Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold128
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: 1835488
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:1021763 original size:19 final size:19
Alignment explanation
Indices: 1021739--1021803 Score: 70
Period size: 19 Copynumber: 3.7 Consensus size: 19
1021729 AGTGATACAT
1021739 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
*
1021758 TGTATCGAT---ATA--T-
1 TGTATCGATACAAAACTTA
*
1021771 TGTATCGATACAACACTTA
1 TGTATCGATACAAAACTTA
1021790 TGTATCGATACAAA
1 TGTATCGATACAAA
1021804 TCGTTGAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 4 0.11
18 1 0.03
19 22 0.59
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1021778 original size:32 final size:32
Alignment explanation
Indices: 1021732--1021801 Score: 122
Period size: 32 Copynumber: 2.2 Consensus size: 32
1021722 GCTTTGTAGT
1021732 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
* *
1021764 GATATATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
1021796 GATACA
1 GATACA
1021802 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.34
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTATC
Found at i:1022730 original size:43 final size:43
Alignment explanation
Indices: 1022669--1023367 Score: 590
Period size: 43 Copynumber: 15.1 Consensus size: 43
1022659 AAAAGATGAC
* *
1022669 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1022712 AAAGGTGCCAATGTGCTGATTCAAGGCTAGCGACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * * * ** * *
1022755 AAAGCATAATGCCAATGTGTTGATTTAAGGCCAATGACATTGGGTTTTAAAGATG
1 AAAG----GTGCCAATATGCTGATTCAAGGCCAGCGACATT-GG------A-CTT
* * *
1022810 ACGAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT
1 A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
1022855 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1022898 AAAGATGAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTT
1 --A-A--AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1022946 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
*
1022989 AAAGATGAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT
1 --A-A--AGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1023037 AAAGACAAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTT
1 ------AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
1023086 AAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* *
1023129 AAAAACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 ------AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * * **
1023178 AAAGGTGCCAATGTGCTGGTTCAAGGCCAACGACATTGGTTTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
* * *
1023221 AAAGAAAAAGATGCTAATATACTGATTCAAGGCCAGCGATATTAGG-CTT
1 AAAG-----G-TGCCAATATGCTGATTCAAGGCCAGCGACATT-GGACTT
*
1023270 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGAC-T-----T
* * *
1023319 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
1023362 AGAAGG
1 A-AAGG
1023368 GTTGCCATCG
Statistics
Matches: 540, Mismatches: 67, Indels: 97
0.77 0.10 0.14
Matches are distributed among these distances:
42 2 0.00
43 229 0.42
44 6 0.01
45 5 0.01
46 4 0.01
47 27 0.05
48 81 0.15
49 147 0.27
50 2 0.00
51 1 0.00
52 4 0.01
53 26 0.05
54 1 0.00
55 2 0.00
57 3 0.01
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (43 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGACTT
Found at i:1023130 original size:92 final size:92
Alignment explanation
Indices: 1022812--1023367 Score: 672
Period size: 92 Copynumber: 6.1 Consensus size: 92
1022802 TAAAGATGAC
* *
1022812 GAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT-----AAAGGTGCCAATATGCT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAGGTGCCAATATGCT
*
1022872 GATTCAAGGCCAGCGACATTGGACTTAAA
66 GATTCAAGGCCAGCGATATTGGACTT--A
* * * *
1022901 GATGAGGTGCCAATATGCTGATTCAAGACCAGCGATATTGGACTT-----AAAGGTGCCAATGTG
1 GA--AGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAGGTGCCAATATG
* *
1022961 CTGATTCAAGGCCAGCGACATTGGTCTTAAA
64 CTGATTCAAGGCCAGCGATATTGGACTT--A
1022992 GATGAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAGGTGCCAATAT
1 GA--AGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-AAAGGTGCCAATAT
*
1023057 GTTGATTCAAGGCCAGCGATATTGGACTTA
63 GCTGATTCAAGGCCAGCGATATTGGACTTA
* * *
1023087 -AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGTCTTAAAAACAAAGGTGCCAATATGC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-AAAGGTGCCAATATGC
*
1023151 TGATTCAAGGCCAGCGATATTGGGCTTA
65 TGATTCAAGGCCAGCGATATTGGACTTA
* * ** * * *
1023179 -AAGGTGCCAATGTGCTGGTTCAAGGCCAACGACATTGGTTTTAAAGAAAAAGATGCTAATATAC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAG-AAAAGGTGCCAATATGC
1023243 TGATTCAAGGCCAGCGATATTAGG-CTTA
65 TGATTCAAGGCCAGCGATATT-GGACTTA
* * *
1023271 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATAAAGGCGCCAATATGC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGA-AAAGGTGCCAATATGC
*
1023335 TGATTCAAGGCCAGCGATATTGGGCTTA
65 TGATTCAAGGCCAGCGATATTGGACTTA
1023363 GAAGG
1 GAAGG
1023368 GTTGCCATCG
Statistics
Matches: 423, Mismatches: 31, Indels: 22
0.89 0.07 0.05
Matches are distributed among these distances:
89 2 0.00
91 127 0.30
92 246 0.58
93 7 0.02
94 1 0.00
95 1 0.00
97 39 0.09
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.24
Consensus pattern (92 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTA
Found at i:1023249 original size:184 final size:183
Alignment explanation
Indices: 1022616--1023367 Score: 839
Period size: 184 Copynumber: 4.0 Consensus size: 183
1022606 TGTTAAAGAT
* * * *
1022616 GAAGGTGCCAATGTGCTGATTCAAGGCCAATGACATTAGACTTAAAAGATGACAAAGGCGCCAAT
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTT-AAAGA--A-AAAGGTGCCAAT
*
1022681 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCTAGCGAC
62 ATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGAC
* * * * ** * *
1022746 ATTGGACTTAAAGCATAA--TGCCAATGTGTTGATTTAAGGCCAATGACATTGGGTTTTAAAGAT
127 ATTGGACTTAAA--AAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG--CT-----T
1022809 GA
183 -A
* *
1022811 CGAAGGCGCCAATATGCTGATTCAAGGCCAACGATATTGGACTT------AAAGGTGCCAATATG
1 -GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAAGGTGCCAATATG
* * *
1022870 CTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAGGTGCCAATATGCTGATTCAAGACCAGCG
65 CTGATTCAAGGCCAGCGATATTGGACTT--A-A--AGGTGCCAATGTGCTGATTCAAGGCCAGCG
* * * *
1022935 ATATTGGACTT----AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAA
125 ACATTGGACTTAAAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--A
*
1022992 GATGAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGACAAAGGTGCCAATAT
1 GA--AGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAAGGTGCCAATAT
* *
1023057 GTTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAACGACAT
64 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACAT
*
1023122 TGGTCTTAAAAACAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
129 TGGACTT-AAAA-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
* * ** * * *
1023179 -AAGGTGCCAATGTGCTGGTTCAAGGCCAACGACATTGGTTTTAAAGAAAAAGATGCTAATATAC
1 GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAAGGTGCCAATATGC
1023243 TGATTCAAGGCCAGCGATATTAGG-CTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT
66 TGATTCAAGGCCAGCGATATT-GGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATT
*
1023307 GGACTTAAAGATAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
130 GGACTTAAA-A-AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1023363 GAAGG
1 GAAGG
1023368 GTTGCCATCG
Statistics
Matches: 487, Mismatches: 44, Indels: 61
0.82 0.07 0.10
Matches are distributed among these distances:
180 3 0.01
181 1 0.00
182 39 0.08
183 39 0.08
184 163 0.33
185 10 0.02
186 43 0.09
187 31 0.06
188 42 0.09
189 41 0.08
191 37 0.08
196 38 0.08
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (183 bp):
GAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTGGACTTAAAGAAAAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
GACTTAAAAAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
Found at i:1023406 original size:33 final size:33
Alignment explanation
Indices: 1023362--1023428 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
1023352 TATTGGGCTT
*
1023362 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
1023395 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1023428 A
1 A
1023429 AGGGGGTGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.30
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1023449 original size:32 final size:33
Alignment explanation
Indices: 1023362--1023440 Score: 106
Period size: 33 Copynumber: 2.4 Consensus size: 33
1023352 TATTGGGCTT
* *
1023362 AGAAGGGTTGCCATCGACTTGTGTGGGCTTTAG
1 AGAAGGGGTGCCACCGACTTGTGTGGGCTTTAG
* *
1023395 AGAATGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGGTGCCACCGACTTGTGTGGGCTTTAG
*
1023428 A-AGGGGGTGCCAC
1 AGAAGGGGTGCCAC
1023441 GGGGTTGTGG
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 9 0.22
33 32 0.78
ACGTcount: A:0.19, C:0.18, G:0.37, T:0.27
Consensus pattern (33 bp):
AGAAGGGGTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1023540 original size:34 final size:34
Alignment explanation
Indices: 1023433--1023782 Score: 320
Period size: 34 Copynumber: 10.7 Consensus size: 34
1023423 TTTAGAAGGG
* *
1023433 GGTGCCACGGGGTTGTGGAC-TT-AAAAGGAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
*
1023465 GGATGCCACAGAGTTGTGGACTTTGAAAAGAAAAAA
1 GG-TGCCACGGAGTTGTGGACTTTGAAAAG-AAAAA
* * *
1023501 AGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
1023535 GGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
*
1023569 GGTGCCACGGAGTTATGGAC-TTGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* * ** *
1023602 GAGTGCCACAGAGTTGTGGGCTAAG-AAGGAAAAA
1 G-GTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
1023636 GATGCCACAGAGTTGTGGAC-TT-AAAAG-----
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
1023663 GATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
1023697 GGTGCCACAGAGTTGTGGGCTTTG--AAG-AAAA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* * * *
1023728 GATGCCACTGAGTCGTGGACTTTGAAAAG--AGA
1 GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
* *
1023760 -TTGCCACTGAGTTGTGGACTTTG
1 GGTGCCACGGAGTTGTGGACTTTG
1023783 GAGAAAAAAT
Statistics
Matches: 269, Mismatches: 33, Indels: 33
0.80 0.10 0.10
Matches are distributed among these distances:
27 18 0.07
28 2 0.01
29 5 0.02
31 45 0.17
32 10 0.04
33 49 0.18
34 105 0.39
35 30 0.11
36 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (34 bp):
GGTGCCACGGAGTTGTGGACTTTGAAAAGAAAAA
Found at i:1023712 original size:94 final size:95
Alignment explanation
Indices: 1023460--1023874 Score: 384
Period size: 92 Copynumber: 4.3 Consensus size: 95
1023450 GACTTAAAAG
* * *
1023460 GAAAAGGATGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAAGTGCCACGGAGTTGTGGGCTTTA
1 GAAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGC--TA
* * * * *
1023525 AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
64 AGAAG-AAAAGATGCCACAGAGTCGTGGACTTT
*
1023558 AAAAAGAAAAAGG-TGCCACGGAGTTATGGAC-TTGAAAAGAAAAAGAGTGCCACAGAGTTGTGG
1 -----G-AAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGG
*
1023621 GCTAAGAAGGAAAAAGATGCCACAGAGTTGTGGAC-TT
60 GCTAAGAA-G-AAAAGATGCCACAGAGTCGTGGACTTT
* **
1023658 -AAAAGGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG-GTGCCACAGAGTTGTGGGCTTTG
1 GAAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTAAG
*
1023721 AAGAAAAGATGCCACTGAGTCGTGGACTTT
66 AAGAAAAGATGCCACAGAGTCGTGGACTTT
* * * ** *
1023751 GAAAAGAGATTGCCACTGAGTTGTGGACTTTG--GAGAAAAA-A-TGCCACTGAGTCATGGGCTT
1 GAAAAG-GA-TGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTA
* * *
1023812 TG-GGACAAA-ATGCCACTGAGTCGTGGACTTT
64 AGAAGA-AAAGATGCCACAGAGTCGTGGACTTT
* *
1023843 GAAAATAGATTGCCACTGAGTTGTGGACTTTG
1 GAAAA-GGA-TGCCACGGAGTTGTGGACTTTG
1023875 GAGAAAAAAT
Statistics
Matches: 279, Mismatches: 22, Indels: 33
0.84 0.07 0.10
Matches are distributed among these distances:
92 76 0.27
93 31 0.11
94 51 0.18
95 16 0.06
96 20 0.07
100 7 0.03
101 23 0.08
102 32 0.11
103 17 0.06
104 6 0.02
ACGTcount: A:0.34, C:0.13, G:0.31, T:0.22
Consensus pattern (95 bp):
GAAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGAAAAAGAGTGCCACAGAGTTGTGGGCTAAG
AAGAAAAGATGCCACAGAGTCGTGGACTTT
Found at i:1023734 original size:31 final size:31
Alignment explanation
Indices: 1023435--1024002 Score: 352
Period size: 31 Copynumber: 17.9 Consensus size: 31
1023425 TAGAAGGGGG
* * **
1023435 TGCCACGGGGTTGTGGACTTAAAAGGAAAAGGA
1 TGCCACTGAGTTGTGGACTTTGAA-GAAAA-GA
* *
1023468 TGCCACAGAGTTGTGGACTTTGAAAAGAAAAAAA
1 TGCCACTGAGTTGTGGACTTTG--AAG-AAAAGA
* * * *
1023502 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 -TGCCACTGAGTTGTGGACTTT--GAAG-AAAAGA
* * * *
1023537 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 TGCCACTGAGTTGTGGACTTT--GAAG-AAAAGA
* *
1023571 TGCCACGGAGTTATGGAC-TTGAAAAGAAAAAGA
1 TGCCACTGAGTTGTGGACTTTG--AAG-AAAAGA
* * **
1023604 GTGCCACAGAGTTGTGGGCTAAGAAGGAAAAAGA
1 -TGCCACTGAGTTGTGGACTTTGAA-G-AAAAGA
* *
1023638 TGCCACAGAGTTGTGGAC-TT--A-AAAGGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* * *
