Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001448.1 Hibiscus syriacus cultivar Beakdansim tig00002799_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: 1849635
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 9
Found at i:1598311 original size:42 final size:42
Alignment explanation
Indices: 1598252--1598338 Score: 156
Period size: 42 Copynumber: 2.1 Consensus size: 42
1598242 ACCATAAATT
1598252 TTTATATGATTTATATTTCATTGAATTTTTATATCAGTCTAG
1 TTTATATGATTTATATTTCATTGAATTTTTATATCAGTCTAG
* *
1598294 TTTATATGATTTTTATTTCATTGAATTTTTATATTAGTCTAG
1 TTTATATGATTTATATTTCATTGAATTTTTATATCAGTCTAG
1598336 TTT
1 TTT
1598339 TTTTAGAATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.26, C:0.06, G:0.09, T:0.59
Consensus pattern (42 bp):
TTTATATGATTTATATTTCATTGAATTTTTATATCAGTCTAG
Found at i:1599162 original size:18 final size:19
Alignment explanation
Indices: 1599117--1599180 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
1599107 ATGAACTTGA
*
1599117 AAATAAGCTATGAATCTGG
1 AAATAAGTTATGAATCTGG
*
1599136 AATTAAGTTATGAATCT-G
1 AAATAAGTTATGAATCTGG
* *
1599154 AAATAAGTTATTAGTCTGG
1 AAATAAGTTATGAATCTGG
*
1599173 AAACAAGT
1 AAATAAGT
1599181 CTTGAATTTG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.39
19 23 0.61
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (19 bp):
AAATAAGTTATGAATCTGG
Found at i:1599180 original size:19 final size:18
Alignment explanation
Indices: 1599125--1599200 Score: 55
Period size: 19 Copynumber: 4.1 Consensus size: 18
1599115 GAAAATAAGC
**
1599125 TATGAATCTGGAATTAAGT
1 TATGAATCT-GAAACAAGT
*
1599144 TATGAATCTGAAATAAGT
1 TATGAATCTGAAACAAGT
* *
1599162 TATTAGTCTGGAAACAAGT
1 TATGAATCT-GAAACAAGT
*
1599181 CT-TGAATTTGAGAACAAGT
1 -TATGAATCTGA-AACAAGT
1599200 T
1 T
1599201 CTAAAATGTA
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
18 18 0.38
19 28 0.60
20 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (18 bp):
TATGAATCTGAAACAAGT
Found at i:1599242 original size:7 final size:7
Alignment explanation
Indices: 1599222--1599279 Score: 54
Period size: 6 Copynumber: 9.0 Consensus size: 7
1599212 AAGTACTGAT
1599222 TATGAAA
1 TATGAAA
1599229 -ATGAAA
1 TATGAAA
*
1599235 TGTGAAA
1 TATGAAA
1599242 T-TG-AA
1 TATGAAA
1599247 TATGAAA
1 TATGAAA
*
1599254 -GTGAAA
1 TATGAAA
1599260 TATGAAA
1 TATGAAA
*
1599267 -ATGAGA
1 TATGAAA
1599273 TATGAAA
1 TATGAAA
1599280 GTTTTGTATT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
5 3 0.07
6 20 0.49
7 18 0.44
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (7 bp):
TATGAAA
Found at i:1599246 original size:13 final size:13
Alignment explanation
Indices: 1599222--1599279 Score: 73
Period size: 13 Copynumber: 4.5 Consensus size: 13
1599212 AAGTACTGAT
1599222 TATGAAAATGAAA
1 TATGAAAATGAAA
* *
1599235 TGTGAAATTG-AA
1 TATGAAAATGAAA
*
1599247 TATGAAAGTGAAA
1 TATGAAAATGAAA
*
1599260 TATGAAAATGAGA
1 TATGAAAATGAAA
1599273 TATGAAA
1 TATGAAA
1599280 GTTTTGTATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
12 10 0.26
13 28 0.74
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (13 bp):
TATGAAAATGAAA
Found at i:1599252 original size:25 final size:26
Alignment explanation
Indices: 1599222--1599279 Score: 82
Period size: 25 Copynumber: 2.3 Consensus size: 26
1599212 AAGTACTGAT
* *
1599222 TATGAAAATGAAATGTGAAATTGA-A
1 TATGAAAATGAAATATGAAAATGAGA
*
1599247 TATGAAAGTGAAATATGAAAATGAGA
1 TATGAAAATGAAATATGAAAATGAGA
1599273 TATGAAA
1 TATGAAA
1599280 GTTTTGTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 21 0.72
26 8 0.28
ACGTcount: A:0.53, C:0.00, G:0.21, T:0.26
Consensus pattern (26 bp):
TATGAAAATGAAATATGAAAATGAGA
Found at i:1599359 original size:39 final size:39
Alignment explanation
Indices: 1599311--1599393 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
1599301 AAAAATAATG
* *
1599311 TGATATGACTATTTTGTATGATATTGTTTATCATGGCTT
1 TGATATGACTATTATATATGATATTGTTTATCATGGCTT
*
1599350 TGATATGACTATTATATATGATATTGTTTATCATGGTTT
1 TGATATGACTATTATATATGATATTGTTTATCATGGCTT
1599389 TGATA
1 TGATA
1599394 AAATCATGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.27, C:0.06, G:0.17, T:0.51
Consensus pattern (39 bp):
TGATATGACTATTATATATGATATTGTTTATCATGGCTT
Found at i:1601568 original size:28 final size:28
Alignment explanation
Indices: 1601535--1601591 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
1601525 TTGGAATATG
1601535 TATGTGGTTCTTCGGGACATATATGTTA
1 TATGTGGTTCTTCGGGACATATATGTTA
*
1601563 TATGTGGTTCTTCGGGACATCTATGTTA
1 TATGTGGTTCTTCGGGACATATATGTTA
1601591 T
1 T
1601592 CTTTCGGGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.19, C:0.12, G:0.25, T:0.44
Consensus pattern (28 bp):
TATGTGGTTCTTCGGGACATATATGTTA
Found at i:1603253 original size:2 final size:2
Alignment explanation
Indices: 1603246--1603304 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
1603236 ATTACACGCG
1603246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1603288 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
1603305 TAACTAGACA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1605211 original size:15 final size:16
Alignment explanation
Indices: 1605186--1605228 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
1605176 CTCAAAATTA
*
1605186 AATATTATTTTA-AAT
1 AATAATATTTTACAAT
*
1605201 AATTATATTTTTACAAT
1 AATAATA-TTTTACAAT
1605218 AATAATATTTT
1 AATAATATTTT
1605229 TACCTCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 9 0.39
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (16 bp):
AATAATATTTTACAAT
Found at i:1605218 original size:17 final size:17
Alignment explanation
Indices: 1605193--1605231 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1605183 TTAAATATTA
*
1605193 TTTTA-AATAATTATAT
1 TTTTACAATAATAATAT
1605209 TTTTACAATAATAATAT
1 TTTTACAATAATAATAT
1605226 TTTTAC
1 TTTTAC
1605232 CTCATAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTTACAATAATAATAT
Found at i:1605895 original size:16 final size:16
Alignment explanation
Indices: 1605874--1605921 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
1605864 GTATGTCCAA
1605874 ATTTTTAAAAAATAAT
1 ATTTTTAAAAAATAAT
* *
1605890 ATTTTTAAATAATATT
1 ATTTTTAAAAAATAAT
*
1605906 TTATTTTAAAAAATAA
1 AT-TTTTAAAAAATAA
1605922 AAATATAAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 15 0.58
17 11 0.42
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTTTAAAAAATAAT
Found at i:1605901 original size:13 final size:13
Alignment explanation
Indices: 1605883--1605907 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1605873 AATTTTTAAA
1605883 AAATAATATTTTT
1 AAATAATATTTTT
1605896 AAATAATATTTT
1 AAATAATATTTT
1605908 ATTTTAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AAATAATATTTTT
Found at i:1614469 original size:2 final size:2
Alignment explanation
Indices: 1614462--1614523 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
1614452 CATGCCATGA
1614462 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1614504 AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT
1614524 GGGATAGGAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1614904 original size:20 final size:20
Alignment explanation
Indices: 1614879--1614920 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1614869 TTTGTTTACA
1614879 AATTGACAAATCTAGGGACT
1 AATTGACAAATCTAGGGACT
* *
1614899 AATTGATAAATTTAGGGACT
1 AATTGACAAATCTAGGGACT
1614919 AA
1 AA
1614921 AATATTATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.29
Consensus pattern (20 bp):
AATTGACAAATCTAGGGACT
Found at i:1614991 original size:21 final size:21
Alignment explanation
Indices: 1614965--1615009 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
1614955 TTTTGTTTAC
1614965 AAATTGACAAATCTAGGGACT
1 AAATTGACAAATCTAGGGACT
* * *
1614986 AAATTGATAAATTTAGGGAGT
1 AAATTGACAAATCTAGGGACT
1615007 AAA
1 AAA
1615010 ATATTATAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.27
Consensus pattern (21 bp):
AAATTGACAAATCTAGGGACT
Found at i:1615015 original size:88 final size:87
Alignment explanation
Indices: 1614847--1615022 Score: 307
Period size: 87 Copynumber: 2.0 Consensus size: 87
1614837 ATTTGTTCAA
* *
1614847 TATTATCTTTTCCTTACTTGTTTTTGTTTACAAATTGACAAATCTAGGGACTAATTGATAAATTT
1 TATTATATTTTCCATACTTGTTTTTGTTTACAAATTGACAAATCTAGGGACTAATTGATAAATTT
1614912 AGGGACTAAAATATTATAGAGT
66 AGGGACTAAAATATTATAGAGT
*
1614934 TATTATATTTTTCATACTTGTTTTTGTTTACAAATTGACAAATCTAGGGACTAAATTGATAAATT
1 TATTATATTTTCCATACTTGTTTTTGTTTACAAATTGACAAATCTAGGGACT-AATTGATAAATT
*
1614999 TAGGGAGTAAAATATTATAGAGT
65 TAGGGACTAAAATATTATAGAGT
1615022 T
1 T
1615023 CATGTTGGAT
Statistics
Matches: 84, Mismatches: 4, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
87 49 0.58
88 35 0.42
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.43
Consensus pattern (87 bp):
TATTATATTTTCCATACTTGTTTTTGTTTACAAATTGACAAATCTAGGGACTAATTGATAAATTT
AGGGACTAAAATATTATAGAGT
Found at i:1615422 original size:31 final size:31
Alignment explanation
Indices: 1615319--1615450 Score: 112
Period size: 31 Copynumber: 4.4 Consensus size: 31
1615309 TCGATCAATG
* * *
1615319 AACTT-TCAAA-TGTTACAAAATGATTATTG
1 AACTTATCAAACTATTACAAAATGATCATTA
* *
1615348 AACTT-TCCAAA-AAGTTACAAAACGATCATTA
1 AACTTAT-CAAACTA-TTACAAAATGATCATTA
* * *
1615379 AA-TTGTCAAACTATTATAAAATTATCATTA
1 AACTTATCAAACTATTACAAAATGATCATTA
** *
1615409 AACTTATCAAACTATTACAAAATGGCCCTTA
1 AACTTATCAAACTATTACAAAATGATCATTA
