Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 451 of 770
Found at i:138946587 original size:46 final size:44
Alignment explanation
Indices: 138946447--138946587 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 44
138946437 GGCGTTCATC
*
138946447 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
138946494 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
138946540 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
138946586 GA
1 GA
138946588 CATGTCACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 31 0.39
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:138955611 original size:46 final size:45
Alignment explanation
Indices: 138955561--138955732 Score: 170
Period size: 46 Copynumber: 3.8 Consensus size: 45
138955551 TTGAGCATTC
138955561 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCA
*** * * *
138955607 GAACTCGTTGAGTTGAGT-CGAGTTCGAGAGATGTAACTAG-GCA-TCC
1 GAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTCA
* *
138955653 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCT
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCA
* * *
138955699 GAGCTCGTTGAGTTGAGGCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
138955733 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 8 0.08
46 78 0.76
47 8 0.08
48 3 0.03
49 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (45 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCA
Found at i:138960085 original size:15 final size:15
Alignment explanation
Indices: 138960065--138960094 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
138960055 CAGAATGAGA
138960065 TCTAACTCTCCAAAC
1 TCTAACTCTCCAAAC
138960080 TCTAACTCTCCAAAC
1 TCTAACTCTCCAAAC
138960095 GGCAACTCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.40, G:0.00, T:0.27
Consensus pattern (15 bp):
TCTAACTCTCCAAAC
Found at i:138962926 original size:28 final size:28
Alignment explanation
Indices: 138962830--138962930 Score: 123
Period size: 27 Copynumber: 3.6 Consensus size: 28
138962820 ATACAGAAAA
* * *
138962830 TGTGACAGAGTCACCAGATACAGATATTT
1 TGTGGCAGAGCCACCAGA-ACAGATAATT
* *
138962859 TGTGGCAGTGCCACCAGAACAGAT-ATA
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
138962886 TGTGGCAGGGCCACCAGAACAGATAATT
1 TGTGGCAGAGCCACCAGAACAGATAATT
*
138962914 TGTGGCACAGCCACCAG
1 TGTGGCAGAGCCACCAG
138962931 GACGCTTCCT
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
27 24 0.39
28 23 0.37
29 15 0.24
ACGTcount: A:0.32, C:0.23, G:0.26, T:0.20
Consensus pattern (28 bp):
TGTGGCAGAGCCACCAGAACAGATAATT
Found at i:138963083 original size:28 final size:28
Alignment explanation
Indices: 138963036--138963128 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
138963026 AAATTAACCC
* *
138963036 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
138963064 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
138963092 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAATGGTAATTTTGCATACA
138963120 TAGGGGTAT
1 TAGGGGTAT
138963129 TCTAGTACAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.31, C:0.08, G:0.27, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAATGGTAATTTTGCATACA
Found at i:138973014 original size:30 final size:30
Alignment explanation
Indices: 138972980--138973040 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
138972970 TCCTTAACTC
138972980 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
138973010 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
138973040 A
1 A
138973041 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:138989141 original size:29 final size:30
Alignment explanation
Indices: 138989035--138989129 Score: 126
Period size: 29 Copynumber: 3.3 Consensus size: 30
138989025 TTTCACATAC
* * *
138989035 GTATCTGGCCCATTAAGCCC-AATCATATT
1 GTATATGGCCCATTAGGCCCAAATCACATT
*
138989064 -CATATGGCCCATTAGGCCCAAATCAC-TT
1 GTATATGGCCCATTAGGCCCAAATCACATT
138989092 GTATATGGCCCATTAGGCCCAAATCACATT
1 GTATATGGCCCATTAGGCCCAAATCACATT
138989122 -TATATGGC
1 GTATATGGC
138989130 TAGTTAGGCC
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
28 18 0.31
29 38 0.66
30 2 0.03
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
GTATATGGCCCATTAGGCCCAAATCACATT
Found at i:138993304 original size:29 final size:29
Alignment explanation
Indices: 138993247--138993356 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
138993237 TACCTATATC
* * *
138993247 TGGCCCATTAAGCCC-AATCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
*
138993275 TGGCCCATTAGACCCAAATCAC-TTGTATA
1 TGGCCCATTAGGCCCAAATCACATT-TATA
*
138993304 TGGCCCATTTGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
* *
138993333 TGGCCCGTTAGGCCC-AGTCACATT
1 TGGCCCATTAGGCCCAAATCACATT
138993357 CATAATCATG
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.33
29 45 0.64
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.28
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:138996228 original size:47 final size:49
Alignment explanation
Indices: 138996152--138996284 Score: 172
Period size: 47 Copynumber: 2.8 Consensus size: 49
138996142 TGTAACCCGC
138996152 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
* *
138996202 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
138996245 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
138996285 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 15
0.79 0.04 0.16
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.40
47 30 0.42
48 2 0.03
49 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:138996300 original size:46 final size:44
Alignment explanation
Indices: 138996160--138996300 Score: 135
Period size: 46 Copynumber: 3.0 Consensus size: 44
138996150 GCCCATAAGC
*
138996160 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT-AGT
* * *
138996207 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AAGT
1 GAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCTAGT
138996253 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CTAGT
138996299 GA
1 GA
138996301 CATGTCACTT
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.42
47 31 0.39
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCTAGT
Found at i:139003798 original size:93 final size:93
Alignment explanation
Indices: 139003686--139003857 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
139003676 CGCCCATAAG
* *
139003686 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
139003751 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
139003779 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
139003844 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
139003858 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:139003854 original size:46 final size:46
Alignment explanation
Indices: 139003679--139003854 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
139003669 TGTAACCCGC
* * *
139003679 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
139003725 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
139003775 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
139003818 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
139003855 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:139007260 original size:66 final size:66
Alignment explanation
Indices: 139007134--139007260 Score: 157
Period size: 66 Copynumber: 1.9 Consensus size: 66
139007124 TTATTGCATG
* * * *
139007134 AATGTCGTTGCATGAGTTAATCCTAGATTGCATCTAGAATTGTTACTACACCTAACAGCTGCCTG
1 AATGTCGCTGCATGAGTTAATCCTAGATTGCATCCAGAATTGTCACCACACCTAACAGCTGCCTG
139007199 C
66 C
* * * * *
139007200 AATGTCGCTGTATGAGTTAATTCC-AGATTGCGTCCAGAATTGTCGCCACATCTAATAGCTG
1 AATGTCGCTGCATGAGTTAA-TCCTAGATTGCATCCAGAATTGTCACCACACCTAACAGCTG
139007261 TCCAGATAAG
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 48 0.94
67 3 0.06
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (66 bp):
AATGTCGCTGCATGAGTTAATCCTAGATTGCATCCAGAATTGTCACCACACCTAACAGCTGCCTG
C
Found at i:139013209 original size:20 final size:20
Alignment explanation
Indices: 139013184--139013233 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
139013174 GGGGTCACAC
139013184 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCTTGGGACAT
139013204 GCCCGTGTGGCTTGGGACAT
1 GCCCGTGTGGCTTGGGACAT
*
139013224 GCCCTTGTGG
1 GCCCGTGTGG
139013234 GTAGGCCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.08, C:0.26, G:0.40, T:0.26
Consensus pattern (20 bp):
GCCCGTGTGGCTTGGGACAT
Found at i:139015901 original size:42 final size:42
Alignment explanation
Indices: 139015740--139015905 Score: 179
Period size: 42 Copynumber: 3.9 Consensus size: 42
139015730 AGTAAGATAC
* **
139015740 CAATGCCATATCCCAGATATGGTCTTATATGGGATCACATAT
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCACATAT
* * * ** *
139015782 CGATGCCGATAGCCCAGCTATGGTCTTACATGATGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACATGAAATCACATAT
* * *
139015825 CAATGCCATGTCCCAGACATGTTCTTACATGAAATCACATAT
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCACATAT
* * * *
139015867 CAATGCCATATTCTAGATATGGTCTTATACGAAATCACA
1 CAATGCCATATCCCAGATATGGTCTTACATGAAATCACA
139015906 CATAACCCTA
Statistics
Matches: 99, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACATGAAATCACATAT
Found at i:139019523 original size:18 final size:16
Alignment explanation
Indices: 139019496--139019530 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
139019486 CACTGCCTGG
139019496 TTTTTTTTACTTTGTTT
1 TTTTTTTTACTTT-TTT
139019513 TTTTTTATTACTTTTTT
1 TTTTTT-TTACTTTTTT
139019530 T
1 T
139019531 AACTTTTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.09, C:0.06, G:0.03, T:0.83
Consensus pattern (16 bp):
TTTTTTTTACTTTTTT
Found at i:139019595 original size:17 final size:17
Alignment explanation
Indices: 139019575--139019608 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
139019565 TAAAGTTTTA
*
139019575 TATTTTCCTTATTTATT
1 TATTTTACTTATTTATT
*
139019592 TATTTTATTTATTTATT
1 TATTTTACTTATTTATT
139019609 ATTAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TATTTTACTTATTTATT
Found at i:139019599 original size:13 final size:13
Alignment explanation
Indices: 139019583--139019608 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139019573 TATATTTTCC
139019583 TTATTTATTTATT
1 TTATTTATTTATT
139019596 TTATTTATTTATT
1 TTATTTATTTATT
139019609 ATTAATTTTA
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTATTTATT
Found at i:139019697 original size:25 final size:24
Alignment explanation
Indices: 139019625--139019698 Score: 89
Period size: 23 Copynumber: 3.1 Consensus size: 24
139019615 TTTAAAAAAC
*
139019625 TTAAA-ATGTATATTTGAAATATT
1 TTAAATATATATATTTGAAATATT
* *
139019648 TTATAATATATATTTTTTAAA-ATT
1 TTA-AATATATATATTTGAAATATT
139019672 TTAAATATATATATTTGAAATTATT