1023665 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGG
1 TGCCACTGAGTTGTGGACTTTG--AAG-AAAAGA
* *
1023699 TGCCACAGAGTTGTGGGCTTTGAAGAAAAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* *
1023730 TGCCACTGAGTCGTGGACTTTGAA-AAGAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* *
1023760 TTGCCACTGAGTTGTGGACTTTGGAGAAAAAA
1 -TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
** * *
1023792 TGCCACTGAGTCATGGGCTTTG-GGACAAA-A
1 TGCCACTGAGTTGTGGACTTTGAAGA-AAAGA
* *
1023822 TGCCACTGAGTCGTGGACTTTGAA-AATAGA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* *
1023852 TTGCCACTGAGTTGTGGACTTTGGAGAAAAAA
1 -TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
** *
1023884 TGCCACTGAGTCATGGACTTTGGACA-AAAAAA
1 TGCCACTGAGTTGTGGACTTT-GA-AGAAAAGA
* * *
1023916 TGCCACTGAGTCGTGGACTTTGGAGAAAAAA
1 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
* * *
1023947 TGCCACTGAGTCGTGGGCTTTG-GGACAAA-A
1 TGCCACTGAGTTGTGGACTTTGAAGA-AAAGA
* *
1023977 TGACACTGAGTGGTGGACTTT-AAGAA
1 TGCCACTGAGTTGTGGACTTTGAAGAA
1024003 GGTATTTGAA
Statistics
Matches: 445, Mismatches: 60, Indels: 64
0.78 0.11 0.11
Matches are distributed among these distances:
27 21 0.05
28 2 0.00
29 3 0.01
30 55 0.12
31 142 0.32
32 39 0.09
33 49 0.11
34 100 0.22
35 34 0.08
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.22
Consensus pattern (31 bp):
TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
Found at i:1023825 original size:92 final size:92
Alignment explanation
Indices: 1023637--1023987 Score: 396
Period size: 92 Copynumber: 3.8 Consensus size: 92
1023627 AAGGAAAAAG
* * * * *
1023637 ATGCCACAGAGTTGTGGAC-TT-AAAAG-GA-TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAG
1 ATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTG--GAGAAAAA-
* * ** *
1023698 GTGCCACAGAGTTGTGGGCTTTGAAGA-AAA
63 ATGCCACTGAGTCATGGGCTTTG-GGACAAA
1023728 GATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAAT
1 -ATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAAT
1023793 GCCACTGAGTCATGGGCTTTGGGACAAA
65 GCCACTGAGTCATGGGCTTTGGGACAAA
*
1023821 ATGCCACTGAGTCGTGGACTTTGAAAATAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAATG
1 ATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAATG
*
1023886 CCACTGAGTCATGGACTTT-GGACAAAAAA
66 CCACTGAGTCATGGGCTTTGGGAC---AAA
* * * *
1023915 ATGCCACTGAGTCGTGGACTTTGGAGAAA-A-AATGCCACTGAGTCGTGGGCTTTGG-GACAAAA
1 ATGCCACTGAGTCGTGGACTTT-GA-AAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAA
*
1023977 TGACACTGAGT
64 TGCCACTGAGT
1023988 GGTGGACTTT
Statistics
Matches: 232, Mismatches: 17, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
91 4 0.02
92 101 0.44
93 40 0.17
94 59 0.25
95 5 0.02
96 23 0.10
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (92 bp):
ATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGCCACTGAGTTGTGGACTTTGGAGAAAAAATG
CCACTGAGTCATGGGCTTTGGGACAAA
Found at i:1023984 original size:155 final size:154
Alignment explanation
Indices: 1023699--1023997 Score: 474
Period size: 155 Copynumber: 1.9 Consensus size: 154
1023689 AAGAAAAAGG
* * * * *
1023699 TGCCACAGAGTTGTGGGCTTTGAAGAAAAGATGCCACTGAGTCGTGGACTTTGAAAAGAGATTGC
1 TGCCACAGAGTTGTGGACTTTGAAGAAAAAATGCCACTGAGTCATGGACTTTGAAAAGAAAATGC
* *
1023764 CACTGAGTTGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGGCTTTGGGACAAAATGCCACT
66 CACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGGCTTTGGGACAAAATGACACT
1023829 GAGTCGTGGACTTTGAAAATAGAT
131 GAGTCGTGGACTTTGAAAATAGAT
* *
1023853 TGCCACTGAGTTGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGACTTTGGACAAA-AAAAT
1 TGCCACAGAGTTGTGGACTTTGAAGAAAAAATGCCACTGAGTCATGGACTTT-GA-AAAGAAAAT
*
1023917 GCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCGTGGGCTTTGGGACAAAATGACA
64 GCCACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGGCTTTGGGACAAAATGACA
*
1023982 CTGAGTGGTGGACTTT
129 CTGAGTCGTGGACTTT
1023998 AAGAAGGTAT
Statistics
Matches: 132, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
154 47 0.36
155 82 0.62
156 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (154 bp):
TGCCACAGAGTTGTGGACTTTGAAGAAAAAATGCCACTGAGTCATGGACTTTGAAAAGAAAATGC
CACTGAGTCGTGGACTTTGGAGAAAAAATGCCACTGAGTCATGGGCTTTGGGACAAAATGACACT
GAGTCGTGGACTTTGAAAATAGAT
Found at i:1025320 original size:11 final size:12
Alignment explanation
Indices: 1025289--1025330 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1025279 GCCTTTGCAC
*
1025289 TTTTTCTTTTGT
1 TTTTTGTTTTGT
* *
1025301 GTGTTGTTTT-T
1 TTTTTGTTTTGT
1025312 TTTTTGTTTTGT
1 TTTTTGTTTTGT
1025324 TTTTTGT
1 TTTTTGT
1025331 GTTTACTTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.00, C:0.02, G:0.17, T:0.81
Consensus pattern (12 bp):
TTTTTGTTTTGT
Found at i:1025323 original size:16 final size:17
Alignment explanation
Indices: 1025289--1025328 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
1025279 GCCTTTGCAC
1025289 TTTTTCTTTTGTGTGTTG
1 TTTTT-TTTTGTGTGTTG
*
1025307 TTTTTTTTT-TGTTTTG
1 TTTTTTTTTGTGTGTTG
1025323 TTTTTT
1 TTTTTT
1025329 GTGTTTACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.57
17 4 0.19
18 5 0.24
ACGTcount: A:0.00, C:0.03, G:0.15, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTGTGTGTTG
Found at i:1033524 original size:130 final size:130
Alignment explanation
Indices: 1033309--1033565 Score: 297
Period size: 130 Copynumber: 2.0 Consensus size: 130
1033299 CCAGCCTCGG
* * * *
1033309 TTTTATTTCCAAAACATCAATTTTTCATAATTGAGGATACTCCAATCCCTTTATTTTCGAGAGGA
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGACACTCCAATCCCTTTATTTTCGAGAGGA
* * * * * *
1033374 TACTTCAACCCTGGCTTTATTTCTAAAATATTGATTT-CTCACAATTGGGGATACTCTAACCCCA
66 TACTTCAACCCTGGCCTTATTTCTAAAACATCGATTTAC-CACAATCGAGGATACTCCAACCCCA
1033438 A
130 A
* * * * * *
1033439 TTTTATTTCTAAAACACCATTTTTTCACAATCGGGGACACTTCGA-CCCTGTTATTTTCGCGAGG
1 TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGACACTCCAATCCCT-TTATTTTCGAGAGG
*
1033503 ATAC-TCTAACTCC-GGCCTTATTTCTAAAGCATCGATTTACCACAATCGAGGATACTCCAACCC
65 ATACTTC-AAC-CCTGGCCTTATTTCTAAAACATCGATTTACCACAATCGAGGATACTCCAACCC
1033566 TGTTATTTTT
Statistics
Matches: 106, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
129 6 0.06
130 97 0.92
131 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (130 bp):
TTTTATTTCCAAAACACCAATTTTTCACAATCGAGGACACTCCAATCCCTTTATTTTCGAGAGGA
TACTTCAACCCTGGCCTTATTTCTAAAACATCGATTTACCACAATCGAGGATACTCCAACCCCAA
Found at i:1033603 original size:79 final size:78
Alignment explanation
Indices: 1033420--1033648 Score: 235
Period size: 79 Copynumber: 2.9 Consensus size: 78
1033410 TCTCACAATT
* * * * * *
1033420 GGGGATACTCTAACCCCAATTTTATTTCTAAAACACCATTTTTTCACAATCGGGGACACTTCGAC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACA-CAATTTTTCACAATCGAGGATACTCCAAC
*
1033485 CCTGTTATTTTCGC
65 CCTGTTATTTTCGA
* * *** * * **
1033499 GAGGATACTCTAACTCCGGCCTTATTTCTAAAGCATCGATTTACCACAATCGAGGATACTCCAAC
1 GGGGATACTCTAACCCCGATTTTATTTCTAAAACA-CAATTTTTCACAATCGAGGATACTCCAAC
*
1033564 CCTGTTATTTTTGA
65 CCTGTTATTTTCGA
* * *
1033578 GGGGATACTCCAACCCCGATTTTATTT-TCAAAACACCAATTTTTCATAATCGAGGATACTCCAG
1 GGGGATACTCTAACCCCGATTTTATTTCT-AAAACA-CAATTTTTCACAATCGAGGATACTCCAA
1033642 CCCTGTT
64 CCCTGTT
1033649 GTTATCCCCA
Statistics
Matches: 118, Mismatches: 31, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
78 1 0.01
79 117 0.99
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.32
Consensus pattern (78 bp):
GGGGATACTCTAACCCCGATTTTATTTCTAAAACACAATTTTTCACAATCGAGGATACTCCAACC
CTGTTATTTTCGA
Found at i:1047200 original size:62 final size:61
Alignment explanation
Indices: 1047043--1047464 Score: 571
Period size: 62 Copynumber: 6.8 Consensus size: 61
1047033 CACTTTTCAA
* *
1047043 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTCCTAG
1 TCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAG
* *
1047104 TCCTCAAAGAGCAGGACGCCATTTCCTTTTAAAGCCCACACAAGTTTGTGGCACTTTGCTAG
1 TCCTCAAAGAGCAGGACGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAG
* * *
1047166 TCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAAGCCCATACAAGTTGGTGGCACTTTTCTAG
1 TCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTGCTAG
* * * * * *
1047228 TCCTTAAATAGCAGGATGCTTTTTCCTTTTAAATCCCACACAAGTTGGTGGCACTTTTCTAG
1 TCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAG
* *
1047290 TCCTCAAAGAGCAGGATGCCTTTTCCCTTTT-AGGCCCACACAAGTTGGTGGCACTTTGCTAG
1 TCCTCAAAGAGCAGGACGCCTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAG
* *
1047352 TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCATACAAGTTGGTGGCACATTT-CTAG
1 TCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTGCTAG
* *
1047414 TCCTCAAAGAGCAGGACGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG
1 TCCTCAAAGAGCAGGACGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGG
1047465 TTAAAAAGCA
Statistics
Matches: 328, Mismatches: 26, Indels: 13
0.89 0.07 0.04
Matches are distributed among these distances:
61 64 0.20
62 250 0.76
63 14 0.04
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.30
Consensus pattern (61 bp):
TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTGCTAG
Found at i:1047281 original size:124 final size:121
Alignment explanation
Indices: 1047043--1047793 Score: 897
Period size: 124 Copynumber: 6.2 Consensus size: 121
1047033 CACTTTTCAA
* * *
1047043 TCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCT
1 TCCTCAAAGAGCAGGATGCCTT-TTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCT
** *
1047108 CAAAGAGCAGGACGCCATTTCCTTTTAAAGCCCACACAAGTTTGTGGCACTTTGCTAG
65 CAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAG
*
1047166 TCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAAGCCCATACAAGTTGGTGGCACTTTTCTAGTCC
1 TCCTCAAAGAGCAGGATGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCC
* * * *
1047231 TTAAATAGCAGGATGCTTTTTCCTTTTAAATCCCACACAAGTTGGTGGCACTTTTCTAG
64 TCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAG
*
1047290 TCCTCAAAGAGCAGGATGCCTTTTCCCTTTT-AGGCCCACACAAGTTGGTGGCACTTTGCTAGTC
1 TCCTCAAAGAGCAGGATGCCTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCACTTT-CTAGTC
* * *
1047354 CTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCTCATACAAGTTGGTGGCACATTTCTAG
63 CTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAG
* * *
1047414 TCCTCAAAGAGCAGGACGTCTTTTCCTTTCAAAGCCCACACAAGTTGGTGG-----T-TA-----
1 TCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCT
* * *
1047468 -AAA-AGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAG
65 CAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAG
* * * *
1047524 TCCTCAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCT
1 TCCTCAAAGAGCAGGATGCCTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCT
* * * * * * *
1047589 CAAAGAGTAGGATGCTTTCTCCTTTTAAAGACCACATAAGTTGGTGGCACCTTCCAG
65 CAAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAG
* *
1047646 TCCTCAAAGAGCAGGATG-CTTTCTCTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTC
1 TCCTCAAAGAGCAGGATGCCTTT-TCTTT-TAAAGCCCACACAAGTTGGTGGCA-CTTTCTAGTC
* *
1047710 CTCAAAGAGCAGGACG-TCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAG
63 CTCAAAGAGCAGGACGCT-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCTAG
*
1047769 TCCTGAAAGAGCAGGATGCCTTTTC
1 TCCTCAAAGAGCAGGATGCCTTTTC
1047794 CTTCTTTCCT
Statistics
Matches: 544, Mismatches: 58, Indels: 52
0.83 0.09 0.08
Matches are distributed among these distances:
110 96 0.18
111 3 0.01
115 1 0.00
116 1 0.00
117 2 0.00
119 1 0.00
121 7 0.01
122 61 0.11
123 159 0.29
124 205 0.38
125 3 0.01
126 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (121 bp):
TCCTCAAAGAGCAGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTC
AAAGAGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAG
Found at i:1047606 original size:61 final size:61
Alignment explanation
Indices: 1047471--1047796 Score: 424
Period size: 61 Copynumber: 5.3 Consensus size: 61
1047461 GTGGTTAAAA
* * * *
1047471 AGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAG
1 AGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCCAGTCCTCAAAG
*
1047533 AGCAGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
1 AGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
* * * *
1047594 AGTAGGATGCTTTCTCCTTTTAAAGACCACATAAGTTGGTGGCACCTTCCAGTCCTCAAAG
1 AGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
* *
1047655 AGCAGGATGCTTTCT-CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAG
1 AGCAGGATGCTTTTTCCTTT-TAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAG
* * * ** *
1047717 AGCAGGACG-TCTTTT-CTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTGAAAG
1 AGCAGGATGCT-TTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
*
1047778 AGCAGGATGCCTTTTCCTT
1 AGCAGGATGCTTTTTCCTT
1047797 CTTTCCTTTA
Statistics
Matches: 234, Mismatches: 24, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
60 4 0.02
61 134 0.57
62 96 0.41
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (61 bp):
AGCAGGATGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
Found at i:1047783 original size:123 final size:121
Alignment explanation
Indices: 1047471--1047796 Score: 442
Period size: 123 Copynumber: 2.7 Consensus size: 121
1047461 GTGGTTAAAA
*
1047471 AGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGC
1 AGCAGGATG-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCTCAAAGAGC
* * *
1047536 AGGACGCTTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
64 AGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
* * * * **
1047594 AGTAGGATGCTTTCTCCTTTT-AAAGACCACATAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGC
1 AGCAGGATGCTTT-T-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGC
1047658 AGGATGCTTTCT-CTTTGCAAAGCCCACACAAGTTGGTGGCACCTTCCTAGTCCTCAAAG
64 AGGATGCTTTCTCCTTT-CAAAGCCCACACAAGTTGGTGGCACCTTCC-AGTCCTCAAAG
* * *
1047717 AGCAGGACGTCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTGAAAGAGCA
1 AGCAGGATG-CTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA
1047782 GGATGCCTTT-TCCTT
65 GGATG-CTTTCTCCTT
1047797 CTTTCCTTTA
Statistics
Matches: 176, Mismatches: 19, Indels: 15
0.84 0.09 0.07
Matches are distributed among these distances:
121 4 0.02
122 62 0.35
123 95 0.54
124 15 0.09
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.29
Consensus pattern (121 bp):
AGCAGGATGCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAG
GATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAG
Found at i:1047842 original size:42 final size:40
Alignment explanation
Indices: 1047790--1048115 Score: 178
Period size: 41 Copynumber: 7.8 Consensus size: 40
1047780 CAGGATGCCT
1047790 TTTCCTTCTTTCCTTTATCCTCAAAGAGCAGGACACATTTCA
1 TTTCCTT-TTTCCTTTATCCTCAAAGAGCAGGACACATTT-A
* * ** * *
1047832 TTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCATGATGCCTTTT
1 TTTCC-T-TTTT-CC-TTTATCCTCAAAGAGCAGGACACATTTA
* * * * *
1047876 TTTCTTTTTTCCTTTGTCCCCAAAGAG-A-CACAC-TTCA
1 TTTCCTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTA
* *
1047913 TTTCCTTTTTTTCCCTTTTAGTTCTCAAAGAGCAGGACGCACTTTA
1 TTTCC--TTTTT-CC-TTTA-TCCTCAAAGAGCAGGACACA-TTTA
* * *
1047959 TTCTCCTTTTTCCTTTGTCCTTAAAAAGCAGGACACATTTAA
1 TT-TCCTTTTTCCTTTATCCTCAAAGAGCAGGACACATTT-A
* * * * **
1048001 TTTCCATTTTT-CTTTGTCTTCAAAGGGCATGATGCATTTTA
1 TTTCC-TTTTTCCTTTATCCTCAAAGAGCAGGACACA-TTTA
* * * *
1048042 TTTCCTTTTTTCC-TTAGTCCCCAAGGAGTAGGACCCATTTAA
1 TTTCC-TTTTTCCTTTA-TCCTCAAAGAGCAGGACACATTT-A
* *
1048084 TTCTCC-TTTTCCTTAATCCTTAAAGAGCAGGA
1 TT-TCCTTTTTCCTTTATCCTCAAAGAGCAGGA
1048116 TGCCCCATTC
Statistics
Matches: 215, Mismatches: 47, Indels: 45
0.70 0.15 0.15
Matches are distributed among these distances:
37 6 0.03
38 2 0.01
39 6 0.03
40 16 0.07
41 63 0.29
42 63 0.29
43 12 0.06
44 12 0.06
45 27 0.13
46 5 0.02
47 3 0.01
ACGTcount: A:0.21, C:0.25, G:0.12, T:0.42
Consensus pattern (40 bp):
TTTCCTTTTTCCTTTATCCTCAAAGAGCAGGACACATTTA
Found at i:1048075 original size:83 final size:85
Alignment explanation
Indices: 1047790--1048093 Score: 270
Period size: 83 Copynumber: 3.6 Consensus size: 85
1047780 CAGGATGCCT
* * *
1047790 TTTCCTTCTTTCCTTTA-TCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTTGTC
1 TTTCCTTTTTTCC-TTAGTCCCCAAAGAGCAGGACACATTTAATTTCCTT-TTTT-CCTTTTGTC
* *
1047854 CTCAAAGAGCATGATGCCTTTT-
63 TTCAAAGAGCATGATGCATTTTA
* * *
1047876 TTT-CTTTTTTCCTTTGTCCCC-AA-AG-A-GACACACTTCATTTCCTTTTTTTCCCTTTTAGT-
1 TTTCCTTTTTTCCTTAGTCCCCAAAGAGCAGGACACATTTAATTTCC-TTTTTT-CCTTTT-GTC
* * *
1047935 TCTCAAAGAGCAGGACGCACTTTA
63 T-TCAAAGAGCATGATGCATTTTA
* ** * *
1047959 TTCTCC-TTTTTCCTTTGTCCTTAAAAAGCAGGACACATTTAATTTCCATTTTT-C-TTTGTCTT
1 TT-TCCTTTTTTCCTTAGTCCCCAAAGAGCAGGACACATTTAATTTCCTTTTTTCCTTTTGTCTT
*
1048021 CAAAGGGCATGATGCATTTTA
65 CAAAGAGCATGATGCATTTTA
* * *
1048042 TTTCCTTTTTTCCTTAGTCCCCAAGGAGTAGGACCCATTTAATTCTCCTTTT
1 TTTCCTTTTTTCCTTAGTCCCCAAAGAGCAGGACACATTTAATT-TCCTTTT
1048094 CCTTAATCCT
Statistics
Matches: 178, Mismatches: 26, Indels: 30
0.76 0.11 0.13
Matches are distributed among these distances:
81 26 0.15
82 25 0.14
83 57 0.32
84 29 0.16
85 16 0.09
86 5 0.03
87 6 0.03
88 14 0.08
ACGTcount: A:0.20, C:0.25, G:0.11, T:0.43
Consensus pattern (85 bp):
TTTCCTTTTTTCCTTAGTCCCCAAAGAGCAGGACACATTTAATTTCCTTTTTTCCTTTTGTCTTC
AAAGAGCATGATGCATTTTA
Found at i:1048118 original size:83 final size:83
Alignment explanation
Indices: 1047937--1048118 Score: 190
Period size: 83 Copynumber: 2.2 Consensus size: 83
1047927 CTTTTAGTTC
* * **
1047937 TCAAAGAGCAGGACGCACTTTATTCTCCTTTTTCCTTTGTCCTTAAAAAGCAGGACACATTTAAT
1 TCAAAGAGCAGGATGCACTTTATTCTCCTTTTTCCTTAGTCCCCAAAAAGCAGGACACATTTAAT
* **
1048002 TTCCATTTTTCTTTGTCT
66 TTCCATTTTCCTTAATCT
* * * ** * *
1048020 TCAAAGGGCATGATGCATTTTATT-TCCTTTTTTCCTTAGTCCCCAAGGAGTAGGACCCATTTAA
1 TCAAAGAGCAGGATGCACTTTATTCTCC-TTTTTCCTTAGTCCCCAAAAAGCAGGACACATTTAA
1048084 TTCTCC-TTTTCCTTAATCCT
65 TT-TCCATTTTCCTTAAT-CT
1048104 T-AAAGAGCAGGATGC
1 TCAAAGAGCAGGATGC
1048119 CCCATTCCTT
Statistics
Matches: 80, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
82 3 0.04
83 71 0.89
84 6 0.08
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.38
Consensus pattern (83 bp):
TCAAAGAGCAGGATGCACTTTATTCTCCTTTTTCCTTAGTCCCCAAAAAGCAGGACACATTTAAT
TTCCATTTTCCTTAATCT
Found at i:1051939 original size:51 final size:51
Alignment explanation
Indices: 1051880--1051991 Score: 138
Period size: 51 Copynumber: 2.2 Consensus size: 51
1051870 AACGGCGTTA
* * *
1051880 GAGTATCCCCGATTGTGAAAAATCGAA-GCTTTAGAAAT-AAGGTCGGGGTTG
1 GAGTATCCCCGATTGTGAAAAATC-AATACTTTAGAAATAAAGCT-AGGGTTG
* * *
1051931 GAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAGCTAGGGTTG
1 GAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGCTAGGGTTG
1051982 GAGTATCCCC
1 GAGTATCCCC
1051992 TCAGAAATAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 2 0.04
51 46 0.88
52 4 0.08
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (51 bp):
GAGTATCCCCGATTGTGAAAAATCAATACTTTAGAAATAAAGCTAGGGTTG
Found at i:1051969 original size:130 final size:129
Alignment explanation
Indices: 1051845--1052119 Score: 326
Period size: 130 Copynumber: 2.1 Consensus size: 129
1051835 AAATAAAATC
* * * *
1051845 GGGGTTAGAGTATCCTATC-GAAAATAAC-GGCGTTAGAGTATCCCCGATTGTGAAAAATCGAAG
1 GGGGTTGGAGTATCCCATCAG-AAATAACAGG-ATTAGAGTATCCCCGATTATGAAAAATCGAAG
*** * *
1051908 CTTTAG-AAATAAGGTCGGGGTTGGAGTATCC-CTGATTG-TGAGAAATCAATATTTTAGAAATA
64 -TTTAGAAAATAAAACCGGGGTTAGAGTATCCTC-GA--GATGAAAAATCAATATTTTAGAAATA
1051970 AAGCT
125 AAGCT
* * * * *
1051975 AGGGTTGGAGTATCCCCTCAGAAATAACAGGATTGGAGTATCCCCGATTATGAAAAATTGATGTT
1 GGGGTTGGAGTATCCCATCAGAAATAACAGGATTAGAGTATCCCCGATTATGAAAAATCGAAGTT
*
1052040 TTGAAAATAAAACCGGGGTTAGAGTATCCTCGAGATGAAAAATCAATATTTTAGAAATAAAGCT
66 TAGAAAATAAAACCGGGGTTAGAGTATCCTCGAGATGAAAAATCAATATTTTAGAAATAAAGCT
1052104 GGGGTTGGAGTATCCC
1 GGGGTTGGAGTATCCC
1052120 CGAGATGAAA
Statistics
Matches: 124, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
128 1 0.01
129 47 0.38
130 72 0.58
131 4 0.03
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (129 bp):
GGGGTTGGAGTATCCCATCAGAAATAACAGGATTAGAGTATCCCCGATTATGAAAAATCGAAGTT
TAGAAAATAAAACCGGGGTTAGAGTATCCTCGAGATGAAAAATCAATATTTTAGAAATAAAGCT
Found at i:1052081 original size:50 final size:50
Alignment explanation
Indices: 1052010--1052133 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 50
1052000 AACAGGATTG
* ** *
1052010 GAGTATCCCCGATTATGAAAAATTGATGTTTT-GAAAATAAAACCGGGGTTA
1 GAGTATCCCCGA-GATGAAAAATCAATATTTTAG-AAATAAAACCGGGGTTA
* * * *
1052061 GAGTATCCTCGAGATGAAAAATCAATATTTTAGAAATAAAGCTGGGGTTG
1 GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTA
1052111 GAGTATCCCCGAGATGAAAAATC
1 GAGTATCCCCGAGATGAAAAATC
1052134 TAGAAATTTA
Statistics
Matches: 63, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
50 51 0.81
51 12 0.19
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.27
Consensus pattern (50 bp):
GAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCGGGGTTA
Found at i:1057780 original size:20 final size:22
Alignment explanation
Indices: 1057750--1057793 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
1057740 TGATTTCCCG
1057750 TGTGAATGTATCGATACA-ATT
1 TGTGAATGTATCGATACATATT
1057771 TGTG-ATGTATCGATACATATT
1 TGTGAATGTATCGATACATATT
1057792 TG
1 TG
1057794 AAAATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (22 bp):
TGTGAATGTATCGATACATATT
Found at i:1057865 original size:13 final size:13
Alignment explanation
Indices: 1057847--1057872 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1057837 CAATTTTTGG
1057847 TGTATCGATACAT
1 TGTATCGATACAT
1057860 TGTATCGATACAT
1 TGTATCGATACAT
1057873 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1057869 original size:33 final size:32
Alignment explanation
Indices: 1057827--1057890 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1057817 TACAAGCCAA
*
1057827 TGTATCGATACA-ATTTTTGGTGTATCGATACAT
1 TGTATCGATACATA-CTTT-GTGTATCGATACAT
1057860 TGTATCGATACATACTTTGTGTATCGATACA
1 TGTATCGATACATACTTTGTGTATCGATACA
1057891 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 15 0.52
34 1 0.03
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (32 bp):
TGTATCGATACATACTTTGTGTATCGATACAT
Found at i:1057887 original size:32 final size:33
Alignment explanation
Indices: 1057827--1057890 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
1057817 TACAAGCCAA
*
1057827 TGTATCGATACAATTTTTGGTGTATCGATACAT
1 TGTATCGATACAATCTTTGGTGTATCGATACAT
1057860 TGTATCGATAC-ATACTTT-GTGTATCGATACA
1 TGTATCGATACAAT-CTTTGGTGTATCGATACA
1057891 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.52
33 14 0.48
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (33 bp):
TGTATCGATACAATCTTTGGTGTATCGATACAT
Found at i:1058983 original size:11 final size:11
Alignment explanation
Indices: 1058967--1059025 Score: 72
Period size: 11 Copynumber: 5.5 Consensus size: 11
1058957 AAGCTCAACC
1058967 AAAAAAGAGAG
1 AAAAAAGAGAG
1058978 AAAAAAGAGAG
1 AAAAAAGAGAG
1058989 AGAAAAAGAGAG
1 A-AAAAAGAGAG
1059001 AAAAACA-AGA-
1 AAAAA-AGAGAG
1059011 AAAAAAG-GA-
1 AAAAAAGAGAG
1059020 AAAAAA
1 AAAAAA
1059026 TTAGATTTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
9 9 0.20
10 5 0.11
11 19 0.42
12 12 0.27
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (11 bp):
AAAAAAGAGAG
Found at i:1058998 original size:10 final size:10
Alignment explanation
Indices: 1058968--1059023 Score: 53
Period size: 9 Copynumber: 5.5 Consensus size: 10
1058958 AGCTCAACCA
1058968 AAAAAGAGAG
1 AAAAAGAGAG
1058978 AAAAAAGAGAGAG
1 --AAAA-AGAGAG
1058991 AAAAAGAGAG
1 AAAAAGAGAG
*
1059001 AAAAACA-AG
1 AAAAAGAGAG
*
1059010 AAAAAAAG-G
1 AAAAAGAGAG
1059019 AAAAA
1 AAAAA
1059024 AATTAGATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
9 14 0.35
10 12 0.30
11 4 0.10
12 4 0.10
13 6 0.15
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (10 bp):
AAAAAGAGAG
Found at i:1059540 original size:10 final size:10
Alignment explanation
Indices: 1059527--1059571 Score: 51
Period size: 9 Copynumber: 4.6 Consensus size: 10
1059517 CAAAAAAAAA
1059527 AAAAAAGAGG
1 AAAAAAGAGG
1059537 -AAAAAGAGAG
1 AAAAAAGAG-G
1059547 AAAAATA-A-G
1 AAAAA-AGAGG
1059556 AAAAAAGAGG
1 AAAAAAGAGG
1059566 AAAAAA
1 AAAAAA
1059572 ATAGTTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
8 1 0.03
9 15 0.50
10 8 0.27
11 5 0.17
12 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (10 bp):
AAAAAAGAGG
Found at i:1066654 original size:150 final size:151
Alignment explanation
Indices: 1066472--1067173 Score: 816
Period size: 150 Copynumber: 4.7 Consensus size: 151
1066462 AAGGATAAAA
* * * * * * * *
1066472 ATGAACCTATCCCTAACT-TATACTTTTAGCATAAAAGCGAACCCGGTAACAACCTAAGAATTGG
1 ATGAACCTAT-CCTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCTAAGAATTGG
* * * * * *
1066536 TTAT-GAAAAATTA-TGTAAGTGCCCTTAAAGGATACCTTTGACATAAAAGTACTTGATACCCCT
65 TTTTAGAAAAATTACT-AAAATGCCCCTAAGGGATACCTTCGACATAAAAGTACTTGATACCCCT
*
1066599 AAAGGACTTAAAAAGATAAAGGG
129 AAAGGACTTAAAAAGAAAAAGGG
*
1066622 ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACTTGGTGACAACCT-AGAACTTGG
1 ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCTAAGAA-TTGG
*
1066686 TTTTAGAAAAA-TACTAAAATGCCCCTAGGGGATACCTTCGA-AGTAAAAGTACTTGATACCCCT
65 TTTTAGAAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACA-TAAAAGTACTTGATACCCCT
*
1066749 AAAGGACTTAAAAAGATAAAGGG
129 AAAGGACTTAAAAAGAAAAAGGG
*
1066772 ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACTTGGTGACAACCT-AGAACTTGG
1 ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCTAAGAA-TTGG
* * *
1066836 TTTTAGAAAAA-TACTAAAATGCCCCTAGGGGATACCTTCGA-AGTAAAAGTACTAGATACCTCT
65 TTTTAGAAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACA-TAAAAGTACTTGATACCCCT
*
1066899 AAAGGACTTAAAAAGAAAAAGGT
129 AAAGGACTTAAAAAGAAAAAGGG
* * * * * * * * **
1066922 ATGAGCCTATCTTAAACGTACACCTTCGGCATGGAAGCGGACCTGGTGACAACTTAGGACTTACT
1 ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCTAAGAATTGGT
* * *
1066987 TTTAGAAAAATTACTAAAATGCCCC-AAGAGATACCTTCAACTTAAAAGTACTTGATACCCCTAA
66 TTTAGAAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACATAAAAGTACTTGATACCCCTAA
*
1067051 AGGACTTAAAAAGAAAAAGGT
131 AGGACTTAAAAAGAAAAAGGG
* * * * * ** *
1067072 ATGAACCTATCCTAAACGTACACCTTCGGCATGGTAGCGGACCCGGTGATGACCTAGGAATTGGT
1 ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCTAAGAATTGGT
* * **
1067137 TCT-GAAAAATTA-TGAAAATACCTTTAAGGGATACCTT
66 TTTAGAAAAATTACT-AAAATGCCCCTAAGGGATACCTT
1067174 TAACGTAAAA
Statistics
Matches: 490, Mismatches: 52, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
