAAATTTT
2119555 TAAAA-TTT
1 TAAAATTTT
2119563 TATAAATATTT
1 TA-AAAT-TTT
*
2119574 TGAAATTTT
1 TAAAATTTT
*
2119583 GAAAATT
1 TAAAATT
2119590 ATTTTGAATT
Statistics
Matches: 71, Mismatches: 14, Indels: 14
0.72 0.14 0.14
Matches are distributed among these distances:
8 11 0.15
9 29 0.41
10 20 0.28
11 10 0.14
12 1 0.01
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.50
Consensus pattern (9 bp):
TAAAATTTT
Found at i:2119573 original size:19 final size:19
Alignment explanation
Indices: 2119491--2119582 Score: 75
Period size: 19 Copynumber: 4.9 Consensus size: 19
2119481 TTATTTCATA
2119491 AAAT-TTTTAAATATTTTAT
1 AAATATTTTAAA-ATTTTAT
* *
2119510 ATATATCTTTAGAATTTT-T
1 AAATAT-TTTAAAATTTTAT
* **
2119529 AAAATTTTTTAAAA-AATAT
1 -AAATATTTTAAAATTTTAT
2119548 AAA-ATTTTAAAATTTTAT
1 AAATATTTTAAAATTTTAT
*
2119566 AAATATTTTGAAATTTT
1 AAATATTTTAAAATTTT
2119583 GAAAATTATT
Statistics
Matches: 56, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
17 8 0.14
18 10 0.18
19 23 0.41
20 10 0.18
21 5 0.09
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATATTTTAAAATTTTAT
Found at i:2119594 original size:20 final size:19
Alignment explanation
Indices: 2119545--2119601 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
2119535 TTTTAAAAAA
*
2119545 TATAAA-ATTTTAAAATTT
1 TATAAATATTTTGAAATTT
2119563 TATAAATATTTTGAAATTT
1 TATAAATATTTTGAAATTT
2119582 TGA-AAATTATTTTG-AATTT
1 T-ATAAA-TATTTTGAAATTT
2119601 T
1 T
2119602 TTTTATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 6 0.17
19 21 0.60
20 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAAATTT
Found at i:2119705 original size:18 final size:18
Alignment explanation
Indices: 2119682--2119719 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
2119672 TACTATCTTG
2119682 TTAATCGAATTATTCAAA
1 TTAATCGAATTATTCAAA
* *
2119700 TTAATCGAGTTATTCGAA
1 TTAATCGAATTATTCAAA
2119718 TT
1 TT
2119720 GTGAAATTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (18 bp):
TTAATCGAATTATTCAAA
Found at i:2124672 original size:30 final size:31
Alignment explanation
Indices: 2124636--2124703 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
2124626 ACTTAATAAC
*
2124636 TAGTGACTTAAAT-AAAACTTTCGAATAGTT
1 TAGTGACTTAAATGAAAACTTTCGAATAATT
* *
2124666 TAGTGACTTAAATGAAAATTTTTGAATAATT
1 TAGTGACTTAAATGAAAACTTTCGAATAATT
*
2124697 TATTGAC
1 TAGTGAC
2124704 CATATTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 13 0.39
31 20 0.61
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.40
Consensus pattern (31 bp):
TAGTGACTTAAATGAAAACTTTCGAATAATT
Found at i:2137781 original size:24 final size:24
Alignment explanation
Indices: 2137736--2137807 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
2137726 TTCTCATAAC
* ** *
2137736 CAAATACAAATGCATATTCAGATT
1 CAAATACAAATGCAAACACAGAAT
2137760 CAAATACAAATGCAAACACAGAAT
1 CAAATACAAATGCAAACACAGAAT
* *
2137784 -AAGATACAGATGCAGACACA-AAT
1 CAA-ATACAAATGCAAACACAGAAT
2137807 C
1 C
2137808 CTACCTCCAT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 5 0.12
24 35 0.88
ACGTcount: A:0.51, C:0.19, G:0.11, T:0.18
Consensus pattern (24 bp):
CAAATACAAATGCAAACACAGAAT
Found at i:2140939 original size:9 final size:9
Alignment explanation
Indices: 2140921--2140983 Score: 63
Period size: 9 Copynumber: 7.0 Consensus size: 9
2140911 AAGAAAAGCG
*
2140921 TGAGAAAAT
1 TGAGAGAAT
2140930 TGAGAGAAT
1 TGAGAGAAT
* *
2140939 TAAGAGAGT
1 TGAGAGAAT
*
2140948 TGAGAGAGT
1 TGAGAGAAT
*
2140957 TGAGAGATT
1 TGAGAGAAT
*
2140966 TGAGATAAT
1 TGAGAGAAT
*
2140975 AGAGAGAAT
1 TGAGAGAAT
2140984 AGGATGTGAG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 45 1.00
ACGTcount: A:0.44, C:0.00, G:0.32, T:0.24
Consensus pattern (9 bp):
TGAGAGAAT
Found at i:2141138 original size:14 final size:14
Alignment explanation
Indices: 2141116--2141164 Score: 64
Period size: 14 Copynumber: 3.5 Consensus size: 14
2141106 GTTGGGGGAA
2141116 AGCGCATCTCGCTG
1 AGCGCATCTCGCTG
*
2141130 AGTGCATCTCGCTG
1 AGCGCATCTCGCTG
*
2141144 AGCGCATC-CAGCTA
1 AGCGCATCTC-GCTG
2141158 AGCGCAT
1 AGCGCAT
2141165 TTTATGTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
13 1 0.03
14 30 0.97
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (14 bp):
AGCGCATCTCGCTG
Found at i:2143334 original size:3 final size:3
