Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 76 of 91
Found at i:17408742 original size:21 final size:21
Alignment explanation
Indices: 17408694--17408754 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 21
17408684 CTCTTTTTTA
*
17408694 TTTTCTCTTTGCTTTTTCTTTGT
1 TTTTCTCTTT--TTTTTCTTTCT
17408717 TTTTCTCTTTTTTCTTC-TTCT
1 TTTTCTCTTTTTT-TTCTTTCT
*
17408738 TTTTCTCTTTTTGTTCT
1 TTTTCTCTTTTTTTTCT
17408755 GATTGGATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.09
21 18 0.53
22 3 0.09
23 10 0.29
ACGTcount: A:0.00, C:0.20, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTCTCTTTTTTTTCTTTCT
Found at i:17411735 original size:4 final size:4
Alignment explanation
Indices: 17411728--17411780 Score: 65
Period size: 4 Copynumber: 13.2 Consensus size: 4
17411718 AAATATATAT
*
17411728 TAAA TAAA TCAAA TGAAA -AAA TAAA TAAA TAAA TAAA TAAA T-AT TAAA
1 TAAA TAAA T-AAA T-AAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
17411776 TAAA T
1 TAAA T
17411781 CAAAAGAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
3 5 0.12
4 31 0.72
5 7 0.16
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:17411774 original size:44 final size:46
Alignment explanation
Indices: 17411718--17411806 Score: 146
Period size: 44 Copynumber: 2.0 Consensus size: 46
17411708 AAGAAATAAG
* *
17411718 AAATATATATTAAATAAATCAAATGAAAAAAT-AAAT-AAATAAAT
1 AAATAAATATTAAATAAATCAAAAGAAAAAATAAAATAAAATAAAT
17411762 AAATAAATATTAAATAAATCAAAAGAAAAAATAAAATAAAATAAA
1 AAATAAATATTAAATAAATCAAAAGAAAAAATAAAATAAAATAAA
17411807 AATAAAAAAG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 30 0.73
45 4 0.10
46 7 0.17
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.24
Consensus pattern (46 bp):
AAATAAATATTAAATAAATCAAAAGAAAAAATAAAATAAAATAAAT
Found at i:17411802 original size:17 final size:17
Alignment explanation
Indices: 17411773--17411813 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
17411763 AATAAATATT
17411773 AAAT-AAATCAAAAGAAA
1 AAATAAAATCAAAA-AAA
*
17411790 AAATAAAAT-AAAATAA
1 AAATAAAATCAAAAAAA
17411806 AAATAAAA
1 AAATAAAA
17411814 AAGGGTTTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 10 0.45
17 8 0.36
18 4 0.18
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (17 bp):
AAATAAAATCAAAAAAA
Found at i:17411810 original size:44 final size:43
Alignment explanation
Indices: 17411711--17411812 Score: 143
Period size: 44 Copynumber: 2.3 Consensus size: 43
17411701 GTTAGATAAG
* *
17411711 AAATAAGAAATATATATTAAATAAATCAAATGAAAAAATAAAT
1 AAATAAGAAATAAATATTAAATAAATCAAAAGAAAAAATAAAT
*
17411754 AAATAAATAAATAAATATTAAATAAATCAAAAGAAAAAATAAAAT
1 AAAT-AAGAAATAAATATTAAATAAATCAAAAGAAAAAAT-AAAT
17411799 AAAATAA-AAATAAA
1 -AAATAAGAAATAAA
17411813 AAAGGGTTTA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
43 4 0.08
44 39 0.74
45 6 0.11
46 4 0.08
ACGTcount: A:0.73, C:0.02, G:0.03, T:0.23
Consensus pattern (43 bp):
AAATAAGAAATAAATATTAAATAAATCAAAAGAAAAAATAAAT
Found at i:17411876 original size:14 final size:12
Alignment explanation
Indices: 17411851--17411909 Score: 52
Period size: 11 Copynumber: 4.9 Consensus size: 12
17411841 CAAACATTTG
17411851 AAAAAATAAAAT
1 AAAAAATAAAAT
*
17411863 AAAAAAT--ATT
1 AAAAAATAAAAT
*
17411873 AAATAAATCAAAAGA
1 AAA-AAAT-AAAA-T
17411888 AAAAAATAAAAT
1 AAAAAATAAAAT
17411900 -AAAAATAAAA
1 AAAAAATAAAA
17411910 AAGGTTTACT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
10 5 0.13
11 14 0.37
12 7 0.18
13 4 0.11
14 5 0.13
15 3 0.08
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAAATAAAAT
Found at i:17411894 original size:18 final size:19
Alignment explanation
Indices: 17411851--17411911 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
17411841 CAAACATTTG
17411851 AAAAAATAAAATAAAAA-A
1 AAAAAATAAAATAAAAAGA
** *
17411869 TATTAAAT-AAATCAAAAGA
1 -AAAAAATAAAATAAAAAGA
*
17411888 AAAAAATAAAATAAAAATA
1 AAAAAATAAAATAAAAAGA
17411907 AAAAA
1 AAAAA
17411912 GGTTTACTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
18 13 0.39
19 20 0.61
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AAAAAATAAAATAAAAAGA
Found at i:17411942 original size:95 final size:98
Alignment explanation
Indices: 17411754--17411943 Score: 325
Period size: 95 Copynumber: 1.9 Consensus size: 98
17411744 AAAAATAAAT
17411754 AAATAAATAAATAAATATTAAATAAATCAAAAGAAAAAATAAAATAAAATAAAAATAAAAAAGGG
1 AAATAAATAAATAAATATTAAATAAATCAAAAG--AAAATAAAATAAAATAAAAATAAAAAAGGG
17411819 TTTACTATTTAGCCCCAATAAACAAACATTTGAAA
64 TTTACTATTTAGCCCCAATAAACAAACATTTGAAA
17411854 AAATAAAATAAA-AAATATTAAATAAATCAAAAG-AAA-AAAATAAAATAAAAATAAAAAA-GGT
1 AAAT-AAATAAATAAATATTAAATAAATCAAAAGAAAATAAAATAAAATAAAAATAAAAAAGGGT
17411915 TTACTATTTAGCCCCAATAAACAAACATT
65 TTACTATTTAGCCCCAATAAACAAACATT
17411944 ATGCTTTCAA
Statistics
Matches: 89, Mismatches: 0, Indels: 7
0.93 0.00 0.07
Matches are distributed among these distances:
95 32 0.36
96 22 0.25
97 3 0.03
100 25 0.28
101 7 0.08
ACGTcount: A:0.64, C:0.08, G:0.05, T:0.23
Consensus pattern (98 bp):
AAATAAATAAATAAATATTAAATAAATCAAAAGAAAATAAAATAAAATAAAAATAAAAAAGGGTT
TACTATTTAGCCCCAATAAACAAACATTTGAAA
Found at i:17413003 original size:3 final size:3
Alignment explanation
Indices: 17412995--17413046 Score: 59
Period size: 3 Copynumber: 16.3 Consensus size: 3
17412985 AACCTGTAAA
* *
17412995 AAT AAT AAT AAA AAT ATT AAT AAT AAT AAT AAT AAAT AAAT AAAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT -AAT AAT
17413043 AAT A
1 AAT A
17413047 TTTTTTAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
3 33 0.75
4 11 0.25
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17413022 original size:24 final size:24
Alignment explanation
Indices: 17412995--17413046 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
17412985 AACCTGTAAA
*
17412995 AATAATAATAAA-AATATTAATAAT
1 AATAATAATAAATAA-ATAAATAAT
17413019 AATAATAATAAATAAATAAATAAT
1 AATAATAATAAATAAATAAATAAT
17413043 AATA
1 AATA
17413047 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 24 0.92
25 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (24 bp):
AATAATAATAAATAAATAAATAAT
Found at i:17422874 original size:30 final size:30
Alignment explanation
Indices: 17422838--17422907 Score: 122
Period size: 30 Copynumber: 2.3 Consensus size: 30
17422828 TAACTTTTTG
*
17422838 GTCAAAGTTAACGGTCAACGGGTTGACTCA
1 GTCAAAGTCAACGGTCAACGGGTTGACTCA
*
17422868 GTCAAAGTCAACGGTCAACGGGTTGACTCG
1 GTCAAAGTCAACGGTCAACGGGTTGACTCA
17422898 GTCAAAGTCA
1 GTCAAAGTCA
17422908 GCGAGTTGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.21
Consensus pattern (30 bp):
GTCAAAGTCAACGGTCAACGGGTTGACTCA
Found at i:17431352 original size:31 final size:31
Alignment explanation
Indices: 17431306--17431377 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
17431296 AATGACATAT
* * * *
17431306 TATTTTATTATTATTTTTATATGATGTGATA
1 TATTATATTACTATTTTAATATGATATGATA
*
17431337 TATTATATTACTATTTTAATATGATATGTTA
1 TATTATATTACTATTTTAATATGATATGATA
17431368 TATTATATTA
1 TATTATATTA
17431378 ATTGTGCGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.01, G:0.07, T:0.58
Consensus pattern (31 bp):
TATTATATTACTATTTTAATATGATATGATA
Found at i:17433888 original size:3 final size:3
Alignment explanation
Indices: 17433863--17433917 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
17433853 AAAATATATA
17433863 TAT TA- TAT ATAT TA- TATT TAT TAT TAT TAT TA- TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
17433907 TAT TAT TAT TA
1 TAT TAT TAT TA
17433918 CTAATAATTT
Statistics
Matches: 47, Mismatches: 0, Indels: 10
0.82 0.00 0.18
Matches are distributed among these distances:
2 6 0.13
3 36 0.77
4 5 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:17435481 original size:2 final size:2
Alignment explanation
Indices: 17435474--17435498 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17435464 ATTAGGATTC
17435474 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 T
17435499 TCATGTTATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:17447217 original size:9 final size:9
Alignment explanation
Indices: 17447203--17447259 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
17447193 TATGCTTGAA
17447203 GAAAAAAAT
1 GAAAAAAAT
17447212 G-AAAAAAT
1 GAAAAAAAT
17447220 -AAAAAAAT
1 GAAAAAAAT
*
17447228 AAAAAAAAT
1 GAAAAAAAT
* *
17447237 AAAAAAAAA
1 GAAAAAAAT
*
17447246 GAAAGAAA-
1 GAAAAAAAT
17447254 GAAAAA
1 GAAAAA
17447260 TGAAGAATGA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
8 19 0.45
9 23 0.55
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (9 bp):
GAAAAAAAT
Found at i:17447245 original size:10 final size:9
Alignment explanation
Indices: 17447204--17447244 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
17447194 ATGCTTGAAG
17447204 AAAAAAAT-
1 AAAAAAATA
*
17447212 GAAAAAAT-
1 AAAAAAATA
17447220 AAAAAAATA
1 AAAAAAATA
17447229 AAAAAAATA
1 AAAAAAATA
17447238 AAAAAAA
1 AAAAAAA
17447245 AGAAAGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
8 14 0.47
9 16 0.53
ACGTcount: A:0.88, C:0.00, G:0.02, T:0.10
Consensus pattern (9 bp):
AAAAAAATA
Found at i:17448744 original size:26 final size:28
Alignment explanation
Indices: 17448701--17448757 Score: 75
Period size: 26 Copynumber: 2.1 Consensus size: 28
17448691 TGATTTAAAA
17448701 TATATATATATATATATATTA-TATTTAT
1 TATATATATATATATATATTATTA-TTAT
*
17448729 TATATTTAT-TAT-TATATTATTATTAT
1 TATATATATATATATATATTATTATTAT
17448755 TAT
1 TAT
17448758 TAATACTAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 14 0.52
27 5 0.19
28 8 0.30
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (28 bp):
TATATATATATATATATATTATTATTAT
Found at i:17448748 original size:20 final size:22
Alignment explanation
Indices: 17448707--17448751 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17448697 AAAATATATA
17448707 TATATATATATATTATATTTAT
1 TATATATATATATTATATTTAT
*
17448729 TATATTTAT-TATTATA-TTAT
1 TATATATATATATTATATTTAT
17448749 TAT
1 TAT
17448752 TATTATTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 7 0.32
21 7 0.32
22 8 0.36
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATATATATATATTATATTTAT
Found at i:17452057 original size:31 final size:32
Alignment explanation
Indices: 17452014--17452078 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 32
17452004 TAATGACGAG
*
17452014 CATCAAGAATTTAAG-GGTATGT-GTAATCCTT
1 CATCAAGAATTTAAGTGGTAT-TCGTAAACCTT
*
17452045 CATCGAGAATTTAAGTGGTATTCGTAAACCTT
1 CATCAAGAATTTAAGTGGTATTCGTAAACCTT
17452077 CA
1 CA
17452079 ATATTTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 15 0.50
32 15 0.50
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.34
Consensus pattern (32 bp):
CATCAAGAATTTAAGTGGTATTCGTAAACCTT
Found at i:17452281 original size:51 final size:51
Alignment explanation
Indices: 17452226--17452449 Score: 245
Period size: 51 Copynumber: 4.4 Consensus size: 51
17452216 TTCTGCTTCG
* * *
17452226 AGATTTGATTTAGTAAATTTTCATCGTTGAATAGAAGTTGATTCTATTTTA
1 AGATTTAATTTATTAAATTTTCATCGTTCAATAGAAGTTGATTCTATTTTA
* * * *
17452277 AGATTTAATTTATTAAATTCTCATCGTTCAACATAATTTTG-TTCTATTTTA
1 AGATTTAATTTATTAAATTTTCATCGTTCAATAGAA-GTTGATTCTATTTTA
* * * ** * * * *
17452328 GGATTTATTTTATTAAATTTTTATTATTCAATAGAAATT-AGTTTTGTTTTC
1 AGATTTAATTTATTAAATTTTCATCGTTCAATAGAAGTTGA-TTCTATTTTA
* *
17452379 AGATTAAATTTATTAAATTTTCATCGTTCAATAGAAGTTGATTTTATTTTA
1 AGATTTAATTTATTAAATTTTCATCGTTCAATAGAAGTTGATTCTATTTTA
*
17452430 GGATTTAATTTATTAAATTT
1 AGATTTAATTTATTAAATTT
17452450 CTGCCGCTCA
Statistics
Matches: 139, Mismatches: 30, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
50 2 0.01
51 133 0.96
52 4 0.03
ACGTcount: A:0.32, C:0.06, G:0.10, T:0.51
Consensus pattern (51 bp):
AGATTTAATTTATTAAATTTTCATCGTTCAATAGAAGTTGATTCTATTTTA
Found at i:17452396 original size:153 final size:153
Alignment explanation
Indices: 17452128--17452448 Score: 446
Period size: 153 Copynumber: 2.1 Consensus size: 153
17452118 ATTTCGTGAA
* *
17452128 TTAATTTATTAAATTATCATTGTTCAACATAATTGTGTTCCATTTTAGGATATAGTTTATTAAGT
1 TTAATTTATTAAATTATCATCGTTCAACATAATTGTGTTCCATTTTAGGATATAGTTTATTAAAT
* * ** *
17452193 TTTTATCATTTAATAGTAATCAATTCTGCTTCGAGATTTGATTTAGTAAATTTTCATCGTTGAAT
66 TTTTATCATTCAATAGAAATCAATTCTGCTTCGAGATTAAATTTAGTAAATTTTCATCGTTCAAT
17452258 AGAAGTTGATTCTATTTTAAGAT
131 AGAAGTTGATTCTATTTTAAGAT
* * * * *
17452281 TTAATTTATTAAATTCTCATCGTTCAACATAATTTTGTTCTATTTTAGGATTTATTTTATTAAAT
1 TTAATTTATTAAATTATCATCGTTCAACATAATTGTGTTCCATTTTAGGATATAGTTTATTAAAT
* * * * * *
17452346 TTTTATTATTCAATAGAAATTAGTTTTGTTTTC-AGATTAAATTTATTAAATTTTCATCGTTCAA
66 TTTTATCATTCAATAGAAATCAATTCTG-CTTCGAGATTAAATTTAGTAAATTTTCATCGTTCAA
* *
17452410 TAGAAGTTGATTTTATTTTAGGAT
