Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
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: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 3 of 30
Found at i:839686 original size:37 final size:36
Alignment explanation
Indices: 839606--839680 Score: 89
Period size: 37 Copynumber: 2.1 Consensus size: 36
839596 CTTCGTTTAG
* * *
839606 CTCTCCAACGCCATCAAGGTCTATATCTTGTCATCTAG
1 CTCT-CAACGCCATCAAGGTCTATATC-TGCCATCCAA
*
839644 CTCTCAACGCCATCGAGGTCTATATC-GCCATCCAA
1 CTCTCAACGCCATCAAGGTCTATATCTGCCATCCAA
839679 CT
1 CT
839681 TTCTCACCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 8 0.24
37 21 0.64
38 4 0.12
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (36 bp):
CTCTCAACGCCATCAAGGTCTATATCTGCCATCCAA
Found at i:839892 original size:20 final size:20
Alignment explanation
Indices: 839859--839897 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
839849 TGTTAAGCAT
839859 TGTGTCACTCGATAATAGGG
1 TGTGTCACTCGATAATAGGG
* * *
839879 TGTGTGACTGGATATTAGG
1 TGTGTCACTCGATAATAGG
839898 AATTGTAACT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.10, G:0.33, T:0.33
Consensus pattern (20 bp):
TGTGTCACTCGATAATAGGG
Found at i:840872 original size:22 final size:22
Alignment explanation
Indices: 840854--840918 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
840844 TAAGCATTAA
840854 GTGAATGGATATTGTGCATTGT
1 GTGAATGGATATTGTGCATTGT
*
840876 GTGAATGGATAATGTGCATTGT
1 GTGAATGGATATTGTGCATTGT
*
840898 TTGAATGGATATTAG-GCATTG
1 GTGAATGGATATT-GTGCATTG
840919 AGTGTCTGGT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
22 38 0.97
23 1 0.03
ACGTcount: A:0.26, C:0.05, G:0.31, T:0.38
Consensus pattern (22 bp):
GTGAATGGATATTGTGCATTGT
Found at i:841243 original size:166 final size:166
Alignment explanation
Indices: 840947--841301 Score: 460
Period size: 166 Copynumber: 2.1 Consensus size: 166
840937 ATTTCGTGAA
* * * * * *
840947 TGGTTCTTATGTATAGCATGACGTAAGGCCAATGCGTGACTGGGTATTTTGGCATAATGTGAATG
1 TGGTT-TTATGTATTGCGTGACGTAAGGCCAATACGTAACTGGGTATGTTGGCATAACGTGAATG
* * ** * * * *
841012 GATGTTAGGCATTACGTGACTTATTATTAGGAATTTTGAGATTGGGTTATAGGCATTGCGTGAAT
65 GATATTAAGCATTACGTGACTTATTATTAGGAATCATGAGACTAGGTCATAGGCACTGCGTGAAT
841077 TGGGCAATGCATATCTTGTGTTGAGACATTACGGGAC
130 TGGGCAATGCATATCTTGTGTTGAGACATTACGGGAC
* * * *
841114 TGGTTTTATGTATTGCGTGATGTTAGGCCAATACGTAACTGGTTATGTTGGCATAACGTGAGTGG
1 TGGTTTTATGTATTGCGTGACGTAAGGCCAATACGTAACTGGGTATGTTGGCATAACGTGAATGG
* * *
841179 ATATTAAGCATTGA-GTGACTTATTATTAGGTATCATGAGACTAGGTCATAGGCGCTGTGTGAAT
66 ATATTAAGCATT-ACGTGACTTATTATTAGGAATCATGAGACTAGGTCATAGGCACTGCGTGAAT
* * *
841243 TGTGCAATGCATATCTTGTGTTGAGACATTGCGTGAC
130 TGGGCAATGCATATCTTGTGTTGAGACATTACGGGAC
841280 TGGTTTTTATGTATTGCGTGAC
1 TGG-TTTTATGTATTGCGTGAC
841302 TTATTGTTAT
Statistics
Matches: 161, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
166 138 0.86
167 23 0.14
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (166 bp):
TGGTTTTATGTATTGCGTGACGTAAGGCCAATACGTAACTGGGTATGTTGGCATAACGTGAATGG
ATATTAAGCATTACGTGACTTATTATTAGGAATCATGAGACTAGGTCATAGGCACTGCGTGAATT
GGGCAATGCATATCTTGTGTTGAGACATTACGGGAC
Found at i:841311 original size:22 final size:22
Alignment explanation
Indices: 841270--841318 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
841260 GTGTTGAGAC
* * *
841270 ATTGCGTGACTGGTTTTTATGT
1 ATTGCGTGACTGATTGTTATAT
*
841292 ATTGCGTGACTTATTGTTATAT
1 ATTGCGTGACTGATTGTTATAT
841314 ATTGC
1 ATTGC
841319 ATGATGTTAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.10, G:0.22, T:0.49
Consensus pattern (22 bp):
ATTGCGTGACTGATTGTTATAT
Found at i:843806 original size:21 final size:19
Alignment explanation
Indices: 843764--843806 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
843754 TTTCTAGTTG
*
843764 TTTTTATAATTAGTTTATT
1 TTTTTATAATTAGTTTAAT
*
843783 TTTTTAGTAAGTTATTTTAAT
1 TTTTTA-TAA-TTAGTTTAAT
843804 TTT
1 TTT
843807 ATGTTATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTATAATTAGTTTAAT
Found at i:847995 original size:21 final size:19
Alignment explanation
Indices: 847953--847995 Score: 50
Period size: 21 Copynumber: 2.2 Consensus size: 19
847943 TTTCTAGTTG
*
847953 TTTTTATAATTAGTTTATT
1 TTTTTATAATTAGTTTAAT
*
847972 TTTTTAGTAAGTTATTTTAAT
1 TTTTTA-TAA-TTAGTTTAAT
847993 TTT
1 TTT
847996 ATGTTATTCC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 6 0.30
20 3 0.15
21 11 0.55
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTTTATAATTAGTTTAAT
Found at i:861380 original size:12 final size:13
Alignment explanation
Indices: 861353--861386 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
861343 AATAACCTTA
*
861353 TTAAAATTTAATT
1 TTAAAATATAATT
861366 TTAAAATAT-ATT
1 TTAAAATATAATT
861378 TTAAAATAT
1 TTAAAATAT
861387 TTTATATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAATATAATT
Found at i:862415 original size:29 final size:27
Alignment explanation
Indices: 862369--862459 Score: 92
Period size: 29 Copynumber: 3.2 Consensus size: 27
862359 GAGACCAAGA
*
862369 TACATGTCATGTTTAAAAAATAATATTGT
1 TACATGCCATG-TTAAAAAA-AATATTGT
* * *
862398 TACGTGCCATGTTAAAAAAAATGTTAT
1 TACATGCCATGTTAAAAAAAATATTGT
* *
862425 TACATGCTATGTTGAAAAAAAAATACTGT
1 TACATGCCATGTT--AAAAAAAATATTGT
862454 TACATG
1 TACATG
862460 ATACAGTCTA
Statistics
Matches: 51, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
27 17 0.33
28 8 0.16
29 26 0.51
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (27 bp):
TACATGCCATGTTAAAAAAAATATTGT
Found at i:862427 original size:27 final size:27
Alignment explanation
Indices: 862369--862446 Score: 84
Period size: 27 Copynumber: 2.8 Consensus size: 27
862359 GAGACCAAGA
* *
862369 TACATGTCATGTTTAAAAAATAATATTGT
1 TACATGCCATG-TTAAAAAA-AATATTAT
* *
862398 TACGTGCCATGTTAAAAAAAATGTTAT
1 TACATGCCATGTTAAAAAAAATATTAT
*
862425 TACATGCTATGTTGAAAAAAAA
1 TACATGCCATGTT-AAAAAAAA
862447 ATACTGTTAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 17 0.40
28 16 0.38
29 9 0.21
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.35
Consensus pattern (27 bp):
TACATGCCATGTTAAAAAAAATATTAT
Found at i:862661 original size:98 final size:99
Alignment explanation
Indices: 862475--862661 Score: 243
Period size: 98 Copynumber: 1.9 Consensus size: 99
862465 GTCTATGTTG
* * * *
862475 AAAAAAAAAGTTATTACACATCTTGTTTAAGGTGTTTAACTTTAAGAATTTATATCCTACTGAAA
1 AAAAAAAAAGTTATTACACACCATGTTT-A-GTGTTTAACTTCAACAATTTATATCCTACTGAAA
*
862540 TACAAAGATAAAGACCAAGTTACATGCCATGTTGAA
64 TACAAAGATAAAGACCAAATTACATGCCATGTTGAA
* * * *
862576 AAAAAAAAAGTTATTACACGCCATGTTT-GTGTTTAACTTCAACAGTTTATATTCTAGTGAAATA
1 AAAAAAAAAGTTATTACACACCATGTTTAGTGTTTAACTTCAACAATTTATATCCTACTGAAATA
*
862640 CAAAGATAGAA-ATCAAATTACA
66 CAAAGATA-AAGACCAAATTACA
862662 CGTCACATTA
Statistics
Matches: 75, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
98 48 0.64
99 2 0.03
101 25 0.33
ACGTcount: A:0.43, C:0.13, G:0.12, T:0.32
Consensus pattern (99 bp):
AAAAAAAAAGTTATTACACACCATGTTTAGTGTTTAACTTCAACAATTTATATCCTACTGAAATA
CAAAGATAAAGACCAAATTACATGCCATGTTGAA
Found at i:862799 original size:126 final size:124
Alignment explanation
Indices: 862558--862791 Score: 303
Period size: 126 Copynumber: 1.9 Consensus size: 124
862548 TAAAGACCAA
*
862558 GTTACATGCCATGTTGAAAAAAAAAAAGTTATTACACGCCATGTTTGTGTTTAACTTCAACAGTT
1 GTTACAGGCCATGTTGAAAAAAAAAAAGTTATTACACGCCATGTTTGTGTTTAACTTCAACAGTT
* *
862623 TATATTCTAGTGAAATACAAAGATAGAAATCAAATTACACGTCACATTAAAAAAAAGGT
66 TATATCCTAGTGAAATACAAAGATAGAAATCAAATTACACGCCACATTAAAAAAAAGGT
* * * ** *
862682 GTTACAGGCCATGTTG-AGAAAAAAAGGTTGTTACATTCCATGTTTAAGGTGTTTAACTTCAAGA
1 GTTACAGGCCATGTTGAAAAAAAAAAAGTTATTACACGCCATGTTT---GTGTTTAACTTCAACA
* * *
862746 GTTTATGTCCTAGTGAAATACAAA-ATA-AAGATCAAGTTACATGCCA
63 GTTTATATCCTAGTGAAATACAAAGATAGAA-ATCAAATTACACGCCA
862792 TGCTTAAACC
Statistics
Matches: 94, Mismatches: 12, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
123 24 0.26
124 17 0.18
125 16 0.17
126 37 0.39
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (124 bp):
GTTACAGGCCATGTTGAAAAAAAAAAAGTTATTACACGCCATGTTTGTGTTTAACTTCAACAGTT
TATATCCTAGTGAAATACAAAGATAGAAATCAAATTACACGCCACATTAAAAAAAAGGT
Found at i:867031 original size:20 final size:21
Alignment explanation
Indices: 866991--867037 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
866981 AGATGTCTAA
*
866991 AATAATTATTTGAAATGAAAT
1 AATAATTATTTGAAATAAAAT
* *
867012 TATAATTGTTT-AAATAAAAT
1 AATAATTATTTGAAATAAAAT
867032 AATAAT
1 AATAAT
867038 ATTCTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.40
Consensus pattern (21 bp):
AATAATTATTTGAAATAAAAT
Found at i:872454 original size:13 final size:13
Alignment explanation
Indices: 872436--872460 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
872426 AGAGAAATTG
872436 TGATTTTATAAAA
1 TGATTTTATAAAA
872449 TGATTTTATAAA
1 TGATTTTATAAA
872461 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:873900 original size:34 final size:36
Alignment explanation
Indices: 873845--873925 Score: 105
Period size: 34 Copynumber: 2.3 Consensus size: 36
873835 TTTTCCTTCC
873845 CAAAAATCAAGCAACACAAGGCCTTTC-TTT-TCTCT
1 CAAAAATCAAGCAACACAAGGCC-TTCATTTCTCTCT
* *
873880 CAAAAATCGA-CAGCACAAGGCCTTCATTTCCTCTCT
1 CAAAAATCAAGCAACACAAGGCCTTCATTT-CTCTCT
873916 CAAAAATCAA
1 CAAAAATCAA
873926 CTTCTTTCCC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
33 3 0.08
34 14 0.35
35 9 0.22
36 14 0.35
ACGTcount: A:0.37, C:0.30, G:0.09, T:0.25
Consensus pattern (36 bp):
CAAAAATCAAGCAACACAAGGCCTTCATTTCTCTCT
Found at i:873922 original size:36 final size:37
Alignment explanation
Indices: 873836--873925 Score: 109
Period size: 36 Copynumber: 2.5 Consensus size: 37
873826 CTTCCTCTCT
*
873836 TTTCCT-TCCCAAAAATCAAGCAACACAAGGCCTTTC
1 TTTCCTCTCTCAAAAATCAAGCAACACAAGGCCTTTC
* *
873872 TTT--TCTCTCAAAAATCGA-CAGCACAAGGCC-TTC
1 TTTCCTCTCTCAAAAATCAAGCAACACAAGGCCTTTC
873905 ATTTCCTCTCTCAAAAATCAA
1 -TTTCCTCTCTCAAAAATCAA
873926 CTTCTTTCCC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
33 3 0.07
34 15 0.33
