Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 26 of 167
Found at i:7552632 original size:3 final size:3
Alignment explanation
Indices: 7552624--7552665 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
7552614 ACTTTCTGCA
7552624 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7552666 NNNNNNNNNN
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:7564025 original size:49 final size:50
Alignment explanation
Indices: 7563958--7564204 Score: 282
Period size: 49 Copynumber: 5.0 Consensus size: 50
7563948 AGCTATTGTG
* *
7563958 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
7564008 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * * *
7564058 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
7564108 AGGTCACGTGTGTAGTACTAAGTGCAAGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
7564158 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACAATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
7564205 CTTCGGCTAC
Statistics
Matches: 162, Mismatches: 33, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
49 79 0.49
50 46 0.28
51 37 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:7567756 original size:26 final size:26
Alignment explanation
Indices: 7567720--7567770 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
7567710 CTTGACTCAA
7567720 GTTCATCACTTCGAAGGAATTATATT
1 GTTCATCACTTCGAAGGAATTATATT
7567746 GTTCATCACTTCGAAGGAATTATAT
1 GTTCATCACTTCGAAGGAATTATAT
7567771 ATCCAGTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (26 bp):
GTTCATCACTTCGAAGGAATTATATT
Found at i:7568071 original size:21 final size:22
Alignment explanation
Indices: 7568038--7568080 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
7568028 ACACTATCCC
*
7568038 TTTAAAAATATT-ATTTTTTTG
1 TTTAAAAATATTAATATTTTTG
7568059 TTTAACAAA-ATTAATATTTTTG
1 TTTAA-AAATATTAATATTTTTG
7568081 AAGCTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (22 bp):
TTTAAAAATATTAATATTTTTG
Found at i:7569445 original size:21 final size:21
Alignment explanation
Indices: 7569407--7569455 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
7569397 TCTAAACTTG
7569407 ATTTGA-TTAATTCGAATTTAT
1 ATTTGATTTAATTCGAATTT-T
*
7569428 ATTTGATTTAATT-TAATTTT
1 ATTTGATTTAATTCGAATTTT
*
7569448 ATTAGATT
1 ATTTGATT
7569456 GGTATGTTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 8 0.32
21 11 0.44
22 6 0.24
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (21 bp):
ATTTGATTTAATTCGAATTTT
Found at i:7575881 original size:37 final size:36
Alignment explanation
Indices: 7575838--7575910 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
7575828 ATTTAACAAG
*
7575838 CAAATGTCTATA-AATATTAGCAAA-ATTAACAATAAAA
1 CAAATGT-TATACAATATT--CAAACATTAACAACAAAA
7575875 CAAATGTTATACAATATTCAAACATTAACAACAAAA
1 CAAATGTTATACAATATTCAAACATTAACAACAAAA
7575911 TGGTAGCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
35 4 0.12
36 16 0.48
37 13 0.39
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.26
Consensus pattern (36 bp):
CAAATGTTATACAATATTCAAACATTAACAACAAAA
Found at i:7576367 original size:20 final size:22
Alignment explanation
Indices: 7576344--7576388 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
7576334 TAATCATTAC
*
7576344 AAAATACAA-TTAAATA-AATA
1 AAAATAAAATTTAAATATAATA
*
7576364 AAAATAAAATTTATATATAATA
1 AAAATAAAATTTAAATATAATA
7576386 AAA
1 AAA
7576389 CTCAAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 6 0.29
22 7 0.33
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAATAAAATTTAAATATAATA
Found at i:7583118 original size:19 final size:20
Alignment explanation
Indices: 7583086--7583123 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
7583076 ATAGATGTAA
*
7583086 AAAAATTACGTATTCAAAAT
1 AAAAATTACATATTCAAAAT
*
7583106 AAAAA-TACATATTTAAAA
1 AAAAATTACATATTCAAAA
7583124 GTAACATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATTACATATTCAAAAT
Found at i:7583215 original size:44 final size:44
Alignment explanation
Indices: 7583166--7583301 Score: 263
Period size: 44 Copynumber: 3.1 Consensus size: 44
7583156 TTTATATTAC
7583166 TTAATAATAACACATGAAATATGTATAGTATTAAAATAAATAAA
1 TTAATAATAACACATGAAATATGTATAGTATTAAAATAAATAAA
7583210 TTAATAATAACACATGAAATATGTATAGTATTAAAATAAATAAA
1 TTAATAATAACACATGAAATATGTATAGTATTAAAATAAATAAA
*
7583254 TTAATAATAACACATGAAATATGTATAATATTAAAATAAATAAA
1 TTAATAATAACACATGAAATATGTATAGTATTAAAATAAATAAA
7583298 TTAA
1 TTAA
7583302 ATTATGAATA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 91 1.00
ACGTcount: A:0.57, C:0.04, G:0.06, T:0.32
Consensus pattern (44 bp):
TTAATAATAACACATGAAATATGTATAGTATTAAAATAAATAAA
Found at i:7588387 original size:5 final size:5
Alignment explanation
Indices: 7588374--7588407 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
7588364 ATTAAAAAGA
*
7588374 TAATT TAATC TAA-T TAATT TAATT TAATT TAATT
1 TAATT TAATT TAATT TAATT TAATT TAATT TAATT
7588408 CGATGCATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 23 0.88
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (5 bp):
TAATT
Found at i:7588393 original size:14 final size:15
Alignment explanation
Indices: 7588374--7588407 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7588364 ATTAAAAAGA
7588374 TAATTTAATCTAA-T
1 TAATTTAATCTAATT
*
7588388 TAATTTAATTTAATT
1 TAATTTAATCTAATT
7588403 TAATT
1 TAATT
7588408 CGATGCATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TAATTTAATCTAATT
Found at i:7591054 original size:127 final size:127
Alignment explanation
Indices: 7590828--7591084 Score: 340
Period size: 127 Copynumber: 2.0 Consensus size: 127
7590818 AGAGAATTTC
* * *
7590828 GTTCTTTGTTTCGAAGGAGTTTTCTTATGGGGTTTTGAGTTTTTTTTTAATCCTCTTCATCTTTT
1 GTTCTTTGTTTCAAAGGAGTTTTCTTATGGGGTTTCGAGTTTTTTTTTAATCCTCTTCATATTTT
* * *
7590893 GTACTCTAATTTATTATAGCAAAATCTCCTTTTGTCCGTAGTTTTTTATCCTCTTTTAAGGA
66 GTACTCTAATTGATTATAGCAAAATCTCCTTTTGTCCGTAGTTTCTTATCCTCTATTAAGGA
* *
7590955 GTTCTTTGTTTCAAAGG-GTTTTTCTTGT-GGGTTTCGAGTTTTTCTTTTAATTCTC-TCTATAT
1 GTTCTTTGTTTCAAAGGAG-TTTTCTTATGGGGTTTCGAGTTTTT-TTTTAATCCTCTTC-ATAT
* ** * * *
7591017 TTTGTACTCTCATTGATTATAGTGAAATCTCCTTTTGTCTGTAGTTTCTTATCTTCTATTGAGGA
63 TTTGTACTCTAATTGATTATAGCAAAATCTCCTTTTGTCCGTAGTTTCTTATCCTCTATTAAGGA
7591082 GTT
1 GTT
7591085 TTTCCATTTT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
126 17 0.15
127 96 0.85
ACGTcount: A:0.17, C:0.14, G:0.16, T:0.53
Consensus pattern (127 bp):
GTTCTTTGTTTCAAAGGAGTTTTCTTATGGGGTTTCGAGTTTTTTTTTAATCCTCTTCATATTTT
GTACTCTAATTGATTATAGCAAAATCTCCTTTTGTCCGTAGTTTCTTATCCTCTATTAAGGA
Found at i:7597666 original size:6 final size:6
Alignment explanation
Indices: 7597655--7597705 Score: 102
Period size: 6 Copynumber: 8.5 Consensus size: 6
7597645 AGTAAAAAAG
7597655 GCACAT GCACAT GCACAT GCACAT GCACAT GCACAT GCACAT GCACAT
1 GCACAT GCACAT GCACAT GCACAT GCACAT GCACAT GCACAT GCACAT
7597703 GCA
1 GCA
7597706 ATTGTGTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (6 bp):
GCACAT
Found at i:7621947 original size:19 final size:19
Alignment explanation
Indices: 7621906--7621947 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
7621896 ATTTGAGGGA
*
7621906 TGTTAAATTCGACTTTCTC
1 TGTTAAATTCGACTCTCTC
* *
7621925 TGTTGAATTCGACTCTCTT
1 TGTTAAATTCGACTCTCTC
7621944 TGTT
1 TGTT
7621948 TTAAAATTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (19 bp):
TGTTAAATTCGACTCTCTC
Found at i:7630204 original size:23 final size:23
Alignment explanation
Indices: 7630122--7630208 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
7630112 CCTGATCAGT
*
7630122 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
7630144 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
7630164 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
7630187 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
7630209 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:7630599 original size:14 final size:14
Alignment explanation
Indices: 7630580--7630628 Score: 73
Period size: 14 Copynumber: 3.4 Consensus size: 14
7630570 CATATATATT
7630580 ATATAATTCAATCA
1 ATATAATTCAATCA
7630594 ATATAAATTCAATCA
1 ATAT-AATTCAATCA
7630609 A-ATAATTTCAATCA
1 ATATAA-TTCAATCA
7630623 ATATAA
1 ATATAA
7630629 ATCCAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.06
14 15 0.47
15 15 0.47
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
ATATAATTCAATCA
Found at i:7630604 original size:15 final size:15
Alignment explanation
Indices: 7630579--7630635 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
7630569 TCATATATAT
7630579 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
7630595 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
7630610 -ATAATTTCAATCAA
1 TATAAATTCAATCAA
*
7630624 TATAAATCCAAT
1 TATAAATTCAAT
7630636 AAATTCATCG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.35
15 20 0.54
16 4 0.11
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:7630620 original size:29 final size:27
Alignment explanation
Indices: 7630582--7630639 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 27
7630572 TATATATTAT
*
7630582 ATAATTCAATCAATATAAATTCAATCAA
1 ATAATTCAATCAATATAAATCCAAT-AA
7630610 ATAATTTCAATCAATATAAATCCAATAA
1 ATAA-TTCAATCAATATAAATCCAATAA
7630638 AT
1 AT
7630640 TCATCGCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 8 0.29
29 20 0.71
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (27 bp):
ATAATTCAATCAATATAAATCCAATAA
Found at i:7631899 original size:20 final size:21
Alignment explanation
Indices: 7631876--7631918 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
7631866 TTTCCTGCTA
* *
7631876 TTCTGTTTCTTTCCTTTA-TT
1 TTCTGTTTATTTACTTTACTT
*
7631896 TTCTTTTTATTTACTTTACTT
1 TTCTGTTTATTTACTTTACTT
7631917 TT
1 TT
7631919 AATAATAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.72
Consensus pattern (21 bp):
TTCTGTTTATTTACTTTACTT
Found at i:7632937 original size:14 final size:15
Alignment explanation
Indices: 7632907--7632937 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7632897 AGGGTCCGTT
