Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 63 of 120
Found at i:7087212 original size:54 final size:54
Alignment explanation
Indices: 7087114--7087325 Score: 232
Period size: 54 Copynumber: 4.0 Consensus size: 54
7087104 TAATAATATA
* * * * * *
7087114 TTTAATTGCTTGATTATATATTATTATTTGGATGACTATGTATTTAATTACAAG
1 TTTATTTGCATGATTATATATTATTATTTGCATGATTATATATTTAATTGCAAG
* *
7087168 TTTATTTGCATGGTTATATATTATTATTTGCATGATTATATATTTAACTGCAA-
1 TTTATTTGCATGATTATATATTATTATTTGCATGATTATATATTTAATTGCAAG
* * * *
7087221 TTTGTTTGCATGATTTATATATTTTTATTTG-ATGATTATGTATTTAATTGCATG
1 TTTATTTGCATGA-TTATATATTATTATTTGCATGATTATATATTTAATTGCAAG
* * * * * *
7087275 TTTATTTGCATGATT-TACATTGTTAATTGCTTGATTATATATCTATTTGCA
1 TTTATTTGCATGATTATATATTATTATTTGCATGATTATATATTTAATTGCA
7087326 TGATTATTAA
Statistics
Matches: 133, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
52 11 0.08
53 49 0.37
54 73 0.55
ACGTcount: A:0.28, C:0.07, G:0.13, T:0.53
Consensus pattern (54 bp):
TTTATTTGCATGATTATATATTATTATTTGCATGATTATATATTTAATTGCAAG
Found at i:7087264 original size:107 final size:106
Alignment explanation
Indices: 7087119--7087316 Score: 281
Period size: 107 Copynumber: 1.9 Consensus size: 106
7087109 ATATATTTAA
* *
7087119 TTGCTTGATTATATATTATTATTTGGATGACTATGTATTTAATTACAAGTTTATTTGCATGGTTA
1 TTGCATGATTATATATTATTATTTGGATGACTATGTATTTAATTACAAGTTTATTTGCATGATT-
* *
7087184 TATATTATTATTTGCATGATTATATATTTAACTGCAATTTGT
65 TACATTATTAATTGCATGATTATATATTTAACTGCAATTTGT
* * * *
7087226 TTGCATGATTTATATATTTTTATTT-GATGATTATGTATTTAATTGCATGTTTATTTGCATGATT
1 TTGCATGA-TTATATATTATTATTTGGATGACTATGTATTTAATTACAAGTTTATTTGCATGATT
* *
7087290 TACATTGTTAATTGCTTGATTATATAT
65 TACATTATTAATTGCATGATTATATAT
7087317 CTATTTGCAT
Statistics
Matches: 80, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
106 23 0.29
107 42 0.52
108 15 0.19
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (106 bp):
TTGCATGATTATATATTATTATTTGGATGACTATGTATTTAATTACAAGTTTATTTGCATGATTT
ACATTATTAATTGCATGATTATATATTTAACTGCAATTTGT
Found at i:7096092 original size:19 final size:18
Alignment explanation
Indices: 7096068--7096119 Score: 61
Period size: 19 Copynumber: 2.8 Consensus size: 18
7096058 AATCCTTTTC
7096068 TTTTTCTTTTTTTTTTCAA
1 TTTTTCTTTTTTTTTT-AA
* *
7096087 TTTTTCTTTTTATTTTGA
1 TTTTTCTTTTTTTTTTAA
7096105 TTTTT-TTTATTTTTT
1 TTTTTCTTT-TTTTTT
7096120 GGTCCTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 3 0.10
18 11 0.38
19 15 0.52
ACGTcount: A:0.10, C:0.06, G:0.02, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTTTTTAA
Found at i:7106768 original size:3 final size:3
Alignment explanation
Indices: 7106760--7106809 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
7106750 TGGTATAATC
* * *
7106760 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATC AAT ATT ATT ATT AATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
7106806 ATT A
1 ATT A
7106810 ATTTACATGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:7107686 original size:15 final size:15
Alignment explanation
Indices: 7107666--7107696 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7107656 TCTAACATTG
*
7107666 CCATCTTCTTTTTTT
1 CCATCTTCTTTCTTT
7107681 CCATCTTCTTTCTTT
1 CCATCTTCTTTCTTT
7107696 C
1 C
7107697 TAACTTAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.06, C:0.32, G:0.00, T:0.61
Consensus pattern (15 bp):
CCATCTTCTTTCTTT
Found at i:7115190 original size:19 final size:18
Alignment explanation
Indices: 7115148--7115191 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 18
7115138 TTAAAGTTCA
7115148 AGGTTTCACCTAAGGTTT
1 AGGTTTCACCTAAGGTTT
7115166 AGGGTTTCACCT-AGGATTTT
1 A-GGTTTCACCTAAGG--TTT
7115186 AGGTTT
1 AGGTTT
7115192 TATGGTTTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
18 4 0.17
19 15 0.65
20 4 0.17
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (18 bp):
AGGTTTCACCTAAGGTTT
Found at i:7115200 original size:34 final size:35
Alignment explanation
Indices: 7115161--7115228 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 35
7115151 TTTCACCTAA
7115161 GGTTTAGGGTTTCACCTAGGATTTT-AGGTTTTAT
1 GGTTTAGGGTTTCACCTAGGATTTTCAGGTTTTAT
* * *
7115195 GGTTTATGGTTTCACTTAGGATTTTCGGGTTTTA
1 GGTTTAGGGTTTCACCTAGGATTTTCAGGTTTTA
7115229 CTTAGGGTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 23 0.77
35 7 0.23
ACGTcount: A:0.16, C:0.09, G:0.26, T:0.49
Consensus pattern (35 bp):
GGTTTAGGGTTTCACCTAGGATTTTCAGGTTTTAT
Found at i:7115241 original size:19 final size:20
Alignment explanation
Indices: 7115202--7115241 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
7115192 TATGGTTTAT
*
7115202 GGTTTCACTTAGGATTTTCG
1 GGTTTCACTTAGGAGTTTCG
*
7115222 GGTTTTACTTAGG-GTTTCG
1 GGTTTCACTTAGGAGTTTCG
7115241 G
1 G
7115242 TTCTCACCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.12, C:0.12, G:0.30, T:0.45
Consensus pattern (20 bp):
GGTTTCACTTAGGAGTTTCG
Found at i:7116031 original size:25 final size:25
Alignment explanation
Indices: 7115998--7116057 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
7115988 AACTATACAC
*
7115998 AAAGAAACCAGCAAACTATG-GACAG
1 AAAGAAACCAACAAACTATGCG-CAG
* *
7116023 AAAGGAACCAATAAACTATGCGCAG
1 AAAGAAACCAACAAACTATGCGCAG
7116048 AAAGCAAACC
1 AAAG-AAACC
7116058 GTAAGCACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 24 0.83
26 5 0.17
ACGTcount: A:0.52, C:0.22, G:0.18, T:0.08
Consensus pattern (25 bp):
AAAGAAACCAACAAACTATGCGCAG
Found at i:7117340 original size:17 final size:17
Alignment explanation
Indices: 7117318--7117351 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7117308 CACATCCCCT
* *
7117318 TCTTCCTGCCCGTTCTC
1 TCTTCCTACACGTTCTC
7117335 TCTTCCTACACGTTCTC
1 TCTTCCTACACGTTCTC
7117352 CCCTTCTTTT
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:0.06, C:0.44, G:0.09, T:0.41
Consensus pattern (17 bp):
TCTTCCTACACGTTCTC
Found at i:7117719 original size:3 final size:3
Alignment explanation
Indices: 7117711--7117764 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
7117701 GCCCATATAC
7117711 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7117759 ATA ATA
1 ATA ATA
7117765 TGATTATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7117773 original size:3 final size:3
Alignment explanation
Indices: 7117767--7117810 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
7117757 TAATAATATG
7117767 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
7117811 GGCCATTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:7119778 original size:12 final size:12
Alignment explanation
Indices: 7119716--7119783 Score: 52
Period size: 12 Copynumber: 5.7 Consensus size: 12
7119706 TAAAAAAGTG
*
7119716 TTGATTTTATTT
1 TTGATTTTAATT
*
7119728 ATTTATTTT-ATT
1 -TTGATTTTAATT
*
7119740 ATTCATTTT-ATT
1 -TTGATTTTAATT
*
7119752 TGGATTTTTAATT
1 TTGA-TTTTAATT
7119765 TTGATTTTAATT
1 TTGATTTTAATT
7119777 TTG-TTTT
1 TTGATTTT
7119784 GGTCAAAAGT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
11 6 0.13
12 28 0.60
13 13 0.28
ACGTcount: A:0.21, C:0.01, G:0.07, T:0.71
Consensus pattern (12 bp):
TTGATTTTAATT
Found at i:7120770 original size:35 final size:35
Alignment explanation
Indices: 7120699--7120770 Score: 85
Period size: 35 Copynumber: 2.1 Consensus size: 35
7120689 CTTTTTTTGA
* * *
7120699 TTATTTTTTATTTAATTTTATTTATTTATTTAATT
1 TTATGTTTTACTTAATTTTATTTATGTATTTAATT
7120734 TTATGTTTTACTTAATTTTTATTTTATGT-TTT-ATT
1 TTATGTTTTACTTAA-TTTTA-TTTATGTATTTAATT
7120769 TT
1 TT
7120771 CTATTTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 18 0.56
36 8 0.25
37 6 0.19
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.74
Consensus pattern (35 bp):
TTATGTTTTACTTAATTTTATTTATGTATTTAATT
Found at i:7120777 original size:12 final size:12
Alignment explanation
Indices: 7120699--7120782 Score: 57
Period size: 12 Copynumber: 7.2 Consensus size: 12
7120689 CTTTTTTTGA
*
7120699 TTATTTTTTA-T
1 TTATATTTTATT
7120710 TTA-ATTTTATT
1 TTATATTTTATT
* *
7120721 TATTTATTTAATT
1 T-TATATTTTATT
* *
7120734 TTATGTTTTACT
1 TTATATTTTATT
*
7120746 TAAT-TTTTATT
1 TTATATTTTATT
*
7120757 TTATGTTTTATT
1 TTATATTTTATT
* *
7120769 TTCTATTTTGTT
1 TTATATTTTATT
7120781 TT
1 TT
7120783 TTTTTTGTTA
Statistics
Matches: 56, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
10 5 0.09
11 14 0.25
12 29 0.52
13 8 0.14
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (12 bp):
TTATATTTTATT
Found at i:7120850 original size:18 final size:17
Alignment explanation
Indices: 7120699--7120850 Score: 105
Period size: 18 Copynumber: 8.8 Consensus size: 17
7120689 CTTTTTTTGA
*
7120699 TTATTTTTTATTTAATT
1 TTATTTTTTATTTGATT
*
7120716 TTATTTATTTATTTAATT
1 TTATTT-TTTATTTGATT
* * *
7120734 TTATGTTTTACTTAATT
1 TTATTTTTTATTTGATT
*
7120751 TT-TATTTTA--TG-TT
1 TTATTTTTTATTTGATT
* *
7120764 TTATTTTCTATTTTGTTT
1 TTATTTTTTA-TTTGATT
* *
7120782 TTTTTTTGTTAGGTTGATT
1 TTATTTT-TTA-TTTGATT
*
7120801 TTATTTTTCTATTTGGTT
1 TTATTTTT-TATTTGATT
* *
7120819 TCATTTTTTGTTTGATT
1 TTATTTTTTATTTGATT
7120836 TTATTTTTCTATTTG
1 TTATTTTT-TATTTG
7120851 TGTGATTTTA
Statistics
Matches: 107, Mismatches: 19, Indels: 17
0.75 0.13 0.12
Matches are distributed among these distances:
13 4 0.04
14 6 0.06
16 6 0.06
17 34 0.32
18 42 0.39
19 15 0.14
ACGTcount: A:0.16, C:0.03, G:0.08, T:0.72
Consensus pattern (17 bp):
TTATTTTTTATTTGATT
Found at i:7121149 original size:17 final size:17
Alignment explanation
Indices: 7121101--7121168 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
7121091 TGGTAATTTA
7121101 TATTATTGCATGA-TAT
1 TATTATTGCATGATTAT
* *
7121117 TATATATTTACATGATTGT
1 TAT-TA-TTGCATGATTAT
*
7121136 TATTATTGCATGATAAT
1 TATTATTGCATGATTAT
7121153 TAATATATTTGCATGA
1 T-AT-TA-TTGCATGA
7121169 CATTCTTGCA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.07
17 12 0.29
18 11 0.27
19 7 0.17
20 8 0.20
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.49
Consensus pattern (17 bp):
TATTATTGCATGATTAT
Found at i:7121166 original size:20 final size:19
Alignment explanation
Indices: 7121079--7121168 Score: 80
Period size: 20 Copynumber: 4.8 Consensus size: 19
7121069 AATATATATA
* *
7121079 TATATATATGCATGGTAAT
1 TATATATTTGCATGATAAT
7121098 T-TATATTATTGCATGAT-AT
1 TATATA-T-TTGCATGATAAT
* **
7121117 TATATATTTACATGATTGT
1 TATATATTTGCATGATAAT
7121136 TAT-TA-TTGCATGATAAT
1 TATATATTTGCATGATAAT
7121153 TAATATATTTGCATGA
1 T-ATATATTTGCATGA
7121169 CATTCTTGCA
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
17 10 0.18
18 16 0.28
19 12 0.21
20 19 0.33
