Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 8 of 318
Found at i:1992683 original size:44 final size:44
Alignment explanation
Indices: 1992594--1993688 Score: 840
Period size: 44 Copynumber: 25.2 Consensus size: 44
1992584 GGGATGCAAN
1992594 GATGCCAAATCTG-T-TTTTCAACTTGTTCCCTATAAGCAC-GG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * *
1992635 GATGCCAAATCTGTTGTTTTCAACTTGTTCCCTATAAGCACAAG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
*
1992679 GATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * * *
1992723 GATGCC--ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGATAT-TTTCAACTTG-TTCCCTATAAGCACAGG
* * * * * **
1992767 AATGTCAGATCTGCTATTTTCGA-TCCATT-CCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACT-TGTTCCCTATAAGCACAGG
*
1992810 GATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * * *
1992854 GATGCC--ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGATAT-TTTCAACTTG-TTCCCTATAAGCACAGG
* * * * * * *
1992898 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
*
1992942 GATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * * *
1992986 GATGCC--ATGCTGAAATTTTGATC-TGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGATATTTTCAACTTG-TTCCCTATAAGCACAGG
* * * * * * *
1993029 AATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* *
1993073 GATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * * *
1993117 GATGCC--ATGCTGAAATCTTCGA-TCTGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGATATTTTCAACT-TG-TTCCCTATAAGCACAGG
* * * * * * *
1993161 AATGTCAGATCTGCTATCTTCGA-TCTGTTCCCTATAAGCATAGG
1 GATGCCAAATCTGATATTTTCAACT-TGTTCCCTATAAGCACAGG
*
1993205 GATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * ** * *
1993249 GAT--C--ATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGATATTTTC-AACTTGTTCCCTATAAGCACAGG
* * * * * * *
1993291 AATGTCAGATCTGCTATCTTCGA-TCGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
1993334 GATGCCAAATCTG-T-TGTTTC-ACTTGTT-CCTATAAGCACAGG
1 GATGCCAAATCTGATAT-TTTCAACTTGTTCCCTATAAGCACAGG
*
1993375 GATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * * *
1993419 GATGCC--ATGCTGAAATCTTT-GA-TTGCTTCACTGTAAGCACAAG
1 GATGCCAAAT-CTGATAT-TTTCAACTTG-TTCCCTATAAGCACAGG
* * * * * * *
1993462 AATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACT-TGTTCCCTATAAGCACAGG
*
1993506 GATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
* * * * *
1993550 GATGCC--ATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGG
1 GATGCCAAAT-CTGATAT-TTTCAACTTG-TTCCCTATAAGCACAGG
* * * * * * *
1993594 AATGTCAGATCTGCTATCTTCGA-TCCGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACT-TGTTCCCTATAAGCACAGG
*
1993638 GATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGG
1 GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
1993682 GATGCCA
1 GATGCCA
1993689 TGCTGAAATC
Statistics
Matches: 830, Mismatches: 167, Indels: 111
0.75 0.15 0.10
Matches are distributed among these distances:
40 2 0.00
41 50 0.06
42 53 0.06
43 176 0.21
44 487 0.59
45 52 0.06
46 10 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
GATGCCAAATCTGATATTTTCAACTTGTTCCCTATAAGCACAGG
Found at i:1992860 original size:131 final size:132
Alignment explanation
Indices: 1992660--1993381 Score: 1262
Period size: 131 Copynumber: 5.5 Consensus size: 132
1992650 GTTTTCAACT
*
1992660 TGTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
1992725 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATTTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
1992790 TC
131 TC
**
1992792 CATT-CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1992856 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
*
1992921 TT
131 TC
1992923 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1992988 TGCCATGCTGAAAT-TTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
*
1993052 TT
131 TC
*
1993054 TGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
*
1993119 TGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
1993184 TC
131 TC
* * *
1993186 TGTTCCCTATAAGCATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
* *
1993251 T--CATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
66 TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
1993314 TC
131 TC
*
1993316 -GTTCCCTATAAGCACAGGGATGCCAAATCTGTTG-TTTC-ACTTGTT-CCTATAAGCACAGGGA
1 TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
1993377 TGCCA
66 TGCCA
1993382 AATCTGATGT
Statistics
Matches: 570, Mismatches: 16, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
126 17 0.03
127 7 0.01
128 6 0.01
129 31 0.05
130 63 0.11
131 256 0.45
132 190 0.33
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (132 bp):
TGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGA
TGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGA
TC
Found at i:1993093 original size:263 final size:264
Alignment explanation
Indices: 1992659--1993381 Score: 1264
Period size: 263 Copynumber: 2.8 Consensus size: 264
1992649 TGTTTTCAAC
*
1992659 TTGTTCCCTATAAGCACAAGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
1992724 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATTTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
* *
1992789 ATCCATT-CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATTCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
*
1992853 GGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
1992918 CGAT
261 CGAT
1992922 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1992987 ATGCCATGCTGAAAT-TTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
* *
1993051 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATTCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
1993116 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
1993181 CGAT
261 CGAT
* * * *
1993185 CTGTTCCCTATAAGCATAGGGATGCCAAATCTGCTATTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
1993250 AT--CATGCTGAAATCTTCGATCTACTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
*
1993313 A-TCGTTCCCTATAAGCACAGGGATGCCAAATCTGTTG-TTTC-ACTTGTT-CCTATAAGCACAG
131 ATTCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
1993374 GGATGCCA
196 GGATGCCA
1993382 AATCTGATGT
Statistics
Matches: 443, Mismatches: 15, Indels: 9
0.95 0.03 0.02
Matches are distributed among these distances:
258 21 0.05
259 7 0.02
260 4 0.01
261 45 0.10
262 100 0.23
263 266 0.60
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (264 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
ATTCGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
CGAT
Found at i:1993655 original size:132 final size:132
Alignment explanation
Indices: 1993361--1993747 Score: 749
Period size: 132 Copynumber: 2.9 Consensus size: 132
1993351 TTCACTTGTT
1993361 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
1 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
*
1993426 TGCTGAAATCTTTGAT-TGCTTCACTGTAAGCACAAGAATGTCAGATCTGCTATCTTCGATCCGT
66 TGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGT
1993490 TC
131 TC
1993492 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
1 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
1993557 TGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGT
66 TGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGT
1993622 TC
131 TC
1993624 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
1 CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
*
1993689 TGCTGAAATCTTGGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 TGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
1993748 GTCTGCTCCT
Statistics
Matches: 253, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
131 81 0.32
132 172 0.68
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (132 bp):
CCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCA
TGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCCGT
TC
Found at i:1993877 original size:67 final size:68
Alignment explanation
Indices: 1993799--1993995 Score: 292
Period size: 68 Copynumber: 2.9 Consensus size: 68
1993789 TCTTCTTCCA
* * * *
1993799 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAG-CTCTCCAATGCCATTTCTGGAAGAAGAGGT
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
1993863 -TT
66 CTT
* *
1993865 GCTGAAACTTCAAGGAGATCTGTTGTGGCTTTTAGCCGCTCCAACGCCATTTCAGGAAGAAAAGA
1 -CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGA
1993930 TCCTT
65 T-CTT
*
1993935 -TGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAAAAAA
1 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAA
1993996 ATTTGTAATT
Statistics
Matches: 118, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
67 33 0.28
68 83 0.70
70 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.28
Consensus pattern (68 bp):
CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTCAGGAAGAAAAGAT
CTT
Found at i:1994124 original size:44 final size:43
Alignment explanation
Indices: 1994074--1994903 Score: 471
Period size: 44 Copynumber: 19.2 Consensus size: 43
1994064 CAACTACTTA
* *
1994074 AGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTT
1 AGGGGTTAAGAGCTGTAAATCTTC-GTCTGTTACCCTACTGCTT
* *
1994118 AGGGGTTAAG-GCTTGTAAAT-TT-GGCTTGTTACCCTACTGTTT
1 AGGGGTTAAGAGC-TGTAAATCTTCGTC-TGTTACCCTACTGCTT
** * *
1994160 AGGGGGTTAA-AGC-CCATCATCTTCGATCTGTTTCCCTACTGCTT
1 A-GGGGTTAAGAGCTGTA-AATCTTCG-TCTGTTACCCTACTGCTT
* *
1994204 AGAGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTT
1 AG-GGGTTAAGAGCTGTAAATCTTC-GTCTGTTACCCTACTGCTT
*
1994249 AGGGGTTTAAG-GCTTGTAAA--TTCGGCTTGTTACCCTACTGCTT
1 AGGGG-TTAAGAGC-TGTAAATCTTCGTC-TGTTACCCTACTGCTT
** * *
1994292 AGGGGTTAA-AGC-CCATCATCTTCGATCTGTTTCCCTACTGCTT
1 AGGGGTTAAGAGCTGTA-AATCTTCG-TCTGTTACCCTACTGCTT
* * * * *
1994335 AGGGGGATAAGATCTG-CAA--TTCGATCTGTTA-CCTACCGATT
1 A-GGGGTTAAGAGCTGTAAATCTTCG-TCTGTTACCCTACTGCTT
* ** *
1994376 AGGGGTTTAAGACCT-T-CGTCTTCGATCTGTTTCCCTACTGCTT
1 AGGGG-TTAAGAGCTGTAAATCTTCG-TCTGTTACCCTACTGCTT
* *
1994419 AGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTT
1 A-GGGGTTAAGAGCTGTAAATCTTC-GTCTGTTACCCTACTGCTT
1994464 AGGGGTTTAAG-GCTTGTAAA--TTCAG-CTTGTTACCCTACTGCTT
1 AGGGG-TTAAGAGC-TGTAAATCTTC-GTC-TGTTACCCTACTGCTT
** * *
1994507 AGGGGGTTAA-AGC-CCATCATCTTCGATCTGTTTCCCTACTGCTT
1 A-GGGGTTAAGAGCTGTA-AATCTTCG-TCTGTTACCCTACTGCTT
* * * * *
1994551 AGGGGGATAAGATCTG-CAA--TTCGGTCTGTTACCCTACCGATT
1 A-GGGGTTAAGAGCTGTAAATCTTC-GTCTGTTACCCTACTGCTT
* ** *
1994593 AGGGGTTTAAGACCCT-T-CGTCTTCGATCTGTTTCCCTACTGCTT
1 AGGGG-TTAAGA-GCTGTAAATCTTCG-TCTGTTACCCTACTGCTT
* *
1994637 AGGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTT
1 A-GGGGTTAAGAGCTGTAAATCTTC-GTCTGTTACCCTACTGCTT
1994682 AGGGGTTAAG-GCTTGTAAA--TTCAG-CTTGTTACCCTACTGCTT
1 AGGGGTTAAGAGC-TGTAAATCTTC-GTC-TGTTACCCTACTGCTT
** * *
1994724 AGGGGGTTAA-AGC-CCATCATCTTCGATCTGTTTCCCTACTGCTT
1 A-GGGGTTAAGAGCTGTA-AATCTTCG-TCTGTTACCCTACTGCTT
* * * *
1994768 AGGGGGATAAGA--TCTACAA--TTCGGTCTGTTA-CCTACCGATT
1 A-GGGGTTAAGAGCTGTA-AATCTTC-GTCTGTTACCCTACTGCTT
* ** *
1994809 AGGGGTTTAAGACCCT-T-CGTCTTCGATCTGTTTCCCTACTGCTT
1 AGGGG-TTAAGA-GCTGTAAATCTTCG-TCTGTTACCCTACTGCTT
* *
1994853 AGGGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTT
1 AGGGGTTAAGAGCTGTAAATCTTC-GTCTGTTACCCTACTGCTT
1994897 AGGGGTT
1 AGGGGTT
1994904 TAAGGCTTGT
Statistics
Matches: 618, Mismatches: 90, Indels: 156
0.72 0.10 0.18
Matches are distributed among these distances:
40 9 0.01
41 41 0.07
42 109 0.18
43 142 0.23
44 208 0.34
45 105 0.17
46 4 0.01
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (43 bp):
AGGGGTTAAGAGCTGTAAATCTTCGTCTGTTACCCTACTGCTT
Found at i:1994247 original size:131 final size:131
Alignment explanation
Indices: 1994012--1994918 Score: 617
Period size: 131 Copynumber: 7.0 Consensus size: 131
1994002 AATTTCCAGC
* * * * * * *
1994012 CTGTTACCCTACTACTTAGGGGTTTAAGGCCCATCATCTTCGATCTATTTCTCAACTACTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTT-AGG
1994077 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTTGTAAATTTGG
65 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTTGTAAATTTGG
1994142 CT
130 CT
*
1994144 -TGTTACCCTACTGTTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG-G
*
1994208 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCG
65 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCTTGTAAATTTG
1994273 GCT
129 GCT
1994276 -TGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTA-GG
* * * * * * *
1994339 GGATAAGATCTG-CAA--TTC-GATCTGTTA-CCTACCGATTAGGGGTTTAAGACCTTCGT---C
65 GGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGGG-TTAAG-GCTT-GTAAAT
* *
1994396 TTCGAT
126 TTGGCT
* * ** * * *
1994402 CTGTTTCCCTACTGCTTAGGGGGTT-AAGATCTGTAAATCTTC-AGCCTGTTACCCTACTGCTTA
1 CTGTTACCCTACTGCTTAGGGGGTTAAAG-CCCAT-CATCTTCGA-TCTGTTTCCCTACTGCTTA
* * * *** *
1994465 GGGGTTTAAG-GCTTGTAAA--TTCAGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CA
63 GGGG-TTAAGATC-TGTAAATCTTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGTAAA
* *
1994526 TCTTCGAT
125 T-TTGGCT
* * ** * * * * *
1994534 CTGTTTCCCTACTGCTTAGGGGGAT-AAGATC-TGCA-ATTCGGTCTGTTACCCTACCGATTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCAT-CATCTTCGATCTGTTTCCCTACTGCTTAGG
* ** * * *
1994596 GGTTTAAGACCCT-T-CGTCTTC-GATCTGTTTCCCTACTGCTTAGGGGGTTAA-GATCTGTAAA
65 GG-TTAAGA-TCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTA-GGGGTTAAGGCT-TGTAAA
*
1994657 TCTTCAGC-
125 T-TT-GGCT
* *** ** * *
1994665 CTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGT-AAATTC-AGCTTGTTACCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATC-TGTTTCCCTACTGCTTA-G
* ** * * * * * *
1994727 GGGTTAA-AGC-CCATCATCTTC-GATCTGTTTCCCTACTGCTTAGGGGGATAA-G-ATCTACAA
64 GGGTTAAGATCTGTA-AATCTTCAG-CCTGTTACCCTACTGCTTA-GGGGTTAAGGCTTGTA-AA
*
1994787 TTCGG-T
125 TTTGGCT
* * * * *
1994793 CTGTTA-CCTACCGATTA-GGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAG-CCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
*
1994856 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTGAATT
65 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCTTGTAAATT
1994919 CACTGATTCT
Statistics
Matches: 624, Mismatches: 103, Indels: 98
0.76 0.12 0.12
Matches are distributed among these distances:
126 3 0.00
127 56 0.09
128 47 0.08
129 116 0.19
130 67 0.11
131 255 0.41
132 80 0.13
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (131 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGCTTGTAAATTTGGC
T
Found at i:1994565 original size:216 final size:217
Alignment explanation
Indices: 1994144--1994920 Score: 1402
Period size: 215 Copynumber: 3.6 Consensus size: 217
1994134 AAATTTGGCT
* * * * * *
1994144 TGTTACCCTACTGTTTAGGGGGTTAA-AGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGAG
1 TGTTA-CCTACCGATTAGGGGTTTAAGA-CCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGG
*
1994208 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCG
64 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
1994273 GCTTGTTACCCTACTGCTTA-GGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
129 GCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAG
*
1994337 GGGGATAAGATCTGCAATTCGATC
194 GGGGATAAGATCTGCAATTCGGTC
1994361 TGTTACCTACCGATTAGGGGTTTAAGA-CCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1 TGTTACCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
1994425 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGC
66 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGC
1994490 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
131 TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
1994555 GGATAAGATCTGCAATTCGGTC
196 GGATAAGATCTGCAATTCGGTC
1994577 TGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
1 TGTTA-CCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGG
1994642 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGCTTGTAAATTCAG
65 GTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAG
1994706 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
130 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGG
*
1994771 GGGATAAGATCTACAATTCGGTC
195 GGGATAAGATCTGCAATTCGGTC
1994794 TGTTACCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTA-GGGG
1 TGTTACCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
*
1994858 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTGAATTCA
66 TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCA
1994921 CTGATTCTAG
Statistics
Matches: 545, Mismatches: 10, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
215 164 0.30
216 161 0.30
217 139 0.26
218 81 0.15
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (217 bp):
TGTTACCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG
TTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTCAGC
TTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG
GGATAAGATCTGCAATTCGGTC
Found at i:1995077 original size:66 final size:66
Alignment explanation
Indices: 1994971--1995097 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
1994961 TCTATGCTTA
*
1994971 TGTCAAATGATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
1995036 G
66 G
* *
1995037 TGTCAAATAATTAGGATGCTATGATTGAAATGAATCAAATGCTCCTAACTAGATGTGTTAT
1 TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTAT
1995098 TATATGAATG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (66 bp):
TGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACCAGATGTGTTATGAAT
G
Found at i:1996226 original size:12 final size:13
Alignment explanation
Indices: 1996210--1996240 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
1996200 TTGGCCTTTC
1996210 CTTTTTCTTTTTT
1 CTTTTTCTTTTTT
1996223 -TTTTTCTTTTTT
1 CTTTTTCTTTTTT
1996235 CTTTTT
1 CTTTTT
1996241 TTGGTCTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (13 bp):
CTTTTTCTTTTTT
Found at i:1996228 original size:19 final size:19
Alignment explanation
Indices: 1996206--1996242 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1996196 CACTTTGGCC
1996206 TTTCCTTTTTCTTTTTTTT
1 TTTCCTTTTTCTTTTTTTT
*
1996225 TTTCTTTTTTCTTTTTTT
1 TTTCCTTTTTCTTTTTTT
1996243 GGTCTTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTCCTTTTTCTTTTTTTT
Found at i:1996248 original size:18 final size:19
Alignment explanation
Indices: 1996211--1996248 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1996201 TGGCCTTTCC
**
1996211 TTTTTCTTTTTTTTTTTCT
1 TTTTTCTTTTTTTTGGTCT
1996230 TTTTTC-TTTTTTTGGTCT
1 TTTTTCTTTTTTTTGGTCT
1996248 T
1 T
1996249 AAAGCGCCCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.00, C:0.11, G:0.05, T:0.84
Consensus pattern (19 bp):
TTTTTCTTTTTTTTGGTCT
Found at i:2000692 original size:2 final size:2
Alignment explanation
Indices: 2000685--2000713 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2000675 AAAACAATAC
2000685 TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2000714 CATAAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2000736 original size:12 final size:11
Alignment explanation
Indices: 2000685--2000737 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
2000675 AAAACAATAC
*
2000685 TATATATATAA
1 TATATACATAA
*
2000696 TATATATATATA
1 TATATACATA-A
2000708 TATATACATAAA
1 TATATACAT-AA
*
2000720 AATATACACTAA
1 TATATACA-TAA
2000732 TATATA
1 TATATA
2000738 ATAGTAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
11 10 0.28
12 24 0.67
13 2 0.06
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (11 bp):
TATATACATAA
Found at i:2000961 original size:3 final size:3
Alignment explanation
Indices: 2000948--2001033 Score: 63
Period size: 3 Copynumber: 28.3 Consensus size: 3
2000938 GAGGGCATAT
**
2000948 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GGA ATA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A ATA ATA ATA
* *
2000995 ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2001034 AACAAAGCTC
Statistics
Matches: 66, Mismatches: 9, Indels: 16
0.73 0.10 0.18
Matches are distributed among these distances:
2 8 0.12
3 48 0.73
4 9 0.14
5 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:2000972 original size:12 final size:12
Alignment explanation
Indices: 2000948--2001030 Score: 71
Period size: 12 Copynumber: 6.8 Consensus size: 12
2000938 GAGGGCATAT
2000948 ATAATAT-AATA
1 ATAATATAAATA
2000959 ATAATATAAATA
1 ATAATATAAATA
2000971 ATAATATATACATGA
1 ATAATATA-A-AT-A
**
2000986 GGAATA-ATAATA
1 ATAATATA-AATA
2000998 ATAATATAAATA
1 ATAATATAAATA
* *
2001010 ATAGTAAAAATA
1 ATAATATAAATA
*
2001022 ATAAAATAA
1 ATAATATAA
2001031 TAAAACAAAG
Statistics
Matches: 58, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
11 7 0.12
12 37 0.64
13 4 0.07
14 5 0.09
15 5 0.09
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:2001021 original size:27 final size:27
Alignment explanation
Indices: 2000948--2001034 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 27
2000938 GAGGGCATAT
* *
2000948 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* * * *
2000974 AT-ATATACAT--GAGGAATAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
2000998 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
2001025 A-AATAATAAA
1 ATAAT-ATAAA
2001035 ACAAAGCTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 9
0.71 0.15 0.14
Matches are distributed among these distances:
24 11 0.24
25 11 0.24
26 7 0.15
27 17 0.37
ACGTcount: A:0.64, C:0.01, G:0.05, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:2001575 original size:4 final size:4
Alignment explanation
Indices: 2001566--2001592 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
2001556 GGCCAAGGTT
2001566 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
2001593 GTGTTTGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:2013889 original size:23 final size:23
Alignment explanation
Indices: 2013870--2013913 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
2013860 TTCTTTTTCT
*
2013870 TTTATTGGGTTTTTTTTTTTTAA
1 TTTATGGGGTTTTTTTTTTTTAA
* *
2013893 TTTCTGGGGTTTCTTTTTTTT
1 TTTATGGGGTTTTTTTTTTTT
2013914 GTTGTTGATG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.07, C:0.05, G:0.16, T:0.73
Consensus pattern (23 bp):
TTTATGGGGTTTTTTTTTTTTAA
Found at i:2016050 original size:29 final size:29
Alignment explanation
Indices: 2016016--2016099 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
2016006 TTTGATTCTT
*
2016016 TTTAATAGTATAGGGGCTAAATTGATCCA
1 TTTAATAGTAGAGGGGCTAAATTGATCCA
2016045 TTTAATAGTAGAGGGGCTAAATTGATCCA
1 TTTAATAGTAGAGGGGCTAAATTGATCCA
* *
2016074 TTTAATAGTAGATGGGCTAATTTGAT
1 TTTAATAGTAGAGGGGCTAAATTGAT
2016100 ATGATCCTAC
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (29 bp):
TTTAATAGTAGAGGGGCTAAATTGATCCA
Found at i:2019001 original size:17 final size:16
Alignment explanation
Indices: 2018981--2019020 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
2018971 TTTTTTATAA
*
2018981 TTAAGTTCGGATTATTT
1 TTAAGTTC-GATTAATT
*
2018998 TTAATTTCGATTAATT
1 TTAAGTTCGATTAATT
2019014 TTAAGTT
1 TTAAGTT
2019021 TAAATTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.28, C:0.05, G:0.12, T:0.55
Consensus pattern (16 bp):
TTAAGTTCGATTAATT
Found at i:2023785 original size:23 final size:23
Alignment explanation
Indices: 2023740--2023796 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
2023730 TTTTAATATT
2023740 TTTATATTATTAAATTAAATTAAA
1 TTTATATTATT-AATTAAATTAAA
* *
2023764 TTTATATATATT-ATTAACTTAAG
1 TTTATAT-TATTAATTAAATTAAA
2023787 TTTA-ATTATT
1 TTTATATTATT
2023797 GAGTCGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.13
22 2 0.07
23 13 0.43
24 7 0.23
25 4 0.13
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTATATTATTAATTAAATTAAA
Found at i:2023866 original size:16 final size:17
Alignment explanation
Indices: 2023835--2023871 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
2023825 CGAACTCGAG
2023835 TTTAAACACAAATTTTA
1 TTTAAACACAAATTTTA
*
2023852 TTTAAAC-CTAATTTTA
1 TTTAAACACAAATTTTA
2023868 TTTA
1 TTTA
2023872 TAAATAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTAAACACAAATTTTA
Found at i:2023879 original size:16 final size:16
Alignment explanation
Indices: 2023835--2023897 Score: 51
Period size: 16 Copynumber: 4.0 Consensus size: 16
2023825 CGAACTCGAG
*
2023835 TTTAAACACAAATTTTA
1 TTTAAACA-TAATTTTA
*
2023852 TTTAAACCTAATTTTA
1 TTTAAACATAATTTTA
*
2023868 TTTATAA-ATAA-TTAA
1 TTTA-AACATAATTTTA
*
2023883 TTCAAACAT-ATTTTA
1 TTTAAACATAATTTTA
2023898 AGTCTATTCA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
14 3 0.08