35 11 0.24
36 17 0.37
ACGTcount: A:0.33, C:0.31, G:0.08, T:0.28
Consensus pattern (37 bp):
TTTCCTCTCTCAAAAATCAAGCAACACAAGGCCTTTC
Found at i:874730 original size:18 final size:19
Alignment explanation
Indices: 874691--874731 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
874681 TTAATATTTT
*
874691 AATATTATTTTATTCATAA
1 AATAATATTTTATTCATAA
874710 AATAATATTTTATTC-TAA
1 AATAATATTTTATTCATAA
874728 AATA
1 AATA
874732 TTCTTCTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (19 bp):
AATAATATTTTATTCATAA
Found at i:880721 original size:15 final size:17
Alignment explanation
Indices: 880697--880732 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
880687 ATTTTCAAGC
880697 TTTGGATTTTAAAGTT-
1 TTTGGATTTTAAAGTTG
880713 TTTGG-TTTTAAAGTTG
1 TTTGGATTTTAAAGTTG
880729 TTTG
1 TTTG
880733 AAGAAATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.58
Consensus pattern (17 bp):
TTTGGATTTTAAAGTTG
Found at i:885917 original size:13 final size:13
Alignment explanation
Indices: 885899--885923 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
885889 GGAGAAATTG
885899 TGATTTTATAAAA
1 TGATTTTATAAAA
885912 TGATTTTATAAA
1 TGATTTTATAAA
885924 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:887164 original size:15 final size:17
Alignment explanation
Indices: 887140--887175 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
887130 ATTTTCAAGC
887140 TTTGGATTTTAAAGTT-
1 TTTGGATTTTAAAGTTG
887156 TTTGG-TTTTAAAGTTG
1 TTTGGATTTTAAAGTTG
887172 TTTG
1 TTTG
887176 AAGAAATCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.19, C:0.00, G:0.22, T:0.58
Consensus pattern (17 bp):
TTTGGATTTTAAAGTTG
Found at i:892256 original size:13 final size:13
Alignment explanation
Indices: 892238--892262 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
892228 GGAGAAATTG
892238 TGATTTTATAAAA
1 TGATTTTATAAAA
892251 TGATTTTATAAA
1 TGATTTTATAAA
892263 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:895744 original size:17 final size:17
Alignment explanation
Indices: 895724--895757 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
895714 TTTATTTAAC
895724 TTTATATTT-TTATTATT
1 TTTAT-TTTATTATTATT
895741 TTTATTTTATTATTATT
1 TTTATTTTATTATTATT
895758 ATGTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
TTTATTTTATTATTATT
Found at i:895756 original size:20 final size:20
Alignment explanation
Indices: 895728--895768 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
895718 TTTAACTTTA
*
895728 TATTTTTATTAT-TTTTATTT
1 TATTATTATTATGTTTT-TTT
895748 TATTATTATTATGTTTTTTT
1 TATTATTATTATGTTTTTTT
895768 T
1 T
895769 CTCCCCTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (20 bp):
TATTATTATTATGTTTTTTT
Found at i:896925 original size:18 final size:19
Alignment explanation
Indices: 896878--896925 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
896868 TTAATATTTT
896878 AATATTATTTTATTCATAA
1 AATATTATTTTATTCATAA
*
896897 AATAATATTTTATTC-TAA
1 AATATTATTTTATTCATAA
*
896915 AATATTCTTTT
1 AATATTATTTT
896926 CACCCGTAAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (19 bp):
AATATTATTTTATTCATAA
Found at i:897201 original size:34 final size:32
Alignment explanation
Indices: 897036--897200 Score: 161
Period size: 34 Copynumber: 5.3 Consensus size: 32
897026 TATCCTTTTT
897036 TTTTTTTTTGAAAATCAGGATATGTAGTTGGA
1 TTTTTTTTTGAAAATCAGGATATGTAGTTGGA
* *
897068 TTTTTTTTATAAAAAATCAGGATATGTGGTTGGA
1 TTTTTTTT-T-GAAAATCAGGATATGTAGTTGGA
897102 TTTTTTTTTGAAAATC------TGTAGTTGGA
1 TTTTTTTTTGAAAATCAGGATATGTAGTTGGA
*
897128 TTTTTGTTT---AA-CGAGGATATGTAGTTGGAAA
1 TTTTTTTTTGAAAATC-AGGATATGTAGTTGG--A
* *
897159 TTTTTTTTTGAAAATGAGGATAAGTAGTTGGA
1 TTTTTTTTTGAAAATCAGGATATGTAGTTGGA
897191 TTCTTTTTTT
1 TT-TTTTTTT
897201 TTTGGAATAT
Statistics
Matches: 109, Mismatches: 8, Indels: 31
0.74 0.05 0.21
Matches are distributed among these distances:
22 1 0.01
23 2 0.02
26 17 0.16
29 9 0.08
31 9 0.08
32 17 0.16
33 9 0.08
34 45 0.41
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (32 bp):
TTTTTTTTTGAAAATCAGGATATGTAGTTGGA
Found at i:897227 original size:37 final size:36
Alignment explanation
Indices: 897159--897228 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
897149 TAGTTGGAAA
* *
897159 TTTTTTTTTGAAAATGAGGATAAGTAGTTGGATTCT
1 TTTTTTTTTGAAAATCAGGATAAGTAATTGGATTCT
*
897195 TTTTTTTTTGGAATATCAGGATATA-TAATTGGAT
1 TTTTTTTTT-GAAAATCAGGATA-AGTAATTGGAT
897229 AAGCACCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
36 9 0.31
37 19 0.66
38 1 0.03
ACGTcount: A:0.29, C:0.03, G:0.20, T:0.49
Consensus pattern (36 bp):
TTTTTTTTTGAAAATCAGGATAAGTAATTGGATTCT
Found at i:900081 original size:16 final size:17
Alignment explanation
Indices: 900057--900089 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
900047 AATAATATAA
900057 AAAATTAATATTTTTTT
1 AAAATTAATATTTTTTT
*
900074 AAAA-TAATCTTTTTTT
1 AAAATTAATATTTTTTT
900090 GTAAAATTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
AAAATTAATATTTTTTT
Found at i:903461 original size:35 final size:35
Alignment explanation
Indices: 903422--903533 Score: 133
Period size: 35 Copynumber: 3.3 Consensus size: 35
903412 GTTAATCTCA
903422 TGAAAAACCATTATTGTAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTATTGTAGGTTGTGGTTGAGCCTT
* * **
903457 TGAAAAA-C--TATTTTAGGTTTTGGTTGAGCCCG
1 TGAAAAACCATTATTGTAGGTTGTGGTTGAGCCTT
* *
903489 TGAAAAACCATT-GTGAAAGGTTGTGGTTGAGCCTT
1 TGAAAAACCATTATTG-TAGGTTGTGGTTGAGCCTT
903524 TGAAAAACCA
1 TGAAAAACCA
903534 CTTTAGTTTA
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
32 27 0.43
33 1 0.02
34 2 0.03
35 33 0.52
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (35 bp):
TGAAAAACCATTATTGTAGGTTGTGGTTGAGCCTT
Found at i:903481 original size:32 final size:32
Alignment explanation
Indices: 903433--903590 Score: 129
Period size: 32 Copynumber: 4.8 Consensus size: 32
903423 GAAAAACCAT
* * *
903433 TATTGTAGGTTGTGGTTGAGCCTTTGAAAAAC
1 TATTTTAGGTTTTGGTTGAGCCTGTGAAAAAC
*
903465 TATTTTAGGTTTTGGTTGAGCCCGTGAAAAAC
1 TATTTTAGGTTTTGGTTGAGCCTGTGAAAAAC
* * * *
903497 CATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAAC
1 TATT-T--TAGGTTTTGGTTGAGCCTGTGAAAAAC
* * * *
903532 CACTTTA-GTTTATAGTTGAGCCTGGGAAAAAC
1 TATTTTAGGTTT-TGGTTGAGCCTGTGAAAAAC
*
903564 TATTGTGAAAGGTTTTGGTTGAGCCTG
1 TATT-T--TAGGTTTTGGTTGAGCCTG
903591 GTAAAAGCCA
Statistics
Matches: 99, Mismatches: 19, Indels: 13
0.76 0.15 0.10
Matches are distributed among these distances:
31 3 0.03
32 51 0.52
33 2 0.02
34 1 0.01
35 38 0.38
36 4 0.04
ACGTcount: A:0.26, C:0.11, G:0.27, T:0.35
Consensus pattern (32 bp):
TATTTTAGGTTTTGGTTGAGCCTGTGAAAAAC
Found at i:903493 original size:67 final size:67
Alignment explanation
Indices: 903422--903589 Score: 223
Period size: 67 Copynumber: 2.5 Consensus size: 67
903412 GTTAATCTCA
* * * * *
903422 TGAAAAACCATTATTG-TAGGTTGTGGTTGAGCCTTTGAAAAACTATTTTAGGTTT-TGGTTGAG
1 TGAAAAACCATT-GTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTA-GTTTATAGTTGAG
903485 CCCG
64 CCCG
903489 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGTTTATAGTTGAGCC
1 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGTTTATAGTTGAGCC
*
903554 TG
66 CG
* * *
903556 GGAAAAACTATTGTGAAAGGTTTTGGTTGAGCCT
1 TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCT
903590 GGTAAAAGCC
Statistics
Matches: 90, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
66 6 0.07
67 84 0.93
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.35
Consensus pattern (67 bp):
TGAAAAACCATTGTGAAAGGTTGTGGTTGAGCCTTTGAAAAACCACTTTAGTTTATAGTTGAGCC
CG
Found at i:903604 original size:35 final size:35
Alignment explanation
Indices: 903439--903608 Score: 137
Period size: 35 Copynumber: 5.1 Consensus size: 35
903429 CCATTATTGT
* * * *
903439 AGGTTGTGGTTGAGCCT-TTGAAAAACTATT-T-T
1 AGGTTTTGGTTGAGCCTGGTGAAAAACCATTGTAA
*
903471 AGGTTTTGGTTGAGCC-CGTGAAAAACCATTGTGAA
1 AGGTTTTGGTTGAGCCTGGTGAAAAACCATTGT-AA
* *
903506 AGGTTGTGGTTGAGCCT-TTGAAAAACCACTT-T--
1 AGGTTTTGGTTGAGCCTGGTGAAAAACCA-TTGTAA
* *
903538 A-GTTTATAGTTGAGCCTGG-GAAAAACTATTGTGAA
1 AGGTTT-TGGTTGAGCCTGGTGAAAAACCATTGT-AA
*
903573 AGGTTTTGGTTGAGCCTGGT-AAAAGCCATTGTAA
1 AGGTTTTGGTTGAGCCTGGTGAAAAACCATTGTAA
903607 AG
1 AG
903609 CTTGGTGAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
31 5 0.05
32 46 0.41
33 1 0.01
34 4 0.04
35 49 0.44
36 6 0.05
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.33
Consensus pattern (35 bp):
AGGTTTTGGTTGAGCCTGGTGAAAAACCATTGTAA
Found at i:908820 original size:23 final size:23
Alignment explanation
Indices: 908794--908859 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
908784 TGTGAAACCC
*
908794 CATGGTGGGAATATTTGACACGA
1 CATGGTGGGAATATGTGACACGA
* * *
908817 CATGGTGGGAATGTGTGCCACGT
1 CATGGTGGGAATATGTGACACGA
*
908840 CATGGTGAGAATATGTGACA
1 CATGGTGGGAATATGTGACA
908860 TGATTGTGAC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.27, C:0.14, G:0.33, T:0.26
Consensus pattern (23 bp):
CATGGTGGGAATATGTGACACGA
Found at i:909005 original size:21 final size:22
Alignment explanation
Indices: 908981--909050 Score: 63
Period size: 23 Copynumber: 3.1 Consensus size: 22
908971 TGAGAATACA
908981 TGACACGCCA-GTGTGAGA-ATG
1 TGACACGCCAGGTGTGA-ATATG
*
909002 TGACATGCCATGGTGTGAATATG
1 TGACACGCCA-GGTGTGAATATG
* * *
909025 TGACACACCATGGTGAGCATATG
1 TGACACGCCA-GGTGTGAATATG
909048 TGA
1 TGA
909051 GACAGCATGA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.22
22 1 0.02
23 31 0.76
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (22 bp):
TGACACGCCAGGTGTGAATATG
Found at i:909017 original size:23 final size:23
Alignment explanation
Indices: 908991--909059 Score: 68
Period size: 23 Copynumber: 3.0 Consensus size: 23
908981 TGACACGCCA
**
908991 GTGTGAGA-ATGTGACATGCCATG
1 GTGTGA-ATATGTGACACACCATG
909014 GTGTGAATATGTGACACACCATG
1 GTGTGAATATGTGACACACCATG
* * * *
909037 GTGAGCATATGTGAGACAGCATG
1 GTGTGAATATGTGACACACCATG
909060 ATGAGCACAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 1 0.03
