Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008208.1 Hibiscus syriacus cultivar Beakdansim tig00110830_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: 2533913
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 8
Found at i:678107 original size:44 final size:45
Alignment explanation
Indices: 678051--678153 Score: 172
Period size: 45 Copynumber: 2.3 Consensus size: 45
678041 GTAAGTATGA
*
678051 AAAATAGGCTTACGAGCTTATGG-AATAATGGCAAGTATGTTCGT
1 AAAATAAGCTTACGAGCTTATGGTAATAATGGCAAGTATGTTCGT
* *
678095 AAAATAAGCTTACGAGCTTATGGTAATAATGGTAAGTATGTTGGT
1 AAAATAAGCTTACGAGCTTATGGTAATAATGGCAAGTATGTTCGT
678140 AAAATAAGCTTACG
1 AAAATAAGCTTACG
678154 GAAATAAATG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 22 0.40
45 33 0.60
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (45 bp):
AAAATAAGCTTACGAGCTTATGGTAATAATGGCAAGTATGTTCGT
Found at i:678947 original size:15 final size:14
Alignment explanation
Indices: 678913--678963 Score: 66
Period size: 15 Copynumber: 3.5 Consensus size: 14
678903 TAAGGAGTAT
*
678913 TATTTTTAAATTAAA
1 TATTATTAAA-TAAA
*
678928 TATTATTATATAAA
1 TATTATTAAATAAA
678942 TAATTATTAAATAAA
1 T-ATTATTAAATAAA
678957 TATTATT
1 TATTATT
678964 CCCATAAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
14 11 0.34
15 21 0.66
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTATTAAATAAA
Found at i:688616 original size:3 final size:3
Alignment explanation
Indices: 688608--688656 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
688598 AATAAATGCC
688608 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
688656 A
1 A
688657 TAAAGTCGGG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:689047 original size:134 final size:134
Alignment explanation
Indices: 688898--689490 Score: 744
Period size: 134 Copynumber: 4.4 Consensus size: 134
688888 TTTTTTCTTA
* *
688898 AGGGAAAATCATATATGGGGATGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGATAC
1 AGGGAAAATCAGATATGGGGATGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGATGC
* * *
688963 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTGAAAAGAGATAGATCTGTTACGTTCATT
66 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTGAAAAGAGATAGATCTGTTCCGCTCCTT
689028 CCTG
131 CCTG
* * * * *
689032 AGGGAAAATCATATATGGGGACGTTGATTCATTCTACTGTCACTCAGGGAAGATTGAATCAATGT
1 AGGGAAAATCAGATATGGGGATGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGATGC
* * ** *
689097 AGACTTGTTCCACTGTTACTCAGTGAATATCAAATTTGAAAAGAGAGGGATCTGTTCTGCTCCTT
66 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTGAAAAGAGATAGATCTGTTCCGCTCCTT
689162 CCTG
131 CCTG
* * * * *
689166 AGGGAAAATGAGATTTGGGGATATTGATTCATTCCACTATCACTCAGGGAAGATTGAATCGATGT
1 AGGGAAAATCAGATATGGGGATGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGATGC
* * * * * *
689231 AAACTTATTCCACTGTTACTTAGGGAATATCAAATCTTG-GAAGAGATAGATCTATTCCGCTTCT
66 AGACTTGTTCCACTGTTACTCAGGGAATATCAAATC-TGAAAAGAGATAGATCTGTTCCGCTCCT
*
689295 TCTTG
130 TCCTG
* * *** * * * *
689300 AGGGAAAATAAGATCTGAAAATGTTTATTCATTTCACTGTTC-TTCAGGGAAGATTGAATCGAGG
1 AGGGAAAATCAGATATGGGGATGTTGATTCATTCCACTG-TCACTCAGGGAAGATTGAATCGATG
* * * *
689364 CAGACTTGTTCCGCTGTTACTCAGGGAA-ATCAAATTTGAAAAGAGATGGATCTGTTCCACTCCT
65 CAGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTGAAAAGAGATAGATCTGTTCCGCTCCT
*
689428 TCTTG
130 TCCTG
* *
689433 AGGGAAAATCAGATATGGGGACGTTGATTCATTCCACTGTTC-CTCAAGGAAGATTGAA
1 AGGGAAAATCAGATATGGGGATGTTGATTCATTCCACTG-TCACTCAGGGAAGATTGAA
689491 ACGAGTTCGA
Statistics
Matches: 391, Mismatches: 65, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
132 2 0.01
133 80 0.20
134 305 0.78
135 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.31
Consensus pattern (134 bp):
AGGGAAAATCAGATATGGGGATGTTGATTCATTCCACTGTCACTCAGGGAAGATTGAATCGATGC
AGACTTGTTCCACTGTTACTCAGGGAATATCAAATCTGAAAAGAGATAGATCTGTTCCGCTCCTT
CCTG
Found at i:690145 original size:42 final size:41
Alignment explanation
Indices: 690041--690146 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 41
690031 ACATCCTACC
* * *
690041 AAAGATCTTATGGATGGCCCGAAGGACTTATCATCTTTCTCG
1 AAAGA-CTTACGGATGGCCCGAAGGAATTATCATCATTCTCG
* **
690083 AAAGACTTACGGGTAACCCGAAGGAATTAATCATCATTCTCG
1 AAAGACTTACGGATGGCCCGAAGGAATT-ATCATCATTCTCG
*
690125 AAAGACTTACTGATGGCCCGAA
1 AAAGACTTACGGATGGCCCGAA
690147 TTACTTACTA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
41 18 0.34
42 35 0.66
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (41 bp):
AAAGACTTACGGATGGCCCGAAGGAATTATCATCATTCTCG
Found at i:693160 original size:20 final size:20
Alignment explanation
Indices: 693127--693210 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 20
693117 TCTCTTTTTC
* * *
693127 TTTTTATATATTTTCTCTTT
1 TTTTTCTATCTTTTCTATTT
*
693147 TTTTTCTATCTTTTCAATTT
1 TTTTTCTATCTTTTCTATTT
693167 TATTTT-TACTCTTTTTTTCT-TTT
1 T-TTTTCTA-TC---TTTTCTATTT
693190 TTTTTCTATCTTTTCTATTT
1 TTTTTCTATCTTTTCTATTT
693210 T
1 T
693211 CCTTTTTTCT
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
19 6 0.12
20 23 0.44
21 6 0.12
22 6 0.12
23 6 0.12
24 5 0.10
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (20 bp):
TTTTTCTATCTTTTCTATTT
Found at i:693233 original size:43 final size:43
Alignment explanation
Indices: 693135--693240 Score: 124
Period size: 43 Copynumber: 2.4 Consensus size: 43
693125 TCTTTTTATA
*
693135 TATTTTCTCTTTTTTTTCTATCTTTTCAATTTTATTTTTACTCT
1 TATTATCT-TTTTTTTTCTATCTTTTCAATTTTATTTTTACTCT
* * * * *
693179 TTTTTTCTTTTTTTTTCTATCTTTTCTATTTTCCTTTTTTCTCT
1 TATTATCTTTTTTTTTCTATCTTTTCAATTTT-ATTTTTACTCT
693223 TATTAT-TTTTTATTTTCT
1 TATTATCTTTTT-TTTTCT
693241 TCTCTCTCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
43 28 0.52
44 26 0.48
ACGTcount: A:0.10, C:0.15, G:0.00, T:0.75
Consensus pattern (43 bp):
TATTATCTTTTTTTTTCTATCTTTTCAATTTTATTTTTACTCT
Found at i:693259 original size:25 final size:22
Alignment explanation
Indices: 693213--693344 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 22
693203 TCTATTTTCC
*
693213 TTTTTTCTCTT-ATTATTTTTTA
1 TTTTTTCTCTTCCTT-TTTTTTA
693235 TTTTCTTCTCTCTCCTTTTTATTTA
1 TTTT-TTCTCT-TCCTTTTT-TTTA
* *
693260 TATTTCTATCT-TTTCTATTTTTTTCC
1 T-TTT-T-TCTCTTCCT-TTTTTTT-A
*
693286 TTTTTTCTCTT-ATTATTTTTTA
1 TTTTTTCTCTTCCTT-TTTTTTA
*
693308 TTTTTCTCTCTCTCTTTTTTATTTA
1 TTTTT-TCTCT-TCCTTTTT-TTTA
693333 TATTTTTCTCTT
1 T-TTTTTCTCTT
693345 TTTGTGTAGG
Statistics
Matches: 89, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
22 10 0.11
23 21 0.24
24 12 0.13
25 28 0.31
26 15 0.17
27 3 0.03
ACGTcount: A:0.11, C:0.17, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTTCTCTTCCTTTTTTTTA
Found at i:693308 original size:73 final size:70
Alignment explanation
Indices: 693192--693346 Score: 240
Period size: 73 Copynumber: 2.2 Consensus size: 70
693182 TTTCTTTTTT
693192 TTTCTATCTTTTCTATTTTCCTTTTTTCTCTTATTATTTTTTA-TTTTCTTCTCTCTCCTTTTTA
1 TTTCTATCTTTTCTATTTTCCTTTTTTCTCTTATTATTTTTTATTTTTC-TCTCTCTCCTTTTTA
693256 TTTATA
65 TTTATA
*
693262 TTTCTATCTTTTCTATTTTTTTCCTTTTTTCTCTTATTATTTTTTATTTTTCTCTCTCTCTTTTT
1 TTTCTATCTTTTCTA---TTTTCCTTTTTTCTCTTATTATTTTTTATTTTTCTCTCTCTCCTTTT
693327 TATTTATA
63 TATTTATA
* *
693335 TTTTTCTCTTTT
1 TTTCTATCTTTT
693347 TGTGTAGGGA
Statistics
Matches: 78, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
70 15 0.19
73 58 0.74
74 5 0.06
ACGTcount: A:0.10, C:0.17, G:0.00, T:0.72
Consensus pattern (70 bp):
TTTCTATCTTTTCTATTTTCCTTTTTTCTCTTATTATTTTTTATTTTTCTCTCTCTCCTTTTTAT
TTATA
Found at i:699319 original size:17 final size:17
Alignment explanation
Indices: 699297--699330 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
699287 AAAGAAGCCC
699297 AACAACAGAGAGATAAG
1 AACAACAGAGAGATAAG
699314 AACAACAGAGAGATAAG
1 AACAACAGAGAGATAAG
699331 TTCTGCCTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.24, T:0.06
Consensus pattern (17 bp):
AACAACAGAGAGATAAG
Found at i:701125 original size:23 final size:23
Alignment explanation
Indices: 701099--701166 Score: 58
Period size: 23 Copynumber: 3.2 Consensus size: 23
701089 CATTTAATCC
701099 AATTTGATCATGATTTTGTTTTT
1 AATTTGATCATGATTTTGTTTTT
* **
701122 AATTTG-TC-T-A--ATG-CCTT
1 AATTTGATCATGATTTTGTTTTT
*
701139 AATTTCATCATGATTTTGTTTTT
1 AATTTGATCATGATTTTGTTTTT
701162 AATTT
1 AATTT
701167 TTCTAATGCC
Statistics
Matches: 32, Mismatches: 7, Indels: 12
0.63 0.14 0.24
Matches are distributed among these distances:
17 7 0.22
18 4 0.12
19 1 0.03
20 2 0.06
21 1 0.03
22 4 0.12
23 13 0.41
ACGTcount: A:0.24, C:0.09, G:0.10, T:0.57
Consensus pattern (23 bp):
AATTTGATCATGATTTTGTTTTT
Found at i:701149 original size:40 final size:40
Alignment explanation
Indices: 701099--701180 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
701089 CATTTAATCC
*
701099 AATTTGATCATGATTTTGTTTTTAATTTGTCTAATGCCTT
1 AATTTCATCATGATTTTGTTTTTAATTTGTCTAATGCCTT
*
701139 AATTTCATCATGATTTTGTTTTTAATTTTTCTAATGCCTT
1 AATTTCATCATGATTTTGTTTTTAATTTGTCTAATGCCTT
701179 AA
1 AA
701181 ATTGAGCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.24, C:0.11, G:0.10, T:0.55
Consensus pattern (40 bp):
AATTTCATCATGATTTTGTTTTTAATTTGTCTAATGCCTT
Found at i:701468 original size:35 final size:36
Alignment explanation
Indices: 701375--701469 Score: 104
Period size: 35 Copynumber: 2.6 Consensus size: 36
701365 CAATCTTATG
*
701375 ATTATAATTTGAATATTAACTATAATATATAATAAAT
1 ATTATAATTTG-ATATTAATTATAATATATAATAAAT
* * * *
701412 AATATATTTTTATCATTAATTAT-A-ATATAATATAT
1 ATTATAATTTGAT-ATTAATTATAATATATAATAAAT
701447 ATTATAATTTGATATTAAATTAT
1 ATTATAATTTGATATT-AATTAT
701470 TTTTAATGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
34 3 0.06
35 26 0.54
36 3 0.06
37 16 0.33
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (36 bp):
ATTATAATTTGATATTAATTATAATATATAATAAAT
Found at i:702297 original size:39 final size:39
Alignment explanation
Indices: 702254--702362 Score: 125
Period size: 39 Copynumber: 2.8 Consensus size: 39
702244 TATTTTAAAA
702254 AATAATTTAGAATGTTAATGTGAAATAATTTAAGAA-ATT
1 AATAATTTAGAATGTTAATGTGAAATAATTTAA-AACATT
* *
702293 AATAATTTAAAATGTT-ATGGTGGCAA-AATTTAAAACATT
1 AATAATTTAGAATGTTAAT-GT-GAAATAATTTAAAACATT
** *
702332 AGGAATTTAGAATGTTAAAGTGAAATAATTT
1 AATAATTTAGAATGTTAATGTGAAATAATTT
702363 GATAATTATA
Statistics
Matches: 58, Mismatches: 7, Indels: 10
0.77 0.09 0.13
Matches are distributed among these distances:
38 7 0.12
39 47 0.81
40 4 0.07
ACGTcount: A:0.47, C:0.02, G:0.15, T:0.37
Consensus pattern (39 bp):
AATAATTTAGAATGTTAATGTGAAATAATTTAAAACATT
Found at i:702418 original size:3 final size:3
Alignment explanation
Indices: 702383--702430 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
702373 AATAAAATTT
*
702383 TAA T-A TAA -AA T-A TAA -AA TAA TATA TAA TGA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
702425 TAA TAA
1 TAA TAA
702431 AACATATATC
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 8 0.21
3 27 0.71
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:703792 original size:16 final size:14
Alignment explanation
Indices: 703771--703811 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
703761 GAAAATAAAG
703771 AAAAATAAAACATACA
1 AAAAATAAAA-ATA-A
703787 AAAAATAAAAATAA
1 AAAAATAAAAATAA
*
703801 TAAAATAAAAA
1 AAAAATAAAAA
703812 GAGTAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 11 0.46
