Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3132588
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 15
Found at i:1939408 original size:39 final size:33
Alignment explanation
Indices: 1939327--1939404 Score: 129
Period size: 33 Copynumber: 2.4 Consensus size: 33
1939317 CTCAAGTTGT
*
1939327 AGATTTTGATTTCCTTTTGCTTGGCACCATATG
1 AGATTTTGATTTCCTTTTACTTGGCACCATATG
1939360 AGATTTTGATTTCCTTTTACTTGGCACCATATG
1 AGATTTTGATTTCCTTTTACTTGGCACCATATG
* *
1939393 AGCTTTGGATTT
1 AGATTTTGATTT
1939405 TGATGAGCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.19, C:0.17, G:0.18, T:0.46
Consensus pattern (33 bp):
AGATTTTGATTTCCTTTTACTTGGCACCATATG
Found at i:1939742 original size:18 final size:18
Alignment explanation
Indices: 1939719--1939755 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1939709 CGAAATTTAT
1939719 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1939737 ATTGAAATTGAAATTCAA
1 ATTGAAATTCAAACTCAA
1939755 A
1 A
1939756 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.08, T:0.30
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1940200 original size:25 final size:25
Alignment explanation
Indices: 1940144--1940192 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
1940134 TTATTTTTCT
* * *
1940144 AAATAATGTACCTATAATAATGTTC
1 AAATAATGTACCCACAACAATGTTC
1940169 AAATAATGTACCCACAACAATGTT
1 AAATAATGTACCCACAACAATGTT
1940193 TAATTAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.31
Consensus pattern (25 bp):
AAATAATGTACCCACAACAATGTTC
Found at i:1940277 original size:20 final size:20
Alignment explanation
Indices: 1940252--1940289 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
1940242 AAACCTGTTG
1940252 AAGGTAAATTCGCAACGCGA
1 AAGGTAAATTCGCAACGCGA
1940272 AAGGTAAATTCGCAACGC
1 AAGGTAAATTCGCAACGC
1940290 AAAATAAGCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.21, G:0.24, T:0.16
Consensus pattern (20 bp):
AAGGTAAATTCGCAACGCGA
Found at i:1941167 original size:24 final size:24
Alignment explanation
Indices: 1941133--1941186 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
1941123 CCATCACATC
1941133 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
1941157 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
1941181 ATCAAA
1 ATCAAA
1941187 TTTTGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:1942184 original size:20 final size:20
Alignment explanation
Indices: 1942159--1942221 Score: 108
Period size: 20 Copynumber: 3.1 Consensus size: 20
1942149 AGCGAAATTG
* *
1942159 GAAATTGGAATTTGCGTTAC
1 GAAATTGGAATTCGCGTTGC
1942179 GAAATTGGAATTCGCGTTGC
1 GAAATTGGAATTCGCGTTGC
1942199 GAAATTGGAATTCGCGTTGC
1 GAAATTGGAATTCGCGTTGC
1942219 GAA
1 GAA
1942222 TTTGTTGGTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.29, C:0.13, G:0.29, T:0.30
Consensus pattern (20 bp):
GAAATTGGAATTCGCGTTGC
Found at i:1944688 original size:41 final size:41
Alignment explanation
Indices: 1944643--1945010 Score: 504
Period size: 41 Copynumber: 9.0 Consensus size: 41
1944633 GGTTTATAGC
* * *
1944643 GGCGTTTTTAGAATAAACGCCGCTAAAGACT-GTACTTTAGT
1 GGCGTTTTTA-TACAAACGCCGCTATAGACTCGTACTTTAGT
* * *
1944684 GGCGTTTTTATACAAACGTCGTTATATACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
* * *
1944725 GGCGTTTTAATACAAAAGCCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
* * * * * * *
1944766 GGCATTTTTAATATAGACGACGCTATAGACTCATATTTTAAT
1 GGCGTTTTT-ATACAAACGCCGCTATAGACTCGTACTTTAGT
*
1944808 GGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
* *
1944849 GGCATTTTTATACAAACGCCGCTATAGACTCGTATTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
* *
1944890 GGCGTTTTTATACAAACGTCGCTATAGACTCATACTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
*
1944931 GGCGTTTTTATACAAACGCCGCTATAGACTCGTGCTTTAGT
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
*
1944972 GGCGTTTTTATACAAACGCCGCTATAGACTCATACTTTA
1 GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTA
1945011 CCGCTATAGA
Statistics
Matches: 283, Mismatches: 42, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
40 14 0.05
41 237 0.84
42 32 0.11
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (41 bp):
GGCGTTTTTATACAAACGCCGCTATAGACTCGTACTTTAGT
Found at i:1945046 original size:62 final size:61
Alignment explanation
Indices: 1944949--1945071 Score: 210
Period size: 62 Copynumber: 2.0 Consensus size: 61
1944939 TATACAAACG
*
1944949 CCGCTATAGACTCGTGCTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTCATACTTTA
1 CCGCTATAGACTCGTGCTTTAGTGACGTTTTTATACAAACGCCGCTATAGACT-ATACTTTA
* *
1945011 CCGCTATAGACTCGTGCTTTAGTGACGTTTTTATACAAACGTCGCTATAGACTATGCTTTA
1 CCGCTATAGACTCGTGCTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTATACTTTA
1945072 GTGGTGTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
61 7 0.12
62 51 0.88
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (61 bp):
CCGCTATAGACTCGTGCTTTAGTGACGTTTTTATACAAACGCCGCTATAGACTATACTTTA
Found at i:1945081 original size:40 final size:41
Alignment explanation
Indices: 1945010--1945104 Score: 138
Period size: 40 Copynumber: 2.3 Consensus size: 41
1945000 CTCATACTTT
*
1945010 ACCGCTATAGACTCGTGCTTTAGTGACGTTTTTATACAAAC
1 ACCGCTATAGACTCATGCTTTAGTGACGTTTTTATACAAAC
** **
1945051 GTCGCTATAGACT-ATGCTTTAGTGGTGTTTTTATACAAAC
1 ACCGCTATAGACTCATGCTTTAGTGACGTTTTTATACAAAC
1945091 ACCGCTATAGACTC
1 ACCGCTATAGACTC
1945105 GTTTTTTAGT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
40 35 0.76
41 11 0.24
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (41 bp):
ACCGCTATAGACTCATGCTTTAGTGACGTTTTTATACAAAC
Found at i:1947744 original size:36 final size:36
Alignment explanation
Indices: 1947697--1947772 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
1947687 CAAATTAATA
1947697 TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
1 TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
1947733 TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
1 TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
1947769 TTTA
1 TTTA
1947773 GTGCATTTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.20, C:0.05, G:0.16, T:0.59
Consensus pattern (36 bp):
TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
Found at i:1947782 original size:36 final size:36
Alignment explanation
Indices: 1947697--1947788 Score: 132
Period size: 36 Copynumber: 2.6 Consensus size: 36
1947687 CAAATTAATA
**
1947697 TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
1 TTTATGGCATTTGTACTATATGATTTAGTTCATTTG
**
1947733 TTTATGGTTTTTGTACTATATGATTTAGTTCATTTG
1 TTTATGGCATTTGTACTATATGATTTAGTTCATTTG
1947769 TTTA-GTGCATTTGTACTATA
1 TTTATG-GCATTTGTACTATA
1947789 CGTGTAGACC
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
35 1 0.02
36 52 0.98
ACGTcount: A:0.21, C:0.07, G:0.16, T:0.57
Consensus pattern (36 bp):
TTTATGGCATTTGTACTATATGATTTAGTTCATTTG
Found at i:1949874 original size:43 final size:43
Alignment explanation
Indices: 1949716--1949999 Score: 308
Period size: 43 Copynumber: 6.7 Consensus size: 43
1949706 TAATTACCGA
** **
1949716 CGTTTGTAT-CTAAAAACGCCGCTATAGATATGACCTTTTGAAG
1 CGTTTGTATAC-AAAAACGCCGCTATAGACCTGACCTTTTGCGG
* *
1949759 CATTTGTA-ACAAAAAAACGCCGCTATAGACCTGATCTTTTGCGG
1 CGTTTGTATAC--AAAAACGCCGCTATAGACCTGACCTTTTGCGG
* * * * *
1949803 CGGTTGTA-CCAAAAACGTCGCTATAGACCTGACCTTATGCGA
1 CGTTTGTATACAAAAACGCCGCTATAGACCTGACCTTTTGCGG
*
1949845 CGTTTGTATAAAAAAACGCCGCTATAGACCTGACCTTTTGCGG
1 CGTTTGTATACAAAAACGCCGCTATAGACCTGACCTTTTGCGG
* * *
1949888 CGTTTGTAT--AAAAACGTCGCTATAGACTTGACCTTTTACGG
1 CGTTTGTATACAAAAACGCCGCTATAGACCTGACCTTTTGCGG
* * * *
1949929 CATTTGTATACAAAAACGCCGCTATAGATCTGACATTTTGAGG
1 CGTTTGTATACAAAAACGCCGCTATAGACCTGACCTTTTGCGG
* * *
1949972 CGTTTGTATCCAAAAATGCCACTATAGA
1 CGTTTGTATACAAAAACGCCGCTATAGA
1950000 TCTTGACTTT
Statistics
Matches: 202, Mismatches: 34, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
41 37 0.18
42 35 0.17
43 96 0.48
44 34 0.17
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (43 bp):
CGTTTGTATACAAAAACGCCGCTATAGACCTGACCTTTTGCGG
Found at i:1949922 original size:84 final size:85
Alignment explanation
Indices: 1949716--1950012 Score: 339
Period size: 84 Copynumber: 3.5 Consensus size: 85
1949706 TAATTACCGA
* * *
1949716 CGTTTGTATCTAAAAACGCCGCTATAGA-TATGACCTTTTG-AAGCATTTGTAACAAAAAAACGC
1 CGTTTGTA-CTAAAAACGTCGCTATAGACT-TGACCTTTTGCGA-CATTTGT-ATAAAAAAACGC
*
1949779 CGCTATAGACCTGATCTTTTGCGG
62 CGCTATAGACCTGACCTTTTGCGG
* * * * *
1949803 CGGTTGTACCAAAAACGTCGCTATAGACCTGACCTTATGCGACGTTTGTATAAAAAAACGCCGCT
1 CGTTTGTACTAAAAACGTCGCTATAGACTTGACCTTTTGCGACATTTGTATAAAAAAACGCCGCT
1949868 ATAGACCTGACCTTTTGCGG
66 ATAGACCTGACCTTTTGCGG
* * *
1949888 CGTTTGTA-TAAAAACGTCGCTATAGACTTGACCTTTTACGGCATTTGTATACAAAAACGCCGCT
1 CGTTTGTACTAAAAACGTCGCTATAGACTTGACCTTTTGCGACATTTGTATAAAAAAACGCCGCT
* * *
1949952 ATAGATCTGACATTTTGAGG
66 ATAGACCTGACCTTTTGCGG
* * * * *
1949972 CGTTTGTATCCAAAAATGCCACTATAGATCTTGACTTTTTG
1 CGTTTGTA-CTAAAAACGTCGCTATAGA-CTTGACCTTTTG
1950013 TGGCATTTTT
Statistics
Matches: 179, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
84 74 0.41
85 41 0.23
86 46 0.26
87 18 0.10
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (85 bp):
CGTTTGTACTAAAAACGTCGCTATAGACTTGACCTTTTGCGACATTTGTATAAAAAAACGCCGCT
ATAGACCTGACCTTTTGCGG
Found at i:1950010 original size:127 final size:126
Alignment explanation
Indices: 1949714--1949999 Score: 302
Period size: 127 Copynumber: 2.2 Consensus size: 126
1949704 GGTAATTACC
** * ** ** * *
1949714 GACGTTTGTATCTAAAAACGCCGCTATAGATATGACCTTTTGAAGCATTTGTAACAAAAAAACGC
1 GACGTTTGTATAAAAAAACGCCACTATAGACCTGACCTTTTGCGGCGTTTGT---ATAAAAACGC
* * * * * * *
1949779 CGCTATAGACCTGATCTTTTGCGGCGGTTGTACCAAAAACGTCGCTATAGACCTGACCTTATGC
63 CGCTATAGACCTGACCTTTTACGGCAGTTGTAACAAAAACGCCGCTATAGACCTGACATTATGA
* *
1949843 GACGTTTGTATAAAAAAACGCCGCTATAGACCTGACCTTTTGCGGCGTTTGTATAAAAACGTCGC
1 GACGTTTGTATAAAAAAACGCCACTATAGACCTGACCTTTTGCGGCGTTTGTATAAAAACGCCGC
* * * *
1949908 TATAGACTTGACCTTTTACGGCATTTGTATACAAAAACGCCGCTATAGATCTGACATTTTGA
66 TATAGACCTGACCTTTTACGGCAGTTGTA-ACAAAAACGCCGCTATAGACCTGACATTATGA
* ** *
1949970 GGCGTTTGTATCCAAAAATGCCACTATAGA
1 GACGTTTGTATAAAAAAACGCCACTATAGA
1950000 TCTTGACTTT
Statistics
Matches: 131, Mismatches: 25, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
126 35 0.27
127 51 0.39
129 45 0.34
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (126 bp):
GACGTTTGTATAAAAAAACGCCACTATAGACCTGACCTTTTGCGGCGTTTGTATAAAAACGCCGC
TATAGACCTGACCTTTTACGGCAGTTGTAACAAAAACGCCGCTATAGACCTGACATTATGA
Found at i:1953722 original size:23 final size:22
Alignment explanation