130 TAGAAGTTGATTCTATTTTAAGAT
17452434 TTAATTTATTAAATT
1 TTAATTTATTAAATT
17452449 TCTGCCGCTC
Statistics
Matches: 147, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
153 144 0.98
154 3 0.02
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.50
Consensus pattern (153 bp):
TTAATTTATTAAATTATCATCGTTCAACATAATTGTGTTCCATTTTAGGATATAGTTTATTAAAT
TTTTATCATTCAATAGAAATCAATTCTGCTTCGAGATTAAATTTAGTAAATTTTCATCGTTCAAT
AGAAGTTGATTCTATTTTAAGAT
Found at i:17452461 original size:51 final size:51
Alignment explanation
Indices: 17452227--17452500 Score: 199
Period size: 51 Copynumber: 5.4 Consensus size: 51
17452217 TCTGCTTCGA
* * * * * *
17452227 GATTTGATTTAGTAAATTT-TCATCGTTGAATAGAAGTTGATTCTATTTTAA
1 GATTTAATTTATTAAATTTCTCA-CGTTCAATAGAAATTGATTTTATTTTAG
* * * *
17452278 GATTTAATTTATTAAA-TTCTCATCGTTCAACATAATTTTG-TTCTATTTTAG
1 GATTTAATTTATTAAATTTCTCA-CGTTCAATAGAA-ATTGATTTTATTTTAG
* * ** *
17452329 GATTTATTTTATTAAATTT-TTATTATTCAATAGAAATT-AGTTTTGTTTTCA-
1 GATTTAATTTATTAAATTTCTCA-CGTTCAATAGAAATTGA-TTTTATTTT-AG
* *
17452380 GATTAAATTTATTAAATTT-TCATCGTTCAATAGAAGTTGATTTTATTTTAG
1 GATTTAATTTATTAAATTTCTCA-CGTTCAATAGAAATTGATTTTATTTTAG
* * *
17452431 GATTTAATTTATTAAATTTCTGC-CGCTCAAT-GAAAATTGGTTTTGTTTT-G
1 GATTTAATTTATTAAATTTCT-CACGTTCAATAG-AAATTGATTTTATTTTAG
*
17452481 AGATTTAATTTCTTAAATTT
1 -GATTTAATTTATTAAATTT
17452501 TCTTCATTTA
Statistics
Matches: 182, Mismatches: 29, Indels: 24
0.77 0.12 0.10
Matches are distributed among these distances:
50 7 0.04
51 166 0.91
52 8 0.04
53 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.11, T:0.51
Consensus pattern (51 bp):
GATTTAATTTATTAAATTTCTCACGTTCAATAGAAATTGATTTTATTTTAG
Found at i:17452461 original size:102 final size:102
Alignment explanation
Indices: 17452272--17452502 Score: 277
Period size: 102 Copynumber: 2.3 Consensus size: 102
17452262 GTTGATTCTA
* * * *
17452272 TTTTAAGATTTAATTTATTAAATTCTCATCGTTCAACATAATTTTGTTCTATTTTAGGATTTATT
1 TTTTAAGATTTAATTTATTAAATTTTCATCGTTCAACAGAATGTTGTTCTATTTTAGGATTTAAT
* ** *
17452337 TTATTAAATTTTTATTATTCAAT-AGAAATTAGTTTTG
66 TTATTAAATTTCTACCACTCAATGA-AAATTAGTTTTG
* * * *
17452374 TTTTCAGATTAAATTTATTAAATTTTCATCGTTCAATAGAA-GTTGATTTTATTTTAGGATTTAA
1 TTTTAAGATTTAATTTATTAAATTTTCATCGTTCAACAGAATGTTG-TTCTATTTTAGGATTTAA
* * *
17452438 TTTATTAAATTTCTGCCGCTCAATGAAAATTGGTTTTG
65 TTTATTAAATTTCTACCACTCAATGAAAATTAGTTTTG
* *
17452476 TTTTGAGATTTAATTTCTTAAATTTTC
1 TTTTAAGATTTAATTTATTAAATTTTC
17452503 TTCATTTAAC
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
101 3 0.03
102 105 0.96
103 1 0.01
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (102 bp):
TTTTAAGATTTAATTTATTAAATTTTCATCGTTCAACAGAATGTTGTTCTATTTTAGGATTTAAT
TTATTAAATTTCTACCACTCAATGAAAATTAGTTTTG
Found at i:17452544 original size:102 final size:102
Alignment explanation
Indices: 17452272--17452550 Score: 247
Period size: 102 Copynumber: 2.7 Consensus size: 102
17452262 GTTGATTCTA
* * * * * * ** * *
17452272 TTTTAAGATTTAATTTATTAAATTCTCATCGTTCAACATAATTTTGTTCTATTTTAGGATTTATT
1 TTTTCAGATTAAATTTATTAAATTTTCATCATTCAACAAAAGTTAATTCTATTTGAGGATTTAAT
* *****
17452337 TTATTAAATTTTTATTATTCAAT-AGAAATTAGTTTTG
66 TTATTAAATTTCTGCCGCTCAATGA-AAATTAGTTTTG
* * * * * *
17452374 TTTTCAGATTAAATTTATTAAATTTTCATCGTTCAATAGAAGTTGATTTTATTTTAGGATTTAAT
1 TTTTCAGATTAAATTTATTAAATTTTCATCATTCAACAAAAGTTAATTCTATTTGAGGATTTAAT
*
17452439 TTATTAAATTTCTGCCGCTCAATGAAAATTGGTTTTG
66 TTATTAAATTTCTGCCGCTCAATGAAAATTAGTTTTG
* * * * * * * *
17452476 TTTTGAGATTTAATTTCTTAAATTTTCTTCATTTAACAAAAGTTAATTCTCTTTCGA-GTTTTAG
1 TTTTCAGATTAAATTTATTAAATTTTCATCATTCAACAAAAGTTAATTCTATTT-GAGGATTTAA
17452540 TTTATTAAATT
65 TTTATTAAATT
17452551 CCCATCTTCC
Statistics
Matches: 144, Mismatches: 31, Indels: 4
0.80 0.17 0.02
Matches are distributed among these distances:
102 142 0.99
103 2 0.01
ACGTcount: A:0.30, C:0.08, G:0.10, T:0.52
Consensus pattern (102 bp):
TTTTCAGATTAAATTTATTAAATTTTCATCATTCAACAAAAGTTAATTCTATTTGAGGATTTAAT
TTATTAAATTTCTGCCGCTCAATGAAAATTAGTTTTG
Found at i:17452544 original size:153 final size:152
Alignment explanation
Indices: 17452128--17452550 Score: 385
Period size: 153 Copynumber: 2.8 Consensus size: 152
17452118 ATTTCGTGAA
* * * * * * *
17452128 TTAATTTATTAAATTATCATTGTTCAACAT-AATTGTGTTCCATTTTAGGATATAGTTTATTAAG
1 TTAATTTATTAAATTCTCA-CGCTCAACATAAATTG-GTTCTATTTTAGGATTTAATTTATTAAA
* * * * ** * *
17452192 TTTTTATCATTTAATAGTAATCAATTCTGC-TTCGAGATTTGATTTAGTAAATTTTCATCGTTGA
64 TTTTTATCATTCAACAGAAATTAATTCTGCTTTC-AGATTAAATTTATTAAATTTTCATCGTTCA
17452256 ATAGAAGTTGATTCTATTTTAAGAT
128 ATAGAAGTTGATTCTATTTTAAGAT
* * * *
17452281 TTAATTTATTAAATTCTCATCGTTCAACATAATTTTGTTCTATTTTAGGATTTATTTTATTAAAT
1 TTAATTTATTAAATTCTCA-CGCTCAACATAAATTGGTTCTATTTTAGGATTTAATTTATTAAAT
* * * * *
17452346 TTTTATTATTCAATAGAAATTAGTTTTGTTTTCAGATTAAATTTATTAAATTTTCATCGTTCAAT
65 TTTTATCATTCAACAGAAATTAATTCTGCTTTCAGATTAAATTTATTAAATTTTCATCGTTCAAT
* *
17452411 AGAAGTTGATTTTATTTTAGGAT
130 AGAAGTTGATTCTATTTTAAGAT
* * * *
17452434 TTAATTTATTAAATTTCTGC-CGCTCAATGA-AAATTGGTTTTGTTTT-GAGATTTAATTTCTTA
1 TTAATTTATTAAA-TTCT-CACGCTCAA-CATAAATTGGTTCTATTTTAG-GATTTAATTTATTA
* * * *
17452496 AATTTTCT-TCATTTAACA-AAAGTTAATTCT-CTTTCGAGTTTTAGTTTATTAAATT
62 AATTTT-TATCATTCAACAGAAA-TTAATTCTGCTTTC-AGATTAAATTTATTAAATT
17452551 CCCATCTTCC
Statistics
Matches: 223, Mismatches: 38, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
152 8 0.04
153 202 0.91
154 12 0.05
155 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.50
Consensus pattern (152 bp):
TTAATTTATTAAATTCTCACGCTCAACATAAATTGGTTCTATTTTAGGATTTAATTTATTAAATT
TTTATCATTCAACAGAAATTAATTCTGCTTTCAGATTAAATTTATTAAATTTTCATCGTTCAATA
GAAGTTGATTCTATTTTAAGAT
Found at i:17457409 original size:17 final size:17
Alignment explanation
Indices: 17457387--17457421 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
17457377 TGGTATCGGT
17457387 TCCTAGACCAATACCGA
1 TCCTAGACCAATACCGA
17457404 TCCTAGACCAATACCGA
1 TCCTAGACCAATACCGA
17457421 T
1 T
17457422 ACCATAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.34, C:0.34, G:0.11, T:0.20
Consensus pattern (17 bp):
TCCTAGACCAATACCGA
Found at i:17459821 original size:3 final size:3
Alignment explanation
Indices: 17459813--17459864 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
17459803 GTTTTTTGTC
* * * *
17459813 TAT TAT TATT TAT AAT TTT TAT TTT TAT TAT ATAA TAT TAT TAT TAT
1 TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
17459860 TAT TA
1 TAT TA
17459865 AATAAAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
3 34 0.87
4 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:17459840 original size:22 final size:22
Alignment explanation
Indices: 17459813--17459869 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
17459803 GTTTTTTGTC
17459813 TATTATTATT-TATAAT-TT-T
1 TATTATTATTATATAATATTAT
*
17459832 TATTTTTATTATATAATATTAT
1 TATTATTATTATATAATATTAT
*
17459854 TATTATTATTAAATAA
1 TATTATTATTATATAA
17459870 AAAAATATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 9 0.28
20 6 0.19
21 2 0.06
22 15 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TATTATTATTATATAATATTAT
Found at i:17462543 original size:46 final size:48
Alignment explanation
Indices: 17462456--17462545 Score: 121
Period size: 46 Copynumber: 1.9 Consensus size: 48
17462446 TTTAATTGAT
* * *
17462456 TTTTTCTAAAAAAATGCATGCAAACTAGTAATCATGCGGTTAGGTTAA
1 TTTTTCTAAAAAAATGCATGCAAACTAGAAAACATGAGGTTAGGTTAA
* *
17462504 TTTTTCTAAACAAA-GCATG-GAACTAGAAAACATGAGGTTAGG
1 TTTTTCTAAAAAAATGCATGCAAACTAGAAAACATGAGGTTAGG
17462546 ATTTATACCA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
46 19 0.51
47 5 0.14
48 13 0.35
ACGTcount: A:0.39, C:0.12, G:0.19, T:0.30
Consensus pattern (48 bp):
TTTTTCTAAAAAAATGCATGCAAACTAGAAAACATGAGGTTAGGTTAA
Found at i:17462616 original size:11 final size:10
Alignment explanation
Indices: 17462598--17462642 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 10
17462588 GTACTAACCA
17462598 TTTTATTTTT
1 TTTTATTTTT
17462608 TTCTTATTTTTAT
1 TT-TTA-TTTT-T
17462621 TTTTATTTATT
1 TTTTATTT-TT
17462632 TTTTATTTTT
1 TTTTATTTTT
17462642 T
1 T
17462643 CATACATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
10 5 0.16
11 15 0.48
12 8 0.26
13 3 0.10
ACGTcount: A:0.13, C:0.02, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTATTTTT
Found at i:17462618 original size:17 final size:17
Alignment explanation
Indices: 17462598--17462662 Score: 71
Period size: 16 Copynumber: 3.8 Consensus size: 17
17462588 GTACTAACCA
17462598 TTTTATTTTTTTCTTAT
1 TTTTATTTTTTTCTTAT
*
17462615 TTTTATTTTTAT-TTAT
1 TTTTATTTTTTTCTTAT
* *
17462631 TTTT-TATTTTTTCATACA
1 TTTTAT-TTTTTTCTTA-T
17462649 TTTTATTTTTTTCT
1 TTTTATTTTTTTCT
17462663 AACTTGTTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.03
16 13 0.33
17 13 0.33
18 11 0.28
19 1 0.03
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTATTTTTTTCTTAT
Found at i:17462626 original size:23 final size:23
Alignment explanation
Indices: 17462598--17462641 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
17462588 GTACTAACCA
17462598 TTTTATTT-TTTTCTTATTTTTAT
1 TTTTATTTATTTT-TTATTTTTAT
17462621 TTTTATTTATTTTTTATTTTT
1 TTTTATTTATTTTTTATTTTT
17462642 TCATACATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTATTTATTTTTTATTTTTAT
Found at i:17462658 original size:6 final size:6
Alignment explanation
Indices: 17462598--17462641 Score: 56
Period size: 6 Copynumber: 7.7 Consensus size: 6
17462588 GTACTAACCA
* *
17462598 TTTTAT TTTT-T TCTTAT TTTTAT TTTTAT TTAT-T TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
17462642 TCATACATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 8 0.25
6 24 0.75
ACGTcount: A:0.14, C:0.02, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:17463213 original size:19 final size:19
Alignment explanation
Indices: 17463191--17463228 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
17463181 AAATTCACCC
17463191 AAAGACTGA-AAAATATAGA
1 AAAGA-TGATAAAATATAGA
*
17463210 AAAGATGATAAAATCTAGA
1 AAAGATGATAAAATATAGA
17463229 GAGATGGCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 3 0.18
19 14 0.82
ACGTcount: A:0.61, C:0.05, G:0.16, T:0.18
Consensus pattern (19 bp):
AAAGATGATAAAATATAGA
Found at i:17467415 original size:123 final size:123
Alignment explanation
Indices: 17467192--17467767 Score: 750
Period size: 123 Copynumber: 4.7 Consensus size: 123
17467182 CAAAATGTTT
* * * * * *
17467192 TCAACATTTTCAAAAGGAGTTCATAATAAGAAGAACTCATCTGAAGAGAAAGAAGAAGTCCATCA
1 TCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * * * *
17467257 TTTGAAGAACTTATTCAACATTTTGCTCGACTCTATCACAGAAGGATATAGAGTAACA
66 TCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGAGCAACA
* * *
17467315 TCACCATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAAAAGTTAATAA
1 TCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* *
17467380 TCTGAAGAACTTATTCATCCTTTTGCTTGACTCTATCACAGAAGGAGATAGAGCAGCA
66 TCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGAGCAACA
* * *
17467438 TCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCGTCTGAAGAGGAAGAATAAGTTCATCA
1 TCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
* * *
17467503 TCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCGCAGAAGGAGATAAAACAACA
66 TCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGAGCAACA
* *
17467561 TCAACATTTCTAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGGGGAAGAAGAAGTTCATAA
1 TCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
** **
17467626 TCTGAAGAACTTATTCAACCTTTTGCTCAACT-T-T-ATTGTAA-GAGATAGAGCAACA
66 TCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCACAG-AAGGAGATAGAGCAACA
* * *
17467681 TCAACATTTTCAACAGAA-GAGTTCATAATAAGAAGTACTCATC-CAATGAAGGAAGAAGAAGTT
1 TCAACA-TTTC--CAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAA-G-AGGAAGAAGAAGTT
** *
17467744 CATAATGAGAAGAACTTGTTCAAC
61 CATAATCTGAAGAACTTATTCAAC
17467768 ATTTCTGTCT
Statistics
Matches: 401, Mismatches: 46, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
120 19 0.05
121 9 0.02
122 25 0.06
123 348 0.87
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.26
Consensus pattern (123 bp):
TCAACATTTCCAGAAGGAGTTCGTAATAAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAA
TCTGAAGAACTTATTCAACCTTTTGCTTGACTCTATCACAGAAGGAGATAGAGCAACA
Found at i:17467900 original size:3 final size:3
Alignment explanation
Indices: 17467892--17467938 Score: 71
Period size: 3 Copynumber: 16.0 Consensus size: 3
17467882 TTTTTGTCGT
17467892 TTA TTA TTA TTA TTA TT- TTA TTA TTA TT- TATA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
17467936 TTA
1 TTA
17467939 ATTAAAAATA