148 1 0.00
149 27 0.06
150 439 0.90
151 23 0.05
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (151 bp):
ATGAACCTATCCTAAATGTACACCTTTGGCATAGAAGCGGACCTGGTGACAACCTAAGAATTGGT
TTTAGAAAAATTACTAAAATGCCCCTAAGGGATACCTTCGACATAAAAGTACTTGATACCCCTAA
AGGACTTAAAAAGAAAAAGGG
Found at i:1067811 original size:13 final size:13
Alignment explanation
Indices: 1067793--1067817 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1067783 CCCTATACTT
1067793 TTAAAAGTTGCAC
1 TTAAAAGTTGCAC
1067806 TTAAAAGTTGCA
1 TTAAAAGTTGCA
1067818 TTTCGTACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
TTAAAAGTTGCAC
Found at i:1068705 original size:26 final size:25
Alignment explanation
Indices: 1068675--1068734 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 25
1068665 TTTTGCTTGC
*
1068675 TTTTCTTTGCTATTTGCTGCTGTT-T
1 TTTTCTTT-CTATTTGCTGCTATTGT
*
1068700 TGTTTCCTTTCTTTTTGCTGCTATTGT
1 T-TTT-CTTTCTATTTGCTGCTATTGT
1068727 TTTTCTTT
1 TTTTCTTT
1068735 TGTTGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
25 5 0.17
26 19 0.63
27 6 0.20
ACGTcount: A:0.03, C:0.17, G:0.13, T:0.67
Consensus pattern (25 bp):
TTTTCTTTCTATTTGCTGCTATTGT
Found at i:1068741 original size:20 final size:21
Alignment explanation
Indices: 1068707--1068748 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1068697 TTTTGTTTCC
1068707 TTTCTTTTTGCTGCTATTGTT
1 TTTCTTTTTGCTGCTATTGTT
* *
1068728 TTTC-TTTTGTTGCTGTTGTT
1 TTTCTTTTTGCTGCTATTGTT
1068748 T
1 T
1068749 CCTCCTGCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.02, C:0.12, G:0.17, T:0.69
Consensus pattern (21 bp):
TTTCTTTTTGCTGCTATTGTT
Found at i:1068925 original size:29 final size:29
Alignment explanation
Indices: 1068893--1068951 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
1068883 TTTGTTGGAA
*
1068893 TTTCGGTTGTTGCTTGC-TCTTTTCTTTTT
1 TTTCGG-TGCTGCTTGCTTCTTTTCTTTTT
* *
1068922 TTTCGGTGCTGTTTTCTTCTTTTCTTTTT
1 TTTCGGTGCTGCTTGCTTCTTTTCTTTTT
1068951 T
1 T
1068952 CGTTTCTACT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.00, C:0.17, G:0.15, T:0.68
Consensus pattern (29 bp):
TTTCGGTGCTGCTTGCTTCTTTTCTTTTT
Found at i:1076716 original size:156 final size:156
Alignment explanation
Indices: 1076271--1077035 Score: 822
Period size: 156 Copynumber: 5.0 Consensus size: 156
1076261 GGGTTACTAG
* ** * *
1076271 GATACTTTCATGTTGAAGGTATACCTATAGGGGCATTTTTGTGATTT-TTCAAAACCTAGTCCTA
1 GATACTTTCATGTTGAAGGTATACCCATAGGGGCATTTTCATAATTTCTT-AGAACCTAGTCCTA
* * * * * * *
1076335 GGTTGTCACCAAGTTTGCTTTTATGCTAAAAGTGGGCATTTAGGATAGGTTTATCCCAGCTTTAA
65 GGTTGTCACCAGGTCTGCTTTTATGCTAAAGGTTGGCATTTAGGATAGGTTCATCCCATCTCTAA
* *
1076400 TCTTTTTAAGTTCTTTAGGCTTACCAA
130 TCTTTTTAAGTTCTTTAGGGTTACCGA
*
1076427 GATACTTTCATGTTGAAGGTATACCCATAAGGGCATTTTCATAATTTC--AGAACCTAGT-CTAG
1 GATACTTTCATGTTGAAGGTATACCCATAGGGGCATTTTCATAATTTCTTAGAACCTAGTCCTAG
* * * *
1076489 GTTGTCACCGGGTCTACTTTTATGCTGAAGGTAGGCATTTAGGATAGGTTCATCCCATCTCTAAT
66 GTTGTCACCAGGTCTGCTTTTATGCTAAAGGTTGGCATTTAGGATAGGTTCATCCCATCTCTAAT
*
1076554 CTTTTTAAG-TCTTTTAGGGTTATCGA
131 CTTTTTAAGTTC-TTTAGGGTTACCGA
*
1076580 GATACTTTCATGTTGAAGGTATACCTC-TAGGGGTATTTTCATAATTTCTTAGAACCTAGTCCTA
1 GATACTTTCATGTTGAAGGTATACC-CATAGGGGCATTTTCATAATTTCTTAGAACCTAGTCCTA
* * * * *
1076644 GGTTTTCAACAGGTCTGTTTTTATGCCAAAGGTTGGCATTTAGGATAGGTTCATCCTATCTCTAA
65 GGTTGTCACCAGGTCTGCTTTTATGCTAAAGGTTGGCATTTAGGATAGGTTCATCCCATCTCTAA
*
1076709 TCCTTTTAAG-TCTTTTAGGGTTACCGA
130 TCTTTTTAAGTTC-TTTAGGGTTACCGA
* * * * *
1076736 GATACTTTCATGTCGAAGGTATACCCATAGGGGCATTTTCATAATTTCATAGAGCCAAGTCCTAA
1 GATACTTTCATGTTGAAGGTATACCCATAGGGGCATTTTCATAATTTCTTAGAACCTAGTCCTAG
* * * * *
1076801 GTTGTCATC-GGTTCTGCTTTTATGCTGAAGG-TGGACATTTAGGATAGGTTCATCTCATATATA
66 GTTGTCACCAGG-TCTGCTTTTATGCTAAAGGTTGG-CATTTAGGATAGGTTCATCCCATCTCTA
*
1076864 ATCTTTTTAAGTTCTTTAGGGTTACCGG
129 ATCTTTTTAAGTTCTTTAGGGTTACCGA
* * * * ** * * *
1076892 GATACTTTCAAGTCG-A---A-ACCCGTAAGGGCATTTTTGTATTTTTTTAAAACCTAGTCCTAG
1 GATACTTTCATGTTGAAGGTATACCCATAGGGGCATTTTCATAATTTCTTAGAACCTAGTCCTAG
*** * * * * * * *
1076952 GTTGTCATTGGGTCCGCTTTTATGCTGAAGG-TGAGTATTTAGGATAGGTTTATCCTATTTGTAA
66 GTTGTCACCAGGTCTGCTTTTATGCTAAAGGTTG-GCATTTAGGATAGGTTCATCCCATCTCTAA
* * *
1077016 TCCTTTTAACTCCTTTAGGG
130 TCTTTTTAAGTTCTTTAGGG
1077036 GTATCAGGTA
Statistics
Matches: 525, Mismatches: 72, Indels: 29
0.84 0.12 0.05
Matches are distributed among these distances:
151 100 0.19
152 6 0.01
153 123 0.23
154 10 0.02
155 17 0.03
156 267 0.51
157 2 0.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (156 bp):
GATACTTTCATGTTGAAGGTATACCCATAGGGGCATTTTCATAATTTCTTAGAACCTAGTCCTAG
GTTGTCACCAGGTCTGCTTTTATGCTAAAGGTTGGCATTTAGGATAGGTTCATCCCATCTCTAAT
CTTTTTAAGTTCTTTAGGGTTACCGA
Found at i:1078015 original size:19 final size:21
Alignment explanation
Indices: 1077964--1078019 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 21
1077954 AATTTCTACA
1077964 ATTTGTATCGATACAAACAGT
1 ATTTGTATCGATACAAACAGT
** * *
1077985 AAATGTACCGATACATA-AGT
1 ATTTGTATCGATACAAACAGT
1078005 -TTTGTATCGATACAA
1 ATTTGTATCGATACAA
1078020 TGAATCGATA
Statistics
Matches: 27, Mismatches: 8, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
19 11 0.41
20 3 0.11
21 13 0.48
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (21 bp):
ATTTGTATCGATACAAACAGT
Found at i:1080474 original size:27 final size:26
Alignment explanation
Indices: 1080450--1080500 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
1080440 TTTATTTATT
1080450 GGGGATACTCCAACCCCACTTTTTAGA
1 GGGGATACTCCAACCCCA-TTTTTAGA
*
1080477 GGGGATACTCCAACTCCATTTTTA
1 GGGGATACTCCAACCCCATTTTTA
1080501 AGCTTCTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (26 bp):
GGGGATACTCCAACCCCATTTTTAGA
Found at i:1081409 original size:33 final size:33
Alignment explanation
Indices: 1081367--1081429 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1081357 TACCACTGTT
1081367 TGTATCGATACATG-GTACATTGTATCGATATAA
1 TGTATCGATACATGAGTA-ATTGTATCGATATAA
*
1081400 TGTATCGATACATGATTAATTGTATCGATA
1 TGTATCGATACATGAGTAATTGTATCGATA
1081430 CATTACTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
33 26 0.93
34 2 0.07
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.38
Consensus pattern (33 bp):
TGTATCGATACATGAGTAATTGTATCGATATAA
Found at i:1082505 original size:13 final size:13
Alignment explanation
Indices: 1082487--1082511 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1082477 CATAAAGTAT
1082487 TGTATCGATACAA
1 TGTATCGATACAA
1082500 TGTATCGATACA
1 TGTATCGATACA
1082512 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1082527 original size:32 final size:33
Alignment explanation
Indices: 1082467--1082532 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
1082457 TTCAATGACT
1082467 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
*
1082500 TGTATCGATACAT-AAGTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTATTGTATCGATACAA
1082532 T
1 T
1082533 TTAAGCTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.59
33 13 0.41
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (33 bp):
TGTATCGATACATAAAGTATTGTATCGATACAA
Found at i:1082683 original size:41 final size:45
Alignment explanation
Indices: 1082613--1082697 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 45
1082603 CTTTGCATCG
1082613 ATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAT
1 ATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAT
1082658 ATACATGTA-GC-AA-TTG-CCAGATGTATCGATACACTATAAA
1 ATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAA
1082698 ATGTATCGAT
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
41 24 0.60
42 3 0.08
43 2 0.05
44 2 0.05
45 9 0.22
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (45 bp):
ATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAT
Found at i:1096572 original size:19 final size:19
Alignment explanation
Indices: 1096550--1096591 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
1096540 GGTGTCCTCC
1096550 ACAAAAAAAAAAAAAAAAA
1 ACAAAAAAAAAAAAAAAAA
* *
1096569 ACAAAACAAAAAAAAAACA
1 ACAAAAAAAAAAAAAAAAA
1096588 ACAA
1 ACAA
1096592 CAACAACAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (19 bp):
ACAAAAAAAAAAAAAAAAA
Found at i:1096579 original size:22 final size:23
Alignment explanation
Indices: 1096550--1096603 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
1096540 GGTGTCCTCC
1096550 ACAA-AAAAAAAAAAAAAAAACA
1 ACAACAAAAAAAAAAAAAAAACA
* *
1096572 A-AACAAAAAAAAAACAACAACA
1 ACAACAAAAAAAAAAAAAAAACA
1096594 ACAACAAAAA
1 ACAACAAAAA
1096604 GGGTCCGGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 2 0.07
22 18 0.64
23 8 0.29
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (23 bp):
ACAACAAAAAAAAAAAAAAAACA
Found at i:1096593 original size:17 final size:16
Alignment explanation
Indices: 1096552--1096594 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
1096542 TGTCCTCCAC
1096552 AAAA-AAAA-AAAAAA
1 AAAACAAAACAAAAAA
1096566 AAAACAAAACAAAAAA
1 AAAACAAAACAAAAAA
1096582 AAAACAACAACAA
1 AAAACAA-AACAA
1096595 CAACAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.15
15 4 0.15
16 13 0.50
17 5 0.19
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAACAAAACAAAAAA
Found at i:1096603 original size:1 final size:1
Alignment explanation
Indices: 1096552--1096585 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
1096542 TGTCCTCCAC
* *
1096552 AAAAAAAAAAAAAAAAAACAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1096586 CAACAACAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.94, C:0.06, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1098081 original size:29 final size:29
Alignment explanation
Indices: 1098042--1098363 Score: 215
Period size: 29 Copynumber: 10.7 Consensus size: 29
1098032 TCACCCTTCA
1098042 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1098071 AAAGCCCACAAGTCAGTGGCATCTTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATC--TTTTTC
* * *
1098102 AAAGTCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
1098129 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
*
1098159 AAAGCCCACAAGTC-GATGGCATCTTTTCC
1 AAAGCCCACAAGTCAG-TGGCATCTTTTTC
* * *
1098188 AAAGTCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * * * *
1098218 TTTTGTAAGCTCACAACTCTGTAGCACTCTTTTTCC
1 -----AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C
* * * * *
1098254 TTTTAAGCCCACAAATTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
1098286 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1098315 AAAGCCCACAAGTCAGTAGCAATC--TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
*
1098343 AAAGCCCAGAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1098364 ACCTTCCAAA
Statistics
Matches: 241, Mismatches: 37, Indels: 32
0.78 0.12 0.10
Matches are distributed among these distances:
27 23 0.10
28 42 0.17
29 53 0.22
30 47 0.20
31 27 0.11
32 1 0.00
33 5 0.02
34 18 0.07
35 24 0.10
36 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:1098179 original size:88 final size:86
Alignment explanation
Indices: 1098036--1098208 Score: 242
Period size: 88 Copynumber: 2.0 Consensus size: 86
1098026 AGTTCCTCAC
* * * *
1098036 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTTT
1 CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATC--TTTTC
*
1098101 CAAAGTCCACAAGTCAGTGGCAA
64 CAAAGTCCACAACTCAGTGGCAA
1098124 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCAAAGCCCACAAGTC-GATGGCATCTTTTC
1 CCTTCAAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAG-TGGCATCTTTTC
*
1098187 CAAAGTCCACAACTCCGTGGCA
64 CAAAGTCCACAACTCAGTGGCA
1098209 CTCTTTTTCT
Statistics
Matches: 77, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
86 24 0.31
87 21 0.27
88 32 0.42
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
AAGTCCACAACTCAGTGGCAA
Found at i:1098267 original size:34 final size:35
Alignment explanation
Indices: 1098193--1098267 Score: 107
Period size: 35 Copynumber: 2.2 Consensus size: 35
1098183 TTTCCAAAGT
* *
1098193 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
* *
1098228 TCACAACTCTGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
1098262 CCACAA
1 CCACAA
1098268 ATTAGTGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 10 0.29
35 25 0.71
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.36
Consensus pattern (35 bp):
CCACAACTCCGTAGCACTCTTTTTCCTTTGTAAGC
Found at i:1098284 original size:34 final size:35
Alignment explanation
Indices: 1098193--1098284 Score: 98
Period size: 35 Copynumber: 2.7 Consensus size: 35
1098183 TTTCCAAAGT
* * *
1098193 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAAATCTGTGGCACTCTTTTTCCTTTGTAAGC
* * *
1098228 TCACAACTCTGTAGCACTCTTTTTCCTTT-TAAGC
1 CCACAAATCTGTGGCACTCTTTTTCCTTTGTAAGC
*
1098262 CCACAAAT-TAGTGGCACCCTTTT
1 CCACAAATCT-GTGGCACTCTTTT
1098285 CAAAAGCCCA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
33 1 0.02
34 22 0.46
35 25 0.52
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (35 bp):
CCACAAATCTGTGGCACTCTTTTTCCTTTGTAAGC
Found at i:1098383 original size:28 final size:28
Alignment explanation
Indices: 1098258--1098368 Score: 150
Period size: 28 Copynumber: 3.9 Consensus size: 28
1098248 TTTTCCTTTT
* * *
1098258 AAGCCCACAAATTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
