Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 92 of 378
Found at i:24955578 original size:39 final size:39
Alignment explanation
Indices: 24955467--24955735 Score: 441
Period size: 39 Copynumber: 6.9 Consensus size: 39
24955457 TATGGTAACC
* * * *
24955467 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
24955507 CGCACAATTGCCTTC-GGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
24955545 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
24955584 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
24955623 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
* *
24955662 CGCACAATTGCCTTCGGGCTTAGCTCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
24955701 CGCACAATTGCCTTCGGGTTTAGCCCGGATATCAT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAT
24955736 TCGAACATTC
Statistics
Matches: 215, Mismatches: 13, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
38 32 0.15
39 169 0.79
40 14 0.07
ACGTcount: A:0.21, C:0.30, G:0.23, T:0.26
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:24958600 original size:47 final size:46
Alignment explanation
Indices: 24958547--24958652 Score: 151
Period size: 49 Copynumber: 2.3 Consensus size: 46
24958537 GGGACGATGG
* *
24958547 GGGAGAGGGAA-AGAATTAGAGTAGGAGGAGGGATGGTGGGGAAGA
1 GGGAGAGGGAAGAGAATCAGAGTAGGAGGAGAGATGGTGGGGAAGA
*
24958592 GGAAGAGAGGGAGAGAGAATCAGAGTAGGGGGAGAGATGGTGGGGAAGA
1 GG--GAGAGGGA-AGAGAATCAGAGTAGGAGGAGAGATGGTGGGGAAGA
24958641 GGGAGAGGGAAG
1 GGGAGAGGGAAG
24958653 GGAGAGGGAT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
45 2 0.04
46 2 0.04
47 16 0.30
48 1 0.02
49 33 0.61
ACGTcount: A:0.36, C:0.01, G:0.55, T:0.08
Consensus pattern (46 bp):
GGGAGAGGGAAGAGAATCAGAGTAGGAGGAGAGATGGTGGGGAAGA
Found at i:24962244 original size:41 final size:41
Alignment explanation
Indices: 24962165--24962246 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
24962155 ATTTTAGAAA
24962165 GCTTTAAAATGGAATACAGTTAAGACAAAACATAAAAGCAC
1 GCTTTAAAATGGAATACAGTTAAGACAAAACATAAAAGCAC
24962206 GCTTTAAAATGGAATACAGTTAAGACAAAACATAAAAGCAC
1 GCTTTAAAATGGAATACAGTTAAGACAAAACATAAAAGCAC
24962247 TAGAATCAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.20
Consensus pattern (41 bp):
GCTTTAAAATGGAATACAGTTAAGACAAAACATAAAAGCAC
Found at i:24966450 original size:26 final size:26
Alignment explanation
Indices: 24966421--24966473 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
24966411 TCAAACATGC
24966421 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
24966447 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
24966473 A
1 A
24966474 AAACGATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:24967995 original size:26 final size:26
Alignment explanation
Indices: 24967964--24968067 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
24967954 ATTCCCATCT
*
24967964 TGGAACATTTACCTAAACCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
*
24967990 TAGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
24968016 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
24968042 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
24968068 ATTTGTACCA
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:24971027 original size:19 final size:20
Alignment explanation
Indices: 24970989--24971027 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24970979 AATTATATCC
*
24970989 ATTTATGAACATATATACAT
1 ATTTATGAACATATAAACAT
*
24971009 ATTTATG-ACATGTAAACAT
1 ATTTATGAACATATAAACAT
24971028 TAAGCATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (20 bp):
ATTTATGAACATATAAACAT
Found at i:24972958 original size:29 final size:29
Alignment explanation
Indices: 24972930--24973031 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
24972920 CCTCCGAGCT
** * * *
24972930 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
24972959 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24972988 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24973017 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
24973032 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:24980817 original size:29 final size:29
Alignment explanation
Indices: 24980789--24980890 Score: 150
Period size: 29 Copynumber: 3.5 Consensus size: 29
24980779 CCTCCGAGCT
** * * *
24980789 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
24980818 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24980847 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
24980876 CGCACACTTAGTGCC
1 CGCACACTTAGTGCC
24980891 GATCTCGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 66 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:24985431 original size:30 final size:30
Alignment explanation
Indices: 24985397--24985453 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
24985387 TTTGGATTTC
24985397 TCCTATGGATATGGTTACTCGTAATCAGCA
1 TCCTATGGATATGGTTACTCGTAATCAGCA
24985427 TCCTATGGATATGGTTACTCGTAATCA
1 TCCTATGGATATGGTTACTCGTAATCA
24985454 TCAGGGAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (30 bp):
TCCTATGGATATGGTTACTCGTAATCAGCA
Found at i:24986320 original size:28 final size:26
Alignment explanation
Indices: 24986289--24986357 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
24986279 AAAAGAAAAT
24986289 AATAATAAAAATAATGTACTATTAATAA-
1 AATAATAAAAATAATGTA-T-TT-ATAAC
*
24986317 AATAAGAAAAATAATGTATTTATAAC
1 AATAATAAAAATAATGTATTTATAAC
24986343 AATAATAGAAAATAA
1 AATAATA-AAAATAA
24986358 CAATATGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 8 0.22
28 17 0.46
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (26 bp):
AATAATAAAAATAATGTATTTATAAC
Found at i:24986710 original size:50 final size:49
Alignment explanation
Indices: 24986616--24986751 Score: 143
Period size: 50 Copynumber: 2.8 Consensus size: 49
24986606 ATCGTATTGA
* * * * *
24986616 ATATTAAAAGTATATATATAATATAGA-CAAAAATATATGCATAATAT-
1 ATATTAAAAATATATACATAATATATATAAAAAATATATGAATAATATG
* * * *
24986663 AGTATTGAAAGTATTTACATGAGATA-ATATAAAAAATATATGAATAATGTG
1 A-TATTAAAAATATATACAT-A-ATATATATAAAAAATATATGAATAATATG
24986714 ATATTAAAAATATATACATAATATATATAAAAAATATA
1 ATATTAAAAATATATACATAATATATATAAAAAATATA
24986752 ATATTAAAAA
Statistics
Matches: 73, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
47 1 0.01
48 18 0.25
49 18 0.25
50 35 0.48
51 1 0.01
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (49 bp):
ATATTAAAAATATATACATAATATATATAAAAAATATATGAATAATATG
Found at i:24986722 original size:25 final size:24
Alignment explanation
Indices: 24986616--24986806 Score: 111
Period size: 25 Copynumber: 7.8 Consensus size: 24
24986606 ATCGTATTGA
* * *
24986616 ATATTAAAAGTATATATATAATAT
1 ATATAAAAAATATATACATAATAT
* * *
24986640 AGA-CAAAAATATATGCATAATAT
1 ATATAAAAAATATATACATAATAT
** * *
24986663 AGTATTGAAAGTATTTACATGAGATA-
1 A-TATAAAAAATATATACAT-A-ATAT
*
24986689 ATATAAAAAATATATGA-ATAATGT
1 ATATAAAAAATATAT-ACATAATAT
*
24986713 GATATTAAAAATATATACATAATAT
1 -ATATAAAAAATATATACATAATAT
* *
24986738 ATATAAAAAATATAATA-TTAAAAAT
1 ATATAAAAAATAT-ATACAT-AATAT
* * * *
24986763 ATATACATAATATATATATAAAAT
1 ATATAAAAAATATATACATAATAT
* *
24986787 ATATACATAATATATACATA
1 ATATAAAAAATATATACATA
24986807 TTAGAAATAA
Statistics
Matches: 131, Mismatches: 25, Indels: 22
0.74 0.14 0.12
Matches are distributed among these distances:
23 19 0.15
24 45 0.34
25 61 0.47
26 3 0.02
27 3 0.02
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.35
Consensus pattern (24 bp):
ATATAAAAAATATATACATAATAT
Found at i:24986736 original size:11 final size:11
Alignment explanation
Indices: 24986722--24986806 Score: 74
Period size: 11 Copynumber: 8.1 Consensus size: 11
24986712 TGATATTAAA
24986722 AATATATACAT
1 AATATATACAT
24986733 AATATAT--AT
1 AATATATACAT
* *
24986742 AA-A-AAATAT
1 AATATATACAT
*
24986751 AATAT-TA-AA
1 AATATATACAT
24986760 AATATATACAT
1 AATATATACAT
*
24986771 AATATATATAT
1 AATATATACAT
24986782 AAAATATATACAT
1 --AATATATACAT
24986795 AATATATACAT
1 AATATATACAT
24986806 A
1 A
24986807 TTAGAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 14 0.23
10 4 0.07
11 30 0.50
13 10 0.17
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AATATATACAT
Found at i:24986741 original size:13 final size:13
Alignment explanation
Indices: 24986723--24986802 Score: 80
Period size: 13 Copynumber: 6.4 Consensus size: 13
24986713 GATATTAAAA
24986723 ATATATACATAAT
1 ATATATACATAAT
* *
24986736 ATATATAAAAAAT
1 ATATATACATAAT
24986749 ATAATATTA-A-AA-
1 AT-ATA-TACATAAT
24986761 ATATATACATAAT
1 ATATATACATAAT
*
24986774 ATATAT--ATAAA
1 ATATATACATAAT
24986785 ATATATACATAAT
1 ATATATACATAAT
24986798 ATATA
1 ATATA
24986803 CATATTAGAA
Statistics
Matches: 56, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
10 2 0.04
11 14 0.25
12 4 0.07
13 30 0.54
14 4 0.07
15 2 0.04
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (13 bp):
ATATATACATAAT
Found at i:24986756 original size:38 final size:38
Alignment explanation
Indices: 24986714--24986789 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
24986704 GAATAATGTG
24986714 ATATTAAAAATATATACATAATATATATAAAAAATATA
1 ATATTAAAAATATATACATAATATATATAAAAAATATA
*
24986752 ATATTAAAAATATATACATAATATATATATAAAATATA
1 ATATTAAAAATATATACATAATATATATAAAAAATATA
24986790 TACATAATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (38 bp):
ATATTAAAAATATATACATAATATATATAAAAAATATA
Found at i:24986826 original size:9 final size:10
Alignment explanation
Indices: 24986686--24987115 Score: 112
Period size: 9 Copynumber: 42.4 Consensus size: 10
24986676 TTTACATGAG
24986686 ATAATATA-A
1 ATAATATATA
*
24986695 AAAATATATGA
1 ATAATATAT-A
24986706 ATAATGTGATATTA
1 ATAA--T-ATA-TA
*
24986720 AAAATATATA
1 ATAATATATA
24986730 CATAATATAT-
1 -ATAATATATA
* *
24986740 ATAAAAAAT-
1 ATAATATATA
24986749 ATAATAT-TA
1 ATAATATATA
*
24986758 AAAATATATA
1 ATAATATATA
24986768 CATAATATATA
1 -ATAATATATA
24986779 TATAAAATATATA
1 -AT--AATATATA
24986792 CATAATATATA
1 -ATAATATATA
* *
24986803 CATATTAGA-A
1 -ATAATATATA
24986813 ATAATA-ATA
1 ATAATATATA
*
24986822 ATAATGT-TA
1 ATAATATATA
* *
24986831 CAAAACAATTATTA
1 -ATAA-TA-TA-TA
*
24986845 ATAATACTA-C
1 ATAATA-TATA
24986855 ATAAATATATA
1 AT-AATATATA
24986866 CATATATATATTA
1 -ATA-ATATA-TA
*
24986879 A-AGACATATA
1 ATA-ATATATA
24986889 CAT-ATATAATA
1 -ATAATAT-ATA
24986900 ATAATA-ATA
1 ATAATATATA
24986909 ATAATA-ATA
1 ATAATATATA
24986918 ATAATA-ATA
1 ATAATATATA
*
24986927 ATAATAT-TG
1 ATAATATATA
*
24986936 A-AATACA-A
1 ATAATATATA
* * *
24986944 AAAAAACA-A
1 ATAATATATA
24986953 TATAATATAATA
1 -ATAATAT-ATA
*
24986965 AAAATGATA-A
1 ATAAT-ATATA
*
24986975 AGTAAT-TAAAA
1 A-TAATAT-ATA
24986986 ATAATATTATA
1 ATAATA-TATA
24986997 TATAA-ATAT-
1 -ATAATATATA
24987006 AT-ATCCATATA
1 ATAAT--ATATA
24987017 CATAGATA-ATA
1 -ATA-ATATATA
* *
24987028 AAAAAATATA
1 ATAATATATA
24987038 CACTAATA-ATA
1 -A-TAATATATA
24987049 ATAATA-ATA
1 ATAATATATA
24987058 ATAATA-ATA
1 ATAATATATA
24987067 ATAATA-ATA
1 ATAATATATA
24987076 ATAATA-ATA
1 ATAATATATA
24987085 ATAATA-ATA
1 ATAATATATA
*
24987094 ATACTA-ATA
1 ATAATATATA
24987103 ATAATA-ATA
1 ATAATATATA
24987112 ATAA
1 ATAA