1615440 AACTTATCAAA
1 AACTTATCAAA
1615451 ATTTATCACT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
29 6 0.07
30 26 0.31
31 51 0.61
ACGTcount: A:0.45, C:0.16, G:0.06, T:0.33
Consensus pattern (31 bp):
AACTTATCAAACTATTACAAAATGATCATTA
Found at i:1616615 original size:9 final size:9
Alignment explanation
Indices: 1616601--1616636 Score: 58
Period size: 9 Copynumber: 4.2 Consensus size: 9
1616591 TAGTTTTGTA
1616601 AATATTTTT
1 AATATTTTT
1616610 AATATTTTT
1 AATATTTTT
1616619 -ATA-TTTT
1 AATATTTTT
1616626 AATATTTTT
1 AATATTTTT
1616635 AA
1 AA
1616637 ACAATTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
7 4 0.16
8 6 0.24
9 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
AATATTTTT
Found at i:1616622 original size:8 final size:8
Alignment explanation
Indices: 1616602--1616635 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
1616592 AGTTTTGTAA
1616602 ATATTTTT
1 ATATTTTT
1616610 AATATTTTT
1 -ATATTTTT
*
1616619 ATATTTTA
1 ATATTTTT
1616627 ATATTTTT
1 ATATTTTT
1616635 A
1 A
1616636 AACAATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (8 bp):
ATATTTTT
Found at i:1617699 original size:26 final size:26
Alignment explanation
Indices: 1617656--1617708 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
1617646 AAAGTAAACA
*
1617656 AATGATCCTCCGACTATCAGGGTCAG
1 AATGATCCTCCGACTATCAAGGTCAG
*
1617682 AATGATCC-CTCGATTATCAAGGTCAG
1 AATGATCCTC-CGACTATCAAGGTCAG
1617708 A
1 A
1617709 TTTTATCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 1 0.04
26 23 0.96
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (26 bp):
AATGATCCTCCGACTATCAAGGTCAG
Found at i:1620175 original size:30 final size:29
Alignment explanation
Indices: 1620110--1620183 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
1620100 AAATGGATTT
* *
1620110 ATTTAGTGACCAAATTATAAATTTGGTAAA
1 ATTTAGTGACCAAAGTATAAATTT-GAAAA
1620140 ATTTAGTGACCAAAGTATAAACTTT-AAAA
1 ATTTAGTGACCAAAGTATAAA-TTTGAAAA
*
1620169 AGTTTAGGGACCAAA
1 A-TTTAGTGACCAAA
1620184 ATGTAATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 4 0.10
30 32 0.82
31 3 0.08
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (29 bp):
ATTTAGTGACCAAAGTATAAATTTGAAAA
Found at i:1622460 original size:12 final size:12
Alignment explanation
Indices: 1622441--1622470 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1622431 ATCGGTACAC
1622441 TGTTCACGGTAT
1 TGTTCACGGTAT
*
1622453 TTTTCACGGTAT
1 TGTTCACGGTAT
1622465 TGTTCA
1 TGTTCA
1622471 TCATTATTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.47
Consensus pattern (12 bp):
TGTTCACGGTAT
Found at i:1627206 original size:20 final size:20
Alignment explanation
Indices: 1627181--1627220 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
1627171 CCATATCCGA
*
1627181 CCCGGATATGAATCCGAGGT
1 CCCGGATACGAATCCGAGGT
1627201 CCCGGATACGAATCCGAGGT
1 CCCGGATACGAATCCGAGGT
1627221 GTCACATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.28, G:0.30, T:0.17
Consensus pattern (20 bp):
CCCGGATACGAATCCGAGGT
Found at i:1627914 original size:91 final size:91
Alignment explanation
Indices: 1627808--1627991 Score: 350
Period size: 91 Copynumber: 2.0 Consensus size: 91
1627798 AATTATACTC
* *
1627808 ATTCACATATCCCTTAACCTTTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1 ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1627873 AACACGTACACCCAGGCAACTATAAT
66 AACACGTACACCCAGGCAACTATAAT
1627899 ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1 ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1627964 AACACGTACACCCAGGCAACTATAAT
66 AACACGTACACCCAGGCAACTATAAT
1627990 AT
1 AT
1627992 CATCTTCATT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 91 1.00
ACGTcount: A:0.40, C:0.24, G:0.05, T:0.30
Consensus pattern (91 bp):
ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
AACACGTACACCCAGGCAACTATAAT
Found at i:1628126 original size:23 final size:23
Alignment explanation
Indices: 1628100--1628177 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
1628090 CACCACAGCT
1628100 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* **
1628123 CATATAATTGCACCGGAGTGCTG
1 CATATAATTGCACCGAAGTGCCA
* * *
1628146 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1628169 TATAATAAT
1 CAT-ATAAT
1628178 GTCTATAAGG
Statistics
Matches: 43, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
23 39 0.91
24 4 0.09
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.26
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1629237 original size:64 final size:64
Alignment explanation
Indices: 1629084--1629246 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 64
1629074 ATTCCCTACC
* * * * ** *
1629084 GATGAATCGATGCACTACTTGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTACTGG
1 GATGCATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGA
* * * *
1629148 GATGCATCGATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTT-TTAGATTAAA-
1 GATGCATCGATGCACTACC-TGTGCATCGATGCACCAAATACATTCGATGTTTGTT-GATTAAAG
1629210 A
64 A
*
1629211 GAGTGCATCGATGCACTACCTGTGCATCGATACACC
1 GA-TGCATCGATGCACTACCTGTGCATCGATGCACC
1629247 TTCAAACAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
63 6 0.07
64 72 0.89
65 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (64 bp):
GATGCATCGATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGA
Found at i:1631080 original size:2 final size:2
Alignment explanation
Indices: 1631073--1631112 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
1631063 CTCTGACTTC
1631073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1631113 CATACTCTTG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1632544 original size:91 final size:91
Alignment explanation
Indices: 1632389--1632572 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
1632379 AATTATACTC
*
1632389 ATTCACATATACCTTAACCTGTACTCATGTATATTATATAACATATACCATATATACTATCATAA
1 ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1632454 AACACGTACACCCAGGCAACTATAAT
66 AACACGTACACCCAGGCAACTATAAT
1632480 ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1 ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
1632545 AACACGTACACCCAGGCAACTATAAT
66 AACACGTACACCCAGGCAACTATAAT
1632571 AT
1 AT
1632573 CATCTTCATT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (91 bp):
ATTCACATATACCTTAACCTGTACTCATGTATATCATATAACATATACCATATATACTATCATAA
AACACGTACACCCAGGCAACTATAAT
Found at i:1632707 original size:23 final size:23
Alignment explanation
Indices: 1632681--1632758 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
1632671 CACCACATCT
*
1632681 CATATAATTGCACCAAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
1632704 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* * *
1632727 CGTAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
1632750 TATAATAAT
1 CAT-ATAAT
1632759 GTCCATAAGG
Statistics
Matches: 44, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
23 40 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:1633818 original size:64 final size:64
Alignment explanation
Indices: 1633673--1633827 Score: 163
Period size: 64 Copynumber: 2.4 Consensus size: 64
1633663 CCGATGAATA
* * * ** *
1633673 GATGCACTACTTGTGCATCGATGCACAAAATACATTCGATGTTTGTTTATTACTGGGATGCATC
1 GATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGAGATGCATC
* * * *
1633737 GATGCA-TGCCTTATGCATCGATGCACCAATTGCATTCGATGTTT-TTAGATTAAA-AGAGTGCA
1 GATGCACTACC-TGTGCATCGATGCACCAAATACATTCGATGTTTGTT-GATTAAAGAGA-TGCA
1633799 TC
63 TC
*
1633801 GATGCACTACCTGTGCATCGATACACC
1 GATGCACTACCTGTGCATCGATGCACC
1633828 TTCAAACAAT
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
63 6 0.08
64 65 0.88
65 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (64 bp):
GATGCACTACCTGTGCATCGATGCACCAAATACATTCGATGTTTGTTGATTAAAGAGATGCATC
Found at i:1638873 original size:22 final size:23
Alignment explanation
Indices: 1638810--1638882 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
1638800 CCCAATATAT
* *
1638810 ATATATAATATA--ATTTTAAAA
1 ATATATAATATAGTTTTTTGAAA
1638831 ATATATAATATAGTTTTTTGAAA
1 ATATATAATATAGTTTTTTGAAA
* *
1638854 ACATATTATATAG-TTTTTGAAA
1 ATATATAATATAGTTTTTTGAAA
1638876 ATATATA
1 ATATATA
1638883 TTTATATATA
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
21 12 0.27
22 14 0.32
23 18 0.41
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.45
Consensus pattern (23 bp):
ATATATAATATAGTTTTTTGAAA
Found at i:1638888 original size:23 final size:24
Alignment explanation
Indices: 1638803--1638888 Score: 88
Period size: 23 Copynumber: 3.6 Consensus size: 24
1638793 GTAGACACCC
* *
1638803 AATATATATATATAATATAATTTTAAA
1 AATATATATATATAGT-T--TTTTGAA
1638830 AATATATA-ATATAGTTTTTTGAA
1 AATATATATATATAGTTTTTTGAA
*
1638853 AACATAT-TATATAG-TTTTTGAA
1 AATATATATATATAGTTTTTTGAA
*
1638875 AATATATATTTATA
1 AATATATATATATA
1638889 TATAATATAG
Statistics
Matches: 52, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 14 0.27
23 23 0.44
25 1 0.02
26 6 0.12
27 8 0.15
ACGTcount: A:0.48, C:0.01, G:0.05, T:0.47
Consensus pattern (24 bp):
AATATATATATATAGTTTTTTGAA
Found at i:1638889 original size:76 final size:76
Alignment explanation
Indices: 1638804--1638970 Score: 216
Period size: 76 Copynumber: 2.2 Consensus size: 76
1638794 TAGACACCCA
1638804 ATATATATATATAATATA-ATTTTAAAAATATATAATATAGTTTTTTGAAAACATAT-T-A-TAT
1 ATATATATATATAATATAGATTTT-AAAATATAT-ATA-A-TTTTTTGAAAACATATATAAGTAT