Indices: 1953687--1953729 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
1953677 ATAATTATTT
1953687 AAAAAATTAAATAAAAAATACA
1 AAAAAATTAAATAAAAAATACA
*
1953709 AAAAATATTTAATAAAAAATA
1 AAAAA-ATTAAATAAAAAATA
1953730 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAATTAAATAAAAAATACA
Found at i:1956630 original size:44 final size:44
Alignment explanation
Indices: 1956570--1956657 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
1956560 TCTTTGAATA
*
1956570 ATGCATCTCAGAATTTACATTTACTGTTTGATGGATGGATTTGC
1 ATGCATCTCAGAATTTAAATTTACTGTTTGATGGATGGATTTGC
1956614 ATGCATCTCAGAATTTAAATTTACTGTTTGATGGATGGATTTGC
1 ATGCATCTCAGAATTTAAATTTACTGTTTGATGGATGGATTTGC
1956658 TCTAGCATGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.41
Consensus pattern (44 bp):
ATGCATCTCAGAATTTAAATTTACTGTTTGATGGATGGATTTGC
Found at i:1960272 original size:16 final size:16
Alignment explanation
Indices: 1960253--1960286 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1960243 CAATATACGA
1960253 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
1960269 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
1960285 AT
1 AT
1960287 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:1960360 original size:16 final size:18
Alignment explanation
Indices: 1960328--1960361 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
1960318 TATTAATGTA
1960328 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
1960346 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
1960362 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:1961034 original size:130 final size:130
Alignment explanation
Indices: 1960830--1961077 Score: 424
Period size: 130 Copynumber: 1.9 Consensus size: 130
1960820 AATTTTCTTC
* *
1960830 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
1960895 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
1960960 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
1961025 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
1961078 TATATAAATA
Statistics
Matches: 110, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
130 110 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.36
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:1961524 original size:35 final size:35
Alignment explanation
Indices: 1961474--1961549 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
1961464 AATTGAAGTT
* *
1961474 AATTGAATTATTTTGGAATTTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
1961509 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
1961544 AATTGA
1 AATTGA
1961550 GGACTGTTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 39 1.00
ACGTcount: A:0.37, C:0.01, G:0.22, T:0.39
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTTAGAATGA
Found at i:1966831 original size:3 final size:3
Alignment explanation
Indices: 1966818--1966854 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1966808 ACCCTCTATA
*
1966818 TAT TGT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1966855 TAGATCATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1968332 original size:18 final size:18
Alignment explanation
Indices: 1968309--1968343 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1968299 TCATTTTTGG
*
1968309 GACCAACGAAGGTAATTA
1 GACCAACAAAGGTAATTA
1968327 GACCAACAAAGGTAATT
1 GACCAACAAAGGTAATT
1968344 GGTTCCGTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (18 bp):
GACCAACAAAGGTAATTA
Found at i:1977193 original size:16 final size:17
Alignment explanation
Indices: 1977143--1977194 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
1977133 ATAAAAAGTA
1977143 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
1977160 GA-TT-AAA-TTAAGAGT
1 AATTTGAAAGTT-AGAGT
1977175 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
1977191 AATT
1 AATT
1977195 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 11 0.38
17 5 0.17
18 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:1977484 original size:2 final size:2
Alignment explanation
Indices: 1977477--1977507 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1977467 ATATCAATAC
1977477 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1977508 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:1978415 original size:226 final size:224
Alignment explanation
Indices: 1978022--1978463 Score: 794
Period size: 226 Copynumber: 2.0 Consensus size: 224
1978012 ATTATCTATC
* *
1978022 ATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGTTAAT
1 ATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAAT
**
1978087 ATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTG
66 ATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTG
1978152 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
131 TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
1978217 ATAAATTACATAACTTTCAAAAAAGTATAT
196 ATAAATTACATAACTTT-AAAAAAGTATAT
*
1978247 ATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGGTTAA
1 ATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAGTTAA
*
1978312 TATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGT
65 TATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGT
* *
1978377 GTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAATTGAAA
130 GTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAA
1978442 CATAAATTACATAACTTTAAAA
195 CATAAATTACATAACTTTAAAA
1978464 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
225 37 0.18
226 171 0.82
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (224 bp):
ATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGTTAAT
ATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTTTGTG
TAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTGAAAC
ATAAATTACATAACTTTAAAAAAGTATAT
Found at i:1978553 original size:20 final size:19
Alignment explanation
Indices: 1978530--1978575 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
1978520 CGATATACCA
1978530 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
1978550 GGTAACAAAATGATAAAACC
1 GGTAA-AAAATGATAAAACC
1978570 GGTAAA
1 GGTAAA
1978576 TTTAAAAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.54, C:0.11, G:0.17, T:0.17
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:1978745 original size:17 final size:19
Alignment explanation
Indices: 1978706--1978748 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1978696 ATGTAAAAAT
1978706 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1978726 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1978743 ATGATA
1 ATGATA
1978749 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1980998 original size:21 final size:21
Alignment explanation
Indices: 1980951--1981015 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
1980941 AAGACAATCA
* *
1980951 AGAGTCGAAGAGAAACTTGATC
1 AGAGTCGAAGAGAAACTCGA-G
*
1980973 A-AGTCGTAGAGAAACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
* *
1980993 AGAGTCGAAGATACACTCGAG
1 AGAGTCGAAGAGAAACTCGAG
1981014 AG
1 AG
1981016 GCATAAGGGG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.40, C:0.15, G:0.29, T:0.15
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTCGAG
Found at i:1981091 original size:33 final size:33
Alignment explanation
Indices: 1981049--1981114 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1981039 AAATAGATGG
*
1981049 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1981082 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1981115 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1982927 original size:19 final size:19
Alignment explanation
Indices: 1982903--1982951 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1982893 AATGTAGGGT
1982903 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1982922 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1982941 TATTTTTGTAT
1 TAATTTTGTAT
1982952 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1983413 original size:199 final size:199
Alignment explanation
Indices: 1983070--1984251 Score: 1965
Period size: 197 Copynumber: 5.9 Consensus size: 199
1983060 CAATATGGCC
* *
1983070 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAAGTGTCAATCCCAAAAACATCGAAA
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCG-AA
*
1983135 ACCAAAAG--TAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
64 CCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAG
*
1983198 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAAAATGA
129 AGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGA
1983263 ATGGAA
194 ATGGAA
*
1983269 AATAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
* **
1983334 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTTTACCGGTTTTATGATTG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
1983399 AATATGTATAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1983463 GGAA
196 GGAA
1983467 AACAGGGTGCACCCAT-AAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
*
1983531 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACTGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
*
1983596 AATATGTCTAAATAATGTGTCAACACTAATATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1983660 GGAA
196 GGAA
1983664 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCATATATAAAAAGTGT
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCC---------------
1983729 CGATCCCAAAATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACA
51 C-A----A-AATCATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACA
1983794 ATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGA
110 ATTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGA
*
1983859 TATTTTTTTTCCAGAATGAATAGAA
175 TATTTTTTTTCCAGAATGAATGGAA
1983884 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1983949 C-AAAGTATAATGT-ATATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1984011 AATATGTCT--A-AATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CAGAATGAAT
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
1984072 GGAA
196 GGAA
1984076 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1 AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
1984141 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
66 CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
1984206 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
131 AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATA
1984252 CTAATTTAAA
Statistics
Matches: 932, Mismatches: 20, Indels: 63
0.92 0.02 0.06
Matches are distributed among these distances:
192 79 0.08
193 53 0.06
194 24 0.03
195 35 0.04
196 35 0.04
197 224 0.24
198 138 0.15
199 146 0.16
200 1 0.00
