Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 146 of 279
Found at i:47563213 original size:40 final size:39
Alignment explanation
Indices: 47563182--47563391 Score: 233
Period size: 40 Copynumber: 5.3 Consensus size: 39
47563172 GGACTAAGAT
* *
47563182 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
47563222 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
47563262 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* ** *
47563302 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGAT-ACAAATCCGGGTTAAGTC
* * * * *
47563342 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
47563381 CCGAAGGCATT
1 CCGAAGGCATT
47563392 TGAACGAGGA
Statistics
Matches: 153, Mismatches: 13, Indels: 9
0.87 0.07 0.05
Matches are distributed among these distances:
39 33 0.22
40 117 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:47563345 original size:120 final size:120
Alignment explanation
Indices: 47563129--47563391 Score: 300
Period size: 120 Copynumber: 2.2 Consensus size: 120
47563119 TTGAATGCTG
* *
47563129 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
47563193 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
47563249 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* ** * * * *
47563312 TCGTGCGAGTTGTTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
47563368 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47563392 TGAACGAGGA
Statistics
Matches: 120, Mismatches: 20, Indels: 7
0.82 0.14 0.05
Matches are distributed among these distances:
119 38 0.32
120 73 0.61
121 9 0.08
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:47563411 original size:79 final size:80
Alignment explanation
Indices: 47563182--47563426 Score: 228
Period size: 80 Copynumber: 3.1 Consensus size: 80
47563172 GGACTAAGAT
* * * * * * * ** *
47563182 CCGAAGGCATTTGTGCGAGATAC-AAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGA-GATAC
1 CCGAAGGCATTCGTGCGAGTTACTAAA-ACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGA-GC
47563245 TAAATCCGGGTTAAGTC
64 TAAATCCGGGTTAAGTC
* * * ** ** *
47563262 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
*
47563327 AATCCGGGTTATGTC
66 AATCCGGGTTAAGTC
* * *
47563342 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTA
1 CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
* *
47563406 TATCC-GGTTAAATC
66 AATCCGGGTTAAGTC
47563420 CCGAAGG
1 CCGAAGG
47563427 TACGTGATTT
Statistics
Matches: 138, Mismatches: 25, Indels: 6
0.82 0.15 0.04
Matches are distributed among these distances:
78 14 0.10
79 46 0.33
80 75 0.54
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAACGAGGAGCTA
AATCCGGGTTAAGTC
Found at i:47567349 original size:29 final size:29
Alignment explanation
Indices: 47567317--47567372 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
47567307 AAGGCCGTTT
47567317 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
47567346 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
47567373 ATTTTCCGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:47567455 original size:47 final size:47
Alignment explanation
Indices: 47567386--47567479 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
47567376 TTCCGCGAAA
*
47567386 TCGCGTCCACGTCAGCGAGATGTCAGGGTATGCGCAGGAAATCGCGT
1 TCGCGTCCACGTCAGCGAGATGTCAGGGTACGCGCAGGAAATCGCGT
*
47567433 TCGCGTCCACGTCAGCGCGATGTCAGGGTACGCGCAGGAAATCGCGT
1 TCGCGTCCACGTCAGCGAGATGTCAGGGTACGCGCAGGAAATCGCGT
47567480 CCACGTCAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.20, C:0.28, G:0.34, T:0.18
Consensus pattern (47 bp):
TCGCGTCCACGTCAGCGAGATGTCAGGGTACGCGCAGGAAATCGCGT
Found at i:47567490 original size:41 final size:41
Alignment explanation
Indices: 47567382--47567494 Score: 154
Period size: 47 Copynumber: 2.6 Consensus size: 41
47567372 CATTTTCCGC
* *
47567382 GAAATCGCGTCCACGTCAGCGAGATGTCAGGGTATGCGCAG
1 GAAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGCGCAG
47567423 GAAATCGCGTTCGCGTCCACGTCAGCGCGATGTCAGGGTACGCGCAG
1 GAAA------TCGCGTCCACGTCAGCGCGATGTCAGGGTACGCGCAG
47567470 GAAATCGCGTCCACGTCAGCGCGAT
1 GAAATCGCGTCCACGTCAGCGCGAT
47567495 TTGCTGACGT
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
41 25 0.39
47 39 0.61
ACGTcount: A:0.22, C:0.28, G:0.33, T:0.17
Consensus pattern (41 bp):
GAAATCGCGTCCACGTCAGCGCGATGTCAGGGTACGCGCAG
Found at i:47569957 original size:21 final size:21
Alignment explanation
Indices: 47569913--47569958 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47569903 AAAATATATT
*
47569913 TTAAATATTTAAATATAACCA
1 TTAAATATTTAAATATAAACA
*
47569934 TTAAATATTTATAAT-TAAATA
1 TTAAATATTTA-AATATAAACA
47569955 TTAA
1 TTAA
47569959 CACATTTGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAATATTTAAATATAAACA
Found at i:47576941 original size:30 final size:30
Alignment explanation
Indices: 47576888--47576944 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
47576878 CTGCAGAAGA
* * **
47576888 AGAAGAAACAGCTGTTGTTGAACAAGAACG
1 AGAAGAAACAACTGTCGCCGAACAAGAACG
47576918 AGAAGAAACAACTGTCGCCGAACAAGA
1 AGAAGAAACAACTGTCGCCGAACAAGA
47576945 GTCTGTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.12
Consensus pattern (30 bp):
AGAAGAAACAACTGTCGCCGAACAAGAACG
Found at i:47578287 original size:23 final size:24
Alignment explanation
Indices: 47578261--47578313 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
47578251 CTCTTCATGT
47578261 ATTCATTATGA-GA-CCCATGGTTC
1 ATTCATT-TGACGATCCCATGGTTC
*
47578284 ATTC-TTTTACGATCCCATGGTTC
1 ATTCATTTGACGATCCCATGGTTC
47578307 ATTCATT
1 ATTCATT
47578314 GAGTTTTCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
21 2 0.08
22 4 0.15
23 18 0.69
24 2 0.08
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.42
Consensus pattern (24 bp):
ATTCATTTGACGATCCCATGGTTC
Found at i:47583404 original size:25 final size:24
Alignment explanation
Indices: 47583374--47583420 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
47583364 AATAATAATA
47583374 ATAATAAAGATAATA-AAATGAAAAC
1 ATAATAAAGA-AATAGAAA-GAAAAC
47583399 ATAATAAAGAAATAGAAAGAAA
1 ATAATAAAGAAATAGAAAGAAA
47583421 GATGAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 8 0.38
25 13 0.62
ACGTcount: A:0.70, C:0.02, G:0.11, T:0.17
Consensus pattern (24 bp):
ATAATAAAGAAATAGAAAGAAAAC
Found at i:47584643 original size:43 final size:43
Alignment explanation
Indices: 47584579--47584664 Score: 127
Period size: 43 Copynumber: 2.0 Consensus size: 43
47584569 TATGTGATTG
* * *
47584579 ATATTGAAATGGCAAAGATGAGAAATGAATATTAGATGAGAAA
1 ATATTGAAAAGGCAAAGATGAGAAATGAATATGAGACGAGAAA
* *
47584622 ATATTGAAAAGGCAAATATGAGAAATGATTATGAGACGAGAAA
1 ATATTGAAAAGGCAAAGATGAGAAATGAATATGAGACGAGAAA
47584665 TGAAATATGA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.51, C:0.03, G:0.23, T:0.22
Consensus pattern (43 bp):
ATATTGAAAAGGCAAAGATGAGAAATGAATATGAGACGAGAAA
Found at i:47586012 original size:49 final size:49
Alignment explanation
Indices: 47585940--47586036 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
47585930 TCAAGAAAGG
* * *
47585940 ATAAATAGTGATAAGAGTGTAGACAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATGT
47585989 ATAAATA-TAGATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATG
1 ATAAATAGT-GATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATG
47586037 CATAGCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.44, C:0.06, G:0.25, T:0.25
Consensus pattern (49 bp):
ATAAATAGTGATAAGAGTATAGACAGTGGAAGACCAAGTTTAGAAATGT
Found at i:47586395 original size:28 final size:27
Alignment explanation
Indices: 47586364--47586447 Score: 96
Period size: 28 Copynumber: 3.0 Consensus size: 27
47586354 CCTTGAATTT
* *
47586364 TAAACCTAAAATACTAAACCTTAAACTC
1 TAAATCTAAAAT-CTAAACCTTAAACCC
* **
47586392 TAAATATAAAATCTTAAAAATTAAACCC
1 TAAATCTAAAATC-TAAACCTTAAACCC
47586420 TAAATCTAAAATCTCAAACCTTAAACCC
1 TAAATCTAAAATCT-AAACCTTAAACCC
47586448 CGAACATTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.04
28 44 0.96
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (27 bp):
TAAATCTAAAATCTAAACCTTAAACCC
Found at i:47586396 original size:21 final size:20
Alignment explanation
Indices: 47586363--47586401 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
47586353 ACCTTGAATT
47586363 TTAAACCTAAAATACTAAACC
1 TTAAACCTAAAATA-TAAACC
47586384 TTAAACTCT-AAATATAAA
1 TTAAAC-CTAAAATATAAA
47586402 ATCTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 11 0.65
22 2 0.12
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (20 bp):
TTAAACCTAAAATATAAACC
Found at i:47589109 original size:13 final size:13
Alignment explanation
Indices: 47589091--47589121 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
47589081 TTTGTTTTAG
47589091 AATAATTTTAAAA
1 AATAATTTTAAAA
47589104 AATAATTTTAAAA
1 AATAATTTTAAAA
47589117 AATAA
1 AATAA
47589122 AAAACTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATAATTTTAAAA
Found at i:47590574 original size:7 final size:7
Alignment explanation
Indices: 47590547--47590584 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
47590537 GCTGGAAAAT
47590547 AAAAGA-
1 AAAAGAG
47590553 AAAAGAG
1 AAAAGAG
47590560 AGAAAGAG
1 A-AAAGAG
47590568 AAAAGAG
1 AAAAGAG
*
47590575 AAAGGAG
1 AAAAGAG
47590582 AAA
1 AAA
47590585 GAAAGAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (7 bp):
AAAAGAG
Found at i:47590685 original size:22 final size:22
Alignment explanation
Indices: 47590643--47590685 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
47590633 ATTGTTATTA
*
47590643 TGTTTTTTCGTATATTTTTTAT
1 TGTTTTTTCGTATATTGTTTAT
*
47590665 TGTTTTTTTGT-TATTAGTTTA
1 TGTTTTTTCGTATATT-GTTTA
47590686 GTTATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.14, C:0.02, G:0.12, T:0.72
Consensus pattern (22 bp):
TGTTTTTTCGTATATTGTTTAT
Found at i:47590978 original size:76 final size:80
Alignment explanation
Indices: 47590773--47590980 Score: 212
Period size: 76 Copynumber: 2.6 Consensus size: 80
47590763 GTTTAGTTAT
* * *
47590773 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAATTAATATTATTAGTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAATT-ATATTATTAGTATAGTTAGTTAT
**
47590838 TAGGATTAGTAAAAACTG
65 T--GATTAGTAAAAACCC
* *** *
47590856 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTATATTATTA-T-TAGTTA-TTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAATTATATTATTAGTATAGTTAGTTAT
*
47590917 T-TTTAGT-AAAACCC
65 TGATTAGTAAAAACCC
* *
47590931 TAATTATTATTGTTAGTTAGTATTATTTTTAGTAAAAAACTATTATTATT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAATTA-TATTATT
47590981 GTGTTAGTTA
Statistics
Matches: 104, Mismatches: 18, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
75 21 0.20
76 30 0.29
79 5 0.05
80 5 0.05
81 1 0.01
82 27 0.26
83 15 0.14
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.50
Consensus pattern (80 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAATTATATTATTAGTATAGTTAGTTATT
GATTAGTAAAAACCC
Found at i:47590986 original size:41 final size:41
Alignment explanation
Indices: 47590773--47590993 Score: 155
Period size: 40 Copynumber: 5.6 Consensus size: 41
47590763 GTTTAGTTAT
* * * *
47590773 TAATAATTATTGTTACTTAG-TATTATTGTTAGTAAAAAAT
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
* ***
47590813 TAA-TATTATTAGTATGGTTAGTTATTAGGATTAGT-AAAAAC
1 TAATTATTATT-GT-TAGTTAGTTATTATTTTTAGTAAAAAAC
* * ****
47590854 TGTAATTATTATT-TTAGTTAG-TATGATTGTTAGT-TTTTAC
1 --TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
* **
47590894 --ATTA-TATTATTA-TTAGTTATTATTTTTAGTAAAACCC
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
