Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold72
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: 5928628
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 261288 characters in sequence are not A, C, G, or T
File 8 of 39
Found at i:1027813 original size:52 final size:52
Alignment explanation
Indices: 1027681--1027820 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 52
1027671 AAAAGTTACT
* *
1027681 TGCATGTATCGATATATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
1027733 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
1027785 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1027821 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 75 0.95
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:1027827 original size:13 final size:13
Alignment explanation
Indices: 1027809--1027833 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027799 CAAAGATCAG
1027809 TGTATCGATACAA
1 TGTATCGATACAA
1027822 TGTATCGATACA
1 TGTATCGATACA
1027834 TGTGAGTAAT
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:1027916 original size:13 final size:13
Alignment explanation
Indices: 1027898--1027922 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1027888 CAAAAAAATA
1027898 TGTATCGATACAT
1 TGTATCGATACAT
1027911 TGTATCGATACA
1 TGTATCGATACA
1027923 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1027918 original size:33 final size:33
Alignment explanation
Indices: 1027876--1027942 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1027866 AGTAGCTTAA
1027876 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1027909 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1027942 A
1 A
1027943 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1028812 original size:169 final size:171
Alignment explanation
Indices: 1028519--1028905 Score: 435
Period size: 169 Copynumber: 2.3 Consensus size: 171
1028509 GTCTTGCAGT
* * * * * * *
1028519 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTAGACTTAAAGATGATGAGGATGAAGAGCGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATG
* *
1028584 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTTAGAGATGAGAAAAAGGA-TAAAG
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAG
* * *
1028648 GAGCCAATATGC-GGCTAGCGATATTGGACTTAAAGAT-AAAG
131 GAGCCAAT-T-CAGGCCAGCGACATTGAACTTAAAGATGAAAG
* * *
1028689 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGAT-
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATG
* *
1028752 AAA-GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
66 AAAGGA--CCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA-GTA
* * ** *
1028816 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
128 AAGGAGCCAATTC-AGGCCAGCGACATTGAACTTAAAGAT-G-AAAG
* * *
1028863 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAG
1028906 GTGCCAATGT
Statistics
Matches: 183, Mismatches: 25, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
167 2 0.01
168 3 0.02
169 59 0.32
170 46 0.25
171 29 0.16
174 44 0.24
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (171 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATG
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAG
GAGCCAATTCAGGCCAGCGACATTGAACTTAAAGATGAAAG
Found at i:1028852 original size:55 final size:52
Alignment explanation
Indices: 1028752--1029451 Score: 467
Period size: 43 Copynumber: 14.7 Consensus size: 52
1028742 GAAAAGTGAT
* * * * * * **
1028752 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
1028806 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1028859 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1028902 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1028945 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1028995 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1029037 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * * *
1029087 -AAGATGCCAATATGCTAATTTAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1029130 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1029179 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1029222 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1029271 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1029314 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1029362 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
1029414 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
1029452 GGCTTAGAAG
Statistics
Matches: 542, Mismatches: 56, Indels: 98
0.78 0.08 0.14
Matches are distributed among these distances:
43 219 0.40
44 11 0.02
46 1 0.00
48 11 0.02
49 185 0.34
51 1 0.00
52 67 0.12
53 6 0.01
54 5 0.01
55 36 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:1028906 original size:22 final size:22
Alignment explanation
Indices: 1028881--1028949 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
1028871 ATGCTGATTC
1028881 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
1028903 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
1028924 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1028946 AAGG
1 AAGG
1028950 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1028920 original size:43 final size:43
Alignment explanation
Indices: 1028859--1029462 Score: 623
Period size: 43 Copynumber: 13.1 Consensus size: 43
1028849 TAAAGATGGA
*
1028859 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1028902 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
1028945 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1028988 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1029037 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1029080 AAAGATGAAGATGCCAATATGCTAATTTAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1029129 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1029172 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1029221 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1029264 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1029313 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
1029362 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
1029411 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1029457 AGAAGG
1 A-AAGG
1029463 GTTGCCACCG
Statistics
Matches: 482, Mismatches: 45, Indels: 67
0.81 0.08 0.11
Matches are distributed among these distances:
43 225 0.47
44 11 0.02
45 4 0.01
46 4 0.01
47 4 0.01
48 6 0.01
49 190 0.39
51 1 0.00
52 37 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1028927 original size:21 final size:21
Alignment explanation
Indices: 1028903--1028970 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1028893 ATTGGACTTA
1028903 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1028924 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1028946 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1028967 AAGG
1 AAGG
1028971 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1028954 original size:24 final size:24
Alignment explanation
Indices: 1028884--1028954 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
1028874 CTGATTCAAG
1028884 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
1028908 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
1028927 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
1028951 GCCA
1 GCCA
1028955 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:1029042 original size:92 final size:92
Alignment explanation
Indices: 1028859--1029408 Score: 896
Period size: 92 Copynumber: 6.0 Consensus size: 92
1028849 TAAAGATGGA
* * *
1028859 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1028918 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1028945 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1029010 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1029037 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1029102 TAATTTAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1029129 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1029194 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1029221 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1029286 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1029313 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
1029378 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1029405 AAAG
1 AAAG
1029409 ATGGAAAAGG
Statistics
Matches: 437, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
86 41 0.09
90 1 0.00
92 395 0.90
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1029452 original size:52 final size:50
Alignment explanation
Indices: 1029037--1029457 Score: 460
Period size: 49 Copynumber: 8.9 Consensus size: 50
1029027 TATTGGACTT
* *
1029037 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * * * * *
1029086 GAAGATGCCAATATGCTAATTTAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1029130 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
1029178 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1029222 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
1029270 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1029314 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
1029362 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--A
* * *
1029414 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1029458 GAAGGGTTGC
Statistics
Matches: 308, Mismatches: 37, Indels: 51
0.78 0.09 0.13
Matches are distributed among these distances:
43 102 0.33
44 9 0.03
48 10 0.03
49 147 0.48
52 40 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:1029501 original size:33 final size:35
Alignment explanation
Indices: 1029457--1029526 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1029447 TATTGGGCTT
1029457 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1029491 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1029525 AG
1 AG
1029527 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1029586 original size:71 final size:69
Alignment explanation
Indices: 1029511--1029868 Score: 437
Period size: 71 Copynumber: 5.1 Consensus size: 69
1029501 CACCGACTTG
* * *
1029511 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAA-GGAAAAAG-GTGCCA
1029576 CGGAGT
64 CGGAGT
*
1029582 TGTGGGCTTTA-AAA--GAAAAAAATGCCACGGAGTTGTGGGCTTTACAAAGGGAAAAAGAGTGC
1 TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGC-TTA-AAA-GGAAAAAG-GTGC
1029644 CACGGAGT
62 CACGGAGT
1029652 TGTGGGCTTT-GCAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGC
1 TGTGGGCTTTAG-AAAGGGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAA-AGGAAAAAGGTGC
1029715 CACGGAGT
62 CACGGAGT
* ** *
1029723 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCA
1 TGTGGGCTTTAGAAAGGGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAAAAAGGTGCCA
1029787 CGGAGT
64 CGGAGT
* * * *
1029793 TGTGGGCTTT-GAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG-AAAAGGTGCCACG
1 TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACG
1029855 GAGT
66 GAGT
1029859 TGTGGGCTTT
1 TGTGGGCTTT
1029869 GAAGAAAAAA
Statistics
Matches: 260, Mismatches: 17, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
66 31 0.12
67 17 0.07
68 29 0.11
69 6 0.02
70 66 0.25
71 72 0.28
72 7 0.03
73 9 0.03
74 23 0.09
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (69 bp):
TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACG
GAGT
Found at i:1029643 original size:70 final size:68
Alignment explanation
Indices: 1029531--1029878 Score: 442
Period size: 70 Copynumber: 5.0 Consensus size: 68
1029521 AGGAAGGGAG
*
1029531 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1029594 AAGAAA
63 AAGAAA
*
1029600 AAAATGCCACGGAGTTGTGGGCTTTACAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGCA
1 AAAGTGCCACGGAGTTGTGGGCTTTA-AAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTG-A
*
1029665 AAGGGAAA
62 AA-AGAAA
*
1029673 AAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 AA-AGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1029737 AGGGAAA
64 A--GAAA
** *
1029744 AAGAGTGCCACAAAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
*
1029808 GAAG
65 GAAA
*
1029812 AAGGTGCCACGGAGTTGTGGGCTTT-AAAGG-AAAAGGTGCCACGGAGTTGTGGGCTTTG--AAG
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1029873 AAA
66 AAA
1029876 AAA
1 AAA
1029879 CGCCACTGAG
Statistics
Matches: 252, Mismatches: 17, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
64 7 0.03
66 30 0.12
67 21 0.08
68 22 0.09
69 6 0.02
70 71 0.28
71 53 0.21
72 10 0.04
73 8 0.03
74 24 0.10
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (68 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
AAA
Found at i:1029654 original size:37 final size:35