204 1 0.00
205 1 0.00
213 1 0.00
214 1 0.00
218 1 0.00
219 121 0.13
220 71 0.08
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.32
Consensus pattern (199 bp):
AACAGGGTGCACCCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACC
CAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAG
AATATGTCTAAATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAAT
GGAA
Found at i:1983705 original size:21 final size:21
Alignment explanation
Indices: 1983680--1983734 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
1983670 GTGCACCCAT
1983680 AAAGTGTCGATCCATATATAA
1 AAAGTGTCGATCCATATATAA
1983701 AAAGTGTCGATCCATATATAA
1 AAAGTGTCGATCCATATATAA
1983722 AAAGTGTCGATCC
1 AAAGTGTCGATCC
1983735 CAAAATCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
AAAGTGTCGATCCATATATAA
Found at i:1984097 original size:192 final size:198
Alignment explanation
Indices: 1983701--1984251 Score: 1033
Period size: 192 Copynumber: 2.8 Consensus size: 198
1983691 CCATATATAA
1983701 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
1 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
1983766 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
66 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT-AATAAT
1983831 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATAGAAAACAGGGTGCAC
130 GTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATAGAAAACAGGGTGCAC
1983896 CCAT
195 CCAT
1983900 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATAATGT-A
1 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
1983963 TATGTAATTTTTCAATCTAACC-GTACAATTATACCGGTTTTATGAGAGAATATGTCT-A-AATG
66 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAATAATG
*
1984025 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTT-CAGAATGAATGGAAAACAGGGTGCACC
131 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATAGAAAACAGGGTGCACC
1984089 CAT
196 CAT
1984092 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
1 AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
1984157 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAATAAT
66 TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCT-AATAAT
1984222 GTGTCGACACTAATATAGTTTGTGTCGATA
130 GTGTCGACACTAATATAGTTTGTGTCGATA
1984252 CTAATTTAAA
Statistics
Matches: 345, Mismatches: 1, Indels: 13
0.96 0.00 0.04
Matches are distributed among these distances:
192 79 0.23
193 53 0.15
194 24 0.07
195 35 0.10
196 35 0.10
197 24 0.07
198 45 0.13
199 50 0.14
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.32
Consensus pattern (198 bp):
AAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTAA
TATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAATAATG
TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATAGAAAACAGGGTGCACC
CAT
Found at i:1985715 original size:3 final size:3
Alignment explanation
Indices: 1985707--1985778 Score: 81
Period size: 3 Copynumber: 24.0 Consensus size: 3
1985697 TGAAGCTGAC
* * * * * *
1985707 GAT GAT GAT GAC GAT GAA GCT GAC GAT GAA GAT GAT GAC GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
1985755 GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
1985779 CCAAACAAGT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:1987126 original size:151 final size:151
Alignment explanation
Indices: 1986950--1987255 Score: 539
Period size: 151 Copynumber: 2.0 Consensus size: 151
1986940 ATTTTTTTAC
1986950 GTTACGGGATATATTATTATTAAATTAAAAATTCTTAATATTA-TTTATAAAATATCAAAACAAT
1 GTTACGGGATATATTATTATTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAAT
*
1987014 CAACTAATTTTTTGTGCAAATGAAATTATTAAATT-ATATTGTAGG-GGGAAAACATGAAACATA
66 CAACTAA-TTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAACATGAAACATA
1987077 CTTAAAAAAATATTGAAACATAAA
130 CTT--AAAAATATTGAAACATAAA
*
1987101 GTTACGGTATATATTATTATTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAAT
1 GTTACGGGATATATTATTATTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAAT
1987166 CAACTAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAACATGAAACATAC
66 CAACTAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAACATGAAACATAC
1987231 TTAAAAATATTGAAACATAAA
131 TTAAAAATATTGAAACATAAA
1987252 -TTAC
1 GTTAC
1987256 ATATCTTTAA
Statistics
Matches: 150, Mismatches: 2, Indels: 7
0.94 0.01 0.04
Matches are distributed among these distances:
150 4 0.03
151 88 0.59
152 38 0.25
153 20 0.13
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (151 bp):
GTTACGGGATATATTATTATTAAATTAAAAATTCTTAATATTATTTTATAAAATATCAAAACAAT
CAACTAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAAACATGAAACATAC
TTAAAAATATTGAAACATAAA
Found at i:1987696 original size:183 final size:183
Alignment explanation
Indices: 1987312--1987830 Score: 899
Period size: 183 Copynumber: 2.9 Consensus size: 183
1987302 CTTTCAACAT
** * * *
1987312 ATTATAATAAAATAGGTAAATTTGCAATATAACCGGTAT-AA-ATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1987375 GGTCTACAACCTATATCGACACTTTTTAATA-T-TGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
1987438 AA--TGTCGATACGA-TTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
*
1987488 ATTATAATGTAATAGATATTTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1987553 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
1987618 AATGTGTCGATACGATTTAAAAAAGTGTCGACTTTTACACATCGGAACCCATA
131 AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
1987671 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
* *
1987736 GGTCTACAACCTATATCGACACTTTATAATATTGTGTCGGTACTTTATGTCCAGATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
*
1987801 AATGTGTCGATACCATTTAAAAAAGTGTCG
131 AATGTGTCGATACGATTTAAAAAAGTGTCG
1987831 GTAATTTTAA
Statistics
Matches: 325, Mismatches: 11, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
176 33 0.10
177 2 0.01
178 53 0.16
179 1 0.00
180 33 0.10
182 11 0.03
183 192 0.59
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
AATGTGTCGATACGATTTAAAAAAGTGTCGACATTTACACATCGGAACCCATA
Found at i:1990317 original size:25 final size:25
Alignment explanation
Indices: 1990283--1990342 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
1990273 TTATCATTAA
1990283 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1990308 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
1990333 ATTTAGGTAT
1 ATTTAGGTAT
1990343 ACATCTTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1990667 original size:21 final size:22
Alignment explanation
Indices: 1990621--1990667 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
1990611 AAATTACATA
1990621 ACTTTTAAAAAAAGTATCGATC
1 ACTTTTAAAAAAAGTATCGATC
* * *
1990643 -CTTTTTATAAAAGTATGGA-C
1 ACTTTTAAAAAAAGTATCGATC
1990663 ACTTT
1 ACTTT
1990668 CAATATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
20 1 0.05
21 20 0.95
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (22 bp):
ACTTTTAAAAAAAGTATCGATC
Found at i:1990729 original size:20 final size:23
Alignment explanation
Indices: 1990685--1990745 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 23
1990675 ATAGGTAAAC
*
1990685 ATATGATGTAATAGGTAGCC-CT
1 ATATAATGTAATAGGTAGCCTCT
* * *
1990707 -TATAA-GTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCTCT
1990728 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1990746 TGGTTATATT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.35
21 5 0.16
22 5 0.16
23 10 0.32
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCTCT
Found at i:1990752 original size:23 final size:22
Alignment explanation
Indices: 1990707--1990754 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
1990697 AGGTAGCCCT
*
1990707 TATAAGTAATAGGTATCGTTTA
1 TATAAGTAATAGGTATCGGTTA
1990729 TATAATGTAATAGGTAGT-GGTTA
1 TATAA-GTAATAGGTA-TCGGTTA
1990752 TAT
1 TAT
1990755 TGTAAAGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 5 0.22
23 17 0.74
24 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.42
Consensus pattern (22 bp):
TATAAGTAATAGGTATCGGTTA
Found at i:1991055 original size:25 final size:25
Alignment explanation
Indices: 1991021--1991071 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1991011 ACAACAAATC
*
1991021 AATTAAACATTGTTGTGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
*
1991046 AATTGAACATTGTTATGGGTACATT
1 AATTAAACATTGTTATGGGTACATT
1991071 A
1 A
1991072 TTTGGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.20, T:0.39
Consensus pattern (25 bp):
AATTAAACATTGTTATGGGTACATT
Found at i:1991475 original size:18 final size:18
Alignment explanation
Indices: 1991454--1991490 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1991444 GTAATTGGAG
1991454 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
1991472 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
1991490 T
1 T
1991491 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:1991498 original size:24 final size:24
Alignment explanation
Indices: 1991446--1991492 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
1991436 TTTCATATGT
* *
1991446 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
1991470 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
1991493 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:1991790 original size:39 final size:39
Alignment explanation
Indices: 1991747--1991830 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
1991737 TCCGATGCTC
*
1991747 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
*
1991786 ATCAAAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
1991825 ATCAAA
1 ATCAAA
1991831 TCTACAACTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGATGCCAAGCAAAAGGAA
Found at i:1992258 original size:23 final size:23
Alignment explanation
Indices: 1992232--1992304 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1992222 ATAGATAAAC
*
1992232 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1992255 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1992278 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1992301 ATAT
1 ATAT
1992305 TGTAAGTGTC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1998486 original size:36 final size:36
Alignment explanation
Indices: 1998445--1998547 Score: 179
Period size: 36 Copynumber: 2.9 Consensus size: 36
1998435 AGTTGAGTAT
1998445 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
*
1998481 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCC
1 TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
* *
1998517 TATCAGTTTTGGTACATTTGTGTATCAATGT
1 TATCAGCTTTGGTACATTCGTGTATCAATGT
1998548 CCAGCACTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 64 1.00
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.44