24987116 AAGTAAAAAT
Statistics
Matches: 327, Mismatches: 43, Indels: 102
0.69 0.09 0.22
Matches are distributed among these distances:
7 1 0.00
8 9 0.03
9 140 0.43
10 43 0.13
11 79 0.24
12 27 0.08
13 16 0.05
14 11 0.03
15 1 0.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.33
Consensus pattern (10 bp):
ATAATATATA
Found at i:24986844 original size:87 final size:87
Alignment explanation
Indices: 24986753--24986913 Score: 197
Period size: 87 Copynumber: 1.9 Consensus size: 87
24986743 AAAAATATAA
* *
24986753 TATTAAAAATATATACAT-AATATATATATAAA-ATATATACATA-ATATATACATAT-TAGA-A
1 TATTAAAAATA-ATACATAAATATATACATAAATATAT-TA-A-AGACATATACATATATA-ATA
24986813 ATAATAATAATAATGTTACAAAACAAT
61 ATAATAATAATAATGTTACAAAACAAT
* * *
24986840 TATTAATAATACTACATAAATATATACATATATATATTAAAGACATATACATATATAATAATAAT
1 TATTAAAAATAATACATAAATATATACATAAATATATTAAAGACATATACATATATAATAATAAT
24986905 AATAATAAT
66 AATAATAAT
24986914 AATAATAATA
Statistics
Matches: 64, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
85 1 0.02
86 18 0.28
87 41 0.64
88 4 0.06
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (87 bp):
TATTAAAAATAATACATAAATATATACATAAATATATTAAAGACATATACATATATAATAATAAT
AATAATAATGTTACAAAACAAT
Found at i:24986902 original size:3 final size:3
Alignment explanation
Indices: 24986894--24987115 Score: 169
Period size: 3 Copynumber: 74.3 Consensus size: 3
24986884 ATATACATAT
* *
24986894 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA TTG A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
24986941 CA-A A-A AAA ACA AT- ATA AT- ATA ATA AAA ATG ATA A-A GTA ATTA
1 -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * *
24986983 AAA ATA AT- ATT ATA TATA A-A TATA TATCC AT- ATA CATA GATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA -ATA -AT-A ATA ATA -ATA -ATA ATA
*
24987028 A-A AAA AT- ATA CACTA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
24987073 ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
24987116 AAGTAAAAAT
Statistics
Matches: 181, Mismatches: 20, Indels: 36
0.76 0.08 0.15
Matches are distributed among these distances:
2 18 0.10
3 140 0.77
4 21 0.12
5 2 0.01
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:24987122 original size:6 final size:6
Alignment explanation
Indices: 24987045--24987128 Score: 51
Period size: 6 Copynumber: 14.0 Consensus size: 6
24987035 ATACACTAAT
* * * * * * * *
24987045 AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT AATAAT
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
** * * *
24987093 AATACT AATAAT AATAAT AATAAA AGTAAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA
24987129 TAAATAAATA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 73 1.00
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.30
Consensus pattern (6 bp):
AATAAA
Found at i:24988863 original size:64 final size:64
Alignment explanation
Indices: 24988762--24989109 Score: 203
Period size: 75 Copynumber: 4.9 Consensus size: 64
24988752 AAAAAAATTG
** * *
24988762 AAAATACCTCAGTGTGTGACCTGAGGCTTAACTCACCTCTCGTAATATGAGTTGATAGAAACTA
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
*
24988826 AAAATACCTTAGCATGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGA
1 AAAATACCTCAGCATGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGA------T--
*
24988890 AACATAAACTA
57 ---AGAAACTA
* * * *
24988901 AAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGACTTTTTTGAA
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TAG-A
*
24988966 AAATAGGA
60 AACT---A
*
24988974 ACTGAAGATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTCGATTTTTT
1 A---AA-ATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA---G-----TT
* *
24989039 GAAAAATAGAAATTG
54 G----ATAGAAACTA
* * *
24989054 AAAATACCTCGGCGTGTGACCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGAT
1 AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
24989110 TTTTTTTTGA
Statistics
Matches: 228, Mismatches: 23, Indels: 66
0.72 0.07 0.21
Matches are distributed among these distances:
63 2 0.01
64 49 0.21
68 3 0.01
70 5 0.02
73 3 0.01
74 5 0.02
75 56 0.25
76 46 0.20
77 47 0.21
80 2 0.01
83 4 0.02
84 2 0.01
85 3 0.01
89 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (64 bp):
AAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATAGAAACTA
Found at i:24989008 original size:77 final size:76
Alignment explanation
Indices: 24988816--24989129 Score: 409
Period size: 75 Copynumber: 4.1 Consensus size: 76
24988806 ATATGAGTTG
* *
24988816 ATAGAAACTAAAAATACCTTAGCATGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 ATAG-AACTGAAAATACCTCAGCATGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
24988880 ATTTTTTTGAAAC
64 ATTTTTTTGAAAA
* * * * *
24988893 ATA-AACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGAC
1 ATAGAACTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
24988957 TTTTTTGAAAA
66 TTTTTTGAAAA
* * *
24988968 ATAGGAACTGAAGATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTCGA
1 ATA-GAACTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24989033 -TTTTTTGAAAA
65 TTTTTTTGAAAA
* * * *
24989044 ATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGA
1 ATAG-AACTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24989109 TTTTTTTTTGAAAA
65 --TTTTTTTGAAAA
24989123 AGTAGAA
1 A-TAGAA
24989130 ATTAAAAAAA
Statistics
Matches: 211, Mismatches: 18, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
75 68 0.32
76 68 0.32
77 58 0.27
79 14 0.07
80 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.29
Consensus pattern (76 bp):
ATAGAACTGAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTGAAAA
Found at i:24989080 original size:76 final size:77
Alignment explanation
Indices: 24988816--24989137 Score: 427
Period size: 76 Copynumber: 4.2 Consensus size: 77
24988806 ATATGAGTTG
*
24988816 ATAGAAACTAAAAATACCTTAGCATGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTG
1 ATAGAAACTAAAAATACCTCAGCATGTGACCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTG
*
24988880 ATTTTTTTGAAAC
65 ATTTTTTTGAAAA
* * *
24988893 AT--AAACTAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
24988956 CTTTTTTGAAAA
66 TTTTTTTGAAAA
* * * * *
24988968 ATAGGAACTGAAGATACCTCAGCATGTGACCTGAGGCTCAACTCACTTCTCGCAATATGAGTCGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24989033 -TTTTTTGAAAA
66 TTTTTTTGAAAA
* * * * *
24989044 ATAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACCCACCTCTCGCAATATGAGTTGA
1 ATAGAAACTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
24989109 TTTTTTTTTGAAAA
66 --TTTTTTTGAAAA
*
24989123 AGTAGAAATTAAAAA
1 A-TAGAAACTAAAAA
24989138 AATAGAAATT
Statistics
Matches: 217, Mismatches: 21, Indels: 11
0.87 0.08 0.04
Matches are distributed among these distances:
75 67 0.31
76 69 0.32
77 57 0.26
79 12 0.06
80 12 0.06
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (77 bp):
ATAGAAACTAAAAATACCTCAGCATGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTTTGAAAA
Found at i:24989143 original size:15 final size:16
Alignment explanation
Indices: 24989119--24989152 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
24989109 TTTTTTTTTG
*
24989119 AAAAAGTAGAAATT-A
1 AAAAAATAGAAATTGA
24989134 AAAAAATAGAAATTGA
1 AAAAAATAGAAATTGA
24989150 AAA
1 AAA
24989153 TATCTCGGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAAATAGAAATTGA
Found at i:24989385 original size:26 final size:26
Alignment explanation
Indices: 24989349--24989405 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
24989339 CTGCATATAT
24989349 CATGCATGATGTCATCATGGTATGCG
1 CATGCATGATGTCATCATGGTATGCG
24989375 CATGCATGATGTCATCATGGTATGCG
1 CATGCATGATGTCATCATGGTATGCG
24989401 CATGC
1 CATGC
24989406 TTGTCTTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (26 bp):
CATGCATGATGTCATCATGGTATGCG
Found at i:24994813 original size:20 final size:20
Alignment explanation
Indices: 24994788--24994846 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
24994778 TAAATATGGT
24994788 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
24994808 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
24994828 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
24994847 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:24994927 original size:23 final size:24
Alignment explanation
Indices: 24994897--24994991 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
24994887 GAGGAAGTGA
24994897 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
24994920 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
24994944 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
24994968 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
24994992 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:24994965 original size:47 final size:49
Alignment explanation
Indices: 24994898--24994991 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
24994888 AGGAAGTGAA
*
24994898 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
24994945 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
24994992 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:24995234 original size:38 final size:38
Alignment explanation
Indices: 24995183--24995345 Score: 241
Period size: 38 Copynumber: 4.4 Consensus size: 38
24995173 CGTTTACAGT
24995183 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
24995221 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
24995252 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
24995290 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
24995328 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
24995346 GCATGATTGA
Statistics
Matches: 113, Mismatches: 4, Indels: 15
0.86 0.03 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 69 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.23
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:24995245 original size:31 final size:31
Alignment explanation
Indices: 24995207--24995322 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
24995197 AGTATTATGA
24995207 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
24995238 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
24995274 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
24995307 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
24995323 TATGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:24995259 original size:69 final size:69
Alignment explanation
Indices: 24995183--24995322 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
24995173 CGTTTACAGT
24995183 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
24995248 ATGA
66 ATGA
*
24995252 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
24995317 ATGA
66 ATGA
24995321 AA
1 AA
24995323 TATGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:25003429 original size:17 final size:17
Alignment explanation
Indices: 25003396--25003429 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25003386 ATTTTTATTT
*
25003396 AAAACTAAACTACAAAA
1 AAAACTAAACCACAAAA
*
25003413 AAAACTAAACCATAAAA
1 AAAACTAAACCACAAAA
