Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 15 of 173
Found at i:3957076 original size:88 final size:83
Alignment explanation
Indices: 3956926--3957118 Score: 217
Period size: 88 Copynumber: 2.3 Consensus size: 83
3956916 CCACAGATCT
* * *
3956926 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCGAACCCAGTCTTATCTCCCTGAAGTTACAGTGGAG
*
3956991 CAGACAGAAGAATCCAATCC
66 AAGACAGAAG-AT-CAATCC
* * * *
3957011 TATCTCTCTGAAGTTGCGGTGGAGCGGATTGAAACCACAGATCTTATCTCCCTGAAGTTACAGTG
1 TATCTCTCTGAAGTTGCAGTAGAGCAGATCG-AACC-CAG-TCTTATCTCCCTGAAGTTACAGTG
** *
3957076 GAGAAGATTGAAGATGAATCC
63 GAGAAGACAGAAGATCAATCC
*
3957097 TATAC-CTCTGAAGTTGTAGTAG
1 TAT-CTCTCTGAAGTTGCAGTAG
3957119 GTCAGATTAA
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
85 27 0.30
86 24 0.27
87 6 0.07
88 33 0.37
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (83 bp):
TATCTCTCTGAAGTTGCAGTAGAGCAGATCGAACCCAGTCTTATCTCCCTGAAGTTACAGTGGAG
AAGACAGAAGATCAATCC
Found at i:3957085 original size:44 final size:43
Alignment explanation
Indices: 3956889--3957087 Score: 188
Period size: 44 Copynumber: 4.6 Consensus size: 43
3956879 TCCTATATCT
* * * *
3956889 CTGAAGTTACAGTGGAGCGGATTAAAACCACAGATCTTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTGAAACC-CAGATCTTATCTCC
* * * *
3956933 CTGAAGTTGCAGTAGAGCAGATCG-CATCCAG-TCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAACCCAGATCTTATCTCC
** * * *
3956974 CTGAAGTTGCAGTGGAGCAGACAGAAGAATCCA-ATCCTATCTCT
1 CTGAAGTTGCAGTGGAGCAGATTG-A-AACCCAGATCTTATCTCC
* *
3957018 CTGAAGTTGCGGTGGAGCGGATTGAAACCACAGATCTTATCTCC
1 CTGAAGTTGCAGTGGAGCAGATTGAAACC-CAGATCTTATCTCC
* *
3957062 CTGAAGTTACAGTGGAGAAGATTGAA
1 CTGAAGTTGCAGTGGAGCAGATTGAA
3957088 GATGAATCCT
Statistics
Matches: 124, Mismatches: 25, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
41 30 0.24
42 6 0.05
43 5 0.04
44 83 0.67
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (43 bp):
CTGAAGTTGCAGTGGAGCAGATTGAAACCCAGATCTTATCTCC
Found at i:3957501 original size:4 final size:4
Alignment explanation
Indices: 3957492--3957517 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
3957482 AAAATAAACA
3957492 AAAG AAAG AAAG AAAG AAAG AAAG AA
1 AAAG AAAG AAAG AAAG AAAG AAAG AA
3957518 CCTAACCCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:3958688 original size:3 final size:3
Alignment explanation
Indices: 3958674--3958709 Score: 63
Period size: 3 Copynumber: 11.7 Consensus size: 3
3958664 TGTTATTTCT
3958674 TTA TTCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3958710 TACCCATTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 29 0.91
4 3 0.09
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:3958895 original size:3 final size:3
Alignment explanation
Indices: 3958887--3958927 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
3958877 TCTATTTGTC
3958887 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
3958928 TGTTTGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:3960663 original size:26 final size:26
Alignment explanation
Indices: 3960632--3960685 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
3960622 ATAATAATAA
*
3960632 TTAAATCTTAGTTTTTATCTTTAAAT
1 TTAAATCTTAATTTTTATCTTTAAAT
3960658 TTAAATCTTAATTTTTATCTTTAAAT
1 TTAAATCTTAATTTTTATCTTTAAAT
3960684 TT
1 TT
3960686 TTAACATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.59
Consensus pattern (26 bp):
TTAAATCTTAATTTTTATCTTTAAAT
Found at i:3960684 original size:14 final size:14
Alignment explanation
Indices: 3960643--3960688 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
3960633 TAAATCTTAG
3960643 TTTTTATCTTTAAA
1 TTTTTATCTTTAAA
**
3960657 TTTAAATC-TT-AA
1 TTTTTATCTTTAAA
3960669 TTTTTATCTTTAAA
1 TTTTTATCTTTAAA
3960683 TTTTTA
1 TTTTTA
3960689 ACATAATTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 8 0.31
13 4 0.15
14 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTATCTTTAAA
Found at i:3964243 original size:26 final size:25
Alignment explanation
Indices: 3964173--3964261 Score: 105
Period size: 26 Copynumber: 3.7 Consensus size: 25
3964163 TTATTATATA
*
3964173 TAATTATATATA-AAAATATAAA-T
1 TAATCATATATATAAAATATAAAGT
* *
3964196 TAA-CCTCT-TATAAAATATAAAGT
1 TAATCATATATATAAAATATAAAGT
*
3964219 TAATTATATATATAAATATATAAAGT
1 TAATCATATATATAAA-ATATAAAGT
3964245 TAATCATATATATAAAA
1 TAATCATATATATAAAA
3964262 AACAAATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.04
22 12 0.22
23 7 0.13
24 2 0.04
25 7 0.13
26 24 0.44
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.38
Consensus pattern (25 bp):
TAATCATATATATAAAATATAAAGT
Found at i:3973922 original size:10 final size:10
Alignment explanation
Indices: 3973907--3973931 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
3973897 CTTAACTACC
3973907 ACTAAGAACA
1 ACTAAGAACA
3973917 ACTAAGAACA
1 ACTAAGAACA
3973927 ACTAA
1 ACTAA
3973932 AATAAGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.08, T:0.12
Consensus pattern (10 bp):
ACTAAGAACA
Found at i:3977060 original size:25 final size:25
Alignment explanation
Indices: 3977032--3977080 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
3977022 TCACGTCACT
3977032 AACACATAATTTTGATAATTTTTTA
1 AACACATAATTTTGATAATTTTTTA
3977057 AACACATAATTTTGATAATTTTTT
1 AACACATAATTTTGATAATTTTTT
3977081 TACTCTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.04, T:0.49
Consensus pattern (25 bp):
AACACATAATTTTGATAATTTTTTA
Found at i:3977490 original size:5 final size:5
Alignment explanation
Indices: 3977480--3977505 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
3977470 TTATTTTAAA
3977480 TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT T
3977506 GAAGAAAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TAATT
Found at i:3977699 original size:12 final size:12
Alignment explanation
Indices: 3977682--3977706 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3977672 GGTGTTCATT
3977682 CGGTTAACCGAC
1 CGGTTAACCGAC
3977694 CGGTTAACCGAC
1 CGGTTAACCGAC
3977706 C
1 C
3977707 CGAAATTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:3977880 original size:9 final size:9
Alignment explanation
Indices: 3977866--3977933 Score: 91
Period size: 9 Copynumber: 7.4 Consensus size: 9
3977856 TTTGGTTAAA
3977866 AATTACCCG
1 AATTACCCG
3977875 AATTACCCG
1 AATTACCCG
*
3977884 AATTAACCG
1 AATTACCCG
*
3977893 AATTAACCG
1 AATTACCCG
*
3977902 AATTACCGCA
1 AATTACC-CG
*
3977912 AAATACCCG
1 AATTACCCG
3977921 AATTACCCG
1 AATTACCCG
3977930 AATT
1 AATT
3977934 TTTTTATTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
9 45 0.87
10 7 0.13
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:3978453 original size:23 final size:20
Alignment explanation
Indices: 3978412--3978455 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 20
3978402 AGTAATACAC
*
3978412 ATTTTTTTTTTAAATTTTTA
1 ATTTTTTTTTTAAAATTTTA
3978432 ATTTTTTTCTCTTAAAAATTTTA
1 ATTTTTTT-T-TT-AAAATTTTA
3978455 A
1 A
3978456 ATTCAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 1 0.05
22 2 0.10
23 9 0.45
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTTTTTTTAAAATTTTA
Found at i:3983265 original size:31 final size:30
Alignment explanation
Indices: 3983209--3983279 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
3983199 TTTAAATAGT
*
3983209 AAATG-TAAAATTGTATTTTAGTCTTTTTAA
1 AAATGATAAAATTGTATTTTAATC-TTTTAA
*
3983239 AAATGATAAAATTTTGA-TTTAATCTTTTAA
1 AAATGATAAAATTGT-ATTTTAATCTTTTAA
*
3983269 AAATTATAAAA
1 AAATGATAAAA
3983280 ATATAAACTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 21 0.58
31 14 0.39
32 1 0.03
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (30 bp):
AAATGATAAAATTGTATTTTAATCTTTTAA
Found at i:3993395 original size:75 final size:75
Alignment explanation
Indices: 3993272--3993421 Score: 282
Period size: 75 Copynumber: 2.0 Consensus size: 75
3993262 TTTAGGACGA
3993272 AAAGTCCTAAGGGGGAGAGTTATAACGGCCCATTTACAGTGAAATCGAAACAGTGGTTTTAGGAC
1 AAAGTCCTAAGGGGGAGAGTTATAACGGCCCATTTACAGTGAAATCGAAACAGTGGTTTTAGGAC
3993337 CACAAATTTG
66 CACAAATTTG
* *
3993347 AAAGTCCTAAGGGGGAGAGTTGTAACGGCCTATTTACAGTGAAATCGAAACAGTGGTTTTAGGAC
1 AAAGTCCTAAGGGGGAGAGTTATAACGGCCCATTTACAGTGAAATCGAAACAGTGGTTTTAGGAC
3993412 CACAAATTTG
66 CACAAATTTG
3993422 GAGTCAAAAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
75 73 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (75 bp):
AAAGTCCTAAGGGGGAGAGTTATAACGGCCCATTTACAGTGAAATCGAAACAGTGGTTTTAGGAC
CACAAATTTG
Found at i:3994625 original size:33 final size:33
Alignment explanation
Indices: 3994585--3994703 Score: 89
Period size: 33 Copynumber: 3.6 Consensus size: 33
3994575 CATTATTATG
3994585 TAAGACCATAGTTGGGCTATGGCATTCTCATGA
1 TAAGACCATAGTTGGGCTATGGCATTCTCATGA
** * * **
3994618 TAAGACCATAACTGGGTTATGGCACTACGAATG-
1 TAAGACCATAGTTGGGCTATGGCA-TTCTCATGA
* * * * *
3994651 TAAGACCATGGTAGGGCCATGGCATTTTGCGT-A
1 TAAGACCATAGTTGGGCTATGGCATTCT-CATGA
* *
3994684 AAAGACCATAGTTGGACTAT
1 TAAGACCATAGTTGGGCTAT
3994704 AGCACAAGGA
Statistics
Matches: 61, Mismatches: 22, Indels: 6
0.69 0.25 0.07
Matches are distributed among these distances:
32 1 0.02
33 55 0.90
34 5 0.08
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (33 bp):
TAAGACCATAGTTGGGCTATGGCATTCTCATGA
Found at i:3997252 original size:26 final size:27