7632907 TGTTTTCCAGTAAAA
1 TGTTTTCCAGTAAAA
7632922 TGTTTTCCAG-AAAA
1 TGTTTTCCAGTAAAA
7632936 TG
1 TG
7632938 ATTTACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.39
Consensus pattern (15 bp):
TGTTTTCCAGTAAAA
Found at i:7633082 original size:22 final size:22
Alignment explanation
Indices: 7633050--7633091 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
7633040 TTATTTTTAC
7633050 ATATATAAATAAATTTATATAT
1 ATATATAAATAAATTTATATAT
*
7633072 ATATATTAATAAATTTATAT
1 ATATATAAATAAATTTATAT
7633092 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATATATAAATAAATTTATATAT
Found at i:7633387 original size:29 final size:29
Alignment explanation
Indices: 7633354--7633413 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
7633344 AATAACAACA
7633354 ACATTGTCCAAGTGCATAACTAATATTAC
1 ACATTGTCCAAGTGCATAACTAATATTAC
7633383 ACATTGTCCAAGTGCATAACTAATATTAC
1 ACATTGTCCAAGTGCATAACTAATATTAC
7633412 AC
1 AC
7633414 CACATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (29 bp):
ACATTGTCCAAGTGCATAACTAATATTAC
Found at i:7634442 original size:7 final size:7
Alignment explanation
Indices: 7634430--7634458 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
7634420 GTGGATTTTT
7634430 TTGAATA
1 TTGAATA
7634437 TTGAATA
1 TTGAATA
7634444 TTGAATA
1 TTGAATA
7634451 TTGAATA
1 TTGAATA
7634458 T
1 T
7634459 AGAGCATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (7 bp):
TTGAATA
Found at i:7642811 original size:6 final size:6
Alignment explanation
Indices: 7642802--7642839 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
7642792 CCTGACTATG
* *
7642802 ACTGTT ACTGTT ACTGTT ACTCTT ATTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
7642840 CCTACGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.13, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:7645077 original size:21 final size:22
Alignment explanation
Indices: 7645028--7645077 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
7645018 TGGACTTAAT
* *
7645028 TATTTTAAATTTTAAAATTAAA
1 TATTTTAAATTGTAAAATAAAA
*
7645050 TACTTTAAATTGTAAAA-AAAA
1 TATTTTAAATTGTAAAATAAAA
7645071 TATTTTA
1 TATTTTA
7645078 TTATGTTAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (22 bp):
TATTTTAAATTGTAAAATAAAA
Found at i:7647445 original size:3 final size:3
Alignment explanation
Indices: 7647437--7648265 Score: 1658
Period size: 3 Copynumber: 276.3 Consensus size: 3
7647427 TAAAGCATAA
7647437 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647485 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647533 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647581 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647629 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647677 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647725 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647773 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647821 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647869 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647917 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7647965 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7648013 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7648061 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7648109 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7648157 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7648205 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
7648253 AAG AAG AAG AAG A
1 AAG AAG AAG AAG A
7648266 TTCTTCAACA
Statistics
Matches: 826, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 826 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7648305 original size:17 final size:17
Alignment explanation
Indices: 7648280--7648316 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
7648270 TCAACAGATT
*
7648280 GATGTAAAATCCAAACA
1 GATGCAAAATCCAAACA
*
7648297 GATGCAAAATCCAAATA
1 GATGCAAAATCCAAACA
7648314 GAT
1 GAT
7648317 TCTTTAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.51, C:0.16, G:0.14, T:0.19
Consensus pattern (17 bp):
GATGCAAAATCCAAACA
Found at i:7650715 original size:20 final size:20
Alignment explanation
Indices: 7650690--7650728 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7650680 AGTCACAGTA
7650690 GTCGACACATATAGTGTCTC
1 GTCGACACATATAGTGTCTC
*
7650710 GTCGACAGATATAGTGTCT
1 GTCGACACATATAGTGTCT
7650729 TATGGACACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (20 bp):
GTCGACACATATAGTGTCTC
Found at i:7650736 original size:20 final size:20
Alignment explanation
Indices: 7650691--7650738 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7650681 GTCACAGTAG
*
7650691 TCGACACATATAGTGTCTCG
1 TCGACACATATAGTGTCTCA
* *
7650711 TCGACAGATATAGTGTCTTA
1 TCGACACATATAGTGTCTCA
*
7650731 TGGACACA
1 TCGACACA
7650739 CAGTTGAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (20 bp):
TCGACACATATAGTGTCTCA
Found at i:7654025 original size:33 final size:33
Alignment explanation
Indices: 7653966--7654028 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
7653956 ATGCTATGAG
* *
7653966 CTCCCTTCAACTCTTGCAAGCTGATATCGCGAA
1 CTCCCTTCAACTCCTGCAAGCCGATATCGCGAA
**
7653999 CTCCCTTCAACTCCTGTGAGCCGATATCGC
1 CTCCCTTCAACTCCTGCAAGCCGATATCGC
7654029 AAGCTTCCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.27
Consensus pattern (33 bp):
CTCCCTTCAACTCCTGCAAGCCGATATCGCGAA
Found at i:7655913 original size:24 final size:24
Alignment explanation
Indices: 7655881--7655934 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7655871 CGCTAGGGAA
* *
7655881 CTAGCTACTGAAAACAGTGGTGAG
1 CTAGCTACTGAAAACAATGGTAAG
*
7655905 CTAGTTACTGAAAACAATGGTAAG
1 CTAGCTACTGAAAACAATGGTAAG
7655929 CTAGCT
1 CTAGCT
7655935 CTGTGTCACC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (24 bp):
CTAGCTACTGAAAACAATGGTAAG
Found at i:7657190 original size:140 final size:140
Alignment explanation
Indices: 7656979--7657762 Score: 562
Period size: 140 Copynumber: 5.6 Consensus size: 140
7656969 TCAGGTTGTA
* * * * * *
7656979 CTAACTGTTTTGGAGGCTGTGGTGTTGAACCTATGAGCCTTAAGATCACAAG-TAGGAG-CTTGA
1 CTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATCA-TAGCTGGGAGCCTT-A
* * * * *
7657042 GCTCTCGCTAAC-AGTTTTAGAGGCTGCGACATTGATCCTGCAAACCTTAAGATCACAGCTGAGA
64 ACTCTCGCTAACTAGTTTTAGAGGCTACGATATTGAGCCTGCAAGCCTTAAGATCACAGCTGAGA
*
7657106 GCTTGAGCTCTCG
129 GCTT-AGCTCTTG
** *
7657119 CTAACTATTTTAGAGGCTACGGTATTGAACCTACGAGCCTTAAGATCATAGTTGGGAGCCTTAAC
1 CTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATCATAGCTGGGAGCCTTAAC
* * * * *
7657184 TCTCGCTAACT-GTTTTAGAGGATAC-AGTATTGAGCCTGCGAGCCTTAAGATCAAAACTAAGAG
66 TCTCGCTAACTAGTTTTAGAGGCTACGA-TATTGAGCCTGCAAGCCTTAAGATCACAGCTGAGAG
7657247 CCTTAGCTCTTG
130 -CTTAGCTCTTG
* * * * * * * * * *
7657259 TTAACTATTTTTCA-AGGTTGCGATATTGAACCTGCTAGCATTAATATCGTAGCTGAGAGCCTTA
1 CTAACTA-TTTT-AGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATCATAGCTGGGAGCCTTA
* ** * * * ** * *
7657323 ACCCTCATTAACTATTTTTGGAGGCTAGGATATTGAGCCTGCGGGCCTTAAGATTACAGCTGGGA
64 ACTCTCGCTAACTAGTTTTAGAGGCTACGATATTGAGCCTGCAAGCCTTAAGATCACAGCTGAGA
*
7657388 GCTTAGCTCTAG
129 GCTTAGCTCTTG
* * * * * * *
7657400 CTAACTATTTTAGAGGCTATGGTGTTGAACTTACAAGCCTTAATA-CTATAGCTGGGAGCTTTAG
1 CTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATC-ATAGCTGGGAGCCTTAA
* * * * * * * ** * *
7657464 CTTTCGTTAACTATTTTTGGGGGCTACGGTATTAAAACTGCAAGCCCTAAGATCACAGCTTAGAG
65 CTCTCGCTAACTAGTTTTAGAGGCTACGATATTGAGCCTGCAAGCCTTAAGATCACAGCTGAGAG
*
7657529 CTTGAACTCTTG
130 CTT-AGCTCTTG
* * * ** **
7657541 CTAACTTTTTTAGAGGCTGTGGTATTAAACCTGCGAGCCTTAAGATCATAATTGGGAGCCTTAGT
1 CTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATCATAGCTGGGAGCCTTAAC
* * ** * * * * * *
7657606 TCTTCG-TATCTA-TTTTAGAGGATGTGGTATTGAACCTGCGAGCCTTAAGATAACA-ATGGGAG
66 TC-TCGCTAACTAGTTTTAGAGGCTACGATATTGAGCCTGCAAGCCTTAAGATCACAGCTGAGAG
*
7657668 CCTTAGCTCTAG
130 -CTTAGCTCTTG
* * * * * * * ** * * *
7657680 TTAAATGTTTTTGGGGGCTGTGGTATTAAACATGTGAGCCTTAAGATTACAGCTGGGAGCCTTAG
1 CTAACT-ATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATCATAGCTGGGAGCCTTAA
* *
7657745 CTTTCGCTAACTATTTTT
65 CTCTCGCTAACTAGTTTT
7657763 TTTAGAGGAT
Statistics
Matches: 509, Mismatches: 117, Indels: 35
0.77 0.18 0.05
Matches are distributed among these distances:
139 22 0.04
140 298 0.59
141 143 0.28
142 45 0.09
143 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (140 bp):
CTAACTATTTTAGAGGCTGTGGTATTGAACCTACGAGCCTTAAGATCATAGCTGGGAGCCTTAAC
TCTCGCTAACTAGTTTTAGAGGCTACGATATTGAGCCTGCAAGCCTTAAGATCACAGCTGAGAGC
TTAGCTCTTG
Found at i:7657384 original size:71 final size:71
Alignment explanation
Indices: 7657003--7657762 Score: 409
Period size: 70 Copynumber: 10.8 Consensus size: 71
7656993 GGCTGTGGTG
** * *
7657003 TTGAACCTATGAGCCTTAAGATCACAAG-T-AGGAG-CTTGAGCTCTCGCTAAC-AGTTTTAGAG
1 TTGAACCTGCGAGCCTTAAGATCAC-AGCTGA-GAGCCTT-AACTCTCGCTAACTATTTTTAGAG
*
7657064 GCT-GCGACA
63 GCTAG-GATA
* * * *
7657073 TTGATCCTGCAAACCTTAAGATCACAGCTGAGAG-CTTGAGCTCTCGCTAACTA-TTTTAGAGGC
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTT-AACTCTCGCTAACTATTTTTAGAGGC
7657136 TACGG-TA
65 TA-GGATA
* * * * * *
7657143 TTGAACCTACGAGCCTTAAGATCATAGTTGGGAGCCTTAACTCTCGCTAACT-GTTTTAGAGGAT
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTTAGAGGCT
*
7657207 A-CAGTA
66 AGGA-TA
* * * * * * *
7657213 TTGAGCCTGCGAGCCTTAAGATCAAAACTAAGAGCCTTAGCTCTTGTTAACTATTTTTCA-AGG-
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTT-AGAGGC
*
7657276 TTGCGATA
65 TAG-GATA
* * * ** * ** *
7657284 TTGAACCTGCTAGCATTAATATCGTAGCTGAGAGCCTTAACCCTCATTAACTATTTTTGGAGGCT
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTTAGAGGCT
7657349 AGGATA
66 AGGATA
* * * * * *
7657355 TTGAGCCTGCGGGCCTTAAGATTACAGCTGGGAG-CTTAGCTCTAGCTAACTA-TTTTAGAGGCT
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTTAGAGGCT
*
7657418 ATGG-TG
66 A-GGATA
* * * * * * * * * * * *