23 38 0.97
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (23 bp):
GTGTGAATATGTGACACACCATG
Found at i:909064 original size:23 final size:23
Alignment explanation
Indices: 909020--909075 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
909010 CATGGTGTGA
*
909020 ATATGTGACACACCATGGTGAGC
1 ATATGTGACACACCATGATGAGC
* *
909043 ATATGTGAGACAGCATGATGAGC
1 ATATGTGACACACCATGATGAGC
*
909066 ACATGTGACA
1 ATATGTGACA
909076 TGGTTGTGAC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.34, C:0.18, G:0.27, T:0.21
Consensus pattern (23 bp):
ATATGTGACACACCATGATGAGC
Found at i:909241 original size:23 final size:23
Alignment explanation
Indices: 909199--909368 Score: 126
Period size: 23 Copynumber: 7.3 Consensus size: 23
909189 TTAGAGTTAA
* * * *
909199 TGACACGCCATTGTGGGAATGTG
1 TGACACGGCATGGTGAGAATCTG
* *
909222 TGACACGGTATGGTGAGAATCTT
1 TGACACGGCATGGTGAGAATCTG
** *
909245 TGACACAACATGTTGA-AATCGTG
1 TGACACGGCATGGTGAGAATC-TG
* *
909268 TGAGATGGCATGGTGAGAATCTG
1 TGACACGGCATGGTGAGAATCTG
* * *
909291 TGACACGGCATGGTTAGAAACTA
1 TGACACGGCATGGTGAGAATCTG
* *
909314 TGGCACGACATGGTGAGAATCTG
1 TGACACGGCATGGTGAGAATCTG
** * *
909337 TGACATAGTATGGTGAGCATATATG
1 TGACACGGCATGGTGAG-A-ATCTG
909362 TGACACG
1 TGACACG
909369 CCATAACTTG
Statistics
Matches: 109, Mismatches: 34, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
22 4 0.04
23 91 0.83
24 5 0.05
25 9 0.08
ACGTcount: A:0.29, C:0.15, G:0.31, T:0.26
Consensus pattern (23 bp):
TGACACGGCATGGTGAGAATCTG
Found at i:909304 original size:69 final size:69
Alignment explanation
Indices: 909215--909368 Score: 166
Period size: 69 Copynumber: 2.2 Consensus size: 69
909205 GCCATTGTGG
* * * * * * *
909215 GAATGTGTGACACGGTATGGTGAGAATCTTTGACACAACATGTTGA-AATCGTGTGAGATGGCAT
1 GAATATGTGACACGGCATGGTGAGAAACTATGACACAACATGGTGAGAATC-TGTGACATAGCAT
909279 GGTGA
65 GGTGA
* * * * *
909284 GAATCTGTGACACGGCATGGTTAGAAACTATGGCACGACATGGTGAGAATCTGTGACATAGTATG
1 GAATATGTGACACGGCATGGTGAGAAACTATGACACAACATGGTGAGAATCTGTGACATAGCATG
909349 GTGA
66 GTGA
909353 GCATATATGTGACACG
1 G-A-ATATGTGACACG
909369 CCATAACTTG
Statistics
Matches: 70, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 54 0.77
70 5 0.07
71 11 0.16
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.26
Consensus pattern (69 bp):
GAATATGTGACACGGCATGGTGAGAAACTATGACACAACATGGTGAGAATCTGTGACATAGCATG
GTGA
Found at i:910176 original size:31 final size:31
Alignment explanation
Indices: 910134--910209 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
910124 CTCAGCCATC
* * *
910134 ATGTCACAACATTTGACCTGGTATGCATAGC
1 ATGTAACAACATTTGACCTGGTATACATAGA
* * *
910165 GTGTAACAACATTTTACTTGGTATACATAGA
1 ATGTAACAACATTTGACCTGGTATACATAGA
910196 ATGTAACAACATTT
1 ATGTAACAACATTT
910210 ATTTCTTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (31 bp):
ATGTAACAACATTTGACCTGGTATACATAGA
Found at i:911415 original size:73 final size:73
Alignment explanation
Indices: 911324--911482 Score: 212
Period size: 73 Copynumber: 2.2 Consensus size: 73
911314 CAAGAAATGG
* * * * *
911324 GTTAGTTGACTAAGAGTCTACTG-TCAAAAATCTGGACTTCAAGACAGAACCAACTTAATCGACC
1 GTTAGTCGACTAAAAGTCTACTGCT-AAAAATCTGGACTTCAAGACAAAAACAACTTAATCAACC
*
911388 AAGAAGTAA
65 AAGAAGGAA
* * *
911397 GTTAGTCGACTAAAAGTCTACTGCTAGAAATTTGGACTTCAAGACAAAAACAACTTAATCAACTA
1 GTTAGTCGACTAAAAGTCTACTGCTAAAAATCTGGACTTCAAGACAAAAACAACTTAATCAACCA
911462 AGAAGGAA
66 AGAAGGAA
*
911470 GTTAGTCAACTAA
1 GTTAGTCGACTAA
911483 GAGCTCACTG
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
73 74 0.99
74 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (73 bp):
GTTAGTCGACTAAAAGTCTACTGCTAAAAATCTGGACTTCAAGACAAAAACAACTTAATCAACCA
AGAAGGAA
Found at i:911529 original size:53 final size:53
Alignment explanation
Indices: 911471--911592 Score: 190
Period size: 53 Copynumber: 2.3 Consensus size: 53
911461 AAGAAGGAAG
* *
911471 TTAGTCAACTAAGAGCTCACTGCCAAAACCTGGGTTCAGAAGAGAGAGACAAC
1 TTAGTCGACTAAGAGCTCACTGCCAAAAACTGGGTTCAGAAGAGAGAGACAAC
* * * *
911524 TTAGTCGACTAAGAGCTTATTGCTAAAAACTGGGTTCAGAAGAGAGAGATAAC
1 TTAGTCGACTAAGAGCTCACTGCCAAAAACTGGGTTCAGAAGAGAGAGACAAC
911577 TTAGTCGACTAAGAGC
1 TTAGTCGACTAAGAGC
911593 GTAGTTAGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
TTAGTCGACTAAGAGCTCACTGCCAAAAACTGGGTTCAGAAGAGAGAGACAAC
Found at i:920776 original size:12 final size:12
Alignment explanation
Indices: 920761--920813 Score: 63
Period size: 12 Copynumber: 4.3 Consensus size: 12
920751 GTTTATTTTC
*
920761 TTTTTCTCTTCT
1 TTTTTTTCTTCT
920773 TTTTTTTCTTCT
1 TTTTTTTCTTCT
*
920785 TTATTTTTTTTCT
1 TT-TTTTTCTTCT
920798 TTTCTTTT-TTCT
1 TTT-TTTTCTTCT
920810 TTTT
1 TTTT
920814 CTATTTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
11 1 0.03
12 21 0.57
13 15 0.41
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTCTTCT
Found at i:920791 original size:16 final size:16
Alignment explanation
Indices: 920752--920798 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
920742 TATTTATTTG
*
920752 TTTATTTTCTTT-TTC
1 TTTATTTTTTTTCTTC
*
920767 TCTTCTTTTTTTTCTTC
1 T-TTATTTTTTTTCTTC
920784 TTTATTTTTTTTCTT
1 TTTATTTTTTTTCTT
920799 TTCTTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 1 0.04
16 22 0.81
17 4 0.15
ACGTcount: A:0.04, C:0.15, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTTTTTCTTC
Found at i:920802 original size:21 final size:20
Alignment explanation
Indices: 920744--920813 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
920734 ATATTTTATA
* *
920744 TTTATTTGTTTATTTTCTT-
1 TTTATTTTTTTTTTTTCTTC
* *
920763 TTTCTCTTCTTTTTTTTCTTC
1 TTTAT-TTTTTTTTTTTCTTC
*
920784 TTTATTTTTTTTCTTTTCTTT
1 TTTATTTTTTTT-TTTTCTTC
*
920805 TTTCTTTTT
1 TTTATTTTT
920814 CTATTTTTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
19 4 0.10
20 18 0.44
21 19 0.46
ACGTcount: A:0.04, C:0.13, G:0.01, T:0.81
Consensus pattern (20 bp):
TTTATTTTTTTTTTTTCTTC
Found at i:920805 original size:28 final size:29
Alignment explanation
Indices: 920761--920821 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
920751 GTTTATTTTC
920761 TTTTTCTCTTCTTTTTTTTCTTCTT-TAT
1 TTTTTCTCTTCTTTTTTTTCTTCTTCTAT
* *
920789 TTTTTTTCTT-TTCTTTTTTCTTTTTCTAT
1 TTTTTCTCTTCTT-TTTTTTCTTCTTCTAT
920818 TTTT
1 TTTT
920822 ATTATTGTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 2 0.07
28 20 0.69
29 7 0.24
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (29 bp):
TTTTTCTCTTCTTTTTTTTCTTCTTCTAT
Found at i:920813 original size:13 final size:13
Alignment explanation
Indices: 920756--920821 Score: 64
Period size: 15 Copynumber: 4.8 Consensus size: 13
920746 TATTTGTTTA
920756 TTTTCTTTTTCTCT
1 TTTTCTTTTT-TCT
*
920770 TCTTTTTTTTCTTCT
1 T-TTTCTTTT-TTCT
920785 TTATT-TTTTTTC-
1 TT-TTCTTTTTTCT
920797 TTTTCTTTTTTCT
1 TTTTCTTTTTTCT
920810 TTTTCTATTTTT
1 TTTTCT-TTTTT
920822 ATTATTGTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
11 2 0.04
12 9 0.20
13 9 0.20
14 11 0.24
15 13 0.29
16 1 0.02
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTTTTTCT
Found at i:925475 original size:21 final size:21
Alignment explanation
Indices: 925450--925497 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
925440 CTTATCTGAG
*
925450 GGGCACTAGTACGTGCCAATA
1 GGGCACTACTACGTGCCAATA
925471 GGGCACTACTACGTGCCAATA
1 GGGCACTACTACGTGCCAATA
*
925492 AGGCAC
1 GGGCAC
925498 ATGGAGGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.17
Consensus pattern (21 bp):
GGGCACTACTACGTGCCAATA
Found at i:925906 original size:151 final size:151
Alignment explanation
Indices: 925673--926056 Score: 398
Period size: 151 Copynumber: 2.6 Consensus size: 151
925663 TGAACAACCA
* * * * * * * *
925673 GTAAGGACGGTTCTAACAGTTTCTGTTCAACAATTCCATATGTGATTATTGAATAACACAGTAAT
1 GTAAGAACAGTTCTAACAGTTTGTGTTCAACATTTCCACATATGTTTATCGAATAACACAGTAAT
* * * * *
925738 ATCTGTGT-TTGCAGTTGACCCATGTGACAATAGCTCCTCAACCACCGAA-AGGTCCTACTTAAA
66 TTATGT-TATTGCAGTTGACCCAGGCGACAATAGCTCCTCAACCACC-AACAGGTCCTACTCAAA
* * * * *
925801 CGCACAGTGGTAATGAGCGGCCG
129 CACACAATGCTAACGAGCCGCCG
* *
925824 GTAAGAACAGTTCTAACAATTTGTGTTCAACATTTCCACATATGTTTATCGAATAACATAGTAAT
1 GTAAGAACAGTTCTAACAGTTTGTGTTCAACATTTCCACATATGTTTATCGAATAACACAGTAAT
* * ** * * * *
925889 TTTTGTTATTGTAGTTGACGGAGGCGACAATAGCTCCTCAACCACCAACCGGTCTTGCTCAACCA
66 TTATGTTATTGCAGTTGACCCAGGCGACAATAGCTCCTCAACCACCAACAGGTCCTACTCAAACA
* *
925954 CATAATGCTAACGAGCCGTCG
131 CACAATGCTAACGAGCCGCCG
* * * *
925975 ATAAGAATAGTTCTAATAGTTTGTGTTCAACATTTCCAC--ATGTTTATCAAATAACACAGTAAT
1 GTAAGAACAGTTCTAACAGTTTGTGTTCAACATTTCCACATATGTTTATCGAATAACACAGTAAT
* *
926038 TTATGTTATTACACTTGAC
66 TTATGTTATTGCAGTTGAC
926057 GGAGGCTATG
Statistics
Matches: 192, Mismatches: 39, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
149 37 0.19
150 3 0.02
151 152 0.79
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (151 bp):
GTAAGAACAGTTCTAACAGTTTGTGTTCAACATTTCCACATATGTTTATCGAATAACACAGTAAT
TTATGTTATTGCAGTTGACCCAGGCGACAATAGCTCCTCAACCACCAACAGGTCCTACTCAAACA
CACAATGCTAACGAGCCGCCG
Found at i:926819 original size:81 final size:81
Alignment explanation
Indices: 926654--926851 Score: 190
Period size: 81 Copynumber: 2.4 Consensus size: 81
926644 GGGATGTGAC
* * * * *
926654 CCTTCAATTAATTGATGCTGAAGGAGACCATGTTCCTTAGGCCAATGCGACTATTGATGCATCTA
1 CCTTCACTTAGTTGAGGCTAAAGGAGACCATGTTCCTTAGGCCAATGCGACTATTGAGGCATCTA
* * *
926719 TTGAAGGGGAAAGGGA
66 GTGAAAGAGAAAGGGA
* *
926735 CCTTCACTTAGTTGAGGCTAAAGGAGACCATGTT-CTTGAGGCCGATGC-AGTAGTTGAGGCATC
1 CCTTCACTTAGTTGAGGCTAAAGGAGACCATGTTCCTT-AGGCCAATGCGACTA-TTGAGGCATC
*
926798 T-GTGAAAGAGAATGGGAA
64 TAGTGAAAGAGAAAGGG-A
* * *
926816 CCTT-ACATAAGTTTAGGCTGAAA-GAGACCATATTCC
1 CCTTCAC-TTAGTTGAGGCT-AAAGGAGACCATGTTCC
926852 GCAAGTGGAT
Statistics
Matches: 97, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
80 19 0.20
81 74 0.76
82 4 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (81 bp):
CCTTCACTTAGTTGAGGCTAAAGGAGACCATGTTCCTTAGGCCAATGCGACTATTGAGGCATCTA
GTGAAAGAGAAAGGGA
Found at i:928841 original size:65 final size:65
Alignment explanation