47590931 TAATTATTATTGTTAGTTAG-TATTATTTTTAGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
47590971 T-ATTATTATTG-T-GTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTTATTA
47590994 GGATTAGTGA
Statistics
Matches: 141, Mismatches: 26, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
35 8 0.06
36 18 0.13
37 6 0.04
38 6 0.04
39 20 0.14
40 42 0.30
41 20 0.14
42 11 0.08
43 3 0.02
44 7 0.05
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (41 bp):
TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
Found at i:47596334 original size:158 final size:158
Alignment explanation
Indices: 47596112--47596689 Score: 853
Period size: 158 Copynumber: 3.7 Consensus size: 158
47596102 ACTTCAAAAC
* * * * * *
47596112 AAATATAGTAAAAACCCCTTATTTTGACCATTTATTCGTATTTTTCATTTTTTCCCGGATTTTAT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTATTCGTATTTTTC-TTTTTTCTCGAATTTTAT
47596177 TACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
65 TACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
47596242 AAATGTATTAATTTAGTGTGTATTTTAAAT
130 AAATGTATTAATTTAGTGTGTATTTT-AAT
*
47596272 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTT-TT-GTATTTTTCTTTTTTCTTGAATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTATTCGTATTTTTCTTTTTTCTCGAATTTTAT
*
47596335 TACTTTTAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
65 TACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
* *
47596400 AAATTTATTAATTTAGTGTGTTTTTTATAT
130 AAATGTATTAATTTAGTGTGTATTTTA-AT
47596430 AAATTTAGTAAAAAAACCCTTATTTTGGCCCTTT-TT-GTATTTTTCTTTTTTCTCGAATTTTAT
1 AAATTTAGT-AAAAAACCCTTATTTTGGCCCTTTATTCGTATTTTTCTTTTTTCTCGAATTTTAT
* * *
47596493 TACTTTTAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATCTTACTACATTATGTTTG
65 TACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTG
* *
47596558 AAATGTATTAATTTAGTGTGTGTTTT-TT
130 AAATGTATTAATTTAGTGTGTATTTTAAT
* *
47596586 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTT-TCGAATTTTATT
1 AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTATTCGTATTTTTCTTTTTTCTCGAATTTTATT
* ** * * *
47596650 TCTTTCAGTAAATATACTATTTTTGTTTTTTATTTATTTT
66 ACTTTCAAAAAATATATTATTTTCGTATTTTA-TTATTTT
47596690 CGTATTTTAT
Statistics
Matches: 389, Mismatches: 24, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
155 24 0.06
156 49 0.13
157 22 0.06
158 254 0.65
159 9 0.02
160 10 0.03
161 21 0.05
ACGTcount: A:0.28, C:0.09, G:0.08, T:0.55
Consensus pattern (158 bp):
AAATTTAGTAAAAAACCCTTATTTTGGCCCTTTATTCGTATTTTTCTTTTTTCTCGAATTTTATT
ACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATTATGTTTGA
AATGTATTAATTTAGTGTGTATTTTAAT
Found at i:47596712 original size:16 final size:15
Alignment explanation
Indices: 47596686--47596719 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
47596676 TTTTTATTTA
47596686 TTTTCGTATTTTATT
1 TTTTCGTATTTTATT
47596701 TTTTCAGTATTTTATT
1 TTTTC-GTATTTTATT
47596717 TTT
1 TTT
47596720 AATGCTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.15, C:0.06, G:0.06, T:0.74
Consensus pattern (15 bp):
TTTTCGTATTTTATT
Found at i:47596719 original size:17 final size:16
Alignment explanation
Indices: 47596620--47596719 Score: 62
Period size: 17 Copynumber: 6.0 Consensus size: 16
47596610 TGGCCCTTTG
47596620 TTCGTATTTT-TCTTATT
1 TTCGTATTTTAT-TT-TT
* *
47596637 TTCGAATTTTATTTCT
1 TTCGTATTTTATTTTT
* * *
47596653 TTCAGTAAATATACTATTT
1 TTC-GT-ATTTTA-TTTTT
*
47596672 TT-GTTTTTTATTTATT
1 TTCGTATTTTATTT-TT
47596688 TTCGTATTTTA-TTTT
1 TTCGTATTTTATTTTT
47596703 TTCAGTATTTTATTTTT
1 TTC-GTATTTTATTTTT
47596720 AATGCTATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
15 7 0.11
16 21 0.33
17 25 0.40
18 5 0.08
19 5 0.08
ACGTcount: A:0.19, C:0.08, G:0.06, T:0.67
Consensus pattern (16 bp):
TTCGTATTTTATTTTT
Found at i:47596872 original size:26 final size:27
Alignment explanation
Indices: 47596820--47596872 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
47596810 AGTTTTTTAC
* *
47596820 ATGCTAAATAAATTTCATAAAAAATAT
1 ATGCTAAATAAATATAATAAAAAATAT
*
47596847 ATGCTAAATAAA-ATAATAAAACATAT
1 ATGCTAAATAAATATAATAAAAAATAT
47596873 CATGTACATA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.58, C:0.08, G:0.04, T:0.30
Consensus pattern (27 bp):
ATGCTAAATAAATATAATAAAAAATAT
Found at i:47597091 original size:20 final size:20
Alignment explanation
Indices: 47597042--47597083 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
47597032 CTTTTTCTTC
47597042 TTCTCCTTTCCTTTCCTTTA
1 TTCTCCTTTCCTTTCCTTTA
*
47597062 TTCTCCTTTCCTTTTCTTTA
1 TTCTCCTTTCCTTTCCTTTA
47597082 TT
1 TT
47597084 TTTCTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.05, C:0.31, G:0.00, T:0.64
Consensus pattern (20 bp):
TTCTCCTTTCCTTTCCTTTA
Found at i:47597093 original size:4 final size:4
Alignment explanation
Indices: 47597084--47597137 Score: 56
Period size: 4 Copynumber: 12.5 Consensus size: 4
47597074 TTTCTTTATT
47597084 TTTC TTTC TTCTC ATTTCC TTTTC TTTC TTT- TTTC TTTC TTCTC TTTC
1 TTTC TTTC TT-TC -TTT-C -TTTC TTTC TTTC TTTC TTTC TT-TC TTTC
47597132 TTTC TT
1 TTTC TT
47597138 CTCCTTCAGC
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
3 3 0.07
4 27 0.61
5 8 0.18
6 6 0.14
ACGTcount: A:0.02, C:0.26, G:0.00, T:0.72
Consensus pattern (4 bp):
TTTC
Found at i:47597096 original size:30 final size:31
Alignment explanation
Indices: 47597057--47597131 Score: 109
Period size: 30 Copynumber: 2.5 Consensus size: 31
47597047 CTTTCCTTTC
*
47597057 CTTTATTCTCCTTTCCTTTTCTTT-ATTTTT
1 CTTTCTTCTCCTTTCCTTTTCTTTCATTTTT
* *
47597087 CTTTCTTCTCATTTCCTTTTCTTTCTTTTTT
1 CTTTCTTCTCCTTTCCTTTTCTTTCATTTTT
47597118 CTTTCTTCT-CTTTC
1 CTTTCTTCTCCTTTC
47597132 TTTCTTCTCC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
30 26 0.65
31 14 0.35
ACGTcount: A:0.04, C:0.27, G:0.00, T:0.69
Consensus pattern (31 bp):
CTTTCTTCTCCTTTCCTTTTCTTTCATTTTT
Found at i:47597101 original size:24 final size:22
Alignment explanation
Indices: 47597074--47597140 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 22
47597064 CTCCTTTCCT
*
47597074 TTTCTTTATTTTTCTTTCTTCTC
1 TTTCTTT-TCTTTCTTTCTTCTC
47597097 ATTTCCTTTTCTTTCTTT-TT-TC
1 -TTT-CTTTTCTTTCTTTCTTCTC
*
47597119 TTTCTTCTCTTTCTTTCTTCTC
1 TTTCTTTTCTTTCTTTCTTCTC
47597141 CTTCAGCCGA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
20 12 0.32
21 5 0.13
22 4 0.11
23 2 0.05
24 11 0.29
25 4 0.11
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTCTTCTC
Found at i:47597130 original size:50 final size:50
Alignment explanation
Indices: 47597024--47597139 Score: 128
Period size: 50 Copynumber: 2.3 Consensus size: 50
47597014 CTGCGCCTCT
* *
47597024 TTCTCCTTCTTTTTC-TTCTTCTCCTTTCCTTTCCTTTATTCTCCTTTCC
1 TTCTCTTTCTTTTTCTTTCTTCTCATTTCCTTTCCTTTATTCTCCTTTCC
* * * * * *
47597073 TTTTCTTTATTTTTCTTTCTTCTCATTTCCTTTTCTTTCTTTTTTCTTT-C
1 TTCTCTTTCTTTTTCTTTCTTCTCATTTCCTTTCCTTT-ATTCTCCTTTCC
47597123 TTCTCTTTCTTTCTTCT
1 TTCTCTTTCTTT-TTCT
47597140 CCTTCAGCCG
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
49 12 0.22
50 31 0.57
51 11 0.20
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (50 bp):
TTCTCTTTCTTTTTCTTTCTTCTCATTTCCTTTCCTTTATTCTCCTTTCC
Found at i:47601800 original size:46 final size:44
Alignment explanation
Indices: 47601696--47601803 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
47601686 TGTCTTTGAC
** * * *
47601696 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
47601740 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
47601786 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
47601804 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:47603224 original size:46 final size:44
Alignment explanation
Indices: 47603120--47603227 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
47603110 TGTCTTTAAC
** * * *
47603120 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
47603164 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
47603210 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
47603228 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:47609964 original size:30 final size:30
Alignment explanation
Indices: 47609928--47609987 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
47609918 ACCTAGTATG
*
47609928 ATCAAAGTTTTACAAAACATTCATATTTAA
1 ATCAAAGTTTTACAAAACATTCATAGTTAA
47609958 ATCAAAGTTTTACAAAACATTCATAGTTAA
1 ATCAAAGTTTTACAAAACATTCATAGTTAA
47609988 TTTTTAATTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.47, C:0.13, G:0.05, T:0.35
Consensus pattern (30 bp):
ATCAAAGTTTTACAAAACATTCATAGTTAA
Found at i:47612620 original size:34 final size:34
Alignment explanation
Indices: 47612577--47612696 Score: 204
Period size: 34 Copynumber: 3.5 Consensus size: 34
47612567 CATATAACAA
* *
47612577 ATAATCCATGTAAATCATGTATTTCATGTAGCTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
*
47612611 ATAAACCATGTAAATCATGTATTTCATATAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
*
47612645 ATAAACCATGTAAATCATGTATTTTATGTAACTT
1 ATAAACCATGTAAATCATGTATTTCATGTAACTT
47612679 ATAAACCATGTAAATCAT
1 ATAAACCATGTAAATCAT
47612697 ATAACTTTTA
Statistics
Matches: 81, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 81 1.00
ACGTcount: A:0.39, C:0.14, G:0.08, T:0.38
Consensus pattern (34 bp):
ATAAACCATGTAAATCATGTATTTCATGTAACTT
Found at i:47615317 original size:15 final size:15
Alignment explanation
Indices: 47615297--47615326 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47615287 TGAGGTAATT
47615297 ATAAATACATGTATA
1 ATAAATACATGTATA
*
47615312 ATAAATATATGTATA
1 ATAAATACATGTATA
47615327 CATTTATAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (15 bp):
ATAAATACATGTATA
Found at i:47615327 original size:23 final size:23
Alignment explanation
Indices: 47615301--47615347 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
47615291 GTAATTATAA
47615301 ATACATGTATAATAAATATATGT
1 ATACATGTATAATAAATATATGT
* *
47615324 ATACATTTATAATTAATATATGT
1 ATACATGTATAATAAATATATGT
47615347 A
1 A
47615348 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (23 bp):
ATACATGTATAATAAATATATGT
Found at i:47615356 original size:23 final size:23
Alignment explanation
Indices: 47615308--47615363 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 23
47615298 TAAATACATG
* * *
47615308 TATAATAAATATATGTATACATT
1 TATAATTAATATATGTACACACT
*
47615331 TATAATTAATATATGTACATACT
1 TATAATTAATATATGTACACACT
47615354 TATTAATTAA
1 TA-TAATTAA
47615364 GTAAAAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (23 bp):
TATAATTAATATATGTACACACT
Found at i:47616630 original size:23 final size:23
Alignment explanation
Indices: 47616603--47616692 Score: 114
Period size: 23 Copynumber: 4.0 Consensus size: 23
47616593 GGTTTTGCCG
*
47616603 ATCAGGCACTTTATGCGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
47616626 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
* * **
47616649 TTCAGGCACCTCGTGTGTCGT-T
1 ATCAGGCACTTTATGTGTCGTAT
47616671 -TCAGGCAC-TTATGTGTCGTAT
1 ATCAGGCACTTTATGTGTCGTAT
47616692 A
1 A
47616693 CTGATCAGGT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.16
21 9 0.16
22 1 0.02
23 39 0.67
ACGTcount: A:0.19, C:0.21, G:0.23, T:0.37
Consensus pattern (23 bp):
ATCAGGCACTTTATGTGTCGTAT
Found at i:47619314 original size:33 final size:33
Alignment explanation
Indices: 47619250--47619352 Score: 131
Period size: 33 Copynumber: 3.2 Consensus size: 33
47619240 CAACTCCAGC
* *
47619250 ACCCCCAACTAAGGGCCCCACT---CCATATAA
1 ACCCCCAACCAAGGCCCCCACTCCACCATATAA
*
47619280 ACCCCCTACCAAGGCCCCCACTCCACCATATAA
1 ACCCCCAACCAAGGCCCCCACTCCACCATATAA
* * *
