Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008025.1 Hibiscus syriacus cultivar Beakdansim tig00110500_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2744542
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 12
Found at i:2317875 original size:26 final size:26
Alignment explanation
Indices: 2317817--2317878 Score: 106
Period size: 26 Copynumber: 2.4 Consensus size: 26
2317807 TATGATACCC
* *
2317817 GAACCCAAACTGCATCCGACTGATAT
1 GAACCCGAACTACATCCGACTGATAT
2317843 GAACCCGAACTACATCCGACTGATAT
1 GAACCCGAACTACATCCGACTGATAT
2317869 GAACCCGAAC
1 GAACCCGAAC
2317879 CCGAAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (26 bp):
GAACCCGAACTACATCCGACTGATAT
Found at i:2318089 original size:17 final size:17
Alignment explanation
Indices: 2318067--2318105 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
2318057 TAATAAACTA
*
2318067 ATGATAATTAAATTATT
1 ATGATAATTAAATTAAT
2318084 ATGATAATTAAATTAAT
1 ATGATAATTAAATTAAT
2318101 ATGAT
1 ATGAT
2318106 TACTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.44
Consensus pattern (17 bp):
ATGATAATTAAATTAAT
Found at i:2318133 original size:51 final size:51
Alignment explanation
Indices: 2318075--2318171 Score: 167
Period size: 51 Copynumber: 1.9 Consensus size: 51
2318065 TAATGATAAT
* * *
2318075 TAAATTATTATGATAATTAAATTAATATGATTACTTTTTGAAATTTTATCA
1 TAAATTATTACGATAATTAAATTAATATAATTACTTTTTAAAATTTTATCA
2318126 TAAATTATTACGATAATTAAATTAATATAATTACTTTTTAAAATTT
1 TAAATTATTACGATAATTAAATTAATATAATTACTTTTTAAAATTT
2318172 AGTTTTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 43 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.48
Consensus pattern (51 bp):
TAAATTATTACGATAATTAAATTAATATAATTACTTTTTAAAATTTTATCA
Found at i:2319045 original size:18 final size:18
Alignment explanation
Indices: 2319022--2319057 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
2319012 AAATTATACA
*
2319022 TAATTAAAATGAATGCAT
1 TAATTAAAATAAATGCAT
2319040 TAATTAAAATAAATGCAT
1 TAATTAAAATAAATGCAT
2319058 AGACCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (18 bp):
TAATTAAAATAAATGCAT
Found at i:2320670 original size:191 final size:197
Alignment explanation
Indices: 2320241--2321085 Score: 1076
Period size: 205 Copynumber: 4.2 Consensus size: 197
2320231 CATTGTTCCA
* * **
2320241 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGAAA-TTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGAAAGTTG-TTGTTGACAA
* * * ** * *
2320304 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
64 GCAGCGGTCCCTTC----T-CAGTT--AC-TGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAA
**
2320369 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
121 GTTGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
2320434 TGCGTTGTCTGG
186 TGCGTTGTCTGG
* * * * *
2320446 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGAAAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
* *
2320511 AGTGGTCCC-T-TC-G-T-C-GCATTGTCTGTAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
66 AGCGGTCCCTTCTCAGTTACTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
2320570 GCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
131 GCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
2320635 GG
196 GG
2320637 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
2320702 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTC-TC----AGTT--AC-TGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
2320767 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
123 TGAAATTGGCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
2320832 CGTTGTCTGG
188 CGTTGTCTGG
2320842 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
**
2320907 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCATTGTGAAGT
66 AGCGGTCCCTTC-TC----AGTT--AC-TGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
* *
2320972 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
123 TGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
*
2321037 ACTTGCGTTGTCTCG
183 ACTTGCGTTGTCTGG
* * *
2321052 AGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 AGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
2321086 CGCGGATGGC
Statistics
Matches: 583, Mismatches: 33, Indels: 40
0.89 0.05 0.06
Matches are distributed among these distances:
191 172 0.30
192 1 0.00
193 1 0.00
194 2 0.00
196 1 0.00
197 1 0.00
199 2 0.00
200 1 0.00
203 1 0.00
204 1 0.00
205 311 0.53
206 5 0.01
207 1 0.00
209 5 0.01
210 53 0.09
211 3 0.01
213 22 0.04
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (197 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCTCAGTTACTGCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTG
GCTCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT
GG
Found at i:2320738 original size:105 final size:105
Alignment explanation
Indices: 2320526--2321085 Score: 906
Period size: 105 Copynumber: 5.4 Consensus size: 105
2320516 TCCCTTCGTC
* *
2320526 GCATTGTCTGTAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-T
1 GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
2320586 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
66 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
2320626 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
1 GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
2320691 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
66 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
2320731 GCATTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T-GAAA-TT-T
1 GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
2320791 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
66 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
*
2320831 GCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
1 GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
2320896 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
66 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
* *
2320936 GCATTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGT
1 GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
*
2321001 TGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
66 TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
* * * * *
2321041 GCGTTGTCTCGAGTGCCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GCATTGTCTGGAGT-CCA--ATATCCTTCGTTGTGAAGTTGAAAT
2321086 CGCGGATGGC
Statistics
Matches: 430, Mismatches: 17, Indels: 18
0.92 0.04 0.04
Matches are distributed among these distances:
100 138 0.32
101 4 0.01
102 6 0.01
103 9 0.02
104 5 0.01
105 244 0.57
106 3 0.01
108 21 0.05
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.33
Consensus pattern (105 bp):
GCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGT
TGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
Found at i:2321536 original size:29 final size:28
Alignment explanation
Indices: 2321472--2321538 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
2321462 GCCTGTCTGG
* *
2321472 AATCTTGATTCTTGAATCTTCAAATTTTGA
1 AATC-TGA-TCTTGAATCTTCAAATGTTCA
**
2321502 TCTCTGATCTTGAATTCTTCAAATGTTCA
1 AATCTGATCTTGAA-TCTTCAAATGTTCA
2321531 AATCTGAT
1 AATCTGAT
2321539 GTGCACATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 7 0.23
29 21 0.70
30 2 0.07
ACGTcount: A:0.28, C:0.16, G:0.10, T:0.45
Consensus pattern (28 bp):
AATCTGATCTTGAATCTTCAAATGTTCA
Found at i:2321822 original size:67 final size:65
Alignment explanation
Indices: 2321689--2322010 Score: 263
Period size: 65 Copynumber: 4.8 Consensus size: 65
2321679 AAGATATCTG
* * * **
2321689 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
2321754 TT
64 TT
* * *
2321756 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
2321821 T
65 T
* ** * *
2321822 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGAC-AAAATTTGTTTTAAGGGAAA-----T--A-A-A
** *
2321886 GACAAA-ACT
56 TTCAAAGATT
* * * * * *** *
2321895 TTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATG-TT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
*
2321959 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAA
2322011 CTGTCTCAAG
Statistics
Matches: 205, Mismatches: 36, Indels: 30
0.76 0.13 0.11
Matches are distributed among these distances:
64 5 0.02
65 83 0.40
66 7 0.03
67 24 0.12
68 32 0.16
70 1 0.00
72 4 0.02
73 44 0.21
74 5 0.02
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:2321873 original size:36 final size:35
Alignment explanation
Indices: 2321822--2322030 Score: 198
Period size: 36 Copynumber: 6.0 Consensus size: 35
2321812 TTCAAAGATT
* *
2321822 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
2321858 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* *
2321893 CTTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAAT
1 --TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * * * ***
2321931 TTATTTCAAGGGAAA-TGTTTTC-A-A-TG--TTTA
1 TTGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAA
*
2321961 -TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
2321995 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
2322031 CTCTTCTAGT
Statistics
Matches: 138, Mismatches: 23, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
29 15 0.11
30 3 0.02
32 1 0.01
33 1 0.01
34 2 0.01
35 6 0.04
36 77 0.56
37 30 0.22
38 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:2321925 original size:138 final size:138
Alignment explanation
Indices: 2321758--2322032 Score: 374
Period size: 138 Copynumber: 2.0 Consensus size: 138
2321748 GAAGATTTTG
* * * * * * *
2321758 TGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATAAATTCAAAG-TTT
* *
2321823 -TGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGA
65 ATGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAATTTGTTTCAAGAGAAACTGTCTCAAGAGA
2321886 GACAAAACTT
129 GACAAAACTT
* *** *
2321896 TGTTTCAAGAGAAACTATCTCAAGAGAGACGAAATTTATTTCAAGGGAAATGTTTTCAATGTTTA
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATAAATTCAAAGTTTA
* *
2321961 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGA
66 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
2322026 CAAAACT
131 CAAAACT
2322033 CTTCTAGTGA
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
137 7 0.06
138 112 0.94
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (138 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTTATTTCAAGGGAAATAAATTCAAAGTTTA
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGAGAAACTGTCTCAAGAGAGA
CAAAACTT
Found at i:2322080 original size:35 final size:35
Alignment explanation
Indices: 2321822--2322080 Score: 132
Period size: 36 Copynumber: 7.4 Consensus size: 35
2321812 TTCAAAGATT
* * *
2321822 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA-A
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGAC-AAATC
*
2321858 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAAGA-AAACTGTCTCAAGAGAGACAAATC
*
2321894 TTTGTTTCAAGAGAAACTATCTCAAGAGAGACGAAAT-
1 -TTGTTTCAAGA-AAACTGTCTCAAGAGAGAC-AAATC
* * * * *
2321931 TTATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TT
1 TTGTTTCAA-GAAAACTG-TCTCAAGAGAGACAAATC
*
2321959 TATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT-
1 T-TGTTTCAAGA-AAACTGTCTCAAGAGAGAC-AAATC
* *
2321996 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAC
1 TTGTTTCAA-GAAAACTGTCTCAAGAGAGACAAATC
* * * *
2322032 -T-CTTCTAGTGAAAACGGTCTCAAGCGAGACAAATC
1 TTGTTTC-A-AGAAAACTGTCTCAAGAGAGACAAATC
*
2322067 TTGTTTTAAGAAAA
1 TTGTTTCAAGAAAA
2322081 ACAATCATGA
Statistics
Matches: 171, Mismatches: 27, Indels: 51
0.69 0.11 0.20
Matches are distributed among these distances:
27 1 0.01
28 2 0.01
29 13 0.08
30 3 0.02
32 1 0.01
33 1 0.01
34 4 0.02
35 38 0.22
36 69 0.40
37 35 0.20
38 4 0.02
ACGTcount: A:0.38, C:0.14, G:0.20, T:0.27
Consensus pattern (35 bp):
TTGTTTCAAGAAAACTGTCTCAAGAGAGACAAATC
Found at i:2322964 original size:22 final size:22
Alignment explanation