Indices: 928737--928870 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
928727 AAGTTTTTAC
** *
928737 AATGGCTTTTCACAAGCTCGGTCACAACCTTTAACAATGGTTTGGT-GGGATCAACCAAAACCCA
1 AATGGCTTTTCACAAGCTCAATCACAACCTTTAACAATGGTTT-GTCAGGATCAACCAAAACCCA
928801 A
65 A
* *
928802 AATGGCTTTTCA-AAGGCTCAATCACAACCTTTAGCAATGGTTTTTCACAGGATCAACCAAAACC
1 AATGGCTTTTCACAA-GCTCAATCACAACCTTTAACAATGGTTTGT--CAGGATCAACCAAAACC
928866 CAA
63 CAA
928869 AA
1 AA
928871 GTAACTTTTC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
64 3 0.05
65 37 0.62
67 20 0.33
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (65 bp):
AATGGCTTTTCACAAGCTCAATCACAACCTTTAACAATGGTTTGTCAGGATCAACCAAAACCCAA
Found at i:930586 original size:76 final size:76
Alignment explanation
Indices: 930455--931127 Score: 830
Period size: 76 Copynumber: 8.9 Consensus size: 76
930445 AAACGCGGCA
* *
930455 TGTCACCCTATAATACTACAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* *
930520 GGGGCATGGCA
66 GGGGCGTGGCG
** * * * * * *
930531 TGTCACCTTATAATACTGCAACCACTTAGCGTGTCACTATAAGATATCATTGACATTTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* * *
930596 GGAGTGTGGTG
66 GGGGCGTGGCG
* * * * * *
930607 TGTCATCTCATAATACTACAACCACTCAACCTATCACCACAAGATGTCATCGACATCTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* *
930672 GTGGCATGGCG
66 GGGGCGTGGCG
* * * * *
930683 TGTCACTCCATAATACGGCAATCAGTCAGTGTGTCACCACAAGA-GTCATCGACATCTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
*
930747 GGAGCGTGGCG
66 GGGGCGTGGCG
* * * *
930758 TGTCACCCCTTAATACTGCAACCACTCAGTGTGTCACCATAAGATGTCATCGACATTTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* *
930823 GGGGCGCGGCC
66 GGGGCGTGGCG
* * *
930834 TATCACCCCATAATATTACAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* *
930899 GAGGCATGGCG
66 GGGGCGTGGCG
* * * * * *
930910 TGTGACCCCATAATACTGCAACCACTCAACATGCCACCACAAGATGTCATCAACATCTAATAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
*
930975 GGGGCGTCGCG
66 GGGGCGTGGCG
* * * *
930986 TGTCACCCCATAATACTGCAGCCACTC-GACATGTCACC-TAAGATGTCATCAACATCTAACAAT
1 TGTCACCCCATAATACTGCAACCACTCAG-CGTGTCACCACAAGATGTCATCGACATCTAACAAT
*
931049 TGGAGCGTGGCG
65 TGGGGCGTGGCG
* *
931061 TGTCACCCCATAATACTGCAACCACTCAGCATGTCACCACGAGATGTCATCGACATCTAACAATT
1 TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
931126 GG
66 GG
931128 AGCATGTAAC
Statistics
Matches: 504, Mismatches: 89, Indels: 8
0.84 0.15 0.01
Matches are distributed among these distances:
75 134 0.27
76 370 0.73
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (76 bp):
TGTCACCCCATAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
GGGGCGTGGCG
Found at i:930895 original size:227 final size:228
Alignment explanation
Indices: 930455--931126 Score: 893
Period size: 227 Copynumber: 3.0 Consensus size: 228
930445 AAACGCGGCA
* **
930455 TGTCACCCTATAATACTACAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
1 TGTCACCCCATAATACGGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* * * * * * *
930520 GGGGCATGGCATGTCA-CCTTATAATACTGCAACCACTTAGCGTGTCACTATAAGATATCATTGA
66 GGGGCGTGGCGTGTCACCCCT-TAATACTGCAACCACTCAGCGTGTCACCATAAGATGTCATCGA
* * * * * * *
930584 CATTTAACAATTGGAGTGTGGTGTGTCATCTCATAATACTACAACCACTCAACCTATCACCACAA
130 CATTTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTACAACCACTCAGCATGTCACCACAA
*
930649 GATGTCATCGACATCTAACAATTGTGGCATGGCG
195 GATGTCATCGACATCTAACAATTGAGGCATGGCG
* * * *
930683 TGTCACTCCATAATACGGCAATCAGTCAGTGTGTCACCACAAGA-GTCATCGACATCTAACAATT
1 TGTCACCCCATAATACGGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* *
930747 GGAGCGTGGCGTGTCACCCCTTAATACTGCAACCACTCAGTGTGTCACCATAAGATGTCATCGAC
66 GGGGCGTGGCGTGTCACCCCTTAATACTGCAACCACTCAGCGTGTCACCATAAGATGTCATCGAC
* * * * * *
930812 ATTTAACAATTGGGGCGCGGCCTATCACCCCATAATATTACAACCACTCAGCGTGTCACCACAAG
131 ATTTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTACAACCACTCAGCATGTCACCACAAG
930877 ATGTCATCGACATCTAACAATTGAGGCATGGCG
196 ATGTCATCGACATCTAACAATTGAGGCATGGCG
* * * * * * *
930910 TGTGACCCCATAATACTGCAACCACTCAACATGCCACCACAAGATGTCATCAACATCTAATAATT
1 TGTCACCCCATAATACGGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* * * * *
930975 GGGGCGTCGCGTGTCACCCCATAATACTGCAGCCACTC-GACATGTCACC-TAAGATGTCATCAA
66 GGGGCGTGGCGTGTCACCCCTTAATACTGCAACCACTCAG-CGTGTCACCATAAGATGTCATCGA
* * *
931038 CATCTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTGCAACCACTCAGCATGTCACCACGA
130 CATTTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTACAACCACTCAGCATGTCACCACAA
931103 GATGTCATCGACATCTAACAATTG
195 GATGTCATCGACATCTAACAATTG
931127 GAGCATGTAA
Statistics
Matches: 385, Mismatches: 56, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
227 286 0.74
228 99 0.26
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (228 bp):
TGTCACCCCATAATACGGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
GGGGCGTGGCGTGTCACCCCTTAATACTGCAACCACTCAGCGTGTCACCATAAGATGTCATCGAC
ATTTAACAATTGGAGCGTGGCGTGTCACCCCATAATACTACAACCACTCAGCATGTCACCACAAG
ATGTCATCGACATCTAACAATTGAGGCATGGCG
Found at i:931023 original size:303 final size:303
Alignment explanation
Indices: 930455--931127 Score: 879
Period size: 303 Copynumber: 2.2 Consensus size: 303
930445 AAACGCGGCA
*
930455 TGTCA-CCCTATAATACTACAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAAT
1 TGTCACCCCT-TAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAAT
* * ** * * * * *
930519 TGGGGCATGGCATGTCACCTTATAATACTGCAACCACTTAGCGTGTCACTATAAGATATCATTGA
65 TGGGGCACGGCATATCACCCCATAATACTACAACCACTCAGCGTGTCACCACAAGATATCATCGA
* * * * * *
930584 CATTTAACAATTGGAGTGTGGTGTGTCATCTCATAATACTACAACCACTCAACCTATCACCACAA
130 CATCTAACAATTGGAGTGTGGCGTGTCACCCCATAATACTACAACCACTCAACATACCACCACAA
* * * * * * **
930649 GATGTCATCGACATCTAACAATTGTGGCATGGCGTGTCACTCCATAATACGGCAATCAGTCAGTG
195 GATGTCATCAACATCTAACAATTGGGGCATCGCGTGTCACCCCATAATACGGCAACCACTCAGCA
*
930714 TGTCACCACAAGA-GTCATCGACATCTAACAATTGGAGCGTGGCG
260 TGTCACC-CAAGATGTCATCAACATCTAACAATTGGAGCGTGGCG
* * *
930758 TGTCACCCCTTAATACTGCAACCACTCAGTGTGTCACCATAAGATGTCATCGACATTTAACAATT
1 TGTCACCCCTTAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
* * * *
930823 GGGGCGCGGCCTATCACCCCATAATATTACAACCACTCAGCGTGTCACCACAAGATGTCATCGAC
66 GGGGCACGGCATATCACCCCATAATACTACAACCACTCAGCGTGTCACCACAAGATATCATCGAC
* * *
930888 ATCTAACAATT-GAG-GCATGGCGTGTGACCCCATAATACTGCAACCACTCAACATGCCACCACA
131 ATCTAACAATTGGAGTG--TGGCGTGTCACCCCATAATACTACAACCACTCAACATACCACCACA
* * * *
930951 AGATGTCATCAACATCTAATAATTGGGGCGTCGCGTGTCACCCCATAATACTGCAGCCACTC-GA
194 AGATGTCATCAACATCTAACAATTGGGGCATCGCGTGTCACCCCATAATACGGCAACCACTCAG-
*
931015 CATGTCACCTAAGATGTCATCAACATCTAACAATTGGAGCGTGGCG
258 CATGTCACCCAAGATGTCATCAACATCTAACAATTGGAGCGTGGCG
* * *
931061 TGTCACCCCATAATACTGCAACCACTCAGCATGTCACCACGAGATGTCATCGACATCTAACAATT
1 TGTCACCCCTTAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
931126 GG
66 GG
931128 AGCATGTAAC
Statistics
Matches: 319, Mismatches: 46, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
301 1 0.00
302 8 0.03
303 306 0.96
304 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.24
Consensus pattern (303 bp):
TGTCACCCCTTAATACTGCAACCACTCAGCGTGTCACCACAAGATGTCATCGACATCTAACAATT
GGGGCACGGCATATCACCCCATAATACTACAACCACTCAGCGTGTCACCACAAGATATCATCGAC
ATCTAACAATTGGAGTGTGGCGTGTCACCCCATAATACTACAACCACTCAACATACCACCACAAG
ATGTCATCAACATCTAACAATTGGGGCATCGCGTGTCACCCCATAATACGGCAACCACTCAGCAT
GTCACCCAAGATGTCATCAACATCTAACAATTGGAGCGTGGCG
Found at i:931412 original size:8 final size:8
Alignment explanation
Indices: 931399--931423 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
931389 AATACAAAAT
931399 TCAAATAA
1 TCAAATAA
931407 TCAAATAA
1 TCAAATAA
931415 TCAAATAA
1 TCAAATAA
931423 T
1 T
931424 ATATCTACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (8 bp):
TCAAATAA
Found at i:934402 original size:60 final size:60
Alignment explanation
Indices: 934295--934593 Score: 345
Period size: 60 Copynumber: 5.0 Consensus size: 60
934285 AGACATCATC
* * * * * *
934295 ACCTACTCGTGGGAACTGCCCATGCCACC--ATATGAATCGAGACTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGATCTACCCACGTCACCAAATATAAATCGGGACTTCAGGTCCCCCTTT
* * * *
934353 ACCTACTTGTGAGAAT-TACCCACGTCACCAAATATAAATCGGCACTTCAGGTCCCTCTTT
1 ACCTACTCGTG-GGATCTACCCACGTCACCAAATATAAATCGGGACTTCAGGTCCCCCTTT
* * * *
934413 ACCTACTCGTGTGATCTGCCCACGTCACCATAA-ATAAATCGGGGCTTCAAGTCCCCCTTT
1 ACCTACTCGTGGGATCTACCCACGTCACCA-AATATAAATCGGGACTTCAGGTCCCCCTTT
* * * * * *
934473 ACCTACTCGTGGGATCTGCCCATGACATCATATATAAATCGGGACTTCAGGTCCCCTTTT
1 ACCTACTCGTGGGATCTACCCACGTCACCAAATATAAATCGGGACTTCAGGTCCCCCTTT
* * *
934533 ACCTACTCATGGGATCTACCCACGCCACCATATATAAATCGGGACTTCAGGTCCCCCTTT
1 ACCTACTCGTGGGATCTACCCACGTCACCAAATATAAATCGGGACTTCAGGTCCCCCTTT
934593 A
1 A
934594 AAATCAAATA
Statistics
Matches: 203, Mismatches: 32, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
58 20 0.10
59 5 0.02
60 176 0.87
61 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (60 bp):
ACCTACTCGTGGGATCTACCCACGTCACCAAATATAAATCGGGACTTCAGGTCCCCCTTT
Found at i:935258 original size:2 final size:2
Alignment explanation
Indices: 935251--935304 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
935241 CGTCGCCATG
* *
935251 CT CT CT CT CT CT CT CT CT CT CT CT CT TT TT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
935293 CT CT CT CT CT CT
1 CT CT CT CT CT CT
935305 TTTTTTCTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (2 bp):
CT
Found at i:935284 original size:28 final size:28
Alignment explanation
Indices: 935252--935338 Score: 124
Period size: 28 Copynumber: 3.2 Consensus size: 28
935242 GTCGCCATGC
935252 TCTCTCTCTCTCTCTCTCTCTCTCTTTT
1 TCTCTCTCTCTCTCTCTCTCTCTCTTTT
935280 TCTCTCTCTCTCTCTCTCTCTCTCTTTT
1 TCTCTCTCTCTCTCTCTCTCTCTCTTTT
* * * *
935308 TTTCTCTTTCTCTTTCT-TCT-TCTCTT
1 TCTCTCTCTCTCTCTCTCTCTCTCTTTT
935334 TCTCT
1 TCTCT
935339 TTCCTTTTTC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 9 0.17
27 3 0.06
28 42 0.78
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (28 bp):