15 11 0.30
16 14 0.38
17 9 0.24
ACGTcount: A:0.44, C:0.10, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTAAACATAATTTTA
Found at i:2025412 original size:27 final size:28
Alignment explanation
Indices: 2025380--2025436 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 28
2025370 AAAAACTTTC
*
2025380 AATTAAATAATTTTATAA-AATTT-AATT
1 AATTAAAT-ATTTTAAAATAATTTAAATT
*
2025407 AATTAAATTTTTTAAAATAATTTAAATT
1 AATTAAATATTTTAAAATAATTTAAATT
2025435 AA
1 AA
2025437 GTTTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 7 0.27
27 13 0.50
28 6 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
AATTAAATATTTTAAAATAATTTAAATT
Found at i:2025422 original size:24 final size:24
Alignment explanation
Indices: 2025371--2025424 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
2025361 ACATATTCTA
2025371 AAAACTTTCAATTAAATAATTTTAT
1 AAAA-TTTCAATTAAATAATTTTAT
* *
2025396 AAAATTT-AATTAATTAAATTTTTT
1 AAAATTTCAATTAAAT-AATTTTAT
2025420 AAAAT
1 AAAAT
2025425 AATTTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 7 0.27
24 15 0.58
25 4 0.15
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
AAAATTTCAATTAAATAATTTTAT
Found at i:2026869 original size:12 final size:12
Alignment explanation
Indices: 2026854--2026878 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2026844 TAAAAAATTT
2026854 AAAAAAAAAAAC
1 AAAAAAAAAAAC
2026866 AAAAAAAAAAAC
1 AAAAAAAAAAAC
2026878 A
1 A
2026879 CATACATGGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAAAC
Found at i:2029008 original size:35 final size:35
Alignment explanation
Indices: 2028962--2029034 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
2028952 TCAAAAGACT
2028962 TCAGTTAAATTAGATTATGATGCTATTTTTCTTGC
1 TCAGTTAAATTAGATTATGATGCTATTTTTCTTGC
*
2028997 TCAGTTAAATTAGATTATGATGTTATTTTTCTTGC
1 TCAGTTAAATTAGATTATGATGCTATTTTTCTTGC
2029032 TCA
1 TCA
2029035 TGTGGCCAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.11, G:0.14, T:0.49
Consensus pattern (35 bp):
TCAGTTAAATTAGATTATGATGCTATTTTTCTTGC
Found at i:2030992 original size:23 final size:22
Alignment explanation
Indices: 2030957--2030999 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
2030947 CTTAATTTTT
2030957 TTAAAAATAATAAAATTATAAA
1 TTAAAAATAATAAAATTATAAA
*
2030979 TTAATAAATGATAAAATTATA
1 TTAA-AAATAATAAAATTATA
2031000 TTTTGACCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
TTAAAAATAATAAAATTATAAA
Found at i:2035451 original size:6 final size:6
Alignment explanation
Indices: 2035440--2035479 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
2035430 CTAAATGTTG
*
2035440 CTTTTT CTTTTT CTTTTT -TTTCT -TTTTT C-TTTT CTTTTT C
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C
2035480 ATGGATTCCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
5 13 0.43
6 17 0.57
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
CTTTTT
Found at i:2035457 original size:12 final size:12
Alignment explanation
Indices: 2035440--2035479 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
2035430 CTAAATGTTG
2035440 CTTTTTCTTTTT
1 CTTTTTCTTTTT
*
2035452 CTTTTT-TTTCT
1 CTTTTTCTTTTT
2035463 -TTTTTC-TTTT
1 CTTTTTCTTTTT
2035473 CTTTTTC
1 CTTTTTC
2035480 ATGGATTCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
10 8 0.33
11 10 0.42
12 6 0.25
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (12 bp):
CTTTTTCTTTTT
Found at i:2036936 original size:11 final size:11
Alignment explanation
Indices: 2036915--2036944 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
2036905 TATTGTCTTT
2036915 TTTTATTTTTTA
1 TTTT-TTTTTTA
2036927 TTTTTTTTTTA
1 TTTTTTTTTTA
2036938 TTTTTTT
1 TTTTTTT
2036945 AATAAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTA
Found at i:2037362 original size:18 final size:19
Alignment explanation
Indices: 2037340--2037395 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 19
2037330 AATCTTTGAT
2037340 TTTTTATAAATATTTTTAA
1 TTTTTATAAATATTTTTAA
* *
2037359 -TTTTAAAAATTATTTTGAA
1 TTTTTATAAA-TATTTTTAA
*
2037378 TTTTTATAACT-TTTTTAA
1 TTTTTATAAATATTTTTAA
2037396 GAGACCAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
18 14 0.47
19 9 0.30
20 7 0.23
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
TTTTTATAAATATTTTTAA
Found at i:2037372 original size:19 final size:18
Alignment explanation
Indices: 2037341--2037381 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
2037331 ATCTTTGATT
* *
2037341 TTTTATAAATATTTTTAA
1 TTTTAAAAATATTTTGAA
2037359 TTTTAAAAATTATTTTGAA
1 TTTTAAAAA-TATTTTGAA
2037378 TTTT
1 TTTT
2037382 TATAACTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (18 bp):
TTTTAAAAATATTTTGAA
Found at i:2038307 original size:12 final size:12
Alignment explanation
Indices: 2038290--2038314 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2038280 ATAAGAGTCT
2038290 TTAAAATATTAA
1 TTAAAATATTAA
2038302 TTAAAATATTAA
1 TTAAAATATTAA
2038314 T
1 T
2038315 ATCATATCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TTAAAATATTAA
Found at i:2049111 original size:22 final size:22
Alignment explanation
Indices: 2049071--2049112 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2049061 TGGCCACCCA
*
2049071 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
2049093 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
2049113 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:2049233 original size:21 final size:21
Alignment explanation
Indices: 2049176--2049257 Score: 65
Period size: 22 Copynumber: 3.7 Consensus size: 21
2049166 TAGAGGTGGG
* * *
2049176 TTTTGGTTTTTTTGAGGAGGA
1 TTTTTGTTTTTTTGGGGAGGT
* *
2049197 TTGTTCTTTGTTTTGGGGAGGT
1 TTTTTGTTT-TTTTGGGGAGGT
* *
2049219 TTTTTGTTTTTTTGGAGGTGTTTT
1 TTTTTGTTTTTTTGG-GGAG--GT
2049243 TTTTTGTTTTTTTGG
1 TTTTTGTTTTTTTGG
2049258 AAAGAAGGTT
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
21 12 0.25
22 20 0.42
24 16 0.33
ACGTcount: A:0.06, C:0.01, G:0.29, T:0.63
Consensus pattern (21 bp):
TTTTTGTTTTTTTGGGGAGGT
Found at i:2049458 original size:3 final size:3
Alignment explanation
Indices: 2049444--2049532 Score: 71
Period size: 3 Copynumber: 29.3 Consensus size: 3
2049434 GAGCTTTGTT
* *
2049444 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2049488 TTA TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA
1 TTA TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
2049532 T
1 T
2049533 ATATGCCCTC
Statistics
Matches: 71, Mismatches: 6, Indels: 18
0.75 0.06 0.19
Matches are distributed among these distances:
2 7 0.10
3 55 0.77
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2049488 original size:30 final size:30
Alignment explanation
Indices: 2049444--2049536 Score: 102
Period size: 30 Copynumber: 3.0 Consensus size: 30
2049434 GAGCTTTGTT
*
2049444 TTATTATTTTATTATTTTTACTATTATTTA
1 TTATTATTTTATTATTTTTACTATTATATA
2049474 -TATTATTATTATTATTATTT-CTCATGTATATA
1 TTATTATT-TTATTATT-TTTACT-AT-TATATA
*
2049506 TTATTATTTATATTATTATTA-TATTATATA
1 TTATTATTT-TATTATTTTTACTATTATATA
2049536 T
1 T
2049537 GCCCTCTCCA
Statistics
Matches: 54, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
29 7 0.13
30 17 0.31
31 7 0.13
32 9 0.17
33 14 0.26
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (30 bp):
TTATTATTTTATTATTTTTACTATTATATA
Found at i:2049923 original size:20 final size:21
Alignment explanation
Indices: 2049864--2049923 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 21
2049854 TTTATTATTA
* * *
2049864 TTATATAGTAGTGTGTATTTCT
1 TTATATA-TAGTATATATTTAT
*
2049886 ATTATATACA-TATATATTTAT
1 -TTATATATAGTATATATTTAT
2049907 TTATATATAGTAT-TATT
1 TTATATATAGTATATATT
2049924 GTTCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 1 0.03
23 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (21 bp):
TTATATATAGTATATATTTAT
Found at i:2052371 original size:19 final size:19
Alignment explanation
Indices: 2052349--2052395 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
2052339 CTTCCTTTCT
2052349 TTTGCATT-CATTCCATACA
1 TTTGCATTACATTCCA-ACA
*
2052368 TTTGCATTACATTGCAACA
1 TTTGCATTACATTCCAACA
*
2052387 TTTGTATTA
1 TTTGCATTA
2052396 AACTTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTCCAACA
Found at i:2055193 original size:6 final size:6
Alignment explanation
Indices: 2055182--2055217 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2055172 GGAGTTATAT
2055182 GGCAAA GGCAAA GG-AAA GGCAAA -GCAAA GGCAAA GG
1 GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GGCAAA GG
2055218 TAAAAAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.50, C:0.14, G:0.36, T:0.00
Consensus pattern (6 bp):
GGCAAA
Found at i:2055201 original size:11 final size:11
Alignment explanation
Indices: 2055185--2055217 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
2055175 GTTATATGGC
2055185 AAAGGCAAAGG
1 AAAGGCAAAGG
*
2055196 AAAGGCAAAGC
1 AAAGGCAAAGG
2055207 AAAGGCAAAGG
1 AAAGGCAAAGG
2055218 TAAAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.55, C:0.12, G:0.33, T:0.00
Consensus pattern (11 bp):
AAAGGCAAAGG
Found at i:2056516 original size:66 final size:66
Alignment explanation
Indices: 2056416--2056542 Score: 227
Period size: 66 Copynumber: 1.9 Consensus size: 66
2056406 CATTCATATA
**
2056416 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATTGTTTGACACATT
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
2056481 C
66 C
*
2056482 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATCATTTGACA
1 ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACA
2056543 TAAGCATAGA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 58 1.00
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.35
Consensus pattern (66 bp):
ATAACACATCTAGTTAGGAGCATTTGATTCATTTCAATCATAGCATCCTAATCATTTGACACATT
C
Found at i:2056763 original size:86 final size:85
Alignment explanation
Indices: 2056604--2057280 Score: 471
Period size: 87 Copynumber: 7.8 Consensus size: 85
2056594 GAATTCACAA
* * * * *
2056604 GTCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCCTAACCCCCTAAGCAGT
1 GTCTTAAACCCCTAAGC-ATAGGGTAACAGACCG-A-ATTTGCAGATCTTAACCCCCTAAGCAGT
2056669 AGGGAAACAGATCGAAGACGAAGG
63 AGGGAAACAGATCGAAGACGAA-G
* * *
2056693 GTCTTAAACCCCTAATCGATAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAG
1 GTCTTAAACCCCTAAGC-ATAGGGTAACAGACCGAATTTGCAGATCTTAACCCCCTAAGCAGTAG
*
2056757 GGAAACAGATCGAAGATGAAG
65 GGAAACAGATCGAAGACGAAG
* * * * ** **
2056778 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCTTTAACCCCCTAAGCAGT
1 GTCTTAAACCCCTAAGCA-TAGGGTAACAGACCGAATTTGCA-GATC-TTAACCCCCTAAGCAGT
* * * *
2056842 AGGGTAACA-AGCCAAATTTAC-AA-
63 AGGGAAACAGA-TCGAA--GACGAAG
* * * * * *
2056865 GCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCATAACCCCCTAAGTAGT
1 GTCTTAAACCCCTAAGCA-TAGGGTAACAGACCG-A-ATTTGCAGATCTTAACCCCCTAAGCAGT
2056929 AGGGAAACAGATCGAAGACGAAGG
63 AGGGAAACAGATCGAAGACGAA-G
* * * *
2056953 GTCTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGATCTTATCTCCCTAAGCAGTAG
1 GTCTTAAACCCCTAAGC-ATAGGGTAACAGACCGAATTTGCAGATCTTAACCCCCTAAGCAGTAG
*
2057017 GGAAACAGATCGAAGATGAAG
65 GGAAACAGATCGAAGACGAAG
* * * * ** ** *
2057038 ATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATG-ATGGGCTTTAACCCTCTAAGCAGT
1 GTCTTAAACCCCTAAGCA-TAGGGTAACAGACCGAATTTGCA-GATC-TTAACCCCCTAAGCAGT
* * * *
2057102 AGGGTAACA-AGCCAAATTTAC-AA-
63 AGGGAAACAGA-TCGAA--GACGAAG
* * * * *
2057125 GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGCAGT
1 GTCTTAAACCCCTAAGCA-TAGGGTAACAGACCG-A-ATTTGCAGATCTTAACCCCCTAAGCAGT
* * * *
2057190 AAGGAAACAGATCAAAGATGATG
63 AGGGAAACAGATCGAAGACGAAG
* * * * *
2057213 GGCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACA-AGCCTTAAACCCCTAAGCAG
1 GTC-TTAAACCCCTAAGCA-TAGGGTAACAGA-CCGAATTTGCAGA-TCTTAACCCCCTAAGCAG
2057276 TAGGG
62 TAGGG
2057281 TAACTGGCTG
Statistics
Matches: 461, Mismatches: 95, Indels: 66
0.74 0.15 0.11
Matches are distributed among these distances:
84 1 0.00
85 64 0.14
86 122 0.26
87 139 0.30
88 46 0.10
89 88 0.19
90 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (85 bp):
GTCTTAAACCCCTAAGCATAGGGTAACAGACCGAATTTGCAGATCTTAACCCCCTAAGCAGTAGG
GAAACAGATCGAAGACGAAG
Found at i:2056791 original size:43 final size:43
Alignment explanation
Indices: 2056605--2057550 Score: 564