Consensus pattern (36 bp):
TATCAGCTTTGGTACATTCGTGTATCAATGTTATCA
Found at i:2007424 original size:30 final size:30
Alignment explanation
Indices: 2007388--2007461 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
2007378 AGAGAACCGG
* *
2007388 CGGTTCACATCGGTTTTACCGGTTTTCAGC
1 CGGTTCACACCGGTTTTACCGGTTCTCAGC
*
2007418 CGGTTCACCCCGGTTTTACCGGTTCTCAGC
1 CGGTTCACACCGGTTTTACCGGTTCTCAGC
* *
2007448 TGGTTC-TACCGGTT
1 CGGTTCACACCGGTT
2007462 CTGTGCTCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 6 0.16
30 32 0.84
ACGTcount: A:0.11, C:0.30, G:0.24, T:0.35
Consensus pattern (30 bp):
CGGTTCACACCGGTTTTACCGGTTCTCAGC
Found at i:2008553 original size:42 final size:42
Alignment explanation
Indices: 2008506--2008590 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
2008496 GTATTATATA
2008506 TATTTATAGAATAATAAATTTTATATTATTTATATTTAAAAT
1 TATTTATAGAATAATAAATTTTATATTATTTATATTTAAAAT
2008548 TATTTATAGAATAATAAATTTTATATTATTTATATTTAAAAT
1 TATTTATAGAATAATAAATTTTATATTATTTATATTTAAAAT
2008590 T
1 T
2008591 TACAAAGAGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (42 bp):
TATTTATAGAATAATAAATTTTATATTATTTATATTTAAAAT
Found at i:2013057 original size:26 final size:26
Alignment explanation
Indices: 2013021--2013097 Score: 136
Period size: 26 Copynumber: 3.0 Consensus size: 26
2013011 GATATGTATA
2013021 CCCCTACATGCTGCCCTGGGCCGTCG
1 CCCCTACATGCTGCCCTGGGCCGTCG
*
2013047 CCCCTACATGCTGCCCTAGGCCGTCG
1 CCCCTACATGCTGCCCTGGGCCGTCG
*
2013073 CCCCTACATGCTGCCCTGAGCCGTC
1 CCCCTACATGCTGCCCTGGGCCGTC
2013098 ACCCATCTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.10, C:0.47, G:0.23, T:0.19
Consensus pattern (26 bp):
CCCCTACATGCTGCCCTGGGCCGTCG
Found at i:2037293 original size:2 final size:2
Alignment explanation
Indices: 2037286--2037310 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
2037276 ATAACAAGAT
2037286 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2037311 TGGGTCAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2056671 original size:227 final size:226
Alignment explanation
Indices: 2056242--2056688 Score: 747
Period size: 227 Copynumber: 2.0 Consensus size: 226
2056232 GTAAATTATC
* * *
2056242 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
* **
2056307 TAATATTGTTAAATAATAAGTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATAATAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-TAAT
2056372 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTG
130 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTG
2056437 AAACATAAATTACATAACTTTCAAAAAAGTATA
195 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
2056470 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
2056535 TTAATATTGTTAAAT-TTAAATGCTAAATAATATTTTATAAAATATCAAAACAATCAAATAA-AA
65 TTAATATTGTTAAATAATAAAT-CTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAA
*
2056598 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAATAAA-T
129 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA-AAATT
2056662 TGAAACATAAATTACATAACTTTAAAA
193 TGAAACATAAATTACATAACTTTAAAA
2056689 GCAGTTTTAA
Statistics
Matches: 207, Mismatches: 9, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
226 4 0.02
227 82 0.40
228 43 0.21
229 78 0.38
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (226 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATAATAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATAATT
GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAATTTGA
AACATAAATTACATAACTTTAAAAAAGTATA
Found at i:2056942 original size:20 final size:19
Alignment explanation
Indices: 2056919--2056965 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
2056909 CGATATAACA
*
2056919 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAAAC
*
2056939 GGTATCAAAATGATAAAAAC
1 GGTA-AAAAATGATAAAAAC
2056959 GGTAAAA
1 GGTAAAA
2056966 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.09, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAAAC
Found at i:2059301 original size:33 final size:33
Alignment explanation
Indices: 2059259--2059324 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2059249 AAATAGATGG
*
2059259 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
2059292 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
2059325 TATTAAGATG
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:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:2060737 original size:23 final size:23
Alignment explanation
Indices: 2060706--2060768 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2060696 ATAGGTAAAC
*
2060706 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2060729 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2060752 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2060769 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2060776 original size:23 final size:23
Alignment explanation
Indices: 2060706--2060778 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2060696 ATAGGTAAAC
* * **
2060706 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2060729 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2060752 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2060775 ATAT
1 ATAT
2060779 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2061168 original size:23 final size:23
Alignment explanation
Indices: 2061137--2061199 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2061127 ATAGGTAAAC
*
2061137 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2061160 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2061183 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2061200 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2061207 original size:23 final size:23
Alignment explanation
Indices: 2061137--2061209 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2061127 ATAGGTAAAC
* * **
2061137 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2061160 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2061183 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2061206 ATAT
1 ATAT
2061210 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2061460 original size:430 final size:431
Alignment explanation
Indices: 2060607--2062490 Score: 3745
Period size: 430 Copynumber: 4.4 Consensus size: 431
2060597 AATTCGCAGT
2060607 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2060672 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2060737 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2060802 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2060867 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2060932 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
2060997 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2061038 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2061103 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2061168 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2061233 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2061297 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2061362 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
2061427 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2061468 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2061533 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2061598 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2061663 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2061727 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2061792 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
2061857 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2061898 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2061963 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2062028 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2062093 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2062158 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
*
2062223 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATATTTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
2062288 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
2062329 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2062394 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2062459 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
2062491 TCTATCTCGC
Statistics
Matches: 1451, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
430 860 0.59
431 591 0.41
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (431 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:2061598 original size:23 final size:23
Alignment explanation
Indices: 2061567--2061629 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2061557 ATAGGTAAAC
*
2061567 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2061590 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2061613 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2061630 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2061637 original size:23 final size:23
Alignment explanation
Indices: 2061567--2061639 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2061557 ATAGGTAAAC
* * **
2061567 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2061590 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2061613 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2061636 ATAT
1 ATAT
2061640 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2062028 original size:23 final size:23
Alignment explanation
Indices: 2061997--2062059 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2061987 ATAGGTAAAC
*
2061997 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2062020 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2062043 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
2062060 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2062067 original size:23 final size:23
Alignment explanation
Indices: 2061997--2062069 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2061987 ATAGGTAAAC
* * **
2061997 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
2062020 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
2062043 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
2062066 ATAT
1 ATAT
2062070 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:2062268 original size:861 final size:861
Alignment explanation
Indices: 2060607--2062490 Score: 3743
Period size: 861 Copynumber: 2.2 Consensus size: 861
2060597 AATTCGCAGT