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 3 0.07
3 37 0.90
4 1 0.02
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:17469651 original size:15 final size:15
Alignment explanation
Indices: 17469631--17469662 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
17469621 AATTATTAAA
*
17469631 ATTCTCTTACCAGAG
1 ATTCTCTTACAAGAG
17469646 ATTCTCTTACAAGAG
1 ATTCTCTTACAAGAG
17469661 AT
1 AT
17469663 AATTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.34
Consensus pattern (15 bp):
ATTCTCTTACAAGAG
Found at i:17474962 original size:20 final size:22
Alignment explanation
Indices: 17474908--17474964 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
17474898 AATACCCGGG
*
17474908 GAAGTATCGATACCCTAAGAGC
1 GAAGTATCGATACCCTAAGAGA
*
17474930 GAAAGTA-CTGATACCC-AATA-A
1 G-AAGTATC-GATACCCTAAGAGA
17474951 GAAGTATCGATACC
1 GAAGTATCGATACC
17474965 AATGTGAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
20 11 0.37
21 2 0.07
22 5 0.17
23 12 0.40
ACGTcount: A:0.40, C:0.21, G:0.19, T:0.19
Consensus pattern (22 bp):
GAAGTATCGATACCCTAAGAGA
Found at i:17482022 original size:45 final size:45
Alignment explanation
Indices: 17481962--17482319 Score: 493
Period size: 45 Copynumber: 8.0 Consensus size: 45
17481952 ACACATTTTT
* **
17481962 AACTATA-TCATACTTTTCTATTGATAATGCACTGATATGCATTTC
1 AACTATAGT-ATACTTTTCTGTTGATAATGCACCCATATGCATTTC
* * *
17482007 AACTATAGTATACTTTTCTGTTCATAATGCACCCATATGAACTTC
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
* *
17482052 AACTATAGTATACTTTTCTATTGATAATGCACCTATATGCATTTC
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
*
17482097 AACTATAGTATATTTTTCTGTTGATAATGCACCCATATGCATTTC
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
* * *
17482142 AACTATAGTATACTTTTCTGTTGAAAATGTACCCATATACATTTC
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
* * *
17482187 AACTATAGTATACTTTTCTGTTGATAATGTACTCATATACATTTC
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
* *
17482232 AACTATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTC
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
* * ** **
17482277 AACTATAGCATCCTTTTAGGCCGATAATGCACCCATATGCATT
1 AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATT
17482320 ATTATTTTCA
Statistics
Matches: 283, Mismatches: 29, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 282 1.00
46 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (45 bp):
AACTATAGTATACTTTTCTGTTGATAATGCACCCATATGCATTTC
Found at i:17482969 original size:20 final size:22
Alignment explanation
Indices: 17482917--17482970 Score: 80
Period size: 20 Copynumber: 2.6 Consensus size: 22
17482907 GATGTTTACT
17482917 TGGTATCGATAC--CCTTACAA
1 TGGTATCGATACTGCCTTACAA
17482937 TGGTATCGATACTGCC-T-CAA
1 TGGTATCGATACTGCCTTACAA
17482957 TGGTATCGATACTG
1 TGGTATCGATACTG
17482971 ATTCAATCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 1 0.03
22 2 0.06
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (22 bp):
TGGTATCGATACTGCCTTACAA
Found at i:17482976 original size:20 final size:20
Alignment explanation
Indices: 17482934--17482988 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
17482924 GATACCCTTA
*
17482934 CAATGGTATCGATACTGCCT
1 CAATGGTATCGATACTGACT
*
17482954 CAATGGTATCGATACTGATT
1 CAATGGTATCGATACTGACT
*
17482974 CAATCAGTATCGATA
1 CAAT-GGTATCGATA
17482989 TTATACAGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (20 bp):
CAATGGTATCGATACTGACT
Found at i:17484928 original size:9 final size:10
Alignment explanation
Indices: 17484914--17484940 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
17484904 TCATTTCTTC
17484914 TTTTTTCTAT
1 TTTTTTCTAT
17484924 TTTTTTCTAT
1 TTTTTTCTAT
17484934 TTTTTTC
1 TTTTTTC
17484941 AAACTAGTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTCTAT
Found at i:17487846 original size:65 final size:65
Alignment explanation
Indices: 17487752--17487940 Score: 227
Period size: 65 Copynumber: 2.9 Consensus size: 65
17487742 AAACTCTAAG
* * * * *
17487752 TGCATCGGTACACTAATTGTATTCGATGTTTCAA-AAGAGCCAGAAGTGTATCGATGCATTGTCT
1 TGCATCGGTACACAAAATGCATTCAATGTTTCAATAA-AACCAGAAGTGTATCGATGCATTGTCT
17487816 A
65 A
* *
17487817 TGCATCGGTACACAAAATGCATTCAATGTTTCAATAAAACCAGGAGTGTATCGATGCATTGTCTG
1 TGCATCGGTACACAAAATGCATTCAATGTTTCAATAAAACCAGAAGTGTATCGATGCATTGTCTA
* ** * ** * *
17487882 TGCATCGGTACACAAAATGAATTTTATGTTTTAATAAAATAAGGAGTGTACCGATGCAT
1 TGCATCGGTACACAAAATGCATTCAATGTTTCAATAAAACCAGAAGTGTATCGATGCAT
17487941 CCGAGAGTAT
Statistics
Matches: 109, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
65 107 0.98
66 2 0.02
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (65 bp):
TGCATCGGTACACAAAATGCATTCAATGTTTCAATAAAACCAGAAGTGTATCGATGCATTGTCTA
Found at i:17488277 original size:13 final size:13
Alignment explanation
Indices: 17488259--17488292 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
17488249 TAAGATTTTC
17488259 TTTGAAAATCATT
1 TTTGAAAATCATT
*
17488272 TTTG-AAATCGTT
1 TTTGAAAATCATT
17488284 TTTGAAAAT
1 TTTGAAAAT
17488293 TACCCCCCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (13 bp):
TTTGAAAATCATT
Found at i:17490036 original size:13 final size:12
Alignment explanation
Indices: 17490003--17490038 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
17489993 TAATAGACAA
17490003 AATTTTGAAAAC
1 AATTTTGAAAAC
*
17490015 TATTTTGAAAAC
1 AATTTTGAAAAC
17490027 AATGTTTGAAAA
1 AAT-TTTGAAAA
17490039 ATCATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (12 bp):
AATTTTGAAAAC
Found at i:17502490 original size:45 final size:45
Alignment explanation
Indices: 17502356--17502718 Score: 494
Period size: 45 Copynumber: 8.0 Consensus size: 45
17502346 CATTATGTGT
* * *
17502356 TTTCAACAATAGCATACTTTTCTGTTGATAATGCACCCATATGCA
1 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
* * *
17502401 TTTCAACTATAGTATATTTTTTTTGTTGATAATGCACCCATATGCA
1 TTTCAACTATAGTATA-CTTTTCTGTTGATAATGCACCCATATACA
* *
17502447 TTTCAACTATAGTATACTTTTCTATTGATAATGCACCCATATGCA
1 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
* **
17502492 TTTCAACTATAGTATACTTTTCTATTGATAATGCACCCATGCACA
1 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
* **
17502537 TTTCAACTATAGTATACTTTTCTGTTGAAAATATACCCATATACA
1 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
* * *
17502582 TTTCAACTATAGTATACTTTTGTGTTGATAATGTACTCATATACA
1 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
* *
17502627 TTTCAATTATAGTATACTTTTCTGTTGATAATGTACCCATATACA
1 TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
* * * *
17502672 TTTCAACTATAGCAT-CATTTTATGTCGATAATGCACCCATATGCA
1 TTTCAACTATAGTATAC-TTTTCTGTTGATAATGCACCCATATACA
17502717 TT
1 TT
17502719 ATTATTTTCA
Statistics
Matches: 287, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
44 1 0.00
45 243 0.85
46 43 0.15
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (45 bp):
TTTCAACTATAGTATACTTTTCTGTTGATAATGCACCCATATACA
Found at i:17503265 original size:22 final size:20
Alignment explanation
Indices: 17503220--17503276 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 20
17503210 CGATGTTGCC
* *
17503220 TGGTATCGATACCCTTGCTA
1 TGGTATCGATACCCATACTA
17503240 TGGTATCGATACTACCATACTA
1 TGGTATCGATAC--CCATACTA
17503262 TGGTA-CTGATACCCA
1 TGGTATC-GATACCCA
17503277 CTTACGGTAG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 15 0.47
21 1 0.03
22 16 0.50
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (20 bp):
TGGTATCGATACCCATACTA
Found at i:17506827 original size:65 final size:65
Alignment explanation
Indices: 17506733--17506896 Score: 204
Period size: 65 Copynumber: 2.5 Consensus size: 65
17506723 ATTGTATTTG
* * * * * * *
17506733 ATGTTTCAA-AAGAGCCAGAAGAGTATCGATGCATTGTTTGTGCATCGGTACACAAAATGCATTC
1 ATGTTTCAATAA-AACCAGGAGTGTATCGATGCATTGTCTATACATCGGTACACAAAATGAATTC
17506797 A
65 A
* *
17506798 ATGTTTCAATAAAACCAGGAGTGTATCGATGAATTGTCTATACATCGGTACACAAAATGAATTCG
1 ATGTTTCAATAAAACCAGGAGTGTATCGATGCATTGTCTATACATCGGTACACAAAATGAATTCA
* **
17506863 ATGTTTTAATAAAATAAGGAGTGTATCGATGCAT
1 ATGTTTCAATAAAACCAGGAGTGTATCGATGCAT
17506897 CCAAGAGTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
65 83 0.98
66 2 0.02
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (65 bp):
ATGTTTCAATAAAACCAGGAGTGTATCGATGCATTGTCTATACATCGGTACACAAAATGAATTCA
Found at i:17506909 original size:20 final size:20
Alignment explanation
Indices: 17506881--17506918 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
17506871 ATAAAATAAG
* *
17506881 GAGTGTATCGATGCATCCAA
1 GAGTATATCGATACATCCAA
17506901 GAGTATATCGATACATCC
1 GAGTATATCGATACATCC
17506919 CTTTGTACAT
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:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (20 bp):
GAGTATATCGATACATCCAA
Found at i:17507233 original size:13 final size:13
Alignment explanation
Indices: 17507215--17507248 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
17507205 TAAGATTTTC
17507215 TTTGAAAATCATT
1 TTTGAAAATCATT
*
17507228 TTTG-AAATCGTT
1 TTTGAAAATCATT
17507240 TTTGAAAAT
1 TTTGAAAAT
17507249 TACTCCCGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.47
Consensus pattern (13 bp):
TTTGAAAATCATT
Found at i:17509005 original size:13 final size:12
Alignment explanation
Indices: 17508972--17509007 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
17508962 AAATGGGCAA
17508972 AATTTTGAAAAC
1 AATTTTGAAAAC
*
17508984 TATTTTGAAAAC
1 AATTTTGAAAAC
17508996 AATGTTTGAAAA
1 AAT-TTTGAAAA
17509008 ATCATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (12 bp):
AATTTTGAAAAC
Found at i:17511193 original size:26 final size:26
Alignment explanation
Indices: 17511150--17511220 Score: 88
Period size: 26 Copynumber: 2.7 Consensus size: 26
17511140 TCCTAGAACA
* * **
17511150 CCCATGTGCTTTGTATATGATTAGCC
1 CCCATGTGCCTTGCATATGACCAGCC
* *
17511176 CCCGTGTGTCTTGCATATGACCAGCC
1 CCCATGTGCCTTGCATATGACCAGCC
17511202 CCCATGTGCCTTGCATATG
1 CCCATGTGCCTTGCATATG
17511221 GGTTCATTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.17, C:0.30, G:0.21, T:0.32
Consensus pattern (26 bp):
CCCATGTGCCTTGCATATGACCAGCC
Found at i:17512106 original size:27 final size:29
Alignment explanation
Indices: 17512045--17512109 Score: 91
Period size: 26 Copynumber: 2.3 Consensus size: 29
17512035 AAAGAAAATC
17512045 AGAAAAGAAATTGAAGCACTCCAAAAGAA
1 AGAAAAGAAATTGAAGCACTCCAAAAGAA
* *
17512074 AG-AAAGAAATT-CAGCA-TTCAAAAGAA
1 AGAAAAGAAATTGAAGCACTCCAAAAGAA
17512100 AGAAAAGAAA
1 AGAAAAGAAA
17512110 AGAAAGAAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 11 0.33
27 11 0.33
28 9 0.27
29 2 0.06
ACGTcount: A:0.62, C:0.11, G:0.17, T:0.11
Consensus pattern (29 bp):
AGAAAAGAAATTGAAGCACTCCAAAAGAA
Found at i:17515500 original size:26 final size:26
Alignment explanation
Indices: 17515463--17515528 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
17515453 CTAGAACACT
* *
17515463 CATGTGCTTTGCATATGATCAGCCCC
1 CATGTGCCTTGCATATGACCAGCCCC
17515489 CATGTGCCTTGCATATGACCAGCCCC
1 CATGTGCCTTGCATATGACCAGCCCC
17515515 CATGTGCCTTGCAT
1 CATGTGCCTTGCAT
17515529 GTGGGTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.18, C:0.33, G:0.20, T:0.29
Consensus pattern (26 bp):
CATGTGCCTTGCATATGACCAGCCCC
Found at i:17521424 original size:62 final size:63
Alignment explanation
Indices: 17521325--17521469 Score: 204
Period size: 62 Copynumber: 2.3 Consensus size: 63
17521315 TCAAAAGTCC
* *
17521325 CAGGAGTGTATCGATGCATTGTCTGTACATCAGTACACAAAAT-T-CGATGTTTTAATAAAAT
1 CAGGAGTGTATCGATGCAGTGTCTGTACATCAGTACACAAAATATACGATATTTTAATAAAAT
* *
17521386 CAGGAGTGTATTCGATGCAGTGTCTGTGCATCGGTACACAAAATGCATACGATATTTTAATAAAA
1 CAGGAGTGTA-TCGATGCAGTGTCTGTACATCAGTACACAAAAT--ATACGATATTTTAATAAAA
17521451 T
63 T
*
17521452 AAGGAGTGTATCGATGCA
1 CAGGAGTGTATCGATGCA
17521470 TACAAGAGTG
Statistics
Matches: 74, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
61 10 0.14
62 30 0.41
65 9 0.12
66 25 0.34
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.30
Consensus pattern (63 bp):
CAGGAGTGTATCGATGCAGTGTCTGTACATCAGTACACAAAATATACGATATTTTAATAAAAT
Found at i:17527286 original size:45 final size:45
Alignment explanation
Indices: 17527198--17527583 Score: 547
Period size: 45 Copynumber: 8.6 Consensus size: 45
17527188 GCTCCATTTA
* ** ** *
17527198 TGTTTATAATGCACCTTTATGCATTTTCAACTATAACATACTTTTA
1 TGTTGATAATGCACCCATATGCA-TTTCAACTATAGTATACTTTTC
*
17527244 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTT
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
17527289 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
*
17527334 TATTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
*
17527379 TATTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* * *