15 3 0.12
16 10 0.42
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAATAAAAATAA
Found at i:703818 original size:23 final size:23
Alignment explanation
Indices: 703771--703828 Score: 59
Period size: 22 Copynumber: 2.6 Consensus size: 23
703761 GAAAATAAAG
*
703771 AAAAATAA-AACATACAAAAAAT
1 AAAAATAATAAAATACAAAAAAT
*
703793 AAAAATAATAAAATA-AAAAGAGT
1 AAAAATAATAAAATACAAAA-AAT
703816 -AAAATGAATAAAA
1 AAAAAT-AATAAAA
703829 CAAAGTGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 17 0.55
23 14 0.45
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAATAATAAAATACAAAAAAT
Found at i:703838 original size:21 final size:21
Alignment explanation
Indices: 703809--703849 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
703799 AATAAAATAA
703809 AAAGAGTAA-AATGAATAAAAC
1 AAAGAGTAATAA-GAATAAAAC
*
703830 AAAGTGTAATAAGAATAAAA
1 AAAGAGTAATAAGAATAAAA
703850 ATAAGAAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.66, C:0.02, G:0.15, T:0.17
Consensus pattern (21 bp):
AAAGAGTAATAAGAATAAAAC
Found at i:703935 original size:30 final size:32
Alignment explanation
Indices: 703873--703936 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 32
703863 AGAATTGAAT
* *
703873 AAGATAAACAAAAAGCAGAAACTAATTAAAAA
1 AAGATAAACAAAAAGCAGAAACGAAATAAAAA
703905 AAGA-AAACAAAAAG-AGAATA-GAAATAAAAA
1 AAGATAAACAAAAAGCAGAA-ACGAAATAAAAA
703935 AA
1 AA
703937 ATCTATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
30 14 0.48
31 11 0.38
32 4 0.14
ACGTcount: A:0.73, C:0.06, G:0.11, T:0.09
Consensus pattern (32 bp):
AAGATAAACAAAAAGCAGAAACGAAATAAAAA
Found at i:703935 original size:31 final size:32
Alignment explanation
Indices: 703873--703937 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 32
703863 AGAATTGAAT
* *
703873 AAGATAAACAAAAAGCAGAAACTAATTAAAAA
1 AAGATAAACAAAAAGCAGAAACAAATAAAAAA
*
703905 AAGA-AAACAAAAAG-AGAATAGAAATAAAAAA
1 AAGATAAACAAAAAGCAGAA-ACAAATAAAAAA
703936 AA
1 AA
703938 TCTATATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 4 0.14
31 21 0.72
32 4 0.14
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (32 bp):
AAGATAAACAAAAAGCAGAAACAAATAAAAAA
Found at i:703994 original size:14 final size:15
Alignment explanation
Indices: 703962--704002 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
703952 TTTAATAAGT
703962 AAAATAA-AAAAGAA
1 AAAATAATAAAAGAA
703976 AAAATAATAAAA-AA
1 AAAATAATAAAAGAA
*
703990 GAAATATATAAAA
1 AAAATA-ATAAAA
704003 TTAGAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 14 0.58
15 10 0.42
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAATAATAAAAGAA
Found at i:704019 original size:17 final size:17
Alignment explanation
Indices: 703991--704038 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 17
703981 AATAAAAAAG
703991 AAATATATAAAATTAGAAT
1 AAATA-ATAAAATTA-AAT
*
704010 -AATAATAAAAATAAAT
1 AAATAATAAAATTAAAT
704026 AAATAAATAAAAT
1 AAAT-AATAAAAT
704039 AATATATATG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 11 0.44
18 11 0.44
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (17 bp):
AAATAATAAAATTAAAT
Found at i:704027 original size:4 final size:4
Alignment explanation
Indices: 703963--704103 Score: 73
Period size: 4 Copynumber: 35.8 Consensus size: 4
703953 TTAATAAGTA
* * *
703963 AAAT AAA- AAAG AAA- AAAT -AAT AAA- AAAG AAAT ATAT AAAATT AGAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAA-T A-AAT
* * ** *
704010 -AAT AATAA AAAT AAAT AAAT AAAT AAA- ATAAT ATAT ATGT ACAT AAAT
1 AAAT AA-AT AAAT AAAT AAAT AAAT AAAT A-AAT AAAT AAAT AAAT AAAT
* * *
704058 AAA- ACATT AGA- AAAT AAAT AAAT AAAT AAGT AAAT AAAT AAAT AAA
1 AAAT A-AAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
704104 GAGAAACCGA
Statistics
Matches: 107, Mismatches: 16, Indels: 28
0.71 0.11 0.19
Matches are distributed among these distances:
3 19 0.18
4 76 0.71
5 9 0.08
6 3 0.03
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:704039 original size:29 final size:30
Alignment explanation
Indices: 703963--704042 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
703953 TTAATAAGTA
*
703963 AAATAAA-AAAGAAAA-AATAATAAAAAAG
1 AAATAAATAAATAAAATAATAATAAAAAAG
* * *
703991 AAATATATAAAATTAGAATAATAAT-AAAAAT
1 AAATAAAT-AAA-TAAAATAATAATAAAAAAG
704022 AAATAAATAAATAAAATAATA
1 AAATAAATAAATAAAATAATA
704043 TATATGTACA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
28 6 0.14
29 9 0.21
30 6 0.14
31 15 0.36
32 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (30 bp):
AAATAAATAAATAAAATAATAATAAAAAAG
Found at i:704109 original size:39 final size:43
Alignment explanation
Indices: 704026--704109 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 43
704016 AAAAATAAAT
* **
704026 AAATAAATAAAATAATATATATGTACATAAATAAAACATTAGA
1 AAATAAATAAAATAATATATATGTAAATAAATAAAACAAGAGA
704069 AAATAAAT-AAATAA-ATA-A-GTAAATAAATAAATA-AAGAGA
1 AAATAAATAAAATAATATATATGTAAATAAATAAA-ACAAGAGA
704108 AA
1 AA
704110 CCGAAAAAGG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
39 18 0.49
40 2 0.05
41 3 0.08
42 6 0.16
43 8 0.22
ACGTcount: A:0.68, C:0.02, G:0.06, T:0.24
Consensus pattern (43 bp):
AAATAAATAAAATAATATATATGTAAATAAATAAAACAAGAGA
Found at i:707123 original size:7 final size:7
Alignment explanation
Indices: 707098--707130 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
707088 CATAAACATT
707098 TTTTCTC
1 TTTTCTC
*
707105 TTTTTTC
1 TTTTCTC
707112 TTTTCTC
1 TTTTCTC
707119 TTTTCT-
1 TTTTCTC
707125 TTTTCT
1 TTTTCT
707131 TCTTCGACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (7 bp):
TTTTCTC
Found at i:716781 original size:2 final size:2
Alignment explanation
Indices: 716774--716825 Score: 59
Period size: 2 Copynumber: 25.5 Consensus size: 2
716764 AAACCAAACA
* * * *
716774 AT AT AT AT AT AT AT AT AT AT AT AT TT AT GT AT GT AT AT GT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
716816 AT AT ACT AT A
1 AT AT A-T AT A
716826 CAATATACGT
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
2 39 0.95
3 2 0.05
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (2 bp):
AT
Found at i:722127 original size:7 final size:7
Alignment explanation
Indices: 722115--722175 Score: 63
Period size: 7 Copynumber: 8.6 Consensus size: 7
722105 AGACAACAAA
722115 TTTTTAT
1 TTTTTAT
722122 TTTTTAT
1 TTTTTAT
722129 TTGTTTAAT
1 TT-TTT-AT
722138 TTTTT-T
1 TTTTTAT
722144 TTTATT-T
1 TTT-TTAT
*
722151 TTTTTCT
1 TTTTTAT
*
722158 TGTTTAT
1 TTTTTAT
722165 TTTTTAT
1 TTTTTAT
722172 TTTT
1 TTTT
722176 CTAAATTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.13
7 31 0.66
8 6 0.13
9 4 0.09
ACGTcount: A:0.11, C:0.02, G:0.03, T:0.84
Consensus pattern (7 bp):
TTTTTAT
Found at i:722141 original size:16 final size:14
Alignment explanation
Indices: 722117--722169 Score: 56
Period size: 13 Copynumber: 3.7 Consensus size: 14
722107 ACAACAAATT
722117 TTTATTTTTTATTTG
1 TTTATTTTTT-TTTG
722132 TTTAATTTTTTTTT-
1 TTT-ATTTTTTTTTG
*
722146 TATT-TTTTTTCTTG
1 T-TTATTTTTTTTTG
722160 TTTATTTTTT
1 TTTATTTTTT
722170 ATTTTTCTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
13 10 0.30
14 8 0.24
15 8 0.24
16 7 0.21
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.83
Consensus pattern (14 bp):
TTTATTTTTTTTTG
Found at i:722160 original size:28 final size:28
Alignment explanation
Indices: 722114--722175 Score: 90
Period size: 27 Copynumber: 2.2 Consensus size: 28
722104 GAGACAACAA
722114 ATTTTTATTTTTTATTTGTTTAATTTTT
1 ATTTTTATTTTTTATTTGTTTAATTTTT
* *
722142 -TTTTTATTTTTTTTCTTGTTTATTTTTT
1 ATTTTTATTTTTTAT-TTGTTTAATTTTT
722170 ATTTTT
1 ATTTTT
722176 CTAAATTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
27 13 0.43
28 12 0.40
29 5 0.17
ACGTcount: A:0.13, C:0.02, G:0.03, T:0.82
Consensus pattern (28 bp):
ATTTTTATTTTTTATTTGTTTAATTTTT
Found at i:730803 original size:33 final size:33
Alignment explanation
Indices: 730765--730828 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
730755 AAGGGGTTCT
*
730765 GGTTCTAGCTAAGCCTGT-AAAAAGCTAGGGAAA
1 GGTTCTAGCTAAGCCCGTGAAAAA-CTAGGGAAA
* *
730798 GGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 GGTTCTAGCTAAGCCCGTGAAAAACTAGGGA
730829 GTTGTAAAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 22 0.81
34 5 0.19
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (33 bp):
GGTTCTAGCTAAGCCCGTGAAAAACTAGGGAAA
Found at i:733023 original size:23 final size:23
Alignment explanation
Indices: 732997--733042 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
732987 CCAAGGTTTT
732997 GTGCATTGCTTTGAATGTTAGTC
1 GTGCATTGCTTTGAATGTTAGTC
733020 GTGCATTGCTTTGAATGTTAGTC
1 GTGCATTGCTTTGAATGTTAGTC
733043 ATTCATTGGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.13, G:0.26, T:0.43
Consensus pattern (23 bp):
GTGCATTGCTTTGAATGTTAGTC
Found at i:733049 original size:23 final size:23
Alignment explanation
Indices: 732998--733050 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
732988 CAAGGTTTTG
*
732998 TGCATTGCTTTGAATGTTAGTCG
1 TGCATTGCTTTGAATGTTAGTCA
733021 TGCATTGCTTTGAATGTTAGTCA
1 TGCATTGCTTTGAATGTTAGTCA
*
733044 TTCATTG
1 TGCATTG
733051 GGATTTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (23 bp):
TGCATTGCTTTGAATGTTAGTCA
Found at i:736104 original size:44 final size:44
Alignment explanation
Indices: 736055--736210 Score: 204
Period size: 44 Copynumber: 3.5 Consensus size: 44
736045 CTACTCTAAA
* *
736055 ATAAATGAAAATGCATAATGGTGCATTATTGGCAAAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
* *
736099 ATAAATGAAAATGCATAGCGGTGTATTATTGGCAGAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
* * * * * *
736143 ATAAATGAAAATGTATGACGATGCATTATTGGTAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
* *
736187 ATAAATCAAAATGCATATCGGTGC
1 ATAAATGAAAATGCATAACGGTGC
736211 CATAAGAAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 95 1.00
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
Found at i:736265 original size:43 final size:44
Alignment explanation
Indices: 736216--736298 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 44
736206 GGTGCCATAA
*
736216 GAAAATGCATAACGGTGCATTATTGGA-AGAAGGTGCCACAAAT
1 GAAAATGCATAACGGTGCATTATTGGATAAAAGGTGCCACAAAT
*
736259 GAAAATGCATAACGGTGGATTATTGGATAAAAGGTGCCAC
1 GAAAATGCATAACGGTGCATTATTGGATAAAAGGTGCCAC
736299 TCATGGTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.22
Consensus pattern (44 bp):
GAAAATGCATAACGGTGCATTATTGGATAAAAGGTGCCACAAAT
Found at i:736275 original size:66 final size:67
Alignment explanation
Indices: 736149--736275 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 67
736139 TGACATAAAT
* * * * * *
736149 GAAAATGTATGACGATGCATTATTGGTAGAAATGTGCCATAAATCAAAATGCATATCGGTGCCAT
1 GAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCCACAAATCAAAATGCATAACGGTGCCAT
736214 AA
66 AA
* *
736216 GAAAATGCATAACGGTGCATTATTGGAAG-AAGGTGCCACAAATGAAAATGCATAACGGTG
1 GAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCCACAAATCAAAATGCATAACGGTG
736276 GATTATTGGA
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
66 27 0.52
67 25 0.48
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (67 bp):
GAAAATGCATAACGATGCATTATTGGAAGAAAGGTGCCACAAATCAAAATGCATAACGGTGCCAT
AA
Found at i:739602 original size:44 final size:43
Alignment explanation
