Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 17 of 190
Found at i:4849587 original size:34 final size:33
Alignment explanation
Indices: 4849549--4849749 Score: 81
Period size: 34 Copynumber: 6.2 Consensus size: 33
4849539 ATTAATATTA
4849549 TACATAACTTACATAACTTACAACTTACATAACT
1 TACATAACTTACATAACTTACAA-TTACATAACT
* *
4849583 TACATTAA--TA-TTATACTTA-AATTACATAAGT
1 TACA-TAACTTACATA-ACTTACAATTACATAACT
** *
4849614 TAGTTAA-TTA-AT-ATTATACATAACTTACATAACT
1 TACATAACTTACATAACT-TAC--AA-TTACATAACT
*
4849648 TAC--AACTTACATAACTTAC-ATTA-AT-ATT
1 TACATAACTTACATAACTTACAATTACATAACT
* * * * *
4849676 ATACTTAAATTACATAAGTTAGTTAATTA-AT-ATT
1 -TACATAACTTACATAACTTA--CAATTACATAACT
4849710 ATACATAACTT-CAATAACTTACAACTTACATAACT
1 -TACATAACTTAC-ATAACTTACAA-TTACATAACT
4849745 TACAT
1 TACAT
4849750 TTTTTTAATT
Statistics
Matches: 128, Mismatches: 18, Indels: 42
0.68 0.10 0.22
Matches are distributed among these distances:
28 2 0.02
29 7 0.05
30 8 0.06
31 28 0.22
32 8 0.06
33 16 0.12
34 52 0.41
35 7 0.05
ACGTcount: A:0.44, C:0.15, G:0.02, T:0.38
Consensus pattern (33 bp):
TACATAACTTACATAACTTACAATTACATAACT
Found at i:4849594 original size:81 final size:81
Alignment explanation
Indices: 4849427--4849830 Score: 512
Period size: 81 Copynumber: 4.9 Consensus size: 81
4849417 GCTTAAAATA
*
4849427 ATACTTAAATTACATAAGTTAGTTAATTAA-A--ATACATAAATTACATAACTAATTACACTTAT
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAAC---TT--AC--A-
*
4849489 ATTATACATAACTTACATTAATATT
58 ACT-TACATAACTTACATTAATATT
4849514 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
4849579 AACTTACATTAATATT
66 AACTTACATTAATATT
4849595 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
4849660 AACTTACATTAATATT
66 AACTTACATTAATATT
4849676 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTT-CAATAACTTACAACTTACA
1 ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTAC-ATAACTTACAACTTACA
**
4849740 TAACTTACATTTTTTTAATT
65 TAACTTACA--TTAAT-ATT
* * * * * * * * * **
4849760 ATTCGTAAATTACATAACTTACTTAATT-TTCATAATAAATAACTTACATAAATAACTTCTTACA
1 ATACTTAAATTACATAAGTTAGTTAATTAAT-ATTATACATAACTTACATAACTTACAACTTACA
4849824 TAACTTA
65 TAACTTA
4849831 TGTGACTTAC
Statistics
Matches: 293, Mismatches: 15, Indels: 21
0.89 0.05 0.06
Matches are distributed among these distances:
80 1 0.00
81 173 0.59
82 2 0.01
83 5 0.02
84 59 0.20
85 3 0.01
87 32 0.11
88 1 0.00
90 17 0.06
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (81 bp):
ATACTTAAATTACATAAGTTAGTTAATTAATATTATACATAACTTACATAACTTACAACTTACAT
AACTTACATTAATATT
Found at i:4849883 original size:25 final size:25
Alignment explanation
Indices: 4849854--4849910 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 25
4849844 ACTTACATAG
* *
4849854 CATAATTTTCATAATACACAACTTA
1 CATAATTTGCATAATAAACAACTTA
** *
4849879 CATAATTTGGGTAATAAATAACTTA
1 CATAATTTGCATAATAAACAACTTA
4849904 CATAATT
1 CATAATT
4849911 AGGAAATACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.14, G:0.05, T:0.37
Consensus pattern (25 bp):
CATAATTTGCATAATAAACAACTTA
Found at i:4854189 original size:43 final size:43
Alignment explanation
Indices: 4854142--4854414 Score: 289
Period size: 43 Copynumber: 6.3 Consensus size: 43
4854132 ATGTGTTGGC
* * * *
4854142 CTTTAGTGGCGTTTTTGGTCAAAGCACCGCTAAAGATAAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * *
4854185 CTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
** * * *
4854228 CTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAAGTT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
4854271 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* ** * * *
4854314 CTATTA-CGGCGTTTGAGGGGAAAGTGCCGCTAAAGATTAGGTT
1 CT-TTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
* * *
4854357 CTTTCGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
4854400 CTATT-GCGGCGTTTG
1 CT-TTAGCGGCGTTTG
4854415 AGAAAAAAAC
Statistics
Matches: 186, Mismatches: 41, Indels: 6
0.80 0.18 0.03
Matches are distributed among these distances:
42 2 0.01
43 179 0.96
44 5 0.03
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGTTTGTGGTCAAAGCGCCGCTAAAGATCAGGGT
Found at i:4854360 original size:129 final size:129
Alignment explanation
Indices: 4854142--4854393 Score: 328
Period size: 129 Copynumber: 2.0 Consensus size: 129
4854132 ATGTGTTGGC
* *
4854142 CTTTAGTGGCGTTTTTGGTCAAAGCACCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAA
1 CTTTAGTGGCGTTTGTGGTCAAAGCACCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
*
4854207 AGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGGAAAGCGCCGCTAAAGATTAAGTT
66 AGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAAGTT
* * * * **
4854271 CTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTA-CGGCGTTTGAGGGGA
1 CTTTAGTGGCGTTTGTGGTCAAAGCACCGCTAAAGATAAGGGTCT-TTAGCGGCGTTTGAGGAAA
* * * * * * *
4854335 AAGTGCCGCTAAAGATTA-GGTTCTTTCGTGGCGTTTGTGGTCAAAGCGCCGCTATAGAT
65 AAGCGCCACTAAAGATCATGG-TCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGAT
4854394 CAGGGTCTAT
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
128 2 0.02
129 100 0.95
130 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (129 bp):
CTTTAGTGGCGTTTGTGGTCAAAGCACCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGAGGAAAA
AGCGCCACTAAAGATCATGGTCTTTAGCGGCGTTTGTGGGCAAAGCGCCGCTAAAGATTAAGTT
Found at i:4854434 original size:86 final size:86
Alignment explanation
Indices: 4854162--4854416 Score: 359
Period size: 86 Copynumber: 3.0 Consensus size: 86
4854152 GTTTTTGGTC
* * * * ** * * *
4854162 AAAGCACCGCTAAAGATAAGGGTCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
4854227 TCT-TTAGCGGCGTTTGTGGGG
66 TCTATT-GCGGCGTTTGAGGGG
* *
4854248 AAAGCGCCGCTAAAGATTAAGTTCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
*
4854313 TCTATTACGGCGTTTGAGGGG
66 TCTATTGCGGCGTTTGAGGGG
* *
4854334 AAAGTGCCGCTAAAGATTAGGTTCTTTCGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
1 AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
4854399 TCTATTGCGGCGTTTGAG
66 TCTATTGCGGCGTTTGAG
4854417 AAAAAAACGC
Statistics
Matches: 150, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
86 148 0.99
87 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.27
Consensus pattern (86 bp):
AAAGCGCCGCTAAAGATTAGGTTCTTTAGTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGG
TCTATTGCGGCGTTTGAGGGG
Found at i:4854454 original size:86 final size:86
Alignment explanation
Indices: 4854184--4854478 Score: 312
Period size: 86 Copynumber: 3.4 Consensus size: 86
4854174 AAGATAAGGG
* ** * * * *
4854184 TCTTTAGCGGCGTTTGTGGAAAAAGCGCCACTAAAGATCATGGTCT-TTAGCGGCGTTTGTGGGG
1 TCTTCAGCGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATT-GCGGCGTTTGAGGGG
* *
4854248 AAAGCGCCGCTAAAGATTAAGT
65 AAAGCGCCGCTAAAGGTTTAGT
* * * *
4854270 TCTTTAGTGGCGTTTGTGGTCGAAGCGCCGCTATAGATCAGGGTCTATTACGGCGTTTGAGGGGA
1 TCTTCAGCGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
* *
4854335 AAGTGCCGCTAAA-GATTAGGT
66 AAGCGCCGCTAAAGGTTTA-GT
* ***
4854356 TCTTTC-GTGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGAAA
1 TC-TTCAGCGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGG
* *
4854420 AAAACGCCGTTAAAGGTCTTAG-
65 AAAGCGCCGCTAAAGGT-TTAGT
*
4854442 TCTTCAGCGGCGTTTGTGCT-AGAAGCGCCGCTATAGA
1 TCTTCAGCGGCGTTTGTGGTCA-AAGCGCCGCTATAGA
4854479 ACAACACCTT
Statistics
Matches: 177, Mismatches: 25, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
85 6 0.03
86 162 0.92
87 6 0.03
88 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (86 bp):
TCTTCAGCGGCGTTTGTGGTCAAAGCGCCGCTATAGATCAGGGTCTATTGCGGCGTTTGAGGGGA
AAGCGCCGCTAAAGGTTTAGT
Found at i:4854621 original size:22 final size:22
Alignment explanation
Indices: 4854593--4854635 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
4854583 CTGCGGCGCT
*
4854593 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAGCCTA
4854615 AAAAAGCGCCGCTAAAAGCCT
1 AAAAAGCGCCGCTAAAAGCCT
4854636 GTTTTGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.28, G:0.21, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAGCCTA
Found at i:4858171 original size:13 final size:13
Alignment explanation
Indices: 4858153--4858178 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4858143 TCACCTTAGG
4858153 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
4858166 CTTGCTTCTGAAC
1 CTTGCTTCTGAAC
4858179 TAGCCTAAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.15, T:0.38
Consensus pattern (13 bp):
CTTGCTTCTGAAC
Found at i:4859649 original size:3 final size:3
Alignment explanation
Indices: 4859641--4859671 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
4859631 TTTAATCTTG
4859641 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4859672 TACTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4859814 original size:2 final size:2
Alignment explanation
Indices: 4859798--4859830 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4859788 CATACATTTT
4859798 TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4859831 GCATATACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:4859942 original size:2 final size:2
Alignment explanation
Indices: 4859878--4859927 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
4859868 TATGCATGCT
4859878 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4859919 TA TA TA TA T
1 TA TA TA TA T
4859928 CTTGTAACTT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4860108 original size:26 final size:25
Alignment explanation
Indices: 4860079--4860138 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
4860069 TTATTTTTCG
**
4860079 TATATTTTACAATTTATATATATACA
1 TATATTTT-CAACATATATATATACA
* *
4860105 TATATATTTCTACATATATATATCCA
1 TATAT-TTTCAACATATATATATACA
4860131 TATATTTT
1 TATATTTT
4860139 TATAGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 3 0.10
26 23 0.79
27 3 0.10
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTTTCAACATATATATATACA
Found at i:4860110 original size:12 final size:12
Alignment explanation
Indices: 4860093--4860135 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
4860083 TTTTACAATT
4860093 TATATATATACA
1 TATATATATACA
*
4860105 TATATATTTCTACA
1 TATATA--TATACA
*
4860119 TATATATATCCA
1 TATATATATACA
4860131 TATAT
1 TATAT
4860136 TTTTATAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATATATACA
Found at i:4860110 original size:14 final size:14
Alignment explanation
Indices: 4860093--4860127 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
4860083 TTTTACAATT
4860093 TATATATATACATA
1 TATATATATACATA
* *
4860107 TATATTTCTACATA
1 TATATATATACATA
4860121 TATATAT
1 TATATAT
4860128 CCATATATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATATATACATA
Found at i:4862508 original size:23 final size:23
Alignment explanation
Indices: 4862464--4862509 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
4862454 GAGATTAGTA
* * *
4862464 AATTTACAATTTGATTATTCAAT
1 AATTTACAATTTAATCACTCAAT
*
4862487 AATTTATAATTTAATCACTCAAT
1 AATTTACAATTTAATCACTCAAT
4862510 TATTAGTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.11, G:0.02, T:0.46
Consensus pattern (23 bp):
AATTTACAATTTAATCACTCAAT
Found at i:4862513 original size:31 final size:31
Alignment explanation
Indices: 4862477--4862537 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
4862467 TTACAATTTG