Alignment explanation
Indices: 3997221--3997274 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
3997211 TCGAATCAAT
3997221 ACCCCCCTCAAATAAAGCTTCTAACAA
1 ACCCCCCTCAAATAAAGCTTCTAACAA
3997248 ACCCCCCTCAAATAAAGCTTCTAACAA
1 ACCCCCCTCAAATAAAGCTTCTAACAA
3997275 TGTTCTCGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.37, G:0.04, T:0.19
Consensus pattern (27 bp):
ACCCCCCTCAAATAAAGCTTCTAACAA
Found at i:4000183 original size:31 final size:31
Alignment explanation
Indices: 4000145--4000205 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
4000135 TTTTTAAACT
* *
4000145 AAATTTGACCTTCAACCTTTTAAAAAGAGTA
1 AAATTTGACCATCAACCTTTCAAAAAGAGTA
*
4000176 AAATTTGACCATCAATCTTTCAAAAAGAGT
1 AAATTTGACCATCAACCTTTCAAAAAGAGT
4000206 TGAATTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (31 bp):
AAATTTGACCATCAACCTTTCAAAAAGAGTA
Found at i:4002046 original size:21 final size:21
Alignment explanation
Indices: 4002020--4002061 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
4002010 ACGCGCTGTC
4002020 AGGGTTTTGGG-TTTTGGGTTT
1 AGGG-TTTGGGTTTTTGGGTTT
4002041 AGGGTTTGGGTTTTTGGGTTT
1 AGGGTTTGGGTTTTTGGGTTT
4002062 TTAGGTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.05, C:0.00, G:0.43, T:0.52
Consensus pattern (21 bp):
AGGGTTTGGGTTTTTGGGTTT
Found at i:4002050 original size:13 final size:14
Alignment explanation
Indices: 4002021--4002076 Score: 53
Period size: 14 Copynumber: 4.0 Consensus size: 14
4002011 CGCGCTGTCA
*
4002021 GGGTTTTGGGTTTT
1 GGGTTTAGGGTTTT
4002035 GGGTTTAGGG-TTT
1 GGGTTTAGGGTTTT
*
4002048 GGGTTTTTGGGTTTTT
1 GGG-TTTAGGG-TTTT
*
4002064 AGGTTTA-GGTTTT
1 GGGTTTAGGGTTTT
4002077 TAAAGAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
13 10 0.29
14 17 0.49
15 3 0.09
16 5 0.14
ACGTcount: A:0.05, C:0.00, G:0.39, T:0.55
Consensus pattern (14 bp):
GGGTTTAGGGTTTT
Found at i:4002063 original size:8 final size:7
Alignment explanation
Indices: 4002021--4002062 Score: 59
Period size: 7 Copynumber: 6.0 Consensus size: 7
4002011 CGCGCTGTCA
4002021 GGGTTTT
1 GGGTTTT
4002028 GGGTTTT
1 GGGTTTT
*
4002035 GGGTTTA
1 GGGTTTT
4002042 GGG-TTT
1 GGGTTTT
4002048 GGGTTTTT
1 GGG-TTTT
4002056 GGGTTTT
1 GGGTTTT
4002063 TAGGTTTAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 5 0.16
7 20 0.65
8 6 0.19
ACGTcount: A:0.02, C:0.00, G:0.43, T:0.55
Consensus pattern (7 bp):
GGGTTTT
Found at i:4002208 original size:95 final size:95
Alignment explanation
Indices: 4002103--4002407 Score: 416
Period size: 96 Copynumber: 3.2 Consensus size: 95
4002093 TAAATAAGGG
* * * *
4002103 ATTAGGGTTTAGGGTTTCTTAATTAAATTAATTATAAATTTTTCAAAATTAGATTAGGGTTTTGC
1 ATTAGGGTTTAGGGTTTCTTAAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGT
* * *
4002168 GTTTATGGTTTTTAAAGAAAAATCAATTAA
66 GTTTAAGGTTTTTAAGGAAAAATCAAATAA
* * * * * *
4002198 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAAAAAAATTTTAAAAATCAGATTAAGGTTTAG
1 ATTAGGGTTTAGGGTTTCTTAAGTAAATTAATT-ATAAATTTTTAAAAATTAGATTAGGGTTTAG
4002263 TG-TTAAGGGTTTTTAAGGAAAAATCAAATAA
65 TGTTTAA-GGTTTTTAAGGAAAAATCAAATAA
*
4002294 ATTAGGGTTTAGGGTTAT-TTAAGTAAATTAATTATAAATTTTAAAAAAATTAGATTAGGGTTTA
1 ATTAGGGTTTAGGGTT-TCTTAAGTAAATTAATTATAAATTTT-TAAAAATTAGATTAGGGTTTA
4002358 GTGTTTAAGGTTTTTAAGGAAAAACTCAAATAA
64 GTGTTTAAGGTTTTTAAGGAAAAA-TCAAATAA
*
4002391 ATTAGGGTTTGGGGTTT
1 ATTAGGGTTTAGGGTTT
4002408 AAGATTACTT
Statistics
Matches: 183, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
95 40 0.22
96 116 0.63
97 27 0.15
ACGTcount: A:0.38, C:0.03, G:0.19, T:0.40
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTTCTTAAGTAAATTAATTATAAATTTTTAAAAATTAGATTAGGGTTTAGT
GTTTAAGGTTTTTAAGGAAAAATCAAATAA
Found at i:4002669 original size:126 final size:126
Alignment explanation
Indices: 4002441--4002734 Score: 489
Period size: 126 Copynumber: 2.3 Consensus size: 126
4002431 GTTAATTTAG
*
4002441 AAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCGAGGAGACGT
1 AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCGAGGAGACGT
*
4002506 TTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTATTGAA
66 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTATTGAA
* * *
4002567 AAAAGCTCCCACGTGGACGCGCTTTTACTACAGTAGCTCCTGAAAAAATAATTTCGAGTAGACGT
1 AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCGAGGAGACGT
* * *
4002632 TTCTGAGTAAATAGTGTCAAAAACGCTTTAAGTAGGATGCTTTGTCAGCAAAAGTATTGAA
66 TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTATTGAA
* * *
4002693 AGAAGCTCCCCCGTGGACGAGCTTTTGCTACAGTAGCTCCTG
1 AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG
4002735 TTTGGCCTGA
Statistics
Matches: 156, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 156 1.00
ACGTcount: A:0.32, C:0.20, G:0.22, T:0.26
Consensus pattern (126 bp):
AAAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAAATTCGAGGAGACGT
TTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCATTGTCAGCAAAAGTATTGAA
Found at i:4004263 original size:34 final size:34
Alignment explanation
Indices: 4004224--4004320 Score: 185
Period size: 34 Copynumber: 2.9 Consensus size: 34
4004214 TGTAAAAGTA
*
4004224 AATTTCTATTTTATTACATGAAATAATATAGAAG
1 AATTTCTATTTTATTACATTAAATAATATAGAAG
4004258 AATTTCTATTTTATTACATTAAATAATATAGAAG
1 AATTTCTATTTTATTACATTAAATAATATAGAAG
4004292 AATTTCTATTTTATTACATTAAATAATAT
1 AATTTCTATTTTATTACATTAAATAATAT
4004321 CAAAATATTC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.45
Consensus pattern (34 bp):
AATTTCTATTTTATTACATTAAATAATATAGAAG
Found at i:4007414 original size:13 final size:11
Alignment explanation
Indices: 4007375--4007417 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
4007365 TCTTTCAATA
*
4007375 TTCTCCCAAAT
1 TTCTCTCAAAT
4007386 TTCTCTCAAAT
1 TTCTCTCAAAT
4007397 TTCTCTCAAAT
1 TTCTCTCAAAT
*
4007408 TCCTCTCAAA
1 TTCTCTCAAA
4007418 GCTCTATTTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.40
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:4007441 original size:23 final size:24
Alignment explanation
Indices: 4007415--4007459 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
4007405 AATTCCTCTC
4007415 AAAGCTCT-ATTTAATTTTTTTAA
1 AAAGCTCTAATTTAATTTTTTTAA
*
4007438 AAAGCTCTAATTTTATTTTTTT
1 AAAGCTCTAATTTAATTTTTTT
4007460 GGATTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.31, C:0.09, G:0.04, T:0.56
Consensus pattern (24 bp):
AAAGCTCTAATTTAATTTTTTTAA
Found at i:4008586 original size:20 final size:20
Alignment explanation
Indices: 4008561--4008598 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4008551 AATGAGATAA
4008561 TCAATTCGTATTTAGTATAG
1 TCAATTCGTATTTAGTATAG
4008581 TCAATTCGTATTTAGTAT
1 TCAATTCGTATTTAGTAT
4008599 TTAGTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.11, G:0.13, T:0.47
Consensus pattern (20 bp):
TCAATTCGTATTTAGTATAG
Found at i:4008600 original size:7 final size:7
Alignment explanation
Indices: 4008588--4008613 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
4008578 TAGTCAATTC
4008588 GTATTTA
1 GTATTTA
4008595 GTATTTA
1 GTATTTA
4008602 GTATTTA
1 GTATTTA
4008609 GTATT
1 GTATT
4008614 ATATATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:4010246 original size:33 final size:33
Alignment explanation
Indices: 4010200--4010399 Score: 123
Period size: 33 Copynumber: 5.5 Consensus size: 33
4010190 ATGTGAAAGG
*
4010200 GGTTGCTATGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
4010233 GGTTGCTAAGTGCTGA-TCCCACCATATCTTAAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCCC-CGA-ATC----AT-TG---GT
* *
4010275 GGTTGCTAAGTGTTGATTCCCCGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * *
4010308 GGTTGCTAAGTGCTGATTCCACCGTATTTTTGAATGTGAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A---AT-CAT-TG---GT
* *
4010351 GGTTACTAAGTGCTGATTCCCCGAATCACTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
4010384 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
4010400 ATCCATCGAT
Statistics
Matches: 130, Mismatches: 16, Indels: 42
0.69 0.09 0.22
Matches are distributed among these distances:
32 4 0.03
33 53 0.41
34 6 0.05
35 1 0.01
36 4 0.03
37 3 0.02
38 5 0.04
39 4 0.03
40 2 0.02
41 3 0.02
42 21 0.16
43 24 0.18
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:4010373 original size:76 final size:75
Alignment explanation
Indices: 4010121--4010399 Score: 441
Period size: 75 Copynumber: 3.7 Consensus size: 75
4010111 TGATTCCCCC
* * *
4010121 AAGGGGTTGCTAAGTGCTGATTCCTCGAACCATTGGTGGTTGTTAAGTGCTGATCCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
4010186 TTAAATGTGA
66 TTAAATGTGA
* *
4010196 AAGGGGTTGCTATGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
4010261 TTAAATGTGA
66 TTAAATGTGA
* * *
4010271 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTA-T
* *
4010336 TTTGAATGTGA
65 CTTAAATGTGA
* *
4010347 AAGGGGTTACTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGA
4010400 ATCCATCGAT
Statistics
Matches: 187, Mismatches: 16, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
75 128 0.68
76 59 0.32
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATCCCACCGTATC
TTAAATGTGA
Found at i:4015594 original size:17 final size:17
Alignment explanation
Indices: 4015572--4015637 Score: 71
Period size: 17 Copynumber: 3.7 Consensus size: 17
4015562 TCCTTAAAAC
4015572 AAATAAATAATAGTTTA
