Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 15 of 221
Found at i:4562464 original size:20 final size:20
Alignment explanation
Indices: 4562435--4562495 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
4562425 TCATGTAGGC
4562435 TATG-TATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
4562454 TATGTTATTATGTAAGTTAT
1 TATGTTATTATGTAAGTTAT
* * *
4562474 GAAAGTTA-TATATAAGTTAT
1 -TATGTTATTATGTAAGTTAT
4562494 TA
1 TA
4562496 AAAATGTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 26 0.72
21 5 0.14
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (20 bp):
TATGTTATTATGTAAGTTAT
Found at i:4562528 original size:25 final size:25
Alignment explanation
Indices: 4562453--4562667 Score: 142
Period size: 25 Copynumber: 9.3 Consensus size: 25
4562443 ATGTAAGTTA
*
4562453 TTATGTTATTATGTAAGTTATGAAAG
1 TTATG-TATTATGTAAGTTATGTAAG
4562479 TTA--TA-TA--TAAGTTAT-TAA-
1 TTATGTATTATGTAAGTTATGTAAG
** *
4562497 AAATGTATTATGTAATTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
4562522 TTGTGTATTATGTAAGTCATGTAGG
1 TTATGTATTATGTAAGTTATGTAAG
* *
4562547 CTATGTATTATGTAAGTTATGAAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
4562572 TT-T-TA-TA--TAAGTGAT-TAA-
1 TTATGTATTATGTAAGTTATGTAAG
** * *
4562590 AAATGTATTATGTAATTTATTTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
4562615 ---T-TATTATGTAAGTTATGAAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
4562636 TTATGTATTATGTAATTTATTTAAG
1 TTATGTATTATGTAAGTTATGTAAG
4562661 TTATGTA
1 TTATGTA
4562668 AGTTGTGTAT
Statistics
Matches: 143, Mismatches: 28, Indels: 37
0.69 0.13 0.18
Matches are distributed among these distances:
18 1 0.01
19 5 0.03
20 19 0.13
21 21 0.15
22 5 0.03
23 17 0.12
24 8 0.06
25 64 0.45
26 3 0.02
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:4562580 original size:93 final size:89
Alignment explanation
Indices: 4562454--4562664 Score: 287
Period size: 93 Copynumber: 2.3 Consensus size: 89
4562444 TGTAAGTTAT
*
4562454 TATGTTATTATGTAAGTTATGAAAGTTATATATAAGTTATTAAAAATGTATTATGTAATTTATGT
1 TATG-TATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATTTATGT
* *
4562519 AAGTTGTGTATTATGTAAGTCATGTAGGC
65 AA---GT-TATTATGTAAGTCATGAAAGC
* *
4562548 TATGTATTATGTAAGTTATGAAAGTTTTATATAAGTGATTAAAAATGTATTATGTAATTTATTTA
1 TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATTTATGTA
* *
4562613 AGTTATTATGTAAGTTATGAAAGT
66 AGTTATTATGTAAGTCATGAAAGC
* **
4562637 TATGTATTATGTAATTTATTTAAGTTAT
1 TATGTATTATGTAAGTTATGAAAGTTAT
4562665 GTAAGTTGTG
Statistics
Matches: 106, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
89 41 0.39
90 2 0.02
93 59 0.56
94 4 0.04
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (89 bp):
TATGTATTATGTAAGTTATGAAAGTTATATATAAGTGATTAAAAATGTATTATGTAATTTATGTA
AGTTATTATGTAAGTCATGAAAGC
Found at i:4562583 original size:113 final size:115
Alignment explanation
Indices: 4562386--4562650 Score: 333
Period size: 113 Copynumber: 2.3 Consensus size: 115
4562376 TATGAAAGTT
* * *
4562386 ATGTATCATTTAATTTATGTAAGTTGTGTATTATGCAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
* * * * * *
4562451 TATTATGTTATTATGTAAGTTA-TGAAAGT-TA-TATATAAGTTATTAAAA
66 TATAAAGTTATTATATAAGTGATTAAAAATGTATTATATAAGTTATT-AAA
4562499 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
* * *
4562564 TATGAAAGTT-TTATATAAGTGATTAAAAATGTATTATGTAATTTATTTAA
66 TAT-AAAGTTATTATATAAGTGATTAAAAATGTATTATATAAGTTATTAAA
* * * *
4562614 GT-TATTATGTAAGTTATGAAAGTTATGTATTATGTAA
1 ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAA
4562651 TTTATTTAAG
Statistics
Matches: 132, Mismatches: 16, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
113 75 0.57
114 41 0.31
115 5 0.04
116 11 0.08
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (115 bp):
ATGTATTATGTAATTTATGTAAGTTGTGTATTATGTAAGTCATGTAGGCTATGTATTATGTAAGT
TATAAAGTTATTATATAAGTGATTAAAAATGTATTATATAAGTTATTAAA
Found at i:4562619 original size:21 final size:21
Alignment explanation
Indices: 4562595--4562664 Score: 77
Period size: 21 Copynumber: 3.1 Consensus size: 21
4562585 ATTAAAAATG
4562595 TATTATGTAATTTATTTAAGT
1 TATTATGTAATTTATTTAAGT
* **
4562616 TATTATGTAAGTTATGAAAGTTAT
1 TATTATGTAATTTATTTAAG---T
4562640 GTATTATGTAATTTATTTAAGT
1 -TATTATGTAATTTATTTAAGT
4562662 TAT
1 TAT
4562665 GTAAGTTGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
21 20 0.51
22 1 0.03
24 1 0.03
25 17 0.44
ACGTcount: A:0.34, C:0.00, G:0.13, T:0.53
Consensus pattern (21 bp):
TATTATGTAATTTATTTAAGT
Found at i:4562680 original size:25 final size:25
Alignment explanation
Indices: 4562627--4562714 Score: 72
Period size: 25 Copynumber: 3.5 Consensus size: 25
4562617 ATTATGTAAG
* *
4562627 TTATGAAAGTTATGT-A-TTATGTAA
1 TTATGTAAGTTATGTAAGCTATGT-A
* * *
4562651 TTTATTTAAGTTATGTAAGTTGTGTA
1 -TTATGTAAGTTATGTAAGCTATGTA
* * *
4562677 TTATGCAAGTCATGTAGGCTATGTA
1 TTATGTAAGTTATGTAAGCTATGTA
4562702 TTATGTAAGTTAT
1 TTATGTAAGTTAT
4562715 TATGTTATTA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
25 43 0.86
26 2 0.04
27 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.19, T:0.47
Consensus pattern (25 bp):
TTATGTAAGTTATGTAAGCTATGTA
Found at i:4562816 original size:30 final size:31
Alignment explanation
Indices: 4562746--4562817 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
4562736 AAAGTTATAT
*
4562746 ATAAGTTATTAAAAATATATATAAATTTTTA
1 ATAAGTTATTAAAAATATATATAAATTATTA
*
4562777 AT-A-TATATTAAAAATGTATATAAA-TATTA
1 ATAAGT-TATTAAAAATATATATAAATTATTA
4562806 ATAAGTTATTAA
1 ATAAGTTATTAA
4562818 GTTATATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
29 7 0.19
30 26 0.72
31 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (31 bp):
ATAAGTTATTAAAAATATATATAAATTATTA
Found at i:4562827 original size:23 final size:22
Alignment explanation
Indices: 4562800--4562844 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
4562790 ATGTATATAA
*
4562800 ATATTAATAAGTTATTAAGTTAT
1 ATATTAAAAAGTTA-TAAGTTAT
*
4562823 ATATTAAAAATTTATAAGTTAT
1 ATATTAAAAAGTTATAAGTTAT
4562845 GTAAATTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (22 bp):
ATATTAAAAAGTTATAAGTTAT
Found at i:4562840 original size:30 final size:30
Alignment explanation
Indices: 4562793--4562853 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
4562783 ATTAAAAATG
* *
4562793 TATATAAATATTAATAAGTTAT-TAAGTTA
1 TATATAAAAATTAATAAGTTATGTAAATTA
*
4562822 TATATTAAAAATTTATAAGTTATGTAAATTA
1 TATA-TAAAAATTAATAAGTTATGTAAATTA
4562853 T
1 T
4562854 GCAAGTTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 4 0.15
30 16 0.59
31 7 0.26
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (30 bp):
TATATAAAAATTAATAAGTTATGTAAATTA
Found at i:4564544 original size:22 final size:22
Alignment explanation
Indices: 4564519--4564568 Score: 100
Period size: 22 Copynumber: 2.3 Consensus size: 22
4564509 AGTGCCTACA
4564519 CTAAAAAAGGTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
4564541 CTAAAAAAGGTTCAAAGTTGCC
1 CTAAAAAAGGTTCAAAGTTGCC
4564563 CTAAAA
1 CTAAAA
4564569 TAAACTTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.22
Consensus pattern (22 bp):
CTAAAAAAGGTTCAAAGTTGCC
Found at i:4565361 original size:65 final size:64
Alignment explanation
Indices: 4565276--4565406 Score: 217
Period size: 65 Copynumber: 2.0 Consensus size: 64
4565266 AAAATATTAT
* * *
4565276 TTCATTTTGAACAAAATGACGCCGTTTTGCTATGCACAAAAATTTTTATTTTGTTTTTTTATAAA
1 TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAAATTTTTATTTTG-TTTTTTATAAA
*
4565341 TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAATTTTTTATTTTGTTTTTTATAAA
1 TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAAATTTTTATTTTGTTTTTTATAAA
4565405 TT
1 TT
4565407 GATTTACTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
64 13 0.21
65 49 0.79
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.47
Consensus pattern (64 bp):
TTCAATTTGAACAAAATGACGCAGTTTTACTATGCACAAAAATTTTTATTTTGTTTTTTATAAA
Found at i:4565662 original size:137 final size:137
Alignment explanation
Indices: 4565490--4565759 Score: 409
Period size: 137 Copynumber: 2.0 Consensus size: 137
4565480 ATGTAGATAA
* * * *
4565490 TTTTTTATAATTTATTTATTTTTTTGCAACGTTTTTATATAAAACGCCGCTA-TTGCTTATCTTT
1 TTTTCTATAATTGATTTATTTTTTTGCAACATTTTTATAGAAAACGCCGCTATTTG-TTATCTTT
*
4565554 TGCAGCGTTTTTGTGAAAAACGCCGCAAAATATTATTTCATTTTCAACAAAATGACGCCGTTTTG
65 TGCAGCGTTTTTATGAAAAACGCCGCAAAATATTATTTCATTTTCAACAAAATGACGCCGTTTTG
4565619 CTATTTTG
130 CTATTTTG
**
4565627 TTTTCTATAAATTGATTTA-TTTTTTGCGGCATTTTTATAGAAAACGCCGCTATTTGTTATCTTT
1 TTTTCTAT-AATTGATTTATTTTTTTGCAACATTTTTATAGAAAACGCCGCTATTTGTTATCTTT
* * * *
4565691 TGCGGCGTTTTTATGCAAAACGCCGCAAAATATTATTTCATTTTGAACAAAATGATGCCGTTTTG
65 TGCAGCGTTTTTATGAAAAACGCCGCAAAATATTATTTCATTTTCAACAAAATGACGCCGTTTTG
4565756 CTAT
130 CTAT
4565760 GCTAAATTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
137 108 0.90
138 12 0.10
ACGTcount: A:0.26, C:0.15, G:0.14, T:0.45
Consensus pattern (137 bp):
TTTTCTATAATTGATTTATTTTTTTGCAACATTTTTATAGAAAACGCCGCTATTTGTTATCTTTT
GCAGCGTTTTTATGAAAAACGCCGCAAAATATTATTTCATTTTCAACAAAATGACGCCGTTTTGC
TATTTTG
Found at i:4566753 original size:115 final size:114
Alignment explanation
Indices: 4566546--4567103 Score: 633
Period size: 115 Copynumber: 4.9 Consensus size: 114
4566536 TTTTTTTTTT
* * * *
4566546 GCGGCGCTTTCTTAAAAAACGCCGCTAAATCCCCCAAAAGCTCAGAAAACGACGTCGTTGGGTTT
1 GCGGCGCTTTCTTAAAAAACGCCACTAAAT-CCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTT
* * * * ** *
4566611 ATGTCTTTTTGCGGTGCTTCCTAAAAAACGCTACTAAAGCCCTCAGCATTA
65 A-GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * *
4566662 GCGGCGCTTTATTAAGAATCGCCACTAAATCTACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
4566727 GTTTATTTTGCGGCGCTTTATCAAAAACGCCGCAAAAGCCCTGAGCATTA
66 GTTT-TTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
* * * * *
4566777 GCGGCGC-TTCCT-AAAAACGCCACTAAATCCACGAATGCTCAGAAAACGGCATCTTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* *
4566840 GTTTATTTTGCGGCGC-TTCATCAAAAACGCCGCTAAAGCCCTTAGTATTA
66 GTTT-TTTTGCGGCGCTTTC-TCAAAAACGCCGCTAAAGCCCTGAGCATTA
* ** * * **
4566890 GCGGC-CTTTCTTAAGAAACGCCGTTAAGTCCCCAAAAGCTCAGAAAACGGCACCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
* * *
4566954 TGTCTTTTTGCGGCGCTTTCTCAACAACGCCGCTAAAAGCCTTGAGCATTA
66 -GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCT-AAAGCCCTGAGCATTA
* ** * *
4567005 GCGGCGCTTAC-TAAAAAACGCCACTAAATCTGCGAAAGCTCAGAATACGGCGTCGTTGGGCTTA
1 GCGGCGCTTTCTTAAAAAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTT-
* *
4567069 AG-TTTTTTGCGGCGCTTTCTGAAAAACGCTGCTAA
65 AGTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAA
4567104 TGCTTTTTTT
Statistics
Matches: 373, Mismatches: 60, Indels: 21