Indices: 2322939--2322981 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2322929 CATTTTTGTT
*
2322939 CATTTGATGCTCAAAGGTTTGG
1 CATTGGATGCTCAAAGGTTTGG
2322961 CATTGGATGCTCAAAGGTTTG
1 CATTGGATGCTCAAAGGTTTG
2322982 CCGGGTAGCT
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:0.23, C:0.14, G:0.28, T:0.35
Consensus pattern (22 bp):
CATTGGATGCTCAAAGGTTTGG
Found at i:2323590 original size:16 final size:17
Alignment explanation
Indices: 2323567--2323606 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
2323557 TCTTTGCATG
2323567 TGCTTTTTGTCCCTTTT
1 TGCTTTTTGTCCCTTTT
* *
2323584 T-CTTTTTGTTCTTTTT
1 TGCTTTTTGTCCCTTTT
2323600 TGCTTTT
1 TGCTTTT
2323607 GTTTTTTTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.00, C:0.17, G:0.10, T:0.72
Consensus pattern (17 bp):
TGCTTTTTGTCCCTTTT
Found at i:2323612 original size:14 final size:15
Alignment explanation
Indices: 2323595--2323629 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
2323585 CTTTTTGTTC
*
2323595 TTTTTTGCTT-TTGT
1 TTTTTTGCTTCTTCT
2323609 TTTTTTGCTTCTTCT
1 TTTTTTGCTTCTTCT
2323624 TTTTTT
1 TTTTTT
2323630 TTTGCCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (15 bp):
TTTTTTGCTTCTTCT
Found at i:2326691 original size:17 final size:16
Alignment explanation
Indices: 2326649--2326714 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 16
2326639 TAAGATTTTT
*
2326649 ATATATTTCATAT-GTA
1 ATATATTT-ATATAATA
2326665 AT-TATATTATATAATA
1 ATATAT-TTATATAATA
2326681 GATATATTTATAT-ATA
1 -ATATATTTATATAATA
2326697 ATATATTAGTATATAATA
1 ATATATT--TATATAATA
2326715 TACTATAGTA
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
15 14 0.33
16 9 0.21
17 13 0.31
18 6 0.14
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (16 bp):
ATATATTTATATAATA
Found at i:2326709 original size:15 final size:15
Alignment explanation
Indices: 2326667--2326740 Score: 73
Period size: 15 Copynumber: 4.9 Consensus size: 15
2326657 CATATGTAAT
2326667 TATATTATATAATAGA
1 TATATTATAT-ATAGA
2326683 TATATTTATATATA-A
1 TATA-TTATATATAGA
2326698 TATATTAGTATATA-A
1 TATATTA-TATATAGA
* *
2326713 TATACTATAGTATATA
1 TATATTATA-TATAGA
2326729 TATA-TATATATA
1 TATATTATATATA
2326741 TGTCATATGT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
14 9 0.17
15 26 0.49
16 12 0.23
17 6 0.11
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (15 bp):
TATATTATATATAGA
Found at i:2326760 original size:2 final size:2
Alignment explanation
Indices: 2326667--2326741 Score: 70
Period size: 2 Copynumber: 38.5 Consensus size: 2
2326657 CATATGTAAT
* *
2326667 TA TA T- TA TA TA -A TA GA TA TA TT TA TA TA TA -A TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2326705 GTA TA TA -A TA TA CTA TA GTA 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
2326742 GTCATATGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
1 5 0.08
2 50 0.82
3 6 0.10
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2326766 original size:18 final size:18
Alignment explanation
Indices: 2326735--2326925 Score: 66
Period size: 20 Copynumber: 10.3 Consensus size: 18
2326725 TATATATATA
2326735 TATATATGTCATATGTAAAC
1 TATATA-GT-ATATGTAAAC
2326755 TATATAGTATA--TAAA-
1 TATATAGTATATGTAAAC
* *
2326770 TATCA-ACTATAGTGTATA-
1 TAT-ATAGTATA-TGTAAAC
2326788 TATATAGGTCATATGTAAAC
1 TATATA-GT-ATATGTAAAC
*
2326808 TATATAG--T-T-TATA-
1 TATATAGTATATGTAAAC
*
2326821 GATATAGTTCATATGTAAAC
1 TATATAG-T-ATATGTAAAC
* *
2326841 TATAGT-TTATATGTAAATAT
1 TATA-TAGTATATGT-AA-AC
2326861 TAACTATAGTTTATATGTAAAC
1 T-A-TATAG--TATATGTAAAC
2326883 TATAGTTAGTATA--TAAAC
1 TATA--TAGTATATGTAAAC
2326901 TATATAGTTTATATGTAAAC
1 TATATAG--TATATGTAAAC
2326921 TATAT
1 TATAT
2326926 TCCATAAATA
Statistics
Matches: 130, Mismatches: 12, Indels: 58
0.65 0.06 0.29
Matches are distributed among these distances:
13 6 0.05
14 3 0.02
15 9 0.07
16 9 0.07
17 2 0.02
18 30 0.23
19 15 0.12
20 36 0.28
21 4 0.03
22 7 0.05
23 2 0.02
24 7 0.05
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.42
Consensus pattern (18 bp):
TATATAGTATATGTAAAC
Found at i:2326790 original size:31 final size:30
Alignment explanation
Indices: 2326697--2326791 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 30
2326687 TTTATATATA
2326697 ATATAT-TAGTATAT-AATAT-ACTATAGT
1 ATATATATAGTATATAAATATCACTATAGT
* *
2326724 ATATATATA-TATATATATGTCA-TAT-GT
1 ATATATATAGTATATAAATATCACTATAGT
*
2326751 AAACTATATAGTATATAAATATCAACTATAGT
1 ATA-TATATAGTATATAAATATC-ACTATAGT
*
2326783 GTATATATA
1 ATATATATA
2326792 TAGGTCATAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
27 15 0.28
28 14 0.26
29 11 0.21
30 1 0.02
31 9 0.17
32 3 0.06
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (30 bp):
ATATATATAGTATATAAATATCACTATAGT
Found at i:2326809 original size:31 final size:31
Alignment explanation
Indices: 2326774--2326852 Score: 113
Period size: 33 Copynumber: 2.5 Consensus size: 31
2326764 TATAAATATC
*
2326774 AACTATAGTGTATATATATAGGTCATATGTA
1 AACTATAGTTTATATATATAGGTCATATGTA
* *
2326805 AACTATATAGTTTATAGATATAGTTCATATGTA
1 AAC--TATAGTTTATATATATAGGTCATATGTA
2326838 AACTATAGTTTATAT
1 AACTATAGTTTATAT
2326853 GTAAATATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 14 0.33
33 28 0.67
ACGTcount: A:0.39, C:0.06, G:0.13, T:0.42
Consensus pattern (31 bp):
AACTATAGTTTATATATATAGGTCATATGTA
Found at i:2326844 original size:24 final size:23
Alignment explanation
Indices: 2326817--2326924 Score: 59
Period size: 18 Copynumber: 5.2 Consensus size: 23
2326807 CTATATAGTT
2326817 TATAGATATAGTTCATATGTAAAC
1 TATAGATATAGTT-ATATGTAAAC
2326841 TATAG---T--TTATATGTAAA-
1 TATAGATATAGTTATATGTAAAC
2326858 TATTA-ACTATAGTTTATATGTAAAC
1 TA-TAGA-TATAG-TTATATGTAAAC
2326883 TATAG-T-TAG-TATA--TAAAC
1 TATAGATATAGTTATATGTAAAC
2326901 TAT----ATAGTTTATATGTAAAC
1 TATAGATATAG-TTATATGTAAAC
2326921 TATA
1 TATA
2326925 TTCCATAAAT
Statistics
Matches: 68, Mismatches: 0, Indels: 35
0.66 0.00 0.34
Matches are distributed among these distances:
16 3 0.04
17 2 0.03
18 23 0.34
19 2 0.03
20 12 0.18
21 2 0.03
22 3 0.04
23 1 0.01
24 18 0.26
25 2 0.03
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (23 bp):
TATAGATATAGTTATATGTAAAC
Found at i:2326906 original size:20 final size:20
Alignment explanation
Indices: 2326865--2326925 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
2326855 AAATATTAAC
*
2326865 TATAGTTTATATGTAAAC--
1 TATAGTTTATATATAAACTA
2326883 TATAG-TTAGTATATAAACTA
1 TATAGTTTA-TATATAAACTA
*
2326903 TATAGTTTATATGTAAACTA
1 TATAGTTTATATATAAACTA
2326923 TAT
1 TAT
2326926 TCCATAAATA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
17 3 0.08
18 13 0.35
20 18 0.49
21 3 0.08
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TATAGTTTATATATAAACTA
Found at i:2326916 original size:38 final size:41
Alignment explanation
Indices: 2326822--2326924 Score: 133
Period size: 42 Copynumber: 2.6 Consensus size: 41
2326812 TAGTTTATAG
* * *
2326822 ATATAGTTCATATGTAAACTATAGTTTATATGTAAATATTA
1 ATATAGTTTATATGTAAACTATAGTTTATATATAAATACTA
2326863 ACTATAGTTTATATGTAAACTATAG-TTAGTATAT-AA-ACT-
1 A-TATAGTTTATATGTAAACTATAGTTTA-TATATAAATACTA
2326902 ATATAGTTTATATGTAAACTATA
1 ATATAGTTTATATGTAAACTATA
2326925 TTCCATAAAT
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
38 22 0.39
39 1 0.02
40 2 0.04
41 6 0.11
42 26 0.46
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (41 bp):
ATATAGTTTATATGTAAACTATAGTTTATATATAAATACTA
Found at i:2326937 original size:38 final size:38
Alignment explanation
Indices: 2326822--2326924 Score: 120
Period size: 38 Copynumber: 2.6 Consensus size: 38
2326812 TAGTTTATAG
*
2326822 ATATAGTTCATATGTAAACTATAGTTTATATGTAAATATTAAC-
1 ATATAGTTTATATGTAAACTATAG--T-TA-GTAAATA--AACT
*
2326865 -TATAGTTTATATGTAAACTATAGTTAGTATATAAACT
1 ATATAGTTTATATGTAAACTATAGTTAGTAAATAAACT
2326902 ATATAGTTTATATGTAAACTATA
1 ATATAGTTTATATGTAAACTATA
2326925 TTCCATAAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
36 3 0.05
38 28 0.50
39 2 0.04
40 1 0.02
42 22 0.39
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.43
Consensus pattern (38 bp):
ATATAGTTTATATGTAAACTATAGTTAGTAAATAAACT
Found at i:2327015 original size:30 final size:30
Alignment explanation
Indices: 2326981--2327041 Score: 88
Period size: 30 Copynumber: 2.0 Consensus size: 30
2326971 AGTTCATAGT
2326981 ACTATAGTTCATAT-ATAGTATATAAATATA
1 ACTATAGTTCATATAATAGTATA-AAATATA
*
2327011 ACTATAGTTTATATAAATAGTATAAAATATA
1 ACTATAGTTCATAT-AATAGTATAAAATATA
2327042 GTATATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
30 13 0.46
31 7 0.25
32 8 0.29
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (30 bp):
ACTATAGTTCATATAATAGTATAAAATATA
Found at i:2327083 original size:6 final size:6
Alignment explanation
Indices: 2327072--2329177 Score: 2881
Period size: 6 Copynumber: 369.5 Consensus size: 6
2327062 GTAGGGTTTT
* *
2327072 ATATAA ATATAA ATATAA ATATAA ATATAA ATCTAA TATAAATA ATATCAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA -ATATA-A ATAT-AA
2327123 ATATAA ATATAA ATAT-A ATATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327169 ATATAA ATA-AA ATATAA ATAATATA ATATAA ATATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA AT-ATA-A ATATAA ATATAA ATATAA ATATAA
2327217 ATATAA AT-T-A A-ATAA ATATAA ATAT-A ATAT-A ATATAA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327259 ATATAA ATATAA ATA-AA ATATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
* * *
2327305 ATAT-A ATATAA AT-CAA ATATAA ATAGAA TATAAAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA -ATATAA ATATAA ATATAA
2327352 ATAT-A ATATAA ATAT-A ATAT-A ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327397 ATATAA ATAT-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
2327444 ATATAA ATATAA A-CT-A ATATAA ATATAA ATAT-- A-ATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327487 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327534 ATATAA ATATAA ATATAA ATATAA ATAT-A ATATAA ATATAA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327580 ATATAA ATATAA ATAT-- ATAT-A ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327625 ATATAA ATAT-A A-ATAA ATATAA ATAT-A ATATAA ATAT-A ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327668 ATAT-A ATATAA ATATAA ATAT-A ATAT-A A-ATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327711 ATATAA ATAT-A ATATAA ATAT-A ATAT-A A-ATAA A-ATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327754 ATATAA ATATAA ATATAA ATATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327801 ATATAA A-ATATA ATATAA ATATAA ATAT-- A-ATAA ATATAA ATATAA
1 ATATAA ATATA-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327846 ATATAA ATAT-A ATAT-A ATATAA ATA-AA ATATAA ATAT-A A-ATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327889 ATATAA AT-TAA ATAT-- A-ATAA ATATAA A-AT-A ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327931 A-ATAAA ATATAA ATAT-A A-ATAA ATATAA ATAT-A ATAT-A ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2327975 ATA-AA ATATAA ATAT-A ATATAA ATATAA AT-TATA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATA-A ATATAA ATATAA
*
2328021 ATATAA ATATAA ATAT-A AT-TAA ATAT-A ATATAA ATATAA ATAAAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328066 ATATAA ATATAA ATATAA ATAT-A ATATAA ATAT-A ATATAA A-ATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328111 ATATAA ATAT-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328158 ATATAA AT-TAA ATATAAA TATATAA ATATAA ATATAA ATATAA ATAT-A
1 ATATAA ATATAA ATAT-AA -ATATAA ATATAA ATATAA ATATAA ATATAA
2328206 ATAT-A A-ATAA ATATAA ATA-AA ATATAA AT-TAA ATATAA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328249 ATATAA TATACTATA A-ATAA ATATAA ATAT-A ATATAA ATATAA ATATAA
1 ATATAA -ATA-TA-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
2328298 ATAGAA ATA-AA TATAATAA ATATAA ATATAA ATAT-A ATATAA ATATAAA
1 ATATAA ATATAA -AT-ATAA ATATAA ATATAA ATATAA ATATAA ATAT-AA
2328347 ATATATA ATA-AA ATATAA ATATAA ATATAA ATATAA ATAT-A ATATAA
