Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 158 of 185
Found at i:47648789 original size:39 final size:39
Alignment explanation
Indices: 47648709--47648881 Score: 125
Period size: 45 Copynumber: 4.2 Consensus size: 39
47648699 ATTTTCCGGC
* * *
47648709 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGACTC-GGCACTTTGTGTGTCGAATACTGTTACTG
* *
47648747 TTACTGATTCGGCACTTTGTGTGTCTAATACTGTTACTG
1 TTACTGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
*
47648786 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACCG
1 TTAC---T---GACTCGGCACTTTGTGTGTCGAATACTGTTACTG
* * * *
47648831 TTACTGTTACAGGTTCAGCACTTTGTGCGTTGAATACTGTTCCTG
1 TTACTG--AC----TCGGCACTTTGTGTGTCGAATACTGTTACTG
47648876 TTACTG
1 TTACTG
47648882 CTACTGTTAT
Statistics
Matches: 109, Mismatches: 12, Indels: 21
0.77 0.08 0.15
Matches are distributed among these distances:
38 12 0.11
39 26 0.24
41 2 0.02
42 2 0.02
45 67 0.61
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.39
Consensus pattern (39 bp):
TTACTGACTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:47648804 original size:45 final size:45
Alignment explanation
Indices: 47648736--47648881 Score: 195
Period size: 45 Copynumber: 3.2 Consensus size: 45
47648726 ATGTGCCGAC
*
47648736 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCTAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCTAATACTGT
* * *
47648781 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCTAATACTGT
* * * *
47648826 TACCGTTACTGTTACAGGTTCAGCACTTTGTGCGT-TGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCT-AATACTGT
*
47648871 TCCTGTTACTG
1 TACTGTTACTG
47648882 CTACTGTTAT
Statistics
Matches: 88, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 88 1.00
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCTAATACTGT
Found at i:47650196 original size:10 final size:10
Alignment explanation
Indices: 47650167--47650198 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
47650157 ATATTATTCA
*
47650167 TATAAAAAGC
1 TATAAAAAGT
47650177 TATAAAAAGT
1 TATAAAAAGT
47650187 TATAAAAAGT
1 TATAAAAAGT
47650197 TA
1 TA
47650199 AGTGGATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (10 bp):
TATAAAAAGT
Found at i:47651597 original size:30 final size:30
Alignment explanation
Indices: 47651563--47651623 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
47651553 CTAACTTTTT
47651563 TTGAAATTATATTTCAACCGCTAAAATTTC
1 TTGAAATTATATTTCAACCGCTAAAATTTC
* * *
47651593 TTGAAATTATATTTTAACCTCTAAACTTTC
1 TTGAAATTATATTTCAACCGCTAAAATTTC
47651623 T
1 T
47651624 CAAAATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.05, T:0.44
Consensus pattern (30 bp):
TTGAAATTATATTTCAACCGCTAAAATTTC
Found at i:47651630 original size:30 final size:30
Alignment explanation
Indices: 47651566--47651631 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
47651556 ACTTTTTTTG
**
47651566 AAATTATATTTCAACCGCTAAAATTTCTTG
1 AAATTATATTTCAACCGCTAAAATTTCTCA
* * *
47651596 AAATTATATTTTAACCTCTAAACTTTCTCA
1 AAATTATATTTCAACCGCTAAAATTTCTCA
47651626 AAATTA
1 AAATTA
47651632 AGTTTTGGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.17, G:0.03, T:0.41
Consensus pattern (30 bp):
AAATTATATTTCAACCGCTAAAATTTCTCA
Found at i:47652142 original size:19 final size:19
Alignment explanation
Indices: 47652113--47652192 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
47652103 GGCTATTGCC
47652113 GAAGG-AGAAGAAAAAAAA
1 GAAGGAAGAAGAAAAAAAA
47652131 GAAGGAAGAAGAAAGAAAAA
1 GAAGGAAGAAGAAA-AAAAA
* **
47652151 AAAGGGGGAAAGAAAAAAAA
1 GAAGGAAG-AAGAAAAAAAA
*
47652171 -AAGAGAAAAAGAAAAAGAAA
1 GAAG-GAAGAAGAAAAA-AAA
47652191 GA
1 GA
47652193 TTTTTTTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
18 5 0.10
19 19 0.38
20 19 0.38
21 7 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (19 bp):
GAAGGAAGAAGAAAAAAAA
Found at i:47652143 original size:22 final size:22
Alignment explanation
Indices: 47652113--47652174 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
47652103 GGCTATTGCC
*
47652113 GAAGGAGAAGAAAAAAAAGAAG
1 GAAGAAGAAGAAAAAAAAGAAG
*
47652135 GAAGAAGAAAGAAAAAAAAG-GG
1 GAAGAAG-AAGAAAAAAAAGAAG
*
47652157 GGA-AAGAA-AAAAAAAAGA
1 GAAGAAGAAGAAAAAAAAGA
47652175 GAAAAAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 9 0.26
20 2 0.06
21 3 0.09
22 9 0.26
23 12 0.34
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (22 bp):
GAAGAAGAAGAAAAAAAAGAAG
Found at i:47652150 original size:23 final size:23
Alignment explanation
Indices: 47652120--47652190 Score: 71
Period size: 21 Copynumber: 3.3 Consensus size: 23
47652110 GCCGAAGGAG
47652120 AAGAAAAAAAAGAAGGAAGAAGA
1 AAGAAAAAAAAGAAGGAAGAAGA
* *
47652143 AAGAAAAAAAAG-GGGGA-AAGA
1 AAGAAAAAAAAGAAGGAAGAAGA
*
47652164 AA-AAAAAAAGAGAA-AAAGAA-A
1 AAGAAAAAAA-AGAAGGAAGAAGA
47652185 AAGAAA
1 AAGAAA
47652191 GATTTTTTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
20 7 0.18
21 12 0.31
22 8 0.21
23 12 0.31
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (23 bp):
AAGAAAAAAAAGAAGGAAGAAGA
Found at i:47652178 original size:17 final size:17
Alignment explanation
Indices: 47652140--47652192 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
47652130 AGAAGGAAGA
**
47652140 AGAAAGAAAAAAAAGGG
1 AGAAAGAAAAAAAAAAG
*
47652157 GGAAAGAAAAAAAAAAG
1 AGAAAGAAAAAAAAAAG
47652174 AGAAA-AAGAAAAAGAAAG
1 AGAAAGAA-AAAAA-AAAG
47652192 A
1 A
47652193 TTTTTTTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
16 2 0.07
17 23 0.77
18 5 0.17
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAGAAAAAAAAAAG
Found at i:47652396 original size:12 final size:11
Alignment explanation
Indices: 47652349--47652398 Score: 75
Period size: 12 Copynumber: 4.5 Consensus size: 11
47652339 CCCAGCAGAG
47652349 AAGAA-AAAAA
1 AAGAAGAAAAA
47652359 AAGAAGAAAAAA
1 AAGAAG-AAAAA
47652371 AAGAAGAAAAA
1 AAGAAGAAAAA
47652382 AAGAACGAAAAA
1 AAGAA-GAAAAA
47652394 AAGAA
1 AAGAA
47652399 AAGGGTTCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
10 5 0.14
11 10 0.27
12 22 0.59
ACGTcount: A:0.82, C:0.02, G:0.16, T:0.00
Consensus pattern (11 bp):
AAGAAGAAAAA
Found at i:47652396 original size:23 final size:22
Alignment explanation
Indices: 47652349--47652400 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 22
47652339 CCCAGCAGAG
47652349 AAGAAAAAAAAAGAAGAAAAAA
1 AAGAAAAAAAAAGAAGAAAAAA
47652371 AAGAAGAAAAAAAGAACG-AAAAA
1 AAGAA-AAAAAAAGAA-GAAAAAA
47652394 AAGAAAA
1 AAGAAAA
47652401 GGGTTCAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.25
23 20 0.71
24 1 0.04
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (22 bp):
AAGAAAAAAAAAGAAGAAAAAA
Found at i:47652781 original size:19 final size:18
Alignment explanation
Indices: 47652758--47652832 Score: 71
Period size: 19 Copynumber: 4.0 Consensus size: 18
47652748 TAAAAGTTTT
47652758 CGTGTTTCAAAAAAATTC
1 CGTGTTTCAAAAAAATTC
*
47652776 CAGTGTTTC-AAAAATTTC
1 C-GTGTTTCAAAAAAATTC
***
47652794 CGTGTCTTCAAAATTTTTC
1 CGTGT-TTCAAAAAAATTC
47652813 TCGTGTTTCAAAAAATATTC
1 -CGTGTTTCAAAAAA-ATTC
47652833 TTGTTTTGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
17 4 0.09
18 13 0.28
19 21 0.46
20 8 0.17
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (18 bp):
CGTGTTTCAAAAAAATTC
Found at i:47652788 original size:18 final size:17
Alignment explanation
Indices: 47652758--47652828 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 17
47652748 TAAAAGTTTT
47652758 CGTGTTTCAAAAAAATTC
1 CGTGTTTC-AAAAAATTC
*
47652776 CAGTGTTTCAAAAATTTC
1 C-GTGTTTCAAAAAATTC
**
47652794 CGTGTCTTCAAAATTTTTC
1 CGTGT-TTCAAAA-AATTC
47652813 TCGTGTTTCAAAAAAT
1 -CGTGTTTCAAAAAAT
47652829 ATTCTTGTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
17 4 0.09
18 18 0.40
19 18 0.40
20 5 0.11
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.39
Consensus pattern (17 bp):
CGTGTTTCAAAAAATTC
Found at i:47653051 original size:18 final size:18
Alignment explanation
Indices: 47653030--47653268 Score: 58
Period size: 18 Copynumber: 13.3 Consensus size: 18
47653020 AAAAGAATCC
47653030 GTTTTTCAAAATTCTCGT
1 GTTTTTCAAAATTCTCGT
* *
47653048 GTTTTTAAAAAAACTCCATTCCGT
1 GTTTTT--CAAAA-TTC--T-CGT
*
47653072 G-TTTTCAAAAATT-T-TT
1 GTTTTTC-AAAATTCTCGT
*
47653088 GTATTTTCAAAAATTTTCGT
1 GT-TTTTC-AAAATTCTCGT
* * *
47653108 G-TTTTAAAAATTTTTGT
1 GTTTTTCAAAATTCTCGT
* ** *
47653125 ATTTTAAAAAATTCTTGT
1 GTTTTTCAAAATTCTCGT
***
47653143 GTTTCAAAAAATT-TCGT
1 GTTTTTCAAAATTCTCGT
*
47653160 -ATT-TCAAAAATTC-CGT
1 GTTTTTCAA-AATTCTCGT
*
47653176 G-TTTTCAAAAATCTTCGT
1 GTTTTTCAAAATTC-TCGT
47653194 G-TTTTCAAGAATTCTCGT
1 GTTTTTCAA-AATTCTCGT
47653212 G--TTTCAAAAACTT-TCGT
1 GTTTTTC-AAAA-TTCTCGT
* ***
47653229 GTTTTTAAAAAAAAT--T
1 GTTTTTCAAAATTCTCGT
*
47653245 GTGTTTCAAAATTCTCGT
1 GTTTTTCAAAATTCTCGT
47653263 GTTTTT
1 GTTTTT
47653269 TTTTAAATTC
Statistics
Matches: 167, Mismatches: 28, Indels: 52
0.68 0.11 0.21
Matches are distributed among these distances:
15 2 0.01
16 28 0.17
17 28 0.17
18 79 0.47
19 8 0.05
20 6 0.04
21 3 0.02
22 4 0.02
23 5 0.03
24 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (18 bp):
GTTTTTCAAAATTCTCGT
Found at i:47653120 original size:35 final size:35
Alignment explanation
Indices: 47653069--47653239 Score: 168
Period size: 35 Copynumber: 4.9 Consensus size: 35
47653059 AACTCCATTC
*
47653069 CGTGTTTTCAAAAATTTTTGTATTTTCAAAAATTTT
1 CGTGTTTT-AAAAATTTTCGTATTTTCAAAAATTTT
* *
47653105 CGTGTTTTAAAAATTTTTGTATTTTAAAAAATTCTT
1 CGTGTTTTAAAAATTTTCGTATTTTCAAAAATT-TT
* * *
47653141 -GTGTTTCAAAAAATTTCGTA-TTTCAAAAA-TTC
1 CGTGTTTTAAAAATTTTCGTATTTTCAAAAATTTT
* * * *
47653173 CGTGTTTTCAAAAATCTTCGTGTTTTCAAGAATTCT
1 CGTGTTTT-AAAAATTTTCGTATTTTCAAAAATTTT
* * * *
47653209 CGTGTTTCAAAAACTTTCGTGTTTTTAAAAA
1 CGTGTTTTAAAAATTTTCGTATTTTCAAAAA
47653240 AAATTGTGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
32 1 0.01
33 7 0.06
34 18 0.16
35 68 0.61
36 18 0.16
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (35 bp):
CGTGTTTTAAAAATTTTCGTATTTTCAAAAATTTT
Found at i:47653218 original size:17 final size:17
Alignment explanation
Indices: 47653065--47653266 Score: 128
Period size: 18 Copynumber: 11.7 Consensus size: 17
47653055 AAAAAACTCC
47653065 ATTC-CGTGTTTTCAAAA
1 ATTCTCGTG-TTTCAAAA
* * *
47653082 ATTTTTGTATTTTCAAAA
1 ATTCTCGT-GTTTCAAAA
* *
47653100 ATTTTCGTGTTTTAAAA
1 ATTCTCGTGTTTCAAAA
* * * *
47653117 ATTTTTGTATTTTAAAAA
1 ATTCTCGT-GTTTCAAAA
*
47653135 ATTCTTGTGTTTCAAAAA
1 ATTCTCGTGTTTC-AAAA
*
47653153 ATT-TCGTATTTCAAAA
1 ATTCTCGTGTTTCAAAA
47653169 ATTC-CGTGTTTTCAAAA
1 ATTCTCGTG-TTTCAAAA
*
47653186 A-TCTTCGTGTTTTCAAGA
1 ATTC-TCGTG-TTTCAAAA
47653204 ATTCTCGTGTTTCAAAA
1 ATTCTCGTGTTTCAAAA
*
47653221 ACTT-TCGTGTTTTTAAAA
1 A-TTCTCGTG-TTTCAAAA
*** *
47653239 AAAATTGTGTTTC-AAA
1 ATTCTCGTGTTTCAAAA
47653255 ATTCTCGTGTTT
1 ATTCTCGTGTTT
47653267 TTTTTTAAAT
Statistics
Matches: 147, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
16 23 0.16
17 52 0.35
18 70 0.48
19 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (17 bp):
ATTCTCGTGTTTCAAAA
Found at i:47653391 original size:27 final size:27
Alignment explanation
Indices: 47653353--47653406 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
47653343 AACATGCGTT
*
47653353 TAACGAGATACCAATTTTGGTCGTCGC
1 TAACGAGATACCAATTTTGGTCATCGC
47653380 TAACGAGATACCAATTTTGGTCATCGC
1 TAACGAGATACCAATTTTGGTCATCGC
47653407 AAGGGTGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (27 bp):
TAACGAGATACCAATTTTGGTCATCGC
Found at i:47655207 original size:38 final size:37
Alignment explanation
Indices: 47655010--47655421 Score: 195
Period size: 38 Copynumber: 11.2 Consensus size: 37
47655000 GAAAACACGG
* *
47655010 TTTTTTT-AAAATACGAGAATTT-TAGAAACACG-AAT
1 TTTTTTTGAAAACACGAAAATTTAT-GAAACACGAAAT
** **
47655045 TGTTTTTAAAAAAACACGAAAATTT-TGAAACACGGGAT
1 T-TTTTT-TGAAAACACGAAAATTTATGAAACACGAAAT
*
47655083 TTTTTTTG-AAACACGAAACTTTATGAAACACGATCAA-
1 TTTTTTTGAAAACACGAAAATTTATGAAACACGA--AAT
* * *
47655120 -TTTTTT-AAAACACGAAAAATTTTTGAAAAACAAGAATT
1 TTTTTTTGAAAACACG-AAAATTTATG--AAACACGAAAT
* *
47655158 TTTTTTTGAAAACACGGAAATTTATGAAACATGAAATT
1 TTTTTTTGAAAACACGAAAATTTATGAAACACGAAA-T
* * * *
47655196 TTTTTTTGAAAACAAGAAAATTT-TCGATATACGGGAA-
1 TTTTTTTGAAAACACGAAAATTTAT-GAAACAC-GAAAT
* * *
47655233 --TTTTTAAAAACACGGGAAATTTTTTTGAAAACAC-AAA-
1 TTTTTTTGAAAACAC--GAAA-ATTTATG-AAACACGAAAT
** * * *
47655270 AATTTTTG-AAACACTG-GAATTTTTAAAACACGAAGA-
1 TTTTTTTGAAAACAC-GAAAATTTATGAAACACGAA-AT
* * *
47655306 --GTTTTG-AAACAAGAAAATTTTTGAAAACACGAAAAT