0.82 0.13 0.05
Matches are distributed among these distances:
112 3 0.01
113 98 0.26
114 99 0.27
115 142 0.38
116 31 0.08
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCTTAAAAAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTA
GTTTTTTTGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTA
Found at i:4567002 original size:228 final size:227
Alignment explanation
Indices: 4566546--4567103 Score: 692
Period size: 228 Copynumber: 2.4 Consensus size: 227
4566536 TTTTTTTTTT
* * * * * *
4566546 GCGGCGCTTTCTTAAAAAACGCCGCTAAATCCCCCAAAAGCTCAGAAAACGACGTCGTTGGGTTT
1 GCGGCGC-TTCCTAAAAAACGCCACTAAAT-CCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTT
* * *
4566611 ATGTCTTTTTGCGGTGCTTCCTAAAAAACGCTACTAAAGCCCTCAGCATTAGCGGCGCTTTATTA
64 A-GTTTTTTTGCGGCGCTT-CTAAAAAACGCTGCTAAAGCCCTCAGCATTAGCGGCGCTTTATTA
* * ** *
4566676 AGAATCGCCACTAAATCTACAAAAGCTCAGAAAACGGCGTCGTTGGGCTTAGTTTATTTTGCGGC
127 AGAAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTCTATTTTGCGGC
4566741 GCTTTATCAAAAACGCCGCAAAAGCCCTGAGCATTA
192 GCTTTATCAAAAACGCCGCAAAAGCCCTGAGCATTA
* * *
4566777 GCGGCGCTTCCT-AAAAACGCCACTAAATCCACGAATGCTCAGAAAACGGCATCTTTGGGCTTAG
1 GCGGCGCTTCCTAAAAAACGCCACTAAATCCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
* * * * *
4566841 TTTATTTTGCGGCGCTTCATCAAAAACGCCGCTAAAGCCCTTAGTATTAGCGGC-CTTTCTTAAG
66 TTT-TTTTGCGGCGCTTC-TAAAAAACGCTGCTAAAGCCCTCAGCATTAGCGGCGCTTTATTAAG
** * *
4566905 AAACGCCGTTAAGTCCCCAAAAGCTCAGAAAACGGCACCGTTGGGCTTATGTCT-TTTTGCGGCG
129 AAACGCCACTAAATCCACAAAAGCTCAGAAAACGGCACCGTTGGGCTTA-GTCTATTTTGCGGCG
* * *
4566969 CTTTCTCAACAACGCCGCTAAAAGCCTTGAGCATTA
193 CTTTATCAAAAACGCCGC-AAAAGCCCTGAGCATTA
* ** *
4567005 GCGGCGCTTACTAAAAAACGCCACTAAATCTGCGAAAGCTCAGAATACGGCGTCGTTGGGCTTAA
1 GCGGCGCTTCCTAAAAAACGCCACTAAATCCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTT-A
*
4567070 G-TTTTTTGCGGCGCTTTCTGAAAAACGCTGCTAA
65 GTTTTTTTGCGGCGC-TTCTAAAAAACGCTGCTAA
4567104 TGCTTTTTTT
Statistics
Matches: 282, Mismatches: 38, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
227 80 0.28
228 125 0.44
229 64 0.23
230 6 0.02
231 7 0.02
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (227 bp):
GCGGCGCTTCCTAAAAAACGCCACTAAATCCACGAAAGCTCAGAAAACGGCGTCGTTGGGCTTAG
TTTTTTTGCGGCGCTTCTAAAAAACGCTGCTAAAGCCCTCAGCATTAGCGGCGCTTTATTAAGAA
ACGCCACTAAATCCACAAAAGCTCAGAAAACGGCACCGTTGGGCTTAGTCTATTTTGCGGCGCTT
TATCAAAAACGCCGCAAAAGCCCTGAGCATTA
Found at i:4567830 original size:20 final size:20
Alignment explanation
Indices: 4567805--4567844 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4567795 TCTTTGATAC
4567805 TTCAAAAAAAAATTTAAAGT
1 TTCAAAAAAAAATTTAAAGT
**
4567825 TTCAAAAAAACTTTTAAAGT
1 TTCAAAAAAAAATTTAAAGT
4567845 CAGTAGTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (20 bp):
TTCAAAAAAAAATTTAAAGT
Found at i:4568657 original size:16 final size:17
Alignment explanation
Indices: 4568636--4568673 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
4568626 AATATAAATT
*
4568636 AATATAATTATTATT-A
1 AATATAATTATAATTAA
4568652 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
4568668 AATATA
1 AATATA
4568674 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:4568681 original size:14 final size:15
Alignment explanation
Indices: 4568632--4568683 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
4568622 GTAAAATATA
4568632 AATT-AATATAATTAT
1 AATTAAATAT-ATTAT
*
4568647 TATTAAATATATTAT
1 AATTAAATATATTAT
4568662 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
4568675 AATTTAATA
1 AATTAAATA
4568684 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 14 0.44
16 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:4568686 original size:59 final size:59
Alignment explanation
Indices: 4568623--4568822 Score: 160
Period size: 59 Copynumber: 3.3 Consensus size: 59
4568613 TATGATACTG
*
4568623 TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
1 TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
* * * * * *
4568682 TAAAATTCTTAA-TAAT-TAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATATT-
1 TAAAA-TATAAATTAATATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTA
4568742 A
59 A
* * * *
4568743 TAAAAGATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 TAAAATATAAATT-AATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
* *
4568802 TAAAATTTAAAATAATTATAA
1 TAAAATATAAATTAA-TATAA
4568823 CTAATAAATT
Statistics
Matches: 105, Mismatches: 21, Indels: 29
0.68 0.14 0.19
Matches are distributed among these distances:
57 10 0.10
58 11 0.10
59 34 0.32
60 10 0.10
61 21 0.20
62 10 0.10
63 9 0.09
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
Found at i:4568856 original size:47 final size:46
Alignment explanation
Indices: 4568790--4568956 Score: 146
Period size: 47 Copynumber: 3.6 Consensus size: 46
4568780 TTAATTAAAA
*
4568790 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTATCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTATCT
* * * * * *
4568837 TATATGAATTTGTATAATTTAAAATAATTATTATTACATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
* * * *
4568882 TA-AT-AATAATATATAATTTCATAA-AATTCTTAATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTATCT
*
4568928 TATATGAATTTATACAATTTAAAATAATT
1 TATATGAATTTATATAATTTAAAATAATT
4568957 CGGATCAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
43 3 0.03
44 15 0.16
45 14 0.15
46 13 0.14
47 40 0.43
48 7 0.08
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTATCT
Found at i:4568878 original size:26 final size:28
Alignment explanation
Indices: 4568849--4568920 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
4568839 TATGAATTTG
*
4568849 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
4568875 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
4568903 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
4568921 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:4569116 original size:22 final size:22
Alignment explanation
Indices: 4569088--4569132 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
4569078 ACTAAGCTTG
4569088 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
4569110 AATTTCATTAAATTACTTTCAA
1 AATTTCATTAAATTACTTTCAA
4569132 A
1 A
4569133 GTTAAGGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.42, C:0.13, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTCATTAAATTACTTTCAA
Found at i:4578477 original size:4 final size:4
Alignment explanation
Indices: 4578468--4578519 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
4578458 CTTTTTCAGA
4578468 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4578516 TATG
1 TATG
4578520 ATCTTTTACT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4582301 original size:4 final size:4
Alignment explanation
Indices: 4582292--4582319 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
4582282 CCATGTGATC
4582292 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT
4582320 GAACATACGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:4584273 original size:16 final size:16
Alignment explanation
Indices: 4584252--4584283 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4584242 TTTGATTCAC
4584252 AGAGAATGGAATTTAT
1 AGAGAATGGAATTTAT
4584268 AGAGAATGGAATTTAT
1 AGAGAATGGAATTTAT
4584284 CTTTTTGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.25, T:0.31
Consensus pattern (16 bp):
AGAGAATGGAATTTAT
Found at i:4586576 original size:3 final size:3
Alignment explanation
Indices: 4586568--4586608 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
4586558 CTTAATAAAT
*
4586568 TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
4586609 TCTTCCTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:4592995 original size:13 final size:14
Alignment explanation
Indices: 4592965--4592997 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4592955 TTTTATACTG
4592965 ATTTTTTTAATTTA
1 ATTTTTTTAATTTA
*
4592979 ATTTTTTTCATTT-
1 ATTTTTTTAATTTA
4592992 ATTTTT
1 ATTTTT
4592998 CTAAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (14 bp):
ATTTTTTTAATTTA
Found at i:4593553 original size:6 final size:6
Alignment explanation
Indices: 4593542--4593568 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4593532 ATGTGTGATC
4593542 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
4593569 ATCACTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:4606255 original size:15 final size:15
Alignment explanation
Indices: 4606235--4606285 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4606225 TTTATGGAAA
4606235 ATCAAAGATATGGGT
1 ATCAAAGATATGGGT
* * **
4606250 ATCAAATA-ATAGAA
1 ATCAAAGATATGGGT
4606264 AGTCAAAGATATGGGT
1 A-TCAAAGATATGGGT
4606280 ATCAAA
1 ATCAAA
4606286 TATTGAGATA
Statistics
Matches: 26, Mismatches: 8, Indels: 4
0.68 0.21 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.69
16 4 0.15
ACGTcount: A:0.49, C:0.08, G:0.20, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATGGGT
Found at i:4606272 original size:30 final size:30
Alignment explanation
Indices: 4606231--4606287 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
4606221 CATATTTATG
4606231 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAATCAAAGATATGGGTATCAAATAATA
*
4606261 GAAAGTCAAAGATATGGGTATCAAATA
1 GAAAATCAAAGATATGGGTATCAAATA
4606288 TTGAGATATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.51, C:0.07, G:0.19, T:0.23
Consensus pattern (30 bp):
GAAAATCAAAGATATGGGTATCAAATAATA
Found at i:4606296 original size:21 final size:21
Alignment explanation
Indices: 4606270--4606311 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
4606260 AGAAAGTCAA
4606270 AGATATGGGTATCAAATATTG
1 AGATATGGGTATCAAATATTG
4606291 AGATATGGGTATCAAATATTG
1 AGATATGGGTATCAAATATTG
4606312 GAAAGTCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (21 bp):
AGATATGGGTATCAAATATTG
Found at i:4606300 original size:51 final size:52
Alignment explanation
Indices: 4606240--4606342 Score: 172
Period size: 51 Copynumber: 2.0 Consensus size: 52
4606230 GGAAAATCAA
4606240 AGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATC-AAATATTG
1 AGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATTG
* * *
4606291 AGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATTG
1 AGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATTG
4606343 GCATAATAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 41 0.85
52 7 0.15
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (52 bp):
AGATATGGGTATCAAATAATAGAAAGTCAAAGATATGGGTATCGAAATATTG
Found at i:4610951 original size:30 final size:30
Alignment explanation
Indices: 4610910--4610966 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
4610900 CATATTTATG
*