ACGTcount: A:0.34, C:0.06, G:0.12, T:0.48
Consensus pattern (19 bp):
TATATATTTGCATGATAAT
Found at i:7132759 original size:13 final size:13
Alignment explanation
Indices: 7132741--7132765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7132731 AGAATCTTTT
7132741 CATTCATTACATG
1 CATTCATTACATG
7132754 CATTCATTACAT
1 CATTCATTACAT
7132766 ATGTTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.24, G:0.04, T:0.40
Consensus pattern (13 bp):
CATTCATTACATG
Found at i:7133075 original size:43 final size:42
Alignment explanation
Indices: 7132938--7133145 Score: 222
Period size: 42 Copynumber: 4.9 Consensus size: 42
7132928 GAATGATCTT
*
7132938 ATTTTATTTTTCAAAAGTTCCAAAGCCTTAGTTGTGTG-GGAGC
1 ATTTTATTTTTCAAAA-TTCCAAAGCCTCAGTTGTG-GAGGAGC
* ** * *
7132981 ATTTTATTTTTCAAAGTTTTAAAGCCTCAATTGTAGG-GGAAC
1 ATTTTATTTTTCAAAATTCCAAAGCCTCAGTTGT-GGAGGAGC
*
7133023 ATTTTATTTTTCTAAAAATCCAAAGCCTCAGTTGTGGAGGAGC
1 ATTTTATTTTTC-AAAATTCCAAAGCCTCAGTTGTGGAGGAGC
* * * * * *
7133066 ACTTCATTTTCCAAAATTCCTAAGCCTTAGTTGTGGAGGAGT
1 ATTTTATTTTTCAAAATTCCAAAGCCTCAGTTGTGGAGGAGC
* *
7133108 ATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGA
1 ATTTTATTTTTCAAAA-TTCCAAAGCCTCAGTTGTGGA
7133146 AGAGTCTATT
Statistics
Matches: 135, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
42 72 0.53
43 63 0.47
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (42 bp):
ATTTTATTTTTCAAAATTCCAAAGCCTCAGTTGTGGAGGAGC
Found at i:7133091 original size:85 final size:85
Alignment explanation
Indices: 7132938--7133145 Score: 235
Period size: 85 Copynumber: 2.4 Consensus size: 85
7132928 GAATGATCTT
* * * * * *
7132938 ATTTTATTTTTCAAAAGTTCCAAAGCCTTAGTTGTGTG-GGAGCATTTTATTTTTCAAAGTTTTA
1 ATTTTATTTTTCAAAAGTTCCAAAGCCTCAGTTGTG-GAGGAGCACTTCATTTTCCAAAATTCTA
7133002 AAGCCTCAATTGTAGG-GGAAC
65 AAGCCTCAATTGT-GGAGGAAC
*
7133023 ATTTTATTTTTCTAAAA-ATCCAAAGCCTCAGTTGTGGAGGAGCACTTCATTTTCCAAAATTCCT
1 ATTTTATTTTTC-AAAAGTTCCAAAGCCTCAGTTGTGGAGGAGCACTTCATTTTCCAAAATT-CT
* * **
7133087 -AAGCCTTAGTTGTGGAGGAGT
64 AAAGCCTCAATTGTGGAGGAAC
* *
7133108 ATTTTATTTTTCAAAAGTTTCAAAGCTTCAGTTGTGGA
1 ATTTTATTTTTCAAAAGTTCCAAAGCCTCAGTTGTGGA
7133146 AGAGTCTATT
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
84 7 0.07
85 92 0.88
86 5 0.05
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.39
Consensus pattern (85 bp):
ATTTTATTTTTCAAAAGTTCCAAAGCCTCAGTTGTGGAGGAGCACTTCATTTTCCAAAATTCTAA
AGCCTCAATTGTGGAGGAAC
Found at i:7135205 original size:44 final size:45
Alignment explanation
Indices: 7135118--7135230 Score: 133
Period size: 44 Copynumber: 2.5 Consensus size: 45
7135108 GAACGATGCA
*
7135118 CAGGCACATAGTCAAACCCAAGTGCAAGCACTATTGATTAAGGTG
1 CAGGCACATAGTCAAACCCAAGTGCAAGCACTATTGATCAAGGTG
* * * *
7135163 CAGGTACATAGTC-AACCCAGGTGTAAGTACTGA-TGATCAAGGTG
1 CAGGCACATAGTCAAACCCAAGTGCAAGCACT-ATTGATCAAGGTG
*
7135207 CAGGCACAT-GATTAAACCCAAGTG
1 CAGGCACATAG-TCAAACCCAAGTG
7135231 TGAGCATGCT
Statistics
Matches: 57, Mismatches: 8, Indels: 6
0.80 0.11 0.08
Matches are distributed among these distances:
43 1 0.02
44 34 0.60
45 22 0.39
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.20
Consensus pattern (45 bp):
CAGGCACATAGTCAAACCCAAGTGCAAGCACTATTGATCAAGGTG
Found at i:7147870 original size:24 final size:24
Alignment explanation
Indices: 7147843--7147894 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
7147833 GTTATGCATG
*
7147843 GGCACATAGTCAGACCCAGGTGCA
1 GGCACACAGTCAGACCCAGGTGCA
* * *
7147867 GGCATACAGTCAGACCTAGGTGTA
1 GGCACACAGTCAGACCCAGGTGCA
7147891 GGCA
1 GGCA
7147895 TGCCTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.25, G:0.31, T:0.15
Consensus pattern (24 bp):
GGCACACAGTCAGACCCAGGTGCA
Found at i:7147895 original size:24 final size:24
Alignment explanation
Indices: 7147850--7147895 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7147840 ATGGGCACAT
7147850 AGTCAGACCCAGGTGCAGGCATAC
1 AGTCAGACCCAGGTGCAGGCATAC
* *
7147874 AGTCAGACCTAGGTGTAGGCAT
1 AGTCAGACCCAGGTGCAGGCAT
7147896 GCCTAAAGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.24, G:0.30, T:0.17
Consensus pattern (24 bp):
AGTCAGACCCAGGTGCAGGCATAC
Found at i:7149251 original size:23 final size:22
Alignment explanation
Indices: 7149235--7149303 Score: 104
Period size: 23 Copynumber: 3.1 Consensus size: 22
7149225 TTTTTTATTA
7149235 TTTATTTA-TTTTATTTTCTAT
1 TTTATTTATTTTTATTTTCTAT
*
7149256 TTTACTTAATTTTTATTTTCTAT
1 TTTA-TTTATTTTTATTTTCTAT
7149279 TTTATTTGATTTTTATTTTCTAT
1 TTTATTT-ATTTTTATTTTCTAT
7149302 TT
1 TT
7149304 GGTTTTATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.09
22 5 0.12
23 34 0.79
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (22 bp):
TTTATTTATTTTTATTTTCTAT
Found at i:7149258 original size:12 final size:12
Alignment explanation
Indices: 7149241--7149303 Score: 67
Period size: 12 Copynumber: 5.4 Consensus size: 12
7149231 ATTATTTATT
7149241 TATTTTATTTTC
1 TATTTTATTTTC
* **
7149253 TATTTTACTTAA
1 TATTTTATTTTC
7149265 T-TTTTATTTTC
1 TATTTTATTTTC
**
7149276 TATTTTATTTGA
1 TATTTTATTTTC
7149288 T-TTTTATTTTC
1 TATTTTATTTTC
7149299 TATTT
1 TATTT
7149304 GGTTTTATTT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
11 17 0.44
12 22 0.56
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.73
Consensus pattern (12 bp):
TATTTTATTTTC
Found at i:7149302 original size:18 final size:17
Alignment explanation
Indices: 7149227--7149376 Score: 73
Period size: 17 Copynumber: 8.8 Consensus size: 17
7149217 CATTTCCTTT
7149227 TTTTATTATT-TATTT-A
1 TTTTATT-TTCTATTTGA
*
7149243 TTTTATTTTCTATTTTA
1 TTTTATTTTCTATTTGA
* *
7149260 CTTAATTTT-TA-TT--
1 TTTTATTTTCTATTTGA
*
7149273 TTCTA-TTT-TATTTGA
1 TTTTATTTTCTATTTGA
*
7149288 TTTTTATTTTCTATTTGG
1 -TTTTATTTTCTATTTGA
* *
7149306 TTTTATTTTTTGTTAGCTTGA
1 TTTTA--TTTT-CTA-TTTGA
* * *
7149327 TTTTATTTTTTTGTTTGG
1 TTTTA-TTTTCTATTTGA
*
7149345 TTTGATTTTCTATTTGA
1 TTTTATTTTCTATTTGA
7149362 TTTTATTTTTCTATT
1 TTTTA-TTTTCTATT
7149377 AATTTTAATA
Statistics
Matches: 103, Mismatches: 18, Indels: 24
0.71 0.12 0.17
Matches are distributed among these distances:
12 5 0.05
13 4 0.04
15 4 0.04
16 18 0.17
17 29 0.28
18 22 0.21
19 6 0.06
20 7 0.07
21 8 0.08
ACGTcount: A:0.16, C:0.05, G:0.07, T:0.72
Consensus pattern (17 bp):
TTTTATTTTCTATTTGA
Found at i:7149309 original size:17 final size:18
Alignment explanation
Indices: 7149281--7149376 Score: 79
Period size: 18 Copynumber: 5.2 Consensus size: 18
7149271 TTTTCTATTT
7149281 TATTTGATTTT-TATTTTC
1 TATTTGATTTTAT-TTTTC
* *
7149299 TATTTGGTTTTATTTTTTGT
1 TATTTGATTTTA-TTTTT-C
* *
7149319 TAGCTTGATTTTATTTTTT
1 TA-TTTGATTTTATTTTTC
* * *
7149338 TGTTTGGTTTGA-TTTTC
1 TATTTGATTTTATTTTTC
7149355 TATTTGATTTTATTTTTC
1 TATTTGATTTTATTTTTC
7149373 TATT
1 TATT
7149377 AATTTTAATA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
17 13 0.21
18 26 0.43
19 6 0.10
20 8 0.13
21 8 0.13
ACGTcount: A:0.14, C:0.04, G:0.11, T:0.71
Consensus pattern (18 bp):
TATTTGATTTTATTTTTC
Found at i:7149313 original size:23 final size:23
Alignment explanation
Indices: 7149235--7149315 Score: 103
Period size: 23 Copynumber: 3.6 Consensus size: 23
7149225 TTTTTTATTA
7149235 TTTA-TTTA-TTTTATTTTCTAT
1 TTTATTTTATTTTTATTTTCTAT
* *
7149256 TTTACTTAATTTTTATTTTCTAT
1 TTTATTTTATTTTTATTTTCTAT
*
7149279 TTTATTTGATTTTTATTTTCTAT
1 TTTATTTTATTTTTATTTTCTAT
**
7149302 TTGGTTTTATTTTT
1 TTTATTTTATTTTT
7149316 TGTTAGCTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
21 4 0.08
22 3 0.06
23 45 0.87
ACGTcount: A:0.17, C:0.05, G:0.04, T:0.74
Consensus pattern (23 bp):
TTTATTTTATTTTTATTTTCTAT
Found at i:7149381 original size:17 final size:18
Alignment explanation
Indices: 7149350--7149383 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7149340 TTTGGTTTGA
*
7149350 TTTTCTATTTGATTTTAT
1 TTTTCTATTTAATTTTAT
7149368 TTTTCTA-TTAATTTTA
1 TTTTCTATTTAATTTTA
7149384 ATATTAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.06, G:0.03, T:0.71
Consensus pattern (18 bp):
TTTTCTATTTAATTTTAT
Found at i:7149610 original size:55 final size:55
Alignment explanation
Indices: 7149551--7149718 Score: 230
Period size: 55 Copynumber: 3.1 Consensus size: 55
7149541 AATTGCTTGA
* *
7149551 TTATAT-TATATTATTTGCATGACTATGTATTTAATTGCTTGTTTATTTACATGGT
1 TTATATAT-TATTATTTGCATGAATATGTATTTAATTGCTTGTTTATTTGCATGGT
* * *
7149606 TTATATATTACTATTTGCATGAATATCTATTTAATTGCTTATTTATTTGCATGGT
1 TTATATATTATTATTTGCATGAATATGTATTTAATTGCTTGTTTATTTGCATGGT
* * * * *
7149661 TTATATATTTTTATTTGCATGATTACGTATTTAATTGCATGTTTATTTGCATGAT
1 TTATATATTATTATTTGCATGAATATGTATTTAATTGCTTGTTTATTTGCATGGT
7149716 TTA
1 TTA
7149719 CATTGCTAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
55 98 0.99
56 1 0.01
ACGTcount: A:0.26, C:0.08, G:0.12, T:0.54
Consensus pattern (55 bp):
TTATATATTATTATTTGCATGAATATGTATTTAATTGCTTGTTTATTTGCATGGT
Found at i:7149756 original size:20 final size:20
Alignment explanation
Indices: 7149702--7149759 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
7149692 TAATTGCATG
7149702 TTTATTTGCATGATT-TACA
1 TTTATTTGCATGATTATACA
* * *
7149721 TTGCTAATTGCTTGATTATATA
1 TT--TATTTGCATGATTATACA
7149743 TTTATTTGCATGATTAT
1 TTTATTTGCATGATTAT
7149760 TAAGTTATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 13 0.42
21 11 0.35
22 5 0.16
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (20 bp):
TTTATTTGCATGATTATACA
Found at i:7149847 original size:22 final size:22
Alignment explanation
Indices: 7149822--7149887 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
7149812 TTATTTATTA
7149822 TTATTATTATTATTGCATGATT
1 TTATTATTATTATTGCATGATT
*
7149844 TTA-TATTTATTATATG-AT-ATG
1 TTATTA-TTATTAT-TGCATGATT
* *
7149865 ATATTATATGTTATTGCATGATT
1 TTATTAT-TATTATTGCATGATT
7149888 AATATTATAT
Statistics
Matches: 34, Mismatches: 4, Indels: 11
0.69 0.08 0.22
Matches are distributed among these distances:
21 9 0.26
22 21 0.62
23 4 0.12
ACGTcount: A:0.30, C:0.03, G:0.11, T:0.56
Consensus pattern (22 bp):
TTATTATTATTATTGCATGATT
Found at i:7149870 original size:40 final size:39
Alignment explanation
Indices: 7149826--7149935 Score: 104
Period size: 35 Copynumber: 2.8 Consensus size: 39
7149816 TTATTATTAT
7149826 TATTATTATTGCATGATTTTATATTTATTATATGATATGA
1 TATTATTATTGCATGATTTTATATTTATTATATGA-ATGA
* *
7149866 TATTATATGTTATTGCATGA-TTAATA-TTA-TATTTGAATGA
1 TA-T-TA--TTATTGCATGATTTTATATTTATTATATGAATGA
*
7149906 TATT-TAATTGCATG-TTTCTATATTTATTAT
1 TATTATTATTGCATGATTT-TATATTTATTAT
7149936 GTGCATAATT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