1 AAATAAATAATAGTTTA
*
4015589 AAATAAATAATA-TAATAAA
1 AAATAAATAATAGT--T-TA
*
4015608 AACATATATAATAGTTTA
1 AA-ATAAATAATAGTTTA
4015626 AAATAAATAATA
1 AAATAAATAATA
4015638 TAATAAAAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
16 1 0.03
17 21 0.52
18 4 0.10
19 4 0.10
20 9 0.22
21 1 0.03
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.32
Consensus pattern (17 bp):
AAATAAATAATAGTTTA
Found at i:4015644 original size:17 final size:17
Alignment explanation
Indices: 4015572--4015645 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
4015562 TCCTTAAAAC
*
4015572 AAATAAATAATAGT-TTA
1 AAATAAATAATA-TAATA
4015589 AAATAAATAATATAATA
1 AAATAAATAATATAATA
* *
4015606 AAA-ACATATATAATAGTTTA
1 AAATAAATA-AT-ATA--ATA
4015626 AAATAAATAATATAATA
1 AAATAAATAATATAATA
4015643 AAA
1 AAA
4015646 ACTTTTAAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
16 5 0.11
17 24 0.52
18 3 0.07
19 3 0.07
20 7 0.15
21 4 0.09
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.31
Consensus pattern (17 bp):
AAATAAATAATATAATA
Found at i:4015725 original size:49 final size:52
Alignment explanation
Indices: 4015620--4015725 Score: 137
Period size: 50 Copynumber: 2.1 Consensus size: 52
4015610 CATATATAAT
* * *
4015620 AGTTTAAAATAAATAATATAATAAAAACTTTTAAACAAATATTAAGTAAAAC
1 AGTTTAAAATAAATAATATAATAAAAACCTTAAAACAAATAATAAGTAAAAC
* * *
4015672 AGTTTAGAATAAATGATA-AAT-AAAACCTTAAAACAAATAAT-AGTAAAAG
1 AGTTTAAAATAAATAATATAATAAAAACCTTAAAACAAATAATAAGTAAAAC
4015721 AGTTT
1 AGTTT
4015726 TTTTTTAAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 12 0.25
50 17 0.35
51 3 0.06
52 16 0.33
ACGTcount: A:0.58, C:0.06, G:0.08, T:0.29
Consensus pattern (52 bp):
AGTTTAAAATAAATAATATAATAAAAACCTTAAAACAAATAATAAGTAAAAC
Found at i:4017568 original size:126 final size:125
Alignment explanation
Indices: 4017342--4017632 Score: 456
Period size: 126 Copynumber: 2.3 Consensus size: 125
4017332 TCAGGCCAAA
* * *
4017342 TAGAAACTACTGTAGCAAAAGAGCGTCCATGTGGGAGCTTCTTTCAGTACTTTTGCTGCCATTGC
1 TAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
* *
4017407 ATCCTGCTTGAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
66 ATCCTACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
* * *
4017467 TCAGAAATTACTATAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGTTGACAATG
1 T-AGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATG
* * *
4017532 CATCCTACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTTAAAATTATTTTT
65 CATCCTACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
* *
4017593 TAGGAACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
1 TAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTT
4017633 TTTTAAATTA
Statistics
Matches: 150, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
125 36 0.24
126 114 0.76
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (125 bp):
TAGAAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAATGC
ATCCTACTTAAAGCATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTT
Found at i:4017800 original size:96 final size:96
Alignment explanation
Indices: 4017679--4017907 Score: 363
Period size: 96 Copynumber: 2.4 Consensus size: 96
4017669 AACTCCAAAT
*
4017679 CCTAATTTATTTGATTTTTCCTTAAAAACTCTAAACACTAAACCCTAATCTAATTT-TTTAAAAT
1 CCTAATTTATTTGATTTTTTCTTAAAAACTCTAAACACTAAACCCTAATCTAATTTCTTTAAAA-
4017743 TTTATAATTAATTTACTCAAGTAACCCTAAAC
65 TTTATAATTAATTTACTCAAGTAACCCTAAAC
* * * * *
4017775 CCTAATTTATATAATTTTTTCTTAAAAACCCTAAACACTAAACCCTAATTTGATTTCTTTAAAAT
1 CCTAATTTATTTGATTTTTTCTTAAAAACTCTAAACACTAAACCCTAATCTAATTTCTTTAAAAT
4017840 TTATAATTAATTTACTCAAGTAACCCTAAAC
66 TTATAATTAATTTACTCAAGTAACCCTAAAC
4017871 CCTAATTTATTTGATTTTTTCCTTAAAAA-TCATAAAC
1 CCTAATTTATTTGATTTTTT-CTTAAAAACTC-TAAAC
4017908 TAATTTTCTA
Statistics
Matches: 121, Mismatches: 9, Indels: 5
0.90 0.07 0.04
Matches are distributed among these distances:
96 101 0.83
97 20 0.17
ACGTcount: A:0.38, C:0.18, G:0.02, T:0.41
Consensus pattern (96 bp):
CCTAATTTATTTGATTTTTTCTTAAAAACTCTAAACACTAAACCCTAATCTAATTTCTTTAAAAT
TTATAATTAATTTACTCAAGTAACCCTAAAC
Found at i:4017999 original size:16 final size:17
Alignment explanation
Indices: 4017973--4018019 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 17
4017963 TTAATTTTTT
* *
4017973 TCCTTAAAACCTTAAAA
1 TCCTAAAAACCCTAAAA
4017990 T-CTAAAAACCCTAAAA
1 TCCTAAAAACCCTAAAA
4018006 TCCT-AAAACCCTAA
1 TCCTAAAAACCCTAA
4018020 CCCTAATTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
16 24 0.89
17 3 0.11
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (17 bp):
TCCTAAAAACCCTAAAA
Found at i:4020324 original size:29 final size:29
Alignment explanation
Indices: 4020282--4020339 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
4020272 GATAAGCGAA
4020282 GGAAACCAAAGCCTCGTTTTAACTATGGG
1 GGAAACCAAAGCCTCGTTTTAACTATGGG
4020311 GGAAACCAAAGCCTCGTTTTAACTATGGG
1 GGAAACCAAAGCCTCGTTTTAACTATGGG
4020340 CTTAAGTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (29 bp):
GGAAACCAAAGCCTCGTTTTAACTATGGG
Found at i:4024949 original size:46 final size:46
Alignment explanation
Indices: 4024896--4024984 Score: 126
Period size: 46 Copynumber: 1.9 Consensus size: 46
4024886 GGTTGTTTTT
*
4024896 TTTAATGGCGCCTATCTGAGAGGCG-CTAATAAATATTATATATATA
1 TTTAATGGCGCCTATCTGACAGGCGTC-AATAAATATTATATATATA
* * *
4024942 TTTAATGGTGCCTATCTGACAGGCGTCAATCAATATTTTATAT
1 TTTAATGGCGCCTATCTGACAGGCGTCAATAAATATTATATAT
4024985 TAAATTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
46 37 0.97
47 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.17, T:0.37
Consensus pattern (46 bp):
TTTAATGGCGCCTATCTGACAGGCGTCAATAAATATTATATATATA
Found at i:4032782 original size:22 final size:22
Alignment explanation
Indices: 4032757--4032804 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
4032747 TTAATTAAAT
4032757 AAATGTTAATCTTTA-AATTTTA
1 AAAT-TTAATCTTTATAATTTTA
* * *
4032779 AAATTTATTTTTTATTATTTTA
1 AAATTTAATCTTTATAATTTTA
4032801 AAAT
1 AAAT
4032805 AAAATTAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (22 bp):
AAATTTAATCTTTATAATTTTA
Found at i:4032845 original size:24 final size:24
Alignment explanation
Indices: 4032798--4032845 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4032788 TTTTATTATT
* * **
4032798 TTAAAATAAAATTAATAGTTATAA
1 TTAAAATAAAATAAAAAGGGATAA
4032822 TTAAAATAAAATAAAAAGGGATAA
1 TTAAAATAAAATAAAAAGGGATAA
4032846 ATTAGTAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (24 bp):
TTAAAATAAAATAAAAAGGGATAA
Found at i:4033396 original size:16 final size:16
Alignment explanation
Indices: 4033375--4033405 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4033365 CCGCTCGGTT
4033375 CCTCCTTCGTCTGTTG
1 CCTCCTTCGTCTGTTG
4033391 CCTCCTTCGTCTGTT
1 CCTCCTTCGTCTGTT
4033406 ATTCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.39, G:0.16, T:0.45
Consensus pattern (16 bp):
CCTCCTTCGTCTGTTG
Found at i:4036328 original size:13 final size:13
Alignment explanation
Indices: 4036310--4036336 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4036300 CAGCCAGCGG
4036310 TGGTAACTGCTAA
1 TGGTAACTGCTAA
4036323 TGGTAACTGCTAA
1 TGGTAACTGCTAA
4036336 T
1 T
4036337 CATACTTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (13 bp):
TGGTAACTGCTAA
Found at i:4038431 original size:20 final size:21
Alignment explanation
Indices: 4038406--4038451 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
4038396 ATCTTGAAAT
4038406 TTATAATTTAC-TTTCTAAAA
1 TTATAATTTACTTTTCTAAAA
* *
4038426 TTATAATTTTCTTTTTTAAAA
1 TTATAATTTACTTTTCTAAAA
4038447 TTATA
1 TTATA
4038452 GGCATATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTATAATTTACTTTTCTAAAA
Found at i:4041816 original size:17 final size:16
Alignment explanation
Indices: 4041781--4041812 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4041771 CTATTTTAAT
4041781 TATTAAAAATAAAAAA
1 TATTAAAAATAAAAAA
4041797 TATTAAAAATAAAAAA
1 TATTAAAAATAAAAAA
4041813 ATATAATTTA
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:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
TATTAAAAATAAAAAA
Found at i:4043397 original size:24 final size:22
Alignment explanation
Indices: 4043354--4043397 Score: 52
Period size: 24 Copynumber: 1.9 Consensus size: 22
4043344 AGTGATGATC
* *
4043354 TAAATTGCATATAAATTTTGGT
1 TAAATTGCATACAAACTTTGGT
4043376 TAAATGTGACATACAAACTTTG
1 TAAAT-TG-CATACAAACTTTG
4043398 AATTACAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 5 0.28
23 2 0.11
24 11 0.61
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (22 bp):
TAAATTGCATACAAACTTTGGT
Found at i:4047923 original size:21 final size:23
Alignment explanation
Indices: 4047852--4047917 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 23
4047842 GTAAGACGAA
* *
4047852 ATTTTAAATTTAGTTATTTTTAATT
1 ATTTTAAAATTAATT-TTTTTAA-T
**
4047877 AAGTTAAAATTAATTTTTTTAAT
1 ATTTTAAAATTAATTTTTTTAAT
4047900 ATTTTAAAA-T-ATTTTTTT
1 ATTTTAAAATTAATTTTTTT
4047918 GTTATTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 8 0.23
22 1 0.03
23 8 0.23
24 7 0.20
25 11 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
ATTTTAAAATTAATTTTTTTAAT
Found at i:4047928 original size:21 final size:21
Alignment explanation
Indices: 4047889--4047928 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4047879 GTTAAAATTA