25003430 CTTAGAGCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.12
Consensus pattern (17 bp):
AAAACTAAACCACAAAA
Found at i:25004287 original size:28 final size:26
Alignment explanation
Indices: 25004256--25004324 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 26
25004246 AAAAGAAAAT
25004256 AATAATAAAAATAATGTACTATTAATAA-
1 AATAATAAAAATAATGTA-T-TT-ATAAC
*
25004284 AATAAGAAAAATAATGTATTTATAAC
1 AATAATAAAAATAATGTATTTATAAC
25004310 AATAATAGAAAATAA
1 AATAATA-AAAATAA
25004325 CAATATGTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
25 4 0.11
26 8 0.22
27 8 0.22
28 17 0.46
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.29
Consensus pattern (26 bp):
AATAATAAAAATAATGTATTTATAAC
Found at i:25004357 original size:10 final size:10
Alignment explanation
Indices: 25004342--25004372 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
25004332 TACATAAAAA
25004342 TATATATATG
1 TATATATATG
*
25004352 TATATATGTG
1 TATATATATG
25004362 TATATATATG
1 TATATATATG
25004372 T
1 T
25004373 TAATAATGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (10 bp):
TATATATATG
Found at i:25004621 original size:23 final size:23
Alignment explanation
Indices: 25004590--25004633 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
25004580 ATTGAATATT
* *
25004590 AAAAGTATATATATAATATAGAC
1 AAAAATATATACATAATATAGAC
*
25004613 AAAAATATATGCATAATATAG
1 AAAAATATATACATAATATAG
25004634 TATTGAAAGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.57, C:0.05, G:0.09, T:0.30
Consensus pattern (23 bp):
AAAAATATATACATAATATAGAC
Found at i:25004643 original size:48 final size:47
Alignment explanation
Indices: 25004586--25004756 Score: 134
Period size: 48 Copynumber: 3.6 Consensus size: 47
25004576 TCGTATTGAA
* *
25004586 TATTAAAAGTATATATATAAT-ATAGACAAAAATATATGCATAATATAG
1 TATT-AAAGTATATACATAATAATATA-AAAAATATATGCATAATATAG
* * * *
25004634 TATTGAAAGTATTTACATGGGATAATATAAAAAATATATGAATAATGT-G
1 TATT-AAAGTATATACAT--AATAATATAAAAAATATATGCATAATATAG
* * * *
25004683 ATATTAAA-AATATATATACATAATATATATAAATATATACATAATATAG
1 -TATTAAAGTATATACATA-ATAATATA-AAAAATATATGCATAATATAG
* *
25004732 TATTAAAATCTATACATAAT-ATATA
1 TATTAAAGTATATACATAATAATATA
25004757 CATATTAGAA
Statistics
Matches: 97, Mismatches: 18, Indels: 17
0.73 0.14 0.13
Matches are distributed among these distances:
47 13 0.13
48 45 0.46
49 12 0.12
50 23 0.24
51 4 0.04
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.36
Consensus pattern (47 bp):
TATTAAAGTATATACATAATAATATAAAAAATATATGCATAATATAG
Found at i:25004708 original size:11 final size:11
Alignment explanation
Indices: 25004694--25004760 Score: 73
Period size: 11 Copynumber: 6.0 Consensus size: 11
25004684 TATTAAAAAT
25004694 ATATATACATA
1 ATATATACATA
*
25004705 ATATATATA-A
1 ATATATACATA
25004715 ATATATACATA
1 ATATATACATA
* *
25004726 ATATAGTATTAAA
1 ATATA-TA-CATA
*
25004739 ATCTATACATA
1 ATATATACATA
25004750 ATATATACATA
1 ATATATACATA
25004761 TTAGAAATAA
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
10 9 0.20
11 26 0.58
12 4 0.09
13 6 0.13
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.37
Consensus pattern (11 bp):
ATATATACATA
Found at i:25004710 original size:24 final size:23
Alignment explanation
Indices: 25004661--25004755 Score: 79
Period size: 24 Copynumber: 4.0 Consensus size: 23
25004651 TGGGATAATA
25004661 TAAAAAATATATGA-ATAATGTGATAT
1 TAAAAAATATAT-ACATAA--T-ATAT
25004687 TAAAAATATATATACATAATATA-
1 TAAAAA-ATATATACATAATATAT
* *
25004710 T-ATAAATATATACATAATATAG
1 TAAAAAATATATACATAATATAT
* *
25004732 TATTAAAATCTATACATAATATAT
1 TA-AAAAATATATACATAATATAT
25004756 ACATATTAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
21 16 0.27
22 4 0.07
23 1 0.02
24 20 0.34
25 1 0.02
26 7 0.12
27 10 0.17
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.37
Consensus pattern (23 bp):
TAAAAAATATATACATAATATAT
Found at i:25004720 original size:21 final size:23
Alignment explanation
Indices: 25004585--25004756 Score: 109
Period size: 25 Copynumber: 7.1 Consensus size: 23
25004575 ATCGTATTGA
*
25004585 ATATTAAAAGTATATATATAATAT
1 ATATTAAAA-TATATACATAATAT
* ** *
25004609 AGACAAAAATATATGCATAATAT
1 ATATTAAAATATATACATAATAT
* * *
25004632 AGTATTGAAAGTATTTACATGGGATA-
1 A-TATT-AAAATATATACAT--AATAT
* *
25004658 ATATAAAAAATATATGA-ATAATGT
1 ATAT-TAAAATATAT-ACATAATAT
25004682 GATATTAAAAATATATATACATAATAT
1 -ATATT--AAA-ATATATACATAATAT
25004709 ATA-T-AAATATATACATAATAT
1 ATATTAAAATATATACATAATAT
*
25004730 AGTATTAAAATCTATACATAATAT
1 A-TATTAAAATATATACATAATAT
25004754 ATA
1 ATA
25004757 CATATTAGAA
Statistics
Matches: 113, Mismatches: 20, Indels: 31
0.69 0.12 0.19
Matches are distributed among these distances:
21 16 0.14
22 4 0.04
23 18 0.16
24 24 0.21
25 27 0.24
26 9 0.08
27 15 0.13
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (23 bp):
ATATTAAAATATATACATAATAT
Found at i:25004843 original size:19 final size:18
Alignment explanation
Indices: 25004819--25004864 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 18
25004809 ATAAATATAT
*
25004819 ACATATATATATATTAAA
1 ACATATATATATAATAAA
25004837 GACATATACATATATAATAAA
1 -ACATAT--ATATATAATAAA
25004858 ACATATA
1 ACATATA
25004865 ATAACAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 6 0.25
20 6 0.25
21 11 0.46
ACGTcount: A:0.57, C:0.09, G:0.02, T:0.33
Consensus pattern (18 bp):
ACATATATATATAATAAA
Found at i:25004863 original size:20 final size:21
Alignment explanation
Indices: 25004825--25004864 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
25004815 ATATACATAT
*
25004825 ATATATATTAAAGACATATAC
1 ATATATAATAAAGACATATAC
25004846 ATATATAATAAA-ACATATA
1 ATATATAATAAAGACATATA
25004865 ATAACAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (21 bp):
ATATATAATAAAGACATATAC
Found at i:25004868 original size:3 final size:3
Alignment explanation
Indices: 25004862--25005060 Score: 143
Period size: 3 Copynumber: 67.3 Consensus size: 3
25004852 AATAAAACAT
*
25004862 ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
25004910 ATA ATA TTG A-A ATA A-A A-A AAA AT- ATA AT- ATA ATA AAA ATG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
25004953 A-A GTA ATTA AAA ATA ATA CT- ATA TATA A-A TATA TATA CAT- ATA
1 ATA ATA A-TA ATA ATA ATA ATA ATA -ATA ATA -ATA -ATA -ATA ATA
*
25004996 CGTA GATA ATA A-A A-A AT- ATA CACTA ATA ATA ATA ATA ATA ATA ATA
1 -ATA -ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA ATA ATA
25005042 ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA A
25005061 AAGTAAAAAT
Statistics
Matches: 159, Mismatches: 21, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
2 20 0.13
3 118 0.74
4 19 0.12
5 2 0.01
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:25004868 original size:98 final size:95
Alignment explanation
Indices: 25004702--25004878 Score: 218
Period size: 98 Copynumber: 1.8 Consensus size: 95
25004692 ATATATATAC
* *
25004702 ATAATATATATAAATATATACATAATATAGTATTAAAATCTATACATAATATATACATATTAGAA
1 ATAATATACATAAATATATACATAATATAGTATTAAAATCTATACATAATATAAACATATT--AA
*
25004767 ATAATAATAATAATGTTACAAAACAATTATTG
64 ATAACAATAATAATGTTACAAAACAATTATTG
25004799 ATAATACTACATAAATATATACATATATATA-TATTAAAGA-CATATACATATATAATAAAACAT
1 ATAATA-TACATAAATATATACATA-ATATAGTATTAAA-ATC-TATACATA-AT-AT-AAACAT
25004862 A-T-AATAACAATAATAAT
59 ATTAAATAACAATAATAAT
25004879 AATAATAATA
Statistics
Matches: 70, Mismatches: 3, Indels: 13
0.81 0.03 0.15
Matches are distributed among these distances:
97 6 0.09
98 39 0.56
99 14 0.20
100 2 0.03
101 3 0.04
102 6 0.09
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (95 bp):
ATAATATACATAAATATATACATAATATAGTATTAAAATCTATACATAATATAAACATATTAAAT
AACAATAATAATGTTACAAAACAATTATTG
Found at i:25008994 original size:19 final size:19
Alignment explanation
Indices: 25008969--25009066 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
25008959 AATCTTTAAG
25008969 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
25008988 AATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25009007 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25009024 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
25009043 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
25009064 GAT
1 GAT
25009067 CTTGTAATCT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 17 0.23
19 47 0.64
21 9 0.12
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:25008999 original size:36 final size:35
Alignment explanation
Indices: 25008959--25009055 Score: 99
Period size: 36 Copynumber: 2.6 Consensus size: 35
25008949 ATGGAAATAT
25008959 AATCTTTAAGGATATGCAATCTTAGATATAATATGC
1 AATCTTTAA-GATATGCAATCTTAGATATAATATGC
*
25008995 AATC-TT-AGATATGATACAATCTTAGATATGATATGC
1 AATCTTTAAGATATG---CAATCTTAGATATAATATGC
*
25009031 AATCTTAGATATGATATGCAATCTT
1 AATCTT---TAAGATATGCAATCTT
25009056 GAAGATATGA
Statistics
Matches: 51, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
33 6 0.12
34 1 0.02
35 2 0.04
36 27 0.53
37 1 0.02
38 7 0.14
40 1 0.02
41 6 0.12
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.37
Consensus pattern (35 bp):
AATCTTTAAGATATGCAATCTTAGATATAATATGC
Found at i:25009006 original size:14 final size:15
Alignment explanation
Indices: 25008989--25009044 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 15
25008979 CTTAGATATA
25008989 ATATG-CAATCTTAG
1 ATATGACAATCTTAG
25009003 ATATGATACAATCTTAG
1 ATATG--ACAATCTTAG
25009020 ATATGATATGCAATCTTAG
1 ATATG--A--CAATCTTAG
25009039 ATATGA
1 ATATGA
25009045 TATGCAATCT
Statistics
Matches: 37, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.14
17 18 0.49
19 14 0.38
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (15 bp):
ATATGACAATCTTAG
Found at i:25013377 original size:16 final size:16
Alignment explanation
Indices: 25013319--25013378 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
25013309 TTGCCAAAAG
*
25013319 AAAAGAAAAAGAAGAA
1 AAAAGAAAAAAAAGAA
* *** *
25013335 AAAATAAGTTACAGAA
1 AAAAGAAAAAAAAGAA
25013351 AAAA-AATAAAAAAGAA
1 AAAAGAA-AAAAAAGAA
25013367 AAAAGAAAAAAA
1 AAAAGAAAAAAA
25013379 TGAAGAGGCC
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
15 2 0.06
16 28 0.88
17 2 0.06
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.07
Consensus pattern (16 bp):
AAAAGAAAAAAAAGAA
Found at i:25014431 original size:44 final size:44
Alignment explanation
Indices: 25014232--25014717 Score: 292
Period size: 44 Copynumber: 11.2 Consensus size: 44
25014222 CAAAGAAACA
* * *
25014232 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * * * * * **
25014276 AGATCTGACA-CTCCTGTGCTTACAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATC-CCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGC
* **
25014321 AGCA--TGGCATCCCTTTGTTTATAGGGAACAAGTTGAAGATTTC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
*
25014364 AGCA--TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * *
25014407 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATCGAAGATAGT
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * * ** * ** * **
25014451 AGATCTGACATTCCTGTGCATACAGTAAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGC
*
