Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 22 of 120
Found at i:5849787 original size:7 final size:7
Alignment explanation
Indices: 5849775--5849799 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
5849765 CCTCCATTAA
5849775 AACATTC
1 AACATTC
5849782 AACATTC
1 AACATTC
5849789 AACATTC
1 AACATTC
5849796 AACA
1 AACA
5849800 AATTTAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (7 bp):
AACATTC
Found at i:5853968 original size:28 final size:28
Alignment explanation
Indices: 5853921--5853974 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
5853911 GTTATCCGAT
*
5853921 TTACTCCCTATTGACTCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
* *
5853949 TTACTCCCTGTTTACCCAAAGGTCAT
1 TTACTCCCTATTGACCCAAAGGTCAT
5853975 ACCTGTTGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (28 bp):
TTACTCCCTATTGACCCAAAGGTCATGC
Found at i:5856490 original size:14 final size:15
Alignment explanation
Indices: 5856471--5856500 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
5856461 TCGGTGATTT
5856471 ACTGTTCAT-TTATC
1 ACTGTTCATCTTATC
5856485 ACTGTTCATCTTATC
1 ACTGTTCATCTTATC
5856500 A
1 A
5856501 ATATATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (15 bp):
ACTGTTCATCTTATC
Found at i:5857761 original size:20 final size:19
Alignment explanation
Indices: 5857728--5857766 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
5857718 TCTCAACTCG
5857728 TCATCTTTCACATTTCCAA
1 TCATCTTTCACATTTCCAA
*
5857747 TCATCGTTTCTCATTTCCAA
1 TCATC-TTTCACATTTCCAA
5857767 CAAACATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.23, C:0.31, G:0.03, T:0.44
Consensus pattern (19 bp):
TCATCTTTCACATTTCCAA
Found at i:5860691 original size:34 final size:34
Alignment explanation
Indices: 5860633--5860699 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
5860623 TATATATATG
*
5860633 AAAATGCAATGACAATGTAGATGCAGCGACAATA
1 AAAATGCAATGACAATATAGATGCAGCGACAATA
* *
5860667 AAAATGCAATGACATTAATA-ATGCAGGGACAAT
1 AAAATGCAATGACAAT-ATAGATGCAGCGACAAT
5860700 TATACTATAG
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:0.48, C:0.13, G:0.19, T:0.19
Consensus pattern (34 bp):
AAAATGCAATGACAATATAGATGCAGCGACAATA
Found at i:5872699 original size:22 final size:23
Alignment explanation
Indices: 5872674--5872719 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
5872664 TTGCTCTCCT
* *
5872674 TCTTTCTTGTTTTCTTTT-CATC
1 TCTTTCTTCTTTTATTTTGCATC
5872696 TCTTTCTTCTTTTATTTTGCATC
1 TCTTTCTTCTTTTATTTTGCATC
5872719 T
1 T
5872720 GGTTTATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.07, C:0.22, G:0.04, T:0.67
Consensus pattern (23 bp):
TCTTTCTTCTTTTATTTTGCATC
Found at i:5879728 original size:27 final size:26
Alignment explanation
Indices: 5879670--5879722 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
5879660 AGTGAAGAGA
5879670 TAGTATATTTTTTTAATTAGATGCTT
1 TAGTATATTTTTTTAATTAGATGCTT
5879696 TAGTATATTTTTTTAATTAGATGCTT
1 TAGTATATTTTTTTAATTAGATGCTT
5879722 T
1 T
5879723 CTGTATTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.26, C:0.04, G:0.11, T:0.58
Consensus pattern (26 bp):
TAGTATATTTTTTTAATTAGATGCTT
Found at i:5879729 original size:25 final size:26
Alignment explanation
Indices: 5879673--5879730 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 26
5879663 GAAGAGATAG
*
5879673 TATATTTTTTTAATTAGATGCTTTAG
1 TATATTTTTTTAATTAGATGCTTTAC
5879699 TATATTTTTTTAATTAGATGCTTT-C
1 TATATTTTTTTAATTAGATGCTTTAC
*
5879724 TGTATTT
1 TATATTT
5879731 GTAATTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 6 0.20
26 24 0.80
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.60
Consensus pattern (26 bp):
TATATTTTTTTAATTAGATGCTTTAC
Found at i:5883602 original size:145 final size:145
Alignment explanation
Indices: 5883333--5883636 Score: 409
Period size: 145 Copynumber: 2.1 Consensus size: 145
5883323 ATCATGGTTG
* * * * * *
5883333 AAAATAGGACTTTTTGGATACCTGAGGGTAAAATGGTAATTTTAAACTCTCGAGGGCAAAATGGT
1 AAAATGGGACTTTTTAGATACCCGAGGGCAAAAAGGTAATTTTAAACTCTCAAGGGCAAAATGGT
* * *
5883398 AATTTTGGAAAATTTGGGGTTAAAAATGACATTTTAGATGCCTGGGGGTAAAACGATAATTTTT-
66 AATTTTGGAAAATTTGGGGTTAAAAATGACATTTTAGATACCTGAGGGTAAAACAATAATTTTTA
*
5883462 GAAAGAATCGGGATAA
131 GAAA-AATCGAGATAA
* *
5883478 AAAATGGGACTTTTTAGATGCCCGAGGGCAAAAAGGTAATTTTAGACTCTCAAGGGCAAAATGGT
1 AAAATGGGACTTTTTAGATACCCGAGGGCAAAAAGGTAATTTTAAACTCTCAAGGGCAAAATGGT
* *
5883543 AATTTTAGGAAAATTTGGGGTTAAAAATGAC-TTTTAGATA-ATCGAGGGTAAAATAATAATTTT
66 AATTTT-GGAAAATTTGGGGTTAAAAATGACATTTTAGATACCT-GAGGGTAAAACAATAATTTT
*
5883606 TAGAAAAATCGATATAA
129 TAGAAAAATCGAGATAA
*
5883623 AAAAAGGGA-TTTTT
1 AAAATGGGACTTTTT
5883637 GGACATCTGG
Statistics
Matches: 140, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
144 6 0.04
145 106 0.76
146 28 0.20
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (145 bp):
AAAATGGGACTTTTTAGATACCCGAGGGCAAAAAGGTAATTTTAAACTCTCAAGGGCAAAATGGT
AATTTTGGAAAATTTGGGGTTAAAAATGACATTTTAGATACCTGAGGGTAAAACAATAATTTTTA
GAAAAATCGAGATAA
Found at i:5883683 original size:145 final size:144
Alignment explanation
Indices: 5883339--5883716 Score: 406
Period size: 145 Copynumber: 2.6 Consensus size: 144
5883329 GTTGAAAATA
* * *
5883339 GGACTTTTTGGATACCTGAGGGTAAAATGGTAATTTTAAACTCTCGAGGGCAAAATGGTAATTTT
1 GGACTTTTTGGATACCTGAGGGTAAAATGGTAATTTTAGACTTTAG-GGGCAAAATGGTAATTTT
* * *
5883404 GGAAAATTTGGGGTTAAAAATGACATTTTAGATGCCTGGGGGTAAAACGATAATTTTTGAAAGAA
65 GGAAAATTTGGGGTTAAAAATGACATTTTAGATACCTGAGGGTAAAACAATAATTTTTGAAAGAA
* *
5883469 TCGGGATAAAAAATG
130 TCGAGATAAAAAAAG
* * * * * * *
5883484 GGACTTTTTAGATGCCCGAGGGCAAAAAGGTAATTTTAGACTCTCAAGGGCAAAATGGTAATTTT
1 GGACTTTTTGGATACCTGAGGGTAAAATGGTAATTTTAGACT-TTAGGGGCAAAATGGTAATTTT
* *
5883549 AGGAAAATTTGGGGTTAAAAATGAC-TTTTAGATA-ATCGAGGGTAAAATAATAATTTTTAGAAA
65 -GGAAAATTTGGGGTTAAAAATGACATTTTAGATACCT-GAGGGTAAAACAATAATTTTT-GAAA
*
5883612 -AATCGATATAAAAAAAG
127 GAATCGAGATAAAAAAAG
* * * * *
5883629 GGA-TTTTTGGACATCTGGGGGTAAAATGGTAATTTTGAGAGTTTTGGGGTCAAAAATGG-AATT
1 GGACTTTTTGGATACCTGAGGGTAAAATGGTAATTTT-AGACTTTAGGGG-C-AAAATGGTAA-T
* **
5883692 TTTGGAAATTTTAAGGTTAAAAATG
62 TTTGGAAAATTTGGGGTTAAAAATG
5883717 GAATTTTTGG
Statistics
Matches: 192, Mismatches: 33, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
144 30 0.16
145 123 0.64
146 39 0.20
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (144 bp):
GGACTTTTTGGATACCTGAGGGTAAAATGGTAATTTTAGACTTTAGGGGCAAAATGGTAATTTTG
GAAAATTTGGGGTTAAAAATGACATTTTAGATACCTGAGGGTAAAACAATAATTTTTGAAAGAAT
CGAGATAAAAAAAG
Found at i:5883687 original size:30 final size:31
Alignment explanation
Indices: 5883651--5883891 Score: 225
Period size: 30 Copynumber: 8.1 Consensus size: 31
5883641 ATCTGGGGGT
* *
5883651 AAAATGGTAA-TTTT-GAGAGTTTTGGGGTCA
1 AAAATGGTAATTTTTGGA-AGTTTTAGGGTTA
* *
5883681 AAAATGG-AATTTTTGGAAATTTTAAGGTTA
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
**
5883711 AAAATGG-AATTTTTGGAAGTTCAAGGG-TA
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
* * * **
5883740 AAAA-CGTAATTTTGGGAAGCTTCGGGGTTA
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
* *
5883770 AAAAT-GTAATTTTTGGAGGTTTCAGGGTTA
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
* *
5883800 AAAATGG-AATTTTTAGAAGTTTTGGGGTT-
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
* *
5883829 AAAAT-GCAATTTTTGGAAGTTTTAGGGTAA
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
* *
5883859 AAAAT-GTAATTTTTGGAAGTTTCAGGGTCA
1 AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
5883889 AAA
1 AAA
5883892 TATAATTTTC
Statistics
Matches: 175, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
28 2 0.01
29 47 0.27
30 123 0.70
31 3 0.02
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (31 bp):
AAAATGGTAATTTTTGGAAGTTTTAGGGTTA
Found at i:5883713 original size:59 final size:59
Alignment explanation
Indices: 5883651--5883914 Score: 241
Period size: 59 Copynumber: 4.5 Consensus size: 59
5883641 ATCTGGGGGT
* * **
5883651 AAAATGGTAA-TTTT-GAGAGTTTTGGGGTCAAAAATGGAATTTTTGGAAATTTTAAGGTTA
1 AAAAT-GTAATTTTTGGA-AGTTTTAGGGT-AAAAATGGAATTTTTGGAAGTTTTGGGGTTA
* ** * * * * *
5883711 AAAATGGAATTTTTGGAAGTTCAAGGGTAAAAACGTAATTTTGGGAAGCTTCGGGGTTA
1 AAAATGTAATTTTTGGAAGTTTTAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTTA
* * *
5883770 AAAATGTAATTTTTGGAGGTTTCAGGGTTAAAAATGGAATTTTTAGAAGTTTTGGGGTT-
1 AAAATGTAATTTTTGGAAGTTTTAGGG-TAAAAATGGAATTTTTGGAAGTTTTGGGGTTA
* * ** *
5883829 AAAATGCAATTTTTGGAAGTTTTAGGGTAAAAAATGTAATTTTTGGAAGTTTCAGGG-TC
1 AAAATGTAATTTTTGGAAGTTTTAGGGT-AAAAATGGAATTTTTGGAAGTTTTGGGGTTA
* *
5883888 AAAATATAATTTTCGGACAG-TTTAGGG
1 AAAATGTAATTTTTGGA-AGTTTTAGGG
5883915 ACCTCCACTT
Statistics
Matches: 166, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
58 2 0.01
59 118 0.71
60 44 0.27
61 2 0.01
ACGTcount: A:0.34, C:0.04, G:0.26, T:0.36
Consensus pattern (59 bp):
AAAATGTAATTTTTGGAAGTTTTAGGGTAAAAATGGAATTTTTGGAAGTTTTGGGGTTA
Found at i:5883799 original size:89 final size:89
Alignment explanation
Indices: 5883647--5883891 Score: 285
Period size: 89 Copynumber: 2.8 Consensus size: 89
5883637 GGACATCTGG
** * * * * * *
5883647 GGGTAAAATGGTAATTTTGAG-AGTTTTGGGGTCAAAAATGGAATTTTTGGAAATTTTAAGGTTA
1 GGGTAAAAACGTAATTTTGGGAAGTTTTGGGGTAAAAAATGTAATTTTTGGAAGTTTCAGGGTTA
*
5883711 AAAATGGAATTTTTGGAAGTTCAA
66 AAAATGGAATTTTTAGAAGTTCAA
* * * *
5883735 GGGTAAAAACGTAATTTTGGGAAGCTTCGGGGTTAAAAATGTAATTTTTGGAGGTTTCAGGGTTA
1 GGGTAAAAACGTAATTTTGGGAAGTTTTGGGGTAAAAAATGTAATTTTTGGAAGTTTCAGGGTTA
***
5883800 AAAATGGAATTTTTAGAAGTTTTG
66 AAAATGGAATTTTTAGAAGTTCAA
* * * * * *
5883824 GGGTTAAAATGCAATTTTTGGAAGTTTTAGGGTAAAAAATGTAATTTTTGGAAGTTTCAGGGTCA
1 GGGTAAAAACGTAATTTTGGGAAGTTTTGGGGTAAAAAATGTAATTTTTGGAAGTTTCAGGGTTA
5883889 AAA
66 AAA
5883892 TATAATTTTC
Statistics
Matches: 131, Mismatches: 25, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
88 18 0.14
89 113 0.86
ACGTcount: A:0.34, C:0.04, G:0.27, T:0.36
Consensus pattern (89 bp):
GGGTAAAAACGTAATTTTGGGAAGTTTTGGGGTAAAAAATGTAATTTTTGGAAGTTTCAGGGTTA
AAAATGGAATTTTTAGAAGTTCAA
Found at i:5883910 original size:30 final size:29
Alignment explanation
Indices: 5883688--5883914 Score: 136
Period size: 30 Copynumber: 7.7 Consensus size: 29
5883678 TCAAAAATGG
* * * **
5883688 AATTTTTGGAAATTTTAAGGTTAAAAATGG
1 AATTTTTGG-AAGTTTAGGGTAAAAAATAT
* **
5883718 AATTTTTGGAAGTTCAAGGGT-AAAAACGT
1 AATTTTTGGAAGTT-TAGGGTAAAAAATAT
* ** * *
5883747 AATTTTGGGAAGCTTCGGGGTTAAAAATGT
1 AATTTTTGGAAG-TTTAGGGTAAAAAATAT
* * **
5883777 AATTTTTGGAGGTTTCAGGGTTAAAAATGG
1 AATTTTTGGAAGTTT-AGGGTAAAAAATAT
* * * **
5883807 AATTTTTAGAAGTTTTGGGGT-TAAAATGC
1 AATTTTTGGAAG-TTTAGGGTAAAAAATAT
*
5883836 AATTTTTGGAAGTTTTAGGGTAAAAAATGT
1 AATTTTTGGAAG-TTTAGGGTAAAAAATAT
*
5883866 AATTTTTGGAAGTTTCAGGGT-CAAAATAT
1 AATTTTTGGAAGTTT-AGGGTAAAAAATAT
*
5883895 AATTTTCGGACAGTTTAGGG
1 AATTTTTGGA-AGTTTAGGG
5883915 ACCTCCACTT
Statistics
Matches: 163, Mismatches: 26, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
29 74 0.45
30 86 0.53
31 3 0.02
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAGTTTAGGGTAAAAAATAT
Found at i:5885745 original size:29 final size:30
Alignment explanation
Indices: 5885711--5886030 Score: 248
Period size: 30 Copynumber: 10.8 Consensus size: 30
5885701 AAAATCGATA
*
5885711 TCAAAAATGGGATTTTTGGACA-TTTGGGGG
1 TCAAAAATGGAATTTTTGGA-AGTTTGGGGG
* *
5885741 T--AAAATGGTAA--TTTCGAGAGTTTTGGGG
1 TCAAAAATGG-AATTTTTGGA-AGTTTGGGGG
*
5885769 TCAAAAATGGAATTTTTGGAAGTTT-GAGG
1 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
*
5885798 TCAAAAAATGAAATTTTTGGAAGTTTGGGGG