35 11 0.19
36 3 0.05
37 3 0.05
38 4 0.07
39 1 0.02
40 8 0.14
41 7 0.12
42 5 0.09
43 5 0.09
44 11 0.19
ACGTcount: A:0.32, C:0.04, G:0.10, T:0.55
Consensus pattern (39 bp):
TATTATTATTGCATGATTTTATATTTATTATATGAATGA
Found at i:7150058 original size:18 final size:18
Alignment explanation
Indices: 7150033--7150122 Score: 67
Period size: 20 Copynumber: 4.8 Consensus size: 18
7150023 TTCGTACATA
*
7150033 TATATATTTGCATGGTAT
1 TATATATTTGCATGATAT
*
7150051 TTTATATTATTGCATGATAT
1 TATATA-T-TTGCATGATAT
* * *
7150071 TATATATTTACATAATTGT
1 TATATATTTGCATGA-TAT
*
7150090 TAT-TA-TTACATGATAAT
1 TATATATTTGCATGAT-AT
7150107 TAATATATTTGCATGA
1 T-ATATATTTGCATGA
7150123 CATTCTTGCA
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
16 1 0.02
17 9 0.16
18 15 0.27
19 9 0.16
20 22 0.39
ACGTcount: A:0.34, C:0.06, G:0.10, T:0.50
Consensus pattern (18 bp):
TATATATTTGCATGATAT
Found at i:7163261 original size:21 final size:21
Alignment explanation
Indices: 7163213--7163305 Score: 132
Period size: 21 Copynumber: 4.4 Consensus size: 21
7163203 AATCATAGTG
* *
7163213 ATGAGTCACTGTACCATAAGTG
1 ATGAGTCATTGTACCATAA-TA
7163235 ATGAGTCATTGTACCATAATA
1 ATGAGTCATTGTACCATAATA
*
7163256 ATGAGTCATTGTACCATAGTA
1 ATGAGTCATTGTACCATAATA
* *
7163277 ATGAGTCATTGTACCATACTT
1 ATGAGTCATTGTACCATAATA
7163298 ATGAGTCA
1 ATGAGTCA
7163306 CCGTCTTTTA
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
21 48 0.73
22 18 0.27
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.32
Consensus pattern (21 bp):
ATGAGTCATTGTACCATAATA
Found at i:7164159 original size:167 final size:167
Alignment explanation
Indices: 7163883--7164217 Score: 508
Period size: 167 Copynumber: 2.0 Consensus size: 167
7163873 TATATGTCTA
** *
7163883 ATCTATGAAAAGCTTATGGTTCTTATTATCTTGCCAAATATAACCGATCTACACGCTGTTGTCAT
1 ATCTATGAAAAGCTTATGGTTAGTATTATCTTGCCAAATATAACCGATCTACACGCTATTGTCAT
* * *
7163948 AGTACCAGATAGTATTGTCAGGACTCTACCACTCGGAGAGCCTGAAACTGAAGCCGTGTCAATTG
66 AGTACCAGATAGTATTGTCAGGACTCTACCACCCGAAGAGCCTGAAACTAAAGCCGTGTCAATTG
* *
7164013 CCAGAGCCTTGGTCGTACTACCTGTCACTGTGTATAG
131 CCAGAGCCTTGATCGTACTACCTGTCACTGTATATAG
* * * * * * *
7164050 ATCTATGGAACGCTTATGGTTAGTATTATCTTGTCAAGTTTGACCGATCTATACGCTATTGTCAT
1 ATCTATGAAAAGCTTATGGTTAGTATTATCTTGCCAAATATAACCGATCTACACGCTATTGTCAT
* *
7164115 AGTACCAGATAGTATTGTCAGGACTCTACCACCCGAAGAGCCTGAAACTAAAGTCGTGTCAGTTG
66 AGTACCAGATAGTATTGTCAGGACTCTACCACCCGAAGAGCCTGAAACTAAAGCCGTGTCAATTG
*
7164180 CTAGAGCCTTGATCGTACTACCTGTCACTGTATATAG
131 CCAGAGCCTTGATCGTACTACCTGTCACTGTATATAG
7164217 A
1 A
7164218 AATGGTATCA
Statistics
Matches: 150, Mismatches: 18, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
167 150 1.00
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (167 bp):
ATCTATGAAAAGCTTATGGTTAGTATTATCTTGCCAAATATAACCGATCTACACGCTATTGTCAT
AGTACCAGATAGTATTGTCAGGACTCTACCACCCGAAGAGCCTGAAACTAAAGCCGTGTCAATTG
CCAGAGCCTTGATCGTACTACCTGTCACTGTATATAG
Found at i:7171216 original size:21 final size:21
Alignment explanation
Indices: 7171161--7171239 Score: 113
Period size: 21 Copynumber: 3.7 Consensus size: 21
7171151 TACTATGAGT
*
7171161 CATAGTGATGAGTCACTGTAC
1 CATAGTGATGAGTCATTGTAC
7171182 CATAAGTGATGAGTCATTGTAC
1 CAT-AGTGATGAGTCATTGTAC
*
7171204 CATAGTAATGAGTCATTGTAC
1 CATAGTGATGAGTCATTGTAC
* *
7171225 CATACTTATGAGTCA
1 CATAGTGATGAGTCA
7171240 CCGTCTTTTA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
21 33 0.62
22 20 0.38
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (21 bp):
CATAGTGATGAGTCATTGTAC
Found at i:7178216 original size:43 final size:43
Alignment explanation
Indices: 7178113--7178263 Score: 153
Period size: 43 Copynumber: 3.5 Consensus size: 43
7178103 TGACATGGAT
* *
7178113 AACAACTTCAGACTTGATTTTGGTTAGAGTTCCGTTACATTT-CA
1 AACAACTTTAGACTTGATTTTGGTT-GAGTTCCATTAC-TTTGCA
* ** * *
7178157 AACAACTTGATTCTTGATATTGGCTGAGTTCCATTACTTTGCA
1 AACAACTTTAGACTTGATTTTGGTTGAGTTCCATTACTTTGCA
** * * *
7178200 AACAACTTTAGACTTGATTTTTTTTTAGTTCCATTATTTTGTA
1 AACAACTTTAGACTTGATTTTGGTTGAGTTCCATTACTTTGCA
7178243 AACAA-TTTCAGACTTGATTTT
1 AACAACTTT-AGACTTGATTTT
7178264 TTTTTTTAAG
Statistics
Matches: 89, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
42 6 0.07
43 63 0.71
44 20 0.22
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (43 bp):
AACAACTTTAGACTTGATTTTGGTTGAGTTCCATTACTTTGCA
Found at i:7179364 original size:5 final size:5
Alignment explanation
Indices: 7179356--7179428 Score: 78
Period size: 5 Copynumber: 14.8 Consensus size: 5
7179346 CCTTTTTCTT
* ** *
7179356 TTTTC TTTTC ATTTC AATTC ATTTC -TTTC TTTTTC TTTTC TTTTC TTTTC
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC -TTTTC TTTTC TTTTC TTTTC
*
7179406 TTTTC TTTTC TCTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTT
7179429 ATGTTCCCAC
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 7 0.12
5 49 0.82
6 4 0.07
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTC
Found at i:7179411 original size:30 final size:31
Alignment explanation
Indices: 7179350--7179428 Score: 88
Period size: 30 Copynumber: 2.5 Consensus size: 31
7179340 TTTTCACCTT
7179350 TTTCTTTTTTCTTTTCATTTCAATTCATTTC
1 TTTCTTTTTTCTTTTCATTTCAATTCATTTC
* ** *
7179381 TTTC-TTTTTCTTTTCTTTTCTTTTCTTTTC
1 TTTCTTTTTTCTTTTCATTTCAATTCATTTC
7179411 TTTTCTCTTTTTTCTTTT
1 --TT-TCTTTTTTCTTTT
7179429 ATGTTCCCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 22 0.55
31 4 0.10
32 2 0.05
33 2 0.05
34 10 0.25
ACGTcount: A:0.05, C:0.19, G:0.00, T:0.76
Consensus pattern (31 bp):
TTTCTTTTTTCTTTTCATTTCAATTCATTTC
Found at i:7182580 original size:4 final size:4
Alignment explanation
Indices: 7182573--7182612 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
7182563 TTTTTTTTTC
7182573 ATTT ATTT ATTT ATTT ATTT ATTT A-TT A-TT A-TT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATT
7182613 GATTAGATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 9 0.26
4 26 0.74
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:7182611 original size:25 final size:25
Alignment explanation
Indices: 7182579--7182691 Score: 69
Period size: 25 Copynumber: 4.6 Consensus size: 25
7182569 TTTCATTTAT
7182579 TTATTTATTTATTTATTTATTATTA
1 TTATTTATTTATTTATTTATTATTA
* * *
7182604 TTATTTATTGA-TTA--GATTATAA
1 TTATTTATTTATTTATTTATTATTA
* * *
7182626 TTATTTAGTACTCTTTATTTTATTTTTA
1 TTATTTA-T-TTATTTA-TTTATTATTA
7182654 TTA-TTATTTTATTT-TATT-TTATT-
1 TTATTTA-TTTATTTAT-TTATTATTA
*
7182677 TTATTTATTTTTTTA
1 TTATTTATTTATTTA
7182692 AATGATTTTC
Statistics
Matches: 65, Mismatches: 14, Indels: 19
0.66 0.14 0.19
Matches are distributed among these distances:
22 13 0.20
23 10 0.15
24 11 0.17
25 15 0.23
26 4 0.06
27 4 0.06
28 8 0.12
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.70
Consensus pattern (25 bp):
TTATTTATTTATTTATTTATTATTA
Found at i:7182649 original size:5 final size:5
Alignment explanation
Indices: 7182639--7182687 Score: 73
Period size: 5 Copynumber: 9.6 Consensus size: 5
7182629 TTTAGTACTC
7182639 TTTAT TTTATT TTTAT TATTAT TTTAT TTTAT TTTAT TTTA- TTTAT TTT
1 TTTAT TTTA-T TTTAT T-TTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
7182688 TTTAAATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 4 0.10
5 27 0.66
6 10 0.24
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:7182673 original size:27 final size:27
Alignment explanation
Indices: 7182639--7182691 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
7182629 TTTAGTACTC
7182639 TTTATTTTATTTT-TATTATTATTTTAT
1 TTTATTTTATTTTAT-TTATTATTTTAT
*
7182666 TTTATTTTATTTTATTTATTTTTTTA
1 TTTATTTTATTTTATTTATTATTTTA
7182692 AATGATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (27 bp):
TTTATTTTATTTTATTTATTATTTTAT
Found at i:7182699 original size:27 final size:27
Alignment explanation
Indices: 7182642--7182700 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
7182632 AGTACTCTTT
** *
7182642 ATTTTATTTTTATTATTATTTTATTTT
1 ATTTTATTTTTATTATTATTTTAAATG
*
7182669 ATTTTA-TTTTATTTATTTTTTTAAATG
1 ATTTTATTTTTA-TTATTATTTTAAATG
7182696 ATTTT
1 ATTTT
7182701 CTTTAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 5 0.19
27 22 0.81
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.75
Consensus pattern (27 bp):
ATTTTATTTTTATTATTATTTTAAATG
Found at i:7182895 original size:107 final size:109
Alignment explanation
Indices: 7182784--7182981 Score: 337
Period size: 109 Copynumber: 1.8 Consensus size: 109
7182774 TCAAAAAAAA
* * * *
7182784 AAAAACATTTTAGGGAAAGTTGAAAGTATCAATTTCCCTTG-AAA-AAACTTTTCAAATGCTTTA
1 AAAAACATTTTAGAGAAAGTTGAAAGTATCAATTTCCCTAGAAAATAAAATTTCCAAATGCTTTA
7182847 AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCC
66 AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCC
*
7182891 AAAAATATTTTAGAGAAAGTTGAAAGTATCAATTTCCCTAGAAAATAAAATTTCCAAATGCTTTA
1 AAAAACATTTTAGAGAAAGTTGAAAGTATCAATTTCCCTAGAAAATAAAATTTCCAAATGCTTTA
7182956 AGGAAAAGTTGAAAGTATCAATTTTT
66 AGGAAAAGTTGAAAGTATCAATTTTT
7182982 TTTGTATAAA
Statistics
Matches: 84, Mismatches: 5, Indels: 2
0.92 0.05 0.02
Matches are distributed among these distances:
107 38 0.45
108 3 0.04
109 43 0.51
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (109 bp):
AAAAACATTTTAGAGAAAGTTGAAAGTATCAATTTCCCTAGAAAATAAAATTTCCAAATGCTTTA
AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCC
Found at i:7182922 original size:55 final size:54
Alignment explanation
Indices: 7182799--7182980 Score: 212
Period size: 55 Copynumber: 3.4 Consensus size: 54
7182789 CATTTTAGGG
* * * * *
7182799 AAAGTTGAAAGTATCAATTTCCCTT-GAAA-AAACTTTTCAAATGCTTTAAGGA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCCAAATACTTTAAGGA
* *
7182851 AAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAATTTCCAAAAATA-TTTTA-GA
1 AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC--AAATACTTTAAGGA
* *
7182905 GAAAGTTGAAAGTATCAA-TTTCCCTAGAAAATAAAATTTCCAAATGCTTTAAGGA
1 -AAAGTTGAAAGTATCAATTTTCCTTA-AAAATAAAATTTCCAAATACTTTAAGGA
7182960 AAAGTTGAAAGTATCAATTTT
1 AAAGTTGAAAGTATCAATTTT
7182981 TTTTGTATAA
Statistics
Matches: 110, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
52 23 0.21
53 7 0.06
54 36 0.33
55 40 0.36
56 4 0.04
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.34
Consensus pattern (54 bp):
AAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCCAAATACTTTAAGGA
Found at i:7188431 original size:133 final size:132
Alignment explanation
Indices: 7188199--7188609 Score: 554
Period size: 132 Copynumber: 3.1 Consensus size: 132
7188189 ATCTATGTAC
*