47619313 ACCACCAACCAAGGCTCCTACTCCACCATATAA
1 ACCCCCAACCAAGGCCCCCACTCCACCATATAA
47619346 ACCCCCA
1 ACCCCCA
47619353 GCTCCTGCAC
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
30 19 0.31
33 43 0.69
ACGTcount: A:0.33, C:0.48, G:0.07, T:0.13
Consensus pattern (33 bp):
ACCCCCAACCAAGGCCCCCACTCCACCATATAA
Found at i:47619356 original size:27 final size:28
Alignment explanation
Indices: 47619299--47619415 Score: 72
Period size: 27 Copynumber: 4.3 Consensus size: 28
47619289 CAAGGCCCCC
47619299 ACTCCACCATATAAACCACCAACCAAGGCTCCT
1 ACTCCACCATATAAA-C-CC--CC-AGGCTCCT
47619332 ACTCCACCATATAAACCCCCA-GCTCCT
1 ACTCCACCATATAAACCCCCAGGCTCCT
* * *
47619359 GCACCACC-----AA--CCAAGGCTCCT
1 ACTCCACCATATAAACCCCCAGGCTCCT
*
47619380 ACTCCACCATATAAGCCCCCA-GCTCCT
1 ACTCCACCATATAAACCCCCAGGCTCCT
* *
47619407 GCACCACCA
1 ACTCCACCA
47619416 ACCAAGGCTC
Statistics
Matches: 67, Mismatches: 9, Indels: 22
0.68 0.09 0.22
Matches are distributed among these distances:
20 3 0.04
21 12 0.18
22 2 0.03
26 1 0.01
27 25 0.37
28 4 0.06
29 2 0.03
31 2 0.03
32 1 0.01
33 15 0.22
ACGTcount: A:0.31, C:0.47, G:0.08, T:0.15
Consensus pattern (28 bp):
ACTCCACCATATAAACCCCCAGGCTCCT
Found at i:47619507 original size:48 final size:48
Alignment explanation
Indices: 47619313--47619495 Score: 303
Period size: 48 Copynumber: 3.8 Consensus size: 48
47619303 CACCATATAA
47619313 ACCACCAACCAAGGCTCCTACTCCACCATATAAACCCCCAGCTCCTGC
1 ACCACCAACCAAGGCTCCTACTCCACCATATAAACCCCCAGCTCCTGC
*
47619361 ACCACCAACCAAGGCTCCTACTCCACCATATAAGCCCCCAGCTCCTGC
1 ACCACCAACCAAGGCTCCTACTCCACCATATAAACCCCCAGCTCCTGC
* * * * *
47619409 ACCACCAACCAAGGCTCCAACTCCACCATTTAAGCCCCCAGCACCAGC
1 ACCACCAACCAAGGCTCCTACTCCACCATATAAACCCCCAGCTCCTGC
*
47619457 ACCACCAACCAAGGCTCCTACTCCCCCATATAAACCCCC
1 ACCACCAACCAAGGCTCCTACTCCACCATATAAACCCCC
47619496 TACTCCCGCA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 126 1.00
ACGTcount: A:0.30, C:0.49, G:0.09, T:0.13
Consensus pattern (48 bp):
ACCACCAACCAAGGCTCCTACTCCACCATATAAACCCCCAGCTCCTGC
Found at i:47638144 original size:26 final size:26
Alignment explanation
Indices: 47638115--47638165 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
47638105 CATGTATATA
*
47638115 TATATATAGATTATGAAAATAATAAT
1 TATATATAGATTATAAAAATAATAAT
*
47638141 TATATATAGGTTATAAAAATAATAA
1 TATATATAGATTATAAAAATAATAA
47638166 GTGCATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (26 bp):
TATATATAGATTATAAAAATAATAAT
Found at i:47639949 original size:173 final size:169
Alignment explanation
Indices: 47639674--47640517 Score: 580
Period size: 173 Copynumber: 4.9 Consensus size: 169
47639664 TTTCTACTCT
* * * **
47639674 ACTGCAATTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGATAAGAT
* ** * * * *
47639739 TCATCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGGC-CC
65 TTATCATT-TAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTCTTCAGTCT-GCTCC
*
47639803 ACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCC
128 ACTGCAACTTCAGGGGGATAAGACTTG-TTTC-TGA-TCTGCTCC
* *
47639848 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATT
* * * *
47639913 TATCACTTTAATCTGCTCTATTGCAACTTCAGGGAGATATGATTATTGGC-T-TT-AATCTGCTC
66 TATCA-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TT-GCTTCTTCAGTCTGCTC
* * * * **
47639975 CACTGTAACTTCAGGGGGATAAGATTTG-ATATGATCTGCTTT
127 CACTGCAACTTCAGGGGGATAAGACTTGTTTCTGATCTGCTCC
* * * * * * ** * * * *
47640017 ACTACAACTTTAGAGAGATAAGATCCATCG-TTCTAATCCACTCCACTACAACTTTAGGGAGATA
1 ACTGCAACTTCAGGGAGATAAGA--C-TAGATGC-GATCTGCT-CTCTGCAACTTCAGAGAGATA
* * * * * * * * * * *
47640081 GGATTTGCTTATTCAGTCTGCCCCACTGTAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTG
61 AGATTT-ATCATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGC-TTCTTCAGTCTG
* * * * *
47640146 CTCCATTGCAACTTCAGGGAGATAAGACTAGATGC-GATCTGCT-C
124 CTCCACTGCAACTTCAGGGGGATAAGACTTGTTTCTGATCTGCTCC
* * * *** * * * *
47640190 TCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 ACTGCAACTTCAGGGAGATAAGA-CTA-GA-TGCGATCTGCT-CTCTGCAACTTCAGAGAGATAA
** * * *
47640255 GA-TTATTGGTTTTAATTTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTG
62 GATTTA-T-CATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-CTTCTTCAGTCTG
* * *
47640319 C-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTACTCAGTCTGCTCC
124 CTC-CACTGCAACTTCAGGGGGATAAGACTTG-TTTCTGA-TCTGCTCC
* * * * *
47640367 ACTGCGACTTTAGGAAGATAAGACTAGATGCGATATGCTCTCTGCAACTTCAGAGAGATAAGATC
1 ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATT
* * * *
47640432 TATCATTTTAATCTGCTCCACTGTAACTTTAGGGAGATAGGATTATTGGC-T-TT-AATCTGCTC
66 TATCA-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-T-TT-GCTTCTTCAGTCTGCTC
* *
47640494 CACTACAACTTCAGGGAGATAAGA
127 CACTGCAACTTCAGGGGGATAAGA
47640518 TTCGCCATCT
Statistics
Matches: 520, Mismatches: 117, Indels: 68
0.74 0.17 0.10
Matches are distributed among these distances:
169 26 0.05
170 5 0.01
171 7 0.01
172 41 0.08
173 307 0.59
174 96 0.18
175 7 0.01
176 12 0.02
177 19 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (169 bp):
ACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATT
TATCATTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTTCTTCAGTCTGCTCCACT
GCAACTTCAGGGGGATAAGACTTGTTTCTGATCTGCTCC
Found at i:47640079 original size:302 final size:302
Alignment explanation
Indices: 47639674--47640302 Score: 1078
Period size: 302 Copynumber: 2.1 Consensus size: 302
47639664 TTTCTACTCT
* *
47639674 ACTGCAATTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGAT
* *
47639739 TCATCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGGCCCA
66 CCATCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGCCCCA
47639804 CTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAA
131 CTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAA
* * * *
47639869 GACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATTTATCACTTTAATCTGCTCTAT
196 GACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCAC
*
47639934 TGCAACTTCAGGGAGATATGATTATTGGCTTTAATCTGCTCC
261 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
* * * *
47639976 ACTGTAACTTCAGGGGGATAAGATTTGATATGATCTGCTTTACTACAACTTTAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGAT
*
47640041 CCATCGTTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGCCCCA
66 CCATCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGCCCCA
* *
47640106 CTGTAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCATTGCAACTTCAGGGAGATAA
131 CTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAA
* *
47640171 GACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCAC
196 GACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCAC
* *
47640236 TGCAACTTCAGGGAGATAGGATTATTGGTTTTAATTTGCTCC
261 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
47640278 ACTGCAACTTCAGGGAGATAAGATT
1 ACTGCAACTTCAGGGAGATAAGATT
47640303 CGCCATCTTC
Statistics
Matches: 305, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
302 305 1.00
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (302 bp):
ACTGCAACTTCAGGGAGATAAGATTTGATATGATCTGCTCTACTACAACTTCAGAGAGATAAGAT
CCATCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGCCCCA
CTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAA
GACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCAC
TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
Found at i:47640388 original size:217 final size:218
Alignment explanation
Indices: 47640057--47640542 Score: 742
Period size: 217 Copynumber: 2.2 Consensus size: 218
47640047 TTCTAATCCA
* * * * * * * *
47640057 CTCCACTACAACTTTAGGGAGATAGGATTTG-CTTATTCAGTCTGCCCCACTGTAATTTCAGGGG
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
* * * * *
47640121 GATAAGACTTGCTTTCTTGAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTAGATGCGATCT
66 GATAAGACTTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATAT
47640186 GCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAGGGAG
131 GCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAGGGAG
* *
47640251 ATAGGATTATTGGTTTTAATTTG
196 ATAGGATTATTGGCTTTAATCTG
* *
47640274 CTCCACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAG
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
* *
47640339 GATAAGACTTGCTTAC-TCAGTCTGCTCCACTGCGACTTTAGGAAGATAAGACTAGATGCGATAT
66 GATAAGACTTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATAT
* * * *
47640403 GCTCTCTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCTGCTCCACTGTAACTTTAGGGAG
131 GCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAGGGAG
47640468 ATAGGATTATTGGCTTTAATCTG
196 ATAGGATTATTGGCTTTAATCTG
*
47640491 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAATCTGCCCCACT
1 CTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACT
47640543 TCAGCTAGTC
Statistics
Matches: 242, Mismatches: 26, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
217 200 0.83
218 42 0.17
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (218 bp):
CTCCACTACAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCCCACTGCAACTTCAGGAG
GATAAGACTTGCTTACTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTAGATGCGATAT
GCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGCAACTTCAGGGAG
ATAGGATTATTGGCTTTAATCTG
Found at i:47640429 original size:302 final size:299
Alignment explanation
Indices: 47639674--47640470 Score: 876
Period size: 302 Copynumber: 2.6 Consensus size: 299
47639664 TTTCTACTCT
* * * *
47639674 ACTGCAATTTCAGGGAGATAAGATTTGATATGATCTG-CTCTACTGCAACTTCAGAGAGATAAGA
1 ACTGCAACTTCAGGGAGATAAGATTCGATATCATCTGCCTC-ACTACAACTTCAGAGAGATAAGA
* * * * * * * * *
47639738 TTCATCATTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGGCCC
65 -CCATCGTTCTAATCCACTCCACTACAACTTTAGGAAGATAAGACTAG--TATGCAGTATGCCCC
47639803 ACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATA
127 ACTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * *
47639868 AGACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATTTATCACTTTAATCTGCTCTA
192 AGACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCA
* *
47639933 TTGCAACTTCAGGGAGATATGATTATTGGCTTTAATCTGCTCC
257 CTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
* * * * * * *
47639976 ACTGTAACTTCAGGGGGATAAGATTTGATATGATCTGCTTTACTACAACTTTAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGATTCGATATCATCTGCCTCACTACAACTTCAGAGAGATAAGA-
* * * * * *
47640041 CCATCGTTCTAATCCACTCCACTACAACTTTAGGGAGATAGGATTTGCTTATTCAGTCTGCCCCA
65 CCATCGTTCTAATCCACTCCACTACAACTTTAGGAAGATAAGACTAG--TATGCAGTATGCCCCA
* *
47640106 CTGTAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCATTGCAACTTCAGGGAGATAA
128 CTGCAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAA
* *
47640171 GACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCAC
193 GACTAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCAC
* *
47640236 TGCAACTTCAGGGAGATAGGATTATTGGTTTTAATTTGCTCC
258 TGCAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
* *
47640278 ACTGCAACTTCAGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTCAG-GAGGAT
1 ACTGCAACTTCAGGGAGATAAGATTCG--AT-ATCA-TCTGCCTCACTACAACTTCAGAGA-GAT
* * ** * *
47640342 AAGA-C-TTGCTTACTCAGTCTGCTCCACTGCGACTTTAGGAAGATAAGACTAG-ATGC-GATAT
61 AAGACCATCG-TT-CT-AATCCACTCCACTACAACTTTAGGAAGATAAGACTAGTATGCAG-TAT
* * * * * * * * *
47640403 G-CTCTCTGCAACTTCAGAGAGATAAGATCTAT-CATT-TT-AATCTGCTCCACTGTAACTTTAG
122 GCCCCACTGCAATTTCAGGGGGATAAGA-CT-TGCTTTCTTGAGTCTGCTCCACTGCAACTTCAG
47640464 GGAGATA
185 GGAGATA
47640471 GGATTATTGG
Statistics
Matches: 430, Mismatches: 53, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