*
4862477 ATTATTCAAT-AATTTATAATTTAATCACTCA
1 ATTATT-AATAAATTTATAACTTAATCACTCA
* *
4862508 ATTATTAGTAAATTTATAACTTGATCACTC
1 ATTATTAATAAATTTATAACTTAATCACTC
4862538 CCATGTTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.39, C:0.13, G:0.03, T:0.44
Consensus pattern (31 bp):
ATTATTAATAAATTTATAACTTAATCACTCA
Found at i:4869757 original size:2 final size:2
Alignment explanation
Indices: 4869750--4869781 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
4869740 TTCTTTTCTT
4869750 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4869782 TACTTATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4874750 original size:18 final size:20
Alignment explanation
Indices: 4874729--4874771 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
4874719 ATTTATTACT
4874729 TTTTTTGAAT-TT-TTAAAA
1 TTTTTTGAATGTTCTTAAAA
*
4874747 TTTTTTGAATGTTCTTATAA
1 TTTTTTGAATGTTCTTAAAA
4874767 TTTTT
1 TTTTT
4874772 ACATTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.45
19 2 0.09
20 10 0.45
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (20 bp):
TTTTTTGAATGTTCTTAAAA
Found at i:4876741 original size:296 final size:299
Alignment explanation
Indices: 4876059--4876903 Score: 765
Period size: 296 Copynumber: 2.8 Consensus size: 299
4876049 ATTACACATT
* * * * * *
4876059 TTATCTATACTATTATTTAAA-CCTCTAACTGAGTTGTTGGTGTCATAAGCCAACCAGACACCAA
1 TTATCTATATTATTATTTAAACCCT-TGACTGA--AGTTGGTGTCATGAGTCAACCGGACACCAA
* * * *
4876123 CTCGATTAGAAAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATAC
63 CTTGATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAAGATAC
** * * *
4876188 TTTGGTCTTTTTTTTATTGAAAAACAATAAAAAATATATATATGATAGGATTTGAATTCATGCCA
128 TTTAATCTTTTATTTATTGAAAAACAATAAAAAATATATATATGAT--GATTTAAATCCATGCCA
* * *
4876253 ATTACATTAGAAAAATCTTAAATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACATT
191 ATTACATTAGAAAAATCTTAAAGTTACCACTCAATCAAAGCTTTATTTTGATATTATTAAACATT
* * * *
4876318 ACAATTTTATTATACACACTATTATTACCTTCATCAATTGTATA
256 ACAATTTTACTATACACACTATTATTACCATCATCAAATCTATA
* * * * * *
4876362 TTTATTTATATTATTATTTAAACCCTTGACTGAA-TTGGTATTATGAGTCAA-CGAAGCACTAAT
1 -TTATCTATATTATTATTTAAACCCTTGACTGAAGTTGGTGTCATGAGTCAACCGGA-CACCAAC
* * * * *
4876425 TTGATTAG-GTAGATTACTAAAATATCCTCTCGTATTTAATATAAGTTATATTA-TTAAACGGTA
64 TTGATTAGAG-AAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAA-GATA
4876488 CTTTAATCCTTTTATTT-TTG-AAAACAAT-AAAAATATGCATATTATGAT-ATTTAAATCCATG
127 CTTTAAT-CTTTTATTTATTGAAAAACAATAAAAAATAT--ATA-TATGATGATTTAAATCCATG
** * *
4876549 CCAATTGTATTAG-AAAATCTTAAAGTTACCATTCAA-CTACAA-CTTTATTTTGATAACTTTTT
188 CCAATTACATTAGAAAAATCTTAAAGTTACCACTCAATC-A-AAGCTTTATTTTGAT-A-TTATT
** *
4876611 AAACATTTTAATTTTACTATTCACACT-TTATTA-CATCATCAAATCTATA
249 AAACATTACAATTTTACTATACACACTATTATTACCATCATCAAATCTATA
** ** *
4876660 -TATCTATATTATTATTTAAATTCTTGGGT-AAGTTGGTGTCACGAGTCAACCGGACACCAACTT
1 TTATCTATATTATTATTTAAACCCTTGACTGAAGTTGGTGTCATGAGTCAACCGGACACCAACTT
* * * * * * *
4876723 GATTAGAGAAATTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTT
66 GATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAAGATACTTT
* * * * * * * *
4876788 AATATTTTAATTTA---AAATAATAATAAAAAATATACATTTGATGAGATATGAATTCATACCAA
131 AATCTTTT-ATTTATTGAAA-AACAATAAAAAATATATATATGAT--GATTTAAATCCATGCCAA
* * * * * * *
4876850 TTGCATTAGAAAAACCTTAAATTTATCGCTCAACCAAAGCTTTATTTTAATATT
192 TTACATTAGAAAAATCTTAAAGTTACCACTCAATCAAAGCTTTATTTTGATATT
4876904 TTTTACACAT
Statistics
Matches: 437, Mismatches: 77, Indels: 62
0.76 0.13 0.11
Matches are distributed among these distances:
294 5 0.01
295 10 0.02
296 107 0.24
297 40 0.09
298 76 0.17
299 40 0.09
300 40 0.09
301 77 0.18
302 14 0.03
304 25 0.06
305 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (299 bp):
TTATCTATATTATTATTTAAACCCTTGACTGAAGTTGGTGTCATGAGTCAACCGGACACCAACTT
GATTAGAGAAATTACTAAAATATCCTTTCATATTTAAAATAAGTTATATTATTTAAAGATACTTT
AATCTTTTATTTATTGAAAAACAATAAAAAATATATATATGATGATTTAAATCCATGCCAATTAC
ATTAGAAAAATCTTAAAGTTACCACTCAATCAAAGCTTTATTTTGATATTATTAAACATTACAAT
TTTACTATACACACTATTATTACCATCATCAAATCTATA
Found at i:4877600 original size:841 final size:838
Alignment explanation
Indices: 4875755--4877616 Score: 1960
Period size: 840 Copynumber: 2.2 Consensus size: 838
4875745 TAAAGTTTTA
* * * *
4875755 TTTTAATATATTTTAATTCTATTATTCACACTTTATTACATTTATCAAATGTATATATCTATATT
1 TTTTTATACATTTTAATTTTA-T-TTCACACTTTATTACATTCATCAAATGTATATATCTATATT
* * *
4875820 ATTATTTAAATCTCTGACCGAGTTGGTGTCACAAGTC-AACGAAGCACCAACTCGGTTAGGAAAA
64 ATTATTTAAATCT-TGACTGAGTTGGTGTCACGAGTCAAACG-AGCACCAACTTGGTTAGGAAAA
* * * *
4875884 TTACTAAAATGTCCTTTTATGTTTAAAATAAGTTA-AGTTATTCAAGGATACTTTAGTTTTTTAT
127 TTACTAAAATGTCCTTTCATATTTAAAATAAGTTATA-TTATTCAAGGATACTTTAATTTTTAAT
* * * * *
4875948 TTAAAAAGAATAAAAATATACACAAGATATTTGAATTCATGCCAATTGCACTAGGAAAGCCTTAA
191 TTAAAAAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAA
* *
4876013 ATTTATCACTTAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATCTATACTATTATTTA
256 ATTTATCACTCAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTATTATTTA
*
4876078 AACCTCTAACTGAGTTGTTGGTGTCATAAGCCAACCAGACACCAACTCGATTAGAAAAATTACTA
321 AACCTCTAACTGAG-TGTTGGTGTCATAAGCCAACCAGACACCAACTAGATTAGAAAAATTACTA
* ** ** *
4876143 AAATATCCTTTCATATTTAAAATAAGTTATGTTATTTGAAGATACTTTGGTCTTTTTTTTATTGA
385 AAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAGATAC-TT-GTCTAATATTTATT-A
* * * * * *
4876208 AAAACAATAAAAAATATATATATGATAGGATTTGAATTCATGCCAATTACATTAGAAAAATCTTA
447 AAAACAAT----AATATACATAGGATAGGATTTGAATCCATGCCAACTACATTAAAAAAACCTTA
* *
4876273 AATTTACCACTCAATCAAAGCTTTGTTTTGATATTATTATACATTACAATTTTATTATACACACT
508 AATTTACCACTCAACCAAAACTTTGTTTTGATATTATTATACATTACAATTTTATTATACACAC-
* ** * * * *
4876338 ATTATTACCTTCATCAATTGTATATTTATTTATATTATTATTTAAACCCTTGACTGAATTGGTAT
572 -TTATCACCCCCATCAATTGTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTAT
* ** * * * * * * *
4876403 TATGAGTCAACGAAGCACTAATTTGATTAGGTAGATTACTAAAATATCCTCTCGTATTTAATATA
636 CACAAGTCAACGAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGTATTTAAAACA
* ** * *
4876468 AGTTATATTATTAAACGGTACTTTAATCCTTTTATTTTTGAAAACAATAAAAATATGCATATTAT
701 AGTTATATTATTAAACGGTAATTTAATCCTTTTATTTTAAAAAACAATAAAAAAATGCATATGAT
* * *
4876533 GATATTTAAATCCATGCCAATTGTATTAGAAAATCTTAAAGTTACCATTCAACTACAACTTTATT
766 GATATTTAAATCCATGCCAATTGCATTAGAAAATCTTAAAGTTAACATTCAACTAAAACTTTATT
4876598 TTGATAAC
831 TTGATAAC
* *
4876606 TTTTTAAACATTTTAATTTTACTATTCACACTTTATTACA-TCATCAAATCTATATATCTATATT
1 TTTTTATACATTTTAATTTTA-T-TTCACACTTTATTACATTCATCAAATGTATATATCTATATT
** * * *
4876670 ATTATTTAAATTCTTGGGTAAGTTGGTGTCACGAGTCAACCG-GACACCAACTTGATTA-GAGAA
64 ATTATTTAAA-TCTTGACTGAGTTGGTGTCACGAGTCAAACGAG-CACCAACTTGGTTAGGA-AA
* * * * ** * *
4876733 ATTACTAAAATATCATTTCATATTTAAAATAAATTATATTCTTTGAGGCTATTTTAATATTTTAA
126 ATTACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAAT-TTTTAA
* * * *
4876798 TTTAAAATAATAATAAAAAATATACATTTGATGAGATATGAATTCATACCAATTGCATTAGAAAA
190 TTT-AAA-AAGAAT-AAAAATATACA---CAAGAGATATGAATTCATACCAATTGCACTAGAAAA
* *
4876863 ACCTTAAATTTATCGCTCAACCAAAGCTTTATTTTAATATTTT-TTACACATTTTATATATACTA
249 ACCTTAAATTTATCACTCAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTA
* * * * * *
4876927 TTATTTAAA-CTCATAACTGA-T-TTGGTGTGATAAGTCAACCTAG-TACCAATTAGGTTAGCAA
314 TTATTTAAACCTC-TAACTGAGTGTTGGTGTCATAAGCCAACC-AGACACCAACTAGATTAGAAA
* * * *
4876988 AATTACTAAAGTGTCTTTTCGCATTTAAAATAAGTTACATTATTTG-AGAGTA-TT-T-TAATAT
377 AATTACTAAAATATCCTTTCACATTTAAAATAAGTTACATTATTTGAAGA-TACTTGTCTAATAT
* * * * * *
4877049 TTA-T-AAAA-GAT-ATGTGCATAGGATGGGATTTGAATCCATGCTAACTGCATTAAAAAAACCT
441 TTATTAAAAACAATAATATACATAGGATAGGATTTGAATCCATGCCAACTACATTAAAAAAACCT
* * * * * ** *
4877110 TAAATTTACCACTTAGCCAAAATTTTAG-TTTGATATTGTTTATATATTTTAATTTTATTATGCA
506 TAAATTTACCACTCAACCAAAACTTT-GTTTTGATATT-ATTATACATTACAATTTTATTATACA
* *
4877174 CAC-T-TCACCCCCATCAATTGTATATCTATCTATACTCACTATTATTTGAACCCCTAACTGAGT
569 CACTTATCACCCCCATCAATTGTATATCTAT-T-TA-T-ACTATTATTTAAACCCCTAACTGAAT
* ** * *
4877237 TTGTATCACAAGTCAACTCAGCACCAACTCGATTAAGTAAATTACTAAAATGTCCTCTTGTATTT
630 TGGTATCACAAGTCAACGAAGCACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGTATTT
* * * *
4877302 AAAACAAGTTATATTATTAGAGGGTAATTTAGT-CTTTT-TTATTAAAAAATAATAAAAAAATGT
695 AAAACAAGTTATATTATTAAACGGTAATTTAATCCTTTTATT-TTAAAAAACAATAAAAAAATG-
* *
4877365 ACATATGATGA-AGTTTTAAATCCATGGCAATTGCATTAGAAAA-CTTTAAATTTAACATTCAA-
758 -CATATGATGATA--TTTAAATCCATGCCAATTGCATTAGAAAATC-TTAAAGTTAACATTCAAC
* *
4877427 TCAAAATTTTATTTTGAT-AT
819 T-AAAACTTTATTTTGATAAC
* * * *
4877447 TTTTTATACATTTTAATTTTATTTGCACCCTTTATTACATTCATCAATTGTATATATCTAAACTA
1 TTTTTATACATTTTAATTTTATTT-CACACTTTATTACATTCATCAAATGTATATATCTATATTA
* * *
4877512 TTATTTAAACCCTTGATTGAGATGGTGTCACGAGTCAAACGAGCACCAACTTGGTTAGGAAAATT
65 TTATTTAAA-TCTTGACTGAGTTGGTGTCACGAGTCAAACGAGCACCAACTTGGTTAGGAAAATT
* * * * *
4877577 ACGAATATGTCCTTCCGTATTTAAAAGAAGTTATATTATT
129 ACTAAAATGTCCTTTCATATTTAAAATAAGTTATATTATT
4877617 GTCAAAACCA
Statistics
Matches: 837, Mismatches: 142, Indels: 74
0.79 0.13 0.07
Matches are distributed among these distances:
836 21 0.03
837 2 0.00
838 4 0.00
839 94 0.11
840 140 0.17
841 136 0.16
842 59 0.07
844 2 0.00
845 4 0.00
847 1 0.00
848 6 0.01
849 4 0.00
850 109 0.13
851 52 0.06
852 6 0.01
853 76 0.09
854 14 0.02
855 3 0.00
856 36 0.04
857 68 0.08
ACGTcount: A:0.37, C:0.14, G:0.10, T:0.40
Consensus pattern (838 bp):
TTTTTATACATTTTAATTTTATTTCACACTTTATTACATTCATCAAATGTATATATCTATATTAT
TATTTAAATCTTGACTGAGTTGGTGTCACGAGTCAAACGAGCACCAACTTGGTTAGGAAAATTAC
TAAAATGTCCTTTCATATTTAAAATAAGTTATATTATTCAAGGATACTTTAATTTTTAATTTAAA
AAGAATAAAAATATACACAAGAGATATGAATTCATACCAATTGCACTAGAAAAACCTTAAATTTA
TCACTCAACCAAAGCTTTACTTTAATATTTTATTACACATTTTATATATACTATTATTTAAACCT
CTAACTGAGTGTTGGTGTCATAAGCCAACCAGACACCAACTAGATTAGAAAAATTACTAAAATAT
CCTTTCACATTTAAAATAAGTTACATTATTTGAAGATACTTGTCTAATATTTATTAAAAACAATA
ATATACATAGGATAGGATTTGAATCCATGCCAACTACATTAAAAAAACCTTAAATTTACCACTCA
ACCAAAACTTTGTTTTGATATTATTATACATTACAATTTTATTATACACACTTATCACCCCCATC
AATTGTATATCTATTTATACTATTATTTAAACCCCTAACTGAATTGGTATCACAAGTCAACGAAG
CACCAACTCGATTAAGTAAATTACTAAAATATCCTCTCGTATTTAAAACAAGTTATATTATTAAA
CGGTAATTTAATCCTTTTATTTTAAAAAACAATAAAAAAATGCATATGATGATATTTAAATCCAT
GCCAATTGCATTAGAAAATCTTAAAGTTAACATTCAACTAAAACTTTATTTTGATAAC
Found at i:4878715 original size:2 final size:2
Alignment explanation
Indices: 4878703--4878737 Score: 54
Period size: 2 Copynumber: 17.5 Consensus size: 2
4878693 TAATTTAAGA
4878703 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
4878738 GAAAATGAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 28 0.90
3 2 0.06
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:4879844 original size:20 final size:20
Alignment explanation
Indices: 4879819--4879884 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
4879809 CTTGTTTACA
4879819 TTGATTTGATTCTCAATCCT
1 TTGATTTGATTCTCAATCCT
** * * *
4879839 TTGATTTCTTTC-CATTACA
1 TTGATTTGATTCTCAATCCT
4879858 TTGATTTGATTCTCAATCCT
1 TTGATTTGATTCTCAATCCT
4879878 TTGATTT
1 TTGATTT
4879885 CTTTCCTTTA
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
19 14 0.40
20 21 0.60
ACGTcount: A:0.20, C:0.18, G:0.09, T:0.53
Consensus pattern (20 bp):
TTGATTTGATTCTCAATCCT
Found at i:4879868 original size:39 final size:39
Alignment explanation
