Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4987688
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 19 of 20
Found at i:4535534 original size:19 final size:20
Alignment explanation
Indices: 4535491--4535536 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
4535481 TTCTAGGTTA
*
4535491 GAAATTAATGTTAGAGTGTT
1 GAAATTAATGTTAGAATGTT
*
4535511 GAAATTGATGTTAGAATG-T
1 GAAATTAATGTTAGAATGTT
4535530 GAAATTA
1 GAAATTA
4535537 GGAACTTAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 7 0.30
20 16 0.70
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
GAAATTAATGTTAGAATGTT
Found at i:4539450 original size:20 final size:20
Alignment explanation
Indices: 4539425--4539549 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
4539415 TCATTTATGT
4539425 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
4539445 CATCCTTTCATGCATTTTACTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
4539471 CATCCTTTCATGCCTTAATG
1 CATCCTTTCATGCCTTAATG
*
4539491 CATCCTTTCATGCGTTTTAGTTATGG
1 CATCCTTTCATGC--CTTA---AT-G
* *
4539517 TATCCTTTCATGCCTCAATG
1 CATCCTTTCATGCCTTAATG
*
4539537 CATTCTTTCATGC
1 CATCCTTTCATGC
4539550 ATTTTAGTTA
Statistics
Matches: 85, Mismatches: 8, Indels: 24
0.73 0.07 0.21
Matches are distributed among these distances:
20 39 0.46
21 4 0.05
22 6 0.07
24 5 0.06
25 4 0.05
26 27 0.32
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.43
Consensus pattern (20 bp):
CATCCTTTCATGCCTTAATG
Found at i:4539467 original size:26 final size:26
Alignment explanation
Indices: 4539444--4539588 Score: 125
Period size: 26 Copynumber: 6.0 Consensus size: 26
4539434 ATGCCTTAAT
4539444 GCATCCTTTCATGCATTTTACTTATG
1 GCATCCTTTCATGCATTTTACTTATG
*
4539470 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTACTTATG
* *
4539490 GCATCCTTTCATGCGTTTTAGTTATG
1 GCATCCTTTCATGCATTTTACTTATG
* * *
4539516 GTATCCTTTCATGC---CT-C-AAT-
1 GCATCCTTTCATGCATTTTACTTATG
* *
4539536 GCATTCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTACTTATG
*
4539562 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTACTTATG
4539588 G
1 G
4539589 ATTCATTTTA
Statistics
Matches: 95, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
20 26 0.27
21 4 0.04
22 3 0.03
23 2 0.02
24 3 0.03
25 4 0.04
26 53 0.56
ACGTcount: A:0.19, C:0.22, G:0.14, T:0.45
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTACTTATG
Found at i:4539486 original size:46 final size:46
Alignment explanation
Indices: 4539419--4539575 Score: 260
Period size: 46 Copynumber: 3.4 Consensus size: 46
4539409 TTAATTTCAT
* *
4539419 TTATGTCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAC
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
*
4539465 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCGTTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
4539511 TTATGGTATCCTTTCATGCCTCAATGCATTCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
4539557 TTATGGCATCCTTTCATGC
1 TTATGGCATCCTTTCATGC
4539576 ATTTTAGTTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 103 1.00
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.45
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:4545441 original size:57 final size:57
Alignment explanation
Indices: 4545380--4545559 Score: 279
Period size: 57 Copynumber: 3.1 Consensus size: 57
4545370 GTGCAAAATA
* *
4545380 TAAGAAATCATACTAAGGGTATGAATTTCATATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGT
*
4545437 TAAGAAATCATACTAAGTGTATGAATTTCAGATAGGGCGTTTCGTACGCTAAAATGT
1 TAAGAAATCATACTAAGTGTATGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGT
* * * * *
4545494 TAAAAAATCCTACTACGTGTAAGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGA
1 TAAGAAATCATACTAAGTGTATGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGT
4545551 TAAGGAAAT
1 TAA-GAAAT
4545560 GGATCTTTTA
Statistics
Matches: 113, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
57 109 0.96
58 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (57 bp):
TAAGAAATCATACTAAGTGTATGAATTTCAAATAGGGCGTTTCGTACGCTAAAATGT
Found at i:4546221 original size:45 final size:45
Alignment explanation
Indices: 4546126--4546229 Score: 120
Period size: 45 Copynumber: 2.3 Consensus size: 45
4546116 TGAAATAATG
* * * * *
4546126 ACATAAATGAAATGTATAATATTGTATCAAAGGCATGAAAGGATG
1 ACATAAATGAAATGTATAATAATGAATAAAAGACATGAAAGGATA
* *
4546171 TCATAAATGAAATGTATAATAATGAATAAAAGACATGTGAA-GATA
1 ACATAAATGAAATGTATAATAATGAATAAAAGACATG-AAAGGATA
*
4546216 ACATAATTGAAATG
1 ACATAAATGAAATG
4546230 CATATAGGTG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 47 0.96
46 2 0.04
ACGTcount: A:0.50, C:0.06, G:0.17, T:0.27
Consensus pattern (45 bp):
ACATAAATGAAATGTATAATAATGAATAAAAGACATGAAAGGATA
Found at i:4548992 original size:20 final size:20
Alignment explanation
Indices: 4548963--4549134 Score: 101
Period size: 20 Copynumber: 7.7 Consensus size: 20
4548953 TTCATTTATG
*
4548963 GCATCATTTCATGCCTTAAT
1 GCATCCTTTCATGCCTTAAT
*
4548983 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
* *
4549008 GGTATCCTTTCATGTCTTAAT
1 -GCATCCTTTCATGCCTTAAT
* *
4549029 GTATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
4549054 GGCATCCTTTCATGCCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
4549075 GCATCCTTTCATGCATTTTAGTTAT
1 GCATCCTTTCATGC--CTTA---AT
*
4549100 GGCATCCTTTCATACCTTAAT
1 -GCATCCTTTCATGCCTTAAT
*
4549121 GCATCATTTCATGC
1 GCATCCTTTCATGC
4549135 ATTTTAGTTA
Statistics
Matches: 120, Mismatches: 14, Indels: 36
0.71 0.08 0.21
Matches are distributed among these distances:
20 52 0.43
21 6 0.05
22 9 0.08
24 9 0.08
25 6 0.05
26 38 0.32
ACGTcount: A:0.21, C:0.23, G:0.12, T:0.44
Consensus pattern (20 bp):
GCATCCTTTCATGCCTTAAT
Found at i:4549015 original size:26 final size:26
Alignment explanation
Indices: 4548983--4549112 Score: 140
Period size: 26 Copynumber: 5.5 Consensus size: 26
4548973 ATGCCTTAAT
4548983 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
* *
4549009 GTATCCTTTCATG--TCTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
*
4549029 GTATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
*
4549055 GCATCCTTTCATGC--CTTA---AT-
1 GCATCCTTTCATGCATTTTAGTTATG
4549075 GCATCCTTTCATGCATTTTAGTTATG
1 GCATCCTTTCATGCATTTTAGTTATG
4549101 GCATCCTTTCAT
1 GCATCCTTTCAT
4549113 ACCTTAATGC
Statistics
Matches: 86, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
20 27 0.31
21 4 0.05
22 7 0.08
24 7 0.08
25 4 0.05
26 37 0.43
ACGTcount: A:0.19, C:0.22, G:0.13, T:0.46
Consensus pattern (26 bp):
GCATCCTTTCATGCATTTTAGTTATG
Found at i:4549027 original size:46 final size:46
Alignment explanation
Indices: 4548958--4549145 Score: 322
Period size: 46 Copynumber: 4.1 Consensus size: 46
4548948 TTAATTTCAT
*
4548958 TTATGGCATCATTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* * *
4549004 TTATGGTATCCTTTCATGTCTTAATGTATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
4549050 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
* *
4549096 TTATGGCATCCTTTCATACCTTAATGCATCATTTCATGCATTTTAG
1 TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
4549142 TTAT
1 TTAT
4549146 AGATTTGTTT
Statistics
Matches: 133, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 133 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (46 bp):
TTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTAG
Found at i:4549765 original size:96 final size:96
Alignment explanation
Indices: 4549564--4549743 Score: 231
Period size: 96 Copynumber: 1.9 Consensus size: 96
4549554 TACTACCCTG
* * * *
4549564 GTATTGATACTTCTATAATATGGTACCGATGCCCCCTTTTAGTATCAATACCATTTCTATATTAT
1 GTATCGATACTACTATAATATGGTACCGATACCCCCTTTTAGTATCAATACCATTTCTACATTAT
* *
4549629 GTGTTGGCATGATATCGATACCTTTCTCTTA
66 GTGATGCCATGATATCGATACCTTTCTCTTA
* * * *
4549660 GTATCGATACTACTATACTATGGTATCGATACCCCCTTTTAGTATCGATACCATTT-TGACATTT
1 GTATCGATACTACTATAATATGGTACCGATACCCCCTTTTAGTATCAATACCATTTCT-ACATTA
*
4549724 TG-GAT-CCATGGTATCGATAC
65 TGTGATGCCATGATATCGATAC
4549744 TTCCCTTTGT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
94 13 0.18
95 3 0.04
96 56 0.78
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (96 bp):
GTATCGATACTACTATAATATGGTACCGATACCCCCTTTTAGTATCAATACCATTTCTACATTAT
GTGATGCCATGATATCGATACCTTTCTCTTA
Found at i:4552178 original size:29 final size:31
Alignment explanation
Indices: 4552145--4552216 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 31
4552135 CAAAATTTGG
* *
4552145 TTAGTGACTAAAATGTAAA-TTTTG-AAAGT
1 TTAGTGACTAAAATATAAAGTTTAGAAAAGT
* *
4552174 TTAGTGGC-AAAGTATAAAGTTTAGAAAAGT
1 TTAGTGACTAAAATATAAAGTTTAGAAAAGT
*
4552204 TTAGGGACTAAAA
1 TTAGTGACTAAAA
4552217 AGGTAATTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
28 8 0.24
29 11 0.33
30 11 0.33
31 3 0.09
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (31 bp):
TTAGTGACTAAAATATAAAGTTTAGAAAAGT
Found at i:4560216 original size:2 final size:2
Alignment explanation
Indices: 4560211--4560245 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4560201 AATAAAAAAC
4560211 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4560246 TCTACGACTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4562467 original size:26 final size:26
Alignment explanation
Indices: 4562415--4562467 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
4562405 TTATTACATT
** *
4562415 AACATTTTATAACATTTTTTGAAAGA
1 AACATTTTATAACATTTCATCAAAGA
*
4562441 AACATTTTATAACATTTCATCATAGA
1 AACATTTTATAACATTTCATCAAAGA
4562467 A
1 A
4562468 CACGGCTTGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (26 bp):
AACATTTTATAACATTTCATCAAAGA
Found at i:4565465 original size:89 final size:89
Alignment explanation
Indices: 4565321--4565485 Score: 287
Period size: 89 Copynumber: 1.9 Consensus size: 89
4565311 CTTTTATAGC
4565321 CAAGTTACCCTAAACATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
1 CAAGTTACCCTAAACATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
*
4565386 GAAATTTAATAATCCTCTTATATT
66 GAAATTAAATAATCCTCTTATATT
* *
4565410 CAAGTTACCTTAATCATATTAGGGATTTTATTATTTC-AATTAATTAAATCTATATTTAATTAAT
1 CAAGTTACCCTAAACATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTTAATTAAT
4565474 TGAAATTAAATA
65 TGAAATTAAATA
4565486 TTCAGGATTA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
89 60 0.83
90 12 0.17
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (89 bp):
CAAGTTACCCTAAACATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATT
GAAATTAAATAATCCTCTTATATT
Found at i:4565512 original size:89 final size:89
Alignment explanation
Indices: 4565335--4565512 Score: 225
Period size: 89 Copynumber: 2.0 Consensus size: 89
4565325 TTACCCTAAA
*
4565335 CATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATTGAAATTTAATAATC
1 CATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATTGAAATTAAATAATC
** ** ** *
4565400 CTCTTATATTCAAGTTACCTTAAT
66 CGATTATATAAAACATACATTAAT
*
4565424 CATATTAGGGATTTTATTATTTC-AATTAATTAAATCTATATTTAATTAATTGAAATTAAATATT
1 CATATTAGGG-TTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATTGAAATTAAATAAT
* *
4565488 CAGGATTAT-TAAAACATATATTAAT
65 C-CGATTATATAAAACATACATTAAT