7188199 CAAAGATTGCCCCAAACAAATGAAATAATGTACATAC-AAAATGTTTACATGGATAAAAAAATGT
1 CAAAGATTCCCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGG--------ATGT
* *
7188263 ATATGCAAATACATGTATACAATACATAGTAAAAACAAGAATTCATATTCAAAACTATGTACAAA
58 ATATGCAAATACATGTATGCAATACATAGTGAAAACAAGAATTCATATTCAAAACTATGTACAAA
7188328 ATTGAAAAGG
123 ATTGAAAAGG
* **
7188338 CCAAGATTACCCCCAAACAAATGAAATAACATACATACAAAAATGTTTACATGGATGTATATGCA
1 CAAAGATT-CCCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATGTATATGCA
* * * * *
7188403 AAAACATGTGTGCAATACATAGTGAAAACAAAAATTCATATTTAAAACTATGTATAAAATTGAAA
65 AATACATGTATGCAATACATAGTGAAAACAAGAATTCATATTCAAAACTATGTACAAAATTGAAA
7188468 AGG
130 AGG
** * * *
7188471 CAAAGATTTTCCCAAACAAATGAAATAATGTACATACAAAGATATTTAAATGGATGTATATGCAA
1 CAAAGATTCCCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATGTATATGCAA
* * * *
7188536 ATACATGTATGCAATACATAATGAAAACAAGAATTCATATCCAAAACTATGTACAAAACTAAAAA
66 ATACATGTATGCAATACATAGTGAAAACAAGAATTCATATTCAAAACTATGTACAAAATTGAAAA
7188601 GG
131 GG
7188603 CAAAGAT
1 CAAAGAT
7188610 GTACAAAATG
Statistics
Matches: 242, Mismatches: 28, Indels: 11
0.86 0.10 0.04
Matches are distributed among these distances:
132 115 0.48
133 79 0.33
139 7 0.03
140 26 0.11
141 15 0.06
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.25
Consensus pattern (132 bp):
CAAAGATTCCCCCAAACAAATGAAATAATGTACATACAAAAATGTTTACATGGATGTATATGCAA
ATACATGTATGCAATACATAGTGAAAACAAGAATTCATATTCAAAACTATGTACAAAATTGAAAA
GG
Found at i:7190185 original size:24 final size:24
Alignment explanation
Indices: 7190158--7190203 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
7190148 TAAATTTTAG
**
7190158 AATCCAAAATTGAATCCAAGATCT
1 AATCCAAAAGGGAATCCAAGATCT
*
7190182 AATCTAAAAGGGAATCCAAGAT
1 AATCCAAAAGGGAATCCAAGAT
7190204 TTCCTACCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.48, C:0.17, G:0.13, T:0.22
Consensus pattern (24 bp):
AATCCAAAAGGGAATCCAAGATCT
Found at i:7201300 original size:21 final size:20
Alignment explanation
Indices: 7201272--7201313 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
7201262 TCATGAGATT
*
7201272 TGTATGTGAACATAATAATC
1 TGTATGTGAACACAATAATC
*
7201292 TGTAGTGTGAACACAATTATC
1 TGTA-TGTGAACACAATAATC
7201313 T
1 T
7201314 ACCCATTTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (20 bp):
TGTATGTGAACACAATAATC
Found at i:7203467 original size:38 final size:39
Alignment explanation
Indices: 7203375--7203451 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
7203365 TCATTGCACT
**
7203375 GAACAAAAC-AA-ATCACAAATTCCCCCTTAATGCAATG
1 GAACAAAACAAATATCACAAAAACCCCCTTAATGCAATG
* *
7203412 GAATAAAACAAATATCACAAAAACCCCTTTAATGCAATG
1 GAACAAAACAAATATCACAAAAACCCCCTTAATGCAATG
7203451 G
1 G
7203452 GACAGAAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 8 0.24
38 2 0.06
39 24 0.71
ACGTcount: A:0.48, C:0.23, G:0.09, T:0.19
Consensus pattern (39 bp):
GAACAAAACAAATATCACAAAAACCCCCTTAATGCAATG
Found at i:7203837 original size:2 final size:2
Alignment explanation
Indices: 7203830--7203855 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7203820 CAAAGAAATC
7203830 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
7203856 TGCATACTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7207453 original size:14 final size:14
Alignment explanation
Indices: 7207431--7207461 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
7207421 AATTTTTTTT
7207431 AATTATAAAAATTA
1 AATTATAAAAATTA
*
7207445 AATTTTAAAAATTA
1 AATTATAAAAATTA
7207459 AAT
1 AAT
7207462 CCCACCAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTATAAAAATTA
Found at i:7208554 original size:5 final size:5
Alignment explanation
Indices: 7208544--7208572 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
7208534 GATTGTCTGT
7208544 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
7208573 TGCATGAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTC
Found at i:7209198 original size:11 final size:11
Alignment explanation
Indices: 7209172--7209374 Score: 112
Period size: 11 Copynumber: 17.2 Consensus size: 11
7209162 GATTTTGTAC
7209172 AAAAATA-CTAT
1 AAAAATATC-AT
7209183 AAAAATATCAT
1 AAAAATATCAT
* *
7209194 GAAAACATCAT
1 AAAAATATCAT
7209205 AAAAATAATATCAT
1 --AAA-AATATCAT
*
7209219 AAAAA-ATCTAC
1 AAAAATATC-AT
* *
7209230 AAAAAAACCAT
1 AAAAATATCAT
7209241 -AAAA-ATCAT
1 AAAAATATCAT
7209250 AAAAATATCAT
1 AAAAATATCAT
*
7209261 CCAATAATATCAT
1 --AAAAATATCAT
7209274 AATAAA-ATCATGT
1 AA-AAATATCA--T
7209287 AAAAAGTATCAT
1 AAAAA-TATCAT
*
7209299 AACAAATACCAT
1 AA-AAATATCAT
7209311 GCAAAAATATCAT
1 --AAAAATATCAT
7209324 AATAAA-ATCAT
1 AA-AAATATCAT
7209335 GCAAAAATATCAT
1 --AAAAATATCAT
7209348 AATAAATATCAT
1 AA-AAATATCAT
*
7209360 GCAATAATATCAT
1 --AAAAATATCAT
7209373 AA
1 AA
7209375 TAAAATTCAT
Statistics
Matches: 154, Mismatches: 13, Indels: 50
0.71 0.06 0.23
Matches are distributed among these distances:
9 4 0.03
10 11 0.07
11 49 0.32
12 34 0.22
13 41 0.27
14 15 0.10
ACGTcount: A:0.59, C:0.13, G:0.03, T:0.25
Consensus pattern (11 bp):
AAAAATATCAT
Found at i:7209231 original size:58 final size:56
Alignment explanation
Indices: 7209169--7209282 Score: 140
Period size: 56 Copynumber: 2.0 Consensus size: 56
7209159 AATGATTTTG
* * *
7209169 TACAAAAATACTATAAAAATATCATGAAAACATCATAAAAATAATATCATAA-AAAATC
1 TACAAAAAAACCAT-AAAA-ATCATAAAAACATCAT-AAAATAATATCATAATAAAATC
* **
7209227 TACAAAAAAACCATAAAAATCATAAAAATATCATCCAATAATATCATAATAAAATC
1 TACAAAAAAACCATAAAAATCATAAAAACATCATAAAATAATATCATAATAAAATC
7209283 ATGTAAAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
55 13 0.27
56 20 0.41
57 4 0.08
58 12 0.24
ACGTcount: A:0.61, C:0.14, G:0.01, T:0.24
Consensus pattern (56 bp):
TACAAAAAAACCATAAAAATCATAAAAACATCATAAAATAATATCATAATAAAATC
Found at i:7209267 original size:25 final size:25
Alignment explanation
Indices: 7209241--7209392 Score: 197
Period size: 25 Copynumber: 6.2 Consensus size: 25
7209231 AAAAAACCAT
*
7209241 AAAA-ATCATAA-AAATATCATCCA
1 AAAATATCATAATAAATATCATGCA
* *
7209264 ATAATATCATAATAAA-ATCATGTA
1 AAAATATCATAATAAATATCATGCA
* *
7209288 AAAAGTATCATAACAAATACCATGCA
1 AAAA-TATCATAATAAATATCATGCA
7209314 AAAATATCATAATAAA-ATCATGCA
1 AAAATATCATAATAAATATCATGCA
7209338 AAAATATCATAATAAATATCATGCA
1 AAAATATCATAATAAATATCATGCA
*
7209363 ATAATATCATAATAAA-ATTCATGCA
1 AAAATATCATAATAAATA-TCATGCA
7209388 AAAAT
1 AAAAT
7209393 GTCAAGTAAT
Statistics
Matches: 112, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.03
24 40 0.36
25 59 0.53
26 10 0.09
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (25 bp):
AAAATATCATAATAAATATCATGCA
Found at i:7209271 original size:13 final size:11
Alignment explanation
Indices: 7209245--7209377 Score: 77
Period size: 13 Copynumber: 10.9 Consensus size: 11
7209235 AACCATAAAA
*
7209245 ATCATAAAAAT
1 ATCATAATAAT
7209256 ATCATCCAATAAT
1 ATCAT--AATAAT
*
7209269 ATCATAATAAA
1 ATCATAATAAT
*
7209280 ATCATGTAAAAAGT
1 ATCA--TAATAA-T
*
7209294 ATCATAACAAAT
1 ATCATAA-TAAT
* *
7209306 ACCATGCAAAAAT
1 ATCAT--AATAAT
*
7209319 ATCATAATAAA
1 ATCATAATAAT
*
7209330 ATCATGCAAAAAT
1 ATCAT--AATAAT
7209343 ATCATAATAAAT
1 ATCATAAT-AAT
7209355 ATCATGCAATAAT
1 ATCAT--AATAAT
7209368 ATCATAATAA
1 ATCATAATAA
7209378 AATTCATGCA
Statistics
Matches: 98, Mismatches: 11, Indels: 26
0.73 0.08 0.19
Matches are distributed among these distances:
11 30 0.31
12 16 0.16
13 43 0.44
14 9 0.09
ACGTcount: A:0.56, C:0.14, G:0.04, T:0.27
Consensus pattern (11 bp):
ATCATAATAAT
Found at i:7209348 original size:49 final size:48
Alignment explanation
Indices: 7209241--7209392 Score: 225
Period size: 50 Copynumber: 3.1 Consensus size: 48
7209231 AAAAAACCAT
* *
7209241 AAAA-ATCATAAAAATATCATCCAATAATATCATAATAAAATCATGTA
1 AAAATATCATAAAAATATCATGCAATAATATCATAATAAAATCATGCA
* *
7209288 AAAAGTATCATAACAAATACCATGCAAAAATATCATAATAAAATCATGCA
1 AAAA-TATCATAA-AAATATCATGCAATAATATCATAATAAAATCATGCA
7209338 AAAATATCATAATAAATATCATGCAATAATATCATAATAAAATTCATGCA
1 AAAATATCATAA-AAATATCATGCAATAATATCATAATAAAA-TCATGCA
7209388 AAAAT
1 AAAAT
7209393 GTCAAGTAAT
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
47 4 0.04
49 42 0.45
50 48 0.51
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (48 bp):
AAAATATCATAAAAATATCATGCAATAATATCATAATAAAATCATGCA
Found at i:7209348 original size:74 final size:74
Alignment explanation
Indices: 7209241--7209392 Score: 195
Period size: 74 Copynumber: 2.1 Consensus size: 74
7209231 AAAAAACCAT
* *
7209241 AAAA-ATCATAAAAATATCATCCAATAATATCATAATAAA-ATCATGTAAAAAGTATCATAAC-A
1 AAAATATCATAAAAATATCATCCAAAAATATCATAATAAATATCATGCAAAAA-TATCATAACAA
7209303 AATACCATGCA
65 AAT-CCATGCA
* * *
7209314 AAAATATCATAATAAA-ATCATGCAAAAATATCATAATAAATATCATGCAATAATATCATAATAA
1 AAAATATCATAA-AAATATCATCCAAAAATATCATAATAAATATCATGCAAAAATATCATAACAA
*
7209378 AATTCATGCA
65 AATCCATGCA
7209388 AAAAT
1 AAAAT
7209393 GTCAAGTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
73 4 0.06
74 48 0.70
75 17 0.25
ACGTcount: A:0.57, C:0.13, G:0.04, T:0.26
Consensus pattern (74 bp):
AAAATATCATAAAAATATCATCCAAAAATATCATAATAAATATCATGCAAAAATATCATAACAAA
ATCCATGCA
Found at i:7211051 original size:21 final size:21
Alignment explanation
Indices: 7211000--7211055 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 21
7210990 AAATTTAAGA
7211000 ATTAAAAAATTTTAAAAATTTAT
1 ATTAAAAAA-TTT-AAAATTTAT
*
7211023 ATCT--AAAATTTAAAATTTTT
1 AT-TAAAAAATTTAAAATTTAT
7211043 ATTAAAAAATTTA
1 ATTAAAAAATTTA
7211056 TATTTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
19 1 0.03
20 10 0.34
21 11 0.38
22 4 0.14
23 2 0.07
24 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTAAAAAATTTAAAATTTAT
Found at i:7211053 original size:14 final size:14
Alignment explanation
Indices: 7211034--7211081 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
7211024 TCTAAAATTT
*
7211034 AAAATTTTTATTAA
1 AAAATTTATATTAA
*
7211048 AAAATTTATATTTA
1 AAAATTTATATTAA
* *
7211062 AATATTCATA-TAA
1 AAAATTTATATTAA
7211075 AAAATTT
1 AAAATTT
7211082 TAAAAATTCA
Statistics
Matches: 27, Mismatches: 7, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
13 7 0.26
14 20 0.74
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
AAAATTTATATTAA
Found at i:7211081 original size:21 final size:21
Alignment explanation
Indices: 7211057--7211115 Score: 55
Period size: 22 Copynumber: 2.8 Consensus size: 21
7211047 AAAAATTTAT
* *
7211057 ATTTAAATATTCATATAAAAA
1 ATTTAAAAATTCACATAAAAA
**
7211078 ATTTTAAAAATTCACATTTAAA
1 A-TTTAAAAATTCACATAAAAA
**
7211100 ATTTAATGATTCACAT