TCTCTCTCTCTCTCTCTCTCTCTCTTTT
Found at i:935317 original size:6 final size:6
Alignment explanation
Indices: 935251--935422 Score: 88
Period size: 6 Copynumber: 28.7 Consensus size: 6
935241 CGTCGCCATG
* * * * * * *
935251 CTCTCT CTCTCT CTCTCT CTCTCT CTTTTT CTCTCTCT CTCTCT CTCTCT
1 CTCTTT CTCTTT CTCTTT CTCTTT CTCTTT CTCT-T-T CTCTTT CTCTTT
935301 CTCTTT -T-TTT CTCTTT CTCTTT CT-TCTT CTCTTT CTCTTT C-CTTT
1 CTCTTT CTCTTT CTCTTT CTCTTT CTCT-TT CTCTTT CTCTTT CTCTTT
* * * * * *
935346 TTC-TG CGCTAT CATGCTCT CTCTTT C-CTTT CTTTTT CTCTTT CTCTTT
1 CTCTTT CTCTTT C-T-CTTT CTCTTT CTCTTT CTCTTT CTCTTT CTCTTT
* * *
935394 -TTTTT CTTTTT CTCCTCT CTTCTTT CTCT
1 CTCTTT CTCTTT CT-CTTT C-TCTTT CTCT
935423 CCTTCGGGCC
Statistics
Matches: 132, Mismatches: 20, Indels: 28
0.73 0.11 0.16
Matches are distributed among these distances:
4 3 0.02
5 18 0.14
6 91 0.69
7 10 0.08
8 10 0.08
ACGTcount: A:0.01, C:0.35, G:0.02, T:0.62
Consensus pattern (6 bp):
CTCTTT
Found at i:935390 original size:23 final size:23
Alignment explanation
Indices: 935364--935407 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
935354 TATCATGCTC
935364 TCTCTTTCCTTTCTTTTTCTCTT
1 TCTCTTTCCTTTCTTTTTCTCTT
**
935387 TCTCTTTTTTTTCTTTTTCTC
1 TCTCTTTCCTTTCTTTTTCTC
935408 CTCTCTTCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (23 bp):
TCTCTTTCCTTTCTTTTTCTCTT
Found at i:938150 original size:22 final size:22
Alignment explanation
Indices: 938109--938149 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
938099 TACCTTTTGT
*
938109 CACTTGTTTCCTTGAATTTTCA
1 CACTTGTTCCCTTGAATTTTCA
938131 CACTT-TTCCCTTGAATTTT
1 CACTTGTTCCCTTGAATTTT
938150 TTCACCTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.17, C:0.24, G:0.07, T:0.51
Consensus pattern (22 bp):
CACTTGTTCCCTTGAATTTTCA
Found at i:939825 original size:26 final size:26
Alignment explanation
Indices: 939796--939850 Score: 80
Period size: 23 Copynumber: 2.2 Consensus size: 26
939786 TTTTTCAGTC
939796 ATGTTATTACACACCATGTTCAAAAA
1 ATGTTATTACACACCATGTTCAAAAA
*
939822 ATG---TTACACGCCATGTTCAAAAA
1 ATGTTATTACACACCATGTTCAAAAA
939845 ATGTTA
1 ATGTTA
939851 CATGTCATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
23 22 0.88
26 3 0.12
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.31
Consensus pattern (26 bp):
ATGTTATTACACACCATGTTCAAAAA
Found at i:939830 original size:23 final size:23
Alignment explanation
Indices: 939802--939944 Score: 155
Period size: 23 Copynumber: 6.2 Consensus size: 23
939792 AGTCATGTTA
939802 TTACACACCATGTTCAAAAAATG
1 TTACACACCATGTTCAAAAAATG
*
939825 TTACACGCCATGTTCAAAAAATG
1 TTACACACCATGTTCAAAAAATG
***
939848 TTACATGTCATGTTC-AAAAATG
1 TTACACACCATGTTCAAAAAATG
* * *
939870 TTACACA-CAAGTTTAAAAATTG
1 TTACACACCATGTTCAAAAAATG
* * *
939892 TTACACGCCATGTTCACAACATG
1 TTACACACCATGTTCAAAAAATG
*
939915 TTACTCACCATGTTCAATAAAAATG
1 TTACACACCATGTTC-A-AAAAATG
939940 TTACA
1 TTACA
939945 TGCCATGTGC
Statistics
Matches: 97, Mismatches: 19, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
21 5 0.05
22 24 0.25
23 58 0.60
24 1 0.01
25 9 0.09
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (23 bp):
TTACACACCATGTTCAAAAAATG
Found at i:939904 original size:44 final size:45
Alignment explanation
Indices: 939802--939952 Score: 144
Period size: 44 Copynumber: 3.3 Consensus size: 45
939792 AGTCATGTTA
* * *
939802 TTACACACCATGTTCAAAAAATGTTACACGCCATGTTCAAAAAATG
1 TTACACGCCATGTTC-AAAAATGTTACACGACAAGTTCAAAAAATG
* * * *
939848 TTACATGTCATGTTCAAAAATGTTACAC-ACAAGTTTAAAAATTG
1 TTACACGCCATGTTCAAAAATGTTACACGACAAGTTCAAAAAATG
* * *
939892 TTACACGCCATGTTCACAACATGTTACTC-ACCATGTTCAATAAAAATG
1 TTACACGCCATGTTCA-AAAATGTTACACGA-CAAGTTC-A-AAAAATG
*
939940 TTACATGCCATGT
1 TTACACGCCATGT
939953 GCTAGCACAT
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
44 26 0.30
45 24 0.28
46 17 0.20
47 1 0.01
48 18 0.21
ACGTcount: A:0.38, C:0.21, G:0.11, T:0.30
Consensus pattern (45 bp):
TTACACGCCATGTTCAAAAATGTTACACGACAAGTTCAAAAAATG
Found at i:939927 original size:67 final size:68
Alignment explanation
Indices: 939802--939931 Score: 174
Period size: 67 Copynumber: 1.9 Consensus size: 68
939792 AGTCATGTTA
* **
939802 TTACACACCATGTTCAAAAAATGTTACACGCCATGTTCAAAAAATGTTACATGTCATGTTCAAAA
1 TTACACACCAAGTTCAAAAAATGTTACACGCCATGTTCAAAAAATGTTACATACCATGTTCAAAA
939867 ATG
66 ATG
* * * *
939870 TTACACA-CAAGTTTAAAAATTGTTACACGCCATGTTCACAACATGTTAC-TCACCATGTTCAA
1 TTACACACCAAGTTCAAAAAATGTTACACGCCATGTTCAAAAAATGTTACAT-ACCATGTTCAA
939932 TAAAAATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 1 0.02
67 46 0.85
68 7 0.13
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.30
Consensus pattern (68 bp):
TTACACACCAAGTTCAAAAAATGTTACACGCCATGTTCAAAAAATGTTACATACCATGTTCAAAA
ATG
Found at i:940911 original size:102 final size:101
Alignment explanation
Indices: 940735--940937 Score: 397
Period size: 102 Copynumber: 2.0 Consensus size: 101
940725 CTTACTACAT
940735 CCAATTACAGTAACGGCTACTTACATTAATATTCTTTATAATAATGTCATTCATTAGGCGCATTA
1 CCAATTACAGTAACGGCTACTTACATTAATATTCTTTATAATAATGTCATTCATTAGGCGCATTA
940800 AAGCCTATTCTTATGTAACTGTCACTTTTAGCACTA
66 AAGCCTATTCTTATGTAACTGTCACTTTTAGCACTA
940836 NCCAATTACAGTAACGGCTACTTACATTAATATTCTTTATAATAATGTCATTCATTAGGCGCATT
1 -CCAATTACAGTAACGGCTACTTACATTAATATTCTTTATAATAATGTCATTCATTAGGCGCATT
940901 AAAGCCTATTCTTATGTAACTGTCACTTTTAGCACTA
65 AAAGCCTATTCTTATGTAACTGTCACTTTTAGCACTA
940938 TATATAGAGC
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (101 bp):
CCAATTACAGTAACGGCTACTTACATTAATATTCTTTATAATAATGTCATTCATTAGGCGCATTA
AAGCCTATTCTTATGTAACTGTCACTTTTAGCACTA
Found at i:941031 original size:13 final size:13
Alignment explanation
Indices: 941013--941037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
941003 ACTTGAGAGC
941013 TTCTCTCTCTAAA
1 TTCTCTCTCTAAA
941026 TTCTCTCTCTAA
1 TTCTCTCTCTAA
941038 TTATCTTGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.32, G:0.00, T:0.48
Consensus pattern (13 bp):
TTCTCTCTCTAAA
Found at i:942314 original size:102 final size:101
Alignment explanation
Indices: 942072--942354 Score: 309
Period size: 102 Copynumber: 2.8 Consensus size: 101
942062 TTAAAAAAAA
* * * *
942072 ATTCATATTCAGCCGCTAGCTTTATCGCTTATATTTTGGCTGTAATTATATTATACTATTGGTCT
1 ATTCACATTCAGCCGCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTCG
* *
942137 CAAGTTTTATCGCTTATTCTTTGACCATAGTTCATC
66 CAAGCTTTATCGCTTATTCTTTGACCATAATTCATC
* * * * * * *
942173 ATTC-CTACTTCAGCCACAAGCATTA-CTGCCCATATTTTGGCTGTAATGATATTCTTCTTTTGG
1 ATTCAC-A-TTCAGCCGCTAGCTTTATC-GCTCATATTTTGGCTGTAATGATATTATACTATTGG
* * *
942236 TCGCAAGCTTTATTGCTTATTCTTTGACCATAATTTATT
63 TCGCAAGCTTTATCGCTTATTCTTTGACCATAATTCATC
* * * * *
942275 ATTCACATTCCAGCTGCTAGCTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCC
1 ATTCACATT-CAGCCGCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTC
* *
942340 ACTAGCTTTATCGCT
65 GCAAGCTTTATCGCT
942355 CATAATTTGG
Statistics
Matches: 146, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
101 8 0.05
102 136 0.93
103 2 0.01
ACGTcount: A:0.22, C:0.21, G:0.14, T:0.43
Consensus pattern (101 bp):
ATTCACATTCAGCCGCTAGCTTTATCGCTCATATTTTGGCTGTAATGATATTATACTATTGGTCG
CAAGCTTTATCGCTTATTCTTTGACCATAATTCATC
Found at i:942414 original size:49 final size:50
Alignment explanation
Indices: 942290--942406 Score: 218
Period size: 50 Copynumber: 2.4 Consensus size: 50
942280 CATTCCAGCT
942290 GCTAGCTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCC
1 GCTAGCTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCC
*
942340 ACTAGCTTTATCGCTCATAATTTGGCTGTAATGATG-TATGCTATTGGCC
1 GCTAGCTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCC
942389 GCTAGCTTTATCGCTCAT
1 GCTAGCTTTATCGCTCAT
942407 TTCTTGGCCC
Statistics
Matches: 65, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
49 30 0.46
50 35 0.54
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.39
Consensus pattern (50 bp):
GCTAGCTTTATCGCTCATAATTTGGCTGTAATGATGTTATGCTATTGGCC
Found at i:942511 original size:26 final size:27
Alignment explanation
Indices: 942475--942529 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
942465 AAGGGTTGAA
*
942475 TTAATCTCCTTCATATCAAGTT-AGAG
1 TTAATCTCCTTCATATAAAGTTGAGAG
* *
942501 TTAATCTCCTTGATGTAAAGTTGAGAG
1 TTAATCTCCTTCATATAAAGTTGAGAG
942528 TT
1 TT
942530 CCCTTTTGGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 19 0.76
27 6 0.24
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (27 bp):
TTAATCTCCTTCATATAAAGTTGAGAG
Found at i:954179 original size:139 final size:140
Alignment explanation
Indices: 953946--954197 Score: 346
Period size: 139 Copynumber: 1.8 Consensus size: 140
953936 CAGCCTATAG
* * * *
953946 AGCAGTCAAGTTTTGCTTTCTCAACCCATCTCCATCCGGCTATCCCCATCGTCGATTGACTTTCA
1 AGCAGTCAACTTTTGCTTTCTCAACCCATCTCCATCCGGCCATCCCCATCGCCGATCGACTTTCA
** *
954011 GGCTTCAGCAGTTTGGTTCGACCTTTCCCCCTTCTTCCATTCTTTCAATCTTTCTTTCAGCCTAC
66 GGCTTCAGCAGTTTGGTTCGACCCCTCCCCCTTCTGCCATTCTTTCAATCTTTCTTTCAGCCTAC
954076 AGCAGTAGCC
131 AGCAGTAGCC
* * * * * *
954086 AGCAGTCGACTTTTGCTTTCTTAATCCATCTCCATCCGGCCAT-TCCATTGCCGATCGGCTTTCA
1 AGCAGTCAACTTTTGCTTTCTCAACCCATCTCCATCCGGCCATCCCCATCGCCGATCGACTTTCA
* *
954150 GGCTTTAGCAGTTAT-GTTCGGCCCCTCCCCCTTCTGCCATTCTTTCAA
66 GGCTTCAGCAGTT-TGGTTCGACCCCTCCCCCTTCTGCCATTCTTTCAA
954198 CCTACAGAGC
Statistics
Matches: 96, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
139 57 0.59
140 39 0.41
ACGTcount: A:0.16, C:0.34, G:0.15, T:0.35
Consensus pattern (140 bp):
AGCAGTCAACTTTTGCTTTCTCAACCCATCTCCATCCGGCCATCCCCATCGCCGATCGACTTTCA
GGCTTCAGCAGTTTGGTTCGACCCCTCCCCCTTCTGCCATTCTTTCAATCTTTCTTTCAGCCTAC
AGCAGTAGCC
Found at i:958308 original size:78 final size:76
Alignment explanation
Indices: 958179--958342 Score: 256
Period size: 78 Copynumber: 2.1 Consensus size: 76
958169 AATGCCATCT
* * *
958179 ATTTTAATTTTGTGTTATTCATAAAAAATAGGAAATTGTTTCCTACTTAAAGTGAATTCCTAAAA
1 ATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCATACTTAAAGTGAATTCCTAAAA