*
1638865 AGTTTTTGAAAATAT
62 AATTTTTGAAAATAT
* *
1638880 ATATTTATATATAATATAGGTTTTAAAATATATATAATTTTTTGAAAACATATATAATGTATAAT
1 ATATATATATATAATATAGATTTTAAAATATATATAATTTTTTGAAAACATATATAA-GTATAAT
1638945 TTTTGAAAATAT
65 TTTTGAAAATAT
1638957 AATATATACTATAT
1 -ATATATA-TATAT
1638971 GGTTTTTAAA
Statistics
Matches: 80, Mismatches: 4, Indels: 11
0.84 0.04 0.12
Matches are distributed among these distances:
73 16 0.20
74 2 0.03
75 4 0.05
76 26 0.32
77 21 0.26
78 6 0.08
79 5 0.06
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.46
Consensus pattern (76 bp):
ATATATATATATAATATAGATTTTAAAATATATATAATTTTTTGAAAACATATATAAGTATAATT
TTTGAAAATAT
Found at i:1638891 original size:55 final size:51
Alignment explanation
Indices: 1638831--1638934 Score: 136
Period size: 51 Copynumber: 2.0 Consensus size: 51
1638821 AATTTTAAAA
* *
1638831 ATATATAATATAGTTTTTTGAAAACATATTATATAGTTTTTGAAAATATATATTT
1 ATATATAATATAG-GTTTT-AAAACATA-TATA-AGTTTTTGAAAACATATATTT
* *
1638886 ATATATAATATAGGTTTTAAAATATATATAATTTTTTGAAAACATATAT
1 ATATATAATATAGGTTTTAAAACATATATAAGTTTTTGAAAACATATAT
1638935 AATGTATAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
51 17 0.38
52 4 0.09
53 7 0.16
54 4 0.09
55 13 0.29
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (51 bp):
ATATATAATATAGGTTTTAAAACATATATAAGTTTTTGAAAACATATATTT
Found at i:1638932 original size:20 final size:19
Alignment explanation
Indices: 1638900--1638937 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1638890 ATAATATAGG
*
1638900 TTTTAAAATATATATAATT
1 TTTTAAAACATATATAATT
1638919 TTTTGAAAACATATATAAT
1 TTTT-AAAACATATATAAT
1638938 GTATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (19 bp):
TTTTAAAACATATATAATT
Found at i:1638969 original size:27 final size:26
Alignment explanation
Indices: 1638907--1638964 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
1638897 AGGTTTTAAA
1638907 ATATATATAATTTTTTGAAAACATAT
1 ATATATATAATTTTTTGAAAACATAT
* *
1638933 ATAATGTATAA-TTTTTGAAAATATA-
1 AT-ATATATAATTTTTTGAAAACATAT
1638958 ATATATA
1 ATATATA
1638965 CTATATGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 4 0.14
25 2 0.07
26 15 0.54
27 7 0.25
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (26 bp):
ATATATATAATTTTTTGAAAACATAT
Found at i:1639834 original size:35 final size:35
Alignment explanation
Indices: 1639761--1639835 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
1639751 CGTCACTAAC
* **
1639761 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCAAGGAACCGCCA
*
1639796 AGTAAGGCCCTGAGCACACAGCCAAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCAAGGAACCGCCA
1639831 AGTAA
1 AGTAA
1639836 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.29, G:0.27, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCAAGGAACCGCCA
Found at i:1639975 original size:23 final size:23
Alignment explanation
Indices: 1639913--1640002 Score: 108
Period size: 23 Copynumber: 3.8 Consensus size: 23
1639903 CATAATTCAA
1639913 GTCAAGTATCATATCAGAATCCAG
1 GTCAA-TATCATATCAGAATCCAG
* * *
1639937 GTCATGTATCAGATCAGAATCCAT
1 GTCA-ATATCATATCAGAATCCAG
1639961 GTCAATATCATATCAGAATCCAG
1 GTCAATATCATATCAGAATCCAG
** *
1639984 GTCAGGATCATAACAGAAT
1 GTCAATATCATATCAGAAT
1640003 TCAAGTCGGA
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
23 32 0.57
24 24 0.43
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.26
Consensus pattern (23 bp):
GTCAATATCATATCAGAATCCAG
Found at i:1641156 original size:18 final size:18
Alignment explanation
Indices: 1641135--1641170 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1641125 CTTCCATCCG
*
1641135 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1641153 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1641171 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1642476 original size:15 final size:15
Alignment explanation
Indices: 1642446--1642515 Score: 67
Period size: 13 Copynumber: 4.8 Consensus size: 15
1642436 TCAAAGTTTT
1642446 GGTCAACAGTGGTCAAC
1 GGTCAAC-G-GGTCAAC
*
1642463 GGTCAATGGGTCAAC
1 GGTCAACGGGTCAAC
*
1642478 GGTCAACGGGTC--G
1 GGTCAACGGGTCAAC
*
1642491 GGTCAACGGGTC--G
1 GGTCAACGGGTCAAC
1642504 GGTCAACGGGTC
1 GGTCAACGGGTC
1642516 GGGTCGGGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
13 25 0.50
15 18 0.36
16 1 0.02
17 6 0.12
ACGTcount: A:0.21, C:0.23, G:0.39, T:0.17
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:1642496 original size:13 final size:13
Alignment explanation
Indices: 1642478--1642520 Score: 86
Period size: 13 Copynumber: 3.3 Consensus size: 13
1642468 ATGGGTCAAC
1642478 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1642491 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1642504 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1642517 GGTC
1 GGTC
1642521 GGGTTGTGAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.14, C:0.23, G:0.47, T:0.16
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1644584 original size:35 final size:35
Alignment explanation
Indices: 1644511--1644585 Score: 114
Period size: 35 Copynumber: 2.1 Consensus size: 35
1644501 CGTCACTAAC
* **
1644511 AGTAAGGCCCTGAGCACACAGCCGAGGAACCGGTA
1 AGTAAGGCCCTGAGCACACAGCCAAGGAACCGCCA
*
1644546 AGTAAGGCCCTGAGCACACAGCCAAGGAACCTCCA
1 AGTAAGGCCCTGAGCACACAGCCAAGGAACCGCCA
1644581 AGTAA
1 AGTAA
1644586 TCTTCCTCCA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.35, C:0.29, G:0.27, T:0.09
Consensus pattern (35 bp):
AGTAAGGCCCTGAGCACACAGCCAAGGAACCGCCA
Found at i:1644689 original size:24 final size:23
Alignment explanation
Indices: 1644666--1644749 Score: 109
Period size: 24 Copynumber: 3.7 Consensus size: 23
1644656 ATTCAAGTCA
1644666 AGTATCATATCAGAATCCAGGTC
1 AGTATCATATCAGAATCCAGGTC
* *
1644689 ATGTATCAGATCAGAATCCATGTC
1 A-GTATCATATCAGAATCCAGGTC
1644713 A--ATCATATCAGAATCCAGGTC
1 AGTATCATATCAGAATCCAGGTC
* *
1644734 AGGATCATAACAGAAT
1 AGTATCATATCAGAAT
1644750 TCAAGTCGGA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 19 0.36
23 13 0.25
24 21 0.40
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.25
Consensus pattern (23 bp):
AGTATCATATCAGAATCCAGGTC
Found at i:1644722 original size:21 final size:22
Alignment explanation
Indices: 1644669--1644749 Score: 101
Period size: 21 Copynumber: 3.6 Consensus size: 22
1644659 CAAGTCAAGT
1644669 ATCATATCAGAATCCAGGTCATG
1 ATCATATCAGAATCCAGGTCA-G
* *
1644692 TATCAGATCAGAATCCATGTCA-
1 -ATCATATCAGAATCCAGGTCAG
1644714 ATCATATCAGAATCCAGGTCAGG
1 ATCATATCAGAATCCAGGTCA-G
*
1644737 ATCATAACAGAAT
1 ATCATATCAGAAT
1644750 TCAAGTCGGA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.38
23 12 0.24
24 19 0.38
ACGTcount: A:0.38, C:0.21, G:0.16, T:0.25
Consensus pattern (22 bp):
ATCATATCAGAATCCAGGTCAG
Found at i:1645903 original size:18 final size:18
Alignment explanation
Indices: 1645882--1645917 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1645872 CTTCCATCCG
*
1645882 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
1645900 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
1645918 GTCCTTTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:1647217 original size:15 final size:15
Alignment explanation
Indices: 1647187--1647255 Score: 67
Period size: 15 Copynumber: 4.8 Consensus size: 15
1647177 TCAAAGTTTT
1647187 GGTCAACAGTGGTCAAC
1 GGTCAAC-G-GGTCAAC
*
1647204 GGTCAATGGGTCAAC
1 GGTCAACGGGTCAAC
*
1647219 GGTCAACGGGTC--G
1 GGTCAACGGGTCAAC
1647232 GGTCAACGGGT---C
1 GGTCAACGGGTCAAC
1647244 GGTCAACGGGTC
1 GGTCAACGGGTC
1647256 GGGTCGGGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
12 11 0.23
13 11 0.23
15 18 0.38
16 1 0.02
17 6 0.13
ACGTcount: A:0.22, C:0.23, G:0.38, T:0.17
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:1647237 original size:13 final size:13
Alignment explanation
Indices: 1647219--1647260 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
1647209 ATGGGTCAAC
1647219 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1647232 GGTCAACGGGTC-
1 GGTCAACGGGTCG
1647244 GGTCAACGGGTCG
1 GGTCAACGGGTCG
1647257 GGTC
1 GGTC
1647261 GGGTTGTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 12 0.43
13 16 0.57
ACGTcount: A:0.14, C:0.24, G:0.45, T:0.17
Consensus pattern (13 bp):
GGTCAACGGGTCG
Found at i:1647249 original size:12 final size:12
Alignment explanation
Indices: 1647218--1647257 Score: 71
Period size: 12 Copynumber: 3.2 Consensus size: 12
1647208 AATGGGTCAA
1647218 CGGTCAACGGGT
1 CGGTCAACGGGT
1647230 CGGGTCAACGGGT
1 C-GGTCAACGGGT
1647243 CGGTCAACGGGT
1 CGGTCAACGGGT
1647255 CGG
1 CGG
1647258 GTCGGGTTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.15, C:0.25, G:0.45, T:0.15
Consensus pattern (12 bp):
CGGTCAACGGGT
Found at i:1647255 original size:8 final size:8
Alignment explanation
Indices: 1647187--1647243 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
1647177 TCAAAGTTTT
1647187 GGTCAACAG
1 GGTCAAC-G
1647196 TGGTCAAC-
1 -GGTCAACG
*
1647204 GGTCAATG
1 GGTCAACG
1647212 GGTCAAC-
1 GGTCAACG
1647219 GGTCAACG
1 GGTCAACG
1647227 GGT---CG
1 GGTCAACG
1647232 GGTCAACG
1 GGTCAACG
1647240 GGTC
1 GGTC
1647244 GGTCAACGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
5 5 0.12
7 13 0.32
8 15 0.38
10 7 0.17
ACGTcount: A:0.23, C:0.23, G:0.37, T:0.18
Consensus pattern (8 bp):
GGTCAACG
Found at i:1650725 original size:902 final size:904
Alignment explanation
Indices: 1648982--1650791 Score: 3401