Alignment explanation
Indices: 2143328--2143361 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
2143318 CATCACCACC
* *
2143328 ACA ACA ACA ACA ACA ACA GCA ACA ACA GCA ACA A
1 ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA ACA A
2143362 TGGTCAGAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.32, G:0.06, T:0.00
Consensus pattern (3 bp):
ACA
Found at i:2144487 original size:17 final size:17
Alignment explanation
Indices: 2144465--2144512 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
2144455 AATAATATTT
2144465 AAATAATTTAATATATA
1 AAATAATTTAATATATA
* * *
2144482 AAATAATTTAAAATTTT
1 AAATAATTTAATATATA
2144499 AAATAA-TTAATATA
1 AAATAATTTAATATA
2144513 AATAAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 6 0.23
17 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAATAATTTAATATATA
Found at i:2145999 original size:2 final size:2
Alignment explanation
Indices: 2145980--2146033 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
2145970 AATTAATTTT
2145980 TA TA TA T- TA GTA TA -A 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
2146021 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
2146034 GAGACATGTT
Statistics
Matches: 49, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.04
2 45 0.92
3 2 0.04
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2146112 original size:21 final size:21
Alignment explanation
Indices: 2146086--2146125 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2146076 TTTAACAGTA
*
2146086 AAAATAAATTAATTTTTTAAT
1 AAAATAAATCAATTTTTTAAT
2146107 AAAATAAATCAATTTTTTA
1 AAAATAAATCAATTTTTTA
2146126 TATTCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (21 bp):
AAAATAAATCAATTTTTTAAT
Found at i:2158290 original size:152 final size:152
Alignment explanation
Indices: 2158014--2158315 Score: 534
Period size: 152 Copynumber: 2.0 Consensus size: 152
2158004 TTGAGCCCAT
* * *
2158014 CGAAGTTCATTTTTGACCTAAAAAGTTTCAATCTCCTATGAAATTATTCTAAATGGTTTTAAAAT
1 CGAAGTTCATTTTTGACCTAAAAACTTTCAATCTCCTATGAAACTATTCTAAATGGTTTTAAAAC
* *
2158079 ATTTCTAAATTCTTCTATTGTTTCAAACTAAATTTTATGATTTTATAAAAATAATTTCAGATTTG
66 ATTTCTAAATTCTTCAATTGTTTCAAACTAAATTTTATGATTTTATAAAAATAAGTTCAGATTTG
2158144 AAAGTTTGAAACATTTTTGAAC
131 AAAGTTTGAAACATTTTTGAAC
*
2158166 CGAAGTTCATTTTTGACGTAAAAACTTT-AATCTCCTATGAAACTATTCTAAATGGTTTTAAAAC
1 CGAAGTTCATTTTTGACCTAAAAACTTTCAATCTCCTATGAAACTATTCTAAATGGTTTTAAAAC
2158230 ATTTCTAAATTGCTTCAATTGTTTCAAACTAAATTTTATGATTTTATAAAAATAAGTTCAGATTT
66 ATTTCTAAATT-CTTCAATTGTTTCAAACTAAATTTTATGATTTTATAAAAATAAGTTCAGATTT
2158295 GAAAGTTTGAAACATTTTTGA
130 GAAAGTTTGAAACATTTTTGA
2158316 GGTTTTGTTT
Statistics
Matches: 143, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
151 45 0.31
152 98 0.69
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.42
Consensus pattern (152 bp):
CGAAGTTCATTTTTGACCTAAAAACTTTCAATCTCCTATGAAACTATTCTAAATGGTTTTAAAAC
ATTTCTAAATTCTTCAATTGTTTCAAACTAAATTTTATGATTTTATAAAAATAAGTTCAGATTTG
AAAGTTTGAAACATTTTTGAAC
Found at i:2164710 original size:29 final size:29
Alignment explanation
Indices: 2164677--2164733 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
2164667 GGTAGGAATC
* * * *
2164677 TGCATTTGTAACTGTATCTGTATTATATT
1 TGCATCTGTAAATGAATCCGTATTATATT
2164706 TGCATCTGTAAATGAATCCGTATTATAT
1 TGCATCTGTAAATGAATCCGTATTATAT
2164734 CTATATTTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.14, T:0.46
Consensus pattern (29 bp):
TGCATCTGTAAATGAATCCGTATTATATT
Found at i:2170553 original size:17 final size:17
Alignment explanation
Indices: 2170520--2170603 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
2170510 CCAACTTTTA
2170520 ATTTATAAATCTT-AATTT
1 ATTT-TAAAT-TTAAATTT
*
2170538 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTT
2170555 A-TTTAGAATTTAAATTT
1 ATTTTA-AATTTAAATTT
* *
2170572 ATATTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
* * *
2170589 ACTTTGAATTAAAAT
1 ATTTTAAATTTAAAT
2170604 GATTTAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.11
17 41 0.76
18 7 0.13
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:2170566 original size:23 final size:23
Alignment explanation
Indices: 2170540--2170618 Score: 67
Period size: 23 Copynumber: 3.5 Consensus size: 23
2170530 CTTAATTTAT
*