4565513 TAACTCTAGA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
89 60 0.79
90 16 0.21
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (89 bp):
CATATTAGGGTTTTATTATTTCAAATTAATTAAATCTATATTTAATTAATTGAAATTAAATAATC
CGATTATATAAAACATACATTAAT
Found at i:4575956 original size:11 final size:12
Alignment explanation
Indices: 4575935--4576014 Score: 58
Period size: 14 Copynumber: 6.2 Consensus size: 12
4575925 GTCCGAATTA
4575935 TAAATATTATAT
1 TAAATATTATAT
4575947 TAAA-ATTATAT
1 TAAATATTATAT
*
4575958 TATTATTATTATTAT
1 TA--AATATTA-TAT
4575973 TATAACTATTATAT
1 TA-AA-TATTATAT
4575987 TATAATA-TATTAT
1 TA-AATATTA-TAT
4576000 T-AATATTATTAT
1 TAAATATTA-TAT
4576012 TAA
1 TAA
4576015 TTTTACATAT
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
11 13 0.22
12 13 0.22
13 8 0.14
14 14 0.24
15 10 0.17
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (12 bp):
TAAATATTATAT
Found at i:4575963 original size:3 final size:3
Alignment explanation
Indices: 4575951--4576013 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
4575941 TTATATTAAA
* * *
4575951 ATT A-T ATT ATT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA ATAT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
4575995 ATT ATT AAT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
4576014 ATTTTACATA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
2 4 0.08
3 43 0.88
4 2 0.04
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:4578512 original size:34 final size:32
Alignment explanation
Indices: 4578452--4578521 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
4578442 ACCTTACAAC
* *
4578452 TCCCTAGTTTTTCCGAGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGAGCTAAACTAGAACATT
* *
4578484 TCCCTAGCTTTTACACGGGCTAAGCTAGAACATT
1 TCCCTAG-TTTTAC-CGAGCTAAACTAGAACATT
4578518 TCCC
1 TCCC
4578522 CTTTACAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 7 0.22
33 5 0.16
34 20 0.62
ACGTcount: A:0.24, C:0.30, G:0.14, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGAGCTAAACTAGAACATT
Found at i:4578830 original size:21 final size:21
Alignment explanation
Indices: 4578804--4578845 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4578794 CCAGAATGGG
*
4578804 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4578825 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4578846 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:4578907 original size:21 final size:21
Alignment explanation
Indices: 4578881--4578923 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4578871 CTGTTGAACA
4578881 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
4578902 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
4578923 G
1 G
4578924 ACATTCTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:4578985 original size:20 final size:20
Alignment explanation
Indices: 4578956--4579032 Score: 92
Period size: 20 Copynumber: 4.1 Consensus size: 20
4578946 AAAACCTGCA
4578956 GGGGGAATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
4578976 GGGGGTATCTGTA--CCC--
1 GGGGGAATCTGTACCCCCTG
*
4578992 -GGGGTATCTGTACCCCCTG
1 GGGGGAATCTGTACCCCCTG
*
4579011 GGGGGAATCTATACCCCCTG
1 GGGGGAATCTGTACCCCCTG
4579031 GG
1 GG
4579033 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
18 3 0.06
20 31 0.63
ACGTcount: A:0.14, C:0.29, G:0.35, T:0.22
Consensus pattern (20 bp):
GGGGGAATCTGTACCCCCTG
Found at i:4578997 original size:15 final size:15
Alignment explanation
Indices: 4578977--4579006 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4578967 TACCCCCTGG
4578977 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
4578992 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
4579007 CCTGGGGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:4579001 original size:35 final size:35
Alignment explanation
Indices: 4578957--4579026 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
4578947 AAACCTGCAG
* *
4578957 GGGGAATCTGTACCCCCTGGGGGGTATCTGTACCC
1 GGGGAATCTGTACCCCCTGGGGGGAATCTATACCC
*
4578992 GGGGTATCTGTACCCCCTGGGGGGAATCTATACCC
1 GGGGAATCTGTACCCCCTGGGGGGAATCTATACCC
4579027 CCTGGGCAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.16, C:0.29, G:0.33, T:0.23
Consensus pattern (35 bp):
GGGGAATCTGTACCCCCTGGGGGGAATCTATACCC
Found at i:4579154 original size:29 final size:31
Alignment explanation
Indices: 4579122--4579181 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
4579112 AAACTTTGAA
4579122 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4579151 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4579182 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:4579371 original size:22 final size:22
Alignment explanation
Indices: 4579340--4579408 Score: 129
Period size: 22 Copynumber: 3.1 Consensus size: 22
4579330 AAGCTCCCCC
*
4579340 TTTTTCATTAAGAAATTGAATT
1 TTTTTTATTAAGAAATTGAATT
4579362 TTTTTTATTAAGAAATTGAATT
1 TTTTTTATTAAGAAATTGAATT
4579384 TTTTTTATTAAGAAATTGAATT
1 TTTTTTATTAAGAAATTGAATT
4579406 TTT
1 TTT
4579409 CAAACCAAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 46 1.00
ACGTcount: A:0.35, C:0.01, G:0.09, T:0.55
Consensus pattern (22 bp):
TTTTTTATTAAGAAATTGAATT
Found at i:4580530 original size:19 final size:20
Alignment explanation
Indices: 4580487--4580534 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
4580477 TCTAAATCCT
*
4580487 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
4580507 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
4580526 TTTTCAAAA
1 TTTTCAAAA
4580535 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:4581447 original size:34 final size:32
Alignment explanation
Indices: 4581394--4581463 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
4581384 ACCTTACAAC
*
4581394 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
4581426 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
4581460 TCCC
1 TCCC
4581464 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:4581772 original size:21 final size:21
Alignment explanation
Indices: 4581746--4581787 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4581736 CCAGAATGGG
*
4581746 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4581767 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
4581788 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:4581920 original size:15 final size:15
Alignment explanation
Indices: 4581900--4581929 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4581890 ACCCCCTGGG
*
4581900 GGGGTATCTGTACCC
1 GGGGTATCTGAACCC
4581915 GGGGTATCTGAACCC
1 GGGGTATCTGAACCC
4581930 CCTGGGCAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.33, T:0.23
Consensus pattern (15 bp):
GGGGTATCTGAACCC
Found at i:4582057 original size:29 final size:31
Alignment explanation
Indices: 4582025--4582084 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
4582015 AAACTTTGAA
4582025 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4582054 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
4582085 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:4587383 original size:31 final size:35
Alignment explanation
Indices: 4587343--4587411 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 35
4587333 GAAAGAAGAG
*
4587343 AAATGTAGAAA-GAGAA-AAAGAAA-AAGAAAAAA
1 AAATGTAGAAATGAAAATAAAGAAAGAAGAAAAAA
* *
4587375 AAAT-TAGAAATGAAAATAAATAAAGAAGAAAAGA
1 AAATGTAGAAATGAAAATAAAGAAAGAAGAAAAAA
4587409 AAA
1 AAA
4587412 CACGCCTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
31 6 0.19
32 8 0.26
33 6 0.19
34 11 0.35
ACGTcount: A:0.74, C:0.00, G:0.16, T:0.10
Consensus pattern (35 bp):
AAATGTAGAAATGAAAATAAAGAAAGAAGAAAAAA
Found at i:4590192 original size:36 final size:36
Alignment explanation
Indices: 4590151--4590418 Score: 288
Period size: 36 Copynumber: 7.4 Consensus size: 36
4590141 GGGCAAGTCA
* *
4590151 ATCTTAAGCCTTTACTAGAGAGTAGTGAAGCAATCC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
*** *
4590187 ATCTTAAGCCTTCACCACAGAGTAGTGAAGCAACTCA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAA-TCC
* * *
4590224 ATTTTAAGCCTTAACTGGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* * *
4590260 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
* * * *
4590296 ATTTTAAGCATTCACCT-GAGGGTAGTGAAACAATCC
1 ATCTTAAGCCTTCA-CTGGAGAGTAGTGAAGCAATCC
*
4590332 ATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAAT-C
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGC-AATCC
* * * * * *
4590368 ATTTTAAGCCTTCAATGGAGAGTAGTAAATCAAACA
1 ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
4590404 ATCTTAAGCCTTCAC
1 ATCTTAAGCCTTCAC
4590419 CGAAGAAATA
Statistics
Matches: 189, Mismatches: 38, Indels: 10
0.80 0.16 0.04
Matches are distributed among these distances:
35 3 0.02
36 152 0.80
37 34 0.18
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (36 bp):
ATCTTAAGCCTTCACTGGAGAGTAGTGAAGCAATCC
Found at i:4590338 original size:72 final size:72
Alignment explanation
Indices: 4590143--4590434 Score: 367
Period size: 72 Copynumber: 4.0 Consensus size: 72
4590133 TGAGATTGGG
* * * * *
4590143 GCAAGTCAATCTTAAGCCTTTACTAGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACC-ACAG
1 GCAA-TCAATTTTAAGCCTTCACTGGAGAGTAGTGAAACAAACCATCTTAAGCCTTCACCGA-AG
4590207 AGTAGTGAA
64 AGTAGTGAA
* *
4590216 GCAACTCAATTTTAAGCCTTAACTGGAGAGTAGTGAAGCAAACCATCTTAAGCCTTCACCGAAGA
1 GCAA-TCAATTTTAAGCCTTCACTGGAGAGTAGTGAAACAAACCATCTTAAGCCTTCACCGAAGA
4590281 GTAGTGAA
65 GTAGTGAA
* * * *
4590289 GCAATCAATTTTAAGCATTCACCT-GAGGGTAGTGAAACAATCCATCTTAAGCCTTCACCGGAGA
1 GCAATCAATTTTAAGCCTTCA-CTGGAGAGTAGTGAAACAAACCATCTTAAGCCTTCACCGAAGA
4590353 GTAGTGAA
65 GTAGTGAA
* *
4590361 GCAAATC-ATTTTAAGCCTTCAATGGAGAGTAGT-AAATCAAACAATCTTAAGCCTTCACCGAAG
1 GC-AATCAATTTTAAGCCTTCACTGGAGAGTAGTGAAA-CAAACCATCTTAAGCCTTCACCGAAG
*
4590424 AAATAGTGAA
64 -AGTAGTGAA
4590434 G
1 G
4590435 AAGAAGATAT
Statistics
Matches: 195, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
71 4 0.02
72 105 0.54
73 85 0.44
74 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (72 bp):
GCAATCAATTTTAAGCCTTCACTGGAGAGTAGTGAAACAAACCATCTTAAGCCTTCACCGAAGAG
TAGTGAA
Found at i:4590380 original size:108 final size:109
Alignment explanation
Indices: 4590151--4590419 Score: 326
Period size: 108 Copynumber: 2.5 Consensus size: 109
4590141 GGGCAAGTCA
* * *
4590151 ATCTTAAGCCTT-TACTAGAGAGTAGTGAAGCAATCCATCTTAAGCCTTCACCACAGAGTAGTGA
1 ATCTTAAGCCTTCAACGA-AGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCACAGAGTAGTGA
* * *
4590215 AGCAACTCAATTTTAAGCCTTAACTGGAGAGTAGTGAAGCAAACC
65 AACAACTCAATCTTAAGCCTTAACCGGAGAGTAGTGAAGCAAACC
* * * ** *
4590260 ATCTTAAGCCTTCACCGAAGAGTAGTGAAGCAATCAATTTTAAGCATTCACCTGAGGGTAGTGAA
1 ATCTTAAGCCTTCAACGAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCACAGAGTAGTGAA
* * *
4590325 ACAA-TCCATCTTAAGCCTTCACCGGAGAGTAGTGAAGCAAATC
66 ACAACTCAATCTTAAGCCTTAACCGGAGAGTAGTGAAGCAAACC
* * * * * *
4590368 ATTTTAAGCCTTCAATGGAGAGTAGTAAATCAAACAATCTTAAGCCTTCACC
1 ATCTTAAGCCTTCAACGAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACC
4590420 GAAGAAATAG
Statistics
