Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 36 of 38
Found at i:7212770 original size:43 final size:43
Alignment explanation
Indices: 7212721--7212820 Score: 137
Period size: 43 Copynumber: 2.3 Consensus size: 43
7212711 TATCACCAAA
**
7212721 TATTGCGGCGTTTGGTGCAAAAAATGCCACTAAATATTATACC
1 TATTGCGGCGTTTGGTGCAAAAAACACCACTAAATATTATACC
* * * *
7212764 TATTGCGGCATTTGGTGCGAAAAACACCATTAAATATTGTACC
1 TATTGCGGCGTTTGGTGCAAAAAACACCACTAAATATTATACC
*
7212807 TATTGCAGCGTTTG
1 TATTGCGGCGTTTG
7212821 TAAAAAAAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (43 bp):
TATTGCGGCGTTTGGTGCAAAAAACACCACTAAATATTATACC
Found at i:7214115 original size:41 final size:40
Alignment explanation
Indices: 7214071--7214290 Score: 214
Period size: 41 Copynumber: 5.4 Consensus size: 40
7214061 GTTTATACAA
* *
7214071 AAAAAATGCCACTATTGATTACACTATTGTGGCATTTGTT
1 AAAAAACGCCACTATTGATTACACTATTGCGGCATTTGTT
*
7214111 AAAAAACGCCACTATTGATTAACACTATTGCGACATTT-TT
1 AAAAAACGCCACTATTGATT-ACACTATTGCGGCATTTGTT
* * *
7214151 CTAAAAACGCCAGTATTGATTAACTCTATTGCGGCATTTTGTCT
1 -AAAAAACGCCACTATTGATT-ACACTATTGCGGCA-TTTGT-T
* *
7214195 -AAAAACGCCACTATTGAGTAACACTATTGCGGCGTTTGTCT
1 AAAAAACGCCACTATTGA-TTACACTATTGCGGCATTTGT-T
* * * **
7214236 -AAAAACACAACTATTGATTATCACTATTGCAGCATTTGAGG
1 AAAAAACGCCACTATTGATTA-CACTATTGCGGCATTTG-TT
7214277 AAAAAA-GCCACTAT
1 AAAAAACGCCACTAT
7214291 ATGTGTAATC
Statistics
Matches: 151, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
40 23 0.15
41 89 0.59
42 36 0.24
43 2 0.01
44 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.32
Consensus pattern (40 bp):
AAAAAACGCCACTATTGATTACACTATTGCGGCATTTGTT
Found at i:7214199 original size:83 final size:83
Alignment explanation
Indices: 7214072--7214272 Score: 264
Period size: 83 Copynumber: 2.4 Consensus size: 83
7214062 TTTATACAAA
* * *
7214072 AAAAATGCCACTATTGATT-ACACTATTGTGGCA-TTTGTTAAAAAACGCCACTATTGATTAACA
1 AAAAACGCCACTATTGATTAACACTATTGCGGCATTTTGTTAAAAAACGCCACTATTGAGTAACA
*
7214135 CTATTGCGACATTTTTCT
66 CTATTGCGACATTTGTCT
* *
7214153 AAAAACGCCAGTATTGATTAACTCTATTGCGGCATTTTGTCT-AAAAACGCCACTATTGAGTAAC
1 AAAAACGCCACTATTGATTAACACTATTGCGGCATTTTGT-TAAAAAACGCCACTATTGAGTAAC
* *
7214217 ACTATTGCGGCGTTTGTCT
65 ACTATTGCGACATTTGTCT
* * * *
7214236 AAAAACACAACTATTGATTATCACTATTGCAGCATTT
1 AAAAACGCCACTATTGATTAACACTATTGCGGCATTT
7214273 GAGGAAAAAA
Statistics
Matches: 103, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 17 0.17
82 12 0.12
83 73 0.71
84 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (83 bp):
AAAAACGCCACTATTGATTAACACTATTGCGGCATTTTGTTAAAAAACGCCACTATTGAGTAACA
CTATTGCGACATTTGTCT
Found at i:7214282 original size:83 final size:81
Alignment explanation
Indices: 7214081--7214315 Score: 258
Period size: 83 Copynumber: 2.9 Consensus size: 81
7214071 AAAAAATGCC
* * * * *
7214081 ACTATTGATTACACTATTGTGGCATTTGTTAAAAAACGCCACTATTGATTAACACTATTGCGACA
1 ACTATTGATTACACTATTGCGGCATTTGTCAAAAAACGCCACTATTGAGTAACACTATTGCGGCG
* * *
7214146 TTTTTCTAAAAACGCC
66 TTTGTCTAAAAACACA
* * *
7214162 AGTATTGATTAACTCTATTGCGGCATTTTGTCTAAAAACGCCACTATTGAGTAACACTATTGCGG
1 ACTATTGATT-ACACTATTGCGGCA-TTTGTCAAAAAACGCCACTATTGAGTAACACTATTGCGG
7214227 CGTTTGTCTAAAAACACA
64 CGTTTGTCTAAAAACACA
* ** * * *
7214245 ACTATTGATTATCACTATTGCAGCATTTGAGGAAAAAA-GCCACTATATGTGTAA-TCTATTGTG
1 ACTATTGATTA-CACTATTGCGGCATTTG-TCAAAAAACGCCACTAT-TGAGTAACACTATTGCG
7214308 GCGTTTGT
63 GCGTTTGT
7214316 GGTATAAAAG
Statistics
Matches: 129, Mismatches: 20, Indels: 9
0.82 0.13 0.06
Matches are distributed among these distances:
81 9 0.07
82 40 0.31
83 80 0.62
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (81 bp):
ACTATTGATTACACTATTGCGGCATTTGTCAAAAAACGCCACTATTGAGTAACACTATTGCGGCG
TTTGTCTAAAAACACA
Found at i:7214785 original size:43 final size:43
Alignment explanation
Indices: 7214737--7214824 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 43
7214727 TTCGACCTTC
* * *
7214737 CTCTTCACCGACCTCAACATCCGGCTATGAGATCTCCATAATT
1 CTCTTCACCGACCTCAACATCAGGCTATCAGATCACCATAATT
*
7214780 CTCTTCACCGACCTCAACATCAGGCTGTCAGATCACCATAATT
1 CTCTTCACCGACCTCAACATCAGGCTATCAGATCACCATAATT
7214823 CT
1 CT
7214825 GAGATATATT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.26, C:0.35, G:0.11, T:0.27
Consensus pattern (43 bp):
CTCTTCACCGACCTCAACATCAGGCTATCAGATCACCATAATT
Found at i:7215971 original size:60 final size:61
Alignment explanation
Indices: 7215828--7215971 Score: 211
Period size: 60 Copynumber: 2.4 Consensus size: 61
7215818 TCGGGTGACC
* *
7215828 ATTTTGTAACTTTTAATAGTCAA-AGGACTCAACAAAACAACACTCTATAGTCAGAGGACT
1 ATTTTGTAACTTTTAATAGTCAAGAGGACTCAACAAAACAACACTCTATAATCAGAAGACT
** * *
7215888 ATTTTGTAACTTTTAATAGTCAAGA-GACTCAACAAAGTAACACTCTATAATTAGAAGATT
1 ATTTTGTAACTTTTAATAGTCAAGAGGACTCAACAAAACAACACTCTATAATCAGAAGACT
*
7215948 TTTTTGTAACTTTTAATAGTCAAG
1 ATTTTGTAACTTTTAATAGTCAAG
7215972 GAATTTAATA
Statistics
Matches: 76, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
60 75 0.99
61 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (61 bp):
ATTTTGTAACTTTTAATAGTCAAGAGGACTCAACAAAACAACACTCTATAATCAGAAGACT
Found at i:7217022 original size:31 final size:31
Alignment explanation
Indices: 7216984--7217051 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 31
7216974 ACACACTCCT
*
7216984 AAAGACTAGCTACTCTAATTTGAGTTCTCAA
1 AAAGACTAGCTACTCGAATTTGAGTTCTCAA
7217015 AAAG---A-CTACTCGAATTTGAGTTCTCAA
1 AAAGACTAGCTACTCGAATTTGAGTTCTCAA
7217042 AAAGACTAGC
1 AAAGACTAGC
7217052 ACTTTTTTTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
27 25 0.78
28 1 0.03
30 1 0.03
31 5 0.16
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (31 bp):
AAAGACTAGCTACTCGAATTTGAGTTCTCAA
Found at i:7217031 original size:27 final size:27
Alignment explanation
Indices: 7216993--7217049 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
7216983 TAAAGACTAG
*
7216993 CTACTCTAATTTGAGTTCTCAAAAAGA
1 CTACTCGAATTTGAGTTCTCAAAAAGA
7217020 CTACTCGAATTTGAGTTCTCAAAAAGA
1 CTACTCGAATTTGAGTTCTCAAAAAGA
7217047 CTA
1 CTA
7217050 GCACTTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (27 bp):
CTACTCGAATTTGAGTTCTCAAAAAGA
Found at i:7225179 original size:28 final size:28
Alignment explanation
Indices: 7225139--7225203 Score: 121
Period size: 28 Copynumber: 2.3 Consensus size: 28
7225129 CCACCAACTT
7225139 GATTAAGAAATATGAAGTGTTAGAATCA
1 GATTAAGAAATATGAAGTGTTAGAATCA
7225167 GATTAAGAAATATGAAGTGTTAGAATCA
1 GATTAAGAAATATGAAGTGTTAGAATCA
*
7225195 GATTTAGAA
1 GATTAAGAA
7225204 CATGTGGGAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.46, C:0.03, G:0.22, T:0.29
Consensus pattern (28 bp):
GATTAAGAAATATGAAGTGTTAGAATCA
Found at i:7226150 original size:20 final size:20
Alignment explanation
Indices: 7226105--7226162 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
7226095 CGAGGGATTT
*
7226105 TCAGTGGTCCTTCGGGAC-A
1 TCAGTGGTTCTTCGGGACAA
*
7226124 T-AGTGGTTCTTCGGAACAA
1 TCAGTGGTTCTTCGGGACAA
7226143 TCAGTGGTTCTTCGGGACAA
1 TCAGTGGTTCTTCGGGACAA
7226163 ATATTCAGTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 14 0.41
19 3 0.09
20 17 0.50
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (20 bp):
TCAGTGGTTCTTCGGGACAA
Found at i:7232714 original size:20 final size:18
Alignment explanation
Indices: 7232662--7232715 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
7232652 TCGAGGGATT
7232662 ATCAGTGGTTCTTCAGGAC
1 ATCAGTGGTTCTTC-GGAC
*
7232681 AT-AGTGGTTATTCGGAAC
1 ATCAGTGGTTCTTCGG-AC
*
7232699 AATCAGTGGTCCTTCGG
1 -ATCAGTGGTTCTTCGG
7232716 GATAAATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.07
18 12 0.41
19 4 0.14
20 11 0.38
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (18 bp):
ATCAGTGGTTCTTCGGAC
Found at i:7235766 original size:11 final size:11
Alignment explanation
Indices: 7235728--7235768 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
7235718 TTTATATGCT
*
7235728 TTATTTTTTCA
1 TTATTTATTCA
7235739 TTA-TTATT-A
1 TTATTTATTCA
7235748 TTATTTTATTCA
1 TTA-TTTATTCA
7235760 TTATTTATT
1 TTATTTATT
7235769 TATTTCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.15
10 4 0.15
11 14 0.54
12 4 0.15
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTATTCA
Found at i:7235902 original size:4 final size:4
Alignment explanation
Indices: 7235893--7235919 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
7235883 TCTATACTAC
7235893 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
7235920 GAGAATTAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:7239575 original size:22 final size:22
Alignment explanation
Indices: 7239547--7239597 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7239537 ACACTTTTCG
7239547 AAGATGATAGATTCTCTCTTCA
1 AAGATGATAGATTCTCTCTTCA
*
7239569 AAGATGATAGATTCTCTTTTCA
1 AAGATGATAGATTCTCTCTTCA
7239591 AAGATGA
1 AAGATGA
7239598 AAGCTTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (22 bp):
AAGATGATAGATTCTCTCTTCA
Found at i:7240287 original size:45 final size:45
Alignment explanation
Indices: 7240230--7240479 Score: 349
Period size: 45 Copynumber: 5.5 Consensus size: 45
7240220 GGGAGCTTTT
* *
7240230 TGATG-TTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTTAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* ** * *
7240274 TGATGTTTTCAAAGCCTTCAGGTCATCCATAAGACCTGCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
7240319 GGATGTTTTCAAGAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTC-A-AAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
7240366 TGATATTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* * *
7240411 TGATGTTTTCAAAGCCTTTGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
7240456 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
7240480 AGCTTTTTGA
Statistics
Matches: 181, Mismatches: 20, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