301 26 0.06
302 326 0.76
303 14 0.03
304 6 0.01
305 6 0.01
306 52 0.12
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (299 bp):
ACTGCAACTTCAGGGAGATAAGATTCGATATCATCTGCCTCACTACAACTTCAGAGAGATAAGAC
CATCGTTCTAATCCACTCCACTACAACTTTAGGAAGATAAGACTAGTATGCAGTATGCCCCACTG
CAATTTCAGGGGGATAAGACTTGCTTTCTTGAGTCTGCTCCACTGCAACTTCAGGGAGATAAGAC
TAGATGCGATCTGATCTCTGCAAATTCAGAGAGATAAGATCTATCACTTTAATCCGCTCCACTGC
AACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCC
Found at i:47640469 original size:44 final size:44
Alignment explanation
Indices: 47639674--47640518 Score: 355
Period size: 44 Copynumber: 19.5 Consensus size: 44
47639664 TTTCTACTCT
* * * * *
47639674 ACTGCAATTTCAGGGAGATAAGAT-T-TGA-TATGATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * **
47639715 ACTGCAACTTCAGAGAGATAAGAT-TCATCATTCTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGATCT-ATCATTTTAATCTGCTCC
* * * *
47639759 ACTACAACTTTAGGGAGATAGGAT-T-TGC-TTATTCAGTCTGGC-CC
1 ACTGCAACTTCAGGGAGATAAGATCTAT-CATT-TT-AATCT-GCTCC
* * * *
47639803 ACTGCAATTTCAGGGGGATAAGA-CT-TGCTTTCTTGAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTAT-CATT-TT-AATCTGCTCC
* *** *
47639848 ACTGCAACTTCAGGGAGATAAGA-CTA-GA-TGCGATCTGAT-C
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * * * * *
47639888 TCTGCAAATTCAGAGAGATAAGATTTATCACTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * ***
47639932 ATTGCAACTTCAGGGAGATATGAT-TATTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTA-TCATTTTAATCTGCTCC
* * * * * **
47639976 ACTGTAACTTCAGGGGGATAAGAT-T-TGA-TATGATCTGCTTT
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * * * * * **
47640017 ACTACAACTTTAGAGAGATAAGATCCATCGTTCTAATCCACTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * * * *
47640061 ACTACAACTTTAGGGAGATAGGAT-T-TGC-TTATTCAGTCTGCCCC
1 ACTGCAACTTCAGGGAGATAAGATCTAT-CATT-TT-AATCTGCTCC
* * * * *
47640105 ACTGTAATTTCAGGGGGATAAGA-CT-TGCTTTCTTGAGTCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTAT-CATT-TT-AATCTGCTCC
* * ***
47640150 ATTGCAACTTCAGGGAGATAAGA-CTA-GA-TGCGATCTGCT-C
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * * *
47640190 TCTGCAACTTCAGAGAGATAAGATCTATCACTTTAATCCGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* ** *
47640234 ACTGCAACTTCAGGGAGATAGGAT-TATTGGTTTTAATTTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTA-TCATTTTAATCTGCTCC
** * *
47640278 ACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCAGTCTGC-CTC
1 ACTGCAACTTCAGGGAGATAAGATCT-ATCAT-TTTAATCTGCTC-C
* *
47640323 ACTGCAACTTCA-GGAGGATAAGA-CT-TGC-TTACTCAGTCTGCTCC
1 ACTGCAACTTCAGGGA-GATAAGATCTAT-CATT--TTAATCTGCTCC
* * * * *** *
47640367 ACTGCGACTTTAGGAAGATAAGA-CTA-GA-TGCGATATGCT-C
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* *
47640407 TCTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
* * * ***
47640451 ACTGTAACTTTAGGGAGATAGGAT-TATTGGCTTTAATCTGCTCC
1 ACTGCAACTTCAGGGAGATAAGATCTA-TCATTTTAATCTGCTCC
*
47640495 ACTACAACTTCAGGGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGAT
47640519 TCGCCATCTT
Statistics
Matches: 602, Mismatches: 155, Indels: 91
0.71 0.18 0.11
Matches are distributed among these distances:
40 61 0.10
41 76 0.13
42 12 0.02
43 38 0.06
44 315 0.52
45 100 0.17
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
ACTGCAACTTCAGGGAGATAAGATCTATCATTTTAATCTGCTCC
Found at i:47642231 original size:25 final size:25
Alignment explanation
Indices: 47642178--47642243 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
47642168 AAGAAAATCC
* *
47642178 AAAAGAATGAAAGAATAATTATTCG
1 AAAAGAATGAAAGAATAATTACTCA
*
47642203 AAAAGAATGAAAGAAT-ATTGGCTCA
1 AAAAGAATGAAAGAATAATT-ACTCA
47642228 AAAATGAATGCAAAGA
1 AAAA-GAATG-AAAGA
47642244 TGTATTTCAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.09
25 22 0.63
26 5 0.14
27 5 0.14
ACGTcount: A:0.56, C:0.06, G:0.18, T:0.20
Consensus pattern (25 bp):
AAAAGAATGAAAGAATAATTACTCA
Found at i:47647637 original size:186 final size:187
Alignment explanation
Indices: 47647322--47647693 Score: 640
Period size: 186 Copynumber: 2.0 Consensus size: 187
47647312 TTAACCTTTG
*
47647322 GATCGATTGTATTGCTCTCAGTATTGAGTTCTCTATTTTTGGTTGTGAAAATAATTGGTTTTTTT
1 GATCGATTGTATTGCTCTCAGTATTGAGTTCTCTATTTTTGGTTGTGAAAATAATCGGTTTTTTT
*
47647387 ATTGATTTCGAATCCGCCCTTTTTACAATATTTTTGAGATTGCTTTTATAGCAATCATGAAACAA
66 ATTGACTTCGAATCCGCCCTTTTTACAATATTTTTGAGATTGCTTTTATAGCAATCATGAAACAA
* *
47647452 GAAAAAGAAAAAGAAATCTTTTCTGGTTTCTGCTTGATTCGTGATTTAAAGATTTTA
131 GAAAAAGAAAAAGAAATCTTCTCTGGTATCTGCTTGATTCGTGATTTAAAGATTTTA
* *
47647509 GATCGATTGTATTGCTCTTAGTGTTGAGTTCTCTATTTTTGGTTGTGAAAATAATCGG-TTTTTT
1 GATCGATTGTATTGCTCTCAGTATTGAGTTCTCTATTTTTGGTTGTGAAAATAATCGGTTTTTTT
* *
47647573 ATTGACTTCGAATTCGTCCTTTTTACAATATTTTTGAGATAT-CTTTTATAGCAATCATGAAACA
66 ATTGACTTCGAATCCGCCCTTTTTACAATATTTTTGAGAT-TGCTTTTATAGCAATCATGAAACA
*
47647637 AGAAAAAGAAAAAGAAATCTTCTCTGGTATCTGCTTGATTCGTGATTTCAAGATTTT
130 AGAAAAAGAAAAAGAAATCTTCTCTGGTATCTGCTTGATTCGTGATTTAAAGATTTT
47647694 CTTACCATAT
Statistics
Matches: 175, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
186 119 0.68
187 56 0.32
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (187 bp):
GATCGATTGTATTGCTCTCAGTATTGAGTTCTCTATTTTTGGTTGTGAAAATAATCGGTTTTTTT
ATTGACTTCGAATCCGCCCTTTTTACAATATTTTTGAGATTGCTTTTATAGCAATCATGAAACAA
GAAAAAGAAAAAGAAATCTTCTCTGGTATCTGCTTGATTCGTGATTTAAAGATTTTA
Found at i:47652278 original size:15 final size:14
Alignment explanation
Indices: 47652257--47652292 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47652247 ATAATCCTTA
*
47652257 ATAATTATCTTAAT
1 ATAATTATCCTAAT
47652271 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
47652286 ATAATTA
1 ATAATTA
47652293 AAATAGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:47653920 original size:20 final size:19
Alignment explanation
Indices: 47653895--47653965 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
47653885 AAGTATTAAG
47653895 TAATAAATAATAAAATAAAA
1 TAATAAATAA-AAAATAAAA
*
47653915 TAATAAATAAAGTAAAGAAAA
1 TAATAAATAAA--AAATAAAA
*
47653936 TAATAAATAAATAATGAAAA
1 TAATAAATAAAAAAT-AAAA
*
47653956 TAAAAAATAA
1 TAATAAATAA
47653966 GAATAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 3 0.07
20 23 0.52
21 18 0.41
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (19 bp):
TAATAAATAAAAAATAAAA
Found at i:47653970 original size:13 final size:12
Alignment explanation
Indices: 47653899--47653974 Score: 62
Period size: 13 Copynumber: 5.8 Consensus size: 12
47653889 ATTAAGTAAT
47653899 AAATAATAAAATA
1 AAATAA-AAAATA
*
47653912 AAATAATAAATA
1 AAATAAAAAATA
*
47653924 AAGTAAAGAAAATAA
1 AAAT-AA-AAAAT-A
*
47653939 TAAATAAATAATGA
1 -AAATAAAAAAT-A
47653953 AAATAAAAAATA
1 AAATAAAAAATA
47653965 AGAATAAAAA
1 A-AATAAAAA
47653975 TTGGGTTGCC
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
12 10 0.20
13 26 0.51
14 9 0.18
15 3 0.06
16 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (12 bp):
AAATAAAAAATA
Found at i:47658935 original size:15 final size:14
Alignment explanation
Indices: 47658914--47658949 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
47658904 ATAATCCTTA
*
47658914 ATAATTATCTTAAT
1 ATAATTATCCTAAT
47658928 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
47658943 ATAATTA
1 ATAATTA
47658950 AAATAGTGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:47659179 original size:11 final size:11
Alignment explanation
Indices: 47659163--47659195 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
47659153 GGATCATACT
47659163 CATAATAAATA
1 CATAATAAATA
*
47659174 CATAATTAATA
1 CATAATAAATA
47659185 CATAA-AAATA
1 CATAATAAATA
47659195 C
1 C
47659196 GTTATTTTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (11 bp):
CATAATAAATA
Found at i:47661271 original size:21 final size:19
Alignment explanation
Indices: 47661237--47661297 Score: 68
Period size: 21 Copynumber: 3.1 Consensus size: 19
47661227 GTATGTAATT
**
47661237 TTAATTTATTTAAAATTAA
1 TTAATTTAAATAAAATTAA
47661256 TTAATATATAAATAAAATTAA
1 TTAAT-T-TAAATAAAATTAA
*
47661277 TTAATTTAACTAAAATGTAA
1 TTAATTTAAATAAAAT-TAA
47661297 T
1 T
47661298 AAGTTTATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 14 0.39
20 6 0.17
21 16 0.44
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAATTTAAATAAAATTAA
Found at i:47661304 original size:20 final size:19
Alignment explanation
Indices: 47661237--47661317 Score: 74
Period size: 19 Copynumber: 4.1 Consensus size: 19
47661227 GTATGTAATT
**
47661237 TTAATTTATTTAAAATTAA
1 TTAATTTAACTAAAATTAA
*
47661256 TTAATATATAAATAAAATTAA
1 TTAAT-T-TAACTAAAATTAA
47661277 TTAATTTAACTAAAATGTAA
1 TTAATTTAACTAAAAT-TAA
* *
47661297 -TAAGTTTATCTACAATTAA
1 TTAA-TTTAACTAAAATTAA
47661316 TT
1 TT
47661318 CATTAATTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
19 20 0.38
20 16 0.31
21 16 0.31
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAATTTAACTAAAATTAA
Found at i:47662816 original size:29 final size:29
Alignment explanation
Indices: 47662774--47662852 Score: 115
Period size: 29 Copynumber: 2.7 Consensus size: 29
47662764 GTATTTTTAT
*
47662774 AAAATGTTCAATGTGATATTTATACTTTG
1 AAAATGTTCAATGTGGTATTTATACTTTG
* *
47662803 AAAATGTTCAATGTGGTACTTGTACTTTG
1 AAAATGTTCAATGTGGTATTTATACTTTG
47662832 AAAAT-TTCCAATGTGGTATTT
1 AAAATGTT-CAATGTGGTATTT
47662853 GGACTATCAA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 2 0.04
29 43 0.96
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (29 bp):
AAAATGTTCAATGTGGTATTTATACTTTG
Found at i:47669237 original size:16 final size:17
Alignment explanation
Indices: 47669216--47669249 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
47669206 GAAATTTAAT
47669216 TATTTT-ATTGAAATAA
1 TATTTTAATTGAAATAA
*
47669232 TATTTTAATTGAGATAA
1 TATTTTAATTGAAATAA
47669249 T
1 T
47669250 TTTCATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (17 bp):
TATTTTAATTGAAATAA
Found at i:47671188 original size:13 final size:14
Alignment explanation
Indices: 47671155--47671188 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47671145 ATTATATTAG
47671155 AAATTAAAATATAA
1 AAATTAAAATATAA
47671169 AAATTAAAAT-TAA
1 AAATTAAAATATAA
*
47671182 AACTTAA
1 AAATTAA
47671189 CATTTTCCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (14 bp):
AAATTAAAATATAA
Found at i:47678949 original size:16 final size:16
Alignment explanation
Indices: 47678927--47678995 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
47678917 TTTGGTTCGC
47678927 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
47678943 CGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47678959 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
47678976 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
47678992 TGTA
1 TGTA
47678996 ATAGCTAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:47678973 original size:33 final size:32
Alignment explanation
Indices: 47678927--47678995 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
47678917 TTTGGTTCGC
47678927 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
1 TGTATTGGATTAGAGGCGTATTGGATTAGAGG
*
47678959 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAGGCGTATTGGATTAGAGG
47678992 TGTA
1 TGTA
47678996 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.25, C:0.01, G:0.38, T:0.36
Consensus pattern (32 bp):
TGTATTGGATTAGAGGCGTATTGGATTAGAGG
Found at i:47679060 original size:44 final size:45
Alignment explanation
Indices: 47678976--47679066 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
47678966 GGATTAGAGG
* * *
47678976 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