Period size: 43 Copynumber: 21.7 Consensus size: 43
2056595 AATTCACAAG
* * * *
2056605 TCTTAAGCCCCTAAGCAATAGGGTAACAG-GCTGAAGATTTACAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGA
* * * *
2056650 TCCTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GA
* * * * *
2056694 TCTTAAACCCCTAATC-GATAGGGTAACAGACCGAA-TTGCAGA
1 TCTTAACCCCCTAAGCAG-TAGGGTAACAGATCGAAGATGAAGA
* * *
2056736 TCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * *
2056779 TCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * * *
2056822 GCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-A
1 TC-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA
* * *
2056865 GCCTTAA-CCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGA
1 -TCTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGA
* * * * *
2056910 TCATAACCCCCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAA-GA
* * * * * *
2056954 TCTTAAACCCCTAATCGGTAGGGTAACAGACCGAA-TTGCAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * *
2056996 TCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * *
2057039 TCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * * * *
2057082 GCTTTAACCCTCTAAGCAGTAGGGTAACA-AGCCAA-ATTTACA-A
1 TC-TTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGA-TGA-AGA
* * *
2057125 GCCTTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATTTACAGA
1 -TCTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGA
* * * * *
2057171 TCTTAACCCCCTAAGCAGTAAGGAAACAGATCAAAGATGATGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * ** *
2057214 GCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAATTTACAAG-
1 TC-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGAT-GAAGA
* * * * *
2057258 CCTTAAACCCCTAAGCAGTAGGGTAACTG-GCTGAAGATTTACAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGA
* ** * * *
2057303 TCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
* * * * *
2057346 GCTTTAACCCCCTAAGCAGTAGGGTAACA-AGCCGAA-TTTACAAA
1 TC-TTAACCCCCTAAGCAGTAGGGTAACAGA-TCGAAGATGA-AGA
* * * * * *
2057390 CCTTAAACCCCTAAGTAGTAGGGTAACA-AGCTGAAGATTTACAAA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATC-GAAGA-TGA-AGA
* * * * *
2057435 TCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAA-TTTACAGA
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGA
* * * * * *
2057478 TCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGA-AGA
* ** *
2057522 CCTTAAATCCCTAAGTAGTAGGGTAACAG
1 TCTTAACCCCCTAAGCAGTAGGGTAACAG
2057551 GCTGGAAATT
Statistics
Matches: 698, Mismatches: 160, Indels: 87
0.74 0.17 0.09
Matches are distributed among these distances:
42 84 0.12
43 241 0.35
44 212 0.30
45 157 0.22
46 4 0.01
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (43 bp):
TCTTAACCCCCTAAGCAGTAGGGTAACAGATCGAAGATGAAGA
Found at i:2057073 original size:260 final size:261
Alignment explanation
Indices: 2056595--2057463 Score: 1318
Period size: 260 Copynumber: 3.3 Consensus size: 261
2056585 AGAATCAGTG
* * * * *
2056595 AATTCACAAGTCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCCTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
*
2056660 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGATAGGGTAACAGAC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
2056725 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
131 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
2056790 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
196 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
2056855 A
261 A
*
2056856 AATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCATAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
*
2056920 CTAAGTAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
2056985 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
131 CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
*
2057050 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCTCTAAGCAGTAGGGTAACAAGCC
196 TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
2057115 A
261 A
2057116 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* * * * * * *
2057181 CTAAGCAGTAAGGAAACAGATCAAAGATGATGGG-CTTTAACCCCCTAAGCAGTAGGGTAACA-A
66 CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTC-TTAAACCCCTAATCGGTAGGGTAACAGA
* * * * * * *
2057244 GCCGAATTTACA-AGCCTTAAAC-CCCTAAGCAGTAGGGTAACTG-GCTGAAGATTTACAGATCT
130 -CCGAA-TTGCAGA-TCTT-ATCTCCCTAAGCAGTAGGGAAACAGATC-GAAGA-TGA-AGATCT
** *
2057306 TAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGT
188 TAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGT
*
2057371 AACAAGCCG
253 AACAAGCCA
* * * * *
2057380 AATTTACAAACCTTAAACCCCTAAGTAGTAGGGTAACAAGCTGAAGATTTACAAATCTTAACCCC
1 AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
* *
2057445 CTAACCAGTAGGGTAACAG
66 CTAAGCAGTAGGGAAACAG
2057464 GTTGAATTTA
Statistics
Matches: 563, Mismatches: 36, Indels: 15
0.92 0.06 0.02
Matches are distributed among these distances:
260 257 0.46
261 120 0.21
262 31 0.06
263 4 0.01
264 151 0.27
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (261 bp):
AATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCC
CTAAGCAGTAGGGAAACAGATCGAAGACGAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGAC
CGAATTGCAGATCTTATCTCCCTAAGCAGTAGGGAAACAGATCGAAGATGAAGATCTTAACCCCC
TAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCC
A
Found at i:2057200 original size:132 final size:132
Alignment explanation
Indices: 2056594--2057463 Score: 1124
Period size: 132 Copynumber: 6.6 Consensus size: 132
2056584 TAGAATCAGT
* * * * *
2056594 GAATTCACAAGTCTTAAGCCCCTAAGCAATAGGGTAACAGGCTGAAGATTTACAGATCCTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * *
2056659 CCTAAGCAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATC-GATAGGGTAAC-
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAG-TAGGGTAACA
2056721 AGACC
129 AG-CC
* * * * * * *
2056726 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
2056786 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
2056851 AGCC
129 AGCC
* *
2056855 AAATTTACAAGCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCATAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* * * * * *
2056919 CCTAAGTAGTAGGGAAACAGATCGAAGACGAAGGG-TCTTAAACCCCTAATCGGTAGGGTAAC-A
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCT-TTAACCCCCTAAGCAGTAGGGTAACAA
2056982 GACC
130 G-CC
* * * * * * *
2056986 GAA-TTGC-AGATCTTATCTCCCTAAGCAGTAGGGAAACA-GATCGAAGA-TGA-AGATCTTAAC
1 GAATTTACAAG-CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-GAAGATTTACAGATCTTAAC
*
2057046 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCTCTAAGCAGTAGGGTAACA
64 CCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACA
2057111 AGCC
129 AGCC
*
2057115 AAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
2057180 CCTAAGCAGTAAGGAAACAGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
2057245 CC
131 CC
* *
2057247 GAATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTACAGATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
** *
2057312 CCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
66 CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
2057377 CC
131 CC
* * * * *
2057379 GAATTTACAAACCTTAAACCCCTAAGTAGTAGGGTAACAAGCTGAAGATTTACAAATCTTAACCC
1 GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
* *
2057444 CCTAACCAGTAGGGTAACAG
66 CCTAAGCAGTAGGGAAACAG
2057464 GTTGAATTTA
Statistics
Matches: 647, Mismatches: 69, Indels: 44
0.85 0.09 0.06
Matches are distributed among these distances:
129 163 0.25
130 70 0.11
131 131 0.20
132 283 0.44
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (132 bp):
GAATTTACAAGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCC
CCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAG
CC
Found at i:2057413 original size:175 final size:175
Alignment explanation
Indices: 2056776--2057549 Score: 466
Period size: 175 Copynumber: 4.4 Consensus size: 175
2056766 TCGAAGATGA
** * * *
2056776 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATCGAAGATGATGGGCTTTAACCCCCTAAGCAG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCCTTAAACCCCTAAGCAG
* * * *
2056841 TAGGGTAACAAGCCAAATTTACAAGCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAGATTT
66 TAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAAGATTT
* * * * ** * * *
2056905 ACAGATCATAACCCCCTAAGTAGTAGGGAAACA-GATCGAA--GAC
131 ACAAACCTTAAACCCCTAACCAGTAGGGTAACAGGCT-GAATTTAC
* * * * * *** * ** *
2056948 GAAGGGTCTTAAACCCCTAATCGGTAGGGTAACAGA-CCGAATTGCA--GATCTT-ATCTCCCTA
1 --A-GATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATG-ATGGGCCTTAAAC-CCCTA
* * * * * * * * *
2057009 AGCAGTAGGGAAAC-AGATCGAAGATGA-AGATCTTAACCCCCTAAGCAGTAGGGAAAC-AGATC
61 AGCAGTAGGGTAACAAG-CCGAA-TTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAAG-CC
* **** * * * **
2057071 GAAGA-TGA-TGGGCTTTAACCCTCTAAGCAGTAGGGTAACAAGCCAAATTTAC
123 GAAGATTTACAAACCTTAAACCC-CTAACCAGTAGGGTAACAGGCTGAATTTAC
* * * * * * * ** ** *
2057123 A-AGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATTTACAGATCTTAACCCCCTAAGC
1 AGA-TCTTAACCCCCTAAGCAGTAGGGAAACA-GATAAAAAATGATGGGCCTTAAACCCCTAAGC
* * * * * * **** * *
2057187 AGTAAGGAAAC-AGATCAAAGATGATGGGCTTTAACCCCCTAAGCAGTAGGGTAACAAGCCG-A-
64 AGTAGGGTAACAAG-CCGAA-TTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAAG
* * *
2057249 ATTTACAAGCCTTAAACCCCTAAGCAGTAGGGTAACTGGCTGAAGATTTAC
127 ATTTACAAACCTTAAACCCCTAACCAGTAGGGTAACAGGCTG-A-ATTTAC
* *
2057300 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCTTTAACCCCCTAAGCAG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCCTTAAACCCCTAAGCAG
* *
2057365 TAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGTAGTAGGGTAACAAGCTGAAGATTT
66 TAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAAGATTT
* * *
2057430 ACAAATCTTAACCCCCTAACCAGTAGGGTAACAGGTTGAATTTAC
131 ACAAACCTTAAACCCCTAACCAGTAGGGTAACAGGCTGAATTTAC
* * * ** * * *
2057475 AGATCTTAACCCCTTAAGCAGTTGGGAAATAGATCGAAGATGATGGGCCTTAAATCCCTAAGTAG
1 AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCCTTAAACCCCTAAGCAG
2057540 TAGGGTAACA
66 TAGGGTAACA
2057550 GGCTGGAAAT
Statistics
Matches: 463, Mismatches: 110, Indels: 53
0.74 0.18 0.08
Matches are distributed among these distances:
172 35 0.08
173 52 0.11
174 37 0.08
175 190 0.41
176 75 0.16
177 73 0.16
178 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.21
Consensus pattern (175 bp):
AGATCTTAACCCCCTAAGCAGTAGGGAAACAGATAAAAAATGATGGGCCTTAAACCCCTAAGCAG
TAGGGTAACAAGCCGAATTTACAAACCTTAAACCCCTAAGCAGTAGGGTAACAAGCCGAAGATTT
ACAAACCTTAAACCCCTAACCAGTAGGGTAACAGGCTGAATTTAC
Found at i:2057685 original size:68 final size:68
Alignment explanation
Indices: 2057568--2057771 Score: 277
Period size: 68 Copynumber: 3.0 Consensus size: 68
2057558 ATTACAAATT
*
2057568 TCTTTT-TCCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCA-G
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGG
*
2057631 AGGA
66 A-AA
* *
2057635 TCTTTTCTTCCTGAAATGGCGTTGGAGCGGCTAAAAGCCACAACAGATCTCCTTGAAGTTTCAGG
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGG
2057700 AAA
66 AAA
* * ** * * *
2057703 CCTCTTCTTCCAAAAATAGCATTGGAGAGGCTAAAAGCCACAGCAGATCTCCTTGATGTTTCAGT
1 TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAG-
2057768 GAAA
65 GAAA
2057772 GAAGATCAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
67 6 0.05
68 109 0.90
69 6 0.05
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (68 bp):
TCTTTTCTTCCTGAAATGGCATTGGAGCGGCTAAAAGCCACAGCAGATCTCCTTGAAGTTTCAGG
AAA
Found at i:2057890 original size:44 final size:44
Alignment explanation
Indices: 2057820--2059003 Score: 671
Period size: 44 Copynumber: 27.2 Consensus size: 44
2057810 GGAGCAGACT
* * * * * *
2057820 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * *
2057865 GAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
*
2057908 GAA-AGTAGCAGATTTGGCATCCCTGTGCTTATAGGGAACG--GATC
1 GAAGA-TATCAGA-TTGGCATCCCTGTGCTTATAGGGAA-GAAGATC
* * * * *
2057952 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGTAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * *
2057997 GAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * *
2058040 GAA-AGCAGCAGATTTGGCGTCCCTGTGCTTATAGGGAA-CAGATC