Indices: 739553--739877 Score: 286
Period size: 44 Copynumber: 7.4 Consensus size: 43
739543 AAAAAAAAAA
* *
739553 ATAAATGAAAATGCATAGCAGTGCATTATTGGAAGAGAGGTCAC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGAAGAAAGGT-AC
* * * *
739597 ATAAATAAAAATGCATAACAATGCATTATTGGAAGAAAAATGT-T
1 ATAAATGAAAATGCATAACAGTGCATTATTGGAAG--AAAGGTAC
* *
739641 ATAAATGAAAATACATAAC-GATGCATTATTGGCAGAAAGGTATC
1 ATAAATGAAAATGCATAACAG-TGCATTATTGGAAGAAAGGTA-C
* * * *
739685 GTAAATAAAAATGCATAACTA-TACATTATTGGTAGAAAGGTACC
1 ATAAATGAAAATGCATAAC-AGTGCATTATTGGAAGAAAGGTA-C
* * * *
739729 GTAAATGAAAATGCATAACGGTACATTATT-GACAGAAATGTACC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGA-AGAAAGGTA-C
* * * *
739773 ACT-AATGAAAATGCATAACTGTTCATTATTGAAAGAAAGGTGCC
1 A-TAAATGAAAATGCATAACAGTGCATTATTGGAAGAAAGGT-AC
* * *
739817 ATAAATG-AAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACAGTGCATTATTGGAAGAAAGGT-AC
739860 ATAAATG-AAATGCATAAC
1 ATAAATGAAAATGCATAAC
739878 GATGCATCAC
Statistics
Matches: 236, Mismatches: 32, Indels: 27
0.80 0.11 0.09
Matches are distributed among these distances:
42 5 0.02
43 52 0.22
44 173 0.73
45 2 0.01
46 4 0.02
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (43 bp):
ATAAATGAAAATGCATAACAGTGCATTATTGGAAGAAAGGTAC
Found at i:745112 original size:18 final size:18
Alignment explanation
Indices: 745089--745138 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
745079 TATGATGAAC
*
745089 AGTATCGATACTGATGCT-
1 AGTATCGATACTAATG-TG
745107 AGTATCGATACTAATGTG
1 AGTATCGATACTAATGTG
*
745125 GGTATCGATACTAA
1 AGTATCGATACTAA
745139 GAGAAAGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (18 bp):
AGTATCGATACTAATGTG
Found at i:745684 original size:44 final size:44
Alignment explanation
Indices: 745635--745943 Score: 465
Period size: 44 Copynumber: 7.0 Consensus size: 44
745625 CTGCTTTAAA
* * *
745635 ATAAATGAAAATGCATAACGGTGCATTATTTGTAGAAAGGTACC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
**
745679 ATAAATGAAAATGCATAACGGTGCATTATTGATAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
*
745723 ATAAATGAAAATGCATAATGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
745767 ATAAATGAAAATGCATAACGGTGCATTATTAGCAGAATGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* *
745811 ATAAATGAAAATGCATAACGGTGCATTATTGGAAGAAAGGTGGC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
745855 ACAAATAAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGAC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * *
745899 ATAAATAAAAATCCATAACAGTGCATTATTGGCCGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
745943 A
1 A
745944 CTCATGGTAT
Statistics
Matches: 243, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 243 1.00
ACGTcount: A:0.41, C:0.13, G:0.23, T:0.24
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:757308 original size:21 final size:21
Alignment explanation
Indices: 757282--757339 Score: 89
Period size: 21 Copynumber: 2.8 Consensus size: 21
757272 TCCCCATGAT
757282 AAAGGATCGATCCCTTTCAAG
1 AAAGGATCGATCCCTTTCAAG
*
757303 AAAGGATCGATCACTTTCAAG
1 AAAGGATCGATCCCTTTCAAG
* *
757324 AAATGATAGATCCCTT
1 AAAGGATCGATCCCTT
757340 CGTTGTTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAGGATCGATCCCTTTCAAG
Found at i:760747 original size:77 final size:75
Alignment explanation
Indices: 760658--760876 Score: 244
Period size: 81 Copynumber: 2.8 Consensus size: 75
760648 TTTGTTTTTT
* *
760658 GTGCAACATATTTTATGATTTAAAATATTAACATAACATATCAAAACCTATTTCTTAGTGAATCA
1 GTGCAACCTATTTTAT-ATTAAAAATATTAACAT-ACATATCAAAACCTATTTCTTAGTGAATCA
760723 TGACATTCTTGG
64 TGACATTCTTGG
*
760735 GTGCAACCTATTTTAT-TAAAAAATATTAACATTACAT-TACAAATAACAACCTACTTTCTTAGT
1 GTGCAACCTATTTTATATTAAAAATATTAACA-TACATAT-C----AA-AACCTA-TTTCTTAGT
760798 GAATCATGACATTCTTGG
58 GAATCATGACATTCTTGG
* * * * **
760816 GCGCAACCTATTTTATTAATAAAAATATTAACATTCAGATCGCAACCTATTTCTTAGTGAA
1 GTGCAACCTATTTTA-TATTAAAAATATTAACATACATATCAAAACCTATTTCTTAGTGAA
760877 CCATTATATT
Statistics
Matches: 121, Mismatches: 10, Indels: 23
0.79 0.06 0.15
Matches are distributed among these distances:
74 1 0.01
75 18 0.15
76 13 0.11
77 21 0.17
79 2 0.02
80 6 0.05
81 41 0.34
82 5 0.04
83 14 0.12
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (75 bp):
GTGCAACCTATTTTATATTAAAAATATTAACATACATATCAAAACCTATTTCTTAGTGAATCATG
ACATTCTTGG
Found at i:761340 original size:251 final size:258
Alignment explanation
Indices: 760788--761472 Score: 739
Period size: 251 Copynumber: 2.7 Consensus size: 258
760778 TAACAACCTA
*
760788 CTTTCTTAGTGAATCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAAATATTAACATTCA
1 CTTTCTTAGTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAAATATT-A-ATT-A
* * * * * * * * *
760853 GATCGCAACCTATTTCTTAGTGAACCATTATATTATTGAGTGCAATCGTATTTCTTATATATATT
63 AATCACAAACTATTTCTTAGTGAACCATAACATTATTGGGCGCAAACTTATTTCTTATATATATT
* * *
760918 CATAACATTTTCAACTTTTAATTTATTTTCTTATCGTGGGAACATCTAAGGCTCCATCAGCTTAA
128 CATAACA-TTTCAGCTTTTAACTTATTTTCTTATCGTGGGAAAATCTAAGGCTCCATCAGCTTAA
* * * ** *
760983 ATTATGATAATATTTTAGGTGCAACCCATTTTATTATTAAAAATATTAAGAATTCAGGTCGCAAC
192 ACTATGATAAAATTATA-GCACAACCCATTTTATTATTAAAAATATTAAGAATTCAGATCGCAAC
*
761048 TTG
256 TTC
* * ** *
761051 ATTTCTTAGTGAAGCATGACATTCTTAAGCGTAACCTATTTTATTAAT-AAAATATT-A-TAAAT
1 CTTTCTTAGTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAAATATTAATTAAAT
* * *
761113 CACAAACTATTTCTTAGTGAACCATGACATTATTGGGCGCAACCTTATTT-TT-TATATTTTCAT
66 CACAAACTATTTCTTAGTGAACCATAACATTATTGGGCGCAAACTTATTTCTTATATATATTCAT
* *** * *
761176 AACATTTCAGCTTTTAACTTATTTTCTTATCATGGGAAAATC-AATTTTCTATCAGCTTAAACTC
131 AACATTTCAGCTTTTAACTTATTTTCTTATCGTGGGAAAATCTAAGGCTCCATCAGCTTAAACTA
* * * * *
761240 TGATAACAATTATA-CACAATCCATTTTATTATTAAAAATATT-AGATTTTATATTGCAA-TCTC
196 TGATAA-AATTATAGCACAACCCATTTTATTATTAAAAATATTAAGAATTCAGATCGCAACT-TC
*
761302 CTTTGTTAGTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAAATATTAACATTAA
1 CTTTCTTAGTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAAATATT-A-ATTAA
* * * *
761367 AT-ATCAAAATATATTTCTTAGTGAACTATAACATTATTAGGCG-AAACTGTATTTGTTATATAT
64 ATCA-C-AAA-CTATTTCTTAGTGAACCATAACATTATTGGGCGCAAACT-TATTTCTTATATAT
* *
761430 ATT-ATAACAATTT-AGTTTTTAACTTATTTTTTTATCGTGGGAA
125 ATTCATAAC-ATTTCAGCTTTTAACTTATTTTCTTATCGTGGGAA
761473 TGTGTAAGGC
Statistics
Matches: 357, Mismatches: 51, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
250 1 0.00
251 54 0.15
252 33 0.09
253 22 0.06
254 39 0.11
255 16 0.04
256 8 0.02
257 52 0.15
258 35 0.10
259 35 0.10
260 11 0.03
262 8 0.02
263 43 0.12
ACGTcount: A:0.34, C:0.15, G:0.11, T:0.41
Consensus pattern (258 bp):
CTTTCTTAGTGAACCATGACATTCTTGGGCGCAACCTATTTTATTAATAAAAATATTAATTAAAT
CACAAACTATTTCTTAGTGAACCATAACATTATTGGGCGCAAACTTATTTCTTATATATATTCAT
AACATTTCAGCTTTTAACTTATTTTCTTATCGTGGGAAAATCTAAGGCTCCATCAGCTTAAACTA
TGATAAAATTATAGCACAACCCATTTTATTATTAAAAATATTAAGAATTCAGATCGCAACTTC
Found at i:762886 original size:42 final size:43
Alignment explanation
Indices: 762798--762915 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 43
762788 GAAATTGTAA
* * * * *
762798 AAAAAATTAGAGGCCTTAATTATAAAAGTAGAAGTCAAGATTG
1 AAAAAATAAGGGGCCTCAATTATAAAGGTAGAAGTCAAGATCG
* * *
762841 AAAAAATAAGGGGTCTCAATTATAAAGGTATAA-TTAAGATCG
1 AAAAAATAAGGGGCCTCAATTATAAAGGTAGAAGTCAAGATCG
* * * *
762883 AAAAACTTAGGGGCCTCAATTAGAAAGATAGAA
1 AAAAAATAAGGGGCCTCAATTATAAAGGTAGAA
762916 AGTGAGATTA
Statistics
Matches: 61, Mismatches: 14, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 34 0.56
43 27 0.44
ACGTcount: A:0.48, C:0.08, G:0.19, T:0.24
Consensus pattern (43 bp):
AAAAAATAAGGGGCCTCAATTATAAAGGTAGAAGTCAAGATCG
Found at i:763052 original size:87 final size:85
Alignment explanation
Indices: 762855--763176 Score: 247
Period size: 87 Copynumber: 3.7 Consensus size: 85
762845 AATAAGGGGT
* * ** *
762855 CTCAATTATAAAGGTATAATTAAGATCGAAAAACTTAGGGGCCTCAATTAGAAAGATAGAAAGTG
1 CTCAATTATAAAGGTAGAATTGAGATTAAAAAACTTAGGGGCCTCAATTAGAAAGATAAAAAGTG
*
762920 AGATTAAAACACTTAAGGGC
66 AGATTAAAAAACTTAAGGGC
* * * * * * * * *
762940 CTCAATTAGAAAGTTCGAAAGTGAGATTAAAAGAACTTATGGGTCTCAATTATAATGTTAAAAAA
1 CTCAATTATAAAGGTAG-AATTGAGATTAAAA-AACTTAGGGGCCTCAATTAGAAAGAT-AAAAA
*
763005 GTGGGATTAAAAAAC-T-AGGTGC
63 GTGAGATTAAAAAACTTAAGG-GC
* *
763027 CTCAATTATAAAGGTAGAGATTGAGATTGAAAAAAAACTTAGGGGCCTCAATT-GACAAGGTAGA
1 CTCAATTATAAAGGTAGA-ATTGAGATT---AAAAAACTTAGGGGCCTCAATTAGA-AAGATAAA
* * **
763091 AAGTCAGATTGAAAAAACATAAAAGC
61 AAGTGAGATT-AAAAAACTTAAGGGC
* * * * * * * * *
763117 CTTAGTTGTAAAGTTAAAAGTGAGATTACAAAA-TTAGGGGCCTCAATTATAAAGTTAAAA
1 CTCAATTATAAAGGTAGAATTGAGATTAAAAAACTTAGGGGCCTCAATTAGAAAGATAAAA
763177 TTGAGACATC
Statistics
Matches: 184, Mismatches: 40, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
85 35 0.19
86 20 0.11
87 46 0.25
88 28 0.15
89 34 0.18
90 20 0.11
91 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (85 bp):
CTCAATTATAAAGGTAGAATTGAGATTAAAAAACTTAGGGGCCTCAATTAGAAAGATAAAAAGTG
AGATTAAAAAACTTAAGGGC
Found at i:763139 original size:176 final size:170
Alignment explanation
Indices: 762855--763176 Score: 398
Period size: 176 Copynumber: 1.9 Consensus size: 170
762845 AATAAGGGGT
* *
762855 CTCAATTATAAAGGTATAATTAAGATCGAAAAACTTAGGGGCCTCAATTAGAAAGATAGAAAGTG
1 CTCAATTATAAAGGTAGAATTAAGATCGAAAAACTTAGGGGCCTCAATTAGAAAGATAGAAAGTC
* * ** * * *
762920 AGATTAAAACACTTAAGGGCCTCAATTAGAAAGTTCGAAAGTGAGATTAAAAGAACTTATGGGTC
66 AGATTAAAAAACATAAAAGCCTCAATTAGAAAGTTCAAAAGTGAGATTAAAA-AA-TTAGGGGCC
*
762985 TCAATTATAATGTTAAAAAAGTGGGATTAAAAAACTAGGTGC
129 TCAATTATAAAGTTAAAAAAGTGGGATTAAAAAACTAGGTGC
* * *
763027 CTCAATTATAAAGGTAGAGATTGAGATTGAAAAAAAACTTAGGGGCCTCAATT-GACAAGGTAGA
1 CTCAATTATAAAGGTAGA-ATTAAGATCG---AAAAACTTAGGGGCCTCAATTAGA-AAGATAGA
* * *
763091 AAGTCAGATTGAAAAAACATAAAAGCCTTAGTT-GTAAAGTT-AAAAGTGAGATTACAAAATTAG
61 AAGTCAGATT-AAAAAACATAAAAGCCTCAATTAG-AAAGTTCAAAAGTGAGATTAAAAAATTAG
763154 GGGCCTCAATTATAAAGTTAAAA
124 GGGCCTCAATTATAAAGTTAAAA
763177 TTGAGACATC
Statistics
Matches: 127, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
172 17 0.13
173 8 0.06
174 24 0.19
175 4 0.03
176 52 0.41
177 22 0.17
ACGTcount: A:0.44, C:0.10, G:0.20, T:0.25
Consensus pattern (170 bp):
CTCAATTATAAAGGTAGAATTAAGATCGAAAAACTTAGGGGCCTCAATTAGAAAGATAGAAAGTC
AGATTAAAAAACATAAAAGCCTCAATTAGAAAGTTCAAAAGTGAGATTAAAAAATTAGGGGCCTC
AATTATAAAGTTAAAAAAGTGGGATTAAAAAACTAGGTGC
Found at i:763182 original size:41 final size:42
Alignment explanation
Indices: 762797--763182 Score: 251
Period size: 43 Copynumber: 9.0 Consensus size: 42
762787 TGAAATTGTA
* * * * *
762797 AAAAAAATTAGAGGCCTTAATTATAAAAG-TAGAAGTCAAGATT
1 AAAAAACTTAGGGGCCTCAATTAT-AAAGTTAAAAGT-GAGATT
* * * * * * *
762840 GAAAAAA-TAAGGGGTCTCAATTATAAAGGTATAATTAAGATC
1 -AAAAAACTTAGGGGCCTCAATTATAAAGTTAAAAGTGAGATT
* * *
762882 GAAAAACTTAGGGGCCTCAATTAGAAAGATAGAAAGTGAGATT
1 AAAAAACTTAGGGGCCTCAATTATAAAGTTA-AAAGTGAGATT
* * * *
762925 AAAACACTTAAGGGCCTCAATTAGAAAGTTCGAAAGTGAGATT
1 AAAAAACTTAGGGGCCTCAATTATAAAGTT-AAAAGTGAGATT
* * * *
762968 AAAAGAACTTATGGGTCTCAATTATAATGTTAAAAAAGTGGGATT
1 AAAA-AACTTAGGGGCCTCAATTATAAAGTT--AAAAGTGAGATT
* * * *
763013 AAAAAAC-TAGGTGCCTCAATTATAAAGGTAGAGATTGAGATT
1 AAAAAACTTAGGGGCCTCAATTATAAAGTTA-AAAGTGAGATT
* * *
763055 GAAAAAAAACTTAGGGGCCTCAATTGA-CAAGGTAGAAAGTCAGATT