4610910 GAAAATCAAAGATATGGGTATCAAATAATA
1 GAAAATCAAAGATATAGGTATCAAATAATA
*
4610940 GAAAGTCAAAGATATAGGTATCAAATA
1 GAAAATCAAAGATATAGGTATCAAATA
4610967 TTGAGATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.53, C:0.07, G:0.18, T:0.23
Consensus pattern (30 bp):
GAAAATCAAAGATATAGGTATCAAATAATA
Found at i:4610963 original size:15 final size:15
Alignment explanation
Indices: 4610914--4610964 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
4610904 TTTATGGAAA
*
4610914 ATCAAAGATATGGGT
1 ATCAAAGATATAGGT
* **
4610929 ATCAAATA-ATAGAA
1 ATCAAAGATATAGGT
4610943 AGTCAAAGATATAGGT
1 A-TCAAAGATATAGGT
4610959 ATCAAA
1 ATCAAA
4610965 TATTGAGATA
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
14 4 0.15
15 18 0.67
16 5 0.19
ACGTcount: A:0.51, C:0.08, G:0.18, T:0.24
Consensus pattern (15 bp):
ATCAAAGATATAGGT
Found at i:4610975 original size:21 final size:21
Alignment explanation
Indices: 4610949--4610990 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
4610939 AGAAAGTCAA
4610949 AGATATAGGTATCAAATATTG
1 AGATATAGGTATCAAATATTG
*
4610970 AGATATGGGTATCAAATATTG
1 AGATATAGGTATCAAATATTG
4610991 GAAAGTCAAA
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:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (21 bp):
AGATATAGGTATCAAATATTG
Found at i:4610995 original size:51 final size:52
Alignment explanation
Indices: 4610919--4611021 Score: 163
Period size: 51 Copynumber: 2.0 Consensus size: 52
4610909 GGAAAATCAA
4610919 AGATATGGGTATCAAATAATAGAAAGTCAAAGATATAGGTATC-AAATATTG
1 AGATATGGGTATCAAATAATAGAAAGTCAAAGATATAGGTATCGAAATATTG
* * * *
4610970 AGATATGGGTATCAAATATTGGAAAGTCAAAGATATGGGTATCGAGATATTG
1 AGATATGGGTATCAAATAATAGAAAGTCAAAGATATAGGTATCGAAATATTG
4611022 GCATAATAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 40 0.85
52 7 0.15
ACGTcount: A:0.43, C:0.06, G:0.23, T:0.28
Consensus pattern (52 bp):
AGATATGGGTATCAAATAATAGAAAGTCAAAGATATAGGTATCGAAATATTG
Found at i:4612484 original size:24 final size:24
Alignment explanation
Indices: 4612448--4612505 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
4612438 GTAGTTCAGG
* *
4612448 TACAGAATCAGATGCATGATCAAA
1 TACAAAATCAGATGCATAATCAAA
*
4612472 TACAAAATTAGATGCATAATCAAA
1 TACAAAATCAGATGCATAATCAAA
*
4612496 TACAGAATCA
1 TACAAAATCA
4612506 TATCCTACCC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.50, C:0.16, G:0.12, T:0.22
Consensus pattern (24 bp):
TACAAAATCAGATGCATAATCAAA
Found at i:4624258 original size:178 final size:179
Alignment explanation
Indices: 4623955--4624286 Score: 488
Period size: 178 Copynumber: 1.9 Consensus size: 179
4623945 CAATTGCACT
* * * * *
4623955 CTAATTACAGTGGTTATATAAACGTGCCACAAATGTGTAACTACAAGTAAATGCACCTTAAATCC
1 CTAATTACAATGGCTATACAAACATGCCACAAATGTGTAACTACAAGTAAATACACCTTAAATCC
** * * *
4624020 AATTATTAACTGGTTTTCCAAACACACCTTAAAAGTATTCAATTGTCATTTATCACTAATACAAT
66 AATTATTAACTGACTTTCCAAACACACCCTAAAAGTATTCAATTGACATATATCACTAATACAAT
4624085 TAGTAATTAGATTTGGATACTCCACTTACATTCCATTCAGTGGAACAAG
131 TAGTAATTAGATTTGGATACTCCACTTACATTCCATTCAGTGGAACAAG
* * * *
4624134 CTAATTACAATGGCTATCCAAACATGTCACAAATGTGTAATTACAAGTAAATACACC-TAGATCC
1 CTAATTACAATGGCTATACAAACATGCCACAAATGTGTAACTACAAGTAAATACACCTTAAATCC
* *
4624198 AATTATTACCTGACTTTCCAAACACGCCCTAAAAGTGATTCAATT-ACATATATCACTAATACAA
66 AATTATTAACTGACTTTCCAAACACACCCTAAAAGT-ATTCAATTGACATATATCACTAATACAA
*
4624262 TTAGTAATTGGATTTGGATACTCCA
130 TTAGTAATTAGATTTGGATACTCCA
4624287 ATGACACTCA
Statistics
Matches: 135, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
178 78 0.58
179 57 0.42
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (179 bp):
CTAATTACAATGGCTATACAAACATGCCACAAATGTGTAACTACAAGTAAATACACCTTAAATCC
AATTATTAACTGACTTTCCAAACACACCCTAAAAGTATTCAATTGACATATATCACTAATACAAT
TAGTAATTAGATTTGGATACTCCACTTACATTCCATTCAGTGGAACAAG
Found at i:4629328 original size:5 final size:5
Alignment explanation
Indices: 4629318--4629343 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4629308 GAAAGGATAA
4629318 AAATC AAATC AAATC AAATC AAATC A
1 AAATC AAATC AAATC AAATC AAATC A
4629344 TATTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATC
Found at i:4634793 original size:17 final size:18
Alignment explanation
Indices: 4634770--4634823 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
4634760 TTTTTTTAGA
*
4634770 ATTTAAAAATT-CAAATT
1 ATTTAAAAATTAAAAATT
* *
4634787 TTTTAAAATTTAAAAATT
1 ATTTAAAAATTAAAAATT
4634805 ATTTAAAAAGTATAAAAAT
1 ATTTAAAAA-T-TAAAAAT
4634824 ATAAAACTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 9 0.31
18 12 0.41
19 1 0.03
20 7 0.24
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (18 bp):
ATTTAAAAATTAAAAATT
Found at i:4646946 original size:8 final size:8
Alignment explanation
Indices: 4646933--4646961 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
4646923 CCCACTCTCC
4646933 TCCTTCAT
1 TCCTTCAT
4646941 TCCTTCAT
1 TCCTTCAT
4646949 TCCTTCAT
1 TCCTTCAT
4646957 TCCTT
1 TCCTT
4646962 TCTGTCGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.38, G:0.00, T:0.52
Consensus pattern (8 bp):
TCCTTCAT
Found at i:4655748 original size:4 final size:4
Alignment explanation
Indices: 4655739--4655769 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
4655729 ATCTCAAGTT
4655739 AAAG AAAG AAAG AAAG AAAG AAAG AAA- AAAG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
4655770 TTATATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:4658521 original size:23 final size:24
Alignment explanation
Indices: 4658489--4658534 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4658479 CATAGTAAGA
*
4658489 TTAGAACC-TTGACATGTTTCATT
1 TTAGAACCTTTAACATGTTTCATT
*
4658512 TTAGACCCTTTAACATGTTTCAT
1 TTAGAACCTTTAACATGTTTCAT
4658535 CTTCTTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (24 bp):
TTAGAACCTTTAACATGTTTCATT
Found at i:4662200 original size:16 final size:16
Alignment explanation
Indices: 4662176--4662212 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
4662166 TCAACGCACT
* *
4662176 CAATCATATAATACAG
1 CAATGATATAATACAA
4662192 CAATGATATAATACAA
1 CAATGATATAATACAA
4662208 CAATG
1 CAATG
4662213 TATGGAGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.24
Consensus pattern (16 bp):
CAATGATATAATACAA
Found at i:4670333 original size:22 final size:25
Alignment explanation
Indices: 4670283--4670335 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
4670273 ATACATAATG
* *
4670283 TAATTATTATATTTTATTACCAATT
1 TAATTATTATATTTTATTAACAATA
4670308 TAATTATTAT-TTTT-TTAACAA-A
1 TAATTATTATATTTTATTAACAATA
4670330 TAATTA
1 TAATTA
4670336 ATCAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 6 0.23
23 6 0.23
24 4 0.15
25 10 0.38
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (25 bp):
TAATTATTATATTTTATTAACAATA
Found at i:4671247 original size:18 final size:18
Alignment explanation
Indices: 4671224--4671266 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
4671214 GAATAGGGTT
4671224 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
4671242 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
4671260 TTAATTA
1 TTAATTA
4671267 CACCTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:4674367 original size:3 final size:3
Alignment explanation
Indices: 4674353--4674391 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
4674343 TATACATATA
* *
4674353 CAT CAA CAT CAT CAT CAT CAT CAC CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
4674392 TCACAAGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (3 bp):
CAT
Found at i:4679527 original size:18 final size:17
Alignment explanation
Indices: 4679504--4679537 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4679494 TTCTAAAAAA
4679504 CATTTTTAGGATATAAAT
1 CATTTTT-GGATATAAAT
*
4679522 CATTTTTTGATATAAA
1 CATTTTTGGATATAAA
4679538 GATATTGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (17 bp):
CATTTTTGGATATAAAT
Found at i:4680266 original size:98 final size:98
Alignment explanation
Indices: 4680097--4680287 Score: 337
Period size: 98 Copynumber: 1.9 Consensus size: 98
4680087 ATACAATAAA
* *
4680097 ACTTTAAAAGAATATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATC
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
*
4680162 CCTTTAGAATCCCAAACTCGGAATATTTACTTT
66 CCTTTAGAATCACAAACTCGGAATATTTACTTT
* *
4680195 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
4680260 CCTTTAGAATCACAAACTCGGAATATTT
66 CCTTTAGAATCACAAACTCGGAATATTT
4680288 CCTTCATGAT
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 88 1.00
ACGTcount: A:0.38, C:0.24, G:0.11, T:0.27
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTCATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATC
CCTTTAGAATCACAAACTCGGAATATTTACTTT
Found at i:4680998 original size:25 final size:26
Alignment explanation
Indices: 4680968--4681017 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
4680958 ATATAAATAT
4680968 GAAAATATTC-ATTAAAAAAATATAG
1 GAAAATATTCGATTAAAAAAATATAG
* *
4680993 GAAAATATTCGTTTTAAAAAATATA
1 GAAAATATTCGATTAAAAAAATATA
4681018 TATACATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.56, C:0.04, G:0.08, T:0.32
Consensus pattern (26 bp):
GAAAATATTCGATTAAAAAAATATAG
Found at i:4681786 original size:29 final size:29
Alignment explanation
Indices: 4681752--4681812 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
4681742 GTATCTACAA
4681752 ATTAAATCTCTAAGATTACAAAATCATAT
1 ATTAAATCTCTAAGATTACAAAATCATAT
4681781 ATTAAATCTCTAAGATTACAAAATCATAT
1 ATTAAATCTCTAAGATTACAAAATCATAT
4681810 ATT
1 ATT
4681813 CTAATATTGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.36
Consensus pattern (29 bp):
ATTAAATCTCTAAGATTACAAAATCATAT
Found at i:4681845 original size:19 final size:19
Alignment explanation
Indices: 4681789--4681924 Score: 128
Period size: 19 Copynumber: 6.8 Consensus size: 19
4681779 ATATTAAATC
*
4681789 TCTAAGATTACAAAATCATATA
1 TCTAAGATTAC-ATATC--ATA
* *
4681811 TTCTAATATTGCATATCATA
1 -TCTAAGATTACATATCATA
*
4681831 TCTAAGATTATATATCATA
1 TCTAAGATTACATATCATA
* *
4681850 TCTAATATTGCATATCATA
1 TCTAAGATTACATATCATA
*
4681869 TCTAAGATTGCATATGTCATA
1 TCTAAGATTACATA--TCATA
** *
4681890 TCTTGGATTGCATATCATA
1 TCTAAGATTACATATCATA
4681909 TCTAAGATTACATATC
1 TCTAAGATTACATATC
4681925 CTAAAAAATT
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
19 63 0.66
20 3 0.03
21 17 0.18
22 4 0.04
23 9 0.09
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.40
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:4681859 original size:38 final size:38
Alignment explanation
Indices: 4681812--4681924 Score: 163
Period size: 40 Copynumber: 2.9 Consensus size: 38
4681802 AATCATATAT
4681812 TCTAATATTGCATATCATATCTAAGATTATATATCATA