1 TTTTTTTGAAAACACGAAAATTTATG-AAACACG-AAAT
*
47655342 TTTTTTT-AAAACACGAAAATTTTTGAAACACGAGAAAT
1 TTTTTTTGAAAACACGAAAATTTATGAAACAC--GAAAT
* * *
47655380 TTTTTTTGAAAACATGAAAATTTTTGAAACCCG--AT
1 TTTTTTTGAAAACACGAAAATTTATGAAACACGAAAT
47655415 TTTTTTT
1 TTTTTTT
47655422 AAGAAGTACC
Statistics
Matches: 299, Mismatches: 42, Indels: 72
0.72 0.10 0.17
Matches are distributed among these distances:
33 1 0.00
34 23 0.08
35 49 0.16
36 31 0.10
37 45 0.15
38 85 0.28
39 57 0.19
40 8 0.03
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (37 bp):
TTTTTTTGAAAACACGAAAATTTATGAAACACGAAAT
Found at i:47655209 original size:21 final size:21
Alignment explanation
Indices: 47655139--47655219 Score: 66
Period size: 21 Copynumber: 4.0 Consensus size: 21
47655129 ACACGAAAAA
47655139 TTTTTGAAAAACAAG-AATTTT
1 TTTTTG-AAAACAAGAAATTTT
*
47655160 TTTTTGAAAACACGGAAA----
1 TTTTTGAAAACA-AGAAATTTT
* *
47655178 TTTATG-AAACATGAAATTTT
1 TTTTTGAAAACAAGAAATTTT
*
47655198 TTTTTGAAAACAAGAAAATTT
1 TTTTTGAAAACAAGAAATTTT
47655219 T
1 T
47655220 CGATATACGG
Statistics
Matches: 47, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
16 4 0.09
17 5 0.11
18 5 0.11
20 11 0.23
21 20 0.43
22 2 0.04
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (21 bp):
TTTTTGAAAACAAGAAATTTT
Found at i:47655272 original size:56 final size:55
Alignment explanation
Indices: 47655196--47655301 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 55
47655186 ACATGAAATT
* *
47655196 TTTTTTTGAAAACAAGAAAATTTTCGATATACGGGAATTTTTAAAAACACGGGAAA
1 TTTTTTTGAAAACAAGAAAATTTTCGAAACACGGGAATTTTT-AAAACACGGGAAA
* *
47655252 TTTTTTTGAAAACACA-AAAATTTTTGAAACACTGGAATTTTTAAAACACG
1 TTTTTTTGAAAACA-AGAAAATTTTCGAAACACGGGAATTTTTAAAACACG
47655302 AAGAGTTTTG
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
55 8 0.18
56 36 0.80
57 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (55 bp):
TTTTTTTGAAAACAAGAAAATTTTCGAAACACGGGAATTTTTAAAACACGGGAAA
Found at i:47655405 original size:18 final size:18
Alignment explanation
Indices: 47655055--47655408 Score: 190
Period size: 17 Copynumber: 19.2 Consensus size: 18
47655045 TGTTTTTAAA
47655055 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
***
47655072 -AAACACGGGATTTTTTTTG
1 AAAACAC--GAAAATTTTTG
* *
47655091 -AAACACGAAACTTTATG
1 AAAACACGAAAATTTTTG
* *
47655108 -AAACACGATCAATTTTTT
1 AAAACACGA-AAATTTTTG
47655126 AAAACACGAAAAATTTTTG
1 AAAACACG-AAAATTTTTG
* **
47655145 AAAAACAAGAATTTTTTTTTG
1 -AAAACACGAA--AATTTTTG
* *
47655166 AAAACACGGAAATTTATG
1 AAAACACGAAAATTTTTG
* *
47655184 -AAACATGAAATTTTTTTTTG
1 AAAACACGAAA---ATTTTTG
* *
47655204 AAAACAAGAAAATTTTCG
1 AAAACACGAAAATTTTTG
* * ** *
47655222 -ATATACGGGAATTTTTA
1 AAAACACGAAAATTTTTG
*
47655239 AAAACACGGGAAATTTTTTTG
1 AAAACAC--GAAA-ATTTTTG
*
47655260 AAAACACAAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
47655278 -AAACACTG-GAATTTTT-
1 AAAACAC-GAAAATTTTTG
* *
47655294 AAAACACGAAGAGTTTTG
1 AAAACACGAAAATTTTTG
*
47655312 -AAACAAGAAAATTTTTG
1 AAAACACGAAAATTTTTG
*
47655329 AAAACACGAAAATTTTTTTT
1 AAAACACGAAAA--TTTTTG
47655349 AAAACACGAAAATTTTTG
1 AAAACACGAAAATTTTTG
47655367 -AAACACGAGAAATTTTTTTTG
1 AAAACACGA-AAA---TTTTTG
*
47655388 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
47655406 AAA
1 AAA
47655409 CCCGATTTTT
Statistics
Matches: 253, Mismatches: 55, Indels: 57
0.69 0.15 0.16
Matches are distributed among these distances:
16 7 0.03
17 79 0.31
18 54 0.21
19 30 0.12
20 40 0.16
21 36 0.14
22 7 0.03
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:47655903 original size:9 final size:9
Alignment explanation
Indices: 47655885--47655935 Score: 61
Period size: 9 Copynumber: 5.7 Consensus size: 9
47655875 AATTAAACCA
*
47655885 TTTTTCCTT
1 TTTTTTCTT
47655894 TTTTTTC--
1 TTTTTTCTT
47655901 TTTTTTCTT
1 TTTTTTCTT
47655910 TTTTTTCTT
1 TTTTTTCTT
47655919 TTTTTCTCTT
1 TTTTT-TCTT
47655929 CTTTTTT
1 -TTTTTT
47655936 TTTGGCCTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
7 7 0.19
9 20 0.54
10 5 0.14
11 5 0.14
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:47655921 original size:26 final size:25
Alignment explanation
Indices: 47655885--47655938 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
47655875 AATTAAACCA
* *
47655885 TTTTTCCTTTTTTTTCTTTTTTCTTT
1 TTTTTCCTTTTTTCTCTTCTTT-TTT
*
47655911 TTTTTCTTTTTTTCTCTTCTTTTTT
1 TTTTTCCTTTTTTCTCTTCTTTTTT
47655936 TTT
1 TTT
47655939 GGCCTGCTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 6 0.24
26 19 0.76
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (25 bp):
TTTTTCCTTTTTTCTCTTCTTTTTT
Found at i:47655923 original size:17 final size:17
Alignment explanation
Indices: 47655885--47655938 Score: 67
Period size: 16 Copynumber: 3.2 Consensus size: 17
47655875 AATTAAACCA
*
47655885 TTTTTCCTTTTTTTTC-
1 TTTTTTCTTTTTTTTCT
47655901 TTTTTTCTTTTTTTTCT
1 TTTTTTCTTTTTTTTCT
47655918 TTTTTTCTCTTCTTTTT-T
1 TTTTTTCT-TT-TTTTTCT
47655936 TTT
1 TTT
47655939 GGCCTGCTGC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 15 0.44
17 8 0.24
18 6 0.18
19 5 0.15
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTCTTTTTTTTCT
Found at i:47655936 original size:16 final size:16
Alignment explanation
Indices: 47655896--47655938 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
47655886 TTTTCCTTTT
* *
47655896 TTTTCTTTTTTCTTTTT
1 TTTT-TTTTTTCTCTTC
47655913 TTTCTTTTTTTCTCTTC
1 TTT-TTTTTTTCTCTTC
47655930 TTTTTTTTT
1 TTTTTTTTT
47655939 GGCCTGCTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 6 0.26
17 16 0.70
18 1 0.04
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (16 bp):
TTTTTTTTTTCTCTTC
Found at i:47656206 original size:13 final size:13
Alignment explanation
Indices: 47656184--47656218 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
47656174 AAAATATTTT
*
47656184 TTCTTTTTCTTCC
1 TTCTTCTTCTTCC
47656197 TTCTTCTTCTTCC
1 TTCTTCTTCTTCC
47656210 TTCCTTCTT
1 TT-CTTCTT
47656219 TCTCTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCTTCTTCC
Found at i:47656248 original size:19 final size:18
Alignment explanation
Indices: 47656184--47656251 Score: 64
Period size: 19 Copynumber: 3.6 Consensus size: 18
47656174 AAAATATTTT
* *
47656184 TTCTTTTTCTTCCTTCTTC
1 TTCTTCTTCTTCTTTC-TC
47656203 TTCTTCCTTCCTTCTTTCTC
1 TTCTT-CTT-CTTCTTTCTC
* *
47656223 TTTTTCTTCTTTTTTCTC
1 TTCTTCTTCTTCTTTCTC
47656241 ATTCTTCTTCT
1 -TTCTTCTTCT
47656252 CCGTTCGGCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 9 0.22
19 17 0.41
20 8 0.20
21 7 0.17
ACGTcount: A:0.01, C:0.31, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTTCTTCTTCTTTCTC
Found at i:47656787 original size:30 final size:30
Alignment explanation
Indices: 47656746--47656870 Score: 144
Period size: 30 Copynumber: 4.2 Consensus size: 30
47656736 GGCTGAAACA
* * *
47656746 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTCGAAAAAATTTAGGGGTCAAAATG
*
47656776 TAATTTCGAGAAAATTTAGGGGTCAAAATG
1 TAATTTCGAAAAAATTTAGGGGTCAAAATG
* * * *
47656806 TAGTTTC-AAAAAGTTTAGGGGTAAAAATA
1 TAATTTCGAAAAAATTTAGGGGTCAAAATG
* *
47656835 TAGTTTTGAAAAAATTTAGGGGTCAAAATG
1 TAATTTCGAAAAAATTTAGGGGTCAAAATG
*
47656865 CAATTT
1 TAATTT
47656871 TTTTTAAAAC
Statistics
Matches: 81, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
29 24 0.30
30 57 0.70
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (30 bp):
TAATTTCGAAAAAATTTAGGGGTCAAAATG
Found at i:47657213 original size:82 final size:78
Alignment explanation
Indices: 47657049--47657737 Score: 936
Period size: 82 Copynumber: 8.8 Consensus size: 78
47657039 GTGTGGCCCA
* * *
47657049 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTG-AAAAACAGAAA--TT-GAAAAATAC
1 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTTAAAAAAATAC
47657109 CTCAGCGTGACCCG
65 CTCAGCGTGACCCG
* *
47657123 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAACAGAAATTTTAAAAAAA
1 AGGCTCAACTCACCTCT-GTATTATGAGTTGA--TTTTTTG-AAAAAACAGAAATTTTAAAAAAA
47657188 TACCTCAGCGTGACCCG
62 TACCTCAGCGTGACCCG
*
47657205 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAGCAGAAA-TTT--AAAAATAC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAAACAGAAATTTTAAAAAAATAC
47657267 CTCAGCGTGACCCG
65 CTCAGCGTGACCCG
* *
47657281 AGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATT---TTAAAAAAA
*
47657346 TACCTCAGCATGACCCG
62 TACCTCAGCGTGACCCG
* *
47657363 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAA-TTT-AAAAAGTAC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTTTAAAAAAATAC
47657426 CTCAGCGTGACCCG
65 CTCAGCGTGACCCG
*
47657440 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATT---TTAAAAAAA
*
47657505 TACCTCAGCATGACCCG
62 TACCTCAGCGTGACCCG
* *
47657522 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAATAGAAA--TTAAAAAAATACC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTTAAAAAAATACC
*
47657585 TTAGCGTGACCCG
66 TCAGCGTGACCCG
* *
47657598 AGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATT---TTAAAAAAA
*
47657663 TACCTCAGCATGACCCG
62 TACCTCAGCGTGACCCG
*
47657680 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAG-AATTTTAAAAA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTTAAAAA
47657738 TATTTCTTGA
Statistics
Matches: 555, Mismatches: 31, Indels: 55
0.87 0.05 0.09
Matches are distributed among these distances:
74 31 0.06
76 113 0.20
77 96 0.17
78 21 0.04
79 27 0.05
80 6 0.01
81 64 0.12
82 197 0.35
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (78 bp):
AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTTAAAAAAATACC
TCAGCGTGACCCG
Found at i:47657284 original size:158 final size:155
Alignment explanation
Indices: 47657049--47658566 Score: 1676
Period size: 158 Copynumber: 9.4 Consensus size: 155
47657039 GTGTGGCCCA
* * * *
47657049 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTGAAAAA-CAGAAATTGAAAAATACCTC
1 AGGCTCAACTAACCTCT-GTATTATGAGTTGATTTTTTGAAAAAGCAGAAATTTAAAAATACCTC
* *
47657112 AGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAACAGAAA
65 AGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTTTTG-AAAAAACAGAAA
* *
47657177 TT-TTAAAAAAATACCTCAGCGTGACCCG
127 TTATTAGAAAAATACCTCAGCATGACCCG
*
47657205 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAGCAGAAATTTAAAAATACCTC
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAA-AAAGCAGAAATTTAAAAATACCTC
*
47657270 AGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTA
65 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT-
47657335 GATTAGAAAAATACCTCAGCATGACCCG
129 -ATTAGAAAAATACCTCAGCATGACCCG
47657363 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAAAGTACCT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTG-AAAAAGCAGAAATTTAAAAA-TACCT
47657428 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT
64 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT
47657493 AGATTAGAAAAATACCTCAGCATGACCCG
129 --ATTAGAAAAATACCTCAGCATGACCCG
** * *
47657522 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAATAGAAATTAAAAAAATACCTT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAGCAGAAATT-TAAAAATACCTC
*
47657587 AGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTA
65 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT-
47657652 GATTAGAAAAATACCTCAGCATGACCCG
129 -ATTAGAAAAATACCTCAGCATGACCCG
* * **
47657680 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAATTTTAAAAATATTTCT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAGCAGAAATTTAAAAATACCTC-
* *** ** * ** * * ** * *
47657745 TGAAAGAAAC-AGGGTTTCAA-AAACATCTAGTGGAACTAAAAGCCTTCTTCTTCATTAATTCTG
65 AGCGTGACCCGA-GG-CTCAACTCACCTCT-GT---ATTATGAG--------TTGATT--TT-TT
***** * * *** * *
47657808 TGCAGCTTTCTCCTGCAGAAATTTGAAAAAATACCTCAGCGTGACCCGAGGGACCCG
113 TG-A---AAAAACAGAAATTATTAG-AAAAATACCTCA----G---C-A-TGACCCG
*
47657865 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAATGCAGAAATTTGAAAAAATACC
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAA-GCAGAAATTT--AAAAATACC
47657930 TCAGCGTGACCCGAGGGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAA
63 TCAGCGT---------GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAA
* * *
47657994 AATAGAAATTA--A-AAAAATACCTTAGCGTGACCCG
119 AACAGAAATTATTAGAAAAATACCTCAGCATGACCCG
* * **** *
47658028 AGGCTCAACTCACCTCTGTATTATGAGTTTATTTGAAAAAAAAAGACATAAA-TTAAAAATACCT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTT-TTTGAAAAAG-CAGAAATTTAAAAATACCT
* *
47658092 CAGCGTGACCTGAGGCTCAACTCACCTCTGTATTATGAGTTGA-CTTTTTGAAAAAAAGCAGAAA