25014496 AGCA--TGGCAT-CC-------ATAGGGAACAAGTTGAAGATAGA
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
*
25014531 AGATTTGGCATCCCTGTGTTTATAGGGAACAAATTGAAGATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
* * * * * * **
25014575 AGATCTGACATTCCTGTGCTTATAGTGAAGC-AGATCGAAGATTTC
1 AGATTTGGCATCCCTGTGTTTATAGGGAA-CAAG-TTGAAGATAGC
*
25014620 AGCA--TGTCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
1 AG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
** * * * *
25014663 AGATTTGGCATCATTGTGCTTACAAGGAACAAATTGAAGACATAGC
1 AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAG--ATAGC
*
25014709 TGATTTGGC
1 AGATTTGGC
25014718 TTTCATGGTT
Statistics
Matches: 344, Mismatches: 68, Indels: 58
0.73 0.14 0.12
Matches are distributed among these distances:
34 1 0.00
35 10 0.03
36 13 0.04
37 2 0.01
42 2 0.01
43 67 0.19
44 199 0.58
45 34 0.10
46 16 0.05
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (44 bp):
AGATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGC
Found at i:25014528 original size:124 final size:126
Alignment explanation
Indices: 25014355--25014702 Score: 466
Period size: 124 Copynumber: 2.7 Consensus size: 126
25014345 GGAACAAGTT
25014355 GAAGATTTCAGCATGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
1 GAAGATTTCAGCATGGCATCCC------TATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* *
25014420 CTGTGTTTATAGGGAACAAATCGAAGATAGTAGATCTGACATTCCTGTGCATACAGTAAAGCAGA
60 CTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCATACAGTAAAGCAGA
25014485 TC
125 TC
*
25014487 GAAGATTTCAGCATGGCAT-CC-ATAGGGAACAAGTTGAAGATAGAAGATTTGGCATCCCTGTGT
1 GAAGATTTCAGCATGGCATCCCTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGT
* * *
25014550 TTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCTTATAGTGAAGCAGATC
66 TTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCATACAGTAAAGCAGATC
* *
25014611 GAAGATTTCAGCATGTCATCCCTGTGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCA
1 GAAGATTTCAGCATGGCATCCC------TATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCC
* * * *
25014676 TTGTGCTTACAAGGAACAAATTGAAGA
60 CTGTGTTTATAGGGAACAAATTGAAGA
25014703 CATAGCTGAT
Statistics
Matches: 195, Mismatches: 13, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
124 115 0.59
125 2 0.01
131 2 0.01
132 76 0.39
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (126 bp):
GAAGATTTCAGCATGGCATCCCTATAGGGAACAAGTTGAAGATAGCAGATTTGGCATCCCTGTGT
TTATAGGGAACAAATTGAAGATAGCAGATCTGACATTCCTGTGCATACAGTAAAGCAGATC
Found at i:25014674 original size:168 final size:166
Alignment explanation
Indices: 25014240--25014616 Score: 427
Period size: 175 Copynumber: 2.2 Consensus size: 166
25014230 CAAGATTTGG
* *
25014240 CATCCCTGTGTTTATAGGGAACAAATCGAAGATAGTAGATCTGACA-CTCCTGTGCTTACAGTG-
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGTAGA-CTGACATC-CCTGTGCATACAG-GA
** ***
25014303 AAGCAGATCGAAGATTTCAGCATGGCATCCCTTTGTTTATAGGGAACAAGTTGAAGATTTCAGCA
63 AAGCAGATCGAAGATAGCAGCATGGCAT-CC-------ATAGGGAACAAGTTGAAGATAGAAGCA
* * *
25014368 TGGCATCCCTATGTTTATAGGGAACAAGTTGAAGATAGCAGATTTGG
120 TGGCATCCCTATGTTTATAGGGAACAAATTGAAGATAGCAGATCTGA
* * *
25014415 CATCCCTGTGTTTATAGGGAACAAATCGAAGATAGTAGATCTGACATTCCTGTGCATACAGTAAA
1 CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGTAGA-CTGACATCCCTGTGCATACAGGAAA
**
25014480 GCAGATCGAAGATTTCAGCATGGCATCCATAGGGAACAAGTTGAAGATAGAAG-ATTTGGCATCC
65 GCAGATCGAAGATAGCAGCATGGCATCCATAGGGAACAAGTTGAAGATAGAAGCA--TGGCATCC
*
25014544 CTGTGTTTATAGGGAACAAATTGAAGATAGCAGATCTGA
128 CTATGTTTATAGGGAACAAATTGAAGATAGCAGATCTGA
* * *
25014583 CATTCCTGTGCTTATAGTGAAGCAGATCGAAGAT
1 CATCCCTGTGCTTATAGGGAA-CAAATCGAAGAT
25014617 TTCAGCATGT
Statistics
Matches: 183, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
166 1 0.01
167 22 0.12
168 61 0.33
169 11 0.06
174 2 0.01
175 86 0.47
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (166 bp):
CATCCCTGTGCTTATAGGGAACAAATCGAAGATAGTAGACTGACATCCCTGTGCATACAGGAAAG
CAGATCGAAGATAGCAGCATGGCATCCATAGGGAACAAGTTGAAGATAGAAGCATGGCATCCCTA
TGTTTATAGGGAACAAATTGAAGATAGCAGATCTGA
Found at i:25015018 original size:206 final size:206
Alignment explanation
Indices: 25014664--25015405 Score: 1171
Period size: 206 Copynumber: 3.6 Consensus size: 206
25014654 GAAGATAGCA
* * * *
25014664 GATTTGGCATCATTGTGCTTACAAGGAACAAATTGAAGACATAGCTGATTTGGCTTTCATG-GTT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* * *
25014728 TACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTAAGAGAATAAATCGAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * ** * *
25014793 CGTCTCCATATTTGACGGAGAGCAGACACATAGCAGATCTGGCCTTTATATGTTTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
*
25014858 AGATCCAAGGT
196 AGATCCAAGAT
25014869 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
*
25014934 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCAAAGTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
*
25014999 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTGTATACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
25015064 AGATCCAAGAT
196 AGATCCAAGAT
*
25015075 GATTTGGCATTCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
25015140 TACGATGAAGTAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAATTTTGG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
* * * * *
25015205 CGTCTCCATATTCGACGAAGGGCAAACACATAACAGATCTAACCTTCAGATGATTAGACTGAAGC
131 CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
25015270 AGATCCAAGAT
196 AGATCCAAGAT
* * * * * * * *
25015281 GGTTTGGTATCCTTGTGTTTACAGGGAGCAAATCGAAGACATAGTTGATTTGGTTTTCATGTGCT
1 GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
* *
25015346 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAGATCGAAG
66 TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
25015406 ATAACAGATT
Statistics
Matches: 497, Mismatches: 39, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
205 58 0.12
206 439 0.88
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (206 bp):
GATTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCACGTGCT
TACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTTTGG
CGTCTCCATATTCGACGGAGAGCAAACACATAGCAGATCTAACCTTCAGATGTTTATACTGAAGC
AGATCCAAGAT
Found at i:25015829 original size:14 final size:17
Alignment explanation
Indices: 25015783--25015822 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
25015773 ATGGAAATAT
25015783 AATCTTTAAGGATATGC
1 AATCTTTAAGGATATGC
25015800 AATCTTTAAGGATATGC
1 AATCTTTAAGGATATGC
25015817 AATCTT
1 AATCTT
25015823 AGATATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (17 bp):
AATCTTTAAGGATATGC
Found at i:25015837 original size:19 final size:20
Alignment explanation
Indices: 25015810--25015852 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
25015800 AATCTTTAAG
*
25015810 GATATGCAATCTT-AGATAT
1 GATAGGCAATCTTAAGATAT
25015829 GATAGGCAATCTTGAAGATAT
1 GATAGGCAATCTT-AAGATAT
25015850 GAT
1 GAT
25015853 CTTGTAATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
21 9 0.43
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (20 bp):
GATAGGCAATCTTAAGATAT
Found at i:25018368 original size:10 final size:10
Alignment explanation
Indices: 25018355--25018411 Score: 59
Period size: 9 Copynumber: 6.0 Consensus size: 10
25018345 TACTTAAAAA
25018355 TATATAATTT
1 TATATAATTT
25018365 TATACT--TTT
1 TATA-TAATTT
*
25018374 TAAATAATTT
1 TATATAATTT
25018384 TA-ATAATTT
1 TATATAATTT
*
25018393 TAAATAATTT
1 TATATAATTT
25018403 T-TATAATTT
1 TATATAATTT
25018412 ATTTATTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
8 1 0.02
9 22 0.54
10 17 0.41
11 1 0.02
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
TATATAATTT
Found at i:25018382 original size:19 final size:19
Alignment explanation
Indices: 25018358--25018411 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
25018348 TTAAAAATAT
*
25018358 ATAATTTT-ATACTTTTTAA
1 ATAATTTTAATA-ATTTTAA
25018377 ATAATTTTAATAATTTTAA
1 ATAATTTTAATAATTTTAA
*
25018396 ATAATTTTTATAATTT
1 ATAATTTTAATAATTT
25018412 ATTTATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 29 0.91
20 3 0.09
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
ATAATTTTAATAATTTTAA
Found at i:25021153 original size:5 final size:6
Alignment explanation
Indices: 25021138--25021167 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
25021128 TAAAGGGCAA
25021138 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
25021168 CAAAGACGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:25021160 original size:13 final size:12
Alignment explanation
Indices: 25021138--25021167 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
25021128 TAAAGGGCAA
25021138 AAAAATAAAAAT
1 AAAAATAAAAAT
25021150 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
25021163 AAAAA
1 AAAAA
25021168 CAAAGACGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:25022620 original size:40 final size:40
Alignment explanation
Indices: 25022534--25022630 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 40
25022524 CCATCTCTGT
* * *
25022534 CTAACCCAACACACC-A-TGTGGGGATAAAATCGACCCAC
1 CTAACCCTACACACCAAGTATGGGAATAAAATCGACCCAC
*
25022572 CTAACCCTACACACCAAGTATGGGAATAAAATCGACCCAT
1 CTAACCCTACACACCAAGTATGGGAATAAAATCGACCCAC
* *
25022612 CTAGCCCTATACACCAAGT
1 CTAACCCTACACACCAAGT
25022631 GGTACTGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
38 14 0.27
39 1 0.02
40 36 0.71
ACGTcount: A:0.37, C:0.33, G:0.13, T:0.16
Consensus pattern (40 bp):
CTAACCCTACACACCAAGTATGGGAATAAAATCGACCCAC
Found at i:25026512 original size:39 final size:37
Alignment explanation
Indices: 25026415--25026512 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
25026405 TATGGTATTT
* * * *
25026415 AAAATATATATAT-ATATATGTATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
25026451 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
25026490 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
25026513 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:25027036 original size:30 final size:31
Alignment explanation
Indices: 25026999--25027088 Score: 139
Period size: 31 Copynumber: 2.9 Consensus size: 31
25026989 GGTTTTTTAG
*
25026999 TTTTTTTTTTGGGTTAGGTTTTTCTTTTTTC
1 TTTTTTTTTGGGGTTAGGTTTTTCTTTTTTC
25027030 TTTTTTTTTGGGGTTAGGTTTTTC-TTTTTC
1 TTTTTTTTTGGGGTTAGGTTTTTCTTTTTTC
25027060 TTTTTTTTTGGGGGGTTAGGTTTTT-TTTT
1 TTTTTTTTT--GGGGTTAGGTTTTTCTTTT
25027089 GGGGGGTTAA
Statistics
Matches: 55, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
30 15 0.27
31 23 0.42
32 17 0.31
ACGTcount: A:0.03, C:0.04, G:0.21, T:0.71
Consensus pattern (31 bp):
TTTTTTTTTGGGGTTAGGTTTTTCTTTTTTC
Found at i:25027085 original size:20 final size:20
Alignment explanation
Indices: 25027060--25027097 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25027050 TTTCTTTTTC
25027060 TTTTTTTTTGGGGGGTTAGG
1 TTTTTTTTTGGGGGGTTAGG
25027080 TTTTTTTTTGGGGGGTTA
1 TTTTTTTTTGGGGGGTTA
25027098 ATGAGCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.05, C:0.00, G:0.37, T:0.58
Consensus pattern (20 bp):
TTTTTTTTTGGGGGGTTAGG
Found at i:25028914 original size:39 final size:39
Alignment explanation