1 TTAAATATATATATTTGAAA-TATT
139019697 TT
1 TT
139019699 TTAAAATTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
23 18 0.43
24 8 0.19
25 16 0.38
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (24 bp):
TTAAATATATATATTTGAAATATT
Found at i:139019726 original size:21 final size:22
Alignment explanation
Indices: 139019691--139019743 Score: 81
Period size: 22 Copynumber: 2.4 Consensus size: 22
139019681 TATATTTGAA
*
139019691 ATTATTTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
139019713 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
139019734 ATATATTTTT
1 AT-TATTTTT
139019744 AATGATATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 12 0.41
22 17 0.59
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:139019744 original size:21 final size:21
Alignment explanation
Indices: 139019689--139019745 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
139019679 TATATATTTG
*
139019689 AAAT-TAT-TTTTTAAAATTTT
1 AAATATATATTTTT-AAATATT
139019709 AAATAT-TATTTTTTAAATATT
1 AAATATATA-TTTTTAAATATT
139019730 AAATATATATTTTTAA
1 AAATATATATTTTTAA
139019746 TGATATAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.16
21 20 0.62
22 7 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
AAATATATATTTTTAAATATT
Found at i:139019829 original size:123 final size:123
Alignment explanation
Indices: 139019697--139019933 Score: 299
Period size: 122 Copynumber: 1.9 Consensus size: 123
139019687 TGAAATTATT
*
139019697 TTTTAAAATTTTAAATATTATTTTTTAA-ATATTAAA-TATATATTTTT-AATGATATAAAACAT
1 TTTTAAAATTTTAAATATT-TTTTATAATATATTAAATTATA-ATTTTTAAATGATATAAAACAT
*
139019759 -TTAAATATTTTAAAGATATGACCTTTCAAATTTTATTA-GT-TTTATAATATTTTTAATGTATA
64 ATT--AT-TTTTAAAGA-ATGACCTCTCAAA-TTTATTATGTGTTTATAATATTTTTAATGTATA
* * * *
139019821 TTTT-AAATTTTAAATATTTTTTATAATATTTTAAATTATAATTTTTAAATTATTTAAAATATAT
1 TTTTAAAATTTTAAATATTTTTTATAATATATTAAATTATAATTTTTAAATGATATAAAACATAT
*
139019885 TATTTTTAAAGAATGACCTCTCAAATTTATTATTTGTTTATAATATTTT
66 TATTTTTAAAGAATGACCTCTCAAATTTATTATGTGTTTATAATATTTT
139019934 AAATATTTTT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
120 7 0.07
121 13 0.13
122 29 0.29
123 29 0.29
124 20 0.20
125 2 0.02
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (123 bp):
TTTTAAAATTTTAAATATTTTTTATAATATATTAAATTATAATTTTTAAATGATATAAAACATAT
TATTTTTAAAGAATGACCTCTCAAATTTATTATGTGTTTATAATATTTTTAATGTATA
Found at i:139019850 original size:28 final size:30
Alignment explanation
Indices: 139019798--139019857 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
139019788 ATTTTATTAG
*
139019798 TTTTATAATATTTTTAATGTATATTTTAAA
1 TTTTATAATATTTTTAATGAATATTTTAAA
*
139019828 TTTTA-AATATTTTTTAT-AATATTTTAAA
1 TTTTATAATATTTTTAATGAATATTTTAAA
139019856 TT
1 TT
139019858 ATAATTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 12 0.43
29 11 0.39
30 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (30 bp):
TTTTATAATATTTTTAATGAATATTTTAAA
Found at i:139019868 original size:14 final size:15
Alignment explanation
Indices: 139019800--139019873 Score: 70
Period size: 14 Copynumber: 5.3 Consensus size: 15
139019790 TTTATTAGTT
*
139019800 TTATAATATTTTTAA
1 TTATAATATTTTAAA
*
139019815 -TGT-ATATTTTAAA
1 TTATAATATTTTAAA
*
139019828 TTTTAAATATTTT---
1 TTAT-AATATTTTAAA
139019841 TTATAATATTTTAAA
1 TTATAATATTTTAAA
139019856 TTATAAT-TTTTAAA
1 TTATAATATTTTAAA
139019870 TTAT
1 TTAT
139019874 TTAAAATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 13
0.74 0.06 0.20
Matches are distributed among these distances:
12 8 0.16
13 12 0.24
14 15 0.31
15 7 0.14
16 7 0.14
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (15 bp):
TTATAATATTTTAAA
Found at i:139019880 original size:24 final size:24
Alignment explanation
Indices: 139019838--139019894 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
139019828 TTTTAAATAT
*
139019838 TTTTTATAATATTTTAAAT-TATAA
1 TTTTTA-AATATTTAAAATATATAA
*
139019862 TTTTTAAATTATTTAAAATATATTA
1 TTTTTAAA-TATTTAAAATATATAA
139019887 TTTTTAAA
1 TTTTTAAA
139019895 GAATGACCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 15 0.52
25 12 0.41
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (24 bp):
TTTTTAAATATTTAAAATATATAA
Found at i:139019955 original size:11 final size:10
Alignment explanation
Indices: 139019921--139019967 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
139019911 TTATTATTTG
139019921 TTTATAATA-T
1 TTTA-AATATT
139019931 TTTAAATATT
1 TTTAAATATT
139019941 TTTAAATATT
1 TTTAAATATT
*
139019951 TTTTAA-A-T
1 TTTAAATATT
139019959 TTTAAATAT
1 TTTAAATAT
139019968 AATTTTATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
8 6 0.19
9 6 0.19
10 20 0.62
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
TTTAAATATT
Found at i:139019960 original size:28 final size:27
Alignment explanation
Indices: 139019929--139019992 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
139019919 TGTTTATAAT
*
139019929 ATTTTAAATAT-TTTTAAATATTTTTTAA
1 ATTTTAAATATATTTTAAATA-TTATT-A
*
139019957 ATTTTAAATATAATTTTATATATTATTA
1 ATTTTAAATAT-ATTTTAAATATTATTA
139019985 ATTTTAAA
1 ATTTTAAA
139019993 ATTAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 20 0.62
29 4 0.12
30 8 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (27 bp):
ATTTTAAATATATTTTAAATATTATTA
Found at i:139019971 original size:12 final size:13
Alignment explanation
Indices: 139019956--139020004 Score: 57
Period size: 12 Copynumber: 3.7 Consensus size: 13
139019946 ATATTTTTTA
139019956 AATTTTAAATA-T
1 AATTTTAAATATT
139019968 AATTTTATATATTATT
1 AATTTTA-A-A-TATT
139019984 AATTTTAAA-ATT
1 AATTTTAAATATT
139019996 AATTTTAAA
1 AATTTTAAA
139020005 GATATTCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
12 19 0.58
13 1 0.03
14 2 0.06
15 3 0.09
16 8 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTTTAAATATT
Found at i:139020148 original size:20 final size:20
Alignment explanation
Indices: 139020123--139020261 Score: 77
Period size: 20 Copynumber: 6.7 Consensus size: 20
139020113 TTTTATATTA
139020123 TTAAAAAATATATTTAATAT
1 TTAAAAAATATATTTAATAT
*
139020143 TT-AAAAATCATAATTTAAAAT
1 TTAAAAAAT-AT-ATTTAATAT
* *
139020164 TTAAAAAAATTAAAATTTAATTT
1 TT-AAAAAA-T-ATATTTAATAT
** * **
139020187 TTAAAATTTAAAAATAATAT
1 TTAAAAAATATATTTAATAT
**
139020207 TTAAAATTTAA-ATAAATAAT-T
1 TTAAAA---AATATATTTAATAT
*
139020228 TTAAAAATATATATTTAAAAT
1 TTAAAAA-ATATATTTAATAT
139020249 TTAAAAAATATAT
1 TTAAAAAATATAT
139020262 ATTATAAAAT
Statistics
Matches: 92, Mismatches: 16, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
18 1 0.01
19 7 0.08
20 30 0.33
21 26 0.28
22 12 0.13
23 14 0.15
24 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAAAAATATATTTAATAT
Found at i:139020149 original size:21 final size:21
Alignment explanation
Indices: 139020125--139020264 Score: 74
Period size: 21 Copynumber: 6.6 Consensus size: 21
139020115 TTATATTATT
139020125 AAAAAATATATTTAATATTTA
1 AAAAAATATATTTAATATTTA
* *
139020146 AAAATCATA-ATTTAAAATTTA
1 AAAA-AATATATTTAATATTTA
* *
139020167 AAAAAATTAAAATTTAAT-TTTT
1 AAAAAA-T-ATATTTAATATTTA
** * **
139020189 AAAATTTAAAAATAATATTTA
1 AAAAAATATATTTAATATTTA
*
139020210 AAATTTAAATA-A-ATAAT-TTTA
1 AAA---AAATATATTTAATATTTA
* *
139020231 AAAATATATATTTAAAATTTA
1 AAAAAATATATTTAATATTTA
139020252 AAAAATATATATT
1 AAAAA-ATATATT
139020265 ATAAAATATT
Statistics
Matches: 91, Mismatches: 16, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
18 4 0.04
19 1 0.01
20 11 0.12
21 42 0.46
22 23 0.25
23 7 0.08
24 3 0.03
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
AAAAAATATATTTAATATTTA
Found at i:139020164 original size:7 final size:7
Alignment explanation
Indices: 139020134--139020218 Score: 64
Period size: 7 Copynumber: 12.0 Consensus size: 7
139020124 TAAAAAATAT
*
139020134 ATTTAAT
1 ATTTAAA
139020141 ATTTAAA
1 ATTTAAA
* * *
139020148 AATCATA
1 ATTTAAA
139020155 ATTTAAA
1 ATTTAAA
139020162 ATTTAAAAA
1 ATTT--AAA
*
139020171 AATTAAA
1 ATTTAAA
*
139020178 ATTTAAT
1 ATTTAAA
*
139020185 TTTTAAA
1 ATTTAAA
139020192 ATTTAAA
1 ATTTAAA
* *
139020199 A-ATAAT
1 ATTTAAA
139020205 ATTTAAA
1 ATTTAAA
139020212 ATTTAAA
1 ATTTAAA
139020219 TAAATAATTT
Statistics
Matches: 58, Mismatches: 17, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
6 4 0.07
7 48 0.83
9 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTTAAA
Found at i:139020180 original size:23 final size:23
Alignment explanation
Indices: 139020145--139020192 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
139020135 TTTAATATTT
*
139020145 AAAAATCATAATTTAAAATTTAA
1 AAAAATCAAAATTTAAAATTTAA
* **
139020168 AAAAATTAAAATTTAATTTTTAA
1 AAAAATCAAAATTTAAAATTTAA
139020191 AA
1 AA
139020193 TTTAAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAAATCAAAATTTAAAATTTAA
Found at i:139020249 original size:22 final size:22
Alignment explanation
Indices: 139020224--139020294 Score: 81
Period size: 22 Copynumber: 3.2 Consensus size: 22
139020214 TTAAATAAAT
139020224 AATTTTAAAAATATATATTTAA
1 AATTTTAAAAATATATATTTAA
*
139020246 AATTTAAAAAATATATATTATAA
1 AATTTTAAAAATATATATT-TAA
* * *
139020269 AATATTT-CAAATATTTTTTTAA
1 AAT-TTTAAAAATATATATTTAA
139020291 AATT
1 AATT
139020295 AATAATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
21 1 0.02
22 24 0.57
23 15 0.36
24 2 0.05
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (22 bp):
AATTTTAAAAATATATATTTAA
Found at i:139020249 original size:35 final size:35
Alignment explanation
Indices: 139020193--139020273 Score: 121
Period size: 35 Copynumber: 2.3 Consensus size: 35
139020183 ATTTTTAAAA
139020193 TTTAAAAATA-ATATTTAAAATTTAAATAAATA-AT
1 TTTAAAAATATATATTTAAAATTTAAA-AAATATAT
139020227 TTTAAAAATATATATTTAAAATTTAAAAAATATAT
1 TTTAAAAATATATATTTAAAATTTAAAAAATATAT
*
139020262 ATTATAAAATAT
1 TTTA-AAAATAT
139020274 TTCAAATATT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
34 15 0.35
35 21 0.49
36 7 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (35 bp):
TTTAAAAATATATATTTAAAATTTAAAAAATATAT
Found at i:139021872 original size:43 final size:44
Alignment explanation
Indices: 139021795--139021881 Score: 140
Period size: 43 Copynumber: 2.0 Consensus size: 44
139021785 TAAAGGTCAT
* *
139021795 GTCATGGCCTTTAGCGGGTGCTTTTCCCAAAAACGCCGCTAAAG
1 GTCAAGGCCTTTAGCGGGCGCTTTTCCCAAAAACGCCGCTAAAG
*
139021839 GTCAAGGCCTTTAGC-GGCGCTTTTCCCACAAACGCCGCTAAAG
1 GTCAAGGCCTTTAGCGGGCGCTTTTCCCAAAAACGCCGCTAAAG
139021882 ATCATCTCCT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 26 0.65
44 14 0.35
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (44 bp):
GTCAAGGCCTTTAGCGGGCGCTTTTCCCAAAAACGCCGCTAAAG
Found at i:139021893 original size:43 final size:44
Alignment explanation
Indices: 139021801--139021894 Score: 127
Period size: 43 Copynumber: 2.2 Consensus size: 44