64 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTG-AAAAAA-CAGAAA
*
47658156 TT-TTA-AAAAATACCTCAGCGTGACCCG
127 TTATTAGAAAAATACCTCAGCATGACCCG
* *
47658183 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTAAAAAAAATACC
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTG-AAAAAGCAGAAATT--TAAAAATACC
47658248 TCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAAT
63 TCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAAT
47658313 TAGATTAGAAAAATACCTCAGCATGACCCG
128 T--ATTAGAAAAATACCTCAGCATGACCCG
*
47658343 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAAAAAAAA
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAGCAGAAA-T---TT---AAAAA
47658408 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAG
59 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAG
47658473 AAATTAGATTAGAAAAATACCTCAGCATGACCCG
124 AAATT--ATTAGAAAAATACCTCAGCATGACCCG
* *
47658507 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAATTTTAAAAATA
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAGCAGAAATTTAAAAATA
47658567 TTTCTTGAAA
Statistics
Matches: 1177, Mismatches: 108, Indels: 153
0.82 0.08 0.11
Matches are distributed among these distances:
152 42 0.04
153 6 0.01
154 12 0.01
155 88 0.07
156 41 0.03
157 89 0.08
158 300 0.25
159 163 0.14
160 61 0.05
161 16 0.01
162 5 0.00
163 44 0.04
164 163 0.14
165 1 0.00
168 1 0.00
170 5 0.00
172 13 0.01
173 3 0.00
174 1 0.00
175 4 0.00
176 15 0.01
177 3 0.00
179 1 0.00
180 4 0.00
181 2 0.00
183 2 0.00
184 4 0.00
185 48 0.04
186 8 0.01
187 1 0.00
188 9 0.01
192 5 0.00
195 6 0.01
196 10 0.01
197 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (155 bp):
AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAGCAGAAATTTAAAAATACCTCA
GCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAT
TAGAAAAATACCTCAGCATGACCCG
Found at i:47657681 original size:317 final size:315
Alignment explanation
Indices: 47657049--47658564 Score: 1771
Period size: 317 Copynumber: 4.7 Consensus size: 315
47657039 GTGTGGCCCA
* * * *
47657049 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTAACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAATACCTC
* *
47657112 AGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTGAAAAAAACAGAAA
65 AGCGTGACCCGAGGCTCAACTCACCTCT-GTATTATGAGTTGA-TTTTTTTG-AAAAAACAGAAA
* *
47657177 TT---TTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
127 TTAGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
* *
47657239 TTTGAAGAAAGCAGAAATT-TAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATT
192 TTTGAA-AAAACAGAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATT
47657303 ATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
256 ATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
47657363 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTTAAAAAGTACCT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTTAAAAA-TACCT
47657428 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT
64 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATT
*
47657493 AGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTAACCTCTGTATTATGAGTTGATTTTT
129 AGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTT
* *
47657558 TGAAAAAATAGAAATTAAAAAAATACCTTAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATG
194 TGAAAAAACAGAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATG
47657623 AGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
259 AGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
* **
47657680 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAATTTTAAAAATATTTCT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAATACCTC-
* *** ** * ** * * ** * *
47657745 TGAAAGAAAC-AGGGTTTCAA-AAACATCTAGTGGAACTAAAAGCCTT-CTTCTTCATT-AATTC
65 AGCGTGACCCGA-GG-CTCAACTCACCTCT-GT---ATTATGAG--TTGATT-TT-TTTGAA---
**** *** * *
47657806 TGTGCAGCTTTCTCCTGCAGAAATTTGAAAAAATACCTCAGCGTGACCCGAGGGACCCGAGGCTC
117 AAAACAG--AAAT--T--AG--ATTAG-AAAAATACCTCA----G---C-A-TGACCCGAGGCTC
* *
47657871 AACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAATGCAGAAATTTGAAAAAATACCTCAGCG
164 AACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAA-ACAGAAA-TTAAAAAAATACCTCAGCG
* *
47657936 TGACCCGAGGGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAATAGA
227 T---------GACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAAAACAGA
* *
47658000 AATT--A--A-AAAAATACCTTAGCGTGACCCG
283 AATTAGATTAGAAAAATACCTCAGCATGACCCG
* * **** *
47658028 AGGCTCAACTCACCTCTGTATTATGAGTTTATTTGAAAAAAAAAGACATAAA-TTAAAAATACCT
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTT-TTTGAAAAA-ACAGAAATTTAAAAATACCT
* *
47658092 CAGCGTGACCTGAGGCTCAACTCACCTCTGTATTATGAGTTGA-CTTTTTGAAAAAAAGCAGAAA
64 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTG-AAAAAA-CAGAAA
*
47658156 TT---TTA-AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
127 TTAGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
*
47658217 TTTGAAAAAAGCAGAAATTAAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTAT
192 TTTGAAAAAA-CAGAAATT-AAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTAT
47658282 TATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
255 TATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
47658343 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAAAAAAAA
1 AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-T---TT---AAAAA
47658408 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAG
59 TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAG
*
47658473 AAATTAGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTAACCTCTGTATTATGAGTTGA
124 AAATTAGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA
* *
47658538 TTTTTTGAAAAAACAGAATTTTAAAAA
189 TTTTTTGAAAAAACAGAAATTAAAAAA
47658565 TATTTCTTGA
Statistics
Matches: 1018, Mismatches: 104, Indels: 152
0.80 0.08 0.12
Matches are distributed among these distances:
309 37 0.04
310 20 0.02
312 1 0.00
313 18 0.02
314 42 0.04
315 70 0.07
316 59 0.06
317 252 0.25
318 74 0.07
320 14 0.01
321 60 0.06
322 17 0.02
323 13 0.01
324 64 0.06
325 3 0.00
327 13 0.01
329 3 0.00
331 2 0.00
333 4 0.00
334 12 0.01
336 1 0.00
338 2 0.00
340 5 0.00
341 3 0.00
342 5 0.00
343 48 0.05
344 10 0.01
345 18 0.02
347 6 0.01
348 62 0.06
349 18 0.02
350 5 0.00
351 1 0.00
353 20 0.02
354 36 0.04
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (315 bp):
AGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAATACCTCA
GCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAG
ATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG
AAAAAACAGAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAG
TTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
Found at i:47657767 original size:30 final size:29
Alignment explanation
Indices: 47657710--47657767 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
47657700 TTATGAGTTG
* *
47657710 ATTTTTTGAAAAAACAGAATTTTAAAAAT
1 ATTTCTTGAAAAAACAGAATTTCAAAAAT
**
47657739 ATTTCTTGAAAGAAACAGGGTTTCAAAAA
1 ATTTCTTGAAA-AAACAGAATTTCAAAAA
47657768 CATCTAGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (29 bp):
ATTTCTTGAAAAAACAGAATTTCAAAAAT
Found at i:47658375 original size:82 final size:79
Alignment explanation
Indices: 47657946--47658555 Score: 918
Period size: 82 Copynumber: 7.7 Consensus size: 79
47657936 TGACCCGAGG
*
47657946 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAATAGAAATT-A--AAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAATTAAA
*
47658008 AAATACCTTAGCGT
66 AAATACCTCAGCGT
* * * *
47658022 GACCCGAGGCTCAACTCACCTCTGTATTATGAG-T--TTATTTGAAAAAAAAAGACATAAATT-A
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAAACAGAAATTAATTAA
47658083 AAAATACCTCAGCGT
65 AAAATACCTCAGCGT
* *
47658098 GACCTGAGGCTCAACTCACCTCTGTATTATGAGTTGACTTTTTGAAAAAAAGCAGAAATT--TTA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAAA-CAGAAATTAATTA
47658161 AAAAATACCTCAGCGT
64 AAAAATACCTCAGCGT
47658177 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAAGCAGAAATTAA--AA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAA-CAGAAATTAATTAA
47658240 AAAATACCTCAGCGT
65 AAAATACCTCAGCGT
47658255 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATTA-ATTA
*
47658320 GAAAAATACCTCAGCAT
64 -AAAAATACCTCAGCGT
*
47658337 GACCCGAGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATT-AATT--
47658402 AAAAAATACCTCAGCGT
63 AAAAAATACCTCAGCGT
47658419 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAACAGAAATTA-ATTA
*
47658484 GAAAAATACCTCAGCAT
64 -AAAAATACCTCAGCGT
*
47658501 GACCCGAGGCTCAACTAACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAA
1 GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAA
47658556 TTTTAAAAAT
Statistics
Matches: 493, Mismatches: 19, Indels: 39
0.89 0.03 0.07
Matches are distributed among these distances:
73 6 0.01
74 11 0.02
75 2 0.00
76 80 0.16
77 1 0.00
78 80 0.16
79 84 0.17
80 5 0.01
81 44 0.09
82 155 0.31
83 25 0.05
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (79 bp):
GACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAATTAAA
AAATACCTCAGCGT
Found at i:47658594 original size:30 final size:29
Alignment explanation
Indices: 47658537--47658594 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
47658527 TTATGAGTTG
* *
47658537 ATTTTTTGAAAAAACAGAATTTTAAAAAT
1 ATTTCTTGAAAAAACAGAATTTCAAAAAT
**
47658566 ATTTCTTGAAAGAAACAGGGTTTCAAAAA
1 ATTTCTTGAAA-AAACAGAATTTCAAAAA
47658595 CATCTAGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (29 bp):
ATTTCTTGAAAAAACAGAATTTCAAAAAT
Found at i:47659425 original size:1 final size:1
Alignment explanation
Indices: 47659419--47659538 Score: 51
Period size: 1 Copynumber: 120.0 Consensus size: 1
47659409 TTCATCTTGA
* * * * * * * * * * *
47659419 TTTTTTTTCTTTTTTTTTATTTTTTGTTTTGTCTGTTTTTTCTGTTTTTTTCTTTTTGTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * * * * * * * *
47659484 TTTTGTCTGTTTTTTTCTGTTTTTTCTTTTCTTTTTCTATTTTTTTTGTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
47659539 AAGCATAATA
Statistics
Matches: 77, Mismatches: 42, Indels: 0
0.65 0.35 0.00
Matches are distributed among these distances:
1 77 1.00
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.82
Consensus pattern (1 bp):
T
Found at i:47659433 original size:9 final size:9
Alignment explanation
Indices: 47659419--47659538 Score: 79
Period size: 9 Copynumber: 12.9 Consensus size: 9
47659409 TTCATCTTGA
47659419 TTTTTTTTC
1 TTTTTTTTC
47659428 -TTTTTTT-
1 TTTTTTTTC
*
47659435 TTATTTTT-
1 TTTTTTTTC
* *
47659443 TGTTTTGTC
1 TTTTTTTTC
*
47659452 TGTTTTTTC
1 TTTTTTTTC
47659461 TGTTTTTTTC
1 T-TTTTTTTC
47659471 TTTTTGTTT-
1 TTTTT-TTTC
47659480 TTTGTTTTGTC
1 TTT-TTTT-TC
47659491 TGTTTTTTTC
1 T-TTTTTTTC
*
47659501 TGTTTTTTC
1 TTTTTTTTC
47659510 TTTTCTTTTTC
1 -TTT-TTTTTC
47659521 TATTTTTTT-
1 T-TTTTTTTC
47659530 TGTTTTTTT
1 T-TTTTTTT
47659539 AAGCATAATA
Statistics
Matches: 91, Mismatches: 9, Indels: 22
0.75 0.07 0.18
Matches are distributed among these distances:
8 18 0.20
9 33 0.36
10 25 0.27
11 13 0.14
12 2 0.02
ACGTcount: A:0.02, C:0.07, G:0.08, T:0.82
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:47659475 original size:39 final size:39
Alignment explanation
Indices: 47659428--47659513 Score: 140
Period size: 39 Copynumber: 2.2 Consensus size: 39
47659418 ATTTTTTTTC
47659428 TTTT-TTTTTATTTTTTGTTTTGTCTG-TTTTTTCTGTTT
1 TTTTCTTTTTATTTTTTGTTTTGTCTGTTTTTTTCTG-TT
*
47659466 TTTTCTTTTTGTTTTTTGTTTTGTCTGTTTTTTTCTGTT
1 TTTTCTTTTTATTTTTTGTTTTGTCTGTTTTTTTCTGTT
47659505 TTTTCTTTT
1 TTTTCTTTT
47659514 CTTTTTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
38 4 0.09
39 32 0.71
40 9 0.20
ACGTcount: A:0.01, C:0.07, G:0.10, T:0.81
Consensus pattern (39 bp):
TTTTCTTTTTATTTTTTGTTTTGTCTGTTTTTTTCTGTT
Found at i:47659534 original size:39 final size:40
Alignment explanation
Indices: 47659428--47659538 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 40
47659418 ATTTTTTTTC
* * *
47659428 TTTT-TTTTTATTTTTTGTTTTGTCTG-TTTTTTCTGTTT
1 TTTTCTTTTTGTTTTCTATTTTGTCTGTTTTTTTCTGTTT
* *
47659466 TTTTCTTTTTGTTTTTTGTTTTGTCTGTTTTTTTCTG-TT
1 TTTTCTTTTTGTTTTCTATTTTGTCTGTTTTTTTCTGTTT
* *
47659505 TTTTCTTTTCT-TTTTCTATTTTTTTTGTTTTTTT
1 TTTTCTTTT-TGTTTTCTATTTTGTCTGTTTTTTT
47659539 AAGCATAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
38 4 0.06
39 51 0.78
40 10 0.15
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.82
Consensus pattern (40 bp):
TTTTCTTTTTGTTTTCTATTTTGTCTGTTTTTTTCTGTTT