Indices: 25028796--25028978 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
25028786 TCGTTCAAAC
* * ** * **
25028796 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
25028836 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
25028876 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
25028915 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
25028954 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
25028979 CTCGAACATT
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:25034953 original size:39 final size:39
Alignment explanation
Indices: 25034786--25034967 Score: 231
Period size: 39 Copynumber: 4.6 Consensus size: 39
25034776 TCGTTCAAAC
* * ** * **
25034786 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
25034826 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
*
25034866 GCCTTCGGGCTTAGCCCGGATATCATAACT-GCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
25034904 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
25034943 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
25034968 CTCGAACATT
Statistics
Matches: 125, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
38 37 0.30
39 50 0.40
40 38 0.30
ACGTcount: A:0.23, C:0.30, G:0.23, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:25037217 original size:78 final size:78
Alignment explanation
Indices: 25037054--25037293 Score: 260
Period size: 78 Copynumber: 3.1 Consensus size: 78
25037044 AAAGCAGATT
* *
25037054 TTGAAAATACCT-CGATATGTGACTCAAGGTTCAACTCACCTCTCGCAATATGAGTTGA---TTT
1 TTGAAAATACCTCCG-TGTGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* * *
25037115 TTGAAAAATATAAA
65 TTGAAAGACAGAAA
*
25037129 TTGAAAAAAATACCTCCGTGTGTGATCTGAA-GCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 TTG---AAAATACCTCCGTGTGTGA-CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
25037193 TTTTTGAAAGACAGAAA
62 TTTTTGAAAGACAGAAA
* * * * * *
25037210 TTGAAAATAGCTCAGCGCGTGAGC-CAAGGCTCAACTCACCTCTCACAATATGAGTCGATTTTTT
1 TTGAAAATACCTCCGTGTGTGA-CTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
*
25037274 TT-AAAGGCAGAAA
65 TTGAAAGACAGAAA
25037287 TTGAAAA
1 TTGAAAA
25037294 ACGGAAATTG
Statistics
Matches: 141, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
75 3 0.02
77 19 0.13
78 96 0.68
79 6 0.04
81 17 0.12
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (78 bp):
TTGAAAATACCTCCGTGTGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
TGAAAGACAGAAA
Found at i:25037409 original size:243 final size:239
Alignment explanation
Indices: 25036956--25037467 Score: 627
Period size: 243 Copynumber: 2.1 Consensus size: 239
25036946 AACAGACATT
* *
25036956 AAAAACAGAAATTGAAAATAGCTCAGCGTGTGAGCCAAGGCTCAACTCACCTCTCGCAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAG
* ** * * ** *
25037021 TTGATTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAAATACCTCGATATGTGACTCAAGGTTC
66 TCGATTTTTGAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGATATGTGACTCAAGGCTC
* * * * * * *
25037086 AACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAAAATACCTCCGTGTG
131 AAATCACCTCTCACAATACGAGTTGATTTTTGAAAAACAGAAATTG--AAAAATACCTCAGCGTG
*
25037151 TGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTG
194 T-ACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTG
*
25037199 AAAGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAG
1 AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAG
* * * * * *
25037264 TCGATTTTTTTTAAAGGCAGAAATTGAAAAACGGAAATTGGAAATACCTCGTTGTGTGAC-CTGA
66 TCGA--TTTTTGAAA--CAGAAATTGAAAAACAGAAATTGAAAATACCTCGATATGTGACTC-AA
* * *
25037328 GGCTCAAATCGCCTCTCACAATACGAGTTGATTTTTTTG-ACAACAGAAATTG-AAATTACCTCA
126 GGCTCAAATCACCTCTCACAATACGAGTTGA--TTTTTGAAAAACAGAAATTGAAAAATACCTCA
*
25037391 GCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
189 GCGTGTACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
*
25037441 AAAAACAGAAATTGAAAATACCTCAGC
1 AAAAACAGAAATTGAAAATAGCTCAGC
25037468 ATGTCTTGAG
Statistics
Matches: 231, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
242 33 0.14
243 99 0.43
245 22 0.10
246 1 0.00
247 60 0.26
248 10 0.04
249 6 0.03
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.29
Consensus pattern (239 bp):
AAAAACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAG
TCGATTTTTGAAACAGAAATTGAAAAACAGAAATTGAAAATACCTCGATATGTGACTCAAGGCTC
AAATCACCTCTCACAATACGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCGTGTA
CCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG
Found at i:25037437 original size:165 final size:168
Alignment explanation
Indices: 25037136--25037458 Score: 440
Period size: 165 Copynumber: 1.9 Consensus size: 168
25037126 AAATTGAAAA
* * * *
25037136 AAATACCTCCGTGTGTGATCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAA
1 AAATACCTCCGTGTGTGACCTGAAGCTCAAATCACCTCTCACAATACGAGTTGATTTTTTTTGAA
*
25037201 AGACAGAAATTGAAAATAGCTCAGCGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTC
66 AGACAGAAATTGAAAATACCTCA-CGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTC
* **
25037266 GATTTTTTTTAAAGGCAGAAATTGAAAAACGGAAATTGG
130 GATTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTGG
* *
25037305 AAATACCT-CGTTGTGTGACCTGAGGCTCAAATCGCCTCTCACAATACGAGTTGA-TTTTTTTGA
1 AAATACCTCCG-TGTGTGACCTGAAGCTCAAATCACCTCTCACAATACGAGTTGATTTTTTTTGA
* * * * *
25037368 CA-ACAGAAATTGAAATTACCTCA-GCGTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGT
65 AAGACAGAAATTGAAAATACCTCACGCGTGAGCC-AAGGCTCAACTCACCTCTCACAATATGAGT
*
25037430 TGATTTTTTTGAAAAACAGAAATTGAAAA
129 CGATTTTTTTGAAAAACAGAAATTGAAAA
25037459 TACCTCAGCA
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
164 2 0.01
165 58 0.43
167 19 0.14
168 12 0.09
169 45 0.33
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (168 bp):
AAATACCTCCGTGTGTGACCTGAAGCTCAAATCACCTCTCACAATACGAGTTGATTTTTTTTGAA
AGACAGAAATTGAAAATACCTCACGCGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAGTCG
ATTTTTTTGAAAAACAGAAATTGAAAAACGGAAATTGG
Found at i:25037543 original size:79 final size:74
Alignment explanation
Indices: 25037341--25037641 Score: 399
Period size: 79 Copynumber: 4.0 Consensus size: 74
25037331 TCAAATCGCC
* * * * * *
25037341 TCTCACAATACGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCT
1 TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCT
**
25037406 CAACTCACC
66 CAACTCATT
25037415 TCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGC
1 TCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGC
*
25037480 TCAACTTATT
65 TCAACTCATT
*
25037490 TCTCACAATATGAGTTGATTTTTTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTG
1 TCTCGCAATATGAGTTGA----TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCTTG
*
25037555 AGGCTCAACTAATT
61 AGGCTCAACTCATT
* * * *
25037569 TCTCGCAATATGAGTTGA--ATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCT
1 TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCT
25037632 CAACTCATT
66 CAACTCATT
25037641 T
1 T
25037642 TGAACAGAAA
Statistics
Matches: 205, Mismatches: 17, Indels: 12
0.88 0.07 0.05
Matches are distributed among these distances:
72 45 0.22
73 5 0.02
74 24 0.12
75 58 0.28
79 73 0.36
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (74 bp):
TCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCT
CAACTCATT
Found at i:25037564 original size:154 final size:150
Alignment explanation
Indices: 25037359--25037641 Score: 422
Period size: 154 Copynumber: 1.9 Consensus size: 150
25037349 TACGAGTTGA
* * * *
25037359 TTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 TTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGCAAT
* *
25037424 ATGAGTTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTTAT
66 ATGAGTTGA--ATTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCAT
25037489 TTCTCACAATATGAGTTGATTTT
128 TTCTCACAATATGAGTTGATTTT
* **
25037512 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAA
1 TTTTTTTG-AAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGCAA
* * *
25037577 TATGAGTTGAATTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTT
65 TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTT
25037642 TGAACAGAAA
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
151 45 0.38
152 5 0.04
153 8 0.07
154 59 0.50
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (150 bp):
TTTTTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCCTGAGGCTCAACTAACCTCTCGCAAT
ATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTC
TCACAATATGAGTTGATTTT
Found at i:25037724 original size:72 final size:72
Alignment explanation
Indices: 25037644--25037784 Score: 273
Period size: 72 Copynumber: 2.0 Consensus size: 72
25037634 ACTCATTTTG
*
25037644 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
25037709 TTTTGAA
66 TTTTGAA
25037716 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
25037781 TTTT
66 TTTT
25037785 TTTTTTGAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (72 bp):
AACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAA
Found at i:25037743 original size:121 final size:121
Alignment explanation
Indices: 25037523--25037762 Score: 417
Period size: 121 Copynumber: 2.0 Consensus size: 121
25037513 TTTTTTGAAA
*
25037523 AACAGAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
* * *
25037588 TTTTGAAAATAGAAATTGAAATTACCTCAGCGTGTCTTGAGGCTCAACTCATTTTG
66 TTTTGAAAACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTTG
* * *
25037644 AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
25037709 TTTTGAAAACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTT
66 TTTTGAAAACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTT
25037763 CTCGCAATAT
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (121 bp):
AACAGAAATTGAAAATACCTCAACATGTCTTGAGGCTCAACTAATTTCTCGCAATATGAGTTGAA
TTTTGAAAACAGAAATTGAAATTAACTCAACGTGTCTTGAGGCTCAACTCATTTTG
Found at i:25037933 original size:54 final size:55
Alignment explanation
Indices: 25037833--25037938 Score: 135
Period size: 54 Copynumber: 1.9 Consensus size: 55
25037823 GAACCGAGAC
* * *
25037833 TCAACTCACCTTTCGCAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* * *
25037887 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAAAAAGCAGAAATTGAAAA
25037939 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
54 33 0.75
55 11 0.25
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:25037945 original size:13 final size:13
Alignment explanation
Indices: 25037918--25037951 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
25037908 GAGTTGATTC
*
25037918 TTGAACAACATAAA
1 TTGAA-AACAGAAA
25037932 TTGAAAACAGAAA
1 TTGAAAACAGAAA
25037945 TTGAAAA
1 TTGAAAA
25037952 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:25038004 original size:140 final size:140
Alignment explanation
Indices: 25037789--25038136 Score: 608
Period size: 140 Copynumber: 2.5 Consensus size: 140
25037779 AATTTTTTTT
* *
25037789 TTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAACC-GAGACTCAACTCACCTTTCGCAATA
1 TTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-ACCTGAGGCTCAACTCACCTCTCGCAATA
25037853 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