1 ---AAAAAACTTAGGGGCCTCAATT-ATAAAGTTA-AAAGTGAGATT
* *** * * *
763101 GAAAAAACATAAAAGCCTTAGTTGTAAAGTTAAAAGTGAGATT
1 -AAAAAACTTAGGGGCCTCAATTATAAAGTTAAAAGTGAGATT
* *
763144 ACAAAA-TTAGGGGCCTCAATTATAAAGTTAAAATTGAGA
1 AAAAAACTTAGGGGCCTCAATTATAAAGTTAAAAGTGAGA
763183 CATCAAAATT
Statistics
Matches: 267, Mismatches: 62, Indels: 29
0.75 0.17 0.08
Matches are distributed among these distances:
41 31 0.12
42 42 0.16
43 93 0.35
44 51 0.19
45 21 0.08
46 28 0.10
47 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.25
Consensus pattern (42 bp):
AAAAAACTTAGGGGCCTCAATTATAAAGTTAAAAGTGAGATT
Found at i:764246 original size:21 final size:21
Alignment explanation
Indices: 764198--764247 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
764188 TCCAGACACA
*
764198 AGAGTACCAATACTCAGGCTT
1 AGAGTATCAATACTCAGGCTT
*
764219 AGAGTATCAATACTCGGGCTT
1 AGAGTATCAATACTCAGGCTT
*
764240 GGAGTATC
1 AGAGTATC
764248 GATAATGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (21 bp):
AGAGTATCAATACTCAGGCTT
Found at i:765080 original size:21 final size:21
Alignment explanation
Indices: 765030--765087 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
765020 ATTATGCTCC
* * *
765030 CTTCTCTCATCAATTCTCTCT
1 CTTCTCACTTCAATCCTCTCT
765051 CTTCTCACTTCAATCCTCTCT
1 CTTCTCACTTCAATCCTCTCT
*
765072 CTTCTCACTTTAATCC
1 CTTCTCACTTCAATCC
765088 CCATTAACAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.16, C:0.40, G:0.00, T:0.45
Consensus pattern (21 bp):
CTTCTCACTTCAATCCTCTCT
Found at i:767598 original size:23 final size:25
Alignment explanation
Indices: 767566--767631 Score: 73
Period size: 24 Copynumber: 2.6 Consensus size: 25
767556 TAAAATTATA
* *
767566 ATAAAATTTTAAATAAATTTTAATT
1 ATAATATTTTAAATAAATTTAAATT
*
767591 -TAAT-TTTTAACTATAATTTAAATT
1 ATAATATTTTAAATA-AATTTAAATT
767615 ATAATATATTTAAATAA
1 ATAATAT-TTTAAATAA
767632 TATTATCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
23 8 0.24
24 12 0.36
25 4 0.12
26 2 0.06
27 7 0.21
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
ATAATATTTTAAATAAATTTAAATT
Found at i:768614 original size:44 final size:43
Alignment explanation
Indices: 768554--768860 Score: 362
Period size: 44 Copynumber: 7.0 Consensus size: 43
768544 TACCATGAGG
* *
768554 GGCACTTTTCTGCCAATAATGCACCATTATGGATTTTCATTTAT
1 GGCAC-TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
* * * *
768598 GGCATCTTTATGCCAATAATGCACTGTTATGTATTTTTATTTAT
1 GGCA-CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
* * *
768642 GACACTTTCTGTCAATAATGCACCGTTATGCATTTTCACTTAT
1 GGCACTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
* *
768685 GGCACTTTTATGCCAATAATGCACTGTTATGCATTTTCATTTAT
1 GGCAC-TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
* * *
768729 GGAACATTTCTGCCAACAATACACCGTTATGCATTTTCATTTAT
1 GGCAC-TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
* *
768773 GGCACCTTTCTGCCAATAATGCACCATTATACATTTTCATTTAT
1 GGCA-CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
* * * ** *
768817 GGAACCTTTCTTCCAATAATTCATTGTTATGTATTTTCATTTAT
1 GGCA-CTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
768861 TTCAACAACA
Statistics
Matches: 224, Mismatches: 36, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
43 37 0.17
44 185 0.83
45 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (43 bp):
GGCACTTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
Found at i:768787 original size:88 final size:88
Alignment explanation
Indices: 768560--768860 Score: 399
Period size: 88 Copynumber: 3.4 Consensus size: 88
768550 GAGGGGCACT
* * *
768560 TTTCTGCCAATAATGCACCATTATGGATTTTCATTTATGGCATCTTTATGCCAATAATGCACTGT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTATGCCAATAATGCACTGT
* *
768625 TATGTATTTTTATTTAT-G-ACA
66 TATGCATTTTCATTTATGGAACA
* * *
768646 CTTTCTGTCAATAATGCACCGTTATGCATTTTCACTTATGGCACTTTTATGCCAATAATGCACTG
1 -TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTATGCCAATAATGCACTG
768711 TTATGCATTTTCATTTATGGAACA
65 TTATGCATTTTCATTTATGGAACA
* * * **
768735 TTTCTGCCAACAATACACCGTTATGCATTTTCATTTATGGCACCTTTCTGCCAATAATGCACCAT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTATGCCAATAATGCACTGT
* *
768800 TATACATTTTCATTTATGGAACC
66 TATGCATTTTCATTTATGGAACA
* * ** *
768823 TTTCTTCCAATAATTCATTGTTATGTATTTTCATTTAT
1 TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTAT
768861 TTCAACAACA
Statistics
Matches: 188, Mismatches: 24, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
87 74 0.39
88 111 0.59
89 3 0.02
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (88 bp):
TTTCTGCCAATAATGCACCGTTATGCATTTTCATTTATGGCACCTTTATGCCAATAATGCACTGT
TATGCATTTTCATTTATGGAACA
Found at i:769463 original size:21 final size:19
Alignment explanation
Indices: 769433--769473 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
769423 TACCCACATA
769433 AGTATGGATATTAATTGCATC
1 AGTATGGATATT-ATT-CATC
*
769454 AGTATTGATATTATTCATC
1 AGTATGGATATTATTCATC
769473 A
1 A
769474 TAATTTTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 3 0.16
21 11 0.58
ACGTcount: A:0.34, C:0.10, G:0.15, T:0.41
Consensus pattern (19 bp):
AGTATGGATATTATTCATC
Found at i:779669 original size:22 final size:22
Alignment explanation
Indices: 779621--779670 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
779611 AATGCTATTA
*
779621 CACTTTTGTATTAGTGTGAATG
1 CACTTTTGTATCAGTGTGAATG
*
779643 TACTTTTGTATCAGTGCTGAA-G
1 CACTTTTGTATCAGTG-TGAATG
779665 CACTTT
1 CACTTT
779671 AATATTAATG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 20 0.83
23 4 0.17
ACGTcount: A:0.22, C:0.14, G:0.20, T:0.44
Consensus pattern (22 bp):
CACTTTTGTATCAGTGTGAATG
Found at i:781075 original size:21 final size:21
Alignment explanation
Indices: 781031--781076 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
781021 CTTCTTCATT
* **
781031 TTTTTAATCCTTTGTTATTTA
1 TTTTTAATCCTTTCTTATAGA
*
781052 TTTTTACTCCTTTCTTATAGA
1 TTTTTAATCCTTTCTTATAGA
781073 TTTT
1 TTTT
781077 CTCTATTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.17, C:0.13, G:0.04, T:0.65
Consensus pattern (21 bp):
TTTTTAATCCTTTCTTATAGA
Found at i:788318 original size:54 final size:54
Alignment explanation
Indices: 788196--788417 Score: 212
Period size: 54 Copynumber: 4.1 Consensus size: 54
788186 CGTAGTGTCG
* * * * * ** * * **
788196 ATACGGTAATTCACAAACTCATTATGAATTGCATGGGGTTACACACATAGTGCTT
1 ATACGGAAATTCATAAACCCTTTATGAATTTC-TTAGGTTGCACACATAGTACCA
*
788251 ATACGGAAATTCATAAACCCTTTATGAATTTCTTAGGTAGCACACATAGTACCA
1 ATACGGAAATTCATAAACCCTTTATGAATTTCTTAGGTTGCACACATAGTACCA
* * ** * * ** *
788305 TTACTGATTTTCATAAACTCATTATGAATTTCTTATATTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACCCTTTATGAATTTCTTAGGTTGCACACATAGTACCA
* *
788359 ATACGGAAATTCATAAA-CTTATTATGAATTTCTTAGGTTGCACACATAGTGCCA
1 ATACGGAAATTCATAAACCCT-TTATGAATTTCTTAGGTTGCACACATAGTACCA
788413 ATACG
1 ATACG
788418 ATAAGTGCAA
Statistics
Matches: 135, Mismatches: 31, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
54 108 0.80
55 27 0.20
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.33
Consensus pattern (54 bp):
ATACGGAAATTCATAAACCCTTTATGAATTTCTTAGGTTGCACACATAGTACCA
Found at i:789624 original size:98 final size:98
Alignment explanation
Indices: 789455--789650 Score: 392
Period size: 98 Copynumber: 2.0 Consensus size: 98
789445 AAGAGAAGAA
789455 AAATTTCAGACTTATCCTCTTAATTCTCCTATTTACTTTTATTAAATAACCCAATTTAAATGAAT
1 AAATTTCAGACTTATCCTCTTAATTCTCCTATTTACTTTTATTAAATAACCCAATTTAAATGAAT
789520 ATTAAATTCATTCCATTTAAAGGACCAAATTGC
66 ATTAAATTCATTCCATTTAAAGGACCAAATTGC
789553 AAATTTCAGACTTATCCTCTTAATTCTCCTATTTACTTTTATTAAATAACCCAATTTAAATGAAT
1 AAATTTCAGACTTATCCTCTTAATTCTCCTATTTACTTTTATTAAATAACCCAATTTAAATGAAT
789618 ATTAAATTCATTCCATTTAAAGGACCAAATTGC
66 ATTAAATTCATTCCATTTAAAGGACCAAATTGC
789651 CTCTCCATTC
Statistics
Matches: 98, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 98 1.00
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (98 bp):
AAATTTCAGACTTATCCTCTTAATTCTCCTATTTACTTTTATTAAATAACCCAATTTAAATGAAT
ATTAAATTCATTCCATTTAAAGGACCAAATTGC
Found at i:794494 original size:54 final size:54
Alignment explanation
Indices: 794390--794602 Score: 275
Period size: 54 Copynumber: 3.9 Consensus size: 54
794380 CCGATACGGT
* * **
794390 AATTCACAAACTCATTATGAATTACGTGGGGTTGCAAACATAGTGCCAATATCG-A
1 AATTCATAAACTCATTATGAATTTC-TTAGGTTGCAAACATAGTGCCAATA-CGAA
* * *
794445 AATTCATAAACTTATTATGAATTTCTTAGGTTGCACACATAGTGCCAATACGTA
1 AATTCATAAACTCATTATGAATTTCTTAGGTTGCAAACATAGTGCCAATACGAA
* * *
794499 AATTTATAAACTCATTATGAATTTCTTATGTTGCAAACTTAGTGCCAATACGAA
1 AATTCATAAACTCATTATGAATTTCTTAGGTTGCAAACATAGTGCCAATACGAA
* * * *
794553 AATTCATAAACTCGTTATGAATTTATTAGGTTGCACACATAGTTCCAATA
1 AATTCATAAACTCATTATGAATTTCTTAGGTTGCAAACATAGTGCCAATA
794603 TGGTAAATGC
Statistics
Matches: 138, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.01
54 114 0.83
55 22 0.16
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (54 bp):
AATTCATAAACTCATTATGAATTTCTTAGGTTGCAAACATAGTGCCAATACGAA
Found at i:794573 original size:108 final size:109
Alignment explanation
Indices: 794397--794602 Score: 308
Period size: 108 Copynumber: 1.9 Consensus size: 109
794387 GGTAATTCAC
* *
794397 AAACTCATTATGAATTACGTGGGGTTGCAAACATAGTGCCAATATCGAAATTCATAAACTTATTA
1 AAACTCATTATGAATTACGTGAGGTTGCAAACATAGTGCCAATATCGAAATTCATAAACTCATTA
*
794462 TGAATTTCTTAGGTTGCACACATAGTGCCAATACGTAAATTTAT
66 TGAATTTATTAGGTTGCACACATAGTGCCAATACGTAAATTTAT
* * * * *
794506 AAACTCATTATGAATTTC-TTATGTTGCAAACTTAGTGCCAATA-CGAAAATTCATAAACTCGTT
1 AAACTCATTATGAATTACGTGAGGTTGCAAACATAGTGCCAATATCG-AAATTCATAAACTCATT
*
794569 ATGAATTTATTAGGTTGCACACATAGTTCCAATA
65 ATGAATTTATTAGGTTGCACACATAGTGCCAATA
794603 TGGTAAATGC
Statistics
Matches: 87, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
107 2 0.02
108 68 0.78
109 17 0.20
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (109 bp):
AAACTCATTATGAATTACGTGAGGTTGCAAACATAGTGCCAATATCGAAATTCATAAACTCATTA
TGAATTTATTAGGTTGCACACATAGTGCCAATACGTAAATTTAT
Found at i:797370 original size:18 final size:18
Alignment explanation
Indices: 797330--797372 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
797320 GTCTTTTTTC
* *
797330 TTTTTCTTTCGAACAGTTT
1 TTTTT-TTTCGAACAGCTA
*
797349 TTTTTTTTCGAACTGCTA
1 TTTTTTTTCGAACAGCTA
797367 TTTTTT
1 TTTTTT
797373 CAACATTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.14, C:0.14, G:0.09, T:0.63
Consensus pattern (18 bp):
TTTTTTTTCGAACAGCTA
Found at i:799011 original size:4 final size:4
Alignment explanation
Indices: 799002--799028 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
798992 GCTTGATCAA
799002 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
799029 ACTAAAACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:805248 original size:31 final size:31
Alignment explanation
Indices: 805191--805253 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 31
805181 CATACTTAGC
*
805191 ATAAAAATAAAACTTGAAAAAGAAAGA-AAA
1 ATAAAAAAAAAACTTGAAAAAGAAAGAGAAA
805221 ATAAAAAAAAGAACTTG-AAAAGAAAAGAGAAA
1 ATAAAAAAAA-AACTTGAAAAAG-AAAGAGAAA
805253 A
1 A
805254 CTTTTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 14 0.48
31 11 0.38
32 4 0.14
ACGTcount: A:0.73, C:0.03, G:0.13, T:0.11
Consensus pattern (31 bp):