44 5 0.03
45 126 0.70
46 2 0.01
47 48 0.27
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7240408 original size:92 final size:90
Alignment explanation
Indices: 7240231--7240479 Score: 356
Period size: 92 Copynumber: 2.7 Consensus size: 90
7240221 GGAGCTTTTT
* *
7240231 GATG-TTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCAG
1 GATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGG
7240295 GTCATCCATAAGACCTGCAGTGCAG
66 GTCATCCATAAGACCTGCAGTGCAG
* *
7240320 GATGTTTTCAAGAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAGCCTTC
1 GATGTTTTC-A-AAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTC
** * * *
7240385 GGGTCATCTGTAAGCCCTTCAGTGCAT
64 GGGTCATCCATAAGACCTGCAGTGCAG
* *
7240412 GATGTTTTCAAAGCCTTTGGGTCATCTGTAAGACCTACAGTGCATGATGTTTTCAAAAAGCCTTC
1 GATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTC
7240477 GGG
64 GGG
7240480 AGCTTTTTGA
Statistics
Matches: 142, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
89 4 0.03
90 44 0.31
91 2 0.01
92 92 0.65
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.32
Consensus pattern (90 bp):
GATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGG
GTCATCCATAAGACCTGCAGTGCAG
Found at i:7240546 original size:45 final size:45
Alignment explanation
Indices: 7240487--7240602 Score: 214
Period size: 45 Copynumber: 2.6 Consensus size: 45
7240477 GGGAGCTTTT
* *
7240487 TGATCTTTTTAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
7240532 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
7240577 TGATGTTTTCAAAACCTTCGGGTCAT
1 TGATGTTTTCAAAACCTTCGGGTCAT
7240603 TCATATGACC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
45 69 1.00
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7242148 original size:25 final size:27
Alignment explanation
Indices: 7242089--7242152 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 27
7242079 ATACTATAGT
7242089 TTTAATT-TTATTTATTTTAGTCACTG
1 TTTAATTATTATTTATTTTAGTCACTG
*
7242115 TTTAGTTATTATTTAATTTTA-T-A-TG
1 TTTAATTATTATTT-ATTTTAGTCACTG
7242140 TTTAATTATTATT
1 TTTAATTATTATT
7242153 AGTATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 14 0.41
26 7 0.21
27 7 0.21
28 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTAATTATTATTTATTTTAGTCACTG
Found at i:7242331 original size:25 final size:27
Alignment explanation
Indices: 7242272--7242335 Score: 82
Period size: 25 Copynumber: 2.5 Consensus size: 27
7242262 ATACTATAGT
7242272 TTTAATT-TTATTTATTTTAGTCACTG
1 TTTAATTATTATTTATTTTAGTCACTG
*
7242298 TTTAGTTATTATTTAATTTTA-T-A-TG
1 TTTAATTATTATTT-ATTTTAGTCACTG
7242323 TTTAATTATTATT
1 TTTAATTATTATT
7242336 AGTATTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 14 0.41
26 7 0.21
27 7 0.21
28 6 0.18
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (27 bp):
TTTAATTATTATTTATTTTAGTCACTG
Found at i:7242335 original size:3 final size:3
Alignment explanation
Indices: 7242327--7242396 Score: 61
Period size: 3 Copynumber: 23.0 Consensus size: 3
7242317 TATATGTTTA
* * * *
7242327 ATT ATT ATT AGT ATT ATT ATT AGT ATT ATT ATT ATTT AGTC A-T ATA
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT A-TT ATT ATT
* *
7242373 ATT TTT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT
7242397 TAGTCATATA
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
2 1 0.02
3 46 0.88
4 5 0.10
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:7242342 original size:12 final size:12
Alignment explanation
Indices: 7242327--7242394 Score: 72
Period size: 12 Copynumber: 5.8 Consensus size: 12
7242317 TATATGTTTA
7242327 ATTATTATTAGT
1 ATTATTATTAGT
7242339 ATTATTATTAGT
1 ATTATTATTAGT
7242351 ATTATTATTA-T
1 ATTATTATTAGT
*
7242362 -TTAGTCA-TA-T
1 ATTA-TTATTAGT
*
7242372 AATTTTTATTAGT
1 -ATTATTATTAGT
7242385 ATTATTATTA
1 ATTATTATTA
7242395 TTTAGTCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
10 6 0.13
11 5 0.11
12 35 0.74
13 1 0.02
ACGTcount: A:0.34, C:0.01, G:0.06, T:0.59
Consensus pattern (12 bp):
ATTATTATTAGT
Found at i:7242384 original size:34 final size:34
Alignment explanation
Indices: 7242343--7242407 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
7242333 ATTAGTATTA
7242343 TTATTAGTATTATTATTATTTAGTCATATAATTT
1 TTATTAGTATTATTATTATTTAGTCATATAATTT
7242377 TTATTAGTATTATTATTATTTAGTCATATAA
1 TTATTAGTATTATTATTATTTAGTCATATAA
7242408 ATATATATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (34 bp):
TTATTAGTATTATTATTATTTAGTCATATAATTT
Found at i:7242447 original size:18 final size:18
Alignment explanation
Indices: 7242422--7242468 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
7242412 ATATAATAAA
7242422 TTTT-ATATTAATCATA-T
1 TTTTAATATTAAT-ATATT
* *
7242439 TTTTAATATTTATTTATT
1 TTTTAATATTAATATATT
7242457 TTTTAATATTAA
1 TTTTAATATTAA
7242469 AGAAAATGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTAATATTAATATATT
Found at i:7248430 original size:9 final size:9
Alignment explanation
Indices: 7248416--7248454 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
7248406 ATTATACAGT
7248416 AAAAAAAGG
1 AAAAAAAGG
7248425 -AAAAAA-G
1 AAAAAAAGG
7248432 -AAAAAAGG
1 AAAAAAAGG
7248440 AAAAAAAGG
1 AAAAAAAGG
7248449 AAAAAA
1 AAAAAA
7248455 TTGAACCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 7 0.25
9 14 0.50
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAAGG
Found at i:7248434 original size:7 final size:8
Alignment explanation
Indices: 7248417--7248454 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
7248407 TTATACAGTA
7248417 AAAAAAGG
1 AAAAAAGG
7248425 AAAAAA-G
1 AAAAAAGG
7248432 AAAAAAGG
1 AAAAAAGG
7248440 AAAAAAAGG
1 -AAAAAAGG
7248449 AAAAAA
1 AAAAAA
7248455 TTGAACCAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
7 7 0.25
8 13 0.46
9 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:7248452 original size:15 final size:15
Alignment explanation
Indices: 7248417--7248445 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
7248407 TTATACAGTA
7248417 AAAAAAGGAAAAAAG
1 AAAAAAGGAAAAAAG
7248432 AAAAAAGGAAAAAA
1 AAAAAAGGAAAAAA
7248446 AGGAAAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGGAAAAAAG
Found at i:7248994 original size:32 final size:32
Alignment explanation
Indices: 7248943--7249003 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
7248933 TGGAAATAAG
*
7248943 AAGTATCTCTACAAGATGAGCATAACAACGAA
1 AAGTATCTATACAAGATGAGCATAACAACGAA
* *
7248975 AAGTATCTATACCATATGAGCATAACAAC
1 AAGTATCTATACAAGATGAGCATAACAAC
7249004 CATTTCTTCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.46, C:0.20, G:0.13, T:0.21
Consensus pattern (32 bp):
AAGTATCTATACAAGATGAGCATAACAACGAA
Found at i:7252922 original size:54 final size:54
Alignment explanation
Indices: 7252851--7253006 Score: 195
Period size: 54 Copynumber: 2.9 Consensus size: 54
7252841 AGAAAGCTGT
* *
7252851 GCAGAAGCCACATGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATATGG
1 GCAGAAGCCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATATGA
* * * * * *
7252905 GCAGAAGCCATAGGAAAGAATGAATATTTTGTCAAATGTTTTACGAACATCTGA
1 GCAGAAGCCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATATGA
** * * *
7252959 GCAGAAATCACATGAGATGATGAATGCGTTGTCAAATGTTTTACGAAC
1 GCAGAAGCCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGAAC
7253007 CAGTAATTAT
Statistics
Matches: 84, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 84 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (54 bp):
GCAGAAGCCACATGAAAGGATGAATGTGTTGTCAAATGTTTTACGAACATATGA
Found at i:7253405 original size:22 final size:22
Alignment explanation
Indices: 7253374--7253424 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
7253364 ATACTTTTCG
7253374 AAGATGATAGATTCTCTCTTCA
1 AAGATGATAGATTCTCTCTTCA
* *
7253396 AATATGATAGATTCTCTTTTCA
1 AAGATGATAGATTCTCTCTTCA
7253418 AAGATGA
1 AAGATGA
7253425 AAGCTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (22 bp):
AAGATGATAGATTCTCTCTTCA
Found at i:7254023 original size:45 final size:45
Alignment explanation
Indices: 7253959--7254091 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
7253949 CTATTTCCCA
* **
7253959 CATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAAAGCCTTTGGGT
1 CATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAAAACCTTCAGGT
*
7254004 CATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAGGT
1 CATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAAAACCTTCAGGT
** * * * *
7254049 CATCCATAAGACCTGCAGTACAGGATGTTTTCAAGAAGCCTTC
1 CATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAA-AA-CCTTC
7254092 GAGAGTTTTT
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
45 69 0.91
46 2 0.03
47 5 0.07
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.31
Consensus pattern (45 bp):
CATCTGTAAGCCCTTCAGTGCAAGATGTTTTCAAAACCTTCAGGT
Found at i:7254159 original size:45 final size:46
Alignment explanation
Indices: 7254102--7254212 Score: 138
Period size: 45 Copynumber: 2.4 Consensus size: 46
7254092 GAGAGTTTTT
** * *
7254102 TGATG-TTTCAAAGCCTTCGA-GTCATCTGTAAGCCCTTTAGTGCA
1 TGATGTTTTCAAAGCCTTCGAGGTCATCCATAAGACCTATAGTGCA
7254146 TGATGTTTTCAAAGCCTTC-AGGTCATCCATAAGACCTATAGTGCA
1 TGATGTTTTCAAAGCCTTCGAGGTCATCCATAAGACCTATAGTGCA
*
7254191 GGATGTTTTCAAGAAGCCTTCG
1 TGATGTTTTC-A-AAGCCTTCG
7254213 GGAGCTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
44 6 0.11
45 42 0.74
46 1 0.02
47 8 0.14
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (46 bp):
TGATGTTTTCAAAGCCTTCGAGGTCATCCATAAGACCTATAGTGCA
Found at i:7254200 original size:120 final size:119
Alignment explanation
Indices: 7253982--7254330 Score: 513
Period size: 120 Copynumber: 2.9 Consensus size: 119
7253972 TTCAGTGCAA
* *
7253982 GATGTTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAACCTTCAG
1 GATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAG
* * *
7254047 GTCATCCATAAGACCTGCAGTACAGGATGTTTTCAAGAAGCCTTCGAGAGTTTTTT
65 GTCATCCATAAGACCT-TAGTGCAGGATGTTTTCAAGAAGCCTTCGAGAGCTTTTT
* *
7254103 GATGTTTCAAAGCCTTCGAGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCAGG
1 GATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGG
*
7254168 TCATCCATAAGACCTATAGTGCAGGATGTTTTCAAGAAGCCTTCGGGAGCTTTTT
66 TCATCCATAAGACCT-TAGTGCAGGATGTTTTCAAGAAGCCTTCGAGAGCTTTTT
* **
7254223 GATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATATTTTCAAAGCCTTTGGG
1 GATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGG
** * *
7254288 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-A-AAGCCTTCG
66 TCATCCATAAGACCTT-AGTGCAGGATGTTTTCAAGAAGCCTTCG
7254331 GGTCATCTGT
Statistics
Matches: 209, Mismatches: 18, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
118 9 0.04
119 2 0.01
120 194 0.93
121 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.34
Consensus pattern (119 bp):
GATGTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGG
TCATCCATAAGACCTTAGTGCAGGATGTTTTCAAGAAGCCTTCGAGAGCTTTTT
Found at i:7254276 original size:45 final size:45
Alignment explanation
Indices: 7254222--7254368 Score: 242
Period size: 45 Copynumber: 3.3 Consensus size: 45
7254212 GGGAGCTTTT
7254222 TGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
7254266 TGATATTTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
* *
7254311 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGACCTACAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
7254356 GGATGTTTTCAAA
1 TGATGTTTTCAAA
7254369 AAGCCTTTGG
Statistics
Matches: 95, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
44 4 0.04
45 91 0.96
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.33
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7254278 original size:165 final size:165
Alignment explanation
Indices: 7254107--7254488 Score: 665
Period size: 165 Copynumber: 2.3 Consensus size: 165
7254097 TTTTTTGATG
* *
7254107 TTTCAAAGCCTTCGAGTCATCTGTAAGCCCTTTAGTGCATGATGTTTTCAAAGCCTTCAGGTCAT
1 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGTCAT
* *
7254172 CCATAAGACCTATAGTGCAGGATGTTTTCAAGAAGCCTTCGGGAGCTTTTTGATGTTTCAAAGCC
66 CCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCAAAGCC
7254237 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATAT
131 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATAT
* *
7254272 TTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCAT
1 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGTCAT
** *
7254337 CTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGATGTTTCAAAGCC
66 CCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCAAAGCC
*
7254402 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGT
131 TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATAT
*
7254437 TTTCAAAGCCTGCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
7254489 AAGCCTTCGG
Statistics
Matches: 205, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
165 205 1.00
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (165 bp):
TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCAGGTCAT
CCATAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCAAAGCC
TTCGGGTCATCTGTAAGCCCTTCAGTGCATGATAT
Found at i:7254396 original size:120 final size:121
Alignment explanation
Indices: 7254272--7254574 Score: 500
Period size: 120 Copynumber: 2.5 Consensus size: 121
7254262 TGCATGATAT
*
7254272 TTTCAAAGCCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCAT
1 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCAT
*
7254337 CTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTTGGGAGCTTTTTGAT-G
66 CTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCG
*
7254392 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTGCGGGTCAT
1 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCAT
* * * *
7254457 CTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCT
66 CTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCG
* *
7254513 TTTCAAAACCATCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTCGG
1 TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC--AAAGCCTTCGG
7254575 TAGCTTTTTG
Statistics
Matches: 170, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
120 113 0.66
121 47 0.28
123 10 0.06
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (121 bp):
TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAGCCTTCGGGTCAT
CTGTAAGACCTACAGTGCAGGATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATCG
Found at i:7254444 original size:45 final size:45
Alignment explanation
Indices: 7254387--7254499 Score: 192
Period size: 45 Copynumber: 2.5 Consensus size: 45
7254377 GGGAGCTTTT
7254387 TGATG-TTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
7254431 TGATGTTTTCAAAGCCTGCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
7254476 TGATGTTTTCAAAAAGCCTTCGGG
1 TGATGTTTTC--AAAGCCTTCGGG
7254500 AGCTTTTTGA
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
44 5 0.08
45 48 0.75
47 11 0.17
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (45 bp):
TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7254562 original size:76 final size:75
Alignment explanation
Indices: 7254431--7254649 Score: 370
Period size: 76 Copynumber: 2.9 Consensus size: 75
7254421 CTTCAGTGCA
* *
7254431 TGATGTTTTCAAAGCCTGCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATCTTTTCAAAACCT-CGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
7254496 CGGGAGCTTTT
65 CGGGAGCTTTT
7254507 TGATCTTTTCAAAACCATCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
1 TGATCTTTTCAAAACC-TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
*
7254572 CGGTAGCTTTT
65 CGGGAGCTTTT
7254583 TGATCTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAA-CCTT
1 TGATCTTTTCAAAACC-TCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTT
7254646 CGGG
65 CGGG
7254650 TAATCTGTAA
Statistics
Matches: 137, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
74 7 0.05
75 4 0.03
76 125 0.91
77 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.35
Consensus pattern (75 bp):
TGATCTTTTCAAAACCTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAAGCCTTC
GGGAGCTTTT
Found at i:7254637 original size:45 final size:45
Alignment explanation
Indices: 7254583--7254698 Score: 214
Period size: 45 Copynumber: 2.6 Consensus size: 45
7254573 GGTAGCTTTT
*
7254583 TGATCTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
*
7254628 TGATGTTTTCAAAACCTTCGGGTAATCTGTAAGCCCTTCAGTGCA
1 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
7254673 TGATGTTTTCAAAACCTTCGGGTCAT
1 TGATGTTTTCAAAACCTTCGGGTCAT
7254699 TTATAAGACC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 68 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (45 bp):
TGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGCA
Found at i:7254866 original size:3 final size:3
Alignment explanation
Indices: 7254858--7254946 Score: 70
Period size: 3 Copynumber: 29.3 Consensus size: 3
7254848 TTTTACTTAA
* ** * * * *
7254858 ATT ATT ATT TTT AAG ATT ACT ATT ATT AAT ATT AAAT ATT AGT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT
* * * *
7254904 ATT ATA ATT ATA ATA ATA ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7254947 AATAAAAAAA
Statistics
Matches: 67, Mismatches: 18, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
3 65 0.97
4 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:7255361 original size:21 final size:21
Alignment explanation
Indices: 7255319--7255361 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
7255309 GACATAGAGC
* * *
7255319 AACAAAAAAATAGAGGAGAAG
1 AACAAAAAAACAGAGAAAAAG
*
7255340 AACAACAAAACAGAGAAAAAG
1 AACAAAAAAACAGAGAAAAAG
7255361 A
1 A
7255362 TACGAGCAAG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.70, C:0.09, G:0.19, T:0.02
Consensus pattern (21 bp):
AACAAAAAAACAGAGAAAAAG
Found at i:7256035 original size:4 final size:4
Alignment explanation
Indices: 7256026--7256050 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
7256016 TATTTTGATC
7256026 ATTA ATTA ATTA ATTA ATTA ATTA A
1 ATTA ATTA ATTA ATTA ATTA ATTA A
7256051 GGACAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:7256254 original size:25 final size:27
Alignment explanation
Indices: 7256194--7256257 Score: 73
Period size: 25 Copynumber: 2.5 Consensus size: 27
7256184 ATACTATAGT
7256194 TTTAATT-TTATTTATTTTAGTCACTA
1 TTTAATTATTATTTATTTTAGTCACTA
* *
7256220 TTTAGTTATTATTTAATTTTA-T-A-TG
1 TTTAATTATTATTT-ATTTTAGTCACTA
7256245 TTTAATTATTATT
1 TTTAATTATTATT
7256258 ATTATTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
25 13 0.39
26 7 0.21
27 7 0.21
28 6 0.18
ACGTcount: A:0.28, C:0.03, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTAATTATTATTTATTTTAGTCACTA
Found at i:7256257 original size:3 final size:3
Alignment explanation
Indices: 7256249--7256281 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
7256239 TATATGTTTA
7256249 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
7256282 TAGTCATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:7260877 original size:22 final size:21
Alignment explanation
Indices: 7260819--7260878 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 21
7260809 ACTAGTATTT
* * *
7260819 AAAATATGTTTATATTTTAATC
1 AAAATAT-TTTATATATGAATA
*
7260841 AAAATATTTCAATATATGAATA
1 AAAATATTT-TATATATGAATA
7260863 AAAATATATTTATATA
1 AAAATAT-TTTATATA
7260879 AATGTATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 2 0.06
22 27 0.87
23 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.43
Consensus pattern (21 bp):
AAAATATTTTATATATGAATA
Found at i:7260879 original size:16 final size:16
Alignment explanation