7657424 TTGAACTTACAAGCCTTAATA-CTATAGCTGGGAGCTTTAGCTTTCGTTAACTATTTTTGGGGGC
1 TTGAACCTGCGAGCCTTAAGATC-ACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTTAGAGGC
7657488 TACGG-TA
65 TA-GGATA
* * * * * *
7657495 TTAAAACTGCAAGCCCTAAGATCACAGCTTAGAG-CTTGAACTCTTGCTAACT-TTTTTAGAGGC
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTT-AACTCTCGCTAACTATTTTTAGAGGC
*
7657558 T-GTGGTA
65 TAG-GATA
* * ** * ** * *
7657565 TTAAACCTGCGAGCCTTAAGATCATAATTGGGAGCCTTAGTTCTTCG-TATCTA-TTTTAGAGGA
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTC-TCGCTAACTATTTTTAGAGGC
*
7657628 T-GTGGTA
65 TAG-GATA
* * * * * * * * * *
7657635 TTGAACCTGCGAGCCTTAAGATAACA-ATGGGAGCCTTAGCTCTAGTTAAATGTTTTTGGGGGCT
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTTAGAGGCT
*
7657699 -GTGGTA
66 AG-GATA
* * * * * * *
7657705 TTAAACATGTGAGCCTTAAGATTACAGCTGGGAGCCTTAGCTTTCGCTAACTATTTTT
1 TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTT
7657763 TTTAGAGGAT
Statistics
Matches: 535, Mismatches: 126, Indels: 57
0.75 0.18 0.08
Matches are distributed among these distances:
68 3 0.01
69 57 0.11
70 300 0.56
71 169 0.32
72 6 0.01
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (71 bp):
TTGAACCTGCGAGCCTTAAGATCACAGCTGAGAGCCTTAACTCTCGCTAACTATTTTTAGAGGCT
AGGATA
Found at i:7663070 original size:26 final size:26
Alignment explanation
Indices: 7662999--7663109 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
7662989 AGCATGGCTG
*
7662999 CCAGAACAGATAATGTGAG-AGAGTCA
1 CCAGAACAGATAATGTG-GCAGAGCCA
7663025 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
7663053 CC-GAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
7663079 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
7663106 CCAG
1 CCAG
7663110 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 4, Indels: 9
0.85 0.04 0.10
Matches are distributed among these distances:
26 26 0.34
27 39 0.51
28 11 0.14
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:7663089 original size:53 final size:53
Alignment explanation
Indices: 7663002--7663107 Score: 144
Period size: 53 Copynumber: 2.0 Consensus size: 53
7662992 ATGGCTGCCA
*
7663002 GAACAGATAATGTGAGAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACC
1 GAACAGATAATGTGAGAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
* * *
7663055 GAACAGATATATGTG-GCAGAGCCACCAGAT-CAGATATTTGTGGCATAGCCACC
1 GAACAGATA-ATGTGAG-AGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
7663108 AGGACGCTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
53 30 0.64
54 17 0.36
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (53 bp):
GAACAGATAATGTGAGAGAGCCACCAGATACAGATAATCGTGGCAGAGCCACC
Found at i:7668305 original size:22 final size:22
Alignment explanation
Indices: 7668278--7668321 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7668268 AAAAATGACC
*
7668278 AAAATTAATCAAAATTTATTAT
1 AAAATTAATCAAAATTCATTAT
*
7668300 AAAATTAATTAAAATTCATTAT
1 AAAATTAATCAAAATTCATTAT
7668322 GTTAATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATTAATCAAAATTCATTAT
Found at i:7670487 original size:38 final size:38
Alignment explanation
Indices: 7670431--7670525 Score: 163
Period size: 38 Copynumber: 2.5 Consensus size: 38
7670421 AATCTGGTTC
* *
7670431 CAATCGATCTGCAGCATACATTTCATGTCTTCTTTTTG
1 CAATCAATCTGCAACATACATTTCATGTCTTCTTTTTG
7670469 CAATCAATCTGCAACATACATTTCATGTCTTCTTTTTG
1 CAATCAATCTGCAACATACATTTCATGTCTTCTTTTTG
*
7670507 CAATCAATCTGCATCATAC
1 CAATCAATCTGCAACATAC
7670526 TGTTAGTTCA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.26, C:0.25, G:0.09, T:0.39
Consensus pattern (38 bp):
CAATCAATCTGCAACATACATTTCATGTCTTCTTTTTG
Found at i:7674453 original size:19 final size:19
Alignment explanation
Indices: 7674429--7674468 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
7674419 CTGCCTTCAA
7674429 TATTCCTCAAATTTCGACT
1 TATTCCTCAAATTTCGACT
7674448 TATTCCTCAAATTTCGACT
1 TATTCCTCAAATTTCGACT
7674467 TA
1 TA
7674469 GGCATTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.25, G:0.05, T:0.42
Consensus pattern (19 bp):
TATTCCTCAAATTTCGACT
Found at i:7675478 original size:21 final size:21
Alignment explanation
Indices: 7675452--7675491 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
7675442 GAACATTGCC
7675452 TCCCCCCCCCCCCCCCCAATG
1 TCCCCCCCCCCCCCCCCAATG
7675473 TCCCCCCCCCCCCCCCCAA
1 TCCCCCCCCCCCCCCCCAA
7675492 AATTAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.10, C:0.80, G:0.03, T:0.07
Consensus pattern (21 bp):
TCCCCCCCCCCCCCCCCAATG
Found at i:7681316 original size:27 final size:27
Alignment explanation
Indices: 7681285--7681340 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
7681275 GTATGCCTCC
*
7681285 AAGGCATTCCATTCAAAATTTGCCACA
1 AAGGCATTCCATTCAAAATTCGCCACA
* * * *
7681312 AAGGCTTTCCTTTCAGAGTTCGCCACA
1 AAGGCATTCCATTCAAAATTCGCCACA
7681339 AA
1 AA
7681341 TGCTATTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (27 bp):
AAGGCATTCCATTCAAAATTCGCCACA
Found at i:7681371 original size:26 final size:26
Alignment explanation
Indices: 7681306--7681373 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
7681296 TTCAAAATTT
7681306 GCCACAAAGGCT-TTCCTTTCAGAGTTC
1 GCCACAAAGGCTATT--TTTCAGAGTTC
*
7681333 GCCACAAATGCTATTTTTCAGAGTTC
1 GCCACAAAGGCTATTTTTCAGAGTTC
* *
7681359 GCCATAGAGGCTATT
1 GCCACAAAGGCTATT
7681374 CTTAGTTGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 23 0.64
27 11 0.31
28 2 0.06
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (26 bp):
GCCACAAAGGCTATTTTTCAGAGTTC
Found at i:7683714 original size:23 final size:23
Alignment explanation
Indices: 7683687--7683749 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
7683677 GTGAGTAAGA
* *
7683687 ATGCAAATGATAGTGGCACTATG
1 ATGCAAGTGATAGTGGCACTACG
* *
7683710 GTGCAAGTGAAAGTGGCACTACG
1 ATGCAAGTGATAGTGGCACTACG
7683733 ATGCAAGTG-TAGTGGCA
1 ATGCAAGTGATAGTGGCA
7683750 TTTCAGTGCA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
22 7 0.21
23 27 0.79
ACGTcount: A:0.32, C:0.14, G:0.32, T:0.22
Consensus pattern (23 bp):
ATGCAAGTGATAGTGGCACTACG
Found at i:7683975 original size:22 final size:23
Alignment explanation
Indices: 7683950--7683995 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7683940 CAACTAAATC
7683950 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7683972 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
7683995 A
1 A
7683996 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7684001 original size:23 final size:23
Alignment explanation
Indices: 7683957--7684001 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7683947 ATCAATTCAA
*
7683957 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
7683980 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
7684002 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:7690146 original size:22 final size:23
Alignment explanation
Indices: 7690121--7690166 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
7690111 TCAACAAATC
7690121 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
7690143 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
7690166 A
1 A
7690167 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:7690172 original size:23 final size:23
Alignment explanation
Indices: 7690128--7690172 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
7690118 ATCAATTCAA
*
7690128 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
7690151 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
7690173 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:7704632 original size:28 final size:28
Alignment explanation
Indices: 7704601--7704664 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
7704591 CAGGGTTCAG
* *
7704601 GGTTT-GGAATCCTAGGTCCAAGGTCTAT
1 GGTTTAGG-ATCCAAGGTCCAAGATCTAT
*
7704629 GGTTTAGGGTCCAAGGTCCAAGATCTAT
1 GGTTTAGGATCCAAGGTCCAAGATCTAT
7704657 GGTTTAGG
1 GGTTTAGG
7704665 GTTCAAGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (28 bp):
GGTTTAGGATCCAAGGTCCAAGATCTAT
Found at i:7704665 original size:28 final size:28
Alignment explanation
Indices: 7704614--7704671 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
7704604 TTGGAATCCT
*
7704614 AGGTCCAAGGTCTATGGTTTAGGGTCCA
1 AGGTCCAAGATCTATGGTTTAGGGTCCA
*
7704642 AGGTCCAAGATCTATGGTTTAGGGTTCA
1 AGGTCCAAGATCTATGGTTTAGGGTCCA
7704670 AG
1 AG
7704672 TTAAAAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (28 bp):
AGGTCCAAGATCTATGGTTTAGGGTCCA
Found at i:7706636 original size:22 final size:20
Alignment explanation
Indices: 7706604--7706643 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
7706594 CAAAAAATAA
7706604 AAAATATTAAATATTAAATT
1 AAAATATTAAATATTAAATT
7706624 AAAATAGTATAAATATTAAA
1 AAAATA-T-TAAATATTAAA
7706644 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 1 0.06
22 11 0.61
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (20 bp):
AAAATATTAAATATTAAATT
Found at i:7706647 original size:20 final size:18
Alignment explanation
Indices: 7706602--7706649 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 18
7706592 TTCAAAAAAT
7706602 AAAAAATATTAAATATTA
1 AAAAAATATTAAATATTA
7706620 AATTAAAATAGTATAAATATTA
1 AA--AAAATA-T-TAAATATTA
7706642 AAAAAATA
1 AAAAAATA
7706650 AAAAACAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 2 0.08
20 12 0.46
21 1 0.04
22 11 0.42
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAAATATTAAATATTA
Found at i:7707203 original size:2 final size:2
Alignment explanation
Indices: 7707198--7707319 Score: 244
Period size: 2 Copynumber: 61.0 Consensus size: 2
7707188 AGTGTATATA
7707198 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7707240 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7707282 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
7707320 AAGGGAGAAA
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 120 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:7708269 original size:49 final size:49
Alignment explanation
Indices: 7708194--7708288 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