958244 TTATGGTTATAGC
66 TTATGG-T-TAGC
* * *
958257 ATTTTAATTTTGGGTGATTTATAAAGAATAGGAAATTGTTTCATATTTAAAGTGAATTCCTAAAA
1 ATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCATACTTAAAGTGAATTCCTAAAA
958322 TTATGGTTAGC
66 TTATGGTTAGC
958333 ATTTTAATTT
1 ATTTTAATTT
958343 AGAAGACTCA
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
76 14 0.17
77 1 0.01
78 65 0.81
ACGTcount: A:0.35, C:0.07, G:0.14, T:0.44
Consensus pattern (76 bp):
ATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCATACTTAAAGTGAATTCCTAAAA
TTATGGTTAGC
Found at i:967312 original size:47 final size:49
Alignment explanation
Indices: 967247--967338 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 49
967237 CAAACGGAAC
* * *
967247 ATACATATGTCACATCATATCATTGTCT-AAACCATCCATGGACAAAAT
1 ATACATATCTCACATCATAACATCGTCTGAAACCATCCATGGACAAAAT
*
967295 ATACATATCT-ACATCATAACATCGTCTGAAATCATCCATGGACA
1 ATACATATCTCACATCATAACATCGTCTGAAACCATCCATGGACA
967339 GAACATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 15 0.38
48 24 0.62
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (49 bp):
ATACATATCTCACATCATAACATCGTCTGAAACCATCCATGGACAAAAT
Found at i:975613 original size:45 final size:44
Alignment explanation
Indices: 975549--975637 Score: 151
Period size: 45 Copynumber: 2.0 Consensus size: 44
975539 ATTTTGAATA
* *
975549 TGAATTGTGTGTTTTGTACTTGTATATTACGTTTTAGCCAGTTT
1 TGAATTATGTGTTTTGTACTTGTATATTACATTTTAGCCAGTTT
975593 NTGAATTATGTGTTTTGTACTTGTATATTACATTTTAGCCAGTTT
1 -TGAATTATGTGTTTTGTACTTGTATATTACATTTTAGCCAGTTT
975638 CAAAATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.52
Consensus pattern (44 bp):
TGAATTATGTGTTTTGTACTTGTATATTACATTTTAGCCAGTTT
Found at i:977589 original size:11 final size:11
Alignment explanation
Indices: 977573--977609 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
977563 TAAGTTAATA
977573 ATGTTATTTTT
1 ATGTTATTTTT
*
977584 ATGTTATTTAT
1 ATGTTATTTTT
977595 AT-TTATTTTT
1 ATGTTATTTTT
977605 ATGTT
1 ATGTT
977610 TTTGTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.70
Consensus pattern (11 bp):
ATGTTATTTTT
Found at i:979629 original size:24 final size:24
Alignment explanation
Indices: 979589--979634 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
979579 CATTTCATTT
*
979589 AATTTTCAAAATCCATATCACAAA
1 AATTTTCAAAATCCATAGCACAAA
*
979613 AATTTTCATACAT-CATAGCACA
1 AATTTTCA-AAATCCATAGCACA
979635 CTTCGAGCGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 16 0.84
25 3 0.16
ACGTcount: A:0.46, C:0.22, G:0.02, T:0.30
Consensus pattern (24 bp):
AATTTTCAAAATCCATAGCACAAA
Found at i:982112 original size:16 final size:16
Alignment explanation
Indices: 982077--982119 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
982067 CCTTGTCTTT
982077 TTTC-TTCTTTC-TCA
1 TTTCTTTCTTTCTTCA
*
982091 TTTCTTTCTTTCTTCC
1 TTTCTTTCTTTCTTCA
*
982107 TTTCTTCCTTTCT
1 TTTCTTTCTTTCT
982120 CTTTTTGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 4 0.16
15 7 0.28
16 14 0.56
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTCTTTCTTTCTTCA
Found at i:983844 original size:16 final size:16
Alignment explanation
Indices: 983823--983863 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
983813 AAGGAAAAAA
983823 TTAGGTATTCTATACC
1 TTAGGTATTCTATACC
983839 TTAGGTATTCTATACC
1 TTAGGTATTCTATACC
983855 TTAGGTATT
1 TTAGGTATT
983864 GATACCTCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (16 bp):
TTAGGTATTCTATACC
Found at i:990329 original size:7 final size:7
Alignment explanation
Indices: 990306--990354 Score: 57
Period size: 7 Copynumber: 7.0 Consensus size: 7
990296 TTCCTCTCTT
990306 TTCTTTC
1 TTCTTTC
990313 TTTCCTTTC
1 -TT-CTTTC
990322 TTCTTTC
1 TTCTTTC
990329 TTCTTTC
1 TTCTTTC
990336 --CTTTC
1 TTCTTTC
*
990341 TCCTTTC
1 TTCTTTC
990348 TTCTTTC
1 TTCTTTC
990355 CCCTTGGCTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
5 5 0.14
7 23 0.62
8 4 0.11
9 5 0.14
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (7 bp):
TTCTTTC
Found at i:990334 original size:19 final size:19
Alignment explanation
Indices: 990300--990355 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
990290 TCAATTTTCC
*
990300 TCTCTTTTCTTTCTTTCCTT
1 TCTCCTTTC-TTCTTTCCTT
*
990320 TCTTCTTTCTTCTTTCCTT
1 TCTCCTTTCTTCTTTCCTT
990339 TCTCCTTTCTTCTTTCC
1 TCTCCTTTCTTCTTTCC
990356 CCTTGGCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 26 0.79
20 7 0.21
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (19 bp):
TCTCCTTTCTTCTTTCCTT
Found at i:990365 original size:26 final size:26
Alignment explanation
Indices: 990315--990365 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
990305 TTTCTTTCTT
** *
990315 TCCTTTCTTCTTTCTTCTTTCCTTTC
1 TCCTTTCTTCTTTCCCCTTGCCTTTC
*
990341 TCCTTTCTTCTTTCCCCTTGGCTTT
1 TCCTTTCTTCTTTCCCCTTGCCTTT
990366 GGGCAGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.00, C:0.35, G:0.04, T:0.61
Consensus pattern (26 bp):
TCCTTTCTTCTTTCCCCTTGCCTTTC
Found at i:994991 original size:28 final size:28
Alignment explanation
Indices: 994927--995000 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
994917 CTTAACATAT
* * * *
994927 TTGTCTTAATTTATACAAGAAAACGTGT
1 TTGTCTTAATTAAGACAAGAAAACATGG
* * *
994955 TTATATTAATTGAGACAAGAAAACATGG
1 TTGTCTTAATTAAGACAAGAAAACATGG
994983 TTGTCTTAATTAAGACAA
1 TTGTCTTAATTAAGACAA
995001 AAGTTGTCTT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (28 bp):
TTGTCTTAATTAAGACAAGAAAACATGG
Found at i:995006 original size:21 final size:21
Alignment explanation
Indices: 994982--995021 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
994972 AGAAAACATG
994982 GTTGTCTTAATTAAGACAAAA
1 GTTGTCTTAATTAAGACAAAA
*
995003 GTTGTCTTAATTTAGACAA
1 GTTGTCTTAATTAAGACAA
995022 CAAGGTCCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTGTCTTAATTAAGACAAAA
Found at i:999195 original size:17 final size:17
Alignment explanation
Indices: 999173--999209 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
999163 AAGCTTGGGT
999173 TTTAGCTAGAAAAT-TAG
1 TTTAGCTA-AAAATGTAG
999190 TTTAGCTAAAAATGTAG
1 TTTAGCTAAAAATGTAG
999207 TTT
1 TTT
999210 CGAAAGTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (17 bp):
TTTAGCTAAAAATGTAG
Found at i:1000037 original size:19 final size:19
Alignment explanation
Indices: 1000015--1000051 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1000005 TAATAAAATA
*
1000015 ATATTTTATTATTTAGATT
1 ATATTATATTATTTAGATT
1000034 ATATTATATTATTTAGAT
1 ATATTATATTATTTAGAT
1000052 AGAGAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
ATATTATATTATTTAGATT
Found at i:1000830 original size:17 final size:18
Alignment explanation
Indices: 1000804--1000839 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
1000794 GGTTTCACCC
*
1000804 GAGGAGAAAAGAAA-AAA
1 GAGGAAAAAAGAAAGAAA
1000821 GAGGAAAAAAGAAAGAAA
1 GAGGAAAAAAGAAAGAAA
1000839 G
1 G
1000840 TGGGGAAGGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
GAGGAAAAAAGAAAGAAA
Found at i:1001795 original size:20 final size:20
Alignment explanation
Indices: 1001770--1001815 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
1001760 TTTTGGTCCC
* *
1001770 ATTTGACTTATTGGAGTATG
1 ATTTGACTAATTGAAGTATG
*
1001790 ATTTGAGTAATTGAAGTATG
1 ATTTGACTAATTGAAGTATG
1001810 ATTTGA
1 ATTTGA
1001816 GGTTTAGAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.02, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTAATTGAAGTATG
Found at i:1001816 original size:20 final size:20
Alignment explanation
Indices: 1001779--1001816 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1001769 CATTTGACTT
*
1001779 ATTGGAGTATGATTTGAGTA
1 ATTGAAGTATGATTTGAGTA
1001799 ATTGAAGTATGATTTGAG
1 ATTGAAGTATGATTTGAG
1001817 GTTTAGAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.29, T:0.39
Consensus pattern (20 bp):
ATTGAAGTATGATTTGAGTA
Found at i:1004503 original size:54 final size:54
Alignment explanation
Indices: 1004440--1004547 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
1004430 AATTCTATAA
* *
1004440 AATTATGTATATGATGTAAATTCCATATACCGTATGAGATGATTAAGTAAGCAT
1 AATTATGTATATGATATAAATTCCATATACCATATGAGATGATTAAGTAAGCAT
* * * *
1004494 AATTGTGTATATGATATAAATTCCATATATCATATGAGGTGATTAAGTATGCAT
1 AATTATGTATATGATATAAATTCCATATACCATATGAGATGATTAAGTAAGCAT
1004548 GATAAATGCC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.37
Consensus pattern (54 bp):
AATTATGTATATGATATAAATTCCATATACCATATGAGATGATTAAGTAAGCAT
Found at i:1006708 original size:2 final size:2
Alignment explanation
Indices: 1006701--1006726 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1006691 CAGCTACTAT
1006701 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1006727 CACATAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1007272 original size:35 final size:35
Alignment explanation
Indices: 1007178--1007263 Score: 145
Period size: 35 Copynumber: 2.5 Consensus size: 35
1007168 ACTATAATTA
* *
1007178 TCTTAATAAATATTTTCTATTTAAGGCAAGCGTTT
1 TCTTAAAAAATATTTTCTATTTAAGGCAAGCCTTT
*
1007213 TCTTAAAAAATATTTTCTATTTAAGGTAAGCCTTT
1 TCTTAAAAAATATTTTCTATTTAAGGCAAGCCTTT
1007248 TCTTAAAAAATATTTT
1 TCTTAAAAAATATTTT
1007264 TGTATTAAGA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 48 1.00
ACGTcount: A:0.35, C:0.10, G:0.08, T:0.47
Consensus pattern (35 bp):
TCTTAAAAAATATTTTCTATTTAAGGCAAGCCTTT
Found at i:1021176 original size:73 final size:73
Alignment explanation
Indices: 1021054--1021256 Score: 264
Period size: 73 Copynumber: 2.8 Consensus size: 73
1021044 TAGTCAGAAT
* * * * * *
1021054 GCTCTTAATCGACTAACTATGCTTTTTAGTCGATTAAGTCATCTTTGTCTCTAAACCCAGTTTCT
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCGTCTCTGTCTCTAAACCCAGTTTCT
*
1021119 GGCAGTGA
66 GGCAGTAA
* *
1021127 GCTCTTAGTCGACTAACAATACTTCTTAGTCAATTAAGTCGTCTCTGTCTCTAAACCTAGTTTCT
1 GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCGTCTCTGTCTCTAAACCCAGTTTCT
1021192 GGCAGTAA
66 GGCAGTAA
* * * * *
1021200 GCTCATAGTCAACTAATAATGA-TTCTTAGTCGATTAAGTCGTCTCTGTTTCTGAACC