Alignment explanation
Indices: 1029511--1029868 Score: 445
Period size: 34 Copynumber: 10.3 Consensus size: 35
1029501 CACCGACTTG
* *
1029511 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGAGTGCCACGGAGT
*
1029547 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGAGTGCCACGGAGT
*
1029582 TGTGGGCTTTAAAA-GAAAAA-AATGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
1029615 TGTGGGCTTTACAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
*
1029652 TGTGGGCTTTGCAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT--AAAAGGAAAAAGAGTGCCACGGAGT
1029689 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
**
1029723 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
*
1029760 TGTGGGCTTTAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
1029793 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
1029827 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
1029859 TGTGGGCTTT
1 TGTGGGCTTT
1029869 GAAGAAAAAA
Statistics
Matches: 292, Mismatches: 14, Indels: 36
0.85 0.04 0.11
Matches are distributed among these distances:
32 29 0.10
33 46 0.16
34 79 0.27
35 33 0.11
36 29 0.10
37 73 0.25
38 2 0.01
39 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:1029953 original size:32 final size:32
Alignment explanation
Indices: 1029562--1029994 Score: 202
Period size: 37 Copynumber: 13.0 Consensus size: 32
1029552 ACTTAAAAGG
* * * *
1029562 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 GAAAAGGA-TGCCACTGAGTCGTGGGCTTT-GAA
** * * *
1029596 GAAAAAAATGCCACGGAGTTGTGGGCTTTACAAA
1 GAAAAGGATGCCACTGAGTCGTGGGCTTT--GAA
* * *
1029630 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGCAAA
1 --GAAAAGGA-TGCCACTGAGTCGTGGGCTTTG--AA
* * * *
1029667 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA
1 --GAAAAGGA-TGCCACTGAGTCGTGGGCTTT-GA-A
* * *
1029704 GAAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAA
1 G-AAAAGGATGCCACTGAGTCGTGGGCTTT--GAA
* ** * *
1029738 GGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA
1 --GAAAAGGA-TGCCACTGAGTCGTGGGCTTT-GAA
* *
1029774 GAAGAAGG-TGCCACGGAGTTGTGGGCTTTGAAAA
1 GAA-AAGGATGCCACTGAGTCGTGGGCTTTG--AA
* * *
1029808 GAAGAAGG-TGCCACGGAGTTGTGGGCTTTAAA
1 GAA-AAGGATGCCACTGAGTCGTGGGCTTTGAA
* *
1029840 GGAAAAGG-TGCCACGGAGTTGTGGGCTTTGAA
1 -GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
* * *
1029872 GAAAA-AACGCCACTGAGTCGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
* *
1029902 GACAAA--ATGCCACTAAGTCGTGGACTTTGAA
1 GA-AAAGGATGCCACTGAGTCGTGGGCTTTGAA
*
1029933 GAAAAGGATGCCACTGAGTCGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
*
1029964 GAAGA-GATTGCCACTGAGTCGTGGGCTTTGA
1 GAAAAGGA-TGCCACTGAGTCGTGGGCTTTGA
1029995 GAAGAGATTT
Statistics
Matches: 349, Mismatches: 25, Indels: 52
0.82 0.06 0.12
Matches are distributed among these distances:
30 29 0.08
31 55 0.16
32 51 0.15
33 43 0.12
34 66 0.19
35 12 0.03
36 18 0.05
37 75 0.21
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (32 bp):
GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
Found at i:1029979 original size:31 final size:31
Alignment explanation
Indices: 1029880--1030003 Score: 164
Period size: 31 Copynumber: 4.0 Consensus size: 31
1029870 AAGAAAAAAC
*
1029880 GCCACTGAGTCGTGGACTTTGAGACA-A-AAT
1 GCCACTGAGTCGTGGACTTTGAGA-AGAGATT
* *
1029910 GCCACTAAGTCGTGGACTTTGAAGAAAAGGA-T
1 GCCACTGAGTCGTGGACTTTG-AGAAGA-GATT
1029942 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
*
1029973 GCCACTGAGTCGTGGGCTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
1030004 TGAAGAATTG
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
30 23 0.27
31 40 0.47
32 21 0.25
33 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (31 bp):
GCCACTGAGTCGTGGACTTTGAGAAGAGATT
Found at i:1030941 original size:1 final size:1
Alignment explanation
Indices: 1030935--1030989 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
1030925 GGGGTTGTTC
* * * * * *
1030935 TTTTTTTTTCTTCTTTTTTTTTGTTTTTTTTTCTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1030990 GGAAAAGAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (1 bp):
T
Found at i:1030963 original size:20 final size:22
Alignment explanation
Indices: 1030929--1030985 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1030919 TGAAAAGGGG
*
1030929 TTGTTCTTTTTTTTTCTTC-TTT
1 TTGTT-TTGTTTTTTCTTCTTTT
*
1030951 TT-TTTTGTTTTTTTTTCTTTT
1 TTGTTTTGTTTTTTCTTCTTTT
1030972 TTGTTTTGTTTTTT
1 TTGTTTTGTTTTTT
1030986 TTTTGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.35
21 7 0.23
22 13 0.42
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (22 bp):
TTGTTTTGTTTTTTCTTCTTTT
Found at i:1030978 original size:13 final size:12
Alignment explanation
Indices: 1030935--1030989 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
1030925 GGGGTTGTTC
1030935 TTTTTTTTTCTT
1 TTTTTTTTTCTT
* *
1030947 CTTTTTTTT-TG
1 TTTTTTTTTCTT
1030958 TTTTTTTTTCTT
1 TTTTTTTTTCTT
* *
1030970 TTTTGTTTTGTT
1 TTTTTTTTTCTT
1030982 TTTTTTTT
1 TTTTTTTT
1030990 GGAAAAGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:1030986 original size:20 final size:22
Alignment explanation
Indices: 1030936--1030987 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
1030926 GGGTTGTTCT
*
1030936 TTTTTTTTCTTCTTTTTTTTTG
1 TTTTTTTTCTTCTTTTGTTTTG
1030958 TTTTTTTTTCTT-TTTTGTTTTG
1 -TTTTTTTTCTTCTTTTGTTTTG
1030980 TTTTTTTT
1 TTTTTTTT
1030988 TTGGAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 8 0.29
22 9 0.32
23 11 0.39
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (22 bp):
TTTTTTTTCTTCTTTTGTTTTG
Found at i:1030989 original size:23 final size:23
Alignment explanation
Indices: 1030935--1030988 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
1030925 GGGGTTGTTC
*
1030935 TTTTTTTTTCTTCTTTTTTTTTG
1 TTTTTTTTTCTTCTTTTGTTTTG
1030958 TTTTTTTTTCTT-TTTTGTTTTG
1 TTTTTTTTTCTTCTTTTGTTTTG
1030980 TTTTTTTTT
1 TTTTTTTTT
1030989 TGGAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTCTTCTTTTGTTTTG
Found at i:1031255 original size:12 final size:12
Alignment explanation
Indices: 1031240--1031265 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1031230 TTTGTGTGTG
1031240 TTTTTTTGTTTT
1 TTTTTTTGTTTT
1031252 TTTTTTTGTTTT
1 TTTTTTTGTTTT
1031264 TT
1 TT
1031266 GTGTTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTTTGTTTT
Found at i:1031277 original size:21 final size:20
Alignment explanation
Indices: 1031238--1031277 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1031228 TTTTTGTGTG
**
1031238 TGTTTTTTTGTTTTTTTTTT
1 TGTTTTTTTGTTTACTTTTT
1031258 TGTTTTTTGTGTTTACTTTT
1 TGTTTTTT-TGTTTACTTTT
1031278 GACTGTTCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.82
Consensus pattern (20 bp):
TGTTTTTTTGTTTACTTTTT
Found at i:1038266 original size:52 final size:52
Alignment explanation
Indices: 1038186--1038305 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
1038176 AAAAGTTACT
* *
1038186 TGCATGTATCGATATATTTAATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
*
1038238 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
1038290 TGCATGTATCGATACA
1 TGCATGTATCGATACA
1038306 AAGATCAGTG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
TGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGCC
Found at i:1038318 original size:52 final size:52
Alignment explanation
Indices: 1038186--1038325 Score: 194
Period size: 52 Copynumber: 2.7 Consensus size: 52
1038176 AAAAGTTACT
* *
1038186 TGCATGTATCGATATATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
*** *
1038238 TGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGCC
1 TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
1038290 TGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TGCATGTATCGATACATAAGAT-AGTGTATCGATACA
1038326 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 4 0.05
52 75 0.95
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (52 bp):
TGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGCC
Found at i:1038332 original size:13 final size:13
Alignment explanation
Indices: 1038314--1038338 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1038304 CAAAGATCAG
1038314 TGTATCGATACAA
1 TGTATCGATACAA
1038327 TGTATCGATACA
1 TGTATCGATACA
1038339 TGTGAGTAAT
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:1038421 original size:13 final size:13
Alignment explanation
Indices: 1038403--1038427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1038393 CAAAAAAATA
1038403 TGTATCGATACAT
1 TGTATCGATACAT
1038416 TGTATCGATACA
1 TGTATCGATACA
1038428 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1038423 original size:33 final size:33
Alignment explanation
Indices: 1038381--1038447 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1038371 AGTAGCTTAA
1038381 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1038414 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1038447 A
1 A
1038448 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1039317 original size:169 final size:171
Alignment explanation
Indices: 1039024--1039410 Score: 435
Period size: 169 Copynumber: 2.3 Consensus size: 171
1039014 GTCTTGCAGT
* * * * * * *
1039024 GTGCCACTGTGCAGATTCAAGGCCTGCCACACTAGACTTAAAGATGATGAGGATGAAGAGCGATG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATG
* *
1039089 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGTTTAGAGATGAGAAAAAGGA-TAAAG
66 AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAG
* * *
1039153 GAGCCAATATGC-GGCTAGCGATATTGGACTTAAAGAT-AAAG
131 GAGCCAAT-T-CAGGCCAGCGACATTGAACTTAAAGATGAAAG
* * *
1039194 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGAT-
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATG
* *
1039257 AAA-GATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGATGTC
66 AAAGGA--CCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGA-GTA
* * ** *
1039321 AATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAG
128 AAGGAGCCAATTC-AGGCCAGCGACATTGAACTTAAAGAT-G-AAAG
* * *
1039368 GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG
1 GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAG
1039411 GTGCCAATGT
Statistics
Matches: 183, Mismatches: 25, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
167 2 0.01
168 3 0.02
169 59 0.32
170 46 0.25
171 29 0.16
174 44 0.24
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (171 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCCACATTGGACTTAAAGATGAAGAGGATGAAAAGCGATG
AAAGGACCAATACGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGGAGTAAAG
GAGCCAATTCAGGCCAGCGACATTGAACTTAAAGATGAAAG
Found at i:1039357 original size:55 final size:52
Alignment explanation
Indices: 1039257--1039956 Score: 467
Period size: 43 Copynumber: 14.7 Consensus size: 52
1039247 GAAAAGTGAT
* * * * * * **
1039257 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAGAA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATG-G-A
* *
1039311 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1039364 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1039407 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1039450 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1039500 -AAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * *
1039542 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * * * * *
1039592 -AAGATGCCAATATGCTAATTTAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1039635 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1039684 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1039727 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G-
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1039776 -AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--A
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* *
1039819 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT---
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
* * *
1039867 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
*
1039919 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTG
1039957 GGCTTAGAAG
Statistics
Matches: 542, Mismatches: 56, Indels: 98
0.78 0.08 0.14
Matches are distributed among these distances:
43 219 0.40
44 11 0.02
46 1 0.00
48 11 0.02
49 185 0.34
51 1 0.00
52 67 0.12
53 6 0.01
54 5 0.01
55 36 0.07
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (52 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGA
Found at i:1039411 original size:22 final size:22
Alignment explanation
Indices: 1039386--1039454 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
1039376 ATGCTGATTC
1039386 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
* * *
1039408 AAGG--TGCCA-ATGTGCTGA-TTC