139021791 TCATGTCATG
* * *
139021801 GCCTTTAGCGGGTGCTTTTCCCAAAAACGCCGCTAAAGGTCAAG
1 GCCTTTAGCGGGCGCTTTTCCCAAAAACGCCGCTAAAGATCAAC
* *
139021845 GCCTTTAGC-GGCGCTTTTCCCACAAACGCCGCTAAAGATCATC
1 GCCTTTAGCGGGCGCTTTTCCCAAAAACGCCGCTAAAGATCAAC
*
139021888 TCCTTTA
1 GCCTTTA
139021895 AAAAAATATT
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 35 0.80
44 9 0.20
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (44 bp):
GCCTTTAGCGGGCGCTTTTCCCAAAAACGCCGCTAAAGATCAAC
Found at i:139022198 original size:31 final size:31
Alignment explanation
Indices: 139022122--139022195 Score: 100
Period size: 31 Copynumber: 2.4 Consensus size: 31
139022112 TCAAGTTATC
139022122 TTAAATATTAAAATAAAAATAAAAATTTAGAA
1 TTAAATA-TAAAATAAAAATAAAAATTTAGAA
139022154 TTAAA-ACTAAAATAAATAATAAAAA-TTAG-A
1 TTAAATA-TAAAATAAA-AATAAAAATTTAGAA
139022184 TTAAATATAAAA
1 TTAAATATAAAA
139022196 ATATCAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
30 11 0.28
31 15 0.38
32 13 0.33
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (31 bp):
TTAAATATAAAATAAAAATAAAAATTTAGAA
Found at i:139027302 original size:41 final size:41
Alignment explanation
Indices: 139027257--139027366 Score: 166
Period size: 41 Copynumber: 2.7 Consensus size: 41
139027247 ATCTAGGTTT
*
139027257 TAGCGGCGCTTTTGGAAAAACGTCGCTAAAACCTAGATCTA
1 TAGCGGCGCTTTTGGAAAAACGCCGCTAAAACCTAGATCTA
*
139027298 TAGCGGCGCTTTTGGAAAAACGCCGCTAAAACCTCGATCTA
1 TAGCGGCGCTTTTGGAAAAACGCCGCTAAAACCTAGATCTA
* ** *
139027339 TAGCGGCGTTTTTACAAAAGCGCCGCTA
1 TAGCGGCGCTTTTGGAAAAACGCCGCTA
139027367 TTGTTCAGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 63 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.24
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTAAAACCTAGATCTA
Found at i:139027399 original size:82 final size:82
Alignment explanation
Indices: 139027313--139027471 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 82
139027303 GCGCTTTTGG
* * *
139027313 AAAAACGCCGCTAAAACCTC-GATCTATAGCGGCGTTTTTA-CAAAAGCGCCGCTATTGTTCAGT
1 AAAAACGCCGC-AAAACCTCAG-TCTATAGCGGCGTTTGTACCAAAAACGCCGCTATTGCTCAGT
139027376 TTTTAGCGGCGTTTGGACT
64 TTTTAGCGGCGTTTGGACT
* *** * *
139027395 AAAAACGCCGCCATTGCTCAGTTTTTAGCGGCGTTTGTACCAAAAACGCCGCTATTGCTCAGTTT
1 AAAAACGCCGCAAAACCTCAGTCTATAGCGGCGTTTGTACCAAAAACGCCGCTATTGCTCAGTTT
*
139027460 TTTGCGGCGTTT
66 TTAGCGGCGTTT
139027472 TATTGCAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
81 19 0.29
82 46 0.71
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.31
Consensus pattern (82 bp):
AAAAACGCCGCAAAACCTCAGTCTATAGCGGCGTTTGTACCAAAAACGCCGCTATTGCTCAGTTT
TTAGCGGCGTTTGGACT
Found at i:139027404 original size:41 final size:40
Alignment explanation
Indices: 139027339--139027471 Score: 194
Period size: 41 Copynumber: 3.3 Consensus size: 40
139027329 CCTCGATCTA
* * *
139027339 TAGCGGCGTTTTTACAAAAGCGCCGCTATTGTTCAGTTTT
1 TAGCGGCGTTTGTACAAAAACGCCGCTATTGCTCAGTTTT
* *
139027379 TAGCGGCGTTTGGACTAAAAACGCCGCCATTGCTCAGTTTT
1 TAGCGGCGTTTGTAC-AAAAACGCCGCTATTGCTCAGTTTT
139027420 TAGCGGCGTTTGTACCAAAAACGCCGCTATTGCTCAGTTTT
1 TAGCGGCGTTTGTA-CAAAAACGCCGCTATTGCTCAGTTTT
*
139027461 TTGCGGCGTTT
1 TAGCGGCGTTT
139027472 TATTGCAAAC
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
40 13 0.16
41 69 0.83
42 1 0.01
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.34
Consensus pattern (40 bp):
TAGCGGCGTTTGTACAAAAACGCCGCTATTGCTCAGTTTT
Found at i:139034856 original size:58 final size:58
Alignment explanation
Indices: 139034792--139034949 Score: 226
Period size: 66 Copynumber: 2.6 Consensus size: 58
139034782 TCAAACTACC
*
139034792 CAAACTTATAACTCTAAACTTTAAAATTAAACTTAAACCTTGAATTCAAACTTAAACT
1 CAAACTTATAACTCTAAACTTTAAAATTAAACTTAAACATTGAATTCAAACTTAAACT
139034850 CAAACTTATAACTCTAAACTTTAAAATTAAACCTTTAAAGTTAAACATTGAATTCAAACTTAAAC
1 CAAACTTATAACTCTAAACTTTAAAATTAAA-C-------TTAAACATTGAATTCAAACTTAAAC
139034915 T
58 T
*
139034916 CAAATTTATAACTCTAAACTTTAAAATTAAACTT
1 CAAACTTATAACTCTAAACTTTAAAATTAAACTT
139034950 TTAAAGTTAA
Statistics
Matches: 90, Mismatches: 2, Indels: 16
0.83 0.02 0.15
Matches are distributed among these distances:
58 33 0.37
59 1 0.01
65 1 0.01
66 55 0.61
ACGTcount: A:0.47, C:0.17, G:0.02, T:0.34
Consensus pattern (58 bp):
CAAACTTATAACTCTAAACTTTAAAATTAAACTTAAACATTGAATTCAAACTTAAACT
Found at i:139034862 original size:19 final size:19
Alignment explanation
Indices: 139034792--139034869 Score: 54
Period size: 19 Copynumber: 4.0 Consensus size: 19
139034782 TCAAACTACC
139034792 CAAACTTATAACTCTAAACTT
1 CAAACTTA-AACTCTAAAC-T
* *
139034813 TAAAATTAAACT-TAAACCT
1 CAAACTTAAACTCTAAA-CT
**
139034832 TGAA-TTCAAACT-TAAACT
1 CAAACTT-AAACTCTAAACT
139034850 CAAACTTATAACTCTAAACT
1 CAAACTTA-AACTCTAAACT
139034870 TTAAAATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
18 7 0.15
19 23 0.49
20 11 0.23
21 6 0.13
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.32
Consensus pattern (19 bp):
CAAACTTAAACTCTAAACT
Found at i:139034870 original size:14 final size:12
Alignment explanation
Indices: 139034818--139034982 Score: 69
Period size: 13 Copynumber: 12.7 Consensus size: 12
139034808 AACTTTAAAA
*
139034818 TTAAACTTAAACC
1 TTAAACTCAAA-C
* *
139034831 TTGAATTCAAAC
1 TTAAACTCAAAC
139034843 TTAAACTCAAAC
1 TTAAACTCAAAC
139034855 TTATAACTCTAAAC
1 TTA-AACTC-AAAC
* *
139034869 TTTAAAATTAAACC
1 -TTAAACTCAAA-C
* *
139034883 TTTAAAGTTAAAC
1 -TTAAACTCAAAC
* *
139034896 ATTGAATTCAAAC
1 -TTAAACTCAAAC
*
139034909 TTAAACTCAAAT
1 TTAAACTCAAAC
139034921 TTATAACTCTAAAC
1 TTA-AACTC-AAAC
* *
139034935 TTTAAAATTAAAC
1 -TTAAACTCAAAC
* *
139034948 TTTTAAAGTTAAACC
1 --TTAAACTCAAA-C
* *
139034963 TTGAATTCAAAC
1 TTAAACTCAAAC
139034975 TTAAACTC
1 TTAAACTC
139034983 TAAATTTTAA
Statistics
Matches: 119, Mismatches: 24, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
12 33 0.28
13 43 0.36
14 36 0.30
15 7 0.06
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (12 bp):
TTAAACTCAAAC
Found at i:139034894 original size:66 final size:66
Alignment explanation
Indices: 139034818--139034982 Score: 294
Period size: 66 Copynumber: 2.5 Consensus size: 66
139034808 AACTTTAAAA
*
139034818 TTAAACTTAAACCTTGAATTCAAACTTAAACTCAAACTTATAACTCTAAACTTTAAAATTAAACC
1 TTAAAGTTAAACCTTGAATTCAAACTTAAACTCAAACTTATAACTCTAAACTTTAAAATTAAACC
139034883 T
66 T
* * *
139034884 TTAAAGTTAAACATTGAATTCAAACTTAAACTCAAATTTATAACTCTAAACTTTAAAATTAAACT
1 TTAAAGTTAAACCTTGAATTCAAACTTAAACTCAAACTTATAACTCTAAACTTTAAAATTAAACC
139034949 T
66 T
139034950 TTAAAGTTAAACCTTGAATTCAAACTTAAACTC
1 TTAAAGTTAAACCTTGAATTCAAACTTAAACTC
139034983 TAAATTTTAA
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
66 94 1.00
ACGTcount: A:0.45, C:0.17, G:0.03, T:0.35
Consensus pattern (66 bp):
TTAAAGTTAAACCTTGAATTCAAACTTAAACTCAAACTTATAACTCTAAACTTTAAAATTAAACC
T
Found at i:139034940 original size:7 final size:7
Alignment explanation
Indices: 139034801--139035002 Score: 51
Period size: 6 Copynumber: 30.7 Consensus size: 7
139034791 CCAAACTTAT
*
139034801 AACTCTA
1 AACTTTA
139034808 AACTTTA
1 AACTTTA
*
139034815 AA-ATTA
1 AACTTTA
139034821 AAC-TTA
1 AACTTTA
* *
139034827 AACCTTG
1 AACTTTA
*
139034834 AA-TTCA
1 AACTTTA
139034840 AAC-TTA
1 AACTTTA
*
139034846 AAC-TCA
1 AACTTTA
139034852 AAC-TTA
1 AACTTTA
*
139034858 TAACTCTA
1 -AACTTTA
139034866 AACTTTA
1 AACTTTA
*
139034873 AA-ATTA
1 AACTTTA
139034879 AACCTTTA
1 AA-CTTTA
*
139034887 AA-GTTA
1 AACTTTA
* *
139034893 AACATTG
1 AACTTTA
*
139034900 AA-TTCA
1 AACTTTA
139034906 AAC-TTA
1 AACTTTA
*
139034912 AAC-TCA
1 AACTTTA
139034918 AA-TTTA
1 AACTTTA
*
139034924 TAACTCTA
1 -AACTTTA
139034932 AACTTTA
1 AACTTTA
*
139034939 AA-ATTA
1 AACTTTA
139034945 AACTTTTA
1 AAC-TTTA
*
139034953 AA-GTTA
1 AACTTTA
* *
139034959 AACCTTG
1 AACTTTA
*
139034966 AA-TTCA
1 AACTTTA
139034972 AAC-TTA
1 AACTTTA
*
139034978 AACTCTA
1 AACTTTA
*
139034985 AATTTTA
1 AACTTTA
*
139034992 AA-TTTG
1 AACTTTA
139034998 AACTT
1 AACTT
139035003 CAAAATTAAA
Statistics
Matches: 140, Mismatches: 37, Indels: 36
0.66 0.17 0.17
Matches are distributed among these distances:
6 73 0.52
7 52 0.37
8 15 0.11
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.36
Consensus pattern (7 bp):
AACTTTA
Found at i:139034993 original size:33 final size:32
Alignment explanation
Indices: 139034819--139035012 Score: 137
Period size: 33 Copynumber: 5.9 Consensus size: 32
139034809 ACTTTAAAAT
* *
139034819 TAAACTTAAACCTTGAA-TTCAAACTTAAACTC
1 TAAAGTTAAA-CTTGAACTTCAAAATTAAACTC
* * * *
139034851 -AAACTTATAACTCTAAACTTTAAAATTAAACCTT
1 TAAAGTTA-AACT-TGAACTTCAAAATTAAA-CTC
*
139034885 TAAAGTTAAACATTGAA-TTCAAACTTAAACTC
1 TAAAGTTAAAC-TTGAACTTCAAAATTAAACTC
* * * *
139034917 -AAATTTATAACTCTAAACTTTAAAATTAAACTTT
1 TAAAGTTA-AACT-TGAACTTCAAAATTAAAC-TC
*
139034951 TAAAGTTAAACCTTGAA-TTCAAACTTAAACTC
1 TAAAGTTAAA-CTTGAACTTCAAAATTAAACTC
* *
139034983 TAAATTTTAAATTTGAACTTCAAAATTAAA
1 TAAA-GTTAAACTTGAACTTCAAAATTAAA
139035013 GTATAGGTTT
Statistics
Matches: 126, Mismatches: 22, Indels: 27
0.72 0.13 0.15
Matches are distributed among these distances:
31 16 0.13
32 23 0.18
33 58 0.46
34 14 0.11
35 15 0.12
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.35
Consensus pattern (32 bp):
TAAAGTTAAACTTGAACTTCAAAATTAAACTC
Found at i:139035002 original size:66 final size:65
Alignment explanation
Indices: 139034818--139035012 Score: 291
Period size: 66 Copynumber: 3.0 Consensus size: 65
139034808 AACTTTAAAA
* *
139034818 TTAAACTTAAACCTTGAATTCAAACTTAAACTCAAACTTATAACTCTAAACTTTAAAATTAAACC
1 TTAAAGTTAAACCTTGAATTCAAACTTAAACTCAAA-TTTTAACTCTAAACTTTAAAATTAAACC
139034883 T
65 T
* *
139034884 TTAAAGTTAAACATTGAATTCAAACTTAAACTCAAATTTATAACTCTAAACTTTAAAATTAAACT
1 TTAAAGTTAAACCTTGAATTCAAACTTAAACTCAAATTT-TAACTCTAAACTTTAAAATTAAACC
139034949 T
65 T
* * * *
139034950 TTAAAGTTAAACCTTGAATTCAAACTTAAACTCTAAATTTTAAATTTGAACTTCAAAATTAAA
1 TTAAAGTTAAACCTTGAATTCAAACTTAAACTC-AAATTTTAACTCTAAACTTTAAAATTAAA
139035013 GTATAGGTTT
Statistics
Matches: 118, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
65 2 0.02
66 110 0.93
67 6 0.05
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.35
Consensus pattern (65 bp):
TTAAAGTTAAACCTTGAATTCAAACTTAAACTCAAATTTTAACTCTAAACTTTAAAATTAAACCT
Found at i:139035027 original size:19 final size:18
Alignment explanation
Indices: 139035005--139035046 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
139034995 TTGAACTTCA
139035005 AAATTAAAGTATAGGTTTC
1 AAATT-AAGTATAGGTTTC
*
139035024 AAATTTAGTATAGGTTTC
1 AAATTAAGTATAGGTTTC
139035042 AAATT
1 AAATT
139035047 TTGAGGTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.40
Consensus pattern (18 bp):
AAATTAAGTATAGGTTTC
Found at i:139035035 original size:18 final size:18
Alignment explanation
Indices: 139035012--139035047 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