*
4047889 ATTTTTTTAATATTTTAAAAT
1 ATTTTTTTAATATTATAAAAT
**
4047910 ATTTTTTTGTTATTATAAA
1 ATTTTTTTAATATTATAAA
4047929 TAGGTGGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTTTAATATTATAAAAT
Found at i:4048526 original size:40 final size:41
Alignment explanation
Indices: 4048445--4048604 Score: 159
Period size: 40 Copynumber: 4.0 Consensus size: 41
4048435 AAACAGGCTT
* *
4048445 TTAGCGGCG-TTTGGATAAAAAACGCCACTAAAAATCAAGCA
1 TTAGCGGCGCTTT-TATAAAAAACGCCGCTAAAAATCAAGCA
** *
4048486 TTAGCGGCGCTTTTAT-AAAAACGCCGCTAAAGGTCGAGCA
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAATCAAGCA
**
4048526 TTAGCGGCGCTTTT-TGGAAAACGCCGCTAAAAAT-AAGCA
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAATCAAGCA
* * ** *
4048565 TTACCGGC-ATTTTCCAAAAAACGCCGCAAAAAATCTAAGC
1 TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAATC-AAGC
4048605 CAAACGACGT
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
38 4 0.04
39 28 0.28
40 49 0.49
41 15 0.15
42 3 0.03
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTATAAAAAACGCCGCTAAAAATCAAGCA
Found at i:4048690 original size:41 final size:41
Alignment explanation
Indices: 4048632--4048916 Score: 446
Period size: 41 Copynumber: 7.0 Consensus size: 41
4048622 TGAGTTTTTG
*
4048632 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATTCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
4048673 AGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* *
4048714 GGGCCTTTAGCGGCCTTTGT-AAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAA-AAGCGCCGCTAATGCTC
* *
4048755 GGGCCTTTAGCGGCGTTTTGGAAGAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
4048796 GGGCCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
* * *
4048837 AGGCCTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTT
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
*
4048878 GGGCCTTTAGCGGCGTTTATGAAAAAGCGCCGCTAATGC
1 GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
4048917 CCGCTTTTGA
Statistics
Matches: 222, Mismatches: 20, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.01
41 218 0.98
42 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (41 bp):
GGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC
Found at i:4049380 original size:14 final size:15
Alignment explanation
Indices: 4049352--4049384 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4049342 AAGGTTTATA
4049352 GATTATGGAATTAGG
1 GATTATGGAATTAGG
4049367 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
4049381 GATT
1 GATT
4049385 CTGGTTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:4049626 original size:7 final size:7
Alignment explanation
Indices: 4049603--4049654 Score: 59
Period size: 7 Copynumber: 7.4 Consensus size: 7
4049593 TAAATAAGAT
4049603 TTAGGGG
1 TTAGGGG
**
4049610 TTAGTAG
1 TTAGGGG
4049617 TTAGGGG
1 TTAGGGG
4049624 TTAGGGG
1 TTAGGGG
4049631 TTAGGGG
1 TTAGGGG
**
4049638 TTAAAGG
1 TTAGGGG
*
4049645 TTAGAGG
1 TTAGGGG
4049652 TTA
1 TTA
4049655 AGAGTTATTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.23, C:0.00, G:0.44, T:0.33
Consensus pattern (7 bp):
TTAGGGG
Found at i:4049640 original size:21 final size:21
Alignment explanation
Indices: 4049603--4049661 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
4049593 TAAATAAGAT
* **
4049603 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGGAGTTAAAGG
*
4049624 TTAGGGGTTAGGGGTTAAAGG
1 TTAGGGGTTAGGAGTTAAAGG
* *
4049645 TTAGAGGTTAAGAGTTA
1 TTAGGGGTTAGGAGTTA
4049662 TTGATTTAGG
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.32
Consensus pattern (21 bp):
TTAGGGGTTAGGAGTTAAAGG
Found at i:4049661 original size:14 final size:14
Alignment explanation
Indices: 4049597--4049661 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
4049587 ATATATTAAA
*
4049597 TAAGATTTAGGGGT
1 TAAGAGTTAGGGGT
4049611 T-AGTAGTTAGGGGT
1 TAAG-AGTTAGGGGT
* *
4049625 TAGGGGTTAGGGGT
1 TAAGAGTTAGGGGT
*
4049639 TAA-AGGTTAGAGGT
1 TAAGA-GTTAGGGGT
4049653 TAAGAGTTA
1 TAAGAGTTA
4049662 TTGATTTAGG
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
13 2 0.05
14 37 0.90
15 2 0.05
ACGTcount: A:0.28, C:0.00, G:0.40, T:0.32
Consensus pattern (14 bp):
TAAGAGTTAGGGGT
Found at i:4050129 original size:13 final size:13
Alignment explanation
Indices: 4050111--4050137 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
4050101 ATAAATAAAT
4050111 AAATTAATGTAAC
1 AAATTAATGTAAC
4050124 AAATTAATGTAAC
1 AAATTAATGTAAC
4050137 A
1 A
4050138 GATTGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AAATTAATGTAAC
Found at i:4054192 original size:43 final size:43
Alignment explanation
Indices: 4054132--4054222 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
4054122 CTTTGAGTTC
* * * *
4054132 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
4054174 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
4054217 ATTACC
1 ATTACC
4054223 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:4054573 original size:43 final size:43
Alignment explanation
Indices: 4054497--4054700 Score: 195
Period size: 42 Copynumber: 4.8 Consensus size: 43
4054487 AAGATATATT
** **
4054497 TTTAGCGGCGTTTGTGTTAAAAGCGTTGCTAAAGGTCTAT-TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTATGTC
* * * *
4054539 TATAGCGGCGTTTGTGGGAAAAAGCGCCGCTAAAGCTCAATATC
1 TTTAGCGGCGTTTGTGGG-AAAAGCGCCGCTAAAGGTCTATGTC
* *
4054583 TTTAGCGGGGTTTGTGGGAAAAGCGCTGCTAAAGGTCT-TGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
* *
4054626 TTTAGCGGCGTTTGTGGG-GAAGCGCCGCTAAAGATCT-TGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTAT-GTC
* * *
4054668 TTTAGTGGCGTTAGTAAGG--AAGCGCCGCTAAAG
1 TTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAG
4054701 TTAGTGACGC
Statistics
Matches: 138, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
42 64 0.46
43 56 0.41
44 18 0.13
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTATGTC
Found at i:4054596 original size:86 final size:84
Alignment explanation
Indices: 4054492--4054658 Score: 228
Period size: 86 Copynumber: 2.0 Consensus size: 84
4054482 TTTAAAAGAT
* ** *
4054492 ATATTTTTAGCGGCGTTTGTGTTAAAAGCGTTGCTAAAGGTCTAT-TCTATAGCGGCGTTTGTGG
1 ATATCTTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCT-TGTCTATAGCGGCGTTTGTGG
4054556 GAAAAAGCGCCGCTAAAGCTCA
65 G--AAAGCGCCGCTAAAGCTCA
* *
4054578 ATATCTTTAGCGGGGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGG
1 ATATCTTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTT-GTCTATAGCGGCGTTTGTGG
*
4054643 GGAAGCGCCGCTAAAG
65 GAAAGCGCCGCTAAAG
4054659 ATCTTGGTCT
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
85 15 0.21
86 38 0.53
87 19 0.26
ACGTcount: A:0.23, C:0.16, G:0.31, T:0.30
Consensus pattern (84 bp):
ATATCTTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCTTGTCTATAGCGGCGTTTGTGGG
AAAGCGCCGCTAAAGCTCA
Found at i:4054796 original size:21 final size:22
Alignment explanation
Indices: 4054770--4054814 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4054760 TTTAGTGGCG
*
4054770 CTAAAAAA-CGCCGCTAAAGGC
1 CTAAAAAAGCGCCGCTAAAAGC
*
4054791 CTAAAAAAGTGCCGCTAAAAGC
1 CTAAAAAAGCGCCGCTAAAAGC
4054813 CT
1 CT
4054815 GTTTTGGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.13
Consensus pattern (22 bp):
CTAAAAAAGCGCCGCTAAAAGC
Found at i:4056366 original size:21 final size:21
Alignment explanation
Indices: 4056342--4056392 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
4056332 ATAAAAACTT
4056342 GAAAGAGCTGAACAGAAGCTC
1 GAAAGAGCTGAACAGAAGCTC
4056363 GAAAGAGCTGAACAGAAGCTC
1 GAAAGAGCTGAACAGAAGCTC
*
4056384 AAAAGAGCT
1 GAAAGAGCT
4056393 AATCCATCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.18, G:0.27, T:0.10
Consensus pattern (21 bp):
GAAAGAGCTGAACAGAAGCTC
Found at i:4057672 original size:21 final size:23
Alignment explanation
Indices: 4057601--4057666 Score: 64
Period size: 25 Copynumber: 2.9 Consensus size: 23
4057591 GTAAGACGAA
* *
4057601 ATTTTAAATTTAGTTATTTTTAATT
1 ATTTTAAAATTAATT-TTTTTAA-T
**
4057626 AAGTTAAAATTAATTTTTTTAAT
1 ATTTTAAAATTAATTTTTTTAAT
4057649 ATTTTAAAA-T-ATTTTTTT
1 ATTTTAAAATTAATTTTTTT
4057667 GTTATTATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 8 0.23
22 1 0.03
23 8 0.23
24 7 0.20
25 11 0.31
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (23 bp):
ATTTTAAAATTAATTTTTTTAAT
Found at i:4057677 original size:21 final size:21
Alignment explanation
Indices: 4057638--4057677 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4057628 GTTAAAATTA
*
4057638 ATTTTTTTAATATTTTAAAAT
1 ATTTTTTTAATATTATAAAAT
**
4057659 ATTTTTTTGTTATTATAAA
1 ATTTTTTTAATATTATAAA
4057678 TAGGTGGATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
ATTTTTTTAATATTATAAAAT
Found at i:4066259 original size:23 final size:23
Alignment explanation
Indices: 4066222--4066265 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4066212 ATGTACTCAT
4066222 GCCATTACAAATTTACTCAAATTA
1 GCCATTACAAATTTAC-CAAATTA
*
4066246 GCCATTTC-AATTTACCAAAT
1 GCCATTACAAATTTACCAAAT
4066266 ATTCATAGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 7 0.37
24 7 0.37
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.34
Consensus pattern (23 bp):
GCCATTACAAATTTACCAAATTA
Found at i:4067749 original size:41 final size:44