Matches: 135, Mismatches: 24, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
108 77 0.57
109 56 0.41
110 2 0.01
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (109 bp):
ATCTTAAGCCTTCAACGAAGAGTAGTGAAGCAATCAATCTTAAGCCTTCACCACAGAGTAGTGAA
ACAACTCAATCTTAAGCCTTAACCGGAGAGTAGTGAAGCAAACC
Found at i:4590586 original size:56 final size:56
Alignment explanation
Indices: 4590436--4591018 Score: 402
Period size: 56 Copynumber: 10.6 Consensus size: 56
4590426 ATAGTGAAGA
* * * *
4590436 AGAAGA-TATTCGAGTTCCATACTCCCT-AAAGAAAGAGGGAGCA-AACCC-TTAAGA
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAG-AGAACCCGTT-TGC
* * * *
4590490 AGAAGA-TATTCGAGTTCCATAC-TCCAGAAAAAAAGAGGGAGAGAACTCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
* * ** *
4590544 AGAAGATTATTCAAGTTCTATATTTCCTGAAAGAAAGAGGGAGTTAACCCGTTTAC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
*
4590600 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGA-GGAAACGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGA-GAACCCGTTTGC
* * *
4590656 AGAAGATTATTCGAGTTTTATACTTCTTGAAAGAAAGAGGGAGCGAACCCGTTTGC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
* * * * * ** *
4590712 AGAAAATTATTTGAATTCTATACTTCCTGAAAGAAAGAGGGAGTGAGCCCAATTGT
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
* * * * * * *
4590768 TGAAGATTGTTCGAG-TCTTATAC-TCTCT-AAACAAATAGGGAGCA-TACACGATTT-T
1 AGAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAG-AGAACCCG-TTTGC
* * * * * * * *
4590823 TGAAGATTGTTCGAG-TCTTATAC-TCTCT-AAAGAAATAGGAAGCAG-ACACGATCGT
1 AGAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAG-AGAACCCGTTTGC
* * * * * * **
4590878 TGAAGATTGTTCGAG-TCTTATAC-TCTCTGAATG-AATAGGGAGCGAACACGAATGC
1 AGAAGATTATTCGAGTTC-TATACTTC-CTGAAAGAAAGAGGGAGAGAACCCGTTTGC
* * *
4590933 AGAAGATT-TTCTAGTTCTATACTCCCTG-AAGAAAGAGGGAGCA-AACCCGTTTTC
1 AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAG-AGAACCCGTTTGC
* *
4590987 AAAAGATT-TCTCGAGTTCTATACTCCCTGAAA
1 AGAAGATTAT-TCGAGTTCTATACTTCCTGAAA
4591019 CAATAAGGAG
Statistics
Matches: 438, Mismatches: 70, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
53 5 0.01
54 84 0.19
55 156 0.36
56 190 0.43
57 3 0.01
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (56 bp):
AGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGGAGAGAACCCGTTTGC
Found at i:4590826 original size:55 final size:54
Alignment explanation
Indices: 4590766--4590928 Score: 236
Period size: 55 Copynumber: 3.0 Consensus size: 54
4590756 GAGCCCAATT
*
4590766 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGCATACACGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGCA-ACACGATC
* * *
4590821 TTTGAAGATTGTTCGAGTCTTATACTCTCTAAAGAAATAGGAAGCAGACACGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGCA-ACACGATC
* **
4590876 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAATGAATAGGGAGCGAACACGA
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGC-AACACGA
4590929 ATGCAGAAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
55 96 0.99
56 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (54 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGCAACACGATC
Found at i:4590938 original size:55 final size:55
Alignment explanation
Indices: 4590765--4590975 Score: 220
Period size: 55 Copynumber: 3.9 Consensus size: 55
4590755 TGAGCCCAAT
* * *
4590765 TGTTGAAGATTGTTCGAGTCTTATACTCTCT-AAACAAATAGGGAGCATACACGAT
1 TGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAA-GAATAGGGAGCAGACACGAA
* *
4590820 TTTTGAAGATTGTTCGAGTCTTATACTCTCT-AAAGAAATAGGAAGCAGACACG-A
1 TGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAAG-AATAGGGAGCAGACACGAA
*
4590874 TCGTTGAAGATTGTTCGAGTCTTATACTCTCTGAATGAATAGGGAGC-GAACACGAA
1 T-GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAG-ACACGAA
** * * *
4590930 TGCAGAAGATT-TTCTAGT-TCTATACTCCCTG-AAGAAAGAGGGAGCA
1 TGTTGAAGATTGTTCGAGTCT-TATACTCTCTGAAAG-AATAGGGAGCA
4590976 AACCCGTTTT
Statistics
Matches: 134, Mismatches: 14, Indels: 16
0.82 0.09 0.10
Matches are distributed among these distances:
53 3 0.02
54 27 0.20
55 99 0.74
56 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (55 bp):
TGTTGAAGATTGTTCGAGTCTTATACTCTCTGAAAGAATAGGGAGCAGACACGAA
Found at i:4590938 original size:110 final size:109
Alignment explanation
Indices: 4590599--4590975 Score: 289
Period size: 110 Copynumber: 3.4 Consensus size: 109
4590589 AACCCGTTTA
* * * * * **
4590599 CAGAAGATTATTCGAGTTCTATACTTCCTGAAAGAAAGAGGAAAC-GAACCCGTTTGCAGAAGAT
1 CAGAAGATT-TTCGAGTTCTATACTCCCT-AAAGAAAGAGGAAGCAG-ACACGATCGTTGAAGAT
* * * * * **
4590663 TATTCGAGTTTTATACT-TCTTGAAAGAAAGAGGGAGCGA-ACCCGTTTG
63 TGTTCGAGTCTTATACTCTC-T-AAACAAATAGGGAGC-ATACACGAATG
* * * * * * * * *
4590711 CAGAAAATTATTTGAATTCTATACTTCCTGAAAGAAAGAGGGAG-TGAGCCCAATTGTTGAAGAT
1 CAGAAGATT-TTCGAGTTCTATACTCCCT-AAAGAAAGAGGAAGCAGA-CACGATCGTTGAAGAT
* *
4590775 TGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGCATACACGATTT
63 TGTTCGAGTCTTATACTCTCTAAACAAATAGGGAGCATACACGAATG
** * *
4590822 TTGAAGATTGTTCGAG-TCTTATACTCTCTAAAGAAATAGGAAGCAGACACGATCGTTGAAGATT
1 CAGAAGATT-TTCGAGTTC-TATACTCCCTAAAGAAAGAGGAAGCAGACACGATCGTTGAAGATT
* **
4590886 GTTCGAGTCTTATACTCTCTGAATGAATAGGGAGCGA-ACACGAATG
64 GTTCGAGTCTTATACTCTCTAAACAAATAGGGAGC-ATACACGAATG
* * *
4590932 CAGAAGATTTTCTAGTTCTATACTCCCTGAAGAAAGAGGGAGCA
1 CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGAAGCA
4590976 AACCCGTTTT
Statistics
Matches: 215, Mismatches: 42, Indels: 19
0.78 0.15 0.07
Matches are distributed among these distances:
109 27 0.13
110 77 0.36
111 41 0.19
112 68 0.32
113 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.28
Consensus pattern (109 bp):
CAGAAGATTTTCGAGTTCTATACTCCCTAAAGAAAGAGGAAGCAGACACGATCGTTGAAGATTGT
TCGAGTCTTATACTCTCTAAACAAATAGGGAGCATACACGAATG
Found at i:4591233 original size:3 final size:3
Alignment explanation
Indices: 4591221--4591292 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
4591211 TTATATTAAA
* * *
4591221 ATT A-T ATT ATT ATT ATT ATT ATA ACT ATT A-T ATT ATA ATAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* *
4591265 ATT ATT ATT ATT AAT ACT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4591293 ATGTTACATA
Statistics
Matches: 57, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
2 4 0.07
3 51 0.89
4 2 0.04
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (3 bp):
ATT
Found at i:4591289 original size:39 final size:37
Alignment explanation
Indices: 4591202--4591293 Score: 134
Period size: 36 Copynumber: 2.5 Consensus size: 37
4591192 TTTATTCGGG
*
4591202 TTATAAATATTATATTAAAATTATATTATTATTATTA
1 TTATAACTATTATATTAAAATTATATTATTATTATTA
*
4591239 TTATAACTATTATATTATAA-TATATTATTATTATTA
1 TTATAACTATTATATTAAAATTATATTATTATTATTA
4591275 TTA-ATACTATTATTATTAA
1 TTATA-ACTATTA-TATTAA
4591294 TGTTACATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.02
36 26 0.52
37 23 0.46
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (37 bp):
TTATAACTATTATATTAAAATTATATTATTATTATTA
Found at i:4592804 original size:21 final size:21
Alignment explanation
Indices: 4592763--4592805 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
4592753 ACCATCTGAG
*
4592763 GAGAGTGGAGAGGGAAGTAAC
1 GAGAGTGGAGAGAGAAGTAAC
4592784 GAGAGTGGAG-GAGAAGATAAC
1 GAGAGTGGAGAGAGAAG-TAAC
4592805 G
1 G
4592806 GCGCATGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.40, C:0.05, G:0.47, T:0.09
Consensus pattern (21 bp):
GAGAGTGGAGAGAGAAGTAAC
Found at i:4594462 original size:2 final size:2
Alignment explanation
Indices: 4594382--4594451 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
4594372 CGTTTCGACA
4594382 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4594424 AT AT AT AT AT AT AT AT AC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4594452 TAATGTATAT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4595458 original size:15 final size:15
Alignment explanation
Indices: 4595440--4595491 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
4595430 TTTTCGTCCC
*
4595440 TATAATTTTTATTAT
1 TATAATTATTATTAT
4595455 TATAA-TA--ATTAT
1 TATAATTATTATTAT
* *
4595467 AATAATAATTATTAT
1 TATAATTATTATTAT
4595482 TATAATTATT
1 TATAATTATT
4595492 TATATTTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
12 9 0.31
13 1 0.03
14 1 0.03
15 18 0.62
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATTATTAT
Found at i:4595471 original size:12 final size:12
Alignment explanation
Indices: 4595450--4595491 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
4595440 TATAATTTTT
4595450 ATTATTATAATA
1 ATTATTATAATA
*
4595462 ATTATAATAATA
1 ATTATTATAATA
*
4595474 ATTATTATTATA
1 ATTATTATAATA
4595486 ATTATT
1 ATTATT
4595492 TATATTTTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
ATTATTATAATA
Found at i:4601538 original size:15 final size:16
Alignment explanation
Indices: 4601505--4601562 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
4601495 CTACCATTTT
4601505 AAAA-AATGAAA-AAG
1 AAAAGAATGAAAGAAG
4601519 AAAA-AGAT-AGAAGAAG
1 AAAAGA-ATGA-AAGAAG
4601535 AAAAGAATGAAAGAAG
1 AAAAGAATGAAAGAAG
*
4601551 AAAAGAAGGAAA
1 AAAAGAATGAAA
4601563 AATGAAAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
14 6 0.16
15 4 0.11
16 26 0.68
17 2 0.05
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.05
Consensus pattern (16 bp):
AAAAGAATGAAAGAAG
Found at i:4601539 original size:21 final size:20
Alignment explanation
Indices: 4601514--4601611 Score: 66
Period size: 19 Copynumber: 5.0 Consensus size: 20
4601504 TAAAAAATGA
4601514 AAAAGAA-AAAGATAGAAGAAG
1 AAAAGAAGAAAGA-AGAA-AAG
4601535 AAAAGAATGAAAGAAGAAAAG
1 AAAAGAA-GAAAGAAGAAAAG
*
4601556 -AAGGAA-AAATGAA-AAAAG
1 AAAAGAAGAAA-GAAGAAAAG
*
4601574 AAAA-AATGAAAGAAAAATAAG
1 AAAAGAA-GAAAGAAGAA-AAG
*
4601595 -AAAGAA-AAATAAGAAAA
1 AAAAGAAGAAAGAAGAAAA
4601612 AAGAAAGAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 21
0.72 0.04 0.24
Matches are distributed among these distances:
18 12 0.19
19 15 0.23
20 13 0.20
21 15 0.23
22 4 0.06
23 5 0.08
ACGTcount: A:0.74, C:0.00, G:0.19, T:0.06
Consensus pattern (20 bp):
AAAAGAAGAAAGAAGAAAAG
Found at i:4601548 original size:16 final size:15
Alignment explanation
Indices: 4601505--4601617 Score: 72
Period size: 13 Copynumber: 8.2 Consensus size: 15
4601495 CTACCATTTT
4601505 AAAAAATGAAA-AAG
1 AAAAAATGAAAGAAG
4601519 AAAAAGAT-AGAAGAAG
1 AAAAA-ATGA-AAGAAG
4601535 AAAAGAATGAAAGAAG
1 AAAA-AATGAAAGAAG
4601551 --AAAA-G-AAG--G
1 AAAAAATGAAAGAAG
*
4601560 -AAAAATGAAAAAAG
1 AAAAAATGAAAGAAG
4601574 AAAAAATGAAAGAA-
1 AAAAAATGAAAGAAG
*
4601588 AAATAA-GAAAGAA-
1 AAAAAATGAAAGAAG
* *
4601601 AAATAA-GAAAAAAG
1 AAAAAATGAAAGAAG
4601615 AAA
1 AAA
4601618 GAAAATAAAT
Statistics
Matches: 83, Mismatches: 4, Indels: 24
0.75 0.04 0.22
Matches are distributed among these distances:
9 1 0.01
10 4 0.05
11 4 0.05
12 3 0.04
13 21 0.25
14 17 0.20
15 16 0.19
16 15 0.18
17 2 0.02
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (15 bp):
AAAAAATGAAAGAAG
Found at i:4601564 original size:26 final size:24
Alignment explanation
Indices: 4601512--4601621 Score: 84