7708184 AAACACGAGA
7708194 TTATGTTGTATAAGACCATAGCTGGGCTATAACAACATATGAAGTCCGC
1 TTATGTTGTATAAGACCATAGCTGGGCTATAACAACATATGAAGTCCGC
* * ***
7708243 TTATGTTGTGTAAGACCATAGTTGGGCTATGGTAACATATGAAGTC
1 TTATGTTGTATAAGACCATAGCTGGGCTATAACAACATATGAAGTC
7708289 TGTTAGGACA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.32
Consensus pattern (49 bp):
TTATGTTGTATAAGACCATAGCTGGGCTATAACAACATATGAAGTCCGC
Found at i:7716197 original size:9 final size:9
Alignment explanation
Indices: 7716185--7716220 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
7716175 AGTACAACAA
7716185 AAATAAAAT
1 AAATAAAAT
7716194 AAATAAAAT
1 AAATAAAAT
7716203 AAAT-AAAT
1 AAATAAAAT
7716211 AAATAAAAT
1 AAATAAAAT
7716220 A
1 A
7716221 GCCTATCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.31
9 18 0.69
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAAAT
Found at i:7716208 original size:13 final size:13
Alignment explanation
Indices: 7716185--7716220 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7716175 AGTACAACAA
7716185 AAATAAAATAAAT
1 AAATAAAATAAAT
7716198 AAA-ATAAATAAAT
1 AAATA-AAATAAAT
7716211 AAATAAAATA
1 AAATAAAATA
7716221 GCCTATCAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 1 0.05
13 19 0.90
14 1 0.05
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:7725695 original size:18 final size:18
Alignment explanation
Indices: 7725668--7725702 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
7725658 GTGCATTCGT
7725668 TAATCCGAAAGGCATAAC
1 TAATCCGAAAGGCATAAC
*
7725686 TAATCTGAAAGGCATAA
1 TAATCCGAAAGGCATAA
7725703 ATAAAAACTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (18 bp):
TAATCCGAAAGGCATAAC
Found at i:7729706 original size:44 final size:42
Alignment explanation
Indices: 7729563--7729712 Score: 132
Period size: 44 Copynumber: 3.6 Consensus size: 42
7729553 TCGTACAATG
* * *
7729563 CCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACGTCCCAAACGTGGTCTTACATGAAATCAAATA-CGATA
* *
7729606 CC-ACTGTCTC--A-G-GGTCTTACATGAAATCAAATACGATT
1 CCAAC-GTCCCAAACGTGGTCTTACATGAAATCAAATACGATA
*
7729644 CCAACGTCCCAAACGTGGTCTTACATGTAAATCATAAGT-GGATA
1 CCAACGTCCCAAACGTGGTCTTACATG-AAATCA-AA-TACGATA
* * *
7729688 CCAATGTCCCAGATGTGGTCTTACA
1 CCAACGTCCCAAACGTGGTCTTACA
7729713 CCAAAACACA
Statistics
Matches: 89, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
38 10 0.11
39 22 0.25
40 2 0.02
41 2 0.02
42 13 0.15
43 12 0.13
44 27 0.30
45 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.27
Consensus pattern (42 bp):
CCAACGTCCCAAACGTGGTCTTACATGAAATCAAATACGATA
Found at i:7730328 original size:27 final size:27
Alignment explanation
Indices: 7730291--7730346 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
7730281 TTCAAAGACA
7730291 AAACTTAATAAAGCTCATATTATCATC
1 AAACTTAATAAAGCTCATATTATCATC
*
7730318 AAACTTCATAAAGCTCATATTATCATC
1 AAACTTAATAAAGCTCATATTATCATC
7730345 AA
1 AA
7730347 TAGCTCAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.45, C:0.20, G:0.04, T:0.32
Consensus pattern (27 bp):
AAACTTAATAAAGCTCATATTATCATC
Found at i:7734524 original size:46 final size:46
Alignment explanation
Indices: 7734436--7734710 Score: 336
Period size: 46 Copynumber: 6.0 Consensus size: 46
7734426 TTATCTTCGA
* * * * * *
7734436 CATGATGCCATAGTATCTTTCAACTAAGGTTTTACTCGTTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTC-ATTTCATGT
* * **
7734482 CATGTTGCCATGGTATCTTTCAACCATGATCTTATTCATTTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* *
7734529 CATGTTGCCATGGTATGTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
7734575 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
7734621 CATGTTTCCATGGTATCTTTCAACTATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
7734667 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
7734711 TTCAGAGAGC
Statistics
Matches: 203, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
46 165 0.81
47 38 0.19
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:7737848 original size:104 final size:104
Alignment explanation
Indices: 7737668--7738196 Score: 826
Period size: 104 Copynumber: 5.1 Consensus size: 104
7737658 TGTTGTAAAT
* * *
7737668 TTAGAGGCTTCAAGATTTTCTTGTAAGTAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
7737733 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTAAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
7737772 TTAGAGGTTTAAAAATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
7737837 TTTTGATTCATCATTTTCGCTTAAACTTGAATATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * *
7737876 TTAGAGGTTTCAAGATTTTCACGTAAACAAGGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
7737941 TTTTGATTCATCATTTTCGCTTAAACTTGAATATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* *
7737980 TTAGAGGTTTCAAGATTTTCATGTAAACAAGGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
*
7738045 TTTTGATTCATCATTTTCACTTAAACTTGAGTATTTAAC
66 TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
* * * * *
7738084 TTAGAGGTTTCAAGATTTTTATGTAAATAATTAATCAAAGCTCTTACATTGTAGCAGGAGTTTGT
1 TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
* * * *
7738149 TTTTGA-TCTGTAATTTTCGCATAAACTCGAGTATTTAAC
66 TTTTGATTC-ATCATTTTCGCTTAAACTTGAGTATTTAAC
*
7738188 TTAGTGGTT
1 TTAGAGGTT
7738197 GGTGCCTGAT
Statistics
Matches: 396, Mismatches: 28, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
103 2 0.01
104 394 0.99
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (104 bp):
TTAGAGGTTTCAAGATTTTCATGTAAATAATGAATCAAAGCTCTTACATTGTAGAATGAGTTTGA
TTTTGATTCATCATTTTCGCTTAAACTTGAGTATTTAAC
Found at i:7740242 original size:91 final size:91
Alignment explanation
Indices: 7740104--7740311 Score: 344
Period size: 91 Copynumber: 2.3 Consensus size: 91
7740094 TTGATTTTAG
* *
7740104 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
7740169 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
7740196 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
7740261 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
*
7740287 CAAATTCATATAAGAAAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
7740312 GTTATAATTA
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
91 93 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:7740280 original size:26 final size:28
Alignment explanation
Indices: 7740226--7740286 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
7740216 TATTATCAAG
* *
7740226 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
7740254 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
7740280 AATTATA
1 AATTATA
7740287 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:7740286 original size:44 final size:43
Alignment explanation
Indices: 7740144--7740286 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
7740134 GAATTTTATG
* *
7740144 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
7740188 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
7740235 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
7740279 AAATTATA
1 AAATTATA
7740287 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:7740580 original size:18 final size:18
Alignment explanation
Indices: 7740548--7740591 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
7740538 AACCTTCAAT
7740548 TTTTCCTTTTCTTCTTTC
1 TTTTCCTTTTCTTCTTTC
7740566 TTTTCTCTTTT-TTCTTTC
1 TTTTC-CTTTTCTTCTTTC
7740584 -TTTCCTTT
1 TTTTCCTTT
7740592 CCCTGCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 4 0.16
17 4 0.16
18 12 0.48
19 5 0.20
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTCCTTTTCTTCTTTC
Found at i:7740839 original size:17 final size:17
Alignment explanation
Indices: 7740794--7740839 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
7740784 ATATAAAATC
7740794 TTATAAAATAAT-TATT
1 TTATAAAATAATATATT
* *
7740810 TAAT-TAATAAATATATT
1 TTATAAAAT-AATATATT
7740827 TTATAAAATAATA
1 TTATAAAATAATA
7740840 AATATTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 5
0.72 0.12 0.16
Matches are distributed among these distances:
15 3 0.13
16 6 0.26
17 11 0.48
18 3 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
TTATAAAATAATATATT
Found at i:7749838 original size:18 final size:18
Alignment explanation
Indices: 7749815--7749851 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
7749805 CTTTACTTCT
*
7749815 TGCAATTTTATTTTTTTA
1 TGCAATTTTATTTTATTA
7749833 TGCAATTTTATTTTATTA
1 TGCAATTTTATTTTATTA
7749851 T
1 T
7749852 TTTACAAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.65
Consensus pattern (18 bp):
TGCAATTTTATTTTATTA
Found at i:7760228 original size:42 final size:42
Alignment explanation
Indices: 7760138--7760277 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 42
7760128 GTCCCGGATG
* * * * *
7760138 TGGTCTTACATGTAATTCAATATCGATGCCTCTGTCTCAGATA
1 TGGTCTTACACGTAAATCAATA-CGATGCCTATGTCCCAGACA
* *
7760181 GGGTCTTACACG-AAATCAGATACGATGCCAATGTCCCAGACA
1 TGGTCTTACACGTAAATCA-ATACGATGCCTATGTCCCAGACA
* *
7760223 TGGTCTTATACGTAAACCTCAAT-CGAGGCCTATGTCCCAGACA
1 TGGTCTTACACGTAAA--TCAATACGATGCCTATGTCCCAGACA
*
7760266 CGGTCTTACACG
1 TGGTCTTACACG
7760278 ATATCTCAGA
Statistics
Matches: 80, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
42 31 0.39
43 44 0.55
44 2 0.03
45 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (42 bp):
TGGTCTTACACGTAAATCAATACGATGCCTATGTCCCAGACA
Found at i:7764420 original size:20 final size:20
Alignment explanation
Indices: 7764395--7764466 Score: 65
Period size: 20 Copynumber: 3.4 Consensus size: 20
7764385 TTTCCAAAAA
7764395 TAATATTATTTTAATATATT
1 TAATATTATTTTAATATATT
*
7764415 TAATATTTATCTTATACATAAATAT
1 TAATA-TTAT-TT-TA-ATATAT-T
* *
7764440 T-CTATTAATTTAATATATT
1 TAATATTATTTTAATATATT
7764459 TAATATTA
1 TAATATTA
7764467 AATTTAATTT
Statistics
Matches: 41, Mismatches: 5, Indels: 12
0.71 0.09 0.21
Matches are distributed among these distances:
19 2 0.05
20 15 0.37
21 6 0.15
22 4 0.10
23 5 0.12
24 7 0.17
25 2 0.05
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
TAATATTATTTTAATATATT