Alignment explanation
Indices: 4067685--4067817 Score: 150
Period size: 45 Copynumber: 3.0 Consensus size: 44
4067675 ATGCTATCTC
*
4067685 ATATCGATGCCATTGTCCCAGACAGGGTCTTACACGAATCA-A-
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAATCACAT
* **
4067727 ATA-CGATGCCAATGTCCTAGACATTGTCTTACACGTAATCACAT
1 ATATCGATGCCAATGTCCCAGACAGGGTCTTACACG-AATCACAT
*
4067771 ATATCGATGCC-ATCGTCCCAGAC-GTGGTCTTACACGAGAACACAT
1 ATATCGATGCCAAT-GTCCCAGACAG-GGTCTTACACGA-ATCACAT
4067816 AT
1 AT
4067818 CGAAAATCCT
Statistics
Matches: 76, Mismatches: 8, Indels: 11
0.80 0.08 0.12
Matches are distributed among these distances:
41 28 0.37
42 8 0.11
43 1 0.01
44 6 0.08
45 33 0.43
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (44 bp):
ATATCGATGCCAATGTCCCAGACAGGGTCTTACACGAATCACAT
Found at i:4067815 original size:45 final size:43
Alignment explanation
Indices: 4067648--4067820 Score: 169
Period size: 43 Copynumber: 4.0 Consensus size: 43
4067638 ATATCGGACA
* * * *
4067648 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC-ATATCG
1 ATGCCATCGTCCCAGACGTGGTCTTACACG-AATCACAATATCG
*
4067691 ATGCCATTGTCCCAGACAG-GGTCTTACACGAATCA-AATA-CG
1 ATGCCATCGTCCCAGAC-GTGGTCTTACACGAATCACAATATCG
* * *
4067732 ATGCCAAT-GTCCTAGACATTGTCTTACACGTAATCACATATATCG
1 ATGCC-ATCGTCCCAGACGTGGTCTTACACG-AATCACA-ATATCG
*
4067777 ATGCCATCGTCCCAGACGTGGTCTTACACGAGAACAC-ATATCG
1 ATGCCATCGTCCCAGACGTGGTCTTACACGA-ATCACAATATCG
4067820 A
1 A
4067821 AAATCCTATG
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
41 25 0.23
42 13 0.12
43 33 0.31
44 7 0.06
45 30 0.28
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCATCGTCCCAGACGTGGTCTTACACGAATCACAATATCG
Found at i:4074888 original size:15 final size:14
Alignment explanation
Indices: 4074847--4074889 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
4074837 GTTTTAGTCA
4074847 AAAACCTTAAACCT
1 AAAACCTTAAACCT
* *
4074861 AAAACATTAAAACTT
1 AAAACCTT-AAACCT
4074876 AAAACCCTTAAACC
1 AAAA-CCTTAAACC
4074890 CTAATTTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
14 7 0.30
15 13 0.57
16 3 0.13
ACGTcount: A:0.53, C:0.26, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAACCTTAAACCT
Found at i:4078311 original size:31 final size:31
Alignment explanation
Indices: 4078267--4078328 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
4078257 TTATGTACTG
4078267 GTTTCTTAGTATGAATATTCAGTTGCATTAT
1 GTTTCTTAGTATGAATATTCAGTTGCATTAT
* *
4078298 GTTTGTTATTATGAATATTCAGTTGCATTAT
1 GTTTCTTAGTATGAATATTCAGTTGCATTAT
4078329 TATTACTCAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.08, G:0.16, T:0.50
Consensus pattern (31 bp):
GTTTCTTAGTATGAATATTCAGTTGCATTAT
Found at i:4082616 original size:15 final size:15
Alignment explanation
Indices: 4082592--4082626 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4082582 TTTGGAATTC
* *
4082592 AATATTATATATTGA
1 AATATCATATAGTGA
4082607 AATATCATATAGTGA
1 AATATCATATAGTGA
4082622 AATAT
1 AATAT
4082627 ATCAAAGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.40
Consensus pattern (15 bp):
AATATCATATAGTGA
Found at i:4084296 original size:500 final size:492
Alignment explanation
Indices: 4083254--4084388 Score: 1180
Period size: 500 Copynumber: 2.3 Consensus size: 492
4083244 GTATCGATCA
* * * * * * * * *
4083254 ATTGTACATTTCTATGA-TACTAACATAATTGAATGAATTATGACATCAGTTGTAGAATCATTGA
1 ATTGTACATTTCTCTAATTATTAACGTAATTGAATGAGTTATGACATTAATTGTACAATCATTTA
* * * * *
4083318 TCTAATTGAATAAATCTATGTATGAAA-CTTAT-GACATTATAGTGTTATAAGTGTTTTTAAAAG
66 TCTAATTGAATGAATCTATGTATGAAAGGTAATAG-CATTGTAGTG-TATAAGTATTTTTAAAAG
* * * * * *
4083381 TATTTATCAATTCTATATTCCTTTAATTACTAGCAAAATCGAATGAATTGTCACATTAATCGTAG
129 TATTTATCAATTGTATATTCCTCTAATCACTAGCAAAATCGAATAAATTCTCACATTAATCGTAC
* *
4083446 ATCCAATGAACCAATGGAATAAATTGTATAATAACTCGTACAATCATTTATCCAATTAAATCAGT
194 ATCCAATGAACCAATGGAATAAATTGTATAATAACTCATACAATCATTGATCCAATTAAATCAGT
*** * * *
4083511 CCATGTAAACATAGTGTTTAGTATAAATGTTTGGAATTCAATACCGTACAGTGAAAACTTTAGAC
259 CCATGTAAACATAACATTGAGTATAAATGTTTAGAATTCAATACCATACAGTGAAAACTTTAGAC
* * *
4083576 CATCAATGTTTAATTGGAAAATTTTGATCAACTTAAGAGTATTTATCAATTATGCATTCCTTTAA
324 CACCAATGTTTAATTGGAAAATTTTAATCAACTTAAGAGTATTTATCAATTATGCATTCCTCTAA
* * * * * *
4083641 CTACTAACAAATTTGAATAATTATGATATCGAACCAGTTGAATCGAATCTATATATGAGTGTATT
389 CTACTAACAAATTTGAATAATTATGACATCGAACCAATTAAATCGAATCTATATATGAATGCAGT
* * * * *
4083706 AACATTGTGTTGTACAAGTAACTTGAAATGTATTAATGT
454 AACATTGTGGTCTACAAGTAACTTGAAAAGTAATAATGC
* * * * * * **
4083745 ATTGTATATTTCTTTAATTATTAATGTAATTGAATAAGTTATTATATTAATTGTACAGCCATTTA
1 ATTGTACATTTCTCTAATTATTAACGTAATTGAATGAGTTATGACATTAATTGTACAATCATTTA
4083810 TCTAATTGAATGAATCTATGTA-GAAAGGTAATAGCATTGTAGTGTATAAGTATTTTTAAAAGTA
66 TCTAATTGAATGAATCTATGTATGAAAGGTAATAGCATTGTAGTGTATAAGTATTTTTAAAAGTA
* * *** * * * *
4083874 TTTATTAATTGTATGTTCCTCTAATCACTAGTGCAATTGAATAAATTCTGACATTAGTTGTACAG
131 TTTATCAATTGTATATTCCTCTAATCACTAGCAAAATCGAATAAATTCTCACATTAATCGTACA-
* * * * * * * *
4083939 T-TATTGATCTAATTGAATAAATTGTATAATTAA-TCATACAATCATTGGTCTAATTGAATCAGT
195 TCCAATGAACCAATGGAATAAATTGTATAA-TAACTCATACAATCATTGATCCAATTAAATCAGT
* * *
4084002 CTATGTAAAC-TCAACATTGAGTATACATGTTTAGAATTCAATATCATACAGTGAAATATATCAA
259 CCATGTAAACAT-AACATTGAGTATAAATGTTTAGAATTCAATACCATACAGTG---------AA
* ** *
4084066 AACTTTGGACCACCAATGTTTAATT-TCAAATGTTTAATCAACTTCAGAGTATTTATCAATTATG
314 AACTTTAGACCACCAATGTTTAATTGGAAAAT-TTTAATCAACTTAAGAGTATTTATCAATTATG
* * * * * * * *
4084130 TATTCCTCTAACTGCTAACGTAA-TTGAATGATTATGACATTGAACTAATTAAATTGAGTCTATA
378 CATTCCTCTAACTACTAAC-AAATTTGAATAATTATGACATCGAACCAATTAAATCGAATCTATA
* * *
4084194 TATGAATGCAGTAACATTGTGGTCTACAAGTGATTTGAAAAGTAATGAT-C
442 TATGAATGCAGTAACATTGTGGTCTACAAGTAACTTGAAAAGTAATAATGC
* *
4084244 ACTTTTACATTTCTCTAATTTTTAACGTAATTGAATGAGTTATGACATTAATTGTACAATC-TTT
1 A-TTGTACATTTCTCTAATTATTAACGTAATTGAATGAGTTATGACATTAATTGTACAATCATTT
* * * *
4084308 GATCTAATTGAACGAATCTATGCATG-AAGGTAATTA-CATTGTAGTGTATAAGTATTTGTAAGA
65 -ATCTAATTGAATGAATCTATGTATGAAAGGTAA-TAGCATTGTAGTGTATAAGTATTTTTAAAA
*
4084371 GTATTGATCAATTGTATA
128 GTATTTATCAATTGTATA
4084389 ATCCATTGTA
Statistics
Matches: 522, Mismatches: 101, Indels: 33
0.80 0.15 0.05
Matches are distributed among these distances:
490 1 0.00
491 176 0.34
492 71 0.14
493 1 0.00
499 8 0.02
500 260 0.50
501 5 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (492 bp):
ATTGTACATTTCTCTAATTATTAACGTAATTGAATGAGTTATGACATTAATTGTACAATCATTTA
TCTAATTGAATGAATCTATGTATGAAAGGTAATAGCATTGTAGTGTATAAGTATTTTTAAAAGTA
TTTATCAATTGTATATTCCTCTAATCACTAGCAAAATCGAATAAATTCTCACATTAATCGTACAT
CCAATGAACCAATGGAATAAATTGTATAATAACTCATACAATCATTGATCCAATTAAATCAGTCC
ATGTAAACATAACATTGAGTATAAATGTTTAGAATTCAATACCATACAGTGAAAACTTTAGACCA
CCAATGTTTAATTGGAAAATTTTAATCAACTTAAGAGTATTTATCAATTATGCATTCCTCTAACT
ACTAACAAATTTGAATAATTATGACATCGAACCAATTAAATCGAATCTATATATGAATGCAGTAA
CATTGTGGTCTACAAGTAACTTGAAAAGTAATAATGC
Found at i:4086497 original size:23 final size:22
Alignment explanation
Indices: 4086465--4086526 Score: 88
Period size: 22 Copynumber: 2.7 Consensus size: 22
4086455 CCCGGCCCAT
*
4086465 TTTTTAATTAAAATTAAAATTATA
1 TTTTT-ATTAAAATTAAAACTA-A
4086489 TTTTTATTAAAATTAAAACTAA
1 TTTTTATTAAAATTAAAACTAA
*
4086511 TTGTTATTAAAATTAA
1 TTTTTATTAAAATTAA
4086527 TTGTTATCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 16 0.44
23 15 0.42
24 5 0.14
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TTTTTATTAAAATTAAAACTAA
Found at i:4086521 original size:16 final size:16
Alignment explanation
Indices: 4086500--4086556 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
4086490 TTTTATTAAA
*
4086500 ATTAAAACTAATTGTT
1 ATTAAAATTAATTGTT
4086516 ATTAAAATTAATTGTT
1 ATTAAAATTAATTGTT
* *
4086532 ATCAAAATTAATTATT
1 ATTAAAATTAATTGTT
4086548 ATTAAAATT
1 ATTAAAATT
4086557 GTATCAAATT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTAAAATTAATTGTT
Found at i:4086617 original size:70 final size:70
Alignment explanation
Indices: 4086539--4086680 Score: 284
Period size: 70 Copynumber: 2.0 Consensus size: 70
4086529 GTTATCAAAA
4086539 TTAATTATTATTAAAATTGTATCAAATTATATATTTTTTGTACCAATCAACATTTTATAAAATCT
1 TTAATTATTATTAAAATTGTATCAAATTATATATTTTTTGTACCAATCAACATTTTATAAAATCT
4086604 AACAT
66 AACAT
4086609 TTAATTATTATTAAAATTGTATCAAATTATATATTTTTTGTACCAATCAACATTTTATAAAATCT
1 TTAATTATTATTAAAATTGTATCAAATTATATATTTTTTGTACCAATCAACATTTTATAAAATCT
4086674 AACAT
66 AACAT
4086679 TT
1 TT
4086681 TGTTAGTAAA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.41, C:0.10, G:0.03, T:0.46
Consensus pattern (70 bp):
TTAATTATTATTAAAATTGTATCAAATTATATATTTTTTGTACCAATCAACATTTTATAAAATCT
AACAT
Found at i:4086868 original size:22 final size:22
Alignment explanation
Indices: 4086837--4086883 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
4086827 TAACTTAAAA
* *
4086837 TAAAACTAAAACTAGTATAT-TT
1 TAAAAATAAAAATA-TATATATT
4086859 TAAAAATAAAAATATATATATT
1 TAAAAATAAAAATATATATATT
4086881 TAA
1 TAA
4086884 TATATTTTCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAAATAAAAATATATATATT
Found at i:4088632 original size:20 final size:19
Alignment explanation
Indices: 4088591--4088638 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
4088581 AAACATAAAA
* *
4088591 TTTGAAATTTTATAAATAT
1 TTTGAATTTTTAAAAATAT
4088610 TTTGAATTTTTAAAAATTAT