Found at i:47663158 original size:4 final size:4
Alignment explanation
Indices: 47663120--47663148 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
47663110 ATGTACATGC
47663120 AATG AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG A
47663149 CCAATGAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:47664870 original size:18 final size:18
Alignment explanation
Indices: 47664847--47664881 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47664837 CAACTTTTTC
47664847 TTTTTTTGAAAACACGAT
1 TTTTTTTGAAAACACGAT
* *
47664865 TTTTTTTTAAAATACGA
1 TTTTTTTGAAAACACGA
47664882 GAATTTTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.49
Consensus pattern (18 bp):
TTTTTTTGAAAACACGAT
Found at i:47664907 original size:19 final size:19
Alignment explanation
Indices: 47664885--47664933 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 19
47664875 AATACGAGAA
*
47664885 TTTTAGAAACACGAATTGT
1 TTTTAAAAACACGAATTGT
47664904 TTTTAAAAAAACACGAATTGT
1 TTTT--AAAAACACGAATTGT
47664925 TTTTAAAAA
1 TTTTAAAAA
47664934 AACACGAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 9 0.33
21 18 0.67
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (19 bp):
TTTTAAAAACACGAATTGT
Found at i:47664916 original size:21 final size:21
Alignment explanation
Indices: 47664891--47664941 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
47664881 AGAATTTTAG
47664891 AAACACGAATTGTTTTTAAAA
1 AAACACGAATTGTTTTTAAAA
47664912 AAACACGAATTGTTTTTAAAA
1 AAACACGAATTGTTTTTAAAA
47664933 AAACACGAA
1 AAACACGAA
47664942 AATTTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.51, C:0.12, G:0.10, T:0.27
Consensus pattern (21 bp):
AAACACGAATTGTTTTTAAAA
Found at i:47664954 original size:16 final size:17
Alignment explanation
Indices: 47664933--47664971 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
47664923 GTTTTTAAAA
47664933 AAACACGAAAATTT-TG
1 AAACACGAAAATTTATG
47664949 AAACACGAAAATTTATG
1 AAACACGAAAATTTATG
47664966 AAACAC
1 AAACAC
47664972 TATCAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (17 bp):
AAACACGAAAATTTATG
Found at i:47665031 original size:21 final size:20
Alignment explanation
Indices: 47664997--47665037 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
47664987 ACACGAAAAA
*
47664997 TTTTTGAAAAACGGGAATTT
1 TTTTTGAAAAACGGAAATTT
47665017 TTTTTGAAAACACGGAAATTT
1 TTTTTGAAAA-ACGGAAATTT
47665038 ATGAAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (20 bp):
TTTTTGAAAAACGGAAATTT
Found at i:47665101 original size:56 final size:55
Alignment explanation
Indices: 47665024--47665167 Score: 150
Period size: 56 Copynumber: 2.6 Consensus size: 55
47665014 TTTTTTTTGA
* * * *
47665024 AAACACGGAAATTTATGAAACATGAAATTTTTTTTTGAAAACAAAAAAATTTTCG
1 AAACACTGAAATTTTTAAAACACGAAATTTTTTTTTGAAAACAAAAAAATTTTCG
* * * *
47665079 ATATAC-GAGAATTTTTAAAAACACGGGAAA--TTTTTTTGAAAACACAAAAATTTTTG
1 AAACACTGA-AATTTTT-AAAACAC--GAAATTTTTTTTTGAAAACAAAAAAATTTTCG
47665135 AAACACTGAAATTTTTAAAACACGAAGATTTTT
1 AAACACTGAAATTTTTAAAACACGAA-ATTTTT
47665168 GAAACATGAA
Statistics
Matches: 72, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
53 3 0.04
54 3 0.04
55 17 0.24
56 43 0.60
57 2 0.03
58 4 0.06
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (55 bp):
AAACACTGAAATTTTTAAAACACGAAATTTTTTTTTGAAAACAAAAAAATTTTCG
Found at i:47665134 original size:18 final size:18
Alignment explanation
Indices: 47664932--47665264 Score: 193
Period size: 17 Copynumber: 18.2 Consensus size: 18
47664922 TGTTTTTAAA
47664932 AAAACACGAAAA-TTTTG
1 AAAACACGAAAATTTTTG
*
47664949 -AAACACGAAAATTTATG
1 AAAACACGAAAATTTTTG
* * *
47664966 -AAACACTATCAATTTTTT
1 AAAACACGA-AAATTTTTG
47664984 AAAACACGAAAAATTTTTG
1 AAAACACG-AAAATTTTTG
**
47665003 AAAA-ACGGGAATTTTTTTTG
1 AAAACAC--GAA-AATTTTTG
* *
47665023 AAAACACGGAAATTTATG
1 AAAACACGAAAATTTTTG
* *
47665041 -AAACATGAAATTTTTTTTTG
1 AAAACACGAAA---ATTTTTG
** *
47665061 AAAACAAAAAAATTTTCG
1 AAAACACGAAAATTTTTG
* * * *
47665079 -ATATACGAGAATTTTTA
1 AAAACACGAAAATTTTTG
*
47665096 AAAACACGGGAAATTTTTTTG
1 AAAACAC--GAAA-ATTTTTG
*
47665117 AAAACACAAAAATTTTTG
1 AAAACACGAAAATTTTTG
47665135 -AAACACTG-AAATTTTT-
1 AAAACAC-GAAAATTTTTG
*
47665151 AAAACACGAAGATTTTTG
1 AAAACACGAAAATTTTTG
*
47665169 -AAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
* * * *
47665186 AGAACAAGAAATTTTTTTTT
1 AAAACACGAAA--ATTTTTG
*
47665206 AAAACACGGAAATTTTTG
1 AAAACACGAAAATTTTTG
47665224 -AAACACGAGAAATTTTTTTG
1 AAAACACGA-AAA--TTTTTG
*
47665244 AAAACATGAAAATTTTTG
1 AAAACACGAAAATTTTTG
47665262 AAA
1 AAA
47665265 CCCTATTTTT
Statistics
Matches: 238, Mismatches: 51, Indels: 53
0.70 0.15 0.15
Matches are distributed among these distances:
16 12 0.05
17 78 0.33
18 53 0.22
19 24 0.10
20 42 0.18
21 29 0.12
ACGTcount: A:0.46, C:0.09, G:0.12, T:0.33
Consensus pattern (18 bp):
AAAACACGAAAATTTTTG
Found at i:47665265 original size:38 final size:37
Alignment explanation
Indices: 47664933--47665265 Score: 205
Period size: 38 Copynumber: 9.1 Consensus size: 37
47664923 GTTTTTAAAA
*
47664933 AAACACGA-AAA--TTTTG-AAACACGAAAATTTATG
1 AAACACGAGAAATTTTTTGAAAACACGAAAATTTTTG
* **
47664966 AAACACTATCAATTTTTT-AAAACACGAAAAATTTTTG
1 AAACACGAGAAATTTTTTGAAAACACG-AAAATTTTTG
* * * * *
47665003 AAAAACGGGAATTTTTTTTGAAAACACGGAAATTTATG
1 AAACACGAGAA-ATTTTTTGAAAACACGAAAATTTTTG
* * ** *
47665041 AAACATGA-AATTTTTTTTTGAAAACAAAAAAATTTTCG
1 AAACACGAGAA--ATTTTTTGAAAACACGAAAATTTTTG
* * * *
47665079 ATATACGAG-AA-TTTTTAAAAACACGGGAAATTTTTTTG
1 AAACACGAGAAATTTTTTGAAAACAC--GAAA-ATTTTTG
* *
47665117 AAAACAC-A-AAAATTTTTG-AAACACTG-AAATTTTTA
1 -AAACACGAGAAATTTTTTGAAAACAC-GAAAATTTTTG
* *
47665152 AAACACGA-AGA-TTTTTG-AAACATGAAAATTTTTG
1 AAACACGAGAAATTTTTTGAAAACACGAAAATTTTTG
* *
47665186 AGAACA--AGAAATTTTTTTTTAAAACACGGAAATTTTTG
1 A-AACACGAGAAA--TTTTTTGAAAACACGAAAATTTTTG
*
47665224 AAACACGAGAAATTTTTTTGAAAACATGAAAATTTTTG
1 AAACACGAGAAA-TTTTTTGAAAACACGAAAATTTTTG
47665262 AAAC
1 AAAC
47665266 CCTATTTTTT
Statistics
Matches: 231, Mismatches: 44, Indels: 45
0.72 0.14 0.14
Matches are distributed among these distances:
33 9 0.04
34 30 0.13
35 23 0.10
36 13 0.06
37 30 0.13
38 104 0.45
39 22 0.10
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.33
Consensus pattern (37 bp):
AAACACGAGAAATTTTTTGAAAACACGAAAATTTTTG
Found at i:47665769 original size:7 final size:7
Alignment explanation
Indices: 47665749--47665818 Score: 97
Period size: 7 Copynumber: 9.9 Consensus size: 7
47665739 CATTTTTCCT
47665749 TTTTTTC
1 TTTTTTC
47665756 TTCTTTTTC
1 -T-TTTTTC
47665765 TTTTTTC
1 TTTTTTC
47665772 TTTTTTC
1 TTTTTTC
47665779 TTTTTTC
1 TTTTTTC
47665786 TTTTTTC
1 TTTTTTC
47665793 TTTTTTC
1 TTTTTTC
47665800 TTTTTT-
1 TTTTTTC
* *
47665806 TCTCTTC
1 TTTTTTC
47665813 TTTTTT
1 TTTTTT
47665819 TTGGCCTGCT
Statistics
Matches: 56, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
6 4 0.07
7 44 0.79
8 2 0.04
9 6 0.11
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:47665861 original size:15 final size:15
Alignment explanation
Indices: 47665821--47665861 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
47665811 TCTTTTTTTT
47665821 GGCCTGCTGCCTTTGG
1 GGCCTGCTG-CTTTGG
47665837 GGCCTG-TGCTATT-G
1 GGCCTGCTGCT-TTGG
47665851 GGCCTGCTGCT
1 GGCCTGCTGCT
47665862 GGTGTTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.02, C:0.29, G:0.37, T:0.32
Consensus pattern (15 bp):
GGCCTGCTGCTTTGG
Found at i:47665954 original size:18 final size:19
Alignment explanation
Indices: 47665913--47665955 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
47665903 GCGCTTGGGC
*
47665913 TGTTTTTGGCCTGTTTCTT
1 TGTTTTTGGCCTCTTTCTT
*
47665932 T-TTTTT-GCCTCTTTTTT
1 TGTTTTTGGCCTCTTTCTT
47665949 TGTTTTT
1 TGTTTTT
47665956 TCTTTGGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 10 0.48
18 10 0.48
19 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.72
Consensus pattern (19 bp):
TGTTTTTGGCCTCTTTCTT
Found at i:47666648 original size:30 final size:30
Alignment explanation
Indices: 47666612--47666736 Score: 137
Period size: 30 Copynumber: 4.2 Consensus size: 30
47666602 GGCTGAAACA
* *
47666612 TAATTTCGAGGAAGTTTAGGTGTCAAAATG
1 TAATTTCGAGAAAGTTTAGGGGTCAAAATG
47666642 TAATTTCGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTCGAGAAAGTTTAGGGGTCAAAATG
* *
47666672 TAGTTTC-AAAAAGTTTAGGGGT-AGAAATG
1 TAATTTCGAGAAAGTTTAGGGGTCA-AAATG
* ** * *
47666701 TAGTTTTAAAAAAATTTAGGGGTCAAAATG
1 TAATTTCGAGAAAGTTTAGGGGTCAAAATG
*
47666731 CAATTT
1 TAATTT
47666737 TTTTAAACAC
Statistics
Matches: 84, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
28 1 0.01
29 25 0.30
30 57 0.68
31 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.24, T:0.33
Consensus pattern (30 bp):
TAATTTCGAGAAAGTTTAGGGGTCAAAATG
Found at i:47670640 original size:18 final size:17
Alignment explanation
Indices: 47670620--47670889 Score: 147
Period size: 18 Copynumber: 15.2 Consensus size: 17
47670610 AAGAATCTAT
47670620 TTTTCAAAATTCTCGTG
1 TTTTCAAAATTCTCGTG
*
47670637 TTTTTAAAAAAATTACATTCTGTG
1 -TTTT--CAAAATT-C--TC-GTG
* *
47670661 TTTTCAAAAATTTTCGTA
1 TTTTC-AAAATTCTCGTG
* *
47670679 TTTTCAAAAATTTTCATG
1 TTTTC-AAAATTCTCGTG
47670697 TTTTCAACAATTCTCGTG
1 TTTTCAA-AATTCTCGTG
*
47670715 -TTTCACAAATTTTCGTG
1 TTTTCA-AAATTCTCGTG
* * ** *
47670732 TTTTAAAAATTTTTTTA
1 TTTTCAAAATTCTCGTG
* *
47670749 TTTTAAAAAATTCTCGTC
1 TTTT-CAAAATTCTCGTG
* *
47670767 TTTTAAAAATTGTCGTG
1 TTTTCAAAATTCTCGTG
*
47670784 -TTTCAAAAATTC-CATG
1 TTTTC-AAAATTCTCGTG
*
47670800 TTTTCAAAAATCTTCGTG
1 TTTTCAAAATTC-TCGTG
47670818 TTTTCAAGAATTCTCGTG
1 TTTTCAA-AATTCTCGTG
47670836 -TTTCAAAAACTT-TCGTG
1 TTTTC-AAAA-TTCTCGTG
* *** *
47670853 TTTTTAAAAAAATCATG
1 TTTTCAAAATTCTCGTG
47670870 -TTTCAAAATTCTCGTG
1 TTTTCAAAATTCTCGTG
47670886 TTTT
1 TTTT
47670890 TTTAATTCTT
Statistics
Matches: 197, Mismatches: 34, Indels: 43
0.72 0.12 0.16
Matches are distributed among these distances:
16 23 0.12
17 71 0.36
18 75 0.38
19 6 0.03
20 6 0.03
21 1 0.01
22 6 0.03
23 6 0.03
24 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.47
Consensus pattern (17 bp):
TTTTCAAAATTCTCGTG
Found at i:47670760 original size:35 final size:36
Alignment explanation
Indices: 47670658--47670862 Score: 179
Period size: 35 Copynumber: 5.9 Consensus size: 36
47670648 ATTACATTCT
47670658 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * * * *
47670694 ATGTTTTCAACAATTCTCGT-GTTTCACAAATTTTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
** * *
47670729 GTGTTTT-AAAAATTTTTTTATTTTAAAAAATTCTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * * *
47670764 GTCTTTT-AAAAATTGTCGT-GTTTCAAAAA-TTCC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * * * *
47670797 ATGTTTTCAAAAATCTTCGTGTTTTCAAGAATTCTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * *
47670833 GTG-TTTCAAAAACTTTCGTGTTTTTAAAAA
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAA
47670863 AATCATGTTT
Statistics
Matches: 130, Mismatches: 35, Indels: 9
0.75 0.20 0.05
Matches are distributed among these distances:
33 7 0.05
34 26 0.20
35 76 0.58
36 21 0.16
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.47
Consensus pattern (36 bp):
GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
Found at i:47670872 original size:52 final size:50
Alignment explanation
Indices: 47670772--47670888 Score: 137
Period size: 52 Copynumber: 2.3 Consensus size: 50
47670762 TCGTCTTTTA
* ** *
47670772 AAAATTGTCGTGTTTCAAAAATTCCATGTTTTCAAAAATCTTCGTGTTTTC
1 AAAATTCTCGTGTTTCAAAAATTCCATGTTTTCAAAAATAATCATG-TTTC
* * *
47670823 AAGAATTCTCGTGTTTCAAAAACTTTCGTGTTTTTAAAAA-AATCATGTTTC
1 AA-AATTCTCGTGTTTCAAAAA-TTCCATGTTTTCAAAAATAATCATGTTTC
47670874 AAAATTCTCGTGTTT
1 AAAATTCTCGTGTTT
47670889 TTTTAATTCT
Statistics
Matches: 57, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
50 13 0.23
51 8 0.14
52 22 0.39
53 14 0.25
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (50 bp):
AAAATTCTCGTGTTTCAAAAATTCCATGTTTTCAAAAATAATCATGTTTC
Found at i:47670874 original size:69 final size:68
Alignment explanation
Indices: 47670757--47670889 Score: 164
Period size: 69 Copynumber: 1.9 Consensus size: 68
47670747 TATTTTAAAA
* * *
47670757 AATTCTCGTCTTTTAAAAATTGTCGTGTTTCAAAAATTCCATGTTTTCAAAAATCTTCGTGTTTT
1 AATTCTCGTCTTTCAAAAATTGTCGTGTTTAAAAAAATCCATGTTTTCAAAAATC-TCGTGTTTT
47670822 CAAG
65 CAAG
* *
47670826 AATTCTCGTGTTTCAAAAACTT-TCGTGTTTTTAAAAAAAT-CATG-TTTCAAAATTCTCGTGTT
1 AATTCTCGTCTTTCAAAAA-TTGTCGTG--TTTAAAAAAATCCATGTTTTCAAAAATCTCGTGTT