1 TCTAATATTGCATATCATATCTAAGATTATATATCATA
*
4681850 TCTAATATTGCATATCATATCTAAGATTGCATATGTCATA
1 TCTAATATTGCATATCATATCTAAGATT--ATATATCATA
*** *
4681890 TCTTGGATTGCATATCATATCTAAGATTACATATC
1 TCTAATATTGCATATCATATCTAAGATTATATATC
4681925 CTAAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
38 33 0.49
40 34 0.51
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (38 bp):
TCTAATATTGCATATCATATCTAAGATTATATATCATA
Found at i:4704537 original size:8 final size:8
Alignment explanation
Indices: 4704518--4704546 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
4704508 TGGGTTAAAA
4704518 TTAAAA-T
1 TTAAAATT
4704525 TTAAAATT
1 TTAAAATT
4704533 TTAAAATT
1 TTAAAATT
4704541 TTAAAA
1 TTAAAA
4704547 AAATATTAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 6 0.29
8 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TTAAAATT
Found at i:4715238 original size:29 final size:28
Alignment explanation
Indices: 4715190--4715251 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 28
4715180 CAACTTAACA
4715190 AACAAATACCTAAAATAATAAC-AAATT
1 AACAAATACCTAAAATAATAACAAAATT
4715217 AACAAATACCTCTAAAATAATAACAAAATT
1 AACAAATA-C-CTAAAATAATAACAAAATT
4715247 AACAA
1 AACAA
4715252 TAAAGCAAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
27 8 0.25
28 1 0.03
29 13 0.41
30 10 0.31
ACGTcount: A:0.63, C:0.16, G:0.00, T:0.21
Consensus pattern (28 bp):
AACAAATACCTAAAATAATAACAAAATT
Found at i:4724077 original size:38 final size:38
Alignment explanation
Indices: 4724035--4724141 Score: 171
Period size: 38 Copynumber: 2.8 Consensus size: 38
4724025 CACTATTTTA
*
4724035 TATGAGTGATAAAAGTAAGTTTGTTTGTTATGTAAAA-G
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTATG-AAAATG
*
4724073 TATGAGTCATAAAAATAAGTTTGTTTGTTATGAAAATG
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTATGAAAATG
*
4724111 TATGAGTCAAAAAAGTAAGTTTGTTTGTTAT
1 TATGAGTCATAAAAGTAAGTTTGTTTGTTAT
4724142 ACGAGTCATA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
37 4 0.06
38 60 0.94
ACGTcount: A:0.37, C:0.02, G:0.21, T:0.40
Consensus pattern (38 bp):
TATGAGTCATAAAAGTAAGTTTGTTTGTTATGAAAATG
Found at i:4730598 original size:7 final size:7
Alignment explanation
Indices: 4730586--4730619 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
4730576 TTTGATAAAA
4730586 ATATATT
1 ATATATT
4730593 ATATATT
1 ATATATT
4730600 ATATATT
1 ATATATT
4730607 ATATATT
1 ATATATT
4730614 ATATAT
1 ATATAT
4730620 AAAGACAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
ATATATT
Found at i:4736774 original size:46 final size:44
Alignment explanation
Indices: 4736671--4737032 Score: 391
Period size: 46 Copynumber: 8.6 Consensus size: 44
4736661 TACGTATGAT
*
4736671 CACTTATCAC-TTATC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTA-GCTAC
4736714 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
*
4736760 CACTTATCACTTTTTCACTTAATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-A-GCTAC
4736806 CACTTATCA-TTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTT-TCACTTGATCAGATAAGTGTAGCT--AGCTAC
*
4736852 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
4736888 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
4736924 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TAG----
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
*
4736960 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTTC
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT--AGCTAC
* *
4737006 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
4737033 AGTACTCAAA
Statistics
Matches: 294, Mismatches: 9, Indels: 29
0.89 0.03 0.09
Matches are distributed among these distances:
36 101 0.34
38 3 0.01
40 3 0.01
42 3 0.01
43 10 0.03
44 7 0.02
45 25 0.09
46 138 0.47
47 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (44 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAGCTAC
Found at i:4736824 original size:92 final size:82
Alignment explanation
Indices: 4736806--4737032 Score: 332
Period size: 72 Copynumber: 2.9 Consensus size: 82
4736796 CTGAGGCTAC
*
4736806 CACTTATCA-TTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCAC
1 CACTTATCACTTTT-TCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCAC
4736870 TTGATCAGATAAGTATAG
65 TTGATCAGATAAGTATAG
*
4736888 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--T--AG----CACTTATCACTTTTTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
4736943 TGATCAGATAAGTATAG
66 TGATCAGATAAGTATAG
* *
4736960 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTTCCACTTATCACTTTATCTCT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
4737025 TGATCAGA
66 TGATCAGA
4737033 AGTACTCAAA
Statistics
Matches: 131, Mismatches: 3, Indels: 22
0.84 0.02 0.14
Matches are distributed among these distances:
72 65 0.50
74 3 0.02
76 3 0.02
78 3 0.02
80 3 0.02
82 50 0.38
83 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.12, T:0.37
Consensus pattern (82 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACT
TGATCAGATAAGTATAG
Found at i:4736893 original size:36 final size:36
Alignment explanation
Indices: 4736852--4736996 Score: 272
Period size: 36 Copynumber: 4.0 Consensus size: 36
4736842 CTAAAGCTAC
*
4736852 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
4736888 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
4736924 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
4736960 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
4736996 C
1 C
4736997 TAAAGCTTCC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 107 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:4740128 original size:3 final size:3
Alignment explanation
Indices: 4740099--4740150 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
4740089 GTATGTAAGT
* * *
4740099 ATA ATT ATA ATA CTA TATA AT- ATA ATA ATA ATA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4740144 ATA ATA A
1 ATA ATA A
4740151 CAACAAAAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 37 0.90
4 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:4741641 original size:44 final size:43
Alignment explanation
Indices: 4741584--4741849 Score: 264
Period size: 44 Copynumber: 6.0 Consensus size: 43
4741574 AGATAAGACT
*
4741584 TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATA
1 TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
* * * *** * *
4741627 TGCTATCTTTGATCTACTCCACCACCAGTATGGGGAGACAAAATC
1 TG-TTTCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATC
* *
4741672 TGTTTCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATT
1 TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
* * *** *
4741715 TGTTTTCTTTGATCTACTCCACCACCAGTATGGGGAGACAAGATC
1 TG-TTTCTTTGATCTACTTCA-CGCCAGTACATGAAGACAAGATC
4741760 TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
1 TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
* * ***
4741803 TGTTT-TATTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATC
1 TGTTTCT-TT-GATCTACTTC-ACGCCAGTACATGAAGACAAGATC
4741848 TG
1 TG
4741850 CTGCTTTTCA
Statistics
Matches: 178, Mismatches: 38, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
42 1 0.01
43 44 0.25
44 76 0.43
45 57 0.32
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (43 bp):
TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATC
Found at i:4741704 original size:88 final size:88
Alignment explanation
Indices: 4741571--4741849 Score: 434
Period size: 88 Copynumber: 3.2 Consensus size: 88
4741561 TGCAACTTTA
* * *
4741571 GGGAGATAAGA-CTTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGCTATCT
1 GGGAGACAAGATC-TGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGTTTTCT
4741635 TTGATCTACTCCACCACCAGTATG
65 TTGATCTACTCCACCACCAGTATG
* * *
4741659 GGGAGACAAAATCTGTTTCTTTGATCTACTTCATGCCAGTACATGAAGACAAGATTTGTTTTCTT
1 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGTTTTCTT
4741724 TGATCTACTCCACCACCAGTATG
66 TGATCTACTCCACCACCAGTATG
* *
4741747 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTATT
1 GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGTTTTCTT
* * *
4741812 CGATCTACTTCGCCACCAGTATG
66 TGATCTACTCCACCACCAGTATG
*
4741835 GGAAGACAAGATCTG
1 GGGAGACAAGATCTG
4741850 CTGCTTTTCA
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
88 175 0.99
89 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (88 bp):
GGGAGACAAGATCTGTTTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATATGTTTTCTT
TGATCTACTCCACCACCAGTATG
Found at i:4748266 original size:3 final size:3
Alignment explanation
Indices: 4748237--4748291 Score: 67
Period size: 3 Copynumber: 18.3 Consensus size: 3
4748227 GTATGTAAGT
* * *
4748237 ATA ATT ATA ATA CTA TATA AT- ATA ATA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4748282 ATA ATA ATA A
1 ATA ATA ATA A
4748292 CAACAAAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
2 2 0.05
3 40 0.91
4 2 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:4757937 original size:29 final size:28
Alignment explanation
Indices: 4757901--4757958 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
4757891 AATAAGATTT
* * **
4757901 TTTAAAAATATATGTATATTTATATATA
1 TTTAAAAAAAAATGTATAAGTATATATA
4757929 TTTACAAAAAAAATGTATAAGTATATATA
1 TTTA-AAAAAAAATGTATAAGTATATATA
4757958 T
1 T
4757959 AAAATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 4 0.16
29 21 0.84
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (28 bp):
TTTAAAAAAAAATGTATAAGTATATATA
Found at i:4758203 original size:3 final size:3
Alignment explanation
Indices: 4758195--4758224 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4758185 ATATGTATAG
4758195 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4758225 AATCATAGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4759933 original size:132 final size:132
Alignment explanation
Indices: 4759784--4760812 Score: 1704
Period size: 132 Copynumber: 7.8 Consensus size: 132
4759774 TCTTGTGGTT
* *
4759784 TTCAATCTACTCCACTGCTGCTCAGGG-AGATAGAATTACTGGCTTCAATGTACTCCACTGTAAC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAG-TAGAATTACTGGCTTCAATGTACTCCACTGTAAC
* * *
4759848 CACAGGGAGGTAAAATTCACCATCTTTGATATGCTCCACTACTACTTAGGGAGACAAGATCTGAA
65 CACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAA
4759913 ATC
130 ATC
*
4759916 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAGCC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * *
4759981 ACAGGAAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATTTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4760046 TC
131 TC
* ** *
4760048 TTCAATCTATTCTACTGCTGCTTAGGGAAGTAGAATTACTAGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * *
4760113 ACAAGGAGGTAAAATTCACCATATTTGATCTGCTCCACTACTGTTTGGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4760178 TC
131 TC
4760180 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
4760245 ACAGAGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4760310 TC
131 TC
4760312 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
4760377 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAAATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4760442 TC
131 TC
4760444 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* * * * * * *
4760509 ACAGGGAGGTAAAATTCACTATCTTCGATCTGCTTCACT-GT-CTATGCAGGAAGGCAATATCTG
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCT-TG--GGGAGACAAGATCTG
*
4760572 CAATC
128 AAATC
* * *
4760577 TTCAATCTATTCTACTGCTGCCCAGGGAAGTAGAATTATTGGCTTCCATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
*
4760642 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAAATCTGAAA
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
4760707 TC
131 TC
*
4760709 TTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
1 TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
* *
4760774 ACAGGGAGGTAAAATTCACCATCTTCGATCTGCTTCACT
66 ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACT
4760813 GTCTATGCAG
Statistics
Matches: 838, Mismatches: 53, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
130 2 0.00
131 3 0.00
132 712 0.85
133 116 0.14
134 3 0.00
135 2 0.00
ACGTcount: A:0.29, C:0.24, G:0.19, T:0.28
Consensus pattern (132 bp):
TTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTAACC
ACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCACTACTGCTTGGGGAGACAAGATCTGAAA
TC
Found at i:4760359 original size:43 final size:43
Alignment explanation
Indices: 4760311--4760503 Score: 115
Period size: 43 Copynumber: 4.4 Consensus size: 43
4760301 GATCTGAAAT
*
4760311 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
* * * * ***
4760354 CTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCAT
1 CTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATT-ACTGG
** * * ** * * * *
4760399 CTTTGATCTGCTCCACTACTG-CTTGGGGAG-ACAA-AATCTGAAAT
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTA-CTG---G
*
4760443 CTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
1 CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
*
4760486 CTTCAATGTACTCCACTG
1 CTTCAATCTACTCCACTG
4760504 TAACCACAGG
Statistics
Matches: 104, Mismatches: 35, Indels: 22
0.65 0.22 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 4 0.04
43 38 0.37
44 31 0.30
45 21 0.20
46 7 0.07
47 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (43 bp):
CTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGG
Found at i:4760533 original size:88 final size:87
Alignment explanation
Indices: 4760177--4760813 Score: 187
Period size: 88 Copynumber: 7.2 Consensus size: 87
4760167 AAGATCTGAA
* *
4760177 ATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATCTACTCCACTGT-
* *
4760242 ACCACAGAGAGGTAAAATTCACC
65 ACCACAGGGAGGTAAAATTCACT
** * * ** * * * * *
4760265 ATCTTTGATCTGCTCCACTACTG-CTTGGGGAG-ACAA-GATCTGAAATCTTCAATCTATTCCAC
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTA-CTG---GCTTCAATCTACTCCAC
* * *
4760327 TGCTGCC-CAGGGAAGTAGAATT-ACT
62 TG-TACCACAGGGAGGTAAAATTCACT
** * * * * *** ** *
4760352 GGCTTCAATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCAC-
1 ATCTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATT-ACTGGCTTCAATCTACTCCACT
*** ** * *
4760415 -TACTGCTTGGGGAGACAAAATCTGA-A
63 GTAC--CACAGGGAGGTAAAAT-TCACT
* *
4760441 ATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATCTACTCCACTGT-
4760506 ACCACAGGGAGGTAAAATTCACT
65 ACCACAGGGAGGTAAAATTCACT
* * * *** * * *
4760529 ATCTTCGATCTGCTTCACTGTCTATGCA-GGAAG--GCAA-TATCTGCAATCTTCAATCTATTCT
1 ATCTTCAATCTACTCCACTG-CTGCCCAGGGAAGTAG-AATTA-CTG---GCTTCAATCTACTCC
* * * *
4760590 ACTGCTGCC-CAGGGAAGTAGAATT-ATT
60 ACTG-TACCACAGGGAGGTAAAATTCACT
** * * * * * *** ** *
4760617 GGCTTCCATGTACTCCACTG-TAACCACAGGGAGGTAAAATTCACCATCTTTGATCTGCTCCAC-
1 ATCTTCAATCTACTCCACTGCT-GCC-CAGGGAAGTAGAATT-ACTGGCTTCAATCTACTCCACT
*** ** * *
4760680 -TACTGCTTGGGGAGACAAAATCTGA-A
63 GTAC--CACAGGGAGGTAAAAT-TCACT
* * *
4760706 ATCTTCAATCTATTCCACTGCTGCCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATCTACTCCACTGT-
*
4760771 ACCACAGGGAGGTAAAATTCACC
65 ACCACAGGGAGGTAAAATTCACT
* * *
4760794 ATCTTCGATCTGCTTCACTG
1 ATCTTCAATCTACTCCACTG
4760814 TCTATGCAGG
Statistics
Matches: 370, Mismatches: 134, Indels: 90
0.62 0.23 0.15
Matches are distributed among these distances:
85 5 0.01
86 11 0.03
87 61 0.16
88 174 0.47
89 82 0.22
90 31 0.08
91 4 0.01
92 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (87 bp):
ATCTTCAATCTACTCCACTGCTGCCCAGGGAAGTAGAATTACTGGCTTCAATCTACTCCACTGTA
CCACAGGGAGGTAAAATTCACT
Found at i:4761961 original size:7 final size:7
Alignment explanation
Indices: 4761942--4761985 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
4761932 TTAGCCTCTC
4761942 CATTTTT
1 CATTTTT
4761949 -ACTTTTT
1 CA-TTTTT
4761956 CATTTTT
1 CATTTTT
4761963 CA-TTTT
1 CATTTTT
4761969 CATCTTTT
1 CAT-TTTT
4761977 CATTTTT
1 CATTTTT
4761984 CA
1 CA
4761986 CATAACTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.16, C:0.18, G:0.00, T:0.66
Consensus pattern (7 bp):
CATTTTT
Found at i:4764916 original size:19 final size:19
Alignment explanation
Indices: 4764876--4764917 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
4764866 ATAATCTTTG
* *
4764876 ATGCATATGATGTAATGTA
1 ATGCAAATGATGAAATGTA
4764895 ATGCAAATGCATGAAATG-A
1 ATGCAAATG-ATGAAATGTA
4764914 ATGC
1 ATGC
4764918 GAAAAGAGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (19 bp):
ATGCAAATGATGAAATGTA
Found at i:4766783 original size:22 final size:24
Alignment explanation
Indices: 4766755--4766811 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
4766745 ATATATGTAT
*
4766755 ATGTATATATATTTACAAAA-A-A
1 ATGTATATATATATACAAAATATA
*
4766777 ATGTATAAGTATATATATAAAATATA
1 ATGTAT-A-TATATATACAAAATATA
4766803 ATGTATATA
1 ATGTATATA
4766812 AAAGTTAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 6 0.21
23 1 0.03
24 13 0.45
25 2 0.07
26 7 0.24
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (24 bp):
ATGTATATATATATACAAAATATA
Found at i:4767038 original size:3 final size:3
Alignment explanation
Indices: 4767030--4767056 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4767020 ATATGTATAG
4767030 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
4767057 AATCATAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:4771897 original size:7 final size:7
Alignment explanation
Indices: 4771885--4771919 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
4771875 AAGTAATCCT
4771885 TACAGGA
1 TACAGGA
4771892 TACAGGA
1 TACAGGA
4771899 TACAGGA
1 TACAGGA
4771906 TACAGGA
1 TACAGGA
4771913 TACAGGA
1 TACAGGA
4771920 ACCTGGAGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.43, C:0.14, G:0.29, T:0.14
Consensus pattern (7 bp):
TACAGGA
Found at i:4774391 original size:37 final size:37
Alignment explanation
Indices: 4774341--4774419 Score: 158
Period size: 37 Copynumber: 2.1 Consensus size: 37
4774331 CAAGGTTTGC
4774341 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
1 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
4774378 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
1 ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
4774415 ACTTC
1 ACTTC
4774420 ATCACAAACA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.38, G:0.08, T:0.30
Consensus pattern (37 bp):
ACTTCCACATCTTCCACACCCACATGCCTTATGAGTT
Found at i:4775332 original size:84 final size:84
Alignment explanation
Indices: 4775191--4775360 Score: 340
Period size: 84 Copynumber: 2.0 Consensus size: 84
4775181 ACAAGCTATA
4775191 CTTAGACTCAAAACCTTTTCCGACGACGGAACTCCAACTTCATCATCTAGTTCCTTAGACAAAGA
1 CTTAGACTCAAAACCTTTTCCGACGACGGAACTCCAACTTCATCATCTAGTTCCTTAGACAAAGA
4775256 TGAAAAATTACCATAATCT
66 TGAAAAATTACCATAATCT
4775275 CTTAGACTCAAAACCTTTTCCGACGACGGAACTCCAACTTCATCATCTAGTTCCTTAGACAAAGA
1 CTTAGACTCAAAACCTTTTCCGACGACGGAACTCCAACTTCATCATCTAGTTCCTTAGACAAAGA
4775340 TGAAAAATTACCATAATCT
66 TGAAAAATTACCATAATCT
4775359 CT
1 CT
4775361 CACCATCACA
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 86 1.00
ACGTcount: A:0.35, C:0.26, G:0.11, T:0.28
Consensus pattern (84 bp):
CTTAGACTCAAAACCTTTTCCGACGACGGAACTCCAACTTCATCATCTAGTTCCTTAGACAAAGA
TGAAAAATTACCATAATCT
Found at i:4778363 original size:23 final size:23
Alignment explanation
Indices: 4778293--4778376 Score: 97
Period size: 21 Copynumber: 3.9 Consensus size: 23
4778283 CCTGATTAGT
*
4778293 ATACGACACAT-AAGTGTCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
4778314 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
4778334 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
4778357 ATACGACACATAAAGTGCCT
1 ATACGACACATAAAGTGCCT
4778377 AATCGGCAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 9 0.17
21 22 0.42
23 21 0.40
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:4778375 original size:44 final size:41
Alignment explanation
Indices: 4778293--4778376 Score: 105
Period size: 44 Copynumber: 2.0 Consensus size: 41
4778283 CCTGATTAGT
* * *
4778293 ATACGACACATAAGTGTCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
*
4778334 ATACGACACATAAAGTGCCTGAGATACGACACATAAAGTGCCT
1 ATACGACACAT-AAGTGCCTGA-A-ACGACACACAAAGTGCCT
4778377 AATCGGCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
41 11 0.31
42 9 0.25
43 1 0.03
44 15 0.42
ACGTcount: A:0.37, C:0.24, G:0.21, T:0.18
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:4779374 original size:16 final size:16
Alignment explanation
Indices: 4779355--4779388 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4779345 TTACTTACTT
*
4779355 TATTTTAATAATAATA
1 TATTATAATAATAATA
*
4779371 TATTATAATAATCATA
1 TATTATAATAATAATA
4779387 TA
1 TA
4779389 ATAATATTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTATAATAATAATA
Found at i:4779570 original size:15 final size:16
Alignment explanation
Indices: 4779552--4779583 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4779542 TTAATTAATA
4779552 TAATTT-ATAATATTT
1 TAATTTAATAATATTT
4779567 TAATTTAATAATATTT
1 TAATTTAATAATATTT
4779583 T
1 T
4779584 TATAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTAATAATATTT
Found at i:4779574 original size:25 final size:26
Alignment explanation
Indices: 4779539--4779591 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
4779529 TATTATCTTA
4779539 ATTTTAATTAAT-ATA-ATTTATAAT
1 ATTTTAATTAATAATATATTTATAAT
*
4779563 ATTTTAATTTAATAATATTTTTATAAT
1 ATTTTAA-TTAATAATATATTTATAAT
4779590 AT
1 AT
4779592 AAATCAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 5 0.20