1 TC-AAAAATGGAATTTTTGGAAGTTTGGGGG
** *
5885829 T-AAAAATACAATTTTGGGAAGCTTT-GGGG
1 TCAAAAATGGAATTTTTGGAAG-TTTGGGGG
***
5885858 TCAAAAATGGAATTTTTGGAAG-TTCAAGG
1 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
* ***
5885887 TCAAAAATGTAATTTTTGGAAGTTTCAAGG
1 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
* * **
5885917 TTAAAAATGGAATTTTTAGAAGTTTTAGGG
1 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
* * * *
5885947 T-TAAAATGCAATTTTTGGAAGTTTTGAGG
1 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
* * * *
5885976 TAAAAAATGTAATTTTTGGAAGTTTCGAGG
1 TCAAAAATGGAATTTTTGGAAGTTTGGGGG
* *
5886006 -CCAAAATGTAATTTTTGGACAGTTT
1 TCAAAAATGGAATTTTTGGA-AGTTT
5886031 AGGGACCTTC
Statistics
Matches: 244, Mismatches: 32, Indels: 28
0.80 0.11 0.09
Matches are distributed among these distances:
27 6 0.02
28 17 0.07
29 94 0.39
30 118 0.48
31 9 0.04
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (30 bp):
TCAAAAATGGAATTTTTGGAAGTTTGGGGG
Found at i:5885793 original size:30 final size:30
Alignment explanation
Indices: 5885759--5886030 Score: 268
Period size: 30 Copynumber: 9.2 Consensus size: 30
5885749 TAATTTCGAG
*
5885759 AGTTTTGGGGTCAAAAATGGAATTTTTGGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
*
5885789 AG-TTTGAGGTCAAAAAATGAAATTTTTGGA
1 AGTTTTGAGGTC-AAAAATGGAATTTTTGGA
* * ** *
5885819 AGTTTGGGGGT-AAAAATACAATTTTGGGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
* *
5885848 AGCTTTGGGGTCAAAAATGGAATTTTTGGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
** *
5885878 AG-TTCAAGGTCAAAAATGTAATTTTTGGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
** * *
5885907 AGTTTCAAGGTTAAAAATGGAATTTTTAGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
* *
5885937 AGTTTT-AGGGT-TAAAATGCAATTTTTGGA
1 AGTTTTGA-GGTCAAAAATGGAATTTTTGGA
* *
5885966 AGTTTTGAGGTAAAAAATGTAATTTTTGGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
* * *
5885996 AGTTTCGAGG-CCAAAATGTAATTTTTGGA
1 AGTTTTGAGGTCAAAAATGGAATTTTTGGA
5886025 CAGTTT
1 -AGTTT
5886031 AGGGACCTTC
Statistics
Matches: 206, Mismatches: 28, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
29 99 0.48
30 101 0.49
31 6 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (30 bp):
AGTTTTGAGGTCAAAAATGGAATTTTTGGA
Found at i:5885842 original size:59 final size:60
Alignment explanation
Indices: 5885759--5886000 Score: 269
Period size: 59 Copynumber: 4.1 Consensus size: 60
5885749 TAATTTCGAG
* * *
5885759 AGTTTTGGGGTCAAAAATGGAATTTTTGGAAG-TTTGAGGTCAAAAAATGAAATTTTTGGA
1 AGTTTTAGGGTCAAAAATGCAATTTTTGGAAGCTTTGAGGT-AAAAAATGGAATTTTTGGA
** * * * *
5885819 AGTTTGGGGGT-AAAAATACAATTTTGGGAAGCTTTGGGGTCAAAAATGGAATTTTTGGA
1 AGTTTTAGGGTCAAAAATGCAATTTTTGGAAGCTTTGAGGTAAAAAATGGAATTTTTGGA
* * * * * *
5885878 AG-TTCAAGGTCAAAAATGTAATTTTTGGAAG-TTTCAAGGTTAAAAATGGAATTTTTAGA
1 AGTTTTAGGGTCAAAAATGCAATTTTTGGAAGCTTT-GAGGTAAAAAATGGAATTTTTGGA
* * *
5885937 AGTTTTAGGGT-TAAAATGCAATTTTTGGAAGTTTTGAGGTAAAAAATGTAATTTTTGGA
1 AGTTTTAGGGTCAAAAATGCAATTTTTGGAAGCTTTGAGGTAAAAAATGGAATTTTTGGA
5885996 AGTTT
1 AGTTT
5886001 CGAGGCCAAA
Statistics
Matches: 152, Mismatches: 25, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
58 8 0.05
59 118 0.78
60 26 0.17
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (60 bp):
AGTTTTAGGGTCAAAAATGCAATTTTTGGAAGCTTTGAGGTAAAAAATGGAATTTTTGGA
Found at i:5885879 original size:89 final size:90
Alignment explanation
Indices: 5885762--5886001 Score: 317
Period size: 89 Copynumber: 2.7 Consensus size: 90
5885752 TTTCGAGAGT
* **
5885762 TTTGGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGTCAAAAAATGAAATTTTTGGAAGTTT-GG
1 TTTGGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGTCAAAAAATGTAATTTTTGGAAGTTTCAA
*
5885826 GGGTAAAAATACAATTTTGGGAAGC
66 GGGTAAAAATACAATTTTGAGAAGC
**
5885851 TTTGGGGTCAAAAATGGAATTTTTGGAAGTTCAAGGTC-AAAAATGTAATTTTTGGAAGTTTCAA
1 TTTGGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGTCAAAAAATGTAATTTTTGGAAGTTTCAA
* ** * *
5885915 GGTTAAAAATGGAATTTTTAGAAGT
66 GGGTAAAAATACAATTTTGAGAAGC
* * *
5885940 TTTAGGGT-TAAAATGCAATTTTTGGAAGTTTTGAGGT-AAAAAATGTAATTTTTGGAAGTTTC
1 TTTGGGGTCAAAAATGGAATTTTTGGAAG-TTTGAGGTCAAAAAATGTAATTTTTGGAAGTTTC
5886002 GAGGCCAAAA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
88 40 0.30
89 92 0.70
ACGTcount: A:0.35, C:0.04, G:0.25, T:0.36
Consensus pattern (90 bp):
TTTGGGGTCAAAAATGGAATTTTTGGAAGTTTGAGGTCAAAAAATGTAATTTTTGGAAGTTTCAA
GGGTAAAAATACAATTTTGAGAAGC
Found at i:5886012 original size:59 final size:59
Alignment explanation
Indices: 5885770--5886030 Score: 267
Period size: 59 Copynumber: 4.4 Consensus size: 59
5885760 GTTTTGGGGT
* * * *
5885770 CAAAAATGGAATTTTTGGAAG-TTTGAGGTCAAAAAATGAAATTTTTGGAAGTTTGGGGG
1 CAAAAATGCAATTTTTGGAAGTTTTGAGGT-AAAAAATGGAATTTTTGGAAGTTTCGAGG
* * * * * * *
5885829 TAAAAATACAATTTTGGGAAGCTTTGGGGTCAAAAATGGAATTTTTGGAAG-TTCAAGG
1 CAAAAATGCAATTTTTGGAAGTTTTGAGGTAAAAAATGGAATTTTTGGAAGTTTCGAGG
* ** * * *
5885887 TCAAAAATGTAATTTTTGGAAGTTTCAAGGTTAAAAATGGAATTTTTAGAAGTTT-TAGGG
1 -CAAAAATGCAATTTTTGGAAGTTTTGAGGTAAAAAATGGAATTTTTGGAAGTTTCGA-GG
** *
5885947 TTAAAATGCAATTTTTGGAAGTTTTGAGGTAAAAAATGTAATTTTTGGAAGTTTCGAGG
1 CAAAAATGCAATTTTTGGAAGTTTTGAGGTAAAAAATGGAATTTTTGGAAGTTTCGAGG
* *
5886006 CCAAAATGTAATTTTTGGACAGTTT
1 CAAAAATGCAATTTTTGGA-AGTTT
5886031 AGGGACCTTC
Statistics
Matches: 163, Mismatches: 33, Indels: 11
0.79 0.16 0.05
Matches are distributed among these distances:
58 4 0.02
59 142 0.87
60 17 0.10
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.36
Consensus pattern (59 bp):
CAAAAATGCAATTTTTGGAAGTTTTGAGGTAAAAAATGGAATTTTTGGAAGTTTCGAGG
Found at i:5887102 original size:22 final size:23
Alignment explanation
Indices: 5887065--5887107 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
5887055 TTCGTGTTTT
5887065 TTATTATTAATAGTTAATAATTA
1 TTATTATTAATAGTTAATAATTA
*
5887088 TTATTATT-ATAGTTATTAAT
1 TTATTATTAATAGTTAATAAT
5887108 ATCATTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
TTATTATTAATAGTTAATAATTA
Found at i:5887149 original size:19 final size:20
Alignment explanation
Indices: 5887120--5887175 Score: 78
Period size: 19 Copynumber: 2.8 Consensus size: 20
5887110 CATTAATGGC
*
5887120 ATTACATTATTATTATTACT
1 ATTACATTATTATTAATACT
5887140 ATTA-ATTATTATTAATACT
1 ATTACATTATTATTAATACT
*
5887159 ATTACTATTATAATTAA
1 ATTAC-ATTATTATTAA
5887176 CATTAGCGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 18 0.56
20 4 0.12
21 10 0.31
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTACATTATTATTAATACT
Found at i:5887893 original size:17 final size:18
Alignment explanation
Indices: 5887857--5887910 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
5887847 CTATTTGGGT
*
5887857 TTTTAATATCAATTTAAA
1 TTTTAATATAAATTTAAA
*
5887875 TTTTAAT-TAAATTTGAA
1 TTTTAATATAAATTTAAA
*
5887892 -TTTAACAATAAATTTAAA
1 TTTTAA-TATAAATTTAAA
5887910 T
1 T
5887911 CTATTCAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
16 5 0.17
17 8 0.28
18 16 0.55
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTTAATATAAATTTAAA
Found at i:5896770 original size:33 final size:34
Alignment explanation
Indices: 5896728--5896794 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
5896718 TGTATTATTA
* **
5896728 TTTAGTATAAATATTTTTTTAAT-AATTTACGTT
1 TTTAATATAAATATAATTTTAATAAATTTACGTT
5896761 TTTAATATAAATATAATTTTAATAAAATTTACGT
1 TTTAATATAAATATAATTTTAAT-AAATTTACGT
5896795 ATAATTTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 20 0.69
35 9 0.31
ACGTcount: A:0.40, C:0.03, G:0.04, T:0.52
Consensus pattern (34 bp):
TTTAATATAAATATAATTTTAATAAATTTACGTT
Found at i:5899306 original size:24 final size:24
Alignment explanation
Indices: 5899268--5899318 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5899258 ATATACTGGT
*
5899268 TAACCATTCTAGGCTCGTAAGAGC
1 TAACCATCCTAGGCTCGTAAGAGC
* *
5899292 TAACCATCCTGGGCTCGTGAGAGC
1 TAACCATCCTAGGCTCGTAAGAGC
5899316 TAA
1 TAA
5899319 TGTTGTTTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (24 bp):
TAACCATCCTAGGCTCGTAAGAGC
Found at i:5900079 original size:21 final size:21
Alignment explanation
Indices: 5900029--5900080 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
5900019 GGAGTTTTTA
* *
5900029 GTATCGGTAGAAGTATGACAT
1 GTATTGGTAGAAGTATCACAT
* *
5900050 GT-TTCGGTAGAAGTCTCACTT
1 GTATT-GGTAGAAGTATCACAT
5900071 GTATTGGTAG
1 GTATTGGTAG
5900081 TATTACCTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 1 0.04
21 22 0.88
22 2 0.08
ACGTcount: A:0.25, C:0.12, G:0.29, T:0.35
Consensus pattern (21 bp):
GTATTGGTAGAAGTATCACAT
Found at i:5905363 original size:12 final size:12
Alignment explanation
Indices: 5905346--5905373 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
5905336 AAGAGAGAAT
5905346 ACTTAATTCGCA
1 ACTTAATTCGCA
5905358 ACTTAATTCGCA
1 ACTTAATTCGCA
5905370 ACTT
1 ACTT
5905374 TTTACCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.32, C:0.25, G:0.07, T:0.36
Consensus pattern (12 bp):
ACTTAATTCGCA
Found at i:5906408 original size:5 final size:5
Alignment explanation
Indices: 5906398--5906429 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
5906388 GAGTATTCAA
*
5906398 TCGAG TCGAG TCGAG TCGAG TCGAA TCGAG TC
1 TCGAG TCGAG TCGAG TCGAG TCGAG TCGAG TC
5906430 AAAAAATTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.34, T:0.22
Consensus pattern (5 bp):
TCGAG
Found at i:5909688 original size:20 final size:22
Alignment explanation
Indices: 5909663--5909703 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
5909653 CATAAAAATT
5909663 TTATTA-AAAATAA-TTAAAAA
1 TTATTAGAAAATAACTTAAAAA
*
5909683 TTATTAGAAATTAACTTAAAA
1 TTATTAGAAAATAACTTAAAA
5909704 CTAAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 6 0.33
22 6 0.33
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (22 bp):
TTATTAGAAAATAACTTAAAAA
Found at i:5909701 original size:22 final size:22
Alignment explanation
Indices: 5909649--5909703 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
5909639 AGACTTCACG
*
5909649 TTAACATAAAAATTTTATTAAAA
1 TTAACTTAAAAA-TTTATTAAAA
*
5909672 ATAA-TTAAAAA-TTATTAGAAA
1 TTAACTTAAAAATTTATTA-AAA
5909693 TTAACTTAAAA
1 TTAACTTAAAA
5909704 CTAAATTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 12 0.44
23 3 0.11
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TTAACTTAAAAATTTATTAAAA
Found at i:5909898 original size:20 final size:19
Alignment explanation
Indices: 5909867--5909928 Score: 61
Period size: 20 Copynumber: 3.1 Consensus size: 19
5909857 GGTTTAAATC
*
5909867 TAATAAAATTTTATGATTTT
1 TAATAAATTTTTAT-ATTTT
*
5909887 TAATTAATTTTTAATATTTT
1 TAATAAATTTTT-ATATTTT
*
5909907 TTATAAATTTATTATATATTT
1 TAATAAATTT-TTATAT-TTT
5909928 T
1 T
5909929 TTTATAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 27 0.77
21 8 0.23
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TAATAAATTTTTATATTTT
Found at i:5909933 original size:23 final size:21
Alignment explanation
Indices: 5909882--5909940 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 21
5909872 AAATTTTATG
* *
5909882 ATTTTTAATTAATTT-TTAAT
1 ATTTTTTATAAATTTATTAAT
5909902 ATTTTTTATAAATTTATTATAT
1 ATTTTTTATAAATTTATTA-AT
*
5909924 ATTTTTTTATAATTTTA
1 A-TTTTTTATAAATTTA
5909941 GAATGTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.39
21 3 0.09
22 3 0.09
23 14 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
ATTTTTTATAAATTTATTAAT
Found at i:5913264 original size:5 final size:5
Alignment explanation
Indices: 5913254--5913291 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