47670888 TT
63 TT
47670890 TTTAATTCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
68 9 0.16
69 32 0.57
70 6 0.11
71 9 0.16
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.44
Consensus pattern (68 bp):
AATTCTCGTCTTTCAAAAATTGTCGTGTTTAAAAAAATCCATGTTTTCAAAAATCTCGTGTTTTC
AAG
Found at i:47674961 original size:16 final size:18
Alignment explanation
Indices: 47674924--47674961 Score: 53
Period size: 16 Copynumber: 2.2 Consensus size: 18
47674914 AGGAAGAAGA
*
47674924 AAGAAATAAAGAAAGGAG
1 AAGAAATAAAGAAAGGAC
47674942 AAGAAA-AAAG-AAGGAC
1 AAGAAATAAAGAAAGGAC
47674958 AAGA
1 AAGA
47674962 TATTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 9 0.47
17 4 0.21
18 6 0.32
ACGTcount: A:0.68, C:0.03, G:0.26, T:0.03
Consensus pattern (18 bp):
AAGAAATAAAGAAAGGAC
Found at i:47678366 original size:19 final size:19
Alignment explanation
Indices: 47678325--47678363 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
47678315 AGCAGAAGAG
*
47678325 AAGAAAGAAGAAAGAAATA
1 AAGAAAGAAGAAAGAAAAA
*
47678344 AAGAAAGGAG-AAGAAAAA
1 AAGAAAGAAGAAAGAAAAA
47678362 AA
1 AA
47678364 AGATAAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (19 bp):
AAGAAAGAAGAAAGAAAAA
Found at i:47678593 original size:105 final size:108
Alignment explanation
Indices: 47678465--47678714 Score: 362
Period size: 115 Copynumber: 2.3 Consensus size: 108
47678455 TTTTATGTTG
*
47678465 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CT-ATTATA-AATTGTTTGATTAGTTTAAT
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTGATTATAGAATTATTTGATTAGTTTAAT
*
47678527 GTTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
66 ATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
* * *
47678570 TTTTTAATTTATCTTAAAGTTATTTTGTTAGTAATTTTTGTGATTATAGGTTAATTATTTGTTTA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA----TCTGATTATA-G--AATTATTTGATTA
47678635 GTTTAATATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
59 GTTTAATATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
*
47678685 TTTTTAATTTATTTTAAAATTATTTTGTTA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTA
47678715 ATCACTTGAT
Statistics
Matches: 128, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
105 33 0.26
110 1 0.01
111 6 0.05
115 88 0.69
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.57
Consensus pattern (108 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTGATTATAGAATTATTTGATTAGTTTAAT
ATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
Found at i:47680400 original size:13 final size:13
Alignment explanation
Indices: 47680372--47680410 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
47680362 AAAACAAGCC
47680372 TTATTTTATCTAAAT
1 TTATTTT-T-TAAAT
47680387 TTATTTTTTAAAT
1 TTATTTTTTAAAT
47680400 TTATATTTTTA
1 TTAT-TTTTTA
47680411 CTCATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 9 0.39
14 7 0.30
15 7 0.30
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (13 bp):
TTATTTTTTAAAT
Found at i:47682523 original size:3 final size:3
Alignment explanation
Indices: 47682515--47682545 Score: 53
Period size: 3 Copynumber: 10.0 Consensus size: 3
47682505 TATTTTAGTG
47682515 TTA TTA TTA TTA TTA TTTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
47682546 GTTTCATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 24 0.89
4 3 0.11
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47682536 original size:13 final size:13
Alignment explanation
Indices: 47682518--47682544 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
47682508 TTTAGTGTTA
47682518 TTATTATTATTAT
1 TTATTATTATTAT
47682531 TTATTATTATTAT
1 TTATTATTATTAT
47682544 T
1 T
47682545 AGTTTCATTT
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:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:47682536 original size:16 final size:16
Alignment explanation
Indices: 47682515--47682545 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
47682505 TATTTTAGTG
47682515 TTATTATTATTATTAT
1 TTATTATTATTATTAT
47682531 TTATTATTATTATTA
1 TTATTATTATTATTA
47682546 GTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:47686922 original size:17 final size:17
Alignment explanation
Indices: 47686900--47686938 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
47686890 TTTGTTTAAG
47686900 TTATATATATATAAATA
1 TTATATATATATAAATA
* *
47686917 TTATATGTATATAATTA
1 TTATATATATATAAATA
47686934 TTATA
1 TTATA
47686939 ATTATTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
TTATATATATATAAATA
Found at i:47686938 original size:9 final size:9
Alignment explanation
Indices: 47686909--47686953 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
47686899 GTTATATATA
*
47686909 TATAAATAT
1 TATAATTAT
47686918 TAT-ATGTA-
1 TATAAT-TAT
47686926 TATAATTAT
1 TATAATTAT
47686935 TATAATTAT
1 TATAATTAT
47686944 TATAATTAT
1 TATAATTAT
47686953 T
1 T
47686954 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:47687318 original size:15 final size:17
Alignment explanation
Indices: 47687300--47687331 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
47687290 CAGAATAGAA
47687300 AGAA-CAAA-GAAACAG
1 AGAAGCAAACGAAACAG
47687315 AGAAGCAAACGAAACAG
1 AGAAGCAAACGAAACAG
47687332 GGGAAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 4 0.27
17 7 0.47
ACGTcount: A:0.62, C:0.16, G:0.22, T:0.00
Consensus pattern (17 bp):
AGAAGCAAACGAAACAG
Found at i:47688407 original size:45 final size:45
Alignment explanation
Indices: 47688341--47688484 Score: 166
Period size: 45 Copynumber: 3.2 Consensus size: 45
47688331 ATGTGCCGAC
* * * *
47688341 TACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTATTACTGT
1 TACTGTTACAGACTCGACACTTTGTGTGTCGAATACTGTTACTGT
* *
47688386 TACTGTTACCGACTCGACACTTTGTGTGTCGAATACTGTTACCGT
1 TACTGTTACAGACTCGACACTTTGTGTGTCGAATACTGTTACTGT
* ** *
47688431 TACTGTTACAG-GTTTAGCACTTTGTGTGTTG-ATACTGTTACTGT
1 TACTGTTACAGACTCGA-CACTTTGTGTGTCGAATACTGTTACTGT
47688475 TACTGATTAC
1 TACTG-TTAC
47688485 TGTATACTAG
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
44 19 0.22
45 67 0.78
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (45 bp):
TACTGTTACAGACTCGACACTTTGTGTGTCGAATACTGTTACTGT
Found at i:47689093 original size:9 final size:9
Alignment explanation
Indices: 47689079--47689107 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
47689069 GAATGTGAAA
47689079 TGAATTGGT
1 TGAATTGGT
47689088 TGAATTGGT
1 TGAATTGGT
47689097 TGAATTGGT
1 TGAATTGGT
47689106 TG
1 TG
47689108 TGATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (9 bp):
TGAATTGGT
Found at i:47699566 original size:27 final size:28
Alignment explanation
Indices: 47699530--47699592 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
47699520 CATTTTCATA
47699530 TATTTGATTTTG-ATACTCACTCAATTTTT
1 TATTT-ATTTTGAATACTCACT-AATTTTT
* *
47699559 T-TTTATTTTGAATATTTACTAATTTTT
1 TATTTATTTTGAATACTCACTAATTTTT
47699586 TATTTAT
1 TATTTAT
47699593 AAAAAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 14 0.47
28 15 0.50
29 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTTATTTTGAATACTCACTAATTTTT
Found at i:47699818 original size:28 final size:28
Alignment explanation
Indices: 47699754--47699819 Score: 82
Period size: 26 Copynumber: 2.4 Consensus size: 28
47699744 TCAATACAAA
47699754 TCCATATTATTCAGGTAAATAAATTTTG
1 TCCATATTATTCAGGTAAATAAATTTTG
* * * *
47699782 T--ATGTTATTTAGGTAAATATATTTTT
1 TCCATATTATTCAGGTAAATAAATTTTG
47699808 TCCATATTATTC
1 TCCATATTATTC
47699820 CATAAAAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
26 22 0.73
28 8 0.27
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (28 bp):
TCCATATTATTCAGGTAAATAAATTTTG
Found at i:47701692 original size:79 final size:79
Alignment explanation
Indices: 47701561--47702431 Score: 1742
Period size: 79 Copynumber: 11.0 Consensus size: 79
47701551 CTGAGAACAT
47701561 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47701626 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47701640 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47701705 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47701719 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47701784 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47701798 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47701863 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47701877 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47701942 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47701956 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47702021 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47702035 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47702100 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47702114 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47702179 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47702193 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47702258 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47702272 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47702337 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47702351 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
1 ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
47702416 TAGGCCATTTTCGC
66 TAGGCCATTTTCGC
47702430 AT
1 AT
47702432 GGCCATATAT
Statistics
Matches: 792, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 792 1.00
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.27
Consensus pattern (79 bp):
ATAAAACCAAGCTTAAACATAAAGATTAAGCCATTTTTAACCCAACCGAATTTAAGCATGGAAAT
TAGGCCATTTTCGC
Found at i:47703156 original size:42 final size:42
Alignment explanation
Indices: 47703066--47703193 Score: 138
Period size: 42 Copynumber: 3.0 Consensus size: 42
47703056 AGTCCGTACA
*
47703066 ATGCCAACA-TCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACAGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
47703109 ATGCCACAGTCCCAGACAG-GGTCTTAAACGAATCACA-AGTCG
1 ATGCCACAGTCCCAGAC-GTGGTCTTACACGAATCACATA-TCG
* *
47703151 ATGCCA-ATGTCCTAGACGTGGTCTTACACGAAAACACATATCG
1 ATGCCACA-GTCCCAGACGTGGTCTTACACG-AATCACATATCG
47703194 GAATCCTATG
Statistics
Matches: 73, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
41 3 0.04
42 37 0.51
43 31 0.42
44 2 0.03
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCACAGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:47704090 original size:23 final size:23
Alignment explanation
Indices: 47704063--47704108 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
47704053 TAATTTTTTA
47704063 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
47704086 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
47704109 TACTAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:47704100 original size:25 final size:22
Alignment explanation
Indices: 47704071--47704123 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 22
47704061 TATATTAAAC
*
47704071 ATATATTAACCTTATTATTAATTT
1 ATATATTAACC-T-TTACTAATTT
47704095 ACTATATTAACCTTTACTAATTT
1 A-TATATTAACCTTTACTAATTT
47704118 ATATAT
1 ATATAT
47704124 AACATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 5 0.19
23 10 0.37
24 2 0.07
25 10 0.37
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATATTAACCTTTACTAATTT
Found at i:47706944 original size:21 final size:21
Alignment explanation
Indices: 47706897--47706946 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
47706887 TTGTCTCTTT
* **
47706897 AATTTCCTCACTTTTTCTACC
1 AATTTCTTCACTTTCACTACC
* *
47706918 ATTTTCTTCACTTTCACTTCC
1 AATTTCTTCACTTTCACTACC
47706939 AATTTCTT
1 AATTTCTT
47706947 TCTTCCAAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTCTTCACTTTCACTACC
Found at i:47708267 original size:39 final size:39
Alignment explanation
Indices: 47708203--47708282 Score: 117
Period size: 39 Copynumber: 2.1 Consensus size: 39
47708193 GGAAGAAAAC
* * *
47708203 ATCACCAAAATCTTTATGCTAGAGTCGGGATTGTCCTGG
1 ATCACCAAAATCTCTATACTAGAGTCAGGATTGTCCTGG
47708242 ATCACCAAAATCTCTATAC-AGGAGTCAGGATTGTCCTGG
1 ATCACCAAAATCTCTATACTA-GAGTCAGGATTGTCCTGG
47708281 AT
1 AT
47708283 ACTGAACCGA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
38 1 0.03
39 36 0.97
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (39 bp):
ATCACCAAAATCTCTATACTAGAGTCAGGATTGTCCTGG
Found at i:47708821 original size:21 final size:21
Alignment explanation
Indices: 47708763--47708849 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