Indices: 7260860--7260893 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7260850 CAATATATGA
7260860 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
7260876 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
7260892 AT
1 AT
7260894 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:7260967 original size:16 final size:18
Alignment explanation
Indices: 7260935--7260968 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
7260925 TACTAATGTA
7260935 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
7260953 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
7260969 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:7261600 original size:16 final size:16
Alignment explanation
Indices: 7261579--7261622 Score: 79
Period size: 16 Copynumber: 2.8 Consensus size: 16
7261569 AATTAGGTGG
7261579 TGACATGTGTCACCAA
1 TGACATGTGTCACCAA
7261595 TGACATGTGTCACCAA
1 TGACATGTGTCACCAA
*
7261611 TGACACGTGTCA
1 TGACATGTGTCA
7261623 TGATCATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (16 bp):
TGACATGTGTCACCAA
Found at i:7262148 original size:35 final size:35
Alignment explanation
Indices: 7262098--7262173 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
7262088 AATTGAATTT
* *
7262098 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
*
7262133 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
7262168 AATTGA
1 AATTGA
7262174 GGACTGTTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.36, C:0.01, G:0.24, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:7262676 original size:21 final size:21
Alignment explanation
Indices: 7262625--7262677 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
7262615 ATTATGACTA
7262625 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
7262646 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
7262667 TCGCAATGCGA
1 TCGCAATGCGA
7262678 ATAAGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:7262710 original size:21 final size:21
Alignment explanation
Indices: 7262667--7262734 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
7262657 TTTTCCCAAT
** *
7262667 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTTGGAAAA
7262687 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
7262708 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
7262729 TCGCAA
1 TCGCAA
7262735 CGCGGTACTG
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
20 12 0.27
21 32 0.73
ACGTcount: A:0.40, C:0.16, G:0.22, T:0.22
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:7262752 original size:41 final size:41
Alignment explanation
Indices: 7262725--7262862 Score: 152
Period size: 41 Copynumber: 3.4 Consensus size: 41
7262715 GCGAATTTGG
*
7262725 AAAATCGCAACGCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
7262766 AAAATCGCAACGCGATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
** * * * *
7262806 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* *
7262847 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
7262863 TTTCAAAGCG
Statistics
Matches: 77, Mismatches: 19, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 32 0.42
41 45 0.58
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:7262753 original size:20 final size:20
Alignment explanation
Indices: 7262728--7262842 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
7262718 AATTTGGAAA
*
7262728 ATCGCAACGCGGTACTGACT
1 ATCGCAACGCGATACTGACT
* *
7262748 ATCGCAACGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
7262769 ATCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * *
7262789 TTCGCAACTCGATACTTAAT
1 ATCGCAACGCGATACTGACT
* * *
7262809 TTCGCAACTCAATACTGACT
1 ATCGCAACGCGATACTGACT
* *
7262829 TTCGCAACGAGATA
1 ATCGCAACGCGATA
7262843 ATACATAATC
Statistics
Matches: 77, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.03
20 58 0.75
21 15 0.19
22 2 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:7263056 original size:22 final size:22
Alignment explanation
Indices: 7263029--7263072 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7263019 CACTCTCTCA
7263029 CCCATCTCCGAAGAAATCCGTC
1 CCCATCTCCGAAGAAATCCGTC
**
7263051 CCCATCTCCGGTGAAATCCGTC
1 CCCATCTCCGAAGAAATCCGTC
7263073 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.41, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGAAGAAATCCGTC
Found at i:7263360 original size:20 final size:20
Alignment explanation
Indices: 7263335--7263383 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
7263325 TTTATTCTCT
7263335 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
7263355 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
*
7263375 CGTTACGAT
1 CGTTGCGAT
7263384 TTTCATTTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:7263394 original size:20 final size:20
Alignment explanation
Indices: 7263371--7263413 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7263361 GATAGTCAAA
7263371 TTCGCGTTACGATTTTCATT
1 TTCGCGTTACGATTTTCATT
* *
7263391 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTACGATTTTCATT
7263411 TTC
1 TTC
7263414 AGAAACTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.12, C:0.19, G:0.16, T:0.53
Consensus pattern (20 bp):
TTCGCGTTACGATTTTCATT
Found at i:7263604 original size:25 final size:24
Alignment explanation
Indices: 7263550--7263604 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
7263540 TGTTTATTAT
* *
7263550 TGTTTTTGGTATATCTTCATAGTG
1 TGTTTTTGGTATATCTACATAGTA
*
7263574 TAGTTTTTGGTATATCTAACTTAGTA
1 T-GTTTTTGGTATATCT-ACATAGTA
7263600 TGTTT
1 TGTTT
7263605 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 1 0.04
25 19 0.73
26 6 0.23
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (24 bp):
TGTTTTTGGTATATCTACATAGTA
Found at i:7265357 original size:19 final size:20
Alignment explanation
Indices: 7265303--7265369 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
7265293 TAGTTTACTT
* *
7265303 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
7265323 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
7265343 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
7265362 TCGCAACG
1 TCGCAACG
7265370 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:7265377 original size:14 final size:14
Alignment explanation
Indices: 7265358--7265416 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
7265348 ATGCGAAATG
7265358 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
7265372 AAAATCGCAATGCGAAATG
1 AAAATCGCAA--CG--A-C
7265391 AAAATCGCAACGAC
1 AAAATCGCAACGAC
7265405 AAAATCGCAACG
1 AAAATCGCAACG
7265417 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 22 0.58
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 10 0.26
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:7265384 original size:33 final size:33
Alignment explanation
Indices: 7265342--7265433 Score: 175
Period size: 33 Copynumber: 2.8 Consensus size: 33
7265332 GGAAATGGCT
7265342 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
7265375 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
7265408 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
7265434 TGCGATTTGT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:7265396 original size:19 final size:19
Alignment explanation
Indices: 7265342--7265438 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
7265332 GGAAATGGCT
7265342 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7265361 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
7265375 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7265394 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
7265408 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
7265427 ATCGCAATGCGA
1 ATCGCAATGCGA
7265439 TTTGTGTTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 20
0.72 0.06 0.23
Matches are distributed among these distances:
14 20 0.32
15 2 0.03
16 4 0.06
17 4 0.06
18 2 0.03
19 31 0.49
ACGTcount: A:0.46, C:0.22, G:0.20, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7265504 original size:20 final size:20
Alignment explanation
Indices: 7265448--7265536 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
7265438 ATTTGTGTTT
**
7265448 CGCGTTGCGATTTTCATTT-
1 CGCGTTGCGATAGTCATTTC
* *
7265467 CGCATTGCGATAGCCATTTC
1 CGCGTTGCGATAGTCATTTC
*
7265487 CGCGTTGTGATAGTCATTTC
1 CGCGTTGCGATAGTCATTTC
*
7265507 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGATAGTCATTTC
7265527 CGCGTTGCGA
1 CGCGTTGCGA
7265537 AAGTAAGTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
19 15 0.25
20 45 0.75
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.37
Consensus pattern (20 bp):
CGCGTTGCGATAGTCATTTC
Found at i:7265547 original size:20 final size:20
Alignment explanation
Indices: 7265507--7265562 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
7265497 TAGTCATTTC
* * *
7265507 CGCGTTGCGATAGTCATTTT
1 CGCGTTGCGAAAGTAAGTTT
7265527 CGCGTTGCGAAAGTAAGTTT
1 CGCGTTGCGAAAGTAAGTTT
* *
7265547 CGTGTTGTGAAAGTAA
1 CGCGTTGCGAAAGTAA
7265563 ACTATTCTTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.23, C:0.14, G:0.29, T:0.34
Consensus pattern (20 bp):
CGCGTTGCGAAAGTAAGTTT
Found at i:7265937 original size:21 final size:20
Alignment explanation
Indices: 7265911--7265979 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
7265901 CTGTCATTCC
7265911 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
7265932 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
7265953 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
7265973 TCAAGAG
1 TCAAGAG
7265980 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:7265991 original size:41 final size:42
Alignment explanation
Indices: 7265901--7265991 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
7265891 CCCGACTCAC
* * *