139035002 TCAAAATTAA
139035012 AGTATAGGTTTCAAATTT
1 AGTATAGGTTTCAAATTT
139035030 AGTATAGGTTTCAAATTT
1 AGTATAGGTTTCAAATTT
139035048 TGAGGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
AGTATAGGTTTCAAATTT
Found at i:139037346 original size:6 final size:6
Alignment explanation
Indices: 139037335--139037360 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
139037325 AACCGTTTTC
139037335 TCCAAT TCCAAT TCCAAT TCCAAT TC
1 TCCAAT TCCAAT TCCAAT TCCAAT TC
139037361 ATATGGTCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (6 bp):
TCCAAT
Found at i:139044437 original size:27 final size:27
Alignment explanation
Indices: 139044407--139044466 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
139044397 CTTAGTACAT
* **
139044407 AAAAAAAAAGAGACTCTTGAATGGGAA
1 AAAAAAAAAGAGAATCAAGAATGGGAA
** *
139044434 AAAAAATTAGAGAATCAAGTATGGGAA
1 AAAAAAAAAGAGAATCAAGAATGGGAA
139044461 AAAAAA
1 AAAAAA
139044467 TATAATAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.60, C:0.05, G:0.20, T:0.15
Consensus pattern (27 bp):
AAAAAAAAAGAGAATCAAGAATGGGAA
Found at i:139044557 original size:23 final size:23
Alignment explanation
Indices: 139044531--139044605 Score: 62
Period size: 23 Copynumber: 3.1 Consensus size: 23
139044521 AAAATACCTA
139044531 TCTCTACTTTTCATATATGTTAT
1 TCTCTACTTTTCATATATGTTAT
* * *
139044554 TCTCTTTCCTTTCTCATATTTAATTAT
1 TCTC--TACTTT-TCATATAT-GTTAT
* *
139044581 T-TTTATTTTTCATATATGTTAT
1 TCTCTACTTTTCATATATGTTAT
139044603 TCT
1 TCT
139044606 TTTTGTTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 5 0.13
23 12 0.31
24 4 0.10
25 5 0.13
26 8 0.21
27 5 0.13
ACGTcount: A:0.20, C:0.16, G:0.03, T:0.61
Consensus pattern (23 bp):
TCTCTACTTTTCATATATGTTAT
Found at i:139044565 original size:25 final size:25
Alignment explanation
Indices: 139044535--139044605 Score: 74
Period size: 24 Copynumber: 2.9 Consensus size: 25
139044525 TACCTATCTC
139044535 TACTTTTCATATATGTTATTCTCTT
1 TACTTTTCATATATGTTATTCTCTT
* * * *
139044560 TCCTTTCTCATAT-T-TAATTATTTT
1 TACTTT-TCATATATGTTATTCTCTT
*
139044584 TATTTTTCATATATGTTATTCT
1 TACTTTTCATATATGTTATTCT
139044606 TTTTGTTTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
23 6 0.17
24 12 0.34
25 11 0.31
26 6 0.17
ACGTcount: A:0.21, C:0.14, G:0.03, T:0.62
Consensus pattern (25 bp):
TACTTTTCATATATGTTATTCTCTT
Found at i:139044571 original size:26 final size:26
Alignment explanation
Indices: 139044537--139044636 Score: 66
Period size: 26 Copynumber: 4.0 Consensus size: 26
139044527 CCTATCTCTA
139044537 CTTT-TCATATATGTTATTCTCTTTC
1 CTTTCTCATATATGTTATTCTCTTTC
* * *
139044562 CTTTCTCATAT-T-TAATTAT-TTTT
1 CTTTCTCATATATGTTATTCTCTTTC
* * * *
139044585 ATTTTTCATATATGTTATTCTTTTTG
1 CTTTCTCATATATGTTATTCTCTTTC
* * *
139044611 TTTTCCCATATTTGATT-TTCTCTTTC
1 CTTTCTCATATATG-TTATTCTCTTTC
139044637 TTATCTCTAT
Statistics
Matches: 56, Mismatches: 14, Indels: 9
0.71 0.18 0.11
Matches are distributed among these distances:
23 12 0.21
24 6 0.11
25 10 0.18
26 26 0.46
27 2 0.04
ACGTcount: A:0.17, C:0.16, G:0.04, T:0.63
Consensus pattern (26 bp):
CTTTCTCATATATGTTATTCTCTTTC
Found at i:139044608 original size:25 final size:25
Alignment explanation
Indices: 139044538--139044614 Score: 77
Period size: 25 Copynumber: 3.1 Consensus size: 25
139044528 CTATCTCTAC
**
139044538 TTTTCATATATGTTATTCTCTTTCCT
1 TTTTCATATATGTTATTCT-TTTTAT
* * *
139044564 TTCTCATAT-T-TAATTATTTTTAT
1 TTTTCATATATGTTATTCTTTTTAT
*
139044587 TTTTCATATATGTTATTCTTTTTGT
1 TTTTCATATATGTTATTCTTTTTAT
139044612 TTT
1 TTT
139044615 CCCATATTTG
Statistics
Matches: 40, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 12 0.30
24 6 0.15
25 14 0.35
26 8 0.20
ACGTcount: A:0.18, C:0.12, G:0.04, T:0.66
Consensus pattern (25 bp):
TTTTCATATATGTTATTCTTTTTAT
Found at i:139044614 original size:24 final size:24
Alignment explanation
Indices: 139044537--139044615 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
139044527 CCTATCTCTA
*
139044537 CTTTTCATATATGTTATTCTCTTTC
1 CTTTTCATATATGTTATTCT-TTTT
* *
139044562 CTTTCTCATAT-T-TAATTATTTTT
1 CTTT-TCATATATGTTATTCTTTTT
*
139044585 ATTTTTCATATATGTTATTCTTTTT
1 -CTTTTCATATATGTTATTCTTTTT
*
139044610 GTTTTC
1 CTTTTC
139044616 CCATATTTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
23 9 0.21
24 14 0.33
25 14 0.33
26 6 0.14
ACGTcount: A:0.18, C:0.14, G:0.04, T:0.65
Consensus pattern (24 bp):
CTTTTCATATATGTTATTCTTTTT
Found at i:139044703 original size:23 final size:24
Alignment explanation
Indices: 139044640--139044703 Score: 62
Period size: 23 Copynumber: 2.8 Consensus size: 24
139044630 CTCTTTCTTA
* *
139044640 TCTCTATTTTGCATAT-TTGTTAT
1 TCTCTATTTTTCATATATTGTGAT
**
139044663 TCTCT-TTTCTTCCCATATT-TGAT
1 TCTCTATTT-TTCATATATTGTGAT
139044686 TCTCTATTTTTCATATAT
1 TCTCTATTTTTCATATAT
139044704 ATATATTAGT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
22 3 0.09
23 24 0.75
24 5 0.16
ACGTcount: A:0.17, C:0.19, G:0.05, T:0.59
Consensus pattern (24 bp):
TCTCTATTTTTCATATATTGTGAT
Found at i:139044804 original size:26 final size:26
Alignment explanation
Indices: 139044775--139044826 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
139044765 TATATATTTA
139044775 TTTTACATATTTGT-TATTCTCTTTCT
1 TTTTACATATTTGTCT-TTCTCTTTCT
*
139044801 TTTTTCATATTTGTCTTTCTCTTTCT
1 TTTTACATATTTGTCTTTCTCTTTCT
139044827 CATTCCTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 23 0.96
27 1 0.04
ACGTcount: A:0.12, C:0.17, G:0.04, T:0.67
Consensus pattern (26 bp):
TTTTACATATTTGTCTTTCTCTTTCT
Found at i:139045033 original size:17 final size:18
Alignment explanation
Indices: 139044991--139045047 Score: 70
Period size: 17 Copynumber: 3.4 Consensus size: 18
139044981 TTTTTCTTTT
139044991 TTTTTTTTCTATTTCAA-
1 TTTTTTTTCTATTTCAAC
*
139045008 --TTGTTTCTA-TTCAAC
1 TTTTTTTTCTATTTCAAC
139045023 TTTTTTTTCTATTTC-AC
1 TTTTTTTTCTATTTCAAC
139045040 TTTTTTTT
1 TTTTTTTT
139045048 TTTAATTCCC
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
17 18 0.53
18 3 0.09
ACGTcount: A:0.14, C:0.14, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTTTTCTATTTCAAC
Found at i:139045045 original size:15 final size:15
Alignment explanation
Indices: 139044993--139045045 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
139044983 TTTCTTTTTT
*
139044993 TTTTTTCTATTTCAA
1 TTTTTTCTATTTCAC
*
139045008 TTGTTTCTA-TTCAAC
1 TTTTTTCTATTTC-AC
139045023 TTTTTTTTCTATTTCAC
1 --TTTTTTCTATTTCAC
139045040 TTTTTT
1 TTTTTT
139045046 TTTTTAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 3 0.10
15 15 0.48
17 10 0.32
18 3 0.10
ACGTcount: A:0.15, C:0.15, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTTCTATTTCAC
Found at i:139047378 original size:15 final size:15
Alignment explanation
Indices: 139047358--139047409 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
139047348 ACTACAAAAC
139047358 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
139047373 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
139047392 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
139047407 ATT
1 ATT
139047410 AATATGAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:139047530 original size:16 final size:16
Alignment explanation
Indices: 139047491--139047535 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
139047481 ATAAAATTGA
* *
139047491 AATAATTTAATAAATT
1 AATAATTTATTATATT
139047507 -AT-ATTTATTATATT
1 AATAATTTATTATATT
139047521 AATAATTTATTATAT
1 AATAATTTATTATAT
139047536 GACTAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.40
15 4 0.16
16 11 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAATTTATTATATT
Found at i:139048960 original size:38 final size:38
Alignment explanation
Indices: 139048916--139048991 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
139048906 TAGGAATAGG
* * *
139048916 TTCTGAGCTCTTGCATATGTTGTGGACTCGAGAATACA
1 TTCTGAGCTCTTGCATATGCTGTAGACTCAAGAATACA
139048954 TTCTGAGCTCTTGCATATGCTGTAGACTCAAGAATACA
1 TTCTGAGCTCTTGCATATGCTGTAGACTCAAGAATACA
139048992 GATTTAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (38 bp):
TTCTGAGCTCTTGCATATGCTGTAGACTCAAGAATACA
Found at i:139051519 original size:22 final size:19
Alignment explanation
Indices: 139051494--139051533 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 19
139051484 TTCGATGAGT
139051494 TTGATATGACTTTTAGTATGAA
1 TTGAT-TGA-TTTTA-TATGAA
139051516 TTGATTGATTTTATATGA
1 TTGATTGATTTTATATGA
139051534 TACTCTGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 5 0.28
20 5 0.28
21 3 0.17
22 5 0.28
ACGTcount: A:0.30, C:0.03, G:0.17, T:0.50
Consensus pattern (19 bp):
TTGATTGATTTTATATGAA
Found at i:139054501 original size:35 final size:35
Alignment explanation
Indices: 139054433--139054543 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 35
139054423 GTCACTCTAT
* * * **
139054433 AGGACCTGTATACCATTTACATGGTATCACCCTGA
1 AGGACCTATATACCATTTACACGGTGTTGCCCTGA
*
139054468 AGGACCTATATACCGTTTACACGGTGTTGCCCTGA
1 AGGACCTATATACCATTTACACGGTGTTGCCCTGA
* * * *
139054503 AAGACTTATATATCATCTT-CACGGTGTTGCCCCGA
1 AGGACCTATATACCAT-TTACACGGTGTTGCCCTGA
139054538 AGGACC
1 AGGACC
139054544 AGTTAATAAC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
35 60 0.97
36 2 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (35 bp):
AGGACCTATATACCATTTACACGGTGTTGCCCTGA
Found at i:139056009 original size:20 final size:19
Alignment explanation
Indices: 139055984--139056024 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
139055974 ACAAAAATTA
*
139055984 TTATTCCCAGAAAATATAAT
1 TTATTCCAAGAAAATA-AAT
*
139056004 TTATTCTAAGAAAATAAAT
1 TTATTCCAAGAAAATAAAT
139056023 TT
1 TT
139056025 TCATTACTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 5 0.26
20 14 0.74
ACGTcount: A:0.46, C:0.10, G:0.05, T:0.39
Consensus pattern (19 bp):
TTATTCCAAGAAAATAAAT
Found at i:139056374 original size:9 final size:9
Alignment explanation
Indices: 139056353--139056385 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
139056343 CAAAATAATT
139056353 ATTAATT-A
1 ATTAATTAA
139056361 ATTAATTAA
1 ATTAATTAA
*
139056370 ATTAACTAA
1 ATTAATTAA
139056379 ATTAATT
1 ATTAATT
139056386 TCTCAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (9 bp):
ATTAATTAA
Found at i:139056402 original size:16 final size:18
Alignment explanation
Indices: 139056376--139056408 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
139056366 TTAAATTAAC
139056376 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
139056393 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
139056409 CCCGATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:139068055 original size:27 final size:28
Alignment explanation
Indices: 139067998--139068067 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