5913244 TATTAAATAT
*
5913254 TAAAA TAAAA TAAAA TAAAA TAAATA TTAAA -AAAA TAA
1 TAAAA TAAAA TAAAA TAAAA TAAA-A TAAAA TAAAA TAA
5913292 TATGAGCAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 3 0.10
5 22 0.76
6 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (5 bp):
TAAAA
Found at i:5915216 original size:70 final size:66
Alignment explanation
Indices: 5915086--5915218 Score: 158
Period size: 70 Copynumber: 2.0 Consensus size: 66
5915076 ATAAACAATA
* * *
5915086 TAATGGTTTTGCCTTTTAATTTAATGGTAAACATTTATCAAAACGACATAATTTTGCCTTTTAAC
1 TAATGGTTTTGACTTTTAATTTAAAGGTAAACATTTATCAAAACGACATAATTTTACCTTTTAAC
5915151 T
66 T
* * ** *
5915152 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAATATTTATCAAAATGATGTAGTTTTACCTTT
1 TAATGGTTTTGACTTTTAA-TTT---AAAGGTAAACATTTATCAAAACGACATAATTTTACCTTT
5915217 TA
62 TA
5915219 TTATTTGGAT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
66 18 0.33
67 3 0.05
70 34 0.62
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (66 bp):
TAATGGTTTTGACTTTTAATTTAAAGGTAAACATTTATCAAAACGACATAATTTTACCTTTTAAC
T
Found at i:5918310 original size:18 final size:20
Alignment explanation
Indices: 5918261--5918320 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 20
5918251 CTGCAATTTT
5918261 ATAAATAATGTTTTTAAATA
1 ATAAATAATGTTTTTAAATA
5918281 ATAAATAATGTTTTT-AA-A
1 ATAAATAATGTTTTTAAATA
* * *
5918299 ATTAATATTGTTTTTTAATA
1 ATAAATAATGTTTTTAAATA
5918319 AT
1 AT
5918321 CATTATAGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
18 14 0.39
19 4 0.11
20 18 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATAAATAATGTTTTTAAATA
Found at i:5920253 original size:53 final size:52
Alignment explanation
Indices: 5920158--5920261 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 52
5920148 GCTCGGGGGA
*
5920158 AAAATGGTAATTTTGGTCGAAATTGGGATAAAAACAGGATTTTGGAAAGTTT
1 AAAATGGTAATTTTGGTCGAAATCGGGATAAAAACAGGATTTTGGAAAGTTT
* * *
5920210 AAAATGGTAATTTTTGG-CTAAATCGGGGTCAAAAA-TGGAATTTTGGAAAGTT
1 AAAATGGTAA-TTTTGGTCGAAATCGGGAT-AAAAACAGG-ATTTTGGAAAGTT
5920262 CGAGGGTAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
52 21 0.47
53 24 0.53
ACGTcount: A:0.38, C:0.05, G:0.25, T:0.33
Consensus pattern (52 bp):
AAAATGGTAATTTTGGTCGAAATCGGGATAAAAACAGGATTTTGGAAAGTTT
Found at i:5920311 original size:58 final size:56
Alignment explanation
Indices: 5920153--5920454 Score: 255
Period size: 58 Copynumber: 5.3 Consensus size: 56
5920143 TGGATGCTCG
* * * * *
5920153 GGGGAAAAATGGTAATTTTGGTCGAAATTGGGATAAAAACAGG-ATTTTGGAAAG-TT
1 GGGGTAAAATGGTAATTTTGGT-GAAATCGGGGTAAAAA-TGGAATTTTAGAAAGTTT
* *
5920209 ----TAAAATGGTAATTTTTGGCT-AAATCGGGGTCAAAAATGGAATTTTGGAAAGTTC
1 GGGGTAAAATGGTAA-TTTTGG-TGAAATCGGGGT-AAAAATGGAATTTTAGAAAGTTT
* *
5920263 GAGGGTAAAATGGTAATTTTGGTGAAATTAGGGGTAAAAATGGAATTTTAGTAAGTTT
1 G-GGGTAAAATGGTAATTTTGGTGAAA-TCGGGGTAAAAATGGAATTTTAGAAAGTTT
* * *
5920321 GGGGGTAAAATGGTAGTTTTGGTGAAATCGGGGTTAAAAAAGGAATTTTAAAAAGTTT
1 -GGGGTAAAATGGTAATTTTGGTGAAATCGGGG-TAAAAATGGAATTTTAGAAAGTTT
* * * *
5920379 GGGCGTAAAATGATAA-TTTGGATGAAATCGTGGTTAAAAATGGGATTTT-GAAAATTTT
1 GGG-GTAAAATGGTAATTTTGG-TGAAATCG-GGGTAAAAATGGAATTTTAG-AAAGTTT
*
5920437 AGGGTCAAAAT-GTAATTT
1 GGGGT-AAAATGGTAATTT
5920455 CAAAAAGTTT
Statistics
Matches: 203, Mismatches: 23, Indels: 38
0.77 0.09 0.14
Matches are distributed among these distances:
52 20 0.10
53 22 0.11
54 2 0.01
57 19 0.09
58 120 0.59
59 20 0.10
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.32
Consensus pattern (56 bp):
GGGGTAAAATGGTAATTTTGGTGAAATCGGGGTAAAAATGGAATTTTAGAAAGTTT
Found at i:5920353 original size:29 final size:29
Alignment explanation
Indices: 5920209--5920359 Score: 109
Period size: 29 Copynumber: 5.2 Consensus size: 29
5920199 TTGGAAAGTT
*
5920209 TAAAATGGTAATTTTTGGCT-AAA-TCGGGG
1 TAAAATGGTAA-TTTTGG-TGAAATTGGGGG
*
5920238 TCAAAAATGG-AATTTT-G-GAAAGTTCGAGGG
1 T--AAAATGGTAATTTTGGTGAAA-TT-GGGGG
*
5920268 TAAAATGGTAATTTTGGTGAAATTAGGGG
1 TAAAATGGTAATTTTGGTGAAATTGGGGG
* *
5920297 TAAAAATGG-AATTTTAGT-AAGTTTGGGGG
1 T-AAAATGGTAATTTTGGTGAA-ATTGGGGG
* * *
5920326 TAAAATGGTAGTTTTGGTGAAATCGGGGT
1 TAAAATGGTAATTTTGGTGAAATTGGGGG
5920355 TAAAA
1 TAAAA
5920360 AAGGAATTTT
Statistics
Matches: 97, Mismatches: 12, Indels: 26
0.72 0.09 0.19
Matches are distributed among these distances:
27 3 0.03
28 17 0.18
29 48 0.49
30 18 0.19
31 11 0.11
ACGTcount: A:0.34, C:0.03, G:0.30, T:0.32
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGTGAAATTGGGGG
Found at i:5920533 original size:59 final size:59
Alignment explanation
Indices: 5920423--5920631 Score: 280
Period size: 59 Copynumber: 3.6 Consensus size: 59
5920413 TAAAAATGGG
* * *
5920423 ATTTT-GAAAATTTTAGGGTCAAAATGTAA-TTTCAAAAAGTTTTAAGGTTAAAATATA
1 ATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
*
5920480 ATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATGTA
1 ATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
* * * *
5920539 ATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTTAGAAAGTTTTAGAG-TCAAATATA
1 ATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
* * * *
5920597 ATTTTGGAGAAGTTTTGGGGTTAATATGCAATTTT
1 ATTTTGGAAAAG-TTTGGGGTCAAAATGTAATTTT
5920632 TGGACAACTT
Statistics
Matches: 136, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
57 5 0.04
58 40 0.29
59 91 0.67
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.39
Consensus pattern (59 bp):
ATTTTGGAAAAGTTTGGGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
Found at i:5920580 original size:88 final size:89
Alignment explanation
Indices: 5920429--5920631 Score: 200
Period size: 88 Copynumber: 2.3 Consensus size: 89
5920419 TGGGATTTTG
* * *
5920429 AAAA-TTTTAGGGTCAAAATGTAA-TTTCAAAAAGTTTTAAGGTTAAAATATAATTTTGGAAAAG
1 AAAAGTTTTAGGGTTAAAATGTAATTTTCAAAAAGTTTTAAGGTCAAAATATAATTTTAGAAAAG
* * *
5920492 -TTTGGGGTCAAAATGTAATTTTCA
66 TTTTAGAGTC-AAATATAATTTTCA
** ** *
5920516 AAAAGTTTTAGGGTTAAAATGTAATTTTGGAAAAG-TTTGGGGTCAAAATGTAATTTTTAG-AAA
1 AAAAGTTTTAGGGTTAAAATGTAATTTTCAAAAAGTTTTAAGGTCAAAATATAA-TTTTAGAAAA
**
5920579 GTTTTAGAGTCAAATATAATTTTGG
65 GTTTTAGAGTCAAATATAATTTTCA
* * * *
5920604 AGAAGTTTTGGGGTTAATATGCAATTTT
1 AAAAGTTTTAGGGTTAAAATGTAATTTT
5920632 TGGACAACTT
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
87 4 0.04
88 71 0.75
89 20 0.21
ACGTcount: A:0.38, C:0.03, G:0.20, T:0.38
Consensus pattern (89 bp):
AAAAGTTTTAGGGTTAAAATGTAATTTTCAAAAAGTTTTAAGGTCAAAATATAATTTTAGAAAAG
TTTTAGAGTCAAATATAATTTTCA
Found at i:5920609 original size:29 final size:30
Alignment explanation
Indices: 5920423--5920631 Score: 198
Period size: 29 Copynumber: 7.2 Consensus size: 30
5920413 TAAAAATGGG
5920423 ATTTT-GAAAA-TTTTAGGGTCAAAATGTA
1 ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
** * * *
5920451 A-TTTCAAAAAGTTTTAAGGTTAAAATATA
1 ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
*
5920480 ATTTTGGAAAAG-TTTGGGGTCAAAATGTA
1 ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
** *
5920509 ATTTTCAAAAAGTTTTAGGGTTAAAATGTA
1 ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
*
5920539 ATTTTGGAAAAG-TTTGGGGTCAAAATGTA
1 ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
* * *
5920568 ATTTT-TAGAAAGTTTTAGAGTC-AAATATA
1 ATTTTGGA-AAAGTTTTAGGGTCAAAATGTA
* * * * *
5920597 ATTTTGGAGAAGTTTTGGGGTTAATATGCA
1 ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
5920627 ATTTT
1 ATTTT
5920632 TGGACAACTT
Statistics
Matches: 143, Mismatches: 30, Indels: 14
0.76 0.16 0.07
Matches are distributed among these distances:
27 3 0.02
28 6 0.04
29 84 0.59
30 50 0.35
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.39
Consensus pattern (30 bp):
ATTTTGGAAAAGTTTTAGGGTCAAAATGTA
Found at i:5921868 original size:16 final size:15
Alignment explanation
Indices: 5921846--5921889 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
5921836 TTTTAGTAAC
5921846 ATTATTATTAATAAT
1 ATTATTATTAATAAT
5921861 ACTTATTATT-ATAA-
1 A-TTATTATTAATAAT
*
5921875 AGTATTATTAATAAT
1 ATTATTATTAATAAT
5921890 GCTAAAGTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 5 0.20
16 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (15 bp):
ATTATTATTAATAAT
Found at i:5922527 original size:6 final size:6
Alignment explanation
Indices: 5922518--5922607 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
5922508 AATTTGATTG
* **
5922518 AATTTA AATTTA AA-ATA AATTTA AATTTAAA AAGATA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT--A AATTTA AATTTA AATTTA
* * ** *
5922567 AAATT- ATTTTA AATTTA AAAATA AATTTG AA-TT- AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
5922608 CCTAATTTTA
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
4 2 0.03
5 11 0.17
6 46 0.73
8 4 0.06
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (6 bp):
AATTTA
Found at i:5922540 original size:17 final size:18
Alignment explanation
Indices: 5922518--5922599 Score: 105
Period size: 17 Copynumber: 4.6 Consensus size: 18
5922508 AATTTGATTG
5922518 AATTTAAATTT-AAAATA
1 AATTTAAATTTAAAAATA
5922535 AATTTAAATTTAAAAAGATA
1 AATTTAAATTT-AAAA-ATA
*
5922555 AATTTAAATTT-AAAATT
1 AATTTAAATTTAAAAATA
*
5922572 ATTTTAAATTTAAAAATA
1 AATTTAAATTTAAAAATA
*
5922590 AATTTGAATT
1 AATTTAAATT
5922600 AATTTAAACC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
17 23 0.41
18 16 0.29
19 3 0.05
20 14 0.25
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (18 bp):
AATTTAAATTTAAAAATA
Found at i:5922560 original size:37 final size:35
Alignment explanation
Indices: 5922518--5922599 Score: 119
Period size: 37 Copynumber: 2.3 Consensus size: 35
5922508 AATTTGATTG
5922518 AATTTAAATTTAAAATAAATTTAAATTTAAAAAGATA
1 AATTTAAATTTAAAATAAATTTAAATTT-AAAA-ATA
* *
5922555 AATTTAAATTTAAAATTATTTTAAATTTAAAAATA
1 AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
*
5922590 AATTTGAATT
1 AATTTAAATT
5922600 AATTTAAACC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
35 12 0.29
36 4 0.10
37 26 0.62
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (35 bp):
AATTTAAATTTAAAATAAATTTAAATTTAAAAATA
Found at i:5923025 original size:92 final size:92
Alignment explanation
Indices: 5922875--5923557 Score: 1120
Period size: 92 Copynumber: 7.4 Consensus size: 92
5922865 GACGTCTAGG
* * * * *
5922875 CTTCATCTTACTCTTATTACAACTTCAGAGAGATAAAGATTCGTTATCCGACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
*
5922940 CAAGAGGATAAGAATTGACATTTGAAA
66 CAAGAGGATAAGAATTGACGTTTGAAA
* *
5922967 CTTCATCTTGCTCTTACTATAACTTCAAAGAGATAAAGATTCGTTATCCAACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
5923032 CAAGAGGATAAGAATTGACGTTTGAAA
66 CAAGAGGATAAGAATTGACGTTTGAAA
*
5923059 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGGTTCATTATCCAACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
5923124 CAAGAGGATAAGAATTGACGTTTGAAA
66 CAAGAGGATAAGAATTGACGTTTGAAA
* *
5923151 CTTCATCTTGCTCTTACTATAGCTTCAGAGAGATACAGATTCATTATCCAACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
5923216 CAAGAGGATAAGAATTGACGTTTGAAA
66 CAAGAGGATAAGAATTGACGTTTGAAA
*
5923243 CTTCATCCTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
5923308 CAAGAGGATAAGAATT-ACCGTTTGAAA
66 CAAGAGGATAAGAATTGA-CGTTTGAAA
5923335 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAA-AGTTCATTATCCAACTTTACTATAACT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA-TTCATTATCCAACTTTACTATAACT
* *
5923399 T-ACAGAGGATAAGAATTGAGGTTCGAAA
65 TCA-AGAGGATAAGAATTGACGTTTGAAA
* *
5923427 CTTCATCTTGCTATTACTATAACTTCAGAGAGATAAAGATTCGTTATCCAACTTTACTATAACTT
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