Period size: 26 Copynumber: 4.5 Consensus size: 24
4601502 TTTAAAAAAT
* *
4601512 GAAAAAGAA-AAAGATAGAAGAA-
1 GAAAAAGAAGAAAGAAAAAAGAAG
4601534 G-AAAAGAATGAAAGAAGAAAAGAAG
1 GAAAAAGAA-GAAAGAA-AAAAGAAG
* *
4601559 GAAAAATGAAAAAAGAAAAAATGAAA
1 GAAAAA-GAAGAAAGAAAAAA-GAAG
* *
4601585 GAAAAATAAGAAAG-AAAAATAAG
1 GAAAAAGAAGAAAGAAAAAAGAAG
*
4601608 AAAAAAGAAAGAAA
1 GAAAAAG-AAGAAA
4601622 ATAAATCAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
21 7 0.10
22 1 0.01
23 12 0.17
24 17 0.24
25 11 0.16
26 19 0.27
27 3 0.04
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.05
Consensus pattern (24 bp):
GAAAAAGAAGAAAGAAAAAAGAAG
Found at i:4601603 original size:13 final size:13
Alignment explanation
Indices: 4601543--4601610 Score: 77
Period size: 12 Copynumber: 5.3 Consensus size: 13
4601533 AGAAAAGAAT
*
4601543 GAAAGAAGAA-AA
1 GAAAGAAAAATAA
*
4601555 GAAGGAAAAATGAA
1 GAAAGAAAAAT-AA
* *
4601569 AAAAGAAAAA-AT
1 GAAAGAAAAATAA
4601581 GAAAGAAAAATAA
1 GAAAGAAAAATAA
4601594 GAAAGAAAAATAA
1 GAAAGAAAAATAA
4601607 GAAA
1 GAAA
4601611 AAAGAAAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
12 18 0.39
13 18 0.39
14 10 0.22
ACGTcount: A:0.75, C:0.00, G:0.19, T:0.06
Consensus pattern (13 bp):
GAAAGAAAAATAA
Found at i:4604222 original size:250 final size:251
Alignment explanation
Indices: 4603687--4604684 Score: 1416
Period size: 250 Copynumber: 4.0 Consensus size: 251
4603677 AGTTGTTTTC
* * *
4603687 AAAATGAGAAATCGATTTCCAAAGTTTCTCATTTAATGTTTTCA-GAAAATGAAAATTTTGAAAA
1 AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTT-ATGAAAATGAAATTTTTGAAAA
** * *
4603751 GTAAGAAAGTGATTACCAAAGTTTGATACCCAGTAAATTATTTCCCAAAATTTGTAAGTCATTCG
65 GTAAGAAAGTGATTACCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCG
4603816 GGCCA-CAAGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG
130 GGCCATC-AGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAG
* * *
4603880 CAAGATGATAAGTCCTTCGAACCATCCGTATGACCTTCAGGTAGGATGTTTTCACATG
194 CAAGATGATAAGTCCTTCGAGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
* * * * *
4603938 AAAATGTGAAAGCAATTTCCAAAATTTCTCATTTAATGTTTTCA-AAAAATGAAATTTTTGAAAA
1 AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTT-ATGAAAATGAAATTTTTGAAAA
** *
4604002 ACAAGAAATTGATTACCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCG
65 GTAAGAAAGTGATTACCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCG
* * * *
4604067 GGCCATCAGTAAGTCTTTTGAACAAGATGCTTAAAT-CTTTGGGTGATCTGTAAGTCTTTCGAGC
130 GGCCATCAGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGC
* * * *
4604131 ATGATGATAAGTCATTCGAGCCATCTGTAAGACCTTCGGGTTGGATGTTTTCACATG
195 AAGATGATAAGTCCTTCGAGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
*
4604188 AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATCTTTTATGAAAATGAAA-TTTTGAAAAG
1 AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTTATGAAAATGAAATTTTTGAAAAG
* * *
4604252 TAAGAAAGCGATTACCAAAGTTTATTTCCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGG
66 TAAGAAAGTGATTACCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGG
* *
4604317 GCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTTATCTGTAAGTCTTTCGAGCA
131 GCCATCAGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCA
*
4604382 AGATAATAAGTCCTTC-AGGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
196 AGATGATAAGTCCTTCGA-GCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
* * * *
4604438 AAAATAAGAAAGTGATTACCAAAGTTTCTCATTTAATATTTTATGAAACTGAAATTTTTGAAAAG
1 AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTTATGAAAATGAAATTTTTGAAAAG
4604503 TAAGAAAGTGATTACCAAAGTTTCTTACCTAGTAAATTATTT-CCAAAATTTGTAAGTCCTTCGG
66 TAAGAAAGTGATTACCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGG
* * * * * * * * * * *
4604567 TCCATGAGTAATTCTTTCGAGCATGATGATTAAATCTTTTGGGTCATCTATCAGTATTTCAAGCA
131 GCCATCAGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCA
* * * * * * *
4604632 AGATGATAAGTCCTTCGGGCTATCCGTAAAACCTTTGGCTAAGATGTTCTCAC
196 AGATGATAAGTCCTTCGAGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCAC
4604685 TCTTTGTTAT
Statistics
Matches: 669, Mismatches: 72, Indels: 13
0.89 0.10 0.02
Matches are distributed among these distances:
249 103 0.15
250 368 0.55
251 197 0.29
252 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (251 bp):
AAAATGAGAAAGCGATTACCAAAGTTTCTCATTTAATGTTTTATGAAAATGAAATTTTTGAAAAG
TAAGAAAGTGATTACCAAAGTTTCTTACCTAGTAAATTATTTCCCAAAATTTGTAAGTCCTTCGG
GCCATCAGTAAGTCTTTCGAGCAAGATGCTTAAATCCTTCGGGTCATCTGTAAGTCTTTCGAGCA
AGATGATAAGTCCTTCGAGCCATCCGTAAGACCTTCGGGTAGGATGTTTTCACATG
Found at i:4604772 original size:62 final size:62
Alignment explanation
Indices: 4604696--4604892 Score: 254
Period size: 62 Copynumber: 3.2 Consensus size: 62
4604686 CTTTGTTATT
* * *
4604696 CTTGACTTTCTCGTGAAAAGAAGTCAGCCTTTGTTATTTCTGACTCCTTAGTATAGTCAATC
1 CTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCTTAGTAGAGTCAATC
* * * * ** *
4604758 CTTGACTTCCTCGTGAAGAGAAGTCAACCTTTATTATTCCTTACTCCCCAGTAGAGTTAATC
1 CTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCTTAGTAGAGTCAATC
* *
4604820 CTTGACTTCCTCGTGAAAA-AAGTCAACTTTTGTTATTTCTGACT-CTCTAGTAGAGTCAATT
1 CTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCT-TAGTAGAGTCAATC
*
4604881 TTTGACTTCCTC
1 CTTGACTTCCTC
4604893 ACGAAGAAGA
Statistics
Matches: 114, Mismatches: 20, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
60 1 0.01
61 43 0.38
62 70 0.61
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (62 bp):
CTTGACTTCCTCGTGAAAAGAAGTCAACCTTTGTTATTTCTGACTCCTTAGTAGAGTCAATC
Found at i:4604936 original size:29 final size:29
Alignment explanation
Indices: 4604871--4604938 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
4604861 ACTCTCTAGT
**
4604871 AGAGTCAATTTTTGACTTCCTCACGAAGA
1 AGAGTCAATCATTGACTTCCTCACGAAGA
* **
4604900 AGATTCAATCATTGACTTCCTCGTGAAG-
1 AGAGTCAATCATTGACTTCCTCACGAAGA
4604928 AGAAGTCAATC
1 AG-AGTCAATC
4604939 TTTGTTATCC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (29 bp):
AGAGTCAATCATTGACTTCCTCACGAAGA
Found at i:4604990 original size:91 final size:90
Alignment explanation
Indices: 4604816--4604983 Score: 230
Period size: 91 Copynumber: 1.9 Consensus size: 90
4604806 CAGTAGAGTT
* ** * * *
4604816 AATCCTTGACTTCCTCGTGAAAAAAGTCAACTTTTGTTATTTCTGACTCTCTAGTAGAGTCAATT
1 AATCATTGACTTCCTCGTGAAAAAAGTCAACTTTTGTTATCCCTGACTCCCCAGCAGAGTCAATT
*
4604881 TTTGACTTCCTCACGAAGAAGATTC
66 CTTGACTTCCTCACGAAGAAGATTC
* *
4604906 AATCATTGACTTCCTCGTGAAGAGAAGTCAA-TCTTTGTTATCCCTGATTCCCCAGCAGAGTCAA
1 AATCATTGACTTCCTCGTGAA-AAAAGTCAACT-TTTGTTATCCCTGACTCCCCAGCAGAGTCAA
4604970 TTCTTGACTTCCTC
64 TTCTTGACTTCCTC
4604984 GTGAAGAGAA
Statistics
Matches: 67, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
90 21 0.31
91 46 0.69
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (90 bp):
AATCATTGACTTCCTCGTGAAAAAAGTCAACTTTTGTTATCCCTGACTCCCCAGCAGAGTCAATT
CTTGACTTCCTCACGAAGAAGATTC
Found at i:4605226 original size:89 final size:86
Alignment explanation
Indices: 4605031--4605233 Score: 212
Period size: 86 Copynumber: 2.3 Consensus size: 86
4605021 AAATAGTAGC
* * *
4605031 GAAGCAAATCAATCTTGAGTCCGATCTCCCCAAAAGAGTAGTGGAACATATTTCTTCTTATGTCA
1 GAAGCAAATCAATCTTGAGTCTGATCTCCCCAAAAGAGTAGAGGAACACATTTCTTCTTATGTCA
* * *
4605096 GGTTTCTCTTGAAAGAGTAGT
66 GATTTCTCCTGAAAGAATAGT
* * * * ** * *
4605117 GAAGCAAATTAATCTCGAGTCTGATCTTCTCGGAAGAGTAGAGGAGCACATTT-TTCTTATTTCA
1 GAAGCAAATCAATCTTGAGTCTGATCTCCCCAAAAGAGTAGAGGAACACATTTCTTCTTATGTCA
4605181 GATATGGTCTTCCTG-AAGAATCAGT
66 GAT-T--TC-TCCTGAAAGAAT-AGT
*
4605206 GAAGCAAATCAATCTTGAGTCTTATCTC
1 GAAGCAAATCAATCTTGAGTCTGATCTC
4605234 TCTGAAAGAA
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
85 12 0.13
86 44 0.47
88 7 0.07
89 31 0.33
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (86 bp):
GAAGCAAATCAATCTTGAGTCTGATCTCCCCAAAAGAGTAGAGGAACACATTTCTTCTTATGTCA
GATTTCTCCTGAAAGAATAGT
Found at i:4605397 original size:54 final size:55
Alignment explanation
Indices: 4605220--4605432 Score: 295
Period size: 55 Copynumber: 3.9 Consensus size: 55
4605210 CAAATCAATC
* * * *
4605220 TTGAGTCTTATCTCTCTGAAAGAAGAGATGAGCAAACCCGTCTTCCAAAGATTTT
1 TTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAATATTTT
* * * *
4605275 TTGAGTCTTATCTCCCTAAAAGAAGAGAGGAGAAGACCCATCTTCCAAATCA-ATT
1 TTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAAT-ATTTT
* *
4605330 TCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCA-TCCCGTCTTCCAAATATTTT
1 TTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAATATTTT
* *
4605384 TTGAGTCTTATCTCCCTGAAAGAAGAGAGGAACAGACCTGTCTTCCAAA
1 TTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAA
4605433 ATTGATTTAA
Statistics
Matches: 137, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
53 1 0.01
54 47 0.34
55 88 0.64
56 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (55 bp):
TTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAGACCCGTCTTCCAAATATTTT
Found at i:4605410 original size:109 final size:110
Alignment explanation
Indices: 4605210--4605432 Score: 344
Period size: 109 Copynumber: 2.0 Consensus size: 110
4605200 ATCAGTGAAG
* *
4605210 CAAATCAATCTTGAGTCTTATCTCTCTGAAAGAAGAGATGAGCAAACCCGTCTTCCAAAGATTTT
1 CAAATCAATCTTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAAACCCGTCTTCCAAAGATTTT
4605275 TTGAGTCTTATCTCCCTAAAAGAAGAGAGGAGA-AGACCCATCTTC
66 TTGAGTCTTATCTCCCTAAAAGAAGAGAGGA-ACAGACCCATCTTC
* *
4605320 CAAATCAAT-TTCGAGTCTTATCTCCCTGAAAGAAGAGAGGAGC-ATCCCGTCTTCCAAATATTT
1 CAAATCAATCTT-GAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAAACCCGTCTTCCAAAGATTT
* **
4605383 TTTGAGTCTTATCTCCCTGAAAGAAGAGAGGAACAGACCTGTCTTC
65 TTTGAGTCTTATCTCCCTAAAAGAAGAGAGGAACAGACCCATCTTC
4605429 CAAA
1 CAAA
4605433 ATTGATTTAA
Statistics
Matches: 104, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
108 1 0.01
109 65 0.62
110 38 0.37
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (110 bp):
CAAATCAATCTTGAGTCTTATCTCCCTGAAAGAAGAGAGGAGCAAACCCGTCTTCCAAAGATTTT
TTGAGTCTTATCTCCCTAAAAGAAGAGAGGAACAGACCCATCTTC
Found at i:4605548 original size:80 final size:82
Alignment explanation
Indices: 4605387--4605572 Score: 218
Period size: 80 Copynumber: 2.3 Consensus size: 82
4605377 ATATTTTTTG
* *
4605387 AGTCTTATCT-CCCTGAAAGAAGAGAGGAACAGACCTGTCTTCCAAAATTGATTTAACTACCCGA
1 AGTCTGATCTCCCCTGAAAGAAGAGAGGAACAGACCTGTCTTCCAAAATTGATCTAACTACCCGA
***
4605451 AAAAGAGGTGTAGATCA
66 AAAAGAGGAACAGATCA
* * *** *
4605468 AGTCTGATCTCCCCTAAAAGAAGAGAGGAACAGACTTGTCATT-CTTCA-T-ATCTAATTACCCG
1 AGTCTGATCTCCCCTGAAAGAAGAGAGGAACAGACCTGTC-TTCCAAAATTGATCTAACTACCCG
*
4605530 AAAAAGAGGAACATATCA
65 AAAAAGAGGAACAGATCA
*
4605548 AGTCTGATCTCCCCTGATAGAAGAG
1 AGTCTGATCTCCCCTGAAAGAAGAG
4605573 TGGAGCGAAT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 48 0.54
81 10 0.11
82 29 0.33
83 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.24
Consensus pattern (82 bp):
AGTCTGATCTCCCCTGAAAGAAGAGAGGAACAGACCTGTCTTCCAAAATTGATCTAACTACCCGA
AAAAGAGGAACAGATCA
Found at i:4605709 original size:3 final size:3
Alignment explanation
Indices: 4605701--4605726 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4605691 TTTCGTCCCT