1 ATATA-A ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
2328394 ATA-GA ATATAA ATAT-A ATATAA ATAT-A A-ATAA ATA-AA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328436 ATATAAA ATATAA ATATAA ATAT-A ATATAA ATATAA ATATAA ATATAA
1 ATAT-AA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328484 ATA-AA ATATAA ATATAA ATA-AA ATATAA ATAT-A ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328528 ATATAA ATATAA ATATAA ATATAA ATAT-A ATATAA TATAATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA -AT-ATAA ATATAA
2328577 ATAT-A A-ATAA ATATAA ATATAA ATATAA ATAT-A A-ATAA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328620 A-ATAA ATAT-A ATAT-A ATATAA ATATAA ATATAA ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328664 ATATAA ATATAA ATATAA A-ATAA ATATAA ATATAA ATA-AA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328710 ATATAA ATATAA ATA-AA ATATAA ATA-AA ATATAA ATAATATA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA AT-ATA-A ATATAA
2328758 ATATAA ATATAA ATATAA ATAT-A ATATAA ATATAA ATATAA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328804 A-ATAA ATATAA ATA-AA TATAATAA ATATAA ATAT-A ATATAA ATATAA
1 ATATAA ATATAA ATATAA -AT-ATAA ATATAA ATATAA ATATAA ATATAA
2328851 ATATAA ATATAA ATA-AA ATAT-- ATATAA ATA-AA ATATAA ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
*
2328895 ATAT-A A-ATAA ATATAA ATAT-A A-ATAA ATATAA ATA-GA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328937 ATATAA ATATAA ATATAA ATATAA ATATAA ATAT-A ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2328983 ATAT-A ATAT-A ATAT-A ATA-AA ATATAA ATATAA ATATAA ATAT-A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2329026 A-A-AA ATATAA ATATAA ATATAA ATATAA ATAT-A ATAT-A ATATAA
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2329070 ATATAA ATATAA ATATAA ATATATA ATATATA ATATAA ATATAA AT-TAAA
1 ATATAA ATATAA ATATAA ATATA-A ATATA-A ATATAA ATATAA ATAT-AA
2329120 TATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
1 -ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA
2329169 ATATAA ATA
1 ATATAA ATA
2329178 ACCCTAAACC
Statistics
Matches: 1932, Mismatches: 17, Indels: 302
0.86 0.01 0.13
Matches are distributed among these distances:
3 6 0.00
4 48 0.02
5 490 0.25
6 1278 0.66
7 85 0.04
8 24 0.01
9 1 0.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAA
Found at i:2327111 original size:11 final size:11
Alignment explanation
Indices: 2327072--2329177 Score: 2436
Period size: 11 Copynumber: 190.8 Consensus size: 11
2327062 GTAGGGTTTT
2327072 ATATAAATATAA
1 ATATAAATAT-A
2327084 ATATAAATATAA
1 ATATAAATAT-A
*
2327096 ATATAAATCTA
1 ATATAAATATA
2327107 ATAT-AA-ATA
1 ATATAAATATA
2327116 ATATCAAATATAA
1 ATAT-AAATAT-A
2327129 ATATAAATATA
1 ATATAAATATA
2327140 ATATAAATATA
1 ATATAAATATA
2327151 ATATAAATATAA
1 ATATAAATAT-A
2327163 ATATAAATATA
1 ATATAAATATA
2327174 A-ATAAAATATAA
1 ATAT-AAATAT-A
2327186 ATAATATAATATAA
1 AT-ATA-AATAT-A
2327200 ATATAAATATA
1 ATATAAATATA
2327211 ATATAAATATA
1 ATATAAATATA
2327222 A-ATTAAATA-A
1 ATA-TAAATATA
2327232 ATATAAATATA
1 ATATAAATATA
2327243 ATAT-AATATA
1 ATATAAATATA
2327253 A-ATATAATATAA
1 ATATA-AATAT-A
*
2327265 ATATAAATAAA
1 ATATAAATATA
2327276 ATATAAATATA
1 ATATAAATATA
2327287 ATATAAATATAA
1 ATATAAATAT-A
2327299 ATATAAATATA
1 ATATAAATATA
2327310 ATATAAATCA-A
1 ATATAAAT-ATA
*
2327321 ATATAAATAGA
1 ATATAAATATA
2327332 ATATAAAAATATAA
1 ATAT--AAATAT-A
2327346 ATATAAATATA
1 ATATAAATATA
2327357 ATATAAATATA
1 ATATAAATATA
2327368 ATAT-AATATAA
1 ATATAAATAT-A
2327379 ATATAAATATAA
1 ATATAAATAT-A
2327391 ATATAAATATA
1 ATATAAATATA
2327402 A-ATATAATATAA
1 ATATA-AATAT-A
2327414 ATATAAATATAA
1 ATATAAATAT-A
2327426 ATATAAATATAA
1 ATATAAATAT-A
2327438 ATATAAATATAA
1 ATATAAATAT-A
*
2327450 ATATAAA-CTA
1 ATATAAATATA
2327460 ATATAAATATA
1 ATATAAATATA
2327471 A-ATATAATA-A
1 ATATA-AATATA
2327481 ATATAAATATAA
1 ATATAAATAT-A
2327493 ATATAAATATAA
1 ATATAAATAT-A
2327505 ATATAAATATAA
1 ATATAAATAT-A
2327517 ATATAAATATA
1 ATATAAATATA
2327528 ATATAAATATAA
1 ATATAAATAT-A
2327540 ATATAAATATAA
1 ATATAAATAT-A
2327552 ATATAAATATA
1 ATATAAATATA
2327563 ATATAAATATA
1 ATATAAATATA
2327574 A-ATATAATATAA
1 ATATA-AATAT-A
2327586 ATATAAATAT-
1 ATATAAATATA
2327596 ATAT-AATATAA
1 ATATAAATAT-A
2327607 ATATAAATATAA
1 ATATAAATAT-A
2327619 ATATAAATATAA
1 ATATAAATAT-A
2327631 ATATAAATA-A
1 ATATAAATATA
2327641 ATATAAATATA
1 ATATAAATATA
2327652 ATATAAATATA
1 ATATAAATATA
2327663 ATAT-AATATA
1 ATATAAATATA
2327673 ATATAAATATA
1 ATATAAATATA
2327684 A-ATATAATATA
1 ATATA-AATATA
2327695 A-ATAAATATA
1 ATATAAATATA
2327705 ATATAAATATA
1 ATATAAATATA
2327716 A-ATATAATATA
1 ATATA-AATATA
2327727 A-ATATAATATA
1 ATATA-AATATA
2327738 A-ATAAA-ATAA
1 ATATAAATAT-A
2327748 ATATAAATATAA
1 ATATAAATAT-A
2327760 ATATAAATATAA
1 ATATAAATAT-A
2327772 ATATAAATATA
1 ATATAAATATA
2327783 ATATAAATATAA
1 ATATAAATAT-A
2327795 ATATAAATATA
1 ATATAAATATA
*
2327806 AAATATAATATAA
1 ATATA-AATAT-A
2327819 ATATAAATAT-
1 ATATAAATATA
2327829 A-ATAAATATAA
1 ATATAAATAT-A
2327840 ATATAAATATA
1 ATATAAATATA
2327851 A-ATATAATATA
1 ATATA-AATATA
*
2327862 ATATAAATAAA
1 ATATAAATATA
2327873 ATATAAATATA
1 ATATAAATATA
2327884 A-ATAAATATA
1 ATATAAATATA
2327894 A-ATTAAATAT-
1 ATA-TAAATATA
2327904 A-ATAAATATA
1 ATATAAATATA
*
2327914 AAAT-AATATAA
1 ATATAAATAT-A
*
2327925 ATATAAAATAAA
1 ATAT-AAATATA
2327937 ATATAAATATA
1 ATATAAATATA
2327948 A-ATAAATATA
1 ATATAAATATA
2327958 A-ATATAATATA
1 ATATA-AATATA
*
2327969 ATATAAATAAA
1 ATATAAATATA
2327980 ATATAAATATA
1 ATATAAATATA
2327991 ATATAAATATA
1 ATATAAATATA
2328002 A-ATTATAATATAA
1 ATA-TA-AATAT-A
2328015 ATATAAATATAA
1 ATATAAATAT-A
2328027 ATATAAATATA
1 ATATAAATATA
2328038 AT-TAAATATA
1 ATATAAATATA
2328048 ATATAAATATA
1 ATATAAATATA
2328059 A-AT-AA-A-A
1 ATATAAATATA
2328066 ATATAAATATAA
1 ATATAAATAT-A
2328078 ATATAAATATA
1 ATATAAATATA
2328089 ATATAAATATA
1 ATATAAATATA
2328100 ATATAAA-ATAA
1 ATATAAATAT-A
2328111 ATATAAATATA
1 ATATAAATATA
2328122 ATATAAATATAA
1 ATATAAATAT-A
2328134 ATATAAATATAA
1 ATATAAATAT-A
2328146 ATATAAATATAA
1 ATATAAATAT-A
2328158 ATATAAAT-TAA
1 ATATAAATAT-A
2328169 ATATAAATATATAA
1 ATAT-AA-ATAT-A
2328183 ATATAAATATAA
1 ATATAAATAT-A
2328195 ATATAAATATA
1 ATATAAATATA
2328206 ATATAAATA-A
1 ATATAAATATA
*
2328216 ATATAAATAAA
1 ATATAAATATA
2328227 ATATAAAT-TAA
1 ATATAAATAT-A
2328238 ATATAAATATA
1 ATATAAATATA
2328249 ATAT-AATATA
1 ATATAAATATA
*
2328259 CTATAAATA-A
1 ATATAAATATA
2328269 ATATAAATATA
1 ATATAAATATA
2328280 ATATAAATATAA
1 ATATAAATAT-A
*
2328292 ATATAAATAGA
1 ATATAAATATA
2328303 A-ATAAATAT-
1 ATATAAATATA
2328312 A-ATAAATATAA
1 ATATAAATAT-A
2328323 ATATAAATATA
1 ATATAAATATA
2328334 ATATAAATATA
1 ATATAAATATA
*
2328345 A-A-ATATATA
1 ATATAAATATA
2328354 ATA-AAATATAA
1 ATATAAATAT-A
2328365 ATATAAATATAA
1 ATATAAATAT-A
2328377 ATATAAATATA
1 ATATAAATATA
*
2328388 ATATAAATAGA
1 ATATAAATATA
2328399 ATATAAATATA
1 ATATAAATATA
2328410 ATATAAATATA
1 ATATAAATATA
*
2328421 A-ATAAATAAA
1 ATATAAATATA
2328431 ATAT-AATATA
1 ATATAAATATA
*
2328441 A-A-ATATA-A
1 ATATAAATATA
2328449 ATATAAATATA
1 ATATAAATATA
2328460 ATATAAATATAA
1 ATATAAATAT-A
2328472 ATATAAATATA
1 ATATAAATATA
2328483 A-ATAAAATATAA
1 ATAT-AAATAT-A
*
2328495 ATATAAATAAA
1 ATATAAATATA
2328506 ATATAAATATA
1 ATATAAATATA
2328517 ATAT-AATATAA
1 ATATAAATAT-A
2328528 ATATAAATATAA
1 ATATAAATAT-A
2328540 ATATAAATATA
1 ATATAAATATA
2328551 A-ATATAATATA
1 ATATA-AATATA
2328562 ATAT-AATA-A
1 ATATAAATATA
2328571 ATATAAATATA
1 ATATAAATATA
2328582 A-ATAAATATAA
1 ATATAAATAT-A
2328593 ATATAAATATAA
1 ATATAAATAT-A
2328605 ATATAAATA-A
1 ATATAAATATA
2328615 ATATAAATA-A
1 ATATAAATATA
2328625 ATAT-AATATA
1 ATATAAATATA
2328635 ATATAAATATAA
1 ATATAAATAT-A
2328647 ATATAAATATA
1 ATATAAATATA
2328658 ATATAAATATAA
1 ATATAAATAT-A
2328670 ATATAAATATA
1 ATATAAATATA
*
2328681 AAATAAATATAA
1 ATATAAATAT-A
*
2328693 ATATAAATAAA
1 ATATAAATATA
2328704 ATATAAATATAA
1 ATATAAATAT-A
*
2328716 ATATAAATAAA
1 ATATAAATATA
*
2328727 ATATAAATAAA
1 ATATAAATATA
2328738 ATAT-AA-ATA
1 ATATAAATATA
2328747 ATAT-AATATAA
1 ATATAAATAT-A
2328758 ATATAAATATAA
1 ATATAAATAT-A
2328770 ATATAAATATA
1 ATATAAATATA
2328781 ATATAAATATA
1 ATATAAATATA
2328792 A-AT--ATA-A
1 ATATAAATATA
2328799 ATATAAATA-A
1 ATATAAATATA
2328809 ATATAAATA-A
1 ATATAAATATA
2328819 ATAT-AATA-A
1 ATATAAATATA
2328828 ATATAAATATA
1 ATATAAATATA
2328839 ATATAAATATAA
1 ATATAAATAT-A
2328851 ATATAAATATA
1 ATATAAATATA
2328862 A-ATAAA-ATA
1 ATATAAATATA
*
2328871 TATATAAATAAA
1 -ATATAAATATA
2328883 ATATAAATATAA
1 ATATAAATAT-A
2328895 ATATAAATA-A
1 ATATAAATATA
2328905 ATATAAATATA
1 ATATAAATATA
2328916 A-ATAAATATA
1 ATATAAATATA
2328926 A-ATAGAATATA
1 ATATA-AATATA
2328937 ATATAAATATAA
1 ATATAAATAT-A
2328949 ATATAAATATAA
1 ATATAAATAT-A
2328961 ATATAAATATA
1 ATATAAATATA
2328972 ATAT-AATATA
1 ATATAAATATA
2328982 A-ATATAATATA
1 ATATA-AATATA
*
2328993 ATAT-AATAAA
1 ATATAAATATA
2329003 ATATAAATATAA
1 ATATAAATAT-A
2329015 ATATAAATATA
1 ATATAAATATA
2329026 A-A-AAATATAA
1 ATATAAATAT-A
2329036 ATATAAATATAA
1 ATATAAATAT-A
2329048 ATATAAATATA
1 ATATAAATATA
2329059 ATAT-AATATAA
1 ATATAAATAT-A
2329070 ATATAAATATAA
1 ATATAAATAT-A
2329082 ATATAAATAT-
1 ATATAAATATA
*
2329092 ATA-ATATATA
1 ATATAAATATA
2329102 ATATAAATATA
1 ATATAAATATA
*
2329113 A-ATTAA-AT-
1 ATATAAATATA
2329121 ATATAAATATAA
1 ATATAAATAT-A
2329133 ATATAAATATAA
1 ATATAAATAT-A
2329145 ATATAAATATAA
1 ATATAAATAT-A
2329157 ATATAAATATAA
1 ATATAAATAT-A
2329169 ATATAAATA
1 ATATAAATA
2329178 ACCCTAAACC
Statistics
Matches: 1901, Mismatches: 45, Indels: 296
0.85 0.02 0.13
Matches are distributed among these distances:
7 4 0.00
8 11 0.01
9 103 0.05
10 342 0.18
11 709 0.37
12 666 0.35
13 42 0.02
14 24 0.01
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATATAAATATA
Found at i:2329204 original size:4 final size:4
Alignment explanation
Indices: 2329195--2329313 Score: 62
Period size: 4 Copynumber: 31.8 Consensus size: 4
2329185 ACCCTAAATC
* * *
2329195 ATAT ATAT ATAT ATAT ATAT ATAT AAACT ATAT A-AT TTAT ACA- ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATA-T ATAT ATAT ATAT ATAT ATAT
* * *
2329242 ATAT -TAT TTAT A-AT -TAT ACAT A-AT ATAT A-AT A-AA AT-T ATAGT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATA-T
* *
2329284 TTAT ATAT AT-T CATAT ATA- ATTT ATAT ATA
1 ATAT ATAT ATAT -ATAT ATAT ATAT ATAT ATA
2329314 AATTATGTAT
Statistics
Matches: 88, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
3 24 0.27
4 57 0.65
5 7 0.08
ACGTcount: A:0.49, C:0.03, G:0.01, T:0.47
Consensus pattern (4 bp):
ATAT
Found at i:2329393 original size:25 final size:26
Alignment explanation
Indices: 2329356--2329404 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
2329346 CATATATAAC
* *
2329356 TATATAGTATTATAGTTTATACATGG
1 TATATAGTATTATACTTGATACATGG
*
2329382 TATATA-TTTTATACTTGATACAT
1 TATATAGTATTATACTTGATACAT
2329405 ATAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 14 0.70
26 6 0.30
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.49
Consensus pattern (26 bp):
TATATAGTATTATACTTGATACATGG
Found at i:2329431 original size:20 final size:20
Alignment explanation
Indices: 2329408--2329473 Score: 89
Period size: 20 Copynumber: 3.2 Consensus size: 20
2329398 GATACATATA
2329408 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAGTTT
*
2329428 ATATATATAA-TACATATACTTT
1 ATATATA-AACT--ATATAGTTT
2329450 ATATATAAACTATATAGTTT
1 ATATATAAACTATATAGTTT
2329470 ATAT
1 ATAT
2329474 TATATATGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
20 20 0.50
21 4 0.10
22 16 0.40
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (20 bp):
ATATATAAACTATATAGTTT
Found at i:2329452 original size:29 final size:29
Alignment explanation
Indices: 2329383--2329452 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 29
2329373 TATACATGGT
* *
2329383 ATATATTTTATACTTGATACATATAATAT