1 AAGGCCAGCTATAT-TG--GACTTA
1039429 AAGGCCAGCTATATTGGACTTA
1 AAGGCCAGCTATATTGGACTTA
1039451 AAGG
1 AAGG
1039455 TGCCAATGTG
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 8 0.24
22 12 0.35
23 5 0.15
24 2 0.06
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.26
Consensus pattern (22 bp):
AAGGCCAGCTATATTGGACTTA
Found at i:1039425 original size:43 final size:43
Alignment explanation
Indices: 1039364--1039967 Score: 623
Period size: 43 Copynumber: 13.1 Consensus size: 43
1039354 TAAAGATGGA
*
1039364 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1039407 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
*
1039450 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1039493 AAAGATGAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
1039542 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* * * *
1039585 AAAGATGAAGATGCCAATATGCTAATTTAAGGCCAGCGATATTGGACTT
1 -AA-A-G--G-TGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1039634 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1039677 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1039726 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1039769 AAAGATGAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
1 ----A--AAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
* *
1039818 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
1039867 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
1039916 GGAAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTT
1 ---AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
1039962 AGAAGG
1 A-AAGG
1039968 GTTGCCACCG
Statistics
Matches: 482, Mismatches: 45, Indels: 67
0.81 0.08 0.11
Matches are distributed among these distances:
43 225 0.47
44 11 0.02
45 4 0.01
46 4 0.01
47 4 0.01
48 6 0.01
49 190 0.39
51 1 0.00
52 37 0.08
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (43 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTATATTGGACTT
Found at i:1039432 original size:21 final size:21
Alignment explanation
Indices: 1039408--1039475 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
1039398 ATTGGACTTA
1039408 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
* * *
1039429 AAGGCCAGCTATAT-TG--GACTTA
1 AAGG--TGCCA-ATGTGCTGA-TTC
1039451 AAGGTGCCAATGTGCTGATTC
1 AAGGTGCCAATGTGCTGATTC
1039472 AAGG
1 AAGG
1039476 CCAGCTACAT
Statistics
Matches: 34, Mismatches: 6, Indels: 14
0.63 0.11 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.15
21 12 0.35
22 8 0.24
23 5 0.15
24 2 0.06
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (21 bp):
AAGGTGCCAATGTGCTGATTC
Found at i:1039459 original size:24 final size:24
Alignment explanation
Indices: 1039389--1039459 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
1039379 CTGATTCAAG
1039389 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
* * ** *
1039413 GCCA-ATGTGCT-GA-TTCAA-G-
1 GCCAGCTATATTGGACTTAAAGGT
1039432 GCCAGCTATATTGGACTTAAAGGT
1 GCCAGCTATATTGGACTTAAAGGT
1039456 GCCA
1 GCCA
1039460 ATGTGCTGAT
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
19 4 0.12
20 4 0.12
21 6 0.19
22 6 0.19
23 4 0.12
24 8 0.25
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (24 bp):
GCCAGCTATATTGGACTTAAAGGT
Found at i:1039547 original size:92 final size:92
Alignment explanation
Indices: 1039364--1039913 Score: 896
Period size: 92 Copynumber: 6.0 Consensus size: 92
1039354 TAAAGATGGA
* * *
1039364 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
*
1039423 TGATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1039450 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1039515 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1039542 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* *
1039607 TAATTTAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1039634 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1039699 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
*
1039726 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
1039791 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
* * *
1039818 AAAAGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATGTGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
* * *
1039883 TGAGTCAAGGCCAGCTACATTGGACTT
66 TGATTCAAGGCCAGCGATATTGGACTT
1039910 AAAG
1 AAAG
1039914 ATGGAAAAGG
Statistics
Matches: 437, Mismatches: 21, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
86 41 0.09
90 1 0.00
92 395 0.90
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATATGC
TGATTCAAGGCCAGCGATATTGGACTT
Found at i:1039957 original size:52 final size:50
Alignment explanation
Indices: 1039542--1039962 Score: 460
Period size: 49 Copynumber: 8.9 Consensus size: 50
1039532 TATTGGACTT
* *
1039542 AAAGGTGCCAATGTGCCGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * * * * *
1039591 GAAGATGCCAATATGCTAATTTAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1039635 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
1039683 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1039727 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
* * * *
1039775 GAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
1039819 AAA-GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
*
1039867 AAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT--A
* * *
1039919 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
1039963 GAAGGGTTGC
Statistics
Matches: 308, Mismatches: 37, Indels: 51
0.78 0.09 0.13
Matches are distributed among these distances:
43 102 0.33
44 9 0.03
48 10 0.03
49 147 0.48
52 40 0.13
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (50 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA
Found at i:1040006 original size:33 final size:35
Alignment explanation
Indices: 1039962--1040031 Score: 126
Period size: 33 Copynumber: 2.1 Consensus size: 35
1039952 TATTGGGCTT
1039962 AGAAGGGTTGCCACCGACTTGTGTGGGCTTT-GGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1039996 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGGA
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
1040030 AG
1 AG
1040032 GGAGAAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
33 26 0.74
34 9 0.26
ACGTcount: A:0.20, C:0.17, G:0.37, T:0.26
Consensus pattern (35 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGGA
Found at i:1040091 original size:71 final size:69
Alignment explanation
Indices: 1040016--1040373 Score: 437
Period size: 71 Copynumber: 5.1 Consensus size: 69
1040006 CACCGACTTG
* * *
1040016 TGTGGGCTTTAGGAAGGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCA
1 TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAA-GGAAAAAG-GTGCCA
1040081 CGGAGT
64 CGGAGT
*
1040087 TGTGGGCTTTA-AAA--GAAAAAAATGCCACGGAGTTGTGGGCTTTACAAAGGGAAAAAGAGTGC
1 TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGC-TTA-AAA-GGAAAAAG-GTGC
1040149 CACGGAGT
62 CACGGAGT
1040157 TGTGGGCTTT-GCAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGC
1 TGTGGGCTTTAG-AAAGGGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAA-AGGAAAAAGGTGC
1040220 CACGGAGT
62 CACGGAGT
* ** *
1040228 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCA
1 TGTGGGCTTTAGAAAGGGAAAAAGA-TGCCACGGAGTTGTGGGC-TTAAAAGGAAAAAGGTGCCA
1040292 CGGAGT
64 CGGAGT
* * * *
1040298 TGTGGGCTTT-GAAA-AGAAGAAGGTGCCACGGAGTTGTGGGCTTTAAAGG-AAAAGGTGCCACG
1 TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACG
1040360 GAGT
66 GAGT
1040364 TGTGGGCTTT
1 TGTGGGCTTT
1040374 GAAGAAAAAA
Statistics
Matches: 260, Mismatches: 17, Indels: 25
0.86 0.06 0.08
Matches are distributed among these distances:
66 31 0.12
67 17 0.07
68 29 0.11
69 6 0.02
70 66 0.25
71 72 0.28
72 7 0.03
73 9 0.03
74 23 0.09
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (69 bp):
TGTGGGCTTTAGAAAGGGAAAAAGATGCCACGGAGTTGTGGGCTTAAAAGGAAAAAGGTGCCACG
GAGT
Found at i:1040148 original size:70 final size:68
Alignment explanation
Indices: 1040036--1040383 Score: 442
Period size: 70 Copynumber: 5.0 Consensus size: 68
1040026 AGGAAGGGAG
*
1040036 AAAGATGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT-AA
1 AAAG-TGCCACGGAGTTGTGGGCTTTAAAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAA
1040099 AAGAAA
63 AAGAAA
*
1040105 AAAATGCCACGGAGTTGTGGGCTTTACAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGCA
1 AAAGTGCCACGGAGTTGTGGGCTTTA-AAA-GGAAAAAG-GTGCCACGGAGTTGTGGGCTTTG-A
*
1040170 AAGGGAAA
62 AA-AGAAA
*
1040178 AAGAGTGCCACGGAGTTGTGGGCTTTAAACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAA
1 AA-AGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1040242 AGGGAAA
64 A--GAAA
** *
1040249 AAGAGTGCCACAAAGTTGTGGGCTTTAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AA-AGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
*
1040313 GAAG
65 GAAA
*
1040317 AAGGTGCCACGGAGTTGTGGGCTTT-AAAGG-AAAAGGTGCCACGGAGTTGTGGGCTTTG--AAG
1 AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1040378 AAA
66 AAA
1040381 AAA
1 AAA
1040384 CGCCACTGAG
Statistics
Matches: 252, Mismatches: 17, Indels: 25
0.86 0.06 0.09
Matches are distributed among these distances:
64 7 0.03
66 30 0.12
67 21 0.08
68 22 0.09
69 6 0.02
70 71 0.28
71 53 0.21
72 10 0.04
73 8 0.03
74 24 0.10
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (68 bp):
AAAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
AAA
Found at i:1040159 original size:37 final size:35
Alignment explanation
Indices: 1040016--1040373 Score: 445
Period size: 34 Copynumber: 10.3 Consensus size: 35
1040006 CACCGACTTG
* *
1040016 TGTGGGCTTTAGGAAGGGAGAAAGA-TGCCACGGAGT
1 TGTGGGCTTTA--AAAGGAAAAAGAGTGCCACGGAGT
*
1040052 TGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTAAAA-GGAAAAAGAGTGCCACGGAGT
*
1040087 TGTGGGCTTTAAAA-GAAAAA-AATGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
1040120 TGTGGGCTTTACAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTA-AAA-GGAAAAAGAGTGCCACGGAGT
*
1040157 TGTGGGCTTTGCAAAGGGAAAAAGAGTGCCACGGAGT
1 TGTGGGCTTT--AAAAGGAAAAAGAGTGCCACGGAGT
1040194 TGTGGGCTTTAAACA-GAAAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAA-AGGAAAAAGAGTGCCACGGAGT
**
1040228 TGTGGGCTTTAAAAAGGGAAAAAGAGTGCCACAAAGT
1 TGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACGGAGT
*
1040265 TGTGGGCTTTAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
*
1040298 TGTGGGCTTTGAAAA-GAAGAAG-GTGCCACGGAGT
1 TGTGGGCTTT-AAAAGGAAAAAGAGTGCCACGGAGT
1040332 TGTGGGCTTT-AAAGG-AAAAG-GTGCCACGGAGT
1 TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
1040364 TGTGGGCTTT
1 TGTGGGCTTT
1040374 GAAGAAAAAA
Statistics
Matches: 292, Mismatches: 14, Indels: 36
0.85 0.04 0.11
Matches are distributed among these distances:
32 29 0.10
33 46 0.16
34 79 0.27
35 33 0.11
36 29 0.10
37 73 0.25
38 2 0.01
39 1 0.00
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.21
Consensus pattern (35 bp):
TGTGGGCTTTAAAAGGAAAAAGAGTGCCACGGAGT
Found at i:1040458 original size:32 final size:32
Alignment explanation
Indices: 1040067--1040499 Score: 202
Period size: 37 Copynumber: 13.0 Consensus size: 32
1040057 ACTTAAAAGG
* * * *
1040067 GAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 GAAAAGGA-TGCCACTGAGTCGTGGGCTTT-GAA
** * * *
1040101 GAAAAAAATGCCACGGAGTTGTGGGCTTTACAAA
1 GAAAAGGATGCCACTGAGTCGTGGGCTTT--GAA
* * *
1040135 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTGCAAA
1 --GAAAAGGA-TGCCACTGAGTCGTGGGCTTTG--AA
* * * *
1040172 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAACA
1 --GAAAAGGA-TGCCACTGAGTCGTGGGCTTT-GA-A
* * *
1040209 GAAAAAGG-TGCCACGGAGTTGTGGGCTTTAAAAA
1 G-AAAAGGATGCCACTGAGTCGTGGGCTTT--GAA
* ** * *
1040243 GGGAAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAA
1 --GAAAAGGA-TGCCACTGAGTCGTGGGCTTT-GAA
* *
1040279 GAAGAAGG-TGCCACGGAGTTGTGGGCTTTGAAAA
1 GAA-AAGGATGCCACTGAGTCGTGGGCTTTG--AA
* * *
1040313 GAAGAAGG-TGCCACGGAGTTGTGGGCTTTAAA
1 GAA-AAGGATGCCACTGAGTCGTGGGCTTTGAA
* *
1040345 GGAAAAGG-TGCCACGGAGTTGTGGGCTTTGAA
1 -GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
* * *
1040377 GAAAA-AACGCCACTGAGTCGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
* *
1040407 GACAAA--ATGCCACTAAGTCGTGGACTTTGAA
1 GA-AAAGGATGCCACTGAGTCGTGGGCTTTGAA
*
1040438 GAAAAGGATGCCACTGAGTCGTGGACTTTG-A
1 GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
*
1040469 GAAGA-GATTGCCACTGAGTCGTGGGCTTTGA
1 GAAAAGGA-TGCCACTGAGTCGTGGGCTTTGA
1040500 GAAGAGATTT
Statistics
Matches: 349, Mismatches: 25, Indels: 52
0.82 0.06 0.12
Matches are distributed among these distances:
30 29 0.08
31 55 0.16
32 51 0.15
33 43 0.12
34 66 0.19
35 12 0.03
36 18 0.05
37 75 0.21
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (32 bp):
GAAAAGGATGCCACTGAGTCGTGGGCTTTGAA