4605701 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
4605727 TATTATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:4606741 original size:3 final size:3
Alignment explanation
Indices: 4606726--4606774 Score: 73
Period size: 3 Copynumber: 16.7 Consensus size: 3
4606716 AGTTAAAAAA
* *
4606726 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4606773 TA
1 TA
4606775 AGTGTGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 1 0.02
3 40 0.98
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:4620342 original size:17 final size:17
Alignment explanation
Indices: 4620322--4620388 Score: 91
Period size: 17 Copynumber: 3.8 Consensus size: 17
4620312 GGGAACAAAT
*
4620322 AAAAAGATGAAAAATGA
1 AAAAAAATGAAAAATGA
4620339 AAAAAAATGAAAAA-GAA
1 AAAAAAATGAAAAATG-A
4620356 AAAAAAATGAAAAATGAA
1 AAAAAAATGAAAAATG-A
4620374 AAAAGAAATGAAAAA
1 AAAA-AAATGAAAAA
4620389 ATAAAAAGAG
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
16 1 0.02
17 28 0.61
18 7 0.15
19 10 0.22
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAAAATGAAAAATGA
Found at i:4620360 original size:34 final size:35
Alignment explanation
Indices: 4620322--4620403 Score: 116
Period size: 34 Copynumber: 2.4 Consensus size: 35
4620312 GGGAACAAAT
4620322 AAAAAGATGAAAAATG-AAAAA-AAATGAAAAAGAA
1 AAAAAGATGAAAAATGAAAAAAGAAATGAAAAA-AA
* *
4620356 AAAAAAATGAAAAATGAAAAAAGAAATGAAAAAAT
1 AAAAAGATGAAAAATGAAAAAAGAAATGAAAAAAA
4620391 AAAAAGA-GAAAAA
1 AAAAAGATGAAAAA
4620404 GGAGGGTTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 21 0.49
35 12 0.28
36 10 0.23
ACGTcount: A:0.78, C:0.00, G:0.13, T:0.09
Consensus pattern (35 bp):
AAAAAGATGAAAAATGAAAAAAGAAATGAAAAAAA
Found at i:4620394 original size:17 final size:17
Alignment explanation
Indices: 4620304--4620395 Score: 75
Period size: 17 Copynumber: 5.3 Consensus size: 17
4620294 ATGCTTGAAG
* *
4620304 AAAAAAAAGGGAACAAAT
1 AAAAAAAA-TGAAAAAAT
*
4620322 -AAAAAGATG-AAAAAT
1 AAAAAAAATGAAAAAAT
4620337 GAAAAAAAATGAAAAAGA-
1 -AAAAAAAATGAAAAA-AT
4620355 AAAAAAAATG-AAAAAT
1 AAAAAAAATGAAAAAAT
4620371 GAAAAAAGAAATGAAAAAAT
1 --AAAAA-AAATGAAAAAAT
4620391 AAAAA
1 AAAAA
4620396 GAGAAAAAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
15 6 0.10
16 5 0.08
17 24 0.39
18 14 0.23
19 6 0.10
20 6 0.10
ACGTcount: A:0.77, C:0.01, G:0.13, T:0.09
Consensus pattern (17 bp):
AAAAAAAATGAAAAAAT
Found at i:4621521 original size:136 final size:136
Alignment explanation
Indices: 4621275--4621625 Score: 594
Period size: 136 Copynumber: 2.6 Consensus size: 136
4621265 GGTGAACCAG
4621275 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* * *
4621340 AGAAGAGCTTGTTCGACCTATCACTCGATTCACGACATTTTGAATCAGTGACACCTTGCTTGAAG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTGGAATCAGTGACACCTCGCTTGAAG
*
4621405 GATCAG
131 GATCAA
*
4621411 TATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
* *
4621476 AGAAGAGCTTGTTCGACCTATCACTCGATTCATAACATTTGGAATCAGTGACACCTCGCTTGAGG
66 AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTGGAATCAGTGACACCTCGCTTGAAG
4621541 GATCAA
131 GATCAA
* * * *
4621547 CATTTCCAGTGAAGAGCTCATAATGAGAAGAACTCATCCGACAGAGGAAGAAGAAGTTCATAATG
1 CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
*
4621612 AGAAGAACTTGTTC
66 AGAAGAGCTTGTTC
4621626 AACTTCGCAT
Statistics
Matches: 202, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
136 202 1.00
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (136 bp):
CATTTCCAATGGAGAGTTCATAATGAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATG
AGAAGAGCTTGTTCGACCTATCACTCGATTCACAACATTTGGAATCAGTGACACCTCGCTTGAAG
GATCAA
Found at i:4621666 original size:92 final size:92
Alignment explanation
Indices: 4621542--4621716 Score: 271
Period size: 92 Copynumber: 1.9 Consensus size: 92
4621532 CGCTTGAGGG
* *
4621542 ATCAACATTTCCAGTGAAGAGCTCATAATGAGAAGAACTCATCCGACAGAG-GAAGAAGAAGTTC
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGAG-AGAAGAAGTTC
4621606 ATAATGAGAAGAACTTGTTCAACTTCGC
65 ATAATGAGAAGAACTTGTTCAACTTCGC
* * * *
4621634 ATCAACATTTTCAATGGAGAGTTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAATAAGTTCA
1 ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAAGAAGTTCA
*
4621699 TAATGAGAAGAGCTTGTT
66 TAATGAGAAGAACTTGTT
4621717 TGATCTATCA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
92 74 0.99
93 1 0.01
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.23
Consensus pattern (92 bp):
ATCAACATTTCCAATGAAGAGCTCATAATGAGAAGAACTCATCCGAAAGAGAGAGAAGAAGTTCA
TAATGAGAAGAACTTGTTCAACTTCGC
Found at i:4622094 original size:3 final size:3
Alignment explanation
Indices: 4622079--4622121 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
4622069 AGTTAAAAAA
* *
4622079 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
4622122 AGTGTGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:4640481 original size:15 final size:14
Alignment explanation
Indices: 4640449--4640499 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 14
4640439 ATTTTTGAAG
*
4640449 AAAAAGGAACAAATAA
1 AAAAATGAA-AAA-AA
4640465 AAAAATGAAAAGAAA
1 AAAAATGAAAA-AAA
4640480 AAAAATGAAAAAAA
1 AAAAATGAAAAAAA
4640494 TAAAAA
1 -AAAAA
4640500 AAAATGATGA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
14 3 0.09
15 20 0.62
16 9 0.28
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (14 bp):
AAAAATGAAAAAAA
Found at i:4640491 original size:10 final size:10
Alignment explanation
Indices: 4640472--4640518 Score: 53
Period size: 9 Copynumber: 4.8 Consensus size: 10
4640462 TAAAAAAATG
4640472 AAAA-GAAAA
1 AAAATGAAAA
4640481 AAAATG-AAA
1 AAAATGAAAA
*
4640490 AAAATAAAAA
1 AAAATGAAAA
*
4640500 AAAATGATGAA
1 AAAATGA-AAA
4640511 AAAATGAA
1 AAAATGAA
4640519 GAGAGAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 12 0.39
10 10 0.32
11 9 0.29
ACGTcount: A:0.79, C:0.00, G:0.11, T:0.11
Consensus pattern (10 bp):
AAAATGAAAA
Found at i:4641812 original size:240 final size:240
Alignment explanation
Indices: 4641346--4641916 Score: 805
Period size: 240 Copynumber: 2.4 Consensus size: 240
4641336 AATTCAAATT
* *
4641346 CACCACAGAAAGAGGTGAAC-CAACCTTTCC-A-GAAGAGTTCATAATGAGAAGAACTCATCCGA
1 CACCACAGAAAGAGATG-ACTCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCC-A
* * *
4641408 TAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTGTTCGACCTATCACTCGATTCACGGCATTTC
64 AAGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTATTCGACCTATCACTCGATTCACGACATTTC
* * *
4641473 GAATCAGTCACACCTCGCTTGAGGGATTGAAATTTTCAGAAGAGTTCATAATGAGAAGAACTTGT
129 GAATCAGTCACACCTCGCTTGAGGGATTGAAATTTCCAAAAGAGTTCATAATGAGAAGAACTCGT
*
4641538 CCTAAAGGAGAAAGTTCATAATGAGAAGAACTTGTTCCTTTCAAGTC
194 CCTAAAGGAGAAAGTTCATAATGAGAAAAACTTGTTCCTTTCAAGTC
* * * *
4641585 CATCACAGAAAGAGATGGA-TCAATATTTCCAATGGATAGTTCATAATGAGAAGAACTCATCCAA
1 CACCACAGAAAGAGAT-GACTCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAA
* * * *
4641649 AGAGGGAGAATAAGTTCATAACGAGAAGAGCTTATTCGACCTATCACTCGATTCATGACATTTTG
65 AGAGGGAGAAAAAGTTCATAATGAGAAGAGCTTATTCGACCTATCACTCGATTCACGACATTTCG
* * *
4641714 AATCAGTGACGCCTCG-TTAGAGGGATTGACATTTCCAAAAGAGTTCATAATGAGAAGAACTCGT
130 AATCAGTCACACCTCGCTT-GAGGGATTGAAATTTCCAAAAGAGTTCATAATGAGAAGAACTCGT
*
4641778 CTTAAAGGAGAAAGTTCATAATGAGAAAAACTTGTTCCTTTCAAGTC
194 CCTAAAGGAGAAAGTTCATAATGAGAAAAACTTGTTCCTTTCAAGTC
* * * * *
4641825 CACCACAGAAATAGGTGACTCAACATTTTCAGTGAAGAGTTCATAATGACAAGAACTCATCCACA
1 CACCACAGAAAGAGATGACTCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCA-A
*
4641890 AGA--GAGAAGAAGTTCATAATGAGAAGA
65 AGAGGGAGAAAAAGTTCATAATGAGAAGA
4641917 ACTTGTTAAA
Statistics
Matches: 293, Mismatches: 32, Indels: 14
0.86 0.09 0.04
Matches are distributed among these distances:
239 49 0.17
240 213 0.73
241 31 0.11
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (240 bp):
CACCACAGAAAGAGATGACTCAACATTTCCAATGAAGAGTTCATAATGAGAAGAACTCATCCAAA
GAGGGAGAAAAAGTTCATAATGAGAAGAGCTTATTCGACCTATCACTCGATTCACGACATTTCGA
ATCAGTCACACCTCGCTTGAGGGATTGAAATTTCCAAAAGAGTTCATAATGAGAAGAACTCGTCC
TAAAGGAGAAAGTTCATAATGAGAAAAACTTGTTCCTTTCAAGTC
Found at i:4644140 original size:14 final size:15
Alignment explanation
Indices: 4644110--4644142 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4644100 TCTATCTTCA
4644110 AAAATGATTTTTCTT
1 AAAATGATTTTTCTT
*
4644125 AAAATTATTTTT-TT
1 AAAATGATTTTTCTT
4644139 AAAA
1 AAAA
4644143 GACGTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (15 bp):
AAAATGATTTTTCTT
Found at i:4645252 original size:93 final size:94
Alignment explanation
Indices: 4645114--4645420 Score: 385
Period size: 94 Copynumber: 3.4 Consensus size: 94
4645104 TTTTTCTTTA
* *
4645114 ACCGTTAATCGAA-TAGAAATTTATTTGAAAATTATTAACCGAACCAAATCAACCG-ATTTTTTT
1 ACCGTTAATCGAACCA-AAATTTATTTGAAAATTATTAACCAAACCAAATCAACCGAATTTTTTT
4645177 CTTTAACATTAATCGAACCGAAATTATTTG
65 CTTTAACATTAATCGAACCGAAATTATTTG
* *
4645207 ACTGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATTAACCGAATTTTTTTC
1 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCGAATTTTTTTC
4645272 TTTAACATTAATCGAACCGAAATTATTTG
66 TTTAACATTAATCGAACCGAAATTATTTG
* * *
4645301 ACCATTAATCGAACCGAAATTTATTTG-AAA--ATT------A-C---T-AACCGAATTGTTTTC
1 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCGAATTTTTTTC
* *
4645352 TTTAACTATTAATCAAACCAAAATTATTTG
66 TTTAAC-ATTAATCGAACCGAAATTATTTG
* *
4645382 ACCGTTAATCGAACCCAAATTTATTTAAAAATTATTAAC
1 ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAAC
4645421 TGAATAAAAT
Statistics
Matches: 192, Mismatches: 13, Indels: 24
0.84 0.06 0.10
Matches are distributed among these distances:
80 20 0.10
81 46 0.24
82 3 0.02
84 4 0.02
85 1 0.01
91 3 0.02
93 52 0.27
94 63 0.33
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (94 bp):
ACCGTTAATCGAACCAAAATTTATTTGAAAATTATTAACCAAACCAAATCAACCGAATTTTTTTC
TTTAACATTAATCGAACCGAAATTATTTG
Found at i:4645309 original size:26 final size:26
Alignment explanation
Indices: 4645277--4645407 Score: 95
Period size: 26 Copynumber: 4.9 Consensus size: 26
4645267 TTTTCTTTAA
4645277 CATTAATCGAACCGAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
*
4645303 CATTAATCGAACCGAAATTTATTTGAA
1 CATTAATCGAACCGAAA-TTATTTGAC
* * * * *
4645330 AATT-A-CTAACCGAATTGTTTTCTTTAAC
1 CATTAATCGAACCGAA----ATTATTTGAC
* * *
4645358 TATTAATCAAACCAAAATTATTTGAC
1 CATTAATCGAACCGAAATTATTTGAC
* *
4645384 CGTTAATCGAACCCAAATTTATTT
1 CATTAATCGAACCGAAA-TTATTT
4645408 AAAAATTATT
Statistics
Matches: 80, Mismatches: 17, Indels: 15
0.71 0.15 0.13
Matches are distributed among these distances:
25 8 0.10
26 38 0.47
27 17 0.21
28 9 0.11
29 1 0.01
30 7 0.09
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.36
Consensus pattern (26 bp):
CATTAATCGAACCGAAATTATTTGAC
Found at i:4645334 original size:27 final size:27
Alignment explanation
Indices: 4645278--4645415 Score: 95
Period size: 27 Copynumber: 5.1 Consensus size: 27
4645268 TTTCTTTAAC
**
4645278 ATTAATCGAACCGAAA-TTATTTGACC
1 ATTAATCGAACCGAAATTTATTTGAAA
4645304 ATTAATCGAACCGAAATTTATTTGAAA
1 ATTAATCGAACCGAAATTTATTTGAAA
* * * * *
4645331 ATT-A-CTAACCGAATTGTTTTCTTTAACT
1 ATTAATCGAACCGAAAT-TTAT-TTGAA-A