1098288 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
1098316 AAGCCCACAAGTCAGTAGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
*
1098344 AAGCCCAGAAGTCAGTGGCAACCTT
1 AAGCCCACAAGTCAGTGGCAACCTT
1098369 CCAAAGCACA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 50 0.68
29 3 0.04
30 20 0.27
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:1098646 original size:43 final size:43
Alignment explanation
Indices: 1098429--1098848 Score: 399
Period size: 43 Copynumber: 9.1 Consensus size: 43
1098419 GGCGTCTTAT
*
1098429 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C----C
* *
1098477 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGTACCTCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGG-----CACC
* *
1098525 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
1098574 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
* *
1098617 TTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTGGCATCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA----C--C
* * *
1098666 TTTAAGTCCAATGTAGCTAGGCCTTGAATCAACAAATTGGCACC
1 TTTAAGTCCAATATAGCT-GGCCTTGAATCAGCATATTGGCACC
* *
1098710 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C--C
* * * *
1098756 TTATTTAAGTCTAATGTAGCTAGGCCTTGAATCAGTACATTGGCACC
1 ---TTTAAGTCCAATATAGCT-GGCCTTGAATCAGCATATTGGCACC
*
1098803 TTTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1098846 TTT
1 TTT
1098849 TCCATCTTTA
Statistics
Matches: 311, Mismatches: 36, Indels: 55
0.77 0.09 0.14
Matches are distributed among these distances:
43 85 0.27
44 34 0.11
45 1 0.00
46 2 0.01
47 3 0.01
48 72 0.23
49 71 0.23
50 40 0.13
52 1 0.00
53 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:1098732 original size:93 final size:92
Alignment explanation
Indices: 1098429--1098901 Score: 669
Period size: 93 Copynumber: 5.0 Consensus size: 92
1098419 GGCGTCTTAT
* * * *
1098429 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1098493 CTGGCCTTGAATCAGCACATTGGTACCTCACC
66 CTGGCCTTGAATCAGCACATTGG-----CACC
1098525 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* *
1098590 CTGACCTTGAATCAGCATATTGGCACC
66 CTGGCCTTGAATCAGCACATTGGCACC
* *
1098617 TTTAAGTCCAATATCGCTGGCCTTCAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
* *
1098682 CTAGGCCTTGAATCAACAAATTGGCACC
66 CT-GGCCTTGAATCAGCACATTGGCACC
* * *
1098710 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCTTATTTAAGTCTAATGTAG
1 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
*
1098775 CTAGGCCTTGAATCAGTACATTGGCACC
66 CT-GGCCTTGAATCAGCACATTGGCACC
* * * *
1098803 TTTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATG
*
1098868 TAGCTGGCCTTGAATCAGCACATTGACATCC
63 TAGCTGGCCTTGAATCAGCACATTGGCA-CC
1098899 TTT
1 TTT
1098902 TTCTCATCTT
Statistics
Matches: 343, Mismatches: 28, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
92 69 0.20
93 147 0.43
95 23 0.07
96 65 0.19
97 39 0.11
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (92 bp):
TTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGAATCAGCACATTGGCACC
Found at i:1098880 original size:52 final size:53
Alignment explanation
Indices: 1098802--1098955 Score: 184
Period size: 52 Copynumber: 2.9 Consensus size: 53
1098792 ACATTGGCAC
*
1098802 CTTTAAGTCCAATATAGCTGGTCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
* * * *
1098854 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCTCAT
* * * * * *
1098909 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT
1098956 ATCACTTTTC
Statistics
Matches: 84, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
52 37 0.44
53 5 0.06
54 6 0.07
55 36 0.43
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCTCAT
Found at i:1099732 original size:13 final size:13
Alignment explanation
Indices: 1099714--1099770 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1099704 CATAAAGTAT
1099714 TGTATCGATACAA
1 TGTATCGATACAA
1099727 TGTATCGATACATAA
1 TGTATCGATAC--AA
1099742 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1099759 TGTATCGATACA
1 TGTATCGATACA
1099771 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1099751 original size:19 final size:18
Alignment explanation
Indices: 1099692--1099789 Score: 81
Period size: 19 Copynumber: 5.8 Consensus size: 18
1099682 AATTCAATGA
1099692 TTTGTATCGATACATAAAG
1 TTTGTATCGATACAT-AAG
1099711 TATTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1099727 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1099743 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1099759 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
1099775 TTTTGTATCAATACA
1 -TTTGTATCGATACA
1099790 ATTTAAGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 26
0.71 0.01 0.28
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1099754 original size:32 final size:32
Alignment explanation
Indices: 1099694--1099791 Score: 160
Period size: 32 Copynumber: 3.0 Consensus size: 32
1099684 TTCAATGATT
1099694 TGTATCGATACATAAAGTATTGTATCGATACAA
1 TGTATCGATACAT-AAGTATTGTATCGATACAA
*
1099727 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
* *
1099759 TGTATCGATACATAAGTTTTGTATCAATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1099791 T
1 T
1099792 TTAAGCTACT
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
32 49 0.79
33 13 0.21
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1099994 original size:52 final size:52
Alignment explanation
Indices: 1099865--1099994 Score: 242
Period size: 52 Copynumber: 2.5 Consensus size: 52
1099855 CACTGATCTT
*
1099865 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
*
1099917 TGTATCGATACATGCAGGCAAATTTTCTCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
1099969 TGTATCGATACATGCAGGCAAATTTT
1 TGTATCGATACATGCAGGCAAATTTT
1099995 TATATTTTGA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTTCCCAGATGTATCGATACACTATAAAA
Found at i:1108319 original size:13 final size:13
Alignment explanation
Indices: 1108301--1108326 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1108291 CAATATTCTA
1108301 TGTATCGATACAT
1 TGTATCGATACAT
1108314 TGTATCGATACAT
1 TGTATCGATACAT
1108327 GGGTTACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1108780 original size:20 final size:22
Alignment explanation
Indices: 1108755--1108799 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
1108745 GAAGCCACCT
*
1108755 CCAGGTCGCAA-TTGGCA-CTC
1 CCAGGTCGCAACTGGGCAGCTC
1108775 CCAGGTCGCAACTGGGCAGCTC
1 CCAGGTCGCAACTGGGCAGCTC
1108797 CCA
1 CCA
1108800 CACCTACTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.50
21 5 0.23
22 6 0.27
ACGTcount: A:0.20, C:0.38, G:0.27, T:0.16
Consensus pattern (22 bp):
CCAGGTCGCAACTGGGCAGCTC
Found at i:1110869 original size:33 final size:33
Alignment explanation
Indices: 1110832--1110911 Score: 151
Period size: 33 Copynumber: 2.4 Consensus size: 33
1110822 TACATGGTAC
1110832 ATTGTATCGATACAATATATCGATACATAAGGA
1 ATTGTATCGATACAATATATCGATACATAAGGA
*
1110865 ATTGTATCGATACAATATATCGATACATAATGA
1 ATTGTATCGATACAATATATCGATACATAAGGA
1110898 ATTGTATCGATACA
1 ATTGTATCGATACA
1110912 TTGCTTCTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAATATATCGATACATAAGGA
Found at i:1110874 original size:20 final size:19
Alignment explanation
Indices: 1110849--1110912 Score: 59
Period size: 20 Copynumber: 3.6 Consensus size: 19
1110839 CGATACAATA
1110849 TATCGATACATAAGGAATTG
1 TATCGATACATAA-GAATTG
*
1110869 TATCGATAC-----AA-TA
1 TATCGATACATAAGAATTG
1110882 TATCGATACATAATGAATTG
1 TATCGATACATAA-GAATTG
1110902 TATCGATACAT
1 TATCGATACAT
1110913 TGCTTCTAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
13 10 0.29
14 2 0.06
19 2 0.06
20 21 0.60
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (19 bp):
TATCGATACATAAGAATTG
Found at i:1116233 original size:28 final size:27
Alignment explanation
Indices: 1116202--1116273 Score: 72
Period size: 28 Copynumber: 2.6 Consensus size: 27
1116192 CCACAATCTT
* *
1116202 CAATGGAATCAAGAAAAGTGATAATCCC
1 CAATAGAATCAAGAAAAGTG-CAATCCC
* * *
1116230 CAATTGAATCATGACAAATTGCAATCCC
1 CAATAGAATCAAGA-AAAGTGCAATCCC
*
1116258 CAGTAGAATCAAGAAA
1 CAATAGAATCAAGAAA
1116274 CTTGCAATGG
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 2 0.06
28 29 0.81
29 5 0.14
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.19
Consensus pattern (27 bp):
CAATAGAATCAAGAAAAGTGCAATCCC
Found at i:1116959 original size:32 final size:32
Alignment explanation
Indices: 1116889--1117070 Score: 174
Period size: 32 Copynumber: 5.7 Consensus size: 32
1116879 TTATCCTTTT
* * *
1116889 AAGCCCACACAAGCTGGTGGCAAC-CTTCCCA
1 AAGCCCACACAAGTTGGTGGCAACTTTTCTCA
**
1116920 AAGCCCACACAAGCCGGTGGCAACTTTTCTCA
1 AAGCCCACACAAGTTGGTGGCAACTTTTCTCA
*
1116952 AAGCCCACATAAGTTGGTGGCAACCTTTT-TCCA
1 AAGCCCACACAAGTTGGTGGCAA-CTTTTCT-CA
* *** *
1116985 AAGCCCACATAAGTCAATGGCAA-TCTTCCTCA
1 AAGCCCACACAAGTTGGTGGCAACT-TTTCTCA
*
1117017 AAGCCCACACAAGTTGGTGGCAA-TCTTCTCAA
1 AAGCCCACACAAGTTGGTGGCAACTTTTCTC-A
* *
1117049 AAGCCCAAACATGTTGGTGGCA
1 AAGCCCACACAAGTTGGTGGCA
1117071 TCCCCTTCCA
Statistics
Matches: 127, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
31 28 0.22
32 71 0.56
33 28 0.22
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (32 bp):
AAGCCCACACAAGTTGGTGGCAACTTTTCTCA
Found at i:1117017 original size:65 final size:63
Alignment explanation
Indices: 1116889--1117055 Score: 201
Period size: 65 Copynumber: 2.6 Consensus size: 63
1116879 TTATCCTTTT
* ** *
1116889 AAGCCCACACAAGCTGGTGGCAACCTTCCCAAAGCCCACACAAGCCGGTGGCAACTTTTCTCA
1 AAGCCCACACAAGTTGGTGGCAACCTTCCCAAAGCCCACACAAGCCAATGGCAACTTTCCTCA
* * * *
1116952 AAGCCCACATAAGTTGGTGGCAACCTTTTTCCAAAGCCCACATAAGTCAATGGCAA-TCTTCCTC
1 AAGCCCACACAAGTTGGTGGCAACC--TTCCCAAAGCCCACACAAGCCAATGGCAACT-TTCCTC
1117016 A
63 A
* *
1117017 AAGCCCACACAAGTTGGTGGCAATCTTCTCAAAAGCCCA
1 AAGCCCACACAAGTTGGTGGCAACCTTC-CCAAAGCCCA
1117056 AACATGTTGG
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
63 25 0.28
64 10 0.11
65 53 0.60
ACGTcount: A:0.31, C:0.32, G:0.17, T:0.20
Consensus pattern (63 bp):
AAGCCCACACAAGTTGGTGGCAACCTTCCCAAAGCCCACACAAGCCAATGGCAACTTTCCTCA
Found at i:1117330 original size:104 final size:104
Alignment explanation
Indices: 1117209--1117396 Score: 259
Period size: 104 Copynumber: 1.8 Consensus size: 104
1117199 GTCTAATGTT
* * * *
1117209 GTTGGCCCTGAATCAGCATATTAGCACTTTTTTCATCTTCAAGTTTGATATTGCTGGCCTTGAAT
1 GTTGGCCCTGAATCAGCATATTAGCACTTTTGTCATCTTCAAGTCTGATATCGCTGGCCGTGAAT
*
1117274 CAGCAAATTATTACCTTTACCATCTCTAAGTCCAATATC
66 CAGCAAATTAGTACCTTTACCATCTCTAAGTCCAATATC
* * * * * *
1117313 GTTGGCCTTGAATCAGCATATTAGCAGTTTTGTCATTTTTAGGTCTGATATCGTTGGCCGTGAAT
1 GTTGGCCCTGAATCAGCATATTAGCACTTTTGTCATCTTCAAGTCTGATATCGCTGGCCGTGAAT
* *
1117378 CAGCATATTGGTACCTTTA
66 CAGCAAATTAGTACCTTTA
1117397 TCATTCTTGT
Statistics
Matches: 71, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
104 71 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (104 bp):
GTTGGCCCTGAATCAGCATATTAGCACTTTTGTCATCTTCAAGTCTGATATCGCTGGCCGTGAAT
CAGCAAATTAGTACCTTTACCATCTCTAAGTCCAATATC
Found at i:1117401 original size:52 final size:52
Alignment explanation
Indices: 1117209--1117400 Score: 186
Period size: 52 Copynumber: 3.7 Consensus size: 52
1117199 GTCTAATGTT
* * * * * *
1117209 GTTGGCCCTGAATCAGCATATTAGCACTTTTTTCATCTTCAAGTTTGATATT
1 GTTGGCCTTGAATCAGCATATTAGCACCTTTATCATCTTTAAGTCTGATATC
* * ** * * **
1117261 GCTGGCCTTGAATCAGCAAATTATTACCTTTACCATCTCTAAGTCCAATATC
1 GTTGGCCTTGAATCAGCATATTAGCACCTTTATCATCTTTAAGTCTGATATC
** * * *
1117313 GTTGGCCTTGAATCAGCATATTAGCAGTTTTGTCATTTTTAGGTCTGATATC
1 GTTGGCCTTGAATCAGCATATTAGCACCTTTATCATCTTTAAGTCTGATATC
* * *
1117365 GTTGGCCGTGAATCAGCATATTGGTACCTTTATCAT
1 GTTGGCCTTGAATCAGCATATTAGCACCTTTATCAT
1117401 TCTTGTCAAT
Statistics
Matches: 107, Mismatches: 33, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
52 107 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (52 bp):
GTTGGCCTTGAATCAGCATATTAGCACCTTTATCATCTTTAAGTCTGATATC
Found at i:1117676 original size:61 final size:62
Alignment explanation
Indices: 1117558--1117693 Score: 163
Period size: 61 Copynumber: 2.2 Consensus size: 62
1117548 TATTGGCATC
* * *
1117558 CTTTGTCATCTTTAAGCCCAATATTACTGGCCTTGAATCAACATATTAACATCTTTATTATT
1 CTTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAACATATTAACATCTTTATCATT
** **
1117620 CTTT-TCATCTTTAAGCCCAATATCGTTGG-CTGTGAATCAACATATTGGCA-CTTTTATCATT
1 CTTTCTCATCTTTAAGCCCAATATCACTGGCCT-TGAATCAACATATTAACATC-TTTATCATT
1117681 -TTTCTCATCTTTA
1 CTTTCTCATCTTTA
1117694 TCATCATCTT
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
60 6 0.09
61 55 0.85
62 4 0.06
ACGTcount: A:0.26, C:0.21, G:0.10, T:0.43
Consensus pattern (62 bp):
CTTTCTCATCTTTAAGCCCAATATCACTGGCCTTGAATCAACATATTAACATCTTTATCATT
Found at i:1125355 original size:32 final size:33
Alignment explanation
Indices: 1125295--1125357 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
1125285 AACCCATAAG
*
1125295 TATCGATACATATTGCTTTGTATCGATACACTA
1 TATCGATACATATTGCTTGGTATCGATACACTA
1125328 TATCGATACATGA-T-CTTGGTATCGATACAC
1 TATCGATACAT-ATTGCTTGGTATCGATACAC
1125358 AGTGAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (33 bp):
TATCGATACATATTGCTTGGTATCGATACACTA
Found at i:1127544 original size:20 final size:22