1 ATATACTTTATACTTGATACATATAATAC
* * * * *
2329412 ATAAACTATATAGTTTATATATATAATAC
1 ATATACTTTATACTTGATACATATAATAC
2329441 ATATACTTTATA
1 ATATACTTTATA
2329453 TATAAACTAT
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (29 bp):
ATATACTTTATACTTGATACATATAATAC
Found at i:2329485 original size:20 final size:20
Alignment explanation
Indices: 2329418--2329485 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
2329408 ATATATAAAC
2329418 TATATAGTTTATATATATAATA
1 TATATAGTTTATAT-TAT-ATA
* * *
2329440 CATATACTTTATA-TATAAA
1 TATATAGTTTATATTATATA
2329459 CTATATAGTTTATATTATATA
1 -TATATAGTTTATATTATATA
*
2329480 TGTATA
1 TATATA
2329486 TATTAGTTGT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
19 2 0.05
20 19 0.51
21 5 0.14
22 11 0.30
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (20 bp):
TATATAGTTTATATTATATA
Found at i:2330324 original size:216 final size:212
Alignment explanation
Indices: 2329512--2330327 Score: 1171
Period size: 211 Copynumber: 3.8 Consensus size: 212
2329502 TTTTTTCTCA
* *
2329512 ACTTATTACTTATTTCTATTTATT-AATTCGTCCATAACTTTTTAAATGAGTATAATTTAGTA-T
1 ACTTATTACTTATTTCTATTT-TTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACT
* *
2329575 ATTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCAT--TTTGTGTTGTT
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATTTGTGTTGTT
* *
2329638 TAATATATTTAAATTTTTATTTTTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTTTATTTG
130 TAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTATTTG
*
2329703 CACCTGAAATTGACCCAT
195 CATCTGAAATTGACCCAT
* * *
2329721 ACTTATTACTTATTTATATTTTTAAATTGGCCCATAACTTATTAAATGAGTATAATTTAGTATGT
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTA-CT
*
2329786 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTAATCCCT--TTTGTGTTGTT
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATTTGTGTTGTT
* * *
2329849 TAATATATTAAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCAAAATTTTATTTG
130 TAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTATTTG
* *
2329914 CATCTAAAATTAACCCAT
195 CATCTGAAATTGACCCAT
* *
2329932 ACTTATTACTTATTTCTATTTTTAAATTGACCCATAACTTTTTAAATGGGTATAATTTAGTAC-T
1 ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
* * ** * *
2329996 TTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCAATTTGATCACTCATCAATGTGCGTT
66 TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATC-C-C-TC-ATTTGTGTT
*
2330061 GTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTAT
127 GTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTAT
* *
2330126 TTGCATATGAAATTGATCCAT
192 TTGCATCTGAAATTGACCCAT
* * * *
2330147 ACTTATTACTTAATTT-TATTTTTTAATTGGCGCATAACTTTTTAAATGGGTATAATTTAATACT
1 ACTTATTACTT-ATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACT
*
2330211 TTTTTGTATTAATTTCAACCTCATAATTTAAAATTATTTTGATTTGATCCCTCATCAATATGTGT
65 TTTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCAT---T-TGTGT
* *
2330276 TGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTATTCAATTTAAT
126 TGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAAT
2330328 TCTTCAATTT
Statistics
Matches: 548, Mismatches: 44, Indels: 23
0.89 0.07 0.04
Matches are distributed among these distances:
208 2 0.00
209 99 0.18
210 1 0.00
211 197 0.36
212 3 0.01
213 2 0.00
214 1 0.00
215 139 0.25
216 104 0.19
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.50
Consensus pattern (212 bp):
ACTTATTACTTATTTCTATTTTTAAATTGGCCCATAACTTTTTAAATGAGTATAATTTAGTACTT
TTTTGTATTAATTTCAACCTCAAAATTTAAAATTATTTTGATTTGATCCCTCATTTGTGTTGTTT
AATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAATCCTCCAAATTTTATTTGC
ATCTGAAATTGACCCAT
Found at i:2340052 original size:19 final size:19
Alignment explanation
Indices: 2340004--2340071 Score: 73
Period size: 19 Copynumber: 3.6 Consensus size: 19
2339994 AAATACATGT
2340004 TGATCTCTGATTTCTGTTA
1 TGATCTCTGATTTCTGTTA
* * * *
2340023 TAAACTTTGATATCTGTTA
1 TGATCTCTGATTTCTGTTA
* *
2340042 TGATCTCTGATTTCAGATA
1 TGATCTCTGATTTCTGTTA
*
2340061 TGATCTATGAT
1 TGATCTCTGAT
2340072 CTCTACTTTG
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.25, C:0.13, G:0.15, T:0.47
Consensus pattern (19 bp):
TGATCTCTGATTTCTGTTA
Found at i:2344871 original size:18 final size:18
Alignment explanation
Indices: 2344850--2344895 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
2344840 TCTCATGTGC
*
2344850 AAGATTATCACTAATTGG
1 AAGATCATCACTAATTGG
2344868 AAGATCATCACTAATTGG
1 AAGATCATCACTAATTGG
2344886 AAGATCATCA
1 AAGATCATCA
2344896 AGCTGGTCAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (18 bp):
AAGATCATCACTAATTGG
Found at i:2346842 original size:12 final size:12
Alignment explanation
Indices: 2346825--2346849 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2346815 AAGCCACATT
2346825 TTACATATTAAA
1 TTACATATTAAA
2346837 TTACATATTAAA
1 TTACATATTAAA
2346849 T
1 T
2346850 GTTTTTTCAC
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TTACATATTAAA
Found at i:2347862 original size:21 final size:21
Alignment explanation
Indices: 2347838--2347887 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
2347828 GAATTGTCAA
2347838 TATCAATATTATTTAAGTGAG
1 TATCAATATTATTTAAGTGAG
* *
2347859 TATCGATATTGTTTAAGTGAG
1 TATCAATATTATTTAAGTGAG
*
2347880 AATCAATA
1 TATCAATA
2347888 CTCACCCATG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.38, C:0.06, G:0.16, T:0.40
Consensus pattern (21 bp):
TATCAATATTATTTAAGTGAG
Found at i:2347918 original size:20 final size:20
Alignment explanation
Indices: 2347893--2347930 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
2347883 CAATACTCAC
* *
2347893 CCATGGTCTCGATACCAAGG
1 CCATGGTATCGACACCAAGG
2347913 CCATGGTATCGACACCAA
1 CCATGGTATCGACACCAA
2347931 AAAGCCTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.32, G:0.21, T:0.18
Consensus pattern (20 bp):
CCATGGTATCGACACCAAGG
Found at i:2348522 original size:14 final size:14
Alignment explanation
Indices: 2348496--2348556 Score: 62
Period size: 14 Copynumber: 4.7 Consensus size: 14
2348486 AACAAAAGTT
2348496 CAAACATAAAGTAC
1 CAAACATAAAGTAC
2348510 CAAA-ATAAGAGTAC
1 CAAACATAA-AGTAC
2348524 CAAACATAAA-T--
1 CAAACATAAAGTAC
*
2348535 C-AACATAAAGTTC
1 CAAACATAAAGTAC
2348548 CAAA-ATAAA
1 CAAACATAAA
2348557 ATCTATAAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 13
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.20
11 2 0.05
13 11 0.27
14 16 0.39
15 4 0.10
ACGTcount: A:0.59, C:0.18, G:0.07, T:0.16
Consensus pattern (14 bp):
CAAACATAAAGTAC
Found at i:2354617 original size:29 final size:29
Alignment explanation
Indices: 2354583--2354641 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
2354573 CCTAAATTAA
*
2354583 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTACATCAATTTAGT
2354612 TTTGATATCATTGCTTACATCAATTTAGT
1 TTTGATATCATTGCTTACATCAATTTAGT
2354641 T
1 T
2354642 AGGTGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.25, C:0.14, G:0.12, T:0.49
Consensus pattern (29 bp):
TTTGATATCATTGCTTACATCAATTTAGT
Found at i:2359199 original size:29 final size:29
Alignment explanation
Indices: 2359165--2359223 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
2359155 CCTAAATTAA
2359165 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2359194 TTTGATGTCATTGCTTACATCAATTTAGT
1 TTTGATGTCATTGCTTACATCAATTTAGT
2359223 T
1 T
2359224 AGGTGAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.24, C:0.14, G:0.14, T:0.49
Consensus pattern (29 bp):
TTTGATGTCATTGCTTACATCAATTTAGT
Found at i:2361335 original size:38 final size:38
Alignment explanation
Indices: 2361284--2361358 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
2361274 ACAATTAGCA
2361284 TCATAATAATGTTTAATCCCTCAAGCATGATGATAACG
1 TCATAATAATGTTTAATCCCTCAAGCATGATGATAACG
* *
2361322 TCATAATAATGTTTAATCTCTCAAGCTTGATGATAAC
1 TCATAATAATGTTTAATCCCTCAAGCATGATGATAAC
2361359 ACTTGGTGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (38 bp):
TCATAATAATGTTTAATCCCTCAAGCATGATGATAACG
Found at i:2376391 original size:73 final size:72
Alignment explanation
Indices: 2376273--2376419 Score: 258
Period size: 73 Copynumber: 2.0 Consensus size: 72
2376263 CTTCATAAAG
* *
2376273 ATCTATACGGGCCACCCATGACCGATTAGTTACCTCTTGGGGCATGTTTGGTTTGGGGAATGTGA
1 ATCTATACAGACCACCCATGACCGATTAGTTACCTCTTGGGGCATGTTTGGTTTGGGGAATGTGA
2376338 GATTACC
66 GATTACC
*
2376345 ATCTATACAGACCACCCCATTACCGATTAGTTACCTCTTGGGGCATGTTTGGTTTGGGGAATGTG
1 ATCTATACAGACCA-CCCATGACCGATTAGTTACCTCTTGGGGCATGTTTGGTTTGGGGAATGTG
2376410 AGATTACC
65 AGATTACC
2376418 AT
1 AT
2376420 GGGAATGGAA
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 12 0.17
73 59 0.83
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.31
Consensus pattern (72 bp):
ATCTATACAGACCACCCATGACCGATTAGTTACCTCTTGGGGCATGTTTGGTTTGGGGAATGTGA
GATTACC
Found at i:2377331 original size:12 final size:12
Alignment explanation
Indices: 2377314--2377353 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2377304 TGAAACAACT
*
2377314 ATAATGTTATCA
1 ATAATGTTATTA
*
2377326 ATAATGTCTATTT
1 ATAATGT-TATTA
2377339 ATAATGTTATTA
1 ATAATGTTATTA
2377351 ATA
1 ATA
2377354 GAATTTATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (12 bp):
ATAATGTTATTA
Found at i:2381417 original size:15 final size:15
Alignment explanation
Indices: 2381385--2381421 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
2381375 TTGAATTCTC
2381385 CATTA-TTTATTTTT
1 CATTATTTTATTTTT
2381399 -ATTATTTTATTTTT
1 CATTATTTTATTTTT
2381413 CATTATTTT
1 CATTATTTT
2381422 TAAACCCCGT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 9 0.43
15 8 0.38
ACGTcount: A:0.22, C:0.05, G:0.00, T:0.73
Consensus pattern (15 bp):
CATTATTTTATTTTT
Found at i:2390827 original size:30 final size:32
Alignment explanation
Indices: 2390793--2390855 Score: 87
Period size: 30 Copynumber: 2.0 Consensus size: 32
2390783 TATTTAAAAT
2390793 TAAAAATAAATTTC-ATA-TTTTTT-ATATTTA
1 TAAAAATAAA-TTCAATACTTTTTTCATATTTA
*
2390823 TAAAATTAAATTCAATACTTTTTTCATATTTA
1 TAAAAATAAATTCAATACTTTTTTCATATTTA
2390855 T
1 T
2390856 TTTTAAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 3 0.10
30 12 0.41
31 6 0.21
32 8 0.28
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.52
Consensus pattern (32 bp):
TAAAAATAAATTCAATACTTTTTTCATATTTA
Found at i:2392007 original size:23 final size:23
Alignment explanation
Indices: 2391960--2392057 Score: 92
Period size: 23 Copynumber: 4.3 Consensus size: 23
2391950 CACCGAAGTG
** *
2391960 CCACATAA-TTT-TCCTGAAGGT
1 CCACATAAGTTTGTCCCAAAGGA
2391981 CCACATAAGTTTGTCCCAAAGGA
1 CCACATAAGTTTGTCCCAAAGGA
*
2392004 CCACATAGGTTTTGTCCCAAAGGA
1 CCACATAAG-TTTGTCCCAAAGGA
* * * **
2392028 TCACGTAATTTTGTCCTGAAGGA
1 CCACATAAGTTTGTCCCAAAGGA
2392051 CCACATA
1 CCACATA
2392058 GAACCCTCGA
Statistics
Matches: 62, Mismatches: 12, Indels: 4
0.79 0.15 0.05
Matches are distributed among these distances:
21 8 0.13
22 3 0.05
23 32 0.52
24 19 0.31
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (23 bp):
CCACATAAGTTTGTCCCAAAGGA
Found at i:2397071 original size:13 final size:14
Alignment explanation
Indices: 2397045--2397078 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
2397035 ATCAATGGGT
2397045 TGTCCTGAATAAAA
1 TGTCCTGAATAAAA
2397059 TGTCCTG-ATAAAA
1 TGTCCTGAATAAAA
2397072 TGTCCTG
1 TGTCCTG
2397079 CCTCTATACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.65
14 7 0.35
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (14 bp):
TGTCCTGAATAAAA
Found at i:2398904 original size:24 final size:24
Alignment explanation
Indices: 2398866--2398939 Score: 116
Period size: 23 Copynumber: 3.2 Consensus size: 24
2398856 CTTGAAAGAC
2398866 CATAAG-TTTGTCCCGAAGGACCA
1 CATAAGTTTTGTCCCGAAGGACCA
2398889 CATAAGTTTTGTCCCGAAGGACCA
1 CATAAGTTTTGTCCCGAAGGACCA
* *
2398913 CATAA-TTTTGTCCTGAAGGATCA
1 CATAAGTTTTGTCCCGAAGGACCA
2398936 CATA
1 CATA
2398940 GAACCCTCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (24 bp):