7265901 CTGTCATTCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
7265943 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
7265984 CTGTCATC
1 CTGTCATC
7265992 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 23 0.53
42 20 0.47
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:7267434 original size:14 final size:14
Alignment explanation
Indices: 7267400--7267438 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
7267390 TTGATTGTTT
7267400 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
7267414 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
7267428 TGTTGATTTGT
1 AATTGATTTGT
7267439 TTAATTGGTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:7267599 original size:19 final size:19
Alignment explanation
Indices: 7267575--7267623 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
7267565 ATCGCAACGA
7267575 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7267594 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
7267613 GAAAATCGCAA
1 GAAAATCGCAA
7267624 CGAGATACTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:7267823 original size:12 final size:12
Alignment explanation
Indices: 7267804--7267837 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
7267794 CTCTCCGGTG
7267804 ACATCCGTTCCT
1 ACATCCGTTCCT
*
7267816 ATATCCGTTCCT
1 ACATCCGTTCCT
7267828 ACATCC-TTCC
1 ACATCCGTTCC
7267838 CCATCCGGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:7268432 original size:24 final size:24
Alignment explanation
Indices: 7268374--7268420 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
7268364 AGTCAGTATT
* *
7268374 CGAAATTTGATCTTGGTCAATACC
1 CGAACTTTGATATTGGTCAATACC
7268398 CGAACTTTGATATTGGTCAATAC
1 CGAACTTTGATATTGGTCAATAC
7268421 TCGGATTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (24 bp):
CGAACTTTGATATTGGTCAATACC
Found at i:7268624 original size:12 final size:12
Alignment explanation
Indices: 7268607--7268643 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
7268597 ATATAATCCT
7268607 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7268619 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7268631 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7268643 G
1 G
7268644 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:7271911 original size:14 final size:14
Alignment explanation
Indices: 7271892--7271920 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7271882 TCCAGCAAAG
7271892 AAAGAAGAAGAAAA
1 AAAGAAGAAGAAAA
7271906 AAAGAAGAAGAAAA
1 AAAGAAGAAGAAAA
7271920 A
1 A
7271921 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:7271912 original size:11 final size:12
Alignment explanation
Indices: 7271889--7271921 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7271879 TCATCCAGCA
7271889 AAGAAAGAAGAAG
1 AAGAAA-AAGAAG
7271902 AA-AAAAAGAAG
1 AAGAAAAAGAAG
7271913 AAGAAAAAG
1 AAGAAAAAG
7271922 GAAAATTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.42
12 9 0.47
13 2 0.11
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAAAAGAAG
Found at i:7276922 original size:22 final size:22
Alignment explanation
Indices: 7276885--7276937 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
7276875 ATCTACACTC
* *
7276885 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATAACAGATTCCCTT
* *
7276907 TTTAAAGATAACAGATTCTCTT
1 TTCAAAGATAACAGATTCCCTT
7276929 TTCAAAGAT
1 TTCAAAGAT
7276938 GAAAGCTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (22 bp):
TTCAAAGATAACAGATTCCCTT
Found at i:7277676 original size:113 final size:113
Alignment explanation
Indices: 7277341--7278128 Score: 1010
Period size: 113 Copynumber: 7.0 Consensus size: 113
7277331 TAGCAAAAAG
* * * *
7277341 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATTAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
* * *
7277405 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGT
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
7277454 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCAT-
1 TCAAATTCATCACTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATC-TG
** *
7277518 CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
7277566 TCAAATCCATCACTTGATGGATCATCTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATTCATCACTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGA
*
7277631 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGT
66 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
7277679 TTAAATTCATCATTTGATGGATTAACATTGTCAGGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATTCATCACTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATC
* *
7277744 TGAAGAA-GAAGAAG---TTCATAATAAGAAGAATTTGTTCAACCTTTTGT
63 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
7277791 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATAATC
1 TCAAATTCATCACTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTC---ATC
*
7277856 TGAAGAA-GAAGAAG---TTCATAATGAGAAGAATTTGTTCAACTTTTTGC
63 TGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
7277903 TCAAATCCATCACTCGATGGATTAGCATTGCCAGGTAAAAGTTCATAATGAGAATAACTCATCTG
1 TCAAATTCATCACTTGATGGATTAACATTGCCAGGT-AAAGTTCATAATGAGAAGAACTCATCTG
7277968 AAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
7278016 TTC-AATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATGAGAAGAACTCATCT
1 -TCAAATTCATCACTTGATGGATTAACATTGCCAGGTA-AAGTTCATAATGAGAAGAACTCATCT
* * *
7278080 GAAG-AGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
64 GAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
7278129 ATGACTCTAT
Statistics
Matches: 599, Mismatches: 59, Indels: 34
0.87 0.09 0.05
Matches are distributed among these distances:
109 3 0.01
110 16 0.03
111 1 0.00
112 261 0.44
113 295 0.49
114 3 0.01
115 8 0.01
116 12 0.02
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (113 bp):
TCAAATTCATCACTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:7277739 original size:225 final size:225
Alignment explanation
Indices: 7277341--7278127 Score: 1129
Period size: 225 Copynumber: 3.5 Consensus size: 225
7277331 TAGCAAAAAG
* * * *
7277341 TCAAATTCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
*
7277406 AGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
7277471 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTC
131 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTC
*
7277536 ATAATGAGAAGAATTTGTTCAATCTTTTGC
196 ATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * *
7277566 TCAAATCCATCACTTGATGGATCATCTTTTCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
*
7277631 AGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
66 AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
* *
7277696 TGGATTAACATTGTCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAGTTC
131 TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTC
* *
7277761 ATAATAAGAAGAATTTGTTCAACCTTTTGT
196 ATAATGAGAAGAATTTGTTCAACCTTTTGC
* * * * * *
7277791 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATAAT-
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCAT-CTG
** * * * * * *
7277855 CTGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACTTTTTGCTCAAATCCATCACTCG
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTG
* * *
7277919 ATGGATTAGCATTGCCAGGTAAAAGTTCATAATGAGAATAA--C-TCATCTGAAGAGGAAGAAGA
130 ATGGATTAACATTGCCAGGT-AGAGTTCATAATGAGAAGAACTCGTCATCTG-A-A-GAAGAAGA
7277981 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
191 AATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
* * *
7278016 TTC-AATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATGAGAAGAACTCATCT
1 -TCAAATTCATCACTTGATGGATCAACATTGCCAGATA-AAGTTCATAATGAGAAGAACTCATCT
* *
7278080 GAAG-AGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
64 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
7278128 CATGACTCTA
Statistics
Matches: 505, Mismatches: 48, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
222 7 0.01
223 2 0.00
224 71 0.14
225 361 0.71
226 64 0.13
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (225 bp):
TCAAATTCATCACTTGATGGATCAACATTGCCAGATAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGA
TGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAATTC
ATAATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:7277883 original size:23 final size:22
Alignment explanation
Indices: 7277840--7277885 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
7277830 GTTCATAATG
*
7277840 AGAAGAACTCATAATCTGAAGA
1 AGAAGAACTCATAATCAGAAGA
* *
7277862 AGAAGAAGTTCATAATGAGAAGA
1 AGAAGAA-CTCATAATCAGAAGA
7277885 A
1 A
7277886 TTTGTTCAAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.52, C:0.09, G:0.22, T:0.17
Consensus pattern (22 bp):
AGAAGAACTCATAATCAGAAGA
Found at i:7277977 original size:337 final size:338
Alignment explanation
Indices: 7277343--7278127 Score: 1203
Period size: 337 Copynumber: 2.3 Consensus size: 338
7277333 GCAAAAAGTC
* * * *
7277343 AAATTCATCACTTGATGGATCAGCTTTTCCA-G-AGAAAGTTCATAATGAGAAGAA--CTCATCT
1 AAATTCATCACTCGATGGATCAACATTGCCAGGTAG-AAGTTCATAATGAGAAGAACTCTCATCT
7277404 GAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTT
65 ---GAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTT
* *
7277469 GATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAGAAGAAAT
127 GATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATAATCTGAAGAAGAAGAAAT
* * * *
7277534 TCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTTGATGGATCATCTTTTCCA
192 TCATAATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTCGATGGATCAGCATTGCCA
7277599 GATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
257 GATAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATT
*
7277664 TGTTCAACCTTTTGTTT
322 TGTTCAACCTTTTGCTT
* * * *