2060607 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2060672 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2060737 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2060802 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2060867 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2060932 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
2060997 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
2061062 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
456 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
2061127 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
521 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
2061192 AATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTG
586 AATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTG
2061257 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
651 TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
2061322 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
716 CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
2061387 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
781 TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
2061452 AGGTGGAAAACATGAA
846 AGGTGGAAAACATGAA
2061468 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2061533 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2061598 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2061663 AAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
196 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
2061727 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
261 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
2061792 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
326 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
2061857 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
391 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
2061922 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
456 AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
2061987 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
521 ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
2062052 AATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACT
586 AATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACT
2062117 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
650 GTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAG
2062182 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
715 GCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAAT
*
2062247 ATTTTATAAAATATAAAAACAATCAAATATTTTTTTGTGCAAATGAAATTATTAAATCAATATTG
780 ATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTG
2062312 TAGGTGGAAAACATGAA
845 TAGGTGGAAAACATGAA
2062329 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2062394 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2062459 TAATAGGTATCGTTTATATAATGTAATAGGTA
131 TAATAGGTATCGTTTATATAATGTAATAGGTA
2062491 TCTATCTCGC
Statistics
Matches: 1021, Mismatches: 1, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
860 430 0.42
861 591 0.58
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (861 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCA
AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACAT
AAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATA
ATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGT
AATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTG
TGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGG
CGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTATTAAATTAAAAATTCTAAATAATA
TTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGT
AGGTGGAAAACATGAA
Found at i:2062491 original size:23 final size:23
Alignment explanation
Indices: 2062428--2062492 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2062418 ATAGGTAAAC
* *
2062428 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCCCTT
**
2062451 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCCCTT
2062474 ATATAATGTAATAGGTATC
1 ATATAATGTAATAGGTATC
2062493 TATCTCGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCCCTT
Found at i:2062717 original size:18 final size:18
Alignment explanation
Indices: 2062696--2062732 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
2062686 GTAATTGGAG
2062696 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
2062714 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
2062732 T
1 T
2062733 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:2062740 original size:24 final size:24
Alignment explanation
Indices: 2062688--2062734 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
2062678 TTTCATATGT
* *
2062688 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
2062712 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
2062735 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:2064829 original size:14 final size:14
Alignment explanation
Indices: 2064810--2064837 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2064800 TGTTCGTGAA
2064810 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2064824 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
2064838 TGTTTATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.07, C:0.14, G:0.29, T:0.50
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:2064844 original size:24 final size:24
Alignment explanation
Indices: 2064817--2064862 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
2064807 GAACGTTCGG
* *
2064817 TTATGTTCGTTCGGTTATGTTTGT
1 TTATGTTCATTCAGTTATGTTTGT
*
2064841 TTATGTTCATTCATTTATGTTT
1 TTATGTTCATTCAGTTATGTTT
2064863 AACCCAATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.13, C:0.09, G:0.17, T:0.61
Consensus pattern (24 bp):
TTATGTTCATTCAGTTATGTTTGT
Found at i:2080268 original size:12 final size:12
Alignment explanation
Indices: 2080251--2080276 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2080241 TTATTACGTT
2080251 TATAATTTTAAA
1 TATAATTTTAAA
2080263 TATAATTTTAAA
1 TATAATTTTAAA
2080275 TA
1 TA
2080277 AAATACGAAT
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TATAATTTTAAA
Found at i:2080761 original size:43 final size:41
Alignment explanation
Indices: 2080672--2080782 Score: 129
Period size: 43 Copynumber: 2.6 Consensus size: 41
2080662 TAAATCTAAA
2080672 TAATAATTATTAATTTATTAATAAAAAATAAAAAATAATAAGT
1 TAATAATTATT-ATTT-TTAATAAAAAATAAAAAATAATAAGT
* *
2080715 TAATTAATTTATTATTTTTAATAAATAATAAAAAATTATTAA-T
1 TAA-TAA-TTATTATTTTTAATAAAAAATAAAAAA-TAATAAGT
2080758 TAATAA-TATTA-TTTTAATACAAAAA
1 TAATAATTATTATTTTTAATA-AAAAA
2080783 AACTCAACCC
Statistics
Matches: 61, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
39 8 0.13
40 9 0.15
42 3 0.05
43 24 0.39
44 12 0.20
45 5 0.08
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (41 bp):
TAATAATTATTATTTTTAATAAAAAATAAAAAATAATAAGT
Found at i:2084052 original size:24 final size:24
Alignment explanation
Indices: 2084020--2084072 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
2084010 GGCGGTGACT
*
2084020 TTTGTTAGCTGCTGAAGCTTGTTG
1 TTTGCTAGCTGCTGAAGCTTGTTG
*
2084044 TTTGCTAGCTGCTGAATCTTGTTG
1 TTTGCTAGCTGCTGAAGCTTGTTG
*
2084068 GTTGC
1 TTTGC
2084073 GCTGGGCAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.11, C:0.15, G:0.28, T:0.45
Consensus pattern (24 bp):
TTTGCTAGCTGCTGAAGCTTGTTG
Found at i:2087606 original size:19 final size:19
Alignment explanation
Indices: 2087579--2087631 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
2087569 AAAATGTTTA
*
2087579 AAAGCATCGATACTTATAT
1 AAAGTATCGATACTTATAT
* * *
2087598 AAAGTATCGAAACTTTTGT
1 AAAGTATCGATACTTATAT
*
2087617 AGGAGTATCGATACT
1 A-AAGTATCGATACT
2087632 CTTAGGGTAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 16 0.59
20 11 0.41
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (19 bp):
AAAGTATCGATACTTATAT
Found at i:2098581 original size:15 final size:16
Alignment explanation
Indices: 2098552--2098583 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
2098542 TTAGTTGATA
2098552 AATAGATAGGATATCG
1 AATAGATAGGATATCG
2098568 AATAGATA-GATATCG
1 AATAGATAGGATATCG
2098583 A
1 A
2098584 TTGTTATACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.47, C:0.06, G:0.22, T:0.25
Consensus pattern (16 bp):
AATAGATAGGATATCG
Found at i:2101224 original size:194 final size:195
Alignment explanation
Indices: 2100895--2101283 Score: 744
Period size: 194 Copynumber: 2.0 Consensus size: 195
2100885 TCATGGCGAA
2100895 TGGGATGCATCTTACAACGAACTTCCAGGTTGGTTTAGGCTGGTGCGGACGTTGAATCCTGGGAT
1 TGGGATGCATCTTACAACGAACTTCCAGGTTGGTTTAGGCTGGTGCGGACGTTGAATCCTGGGAT
*
2100960 AATTGTGGACTTCAAAACCTCATATGCATACCATAATGATCGAGTTCTTCGCGATCGTTGCCAAT
66 AATTGTGGACTTCAAAACCTCATATGCATACCATAATGATCGAGTTCTTCGCGATCGATGCCAAT
*
2101025 TCTACTGAGTTTTTTGGAGTTACCCACAGTGCGTTAATGCTGCCAAATA-TGCAAGCCTGTGGTC
131 TCTACTGAGTTTTTTAGAGTTACCCACAGTGCGTTAATGCTGCCAAATACTGCAAGCCTGTGGTC
2101089 TGGGATGCATCTTACAACGAACTTCCAGGTTGGTTTAGGCTGGTGCGGACGTTGAATCCTGGGAT
1 TGGGATGCATCTTACAACGAACTTCCAGGTTGGTTTAGGCTGGTGCGGACGTTGAATCCTGGGAT
*
2101154 AATTGTGGACTTCAAAACCTCCTATGCATACCATAATGATCGAGTTCTTCGCGATCGATGCCAAT
66 AATTGTGGACTTCAAAACCTCATATGCATACCATAATGATCGAGTTCTTCGCGATCGATGCCAAT
2101219 TCTACTGAGTTTTTTAGAGTTACCCACAGTGCGTTAATGCTGCCAAATACTGCAAGCCTGTGGTC
131 TCTACTGAGTTTTTTAGAGTTACCCACAGTGCGTTAATGCTGCCAAATACTGCAAGCCTGTGGTC
2101284 CAGATCGACG
Statistics
Matches: 191, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
194 176 0.92
195 15 0.08
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.31
Consensus pattern (195 bp):
TGGGATGCATCTTACAACGAACTTCCAGGTTGGTTTAGGCTGGTGCGGACGTTGAATCCTGGGAT
AATTGTGGACTTCAAAACCTCATATGCATACCATAATGATCGAGTTCTTCGCGATCGATGCCAAT
TCTACTGAGTTTTTTAGAGTTACCCACAGTGCGTTAATGCTGCCAAATACTGCAAGCCTGTGGTC
Found at i:2104849 original size:111 final size:111
Alignment explanation
Indices: 2104712--2105044 Score: 612
Period size: 111 Copynumber: 3.0 Consensus size: 111
2104702 ATTACAAAAA
2104712 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
2104777 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTATCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
2104823 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
2104888 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
* *
2104934 TTAATTCTTAATCTAATAACCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
2104999 AATTAAAACGTTAAAATGTTATCGTATCAACAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
2105045 ATGATTTCCA
Statistics
Matches: 216, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
111 216 1.00
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAACAAAGTGTCGAGATAT
Found at i:2105203 original size:12 final size:10