Indices: 4879814--4879895 Score: 155
Period size: 39 Copynumber: 2.1 Consensus size: 39
4879804 AAAATCTTGT
4879814 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
1 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
*
4879853 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCT
1 TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
4879892 TTAC
1 TTAC
4879896 TGTTTTGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 42 1.00
ACGTcount: A:0.20, C:0.21, G:0.07, T:0.52
Consensus pattern (39 bp):
TTACATTGATTTGATTCTCAATCCTTTGATTTCTTTCCA
Found at i:4886266 original size:10 final size:11
Alignment explanation
Indices: 4886244--4886281 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
4886234 GTTGCTGCGG
*
4886244 AAAAGAAGAGA
1 AAAAGAGGAGA
4886255 AAAAGAGG-GA
1 AAAAGAGGAGA
4886265 AAAAGAGGAGA
1 AAAAGAGGAGA
4886276 AAAAGA
1 AAAAGA
4886282 AGGTATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (11 bp):
AAAAGAGGAGA
Found at i:4886345 original size:19 final size:21
Alignment explanation
Indices: 4886307--4886345 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
4886297 AATAATTGAT
*
4886307 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
4886328 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
4886346 TTTATTAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Found at i:4887715 original size:22 final size:21
Alignment explanation
Indices: 4887672--4887714 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4887662 TTTTTTTTAT
4887672 ATATTTTGGTAAATAAAAAAA
1 ATATTTTGGTAAATAAAAAAA
4887693 ATATTTTGGTAAATAAAAAAA
1 ATATTTTGGTAAATAAAAAAA
4887714 A
1 A
4887715 ACTTATAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (21 bp):
ATATTTTGGTAAATAAAAAAA
Found at i:4887802 original size:74 final size:79
Alignment explanation
Indices: 4887662--4887845 Score: 191
Period size: 75 Copynumber: 2.4 Consensus size: 79
4887652 TTTTGCAGGT
* *** * *
4887662 TTTTTTTTATATATTTTGGTAAATAAAAAAAATATTTTGGTAAATAAAAAAAAACTTATAACATT
1 TTTTTTGTA-ATATTTTGGTAAA-AAACCCATTATTCTGGTAAATAAAAAAAAACTTATAACATT
*
4887727 TTGGT-TATTTTTA-A
64 TTCGTATATTTTTATA
** *
4887741 TTTTTT-TAATATATTT-GT-AAAAACCCATTATTCTGGTAAAT-AAAAAAATTTTATAATATTT
1 TTTTTTGTAATAT-TTTGGTAAAAAACCCATTATTCTGGTAAATAAAAAAAAACTTATAACATTT
* *
4887802 TCGTATTTTTTTATT
65 TCGTATATTTTTATA
4887817 TTTTTTGTAATATTTTGGTAAAAAACCCA
1 TTTTTTGTAATATTTTGGTAAAAAACCCA
4887846 AAATAAACCA
Statistics
Matches: 88, Mismatches: 11, Indels: 13
0.79 0.10 0.12
Matches are distributed among these distances:
74 20 0.23
75 23 0.26
76 11 0.12
77 14 0.16
78 14 0.16
79 6 0.07
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.49
Consensus pattern (79 bp):
TTTTTTGTAATATTTTGGTAAAAAACCCATTATTCTGGTAAATAAAAAAAAACTTATAACATTTT
CGTATATTTTTATA
Found at i:4888514 original size:33 final size:33
Alignment explanation
Indices: 4888475--4888549 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
4888465 AAAATACCTT
4888475 TTCTTTTCTTTTTTTCTCCT-TCCTTCCCTCTTC
1 TTCTTTTCTTTTTTTCTCCTCTCCTTCCCT-TTC
* * *
4888508 TTCTTTTTTTTTTTTCTCTTCTCCTTTCCTTTC
1 TTCTTTTCTTTTTTTCTCCTCTCCTTCCCTTTC
4888541 --CTTTTCTTT
1 TTCTTTTCTTT
4888550 CCTTCTTTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 8 0.22
33 21 0.57
34 8 0.22
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (33 bp):
TTCTTTTCTTTTTTTCTCCTCTCCTTCCCTTTC
Found at i:4888526 original size:21 final size:22
Alignment explanation
Indices: 4888502--4888641 Score: 121
Period size: 22 Copynumber: 6.4 Consensus size: 22
4888492 CCTTCCTTCC
4888502 CTCTTCTTCTTT-TTTTTTTTT
1 CTCTTCTTCTTTCTTTTTTTTT
* **
4888523 CTCTTCTCCTTTCCTTTCCTTTT
1 CTCTTCTTCTTT-CTTTTTTTTT
*
4888546 CT-TTCCTTCTTTCTTTCTTTTT
1 CTCTT-CTTCTTTCTTTTTTTTT
4888568 -TCTTCTTCTTTCTTTCTTTTTTT
1 CTCTTCTTCTTTC-TT-TTTTTTT
* * *
4888591 CTCTTCTCCTTTCCTTTTCTTT
1 CTCTTCTTCTTTCTTTTTTTTT
4888613 C-CTTCTT-TTTCTTTCTTTCTTT
1 CTCTTCTTCTTTCTTT-TTT-TTT
4888635 CT-TTCTT
1 CTCTTCTT
4888642 TCCCTCTCCT
Statistics
Matches: 97, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
20 6 0.06
21 27 0.28
22 31 0.32
23 22 0.23
24 11 0.11
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (22 bp):
CTCTTCTTCTTTCTTTTTTTTT
Found at i:4888559 original size:4 final size:4
Alignment explanation
Indices: 4888543--4888643 Score: 97
Period size: 4 Copynumber: 26.0 Consensus size: 4
4888533 TTCCTTTCCT
* *
4888543 TTTC TTTC CTTC TTTC TTTC TTT- TTTC -TTC -TTC TTTC TTTC TTTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
* *
4888588 TTTC TCTTC -TCC TTTCC TTTTC TTTC CTTC -TT- TTTC TTTC TTTC TTTC
1 TTTC T-TTC TTTC TTT-C -TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
4888636 TTTC TTTC
1 TTTC TTTC
4888644 CCTCTCCTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 16
0.78 0.07 0.15
Matches are distributed among these distances:
3 15 0.18
4 59 0.72
5 5 0.06
6 3 0.04
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:4888588 original size:68 final size:67
Alignment explanation
Indices: 4888503--4888641 Score: 201
Period size: 68 Copynumber: 2.1 Consensus size: 67
4888493 CTTCCTTCCC
*
4888503 TCTTCTTCTTTTTTTTTTTTCTCTTCTCCTTTCCTTTCCTTTTCTT-TCCTTCTTTCTTTCTTT-
1 TCTTCTTCTTTTTTTTTTTTCTCTTCTCCTTTCCTTTCCTTTCCTTCTCCTTCTTTCTTTCTTTC
4888566 TT
66 TT
* **
4888568 TCTTCTTCTTTCTTTCTTTTTTTCTCTTCTCCTTTCCTTTTCTTTCCTTCTTTTTCTTTCTTTCT
1 TCTTCTTC-TT-TTT-TTTTTTTCTCTTCTCCTTTCCTTTCCTTTCCTTCTCCTTCTTTCTTTCT
4888633 TTCTT
63 TTCTT
4888638 TCTT
1 TCTT
4888642 TCCCTCTCCT
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
65 8 0.12
66 2 0.03
67 3 0.05
68 31 0.48
69 15 0.23
70 6 0.09
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (67 bp):
TCTTCTTCTTTTTTTTTTTTCTCTTCTCCTTTCCTTTCCTTTCCTTCTCCTTCTTTCTTTCTTTC
TT
Found at i:4888946 original size:21 final size:21
Alignment explanation
Indices: 4888922--4888962 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4888912 ACTTTATTAT
4888922 TATTATATATTAT-TAGTTTTG
1 TATT-TATATTATATAGTTTTG
*
4888943 TATTTATATTTTATAGTTTT
1 TATTTATATTATATAGTTTT
4888963 TATAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (21 bp):
TATTTATATTATATAGTTTTG
Found at i:4888963 original size:22 final size:23
Alignment explanation
Indices: 4888924--4888976 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
4888914 TTTATTATTA
* *
4888924 TTATATATTATTAGTTTTGT-AT
1 TTATATTTTATTAGTTTTATAAT
4888946 TTATATTTTA-TAGTTTTTATAAT
1 TTATATTTTATTAG-TTTTATAAT
4888969 TT-TATTTT
1 TTATATTTT
4888977 TTAATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 3 0.11
22 20 0.74
23 4 0.15
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (23 bp):
TTATATTTTATTAGTTTTATAAT
Found at i:4894577 original size:17 final size:18
Alignment explanation
Indices: 4894544--4894589 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
4894534 GGATTGGAAA
*
4894544 TCATATTTTTGTTGTTTT
1 TCATATTTTTGTCGTTTT
4894562 TCATATTTTT-TCGTTTT
1 TCATATTTTTGTCGTTTT
*
4894579 TTATGATTTTT
1 TCAT-ATTTTT
4894590 ATATTTTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.13, C:0.07, G:0.09, T:0.72
Consensus pattern (18 bp):
TCATATTTTTGTCGTTTT
Found at i:4894647 original size:3 final size:3
Alignment explanation
Indices: 4894639--4894663 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4894629 ACCTGATTTA
4894639 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
4894664 TATAACTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4897409 original size:24 final size:24
Alignment explanation
Indices: 4897375--4897422 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
4897365 AACAAAGAGC
*
4897375 AAATTTTAAAAGAGCTCTTAGTAA
1 AAATTTCAAAAGAGCTCTTAGTAA
4897399 AAATTTCAAAAGAGCTCTTAGTAA
1 AAATTTCAAAAGAGCTCTTAGTAA
4897423 GCTTTCGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.31
Consensus pattern (24 bp):
AAATTTCAAAAGAGCTCTTAGTAA
Found at i:4903676 original size:19 final size:19
Alignment explanation
Indices: 4903654--4903695 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
4903644 TTAATAAGAT
*
4903654 AAAAGTAAAGGTTTATTAC
1 AAAAGTAAAAGTTTATTAC
*
4903673 AAAA-TAAAATTTTATTAC
1 AAAAGTAAAAGTTTATTAC
4903691 AAAAG
1 AAAAG
4903696 AGAAGATGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.31
Consensus pattern (19 bp):
AAAAGTAAAAGTTTATTAC
Found at i:4906292 original size:7 final size:8
Alignment explanation
Indices: 4906267--4906293 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
4906257 TTAAATTTTC
4906267 TTTATGTT
1 TTTATGTT
4906275 TTTATGTT
1 TTTATGTT
4906283 TTTATGTT
1 TTTATGTT
4906291 TTT
1 TTT
4906294 TGAATGTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.78
Consensus pattern (8 bp):
TTTATGTT
Found at i:4908349 original size:17 final size:17
Alignment explanation
Indices: 4908323--4908410 Score: 65
Period size: 18 Copynumber: 5.2 Consensus size: 17
4908313 ACGAAAAAAA
4908323 TTTA-AAACACGAGAAT
1 TTTAGAAACACGAGAAT
*
4908339 TTTAGAAACACGAAAAT
1 TTTAGAAACACGAGAAT
* *
4908356 TCTTAAAAAAACGA-AATT
1 T-TTAGAAACACGAGAA-T
* *
4908374 TTTTGAAAACACGACAAT
1 TTTAG-AAACACGAGAAT
* *
4908392 TTT-GAAACATGTGAAT
1 TTTAGAAACACGAGAAT
4908408 TTT
1 TTT
4908411 TTTGAAAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
16 16 0.28
17 17 0.29
18 23 0.40
19 2 0.03
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTAGAAACACGAGAAT
Found at i:4908371 original size:18 final size:17
Alignment explanation
Indices: 4908326--4908394 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 17
4908316 AAAAAAATTT
*
4908326 AAAACACGAGAATTTTA
1 AAAACACGAAAATTTTA
*
4908343 GAAACACGAAAATTCTTA
1 AAAACACGAAAATT-TTA
* * *
4908361 AAAAAACGAAATTTTTTG
1 AAAACACGAAA-ATTTTA
*
4908379 AAAACACGACAATTTT
1 AAAACACGAAAATTTT
4908395 GAAACATGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
17 16 0.39
18 23 0.56
19 2 0.05
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (17 bp):
AAAACACGAAAATTTTA
Found at i:4908593 original size:18 final size:18
Alignment explanation
Indices: 4908447--4908659 Score: 127
Period size: 18 Copynumber: 11.6 Consensus size: 18
4908437 TAATCACCGG
4908447 AATTTTTGAAAACAC-AA
1 AATTTTTGAAAACACGAA
*
4908464 GGATTTTTG-AAACACGAA
1 -AATTTTTGAAAACACGAA
**
4908482 TTTTTTTTG-AAACACGAA
1 -AATTTTTGAAAACACGAA
*
4908500 AATTGTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
* *
4908518 ATTTTTTTTTAAAACAC-AA
1 A--ATTTTTGAAAACACGAA
* * *
4908537 GGATTTGTTGAAAATAAGAA
1 -AATTT-TTGAAAACACGAA
*
4908557 AAATTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
4908575 AACTTTTGAAAACACG-A
1 AATTTTTGAAAACACGAA
* *
4908592 AATTTTT-AAAAGACGGGA
1 AATTTTTGAAAACAC-GAA
*
4908610 ATTTTTTG-AAACACGAGAA
1 AATTTTTGAAAACAC--GAA
*
4908629 AATTTTGTTTGAAGACACGAA
1 AA--TT-TTTGAAAACACGAA
4908650 AA-TTTTGAAA
1 AATTTTTGAAA
4908660 CCCGAGGATT
Statistics
Matches: 151, Mismatches: 29, Indels: 31
0.72 0.14 0.15
Matches are distributed among these distances:
16 6 0.04
17 25 0.17
18 76 0.50
19 15 0.10
20 13 0.09
21 7 0.05
22 4 0.03
23 5 0.03
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:4909193 original size:17 final size:16
Alignment explanation
Indices: 4909170--4909208 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4909160 TGTTGGGCTG
4909170 TTTTTTTTT-CTGCTGC
1 TTTTTTTTTGCTGCT-C
*
4909186 TCTTTTTTTGCTGCTC
1 TTTTTTTTTGCTGCTC
4909202 TTTTTTT
1 TTTTTTT