47708753 CCTAATCAGT
47708763 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
47708783 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
47708804 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
47708825 ATGTATGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
47708848 AT
1 AT
47708850 CGGCAAGGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.16
21 27 0.48
23 20 0.36
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:47708847 original size:44 final size:41
Alignment explanation
Indices: 47708763--47708849 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
47708753 CCTAATCAGT
* *
47708763 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
* * *
47708804 ATACGACACATAAAGTGCCTGATGTATGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA--AACGACACACAAAGTGCCTG
47708848 AT
1 AT
47708850 CGGCAAGGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 11 0.29
42 10 0.26
44 17 0.45
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:47709055 original size:18 final size:18
Alignment explanation
Indices: 47709032--47709093 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
47709022 ACACATACTT
47709032 TTCAAATTCACATTTCAA
1 TTCAAATTCACATTTCAA
* *
47709050 TTCAAATTCACTTTTTCATT
1 TTCAAATTCAC-ATTTCA-A
*
47709070 TTC-AA-TCACAATTCAA
1 TTCAAATTCACATTTCAA
47709086 TTCAAATT
1 TTCAAATT
47709094 TACTTTTCCA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
16 3 0.09
17 6 0.17
18 16 0.46
19 7 0.20
20 3 0.09
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (18 bp):
TTCAAATTCACATTTCAA
Found at i:47709085 original size:36 final size:37
Alignment explanation
Indices: 47709030--47709127 Score: 119
Period size: 36 Copynumber: 2.6 Consensus size: 37
47709020 CAACACATAC
* * *
47709030 TTTTCAAATTCACATTTCAATTCAAATTCACTTTTTCA
1 TTTTC-AAGTCACAATTCAATTCAAATTCACTTTTCCA
*
47709068 TTTTCAA-TCACAATTCAATTCAAATTTACTTTTCCA
1 TTTTCAAGTCACAATTCAATTCAAATTCACTTTTCCA
*
47709104 TTTTCAAGTCA-ATATTCATTTCAA
1 TTTTCAAGTCACA-ATTCAATTCAA
47709128 TTCCACACAT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
36 34 0.63
37 15 0.28
38 5 0.09
ACGTcount: A:0.33, C:0.20, G:0.01, T:0.46
Consensus pattern (37 bp):
TTTTCAAGTCACAATTCAATTCAAATTCACTTTTCCA
Found at i:47709201 original size:16 final size:16
Alignment explanation
Indices: 47709179--47709218 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
47709169 TTAATAATAA
47709179 TACTTACCTTA-TATT
1 TACTTACCTTATTATT
47709194 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
47709211 TACTTACC
1 TACTTACC
47709219 ATACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:47710077 original size:14 final size:17
Alignment explanation
Indices: 47710058--47710095 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
47710048 ATTTATTTCT
47710058 TAATATAA-T-ATTT-A
1 TAATATAACTAATTTAA
47710072 TAATATAACTAATTTAA
1 TAATATAACTAATTTAA
47710089 TAATATA
1 TAATATA
47710096 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATAACTAATTTAA
Found at i:47710135 original size:21 final size:20
Alignment explanation
Indices: 47710087--47710136 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
47710077 TAACTAATTT
*
47710087 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* * *
47710107 ATTTATATATTTATATAAATA
1 AATAATATACTT-TATAAATA
47710128 AATAATATA
1 AATAATATA
47710137 AAAATCTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:47744117 original size:23 final size:23
Alignment explanation
Indices: 47744091--47744141 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
47744081 TGTTATTGAT
47744091 CAGTGGTAGCTTCGGCTACATAA
1 CAGTGGTAGCTTCGGCTACATAA
*
47744114 CAGTGGTAGCTTCGGCTACATAT
1 CAGTGGTAGCTTCGGCTACATAA
47744137 CAGTG
1 CAGTG
47744142 TTGCACTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (23 bp):
CAGTGGTAGCTTCGGCTACATAA
Found at i:47746317 original size:18 final size:18
Alignment explanation
Indices: 47746294--47746331 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
47746284 TGCCAGGTGC
* *
47746294 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
47746312 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
47746330 GT
1 GT
47746332 TTCATTTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:47746790 original size:34 final size:33
Alignment explanation
Indices: 47746750--47746845 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
47746740 GAATATTTTG
47746750 ATATTATTTGATGTAATAAAATAGAAATTCTTCT
1 ATATTATTT-ATGTAATAAAATAGAAATTCTTCT
* *
47746784 ATATTATTTCATGTACTAAAATAGAAATT-TACT
1 ATATTATTT-ATGTAATAAAATAGAAATTCTTCT
*
47746817 -TATATATTT-T-TAATATAATAGAAATTCTT
1 ATAT-TATTTATGTAATAAAATAGAAATTCTT
47746846 TTAAATAAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
30 14 0.26
31 2 0.04
32 3 0.06
33 8 0.15
34 27 0.50
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (33 bp):
ATATTATTTATGTAATAAAATAGAAATTCTTCT
Found at i:47747013 original size:116 final size:117
Alignment explanation
Indices: 47746809--47747018 Score: 277
Period size: 116 Copynumber: 1.8 Consensus size: 117
47746799 CTAAAATAGA
*
47746809 AATTTACTTATATATTTTTAATATAATAGAAATTCTTTTAAATAAGGCAATATGTTGAATATTTC
1 AATTTACTTATATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATGTTGAATATTTC
* *
47746874 TATATTATTTCATTTAATAAAATA-AAATGTTGTTTTGAATAAAGTAATTGT
66 TAAATTATTTAATTTAATAAAATATAAATGTTGTTTTGAATAAAGTAATTGT
** **
47746925 AATTTACTT-TAATATTTTTAATAAAATAGATTTTCTTTTAAATAAGTTAATAT-TCTGAATATT
1 AATTTACTTAT-ATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATGT-TGAATATT
*
47746988 TGTACCAATT-TTTAATTTAA-AAAATATAAAT
64 TCTA--AATTATTTAATTTAATAAAATATAAAT
47747019 AATACAAAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 9
0.83 0.08 0.09
Matches are distributed among these distances:
115 2 0.02
116 63 0.78
117 13 0.16
118 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (117 bp):
AATTTACTTATATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATGTTGAATATTTC
TAAATTATTTAATTTAATAAAATATAAATGTTGTTTTGAATAAAGTAATTGT
Found at i:47750226 original size:126 final size:126
Alignment explanation
Indices: 47750001--47750291 Score: 510
Period size: 126 Copynumber: 2.3 Consensus size: 126
47749991 CCAGACATGC
* *
47750001 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTCTGCTGATAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
47750066 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* *
47750127 GCTACTGTAGCAAAAGCGCGTCAACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
47750192 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
* * *
47750253 GCTACTGCAGCAAAAGTGCATCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
47750292 AAATTAACAA
Statistics
Matches: 156, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
126 156 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTATTTTTTCAAGA
Found at i:47750457 original size:97 final size:94
Alignment explanation
Indices: 47750324--47750601 Score: 301
Period size: 97 Copynumber: 2.9 Consensus size: 94
47750314 CGTAACCCTA
* * * *
47750324 AACCCCAAACCCTAATTTATTTAAGTTCTTACTTAAAAACCTTAAACACTAAACCCTAATCTAAC
1 AACCCTAAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCTTAAACACTAAACCCTAATCTAA-
47750389 TTTATAAAAATTTATAATTAATTTACTAAAGT
64 TTT-TAAAAATTTATAATTAATTTACTAAAGT
* * * * *
47750421 AACCCTGAACCCTATTTTATTTGATTTTTTTCTTAAAAACCTTTAACTCTAAACCTTAATC-AGA
1 AACCCTAAACCCTAATTTATTTGA-TTTTTTCTTAAAAACCTTAAACACTAAACCCTAATCTA-A
* * * * *
47750485 TTTTTAAATTTTTTAATTAAATTACTCAAGT
64 TTTTAAAAATTTATAATTAATTTACTAAAGT
* * *** *
47750516 AACCCTAAACCTTAATTTAATTGATTTTTTC-TAAAAAAAATAAACACGAAA-CCTAATCTAATT
1 AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
47750579 TTGAAAAATTTATAATTAATTTA
66 TT-AAAAATTTATAATTAATTTA
47750602 ATTGACAAAT
Statistics
Matches: 148, Mismatches: 30, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
92 11 0.07
93 31 0.21
94 7 0.05
95 43 0.29
96 4 0.03
97 52 0.35
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.39
Consensus pattern (94 bp):
AACCCTAAACCCTAATTTATTTGATTTTTTCTTAAAAACCTTAAACACTAAACCCTAATCTAATT
TTAAAAATTTATAATTAATTTACTAAAGT
Found at i:47762362 original size:66 final size:66
Alignment explanation
Indices: 47762256--47762388 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
47762246 TTATGTATTT
* * *
47762256 ACTTTAATTTAATCTTAATATAAATTGAGCTTGAATTATACCAGCATCACTTAGTATTCAATACT
1 ACTTTAATTTAATCCTAATATAAATTGAACTTGAATTATACCAGCATCACTTAATATTCAATACT
47762321 C
66 C
* *
47762322 ACTTTAATTTAATCCTAATATAACTTGAACTTGAATTATACTAGCATCACTTAATATTCAATACT
1 ACTTTAATTTAATCCTAATATAAATTGAACTTGAATTATACCAGCATCACTTAATATTCAATACT
47762387 C
66 C
47762388 A
1 A
47762389 GTGTATGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (66 bp):
ACTTTAATTTAATCCTAATATAAATTGAACTTGAATTATACCAGCATCACTTAATATTCAATACT
C
Found at i:47770440 original size:36 final size:37
Alignment explanation
Indices: 47770395--47770516 Score: 117
Period size: 36 Copynumber: 3.4 Consensus size: 37
47770385 TGGTAGTATG
* *
47770395 AAACA-TAAGAATTGTATATTATTTGTTGGCGATATA
1 AAACAGTAAGAAATGTGTATTATTTGTTGGCGATATA
* * * * **
47770431 AAA-TGTAAGAAATGTGTATTGTCTATTGGTAATATA
1 AAACAGTAAGAAATGTGTATTATTTGTTGGCGATATA
* *
47770467 AAACAG-AAGAAATGTGTATCATTCGTTGGCGATATA
1 AAACAGTAAGAAATGTGTATTATTTGTTGGCGATATA
*
47770503 ATACA-TAAGAAATG
1 AAACAGTAAGAAATG
47770517 CATAAGGCCC
Statistics
Matches: 66, Mismatches: 17, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
36 65 0.98
37 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.34
Consensus pattern (37 bp):
AAACAGTAAGAAATGTGTATTATTTGTTGGCGATATA
Found at i:47770977 original size:49 final size:49
Alignment explanation
Indices: 47770916--47771165 Score: 177
Period size: 49 Copynumber: 5.1 Consensus size: 49
47770906 TTGCAATAAA
* ** *
47770916 TAATAAAATGACCTTACTCCCAGACGCATGGAGGAAGGCTTACAGAAGG
1 TAATAAAGTGACCTTACTCCCAGACATATGGAGGAAGGCTTATAGAAGG
* * * *
47770965 TAATAAAGTGACCTTGCTCCCTA-ACATATGGGGGAAGGCTTATGGAAAG
1 TAATAAAGTGACCTTACTCCC-AGACATATGGAGGAAGGCTTATAGAAGG
* * * * *
47771014 CAATAAACCG-GACC-TACTCCCAGACTTATGGGGGGACGCTTATAGAAGG
1 TAATAAA--GTGACCTTACTCCCAGACATATGGAGGAAGGCTTATAGAAGG
* * * * * *
47771063 TAATAAAGTGACCTTGCTTCCAAACACAT-GAGGGAAGGCTTATGGAAAG
1 TAATAAAGTGACCTTACTCCCAGACATATGGA-GGAAGGCTTATAGAAGG
* * * * * * * *
47771112 CAATAAATTGGCCCTACTCCTAGACGTATGG-GGGAGGCTTACAGAAGG
1 TAATAAAGTGACCTTACTCCCAGACATATGGAGGAAGGCTTATAGAAGG
*
47771160 TGATAA
1 TAATAA
47771166 TGTGGCCCTA
Statistics
Matches: 151, Mismatches: 42, Indels: 17
0.72 0.20 0.08
Matches are distributed among these distances:
47 1 0.01
48 23 0.15
49 120 0.79
50 6 0.04
51 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (49 bp):
TAATAAAGTGACCTTACTCCCAGACATATGGAGGAAGGCTTATAGAAGG
Found at i:47771069 original size:98 final size:98
Alignment explanation
Indices: 47770925--47771165 Score: 331
Period size: 98 Copynumber: 2.5 Consensus size: 98
47770915 ATAATAAAAT
* * * *
47770925 GACCTTACTCCCAGACGCATGGAGGAAGGCTTACAGAAGGTAATAAAGTGACCTTGCTCCCTAAC
1 GACC-TACTCCCAGACGTATGGGGGGAGGCTTACAGAAGGTAATAAAGTGACCTTGCTCCCAAAC
* *
47770990 ATATGGGGGAAGGCTTATGGAAAGCAATAAACCG
65 ACATGAGGGAAGGCTTATGGAAAGCAATAAACCG
* * * *
47771024 GACCTACTCCCAGACTTATGGGGGGACGCTTATAGAAGGTAATAAAGTGACCTTGCTTCCAAACA
1 GACCTACTCCCAGACGTATGGGGGGAGGCTTACAGAAGGTAATAAAGTGACCTTGCTCCCAAACA
**
47771089 CATGAGGGAAGGCTTATGGAAAGCAATAAATTG
66 CATGAGGGAAGGCTTATGGAAAGCAATAAACCG
* * *
47771122 GCCCTACTCCTAGACGTAT-GGGGGAGGCTTACAGAAGGTGATAA
1 GACCTACTCCCAGACGTATGGGGGGAGGCTTACAGAAGGTAATAA
47771166 TGTGGCCCTA
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
97 22 0.18
98 98 0.79
99 4 0.03
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (98 bp):
GACCTACTCCCAGACGTATGGGGGGAGGCTTACAGAAGGTAATAAAGTGACCTTGCTCCCAAACA
CATGAGGGAAGGCTTATGGAAAGCAATAAACCG
Found at i:47771421 original size:53 final size:53
Alignment explanation
Indices: 47771290--47771462 Score: 143
Period size: 53 Copynumber: 3.2 Consensus size: 53
47771280 TGATGCACGA
* ** ** * *
47771290 GGGAGGCTTAAGGGCAAGGTTTAATGATAATATCTC-CACTCCCAAACACATAGG
1 GGGAGGCTTACGAACAAGGTTTAACAATAATATC-CATACTCTCAAACACAT-GG
* * *** * *
47771344 GGTAGGCTTACGGATGGGGTTTAACAATAATGTCCTTACTCTCAAACACATGG
1 GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATACTCTCAAACACATGG
* *
47771397 GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATGCT-TCCAAACGCATGG
1 GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATACTCT-CAAACACATGG
*