Alignment explanation
Indices: 1127504--1127549 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 22
1127494 TAATGTGCTT
1127504 AAAAAGAAATAAGAAGAATTAG
1 AAAAAGAAATAAGAAGAATTAG
*
1127526 AAAAA-AAATAAG-TGAATTAG
1 AAAAAGAAATAAGAAGAATTAG
1127546 AAAA
1 AAAA
1127550 GAAGATACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 11 0.48
21 7 0.30
22 5 0.22
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (22 bp):
AAAAAGAAATAAGAAGAATTAG
Found at i:1127605 original size:21 final size:21
Alignment explanation
Indices: 1127581--1127621 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1127571 TGGTAATAAA
1127581 GAATTAGCTAATGAA-AACAAT
1 GAATTAGCTAA-GAAGAACAAT
1127602 GAATTAGCTAAGAAGAACAA
1 GAATTAGCTAAGAAGAACAA
1127622 GAACTTGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.54, C:0.10, G:0.17, T:0.20
Consensus pattern (21 bp):
GAATTAGCTAAGAAGAACAAT
Found at i:1134584 original size:31 final size:32
Alignment explanation
Indices: 1134543--1134606 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
1134533 CATTCAAGTT
*
1134543 TTATTATTTCAAAGAGCTTTTGTATT-CTTTG
1 TTATTATTTCAAAGAGCATTTGTATTCCTTTG
* **
1134574 TTATTCTTTCAAAGCTCATTTGTATTCCTTTG
1 TTATTATTTCAAAGAGCATTTGTATTCCTTTG
1134606 T
1 T
1134607 GCTTATTCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
31 22 0.79
32 6 0.21
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.55
Consensus pattern (32 bp):
TTATTATTTCAAAGAGCATTTGTATTCCTTTG
Found at i:1135249 original size:20 final size:19
Alignment explanation
Indices: 1135203--1135259 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1135193 TTGAATTGAT
*
1135203 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
1135222 TCATTGTATGGATACATGG
1 ACATTGTATCGATACATGG
*
1135241 ACAATTGTATTGATACATG
1 AC-ATTGTATCGATACATG
1135260 AAACTACCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1135352 original size:33 final size:33
Alignment explanation
Indices: 1135291--1135355 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
1135281 TCACTGTTTG
* *
1135291 TATCGATACATGGTACATTGCATTGATACATTT
1 TATCGATACATGATACATTGCATCGATACATTT
*
1135324 TATCGATACATGATGA-ATTGTATCGATACATT
1 TATCGATACATGAT-ACATTGCATCGATACATT
1135356 GCTTGTAACG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (33 bp):
TATCGATACATGATACATTGCATCGATACATTT
Found at i:1141293 original size:21 final size:21
Alignment explanation
Indices: 1141269--1141312 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
1141259 ATCTATGTGA
* *
1141269 TGTAGTGATTTTTGATGATTT
1 TGTAGTGATTTTGGATGAATT
*
1141290 TGTATTGATTTTGGATGAATT
1 TGTAGTGATTTTGGATGAATT
1141311 TG
1 TG
1141313 GTGCTTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.25, T:0.55
Consensus pattern (21 bp):
TGTAGTGATTTTGGATGAATT
Found at i:1143974 original size:13 final size:13
Alignment explanation
Indices: 1143956--1143982 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1143946 ACATTATGCT
1143956 TTGTATCGATACA
1 TTGTATCGATACA
1143969 TTGTATCGATACA
1 TTGTATCGATACA
1143982 T
1 T
1143983 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1144012 original size:20 final size:19
Alignment explanation
Indices: 1143966--1144013 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
1143956 TTGTATCGAT
*
1143966 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
1143985 TCATTGTATGGATACATGG
1 ACATTGTATCGATACATGG
1144004 ACAATTGTAT
1 AC-ATTGTAT
1144014 TGATGCAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1146518 original size:16 final size:17
Alignment explanation
Indices: 1146499--1146538 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1146489 AAAGAAAAAG
*
1146499 GAAAAAAA-CATGAAAT
1 GAAAAAAATCAGGAAAT
*
1146515 GAAAAAAATGAGGAAAT
1 GAAAAAAATCAGGAAAT
1146532 GAAAAAA
1 GAAAAAA
1146539 TGCTACATCC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.70, C:0.03, G:0.17, T:0.10
Consensus pattern (17 bp):
GAAAAAAATCAGGAAAT
Found at i:1154897 original size:52 final size:52
Alignment explanation
Indices: 1154819--1154947 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1154809 CGAAATATGA
1154819 AAATTTGCCTGCATGTATCGATACATTTAATAGTGCATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGCATCAATACATCTGGGC
* * * *
1154871 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGCATCAATACATCTGGGC
*
1154923 AAATTTGCCAGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1154948 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGCATCAATACATCTGGGC
Found at i:1154958 original size:52 final size:51
Alignment explanation
Indices: 1154819--1154967 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
1154809 CGAAATATGA
* *
1154819 AAATTTGCCTGCATGTATCGATACATTTAATAGTGCATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
1154871 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
1154923 AAATTTGCCAGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1154968 ATGTATCGAT
Statistics
Matches: 88, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
51 2 0.02
52 86 0.98
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:1154974 original size:13 final size:13
Alignment explanation
Indices: 1154956--1155014 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
1154946 CAAAGATCAG
1154956 TGTATCGATACAA
1 TGTATCGATACAA
1154969 TGTATCGATAC-A
1 TGTATCGATACAA
*
1154981 T-T-T-GAGT--AG
1 TGTATCGA-TACAA
1154990 TGTATCGATACAA
1 TGTATCGATACAA
1155003 TGTATCGATACA
1 TGTATCGATACA
1155015 TTTGAGTAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 14
0.70 0.04 0.26
Matches are distributed among these distances:
9 3 0.08
10 3 0.08
11 3 0.08
12 4 0.11
13 24 0.65
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1154997 original size:34 final size:34
Alignment explanation
Indices: 1154954--1155035 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
1154944 TACAAAGATC
1154954 AGTGTATCGATACAATGTATCGATACATTTGAGT
1 AGTGTATCGATACAATGTATCGATACATTTGAGT
1154988 AGTGTATCGATACAATGTATCGATACATTTGAGT
1 AGTGTATCGATACAATGTATCGATACATTTGAGT
1155022 AGTGTATCGATACA
1 AGTGTATCGATACA
1155036 TTTTTTGGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.21, T:0.34
Consensus pattern (34 bp):
AGTGTATCGATACAATGTATCGATACATTTGAGT
Found at i:1155080 original size:19 final size:19
Alignment explanation
Indices: 1155056--1155122 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 19
1155046 GTAGCTTACA
1155056 TTGTATCGATACAAAACTT
1 TTGTATCGATACAAAACTT
1155075 TTGTATCGATAC---A---
1 TTGTATCGATACAAAACTT
*
1155088 TTGTATCGATACAACACTT
1 TTGTATCGATACAAAACTT
1155107 TATGTATCGATACAAA
1 T-TGTATCGATACAAA
1155123 TCGTTGAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
13 12 0.30
16 2 0.05
19 13 0.32
20 13 0.32
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACAAAACTT
Found at i:1155093 original size:13 final size:13
Alignment explanation
Indices: 1155075--1155100 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1155065 TACAAAACTT
1155075 TTGTATCGATACA
1 TTGTATCGATACA
1155088 TTGTATCGATACA
1 TTGTATCGATACA
1155101 ACACTTTATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1155093 original size:32 final size:33
Alignment explanation
Indices: 1155052--1155120 Score: 122
Period size: 32 Copynumber: 2.1 Consensus size: 33
1155042 GGTAGTAGCT
1155052 TACATTGTATCGATACAAAACTTT-TGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
*
1155084 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAACTTTATGTATCGA
1155117 TACA
1 TACA
1155121 AATCGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 23 0.66
33 12 0.34
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (33 bp):
TACATTGTATCGATACAAAACTTTATGTATCGA
Found at i:1155986 original size:52 final size:49
Alignment explanation
Indices: 1155909--1156301 Score: 459
Period size: 52 Copynumber: 8.1 Consensus size: 49
1155899 CTTAGGAATG
* *
1155909 TTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
**
1155958 TTAAAGATGACAAAGACGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* *
1156010 TTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATGGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1156062 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
1156105 TTAAAAGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TT-AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
** *
1156155 TTGGAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1 TTAAAGATG---AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
* * *
1156207 TT----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGAC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
*
1156250 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC
1 TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
1156299 TTA
1 TTA
1156302 GAAGGGTTGC
Statistics
Matches: 298, Mismatches: 27, Indels: 38
0.82 0.07 0.10
Matches are distributed among these distances:
43 75 0.25
47 1 0.00
48 3 0.01
49 53 0.18
50 38 0.13
52 128 0.43
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (49 bp):
TTAAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC
Found at i:1156082 original size:43 final size:44
Alignment explanation
Indices: 1156021--1156306 Score: 256
Period size: 43 Copynumber: 6.1 Consensus size: 44
1156011 TAAAGATGAC
*
1156021 AAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTT-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTTA
* *
1156064 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGG-CTTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATA-TGGGACTT--A
*
1156110 AGATGAGGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGGAGATGA
1 A-A--A-GGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGAC-T-----T-A
* *
1156165 CAAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-
1 -AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTTA
* * * *
1156209 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTT--A
1156255 GATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGG-CTTA
1 -A--AAGGTGCCAATATGCTGATTCAAGGCCAGCGATA-TGGGACTTA
*
1156302 GAAGG
1 AAAGG
1156307 GTTGCCACCG
Statistics
Matches: 203, Mismatches: 17, Indels: 45
0.77 0.06 0.17
Matches are distributed among these distances:
43 74 0.36
44 8 0.04
46 2 0.01
47 3 0.01
49 38 0.19
50 34 0.17
51 2 0.01
52 37 0.18
53 1 0.00
55 2 0.01
56 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATGGGACTTA
Found at i:1156183 original size:145 final size:144
Alignment explanation
Indices: 1155918--1156301 Score: 651
Period size: 145 Copynumber: 2.6 Consensus size: 144
1155908 GTTAAAGATG
**
1155918 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACAAAGACGCCAATAT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG---AAGGTGCCAATAT
1155983 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
63 GCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGC
1156048 CAGCGATATGGGACTTA
128 CAGCGATATGGGACTTA
* *
1156065 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAAGATGAGGGTGCCAATATGC
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAAGATGAAGGTGCCAATATGC
**
1156130 TGATTCAAGGCCAGCGATATTGGACTTGGAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
65 TGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCA
*
1156195 GCGATATTGGACTTA
130 GCGATATGGGACTTA
*
1156210 AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCT
*
1156275 GATTCAAGGCCAGCGATATTGGGCTTA
66 GATTCAAGGCCAGCGATATTGGACTTA
1156302 GAAGGGTTGC
Statistics
Matches: 224, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
144 47 0.21
145 129 0.58
147 41 0.18
148 7 0.03
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (144 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATATGCT
GATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGCGCCAATATGCTGATTCAAGGCCAG
CGATATGGGACTTA
Found at i:1156345 original size:33 final size:33
Alignment explanation
Indices: 1156301--1156462 Score: 267
Period size: 33 Copynumber: 4.9 Consensus size: 33
1156291 TATTGGGCTT
1156301 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
1156334 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1156367 AG-AGGGTTGCCACCGACTTGTGTGGGC-TTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1156398 -GAAGAAGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAG--GGTTGCCACCGACTTGTGTGGGCTTTAG
1156432 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1156463 CGAAGGGAAA
Statistics
Matches: 120, Mismatches: 4, Indels: 10
0.90 0.03 0.07
Matches are distributed among these distances:
30 1 0.01
31 6 0.05
32 23 0.19
33 82 0.68
34 4 0.03
35 4 0.03
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:1156380 original size:65 final size:66
Alignment explanation
Indices: 1156294--1156462 Score: 276
Period size: 65 Copynumber: 2.6 Consensus size: 66
1156284 CCAGCGATAT
1156294 TGGGC-TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTA-G-AGAATGGTTGCCACCAACTTG
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAA-GGTTGCCACCAACTTG
1156355 TG
65 TG
*
1156357 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGC-TTAGGAAGAAGGTTGCCACCGACTTGT
1 TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAAGGTTGCCACCAACTTGT
1156421 G
66 G
1156422 TGGGCTTTAGAGAAGGGTTGCCACCGACTTGTGTGGGCTTT
1 TGGGCTTTAGAG-AGGGTTGCCACCGACTTGTGTGGGCTTT