4909209 CTTTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.00, C:0.18, G:0.10, T:0.72
Consensus pattern (16 bp):
TTTTTTTTTGCTGCTC
Found at i:4909197 original size:14 final size:13
Alignment explanation
Indices: 4909172--4909232 Score: 74
Period size: 14 Copynumber: 4.7 Consensus size: 13
4909162 TTGGGCTGTT
4909172 TTTTTTTCTGCTGC
1 TTTTTTT-TGCTGC
4909186 TCTTTTTTTGCTGC
1 T-TTTTTTTGCTGC
4909200 TCTTTTTTT-CT--
1 T-TTTTTTTGCTGC
4909211 TTTTTTTTGCTGC
1 TTTTTTTTGCTGC
4909224 TTTTTTTTG
1 TTTTTTTTG
4909233 GGCTGCTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
10 7 0.16
11 3 0.07
13 11 0.26
14 16 0.37
15 6 0.14
ACGTcount: A:0.00, C:0.16, G:0.11, T:0.72
Consensus pattern (13 bp):
TTTTTTTTGCTGC
Found at i:4909375 original size:3 final size:3
Alignment explanation
Indices: 4909362--4909417 Score: 94
Period size: 3 Copynumber: 18.3 Consensus size: 3
4909352 TCCTTTTTTC
*
4909362 CTT CTTT CTT CTT CTT CTG CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
4909408 CTT CTT CTT C
1 CTT CTT CTT C
4909418 AACACCGAGC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 47 0.94
4 3 0.06
ACGTcount: A:0.00, C:0.34, G:0.02, T:0.64
Consensus pattern (3 bp):
CTT
Found at i:4909537 original size:24 final size:23
Alignment explanation
Indices: 4909500--4909550 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
4909490 TTCTCTCCTC
*
4909500 TTTTCTCTTATTTTCGAAGCTTT
1 TTTTCTCTTATTTTCGAAACTTT
* *
4909523 TTTTCTTCTTTTTTTCGAAATTTT
1 TTTTC-TCTTATTTTCGAAACTTT
4909547 TTTT
1 TTTT
4909551 GATGATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.12, C:0.14, G:0.06, T:0.69
Consensus pattern (23 bp):
TTTTCTCTTATTTTCGAAACTTT
Found at i:4909916 original size:29 final size:29
Alignment explanation
Indices: 4909855--4910017 Score: 177
Period size: 30 Copynumber: 5.6 Consensus size: 29
4909845 CAGCAAAACT
*
4909855 TTTA-GGGCCAAAATGTAATTTTAAGAAAG
1 TTTAGGGGTCAAAATGTAATTTTAA-AAAG
* *
4909884 TTTAGGGGTCAAAATGTAATTTTGAAAAT
1 TTTAGGGGTCAAAATGTAATTTTAAAAAG
**
4909913 TTTAGGGGTCAAAATGTAA-TTTAAAATTT
1 TTTAGGGGTCAAAATGTAATTTTAAAA-AG
** * * *
4909942 TTTAGGGGTTGAACTATAATTTTGAGAAAG
1 TTTAGGGGTCAAAATGTAATTTT-AAAAAG
4909972 TTTAGGGGTCAAAATGTAATTTTAAAAAAG
1 TTTAGGGGTCAAAATGTAATTTT-AAAAAG
*
4910002 TTTAAGGGTCAAAATG
1 TTTAGGGGTCAAAATG
4910018 CAAAAAAAAT
Statistics
Matches: 111, Mismatches: 19, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
28 6 0.05
29 42 0.38
30 60 0.54
31 3 0.03
ACGTcount: A:0.39, C:0.04, G:0.21, T:0.36
Consensus pattern (29 bp):
TTTAGGGGTCAAAATGTAATTTTAAAAAG
Found at i:4909932 original size:59 final size:58
Alignment explanation
Indices: 4909849--4910017 Score: 198
Period size: 59 Copynumber: 2.9 Consensus size: 58
4909839 TAATGACAGC
*
4909849 AAAACTTTTA-GGGCCAAAATGTAATTTTAAGAAAGTTTAGGGGTCAAAATGTAATTTTG
1 AAAA-TTTTAGGGGTCAAAATGTAATTTTAA-AAAGTTTAGGGGTCAAAATGTAATTTTG
** ** * *
4909908 AAAATTTTAGGGGTCAAAATGTAA-TTTAAAATTTTTTAGGGGTTGAACTATAATTTTG
1 AAAATTTTAGGGGTCAAAATGTAATTTTAAAA-AGTTTAGGGGTCAAAATGTAATTTTG
* *
4909966 AGAAAGTTTAGGGGTCAAAATGTAATTTTAAAAAAGTTTAAGGGTCAAAATG
1 A-AAATTTTAGGGGTCAAAATGTAATTTT-AAAAAGTTTAGGGGTCAAAATG
4910018 CAAAAAAAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
57 2 0.02
58 31 0.34
59 39 0.43
60 14 0.16
61 4 0.04
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.35
Consensus pattern (58 bp):
AAAATTTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAGGGGTCAAAATGTAATTTTG
Found at i:4910364 original size:74 final size:75
Alignment explanation
Indices: 4910205--4910952 Score: 800
Period size: 74 Copynumber: 9.8 Consensus size: 75
4910195 TCAGCGTGAA
* * *
4910205 ACCCGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAGCA-AGAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGA-AATTGAAAAA
4910269 TACCTCGACGTG
64 TACCTCGACGTG
* * * * *
4910281 ACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTGGAAAAATATAAATTGAAAAACA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
4910345 CCTCGACGTG
66 CCTCGACGTG
* *
4910355 ACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT-GAA-AA
* *
4910419 ATACCTCGGCATG
63 ATACCTCGACGTG
** * * *
4910432 GTCCGAGGCTCAATTCACCTCTCGAAATATGAGTTGA-TTTTTGAAAAACAGGAATTGAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
*
4910496 CCTCGGCGTG
66 CCTCGACGTG
* * *
4910506 ACCCAAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAATTG-AAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTGAAAAAT
* *
4910570 ACCTCAGGATGCG
65 ACCTC--GACGTG
* * * *
4910583 ACCCGAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTGAAAAACAAAAATTG-AAGATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
*
4910647 CCTCAGGATGTG
66 CCTC--GACGTG
* *
4910659 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCAAAAGCAGAAATTG-AA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAAACAGAAATTGAAA
*
4910723 AATACCTCAGGATGTG
62 AATACCTC--GACGTG
*
4910739 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGTTTTGAAAAAACATAAATTG
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TT-TTTTG-AAAAACAGAAATTG
4910804 -AAAATACCTC-AGCGTG
59 AAAAATACCTCGA-CGTG
* * *** *
4910820 ACCCGAGGCTCAACTTACCTCTAGCAATATGAGTTGATTTTAAAAAAAGACATAAATT-AAAAAT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-ACAGAAATTGAAAAAT
4910884 ACCTC-AGCGTG
65 ACCTCGA-CGTG
* *
4910895 ACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTG-AAAAACAGAAATT
4910953 AAATTAAAAA
Statistics
Matches: 593, Mismatches: 59, Indels: 41
0.86 0.09 0.06
Matches are distributed among these distances:
74 142 0.24
75 75 0.13
76 134 0.23
77 99 0.17
80 73 0.12
81 44 0.07
82 4 0.01
83 22 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (75 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTGAAAAATA
CCTCGACGTG
Found at i:4910461 original size:151 final size:147
Alignment explanation
Indices: 4910205--4910934 Score: 736
Period size: 151 Copynumber: 4.8 Consensus size: 147
4910195 TCAGCGTGAA
* * *
4910205 ACCCGAGGCCCAACTCACCTCTAGCAATATGAGTTGATTTTTTTGAAAAGCA-AGAATTGAAAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGA-AATT-AAAAA
* * * * * *
4910269 TACCTCGACGTGACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGGAAAAATATAA
63 TACCTCGGCATGGCCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTGGAAAAACATAA
*
4910334 ATTGAAAAACACCTCGACGTG
128 ATTG-AAAATACCTCGACGTG
*
4910355 ACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTTAAAAGAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAA-TT--AA-AA
* * * **
4910419 ATACCTCGGCATGGTCCGAGGCTCAATTCACCTCTCGAAATATGAGTTGATTTTTGAAAAACAGG
62 ATACCTCGGCATGGCCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTGGAAAAACATA
*
4910484 AATTGAAAAATACCTCGGCGTG
127 AATTG-AAAATACCTCGACGTG
* * * *
4910506 ACCCAAGGCTCAACTCACCTCTCACATTATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAACAGAAATTAAAAATA
* *
4910571 CCTCAGG-ATGCGACCCGAGGCTCAACTCACCTCTC-ACATTATGAGTTGATTTTTTGAAAAACA
65 CCTC-GGCATG-G-CCCGAGGCTCAACTCACCTCTCGA-AATATGAGTTGA-TTTTGGAAAAACA
* * *
4910634 AAAATTGAAGATACCTCAGGATGTG
125 TAAATTGAAAATACCTC--GACGTG
* * *
4910659 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTCAAAAGCAGAAATTGAAA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA----TTTTTTGAAAAACAGAAATTAAAA
*
4910724 ATACCTCAGG-ATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGTTTT
62 ATACCTC-GGCATG-G-CCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGA---TTTTG----
4910788 GAAAAAACATAAATTGAAAATACCTC-AGCGTG
117 G-AAAAACATAAATTGAAAATACCTCGA-CGTG
* * *** *
4910820 ACCCGAGGCTCAACTTACCTCTAGCAATATGAGTTGATTTTAAAAAAAGACATAAATTAAAAATA
1 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA-ACAGAAATTAAAAATA
* * * * *
4910885 CCTCAGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGATTTT
65 CCTCGGCATGGCCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTT
4910935 TTTGAAAAAA
Statistics
Matches: 497, Mismatches: 56, Indels: 52
0.82 0.09 0.09
Matches are distributed among these distances:
148 14 0.03
149 15 0.03
150 41 0.08
151 149 0.30
152 24 0.05
153 55 0.11
155 12 0.02
156 92 0.19
157 9 0.02
158 24 0.05
160 1 0.00
161 38 0.08
162 1 0.00
163 22 0.04
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (147 bp):
ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAACAGAAATTAAAAATAC
CTCGGCATGGCCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGATTTTGGAAAAACATAAATT
GAAAATACCTCGACGTG
Found at i:4911242 original size:75 final size:77
Alignment explanation
Indices: 4911078--4911254 Score: 252
Period size: 75 Copynumber: 2.3 Consensus size: 77
4911068 NNNNNNNNNN
* * *
4911078 GAGTTGATTTTTTGAAAAAAAAACTTAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTTA
1 GAGTTGATTTTTT-AAAAAAAAACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCA
4911143 CCTCTAGCAATAT
65 CCTCTAGCAATAT
*
4911156 GAGTTGA-TTTTT-AAAAAAGACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCAC
1 GAGTTGATTTTTTAAAAAAAAACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCAC
* *
4911219 CTCT-GTATTAT
66 CTCTAGCAATAT
*
4911230 GAGTTGATTTTTTTGAAAAAAAACA
1 GAGTTGA-TTTTTTAAAAAAAAACA
4911255 GAATTTTAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
74 12 0.13
75 51 0.57
76 5 0.06
77 14 0.16
78 7 0.08
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (77 bp):
GAGTTGATTTTTTAAAAAAAAACATAAATTAAAAATACCTCAGCGTGACCCGAGGCTCAACTCAC
CTCTAGCAATAT
Found at i:4912138 original size:9 final size:9
Alignment explanation
Indices: 4912126--4912167 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
4912116 TGATTTTTCT
4912126 TTTTTTTTG
1 TTTTTTTTG
4912135 TTTTTTTTG
1 TTTTTTTTG
*
4912144 -TTGTTTT-
1 TTTTTTTTG
*
4912151 TTTTGTTTG
1 TTTTTTTTG
4912160 TTTTTTTT
1 TTTTTTTT
4912168 TGTCTCTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 11 0.41
9 16 0.59
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:4912140 original size:12 final size:12
Alignment explanation
Indices: 4912125--4912168 Score: 70
Period size: 12 Copynumber: 3.6 Consensus size: 12
4912115 TTGATTTTTC
4912125 TTTTTTTTTGTT
1 TTTTTTTTTGTT
*
4912137 TTTTTTGTTGTT
1 TTTTTTTTTGTT
4912149 TTTTTTGTTTGTT
1 TTTTTT-TTTGTT
4912162 TTTTTTT
1 TTTTTTT
4912169 GTCTCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
12 18 0.62
13 11 0.38
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:4912177 original size:13 final size:12
Alignment explanation
Indices: 4912126--4912179 Score: 51
Period size: 13 Copynumber: 4.5 Consensus size: 12
4912116 TGATTTTTCT
4912126 TTTTTTTTGTT-
1 TTTTTTTTGTTC
*
4912137 TTTTTTGTTGTTT
1 TTTTTT-TTGTTC
4912150 TTTTTGTTTG-T-
1 TTTTT-TTTGTTC
4912161 TTTTTTTTGTCTC
1 TTTTTTTTGT-TC
4912174 TTTTTT
1 TTTTTT
4912180 ATTCAGGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 10
0.79 0.00 0.21
Matches are distributed among these distances:
10 4 0.11
11 11 0.30
12 7 0.19
13 14 0.38
14 1 0.03
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (12 bp):
TTTTTTTTGTTC
Found at i:4912177 original size:25 final size:25
Alignment explanation
Indices: 4912122--4912179 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
4912112 ATCTTGATTT
4912122 TTCTTTTTTTTTGTTTTTTTTGTTG
1 TTCTTTTTTTTTGTTTTTTTTGTTG
4912147 TT-TTTTTTGTTTG-TTTTTTT-TTG
1 TTCTTTTTT-TTTGTTTTTTTTGTTG
4912170 TCTCTTTTTT
1 T-TCTTTTTT
4912180 ATTCAGGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.13