2170540 TTTAAATTTAAATT-CATTTAGAA
1 TTTAAATTTAAATTAAATTT-GAA
*
2170563 TTTAAATTTATATTAAATTTGAA
1 TTTAAATTTAAATTAAATTTGAA
* * *
2170586 TTT-ACTTTGAATTAAA-ATG-A
1 TTTAAATTTAAATTAAATTTGAA
2170606 TTTAAATATTAAA
1 TTTAAAT-TTAAA
2170619 AGTCCAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
20 4 0.09
21 4 0.09
22 14 0.31
23 19 0.42
24 4 0.09
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (23 bp):
TTTAAATTTAAATTAAATTTGAA
Found at i:2170598 original size:34 final size:34
Alignment explanation
Indices: 2170533--2170603 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
2170523 TATAAATCTT
* *
2170533 AATTTATTTTAAATTTAAATTCATTTAGAATTTA
1 AATTTATATTAAATTTAAATTCATTTAGAATTAA
* *
2170567 AATTTATATTAAATTTGAATTTACTTT-GAATTAA
1 AATTTATATTAAATTTAAATTCA-TTTAGAATTAA
2170601 AAT
1 AAT
2170604 GATTTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (34 bp):
AATTTATATTAAATTTAAATTCATTTAGAATTAA
Found at i:2171358 original size:21 final size:23
Alignment explanation
Indices: 2171319--2171369 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
2171309 ATGTTTTGAT
2171319 TTAATAACATTAATAATAATAAA
1 TTAATAACATTAATAATAATAAA
*
2171342 -TAATAACATT-TTAATAATAAA
1 TTAATAACATTAATAATAATAAA
2171363 TTAATAA
1 TTAATAA
2171370 ATAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 10 0.38
22 16 0.62
ACGTcount: A:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (23 bp):
TTAATAACATTAATAATAATAAA
Found at i:2171992 original size:46 final size:47
Alignment explanation
Indices: 2171919--2172012 Score: 181
Period size: 46 Copynumber: 2.0 Consensus size: 47
2171909 GAAAAAATGA
2171919 AGGAAATATAAAAAAAAAAGCTTTAAAATAACTTTTATAGAAGACCC
1 AGGAAATATAAAAAAAAAAGCTTTAAAATAACTTTTATAGAAGACCC
2171966 AGGAAATAT-AAAAAAAAAGCTTTAAAATAACTTTTATAGAAGACCC
1 AGGAAATATAAAAAAAAAAGCTTTAAAATAACTTTTATAGAAGACCC
2172012 A
1 A
2172013 TGGACCGACC
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 38 0.81
47 9 0.19
ACGTcount: A:0.55, C:0.11, G:0.11, T:0.23
Consensus pattern (47 bp):
AGGAAATATAAAAAAAAAAGCTTTAAAATAACTTTTATAGAAGACCC
Found at i:2172458 original size:30 final size:29
Alignment explanation
Indices: 2172422--2172693 Score: 158
Period size: 30 Copynumber: 9.2 Consensus size: 29
2172412 GAACTGTCTA
2172422 AAAATTACATTTTAACCCCCAAAATTTTCC
1 AAAATTACATTTTAA-CCCCAAAATTTTCC
* * * *
2172452 AAAATTATATTTTGACCCCAAAACTTTCTA
1 AAAATTACATTTTAACCCCAAAATTTTC-C
* * ** **
2172482 AAAATTACATGTCAACCTTAAAACTTTTTA
1 AAAATTACATTTTAACCCCAAAA-TTTTCC
* * * **
2172512 AAAATTATATTTTGACCCCAAATTTTTTTG
1 AAAATTACATTTTAACCCCAAA-ATTTTCC
** * *
2172542 AAAATTACATTTTAACCTTAAAACTTTCTA
1 AAAATTACATTTTAACCCCAAAATTTTC-C
* * * *
2172572 AAAATTACATTTTAACCCTAACACTTTCT
1 AAAATTACATTTTAACCCCAAAATTTTCC
* **
2172601 GAAATTACATTTTAA-CCTTAAA-TTTCC
1 AAAATTACATTTTAACCCCAAAATTTTCC
* *
2172628 AAAAATTCCATTTAAACCCC--AATTTTACC
1 -AAAATTACATTTTAACCCCAAAATTTT-CC
*
2172657 AAAACTTACCATTTT-ACCCCTCAAATTTTCC
1 AAAA-TTA-CATTTTAACCCC-AAAATTTTCC
2172688 AAAATT
1 AAAATT
2172694 CTATTTTTGA
Statistics
Matches: 188, Mismatches: 41, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
27 6 0.03
28 24 0.13
29 40 0.21
30 103 0.55
31 9 0.05
32 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTAACCCCAAAATTTTCC
Found at i:2172516 original size:60 final size:59
Alignment explanation
Indices: 2172413--2172634 Score: 234
Period size: 60 Copynumber: 3.7 Consensus size: 59
2172403 GAAGTCTCTG
* ** * *
2172413 AACTGTCTAAAAATTACATTTTAACCCCCAAAATTTTC-CAAAATTATATTTTGACCCCAA
1 AACTTTCT-AAAATTACATTTTAA-CCTTAAAACTTTCTAAAAATTATATTTTGACCCCAA
* * *
2172473 AACTTTCTAAAAATTACATGTCAACCTTAAAACTTTTTAAAAATTATATTTTGACCCCAA
1 AACTTTCT-AAAATTACATTTTAACCTTAAAACTTTCTAAAAATTATATTTTGACCCCAA
** * * * *
2172533 ATTTTTTTGAAAATTACATTTTAACCTTAAAACTTTCTAAAAATTACATTTTAACCCTAA
1 AACTTTCT-AAAATTACATTTTAACCTTAAAACTTTCTAAAAATTATATTTTGACCCCAA
* * *
2172593 CACTTTCTGAAATTACATTTTAACCTT-AAA-TTTCCAAAAATT
1 AACTTTCTAAAATTACATTTTAACCTTAAAACTTTCTAAAAATT
2172635 CCATTTAAAC
Statistics
Matches: 137, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
57 11 0.08
58 3 0.02
59 27 0.20
60 96 0.70
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (59 bp):
AACTTTCTAAAATTACATTTTAACCTTAAAACTTTCTAAAAATTATATTTTGACCCCAA
Found at i:2172598 original size:90 final size:90