1 GAAGA-TATCAGA-TTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * * * * *
2058084 AAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * * *
2058129 GAAAATTTCAGCA-TGGCATCCCTGTGCTTATAGGAAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * *
2058172 GAA-AGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATC
1 GAAGA-TATCAGA-TTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * * * ** *
2058216 AAAGATAGCAGATCTGACATTCCTGTGCTTACACTGAAGTAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * * *
2058261 GAAAATTTCAGCA-TGGCATCCCTGTGCTTATAGGAAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* *
2058304 GAA-AGTAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATC
1 GAAGA-TATCAGA-TTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * * * *
2058348 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * *
2058393 AAAGATTTCAGCA-TGGCATCCCTAG-GCTTATAGGGAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCT-GTGCTTATAGGGAAGAAGATC
* * * *
2058436 GAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TT
1 GAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAAGAAGATC
*
2058480 GAA-A-A--A-TTTGGCATCCCTGTGCTTATAGGGAACG--GATC
1 GAAGATATCAGATTGGCATCCCTGTGCTTATAGGGAA-GAAGATC
* * * * * *
2058518 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * *
2058563 GAAGATTTCAGCA-TGGCATCCCTGTGCTTATAGGGAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * *
2058606 GAAAACATCAGATTTGGCATCCCTATGCTTATAGGGAACG--GATC
1 GAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAA-GAAGATC
* * * * * *
2058650 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * *
2058695 AAAGATTTCAGCA-TGGCATCCCTAG-GCTTATAGGGAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCT-GTGCTTATAGGGAAGAAGATC
* * * *
2058738 GAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACAAG-TT
1 GAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAAGAAGATC
*
2058782 GAA-A-A--A-TTTGGCATCCCTGTGCTTATAGGGAACG--GATC
1 GAAGATATCAGATTGGCATCCCTGTGCTTATAGGGAA-GAAGATC
* * * * * *
2058820 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * *
2058865 GAAGATTTCAGCA-TGACATCCCTGTGCTTATAGGGAACAAG-TT
1 GAAGATATCAG-ATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
* * * *
2058908 GAAAACAGCTGATTTGGCATCCCTGTGCTTATAGGGAACG--GATC
1 GAAGATATCAGA-TTGGCATCCCTGTGCTTATAGGGAA-GAAGATC
* * * * * * *
2058952 GAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATC
1 GAAGATATCAGAT-TGGCATCCCTGTGCTTATAGGGAAGAAGATC
*
2058997 AAAGATA
1 GAAGATA
2059004 GCGGATATCG
Statistics
Matches: 881, Mismatches: 178, Indels: 160
0.72 0.15 0.13
Matches are distributed among these distances:
37 2 0.00
38 58 0.07
39 2 0.00
40 4 0.00
42 16 0.02
43 88 0.10
44 589 0.67
45 114 0.13
46 8 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
GAAGATATCAGATTGGCATCCCTGTGCTTATAGGGAAGAAGATC
Found at i:2058057 original size:132 final size:132
Alignment explanation
Indices: 2057820--2058475 Score: 1152
Period size: 132 Copynumber: 5.0 Consensus size: 132
2057810 GGAGCAGACT
2057820 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* *
2057885 CCTGTGCTTATAGGGAACAAGTTGAAAGTAGCAGATTTGGCATCCCTGTGCTTATAGGGAACGGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
2057950 TC
131 TC
*
2057952 GAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
*
2058017 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCGTCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
2058082 TC
131 TC
* *
2058084 AAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAAATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
*
2058149 CCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
2058214 TC
131 TC
* * *
2058216 AAAGATAGCAGATCTGACATTCCTGTGCTTACACTGAAGTAGATCGAAAATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* *
2058281 CCTGTGCTTATAGGAAACAAGTTGAAAGTAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
66 CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
2058346 TC
131 TC
* *
2058348 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATGGCATC
1 GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
* *
2058413 CCTAG-GCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAGGGAACA
66 CCT-GTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACA
2058476 AGTTGAAAAA
Statistics
Matches: 503, Mismatches: 20, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
132 502 1.00
133 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (132 bp):
GAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGCATC
CCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGGGAACAGA
TC
Found at i:2058581 original size:302 final size:302
Alignment explanation
Indices: 2058142--2059002 Score: 1542
Period size: 302 Copynumber: 2.8 Consensus size: 302
2058132 AATTTCAGCA
*
2058142 TGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAGCAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTG-AA--A--A-ATTTGGCATCCCTGTGCTTATAGG
* * * *
2058207 GAACAGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACACTGAAGTAGATCGAAAATTTCAG
60 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAG
* **
2058272 CATGGCATCCCTGTGCTTATAGGAAACAAGTTGAAAGTAGCAGATTTGGCATCCCTGTGCTTATA
125 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATA
*
2058337 GGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTC
190 GGGAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTC
2058402 AGCATGGCATCCCTAGGCTTATAGGGAACAAGTTGAAAACATCAGATT
255 AGCATGGCATCCCTAGGCTTATAGGGAACAAGTTGAAAACATCAGATT
2058450 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAATTTGGCATCCCTGTGCTTATAGGGAACGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAATTTGGCATCCCTGTGCTTATAGGGAACGG
2058515 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGC
66 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGC
* *
2058580 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTATGCTTATAGGGAAC
131 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
2058645 GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATG
196 GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATG
2058710 GCATCCCTAGGCTTATAGGGAACAAGTTGAAAACATCAGATT
261 GCATCCCTAGGCTTATAGGGAACAAGTTGAAAACATCAGATT
2058752 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAATTTGGCATCCCTGTGCTTATAGGGAACGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAATTTGGCATCCCTGTGCTTATAGGGAACGG
*
2058817 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGAC
66 ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGC
*
2058882 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCTGATTTGGCATCCCTGTGCTTATAGGGAAC
131 ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
*
2058947 GGATCGAAGATAGCAAATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
196 GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
2059003 AGCGGATATC
Statistics
Matches: 537, Mismatches: 16, Indels: 6
0.96 0.03 0.01
Matches are distributed among these distances:
302 503 0.94
303 1 0.00
305 1 0.00
307 2 0.00
308 30 0.06
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (302 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAATTTGGCATCCCTGTGCTTATAGGGAACGG
ATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCATGGC
ATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAAC
GGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCATG
GCATCCCTAGGCTTATAGGGAACAAGTTGAAAACATCAGATT
Found at i:2058793 original size:170 final size:174
Alignment explanation
Indices: 2057878--2058946 Score: 770
Period size: 176 Copynumber: 6.1 Consensus size: 174
2057868 GATTTCAGCA
* *
2057878 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGTAGCAGATTTGGCATCCCTGTGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAA-CA-CAGATTTGGCATCCCTATGCTTATAGG
* * *
2057943 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGTAGATCGAAGATTTCAG
64 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
* *
2058008 CATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAGCAGCAGATT
129 CATGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
* ** * * * * * *
2058054 TGGCGTCCCTGTGCTTATAGGGAAC-AGATCAAAGATAGCAGATCTGACATTCCTGTGCTTACAG
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAA-ACA-CAGATTTGGCATCCCTATGCTTATAG
* * ** * * * * * *
2058118 TGAA-GTAGATCGAAAATTTCAG--CATGGCATCCCTGTGCTTATAG-GAAACAAGTTGAAAGCA
63 GGAACG--GATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAG-A
* * * * * *
2058179 --GCAG-ATTTGGCATCCCTGTGCTTATAGGGAAC-AGATCAAAGATAGCAGATC
123 TTTCAGCA--TGACATCCCTGTGCTTATAGGGAACAAGTTGAAA-ACAGCAGATT
* * * ** ** * *
2058230 TGACATTCCTGTGCTTACACTGAAGTAGATCGAAA-ATTTCAGCA--TGGCATCCCTGTGCTTAT
1 TGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAACA---CAG-ATTTGGCATCCCTATGCTTAT
* * * * * * * * *
2058292 AGGAAAC-AAGTTGAA-AGTAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGAT
61 AGGGAACGGA-TCGAAGA-TAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGAT
** * * * * * ***
2058354 AGCAG-ATCTGACATTCCTGTGCTTACAGTGAAGC-AGATCAAAGATTTCAGCA--
124 TTCAGCA--TGACATCCCTGTGCTTATAGGGAA-CAAGTTGAAA-ACAGCAG-ATT
*
2058406 TGGCATCCCTAG-GCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTGTGCTTATAG
1 TGGCATCCCT-GTGCTTATAGGGAACAAGTTG-AAACA-CAGATTTGGCATCCCTATGCTTATAG
* * * * * * * * * **
2058470 GGAAC-AAGTTG-A-A-A--A-ATTTGGCATCCCTGTGCTTATAGGGAA-CGGATCGAAGATAGC
63 GGAACGGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTC
* * * ** * * ***
2058527 AG-ATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA--
127 AGCA--TGACATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAG-ATT
2058576 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACATCAGATTTGGCATCCCTATGCTTATAGG
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTG-AAACA-CAGATTTGGCATCCCTATGCTTATAGG
2058641 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
64 GAACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAG
* *
2058706 CATGGCATCCCTAG-GCTTATAGGGAACAAGTTGAAAACATCAGATT
129 CATGACATCCCT-GTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
*
2058752 TGGCATCCCTGTGCTTATAGGGAACAAGTTG-AA-A-A-ATTTGGCATCCCTGTGCTTATAGGGA
1 TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAACACAGATTTGGCATCCCTATGCTTATAGGGA
* *
2058813 ACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGTAGATCGAAGATTTCAGCA
66 ACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA
*
2058878 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCTGATT
131 TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
2058922 TGGCATCCCTGTGCTTATAGGGAAC
1 TGGCATCCCTGTGCTTATAGGGAAC
2058947 GGATCGAAGA
Statistics
Matches: 752, Mismatches: 96, Indels: 96
0.80 0.10 0.10
Matches are distributed among these distances:
169 2 0.00
170 301 0.40
171 6 0.01
172 1 0.00
173 3 0.00
174 8 0.01
175 49 0.07
176 321 0.43
177 58 0.08
178 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (174 bp):
TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAACACAGATTTGGCATCCCTATGCTTATAGGGA
ACGGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCAAAGATTTCAGCA
TGACATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGATT
Found at i:2059390 original size:22 final size:22
Alignment explanation
Indices: 2059350--2059391 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2059340 TGGCCACCCA
*
2059350 CCTTGGCCACCAACTCCACCAC
1 CCTTGGCCACCAACACCACCAC
2059372 CCTTGGCCACCTAA-ACCACC
1 CCTTGGCCACC-AACACCACC
2059392 CCAACCACTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.24, C:0.52, G:0.10, T:0.14
Consensus pattern (22 bp):
CCTTGGCCACCAACACCACCAC
Found at i:2059738 original size:3 final size:3
Alignment explanation
Indices: 2059724--2059809 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
2059714 GAGCTTTGTT
* *
2059724 TTA TTA TT- TTA TTA TTT TTA CTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
2059768 TT- TCTCA TGTA TATA TTA TTA TT- TATA TTA TTA TTA -TA TTA T
1 TTA T-T-A T-TA T-TA TTA TTA TTA T-TA TTA TTA TTA TTA TTA T
2059810 ATATGCCCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 7 0.10
3 52 0.76
4 7 0.10
5 2 0.03
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:2059762 original size:27 final size:27
Alignment explanation
Indices: 2059723--2059809 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