1 TTTGAATTTTTAAAAA-TAT
4088630 TTTGAATTT
1 TTTGAATTT
4088639 GTTTTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTGAATTTTTAAAAATAT
Found at i:4089986 original size:24 final size:22
Alignment explanation
Indices: 4089959--4090015 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
4089949 GTGAGTACTA
4089959 TATTCAATTACACATATGATAATG
1 TATTCAA--ACACATATGATAATG
4089983 TATTC-AACACATATGATAATG
1 TATTCAAACACATATGATAATG
4090004 TATTC-AACACAT
1 TATTCAAACACAT
4090016 CAGATTTTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 27 0.82
23 1 0.03
24 5 0.15
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.35
Consensus pattern (22 bp):
TATTCAAACACATATGATAATG
Found at i:4089994 original size:21 final size:21
Alignment explanation
Indices: 4089968--4090015 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
4089958 ATATTCAATT
4089968 ACACATATGATAATGTATTCA
1 ACACATATGATAATGTATTCA
4089989 ACACATATGATAATGTATTCA
1 ACACATATGATAATGTATTCA
4090010 ACACAT
1 ACACAT
4090016 CAGATTTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.44, C:0.17, G:0.08, T:0.31
Consensus pattern (21 bp):
ACACATATGATAATGTATTCA
Found at i:4099899 original size:52 final size:52
Alignment explanation
Indices: 4099821--4100176 Score: 459
Period size: 52 Copynumber: 7.1 Consensus size: 52
4099811 TACTTCTGAT
* * **
4099821 CAAGTGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
4099873 CAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* *
4099925 C------AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTAATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
*
4099971 CAAAGT-GATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
1 C-AAGTGGA-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
4100024 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
* * *
4100076 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
** * *
4100128 C------AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATTAAGAGA
1 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
4100174 CAA
1 CAA
4100177 AGTGATAAGT
Statistics
Matches: 275, Mismatches: 19, Indels: 24
0.86 0.06 0.08
Matches are distributed among these distances:
46 86 0.31
52 145 0.53
53 44 0.16
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (52 bp):
CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
Found at i:4099930 original size:46 final size:46
Alignment explanation
Indices: 4099880--4100187 Score: 346
Period size: 46 Copynumber: 6.3 Consensus size: 46
4099870 TGACAAGTGG
* *
4099880 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
4099926 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTAATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
*
4099972 AAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 ------A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
4100025 AAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
* *
4100077 AAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
** * *
4100129 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATTAAGAGAC
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
4100175 AAAGTGATAAGTG
1 AAAGTGATAAGTG
4100188 GCTACACTTA
Statistics
Matches: 239, Mismatches: 16, Indels: 14
0.89 0.06 0.05
Matches are distributed among these distances:
46 99 0.41
52 94 0.39
53 46 0.19
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC
Found at i:4100162 original size:203 final size:203
Alignment explanation
Indices: 4099821--4100187 Score: 617
Period size: 203 Copynumber: 1.8 Consensus size: 203
4099811 TACTTCTGAT
* * *
4099821 CAAGTGCAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTG
1 CAAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTG
* *
4099886 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCT
66 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCT
* *
4099951 ATACTTATCTAATCAAGTGACAAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGA
131 ACACTTATCTAATCAAGAGACAAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGA
4100016 TCAAGTGA
196 TCAAGTGA
* *
4100024 CAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTG
1 CAAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTG
* *
4100089 ATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCT
66 ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCT
* *
4100154 ACACTTATCTGATTAAGAGACAAAGTGATAAGTG
131 ACACTTATCTAATCAAGAGACAAAGTGATAAGTG
4100188 GCTACACTTA
Statistics
Matches: 151, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
203 151 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (203 bp):
CAAGTGCAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTG
ATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCT
ACACTTATCTAATCAAGAGACAAAGTGATAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGA
TCAAGTGA
Found at i:4100195 original size:37 final size:37
Alignment explanation
Indices: 4100151--4100259 Score: 159
Period size: 37 Copynumber: 3.0 Consensus size: 37
4100141 GATAGCTTTA
4100151 GCTACACTTATCTGATTAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATTAAGAGACAAAGTGATAAGTG
* * *
4100188 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATTAAGAGACAAAGTGATAAGTG
* *
4100225 GCTACACTTATCTGA-TCAGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATTAAGAGACAAAGTGATAAGTG
4100260 ATCATACGTA
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 49 0.77
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.26
Consensus pattern (37 bp):
GCTACACTTATCTGATTAAGAGACAAAGTGATAAGTG
Found at i:4100976 original size:18 final size:18
Alignment explanation
Indices: 4100950--4100996 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
4100940 TTTTAAAAAC
4100950 ATAAA-ATTTGAAATTTT
1 ATAAATATTTGAAATTTT
*
4100967 ATAAATATTTTGAATTTTT
1 ATAAATA-TTTGAAATTTT
*
4100986 AAAAATTATTT
1 ATAAA-TATTT
4100997 TGAATTTGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 5 0.20
18 1 0.04
19 17 0.68
20 2 0.08
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
ATAAATATTTGAAATTTT
Found at i:4100997 original size:20 final size:19
Alignment explanation
Indices: 4100956--4101003 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
4100946 AAACATAAAA
* *
4100956 TTTGAAATTTTATAAATAT
1 TTTGAATTTTTAAAAATAT
4100975 TTTGAATTTTTAAAAATTAT
1 TTTGAATTTTTAAAAA-TAT
4100995 TTTGAATTT
1 TTTGAATTT
4101004 GTTTTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTGAATTTTTAAAAATAT
Found at i:4105925 original size:21 final size:22
Alignment explanation
Indices: 4105896--4105942 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
4105886 CAGAAGGAGT
*
4105896 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4105918 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
4105939 GAGT
1 GAGT
4105943 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:4108685 original size:11 final size:11
Alignment explanation
Indices: 4108669--4108714 Score: 53
Period size: 11 Copynumber: 4.5 Consensus size: 11
4108659 CACGGTTTTT
4108669 TACAAAAATAA
1 TACAAAAATAA
4108680 TACAAAAA-AA
1 TACAAAAATAA
* *
4108690 TAAAAAAAAAA
1 TACAAAAATAA
4108701 T-C-AAAATAA
1 TACAAAAATAA
4108710 TACAA
1 TACAA
4108715 GTATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
9 7 0.24
10 10 0.34
11 12 0.41
ACGTcount: A:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (11 bp):
TACAAAAATAA
Found at i:4108705 original size:20 final size:21
Alignment explanation
Indices: 4108672--4108711 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
4108662 GGTTTTTTAC
*
4108672 AAAAATAATACAAAAAAATAA
1 AAAAAAAATACAAAAAAATAA
*
4108693 AAAAAAAAT-CAAAATAATA
1 AAAAAAAATACAAAAAAATA
4108712 CAAGTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (21 bp):
AAAAAAAATACAAAAAAATAA
Found at i:4108879 original size:15 final size:16
Alignment explanation
Indices: 4108847--4108882 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
4108837 TTCGTATTTT
4108847 TTTTATTTTCAGATTA
1 TTTTATTTTCAGATTA
*
4108863 TTTTATTTT-ATATTA
1 TTTTATTTTCAGATTA
4108878 TTTTA
1 TTTTA
4108883 GTACATAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TTTTATTTTCAGATTA
Found at i:4109214 original size:30 final size:30
Alignment explanation
Indices: 4109178--4109235 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
4109168 TAAATTAAAT
4109178 TAAATAATAAAACATAGAATGTACATAACA
1 TAAATAATAAAACATAGAATGTACATAACA
4109208 TAAATAATAAAACATAGAATGTACATAA
1 TAAATAATAAAACATAGAATGTACATAA
4109236 GACAAAAAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (30 bp):
TAAATAATAAAACATAGAATGTACATAACA
Found at i:4118782 original size:21 final size:22
Alignment explanation
Indices: 4118756--4118796 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
4118746 AATAAATGCC
4118756 AAAAAA-TTATTTTAAAAATTA
1 AAAAAATTTATTTTAAAAATTA
4118777 AAAAAATTTATTTTAAAAAT
1 AAAAAATTTATTTTAAAAAT
4118797 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
AAAAAATTTATTTTAAAAATTA
Found at i:4118801 original size:11 final size:11
Alignment explanation
Indices: 4118785--4118885 Score: 69
Period size: 11 Copynumber: 9.9 Consensus size: 11
4118775 TAAAAAAATT
4118785 TATTTTAAAAA
1 TATTTTAAAAA
*
4118796 TATTTT--TAA
1 TATTTTAAAAA
4118805 -A-TT-AAAAA
1 TATTTTAAAAA
* *
4118813 AATTTTACAAAG
1 TATTTTA-AAAA