24 14 0.47
25 12 0.40
ACGTcount: A:0.00, C:0.05, G:0.10, T:0.84
Consensus pattern (25 bp):
TTCTTTTTTTTTGTTTTTTTTGTTG
Found at i:4917499 original size:22 final size:22
Alignment explanation
Indices: 4917474--4917517 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
4917464 AAATCCCAAA
4917474 TTTTCTTCCTTTCCTTCCCTTT
1 TTTTCTTCCTTTCCTTCCCTTT
* * * *
4917496 TTTTTTTCTTTTTCTTTCCTTT
1 TTTTCTTCCTTTCCTTCCCTTT
4917518 CCTTCTTTCC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTCTTCCTTTCCTTCCCTTT
Found at i:4924819 original size:17 final size:17
Alignment explanation
Indices: 4924793--4924880 Score: 65
Period size: 18 Copynumber: 5.2 Consensus size: 17
4924783 CGAAAAAAAA
4924793 TTTA-AAACACGAGAAT
1 TTTAGAAACACGAGAAT
*
4924809 TTTAGAAACACGAAAAT
1 TTTAGAAACACGAGAAT
* *
4924826 TATTAAAAAAACGA-AATT
1 T-TTAGAAACACGAGAA-T
* *
4924844 TTTTGAAAACACGACAAT
1 TTTAG-AAACACGAGAAT
* *
4924862 TTT-GAAACATGTGAAT
1 TTTAGAAACACGAGAAT
4924878 TTT
1 TTT
4924881 TTTGAAAACA
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
16 16 0.28
17 17 0.29
18 23 0.40
19 2 0.03
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTAGAAACACGAGAAT
Found at i:4924841 original size:18 final size:17
Alignment explanation
Indices: 4924796--4924864 Score: 66
Period size: 18 Copynumber: 3.9 Consensus size: 17
4924786 AAAAAAATTT
*
4924796 AAAACACGAGAATTTTA
1 AAAACACGAAAATTTTA
*
4924813 GAAACACGAAAATTATTA
1 AAAACACGAAAATT-TTA
* * *
4924831 AAAAAACGAAATTTTTTG
1 AAAACACGAAA-ATTTTA
*
4924849 AAAACACGACAATTTT
1 AAAACACGAAAATTTT
4924865 GAAACATGTG
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
17 16 0.39
18 23 0.56
19 2 0.05
ACGTcount: A:0.52, C:0.12, G:0.10, T:0.26
Consensus pattern (17 bp):
AAAACACGAAAATTTTA
Found at i:4924854 original size:36 final size:36
Alignment explanation
Indices: 4924770--4924895 Score: 96
Period size: 36 Copynumber: 3.5 Consensus size: 36
4924760 AAACAATTAT
* ** * *
4924770 TTTTTTGAGAACACGAAAAAAAATTTAAAACACGAGAA
1 TTTTTTGAAAACACG-AAAATTATTAAAAAAACGA-AA
*
4924808 -TTTTAG-AAACACGAAAATTATTAAAAAAACGAAA
1 TTTTTTGAAAACACGAAAATTATTAAAAAAACGAAA
* * *** *
4924842 TTTTTTGAAAACACGACAATT-TTGAAACATGTGAAT
1 TTTTTTGAAAACACGAAAATTATT-AAAAAAACGAAA
4924878 TTTTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
4924896 GAAAAAAATT
Statistics
Matches: 71, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
34 2 0.03
35 22 0.31
36 42 0.59
37 5 0.07
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (36 bp):
TTTTTTGAAAACACGAAAATTATTAAAAAAACGAAA
Found at i:4924958 original size:18 final size:18
Alignment explanation
Indices: 4924937--4925005 Score: 77
Period size: 18 Copynumber: 3.7 Consensus size: 18
4924927 ACACAAGGAG
4924937 TTTTGAAACACGAATTTT
1 TTTTGAAACACGAATTTT
*
4924955 TTTTGAAACACGAA-TAT
1 TTTTGAAACACGAATTTT
*
4924972 TGTTGAAAGCACGAAATTTTT
1 TTTTGAAA-CACG-AA-TTTT
*
4924993 TTTTAAAACACGA
1 TTTTGAAACACGA
4925006 GGATTTGTTG
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 9 0.21
18 18 0.43
19 3 0.07
20 4 0.10
21 8 0.19
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.38
Consensus pattern (18 bp):
TTTTGAAACACGAATTTT
Found at i:4925002 original size:38 final size:35
Alignment explanation
Indices: 4924939--4925018 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 35
4924929 ACAAGGAGTT
*
4924939 TTGAAACACGAATTTTTTTTGAAACACGA-ATATTG
1 TTGAAACACGAATTTTTTTTAAAACACGAGAT-TTG
4924974 TTGAAAGCACGAAATTTTTTTTTAAAACACGAGGATTTG
1 TTGAAA-CACG-AA-TTTTTTTTAAAACACGA-GATTTG
4925013 TTGAAA
1 TTGAAA
4925019 ATAAGAAAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
35 6 0.15
36 4 0.10
37 2 0.05
38 16 0.41
39 9 0.23
40 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (35 bp):
TTGAAACACGAATTTTTTTTAAAACACGAGATTTG
Found at i:4925036 original size:18 final size:18
Alignment explanation
Indices: 4925013--4925062 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
4925003 CGAGGATTTG
*
4925013 TTGAAAATAAGAAAAATT
1 TTGAAAACAAGAAAAATT
* *
4925031 TTGAAAACACGAAAACTT
1 TTGAAAACAAGAAAAATT
*
4925049 TTGAAAACACGAAA
1 TTGAAAACAAGAAA
4925063 TTTTTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (18 bp):
TTGAAAACAAGAAAAATT
Found at i:4925071 original size:16 final size:17
Alignment explanation
Indices: 4925025--4925075 Score: 77
Period size: 18 Copynumber: 3.0 Consensus size: 17
4925015 GAAAATAAGA
4925025 AAAATTTTGAAAACACG
1 AAAATTTTGAAAACACG
4925042 AAAACTTTTGAAAACACG
1 AAAA-TTTTGAAAACACG
*
4925060 -AAATTTTTAAAACACG
1 AAAATTTTGAAAACACG
4925076 GGAATTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
16 12 0.38
17 7 0.22
18 13 0.41
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.25
Consensus pattern (17 bp):
AAAATTTTGAAAACACG
Found at i:4925084 original size:17 final size:17
Alignment explanation
Indices: 4925026--4925083 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
4925016 AAAATAAGAA
*
4925026 AAATTTTGAAAACACGA
1 AAATTTTGAAAACACGG
4925043 AAACTTTTGAAAACAC-G
1 AAA-TTTTGAAAACACGG
*
4925060 AAATTTTTAAAACACGG
1 AAATTTTGAAAACACGG
*
4925077 GAATTTT
1 AAATTTT
4925084 TTGAAACAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 11 0.31
17 13 0.36
18 12 0.33
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
AAATTTTGAAAACACGG
Found at i:4925704 original size:14 final size:15
Alignment explanation
Indices: 4925680--4925713 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
4925670 TGGGCTATTT
4925680 TTTTTTCTGCTGCTC
1 TTTTTTCTGCTGCTC
4925695 TTTTTT-TGCTGCTC
1 TTTTTTCTGCTGCTC
4925709 TTTTT
1 TTTTT
4925714 ATCTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.00, C:0.21, G:0.12, T:0.68
Consensus pattern (15 bp):
TTTTTTCTGCTGCTC
Found at i:4925885 original size:3 final size:3
Alignment explanation
Indices: 4925872--4925906 Score: 61
Period size: 3 Copynumber: 11.3 Consensus size: 3
4925862 TCCTTTTTTC
4925872 CTT CTTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT C-TT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
4925907 AACACCGAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:4926026 original size:24 final size:23
Alignment explanation
Indices: 4925989--4926039 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 23
4925979 TTCTCTCCTC
*
4925989 TTTTCTCTTATTTTCGAAGCTTT
1 TTTTCTCTTATTTTCGAAACTTT
* *
4926012 TTTTCTTCTTTTTTTCGAAATTTT
1 TTTTC-TCTTATTTTCGAAACTTT
4926036 TTTT
1 TTTT
4926040 GATGATTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.12, C:0.14, G:0.06, T:0.69
Consensus pattern (23 bp):
TTTTCTCTTATTTTCGAAACTTT
Found at i:4926210 original size:9 final size:9
Alignment explanation
Indices: 4926192--4926225 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
4926182 CATTTGTGTG
*
4926192 TTTTTCCTT
1 TTTTTTCTT
4926201 TTTTTTCTT
1 TTTTTTCTT
4926210 TTTTTCTCTT
1 TTTTT-TCTT
4926220 TTTTTT
1 TTTTTT
4926226 GCTGGGCTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:4926386 original size:29 final size:29
Alignment explanation
Indices: 4926336--4926483 Score: 181
Period size: 30 Copynumber: 5.0 Consensus size: 29
4926326 GGCCAAAACA
4926336 TAATTTTAAGAAAGTTTAGGGGTCAAAATG
1 TAATTTTAA-AAAGTTTAGGGGTCAAAATG
*
4926366 TAATTTTTAAAAGTTTAGGGGTCAAAATG
1 TAATTTTAAAAAGTTTAGGGGTCAAAATG
* ** *
4926395 TAA-TTTAAAAATTTTTAGGGGTTGAACTG
1 TAATTTTAAAAA-GTTTAGGGGTCAAAATG
*
4926424 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTT-AAAAAGTTTAGGGGTCAAAATG
* *
4926454 TAATTTTAGAAAAGTTTAAGGGTAAAAATG
1 TAATTTTA-AAAAGTTTAGGGGTCAAAATG
4926484 CAAAAAAATT
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.07
29 40 0.40
30 49 0.49
31 4 0.04
ACGTcount: A:0.39, C:0.03, G:0.22, T:0.36
Consensus pattern (29 bp):
TAATTTTAAAAAGTTTAGGGGTCAAAATG
Found at i:4934690 original size:30 final size:30
Alignment explanation
Indices: 4934651--4934707 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
4934641 TTTTATAAAT
4934651 AATTAATATTT-AT-TGCTTAAAAATATTTAA
1 AATTAATATTTCATATG-TT-AAAATATTTAA
*
4934681 AATTTATATTTCATATGTTAAAATATT
1 AATTAATATTTCATATGTTAAAATATT
4934708 AACAACAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATGTTAAAATATTTAA
Found at i:4934902 original size:13 final size:13
Alignment explanation
Indices: 4934886--4934920 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
4934876 ACCAAACTTT
4934886 TCAAAAGCAGTTC
1 TCAAAAGCAGTTC
*
4934899 TCAAAAGCAGTTT
1 TCAAAAGCAGTTC
4934912 TCAAAAGCA
1 TCAAAAGCA
4934921 ATGAAGAACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (13 bp):
TCAAAAGCAGTTC
Found at i:4936408 original size:16 final size:16
Alignment explanation
Indices: 4936387--4936422 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
4936377 TTTGGTTCGC
4936387 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4936403 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
4936419 TGTA
1 TGTA
4936423 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:4936679 original size:18 final size:17
Alignment explanation
Indices: 4936658--4936692 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
4936648 TTATTATTAA
*
4936658 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
4936676 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
4936693 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:4936759 original size:159 final size:157
Alignment explanation
Indices: 4936545--4936863 Score: 575
Period size: 159 Copynumber: 2.0 Consensus size: 157
4936535 TAGAATACCC
*
4936545 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
* * *
4936610 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
4936675 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTTAATAAAATTCTTAATAA
*
4936702 TTAGCAGAAATTTGTTTTGGTAAATTATTTTATTGTTATTGTTATTTAAATTTTAATAAGATTAT
1 TTAGCAGAAATTTGTTTTGGTAAATGA--TTATTGTTATTGTTATTTAAATTTTAATAAGATTAT
4936767 TAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
64 TAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAA
4936832 AATATATAATTTAATAAAATTCTTAATAA
129 AATATATAATTTAATAAAATTCTTAATAA
4936861 TTA
1 TTA
4936864 ATTACTCAAA
Statistics
Matches: 155, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
157 25 0.16
159 130 0.84
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTTAATAAAATTCTTAATAA
Found at i:4936834 original size:16 final size:16
Alignment explanation
Indices: 4936797--4936838 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
4936787 TTAATCATAT
*
4936797 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
4936813 TT-AAATATATTATAA
1 TTAAAATATATTATAA
4936828 TTAAAATATAT
1 TTAAAATATAT
4936839 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:4936845 original size:14 final size:15
Alignment explanation
Indices: 4936806--4936847 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
4936796 TTTAAACATA
*
4936806 ATTATTATTAAATAT
1 ATTATAATTAAATAT
4936821 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
4936835 A-TATAATTTAATA
1 ATTATAATTAAATA
4936848 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:4943961 original size:20 final size:19
Alignment explanation
Indices: 4943914--4944010 Score: 74
Period size: 20 Copynumber: 5.1 Consensus size: 19
4943904 AAAACGAAAA
*
4943914 TTTTGAAACACGAGATTTTT
1 TTTTGAAACAC-AAATTTTT
**
4943934 TTAGGAAACACAAATTTTCT
1 TTTTGAAACACAAATTTT-T
**
4943954 TTTTGAAACACAAA--AAT