1 GCTCTTAGTCGACTAACAAT-ACTTCTTAGTCGATTAAGTCGTCTCTGTCTCTAAACC
1021257 GGCCATCTTC
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
73 113 0.99
74 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (73 bp):
GCTCTTAGTCGACTAACAATACTTCTTAGTCGATTAAGTCGTCTCTGTCTCTAAACCCAGTTTCT
GGCAGTAA
Found at i:1032672 original size:2 final size:2
Alignment explanation
Indices: 1032665--1032707 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
1032655 CCCCCTCCCT
1032665 TC TC TC TC TC TC T- TC TC -C T- TC TC TC T- TC -C TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1032702 TC TC TC
1 TC TC TC
1032708 ACCCTAATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
1 5 0.14
2 31 0.86
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1036574 original size:148 final size:145
Alignment explanation
Indices: 1036302--1036595 Score: 498
Period size: 148 Copynumber: 2.0 Consensus size: 145
1036292 AGTTATCATT
*
1036302 AAGACAGCAAGCATAATAAGAATCAAAGAGACTAAAGAAAGGTCCACTAAGTTTCCATAGCAAGG
1 AAGACAGCAAGCATAACAAGAATCAAAGAGACTAAAGAAAGGTCCACTAAGTTTCCATAGCAAGG
* *
1036367 CTAACAAATCTATACAGGATGTTAACAAGCAAGAGTTCAGTACCATTATGACCATACTAACAACA
66 CTAACAAATCTATACAGGATGTTAACAAGCAAGAATTCAGTACCATTATGACCAAACTAACAACA
*
1036432 AAATAGGAAAGACCA
131 AAATAGCAAAGACCA
*
1036447 AAGACAGCAAGCATAACAAGAATCAAAGAGACTTAAAGAAAGGTCCCCTAAGTTTCCATAGCAAG
1 AAGACAGCAAGCATAACAAGAATCAAAGAGAC-TAAAGAAAGGTCCACTAAGTTTCCATAGCAAG
* *
1036512 GCTAAACAAATCTATACGGGGATGTTAACAAGCAAGAATTCAGTACCATTATGGCCAAACTAACA
65 GCT-AACAAATCTATAC-AGGATGTTAACAAGCAAGAATTCAGTACCATTATGACCAAACTAACA
1036577 ACAAAATAGCAAAGACCA
128 ACAAAATAGCAAAGACCA
1036595 A
1 A
1036596 TTTTCAAGAA
Statistics
Matches: 139, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
145 31 0.22
146 34 0.24
147 13 0.09
148 61 0.44
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (145 bp):
AAGACAGCAAGCATAACAAGAATCAAAGAGACTAAAGAAAGGTCCACTAAGTTTCCATAGCAAGG
CTAACAAATCTATACAGGATGTTAACAAGCAAGAATTCAGTACCATTATGACCAAACTAACAACA
AAATAGCAAAGACCA
Found at i:1045528 original size:18 final size:17
Alignment explanation
Indices: 1045496--1045540 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
1045486 TTGTCTAAAC
*
1045496 AAAAAAAAAAC-AAAAG
1 AAAAAAAGAACAAAAAG
1045512 ACAAAAAAGAACGAAAAAG
1 A-AAAAAAGAAC-AAAAAG
1045531 AAAAAAAGAA
1 AAAAAAAGAA
1045541 AAAGCGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 9 0.36
19 6 0.24
ACGTcount: A:0.82, C:0.07, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAACAAAAAG
Found at i:1045535 original size:7 final size:8
Alignment explanation
Indices: 1045496--1045543 Score: 53
Period size: 8 Copynumber: 5.6 Consensus size: 8
1045486 TTGTCTAAAC
1045496 AAAAAAA-
1 AAAAAAAG
1045503 AAACAAAAG
1 AAA-AAAAG
1045512 ACAAAAAAG
1 A-AAAAAAG
1045521 AACGAAAAAG
1 AA--AAAAAG
1045531 AAAAAAAG
1 AAAAAAAG
1045539 AAAAA
1 AAAAA
1045544 GCGTTTTTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 3 0.08
8 16 0.44
9 7 0.19
10 10 0.28
ACGTcount: A:0.83, C:0.06, G:0.10, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1049311 original size:40 final size:40
Alignment explanation
Indices: 1049256--1049358 Score: 129
Period size: 38 Copynumber: 2.6 Consensus size: 40
1049246 ACCCAGCTCA
* *
1049256 TGTGCATCCCCCCACATCGTGCACATAGCCGGAGTCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCATCG
* * *
1049296 TGTGCATCCTCCCACATCGTG--CATAGTCAGTGCCATCG
1 TGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCATCG
* *
1049334 TGTACATCCCCCCACATCATGCACA
1 TGTGCATCCCCCCACATCGTGCACA
1049359 CGAGCACTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
38 31 0.58
40 22 0.42
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.22
Consensus pattern (40 bp):
TGTGCATCCCCCCACATCGTGCACATAGCCAGAGCCATCG
Found at i:1050276 original size:19 final size:19
Alignment explanation
Indices: 1050234--1050277 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1050224 AGGAAGAAGA
* *
1050234 AGAAGAAGCTGCTGGAAAT
1 AGAAGAAGCTACTGGAAAG
*
1050253 TGAAGAAGCTACTGGAAAG
1 AGAAGAAGCTACTGGAAAG
1050272 AGAAGA
1 AGAAGA
1050278 CATTTATAGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.45, C:0.09, G:0.32, T:0.14
Consensus pattern (19 bp):
AGAAGAAGCTACTGGAAAG
Found at i:1052047 original size:136 final size:132
Alignment explanation
Indices: 1051785--1052053 Score: 486
Period size: 136 Copynumber: 2.0 Consensus size: 132
1051775 GGGATTTGAA
1051785 TTGTTTATTCTAATTTGTTCTTAATGCTTTTAATTGTCTAATCACCAATTAAATTGATTTAGGAA
1 TTGTTTATTCTAATTTGTTCTTAATGCTTTTAATTGTCTAATCACCAATTAAATTGATTTAGGAA
1051850 CCTAAACAAACTTGGGAAAAGGAGTTTAGTGTATACTAAAATTGAGATAGCATATGATCATATTA
66 CCTAAACAAACTTGGGAAAAGGAGTTTAGTGTATACTAAAATTGAGATAGCATATGATCATATTA
1051915 AT
131 AT
1051917 NTTGTTTATTCTTAATTTGTTACTTAATG-TCTTTAATTGTCTAATCACCAATTAAAGTTGATTT
1 -TTGTTTATTC-TAATTTGTT-CTTAATGCT-TTTAATTGTCTAATCACCAATTAAA-TTGATTT
1051981 AGGAACCTAAACAAACTTGGGAAAAGGAGTTTAGTGTATACTAAAATTGAGATAGCATATGATCA
61 AGGAACCTAAACAAACTTGGGAAAAGGAGTTTAGTGTATACTAAAATTGAGATAGCATATGATCA
1052046 TATTAAT
126 TATTAAT
1052053 T
1 T
1052054 GATTTGCGTA
Statistics
Matches: 132, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
133 10 0.08
134 10 0.08
135 33 0.25
136 79 0.60
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.39
Consensus pattern (132 bp):
TTGTTTATTCTAATTTGTTCTTAATGCTTTTAATTGTCTAATCACCAATTAAATTGATTTAGGAA
CCTAAACAAACTTGGGAAAAGGAGTTTAGTGTATACTAAAATTGAGATAGCATATGATCATATTA
AT
Found at i:1058566 original size:5 final size:5
Alignment explanation
Indices: 1058558--1058582 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1058548 TTTAAGCTCA
1058558 GCTTT GCTTT GCTTT GCTTT GCTTT
1 GCTTT GCTTT GCTTT GCTTT GCTTT
1058583 TCCCTTTACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.20, T:0.60
Consensus pattern (5 bp):
GCTTT
Found at i:1067444 original size:2 final size:2
Alignment explanation
Indices: 1067437--1067468 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1067427 TTCAGTTTAT
1067437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1067469 GGTTTAGCAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1069769 original size:26 final size:26
Alignment explanation
Indices: 1069736--1069866 Score: 106
Period size: 26 Copynumber: 5.1 Consensus size: 26
1069726 TTTTAATTAA
*
1069736 GGAT-ATTTTATCACCAGAAGTTGAT
1 GGATAATTTTACCACCAGAAGTTGAT
* *
1069761 GGATAATTTTACCATCAGAA-TCT-AA
1 GGATAATTTTACCACCAGAAGT-TGAT
* ** * *
1069786 GAATAATTTTGTCACAAGAAGTGGAT
1 GGATAATTTTACCACCAGAAGTTGAT
** * *
1069812 AAATAATTTTACCACTAGAAGTGGAT
1 GGATAATTTTACCACCAGAAGTTGAT
* *
1069838 GGACAATTTTACCACTAGAAGTTGAT
1 GGATAATTTTACCACCAGAAGTTGAT
1069864 GGA
1 GGA
1069867 CACCTTAACC
Statistics
Matches: 84, Mismatches: 18, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
25 21 0.25
26 63 0.75
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.31
Consensus pattern (26 bp):
GGATAATTTTACCACCAGAAGTTGAT
Found at i:1069950 original size:28 final size:28
Alignment explanation
Indices: 1069902--1069977 Score: 77
Period size: 28 Copynumber: 2.7 Consensus size: 28
1069892 AATGAATCAC
*
1069902 CCACCAAAAGTAGAT-AGATACTTGT-AA-
1 CCACAAAAAGTAGATGA-ATACTT-TCAAT
1069929 CCTACAAAAAGTAGATGAATACTTTCAAT
1 CC-ACAAAAAGTAGATGAATACTTTCAAT
* *
1069958 CCACTAAAAGTGGATGAATA
1 CCACAAAAAGTAGATGAATA
1069978 ATGAAAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
27 3 0.07
28 36 0.86
29 3 0.07
ACGTcount: A:0.45, C:0.17, G:0.14, T:0.24
Consensus pattern (28 bp):
CCACAAAAAGTAGATGAATACTTTCAAT
Found at i:1070380 original size:24 final size:22
Alignment explanation
Indices: 1070320--1070381 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 22
1070310 TATTATGAAA
*
1070320 ATGTTTTAA-TATGTTTTCATT
1 ATGTTTTAATTATGTTCTCATT
*
1070341 ATATTTTAATGATATGTTCTCATT
1 ATGTTTTAAT--TATGTTCTCATT
1070365 ATGTGTTTTAATTATGT
1 A--TGTTTTAATTATGT
1070382 ATTTTTGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 8 0.24
24 17 0.52
26 8 0.24
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.58
Consensus pattern (22 bp):
ATGTTTTAATTATGTTCTCATT
Found at i:1074856 original size:19 final size:19
Alignment explanation
Indices: 1074818--1074863 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
1074808 TACACTCTTC
1074818 TCTTTTGTTTTCTTTACTT
1 TCTTTTGTTTTCTTTACTT
* *
1074837 TTTTTTGTCTTTC-TTCCTT
1 TCTTTTGT-TTTCTTTACTT
1074856 TCTTTTGT
1 TCTTTTGT
1074864 ATGGCCGGCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.02, C:0.17, G:0.07, T:0.74
Consensus pattern (19 bp):
TCTTTTGTTTTCTTTACTT
Found at i:1085791 original size:5 final size:5
Alignment explanation
Indices: 1085783--1085815 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
1085773 ACCTAACCTG
1085783 ACTTA ACTTA AC-TA ACTTA ACTTA ACTTA ACTT
1 ACTTA ACTTA ACTTA ACTTA ACTTA ACTTA ACTT
1085816 GGGCCACGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (5 bp):
ACTTA
Found at i:1085802 original size:14 final size:15
Alignment explanation
Indices: 1085783--1085815 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1085773 ACCTAACCTG
1085783 ACTTAACTTAAC-TA
1 ACTTAACTTAACTTA
1085797 ACTTAACTTAACTTA
1 ACTTAACTTAACTTA
1085812 ACTT
1 ACTT
1085816 GGGCCACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (15 bp):
ACTTAACTTAACTTA
Found at i:1085870 original size:15 final size:15
Alignment explanation
Indices: 1085850--1085895 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1085840 TTCTTAAAAC
1085850 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
1085865 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
* *
1085880 AGCTTTAAAATCAAA
1 AACTTTAAAACCAAA
1085895 A
1 A
1085896 TCTCTAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 1 0.04
15 24 0.89
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:1087322 original size:13 final size:13
Alignment explanation
Indices: 1087304--1087328 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1087294 TTTCAGAAAA
1087304 TTTATAAAATCAT
1 TTTATAAAATCAT
1087317 TTTATAAAATCA