1 ATTTAAAAATTCACAT
7211116 TTGAAAGGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (21 bp):
ATTTAAAAATTCACATAAAAA
Found at i:7213260 original size:19 final size:19
Alignment explanation
Indices: 7213220--7213268 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
7213210 AAATATATAT
* *
7213220 ATATATATATATTTTCGCA
1 ATATATATTTATTTTCGAA
7213239 ATATATATTTATTTAT-GAA
1 ATATATATTTATTT-TCGAA
*
7213258 ATATATTTTTA
1 ATATATATTTA
7213269 CCACTCAATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
19 25 0.96
20 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (19 bp):
ATATATATTTATTTTCGAA
Found at i:7213286 original size:2 final size:2
Alignment explanation
Indices: 7213279--7213307 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
7213269 CCACTCAATC
7213279 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7213308 TACAAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:7213634 original size:78 final size:78
Alignment explanation
Indices: 7213548--7213694 Score: 188
Period size: 78 Copynumber: 1.9 Consensus size: 78
7213538 TATCTTTTTA
* * * *
7213548 AAAATAGATTTTCAAATATTCTAAATATATATATTTTTTAAATTTAAAAAA-CTCAAACATAGTG
1 AAAATAGATTTCCAAATAATCTAAATATATAT-CTTTTTAAATCTAAAAAATCTCAAACATAGTG
7213612 ATATATTGTCTTCT
65 ATATATTGTCTTCT
* * * * **
7213626 AAAATAGATTTCCTAATAATGTAAATATATATCTTTTTGAATCTAAAAAATTTCAAATGTAGTGA
1 AAAATAGATTTCCAAATAATCTAAATATATATCTTTTTAAATCTAAAAAATCTCAAACATAGTGA
7213691 TATA
66 TATA
7213695 CTAAAATAGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
77 15 0.26
78 43 0.74
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.41
Consensus pattern (78 bp):
AAAATAGATTTCCAAATAATCTAAATATATATCTTTTTAAATCTAAAAAATCTCAAACATAGTGA
TATATTGTCTTCT
Found at i:7213768 original size:27 final size:28
Alignment explanation
Indices: 7213730--7213782 Score: 74
Period size: 27 Copynumber: 1.9 Consensus size: 28
7213720 AATATATGTC
7213730 ATTTTAAATTTA-AAATTCTCA-AATATA
1 ATTTTAAATTTATAAATT-TCATAATATA
*
7213757 ATTTTAATTTTATAAATTTCATAATA
1 ATTTTAAATTTATAAATTTCATAATA
7213783 ATCCTTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 14 0.61
28 9 0.39
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (28 bp):
ATTTTAAATTTATAAATTTCATAATATA
Found at i:7217763 original size:8 final size:10
Alignment explanation
Indices: 7217733--7217761 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
7217723 TAATTATTTT
7217733 ATATTTAAAA
1 ATATTTAAAA
7217743 ATATTTAAAA
1 ATATTTAAAA
7217753 ATA-TTAAAA
1 ATATTTAAAA
7217762 TAATTAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATTTAAAA
Found at i:7218866 original size:10 final size:10
Alignment explanation
Indices: 7218851--7218910 Score: 75
Period size: 10 Copynumber: 5.8 Consensus size: 10
7218841 ATGTCATATT
7218851 AATTTTAAAA
1 AATTTTAAAA
7218861 AATTTTTAAAA
1 AA-TTTTAAAA
*
7218872 AATTCTAAAA
1 AATTTTAAAA
*
7218882 AGTTTTAAAA
1 AATTTTAAAA
*
7218892 GATTCTTAAAA
1 AATT-TTAAAA
7218903 AATTTTAA
1 AATTTTAA
7218911 TTTTTTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
10 23 0.55
11 19 0.45
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (10 bp):
AATTTTAAAA
Found at i:7218869 original size:11 final size:11
Alignment explanation
Indices: 7218853--7218908 Score: 62
Period size: 11 Copynumber: 5.3 Consensus size: 11
7218843 GTCATATTAA
7218853 TTTTAAAAAAT
1 TTTTAAAAAAT
7218864 TTTTAAAAAA-
1 TTTTAAAAAAT
* *
7218874 TTCT-AAAAAG
1 TTTTAAAAAAT
*
7218884 TTTTAAAAGAT
1 TTTTAAAAAAT
*
7218895 TCTTAAAAAAT
1 TTTTAAAAAAT
7218906 TTT
1 TTT
7218909 AATTTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 5 0.14
10 6 0.17
11 25 0.69
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.43
Consensus pattern (11 bp):
TTTTAAAAAAT
Found at i:7218909 original size:21 final size:21
Alignment explanation
Indices: 7218851--7218910 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
7218841 ATGTCATATT
7218851 AATT-TTAAAAAATTTTTAAAA
1 AATTCTTAAAAAA-TTTTAAAA
*
7218872 AATTC-TAAAAAGTTTTAAAA
1 AATTCTTAAAAAATTTTAAAA
*
7218892 GATTCTTAAAAAATTTTAA
1 AATTCTTAAAAAATTTTAA
7218911 TTTTTTTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
AATTCTTAAAAAATTTTAAAA
Found at i:7219175 original size:19 final size:18
Alignment explanation
Indices: 7219151--7219203 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
7219141 TTCTTTTTGA
*
7219151 AAAATTCTAAAAAAGTTTT
1 AAAATTCTAAAAAA-TTAT
* *
7219170 AAAATTTTTTAAAAATTAT
1 AAAA-TTCTAAAAAATTAT
*
7219189 AAAATTCAAAAAAAT
1 AAAATTCTAAAAAAT
7219204 AAAAAATATA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 8 0.30
19 11 0.41
20 8 0.30
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (18 bp):
AAAATTCTAAAAAATTAT
Found at i:7219292 original size:18 final size:19
Alignment explanation
Indices: 7219271--7219314 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
7219261 TTCAAAAATA
7219271 TAAAAA-AGGACATTATCC
1 TAAAAATAGGACATTATCC
*
7219289 TAAAAATGGGACATTATCC
1 TAAAAATAGGACATTATCC
*
7219308 CAAAAAT
1 TAAAAAT
7219315 CTAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.26
19 17 0.74
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.23
Consensus pattern (19 bp):
TAAAAATAGGACATTATCC
Found at i:7219314 original size:19 final size:19
Alignment explanation
Indices: 7219278--7219314 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
7219268 ATATAAAAAA
*
7219278 GGACATTATCCTAAAAATG
1 GGACATTATCCCAAAAATG
7219297 GGACATTATCCCAAAAAT
1 GGACATTATCCCAAAAAT
7219315 CTAAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (19 bp):
GGACATTATCCCAAAAATG
Found at i:7219362 original size:20 final size:20
Alignment explanation
Indices: 7219319--7219365 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
7219309 AAAAATCTAA
* *
7219319 AAAAATTCTAAAAATTTTTG
1 AAAAATTCTAAAAATATGTG
7219339 AAAAATTCTAAAAAATATGT-
1 AAAAATTCT-AAAAATATGTG
7219359 AAAAATT
1 AAAAATT
7219366 AAAAAAGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 16 0.67
21 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
AAAAATTCTAAAAATATGTG
Found at i:7220034 original size:17 final size:17
Alignment explanation
Indices: 7220014--7220068 Score: 57
Period size: 17 Copynumber: 3.5 Consensus size: 17
7220004 AAAAAAAAAA
7220014 TTTAGATTTGTAAAATT
1 TTTAGATTTGTAAAATT
7220031 TTT--A---GTAAAATT
1 TTTAGATTTGTAAAATT
*
7220043 TTTAGATTTTTAAAATT
1 TTTAGATTTGTAAAATT
*
7220060 TTTAAATTT
1 TTTAGATTT
7220069 TTTTTGAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
12 11 0.35
14 1 0.03
15 1 0.03
17 18 0.58
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.56
Consensus pattern (17 bp):
TTTAGATTTGTAAAATT
Found at i:7220040 original size:12 final size:12
Alignment explanation
Indices: 7220023--7220047 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7220013 ATTTAGATTT
7220023 GTAAAATTTTTA
1 GTAAAATTTTTA
7220035 GTAAAATTTTTA
1 GTAAAATTTTTA
7220047 G
1 G
7220048 ATTTTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (12 bp):
GTAAAATTTTTA
Found at i:7220040 original size:29 final size:29
Alignment explanation
Indices: 7220008--7220063 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
7219998 AATTTAAAAA
7220008 AAAAAATTTAGATTTGTAAAATTTTTAGT
1 AAAAAATTTAGATTTGTAAAATTTTTAGT
** *
7220037 AAAATTTTTAGATTTTTAAAATTTTTA
1 AAAAAATTTAGATTTGTAAAATTTTTA
7220064 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (29 bp):
AAAAAATTTAGATTTGTAAAATTTTTAGT
Found at i:7220060 original size:9 final size:9
Alignment explanation
Indices: 7220036--7220139 Score: 61
Period size: 9 Copynumber: 11.3 Consensus size: 9
7220026 AAATTTTTAG
7220036 TAAAATTTT
1 TAAAATTTT
*
7220045 T-AGATTTT
1 TAAAATTTT
7220053 TAAAATTTT
1 TAAAATTTT
*
7220062 TAAATTTTTTT
1 TAAA--ATTTT
* *
7220073 TGAATTTTT
1 TAAAATTTT
7220082 TAAAACTTTT
1 TAAAA-TTTT
*
7220092 TAGAA--TT
1 TAAAATTTT
***
7220099 TAAAAAAAT
1 TAAAATTTT
*
7220108 TAGAATTTTT
1 TA-AAATTTT
7220118 TAATAATTTT
1 TAA-AATTTT
7220128 TAAAATTTT
1 TAAAATTTT
7220137 TAA
1 TAA
7220140 CAAAAAGAGC
Statistics
Matches: 73, Mismatches: 14, Indels: 16
0.71 0.14 0.16
Matches are distributed among these distances:
7 6 0.08
8 7 0.10
9 32 0.44
10 21 0.29
11 7 0.10
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (9 bp):
TAAAATTTT
Found at i:7220069 original size:17 final size:17
Alignment explanation
Indices: 7220036--7220070 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
7220026 AAATTTTTAG
*
7220036 TAAAATTTTTAGATTTT
1 TAAAATTTTTAAATTTT
7220053 TAAAATTTTTAAATTTT
1 TAAAATTTTTAAATTTT
7220070 T
1 T
7220071 TTTGAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (17 bp):
TAAAATTTTTAAATTTT
Found at i:7220091 original size:20 final size:20
Alignment explanation
Indices: 7220049--7220099 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
7220039 AATTTTTAGA
* **
7220049 TTTTTA-AAATTTTTAAATT
1 TTTTTAGAATTTTTTAAAAC
*
7220068 TTTTTTGAATTTTTTAAAAC
1 TTTTTAGAATTTTTTAAAAC
7220088 TTTTTAGAATTT
1 TTTTTAGAATTT
7220100 AAAAAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (20 bp):
TTTTTAGAATTTTTTAAAAC
Found at i:7222348 original size:18 final size:16
Alignment explanation
Indices: 7222296--7222341 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
7222286 TGTTGTTAAC
* *
7222296 ATTTTATTTTTTATTA
1 ATTTTATATATTATTA
7222312 ATTTTATATATTATTA
1 ATTTTATATATTATTA
7222328 ATTTTATA-ATTATT
1 ATTTTATATATTATT
7222342 TTTAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
15 6 0.21
16 22 0.79
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTATATATTATTA
Found at i:7222652 original size:16 final size:16
Alignment explanation
Indices: 7222631--7222669 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
7222621 CATAATGATT
* *
7222631 TAAAATGATTTAATTG
1 TAAAATAATTTAATTA
7222647 TAAAATTAATTTAATTA
1 TAAAA-TAATTTAATTA
7222664 TAAAAT
1 TAAAAT
7222670 CAGATCAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (16 bp):
TAAAATAATTTAATTA
Found at i:7223794 original size:14 final size:14
Alignment explanation
Indices: 7223763--7223795 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
7223753 CTTTTTGAAA
*
7223763 AAAATTAAAAATAT
1 AAAATTAAAAAAAT
7223777 -AAATTAAAAAAAT
1 AAAATTAAAAAAAT
7223790 AAAATT
1 AAAATT
7223796 TTATTAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAATTAAAAAAAT
Found at i:7227322 original size:70 final size:69
Alignment explanation
Indices: 7227198--7227467 Score: 224
Period size: 70 Copynumber: 3.9 Consensus size: 69
7227188 TCGTAAGTCA
* * * ** * ** * *