Period size: 902 Copynumber: 2.0 Consensus size: 904
1648972 TTTTAATAGT
*
1648982 CTCTGACCATCGTAGACAGTGGTCGGAGTGGTCATCAACACGAGGGGTTTGCCGAAAATAGGGGC
1 CTCTGACCATCGTAGACAGTGGTCGGAGTGGTCATCAACACGAGGGGTTTACCGAAAATAGGGGC
1649047 TCGGTTTGAGAGAGAGTGTTGAGAGCTTTTGATCTTTTGATTTTTGGGGAGTGTTTGAAAATGAG
66 TCGGTTTGAGAGAGAGTGTTGAGAGCTTTTGATCTTTTGATTTTTGGGGAGTGTTTGAAAATGAG
*
1649112 GTAAAAAAGAAAAGTAAAAGGGGATTTATAAGGGATGATTGTTGTGTAGTTAGAGGTTTTTTAAA
131 GTAAAAAAGAAAAGTAAAAGGGGATTTATAAGGGATGATTGTTGTGTAATTAGAGGTTTTTTAAA
*
1649177 TCACGCCTGTCGTTCATCTCATTTTGATGTGTAAATCATTTTGGTCATTATATGTAATTTTGCCT
196 TCACGCCTGTCGTTCATCTCATTTTGATGTGTAAATCATTTTGGTCATTATATGCAATTTTGCCT
1649242 TTGAATTTTATTTTAATTCGATTTAGTCCCTTTTATATTTTTATTTTTTATAAATCGGTACCCTA
261 TTGAATTTTATTTTAATTCGATTTAGTCCCTTTTATATTTTTATTTTTTATAAATCGGTACCCTA
1649307 ATTCTATTTTTTTTCTTTACAACATCTTATTAATTTTTTCTTTTTATAATGTATTTTACTTTATT
326 ATTCTATTTTTTTTCTTTACAACATCTTATTAATTTTTTCTTTTTATAATGTATTTTACTTTATT
** *
1649372 TTATTTTAACACTAATTTATTTTTTTCAAAGGGAATACGATCCAAATTAAATCTCGTCGAAGGTA
391 TTATTTTAACACTAATTTATTCCTTTCAAAGGGAATACGATCCAAATTAAACCTCGTCGAAGGTA
*
1649437 AATAACTCGAATCGAATCTAAATTGTTATTTTTAAATTTATAATTTTTGCGATTAAGACAATCGG
456 AATAACTCGAATCGAATCTAAATTATTATTTTTAAATTTATAATTTTTGCGATTAAGACAATCGG
*
1649502 GTACTCATCCTTCTCGATCGTAAATGACTCCCGAATTCGACACATCTCTTGTAAGACGCATATCC
521 GTACTCATCCTTCTCGATCGTAAACGACTCCCGAATTCGACACATCTCTTGTAAGACGCATATCC
*
1649567 GATAAAAGGGAAAAATCAAGGTGTCTGATCTAGCTTGTTCAAAATGATCTATGGTAACTCCATCA
586 GATAAAAGGGAAAAATCAAGGTGTCTGATCTAGCTTGTTCAAAATGATCGATGGTAACTCCATCA
1649632 TGATTCCAAGTTAAAGCGTGAACCAGGGACCACCGAAGGACCGTTGTGACAGCTTGGCTACTCCG
651 TGATTCCAAGTTAAAGCGTGAACCAGGGACCACCGAAGGACCGTTGTGACAGCTTGGCTACTCCG
*
1649697 CTGGGGATATAAGACAGTGTTGTAAAAAATTGATTACCCGATTATCTTCTTATGCAAAAATTGTA
716 CTGGGGATATAAGACAGTCTTGTAAAAAATTGATTACCCGATTATCTTCTTATGCAAAAATTGTA
1649762 AGTTTAAATTTCAATTTATTTTCGATCCATTTTATTTACTTTTGATTATTATTATTTTTCAAATA
781 AGTTTAAATTTCAATTTATTTTCGATCCATTTTATTTACTTTTGATTATTATTATTTTTCAAATA
1649827 AATAGTTGTACTGATATTTTCTTTTAGTG-TTTTCATA-TTTTAAAAAGTTTTCCAAAG
846 AATAGTTGTACTGATATTTTCTTTTAGTGTTTTTCATATTTTTAAAAAGTTTTCCAAAG
1649884 CTCTGACCATCGTAGACAGTGGTCGGAGTGGTCATCAACACGAGGGGTTTACCGAAAATAGGGGC
1 CTCTGACCATCGTAGACAGTGGTCGGAGTGGTCATCAACACGAGGGGTTTACCGAAAATAGGGGC
* * * *
1649949 TTGGTTTGAGGGAGAGTGTTGAGAGCTTTTGATGTTTTGGTTTTTGGGGAGTGTTTGAAAATGAG
66 TCGGTTTGAGAGAGAGTGTTGAGAGCTTTTGATCTTTTGATTTTTGGGGAGTGTTTGAAAATGAG
* *
1650014 GTAAAAAAGAAAAGTAAAAGGGGGTTTATAAGGGATGATTGTTTTGTAATTAGAGGTTTTTTAAA
131 GTAAAAAAGAAAAGTAAAAGGGGATTTATAAGGGATGATTGTTGTGTAATTAGAGGTTTTTTAAA
*
1650079 TCACGCCTGTCGTTCATCTCATTTTGATGTGTAAATCGTTTTGGTCATTATATGCAATTTTGCCT
196 TCACGCCTGTCGTTCATCTCATTTTGATGTGTAAATCATTTTGGTCATTATATGCAATTTTGCCT
*
1650144 TTGAATTTTATTTTAATTTGATTTAGTCCCTTTTATATTTTTATTTTTTATAAATCGGTACCCTA
261 TTGAATTTTATTTTAATTCGATTTAGTCCCTTTTATATTTTTATTTTTTATAAATCGGTACCCTA
1650209 ATTCTA-TTTTTTTCTTTACAACATCTTATTAATTTTTTTCTTTTTATAATGTATTTTACTTTAT
326 ATTCTATTTTTTTTCTTTACAACATCTTATTAA-TTTTTTCTTTTTATAATGTATTTTACTTTAT
1650273 TTTATTTTAACACTAATTTATTCCTTTCAAAGGGAATACGATCCAAATTAAACCTCGTCGAAGGT
390 TTTATTTTAACACTAATTTATTCCTTTCAAAGGGAATACGATCCAAATTAAACCTCGTCGAAGGT
1650338 AAATAACTCGAATCGAATCTAAATTATTATTTTTAAATTTATAATTTTTGCGATTAAGACAATCG
455 AAATAACTCGAATCGAATCTAAATTATTATTTTTAAATTTATAATTTTTGCGATTAAGACAATCG
1650403 GGTACTCATCCTTCTCGATCGTAAACGACTCCCGAATTCGACACATCTCTTGTAAGACGCATATC
520 GGTACTCATCCTTCTCGATCGTAAACGACTCCCGAATTCGACACATCTCTTGTAAGACGCATATC
*
1650468 CGATAAAAGGGAAAAATCAAGGTGTCTGATCTAGCTTGTTCGAAATGATCGATGGTAACTCCATC
585 CGATAAAAGGGAAAAATCAAGGTGTCTGATCTAGCTTGTTCAAAATGATCGATGGTAACTCCATC
*
1650533 ATGATTCCAAGTTAAAGCGTGAACTAGGGACCACCGAAGGACCGTTGTGACAGCTTGGCTACTCC
650 ATGATTCCAAGTTAAAGCGTGAACCAGGGACCACCGAAGGACCGTTGTGACAGCTTGGCTACTCC
*
1650598 GCTGGGGATATAAGACAGTCTTGTAAAAAATTGATTACCTGATTATCTTCTTATGCAAAAATTGT
715 GCTGGGGATATAAGACAGTCTTGTAAAAAATTGATTACCCGATTATCTTCTTATGCAAAAATTGT
1650663 AAGTTTAAATTTCAATTTATTTTCGATCCATTTTATTTACTTTTGATTATTATTATTTTTCAAAT
780 AAGTTTAAATTTCAATTTATTTTCGATCCATTTTATTTACTTTTGATTATTATTATTTTTCAAAT
1650728 AAATAGTTGTACTGATATTTTCTTTTAGTGTTTTTCATATTTTTAAAAAGTTTTCCAAAG
845 AAATAGTTGTACTGATATTTTCTTTTAGTGTTTTTCATATTTTTAAAAAGTTTTCCAAAG
1650788 CTCT
1 CTCT
1650792 AAACCCGAGC
Statistics
Matches: 884, Mismatches: 21, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
901 26 0.03
902 826 0.93
903 8 0.01
904 24 0.03
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (904 bp):
CTCTGACCATCGTAGACAGTGGTCGGAGTGGTCATCAACACGAGGGGTTTACCGAAAATAGGGGC
TCGGTTTGAGAGAGAGTGTTGAGAGCTTTTGATCTTTTGATTTTTGGGGAGTGTTTGAAAATGAG
GTAAAAAAGAAAAGTAAAAGGGGATTTATAAGGGATGATTGTTGTGTAATTAGAGGTTTTTTAAA
TCACGCCTGTCGTTCATCTCATTTTGATGTGTAAATCATTTTGGTCATTATATGCAATTTTGCCT
TTGAATTTTATTTTAATTCGATTTAGTCCCTTTTATATTTTTATTTTTTATAAATCGGTACCCTA
ATTCTATTTTTTTTCTTTACAACATCTTATTAATTTTTTCTTTTTATAATGTATTTTACTTTATT
TTATTTTAACACTAATTTATTCCTTTCAAAGGGAATACGATCCAAATTAAACCTCGTCGAAGGTA
AATAACTCGAATCGAATCTAAATTATTATTTTTAAATTTATAATTTTTGCGATTAAGACAATCGG
GTACTCATCCTTCTCGATCGTAAACGACTCCCGAATTCGACACATCTCTTGTAAGACGCATATCC
GATAAAAGGGAAAAATCAAGGTGTCTGATCTAGCTTGTTCAAAATGATCGATGGTAACTCCATCA
TGATTCCAAGTTAAAGCGTGAACCAGGGACCACCGAAGGACCGTTGTGACAGCTTGGCTACTCCG
CTGGGGATATAAGACAGTCTTGTAAAAAATTGATTACCCGATTATCTTCTTATGCAAAAATTGTA
AGTTTAAATTTCAATTTATTTTCGATCCATTTTATTTACTTTTGATTATTATTATTTTTCAAATA
AATAGTTGTACTGATATTTTCTTTTAGTGTTTTTCATATTTTTAAAAAGTTTTCCAAAG
Found at i:1652340 original size:21 final size:21
Alignment explanation
Indices: 1652316--1652383 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
1652306 TTTTCCCAAT
1652316 TCGCAATGCGAATAAGTAAAA
1 TCGCAATGCGAATAAGTAAAA
* * *
1652337 TCGCAATTCGAAT-TGGAAAA
1 TCGCAATGCGAATAAGTAAAA
1652357 TCGCAATGCG-ATAA-TACAAAA
1 TCGCAATGCGAATAAGT--AAAA
1652378 TCGCAA
1 TCGCAA
1652384 CGAGATACTG
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 2 0.05
20 14 0.37
21 22 0.58
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATAAGTAAAA
Found at i:1652403 original size:20 final size:20
Alignment explanation
Indices: 1652378--1652430 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
1652368 TAATACAAAA
*
1652378 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATACTGACTT
*
1652398 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATACTGACTT
1652418 TCGCAACGCGATA
1 TCGCAACGCGATA
1652431 ATACATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTT
Found at i:1652444 original size:21 final size:21
Alignment explanation
Indices: 1652355--1652450 Score: 65
Period size: 20 Copynumber: 4.7 Consensus size: 21
1652345 CGAATTGGAA
* *
1652355 AATCGCAATGCGATAAT-ACAA
1 AATCGCAACGCGATAATGAC-T
* *
1652376 AATCGCAACGAGATACTGACT
1 AATCGCAACGCGATAATGACT
* **
1652397 -TTCGCAACGCGATTCTGACT
1 AATCGCAACGCGATAATGACT
*
1652417 -TTCGCAACGCGATAAT-ACAT
1 AATCGCAACGCGATAATGAC-T
*
1652437 AATCGCAATGCGAT
1 AATCGCAACGCGAT
1652451 TTTCAAAGCG
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 2 0.03
20 32 0.52
21 25 0.41
22 2 0.03
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (21 bp):
AATCGCAACGCGATAATGACT
Found at i:1652646 original size:22 final size:22
Alignment explanation
Indices: 1652618--1652661 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1652608 CACTCTCTCA
1652618 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
**
1652640 CCCATCTCCGGTGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
1652662 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:1652951 original size:20 final size:20
Alignment explanation
Indices: 1652926--1652963 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1652916 CGATTCTCTC
1652926 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
1652946 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
1652964 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:1653154 original size:25 final size:24
Alignment explanation
Indices: 1653100--1653154 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1653090 TGTTTATTAT
* *
1653100 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
1653124 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
1653150 TGTTT
1 TGTTT
1653155 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:1654327 original size:18 final size:18
Alignment explanation
Indices: 1654283--1654327 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
1654273 TCCACTTCGG
* *
1654283 GAGCCATCACCTCGCCTA
1 GAGCCATCACCTCACCCA
* *
1654301 TAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
1654319 GAGCCATCA
1 GAGCCATCA
1654328 TCTGATCGAC
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.27, C:0.42, G:0.13, T:0.18
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:1654863 original size:19 final size:20
Alignment explanation
Indices: 1654820--1654875 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
1654810 AGCAATACGA
1654820 AAATGACTATCGCAACGCGG
1 AAATGACTATCGCAACGCGG
* * *
1654840 AAATGGCTATCGGAATGC-G
1 AAATGACTATCGCAACGCGG
**
1654859 AAATGAAAATCGCAACG
1 AAATGACTATCGCAACG
1654876 ACAAAATCGC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
19 13 0.46
20 15 0.54
ACGTcount: A:0.39, C:0.20, G:0.25, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGG
Found at i:1654923 original size:14 final size:14
Alignment explanation
Indices: 1654904--1654994 Score: 83
Period size: 14 Copynumber: 5.9 Consensus size: 14
1654894 TTGTGTTTCG