17527424 TGTTGAAAATGTACCCATATACATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* * *
17527469 TGTTGATAATGTACTCATATACATTTCAACTATAGTATACTTTTC
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
* * * * *
17527514 TGTTGATAATGTACCCATATACATTTCAACTATAGCATCCTTTTA
1 TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
** * *
17527559 TGCCGATATTGCAGCCATATGCATT
1 TGTTGATAATGCACCCATATGCATT
17527584 ATTATTTTTA
Statistics
Matches: 316, Mismatches: 24, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
45 296 0.94
46 20 0.06
ACGTcount: A:0.30, C:0.19, G:0.10, T:0.41
Consensus pattern (45 bp):
TGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTC
Found at i:17531400 original size:29 final size:29
Alignment explanation
Indices: 17531368--17531428 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
17531358 GAACTAGTTT
*
17531368 GACGACATAATTTTTTCAAGCATTGGCTC
1 GACGACATAATTTTTTCAAGAATTGGCTC
17531397 GACGACATAATTTTTTCAAGAATTGGCTC
1 GACGACATAATTTTTTCAAGAATTGGCTC
17531426 GAC
1 GAC
17531429 AATATAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.33
Consensus pattern (29 bp):
GACGACATAATTTTTTCAAGAATTGGCTC
Found at i:17531435 original size:29 final size:29
Alignment explanation
Indices: 17531372--17531436 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
17531362 TAGTTTGACG
* *
17531372 ACATAATTTTTTCAAGCATTGGCTCGACG
1 ACATAATTTTTTCAAGAATTGGCTCGACA
17531401 ACATAATTTTTTCAAGAATTGGCTCGACA
1 ACATAATTTTTTCAAGAATTGGCTCGACA
*
17531430 ATATAAT
1 ACATAAT
17531437 ATAAACGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.34, C:0.17, G:0.14, T:0.35
Consensus pattern (29 bp):
ACATAATTTTTTCAAGAATTGGCTCGACA
Found at i:17534036 original size:13 final size:13
Alignment explanation
Indices: 17534018--17534043 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
17534008 TTTGTTAACC
17534018 CATAGAAATTTTA
1 CATAGAAATTTTA
17534031 CATAGAAATTTTA
1 CATAGAAATTTTA
17534044 TTTTGCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
CATAGAAATTTTA
Found at i:17534778 original size:130 final size:130
Alignment explanation
Indices: 17534540--17534791 Score: 378
Period size: 130 Copynumber: 1.9 Consensus size: 130
17534530 ACAAACTTGA
*
17534540 TTAGTGAAAGCTATTAGGGTAAATTACTCAAATGACCACTAAACTATGGGGTCGGTGTCGATATG
1 TTAGTGAAAGCTAATAGGGTAAATTACTCAAATGACCACTAAACTATGGGGTCGGTGTCGATATG
* *
17534605 ACCACCATACTTTCAATTTTGTCAACATAACCACATAATTATTTAAGTTGATTCAATATACTCGT
66 ACCACCATACTTTCAATTTTGTAAACATAACCACATAACTATTTAAGTTGATTCAATATACTCGT
* * * * * * *
17534670 TTAGTGAGAGTTAATAGGGTAGATTGCTCAAATGACTACTTAATTATGGGGTCGGTGTCGATATG
1 TTAGTGAAAGCTAATAGGGTAAATTACTCAAATGACCACTAAACTATGGGGTCGGTGTCGATATG
* * * *
17534735 ACCACCATACTTTTAATTTTGTAAATATGACCACATAACTATTTAAGTTGTTTCAAT
66 ACCACCATACTTTCAATTTTGTAAACATAACCACATAACTATTTAAGTTGATTCAAT
17534792 GTAGCCAGTG
Statistics
Matches: 108, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (130 bp):
TTAGTGAAAGCTAATAGGGTAAATTACTCAAATGACCACTAAACTATGGGGTCGGTGTCGATATG
ACCACCATACTTTCAATTTTGTAAACATAACCACATAACTATTTAAGTTGATTCAATATACTCGT
Found at i:17534785 original size:29 final size:29
Alignment explanation
Indices: 17534730--17534785 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 29
17534720 GTCGGTGTCG
*
17534730 ATATGACCACCATACTTTTAATTTTGTAA
1 ATATGACCACCATACTTTTAATGTTGTAA
17534759 ATATGACCA-CATAACTATTTAA-GTTGT
1 ATATGACCACCAT-ACT-TTTAATGTTGT
17534786 TTCAATGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.12
29 16 0.67
30 5 0.21
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.39
Consensus pattern (29 bp):
ATATGACCACCATACTTTTAATGTTGTAA
Found at i:17536434 original size:9 final size:9
Alignment explanation
Indices: 17536420--17536445 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
17536410 TAAAATATGA
17536420 AGTTTAAGG
1 AGTTTAAGG
17536429 AGTTTAAGG
1 AGTTTAAGG
17536438 AGTTTAAG
1 AGTTTAAG
17536446 CACGAGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (9 bp):
AGTTTAAGG
Found at i:17539599 original size:23 final size:23
Alignment explanation
Indices: 17539573--17539617 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
17539563 AAATAAGAAT
17539573 ATAATATCA-TATATTATTATAAC
1 ATAAT-TCAGTATATTATTATAAC
*
17539596 ATAATTGAGTATATTATTATAA
1 ATAATTCAGTATATTATTATAA
17539618 TTTTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.44
Consensus pattern (23 bp):
ATAATTCAGTATATTATTATAAC
Found at i:17539646 original size:23 final size:22
Alignment explanation
Indices: 17539605--17539663 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
17539595 CATAATTGAG
*
17539605 TATATTATTATAATT-TTAAAATA
1 TATAATATTAT-ATTATTAAAA-A
*
17539628 TATAATATTATATTATTAATAA
1 TATAATATTATATTATTAAAAA
*
17539650 T-TAATATTTTATTA
1 TATAATATTATATTA
17539664 AAATAATATT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 12 0.38
22 5 0.16
23 15 0.47
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
TATAATATTATATTATTAAAAA
Found at i:17539670 original size:16 final size:18
Alignment explanation
Indices: 17539640--17539673 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
17539630 TAATATTATA
17539640 TTATTAATAATTAATATT
1 TTATTAATAATTAATATT
17539658 TTATTAA-AA-TAATATT
1 TTATTAATAATTAATATT
17539674 AAAATATGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTAATAATTAATATT
Found at i:17540434 original size:29 final size:29
Alignment explanation
Indices: 17540397--17540496 Score: 173
Period size: 29 Copynumber: 3.4 Consensus size: 29
17540387 TAAAACATGC
* **
17540397 AAAGAAACAAACTTCGGTAGTACATGCAA
1 AAAGAAACAAACTCCGACAGTACATGCAA
17540426 AAAGAAACAAACTCCGACAGTACATGCAA
1 AAAGAAACAAACTCCGACAGTACATGCAA
17540455 AAAGAAACAAACTCCGACAGTACATGCAA
1 AAAGAAACAAACTCCGACAGTACATGCAA
17540484 AAAGAAACAAACT
1 AAAGAAACAAACT
17540497 TGAGAACAAA
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 68 1.00
ACGTcount: A:0.53, C:0.21, G:0.14, T:0.12
Consensus pattern (29 bp):
AAAGAAACAAACTCCGACAGTACATGCAA
Found at i:17542152 original size:19 final size:19
Alignment explanation
Indices: 17542128--17542165 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
17542118 ACACCGAAGC
17542128 TTGATTCATATACATATGG
1 TTGATTCATATACATATGG
17542147 TTGATTCATATACATATGG
1 TTGATTCATATACATATGG
17542166 CCTGCCTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.42
Consensus pattern (19 bp):
TTGATTCATATACATATGG
Found at i:17544051 original size:23 final size:23
Alignment explanation
Indices: 17543983--17544055 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
17543973 ATAGGTAAAA
* **
17543983 ATATGATGTAATAGGTAGCACTT
1 ATATAATGTAATAGGTAGCGTTT
*
17544006 ATATAATATAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGTTT
*
17544029 ATATAATGTAATAGGTAGTGTTT
1 ATATAATGTAATAGGTAGCGTTT
17544052 ATAT
1 ATAT
17544056 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGTTT
Found at i:17544504 original size:23 final size:23
Alignment explanation
Indices: 17544473--17544545 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
17544463 ATAGGTAAAA
*
17544473 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
17544496 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
17544519 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
17544542 ATAT
1 ATAT
17544546 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:17544993 original size:23 final size:23
Alignment explanation
Indices: 17544962--17545034 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
17544952 ATAGGTAAAA
*
17544962 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
17544985 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
17545008 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
17545031 ATAT
1 ATAT
17545035 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:17545125 original size:489 final size:489
Alignment explanation
Indices: 17543560--17547399 Score: 6627
Period size: 490 Copynumber: 7.8 Consensus size: 489
17543550 TTTTTACCAG
* * * *
17543560 TTATATTATAAAGTATCTATTCTTTTTATAAATGTGTCCATACTTTTTTCACTGTGGAAAACATG
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
17543625 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAACGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
17543690 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTAAATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17543755 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAA-TACCAAATAATATTTTATAAAATATCAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTA-TAAATAATATTTTATAAAATATCAA
*
17543819 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
*
17543884 ACAC-AGTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCATTTTTAT
325 ACACTA-TTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTAT
* *
17543948 AAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAAT
388 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
* *
17544013 ATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGT
453 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
17544050 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
17544115 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAAATATTAATTTAGTAATTATAGGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
17544180 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
17544245 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAA-TACTAAATAATATTTTATAAAATATCAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTA-TAAATAATATTTTATAAAATATCAA
* *
17544309 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACACGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
* * *
17544374 ACACTGTTAAAAAAAATTGAAACATAAATTAGATAACTTTAAAAAAAATATCGATCCTTTTTATA
325 ACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATA
17544439 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
389 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
17544504 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
454 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
17544540 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * ** *
17544605 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATTTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
17544670 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAAGATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17544735 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
17544800 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
17544865 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
17544930 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
17544995 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
17545029 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * **
17545094 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
17545159 TTATTTTTTATGTTACGGTTTATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
* *
17545224 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
17545289 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
17545354 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAAAGTATCGATCCTTTTTAT
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTT---AAAAAAAGTATCGATCCTTTTTAT
* *
17545419 AAAAAGTATGGATACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGTGCTTATATAAT
388 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
*
17545484 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGCGC
453 GTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
17545521 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
17545586 AATTTAAGTTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
17545651 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17545716 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
* * *
17545781 ACAATCAAATTATTTTTTGTGCAAATGAAATTATTAAATTATTATTGTATGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
17545846 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTATAA
* * *
17545911 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGTGCTTATATAATAT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
17545976 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
17546011 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTTACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * *
17546076 AATTTAAGGTTATCTTTTGATTGAGTTTTATGATATTAATTTAGTAATAATAGGTGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
17546141 TTATTTTTTACGTTACAGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17546206 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
* * *
17546271 ACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
* *