7227198 AAAAATAAGGATTATCGAGATTGAA-TCATAAATCGAGAAATAACAATGACTGAGATTGAATCAC
1 AAAAATAAGGATGATAGAGATTGAACT-ATAAGTAAAAAAATAAGGATGATTGAGATTGAATCGC
7227262 AAATC
65 AAATC
* * * *
7227267 AAGAAGTAAGGATGATAGAGACTGAACTATAAGTAAAAAAATAAGGATGATTGAGATTAAATTGC
1 AA-AAATAAGGATGATAGAGATTGAACTATAAGTAAAAAAATAAGGATGATTGAGATTGAATCGC
*
7227332 AAGTC
65 AAATC
* * ** * * *
7227337 GAAAAATAAAGATAACTAG-GATTGAACTATAAGTTGAAAAGTAAGGATGATTGAGACTG-AGCT
1 -AAAAATAAGGATGA-TAGAGATTGAACTATAAGTAAAAAAATAAGGATGATTGAGATTGAATC-
7227400 GCAAATC
63 GCAAATC
* * *
7227407 AAAAAATAAGGATGATTGAGATTGAACCATAAGTAAAAAAATAATGATGATTTG-GATTGAA
1 -AAAAATAAGGATGATAGAGATTGAACTATAAGTAAAAAAATAAGGATGA-TTGAGATTGAA
7227468 CCGTAAGTTG
Statistics
Matches: 156, Mismatches: 37, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
69 5 0.03
70 141 0.90
71 10 0.06
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (69 bp):
AAAAATAAGGATGATAGAGATTGAACTATAAGTAAAAAAATAAGGATGATTGAGATTGAATCGCA
AATC
Found at i:7227379 original size:105 final size:104
Alignment explanation
Indices: 7227270--7227735 Score: 319
Period size: 105 Copynumber: 4.4 Consensus size: 104
7227260 ACAAATCAAG
** *
7227270 AAGTAAGGATGATAGAGACTGAACTATAAGTAAAAAAATAAGGATGATTGAGATTAAATTGCAAG
1 AAGTAAGGATGATAGAGACTGAACTGCAAGTCAAAAAATAAGGATGATTGAGATTAAATTGCAAG
* * *
7227335 TCGAAAAATAAAGATAACTAGGATTGAACTATAAGTTGAA
66 T-AAAAAATAAAGATGACTAGGACTGAACTATAAGTTGAA
* * * * ****
7227375 AAGTAAGGATGATTGAGACTGAGCTGCAAATCAAAAAATAAGGATGATTGAGATTGAACCATAAG
1 AAGTAAGGATGATAGAGACTGAACTGCAAGTCAAAAAATAAGGATGATTGAGATTAAATTGCAAG
* * * * **
7227440 TAAAAAAATAATGATGATTTGGATTGAACCGTAAGTTGAA
66 T-AAAAAATAAAGATGACTAGGACTGAACTATAAGTTGAA
** * * * * ** * * * * *
7227480 AAGTAAAAAAGATCGAGACTGAATTGGAAGTCAAAAGGTACGGATGATCGGGATTAAATTGTAAA
1 AAGTAAGGATGATAGAGACTGAACTGCAAGTCAAAAAATAAGGATGATTGAGATTAAATTGCAAG
* * **
7227545 TAAAAAAGTAAAGATGATTGGGACTGAA-TAGTAAGTCAAA
66 TAAAAAA-TAAAGATGACTAGGACTGAACTA-TAAGTTGAA
* * * * * * * * * *
7227585 AAATAAAGATGATCAG-GGCTAAACTACAAGTAAAAAAATAAGGATGAATGGGATTGAATAGCAA
1 AAGTAAGGATGAT-AGAGACTGAACTGCAAGTCAAAAAATAAGGATGATTGAGATTAAATTGCAA
* * * ** *
7227649 GTTGAAAACTAAAGATGAC-AGGGACTAAACGGTAAG-TCAA
65 G-TAAAAAATAAAGATGACTA-GGACTGAACTATAAGTTGAA
* * * *
7227689 GAAATAAGGATGATCGAGACTGAACCGTAAGTCAAAAAATAAGGATG
1 -AAGTAAGGATGATAGAGACTGAACTGCAAGTCAAAAAATAAGGATG
7227736 CTAGGACTGA
Statistics
Matches: 273, Mismatches: 80, Indels: 16
0.74 0.22 0.04
Matches are distributed among these distances:
104 9 0.03
105 258 0.95
106 6 0.02
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (104 bp):
AAGTAAGGATGATAGAGACTGAACTGCAAGTCAAAAAATAAGGATGATTGAGATTAAATTGCAAG
TAAAAAATAAAGATGACTAGGACTGAACTATAAGTTGAA
Found at i:7227469 original size:35 final size:35
Alignment explanation
Indices: 7227191--7227475 Score: 155
Period size: 35 Copynumber: 8.1 Consensus size: 35
7227181 ATTAGTCTCG
* * * *
7227191 TAAGTCAAAAAATAAGGATTATCGAGATTGAATCA
1 TAAGTAAAAAAATAAGGATGATTGAGATTGAACCA
* ** * ** * *
7227226 TAAATCGAGAAATAACAATGACTGAGATTGAATCA
1 TAAGTAAAAAAATAAGGATGATTGAGATTGAACCA
* * * * * * * *
7227261 CAAATCAAGAAGTAAGGATGATAGAGACTGAACTA
1 TAAGTAAAAAAATAAGGATGATTGAGATTGAACCA
* ***
7227296 TAAGTAAAAAAATAAGGATGATTGAGATTAAATTG
1 TAAGTAAAAAAATAAGGATGATTGAGATTGAACCA
* ** * * * *
7227331 CAAGTCGAAAAATAAAGATAACT-AGGATTGAACTA
1 TAAGTAAAAAAATAAGGATGATTGA-GATTGAACCA
** * * *
7227366 TAAGTTGAAAAGTAAGGATGATTGAGACTGAGCTGCA
1 TAAGTAAAAAAATAAGGATGATTGAGATTGAAC--CA
*
7227403 -AA-TCAAAAAATAAGGATGATTGAGATTGAACCA
1 TAAGTAAAAAAATAAGGATGATTGAGATTGAACCA
* *
7227436 TAAGTAAAAAAATAATGATGATTTG-GATTGAACCG
1 TAAGTAAAAAAATAAGGATGA-TTGAGATTGAACCA
7227471 TAAGT
1 TAAGT
7227476 TGAAAAGTAA
Statistics
Matches: 189, Mismatches: 54, Indels: 14
0.74 0.21 0.05
Matches are distributed among these distances:
33 2 0.01
34 3 0.02
35 177 0.94
36 6 0.03
37 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.20, T:0.24
Consensus pattern (35 bp):
TAAGTAAAAAAATAAGGATGATTGAGATTGAACCA
Found at i:7227596 original size:70 final size:70
Alignment explanation
Indices: 7227522--7227735 Score: 209
Period size: 70 Copynumber: 3.1 Consensus size: 70
7227512 AAAAGGTACG
* * * *
7227522 GATGATC-GGGATTAAATTGTAAATAAAAAAGTAAAGATGATTGGGACTGAATAGTAAGTCAAAA
1 GATGATCAGGGACTAAACTGTAAGTAAAAAA-TAAGGATGATTGGGACTGAATAGTAAGTCAAAA
7227586 AATAAA
65 AATAAA
** * * * **
7227592 GATGATCAGGG-CTAAACTACAAGTAAAAAAATAAGGATGAATGGGATTGAATAGCAAGTTGAAA
1 GATGATCAGGGACTAAACTGTAAGT-AAAAAATAAGGATGATTGGGACTGAATAGTAAGTCAAAA
*
7227656 ACTAAA
65 AATAAA
* * * * **
7227662 GATGA-CAGGGACTAAACGGTAAGTCAAGAAATAAGGATGATCGAGACTGAACCGTAAGTCAAAA
1 GATGATCAGGGACTAAACTGTAAGT-AAAAAATAAGGATGATTGGGACTGAATAGTAAGTCAAAA
*
7227726 AATAAG
65 AATAAA
7227732 GATG
1 GATG
7227736 CTAGGACTGA
Statistics
Matches: 113, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
69 5 0.04
70 99 0.88
71 9 0.08
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (70 bp):
GATGATCAGGGACTAAACTGTAAGTAAAAAATAAGGATGATTGGGACTGAATAGTAAGTCAAAAA
ATAAA
Found at i:7227753 original size:34 final size:35
Alignment explanation
Indices: 7227273--7227755 Score: 159
Period size: 35 Copynumber: 13.8 Consensus size: 35
7227263 AATCAAGAAG
** *
7227273 TAAGGATGATAGAGACTGAACTATAAGTAAAAAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * ** * *
7227308 TAAGGATGATTGAGATTAAATTGCAAGTCGAAAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * ** ** *
7227343 TAAAGATAACTAG-GATTGAACTATAAGTTGAAAAG
1 TAAGGATGA-TAGAGACTGAACCGTAAGTCAAAAAA
* * * * *
7227378 TAAGGATGATTGAGACTGAGCTGCAAATCAAAAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * *
7227413 TAAGGATGATTGAGATTGAACCATAAGTAAAAAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * ** *
7227448 TAATGATGATTTG-GATTGAACCGTAAGTTGAAAAG
1 TAAGGATGA-TAGAGACTGAACCGTAAGTCAAAAAA
** * * ** * **
7227483 TAAAAAAGATCGAGACTGAATTGGAAGTCAAAAGG
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * * * ** *
7227518 TACGGATGATCGGGATTAAATTGTAAAT-AAAAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * **
7227552 GTAAAGATGATTGGGACTGAATAGTAAGTCAAAAAA
1 -TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* * * *** *
7227588 TAAAGATGATCAG-GGCTAAACTACAAGTAAAAAAA
1 TAAGGATGAT-AGAGACTGAACCGTAAGTCAAAAAA
* * ** * ** *
7227623 TAAGGATGA-ATGGGATTGAATAGCAAGTTGAAAAC
1 TAAGGATGATA-GAGACTGAACCGTAAGTCAAAAAA
* * * * * *
7227658 TAAAGATGACAGGGACTAAACGGTAAGTCAAGAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
*
7227693 TAAGGATGATCGAGACTGAACCGTAAGTCAAAAAA
1 TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
* **
7227728 TAAGGATGCTAG-GACTGAATTGTAAGTC
1 TAAGGATGATAGAGACTGAACCGTAAGTC
7227756 GAGAATCAAG
Statistics
Matches: 330, Mismatches: 108, Indels: 21
0.72 0.24 0.05
Matches are distributed among these distances:
33 1 0.00
34 23 0.07
35 293 0.89
36 13 0.04
ACGTcount: A:0.47, C:0.08, G:0.23, T:0.22
Consensus pattern (35 bp):
TAAGGATGATAGAGACTGAACCGTAAGTCAAAAAA
Found at i:7227755 original size:69 final size:69
Alignment explanation
Indices: 7227680--7227844 Score: 156
Period size: 69 Copynumber: 2.4 Consensus size: 69
7227670 GGACTAAACG
* ** * *
7227680 GTAAGTCAAGAAATAAGGATGATCGAGACTGAACCGTAAGTCAAAAAATAAGGATG-CTAGGACT
1 GTAAGTCAAGAAATAAGGATGATCGAGACTAAACCACAAATC-AAAAACAAGGATGACTAGGACT
7227744 GAATT
65 GAATT
* * * * * *
7227749 GTAAGTCGAG-AATCAAGGTTGA-CTAGGACTAAACCACAAATCAAAAACAAGGTTGATTGGGAC
1 GTAAGTCAAGAAAT-AAGGATGATCGA-GACTAAACCACAAATCAAAAACAAGGATGACTAGGAC
7227812 TGAATT
64 TGAATT
* * *
7227818 GCAAGTCAAGAAACAATGATGATCGAG
1 GTAAGTCAAGAAATAAGGATGATCGAG
7227845 GGCTAAAATC
Statistics
Matches: 74, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
68 16 0.22
69 54 0.73
70 4 0.05
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.20
Consensus pattern (69 bp):
GTAAGTCAAGAAATAAGGATGATCGAGACTAAACCACAAATCAAAAACAAGGATGACTAGGACTG
AATT
Found at i:7227897 original size:36 final size:37
Alignment explanation
Indices: 7227751--7227923 Score: 108
Period size: 36 Copynumber: 4.9 Consensus size: 37
7227741 ACTGAATTGT
* * *
7227751 AAGTCGAGAATCAAGGTTGA-CTAGGACT-AAACCAC
1 AAGTCGAGAAACAAGGATGATCGAGGACTAAAACCAC
* * * * * ***
7227786 AAATC-AAAAACAAGGTTGATTG-GGACT-GAATTGC
1 AAGTCGAGAAACAAGGATGATCGAGGACTAAAACCAC
* * * * **
7227820 AAGTCAAGAAACAATGATGATCGAGGGCTAAAATCGT
1 AAGTCGAGAAACAAGGATGATCGAGGACTAAAACCAC
*
7227857 AAGTCGAGAAATAAGGATGATCGA-GACTAAAACCAC
1 AAGTCGAGAAACAAGGATGATCGAGGACTAAAACCAC
** *
7227893 AAGTCGAGAAACAAAAATGATC-AGAACTAAA
1 AAGTCGAGAAACAAGGATGATCGAGGACTAAA
7227924 CTGCTAGTTG
Statistics
Matches: 104, Mismatches: 29, Indels: 9
0.73 0.20 0.06
Matches are distributed among these distances:
34 24 0.23
35 18 0.17
36 37 0.36
37 25 0.24
ACGTcount: A:0.46, C:0.15, G:0.22, T:0.17
Consensus pattern (37 bp):
AAGTCGAGAAACAAGGATGATCGAGGACTAAAACCAC
Found at i:7228317 original size:35 final size:35
Alignment explanation
Indices: 7228278--7228364 Score: 113
Period size: 34 Copynumber: 2.5 Consensus size: 35
7228268 ACTAAACCGC
* ***
7228278 AAGTCAAGAAATAAGGATGATTAGGATTGAATTGT
1 AAGTCAAGAAATAAGGATGATTAGGACTGAACCAT
*
7228313 AAGTCGAGAAAT-AGGATGATTAGGACTGAACCAT
1 AAGTCAAGAAATAAGGATGATTAGGACTGAACCAT
*
7228347 AAGTCAAAAAATAAGGAT
1 AAGTCAAGAAATAAGGAT
7228365 AATTGGAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 28 0.64
35 16 0.36
ACGTcount: A:0.46, C:0.07, G:0.24, T:0.23
Consensus pattern (35 bp):
AAGTCAAGAAATAAGGATGATTAGGACTGAACCAT
Found at i:7228350 original size:34 final size:35
Alignment explanation
Indices: 7227681--7228364 Score: 163
Period size: 35 Copynumber: 19.5 Consensus size: 35
7227671 GACTAAACGG
* *
7227681 TAAGTCAAGAAATAAGGATGA-TCGAGACTGAACCG
1 TAAGTCAAGAAATAAGGATGATTAG-GACTGAACCA
* * ***
7227716 TAAGTCAAAAAATAAGGATG-CTAGGACTGAATTG
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* * * *
7227750 TAAGTCGAG-AATCAAGGTTGACTAGGACTAAACCA
1 TAAGTCAAGAAAT-AAGGATGATTAGGACTGAACCA
* * * * * ***
7227785 CAAATCAA-AAACAAGGTTGATTGGGACTGAATTG
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* * * * * * * *
7227819 CAAGTCAAGAAACAATGATGATCGAGGGCTAAAATCG
1 TAAGTCAAGAAATAAGGATGAT-TAGGACT-GAACCA
* * *
7227856 TAAGTCGAGAAATAAGGATGA-TCGAGACTAAAACCA
1 TAAGTCAAGAAATAAGGATGATTAG-GACT-GAACCA
* * * ** * * *
7227892 CAAGTCGAGAAACAAAAATGATCAGAACTAAACTGC-
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAAC--CA
** * * * * **
7227928 T-AGTTGAGAAACAAAGATGACTAGAACTGAACTG
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* * * *
7227962 TAAGTTAGGAAATAAGAATGATTGGGACTGAACCA