1 TTTATAAAATCA
1087329 CAATTTTTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:1091793 original size:19 final size:19
Alignment explanation
Indices: 1091769--1091806 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1091759 CTGCCAAACC
* *
1091769 CTCAAATTATACTCTAATA
1 CTCAAATCATACTCCAATA
1091788 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
1091807 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:1092916 original size:67 final size:67
Alignment explanation
Indices: 1092844--1093016 Score: 233
Period size: 67 Copynumber: 2.6 Consensus size: 67
1092834 TTAGTTGTTG
* * * *
1092844 GGTTTTGGTTGATCCCGTGAAAAACCATTATTG-TAGGTTGTGGTCGAGCCTTCGAAAAATCACT
1 GGTTTTGGTTGATCCCGTGAAAAACCATT-GTGAAAGGTTGTGGTCGAACCTTCGAAAAACCACT
1092908 TTA
65 TTA
* * *
1092911 GGTTTTGGTTGAGCCCGTGAAAAACCATTGTGAAAGGTTGTGGTTGAACCTTTGAAAAACCACTT
1 GGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTCGAACCTTCGAAAAACCACTT
*
1092976 TG
66 TA
*
1092978 GGTTTTGGTTGATCCCG-GTAAAAAACATTGTGAAAGGTT
1 GGTTTTGGTTGATCCCGTG-AAAAACCATTGTGAAAGGTT
1093017 TTGGCTAAGC
Statistics
Matches: 94, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
66 3 0.03
67 91 0.97
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.33
Consensus pattern (67 bp):
GGTTTTGGTTGATCCCGTGAAAAACCATTGTGAAAGGTTGTGGTCGAACCTTCGAAAAACCACTT
TA
Found at i:1092933 original size:32 final size:33
Alignment explanation
Indices: 1092844--1093003 Score: 112
Period size: 35 Copynumber: 4.8 Consensus size: 33
1092834 TTAGTTGTTG
* *
1092844 GGTTTTGGTTGATCCCGTGAAAAACCATTATTGTA
1 GGTTTTGGTTGAGCCCGTGAAAAACCA--CTTGTA
* * * *
1092879 GGTTGTGGTCGAG-CCTTCGAAAAATCACTT-TA
1 GGTTTTGGTTGAGCCCGT-GAAAAACCACTTGTA
1092911 GGTTTTGGTTGAGCCCGTGAAAAACCA-TTGTGAAA
1 GGTTTTGGTTGAGCCCGTGAAAAACCACTTGT---A
* * ** *
1092946 GGTTGTGGTTGAACCTTTGAAAAACCACTT-TG
1 GGTTTTGGTTGAGCCCGTGAAAAACCACTTGTA
* *
1092978 GGTTTTGGTTGATCCCGGTAAAAAAC
1 GGTTTTGGTTGAGCCC-GTGAAAAAC
1093004 ATTGTGAAAG
Statistics
Matches: 97, Mismatches: 20, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
31 2 0.02
32 35 0.36
33 12 0.12
34 3 0.03
35 43 0.44
36 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (33 bp):
GGTTTTGGTTGAGCCCGTGAAAAACCACTTGTA
Found at i:1094981 original size:44 final size:44
Alignment explanation
Indices: 1094885--1095110 Score: 251
Period size: 44 Copynumber: 5.2 Consensus size: 44
1094875 TTCAAAAATA
* * * * * *
1094885 AAGCTCCTTATCTAGAAGAAGGCTATGCAAC-TTAAA-AGGAAA
1 AAGCTCCTCATCTGGAATAAGGCTACGTAACTTTAAATAGGAAG
*
1094927 AAGCTCCTCATCTGGAATAAGGCTACATAACTTTAAATAGGAAG
1 AAGCTCCTCATCTGGAATAAGGCTACGTAACTTTAAATAGGAAG
* * * *
1094971 AAGTTCCTCATCTGGAACAAGGTTACGTAACTTTAAATAAGAAG
1 AAGCTCCTCATCTGGAATAAGGCTACGTAACTTTAAATAGGAAG
* * * * *
1095015 AAGCTCCTCATCTAGAATGAGGCTACGTAATTTTAAA-AGAAAT
1 AAGCTCCTCATCTGGAATAAGGCTACGTAACTTTAAATAGGAAG
** * *
1095058 AAGCTGGTCATTTGGAATAAGGCTACGTAACTTTAAATAGGAAT
1 AAGCTCCTCATCTGGAATAAGGCTACGTAACTTTAAATAGGAAG
1095102 AAGCTCCTC
1 AAGCTCCTC
1095111 GTCTTAAATG
Statistics
Matches: 151, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.17
43 39 0.26
44 87 0.58
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (44 bp):
AAGCTCCTCATCTGGAATAAGGCTACGTAACTTTAAATAGGAAG
Found at i:1095106 original size:87 final size:88
Alignment explanation
Indices: 1094885--1095110 Score: 251
Period size: 87 Copynumber: 2.6 Consensus size: 88
1094875 TTCAAAAATA
* * * * * *
1094885 AAGCTCCTTATCTAGAAGAAGGCTATGCAAC-TTAAA-AGGAAAAAGCTCCTCATCTGGAATAAG
1 AAGCTCCTCATCTGGAACAAGGCTACGTAACTTTAAATAGGAAAAAGCTCCTCATCTAGAATAAG
*
1094948 GCTACATAACTTTAAATAGGAAG
66 GCTACATAACTTTAAATAGAAAG
* * * * *
1094971 AAGTTCCTCATCTGGAACAAGGTTACGTAACTTTAAATAAGAAGAAGCTCCTCATCTAGAATGAG
1 AAGCTCCTCATCTGGAACAAGGCTACGTAACTTTAAATAGGAAAAAGCTCCTCATCTAGAATAAG
* * *
1095036 GCTACGTAATTTTAAA-AGAAAT
66 GCTACATAACTTTAAATAGAAAG
** * * *
1095058 AAGCTGGTCATTTGGAATAAGGCTACGTAACTTTAAATAGGAATAAGCTCCTC
1 AAGCTCCTCATCTGGAACAAGGCTACGTAACTTTAAATAGGAAAAAGCTCCTC
1095111 GTCTTAAATG
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
86 24 0.21
87 54 0.47
88 37 0.32
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (88 bp):
AAGCTCCTCATCTGGAACAAGGCTACGTAACTTTAAATAGGAAAAAGCTCCTCATCTAGAATAAG
GCTACATAACTTTAAATAGAAAG
Found at i:1095128 original size:131 final size:131
Alignment explanation
Indices: 1094885--1095184 Score: 338
Period size: 131 Copynumber: 2.3 Consensus size: 131
1094875 TTCAAAAATA
* * *
1094885 AAGCTCCTTATCTAGAA-GAAGGCTATGCAACTTAAAAGGAAAAAGCTCCTCATCTGGAATAAGG
1 AAGCTCCTCATCTAGAATG-AGGCTATGTAATTTAAAAGGAAAAAGCTCCTCATCTGGAATAAGG
* * *
1094949 CTACATAACTTTAAATAGGAAGAAGTTCCTCATCTGGAACAAGGTTACGTAACTTTAAA-TAAGA
65 CTACATAACTTTAAATAGGAAGAAGCTCCTCATCTGAAACAAGGTTACGTAACTTTAAAGAAAGA
1095013 AG
130 AG
* ** *
1095015 AAGCTCCTCATCTAGAATGAGGCTACGTAATTTTAAAA-GAAATAAGCTGGTCATTTGGAATAAG
1 AAGCTCCTCATCTAGAATGAGGCTATGTAA-TTTAAAAGGAAA-AAGCTCCTCATCTGGAATAAG
* * * * * *
1095079 GCTACGTAACTTTAAATAGGAATAAGCTCCTCGTCTTAAATGAA-TTTACGTAACTTTAAAGAAA
64 GCTACATAACTTTAAATAGGAAGAAGCTCCTCATCTGAAA-CAAGGTTACGTAACTTTAAAGAAA
*
1095143 GAAT
128 GAAG
* * * *
1095147 AACCTCTTCATCTTGAATGAAGCTATGTAACTTTAAAA
1 AAGCTCCTCATCTAGAATGAGGCTATGTAA-TTTAAAA
1095185 ATGAATTAGC
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
130 29 0.20
131 74 0.52
132 39 0.27
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (131 bp):
AAGCTCCTCATCTAGAATGAGGCTATGTAATTTAAAAGGAAAAAGCTCCTCATCTGGAATAAGGC
TACATAACTTTAAATAGGAAGAAGCTCCTCATCTGAAACAAGGTTACGTAACTTTAAAGAAAGAA
G
Found at i:1095129 original size:87 final size:86
Alignment explanation
Indices: 1094927--1095142 Score: 220
Period size: 87 Copynumber: 2.5 Consensus size: 86
1094917 TAAAAGGAAA
* * * * * **
1094927 AAGCTCCTCATCTGGAAT-AAGGCTACATAACTTTAAATAGGAAGAAGTTCCTCATCTGGAACAA
1 AAGCTCCTCATCTAGAATGAA-GCTACGTAACTTT-AA-AGAAATAAGCTGGTCATCTGGAACAA
*
1094991 GGTTACGTAACTTTAAATAAGAAG
63 GGCTACGTAACTTTAAATAAGAAG
* * * *
1095015 AAGCTCCTCATCTAGAATGAGGCTACGTAATTTTAAAAGAAATAAGCTGGTCATTTGGAATAAGG
1 AAGCTCCTCATCTAGAATGAAGCTACGTAACTTT-AAAGAAATAAGCTGGTCATCTGGAACAAGG
* *
1095080 CTACGTAACTTTAAATAGGAAT
65 CTACGTAACTTTAAATAAGAAG
* **
1095102 AAGCTCCTCGTCTTA-AATGAATTTACGTAACTTTAAAGAAA
1 AAGCTCCTCATC-TAGAATGAAGCTACGTAACTTTAAAGAAA
1095143 GAATAACCTC
Statistics
Matches: 107, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
86 7 0.07
87 66 0.62
88 33 0.31
89 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (86 bp):
AAGCTCCTCATCTAGAATGAAGCTACGTAACTTTAAAGAAATAAGCTGGTCATCTGGAACAAGGC
TACGTAACTTTAAATAAGAAG
Found at i:1095167 original size:45 final size:44
Alignment explanation
Indices: 1094994--1095190 Score: 150
Period size: 44 Copynumber: 4.5 Consensus size: 44
1094984 GGAACAAGGT
* * * *
1094994 TACGTAACTTTAAATAAGAAGAAGCTCCTCATC-TAGAATGAGGC
1 TACGTAACTTTAAAAAAGAATAACCTCCTCATCTTA-AATGAAGC
* * * ** *
1095038 TACGTAATTTTAAAAGA-AATAAGCTGGTCAT-TTGGAAT-AAGGC
1 TACGTAACTTTAAAAAAGAATAACCTCCTCATCTT-AAATGAA-GC
* * * * **
1095081 TACGTAACTTTAAATAGGAATAAGCTCCTCGTCTTAAATGAATT
1 TACGTAACTTTAAAAAAGAATAACCTCCTCATCTTAAATGAAGC
* *
1095125 TACGTAACTTTAAAGAAAGAATAACCTCTTCATCTTGAATGAAGC
1 TACGTAACTTTAAA-AAAGAATAACCTCCTCATCTTAAATGAAGC
* *
1095170 TATGTAACTTTAAAAATGAAT
1 TACGTAACTTTAAAAAAGAAT
1095191 TAGCATGTCA
Statistics
Matches: 118, Mismatches: 28, Indels: 14
0.74 0.17 0.09
Matches are distributed among these distances:
42 1 0.01
43 30 0.25
44 48 0.41
45 39 0.33
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (44 bp):
TACGTAACTTTAAAAAAGAATAACCTCCTCATCTTAAATGAAGC
Found at i:1102542 original size:23 final size:24
Alignment explanation
Indices: 1102505--1102550 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
1102495 TCTTGGGTCG
* *
1102505 TTGCTGTCTATTTTTTTTTTTTTT
1 TTGCTGTCTACTTTTTCTTTTTTT
1102529 TTGCT-TCTACTTTTTCTTTTTT
1 TTGCTGTCTACTTTTTCTTTTTT
1102551 CATCATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (24 bp):
TTGCTGTCTACTTTTTCTTTTTTT
Found at i:1102542 original size:24 final size:24
Alignment explanation
Indices: 1102505--1102550 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
1102495 TCTTGGGTCG
*
1102505 TTGCTGTCTATTTTTTTTTTTTTT
1 TTGCTGTCTATTTTTCTTTTTTTT
1102529 TTGCT-TCTACTTTTTCTTTTTT
1 TTGCTGTCTA-TTTTTCTTTTTT
1102551 CATCATTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.04, C:0.13, G:0.07, T:0.76
Consensus pattern (24 bp):
TTGCTGTCTATTTTTCTTTTTTTT
Found at i:1105991 original size:39 final size:39
Alignment explanation
Indices: 1105948--1106025 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
1105938 CAAATGCTTC
1105948 TAAGAAAAACTACAAAAGTCTCCTCAACAAAGTACCTTA
1 TAAGAAAAACTACAAAAGTCTCCTCAACAAAGTACCTTA
1105987 TAAGAAAAACTACAAAAGTCTCCTCAACAAAGTACCTTA
1 TAAGAAAAACTACAAAAGTCTCCTCAACAAAGTACCTTA
1106026 CTTCTATAGT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.21
Consensus pattern (39 bp):
TAAGAAAAACTACAAAAGTCTCCTCAACAAAGTACCTTA
Found at i:1107425 original size:21 final size:21
Alignment explanation
Indices: 1107356--1107423 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
1107346 AGATATTTCT
1107356 TTTAAATTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
* * ** * **
1107377 TTCAAATGTAATTAATTTTTA
1 TTTAAATTTAAACAAATTAAA
*
1107398 TTTAAGTTTAAACAAATTAAA
1 TTTAAATTTAAACAAATTAAA
1107419 TTTAA
1 TTTAA
1107424 GTATAATTGA
Statistics
Matches: 32, Mismatches: 15, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (21 bp):
TTTAAATTTAAACAAATTAAA
Found at i:1108035 original size:17 final size:18
Alignment explanation
Indices: 1107986--1108036 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 18
1107976 TATATAAGTC
* *
1107986 TTAAAAAAAAATAAAAAT
1 TTAAAATAAAATAATAAT
*
1108004 TTAAAATTAAA-AATAAT
1 TTAAAATAAAATAATAAT
*
1108021 TT-ATATAAAATAATAA
1 TTAAAATAAAATAATAA
1108037 AAAAAAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
16 6 0.22
17 12 0.44
18 9 0.33
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
TTAAAATAAAATAATAAT
Done.