*** *
5923492 CAAGAGGATAAGAATTGATACTTGAAG
66 CAAGAGGATAAGAATTGACGTTTGAAA
* *
5923519 CTTTATCTTGCTCTTACTACAACTTCAGAGAGATAAAGA
1 CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGA
5923558 CTTTTCCTTT
Statistics
Matches: 557, Mismatches: 28, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
91 3 0.01
92 551 0.99
93 3 0.01
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (92 bp):
CTTCATCTTGCTCTTACTATAACTTCAGAGAGATAAAGATTCATTATCCAACTTTACTATAACTT
CAAGAGGATAAGAATTGACGTTTGAAA
Found at i:5923278 original size:52 final size:50
Alignment explanation
Indices: 5923202--5923554 Score: 184
Period size: 52 Copynumber: 7.5 Consensus size: 50
5923192 CATTATCCAA
5923202 CTTTACTATAACTTCA-AGAGGATAAGAATTGACGTTTGAAACTTCATCCTG
1 CTTTACTATAACTTCAGAGA-GATAAGAATTGA-GTTTGAAACTTCATCCTG
* **
5923253 CTCTTACTATAACTTCAGAGAGAT-A-AA--GA--TT--CA-TT-ATCCAA
1 CT-TTACTATAACTTCAGAGAGATAAGAATTGAGTTTGAAACTTCATCCTG
*
5923294 CTTTACTATAACTTCA-AGAGGATAAGAATT-ACCGTTTGAAACTTCATCTTG
1 CTTTACTATAACTTCAGAGA-GATAAGAATTGA--GTTTGAAACTTCATCCTG
* **
5923345 CTCTTACTATAACTTCAGAGAGAT-A-AA---AG-TT--CA-TT-ATCCAA
1 CT-TTACTATAACTTCAGAGAGATAAGAATTGAGTTTGAAACTTCATCCTG
* *
5923386 CTTTACTATAACTTACAGAG-GATAAGAATTGAGGTTCGAAACTTCATCTTG
1 CTTTACTATAACTT-CAGAGAGATAAGAATTGA-GTTTGAAACTTCATCCTG
* **
5923437 CTATTACTATAACTTCAGAGAGAT-A-AA--GA-TTCG----TT-ATCCAA
1 CT-TTACTATAACTTCAGAGAGATAAGAATTGAGTTTGAAACTTCATCCTG
* * *
5923478 CTTTACTATAACTTCA-AGAGGATAAGAATTGA-TACTTGAAGCTTTATCTTG
1 CTTTACTATAACTTCAGAGA-GATAAGAATTGAGT--TTGAAACTTCATCCTG
*
5923529 CTCTTACTACAACTTCAGAGAGATAA
1 CT-TTACTATAACTTCAGAGAGATAA
5923555 AGACTTTTCC
Statistics
Matches: 233, Mismatches: 24, Indels: 89
0.67 0.07 0.26
Matches are distributed among these distances:
39 6 0.03
40 49 0.21
41 24 0.10
42 12 0.05
43 3 0.01
44 3 0.01
45 5 0.02
46 8 0.03
47 3 0.01
48 5 0.02
49 2 0.01
50 12 0.05
51 25 0.11
52 67 0.29
53 9 0.04
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.33
Consensus pattern (50 bp):
CTTTACTATAACTTCAGAGAGATAAGAATTGAGTTTGAAACTTCATCCTG
Found at i:5923735 original size:101 final size:101
Alignment explanation
Indices: 5923555--5924022 Score: 715
Period size: 101 Copynumber: 4.6 Consensus size: 101
5923545 AGAGAGATAA
* * * * *
5923555 AGACTTTTCCTTTTTGTCTTTTTGCGGTACTGGATCTACCGTTGCGGTCTTAGATCTTTCCCGT-
1 AGACCTTTCCTTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTC
* *
5923619 CGTGTCTTTTGAGGTACACGGTCCGCCATTGCGACTT
66 CATG-CTTTTGAGGTACACGGTCCGCCGTTGCGACTT
*
5923656 AGACCTTTCCTTTTTCTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTC
1 AGACCTTTCCTTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTC
* *
5923721 CATGCTTCTGAGGTACACGGTCCGCCGTTGCAACTT
66 CATGCTTTTGAGGTACACGGTCCGCCGTTGCGACTT
*
5923757 AGACCTTTTCC-TTTTGTGTTTTTACGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTT
1 AGACC-TTTCCTTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTT
5923821 CCATGCTTTTGAGGTACACGGTCCGCCGTTGCGACTT
65 CCATGCTTTTGAGGTACACGGTCCGCCGTTGCGACTT
* *
5923858 AGACCTTTCCCTTTTGTGTTTTTTTTGCGGTACTGGATCTTCCATTGCGGTCTTAGATCTTTCCC
1 AGACCTTT-CCTTTT-TG-TGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCC
*
5923923 TTCCATGCTTTTGAGGTACACGGTCTGCCGTTGCGACTT
63 TTCCATGCTTTTGAGGTACACGGTCCGCCGTTGCGACTT
* * * *
5923962 AGACCTTTCCCTTTTGTGTTTTTGCGGTACTAGATCCGCCGTTGCGGTCTTAGATCTTTCC
1 AGACCTTTCCTTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCC
5924023 TGTCGTGTGT
Statistics
Matches: 337, Mismatches: 24, Indels: 12
0.90 0.06 0.03
Matches are distributed among these distances:
100 3 0.01
101 225 0.67
102 13 0.04
103 7 0.02
104 89 0.26
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.40
Consensus pattern (101 bp):
AGACCTTTCCTTTTTGTGTTTTTGCGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTC
CATGCTTTTGAGGTACACGGTCCGCCGTTGCGACTT
Found at i:5923964 original size:205 final size:202
Alignment explanation
Indices: 5923558--5924022 Score: 734
Period size: 205 Copynumber: 2.3 Consensus size: 202
5923548 GAGATAAAGA
* * *
5923558 CTTTTCCTTTTTGTCTTTTTGCGGTACTGGATCTACCGTTGCGGTCTTAGATCTTTCCCGTCGTG
1 CTTTTCC-TTTTGTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCCGTCATG
5923623 TCTTTTGAGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTCTGTTTTTGCGGTACTG
65 TCTTTTGAGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTCTGTTTTTGCGGTACTG
5923688 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCA
130 GATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCA
5923753 ACTTAGAC
195 ACTTAGAC
* * *
5923761 CTTTTCCTTTTGTGTTTTTACGGTACTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATG
1 CTTTTCCTTTTGTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCCGT-CATG
* * *
5923826 -CTTTTGAGGTACACGGTCCGCCGTTGCGACTTAGACCTTTCCCTTTTGTGTTTTTTTTGCGGTA
65 TCTTTTGAGGTACACGGTCCGCCATTGCGACTTAGACCTTT-CCTTTT-T-CTGTTTTTGCGGTA
* * *
5923890 CTGGATCTTCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTTTGAGGTACACGGTCTGCCGTT
127 CTGGATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTT
*
5923955 GCGACTTAGAC
192 GCAACTTAGAC
* * *
5923966 CTTTCCCTTTTGTGTTTTTGCGGTACTAGATCCGCCGTTGCGGTCTTAGATCTTTCC
1 CTTTTCCTTTTGTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCC
5924023 TGTCGTGTGT
Statistics
Matches: 240, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
202 87 0.36
203 16 0.07
204 1 0.00
205 136 0.57
ACGTcount: A:0.12, C:0.26, G:0.22, T:0.41
Consensus pattern (202 bp):
CTTTTCCTTTTGTGTTTTTGCGGTACTGGATCTGCCGTTGCGGTCTTAGATCTTTCCCGTCATGT
CTTTTGAGGTACACGGTCCGCCATTGCGACTTAGACCTTTCCTTTTTCTGTTTTTGCGGTACTGG
ATCTGCCATTGCGGTCTTAGATCTTTCCCTTCCATGCTTCTGAGGTACACGGTCCGCCGTTGCAA
CTTAGAC
Found at i:5925338 original size:16 final size:17
Alignment explanation
Indices: 5925302--5925347 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 17
5925292 TTTATCTTGT
*
5925302 TTTTCTTCTTGTTTTTGA
1 TTTTCTT-TTCTTTTTGA
5925320 TTTTCTTTTCTTTTT-A
1 TTTTCTTTTCTTTTTGA
5925336 TTTGT-TTTTCTT
1 TTT-TCTTTTCTT
5925348 CATTGCATCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 11 0.42
17 8 0.31
18 7 0.27
ACGTcount: A:0.04, C:0.11, G:0.07, T:0.78
Consensus pattern (17 bp):
TTTTCTTTTCTTTTTGA
Found at i:5931594 original size:58 final size:57
Alignment explanation
Indices: 5931530--5931811 Score: 295
Period size: 58 Copynumber: 4.8 Consensus size: 57
5931520 TACCCGGGGA
* * * *
5931530 TAAAATGGTAATTTTGGTCGAAATTGGGATAAAAACGGGATTTTGGAAAGTTAGAGGG
1 TAAAATGGTAATTTTGGT-GAAATCGGGTTAAAAATGGAATTTTGGAAAGTTAGAGGG
*
5931588 TAAAATGGTAATTTTTGGCT-AAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA-AGGG
1 TAAAATGGTAA-TTTTGG-TGAAATC-GGGTTAAAAATGGAATTTTGGAAAGTT-AGAGGG
* * * ** * *
5931647 TAAAATGGTAATTTTAGTAAAATTAAGGG-TAAAAATGGAATTTTAAAAAGTTCGAGAG
1 TAAAATGGTAATTTTGGTGAAA-T-CGGGTTAAAAATGGAATTTTGGAAAGTTAGAGGG
* * *
5931705 TAAAATGGTAGTTTTGGTGAAATCGAAGTTAAAAATGGAATTTTAGAAAGTTTAG-GGG
1 TAAAATGGTAATTTTGGTGAAATCG-GGTTAAAAATGGAATTTTGGAAAG-TTAGAGGG
5931763 TAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATTGG-ATTTTGGAAA
1 TAAAATGGTAATTTTGGTGAAATCG-GGTTAAAAA-TGGAATTTTGGAAA
5931812 ATTTAAGGTC
Statistics
Matches: 189, Mismatches: 23, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
56 1 0.01
57 3 0.02
58 129 0.68
59 54 0.29
60 2 0.01
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (57 bp):
TAAAATGGTAATTTTGGTGAAATCGGGTTAAAAATGGAATTTTGGAAAGTTAGAGGG
Found at i:5931601 original size:29 final size:29
Alignment explanation
Indices: 5931569--5931779 Score: 129
Period size: 29 Copynumber: 7.2 Consensus size: 29
5931559 TAAAAACGGG
5931569 ATTTTGGAAAGTTAGAGGGTAAAATGGTA
1 ATTTTGGAAAGTTAGAGGGTAAAATGGTA
*
5931598 ATTTTTGGCTAAA--TCG-GGGTCAAAAATGG-A
1 A-TTTTGG--AAAGTTAGAGGGT--AAAATGGTA
5931628 ATTTTGGAAAGTTCA-AGGGTAAAATGGTA
1 ATTTTGGAAAGTT-AGAGGGTAAAATGGTA
* *
5931657 ATTTTAGTAAAATTA-AGGGTAAAAATGG-A
1 ATTTT-GGAAAGTTAGAGGGT-AAAATGGTA
** * *
5931686 ATTTTAAAAAGTTCGAGAGTAAAATGGTA
1 ATTTTGGAAAGTTAGAGGGTAAAATGGTA
* * * *
5931715 GTTTTGGTGAAA--TCGAAGTTAAAAATGG-A
1 ATTTT-G-GAAAGTTAGAGGGT-AAAATGGTA
*
5931744 ATTTTAGAAAGTTTAG-GGGTAAAATGGTA
1 ATTTTGGAAAG-TTAGAGGGTAAAATGGTA
5931773 ATTTTGG
1 ATTTTGG
5931780 TGAAATCGAG
Statistics
Matches: 140, Mismatches: 21, Indels: 42
0.69 0.10 0.21
Matches are distributed among these distances:
27 7 0.05
28 26 0.19
29 58 0.41
30 36 0.26
31 10 0.07
32 3 0.02
ACGTcount: A:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (29 bp):
ATTTTGGAAAGTTAGAGGGTAAAATGGTA
Found at i:5931795 original size:29 final size:29
Alignment explanation
Indices: 5931705--5931796 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
5931695 AGTTCGAGAG
* *
5931705 TAAAATGGTAGTTTTGGTGAAATCGAAGT
1 TAAAATGGTAATTTTGGTGAAATCGAGGT
* ** *
5931734 TAAAAATGG-AATTTT--AGAAAGTTTAGGGG
1 T-AAAATGGTAATTTTGGTGAAA-TCGA-GGT
5931763 TAAAATGGTAATTTTGGTGAAATCGAGGT
1 TAAAATGGTAATTTTGGTGAAATCGAGGT
5931792 TAAAA
1 TAAAA
5931797 ATTGGATTTT
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
27 4 0.09
28 9 0.19
29 21 0.45
30 9 0.19
31 4 0.09
ACGTcount: A:0.39, C:0.02, G:0.26, T:0.33
Consensus pattern (29 bp):
TAAAATGGTAATTTTGGTGAAATCGAGGT
Found at i:5931796 original size:116 final size:116
Alignment explanation
Indices: 5931525--5931806 Score: 327
Period size: 116 Copynumber: 2.4 Consensus size: 116
5931515 TTGGATACCC
* ** *
5931525 GGGGATAAAATGGTAATTTTGGTCGAAATTG-GGATAAAAACGGGATTTTGGAAAGTTAGAGGGT
1 GGGG-TAAAATGGTAATTTTGGT-GAAATTGAGGATAAAAA-TGGATTTTAAAAAGTTAGAGAGT
* ** *
5931589 AAAATGGTAATTTTTGGCTAAATCGGGGTCAAAAATGGAATTTTGGAAAGTTCA
63 AAAATGGTAAGTTTTGGCTAAATCGAAGTCAAAAATGGAATTTTAGAAAGTTCA
* * * * * *
5931643 AGGGTAAAATGGTAATTTTAGTAAAATTAAGGGTAAAAATGGAATTTTAAAAAGTTCGAGAGTAA
1 GGGGTAAAATGGTAATTTTGGTGAAATTGAGGATAAAAATGG-ATTTTAAAAAGTTAGAGAGTAA
* *
5931708 AATGGT-AGTTTTGG-TGAAATCGAAGTTAAAAATGGAATTTTAGAAAGTTTA
65 AATGGTAAGTTTTGGCT-AAATCGAAGTCAAAAATGGAATTTTAGAAAGTTCA
* *
5931759 GGGGTAAAATGGTAATTTTGGTGAAATCGAGGTTAAAAATTGGATTTT
1 GGGGTAAAATGGTAATTTTGGTGAAATTGAGGATAAAAA-TGGATTTT
5931807 GGAAAATTTA
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
115 1 0.01
116 82 0.59
117 52 0.38
118 3 0.02
ACGTcount: A:0.38, C:0.03, G:0.27, T:0.32
Consensus pattern (116 bp):
GGGGTAAAATGGTAATTTTGGTGAAATTGAGGATAAAAATGGATTTTAAAAAGTTAGAGAGTAAA
ATGGTAAGTTTTGGCTAAATCGAAGTCAAAAATGGAATTTTAGAAAGTTCA
Found at i:5931885 original size:29 final size:29
Alignment explanation
Indices: 5931736--5931967 Score: 147
Period size: 30 Copynumber: 7.9 Consensus size: 29
5931726 ATCGAAGTTA
* * *
5931736 AAAATGGAATTTTAG-AAAGTTTAGGGGT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTT
* **
5931764 AAAATGGTAATTTTGGTGAAA-TCGA-GGTT
1 AAAAT-GTAATTTTGG-AAAAGTTTAGGGTT
* * *
5931793 AAAAAT-TGGATTTTGGAAAA-TTTAAGGTC
1 -AAAATGT-AATTTTGGAAAAGTTTAGGGTT
**
5931822 AAAATGTAATTTTCAAAAAGTTTTAGGGTT
1 AAAATGTAATTTTGGAAAAG-TTTAGGGTT
5931852 AAAATGTAATTTTGGAAAAGTTTAGGGTT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTT
* *
5931881 AAAATGTAATTTT-TAGAAAGTTTTGGGGTT
1 AAAATGTAATTTTGGA-AAAG-TTTAGGGTT
* * * *
5931911 AAAATATAATTTT-AAAGAAGTTTTGGGGTC
1 AAAATGTAATTTTGGAA-AAG-TTTAGGGTT
* *
5931941 AATATGTAAGTTTTGG-ATAGTTTAGGG
1 AAAATGTAA-TTTTGGAAAAGTTTAGGG
5931968 ACTTTTTGGG
Statistics
Matches: 163, Mismatches: 27, Indels: 27
0.75 0.12 0.12
Matches are distributed among these distances:
28 26 0.16
29 55 0.34
30 74 0.45
31 8 0.05
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.38
Consensus pattern (29 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGTT
Found at i:5931888 original size:59 final size:58