7277681 AAATTCATCATTTGATGGATTAACATTGTCAGGTAG-AGTTCATAATGAGAAGAACTCGTCATCT
1 AAATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAGAACTC-TCATCT
7277745 GAA-GAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGAT
65 GAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGAT
*
7277809 GGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATAATCTGAAGAAGAAGAAGTTCA
130 GGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATAATCTGAAGAAGAAGAAATTCA
* *
7277874 TAATGAGAAGAATTTGTTCAA-CTTTTTGCTCAAATCCATCACTCGATGGATTAGCATTGCCAGG
195 TAATGAGAAGAATTTGTTCAATC-TTTTGCTCAAATCCATCACTCGATGGATCAGCATTGCCAGA
*
7277938 TAAAAGTTCATAATGAGAATAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTT
259 T-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTT
7278002 GTTCAACCTTTTGCTT
323 GTTCAACCTTTTGCTT
* *
7278018 CAATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATGAGAAGAA--CTCATCTG
1 AAATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCTCATCTG
* * *
7278081 AAGAGGAATAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
66 -A-AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTG
7278128 CATGACTCTA
Statistics
Matches: 410, Mismatches: 26, Indels: 22
0.90 0.06 0.05
Matches are distributed among these distances:
335 7 0.02
336 3 0.01
337 258 0.63
338 132 0.32
339 1 0.00
340 3 0.01
341 6 0.01
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (338 bp):
AAATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGTTCATAATGAGAAGAACTCTCATCTG
AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATG
GATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATAATCTGAAGAAGAAGAAATTCAT
AATGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCACTCGATGGATCAGCATTGCCAGATA
AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTT
CAACCTTTTGCTT
Found at i:7279678 original size:12 final size:12
Alignment explanation
Indices: 7279648--7279689 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
7279638 ATCACTTTTA
7279648 TATTTTAATTAT
1 TATTTTAATTAT
***
7279660 GGCTTTAATTAT
1 TATTTTAATTAT
7279672 TATTTT-ATTAT
1 TATTTTAATTAT
7279683 TATTTTA
1 TATTTTA
7279690 GTCCTATAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
11 11 0.48
12 12 0.52
ACGTcount: A:0.29, C:0.02, G:0.05, T:0.64
Consensus pattern (12 bp):
TATTTTAATTAT
Found at i:7282438 original size:19 final size:19
Alignment explanation
Indices: 7282416--7282546 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
7282406 GGAAATTACT
7282416 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7282435 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7282449 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7282468 ATCGCAACGCG-AAT----
1 ATCGCAATGCGAAATGAAA
* *
7282482 TTTGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
7282501 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
7282515 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
7282534 ATTGCAACGCGAA
1 ATCGCAATGCGAA
7282547 TTTAGTTTCG
Statistics
Matches: 85, Mismatches: 12, Indels: 30
0.67 0.09 0.24
Matches are distributed among these distances:
14 28 0.33
15 5 0.06
16 4 0.05
17 4 0.05
18 5 0.06
19 39 0.46
ACGTcount: A:0.44, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:7282458 original size:33 final size:33
Alignment explanation
Indices: 7282416--7282542 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
7282406 GGAAATTACT
7282416 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7282449 ATCGCAATGCGAAATGAAAATCGCAACGCGA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
7282481 TTTTGCAATGCGAAATGAAAATCGCAACGAGAGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
7282515 ATCGCAATGCGAAATGAAAATTGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
7282543 CGAATTTAGT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:7282525 original size:66 final size:66
Alignment explanation
Indices: 7282419--7282549 Score: 253
Period size: 66 Copynumber: 2.0 Consensus size: 66
7282409 AATTACTATC
7282419 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
7282484 T
66 T
*
7282485 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATTGCAACGCGAATTT
1 GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
7282550 AGTTTCGCGT
Statistics
Matches: 64, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.17
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
T
Found at i:7282584 original size:19 final size:19
Alignment explanation
Indices: 7282542--7282618 Score: 85
Period size: 19 Copynumber: 4.3 Consensus size: 19
7282532 AAATTGCAAC
*
7282542 GCGAATTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
7282561 GCGATTTTAGTTTCGCGTT
1 GCGATTTTAGTTTCGCGTT
7282580 GCGATTTT-G--T--CGTT
1 GCGATTTTAGTTTCGCGTT
*
7282594 ACGATTTTCA-TTTCGCGTT
1 GCGATTTT-AGTTTCGCGTT
7282613 GCGATT
1 GCGATT
7282619 CTCTCGTTGC
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 11 0.22
16 1 0.02
17 1 0.02
18 1 0.02
19 35 0.71
ACGTcount: A:0.13, C:0.17, G:0.25, T:0.45
Consensus pattern (19 bp):
GCGATTTTAGTTTCGCGTT
Found at i:7282608 original size:33 final size:33
Alignment explanation
Indices: 7282557--7282683 Score: 193
Period size: 33 Copynumber: 3.8 Consensus size: 33
7282547 TTTAGTTTCG
* *
7282557 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTCTCT
*
7282590 CGTTACGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
7282623 CGTTGCGATTTTCATTTCACGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
7282656 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
7282684 AGTACTTTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
33 85 0.99
34 1 0.01
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:7282628 original size:14 final size:14
Alignment explanation
Indices: 7282609--7282665 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
7282599 TTTCATTTCG
7282609 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
7282623 CGTTGCGATTTTCATTTCA
1 CGTTGCGA--TTC---TCT
7282642 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
7282656 CGTTGCGATT
1 CGTTGCGATT
7282666 TTCATTTCGC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.11, C:0.25, G:0.21, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:7282647 original size:19 final size:19
Alignment explanation
Indices: 7282552--7282683 Score: 89
Period size: 19 Copynumber: 7.7 Consensus size: 19
7282542 GCGAATTTAG
7282552 TTTCGCGTTGCGATTTT-A
1 TTTCGCGTTGCGATTTTCA
7282570 GTTTCGCGTTGCGA-TTT--
1 -TTTCGCGTTGCGATTTTCA
* *
7282587 TGT--CGTTACGATTTTCA
1 TTTCGCGTTGCGATTTTCA
7282604 TTTCGCGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
7282620 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
7282637 TTTCACGTTGCGA--TTC-
1 TTTCGCGTTGCGATTTTCA
*
7282653 --TCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTCA
*
7282670 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
7282684 AGTACTTTTT
Statistics
Matches: 89, Mismatches: 9, Indels: 30
0.70 0.07 0.23
Matches are distributed among these distances:
14 27 0.30
15 3 0.03
16 8 0.09
17 8 0.09
18 3 0.03
19 40 0.45
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TTTCGCGTTGCGATTTTCA
Found at i:7282811 original size:14 final size:14
Alignment explanation
Indices: 7282792--7282826 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
7282782 TCAATTAAAT
7282792 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
7282806 AAATCACCTTTTAC
1 AAATCAACTTTTAC
7282820 AAATCAA
1 AAATCAA
7282827 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:7284262 original size:42 final size:42
Alignment explanation
Indices: 7284216--7284295 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
7284206 CGATGACAGT
* * *
7284216 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* *
7284258 GGCCTCTTCAACGATAGGAGTGGACTCTCGAGGGATGA
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGA
7284296 CAGGCGAGTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.20
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:7284691 original size:91 final size:90
Alignment explanation
Indices: 7284517--7284701 Score: 291
Period size: 91 Copynumber: 2.0 Consensus size: 90
7284507 ATTTCAAACT
*
7284517 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
7284582 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCGAATAAATTTAC
*
7284610 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAATTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
7284674 GTATTGGCAGCAACCGAATAAATTTAC
64 GAATTGGCAGCAACCGAATAAATTTAC
7284701 T
1 T
7284702 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
91 42 0.48
93 19 0.22
95 26 0.30
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCGAATAAATTTAC
Found at i:7286456 original size:14 final size:14
Alignment explanation
Indices: 7286437--7286492 Score: 58
Period size: 14 Copynumber: 3.6 Consensus size: 14
7286427 GGAAATGACT
7286437 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
7286451 ATCGCAACGCGAAATGA
1 ATCGCAA--CGAGA-GA
7286468 CTATCGCAACGAGAGA
1 --ATCGCAACGAGAGA
7286484 ATCGCAACG
1 ATCGCAACG
7286493 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 16 0.46
16 6 0.17
17 6 0.17
19 7 0.20
ACGTcount: A:0.39, C:0.25, G:0.25, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:7286470 original size:33 final size:33
Alignment explanation
Indices: 7286414--7286511 Score: 169
Period size: 33 Copynumber: 2.9 Consensus size: 33
7286404 CGACATAATA
7286414 AGAATCGCAACGCGGAAATGACTATCGCAACGAG
1 AGAATCGCAACGC-GAAATGACTATCGCAACGAG
7286448 AGAATCGCAACGCGAAATGACTATCGCAACGAG
1 AGAATCGCAACGCGAAATGACTATCGCAACGAG
**
7286481 AGAATCGCAACGCGAAATGAAAATCGCAACG
1 AGAATCGCAACGCGAAATGACTATCGCAACG
7286512 CGAAATGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 49 0.79
34 13 0.21
ACGTcount: A:0.41, C:0.23, G:0.24, T:0.11
Consensus pattern (33 bp):