26 3 0.12
27 10 0.40
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (26 bp):
ATTTTAATTAATAATATATTTATAAT
Found at i:4804517 original size:79 final size:79
Alignment explanation
Indices: 4804386--4804537 Score: 304
Period size: 79 Copynumber: 1.9 Consensus size: 79
4804376 CATGGTTTTC
4804386 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
1 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
4804451 TAATTGAAGTTTAA
66 TAATTGAAGTTTAA
4804465 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
1 TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
4804530 TAATTGAA
66 TAATTGAA
4804538 TAAATACAGG
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 73 1.00
ACGTcount: A:0.30, C:0.11, G:0.22, T:0.38
Consensus pattern (79 bp):
TGAAGATTTTCATGGGTTTTGAATGATCGGAGAGGTCATTAGCTGCAACTAACTTCTTTAAGTTA
TAATTGAAGTTTAA
Found at i:4808881 original size:15 final size:17
Alignment explanation
Indices: 4808861--4808892 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
4808851 CTATGCTTTC
4808861 GTCA-TTGGA-AGCTAT
1 GTCATTTGGACAGCTAT
4808876 GTCATTTGGACAGCTAT
1 GTCATTTGGACAGCTAT
4808893 TGCCGGGGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 5 0.33
17 6 0.40
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (17 bp):
GTCATTTGGACAGCTAT
Found at i:4816586 original size:27 final size:28
Alignment explanation
Indices: 4816536--4816605 Score: 90
Period size: 27 Copynumber: 2.5 Consensus size: 28
4816526 AAATAAAAAA
*
4816536 TTACCAAAATAT-TATAACTTTTTTTTAT
1 TTACCAAAAAATATATAAC-TTTTTTTAT
*
4816564 TTATCAAAAAATATATAA-TTTTTTTAT
1 TTACCAAAAAATATATAACTTTTTTTAT
*
4816591 TTACCAAAATATATA
1 TTACCAAAAAATATA
4816606 AAAAACAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 22 0.59
28 10 0.27
29 5 0.14
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (28 bp):
TTACCAAAAAATATATAACTTTTTTTAT
Found at i:4816712 original size:27 final size:27
Alignment explanation
Indices: 4816682--4816748 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
4816672 AGGGAAGCAG
*
4816682 GTTGGCGGCACCAAACAAGGGATCCCT
1 GTTGGCGGCACCAAACAAGGAATCCCT
* ****
4816709 GTTGGCGGCACTAGTGGAGGAATCCCT
1 GTTGGCGGCACCAAACAAGGAATCCCT
4816736 GTTGGCGGCACCA
1 GTTGGCGGCACCA
4816749 GTCCTGCCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (27 bp):
GTTGGCGGCACCAAACAAGGAATCCCT
Found at i:4817843 original size:18 final size:18
Alignment explanation
Indices: 4817815--4817859 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
4817805 TTGATATGGT
* *
4817815 TGGTGGTGAAGAAGAATG
1 TGGTGGCGAAGAAGAAGG
* *
4817833 TGGTTGCGAAGAATAAGG
1 TGGTGGCGAAGAAGAAGG
4817851 TGGTGGCGA
1 TGGTGGCGA
4817860 TCATTGGGAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.44, T:0.22
Consensus pattern (18 bp):
TGGTGGCGAAGAAGAAGG
Found at i:4820250 original size:15 final size:15
Alignment explanation
Indices: 4820226--4820264 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
4820216 CAATAACCAC
*
4820226 AATAACTAAAACTAG
1 AATAATTAAAACTAG
*
4820241 AATAATT-AAATTAG
1 AATAATTAAAACTAG
4820255 AATAATTAAA
1 AATAATTAAA
4820265 TTGATACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 8 0.38
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (15 bp):
AATAATTAAAACTAG
Found at i:4820257 original size:14 final size:14
Alignment explanation
Indices: 4820238--4820266 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4820228 TAACTAAAAC
4820238 TAGAATAATTAAAT
1 TAGAATAATTAAAT
4820252 TAGAATAATTAAAT
1 TAGAATAATTAAAT
4820266 T
1 T
4820267 GATACAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (14 bp):
TAGAATAATTAAAT
Found at i:4821254 original size:17 final size:17
Alignment explanation
Indices: 4821232--4821268 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4821222 AGTAAGATGT
4821232 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
4821249 CATGAATATTAGAATAG
1 CATGAATATTAGAATAG
4821266 CAT
1 CAT
4821269 CTTACTCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (17 bp):
CATGAATATTAGAATAG
Found at i:4822600 original size:20 final size:19
Alignment explanation
Indices: 4822575--4822619 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
4822565 ATTTAGTGTG
4822575 TTTTTTCTGTTTTTTTAATT
1 TTTTTTCTG-TTTTTTAATT
* *
4822595 TTTTTTTTGTTTTTTACTT
1 TTTTTTCTGTTTTTTAATT
4822614 TTTTTT
1 TTTTTT
4822620 GATATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.07, C:0.04, G:0.04, T:0.84
Consensus pattern (19 bp):
TTTTTTCTGTTTTTTAATT
Found at i:4822687 original size:27 final size:29
Alignment explanation
Indices: 4822621--4822690 Score: 108
Period size: 29 Copynumber: 2.5 Consensus size: 29
4822611 CTTTTTTTTG
* *
4822621 ATATATTTTGATAAATAAAAAAAATTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
4822650 ATATATTTTGGTAAAT-AAAAAAAGTTAT
1 ATATATTTTGGTAAATAAAAAAAAGTTAT
4822678 A-ATATTTTGGTAA
1 ATATATTTTGGTAA
4822691 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 12 0.31
28 12 0.31
29 15 0.38
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (29 bp):
ATATATTTTGGTAAATAAAAAAAAGTTAT
Found at i:4822750 original size:19 final size:19
Alignment explanation
Indices: 4822726--4822766 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
4822716 TACAAAACCC
*
4822726 ATAATAAAACATTACAAAA
1 ATAATAAAACATTAAAAAA
*
4822745 ATAATAAAATATTAAAAAA
1 ATAATAAAACATTAAAAAA
4822764 ATA
1 ATA
4822767 CCAAAATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
ATAATAAAACATTAAAAAA
Found at i:4822772 original size:19 final size:19
Alignment explanation
Indices: 4822726--4822777 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
4822716 TACAAAACCC
* * *
4822726 ATAATAAAACATTACAAAA
1 ATAACAAAATATTAAAAAA
*
4822745 ATAATAAAATATTAAAAAA
1 ATAACAAAATATTAAAAAA
*
4822764 ATACCAAAATATTA
1 ATAACAAAATATTA
4822778 TATATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (19 bp):
ATAACAAAATATTAAAAAA
Found at i:4824022 original size:19 final size:19
Alignment explanation
Indices: 4823974--4824025 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
4823964 AAAAAATATA
** *
4823974 TAATATTTTGGTATTTTTT
1 TAATATTTTATTATTTTTG
4823993 TAATATTTTATTATTTTTG
1 TAATATTTTATTATTTTTG
*
4824012 TAATGTTTTATTAT
1 TAATATTTTATTAT
4824026 GGGTTTTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
TAATATTTTATTATTTTTG
Found at i:4824108 original size:26 final size:27
Alignment explanation
Indices: 4824060--4824126 Score: 102
Period size: 26 Copynumber: 2.5 Consensus size: 27
4824050 AAATAAAAAA
4824060 TTACCAAAATAT-TATAACTTTTTTTAT
1 TTACCAAAATATATATAAC-TTTTTTAT
4824087 TTACCAAAATATATATAA-TTTTTTAT
1 TTACCAAAATATATATAACTTTTTTAT
*
4824113 TTATCAAAATATAT
1 TTACCAAAATATAT
4824127 CAAAAAAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
26 21 0.55
27 12 0.32
28 5 0.13
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAACTTTTTTAT
Found at i:4824151 original size:18 final size:18
Alignment explanation
Indices: 4824128--4824171 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
4824118 AAAATATATC
4824128 AAAAAAAGTAAAAAAACA
1 AAAAAAAGTAAAAAAACA
*
4824146 AAAAAAATTAAAAAAACA
1 AAAAAAAGTAAAAAAACA
*
4824164 GAAAAAAG
1 AAAAAAAG
4824172 CACACTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.82, C:0.05, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAAGTAAAAAAACA
Found at i:4825497 original size:17 final size:17
Alignment explanation
Indices: 4825475--4825511 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
4825465 ATGGGGTAAG
4825475 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
4825492 ATGCTATTCTAATATTC
1 ATGCTATTCTAATATTC
4825509 ATG
1 ATG
4825512 ATATCTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (17 bp):
ATGCTATTCTAATATTC
Found at i:4827063 original size:50 final size:50
Alignment explanation
Indices: 4826949--4827141 Score: 296
Period size: 50 Copynumber: 3.8 Consensus size: 50
4826939 GATAATAACA
* **
4826949 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * * *
4827000 TGCCCATGCCATGTCTCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
4827050 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
4827100 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
4827142 TTACCCAAAT
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
50 97 0.75
51 32 0.25
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:4827513 original size:30 final size:30
Alignment explanation
Indices: 4827479--4827535 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
4827469 CATCGACTCT
*
4827479 AACTTTTTTAAAATTACAATTTTGCCCTTA
1 AACTTTTGTAAAATTACAATTTTGCCCTTA
* *
4827509 AACTTTTGTATAATTACATTTTTGCCC
1 AACTTTTGTAAAATTACAATTTTGCCC
4827536 CAAGGCTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.05, T:0.47
Consensus pattern (30 bp):
AACTTTTGTAAAATTACAATTTTGCCCTTA
Found at i:4829889 original size:736 final size:736
Alignment explanation
Indices: 4828473--4829945 Score: 2802
Period size: 736 Copynumber: 2.0 Consensus size: 736
4828463 ATCCCGAATC
*
4828473 CGCCGTGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGGGGA
1 CGCCGAGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGGGGA
* * *
4828538 ATTAGGCATCGAAAATTTGTGGCGCTGTGGAACGATCGATTTCGTCGAAGACCTCAGAAGGTTAT
66 ATTAAGCACCAAAAATTTGTGGCGCTGTGGAACGATCGATTTCGTCGAAGACCTCAGAAGGTTAT
4828603 GGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGGGAAGCCATATT
131 GGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGGGAAGCCATATT
* *
4828668 TATACGGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGGCCACAGCG
196 TATACAGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGACCACAGCG
4828733 GCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGAGCC
261 GCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGAGCC
4828798 CCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTATCATCCGGATTTGTCAGGCA
326 CCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTATCATCCGGATTTGTCAGGCA
*
4828863 CTGACAATTTACCGAGCTTCTCACGGCCAGAATATGCATACAACTTTGAACTATTCGGATCCTAC
391 CTGACAATTTACCGAGCTTCTCAAGGCCAGAATATGCATACAACTTTGAACTATTCGGATCCTAC
* *
4828928 TCGCCCAGCCCATATCCGCAGCATTATGGGACTCCCTCAGATGCATTAAGTTCATCGCTGCCGAA
456 TCGCCCAGCCCATATCCGCAGCATTATGAGACTCCCTCAGATGCATCAAGTTCATCGCTGCCGAA
*
4828993 CAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTATACCACCACCTGCGCCAAATGATA
521 CAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATGATA
4829058 ATGTCAGTCGTCGCGGGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGGACT
586 ATGTCAGTCGTCGCGGGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGGACT
*
4829123 ACACCATCGAACCATCAATTTTAGGGGTGTACGGCACATGTTTGTACATTAACACGTTTGTACTT
651 ACACCATCGAACCATCAATTTTAGGGGTGTACGACACATGTTTGTACATTAACACGTTTGTACTT