139067988 AAATTTGTAC
**
139067998 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
139068026 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
139068053 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
139068068 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:139068076 original size:27 final size:27
Alignment explanation
Indices: 139067998--139068079 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
139067988 AAATTTGTAC
* *
139067998 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
139068026 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
139068053 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
139068080 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:139083361 original size:23 final size:25
Alignment explanation
Indices: 139083335--139083381 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
139083325 TATCATTCAT
*
139083335 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
139083358 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
139083382 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:139083704 original size:46 final size:46
Alignment explanation
Indices: 139083642--139084072 Score: 475
Period size: 46 Copynumber: 9.9 Consensus size: 46
139083632 TTTGACGTGA
* * * * * *
139083642 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAAGT
* ** * * *
139083688 TGCTATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
* *
139083734 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
139083780 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
139083825 TGCCATGGTATCTTTCAACCATGGTC-T-CACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
139083863 TGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCA-ATCAAGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
139083908 TGCCATGGTATCTTTCAACCATGGTC-T-CACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
* * *
139083946 TGCCATGGTATCTTTCAACCAAGTTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
*
139083992 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
139084030 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
139084073 GAGAGCACAC
Statistics
Matches: 336, Mismatches: 25, Indels: 48
0.82 0.06 0.12
Matches are distributed among these distances:
38 90 0.27
39 5 0.01
40 13 0.04
41 1 0.00
43 11 0.03
44 6 0.02
45 67 0.20
46 143 0.43
ACGTcount: A:0.24, C:0.25, G:0.15, T:0.36
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAAGT
Found at i:139083874 original size:38 final size:38
Alignment explanation
Indices: 139083823--139084062 Score: 291
Period size: 38 Copynumber: 5.9 Consensus size: 38
139083813 TTTCAATCAA
139083823 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
* *
139083861 GTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCAATCAA
1 GTTGCCATGGTATCTTTCAACCATGGTC-T-CACA---C-A-CAG
139083906 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
* *
139083944 GTTGCCATGGTATCTTTCAACCAAGTTCTTACACATTTCATATCAG
1 GTTGCCATGGTATCTTTCAACCATGGTC-T-CACA---C--A-CAG
*
139083990 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACAG
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
*
139084028 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTCACACA
139084063 TTTCATATCA
Statistics
Matches: 178, Mismatches: 9, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
38 93 0.52
39 4 0.02
40 9 0.05
41 1 0.01
43 6 0.03
44 5 0.03
45 31 0.17
46 29 0.16
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (38 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTCACACACAG
Found at i:139083914 original size:83 final size:84
Alignment explanation
Indices: 139083775--139084072 Score: 537
Period size: 83 Copynumber: 3.6 Consensus size: 84
139083765 CATCTCATAT
*
139083775 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCA-ATCAAGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
139083839 TCAACCATGGTCTCACACA
66 TCAACCATGGTCTCACACA
139083858 CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCA-ATCAAGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
139083922 TCAACCATGGTCTCACACA
66 TCAACCATGGTCTCACACA
* *
139083941 CAGGTTGCCATGGTATCTTTCAACCAAGTTCTTACACATTTCATATCAGGTTGCCATGGTATCTT
1 CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
*
139084006 TCAACCATGGTCTTACACA
66 TCAACCATGGTCTCACACA
*
139084025 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCA
139084073 GAGAGCACAC
Statistics
Matches: 208, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
83 124 0.60
84 84 0.40
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (84 bp):
CAGGTTGCCATGGTATCTTTCAACCAAGGTCTTACACATTTCATATCAAGTTGCCATGGTATCTT
TCAACCATGGTCTCACACA
Found at i:139086210 original size:11 final size:11
Alignment explanation
Indices: 139086194--139086241 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
139086184 CTTTATATAC
139086194 TAATAAAATAA
1 TAATAAAATAA
*
139086205 TAATAAAATATCT
1 TAATAAAATA--A
* *
139086218 TATTAAAATAT
1 TAATAAAATAA
139086229 TAATAAAATAA
1 TAATAAAATAA
139086240 TA
1 TA
139086242 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 22 0.71
13 9 0.29
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.35
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:139086279 original size:31 final size:30
Alignment explanation
Indices: 139086200--139086279 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 30
139086190 ATACTAATAA
*
139086200 AATAATAATAA-AATATCTTATTAAAATATT
1 AATAA-AATAATAATATCTAATTAAAATATT
*
139086230 AATAAAATAATATTTATCTAATT-AAATAATT
1 AATAAAATAATA-ATATCTAATTAAAAT-ATT
139086261 -ATAAAATATCATAATATCT
1 AATAAAATA--ATAATATCT
139086280 CTAGCATCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
29 5 0.12
30 18 0.43
31 16 0.38
32 3 0.07
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
AATAAAATAATAATATCTAATTAAAATATT
Found at i:139087452 original size:10 final size:10
Alignment explanation
Indices: 139087437--139087461 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
139087427 ACTTCATTTC
139087437 ACCATTCCTA
1 ACCATTCCTA
139087447 ACCATTCCTA
1 ACCATTCCTA
139087457 ACCAT
1 ACCAT
139087462 CCCTCATCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.40, G:0.00, T:0.28
Consensus pattern (10 bp):
ACCATTCCTA
Found at i:139087471 original size:7 final size:7
Alignment explanation
Indices: 139087459--139087483 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
139087449 CATTCCTAAC
139087459 CATCCCT
1 CATCCCT
139087466 CATCCCT
1 CATCCCT
139087473 CATCCCT
1 CATCCCT
139087480 CATC
1 CATC
139087484 ATTCTCTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.56, G:0.00, T:0.28
Consensus pattern (7 bp):
CATCCCT
Found at i:139089085 original size:483 final size:482
Alignment explanation
Indices: 139088157--139089120 Score: 1802
Period size: 483 Copynumber: 2.0 Consensus size: 482
139088147 TTGTTAGCCG
139088157 AATTTGGGGAGTAAAAAGGGGAATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAGGAG
1 AATTTGGGGAGTAAAAAGGGGAATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAGGAG
* *
139088222 AAAATTAAGGAGGAAATCGAGTAAGTTCGAATTTGGAGGAGAGTCATGTCGGGTTTGAACTCTGG
66 AAAATTAAGGAGCAAATCGAGTAAGTTCGAATTTGGAGGAGAGTCATGTAGGGTTTGAACTCTGG
* *
139088287 CTCTTAGTGTTTCGGTTGTGTGGGAGTGTTGGGGAGGTGTTTAGTGTGTTGAAGGCTAATCGAAT
131 CTCTTAGTGTTTCGGTTGTGTAGGAGTGTTGGGGAGGTGTTTAGTGTGTTGAAGGCTAACCGAAT
* *
139088352 CTGGTAAGTTCATTTGGTAAAAAATTCGGCTATAGTAAATGGGTGCTGAAATTGGTTCTACTTTG
196 CTGGTAAGTTCATTTGGTAAAAAATTCGACTATAGTAAATGGGTGCCGAAATTGGTTCTACTTTG
*
139088417 GGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCATGTTGGCAGCT
261 GGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCAGCT
139088482 TCATTTCTTTTGTTTTATTTGCTTTAATCGAATACTCCTATAAACTTTTCTCAATCTCTTGATTT
326 TCATTTCTTTTGTTTTATTTGCTTTAATCGAATACTCCTATAAACTTTTCTCAATCTCTTGATTT
139088547 CTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATTATC
391 CTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATTATC
139088612 TGACATTAGTGAAGGCCGATTGTTCCA
456 TGACATTAGTGAAGGCCGATTGTTCCA
*
139088639 AATTTGGGGAGTAAAAAGGTGGGATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAGGA
1 AATTTGGGGAGTAAAAAGG-GGAATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAGGA
* *
139088704 GAGAATTAAGGAGCAAATCGAGTAAGTTCGAATTTGGAGGAGAGTCATGTAGGGTTTGAACTTTG
65 GAAAATTAAGGAGCAAATCGAGTAAGTTCGAATTTGGAGGAGAGTCATGTAGGGTTTGAACTCTG
*
139088769 GCTCTTAGTGTTTCGGTTGTGTAGGAGTGTTTGGGAGGTGTTTAGTGTGTTGAAGGCTAACCGAA
130 GCTCTTAGTGTTTCGGTTGTGTAGGAGTGTTGGGGAGGTGTTTAGTGTGTTGAAGGCTAACCGAA
* *
139088834 TCTGGTGAGTTCATTTGGTAAAATATTCGACTATAGTAAATGGGTGCCGAAATTGGTTCTACTTT
195 TCTGGTAAGTTCATTTGGTAAAAAATTCGACTATAGTAAATGGGTGCCGAAATTGGTTCTACTTT
139088899 GGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCAGC
260 GGGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCAGC
139088964 TTCATTTCTTTTGTTTTATTTGCTTTAATCGAATACTCCTATAAACTTTTCTCAATCTCTTGATT
325 TTCATTTCTTTTGTTTTATTTGCTTTAATCGAATACTCCTATAAACTTTTCTCAATCTCTTGATT
139089029 TCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATTAT
390 TCTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATTAT
139089094 CTGACATTAGTGAAGGCCGATTGTTCC
455 CTGACATTAGTGAAGGCCGATTGTTCC
139089121 GATCGAGTAC
Statistics
Matches: 468, Mismatches: 13, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
482 19 0.04
483 449 0.96
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.38
Consensus pattern (482 bp):
AATTTGGGGAGTAAAAAGGGGAATTTTCAGTTGTTGAGGTTTGTGAGTAGGAGGGTTCTTAGGAG
AAAATTAAGGAGCAAATCGAGTAAGTTCGAATTTGGAGGAGAGTCATGTAGGGTTTGAACTCTGG
CTCTTAGTGTTTCGGTTGTGTAGGAGTGTTGGGGAGGTGTTTAGTGTGTTGAAGGCTAACCGAAT
CTGGTAAGTTCATTTGGTAAAAAATTCGACTATAGTAAATGGGTGCCGAAATTGGTTCTACTTTG
GGTGCCGATTTGTGTATTAGCTAACTGAGTGTCGACTTCGTTCTCAATATCTCAGGTTGGCAGCT
TCATTTCTTTTGTTTTATTTGCTTTAATCGAATACTCCTATAAACTTTTCTCAATCTCTTGATTT
CTCTTTTTGGCAGAATACCTTAGTGACCTTTTCTCTTCATCTTGTTTTTCTTCAAACTGATTATC
TGACATTAGTGAAGGCCGATTGTTCCA
Found at i:139093006 original size:40 final size:40
Alignment explanation
Indices: 139092950--139093205 Score: 322
Period size: 40 Copynumber: 6.5 Consensus size: 40
139092940 CGGATGATAA
* * * * *
139092950 CCGGGCAAAGTTCCGAAGGCATTTGCGCTAGTGACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
139092990 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
139093030 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
139093069 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
139093109 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
139093149 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
139093188 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
139093206 TACTTGGCTT
Statistics
Matches: 194, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
38 15 0.08
39 53 0.27
40 126 0.65