* * **
4645359 ATTAATCAAACC-AAAATTATTTGACC
1 ATTAATCGAACCGAAATTTATTTGAAA
* * *
4645385 GTTAATCGAACCCAAATTTATTTAAAA
1 ATTAATCGAACCGAAATTTATTTGAAA
4645412 ATTA
1 ATTA
4645416 TTAACTGAAT
Statistics
Matches: 84, Mismatches: 21, Indels: 13
0.71 0.18 0.11
Matches are distributed among these distances:
25 9 0.11
26 30 0.36
27 31 0.37
28 6 0.07
29 3 0.04
30 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.36
Consensus pattern (27 bp):
ATTAATCGAACCGAAATTTATTTGAAA
Found at i:4645390 original size:81 final size:80
Alignment explanation
Indices: 4645256--4645425 Score: 259
Period size: 81 Copynumber: 2.1 Consensus size: 80
4645246 CAAACCAAAT
* * * *
4645256 TAACCGAATTTTTTTCTTTAACATTAATCGAACCGAAATTATTTGACCATTAATCGAACCGAAAT
1 TAACCGAATTGTTTTCTTTAACATTAATCAAACCAAAATTATTTGACCATTAATCGAACCCAAAT
*
4645321 TTATTTGAAAATTAC
66 TTATTTAAAAATTAC
*
4645336 TAACCGAATTGTTTTCTTTAACTATTAATCAAACCAAAATTATTTGACCGTTAATCGAACCCAAA
1 TAACCGAATTGTTTTCTTTAAC-ATTAATCAAACCAAAATTATTTGACCATTAATCGAACCCAAA
*
4645401 TTTATTTAAAAATTAT
65 TTTATTTAAAAATTAC
*
4645417 TAACTGAAT
1 TAACCGAAT
4645426 AAAATAAATT
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
80 21 0.26
81 60 0.74
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.38
Consensus pattern (80 bp):
TAACCGAATTGTTTTCTTTAACATTAATCAAACCAAAATTATTTGACCATTAATCGAACCCAAAT
TTATTTAAAAATTAC
Found at i:4645467 original size:65 final size:67
Alignment explanation
Indices: 4645382--4645540 Score: 200
Period size: 65 Copynumber: 2.4 Consensus size: 67
4645372 AAATTATTTG
* *
4645382 ACCGTTAATCGAACCCAAATTTATTTAAAAATTATTAACTGAATA-AAAT-AA-ATTATTTTTCT
1 ACCGTTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAA-ACAAATCAACATTATTTTTCT
4645444 TTA
65 TTA
* * *
4645447 ACCGTTAATTGAACCAAAATTTATTTGAAAATTATTAACCGAAACAAATCAACTGATTGTTTTTC
1 ACCGTTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAAACAAATCAAC--ATTATTTTTC
4645512 TTTA
64 TTTA
* *
4645516 ACCATTAATCGAACCGAAA-TTATTT
1 ACCGTTAATCGAACCAAAATTTATTT
4645541 GACCATTAAT
Statistics
Matches: 81, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
64 1 0.01
65 43 0.53
66 2 0.02
68 6 0.07
69 29 0.36
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (67 bp):
ACCGTTAATCGAACCAAAATTTATTTAAAAATTATTAACCGAAACAAATCAACATTATTTTTCTT
TA
Found at i:4645525 original size:160 final size:163
Alignment explanation
Indices: 4645343--4645665 Score: 447
Period size: 160 Copynumber: 2.0 Consensus size: 163
4645333 TACTAACCGA
* *
4645343 ATTGTTTTCTTTAACTATTAATCAAACCAAAATTATTTGACCGTTAATCGAACCCAAATTTATTT
1 ATTGTTTTCTTTAACCATTAATCAAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATTT
* *
4645408 AAAAATTATTAA-C-T-GAATAAAATAAATTA-TTTTTCTTTAACCGTTAATTGAACCAAAATTT
66 AAAAATTATTAACCATCGAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAACCAAAATTT
4645469 ATTTGAAAATTATTAACCGAAACAAATCAACTG
131 ATTTGAAAATTATTAACCGAAACAAATCAACTG
* * * *
4645502 ATTGTTTTTCTTTAACCATTAATCGAACCGAAATTATTTGACCATTAATCGAATCGAAATTTATT
1 ATTG-TTTTCTTTAACCATTAATCAAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATT
*
4645567 TGAAAATTATTAACCGAATTAATCGAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAACC
65 TAAAAATTATTAACC------ATCGAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAACC
** *
4645632 GGAATTTATTTGAAAATTATTAACCGAACCAAAT
124 AAAATTTATTTGAAAATTATTAACCGAAACAAAT
4645666 TAACCGAAAT
Statistics
Matches: 141, Mismatches: 12, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
159 4 0.03
160 66 0.47
161 1 0.01
168 1 0.01
169 15 0.11
170 54 0.38
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (163 bp):
ATTGTTTTCTTTAACCATTAATCAAACCAAAATTATTTGACCATTAATCGAACCCAAATTTATTT
AAAAATTATTAACCATCGAATAAAATAAATTATTTTTTCCTTAACCGTTAATCGAACCAAAATTT
ATTTGAAAATTATTAACCGAAACAAATCAACTG
Found at i:4645545 original size:26 final size:27
Alignment explanation
Indices: 4645516--4645569 Score: 92
Period size: 26 Copynumber: 2.0 Consensus size: 27
4645506 TTTTTCTTTA
4645516 ACCATTAATCGAACCGAAA-TTATTTG
1 ACCATTAATCGAACCGAAATTTATTTG
*
4645542 ACCATTAATCGAATCGAAATTTATTTG
1 ACCATTAATCGAACCGAAATTTATTTG
4645569 A
1 A
4645570 AAATTATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (27 bp):
ACCATTAATCGAACCGAAATTTATTTG
Found at i:4645575 original size:27 final size:26
Alignment explanation
Indices: 4645519--4645575 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
4645509 TTCTTTAACC
**
4645519 ATTAATCGAACCGAAATTATTTGACC
1 ATTAATCGAACCGAAATTATTTGAAA
*
4645545 ATTAATCGAATCGAAATTTATTTGAAA
1 ATTAATCGAACCGAAA-TTATTTGAAA
4645572 ATTA
1 ATTA
4645576 TTAACCGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.56
27 12 0.44
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (26 bp):
ATTAATCGAACCGAAATTATTTGAAA
Found at i:4645591 original size:39 final size:38
Alignment explanation
Indices: 4645532--4645701 Score: 122
Period size: 39 Copynumber: 4.5 Consensus size: 38
4645522 AATCGAACCG
* *
4645532 AAATTATTTGACC-ATTAATCGAATCGAAATTTATTTGA
1 AAATTA-TTAACCGATTAATCGAACCGAAATTTATTTGA
**
4645570 AAATTATTAACCGAATTAATCGAA-TAAAATAAATTATTT--
1 AAATTATTAACCG-ATTAATCGAACCGAAAT---TTATTTGA
* * *
4645609 --TTTCCTTAACCG-TTAATCGAACCGGAATTTATTTGA
1 AAATT-ATTAACCGATTAATCGAACCGAAATTTATTTGA
** *
4645645 AAATTATTAACCGAACCAAAT-TAACCGAAATTTATTTGA
1 AAATTATTAACCG-A-TTAATCGAACCGAAATTTATTTGA
4645684 AAATTATTAACCGATTAA
1 AAATTATTAACCGATTAA
4645702 CGATTAATTT
Statistics
Matches: 102, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
34 6 0.06
36 9 0.09
37 19 0.19
38 20 0.20
39 39 0.38
40 3 0.03
41 6 0.06
ACGTcount: A:0.42, C:0.13, G:0.09, T:0.36
Consensus pattern (38 bp):
AAATTATTAACCGATTAATCGAACCGAAATTTATTTGA
Found at i:4647553 original size:34 final size:35
Alignment explanation
Indices: 4647483--4647603 Score: 167
Period size: 36 Copynumber: 3.5 Consensus size: 35
4647473 AGAAATACTT
**
4647483 TCAAGTGAGAT-AAATTTGTTTTAAAGAAAACAATC
1 TCAAGTGAGATAAAATCAGTTTT-AAGAAAACAATC
*
4647518 TCAAGTGAAATAAAATCAGTTTTAAG-AAACAATC
1 TCAAGTGAGATAAAATCAGTTTTAAGAAAACAATC
4647552 TCAAGTGAGATAAAATCTA-TTTTAAGAAAAACAATC
1 TCAAGTGAGATAAAATC-AGTTTTAAG-AAAACAATC
4647588 TCAAGTGAGATAAAAT
1 TCAAGTGAGATAAAAT
4647604 TTTAAGTGAA
Statistics
Matches: 78, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
34 31 0.40
35 14 0.18
36 33 0.42
ACGTcount: A:0.49, C:0.10, G:0.13, T:0.28
Consensus pattern (35 bp):
TCAAGTGAGATAAAATCAGTTTTAAGAAAACAATC
Found at i:4647757 original size:44 final size:44
Alignment explanation
Indices: 4647703--4647957 Score: 282
Period size: 44 Copynumber: 5.8 Consensus size: 44
4647693 AGGGTGAAGA
* *
4647703 TGATCCAACTCCTTATGTGATGAAATCAAGCAAAATGATCATGC
1 TGATCCAACTCCTTATGTGATGAAATCGAGCAAAATGATGATGC
* * *
4647747 TGATCTAACTCCTTATGTGATGGAATCGAGCGAAATGATGATGAC
1 TGATCCAACTCCTTATGTGATGAAATCGAGCAAAATGATGATG-C
* * *
4647792 -GATTCAACTCCTTATGTGAT-AGAATCGAGCAATATGATGATGT
1 TGATCCAACTCCTTATGTGATGA-AATCGAGCAAAATGATGATGC
* * * *
4647835 TGATCCAACTCATTATGTGATGAAATTGAGCGAAATGGTGATGC
1 TGATCCAACTCCTTATGTGATGAAATCGAGCAAAATGATGATGC
* * ** * *
4647879 TGATCCAACTCCTTATGTGATGAAATCTAGCGAAACAATAATGG
1 TGATCCAACTCCTTATGTGATGAAATCGAGCAAAATGATGATGC
* *
4647923 TGATCCAACT-TTGTATGTGATGGAATCGAGCAAAA
1 TGATCCAACTCCT-TATGTGATGAAATCGAGCAAAA
4647958 AAAAAAAGTA
Statistics
Matches: 176, Mismatches: 30, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
43 1 0.01
44 173 0.98
45 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
TGATCCAACTCCTTATGTGATGAAATCGAGCAAAATGATGATGC
Found at i:4647932 original size:132 final size:132
Alignment explanation
Indices: 4647703--4647955 Score: 337
Period size: 132 Copynumber: 1.9 Consensus size: 132
4647693 AGGGTGAAGA
* *
4647703 TGATCCAACTCCTTATGTGATGAAATCAAGCAAAATGATCATGCTGATCTAACTCCTTATGTGAT
1 TGATCCAACTCATTATGTGATGAAATCAAGCAAAATGATCATGCTGATCCAACTCCTTATGTGAT
* ** * *
4647768 GGAATCGAGCGAAATGATGATGACGATTCAACTCCT-TATGTGATAGAATCGAGCAATATGATGA
66 GAAATCGAGCGAAACAATAATGACGATCCAACT-CTGTATGTGATAGAATCGAGCAATATGATGA
4647832 TGT
130 TGT
** * * *
4647835 TGATCCAACTCATTATGTGATGAAATTGAGCGAAATGGTGATGCTGATCCAACTCCTTATGTGAT
1 TGATCCAACTCATTATGTGATGAAATCAAGCAAAATGATCATGCTGATCCAACTCCTTATGTGAT
* ** * *
4647900 GAAATCTAGCGAAACAATAATGGTGATCCAACTTTGTATGTGATGGAATCGAGCAA
66 GAAATCGAGCGAAACAATAATGACGATCCAACTCTGTATGTGATAGAATCGAGCAA
4647956 AAAAAAAAAG
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
131 1 0.01
132 102 0.99
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (132 bp):
TGATCCAACTCATTATGTGATGAAATCAAGCAAAATGATCATGCTGATCCAACTCCTTATGTGAT
GAAATCGAGCGAAACAATAATGACGATCCAACTCTGTATGTGATAGAATCGAGCAATATGATGAT
GT
Found at i:4659139 original size:65 final size:64
Alignment explanation
Indices: 4658941--4659148 Score: 212
Period size: 65 Copynumber: 3.2 Consensus size: 64
4658931 TGCACTAAGA
* * * *
4658941 GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCA-GAGTGCATCAATGCATGGCTG
1 GTGCATCGATGCATAAAATGCATTCGATGTTTC-AATTAACCATGAGTGCATCGATGCATGGTTG
* * *
4659005 GTGCATCGATGCATCAAATGCATTCGATGTTTTC-ATAAAACTC-TGAGTGCATCGATGCATAGT
1 GTGCATCGATGCATAAAATGCATTCGATG-TTTCAAT-TAAC-CATGAGTGCATCGATGCATGGT
4659068 AT-
63 -TG
* *
4659070 GTGCATCGATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGAT
1 GTGCATCGATGCATAAAATGCATTCGATGTTTCAA-TTA-ACCATGAGTGCATCGATGCATGG-T
4659133 TG
63 TG
*
4659135 GTGCATCGGTGCAT
1 GTGCATCGATGCAT
4659149 CACTTTGAAA
Statistics
Matches: 121, Mismatches: 12, Indels: 21
0.79 0.08 0.14
Matches are distributed among these distances:
63 4 0.03
64 49 0.40
65 67 0.55
66 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (64 bp):
GTGCATCGATGCATAAAATGCATTCGATGTTTCAATTAACCATGAGTGCATCGATGCATGGTTG
Found at i:4659596 original size:2 final size:2
Alignment explanation
Indices: 4659589--4659638 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4659579 GCCAATTGAT
4659589 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4659631 TA TA TA TA
1 TA TA TA TA
4659639 GCTGCTAAGA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:4660909 original size:13 final size:13
Alignment explanation
Indices: 4660891--4660915 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4660881 AATCAAAAAC
4660891 ATCAAATTTAGAA
1 ATCAAATTTAGAA
4660904 ATCAAATTTAGA
1 ATCAAATTTAGA
4660916 TTTTCGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
ATCAAATTTAGAA
Found at i:4661372 original size:23 final size:22
Alignment explanation
Indices: 4661337--4661412 Score: 84
Period size: 23 Copynumber: 3.5 Consensus size: 22
4661327 GCATGGCCTT
4661337 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
4661359 CGTGCATC-AGTGCACCTTC-ATG
1 -GTGCATCGA-TGCACATTCAAGG
*
4661381 GTGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
*
4661403 ATGCATCGAT
1 GTGCATCGAT
4661413 ACACTGTTAG
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
21 14 0.33
22 14 0.33
23 15 0.35
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:4661399 original size:21 final size:20
Alignment explanation
Indices: 4661337--4661412 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 20
4661327 GCATGGCCTT
4661337 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTC-A-G