ATAAAAAAAAAACTTGAAAAAGAAAGAGAAA
Found at i:813720 original size:29 final size:29
Alignment explanation
Indices: 813687--813787 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 29
813677 AGCATGACAT
813687 TAAGGTATGATCATTTATGTAAAAACAAG
1 TAAGGTATGATCATTTATGTAAAAACAAG
** *
813716 TAAGGT-TGCATGGCATTTAGACATTGTAGCATGAC-AT
1 TAAGGTATG-AT--CATTT----A-TGTA--AAAACAAG
813753 TAAGGTATGATCATTTATGTAAAAACAAG
1 TAAGGTATGATCATTTATGTAAAAACAAG
813782 TAAGGT
1 TAAGGT
813788 TGCATGGCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 24
0.64 0.07 0.29
Matches are distributed among these distances:
28 5 0.09
29 15 0.28
30 4 0.07
31 6 0.11
35 6 0.11
36 4 0.07
37 9 0.17
38 5 0.09
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.32
Consensus pattern (29 bp):
TAAGGTATGATCATTTATGTAAAAACAAG
Found at i:813734 original size:31 final size:31
Alignment explanation
Indices: 813698--813800 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 31
813688 AAGGTATGAT
813698 CATTTATGTAAAAACAAGTAAGGTTGCATGG
1 CATTTATGTAAAAACAAGTAAGGTTGCATGG
** *
813729 CATTTAGACATTGTAGCATGAC-ATTAAGGTATG-AT--
1 CATTT----A-TGTA--AAAACAAGTAAGGT-TGCATGG
813764 CATTTATGTAAAAACAAGTAAGGTTGCATGG
1 CATTTATGTAAAAACAAGTAAGGTTGCATGG
813795 CATTTA
1 CATTTA
813801 GGTATTCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 24
0.64 0.07 0.29
Matches are distributed among these distances:
28 5 0.09
29 9 0.17
30 4 0.07
31 12 0.22
35 6 0.11
36 4 0.07
37 9 0.17
38 5 0.09
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (31 bp):
CATTTATGTAAAAACAAGTAAGGTTGCATGG
Found at i:813745 original size:66 final size:66
Alignment explanation
Indices: 813670--813801 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
813660 CATTAAGTGA
813670 ACATTGTAGCATGACATTAAGGTATGATCATTTATGTAAAAACAAGTAAGGTTGCATGGCATTTA
1 ACATTGTAGCATGACATTAAGGTATGATCATTTATGTAAAAACAAGTAAGGTTGCATGGCATTTA
813735 G
66 G
813736 ACATTGTAGCATGACATTAAGGTATGATCATTTATGTAAAAACAAGTAAGGTTGCATGGCATTTA
1 ACATTGTAGCATGACATTAAGGTATGATCATTTATGTAAAAACAAGTAAGGTTGCATGGCATTTA
813801 G
66 G
813802 GTATTCTTTC
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (66 bp):
ACATTGTAGCATGACATTAAGGTATGATCATTTATGTAAAAACAAGTAAGGTTGCATGGCATTTA
G
Found at i:816181 original size:8 final size:8
Alignment explanation
Indices: 816170--816240 Score: 133
Period size: 8 Copynumber: 8.9 Consensus size: 8
816160 AATGCCCTTT
*
816170 CATTATTC
1 CATTCTTC
816178 CATTCTTC
1 CATTCTTC
816186 CATTCTTC
1 CATTCTTC
816194 CATTCTTC
1 CATTCTTC
816202 CATTCTTC
1 CATTCTTC
816210 CATTCTTC
1 CATTCTTC
816218 CATTCTTC
1 CATTCTTC
816226 CATTCTTC
1 CATTCTTC
816234 CATTCTT
1 CATTCTT
816241 ACTAATTAAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
8 62 1.00
ACGTcount: A:0.14, C:0.35, G:0.00, T:0.51
Consensus pattern (8 bp):
CATTCTTC
Found at i:828250 original size:162 final size:162
Alignment explanation
Indices: 827969--828260 Score: 415
Period size: 162 Copynumber: 1.8 Consensus size: 162
827959 ATTACCAAAT
* *
827969 AGGCACTAAGTGTGCAACTCACAGAATTCAACATATGTTGATGAACAATCATTTCGACATTATGT
1 AGGCACTAAGTGTGCAACTCACAGAATTCAACATATGTTGATGAACAACCATTTCGACACTATGT
** * * * * * *
828034 ATGCAACTCACGAAATTCATTTTTTATTGATGAACAATCATTTTGGCTCTATGTGTTCAACTCAC
66 ATGCAACTCACGAAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCAC
828099 GCAACTCATCATATGTTGATGAACAACCGTAC
131 GCAACTCATCATATGTTGATGAACAACCGTAC
* * * *
828131 AGGCATTATGTGTGCAACTCAC-GAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATG
1 AGGCACTAAGTGTGCAACTCACAG-AATTCAACATATGTTGATGAACAACCATTTCGACACTATG
* * *
828195 TGTGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCA
65 TATGCAACTCACGAAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCA
828260 C
130 C
828261 AGAATTTATC
Statistics
Matches: 112, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
161 1 0.01
162 111 0.99
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (162 bp):
AGGCACTAAGTGTGCAACTCACAGAATTCAACATATGTTGATGAACAACCATTTCGACACTATGT
ATGCAACTCACGAAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCAC
GCAACTCATCATATGTTGATGAACAACCGTAC
Found at i:828266 original size:54 final size:54
Alignment explanation
Indices: 827970--828260 Score: 343
Period size: 54 Copynumber: 5.4 Consensus size: 54
827960 TTACCAAATA
* * *
827970 GGCACTAAGTGTGCAACTCAC-AGAATTCAACATATGTTGATGAACAATCATTTC
1 GGCACTATGTGTGCAACTCACGA-AATTCATCATATGTTGATGAACAACCATTTC
* * * ** * * * *
828024 GACATTATGTATGCAACTCACGAAATTCATTTTTTATTGATGAACAATCATTTT
1 GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTC
* * * * * *
828078 GGCTCTATGTGTTCAACTCACGCAACTCATCATATGTTGATGAACAACC-GTAC
1 GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTC
*
828131 AGGCATTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTC
1 -GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTC
* * *
828186 GGCACTATGTGTGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTC
1 GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTC
*
828240 GACACTATGTGTGCAACTCAC
1 GGCACTATGTGTGCAACTCAC
828261 AGAATTTATC
Statistics
Matches: 196, Mismatches: 38, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
53 1 0.01
54 192 0.98
55 3 0.02
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (54 bp):
GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTC
Found at i:828335 original size:89 final size:89
Alignment explanation
Indices: 828182--828348 Score: 298
Period size: 89 Copynumber: 1.9 Consensus size: 89
828172 TGAACAACCA
828182 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTCGACACTA
1 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTCGACACTA
*
828247 TGTGTGCAACTCACAGAATTTATC
66 TCTGTGCAACTCACAGAATTTATC
* *
828271 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCATTTCGGCACTA
1 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTCGACACTA
*
828336 TCTGTGTAACTCA
66 TCTGTGCAACTCA
828349 TATAATTCAT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
89 74 1.00
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.33
Consensus pattern (89 bp):
TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTCGACACTA
TCTGTGCAACTCACAGAATTTATC
Found at i:828356 original size:54 final size:54
Alignment explanation
Indices: 828271--828429 Score: 239
Period size: 54 Copynumber: 2.9 Consensus size: 54
828261 AGAATTTATC
828271 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCA
1 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCA
* * ** **
828325 TTTCGGCACTATCTGTGTAACTCATATAATTCATCATATGTTGATGAACAACTG
1 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCA
*
828379 TTTCGGCACTATGTGTGCAACTCACGGAATTCATCATGA-GTTGATGAACAA
1 TTTCGGCACTATGTGTGCAACTCATGGAATTCATCAT-ATGTTGATGAACAA
828430 TCGTACAGGC
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
54 92 0.99
55 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (54 bp):
TTTCGGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCA
Found at i:828395 original size:143 final size:143
Alignment explanation
Indices: 828132--828409 Score: 448
Period size: 143 Copynumber: 1.9 Consensus size: 143
828122 CAACCGTACA
* *
828132 GGCATTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATGTG
1 GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATCTG
*
828197 TGCAACTCATGGAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCACA
66 TGCAACTCATAGAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCACA
828262 GAATTTATCTTTC
131 GAATTTATCTTTC
* *
828275 GGCACTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCATTTCGGCACTATCTG
1 GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATCTG
* * * ** * *
828340 TGTAACTCATATAATTCATCATATGTTGATGAACAACTGTTTCGGCACTATGTGTGCAACTCACG
66 TGCAACTCATAGAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCACA
828405 GAATT
131 GAATT
828410 CATCATGAGT
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
143 123 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (143 bp):
GGCACTATGTGTGCAACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATCTG
TGCAACTCATAGAATTCATCATATATTGATGAACAACCATTTCGACACTATGTGTGCAACTCACA
GAATTTATCTTTC
Found at i:828441 original size:54 final size:54
Alignment explanation
Indices: 828275--828560 Score: 238
Period size: 54 Copynumber: 5.3 Consensus size: 54
828265 TTTATCTTTC
* * *
828275 GGCACTATGTGTGCAACTCATGGAATTCATCAT-ATGTTGATGAACAACCATTTC-
1 GGCACTATGTGTGCAACTCACGGAATTCATCATGA-GTTGATGAACAACC-GTACA
* * *** * *
828329 GGCACTATCTGTGTAACTCATATAATTCATCAT-ATGTTGATGAACAACTGTTTC-
1 GGCACTATGTGTGCAACTCACGGAATTCATCATGA-GTTGATGAACAACCG-TACA
*
828383 GGCACTATGTGTGCAACTCACGGAATTCATCATGAGTTGATGAACAATCGTACA
1 GGCACTATGTGTGCAACTCACGGAATTCATCATGAGTTGATGAACAACCGTACA
* * * * * *
828437 GGCACTATGTATGCAAACCCACAGATTTCATCATGAGATGATGAACAACCATACA
1 GGCACTATGTGTGC-AACTCACGGAATTCATCATGAGTTGATGAACAACCGTACA
* * * * * * * * ** *
828492 TGAACTGTATGTACAACTCACGAAATTCATCATGTGTTGATAAACGTCCGTATA
1 GGCACTATGTGTGCAACTCACGGAATTCATCATGAGTTGATGAACAACCGTACA
*
828546 GGCACTATATGTGCA
1 GGCACTATGTGTGCA
828561 TCTTAATAAA
Statistics
Matches: 186, Mismatches: 42, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
53 2 0.01
54 141 0.76
55 43 0.23
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.29
Consensus pattern (54 bp):
GGCACTATGTGTGCAACTCACGGAATTCATCATGAGTTGATGAACAACCGTACA
Found at i:828445 original size:197 final size:198
Alignment explanation
Indices: 828082--828461 Score: 509
Period size: 197 Copynumber: 1.9 Consensus size: 198
828072 CATTTTGGCT
* * *
828082 CTATGTGTTCAACTCACGCAACTCATCATATGTTGATGAACAACCGTACAGGCATTATGTGTGCA
1 CTATGTGTGCAACTCACGCAACTCATCATATGTTGATGAACAACCGTACAGGCACTATCTGTGCA
*
828147 ACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATGTGTGCAACTCATGGAAT
66 ACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATGTGTGCAACTCACGGAAT
* * * *
828212 TCATCATATATTGATGAACAACCATTTCGACACTATGTGTGC-AACTCACAGAATTTATCTTTCG
131 TCATCATATATTGATGAACAACCAGTACGACACTATGTATGCAAACCCACAGAATTTATCTTTCG
828276 GCA
196 GCA
* * * * * *
828279 CTATGTGTGCAACTCATGGAATTCATCATATGTTGATGAACAACCATTTC-GGCACTATCTGTGT
1 CTATGTGTGCAACTCACGCAACTCATCATATGTTGATGAACAACC-GTACAGGCACTATCTGTGC
* **
828343 AACTCA-TATAATTCATCATATGTTGATGAACAACTGTTTCGGCACTATGTGTGCAACTCACGGA
65 AACTCACGA-AATTCATCATATGTTGATGAACAACCATTTCGGCACTATGTGTGCAACTCACGGA
* * *
828407 ATTCATCATGA-GTTGATGAACAATC-GTACAGGCACTATGTATGCAAACCCACAGA
129 ATTCATCAT-ATATTGATGAACAACCAGTAC-GACACTATGTATGCAAACCCACAGA
828462 TTTCATCATG
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
196 3 0.02
197 143 0.91
198 12 0.08
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (198 bp):
CTATGTGTGCAACTCACGCAACTCATCATATGTTGATGAACAACCGTACAGGCACTATCTGTGCA
ACTCACGAAATTCATCATATGTTGATGAACAACCATTTCGGCACTATGTGTGCAACTCACGGAAT
TCATCATATATTGATGAACAACCAGTACGACACTATGTATGCAAACCCACAGAATTTATCTTTCG
GCA
Found at i:833882 original size:54 final size:54
Alignment explanation
Indices: 833796--834557 Score: 678
Period size: 54 Copynumber: 14.1 Consensus size: 54
833786 TTACCAAATA
* * * * * * * *
833796 GGCACTAAGTGTGGAACTCACGGAATTCATCATTTGTTTATGAAAAATCGTTTT
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* * * *
833850 GGCACTATGTGTGCAACTCACAGAATTTATCATATGCTGACGAACAACTGTTTC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* *