4118825 TATTTTAAAAA
1 TATTTTAAAAA
4118836 TATTTT--AAA
1 TATTTTAAAAA
4118845 -A--TTAAAAA
1 TATTTTAAAAA
*
4118853 AATTTTAAAAA
1 TATTTTAAAAA
*
4118864 GTATTTTAAAAG
1 -TATTTTAAAAA
4118876 TATTTTAAAA
1 TATTTTAAAA
4118886 TTAAAAAAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 24
0.70 0.07 0.24
Matches are distributed among these distances:
6 2 0.03
7 2 0.03
8 7 0.10
9 7 0.10
10 2 0.03
11 33 0.46
12 18 0.25
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:4118803 original size:17 final size:17
Alignment explanation
Indices: 4118771--4118818 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
4118761 ATTATTTTAA
4118771 AAATTAAAAAAATTTATT
1 AAATTAAAAAAATTT-TT
*
4118789 ---TTAAAAATATTTTT
1 AAATTAAAAAAATTTTT
4118803 AAATTAAAAAAATTTT
1 AAATTAAAAAAATTTT
4118819 ACAAAGTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
14 2 0.08
15 11 0.44
17 12 0.48
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATTAAAAAAATTTTT
Found at i:4118829 original size:40 final size:40
Alignment explanation
Indices: 4118785--4118895 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
4118775 TAAAAAAATT
* *
4118785 TATTTTAAAAATATTTTTAAATTAAAAAAATTTTACAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAG
4118825 TATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAG
*
4118865 TATTTTAAAAGTATTTTAAAATTAAAAAAAT
1 TATTTTAAAAATATTTTAAAATTAAAAAAAT
4118896 AAAATATTTA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (40 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAATTTTAAAAAG
Found at i:4121656 original size:71 final size:72
Alignment explanation
Indices: 4121579--4121757 Score: 206
Period size: 71 Copynumber: 2.5 Consensus size: 72
4121569 ATCTACCCTG
* * * *
4121579 TTTGGACAGCTTTTATACATCAATTTGGATAGCATTTATATACCA-AATTAGA-CAACATTTTCA
1 TTTGGACAGCATATATACAACAATTTGGA-AGCATTTATATACAACAATTAGAGCAACATTTTCA
4121642 CACCAAAA
65 CACCAAAA
* * *
4121650 TTTGGACAGCATAAATACAACAATTTAGGAAGCA--TATATACAACAATTTGAGCAACATTTTTA
1 TTTGGACAGCATATATACAACAATTT-GGAAGCATTTATATACAACAATTAGAGCAACATTTTCA
4121713 CACCAAAA
65 CACCAAAA
* * *
4121721 -TTGGACAGCGTATATACAACAAATTGGGCAGCATTTA
1 TTTGGACAGCATATATACAAC-AATTTGGAAGCATTTA
4121758 AACATCAAAA
Statistics
Matches: 91, Mismatches: 11, Indels: 11
0.81 0.10 0.10
Matches are distributed among these distances:
69 8 0.09
70 30 0.33
71 48 0.53
72 5 0.05
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (72 bp):
TTTGGACAGCATATATACAACAATTTGGAAGCATTTATATACAACAATTAGAGCAACATTTTCAC
ACCAAAA
Found at i:4121752 original size:23 final size:23
Alignment explanation
Indices: 4121651--4121754 Score: 82
Period size: 23 Copynumber: 4.5 Consensus size: 23
4121641 ACACCAAAAT
* * *
4121651 TTGGACAGCATAAATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * *
4121674 TTAGGAAGCATATATACAACAAT
1 TTGGGCAGCATATATACAACAAA
* * * * *
4121697 TTGAGCAACATTTTTACACCAAAA
1 TTGGGCAGCATATATACAAC-AAA
* *
4121721 TTGGACAGCGTATATACAACAAA
1 TTGGGCAGCATATATACAACAAA
4121744 TTGGGCAGCAT
1 TTGGGCAGCAT
4121755 TTAAACATCA
Statistics
Matches: 59, Mismatches: 21, Indels: 2
0.72 0.26 0.02
Matches are distributed among these distances:
23 44 0.75
24 15 0.25
ACGTcount: A:0.42, C:0.17, G:0.15, T:0.25
Consensus pattern (23 bp):
TTGGGCAGCATATATACAACAAA
Found at i:4121779 original size:2 final size:2
Alignment explanation
Indices: 4121767--4121817 Score: 75
Period size: 2 Copynumber: 25.5 Consensus size: 2
4121757 AAACATCAAA
* * *
4121767 AT AT GT AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4121809 AT AT AT AT A
1 AT AT AT AT A
4121818 CATTCGGTAA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (2 bp):
AT
Found at i:4121789 original size:14 final size:14
Alignment explanation
Indices: 4121767--4121817 Score: 84
Period size: 14 Copynumber: 3.6 Consensus size: 14
4121757 AAACATCAAA
* *
4121767 ATATGTATATATAT
1 ATATATATATTTAT
4121781 ATATATATATTTAT
1 ATATATATATTTAT
4121795 ATATATATATTTAT
1 ATATATATATTTAT
4121809 ATATATATA
1 ATATATATA
4121818 CATTCGGTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
ATATATATATTTAT
Found at i:4122827 original size:43 final size:42
Alignment explanation
Indices: 4122720--4122833 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 42
4122710 AACGTTCTAA
* *
4122720 ACGTGGTCTTACATGTAATCATATATCGATGCCACTGTCCCAG
1 ACGTGGTCTTACATGTAA-CACATATCGATGCCAATGTCCCAG
*
4122763 ACAG-GGTCTTACATGTAAACACAAATCGATGCCAATGTCCCAG
1 AC-GTGGTCTTACATGT-AACACATATCGATGCCAATGTCCCAG
*
4122806 ACGTGGTCTTACACGATAACACATATCG
1 ACGTGGTCTTACATG-TAACACATATCG
4122834 TAAATCCTAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 4 0.06
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
ACGTGGTCTTACATGTAACACATATCGATGCCAATGTCCCAG
Found at i:4124729 original size:16 final size:17
Alignment explanation
Indices: 4124684--4124735 Score: 63
Period size: 16 Copynumber: 3.1 Consensus size: 17
4124674 ATTATTATTA
*
4124684 TTATTATTATTATTATTA-
1 TTATTA-TATTACT-TTAT
4124702 TTATTATATTACTTTAT
1 TTATTATATTACTTTAT
4124719 TTATTAT-TTACTTTAT
1 TTATTATATTACTTTAT
4124735 T
1 T
4124736 ATTTACTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 13 0.41
17 13 0.41
18 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
TTATTATATTACTTTAT
Found at i:4124733 original size:12 final size:11
Alignment explanation
Indices: 4124678--4124745 Score: 65
Period size: 12 Copynumber: 6.3 Consensus size: 11
4124668 GATTTGATTA
4124678 TTATTA-TTA-
1 TTATTATTTAT
4124687 TTATTA-TTA-
1 TTATTATTTAT
4124696 TTATTA-TTAT
1 TTATTATTTAT
4124706 TATATTACTTTAT
1 T-TATTA-TTTAT
4124719 TTATTATTTACT
1 TTATTATTTA-T
4124731 TTATTATTTACT
1 TTATTATTTA-T
4124743 TTA
1 TTA
4124746 CCACTCTCAG
Statistics
Matches: 54, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
9 18 0.33
10 1 0.02
11 9 0.17
12 21 0.39
13 5 0.09
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.66
Consensus pattern (11 bp):
TTATTATTTAT
Found at i:4124738 original size:3 final size:3
Alignment explanation
Indices: 4124674--4124726 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
4124664 ATGTGATTTG
*
4124674 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ACT -TT ATTT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT
4124721 ATT ATT
1 ATT ATT
4124727 TACTTTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
2 3 0.07
3 39 0.87
4 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4132615 original size:18 final size:19
Alignment explanation
Indices: 4132592--4132629 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
4132582 GGAAGCAAGC
*
4132592 AATGATTGAAGA-AATCAG
1 AATGATTGAAAAGAATCAG
4132610 AATGATTGAAAAGAATCAG
1 AATGATTGAAAAGAATCAG
4132629 A
1 A
4132630 CCTGGAGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.53, C:0.05, G:0.21, T:0.21
Consensus pattern (19 bp):
AATGATTGAAAAGAATCAG
Found at i:4136780 original size:16 final size:16
Alignment explanation
Indices: 4136761--4136794 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4136751 ATATAATAAT
4136761 TTATATTAATAAATTA
1 TTATATTAATAAATTA
*
4136777 TTATTTTAATAAATTA
1 TTATATTAATAAATTA
4136793 TT
1 TT
4136795 TAGTATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATATTAATAAATTA
Found at i:4136823 original size:17 final size:16
Alignment explanation
Indices: 4136767--4136825 Score: 52
Period size: 17 Copynumber: 3.7 Consensus size: 16
4136757 TAATTTATAT
4136767 TAATAAATTATTATTT-
1 TAATAAATT-TTATTTA
4136783 TAATAAA--TTATTTA
1 TAATAAATTTTATTTA
* *
4136797 GTATTCAATTTTATTTAA
1 -TAATAAATTTTATTT-A
4136815 TAATAAATTTT
1 TAATAAATTTT
4136826 TAAAATAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
13 6 0.18
15 5 0.15
16 7 0.21
17 15 0.44
18 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (16 bp):
TAATAAATTTTATTTA
Found at i:4136834 original size:16 final size:16
Alignment explanation
Indices: 4136813--4136864 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
4136803 AATTTTATTT
4136813 AATAATAAATTTTTAA
1 AATAATAAATTTTTAA
*
4136829 AATAAT-AATTTTAAA
1 AATAATAAATTTTTAA
* * *
4136844 TAATATTATATTATTAA
1 -AATAATAAATTTTTAA
4136861 AATA
1 AATA
4136865 TCCAATATTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 8 0.28
16 15 0.52
17 6 0.21
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATAAATTTTTAA
Found at i:4136839 original size:32 final size:32
Alignment explanation
Indices: 4136803--4136864 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
4136793 TTTAGTATTC
** *
4136803 AATTTTATTTAATAATAAATTTTTAAAATAAT
1 AATTTTAAATAATAATAAATTATTAAAATAAT
* *
4136835 AATTTTAAATAATATTATATTATTAAAATA
1 AATTTTAAATAATAATAAATTATTAAAATA
4136865 TCCAATATTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (32 bp):
AATTTTAAATAATAATAAATTATTAAAATAAT
Found at i:4140280 original size:19 final size:20
Alignment explanation
Indices: 4140244--4140281 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4140234 TACTATAGTA
*
4140244 TTTTTTTTTACATGATAATC
1 TTTTTTTTTACATAATAATC
*
4140264 TTTTTTTTTTCA-AATAAT
1 TTTTTTTTTACATAATAAT
4140282 TTTGAGAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (20 bp):
TTTTTTTTTACATAATAATC
Found at i:4141763 original size:30 final size:31
Alignment explanation
Indices: 4141704--4141771 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