Alignment explanation
Indices: 5931802--5931923 Score: 181
Period size: 59 Copynumber: 2.1 Consensus size: 58
5931792 TAAAAATTGG
*
5931802 ATTTTGGAAAATTTAAGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATGTA
1 ATTTTGGAAAATTTAAGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
* * * * *
5931860 ATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTTTAGAAAGTTTTGGGGTTAAAATATA
1 ATTTTGGAAAA-TTTAAGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
5931919 ATTTT
1 ATTTT
5931924 AAAGAAGTTT
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
58 11 0.19
59 46 0.81
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.41
Consensus pattern (58 bp):
ATTTTGGAAAATTTAAGGTCAAAATGTAATTTTCAAAAAGTTTTAGGGTTAAAATATA
Found at i:5932558 original size:8 final size:8
Alignment explanation
Indices: 5932547--5932576 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
5932537 TTCTTCTTCT
5932547 TTTCTCTC
1 TTTCTCTC
5932555 TTTCTCTC
1 TTTCTCTC
5932563 TTTCTCTC
1 TTTCTCTC
5932571 TTTCTC
1 TTTCTC
5932577 ACCTCCACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (8 bp):
TTTCTCTC
Found at i:5933199 original size:16 final size:15
Alignment explanation
Indices: 5933177--5933220 Score: 56
Period size: 16 Copynumber: 3.0 Consensus size: 15
5933167 TTTTAGTAAC
5933177 ATTATTATTAATAAT
1 ATTATTATTAATAAT
5933192 ATTTATTATT-ATAA-
1 A-TTATTATTAATAAT
*
5933206 AGTATTATTAATAAT
1 ATTATTATTAATAAT
5933221 GCTAAAGTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 5 0.20
16 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
ATTATTATTAATAAT
Found at i:5933859 original size:6 final size:6
Alignment explanation
Indices: 5933850--5933939 Score: 53
Period size: 6 Copynumber: 15.3 Consensus size: 6
5933840 AATTTGATTG
** **
5933850 AATTTA AATTTA AA-ACA AATTTA AATTTAAA AAGATA AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTT--A AATTTA AATTTA AATTTA
* * ** *
5933899 AAATT- ATTTTA AATTTA AAAATA AATTTG AA-TT- AATTTA AA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AA
5933940 CCTAATTTAA
Statistics
Matches: 61, Mismatches: 17, Indels: 12
0.68 0.19 0.13
Matches are distributed among these distances:
4 2 0.03
5 10 0.16
6 45 0.74
8 4 0.07
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (6 bp):
AATTTA
Found at i:5933872 original size:17 final size:17
Alignment explanation
Indices: 5933850--5933931 Score: 92
Period size: 17 Copynumber: 4.6 Consensus size: 17
5933840 AATTTGATTG
*
5933850 AATTTAAATTTAAAACA
1 AATTTAAATTTAAAATA
5933867 AATTTAAATTTAAAAAGATA
1 AATTTAAATTT--AAA-ATA
*
5933887 AATTTAAATTTAAAATT
1 AATTTAAATTTAAAATA
*
5933904 ATTTTAAATTTAAAAATA
1 AATTTAAATTT-AAAATA
*
5933922 AATTTGAATT
1 AATTTAAATT
5933932 AATTTAAACC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
17 23 0.42
18 16 0.29
19 3 0.05
20 13 0.24
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAAATA
Found at i:5933891 original size:20 final size:19
Alignment explanation
Indices: 5933850--5933901 Score: 72
Period size: 20 Copynumber: 2.8 Consensus size: 19
5933840 AATTTGATTG
5933850 AATTTAAATTT--AAAACA
1 AATTTAAATTTAAAAAACA
*
5933867 AATTTAAATTTAAAAAGATA
1 AATTTAAATTTAAAAA-ACA
5933887 AATTTAAATTTAAAA
1 AATTTAAATTTAAAA
5933902 TTATTTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 11 0.35
19 3 0.10
20 17 0.55
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AATTTAAATTTAAAAAACA
Found at i:5933892 original size:37 final size:35
Alignment explanation
Indices: 5933850--5933931 Score: 110
Period size: 37 Copynumber: 2.3 Consensus size: 35
5933840 AATTTGATTG
5933850 AATTTAAATTTAAAACAAATTTAAATTTAAAAAGATA
1 AATTTAAATTTAAAACAAATTTAAATTT-AAAA-ATA
** *
5933887 AATTTAAATTTAAAATTATTTTAAATTTAAAAATA
1 AATTTAAATTTAAAACAAATTTAAATTTAAAAATA
*
5933922 AATTTGAATT
1 AATTTAAATT
5933932 AATTTAAACC
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 12 0.29
36 4 0.10
37 25 0.61
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (35 bp):
AATTTAAATTTAAAACAAATTTAAATTTAAAAATA
Found at i:5935166 original size:30 final size:30
Alignment explanation
Indices: 5935132--5935231 Score: 105
Period size: 30 Copynumber: 3.3 Consensus size: 30
5935122 ATCCCAAAAT
*
5935132 TTCTGGTTTCGTCCAGATTCATTGTCGAAG
1 TTCTGGTTTCATCCAGATTCATTGTCGAAG
* * * *
5935162 TTCTGGTTTTACCCA-AGTCCATTGTCGAAA
1 TTCTGGTTTCATCCAGA-TTCATTGTCGAAG
* *
5935192 TTCTAGTTTCATCCAGATTCATT-TCAAAAG
1 TTCTGGTTTCATCCAGATTCATTGTC-GAAG
5935222 TTCTGGTTTC
1 TTCTGGTTTC
5935232 GCTCAGTAGG
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
29 3 0.05
30 51 0.93
31 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (30 bp):
TTCTGGTTTCATCCAGATTCATTGTCGAAG
Found at i:5935312 original size:30 final size:27
Alignment explanation
Indices: 5935091--5935321 Score: 79
Period size: 30 Copynumber: 7.8 Consensus size: 27
5935081 TGCCCAGCAA
*
5935091 GTCC-TTTCAAATTCTGGTTTCGCTCAG
1 GTCCATTTCAAATTCTGGTTTCAC-CAG
** ** *
5935118 GTTTATCCCAAAATTTCTGGTTTCGTCCAG
1 GTCCATTTC-AAA-TTCTGGTTTC-ACCAG
* * * * *
5935148 ATTCATTGTCGAAGTTCTGGTTTTACCCAA
1 GTCCATT-TC-AAATTCTGGTTTCA-CCAG
*
5935178 GTCCATTGTCGAAATTCTAGTTTCATCCAG
1 GTCCATT-TC-AAATTCTGGTTTCA-CCAG
* * *
5935208 ATTCATTTCAAAAGTTCTGGTTTCGCTCAGTAG
1 GTCCATTTC-AAA-TTCTGGTTTCAC-C---AG
5935241 GTCC-TTTCAAATTCTGGTTTCACTCAG
1 GTCCATTTCAAATTCTGGTTTCAC-CAG
* * *
5935268 GTTCATTTAAAAATTTCTAGTTTCACCGAG
1 GTCCATTT-CAAA-TTCTGGTTTCACC-AG
*
5935298 GTCCATTGTCAAATTTATGGTTTC
1 GTCCATT-TCAAA-TTCTGGTTTC
5935322 TCCTAGGTTT
Statistics
Matches: 152, Mismatches: 36, Indels: 29
0.70 0.17 0.13
Matches are distributed among these distances:
27 7 0.05
28 5 0.03
29 13 0.09
30 111 0.73
31 8 0.05
32 4 0.03
33 4 0.03
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (27 bp):
GTCCATTTCAAATTCTGGTTTCACCAG
Found at i:5935319 original size:60 final size:63
Alignment explanation
Indices: 5935128--5935321 Score: 144
Period size: 60 Copynumber: 3.2 Consensus size: 63
5935118 GTTTATCCCA
* * ** * * *
5935128 AAATTTCTGGTTTCGTCCAGATTCATTGT-CGAAGTTCTGGTTTTACCCA--A-GTCCATTGTC
1 AAATTTATGGTTTCATCCAGATTCATT-TAAAAAGTTCTAGTTTCACTCAGTAGGTCCATTGTC
* * *
5935188 GAAATTCTA--GTTTCATCCAGATTCATTTCAAAAGTTCTGGTTTCGCTCAGTAGGTCC-TT-TC
1 -AAATT-TATGGTTTCATCCAGATTCATTTAAAAAGTTCTAGTTTCACTCAGTAGGTCCATTGTC
* * *
5935249 AAA-TTCTGGTTTCA-CTCAGGTTCATTTAAAAATTTCTAGTTTCAC-C-G-AGGTCCATTGTC
1 AAATTTATGGTTTCATC-CAGATTCATTTAAAAAGTTCTAGTTTCACTCAGTAGGTCCATTGTC
5935308 AAATTTATGGTTTC
1 AAATTTATGGTTTC
5935322 TCCTAGGTTT
Statistics
Matches: 108, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
57 6 0.06
58 4 0.04
59 9 0.08
60 74 0.69
61 7 0.06
62 4 0.04
63 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.40
Consensus pattern (63 bp):
AAATTTATGGTTTCATCCAGATTCATTTAAAAAGTTCTAGTTTCACTCAGTAGGTCCATTGTC
Found at i:5936112 original size:63 final size:62
Alignment explanation
Indices: 5935875--5936423 Score: 519
Period size: 62 Copynumber: 9.2 Consensus size: 62
5935865 AAAATTAGGA
* * *
5935875 TGTTGGCCATGCAATGGCCGACACCCCTTTTTTGTC-AGAAAAAAAATTTCAAAATTTTTGGG
1 TGTTGGCCATGCAATGGCCGACACCCCCTTTTTCTCGAG-AAAAAAATTTCAAAATTTTTTGG
* * * * *
5935937 TGCTGGCCAT-CAAATGGCCGACACCCCC-TATT-TC-A-AAAAAAAATT--ACATTTTTGGG
1 TGTTGGCCATGC-AATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
* * * * *
5935993 TGTTGCCCATTGC-ATGACCGACACCCCCTATTTCTCGAGAAAAAAATTTCAAATTTTTTTTG
1 TGTTGGCCA-TGCAATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
* * *
5936055 TGTTGGCCATGCAATGGCCGACACCCCTTTTTTTTCTCGAG-AAAAAATTTTAAATTTTTTTGG
1 TGTTGGCCATGCAATGGCCGACACCCC--CTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
** * *
5936118 TGTTGGCCAT-CAAATGGCAAATACCCCCTTTTTCTCGAGAAAAAAAATTCAAAATTTTTTGG
1 TGTTGGCCATGC-AATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
*
5936180 TGTTGGCCATTGC-ATGGCCGACACCCCCCTTTTCTCGAGAAAAAAA--TCAAAATTTTTTGG
1 TGTTGGCCA-TGCAATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
* * *
5936240 TGTTGG-C---C-AT----G-C-CCCCTTTTTTCTCGAGAAAAAAAATTCAAAATTTTGTGG
1 TGTTGGCCATGCAATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
* * *
5936291 TGTTGGCCAT-TACATGGTCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAATTTTTTTGG
1 TGTTGGCCATGCA-ATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
* * *
5936353 TGCTGGCCAT-CAGATGGCCGACACCCCCCTTTTT-TCGAGAAAACAAA-TTC-ACATTTTTGGG
1 TGTTGGCCATGCA-ATGGCCGACA-CCCCCTTTTTCTCGAGAAAA-AAATTTCAAAATTTTTTGG
5936414 TGTTGGCCAT
1 TGTTGGCCAT
5936424 TTTCCTCGGA
Statistics
Matches: 408, Mismatches: 48, Indels: 63
0.79 0.09 0.12
Matches are distributed among these distances:
49 21 0.05
50 1 0.00
51 20 0.05
52 1 0.00
55 3 0.01
56 33 0.08
57 3 0.01
58 12 0.03
59 2 0.00
60 33 0.08
61 36 0.09
62 176 0.43
63 56 0.14
64 11 0.03
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (62 bp):
TGTTGGCCATGCAATGGCCGACACCCCCTTTTTCTCGAGAAAAAAATTTCAAAATTTTTTGG
Found at i:5936272 original size:111 final size:111
Alignment explanation
Indices: 5936141--5936362 Score: 365
Period size: 111 Copynumber: 2.0 Consensus size: 111
5936131 ATGGCAAATA
* *
5936141 CCCCCTTTTTCTCGAGAAAAAAAATTCAAAATTTTTTGGTGTTGGCCATTGCATGGCCGACACCC
1 CCCCCTTTTTCTCGAGAAAAAAAATTCAAAATTTTGTGGTGTTGGCCATTACATGGCCGACACCC
*
5936206 CCCTTTTCTCGAGAAAAAAA-TCAAAATTTTTTGGTGTTGGCCATG
66 CCCTTTTCTCGAGAAAAAAATTCAAAATTTTTTGGTGCTGGCCATG
*
5936251 CCCCCTTTTTTCTCGAGAAAAAAAATTCAAAATTTTGTGGTGTTGGCCATTACATGGTCGACACC
1 CCCCC-TTTTTCTCGAGAAAAAAAATTCAAAATTTTGTGGTGTTGGCCATTACATGGCCGACACC
* *
5936316 CCCTTTTTCTCGAGAAAAAAATTTCAAATTTTTTTGGTGCTGGCCAT
65 CCCCTTTTCTCGAGAAAAAAA-TTCAAAATTTTTTGGTGCTGGCCAT
5936363 CAGATGGCCG
Statistics
Matches: 103, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
110 5 0.05
111 76 0.74
113 22 0.21
ACGTcount: A:0.27, C:0.22, G:0.17, T:0.34
Consensus pattern (111 bp):
CCCCCTTTTTCTCGAGAAAAAAAATTCAAAATTTTGTGGTGTTGGCCATTACATGGCCGACACCC
CCCTTTTCTCGAGAAAAAAATTCAAAATTTTTTGGTGCTGGCCATG
Found at i:5937376 original size:30 final size:30
Alignment explanation
Indices: 5937316--5937407 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 30
5937306 TAATAATTAG
* ** *
5937316 AATATACATGAAATTAGAAAGAAAAATTAA
1 AATATACAAGAAATTAGAAATTAAATTTAA
*
5937346 AATATACAAGAAATTTGAAATTAAATTTAA
1 AATATACAAGAAATTAGAAATTAAATTTAA
* * *
5937376 AATA-AAAACGAAATTACAGATTAAATTTAA
1 AATATACAA-GAAATTAGAAATTAAATTTAA
5937406 AA
1 AA
5937408 GTAAAGGGAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
29 3 0.06
30 49 0.94
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (30 bp):
AATATACAAGAAATTAGAAATTAAATTTAA
Found at i:5939638 original size:20 final size:20
Alignment explanation
Indices: 5939613--5939659 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
5939603 TGAAACTCGA
5939613 TCAACGGCGAACAAAGTCGG
1 TCAACGGCGAACAAAGTCGG
* *
5939633 TCAACGACGGACAAAGTCGG
1 TCAACGGCGAACAAAGTCGG
5939653 TCAACGG
1 TCAACGG
5939660 TGGTCAACGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.26, G:0.30, T:0.11
Consensus pattern (20 bp):
TCAACGGCGAACAAAGTCGG
Found at i:5940056 original size:83 final size:83
Alignment explanation
Indices: 5939835--5940527 Score: 1097
Period size: 83 Copynumber: 8.3 Consensus size: 83
5939825 TAAATTTAAA
*
5939835 ATATGATAAAAATTGTAATATAATAAAAAAAATTTATTTAAAGATATAAAATTAATAAATAATGT
1 ATATGATAAAAATTGTAATATAAT-AAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGT
5939900 ATTGTCAAATCAACACA-T
65 ATTGTCAAATCAACACATT
**
5939918 -TATGATAAAAATTGTAATATAATAAAATTTTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
5939982 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