833904 GACACTATGTGTACAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * *
833958 GGCACTATGTGTGCAACTCACATAATTAATCATATGTTAATGAAAAACCG-TAC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * *
834011 AGGCACTATGTGTGCAATTCAC-GAAACTCATTATACGTTGATGAACAACCCTTTC
1 -GGCACTATGTGTGCAACTCACAG-AATTCATCATATGTTGATGAACAACCGTTTC
* * * * * *
834066 GGCACTATGTGTGTAACTCACAAAATTCATAAAAAGTAT-ATGAACTACCGTTTC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGT-TGATGAACAACCGTTTC
* * ** * * * *
834120 GGCAATATTTGTGCAACTCATGGAATTCATCACATGTTAATTAATAACCGTTTC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* *
834174 GGCACTATGTGTGCAACTCAC-GAAATTCATCATATGTT-ATGAACTACCATTTC
1 GGCACTATGTGTGCAACTCACAG-AATTCATCATATGTTGATGAACAACCGTTTC
* * ** * * * * **
834227 GACACTATTTGTGCAACTCATGGAGTTTATCATGA-GTTTATGAACAACTG-AAC
1 GGCACTATGTGTGCAACTCACAGAATTCATCAT-ATGTTGATGAACAACCGTTTC
* * * * *
834280 ATGCACTATGTGTGCAACTCACGGAATTCATTATATGTCGATGAACAACCCTTTC
1 -GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * * * * *
834335 GGCACTATGTGTGTAGCCCACAAAATTCATAAAAAGTGGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* * * * * * * *
834389 AGCACTCTGTGTGCATCTCACAAAATTCATTAAAAGTAGATGAACAACCGTTTC
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* ** * * *
834443 GGCACTATGTGTACAACTCATGGAATTCATCATATGTTAATGAACAACTGTTTT
1 GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
* *
834497 GGCACTATGTGTGCAACTCAC-GAAATTCATCATATGTTTG-TGAACAATCGTTTT
1 GGCACTATGTGTGCAACTCACAG-AATTCATCATATG-TTGATGAACAACCGTTTC
834551 GGCACTA
1 GGCACTA
834558 ACTCACATAA
Statistics
Matches: 569, Mismatches: 124, Indels: 30
0.79 0.17 0.04
Matches are distributed among these distances:
53 47 0.08
54 516 0.91
55 6 0.01
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (54 bp):
GGCACTATGTGTGCAACTCACAGAATTCATCATATGTTGATGAACAACCGTTTC
Found at i:839104 original size:174 final size:174
Alignment explanation
Indices: 838814--839162 Score: 698
Period size: 174 Copynumber: 2.0 Consensus size: 174
838804 CCATTTTAAA
838814 CCTTTCACCTCTTATGTTCCTTTTCGTGTCTTTGGTTGTACAACCTTCTCCATGATTATAACCAC
1 CCTTTCACCTCTTATGTTCCTTTTCGTGTCTTTGGTTGTACAACCTTCTCCATGATTATAACCAC
838879 CACAAATCAAAGTTTGATCCTTGAATGATACGTTGTTTTATTGTTGGTTATTCATCCATTAAGAA
66 CACAAATCAAAGTTTGATCCTTGAATGATACGTTGTTTTATTGTTGGTTATTCATCCATTAAGAA
838944 AGATTATCGATGCCACTCTCCTTCTACAAAAAAGTTCTTCCCTT
131 AGATTATCGATGCCACTCTCCTTCTACAAAAAAGTTCTTCCCTT
838988 CCTTTCACCTCTTATGTTCCTTTTCGTGTCTTTGGTTGTACAACCTTCTCCATGATTATAACCAC
1 CCTTTCACCTCTTATGTTCCTTTTCGTGTCTTTGGTTGTACAACCTTCTCCATGATTATAACCAC
839053 CACAAATCAAAGTTTGATCCTTGAATGATACGTTGTTTTATTGTTGGTTATTCATCCATTAAGAA
66 CACAAATCAAAGTTTGATCCTTGAATGATACGTTGTTTTATTGTTGGTTATTCATCCATTAAGAA
839118 AGATTATCGATGCCACTCTCCTTCTACAAAAAAGTTCTTCCCTT
131 AGATTATCGATGCCACTCTCCTTCTACAAAAAAGTTCTTCCCTT
839162 C
1 C
839163 TATGGATGTT
Statistics
Matches: 175, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
174 175 1.00
ACGTcount: A:0.25, C:0.24, G:0.12, T:0.40
Consensus pattern (174 bp):
CCTTTCACCTCTTATGTTCCTTTTCGTGTCTTTGGTTGTACAACCTTCTCCATGATTATAACCAC
CACAAATCAAAGTTTGATCCTTGAATGATACGTTGTTTTATTGTTGGTTATTCATCCATTAAGAA
AGATTATCGATGCCACTCTCCTTCTACAAAAAAGTTCTTCCCTT
Found at i:851862 original size:16 final size:16
Alignment explanation
Indices: 851828--851870 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
851818 TCGTGAAAGG
*
851828 GAAGATGAAGAAAGGTT
1 GAAGA-GAAAAAAGGTT
*
851845 GAAGAGAAAAAAGTTT
1 GAAGAGAAAAAAGGTT
*
851861 GAAAAGAAAA
1 GAAGAGAAAA
851871 TTGAAAAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 18 0.78
17 5 0.22
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (16 bp):
GAAGAGAAAAAAGGTT
Found at i:863627 original size:20 final size:20
Alignment explanation
Indices: 863602--863640 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
863592 GATAAAAAGC
*
863602 AAGTTCAAAATTAAAGGAAA
1 AAGTTCAAAAGTAAAGGAAA
*
863622 AAGTTCAAGAGTAAAGGAA
1 AAGTTCAAAAGTAAAGGAA
863641 TATATATAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.21, T:0.18
Consensus pattern (20 bp):
AAGTTCAAAAGTAAAGGAAA
Found at i:863797 original size:15 final size:15
Alignment explanation
Indices: 863777--863807 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
863767 TTGTGATATA
863777 TATTTTTCATAATGC
1 TATTTTTCATAATGC
863792 TATTTTTCATAATGC
1 TATTTTTCATAATGC
863807 T
1 T
863808 TTATTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TATTTTTCATAATGC
Found at i:864205 original size:24 final size:24
Alignment explanation
Indices: 864120--864215 Score: 86
Period size: 24 Copynumber: 4.0 Consensus size: 24
864110 ATTCGTGTAC
* *
864120 ATTCTACGCGACACTTTATGTGCA
1 ATTCTACGCGGCACTATATGTGCA
* * **
864144 ATTCTATC-TGGAAAAATATGTGCA
1 ATTCTA-CGCGGCACTATATGTGCA
* **
864168 ATTCTATGTAGCACTATATGTGCA
1 ATTCTACGCGGCACTATATGTGCA
*
864192 ATTCTACGCGGCACTATTTGTGCA
1 ATTCTACGCGGCACTATATGTGCA
864216 TTCAGGAAAT
Statistics
Matches: 55, Mismatches: 15, Indels: 4
0.74 0.20 0.05
Matches are distributed among these distances:
24 54 0.98
25 1 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (24 bp):
ATTCTACGCGGCACTATATGTGCA
Found at i:864252 original size:15 final size:15
Alignment explanation
Indices: 864228--864265 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
864218 CAGGAAATTC
*
864228 ATGATGTTGATCATT
1 ATGATATTGATCATT
864243 ATGATATTGATCATT
1 ATGATATTGATCATT
864258 ATGATATT
1 ATGATATT
864266 CCTAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.47
Consensus pattern (15 bp):
ATGATATTGATCATT
Found at i:865205 original size:52 final size:52
Alignment explanation
Indices: 865124--865266 Score: 259
Period size: 52 Copynumber: 2.7 Consensus size: 52
865114 TTTTACTAAA
* *
865124 ATACTTACCGTTTAAAATTCCATGAGCTCGTAAGCTTATATTTTTTTTCCAAT
1 ATACTTACCATTT-AAATTCCATAAGCTCGTAAGCTTATATTTTTTTTCCAAT
865177 ATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTATATTTTTTTTCCAAT
1 ATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTATATTTTTTTTCCAAT
865229 ATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTAT
1 ATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTAT
865267 TTTACCCATA
Statistics
Matches: 88, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
52 76 0.86
53 12 0.14
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.42
Consensus pattern (52 bp):
ATACTTACCATTTAAATTCCATAAGCTCGTAAGCTTATATTTTTTTTCCAAT
Found at i:865461 original size:40 final size:40
Alignment explanation
Indices: 865417--865538 Score: 235
Period size: 40 Copynumber: 3.0 Consensus size: 40
865407 ACCGTAGTGC
*
865417 TACACATAAGGTCGTGTCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
865457 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
865497 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
865537 TA
1 TA
865539 TAACCTGCAG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 81 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:868658 original size:22 final size:22
Alignment explanation
Indices: 868631--868674 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
868621 TAATTGAGTG
868631 AATCTATTTTTAAAATATTTAA
1 AATCTATTTTTAAAATATTTAA
868653 AATCTATTTTTAAAATATTTAA
1 AATCTATTTTTAAAATATTTAA
868675 CTATATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (22 bp):
AATCTATTTTTAAAATATTTAA
Found at i:869182 original size:2 final size:2
Alignment explanation
Indices: 869135--869167 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
869125 AGATAAATGA
869135 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
869168 AGAGTCAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:872832 original size:26 final size:25
Alignment explanation
Indices: 872793--872863 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
872783 TGATCAATGC
872793 AGAAGTTTTAAAAAATGTTTGATAAA
1 AGAA-TTTTAAAAAATGTTTGATAAA
* * *
872819 AGAATTTTTGAAAAATGATTGATGAA
1 AGAA-TTTTAAAAAATGTTTGATAAA
872845 AGAATTTTAAAAAATGTTT
1 AGAATTTTAAAAAATGTTT
872864 ATTTTATAAC
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
25 13 0.33
26 26 0.67
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.37
Consensus pattern (25 bp):
AGAATTTTAAAAAATGTTTGATAAA
Found at i:873831 original size:18 final size:18
Alignment explanation
Indices: 873808--873842 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
873798 TCAATCTTTT
873808 AATAATGAACGTCCTAAA
1 AATAATGAACGTCCTAAA
873826 AATAATGAACGTCCTAA
1 AATAATGAACGTCCTAA
873843 CACCTCACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (18 bp):
AATAATGAACGTCCTAAA
Found at i:875658 original size:41 final size:41
Alignment explanation
Indices: 875592--875704 Score: 136
Period size: 42 Copynumber: 2.7 Consensus size: 41
875582 CATTTTGCCC
* * * *
875592 AAAGGTCTTATAGATGGCGCGAAGGACTTATCATCTTGCTCG
1 AAAGG-CTTATAGATGGCCCAAAGGACTTATCATCATACTCG
* *
875634 AAAGGCTTATAGATGACCCAAAGGATTTAATCATCATACTCG
1 AAAGGCTTATAGATGGCCCAAAGGACTT-ATCATCATACTCG
* *
875676 AAAGACTTATTGATGGCCCAAAGGACTTA
1 AAAGGCTTATAGATGGCCCAAAGGACTTA
875705 CTAACTTTGG
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 20 0.33
42 40 0.67
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.27
Consensus pattern (41 bp):
AAAGGCTTATAGATGGCCCAAAGGACTTATCATCATACTCG
Found at i:875879 original size:257 final size:256
Alignment explanation
Indices: 875397--876084 Score: 903
Period size: 257 Copynumber: 2.7 Consensus size: 256
875387 AGATAACCTG
* **
875397 AAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCTCGAAGGACTCGCTAATTTTGGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACTAA-TTTGGAAAT
* * * *
875462 AATTTACT-AGTAAGAAACTTTGGAAATTGTTTTTTTACTTTTCAAAAATTTCATTTTATGAAAG
65 AATTTACTGGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAA
* * ** *
875526 CATTAAACGAGAAACTTTGGAAATCGCTTTCTTATTTTTCGAAAATCATGGGAAAACATTTTGCC
130 TATTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTTC-AAAATCATGGGAAAACATCCTACC
* * * *
875591 CAAAGGTCTTATAGATGGCGCGAAGGACTTATCATCTTGCTCGAAAGGCTTATAGATGACCCA
194 CAAAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCTTACAGATGACCCA
* *
875654 AAGGATTTAATCATCATACTCGAAAGACTTATTGATGGCCCAAAGGACTTACTAACTTTGGAAAT
1 AAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACTAA-TTTGGAAAT
* *** * *
875719 AATTTACTGGGTAATAAACTTTGGAAATCACTTTCTTACGTTTAAAAAATTTCATTTTCTGAAAA
65 AATTTACTGGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAA
* * * * * *
875784 TACTAAATGAGAAACTTTAGAAATCACTTTCTCATTTTTCAAATTCATGTGAAAACATCCTACCT
130 TATTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAATCATGGGAAAACATCCTACC-
* * * * * *
875849 GAAA-GTCTTACGGATGTCCCGAATGACTTATCATCTTACTCGAAAGGGTTACAGATGACCCG
194 CAAAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCTTACAGATGACCCA
* * ** * *
875911 AAGAATTTACTCATCATGCTCGAAAGACTTACCGATGGCCCGAAGGACTTACCAATTGGGAAATA
1 AAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACTAATTTGGAAATA
* *
875976 GTTTACTGGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAA
66 ATTTACTGGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTCATTTTCTG-AAAA
* *
876041 TATTAAATGAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAA
130 TATTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAA
876085 ATTTTATTTT
Statistics
Matches: 368, Mismatches: 60, Indels: 6