Found at i:7764456 original size:26 final size:25
Alignment explanation
Indices: 7764427--7764504 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 25
7764417 ATATTTATCT
*
7764427 TATACATAAATATTCTATTAATTTAA
1 TATA-ATAAATATTATATTAATTTAA
* * *
7764453 TATATTTAATATTAAATTTAATTT-A
1 TATAATAAATATTATA-TTAATTTAA
*
7764478 -ATAATAAGTATTATATTAATTTAA
1 TATAATAAATATTATATTAATTTAA
7764502 TAT
1 TAT
7764505 TAAAATGATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
23 7 0.17
24 12 0.29
25 11 0.27
26 11 0.27
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (25 bp):
TATAATAAATATTATATTAATTTAA
Found at i:7766386 original size:41 final size:41
Alignment explanation
Indices: 7766326--7766456 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 41
7766316 ACACAGAGCA
*
7766326 CGCTAAAAATGGAGCAATATCGGCGTTTTTTGTTAAAACGC
1 CGCTAAAAATAGAGCAATATCGGCGTTTTTTGTTAAAACGC
* * * *
7766367 CGCTAAAAATAGAGAAATATCTGCATTTTTT-TGTAAATCGC
1 CGCTAAAAATAGAGCAATATCGGCGTTTTTTGT-TAAAACGC
* * * * * *
7766408 TGCTAAAAACCAGAGCATTAGCGGCGCTTTTAG-TAAAACGC
1 CGCTAAAAA-TAGAGCAATATCGGCGTTTTTTGTTAAAACGC
7766449 CGCTAAAA
1 CGCTAAAA
7766457 GTCATATAAC
Statistics
Matches: 71, Mismatches: 16, Indels: 6
0.76 0.17 0.06
Matches are distributed among these distances:
40 1 0.01
41 56 0.79
42 14 0.20
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.27
Consensus pattern (41 bp):
CGCTAAAAATAGAGCAATATCGGCGTTTTTTGTTAAAACGC
Found at i:7773416 original size:9 final size:9
Alignment explanation
Indices: 7773402--7773568 Score: 127
Period size: 9 Copynumber: 17.6 Consensus size: 9
7773392 ATGTATTAGT
7773402 TAAGTTATG
1 TAAGTTATG
7773411 TAAGTTGTTATG
1 TAA---GTTATG
*
7773423 TACGTTATG
1 TAAGTTATG
*
7773432 TGAGTTATG
1 TAAGTTATG
*
7773441 TAAATTATG
1 TAAGTTATG
7773450 TAAGTTATG
1 TAAGTTATG
*
7773459 TGAGTTATG
1 TAAGTTATG
7773468 TAAGTTGTTATG
1 TAA---GTTATG
*
7773480 TAAATTATG
1 TAAGTTATG
7773489 TAAGTTATG
1 TAAGTTATG
**
7773498 CGAGTTATG
1 TAAGTTATG
7773507 TAAGTTGTTATG
1 TAA---GTTATG
* *
7773519 TAAATTGTG
1 TAAGTTATG
*
7773528 TAAGTTATA
1 TAAGTTATG
* *
7773537 TGAGTTATA
1 TAAGTTATG
7773546 TAAGTTATG
1 TAAGTTATG
* *
7773555 TAATTTATT
1 TAAGTTATG
7773564 TAAGT
1 TAAGT
7773569 AATGATCAAT
Statistics
Matches: 124, Mismatches: 25, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
9 98 0.79
12 26 0.21
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:7773478 original size:48 final size:44
Alignment explanation
Indices: 7773417--7773556 Score: 156
Period size: 39 Copynumber: 3.4 Consensus size: 44
7773407 TATGTAAGTT
*
7773417 GTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTGA
1 GTTATGTAAGTTATGT-AGTTATGTAAATTATGTAAGTTATGTGA
*
7773462 GTTATGTAAG---T-T-GTTATGTAAATTATGTAAGTTATGCGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
* *
7773501 GTTATGTAAG---T-T-GTTATGTAAATTGTGTAAGTTATATGA
1 GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
*
7773540 GTTATATAAGTTATGTA
1 GTTATGTAAGTTATGTA
7773557 ATTTATTTAA
Statistics
Matches: 84, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
39 71 0.85
41 1 0.01
42 2 0.02
43 1 0.01
45 9 0.11
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (44 bp):
GTTATGTAAGTTATGTAGTTATGTAAATTATGTAAGTTATGTGA
Found at i:7773495 original size:57 final size:57
Alignment explanation
Indices: 7773404--7773512 Score: 164
Period size: 57 Copynumber: 1.9 Consensus size: 57
7773394 GTATTAGTTA
** * *
7773404 AGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATGTG
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGCAAATTATGTAAGTTATGTG
* *
7773461 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGCGAGTTATGTAAGTT
1 AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGCAAATTATGTAAGTT
7773513 GTTATGTAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 46 1.00
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.45
Consensus pattern (57 bp):
AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATGCAAATTATGTAAGTTATGTG
Found at i:7773534 original size:39 final size:39
Alignment explanation
Indices: 7773435--7773551 Score: 198
Period size: 39 Copynumber: 3.0 Consensus size: 39
7773425 CGTTATGTGA
7773435 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
*
7773474 GTTATGTAAATTATGTAAGTTATGCGAGTTATGTAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
* * *
7773513 GTTATGTAAATTGTGTAAGTTATATGAGTTATATAAGTT
1 GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
7773552 ATGTAATTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 73 1.00
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (39 bp):
GTTATGTAAATTATGTAAGTTATGTGAGTTATGTAAGTT
Found at i:7773557 original size:48 final size:48
Alignment explanation
Indices: 7773402--7773557 Score: 156
Period size: 48 Copynumber: 3.2 Consensus size: 48
7773392 ATGTATTAGT
* * * *
7773402 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTGTGTAAGTTATGTAAGTTATG
* *
7773450 TAAGTTATGT--G-AGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAGTTG---TGTAAGTTATGTAAGTTATG
** * * * *
7773498 CGAGTTATGTAAGTTGTTATGTAAATTGTGTAAGTTATATGAGTTATA
1 TAAGTTATGTAAGTTGTTATGTAAGTTGTGTAAGTTATGTAAGTTATG
7773546 TAAGTTATGTAA
1 TAAGTTATGTAA
7773558 TTTATTTAAG
Statistics
Matches: 86, Mismatches: 16, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
45 11 0.13
46 1 0.01
48 61 0.71
50 1 0.01
51 12 0.14
ACGTcount: A:0.31, C:0.01, G:0.22, T:0.45
Consensus pattern (48 bp):
TAAGTTATGTAAGTTGTTATGTAAGTTGTGTAAGTTATGTAAGTTATG
Found at i:7774172 original size:241 final size:241
Alignment explanation
Indices: 7773749--7774235 Score: 902
Period size: 241 Copynumber: 2.0 Consensus size: 241
7773739 TTAAGGTTAT
** *
7773749 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAATTTTTTAAGAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAAAATTTTAAAAT
*
7773814 TCATCATACGTGGCGTTGTTACACCTAGAGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCATTGTTACACCTAGAGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
*
7773879 ACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
7773944 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
* *
7773990 ATAAATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTGAAAATTTTAAAAT
1 ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAAAATTTTAAAAT
*
7774055 TCATCATACGTGGCATTGTTACACCTAGCGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
66 TCATCATACGTGGCATTGTTACACCTAGAGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
7774120 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
131 ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
7774185 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
196 GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
7774231 ATAAA
1 ATAAA
7774236 ATTAATTCAT
Statistics
Matches: 238, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
241 238 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (241 bp):
ATAAATATTCAATAGTAAATGAGATCGATAGAACTTTTTCCAAGTCTTTTTGAAAATTTTAAAAT
TCATCATACGTGGCATTGTTACACCTAGAGAGGATCCATTATATCTTACAGCTCGATATAAGGCA
ACCCGTCAAGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGTTGGAGAGAA
GGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTA
Found at i:7774394 original size:23 final size:23
Alignment explanation
Indices: 7774368--7774417 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
7774358 GTTCAAGTTT
*
7774368 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAAGGCTGCAATTCATAC
7774391 ATTTAAAAGGCTGCAATTCATAC
1 ATTTAAAAGGCTGCAATTCATAC
7774414 ATTT
1 ATTT
7774418 GATTAATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.16, G:0.14, T:0.34
Consensus pattern (23 bp):
ATTTAAAAGGCTGCAATTCATAC
Found at i:7778669 original size:3 final size:3
Alignment explanation
Indices: 7778663--7778688 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
7778653 TTTTTCTCTT
7778663 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
7778689 TACTATTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:7779072 original size:21 final size:21
Alignment explanation
Indices: 7779034--7779077 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
7779024 GGTACTTTTG
*
7779034 GATTTAGGGTTAT-GGTTTAA
1 GATTTAGGGTTATAGTTTTAA
*
7779054 GATTTAAGGTTTATAGTTTTAA
1 GATTT-AGGGTTATAGTTTTAA
7779076 GA
1 GA
7779078 CGTTTTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 7 0.35
22 8 0.40
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
GATTTAGGGTTATAGTTTTAA
Found at i:7780008 original size:40 final size:40
Alignment explanation
Indices: 7779964--7780047 Score: 107
Period size: 40 Copynumber: 2.1 Consensus size: 40
7779954 CTATAGGTCA
* * *
7779964 ATCTTTTGCGGCGC-TTCCTAAAAAACGCCGCTAATTCTCG
1 ATCTTTAGCGGCGCTTTCCT-AAAAACACCGCTAATACTCG
* *
7780004 ATCTTTAGCGGCGCTTTTCTAGAAACACCGCTAATACTCG
1 ATCTTTAGCGGCGCTTTCCTAAAAACACCGCTAATACTCG
7780044 ATCT
1 ATCT
7780048 ATTCAATTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
40 34 0.89
41 4 0.11
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.31
Consensus pattern (40 bp):
ATCTTTAGCGGCGCTTTCCTAAAAACACCGCTAATACTCG
Found at i:7785971 original size:3 final size:3
Alignment explanation
Indices: 7785963--7786049 Score: 86
Period size: 3 Copynumber: 28.3 Consensus size: 3
7785953 AAAGAAAATG
* *
7785963 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAA AAA TAA -AA GTAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA
* ** *
7786008 TAG TAA TAA TAA TGG TAA TAA TAA TACA TTAA TAA GAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA T
7786050 TAATTAATTA
Statistics
Matches: 68, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
2 2 0.03
3 60 0.88
4 4 0.06
5 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:7787748 original size:137 final size:137
Alignment explanation
Indices: 7787592--7787882 Score: 557
Period size: 137 Copynumber: 2.1 Consensus size: 137
7787582 ATAACTTGCC
*
7787592 CCACTGTAATTTCAGGGGGATAAGGTTAGTGGCTTCAATCTACTCCACTACAACTTAAGGGAGAT