47679021 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
47679065 TG
1 TG
47679067 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:47679252 original size:18 final size:17
Alignment explanation
Indices: 47679231--47679265 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47679221 TTATTATTAA
*
47679231 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47679249 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47679266 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47679372 original size:18 final size:17
Alignment explanation
Indices: 47679351--47679385 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47679341 TTATTATTAA
*
47679351 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47679369 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47679386 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47679427 original size:120 final size:120
Alignment explanation
Indices: 47679214--47679801 Score: 1122
Period size: 120 Copynumber: 4.9 Consensus size: 120
47679204 ATCATATTTA
47679214 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
47679279 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
47679334 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
47679399 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
47679454 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
47679519 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
47679574 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
47679639 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
* *
47679694 AACATAATTATTATTAAATATATTTTAATTAAACTATATAATTTAAAAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
47679759 TGTTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGT
47679802 TGATGCTAGT
Statistics
Matches: 462, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 462 1.00
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:47679492 original size:18 final size:17
Alignment explanation
Indices: 47679471--47679505 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47679461 TTATTATTAA
*
47679471 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47679489 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47679506 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47679612 original size:18 final size:17
Alignment explanation
Indices: 47679591--47679625 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47679581 TTATTATTAA
*
47679591 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47679609 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47679626 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47697080 original size:40 final size:40
Alignment explanation
Indices: 47697036--47697297 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
47697026 GCTCCTCGTT
* *
47697036 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
47697076 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47697116 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47697155 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
47697194 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
47697233 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
47697274 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47697298 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:47713739 original size:22 final size:22
Alignment explanation
Indices: 47713695--47713739 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
47713685 TATTCAATGT
* *
47713695 ATAAACTTGTTATTTATTTAAG
1 ATAAACTTGTTATTTAATGAAG
*
47713717 ATAAACTTTTTATTTAATGAAG
1 ATAAACTTGTTATTTAATGAAG
47713739 A
1 A
47713740 AACATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (22 bp):
ATAAACTTGTTATTTAATGAAG
Found at i:47713839 original size:20 final size:21
Alignment explanation
Indices: 47713804--47713842 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
47713794 ATATGTTTTT
*
47713804 TAATTACTACTATTAATAAAG
1 TAATTACTAATATTAATAAAG
47713825 TAATTA-TAATATTAATAA
1 TAATTACTAATATTAATAA
47713843 TCTCTTATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (21 bp):
TAATTACTAATATTAATAAAG
Found at i:47725788 original size:42 final size:43
Alignment explanation
Indices: 47725742--47725839 Score: 135
Period size: 43 Copynumber: 2.3 Consensus size: 43
47725732 AGACAAAGAC
*
47725742 CTTTAGCGGCGCTTTAGT-GGAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGCTTTAGTGGGAAACGCCGCTAAAGATCAGGGT
* * **
47725784 CTTTAGCGGCGTTTTTGTGGGAAACGCCGCTAAAGATTGGGGT
1 CTTTAGCGGCGCTTTAGTGGGAAACGCCGCTAAAGATCAGGGT
*
47725827 TTTTAGCGGCGCT
1 CTTTAGCGGCGCT
47725840 CTTACTACAA
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 16 0.33
43 32 0.67
ACGTcount: A:0.18, C:0.19, G:0.34, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTAGTGGGAAACGCCGCTAAAGATCAGGGT
Found at i:47725818 original size:43 final size:42
Alignment explanation
Indices: 47725742--47725857 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
47725732 AGACAAAGAC
*
47725742 CTTTAGCGGCGCTTTAGTGGAAGCGCCGCTAAAGATCAGGGT
1 CTTTAGCGGCGCTTTAGTGGAAACGCCGCTAAAGATCAGGGT
* * **
47725784 CTTTAGCGGCGTTTTTGTGGGAAACGCCGCTAAAGATTGGGGT
1 CTTTAGCGGCGCTTTAGT-GGAAACGCCGCTAAAGATCAGGGT
* * **
47725827 TTTTAGCGGCGCTCTTACTACAAACGCCGCT
1 CTTTAGCGGCGCT-TTAGTGGAAACGCCGCT
47725858 CTACTTGCCT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 16 0.26
43 42 0.69
44 3 0.05
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (42 bp):
CTTTAGCGGCGCTTTAGTGGAAACGCCGCTAAAGATCAGGGT
Found at i:47725889 original size:21 final size:21
Alignment explanation
Indices: 47725856--47725927 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
47725846 ACAAACGCCG
*
47725856 CTCTACTTGCCTCGCTACAGC
1 CTCTACTTCCCTCGCTACAGC
* *
47725877 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTACAGC
* * *
47725898 CTGTACTTCTCTCGCTACCGC
1 CTCTACTTCCCTCGCTACAGC
*
47725919 CTCTGCTTC
1 CTCTACTTC
47725928 TCTTGCTGCC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.08, C:0.44, G:0.15, T:0.32
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTACAGC
Found at i:47725928 original size:21 final size:21
Alignment explanation
Indices: 47725866--47725930 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
47725856 CTCTACTTGC
*
47725866 CTCGCTACAGCCTCTGCTTCC
1 CTCGCTACAGCCTCTGCTTCT
* * *
47725887 CTCGCTGCAGCCTGTACTTCT
1 CTCGCTACAGCCTCTGCTTCT
*
47725908 CTCGCTACCGCCTCTGCTTCT
1 CTCGCTACAGCCTCTGCTTCT
47725929 CT
1 CT
47725931 TGCTGCCGCA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.08, C:0.45, G:0.15, T:0.32
Consensus pattern (21 bp):
CTCGCTACAGCCTCTGCTTCT
Found at i:47725939 original size:21 final size:21
Alignment explanation
Indices: 47725866--47725946 Score: 81
Period size: 21 Copynumber: 3.9 Consensus size: 21
47725856 CTCTACTTGC
* * *
47725866 CTCGCTACAGCCTCTGCTTCC
1 CTCGCTGCCGCCTCTGCTTCT
* * *
47725887 CTCGCTGCAGCCTGTACTTCT
1 CTCGCTGCCGCCTCTGCTTCT
*
47725908 CTCGCTACCGCCTCTGCTTCT
1 CTCGCTGCCGCCTCTGCTTCT
* *
47725929 CTTGCTGCCGCATCTGCT
1 CTCGCTGCCGCCTCTGCT
47725947 CTGCAATAGA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.07, C:0.43, G:0.17, T:0.32
Consensus pattern (21 bp):
CTCGCTGCCGCCTCTGCTTCT
Found at i:47726011 original size:43 final size:42
Alignment explanation
Indices: 47725949--47726164 Score: 236
Period size: 43 Copynumber: 5.0 Consensus size: 42
47725939 CATCTGCTCT
* * *
47725949 GCAATAGACCCTGAGCTATAGCGGCGCTTTTTCTAAAAACGCC
1 GCAATAGACCC-GATCTATAGCGGCGCTTTTTCCACAAACGCC
* * *
47725992 GCAATAGACACCGATCTATAGCGGCGCTTCTCCCGCAAACGCC
1 GCAATAGAC-CCGATCTATAGCGGCGCTTTTTCCACAAACGCC
* * * *
47726035 TCAATAGACCCCGATCTATAGCGGCGCTTCTCCCGCAAACGCC
1 GCAATAGA-CCCGATCTATAGCGGCGCTTTTTCCACAAACGCC
* * *
47726078 TCAATAGACCCCGATCTATAGCGGCGCTTTTAT-AAAAAACGCC
1 GCAATAGA-CCCGATCTATAGCGGCGCTTTT-TCCACAAACGCC
* *
47726121 GCAGTAGACCCTGATCTATAGTGGCGCTTTTTCCACAAACGCC
1 GCAATAGACCC-GATCTATAGCGGCGCTTTTTCCACAAACGCC
47726164 G
1 G
47726165 GTAAATAACC
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
42 4 0.03
43 144 0.95
44 3 0.02
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.21
Consensus pattern (42 bp):
GCAATAGACCCGATCTATAGCGGCGCTTTTTCCACAAACGCC
Found at i:47726118 original size:86 final size:86
Alignment explanation
Indices: 47725949--47726164 Score: 270
Period size: 86 Copynumber: 2.5 Consensus size: 86
47725939 CATCTGCTCT
* * *
47725949 GCAATAGACCCTGAGCTATAGCGGCGCTTTTTCTAAAAACGCCGCAATAGACACCGATCTATAGC
1 GCAATAGACCCTGATCTATAGCGGCGCTTTTTCCACAAACGCCGCAATAGACACCGATCTATAGC
* ***
47726014 GGCGCTTCTCCCGCAAACGCC
66 GGCGCTTCTACAAAAAACGCC
* * * * * * *
47726035 TCAATAGACCCCGATCTATAGCGGCGCTTCTCCCGCAAACGCCTCAATAGACCCCGATCTATAGC
1 GCAATAGACCCTGATCTATAGCGGCGCTTTTTCCACAAACGCCGCAATAGACACCGATCTATAGC
* *
47726100 GGCGCTTTTATAAAAAACGCC
66 GGCGCTTCTACAAAAAACGCC
* *
47726121 GCAGTAGACCCTGATCTATAGTGGCGCTTTTTCCACAAACGCCG
1 GCAATAGACCCTGATCTATAGCGGCGCTTTTTCCACAAACGCCG
47726165 GTAAATAACC
Statistics
Matches: 106, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
86 106 1.00
ACGTcount: A:0.26, C:0.32, G:0.20, T:0.21
Consensus pattern (86 bp):
GCAATAGACCCTGATCTATAGCGGCGCTTTTTCCACAAACGCCGCAATAGACACCGATCTATAGC
GGCGCTTCTACAAAAAACGCC
Found at i:47726204 original size:129 final size:128
Alignment explanation
Indices: 47725950--47726206 Score: 297
Period size: 129 Copynumber: 2.0 Consensus size: 128
47725940 ATCTGCTCTG
* *
47725950 CAATAGACCCTGAGCTATAGCGGCGCTTTTTCTAAAAACGCCGCAATAGACACCGATCTATAGCG
1 CAATAGACCCCGAGCTATAGCGGCGCTTTTTCAAAAAACGCCGCAATAGACACCGATCTATAGCG
* * * **
47726015 GCGCTTCTCCCGCAAACGCCTCAATAGACCCCGATCTATAGCGGCGCTTCTCCCGCAAACGCCT
66 GCGCTTCTCCCACAAACGCCTAAATAGACCCC-ATCTATAGCGGCGCTTCTACCAAAAACGCCT
* *
47726079 CAATAGACCCCGATCTATAGCGGCGCTTTTAT-AAAAAACGCCGCAGTAGAC-CCTGATCTATAG
1 CAATAGACCCCGAGCTATAGCGGCGCTTTT-TCAAAAAACGCCGCAATAGACACC-GATCTATAG
* * * * * *
47726142 TGGCGCTTTTTCCACAAACGCCGGTAAATA-ACCTTC-TCTTTAGCGGCGCTTTTACCAAAAACG
64 CGGCGCTTCTCCCACAAACGCC--TAAATAGACC-CCATCTATAGCGGCGCTTCTACCAAAAACG
47726205 CC
126 CC
47726207 ACTAAATGCC
Statistics
Matches: 108, Mismatches: 15, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
128 2 0.02
129 96 0.89
130 4 0.04
131 6 0.06
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.23
Consensus pattern (128 bp):
CAATAGACCCCGAGCTATAGCGGCGCTTTTTCAAAAAACGCCGCAATAGACACCGATCTATAGCG
GCGCTTCTCCCACAAACGCCTAAATAGACCCCATCTATAGCGGCGCTTCTACCAAAAACGCCT
Found at i:47726589 original size:21 final size:21
Alignment explanation
Indices: 47726563--47726664 Score: 114
Period size: 21 Copynumber: 4.9 Consensus size: 21
47726553 TTTGACACTG
47726563 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
**
47726584 CTCTGCTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
47726605 TTCTGCTTCCCTCGCTGCATC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
47726626 CTATACTTCTCTCGCTGCGGC
1 CTCTGCTTCCCTCGCTGCAGC
* *
47726647 CTCTGCTTCTCTTGCTGC
1 CTCTGCTTCCCTCGCTGC
47726665 CTCATCTGCT
Statistics
Matches: 66, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.05, C:0.42, G:0.17, T:0.36
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:47726723 original size:66 final size:66
Alignment explanation
Indices: 47726646--47726811 Score: 203
Period size: 66 Copynumber: 2.5 Consensus size: 66
47726636 CTCGCTGCGG
* *
47726646 CCTCTGCTTCTCTTGCTGCCT-CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGT
1 CCTCAGCTTCTCTCGCTG-CTGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GT
47726708 TGAA
63 TGAA
* * *