CATAAGTTTTGTCCCGAAGGACCA
Found at i:2401619 original size:51 final size:51
Alignment explanation
Indices: 2401538--2401638 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
2401528 ATAAAAAATG
* *
2401538 TAAGGTTTATATAACAAATATGTACGTAAAGTATGTTCTATTTGTCATTTA
1 TAAGGTTTATATAACAAATATGTACGTAAAGTATGCTATATTTGTCATTTA
* *
2401589 TAAGGTTTATATAACAAATGTGTACTTAAAGTATGCTATATTTGTCATTT
1 TAAGGTTTATATAACAAATATGTACGTAAAGTATGCTATATTTGTCATTT
2401639 TTCATTTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.44
Consensus pattern (51 bp):
TAAGGTTTATATAACAAATATGTACGTAAAGTATGCTATATTTGTCATTTA
Found at i:2401679 original size:30 final size:29
Alignment explanation
Indices: 2401644--2401718 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 29
2401634 CATTTTTCAT
2401644 TTTTTTTGTCAAAATAAGTAT-C-TAAAGTTA
1 TTTTTTTGTCAAAATAA--ATGCTTAAAG-TA
* *
2401674 TTTTTTAGTCAAATTAAATGCTTAAAGTA
1 TTTTTTTGTCAAAATAAATGCTTAAAGTA
*
2401703 TTTTTTTATCAAAATA
1 TTTTTTTGTCAAAATA
2401719 GGTACATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 2 0.05
29 16 0.42
30 20 0.53
ACGTcount: A:0.37, C:0.07, G:0.08, T:0.48
Consensus pattern (29 bp):
TTTTTTTGTCAAAATAAATGCTTAAAGTA
Found at i:2401838 original size:31 final size:29
Alignment explanation
Indices: 2401780--2401903 Score: 94
Period size: 31 Copynumber: 4.2 Consensus size: 29
2401770 CATTTCAACC
* *
2401780 TATTTTGAC-ATAAAATACTTTATGTACT
1 TATTTTGACAAAAAAATACTTTAGGTACT
2401808 TATTTTGACAAAAAAGATAACTTTAGGTACT
1 TATTTTGACAAAAAA-AT-ACTTTAGGTACT
* * *
2401839 TATTTTGA-ACAAAACATTCTTTAAGTACT
1 TATTTTGACA-AAAAAATACTTTAGGTACT
**
2401868 TA-AATGA-AAAAGAATGTATACTTTAGGTACT
1 TATTTTGACAAAA-AA---ATACTTTAGGTACT
2401899 TATTT
1 TATTT
2401904 ATGATATAAG
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
27 3 0.04
28 14 0.19
29 16 0.21
30 5 0.07
31 37 0.49
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (29 bp):
TATTTTGACAAAAAAATACTTTAGGTACT
Found at i:2409743 original size:30 final size:30
Alignment explanation
Indices: 2409707--2409766 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
2409697 AGCCCAAACC
2409707 GAACTCATTTTTCTTAAAAAATTGAACTGA
1 GAACTCATTTTTCTTAAAAAATTGAACTGA
2409737 GAACTCATTTTTCTTAAAAAATTGAACTGA
1 GAACTCATTTTTCTTAAAAAATTGAACTGA
2409767 TCTAGTCGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.10, T:0.37
Consensus pattern (30 bp):
GAACTCATTTTTCTTAAAAAATTGAACTGA
Found at i:2413540 original size:24 final size:23
Alignment explanation
Indices: 2413513--2413558 Score: 74
Period size: 24 Copynumber: 2.0 Consensus size: 23
2413503 TGTGTAAAAT
2413513 CGTTGACAGTTGACCTTTGACCGC
1 CGTTGACAGTTGA-CTTTGACCGC
*
2413537 CGTTGACCGTTGACTTTGACCG
1 CGTTGACAGTTGACTTTGACCG
2413559 AAAAAGTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.15, C:0.28, G:0.26, T:0.30
Consensus pattern (23 bp):
CGTTGACAGTTGACTTTGACCGC
Found at i:2415906 original size:48 final size:48
Alignment explanation
Indices: 2415799--2415906 Score: 121
Period size: 48 Copynumber: 2.2 Consensus size: 48
2415789 TATTTTATCA
* * *
2415799 GATTTCTGATTTGAATTCTGTTCTGATACATGTTCTGAATTCTGTTCT
1 GATTTCTGATATGAATTCTATTCTGATACATATTCTGAATTCTGTTCT
* * * *
2415847 GATTT-TAGATATGGATTCTATTTTGATATCTTATT-TGAATTCTGTTTT
1 GATTTCT-GATATGAATTCTATTCTGATA-CATATTCTGAATTCTGTTCT
2415895 GATTTCTGATAT
1 GATTTCTGATAT
2415907 CTCTGTTTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
47 1 0.02
48 44 0.88
49 5 0.10
ACGTcount: A:0.21, C:0.10, G:0.16, T:0.53
Consensus pattern (48 bp):
GATTTCTGATATGAATTCTATTCTGATACATATTCTGAATTCTGTTCT
Found at i:2418062 original size:17 final size:17
Alignment explanation
Indices: 2418040--2418073 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2418030 AAATCGTTGA
2418040 CCGTTGACCTTTGACCG
1 CCGTTGACCTTTGACCG
*
2418057 CCGTTGATCTTTGACCG
1 CCGTTGACCTTTGACCG
2418074 TTGACTTTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.32, G:0.24, T:0.32
Consensus pattern (17 bp):
CCGTTGACCTTTGACCG
Found at i:2420352 original size:48 final size:48
Alignment explanation
Indices: 2420280--2420391 Score: 143
Period size: 48 Copynumber: 2.3 Consensus size: 48
2420270 CATAAATGTT
* *
2420280 TATTCTGATTTCCGATTTGAATTCTGTTCTGATACATGACCTGAATTC
1 TATTCTGATTTCTGATCTGAATTCTGTTCTGATACATGACCTGAATTC
* * * ** *
2420328 TGTTCTAATTTCTGATCTGGATTCTGTTCTGATATTTGATCTGAATTC
1 TATTCTGATTTCTGATCTGAATTCTGTTCTGATACATGACCTGAATTC
*
2420376 TATTTTGATTTCTGAT
1 TATTCTGATTTCTGAT
2420392 ATCTCCATTT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.21, C:0.15, G:0.15, T:0.49
Consensus pattern (48 bp):
TATTCTGATTTCTGATCTGAATTCTGTTCTGATACATGACCTGAATTC
Found at i:2420391 original size:24 final size:24
Alignment explanation
Indices: 2420282--2420391 Score: 116
Period size: 24 Copynumber: 4.6 Consensus size: 24
2420272 TAAATGTTTA
* *
2420282 TTCTGATTTCCGATTTGAATTCTG
1 TTCTGATTTCTGATCTGAATTCTG
* *
2420306 TTCTGA-TACATGACCTGAATTCTG
1 TTCTGATTTC-TGATCTGAATTCTG
* *
2420330 TTCTAATTTCTGATCTGGATTCTG
1 TTCTGATTTCTGATCTGAATTCTG
*
2420354 TTCTGATATT-TGATCTGAATTCTA
1 TTCTGAT-TTCTGATCTGAATTCTG
*
2420378 TTTTGATTTCTGAT
1 TTCTGATTTCTGAT
2420392 ATCTCCATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.06
24 62 0.89
25 4 0.06
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.49
Consensus pattern (24 bp):
TTCTGATTTCTGATCTGAATTCTG
Found at i:2423296 original size:85 final size:85
Alignment explanation
Indices: 2423115--2423285 Score: 245
Period size: 85 Copynumber: 2.0 Consensus size: 85
2423105 CACAATTCAA
* *
2423115 GGTATATTCTTCAGGTGGTTCCCCTTCGCGGGTCTAAACCAGGTCAGAAGATCTTTGGATGACTC
1 GGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTCTAAACCAGGTCAGAAGATCTTTGGATGACTC
*
2423180 CCTTCACGGGAAAGTCATGT
66 CCTTCACAGGAAAGTCATGT
* * * **
2423200 GGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTTTGAACCA-GTGAGATTATCTTTGGATGACTC
1 GGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTCTAAACCAGGTCAGAAGATCTTTGGATGACT-
*
2423264 CCCTTCATAGGAAAGTCATGT
65 CCCTTCACAGGAAAGTCATGT
2423285 G
1 G
2423286 AGATGTTCTT
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
84 19 0.25
85 57 0.75
ACGTcount: A:0.22, C:0.22, G:0.25, T:0.32
Consensus pattern (85 bp):
GGTATATTCTTCAGGTGGTTCCCCTTAGCAGGTCTAAACCAGGTCAGAAGATCTTTGGATGACTC
CCTTCACAGGAAAGTCATGT
Found at i:2424832 original size:41 final size:41
Alignment explanation
Indices: 2424707--2424813 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
2424697 AATTAAATTA
* *
2424707 AAAAAAGAAGTG-GAAAATAAA-AA-AAAAC-AAATAAAAT
1 AAAAAAGAAGTGTTAAATTAAATAATAAAACAAAATAAAAT
*
2424744 AAAAAAGAAGTGTTAAATTTAATAATAAAACAAAATAAAAT
1 AAAAAAGAAGTGTTAAATTAAATAATAAAACAAAATAAAAT
*
2424785 AAAAAAGAATTGTTAAATTAAATAATAAA
1 AAAAAAGAAGTGTTAAATTAAATAATAAA
2424814 TAATAGTAAA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
37 12 0.20
38 6 0.10
39 2 0.03
40 5 0.08
41 36 0.59
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (41 bp):
AAAAAAGAAGTGTTAAATTAAATAATAAAACAAAATAAAAT
Found at i:2424876 original size:18 final size:18
Alignment explanation
Indices: 2424855--2424897 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2424845 GTTGTTTATA
*
2424855 AAATAAAAGATAAGAATT
1 AAATAAAAGAAAAGAATT
*
2424873 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
2424891 AAATAAA
1 AAATAAA
2424898 TAATCTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.72, C:0.00, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:2425502 original size:24 final size:24
Alignment explanation
Indices: 2425472--2425523 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
2425462 AAAGATAACA
2425472 TAAAATAATATCCTTAATCCTAAT
1 TAAAATAATATCCTTAATCCTAAT
2425496 TAAAATAATATCCTTAATCCTAAT
1 TAAAATAATATCCTTAATCCTAAT
2425520 TAAA
1 TAAA
2425524 TTACTAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (24 bp):
TAAAATAATATCCTTAATCCTAAT
Found at i:2425641 original size:21 final size:21
Alignment explanation
Indices: 2425616--2425664 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
2425606 ACACTAATAC
2425616 ACTAATATATTAATAATATAT
1 ACTAATATATTAATAATATAT
* *
2425637 ACTAATATATTAGTAATATTT
1 ACTAATATATTAATAATATAT
*
2425658 ATTAATA
1 ACTAATA
2425665 CTAATGTACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (21 bp):
ACTAATATATTAATAATATAT
Found at i:2425644 original size:19 final size:19
Alignment explanation
Indices: 2425622--2425759 Score: 79
Period size: 19 Copynumber: 7.2 Consensus size: 19
2425612 ATACACTAAT
2425622 ATATTAATAATATATACTA
1 ATATTAATAATATATACTA
* *
2425641 ATA-TATTAGTA-ATA-T-
1 ATATTAATAATATATACTA
* * *
2425656 TTATTAATACTAATGTACTA
1 ATATTAATAAT-ATATACTA
2425676 ATATTAATAATATGA-ACTA
1 ATATTAATAATAT-ATACTA
* *
2425695 ATATTCATAATATGTACTA
1 ATATTAATAATATATACTA
* * *
2425714 ATATATGAATAATAAACAATAA
1 ATAT-T-AATAATATATACT-A
* *
2425736 TATATTAATAATATGTTCTA
1 -ATATTAATAATATATACTA
2425756 ATAT
1 ATAT
2425760 CTTAGTAACA
Statistics
Matches: 87, Mismatches: 21, Indels: 22
0.67 0.16 0.17
Matches are distributed among these distances:
15 2 0.02
16 6 0.07
17 4 0.05
18 8 0.09
19 34 0.39
20 11 0.13
21 16 0.18
22 2 0.02
23 4 0.05
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (19 bp):
ATATTAATAATATATACTA
Found at i:2425725 original size:21 final size:19
Alignment explanation
Indices: 2425657--2425759 Score: 89
Period size: 19 Copynumber: 5.2 Consensus size: 19
2425647 TAGTAATATT
*
2425657 TATTAATACTAATGTACTAA
1 TATTAATAAT-ATGTACTAA
*
2425677 TATTAATAATATGAACTAA
1 TATTAATAATATGTACTAA
*
2425696 TATTCATAATATGTACTAA
1 TATTAATAATATGTACTAA
*** *
2425715 TATATGAATAATAAACAATAATA
1 TAT-T-AATAATATGTACT-A-A
*
2425738 TATTAATAATATGTTCTAA
1 TATTAATAATATGTACTAA
2425757 TAT
1 TAT
2425760 CTTAGTAACA
Statistics
Matches: 65, Mismatches: 14, Indels: 9
0.74 0.16 0.10
Matches are distributed among these distances:
19 32 0.49
20 11 0.17
21 16 0.25
22 2 0.03
23 4 0.06
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (19 bp):
TATTAATAATATGTACTAA
Found at i:2427434 original size:75 final size:75
Alignment explanation
Indices: 2427353--2427491 Score: 167
Period size: 75 Copynumber: 1.9 Consensus size: 75
2427343 TTAAAATATT
* *
2427353 TTAATTAATT-CAAACTAAATATCCATT-AAAGACTTATAATCCAAATTACAATC-TTTAATGTT
1 TTAATT-ATTCCAAACTAAA-ATCCATTAAAAGA-GTATAATCAAAATTACAATCTTTTAATGTT
2427415 TATTTAAATCTTA
63 TATTTAAATCTTA
* * * * *
2427428 TTAATTATTCCGAATTAAAATCTATTAAAAGAGTGTAATCAAAATTACATTCTTTTAATGTTTA
1 TTAATTATTCCAAACTAAAATCCATTAAAAGAGTATAATCAAAATTACAATCTTTTAATGTTTA
2427492 CTAATTATAT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
74 25 0.46
75 29 0.54
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.42
Consensus pattern (75 bp):
TTAATTATTCCAAACTAAAATCCATTAAAAGAGTATAATCAAAATTACAATCTTTTAATGTTTAT
TTAAATCTTA
Found at i:2436774 original size:74 final size:74
Alignment explanation
Indices: 2436653--2436807 Score: 238
Period size: 74 Copynumber: 2.1 Consensus size: 74
2436643 GTTGTTGCCA
* * * * *
2436653 CTCCCGAAATTTTTGGTATAATAGTATTTTAGGTCCTTTTTAATTTAAATATTAATCGAATAAGG
1 CTCCCAAAATGTTTGGTATAATAGTATCTTAGGTCCTTTTTAATTTAAATAGTAATCAAATAAGG
*
2436718 CCTTTGTCC
66 CCTTTGGCC
*
2436727 CTCCCAAAATGTTTGGTATAATAGTATCTTAGGTCCTTTTTAGTTTAAATAGTAATCAAATAAGG
1 CTCCCAAAATGTTTGGTATAATAGTATCTTAGGTCCTTTTTAATTTAAATAGTAATCAAATAAGG
*
2436792 TCTTTGGCC
66 CCTTTGGCC
2436801 CTCCCAA
1 CTCCCAA
2436808 TTTTTAGATT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (74 bp):
CTCCCAAAATGTTTGGTATAATAGTATCTTAGGTCCTTTTTAATTTAAATAGTAATCAAATAAGG
CCTTTGGCC
Found at i:2437334 original size:6 final size:6
Alignment explanation
Indices: 2437323--2437360 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
2437313 TGCACTACTA
* *
2437323 AATAGT AATAGT AATAGT AATTGT AATTGT AATAGT AA
1 AATAGT AATAGT AATAGT AATAGT AATAGT AATAGT AA
2437361 AATAAAGGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (6 bp):
AATAGT
Found at i:2438437 original size:22 final size:22
Alignment explanation