Found at i:1040484 original size:31 final size:31
Alignment explanation
Indices: 1040385--1040508 Score: 164
Period size: 31 Copynumber: 4.0 Consensus size: 31
1040375 AAGAAAAAAC
*
1040385 GCCACTGAGTCGTGGACTTTGAGACA-A-AAT
1 GCCACTGAGTCGTGGACTTTGAGA-AGAGATT
* *
1040415 GCCACTAAGTCGTGGACTTTGAAGAAAAGGA-T
1 GCCACTGAGTCGTGGACTTTG-AGAAGA-GATT
1040447 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
*
1040478 GCCACTGAGTCGTGGGCTTTGAGAAGAGATT
1 GCCACTGAGTCGTGGACTTTGAGAAGAGATT
1040509 TGAAGAATTG
Statistics
Matches: 85, Mismatches: 4, Indels: 9
0.87 0.04 0.09
Matches are distributed among these distances:
30 23 0.27
31 40 0.47
32 21 0.25
33 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (31 bp):
GCCACTGAGTCGTGGACTTTGAGAAGAGATT
Found at i:1041446 original size:1 final size:1
Alignment explanation
Indices: 1041440--1041494 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
1041430 GGGGTTGTTC
* * * * * *
1041440 TTTTTTTTTCTTCTTTTTTTTTGTTTTTTTTTCTTTTTTGTTTTGTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1041495 GGAAAAGAAC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (1 bp):
T
Found at i:1041468 original size:20 final size:22
Alignment explanation
Indices: 1041434--1041490 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
1041424 TGAAAAGGGG
*
1041434 TTGTTCTTTTTTTTTCTTC-TTT
1 TTGTT-TTGTTTTTTCTTCTTTT
*
1041456 TT-TTTTGTTTTTTTTTCTTTT
1 TTGTTTTGTTTTTTCTTCTTTT
1041477 TTGTTTTGTTTTTT
1 TTGTTTTGTTTTTT
1041491 TTTTGGAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 11 0.35
21 7 0.23
22 13 0.42
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.86
Consensus pattern (22 bp):
TTGTTTTGTTTTTTCTTCTTTT
Found at i:1041483 original size:13 final size:12
Alignment explanation
Indices: 1041440--1041494 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
1041430 GGGGTTGTTC
1041440 TTTTTTTTTCTT
1 TTTTTTTTTCTT
* *
1041452 CTTTTTTTT-TG
1 TTTTTTTTTCTT
1041463 TTTTTTTTTCTT
1 TTTTTTTTTCTT
* *
1041475 TTTTGTTTTGTT
1 TTTTTTTTTCTT
1041487 TTTTTTTT
1 TTTTTTTT
1041495 GGAAAAGAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
11 9 0.26
12 26 0.74
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:1041491 original size:20 final size:22
Alignment explanation
Indices: 1041441--1041492 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
1041431 GGGTTGTTCT
*
1041441 TTTTTTTTCTTCTTTTTTTTTG
1 TTTTTTTTCTTCTTTTGTTTTG
1041463 TTTTTTTTTCTT-TTTTGTTTTG
1 -TTTTTTTTCTTCTTTTGTTTTG
1041485 TTTTTTTT
1 TTTTTTTT
1041493 TTGGAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 8 0.29
22 9 0.32
23 11 0.39
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.88
Consensus pattern (22 bp):
TTTTTTTTCTTCTTTTGTTTTG
Found at i:1041494 original size:23 final size:23
Alignment explanation
Indices: 1041440--1041493 Score: 92
Period size: 22 Copynumber: 2.4 Consensus size: 23
1041430 GGGGTTGTTC
*
1041440 TTTTTTTTTCTTCTTTTTTTTTG
1 TTTTTTTTTCTTCTTTTGTTTTG
1041463 TTTTTTTTTCTT-TTTTGTTTTG
1 TTTTTTTTTCTTCTTTTGTTTTG
1041485 TTTTTTTTT
1 TTTTTTTTT
1041494 TGGAAAAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 18 0.60
23 12 0.40
ACGTcount: A:0.00, C:0.06, G:0.06, T:0.89
Consensus pattern (23 bp):
TTTTTTTTTCTTCTTTTGTTTTG
Found at i:1041760 original size:10 final size:11
Alignment explanation
Indices: 1041745--1041769 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1041735 TTTGTGTGTG
1041745 TTTTTTTGTTT
1 TTTTTTTGTTT
1041756 TTTTTTTGTTT
1 TTTTTTTGTTT
1041767 TTT
1 TTT
1041770 GTGTTTACTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:1041781 original size:20 final size:19
Alignment explanation
Indices: 1041743--1041781 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1041733 TTTTTGTGTG
**
1041743 TGTTTTTTTGTTTTTTTTT
1 TGTTTTTTTGTTTACTTTT
1041762 TGTTTTTTGTGTTTACTTTT
1 TGTTTTTT-TGTTTACTTTT
1041782 GACTGTTCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.03, C:0.03, G:0.13, T:0.82
Consensus pattern (19 bp):
TGTTTTTTTGTTTACTTTT
Found at i:1048784 original size:13 final size:13
Alignment explanation
Indices: 1048766--1048790 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1048756 CAAAGATCAG
1048766 TGTATCGATACAA
1 TGTATCGATACAA
1048779 TGTATCGATACA
1 TGTATCGATACA
1048791 TGTGAGTAAT
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:1048873 original size:13 final size:13
Alignment explanation
Indices: 1048855--1048879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1048845 CAAAAAAATA
1048855 TGTATCGATACAT
1 TGTATCGATACAT
1048868 TGTATCGATACA
1 TGTATCGATACA
1048880 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1048875 original size:33 final size:33
Alignment explanation
Indices: 1048833--1048899 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1048823 AGTAGCTTAA
1048833 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1048866 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1048899 A
1 A
1048900 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1054148 original size:14 final size:13
Alignment explanation
Indices: 1054121--1054184 Score: 58
Period size: 13 Copynumber: 4.6 Consensus size: 13
1054111 GATGAAAAAT
1054121 AAAAATAAATTGA
1 AAAAATAAATTGA
*
1054134 AAAAATAACTCTGA
1 AAAAATAAAT-TGA
*
1054148 AAAGAATATAA-TAA
1 AAA-AATA-AATTGA
1054162 ATACAAATAAATTGA
1 A-A-AAATAAATTGA
1054177 AAAAATAA
1 AAAAATAA
1054185 CTCTAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
13 15 0.37
14 12 0.29
15 12 0.29
16 2 0.05
ACGTcount: A:0.67, C:0.05, G:0.06, T:0.22
Consensus pattern (13 bp):
AAAAATAAATTGA
Found at i:1054170 original size:43 final size:41
Alignment explanation
Indices: 1054117--1054208 Score: 141
Period size: 43 Copynumber: 2.2 Consensus size: 41
1054107 TATTGATGAA
1054117 AAATAAAAATAAATTGAAAAAATAACTCTGAAAAGAATATAAT
1 AAATAAAAATAAATTGAAAAAATAACTCT-AAAA-AATATAAT
*
1054160 AAATACAAATAAATTGAAAAAATAACTCTAAAAAATAT-AT
1 AAATAAAAATAAATTGAAAAAATAACTCTAAAAAATATAAT
*
1054200 AATTAAAAA
1 AAATAAAAA
1054209 AAAAAACCTA
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
40 9 0.20
41 5 0.11
42 4 0.09
43 28 0.61
ACGTcount: A:0.66, C:0.05, G:0.04, T:0.24
Consensus pattern (41 bp):
AAATAAAAATAAATTGAAAAAATAACTCTAAAAAATATAAT
Found at i:1055497 original size:33 final size:33
Alignment explanation
Indices: 1055425--1055510 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
1055415 ATTTAAACGT
1055425 TAATAATTTAATAT-TTTTATTAAATTTTAAAATA
1 TAAT-ATTTAATATATTTT-TTAAATTTTAAAATA
* * *
1055459 AAATATTTAATATATTTTTT-AATATTTATATTA
1 TAATATTTAATATATTTTTTAAAT-TTTAAAATA
*
1055492 TAATA-TT-ATATATTATTTA
1 TAATATTTAATATATTTTTTA
1055511 TAAAATAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
31 10 0.23
32 5 0.11
33 22 0.50
34 7 0.16
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (33 bp):
TAATATTTAATATATTTTTTAAATTTTAAAATA
Found at i:1055505 original size:15 final size:14
Alignment explanation
Indices: 1055478--1055507 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
1055468 ATATATTTTT
1055478 TAATATTTATATTA
1 TAATATTTATATTA
1055492 TAATATTATATATTA
1 TAATATT-TATATTA
1055507 T
1 T
1055508 TTATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TAATATTTATATTA
Found at i:1055518 original size:24 final size:24
Alignment explanation
Indices: 1055478--1055565 Score: 70
Period size: 25 Copynumber: 3.5 Consensus size: 24
1055468 ATATATTTTT
** *
1055478 TAATATTTATATTATAATATTATA
1 TAATATTTATAAAATAAAATTATA
*
1055502 TATTATTTATAAAATAAAAATTATA
1 TAATATTTATAAAAT-AAAATTATA
* *
1055527 TAATATATAAAAATATATAAATTA-A
1 TAATATTTATAAA-ATA-AAATTATA
1055552 TATATATTGTATAA
1 TA-ATATT-TATAA
1055566 TTCTAAAGCT
Statistics
Matches: 50, Mismatches: 9, Indels: 7
0.76 0.14 0.11
Matches are distributed among these distances:
24 12 0.24
25 22 0.44
26 12 0.24
27 4 0.08
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (24 bp):
TAATATTTATAAAATAAAATTATA
Found at i:1056644 original size:28 final size:28
Alignment explanation
Indices: 1056607--1056724 Score: 130
Period size: 28 Copynumber: 4.1 Consensus size: 28
1056597 TTGAAATTTT
1056607 ATTTTTAAATTTTTTAATAATTTTTTTGA
1 ATTTTTAAATTTTTT-ATAATTTTTTTGA
* *
1056636 A-TTTTAAATTATTTTATAATCTCTTTGA
1 ATTTTTAAATT-TTTTATAATTTTTTTGA
** *
1056664 ATTTTTTGGATTTTTTATAATTGTTTTGA
1 A-TTTTTAAATTTTTTATAATTTTTTTGA
** *
1056693 ATTTTTTGATTTTTTATAAATTTTTTGA
1 ATTTTTAAATTTTTTATAATTTTTTTGA
1056721 ATTT
1 ATTT
1056725 AAAAAGAATT
Statistics
Matches: 76, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
28 49 0.64
29 20 0.26
30 7 0.09
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.64
Consensus pattern (28 bp):
ATTTTTAAATTTTTTATAATTTTTTTGA
Found at i:1056696 original size:20 final size:19
Alignment explanation
Indices: 1056608--1056699 Score: 62
Period size: 20 Copynumber: 4.7 Consensus size: 19
1056598 TGAAATTTTA
*
1056608 TTTTTAAATTTTTTAATAATT
1 TTTTTGAATTTTTT-ATAA-T
** *
1056629 TTTTTGAATTTTAAATTAT
1 TTTTTGAATTTTTTATAAT
* * *
1056648 TTTAT-AATCTCTTT-GAAT
1 TTTTTGAAT-TTTTTATAAT
*
1056666 TTTTTGGATTTTTTATAAT
1 TTTTTGAATTTTTTATAAT
1056685 TGTTTTGAATTTTTT
1 T-TTTTGAATTTTTT
1056700 GATTTTTTAT
Statistics
Matches: 52, Mismatches: 15, Indels: 9
0.68 0.20 0.12
Matches are distributed among these distances:
18 13 0.25
19 13 0.25
20 15 0.29
21 11 0.21
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (19 bp):
TTTTTGAATTTTTTATAAT
Found at i:1056708 original size:57 final size:58
Alignment explanation
Indices: 1056615--1056724 Score: 145
Period size: 57 Copynumber: 1.9 Consensus size: 58
1056605 TTATTTTTAA
*
1056615 ATTTTTTAATAATTTTTTTGAATTTTAAATTATTTTAT-AATCTCTTTGAATTTTTTGG
1 ATTTTTTAATAATTGTTTTGAATTTTAAATTATTTTATAAAT-TCTTTGAATTTTTTGG
** *
1056673 ATTTTTT-ATAATTGTTTTGAATTTTTTGATT-TTTTATAAATTTTTTGAATTT
1 ATTTTTTAATAATTGTTTTGAA-TTTTAAATTATTTTATAAATTCTTTGAATTT
1056725 AAAAAGAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
57 29 0.63
58 17 0.37
ACGTcount: A:0.26, C:0.02, G:0.07, T:0.65
Consensus pattern (58 bp):
ATTTTTTAATAATTGTTTTGAATTTTAAATTATTTTATAAATTCTTTGAATTTTTTGG
Found at i:1059206 original size:15 final size:15
Alignment explanation
Indices: 1059186--1059221 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1059176 AAACAAATAA
* *
1059186 TGGATGCACGGGTTG
1 TGGATGCACGAGTGG
1059201 TGGATGCACGAGTGG
1 TGGATGCACGAGTGG
1059216 TGGATG
1 TGGATG
1059222 GACAGGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.47, T:0.25
Consensus pattern (15 bp):
TGGATGCACGAGTGG
Found at i:1062333 original size:20 final size:22
Alignment explanation
Indices: 1062310--1062362 Score: 92
Period size: 20 Copynumber: 2.5 Consensus size: 22
1062300 TGGACATGTT
1062310 AAAAATGCATGAAACATAA-AA
1 AAAAATGCATGAAACATAATAA
1062331 AAAAA-GCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1062352 AAAAATGCATG
1 AAAAATGCATG
1062363 GTCAAAGGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
20 13 0.43
21 12 0.40
22 5 0.17
ACGTcount: A:0.64, C:0.09, G:0.11, T:0.15
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1063303 original size:20 final size:19
Alignment explanation
Indices: 1063278--1063348 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1063268 AGACATAATG
1063278 TATCGATACATTGTAGAATA
1 TATCGATACATTGTA-AATA
* * *
1063298 TATCGATACATTCATACATG
1 TATCGATACATT-GTAAATA
* *
1063318 TATCGATATATTGAAAAATA
1 TATCGATACATTG-TAAATA
1063338 TATCGATACAT
1 TATCGATACAT
1063349 CAATGTAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
20 38 0.95
21 2 0.05
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.35
Consensus pattern (19 bp):
TATCGATACATTGTAAATA
Found at i:1063338 original size:40 final size:39
Alignment explanation
Indices: 1063271--1063348 Score: 120
Period size: 40 Copynumber: 2.0 Consensus size: 39
1063261 GGTAAAAAGA
* *
1063271 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
*
1063310 CATACATGTATCGATATATTGAAAAATATATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1063349 CAATGTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.11
40 31 0.89
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1064101 original size:86 final size:85
Alignment explanation
Indices: 1063959--1064866 Score: 1164
Period size: 86 Copynumber: 10.6 Consensus size: 85
1063949 CACTGACACA
** *
1063959 TGTGGGCTTTGAAAAGAGTGTTACTGACTTGCGTGGGCTTTAAAAGGGTGCCACTGACTTGCGTG
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTT--GTGGGCTTTGAAAGGGTGCCACTGACTT-CGTG
1064024 GGCTTTGAAAGGATGCCACTGACT
62 GGCTTTGAAAGGATGCCACTGACT
*
1064048 CGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAA-GGTGCCTACTGAC-TCGTGGGC
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCC-ACTGACTTCGTGGGC
*
1064111 TTTGAAAAGG-TACCACTGACT