Alignment explanation
Indices: 2172420--2172617 Score: 238
Period size: 90 Copynumber: 2.2 Consensus size: 90
2172410 CTGAACTGTC
* *
2172420 TAAAAATTACATTTTAACCCCCAAAATTTTCCAAAATTATATTTTGACCCCAAAACTTTCTAAAA
1 TAAAAATTACATTTTAACCCCCAAAATTTTCCAAAATTACATTTTAACCCCAAAACTTTCTAAAA
*
2172485 ATTACATGTCAACCTTAAAACTTTT
66 ATTACATGTCAACCCTAAAACTTTT
* * * ** **
2172510 TAAAAATTATATTTTGA-CCCCAAATTTTTTTGAAAATTACATTTTAACCTTAAAACTTTCTAAA
1 TAAAAATTACATTTTAACCCCCAAA-ATTTTCCAAAATTACATTTTAACCCCAAAACTTTCTAAA
* * * *
2172574 AATTACATTTTAACCCTAACACTTTC
65 AATTACATGTCAACCCTAAAACTTTT
*
2172600 T-GAAATTACATTTTAACC
1 TAAAAATTACATTTTAACC
2172618 TTAAATTTCC
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
89 19 0.21
90 70 0.79
ACGTcount: A:0.40, C:0.19, G:0.03, T:0.38
Consensus pattern (90 bp):
TAAAAATTACATTTTAACCCCCAAAATTTTCCAAAATTACATTTTAACCCCAAAACTTTCTAAAA
ATTACATGTCAACCCTAAAACTTTT
Found at i:2172615 original size:29 final size:30
Alignment explanation
Indices: 2172413--2172646 Score: 206
Period size: 30 Copynumber: 7.9 Consensus size: 30
2172403 GAAGTCTCTG
* *
2172413 AACTGTCTAAAAATTACATTTTAACCCCCAA
1 AACTTTCTAAAAATTACATTTTAA-CCCTAA
* * * * *
2172444 AATTTTC-CAAAATTATATTTTGACCCCAA
1 AACTTTCTAAAAATTACATTTTAACCCTAA
* * *
2172473 AACTTTCTAAAAATTACATGTCAACCTTAA
1 AACTTTCTAAAAATTACATTTTAACCCTAA
* * * *
2172503 AACTTTTTAAAAATTATATTTTGACCCCAA
1 AACTTTCTAAAAATTACATTTTAACCCTAA
** * * *
2172533 ATTTTTTTGAAAATTACATTTTAACCTTAA
1 AACTTTCTAAAAATTACATTTTAACCCTAA
2172563 AACTTTCTAAAAATTACATTTTAACCCTAA
1 AACTTTCTAAAAATTACATTTTAACCCTAA
* * *
2172593 CACTTTCT-GAAATTACATTTTAA-CCTTA
1 AACTTTCTAAAAATTACATTTTAACCCTAA
* * *
2172621 AA-TTTCCAAAAATTCCATTTAAACCC
1 AACTTTCTAAAAATTACATTTTAACCC
2172647 CAATTTTACC
Statistics
Matches: 160, Mismatches: 40, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
27 4 0.03
28 17 0.11
29 28 0.17
30 106 0.66
31 5 0.03
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (30 bp):
AACTTTCTAAAAATTACATTTTAACCCTAA
Found at i:2172675 original size:29 final size:27
Alignment explanation
Indices: 2172629--2172735 Score: 81
Period size: 30 Copynumber: 3.6 Consensus size: 27
2172619 TAAATTTCCA
*
2172629 AAAATTCCATTTAAACCCCAATTTTACC
1 AAAATTCCATTT-TACCCCAATTTTACC
2172657 AAAACTTACCATTTTACCCCTCAAATTTT-CC
1 AAAA-TT-CCATTTTA-CCC-C-AATTTTACC
* * *
2172688 AAAATTCTATTTTTGACCCTAATTTCACC
1 AAAATTCCA-TTTT-ACCCCAATTTTACC
2172717 TAAAATTACCATTTTACCC
1 -AAAATT-CCATTTTACCC
2172736 TCGAACTTCT
Statistics
Matches: 64, Mismatches: 5, Indels: 19
0.73 0.06 0.22
Matches are distributed among these distances:
28 9 0.14
29 11 0.17
30 28 0.44
31 10 0.16
32 6 0.09
ACGTcount: A:0.35, C:0.28, G:0.01, T:0.36
Consensus pattern (27 bp):
AAAATTCCATTTTACCCCAATTTTACC
Found at i:2172712 original size:60 final size:58
Alignment explanation
Indices: 2172645--2172794 Score: 180
Period size: 59 Copynumber: 2.5 Consensus size: 58
2172635 CCATTTAAAC
* *
2172645 CCCAATTTTACCAAAACTTACCATTTTACCCCTCAAA-TTTTCCAAAATTCTATTTTTGA
1 CCCAATTTTACCAAAA-TTACCATTTTACCCCTCAAACTTCT-AAAAATTCTATTTTTGA
* *
2172704 CCCTAATTTCACCTAAAATTACCATTTTA-CCCTCGAACTTCTAAAAATTCTATTTTTGA
1 CCC-AATTTTACC-AAAATTACCATTTTACCCCTCAAACTTCTAAAAATTCTATTTTTGA
*
2172763 -CCAGGTTTCTACCAAAATTACCATTTTACCCC
1 CCCA-ATTT-TACCAAAATTACCATTTTACCCC
2172795 CGAGTATCCA
Statistics
Matches: 79, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 20 0.25
59 32 0.41
60 22 0.28
61 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.03, T:0.37
Consensus pattern (58 bp):
CCCAATTTTACCAAAATTACCATTTTACCCCTCAAACTTCTAAAAATTCTATTTTTGA
Found at i:2172760 original size:59 final size:57
Alignment explanation
Indices: 2172602--2172793 Score: 178
Period size: 59 Copynumber: 3.3 Consensus size: 57
2172592 ACACTTTCTG
* * * ** *
2172602 AAATTA-CATTTTAACCTTAAATT-TCCAAAAATTCCA-TTTAAACCCCAATTTTACCA
1 AAATTACCATTTTACCCTCAAATTCT-CAAAAATTCTATTTTTGA-CCCAATTTCACCA
* *
2172658 AAACTTACCATTTTACCCCTCAAATTTTCCAAAATTCTATTTTTGACCCTAATTTCACCTA
1 AAA-TTACCATTTTA-CCCTCAAATTCTCAAAAATTCTATTTTTGACCC-AATTTCACC-A
* *
2172719 AAATTACCATTTTACCCTCGAACTTCT-AAAAATTCTATTTTTGA-CCAGGTTTCTACCA
1 AAATTACCATTTTACCCTC-AAATTCTCAAAAATTCTATTTTTGACCCA-ATTTC-ACCA
2172777 AAATTACCATTTTACCC
1 AAATTACCATTTTACCC
2172794 CCGAGTATCC