17546336 CACTATTAAAAAAATTAAAACATAAATTAAATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
* *
17546401 AAGTATGGACACTTTCAATATAATATGTAAAAATATGATGTAATATGTAGCGCTTATATAATGTA
391 AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
*
17546466 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGG
456 ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
*
17546500 TTATATTGTAAAGTATAC-ATCCTTTATATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
1 TTATATTGTAAAGTAT-CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
17546564 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
65 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
17546629 TTTATTTTTTACGTTACGG--TATA-TATTATTAAATTAAAAACAATAAACATATATATTACATA
130 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
17546691 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAA
* * *
17546756 AACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
* *
17546821 ACACTATTAAAAAAATTAAAACATAAATTAAATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAA
17546886 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
390 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
17546951 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
455 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
* *
17546986 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACACT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * * **
17547051 AATTTAAGGTTATCTTTTAAGTGA-TTTTAAGATATCAATTTAGTAATTATATGTATCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
17547115 TTATTTTTTATGTTACAGTATATATTATCATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAAC----ATA-T--ATAT
* *
17547180 TACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATATTATTTTATAAAA
189 TACATATTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAA
*
17547245 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATTTTGTAGGTGGAAAA
254 TATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAA
*
17547310 CATAAAACACTATT-AAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTT
319 CATGAAACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTT
* *
17547374 TTATAAAAAAGTATGTACATTTTCAA
384 TTAT-AAAAAGTATGGACACTTTCAA
17547400 CATATTATAA
Statistics
Matches: 3212, Mismatches: 119, Indels: 33
0.95 0.04 0.01
Matches are distributed among these distances:
485 53 0.02
486 414 0.13
487 8 0.00
488 24 0.01
489 770 0.24
490 1222 0.38
491 32 0.01
492 475 0.15
493 1 0.00
494 52 0.02
495 161 0.05
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (489 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAA
AAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTA
ATAGGTAGCGTTTATATAATGTAATAGGTAGTGC
Found at i:17545299 original size:979 final size:979
Alignment explanation
Indices: 17543560--17547399 Score: 6674
Period size: 979 Copynumber: 3.9 Consensus size: 979
17543550 TTTTTACCAG
* * * *
17543560 TTATATTATAAAGTATCTATTCTTTTTATAAATGTGTCCATACTTTTTTCACTGTGGAAAACATG
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
*
17543625 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAACGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
*
17543690 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTAAATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17543755 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAA-TACCAAATAATATTTTATAAAATATCAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTA-TAAATAATATTTTATAAAATATCAA
*
17543819 AACAATCAAATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
*
17543884 ACAC-AGTTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCATTTTTAT
325 ACACTA-TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTAT
* *
17543948 AAAAAGTATGAACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCACTTATATAAT
389 AAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAAT
*
17544013 ATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGTTTATATTGTAAAGTATCTATCCTTTTTA
454 ATAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTA
17544078 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
519 TAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTT
* * ** *
17544143 TAAAATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTAT
584 TAAGATATCAATTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACAGTATATATTAT
*
17544208 TATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTA
649 CATTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTA
* *
17544273 AATTTAAATACTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGTAAATGA
714 AATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGA
* *
17544338 AATTATTAAATTAATATTGTAGGTGGAAAACACGAAACACTGTTAAAAAAAATTGAAACATAAAT
779 AATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAAT
*
17544403 TAGATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
843 TACATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
17544468 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
908 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
17544533 GTAGTGC
973 GTAGTGC
* *
17544540 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTACATACTTTTTTCACTGTGAAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * ** *
17544605 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATCAATTTAGTAATTATATGTATTTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
* * *
17544670 TTATTTTTTATGTTACGGTATATATTATCATTAAATTAAAAACAATAAAGATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17544735 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
17544800 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
17544865 CACTATTAAAAAAATTGAAACATAAATTACATAACTTT-AAAAAAAGTATCGATCCTTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAA
*
17544929 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGT
391 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATAT
17544994 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
456 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
*
17545059 AAAGTGTCCATACTTTTTTTACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
521 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
* * * *
17545124 AGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTATGTTACGGTTTATATTATCA
586 AGATATCAATTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACAGTATATATTATCA
17545189 TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
651 TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
*
17545254 TTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAA
716 TTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAA
17545319 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTAC
781 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTAC
*
17545384 ATAACTTTAAAAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGATACTTTCAATATAATAGG
846 ATAACTTT--AAAAAAAA-TATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGG
*
17545449 TAAAAATATGATGTAATAGGTAGTGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
908 TAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAG
*
17545514 GTAGCGC
973 GTAGTGC
*
17545521 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTATCCATACTTTTTTCACTGTGGAAAACATT
1 TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
* * *
17545586 AATTTAAGTTTATATTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAATGAT
66 AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
17545651 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
131 TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
*
17545716 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATATTATTTTATAAAATATCAAA
196 TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
* * *
17545781 ACAATCAAATTATTTTTTGTGCAAATGAAATTATTAAATTATTATTGTATGTGGAAAACATGAAA
261 ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
17545846 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAA
326 CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAA
* *
17545911 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGTGCTTATATAATAT
391 AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATAT
17545976 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
456 AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
* *
17546041 AAAGTGTCCATACTTTTTTTACTGTGGAAAACATTAATTTAAGGTTATCTTTTGATTGAGTTTTA
521 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
* * * * *
17546106 TGATATTAATTTAGTAATAATAGGTGTCTAATGATTTATTTTTTACGTTACAGTATATATTATTA
586 AGATATCAATTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACAGTATATATTATCA
17546171 TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
651 TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
* *
17546236 TTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATATTTTTTTGTGTAAATGAAA
716 TTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAA
* * *
17546301 TTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAAATTAAAACATAAATTAA
781 TTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTAC
* *
17546366 ATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATATGTAA
846 ATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAA
*
17546431 AAATATGATGTAATATGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTA
911 AAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTA
*
17546496 GTGG
976 GTGC
*
17546500 TTATATTGTAAAGTATAC-ATCCTTTATATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
1 TTATATTGTAAAGTAT-CTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACAT
17546564 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
65 TAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGA
17546629 TTTATTTTTTACGTTACGG--TATA-TATTATTAAATTAAAAACAATAAACATATATATTACATA
130 TTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATA
*
17546691 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAA
195 TTTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAA
* * *
17546756 AACAATCAAATATTTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAA
260 AACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAA
* *
17546821 ACACTATTAAAAAAATTAAAACATAAATTAAATAACTTT-AAAAAAAGTATCGATCCTTTTTATA
325 ACACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATA
*
17546885 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATG
390 AAAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATA
17546950 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTAT
455 TAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTAT
* * *
17547015 AAAAGTGTCCATACTTATTTCACTGTGGAAAACACTAATTTAAGGTTATCTTTTAAGTGA-TTTT
520 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
* *
17547079 AAGATATCAATTTAGTAATTATATGTATCTAATGATTTATTTTTTATGTTACAGTATATATTATC
585 AAGATATCAATTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACAGTATATATTATC
17547144 ATTAAATTAAAAACAATAAACATATATATTACATATTACATATTTATTATTATCTTTGGTTAATA
650 ATTAAATTAAAAACAATAAAC----ATA-T--ATATTACATATTTATTATTATCTTTGGTTAATA
*
17547209 TTGTTAAATTTAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
708 TTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC
* *
17547274 AAATGAAATTATTAAATTAATTTTGTAGGTGGAAAACATAAAACACTATT-AAAAAATTGAAACA
773 AAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACA
* * *
17547338 TAAATTACATAACTTTAAAAAAAGTATCGATCCTTTTTATAAAAAAGTATGTACATTTTCAA
838 TAAATTACATAACTTTAAAAAAAATATCGATCCTTTTTAT-AAAAAGTATGGACACTTTCAA
17547400 CATATTATAA
Statistics
Matches: 2722, Mismatches: 123, Indels: 29
0.95 0.04 0.01
Matches are distributed among these distances:
974 83 0.03
975 207 0.08
976 198 0.07
977 4 0.00
978 33 0.01
979 693 0.25
980 407 0.15
981 627 0.23
982 470 0.17
ACGTcount: A:0.41, C:0.08, G:0.11, T:0.41
Consensus pattern (979 bp):
TTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATT
AATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTACATAT
TTATTATTATCTTTGGTTAATATTGTTAAATTTAAATTATAAATAATATTTTATAAAATATCAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAA
CACTATTAAAAAAATTGAAACATAAATTACATAACTTTAAAAAAAAGTATCGATCCTTTTTATAA
AAAGTATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATAT
AATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATCTATCCTTTTTATA
AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
AGATATCAATTTAGTAATTATAGGTATCTAATGATTTATTTTTTACGTTACAGTATATATTATCA
TTAAATTAAAAACAATAAACATATATATTACATATTTATTATTATCTTTGGTTAATATTGTTAAA
TTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAA
TTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAACATAAATTAC
ATAACTTTAAAAAAAATATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAA
AAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTA
GTGC
Found at i:17545485 original size:23 final size:23