65 TTTG-AAAGGATGCCACTGACT
* * *
1064132 CGTGGGC-TTGAAAGGGTGCCACTGACTTGTGGG-TTTGAAAGAGTGCCACTGAC-TCGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCT
1064194 TTGAAAAGG-TGCCACTGACT
66 TTG-AAAGGATGCCACTGACT
* *
1064214 TGCGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGTGGGCTTTGAAAGGGTTCCACTAAC-TCGT
1 T--GTGGGCTTTGAAA-GAGTGCCACTGAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACTTCGT
1064278 GGGCTTTGAAAGGATGCCACTGACT
61 GGGCTTTGAAAGGATGCCACTGACT
* * * * *
1064303 TATGGGCTTTGAAAGAGTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACTTGCGTGAGC
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-CGTGGGC
*
1064368 TTTAAAAGGAGTGCCACTGACTT
65 TTTGAAAGGA-TGCCACTGAC-T
* * * *
1064391 GTGTGGGCTTTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTT-GTGGGC
1 -TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGC
* *
1064455 TTCGCAATGG-TGCCACTGACT
65 TTTG-AAAGGATGCCACTGACT
* * * *
1064476 TGTGGGCTCTGAAAGGGTGCCACTGACTTGTGGGCTCTGAAAGGGTGCCACTGA-TTTGTGGGCT
1 TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCT
*
1064540 TTGAAAAGAGTGCCACTGACT
66 TTGAAAGGA-TGCCACTGACT
*
1064561 TGTGGGCTTTGAAAGGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGGGC
1 TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGC
* *
1064625 TTTGAAAAGAGTGCCACTGATT
65 TTTGAAAGGA-TGCCACTGACT
1064647 TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGGGC
1 TGTGGGCTTTG-AAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGC
*
1064711 TTTGAAAGGGTGCCACTGACT
65 TTTGAAAGGATGCCACTGACT
1064732 TGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT-GTGGGC
1 TGTGGGCTTTGAAA-GAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGC
*
1064796 TTTGAAAGGGTGCCACTGACT
65 TTTGAAAGGATGCCACTGACT
* * * * *
1064817 TGTGGGCTTTG-AAGAGATGCCACGGAGTTATGGAC-TTAAAAGGGTGCCAC
1 TGTGGGCTTTGAAAGAG-TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCAC
1064867 GGAGTTGTGG
Statistics
Matches: 740, Mismatches: 54, Indels: 56
0.87 0.06 0.07
Matches are distributed among these distances:
82 41 0.06
83 52 0.07
84 134 0.18
85 147 0.20
86 199 0.27
87 35 0.05
88 32 0.04
89 100 0.14
ACGTcount: A:0.21, C:0.18, G:0.33, T:0.28
Consensus pattern (85 bp):
TGTGGGCTTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTCGTGGGCT
TTGAAAGGATGCCACTGACT
Found at i:1064153 original size:27 final size:28
Alignment explanation
Indices: 1063959--1065878 Score: 1339
Period size: 28 Copynumber: 68.8 Consensus size: 28
1063949 CACTGACACA
* **
1063959 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1063988 TGCGTGGGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
1064018 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064048 CGTGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1064076 TGTGGGCTTTGAAA-GGTGCCTACTGACT
1 TGTGGGCTTTGAAAGGGTGCC-ACTGACT
* * *
1064104 CGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1064132 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1064159 TGTGGG-TTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064186 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1064214 TGCGTGGGCTTTGAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
* *
1064246 GTGTGGGCTTTGAAAGGGTTCCACTAACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064275 CGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064303 TATGGGCTTTGAAAGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1064331 CGTGGGCTTTGAAAAGGTACCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064359 TGCGTGAGCTTTAAAAGGAGTGCCACTGACTT
1 T--GTGGGCTTTGAAAGG-GTGCCACTGAC-T
*
1064391 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064420 TGTGGGCTTTGAAAGAGTGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1064448 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1064476 TGTGGGCTCTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064504 TGTGGGCTCTGAAAGGGTGCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
1064532 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1064561 TGTGGGCTTTGAAAGGAGTGCCATTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1064590 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1064618 TGTGGGCTTTGAAAAGAGTGCCACTGATT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
*
1064647 TGTGGGCTTTGAAAAGAGTGCCACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
1064676 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1064704 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1064732 TGTGGGCTTTGAAAGGAGTGCCACTGACT
1 TGTGGGCTTTGAAAGG-GTGCCACTGACT
1064761 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
1064789 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
1064817 TGTGGGCTTTG-AAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * * *
1064845 TATGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1064872 TGTGGAC-TTAAAAGGGTGCCACAGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1064899 TGTGGTC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * *
1064927 TGTGGAC-TTAAAAGGGTGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
1064954 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1064981 TGTGGAC-TTAAAAAGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * *
1065008 TGTGGAC-TTAAAAGAATGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065035 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065062 TGTGGTC-TTAAAAGGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
1065090 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065117 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * * *
1065144 TGTGGACTTAAAAAAGATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACT-GACT
* * * *
1065172 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * * *
1065200 TGTGGAC-TTAAAAGAGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065227 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
1065254 TGTGGAC-TAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* ** * *
1065281 TGTGGAC-TAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1065308 TATGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
1065336 TGTGGAC-TTAAAAAGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065363 TGTGGACTTTAAAAGGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
1065392 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1065419 TGTGGAC-TTAAAAGGGTGTCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * *
1065446 TGTGGAC-TTAAAAGAATGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1065473 TGTGGAC-TTAAAAGGGTGCCGCGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065500 TGTGGTC-TTAAAAGGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
1065528 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065555 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1065582 TGTGGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * *
1065610 TGTGGAC-TTAAAAGGGATGCCAC-GAAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTG-ACT
* * ** *
1065638 TGTGGAC-TTAAAAGGGATGCCACAAAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
1065666 TGT-GGATTTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
1065693 TGTGGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * *
1065721 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
1065749 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065776 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
1065803 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * *
1065830 TATGGAC-TAAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
1065857 TGTGGACTTTAAAAGGGTGCCA
1 TGTGGGCTTTGAAAGGGTGCCA
1065879 TAGAGTTGTG
Statistics
Matches: 1703, Mismatches: 145, Indels: 87
0.88 0.07 0.04
Matches are distributed among these distances:
27 667 0.39
28 724 0.43
29 161 0.09
30 88 0.05
31 59 0.03
32 2 0.00
33 2 0.00
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.25
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:1064920 original size:55 final size:54
Alignment explanation
Indices: 1064400--1065926 Score: 1740
Period size: 55 Copynumber: 27.6 Consensus size: 54
1064390 TGTGTGGGCT
* * * * * ** * *
1064400 TTAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
** * * * * * * * *
1064455 TTCGCAATGGTGCCACTGACTTGTGGGCTCTGAAAGGGTGCCACTGACTTGTGGGC
1 TT-AAAAGGGTGCCACGGAGTTGTGGACT-TAAAAGGGTGCCACGGAGTTGTGGAC
* * * * * * * *
1064511 TCTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 T-TAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC
* ** * * * * * *
1064568 TTTGAAAGGAGTGCCATTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * * * * * *
1064625 TTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 -TT-AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGGTGCCACGGAGTTGTGGAC
* * * * * * * *
1064683 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * * * * * *
1064739 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGG-GTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * * ** * *
1064796 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAGAGATGCCACGGAGTTATGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGAC
* * *
1064852 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAATTGTGGTC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1064906 TTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCATGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1064961 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
** * *
1065015 TTAAAAGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065069 TTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1065124 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAAGATGCCATGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACGGAGTTGTGGAC
*
1065179 TTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065234 TTAAAAGGGTGCCACGGAGTTGTGGACTAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1065288 TAAAAAGGGTGCCACGGAGTTATGGACTTTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1065343 TTAAAAAGATGCCACAGAGTTGTGGACTTTAAAAGGGATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGG-TGCCACGGAGTTGTGGAC
*
1065399 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGTCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
** * * *
1065453 TTAAAAGAATGCCACAGAGTTGTGGACTTAAAAGGGTGCCGCGGAGTTGTGGTC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065507 TTAAAAGGGATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* *
1065562 TTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGAC
* ** *
1065617 TTAAAAGGGATGCCACGAAGTTGTGGACTTAAAAGGGATGCCACAAAGTTGTGGAT
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGAC
*
1065673 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGAGATGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGAGTTGTGGAC
1065728 TTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065783 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
* **
1065837 TAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCATAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1065892 TTAAAAAGATGCCACAGAGTTGTGGACTTTAAAAG
1 TTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAG
1065927 AAAATGCCAC
Statistics
Matches: 1335, Mismatches: 113, Indels: 48
0.89 0.08 0.03
Matches are distributed among these distances:
54 376 0.28
55 478 0.36
56 271 0.20
57 159 0.12
58 51 0.04
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (54 bp):
TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC
Found at i:1065927 original size:27 final size:27
Alignment explanation
Indices: 1064400--1065926 Score: 1740
Period size: 27 Copynumber: 55.3 Consensus size: 27
1064390 TGTGTGGGCT
* * *
1064400 TTAAAAGGGTGCCACTGACTTGTGGGC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * ** * *
1064427 TTTGAAAGAGTGCCACTAACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
** * * * *
1064455 TTCGCAATGGTGCCACTGACTTGTGGGC
1 TT-AAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064483 TCTGAAAGGGTGCCACTGACTTGTGGGC
1 T-TAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064511 TCTGAAAGGGTGCCACTGATTTGTGGGC
1 T-TAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064539 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
* ** * *
1064568 TTTGAAAGGAGTGCCATTGACTTGTGGGC
1 -TTAAAAGG-GTGCCACGGAGTTGTGGAC
* * * *
1064597 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064625 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064654 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 -TT-AAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064683 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064711 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064739 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 -TTAAAAGG-GTGCCACGGAGTTGTGGAC