Statistics
Matches: 115, Mismatches: 11, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
56 3 0.03
57 4 0.03
58 31 0.27
59 44 0.38
60 29 0.25
61 4 0.03
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.38
Consensus pattern (57 bp):
AAATTACCATTTTACCCTCAAATTCTCAAAAATTCTATTTTTGACCCAATTTCACCA
Found at i:2179387 original size:18 final size:18
Alignment explanation
Indices: 2179364--2179399 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2179354 AGATGTAAAG
2179364 GAAAAGAAGAAAGAGATA
1 GAAAAGAAGAAAGAGATA
*
2179382 GAAAAGAAGCAAGAGATA
1 GAAAAGAAGAAAGAGATA
2179400 AGAAGAGCGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.03, G:0.28, T:0.06
Consensus pattern (18 bp):
GAAAAGAAGAAAGAGATA
Found at i:2184314 original size:100 final size:100
Alignment explanation
Indices: 2184087--2184853 Score: 1033
Period size: 100 Copynumber: 7.8 Consensus size: 100
2184077 ATGAAACACA
* * *
2184087 AAGGGAAAGATCTAATACCGCAACGGCAGATCCAGTACCGCAAAAACACAACAGGGAAAAGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
*
2184152 AGTCGCAAC-GCGGACCGTGTACCTCAAAAGAATG
66 AGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
* *
2184186 AAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCGCAAAAACACAACAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
*
2184251 AGTCACAACGGCGGACCGTGTACCTCAAAAGCATG
66 AGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
* * *
2184286 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCG--TAAA-A-AAAA---ACA-G---A
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
2184340 AGTCGCAACGGCGGACCGTGTACCTCAGAAA-CATG
66 AGTCGCAACGGCGGACCGTGTACCTCA-AAAGCATG
* * * *
2184375 AAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGTACCACCAAGACACAAAAGGGAAAGGTCT
1 -AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCT
* * *
2184440 AAGTCGCAACGGCGGGCCGTGAACCTCAGAAGCATG
65 AAGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
*
2184476 AAGGGAAAGATCTAAGATCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
*
2184541 AGTCGCAACGGCAGACCGTGTACCTC-AAAGCATG
66 AGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
* * **
2184575 AAGGGAAAGATCTAAGACCGCAACAGCAGATCCAGTACAGCAGAAAAACACAACTGGGAAAGGTC
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGC--AAAAACACAAAAGGGAAAGGTC
* * *
2184640 TAAGTCGCAATGGCGGACCGTGTACCTCAGATAA-AATAA
64 TAAGTCGCAACGGCGGACCGTGTACCTCA-A-AAGCAT-G
* * *
2184679 AAGGGAAAGATCTAAGACCGCAACGGCAGATCTAGTATCGCCAAAACACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
* *
2184744 AGTCGCAACGGTGGACCGTGTACCTCAGAAGCATG
66 AGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
* * * * * *
2184779 AAGGGGAAGATCTAAGACCGCAATGGCAGATCCAGTACCACAAAGATACAAAAGGGAAAGGTTTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
2184844 AGTCGCAACG
66 AGTCGCAACG
2184854 ACGAATTTGG
Statistics
Matches: 587, Mismatches: 59, Indels: 43
0.85 0.09 0.06
Matches are distributed among these distances:
89 31 0.05
90 40 0.07
92 3 0.01
93 3 0.01
94 4 0.01
96 3 0.01
97 3 0.01
98 4 0.01
99 115 0.20
100 215 0.37
101 78 0.13
102 46 0.08
103 3 0.01
104 39 0.07
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (100 bp):
AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
AGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
Found at i:2184434 original size:190 final size:194
Alignment explanation
Indices: 2184087--2184853 Score: 956
Period size: 190 Copynumber: 3.9 Consensus size: 194
2184077 ATGAAACACA
* * * *
2184087 AAGGGAAAGATCTAATACCGCAACGGCAGATCCAGTACCGCAAAAACACAACAGGGAAAAGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCGC-AAAACACAA-A-AG-AAAG-GTA
*
2184152 AGTCGCAAC-GCGGACCGTGTACCTCAAAAGAATGAAGGGAAAGATCTAAGACCGCAATGGCAGA
61 AGTCGCAACGGCGGACCGTGTACCTCAAAA-CATGAAGGGAAAGATCTAAGACCGCAATGGCAGA
* * *
2184216 TCCAGTACCGCAAAAACACAACAGGGAAAGGTCTAAGTCACAACGGCGGACCGTGTACCTCAAAA
125 TCCAGTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAA
2184281 GCATG
190 GCATG
* *
2184286 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCG-TAAA-A-AAAA-ACA-G-AAGTCG
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCGCAAAACACAAAAGAAAGGTAAGTCG
2184345 CAACGGCGGACCGTGTACCTCAGAAACATGAAAGGGAAAGATCTAAGACCGCAATGGCAGATCCA
66 CAACGGCGGACCGTGTACCTCA-AAACATG-AAGGGAAAGATCTAAGACCGCAATGGCAGATCCA
* * * * *