Alignment explanation
Indices: 2105188--2105228 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
2105178 CTTAAAAAGG
*
2105188 GAGAGTATTT
1 GAGAGAATTT
2105198 GAGAGAAATTT
1 GAGAG-AATTT
2105209 -AGAGAATTT
1 GAGAGAATTT
2105218 GAGAGAATTT
1 GAGAGAATTT
2105228 G
1 G
2105229 GGGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:2105453 original size:50 final size:50
Alignment explanation
Indices: 2105373--2105478 Score: 140
Period size: 50 Copynumber: 2.1 Consensus size: 50
2105363 GAGGGTGCGT
* **
2105373 TATACCCACGTGGCGCCAAATCACCGTATATCGCGGGGCAGGGGGCACGC
1 TATACTCACGTGGCGCCAAATCACAATATATCGCGGGGCAGGGGGCACGC
* ** *
2105423 TATACTCACGTGGCGCCAAATCAGAATATATCGCGGTTCAGGGGGCGCGC
1 TATACTCACGTGGCGCCAAATCACAATATATCGCGGGGCAGGGGGCACGC
*
2105473 TTTACT
1 TATACT
2105479 GCTACGGGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.23, C:0.28, G:0.29, T:0.20
Consensus pattern (50 bp):
TATACTCACGTGGCGCCAAATCACAATATATCGCGGGGCAGGGGGCACGC
Found at i:2106014 original size:60 final size:59
Alignment explanation
Indices: 2105947--2106135 Score: 191
Period size: 60 Copynumber: 3.1 Consensus size: 59
2105937 ACATCATATG
* * * *
2105947 TCCCCAAATTATAACCCTCATTTTAAATTGATCCTTAAACTTTTGAATATTTTAATTTCA
1 TCCCCAAACTATGACCCTCATTCTAAATT-ATCCTTAAACTTTTGAACATTTTAATTTCA
* * * *
2106007 TCCCCAAACTACGACTCTCATTCTAAATTAGTCCTTAAACTTTTGTACATTCTAATTTCA
1 TCCCCAAACTATGACCCTCATTCTAAATTA-TCCTTAAACTTTTGAACATTTTAATTTCA
* * * ** * *
2106067 TCCCTAAACTATGATCCTC-TCTCTAAATCAATCCCCCAAACTTTTGAACATTTCAATGTCA
1 TCCCCAAACTATGACCCTCAT-TCTAAAT-TAT-CCTTAAACTTTTGAACATTTTAATTTCA
2106128 TCCCCAAA
1 TCCCCAAA
2106136 TTAATCCAAA
Statistics
Matches: 105, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
59 2 0.02
60 73 0.70
61 30 0.29
ACGTcount: A:0.32, C:0.27, G:0.04, T:0.37
Consensus pattern (59 bp):
TCCCCAAACTATGACCCTCATTCTAAATTATCCTTAAACTTTTGAACATTTTAATTTCA
Found at i:2116942 original size:33 final size:33
Alignment explanation
Indices: 2116900--2116965 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
2116890 ATGTGGAGAC
*
2116900 TGAGCACGTGAGTTTTTGACTGGTGTAACAACT
1 TGAGCACGTGAGTTTCTGACTGGTGTAACAACT
2116933 TGAGCACGTGAGTTTCTGACTGGTGTAACAACT
1 TGAGCACGTGAGTTTCTGACTGGTGTAACAACT
2116966 CGCAGAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (33 bp):
TGAGCACGTGAGTTTCTGACTGGTGTAACAACT
Found at i:2132153 original size:21 final size:21
Alignment explanation
Indices: 2132126--2132179 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
2132116 GATTCTGACT
2132126 ATCGCATTGCGA-TTTCCCAA
1 ATCGCATTGCGATTTTCCCAA
*
2132146 ATTCGCATTGCGATTTTCCTAA
1 A-TCGCATTGCGATTTTCCCAA
*
2132168 ATCGCAATGCGA
1 ATCGCATTGCGA
2132180 ATACGTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 1 0.03
21 21 0.70
22 8 0.27
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (21 bp):
ATCGCATTGCGATTTTCCCAA
Found at i:2132190 original size:20 final size:20
Alignment explanation
Indices: 2132165--2132302 Score: 136
Period size: 20 Copynumber: 6.8 Consensus size: 20
2132155 GCGATTTTCC
*
2132165 TAAATCGCAATGCGAATACG
1 TAAATCGCAATGCGATTACG
*
2132185 TAAATCGCAATGTGATTACG
1 TAAATCGCAATGCGATTACG
* *
2132205 TAAATCGCAACGCGAATTAGG
1 TAAATCGCAATGCG-ATTACG
*
2132226 AAAATCGCAATGCGATTACG
1 TAAATCGCAATGCGATTACG
* *
2132246 T-ATTCGCATTGCGATTTACG
1 TAAATCGCAATGCGA-TTACG
* *
2132266 T-AATCGCATTGCGATTTACC
1 TAAATCGCAATGCGA-TTACG
* *
2132286 TAATTCGCATTGCGATT
1 TAAATCGCAATGCGATT
2132303 TACATAGCGC
Statistics
Matches: 101, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
19 11 0.11
20 61 0.60
21 29 0.29
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (20 bp):
TAAATCGCAATGCGATTACG
Found at i:2132301 original size:41 final size:40
Alignment explanation
Indices: 2132126--2132305 Score: 148
Period size: 41 Copynumber: 4.4 Consensus size: 40
2132116 GATTCTGACT
* * * *
2132126 ATCGCATTGCGATTTCCCAAATTCGCATTGCGATTTTCCTAA
1 ATCGCATTGCGATTTACGAAA-TCGCAATGCGA-TTACCTAA
* * * *
2132168 ATCGCAATGCGA-ATACGTAAATCGCAATGTGATTACGTAA
1 ATCGCATTGCGATTTACG-AAATCGCAATGCGATTACCTAA
** * * *
2132208 ATCGCAACGCGAATTAGGAAAATCGCAATGCGATTACGT-A
1 ATCGCATTGCGATTTACG-AAATCGCAATGCGATTACCTAA
* * *
2132248 TTCGCATTGCGATTTACGTAATCGCATTGCGATTTACCTAA
1 ATCGCATTGCGATTTACGAAATCGCAATGCGA-TTACCTAA
*
2132289 TTCGCATTGCGATTTAC
1 ATCGCATTGCGATTTAC
2132306 ATAGCGCCAT
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 12 0.11
40 36 0.32
41 51 0.45
42 14 0.12
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (40 bp):
ATCGCATTGCGATTTACGAAATCGCAATGCGATTACCTAA
Found at i:2132454 original size:20 final size:20
Alignment explanation
Indices: 2132435--2132490 Score: 78
Period size: 21 Copynumber: 2.8 Consensus size: 20
2132425 TCGTTACGAT
2132435 TTAC-TAAATCGCAATGCGA
1 TTACGTAAATCGCAATGCGA
2132454 TTACGTAAATCGCAATGCGAA
1 TTACGTAAATCGCAATGCG-A
* *
2132475 TTAGGAAAATCGCAAT
1 TTACGTAAATCGCAAT
2132491 AATCGCATTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.12
20 14 0.42
21 15 0.45
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (20 bp):
TTACGTAAATCGCAATGCGA
Found at i:2132530 original size:51 final size:50
Alignment explanation
Indices: 2132441--2132540 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 50
2132431 CGATTTACTA
*
2132441 AATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCGCAAT
1 AATCGCAATGCGATTACCTAAATCGCAATGCGAATTAGGAAAATCGCAAT
* * * * *
2132491 AATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTAGGAAAATCGCAA
1 AATCGCAATGCGA-TTACCTAAATCGCAATGCGAATTAGGAAAATCGCAA
2132541 CGCGAATTTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
50 12 0.28
51 31 0.72
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (50 bp):
AATCGCAATGCGATTACCTAAATCGCAATGCGAATTAGGAAAATCGCAAT
Found at i:2132538 original size:21 final size:21
Alignment explanation
Indices: 2132491--2132539 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
2132481 AAATCGCAAT
* *
2132491 AATCGCATTGCGATTTTCCTA
1 AATCGCATTGCGATTTACCAA
* **
2132512 ATTCGCATTGCGATTTAGGAA
1 AATCGCATTGCGATTTACCAA
2132533 AATCGCA
1 AATCGCA
2132540 ACGCGAATTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (21 bp):
AATCGCATTGCGATTTACCAA
Found at i:2132775 original size:377 final size:382
Alignment explanation
Indices: 2132355--2133141 Score: 1235
Period size: 394 Copynumber: 2.0 Consensus size: 382
2132345 CCAAACACGA
2132355 ATATATTAATATATTAATATTCAGAAATCGAGTTGCGAATTTGAAATTCAATATTGCGATAGTCA
1 ATATATTAATATATTAATATTCAGAAATCGAGTTGCGAATTTGAAATTCAATATTGCGATAGTCA
* *
2132420 GAATCTCGTTACGATTTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAG-GA-A-
66 GAATATCGTTACGATTTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGAAATAC
*
2132482 AATCGCA-A-TAA-TCGCATTGCGATTTTCCTAATTCGCATTGCGATTTAGGAAAATCGCAACGC
131 AATCGCAGATTAATTCGCATTGCGATTTACCT-ATTCGCATTGCGATTTAGGAAAATCGCAACGC
**
2132544 GAATTTGGGAAATCGCAATGTGATAGTCAGAATCGCGTTGCGAATCTGGAAACTGATTTGCGATA
195 GAATTTGAAAAATCGCAATGTGATAGTCAGAATCGCGTTGCGAATCTGGAAACTGATTTGCGATA
* * *
2132609 CCGGAGATTGCGTTGCGAATTATCGATCGTATTGCGATTTGGTTGGTCATTTTGGCAAATCCAAA
260 CCGGAGATCGCGTTGCGAATTATCGATCGCATTGCGATTTAGTTGGTCATTTTGGCAAATCCAAA
* * *
2132674 AAAAGTTGGTTAAAATCGTATATTATAAGGCATTTTTGGTCATTGAGGTTATTTTCTC
325 AAAAGTTAGTTAAAATCGTATATTATAAGGCATTTTTGATCACTGAGGTTATTTTCTC
*
2132732 ATATATTAATATATTAATATTCAGAAATCGAGTTGCGAATTTGAAATTCAGTATTGCGATAGTCA
1 ATATATTAATATATTAATATTCAGAAATCGAGTTGCGAATTTGAAATTCAATATTGCGATAGTCA
*
2132797 GAATATCGTTGCGATTTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGAAAATA
66 GAATATCGTTACGATTTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAG-AAATA
*
2132862 CGTAATCGCATTGCGATTTTCCTAATTCGCATTGCGATTTACGTATTCGCATTGCGATTTAGGAA
130 C--AATCGCA----GA---T--TAATTCGCATTGCGATTTACCTATTCGCATTGCGATTTAGGAA
* *
2132927 AATCGCAACGCGAATTTGAAAAATCGTAATGTGATAGTCAGAATCGTGTTGCGAATCTGGAAACT
184 AATCGCAACGCGAATTTGAAAAATCGCAATGTGATAGTCAGAATCGCGTTGCGAATCTGGAAACT
*
2132992 GATTTGCGATACCGGAGATCGCGTTGCGAATTATCGATCGCATTGCTATTTAGTTGGTCATTTTG
249 GATTTGCGATACCGGAGATCGCGTTGCGAATTATCGATCGCATTGCGATTTAGTTGGTCATTTTG
*
2133057 GCAAATCCAAAAAAAGTTAGTTAAAATCGTATATTATAAGGCATTTTTTATCACTGAGGTTATTT
314 GCAAATCCAAAAAAAGTTAGTTAAAATCGTATATTATAAGGCATTTTTGATCACTGAGGTTATTT
2133122 TCTC
379 TCTC
2133126 ATATATATATATATAT
1 ATATAT-TA-ATATAT
2133142 ACAGTTGAAC
Statistics
Matches: 372, Mismatches: 18, Indels: 21
0.91 0.04 0.05
Matches are distributed among these distances:
377 121 0.33
379 1 0.00
380 1 0.00
383 7 0.02
388 1 0.00
394 217 0.58
395 18 0.05
396 6 0.02
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (382 bp):
ATATATTAATATATTAATATTCAGAAATCGAGTTGCGAATTTGAAATTCAATATTGCGATAGTCA
GAATATCGTTACGATTTACTAAATCGCAATGCGATTACGTAAATCGCAATGCGAATTAGAAATAC
AATCGCAGATTAATTCGCATTGCGATTTACCTATTCGCATTGCGATTTAGGAAAATCGCAACGCG
AATTTGAAAAATCGCAATGTGATAGTCAGAATCGCGTTGCGAATCTGGAAACTGATTTGCGATAC
CGGAGATCGCGTTGCGAATTATCGATCGCATTGCGATTTAGTTGGTCATTTTGGCAAATCCAAAA
AAAGTTAGTTAAAATCGTATATTATAAGGCATTTTTGATCACTGAGGTTATTTTCTC
Found at i:2132829 original size:20 final size:20
Alignment explanation
Indices: 2132806--2132850 Score: 74
Period size: 20 Copynumber: 2.2 Consensus size: 20
2132796 AGAATATCGT
2132806 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
2132826 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
2132846 TGCGA
1 TGCGA
2132851 ATTAGAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:2132860 original size:20 final size:20
Alignment explanation
Indices: 2132817--2132860 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2132807 GCGATTTACT
*
2132817 AAATCGCAATGCGATTACGT
1 AAATCGCAATGCGATTACGA
2132837 AAATCGCAATGCGAATTA-GA
1 AAATCGCAATGCG-ATTACGA
2132857 AAAT
1 AAAT
2132861 ACGTAATCGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.43, C:0.16, G:0.18, T:0.23
Consensus pattern (20 bp):
AAATCGCAATGCGATTACGA
Found at i:2132911 original size:20 final size:20
Alignment explanation
Indices: 2132860--2132922 Score: 90
Period size: 20 Copynumber: 3.1 Consensus size: 20
2132850 AATTAGAAAA
*
2132860 TACGTAATCGCATTGCGATT
1 TACGTATTCGCATTGCGATT
* *
2132880 TTCCTAATTCGCATTGCGATT
1 TACGT-ATTCGCATTGCGATT
2132901 TACGTATTCGCATTGCGATT
1 TACGTATTCGCATTGCGATT
2132921 TA
1 TA
2132923 GGAAAATCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 20 0.54
21 17 0.46
ACGTcount: A:0.22, C:0.21, G:0.17, T:0.40
Consensus pattern (20 bp):
TACGTATTCGCATTGCGATT
Found at i:2136629 original size:15 final size:15
Alignment explanation
Indices: 2136609--2136657 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
2136599 ATTTAGTTGG
2136609 GCGGGCGGATGCGGT
1 GCGGGCGGATGCGGT
*
2136624 GCGGGCGGATGCGGG