Indices: 2438387--2438439 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
2438377 GTTTAATTTC
2438387 TGATTTGAATTGTTTTATAGAA
1 TGATTTGAATTGTTTTATAGAA
*
2438409 AGAATTTGTTAATT-TTTTATA-AA
1 TG-ATTTG--AATTGTTTTATAGAA
2438432 TGATTTGA
1 TGATTTGA
2438440 CACTTTGATG
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
20 1 0.04
22 6 0.23
23 8 0.31
24 7 0.27
25 4 0.15
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (22 bp):
TGATTTGAATTGTTTTATAGAA
Found at i:2442301 original size:18 final size:18
Alignment explanation
Indices: 2442278--2442313 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
2442268 AAGGGAAAGG
2442278 AAGGGAATACTCAATTTC
1 AAGGGAATACTCAATTTC
2442296 AAGGGAATACTCAATTTC
1 AAGGGAATACTCAATTTC
2442314 CCTTACTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.28
Consensus pattern (18 bp):
AAGGGAATACTCAATTTC
Found at i:2444177 original size:21 final size:21
Alignment explanation
Indices: 2444151--2444268 Score: 114
Period size: 21 Copynumber: 5.7 Consensus size: 21
2444141 GCGTTGCATT
*
2444151 TCGCGTTGCGATAATTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
2444172 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
2444193 TCGCGTTGCGAT-TTTTCATT
1 TCGCGTTGCGATAGTTGAAAA
*
2444213 TCGCGTTACGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** *
2444234 TCGTGTTGCGAT-TTTTTAAT
1 TCGCGTTGCGATAGTTGAAAA
2444254 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
2444269 CTACAGTTGT
Statistics
Matches: 75, Mismatches: 20, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
20 29 0.39
21 46 0.61
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:2444225 original size:41 final size:41
Alignment explanation
Indices: 2444172--2444268 Score: 158
Period size: 41 Copynumber: 2.4 Consensus size: 41
2444162 TAATTGAAAA
*
2444172 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCATT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCAAT
* * *
2444213 TCGCGTTACGATAGTTGAAAATCGTGTTGCGATTTTTTAAT
1 TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCAAT
2444254 TCGCGTTGCGATAGT
1 TCGCGTTGCGATAGT
2444269 CTACAGTTGT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.21, C:0.15, G:0.25, T:0.39
Consensus pattern (41 bp):
TCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTTCAAT
Found at i:2444302 original size:41 final size:41
Alignment explanation
Indices: 2444257--2444347 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
2444247 TTTTAATTCG
*
2444257 CGTTGCGATAGTCTACAGTTGTCGTTACGATTTTCTAAATT
1 CGTTGCGATAGTCTACAGTTGCCGTTACGATTTTCTAAATT
* *
2444298 CGTTGCGATAGTCTATAGTTGCCGTTGCGATTTTCTAAATT
1 CGTTGCGATAGTCTACAGTTGCCGTTACGATTTTCTAAATT
*
2444339 CGTTACGAT
1 CGTTGCGAT
2444348 TTTGTTGGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (41 bp):
CGTTGCGATAGTCTACAGTTGCCGTTACGATTTTCTAAATT
Found at i:2444306 original size:19 final size:19
Alignment explanation
Indices: 2444278--2444350 Score: 74
Period size: 19 Copynumber: 3.7 Consensus size: 19
2444268 TCTACAGTTG
2444278 TCGTTACGATTTTCTAAAT
1 TCGTTACGATTTTCTAAAT
* ** *
2444297 TCGTTGCGATAGTCTATAGT
1 TCGTTACGATTTTCTA-AAT
*
2444317 TGCCGTTGCGATTTTCTAAAT
1 T--CGTTACGATTTTCTAAAT
2444338 TCGTTACGATTTT
1 TCGTTACGATTTT
2444351 GTTGGTCATT
Statistics
Matches: 43, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 24 0.56
20 3 0.07
21 3 0.07
22 13 0.30
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGTTACGATTTTCTAAAT
Found at i:2445656 original size:45 final size:45
Alignment explanation
Indices: 2445567--2445838 Score: 393
Period size: 45 Copynumber: 6.1 Consensus size: 45
2445557 TATAATTTAT
* * *
2445567 TTTCATTTATGGAATCATTTCATG-CAATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
*
2445611 TTTCATTTATGACATCCTTTCATGCCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
2445656 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
** *
2445701 TTTCATTTATGGCATCCTTTCATATCGATAATGCATCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * ** **
2445746 CTTCATTTATTGCATATTTTCATGCTAATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
* * *
2445791 TTTCATTTATGGCATCTTTTCATGTCGATAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
2445836 TTT
1 TTT
2445839 AGTCTTTTAT
Statistics
Matches: 203, Mismatches: 24, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
44 21 0.10
45 182 0.90
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.41
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCGATAATGCACCGTTATGCA
Found at i:2446606 original size:32 final size:31
Alignment explanation
Indices: 2446568--2446645 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
2446558 TTGGGGTCGT
*
2446568 AGGGCCTACCTAAGAACACATCTTAGGGCCGC
1 AGGGCCTACCTAAGAA-ACATCTCAGGGCCGC
* **
2446600 AGGGCCTACCCGAA-AATGATCTCAGGGCCGC
1 AGGGCCTA-CCTAAGAAACATCTCAGGGCCGC
*
2446631 AGAGCCTACCTAAGA
1 AGGGCCTACCTAAGA
2446646 GTCACATTAG
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
30 4 0.11
31 20 0.53
32 10 0.26
33 4 0.11
ACGTcount: A:0.29, C:0.31, G:0.26, T:0.14
Consensus pattern (31 bp):
AGGGCCTACCTAAGAAACATCTCAGGGCCGC
Found at i:2447596 original size:29 final size:29
Alignment explanation
Indices: 2447522--2447596 Score: 114
Period size: 30 Copynumber: 2.6 Consensus size: 29
2447512 CACATTCGAA
*
2447522 AATTCCCAGAATGTCACCTTTTTCAAAAC
1 AATTCCCAGAATGTCACCATTTTCAAAAC
*
2447551 AATTTCCCAGAATGTCACCATTTTCAAAAT
1 AA-TTCCCAGAATGTCACCATTTTCAAAAC
*
2447581 AATTCCCAAAATGTCA
1 AATTCCCAGAATGTCA
2447597 TCGGGTCGGG
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
29 15 0.36
30 27 0.64
ACGTcount: A:0.37, C:0.25, G:0.07, T:0.31
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCATTTTCAAAAC
Found at i:2447639 original size:10 final size:10
Alignment explanation
Indices: 2447624--2447664 Score: 64
Period size: 10 Copynumber: 4.1 Consensus size: 10
2447614 ACAGGTCGGG
*
2447624 TCAGACGGGT
1 TCAGACCGGT
2447634 TCAGACCGGT
1 TCAGACCGGT
*
2447644 TCAGATCGGT
1 TCAGACCGGT
2447654 TCAGACCGGT
1 TCAGACCGGT
2447664 T
1 T
2447665 TGGACCGGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 28 1.00
ACGTcount: A:0.20, C:0.24, G:0.32, T:0.24
Consensus pattern (10 bp):
TCAGACCGGT
Found at i:2450794 original size:21 final size:21
Alignment explanation
Indices: 2450757--2450800 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2450747 ATTTTCTTAG
*
2450757 CATTATCATATATATTATTAT
1 CATTATCATATATATTATCAT
*
2450778 CATTATC-TTTATCATTATCAT
1 CATTATCATATAT-ATTATCAT
2450799 CA
1 CA
2450801 AATTATTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (21 bp):
CATTATCATATATATTATCAT
Found at i:2451288 original size:147 final size:147
Alignment explanation
Indices: 2451012--2451457 Score: 745
Period size: 147 Copynumber: 3.0 Consensus size: 147
2451002 CCGAAGTGCA
*
2451012 CGTAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
2451077 --TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAG-A-ATA
2451140 TATATATCCCGAAGGACCG
129 TATATATCCCGAAGGACCG
*
2451159 CGTAGAATTGTACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
2451224 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
2451289 TATATCCCGAAGGACCG
131 TATATCCCGAAGGACCG
2451306 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
* * * * * * * * *
2451371 CATATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCATAAATGTTCCAAAGAATACA
66 CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
*
2451435 TATGTCCCGAAGGACCG
131 TATATCCCGAAGGACCG
2451452 CGTAGA
1 CGTAGA
2451458 CCCTCGACTC
Statistics
Matches: 284, Mismatches: 13, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
146 46 0.16
147 180 0.63
148 1 0.00
149 57 0.20
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (147 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAAT
CATATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATA
TATATCCCGAAGGACCG
Found at i:2452898 original size:64 final size:62
Alignment explanation
Indices: 2452793--2452949 Score: 165
Period size: 64 Copynumber: 2.5 Consensus size: 62
2452783 TAATGAAGGT
* * * **
2452793 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATG-TTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATT-TTA-AAAG
* *
2452857 ATGCATCGATGCATGACTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATTTTAAAAG
1 ATGCATCGATGCAT-ACTAATGCATCGATGCA-TAAAATGCATTCGATGTTTCTATTTTAAAAG
*
2452920 AGTGCATCGATGCATTACCAATGCATCGAT
1 A-TGCATCGATGCA-TACTAATGCATCGAT
2452950 ACACCTTCAA
Statistics
Matches: 80, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
63 4 0.05
64 68 0.85
65 8 0.10
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (62 bp):
ATGCATCGATGCATACTAATGCATCGATGCATAAAATGCATTCGATGTTTCTATTTTAAAAG
Found at i:2455985 original size:18 final size:18
Alignment explanation
Indices: 2455962--2456000 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
2455952 ATTTTCTTAG
2455962 CATTATCATATAT-ATTAT
1 CATTATC-TATATCATTAT
*
2455980 CATTATCTCTATCATTAT
1 CATTATCTATATCATTAT
2455998 CAT
1 CAT
2456001 CAAATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.49
Consensus pattern (18 bp):
CATTATCTATATCATTAT
Found at i:2456482 original size:149 final size:149
Alignment explanation
Indices: 2456212--2456661 Score: 758
Period size: 149 Copynumber: 3.0 Consensus size: 149
2456202 GAAGTGCACA
*
2456212 TAGAATTACACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATCA
2456277 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
66 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
2456342 TATATCCCGAAGGACCGCG
131 TATATCCCGAAGGACCGCG
*
2456361 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATACCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATCA
2456426 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
66 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
*
2456491 TATATCCCGAAGGACTGCG
131 TATATCCCGAAGGACCGCG
* *
2456510 TAGAATTGCACCGTAGTGCCATAAAATAGTGTCCATAAGGACCACATATCATTCCTTAAGAATCA
1 TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATCA
* * * * * * * * *
2456575 TATACATATACTAAGGACCAAGTATGTGCCTCA-AAGACCTCATAAATGTTCCAAAGAATATACA
66 TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
*
2456639 TATGTCCCGAAGGACCGCG
131 TATATCCCGAAGGACCGCG
2456658 TAGA
1 TAGA
2456662 CCCTCGACTC
Statistics
Matches: 284, Mismatches: 17, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
148 47 0.17
149 237 0.83
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (149 bp):
TAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATATCATTCCTTAAGAATCA
TATACATATACTAGGGATCAAGTATGTGTCTTACAAGACTTCACACATGTTCCACAGAATATATA
TATATCCCGAAGGACCGCG
Found at i:2458143 original size:64 final size:63
Alignment explanation
Indices: 2458010--2458151 Score: 155
Period size: 64 Copynumber: 2.2 Consensus size: 63
2458000 TAATGAAGGT
** * * *
2458010 ATGCATCGATGCACTACTGATGCATCGGTGCATAAAATGCATTCGATGTTGTATTATTATAGGG
1 ATGCATCGATGCA-TACTGATGCATCAATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
* *
2458074 ATGCATCGATGCATGACTTATGCATCAATGCACT-AATTGCATTCGATGTTTCTATT-TTAAA-A
1 ATGCATCGATGCAT-ACTGATGCATCAATGCA-TAAAATGCATTCGATG-TTCTATTATTAAAGA
2458136 G
63 G
2458137 AGTGCATCGATGCAT
1 A-TGCATCGATGCAT
2458152 TACCAATGCA
Statistics
Matches: 67, Mismatches: 7, Indels: 8
0.82 0.09 0.10
Matches are distributed among these distances:
63 3 0.04
64 57 0.85
65 7 0.10
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCATACTGATGCATCAATGCATAAAATGCATTCGATGTTCTATTATTAAAGAG
Found at i:2463505 original size:11 final size:11
Alignment explanation
Indices: 2463489--2463520 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
2463479 CAAAATCAAA
2463489 GGTCGTTTAAT
1 GGTCGTTTAAT
2463500 GGTCGTTTAAT
1 GGTCGTTTAAT
*
2463511 GGCCGTTTAA
1 GGTCGTTTAA
2463521 AGCCGGTCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.19, C:0.12, G:0.28, T:0.41
Consensus pattern (11 bp):
GGTCGTTTAAT
Found at i:2463642 original size:29 final size:29
Alignment explanation