2184410 GTACCACCAAGACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGGCCGTGAACCTCAGAAGCAT
129 GTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAAGCAT
2184475 G
194 G
* *
2184476 AAGGGAAAGATCTAAGATCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCGC-AAAACACAAAA--GAAAGG--TA
* * **
2184541 AGTCGCAACGGCAGACCGTGTACCTCAAAGCATGAAGGGAAAGATCTAAGACCGCAACAGCAGAT
61 AGTCGCAACGGCGGACCGTGTACCTCAAAACATGAAGGGAAAGATCTAAGACCGCAATGGCAGAT
* ** *
2184606 CCAGTACAGCAGAAAAACACAACTGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCAGA
126 CCAGTAC--CACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCA-A
* *
2184671 TAA-AATAA
188 -AAGCAT-G
*
2184679 AAGGGAAAGATCTAAGACCGCAACGGCAGATCTAGTATCGCCAAAACACAAAAGGGAAAGGTCTA
1 AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCG-CAAAACACAAAA--GAAAGG--TA
* * *
2184744 AGTCGCAACGGTGGACCGTGTACCTCAGAAGCATGAAGGGGAAGATCTAAGACCGCAATGGCAGA
61 AGTCGCAACGGCGGACCGTGTACCTCA-AAACATGAAGGGAAAGATCTAAGACCGCAATGGCAGA
* * *
2184809 TCCAGTACCACAAAGATACAAAAGGGAAAGGTTTAAGTCGCAACG
125 TCCAGTACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACG
2184854 ACGAATTTGG
Statistics
Matches: 498, Mismatches: 49, Indels: 39
0.85 0.08 0.07
Matches are distributed among these distances:
188 10 0.02
189 20 0.04
190 133 0.27
191 2 0.00
192 3 0.01
193 1 0.00
194 5 0.01
195 2 0.00
196 1 0.00
197 5 0.01
198 1 0.00
199 74 0.15
200 6 0.01
201 73 0.15
202 32 0.06
203 87 0.17
204 43 0.09
ACGTcount: A:0.40, C:0.23, G:0.25, T:0.13
Consensus pattern (194 bp):
AAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTATCGCAAAACACAAAAGAAAGGTAAGTCG
CAACGGCGGACCGTGTACCTCAAAACATGAAGGGAAAGATCTAAGACCGCAATGGCAGATCCAGT
ACCACAAAAACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGTACCTCAAAAGCATG
Found at i:2184744 original size:203 final size:200
Alignment explanation
Indices: 2184339--2184853 Score: 771
Period size: 203 Copynumber: 2.6 Consensus size: 200
2184329 AAAAAAACAG
*
2184339 AAGTCGCAACGGCGGACCGTGTACCTCAGAAACATGAAAGGGAAAGATCTAAGACCGCAATGGCA
1 AAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATG-AAGGGAAAGATCTAAGACCGCAATGGCA
* *
2184404 GATCCAGTACCACCAAGACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGGCCGTGAACCTCAG
65 GATCCAGTACCACAAAGACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGAACCTCAG
** * *
2184469 AAGCATGAAGGGAAAGATCTAAGATCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAA
130 AAAAATAAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAA
2184534 AGGTCT
195 AGGTCT
* **
2184540 AAGTCGCAACGGCAGACCGTGTACCTCA-AAGCATGAAGGGAAAGATCTAAGACCGCAACAGCAG
1 AAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATGAAGGGAAAGATCTAAGACCGCAATGGCAG
* * ** * *
2184604 ATCCAGTACAGCAGAAAAACACAACTGGGAAAGGTCTAAGTCGCAATGGCGGACCGTGTACCTCA
66 ATCCAGTAC--CACAAAGACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGAACCTCA
* * *
2184669 GATAAAATAAAAGGGAAAGATCTAAGACCGCAACGGCAGATCTAGTATCGCCAAAACACAAAAGG
129 GA-AAAAT-AAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGG
2184734 GAAAGGTCT
192 GAAAGGTCT
* *
2184743 AAGTCGCAACGGTGGACCGTGTACCTCAGAAGCATGAAGGGGAAGATCTAAGACCGCAATGGCAG
1 AAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATGAAGGGAAAGATCTAAGACCGCAATGGCAG
* *
2184808 ATCCAGTACCACAAAGATACAAAAGGGAAAGGTTTAAGTCGCAACG
66 ATCCAGTACCACAAAGACACAAAAGGGAAAGGTCTAAGTCGCAACG
2184854 ACGAATTTGG
Statistics
Matches: 278, Mismatches: 31, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
199 36 0.13
200 6 0.02
201 75 0.27
202 33 0.12
203 86 0.31
204 42 0.15
ACGTcount: A:0.39, C:0.22, G:0.26, T:0.13
Consensus pattern (200 bp):
AAGTCGCAACGGCGGACCGTGTACCTCAGAAGCATGAAGGGAAAGATCTAAGACCGCAATGGCAG
ATCCAGTACCACAAAGACACAAAAGGGAAAGGTCTAAGTCGCAACGGCGGACCGTGAACCTCAGA
AAAATAAAGGGAAAGATCTAAGACCGCAACGGCAGATCCAGTACCGCAAAAACACAAAAGGGAAA
GGTCT
Found at i:2185581 original size:17 final size:17
Alignment explanation
Indices: 2185548--2185631 Score: 73
Period size: 17 Copynumber: 4.9 Consensus size: 17
2185538 CCAACTTTTA
2185548 ATTTATAAATCTT-AATTT
1 ATTT-TAAAT-TTAAATTT
*
2185566 ATTTTAAATTTAAATTC
1 ATTTTAAATTTAAATTT
2185583 A-TTTAGAATTTAAATTT
1 ATTTTA-AATTTAAATTT
* *
2185600 ATATTAAATTTGAATTT
1 ATTTTAAATTTAAATTT
* * *
2185617 ACTTTGAATTAAAAT
1 ATTTTAAATTTAAAT
2185632 GATTTAAATA
Statistics