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* * * * * * *
7227997 GAAGTCAAGAATTAAGGATAATCACGACTAAATTGCA
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAA--CCA
* * * **
7228034 T--GTCGAGAAATAAGGATGACTAGGACTAAACTG
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* * * ** *
7228067 CAAGTAAAAAAATAAGGATGACCAGGATTGAACCA
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* * * * * * *
7228102 TAACT-AGGGAAATAAGGTTGACTGGGATTGAATCA
1 TAAGTCA-AGAAATAAGGATGATTAGGACTGAACCA
** * * **
7228137 TAAGTTGAGAAATAAGGATGA-TCGAGATTGAACTG
1 TAAGTCAAGAAATAAGGATGATTAG-GACTGAACCA
** * * *
7228172 TAAGTCGGGAAGTAAGGATGATTGGGACTGAACCG
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
* ** * * *
7228207 TAAGTCAAAAAATAAATATGATT-GAGATTAAATCA
1 TAAGTCAAGAAATAAGGATGATTAG-GACTGAACCA
* * * * * * * * * *
7228242 CAAATCGAGAAAAAATGATAACCTA-AACTAAACCG
1 TAAGTCAAGAAATAAGGATGA-TTAGGACTGAACCA
* * ***
7228277 CAAGTCAAGAAATAAGGATGATTAGGATTGAATTG
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
*
7228312 TAAGTCGAGAAAT-AGGATGATTAGGACTGAACCA
1 TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
*
7228346 TAAGTCAAAAAATAAGGAT
1 TAAGTCAAGAAATAAGGAT
7228365 AATTGGAATT
Statistics
Matches: 467, Mismatches: 156, Indels: 52
0.69 0.23 0.08
Matches are distributed among these distances:
33 3 0.01
34 79 0.17
35 325 0.70
36 35 0.07
37 25 0.05
ACGTcount: A:0.44, C:0.12, G:0.23, T:0.21
Consensus pattern (35 bp):
TAAGTCAAGAAATAAGGATGATTAGGACTGAACCA
Found at i:7228386 original size:35 final size:35
Alignment explanation
Indices: 7228347--7228469 Score: 113
Period size: 35 Copynumber: 3.5 Consensus size: 35
7228337 ACTGAACCAT
* *
7228347 AAGTCAAAAAATAAGGATAATTGGAATTAAATCAC
1 AAGTCAAAAAATAAGGATAATAGGAATTAAATCGC
* * * * *
7228382 AAGTCAAAAAATAAGGA-AGATCGAAACTCAATGGC
1 AAGTCAAAAAATAAGGATA-ATAGGAATTAAATCGC
** * * *
7228417 AAGTCAAAAAATAATAATGATAGGGATTGAATCGC
1 AAGTCAAAAAATAAGGATAATAGGAATTAAATCGC
*
7228452 AAGACAAAAAATAAGGAT
1 AAGTCAAAAAATAAGGAT
7228470 GACCAAGATT
Statistics
Matches: 68, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
34 1 0.01
35 67 0.99
ACGTcount: A:0.54, C:0.10, G:0.18, T:0.19
Consensus pattern (35 bp):
AAGTCAAAAAATAAGGATAATAGGAATTAAATCGC
Found at i:7228394 original size:69 final size:69
Alignment explanation
Indices: 7228186--7228394 Score: 174
Period size: 69 Copynumber: 3.0 Consensus size: 69
7228176 TCGGGAAGTA
* ** *
7228186 AGGATGATTGGGACTGAACCGTAAGTCAAAAAATAAATATGATT-GAGATTAAATCACAAATCGA
1 AGGATGATTAGGACTGAACCGTAAGTCAAAAAATAAGGATGATTGGA-ATTAAATCACAAGTC-A
7228250 GAAAAA-
64 -AAAAAT
* * * * * * * * *** *
7228256 ATGATAACCTA-AACTAAACCGCAAGTCAAGAAATAAGGATGATTAGG-ATTGAATTGTAAGTCG
1 AGGATGA-TTAGGACTGAACCGTAAGTCAAAAAATAAGGATGATT-GGAATTAAATCACAAGTCA
*
7228319 AGAAAT
64 AAAAAT
* *
7228325 AGGATGATTAGGACTGAACCATAAGTCAAAAAATAAGGATAATTGGAATTAAATCACAAGTCAAA
1 AGGATGATTAGGACTGAACCGTAAGTCAAAAAATAAGGATGATTGGAATTAAATCACAAGTCAAA
7228390 AAAT
66 AAAT
7228394 A
1 A
7228395 AGGAAGATCG
Statistics
Matches: 101, Mismatches: 32, Indels: 13
0.69 0.22 0.09
Matches are distributed among these distances:
68 8 0.08
69 49 0.49
70 42 0.42
71 1 0.01
72 1 0.01
ACGTcount: A:0.48, C:0.11, G:0.19, T:0.22
Consensus pattern (69 bp):
AGGATGATTAGGACTGAACCGTAAGTCAAAAAATAAGGATGATTGGAATTAAATCACAAGTCAAA
AAAT
Found at i:7228409 original size:139 final size:139
Alignment explanation
Indices: 7228144--7228471 Score: 349
Period size: 139 Copynumber: 2.3 Consensus size: 139
7228134 TCATAAGTTG
* * * * * *
7228144 AGAAATAAGGATGATCGAGATTGAACTGTAAGTCGGGAAGTAAGGATGATTGGGACTGAACCGTA
1 AGAAATAAGGATGATAG-GATTGAATTGTAAGTCGAGAAATAAGGATGATTAGGACTGAACCATA
* * * * *
7228209 AGTCAAAAAATAAATATGATTGAGATTAAATCACAAATCGAGAAAAAATGATAACCTAAACTAAA
65 AGTCAAAAAATAAAGATAATTGAGATTAAATCACAAATCGAAAAAAAAGGATAACCGAAACTAAA
7228274 CCGCAAGTCA
130 CCGCAAGTCA
7228284 AGAAATAAGGATGATTAGGATTGAATTGTAAGTCGAGAAAT-AGGATGATTAGGACTGAACCATA
1 AGAAATAAGGATGA-TAGGATTGAATTGTAAGTCGAGAAATAAGGATGATTAGGACTGAACCATA
* * *
7228348 AGTCAAAAAATAAGGATAATTG-GAATTAAATCACAAGTC-AAAAAATAAGGA-AGATCGAAACT
65 AGTCAAAAAATAAAGATAATTGAG-ATTAAATCACAAATCGAAAAAA-AAGGATA-ACCGAAACT
* **
7228410 CAATGGCAAGTCA
127 AAACCGCAAGTCA
* ** * * * * *
7228423 AAAAATAATAATGATAGGGATTGAATCGCAAGACAAAAAATAAGGATGA
1 AGAAATAAGGATGATA-GGATTGAATTGTAAGTCGAGAAATAAGGATGA
7228472 CCAAGATTGA
Statistics
Matches: 157, Mismatches: 25, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
138 9 0.06
139 105 0.67
140 41 0.26
141 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.21, T:0.21
Consensus pattern (139 bp):
AGAAATAAGGATGATAGGATTGAATTGTAAGTCGAGAAATAAGGATGATTAGGACTGAACCATAA
GTCAAAAAATAAAGATAATTGAGATTAAATCACAAATCGAAAAAAAAGGATAACCGAAACTAAAC
CGCAAGTCA
Found at i:7229095 original size:30 final size:31
Alignment explanation
Indices: 7229060--7229353 Score: 98
Period size: 31 Copynumber: 9.4 Consensus size: 31
7229050 CTAGCTAATT
*
7229060 TGGGCTTAAATCTTCTTGGTGCCAGCT-AAC
1 TGGGCTTAATTCTTCTTGGTGCCAGCTAAAC
* *** *
7229090 TGGGCTTAATTTTTCACAGTGCTAGCTAAAC
1 TGGGCTTAATTCTTCTTGGTGCCAGCTAAAC
* *
7229121 TGAGCTTAATTCTTTTTGGTGCCTA-CTAAA-
1 TGGGCTTAATTCTTCTTGGTGCC-AGCTAAAC
* * * * * *
7229151 TTGACTTAATTCATCTTAGG-GCTAACTAAAT
1 TGGGCTTAATTCTTCTT-GGTGCCAGCTAAAC
* * * * *
7229182 TGGGCTCAGTCTTTTCTTAGGTG-CAACTTAGAC
1 TGGGCTTAAT-TCTTCTT-GGTGCCAGC-TAAAC
** * * *
7229215 TAAGCTTACATT-TTCATGGTGCCAGTTAGAC
1 TGGGCTTA-ATTCTTCTTGGTGCCAGCTAAAC
* * * *
7229246 TAGGCTTAAATCTTTCTCTGGTGTCAACTAAAC
1 TGGGCTTAATTC-TTCT-TGGTGCCAGCTAAAC
* * **
7229279 TAGGCTTAAATCTTCATAAGTGCCAGCTAAA-
1 TGGGCTTAATTCTTC-TTGGTGCCAGCTAAAC
* * * * *
7229310 TTGGCTTAAATCTCATCTAGGTGCTAGTTAAAC
1 TGGGCTT-AAT-TCTTCTTGGTGCCAGCTAAAC
*
7229343 TGAGCTTAATT
1 TGGGCTTAATT
7229354 TCCATTGTTG
Statistics
Matches: 193, Mismatches: 54, Indels: 33
0.69 0.19 0.12
Matches are distributed among these distances:
29 1 0.01
30 42 0.22
31 55 0.28
32 51 0.26
33 43 0.22
34 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.36
Consensus pattern (31 bp):
TGGGCTTAATTCTTCTTGGTGCCAGCTAAAC
Found at i:7229463 original size:65 final size:64
Alignment explanation
Indices: 7229273--7229471 Score: 190
Period size: 66 Copynumber: 3.1 Consensus size: 64
7229263 CTGGTGTCAA
* * *
7229273 CTAAACTAGGCTTAAATCTTCATAAGTGCCAGCTAAA-TTGGCTTAAATCTCATCTAGGTGCTAG
1 CTAAACTAGGCTTAAA-CTTCATAAGTGCTAGCTAAACTAGGCTTAAATCTCATCTAGATGCTAG
* * * * * *
7229337 TTAAACT-GAGCTT-AATTTCCAT-TGTTGCTAGCTAGACTAGGCTTAAATCTTATCTCCGATGC
1 CTAAACTAG-GCTTAAACTT-CATAAG-TGCTAGCTAAACTAGGCTTAAATCTCATCT-AGATGC
7229399 TAG
62 TAG
* * * * *
7229402 CTAAATTAGGCTTAAACCTTCATAAGTGTTAGCTAAACTAGACTTATATCTCATCTAGATGCAAG
1 CTAAACTAGGCTTAAA-CTTCATAAGTGCTAGCTAAACTAGGCTTAAATCTCATCTAGATGCTAG
7229467 CTAAA
1 CTAAA
7229472 TTACACTTAA
Statistics
Matches: 106, Mismatches: 20, Indels: 17
0.74 0.14 0.12
Matches are distributed among these distances:
62 3 0.03
63 15 0.14
64 26 0.25
65 28 0.26
66 31 0.29
67 3 0.03
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (64 bp):
CTAAACTAGGCTTAAACTTCATAAGTGCTAGCTAAACTAGGCTTAAATCTCATCTAGATGCTAG
Found at i:7229510 original size:130 final size:128
Alignment explanation
Indices: 7229231--7229502 Score: 298
Period size: 129 Copynumber: 2.1 Consensus size: 128
7229221 TACATTTTCA
** * * *
7229231 TGGTGCCAGTTAGACTAGGCTTAAATCTTTCTCTGGTGTCAACTAAACTAGGCTTAAATCTTCAT
1 TGGTGCCAACTAGACTAGGCTTAAATCTTTCTCCGATGTCAACTAAACTAGGCTTAAACCTTCAT
* * * * * *
7229296 AAGTGCCAGCTAAATTGGCTTAAATCTCATCTAGGTGCTAGTTAAACTGAGCTTAATTTCCAT
66 AAGTGCCAGCTAAATAGACTTAAATCTCATCTAGATGCAAGCTAAACTGAACTTAATTTCCAT
* * * * *
7229359 TGTTGCTAGCTAGACTAGGCTTAAATCTTATCTCCGATG-CTAGCTAAATTAGGCTTAAACCTTC
1 TGGTGCCAACTAGACTAGGCTTAAATCTT-TCTCCGATGTC-AACTAAACTAGGCTTAAACCTTC
** * *
7229423 ATAAGTGTTAGCTAAACTAGACTTATATCTCATCTAGATGCAAGCTAAA-TTACACTTAA-TTCT
64 ATAAGTGCCAGCTAAA-TAGACTTAAATCTCATCTAGATGCAAGCTAAACTGA-ACTTAATTTC-
7229486 CAT
126 CAT
7229489 TGGTGCCAACTAGA
1 TGGTGCCAACTAGA
7229503 TTGGGCTTTC
Statistics
Matches: 118, Mismatches: 21, Indels: 8
0.80 0.14 0.05
Matches are distributed among these distances:
128 27 0.23
129 46 0.39
130 45 0.38
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.34
Consensus pattern (128 bp):
TGGTGCCAACTAGACTAGGCTTAAATCTTTCTCCGATGTCAACTAAACTAGGCTTAAACCTTCAT
AAGTGCCAGCTAAATAGACTTAAATCTCATCTAGATGCAAGCTAAACTGAACTTAATTTCCAT
Found at i:7229709 original size:31 final size:31
Alignment explanation
Indices: 7229634--7229732 Score: 101
Period size: 31 Copynumber: 3.2 Consensus size: 31
7229624 ATCTTAAACC
* *
7229634 TTCATAGGTTCTAGCTAAACT-AGCTTAAAT
1 TTCATTGGTACTAGCTAAACTGAGCTTAAAT
* * *
7229664 ATCATATGGGTACTAGTTAAACTGAGCTTAATT
1 TTCAT-T-GGTACTAGCTAAACTGAGCTTAAAT
* *
7229697 TTCATTGGTACTAGCTAGACTGGGCTTAAAT
1 TTCATTGGTACTAGCTAAACTGAGCTTAAAT
*
7229728 CTCAT
1 TTCAT
7229733 CTCGGGTGCT
Statistics
Matches: 55, Mismatches: 11, Indels: 5
0.77 0.15 0.07
Matches are distributed among these distances:
30 4 0.07
31 25 0.45
32 14 0.25
33 12 0.22
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.36
Consensus pattern (31 bp):
TTCATTGGTACTAGCTAAACTGAGCTTAAAT
Found at i:7229758 original size:33 final size:34
Alignment explanation
Indices: 7229707--7229783 Score: 129
Period size: 33 Copynumber: 2.3 Consensus size: 34
7229697 TTCATTGGTA
*
7229707 CTAGCTAGACTGGGCTTAAATCTCATCTCGGGTG
1 CTAGCTAGACTGGGCTTAAATCTCATCTCAGGTG
7229741 CTAGCTAGA-TGGGCTTAAATCTCATCTCAGGTG
1 CTAGCTAGACTGGGCTTAAATCTCATCTCAGGTG
*
7229774 CCAGCTAGAC
1 CTAGCTAGAC
7229784 CAAGCTTACA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
33 31 0.77
34 9 0.22
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (34 bp):
CTAGCTAGACTGGGCTTAAATCTCATCTCAGGTG
Found at i:7232560 original size:157 final size:157
Alignment explanation
Indices: 7232273--7232565 Score: 367
Period size: 157 Copynumber: 1.9 Consensus size: 157
7232263 CTATCTAAAT
* *
7232273 TGTTAAAACATAAATATAACTGTAAAATTATATTTTTACCCTTTAACGGCATAGAAAGTGCTAAA
1 TGTTAAAACAAAAATATAACTATAAAATTATATTTTTACCCTTTAACGGCATAGAAAGTGCTAAA
* ** * * * * * *
7232338 TAGACATAAATAACAACTTTTTTATGCATATCAATTGTGGAAACTAAGTTCAATTATTTGGACAA
66 TAGACATAAATAACAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTCGAACAA
7232403 GTTTAAAATCTTATATTTAAGCTACAC
131 GTTTAAAATCTTATATTTAAGCTACAC
* * * *
7232430 TGTTAAAATAAAAATATAACTATAGAGTTATATTTTCT-CCCTTTAACGGCATA-AAA-TATCTT
1 TGTTAAAACAAAAATATAACTATAAAATTATATTTT-TACCCTTTAACGGCATAGAAAGT-GC-T
* * * *
7232492 AAATAGACATAAATGATAACTTTTTCACATATATTAACTGTGAAAACCAAGTTCAATCATTCGAA
63 AAATAGACATAAATAACAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTCGAA
7232557 CAAGTTTAA
128 CAAGTTTAA
7232566 TATTGATTGC
Statistics
Matches: 114, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
155 1 0.01
156 4 0.04
157 108 0.95
158 1 0.01
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (157 bp):
TGTTAAAACAAAAATATAACTATAAAATTATATTTTTACCCTTTAACGGCATAGAAAGTGCTAAA
TAGACATAAATAACAACTTTTTCACACATATCAACTGTGAAAACCAAGTTCAATCATTCGAACAA
GTTTAAAATCTTATATTTAAGCTACAC
Found at i:7234028 original size:122 final size:122
Alignment explanation
Indices: 7233857--7234096 Score: 290
Period size: 122 Copynumber: 2.0 Consensus size: 122
7233847 TCGAGTTAAG
* * * * *
7233857 ACATTTGAACAAGTTTAATATCATGTATTGGAGCTATCTAAACCATTAAAATAGAACA-ATAAT-
1 ACATTTAAAAAAGTTTAATATCATGCATTGAAGCTATCTAAACCATTAAAACAGAA-ATATAATG
* * * *
7233920 TATAAATTTTCATTTTTTCCTTTTAACGTACA-A-AAAGTTCTAAACAGACATAAATTGTA
65 TA-AAATTAT-ATTTTTGCCCTTTAACG-ACATAGAAAGTGCTAAACAGACATAAATTGTA
* *** *
7233979 ACATTTAAAAAAGTTTAATATCATGCATTTAAGCTATCTAAATTGTTAAAACATAAATATAATGT
1 ACATTTAAAAAAGTTTAATATCATGCATTGAAGCTATCTAAACCATTAAAACAGAAATATAATGT
7234044 AAAATTATATTTTTGCCCTTTAACGACATAGAAAGTGCTAAACAGACATAAAT
66 AAAATTATATTTTTGCCCTTTAACGACATAGAAAGTGCTAAACAGACATAAAT
7234097 AACAACTTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
120 3 0.03
121 17 0.17
122 78 0.78
123 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.35
Consensus pattern (122 bp):
ACATTTAAAAAAGTTTAATATCATGCATTGAAGCTATCTAAACCATTAAAACAGAAATATAATGT
AAAATTATATTTTTGCCCTTTAACGACATAGAAAGTGCTAAACAGACATAAATTGTA
Found at i:7238804 original size:14 final size:15
Alignment explanation
Indices: 7238785--7238825 Score: 52
Period size: 14 Copynumber: 2.9 Consensus size: 15
7238775 TCCATGAAGC
7238785 CCTAAAAC-CTAAAT
1 CCTAAAACTCTAAAT
*
7238799 CCT-AAACTTTAAAT
1 CCTAAAACTCTAAAT
7238813 CCT-AAACTCTAAA
1 CCTAAAACTCTAAA
7238826 CCAAACCCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 4 0.17
14 20 0.83
ACGTcount: A:0.46, C:0.27, G:0.00, T:0.27
Consensus pattern (15 bp):
CCTAAAACTCTAAAT
Found at i:7238816 original size:21 final size:21
Alignment explanation
Indices: 7238787--7238826 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7238777 CATGAAGCCC
7238787 TAAAACCTAAA-TCCTAAACTT
1 TAAAACCTAAACT-CTAAACTT
*
7238808 TAAATCCTAAACTCTAAAC
1 TAAAACCTAAACTCTAAAC
7238827 CAAACCCCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (21 bp):
TAAAACCTAAACTCTAAACTT
Found at i:7238869 original size:19 final size:18
Alignment explanation
Indices: 7238824--7238871 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
7238814 CTAAACTCTA
*
7238824 AACCAAACCCCAAACCCC
1 AACCAAACCTCAAACCCC
* *
7238842 AAGCTAAACCTTAAACCACC
1 AA-CCAAACCTCAAACC-CC
7238862 AACCAAACCT
1 AACCAAACCT
7238872 AAAATCTTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.08
19 18 0.75
20 4 0.17
ACGTcount: A:0.46, C:0.44, G:0.02, T:0.08
Consensus pattern (18 bp):
AACCAAACCTCAAACCCC
Found at i:7239364 original size:22 final size:21
Alignment explanation
Indices: 7239324--7239365 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7239314 TTGTTTTTTT
*
7239324 TTTTAAAAAATAAAGAAATAA
1 TTTTAAAAAATAAACAAATAA
*
7239345 TTTTAAACAATAAGACAAATA
1 TTTTAAAAAATAA-ACAAATA
7239366 GGTTCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (21 bp):
TTTTAAAAAATAAACAAATAA
Found at i:7245728 original size:14 final size:14
Alignment explanation
Indices: 7245696--7245748 Score: 52
Period size: 14 Copynumber: 3.6 Consensus size: 14
7245686 GGCATGCAAA
* *
7245696 AAAAAAAAAAAAAA
1 AAAAAAAAAAAGAG
7245710 AAAAAAAGAAAAGAG
1 AAAAAAA-AAAAGAG
* *
7245725 AAAAAATAAGAGAG
1 AAAAAAAAAAAGAG
7245739 AAAATAAAAA
1 AAAA-AAAAA
7245749 GGAATGAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
14 17 0.53
15 15 0.47
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (14 bp):
AAAAAAAAAAAGAG
Found at i:7245728 original size:17 final size:16
Alignment explanation
Indices: 7245693--7245735 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
7245683 GAAGGCATGC
7245693 AAAAAAAAA-AAAAAA
1 AAAAAAAAAGAAAAAA
*
7245708 AAAAAAAAAGAAAAGAG
1 AAAAAAAAAGAAAA-AA
*
7245725 AAAAAATAAGA
1 AAAAAAAAAGA
7245736 GAGAAAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 9 0.38
16 4 0.17
17 11 0.46
ACGTcount: A:0.88, C:0.00, G:0.09, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAA
Found at i:7246295 original size:4 final size:4
Alignment explanation
Indices: 7246263--7246365 Score: 53
Period size: 4 Copynumber: 27.2 Consensus size: 4
7246253 AGCAGAAATG
* * **
7246263 AGAA AGTA AGAA A-AA TGAA AGAA ATGAA AGAA A-AA A-AA AGGG A-AA
1 AGAA AGAA AGAA AGAA AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA
* * *
7246308 AGAA A-AA ATGAA AGAA AGAA A-AA A-AA AGGA AGGA AGAA ACAGA AGAA
1 AGAA AGAA A-GAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA
7246355 A-AA A-AA AGAA A
1 AGAA AGAA AGAA A
7246366 AGGAAAAGAA
Statistics
Matches: 78, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
3 24 0.31
4 44 0.56
5 10 0.13
ACGTcount: A:0.74, C:0.01, G:0.21, T:0.04
Consensus pattern (4 bp):
AGAA
Found at i:7246312 original size:5 final size:5
Alignment explanation
Indices: 7246280--7246381 Score: 50
Period size: 5 Copynumber: 19.4 Consensus size: 5
7246270 AAGAAAAATG
* * *
7246280 AAAGA AATG- AAAGA AAAAA AAAGGGA AAAGA AAAAA TGAAAG- AAAGA
1 AAAGA AAAGA AAAGA AAAGA AAA--GA AAAGA AAAGA --AAAGA AAAGA
* *
7246327 AAAAA AAAGGA AGGAAGA AACAG- -AAGA AAAAA AAAGA AAAGGA AAAGA
1 AAAGA AAA-GA A--AAGA AA-AGA AAAGA AAAGA AAAGA AAA-GA AAAGA
7246375 AAAGA AA
1 AAAGA AA
7246382 TGAATAATTG
Statistics
Matches: 74, Mismatches: 10, Indels: 26
0.67 0.09 0.24
Matches are distributed among these distances:
3 2 0.03
4 8 0.11
5 43 0.58
6 9 0.12
7 10 0.14
8 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.22, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:7246379 original size:26 final size:25
Alignment explanation
Indices: 7246318--7246381 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 25
7246308 AGAAAAAATG
*
7246318 AAAG-AAAGAAAAAAAAAGGAAGGA
1 AAAGAAAAGAAAAAAAAAGAAAGGA
7246342 AGAA-ACAGAAGAAAAAAAAAGAAAAGGA
1 A-AAGA-A-AAGAAAAAAAAAG-AAAGGA
7246370 AAAGAAAAGAAA
1 AAAGAAAAGAAA
7246382 TGAATAATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
24 1 0.03
25 2 0.06
26 7 0.21
27 16 0.48
28 7 0.21
ACGTcount: A:0.77, C:0.02, G:0.22, T:0.00
Consensus pattern (25 bp):
AAAGAAAAGAAAAAAAAAGAAAGGA
Found at i:7251953 original size:123 final size:123
Alignment explanation
Indices: 7251734--7251980 Score: 334
Period size: 123 Copynumber: 2.0 Consensus size: 123
7251724 TTGCCCTTCA
* *
7251734 AAGGATTCAATCCATGGCCAAGATTAATAGGTGTCGTACACCATTCTAAACTAATGTTTTTATAT
1 AAGGATTCAATCCATGGCCAAGATCAATAGGTGTCGTACACCATTCTAAACTAATGTCTTTATAT
* * * * *** **
7251799 GTACTCTTCTTAATTTACTCTTTTGCATTGTAACTTAGCTGTATCATAAAAGCAATTT
66 GTACTCTCCTCAATCTACTCCTCAACATTGTAACTTAGCTACATCATAAAAGCAATTT
* **
7251857 AAGGATTCAATCCATGGCCAAGATCAATAGGTGCTC-TAGACTGTTCTAAACTAATGTCTTTATA
1 AAGGATTCAATCCATGGCCAAGATCAATAGGTG-TCGTACACCATTCTAAACTAATGTCTTTATA
* *
7251921 TGTATTCTCCTCAATCTACTCCTCAATATTGTAACTTAGCTACATCATAAAAGCAATTT
65 TGTACTCTCCTCAATCTACTCCTCAACATTGTAACTTAGCTACATCATAAAAGCAATTT
7251980 A
1 A
7251981 CTTAACAGTT
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
123 105 0.98
124 2 0.02
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (123 bp):
AAGGATTCAATCCATGGCCAAGATCAATAGGTGTCGTACACCATTCTAAACTAATGTCTTTATAT
GTACTCTCCTCAATCTACTCCTCAACATTGTAACTTAGCTACATCATAAAAGCAATTT
Found at i:7265065 original size:20 final size:20
Alignment explanation
Indices: 7265040--7265082 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7265030 ATGCAAGAGT
7265040 CCATGCAAG-ACAACATTTAG
1 CCATGCAAGAAC-ACATTTAG
*
7265060 CCATGCAAGAACCCATTTAG
1 CCATGCAAGAACACATTTAG
7265080 CCA
1 CCA
7265083 AATCCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.37, C:0.30, G:0.14, T:0.19
Consensus pattern (20 bp):
CCATGCAAGAACACATTTAG
Found at i:7267113 original size:13 final size:13
Alignment explanation
Indices: 7267097--7267123 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7267087 CACTAGCAAC
7267097 AAAACAAATAAAA
1 AAAACAAATAAAA
7267110 AAAACAAATAAAA
1 AAAACAAATAAAA
7267123 A
1 A
7267124 TTAAAAAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (13 bp):
AAAACAAATAAAA
Found at i:7269391 original size:21 final size:21
Alignment explanation
Indices: 7269361--7269405 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
7269351 GTTTTGATGA
7269361 AAACTCTAAA-CCATAAAACTT
1 AAACTCTAAATCC-TAAAACTT
* *
7269382 AAACTTTAAATCCTAAACCTT
1 AAACTCTAAATCCTAAAACTT
7269403 AAA
1 AAA
7269406 TATAACTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (21 bp):
AAACTCTAAATCCTAAAACTT
Found at i:7269550 original size:64 final size:63
Alignment explanation
Indices: 7269467--7269587 Score: 161
Period size: 64 Copynumber: 1.9 Consensus size: 63
7269457 AAAGATTAGA
* * *
7269467 TAAATAACTTATTAGATATGAAAATTCAATTAGTTATATAATTTATCAAATATGCATATCTAG
1 TAAATAACTTATTAGATATGAAAATTCAATAAGTTATAAAATTTATCAAACATGCATATCTAG
* * * **
7269530 TAAATTAATTTATTGGATATGAATATTTGATAAGTTATAAAATTTATCAAACATGCAT
1 TAAA-TAACTTATTAGATATGAAAATTCAATAAGTTATAAAATTTATCAAACATGCAT
7269588 TTAGAGACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
63 4 0.08
64 45 0.92
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (63 bp):
TAAATAACTTATTAGATATGAAAATTCAATAAGTTATAAAATTTATCAAACATGCATATCTAG
Found at i:7282859 original size:22 final size:21
Alignment explanation
Indices: 7282799--7282860 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 21
7282789 AATTGCTTTA
7282799 AAAATAAATTTAATAAAAAGTAG
1 AAAA-AAA-TTAATAAAAAGTAG
* *
7282822 AAAAAAATT-ATAAAAATTAT
1 AAAAAAATTAATAAAAAGTAG
7282842 AAAAAAATATAATTAAAAA
1 AAAAAAAT-TAA-TAAAAA
7282861 TAATTGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 17 0.50
21 3 0.09
22 4 0.12
23 10 0.29
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (21 bp):
AAAAAAATTAATAAAAAGTAG
Found at i:7282948 original size:11 final size:11
Alignment explanation
Indices: 7282916--7282949 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
7282906 ACAGAATTTT
*
7282916 AATGATTATTA
1 AATGATTATTG
*
7282927 AAAGATTATTG
1 AATGATTATTG
7282938 AATGATTATTG
1 AATGATTATTG
7282949 A
1 A
7282950 CAGTTTACTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.41
Consensus pattern (11 bp):
AATGATTATTG
Done.