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:139093178 original size:119 final size:119
Alignment explanation
Indices: 139092950--139093179 Score: 329
Period size: 119 Copynumber: 1.9 Consensus size: 119
139092940 CGGATGATAA
* * *
139092950 CCGGGCAAAGTTCCGAAGGCATTTGCGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCAAAGTCCCGAAGGCATTTGCGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGG
* *
139093015 CGCGAGTTATTACATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACAT
66 CGCGAGTTACTACATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTATTACAT
* * *
139093069 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCTCGAAGGCATTG
1 CCGGGCAAAGTCCCGAAGGCATTTGCGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTG
* * *
139093133 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
65 GCGCGAGTTACTACATCCGGGCTAAGT-CCGAAGGCATTTGAGCGAGT
139093180 AGCTATATCC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
119 88 0.90
120 10 0.10
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCAAAGTCCCGAAGGCATTTGCGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGG
CGCGAGTTACTACATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTATTACAT
Found at i:139093190 original size:79 final size:80
Alignment explanation
Indices: 139092950--139093191 Score: 321
Period size: 79 Copynumber: 3.0 Consensus size: 80
139092940 CGGATGATAA
* * * *
139092950 CCGGGCAAAGT-TCCGAAGGCATTTGCGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
* * * *
139093014 GCGCGAGTTATTACAT
65 GAGCGAGCTACTATAT
* *
139093030 CCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTATTACATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
139093094 TGCGAGCTACTATAT
66 AGCGAGCTACTATAT
* *
139093109 CCGGGCTAAGTCTCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTG
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
139093173 AGCGAG-TAGCTATAT
66 AGCGAGCTA-CTATAT
139093188 CCGG
1 CCGG
139093192 TTAAATCCCG
Statistics
Matches: 144, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
78 2 0.01
79 88 0.61
80 54 0.38
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
AGCGAGCTACTATAT
Found at i:139093190 original size:119 final size:119
Alignment explanation
Indices: 139092950--139093205 Score: 322
Period size: 119 Copynumber: 2.2 Consensus size: 119
139092940 CGGATGATAA
* * * *
139092950 CCGGGCAAAGTTCCGAAGGCATTTGCGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGG
* * *
139093015 CGCGAGTTATTACATCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTATTACAT
66 CGCGAGTTACTACATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTACAT
* *
139093069 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCT-ACTATATCCGGGCTAAGTCTCGAAGGCATTG
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAG-TGACTATATCCGGGCTAAGTCCCGAAGGCATTG
* * * *
139093133 GTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
65 GCGCGAGTTACTACATCCGGGCTAAGT-CCGAAGGCATTTGAGCGAGTTA-CTACAT
* *
139093188 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
139093206 TACTTGGCTT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
118 16 0.13
119 93 0.78
120 10 0.08
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTGG
CGCGAGTTACTACATCCGGGCTAAGTCCGAAGGCATTTGAGCGAGTTACTACAT
Found at i:139098143 original size:15 final size:15
Alignment explanation
Indices: 139098111--139098173 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
139098101 TATATGATAG
139098111 TATTTATATTTCAT-TA
1 TATTT-TATTT-ATATA
139098127 TATTTTATTTATATA
1 TATTTTATTTATATA
* *
139098142 TATATTATTACATATCA
1 TATTTTATT-TATAT-A
139098159 TATTTTA-TTATATA
1 TATTTTATTTATATA
139098173 T
1 T
139098174 TACTCCTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
14 4 0.10
15 19 0.47
16 10 0.25
17 7 0.17
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTTTATTTATATA
Found at i:139098145 original size:17 final size:17
Alignment explanation
Indices: 139098096--139098173 Score: 60
Period size: 17 Copynumber: 4.7 Consensus size: 17
139098086 TATATTATCC
139098096 TTATTTATATGATAGTATT
1 TTATTTATAT-ATA-TATT
*
139098115 TATATTT-CAT-TATATT
1 T-TATTTATATATATATT
139098131 TTATTTATATATATA--
1 TTATTTATATATATATT
*
139098146 TTA-TTACATATCATATT
1 TTATTTATATAT-ATATT
139098163 TTA-TTATATAT
1 TTATTTATATAT
139098174 TACTCCTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
14 7 0.14
15 11 0.22
16 7 0.14
17 16 0.33
19 3 0.06
20 5 0.10
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.59
Consensus pattern (17 bp):
TTATTTATATATATATT
Found at i:139098188 original size:27 final size:28
Alignment explanation
Indices: 139098134--139098188 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
139098124 TTATATTTTA
* *
139098134 TTTATATATATATTATTACATATCATAT
1 TTTATATATATATTACTACATATAATAT
* *
139098162 TTTAT-TATATATTACTCCTTATAATAT
1 TTTATATATATATTACTACATATAATAT
139098189 CTTCCTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTATATATATATTACTACATATAATAT
Found at i:139110684 original size:220 final size:219
Alignment explanation
Indices: 139110281--139110953 Score: 1066
Period size: 220 Copynumber: 3.1 Consensus size: 219
139110271 TAGGCTAAAG
* * * * * * *
139110281 CATAGCAGATCTGACCTTCAGGTGTTTACGCTGAAGCAGATAC-AAGATGATTTGGCGTCTGTGT
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGAT-CTAAGATGATTTGGCATCTCTAT
* * *
139110345 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCTATATTTGACGGAGAGAAGATCGAA
65 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
*
139110410 GACATAGCAGATCTAACCTTTGAGTGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 GACATAGCAGATCTAACCTTAGA-TGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
* *
139110475 TGCATTTACAAGGAGTAGATCAAAGA
194 TGCGTTTACAAGGAGTAGATCGAAGA
*
139110501 CATAGAAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
*
139110566 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCAAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
139110631 ACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
131 ACATAGCAGATCTAACCTT-AGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
* *
139110696 GCGTTTACAAGGAGCAAATCGAAGA
195 GCGTTTACAAGGAGTAGATCGAAGA
139110721 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
1 CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
*
139110786 TTGTCAGAGAACAAATCGAAGAAATAGATTTGGCATCTCCATATTC-AGCGGAGAGCAGATCGAA
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGA-CGGAGAGCAGATCGAA
* ** * *
139110850 GACATAGCAGATCTAACCTTTGGATGTTTTTGCATCGAAGCAGATCCAAGATGATTTGTCATCCT
130 GACATAGCAGATCTAACC-TTAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
139110915 TGCGTTTACAAGGAGTAGATCGAAG-
194 TGCGTTTACAAGGAGTAGATCGAAGA
139110940 -ATAGCAGATTTGGC
1 CATAGCAGATTTGGC
139110954 GTCTCTATAT
Statistics
Matches: 422, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
218 14 0.03
219 2 0.00
220 402 0.95
221 4 0.01
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (219 bp):
CATAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTATA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGCAGATCTAACCTTAGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTTG
CGTTTACAAGGAGTAGATCGAAGA
Found at i:139110747 original size:89 final size:87
Alignment explanation
Indices: 139110618--139110779 Score: 200
Period size: 89 Copynumber: 1.8 Consensus size: 87
139110608 ATTCGACGGA
* * *
139110618 GAGCAGATCAAAGACATAGCAGATCTAACCTTCAGATGTTTTCACATCGAAGTAGATCCAAGATG
1 GAGCAAATCAAAGACATAGCAGATCTAACCTTCAGATGTTTACAC-T-GAAGCAGATCCAAGATG
139110683 ATTTGGCATCCTTGCGTTTACAAG
64 ATTTGGCATCCTTGCGTTTACAAG
* * ** * * *
139110707 GAGCAAATCGAAGACATAGCAGATTTGGCTTTCACG-TGTTTACGCTGAAGCAGATCTAAGATGA
1 GAGCAAATCAAAGACATAGCAGATCTAACCTTCA-GATGTTTACACTGAAGCAGATCCAAGATGA
139110771 TTTGGCATC
65 TTTGGCATC
139110780 TCTATATTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
87 25 0.40
88 1 0.02
89 35 0.56
90 1 0.02
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.27
Consensus pattern (87 bp):
GAGCAAATCAAAGACATAGCAGATCTAACCTTCAGATGTTTACACTGAAGCAGATCCAAGATGAT
TTGGCATCCTTGCGTTTACAAG
Found at i:139110985 original size:44 final size:44
Alignment explanation
Indices: 139110931--139111085 Score: 229
Period size: 44 Copynumber: 3.5 Consensus size: 44
139110921 TACAAGGAGT
*
139110931 AGATCGAAGATAGCAGATTTGGCGTCTCTATATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCATCTCTATATTGTCAGAGAGC
* * * *
139110975 AGATTGAAGATAGCAGATTTGGCATCTCGATATTGTCAGAGGGT
1 AGATCGAAGATAGCAGATTTGGCATCTCTATATTGTCAGAGAGC
* *
139111019 AGATCGAAGATAGTAGATTTGGCATCTCTGTATTGTCAGAGAGC
1 AGATCGAAGATAGCAGATTTGGCATCTCTATATTGTCAGAGAGC
* *
139111063 AGATCGAAGATAACAGATCTGGC
1 AGATCGAAGATAGCAGATTTGGC
139111086 GTTCCTGAGT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 97 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (44 bp):
AGATCGAAGATAGCAGATTTGGCATCTCTATATTGTCAGAGAGC
Found at i:139112655 original size:16 final size:16
Alignment explanation
Indices: 139112634--139112707 Score: 50
Period size: 16 Copynumber: 4.7 Consensus size: 16
139112624 CATATTATCC
139112634 ATTATATTATTTTATT
1 ATTATATTATTTTATT
*
139112650 ATTATA-CATTTTA-T
1 ATTATATTATTTTATT
*
139112664 -TTATA-AATTTTATAT
1 ATTATATTATTTTAT-T
*
139112679 ACATTATATT-TTTTACT
1 --ATTATATTATTTTATT
139112696 ATATATATTATT
1 AT-TATATTATT
139112708 CCTTGCAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
13 11 0.24
14 1 0.02
15 9 0.20
16 12 0.26
17 3 0.07
18 10 0.22
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATATTATTTTATT
Found at i:139112743 original size:19 final size:19
Alignment explanation
Indices: 139112716--139112759 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
139112706 TTCCTTGCAA
* *
139112716 TTTTT-TAAATTTTTTATT
1 TTTTTATAAATTATGTATT
139112734 TTTTTATAAATTATGTATT
1 TTTTTATAAATTATGTATT
139112753 TTTTTAT
1 TTTTTAT
139112760 TCATTAATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTTTATAAATTATGTATT
Found at i:139116102 original size:30 final size:30
Alignment explanation
Indices: 139116047--139116205 Score: 213
Period size: 29 Copynumber: 5.5 Consensus size: 30
139116037 ATAGTGAATC
139116047 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
139116076 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
139116106 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
139116135 CGCACACTTAGTGCTATA-AA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
139116162 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
139116192 CGCACACTTAGTGC
1 CGCACACTTAGTGC
139116206 CAATCTTGTC
Statistics
Matches: 119, Mismatches: 4, Indels: 13
0.88 0.03 0.10
Matches are distributed among these distances:
26 2 0.02
27 20 0.17
28 2 0.02
29 48 0.40
30 46 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:139116139 original size:59 final size:56