4829188 TTTTGTATCAATTTAATTATT
716 TTTTGTATCAATTTAATTATT
**
4829209 CGCCGAGTGAGGTGGGAGAAGTTCACTTCAAGAATAAGAGAGGAAAATCGATGATAGATTGGGGA
1 CGCCGAGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGGGGA
4829274 ATTAAGCACCAAAAATTTGTGGCGCTGTGGAACGATCGATTTCGTCGAAGACCTCAGAAGGTTAT
66 ATTAAGCACCAAAAATTTGTGGCGCTGTGGAACGATCGATTTCGTCGAAGACCTCAGAAGGTTAT
4829339 GGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGGGAAGCCATATT
131 GGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGGGAAGCCATATT
4829404 TATACAGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGACCACAGCG
196 TATACAGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGACCACAGCG
4829469 GCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGAGCC
261 GCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGAGCC
4829534 CCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTATCATCCGGATTTGTCAGGCA
326 CCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTATCATCCGGATTTGTCAGGCA
4829599 CTGACAATTTACCGAGCTTCTCAAGGCCAGAATATGCATACAACTTTGAACTATTCGGATCCTAC
391 CTGACAATTTACCGAGCTTCTCAAGGCCAGAATATGCATACAACTTTGAACTATTCGGATCCTAC
* *
4829664 TCGCCCAGCCCATATCCGCAGCATTATGAGACTCTCTCAGATGCATCAAGTTCGTCGCTGCCGAA
456 TCGCCCAGCCCATATCCGCAGCATTATGAGACTCCCTCAGATGCATCAAGTTCATCGCTGCCGAA
*
4829729 CAAGGGACCTGCTTAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATGATA
521 CAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATGATA
4829794 ATGTCAGTCGTCGCGGGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGGACT
586 ATGTCAGTCGTCGCGGGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGGACT
4829859 ACACCATCGAACCATCAATTTTAGGGGTGTACGACACATGTTTGTACATTAACACGTTTGTACTT
651 ACACCATCGAACCATCAATTTTAGGGGTGTACGACACATGTTTGTACATTAACACGTTTGTACTT
4829924 TTTTGTATCAATTTAATTATT
716 TTTTGTATCAATTTAATTATT
4829945 C
1 C
4829946 TAGTTTTAGT
Statistics
Matches: 721, Mismatches: 16, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
736 721 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (736 bp):
CGCCGAGTGAGGTGGGAGAAGTTCACGGCAAGAATAAGAGAGGAAAATCGATGATAGATTGGGGA
ATTAAGCACCAAAAATTTGTGGCGCTGTGGAACGATCGATTTCGTCGAAGACCTCAGAAGGTTAT
GGCTACCGACTCGCAACCATCAGAAGATTATATGCAATGGTACTTTAGTTGCGGGAAGCCATATT
TATACAGAGGCCAGTCGGTTGTAATCCCCCCGCACATGTAGCGACATGGGGGATCGACCACAGCG
GCCCAGCATGATCTGGATCCCATGGCATATTATTCTCCGGAACCACCGGAGCCCGAGCAAGAGCC
CCAGCCAGATCCGGAACAATCTGGATTTGTCGGTTCAGATAGCTATCATCCGGATTTGTCAGGCA
CTGACAATTTACCGAGCTTCTCAAGGCCAGAATATGCATACAACTTTGAACTATTCGGATCCTAC
TCGCCCAGCCCATATCCGCAGCATTATGAGACTCCCTCAGATGCATCAAGTTCATCGCTGCCGAA
CAAGGGACCTGCTCAAAATGATTTCCTCCCTATTTTTACTACACCACCACCTGCGCCAAATGATA
ATGTCAGTCGTCGCGGGCACCCAGAACGTGACCGTCGACCTCCGAATAGGTATACCCCTAGGACT
ACACCATCGAACCATCAATTTTAGGGGTGTACGACACATGTTTGTACATTAACACGTTTGTACTT
TTTTGTATCAATTTAATTATT
Found at i:4833503 original size:27 final size:27
Alignment explanation
Indices: 4833435--4833486 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
4833425 GGTTGGCAGG
*
4833435 ACTGGTGCCGCCAACAGGGATTCCTCC
1 ACTGGTGCCGCCAACAGGGATCCCTCC
4833462 ACTGGTGCCGCCAACAGGGATCCCT
1 ACTGGTGCCGCCAACAGGGATCCCT
4833487 TGTTTGGTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.37, G:0.27, T:0.17
Consensus pattern (27 bp):
ACTGGTGCCGCCAACAGGGATCCCTCC
Found at i:4833606 original size:27 final size:28
Alignment explanation
Indices: 4833576--4833644 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
4833566 TTTGTTTTTT
4833576 TATATATTTTGGTAAATAAAAAAA-TTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
*
4833603 TATATATTTTGGTACATAAAAAAAGTTA
1 TATATATTTTGGTAAATAAAAAAAGTTA
4833631 TA-ATATTTTGGTAA
1 TATATATTTTGGTAA
4833645 TTTTTTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.46, C:0.01, G:0.10, T:0.42
Consensus pattern (28 bp):
TATATATTTTGGTAAATAAAAAAAGTTA
Found at i:4838164 original size:51 final size:50
Alignment explanation
Indices: 4838101--4838389 Score: 299
Period size: 51 Copynumber: 5.7 Consensus size: 50
4838091 GTGAAAGTGT
* **
4838101 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGATAAAT-A
* * * * * * *
4838152 TGGTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGATAA-ATA
* **
4838203 TGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGATAAAT-A
* * ** * * * * *
4838254 TAGTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTT
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGATAA-ATA
* ** *
4838305 TAGTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGATAAAT-A
4838356 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTA
1 TGGTCACATGTGTAGTACTAAGTGAAGGCTACTA
4838390 TGTGTACCGA
Statistics
Matches: 188, Mismatches: 46, Indels: 8
0.78 0.19 0.03
Matches are distributed among these distances:
50 2 0.01
51 184 0.98
52 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTAAGTGAAGGCTACTACGTGAATCGATAAATA
Found at i:4838276 original size:102 final size:102
Alignment explanation
Indices: 4838103--4838432 Score: 561
Period size: 102 Copynumber: 3.2 Consensus size: 102
4838093 GAAAGTGTTG
*
4838103 GTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGT
1 GTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGT
*
4838168 ACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTG
66 ACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTA
* *
4838205 GTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATAGTCACATGTGTAGT
1 GTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGT
*
4838270 ACTAAGTGAAGGCTACAATATGTACCGAGAAGCTTTA
66 ACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTA
* *
4838307 GTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGT
1 GTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGT
* *
4838372 ACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTA
66 ACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTA
* *
4838409 GTCACATATGTAGTACTATGTGAA
1 GTCACATGTGTAGTACTGTGTGAA
4838433 TCGTAAAACT
Statistics
Matches: 216, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 216 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (102 bp):
GTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATAATGGTCACATGTGTAGT
ACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTA
Found at i:4838413 original size:51 final size:51
Alignment explanation
Indices: 4838154--4838432 Score: 287
Period size: 51 Copynumber: 5.5 Consensus size: 51
4838144 ATAAATAATG
* * *
4838154 GTCACATGTGTAGTACTAAGTGAAGGCTACAATGTGTACCGAGAAGCTTTG
1 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTA
* ** * * * *
4838205 GTCACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAA--TAATA
1 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTA
* * *
4838256 GTCACATGTGTAGTACTAAGTGAAGGCTACAATATGTACCGAGAAGCTTTA
1 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTA
** * * ** * *
4838307 GTCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAA--TGATG
1 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-TTA
4838358 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTA
1 GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTA
* *
4838409 GTCACATATGTAGTACTATGTGAA
1 GTCACATGTGTAGTACTAAGTGAA
4838433 TCGTAAAACT
Statistics
Matches: 179, Mismatches: 41, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
50 7 0.04
51 166 0.93
52 6 0.03
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTA
Found at i:4838482 original size:50 final size:50
Alignment explanation
Indices: 4838428--4838535 Score: 180
Period size: 50 Copynumber: 2.2 Consensus size: 50
4838418 GTAGTACTAT
*
4838428 GTGAATCGTAAAACTTGATCACGTGTATAGTACTATGTGAAGGCTATTAC
1 GTGAATCGTAAAAATTGATCACGTGTATAGTACTATGTGAAGGCTATTAC
* *
4838478 GTGAACCGTAAAAATTGATCACGTGTGTAGTACTATGTGAAGGCTATTAC
1 GTGAATCGTAAAAATTGATCACGTGTATAGTACTATGTGAAGGCTATTAC
*
4838528 GTGTATCG
1 GTGAATCG
4838536 AATGATAATA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (50 bp):
GTGAATCGTAAAAATTGATCACGTGTATAGTACTATGTGAAGGCTATTAC
Found at i:4838562 original size:137 final size:137
Alignment explanation
Indices: 4838308--4838569 Score: 303
Period size: 137 Copynumber: 1.9 Consensus size: 137
4838298 GAAGCTTTAG
* * ** * *
4838308 TCACATGTGTAGTACTGTGTGAAGGCTACTACGTGAATTGATAAATGATGGTCACATGTGTAGTA
1 TCACATGTATAGTACTATGTGAAGGCTACTACGTGAACCGAAAAAT-ATGATCACATGTGTAGTA
* * * * *
4838373 CTAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTAGTCACATATGTAGTACTATGTGAATCGTA
65 CTAAGTGAAGGCTACTACGTGTACCGAAAAGATATAGTAACATAGGTAGTACTATGTGAATCGTA
4838438 AAACTTGA
130 AAACTTGA
* * *
4838446 TCACGTGTATAGTACTATGTGAAGGCTATTACGTGAACCGTAAAAAT-TGATCACGTGTGTAGTA
1 TCACATGTATAGTACTATGTGAAGGCTACTACGTGAACCG-AAAAATATGATCACATGTGTAGTA
* * * * * *
4838510 CTATGTGAAGGCTATTACGTGTATCG-AATGATAATAGTAACATGGGTGGTACTATGTGAA
65 CTAAGTGAAGGCTACTACGTGTACCGAAAAGAT-ATAGTAACATAGGTAGTACTATGTGAA
4838570 AACCCAAATA
Statistics
Matches: 102, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
136 4 0.04
137 59 0.58
138 34 0.33
139 5 0.05
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (137 bp):
TCACATGTATAGTACTATGTGAAGGCTACTACGTGAACCGAAAAATATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTACGTGTACCGAAAAGATATAGTAACATAGGTAGTACTATGTGAATCGTAA
AACTTGA
Found at i:4840662 original size:108 final size:107
Alignment explanation
Indices: 4840491--4840688 Score: 265
Period size: 108 Copynumber: 1.8 Consensus size: 107
4840481 AAGATATAAG
* * * *
4840491 AGGATATTTGGCTATTTGGTCCAACGAAAAATCGAAGCCCAGCACATTAAGGCACGTTTTCTCGA
1 AGGATATTTGGCTATTTGGTCCAACGAAAAATCAAAACCCAACACATTAAGGCACGCTTTCTCGA
* *
4840556 ATTTC-CAAATGCAAAACATTGCCTTATTTTGAAACTTTTAAA
66 A-TCCACAAATGAAAAACATTGCCTTATTTTGAAACTTTTAAA
* * *
4840598 AGGATATTTGGCTATTTTGTCGAACGAAAAAAATCAAAACCCAACA-ATTAAGGCATGCTTTCTC
1 AGGATATTTGGCTATTTGGTCCAACG--AAAAATCAAAACCCAACACATTAAGGCACGCTTTCTC
*
4840662 GAATCCACAAATGAAAAATATTGCCTT
64 GAATCCACAAATGAAAAACATTGCCTT
4840689 TATTATTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
107 26 0.33
108 37 0.47
109 15 0.19
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.29
Consensus pattern (107 bp):
AGGATATTTGGCTATTTGGTCCAACGAAAAATCAAAACCCAACACATTAAGGCACGCTTTCTCGA
ATCCACAAATGAAAAACATTGCCTTATTTTGAAACTTTTAAA
Found at i:4843516 original size:44 final size:44
Alignment explanation
Indices: 4843466--4843922 Score: 143
Period size: 44 Copynumber: 10.4 Consensus size: 44
4843456 TTCGATCTGT
4843466 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
* * * * * * *
4843510 TCCACTACTGCTTAGAGAGATAGGA-CT--AATGGATTAAATCTGCTTC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAAT--CTTCAA-C--CTAC
* * * * * * *
4843556 TCCACTA-T-CTTGAGAAGAT-A-AGATTC-ACCATCTTCGATCTGC
1 TCCACTACTGCTT-AG--GGTGACAGAATCTGCAATCTTCAACCTAC
* *