1654904 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
1654918 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
1654934 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
*
1654950 CGTTGCGATTTTCATTT
1 CGTTGCGA-TTT--TGT
1654967 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
1654983 CGTTGCGATTTT
1 CGTTGCGATTTT
1654995 CATTTCGCAT
Statistics
Matches: 64, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
14 27 0.42
15 3 0.05
16 12 0.19
17 4 0.06
18 12 0.19
19 6 0.09
ACGTcount: A:0.11, C:0.18, G:0.23, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:1654968 original size:33 final size:33
Alignment explanation
Indices: 1654899--1655010 Score: 208
Period size: 33 Copynumber: 3.4 Consensus size: 33
1654889 GCGATTTGTG
*
1654899 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1654931 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1654964 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1654997 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
1655011 AGCCATTTCC
Statistics
Matches: 78, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 26 0.33
33 52 0.67
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
Found at i:1655029 original size:20 final size:19
Alignment explanation
Indices: 1654995--1655050 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
1654985 TTGCGATTTT
*
1654995 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
1655014 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
1655034 CATTTTCGCGTTGCGAT
1 CA-TTTCGCGTTGCGAT
1655051 TTTAAGTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
19 5 0.15
20 25 0.76
21 3 0.09
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:1656939 original size:14 final size:14
Alignment explanation
Indices: 1656920--1656955 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1656910 ATTGTTTAAT
1656920 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
1656934 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
1656948 TGATTTGT
1 TGATTTGT
1656956 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1657116 original size:19 final size:19
Alignment explanation
Indices: 1657092--1657140 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
1657082 ATCGCAACGA
1657092 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1657111 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
1657130 GAAAATCGCAA
1 GAAAATCGCAA
1657141 CGAGATTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.14
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:1657183 original size:20 final size:20
Alignment explanation
Indices: 1657158--1657233 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
1657148 TTGCATTGCG
*
1657158 ATTTTCTAGTTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
* ***
1657178 ATTTTCGCGTTGCGATTTTTC
1 ATTTTCGAGTTGCGA-TAGCC
*
1657199 A-TTTCGAATTGCGATAGCC
1 ATTTTCGAGTTGCGATAGCC
*
1657218 ATTTTCGCGTTGCGAT
1 ATTTTCGAGTTGCGAT
1657234 TTCCCCGTTG
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
19 3 0.07
20 36 0.86
21 3 0.07
ACGTcount: A:0.17, C:0.20, G:0.21, T:0.42
Consensus pattern (20 bp):
ATTTTCGAGTTGCGATAGCC
Found at i:1657770 original size:12 final size:12
Alignment explanation
Indices: 1657753--1657784 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
1657743 CTCCGGCGAC
1657753 ATCCGTTCCTAT
1 ATCCGTTCCTAT
1657765 ATCCGTTCCTAT
1 ATCCGTTCCTAT
1657777 ATCC-TTCC
1 ATCCGTTCC
1657785 CCATCCGACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.16, C:0.38, G:0.06, T:0.41
Consensus pattern (12 bp):
ATCCGTTCCTAT
Found at i:1658367 original size:24 final size:24
Alignment explanation
Indices: 1658340--1658393 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1658330 GTATTCGAAA
*
1658340 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACCCGGAC
* *
1658364 TTTGATATTGGTCAATACTCGGAT
1 TTTGATATTGGTCAATACCCGGAC
1658388 TTTGAT
1 TTTGAT
1658394 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATATTGGTCAATACCCGGAC
Found at i:1658585 original size:12 final size:12
Alignment explanation
Indices: 1658568--1658592 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1658558 ATATAATCCT
1658568 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1658580 GAAGAAGAAAAA
1 GAAGAAGAAAAA
1658592 G
1 G
1658593 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:1660907 original size:19 final size:19
Alignment explanation
Indices: 1660885--1661015 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
1660875 GGAAATTACT
1660885 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1660904 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1660918 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* *
1660937 ATCGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
1660951 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
1660970 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
1660984 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1661003 ATCGCAACGCGAA
1 ATCGCAATGCGAA
1661016 TTTAATTTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 27 0.32
15 3 0.04
16 6 0.07
17 6 0.07
18 3 0.04
19 39 0.46
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1660927 original size:33 final size:33
Alignment explanation
Indices: 1660885--1661011 Score: 202
Period size: 33 Copynumber: 3.8 Consensus size: 33
1660875 GGAAATTACT
1660885 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
1660918 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
1660950 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1660984 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
1661012 CGAATTTAAT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
32 1 0.01
33 83 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1660992 original size:66 final size:66
Alignment explanation
Indices: 1660886--1661018 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
1660876 GAAATTACTA
*
1660886 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1660951 T
66 T
*
1660952 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
1661017 T
66 T
1661018 T
1 T
1661019 AATTTCGCGT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:1661062 original size:33 final size:33
Alignment explanation
Indices: 1661011--1661100 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
1661001 AAATCGCAAC
* * *
1661011 GCGAATTTAATTTCGCGTTGCGATTCTCTCGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTAGTT
*
1661044 GCGATTTTCATTTCGCGTTACGATTCTCTAGTT
1 GCGATTTTCATTTCGCGTTGCGATTCTCTAGTT
*
1661077 GCGATTTTCATTTCGCATTGCGAT
1 GCGATTTTCATTTCGCGTTGCGAT
1661101 AGTACTTTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 51 1.00
ACGTcount: A:0.16, C:0.21, G:0.20, T:0.43
Consensus pattern (33 bp):
GCGATTTTCATTTCGCGTTGCGATTCTCTAGTT
Found at i:1661228 original size:14 final size:14
Alignment explanation
Indices: 1661209--1661245 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1661199 CATTAATTAA
1661209 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
1661223 ACAAATCACCTTTT
1 ACAAATCAACTTTT
1661237 ACAAATCAA
1 ACAAATCAA
1661246 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:1662663 original size:42 final size:41
Alignment explanation
Indices: 1662604--1662809 Score: 146
Period size: 42 Copynumber: 4.9 Consensus size: 41
1662594 GTGAATCGGG
* * *
1662604 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGCGGC
* * * *
1662646 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGG
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGCGGC
* * * * *
1662688 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGCGGC
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAGCGGC
* * *
1662730 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGCGGC
* * * * * *
1662772 CTCTTCAACGATAGGAGTAGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
1662810 GCGAGTCGAG
Statistics
Matches: 125, Mismatches: 31, Indels: 16
0.73 0.18 0.09
Matches are distributed among these distances:
41 9 0.07
42 105 0.84
43 11 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.21
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGCGGC
Found at i:1662670 original size:21 final size:21
Alignment explanation
Indices: 1662604--1662754 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
1662594 GTGAATCGGG
*
1662604 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
1662624 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
1662646 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** *
1662667 CTCTCG-A-GGAATGATAGGGGG
1 CTCTTGAACGG--TGGGAGGGGA
* * * *
1662688 CTCTTCAACGATAGGAGTGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** * *
1662709 CTCTTG-AGGGATGACAGCGGC
1 CTCTTGAACGG-TGGGAGGGGA
1662730 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
1662751 CTCT
1 CTCT
1662755 CGAGGAATGA
Statistics
Matches: 85, Mismatches: 38, Indels: 14
0.62 0.28 0.10
Matches are distributed among these distances:
19 2 0.02
20 3 0.04
21 73 0.86
22 6 0.07
23 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.22
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:1662742 original size:84 final size:84
Alignment explanation
Indices: 1662634--1662809 Score: 325
Period size: 84 Copynumber: 2.1 Consensus size: 84
1662624 CCTCTTCAAC
* *
1662634 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGGCTCTTCAACGA
1 GATGACAGCGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