0.85 0.14 0.01
Matches are distributed among these distances:
256 61 0.17
257 224 0.61
258 83 0.23
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (256 bp):
AAGGATTTAATCATCATGCTCGAAAGACTTATTGATGGCCCGAAGGACTTACTAATTTGGAAATA
ATTTACTGGGTAAGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAAT
ATTAAATGAGAAACTTTGGAAATCGCTTTCTTATTTTTCAAAATCATGGGAAAACATCCTACCCA
AAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTACTCGAAAGGCTTACAGATGACCCA
Found at i:876085 original size:62 final size:63
Alignment explanation
Indices: 875988--876129 Score: 241
Period size: 62 Copynumber: 2.3 Consensus size: 63
875978 TTACTGGGTA
* *
875988 AGAAACTTTGGAAATTGTTTTCTTACTTTTCAAAAATTTCATTTTCAG-AAAAATATTAAATG
1 AGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAAATATTAAACG
*
876050 AGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTTATTTTCAGAAAAAAATATTAAACG
1 AGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAG-AAAAAATATTAAACG
876114 AGAAACTTTGGAAATC
1 AGAAACTTTGGAAATC
876130 ACTTTCTCAT
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
62 46 0.61
64 29 0.39
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.39
Consensus pattern (63 bp):
AGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCAGAAAAAATATTAAACG
Found at i:878519 original size:76 final size:75
Alignment explanation
Indices: 878428--878592 Score: 224
Period size: 76 Copynumber: 2.2 Consensus size: 75
878418 TTAAACTCAT
* *
878428 ATTTAGGATAATATTTTAAACATTATAT-TTTATCTTTTTATTTTAGTTTAAATAGGTTTTTAGT
1 ATTTAGGATATTATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGT
878492 ATTTTAATTAAG
64 ATTTTAATTAAG
* * * * *
878504 TTTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTGAATAGGTTTTAGTAT
1 ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
*
878569 TTTAATTAGG
66 TTTAATTAAG
*
878579 ATTTAGAATATTAT
1 ATTTAGGATATTAT
878593 ATTTTTTTTA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
75 37 0.47
76 41 0.53
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (75 bp):
ATTTAGGATATTATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAT
TTTAATTAAG
Found at i:878625 original size:13 final size:13
Alignment explanation
Indices: 878607--878635 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
878597 TTTTTAGGAT
878607 TTAAGTGTTTTAA
1 TTAAGTGTTTTAA
878620 TTAAGTGTTTTAA
1 TTAAGTGTTTTAA
878633 TTA
1 TTA
878636 GGATTTAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAAGTGTTTTAA
Found at i:879272 original size:20 final size:21
Alignment explanation
Indices: 879247--879286 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
879237 TTATTTAAAT
879247 ATTCTT-TTTTATTTTATTTA
1 ATTCTTATTTTATTTTATTTA
*
879267 ATTCTTATTTTTTTTTATTT
1 ATTCTTATTTTATTTTATTT
879287 TAACCACAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (21 bp):
ATTCTTATTTTATTTTATTTA
Found at i:879277 original size:23 final size:21
Alignment explanation
Indices: 879236--879286 Score: 57
Period size: 23 Copynumber: 2.3 Consensus size: 21
879226 CTTTAATTTG
*
879236 TTTATTTAAATATTCTTTTTTAT
1 TTTATTTAAATATT-ATTTTT-T
* *
879259 TTTATTTAATTCTTATTTTTT
1 TTTATTTAAATATTATTTTTT
879280 TTTATTT
1 TTTATTT
879287 TAACCACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 5 0.20
23 12 0.48
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTATTTAAATATTATTTTTT
Found at i:888472 original size:14 final size:14
Alignment explanation
Indices: 888450--888488 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
888440 ACCCATTTCG
* *
888450 TTATATTTTTGTTT
1 TTATTTTTTTATTT
888464 TTATTTTTTTATTT
1 TTATTTTTTTATTT
*
888478 TCATTTTTTTA
1 TTATTTTTTTA
888489 GTGAACTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (14 bp):
TTATTTTTTTATTT
Found at i:889616 original size:53 final size:54
Alignment explanation
Indices: 889525--889640 Score: 182
Period size: 55 Copynumber: 2.1 Consensus size: 54
889515 AATGTTTCAA
*
889525 AAAAAAAAACAAGTTGTTCACTGTATAGAACAGCAAAAAAAAGACCCTTTGTTCG
1 AAAAAAAAACAAGTTGTTCACTGTATAGAACA-CAAAAAAAAGACCATTTGTTCG
*
889580 AAAAAAAAACAAGTTGTTCACTGTATCA-AATA-AAAAAAAAGACCATTTGTTCG
1 AAAAAAAAACAAGTTGTTCACTGTAT-AGAACACAAAAAAAAGACCATTTGTTCG
889633 AAAAAAAA
1 AAAAAAAA
889641 GGGAAGGAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
53 28 0.48
55 29 0.50
56 1 0.02
ACGTcount: A:0.53, C:0.14, G:0.12, T:0.22
Consensus pattern (54 bp):
AAAAAAAAACAAGTTGTTCACTGTATAGAACACAAAAAAAAGACCATTTGTTCG
Found at i:890478 original size:76 final size:75
Alignment explanation
Indices: 890397--890545 Score: 228
Period size: 76 Copynumber: 2.0 Consensus size: 75
890387 TAAACTCAAA
890397 TTTAGGATAATATTTTAAACATTATAT-TTTATCTTTGTATTTTAGTTTAAATAGGTTTTTAGTA
1 TTTAGGATAATATTTT-AACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGG-TTTTAGTA
890461 ATTTAATTAAGT
64 ATTTAATTAAGT
* * * * *
890473 TTTAGGATATTATTTTTATATTTTATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTATT
1 TTTAGGATAATATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAAT
890538 TTAATTAA
66 TTAATTAA
890546 TATTTAGAAT
Statistics
Matches: 67, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
75 24 0.36
76 43 0.64
ACGTcount: A:0.30, C:0.03, G:0.10, T:0.57
Consensus pattern (75 bp):
TTTAGGATAATATTTTAACATTATATCTTTATCTTTGTATTTTAGTTTAAATAGGTTTTAGTAAT
TTAATTAAGT
Found at i:890551 original size:19 final size:20
Alignment explanation
Indices: 890529--890580 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 20
890519 TTAAATAGGT
890529 TTTAGTATTTTA-ATTAATA
1 TTTAGTATTTTATATTAATA
* * * *
890548 TTTAGAATATTATATTATTT
1 TTTAGTATTTTATATTAATA
890568 TTTAGGTATTTTA
1 TTTA-GTATTTTA
890581 GTTTAAATTG
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 10 0.40
20 9 0.36
21 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTAGTATTTTATATTAATA
Found at i:891753 original size:44 final size:45
Alignment explanation
Indices: 891634--891758 Score: 171
Period size: 47 Copynumber: 2.8 Consensus size: 45
891624 ATAAAATCCA
*
891634 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* * *
891679 TTACCATTTAAATTCCATAATCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
891726 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
891759 GTATGCTTAC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 23 0.32
45 9 0.13
46 2 0.03
47 37 0.52
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:891992 original size:58 final size:58
Alignment explanation
Indices: 891859--891994 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 58
891849 ATAAGCACCG
* * * **
891859 TAGTGCTATCCCGAATATAACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTT
1 TAGTG-TATCCCGAATATGACACATAAGGTCGTGGCCACCATATACACTAGGTATCCTT
* ** *
891918 AAGTACAGTCCTGAATATGACACA-AAGGTCGTGGCCACCATATACACTAGGTATCCTT
1 TAGTGTA-TCCCGAATATGACACATAAGGTCGTGGCCACCATATACACTAGGTATCCTT
891976 TAGTGTATTCCCGAATATG
1 TAGTGTA-TCCCGAATATG
891995 CAGCCTGCTG
Statistics
Matches: 62, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
58 45 0.73
59 17 0.27
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (58 bp):
TAGTGTATCCCGAATATGACACATAAGGTCGTGGCCACCATATACACTAGGTATCCTT
Found at i:894271 original size:19 final size:19
Alignment explanation
Indices: 894242--894291 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
894232 AATCTCTTTA
*
894242 ATTTGTTTATTTAATT-TT
1 ATTTTTTTATTTAATTCTT
*
894260 TTTTCTTTTATTTAATTCTT
1 ATTT-TTTTATTTAATTCTT
894280 ATTTTTTTATTT
1 ATTTTTTTATTT
894292 TAGCCATAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 3 0.11
19 19 0.70
20 5 0.19
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (19 bp):
ATTTTTTTATTTAATTCTT
Found at i:895048 original size:22 final size:20
Alignment explanation
Indices: 894957--895042 Score: 75
Period size: 22 Copynumber: 4.0 Consensus size: 20
894947 TACGTTACTA
*
894957 AAATATATATCTAGAGTTAATT
1 AAATATATATTTA-A-TTAATT
894979 AAATATATATTTTAA-TAATCCT
1 AAATATATA-TTTAATTAAT--T
* *
895001 GAATATTTAATTTCAATTAATT
1 AAATATAT-ATTT-AATTAATT
895023 AAATATATATTTAATTAATT
1 AAATATATATTTAATTAATT
895043 TGAAATCATA
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
20 12 0.23
21 4 0.08
22 27 0.51
23 6 0.11
24 4 0.08
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (20 bp):
AAATATATATTTAATTAATT
Found at i:903910 original size:13 final size:13
Alignment explanation
Indices: 903892--903926 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
903882 GTTATCGTGG
903892 GCACTTCATGGTT
1 GCACTTCATGGTT
903905 GCACTTCATGGTT
1 GCACTTCATGGTT
*
903918 GCTCTTCAT
1 GCACTTCAT
903927 ACACAAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (13 bp):
GCACTTCATGGTT
Found at i:906434 original size:29 final size:29
Alignment explanation
Indices: 906370--906427 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
906360 AATTGGGATG
*
906370 AAATCAGCTGAACAGTATCGATACTGATT
1 AAATCAGCTGAACAGTATCAATACTGATT
* *
906399 AAATCAGCTGAATAGTATCAATATTGATT
1 AAATCAGCTGAACAGTATCAATACTGATT
906428 GCATCAGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.31
Consensus pattern (29 bp):
AAATCAGCTGAACAGTATCAATACTGATT
Found at i:906981 original size:54 final size:54
Alignment explanation
Indices: 906897--907503 Score: 552
Period size: 54 Copynumber: 11.2 Consensus size: 54
906887 ACCAAATAGG
* * * *
906897 CACTAAGTGTGCAATTAACGGAATTCATCATATGTTGATGAATAACCGTTTCGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
* * * *
906951 CACTATGTGTGCAACTCAGGGAATTTATCATATGTTGATGAATAACCGTTTTGGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCG-TTTCGA
** * *
907006 -ACTATGTGCACAACTCACGGAATTCATCATGTGTTGATGAACAACCATTTCTG-
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTC-GA
* * * * *
907059 CACTATCTTTGCAACTCAAGGAATTCATCATATGTTTATGAACAGCCGTTTCGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
* * ** * *
907113 CACTATGTGTGTAACCCACATAATTCATCATATGTTGATGAACAACTGTTTCGG
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
* ** * *
907167 CACTATGTGTGCAACCCACATAATTTATCATATGTTGATGAACAACCATTTCGA
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
** * *
907221 CACTATGTGTGCAACTCACAAAATTCATCATATATTGATGAACAACCATTTC-A
1 CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
* *
907274 GCACTATGTGTGCAACTCACGGAATTCATCATGA-GTTGATGAGCAACCG-TAC-A
1 -CACTATGTGTGCAACTCACGGAATTCATCAT-ATGTTGATGAACAACCGTTTCGA
* * * *
907327 TGCACTATGTGTGCAA-TCCACGTAATTCATCATGA-GTTGATGAACAACCGTATAGG
1 --CACTATGTGTGCAACT-CACGGAATTCATCAT-ATGTTGATGAACAACCGTTTCGA
* * * * * * *
907383 CACTATATGTGCAACCCACGAAAATCATCATGA-GATGATGAACAACC-TTACAGG
1 CACTATGTGTGCAACTCACGGAATTCATCAT-ATGTTGATGAACAACCGTTTC-GA
* * * * * * * *
907437 CACTATGTATGCAAGCT-ACGGAATTCATCATCTATCGATGAACGACCGTATAGG
1 CACTATGTGTGCAA-CTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
*
907491 CACTACGTGTGCA
1 CACTATGTGTGCA
907504 TCTTAATAAA
Statistics
Matches: 460, Mismatches: 78, Indels: 30
0.81 0.14 0.05
Matches are distributed among these distances:
53 10 0.02
54 442 0.96
55 8 0.02
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (54 bp):
CACTATGTGTGCAACTCACGGAATTCATCATATGTTGATGAACAACCGTTTCGA
Found at i:907720 original size:21 final size:21
Alignment explanation
Indices: 907641--907723 Score: 67
Period size: 21 Copynumber: 3.8 Consensus size: 21
907631 ATTTTCTAAA