Alignment explanation
Indices: 17545454--17545526 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
17545444 ATAGGTAAAA
* *
17545454 ATATGATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
17545477 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
17545500 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
17545523 ATAT
1 ATAT
17545527 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:17545978 original size:23 final size:23
Alignment explanation
Indices: 17545952--17546016 Score: 103
Period size: 23 Copynumber: 2.8 Consensus size: 23
17545942 ACATATGATG
17545952 TAATAGGTAGTGCTTATATAATA
1 TAATAGGTAGTGCTTATATAATA
* * *
17545975 TAATAGGTAGCGTTTATATAATG
1 TAATAGGTAGTGCTTATATAATA
17545998 TAATAGGTAGTGCTTATAT
1 TAATAGGTAGTGCTTATAT
17546017 TGTAAAGTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.35, C:0.05, G:0.20, T:0.40
Consensus pattern (23 bp):
TAATAGGTAGTGCTTATATAATA
Found at i:17546020 original size:21 final size:22
Alignment explanation
Indices: 17545944--17546021 Score: 95
Period size: 23 Copynumber: 3.5 Consensus size: 22
17545934 ATAGGTAAAC
17545944 ATATGATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGTGCTT
* * *
17545967 ATATAATATAATAGGTAGCGTTT
1 ATAT-ATGTAATAGGTAGTGCTT
17545990 ATATAATGTAATAGGTAGTGCTT
1 ATAT-ATGTAATAGGTAGTGCTT
17546013 ATAT-TGTAA
1 ATATATGTAA
17546022 AGTATCTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.10
23 43 0.90
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATATATGTAATAGGTAGTGCTT
Found at i:17546464 original size:23 final size:23
Alignment explanation
Indices: 17546433--17546505 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
17546423 ATATGTAAAA
* *
17546433 ATATGATGTAATATGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
17546456 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
17546479 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
17546502 ATAT
1 ATAT
17546506 TGTAAAGTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:17546950 original size:23 final size:23
Alignment explanation
Indices: 17546919--17546991 Score: 119
Period size: 23 Copynumber: 3.2 Consensus size: 23
17546909 ATAGGTAAAA
*
17546919 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
17546942 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
17546965 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
17546988 ATAT
1 ATAT
17546992 TGTAAAGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 46 1.00
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:17551443 original size:10 final size:10
Alignment explanation
Indices: 17551430--17551470 Score: 50
Period size: 9 Copynumber: 4.2 Consensus size: 10
17551420 AGTTTTCCTA
17551430 TTTTTCATTT
1 TTTTTCATTT
17551440 TTTTTCA-TT
1 TTTTTCATTT
*
17551449 TTTTTGATTAT
1 TTTTTCATT-T
17551460 TTTTT-ATTT
1 TTTTTCATTT
17551469 TT
1 TT
17551471 ATTTTTAGGT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
9 11 0.39
10 11 0.39
11 6 0.21
ACGTcount: A:0.12, C:0.05, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:17554799 original size:24 final size:22
Alignment explanation
Indices: 17554761--17554812 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
17554751 AACACTTAAT
17554761 TCCTAATTAATAATAAGCTAAAAA
1 TCCTAATTAATAATAA--TAAAAA
*
17554785 TCCTAA-TAATAAATAATTAAAA
1 TCCTAATTAAT-AATAATAAAAA
17554807 TCCTAA
1 TCCTAA
17554813 GTAAACTAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 11 0.42
23 4 0.15
24 11 0.42
ACGTcount: A:0.54, C:0.13, G:0.02, T:0.31
Consensus pattern (22 bp):
TCCTAATTAATAATAATAAAAA
Found at i:17555739 original size:13 final size:13
Alignment explanation
Indices: 17555713--17555750 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
17555703 TCTCTTATCT
17555713 TTTCTTTTTC-GA
1 TTTCTTTTTCTGA
17555725 TTTCTTTTTCTGA
1 TTTCTTTTTCTGA
*
17555738 TTTTTTTGTTCTG
1 TTTCTTT-TTCTG
17555751 TTAGAACCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 8 0.35
14 5 0.22
ACGTcount: A:0.05, C:0.13, G:0.11, T:0.71
Consensus pattern (13 bp):
TTTCTTTTTCTGA
Found at i:17562503 original size:23 final size:24
Alignment explanation
Indices: 17562477--17562522 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
17562467 ATCTTTTCTT
*
17562477 TTCTTTTTGT-TTTCTAGAATTCA
1 TTCTTTTGGTGTTTCTAGAATTCA
17562500 TTCTTTTGGTGTTTCTAGAATTC
1 TTCTTTTGGTGTTTCTAGAATTC
17562523 TTCACTTTTC
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:0.13, G:0.13, T:0.59
Consensus pattern (24 bp):
TTCTTTTGGTGTTTCTAGAATTCA
Found at i:17562552 original size:20 final size:21
Alignment explanation
Indices: 17562527--17562584 Score: 66
Period size: 20 Copynumber: 2.7 Consensus size: 21
17562517 GAATTCTTCA
17562527 CTTTTCTTTCTCTTT-TTCTT
1 CTTTTCTTTCTCTTTATTCTT
*
17562547 CTTTTCTTTCTTTCTTTATTTTT
1 CTTTTCTTTC--TCTTTATTCTT
17562570 CTTTTCATTT-TCTTT
1 CTTTTC-TTTCTCTTT
17562585 GCACTAATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
20 10 0.30
21 5 0.15
22 5 0.15
23 10 0.30
24 3 0.09
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (21 bp):
CTTTTCTTTCTCTTTATTCTT
Found at i:17562561 original size:24 final size:24
Alignment explanation
Indices: 17562529--17562584 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
17562519 ATTCTTCACT
17562529 TTTCTTTCTCTT-TTTCTTCTTTTC-
1 TTTCTTTCT-TTATTT-TTCTTTTCA
17562553 TTTCTTTCTTTATTTTTCTTTTCA
1 TTTCTTTCTTTATTTTTCTTTTCA
17562577 TTTTCTTT
1 -TTTCTTT
17562585 GCACTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 10 0.34
24 12 0.41
25 7 0.24
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.77
Consensus pattern (24 bp):
TTTCTTTCTTTATTTTTCTTTTCA
Found at i:17562928 original size:19 final size:19
Alignment explanation
Indices: 17562904--17562970 Score: 98
Period size: 19 Copynumber: 3.5 Consensus size: 19
17562894 ATGATGATGG
17562904 TGAAAAAAGGAAGATAATA
1 TGAAAAAAGGAAGATAATA
*
17562923 TGAAAAAAAAGAAGATAATA
1 TG-AAAAAAGGAAGATAATA
*
17562943 TGAATAAAGGAAGATAATA
1 TGAAAAAAGGAAGATAATA
*
17562962 TGAATAAAG
1 TGAAAAAAG
17562971 ATTTGATAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 26 0.59
20 18 0.41
ACGTcount: A:0.63, C:0.00, G:0.19, T:0.18
Consensus pattern (19 bp):
TGAAAAAAGGAAGATAATA
Found at i:17562931 original size:20 final size:20
Alignment explanation
Indices: 17562906--17562965 Score: 95
Period size: 20 Copynumber: 3.0 Consensus size: 20
17562896 GATGATGGTG
17562906 AAAAAAGGAAGATAATATGA
1 AAAAAAGGAAGATAATATGA
*
17562926 AAAAAAAGAAGATAATATG-
1 AAAAAAGGAAGATAATATGA
*
17562945 AATAAAGGAAGATAATATGA
1 AAAAAAGGAAGATAATATGA
17562965 A
1 A
17562966 TAAAGATTTG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 17 0.47
20 19 0.53
ACGTcount: A:0.65, C:0.00, G:0.18, T:0.17
Consensus pattern (20 bp):
AAAAAAGGAAGATAATATGA
Found at i:17564079 original size:49 final size:49
Alignment explanation
Indices: 17563943--17564081 Score: 129
Period size: 49 Copynumber: 2.8 Consensus size: 49
17563933 AACATCAACC
** * *
17563943 TCCAAAGGGTTTGAACGCTCTTAAACGAGC-CTGCCCTCAAATAAAGAGC
1 TCCAAAGGGTTTGAACGCTCCCAAGCGAGCTC-GCCCTCAAATAAAGAGA
** * * *** *
17563992 TCCAAATAGTTTTAATGCTCCCAAGCGAGCTTTTCCTCAAATGAAA-ATA
1 TCCAAAGGGTTTGAACGCTCCCAAGCGAGCTCGCCCTCAAAT-AAAGAGA
*
17564041 TCCAAAGGGTTTGAACGCTCCCAAGTGAGCTCGCCCTCAAA
1 TCCAAAGGGTTTGAACGCTCCCAAGCGAGCTCGCCCTCAAA
17564082 GAACTCTCTA
Statistics
Matches: 68, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
49 65 0.96
50 3 0.04
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (49 bp):
TCCAAAGGGTTTGAACGCTCCCAAGCGAGCTCGCCCTCAAATAAAGAGA
Found at i:17564558 original size:47 final size:45
Alignment explanation
Indices: 17564498--17564689 Score: 154
Period size: 46 Copynumber: 4.2 Consensus size: 45
17564488 AGTTTGCCCC
* *
17564498 CAATAAAATCTTAAAAAGGTTCATCTCTCCAAAGTAATCTCACCCT
1 CAATAAAATCTT-AAAAGGTTCATCTCTCCCAAGTGATCTCACCCT
** * *
17564544 CAATAAAATCCTT-AAAGGTTTTTACACTCCCAAGTGAGCTCACCCT
1 CAATAAAAT-CTTAAAAGGTTCAT-CTCTCCCAAGTGATCTCACCCT
* * * *
17564590 CAATAAATTCTTTAGAGGGTTCAT-TGTTCCCAAGTGATCTCACCCT
1 CAATAAAATC-TTAAAAGGTTCATCT-CTCCCAAGTGATCTCACCCT
* ** * * * **
17564636 CAATAAATTCTTTGGAGGGTTCAACGCTCCCAAGTGAGATCACCCT
1 CAATAAAATC-TTAAAAGGTTCATCTCTCCCAAGTGATCTCACCCT
17564682 CAATAAAA
1 CAATAAAA
17564690 ACTCCAAAGG
Statistics
Matches: 119, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
45 9 0.08
46 101 0.85
47 9 0.08
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (45 bp):
CAATAAAATCTTAAAAGGTTCATCTCTCCCAAGTGATCTCACCCT
Found at i:17564701 original size:92 final size:92
Alignment explanation
Indices: 17564529--17564703 Score: 215
Period size: 92 Copynumber: 1.9 Consensus size: 92
17564519 CATCTCTCCA
* ** *
17564529 AAGTAATCTCACCCTCAATAAAATCCTTAAAGGTTTTTACACTCCCAAGTGAGCTCACCCTCAAT
1 AAGTAATCTCACCCTCAATAAAATCCTTAAAGGGTTCAACACTCCCAAGTGAGATCACCCTCAAT
** ** *
17564594 AAATTCTTTAGAGGGTTCATTGTTCCC
66 AAAAACTCCAAAGGGTTCATTGTTCCC
* * * ** *
17564621 AAGTGATCTCACCCTCAATAAATTCTTTGGAGGGTTCAACGCTCCCAAGTGAGATCACCCTCAAT
1 AAGTAATCTCACCCTCAATAAAATCCTTAAAGGGTTCAACACTCCCAAGTGAGATCACCCTCAAT
17564686 AAAAACTCCAAAGGGTTC
66 AAAAACTCCAAAGGGTTC
17564704 GAAGCTCCCC
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
92 68 1.00
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.28
Consensus pattern (92 bp):
AAGTAATCTCACCCTCAATAAAATCCTTAAAGGGTTCAACACTCCCAAGTGAGATCACCCTCAAT
AAAAACTCCAAAGGGTTCATTGTTCCC
Found at i:17564712 original size:46 final size:45
Alignment explanation
Indices: 17564570--17564688 Score: 175
Period size: 46 Copynumber: 2.6 Consensus size: 45
17564560 GGTTTTTACA
*
17564570 CTCCCAAGTGAGCTCACCCTCAATAAATTCTTTAGAGGGTTCATTG
1 CTCCCAAGTGAGCTCACCCTCAATAAATTCTTTAGAGGGTTCA-AG
* * *
17564616 TTCCCAAGTGATCTCACCCTCAATAAATTCTTTGGAGGGTTCAACG
1 CTCCCAAGTGAGCTCACCCTCAATAAATTCTTTAGAGGGTTCAA-G
*
17564662 CTCCCAAGTGAGATCACCCTCAATAAA
1 CTCCCAAGTGAGCTCACCCTCAATAAA
17564689 AACTCCAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.28
Consensus pattern (45 bp):
CTCCCAAGTGAGCTCACCCTCAATAAATTCTTTAGAGGGTTCAAG
Found at i:17571760 original size:22 final size:19
Alignment explanation
Indices: 17571717--17571770 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
17571707 TGTAAAAATG
17571717 GTATCGATACCATATAAGA
1 GTATCGATACCATATAAGA
17571736 GTATC-AGTACCATAGTATAGTA
1 GTATCGA-TACCATA-TA-AG-A
17571758 GTATCGATACCAT
1 GTATCGATACCAT
17571771 GGTGGGGTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.03
19 12 0.40
20 2 0.07
21 2 0.07
22 12 0.40
23 1 0.03
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (19 bp):
GTATCGATACCATATAAGA
Found at i:17572191 original size:55 final size:55
Alignment explanation
Indices: 17572130--17572491 Score: 532
Period size: 55 Copynumber: 6.6 Consensus size: 55
17572120 GTGTAAAAAG
17572130 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
*
17572185 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATATGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * *
17572240 TTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGTATTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * *
17572295 TTAATAAATTCATACTAAGTGAATGAATTTCCATATGGGCACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
*** *
17572350 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGAAAACCTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
** *
17572405 TTAAGAAATTCATTTTAAGTGGATGAATTTCCGTATGGGCACTATATGT-TCAAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT--AAAC
* *
17572461 -T-AGAAAATTCATACTAAGTGTATAAATTTCC
1 TTAAG-AAATTCATACTAAGTGGATGAATTTCC
17572492 ATATTGGTAG
Statistics
Matches: 275, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
54 3 0.01
55 268 0.97
56 4 0.01
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (55 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
Found at i:17577768 original size:55 final size:55
Alignment explanation
Indices: 17577687--17578010 Score: 479
Period size: 55 Copynumber: 5.9 Consensus size: 55
17577677 GTACAAAAAG
* * * *
17577687 TTAAGAAATTCATACTAAGTGAATGAATTTCCATATGAGAACTTTATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * * *
17577742 TTAATAAATTCATACTAAGTGGATGAATTTCCTTATGGGTACTTTTTGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* *
17577797 TTAAGAAATTCATACTAAGTGGATGAATTTCCATATGGGCACTTTATGTGTAAAT
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * *
17577852 TTAAGAAATTCAGACTAAGTGGATGAATTTCTGTATGGGCACTTAATGTGTAAAC
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
* * * *
17577907 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATAGACACTTTAGGTGTAAAT
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