1 TTTTGAAACACAAATTTTT
* *
4943971 TTTTAAAACACAAAATTTT
1 TTTTGAAACACAAATTTTT
4943990 TTTTGAAA-ACATAATATTTT
1 TTTTGAAACACA-AAT-TTTT
4944010 T
1 T
4944011 GATAAAATAT
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
17 14 0.23
18 3 0.05
19 16 0.27
20 27 0.45
ACGTcount: A:0.41, C:0.10, G:0.07, T:0.41
Consensus pattern (19 bp):
TTTTGAAACACAAATTTTT
Found at i:4943991 original size:17 final size:17
Alignment explanation
Indices: 4943953--4943990 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
4943943 ACAAATTTTC
*
4943953 TTTTTGAAACACAAAAA
1 TTTTTAAAACACAAAAA
4943970 TTTTTAAAACAC-AAAA
1 TTTTTAAAACACAAAAA
4943986 TTTTT
1 TTTTT
4943991 TTTGAAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (17 bp):
TTTTTAAAACACAAAAA
Found at i:4944000 original size:57 final size:57
Alignment explanation
Indices: 4943892--4944009 Score: 130
Period size: 57 Copynumber: 2.1 Consensus size: 57
4943882 ACTTTTCTTT
* * * * * *
4943892 TTTTTTTTTTAAAAAACGAAAATTTTGAAACACGAGATTTTTTTAGGAAACACAA-A
1 TTTTCTTTTTAAAAAACAAAAATTTTAAAACACAAAATTTTTTTAGAAAACACAATA
* * * *
4943948 TTTTCTTTTTGAAACACAAAAATTTTTAAAACACAAAATTTTTTTTGAAAACATAATA
1 TTTTCTTTTTAAAAAACAAAAA-TTTTAAAACACAAAATTTTTTTAGAAAACACAATA
4944006 TTTT
1 TTTT
4944010 TGATAAAATA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
56 18 0.36
57 27 0.54
58 5 0.10
ACGTcount: A:0.42, C:0.09, G:0.07, T:0.42
Consensus pattern (57 bp):
TTTTCTTTTTAAAAAACAAAAATTTTAAAACACAAAATTTTTTTAGAAAACACAATA
Found at i:4944009 original size:17 final size:17
Alignment explanation
Indices: 4943953--4944012 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
4943943 ACAAATTTTC
*
4943953 TTTTTGAAACACAAAAA
1 TTTTTGAAACACAAATA
* *
4943970 TTTTTAAAACACAAAATTT
1 TTTTTGAAACAC-AAA-TA
4943989 TTTTTGAAA-ACATAATA
1 TTTTTGAAACACA-AATA
4944006 TTTTTGA
1 TTTTTGA
4944013 TAAAATATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 20 0.57
18 7 0.20
19 8 0.23
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (17 bp):
TTTTTGAAACACAAATA
Found at i:4944057 original size:16 final size:16
Alignment explanation
Indices: 4944036--4944067 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4944026 ACCACGAGAG
4944036 TTTTTTTGAAACACGA
1 TTTTTTTGAAACACGA
4944052 TTTTTTTGAAACACGA
1 TTTTTTTGAAACACGA
4944068 AAATTTATGA
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:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (16 bp):
TTTTTTTGAAACACGA
Found at i:4944881 original size:14 final size:14
Alignment explanation
Indices: 4944859--4944895 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4944849 ACTAGGCCGA
*
4944859 AGCTGCTGGGCTGG
1 AGCTGCTGGGCTGC
*
4944873 AGCTACTGGGCTGC
1 AGCTGCTGGGCTGC
4944887 AGCTGCTGG
1 AGCTGCTGG
4944896 ACTACTGCAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.11, C:0.24, G:0.43, T:0.22
Consensus pattern (14 bp):
AGCTGCTGGGCTGC
Found at i:4944961 original size:12 final size:12
Alignment explanation
Indices: 4944944--4944986 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4944934 GCTGCGCTGG
4944944 GCCTGGCCTGCT
1 GCCTGGCCTGCT
4944956 GCCTGG-CTGCT
1 GCCTGGCCTGCT
**
4944967 GGAGTGGCCTGCT
1 -GCCTGGCCTGCT
4944980 GCCTGGC
1 GCCTGGC
4944987 TGTTGGGTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
11 5 0.20
12 15 0.60
13 5 0.20
ACGTcount: A:0.02, C:0.35, G:0.40, T:0.23
Consensus pattern (12 bp):
GCCTGGCCTGCT
Found at i:4945484 original size:8 final size:8
Alignment explanation
Indices: 4945462--4945500 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
4945452 TTGACCTTTG
4945462 AAAAGAAA
1 AAAAGAAA
4945470 AAGAAGAAA
1 AA-AAGAAA
4945479 AAAAGAAA
1 AAAAGAAA
**
4945487 AAAATTAA
1 AAAAGAAA
4945495 AAAAGA
1 AAAAGA
4945501 GCTCAGCTTG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 18 0.69
9 8 0.31
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (8 bp):
AAAAGAAA
Found at i:4946005 original size:83 final size:80
Alignment explanation
Indices: 4945509--4946132 Score: 666
Period size: 81 Copynumber: 7.8 Consensus size: 80
4945499 GAGCTCAGCT
* * * *
4945509 TGACTCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTTTTTTTTTTG-AAAACATAAA-
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTTTTGAAAAACAGAAAT
* *
4945572 TT-GAAAATACCTCAGC--G
61 TTAAAAAATACCTCGGCATG
* * * * *
4945589 TGACCTGAGGCTTAACTCACCTCTCGCATTATGAGTTGA---TTTTTGAAAAACAGAAAATTGAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAA
4945651 AAATACCTCGGCATG
66 AAATACCTCGGCATG
* * *
4945666 TGACCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAGCAAAAATTTAAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTT-AA
* *
4945730 AGAAATACCACGACATG
65 A-AAATACCTCGGCATG
* * * * *
4945747 TGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTTAAAAAGTAGTAA-TTG
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTGAAAAA-CAGAAATTTA
*
4945811 AAAAATACCTCGGCGTG
64 AAAAATACCTCGGCATG
4945828 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTT-AAAAACAGAAATTTAAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTT-AA
* *
4945892 AGAAATACCACGACATG
65 A-AAATACCTCGGCATG
*
4945909 TGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAACAGAAATTTAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG-AAAAACAGAAATTT-A
*
4945974 AAGAAATACCTTGGCATG
64 AA-AAATACCTCGGCATG
* ** *
4945992 TGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTTTTTTTTTTGAAAAGTAGTAA-
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG--A---TTTTTTTTGAAAAACAGAAAT
* *
4946056 TTGAAAAATACCTCGGCGTG
61 TTAAAAAATACCTCGGCATG
* *
4946076 TGACCCGGGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAAAAACAGAAAT
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAAT
4946133 CGAAAATAAT
Statistics
Matches: 468, Mismatches: 53, Indels: 49
0.82 0.09 0.09
Matches are distributed among these distances:
72 6 0.01
73 9 0.02
74 2 0.00
75 12 0.03
76 14 0.03
77 36 0.08
78 4 0.01
79 24 0.05
80 47 0.10
81 158 0.34
82 3 0.01
83 80 0.17
84 51 0.11
85 3 0.01
86 2 0.00
87 8 0.02
88 9 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (80 bp):
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAACAGAAATTTAAA
AAATACCTCGGCATG
Found at i:4946998 original size:1 final size:1
Alignment explanation
Indices: 4946988--4947067 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
4946978 TTCATCTTGA
* * * ** * * * * *
4946988 TTTTTCTTTTTCTTTTTTGTTTTTTTTCGTTTTTGTTTTTTTTGTTTTTTTTGTTTTTTCTCTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* *
4947053 TTTCTCTTTTTTTTT
1 TTTTTTTTTTTTTTT
4947068 CAGGCATAAT
Statistics
Matches: 56, Mismatches: 23, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 56 1.00
ACGTcount: A:0.00, C:0.09, G:0.06, T:0.85
Consensus pattern (1 bp):
T
Found at i:4947013 original size:16 final size:16
Alignment explanation
Indices: 4946994--4947065 Score: 81
Period size: 16 Copynumber: 4.3 Consensus size: 16
4946984 TTGATTTTTC
4946994 TTTTTCTTTTTTGTTT
1 TTTTTCTTTTTTGTTT
*
4947010 TTTTTCGTTTTTGTTTT
1 TTTTTCTTTTTTG-TTT
*
4947027 TTTTGTTTTTTTTGTTT
1 TTTT-TCTTTTTTGTTT
* *
4947044 TTTCTCTTTTTTCTCTT
1 TTTTTCTTTTTTGT-TT
4947061 TTTTT
1 TTTTT
4947066 TTCAGGCATA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
16 20 0.43
17 19 0.41
18 7 0.15
ACGTcount: A:0.00, C:0.08, G:0.07, T:0.85
Consensus pattern (16 bp):
TTTTTCTTTTTTGTTT
Found at i:4947014 original size:9 final size:9
Alignment explanation
Indices: 4947000--4947066 Score: 68
Period size: 9 Copynumber: 7.7 Consensus size: 9
4946990 TTTCTTTTTC
4947000 TTTTTTGTT
1 TTTTTTGTT
4947009 TTTTTTCG--
1 TTTTTT-GTT
4947017 -TTTTTGTT
1 TTTTTTGTT
4947025 TTTTTTGTT
1 TTTTTTGTT
4947034 TTTTTTGTT
1 TTTTTTGTT
* *
4947043 TTTTCTCTT
1 TTTTTTGTT
* *
4947052 TTTTCTCTT
1 TTTTTTGTT
4947061 TTTTTT
1 TTTTTT
4947067 TCAGGCATAA
Statistics
Matches: 51, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
6 1 0.02
7 5 0.10
9 44 0.86
10 1 0.02
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:4947043 original size:34 final size:35
Alignment explanation
Indices: 4947000--4947065 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 35
4946990 TTTCTTTTTC
* *
4947000 TTTTTTGTTTTTTTTCGTTTTTGT-TTTTTTTGTT
1 TTTTTTGTTTTTTCTCGTTTTTCTCTTTTTTTGTT
*
4947034 TTTTTTGTTTTTTCTCTTTTTTCTCTTTTTTT
1 TTTTTTGTTTTTTCTCGTTTTTCTCTTTTTTT
4947066 TTCAGGCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.85
Consensus pattern (35 bp):
TTTTTTGTTTTTTCTCGTTTTTCTCTTTTTTTGTT
Found at i:4947046 original size:25 final size:26
Alignment explanation
Indices: 4947000--4947066 Score: 84
Period size: 25 Copynumber: 2.6 Consensus size: 26
4946990 TTTCTTTTTC
*
4947000 TTTTTTGTTTTTTTTCGTTTTTGT-T
1 TTTTTTGTTTTTTTTCGTTTTTCTCT
4947025 TTTTTTGTTTTTTTT-GTTTTTTCTCT
1 TTTTTTGTTTTTTTTCG-TTTTTCTCT
*
4947051 TTTTTCTCTTTTTTTT
1 TTTTT-TGTTTTTTTT
4947067 TCAGGCATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
24 1 0.03
25 21 0.57
26 6 0.16
27 9 0.24
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.85
Consensus pattern (26 bp):
TTTTTTGTTTTTTTTCGTTTTTCTCT
Found at i:4952786 original size:20 final size:20
Alignment explanation
Indices: 4952739--4952823 Score: 63
Period size: 20 Copynumber: 4.4 Consensus size: 20
4952729 AAAACGAAAA
* *
4952739 TTTTGAAACACTAGATTTTT
1 TTTTGAAACACGAAATTTTT
**
4952759 TTAGGAAACAC-AAATTTTCT
1 TTTTGAAACACGAAATTTT-T
*
4952779 TTTTGAAACACGAAA---AT
1 TTTTGAAACACGAAATTTTT
*
4952796 TTTTAAAACAC-AAATTTTTT
1 TTTTGAAACACGAAA-TTTTT
4952816 TTTTGAAA
1 TTTTGAAA
4952824 ACATAATATT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
16 3 0.06
17 11 0.22
19 6 0.12
20 27 0.54
21 3 0.06
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (20 bp):
TTTTGAAACACGAAATTTTT
Found at i:4952815 original size:16 final size:17
Alignment explanation
Indices: 4952778--4952814 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4952768 ACAAATTTTC
*
4952778 TTTTTGAAACACGAAAA
1 TTTTTAAAACACGAAAA
4952795 TTTTTAAAACAC--AAA
1 TTTTTAAAACACGAAAA
4952810 TTTTT
1 TTTTT
4952815 TTTTTGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 8 0.42
17 11 0.58
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:4952936 original size:36 final size:36
Alignment explanation
Indices: 4952847--4953099 Score: 202
Period size: 36 Copynumber: 7.0 Consensus size: 36
4952837 GATAAAATAC
*
4952847 GAAACACGAGGATTTTTTTTG-AAACACGAAAATTTAT
1 GAAACACGA-GA-TTTTTTTGAAAACACGAAAATTTTT
4952884 GAAACACG-GTCAATTTTTTTGAAAACACGAAAATTTTT
1 GAAACACGAG---ATTTTTTTGAAAACACGAAAATTTTT
* * * *
4952922 GAAAGACGAGATTTTTTTGAAAATACGGAAATTTAT
1 GAAACACGAGATTTTTTTGAAAACACGAAAATTTTT
* *
4952958 GAAACACG-GAATTTTTTTGAAAACAAGAAAATTTTC
1 GAAACACGAG-ATTTTTTTGAAAACACGAAAATTTTT
* * *
4952994 GAAATACGAGA--CTTTTGAAAACAAGGAAAATTTTTT
1 GAAACACGAGATTTTTTTGAAAAC-ACGAAAA-TTTTT
* * * * *
4953030 GAAAACACAACAATTTTTTG-AAACACCAGAA-TTTT
1 G-AAACACGAGATTTTTTTGAAAACACGAAAATTTTT
4953065 GAAAACACGAAGA--TTTTTG-AAACACGAAAATTTTT
1 G-AAACACG-AGATTTTTTTGAAAACACGAAAATTTTT
4953100 TTAAAACACG
Statistics
Matches: 176, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
34 25 0.14
35 24 0.14
36 66 0.38
37 28 0.16
38 27 0.15
39 6 0.03
ACGTcount: A:0.43, C:0.11, G:0.15, T:0.31
Consensus pattern (36 bp):
GAAACACGAGATTTTTTTGAAAACACGAAAATTTTT
Found at i:4952988 original size:72 final size:72
Alignment explanation