907641 ATAAAAGACTAAATGCCTTAGG
1 ATAAAAGAC-AAATGCCTTAGG
* * *
907663 ATAAAAGACGAATGCAAGTTAGA
1 ATAAAAGACAAATGC--CTTAGG
* * **
907686 AGAAAGGGTAAATGCCTTAGG
1 ATAAAAGACAAATGCCTTAGG
*
907707 ATAAAAGACGAATGCCT
1 ATAAAAGACAAATGCCT
907724 AACGGTGCAT
Statistics
Matches: 44, Mismatches: 15, Indels: 5
0.69 0.23 0.08
Matches are distributed among these distances:
21 21 0.48
22 9 0.20
23 14 0.32
ACGTcount: A:0.46, C:0.12, G:0.23, T:0.19
Consensus pattern (21 bp):
ATAAAAGACAAATGCCTTAGG
Found at i:908617 original size:19 final size:19
Alignment explanation
Indices: 908586--908631 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
908576 ATAACTGGAA
908586 AACCGGTTTTGACCGGT-TCG
1 AACCGG-TTTGACCGGTCT-G
908606 AACCGGTTTGACCGGTCTG
1 AACCGGTTTGACCGGTCTG
908625 AACCGGT
1 AACCGGT
908632 CCGACCCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.17, C:0.26, G:0.30, T:0.26
Consensus pattern (19 bp):
AACCGGTTTGACCGGTCTG
Found at i:908637 original size:19 final size:19
Alignment explanation
Indices: 908596--908637 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
908586 AACCGGTTTT
**
908596 GACCGGTTCGAACCGGTTT
1 GACCGGTTCGAACCGGTCC
908615 GACCGG-TCTGAACCGGTCC
1 GACCGGTTC-GAACCGGTCC
908634 GACC
1 GACC
908638 CGACCCGACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 2 0.10
19 18 0.90
ACGTcount: A:0.17, C:0.33, G:0.31, T:0.19
Consensus pattern (19 bp):
GACCGGTTCGAACCGGTCC
Found at i:908662 original size:22 final size:22
Alignment explanation
Indices: 908634--908675 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
908624 GAACCGGTCC
908634 GACCCGACCCGACCCGACCGTT
1 GACCCGACCCGACCCGACCGTT
908656 GACCCGACCCGACCCGACCG
1 GACCCGACCCGACCCGACCG
908676 ACCTAACCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.52, G:0.24, T:0.05
Consensus pattern (22 bp):
GACCCGACCCGACCCGACCGTT
Found at i:908678 original size:4 final size:5
Alignment explanation
Indices: 908632--908678 Score: 60
Period size: 5 Copynumber: 9.2 Consensus size: 5
908622 CTGAACCGGT
*
908632 CCGAC CCGAC CCGAC CCGAC CGTTGAC CCGAC CCGAC CCGA- CCGAC C
1 CCGAC CCGAC CCGAC CCGAC C--CGAC CCGAC CCGAC CCGAC CCGAC C
908679 TAACCGTTGA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 4 0.11
5 29 0.78
7 4 0.11
ACGTcount: A:0.19, C:0.55, G:0.21, T:0.04
Consensus pattern (5 bp):
CCGAC
Found at i:908685 original size:31 final size:32
Alignment explanation
Indices: 908632--908691 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 32
908622 CTGAACCGGT
*
908632 CCGACCCGACCCGACCCGACCGTTGACCCGAC
1 CCGACCCGACCCGACCCAACCGTTGACCCGAC
*
908664 CCGACCCGA-CCGACCTAACCGTTGACCC
1 CCGACCCGACCCGACCCAACCGTTGACCC
908692 ATTGACCGGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 17 0.65
32 9 0.35
ACGTcount: A:0.20, C:0.52, G:0.20, T:0.08
Consensus pattern (32 bp):
CCGACCCGACCCGACCCAACCGTTGACCCGAC
Found at i:908748 original size:29 final size:29
Alignment explanation
Indices: 908706--908884 Score: 166
Period size: 29 Copynumber: 6.1 Consensus size: 29
908696 ACCGGGTGAC
* *
908706 ATTTTGGGAATTAATTCGAAATATGTGCT
1 ATTTTGGGAATTAATTCGAAAAAGGTGCT
*
908735 ATTTTGGGAATTAATTTGAAAATA--TGCT
1 ATTTTGGGAATTAATTCGAAAA-AGGTGCT
*
908763 ATTTTGGGAATTTATTCAGAAAAAGGTGCT
1 ATTTTGGGAATTAATTC-GAAAAAGGTGCT
* * *
908793 ATGTTGGGAATTTAAGTCAAAAAAGGTGCT
1 ATTTTGGGAA-TTAATTCGAAAAAGGTGCT
* * *
908823 ATTTTGGGAATTTAATTCG-TACAGGTGAT
1 ATTTTGGGAA-TTAATTCGAAAAAGGTGCT
* * ** *
908852 ATTTTGGTAATTATTTTTAAAATGGTGCT
1 ATTTTGGGAATTAATTCGAAAAAGGTGCT
908881 ATTT
1 ATTT
908885 CTGTAAAATG
Statistics
Matches: 122, Mismatches: 22, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
28 25 0.20
29 51 0.42
30 41 0.34
31 5 0.04
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.41
Consensus pattern (29 bp):
ATTTTGGGAATTAATTCGAAAAAGGTGCT
Found at i:908771 original size:28 final size:29
Alignment explanation
Indices: 908706--908841 Score: 130
Period size: 30 Copynumber: 4.6 Consensus size: 29
908696 ACCGGGTGAC
*
908706 ATTTTGGGAATTAATTCGAAATATGTGCT
1 ATTTTGGGAATTAATTCGAAATATATGCT
*
908735 ATTTTGGGAATTAATTTGAAA-ATATGCT
1 ATTTTGGGAATTAATTCGAAATATATGCT
* * **
908763 ATTTTGGGAATTTATTCAGAAAAAGGTGCT
1 ATTTTGGGAATTAATTC-GAAATATATGCT
* * * * **
908793 ATGTTGGGAATTTAAGTCAAAAAAGGTGCT
1 ATTTTGGGAA-TTAATTCGAAATATATGCT
908823 ATTTTGGGAATTTAATTCG
1 ATTTTGGGAA-TTAATTCG
908842 TACAGGTGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
28 21 0.23
29 24 0.26
30 41 0.45
31 5 0.05
ACGTcount: A:0.33, C:0.06, G:0.22, T:0.39
Consensus pattern (29 bp):
ATTTTGGGAATTAATTCGAAATATATGCT
Found at i:911399 original size:24 final size:24
Alignment explanation
Indices: 911365--911429 Score: 105
Period size: 24 Copynumber: 2.8 Consensus size: 24
911355 CACCCTAGCA
*
911365 AGAGAGACAGGGGTGAGTCCTTTC
1 AGAGAGGCAGGGGTGAGTCCTTTC
911389 AGAGAGGCAGGGGTGAGTCCTTTC
1 AGAGAGGCAGGGGTGAGTCCTTTC
*
911413 AGAGAGGC-GGTGTGAGT
1 AGAGAGGCAGGGGTGAGT
911430 GTCAGACCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 8 0.21
24 31 0.79
ACGTcount: A:0.23, C:0.14, G:0.43, T:0.20
Consensus pattern (24 bp):
AGAGAGGCAGGGGTGAGTCCTTTC
Found at i:916002 original size:17 final size:17
Alignment explanation
Indices: 915980--916019 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
915970 GAACCGGTCC
915980 GACCCGACCCGACAGTT
1 GACCCGACCCGACAGTT
*
915997 GACCCGACCCGACCGTT
1 GACCCGACCCGACAGTT
916014 GACCCG
1 GACCCG
916020 TTGACCGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.45, G:0.25, T:0.10
Consensus pattern (17 bp):
GACCCGACCCGACAGTT
Found at i:916074 original size:29 final size:28
Alignment explanation
Indices: 916032--916190 Score: 192
Period size: 29 Copynumber: 5.5 Consensus size: 28
916022 GACCGGATGA
**
916032 TATTTTGGGAATTAATTCGGAATGGGTGC
1 TATTTTGGGAATTAATTC-GAAAAGGTGC
916061 TATTTTGGGAATTAATTCGAAAAGGGTGC
1 TATTTTGGGAATTAATTCGAAAA-GGTGC
* * *
916090 TATTTTGGGATTTTATTCAGAAAATGTGC
1 TATTTTGGGAATTAATTC-GAAAAGGTGC
* *
916119 TATTTTGGGAATTTAATTCAAAAAAGTGC
1 TATTTTGGGAA-TTAATTCGAAAAGGTGC
*
916148 TATTTTGGGAATTTAATTCGAAAAGGTGT
1 TATTTTGGGAA-TTAATTCGAAAAGGTGC
*
916177 TATTTTGGTAATTA
1 TATTTTGGGAATTA
916191 TTTTAAAAAT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
28 6 0.05
29 97 0.85
30 11 0.10
ACGTcount: A:0.30, C:0.06, G:0.23, T:0.41
Consensus pattern (28 bp):
TATTTTGGGAATTAATTCGAAAAGGTGC
Found at i:916210 original size:58 final size:58
Alignment explanation
Indices: 916032--916210 Score: 202
Period size: 58 Copynumber: 3.1 Consensus size: 58
916022 GACCGGATGA
* ** *
916032 TATTTTGGGAA-TTAATTCGGAATGGGTGCTATTTTGGGAATTAATTCGAAAAGGGTGC
1 TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATTAATTC-AAAAAGGTGC
* * *
916090 TATTTTGGG-ATTTTATTCAGAAAATGTGCTATTTTGGGAATTTAATTCAAAAAAGTGC
1 TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAA-TTAATTCAAAAAGGTGC
* * * * *
916148 TATTTTGGGAATTTAATTC-GAAAAGGTGTTATTTTGGTAATTATTTTAAAAATGGTGT
1 TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATTAATTCAAAAA-GGTGC
916206 TATTT
1 TATTT
916211 CTGTAAAATG
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
57 11 0.11
58 76 0.75
59 15 0.15
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.42
Consensus pattern (58 bp):
TATTTTGGGAATTTAATTCAGAAAAGGTGCTATTTTGGGAATTAATTCAAAAAGGTGC
Found at i:924529 original size:45 final size:45
Alignment explanation
Indices: 924475--924768 Score: 448
Period size: 45 Copynumber: 6.5 Consensus size: 45
924465 CTTTTATGTT
* * *
924475 GATAATGCACCCATATGCATT-TCAACTATGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCATGCC
* * *
924520 GTTAGTGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCG
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
924565 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
924610 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTTATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
* **
924655 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTTATATC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
* *
924700 GATAATGCACCCATATGCATTATTATTTTGGTATCCCTTT-ATACC
1 GATAATGCACCCATATGCATTATTATTTTGGCAT-CCTTTCATGCC
924745 GATAATGCACCCATATGCATTATT
1 GATAATGCACCCATATGCATTATT
924769 TTATTGTTCA
Statistics
Matches: 233, Mismatches: 14, Indels: 4
0.93 0.06 0.02
Matches are distributed among these distances:
45 227 0.97
46 6 0.03
ACGTcount: A:0.26, C:0.23, G:0.13, T:0.38
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
Found at i:931187 original size:45 final size:45
Alignment explanation
Indices: 931129--931428 Score: 449
Period size: 45 Copynumber: 6.7 Consensus size: 45
931119 CTTTTATGTT
* * * * * *
931129 GATAATGCACCCATATGCATT-TGAACTATGACAACTTTTCATGCC
1 GATAATGCACCCATATGCATTAT-TATTTTGGCATCCTTTCATGCC
* *
931174 GATAGTGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCT
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
931219 GATAATGCACCCATATGCATTATTATTTTGACATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
931264 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATTCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
* *
931309 GATAATGAACCCATATGCATTCTTATTTTGGCATCCTTTCATGCC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
* *
931354 GATAATGCACCCATATGCATTATTATTTTGGTATCCTTTCATGTC
1 GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
*
931399 GATAATGTACCCATATGCATTATTATTTTG
1 GATAATGCACCCATATGCATTATTATTTTG
931429 TTCAGTCGTT
Statistics
Matches: 233, Mismatches: 21, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 232 1.00
46 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (45 bp):
GATAATGCACCCATATGCATTATTATTTTGGCATCCTTTCATGCC
Found at i:932020 original size:20 final size:20
Alignment explanation
Indices: 931995--932033 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
931985 TAGCCTATAG
*
931995 TATCGGTACTGTTGTATCAA
1 TATCGGTACTGTTCTATCAA
932015 TATCGGTACTGTTCTATCA
1 TATCGGTACTGTTCTATCA
932034 GTACCGATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (20 bp):
TATCGGTACTGTTCTATCAA
Found at i:932990 original size:34 final size:35
Alignment explanation
Indices: 932942--933044 Score: 127
Period size: 34 Copynumber: 2.9 Consensus size: 35
932932 TGAAATGAGG
*
932942 TACTGAACGAAAGAAAATTGAATTCAAAAGAAAAA
1 TACTGAACGAAAGAAAATTGAGTTCAAAAGAAAAA
** *
932977 TACTGAA-GAAAGAATGTTGAGTTCAAAAGAAAAG
1 TACTGAACGAAAGAAAATTGAGTTCAAAAGAAAAA
** *
933011 TGTTGAAATGAAAGAAAATTGAGTTCAAAAGAAA
1 TACTG-AACGAAAGAAAATTGAGTTCAAAAGAAA
933045 TGAAATAAGA
Statistics
Matches: 58, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
34 26 0.45
35 9 0.16
36 23 0.40
ACGTcount: A:0.54, C:0.06, G:0.19, T:0.20
Consensus pattern (35 bp):
TACTGAACGAAAGAAAATTGAGTTCAAAAGAAAAA
Found at i:933016 original size:20 final size:19
Alignment explanation
Indices: 932989--933044 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 19
932979 CTGAAGAAAG
932989 AATGTTGAGTTCAAAAGAA
1 AATGTTGAGTTCAAAAGAA
** *
933008 AAGTGTTGAAAT-GAAAGAA
1 AA-TGTTGAGTTCAAAAGAA
933027 AA--TTGAGTTCAAAAGAA
1 AATGTTGAGTTCAAAAGAA
933044 A
1 A
933045 TGAAATAAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
16 5 0.17
17 7 0.24
19 10 0.34
20 7 0.24
ACGTcount: A:0.52, C:0.04, G:0.21, T:0.23
Consensus pattern (19 bp):
AATGTTGAGTTCAAAAGAA
Done.