62 TGAGCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTC
25037918 TTGAACAACATAAA
127 TTGAACAACATAAA
*
25037932 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGTAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
*
25037997 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACTTCTCGCAATATGAGTTGATTCTTGA
66 CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
*
25038062 ACAACGTAAA
131 ACAACATAAA
25038072 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
25038137 TTGAAATTAA
Statistics
Matches: 198, Mismatches: 6, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
139 3 0.02
140 166 0.84
142 23 0.12
143 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (140 bp):
TTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAG
CTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTGA
ACAACATAAA
Found at i:25038073 original size:54 final size:54
Alignment explanation
Indices: 25037973--25038078 Score: 126
Period size: 54 Copynumber: 1.9 Consensus size: 54
25037963 GACCTGAGGC
* *
25037973 TCAACTCACCTCTCGTAATATGAGCTGATTTTGAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTA-AAATTGAAAAGGT
* * *
25038027 TCAACCCACTTCTCGCAATATGAGTTGATTCTTGAACAACGT-AAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGCTGATT-TTGAA-AAAGTAAAATTGAAAA
25038079 CAGAAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
54 31 0.70
55 9 0.20
56 4 0.09
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
TCAACCCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAAAATTGAAAAGGT
Found at i:25038228 original size:72 final size:71
Alignment explanation
Indices: 25038069--25038234 Score: 235
Period size: 72 Copynumber: 2.3 Consensus size: 71
25038059 TGAACAACGT
* * * *
25038069 AAATTGAAAACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATAT
1 AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
25038134 GAGTTG
66 GAGTTG
* *
25038140 AAATTAAAACAAAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAATA
1 AAATTAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
25038205 TGAGTTG
65 TGAGTTG
**
25038212 ATTTTGAAAAACAAAAATT-AAAA
1 AAATT-AAAAACAAAAATTGAAAA
25038235 GGCTTAACTC
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
71 12 0.14
72 68 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.22
Consensus pattern (71 bp):
AAATTAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATAT
GAGTTG
Found at i:25038310 original size:122 final size:123
Alignment explanation
Indices: 25038109--25038355 Score: 383
Period size: 122 Copynumber: 2.0 Consensus size: 123
25038099 GCGTGACCTG
* * *
25038109 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACAAAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAAATTAAAAC-AAAAAACTAAAAATACCTCAGCG
25038174 TGCCCCGAGGCTCAACTCACCTCT-AGCAATATGAGTTGATTTTGAAAAACAAAAATTAAA
65 TGCCCCGAGGCTCAACTCACCTCTCA-CAATATGAGTTGATTTTG-AAAACAAAAATTAAA
* * *
25038234 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAAC-ATAAACTAAAAATACCTCAGCGT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAAATTAAAACAAAAAACTAAAAATACCTCAGCGT
*
25038297 GCCCCGAGGCTCAACTCACTTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAA
66 GCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAA
25038355 A
1 A
25038356 ATACCTCAAC
Statistics
Matches: 114, Mismatches: 7, Indels: 6
0.90 0.06 0.05
Matches are distributed among these distances:
121 16 0.14
122 60 0.53
123 1 0.01
124 10 0.09
125 27 0.24
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.24
Consensus pattern (123 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAAATTAAAACAAAAAACTAAAAATACCTCAGCGT
GCCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAA
Found at i:25038369 original size:71 final size:70
Alignment explanation
Indices: 25038234--25038408 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
25038224 AAAAATTAAA
* * * * * *
25038234 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAACTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
25038298 CCCCG
66 CCCCG
* *
25038303 AGGCTCAACTCACTTCTCACAATATGAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAACTAAAAATACCTCAACGT
**
25038368 GCCTTG
65 GCCCCG
*
25038374 AGGCTCAACTCA-TCTCTCGCAATATGACTTGATTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTT
25038409 CCCTTGAAAA
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.07
71 60 0.66
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAACTAAAAATACCTCAACGTG
CCCCG
Found at i:25046013 original size:30 final size:29
Alignment explanation
Indices: 25045977--25046055 Score: 126
Period size: 30 Copynumber: 2.8 Consensus size: 29
25045967 GTTTTTTAGT
25045977 TTTTTTTTTGGGTTAGGTTTTTCTTTTTTC
1 TTTTTTTTTGGGTTAGGTTTTTC-TTTTTC
*
25046007 TTTTTTTTGGGGTTAGGTTTTTCTTTTTC
1 TTTTTTTTTGGGTTAGGTTTTTCTTTTTC
25046036 --TTTTTTTGGGTTAGGTTTTT
1 TTTTTTTTTGGGTTAGGTTTTT
25046056 TTTGGGGGGT
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 19 0.40
29 6 0.13
30 22 0.47
ACGTcount: A:0.04, C:0.05, G:0.20, T:0.71
Consensus pattern (29 bp):
TTTTTTTTTGGGTTAGGTTTTTCTTTTTC
Found at i:25046027 original size:29 final size:27
Alignment explanation
Indices: 25045978--25046058 Score: 119
Period size: 29 Copynumber: 2.9 Consensus size: 27
25045968 TTTTTTAGTT
25045978 TTTTTTTTGGGTTAGGTTTTTCTTTTTTC
1 TTTTTTTTGGGTTAGG-TTTT-TTTTTTC
25046007 TTTTTTTTGGGGTTAGGTTTTTCTTTTTC
1 TTTTTTTT-GGGTTAGGTTTTT-TTTTTC
25046036 -TTTTTTTGGGTTAGGTTTTTTTT
1 TTTTTTTTGGGTTAGGTTTTTTTT
25046059 GGGGGGTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
26 3 0.06
27 13 0.26
28 8 0.16
29 18 0.36
30 8 0.16
ACGTcount: A:0.04, C:0.05, G:0.20, T:0.72
Consensus pattern (27 bp):
TTTTTTTTGGGTTAGGTTTTTTTTTTC
Found at i:25046058 original size:30 final size:29
Alignment explanation
Indices: 25045977--25046058 Score: 123
Period size: 27 Copynumber: 2.9 Consensus size: 29
25045967 GTTTTTTAGT
25045977 TTTTTTTTTGGGTTAGGTTTTTCTTTTTTC
1 TTTTTTTTTGGGTTAGGTTTTT-TTTTTTC
* *
25046007 TTTTTTTTGGGGTTAGGTTTTTCTTTTTC
1 TTTTTTTTTGGGTTAGGTTTTTTTTTTTC
25046036 --TTTTTTTGGGTTAGGTTTTTTTT
1 TTTTTTTTTGGGTTAGGTTTTTTTT
25046059 GGGGGGTTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
27 21 0.44
29 6 0.12
30 21 0.44
ACGTcount: A:0.04, C:0.05, G:0.20, T:0.72
Consensus pattern (29 bp):
TTTTTTTTTGGGTTAGGTTTTTTTTTTTC
Found at i:25048189 original size:42 final size:43
Alignment explanation
Indices: 25048127--25048238 Score: 165
Period size: 42 Copynumber: 2.7 Consensus size: 43
25048117 CGTTTATGAA
25048127 AAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCGC-TTTCCC
1 AAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCC
* * * *
25048169 AAAAATGCCGCTAAAGGTCATGACTTTTAGCGGCGCTTTTCCT
1 AAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCC
*
25048212 AAAAACGCCGCTAAAAAT-ATGACCTTT
1 AAAAACGCCGCTAAAAGTCATGACCTTT
25048239 TAAAAAATTA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 41 0.67
43 20 0.33
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
AAAAACGCCGCTAAAAGTCATGACCTTTAGCGGCGCTTTTCCC
Found at i:25053425 original size:14 final size:14
Alignment explanation
Indices: 25053387--25053437 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
25053377 AGTTTAATAA
*
25053387 TTTTATAAAAT-GT
1 TTTTATAAATTAGT
* *
25053400 TTATTAT-TATTATT
1 TT-TTATAAATTAGT
25053414 TTTTATAAATTAGT
1 TTTTATAAATTAGT
25053428 TTTTATAAAT
1 TTTTATAAAT
25053438 AAAAAATTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
13 8 0.27
14 22 0.73
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (14 bp):
TTTTATAAATTAGT
Found at i:25054124 original size:22 final size:21
Alignment explanation
Indices: 25054099--25054161 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 21
25054089 CCTTAAACAA
*
25054099 TAAAACATAAACCCTTAACCCC
1 TAAAACTTAAACCC-TAACCCC
* * *
25054121 TAAACCTTAAACCCCAATACCC
1 TAAAACTTAAACCCTAA-CCCC
25054143 TAAAACTTAAACCCTAACC
1 TAAAACTTAAACCCTAACC
25054162 TTTAACCCAT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 3 0.09
22 30 0.91
ACGTcount: A:0.44, C:0.37, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAAACTTAAACCCTAACCCC
Found at i:25054486 original size:40 final size:39
Alignment explanation
Indices: 25054425--25054531 Score: 112
Period size: 40 Copynumber: 2.7 Consensus size: 39
25054415 CTATTTTTGT
*
25054425 GGCGTTTTTCAAAAAA-TGCCGCTAAAGATCG-AGCAT-TAG
1 GGCGTTTTT-AAAAAAGCGCCGCTAAAGAT-GTA-CATATAG
* * *
25054464 CGGCGTTTTTTAAAAAGCGCCGCTAAAGGTGTACTTATAG
1 -GGCGTTTTTAAAAAAGCGCCGCTAAAGATGTACATATAG
25054504 GGCGTTTCTTAAAAAAGCGCCGCTAAAG
1 GGCGTTT-TTAAAAAAGCGCCGCTAAAG
25054532 CCACTAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
39 15 0.26
40 43 0.74
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (39 bp):
GGCGTTTTTAAAAAAGCGCCGCTAAAGATGTACATATAG
Found at i:25058895 original size:27 final size:26
Alignment explanation
Indices: 25058858--25058972 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
25058848 AGCATGGCTG
* *
25058858 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
25058884 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
25058912 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
25058939 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
25058966 CCAGAAC
1 CCAGAAC
25058973 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:25058917 original size:54 final size:54
Alignment explanation
Indices: 25058858--25058972 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
25058848 AGCATGGCTG
*
25058858 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
25058912 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
25058966 CCAGAAC
1 CCAGAAC
25058973 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:25060625 original size:26 final size:26
Alignment explanation
Indices: 25060589--25060698 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
25060579 CATGAAATTC
25060589 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
25060615 TTATCATGAAACAGTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
25060641 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* *
25060667 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
25060693 TTATCA
1 TTATCA
25060699 ATTTGTATCA
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 80 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:25064355 original size:28 final size:30
Alignment explanation
Indices: 25064256--25064356 Score: 109
Period size: 30 Copynumber: 3.5 Consensus size: 30
25064246 TCAAAAATTG
* *
25064256 GCACTAAGTGTGCGGGTTCAAAT-TATACA
1 GCACTAAGTGTGCGAGTTCGAATATATACA
* * * *
25064285 GCACTAAGTGTGCAAGTTTGATTATATATA
1 GCACTAAGTGTGCGAGTTCGAATATATACA
* *
25064315 ACACTAAGTGTGCGAGTTCGACTAT-TA-A
1 GCACTAAGTGTGCGAGTTCGAATATATACA
25064343 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25064357 GGCTTATTGC
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.23
29 20 0.33
30 26 0.43
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGTTCGAATATATACA
Found at i:25070743 original size:28 final size:28
Alignment explanation
Indices: 25070682--25070779 Score: 108