47771450 GGGAAGACTTACG
1 GGG-AGGCTTACG
47771463 GTAAGAAATC
Statistics
Matches: 95, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
52 1 0.01
53 48 0.51
54 46 0.48
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.24
Consensus pattern (53 bp):
GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATACTCTCAAACACATGG
Found at i:47781280 original size:50 final size:50
Alignment explanation
Indices: 47781226--47781851 Score: 276
Period size: 50 Copynumber: 12.7 Consensus size: 50
47781216 TGCAATGTCG
*
47781226 GGGAAGTAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACTGCTA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
* * ** * * *
47781276 GGGAAGTAAGATTC-GTCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TCG
1 GGGAAGTAAGATTCACT-GTTGTGGCTTCAATCTGTTCCACTGCACTGCT-A
* * * * * * * *
47781326 GGGAAGCAAGATTCACCGTTATAGCTTCAATCTATTCCACCGCACCGCCA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
* ** *
47781376 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TT----TTAATTG-TA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
** ** * * ** * * * *
47781420 ATG-TCTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATG-TC
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
* * ** * * *
47781468 GGACAAGCAAGATT-TGTCGTTATAGCTTCAATCTGCTCCACTGCACTGCTA
1 GG-GAAGTAAGATTCACT-GTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
* * ** * * *
47781519 GGGAAGTAAGATTCACTGTTTTGGCTTCAATCTTTTTAATTGCAATGAC-G
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTG-CTA
* * * * * * **
47781569 GGGAAGCAATATTCACCGTTGTAGCTTAAATCTGTTCCACTACACTATTA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
* * ** * * *
47781619 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATG-TCG
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCT-A
* ** * * * *
47781669 GGGAAGCAAGATTTGCTGCTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
* ** * * * *
47781719 GGGAAGTAAGATTC-GTCGTTGTGGCTTCAATCT-TTTTAGTTGTAATG-TCG
1 GGGAAGTAAGATTCACT-GTTGTGGCTTCAATCTGTTCCA-CTGCACTGCT-A
* ** ** * * * * *
47781769 GGGAAGGAAGATTCGTTGTTGTAACTTCAATCTATTGCACTGTACCGCCA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
**
47781819 GGGAAGTAAGATTTTCTGTTGTGGCTTCAATCT
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCT
47781852 TTTTAATTGA
Statistics
Matches: 410, Mismatches: 142, Indels: 48
0.68 0.24 0.08
Matches are distributed among these distances:
43 27 0.07
44 4 0.01
45 2 0.00
48 5 0.01
49 9 0.02
50 354 0.86
51 9 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (50 bp):
GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTA
Found at i:47781337 original size:100 final size:100
Alignment explanation
Indices: 47781211--47781424 Score: 329
Period size: 100 Copynumber: 2.1 Consensus size: 100
47781201 TTCAGTCTAA
* * * * * * * *
47781211 TTAACTGCAATGTCGGGGAAGTAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACTGCTA
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTATTCCACCGCACCGCCA
**
47781276 GGGAAGTAAGATTCGTCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
47781311 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTATTCCACCGCACCGCCA
1 TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTATTCCACCGCACCGCCA
47781376 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
66 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
*
47781411 TTAATTGTAATGTC
1 TTAATTGCAATGTC
47781425 TAAGATTCAC
Statistics
Matches: 103, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 103 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (100 bp):
TTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAATCTATTCCACCGCACCGCCA
GGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTT
Found at i:47781403 original size:150 final size:150
Alignment explanation
Indices: 47781226--47781851 Score: 521
Period size: 150 Copynumber: 4.2 Consensus size: 150
47781216 TGCAATGTCG
* *
47781226 GGGAAGTAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGATTCG
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGATTCA
* *
47781291 TCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAA
*
47781356 TCTATTCCACCGCACCGCCA
131 TCTATTCCACTGCACCGCCA
* ** * ** **
47781376 GGGAAGTAAGATTCACCGTTGTGGCTTCAATCT-TT----TTAATTG-TAATG-TCTAAGATTCA
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGATTCA
** ***
47781434 CCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGACAAGCAAGATTTGTCGTTATAGCTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAA
** * *
47781499 TCTGCTCCACTGCACTGCTA
131 TCTATTCCACTGCACCGCCA
* * ** * * * * *
47781519 GGGAAGTAAGATTCACTGTTTTGGCTTCAATCTTTTTAATTGCAATGAC-GGGGAAGCAATATTC
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTG-CTAGGGAAGTAAGATTC
* * * ** * * * ** * * *
47781583 ACCGTTGTAGCTTAAATCTGTTCCACTACACTATTAGGGAAGTAAGATTCACCGTTGTGGCTTCA
65 ACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCA
* ** * ** * *
47781648 ATCTTTTTAATTGCAATGTCG
130 ATCTATTCCACTGCACCGCCA
* ** * * * * *
47781669 GGGAAGCAAGATTTGCTGCTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCG
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGATTCA
* * ** * *** * *
47781734 TCGTTGTGGCTTCAATCTTTTTAGTTGTAATGTCGGGGAAGGAAGATTCGTTGTTGTAACTTCAA
66 CCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAA
* *
47781799 TCTATTGCACTGTACCGCCA
131 TCTATTCCACTGCACCGCCA
**
47781819 GGGAAGTAAGATTTTCTGTTGTGGCTTCAATCT
1 GGGAAGTAAGATTCACTGTTGTGGCTTCAATCT
47781852 TTTTAATTGA
Statistics
Matches: 357, Mismatches: 110, Indels: 18
0.74 0.23 0.04
Matches are distributed among these distances:
143 112 0.31
144 5 0.01
145 4 0.01
148 4 0.01
149 4 0.01
150 228 0.64
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (150 bp):
GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTGTTCCACTGCACTGCTAGGGAAGTAAGATTCA
CCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTCACCGTTATAGCTTCAA
TCTATTCCACTGCACCGCCA
Found at i:47781465 original size:143 final size:143
Alignment explanation
Indices: 47781282--47781565 Score: 424
Period size: 143 Copynumber: 2.0 Consensus size: 143
47781272 GCTAGGGAAG
** * **
47781282 TAAGATTCGTCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCACCGTTA
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGACAAGCAAGATTCACCGTTA
*
47781347 TAGCTTCAATCTATTCCACCGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
66 TAGCTTCAATCTACTCCACCGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
*
47781412 TAATTGTAATGTC
131 TAATTGCAATGTC
***
47781425 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGACAAGCAAGATTTGTCGTTA
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGACAAGCAAGATTCACCGTTA
* * * * * *
47781490 TAGCTTCAATCTGCTCCACTGCACTGCTAGGGAAGTAAGATTCACTGTTTTGGCTTCAATCTTTT
66 TAGCTTCAATCTACTCCACCGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
47781555 TAATTGCAATG
131 TAATTGCAATG
47781566 ACGGGGAAGC
Statistics
Matches: 125, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
143 125 1.00
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (143 bp):
TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGACAAGCAAGATTCACCGTTA
TAGCTTCAATCTACTCCACCGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTT
TAATTGCAATGTC
Found at i:47781466 original size:43 final size:43
Alignment explanation
Indices: 47781382--47781467 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
47781372 GCCAGGGAAG
**
47781382 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGTAATGTC
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTC
47781425 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTC
1 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTC
47781468 GGACAAGCAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.43
Consensus pattern (43 bp):
TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTC
Found at i:47781552 original size:100 final size:100
Alignment explanation
Indices: 47781425--47781910 Score: 589
Period size: 100 Copynumber: 4.9 Consensus size: 100
47781415 TTGTAATGTC
* * ** * * *
47781425 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGACAAGCAAGATTTGTCGTTA
1 TAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * *
47781490 TAGCTTCAATCTGCTCCACTGCACTGCTAGGGAAG
66 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG
* * * *
47781525 TAAGATTCACTGTTTTGGCTTCAATCTTTTTAATTGCAATGACGGGGAAGCAATATTCACCGTTG
1 TAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
* * ****
47781590 TAGCTTAAATCTGTTCCACTACACTATTAGGGAAG
66 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG
* * * *
47781625 TAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTTGCTGCTG
1 TAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
47781690 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG
66 TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG
* * * * **
47781725 TAAGATTC-GTCGTTGTGGCTTCAATCTTTTTAGTTGTAATGTCGGGGAAGGAAGATTCGTTGTT
1 TAAGATTCACT-GTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTT
* * * *
47781789 GTAACTTCAATCTATTGCACTGTACCGCCAGGGAAG
65 GTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG
** *
47781825 TAAGATTTTCTGTTGTGGCTTCAATCTTTTTAATTGAAATGT-GGAGGAAGCAAGATTCGCCGTT
1 TAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGG-GGAAGCAAGATTCGCCGTT
* *
47781889 TTAGCTTTAATCTGTTCCACTG
65 GTAGCTTCAATCTGTTCCACTG
47781911 TAATGCCAAA
Statistics
Matches: 329, Mismatches: 54, Indels: 6
0.85 0.14 0.02
Matches are distributed among these distances:
99 2 0.01
100 326 0.99
101 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (100 bp):
TAAGATTCACTGTTGTGGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGCAAGATTCGCCGTTG
TAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAG
Found at i:47782226 original size:15 final size:15
Alignment explanation
Indices: 47782186--47782226 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
47782176 TAACTAGATG
47782186 TGTATGAATGATATT
1 TGTATGAATGATATT
*
47782201 TGCATTGAATGATATT
1 TGTA-TGAATGATATT
47782217 TGTATGAATG
1 TGTATGAATG
47782227 CAGAATGTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.32, C:0.02, G:0.22, T:0.44
Consensus pattern (15 bp):
TGTATGAATGATATT
Found at i:47782991 original size:18 final size:17
Alignment explanation
Indices: 47782964--47783050 Score: 59
Period size: 18 Copynumber: 4.9 Consensus size: 17
47782954 CTTTAATTTC
* *
47782964 TTTTTCTTTTTTTCTTA
1 TTTTTATTTTTTTTTTA
*
47782981 TTTTTATTTTTCTTTTCA
1 TTTTTATTTTT-TTTTTA
**
47782999 TTTTCCTTTTTCTTTTTA
1 TTTTTATTTTT-TTTTTA
* *
47783017 TTTTCTCTTTTATTTTTTC
1 TTTT-TATTTT-TTTTTTA
47783036 TTTTT-TTATTTTTTT
1 TTTTTATT-TTTTTTT
47783051 GGAATATTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
17 17 0.29
18 26 0.45
19 14 0.24
20 1 0.02
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTATTTTTTTTTTA
Found at i:47783009 original size:7 final size:6
Alignment explanation
Indices: 47782960--47783040 Score: 69
Period size: 6 Copynumber: 13.5 Consensus size: 6
47782950 TCTCCTTTAA
* * * *
47782960 TTTCTT TTTCTT TTT-TT CTTATT TTTATT TTTC-T TTTCATT TTCCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTC-TT TTTCTT
*
47783007 TTTCTT TTTATT TTCTCTT TTAT-TT TTTCTT TTT
1 TTTCTT TTTCTT TT-TCTT TT-TCTT TTTCTT TTT
47783041 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
5 10 0.16
6 42 0.68
7 10 0.16
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:47783485 original size:1 final size:1
Alignment explanation
Indices: 47783479--47783530 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
47783469 AGGCAAAGGG
* * * * * *
47783479 TTTTTTTCTTTTTTTTGTTTGTTTTTTTATTTGTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
47783531 GCCTCCACTG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.02, C:0.02, G:0.08, T:0.88
Consensus pattern (1 bp):
T
Found at i:47783503 original size:12 final size:12
Alignment explanation
Indices: 47783488--47783531 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
47783478 GTTTTTTTCT
47783488 TTTTTTTGTTTG
1 TTTTTTTGTTTG
*
47783500 TTTTTTTATTTG
1 TTTTTTTGTTTG
*
47783512 TTTTTTTGTTTT
1 TTTTTTTGTTTG
47783524 TTTTTTTG
1 TTTTTTTG
47783532 CCTCCACTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.86
Consensus pattern (12 bp):
TTTTTTTGTTTG
Found at i:47786276 original size:24 final size:25
Alignment explanation
Indices: 47786249--47786301 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
47786239 GGCTCTTTCG
*
47786249 TGAAATTTAATGCAAATG-ATGCAA