*
17577962 TTAAGAAATTCATACTAAGTGGATGAATTTCTGTAT-GGCACTTTATGTG
1 TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTG
17578011 CAAAACTAGA
Statistics
Matches: 243, Mismatches: 26, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
54 11 0.05
55 232 0.95
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.36
Consensus pattern (55 bp):
TTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTAAAC
Found at i:17590412 original size:25 final size:27
Alignment explanation
Indices: 17590375--17590426 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 27
17590365 TGAAGATAAG
17590375 GTTGAGGTCGGATTAAGG-TTTGGATT
1 GTTGAGGTCGGATTAAGGTTTTGGATT
*
17590401 GTTGGGGT-GGATTAAGGTTTTGGATT
1 GTTGAGGTCGGATTAAGGTTTTGGATT
17590427 TAGGTGAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.17, C:0.02, G:0.40, T:0.40
Consensus pattern (27 bp):
GTTGAGGTCGGATTAAGGTTTTGGATT
Found at i:17594655 original size:19 final size:19
Alignment explanation
Indices: 17594631--17594667 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
17594621 TAAATCCCCA
17594631 GAATTTTTTAAACGGGGAT
1 GAATTTTTTAAACGGGGAT
17594650 GAATTTTTTAAACGGGGA
1 GAATTTTTTAAACGGGGA
17594668 CGGGGGACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.05, G:0.27, T:0.35
Consensus pattern (19 bp):
GAATTTTTTAAACGGGGAT
Found at i:17595108 original size:25 final size:24
Alignment explanation
Indices: 17595050--17595121 Score: 99
Period size: 25 Copynumber: 2.9 Consensus size: 24
17595040 ATTCCCCATC
*
17595050 TTCTTTTTCTTCACTTTTCATCTTCT
1 TTCTTTCTCTTCACTTTTC-T-TTCT
*
17595076 TTCTTTCTCTTAACTTTTCTTTACT
1 TTCTTTCTCTTCACTTTTCTTT-CT
17595101 TTCTTTCTCTTCACTTTTCTT
1 TTCTTTCTCTTCACTTTTCTT
17595122 CATTGTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
24 2 0.05
25 23 0.55
26 17 0.40
ACGTcount: A:0.08, C:0.26, G:0.00, T:0.65
Consensus pattern (24 bp):
TTCTTTCTCTTCACTTTTCTTTCT
Found at i:17597686 original size:18 final size:18
Alignment explanation
Indices: 17597644--17597687 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 18
17597634 ATATTAATAG
*
17597644 TATACT-TATTAAAACTA
1 TATACTATATTAAAACCA
17597661 TAT-C-ATATTAAAACCA
1 TATACTATATTAAAACCA
17597677 TATACTATATT
1 TATACTATATT
17597688 CACATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 14 0.61
17 4 0.17
18 5 0.22
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (18 bp):
TATACTATATTAAAACCA
Found at i:17599780 original size:64 final size:63
Alignment explanation
Indices: 17599711--17599900 Score: 190
Period size: 65 Copynumber: 3.0 Consensus size: 63
17599701 TGGACCCTTA
*
17599711 GTGCATCGATGCATGAAATACATTCGATGTTTCAAAATAGCCAGAGTGCATCGATGCATGGCT-G
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATA-CCAGAGTGCATCGATGCATGG-TAG
* * * *
17599775 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-ACTCTGAGTGCATCGACGCATAGTA
1 GTGCATCGATGCATGAAATGCATTCGATG-TTTCA-AAATAC-CAGAGTGCATCGATGCATGGTA
*
17599839 T
63 G
* * * *
17599840 GTTCATCGGTGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTCAA--AATACCA-GAGTGCATCGATGCATGG
17599901 ATTGGTACAT
Statistics
Matches: 104, Mismatches: 14, Indels: 16
0.78 0.10 0.12
Matches are distributed among these distances:
62 1 0.01
63 4 0.04
64 45 0.43
65 51 0.49
66 3 0.03
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (63 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTCAAAATACCAGAGTGCATCGATGCATGGTAG
Found at i:17599853 original size:65 final size:65
Alignment explanation
Indices: 17599711--17599870 Score: 193
Period size: 65 Copynumber: 2.5 Consensus size: 65
17599701 TGGACCCTTA
* * *
17599711 GTGCATCGATGCATGAAATACATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGACGCATAGCTG
* *
17599775 GTGCATCGATGCATCAAATGCATTCGATGTTTTCATAAA-A-CTCTGAGTGCATCGACGCATAG-
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGACGCATAGC
*
17599837 TAT
64 T-G
* *
17599840 GTTCATCGGTGCATGAAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
17599871 CAATTTATTC
Statistics
Matches: 83, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
64 29 0.35
65 51 0.61
66 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGACGCATAGCTG
Found at i:17602593 original size:23 final size:22
Alignment explanation
Indices: 17602563--17602643 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 22
17602553 CATGGCCTTG
17602563 TGCATCGATGCACATTCAAGGCA
1 TGCATCGATGCACATTCAAGG-A
* ** *
17602586 TGCATCGATTCACCGTCATGG-
1 TGCATCGATGCACATTCAAGGA
*
17602607 TGTATCGATGCACATTCAAAGGGA
1 TGCATCGATGCACATTC-AA-GGA
17602631 TGCATCGATGCAC
1 TGCATCGATGCAC
17602644 TGTTAAGTGA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
21 13 0.29
22 1 0.02
23 19 0.42
24 12 0.27
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACATTCAAGGA
Found at i:17602661 original size:44 final size:44
Alignment explanation
Indices: 17602566--17602662 Score: 115
Period size: 44 Copynumber: 2.2 Consensus size: 44
17602556 GGCCTTGTGC
* * *
17602566 ATCGATGCACATTCAAGGCATGCATCGATTCACCGTCATGGTGT
1 ATCGATGCACATTCAAGGCATGCATCGATGCACCGTCATAGTGA
* * *
17602610 ATCGATGCACATTCAAAGGGATGCATCGATGCACTGTTA-AGTGA
1 ATCGATGCACATTC-AAGGCATGCATCGATGCACCGTCATAGTGA
*
17602654 ATTGATGCA
1 ATCGATGCA
17602663 TGAATCACAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 25 0.56
45 20 0.44
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
ATCGATGCACATTCAAGGCATGCATCGATGCACCGTCATAGTGA
Found at i:17605780 original size:14 final size:14
Alignment explanation
Indices: 17605761--17605789 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17605751 TAAGACATTG
17605761 TGCAATGTTGATTA
1 TGCAATGTTGATTA
17605775 TGCAATGTTGATTA
1 TGCAATGTTGATTA
17605789 T
1 T
17605790 CGAGATTAAG
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:0.28, C:0.07, G:0.21, T:0.45
Consensus pattern (14 bp):
TGCAATGTTGATTA
Found at i:17608136 original size:65 final size:65
Alignment explanation
Indices: 17607978--17608136 Score: 191
Period size: 65 Copynumber: 2.5 Consensus size: 65
17607968 GGACCCTTAG
* *
17607978 TGCATCGATGCATGAAATGCATTCGATG-TTTCAAAATAGCCAGAGTGCATCGATGCATGGCTGG
1 TGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTGA
* * *
17608042 TGCATCGATGCATCAAATGCATTCAATGTTTTCATAAA-A-CTCTGAGTGCATCGATGCATAG-T
1 TGCATCGATGCATGAAATGCATTCGATGTTTTCA-AAATAGC-CAGAGTGCATCGATGCATAGCT
*
17608104 ATA
64 -GA
* *
17608107 TGCATCGGTGCATGAAATGCATTTGATGTT
1 TGCATCGATGCATGAAATGCATTCGATGTT
17608137 CAATTTATTC
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
64 28 0.35
65 50 0.62
66 3 0.04
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.31
Consensus pattern (65 bp):
TGCATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCAGAGTGCATCGATGCATAGCTGA
Found at i:17610723 original size:27 final size:28
Alignment explanation
Indices: 17610683--17610737 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
17610673 GATTTAAAAA
* *
17610683 GAATTTGGAAAGTAAATGTTTGATTGAT
1 GAATTTGGAAAGTAAATCTTTCATTGAT
17610711 GAATTT-GAAAGTAAATCTTTCATTGAT
1 GAATTTGGAAAGTAAATCTTTCATTGAT
17610738 TACTTGTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 19 0.76
28 6 0.24
ACGTcount: A:0.36, C:0.04, G:0.20, T:0.40
Consensus pattern (28 bp):
GAATTTGGAAAGTAAATCTTTCATTGAT
Found at i:17610883 original size:25 final size:22
Alignment explanation
Indices: 17610830--17610892 Score: 56
Period size: 25 Copynumber: 2.7 Consensus size: 22
17610820 ATCATATTTA
17610830 TATTATCATATAGTATCTTTTG
1 TATTATCATATAGTATCTTTTG
** *
17610852 TCCTATCATTATATGTTATGTTTTG
1 TATTATCA-TATA-G-TATCTTTTG
17610877 TATTATCACTAT-GTAT
1 TATTATCA-TATAGTAT
17610893 GATTTTGTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
22 9 0.28
23 5 0.16
24 1 0.03
25 17 0.53
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (22 bp):
TATTATCATATAGTATCTTTTG
Found at i:17613222 original size:83 final size:82
Alignment explanation
Indices: 17613129--17613333 Score: 320
Period size: 82 Copynumber: 2.5 Consensus size: 82
17613119 ACGTAATATG
*
17613129 GTGGTAAATTAGTGGCGTTTATACCACAAACGCCGCAATAGAGTATAAATTTTGCGGTGATTTAG
1 GTGGTAAATTAGTGGCGTTTATACCACAAACGCCGCAATAGAGTATAAATTTTG-GGCGATTTAG
*
17613194 CCAAAATGCCGCAATAGA
65 CCAAAACGCCGCAATAGA
* * * * *
17613212 GTGGTAAATTAGTGGCGTTTGTACTACAAACACCGTAATAGAGTATAAATTTTGTGCGATTTAGC
1 GTGGTAAATTAGTGGCGTTTATACCACAAACGCCGCAATAGAGTATAAATTTTGGGCGATTTAGC
17613277 CAAAACGCCGCAATAGA
66 CAAAACGCCGCAATAGA
* *
17613294 GTGGTAAATTAGCGGCGTTTATACCACAAACGCCACAATA
1 GTGGTAAATTAGTGGCGTTTATACCACAAACGCCGCAATA
17613334 TATTAGACAT
Statistics
Matches: 109, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
82 59 0.54
83 50 0.46
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (82 bp):
GTGGTAAATTAGTGGCGTTTATACCACAAACGCCGCAATAGAGTATAAATTTTGGGCGATTTAGC
CAAAACGCCGCAATAGA
Found at i:17613302 original size:41 final size:40
Alignment explanation
Indices: 17613156--17613295 Score: 140
Period size: 41 Copynumber: 3.4 Consensus size: 40
17613146 TTTATACCAC
* *
17613156 AAACGCCGCAATAGAGTATAAATTTTGCGGTGATTTAGCCA
1 AAACGCCGCAATAGAGTATAAATTTTG-TGCGATTTAGCCA
* * * * *
17613197 AAATGCCGCAATAGAGTGGTAAA-TTAGTGGCGTTTGTA-CTA
1 AAACGCCGCAATAGAGT-ATAAATTTTGT-GCGATT-TAGCCA
* *
17613238 CAAACACCGTAATAGAGTATAAATTTTGTGCGATTTAGCCA
1 -AAACGCCGCAATAGAGTATAAATTTTGTGCGATTTAGCCA
17613279 AAACGCCGCAATAGAGT
1 AAACGCCGCAATAGAGT
17613296 GGTAAATTAG
Statistics
Matches: 77, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
40 17 0.22
41 36 0.47
42 24 0.31
ACGTcount: A:0.35, C:0.16, G:0.22, T:0.26
Consensus pattern (40 bp):
AAACGCCGCAATAGAGTATAAATTTTGTGCGATTTAGCCA
Found at i:17613472 original size:81 final size:80
Alignment explanation
Indices: 17613362--17613520 Score: 223
Period size: 81 Copynumber: 2.0 Consensus size: 80
17613352 GTTTATTCCT
17613362 CAAACGCCGCAATAGTGATAATCAATAGTGGCG-TTTTAGACAAACGCC-GCAATAGTGTTAATC
1 CAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTA-ACAAACGCCAG-AATAGTG-TAATC
17613425 AATAATGGCGTTTTTAGA
63 AATAATGGCGTTTTTAGA
* * *
17613443 CAAATGCCGCAATAGTGTTAATTAATAGTGGCGTTTTTTAACAAACGCCAGAATAGTGTAATCAA
1 CAAACGCCGCAATAGTGATAATCAATAGTGGCG-TTTTTAACAAACGCCAGAATAGTGTAATCAA
* *
17613508 TAGTGGTGTTTTT
65 TAATGGCGTTTTT
17613521 TTTGTATAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
81 48 0.69
82 16 0.23
83 6 0.09
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (80 bp):
CAAACGCCGCAATAGTGATAATCAATAGTGGCGTTTTTAACAAACGCCAGAATAGTGTAATCAAT
AATGGCGTTTTTAGA
Found at i:17613522 original size:41 final size:41
Alignment explanation
Indices: 17613362--17613520 Score: 227
Period size: 41 Copynumber: 3.9 Consensus size: 41
17613352 GTTTATTCCT
*
17613362 CAAACGCCGCAATAGTGATAATCAATAGTGGCG-TTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGA
*
17613402 CAAACGCCGCAATAGTGTTAATCAATAATGGCGTTTTTAGA
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGA
* *
17613443 CAAATGCCGCAATAGTGTTAATTAATAGTGGCGTTTTTTA-A
1 CAAACGCCGCAATAGTGTTAATCAATAGTGGCG-TTTTTAGA
*
17613484 CAAACGCCAG-AATAGTG-TAATCAATAGTGGTGTTTTT
1 CAAACGCC-GCAATAGTGTTAATCAATAGTGGCGTTTTT
17613521 TTTGTATAAA
Statistics
Matches: 108, Mismatches: 8, Indels: 7
0.88 0.07 0.06
Matches are distributed among these distances:
39 5 0.05
40 44 0.41
41 52 0.48
42 7 0.06
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (41 bp):
CAAACGCCGCAATAGTGTTAATCAATAGTGGCGTTTTTAGA
Found at i:17614514 original size:17 final size:17
Alignment explanation
Indices: 17614489--17614522 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17614479 TTCCTAACAT
*
17614489 TCTCTACCAGCGCAACC
1 TCTCCACCAGCGCAACC
17614506 TCTCCACCAGCGCAACC
1 TCTCCACCAGCGCAACC
17614523 ACCACTAGCA
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:0.24, C:0.50, G:0.12, T:0.15
Consensus pattern (17 bp):
TCTCCACCAGCGCAACC
Found at i:17617199 original size:21 final size:21
Alignment explanation
Indices: 17617149--17617199 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
17617139 GCAAGTGAAG
*
17617149 CAGAGAGAGCAGCAACGGAAA
1 CAGAGAGAGCAGCAACAGAAA
**
17617170 CAGCCAGAGCAGCAACAGAAA
1 CAGAGAGAGCAGCAACAGAAA
*
17617191 TAGAGAGAG
1 CAGAGAGAG
17617200 AAGTAGCGGC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.20, G:0.31, T:0.02
Consensus pattern (21 bp):
CAGAGAGAGCAGCAACAGAAA
Found at i:17617218 original size:21 final size:21
Alignment explanation
Indices: 17617194--17617267 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
17617184 ACAGAAATAG
* *
17617194 AGAGAGAAGTAGCGGCAGCAC
1 AGAGAGAAGCAGCGACAGCAC
*
17617215 AGAGAGAAGCAGCGACAGTAC
1 AGAGAGAAGCAGCGACAGCAC
* ** *
17617236 AAAGAGAAGCATTGACAACAC
1 AGAGAGAAGCAGCGACAGCAC
*
17617257 AAAGAGAAGCA
1 AGAGAGAAGCA