1 CCACTGCAATTTCAGGGGGATAAGGTTAGTGGCTTCAATCTACTCCACTACAACTTAAGGGAGAT
7787657 AATATTTTCTATGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTTTATTTATAACTTCA
66 AATATTTTCTATGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTTTATTTATAACTTCA
7787722 ATCTGTT
131 ATCTGTT
7787729 CCACTGCAATTTCAGGGGGATAAGGTTAGTGGCTTCAATCTACTCCACTACAACTTAAGGGAGAT
1 CCACTGCAATTTCAGGGGGATAAGGTTAGTGGCTTCAATCTACTCCACTACAACTTAAGGGAGAT
7787794 AATATTTTCTATGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTTTATTTATAACTTCA
66 AATATTTTCTATGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTTTATTTATAACTTCA
7787859 ATCTGTT
131 ATCTGTT
7787866 CCACTGC-ATCTTCAGGG
1 CCACTGCAAT-TTCAGGG
7787883 AAATGAGATT
Statistics
Matches: 152, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
136 2 0.01
137 150 0.99
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (137 bp):
CCACTGCAATTTCAGGGGGATAAGGTTAGTGGCTTCAATCTACTCCACTACAACTTAAGGGAGAT
AATATTTTCTATGATCTGCTCTACTGTAACTTCAGAGAGATAAGATCTGTTTATTTATAACTTCA
ATCTGTT
Found at i:7787962 original size:44 final size:45
Alignment explanation
Indices: 7787851--7788118 Score: 202
Period size: 45 Copynumber: 5.9 Consensus size: 45
7787841 TGTTTATTTA
* * * *
7787851 TAACTTCAATCTGTTCCACTGCATCTTCAGGGAAATGAGATTTGC
1 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGC
* * * * * *
7787896 TATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTG-
1 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGC
* **
7787940 TAACTTCAACCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTC
1 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAA-GACT-TG----C
* ** *
7787991 TAGCTTCAATCTACTCCACTGCAACTTAAGGGAGATAAGA-TTCGC
1 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTT-GC
* * * * *
7788036 TATCTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTG-
1 TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGC
** * *
7788080 TAACTTTGACCTGCTT-CACTGCTACTTCAGGGAGATAAG
1 TAACTTCAATCTG-TTCCACTGCAACTTCAGGGAGATAAG
7788119 GTTTGTGATT
Statistics
Matches: 174, Mismatches: 39, Indels: 21
0.74 0.17 0.09
Matches are distributed among these distances:
44 59 0.34
45 74 0.43
46 4 0.02
48 1 0.01
49 2 0.01
50 1 0.01
51 33 0.19
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
TAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGACTTGC
Found at i:7788032 original size:140 final size:140
Alignment explanation
Indices: 7787816--7788129 Score: 405
Period size: 140 Copynumber: 2.2 Consensus size: 140
7787806 GATCTGCTCT
* * * * * ** * *
7787816 ACTGTAACTTCAGAGAGATAAGATCTGTTTATTTATAACTTCAATCTGTTCCACTGCATCTTCAG
1 ACTGCAACTTCAGGGAGATAAGGTTTG-TGATTTATAACTTCAATCTACTCCACTGCAACTTAAG
* *
7787881 GGAAATGAGATTTGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTT
65 GGAAATAAGATTCGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTT
7787946 CAACCTG-TTCC
130 CAACCTGCTT-C
* *
7787957 ACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCTAGCTTCAATCTACTCCACTGCAACTTAAGG
1 ACTGCAACTTCAGGGAGATAAGGTTTGTGATTTATAACTTCAATCTACTCCACTGCAACTTAAGG
* * * * * * *
7788022 GAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTT
66 GAAATAAGATTCGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTTC
*
7788087 GACCTGCTTC
131 AACCTGCTTC
*
7788097 ACTGCTACTTCAGGGAGATAAGGTTTGTGATTT
1 ACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
7788130 GTGGCTTTAA
Statistics
Matches: 150, Mismatches: 22, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
140 125 0.83
141 25 0.17
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (140 bp):
ACTGCAACTTCAGGGAGATAAGGTTTGTGATTTATAACTTCAATCTACTCCACTGCAACTTAAGG
GAAATAAGATTCGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTTC
AACCTGCTTC
Found at i:7788172 original size:140 final size:141
Alignment explanation
Indices: 7787887--7788172 Score: 362
Period size: 140 Copynumber: 2.0 Consensus size: 141
7787877 TCAGGGAAAT
*
7787887 GAGATTTGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTTCAACCT
1 GAGATTCGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTTCAACCT
* * *
7787952 GTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCTAGCTTCAATCTACTCCACTGCAACT
66 GTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCTAGCTTCAAGCCACTCCAATGCAACT
*
7788017 TAAGGGAGATA
131 TAAGGAAGATA
* * * * * **
7788028 -AGATTCGCTATCTTCAGTCTGCTCCACTGTAACTTTAGGGAGATAAGACTTGTAACTTTGACCT
1 GAGATTCGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTTCAACCT
* * * * * * *
7788092 GCTT-CACTGCTACTTCAGGGAGATAAGGTTTGTGATTTGTGGCTTTAAGCCGCTCCAATGCCAT
66 G-TTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCTAGCTTCAAGCCACTCCAATGCAAC
*
7788156 TTCAGGAAGA-A
130 TTAAGGAAGATA
7788167 GAGATT
1 GAGATT
7788173 TGTAGCCTTG
Statistics
Matches: 123, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
139 1 0.01
140 120 0.98
141 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (141 bp):
GAGATTCGCTATCTCCAGTCTGCTCCACTGCAAATTCAAGGAGATAAGACTTGTAACTTCAACCT
GTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCTAGCTTCAAGCCACTCCAATGCAACT
TAAGGAAGATA
Found at i:7788282 original size:88 final size:88
Alignment explanation
Indices: 7788128--7788485 Score: 484
Period size: 88 Copynumber: 4.1 Consensus size: 88
7788118 GGTTTGTGAT
** * *
7788128 TTGTGGCTTTAAGCCGCTCCAATGCCATTTC-AGGAAGAAGAGATTTGTAGCCTTGATCTACTCC
1 TTGTGGCTTCGAGCCGCTCCAATGCCATTTCAAGG-AGAAGAGATTTGTAGCATCGATCTACTCC
*
7788192 GCTGGAACTTCAAGGAGATACGAA
65 GCTGAAACTTCAAGGAGATACGAA
* * * *
7788216 TTGTGGCTTCGAGTCGCTCCAATGCCGTTTCAATGAGAAGAGATTTGTAGCATCGATCTACCCCG
1 TTGTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCATCGATCTACTCCG
*
7788281 CTGGAACTTCAAGGAGATACGAA
66 CTGAAACTTCAAGGAGATACGAA
* * * ** *
7788304 TTGTGGCTTCGAGCTGCTCCAATGTCATTTCAGGGAGAAGAGATTTGTAGCATCGATAAACTCTG
1 TTGTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCATCGATCTACTCCG
*
7788369 CTGAAACTTTAAGGAGATACGAA
66 CTGAAACTTCAAGGAGATACGAA
* * * *
7788392 TTGTGGCTTCGAGCCACTCCAATGCCATTTTAGGGAGAAGAGATTTGTAGCCTCGATCTACTCCG
1 TTGTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCATCGATCTACTCCG
* * *
7788457 TTGAAACTTCAAGAAAATACGAA
66 CTGAAACTTCAAGGAGATACGAA
7788480 TTGTGG
1 TTGTGG
7788486 TTTCAACCTG
Statistics
Matches: 237, Mismatches: 32, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
88 235 0.99
89 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.28
Consensus pattern (88 bp):
TTGTGGCTTCGAGCCGCTCCAATGCCATTTCAAGGAGAAGAGATTTGTAGCATCGATCTACTCCG
CTGAAACTTCAAGGAGATACGAA
Found at i:7793456 original size:22 final size:22
Alignment explanation
Indices: 7793415--7793456 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
7793405 CTTAAACGCG
*
7793415 CTCTTCTCCTTTCTTGTTTTTT
1 CTCTTCTCCTTTCTTCTTTTTT
7793437 CTCTTGCTCCTTT-TTCTTTT
1 CTCTT-CTCCTTTCTTCTTTT
7793457 GCTTTGCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.00, C:0.29, G:0.05, T:0.67
Consensus pattern (22 bp):
CTCTTCTCCTTTCTTCTTTTTT
Found at i:7801449 original size:26 final size:26
Alignment explanation
Indices: 7801418--7801499 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
7801408 TGAAATTTCC
7801418 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
7801444 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7801470 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
7801496 ATCA
1 ATCA
7801500 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.27, G:0.06, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:7803665 original size:3 final size:3
Alignment explanation
Indices: 7803657--7803748 Score: 53
Period size: 3 Copynumber: 31.0 Consensus size: 3
7803647 AATATGATAG
* * * * * * * *
7803657 TAA TAA TAA CAA T-A TAG TAA TAG TAG TAG TAA TAG TGA TAG TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
7803704 AAA TAA TAG TAA TAA -AGA TAG TAC TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA
7803749 AAAGGAAATG
Statistics
Matches: 67, Mismatches: 19, Indels: 6
0.73 0.21 0.07
Matches are distributed among these distances:
2 3 0.04
3 63 0.94
4 1 0.01
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:7803673 original size:17 final size:16
Alignment explanation
Indices: 7803635--7803678 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
7803625 ATAAAAATAG
* *
7803635 TATAGTAATGATAATA
1 TATAGTAATAATAAAA
7803651 TGATAGTAATAATAACAA
1 T-ATAGTAATAATAA-AA
7803669 TATAGTAATA
1 TATAGTAATA
7803679 GTAGTAGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 1 0.04
17 21 0.88
18 2 0.08
ACGTcount: A:0.52, C:0.02, G:0.11, T:0.34
Consensus pattern (16 bp):
TATAGTAATAATAAAA
Found at i:7803712 original size:15 final size:15
Alignment explanation
Indices: 7803694--7803751 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
7803684 AGTAATAGTG
7803694 ATAGTAATAAAAATA
1 ATAGTAATAAAAATA
*
7803709 ATAGTAATAAAGATA
1 ATAGTAATAAAAATA
* * *
7803724 GTACTAATAATAATA
1 ATAGTAATAAAAATA
*
7803739 ATAATAATAAAAA
1 ATAGTAATAAAAA
7803752 GGAAATGGAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.28
Consensus pattern (15 bp):
ATAGTAATAAAAATA
Found at i:7803717 original size:6 final size:6
Alignment explanation
Indices: 7803630--7803702 Score: 55
Period size: 6 Copynumber: 12.7 Consensus size: 6
7803620 AATAGATAAA
* * * *
7803630 AATAGT -ATAGT AAT-GAT AATA-T GATAGT AATAAT AACAAT -ATAGT
1 AATAGT AATAGT AATAG-T AATAGT AATAGT AATAGT AATAGT AATAGT
* *
7803675 AATAGT AGTAGT AATAGT GATAGT AATA
1 AATAGT AATAGT AATAGT AATAGT AATA
7803703 AAAATAATAG
Statistics
Matches: 52, Mismatches: 10, Indels: 10
0.72 0.14 0.14
Matches are distributed among these distances:
5 13 0.25
6 39 0.75
ACGTcount: A:0.49, C:0.01, G:0.16, T:0.33
Consensus pattern (6 bp):
AATAGT
Found at i:7803723 original size:27 final size:27
Alignment explanation
Indices: 7803683--7803745 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
7803673 GTAATAGTAG
**
7803683 TAGTAATAGTGATAGTAATAAAAATAA
1 TAGTAATAAAGATAGTAATAAAAATAA
* *
7803710 TAGTAATAAAGATAGTACTAATAATAA
1 TAGTAATAAAGATAGTAATAAAAATAA
*