2059713 AGAGCTTTGT
2059723 TTTATTATT-TTATTATTTTTACTATTA
1 TTTA-TATTATTATTATTTTTACTATTA
*
2059750 TTTATATTATTATTATTATTT-C--TCA
1 TTTATATTATTATTATT-TTTACTATTA
* * *
2059775 TGTATA-TATTATTATTTATATTATTA
1 TTTATATTATTATTATTTTTACTATTA
2059801 -TTATATTAT
1 TTTATATTAT
2059810 ATATGCCCTC
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 9 0.19
27 13 0.27
28 3 0.06
ACGTcount: A:0.30, C:0.03, G:0.01, T:0.66
Consensus pattern (27 bp):
TTTATATTATTATTATTTTTACTATTA
Found at i:2059784 original size:21 final size:18
Alignment explanation
Indices: 2059724--2059813 Score: 92
Period size: 18 Copynumber: 4.7 Consensus size: 18
2059714 GAGCTTTGTT
*
2059724 TTATTATTTTATTATTTTTA
1 TTATTA-TTTA-TATTATTA
*
2059744 CTATTATTTATATTATTA
1 TTATTATTTATATTATTA
*
2059762 TTATTATTTCTCATGTATATA
1 TTATTATTTAT-AT-TAT-TA
2059783 TTATTATTTATATTATTA
1 TTATTATTTATATTATTA
2059801 TTA-TATTATATAT
1 TTATTATT-TATAT
2059814 GCCCTCTCCA
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
17 4 0.07
18 26 0.43
19 9 0.15
20 10 0.16
21 12 0.20
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (18 bp):
TTATTATTTATATTATTA
Found at i:2060205 original size:20 final size:21
Alignment explanation
Indices: 2060146--2060205 Score: 52
Period size: 20 Copynumber: 2.9 Consensus size: 21
2060136 ATTATTATTA
* * *
2060146 TTATATAGTAGTGTGTATTTCT
1 TTATATA-TAGTATATATTTAT
*
2060168 ATTATATACA-TATATATTTAT
1 -TTATATATAGTATATATTTAT
2060189 TTATATATAGTAT-TATT
1 TTATATATAGTATATATT
2060206 GTTCACTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 1 0.03
23 7 0.23
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (21 bp):
TTATATATAGTATATATTTAT
Found at i:2068667 original size:16 final size:15
Alignment explanation
Indices: 2068641--2068670 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2068631 TGATGTGAAT
2068641 AATATAAAATATTAA
1 AATATAAAATATTAA
2068656 AATATCAAAATATTA
1 AATAT-AAAATATTA
2068671 GAAAAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:2068846 original size:20 final size:20
Alignment explanation
Indices: 2068789--2068848 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 20
2068779 AATACTACAT
2068789 AAATATGTACAT-ATATAAA
1 AAATATGTACATAATATAAA
** *
2068808 AAATAAATACGTGATAATATTAA
1 AAATATGTAC---ATAATATAAA
2068831 AAATATGTACATAATATA
1 AAATATGTACATAATATA
2068849 GTGTAAAAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 7
0.70 0.14 0.16
Matches are distributed among these distances:
19 8 0.26
20 7 0.23
22 2 0.06
23 14 0.45
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AAATATGTACATAATATAAA
Found at i:2068878 original size:48 final size:48
Alignment explanation
Indices: 2068804--2068922 Score: 118
Period size: 48 Copynumber: 2.5 Consensus size: 48
2068794 TGTACATATA
* * * *
2068804 TAAAAAATAAATACGTGATA-ATATTAAAAATATGTACATAATAT-A-GTG
1 TAAAAAATAAATACAT-ATATA-ATT-AAAATATATACATAAGATAACATG
*
2068852 TAAAAAATACATACATAATATAATTAAAATATATACATAAGATAACATG
1 TAAAAAATAAATACAT-ATATAATTAAAATATATACATAAGATAACATG
* *
2068901 TAAAAAATATATATATATATAA
1 TAAAAAATAAATACATATATAA
2068923 ATAATATAGT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
47 16 0.27
48 27 0.45
49 17 0.28
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.31
Consensus pattern (48 bp):
TAAAAAATAAATACATATATAATTAAAATATATACATAAGATAACATG
Found at i:2068887 original size:22 final size:23
Alignment explanation
Indices: 2068826--2068922 Score: 81
Period size: 25 Copynumber: 4.0 Consensus size: 23
2068816 ACGTGATAAT
*
2068826 ATTAAAAATATGTACATAATATA
1 ATTAAAAATATATACATAATATA
* *
2068849 GTGTAAAAAATACATACATAATATA
1 AT-T-AAAAATATATACATAATATA
*
2068874 ATT-AAAATATATACATAAGATAA
1 ATTAAAAATATATACATAATAT-A
*
2068897 CATGTAAAAA-ATATATATATATATA
1 -AT-TAAAAATATATACATA-ATATA
2068922 A
1 A
2068923 ATAATATAGT
Statistics
Matches: 59, Mismatches: 8, Indels: 13
0.74 0.10 0.16
Matches are distributed among these distances:
22 16 0.27
23 2 0.03
24 5 0.08
25 29 0.49
26 7 0.12
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.32
Consensus pattern (23 bp):
ATTAAAAATATATACATAATATA
Found at i:2068943 original size:25 final size:25
Alignment explanation
Indices: 2068915--2069048 Score: 102
Period size: 25 Copynumber: 5.6 Consensus size: 25
2068905 AAATATATAT
*
2068915 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
* *
2068940 ATATATACATAAAATAGTA-TAATAT
1 ATATATACATAATATAGTATTAA-AG
* * *
2068965 ATATATACGTAATATAGAATT-TAG
1 ATATATACATAATATAGTATTAAAG
* *
2068989 A-ATATACCTAATATA-T-TAAAAG
1 ATATATACATAATATAGTATTAAAG
* *
2069011 AATATATATATAATATAATATT-AAG
1 -ATATATACATAATATAGTATTAAAG
*
2069036 AAATATA-ATAATA
1 ATATATACATAATA
2069049 ACAAAAAAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 16
0.73 0.14 0.14
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 20 0.23
24 23 0.27
25 38 0.44
26 2 0.02
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:2069024 original size:24 final size:23
Alignment explanation
Indices: 2068997--2069048 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
2068987 AGAATATACC
*
2068997 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
2069021 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
2069044 TAATA
1 TAATA
2069049 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:2081637 original size:25 final size:23
Alignment explanation
Indices: 2081585--2081639 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
2081575 TATAAATAGT
2081585 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
2081608 TATAGTGTTTGAAGTATATAC-ATAA
1 AATAGTGTTAGAA--ATATACTAT-A
2081633 AATAGTG
1 AATAGTG
2081640 AAAATATAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 2 0.08
25 13 0.50
ACGTcount: A:0.44, C:0.04, G:0.16, T:0.36
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:2081896 original size:25 final size:23
Alignment explanation
Indices: 2081835--2081921 Score: 88
Period size: 25 Copynumber: 3.7 Consensus size: 23
2081825 TGTACATATA
* * *
2081835 TAAAAATAAATACGTGATAATA-T
1 TAAAAATATATACATAAT-ATAGT
*
2081858 TAAAAATATGTACATAATATAGTGT
1 TAAAAATATATACATAATATA--GT
*
2081883 TAAAAATACATACATAATATAGT
1 TAAAAATATATACATAATATAGT
2081906 T-AAAATATATACATAA
1 TAAAAATATATACATAA
2081922 GATAACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
22 17 0.31
23 17 0.31
25 20 0.37
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.32
Consensus pattern (23 bp):
TAAAAATATATACATAATATAGT
Found at i:2081917 original size:22 final size:24
Alignment explanation
Indices: 2081857--2081921 Score: 89
Period size: 25 Copynumber: 2.8 Consensus size: 24
2081847 CGTGATAATA
*
2081857 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
2081882 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
2081905 TT-AAAATATATACATAA
1 TTAAAAATATATACATAA
2081922 GATAACATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 14 0.38
23 3 0.08
25 20 0.54
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:2081966 original size:15 final size:14
Alignment explanation
Indices: 2081935--2082001 Score: 59
Period size: 14 Copynumber: 4.8 Consensus size: 14
2081925 AACATGTAGA
2081935 AAATATATATATAT
1 AAATATATATATAT
2081949 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
2081964 AAAGATATATACAT
1 AAATATATATATAT
*
2081978 AAA-ATAGTATAGA-
1 AAATATA-TATATAT
2081991 AAATATATATA
1 AAATATATATA
2082002 CGTAATATAG
Statistics
Matches: 45, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
13 15 0.33
14 19 0.42
15 6 0.13
16 5 0.11
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.34
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:2081971 original size:29 final size:28
Alignment explanation
Indices: 2081871--2081989 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 28
2081861 AAATATGTAC
* *
2081871 ATAATATAGTGTT-AAA-A-ATACATAC
1 ATAATATAGTATTAAAATATATACATAA
2081896 ATAATATAG--TTAAAATATATACATAA
1 ATAATATAGTATTAAAATATATACATAA
* ** *
2081922 GATAACAT-GTAGAAAATATATATATATAA
1 -ATAATATAGTATTAAA-ATATATACATAA
2081951 ATAATATAGTATTAAAGATATATACATAAA
1 ATAATATAGTATTAAA-ATATATACAT-AA
*
2081981 ATAGTATAG
1 ATAATATAG
2081990 AAAATATATA
Statistics
Matches: 74, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
23 2 0.03
24 3 0.04
25 10 0.14
26 8 0.11
27 6 0.08
28 9 0.12
29 26 0.35
30 10 0.14
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (28 bp):
ATAATATAGTATTAAAATATATACATAA
Found at i:2081996 original size:25 final size:25
Alignment explanation
Indices: 2081860--2081999 Score: 81
Period size: 25 Copynumber: 5.4 Consensus size: 25
2081850 GATAATATTA
* * *
2081860 AAAATATGTACATAATATAGTGTTA-
1 AAAATATATACATAAAATAGT-ATAG
* *
2081885 AAAATACATACATAATATAGT-T--
1 AAAATATATACATAAAATAGTATAG
* * *
2081907 AAAATATATACATAAGATAACATGTAG
1 AAAATATATACATAAAAT-A-GTATAG
* *
2081934 AAAATATATATATATAAATAATATAG
1 AAAATATATACATA-AAATAGTATAG
2081960 TATTAAAGATATATACATAAAATAGTATAG
1 ----AAA-ATATATACATAAAATAGTATAG
2081990 AAAATATATA
1 AAAATATATA
2082000 TACGTAATAT
Statistics
Matches: 94, Mismatches: 10, Indels: 22
0.75 0.08 0.17
Matches are distributed among these distances:
22 16 0.17
23 2 0.02
24 1 0.01
25 27 0.29
26 8 0.09
27 14 0.15
28 3 0.03
30 13 0.14
31 10 0.11
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (25 bp):
AAAATATATACATAAAATAGTATAG
Found at i:2081998 original size:27 final size:27
Alignment explanation
Indices: 2081931--2082011 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
2081921 AGATAACATG
* *
2081931 TAGAAAATATATATATAT-AAATAATA
1 TAGAAAATATATATACATAAAATAGTA
*
2081957 TAGTATTAAAGATATATACATAAAATAGTA
1 TAG-A--AAATATATATACATAAAATAGTA
* *
2081987 TAGAAAATATATATACGTAATATAG
1 TAGAAAATATATATACATAAAATAG
2082012 AATTTAGAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.07
27 19 0.42
29 13 0.29
30 10 0.22
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (27 bp):
TAGAAAATATATATACATAAAATAGTA
Found at i:2082545 original size:29 final size:31
Alignment explanation
Indices: 2082487--2082559 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 31
2082477 AAAATTTCAA
*
2082487 AAAAATTACATCTTAGACCCCTAAACTTTCCT
1 AAAAATTACATTTTAGACCCCTAAACTTT-CT
* *
2082519 -TAAATTACATTTTA-A-CCCTAAATTTTCT
1 AAAAATTACATTTTAGACCCCTAAACTTTCT
2082547 AAAAATTACATTT
1 AAAAATTACATTT
2082560 AGCCCCAGAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.06
29 21 0.58
30 1 0.03
31 12 0.33
ACGTcount: A:0.40, C:0.21, G:0.01, T:0.38
Consensus pattern (31 bp):
AAAAATTACATTTTAGACCCCTAAACTTTCT
Found at i:2083054 original size:19 final size:19
Alignment explanation
Indices: 2083017--2083057 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
2083007 TGTTTTCATA
* *
2083017 TTTTCTTTCCTTGGTTTTT
1 TTTTCTTTCCTTAGATTTT
*
2083036 TTTTCTTTCTTTAGATTTT
1 TTTTCTTTCCTTAGATTTT
2083055 TTT
1 TTT
2083058 ATTTTATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (19 bp):
TTTTCTTTCCTTAGATTTT
Found at i:2102820 original size:75 final size:74
Alignment explanation
Indices: 2102668--2103428 Score: 846
Period size: 75 Copynumber: 9.9 Consensus size: 74
2102658 TTTATTTCTA
* *
2102668 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
2102733 AATTTCGGTT
65 AATTTCTGTT
* ** *
2102743 TTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCACACGCCT-AGATATTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACG-CTGAGGTATTT
*
2102806 TCAATTTCTATT
63 TCAATTTCTGTT
*
2102818 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
2102883 AATTTTTGTCT
65 AATTTCTGT-T
* * ** **
2102894 TTTAAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTATTTTCA
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCA
**
2102959 ATTTCTGCC
66 ATTTCTGTT
** * *
2102968 TTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTTGAGGTATTT
1 TTTC---AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
*
2103033 TCAATTTCTGTC
63 TCAATTTCTGTT
*
2103045 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
* *
2103110 AATTTTTGTC
65 AATTTCTGTT
** *
2103120 TTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTC
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTC
*
2103185 AATTTCTGTC
65 AATTTCTGTT
* **
2103195 TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATACTGAGGTATT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---ACACGCTGAGGTATT