Alignment explanation
Indices: 139116047--139116205 Score: 212
Period size: 59 Copynumber: 2.8 Consensus size: 56
139116037 ATAGTGAATC
*
139116047 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATA-AA---TCAAACT
139116106 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAATCAAACT
* * * * *
139116162 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-TATTTTCAGCTCGCACACTTAGTGC
139116206 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
55 2 0.02
56 20 0.22
57 21 0.23
58 2 0.02
59 47 0.51
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (56 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAAATCAAACT
Found at i:139126210 original size:29 final size:29
Alignment explanation
Indices: 139126176--139126307 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
139126166 TACTCGATTT
** * *
139126176 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
139126205 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
139126234 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
139126263 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
139126292 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
139126308 ATCTCGTCAC
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
28 2 0.02
29 84 0.98
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:139133303 original size:39 final size:40
Alignment explanation
Indices: 139133186--139133402 Score: 322
Period size: 39 Copynumber: 5.6 Consensus size: 40
139133176 AAACCAAGTA
* * *
139133186 CCTTCGGG-TTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
139133224 CCTTC-GGACTTAG-CCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
139133262 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC-AATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
139133301 CCTTCGGGACTTAGCCCGGTTATAGT-ACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
139133340 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
139133380 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
139133403 CAATCCGAAT
Statistics
Matches: 165, Mismatches: 8, Indels: 10
0.90 0.04 0.05
Matches are distributed among these distances:
37 3 0.02
38 42 0.25
39 66 0.40
40 54 0.33
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:139133965 original size:40 final size:40
Alignment explanation
Indices: 139133917--139134122 Score: 310
Period size: 40 Copynumber: 5.2 Consensus size: 40
139133907 GGACTAAGAT
139133917 CCGAAGGCATTTGTGCGAGTGACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGAGCTAAGTC
*
139133957 CCGAAGGCATTTGTGCTAGTGACTATATCC-AGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGA-GCTAAGTC
* *
139133997 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGAGCTAAGTC
* * *
139134037 CCGAAGGCATTTGTGTGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGAGCTAAGTC
*
139134077 CCGAAGGCATTTGTGCGAGTTG-CTATATCCG-GCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGAGCTAAGTC
139134116 CCGAAGG
1 CCGAAGG
139134123 TACTTGGGTT
Statistics
Matches: 155, Mismatches: 8, Indels: 7
0.91 0.05 0.04
Matches are distributed among these distances:
39 15 0.10
40 139 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGAGCTAAGTC
Found at i:139141134 original size:24 final size:24
Alignment explanation
Indices: 139141102--139141188 Score: 165
Period size: 24 Copynumber: 3.6 Consensus size: 24
139141092 AATCTCAAAT
139141102 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
*
139141126 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATG
139141150 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
139141174 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
139141189 ACATAATAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:139141154 original size:48 final size:48
Alignment explanation
Indices: 139141102--139141210 Score: 175
Period size: 48 Copynumber: 2.3 Consensus size: 48
139141092 AATCTCAAAT
** *
139141102 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCG-ATTTACTATA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATA-A
139141150 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
1 GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
139141198 GCACTATGTGTGC
1 GCACTATGTGTGC
139141211 AACGTTTGGT
Statistics
Matches: 57, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
48 52 0.91
49 5 0.09
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (48 bp):
GCACTATGTGTGCGATTTACTATGGCACTATGTGTGCGAACATAATAA
Found at i:139141201 original size:24 final size:24
Alignment explanation
Indices: 139141102--139141210 Score: 157
Period size: 24 Copynumber: 4.5 Consensus size: 24
139141092 AATCTCAAAT
*
139141102 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
139141126 GCACTATGTGTGCGATTTACTATA
1 GCACTATGTGTGCGATTTACTATA
*
139141150 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATA
** *
139141174 GCACTATGTGTGCGAACATAATA-A
1 GCACTATGTGTGCG-ATTTACTATA
139141198 GCACTATGTGTGC
1 GCACTATGTGTGC
139141211 AACGTTTGGT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
24 73 0.94
25 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATA
Found at i:139143626 original size:13 final size:13
Alignment explanation
Indices: 139143608--139143633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139143598 ATATAATAAT
139143608 TATTTTATGTTAA
1 TATTTTATGTTAA
139143621 TATTTTATGTTAA
1 TATTTTATGTTAA
139143634 AAATAAAAAT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:139145204 original size:40 final size:40
Alignment explanation
Indices: 139145158--139145361 Score: 322
Period size: 40 Copynumber: 5.1 Consensus size: 40
139145148 ACTAAGATCT
139145158 GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
* *
139145198 AAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
*
139145238 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
* *
139145278 GAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
* *
139145318 GAAGGCATTTATGCGAGTTG-CTATATCC-GGCTAAATCCC
1 GAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTCCC
139145357 GAAGG
1 GAAGG
139145362 TACTTGGGTT
Statistics
Matches: 153, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 15 0.10
40 137 0.90
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCC
Found at i:139157061 original size:20 final size:20
Alignment explanation
Indices: 139157011--139157074 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 20
139157001 TTTTCATATA
* *
139157011 TATATTTATATATATTTTCA
1 TATATATATATATATTTTCT
*
139157031 AATAATAATATATATATTTTCT
1 TAT-AT-ATATATATATTTTCT
*
139157053 TATATATATATACATTTATCT
1 TATATATATATATATTT-TCT
139157074 T
1 T
139157075 CTAAATTAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 13 0.36
21 8 0.22
22 15 0.42
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (20 bp):
TATATATATATATATTTTCT
Found at i:139157063 original size:22 final size:22
Alignment explanation
Indices: 139157001--139157064 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 22
139156991 ACTAAACCCC
139157001 TTTTCATATATATATTTATATATA
1 TTTTCATATATATA--TATATATA
*
139157025 TTTTCAAATA-ATAATATATATA
1 TTTTCATATATAT-ATATATATA
*
139157047 TTTTCTTATATATATATA
1 TTTTCATATATATATATA
139157065 CATTTATCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 21 0.60
23 4 0.11
24 10 0.29
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
TTTTCATATATATATATATATA
Found at i:139157479 original size:25 final size:25
Alignment explanation
Indices: 139157451--139157502 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
139157441 TTTCTAGGTA
139157451 ATAGTTCAACAAATGCTAATTCCAC
1 ATAGTTCAACAAATGCTAATTCCAC
*
139157476 ATAGTTCAAGAAATGCTAATTCCAC
1 ATAGTTCAACAAATGCTAATTCCAC
139157501 AT
1 AT
139157503 TCAAAATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (25 bp):
ATAGTTCAACAAATGCTAATTCCAC
Found at i:139157973 original size:41 final size:41
Alignment explanation
Indices: 139157916--139158130 Score: 297
Period size: 41 Copynumber: 5.2 Consensus size: 41
139157906 GTTCTATGAC
* *
139157916 TTTTAGCGGCGTTTTA-CCAAAGGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCATTTTACCCAAA-GCGCCGCTAATGCTCTGGT
** * *
139157957 TTTTAGTAGCATTTTACCGAAAGCGCCGCTAATACTCTGGT
1 TTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGT
* * * *
139157998 TTTTAACGGCATTTTATCGAAAGCACCGCTAATGCTCTGGT
1 TTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGT
* *
139158039 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTTTGGT
1 TTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGT
*
139158080 TTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGT
139158121 TTTTAGCGGC
1 TTTTAGCGGC
139158131 CCTGCCGCTA
Statistics
Matches: 154, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
41 150 0.97
42 4 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.33
Consensus pattern (41 bp):
TTTTAGCGGCATTTTACCCAAAGCGCCGCTAATGCTCTGGT
Found at i:139158142 original size:71 final size:70
Alignment explanation
Indices: 139158063--139158198 Score: 209
Period size: 71 Copynumber: 1.9 Consensus size: 70
139158053 TACCCAAAGC
* * * *
139158063 GCCGCTAATGCTTTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGCTCTGGTTTTTAGC
1 GCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGAT-TAGTTTTTAGC
139158128 GGCCCT
65 GGCCCT
* *
139158134 GCCGCTAATGATCTGGTTTTTAGTGGCGTTTTACCTAAAGCGCCGCTAATGATTAGTTTTTAGCG
1 GCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATTAGTTTTTAGCG
139158199 ACGTTTTAGT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
70 11 0.19
71 48 0.81
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.35
Consensus pattern (70 bp):
GCCGCTAATGATCTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTAATGATTAGTTTTTAGCG
GCCCT
Found at i:139158236 original size:41 final size:41
Alignment explanation
Indices: 139158189--139158318 Score: 156
Period size: 41 Copynumber: 3.2 Consensus size: 41
139158179 CTAATGATTA
* *
139158189 GTTTTTAGCGACGTTTTAGTAAAAAACGCCACTGTTGCTTT
1 GTTTTTAGCGGCGTTTTAGTAAAAAACGCCACTGTTGCTCT
* * *
139158230 GTTTTTAGCGGCATTTTAGTAAAAAATGCCGCTGTTGCTCT
1 GTTTTTAGCGGCGTTTTAGTAAAAAACGCCACTGTTGCTCT
* * *
139158271 GTTTTTAGCGGCGTTTTA--AGAAAAACGTCGCTATTGCTCT
1 GTTTTTAGCGGCGTTTTAGTA-AAAAACGCCACTGTTGCTCT
139158311 GTATTTTA
1 GT-TTTTA
139158319 AAATTTTTGC
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 19 0.24
41 58 0.74
ACGTcount: A:0.23, C:0.16, G:0.21, T:0.40
Consensus pattern (41 bp):
GTTTTTAGCGGCGTTTTAGTAAAAAACGCCACTGTTGCTCT
Found at i:139158261 original size:153 final size:152
Alignment explanation
Indices: 139157981--139158282 Score: 331
Period size: 153 Copynumber: 2.0 Consensus size: 152
139157971 TACCGAAAGC
* * *
139157981 GCCGCTAATACTCTGGTTTTTAACGGCATTTTATCGAAAGCACCGCTAATGCTCTGGTTTTTAGC