47726712 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGA
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
47726777 A
66 A
* * * *
47726778 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAG
1 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAG
47726812 TTGTGTAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
65 3 0.03
66 80 0.92
67 4 0.05
ACGTcount: A:0.13, C:0.29, G:0.18, T:0.40
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGA
A
Found at i:47730928 original size:88 final size:89
Alignment explanation
Indices: 47730750--47730936 Score: 261
Period size: 88 Copynumber: 2.1 Consensus size: 89
47730740 CCCAAACCCC
* *
47730750 ACCCCTAAACCCTAAACACTATTTAATATATAATTTAAAAAACACTAATTAATCTAAATCCTAAA
1 ACCCATAAACCCTAAACACTATTTAATATATAATATAAAAAACACTAATTAATCTAAATCCTAAA
* *
47730815 CCCTAACTCGACCCCGAATCACTA
66 CCCTAACTCAACCCCAAATCACTA
* *
47730839 ACCCATAACCCCTAAACATTATTTAATATATAA-ATAAAAAACACTAATTAATCTAAATCCTAAA
1 ACCCATAAACCCTAAACACTATTTAATATATAATATAAAAAACACTAATTAATCTAAATCCTAAA
* * *
47730903 CCCCTAGCT-AACCCTAAATCCCTA
66 -CCCTAACTCAACCCCAAATCACTA
*
47730927 ACCCCTAAAC
1 ACCCATAAAC
47730937 ATTATTTAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
88 49 0.57
89 37 0.43
ACGTcount: A:0.44, C:0.29, G:0.02, T:0.25
Consensus pattern (89 bp):
ACCCATAAACCCTAAACACTATTTAATATATAATATAAAAAACACTAATTAATCTAAATCCTAAA
CCCTAACTCAACCCCAAATCACTA
Found at i:47731713 original size:40 final size:40
Alignment explanation
Indices: 47731589--47731723 Score: 134
Period size: 40 Copynumber: 3.4 Consensus size: 40
47731579 GGGCTTAGGC
*
47731589 TTTTT-GCGGCG-CTTTCCAAAAAACGCCGCTAATGCTT-A
1 TTTTTAGCGGCGTTTTTCC-AAAAACGCCGCTAATGCTTGA
* * *
47731627 TTTTTAGCGGCGTTTTT-TAAAAATCGCCGCTAATGATCGA
1 TTTTTAGCGGCGTTTTTCCAAAAA-CGCCGCTAATGCTTGA
** * * *
47731667 CCTTTAGCGGCATTTTTCCAAAAGCGCCGCTACTGCTTGA
1 TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
*
47731707 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
47731724 TGTCCAAACG
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
38 10 0.13
39 18 0.24
40 44 0.58
41 4 0.05
ACGTcount: A:0.21, C:0.22, G:0.20, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTCCAAAAACGCCGCTAATGCTTGA
Found at i:47732667 original size:90 final size:90
Alignment explanation
Indices: 47732515--47732733 Score: 390
Period size: 90 Copynumber: 2.5 Consensus size: 90
47732505 CGTTTCCCTN
47732515 ATAT-AATTTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTCGACCACGAATCACTAAC
1 ATATAAATTTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTCGACCACGAATCACTAAC
*
47732579 CCCCAACCCCTAAACATTATTTAAT
66 CCACAACCCCTAAACATTATTTAAT
*
47732604 ATATAAATTTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTCGACCCCGAATCACTAAC
1 ATATAAATTTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTCGACCACGAATCACTAAC
*
47732669 CCATAACCCCTAAACATTATTTAAT
66 CCACAACCCCTAAACATTATTTAAT
47732694 ATATAAA--TAAAAAACACTAATTAATCTAAATCCTAAACCC
1 ATATAAATTTAAAAAACACTAATTAATCTAAATCCTAAACCC
47732734 CTAGCTAACC
Statistics
Matches: 126, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
88 33 0.26
89 4 0.03
90 89 0.71
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (90 bp):
ATATAAATTTAAAAAACACTAATTAATCTAAATCCTAAACCCTAACTCGACCACGAATCACTAAC
CCACAACCCCTAAACATTATTTAAT
Found at i:47733579 original size:114 final size:114
Alignment explanation
Indices: 47733304--47734690 Score: 1880
Period size: 113 Copynumber: 12.3 Consensus size: 114
47733294 AGATAAAATG
* * * * * *
47733304 TTTTTGCGGCGC-TTTATAAAAAACACCGCTAAAGGCATCAGCATTAGCGGCGCTTATTCA-GAA
1 TTTTTGCGGCGCTTTTA-AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTT-TACATAAA
*
47733367 ACGCCGCTAAAGACCCCAAAAACTCA-AAAACGGTGCCGTTGGGCTTAAGC
64 ACGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
*
47733417 -TTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* *
47733481 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * **
47733530 TTTTTGCGGCGCTTTTGAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGTGCTTT--ATAGATG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATA-AAA
*
47733593 TGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
65 CGCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * *
47733644 TTTTTGCGGCGCATTTAAAAAAAAGCCGCTAAAGACCTGAACATTAGCAGCGCTTTACAT-AAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* * * *
47733708 GCCGCGAAAGACCCCGAAAACTCAGAAAACAGTGCCGTTGAGCTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
47733757 --TTT---GCGCTTTAAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* * *
47733817 GCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGTTTAGAC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
47733865 TTTTTGCGGCGCTTTTAAAACAACGCCGCTAAAGACCTGAGCATTAGTGGCGCTTTTACA-GAAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGC-TTTACATAAAA
* *
47733929 CGCTGTTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
65 CGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
*
47733979 -TTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* *
47734043 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * * * **
47734092 TTTTTGCGGCGCTTTTGAAAAAACGACTCTAAAGACCTCAGCATTAGCTGTGCTTT--ATAGATG
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATA-AAA
47734155 CGCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
65 CGCCGCTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * *
47734206 TTTTTGCGGCGCATTTAAAAAAACACCTCTAAAGACCTGAACACTAGCGGCGCTTTACAT-AAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
*
47734270 GCCGCGAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * *
47734319 TTTTTGCGGCGCATTTAAAAAAACACCTCTAAAGACCTGAACACTAGCGGCGCTTTACAT-AAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* *
47734383 GCCGCGAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGAGCTTAGGC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
47734432 TTTTTGCGGCGCTTTAAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
* * *
47734497 GCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGTTTAGAC
66 GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * *
47734545 TTTTTGCGGCGCTTTTAAAACAACGCCGCTAAAGACCTGAGCATTAGTGGCGCTTTTACA-GAAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGC-TTTACATAAAA
* * * * *
47734609 CGCTGTTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTTGTCTTTGGC
65 CGCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
47734659 TTTTTGCGGCGCTTTTATAAAGACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
47734691 TGCTTATTTT
Statistics
Matches: 1131, Mismatches: 118, Indels: 49
0.87 0.09 0.04
Matches are distributed among these distances:
108 74 0.07
109 17 0.02
110 3 0.00
111 6 0.01
112 84 0.07
113 534 0.47
114 409 0.36
116 4 0.00
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (114 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
GCCGCTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:47733746 original size:227 final size:226
Alignment explanation
Indices: 47733304--47734690 Score: 1875
Period size: 227 Copynumber: 6.1 Consensus size: 226
47733294 AGATAAAATG
* * * *
47733304 TTTTTGCGGCGC-TTTATAAAAAACACCGCTAAAGGCATCAGCATTAGCGGCGC-TTATTCAGAA
1 TTTTTGCGGCGCTTTTA-AAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTAAT-A-AA
* *
47733367 ACGCCGCTAAAGACCCCAAAAACTCA-AAAACGGTGCCGTTGGGCTTAAGC-TTTTGCGGCGCAT
63 ACGCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCAT
* *
47733430 TTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAACGCCACTAAAGACCC
128 TTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACA-GAAACGCCGCTAAAGACCC
*
47733495 CAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGC
192 CAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * ***
47733530 TTTTTGCGGCGCTTTTGAAAAAACGCCGCTAAAGACCTCAGCATTAGCGGTGCTTT-ATAGATGT
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTAATA-AAAC
*
47733594 GCCGCTAAAGACCCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATT
65 GCCACTAAAGA-CCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATT
* * * * * *
47733659 TAAAAAAAAGCCGCTAAAGACCTGAACATTAGCAGCGCTTTACATAAACGCCGCGAAAGACCCCG
129 TAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCA
* *
47733724 AAAACTCAGAAAACAGTGCCGTTGAGCTTAGGC
194 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
47733757 --TTT---GCGCTTTAAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTA-ATAAAAC
* * *
47733817 GCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTT
65 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTT
* * * *
47733881 AAAACAACGCCGCTAAAGACCTGAGCATTAGTGGCGCTTTTACAGAAACGCTGTTAAAGACCCCA
130 AAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGC-TTTACAGAAACGCCGCTAAAGACCCCA
47733946 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
194 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
47733979 -TTTTGCGGCGCATTTAAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTA-ATAAAAC
* *
47734043 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGTTTAGGCTTTTTGCGGCGCTTTT
65 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTT
* * * * * * * **
47734108 GAAAAAACGACTCTAAAGACCTCAGCATTAGCTGTGCTTTATAGATGCGCCGCTAAAGACCCCCA
130 AAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACGCCGCTAAAGA-CCCCA
47734173 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
194 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* * * * * *
47734206 TTTTTGCGGCGCATTTAAAAAAACACCTCTAAAGACCTGAACACTAGCGGCGCTTTACAT-AAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTA-ATAAAAC
* *
47734270 GCCGCGAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTT
65 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTT
* * * * * *
47734335 AAAAAAACACCTCTAAAGACCTGAACACTAGCGGCGCTTTACATAAACGCCGCGAAAGACCCCAA
130 AAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAA
*
47734400 AAACTCAGAAAACGGTGCCGTTGAGCTTAGGC
195 AAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
47734432 TTTTTGCGGCGCTTTAAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCACTTTACATAAAAC
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTA-ATAAAAC
* * *
47734497 GCCACTAAAGACCCC-AAAACTCAGAAAACGGTGCCGTTGGGTTTAGACTTTTTGCGGCGCTTTT
65 GCCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTT
* * * *
47734561 AAAACAACGCCGCTAAAGACCTGAGCATTAGTGGCGCTTTTACAGAAACGCTGTTAAAGACCCCA
130 AAAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGC-TTTACAGAAACGCCGCTAAAGACCCCA
* * *
47734626 AAAACTCAGAAAACGGTGCCGTTTGTCTTTGGC
194 AAAACTCAGAAAACGGTGCCGTTGGGCTTAGGC
* *
47734659 TTTTTGCGGCGCTTTTATAAAGACGCCGCTAA
1 TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAA
47734691 TGCTTATTTT
Statistics
Matches: 1029, Mismatches: 115, Indels: 33
0.87 0.10 0.03
Matches are distributed among these distances:
221 78 0.08
222 99 0.10
223 14 0.01
224 3 0.00
225 17 0.02
226 309 0.30
227 399 0.39
228 110 0.11
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (226 bp):
TTTTTGCGGCGCTTTTAAAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTAATAAAACG
CCACTAAAGACCCCAAAAACTCAGAAAACGGTGCCGTTGGGCTTAGGCTTTTTGCGGCGCATTTA
AAAAAACGCCGCTAAAGACCTGAGCATTAGCGGCGCTTTACAGAAACGCCGCTAAAGACCCCAAA
AACTCAGAAAACGGTGCCGTTGGGCTTAGGC
Found at i:47734726 original size:39 final size:39
Alignment explanation
Indices: 47734659--47734792 Score: 105
Period size: 40 Copynumber: 3.4 Consensus size: 39
47734649 TGTCTTTGGC
* *
47734659 TTTTT-GCGGCGCTTTTATA-AAGACGCCGCTAATGCTTA
1 TTTTTAGCGGCGTTTTTATAGAAG-TGCCGCTAATGCTTA
* ** *
47734697 TTTTTAGCGGCGTTTGTTATA-AATTGCCGCTAATAATCGA