7803737 TAATAATAA
1 TAGTAATAA
7803746 TAAAAAGGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (27 bp):
TAGTAATAAAGATAGTAATAAAAATAA
Found at i:7805742 original size:38 final size:39
Alignment explanation
Indices: 7805655--7805811 Score: 185
Period size: 38 Copynumber: 4.0 Consensus size: 39
7805645 AAACCCAAAC
* * * *
7805655 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGAT
1 ATAATACCAGCACGAAGCCTGCGGGA-TTTAAACCCGGAT
* *
7805695 ATAATACCAGCACTAGGCCTGCGGGATTT-AACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAAACCCGGAT
7805733 ATAATACCAGCACGAAGCCTGCGGGATTT-AACCCGGAT
1 ATAATACCAGCACGAAGCCTGCGGGATTTAAACCCGGAT
* * *
7805771 ATAATTCCAGCA-TATAGCCTGCGGGTCTTTAAACCCGGAT
1 ATAATACCAGCACGA-AGCCTGCGGG-ATTTAAACCCGGAT
7805811 A
1 A
7805812 CACATCAAAT
Statistics
Matches: 103, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.01
38 64 0.62
39 6 0.06
40 32 0.31
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (39 bp):
ATAATACCAGCACGAAGCCTGCGGGATTTAAACCCGGAT
Found at i:7805746 original size:78 final size:78
Alignment explanation
Indices: 7805655--7805811 Score: 203
Period size: 78 Copynumber: 2.0 Consensus size: 78
7805645 AAACCCAAAC
* *
7805655 ATAACACCAGCACGAAGCCTACGGGACTTTAAACTCAGATATAATACCAGCACTA-GGCCTGCGG
1 ATAACACCAGCACGAAGCCTACGGGA-TTT-AACCCAGATATAATACCAGCA-TATAGCCTGCGG
7805719 G-ATTT-AACCCGGAT
63 GTATTTAAACCCGGAT
* * * * *
7805733 ATAATACCAGCACGAAGCCTGCGGGATTTAACCCGGATATAATTCCAGCATATAGCCTGCGGGTC
1 ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
7805798 TTTAAACCCGGAT
66 TTTAAACCCGGAT
7805811 A
1 A
7805812 CACATCAAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
75 2 0.03
76 27 0.39
77 6 0.09
78 34 0.49
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.21
Consensus pattern (78 bp):
ATAACACCAGCACGAAGCCTACGGGATTTAACCCAGATATAATACCAGCATATAGCCTGCGGGTA
TTTAAACCCGGAT
Found at i:7811063 original size:15 final size:16
Alignment explanation
Indices: 7811035--7811067 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
7811025 ATTTTGAGGA
7811035 TTCTTTGTTTTTCGGG
1 TTCTTTGTTTTTCGGG
7811051 TTCTTTG-TTTTCGGG
1 TTCTTTGTTTTTCGGG
7811066 TT
1 TT
7811068 TTCAGGGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.00, C:0.12, G:0.24, T:0.64
Consensus pattern (16 bp):
TTCTTTGTTTTTCGGG
Found at i:7815133 original size:22 final size:22
Alignment explanation
Indices: 7815105--7815149 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
7815095 AGTAAAACAA
7815105 AATAGATGTCAAAAGGTGTTTT
1 AATAGATGTCAAAAGGTGTTTT
7815127 AATAGATGTCAAAAGGTGTTTT
1 AATAGATGTCAAAAGGTGTTTT
7815149 A
1 A
7815150 GAGAGAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.38, C:0.04, G:0.22, T:0.36
Consensus pattern (22 bp):
AATAGATGTCAAAAGGTGTTTT
Found at i:7816300 original size:13 final size:13
Alignment explanation
Indices: 7816282--7816307 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7816272 TAAAGTTAAT
7816282 GACATAGGAATCA
1 GACATAGGAATCA
7816295 GACATAGGAATCA
1 GACATAGGAATCA
7816308 ATGAAGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.15, G:0.23, T:0.15
Consensus pattern (13 bp):
GACATAGGAATCA
Found at i:7817391 original size:8 final size:9
Alignment explanation
Indices: 7817368--7817398 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
7817358 TTTTTCTATT
7817368 TATTTTTAA
1 TATTTTTAA
7817377 TATTTTTAA
1 TATTTTTAA
7817386 TATTTTTAA
1 TATTTTTAA
7817395 -ATTT
1 TATTT
7817399 AAGTAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TATTTTTAA
Found at i:7817566 original size:15 final size:15
Alignment explanation
Indices: 7817546--7817575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7817536 GATAGGGCAA
7817546 ACAATTACCATAATC
1 ACAATTACCATAATC
*
7817561 ACAATTACCGTAATC
1 ACAATTACCATAATC
7817576 GCTCCATACC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
ACAATTACCATAATC
Found at i:7819619 original size:14 final size:15
Alignment explanation
Indices: 7819594--7819624 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
7819584 TTTATCCTTT
7819594 TTTTTATATGAACAA
1 TTTTTATATGAACAA
7819609 TTTTTAT-TGAACAA
1 TTTTTATATGAACAA
7819623 TT
1 TT
7819625 ATGTATATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
TTTTTATATGAACAA
Found at i:7820795 original size:24 final size:24
Alignment explanation
Indices: 7820768--7820819 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
7820758 TTAGTAAGTC
*
7820768 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
7820792 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
7820816 AAAT
1 AAAT
7820820 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:7822615 original size:15 final size:15
Alignment explanation
Indices: 7822591--7822636 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
7822581 ATATAAATAG
*
7822591 AAATAAAAATATAAT
1 AAATAGAAATATAAT
7822606 AAATAGAAATATAAT
1 AAATAGAAATATAAT
7822621 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
7822637 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:7822639 original size:44 final size:43
Alignment explanation
Indices: 7822554--7822710 Score: 125
Period size: 44 Copynumber: 3.7 Consensus size: 43
7822544 CATATATAAG
* *
7822554 AAAA-ATAAT-AAT-GAAAATAATATTAGTATATAAATAGAAATA
1 AAAATATAATAAATAGAAAATAATAATAGTAT-GAAATA-AAATA
7822596 AAAATATAATAAATAGAAATATAATAATAGTA-GAAATATAAATA
1 AAAATATAATAAATAGAAA-ATAATAATAGTATGAAATA-AAATA
* *
7822640 GATAAATA-AA-AATTAGATAAATAATAATAGTATTAGAATAAAA-A
1 -A-AAATATAATAAATAGA-AAATAATAATAGTATGA-AATAAAATA
*
7822684 ATAA-AT-ATAAATAGAAACATAATAATA
1 AAAATATAATAAATAGAAA-ATAATAATA
7822711 ATAATAGCAA
Statistics
Matches: 96, Mismatches: 7, Indels: 24
0.76 0.06 0.19
Matches are distributed among these distances:
41 4 0.04
42 21 0.22
43 6 0.06
44 32 0.33
45 13 0.14
46 20 0.21
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (43 bp):
AAAATATAATAAATAGAAAATAATAATAGTATGAAATAAAATA
Found at i:7822656 original size:15 final size:14
Alignment explanation
Indices: 7822583--7822683 Score: 62
Period size: 15 Copynumber: 6.8 Consensus size: 14
7822573 ATATTAGTAT
*
7822583 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
7822596 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
7822612 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
7822626 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
7822641 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
7822656 ATAAATAATAATAG
1 ATAAATAAAAATAG
7822670 TATTAGAATAAAAA
1 -A-TA-AATAAAAA
7822684 ATAAATATAA
Statistics
Matches: 70, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
13 3 0.04
14 20 0.29
15 35 0.50
16 5 0.07
17 7 0.10
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:7822714 original size:21 final size:20
Alignment explanation
Indices: 7822557--7822714 Score: 62
Period size: 23 Copynumber: 7.4 Consensus size: 20
7822547 ATATAAGAAA
7822557 AATAAT-AAT-GAAAATAAT
1 AATAATAAATAGAAAATAAT
*
7822575 ATTAGTATATAAATAG-AAATAAAA
1 A--A-TA-ATAAATAGAAAAT-AAT
7822599 ATATAATAAATAGAAATATAAT
1 A-ATAATAAATAGAAA-ATAAT
* *
7822621 AATAGTAGAAATA-TAAATAGAT
1 AATA--ATAAATAGAAAATA-AT
7822643 AAATAA-AAATTAGATAAATAAT
1 -AATAATAAA-TAGA-AAATAAT
*
7822665 AATAGTATTAGAATAAAAAAT-A-
1 AATA--A-TA-AATAGAAAATAAT
7822687 AAT-ATAAATAGAAACATAAT
1 AATAATAAATAGAAA-ATAAT
7822707 AATAATAA
1 AATAATAA
7822715 TAGCAATAAT
Statistics
Matches: 108, Mismatches: 7, Indels: 47
0.67 0.04 0.29
Matches are distributed among these distances:
17 7 0.06
18 5 0.05
19 2 0.02
20 7 0.06
21 27 0.25
22 18 0.17
23 28 0.26
24 8 0.07
25 4 0.04
26 2 0.02
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.28
Consensus pattern (20 bp):
AATAATAAATAGAAAATAAT
Found at i:7823781 original size:44 final size:43
Alignment explanation
Indices: 7823661--7823883 Score: 154
Period size: 44 Copynumber: 5.1 Consensus size: 43
7823651 TTTAGGTGGT
* * *
7823661 TAAGGTTCACTGTCTTCGATCTGCTCCATTACTACTTAGGGAGA
1 TAAGGCTCACCGTCTTCGATCTGCTCC-CTACTACTTAGGGAGA
* * * * * *
7823705 TAA-GAT--CTGTAATTTCTAGTCTGTTCCCTACTGCTTAAGGG-GA
1 TAAGGCTCACCGT--CTTCGA-TCTGCTCCCTACTACTT-AGGGAGA
*
7823748 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGA
1 TAAGGCTCACCGTCTTCGATCTGCTCC-CTACTACTTAGGGAGA
* * * * * *
7823792 TAA-GAT--CTGTAACTTCCAACATGTTTCCCTACTACTTAGGGGGA
1 TAAGGCTCACCGT--CTTCGATC-TG-CTCCCTACTACTTAGGGAGA
7823836 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGA
1 TAAGGCTCACCGTCTTCGATCTGCTCC-CTACTACTTAGGGAGA
7823880 TAAG
1 TAAG
7823884 ATCTGCAATT
Statistics
Matches: 138, Mismatches: 24, Indels: 34
0.70 0.12 0.17
Matches are distributed among these distances:
41 7 0.05
43 40 0.29
44 74 0.54
45 11 0.08
46 3 0.02
47 3 0.02
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.31
Consensus pattern (43 bp):
TAAGGCTCACCGTCTTCGATCTGCTCCCTACTACTTAGGGAGA
Found at i:7823862 original size:88 final size:88
Alignment explanation
Indices: 7823624--7824199 Score: 611
Period size: 88 Copynumber: 6.5 Consensus size: 88
7823614 GCTTATGATT
* * * * * * * * *
7823624 TGTAATCTTCAGCCTGTTGCCTTACTGTTTAGGTGGTTAAGGTTCACTGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCCA
* *
7823689 TTACTACTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * *
7823712 TGTAA-TTTCTAGTCTG-TTCCCTACTGCTTAAGGGGATAAGGCTCACCGTCTTCGATCTGCTCC
1 TGTAATTTTC-AGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCC
7823775 ACTACTGCTTAGGGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * * *
7823799 TGTAACTTCCAACATGTTTCCCTACTACTTAGGGGGATAAGGCTCACCGTCTTCGATCTGCTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCCA
*
7823864 CTACTACTTAGGGAGATAAGATC
66 CTACTGCTTAGGGAGATAAGATC
* * * * * *
7823887 TGCAATTTTCAGCCTATTTCCCTACTGTTTAGGGGGACAAGGCTCACCGTCTTCAACCTACTCCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCCA
* * *
7823952 TTACTGCTTAGGGAGATAGGGTGGTC
66 CTACTGCTTAGGGAGATA---AGATC
* * * *
7823978 TGTTATTTTCAGCCTGTTTTCC-AGTTGCTTAAGGGGATAAGGCTCACCGTCTTCGACCTGCTCC
1 TGTAATTTTCAGCCTGTTTCCCTA-CTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCC
*
7824042 ACTATTGCTTAGGGAGATAAGATC
65 ACTACTGCTTAGGGAGATAAGATC
* * * * *
7824066 TGTAATTTTCAGCCTGTTTCCCTACTGCTTATGGGGATGAGGCTCACCGTCTTCAACCTACACCA
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCCA
* * * * *
7824131 TTACTGTTTAGGGAGATAGGGTGGTA
66 CTACTGCTTAGGGAGATA---AGATC
* * * *
7824157 TGTCATTTTTAGCTTG-TTCCCTACTGCTTAGAGGGATAAGGCT
1 TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCT
7824200 AGTGGTTTAA
Statistics
Matches: 408, Mismatches: 69, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
87 72 0.18
88 223 0.55
89 1 0.00
90 25 0.06
91 87 0.21
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.33
Consensus pattern (88 bp):
TGTAATTTTCAGCCTGTTTCCCTACTGCTTAGGGGGATAAGGCTCACCGTCTTCGACCTGCTCCA
CTACTGCTTAGGGAGATAAGATC
Found at i:7824056 original size:179 final size:178
Alignment explanation
Indices: 7823661--7824199 Score: 660
Period size: 179 Copynumber: 3.0 Consensus size: 178
7823651 TTTAGGTGGT
* * * *
7823661 TAAGGTTCACTGTCTTCGATCTGCTCCATTACTACTTAGGGAGATAAGATCTGTAA-TTTCTAGT
1 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTC-AGC
* * * * *
7823725 CTGTTCCCTACTGCTTAAGGGGATAAGGCTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
65 CTTTTCCCTACTGCTTAAGGGGATAAGGCTCACCGTCTTCAACCTACTCCATTACTGCTTAGGGA
* * * * * *
7823790 GATA---AGATCTGTAACTTCCAACATGTTTCCCTACTACTTAGGGGGA
130 GATAGGGTGGTCTGTAATTTTCAGCATGTTTCCCTACTACTTAAGGGGA
*
7823836 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATTTTCAGCC
1 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCC
* * *
7823901 TATTTCCCTACTGTTTAGGGGGACAAGGCTCACCGTCTTCAACCTACTCCATTACTGCTTAGGGA
66 T-TTTCCCTACTGCTTAAGGGGATAAGGCTCACCGTCTTCAACCTACTCCATTACTGCTTAGGGA
* * * * *
7823966 GATAGGGTGGTCTGTTATTTTCAGCCTGTTTTCC-AGTTGCTTAAGGGGA
130 GATAGGGTGGTCTGTAATTTTCAGCATGTTTCCCTA-CTACTTAAGGGGA
* * *
7824015 TAAGGCTCACCGTCTTCGACCTGCTCCACTATTGCTTAGGGAGATAAGATCTGTAATTTTCAGCC
1 TAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCC
* * * *
7824080 TGTTTCCCTACTGCTTATGGGGATGAGGCTCACCGTCTTCAACCTACACCATTACTGTTTAGGGA
66 T-TTTCCCTACTGCTTAAGGGGATAAGGCTCACCGTCTTCAACCTACTCCATTACTGCTTAGGGA
* * * * *
7824145 GATAGGGTGGTATGTCATTTTTAGCTTG-TTCCCTACTGCTT-AGAGGGA
130 GATAGGGTGGTCTGTAATTTTCAGCATGTTTCCCTACTACTTAAG-GGGA
7824193 TAAGGCT
1 TAAGGCT
7824200 AGTGGTTTAA
Statistics
Matches: 315, Mismatches: 41, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
175 56 0.18
176 63 0.20
177 2 0.01
178 21 0.07
179 173 0.55
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.33
Consensus pattern (178 bp):
TAAGGCTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATTTTCAGCC
TTTTCCCTACTGCTTAAGGGGATAAGGCTCACCGTCTTCAACCTACTCCATTACTGCTTAGGGAG
ATAGGGTGGTCTGTAATTTTCAGCATGTTTCCCTACTACTTAAGGGGA
Found at i:7824362 original size:132 final size:131
Alignment explanation
Indices: 7824161--7824465 Score: 344
Period size: 132 Copynumber: 2.3 Consensus size: 131
7824151 GTGGTATGTC
** * *
7824161 ATTTTTAGCTTGTTCCCTACTGCTTAGAGGGATAAGGCTAGTGGTTTAAATCTGCTCCATTGCCA
1 ATTTTTAGCCCGTTCCCTACTGCTTAGAGGGATAAGACTAGTGGCTTAAATCTGCTCCATTGCCA
* * * * * *
7824226 CTACATTGAGATACGATTCATCGTCTTTGATCTGCTCTAC-TATTGTTTAGGGAGATAAGATCTG
66 CTACATGGAGATAAGATTCACCGTCTTCGATCTGCTC-ACTTACTGCTTAGGGAGATAAGATCTG
7824290 TA
130 TA
* * *
7824292 ATTTTTAGCCCGTTCCACTACTGCTTAG-GGAGATAATACTAGTGGCTTAAATCTGCTCCCTTGT
1 ATTTTTAGCCCGTTCC-CTACTGCTTAGAGG-GATAAGACTAGTGGCTTAAATCTGCTCCATTGC
* * *
7824356 CGCTACATGGAGATAAGATTCACCGTCTTCGATCTGTTCCCTTACTGCTTAGGGAGATAAGATCT
64 CACTACATGGAGATAAGATTCACCGTCTTCGATCTGCTCACTTACTGCTTAGGGAGATAAGATCT
**
7824421 ACA
129 GTA
* * * * * * *
7824424 ATCTTCAGCCTGATCCCTACTACTTAGAGAGATAAGGCTAGT
1 ATTTTTAGCCCGTTCCCTACTGCTTAGAGGGATAAGACTAGT
7824466 CGAGATTTTT
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
131 37 0.26
132 107 0.74
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (131 bp):
ATTTTTAGCCCGTTCCCTACTGCTTAGAGGGATAAGACTAGTGGCTTAAATCTGCTCCATTGCCA
CTACATGGAGATAAGATTCACCGTCTTCGATCTGCTCACTTACTGCTTAGGGAGATAAGATCTGT
A
Found at i:7824429 original size:44 final size:43
Alignment explanation
Indices: 7824364--7824459 Score: 97
Period size: 44 Copynumber: 2.2 Consensus size: 43
7824354 GTCGCTACAT
** * * *
7824364 GGAGATAAGATTCACCGTCTTC-GATCTGTTCCCTTACTGCTTAG
1 GGAGATAAGATTCACAATCTTCAG-CCTGATCCC-TACTACTTAG
7824408 GGAGATAAGA-TCTACAATCTTCAGCCTGATCCCTACTACTTAG
1 GGAGATAAGATTC-ACAATCTTCAGCCTGATCCCTACTACTTAG
*
7824451 AGAGATAAG
1 GGAGATAAG
7824460 GCTAGTCGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
43 19 0.43
44 24 0.55
45 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
GGAGATAAGATTCACAATCTTCAGCCTGATCCCTACTACTTAG
Found at i:7838465 original size:18 final size:17
Alignment explanation
Indices: 7838442--7838475 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
7838432 TATTATATTT
7838442 TATTAAACAATTTAATTA
1 TATTAAA-AATTTAATTA
*
7838460 TATTAAATATTTAATT
1 TATTAAAAATTTAATT
7838476 TTAACATATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAAAAATTTAATTA
Found at i:7857172 original size:25 final size:25
Alignment explanation
Indices: 7857144--7857191 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
7857134 TTATAATATG
* *
7857144 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
7857169 AAAATGACTATTATACCCCTAGG
1 AAAATGACTATTATACCCCTAGG
7857192 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:7857252 original size:20 final size:19
Alignment explanation
Indices: 7857219--7857293 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
7857209 ATACGTGGGA
7857219 TATGATAT--ACATGATTG
1 TATGATATACACATGATTG
*
7857236 ATATGATATACACATGACATG
1 -TATGATATACACATGA-TTG
7857257 TATGATATACACATGATATG
1 TATGATATACACATGAT-TG
* *
7857277 TATGAAATGCACATGAT
1 TATGATATACACATGAT
7857294 GAATTCATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.16
20 39 0.80
21 2 0.04
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (19 bp):
TATGATATACACATGATTG
Found at i:7857411 original size:51 final size:50
Alignment explanation
Indices: 7857343--7857446 Score: 156
Period size: 51 Copynumber: 2.1 Consensus size: 50
7857333 GAGGAAGTGC
* *
7857343 AAAAGGGCTTATGCCCCAGTTTACCGAAAATGGCTTATACCCCAGTTTATTG
1 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTT-TACCCCAG-TTATTG
*
7857395 AAAAGGGATT-TGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTATTG
1 AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTATTG
7857444 AAA
1 AAA
7857447 GAGGCTAGGC
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
49 9 0.18
50 7 0.14
51 24 0.49
52 9 0.18
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (50 bp):
AAAAGGGATTATGCCCCAGTTTACCGAAAAGGGCTTTACCCCAGTTATTG
Found at i:7857416 original size:25 final size:26
Alignment explanation
Indices: 7857343--7857439 Score: 135
Period size: 25 Copynumber: 3.8 Consensus size: 26
7857333 GAGGAAGTGC
7857343 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* * **
7857369 AAAATGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
7857395 AAAAGGGATT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
7857420 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
7857440 ATTGAAAGAG
Statistics
Matches: 61, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
25 31 0.51
26 30 0.49
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:7857452 original size:24 final size:25
Alignment explanation
Indices: 7857343--7857446 Score: 120
Period size: 26 Copynumber: 4.1 Consensus size: 25
7857333 GAGGAAGTGC
**
7857343 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
* *
7857369 AAAATGGCTTATACCCCAGTTTATTG
1 AAAAGGGCTT-TGCCCCAGTTTATTG
* **
7857395 AAAAGGGATTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
7857420 AAAAGGGCTTTGCCCCAG-TTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
7857444 AAA
1 AAA
7857447 GAGGCTAGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 7 0.11
25 29 0.44
26 30 0.45
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:7858078 original size:18 final size:18
Alignment explanation
Indices: 7858055--7858089 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7858045 ACTTAGGACG
*
7858055 TGTTTTCAAAACGACACT
1 TGTTTTCAAAACAACACT
*
7858073 TGTTTTCCAAACAACAC
1 TGTTTTCAAAACAACAC
7858090 AATGTTACGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (18 bp):
TGTTTTCAAAACAACACT
Found at i:7864989 original size:25 final size:25
Alignment explanation
Indices: 7864943--7864990 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7864933 TTATAATATG
* * *
7864943 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACTATTATACCCCTAGGTA
*
7864968 AAAATGACTATTATACCTCTAGG
1 AAAATGACTATTATACCCCTAGG
7864991 GTTTAATTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (25 bp):
AAAATGACTATTATACCCCTAGGTA
Found at i:7865050 original size:20 final size:19
Alignment explanation
Indices: 7865018--7865092 Score: 82
Period size: 20 Copynumber: 3.9 Consensus size: 19
7865008 ATACGTGGGA
7865018 TATGATAT--ACATGATTG
1 TATGATATGCACATGATTG
* *
7865035 ATATGATATGTACATGACATG
1 -TATGATATGCACATGA-TTG
7865056 TATGATATGCACATGATATG
1 TATGATATGCACATGAT-TG
*
7865076 TATGAAATGCACATGAT
1 TATGATATGCACATGAT
7865093 GAATTCATAA
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.16
20 39 0.80
21 2 0.04
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (19 bp):
TATGATATGCACATGATTG
Found at i:7865225 original size:52 final size:51
Alignment explanation
Indices: 7865142--7865271 Score: 201
Period size: 52 Copynumber: 2.6 Consensus size: 51
7865132 GAGGAAGTGC
* * *
7865142 AAAAGGGCTTATGCCCTAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAATTTACCA
*
7865194 AAAATGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCA
7865245 AAAAGGGCTT-TGCCCCAG-TTATTGAAA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAA
7865272 GAGGCTAGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
49 9 0.12
50 8 0.11
51 22 0.30
52 34 0.47
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAATTTACCA
Done.