* * * *
1064768 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
1064796 TTTGAAAGGGTGCCACTGACTTGTGGGC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
** * *
1064824 TTTGAAGAGATGCCACGGAGTTATGGAC
1 TTAAAAG-GGTGCCACGGAGTTGTGGAC
1064852 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1064879 TTAAAAGGGTGCCACAGAATTGTGGTC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
1064906 TTAAAAGGGATGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
*
1064934 TTAAAAGGGTGCCATGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
1064961 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1064988 TTAAAAAGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
** *
1065015 TTAAAAGAATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065042 TTAAAAGGGTGCCACGGAGTTGTGGTC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065069 TTAAAAGGGATGCCACAGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
1065097 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
1065124 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1065151 TTAAAAAAGATGCCATGGAGTTGTGGAC
1 TT-AAAAGGGTGCCACGGAGTTGTGGAC
1065179 TTAAAAGGGATGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
*
1065207 TTAAAAGAGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
1065234 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065261 TAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* *
1065288 TAAAAAGGGTGCCACGGAGTTATGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065315 TTTAAAAGGGTGCCACAGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1065343 TTAAAAAGATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065370 TTTAAAAGGGATGCCACAGAGTTGTGGAC
1 -TTAAAAGGG-TGCCACGGAGTTGTGGAC
1065399 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065426 TTAAAAGGGTGTCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
** *
1065453 TTAAAAGAATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* *
1065480 TTAAAAGGGTGCCGCGGAGTTGTGGTC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065507 TTAAAAGGGATGCCACAGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
1065535 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065562 TTAAAAGGGTGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065589 TTAAAAGAGATGCCACGGAGTTGTGGAC
1 TTAAAAG-GGTGCCACGGAGTTGTGGAC
*
1065617 TTAAAAGGGATGCCACGAAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
** *
1065645 TTAAAAGGGATGCCACAAAGTTGTGGAT
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
1065673 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065700 TTAAAAGAGATGCCACGGAGTTGTGGAC
1 TTAAAAG-GGTGCCACGGAGTTGTGGAC
1065728 TTAAAAGGGATGCCACGGAGTTGTGGAC
1 TTAAAAGGG-TGCCACGGAGTTGTGGAC
1065756 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
1065783 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065810 TTAAAAGGGTGCCACGGAGTTATGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
1065837 TAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
**
1065864 TTTAAAAGGGTGCCATAGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
1065892 TTAAAAAGATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
1065919 TTTAAAAG
1 -TTAAAAG
1065927 AAAATGCCAC
Statistics
Matches: 1369, Mismatches: 108, Indels: 44
0.90 0.07 0.03
Matches are distributed among these distances:
27 645 0.47
28 571 0.42
29 153 0.11
ACGTcount: A:0.27, C:0.15, G:0.34, T:0.24
Consensus pattern (27 bp):
TTAAAAGGGTGCCACGGAGTTGTGGAC
Found at i:1067157 original size:33 final size:33
Alignment explanation
Indices: 1067120--1067186 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1067110 TTCAACGATT
1067120 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1067153 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1067186 T
1 T
1067187 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1067158 original size:13 final size:13
Alignment explanation
Indices: 1067140--1067164 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1067130 CATAAAATGT
1067140 TGTATCGATACAA
1 TGTATCGATACAA
1067153 TGTATCGATACA
1 TGTATCGATACA
1067165 TATTTTTTTG
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:1067245 original size:13 final size:13
Alignment explanation
Indices: 1067227--1067251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1067217 ATTACTCAAA
1067227 TGTATCGATACAT
1 TGTATCGATACAT
1067240 TGTATCGATACA
1 TGTATCGATACA
1067252 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1067353 original size:52 final size:52
Alignment explanation
Indices: 1067260--1067387 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
1067250 CACTGATCTT
*
1067260 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACA-TTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1067311 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1067363 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1067388 TCATATTTCG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 19 0.26
52 52 0.70
53 3 0.04
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
Found at i:1081052 original size:51 final size:51
Alignment explanation
Indices: 1080955--1081129 Score: 307
Period size: 51 Copynumber: 3.4 Consensus size: 51
1080945 ATATGAAAAG
*
1080955 TTGCTTGCATGTATCGATACATT-TAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTATAA-A-TGTATCGATACATCTGGGCAAAT
1081007 TTGCCTGCATGTATCGATACATTATAAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTATAAATGTATCGATACATCTGGGCAAAT
1081058 TTGCCTGCATGTATCGATACATTATAAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTATAAATGTATCGATACATCTGGGCAAAT
*
1081109 TTGCCTGCATGTATCGGTACA
1 TTGCCTGCATGTATCGATACA
1081130 AAGATCAGTG
Statistics
Matches: 120, Mismatches: 2, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
51 94 0.78
52 23 0.19
53 3 0.03
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTATAAATGTATCGATACATCTGGGCAAAT
Found at i:1081240 original size:33 final size:33
Alignment explanation
Indices: 1081203--1081269 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1081193 AGTAGCTTAA
1081203 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1081236 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1081269 A
1 A
1081270 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1081243 original size:13 final size:13
Alignment explanation
Indices: 1081225--1081249 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1081215 CAAAAAAATA
1081225 TGTATCGATACAT
1 TGTATCGATACAT
1081238 TGTATCGATACA
1 TGTATCGATACA
1081250 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1083751 original size:20 final size:20
Alignment explanation
Indices: 1083704--1083778 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1083694 AAAAAGACAT
*
1083704 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1083723 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1083744 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1083764 AATGTATCGATACAT
1 AATGTATCGATACAT
1083779 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1083772 original size:40 final size:39
Alignment explanation
Indices: 1083701--1083778 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1083691 GGTAAAAAGA
* *
1083701 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1083740 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1083779 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1085572 original size:374 final size:374
Alignment explanation
Indices: 1084877--1085627 Score: 1243
Period size: 374 Copynumber: 2.0 Consensus size: 374
1084867 CTCTCCTTCT
* * *
1084877 ACTATAGCAAAAGCAAGTGGCAAAGGTTGTCTTTCTCCATCTTGAGTTGTTGCGATCAAAAGCTT
1 ACTATAGAAAAAGCAAGTGGCAAAGGTTGTCTTTCTCCATCTCGAGTTGTTGCAATCAAAAGCTT
** ** * *
1084942 ATGTCGATATTTTTTATACAAATGAGTATCGTCAATTTGCATAATCGGTTTGCAAAATGGAAACC
66 ATGTCGATATTTTCCATACAAATGAGTATCACCAATCTGCATAATCGGCTTGCAAAATGGAAACC
*
1085007 CATCAATACAAGGTTTAAAACTCTAAAATAAACAATAGAATTCAACCTTTGATGGGTTAACATGA
131 CATCAATACAAGGTTTAAAACTCCAAAATAAACAATAGAATTCAACCTTTGATGGGTTAACATGA
* * * *
1085072 CTGTTCTCAACATAATCATTGATTTGTAAGTCAACAATTATGCCTGGCATGTATTTTTTAATTGC
196 CCGTTCTCAACATAATCATTGATTTGTAAGTCAACAATTATGCATGACATGTATTTTTTAACTGC
*
1085137 CTTTACCCATATAGGCAATATATCATATGACTGATCCTAATCACCAAAAATTTTAACGATTGCTT
261 CTCTACCCATATAGGCAATATATCATATGACTGATCCTAATCACCAAAAATTTTAACGATTGCTT
1085202 TTTGCTTTGCCTTCCAAGCTTTCTGGTATGACACTTTATAAGAAAATTA
326 TTTGCTTTGCCTTCCAAGCTTTCTGGTATGACACTTTATAAGAAAATTA
* *
1085251 ACTATAGAAAAAGCAAGTGGCAAAGGTTGTCTTTCTTCATCTCGAGTTGTTGCAATCATAAGCTT
1 ACTATAGAAAAAGCAAGTGGCAAAGGTTGTCTTTCTCCATCTCGAGTTGTTGCAATCAAAAGCTT
* *
1085316 ATGTCGATATTTTCCATACAAATGGGTATCACCAATCTGTATAATCGGCTTGCAAAATGGAAACC
66 ATGTCGATATTTTCCATACAAATGAGTATCACCAATCTGCATAATCGGCTTGCAAAATGGAAACC
* * *
1085381 CATCAATACAAGGTTTGAAACTCCAAAATAAACGATAGAATTCAACCTTCT-ATTGGTTAACATG
131 CATCAATACAAGGTTTAAAACTCCAAAATAAACAATAGAATTCAACCTT-TGATGGGTTAACATG
* *
1085445 ACCGTTCTCAACATAATCATTGATTTGTAAGTCAACAATTATGCATGATATGTATTTTTTCACTG
195 ACCGTTCTCAACATAATCATTGATTTGTAAGTCAACAATTATGCATGACATGTATTTTTTAACTG
* *
1085510 CCTCTACCCATATAGGCAATATATCATATGACTTATCCTAATCACCAAAAATTTTGACGATTGCT
260 CCTCTACCCATATAGGCAATATATCATATGACTGATCCTAATCACCAAAAATTTTAACGATTGCT
*
1085575 TTTTGCTTTGCCTTCCAAGCTTTTTGGTATGACACTTTATAAGAAAATTA
325 TTTTGCTTTGCCTTCCAAGCTTTCTGGTATGACACTTTATAAGAAAATTA
1085625 ACT
1 ACT
1085628 TTGAATTCTT
Statistics
Matches: 349, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
374 348 1.00
375 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.34
Consensus pattern (374 bp):
ACTATAGAAAAAGCAAGTGGCAAAGGTTGTCTTTCTCCATCTCGAGTTGTTGCAATCAAAAGCTT
ATGTCGATATTTTCCATACAAATGAGTATCACCAATCTGCATAATCGGCTTGCAAAATGGAAACC
CATCAATACAAGGTTTAAAACTCCAAAATAAACAATAGAATTCAACCTTTGATGGGTTAACATGA
CCGTTCTCAACATAATCATTGATTTGTAAGTCAACAATTATGCATGACATGTATTTTTTAACTGC
CTCTACCCATATAGGCAATATATCATATGACTGATCCTAATCACCAAAAATTTTAACGATTGCTT
TTTGCTTTGCCTTCCAAGCTTTCTGGTATGACACTTTATAAGAAAATTA
Found at i:1088791 original size:90 final size:90
Alignment explanation
Indices: 1088638--1088817 Score: 324
Period size: 90 Copynumber: 2.0 Consensus size: 90
1088628 AAGATATCAA
* * *
1088638 GCATTGTACATATGGATCGTTAATTGCAAGCATTGGATACTTGAATGGTATAGAAGACAGAAGCT
1 GCATTGTACATATGGATCGTTAATTGCAAACATTGGATACTTGAATGGTAAAGAAAACAGAAGCT
1088703 ACTGTTGTATGCCAATCAAGGGATT
66 ACTGTTGTATGCCAATCAAGGGATT
*
1088728 GCATTGTATATATGGATCGTTAATTGCAAACATTGGATACTTGAATGGTAAAGAAAACAGAAGCT
1 GCATTGTACATATGGATCGTTAATTGCAAACATTGGATACTTGAATGGTAAAGAAAACAGAAGCT
1088793 ACTGTTGTATGCCAATCAAGGGATT
66 ACTGTTGTATGCCAATCAAGGGATT
1088818 ATTATTATTA
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 86 1.00
ACGTcount: A:0.34, C:0.13, G:0.23, T:0.30
Consensus pattern (90 bp):
GCATTGTACATATGGATCGTTAATTGCAAACATTGGATACTTGAATGGTAAAGAAAACAGAAGCT
ACTGTTGTATGCCAATCAAGGGATT
Found at i:1088823 original size:3 final size:3
Alignment explanation
Indices: 1088815--1088852 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
1088805 CAATCAAGGG
*
1088815 ATT ATT ATT ATT ATT ATT ATT CTT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1088853 AAGACTTGAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1092782 original size:18 final size:18
Alignment explanation
Indices: 1092759--1092794 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
1092749 TTTATAAAGT
1092759 TAAATTATTAATA-ATATA
1 TAAATTA-TAATACATATA
1092777 TAAATTATAATACATATA
1 TAAATTATAATACATATA
1092795 ATTTGATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAATTATAATACATATA
Found at i:1093992 original size:6 final size:6
Alignment explanation
Indices: 1093981--1094007 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1093971 TTAGATTGGC
1093981 AAGCCA AAGCCA AAGCCA AAGCCA AAG
1 AAGCCA AAGCCA AAGCCA AAGCCA AAG
1094008 TTCCTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.52, C:0.30, G:0.19, T:0.00
Consensus pattern (6 bp):
AAGCCA
Found at i:1096121 original size:13 final size:13
Alignment explanation
Indices: 1096103--1096128 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1096093 CAATTTTTTG
1096103 TGTATCGATACAT
1 TGTATCGATACAT
1096116 TGTATCGATACAT
1 TGTATCGATACAT
1096129 ATTTTGTGTA
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:1096139 original size:32 final size:33
Alignment explanation
Indices: 1096083--1096146 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1096073 TGCAAGCCAA
*
1096083 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1096116 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1096147 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1096140 original size:19 final size:19