Indices: 4952846--4953097 Score: 225
Period size: 72 Copynumber: 3.5 Consensus size: 72
4952836 TGATAAAATA
*
4952846 CGAAACACGAGGATTTTTTTTGAAACACGAAAATTTATGAAACACGGTCAATTTTTTTGAAAACA
1 CGAAAGACGA-GA-TTTTTTTGAAACACGAAAATTTATGAAACACGG-CAATTTTTTTGAAAACA
*
4952911 CGAAAATTTT
63 AGAAAATTTT
* * *
4952921 TGAAAGACGAGATTTTTTTGAAAATACGGAAATTTATGAAACACGG-AATTTTTTTGAAAACAAG
1 CGAAAGACGAGATTTTTTTG-AAACACGAAAATTTATGAAACACGGCAATTTTTTTGAAAACAAG
4952985 AAAATTTT
65 AAAATTTT
* * * * **
4952993 CGAAATACGAGA--CTTTTGAAAACAAGGAAAATTTTTTGAAAACACAACAA-TTTTTTGAAACA
1 CGAAAGACGAGATTTTTTTG-AAAC-ACGAAAA-TTTATG-AAACACGGCAATTTTTTTGAAA-A
*
4953055 CCAG--AATTTT
61 CAAGAAAATTTT
*
4953065 -GAAAACACGAAGA--TTTTTGAAACACGAAAATTT
1 CG-AAAGACG-AGATTTTTTTGAAACACGAAAATTT
4953098 TTTTAAAACA
Statistics
Matches: 151, Mismatches: 18, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
70 12 0.08
71 12 0.08
72 56 0.37
73 32 0.21
74 31 0.21
75 8 0.05
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.31
Consensus pattern (72 bp):
CGAAAGACGAGATTTTTTTGAAACACGAAAATTTATGAAACACGGCAATTTTTTTGAAAACAAGA
AAATTTT
Found at i:4953100 original size:18 final size:17
Alignment explanation
Indices: 4952862--4953099 Score: 140
Period size: 17 Copynumber: 13.3 Consensus size: 17
4952852 ACGAGGATTT
4952862 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
4952879 TTTATGAAACACGGTCAATT
1 TTTTTGAAACAC-G--AAAA
4952899 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* **
4952917 TTTTTGAAAGACGAGATT
1 TTTTTGAAACACGA-AAA
* *
4952935 TTTTTGAAAATACGGAAA
1 TTTTTG-AAACACGAAAA
* **
4952953 TTTATGAAACACGGAATT
1 TTTTTGAAACAC-GAAAA
*
4952971 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* * *
4952989 TTTTCGAAATACG-AGA
1 TTTTTGAAACACGAAAA
* *
4953005 CTTTTGAAAACAAGGAAAA
1 TTTTTG-AAAC-ACGAAAA
4953024 TTTTTTGAAAACAC-AACAA
1 -TTTTTG-AAACACGAA-AA
* *
4953043 TTTTTTGAAACACCAGAA
1 -TTTTTGAAACACGAAAA
*
4953061 -TTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
4953078 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
4953095 TTTTT
1 TTTTT
4953100 TTAAAACACG
Statistics
Matches: 167, Mismatches: 38, Indels: 32
0.70 0.16 0.14
Matches are distributed among these distances:
16 11 0.07
17 54 0.32
18 54 0.32
19 24 0.14
20 18 0.11
21 6 0.04
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:4953209 original size:20 final size:20
Alignment explanation
Indices: 4953184--4953226 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
4953174 TCACGAGAGT
4953184 TTTTTTTTGAAACACGAAAA
1 TTTTTTTTGAAACACGAAAA
4953204 TTTTTTTTGAAACACGAAAA
1 TTTTTTTTGAAACACGAAAA
4953224 TTT
1 TTT
4953227 ATGAAACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.09, G:0.09, T:0.44
Consensus pattern (20 bp):
TTTTTTTTGAAACACGAAAA
Found at i:4953233 original size:17 final size:17
Alignment explanation
Indices: 4953187--4953452 Score: 149
Period size: 17 Copynumber: 14.8 Consensus size: 17
4953177 CGAGAGTTTT
4953187 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
4953204 TTTTTTTTGAAACACGAAAA
1 ---TTTTTGAAACACGAAAA
* * **
4953224 TTTATGAAACATGGTCAATT
1 TTTTTGAAACA-CG--AAAA
4953244 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * *
4953262 TTTTTGAAAGACGGGATA
1 TTTTTGAAACAC-GAAAA
*
4953280 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* *
4953298 TTTATGAAACACGAAAT
1 TTTTTGAAACACGAAAA
*
4953315 TTTGTTGTAAACAAGAAAA
1 TTT-TTG-AAACACGAAAA
* *
4953334 TTTTTGAAATACG-AGA
1 TTTTTGAAACACGAAAA
* *
4953350 CTTTTGAAAACAAGGAAAA
1 TTTTTG-AAAC-ACGAAAA
* ** *
4953369 TTTTTTATTCACGAGAA
1 TTTTTGAAACACGAAAA
*
4953386 TTTTTGAAACACGAAGAT
1 TTTTTGAAACACGAA-AA
*
4953404 TTTTTGAAAACACGGAAA
1 TTTTTG-AAACACGAAAA
* **
4953422 -TTTTGAAAACATGAATTT
1 TTTTTG-AAACACGAA-AA
4953440 TTTTTGAAACACG
1 TTTTTGAAACACG
4953453 GGAGATTTTA
Statistics
Matches: 187, Mismatches: 44, Indels: 32
0.71 0.17 0.12
Matches are distributed among these distances:
16 7 0.04
17 64 0.34
18 50 0.27
19 36 0.19
20 25 0.13
21 5 0.03
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.34
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:4953291 original size:36 final size:36
Alignment explanation
Indices: 4953207--4953461 Score: 166
Period size: 36 Copynumber: 7.1 Consensus size: 36
4953197 ACGAAAATTT
* * * *
4953207 TTTTTG-AAACACGAAAATTTATGAAACATGGTCAATT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGG--GATA
*
4953244 TTTTTGAAAACACGAAAATTTTTGAAAGACGGGATA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGGGATA
* * **
4953280 TTTTTGAAAACACGGAAATTTATGAAACACGAAAT-
1 TTTTTGAAAACACGAAAATTTTTGAAACACGGGATA
* * * *
4953315 TTTGTTGTAAACAAGAAAATTTTTGAAATAC--GAGA
1 TTT-TTGAAAACACGAAAATTTTTGAAACACGGGATA
* * * ** *
4953350 CTTTTGAAAACAAGGAAAATTTTTTATTCACGAGA-A
1 TTTTTGAAAAC-ACGAAAATTTTTGAAACACGGGATA
*
4953386 TTTTTG-AAACACGAAGATTTTTTGAAAACAC-GGA-A
1 TTTTTGAAAACACGAA-AATTTTTG-AAACACGGGATA
* * ** *
4953421 ATTTTGAAAACATGAATTTTTTTTGAAACACGGGAGA
1 TTTTTGAAAACACGAA-AATTTTTGAAACACGGGATA
4953458 TTTT
1 TTTT
4953462 ATTATTATTA
Statistics
Matches: 171, Mismatches: 36, Indels: 22
0.75 0.16 0.10
Matches are distributed among these distances:
34 12 0.07
35 43 0.25
36 82 0.48
37 12 0.07
38 22 0.13
ACGTcount: A:0.41, C:0.09, G:0.16, T:0.34
Consensus pattern (36 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGGGATA
Found at i:4953510 original size:18 final size:17
Alignment explanation
Indices: 4953471--4953511 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
4953461 TATTATTATT
4953471 ATTTTGAAACATGAGAA
1 ATTTTGAAACATGAGAA
4953488 ATTTTGAAAGCATGA-AA
1 ATTTTGAAA-CATGAGAA
4953505 ACTTTTG
1 A-TTTTG
4953512 GAACTCGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.41, C:0.07, G:0.17, T:0.34
Consensus pattern (17 bp):
ATTTTGAAACATGAGAA
Found at i:4954022 original size:14 final size:14
Alignment explanation
Indices: 4954003--4954048 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
4953993 TGCCAAGGAA
*
4954003 CTGGGCCGAAGCTG
1 CTGGGCTGAAGCTG
*
4954017 CTGGGCTGGAGCTG
1 CTGGGCTGAAGCTG
*
4954031 CTGGGCTGCAGCTG
1 CTGGGCTGAAGCTG
4954045 CTGG
1 CTGG
4954049 ACTACTGCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.09, C:0.26, G:0.46, T:0.20
Consensus pattern (14 bp):
CTGGGCTGAAGCTG
Found at i:4954262 original size:28 final size:30
Alignment explanation
Indices: 4954219--4954296 Score: 88
Period size: 28 Copynumber: 2.6 Consensus size: 30
4954209 CCTGCTGTTT
* *
4954219 TTATTTTTATTTTTTCTTTCTTATTC-TCTC
1 TTATTTCT-TTTTTTCTCTCTTATTCTTCTC
*
4954249 TT-TTTCTTTTTTTCTCTCTTCTTCTTCTC
1 TTATTTCTTTTTTTCTCTCTTATTCTTCTC
4954278 TTAACTTTCTTTTTTTCTC
1 TT-A-TTTCTTTTTTTCTC
4954297 CTTCGGCAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.37
29 10 0.24
30 2 0.05
32 14 0.34
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (30 bp):
TTATTTCTTTTTTTCTCTCTTATTCTTCTC
Found at i:4954265 original size:18 final size:20
Alignment explanation
Indices: 4954229--4954280 Score: 72
Period size: 18 Copynumber: 2.6 Consensus size: 20
4954219 TTATTTTTAT
4954229 TTTTTCTTTCTTATTCTCTC
1 TTTTTCTTTCTTATTCTCTC
4954249 TTTTTCTTT-TT-TTCTCTC
1 TTTTTCTTTCTTATTCTCTC
*
4954267 TTCTTCTTCTCTTA
1 TTTTTCTT-TCTTA
4954281 ACTTTCTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 14 0.50
19 3 0.11
20 11 0.39
ACGTcount: A:0.04, C:0.25, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTCTTTCTTATTCTCTC
Found at i:4954436 original size:21 final size:21
Alignment explanation
Indices: 4954406--4954470 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
4954396 TCCCTTTTCC
*
4954406 TTTTTCTTCTTTGCTTTTCTT
1 TTTTTTTTCTTTGCTTTTCTT
*
4954427 TTTTTTTTCTTTTGCTTGTTGTT
1 TTTTTTTTC-TTTGCTT-TTCTT
* * *
4954450 TTCTTTTT-GTTGCTTTGCTT
1 TTTTTTTTCTTTGCTTTTCTT
4954470 T
1 T
4954471 GTAGGCGTTG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
20 4 0.11
21 14 0.39
22 7 0.19
23 11 0.31
ACGTcount: A:0.00, C:0.14, G:0.11, T:0.75
Consensus pattern (21 bp):
TTTTTTTTCTTTGCTTTTCTT
Found at i:4954440 original size:22 final size:22
Alignment explanation
Indices: 4954406--4954457 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
4954396 TCCCTTTTCC
*
4954406 TTTTTCTTCTTTGCTT-TTCTT
1 TTTTTTTTCTTTGCTTGTTCTT
*
4954427 TTTTTTTTCTTTTGCTTGTTGTT
1 TTTTTTTTC-TTTGCTTGTTCTT
*
4954450 TTCTTTTT
1 TTTTTTTT
4954458 GTTGCTTTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 8 0.31
22 7 0.27
23 11 0.42
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (22 bp):
TTTTTTTTCTTTGCTTGTTCTT
Found at i:4954456 original size:24 final size:25
Alignment explanation
Indices: 4954399--4954470 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 25
4954389 CCCTTTTTCC
*
4954399 CTTTTCCTTTTTCTTCTTTGCTTTT
1 CTTTTCTTTTTTCTTCTTTGCTTTT
4954424 CTTTT-TTTTTTC-T-TTTGCTTGTT
1 CTTTTCTTTTTTCTTCTTTGCTT-TT
* *
4954447 GTTTTCTTTTTGT-TGCTTTGCTTT
1 CTTTTCTTTTT-TCTTCTTTGCTTT
4954471 GTAGGCGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
22 7 0.18
23 7 0.18
24 11 0.28
25 7 0.18
26 7 0.18
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.74
Consensus pattern (25 bp):
CTTTTCTTTTTTCTTCTTTGCTTTT
Found at i:4954880 original size:30 final size:29
Alignment explanation
Indices: 4954846--4955006 Score: 117
Period size: 29 Copynumber: 5.4 Consensus size: 29
4954836 AATACGAGGT
*
4954846 TAAAATGTAATTTTTGAAAAATTTAAGGGC
1 TAAAATGTAA-TTTTGAAAAGTTTAAGGGC
** * *
4954876 TAAAACATAATTTAGAAAAGTTT-AGGGG
1 TAAAATGTAATTTTGAAAAGTTTAAGGGC
* * *
4954904 TAGAAATGTAAATTTGAGAAAGTTTAGGGGT
1 TA-AAATGTAATTTTGA-AAAGTTTAAGGGC
* ** * *
4954935 TGAAATGTAATTTCAAAAAGTTTAGGGGT
1 TAAAATGTAATTTTGAAAAGTTTAAGGGC
* * * *
4954964 TGAAATGTAATTTAGAAAAGTTCAGGGGCC
1 TAAAATGTAATTTTGAAAAGTTTAAGGG-C
*
4954994 CAAAATGTAATTT
1 TAAAATGTAATTT
4955007 ATATTTTTTG
Statistics
Matches: 106, Mismatches: 21, Indels: 8
0.79 0.16 0.06
Matches are distributed among these distances:
28 6 0.06
29 59 0.56
30 37 0.35
31 4 0.04
ACGTcount: A:0.41, C:0.04, G:0.22, T:0.32
Consensus pattern (29 bp):
TAAAATGTAATTTTGAAAAGTTTAAGGGC
Found at i:4954956 original size:29 final size:29
Alignment explanation
Indices: 4954883--4954991 Score: 159
Period size: 29 Copynumber: 3.7 Consensus size: 29
4954873 GGCTAAAACA
*
4954883 TAATTTAGAAAAGTTTAGGGGTAGAAATG
1 TAATTTAGAAAAGTTTAGGGGTTGAAATG
4954912 TAAATTT-GAGAAAGTTTAGGGGTTGAAATG
1 T-AATTTAGA-AAAGTTTAGGGGTTGAAATG
4954942 TAATTTCA-AAAAGTTTAGGGGTTGAAATG
1 TAATTT-AGAAAAGTTTAGGGGTTGAAATG
*
4954971 TAATTTAGAAAAGTTCAGGGG
1 TAATTTAGAAAAGTTTAGGGG
4954992 CCCAAAATGT
Statistics
Matches: 73, Mismatches: 2, Indels: 10
0.86 0.02 0.12
Matches are distributed among these distances:
28 1 0.01
29 46 0.63
30 26 0.36
ACGTcount: A:0.39, C:0.02, G:0.28, T:0.32
Consensus pattern (29 bp):
TAATTTAGAAAAGTTTAGGGGTTGAAATG
Found at i:4955000 original size:59 final size:59
Alignment explanation
Indices: 4954883--4955007 Score: 157
Period size: 59 Copynumber: 2.1 Consensus size: 59
4954873 GGCTAAAACA
* ***
4954883 TAATTTAGAAAAGTTTAGGGGTAGAAATGTAAATTTGAGAAAGTTTAGGGGTTGAAATG
1 TAATTTAGAAAAGTTTAGGGGTAGAAATGTAAATTTGAGAAAGTTCAGGGGCCAAAATG
*
4954942 TAATTTCA-AAAAGTTTAGGGGTTGAAATGT-AATTT-AGAAAAGTTCAGGGGCCCAAAATG
1 TAATTT-AGAAAAGTTTAGGGGTAGAAATGTAAATTTGAG-AAAGTTCAGGGG-CCAAAATG
4955001 TAATTTA
1 TAATTTA
4955008 TATTTTTTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
57 2 0.03