1 GCGGGCGGATGCGGT
** *
2136639 GCGGGTAGATGCGAT
1 GCGGGCGGATGCGGT
2136654 GCGG
1 GCGG
2136658 ATGCGGGGCG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.10, C:0.18, G:0.59, T:0.12
Consensus pattern (15 bp):
GCGGGCGGATGCGGT
Found at i:2141803 original size:5 final size:5
Alignment explanation
Indices: 2141769--2141805 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
2141759 TTAAGAATTA
*
2141769 ATATA ATATT ATATAT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT A
2141806 AAGTTAATGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 25 0.83
6 5 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:2142753 original size:29 final size:29
Alignment explanation
Indices: 2142719--2142825 Score: 92
Period size: 29 Copynumber: 3.6 Consensus size: 29
2142709 TCTTTTCACT
2142719 TAAGTACTTAACA-TATTTTTTGGTCAAAA
1 TAAGTACTTAA-AGTATTTTTTGGTCAAAA
* * * *
2142748 TAAGTATCTAAAATTATCTTTTTAGTTAAAA
1 TAAGTA-CTTAAAGTAT-TTTTTGGTCAAAA
* * *
2142779 TAGGTACCTAAAGTATTTTTTGGTCAACA
1 TAAGTACTTAAAGTATTTTTTGGTCAAAA
*
2142808 T-AGATACCTAAAGTATTT
1 TAAG-TACTTAAAGTATTT
2142826 AATTTTTTTT
Statistics
Matches: 63, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
28 1 0.02
29 32 0.51
30 14 0.22
31 16 0.25
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.41
Consensus pattern (29 bp):
TAAGTACTTAAAGTATTTTTTGGTCAAAA
Found at i:2142984 original size:29 final size:29
Alignment explanation
Indices: 2142913--2143010 Score: 126
Period size: 29 Copynumber: 3.4 Consensus size: 29
2142903 GTTTGAATAG
* *
2142913 TTTAGGTACCTATTTTGACACAAAA-TAC
1 TTTAGGTACTTATTTTGACAAAAAATTAC
* *
2142941 TTTAGGTAATTATTTTGATAAAAAATTAC
1 TTTAGGTACTTATTTTGACAAAAAATTAC
* *
2142970 CTTAGGTACTTATTTTGACGAAAAATTAC
1 TTTAGGTACTTATTTTGACAAAAAATTAC
*
2142999 TTTAGATACTTA
1 TTTAGGTACTTA
2143011 AATGAAAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
28 21 0.36
29 38 0.64
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (29 bp):
TTTAGGTACTTATTTTGACAAAAAATTAC
Found at i:2149253 original size:13 final size:13
Alignment explanation
Indices: 2149235--2149261 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2149225 AAAAATTAAC
2149235 GATATACTAATGT
1 GATATACTAATGT
2149248 GATATACTAATGT
1 GATATACTAATGT
2149261 G
1 G
2149262 TTACCATAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.19, T:0.37
Consensus pattern (13 bp):
GATATACTAATGT
Found at i:2154823 original size:18 final size:18
Alignment explanation
Indices: 2154800--2154846 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
2154790 TTTATATATC
2154800 TTAAATTAAATTAACATA
1 TTAAATTAAATTAACATA
* * *
2154818 TTAAATTAATTTTACATC
1 TTAAATTAAATTAACATA
2154836 TTAAAATTAAA
1 TT-AAATTAAA
2154847 AATATTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 17 0.71
19 7 0.29
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAATTAAATTAACATA
Found at i:2154928 original size:28 final size:29
Alignment explanation
Indices: 2154869--2154933 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 29
2154859 TTAACTTATT
* * *
2154869 AAATATATTTTATTCCTATTTTAATTTAA
1 AAATATATTTTAATCCTAATTTAAATTAA
2154898 AAATATATTTTAAT-CTAATTTAAATTAA
1 AAATATATTTTAATCCTAATTTAAATTAA
2154926 AAATATAT
1 AAATATAT
2154934 ATAATTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 20 0.61
29 13 0.39
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (29 bp):
AAATATATTTTAATCCTAATTTAAATTAA
Found at i:2154968 original size:33 final size:32
Alignment explanation
Indices: 2154900--2154968 Score: 75
Period size: 33 Copynumber: 2.1 Consensus size: 32
2154890 TAATTTAAAA
*
2154900 ATATATTTTAATCTAATTTAAATTAAAAATAT
1 ATATAATTTAATCTAATTTAAATTAAAAATAT
* * * * *
2154932 ATATAATTTATTCTTATCTTAACTTAAATATTT
1 ATATAATTTAATCTAAT-TTAAATTAAAAATAT
2154965 ATAT
1 ATAT
2154969 TTTATTATGA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
32 14 0.47
33 16 0.53
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (32 bp):
ATATAATTTAATCTAATTTAAATTAAAAATAT
Found at i:2155058 original size:53 final size:53
Alignment explanation
Indices: 2154991--2155113 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 53
2154981 ATATTTTAAA
* * * * *
2154991 TTTAAGATAAAAATATAATATATTTTTTAGTTAAGATAAAAAATAAAATATATTT
1 TTTAAG-TTAAAATAAAATATATTTTTAAGTTAAGAT-AAAAATAAAAGATATAT
*
2155046 TTTAA-TTAAAATAAAAATATATTTTTAAGTTAAGATAAGAATAAAAGATATAT
1 TTTAAGTTAAAAT-AAAATATATTTTTAAGTTAAGATAAAAATAAAAGATATAT
2155099 TTTAAGTTAAAATAA
1 TTTAAGTTAAAATAA
2155114 GAATTAATTA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
53 27 0.45
54 28 0.47
55 5 0.08
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.40
Consensus pattern (53 bp):
TTTAAGTTAAAATAAAATATATTTTTAAGTTAAGATAAAAATAAAAGATATAT
Found at i:2155060 original size:23 final size:25
Alignment explanation
Indices: 2155030--2155113 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 25
2155020 GTTAAGATAA
2155030 AAAATAAAATATAT-TTTTTAA-TT
1 AAAATAAAATATATATTTTTAAGTT
2155053 AAAATAAAA-ATATATTTTTAAGTT
1 AAAATAAAATATATATTTTTAAGTT
* *
2155077 AAGATAAGAATAAAAGATATATTTTAAGTT
1 AAAATAA-AAT---ATATAT-TTTTAAGTT
2155107 AAAATAA
1 AAAATAA
2155114 GAATTAATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
22 4 0.08
23 16 0.32
24 8 0.16
25 2 0.04
29 5 0.10
30 15 0.30
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (25 bp):
AAAATAAAATATATATTTTTAAGTT
Found at i:2155062 original size:24 final size:24
Alignment explanation
Indices: 2155030--2155088 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
2155020 GTTAAGATAA
2155030 AAAAT-AAAATATATTTTTTAA-TT
1 AAAATAAAAATATA-TTTTTAAGTT
2155053 AAAATAAAAATATATTTTTAAGTT
1 AAAATAAAAATATATTTTTAAGTT
* *
2155077 AAGATAAGAATA
1 AAAATAAAAATA
2155089 AAAGATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (24 bp):
AAAATAAAAATATATTTTTAAGTT
Found at i:2155077 original size:54 final size:54
Alignment explanation
Indices: 2155007--2155113 Score: 162
Period size: 54 Copynumber: 2.0 Consensus size: 54
2154997 ATAAAAATAT
* * *
2155007 AATATATTTTTTAGTTAAGATAAAAAATAAAATATATTTTTTAA-TTAAAATAAA
1 AATATATTTTTAAGTTAAGAT-AAAAATAAAAGATATATTTTAAGTTAAAATAAA
*
2155061 AATATATTTTTAAGTTAAGATAAGAATAAAAGATATATTTTAAGTTAAAATAA
1 AATATATTTTTAAGTTAAGATAAAAATAAAAGATATATTTTAAGTTAAAATAA
2155114 GAATTAATTA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 19 0.40
54 29 0.60
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (54 bp):
AATATATTTTTAAGTTAAGATAAAAATAAAAGATATATTTTAAGTTAAAATAAA
Found at i:2155089 original size:30 final size:29
Alignment explanation
Indices: 2154981--2155342 Score: 212
Period size: 30 Copynumber: 12.6 Consensus size: 29
2154971 TATTATGATA
* * * *
2154981 ATATTTTAAATTTAAGATAAAAATATAAT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* *
2155010 ATATTTTTTAGTTAAGATAAAAAATAAAAT
1 ATATTTTTAAGTTAAGAT-AAGAATAAAAT
*
2155040 ATA-TTTT---TTAA-TTAA-AATAAAAAT
1 ATATTTTTAAGTTAAGATAAGAAT-AAAAT
*
2155064 ATATTTTTAAGTTAAGATAAGAATAAAAG
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* * *
2155093 ATATATTTTAAGTTAAAATAAGAATTAATT
1 ATAT-TTTTAAGTTAAGATAAGAATAAAAT
* * * *
2155123 AT-TTTTGATAATTTAAGGTAAGAATAGAAC
1 ATATTTT--TAAGTTAAGATAAGAATAAAAT
* * * * * *
2155153 ACATTTAATAATTTAAGTTAAGTATATAAT
1 ATATTT-TTAAGTTAAGATAAGAATAAAAT
* ** *
2155183 TTATGTAATAAGTTAAGATAAGAAT--ACT
1 ATAT-TTTTAAGTTAAGATAAGAATAAAAT
* * *
2155211 -T-TTTTTAAGTTACGATAAAGACTAAAGT
1 ATATTTTTAAGTTAAGAT-AAGAATAAAAT
* * *
2155239 ATA-TTTTAATTTAAAATAAGAATACAAT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* * *
2155267 ATATTTTTAGGTTAACACAAGAATAAAAT
1 ATATTTTTAAGTTAAGATAAGAATAAAAT
* *
2155296 ATATTTAATAAGTT-A-ATAAAAATAAAAT
1 ATATTT-TTAAGTTAAGATAAGAATAAAAT
2155324 ATATTTTTAATGTTAAGAT
1 ATATTTTTAA-GTTAAGAT
2155343 GTAAAATTAA
Statistics
Matches: 257, Mismatches: 52, Indels: 47
0.72 0.15 0.13
Matches are distributed among these distances:
23 3 0.01
24 10 0.04
25 16 0.06
26 10 0.04
27 4 0.02
28 42 0.16
29 71 0.28
30 97 0.38
31 4 0.02
ACGTcount: A:0.49, C:0.02, G:0.09, T:0.40
Consensus pattern (29 bp):
ATATTTTTAAGTTAAGATAAGAATAAAAT
Found at i:2155324 original size:28 final size:27
Alignment explanation
Indices: 2155253--2155339 Score: 84
Period size: 28 Copynumber: 3.1 Consensus size: 27
2155243 TTTAATTTAA
* * * *
2155253 AATAAGAATACAATATATTTTTAGGTT
1 AATAAAAATAAAATATATTTATAAGTT
*
2155280 AACACAAGAATAAAATATATTTAATAAGTT
1 AATA-AA-AATAAAATATATTT-ATAAGTT
*
2155310 AATAAAAATAAAATATATTTTTAATGTT
1 AATAAAAATAAAATATATTTATAA-GTT
2155338 AA
1 AA
2155340 GATGTAAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
27 6 0.12
28 20 0.41
29 15 0.31
30 8 0.16
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (27 bp):
AATAAAAATAAAATATATTTATAAGTT
Found at i:2155370 original size:18 final size:18
Alignment explanation
Indices: 2155329--2155378 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
2155319 AAAATATATT
2155329 TTTAATGTTAAGATGTAAA
1 TTTAAT-TTAAGATGTAAA
* * *
2155348 ATTAATTTAATATGTGAA
1 TTTAATTTAAGATGTAAA
*
2155366 TTTAAATTAAGAT
1 TTTAATTTAAGAT
2155379 ATATAAAATA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTAATTTAAGATGTAAA
Found at i:2155774 original size:21 final size:23
Alignment explanation
Indices: 2155750--2155801 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
2155740 GGTCACTGAT
*
2155750 ATAATTTAACTTT-TA-TTTTAA
1 ATAATTTAACTTTAAATTTTTAA
*
2155771 ATAATTTATCTTTAAATTTTTAA
1 ATAATTTAACTTTAAATTTTTAA
*
2155794 CTAATTTA
1 ATAATTTA
2155802 TGATTATATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 12 0.46
22 1 0.04
23 13 0.50
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.56
Consensus pattern (23 bp):
ATAATTTAACTTTAAATTTTTAA
Found at i:2157368 original size:27 final size:27
Alignment explanation
Indices: 2157330--2157395 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
2157320 AATTTTTTAA
2157330 ATATTAAGATCGTTTGATTCGTACCTT
1 ATATTAAGATCGTTTGATTCGTACCTT
2157357 ATATTAAGATCGTTTGATTCGTACCTT
1 ATATTAAGATCGTTTGATTCGTACCTT
2157384 ATATTAAGATCG
1 ATATTAAGATCG
2157396 AATATGCTGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.42
Consensus pattern (27 bp):
ATATTAAGATCGTTTGATTCGTACCTT
Found at i:2163688 original size:21 final size:21
Alignment explanation
Indices: 2163627--2163682 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
2163617 TCTGGGCTAG
2163627 GGGAATCGGTACCCATTCAAT
1 GGGAATCGGTACCCATTCAAT
2163648 GGGAATCGGTACCCATTCAAT
1 GGGAATCGGTACCCATTCAAT
*
2163669 GGGAATCGATACCC
1 GGGAATCGGTACCC
2163683 CCTCAACCGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (21 bp):
GGGAATCGGTACCCATTCAAT
Found at i:2165456 original size:23 final size:23