AGAATCGCAACGCGAAATGACTATCGCAACGAG
Found at i:7286511 original size:52 final size:52
Alignment explanation
Indices: 7286450--7286566 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
7286440 GCAACGAGAG
**
7286450 AATCGCAACGCGAAATGACTATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
7286502 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
*
7286554 AATCGCAATGCGA
1 AATCGCAACGCGA
7286567 TTTTGGTTTC
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 62 1.00
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAGAATCGCAACGCGAAATGAA
Found at i:7286559 original size:19 final size:19
Alignment explanation
Indices: 7286388--7286566 Score: 131
Period size: 19 Copynumber: 10.1 Consensus size: 19
7286378 TCTTTTGGTT
7286388 GAAATGAAAATCGCAACGAC
1 GAAATGAAAATCGCAACG-C
7286408 -ATAAT-AAGAATCGCAACGC
1 GA-AATGAA-AATCGCAACGC
**
7286427 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
7286445 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
**
7286461 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
7286478 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
7286494 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
7286513 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
7286530 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
7286546 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
7286565 GA
1 GA
7286567 TTTTGGTTTC
Statistics
Matches: 127, Mismatches: 12, Indels: 41
0.71 0.07 0.23
Matches are distributed among these distances:
14 28 0.22
15 3 0.02
16 6 0.05
17 5 0.04
18 4 0.03
19 56 0.44
20 23 0.18
21 2 0.02
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:7286578 original size:19 final size:19
Alignment explanation
Indices: 7286562--7286625 Score: 101
Period size: 19 Copynumber: 3.4 Consensus size: 19
7286552 AAAATCGCAA
*
7286562 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
7286581 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
7286600 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
7286619 TGCGATT
1 TGCGATT
7286626 CTCTCGTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 43 1.00
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:7286679 original size:52 final size:52
Alignment explanation
Indices: 7286578--7286679 Score: 116
Period size: 52 Copynumber: 2.0 Consensus size: 52
7286568 TTTGGTTTCG
** * ***
7286578 CGTTGCGATTTTTATTTCGCGTTGCGATTTTTATTTCGCGTTGCGATTCTCT
1 CGTTGCGATAGTTATTTCGCGTTGCGATTTTCATTTCGCGAAACGATTCTCT
* *
7286630 CGTTGCGATAGTTATTTCCGCGTTGCGATTTTCA-TTCTCGAAACTATTCT
1 CGTTGCGATAGTTATTT-CGCGTTGCGATTTTCATTTCGCGAAACGATTCT
7286680 TCTTCTGCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
52 26 0.63
53 15 0.37
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.46
Consensus pattern (52 bp):
CGTTGCGATAGTTATTTCGCGTTGCGATTTTCATTTCGCGAAACGATTCTCT
Found at i:7287218 original size:20 final size:20
Alignment explanation
Indices: 7287195--7287240 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
7287185 TAGTAAGATT
7287195 CGCATTGCGATTTACGTATC
1 CGCATTGCGATTTACGTATC
*
7287215 CGCATTGCGATTTACGTATT
1 CGCATTGCGATTTACGTATC
7287235 CGCATT
1 CGCATT
7287241 ACGAATTATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (20 bp):
CGCATTGCGATTTACGTATC
Found at i:7287266 original size:21 final size:21
Alignment explanation
Indices: 7287242--7287296 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
7287232 ATTCGCATTA
*
7287242 CGAATTATGAAAATCGCAACG
1 CGAATTAAGAAAATCGCAACG
* * *
7287263 CGAA-TACGTAAATCGCAATG
1 CGAATTAAGAAAATCGCAACG
7287283 CGAATTAAGAAAAT
1 CGAATTAAGAAAAT
7287297 TGCATTGCGA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.20
Consensus pattern (21 bp):
CGAATTAAGAAAATCGCAACG
Found at i:7287305 original size:21 final size:21
Alignment explanation
Indices: 7287242--7287306 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
7287232 ATTCGCATTA
* *
7287242 CGAATTATGAAAATCGCAACG
1 CGAATTAAGAAAATCGCAATG
* *
7287263 CGAA-TACGTAAATCGCAATG
1 CGAATTAAGAAAATCGCAATG
* *
7287283 CGAATTAAGAAAATTGCATTG
1 CGAATTAAGAAAATCGCAATG
7287304 CGA
1 CGA
7287307 TAGTCAGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 17 0.47
21 19 0.53
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.22
Consensus pattern (21 bp):
CGAATTAAGAAAATCGCAATG
Found at i:7287360 original size:20 final size:21
Alignment explanation
Indices: 7287316--7287367 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
7287306 ATAGTCAGTA
*
7287316 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTACAAAT
**
7287337 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACAAAT
7287357 TCGCATTGCGA
1 TCGCATTGCGA
7287368 ATTGGGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.21, C:0.23, G:0.17, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACAAAT
Found at i:7287382 original size:41 final size:40
Alignment explanation
Indices: 7287215--7287382 Score: 113
Period size: 41 Copynumber: 4.1 Consensus size: 40
7287205 TTTACGTATC
* * *
7287215 CGCATTGCGATTTACGTATTCGCATTACGAATTATGAAAAT
1 CGCATTGCGA-TTACTTATTCGCATTGCGAATTAAGAAAAT
** * * * *
7287256 CGCAACGCGAATACGTAAATCGCAATGCGAATTAAGAAAAT
1 CGCATTGCGATTAC-TTATTCGCATTGCGAATTAAGAAAAT
* * * * *** *
7287297 TGCATTGCGA-TAGTCAGTATCGCATTGCGATTTTCCAAATT
1 CGCATTGCGATTACTTA-T-TCGCATTGCGAATTAAGAAAAT
**
7287338 CGCATTGCGATTTACTTATTCGCATTGCGAATTGGGAAAAT
1 CGCATTGCGA-TTACTTATTCGCATTGCGAATTAAGAAAAT
7287379 CGCA
1 CGCA
7287383 ACGCGAAATT
Statistics
Matches: 93, Mismatches: 29, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
39 2 0.02
40 5 0.05
41 81 0.87
42 1 0.01
43 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (40 bp):
CGCATTGCGATTACTTATTCGCATTGCGAATTAAGAAAAT
Found at i:7287409 original size:21 final size:22
Alignment explanation
Indices: 7287357--7287409 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
7287347 ATTTACTTAT
7287357 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
7287378 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
7287399 TCGCATTGCGA
1 TCGCATTGCGA
7287410 TAGTTATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:7287429 original size:123 final size:120
Alignment explanation
Indices: 7287171--7287409 Score: 300
Period size: 123 Copynumber: 2.0 Consensus size: 120
7287161 GGCGCTATGT
**
7287171 AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACGTATCCGCATTGCGATTTACGTATTC
1 AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACAAATCCGCATTGCGATTTACGTATTC
* *
7287236 GCATTACGAATTATGAAAATCGCAACGCGAATACGTAAATCGCAATGCGAATTAAGA
66 GCATTACGAATTAGGAAAATCGCAACGCGAATACGAAAATCGCAATGCGAATT-A-A
* * * * *
7287293 AAATTGCATTGCGATAGTCAG-TATCGCATTGCGATTTTCCAAATTCGCATTGCGATTTACTTAT
1 AAATCGCATTGCGATAGTAAGAT-TCGCATTGCGA-TTTACAAATCCGCATTGCGATTTACGTAT
* * ** *
7287357 TCGCATTGCGAATTGGGAAAATCGCAACGCGAAATTGGAAAATCGCATTGCGA
64 TCGCATTACGAATTAGGAAAATCGCAACGCG-AATACGAAAATCGCAATGCGA
7287410 TAGTTATAAT
Statistics
Matches: 100, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
121 1 0.01
122 30 0.30
123 52 0.52
124 17 0.17
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (120 bp):
AAATCGCATTGCGATAGTAAGATTCGCATTGCGATTTACAAATCCGCATTGCGATTTACGTATTC
GCATTACGAATTAGGAAAATCGCAACGCGAATACGAAAATCGCAATGCGAATTAA
Found at i:7293946 original size:39 final size:39
Alignment explanation
Indices: 7293892--7294048 Score: 233
Period size: 39 Copynumber: 4.0 Consensus size: 39
7293882 ATTCTAACCA
* *
7293892 TAATGTTGATTCTGGTGAAAGGAGGTATTCCAGTTTGCG
1 TAATGTTGATTCTGATGAAAGGAGGTACTCCAGTTTGCG
* *
7293931 TAATGTTGATTCTGGTGAAAGGAGGTACTCTAGTTTGCG
1 TAATGTTGATTCTGATGAAAGGAGGTACTCCAGTTTGCG
* *
7293970 TAATGTTGATTCTGATGAAAGGAGGTACTCTAGTTTGTG
1 TAATGTTGATTCTGATGAAAGGAGGTACTCCAGTTTGCG
* * *
7294009 TAATGTTGATTCTAATGAATGGAGGTATTCCAGTTTGCG
1 TAATGTTGATTCTGATGAAAGGAGGTACTCCAGTTTGCG
7294048 T
1 T
7294049 GCTGCGTCAT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.24, C:0.10, G:0.29, T:0.38
Consensus pattern (39 bp):
TAATGTTGATTCTGATGAAAGGAGGTACTCCAGTTTGCG
Found at i:7301669 original size:27 final size:27
Alignment explanation
Indices: 7301618--7301675 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
7301608 TTACGTCAGC
*
7301618 ACTTTTTTCAAATGTTGACGGCAAGTG
1 ACTTTTTTCAAATGTTGACGACAAGTG
* *
7301645 ACTTTCTTT-AAATGTTGACTACAAGTT
1 ACTTT-TTTCAAATGTTGACGACAAGTG
7301672 ACTT
1 ACTT
7301676 GATTGAATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 24 0.89
28 3 0.11
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.41
Consensus pattern (27 bp):
ACTTTTTTCAAATGTTGACGACAAGTG
Found at i:7304092 original size:21 final size:22
Alignment explanation
Indices: 7304066--7304108 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
7304056 TATTTACGGT
7304066 CATTTAAGGGTC-GGTCAAAGC
1 CATTTAAGGGTCTGGTCAAAGC
*
7304087 CATTTAAGGTTCTGGTCAAAGC
1 CATTTAAGGGTCTGGTCAAAGC
7304109 AAGTCAACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (22 bp):
CATTTAAGGGTCTGGTCAAAGC
Found at i:7304142 original size:22 final size:22
Alignment explanation
Indices: 7304117--7304160 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
7304107 GCAAGTCAAC
7304117 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
7304139 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
7304161 ATTTTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.09, C:0.23, G:0.50, T:0.18
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:7311221 original size:5 final size:5
Alignment explanation
Indices: 7311211--7311259 Score: 57
Period size: 5 Copynumber: 9.8 Consensus size: 5
7311201 AACGGTCAAC
*
7311211 GGTCG GGTCG GGTCG GGTCAAC GGTC- GGTCG GGTC- GGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTC--G GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