*
1662699 TAGGAGTGGACTCTTGAGG
66 TAGGAGTAGACTCTTGAGG
1662718 GATGACAGCGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGCGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1662783 TAGGAGTAGACTCTTGAGG
66 TAGGAGTAGACTCTTGAGG
1662802 GATGACAG
1 GATGACAG
1662810 GCGAGTCGAG
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 89 1.00
ACGTcount: A:0.24, C:0.18, G:0.38, T:0.20
Consensus pattern (84 bp):
GATGACAGCGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
TAGGAGTAGACTCTTGAGG
Found at i:1663205 original size:91 final size:90
Alignment explanation
Indices: 1663028--1663212 Score: 273
Period size: 91 Copynumber: 2.0 Consensus size: 90
1663018 ATTTCAAACT
* *
1663028 TTCAACCAAAAGACAAAACAAAGACAAATATTAACTTCACAGTGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAGTTTAGC
*
1663093 AGAATTGGCAGCAACCGAATAAATTTAC
63 AGAATTGGCAGCAACCCAATAAATTTAC
*
1663121 TTCAACCAAAAGACAAAACAAAAAGATAAATACTAACTTCACAGTGTT-AATAAACAGTTTAGCA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCA
*
1663185 GTATTGGCAGCAACCCAATAAATTTAC
64 GAATTGGCAGCAACCCAATAAATTTAC
1663212 T
1 T
1663213 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 41 0.48
93 19 0.22
95 25 0.29
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (90 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAGTTTAGCAGA
ATTGGCAGCAACCCAATAAATTTAC
Found at i:1664870 original size:20 final size:19
Alignment explanation
Indices: 1664839--1664975 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
1664829 TCTTTTGGTT
1664839 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
1664858 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
**
1664879 GAAATGACTATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1664898 G--A-G--AATCGCAACGT
1 GAAATGAAAATCGCAACGA
** *
1664912 GAAATGACTATCGCAACGC
1 GAAATGAAAATCGCAACGA
1664931 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
*
1664950 G--A-G--AATCGCAACGC
1 GAAATGAAAATCGCAACGA
1664964 GAAATGAAAATC
1 GAAATGAAAATC
1664976 ACAATGCGAT
Statistics
Matches: 93, Mismatches: 13, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 21 0.23
16 4 0.04
17 4 0.04
19 33 0.35
20 29 0.31
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:1664921 original size:33 final size:34
Alignment explanation
Indices: 1664864--1664929 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 34
1664854 ACGAGATAAT
1664864 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
*
1664898 GAGAATCGCAACG-TGAAATGACTATCGCAACG
1 GAGAATCGCAACGCGGAAATGACTATCGCAACG
1664930 CGAAATGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 18 0.58
34 13 0.42
ACGTcount: A:0.38, C:0.23, G:0.26, T:0.14
Consensus pattern (34 bp):
GAGAATCGCAACGCGGAAATGACTATCGCAACGA
Found at i:1664948 original size:52 final size:53
Alignment explanation
Indices: 1664847--1664975 Score: 179
Period size: 52 Copynumber: 2.4 Consensus size: 53
1664837 TTGAAATGAA
* **
1664847 AATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATCGCAACGAGA-AATGACAATCGCAACGCGGAAATGAAAATCGCAACGAGAG
* *
1664901 AATCGCAACGTGAAATGACTATCGCAACGC-GAAATGAAAATCGCAACGAGAG
1 AATCGCAACGAGAAATGACAATCGCAACGCGGAAATGAAAATCGCAACGAGAG
* *
1664953 AATCGCAACGCGAAATGAAAATC
1 AATCGCAACGAGAAATGACAATC
1664976 ACAATGCGAT
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
52 40 0.60
53 15 0.22
54 12 0.18
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (53 bp):
AATCGCAACGAGAAATGACAATCGCAACGCGGAAATGAAAATCGCAACGAGAG
Found at i:1665002 original size:19 final size:19
Alignment explanation
Indices: 1664980--1665024 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1664970 AAAATCACAA
*
1664980 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
1664999 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
1665018 TGCGATT
1 TGCGATT
1665025 CTCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:1665608 original size:20 final size:20
Alignment explanation
Indices: 1665579--1665692 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
1665569 CGCTATGTAA
* *
1665579 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * * *
1665599 ATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
1665620 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
*
1665640 ATCACATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
1665660 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
*
1665680 ATCGCGTTGCGAT
1 ATCGCATTGCGAT
1665693 TTTCCCAATT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 62 0.78
21 12 0.15
22 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:1665725 original size:20 final size:21
Alignment explanation
Indices: 1665681--1665732 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
1665671 ATAGTCAGTA
*
1665681 TCGCGTTGCGATTTTCCCAAT
1 TCGCGTTGCGATTTTACCAAT
**
1665702 TCGCGTTGCGA-TTTACTTAT
1 TCGCGTTGCGATTTTACCAAT
*
1665722 TCGCATTGCGA
1 TCGCGTTGCGA
1665733 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.15, C:0.25, G:0.21, T:0.38
Consensus pattern (21 bp):
TCGCGTTGCGATTTTACCAAT
Found at i:1665803 original size:21 final size:21
Alignment explanation
Indices: 1665763--1665803 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1665753 ACTGTAGACC
**
1665763 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
1665784 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
1665804 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:1676859 original size:7 final size:7
Alignment explanation
Indices: 1676847--1676873 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
1676837 AATAAAATAA
1676847 AATTTAT
1 AATTTAT
1676854 AATTTAT
1 AATTTAT
1676861 AATTTAT
1 AATTTAT
1676868 AATTTA
1 AATTTA
1676874 AAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTAT
Found at i:1678324 original size:23 final size:23
Alignment explanation
Indices: 1678298--1678347 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
1678288 TGTTCTCTGT
1678298 CTTTATGACACATTTATCTCCGC
1 CTTTATGACACATTTATCTCCGC
* * * * *
1678321 CTTTGTGGCACGTTTTTCTCTGC
1 CTTTATGACACATTTATCTCCGC
1678344 CTTT
1 CTTT
1678348 TAGTAGTTTA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.12, C:0.28, G:0.14, T:0.46
Consensus pattern (23 bp):
CTTTATGACACATTTATCTCCGC
Found at i:1681394 original size:102 final size:102
Alignment explanation
Indices: 1681206--1681662 Score: 372
Period size: 102 Copynumber: 4.5 Consensus size: 102
1681196 ATAGATGAAC
* * *
1681206 TAAACAATTAAGTATCACTAAATCTATTATAAT-A-ATGCGGGTGATAATCTTATTCACCGATGG
1 TAAACAATTACG-ATCACTAAATCTATTCTAATAACATGC--GTGATCATCTTATTCACCGATGG
* * * **
1681269 TGCATTGAATAAC-ATACCA--CCATATCAGTATTTAACTCG
63 TGCA-T-AAAAACTATACCAGTCCATATCGGTATTTCACTAA
* * *
1681308 TAAACAATTACGAGTCACTAAATCTTTTCTAATAACATGCGTGATCATCTTGTTCACCGATGGTT
1 TAAACAATTACGA-TCACTAAATCTATTCTAATAACATGCGTGATCATCTTATTCACCGATGGTG
*
1681373 CAT-AAAACTATGCCAGTCCATATCGGTATTTCACTAA
65 CATAAAAACTATACCAGTCCATATCGGTATTTCACTAA
* * * * *
1681410 TACACAATTACATATCACTAAATCTATTC---TAACA-----AATCATCTTATTCACTGAAGGTG
1 TAAACAATTAC-GATCACTAAATCTATTCTAATAACATGCGTGATCATCTTATTCACCGATGGTG
* * **
1681467 CATAAAATAATATACC-GT-CGTATCGGTATTTCACTCG
65 CATAAAA-ACTATACCAGTCCATATCGGTATTTCACTAA
* * * ** * *
1681504 TAAACAATTCCGTATCACTAAATATATTCTAATAGCATGCGTGATCATCTCGTTCACAGATGGTT
1 TAAACAATTACG-ATCACTAAATCTATTCTAATAACATGCGTGATCATCTTATTCACCGATGGTG
** *
1681569 CAT-AAAACTATGTCAGTCCATATCGGTATTTTACTAA
65 CATAAAAACTATACCAGTCCATATCGGTATTTCACTAA
* * * ** *
1681606 TACACAATTACATATCACTAAATCTATTCTAACAACGCGAGTGATCATCTTATTCAC
1 TAAACAATTAC-GATCACTAAATCTATTCTAATAACATGCGTGATCATCTTATTCAC
1681663 TGATAGTGAA
Statistics
Matches: 280, Mismatches: 54, Indels: 42
0.74 0.14 0.11
Matches are distributed among these distances:
94 61 0.22
95 5 0.02
96 6 0.02
97 4 0.01
99 9 0.03
100 10 0.04
101 7 0.03
102 172 0.61
103 2 0.01
104 4 0.01
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (102 bp):
TAAACAATTACGATCACTAAATCTATTCTAATAACATGCGTGATCATCTTATTCACCGATGGTGC
ATAAAAACTATACCAGTCCATATCGGTATTTCACTAA
Found at i:1681551 original size:196 final size:196
Alignment explanation
Indices: 1681252--1681640 Score: 600
Period size: 196 Copynumber: 2.0 Consensus size: 196
1681242 GCGGGTGATA
* **
1681252 ATCTTATTCACCGATGGTGCATTGAATAACATACCACCATATCAGTATTTAACTCGTAAACAATT
1 ATCTTATTCACCGAAGGTGCATAAAATAACATACCACCATATCAGTATTTAACTCGTAAACAATT
* * * *
1681317 ACGAGTCACTAAATCTTTTCTAATAACATGCGTGATCATCTTGTTCACCGATGGTTCATAAAACT
66 ACGAGTCACTAAATATATTCTAATAACATGCGTGATCATCTCGTTCACAGATGGTTCATAAAACT
1681382 ATGCCAGTCCATATCGGTATTTCACTAATACACAATTACATATCACTAAATCTATTCTAACAAAT
131 ATGCCAGTCCATATCGGTATTTCACTAATACACAATTACATATCACTAAATCTATTCTAACAAAT
1681447 C
196 C
* * ** * * *
1681448 ATCTTATTCACTGAAGGTGCATAAAATAATATACCGTCGTATCGGTATTTCACTCGTAAACAATT
1 ATCTTATTCACCGAAGGTGCATAAAATAACATACCACCATATCAGTATTTAACTCGTAAACAATT
* *
1681513 CCGTA-TCACTAAATATATTCTAATAGCATGCGTGATCATCTCGTTCACAGATGGTTCATAAAAC
66 ACG-AGTCACTAAATATATTCTAATAACATGCGTGATCATCTCGTTCACAGATGGTTCATAAAAC
* *
1681577 TATGTCAGTCCATATCGGTATTTTACTAATACACAATTACATATCACTAAATCTATTCTAACAA
130 TATGCCAGTCCATATCGGTATTTCACTAATACACAATTACATATCACTAAATCTATTCTAACAA
1681641 CGCGAGTGAT
Statistics
Matches: 174, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
196 173 0.99
197 1 0.01
ACGTcount: A:0.35, C:0.21, G:0.11, T:0.33
Consensus pattern (196 bp):
ATCTTATTCACCGAAGGTGCATAAAATAACATACCACCATATCAGTATTTAACTCGTAAACAATT