4141694 TTGGAAAAAA
* *
4141704 AGTTCAAGCCCCAATGGAGGAATAATTGTCT
1 AGTTCAAGCCCCAATGGAGGAACAATTGTCG
* *
4141735 AGTTCAAGCCCTAAT-GTGGAACAATTGTCG
1 AGTTCAAGCCCCAATGGAGGAACAATTGTCG
4141765 AGTTCAA
1 AGTTCAA
4141772 AGACTAACTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 19 0.58
31 14 0.42
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.26
Consensus pattern (31 bp):
AGTTCAAGCCCCAATGGAGGAACAATTGTCG
Found at i:4141823 original size:89 final size:86
Alignment explanation
Indices: 4141637--4141851 Score: 252
Period size: 89 Copynumber: 2.4 Consensus size: 86
4141627 CTTGTATGAA
* * * * *
4141637 AACAATTGTCAAGTTTAAACCCTAATACGAGAACAAATGGCAAGTTCAAGGACTAACTTGGAAAA
1 AACAATTGTCTAGTTTAAGCCCTAATATG-GAACAATTGGCAAGTTCAAAGACTAACTTGGAAAA
4141702 AAAGTTCAAGCCCCAATGGAGG
65 AAAGTTCAAGCCCCAATGGAGG
* * * * *
4141724 AATAATTGTCTAGTTCAAGCCCTAATGTGGAACAATTGTCGAGTTCAAAGACTAACTTGGACAAA
1 AACAATTGTCTAGTTTAAGCCCTAATATGGAACAATTGGCAAGTTCAAAGACTAACTTGG---AA
4141789 AAAAAGTTCAAGCCCCAATGTGA-G
63 AAAAAGTTCAAGCCCCAATG-GAGG
* **
4141813 AACAATTGTCTAATTTGGGCCCTAATATGGGAACAATTG
1 AACAATTGTCTAGTTTAAGCCCTAATAT-GGAACAATTG
4141852 CCTAATTCAG
Statistics
Matches: 107, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
86 27 0.25
87 23 0.21
89 45 0.42
90 12 0.11
ACGTcount: A:0.39, C:0.18, G:0.20, T:0.24
Consensus pattern (86 bp):
AACAATTGTCTAGTTTAAGCCCTAATATGGAACAATTGGCAAGTTCAAAGACTAACTTGGAAAAA
AAGTTCAAGCCCCAATGGAGG
Found at i:4143232 original size:15 final size:15
Alignment explanation
Indices: 4143214--4143248 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4143204 ATAAATTTCG
*
4143214 TTTTTATTTTATTTAT
1 TTTTTA-TTTAATTAT
4143230 TTTTTATTTAATTAT
1 TTTTTATTTAATTAT
4143245 TTTT
1 TTTT
4143249 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTATTTAATTAT
Found at i:4143248 original size:16 final size:16
Alignment explanation
Indices: 4143214--4143248 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4143204 ATAAATTTCG
*
4143214 TTTTTATTTTATTTAT
1 TTTTTATTTAATTTAT
4143230 TTTTTATTTAA-TTAT
1 TTTTTATTTAATTTAT
4143245 TTTT
1 TTTT
4143249 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTTTATTTAATTTAT
Found at i:4149653 original size:41 final size:37
Alignment explanation
Indices: 4149558--4149671 Score: 93
Period size: 41 Copynumber: 2.9 Consensus size: 37
4149548 AGCAATAAAG
*
4149558 TGACACCCAGTGTCTCATCGGTCAAGCCGAAGTAAGT
1 TGACACCCAGTGTCTCATCGATCAAGCCGAAGTAAGT
** ** * * *
4149595 TGGTACCCAGTACCTCATTGAATCTATCCGAAGTAACAGT
1 TGACACCCAGTGTCTCATCG-ATCAAGCCGAAGT-A-AGT
*
4149635 ATGACACCCAGTGTCTCATCGACTCAAGGTCGAAGTA
1 -TGACACCCAGTGTCTCATCGA-TCAA-GCCGAAGTA
4149672 TCCCTAAACA
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
37 15 0.27
38 10 0.18
39 1 0.02
40 4 0.07
41 19 0.35
42 6 0.11
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (37 bp):
TGACACCCAGTGTCTCATCGATCAAGCCGAAGTAAGT
Found at i:4149973 original size:19 final size:19
Alignment explanation
Indices: 4149905--4149979 Score: 68
Period size: 19 Copynumber: 4.0 Consensus size: 19
4149895 AATCAATACA
4149905 CAATTCACATATTCACATAT
1 CAATTCACA-ATTCACATAT
* *
4149925 --ATTCA-AATCTCATATCT
1 CAATTCACAAT-TCACATAT
*
4149942 CGATTTC-CAATTCACATAT
1 C-AATTCACAATTCACATAT
4149961 CAATTCACAATTCACATAT
1 CAATTCACAATTCACATAT
4149980 TCACACATAA
Statistics
Matches: 43, Mismatches: 6, Indels: 13
0.69 0.10 0.21
Matches are distributed among these distances:
16 2 0.05
17 7 0.16
18 9 0.21
19 19 0.44
20 6 0.14
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.36
Consensus pattern (19 bp):
CAATTCACAATTCACATAT
Found at i:4150990 original size:2 final size:2
Alignment explanation
Indices: 4150983--4151046 Score: 63
Period size: 2 Copynumber: 36.0 Consensus size: 2
4150973 TCTTTTGTCT
4150983 TA TA TA TA TA TA TA TA TA TA -A TA TA -A TA TA -A TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
4151021 TA -A TA TA TT TA TA -A TA -A TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4151047 AAAACATACT
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
1 8 0.15
2 44 0.85
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
TA
Found at i:4151008 original size:5 final size:5
Alignment explanation
Indices: 4150986--4151047 Score: 74
Period size: 5 Copynumber: 12.2 Consensus size: 5
4150976 TTTGTCTTAT
*
4150986 ATATA TATATA TATATA ATATA ATATA ATATA ATATA ATAT- AT-TT ATAATA
1 ATATA -ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT-ATA
4151037 ATATA ATATA A
1 ATATA ATATA A
4151048 AAACATACTT
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
3 1 0.02
4 4 0.08
5 33 0.63
6 14 0.27
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATA
Found at i:4151467 original size:23 final size:25
Alignment explanation
Indices: 4151436--4151493 Score: 75
Period size: 23 Copynumber: 2.4 Consensus size: 25
4151426 CTACCCTATC
*
4151436 AATTTGGACAACATTTATATACC-A
1 AATTTGGACAACATTTATACACCAA
* *
4151460 AA-TTGGACAGCATTTTTACACCAA
1 AATTTGGACAACATTTATACACCAA
4151484 AATTTGGACA
1 AATTTGGACA
4151494 GCATAAATAC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.59
24 5 0.17
25 7 0.24
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (25 bp):
AATTTGGACAACATTTATACACCAA
Found at i:4151518 original size:23 final size:23
Alignment explanation
Indices: 4151484--4151590 Score: 115
Period size: 23 Copynumber: 4.6 Consensus size: 23
4151474 TTTACACCAA
* *
4151484 AATTTGGACAGCATAAATACAAC
1 AATTTGGGCAGCATATATACAAC
4151507 AATTTGGGCAGCATATATACAAC
1 AATTTGGGCAGCATATATACAAC
* * * *
4151530 AATTTGAGCAGCATTTTTACACC
1 AATTTGGGCAGCATATATACAAC
* * *
4151553 AAAATTGGACAGCGTATATACAAC
1 -AATTTGGGCAGCATATATACAAC
*
4151577 AAATTGGGCAGCAT
1 AATTTGGGCAGCAT
4151591 TTAAACATCA
Statistics
Matches: 68, Mismatches: 15, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
23 52 0.76
24 16 0.24
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (23 bp):
AATTTGGGCAGCATATATACAAC
Found at i:4151584 original size:70 final size:69
Alignment explanation
Indices: 4151451--4151590 Score: 210
Period size: 70 Copynumber: 2.0 Consensus size: 69
4151441 GGACAACATT
* *
4151451 TATATACCAAATTGGACAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAATTTGGGC
1 TATATACAAAATTGGACAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAAATTGGGC
4151516 AGCA
66 AGCA
* * *
4151520 TATATACAACAATTTGAGCAGCATTTTTACACCAAAA-TTGGACAGCGTATATACAACAAATTGG
1 TATATACAA-AATTGGA-CAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAAATTGG
4151584 GCAGCA
64 GCAGCA
4151590 T
1 T
4151591 TTAAACATCA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
69 8 0.12
70 37 0.58
71 19 0.30
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (69 bp):
TATATACAAAATTGGACAGCATTTTTACACCAAAATTTGGACAGCATAAATACAACAAATTGGGC
AGCA
Found at i:4151602 original size:23 final size:23
Alignment explanation
Indices: 4151451--4151590 Score: 113
Period size: 23 Copynumber: 6.0 Consensus size: 23
4151441 GGACAACATT
*
4151451 TATATAC--CAAATTGGACAGCA
1 TATATACAACAAATTGGGCAGCA
* * * *
4151472 TTTTTACACCAAAATTTGGACAGCA
1 TATATACAAC-AAA-TTGGGCAGCA
* *
4151497 TAAATACAACAATTTGGGCAGCA
1 TATATACAACAAATTGGGCAGCA
* *
4151520 TATATACAACAATTTGAGCAGCA
1 TATATACAACAAATTGGGCAGCA
* * * * *
4151543 TTTTTACACCAAAATTGGACAGCG
1 TATATACAAC-AAATTGGGCAGCA
4151567 TATATACAACAAATTGGGCAGCA
1 TATATACAACAAATTGGGCAGCA
4151590 T
1 T
4151591 TTAAACATCA
Statistics
Matches: 92, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
21 5 0.05
23 50 0.54
24 21 0.23
25 16 0.17
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (23 bp):
TATATACAACAAATTGGGCAGCA
Found at i:4151603 original size:47 final size:47
Alignment explanation
Indices: 4151510--4151604 Score: 127
Period size: 47 Copynumber: 2.0 Consensus size: 47
4151500 ATACAACAAT
* * **
4151510 TTGGGCAGCATATATACAACAATTTGAGCAGCATTTTTACACCAAAA
1 TTGGACAGCATATATACAACAAATTGAGCAGCATTTAAACACCAAAA
* * *
4151557 TTGGACAGCGTATATACAACAAATTGGGCAGCATTTAAACATCAAAA
1 TTGGACAGCATATATACAACAAATTGAGCAGCATTTAAACACCAAAA
4151604 T
1 T
4151605 ATGTATATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (47 bp):
TTGGACAGCATATATACAACAAATTGAGCAGCATTTAAACACCAAAA
Found at i:4152602 original size:43 final size:43
Alignment explanation
Indices: 4152523--4152643 Score: 142
Period size: 43 Copynumber: 2.8 Consensus size: 43
4152513 CAATGCCAAC
* * *
4152523 GTCCCAGACGTGGTCTTACATGTAATCACATATCGATG-CGACT
1 GTCCCAGACGTGGTCTTACACGTAAACACATATCGATGTC-AAT
*
4152566 GTCCTAGACAG-GGTCTTACACGTAAACACA-AGTCGATGTCAAT
1 GTCCCAGAC-GTGGTCTTACACGTAAACACATA-TCGATGTCAAT
4152609 GTCCCAGACGTGGTCTTACACG-ATAACACATATCG
1 GTCCCAGACGTGGTCTTACACGTA-AACACATATCG
4152644 TAAATCCTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.04
43 61 0.91
44 3 0.04
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.25
Consensus pattern (43 bp):
GTCCCAGACGTGGTCTTACACGTAAACACATATCGATGTCAAT
Found at i:4154485 original size:3 final size:3
Alignment explanation
Indices: 4154477--4154501 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
4154467 TGGTGCGATT
4154477 TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA T
4154502 TATTATTATT
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:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Done.