Indices: 2463568--2463643 Score: 100
Period size: 30 Copynumber: 2.6 Consensus size: 29
2463558 CATATTCGAA
*
2463568 AATT-CCAGAATGTCACCTTTTTAAAAAT
1 AATTCCCAGAATGTCACCATTTTAAAAAT
* *
2463596 AATTTCCCAGAATATCACCATTTTCAAAAT
1 AA-TTCCCAGAATGTCACCATTTTAAAAAT
*
2463626 AATTCCCAAAATGTCACC
1 AATTCCCAGAATGTCACC
2463644 GAGTCGGGTC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 2 0.05
29 16 0.39
30 23 0.56
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.32
Consensus pattern (29 bp):
AATTCCCAGAATGTCACCATTTTAAAAAT
Found at i:2464560 original size:54 final size:54
Alignment explanation
Indices: 2464445--2464569 Score: 144
Period size: 54 Copynumber: 2.3 Consensus size: 54
2464435 CAAACTCTAT
** * * * * *
2464445 AGTTTGCACACTTAACGCCAATACGATAATTCACAACTTATTATGAATTACGTG
1 AGTTTGCACACACAATGTCAATACGAAAATTCAAAACTTATTATGAATTACGTA
* * *
2464499 GGTTTGCACACACAATGTCAATACGAAAATTCATAAACTTATTATGAATTTCTTA
1 AGTTTGCACACACAATGTCAATACGAAAATTCA-AAACTTATTATGAATTACGTA
2464554 AG-TTGCACACACAATG
1 AGTTTGCACACACAATG
2464570 CCCATACTGT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
54 41 0.69
55 18 0.31
ACGTcount: A:0.37, C:0.19, G:0.13, T:0.31
Consensus pattern (54 bp):
AGTTTGCACACACAATGTCAATACGAAAATTCAAAACTTATTATGAATTACGTA
Found at i:2465279 original size:20 final size:20
Alignment explanation
Indices: 2465254--2465300 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
2465244 AGCTTCTTAC
2465254 AACATCTAAATTATCCAAAG
1 AACATCTAAATTATCCAAAG
*
2465274 AACATCTAAATTCTCCAAAG
1 AACATCTAAATTATCCAAAG
2465294 AACATCT
1 AACATCT
2465301 CAAACTAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.47, C:0.23, G:0.04, T:0.26
Consensus pattern (20 bp):
AACATCTAAATTATCCAAAG
Found at i:2467743 original size:2 final size:2
Alignment explanation
Indices: 2467736--2467762 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2467726 TAAGAAAAGT
2467736 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
2467763 CTTTTTGACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2478278 original size:21 final size:21
Alignment explanation
Indices: 2478252--2478294 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
2478242 ATTTCTGGGC
* *
2478252 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
2478273 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
2478294 A
1 A
2478295 ACGACAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:2478981 original size:21 final size:22
Alignment explanation
Indices: 2478952--2478995 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2478942 GTTGTATGAT
2478952 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
2478973 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
2478995 A
1 A
2478996 AATGAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:2479907 original size:145 final size:145
Alignment explanation
Indices: 2479641--2479926 Score: 481
Period size: 145 Copynumber: 2.0 Consensus size: 145
2479631 CGAGGGTCTA
2479641 CGCGGTTCTTCGGGACATATGTATATTCTTGGAACTGTGTGAAGTCTGGAAAGACACATACTGAT
1 CGCGGTTCTTCGGGACATATGTATATTCTTGGAACTGTGTGAAGTCTGGAAAGA-ACATACTGAT
* *
2479706 CCCTAGCATATGTATATGTTCTTAAAGAATCTATGTGGTCCTTATGGACATTATTATATGGC-CT
65 CCCTAGCATATGTAGATGTTCTTAAAGAATCTATGTGGTCCTTATGGACATCATTATATGGCACT
2479770 ACGGTGCAATTCTAAG
130 ACGGTGCAATTCTAAG
2479786 CGCGGTTC-T-GGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAG-ACATACTTG
1 CGCGGTTCTTCGGGACATATGTATATTC-TTGGAAC-TGTGTGAAGTCTGGAAAGAACATAC-TG
2479848 ATCCCTAGCATATGTAGATGTTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTATATGGC
63 ATCCCTAGCATATGTAGATGTTCTTAAAGAA-TCTATGTGGTCCTTATGGACATCATTATATGGC
2479913 ACTACGGTGCAATT
127 ACTACGGTGCAATT
2479927 TCTACGGGGC
Statistics
Matches: 134, Mismatches: 2, Indels: 9
0.92 0.01 0.06
Matches are distributed among these distances:
143 23 0.17
144 40 0.30
145 58 0.43
146 13 0.10
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.34
Consensus pattern (145 bp):
CGCGGTTCTTCGGGACATATGTATATTCTTGGAACTGTGTGAAGTCTGGAAAGAACATACTGATC
CCTAGCATATGTAGATGTTCTTAAAGAATCTATGTGGTCCTTATGGACATCATTATATGGCACTA
CGGTGCAATTCTAAG
Found at i:2480740 original size:205 final size:198
Alignment explanation
Indices: 2480337--2480741 Score: 731
Period size: 199 Copynumber: 2.0 Consensus size: 198
2480327 CGAGAAGAGT
2480337 AAGGAGGATGCGGAGCAAAACAGGTCAGTTTTCCTACCAAAAGATCAGATCAAATATTTGACAAA
1 AAGGAGGATGCGGAGCAAAACAGGTCAGTTTTCCTACCAAAAGATCAGATCAAATATTTGACAAA
2480402 GTATGTATTTGGTTATGTAAAGTGTTGGCATGTAATAAGTCATTAAGTACGAGCACTGATAAAGT
66 GTATGTATTTGGTTATGTAAAGTGTTGGCATGTAATAAGTCATTAAGTACGAGCACTGATAAAGT
2480467 CTTTATTTTGATTTAAATAAAGTTTAAATTTCCCGGGATTTTCTTAAGAGTCAAGGTTTTGAAAA
131 CTTTATTTTGATTTAAATAAAGTTTAAATTTCCCGGGATTTTCTTAAGAGTCAAGGTTTTGAAAA
2480532 GTC
196 GTC
2480535 AAGGAGGGATGCGGAGCAAAACAGGTCAGTTTTCCTACCAAAAGATCAGATCATAAATATTTGAC
1 AAGGA-GGATGCGGAGCAAAACAGGTCAGTTTTCCTACCAAAAGATCAGATC--AAATATTTGAC
2480600 AAAGTATGTATTTGGTTATGTATAAAGTGTTGGCATGTAATAAGTCATTAAGTACGAGCACTCTG
63 AAAGTATGTATTTGGTTATG--TAAAGTGTTGGCATGTAATAAGTCATTAAGTACGAGCA--CTG
2480665 ATAAAGTCTTTATTTTGATTTAAATAAAGTTTTAAATTTCCCGGGATTTTCTTAAGAGTCAAGG-
124 ATAAAGTCTTTATTTTGATTTAAATAAAG-TTTAAATTTCCCGGGATTTTCTTAAGAGTCAAGGT
2480729 TTTGAAAAGTC
188 TTTGAAAAGTC
2480740 AA
1 AA
2480742 TGTGACACTT
Statistics
Matches: 199, Mismatches: 0, Indels: 9
0.96 0.00 0.04
Matches are distributed among these distances:
198 5 0.03
199 46 0.23
201 31 0.16
203 38 0.19
205 45 0.23
206 34 0.17
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (198 bp):
AAGGAGGATGCGGAGCAAAACAGGTCAGTTTTCCTACCAAAAGATCAGATCAAATATTTGACAAA
GTATGTATTTGGTTATGTAAAGTGTTGGCATGTAATAAGTCATTAAGTACGAGCACTGATAAAGT
CTTTATTTTGATTTAAATAAAGTTTAAATTTCCCGGGATTTTCTTAAGAGTCAAGGTTTTGAAAA
GTC
Found at i:2483392 original size:21 final size:21
Alignment explanation
Indices: 2483366--2483410 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
2483356 GATTTCTGGG
* *
2483366 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
2483387 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
2483408 CAA
1 CAA
2483411 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:2484009 original size:18 final size:18
Alignment explanation
Indices: 2483986--2484020 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
2483976 CTAGGAGATT
2483986 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
2484004 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
2484021 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:2484106 original size:21 final size:22
Alignment explanation
Indices: 2484077--2484120 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
2484067 GTTGTATGAT
2484077 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
2484098 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
2484120 A
1 A
2484121 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:2484945 original size:147 final size:149
Alignment explanation
Indices: 2484768--2485069 Score: 590
Period size: 147 Copynumber: 2.0 Consensus size: 149
2484758 GAGTCGAGGG
2484768 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
2484833 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACAT-ATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
2484897 TATGGCACTACGGTGCAA-
131 TATGGCACTACGGTGCAAT
2484915 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
2484980 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
2485045 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
2485064 TCTACG
1 TCTACG
2485070 GGGCACTTCG
Statistics
Matches: 153, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
147 125 0.82
148 22 0.14
149 6 0.04
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:2485092 original size:23 final size:23
Alignment explanation
Indices: 2485048--2485092 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
2485038 ATCATTATAT
*
2485048 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
2485071 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
2485093 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:2489716 original size:89 final size:89
Alignment explanation
Indices: 2489613--2489821 Score: 328
Period size: 89 Copynumber: 2.3 Consensus size: 89
2489603 TGTGACATCC
* * * * *
2489613 TTTCATGTCGATAATGCACCATTCTGTATTTCATTTATGATATCCTTTCATGCCGATAATGCACC
1 TTTCATGTCGATAATGCACCATTATGCATTTCATTTATGACATCATTTCATGCCGAAAATGCACC
2489678 GTTATGCATTTCATTTATGGCACA
66 GTTATGCATTTCATTTATGGCACA
* * * *
2489702 TTTCATGTCGATAATGCACCGTTATGCATTTCATTTATGGCATCATTTGATGCTGAAAATGCACC
1 TTTCATGTCGATAATGCACCATTATGCATTTCATTTATGACATCATTTCATGCCGAAAATGCACC
2489767 GTTATGCATTTCATTTATGGCACA
66 GTTATGCATTTCATTTATGGCACA
*
2489791 TTTCATGTCGATAATGCACCGTTATGCATTT
1 TTTCATGTCGATAATGCACCATTATGCATTT
2489822 AGTCTTTTAT
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
89 111 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (89 bp):
TTTCATGTCGATAATGCACCATTATGCATTTCATTTATGACATCATTTCATGCCGAAAATGCACC
GTTATGCATTTCATTTATGGCACA
Found at i:2489721 original size:44 final size:45
Alignment explanation
Indices: 2489596--2489821 Score: 314
Period size: 45 Copynumber: 5.1 Consensus size: 45
2489586 TATAATTTAT
* * * * * *
2489596 TTTCATTTGTGACATCCTTTCATGTCGATAATGCACCATTCTGTA
1 TTTCATTTATGGCATCATTTCATGTCGATAATGCACCGTTATGCA
** * *
2489641 TTTCATTTATGATATCCTTTCATGCCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATGTCGATAATGCACCGTTATGCA
2489686 TTTCATTTATGGCA-CATTTCATGTCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATGTCGATAATGCACCGTTATGCA
* *
2489730 TTTCATTTATGGCATCATTTGATG-CTGAAAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATGTC-GATAATGCACCGTTATGCA
2489775 TTTCATTTATGGCA-CATTTCATGTCGATAATGCACCGTTATGCA
1 TTTCATTTATGGCATCATTTCATGTCGATAATGCACCGTTATGCA
2489819 TTT
1 TTT
2489822 AGTCTTTTAT
Statistics
Matches: 164, Mismatches: 14, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
44 72 0.44
45 92 0.56
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.40
Consensus pattern (45 bp):
TTTCATTTATGGCATCATTTCATGTCGATAATGCACCGTTATGCA
Found at i:2490100 original size:54 final size:54
Alignment explanation
Indices: 2489998--2490101 Score: 120
Period size: 54 Copynumber: 1.9 Consensus size: 54
2489988 TTGCACACGT
** * * * *
2489998 AATGCCAATACGGTAATTCACAACTTATTATGAATTACGTGGATTTGCACGTAC
1 AATGCCAATACGAAAATTCAAAACCTATTATGAATTACGTGAAGTTGCACGTAC
* *
2490052 AATGCCAATACGAAAATTCATAAACCTATTATGAATTTC-TTAAGTTGCAC
1 AATGCCAATACGAAAATTCA-AAACCTATTATGAATTACGTGAAGTTGCAC
2490102 ACACAGTGTC
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
54 26 0.63
55 15 0.37
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (54 bp):
AATGCCAATACGAAAATTCAAAACCTATTATGAATTACGTGAAGTTGCACGTAC
Found at i:2490468 original size:22 final size:22
Alignment explanation
Indices: 2490442--2490503 Score: 106
Period size: 22 Copynumber: 2.8 Consensus size: 22
2490432 TCAGTACCCC
2490442 TACCATGGTATCGATACTTCTA
1 TACCATGGTATCGATACTTCTA
2490464 TACCATGGTATCGATACTTCTA
1 TACCATGGTATCGATACTTCTA
* *
2490486 TACTATGGTATAGATACT
1 TACCATGGTATCGATACT
2490504 CCCTTTCAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (22 bp):
TACCATGGTATCGATACTTCTA
Found at i:2495235 original size:45 final size:45
Alignment explanation
Indices: 2495172--2495354 Score: 267
Period size: 45 Copynumber: 4.1 Consensus size: 45
2495162 TTATAATTAT
*
2495172 TTTCATTTATGGCATCCTTTCATACCGATAATGCACTGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCA
* * *
2495217 TTTTATTTATGGAATCCTTTCATGCCGATAATGCACTGTTATTCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCA
* * *
2495262 TTTCATTTAAGGCATCCTTTCATGCCGATTATGCACCGTTATGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCA
* * * *
2495307 TTTCATTTATGGCATCCTTTAATGCCAATAATGCACAGTTCTGCA
1 TTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCA
2495352 TTT
1 TTT
2495355 AGTCTTTTAT
Statistics
Matches: 122, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.24, C:0.21, G:0.14, T:0.41