Alignment explanation
Indices: 1096083--1096146 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1096073 TGCAAGCCAA
*
1096083 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1096103 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1096116 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1096135 TGTATCGATACA
1 TGTATCGATACA
1096147 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1096848 original size:39 final size:39
Alignment explanation
Indices: 1096773--1096853 Score: 103
Period size: 39 Copynumber: 2.1 Consensus size: 39
1096763 TTTTCTTTCT
1096773 CCCTTAACTAAAGTAATTTTAACAAATTCGTACATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAATTCG-ACATTCTCC
* *
1096813 CCCTTAA-TAAGGTAATTTTAGCAAATTTACG-CATTCTCC
1 CCCTTAACTAAAGTAATTTTAACAAA-TT-CGACATTCTCC
1096852 CC
1 CC
1096854 TTTTATAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
39 26 0.70
40 9 0.24
41 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.07, T:0.35
Consensus pattern (39 bp):
CCCTTAACTAAAGTAATTTTAACAAATTCGACATTCTCC
Found at i:1098263 original size:21 final size:20
Alignment explanation
Indices: 1098234--1098276 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
1098224 AGCTAGTATG
*
1098234 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
1098255 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
1098275 GG
1 GG
1098277 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:1104889 original size:13 final size:13
Alignment explanation
Indices: 1104871--1104896 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1104861 CAATTTTTTG
1104871 TGTATCGATACAT
1 TGTATCGATACAT
1104884 TGTATCGATACAT
1 TGTATCGATACAT
1104897 ATTTTGTGTA
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:1104907 original size:32 final size:33
Alignment explanation
Indices: 1104851--1104914 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 33
1104841 CTCGTGTGAA
*
1104851 TGTATCGATACAATTTTTTGTGTATCGATACAT
1 TGTATCGATACAATATTTTGTGTATCGATACAT
1104884 TGTATCGATAC-ATATTTTGTGTATCGATACA
1 TGTATCGATACAATATTTTGTGTATCGATACA
1104915 AGTTTGGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 19 0.63
33 11 0.37
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (33 bp):
TGTATCGATACAATATTTTGTGTATCGATACAT
Found at i:1104908 original size:19 final size:19
Alignment explanation
Indices: 1104851--1104914 Score: 68
Period size: 19 Copynumber: 3.6 Consensus size: 19
1104841 CTCGTGTGAA
*
1104851 TGTATCGATACAATTTTTTG
1 TGTATCGATAC-ATATTTTG
1104871 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1104884 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1104903 TGTATCGATACA
1 TGTATCGATACA
1104915 AGTTTGGCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.30
14 1 0.03
15 1 0.03
18 1 0.03
19 12 0.32
20 11 0.30
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.44
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1106610 original size:21 final size:21
Alignment explanation
Indices: 1106580--1106630 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1106570 ATAAAACTTT
1106580 GTGCCATTTGCTCTCCTTAAG
1 GTGCCATTTGCTCTCCTTAAG
*
1106601 GTGCCGTTTGCTCTCCTTAAG
1 GTGCCATTTGCTCTCCTTAAG
*
1106622 GAGCCATTT
1 GTGCCATTT
1106631 ACGATTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.37
Consensus pattern (21 bp):
GTGCCATTTGCTCTCCTTAAG
Found at i:1112297 original size:131 final size:128
Alignment explanation
Indices: 1112080--1112387 Score: 309
Period size: 131 Copynumber: 2.3 Consensus size: 128
1112070 GAGATAATAA
* * * *
1112080 CGGGATTGGAGTATCCCCTCGAAAATAATAGGGTTAGTAGTATCCCCGATTGCGAAAAATCGATG
1 CGGGATTGGAGTATCCCCT-GAAAATAAT-GGGTT-GGAGTATCCCCAATTACGAAAAATCAATG
* *
1112145 ATTTAGAAATAAAGCAAGGGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATGTTTCAAAAAATA
63 ATTTAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTATGAG-AAATCA-ATATTT-AAAAAATA
*
1112208 AAAT
125 AAAC
* *
1112212 CGGGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1 CGGGATTGGAGTATCCCC-TGAAAATAAT-GGGTTGGAGTATCCCCAATTACGAAAAATCAATGA
* * * * ***
1112276 TTTTAGAAATAAGGTC-GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAA
64 -TTTAGAAATAAAG-CAAGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTAAAAAATAAA
*
1112340 GC
127 AC
* *
1112342 CGGGGTTGGAGTATCCCCTTGGAAATAACTGGGTTGGAGTATCCCC
1 CGGGATTGGAGTATCCCC-TGAAAATAA-TGGGTTGGAGTATCCCC
1112388 GATGAAATAA
Statistics
Matches: 149, Mismatches: 21, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
130 49 0.33
131 63 0.42
132 36 0.24
133 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (128 bp):
CGGGATTGGAGTATCCCCTGAAAATAATGGGTTGGAGTATCCCCAATTACGAAAAATCAATGATT
TAGAAATAAAGCAAGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTAAAAAATAAAAC
Found at i:1112307 original size:51 final size:51
Alignment explanation
Indices: 1112241--1112359 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
1112231 TGAAAATAAT
* *
1112241 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGTC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
* ** * *
1112292 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
1112343 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1112360 TTGGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:1112381 original size:28 final size:28
Alignment explanation
Indices: 1112342--1112418 Score: 120
Period size: 28 Copynumber: 2.8 Consensus size: 28
1112332 GAAATAAAGC
*
1112342 CGGGGTTGGAGTATCCCC-TTGGAAATAA
1 CGGGGTTGGAGTATCCCCGAT-GAAATAA
*
1112370 CTGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1112398 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1112419 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
28 44 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1112464 original size:51 final size:51
Alignment explanation
Indices: 1112402--1112517 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
1112392 AAATAACGGG
*
1112402 GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGA
* * * * * * *
1112453 GTTGGAATATCCCTGATTGTGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGA
*
1112504 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
1112518 TTGAAAATAA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.31, C:0.11, G:0.26, T:0.32
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGTATTTTAGAAATAAAATCGGA
Found at i:1112505 original size:158 final size:158
Alignment explanation
Indices: 1112212--1112552 Score: 445
Period size: 158 Copynumber: 2.2 Consensus size: 158
1112202 AAAATAAAAT
* * *
1112212 CGGGATTGGAGTATCCCCG-TGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA
1 CGGGGTTGGAGTATCCCCGATG-AAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATA
** * * *
1112276 TTTTAGAAATAAGGTCGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAG
65 TTTTAGAAATAAAATCGGAGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAA
* *
1112341 CCGGGGTTGGAGTATCCCCTTGGAAATAA
130 CCGGGGTTAGAGTATCCCCTTGAAAATAA
* * * * *
1112370 CTGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTAT
1 CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
* *** *
1112435 TTTGGAAATAAAATCGGAGTTGGAA-TATCCCTGATTGTG-GAGAATTGGTGTTTTAGAAATAAA
66 TTTAGAAATAAAATCGGAGTT-GAAGTATCCCTGATTGTGAGA-AATCAATATTTTAGAAATAAA
*
1112498 ATCGGGGTTAGAGTATCCCCTTGAAAATAA
129 ACCGGGGTTAGAGTATCCCCTTGAAAATAA
1112528 CGGGGTTGGAGTATCCCCGATGAAA
1 CGGGGTTGGAGTATCCCCGATGAAA
1112553 AATTGATGTT
Statistics
Matches: 158, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
157 2 0.01
158 151 0.96
159 5 0.03
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.28
Consensus pattern (158 bp):
CGGGGTTGGAGTATCCCCGATGAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATAT
TTTAGAAATAAAATCGGAGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTAGAAATAAAAC
CGGGGTTAGAGTATCCCCTTGAAAATAA
Found at i:1112570 original size:76 final size:76
Alignment explanation
Indices: 1112477--1112640 Score: 258
Period size: 76 Copynumber: 2.2 Consensus size: 76
1112467 GATTGTGGAG
**
1112477 AATTGGTGTTTTAGAAATAAAATCGGGGTT-AGAGTATCCCCTTGAAAATAACGGGGTTGGAGTA
1 AATTGGTGTTTTAGAAATAAAATCGGGGTTGA-AGTATCCCCTCAAAAATAACGGGGTTGGAGTA
1112541 TCCCCGATGAAA
65 TCCCCGATGAAA
* * *
1112553 AATTGATGTTTTAGAAATAAAATCGGGGTTGAAGTGTCGCCTCAAAAATAACGGGGTTGGAGTAT
1 AATTGGTGTTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT
1112618 CCCCGATGAAA
66 CCCCGATGAAA
*
1112629 AATCGGTGTTTT
1 AATTGGTGTTTT
1112641 GTTACATAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 79 0.99
77 1 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (76 bp):
AATTGGTGTTTTAGAAATAAAATCGGGGTTGAAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT
CCCCGATGAAA
Found at i:1114374 original size:13 final size:13
Alignment explanation
Indices: 1114356--1114381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1114346 ACAAAGATTG
1114356 ATGTATCGATACA
1 ATGTATCGATACA
1114369 ATGTATCGATACA
1 ATGTATCGATACA
1114382 TTGAATAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1114378 original size:33 final size:33
Alignment explanation
Indices: 1114336--1114401 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1114326 AACTTCCTAG
* *
1114336 ATGTATCGATACAAAGATTGATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
**
1114369 ATGTATCGATACATTGAATAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCGATACA
1114402 TTTCTTGGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCGATACA
Found at i:1115207 original size:42 final size:42
Alignment explanation
Indices: 1115148--1115244 Score: 124
Period size: 42 Copynumber: 2.3 Consensus size: 42
1115138 CCTCATTTTT
* *
1115148 TGAGGACAAAGGAAAAAGGGAAACGAAA-TACGTCCTGCTCTC
1 TGAGGACAAAAGAAAAA-GGAAAAGAAAGTACGTCCTGCTCTC
* * * *
1115190 TGAGGACAAAAGAAAAAGGAAAATAAAGTGCGTCTTGCTCTT
1 TGAGGACAAAAGAAAAAGGAAAAGAAAGTACGTCCTGCTCTC
1115232 TGAGGACAAAAGA
1 TGAGGACAAAAGA
1115245 GGAAAGAAGG
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
41 8 0.17
42 40 0.83
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.16
Consensus pattern (42 bp):
TGAGGACAAAAGAAAAAGGAAAAGAAAGTACGTCCTGCTCTC
Found at i:1115414 original size:122 final size:115
Alignment explanation
Indices: 1115267--1115520 Score: 348
Period size: 122 Copynumber: 2.1 Consensus size: 115
1115257 AGGAAGTGTG
1115267 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGAGCTTTGAAAA-GAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGAGCTTT-AAAAGGAAAAGGCGTCC
*
1115331 TACCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCA
65 TACCCTTTGAGGA-TGGAAGGTACCACCAACTTGTGTGGGCTTT---AAAAG---GCA
* * * *
1115389 TCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGAGCTTTAAAAGGAAAAGGCGTCCT
* * * *
1115454 GCTCTTTGAGGATTGAAGGTACCACCAGCTTGTGTGGGCTTTAAAAGGCA
66 ACCCTTTGAGGATGGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGCA
1115504 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
1115521 AAAAAGGCGA
Statistics
Matches: 121, Mismatches: 10, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
115 19 0.16
118 5 0.04
121 31 0.26
122 66 0.55
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (115 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGAGCTTTAAAAGGAAAAGGCGTCCT
ACCCTTTGAGGATGGAAGGTACCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:1115501 original size:60 final size:61
Alignment explanation
Indices: 1115266--1115500 Score: 298
Period size: 61 Copynumber: 3.9 Consensus size: 61
1115256 AAGGAAGTGT
* * * *
1115266 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGAGCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
* * * * * *
1115327 GTCCTACCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAA-AGAAAGC
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAGGC
*
1115388 ATCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAA-GAGAAGGC
* * *
1115449 GTCCTGCTCTTTGAGGATTG-AAGGTACCACCAGCTTGTGTGGGCTTT-AAAAG
1 GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAG
1115501 GCATCCTGCT
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
59 5 0.03
60 28 0.18
61 115 0.76
62 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (61 bp):
GTCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAGGC
Found at i:1115662 original size:60 final size:56
Alignment explanation
Indices: 1115540--1115791 Score: 242
Period size: 55 Copynumber: 4.4 Consensus size: 56
1115530 AAAGGAGAGA
* * *
1115540 GCGTCTTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTTTATGGGCTTTAAAAGGAGAAG
1 GCGTCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTATGGGCTTT-----GAAAAG
* * * * *
1115601 GCGTCCTGCTCTTTGAGGA-TTGAAGGTGCCACTAGCTTATGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTT-----GAAAAG