1 TTTTTAGCGGCGTTT-TTATAGAAGTGCCGCTAATGCT-TA
** *
47734737 CCTTCAGCGGCGTTTTTATAGAAGTGCCGCTACA-GCTTAA
1 TTTTTAGCGGCGTTTTTATAGAAGTGCCGCTA-ATGCTT-A
*
47734777 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
47734793 CTGTCTAAAC
Statistics
Matches: 73, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
38 5 0.07
39 23 0.32
40 44 0.60
41 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTTATAGAAGTGCCGCTAATGCTTA
Found at i:47734847 original size:59 final size:59
Alignment explanation
Indices: 47734755--47734872 Score: 227
Period size: 59 Copynumber: 2.0 Consensus size: 59
47734745 GGCGTTTTTA
47734755 TAGAAGTGCCGCTACAGCTTAATTTTTAGTGGCGTTTTCTGTCTAAACGCCGCTAGAAG
1 TAGAAGTGCCGCTACAGCTTAATTTTTAGTGGCGTTTTCTGTCTAAACGCCGCTAGAAG
*
47734814 TAGAAGTGCCTCTACAGCTTAATTTTTAGTGGCGTTTTCTGTCTAAACGCCGCTAGAAG
1 TAGAAGTGCCGCTACAGCTTAATTTTTAGTGGCGTTTTCTGTCTAAACGCCGCTAGAAG
47734873 CGCCACTAAA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (59 bp):
TAGAAGTGCCGCTACAGCTTAATTTTTAGTGGCGTTTTCTGTCTAAACGCCGCTAGAAG
Found at i:47738577 original size:19 final size:18
Alignment explanation
Indices: 47738543--47738578 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47738533 CAAATCGAAT
*
47738543 TTAATTTTTAACTTATAA
1 TTAATTTTTAAATTATAA
47738561 TTAATTTTTAATATTATA
1 TTAATTTTTAA-ATTATA
47738579 TAATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (18 bp):
TTAATTTTTAAATTATAA
Found at i:47738834 original size:79 final size:79
Alignment explanation
Indices: 47738742--47739055 Score: 628
Period size: 79 Copynumber: 4.0 Consensus size: 79
47738732 TCCTTTACAA
47738742 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
1 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
47738807 ACACTCTTTTGCTT
66 ACACTCTTTTGCTT
47738821 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
1 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
47738886 ACACTCTTTTGCTT
66 ACACTCTTTTGCTT
47738900 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
1 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
47738965 ACACTCTTTTGCTT
66 ACACTCTTTTGCTT
47738979 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
1 GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
47739044 ACACTCTTTTGC
66 ACACTCTTTTGC
47739056 CTGTGTTATG
Statistics
Matches: 235, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 235 1.00
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (79 bp):
GTTGGTGTCGTGACATTCTTTTAATGCTTTGCAATTAATCTTTTAAGTTAATCTTCAAAGTTGCA
ACACTCTTTTGCTT
Found at i:47739903 original size:34 final size:35
Alignment explanation
Indices: 47739859--47739927 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
47739849 AGATAAAAAT
*
47739859 CTGTCGTAAGTAT-CAACACCTATATCCAACAACA
1 CTGTCCTAAGTATCCAACACCTATATCCAACAACA
*
47739893 CTGTCCTAAGTATCCAACACCTATATCCGACAACA
1 CTGTCCTAAGTATCCAACACCTATATCCAACAACA
47739928 TGCATATGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 12 0.38
35 20 0.62
ACGTcount: A:0.36, C:0.32, G:0.09, T:0.23
Consensus pattern (35 bp):
CTGTCCTAAGTATCCAACACCTATATCCAACAACA
Found at i:47748719 original size:67 final size:67
Alignment explanation
Indices: 47748611--47748741 Score: 235
Period size: 67 Copynumber: 2.0 Consensus size: 67
47748601 TTTCCAATTC
*
47748611 AGAGAGCACACTCCCGTGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTA
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTA
47748676 CA
66 CA
* *
47748678 AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCGGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
47748742 GTAATATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 61 1.00
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTCCCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTA
CA
Found at i:47754658 original size:48 final size:48
Alignment explanation
Indices: 47754406--47754645 Score: 417
Period size: 48 Copynumber: 5.0 Consensus size: 48
47754396 CTATGCATAT
47754406 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
* * *
47754454 CAATATTTTGTTAAGATACAAGGGTGGCACAGATTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
47754502 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
* * *
47754550 CAATATTTTGTTAAGATACAAGGGTGGCACAGATTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
*
47754598 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
47754646 TGAGAGTCTG
Statistics
Matches: 179, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 179 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
Found at i:47754672 original size:48 final size:48
Alignment explanation
Indices: 47754406--47754694 Score: 416
Period size: 48 Copynumber: 6.0 Consensus size: 48
47754396 CTATGCATAT
*
47754406 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
* *
47754454 CAATATTTTGTTAAGATACAAGGGTGGCACAGATTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
*
47754502 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
* *
47754550 CAATATTTTGTTAAGATACAAGGGTGGCACAGATTGTGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
* *
47754598 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
** * * ** * * * *
47754646 TGAGAGTCTGTTATTACACAAAGGTGGTACAGACTGTGTGTAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
47754694 C
1 C
47754695 GAGAAATCTG
Statistics
Matches: 215, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 215 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
CAATATTCTGTTAAGATACAAGGGTGGCACAGACTGTGTGCAGGCCAC
Found at i:47754694 original size:96 final size:96
Alignment explanation
Indices: 47754406--47754645 Score: 471
Period size: 96 Copynumber: 2.5 Consensus size: 96
47754396 CTATGCATAT
47754406 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATATTTTGTTAAGAT
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATATTTTGTTAAGAT
47754471 ACAAGGGTGGCACAGATTGTGTGCAGGCCAC
66 ACAAGGGTGGCACAGATTGTGTGCAGGCCAC
47754502 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATATTTTGTTAAGAT
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATATTTTGTTAAGAT
47754567 ACAAGGGTGGCACAGATTGTGTGCAGGCCAC
66 ACAAGGGTGGCACAGATTGTGTGCAGGCCAC
*
47754598 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTATGTGCAGGCCAC
1 CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCAC
47754646 TGAGAGTCTG
Statistics
Matches: 143, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
96 143 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (96 bp):
CAATATTCTGTTAAGATACAAGGGTGGCACGGACTGTGTGCAGGCCACCAATATTTTGTTAAGAT
ACAAGGGTGGCACAGATTGTGTGCAGGCCAC
Found at i:47756362 original size:51 final size:51
Alignment explanation
Indices: 47756284--47756415 Score: 174
Period size: 51 Copynumber: 2.6 Consensus size: 51
47756274 TTACAGGTCG
* **
47756284 CATGTGTAGTACTATGTGTAGGCTACTATGCGTACCGGATAGTTTTGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
* * * * * *
47756335 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
*
47756386 CATGCGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
47756416 TGAACCGAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 69 1.00
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATGATCA
Found at i:47756477 original size:45 final size:45
Alignment explanation
Indices: 47756426--47756512 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
47756416 TGAACCGAAC
* *
47756426 ATCATTGATTAGTAAGGTGGTTGCTATATGCTGATTCCACCGGAT
1 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGGAT
*
47756471 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCG
47756513 AGTATCTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGGAT
Found at i:47763369 original size:3 final size:3
Alignment explanation
Indices: 47763363--47763412 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
47763353 TTGCGTCCAT
47763363 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
47763411 TT
1 TT
47763413 TGTGGTTCTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:47763695 original size:31 final size:29
Alignment explanation
Indices: 47763630--47763697 Score: 73
Period size: 29 Copynumber: 2.3 Consensus size: 29
47763620 ATGATAACGT
* * *
47763630 AAGTGACCAAAATATAACATTTCAAATAT
1 AAGTGACTAAAATATAACATGTCAAATAA
* *
47763659 GAGTGACTAAAATGTAACATGAGTCAAATAA
1 AAGTGACTAAAATATAACAT--GTCAAATAA
47763690 AAGTGACT
1 AAGTGACT
47763698 GTTGATAGTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
29 17 0.55
31 14 0.45
ACGTcount: A:0.49, C:0.12, G:0.15, T:0.25
Consensus pattern (29 bp):
AAGTGACTAAAATATAACATGTCAAATAA
Found at i:47766656 original size:21 final size:22
Alignment explanation
Indices: 47766621--47766661 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
47766611 TTATTTATTT
**
47766621 TAATATTATTTTAA-TATTGGC
1 TAATATTATCATAATTATTGGC
47766642 TAATATTATCATAATTATTG
1 TAATATTATCATAATTATTG
47766662 ATATCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
TAATATTATCATAATTATTGGC
Found at i:47766742 original size:12 final size:13
Alignment explanation
Indices: 47766725--47766753 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
47766715 TTTAGATAAA
47766725 TTAATTCAT-ATT
1 TTAATTCATCATT
47766737 TTAATTCATCATT
1 TTAATTCATCATT
47766750 TTAA
1 TTAA
47766754 CCTTATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (13 bp):
TTAATTCATCATT
Found at i:47779292 original size:131 final size:131
Alignment explanation
Indices: 47779054--47779574 Score: 776
Period size: 131 Copynumber: 4.0 Consensus size: 131
47779044 TCAAAGACAG
* * * * *
47779054 TAGTCCTATCTCCCTGGTTAGTAGTGGGATAGGTTGAAGATTACAGATCTTATCACCTTAAGCAA
1 TAGTCCTATTTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAA
* *
47779119 TAGTGGAGCAGATCGAATACGGCGAATCTTATCTTCCTCAGGAGTAGGGAAACAGATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCA
47779184 C
131 C
*
47779185 TAGTCCTATTTCCCTGGTCCGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAA
1 TAGTCCTATTTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAA
** * *
47779250 TAGTGGAGCAGATCGAAGATAGCGAATCTCATCTTCCCCAGGAGTAGGGAAACATATTTAAGCCA
66 TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCA
47779315 C
131 C
* * * *
47779316 AAGTCCTATTTCCCTGAG-CAGCAGTGGAATAGGTTGGAGACTACAGATCTTATCTCCCTAAGCA
1 TAGTCCTATTTCCCTG-GTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
* * * *
47779380 ATAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTCCCTAGGAGTAGGAAAACAGATTTAAACC
65 ATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCC
47779445 AC
130 AC
* * *
47779447 TAGTCCTATGTCCCTGGTC-GACAGTGGGACAGGTTGAAGATTACAGATCTTATCTCCCTAAGTA
1 TAGTCCTATTTCCCTGGTCAG-CAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCA
* * *
47779511 GTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAGCATATTTAAGC
65 ATAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC
47779575 GATGAGTCTT
Statistics
Matches: 348, Mismatches: 39, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 345 0.99
132 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.26
Consensus pattern (131 bp):
TAGTCCTATTTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAA
TAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCA
C
Found at i:47781313 original size:21 final size:22
Alignment explanation
Indices: 47781278--47781318 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
47781268 TTCTTTATTT
**
47781278 TAATATTATTTTAA-TATTGGC
1 TAATATTATCATAATTATTGGC
47781299 TAATATTATCATAATTATTG
1 TAATATTATCATAATTATTG
47781319 ATATCAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
TAATATTATCATAATTATTGGC
Found at i:47782628 original size:22 final size:22
Alignment explanation