Consensus pattern (45 bp):
TTTCATTTATGGCATCCTTTCATGCCGATAATGCACTGTTATGCA
Found at i:2500666 original size:23 final size:25
Alignment explanation
Indices: 2500617--2500666 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
2500607 GAAAACTTAT
2500617 AACATCCAAGGAACTTCTATAAAAAAA
1 AACATCCAAGGAA--TCTATAAAAAAA
2500644 AACATCCAAGGAA-CT-TAAAAAAA
1 AACATCCAAGGAATCTATAAAAAAA
2500667 TGGTACCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
27 13 0.57
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.16
Consensus pattern (25 bp):
AACATCCAAGGAATCTATAAAAAAA
Found at i:2501538 original size:26 final size:26
Alignment explanation
Indices: 2501507--2501577 Score: 106
Period size: 26 Copynumber: 2.7 Consensus size: 26
2501497 GATACAAGAT
2501507 ATTCACATAACATGATAACGAAGGAC
1 ATTCACATAACATGATAACGAAGGAC
* *
2501533 ATTCACATAACACGATAACGAAGGGC
1 ATTCACATAACATGATAACGAAGGAC
* *
2501559 ATTTACGTAACATGATAAC
1 ATTCACATAACATGATAAC
2501578 AAAGTTGACA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.15, T:0.21
Consensus pattern (26 bp):
ATTCACATAACATGATAACGAAGGAC
Found at i:2501682 original size:26 final size:26
Alignment explanation
Indices: 2501651--2501725 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
2501641 GATACAAGAT
*
2501651 ATTCACATAACATGATAACGAAGGAC
1 ATTCACATAACATGATAACAAAGGAC
*
2501677 ATTCACATAACACGATAACAAAGGAC
1 ATTCACATAACATGATAACAAAGGAC
* *
2501703 ATTTACGTAACATGATAACAAAG
1 ATTCACATAACATGATAACAAAG
2501726 TTGACATCAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.20
Consensus pattern (26 bp):
ATTCACATAACATGATAACAAAGGAC
Found at i:2501737 original size:144 final size:144
Alignment explanation
Indices: 2501477--2501764 Score: 549
Period size: 144 Copynumber: 2.0 Consensus size: 144
2501467 AAACTTGACA
2501477 TAGTTATTCATTCTGGTAATGATACAAGATATTCACATAACATGATAACGAAGGACATTCACATA
1 TAGTTATTCATTCTGGTAATGATACAAGATATTCACATAACATGATAACGAAGGACATTCACATA
* *
2501542 ACACGATAACGAAGGGCATTTACGTAACATGATAACAAAGTTGACATCATACTTACATATTGGTA
66 ACACGATAACAAAGGACATTTACGTAACATGATAACAAAGTTGACATCATACTTACATATTGGTA
2501607 CATTTCCTAGAAGG
131 CATTTCCTAGAAGG
*
2501621 TAGTTATTCATTCTGGTTATGATACAAGATATTCACATAACATGATAACGAAGGACATTCACATA
1 TAGTTATTCATTCTGGTAATGATACAAGATATTCACATAACATGATAACGAAGGACATTCACATA
2501686 ACACGATAACAAAGGACATTTACGTAACATGATAACAAAGTTGACATCATACTTACATATTGGTA
66 ACACGATAACAAAGGACATTTACGTAACATGATAACAAAGTTGACATCATACTTACATATTGGTA
2501751 CATTTCCTAGAAGG
131 CATTTCCTAGAAGG
2501765 GCTAACTAAT
Statistics
Matches: 141, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 141 1.00
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (144 bp):
TAGTTATTCATTCTGGTAATGATACAAGATATTCACATAACATGATAACGAAGGACATTCACATA
ACACGATAACAAAGGACATTTACGTAACATGATAACAAAGTTGACATCATACTTACATATTGGTA
CATTTCCTAGAAGG
Found at i:2504173 original size:197 final size:197
Alignment explanation
Indices: 2503791--2504184 Score: 763
Period size: 197 Copynumber: 2.0 Consensus size: 197
2503781 CTTGTACACC
2503791 TAACACATAACCATACTTCTGATCTTAAGTAATGCACGTATAGGACCACAAAATTATTTTTGATT
1 TAACACATAACCATACTTCTGATCTTAAGTAATGCACGTATAGGACCACAAAATTATTTTTGATT
*
2503856 GCCACAGGTAAAATCAGCTTTAATATTTTGCATTCTCTGAGAAAAGAGGGAAAAGCAAGATAATA
66 GCCACAGGTAAAATCAGCTTTAATATTTTGCATTCTCTGAGAAAAGAGAGAAAAGCAAGATAATA
2503921 GTACTATATAGATGAATAATATGGAACAACAACAAATAAGAAATCCATGAAGCAGCAACTGGAAA
131 GTACTATATAGATGAATAATATGGAACAACAACAAATAAGAAATCCATGAAGCAGCAACTGGAAA
2503986 AA
196 AA
2503988 TAACACATAACCATACTTCTGATCTTAAGTAATGCACGTATAGGACCACAAAATTATTTTTGATT
1 TAACACATAACCATACTTCTGATCTTAAGTAATGCACGTATAGGACCACAAAATTATTTTTGATT
2504053 GCCACAGGTAAAATCAGCTTTAATATTTTGCATTCTCTGAGAAAA-AGAGAAAAGCAAGATAATA
66 GCCACAGGTAAAATCAGCTTTAATATTTTGCATTCTCTGAGAAAAGAGAGAAAAGCAAGATAATA
2504117 GTACTATATAGATGAATAATATGGAACAACAACAAATAAGAAATCCATGAAAGCAGCAACTGGAA
131 GTACTATATAGATGAATAATATGGAACAACAACAAATAAGAAATCCATG-AAGCAGCAACTGGAA
2504182 AAA
195 AAA
2504185 ACTGAGAGTT
Statistics
Matches: 195, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
196 67 0.34
197 128 0.66
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (197 bp):
TAACACATAACCATACTTCTGATCTTAAGTAATGCACGTATAGGACCACAAAATTATTTTTGATT
GCCACAGGTAAAATCAGCTTTAATATTTTGCATTCTCTGAGAAAAGAGAGAAAAGCAAGATAATA
GTACTATATAGATGAATAATATGGAACAACAACAAATAAGAAATCCATGAAGCAGCAACTGGAAA
AA
Found at i:2508694 original size:39 final size:39
Alignment explanation
Indices: 2508640--2508717 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
2508630 ATCACAGTTG
2508640 ACCGGCATGAGTTTTCTATGATGTAATAATGCCCTTTGA
1 ACCGGCATGAGTTTTCTATGATGTAATAATGCCCTTTGA
*
2508679 ACCGGCATGAGTTTTCTATGATGTAATGATGCCCTTTGA
1 ACCGGCATGAGTTTTCTATGATGTAATAATGCCCTTTGA
2508718 CTTGTTTTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (39 bp):
ACCGGCATGAGTTTTCTATGATGTAATAATGCCCTTTGA
Found at i:2512502 original size:19 final size:19
Alignment explanation
Indices: 2512475--2512517 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
2512465 TTGTTAAGTG
*
2512475 TTCACTATTTGATGTTTGA
1 TTCAATATTTGATGTTTGA
2512494 TTCAATATTTGATGTTTGA
1 TTCAATATTTGATGTTTGA
2512513 TTCAA
1 TTCAA
2512518 GTTTAATAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (19 bp):
TTCAATATTTGATGTTTGA
Found at i:2513872 original size:111 final size:111
Alignment explanation
Indices: 2513636--2513851 Score: 247
Period size: 111 Copynumber: 2.0 Consensus size: 111
2513626 TCCATGCCAT
** * ** *
2513636 AATGTACTTGATTGTTACTTTTAATACACAACTCTTTGCTTCCGGAATAACTTAAATGTTTATAA
1 AATGTACTAAATTGTTACTTTTAATACACAACTCTTTGATTCCAAAATAAATTAAATGTTTATAA
* *
2513701 CAAAATGCACGATTTTCCTCTGGCAACATAAAACAATTTCAGAAAG
66 CAAAATGCACGATTTTCCTCTAGCAACATAAAACAATTTCAGAAAC
** ** **
2513747 AATGTACTTGATTGTTACTTTTAA-AGCATTACTCTTTGATTCCAAAATAAATTATTTGTTTATA
1 AATGTACTAAATTGTTACTTTTAATA-CACAACTCTTTGATTCCAAAATAAATTAAATGTTTATA
* * * *
2513811 ACAAAATGTATGA-TTTCCTCTAGCAATATAAATCAATTTCA
65 ACAAAATGCACGATTTTCCTCTAGCAACATAAAACAATTTCA
2513852 TCAACAATAG
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
110 26 0.29
111 65 0.71
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (111 bp):
AATGTACTAAATTGTTACTTTTAATACACAACTCTTTGATTCCAAAATAAATTAAATGTTTATAA
CAAAATGCACGATTTTCCTCTAGCAACATAAAACAATTTCAGAAAC
Found at i:2516969 original size:16 final size:16
Alignment explanation
Indices: 2516948--2516978 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2516938 GCTTCTAAAT
2516948 TTTTTTTTAGTTCAAA
1 TTTTTTTTAGTTCAAA
2516964 TTTTTTTTAGTTCAA
1 TTTTTTTTAGTTCAA
2516979 GTTTCAATAT
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:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTTTTTAGTTCAAA
Found at i:2518919 original size:15 final size:15
Alignment explanation
Indices: 2518899--2518936 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
2518889 AAATAGTTAT
*
2518899 TATATTTTATATTAA
1 TATATTTTATATAAA
2518914 TATA-TTTATATAAA
1 TATATTTTATATAAA
2518928 TATTATTTT
1 TA-TATTTT
2518937 TTTTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 11 0.55
15 6 0.30
16 3 0.15
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATATTTTATATAAA
Found at i:2518934 original size:35 final size:35
Alignment explanation
Indices: 2518888--2518974 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
2518878 AGTATTTTTT
2518888 TAAATAGTTATTATATTTTATATT-AAT-ATATTTATA
1 TAAATA-TTATT-TATTTT-TATTAAATAATATTTATA
2518924 TAAATATTATTT-TTTTTATTAAAATAATATTTATA
1 TAAATATTATTTATTTTTATT-AAATAATATTTATA
* *
2518959 TGATTATTATTTATTT
1 TAAATATTATTTATTT
2518975 AGAATTATTA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
32 4 0.09
33 4 0.09
34 4 0.09
35 24 0.53
36 9 0.20
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (35 bp):
TAAATATTATTTATTTTTATTAAATAATATTTATA
Found at i:2519137 original size:17 final size:17
Alignment explanation
Indices: 2519115--2519168 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
2519105 AATGTTAATA
2519115 TTTAAATTTATTTTTAT
1 TTTAAATTTATTTTTAT
* * * *
2519132 TTTAAAGTTATTATGAA
1 TTTAAATTTATTTTTAT
* *
2519149 TTTATATTAATTTTTAT
1 TTTAAATTTATTTTTAT
2519166 TTT
1 TTT
2519169 TTATAATGTA
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (17 bp):
TTTAAATTTATTTTTAT
Found at i:2520731 original size:21 final size:21
Alignment explanation
Indices: 2520701--2520748 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
2520691 GCAGGGGTAC
* *
2520701 ATGCCCAGCCCTCCACTTCAT
1 ATGCCAAGCCCACCACTTCAT
* *
2520722 ATGCCAAGCCCACCAGTTTAT
1 ATGCCAAGCCCACCACTTCAT
2520743 ATGCCA
1 ATGCCA
2520749 TCTCCGCAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.40, G:0.12, T:0.23
Consensus pattern (21 bp):
ATGCCAAGCCCACCACTTCAT
Found at i:2520778 original size:21 final size:21
Alignment explanation
Indices: 2520752--2520845 Score: 136
Period size: 21 Copynumber: 4.5 Consensus size: 21
2520742 TATGCCATCT
2520752 CCGCAGGGTTACATTCCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
2520773 CCGCAGGGTTACATTTCGAGC
1 CCGCAGGGTTACATTCCGAGC
*
2520794 CCGCAGGGTTACATTCCTAGC
1 CCGCAGGGTTACATTCCGAGC
* *
2520815 CCGCCA-GGTTACATGCCTAGC
1 CCG-CAGGGTTACATTCCGAGC
2520836 CCGCAGGGTT
1 CCGCAGGGTT
2520846 TTATACCATA
Statistics
Matches: 67, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.28, T:0.21
Consensus pattern (21 bp):
CCGCAGGGTTACATTCCGAGC
Found at i:2521470 original size:34 final size:34
Alignment explanation
Indices: 2521365--2521471 Score: 160
Period size: 34 Copynumber: 3.1 Consensus size: 34
2521355 ATAAATGTTT
*
2521365 TTAAAATACAAATTATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* *
2521399 TAAAAATAAAAATAATATTATTCGAAATTTAAAA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
* * *
2521433 TTAAAATATAAATTATAGTATTCGAAATTTAACA
1 TTAAAATAAAAATTATATTATTCGAAATTTAAAA
2521467 TTAAA
1 TTAAA
2521472 TTTCAACTTA
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 65 1.00
ACGTcount: A:0.55, C:0.05, G:0.04, T:0.36
Consensus pattern (34 bp):
TTAAAATAAAAATTATATTATTCGAAATTTAAAA
Found at i:2523117 original size:128 final size:128
Alignment explanation
Indices: 2522887--2523387 Score: 903
Period size: 128 Copynumber: 3.9 Consensus size: 128
2522877 TTACCTGATT
* *
2522887 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGTGCAATGATAACATATTCAC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
2522952 TGACAAAATAATGGAAGGCGCACCCCCGGGAATGCGCCTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
2523015 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
2523080 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTAAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
*
2523143 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGATATAATAGGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
* *
2523208 TGACAAAATAATGGAAGGCGTGCCCCCGGGAACGCGCTTTCATGTGAATAGTGAAATAATAGG
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
* *
2523271 TACTGATATATCTAGTGTCCCCGAGTGACATGAGTGACATAATAAGGCAATGATAACATATTCTC
1 TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
*
2523336 TGACAAAATAATGGAAGGCGCGCCCCCAGGAACGCGCCTTCATGTGAATAGT
66 TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGT
2523388 ACTCCGATTA
Statistics
Matches: 358, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
128 358 1.00
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (128 bp):
TACTGATATATCTAGTGTCCCCGAGGGACATGAGTGACATAATAGGGCAATGATAACATATTCTC
TGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCATGTGAATAGTGAAATAATAGG
Found at i:2523471 original size:8 final size:8
Alignment explanation
Indices: 2523458--2523498 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
2523448 TCACAAGCTT
2523458 TCAAATTC
1 TCAAATTC
2523466 TCAAATTC
1 TCAAATTC
* *
2523474 CCAAACTC
1 TCAAATTC
2523482 T-AAATTC
1 TCAAATTC
2523489 TCAAATTC
1 TCAAATTC
2523497 TC
1 TC
2523499 TGAAAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.37, C:0.29, G:0.00, T:0.34
Consensus pattern (8 bp):
TCAAATTC
Done.