1156463 CGAAGGGAAA
Statistics
Matches: 99, Mismatches: 1, Indels: 8
0.92 0.01 0.07
Matches are distributed among these distances:
63 5 0.05
64 8 0.08
65 55 0.56
66 29 0.29
67 2 0.02
ACGTcount: A:0.18, C:0.18, G:0.36, T:0.28
Consensus pattern (66 bp):
TGGGCTTTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTAGGAAGAAGGTTGCCACCAACTTGT
G
Found at i:1156648 original size:34 final size:33
Alignment explanation
Indices: 1156453--1156983 Score: 362
Period size: 34 Copynumber: 16.2 Consensus size: 33
1156443 CACCGACTTG
* * *
1156453 TGTGGGCTTTCGAAGGGAAAAAGAGTGCCATGAAGT
1 TGTGGACTTT-GAA-GGAAAAAG-GTGCCACGGAGT
* * *
1156489 TGTGGGCTTTGAA--AAGAAGGTGCCACGGGGT
1 TGTGGACTTTGAAGGAAAAAGGTGCCACGGAGT
* ** * * * *
1156520 CGTGGACTTAAAACGAACAAGGTGCCAAGGGGT
1 TGTGGACTTTGAAGGAAAAAGGTGCCACGGAGT
*
1156553 TGTGGAC-TTGAAAAGGGAGAAAGAGTGCCACGGAGT
1 TGTGGACTTTG--AA-GGAAAAAG-GTGCCACGGAGT
*
1156589 TGT-GAGCTTTGAA--AAGAAGGTGCCACGGAGT
1 TGTGGA-CTTTGAAGGAAAAAGGTGCCACGGAGT
* * *
1156620 TGTGAACTTTGAAAGGAACAAGGTGCCACGGGGT
1 TGTGGACTTTG-AAGGAAAAAGGTGCCACGGAGT
* ** * * *
1156654 CGTGGACTTAAAAAG-AAAAGGTACCACGAAGT
1 TGTGGACTTTGAAGGAAAAAGGTGCCACGGAGT
* * * *
1156686 GGTGGGCTTTGAAAAGATAAAGGTGCCACGGAGT
1 TGTGGACTTTG-AAGGAAAAAGGTGCCACGGAGT
* * * *
1156720 TGTGGGCTTTAAAAAGAAAAAGGGTGCCATGGAGT
1 TGTGGACTTT-GAAGGAAAAA-GGTGCCACGGAGT
*
1156755 TGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTTGAAGGAAAAAG-GTGCCACGGAGT
* *
1156789 TGTGGGC-TT-----AAAAGGGTGCCACGGAGT
1 TGTGGACTTTGAAGGAAAAAGGTGCCACGGAGT
* * *
1156816 CGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGT
1 TGTGGACTTTGAAGGAAAAAG-GTGCCACGGAGT
* *
1156850 TGTGGGCTTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTTGAAGGAAAAAG-GTGCCACGGAGT
* *
1156884 TGTGGGC-TT-----AAAAGGGTGCCACGGAGT
1 TGTGGACTTTGAAGGAAAAAGGTGCCACGGAGT
*
1156911 TGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTTGAAGGAAAAAG-GTGCCACGGAGT
* **
1156945 TGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGT
1 TGTGGACTTTGAAGGAAAAAG-GTGCCACGGAGT
1156979 TGTGG
1 TGTGG
1156984 GCTTAAAATG
Statistics
Matches: 398, Mismatches: 66, Indels: 64
0.75 0.12 0.12
Matches are distributed among these distances:
27 35 0.09
28 12 0.03
31 38 0.10
32 33 0.08
33 42 0.11
34 179 0.45
35 32 0.08
36 24 0.06
37 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.19
Consensus pattern (33 bp):
TGTGGACTTTGAAGGAAAAAGGTGCCACGGAGT
Found at i:1156832 original size:61 final size:62
Alignment explanation
Indices: 1156736--1157047 Score: 302
Period size: 61 Copynumber: 5.0 Consensus size: 62
1156726 CTTTAAAAAG
* *
1156736 AAAAAGGGTGCCATGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
1156798 -AAAAGGGTGCCACGGAGTCGTGGACTTAGAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
* * *
1156859 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA-G-----G-GTGCCACGGAGTTGTGGA
1 ------AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1156917 CTT
60 CTT
* *
1156920 AGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1 ------AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1156985 CTT
60 CTT
* ** * * *
1156988 -AAAATGGTGCCATAGAGTTGTGGACTTAAAAGG-AATATAGTGCCACGTAGTTGTGGGCTT
1 AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1157048 TGCAGAAAAG
Statistics
Matches: 218, Mismatches: 18, Indels: 30
0.82 0.07 0.11
Matches are distributed among these distances:
60 24 0.11
61 143 0.66
62 2 0.01
67 2 0.01
68 47 0.22
ACGTcount: A:0.31, C:0.12, G:0.36, T:0.21
Consensus pattern (62 bp):
AAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTT
Found at i:1156853 original size:95 final size:98
Alignment explanation
Indices: 1156468--1157043 Score: 631
Period size: 95 Copynumber: 5.9 Consensus size: 98
1156458 GCTTTCGAAG
* * * *
1156468 GGAAAAAGAGTGCCATGAAGTTGTGGGCTTTGAAAAGAAGGTGCCACGGGGTCGTGGACTTAAAA
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AGGTGCCACGGAGTTGTGGACTTAAAA
* * * *
1156533 CGAACAAG-GTGCCAAGGGGTTGTGGACTTGAAAA
65 GGAAAAAGAGTGCCACGGAGTTGTGGACTT-AAAA
* * * *
1156567 GGGAGAAAGAGTGCCACGGAGTTGTGAGCTTTGAAAAGAAGGTGCCACGGAGTTGTGAACTTTGA
1 -GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG-AGGTGCCACGGAGTTGTGGAC-TTAA
* * *
1156632 AAGGAACAAG-GTGCCACGGGGTCGTGGACTTAAAA
63 AAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
* * * * *
1156667 AG-AAAAG-GTACCACGAAGTGGTGGGCTTTGAAAAGATAAAGGTGCCACGGAGTTGTGGGCTTT
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAG----AGGTGCCACGGAGTTGTGGAC-TT
* * * *
1156730 AAAAAGAAAAAGGGTGCCATGGAGTTGTGGACTTAGAA
61 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
* *
1156768 GGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG-GGTGCCACGGAGTCGTGGACTTAGAAG
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
1156830 GAAAAAGAGTGCCACAGAGTTGTGGGCTTAGAA
66 GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
*
1156863 GGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAAG-GGTGCCACGGAGTTGTGGACTTAGAAG
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAG
*
1156925 GAAAAAGAGTGCCACGGAGTTGTGGGCTTAAAA
66 GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
* **
1156958 GGAAAAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-TGGTGCCATAGAGTTGTGGACTTAAAAG
1 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAG
* * *
1157020 G-AATATAGTGCCACGTAGTTGTGG
66 GAAAAAGAGTGCCACGGAGTTGTGG
1157044 GCTTTGCAGA
Statistics
Matches: 421, Mismatches: 47, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
94 20 0.05
95 185 0.44
96 18 0.04
97 24 0.06
98 4 0.01
99 1 0.00
100 88 0.21
101 58 0.14
102 7 0.02
103 16 0.04
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.20
Consensus pattern (98 bp):
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGAAAAGAGGTGCCACGGAGTTGTGGACTTAAAAG
GAAAAAGAGTGCCACGGAGTTGTGGACTTAAAA
Found at i:1158422 original size:31 final size:31
Alignment explanation
Indices: 1158364--1158421 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1158354 CCTTTGCACC
1158364 TTTTTTCTGTGTTTTATTTTATTTTTTTGGT
1 TTTTTTCTGTGTTTTATTTTATTTTTTTGGT
* *
1158395 TTTTTTGTGTGTTTT-TTTTGTTTTTTT
1 TTTTTTCTGTGTTTTATTTTATTTTTTT
1158422 TTCATCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.03, C:0.02, G:0.14, T:0.81
Consensus pattern (31 bp):
TTTTTTCTGTGTTTTATTTTATTTTTTTGGT
Found at i:1165422 original size:13 final size:13
Alignment explanation
Indices: 1165404--1165428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1165394 CAAAGATCAG
1165404 TGTATCGATACAA
1 TGTATCGATACAA
1165417 TGTATCGATACA
1 TGTATCGATACA
1165429 TTTGGGTAGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1165495 original size:19 final size:18
Alignment explanation
Indices: 1165471--1165568 Score: 72
Period size: 19 Copynumber: 5.8 Consensus size: 18
1165461 TAGCTTACAT
1165471 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
1165490 TGTATCAATAC--A--T-
1 TGTATCGATACAAACTTA
1165503 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1165522 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
*
1165535 TCTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
1165555 TGTATCGATACAAA
1 TGTATCGATACAAA
1165569 TCGTTGAAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 26
0.67 0.04 0.28
Matches are distributed among these distances:
13 20 0.32
14 2 0.03
16 4 0.06
18 1 0.02
19 23 0.37
20 12 0.19
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1165507 original size:32 final size:32
Alignment explanation
Indices: 1165466--1165566 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
1165456 GGCAGTAGCT
* *
1165466 TACATTGTATCGATACAAAACTTATGTATCAA
1 TACATTGTATCGATACAACACTTATGTATCGA
1165498 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1165530 TACATTCTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
1165563 TACA
1 TACA
1165567 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 50 0.77
33 15 0.23
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1169588 original size:156 final size:155
Alignment explanation
Indices: 1169155--1169783 Score: 585
Period size: 156 Copynumber: 4.0 Consensus size: 155
1169145 TGTCCACTAG
* ** * * *
1169155 GGTTACC-GAGATACTTTCATGTTTAAGGTATACCC-TTAGAGGTATTTTTATAATTTTTTTAAA
1 GGTTACCAG-GATACTTTTATGTCAAAGATATACCCATAAG-GGCATTTTTATAA-TTTTTTAAA
* * * * *
1169218 CCTAGTCCTAGGTTGTCACCGGGTCAGCTTTTTTGCCGAAGGTGGGCATTTAGGATAGGTTAATC
63 CCTAGTCCTAGGTTGTCACCCGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATC
*
1169283 CCATCTCTAATCTTTTTAAGTCCTTTAA
128 CCATCTTTAATCTTTTTAAGTCCTTTAA
* * * * * * ** **
1169311 GGTTACCAAGATACTTTCATGTCGAAG--GTACCTAT-AGGGGATTTTCGTAA-TTTCAAAACCT
1 GGTTACCAGGATACTTTTATGTCAAAGATATACCCATAAGGGCATTTTTATAATTTTTTAAACCT
* ** ***
1169372 AGTCTTAGGTTGTCACCCGGTCCACTTTTATGTTAAAGGTGGGTATTTAGGATAGGTTCATCCCA
66 AGTCCTAGGTTGTCACCCGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCA
*
1169437 TCTTTAATCTTTTTAAGTCCTTTAG
131 TCTTTAATCTTTTTAAGTCCTTTAA
* *
1169462 GGTTACCAGGATA-TGTTTATGTCAAAGATATACCCATAAGGGCATTTTTATAATTTTTTAGAGC
1 GGTTACCAGGATACT-TTTATGTCAAAGATATACCCATAAGGGCATTTTTATAATTTTTTAAACC
** *
1169526 TGAGTCCTAGGTTGTCACTAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGTTTCATCC
65 T-AGTCCTAGGTTGTCACCCGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCC
*
1169591 CACCTTTAATCTTTTTAAGTCCTTTAA
129 CATCTTTAATCTTTTTAAGTCCTTTAA
* * * * * *
1169618 GGTTA-CTGAGATACTTTTAAGTCTCATCTCTAATACTCAATACCCATAAGGGTATTATTGTAAT
1 GGTTACCAG-GATACTTTT-A-TGTCA-----AAGA-T--ATACCCATAAGGGCATTTTTATAAT
* * * *
1169682 TTTTTAAAACCTAGTCTTAGGTTGTCA-CCGAGTTTGCTTTTATGCCGAAGATGAGTATTTAGGA
55 TTTTT-AAACCTAGTCCTAGGTTGTCACCCG-GTCTGCTTTTATGCCGAAGGTGGGTATTTAGGA
* *
1169746 CAGGTTCATCCCAT-TTGTAATCCTTTTTAACTCCTTTA
118 TAGGTTCATCCCATCTT-TAAT-CTTTTTAAGTCCTTTA
1169784 GGGGTATCGG
Statistics
Matches: 386, Mismatches: 63, Indels: 37
0.79 0.13 0.08
Matches are distributed among these distances:
150 1 0.00
151 109 0.28
153 16 0.04
154 18 0.05
155 10 0.03
156 114 0.30
157 2 0.01
158 4 0.01
163 3 0.01
164 1 0.00
165 3 0.01
166 86 0.22
167 19 0.05
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.39
Consensus pattern (155 bp):
GGTTACCAGGATACTTTTATGTCAAAGATATACCCATAAGGGCATTTTTATAATTTTTTAAACCT
AGTCCTAGGTTGTCACCCGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCA
TCTTTAATCTTTTTAAGTCCTTTAA
Found at i:1173563 original size:87 final size:88
Alignment explanation
Indices: 1173372--1173571 Score: 217
Period size: 87 Copynumber: 2.3 Consensus size: 88
1173362 TTCGTTATGA
* *
1173372 TTTGACATATGCTTACCACCCTGGTCAAAGTTTCCTCCTTCTTGTTTGATGCATGGCTACCACCC
1 TTTGACATATGCTTACCACCCTAGTCAAAGTTTCCTCATTCTTGTTTGATGCATGGCTACCACCC
***
1173437 TAGTCAAACTCTTTTTATTTCTG
66 TAGTCAAACTCTGCCTATTTCTG
* * * ** * *
1173460 TCTGACATATGGTTACCACCCTAGTCAGA-TTTTTTCATTC-TGATTTGATGCATGGTTATCACC
1 TTTGACATATGCTTACCACCCTAGTCAAAGTTTCCTCATTCTTG-TTTGATGCATGGCTACCACC
* *
1173523 CTGGTCAAA-TCTGCCTCTTTCTTG
65 CTAGTCAAACTCTGCCTATTTC-TG
* *
1173547 TTTGACGTATGTTTACCACCCTAGT
1 TTTGACATATGCTTACCACCCTAGT
1173572 TAAACTCTTT
Statistics
Matches: 93, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
86 10 0.11
87 58 0.62
88 25 0.27
ACGTcount: A:0.20, C:0.26, G:0.15, T:0.40
Consensus pattern (88 bp):
TTTGACATATGCTTACCACCCTAGTCAAAGTTTCCTCATTCTTGTTTGATGCATGGCTACCACCC
TAGTCAAACTCTGCCTATTTCTG
Found at i:1173682 original size:132 final size:132
Alignment explanation
Indices: 1173340--1173795 Score: 506
Period size: 131 Copynumber: 3.5 Consensus size: 132
1173330 TGACGTATCA
* * * * * *** * *
1173340 TTACAACCCTGGTCAAATTGTTTTCGTTATGATTTGACATATGCTTACCACCCTGGTCAAAGT-T
1 TTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGCATGGTTATCACCCTGGTCAAA-TCT
* * * *
1173404 TCCTCCTTCTTGTTTGATGCATGGCTACCACCCTAGTCAAACTCTTTTTATTTCT-GTCTGACAT
65 GCCTCCTTCTTGTTTGATGTATGGTTACCACCCTAGTAAAACTCTTTTTATTT-TAGTCTGACAT
1173468 ATGG
129 ATGG
*
1173472 TTACCACCCTAGTCAGATT-TTTTCATTCTGATTTGATGCATGGTTATCACCCTGGTCAAATCTG
1 TTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGCATGGTTATCACCCTGGTCAAATCTG
* * * * **
1173536 CCTCTTTCTTGTTTGACGTATGTTTACCACCCTAGTTAAACTCTTTTTATTTTAGTCTGATGTAT
66 CCTCCTTCTTGTTTGATGTATGGTTACCACCCTAGTAAAACTCTTTTTATTTTAGTCTGACATAT
1173601 GG
131 GG
* *
1173603 TTACCACCTTGGTCAGATTCTTTTCATTCTGATTTAATGCATGGTTATCACCCTGGTCAAATCTG
1 TTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGCATGGTTATCACCCTGGTCAAATCTG
* * * * * ** * *
1173668 CCTCCTTCCTGTTTGATATATGGTTACCACCTTGGTCAAAACTCTTTTCAAGTCAGTTTGACATA
66 CCTCCTTCTTGTTTGATGTATGGTTACCACCCTAGT-AAAACTCTTTTTATTTTAGTCTGACATA
1173733 TGG
130 TGG
* * * * * *
1173736 ATACCACCCTGGTCAGATTCCTTTCATTCCTG-CTTGACGTATGGTTACCACCCTGGTCAA
1 TTACCACCCTGGTCAGATTCTTTTCATT-CTGATTTGATGCATGGTTATCACCCTGGTCAA
1173796 GCTCTTTTCA
Statistics
Matches: 274, Mismatches: 45, Indels: 9
0.84 0.14 0.03
Matches are distributed among these distances:
130 2 0.01
131 109 0.40
132 89 0.32
133 71 0.26
134 3 0.01
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (132 bp):
TTACCACCCTGGTCAGATTCTTTTCATTCTGATTTGATGCATGGTTATCACCCTGGTCAAATCTG
CCTCCTTCTTGTTTGATGTATGGTTACCACCCTAGTAAAACTCTTTTTATTTTAGTCTGACATAT
GG
Found at i:1173809 original size:44 final size:43
Alignment explanation
Indices: 1173327--1173873 Score: 246
Period size: 44 Copynumber: 12.4 Consensus size: 43