Matches: 54, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
16 6 0.11
17 41 0.76
18 7 0.13
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:2185594 original size:23 final size:23
Alignment explanation
Indices: 2185568--2185617 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
2185558 CTTAATTTAT
*
2185568 TTTAAATTTAAATT-CATTTAGAA
1 TTTAAATTTAAATTAAATTT-GAA
*
2185591 TTTAAATTTATATTAAATTTGAA
1 TTTAAATTTAAATTAAATTTGAA
2185614 TTTA
1 TTTA
2185618 CTTTGAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 20 0.83
24 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTAAATTTAAATTAAATTTGAA
Found at i:2185626 original size:34 final size:34
Alignment explanation
Indices: 2185561--2185631 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
2185551 TATAAATCTT
* *
2185561 AATTTATTTTAAATTTAAATTCATTTAGAATTTA
1 AATTTATATTAAATTTAAATTCATTTAGAATTAA
* *
2185595 AATTTATATTAAATTTGAATTTACTTT-GAATTAA
1 AATTTATATTAAATTTAAATTCA-TTTAGAATTAA
2185629 AAT
1 AAT
2185632 GATTTAAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (34 bp):
AATTTATATTAAATTTAAATTCATTTAGAATTAA
Found at i:2185940 original size:29 final size:29
Alignment explanation
Indices: 2185880--2186106 Score: 192
Period size: 30 Copynumber: 7.7 Consensus size: 29
2185870 TCACAAACAC
* * *
2185880 CAAAAATTACATTTTGACCCCCAAATTTTT
1 CAAAAATTACATTTT-AACCCAAAACTTTT
* *
2185910 CCAAAATTACATTTTAACCCCAAACTTTT
1 CAAAAATTACATTTTAACCCAAAACTTTT
* *
2185939 CCAAAATTACATTTTGACCCTAAAAC-TTT
1 CAAAAATTACATTTTAACCC-AAAACTTTT
*
2185968 CTAAAAATTAAATTTTAACCCTAAAACTTTT
1 C-AAAAATTACATTTTAACCC-AAAACTTTT
* * *
2185999 TAAAAATTATATTTTGACCCCAAAAC-TTT
1 CAAAAATTACATTTT-AACCCAAAACTTTT
*
2186028 CTAAAAATTACATTTTAACCTTAAAACTTTT
1 C-AAAAATTACATTTTAACC-CAAAACTTTT
** * *
2186059 -TGAAATTACATTTTGACCCTAAA-TTTT
1 CAAAAATTACATTTTAACCCAAAACTTTT
* *
2186086 CCAAAATTCCATTTTTAACCC
1 CAAAAATTACA-TTTTAACCC
2186107 TAATTTCACC
Statistics
Matches: 164, Mismatches: 24, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
27 4 0.02
28 10 0.06
29 64 0.39
30 76 0.46
31 10 0.06
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (29 bp):
CAAAAATTACATTTTAACCCAAAACTTTT
Found at i:2185975 original size:59 final size:58
Alignment explanation
Indices: 2185881--2186077 Score: 243
Period size: 59 Copynumber: 3.3 Consensus size: 58
2185871 CACAAACACC
* * * *
2185881 AAAAATTACATTTTGACCCCCAAA-TTTTTCCAAAATTACATTTTAACCCCAAACTTTT
1 AAAAATTACATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTAACCCAAAACTTTT
* * *
2185939 CCAAAATTACATTTTGACCCTAAAACTTTCTAAAAATTAAATTTTAACCCTAAAACTTTTT
1 -AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCC-AAAAC-TTTT
* *
2186000 AAAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCTTAAAACTTTT
1 AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACC-CAAAACTTTT
**
2186059 TGAAATTACATTTTGACCC
1 AAAAATTACATTTTGACCC
2186078 TAAATTTTCC
Statistics
Matches: 119, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
59 58 0.49
60 57 0.48
61 4 0.03
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (58 bp):
AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCAAAACTTTT
Found at i:2186017 original size:60 final size:60
Alignment explanation
Indices: 2185881--2186109 Score: 270
Period size: 60 Copynumber: 3.9 Consensus size: 60
2185871 CACAAACACC
* * * * *
2185881 AAAAATTACATTTTGACCCCCAAA-TTTTTCCAAAATTACATTTTAACCC-CAAACTTTTC
1 AAAAATTACATTTTGACCCCAAAACTTTCT-AAAAATTACATTTTAACCCTAAAACTTTTT
* * *
2185940 CAAAATTACATTTTGACCCTAAAACTTTCTAAAAATTAAATTTTAACCCTAAAACTTTTT
1 AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTT
* *
2186000 AAAAATTATATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCTTAAAACTTTTT
1 AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTT
* * * * *
2186060 -GAAATTACATTTTGA-CCCTAAATTTTC-CAAAATTCCATTTTTAACCCTAA
1 AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACA-TTTTAACCCTAA
2186110 TTTCACCAAA
Statistics
Matches: 147, Mismatches: 20, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
57 8 0.05
58 21 0.14
59 51 0.35
60 67 0.46
ACGTcount: A:0.39, C:0.21, G:0.02, T:0.38
Consensus pattern (60 bp):
AAAAATTACATTTTGACCCCAAAACTTTCTAAAAATTACATTTTAACCCTAAAACTTTTT
Found at i:2186107 original size:29 final size:28
Alignment explanation