* * * * * *
1115661 GCATCCTACTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT-AAAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTTGAAAAG
*
1115716 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTG-AAAG
1 GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTTGAAAAG
1115771 GCGTCCTGCTCTTTGAGGACT
1 GCGTCCTGCTCTTTGAGGACT
1115792 AAAGGGTGAA
Statistics
Matches: 165, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
55 73 0.44
59 3 0.02
60 48 0.29
61 41 0.25
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (56 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTTGAAAAG
Found at i:1115706 original size:215 final size:214
Alignment explanation
Indices: 1115335--1115735 Score: 574
Period size: 215 Copynumber: 1.9 Consensus size: 214
1115325 GCGTCCTACC
*
1115335 CTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGCTCTTT
1 CTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTT-CAAAAAGAAAGCATCCTGCTCTTT
* * * *
1115400 GAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTTTGAGG
65 GAGGATTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGG
* * *
1115465 ATTGAAGGTACCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCG
130 ATGGAAGGTACCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCG
1115530 AAAGGAGAGAGCGTCTTGCT
195 AAAGGAGAGAGCGTCTTGCT
* * *
1115550 CTTTGAGGACTAGGAA-GTGCCACCAACTTTTATGGGCTTT-AAAAGGAGAAGGCGTCCTGCTCT
1 CTTTGAGGACT-GGAAGGTGCCACCAACTTGTATGGGCTTTCAAAA--AGAAAGCATCCTGCTCT
* * *
1115613 TTGAGGATTG-AAGGTGCCACTAGCTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGA
63 TTGAGGATTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGA
* * * *
1115677 GGACTGGAGGGTGCTACCAACTCGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGAGGAC
128 GGA-TGGAAGGTACCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
1115736 TGAAAGGTGC
Statistics
Matches: 164, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
213 4 0.02
214 50 0.30
215 106 0.65
216 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (214 bp):
CTTTGAGGACTGGAAGGTGCCACCAACTTGTATGGGCTTTCAAAAAGAAAGCATCCTGCTCTTTG
AGGATTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTGAGGA
TGGAAGGTACCACCAACTCGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGA
AAGGAGAGAGCGTCTTGCT
Found at i:1115716 original size:61 final size:60
Alignment explanation
Indices: 1115548--1115771 Score: 208
Period size: 60 Copynumber: 3.8 Consensus size: 60
1115538 GAGCGTCTTG
* * * * * *
1115548 CTCTTTGAGGACTAGGAAGTGCCACCAACTTTTATGGGCTTTAAAAGGAGAAGGCGTCCTG
1 CTCTTTGAGGACT-GGAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTA
* * * *
1115609 CTCTTTGAGGATTGAAGGTGCCACTAGCTTATGTGGGCTTTAAAAGGAAAAGGCATCCTA
1 CTCTTTGAGGACTGGAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTA
* ** * *
1115669 CTCTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT------AAAAGGCGTCCTG
1 CTCTTTGAGGACTGGA-GGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTA
* * * *
1115724 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGG
1 CTCTTTGAGGACTG-GAGGTGCCACCAACTTATGTGGGCTTTAAAAGG
1115772 CGTCCTGCTC
Statistics
Matches: 132, Mismatches: 23, Indels: 16
0.77 0.13 0.09
Matches are distributed among these distances:
55 47 0.36
56 1 0.01
60 52 0.39
61 32 0.24
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (60 bp):
CTCTTTGAGGACTGGAGGTGCCACCAACTTATGTGGGCTTTAAAAGGAAAAGGCATCCTA
Found at i:1115842 original size:270 final size:270
Alignment explanation
Indices: 1115266--1115894 Score: 827
Period size: 270 Copynumber: 2.3 Consensus size: 270
1115256 AAGGAAGTGT
* * *
1115266 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGAGCTTTGAAAA-GAAAAGGCGTC
1 GTCCTGCTCTTTGAGGACT-AGAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAAAAGGCGTC
* * * *
1115330 CTACCCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAAAGAAAGCATCCTGC
64 CTACTCTTTGAGGA-TTGAAGGTGCCACCAACTTATGTGGGCTTT-CAAAAAGAAAGCATCCTAC
* *
1115395 TCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTCTT
127 TCTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTT--AA-GAGAAGGCGTCCTGCTCTT
* * *
1115460 TGAGGATTGAAGGTACCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAA
189 TGAGGACTGAAGGTACCACCAACTTGTATGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAA
1115525 AGGCGAAAGGAGAGAGC
254 AGGCGAAAGGAGAGAGC
* * * *
1115542 GTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTTTATGGGCTTTAAAAGGAGAAGGCGTCC
1 GTCCTGCTCTTTGAGGACTA-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
* * * *
1115607 TGCTCTTTGAGGATTGAAGGTGCCACTAGCTTATGTGGGCTTT-AAAAGGAAAAGGCATCCTACT
65 TACTCTTTGAGGATTGAAGGTGCCACCAACTTATGTGGGCTTTCAAAAAG-AAA-GCATCCTACT
* ** *
1115671 CTTTGAGGACTGGAGGGTGCTACCAACTCGTGTGGGCTTT-A-A-AAGGCGTCCTGCTCTTTGAG
128 CTTTGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAGAGAAGGCGTCCTGCTCTTTGAG
* * * * *
1115733 GACTGAAAGGTGCCACCAACTTGTATGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAAAGGG
193 GACTG-AAGGTACCACCAACTTGTATGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAAAGG
*
1115798 TGAAAGGAGAGAGC
257 CGAAAGGAGAGAGC
*
1115812 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCC
1 GTCCTGCTCTTTGAGGACTAGAA-GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCC
*
1115877 TACTCTTTGAGGACTGAA
65 TACTCTTTGAGGATTGAA
1115895 AAGTGGAAGG
Statistics
Matches: 310, Mismatches: 37, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
269 27 0.09
270 138 0.45
272 1 0.00
273 5 0.02
274 3 0.01
275 74 0.24
276 62 0.20
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (270 bp):
GTCCTGCTCTTTGAGGACTAGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCT
ACTCTTTGAGGATTGAAGGTGCCACCAACTTATGTGGGCTTTCAAAAAGAAAGCATCCTACTCTT
TGAGGACTGAAAAGTGCCACCAACTCGTGTGGGCTTTAAGAGAAGGCGTCCTGCTCTTTGAGGAC
TGAAGGTACCACCAACTTGTATGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACAAAAAGGCGAA
AGGAGAGAGC
Found at i:1116885 original size:12 final size:11
Alignment explanation
Indices: 1116868--1116935 Score: 64
Period size: 12 Copynumber: 5.7 Consensus size: 11
1116858 CTTTTCTCTA
*
1116868 TTTTTTCTTTG
1 TTTTTTTTTTG
1116879 TTTTTTTTTTTG
1 -TTTTTTTTTTG
1116891 TTTTTTGTTTTTG
1 -TTTTT-TTTTTG
*
1116904 TTGTTTTTTTTA
1 TT-TTTTTTTTG
*
1116916 TTTTTGTTTTCG
1 TTTTT-TTTTTG
1116928 TTTTTTTT
1 TTTTTTTT
1116936 AGAAGAGAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
11 6 0.12
12 34 0.69
13 9 0.18
ACGTcount: A:0.01, C:0.03, G:0.10, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1116894 original size:6 final size:6
Alignment explanation
Indices: 1116875--1116932 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
1116865 CTATTTTTTC
* *
1116875 TTTGTT TTTTTT TTTGTTT TTTGTT TTTGTT GTTT-TT TTTATT TTTGTT
1 TTTGTT TTTGTT TTTG-TT TTTGTT TTTGTT -TTTGTT TTTGTT TTTGTT
*
1116924 TTCGTT TTT
1 TTTGTT TTT
1116933 TTTAGAAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 3 0.07
6 32 0.73
7 9 0.20
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (6 bp):
TTTGTT
Found at i:1116895 original size:24 final size:23
Alignment explanation
Indices: 1116866--1116935 Score: 77
Period size: 24 Copynumber: 2.9 Consensus size: 23
1116856 TTCTTTTCTC
*
1116866 TATTTTTTCTTTGTTTTTTTTTT
1 TATTTTTTTTTTGTTTTTTTTTT
* *
1116889 TGTTTTTTGTTTTTGTTGTTTTTTT
1 T-ATTTTT-TTTTTGTTTTTTTTTT
*
1116914 TATTTTTGTTTTCGTTTTTTTT
1 TATTTTT-TTTTTGTTTTTTTT
1116936 AGAAGAGAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
23 1 0.03
24 23 0.59
25 15 0.38
ACGTcount: A:0.03, C:0.03, G:0.10, T:0.84
Consensus pattern (23 bp):
TATTTTTTTTTTGTTTTTTTTTT
Found at i:1116933 original size:31 final size:28
Alignment explanation
Indices: 1116876--1116932 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 28
1116866 TATTTTTTCT
1116876 TTGTTTTTTTTTTTGTTTTTTGTTTTTG
1 TTGTTTTTTTTTTTGTTTTTTGTTTTTG
1116904 TTGTTTTTTTTATTT-TTGTTTTCGTTTTT
1 TTGTTTTTTTT-TTTGTT-TTTT-GTTTTT
1116933 TTTAGAAGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
28 13 0.50
29 7 0.27
30 6 0.23
ACGTcount: A:0.02, C:0.02, G:0.12, T:0.84
Consensus pattern (28 bp):
TTGTTTTTTTTTTTGTTTTTTGTTTTTG
Found at i:1127250 original size:4 final size:4
Alignment explanation
Indices: 1127243--1127267 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1127233 TAAAACAAAC
1127243 AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT A
1127268 CCTTAAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:1129555 original size:51 final size:51
Alignment explanation
Indices: 1129489--1129607 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
1129479 TGAAAATAAT
* *
1129489 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGTC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
* ** * *
1129540 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
1129591 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
1129608 TTGGAAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:1129629 original size:28 final size:28
Alignment explanation
Indices: 1129590--1129661 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
1129580 GAAATAAAGC
1129590 CGGGGTTGGAGTATCCCCTTG-GAAATAA
1 CGGGGTTGGAGTATCCCC-TGAGAAATAA
*
1129618 CTGGGTTGGAGTAT-CCCTGATGAAATAA
1 CGGGGTTGGAGTATCCCCTGA-GAAATAA
1129646 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1129662 TCGATTGTGA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 2 0.05
27 3 0.08
28 33 0.85
29 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTGAGAAATAA
Found at i:1129718 original size:51 final size:51
Alignment explanation
Indices: 1129650--1129765 Score: 151
Period size: 51 Copynumber: 2.3 Consensus size: 51
1129640 AAATAACGGG
* * * *
1129650 GTTGGAGTATCCTCGATTGTGAAAAATTAGTGTTTTGGAAATAAAATTGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
* * * * *
1129701 GTTGGAATATCCCCGATTATGGAGAATTGGTGTTTTAGAAATAAAATCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
1129752 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
1129766 TCAAAAATAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.30, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTAGAAATAAAATCGGA
Found at i:1129816 original size:75 final size:76
Alignment explanation
Indices: 1129725--1129916 Score: 300
Period size: 76 Copynumber: 2.5 Consensus size: 76
1129715 GATTATGGAG
1129725 AATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAAC-GGGTTGGAGTAT
1 AATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT
1129789 CCCCGATGAAA
66 CCCCGATGAAA
* * *
1129800 AATTGATGTTTTAGAAATAAAA-CTGGGGTTGGAGTGTCCCCTCAGAAATAACGGGGTTGGAGTA
1 AATTGGTGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTA
1129864 TCCCCGATGAAA
65 TCCCCGATGAAA
* *
1129876 AATTGGTGTTTT-GAAAATAAAATCGGAGTTAGAGTATCCCC
1 AATTGGTGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCCC
1129917 GATTGCGGTA
Statistics
Matches: 106, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
74 1 0.01
75 48 0.45
76 56 0.53
77 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (76 bp):
AATTGGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCAAAAATAACGGGGTTGGAGTAT
CCCCGATGAAA
Found at i:1129995 original size:51 final size:49
Alignment explanation
Indices: 1129855--1129995 Score: 140
Period size: 51 Copynumber: 2.8 Consensus size: 49
1129845 AAATAACGGG
* * *
1129855 GTTGGAGTATCCCCGA-TGAAAAATTGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTGGAAATAAAATCAGA
* ** * * *
1129903 GTTAGAGTATCCCCGATTGCGGTAAATCGATGCTTTAGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATT--GAAAAATTGATGTTTTGGAAATAAAATCAGA
* *
1129954 GTTGGGGTATCCCCGATTAAGAAAAATTAATGTTTTGGAAAT
1 GTTGGAGTATCCCCGATT--GAAAAATTGATGTTTTGGAAAT
1129996 GGAAGGGATT
Statistics
Matches: 71, Mismatches: 19, Indels: 3
0.76 0.20 0.03
Matches are distributed among these distances:
48 15 0.21
49 1 0.01
51 55 0.77
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.30
Consensus pattern (49 bp):
GTTGGAGTATCCCCGATTGAAAAATTGATGTTTTGGAAATAAAATCAGA
Found at i:1132339 original size:20 final size:20
Alignment explanation
Indices: 1132314--1132367 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1132304 AAAATGCTTG
*
1132314 AATGTATCGATACAATG-AGC
1 AATGTATCGATACAATGCA-A
1132334 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGCAA
1132354 AATGTATCGATACA
1 AATGTATCGATACA
1132368 TCTGGGTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAATGCAA
Found at i:1132424 original size:13 final size:13
Alignment explanation
Indices: 1132406--1132431 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1132396 ACAAAGATTG
1132406 ATGTATCGATACA
1 ATGTATCGATACA
1132419 ATGTATCGATACA
1 ATGTATCGATACA
1132432 TTGAATAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Done.