ACGAGTCACTAAATATATTCTAATAACATGCGTGATCATCTCGTTCACAGATGGTTCATAAAACT
ATGCCAGTCCATATCGGTATTTCACTAATACACAATTACATATCACTAAATCTATTCTAACAAAT
C
Found at i:1696022 original size:18 final size:18
Alignment explanation
Indices: 1695984--1696060 Score: 109
Period size: 18 Copynumber: 4.2 Consensus size: 18
1695974 AAAAAATAAC
1695984 AAAGTATTTCTAATCATCAA
1 AAAGTATTTCTAATC--CAA
1696004 AAAGTATTTCTAATCCAA
1 AAAGTATTTCTAATCCAA
*
1696022 AAAGTATTTATAATCCAA
1 AAAGTATTTCTAATCCAA
* *
1696040 AGAGTATTTTTAATCCAA
1 AAAGTATTTCTAATCCAA
1696058 AAA
1 AAA
1696061 ACACATTATA
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
18 38 0.72
20 15 0.28
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (18 bp):
AAAGTATTTCTAATCCAA
Found at i:1697642 original size:17 final size:18
Alignment explanation
Indices: 1697617--1697669 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
1697607 GTGGATGAGT
*
1697617 CAACCGAAGGA-GATGAA
1 CAACCGAAGAAGGATGAA
*
1697634 CAACTGAAGAAGGATGAA
1 CAACCGAAGAAGGATGAA
* * *
1697652 CGACCAAAGGAGGATGAA
1 CAACCGAAGAAGGATGAA
1697670 TCGATTACAG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
17 9 0.31
18 20 0.69
ACGTcount: A:0.47, C:0.15, G:0.30, T:0.08
Consensus pattern (18 bp):
CAACCGAAGAAGGATGAA
Found at i:1714757 original size:29 final size:28
Alignment explanation
Indices: 1714694--1714788 Score: 84
Period size: 31 Copynumber: 3.3 Consensus size: 28
1714684 GGTATAATTG
* *
1714694 AAACGA-AAAATTAAAGTTTAATGCTAT
1 AAACGATAAAATTAAAGTTTAGTGGTAT
** *
1714721 AATTGATAAAATTGAAAGTTCAGTGGTAT
1 AAACGATAAAATT-AAAGTTTAGTGGTAT
* *
1714750 AAACGATACAACGTCTAAATTTTAGTGGTAT
1 AAACGATA-AA-AT-TAAAGTTTAGTGGTAT
1714781 AAACGATA
1 AAACGATA
1714789 CATTTTCCCT
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
27 4 0.08
28 6 0.11
29 18 0.34
30 2 0.04
31 22 0.42
32 1 0.02
ACGTcount: A:0.45, C:0.08, G:0.16, T:0.31
Consensus pattern (28 bp):
AAACGATAAAATTAAAGTTTAGTGGTAT
Found at i:1720069 original size:19 final size:19
Alignment explanation
Indices: 1720042--1720078 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1720032 TTTTCTTCAT
1720042 TTTGATTTTCAAAATCAAC
1 TTTGATTTTCAAAATCAAC
*
1720061 TTTGGTTTTCAAAATCAA
1 TTTGATTTTCAAAATCAA
1720079 ATCATTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.14, G:0.08, T:0.43
Consensus pattern (19 bp):
TTTGATTTTCAAAATCAAC
Found at i:1729214 original size:3 final size:3
Alignment explanation
Indices: 1729206--1729278 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
1729196 ATGAGCAATG
1729206 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1729254 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
1729279 AAAAAAAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1730487 original size:126 final size:126
Alignment explanation
Indices: 1730270--1730723 Score: 427
Period size: 126 Copynumber: 3.6 Consensus size: 126
1730260 TGTCGATCTC
* * * * * *
1730270 GATGGAAATGACAGGGTTGAAGTCATAGAATCGAAGAGACCTATTCGAATG--GCGAGTGAAACC
1 GATGGAAAGGACATGGTTGAAATCATAGAATCGAAGAAACCTATT-GAA-GAAACGAGCGAAACC
* * * *
1730333 GATGGAAACAGAAGCTCGTTAGCGAAAGGAGGAAGCGAAAACATCGATCAAGATTCTAGTGTT
64 GATGAAAACACAAGCTCGTTAACGAAAGGAGGAAGCGAAAAAATCGATCAAGATTCTAGTGTT
* *
1730396 GAT-GAGAAGGACATGGTTGAAATCATAGAATCGAAGAAACCTATTGAGGAAACAAGCGAAACCG
1 GATGGA-AAGGACATGGTTGAAATCATAGAATCGAAGAAACCTATTGAAGAAACGAGCGAAACCG
* * * * * * * * *
1730460 ATGAAAACACAGGCTTGTCAACTAAAGGAGGAGGTC-AACATATCGATCAAGATTATATATAATG
65 ATGAAAACACAAGCTCGTTAACGAAAGGAGGAAG-CGAAAAAATCGATCAAG---AT-TCTAGTG
1730524 TT
125 TT
* * * * * *
1730526 GATGGAAAGGACATGGTTAAAAGCATAGAATTGAAGAAATCTATTGAAGAAACTAGTGAAACCGA
1 GATGGAAAGGACATGGTTGAAATCATAGAATCGAAGAAACCTATTGAAGAAACGAGCGAAACCGA
* * * *
1730591 TGATAACACAATCTCATTAACGAAAGGA-GAAG-GCAAAAAAGTCGATGAAGATTCTAGTGTT
66 TGAAAACACAAGCTCGTTAACGAAAGGAGGAAGCG-AAAAAA-TCGATCAAGATTCTAGTGTT
* * * * * *
1730652 CATGGAAATCG-CATGGTTGAAATCATAGAATCCAAGAGACCTATTGAAGAAACGAGCAAAATCG
1 GATGGAAA-GGACATGGTTGAAATCATAGAATCGAAGAAACCTATTGAAGAAACGAGCGAAACCG
1730716 ATGAAAAC
65 ATGAAAAC
1730724 GAAAAATTAT
Statistics
Matches: 262, Mismatches: 53, Indels: 26
0.77 0.16 0.08
Matches are distributed among these distances:
124 1 0.00
125 4 0.02
126 151 0.58
127 4 0.02
129 9 0.03
130 91 0.35
131 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.24, T:0.20
Consensus pattern (126 bp):
GATGGAAAGGACATGGTTGAAATCATAGAATCGAAGAAACCTATTGAAGAAACGAGCGAAACCGA
TGAAAACACAAGCTCGTTAACGAAAGGAGGAAGCGAAAAAATCGATCAAGATTCTAGTGTT
Found at i:1730636 original size:130 final size:130
Alignment explanation
Indices: 1730392--1730723 Score: 311
Period size: 130 Copynumber: 2.6 Consensus size: 130
1730382 AAGATTCTAG
* * *
1730392 TGTTGATGAGAAGGACATGGTTGAAATCATAGAATCGAAGAAACCTATTGAGGAAACAAGCGAAA
1 TGTTGATGAGAAGGACATGGTTAAAAGCATAGAATCGAAGAAACCTATTGAAGAAACAAGCGAAA
* ** * * * *
1730457 CCGATGAAAACACAGGCTTGTCAACTAAAGGAGGAGGTCAACATATCGATCAAGATTATATATAA
66 CCGATGAAAACACAAGCTCATCAACGAAAGGAGAAGGTCAAAAAATCGATCAAGATTATATATAA
* * * *
1730522 TGTTGATG-GAAAGGACATGGTTAAAAGCATAGAATTGAAGAAATCTATTGAAGAAACTAGTGAA
1 TGTTGATGAG-AAGGACATGGTTAAAAGCATAGAATCGAAGAAACCTATTGAAGAAACAAGCGAA
* * * * *
1730586 ACCGATGATAACACAATCTCATTAACGAAAGGAGAAGG-CAAAAAAGTCGATGAAG---AT-TCT
65 ACCGATGAAAACACAAGCTCATCAACGAAAGGAGAAGGTCAAAAAA-TCGATCAAGATTATATAT
*
1730646 AG
129 AA
* * * * * * * *
1730648 TGTTCATG-GAAATCG-CATGGTTGAAATCATAGAATCCAAGAGACCTATTGAAGAAACGAGCAA
1 TGTTGATGAG-AA-GGACATGGTTAAAAGCATAGAATCGAAGAAACCTATTGAAGAAACAAGCGA
*
1730711 AATCGATGAAAAC
64 AACCGATGAAAAC
1730724 GAAAAATTAT
Statistics
Matches: 166, Mismatches: 33, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
126 64 0.39
127 3 0.02
129 6 0.04
130 93 0.56
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (130 bp):
TGTTGATGAGAAGGACATGGTTAAAAGCATAGAATCGAAGAAACCTATTGAAGAAACAAGCGAAA
CCGATGAAAACACAAGCTCATCAACGAAAGGAGAAGGTCAAAAAATCGATCAAGATTATATATAA
Found at i:1734597 original size:17 final size:17
Alignment explanation
Indices: 1734571--1734604 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
1734561 TACACGTTTT
*
1734571 GAAAATTTTATTTTAAA
1 GAAAAATTTATTTTAAA
1734588 GAAAAATTTATTTTAAA
1 GAAAAATTTATTTTAAA
1734605 TAATCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
GAAAAATTTATTTTAAA
Found at i:1747748 original size:2 final size:2
Alignment explanation
Indices: 1747741--1747776 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1747731 TATAATATTC
1747741 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1747777 TCAATTATGG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1749823 original size:31 final size:31
Alignment explanation
Indices: 1749761--1749842 Score: 112
Period size: 31 Copynumber: 2.7 Consensus size: 31
1749751 ACGAAATCTG
* *
1749761 TGTCCCGAAGAACATAGGT-AACTGTCCATA
1 TGTCCCGAAGGACATAGGTAAACTATCCATA
1749791 TGTCCCGAAGGACATAGGTAAACTATCCATA
1 TGTCCCGAAGGACATAGGTAAACTATCCATA
* * *
1749822 TGTCTCGAAAGACATAAGTAA
1 TGTCCCGAAGGACATAGGTAA
1749843 CCCTCAACTC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 18 0.39
31 28 0.61
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.23
Consensus pattern (31 bp):
TGTCCCGAAGGACATAGGTAAACTATCCATA
Found at i:1757655 original size:24 final size:22
Alignment explanation
Indices: 1757614--1757692 Score: 71
Period size: 24 Copynumber: 3.7 Consensus size: 22
1757604 GAATGCAATT
1757614 AGTGCATCGATGCA---TAAGG
1 AGTGCATCGATGCACTGTAAGG
1757633 AGTGCATCGATGCACATGTTAAGG
1 AGTGCATCGATGCAC-TG-TAAGG
*
1757657 -GATGCATCGATACACTGT-A-G
1 AG-TGCATCGATGCACTGTAAGG
*
1757677 AATGCATCGATGCACT
1 AGTGCATCGATGCACT
1757693 TCAAGGGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
19 14 0.28
20 14 0.28
21 1 0.02
22 1 0.02
23 3 0.06
24 17 0.34
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (22 bp):
AGTGCATCGATGCACTGTAAGG
Found at i:1761468 original size:16 final size:17
Alignment explanation
Indices: 1761435--1761468 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1761425 CCTTTTATTT
*
1761435 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
1761452 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
1761468 T
1 T
1761469 GTCATCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:1761517 original size:30 final size:29
Alignment explanation
Indices: 1761464--1761522 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
1761454 ATTTTTATAT
1761464 TAAATGTCATCATATGAAAATAATAATAA
1 TAAATGTCATCATATGAAAATAATAATAA
1761493 TAAATGTCACATCATATG-AAATAATAATAA
1 TAAATGT--CATCATATGAAAATAATAATAA
1761523 AATAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.25
30 12 0.43
31 9 0.32
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (29 bp):
TAAATGTCATCATATGAAAATAATAATAA
Found at i:1762327 original size:2 final size:2
Alignment explanation
Indices: 1762320--1762374 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
1762310 TTAATGGTTA
1762320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1762362 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
1762375 GGGTTGGTCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1762848 original size:2 final size:2
Alignment explanation
Indices: 1762841--1762868 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1762831 TTATCCGATA
1762841 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1762869 GAATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1769386 original size:3 final size:3