*
4661359 CGTGCATC-AGTGCACCTTCATG
1 -GTGCATCGA-TGCACATTCA-G
*
4661381 GTGTATCGATGCACATTCAAG
1 GTGCATCGATGCACATTC-AG
4661402 GATGCATCGAT
1 G-TGCATCGAT
4661413 ACACTGTTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 9
0.76 0.09 0.16
Matches are distributed among these distances:
21 16 0.36
22 13 0.30
23 15 0.34
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (20 bp):
GTGCATCGATGCACATTCAG
Found at i:4667276 original size:45 final size:46
Alignment explanation
Indices: 4667212--4667336 Score: 175
Period size: 45 Copynumber: 2.7 Consensus size: 46
4667202 CAGTGCACTA
*
4667212 AGAGTGCATCAATGCATAAAATGCATTCGATGTTTT-A-AAATAGC-C
1 AGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAA-A-CTC
*
4667257 AGAGTGCATCGATGCATAAAATGCATTCGCTGTTTTCATAAAACTC
1 AGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACTC
* *
4667303 TGAGTGCATCGATGCATGAAATGCATTCGATGTT
1 AGAGTGCATCGATGCATAAAATGCATTCGATGTT
4667337 CAATTTATTC
Statistics
Matches: 72, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
45 35 0.49
46 34 0.47
47 3 0.04
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (46 bp):
AGAGTGCATCGATGCATAAAATGCATTCGATGTTTTCATAAAACTC
Found at i:4670480 original size:22 final size:21
Alignment explanation
Indices: 4670455--4670519 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
4670445 TGGATGTATA
4670455 TGATTGATCTATTATGTCTATT
1 TGATTGATCTATTATG-CTATT
* *
4670477 TGATT-A--TA-GATG-TATA
1 TGATTGATCTATTATGCTATT
4670493 TGATTGATCTATTATGCCTATT
1 TGATTGATCTATTATG-CTATT
4670515 TGATT
1 TGATT
4670520 ATGGATGGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 3 0.09
19 4 0.12
20 3 0.09
21 1 0.03
22 13 0.39
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (21 bp):
TGATTGATCTATTATGCTATT
Found at i:4670498 original size:38 final size:38
Alignment explanation
Indices: 4670447--4670526 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
4670437 TAAATGCATG
*
4670447 GATGTATATGATTGATCTATTATGTCTATTTGATTATA
1 GATGTATATGATTGATCTATTATGCCTATTTGATTATA
*
4670485 GATGTATATGATTGATCTATTATGCCTATTTGATTATG
1 GATGTATATGATTGATCTATTATGCCTATTTGATTATA
4670523 GATG
1 GATG
4670527 GATTCAAACC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.28, C:0.06, G:0.19, T:0.47
Consensus pattern (38 bp):
GATGTATATGATTGATCTATTATGCCTATTTGATTATA
Found at i:4677641 original size:20 final size:20
Alignment explanation
Indices: 4677613--4677678 Score: 52
Period size: 20 Copynumber: 3.5 Consensus size: 20
4677603 TAAATAGTTC
*
4677613 AATTCATATTATATATTTTT
1 AATTAATATTATATATTTTT
*
4677633 AATTAATATT-TA-A-TTTG
1 AATTAATATTATATATTTTT
*
4677650 AATT-A-ATTAAATAAGTTTTT
1 AATTAATATTATAT-A-TTTTT
4677670 AATTAATAT
1 AATTAATAT
4677679 AAAATAACAA
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 7 0.20
18 2 0.06
19 2 0.06
20 16 0.46
21 1 0.03
22 2 0.06
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (20 bp):
AATTAATATTATATATTTTT
Found at i:4686871 original size:19 final size:19
Alignment explanation
Indices: 4686847--4686884 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4686837 AACTAAAATT
4686847 AAAATTACCTAGCATTGAA
1 AAAATTACCTAGCATTGAA
4686866 AAAATTACCTAGCATTGAA
1 AAAATTACCTAGCATTGAA
4686885 GCATTTGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.26
Consensus pattern (19 bp):
AAAATTACCTAGCATTGAA
Found at i:4687301 original size:2 final size:2
Alignment explanation
Indices: 4687294--4687342 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
4687284 CATTAAAAAT
4687294 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4687336 TA TA TA T
1 TA TA TA T
4687343 TAGAACCTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:4696656 original size:23 final size:23
Alignment explanation
Indices: 4696613--4696656 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
4696603 TTTATCTATG
* *
4696613 ATTATAATAATAATCTTTAATTC
1 ATTATAATAATAACCTATAATTC
4696636 ATTATTAAT-ATAACCTATAAT
1 ATTA-TAATAATAACCTATAAT
4696657 CCATATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 14 0.78
24 4 0.22
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (23 bp):
ATTATAATAATAACCTATAATTC
Found at i:4705244 original size:81 final size:81
Alignment explanation
Indices: 4705123--4705942 Score: 1192
Period size: 81 Copynumber: 10.1 Consensus size: 81
4705113 CTGTTAAGCA
* *
4705123 ATTAGTCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTAGCAATATTGGCACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
* *
4705188 ATTGCACAGCTAGGTC
66 AATGCACAGCTAGGCC
* * *
4705204 ATTAATCTTTTATTCAAAGGCATTTATCCTTTCATCTAACTGGAAATATTGGCACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
* *
4705269 AATGCACAACTAAGCC
66 AATGCACAGCTAGGCC
* * *
4705285 ATTAATGTTTTACTCAAAGGTC-TTTAGCCTTTCATCTAACTAGCAATATTGACACCTTTCTACC
1 ATTAATCTTTTACTCAAAGG-CATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACC
* *
4705349 AAATACACAGCTAGGAC
65 AAATGCACAGCTAGGCC
* *
4705366 ATTAATCTTTTACTCAAAGGAATTTAGCTTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
* *
4705431 AATGCACAACTTGGCC
66 AATGCACAGCTAGGCC
* * * *
4705447 ATTAATCTTTTACTCAAAGGCATTTTGCCTTTCATCTAACTTGCAGTATTGACACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
*
4705512 AATGCATAGCTAGGCC
66 AATGCACAGCTAGGCC
* *
4705528 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAGTATTGACACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
*
4705593 AATGCATAGCTAGGCC
66 AATGCACAGCTAGGCC
* * ** * *
4705609 ATTAATCTTTTACTCAAAGGCCTTTAGCCTTTCATCTAACTAGCAATATTACCACATTTCAACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
*
4705674 AATGCACAGTTAGGCC
66 AATGCACAGCTAGGCC
* *
4705690 ATTAATCTTTTACTCAAAGACATTTAGCCTTTCATCTAACTGGCAATATTGACACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
*
4705755 AATTCACAGCTAGGCC
66 AATGCACAGCTAGGCC
* * * *
4705771 ATTAATCTTTGACTCAAACGTATTTAGCCTTTCATCTAACTAGCAATATTGGCACCTTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
4705836 AATGCACAGCTAGGCC
66 AATGCACAGCTAGGCC
* * * * * *
4705852 ATTAATCTTTTGCTCAAAGGCCTTTAGCCTTTCATCTAATTGGAAATGTTGGCACATTTCTACCA
1 ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
*
4705917 AATGCACAACTAGGCC
66 AATGCACAGCTAGGCC
*
4705933 ATTGATCTTT
1 ATTAATCTTT
4705943 CGGTATCGAT
Statistics
Matches: 661, Mismatches: 76, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
81 660 1.00
82 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (81 bp):
ATTAATCTTTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATTGGCACCTTTCTACCA
AATGCACAGCTAGGCC
Found at i:4711854 original size:19 final size:20
Alignment explanation
Indices: 4711815--4711859 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
4711805 TAAGTGTTAA
*
4711815 TGAATTTTAAGATTTTATAT
1 TGAATTTTAAGATTATATAT
4711835 TGAATTTTAA-ATTATATAT
1 TGAATTTTAAGATTATATAT
4711854 TCGAAT
1 T-GAAT
4711860 ATCAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.38, C:0.02, G:0.09, T:0.51
Consensus pattern (20 bp):
TGAATTTTAAGATTATATAT
Found at i:4714036 original size:19 final size:19
Alignment explanation
Indices: 4714012--4714048 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4714002 TAAAGATAAT
4714012 TTGATTTTGAAAGCAAAAG
1 TTGATTTTGAAAGCAAAAG
*
4714031 TTGATTTTGAAATCAAAA
1 TTGATTTTGAAAGCAAAA
4714049 TGAAATTTTG
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:0.43, C:0.05, G:0.16, T:0.35
Consensus pattern (19 bp):
TTGATTTTGAAAGCAAAAG
Found at i:4715293 original size:19 final size:21
Alignment explanation
Indices: 4715260--4715300 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
4715250 TGTTAATGAA
*
4715260 TTTTAAGATTTTATA-TTGAT
1 TTTTAAGATTATATATTTGAT
4715280 TTTTAA-ATTATATATTTGAT
1 TTTTAAGATTATATATTTGAT
4715300 T
1 T
4715301 AAATTATTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTAAGATTATATATTTGAT
Found at i:4715507 original size:21 final size:21
Alignment explanation
Indices: 4715483--4715526 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4715473 AACCAGATTG
4715483 CCCAGAGGAAACAGATTCCCC
1 CCCAGAGGAAACAGATTCCCC
* ** *
4715504 CCCAGGGGGTACCGATTCCCC
1 CCCAGAGGAAACAGATTCCCC
4715525 CC
1 CC
4715527 AGGGGGTACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.43, G:0.23, T:0.11
Consensus pattern (21 bp):
CCCAGAGGAAACAGATTCCCC
Found at i:4715532 original size:21 final size:20
Alignment explanation
Indices: 4715496--4715545 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
4715486 AGAGGAAACA
4715496 GATTCCCCCCCAGGGGGTACC
1 GATT-CCCCCCAGGGGGTACC
4715517 GATTCCCCCCAGGGGGTACC
1 GATTCCCCCCAGGGGGTACC
4715537 GATTCCCCC
1 GATTCCCCC
4715546 TGTTTAACGG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
20 25 0.86
21 4 0.14
ACGTcount: A:0.14, C:0.44, G:0.26, T:0.16
Consensus pattern (20 bp):
GATTCCCCCCAGGGGGTACC
Found at i:4716660 original size:81 final size:81
Alignment explanation
Indices: 4716519--4716698 Score: 261
Period size: 81 Copynumber: 2.2 Consensus size: 81
4716509 CTGTTAAGCA
* * * * * *
4716519 ATTAGTCTTTTACTCAAAGGCGTTTATCATTTCATCTAACTGGCAATATTGGCACCTTTCTTCCA
1 ATTAATCTTTTACTCAAAGGCATTAAGCATTTCATCTAACTGGCAATATTGGCACATTTCTACCA
* *
4716584 ATTGCACAGCTAGGCC
66 AATGCACAGCTAGACC
* *
4716600 ATTAATCTTTTACTCAAAGGCATTAAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTACTA
1 ATTAATCTTTTACTCAAAGGCATTAAGCATTTCATCTAACTGGCAATATTGGCACATTTCTACCA
4716665 AATGCACAGCTAGACC
66 AATGCACAGCTAGACC
*
4716681 ATTAATCTTTTAATCAAA
1 ATTAATCTTTTACTCAAA
4716699 TCTAACTGGA
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 88 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (81 bp):
ATTAATCTTTTACTCAAAGGCATTAAGCATTTCATCTAACTGGCAATATTGGCACATTTCTACCA
AATGCACAGCTAGACC
Found at i:4716713 original size:65 final size:65
Alignment explanation
Indices: 4716633--4716763 Score: 190
Period size: 65 Copynumber: 2.0 Consensus size: 65
4716623 TAAGCCTTTC
* * * *
4716633 ATCTAACTGGCAATATTGGCACATTTCTACTAAATGCACAGCTAGACCATTAATCTTTTAATCAA
1 ATCTAACTGGAAATATTGGCACATTTCTACCAAATGCAAAACTAGACCATTAATCTTTTAATCAA
* * * *
4716698 ATCTAACTGGAAATATTGTCACCTTTCTACCAAATGCAAAACTAGGCCATTAATCTTTTACTCAA
1 ATCTAACTGGAAATATTGGCACATTTCTACCAAATGCAAAACTAGACCATTAATCTTTTAATCAA
4716763 A
1 A
4716764 GGTCTTTAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (65 bp):
ATCTAACTGGAAATATTGGCACATTTCTACCAAATGCAAAACTAGACCATTAATCTTTTAATCAA
Found at i:4716819 original size:146 final size:148
Alignment explanation
Indices: 4716552--4716998 Score: 510
Period size: 146 Copynumber: 2.9 Consensus size: 148
4716542 TTATCATTTC
* * * * *
4716552 ATCTAACTGGCAATATTGGCACCTTTCTTCCAATTGCACAGCTAGGCCATTAATCTTTTACTCAA
1 ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCAAAACTAGGCCATTAATCTTTTACTCAA
* *
4716617 AGGCATTAAGCCTTTCATCTAACTGGCAATATTGGCACATTTCTACTAAATGCACAGCTAGACCA
66 AGGCATTTAGCCTTTCATCTAACTGGCAATATTGACACATTTCTACTAAATGCACAGCTAGACCA
4716682 TTAATCTTTTAATC-A-A
131 TTAATCTTTTAATCAATA
* *
4716698 ATCTAACTGGAAATATTGTCACCTTTCTACCAAATGCAAAACTAGGCCATTAATCTTTTACTCAA
1 ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCAAAACTAGGCCATTAATCTTTTACTCAA
* * * *
4716763 AGGTC-TTTAGCCTTTCATCTAACTGACAATATTGACACTTTTCTACCAAATACACAGCTAGGA-