1173317 TCTCATTTCA
** * ** * * *
1173327 GTTTGACGTATCATTACAACCCTGGTCAAATTGTTTTCGTTAT
1 GTTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCATTCT
* * * *
1173370 GATTTGACATATGCTTACCACCCTGGTCAAAG-T-TTCCTCCTTCTT
1 G-TTTGACGTATGGTTACCACCCTGGTC-AAGCTCTT-TTCATTC-T
* * * * * *
1173415 GTTTGATGCATGGCTACCACCCTAGTCAAACTCTTTTTATTTCT
1 GTTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCA-TTCT
* * * * *
1173459 GTCTGACATATGGTTACCACCCTAGTC-AGATTTTTTCATTCT
1 GTTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCATTCT
* * * * ** *
1173501 GATTTGATGCATGGTTATCACCCTGGTCAA-ATCTGCCTCTTTCTT
1 G-TTTGACGTATGGTTACCACCCTGGTCAAGCTCT-TTTCATTC-T
* * * * * *
1173546 GTTTGACGTATGTTTACCACCCTAGTTAAACTCTTTTTATTTT
1 GTTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCATTCT
* * * *
1173589 AGTCTGATGTATGGTTACCACCTTGGTC-AGATTCTTTTCATTCT
1 -GTTTGACGTATGGTTACCACCCTGGTCAAG-CTCTTTTCATTCT
* * * * * ** *
1173633 GATTTAATGCATGGTTATCACCCTGGTCAA-ATCTGCCTCCTTCCT
1 G-TTTGACGTATGGTTACCACCCTGGTCAAGCTCT-TTTCATT-CT
** * * * *
1173678 GTTTGATATATGGTTACCACCTTGGTCAAAACTCTTTTCAAGTCA
1 GTTTGACGTATGGTTACCACCCTGGTC-AAGCTCTTTTC-ATTCT
* * * *
1173723 GTTTGACATATGGATACCACCCTGGTC-AGATTCCTTTCATTCCT
1 GTTTGACGTATGGTTACCACCCTGGTCAAG-CTCTTTTCATT-CT
* *
1173767 GCTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCATTCCC
1 GTTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCATT-CT
* * * * * * *
1173811 GTTTGACGTGTGATTACCACTCTGGTTAAACGT-TTCTCATTTCG
1 GTTTGACGTATGGTTACCACCCTGGTCAAGC-TCTTTTCA-TTCT
*
1173855 GTTTGGCGTATGGTTACCA
1 GTTTGACGTATGGTTACCA
1173874 ACAAGGTTAG
Statistics
Matches: 374, Mismatches: 104, Indels: 51
0.71 0.20 0.10
Matches are distributed among these distances:
42 5 0.01
43 44 0.12
44 269 0.72
45 52 0.14
46 4 0.01
ACGTcount: A:0.20, C:0.24, G:0.16, T:0.40
Consensus pattern (43 bp):
GTTTGACGTATGGTTACCACCCTGGTCAAGCTCTTTTCATTCT
Found at i:1175629 original size:156 final size:151
Alignment explanation
Indices: 1175378--1175680 Score: 390
Period size: 156 Copynumber: 2.0 Consensus size: 151
1175368 TTGTAAGATG
** *
1175378 ATTTTCAAAATACGAAGTTTTTTACTCTTTAAATTTTTGGTAGGATTTTTCTAAGTTTATAATTT
1 ATTTTCAAAATACGAAGTTTTTTACTCCATAAATTTTTAGTAGGATTTTTCTAAGTTTATAATTT
* * *
1175443 TCAAAATTCGTTAAATATTATTGTTTAATTCAAATTAAATTAGTTTTGAAAAATTCAACTTATTT
66 TAAAAATTCGTTAAATATTATTGTTTAATTCAAATTAAATCAATTTTGAAAAATTCAACTTATTT
1175508 TATAAGTTTTAGAATTTTTCCT
131 TATAAGTTTT-GAATTTTTCCT
* * * *
1175530 ATTTTCAAAATATGGAATTTTTTTACTCCATAAATTTCTCTAGTAGTATTTTTCTTAGTTTATAA
1 ATTTTCAAAATA-CGAAGTTTTTTACTCCATAAATTT-T-TAGTAGGATTTTTCTAAGTTTATAA
* * * * * ** *
1175595 TTTTTAAAAATTCTTTGAATATTGTTGTTTAATTCACATTGAATCAATTTTTTAAAATTCAATTT
63 -TTTTAAAAATTCGTTAAATATTATTGTTTAATTCAAATTAAATCAATTTTGAAAAATTCAACTT
*
1175660 ATTTTATGAGTTTTGAATTTT
127 ATTTTATAAGTTTTGAATTTT
1175681 ATATAACGAT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
152 12 0.09
153 20 0.16
154 1 0.01
155 29 0.23
156 66 0.52
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (151 bp):
ATTTTCAAAATACGAAGTTTTTTACTCCATAAATTTTTAGTAGGATTTTTCTAAGTTTATAATTT
TAAAAATTCGTTAAATATTATTGTTTAATTCAAATTAAATCAATTTTGAAAAATTCAACTTATTT
TATAAGTTTTGAATTTTTCCT
Found at i:1177399 original size:165 final size:164
Alignment explanation
Indices: 1177049--1177575 Score: 607
Period size: 167 Copynumber: 3.2 Consensus size: 164
1177039 GTAAGGACTA
* * * *
1177049 AAATAAAATTTTTTAAAAGTTTAGGGATTAAATAGC-AA-TTTAGTTTTTAAAGGTAAAATCATC
1 AAATGAAA-TTTTCAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTTTTAGAGGT-AAATCATC
* * *
1177112 ATTTTAGTCATTTTTAAAGATTTGTATTATTCCTATGGCCTTCTTA-GAGCTATAAAAATTTTCA
64 ATTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCATAGGGGC-ATAAAAATTTTCA
* * **
1177176 AAACTTTTCGTAT-CTTCTTGGTTTTTCAAGAGGTAAG
128 AGACTTTTCGTATCCTT-TCGGTTTTTCATTAGGTAAG
* *
1177213 AAATGAAATTTTCAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTGTTAGAGGTAAATCATTAT
1 AAATGAAATTTTCAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAATCATCAT
*
1177278 TTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCCATAGGGGCATAAAAACTTTCAAG
66 TTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTT-CATAGGGGCATAAAAATTTTCAAG
* * * *
1177343 ACTTATCATATCCTTTCGGTTTTTCATTAGATACG
130 ACTTTTCGTATCCTTTCGGTTTTTCATTAGGTAAG
* * ** *
1177378 AAATGAAATTTTGAGAAGTTT-AGAGATTAAATAGCAAATTTTAGTTTTTAGAGAAAAAAATAAT
1 AAATGAAATTTTCAAAAGTTTAAG-GATTAAATAGCAAATTTTAGTTTTTAGAG--GTAAATCAT
* * * * * * * * *
1177442 CATTTTAGTCATTTTTAGAGATTTCTATTATTTCTATGGCTTTTCGTAGAGACACAGATATTTTC
63 CATTTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGC-CTTCATAGGGGCATAAAAATTTTC
* *
1177507 AAGACTTTTCGTATCCTTTCGATTTTTCATTAGGTGTA-
127 AAGACTTTTCGTATCCTTTCGGTTTTTCATTAGGT-AAG
1177545 AAATGAAATTTTCAAAAGTTTAAGGACTTAA
1 AAATGAAATTTTCAAAAGTTTAAGGA-TTAA
1177576 TTGAAAATTT
Statistics
Matches: 308, Mismatches: 43, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
163 25 0.08
164 59 0.19
165 101 0.33
166 6 0.02
167 109 0.35
168 8 0.03
ACGTcount: A:0.34, C:0.10, G:0.14, T:0.41
Consensus pattern (164 bp):
AAATGAAATTTTCAAAAGTTTAAGGATTAAATAGCAAATTTTAGTTTTTAGAGGTAAATCATCAT
TTTAGTCATTTTTAAAGATTTCTATTATTCCTATGGCCTTCATAGGGGCATAAAAATTTTCAAGA
CTTTTCGTATCCTTTCGGTTTTTCATTAGGTAAG
Found at i:1181708 original size:13 final size:13
Alignment explanation
Indices: 1181690--1181727 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1181680 ATAATCCCCC
1181690 TGTATCGATACAG
1 TGTATCGATACAG
*
1181703 TGTATCGATACAT
1 TGTATCGATACAG
1181716 TGTATCGATACA
1 TGTATCGATACA
1181728 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1183829 original size:15 final size:16
Alignment explanation
Indices: 1183804--1183838 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1183794 ATCAATTTTG
*
1183804 TTTGAAGCTTCTTCAT
1 TTTGAAGCTTCCTCAT
1183820 TTTG-AGCTTCCTCAT
1 TTTGAAGCTTCCTCAT
1183835 TTTG
1 TTTG
1183839 GACATTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.14, C:0.20, G:0.14, T:0.51
Consensus pattern (16 bp):
TTTGAAGCTTCCTCAT
Found at i:1187918 original size:13 final size:13
Alignment explanation
Indices: 1187900--1187925 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1187890 CAACTTTATG
1187900 TGTATCGATACAT
1 TGTATCGATACAT
1187913 TGTATCGATACAT
1 TGTATCGATACAT
1187926 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1187922 original size:33 final size:32
Alignment explanation
Indices: 1187880--1187943 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1187870 TACAAGCCAA
*
1187880 TGTATCGATACA-ACTTTATGTGTATCGATACAT
1 TGTATCGATACATAC-TT-GGTGTATCGATACAT
1187913 TGTATCGATACATACTTGGTGTATCGATACA
1 TGTATCGATACATACTTGGTGTATCGATACA
1187944 AGTTTGGCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 13 0.45
33 14 0.48
34 2 0.07
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATACTTGGTGTATCGATACAT
Found at i:1190048 original size:9 final size:9
Alignment explanation
Indices: 1190027--1190120 Score: 66
Period size: 9 Copynumber: 9.7 Consensus size: 9
1190017 ATTCGGACCC
*
1190027 TTTTTGTTG
1 TTTTTTTTG
1190036 TTTTTTTT-
1 TTTTTTTTG
*
1190044 ATTTTTTTG
1 TTTTTTTTG
1190053 TTTTTTTTGG
1 TTTTTTTT-G
1190063 TTTGTTTGTTTTG
1 --T-TTT-TTTTG
1190076 TTTTTTTTG
1 TTTTTTTTG
*
1190085 TTTGTTTGTTC
1 TTT-TTT-TTG
1190096 TTTTTTTTG
1 TTTTTTTTG
1190105 TCTCTTTTTT-
1 T-T-TTTTTTG
1190115 TTTTTT
1 TTTTTT
1190121 ACAGAGGATG
Statistics
Matches: 70, Mismatches: 5, Indels: 21
0.73 0.05 0.22
Matches are distributed among these distances:
8 11 0.16
9 26 0.37
10 12 0.17
11 12 0.17
12 1 0.01
13 4 0.06
14 4 0.06
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:1190057 original size:18 final size:17
Alignment explanation
Indices: 1190027--1190120 Score: 82
Period size: 18 Copynumber: 5.4 Consensus size: 17
1190017 ATTCGGACCC
*
1190027 TTTTTGTTGTTTTTTTT
1 TTTTTTTTGTTTTTTTT
*
1190044 ATTTTTTTGTTTTTTTT
1 TTTTTTTTGTTTTTTTT
* *
1190061 GGTTTGTTTGTTTTGTTTT
1 -TTTTTTTTGTTTT-TTTT
* * *
1190080 TTTTGTTTG-TTTGTTC
1 TTTTTTTTGTTTTTTTT
1190096 TTTTTTTTGTCTCTTTTTT
1 TTTTTTTTGT-T-TTTTTT
1190115 TTTTTT
1 TTTTTT
1190121 ACAGAGGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 8
0.77 0.12 0.10
Matches are distributed among these distances:
16 10 0.16
17 18 0.29
18 20 0.32
19 14 0.23
ACGTcount: A:0.01, C:0.03, G:0.13, T:0.83
Consensus pattern (17 bp):
TTTTTTTTGTTTTTTTT
Found at i:1203818 original size:21 final size:20
Alignment explanation
Indices: 1203792--1203830 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
1203782 GTTGGGACCT
1203792 TGTATCGATACATTCTGGAAA
1 TGTATCGATACATT-TGGAAA
1203813 TGTATCGATACATTTGGA
1 TGTATCGATACATTTGGA
1203831 CAAAAATGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATTTGGAAA
Found at i:1204542 original size:21 final size:20
Alignment explanation
Indices: 1204512--1204585 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
1204502 TTGTACAATT
1204512 TGTATCGATACAATAAGAT-AA
1 TGTATCGATAC-ATAAG-TGAA
*
1204533 TGTATTGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
* * ***
1204553 TGTAGCAATACATGCTTGAAA
1 TGTATCGATACATAAGTG-AA
1204574 TGTATCGATACA
1 TGTATCGATACA
1204586 GGACTATGCA
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 19 0.45
21 22 0.52
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.31
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:1204554 original size:20 final size:21
Alignment explanation
Indices: 1204512--1204556 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
1204502 TTGTACAATT
1204512 TGTATCGATACAATAAGATAA
1 TGTATCGATACAATAAGATAA
*
1204533 TGTATTGATAC-ATAAG-TGAA
1 TGTATCGATACAATAAGAT-AA
1204553 TGTA
1 TGTA
1204557 GCAATACATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 11 0.50
21 10 0.45
ACGTcount: A:0.42, C:0.07, G:0.18, T:0.33
Consensus pattern (21 bp):
TGTATCGATACAATAAGATAA
Found at i:1204702 original size:52 final size:52
Alignment explanation
Indices: 1204621--1204739 Score: 184
Period size: 52 Copynumber: 2.3 Consensus size: 52
1204611 TTTGGAAGGA
* * * * *
1204621 AAATGTATCGATATATTTTTCATTGTATCGATACATTCTGGGTTTTCGACCC
1 AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTCGACCC
*
1204673 AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTTGACCC
1 AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTCGACCC
1204725 AAATGTATCAATACA
1 AAATGTATCAATACA
1204740 TTCTTCAATG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 61 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (52 bp):
AAATGTATCAATACAATTTTCATTCTATCGATACATTCTGAGTTTTCGACCC
Found at i:1208424 original size:19 final size:19
Alignment explanation
Indices: 1208400--1208449 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
1208390 ATTTGGTAAA
*
1208400 TGTATCAATACATAAGTAT
1 TGTATCGATACATAAGTAT
*
1208419 TGTATCGATACATAAGTCT
1 TGTATCGATACATAAGTAT
1208438 TGTATCGATACA
1 TGTATCGATACA
1208450 ATGTATTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAGTAT
Found at i:1208520 original size:13 final size:13
Alignment explanation
Indices: 1208502--1208527 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1208492 ATTTTTCTGT
1208502 GTATCGATACATC
1 GTATCGATACATC
1208515 GTATCGATACATC
1 GTATCGATACATC
1208528 TATTCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
GTATCGATACATC
Found at i:1208544 original size:34 final size:33
Alignment explanation
Indices: 1208482--1208548 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1208472 TCAAGGAAAT
*
1208482 GTATCGATACATTTTTCTGTGTATCGATACATC
1 GTATCGATACATTATTCTGTGTATCGATACATC
*
1208515 GTATCGATACATCTATTCTTTGTATCGATACATC
1 GTATCGATACAT-TATTCTGTGTATCGATACATC
1208549 TAGGAAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 12 0.39
34 19 0.61
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.42
Consensus pattern (33 bp):
GTATCGATACATTATTCTGTGTATCGATACATC
Found at i:1210930 original size:52 final size:51
Alignment explanation
Indices: 1210863--1211257 Score: 262
Period size: 51 Copynumber: 7.6 Consensus size: 51
1210853 TTAAGTTTAT
*
1210863 CAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * * *
1210914 CTATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACAC
* ** * * *** * * *
1210967 CAATTTTTCGCAATCGAGGATACTCCAACCTCG-TTATCTCATCGGCGATACTC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATT-T-T-ATTTCCAAAACAC
** * * * ** * *
1211020 CAA--CCCCGTGACCTCCGAGGGGATACTCCAACCCC-AGCTTTATCCCCAAAATAT
1 CAATTTTCCAT-A-AT-C--GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACAC
** * * *
1211074 TGA-TTTCTCATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
1 CAATTTTC-CATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * * * *
1211125 TAATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTGTTTTCAAAACAC
1 CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* *
1211176 CAATTTTCCTTTAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
* * *
1211228 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
1211258 TCGTTATTTC
Statistics
Matches: 260, Mismatches: 66, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
50 2 0.01
51 101 0.39
52 101 0.39
53 22 0.08
54 12 0.05
55 3 0.01
56 18 0.07
57 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.12, T:0.31
Consensus pattern (51 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACAC
Done.