* *
5940000 ATATGATAAAAATTGTAATATAATAAAAATTTTTATTTAAAAATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
5940065 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
*
5940083 ATATGATAAAAATTATAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
5940148 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
*
5940166 ATATGATAAAAATTGTAATACAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
5940231 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
*
5940249 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAATATATAAAATTAATAAATAATGTA
1 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
5940314 TTGTCAAATCAACACATT
66 TTGTCAAATCAACACATT
* * * *
5940332 ATATGATAAAAATTGTAATATAATAATAATTTTTATTTAAATATATAAAATTAATAAATAATATA
1 ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
* *
5940397 TTGTCAAATCAATATATT
66 TTGTCAAATCAACACATT
* *
5940415 ATATGATAAAAATTATAATATAATAATAATAATTTGTACTTT-AA-ATATGAAAATTTGATAAAT
1 ATATGATAAAAATTGTAATATAATAA-AA-AATTT-TA-TTTAAAGATAT-AAAA-TTAATAAAT
* * *
5940478 AATGTATTGTCAAATTAATACAAT
60 AATGTATTGTCAAATCAACACATT
* * *
5940502 ATTTGATATAAATTATAATATAATAA
1 ATATGATAAAAATTGTAATATAATAA
5940528 CTATCTTTTT
Statistics
Matches: 575, Mismatches: 27, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
81 54 0.09
82 24 0.04
83 425 0.74
84 1 0.00
85 8 0.01
86 8 0.01
87 55 0.10
ACGTcount: A:0.53, C:0.04, G:0.05, T:0.38
Consensus pattern (83 bp):
ATATGATAAAAATTGTAATATAATAAAAAATTTTATTTAAAGATATAAAATTAATAAATAATGTA
TTGTCAAATCAACACATT
Found at i:5940345 original size:45 final size:43
Alignment explanation
Indices: 5939958--5940179 Score: 96
Period size: 45 Copynumber: 5.2 Consensus size: 43
5939948 TTTATTTAAA
*
5939958 GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
1 GATA-AAAATTAATAAATAAT-TATTGTCAAATCAATA-ATTATAT
** ** * *
5940004 GATAAAAATTGTAATATAATAAAAATT-T-TTAT--TTAA--AAAT
1 GATAAAAA-T-TAATA-AATAATTATTGTCAAATCAATAATTATAT
*
5940044 -AT-AAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
1 GATAAAAATTAATAAATAAT-TATTGTCAAATCAATA-ATTATAT
** ** * *
5940087 GATAAAAATT-ATAATATAA-TA---AAAAAT-TTTATTTA-AA
1 GATAAAAATTAATAA-ATAATTATTGTCAAATCAATAATTATAT
*
5940124 GATATAAAATTAATAAATAATGTATTGTCAAATCAACACATTATAT
1 GATA-AAAATTAATAAATAAT-TATTGTCAAATCAATA-ATTATAT
5940170 GATAAAAATT
1 GATAAAAATT
5940180 GTAATACAAT
Statistics
Matches: 124, Mismatches: 28, Indels: 49
0.62 0.14 0.24
Matches are distributed among these distances:
35 5 0.04
36 8 0.06
37 7 0.06
38 19 0.15
39 7 0.06
40 10 0.08
41 1 0.01
42 1 0.01
43 10 0.08
44 7 0.06
45 25 0.20
46 11 0.09
47 8 0.06
48 5 0.04
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.36
Consensus pattern (43 bp):
GATAAAAATTAATAAATAATTATTGTCAAATCAATAATTATAT
Found at i:5940721 original size:28 final size:29
Alignment explanation
Indices: 5940658--5940715 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
5940648 AAACATGTTC
**
5940658 ATTAA-TTTCTAAATTAATTTTAACTTAA
1 ATTAACTTTCTAAATTAATTTTAACACAA
*
5940686 ATTAACTTTC-AAATTAATTTTTACACAA
1 ATTAACTTTCTAAATTAATTTTAACACAA
5940714 AT
1 AT
5940716 ATACTTCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 22 0.85
29 4 0.15
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (29 bp):
ATTAACTTTCTAAATTAATTTTAACACAA
Found at i:5943428 original size:19 final size:19
Alignment explanation
Indices: 5943397--5943453 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
5943387 GAAAATATAA
*
5943397 ATTTTGAAATTTTTATAAGT
1 ATTTTG-AATTTTTAAAAGT
* *
5943417 ATTTTGAATTTTAAAAATT
1 ATTTTGAATTTTTAAAAGT
5943436 ATTTTGAATTTTTGAAAA
1 ATTTTGAATTTTT-AAAA
5943454 TCATTTAGAT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 22 0.69
20 10 0.31
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.53
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAAGT
Found at i:5943454 original size:20 final size:20
Alignment explanation
Indices: 5943382--5943459 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
5943372 TTTTTATAAT
5943382 TTTTTGAAAATATAAATTTTGAAA
1 TTTTTGAAAAT-T--ATTTTG-AA
* *
5943406 TTTTT-ATAAGTATTTTGAA
1 TTTTTGAAAATTATTTTGAA
*
5943425 -TTTTAAAAATTATTTTGAA
1 TTTTTGAAAATTATTTTGAA
*
5943444 TTTTTGAAAATCATTT
1 TTTTTGAAAATTATTT
5943460 AGATTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
18 4 0.09
19 14 0.30
20 19 0.41
22 1 0.02
23 3 0.07
24 5 0.11
ACGTcount: A:0.38, C:0.01, G:0.08, T:0.53
Consensus pattern (20 bp):
TTTTTGAAAATTATTTTGAA
Found at i:5943468 original size:20 final size:20
Alignment explanation
Indices: 5943404--5943467 Score: 53
Period size: 19 Copynumber: 3.4 Consensus size: 20
5943394 TAAATTTTGA
* * *
5943404 AATTTTTATAAGT-ATTTTG
1 AATTTTTAAAAATCATTTAG
* *
5943423 AA-TTTTAAAAATTATTTTG
1 AATTTTTAAAAATCATTTAG
*
5943442 AATTTTTGAAAATCATTTAG
1 AATTTTTAAAAATCATTTAG
5943462 -ATTTTT
1 AATTTTT
5943468 TTTAATTTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
18 8 0.21
19 16 0.42
20 14 0.37
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
AATTTTTAAAAATCATTTAG
Found at i:5944205 original size:8 final size:9
Alignment explanation
Indices: 5944176--5944206 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5944166 TTATTAATTT
5944176 AAAATTTTA
1 AAAATTTTA
5944185 AAAATTTTA
1 AAAATTTTA
*
5944194 AAAATCTTA
1 AAAATTTTA
5944203 AAAA
1 AAAA
5944207 AAATTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATTTTA
Found at i:5947877 original size:28 final size:28
Alignment explanation
Indices: 5947817--5947875 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
5947807 TAAATTAATC
* *
5947817 TTTAATAATAATTTTTATTTAATTTAAA
1 TTTAATAATAATTTATATTAAATTTAAA
5947845 TTTAATAATAAATTTATA-TAAATATTAAA
1 TTTAATAAT-AATTTATATTAAAT-TTAAA
5947874 TT
1 TT
5947876 AAAATTATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTAATAATAATTTATATTAAATTTAAA
Found at i:5952206 original size:29 final size:28
Alignment explanation
Indices: 5952173--5952496 Score: 136
Period size: 29 Copynumber: 11.1 Consensus size: 28
5952163 ATTGGAGTCG
*
5952173 AAAATGGGATTTTAGGAAAGTTTGGGGGT
1 AAAATGGGATTTT-GGAAAGTTCGGGGGT
* *
5952202 AAAATGGTAATTTTGGTGAAA--TCGGGGTT
1 AAAATGG-GATTTT-G-GAAAGTTCGGGGGT
*
5952231 AAAAATGGGATTTTGGAAAGTTCGGGGAT
1 -AAAATGGGATTTTGGAAAGTTCGGGGGT
* * * *
5952260 ATAATGGTAATTTTGGTGAAA--TCGAGGTT
1 AAAATGG-GATTTT-G-GAAAGTTCGGGGGT
*
5952289 AAAAATGGGATTTTGGAAAGTT-TGGGGT
1 -AAAATGGGATTTTGGAAAGTTCGGGGGT
* * *
5952317 AAAA-GGGTAATTTTTGGTGGAA-TT-GAGGTT
1 AAAATGGG--A-TTTT-G-GAAAGTTCGGGGGT
* *
5952347 AAAAATGGTATTTTGGAAAGTTTTGGGGGT
1 -AAAATGGGATTTTGGAAAG-TTCGGGGGT
* *
5952377 AAAATGGTAATTTTGGTGAAA--TC-GGGTT
1 AAAATGG-GATTTT-G-GAAAGTTCGGGGGT
*
5952405 AAAAATGGGATTTTGGAAAGTTCGGGGAT
1 -AAAATGGGATTTTGGAAAGTTCGGGGGT
* *
5952434 AAAA-GAGTAATTTTTGGTGAAA--TCGGGGTT
1 AAAATG-G-GA-TTTT-G-GAAAGTTCGGGGGT
*
5952464 AAAAATGGGATTTTGGAAAGTTCGAGGGT
1 -AAAATGGGATTTTGGAAAGTTCGGGGGT
5952493 AAAA
1 AAAA
5952497 GGGTAATTCT
Statistics
Matches: 225, Mismatches: 33, Indels: 75
0.68 0.10 0.23
Matches are distributed among these distances:
26 7 0.03
27 21 0.09
28 34 0.15
29 82 0.36
30 48 0.21
31 22 0.10
32 11 0.05
ACGTcount: A:0.33, C:0.02, G:0.32, T:0.32
Consensus pattern (28 bp):
AAAATGGGATTTTGGAAAGTTCGGGGGT
Found at i:5952277 original size:58 final size:57
Alignment explanation
Indices: 5952133--5952509 Score: 472
Period size: 58 Copynumber: 6.4 Consensus size: 57
5952123 AATTTTAACT
* * **
5952133 TTCGAGGGTAAAAAT-GTAATTTTTGGTGAAATTGGAGTCGAAAATGGGATTTTAGGAAAG
1 TTCG-GGGT-AAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTT-GGAAAG
*
5952193 TTTGGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
1 -TTCGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
* *
5952251 TTCGGGGATATAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
1 TTCGGGG-TAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
* * * * * *
5952309 TTTGGGGTAAAAGGGTAATTTTTGGTGGAATTGAGGTTAAAAATGGTATTTTGGAAAG
1 TTCGGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
*
5952367 TTTTGGGGGTAAAATGGTAATTTTGGTGAAATC-GGGTTAAAAATGGGATTTTGGAAAG
1 --TTCGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
5952425 TTCGGGGATAAAA-GAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
1 TTCGGGG-TAAAATG-GTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
*
5952484 TTCGAGGGTAAAAGGGTAATTCTTGG
1 TTCG-GGGTAAAATGGTAATT-TTGG
5952510 ACATTCTAGG
Statistics
Matches: 283, Mismatches: 21, Indels: 26
0.86 0.06 0.08
Matches are distributed among these distances:
56 7 0.02
57 24 0.08
58 134 0.47
59 87 0.31
60 28 0.10
61 3 0.01
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (57 bp):
TTCGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
Found at i:5952315 original size:116 final size:114
Alignment explanation
Indices: 5952133--5952509 Score: 499
Period size: 117 Copynumber: 3.2 Consensus size: 114
5952123 AATTTTAACT
* **
5952133 TTCGAGGGTAAAAAT-GTAATTTTTGGTGAAATTGGAGTCGAAAATGGGATTTTAGGAAAGTTTG
1 TTCG-GGGT-AAAATGGTAA-TTTTGGTGAAATCGG-GTTAAAAATGGGATTTT-GGAAAGTTTG
5952197 GGGGTAAAATGGTAA-TTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
61 GGGGTAAAA-GGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
*
5952251 TTCGGGGATATAATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAGTTT-GGG
1 TTCGGGG-TAAAATGGTAATTTTGGTGAAATCG-GGTTAAAAATGGGATTTTGGAAAGTTTGGGG
* * * *
5952315 GTAAAAGGGTAATTTTTGGTGGAATTGAGGTTAAAAATGGTATTTTGGAAAG
64 GTAAAA-GGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
* *
5952367 TTTTGGGGGTAAAATGGTAATTTTGGTGAAATCGGGTTAAAAATGGGATTTTGGAAAGTTCGGGG
1 --TTCGGGGTAAAATGGTAATTTTGGTGAAATCGGGTTAAAAATGGGATTTTGGAAAGTTTGGGG
*
5952432 ATAAAAGAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
64 GTAAAAG-GTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
*
5952484 TTCGAGGGTAAAAGGGTAATTCTTGG
1 TTCG-GGGTAAAATGGTAATT-TTGG
5952510 ACATTCTAGG
Statistics
Matches: 230, Mismatches: 19, Indels: 21
0.85 0.07 0.08
Matches are distributed among these distances:
115 17 0.07
116 86 0.37
117 111 0.48
118 16 0.07
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (114 bp):
TTCGGGGTAAAATGGTAATTTTGGTGAAATCGGGTTAAAAATGGGATTTTGGAAAGTTTGGGGGT
AAAAGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
Found at i:5952451 original size:175 final size:176
Alignment explanation
Indices: 5952133--5952509 Score: 593
Period size: 175 Copynumber: 2.1 Consensus size: 176
5952123 AATTTTAACT
** *
5952133 TTCGAGGGTAAAAATGTAATTTTTGGTGAAATTGGAGTCGAAAATGGGATTTTAGGAAAGTTTGG
1 TTCGAGGGTAAAAGGGTAATTTTTGGTGAAATTGGAGTCAAAAATGGGATTTTAGGAAAGTTTGG
5952198 GGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGATATA
66 GGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGATATA
*
5952263 ATGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
131 AAGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
* * * *
5952309 TTTG-GGGTAAAAGGGTAATTTTTGGTGGAATT-GAGGTTAAAAATGGTATTTT-GGAAAGTTTT
1 TTCGAGGGTAAAAGGGTAATTTTTGGTGAAATTGGA-GTCAAAAATGGGATTTTAGGAAAG-TTT
5952371 GGGGGTAAAATGGTAATTTTGGTGAAATC-GGGTTAAAAATGGGATTTTGGAAAGTTCGGGGATA
64 GGGGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGATA
*
5952435 -AAAGAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAG
129 TAAAG-GTAA-TTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
*
5952484 TTCGAGGGTAAAAGGGTAATTCTTGG
1 TTCGAGGGTAAAAGGGTAATTTTTGG
5952510 ACATTCTAGG
Statistics
Matches: 185, Mismatches: 11, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
173 3 0.02
174 47 0.25
175 112 0.61
176 23 0.12