Indices: 47782617--47782660 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
47782607 ATTGTAGAAT
47782617 ATATAAAA-ATATATATATGAA
1 ATATAAAATATATATATATGAA
* *
47782638 ATATAAAATATATACATAAGAA
1 ATATAAAATATATATATATGAA
47782660 A
1 A
47782661 AATATGGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (22 bp):
ATATAAAATATATATATATGAA
Found at i:47782760 original size:26 final size:27
Alignment explanation
Indices: 47782728--47782790 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
47782718 GTATGAAAAT
*
47782728 ATGTGTATATATGTACATAAATTA-AA
1 ATGTGTATATATATACATAAATTATAA
* *
47782754 ATGTGTATATGTATATATAAATTATAA
1 ATGTGTATATATATACATAAATTATAA
*
47782781 A-GTATATATA
1 ATGTGTATATA
47782791 AAAAAAGTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 28 0.90
27 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.11, T:0.41
Consensus pattern (27 bp):
ATGTGTATATATATACATAAATTATAA
Found at i:47782874 original size:3 final size:3
Alignment explanation
Indices: 47782860--47782905 Score: 67
Period size: 3 Copynumber: 15.0 Consensus size: 3
47782850 GGTATAAATA
47782860 AAT AAGT AAT AAT AAT -AT CAAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AA-T AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
47782906 GATAGCAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
2 2 0.05
3 33 0.82
4 5 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:47783173 original size:16 final size:16
Alignment explanation
Indices: 47783152--47783188 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
47783142 GCGGAGGGAT
47783152 CCATAGCGCAAATAAC
1 CCATAGCGCAAATAAC
47783168 CCATAGCGCAAATAAC
1 CCATAGCGCAAATAAC
47783184 CCATA
1 CCATA
47783189 CGGTCTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.43, C:0.32, G:0.11, T:0.14
Consensus pattern (16 bp):
CCATAGCGCAAATAAC
Found at i:47783665 original size:14 final size:13
Alignment explanation
Indices: 47783646--47783688 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
47783636 ATTATATAGT
*
47783646 ATAAAAAATTGAAA
1 ATAAAAAAAT-AAA
47783660 ATAAAAAAATAAA
1 ATAAAAAAATAAA
47783673 ATAAAATAAGATAAA
1 ATAAAA-AA-ATAAA
47783688 A
1 A
47783689 AACAAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 9 0.35
14 11 0.42
15 6 0.23
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (13 bp):
ATAAAAAAATAAA
Found at i:47784825 original size:137 final size:139
Alignment explanation
Indices: 47784649--47784929 Score: 370
Period size: 139 Copynumber: 2.0 Consensus size: 139
47784639 CAACCTTAGT
* *
47784649 GAGATAAGGTTTGATATGATCAATCTGCTCCACTACAACTTCAGAGAGAT-A-ACTTGTCATGGT
1 GAGATAAGGTCTGATATCATCAATCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTCATGGT
* * * * * **
47784712 GAATTTAATCCAACCTACTGCAACTTTAGAGGTATAGGATTCATTATTTTGGTCCGCTCCACTAC
66 AAATTTAATCCAACCTACTGCAACTTTAGAGGGATAAGATCCATCATTTTGACCCGCTCCACTAC
*
47784777 -ATTGTCAGG
131 AACT-TCAGG
* * * * * * *
47784786 GAGATAAGGTCTGCTATCTTCAGTCTGTTCCACTGCAACTTTAGGGAGATAAGACTTGTCATGGT
1 GAGATAAGGTCTGATATCATCAATCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTCATGGT
*
47784851 AAATTTAATCCAACTTACTGCAACTTTAGAGGGATAAGATCCATCATTTTGACCCGCTCCACTAC
66 AAATTTAATCCAACCTACTGCAACTTTAGAGGGATAAGATCCATCATTTTGACCCGCTCCACTAC
47784916 AACTTCAGG
131 AACTTCAGG
47784925 GAGAT
1 GAGAT
47784930 CGGACTCATA
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
137 41 0.33
138 1 0.01
139 79 0.64
140 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (139 bp):
GAGATAAGGTCTGATATCATCAATCTGCTCCACTACAACTTCAGAGAGATAAGACTTGTCATGGT
AAATTTAATCCAACCTACTGCAACTTTAGAGGGATAAGATCCATCATTTTGACCCGCTCCACTAC
AACTTCAGG
Found at i:47785053 original size:44 final size:44
Alignment explanation
Indices: 47784986--47785075 Score: 110
Period size: 44 Copynumber: 2.0 Consensus size: 44
47784976 GGTTAGTGAC
* * * *
47784986 TTCAACCTGCTTTACTGCAACTTT-AGAGAGACAAGGTTTGTTAT
1 TTCAACCTACTCTACTACAACTTTGA-AGAGACAAGGTTTGTAAT
* *
47785030 TTCAACCTACTCTACTACGACTTTGAAGAGATAAGGTTTGTAAT
1 TTCAACCTACTCTACTACAACTTTGAAGAGACAAGGTTTGTAAT
47785074 TT
1 TT
47785076 ATAGCTTCTA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 38 0.97
45 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.37
Consensus pattern (44 bp):
TTCAACCTACTCTACTACAACTTTGAAGAGACAAGGTTTGTAAT
Found at i:47785320 original size:44 final size:44
Alignment explanation
Indices: 47785272--47785363 Score: 112
Period size: 44 Copynumber: 2.1 Consensus size: 44
47785262 AGACTCATAT
* * * *
47785272 CTTCAACTTGCCCCACTACAACTTCAGGGGGATAAGGTTAGTGA
1 CTTCAACCTGCCCCACTACAACTTCAGAGAGACAAGGTTAGTGA
* ** *
47785316 CTTCAACCTGCTCCACTGTAACTTCAGAGAGACAAGGTTTGTGA
1 CTTCAACCTGCCCCACTACAACTTCAGAGAGACAAGGTTAGTGA
47785360 CTTC
1 CTTC
47785364 GTTGATCTGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (44 bp):
CTTCAACCTGCCCCACTACAACTTCAGAGAGACAAGGTTAGTGA
Found at i:47786312 original size:97 final size:97
Alignment explanation
Indices: 47786141--47786428 Score: 445
Period size: 97 Copynumber: 3.0 Consensus size: 97
47786131 GAAAAATGCT
* * **
47786141 TGAAAAAGATTATCACAATGGACAAGATGAAATTTTATTGAGAACA-AAGCTTAAAATGAATAAA
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAA-CTCGAAATGAATAAA
* * *
47786205 TTAATGAAGATAGTAAATTTTTCT-AGAATAAGA
65 TTAATCAAGATAGCAAATTTTGCTAAG-ATAAGA
47786238 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAACTCGAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAACTCGAAATGAATAAAT
*
47786303 CAATCAAGATAGCAAATTTTGCTAAGATAAGA
66 TAATCAAGATAGCAAATTTTGCTAAGATAAGA
* * *
47786335 TGAAAAAGATTATTACAATAGATAAGATGAAATTTTATTGAGAGCACAGCTCGAAATGAATAAAT
1 TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAACTCGAAATGAATAAAT
47786400 TAATCAAGATAGCAAATTTTGCTAAGATA
66 TAATCAAGATAGCAAATTTTGCTAAGATA
47786429 CGAAATGAAT
Statistics
Matches: 177, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
97 173 0.98
98 4 0.02
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (97 bp):
TGAAAAAGATTATCACAATGGATAAGATGAAATTTTATTGAGAGCACAACTCGAAATGAATAAAT
TAATCAAGATAGCAAATTTTGCTAAGATAAGA
Found at i:47786713 original size:5 final size:5
Alignment explanation
Indices: 47786698--47786744 Score: 55
Period size: 5 Copynumber: 9.8 Consensus size: 5
47786688 GGCCTCTCCT
*
47786698 TTTTCC TTTTC TTTTC TTTT- TCTTC TTTTC TTTTC -TTT- TTTTC TTTT
1 TTTT-C TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
47786745 TTCCTTGTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
4 9 0.25
5 23 0.64
6 4 0.11
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:47786725 original size:9 final size:9
Alignment explanation
Indices: 47786711--47786772 Score: 63
Period size: 10 Copynumber: 6.6 Consensus size: 9
47786701 TCCTTTTCTT
47786711 TTCTTTTTC
1 TTCTTTTTC
*
47786720 TTCTTTTCTT
1 TTCTTTT-TC
47786730 TTCTTTTT-
1 TTCTTTTTC
47786738 TTCTTTTTTCC
1 TTC-TTTTT-C
*
47786749 TTGTTTTTC
1 TTCTTTTTC
47786758 TTTCTTTTTC
1 -TTCTTTTTC
47786768 TTCTT
1 TTCTT
47786773 ATTTTTTGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
8 3 0.07
9 19 0.42
10 21 0.47
11 2 0.04
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:47786725 original size:14 final size:14
Alignment explanation
Indices: 47786706--47786745 Score: 64
Period size: 13 Copynumber: 2.9 Consensus size: 14
47786696 CTTTTTCCTT
47786706 TTCTTTTCTTTTTC
1 TTCTTTTCTTTTTC
47786720 TTCTTTTC-TTTTC
1 TTCTTTTCTTTTTC
*
47786733 TTTTTTTCTTTTT
1 TTCTTTTCTTTTT
47786746 TCCTTGTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (14 bp):
TTCTTTTCTTTTTC
Found at i:47786727 original size:19 final size:18
Alignment explanation
Indices: 47786697--47786765 Score: 81
Period size: 19 Copynumber: 3.9 Consensus size: 18
47786687 TGGCCTCTCC
*
47786697 TTTTTCCTTTTCTTTTCT
1 TTTTTTCTTTTCTTTTCT
47786715 TTTTCTTCTTTTCTTTTCT
1 TTTT-TTCTTTTCTTTTCT
*
47786734 TTTTTTC-TTT-TTTCCT
1 TTTTTTCTTTTCTTTTCT
47786750 TGTTTTTC-TTTCTTTT
1 T-TTTTTCTTTTCTTTT
47786766 TCTTCTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
16 6 0.13
17 12 0.27
18 10 0.22
19 17 0.38
ACGTcount: A:0.00, C:0.19, G:0.01, T:0.80
Consensus pattern (18 bp):
TTTTTTCTTTTCTTTTCT
Found at i:47786777 original size:21 final size:21
Alignment explanation
Indices: 47786715--47786777 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
47786705 TTTCTTTTCT
*
47786715 TTTTC-TTC-TTTTCTT-TTC
1 TTTTCTTTCTTTTTCTTCTTA
* *
47786733 TTTT-TTTCTTTTT-TCCTTGT
1 TTTTCTTTCTTTTTCTTCTT-A
47786753 TTTTCTTTCTTTTTCTTCTTA
1 TTTTCTTTCTTTTTCTTCTTA
47786774 TTTT
1 TTTT
47786778 TTGAACATTC
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
18 8 0.23
19 6 0.17
20 4 0.11
21 13 0.37
22 4 0.11
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTCTTTCTTTTTCTTCTTA
Found at i:47789110 original size:20 final size:20
Alignment explanation
Indices: 47789085--47789126 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
47789075 ACATAAAACG
47789085 GATGTTAAAATGAATATCGC
1 GATGTTAAAATGAATATCGC
47789105 GATGTTAAAATGAATATCGC
1 GATGTTAAAATGAATATCGC
47789125 GA
1 GA
47789127 AATGCCACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (20 bp):
GATGTTAAAATGAATATCGC
Found at i:47791787 original size:22 final size:23
Alignment explanation
Indices: 47791735--47791797 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
47791725 ATTTATTATG
47791735 TATATATATATTGTAGAATATATAAA
1 TATATATATA-TG-A-AATATATAAA
*
47791761 AATATATATATGAAATATA-AAA
1 TATATATATATGAAATATATAAA
* *
47791783 TATATACATAAGAAA
1 TATATATATATGAAA
47791798 ATTATGGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 15 0.45
23 6 0.18
24 1 0.03
25 2 0.06
26 9 0.27
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.35
Consensus pattern (23 bp):
TATATATATATGAAATATATAAA
Found at i:47791897 original size:26 final size:26
Alignment explanation
Indices: 47791863--47791912 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
47791853 GTATGAAAAT
*
47791863 ATGTGTATATATGTACATAAATTAAA
1 ATGTGTATATATATACATAAATTAAA
* *
47791889 ATGTGTATATGTATATATAAATTA
1 ATGTGTATATATATACATAAATTA
47791913 TAAAGTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.44, C:0.02, G:0.12, T:0.42
Consensus pattern (26 bp):
ATGTGTATATATATACATAAATTAAA
Found at i:47791923 original size:26 final size:24
Alignment explanation
Indices: 47791866--47791924 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
47791856 TGAAAATATG
47791866 TGTATATATGTACATAAATTAAAA
1 TGTATATATGTACATAAATTAAAA
* *
47791890 TGTGTATATGTATATATAAATTATAAA
1 TGTATATATG--TACATAAATTA-AAA
47791917 -GTATATAT
1 TGTATATAT
47791925 CAAGGATGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 9 0.31
26 17 0.59
27 3 0.10
ACGTcount: A:0.46, C:0.02, G:0.10, T:0.42
Consensus pattern (24 bp):
TGTATATATGTACATAAATTAAAA
Found at i:47792767 original size:12 final size:12
Alignment explanation
Indices: 47792750--47792782 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
47792740 ATCTAGTTTA
47792750 AAAATAAAAAAT
1 AAAATAAAAAAT
47792762 AAAATAAAAAAT
1 AAAATAAAAAAT
47792774 AAAATAAAA
1 AAAATAAAA
47792783 CAAGATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:47792777 original size:17 final size:17
Alignment explanation
Indices: 47792750--47792794 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
47792740 ATCTAGTTTA
*
47792750 AAAATAAAAAATAAAAT
1 AAAATAAAAAATAAAAC
47792767 AAAA-AATAAAATAAAAC
1 AAAATAA-AAAATAAAAC
*
47792784 AAGATAAAAAA
1 AAAATAAAAAA
47792795 ACAAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 2 0.08
17 20 0.83
18 2 0.08
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.13
Consensus pattern (17 bp):
AAAATAAAAAATAAAAC
Done.