Alignment explanation
Indices: 2165437--2165484 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
2165427 TTCGGTGTAT
2165437 TTCTACGTGACACTATGGTGCAA
1 TTCTACGTGACACTATGGTGCAA
*
2165460 TTCTACGTGGCACT-TCGGTGCAA
1 TTCTACGTGACACTAT-GGTGCAA
2165483 TT
1 TT
2165485 TATATGAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.04
23 22 0.96
ACGTcount: A:0.21, C:0.23, G:0.23, T:0.33
Consensus pattern (23 bp):
TTCTACGTGACACTATGGTGCAA
Found at i:2169791 original size:21 final size:21
Alignment explanation
Indices: 2169767--2169875 Score: 77
Period size: 21 Copynumber: 5.2 Consensus size: 21
2169757 TATTCGCAAC
2169767 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* *
2169788 GCGATTAATTTC-AAATT--CGTT
1 GCGA-T-A-GTCGAAGTTCGCGTT
2169809 GCGATAGTCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
* * *
2169830 GCGATTCATTCCAA-AT--CGTT
1 GCGA-T-AGTCGAAGTTCGCGTT
*
2169850 GCGATAGGCGAAGTTCGCGTT
1 GCGATAGTCGAAGTTCGCGTT
2169871 GCGAT
1 GCGAT
2169876 TCATTCCAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 22
0.67 0.11 0.22
Matches are distributed among these distances:
18 6 0.09
19 7 0.11
20 9 0.14
21 29 0.44
22 3 0.05
23 10 0.15
24 2 0.03
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (21 bp):
GCGATAGTCGAAGTTCGCGTT
Found at i:2169862 original size:41 final size:41
Alignment explanation
Indices: 2169767--2170062 Score: 466
Period size: 41 Copynumber: 7.2 Consensus size: 41
2169757 TATTCGCAAC
* * *
2169767 GCGATAGTCGAAGTTCGCGTTGCGATTAATTTCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
*
2169809 GCGATAGTCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* *
2169850 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAATTCATT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
2169891 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
* * *
2169932 GTGATAGGCGAAGTTTGCGTTGCGATTCATTCCAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
2169973 GCGATAGGCGAAGTTCGCATTGCGATTCATTCCAAATCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
*
2170014 GCGATAGGCGAAGTTCGTGTTGCGATTCATTCCAAATTCGTT
1 GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAA-TCGTT
2170056 GCGATAG
1 GCGATAG
2170063 TCCAAATATT
Statistics
Matches: 235, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
41 189 0.80
42 46 0.20
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (41 bp):
GCGATAGGCGAAGTTCGCGTTGCGATTCATTCCAAATCGTT
Found at i:2169913 original size:21 final size:21
Alignment explanation
Indices: 2169848--2169916 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
2169838 TTCCAAATCG
*
2169848 TTGCGATAGGCGAAGTTCGCG
1 TTGCGATAGGCGAAGTTCGCA
** *
2169869 TTGCGATTCATTCCAA-TT--CA
1 TTGCGA-T-AGGCGAAGTTCGCA
2169889 TTGCGATAGGCGAAGTTCGCA
1 TTGCGATAGGCGAAGTTCGCA
2169910 TTGCGAT
1 TTGCGAT
2169917 TCATTCCAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 10
0.68 0.13 0.19
Matches are distributed among these distances:
18 4 0.11
19 3 0.08
20 7 0.19
21 15 0.42
22 3 0.08
23 4 0.11
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (21 bp):
TTGCGATAGGCGAAGTTCGCA
Found at i:2170808 original size:42 final size:42
Alignment explanation
Indices: 2170761--2171068 Score: 535
Period size: 42 Copynumber: 7.3 Consensus size: 42
2170751 CGTTGCGATT
* *
2170761 TTGGACTATCGCAATGAGCTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
2170803 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
2170845 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
2170887 TTGGACTATCGCAACGAATTTGGAATAAATCGCTACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
2170929 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
2170971 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
2171013 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
2171055 TTGGACTATCGCAA
1 TTGGACTATCGCAA
2171069 TGCGAATATG
Statistics
Matches: 250, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 250 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:2171716 original size:15 final size:14
Alignment explanation
Indices: 2171696--2171725 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
2171686 AAAAAATTGA
2171696 TTAATTCGGTTATGG
1 TTAATTCGGTT-TGG
2171711 TTAATTCGGTTTGG
1 TTAATTCGGTTTGG
2171725 T
1 T
2171726 CGGTAATCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.17, C:0.07, G:0.27, T:0.50
Consensus pattern (14 bp):
TTAATTCGGTTTGG
Found at i:2172069 original size:17 final size:17
Alignment explanation
Indices: 2172047--2172079 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2172037 TGTTGTAAGG
2172047 CAAATAATTTATTTAAA
1 CAAATAATTTATTTAAA
*
2172064 CAAATAATTTGTTTAA
1 CAAATAATTTATTTAA
2172080 TTTATCTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
CAAATAATTTATTTAAA
Found at i:2175618 original size:91 final size:91
Alignment explanation
Indices: 2175463--2175640 Score: 293
Period size: 91 Copynumber: 2.0 Consensus size: 91
2175453 CCAAATAGTC
* * ** *
2175463 TGCAAGTTTACCAGAACATATCACTTGAAACCTTATTTCTCATCTCTTTTTGGCCCTTGTTCTGT
1 TGCAAGTTTACCAGAACATATCACATGAAACCTTATTTCTCATCTCCTTTTACCCCTAGTTCTGT
*
2175528 CTTTAAGGTATGCTGTGCTGCTTGTT
66 CCTTAAGGTATGCTGTGCTGCTTGTT
*
2175554 TGCAAGTTTACCAGAACATATCACATGAAACCTTTTTTCTCATCTCCTTTTACCCCTAGTTCTGT
1 TGCAAGTTTACCAGAACATATCACATGAAACCTTATTTCTCATCTCCTTTTACCCCTAGTTCTGT
2175619 CCTTAAGGTATGCTGTGCTGCT
66 CCTTAAGGTATGCTGTGCTGCT
2175641 CTTGTAGGTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 80 1.00
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.40
Consensus pattern (91 bp):
TGCAAGTTTACCAGAACATATCACATGAAACCTTATTTCTCATCTCCTTTTACCCCTAGTTCTGT
CCTTAAGGTATGCTGTGCTGCTTGTT
Found at i:2182457 original size:4 final size:4
Alignment explanation
Indices: 2182448--2182472 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
2182438 TGAACTTTTA
2182448 TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG T
2182473 TAGGGTAGAG
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:2183216 original size:210 final size:210
Alignment explanation
Indices: 2182815--2183232 Score: 646
Period size: 210 Copynumber: 2.0 Consensus size: 210
2182805 AATGATCAAC
* * *
2182815 TAAGTGTGAATAATTTTTATTTGAATATTTTACGGATATTAATTTTTATCATAATATATGTACAT
1 TAAGTGTGAAGAATTTTTATTTGAATATTTTACGGATAGTAATTTTTATCATAATATATATACAT
* * * *
2182880 GTATATTTTATTCTAAATTAATCTTTTTTTTATTTGTAAAGATATGAGCAATATTTTTTTTTCAT
66 GTATATTTTATTCTAAATTAATATTTCTTTAATTTGTAAAGATATGAGCAATA-TATTTTTTCAT
* *
2182945 GATTGTCCATTATAATGGACATATTATGGAAAATGAGGTCGGAGTTGTTTTTCAATCTGAAAGAA
130 GATTGTCCATTATAATGGACATATTATGGAAAATGAGGTCGAAGTCGTTTTTCAATCTGAAAGAA
2183010 CTATAAATATGATTAG
195 CTATAAATATGATTAG
* *
2183026 TAAGTGTGAAGAATTTTTATTTGAAGTATTTTAC-GATTAGTCATTTTTATCATAATATATATGC
1 TAAGTGTGAAGAATTTTTATTTGAA-TATTTTACGGA-TAGTAATTTTTATCATAATATATATAC
*
2183090 TTGTATATTTTATTCTAAATTAA-ATTTCTTTAATTTGTAAAGAATATGAGCAATA-ATTTTTTC
64 ATGTATATTTTATTCTAAATTAATATTTCTTTAATTTGTAAAG-ATATGAGCAATATATTTTTTC
*
2183153 ATGATTG-CCTATTATAATGGACATATTATGGAAAATGAGGTTGAAGTCGTTTTTCAATCTGAAA
128 ATGATTGTCC-ATTATAATGGACATATTATGGAAAATGAGGTCGAAGTCGTTTTTCAATCTGAAA
2183217 GAACTATAAATATGAT
192 GAACTATAAATATGAT
2183233 GGTCAAAAGG
Statistics
Matches: 190, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
209 2 0.01
210 81 0.43
211 42 0.22
212 65 0.34
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.45
Consensus pattern (210 bp):
TAAGTGTGAAGAATTTTTATTTGAATATTTTACGGATAGTAATTTTTATCATAATATATATACAT
GTATATTTTATTCTAAATTAATATTTCTTTAATTTGTAAAGATATGAGCAATATATTTTTTCATG
ATTGTCCATTATAATGGACATATTATGGAAAATGAGGTCGAAGTCGTTTTTCAATCTGAAAGAAC
TATAAATATGATTAG
Found at i:2185247 original size:43 final size:43
Alignment explanation
Indices: 2185177--2185484 Score: 383
Period size: 43 Copynumber: 7.2 Consensus size: 43
2185167 TGGTGATTAT
* * *
2185177 CGGCGTTTGTATCCAAAAATGCTGCTATAGATCTGACTTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* *
2185220 CGGCGTTTGTAT-CAAAACACGCCGCTATAGATATGACCTTTTA
1 CGGCGTTTGTATCCAAAA-ACGCCGCTATAGATCTGACCTTTTG
* *
2185263 CGGCGTTTGTATCCAAAAACGCCTCTATAGATCTGTCCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* *
2185306 CGGCGTTTGT-TACAAAAATGCCGCTATAGATCTGACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
* * *
2185348 CGGCGTTTG-CTCAAAAAACGCCGCTATAGATCTCATCCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGA-CCTTTTG
* * *
2185391 CGGCGTTTGTATCCAGAAATGCCGCAATAGATCTGACCTTTTG
1 CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
** *
2185434 CGGCGTTT-T-TAAAACAAACGCCGCTATAGATCTTGACTTTTTG
1 CGGCGTTTGTATCCAA-AAACGCCGCTATAGATC-TGACCTTTTG
2185477 CGGCGTTT
1 CGGCGTTT
2185485 TTATTTTACA
Statistics
Matches: 229, Mismatches: 29, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
41 2 0.01
42 79 0.34
43 123 0.54
44 25 0.11
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (43 bp):
CGGCGTTTGTATCCAAAAACGCCGCTATAGATCTGACCTTTTG
Found at i:2185421 original size:128 final size:128
Alignment explanation
Indices: 2185177--2185484 Score: 431
Period size: 128 Copynumber: 2.4 Consensus size: 128
2185167 TGGTGATTAT
* * *
2185177 CGGCGTTTGTATCCAAAAATGCTGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAACACGC
1 CGGCGTTTGT-TACAAAAATGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAAAACGC
* * * *
2185242 CGCTATAGATATGACCTTTTACGGCGTTTGTATCCAAAAACGCCTCTATAGATCTGTCCTTTTG
65 CGCTATAGATATCACCTTTTACGGCGTTTGTATCCAAAAACGCCGCAATAGATCTGACCTTTTG
* *
2185306 CGGCGTTTGTTACAAAAATGCCGCTATAGATCTGACCTTTTGCGGCGTTTG-CTCAAAAAACGCC
1 CGGCGTTTGTTACAAAAATGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAAAACGCC
* * * *
2185370 GCTATAGATCTCATCCTTTTGCGGCGTTTGTATCCAGAAATGCCGCAATAGATCTGACCTTTTG
66 GCTATAGATATCA-CCTTTTACGGCGTTTGTATCCAAAAACGCCGCAATAGATCTGACCTTTTG
* *
2185434 CGGCGTTT-TTAAAACAAACGCCGCTATAGATCTTGACTTTTTGCGGCGTTT
1 CGGCGTTTGTTACAA-AAATGCCGCTATAGATC-TGACTTTTTGCGGCGTTT
2185485 TTATTTTACA
Statistics
Matches: 160, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
127 27 0.17
128 106 0.66
129 27 0.17
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.33
Consensus pattern (128 bp):
CGGCGTTTGTTACAAAAATGCCGCTATAGATCTGACTTTTTGCGGCGTTTGTATCAAAAAACGCC
GCTATAGATATCACCTTTTACGGCGTTTGTATCCAAAAACGCCGCAATAGATCTGACCTTTTG
Found at i:2193192 original size:3 final size:3
Alignment explanation
Indices: 2193184--2193247 Score: 128
Period size: 3 Copynumber: 21.3 Consensus size: 3
2193174 TATTTATCAA
2193184 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2193232 AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT A
2193248 GCAATATTGT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Done.