Alignment explanation
Indices: 1769378--1769402 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
1769368 GAATTGGGTT
1769378 TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG T
1769403 GGGATTGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:1776604 original size:35 final size:35
Alignment explanation
Indices: 1776558--1776633 Score: 134
Period size: 35 Copynumber: 2.2 Consensus size: 35
1776548 AAAACAGTCC
* *
1776558 TCAATTTCATTCTAAACCCTAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1776593 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1776628 TCAATT
1 TCAATT
1776634 AAATTCAATT
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:0.39, C:0.22, G:0.01, T:0.37
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:1777183 original size:130 final size:130
Alignment explanation
Indices: 1777032--1777277 Score: 411
Period size: 130 Copynumber: 1.9 Consensus size: 130
1777022 TTTATATAAG
* * **
1777032 CAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTT
1 CAATTTGGTCCCAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTT
* *
1777097 AGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTAT
66 AACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTAT
1777162 CAATTTGGTCCCAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTT
1 CAATTTGGTCCCAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTT
* * *
1777227 AACACATGATCATGATATATGTTATTGGTGACACATGTCACCACCTAATTA
66 AACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTA
1777278 GAAGAAAATT
Statistics
Matches: 107, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 107 1.00
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.35
Consensus pattern (130 bp):
CAATTTGGTCCCAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTT
AACACATGATCATGACACATGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTAT
Found at i:1777308 original size:130 final size:129
Alignment explanation
Indices: 1777044--1777308 Score: 309
Period size: 130 Copynumber: 2.0 Consensus size: 129
1777034 ATTTGGTCCT
* ** *
1777044 AAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTGTTAGCACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* *** * * **** *
1777109 TGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATATATGCTATCAATTTGGTCCC
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGT-CA
1777174 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
1 AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
* * * *
1777239 TGATATATGTTATTGGTGACACATGTCACCACCTAATTAGAAGAAAATTAAGTTA-CAAAGAAGT
66 TGACACATGTCATTGGTGACACATGTCACCACCTAATT--AAGAAAA-TAAGCTATCAAAGAAGT
1777303 -A
128 CA
1777304 AAATT
1 AAATT
1777309 TGGGTCTTGG
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
130 100 0.88
132 8 0.07
133 5 0.04
ACGTcount: A:0.40, C:0.14, G:0.13, T:0.33
Consensus pattern (129 bp):
AAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTGTTAACACATGATCA
TGACACATGTCATTGGTGACACATGTCACCACCTAATTAAGAAAATAAGCTATCAAAGAAGTCA
Found at i:1777631 original size:28 final size:27
Alignment explanation
Indices: 1777600--1777662 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
1777590 AGTTGATACA
*
1777600 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
1777628 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
1777656 ATATTTT
1 ATATTTT
1777663 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:1777762 original size:15 final size:16
Alignment explanation
Indices: 1777738--1777774 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1777728 TTTAATTTCT
1777738 TATT-AAAAATA-AAA
1 TATTCAAAAATATAAA
1777752 TATTCAAAAATATAAA
1 TATTCAAAAATATAAA
1777768 TGATTCA
1 T-ATTCA
1777775 TACATTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 4 0.20
15 7 0.35
16 4 0.20
17 5 0.25
ACGTcount: A:0.59, C:0.05, G:0.03, T:0.32
Consensus pattern (16 bp):
TATTCAAAAATATAAA
Found at i:1779688 original size:30 final size:30
Alignment explanation
Indices: 1779653--1779803 Score: 185
Period size: 30 Copynumber: 4.9 Consensus size: 30
1779643 GAATGACATA
* * *
1779653 TCCATATGTTCCGAAGAACATAGGTAGCTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
* *
1779683 TCCATATGTCCCGATGGATATAGGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
* *
1779713 TCCATATATCCCAAAGGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGGACATAGGTAA--CTG
*
1779745 TCCATATGTCCCGAAGGACATAGGTAAACTA
1 TCCATATGTCCCGAAGGACATAGGT-AACTG
* *
1779776 TCCATATGTCTCGAAAGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
1779804 CCTCGACTCT
Statistics
Matches: 104, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
30 51 0.49
31 25 0.24
32 26 0.25
33 2 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:1779757 original size:62 final size:63
Alignment explanation
Indices: 1779651--1779802 Score: 179
Period size: 62 Copynumber: 2.5 Consensus size: 63
1779641 CCGAATGACA
* * * * *
1779651 TATCCATATGT-TCCGAAGAACATAGGT-A-GCTGTCCATATGTCCCGATGGATATAGGT-AAC
1 TATCCATATATCTCCAAAG-ACATAGGTAATCCTGTCCATATGTCCCGAAGGACATAGGTAAAC
*
1779711 TGTCCATATATC-CCAAAGGACATAGGTAATCCTGTCCATATGTCCCGAAGGACATAGGTAAAC
1 TATCCATATATCTCCAAA-GACATAGGTAATCCTGTCCATATGTCCCGAAGGACATAGGTAAAC
* *
1779774 TATCCATATGTCTCGAAAGACATAGGTAA
1 TATCCATATATCTCCAAAGACATAGGTAA
1779803 CCCTCGACTC
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
60 21 0.27
61 2 0.03
62 26 0.34
63 24 0.31
64 4 0.05
ACGTcount: A:0.33, C:0.21, G:0.20, T:0.26
Consensus pattern (63 bp):
TATCCATATATCTCCAAAGACATAGGTAATCCTGTCCATATGTCCCGAAGGACATAGGTAAAC
Found at i:1789579 original size:16 final size:17
Alignment explanation
Indices: 1789546--1789579 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1789536 CCTTTTATTT
*
1789546 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
1789563 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
1789579 T
1 T
1789580 GTCATCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:1789628 original size:30 final size:29
Alignment explanation
Indices: 1789575--1789633 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
1789565 ATTTTTATAT
1789575 TAAATGTCATCATATGAAAATAATAATAA
1 TAAATGTCATCATATGAAAATAATAATAA
1789604 TAAATGTCATATCATATG-AAATAATAATAA
1 TAAATGTC--ATCATATGAAAATAATAATAA
1789634 AATAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 8 0.29
30 12 0.43
31 8 0.29
ACGTcount: A:0.54, C:0.07, G:0.07, T:0.32
Consensus pattern (29 bp):
TAAATGTCATCATATGAAAATAATAATAA
Found at i:1790440 original size:2 final size:2
Alignment explanation
Indices: 1790433--1790485 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1790423 TTAATGGTTA
1790433 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1790475 AT AT AT AT AT A
1 AT AT AT AT AT A
1790486 GGGTTGGTCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1790959 original size:2 final size:2
Alignment explanation
Indices: 1790952--1790983 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1790942 TTATCCGATA
1790952 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1790984 GAATAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1800664 original size:30 final size:30
Alignment explanation
Indices: 1800629--1800780 Score: 178
Period size: 30 Copynumber: 4.9 Consensus size: 30
1800619 GAAGGACATA
* *
1800629 TCCATATGTTCCGAAGAACATAGGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
1800659 TCCATATGTCCCGAAGGACATAGGTAACTG
1 TCCATATGTCCCGAAGGACATAGGTAACTG
* * *
1800689 TCCATATATCCCCAAAGGACATAGTTAATCCTG
1 TCCATATGT-CCCGAAGGACATAGGTAA--CTG
*
1800722 TCCATATGTCCCGAAGGACATAGGTAAACTA
1 TCCATATGTCCCGAAGGACATAGGT-AACTG
** * *
1800753 TTTATATGTCTCGAAAGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
1800781 CCTCGACTCT
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
30 39 0.37
31 39 0.37
32 14 0.13
33 13 0.12
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:1810076 original size:16 final size:17
Alignment explanation
Indices: 1810043--1810076 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
1810033 CCTTTTATTT
*
1810043 TTATTTTATATTTTAAA
1 TTATTTTATATATTAAA
1810060 TTATTTT-TATATTAAA
1 TTATTTTATATATTAAA
1810076 T
1 T
1810077 GTCATCATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTTTATATATTAAA
Found at i:1810125 original size:30 final size:29
Alignment explanation
Indices: 1810072--1810130 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 29
1810062 ATTTTTATAT
1810072 TAAATGTCATCATATGAAAATAATAATAA
1 TAAATGTCATCATATGAAAATAATAATAA
1810101 TAAATGTCACATCATATG-AAATAATAATAA
1 TAAATGT--CATCATATGAAAATAATAATAA
1810131 AATAATTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 7 0.25
30 12 0.43
31 9 0.32
ACGTcount: A:0.54, C:0.08, G:0.07, T:0.31
Consensus pattern (29 bp):
TAAATGTCATCATATGAAAATAATAATAA
Found at i:1810937 original size:2 final size:2
Alignment explanation
Indices: 1810930--1810982 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
1810920 TTAATGGTTA
1810930 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1810972 AT AT AT AT AT A
1 AT AT AT AT AT A
1810983 GGGTTGGTCC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1811454 original size:2 final size:2
Alignment explanation
Indices: 1811447--1811478 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1811437 TTATCCGATA
1811447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1811479 GAATAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Done.