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (176 bp):
TTCGAGGGTAAAAGGGTAATTTTTGGTGAAATTGGAGTCAAAAATGGGATTTTAGGAAAGTTTGG
GGGTAAAATGGTAATTTTGGTGAAATCGGGGTTAAAAATGGGATTTTGGAAAGTTCGGGGATATA
AAGGTAATTTTGGTGAAATCGAGGTTAAAAATGGGATTTTGGAAAG
Found at i:5954493 original size:35 final size:35
Alignment explanation
Indices: 5954453--5954519 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
5954443 TGGGCTTTTT
* *
5954453 AATTTAAATTTTAAAAT-TATTTCAAATTTAAACTA
1 AATTTAAATTTAAAAATGAATTT-AAATTTAAACTA
5954488 AATTTAAATTTAAAAATGAATTTAAATTTAAA
1 AATTTAAATTTAAAAATGAATTTAAATTTAAA
5954520 TTTAAAGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
35 25 0.86
36 4 0.14
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (35 bp):
AATTTAAATTTAAAAATGAATTTAAATTTAAACTA
Found at i:5954497 original size:6 final size:6
Alignment explanation
Indices: 5954453--5954540 Score: 67
Period size: 6 Copynumber: 15.0 Consensus size: 6
5954443 TGGGCTTTTT
* *
5954453 AATTTA AATTTTA AAATT- -ATTTCA AATTTA AA-CTA AATTTA AATTTA
1 AATTTA AA-TTTA AATTTA AATTT-A AATTTA AATTTA AATTTA AATTTA
** * * *
5954500 AAAATG AATTTA AATTTA AATTTA AA-GTA AATTTA ATTTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
5954541 GAAATAAACT
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
4 3 0.05
5 8 0.13
6 42 0.67
7 10 0.16
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:5954521 original size:41 final size:42
Alignment explanation
Indices: 5954471--5954554 Score: 116
Period size: 41 Copynumber: 2.0 Consensus size: 42
5954461 TTTTAAAATT
* *
5954471 ATTTCAAATTTAAACTAAATTTAAATTTAAAAATGAATTTAA
1 ATTTCAAATTTAAACTAAATTTAAATTTAAAAATAAACTTAA
* * *
5954513 ATTT-AAATTTAAAGTAAATTTAATTTTAGAAATAAACTTAA
1 ATTTCAAATTTAAACTAAATTTAAATTTAAAAATAAACTTAA
5954554 A
1 A
5954555 AACCATTTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 33 0.89
42 4 0.11
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (42 bp):
ATTTCAAATTTAAACTAAATTTAAATTTAAAAATAAACTTAA
Found at i:5959393 original size:10 final size:10
Alignment explanation
Indices: 5959378--5959405 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
5959368 ATGGCATTGG
5959378 CAGTGCAGTA
1 CAGTGCAGTA
5959388 CAGTGCAGTA
1 CAGTGCAGTA
5959398 CAGTGCAG
1 CAGTGCAG
5959406 AGCAGGGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.32, T:0.18
Consensus pattern (10 bp):
CAGTGCAGTA
Found at i:5962065 original size:20 final size:22
Alignment explanation
Indices: 5962030--5962072 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
5962020 ATATTTTTGT
*
5962030 AATAATTTTTACATTTTT-TTA
1 AATAATTTTCACATTTTTATTA
5962051 AATAATTTTCA-ATTTTTATTA
1 AATAATTTTCACATTTTTATTA
5962072 A
1 A
5962073 TTTTTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (22 bp):
AATAATTTTCACATTTTTATTA
Found at i:5963090 original size:59 final size:59
Alignment explanation
Indices: 5963000--5963121 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
5962990 GCATGTTTGG
5963000 TTGGGGGGCTTAGAAATACATTCCAGTCCAATTCGGTGGGCCCACCACCAAACATTAGT
1 TTGGGGGGCTTAGAAATACATTCCAGTCCAATTCGGTGGGCCCACCACCAAACATTAGT
5963059 TTGGGGGGCTTAGAAATACATTCCAGTCCAATTCGGTGGGCCCACCACCAAACATTAGT
1 TTGGGGGGCTTAGAAATACATTCCAGTCCAATTCGGTGGGCCCACCACCAAACATTAGT
5963118 TTGG
1 TTGG
5963122 TTAGCTGTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.26, C:0.25, G:0.25, T:0.25
Consensus pattern (59 bp):
TTGGGGGGCTTAGAAATACATTCCAGTCCAATTCGGTGGGCCCACCACCAAACATTAGT
Found at i:5963944 original size:26 final size:26
Alignment explanation
Indices: 5963915--5963973 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
5963905 CTCAACTCTC
5963915 TTTTTTTATTAAAATTGTATTA-AAGT
1 TTTTTTTATTAAAATTGTATTACAA-T
* **
5963941 TTTTTTAATTAATTTTGTATTACAAT
1 TTTTTTTATTAAAATTGTATTACAAT
5963967 TTTTTTT
1 TTTTTTT
5963974 GCATTTATTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (26 bp):
TTTTTTTATTAAAATTGTATTACAAT
Found at i:5967670 original size:14 final size:14
Alignment explanation
Indices: 5967633--5967662 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
5967623 TTGTATTTAA
*
5967633 TTTATATTTATCTT
1 TTTAGATTTATCTT
5967647 TTTAGATTTATCTT
1 TTTAGATTTATCTT
5967661 TT
1 TT
5967663 AGAGTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.03, T:0.70
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:5976349 original size:3 final size:3
Alignment explanation
Indices: 5976343--5976438 Score: 88
Period size: 3 Copynumber: 30.7 Consensus size: 3
5976333 TTTCTTCTTC
* * *
5976343 TTA TTA TTTA TTTA TTA TTA TTA TTG TTA TTA TTA TTG TTG TTA TTA
1 TTA TTA -TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5976390 TT- TTA TTTA TTTA TTTA TT- TTA TTTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA -TTA -TTA -TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
5976437 TT
1 TT
5976439 TCTACTATTG
Statistics
Matches: 82, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
2 4 0.05
3 57 0.70
4 21 0.26
ACGTcount: A:0.26, C:0.01, G:0.03, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:5976372 original size:9 final size:8
Alignment explanation
Indices: 5976327--5976432 Score: 69
Period size: 9 Copynumber: 12.9 Consensus size: 8
5976317 GATATTTTAA
5976327 TATTATTT
1 TATTATTT
* *
5976335 TCTTCTTCT
1 TATTATT-T
5976344 TATTA-TT
1 TATTATTT
5976351 TATTTATTAT
1 TA-TTATT-T
5976361 TATTATTGT
1 TATTATT-T
5976370 TATTA--T
1 TATTATTT
*
5976376 TATTGTTGT
1 TATTATT-T
5976385 TATTATTT
1 TATTATTT
5976393 TATT-TATT
1 TATTAT-TT
5976401 TATTTATTT
1 TA-TTATTT
*
5976410 TATT-TAT
1 TATTATTT
5976417 TATTATTAT
1 TATTATT-T
5976426 TATTATT
1 TATTATT
5976433 ACTATTTCTA
Statistics
Matches: 77, Mismatches: 9, Indels: 23
0.71 0.08 0.21
Matches are distributed among these distances:
6 5 0.06
7 10 0.13
8 21 0.27
9 37 0.48
10 4 0.05
ACGTcount: A:0.24, C:0.03, G:0.03, T:0.71
Consensus pattern (8 bp):
TATTATTT
Found at i:5976374 original size:12 final size:11
Alignment explanation
Indices: 5976319--5976433 Score: 85
Period size: 12 Copynumber: 10.2 Consensus size: 11
5976309 TACTTTTTGA
*
5976319 TATTTTAATAT
1 TATTTTATTAT
* *
5976330 TATTTTCTTCT
1 TATTTTATTAT
*
5976341 TCTTATTATTTAT
1 TATT-TTA-TTAT
*
5976354 T-TATTATTAT
1 TATTTTATTAT
5976364 TATTGTTATTAT
1 TATT-TTATTAT
*
5976376 TATTGTTGTTAT
1 TATT-TTATTAT
5976388 TATTTTATTTAT
1 TATTTTA-TTAT
5976400 T-TATTTATT-T
1 TAT-TTTATTAT
5976410 TA-TTTATTAT
1 TATTTTATTAT
5976420 TATTATTATTAT
1 TATT-TTATTAT
5976432 TA
1 TA
5976434 CTATTTCTAC
Statistics
Matches: 84, Mismatches: 10, Indels: 19
0.74 0.09 0.17
Matches are distributed among these distances:
9 6 0.07
10 10 0.12
11 21 0.25
12 43 0.51
13 4 0.05
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.70
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:5978048 original size:10 final size:10
Alignment explanation
Indices: 5978033--5978063 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
5978023 TTCTCTCACT
5978033 TATTTTTGTC
1 TATTTTTGTC
5978043 TATTTTTGTC
1 TATTTTTGTC
5978053 TATTTTTGTC
1 TATTTTTGTC
5978063 T
1 T
5978064 TAGTGTTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (10 bp):
TATTTTTGTC
Found at i:5980043 original size:25 final size:23
Alignment explanation
Indices: 5980003--5980048 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
5979993 CCAATTAGGG
5980003 AATTATTGTTTAAATTTAATTCT
1 AATTATTGTTTAAATTTAATTCT
*
5980026 AATTATCTTTTTAGAATTTAATT
1 AATTAT-TGTTTA-AATTTAATT
5980049 TGGATCCGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 5 0.25
25 9 0.45
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (23 bp):
AATTATTGTTTAAATTTAATTCT
Found at i:5989325 original size:27 final size:27
Alignment explanation
Indices: 5989295--5989372 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
5989285 TCGTTGACCA
* *
5989295 TTGATCATTGACTTTGACCGTTGATAG
1 TTGATCGTTGACTTTGACCATTGATAG
* * *
5989322 TTGATCGTTGACCATTGA-CTTTGATCG
1 TTGATCGTTGA-CTTTGACCATTGATAG
5989349 TTGA-CTGTTGACTTTGACCATTGA
1 TTGATC-GTTGACTTTGACCATTGA
5989373 CTTTTTTTGA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.14
27 31 0.74
28 5 0.12
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (27 bp):
TTGATCGTTGACTTTGACCATTGATAG
Found at i:5989339 original size:14 final size:13
Alignment explanation
Indices: 5989283--5989339 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
5989273 ACCATTGACC
5989283 GATCGTTGACCATT
1 GATCGTTGA-CATT
* *
5989297 GATCATTGACTTT
1 GATCGTTGACATT
* *
5989310 GACCGTTGATAGTT
1 GATCGTTGACA-TT
5989324 GATCGTTGACCATT
1 GATCGTTGA-CATT
5989338 GA
1 GA
5989340 CTTTGATCGT
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 10 0.30
14 22 0.67
15 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (13 bp):
GATCGTTGACATT
Found at i:5989347 original size:20 final size:20
Alignment explanation
Indices: 5989283--5989365 Score: 80
Period size: 20 Copynumber: 4.1 Consensus size: 20
5989273 ACCATTGACC
*
5989283 GATCGTTGACCATTGATCATT
1 GATCGTTGACCATTGA-CTTT
* *
5989304 GA-CTTTGACCGTTGA-TAGTT
1 GATCGTTGACCATTGACT--TT
5989324 GATCGTTGACCATTGACTTT
1 GATCGTTGACCATTGACTTT
**
5989344 GATCGTTGACTGTTGACTTT
1 GATCGTTGACCATTGACTTT
5989364 GA
1 GA
5989366 CCATTGACTT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
20 37 0.73
21 13 0.25
22 1 0.02
ACGTcount: A:0.20, C:0.17, G:0.23, T:0.40
Consensus pattern (20 bp):
GATCGTTGACCATTGACTTT
Found at i:5989372 original size:20 final size:20
Alignment explanation
Indices: 5989336--5989374 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5989326 TCGTTGACCA
* *
5989336 TTGACTTTGATCGTTGACTG
1 TTGACTTTGACCATTGACTG
5989356 TTGACTTTGACCATTGACT
1 TTGACTTTGACCATTGACT
5989375 TTTTTTGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (20 bp):
TTGACTTTGACCATTGACTG
Found at i:5992131 original size:12 final size:12
Alignment explanation
Indices: 5992116--5992163 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
5992106 TTATTTTCTT
*
5992116 TTTACTTTTATA
1 TTTATTTTTATA
5992128 TTTA--TTTATA
1 TTTATTTTTATA
*
5992138 TTTATTTTTCTA
1 TTTATTTTTATA
5992150 TTTATTTATTATA
1 TTTATTT-TTATA
5992163 T
1 T
5992164 GTTAAGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 10 0.32
12 16 0.52
13 5 0.16
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATTTTTATA
Found at i:5992146 original size:22 final size:22
Alignment explanation
Indices: 5992116--5992158 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
5992106 TTATTTTCTT
5992116 TTTACTTTTATATTTATTTATA
1 TTTACTTTTATATTTATTTATA
* *
5992138 TTTATTTTTCTATTTATTTAT
1 TTTACTTTTATATTTATTTAT
5992159 TATATGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTACTTTTATATTTATTTATA
Found at i:5993737 original size:13 final size:14
Alignment explanation
Indices: 5993707--5993744 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
5993697 TTGTATATAA
*
5993707 TTTATATTTATCTT
1 TTTAGATTTATCTT
5993721 TTTAGATTTAT-TT
1 TTTAGATTTATCTT
5993734 TTTAGAGTTTA
1 TTTAGA-TTTA
5993745 AAGAGGATCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.66
Consensus pattern (14 bp):
TTTAGATTTATCTT
Found at i:6002086 original size:18 final size:17
Alignment explanation
Indices: 6002013--6002095 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 17
6002003 AATCTCAAAC
*
6002013 CCTAAACCCTAATCTTGAA
1 CCTAAACCC-AAAC-TGAA
*
6002032 ACTCAAACCCTAAA-TGAA
1 CCT-AAACCC-AAACTGAA
*
6002050 CCTGAACCCAAACTCGAA
1 CCTAAACCCAAACT-GAA
*
6002068 CCTAAACCTCAACCTGAA
1 CCTAAACC-CAAACTGAA
6002086 CTCTAAACCC
1 C-CTAAACCC
6002096 CGAACCTCAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