* **
2103259 TTTAATTTCTACT
62 TTCAATTTCTGTT
*
2103272 TTTCAAAAAAATCAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA-ATCACGCCCTGAGG
1 TTTC---AAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CACG--CTGAGG
2103336 TATTTTCAATTTCTGTT
58 TATTTTCAATTTCTGTT
* * * * *
2103353 TTTCAAAAAAAATAATCAACTCATATTGCGAGAGGTGAGTTAAACCTTAGGTCACACGCTGAGAT
1 TTTC----AAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG--ACACGCTGAGGT
2103418 ATTTTCAATTT
59 ATTTTCAATTT
2103429 TTTTTTGCTT
Statistics
Matches: 606, Mismatches: 55, Indels: 44
0.86 0.08 0.06
Matches are distributed among these distances:
73 39 0.06
74 5 0.01
75 294 0.49
76 6 0.01
77 133 0.22
78 1 0.00
79 7 0.01
81 109 0.18
82 7 0.01
83 4 0.01
84 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (74 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCA
ATTTCTGTT
Found at i:2102833 original size:150 final size:151
Alignment explanation
Indices: 2102661--2103428 Score: 935
Period size: 150 Copynumber: 5.0 Consensus size: 151
2102651 TGATGTTTTT
* *
2102661 ATTTCTA--TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
1 ATTTCTACCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
* * * *
2102724 GGTAATTTCAATTTCGGTTTTTC-AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGG
66 GGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
*
2102788 TCACACGCCT-AGATATTTTCA
131 TCACACG-CTGAGGTATTTTCA
**
2102809 ATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCTACCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
* * * ** *
2102874 GGTATTTTCAATTTTTGTCTTTTAAAAAAATCAACTTATATTGCGAGAAATGAGTTGAGCCTCAA
66 GGTATTTTCAATTTCTGT-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
**
2102939 G--ACACATTGAGGTATTTTCA
130 GTCACACGCTGAGGTATTTTCA
* ** *
2102959 ATTTCTGCCTTTCAAAAAAAAATCAACTCATATTGCGAGAAATGAGTTAAGCCTCAAGACACGTT
1 ATTTCTACCTTTC--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTT
*
2103024 GAGGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
64 GAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* *
2103089 AAG--ACACGTTGAGGTATTTTCA
128 AGGTCACACGCTGAGGTATTTTCA
* ** **
2103111 ATTTTTGTCTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
1 ATTTCTACCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
*
2103176 GGTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G
66 GGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
** *
2103240 GTTCACATACTGAGGTATTTTTA
130 G-TCACACGCTGAGGTATTTTCA
* *
2103263 ATTTCTACTTTTCAAAAAAATCAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCAA-ATCAC
1 ATTTCTACCTTTC--AAAAA--AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA-CAC
*
2103327 GCCCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAATAATCAACTCATATTGCGAGAGGTGAG
61 G--TTGAGGTATTTTCAATTTCTGTTTTTC----AAAA-AATCAACTCATATTGCGAGAGGTGAG
* * * *
2103392 TTAAACCTTAGGTCACACGCTGAGATATTTTCA
119 TTGAGCCTCAGGTCACACGCTGAGGTATTTTCA
2103425 ATTT
1 ATTT
2103429 TTTTTTGCTT
Statistics
Matches: 547, Mismatches: 50, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
148 7 0.01
149 2 0.00
150 207 0.38
151 7 0.01
152 195 0.36
154 5 0.01
155 1 0.00
156 38 0.07
158 25 0.05
161 5 0.01
162 53 0.10
163 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (151 bp):
ATTTCTACCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGA
GGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
TCACACGCTGAGGTATTTTCA
Found at i:2103693 original size:22 final size:22
Alignment explanation
Indices: 2103659--2103712 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
2103649 TTTAAGTTCC
2103659 AAAATTTCAAAAAAATAAAAT-AAA
1 AAAATTT--AAAAAA-AAAATCAAA
*
2103683 AAAATTTAAAAAAAAATTCAAA
1 AAAATTTAAAAAAAAAATCAAA
2103705 AAAATTTA
1 AAAATTTA
2103713 CATCTTAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 4 0.14
22 17 0.61
24 7 0.25
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (22 bp):
AAAATTTAAAAAAAAAATCAAA
Found at i:2103778 original size:28 final size:30
Alignment explanation
Indices: 2103704--2103792 Score: 94
Period size: 29 Copynumber: 2.9 Consensus size: 30
2103694 AAAAATTCAA
2103704 AAAAATTTACATCTTAAACCCCTAAACTTTTCT
1 AAAAA-TTACAT-TT-AACCCCTAAACTTTTCT
*
2103737 -TAAATTACATTTTAA-CCCTAAA-TTTTCT
1 AAAAATTACA-TTTAACCCCTAAACTTTTCT
* *
2103765 AAAAATTACATTTAGCCCCAAAACTTTT
1 AAAAATTACATTTAACCCCTAAACTTTT
2103793 GCTGCATTTG
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
28 10 0.21
29 21 0.44
30 6 0.12
31 7 0.15
32 4 0.08
ACGTcount: A:0.39, C:0.21, G:0.01, T:0.38
Consensus pattern (30 bp):
AAAAATTACATTTAACCCCTAAACTTTTCT
Found at i:2104026 original size:13 final size:14
Alignment explanation
Indices: 2103993--2104026 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
2103983 AAAAAAGAGC
*
2103993 AAAAAATCCAGCAA
1 AAAAAATCCAGAAA
2104007 AAAAAATCCA-AAA
1 AAAAAATCCAGAAA
2104020 AAAAAAT
1 AAAAAAT
2104027 TAGCAATCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.74, C:0.15, G:0.03, T:0.09
Consensus pattern (14 bp):
AAAAAATCCAGAAA
Found at i:2104255 original size:19 final size:20
Alignment explanation
Indices: 2104231--2104272 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
2104221 TGTTTTCATA
*
2104231 TTTTCTTTCCTT-GGTTTTT
1 TTTTCTTTCCTTAGATTTTT
*
2104250 TTTTCTTTCTTTAGATTTTT
1 TTTTCTTTCCTTAGATTTTT
2104270 TTT
1 TTT
2104273 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.05, C:0.12, G:0.07, T:0.76
Consensus pattern (20 bp):
TTTTCTTTCCTTAGATTTTT
Found at i:2107596 original size:11 final size:11
Alignment explanation
Indices: 2107582--2107622 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
2107572 TGTTTTCTCC
2107582 CTATTTTGCTA
1 CTATTTTGCTA
*
2107593 CTATTTTACTA
1 CTATTTTGCTA
* *
2107604 TTATGTTGCTA
1 CTATTTTGCTA
2107615 CTATTTTG
1 CTATTTTG
2107623 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:2107868 original size:12 final size:12
Alignment explanation
Indices: 2107847--2107892 Score: 83
Period size: 12 Copynumber: 3.8 Consensus size: 12
2107837 TATATATTTT
*
2107847 AAAATTATATAA
1 AAAATAATATAA
2107859 AAAATAATATAA
1 AAAATAATATAA
2107871 AAAATAATATAA
1 AAAATAATATAA
2107883 AAAATAATAT
1 AAAATAATAT
2107893 GGGCCGGTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:2109217 original size:9 final size:9
Alignment explanation
Indices: 2109205--2109272 Score: 50
Period size: 9 Copynumber: 7.7 Consensus size: 9
2109195 TTAATATTTT
2109205 AAATATAAA
1 AAATATAAA
*
2109214 AAATTTTAAA
1 AAA-TATAAA
2109224 AAATA-AAA
1 AAATATAAA
*
2109232 AAGTAT-AA
1 AAATATAAA
* *
2109240 AACTATTAA
1 AAATATAAA
*
2109249 AATTATAAA
1 AAATATAAA
* *
2109258 GATTATAAA
1 AAATATAAA
2109267 AAATAT
1 AAATAT
2109273 TTTTAAAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
8 14 0.30
9 25 0.53
10 8 0.17
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.29
Consensus pattern (9 bp):
AAATATAAA
Found at i:2109221 original size:16 final size:17
Alignment explanation
Indices: 2109200--2109233 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
2109190 ATTAATTAAT
*
2109200 ATTTT-AAATATAAAAA
1 ATTTTAAAAAATAAAAA
2109216 ATTTTAAAAAATAAAAA
1 ATTTTAAAAAATAAAAA
2109233 A
1 A
2109234 GTATAAAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATTTTAAAAAATAAAAA
Found at i:2111170 original size:23 final size:23
Alignment explanation
Indices: 2111136--2111183 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
2111126 ATGATTAAAT
**
2111136 ATTTAAATTTAATTAAAAAATAA
1 ATTTAAATTTAAGAAAAAAATAA
2111159 ATTTGAAA-TTAAGAAAAAAATAA
1 ATTT-AAATTTAAGAAAAAAATAA
2111182 AT
1 AT
2111184 GGATTAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
ATTTAAATTTAAGAAAAAAATAA
Found at i:2118941 original size:3 final size:3
Alignment explanation
Indices: 2118933--2118979 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
2118923 ATTTAAAGAT
*
2118933 ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
2118980 TTCAACCAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2120965 original size:50 final size:50
Alignment explanation
Indices: 2120890--2120994 Score: 201
Period size: 50 Copynumber: 2.1 Consensus size: 50
2120880 TCCTTGGAAT
2120890 GTTTATGTTTGGTTTAAGTTTTGGGTTTTTGTCCCAAAGGGATTCACAGA
1 GTTTATGTTTGGTTTAAGTTTTGGGTTTTTGTCCCAAAGGGATTCACAGA
*
2120940 GTTTATGTTTGGTTTAAGTTTTGGGTTTTTGTCCTAAAGGGATTCACAGA
1 GTTTATGTTTGGTTTAAGTTTTGGGTTTTTGTCCCAAAGGGATTCACAGA
2120990 GTTTA
1 GTTTA
2120995 GGCGTTCTTG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.20, C:0.09, G:0.26, T:0.46
Consensus pattern (50 bp):
GTTTATGTTTGGTTTAAGTTTTGGGTTTTTGTCCCAAAGGGATTCACAGA
Found at i:2121739 original size:3 final size:3
Alignment explanation
Indices: 2121731--2121781 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
2121721 AGCTATGACC
2121731 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
2121779 ATG
1 ATG
2121782 GGCTGCTGCT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:2128886 original size:67 final size:69
Alignment explanation
Indices: 2128805--2128937 Score: 189
Period size: 67 Copynumber: 2.0 Consensus size: 69
2128795 CCTTATAAAT
* ** * *
2128805 TAATACTAATTTACAAGATTAATAGCTTGTAAATTACC-AAAATCTCCTAAAGGCTAA-AGCAAA
1 TAATACTAACTTACAAGACCAATACCTTATAAATTACCAAAAATCTCCTAAAGGCTAACAGCAAA
2128868 ATAA
66 ATAA
* *
2128872 TAATACTAACTTACAAGACCAATACCTTATAAGTTACCAAAAATGTCCTAAAGGCTAACAGCAAA
1 TAATACTAACTTACAAGACCAATACCTTATAAATTACCAAAAATCTCCTAAAGGCTAACAGCAAA
2128937 A
66 A
2128938 GGAATAATTA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
67 32 0.56
68 18 0.32
69 7 0.12
ACGTcount: A:0.47, C:0.18, G:0.09, T:0.26
Consensus pattern (69 bp):
TAATACTAACTTACAAGACCAATACCTTATAAATTACCAAAAATCTCCTAAAGGCTAACAGCAAA
ATAA
Found at i:2130018 original size:49 final size:46
Alignment explanation
Indices: 2129946--2130071 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 46
2129936 TTATTTTAAT
*
2129946 TATTTTTATAATTTTAAAATTATAAGTTAATACGGTGATAAAATTAATG
1 TATTTTTATAATTTTAAAATTATAAGTTAATACGATGATAAAA-T--TG
* * * * * *
2129995 TTTTTTTATAAATTTGAATTTATAAGTTTATGCGATGATAAAATTG
1 TATTTTTATAATTTTAAAATTATAAGTTAATACGATGATAAAATTG
2130041 TATTTTTATAATTTTAAAATTATAAGTTAAT
1 TATTTTTATAATTTTAAAATTATAAGTTAAT
2130072 TTTTTTATAC
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 28 0.43
48 1 0.02
49 36 0.55
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.49
Consensus pattern (46 bp):
TATTTTTATAATTTTAAAATTATAAGTTAATACGATGATAAAATTG
Found at i:2134324 original size:17 final size:17
Alignment explanation
Indices: 2134288--2134325 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
2134278 GTAAATTGAA
2134288 TTAAAATTAATTAAAATG
1 TTAAAATT-ATTAAAATG
2134306 TTAAAATT-TTAATAATG
1 TTAAAATTATTAA-AATG
2134323 TTA
1 TTA
2134326 TCTCTTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.21
17 7 0.37
18 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (17 bp):
TTAAAATTATTAAAATG
Found at i:2134559 original size:30 final size:29
Alignment explanation
Indices: 2134523--2134579 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 29
2134513 GGAAAAATAA
2134523 AAATAAAGACGTTTATTATTTTTATTATGC
1 AAATAAAGACGTTTATTA-TTTTATTATGC
2134553 AAATAAAGACGTTTATTATTTTATTAT
1 AAATAAAGACGTTTATTATTTTATTAT
2134580 TCTACATCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (29 bp):
AAATAAAGACGTTTATTATTTTATTATGC
Found at i:2135279 original size:2 final size:2
Alignment explanation
Indices: 2135272--2135296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2135262 CATTGTATCA
2135272 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
2135297 AAATATGTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2135807 original size:26 final size:27
Alignment explanation
Indices: 2135755--2135809 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
2135745 TTTATTTTTA
* * *
2135755 TTTTTAAAAATATTTAAGATATTATAT
1 TTTTTAAAAATATTAAACATATCATAT
*
2135782 TTTTTAAAACTATTAAACATA-CATAT
1 TTTTTAAAAATATTAAACATATCATAT
2135808 TT
1 TT
2135810 AATTATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
26 6 0.25
27 18 0.75
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (27 bp):
TTTTTAAAAATATTAAACATATCATAT
Found at i:2135951 original size:15 final size:15
Alignment explanation