1 GCCGCTAATACTCTGGTTTTTAACGGCATTTTACCGAAAGCACCGCTAATGATCTAGTTTTTAGC
* ** * * * ** *
139158046 GGCGTTTTACCCAAAGCGCCGCTAATGCTTTGGTTTTTAGCGGCGTTTTACCCAAAGCGCCGCTA
66 GACGTTTTACAAAAAACGCCACTAATGCTTTGGTTTTTAGCGGCATTTTACAAAAAACGCCGCTA
139158111 ATGCTCTGGTTTTTAGCGGCCCT
131 ATGCTCT-GTTTTTAGCGGCCCT
** * * *
139158134 GCCGCTAATGA-TCTGGTTTTTAGTGGCGTTTTACCTAAAGCGCCGCTAATGAT-TAGTTTTTAG
1 GCCGCTAAT-ACTCTGGTTTTTAACGGCATTTTACCGAAAGCACCGCTAATGATCTAGTTTTTAG
* ** * *
139158197 CGACGTTTTAGTAAAAAACGCCACTGTTGCTTT-GTTTTTAGCGGCATTTTAGTAAAAAATGCCG
65 CGACGTTTTA-CAAAAAACGCCACTAATGCTTTGGTTTTTAGCGGCATTTTA-CAAAAAACGCCG
**
139158261 CTGTTGCTCTGTTTTTAGCGGC
128 CTAATGCTCTGTTTTTAGCGGC
139158283 GTTTTAAGAA
Statistics
Matches: 122, Mismatches: 24, Indels: 7
0.80 0.16 0.05
Matches are distributed among these distances:
152 47 0.39
153 74 0.61
154 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.23, T:0.35
Consensus pattern (152 bp):
GCCGCTAATACTCTGGTTTTTAACGGCATTTTACCGAAAGCACCGCTAATGATCTAGTTTTTAGC
GACGTTTTACAAAAAACGCCACTAATGCTTTGGTTTTTAGCGGCATTTTACAAAAAACGCCGCTA
ATGCTCTGTTTTTAGCGGCCCT
Found at i:139158359 original size:12 final size:12
Alignment explanation
Indices: 139158342--139158367 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
139158332 GTTTGTTGAT
139158342 AAAACGCCGCTA
1 AAAACGCCGCTA
139158354 AAAACGCCGCTA
1 AAAACGCCGCTA
139158366 AA
1 AA
139158368 GCCCTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:139161817 original size:48 final size:48
Alignment explanation
Indices: 139161754--139161982 Score: 210
Period size: 48 Copynumber: 4.8 Consensus size: 48
139161744 TGTGAGTATT
* * *
139161754 GAGATCCCGTGTAAGACCATATCTGGGATATGGCATCGGCATTGATAA
1 GAGATCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAA
* ** *
139161802 GAGATCCTGTGTAAGAGCC-TGTCTGGGACATGGCATCGGTGTTGATAT
1 GAGATCCAGTGTAAGA-CCATGTCTGGGACATGGCATCGGCATTGATAA
* * * *
139161850 GTGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGATAT
1 GAGATCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAA
** * * * * * *
139161898 GTTAGCCAGTGTAAGACCATGCCTAGGACATGGCATTGGCTTTGATAT
1 GAGATCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAA
** * * *
139161946 TTG-TGCTAGTATAAGACCATGTTTGGGACATGGCATC
1 GAGAT-CCAGTGTAAGACCATGTCTGGGACATGGCATC
139161983 AGCACTGACA
Statistics
Matches: 151, Mismatches: 27, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
47 2 0.01
48 147 0.97
49 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
GAGATCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATAA
Found at i:139161886 original size:96 final size:96
Alignment explanation
Indices: 139161762--139161982 Score: 266
Period size: 96 Copynumber: 2.3 Consensus size: 96
139161752 TTGAGATCCC
* * * * * *
139161762 GTGTAAGACCATATCTGGGATATGGCATCGGCATTGATAAGAGATCCTGTGTAAGAGCC-TGTCT
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATAAGAGAGCCAGTGTAAGA-CCATGCCT
*
139161826 GGGACATGGCATCGG-TGTTGATATGTGAGCCA
65 AGGACATGGCATCGGCT-TTGATATGTGAGCCA
* **
139161858 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATATGTTAGCCAGTGTAAGACCATGCCTA
1 GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATAAGAGAGCCAGTGTAAGACCATGCCTA
* * * *
139161923 GGACATGGCATTGGCTTTGATATTTGTGCTA
66 GGACATGGCATCGGCTTTGATATGTGAGCCA
* *
139161954 GTATAAGACCATGTTTGGGACATGGCATC
1 GTGTAAGACCATGTCTGGGACATGGCATC
139161983 AGCACTGACA
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
95 2 0.02
96 104 0.97
97 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (96 bp):
GTGTAAGACCATGTCTGGGACATGGCATCGACATTGATAAGAGAGCCAGTGTAAGACCATGCCTA
GGACATGGCATCGGCTTTGATATGTGAGCCA
Found at i:139165638 original size:40 final size:40
Alignment explanation
Indices: 139165608--139165793 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
139165598 GCTACTCGTT
* * *
139165608 CAAATGCCTTCAGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
139165648 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
139165688 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
139165728 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
139165769 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
139165794 CATCATTCGA
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 117 0.88
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:139168256 original size:9 final size:9
Alignment explanation
Indices: 139168244--139168300 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
139168234 TTTGATAAAC
139168244 ATGATATGT
1 ATGATATGT
*
139168253 ATGATATGCAC
1 ATGATATG--T
*
139168264 ATGACATGT
1 ATGATATGT
*
139168273 ATGATATGCAC
1 ATGATATG--T
139168284 ATGATATGT
1 ATGATATGT
139168293 ATGATATG
1 ATGATATG
139168301 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:139168267 original size:20 final size:20
Alignment explanation
Indices: 139168242--139168312 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
139168232 ATTTTGATAA
139168242 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
139168262 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
139168282 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
139168302 ACATGAGATGT
1 ACATGATATGT
139168313 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:139168289 original size:11 final size:11
Alignment explanation
Indices: 139168253--139168307 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
139168243 CATGATATGT
139168253 ATGATATGCAC
1 ATGATATGCAC
* *
139168264 ATGACATG--T
1 ATGATATGCAC
139168273 ATGATATGCAC
1 ATGATATGCAC
*
139168284 ATGATATG--T
1 ATGATATGCAC
139168293 ATGATATGCAC
1 ATGATATGCAC
139168304 ATGA
1 ATGA
139168308 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:139168401 original size:23 final size:23
Alignment explanation
Indices: 139168359--139168641 Score: 451
Period size: 23 Copynumber: 12.1 Consensus size: 23
139168349 AGGAAGTGCA
139168359 AAAGGGCTTATG-CCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
139168381 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
139168405 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
139168428 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
139168452 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
139168475 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
139168498 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
139168522 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
139168545 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
139168569 AAAGGGCTTAGGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
139168592 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
139168615 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
139168639 AAA
1 AAA
139168642 AGAGGCTAGG
Statistics
Matches: 242, Mismatches: 13, Indels: 11
0.91 0.05 0.04
Matches are distributed among these distances:
22 12 0.05
23 121 0.50
24 109 0.45
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:139168434 original size:47 final size:46
Alignment explanation
Indices: 139168358--139168648 Score: 440
Period size: 47 Copynumber: 6.2 Consensus size: 46
139168348 GAGGAAGTGC
139168358 AAAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
139168403 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
*
139168450 CAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAATTAT
1 -AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
* *
139168497 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* * *
139168544 TAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTAGGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
* *
139168591 TAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTA-T
139168639 AAAAGAGGCT
1 AAAAG-GGCT
139168649 AGGCCTCCAG
Statistics
Matches: 231, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
46 35 0.15
47 187 0.81
48 5 0.02
49 4 0.02
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (46 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTAT
Found at i:139168487 original size:70 final size:69
Alignment explanation
Indices: 139168359--139168641 Score: 451
Period size: 70 Copynumber: 4.0 Consensus size: 69
139168349 AGGAAGTGCA
* *
139168359 AAAGGGCTTATG-CCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAG
139168423 TTATT
65 TTATT
*
139168428 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAA
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
139168493 TTATT
65 TTATT
139168498 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
1 AAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAG
*
139168563 TTATCA
65 TTAT-T
* * *
139168569 AAAGGGCTTAGGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAG
1 AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAG
139168634 TTATT
65 TTATT
139168639 AAA
1 AAA
139168642 AGAGGCTAGG
Statistics
Matches: 201, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
69 12 0.06
70 125 0.62
71 64 0.32
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (69 bp):
AAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGT
TATT
Found at i:139175784 original size:40 final size:40
Alignment explanation
Indices: 139175747--139175929 Score: 243
Period size: 40 Copynumber: 4.7 Consensus size: 40
139175737 GCTACTCGTT
*
139175747 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
139175787 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
139175827 CAAATGCCTTC-GGACTTA--CCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * *
139175864 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
139175905 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
139175930 CATCATTCGA
Statistics
Matches: 131, Mismatches: 6, Indels: 12
0.88 0.04 0.08
Matches are distributed among these distances:
37 33 0.25
38 4 0.03
39 7 0.05
40 74 0.56
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:139175875 original size:77 final size:80
Alignment explanation
Indices: 139175747--139175928 Score: 232
Period size: 77 Copynumber: 2.3 Consensus size: 80
139175737 GCTACTCGTT
*
139175747 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
1 CAAATGCCTTCGGGACTTA-CCCGGTTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCG
* *
139175811 GATTTAGTAAC-TCGCA
64 GATATAGTAACTTAGCA
**
139175827 CAAATGCCTTC-GGACTTA-CCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
139175889 ATATAGTCACTTAGCA
65 ATATAGTAACTTAGCA
139175905 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTA-CCCGG
139175929 ACATCATTCG
Statistics
Matches: 90, Mismatches: 6, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
76 3 0.03
77 49 0.54
78 17 0.19
79 6 0.07
80 15 0.17
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTACCCGGTTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCA
Done.