66 AGG-CATTTAGCCTTTCATCTAACTGGCAATATTGACACATTTCTACTAAATGCACAGCTA-GAC
*
4716826 CATTAATCTTTTACTCAAGGGAATTA
129 CATTAATCTTTTAATC-----AA-TA
4716852 AGCTTTTCGTCTAACTGGCAATATTGACACCTTTCTACCAAATG-AACAACTAGGCCATTAATCT
1 A--------TCTAACTGGCAATATTGACACCTTTCTACCAAATGCAA-AACTAGGCCATTAATCT
* * * *
4716916 TTTACTCAAACGCATTTAGCCTTTCATCTAATTGGCAATATTGGA-ACCTTTATACTAAATGCAC
57 TTTACTCAAAGGCATTTAGCCTTTCATCTAACTGGCAATATT-GACACATTTCTACTAAATGCAC
* *
4716980 AGCTAGGCTATTAATCTTT
121 AGCTAGACCATTAATCTTT
4716999 ACTCAAAGGC
Statistics
Matches: 255, Mismatches: 24, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
146 126 0.49
147 3 0.01
152 1 0.00
154 2 0.01
161 4 0.02
162 117 0.46
163 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (148 bp):
ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCAAAACTAGGCCATTAATCTTTTACTCAA
AGGCATTTAGCCTTTCATCTAACTGGCAATATTGACACATTTCTACTAAATGCACAGCTAGACCA
TTAATCTTTTAATCAATA
Found at i:4717046 original size:80 final size:81
Alignment explanation
Indices: 4716698--4717080 Score: 502
Period size: 81 Copynumber: 4.7 Consensus size: 81
4716688 TTTTAATCAA
* * *
4716698 ATCTAACTGGAAATATTGTCACCTTTCTACCAAATGCAAAACTAGGCCATTAATCTTTTACTCAA
1 ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAA
4716763 AGGTC-TTTAGCCTTTC
66 AGG-CATTTAGCCTTTC
* * * * *
4716779 ATCTAACTGACAATATTGACACTTTTCTACCAAATACACAGCTAGGACATTAATCTTTTACTCAA
1 ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAA
* * * *
4716844 GGGAATTAAGCTTTTC
66 AGGCATTTAGCCTTTC
* *
4716860 GTCTAACTGGCAATATTGACACCTTTCTACCAAATGAACAACTAGGCCATTAATCTTTTACTCAA
1 ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAA
*
4716925 ACGCATTTAGCCTTTC
66 AGGCATTTAGCCTTTC
* * * * *
4716941 ATCTAATTGGCAATATTGGA-ACCTTTATACTAAATGCACAGCTAGGCTATTAATC-TTTACTCA
1 ATCTAACTGGCAATATT-GACACCTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCA
4717004 AAGGCATTTAGCCTTTC
65 AAGGCATTTAGCCTTTC
* * * * *
4717021 ATCTAACTGGCAATGTTGGCCCCTTTCTACCAAATACACAACTAGGCCATTAATATTTTA
1 ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTA
4717081 TTTTAAGAAC
Statistics
Matches: 256, Mismatches: 42, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
79 1 0.00
80 67 0.26
81 186 0.73
82 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (81 bp):
ATCTAACTGGCAATATTGACACCTTTCTACCAAATGCACAACTAGGCCATTAATCTTTTACTCAA
AGGCATTTAGCCTTTC
Found at i:4717631 original size:23 final size:21
Alignment explanation
Indices: 4717573--4717625 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
4717563 GGAATCCATG
4717573 GTATCGATACCATCATTTTTT
1 GTATCGATACCATCATTTTTT
*
4717594 GTATCGATGCCATCATTTTTT
1 GTATCGATACCATCATTTTTT
4717615 GTATCGATACC
1 GTATCGATACC
4717626 CCATCAGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (21 bp):
GTATCGATACCATCATTTTTT
Found at i:4720382 original size:3 final size:3
Alignment explanation
Indices: 4720374--4720443 Score: 115
Period size: 3 Copynumber: 23.0 Consensus size: 3
4720364 AAATTAAAAT
4720374 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4720422 ATA AT- ATA TATA ATA TATA ATA
1 ATA ATA ATA -ATA ATA -ATA ATA
4720444 TACAATATAA
Statistics
Matches: 64, Mismatches: 0, Indels: 6
0.91 0.00 0.09
Matches are distributed among these distances:
2 2 0.03
3 56 0.88
4 6 0.09
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4720599 original size:22 final size:22
Alignment explanation
Indices: 4720572--4720619 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4720562 ATTTACAAAT
4720572 TATATATTTTCAAAA-TATATAA
1 TATATATTTT-AAAACTATATAA
*
4720594 TATATATTTTAAAACTATATTA
1 TATATATTTTAAAACTATATAA
4720616 TATA
1 TATA
4720620 ATACTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATATTTTAAAACTATATAA
Found at i:4747656 original size:22 final size:22
Alignment explanation
Indices: 4747619--4747660 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4747609 TAATATAAGA
4747619 TATTTTATAATAATAATATACC
1 TATTTTATAATAATAATATACC
4747641 TATTATTATAAT-ATAATATA
1 TATT-TTATAATAATAATATA
4747661 TATTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TATTTTATAATAATAATATACC
Found at i:4747664 original size:20 final size:20
Alignment explanation
Indices: 4747618--4747666 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
4747608 CTAATATAAG
4747618 ATATTTTATAATAATAATAT
1 ATATTTTATAATAATAATAT
4747638 ACCTATTATTATAAT-ATAATAT
1 A--TATT-TTATAATAATAATAT
4747660 ATATTTT
1 ATATTTT
4747667 TCAAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.08
20 5 0.19
22 12 0.46
23 7 0.27
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (20 bp):
ATATTTTATAATAATAATAT
Found at i:4747779 original size:2 final size:2
Alignment explanation
Indices: 4747733--4747765 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
4747723 ACAGACACAA
4747733 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4747766 TAAAAACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4751716 original size:28 final size:28
Alignment explanation
Indices: 4751681--4751740 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
4751671 AAAAAACTAT
4751681 ATATTTTCAAAATATAATACATATATAC
1 ATATTTTCAAAATATAATACATATATAC
* *
4751709 ATATTTTCAAAATATAATATATATATAT
1 ATATTTTCAAAATATAATACATATATAC
4751737 ATAT
1 ATAT
4751741 ACTTTAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
ATATTTTCAAAATATAATACATATATAC
Found at i:4751737 original size:30 final size:29
Alignment explanation
Indices: 4751681--4751757 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
4751671 AAAAAACTAT
*
4751681 ATATTTTCAAAATATA-ATACATATATAC
1 ATATTTTCAAAATATATATATATATATAC
*
4751709 ATATTTTCAAAATATAATATATATATATAT
1 ATATTTTCAAAATAT-ATATATATATATAC
*
4751739 ATACTTT-AAAAT-TATATAT
1 ATATTTTCAAAATATATATAT
4751758 TTTCAAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 6 0.14
28 16 0.36
29 6 0.14
30 16 0.36
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (29 bp):
ATATTTTCAAAATATATATATATATATAC
Found at i:4751792 original size:22 final size:22
Alignment explanation
Indices: 4751751--4751792 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
4751741 ACTTTAAAAT
4751751 TATATATTTTCAAAATATATAA
1 TATATATTTTCAAAATATATAA
4751773 TATATATTTT-AAAACTATAT
1 TATATATTTTCAAAA-TATAT
4751793 TACATGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATATTTTCAAAATATATAA
Found at i:4752034 original size:19 final size:20
Alignment explanation
Indices: 4751999--4752038 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
4751989 TATTGTGATC
*
4751999 ATGTGTTTTTCTGAAGAGGT
1 ATGTGCTTTTCTGAAGAGGT
4752019 ATGTGCTTTT-TGAAGAGGT
1 ATGTGCTTTTCTGAAGAGGT
4752038 A
1 A
4752039 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.23, C:0.05, G:0.30, T:0.42
Consensus pattern (20 bp):
ATGTGCTTTTCTGAAGAGGT
Found at i:4754633 original size:55 final size:55
Alignment explanation
Indices: 4754567--4754684 Score: 236
Period size: 55 Copynumber: 2.1 Consensus size: 55
4754557 ATGTTTAGTA
4754567 ATAAATTTGAGATTTTTTCTAATTTTGGATTGAATCTAGCTTATTCTTGCAATAT
1 ATAAATTTGAGATTTTTTCTAATTTTGGATTGAATCTAGCTTATTCTTGCAATAT
4754622 ATAAATTTGAGATTTTTTCTAATTTTGGATTGAATCTAGCTTATTCTTGCAATAT
1 ATAAATTTGAGATTTTTTCTAATTTTGGATTGAATCTAGCTTATTCTTGCAATAT
4754677 ATAAATTT
1 ATAAATTT
4754685 TAGGTTCAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (55 bp):
ATAAATTTGAGATTTTTTCTAATTTTGGATTGAATCTAGCTTATTCTTGCAATAT
Found at i:4754893 original size:6 final size:6
Alignment explanation
Indices: 4754884--4754908 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4754874 TACATTTACA
4754884 TGCTTT TGCTTT TGCTTT TGCTTT T
1 TGCTTT TGCTTT TGCTTT TGCTTT T
4754909 TTTAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.16, T:0.68
Consensus pattern (6 bp):
TGCTTT
Found at i:4768396 original size:30 final size:29
Alignment explanation
Indices: 4768356--4768434 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 29
4768346 AATATATTAT
*
4768356 TTTTTAAAATTATATTTTTGGTCC-CTAAA
1 TTTTCAAAATTATATTTTTGG-CCACTAAA
* *
4768385 CTTTTCTAAATT-TATACTTTGGCCACTAAA
1 -TTTTCAAAATTATAT-TTTTGGCCACTAAA
4768415 TTTTCAAAACTTATATTTTT
1 TTTTCAAAA-TTATATTTTT
4768435 TTCTCATTAG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
29 13 0.32
30 24 0.60
31 3 0.08
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.51
Consensus pattern (29 bp):
TTTTCAAAATTATATTTTTGGCCACTAAA
Found at i:4768428 original size:29 final size:30
Alignment explanation
Indices: 4768372--4768429 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
4768362 AAATTATATT
* *
4768372 TTTGGTCCCTAAACTTTTCTAAATTTATAC
1 TTTGGTCCCTAAACTTTTCAAAACTTATAC
4768402 TTTGG-CCACTAAA-TTTTCAAAACTTATA
1 TTTGGTCC-CTAAACTTTTCAAAACTTATA
4768430 TTTTTTTCTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 15 0.60
30 10 0.40
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTGGTCCCTAAACTTTTCAAAACTTATAC
Found at i:4769976 original size:146 final size:146
Alignment explanation
Indices: 4769712--4770004 Score: 586
Period size: 146 Copynumber: 2.0 Consensus size: 146
4769702 TGTGAAAATC
4769712 ATTTATTTAAACTAACCGAGTAGATTTTAACCTTCACAAAATAAATGACTTTACTAATAATTGAA
1 ATTTATTTAAACTAACCGAGTAGATTTTAACCTTCACAAAATAAATGACTTTACTAATAATTGAA
4769777 GAAAGATGAGAAGTGTATATTAAGGATGAAACAAGGGAACAAAGGTGCAACTAAAGACTTTAAAG
66 GAAAGATGAGAAGTGTATATTAAGGATGAAACAAGGGAACAAAGGTGCAACTAAAGACTTTAAAG
4769842 TTATAATTCTTAAAGA
131 TTATAATTCTTAAAGA
4769858 ATTTATTTAAACTAACCGAGTAGATTTTAACCTTCACAAAATAAATGACTTTACTAATAATTGAA
1 ATTTATTTAAACTAACCGAGTAGATTTTAACCTTCACAAAATAAATGACTTTACTAATAATTGAA
4769923 GAAAGATGAGAAGTGTATATTAAGGATGAAACAAGGGAACAAAGGTGCAACTAAAGACTTTAAAG
66 GAAAGATGAGAAGTGTATATTAAGGATGAAACAAGGGAACAAAGGTGCAACTAAAGACTTTAAAG
4769988 TTATAATTCTTAAAGA
131 TTATAATTCTTAAAGA
4770004 A
1 A
4770005 AATGTTTTAT
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
146 147 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (146 bp):
ATTTATTTAAACTAACCGAGTAGATTTTAACCTTCACAAAATAAATGACTTTACTAATAATTGAA
GAAAGATGAGAAGTGTATATTAAGGATGAAACAAGGGAACAAAGGTGCAACTAAAGACTTTAAAG
TTATAATTCTTAAAGA
Found at i:4772855 original size:15 final size:16
Alignment explanation
Indices: 4772832--4772865 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
4772822 ATTTCATAAC
*
4772832 TTTCATTTCATATTCT
1 TTTCATTTCATATCCT
4772848 TTTC-TTTCATATCCT
1 TTTCATTTCATATCCT
4772863 TTT
1 TTT
4772866 TATAACATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.15, C:0.21, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCATTTCATATCCT
Found at i:4772871 original size:40 final size:41
Alignment explanation
Indices: 4772795--4772876 Score: 94
Period size: 40 Copynumber: 2.0 Consensus size: 41
4772785 TACAACAACT
* *
4772795 ATTTCATATTCTTTTTCATCCGTATACATTTCATAACTTTC
1 ATTTCATATTCTTTTTCATCCATATACATTTCATAACATTC
* * * * *
4772836 ATTTCATATTC-TTTTCTTTCATATCCTTTTTATAACATTC
1 ATTTCATATTCTTTTTCATCCATATACATTTCATAACATTC
4772876 A
1 A
4772877 CATTTACTTT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
40 23 0.68
41 11 0.32
ACGTcount: A:0.24, C:0.21, G:0.01, T:0.54
Consensus pattern (41 bp):
ATTTCATATTCTTTTTCATCCATATACATTTCATAACATTC
Done.