Indices: 2135931--2135993 Score: 56
Period size: 15 Copynumber: 4.0 Consensus size: 15
2135921 ATTCAATATT
2135931 AATATTTTAATAATA
1 AATATTTTAATAATA
*
2135946 AATATTTATTGCAATTATA
1 AATA-TT-TT--AATAATA
*
2135965 AATATATTAATAATA
1 AATATTTTAATAATA
*
2135980 AAT-TTTTTATAATA
1 AATATTTTAATAATA
2135994 TAAATGTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
14 9 0.23
15 13 0.33
16 2 0.05
17 4 0.10
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:2139633 original size:17 final size:17
Alignment explanation
Indices: 2139580--2139634 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
2139570 ATTACACGTC
*
2139580 AATATTAATATAAATATA
1 AATATTAATA-AAATATT
* *
2139598 AATATT-ATTAATTACTT
1 AATATTAATAAAATA-TT
2139615 AATATTAATAAAATATT
1 AATATTAATAAAATATT
2139632 AAT
1 AAT
2139635 TGATAATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 4 0.13
17 14 0.47
18 12 0.40
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (17 bp):
AATATTAATAAAATATT
Found at i:2140816 original size:13 final size:13
Alignment explanation
Indices: 2140798--2140824 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2140788 TAATGAATTT
2140798 AGATTTTGTTAAA
1 AGATTTTGTTAAA
2140811 AGATTTTGTTAAA
1 AGATTTTGTTAAA
2140824 A
1 A
2140825 TGAGATGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (13 bp):
AGATTTTGTTAAA
Found at i:2145545 original size:12 final size:12
Alignment explanation
Indices: 2145530--2145554 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2145520 TATTATTATT
2145530 TTAATTTAATTA
1 TTAATTTAATTA
2145542 TTAATTTAATTA
1 TTAATTTAATTA
2145554 T
1 T
2145555 GTTTTATTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTAATTTAATTA
Found at i:2145823 original size:15 final size:15
Alignment explanation
Indices: 2145803--2145840 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2145793 TTAATCCTTA
2145803 TATTTTT-ATTTTAT
1 TATTTTTAATTTTAT
*
2145817 TATTTTTAATTTTTT
1 TATTTTTAATTTTAT
2145832 TATTTTTAA
1 TATTTTTAA
2145841 AATTTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTAATTTTAT
Found at i:2167292 original size:11 final size:11
Alignment explanation
Indices: 2167276--2167301 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
2167266 TGTTCTTCTT
2167276 TTTTCTTTTTC
1 TTTTCTTTTTC
2167287 TTTTCTTTTTC
1 TTTTCTTTTTC
2167298 TTTT
1 TTTT
2167302 TTTAAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:2169090 original size:14 final size:14
Alignment explanation
Indices: 2169052--2169101 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
2169042 TTTATGTTAG
2169052 AATTAATTAA-TTT
1 AATTAATTAATTTT
2169065 AATTAATTTAATTTT
1 AATTAA-TTAATTTT
* *
2169080 AATTAACTAATTAT
1 AATTAATTAATTTT
*
2169094 AATAAATT
1 AATTAATT
2169102 TGAAAGAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 6 0.19
14 16 0.52
15 9 0.29
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAATTAATTTT
Found at i:2171601 original size:35 final size:35
Alignment explanation
Indices: 2171562--2171628 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
2171552 CTTATGGCAG
2171562 AAAATA-AAACAAAAGAAAAAGAAAAAGAAAATTTT
1 AAAATAGAAA-AAAAGAAAAAGAAAAAGAAAATTTT
* * *
2171597 AAAATAGAAAGAATGAAAAAGAAAAATAAAAT
1 AAAATAGAAAAAAAGAAAAAGAAAAAGAAAAT
2171629 CATAACTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 25 0.89
36 3 0.11
ACGTcount: A:0.75, C:0.01, G:0.10, T:0.13
Consensus pattern (35 bp):
AAAATAGAAAAAAAGAAAAAGAAAAAGAAAATTTT
Found at i:2178569 original size:21 final size:23
Alignment explanation
Indices: 2178545--2178600 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
2178535 AAAATGTCAT
2178545 TAAATAATTGA-AAAAA-GACCA
1 TAAATAATTGAGAAAAACGACCA
*
2178566 TAAATAATGTGATGAAAAACGTCCA
1 TAAATAAT-TGA-GAAAAACGACCA
2178591 TAAAATAATT
1 T-AAATAATT
2178601 TTTGGGCGAT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 8 0.28
22 3 0.10
24 5 0.17
25 6 0.21
26 7 0.24
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.25
Consensus pattern (23 bp):
TAAATAATTGAGAAAAACGACCA
Found at i:2183156 original size:15 final size:15
Alignment explanation
Indices: 2183133--2183168 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
2183123 TATTATTAAT
2183133 GATTCATAATAATTC
1 GATTCATAATAATTC
*
2183148 GATTTATAATAATTC
1 GATTCATAATAATTC
*
2183163 AATTCA
1 GATTCA
2183169 GATTAGTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (15 bp):
GATTCATAATAATTC
Found at i:2183809 original size:27 final size:27
Alignment explanation
Indices: 2183779--2183843 Score: 112
Period size: 27 Copynumber: 2.4 Consensus size: 27
2183769 TTTTTTGTTT
*
2183779 ATGTTCATTTATTTAATATTCACGAAC
1 ATGTTCATTTATTTAATATTCACAAAC
2183806 ATGTTCATTTATTTAATATTCACAAAC
1 ATGTTCATTTATTTAATATTCACAAAC
*
2183833 ATGTTTATTTA
1 ATGTTCATTTA
2183844 ACTTAATCGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.34, C:0.12, G:0.06, T:0.48
Consensus pattern (27 bp):
ATGTTCATTTATTTAATATTCACAAAC
Found at i:2183872 original size:23 final size:23
Alignment explanation
Indices: 2183846--2183915 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
2183836 TTTATTTAAC
*
2183846 TTAATCGAACATGTTCACGAACA
1 TTAATCGAACATGTTCATGAACA
* * *
2183869 TTAAACGAACATGTTCATTAATA
1 TTAATCGAACATGTTCATGAACA
*
2183892 TATAATTGAACATGTTCATGAACA
1 T-TAATCGAACATGTTCATGAACA
2183916 ATGTTAATAA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.31
Consensus pattern (23 bp):
TTAATCGAACATGTTCATGAACA
Found at i:2192297 original size:29 final size:29
Alignment explanation
Indices: 2192217--2192296 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
2192207 ATACTAGAAC
*
2192217 TATACATGAA-TTTCGATTTAATATGTAATTG
1 TATACATGAACTTT-GATTT--TGTGTAATTG
*
2192248 TATACATGAACTTTGATTTTGTGTAATTT
1 TATACATGAACTTTGATTTTGTGTAATTG
*
2192277 TATACATGGAATTTTGATTT
1 TATACAT-GAACTTTGATTT
2192297 GATTCAATTC
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 15 0.34
30 11 0.25
31 15 0.34
32 3 0.07
ACGTcount: A:0.31, C:0.06, G:0.14, T:0.49
Consensus pattern (29 bp):
TATACATGAACTTTGATTTTGTGTAATTG
Found at i:2193700 original size:18 final size:18
Alignment explanation
Indices: 2193663--2193701 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
2193653 TTTATTGAAA
* * *
2193663 ATTTAAAATAAATTATAT
1 ATTTAAAAAAAATGAGAT
2193681 ATTTAAAAAAAATGAGAT
1 ATTTAAAAAAAATGAGAT
2193699 ATT
1 ATT
2193702 CAAATGACCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (18 bp):
ATTTAAAAAAAATGAGAT
Found at i:2195256 original size:30 final size:30
Alignment explanation
Indices: 2195173--2195256 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
2195163 TTTTAAATTT
*
2195173 TTTTAG-AGTTTTAGTGAGAATTTTCAAAAA
1 TTTTAGAAGTTTTA-TGAAAATTTTCAAAAA
* * * * *
2195203 TTTTGATAAGTCTAATTAAAATTTTCAAAAC
1 TTTT-AGAAGTTTTATGAAAATTTTCAAAAA
2195234 TTTTAGAAGTTTTATGAAAATTT
1 TTTTAGAAGTTTTATGAAAATTT
2195257 AAAAAAAATA
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
30 19 0.45
31 18 0.43
32 5 0.12
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (30 bp):
TTTTAGAAGTTTTATGAAAATTTTCAAAAA
Found at i:2205771 original size:31 final size:31
Alignment explanation
Indices: 2205729--2205804 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
2205719 TAAAAAACTT
*
2205729 AATAGTCCAATGACTTAAATAAAAACTTTCA
1 AATAGTTCAATGACTTAAATAAAAACTTTCA
*
2205760 AATAGTTCAATGACTTAAATAAAAAGTTTCA
1 AATAGTTCAATGACTTAAATAAAAACTTTCA
*
2205791 AATAATTCAATGAC
1 AATAGTTCAATGAC
2205805 CATTTTGCAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.49, C:0.13, G:0.08, T:0.30
Consensus pattern (31 bp):
AATAGTTCAATGACTTAAATAAAAACTTTCA
Found at i:2218426 original size:43 final size:43
Alignment explanation
Indices: 2218376--2218467 Score: 157
Period size: 43 Copynumber: 2.1 Consensus size: 43
2218366 TTTATTCCCC
*
2218376 ACATTAAATCACCCAATCGTTCATTTATTATTTATTTTTGCCA
1 ACATTAAATCACCCAATCGTTCATTTATTATTTATTTTTACCA
*
2218419 ACATTAAATCACCCATTCGTTCATTTATTATTTATTTTTACCA
1 ACATTAAATCACCCAATCGTTCATTTATTATTTATTTTTACCA
*
2218462 AAATTA
1 ACATTA
2218468 TTTGTATAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.03, T:0.45
Consensus pattern (43 bp):
ACATTAAATCACCCAATCGTTCATTTATTATTTATTTTTACCA
Found at i:2220447 original size:17 final size:18
Alignment explanation
Indices: 2220425--2220458 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2220415 CCGATTCAAT
2220425 TGAATAA-ATTATTAAAA
1 TGAATAATATTATTAAAA
*
2220442 TGAATAATATTTTTAAA
1 TGAATAATATTATTAAA
2220459 TAAAAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (18 bp):
TGAATAATATTATTAAAA
Found at i:2224651 original size:9 final size:9
Alignment explanation
Indices: 2224615--2224659 Score: 54
Period size: 9 Copynumber: 4.6 Consensus size: 9
2224605 TATGCTGTTT
2224615 TTTTTCTTAA
1 TTTTT-TTAA
2224625 TTTTTTATGAA
1 TTTTTT-T-AA
2224636 CTTTTTTTAA
1 -TTTTTTTAA
2224646 TTTTTTTAA
1 TTTTTTTAA
2224655 TTTTT
1 TTTTT
2224660 ATATATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
9 15 0.47
10 8 0.25
11 3 0.09
12 6 0.19
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.73
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:2230031 original size:21 final size:21
Alignment explanation
Indices: 2229998--2230049 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 21
2229988 TTATTTAAAT
2229998 ATTAAATATTAAAAATAAT-TTA
1 ATTAAA-A-TAAAAATAATATTA
*
2230020 CTTAACAAT-AAAATAATATTA
1 ATTAA-AATAAAAATAATATTA
2230041 ATTAAAATA
1 ATTAAAATA
2230050 TATAATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
20 11 0.44
21 8 0.32
22 5 0.20
23 1 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTAAAATAAAAATAATATTA
Found at i:2230034 original size:20 final size:20
Alignment explanation
Indices: 2230009--2230049 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
2229999 TTAAATATTA
*
2230009 AAAATAAT-TTACTTAACAAT
1 AAAATAATATTAATTAA-AAT
2230029 AAAATAATATTAATTAAAAT
1 AAAATAATATTAATTAAAAT
2230049 A
1 A
2230050 TATAATACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATAATATTAATTAAAAT
Found at i:2237096 original size:15 final size:15
Alignment explanation
Indices: 2237059--2237098 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
2237049 CTATTAATAC
2237059 AAATATAAAAAGTATA
1 AAAT-TAAAAAGTATA
*
2237075 AAGATTAAAAATTATA
1 AA-ATTAAAAAGTATA
2237091 AAATTAAA
1 AAATTAAA
2237099 GAATGAGTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 6 0.27
16 14 0.64
17 2 0.09
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAATTAAAAAGTATA
Found at i:2241086 original size:15 final size:15
Alignment explanation
Indices: 2241068--2241098 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2241058 ATAGATTATC
2241068 ATTTGAAATTTAAAA
1 ATTTGAAATTTAAAA
*
2241083 ATTTGGAATTTAAAA
1 ATTTGAAATTTAAAA
2241098 A
1 A
2241099 GTATAAGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.10, T:0.39
Consensus pattern (15 bp):
ATTTGAAATTTAAAA
Found at i:2242204 original size:15 final size:15
Alignment explanation
Indices: 2242184--2242217 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2242174 CTTTGAAACA
2242184 AAAAAAGTT-AAAATG
1 AAAAAA-TTAAAAATG
2242199 AAAAAATTAAAAATG
1 AAAAAATTAAAAATG
2242214 AAAA
1 AAAA
2242218 CCCTATAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 2 0.11
15 16 0.89
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.18
Consensus pattern (15 bp):
AAAAAATTAAAAATG
Found at i:2258392 original size:20 final size:22
Alignment explanation
Indices: 2258353--2258392 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
2258343 TTTTTGCTTT
*
2258353 TTAGATTATATATATTTAAAAA
1 TTAGATGATATATATTTAAAAA
2258375 TTAGATGATA-AT-TTTAAA
1 TTAGATGATATATATTTAAA
2258393 GTGTCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 2 0.12
22 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TTAGATGATATATATTTAAAAA
Found at i:2260846 original size:27 final size:27
Alignment explanation
Indices: 2260810--2260864 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
2260800 CCATTGAAAG
2260810 ATTATAAAATAATATAATAATAAACTT
1 ATTATAAAATAATATAATAATAAACTT
2260837 ATTATAAAATAATATAATAATAAACTT
1 ATTATAAAATAATATAATAATAAACTT
2260864 A
1 A
2260865 CTTTTTAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (27 bp):
ATTATAAAATAATATAATAATAAACTT
Done.