58 17 0.29
59 38 0.66
60 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.25, T:0.32
Consensus pattern (59 bp):
TAATTTAGAAAAGTTTAGGGGTAGAAATGTAAATTTGAGAAAGTTCAGGGGCCAAAATG
Found at i:4955651 original size:81 final size:79
Alignment explanation
Indices: 4955378--4956015 Score: 660
Period size: 81 Copynumber: 8.0 Consensus size: 79
4955368 AAGAAAAAAA
* * *
4955378 TTAAAAAATACCTC-AGC-T-TGACTCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTTTT
1 TTAAAAAATACCTCGA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---TT
*
4955440 TTTTTG-AAAACATAAA-
62 TTTTTGAAAAACAGAAAT
* * * *
4955456 TT-GAAAATACCTC-AGC--GTGACCTGAGGCTTAACTCACCTCTCGCATTATGAGTTGA--TTT
1 TTAAAAAATACCTCGA-CATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
*
4955515 TTGAAAAACAGAAAA
65 TTGAAAAACAGAAAT
* * *
4955530 TTGAAAAATACCTCGGCATGTGACCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
4955595 TGAAAAGCAGAAAT
66 TGAAAAACAGAAAT
* *
4955609 TTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTGT
1 TT-AAA-AAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-T-T
* ** *
4955674 TTTTTTAAAAGTAGTAA-
62 TTTTTGAAAAACAGAAAT
* * *
4955691 TTGAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
1 TTAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
4955756 TGAAAAACAGAAAT
66 TGAAAAACAGAAAT
* *
4955770 TTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 TT-AAA-AAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT
4955835 TTTTGAAAAAACAGAAAT
63 TTTTG-AAAAACAGAAAT
*
4955853 TTAAAAGAAATACCTCGGA-ATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAATT
1 TT-AAA-AAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-A--
* * *
4955917 TTTTTTTTTTAAAAAGTAGTAA-
60 --TTTTTTTGAAAAA-CAGAAAT
* * * * * *
4955939 TTGAAAAATACCTCGGCGTGTGACCCGGGGCTCAACTCACCTCTGGCAATATGAGCTGA--TTTT
1 TTAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
4956002 TGAAAAACAGAAAT
66 TGAAAAACAGAAAT
4956016 CGAAAATAAT
Statistics
Matches: 482, Mismatches: 52, Indels: 53
0.82 0.09 0.09
Matches are distributed among these distances:
72 6 0.01
73 9 0.02
74 2 0.00
75 11 0.02
76 4 0.01
77 94 0.20
78 16 0.03
79 21 0.04
80 54 0.11
81 102 0.21
82 11 0.02
83 83 0.17
84 48 0.10
85 2 0.00
86 7 0.01
87 12 0.02
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (79 bp):
TTAAAAAATACCTCGACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
TGAAAAACAGAAAT
Found at i:4955725 original size:161 final size:159
Alignment explanation
Indices: 4955375--4955921 Score: 695
Period size: 161 Copynumber: 3.4 Consensus size: 159
4955365 ACAAAGAAAA
* * * *
4955375 AAATTAAAAAATACCTCAGC-T-TGACTCGAGGCTCAACTCACCTCTCGGATTATGAGTTGATTT
1 AAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA---
* * * * * *
4955438 TTTTTTTGAAAACATAAA-TT--GA-AAATACCTC-AGC--GTGACCTGAGGCTTAACTCACCTC
63 TTTTTTTGAAAACAGAAATTTAAAAGAAATACCACGA-CATGTGACCCGAAGCTCAACTCACCTC
* *
4955496 TCGCATTATGAGTTGA---TTTTTGAAAAACAG
127 TCGCAATATGAGTTGATTTTTTTTAAAAAACAG
* *
4955526 AAAATTGAAAAATACCTCGGCATGTGACCCGGGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 -AAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
4955591 TTTTTGAAAAGCAGAAATTTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTC
65 TTTTTGAAAA-CAGAAATTTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTC
* **
4955656 GCAATATGAGTTGATTGTTTTTTTAAAAGTAG
129 GCAATATGAGTTGATT-TTTTTTAAAAAACAG
* * *
4955688 TAATTGAAAAATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 AAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
4955753 TTTTGAAAAACAGAAATTTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTCG
66 TTTTG-AAAACAGAAATTTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTCG
4955818 CAATATGAGTTGATTTTTTTTGAAAAAACAG
130 CAATATGAGTTGATTTTTTTT-AAAAAACAG
* *
4955849 AAATTTAAAAGAAATACCTCGGAATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAA-TT-AAA-AAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTG-
4955914 ATTTTTTT
62 ATTTTTTT
4955922 TTTTTAAAAA
Statistics
Matches: 348, Mismatches: 27, Indels: 27
0.87 0.07 0.07
Matches are distributed among these distances:
151 12 0.03
152 23 0.07
153 3 0.01
154 35 0.10
155 1 0.00
156 9 0.03
157 1 0.00
158 36 0.10
160 6 0.02
161 145 0.42
162 17 0.05
163 2 0.01
164 50 0.14
165 8 0.02
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (159 bp):
AAATTAAAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
TTTTGAAAACAGAAATTTAAAAGAAATACCACGACATGTGACCCGAAGCTCAACTCACCTCTCGC
AATATGAGTTGATTTTTTTTAAAAAACAG
Found at i:4956894 original size:18 final size:18
Alignment explanation
Indices: 4956872--4956944 Score: 94
Period size: 18 Copynumber: 3.9 Consensus size: 18
4956862 TTGATCTTGA
*
4956872 TTTTTCTTTTTCTTTTTTG
1 TTTTT-TTTTTGTTTTTTG
*
4956891 TTTTTTTTTTATTTTTTTG
1 TTTTTTTTTT-GTTTTTTG
4956910 TTTTTTTTTTGTTTTTT-
1 TTTTTTTTTTGTTTTTTG
4956927 TTGTTTTTTTTGTTTTTT
1 TT-TTTTTTTTGTTTTTT
4956945 TTGTCTACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
17 2 0.04
18 26 0.52
19 22 0.44
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTTG
Found at i:4956894 original size:19 final size:18
Alignment explanation
Indices: 4956872--4956948 Score: 100
Period size: 19 Copynumber: 4.1 Consensus size: 18
4956862 TTGATCTTGA
*
4956872 TTTTTCTTTTTCTTTTTTG
1 TTTTT-TTTTTTTTTTTTG
4956891 TTTTTTTTTTATTTTTTTG
1 TTTTTTTTTT-TTTTTTTG
4956910 TTTTTTTTTTGTTTTTTTTG
1 -TTTTTTTTT-TTTTTTTTG
*
4956930 TTTTTTTTGTTTTTTTTG
1 TTTTTTTTTTTTTTTTTG
4956948 T
1 T
4956949 CTACTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
18 15 0.28
19 20 0.38
20 17 0.32
21 1 0.02
ACGTcount: A:0.01, C:0.03, G:0.08, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTTTG
Found at i:4956898 original size:9 final size:9
Alignment explanation
Indices: 4956884--4956948 Score: 94
Period size: 9 Copynumber: 6.9 Consensus size: 9
4956874 TTTCTTTTTC
4956884 TTTTTTGTT
1 TTTTTTGTT
*
4956893 TTTTTTTTAT
1 TTTTTTGT-T
4956903 TTTTTTGTTTT
1 TTTTTTG--TT
4956914 TTTTTTGTT
1 TTTTTTGTT
4956923 TTTTTTGTT
1 TTTTTTGTT
4956932 TTTTTTGTT
1 TTTTTTGTT
4956941 TTTTTTGT
1 TTTTTTGT
4956949 CTACTTTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
9 35 0.69
10 7 0.14
11 8 0.16
12 1 0.02
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.89
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:4956956 original size:29 final size:29
Alignment explanation
Indices: 4956902--4956957 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
4956892 TTTTTTTTTA
* * **
4956902 TTTTTTTGTTTTTTTTTTGTTTTTTTTGT
1 TTTTTTTGTTTTTTTTGTCTACTTTTTGT
4956931 TTTTTTTGTTTTTTTTGTCTACTTTTT
1 TTTTTTTGTTTTTTTTGTCTACTTTTT
4956958 TTCAGGCATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.02, C:0.04, G:0.09, T:0.86
Consensus pattern (29 bp):
TTTTTTTGTTTTTTTTGTCTACTTTTTGT
Found at i:4956959 original size:1 final size:1
Alignment explanation
Indices: 4956872--4956946 Score: 78
Period size: 1 Copynumber: 75.0 Consensus size: 1
4956862 TTGATCTTGA
* * * * * * *
4956872 TTTTTCTTTTTCTTTTTTGTTTTTTTTTTATTTTTTTGTTTTTTTTTTGTTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
4956937 TGTTTTTTTT
1 TTTTTTTTTT
4956947 GTCTACTTTT
Statistics
Matches: 58, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 58 1.00
ACGTcount: A:0.01, C:0.03, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:4968043 original size:24 final size:22
Alignment explanation
Indices: 4968003--4968052 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
4967993 TTGTATTTAA
*
4968003 AAAAAAAAAAAATTTGTGTTTT
1 AAAAAAAAAAAATTTGTGCTTT
**
4968025 CAAAAAAAAAAGTTGTTGTGCTTT
1 -AAAAAAAAAAAAT-TTGTGCTTT
4968049 AAAA
1 AAAA
4968053 TTCTCGTGCT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (22 bp):
AAAAAAAAAAAATTTGTGCTTT
Found at i:4970366 original size:27 final size:27
Alignment explanation
Indices: 4970335--4970399 Score: 130
Period size: 27 Copynumber: 2.4 Consensus size: 27
4970325 GGGTTTTCGA
4970335 TTGGCGGCACCGATGGTGCCATACTGG
1 TTGGCGGCACCGATGGTGCCATACTGG
4970362 TTGGCGGCACCGATGGTGCCATACTGG
1 TTGGCGGCACCGATGGTGCCATACTGG
4970389 TTGGCGGCACC
1 TTGGCGGCACC
4970400 AACCTTATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.14, C:0.28, G:0.37, T:0.22
Consensus pattern (27 bp):
TTGGCGGCACCGATGGTGCCATACTGG
Found at i:4970459 original size:10 final size:10
Alignment explanation
Indices: 4970444--4970615 Score: 90
Period size: 10 Copynumber: 17.9 Consensus size: 10
4970434 GAAGGAGAGG
4970444 GAAAGAAGAA
1 GAAAGAAGAA
4970454 GAAAG-A-AA
1 GAAAGAAGAA
4970462 GAAAG-A-AA
1 GAAAGAAGAA
4970470 GAAAGAA-AA
1 GAAAGAAGAA
4970479 GGAAAGAA-AA
1 -GAAAGAAGAA
* *
4970489 GGAAAGGAGAG
1 -GAAAGAAGAA
4970500 GAAAG-A-AA
1 GAAAGAAGAA
4970508 GAAA-AAGAA
1 GAAAGAAGAA
4970517 GGAAAGAA-AA
1 -GAAAGAAGAA
4970527 GGAAAGGAGAAGAA
1 -G-AA--AGAAGAA
*
4970541 GAAAAAAGAAA
1 GAAAGAAG-AA
4970552 GAAA-AAGAA
1 GAAAGAAGAA
4970561 GGAAAGAA-AA
1 -GAAAGAAGAA
*
4970571 GGAAAGGAGAA
1 -GAAAGAAGAA
*
4970582 GGAAG-AGAA
1 GAAAGAAGAA
4970591 -AAA-AA-AA
1 GAAAGAAGAA
4970598 GAAAGAAGAA
1 GAAAGAAGAA
4970608 G-AAGAAGA
1 GAAAGAAGA
4970616 GGGAAGGAAG
Statistics
Matches: 136, Mismatches: 7, Indels: 39
0.75 0.04 0.21
Matches are distributed among these distances:
7 2 0.01
8 27 0.20
9 22 0.16
10 61 0.45
11 15 0.11
12 2 0.01
13 5 0.04
14 2 0.01
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:4970519 original size:38 final size:39
Alignment explanation
Indices: 4970457--4970634 Score: 199
Period size: 44 Copynumber: 4.5 Consensus size: 39
4970447 AGAAGAAGAA
*
4970457 AGAAAGAAAGAAAGAAAGAA-AAGGAAAGAAAAGGAAAGG
1 AGAAGGAAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGG
4970496 AG-AGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
4970534 AGAAGAAGAAAAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAG--G---AAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
* *
4970578 AGAAGGAAGAGAAAAAAAAAGAAAG-AAGAAGAA-GAAGAGG
1 AGAAGGAA-AGAAAGAAAAAGAAGGAAAGAA-AAGGAA-AGG
4970618 -GAAGG-AAGAAA-AAAAAG
1 AGAAGGAAAGAAAGAAAAAG
4970635 TAATTTTTAT
Statistics
Matches: 126, Mismatches: 3, Indels: 23
0.83 0.02 0.15
Matches are distributed among these distances:
36 6 0.05
37 7 0.06
38 35 0.28
39 19 0.15
40 19 0.15
41 1 0.01
42 1 0.01
44 38 0.30
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (39 bp):
AGAAGGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
Found at i:4970550 original size:44 final size:45
Alignment explanation
Indices: 4970443--4970608 Score: 215
Period size: 44 Copynumber: 3.8 Consensus size: 45
4970433 AGAAGGAGAG
*
4970443 GGAAAGAAGAAGAAAGAAAGAAAGAAAGAAAGAA-AAGGAAAGAAAA
1 GGAAAGGAGAAG-AAGAAA-AAAGAAAGAAAGAAGAAGGAAAGAAAA
4970489 GGAAAGGAG-AG--G---AAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAGAAAAAAGAAAGAAAGAAGAAGGAAAGAAAA
4970527 GGAAAGGAGAAGAAGAAAAAAGAAAGAAA-AAGAAGGAAAGAAAA
1 GGAAAGGAGAAGAAGAAAAAAGAAAGAAAGAAGAAGGAAAGAAAA
*
4970571 GGAAAGGAGAAGGAAGAGAAAAAAAAAGAAAGAAGAAG
1 GGAAAGGAGAA-GAAGA-AAAAAGAAAGAAAGAAGAAG
4970609 AAGAAGAGGG
Statistics
Matches: 108, Mismatches: 2, Indels: 19
0.84 0.02 0.15
Matches are distributed among these distances:
37 2 0.02
38 32 0.30
39 2 0.02
41 1 0.01
42 1 0.01
44 37 0.34
45 7 0.06
46 20 0.19
47 6 0.06
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (45 bp):
GGAAAGGAGAAGAAGAAAAAAGAAAGAAAGAAGAAGGAAAGAAAA
Done.