Period size: 28 Copynumber: 3.5 Consensus size: 28
25070672 TCACAAATTG
** * *
25070682 GCACTAAGTGTGCGGGTTCAAATTATACA
1 GCACTAAGTGTGCAAGTTC-GATTATATA
*
25070711 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCAAGTTCGATTATATA
* *
25070739 GCACTAAGTGTGCGAGTTCGACTAT-TAA
1 GCACTAAGTGTGCAAGTTCGATTATAT-A
25070767 GCACTAAGTGTGC
1 GCACTAAGTGTGC
25070780 GGGCTTATTG
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 1 0.02
28 43 0.72
29 16 0.27
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCAAGTTCGATTATATA
Found at i:25078395 original size:62 final size:62
Alignment explanation
Indices: 25078264--25078401 Score: 156
Period size: 62 Copynumber: 2.2 Consensus size: 62
25078254 AATCTGGCAT
* * * *
25078264 TTAGTGCATCATTGGAATATAATTGAAGTATCATGCACTTAGCGTTATCATATCATTGTGGCA
1 TTAGTGCATCATTGGAATAT-ATTGAAGTATCATGCACTCAGCGCTATCATATCATTCTAGCA
* *
25078327 CTTAGTGCATCATTGGAA-AGT-TTGAAGTAAT-ATGCGCTCAGTGCTATCATATCATTCTAGCA
1 -TTAGTGCATCATTGGAATA-TATTGAAGT-ATCATGCACTCAGCGCTATCATATCATTCTAGCA
25078389 TATAGTGCATCAT
1 T-TAGTGCATCAT
25078402 GAAAATCTAC
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
61 1 0.02
62 43 0.66
63 3 0.05
64 18 0.28
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.36
Consensus pattern (62 bp):
TTAGTGCATCATTGGAATATATTGAAGTATCATGCACTCAGCGCTATCATATCATTCTAGCA
Found at i:25078465 original size:42 final size:43
Alignment explanation
Indices: 25078391--25078486 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 43
25078381 TTCTAGCATA
*
25078391 TAGTGCATCA-TGAAAATCTACTGAAGTAATATATCTGGCACCT
1 TAGTGCATCATTGAAAATCTA-TGAAGCAATATATCTGGCACCT
*
25078434 TAGTGCATCATTGAAAAGT-T-TGAAGCAATATATCTTGCACCT
1 TAGTGCATCATTGAAAA-TCTATGAAGCAATATATCTGGCACCT
* *
25078476 CAATGCATCAT
1 TAGTGCATCAT
25078487 ATCATACTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
42 29 0.62
43 10 0.21
44 7 0.15
45 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (43 bp):
TAGTGCATCATTGAAAATCTATGAAGCAATATATCTGGCACCT
Found at i:25083040 original size:311 final size:309
Alignment explanation
Indices: 25082451--25083055 Score: 953
Period size: 311 Copynumber: 2.0 Consensus size: 309
25082441 AAACAGGCTA
* *
25082451 TTACAACTCCCCCTTAGGAAATTTCATCCTCGAAATTTTTACTTGAGAAGACAATTGAGTATTGT
1 TTACAACTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATTGAGTATTGT
* * * *
25082516 GACTTCTTTAATTCCGCAGTTCCCCAGGTAGCTTATTTAATATGGAATATGAAAGATAATGATCT
66 GACTTCTTCAATTCCGCAGTTCCCCAGGTAACTTATGTAATACGGAATATGAAAGATAATGATCT
*
25082581 ACTCACAATCTCGAATAATGTAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGCCT
131 ACTCACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGCCT
* * *
25082646 CATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATATTCTTTGGACATAATAGACAATGATA
196 CATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATATTCTTCGAAAATAATAGACAATGATA
*
25082711 CTCTGTTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
261 CTCTATTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
* *
25082760 TTACAACTCTCCTCCTTAGAAAATTTCGTCCTCAAAATTTTTACTTGAGAAGACAATCT-AGTCT
1 TTACAACTC-CC-CCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAAT-TGAGTAT
* *
25082824 TGTGACTTCTTCAATTCCTCAGTTCCCCATGTAACTTATGTAATACGGAATA-GAAAAGATAATG
63 TGTGACTTCTTCAATTCCGCAGTTCCCCAGGTAACTTATGTAATACGGAATATG-AAAGATAATG
* *
25082888 ATCTATTGACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAA
127 ATCTACTCACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAA
* * * * *
25082953 GCCTCTTAGAGTTTCCTCAAAATCTCTAGGTGAATCCCAGATCTTGTTCGAAAATAATAGACAAT
192 GCCTCATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATATTCTTCGAAAATAATAGACAAT
*
25083018 GATACTCTATTTAATTTGACAATCTCTAATACATATAA
257 GATACTCTATTTAATCTGACAATCTCTAATACATATAA
25083056 CTCAGCTACT
Statistics
Matches: 269, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
309 9 0.03
310 3 0.01
311 256 0.95
312 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.33
Consensus pattern (309 bp):
TTACAACTCCCCCTTAGAAAATTTCATCCTCAAAATTTTTACTTGAGAAGACAATTGAGTATTGT
GACTTCTTCAATTCCGCAGTTCCCCAGGTAACTTATGTAATACGGAATATGAAAGATAATGATCT
ACTCACAATCTCGAATAATGAAAAATTTACCCTCAGTTTCACTAATCAAATCTATCCCAAAGCCT
CATAGAGTTTCCCCAAAATCTCGAGGTGAATCCCAGATATTCTTCGAAAATAATAGACAATGATA
CTCTATTTAATCTGACAATCTCTAATACATATAAATGGAAAACGAGTTG
Found at i:25087837 original size:22 final size:22
Alignment explanation
Indices: 25087805--25087859 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
25087795 CATCTAATTT
*
25087805 TGATCTATTCTGCAACCGTATC
1 TGATCTGTTCTGCAACCGTATC
* *
25087827 TGAAT-TGTTCTGCATCTGTATC
1 TG-ATCTGTTCTGCAACCGTATC
25087849 TGATCTGTTCT
1 TGATCTGTTCT
25087860 TTAACTTACC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 2 0.07
22 24 0.86
23 2 0.07
ACGTcount: A:0.18, C:0.22, G:0.16, T:0.44
Consensus pattern (22 bp):
TGATCTGTTCTGCAACCGTATC
Found at i:25092046 original size:19 final size:19
Alignment explanation
Indices: 25092024--25092114 Score: 78
Period size: 19 Copynumber: 4.8 Consensus size: 19
25092014 TAAACAGTAC
25092024 TTCATCCGTATAACAATAA
1 TTCATCCGTATAACAATAA
* * *
25092043 TTCATTC-AATAATAATAA
1 TTCATCCGTATAACAATAA
* * *
25092061 CTCATCCGTTTAA-ATAGTAC
1 TTCATCCGTATAACA-A-TAA
* *
25092081 TTCATCCATATAACAGTAA
1 TTCATCCGTATAACAATAA
25092100 TTCATCCGTATAACA
1 TTCATCCGTATAACA
25092115 CAGCTTTTGC
Statistics
Matches: 54, Mismatches: 14, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
18 15 0.28
19 26 0.48
20 12 0.22
21 1 0.02
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.34
Consensus pattern (19 bp):
TTCATCCGTATAACAATAA
Found at i:25092062 original size:57 final size:57
Alignment explanation
Indices: 25091972--25092104 Score: 162
Period size: 57 Copynumber: 2.3 Consensus size: 57
25091962 CACTCTCAAT
* *
25091972 CATATAAACAGTAA-TCTATTCAATAACACTAACTCA-CTCATTTAAACAGTACTTCATC
1 CATAT-AACAATAATTC-ATTCAATAACAATAACTCATC-CATTTAAACAGTACTTCATC
* * * *
25092030 CGTATAACAATAATTCATTCAATAATAATAACTCATCCGTTTAAATAGTACTTCATC
1 CATATAACAATAATTCATTCAATAACAATAACTCATCCATTTAAACAGTACTTCATC
*
25092087 CATATAACAGTAATTCAT
1 CATATAACAATAATTCAT
25092105 CCGTATAACA
Statistics
Matches: 65, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
57 58 0.89
58 7 0.11
ACGTcount: A:0.41, C:0.21, G:0.05, T:0.33
Consensus pattern (57 bp):
CATATAACAATAATTCATTCAATAACAATAACTCATCCATTTAAACAGTACTTCATC
Found at i:25092352 original size:24 final size:24
Alignment explanation
Indices: 25092295--25092383 Score: 99
Period size: 24 Copynumber: 3.7 Consensus size: 24
25092285 GTTGAAACAG
* *
25092295 TAAGCTCTGACGAGCTGAAAAC-A
1 TAAGCTCTTACGAGCTGAGAACGA
*
25092318 GTAAGCCCTTACGAGCTGAGAACGA
1 -TAAGCTCTTACGAGCTGAGAACGA
* * *
25092343 TAAGCTCTTATGATCTGAGAATGA
1 TAAGCTCTTACGAGCTGAGAACGA
*
25092367 TAAGCTTTTACGAGCTG
1 TAAGCTCTTACGAGCTG
25092384 TGGTGAGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 53 0.98
25 1 0.02
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.25
Consensus pattern (24 bp):
TAAGCTCTTACGAGCTGAGAACGA
Found at i:25094293 original size:31 final size:31
Alignment explanation
Indices: 25094252--25094315 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
25094242 CCTTTTCATA
*
25094252 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
25094283 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
25094314 TT
1 TT
25094316 ACGGTAAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:25094561 original size:24 final size:24
Alignment explanation
Indices: 25094509--25094698 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
25094499 GCTTTATCAT
*
25094509 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
25094534 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
25094558 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
25094581 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
25094605 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
25094629 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
25094653 ATAACTAGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
25094676 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
25094699 TCACTTCCTC
Statistics
Matches: 151, Mismatches: 11, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
23 42 0.28
24 97 0.64
25 12 0.08
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:25094585 original size:47 final size:48
Alignment explanation
Indices: 25094508--25094699 Score: 282
Period size: 47 Copynumber: 4.0 Consensus size: 48
25094498 TGCTTTATCA
* *
25094508 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
25094557 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
25094604 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
25094652 GATAACTAGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
25094699 T
1 T
25094700 CACTTCCTCC
Statistics
Matches: 132, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
47 70 0.53
48 49 0.37
49 13 0.10
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:25094609 original size:71 final size:72
Alignment explanation
Indices: 25094509--25094699 Score: 280
Period size: 71 Copynumber: 2.7 Consensus size: 72
25094499 GCTTTATCAT
* *
25094509 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAA
25094573 GCCC-TTTA
64 GCCCTTTTA
* * *
25094581 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
*
25094646 CCTTTTG
66 CCTTTTA
*
25094653 ATAACTAGGGCATAAGCCC-TTTAATAACTGGGGCATAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTT
25094700 CACTTCCTCC
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
71 76 0.70
72 32 0.30
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTATAACTGGGGCATAAGC
CCTTTTA
Found at i:25094771 original size:9 final size:9
Alignment explanation
Indices: 25094757--25094833 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
25094747 ATCTCGTGTG
25094757 CATATCATA
1 CATATCATA
*
25094766 CATATCATGTG
1 CATATCA--TA
25094777 CATATCATA
1 CATATCATA
* *
25094786 CATGTCATGTG
1 CATATCA--TA
25094797 CATATCATA
1 CATATCATA
*
25094806 CATATCATGTC
1 CATATCA--TA
25094817 CATATCATA
1 CATATCATA
25094826 CATATCAT
1 CATATCAT
25094834 GTTTATCAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.22, G:0.08, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:25094776 original size:20 final size:20
Alignment explanation
Indices: 25094753--25094835 Score: 148
Period size: 20 Copynumber: 4.2 Consensus size: 20
25094743 GAACATCTCG
25094753 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
25094773 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
25094793 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
25094813 TGTCCATATCATACATATCA
1 TGTGCATATCATACATATCA
25094833 TGT
1 TGT
25094836 TTATCAAAAT
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 60 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:25094782 original size:11 final size:11
Alignment explanation
Indices: 25094764--25094835 Score: 66
Period size: 11 Copynumber: 7.1 Consensus size: 11
25094754 GTGCATATCA
25094764 TACATATCATG
1 TACATATCATG
*
25094775 TGCATATCA--
1 TACATATCATG
*
25094784 TACATGTCATG
1 TACATATCATG
*
25094795 TGCATATCA--