16 3 0.06
17 6 0.11
18 21 0.40
19 14 0.26
20 9 0.17
ACGTcount: A:0.40, C:0.36, G:0.06, T:0.18
Consensus pattern (17 bp):
CCTAAACCCAAACTGAA
Found at i:6002118 original size:17 final size:17
Alignment explanation
Indices: 6002092--6002125 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
6002082 TGAACTCTAA
*
6002092 ACCCCGAACCTCAAATC
1 ACCCCAAACCTCAAATC
6002109 ACCCCAAACCTCAAATC
1 ACCCCAAACCTCAAATC
6002126 TTGGGGTTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.47, G:0.03, T:0.12
Consensus pattern (17 bp):
ACCCCAAACCTCAAATC
Found at i:6002309 original size:2 final size:2
Alignment explanation
Indices: 6002293--6002330 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
6002283 CCTCTATGAG
6002293 AT AT A- AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6002331 TGTAGAGGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6002932 original size:46 final size:49
Alignment explanation
Indices: 6002855--6002956 Score: 122
Period size: 46 Copynumber: 2.1 Consensus size: 49
6002845 CGCAGGCATA
* *
6002855 TATATATATATATATAGACATACATTCTGATTTTATTCTTTATTTATT-TT
1 TATATATATATATATAAACATACA-TCTGATTTCATTCTTTATTT-TTATT
* *
6002905 TATATATATATATGTAAACAT-C-T-TGATTTCATTTTTTATTTTTATT
1 TATATATATATATATAAACATACATCTGATTTCATTCTTTATTTTTATT
6002951 TATATA
1 TATATA
6002957 CATACGTCTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
45 2 0.04
46 24 0.51
47 1 0.02
49 1 0.02
50 19 0.40
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (49 bp):
TATATATATATATATAAACATACATCTGATTTCATTCTTTATTTTTATT
Found at i:6003821 original size:22 final size:24
Alignment explanation
Indices: 6003795--6003840 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
6003785 AATCCCTTTA
*
6003795 AATCCCTT-TATATT-TTGTTTTT
1 AATCCATTCTATATTATTGTTTTT
*
6003817 AATCCATTCTATTTTATTGTTTTT
1 AATCCATTCTATATTATTGTTTTT
6003841 TTAATTGGCG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 5 0.25
24 8 0.40
ACGTcount: A:0.20, C:0.13, G:0.04, T:0.63
Consensus pattern (24 bp):
AATCCATTCTATATTATTGTTTTT
Found at i:6008271 original size:3 final size:3
Alignment explanation
Indices: 6008263--6008309 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
6008253 GAGGAGATAA
6008263 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA- AAG AA- AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
6008308 AA
1 AA
6008310 AGAAATGGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 6 0.15
3 35 0.85
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6008313 original size:4 final size:5
Alignment explanation
Indices: 6008266--6008314 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 5
6008256 GAGATAAAAG
6008266 AAGAA GAAGAA GAAGAA GAAGAA GAAGAA AAGAA AAGAA AAG-A AAGAA
1 AAGAA -AAGAA -AAGAA -AAGAA -AAGAA AAGAA AAGAA AAGAA AAGAA
6008314 A
1 A
6008315 TGGTCAAGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.10
5 15 0.36
6 23 0.55
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:6008364 original size:5 final size:5
Alignment explanation
Indices: 6008349--6008391 Score: 54
Period size: 5 Copynumber: 8.8 Consensus size: 5
6008339 GGCATCCTTT
*
6008349 AAAAGG AAAAG AAAAG AAAAG AAAAG AATAG --AAG AAAAG AAAA
1 AAAA-G AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
6008392 AGGAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
3 2 0.06
5 27 0.82
6 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:6008366 original size:90 final size:91
Alignment explanation
Indices: 6008261--6008434 Score: 248
Period size: 90 Copynumber: 1.9 Consensus size: 91
6008251 AAGAGGAGAT
*
6008261 AAAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAG-AAAA-GAA-AAGAAAGAAATGGTCAAG
1 AAAAGAAGAAGAA-AAGAA-AAGAA-TAGAAGAAAAGAAAAAGGAAGAA-AAAGAAA--GTCAAG
6008323 ATGAAAACCCGCAAAGGGCATCCTTTAAAAGG
60 ATGAAAACCCGCAAAGGGCATCCTTTAAAAGG
6008355 AAAAGAA-AAGAAAAGAAAAGAATAGAAGAAAAGAAAAAGGAAGAAAAAGAAAGTCAAGATGAAA
1 AAAAGAAGAAGAAAAGAAAAGAATAGAAGAAAAGAAAAAGGAAGAAAAAGAAAGTCAAGATGAAA
*
6008419 ACTCGCAAAGGGCATC
66 ACCCGCAAAGGGCATC
6008435 TTGAAAAATC
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
90 37 0.49
91 9 0.12
92 15 0.20
93 7 0.09
94 7 0.09
ACGTcount: A:0.61, C:0.08, G:0.24, T:0.07
Consensus pattern (91 bp):
AAAAGAAGAAGAAAAGAAAAGAATAGAAGAAAAGAAAAAGGAAGAAAAAGAAAGTCAAGATGAAA
ACCCGCAAAGGGCATCCTTTAAAAGG
Found at i:6008397 original size:15 final size:14
Alignment explanation
Indices: 6008354--6008406 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
6008344 CCTTTAAAAG
*
6008354 GAAAAGAAAAGAAAA
1 GAAAAGAAAAG-GAA
*
6008369 GAAAAGAATA-GAA
1 GAAAAGAAAAGGAA
6008382 GAAAAGAAAAAGGAA
1 GAAAAG-AAAAGGAA
6008397 GAAAAAGAAA
1 G-AAAAGAAA
6008407 GTCAAGATGA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
13 8 0.25
14 3 0.09
15 16 0.50
16 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (14 bp):
GAAAAGAAAAGGAA
Found at i:6009297 original size:23 final size:23
Alignment explanation
Indices: 6009265--6009310 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
6009255 TTTACCCAAA
6009265 AAAAAAAAAAAGGAAAAA-GAGAG
1 AAAAAAAAAAA-GAAAAAGGAGAG
*
6009288 AAAAAGAAAAAGAAAAAGGAGAG
1 AAAAAAAAAAAGAAAAAGGAGAG
6009311 GTCGACGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAAGAAAAAGGAGAG
Found at i:6010317 original size:25 final size:25
Alignment explanation
Indices: 6010289--6010339 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
6010279 ACTAATTGTA
* *
6010289 AAAAAAAGTAAAA-TTATTATATTTT
1 AAAAAAA-TAAAAGTTATCATAATTT
6010314 AAAAAAATAAAAGTTATCATAATTT
1 AAAAAAATAAAAGTTATCATAATTT
6010339 A
1 A
6010340 TTACTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (25 bp):
AAAAAAATAAAAGTTATCATAATTT
Found at i:6014142 original size:16 final size:18
Alignment explanation
Indices: 6014103--6014136 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6014093 TAATTTTATA
6014103 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
6014120 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
6014137 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:6014674 original size:4 final size:4
Alignment explanation
Indices: 6014665--6014690 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6014655 ACGTTTCACC
6014665 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
6014691 ATAAGTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6015036 original size:14 final size:13
Alignment explanation
Indices: 6015017--6015049 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
6015007 ATAATATTAA
6015017 AAAAAATTATTTTT
1 AAAAAA-TATTTTT
6015031 AAAAAATATTTTT
1 AAAAAATATTTTT
6015044 AAAAAA
1 AAAAAA
6015050 AAAAGATATG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
AAAAAATATTTTT
Found at i:6015050 original size:14 final size:15
Alignment explanation
Indices: 6015016--6015050 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
6015006 TATAATATTA
6015016 AAAAAAATTATTTTT
1 AAAAAAATTATTTTT
6015031 -AAAAAA-TATTTTT
1 AAAAAAATTATTTTT
6015044 AAAAAAA
1 AAAAAAA
6015051 AAAGATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAAATTATTTTT
Found at i:6020858 original size:7 final size:7
Alignment explanation
Indices: 6020846--6020876 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
6020836 AAAATTAATA
6020846 AAATACG
1 AAATACG
6020853 AAATACG
1 AAATACG
6020860 AAATACG
1 AAATACG
6020867 AAATACG
1 AAATACG
6020874 AAA
1 AAA
6020877 AAATGCGAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (7 bp):
AAATACG
Found at i:6021063 original size:30 final size:29
Alignment explanation
Indices: 6021003--6021340 Score: 372
Period size: 30 Copynumber: 11.4 Consensus size: 29
6020993 ATGTAGTTAC
* * *
6021003 GAAAAATTTAGGATCAAAATGTAATTTTG
1 GAAAAGTTTAGGGTTAAAATGTAATTTTG
* *
6021032 GAAAAATTTAAGGTTAAAATGTAATTTTTG
1 GAAAAGTTTAGGGTTAAAATGTAA-TTTTG
*
6021062 G-AAAGTTTAGAGGTTAAAATGTGATTTTG
1 GAAAAGTTTAG-GGTTAAAATGTAATTTTG
6021091 GAAAAGTTTAGGGGTTAAAATGTAATTTTG
1 GAAAAGTTTA-GGGTTAAAATGTAATTTTG
* * * *
6021121 GAAAATTTTGGGGTCAAAATGTTATTTTG
1 GAAAAGTTTAGGGTTAAAATGTAATTTTG
*
6021150 GAAAAGTTTAGGGGTTAAAATGTAATTTTA
1 GAAAAGTTTA-GGGTTAAAATGTAATTTTG
*
6021180 GAAAAGTTTAGGGGTTAAAATGTAATTATG
1 GAAAAGTTTA-GGGTTAAAATGTAATTTTG
* *
6021210 GAGAAGTTTAGGGTTTAAATGTAATTTTG
1 GAAAAGTTTAGGGTTAAAATGTAATTTTG
* * *
6021239 GAAAAGTTTGAGGGTCAAAATGTTATTATG
1 GAAAAGTTT-AGGGTTAAAATGTAATTTTG
* * * * *
6021269 GAAAGGTTCAAGAGTCAAAATGTAATTTTA
1 GAAAAGTT-TAGGGTTAAAATGTAATTTTG
* * * *
6021299 GAAAAGTTTAGGGTCAAAATATGATTTTT
1 GAAAAGTTTAGGGTTAAAATGTAATTTTG
6021328 GAAAAGTTTAGGG
1 GAAAAGTTTAGGG
6021341 ATCCCTTGAG
Statistics
Matches: 264, Mismatches: 38, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
29 113 0.43
30 150 0.57
31 1 0.00
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (29 bp):
GAAAAGTTTAGGGTTAAAATGTAATTTTG
Found at i:6021090 original size:59 final size:59
Alignment explanation
Indices: 6021016--6021340 Score: 343
Period size: 59 Copynumber: 5.5 Consensus size: 59
6021006 AAATTTAGGA
* *
6021016 TCAAAATGTAATTTTGGAAAAATTTAAGGTTAAAATGTAATTTTTGGAAAGTTTAGAGG
1 TCAAAATGTAATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTTTGGAAAGTTTAGAGG
* * * * *
6021075 TTAAAATGTGATTTTGGAAAAGTTTAGGGGTTAAAATGTAA-TTTTGGAAAATTTTGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATGTAATTTTTGGAAAGTTTAGAGG
* * * *
6021134 TCAAAATGTTATTTTGGAAAAGTTTAGGGGTTAAAATGTAATTTTAGAAAAGTTTAGGGG
1 TCAAAATGTAATTTTGGAAAAGTTTA-GGGTTAAAATGTAATTTTTGGAAAGTTTAGAGG
* * * *
6021194 TTAAAATGTAATTATGGAGAAGTTTAGGGTTTAAATGTAA-TTTTGGAAAAGTTT-GAGGG
1 TCAAAATGTAATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTTTGG-AAAGTTTAGA-GG
* * * * * * * *
6021253 TCAAAATGTTATTATGGAAAGGTTCAAGAGTCAAAATGTAATTTTAGAAAAGTTTAG-GG
1 TCAAAATGTAATTTTGGAAAAGTT-TAGGGTTAAAATGTAATTTTTGGAAAGTTTAGAGG
* * *
6021312 TCAAAATATGATTTTTGAAAAGTTTAGGG
1 TCAAAATGTAATTTTGGAAAAGTTTAGGG
6021341 ATCCCTTGAG
Statistics
Matches: 221, Mismatches: 38, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
58 8 0.04
59 140 0.63
60 68 0.31
61 5 0.02
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (59 bp):
TCAAAATGTAATTTTGGAAAAGTTTAGGGTTAAAATGTAATTTTTGGAAAGTTTAGAGG
Found at i:6021117 original size:89 final size:89
Alignment explanation
Indices: 6021018--6021338 Score: 385
Period size: 89 Copynumber: 3.6 Consensus size: 89
6021008 ATTTAGGATC
* * *
6021018 AAAATGTAATTTTGGAAAAATTTAAGGTTAAAATGTAATTTTTGG-AAAGTTTAGAGGTTAAAAT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTAA-TTTTGGAAAAGTTTAGAGGTTAAAAT
*
6021082 GTGATTTTGGAAAAGTTTAGGGGTT
65 GTAATTTTGGAAAAGTTTAGGGGTT
* * * *
6021107 AAAATGTAATTTTGGAAAATTTTGGGGTCAAAATGTTATTTTGGAAAAGTTTAGGGGTTAAAATG
1 AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGAGGTTAAAATG
*
6021172 TAATTTTAGAAAAGTTTAGGGGTT
66 TAATTTTGGAAAAGTTTAGGGGTT
* * ** *
6021196 AAAATGTAATTATGGAGAAGTTTAGGGTTTAAATGTAATTTTGGAAAAGTTT-GAGGGTCAAAAT
1 AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGA-GGTTAAAAT
* * * * * * *
6021260 GTTATTATGGAAAGGTTCAAGAGTC
65 GTAATTTTGGAAAAGTTTAGGGGTT
* * * *
6021285 AAAATGTAATTTTAGAAAAGTTTAGGGTCAAAATATGATTTTTGAAAAGTTTAG
1 AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAG
6021339 GGATCCCTTG
Statistics
Matches: 196, Mismatches: 33, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
88 7 0.04
89 188 0.96
90 1 0.01
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.37
Consensus pattern (89 bp):
AAAATGTAATTTTGGAAAAGTTTAGGGTCAAAATGTAATTTTGGAAAAGTTTAGAGGTTAAAATG
TAATTTTGGAAAAGTTTAGGGGTT
Done.