17617268 TCATATCAGT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.47, C:0.18, G:0.30, T:0.05
Consensus pattern (21 bp):
AGAGAGAAGCAGCGACAGCAC
Found at i:17617757 original size:43 final size:43
Alignment explanation
Indices: 17617692--17617858 Score: 167
Period size: 43 Copynumber: 3.9 Consensus size: 43
17617682 GTTTGTATAA
*
17617692 AAAAACGCCGCTAAA-TTACAACACCTATTGCGACATTTCTAGG
1 AAAAACGCCGCTAAACCT-CAACACCTATTGCGACATTTCTAGG
* * * * * *
17617735 AAAAATGCCGCTAAACCTCAACACTTATTGCGGCGTTTGCGA-T
1 AAAAACGCCGCTAAACCTCAACACCTATTGCGACATTT-CTAGG
* * * * * *
17617778 AAAAACGCCGCTAAATCTCAACAACTATTACGACGTTTGTTGG
1 AAAAACGCCGCTAAACCTCAACACCTATTGCGACATTTCTAGG
* *
17617821 AAAAACGCCGCTAAACATCAACACCTATTGCGGCATTT
1 AAAAACGCCGCTAAACCTCAACACCTATTGCGACATTT
17617859 TTAATACAGA
Statistics
Matches: 98, Mismatches: 23, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
43 95 0.97
44 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAACCTCAACACCTATTGCGACATTTCTAGG
Found at i:17617872 original size:43 final size:41
Alignment explanation
Indices: 17617689--17617946 Score: 137
Period size: 43 Copynumber: 6.0 Consensus size: 41
17617679 AGCGTTTGTA
* * *
17617689 TAAAAAAACGCCGCTAAAT-TACAACACCTATTGCGACATTTC
1 TAAACAAACGCCGCTAAATAT-CAA-ACCTATTGCGGCATTTT
* ** * * *
17617731 TAGGAA-AAATGCCGCTAAACCTCAACACTTATTGCGGCGTTTGC
1 TA--AACAAACGCCGCTAAATATCAA-ACCTATTGCGGCATTT-T
* * * * * *
17617775 GATAA-AAACGCCGCTAAATCTCAACAACTATTACGACGTTTGT
1 TA-AACAAACGCCGCTAAATATCAA-ACCTATTGCGGCATTT-T
* *
17617818 TGGAA-AAACGCCGCTAAACATCAACACCTATTGCGGCATTTT
1 T-AAACAAACGCCGCTAAATATCAA-ACCTATTGCGGCATTTT
* * *
17617860 TAATACAGACGCCGCTAAATATCAATACCTATTACGGCGTTTT
1 TAA-ACAAACGCCGCTAAATATCAA-ACCTATTGCGGCATTTT
* * * *
17617903 GTGAACAAACGCCGCTATATATCGTAACCTATTGAGGCATTTT
1 -TAAACAAACGCCGCTAAATATC-AAACCTATTGCGGCATTTT
17617946 T
1 T
17617947 TATTCACAAA
Statistics
Matches: 172, Mismatches: 35, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
41 1 0.01
42 6 0.03
43 157 0.91
44 8 0.05
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.27
Consensus pattern (41 bp):
TAAACAAACGCCGCTAAATATCAAACCTATTGCGGCATTTT
Found at i:17617901 original size:86 final size:84
Alignment explanation
Indices: 17617692--17617946 Score: 253
Period size: 86 Copynumber: 3.0 Consensus size: 84
17617682 GTTTGTATAA
* * * * *
17617692 AAAAACGCCGCTAAATTACAACACCTATTGCGACATTTCTAGGAAAAATGCCGCTAAACCTCAAC
1 AAAAACGCCGCTAAATT-CAACACCTATTACGACGTTT-TTGGAAAAACGCCGCTAAACATCAAC
* * ***
17617757 ACTTATTGCGGCGTTTGCGAT
64 ACCTATTGCGGCATTTTTAAT
*
17617778 AAAAACGCCGCTAAATCTCAACAACTATTACGACGTTTGTTGGAAAAACGCCGCTAAACATCAAC
1 AAAAACGCCGCTAAAT-TCAACACCTATTACGACGTTT-TTGGAAAAACGCCGCTAAACATCAAC
17617843 ACCTATTGCGGCATTTTTAAT
64 ACCTATTGCGGCATTTTTAAT
* * * * * * *
17617864 ACAGACGCCGCTAAATATCAATACCTATTACGGCG-TTTTGTGAACAAACGCCGCTATATATCGT
1 AAAAACGCCGCTAAAT-TCAACACCTATTACGACGTTTTTG-GAA-AAACGCCGCTAAACATC-A
*
17617928 A-ACCTATTGAGGCATTTTT
62 ACACCTATTGCGGCATTTTT
17617947 TATTCACAAA
Statistics
Matches: 143, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
84 3 0.02
85 5 0.03
86 133 0.93
87 2 0.01
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (84 bp):
AAAAACGCCGCTAAATTCAACACCTATTACGACGTTTTTGGAAAAACGCCGCTAAACATCAACAC
CTATTGCGGCATTTTTAAT
Found at i:17618803 original size:40 final size:40
Alignment explanation
Indices: 17618758--17618857 Score: 121
Period size: 40 Copynumber: 2.5 Consensus size: 40
17618748 GATCATGGTG
*
17618758 CACATCGTCGCATTGTCCTTAACAAATGAAGATAATGATGT
1 CACATCGTCGCATTGTCCTTAACAAAGGAAGATAATGAT-T
* * * *
17618799 -ACATCGTCACATTGTCATTGACAAAGGAAGATCATGATT
1 CACATCGTCGCATTGTCCTTAACAAAGGAAGATAATGATT
* *
17618838 CACATCGTTGCGTTGTCCTT
1 CACATCGTCGCATTGTCCTT
17618858 TAGACTATCC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 1 0.02
40 48 0.98
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (40 bp):
CACATCGTCGCATTGTCCTTAACAAAGGAAGATAATGATT
Found at i:17624232 original size:81 final size:81
Alignment explanation
Indices: 17624093--17625075 Score: 1288
Period size: 81 Copynumber: 12.2 Consensus size: 81
17624083 ATTGTTTTAA
* * * * * * *
17624093 AGTAAAAGATTAATGGACTAGTTCTGCATTTGGTAGAAAAGTGTCAATATTTCCAGTTAGAAGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17624158 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
* * * * * ** *
17624174 AGTAAAAGATTAACGGACTAGCAGTGGATTTGGCAGAAAAGTGTCAATATTGAGAGTTAGATTAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17624239 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
* * *
17624255 AGGAAAAGATTAATGGCCTAGCTGTGCATTTGGCTGAAATGTGTCAATATTGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
17624320 AGGCTAAATACCTTTG
66 AGGCTAAATGCCTTTG
* * * *
17624336 AGTAAAATATTAATGGCCTGGCTGTGCATTTGGAAGAAAGGTGTCAATATTGCCTGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17624401 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
** * * *
17624417 AGTAAAAGATTAATGGCCTA-CTGTGCATTTTCCAGAAAGGTATCAATATTTCCAGTTAAATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
17624481 AGGCTAAATGCGTTTG
66 AGGCTAAATGCCTTTG
**
17624497 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGTAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
17624562 ATGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
* *
17624578 AGTAAAAGATTAATGGCCTAGCTGTGCGTTTGGCAGAAAGGTGTCAATATTTCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17624643 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
* * * * * *
17624659 AGTAAAATATTAATGTCCTAGTTGTGCATTTGGTAGAAAGGTGTCAATATTTCCAGTTAGACGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
*
17624724 AGGCTAAATGCGTTTG
66 AGGCTAAATGCCTTTG
* * * * * ** *
17624740 AGTAAAA-ATTAATGGCCTAGTTGTGTATTTGGCTGAAAGGTATTAATATTTTCAGTTAGATAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17624804 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
* * * **
17624820 AGTGAAATATTAATGGCCTAGTTGTGCATTTGG-ATGAAAGGTGTCAATATTGTAAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCA-GAAAGGTGTCAATATTGCCAGTTAGATGA
***
17624884 AATTATAAATGCCTTTG
65 AAGGCTAAATGCCTTTG
* * * *
17624901 AGTAAAAGATTAATGGCATGGCTGTGCATTTGGCAGAAAGGTCTCAATATTGCTAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
** * * *
17624966 ACACTAAGTTCCTTTA
66 AGGCTAAATGCCTTTG
* * * * **
17624982 AGTAAAAGATTAATGGCCTAGCAGTGCATTTGCCAGAAATGTGTCAATATTGACTCTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17625047 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
17625063 AGTAAAAGATTAA
1 AGTAAAAGATTAA
17625076 ATGCTTAATA
Statistics
Matches: 787, Mismatches: 111, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
80 141 0.18
81 645 0.82
82 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
AGGCTAAATGCCTTTG
Found at i:17624705 original size:323 final size:324
Alignment explanation
Indices: 17624093--17625075 Score: 1391
Period size: 323 Copynumber: 3.0 Consensus size: 324
17624083 ATTGTTTTAA
* * * * *
17624093 AGTAAAAGATTAATGGACTAGTTCTGCATTTGGTAGAAAAGTGTCAATATTTCCAGTTAGAA-GA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTATCAATATTTCCAGTTA-AATGA
* * * * *
17624157 AAGGCTAAATGCCTTTGAGTAAAAGATTAACGGACTAGCAGTGGATTTGGCAGAAAAGTGTCAAT
65 AAGGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAAT
* * *
17624222 ATTG-AGAGTTAGATTAAAGGCTAAATGCCTTTGAGGAAAAGATTAATGGCCTAGCTGTGCATTT
130 ATTGTA-AGTTAGATGAAATGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTT
* *
17624286 GGCTGAAATGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAATATTAATG
194 GGCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAATATTAATG
*
17624351 GCCTGGCTGTGCATTTGGAAGAAAGGTGTCAATATTGCCTGTTAGATGAAAGGCTAAATGCCTTT
259 GCCTAGCTGTGCATTTGGAAGAAAGGTGTCAATATTGCCTGTTAGATGAAAGGCTAAATGCCTTT
17624416 G
324 G
* **
17624417 AGTAAAAGATTAATGGCCTA-CTGTGCATTTTCCAGAAAGGTATCAATATTTCCAGTTAAATGAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTATCAATATTTCCAGTTAAATGAA
*
17624481 AGGCTAAATGCGTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATA
66 AGGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATA
*
17624546 TTGTAAGTTAGATGAAATGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCGTTTGG
131 TTGTAAGTTAGATGAAATGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
* * *
17624611 CAGAAAGGTGTCAATATTTCCAGTTAGATGAAAGGCTAAATGCCTTTGAGTAAAATATTAATGTC
196 CAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAATATTAATGGC
* * * * * *
17624676 CTAGTTGTGCATTTGGTAGAAAGGTGTCAATATTTCCAGTTAGACGAAAGGCTAAATGCGTTTG
261 CTAGCTGTGCATTTGGAAGAAAGGTGTCAATATTGCCTGTTAGATGAAAGGCTAAATGCCTTTG
* * * * * *
17624740 AGTAAAA-ATTAATGGCCTAGTTGTGTATTTGGCTGAAAGGTATTAATATTTTCAGTTAGATAAA
1 AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTATCAATATTTCCAGTTAAATGAA
* * *
17624804 AGGCTAAATGCCTTTGAGTGAAATATTAATGGCCTAGTTGTGCATTTGG-ATGAAAGGTGTCAAT
66 AGGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCA-GAAAGGTGTCAAT
** * *
17624868 ATTGTAAGTTAGATGAAATTATAAATGCCTTTGAGTAAAAGATTAATGGCATGGCTGTGCATTTG
130 ATTGTAAGTTAGATGAAATGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTG
* * ** * * * *
17624933 GCAGAAAGGTCTCAATATTGCTAGTTAGATGAAACACTAAGTTCCTTTAAGTAAAAGATTAATGG
195 GCAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAATATTAATGG
* ** * * *
17624998 CCTAGCAGTGCATTTGCCAGAAATGTGTCAATATTGACTCTTAGATGAAAGGCTAAATGCCTTTG
260 CCTAGCTGTGCATTTGGAAGAAAGGTGTCAATATTGCCTGTTAGATGAAAGGCTAAATGCCTTTG
17625063 AGTAAAAGATTAA
1 AGTAAAAGATTAA
17625076 ATGCTTAATA
Statistics
Matches: 585, Mismatches: 69, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
322 15 0.03
323 545 0.93
324 25 0.04
ACGTcount: A:0.34, C:0.12, G:0.23, T:0.31
Consensus pattern (324 bp):
AGTAAAAGATTAATGGCCTAGTTGTGCATTTGGCAGAAAGGTATCAATATTTCCAGTTAAATGAA
AGGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATA
TTGTAAGTTAGATGAAATGCTAAATGCCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGG
CAGAAAGGTGTCAATATTGCCAGTTAGATGAAAGGCTAAATACCTTTGAGTAAAATATTAATGGC
CTAGCTGTGCATTTGGAAGAAAGGTGTCAATATTGCCTGTTAGATGAAAGGCTAAATGCCTTTG
Found at i:17631605 original size:81 final size:81
Alignment explanation
Indices: 17631460--17631715 Score: 352
Period size: 81 Copynumber: 3.2 Consensus size: 81
17631450 ATTGTTTTAA
* * * * *
17631460 AGTAAAATATTAATGTCCTAGCTGTGCATTTGGCAAAAAGGTGTTAATATTGCCAGGTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
* * **
17631525 AGGTTAGATGTATTTG
66 AGGCTAAATGCCTTTG
* ** *
17631541 AGTAAAAGATTAATGGCCTAGCTGTGCATTCGGCAGAATA-GTGTCAATATTGAGAGTTACATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAA-AGGTGTCAATATTGCCAGTTAGATGA
17631605 AAGGCTAAATGCCTTTG
65 AAGGCTAAATGCCTTTG
* * *
17631622 AGTAAAAGATTAATGGCCTAGCTATGCATTTGGTAGAAATGTGTCAATATTGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
17631687 AGGCTAAATGCCTTTG
66 AGGCTAAATGCCTTTG
17631703 AGTAAAAGATTAA
1 AGTAAAAGATTAA
17631716 ATGCTTAACA
Statistics
Matches: 154, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
80 1 0.01
81 152 0.99
82 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.30
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGCAGAAAGGTGTCAATATTGCCAGTTAGATGAA
AGGCTAAATGCCTTTG
Found at i:17634788 original size:81 final size:81
Alignment explanation
Indices: 17634688--17634851 Score: 249
Period size: 81 Copynumber: 2.0 Consensus size: 81
17634678 GACATTAGTT
* * * *
17634688 GAGGTTCCACTAATTAATTCTTTAGGTGATAGATAGGAAACTTAAAGTTTAGAAGGAATATTTTA
1 GAGGTTCCACTAATTAATTCCTTAGGTGATAGATAGAAAACTTAAAGTTCAGAAGGAACATTTTA
17634753 GAGAGAGACAATTTTA
66 GAGAGAGACAATTTTA
* *
17634769 GAGGTTTCC-CTAATTAATTCCTTAGGTGATAGTTAGAAAACTTACAGTTCAGAAGGAACATTTT
1 GAGG-TTCCACTAATTAATTCCTTAGGTGATAGATAGAAAACTTAAAGTTCAGAAGGAACATTTT
*
17634833 AGAGAGAGACATTTTTA
65 AGAGAGAGACAATTTTA
17634850 GA
1 GA
17634852 AGATTGAGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
81 71 0.95
82 4 0.05
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (81 bp):
GAGGTTCCACTAATTAATTCCTTAGGTGATAGATAGAAAACTTAAAGTTCAGAAGGAACATTTTA
GAGAGAGACAATTTTA
Found at i:17635565 original size:3 final size:3
Alignment explanation
Indices: 17635547--17635644 Score: 87
Period size: 3 Copynumber: 33.0 Consensus size: 3
17635537 TCCATTTGTT
* *
17635547 TTA TTT TTA CTA TTA TTA TTA TT- TTA TT- TGT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
* * * *
17635590 TTA TTA ATA TTA TTA -TA TTA TTA TTTA TTT TTA TTA TTAA TAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA
17635636 TTA TTA TTA
1 TTA TTA TTA
17635645 AAAAACCAGA
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
2 6 0.08
3 66 0.86
4 5 0.06
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.65
Consensus pattern (3 bp):
TTA
Done.