1 TACATATCATG
25094804 TACATATCATG
1 TACATATCATG
*
25094815 TCCATATCA--
1 TACATATCATG
25094824 TACATATCATG
1 TACATATCATG
25094835 T
1 T
25094836 TTATCAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
9 23 0.49
11 24 0.51
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (11 bp):
TACATATCATG
Found at i:25097416 original size:29 final size:29
Alignment explanation
Indices: 25097383--25097514 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
25097373 CCTTCGAGCT
** * *
25097383 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
25097412 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25097441 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25097470 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25097499 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
25097515 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:25097417 original size:58 final size:58
Alignment explanation
Indices: 25097354--25097514 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
25097344 AATTTAAGCC
* * * * * *
25097354 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
25097412 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
25097470 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
25097515 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:25097445 original size:87 final size:87
Alignment explanation
Indices: 25097354--25097514 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
25097344 AATTTAAGCC
* * * * * *
25097354 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
25097419 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
25097441 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
25097506 TTAGTGCCA
66 TTAGTGCCA
25097515 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:25105454 original size:29 final size:29
Alignment explanation
Indices: 25105421--25105552 Score: 219
Period size: 29 Copynumber: 4.6 Consensus size: 29
25105411 CCTTCGAGCT
** * *
25105421 CGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
25105450 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25105479 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25105508 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
25105537 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
25105553 ATCTCGTCAC
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 97 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:25105455 original size:58 final size:58
Alignment explanation
Indices: 25105392--25105552 Score: 187
Period size: 58 Copynumber: 2.8 Consensus size: 58
25105382 AATTTAAGCC
* * * * * *
25105392 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * * **
25105450 TGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
* * **
25105508 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCA
25105553 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
58 91 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (58 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCA
Found at i:25105483 original size:87 final size:87
Alignment explanation
Indices: 25105392--25105552 Score: 223
Period size: 87 Copynumber: 1.9 Consensus size: 87
25105382 AATTTAAGCC
* * * * * *
25105392 CGCACACATAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCATGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
25105457 TTAGTGCCATATATTTCCAGCA
66 TTAGTGCCATATATTTCCAGCA
* * * **
25105479 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
25105544 TTAGTGCCA
66 TTAGTGCCA
25105553 ATCTCGTCAC
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 63 1.00
ACGTcount: A:0.25, C:0.34, G:0.16, T:0.25
Consensus pattern (87 bp):
CGCACACATAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
TTAGTGCCATATATTTCCAGCA
Found at i:25107427 original size:27 final size:27
Alignment explanation
Indices: 25107407--25107829 Score: 505
Period size: 27 Copynumber: 15.6 Consensus size: 27
25107397 AGGGTATTTT
*
25107407 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25107434 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
25107461 AGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25107488 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
25107515 -GATAATTATGTAAATCGGGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* * * *
25107542 GGTAATTATGTAAATTGGGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
25107569 GGTAATTCTATAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25107596 AGTAATTCTGTAAA-CTGAGGGTAAAAT
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
25107623 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * ** *
25107650 GGTAATTTTACAAATCTAGGGTAAAAAC
1 AGTAATTCTGTAAATCGAGGGT-AAAAC
* *
25107678 GGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
25107705 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
25107732 AATAATTCCGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
25107759 -GATAATTCTGTAAATCGAGGGTAAAAT
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
25107786 AGTAATTCTGTAAA-CTGAGGGTAAAAC
1 AGTAATTCTGTAAATC-GAGGGTAAAAC
*
25107813 GGTAATTCTGTAAATCG
1 AGTAATTCTGTAAATCG
25107830 GGAGTACTTT
Statistics
Matches: 347, Mismatches: 38, Indels: 22
0.85 0.09 0.05
Matches are distributed among these distances:
26 4 0.01
27 314 0.90
28 29 0.08
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:25110593 original size:20 final size:21
Alignment explanation
Indices: 25110563--25110602 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
25110553 TCATTGTCTA
25110563 GAAATGTTTCCAAAAAGAAAG
1 GAAATGTTTCCAAAAAGAAAG
*
25110584 GAAA-GTTTCCAAAATGAAA
1 GAAATGTTTCCAAAAAGAAA
25110603 AAGATATCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.53, C:0.10, G:0.17, T:0.20
Consensus pattern (21 bp):
GAAATGTTTCCAAAAAGAAAG
Found at i:25113611 original size:43 final size:43
Alignment explanation
Indices: 25113514--25113636 Score: 117
Period size: 43 Copynumber: 2.9 Consensus size: 43
25113504 ATCGAGATGT
* * *
25113514 GATTACATGTAAGACCATGTATGGGACATTGGCATTGTATTGA
1 GATTATATGTAAGACCATGTATGGGACATTGGCATCGTAATGA
* * *
25113557 GATTATATGTAAGACCATGTTTGAGACATTGGCATCGCTAAT-C
1 GATTATATGTAAGACCATGTATGGGACATTGGCATCG-TAATGA
* * *
25113600 GATT-TCGTGTAAGATCC-TGTCTGGGACAGTGGCATCG
1 GATTAT-ATGTAAGA-CCATGTATGGGACATTGGCATCG
25113637 ATATGTGATA
Statistics
Matches: 67, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 1 0.01
43 61 0.91
44 5 0.07
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (43 bp):
GATTATATGTAAGACCATGTATGGGACATTGGCATCGTAATGA
Found at i:25117579 original size:20 final size:20
Alignment explanation
Indices: 25117554--25117594 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
25117544 AGTGTTAGGT
25117554 TATTGTTTCACTATTTTAGC
1 TATTGTTTCACTATTTTAGC
25117574 TATTGTTTCACTATTTTAGC
1 TATTGTTTCACTATTTTAGC
25117594 T
1 T
25117595 TATTAATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.56
Consensus pattern (20 bp):
TATTGTTTCACTATTTTAGC
Found at i:25125214 original size:27 final size:27
Alignment explanation
Indices: 25125183--25125316 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
25125173 AAAACCCCCG
*
25125183 ATTTGTAAAATTATCGAAATACCCTCA
1 ATTTGTAAAATTATCGAAATACCCTTA
* *
25125210 ATTTGTGAAATTACCGAAATACCCTTA
1 ATTTGTAAAATTATCGAAATACCCTTA
* *
25125237 ACTTGTAAAATTA-CTGAAATACCCTTG
1 ATTTGTAAAATTATC-GAAATACCCTTA
*
25125264 GTTTGTAAAATTATCGAAATACCCTT-
1 ATTTGTAAAATTATCGAAATACCCTTA
* * * *
25125290 GTAGTGTAAAACTATCGAAATAACCTT
1 AT-TTGTAAAATTATCGAAATACCCTT
25125317 GTAGGGTAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
26 3 0.03
27 89 0.96
28 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (27 bp):
ATTTGTAAAATTATCGAAATACCCTTA
Found at i:25125317 original size:27 final size:27
Alignment explanation
Indices: 25125267--25125328 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
25125257 ACCCTTGGTT
* *
25125267 TGTAAAATTATCGAAATACCCTTGTAG
1 TGTAAAACTATCGAAATAACCTTGTAG
25125294 TGTAAAACTATCGAAATAACCTTGTAG
1 TGTAAAACTATCGAAATAACCTTGTAG
*
25125321 GGTAAAAC
1 TGTAAAAC
25125329 GACTGTTTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (27 bp):
TGTAAAACTATCGAAATAACCTTGTAG
Found at i:25142247 original size:13 final size:13
Alignment explanation
Indices: 25142212--25142270 Score: 57
Period size: 13 Copynumber: 4.6 Consensus size: 13
25142202 TAAATTTTTC
25142212 CAAAA-CACTTCT
1 CAAAAGCACTTCT
*
25142224 CAAAAGTACTTCT
1 CAAAAGCACTTCT
* *
25142237 CAAGAGCACTTTT
1 CAAAAGCACTTCT
* * *
25142250 CCACAGCACTTTT
1 CAAAAGCACTTCT
25142263 CAAAAGCA
1 CAAAAGCA
25142271 ATGAAGAACT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
12 5 0.13
13 33 0.87
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.25
Consensus pattern (13 bp):
CAAAAGCACTTCT
Found at i:25144242 original size:18 final size:19
Alignment explanation
Indices: 25144216--25144262 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
25144206 AATATGGGTG
* *
25144216 ACCAAACGGCCTG-CCCAC
1 ACCACACGGCCTGTCCCAA
*
25144234 ACCACACGGGCGTGTCCCAA
1 ACCACAC-GGCCTGTCCCAA
25144254 ACCACACGG
1 ACCACACGG
25144263 GCGTGTGACC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 11 0.46
ACGTcount: A:0.28, C:0.45, G:0.21, T:0.06
Consensus pattern (19 bp):
ACCACACGGCCTGTCCCAA
Found at i:25144257 original size:20 final size:20
Alignment explanation
Indices: 25144229--25144268 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
25144219 AAACGGCCTG
*
25144229 CCCACACCACACGGGCGTGT
1 CCCAAACCACACGGGCGTGT
25144249 CCCAAACCACACGGGCGTGT
1 CCCAAACCACACGGGCGTGT
25144269 GACCCCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.42, G:0.25, T:0.10
Consensus pattern (20 bp):
CCCAAACCACACGGGCGTGT
Found at i:25145673 original size:7 final size:6
Alignment explanation
Indices: 25145637--25145686 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
25145627 ACAGATTCGT
* *
25145637 AAAATA AAAATA AATAATA CAAA-A ATAATA ACAAATA AAAAT- AAAATA
1 AAAATA AAAATA AA-AATA AAAATA AAAATA A-AAATA AAAATA AAAATA
25145685 AA
1 AA
25145687 GAAAAGGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
5 8 0.22
6 18 0.50
7 10 0.28
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:25145682 original size:21 final size:22
Alignment explanation
Indices: 25145636--25145686 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
25145626 AACAGATTCG
* *
25145636 TAAAATAAAAATAAATAATACA
1 TAAAATAAAAACAAATAATAAA
*
25145658 -AAAATAATAACAAATAA-AAA
1 TAAAATAAAAACAAATAATAAA
25145678 TAAAATAAA
1 TAAAATAAA
25145687 GAAAAGGGTA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (22 bp):
TAAAATAAAAACAAATAATAAA
Found at i:25160180 original size:26 final size:26
Alignment explanation
Indices: 25160132--25160182 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
25160122 ATTTTGTCAG
*
25160132 CCAAACACATGAATTTTACATTCCAA
1 CCAAACACATGAATCTTACATTCCAA
*
25160158 CCAAACA-ATGTAATCTTATATTCCA
1 CCAAACACATG-AATCTTACATTCCA
25160183 CTTGTAATCG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.41, C:0.25, G:0.04, T:0.29
Consensus pattern (26 bp):
CCAAACACATGAATCTTACATTCCAA
Done.