1 TGAAATGTAATGCAAATGAATGCAA
* *
47786273 TGAAATGTAATGCAGATGAATGGAA
1 TGAAATGTAATGCAAATGAATGCAA
47786298 TGAA
1 TGAA
47786302 TGCAAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.45, C:0.06, G:0.23, T:0.26
Consensus pattern (25 bp):
TGAAATGTAATGCAAATGAATGCAA
Found at i:47793295 original size:13 final size:13
Alignment explanation
Indices: 47793277--47793340 Score: 110
Period size: 13 Copynumber: 4.9 Consensus size: 13
47793267 AGTTCTTCAT
47793277 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
47793290 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
* *
47793303 TACTTTTCAGAAG
1 TGCTTTTGAGAAG
47793316 TGCTTTTGAGAAG
1 TGCTTTTGAGAAG
47793329 TGCTTTTGAGAA
1 TGCTTTTGAGAA
47793341 ATTTGAGTGT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 47 1.00
ACGTcount: A:0.25, C:0.09, G:0.27, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAGAAG
Found at i:47793625 original size:21 final size:21
Alignment explanation
Indices: 47793599--47793638 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
47793589 TAAACTATAT
47793599 TTAAATATTTA-AATATAAAAA
1 TTAAATATTTATAAT-TAAAAA
47793620 TTAAATATTTATAATTAAA
1 TTAAATATTTATAATTAAA
47793639 TATTGACACG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TTAAATATTTATAATTAAAAA
Found at i:47793981 original size:22 final size:22
Alignment explanation
Indices: 47793956--47794072 Score: 66
Period size: 22 Copynumber: 5.3 Consensus size: 22
47793946 TCAATAAATG
47793956 ATTTGATTAATACAATACTTAT
1 ATTTGATTAATACAATACTTAT
* **
47793978 ATTTGA-TAA-GCATATGA-AAAT
1 ATTTGATTAATACA-AT-ACTTAT
*
47793999 AATTTGATTAATATAATACTTAT
1 -ATTTGATTAATACAATACTTAT
* **
47794022 ATTTGA-TAA-GCATATGA-AAAT
1 ATTTGATTAATACA-AT-ACTTAT
*
47794043 AATTTGATTAATATAATACTTAT
1 -ATTTGATTAATACAATACTTAT
47794066 ATTTGAT
1 ATTTGAT
47794073 AAGCATATGA
Statistics
Matches: 68, Mismatches: 15, Indels: 24
0.64 0.14 0.22
Matches are distributed among these distances:
20 3 0.04
21 14 0.21
22 35 0.51
23 14 0.21
24 2 0.03
ACGTcount: A:0.44, C:0.05, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTGATTAATACAATACTTAT
Found at i:47793982 original size:44 final size:43
Alignment explanation
Indices: 47793951--47794086 Score: 227
Period size: 44 Copynumber: 3.1 Consensus size: 43
47793941 TATATTCAAT
* *
47793951 AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
1 AAATAATTTGATTAATATAATACTTATATTTGATAAGCATAT-A
47793995 AAATAATTTGATTAATATAATACTTATATTTGATAAGCATATGA
1 AAATAATTTGATTAATATAATACTTATATTTGATAAGCATAT-A
47794039 AAATAATTTGATTAATATAATACTTATATTTGATAAGCATATGA
1 AAATAATTTGATTAATATAATACTTATATTTGATAAGCATAT-A
47794083 AAAT
1 AAAT
47794087 GAAAGTCGAG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 90 1.00
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.40
Consensus pattern (43 bp):
AAATAATTTGATTAATATAATACTTATATTTGATAAGCATATA
Found at i:47795071 original size:12 final size:12
Alignment explanation
Indices: 47795054--47795078 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47795044 CTCTATACCT
47795054 CAAAAACTAAAG
1 CAAAAACTAAAG
47795066 CAAAAACTAAAG
1 CAAAAACTAAAG
47795078 C
1 C
47795079 TGATATACTT
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:0.64, C:0.20, G:0.08, T:0.08
Consensus pattern (12 bp):
CAAAAACTAAAG
Found at i:47798511 original size:13 final size:13
Alignment explanation
Indices: 47798493--47798517 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47798483 CCGCATAAAT
47798493 AAATATAAATTCC
1 AAATATAAATTCC
47798506 AAATATAAATTC
1 AAATATAAATTC
47798518 AAAGTCCAAT
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:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (13 bp):
AAATATAAATTCC
Found at i:47800675 original size:23 final size:23
Alignment explanation
Indices: 47800632--47800685 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
47800622 TATAATTTTT
* * *
47800632 TTTTAAATATCTTCATCTCTATA
1 TTTTATATATCTTCAACTCTACA
47800655 TTTTATATAT-TTCAACTTCTACA
1 TTTTATATATCTTCAAC-TCTACA
*
47800678 TATTATAT
1 TTTTATAT
47800686 TACTTGTCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 5 0.19
23 21 0.81
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (23 bp):
TTTTATATATCTTCAACTCTACA
Found at i:47800765 original size:270 final size:266
Alignment explanation
Indices: 47800271--47800806 Score: 982
Period size: 270 Copynumber: 2.0 Consensus size: 266
47800261 TAATATTTTC
*
47800271 ATTCCATAATATGTTCTCTTTAATTTCACTCATTATATTTTTATATAAAAGTATTTTTTAGCATG
1 ATTCCATAATATGTTCTCTTTAATTTCACTCATTATATTTTTATATAAAAATATTTTTTAGCATG
47800336 ATATTATCATATACATGTATATAATTTTTTTTAAATATCTTCATCTATATTTTATATATTTCAAC
66 ATATTATCATATACATGTATATAATTTTTTTTAAATATCTTCATCTATATTTTATATATTTCAAC
47800401 TTCTACATATTATATTACTTGTCATTATTTATATTGAATTTTCATCTTATGCGTACTACTTGTAA
131 TTCTACATATTATATTACTTGTCATTATTTATATTGAATTTTCATCTTATGCGTACTACTTGTAA
* *
47800466 ACTAATAAATGTCTATTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATTATCA
196 ACTAATAAATGTATATTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATCATCA
47800531 TTTTAT
261 TTTTAT
47800537 ATTCCATAATATGTTCTTCTTTAATTTCACTCATTATATTTTTATATAAAAATATTTTTTAGCAT
1 ATTCCATAATATGTTC-TCTTTAATTTCACTCATTATATTTTTATATAAAAATATTTTTTAGCAT
*
47800602 GATATTATCGTATACATGTATATAATTTTTTTTTAAATATCTTCATCTCTATATTTTATATATTT
65 GATATTATCATATACATGTATATAA-TTTTTTTTAAATATCTTCA--TCTATATTTTATATATTT
47800667 CAACTTCTACATATTATATTACTTGTCATTATTTATATTGAATTTTCATCTTATGCGTACTACTT
127 CAACTTCTACATATTATATTACTTGTCATTATTTATATTGAATTTTCATCTTATGCGTACTACTT
* *
47800732 GTAAATTAATAAATGTATGTTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATC
192 GTAAACTAATAAATGTATATTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATC
47800797 ATCATTTTAT
257 ATCATTTTAT
47800807 GTCAAGTTTA
Statistics
Matches: 260, Mismatches: 6, Indels: 4
0.96 0.02 0.01
Matches are distributed among these distances:
266 16 0.06
267 71 0.27
268 19 0.07
270 154 0.59
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.51
Consensus pattern (266 bp):
ATTCCATAATATGTTCTCTTTAATTTCACTCATTATATTTTTATATAAAAATATTTTTTAGCATG
ATATTATCATATACATGTATATAATTTTTTTTAAATATCTTCATCTATATTTTATATATTTCAAC
TTCTACATATTATATTACTTGTCATTATTTATATTGAATTTTCATCTTATGCGTACTACTTGTAA
ACTAATAAATGTATATTAGTTGTTACGAATTCATTTCAAAATATTGTTCTATAATGTTATCATCA
TTTTAT
Found at i:47809476 original size:18 final size:18
Alignment explanation
Indices: 47809453--47809487 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
47809443 ATAATCTGAC
* *
47809453 TCATAATAGTATATAAAA
1 TCATAAAAGAATATAAAA
47809471 TCATAAAAGAATATAAA
1 TCATAAAAGAATATAAA
47809488 CATTATATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (18 bp):
TCATAAAAGAATATAAAA
Found at i:47811913 original size:22 final size:22
Alignment explanation
Indices: 47811870--47811918 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
47811860 ATTCAAATTG
* *
47811870 AATTGAATTTAAATTTATTTTT
1 AATTTAATTTAAATTGATTTTT
*
47811892 TATTTAATTTATAATTGA-TTTT
1 AATTTAATTTA-AATTGATTTTT
47811914 AATTT
1 AATTT
47811919 TTAATAATGT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (22 bp):
AATTTAATTTAAATTGATTTTT
Found at i:47813816 original size:55 final size:55
Alignment explanation
Indices: 47813749--47813859 Score: 213
Period size: 55 Copynumber: 2.0 Consensus size: 55
47813739 CATAGATGAC
47813749 AAAGCACCAAAGATAAGCGAATGCATAAGTCAGTTAAATTGGTATTAACCTACCA
1 AAAGCACCAAAGATAAGCGAATGCATAAGTCAGTTAAATTGGTATTAACCTACCA
*
47813804 AAAGCGCCAAAGATAAGCGAATGCATAAGTCAGTTAAATTGGTATTAACCTACCA
1 AAAGCACCAAAGATAAGCGAATGCATAAGTCAGTTAAATTGGTATTAACCTACCA
47813859 A
1 A
47813860 TTTGATTAAG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.22
Consensus pattern (55 bp):
AAAGCACCAAAGATAAGCGAATGCATAAGTCAGTTAAATTGGTATTAACCTACCA
Found at i:47814127 original size:89 final size:89
Alignment explanation
Indices: 47813976--47814541 Score: 738
Period size: 89 Copynumber: 6.4 Consensus size: 89
47813966 GATTCAATTT
* * *
47813976 TGTACTGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCACTGGGTTTGCAGTGGAGCAGAC
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
47814041 TGAAGATAGCAGATCTTGCCTTCC
66 TGAAGATAGCAGATCTTGCCTTCC
* * * * *
47814065 TGTACTGACAGCGAAACAGATCGAAGACACCGGCCTTGCCTCTCTGGGTTTGTAGTGGAGCAGAC
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
47814130 TGAAGATAGCAGATCTTGCCTTCC
66 TGAAGATAGCAGATCTTGCCTTCC
* * * * *
47814154 TGTATTGACAGCGAAGGAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTTGCAGCGAAACAGAC
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
*
47814219 TGAAGATAGCAGATCTTGCCTTCT
66 TGAAGATAGCAGATCTTGCCTTCC
* * * * * *
47814243 TGTATTGACAGCGAAGCAGATCAAAGACACTAGTCTTGCCTCCCTAGGTTTGCAGCGGAGCAAAC
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
47814308 TGAAGATAGCAGATCTTGCCTTCC
66 TGAAGATAGCAGATCTTGCCTTCC
* * * *
47814332 TGTATTGACAACAAAGCAGATCGAAGACACCAGCCTTGCCTCACTGGGTTTGCAGCGGAGCAGAC
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
* *
47814397 TGAAAATAACAGATCTTGCCTTCC
66 TGAAGATAGCAGATCTTGCCTTCC
** * ** **** * * **
47814421 TGTACTGACAATGAAGCAGATCGAGGACACCAGCCTTATCTCCCT-GACCAGCAGTGGAGTAGGT
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
*
47814485 TGAAAATAGCAGATCTTGCCTTCC
66 TGAAGATAGCAGATCTTGCCTTCC
* * *
47814509 TGTACTGGCAGCGAAGTAGATCGAAGACGCCAG
1 TGTACTGACAGCGAAGCAGATCGAAGACACCAG
47814542 TCTTATTACC
Statistics
Matches: 423, Mismatches: 54, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
88 61 0.14
89 362 0.86
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (89 bp):
TGTACTGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTTGCAGCGGAGCAGAC
TGAAGATAGCAGATCTTGCCTTCC
Found at i:47814850 original size:132 final size:132
Alignment explanation
Indices: 47814611--47814973 Score: 541
Period size: 132 Copynumber: 2.8 Consensus size: 132
47814601 CGCTAGCGGT
47814611 GTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTA-GGAAGCAGATTTAAGC
1 GTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
* *
47814675 CACTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCCTGTCTCCCAAAG
66 CACTAGTCCTAACTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCAAAG
47814740 CA
131 CA
*
47814742 GTAGTGGAGCAGATTGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
1 GTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
* * *
47814807 CGCTGGTCCTAACTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCTAAG
66 CACTAGTCCTAACTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCAAAG
47814872 CA
131 CA
* ** * * * *
47814874 GTAGGGGAGCAGATCGAAGACGACGATTCTTATCTTCCCAAAGTAGTAGGGAAGTAGATTTAATC
1 GTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
* * **
47814939 CAATAATCCT-ACTTCCCTGATGTTGCAGTGGAGTA
66 CACTAGTCCTAAC-TCCCTGA-GCAGCAGTGGAGTA
47814974 AGTCGAAAGA
Statistics
Matches: 209, Mismatches: 20, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
131 49 0.23
132 148 0.71
133 12 0.06
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (132 bp):
GTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAAGC
CACTAGTCCTAACTCCCTGAGCAGCAGTGGAGTAGGTTAAAGATTGTAGATCCTGTCTCCCAAAG
CA
Found at i:47827671 original size:52 final size:52
Alignment explanation
Indices: 47827600--47827703 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
47827590 AAAATGGCAT
47827600 GAAAAAAGAAGAAAAGGGAAGTAGATGATGAAATGAAGCAAGTTGAAAATGC
1 GAAAAAAGAAGAAAAGGGAAGTAGATGATGAAATGAAGCAAGTTGAAAATGC
47827652 GAAAAAAGAAGAAAAGGGAAGTAGATGATGAAATGAAGCAAGTTGAAAATGC
1 GAAAAAAGAAGAAAAGGGAAGTAGATGATGAAATGAAGCAAGTTGAAAATGC
47827704 CCAAAAGAGA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.54, C:0.04, G:0.29, T:0.13
Consensus pattern (52 bp):
GAAAAAAGAAGAAAAGGGAAGTAGATGATGAAATGAAGCAAGTTGAAAATGC
Found at i:47849931 original size:40 final size:41
Alignment explanation
Indices: 47849878--47850008 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 41
47849868 TTACTTTCAC
*
47849878 GTTGCTTCCTTTTTTTTTGAGCCTAGATGTTGCTTTCCCAA
1 GTTGCTTCCTTTTTTTTTGAGCATAGATGTTGCTTTCCCAA
* * * *
47849919 GTTGCTT--TTTTTTGTCTGAACTTAGATGTTGTTTTCCCAA
1 GTTGCTTCCTTTTTT-TTTGAGCATAGATGTTGCTTTCCCAA
* ** * *
47849959 GTTGCTTCCTTTTTTGTCCAGACATGGATGTTGCTTTCCCAT
1 GTTGCTTCCTTTTTTTTTGAG-CATAGATGTTGCTTTCCCAA
47850001 GTTGCTTC
1 GTTGCTTC
47850009 ATTGATATTT
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
39 6 0.08
40 29 0.40
41 8 0.11
42 30 0.41
ACGTcount: A:0.12, C:0.21, G:0.18, T:0.49
Consensus pattern (41 bp):
GTTGCTTCCTTTTTTTTTGAGCATAGATGTTGCTTTCCCAA
Done.