7311260 AGACCGGTCA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
4 8 0.21
5 27 0.69
7 4 0.10
ACGTcount: A:0.04, C:0.22, G:0.53, T:0.20
Consensus pattern (5 bp):
GGTCG
Found at i:7311229 original size:22 final size:21
Alignment explanation
Indices: 7311204--7311247 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 21
7311194 GAAAGTTAAC
7311204 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTC-GGTCGGGTCG
7311226 GGTCAACGGTCGGTCGGGTCG
1 GGTCAACGGTCGGTCGGGTCG
7311247 G
1 G
7311248 TCGGGTCGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.09, C:0.23, G:0.50, T:0.18
Consensus pattern (21 bp):
GGTCAACGGTCGGTCGGGTCG
Found at i:7311247 original size:9 final size:9
Alignment explanation
Indices: 7311210--7311256 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
7311200 TAACGGTCAA
7311210 CGGTCGGGT
1 CGGTCGGGT
7311219 CGGGTCGGGT
1 C-GGTCGGGT
**
7311229 C-AAC-GGT
1 CGGTCGGGT
7311236 CGGTCGGGT
1 CGGTCGGGT
7311245 CGGTCGGGT
1 CGGTCGGGT
7311254 CGG
1 CGG
7311257 GTCAGACCGG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
7 4 0.13
8 2 0.06
9 16 0.52
10 9 0.29
ACGTcount: A:0.04, C:0.23, G:0.53, T:0.19
Consensus pattern (9 bp):
CGGTCGGGT
Found at i:7311268 original size:9 final size:9
Alignment explanation
Indices: 7311256--7311302 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
7311246 GGTCGGGTCG
*
7311256 GGTCAGACC
1 GGTCAAACC
7311265 GGTCAAACC
1 GGTCAAACC
* *
7311274 GATTCAGACC
1 G-GTCAAACC
7311284 GGTCAAACC
1 GGTCAAACC
7311293 GGTCAAACC
1 GGTCAAACC
7311302 G
1 G
7311303 ATTTTCCAGC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
9 25 0.78
10 7 0.22
ACGTcount: A:0.30, C:0.32, G:0.26, T:0.13
Consensus pattern (9 bp):
GGTCAAACC
Found at i:7321020 original size:15 final size:15
Alignment explanation
Indices: 7321000--7321033 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
7320990 GCACATTGAA
*
7321000 ATTAGACATCATTTC
1 ATTAGACATCATGTC
*
7321015 ATTAGAGATCATGTC
1 ATTAGACATCATGTC
7321030 ATTA
1 ATTA
7321034 AAGAAGATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (15 bp):
ATTAGACATCATGTC
Found at i:7321492 original size:20 final size:23
Alignment explanation
Indices: 7321432--7321492 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 23
7321422 ATCGATACCT
* *
7321432 CCTTGCATGGGTACCGATTCCCA
1 CCTTGAATGGGAACCGATTCCCA
* *
7321455 CTTTGAATGGGTACCGATTCCC-
1 CCTTGAATGGGAACCGATTCCCA
7321477 CCTTG-A-GGGAACCGAT
1 CCTTGAATGGGAACCGAT
7321493 ACCCTCCACG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 1 0.03
22 4 0.12
23 20 0.59
ACGTcount: A:0.20, C:0.30, G:0.25, T:0.26
Consensus pattern (23 bp):
CCTTGAATGGGAACCGATTCCCA
Found at i:7321588 original size:21 final size:21
Alignment explanation
Indices: 7321562--7321612 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
7321552 TTCTTTCCTC
7321562 TCTCTCACCGTTCACCTCTCT
1 TCTCTCACCGTTCACCTCTCT
7321583 TCTCTCACCGTTCACCTCTCT
1 TCTCTCACCGTTCACCTCTCT
7321604 TCTCTCACC
1 TCTCTCACC
7321613 CTATCTCTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.49, G:0.04, T:0.37
Consensus pattern (21 bp):
TCTCTCACCGTTCACCTCTCT
Found at i:7325386 original size:13 final size:13
Alignment explanation
Indices: 7325368--7325397 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
7325358 ATAATAACCA
7325368 TGGATGTTAATTT
1 TGGATGTTAATTT
7325381 TGGATGTTAATTT
1 TGGATGTTAATTT
7325394 TGGA
1 TGGA
7325398 AATGAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (13 bp):
TGGATGTTAATTT
Found at i:7327044 original size:2 final size:2
Alignment explanation
Indices: 7327037--7327138 Score: 204
Period size: 2 Copynumber: 51.0 Consensus size: 2
7327027 GCATACATAC
7327037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7327079 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7327121 AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
7327139 TCATGGGACT
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 100 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7328214 original size:48 final size:48
Alignment explanation
Indices: 7328142--7328238 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
7328132 AATGGATCTA
*
7328142 CCCTAAACTGAGCAAGAAGCAAACACTCCCTAAAAACTACATGCTCAC
1 CCCTAAACTGAGCAAGAAGAAAACACTCCCTAAAAACTACATGCTCAC
7328190 CCCTAAACTGAGCAAGAAGAAAACACTCCCTAAAAACTACATGCTCAC
1 CCCTAAACTGAGCAAGAAGAAAACACTCCCTAAAAACTACATGCTCAC
7328238 C
1 C
7328239 GACGCTACCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.33, G:0.10, T:0.14
Consensus pattern (48 bp):
CCCTAAACTGAGCAAGAAGAAAACACTCCCTAAAAACTACATGCTCAC
Found at i:7329012 original size:40 final size:40
Alignment explanation
Indices: 7328968--7329077 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
7328958 AATGGTTGAC
* *
7328968 CCAAGGTGATGCTGATCCAACTTCTTATGTGATGGACAAG
1 CCAAGGTGATGCTGATCCAACTCCTTATGTGATGAACAAG
* *
7329008 CCAAGGTGATGCTAATCCAACTCCTTATGTGATGAACGAG
1 CCAAGGTGATGCTGATCCAACTCCTTATGTGATGAACAAG
* * *
7329048 CGAAATGATGATGCTGATCTAACTCCTTAT
1 C-CAA-GGTGATGCTGATCCAACTCCTTAT
7329078 ACAATGGAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 37 0.62
41 2 0.03
42 21 0.35
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (40 bp):
CCAAGGTGATGCTGATCCAACTCCTTATGTGATGAACAAG
Found at i:7329285 original size:117 final size:117
Alignment explanation
Indices: 7329085--7329316 Score: 288
Period size: 117 Copynumber: 2.0 Consensus size: 117
7329075 TATACAATGG
* * * * * *
7329085 AATCGAGCTAAGGTTGAACAATTTCTTTTCATTATGAACTTCTTCTCCCCCATCAGATGAGTTCT
1 AATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCCCATCAGATGAGTTAT
*
7329150 TCTCATTATGAACACTCCACTAGAAATGA-TGAT-CACCCTCCTTCTGTGATAA
66 TCTCATTATGAACACTCCACTAGAAAT-ATTGATCCA-CCTCCTTCTATGATAA
* * * *
7329202 AATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCTCGTCGGATTAGTTAT
1 AATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCCCATCAGATGAGTTAT
* ** * *
7329267 TCTCATTATGCATTCTCCATTGGAAATATTGATCCACCTCCTTCTATGAT
66 TCTCATTATGAACACTCCACTAGAAATATTGATCCACCTCCTTCTATGAT
7329317 GTTATAAAAC
Statistics
Matches: 97, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
116 1 0.01
117 94 0.97
118 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.36
Consensus pattern (117 bp):
AATCGAACCAAGGTTGAACAAGTTCTTCTCATTATAAACTTCTTCTCCCCCATCAGATGAGTTAT
TCTCATTATGAACACTCCACTAGAAATATTGATCCACCTCCTTCTATGATAA
Found at i:7331228 original size:110 final size:107
Alignment explanation
Indices: 7330977--7331265 Score: 287
Period size: 109 Copynumber: 2.7 Consensus size: 107
7330967 AAAATCCCTA
* * * * ** *
7330977 AAAATTAGGCTTAGTTTCTTTAAAAATTAATTTGAAAATTTCAAGAAACCCTTGAAAAACAGGCT
1 AAAATGAGACTTAGCTTCTTTAAAAATTAATTTAAAAACATCAAGAAACCC-TGAAAATCAGGCT
* * *
7331042 TAGCTTCTTTCAAAATTCATTAGAAAACATCAAGAAACCCCTG
65 TAGTTTCTTTCAAAACTCATTAGAAAACATCAAGAAACCACTG
* * * * * * *
7331085 AAAATTAGTCTTAGCTTCTTTGAAAACTCATTTAAGAAACATCAAGAAACTTCTGAAAATCAGAC
1 AAAATGAGACTTAGCTTCTTTAAAAATTAATTTAA-AAACATCAAGAAAC-CCTGAAAATCAGGC
* * *
7331150 TTAGTTTCTTTGAAAACTCATTTA-AAAATCATCAAGAAACTATTG
64 TTAGTTTCTTTCAAAACTCA-TTAGAAAA-CATCAAGAAACCACTG
* *
7331195 AAAATCGA-ACTTAGCTTCTTTCAAAATTTATTTAAAAATCATCAAGAAACCCCTG-AAATCAGG
1 AAAAT-GAGACTTAGCTTCTTTAAAAATTAATTTAAAAA-CATCAAGAAA-CCCTGAAAATCAGG
7331258 CTTAGTTT
63 CTTAGTTT
7331266 TAAAAAAATC
Statistics
Matches: 150, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
108 29 0.19
109 61 0.41
110 58 0.39
111 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.32
Consensus pattern (107 bp):
AAAATGAGACTTAGCTTCTTTAAAAATTAATTTAAAAACATCAAGAAACCCTGAAAATCAGGCTT
AGTTTCTTTCAAAACTCATTAGAAAACATCAAGAAACCACTG
Found at i:7331252 original size:55 final size:55
Alignment explanation
Indices: 7330958--7331262 Score: 289
Period size: 55 Copynumber: 5.6 Consensus size: 55
7330948 ATTTATCGTT
* * * * * * * * *
7330958 ATCATCAATAAAATCCCTAAAAATTAGGCTTAGTTTCTTTAAAAATTAATTTGAAA
1 ATCATCAA-GAAACCCCTGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAA
* * * *
7331014 AT-TTCAAGAAACCCTTGAAAAACAGGCTTAGCTTCTTTCAAAATTCA-TTAGAAA
1 ATCATCAAGAAACCCCTGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTA-AAA
* * * *
7331068 A-CATCAAGAAACCCCTGAAAATTAGTCTTAGCTTCTTTGAAAACTCATTTAAGAA
1 ATCATCAAGAAACCCCTGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAA-AA
** * * *
7331123 A-CATCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAA
1 ATCATCAAGAAACCCCTGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAA
*** *
7331177 ATCATCAAGAAACTATTGAAAATC-GAACTTAGCTTCTTTCAAAATTTATTTAAAA
1 ATCATCAAGAAACCCCTGAAAATCAG-ACTTAGCTTCTTTCAAAATTCATTTAAAA
*
7331232 ATCATCAAGAAACCCCTG-AAATCAGGCTTAG
1 ATCATCAAGAAACCCCTGAAAATCAGACTTAG
7331263 TTTTAAAAAA
Statistics
Matches: 209, Mismatches: 33, Indels: 16
0.81 0.13 0.06
Matches are distributed among these distances:
53 2 0.01
54 88 0.42
55 117 0.56
56 2 0.01
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (55 bp):
ATCATCAAGAAACCCCTGAAAATCAGACTTAGCTTCTTTCAAAATTCATTTAAAA
Found at i:7337850 original size:26 final size:28
Alignment explanation
Indices: 7337819--7337872 Score: 76
Period size: 29 Copynumber: 2.0 Consensus size: 28
7337809 TAAACAATTA
*
7337819 ATAATTTT-AA-GTAAAATTAAAATAAC
1 ATAATTTTAAAGGAAAAATTAAAATAAC
7337845 ATAATTTTAAAGGGAAAAATTAAAATAA
1 ATAATTTTAAA-GGAAAAATTAAAATAA
7337873 TAGTAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 2 0.08
29 14 0.58
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (28 bp):
ATAATTTTAAAGGAAAAATTAAAATAAC
Found at i:7338290 original size:2 final size:2
Alignment explanation
Indices: 7338283--7338313 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7338273 TGAAACATGC
7338283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7338314 AACAGAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.