4843598 TCCACTACCGCTTAGGGTGACAGAATCTGCAATTTTCAACCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
* * * * * *
4843642 TCCAATACTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTACTTC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAAT--CTTCAA-C--CTAC
* * * * * * **
4843688 TCCACTA-T-CTTGAGAAGAT-A-AGATTC-ACCATCTTCGATCTGT
1 TCCACTACTGCTT-AG--GGTGACAGAATCTGCAATCTTCAACCTAC
4843730 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
* * * * *
4843774 TCCACTACTGCTTAGGGAGATAGGA-CT--AATGGCTTAAATCTGCTTC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAAT--CTTCAA-C--CTAC
* * * * * * *
4843820 TCCACTA-T-CTTGAGAAGAT-A-AGATTC-ACCATCTTCGATCTGC
1 TCCACTACTGCTT-AG--GGTGACAGAATCTGCAATCTTCAACCTAC
*
4843862 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACTTAC
1 TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
4843906 TCCACTACTGCTTAGGG
1 TCCACTACTGCTTAGGG
4843923 AGATAGGACT
Statistics
Matches: 289, Mismatches: 76, Indels: 96
0.63 0.16 0.21
Matches are distributed among these distances:
41 15 0.05
42 32 0.11
43 42 0.15
44 131 0.45
45 26 0.09
46 35 0.12
47 8 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (44 bp):
TCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACCTAC
Found at i:4844250 original size:132 final size:132
Alignment explanation
Indices: 4842910--4844196 Score: 2110
Period size: 132 Copynumber: 9.8 Consensus size: 132
4842900 ACTACATTGG
* * *
4842910 GAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAAGGAGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4842975 CAACCTACT-GACTACTGCTTAGGGAGATTGGACTAATGGCTTAAATCTGCTTCGT-CACTATCT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTC-TCCACTATCT
4843038 TGA
130 TGA
*
4843041 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTATTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
** * * * * *
4843106 CAACCCGCTTCACTACTGCTTAGAGAGATAAGACTAATGGATTAAATCCGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4843171 GA
131 GA
* *
4843173 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTACTTAGGGTGACAGAATCTGTAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4843238 CAACCTACTCCACTACTGCTTAGAGAGATAGGACTAATGGATTAAATCTGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4843303 GA
131 GA
* * *
4843305 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAAAATTTGCAATTTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4843370 CAACCTACTCCAATACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
*
4843435 AA
131 GA
*
4843437 GAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4843502 CAACCTACTCCACTACTGCTTAGAGAGATAGGACTAATGGATTAAATCTGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4843567 GA
131 GA
* *
4843569 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACCGCTTAGGGTGACAGAATCTGCAATTTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4843634 CAACCTACTCCAATACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTACTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4843699 GA
131 GA
*
4843701 GAAGATAAGATTCACCATCTTCGATCTGTTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
4843766 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
4843831 GA
131 GA
4843833 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4843898 CAACTTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCGCTATCTT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
*
4843963 GG
131 GA
* * * *
4843965 GAAGATAAGATTCACCATCTTCGATCTGTTCCGCTACTGCTTAGGGTGACAAAATCTGCGATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* * ** *
4844030 CAACCTACTCCACTACTACTTAGGGAGATAGGACTAATGGCTTAAATCAGCTTCTCTGCTATATT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
*
4844095 GG
131 GA
* * *
4844097 GAAGATAAGATTCACCATCTTTGATCTGCTCAACTACTACTTAGGGTGACAGAATCTGCAATCTT
1 GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
* *
4844162 CAACTTACTCCACTACTGTTTAGGGAGATAGGACT
66 CAACCTACTCCACTACTGCTTAGGGAGATAGGACT
4844197 GGTGGTTTCG
Statistics
Matches: 1080, Mismatches: 74, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
131 69 0.06
132 1011 0.94
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (132 bp):
GAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTT
CAACCTACTCCACTACTGCTTAGGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTT
GA
Found at i:4844577 original size:24 final size:24
Alignment explanation
Indices: 4844523--4844580 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
4844513 TGGATTGCCC
*
4844523 CCACTGAAATCTTCAAAGTTCAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* * *
4844547 CCGCTGTAATCTTTAAGGTT-AAGT
1 CCACTGTAATCTTCAAAGTTCAA-T
4844571 CCACTGTAAT
1 CCACTGTAAT
4844581 TTTGGGACAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.33
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:4845886 original size:13 final size:12
Alignment explanation
Indices: 4845864--4845898 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
4845854 CCCTGCAGAG
4845864 GTTTGTTTTTTT
1 GTTTGTTTTTTT
4845876 GTTTGGTTTTTTT
1 GTTT-GTTTTTTT
4845889 GTTTTGTTTT
1 G-TTTGTTTT
4845899 GTTTTTGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 14 0.67
14 3 0.14
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (12 bp):
GTTTGTTTTTTT
Found at i:4845895 original size:18 final size:17
Alignment explanation
Indices: 4845863--4845904 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
4845853 CCCCTGCAGA
*
4845863 GGTTTGTTTTTTTGTTT
1 GGTTTTTTTTTTTGTTT
4845880 GGTTTTTTTGTTTTGTTT
1 GGTTTTTTT-TTTTGTTT
*
4845898 TGTTTTT
1 GGTTTTT
4845905 GCCTCCAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.00, C:0.00, G:0.21, T:0.79
Consensus pattern (17 bp):
GGTTTTTTTTTTTGTTT
Found at i:4849414 original size:111 final size:107
Alignment explanation
Indices: 4849232--4849436 Score: 268
Period size: 111 Copynumber: 1.9 Consensus size: 107
4849222 GATTAAGATA
* * * ** * *
4849232 TAAGAGGATATTTGGCTATTTGGTCTAACGAGAAATCGAAGCCCAGCACATTAGGACACGTTTTC
1 TAAGAGGATATTTGGCTATTTGGTCGAACGAAAAATCAAAAACCAACACATTAGGACACGCTTTC
4849297 TCGAATTTC-CAAACGCAAAACATTGCCTTATTTTGAAACTTT
66 TCGAA-TTCACAAACGCAAAACATTGCCTTATTTTGAAACTTT
*
4849339 TAAGAGGATATTTTGGCTATTTGGTCGAACGAAAAAAAATCAAAAACCAACACATTAGGGCACGC
1 TAAGAGGATA-TTTGGCTATTTGGTCGAACG---AAAAATCAAAAACCAACACATTAGGACACGC
* *
4849404 TTTCTCGAATTCACAAATGCAAAATATTGCCTT
62 TTTCTCGAATTCACAAACGCAAAACATTGCCTT
4849437 TATTATTTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
107 10 0.12
108 19 0.23
110 3 0.04
111 51 0.61
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (107 bp):
TAAGAGGATATTTGGCTATTTGGTCGAACGAAAAATCAAAAACCAACACATTAGGACACGCTTTC
TCGAATTCACAAACGCAAAACATTGCCTTATTTTGAAACTTT
Found at i:4849987 original size:8 final size:8
Alignment explanation
Indices: 4849976--4850005 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
4849966 AAATAAATAA
4849976 ATAAAATT
1 ATAAAATT
4849984 ATAAAATT
1 ATAAAATT
4849992 ATAAAATT
1 ATAAAATT
4850000 ATAAAA
1 ATAAAA
4850006 ATGTACAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAAAATT
Found at i:4850273 original size:21 final size:21
Alignment explanation
Indices: 4850234--4850273 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4850224 AAATATGCAC
* *
4850234 GTATATATATATTATAAAAAT
1 GTATATATATATAACAAAAAT
4850255 GTATATATATATAACAAAA
1 GTATATATATATAACAAAA
4850274 CTTGGAATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.38
Consensus pattern (21 bp):
GTATATATATATAACAAAAAT
Found at i:4851785 original size:26 final size:26
Alignment explanation
Indices: 4851755--4851812 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4851745 GAAGCTTCGG
4851755 AGAGCTA-TTAATCAGAAAGCTCACAA
1 AGAGCTATTTAATCAGAAAGCTCA-AA
* *
4851781 AGAGC-ATTTAATCAGGAAGCTTAAA
1 AGAGCTATTTAATCAGAAAGCTCAAA
4851806 AGAGCTA
1 AGAGCTA
4851813 AGGTGTGCCC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 8 0.29
26 20 0.71
ACGTcount: A:0.45, C:0.16, G:0.19, T:0.21
Consensus pattern (26 bp):
AGAGCTATTTAATCAGAAAGCTCAAA
Found at i:4856904 original size:45 final size:45
Alignment explanation
Indices: 4856854--4857117 Score: 465
Period size: 45 Copynumber: 5.9 Consensus size: 45
4856844 AAGAGGTGGA
*
4856854 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
4856899 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
4856944 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
4856989 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
4857034 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
* * * *
4857079 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
4857118 CCATGGCCGA
Statistics
Matches: 210, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 210 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
Found at i:4863232 original size:45 final size:45
Alignment explanation
Indices: 4863182--4863445 Score: 465
Period size: 45 Copynumber: 5.9 Consensus size: 45
4863172 AAGAGGTGGA
*
4863182 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
4863227 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
4863272 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
4863317 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGAC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
*
4863362 CAACATCATGCATAATTCATGGAAGAATTTAAGGAAGCATTTGGC
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
* * * *
4863407 CAACATCATGCATAATTTAAGGAACAAATTGAGGAAGCA
1 CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCA
4863446 CCATGGCCGA
Statistics
Matches: 210, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 210 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.26
Consensus pattern (45 bp):
CAACATCATGCATAATTCATGGAAGAATTTGAGGAAGCATTTGGC
Found at i:4864428 original size:32 final size:32
Alignment explanation
Indices: 4864392--4864467 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 32
4864382 ACTTTTCCGA
* *
4864392 AAAATATTTTCAAAAAATCTACCAAACAGCAG
1 AAAATATTTTCAAAAAATCAACCAAACACCAG
* * * *
4864424 AAAATATTTTACACAGATTCAATCAAACACCAG
1 AAAATATTTT-CAAAAAATCAACCAAACACCAG
4864457 AAAATATTTTC
1 AAAATATTTTC
4864468 CAATAAATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
32 11 0.30
33 26 0.70
ACGTcount: A:0.50, C:0.18, G:0.05, T:0.26
Consensus pattern (32 bp):
AAAATATTTTCAAAAAATCAACCAAACACCAG
Found at i:4871298 original size:15 final size:15
Alignment explanation
Indices: 4871280--4871309 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4871270 TATAAATGTC
4871280 ACAATAACAAATACA
1 ACAATAACAAATACA
*
4871295 ACAATAATAAATACA
1 ACAATAACAAATACA
4871310 GTAATGGCAT
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:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
ACAATAACAAATACA
Done.