Indices: 2185882--2186160 Score: 175
Period size: 30 Copynumber: 9.5 Consensus size: 28
2185872 ACAAACACCA
* *
2185882 AAAATTACATTTTGACCCCCAAATTTTTCC
1 AAAATTACATTTT-AACCCTAAA-TTTTCC
*
2185912 AAAATTACATTTTAACCCCAAACTTTTCC
1 AAAATTACATTTTAACCCTAAA-TTTTCC
* * *
2185941 AAAATTACATTTTGACCCTAAAACTTTCTA
1 AAAATTACATTTTAACCCT-AAATTTTC-C
* **
2185971 AAAATTAAATTTTAACCCTAAAACTTTTTA
1 AAAATTACATTTTAACCCT-AAA-TTTTCC
* * * * *
2186001 AAAATTATATTTTGACCCCAAAACTTTCTA
1 AAAATTACATTTT-AACCCTAAATTTTC-C
* *
2186031 AAAATTACATTTTAACCTTAAAACTTTT-T
1 AAAATTACATTTTAACCCT-AAA-TTTTCC
* *
2186060 GAAATTACATTTTGACCCTAAATTTTCC
1 AAAATTACATTTTAACCCTAAATTTTCC
* *
2186088 AAAATTCCATTTTTAACCCT-AATTTCACC
1 AAAATTACA-TTTTAACCCTAAATTT-TCC
* ** *
2186117 AAAAGTTACCATTTTACCCCTCGTATTTTCT
1 AAAA-TTA-CATTTTAACCCT-AAATTTTCC
*
2186148 AAAATTCCATTTT
1 AAAATTACATTTT
2186161 TGACCCCGAT
Statistics
Matches: 200, Mismatches: 35, Indels: 29
0.76 0.13 0.11
Matches are distributed among these distances:
27 4 0.02
28 15 0.08
29 78 0.39
30 82 0.41
31 17 0.09
32 4 0.02
ACGTcount: A:0.37, C:0.22, G:0.03, T:0.39
Consensus pattern (28 bp):
AAAATTACATTTTAACCCTAAATTTTCC
Found at i:2186152 original size:60 final size:57
Alignment explanation
Indices: 2186061--2186255 Score: 216
Period size: 60 Copynumber: 3.3 Consensus size: 57
2186051 AAACTTTTTG
* * * *
2186061 AAATTA-CATTTTGA-CCCTAAATTTTCCAAAATTCCATTTTTAACCCTAATTTCACCA
1 AAATTACCATTTT-ACCCCTCAATTTTCTAAAATTCCATTTTTGACCC-GATTTCACCA
*
2186118 AAAGTTACCATTTTACCCCTCGTATTTTCTAAAATTCCATTTTTGACCCCGATTTCACCAA
1 AAA-TTACCATTTTACCCCTC-AATTTTCTAAAATTCCATTTTTGA-CCCGATTTCACC-A
**
2186179 AAATTACCATTTTA-CCCTCAAACTTCTAAAAATTCCATTTTTGACCCGATTTCAACCA
1 AAATTACCATTTTACCCCTCAATTTTCT-AAAATTCCATTTTTGACCCGATTTC-ACCA
* *
2186237 AAATTACTATTTTGCCCCT
1 AAATTACCATTTTACCCCT
2186256 GGGTATCCAA
Statistics
Matches: 119, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
57 3 0.03
58 31 0.26
59 38 0.32
60 40 0.34
61 7 0.06
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (57 bp):
AAATTACCATTTTACCCCTCAATTTTCTAAAATTCCATTTTTGACCCGATTTCACCA
Found at i:2186180 original size:29 final size:28
Alignment explanation
Indices: 2186086--2186241 Score: 90
Period size: 29 Copynumber: 5.3 Consensus size: 28
2186076 CCTAAATTTT
**
2186086 CCAAAATTCCATTTTTAACCCTAATTTCA
1 CCAAAATTCCATTTTT-ACCCCGATTTCA
*
2186115 CCAAAAGTTACCA-TTTTACCCCTCGTATTT-T
1 CCAAAA-TT-CCATTTTTA-CCC-CG-ATTTCA
*
2186146 CTAAAATTCCATTTTTGACCCCGATTTCA
1 CCAAAATTCCATTTTT-ACCCCGATTTCA
* *
2186175 CCAAAAATTACCA-TTTTACCCTCAAACTTCTA
1 CC-AAAATT-CCATTTTTACCC-C-GATTTC-A
2186207 --AAAATTCCATTTTTGA-CCCGATTTCAA
1 CCAAAATTCCATTTTT-ACCCCGATTTC-A
2186234 CCAAAATT
1 CCAAAATT
2186242 ACTATTTTGC
Statistics
Matches: 99, Mismatches: 11, Indels: 34
0.69 0.08 0.24
Matches are distributed among these distances:
27 5 0.05
28 8 0.08
29 35 0.35
30 30 0.30
31 16 0.16
32 5 0.05
ACGTcount: A:0.33, C:0.28, G:0.04, T:0.36
Consensus pattern (28 bp):
CCAAAATTCCATTTTTACCCCGATTTCA
Found at i:2190933 original size:18 final size:18
Alignment explanation
Indices: 2190894--2190947 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 18
2190884 ACAGTATCTA
2190894 GATAAGGATGAAGATTACATG
1 GATAAGGATGAAG---ACATG
2190915 GATAAGGATGAAGACATG
1 GATAAGGATGAAGACATG
2190933 GATAAGGATGAAGAC
1 GATAAGGATGAAGAC
2190948 TTTGATGAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.61
21 13 0.39
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (18 bp):
GATAAGGATGAAGACATG
Found at i:2194084 original size:15 final size:15
Alignment explanation
Indices: 2194064--2194095 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2194054 CAGATCAACA
*
2194064 TTCAGAATCTGAATC
1 TTCAGAAACTGAATC
2194079 TTCAGAAACTGAATC
1 TTCAGAAACTGAATC
2194094 TT
1 TT
2194096 GTTCAAAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.34
Consensus pattern (15 bp):
TTCAGAAACTGAATC
Found at i:2194990 original size:13 final size:13
Alignment explanation
Indices: 2194972--2195001 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2194962 ATTGCTAAAA
2194972 AATAATATCTCAT
1 AATAATATCTCAT
*
2194985 AATAATATCTTAT
1 AATAATATCTCAT
2194998 AATA
1 AATA
2195002 TCTCATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
AATAATATCTCAT
Done.