Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 213 of 325
Found at i:69400531 original size:55 final size:54
Alignment explanation
Indices: 69400427--69400678 Score: 241
Period size: 55 Copynumber: 4.7 Consensus size: 54
69400417 GGGTTTAAGA
* * *
69400427 ATACCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTT-TCTAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGG-CATTGGTAA-GTTCTATAAGGCAAGG
* *
69400482 ATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTT-CTATAAGGC-AAGG
* * * *
69400538 -TCCCATGTAAGAGCATGCCAAGGCATGGCATTGGTGAGTTC-ATAAGGCAAGG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGG
* * * *
69400590 ATACCATGTAAAGACCATGTCGAGACATGGCAATGGTAAGTT-T-CAA---AAGG
1 ATACCATGT-AAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGG
* * * * *
69400640 ATACCACGTAAGACCATGACAAGTCATGGAAATGGTAAG
1 ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAG
69400679 GTACCCGTGT
Statistics
Matches: 167, Mismatches: 24, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
49 26 0.16
50 12 0.07
52 4 0.02
53 19 0.11
54 34 0.20
55 68 0.41
56 4 0.02
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
ATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGTTCTATAAGGCAAGG
Found at i:69400630 original size:109 final size:110
Alignment explanation
Indices: 69400430--69400631 Score: 311
Period size: 109 Copynumber: 1.8 Consensus size: 110
69400420 TTTAAGAATA
69400430 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
*
69400495 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
* * *
69400540 CCATGTAAGAGCATGCCAAGGCATGG-CATTGGTGA-G-TTCATAAGGCAAGGATACCATGTAAA
1 CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTC-TAAGGCAAGGATACCATGT-AA
* *
69400602 GACCATGTCGAGACATGGCAATGGTAAGTT
64 GACCATGTCAAGACATGGCAATGATAAGTT
69400632 TCAAAAGGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
107 3 0.04
108 20 0.24
109 36 0.43
110 25 0.30
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGGAAATTGGTAAGGTTTCTAAGGCAAGGATACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGGCAAAGGTC
Found at i:69405024 original size:28 final size:29
Alignment explanation
Indices: 69404973--69405028 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
69404963 TACAGGGGTT
*
69404973 TTCACACAGCCTAGAACACTCCCGTGTCC
1 TTCACACAGCCTAGAACACGCCCGTGTCC
* *
69405002 TTCACACGGCC-AGGACACGCCCGTGTC
1 TTCACACAGCCTAGAACACGCCCGTGTC
69405029 TTAGTCCGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 14 0.58
29 10 0.42
ACGTcount: A:0.21, C:0.41, G:0.20, T:0.18
Consensus pattern (29 bp):
TTCACACAGCCTAGAACACGCCCGTGTCC
Found at i:69408658 original size:18 final size:19
Alignment explanation
Indices: 69408637--69408678 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
69408627 TTTAAGGTTA
* *
69408637 TTTTAATTT-TTTTAATGC
1 TTTTAATTTGTGTAAATGC
69408655 TTTT-ATTTGTGTAAATGC
1 TTTTAATTTGTGTAAATGC
69408673 TTTTAA
1 TTTTAA
69408679 GGTATTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 15 0.75
19 1 0.05
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (19 bp):
TTTTAATTTGTGTAAATGC
Found at i:69411168 original size:47 final size:47
Alignment explanation
Indices: 69411112--69411219 Score: 216
Period size: 47 Copynumber: 2.3 Consensus size: 47
69411102 TATACTCAAG
69411112 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
1 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
69411159 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
1 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
69411206 ATAGATAAAATCTA
1 ATAGATAAAATCTA
69411220 TGTGGATTCT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 61 1.00
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.28
Consensus pattern (47 bp):
ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
Found at i:69415338 original size:19 final size:18
Alignment explanation
Indices: 69415302--69415340 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
69415292 TGAAATAATT
* *
69415302 TGGAAATGAAAATGGAAA
1 TGGAAAAGAAAAAGGAAA
69415320 TGGAAAAGAAAAAGAGAAA
1 TGGAAAAGAAAAAG-GAAA
69415339 TG
1 TG
69415341 ATTCATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (18 bp):
TGGAAAAGAAAAAGGAAA
Found at i:69418711 original size:42 final size:42
Alignment explanation
Indices: 69418615--69418730 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 42
69418605 GCTGAGATCC
* * *
69418615 CGTATAAGACCATATCTGGGATATGGCATTGATATAAGATTT
1 CGTATAAGACCATATCTGGGATATGGCATCGAAATAAGAATT
* * * * * * *
69418657 TGTGTAAAACCATGTCTAGGACATGGCGTCGAAATAAGAATT
1 CGTATAAGACCATATCTGGGATATGGCATCGAAATAAGAATT
69418699 CGTATAAGACCATATCTGGGATATGGCATCGA
1 CGTATAAGACCATATCTGGGATATGGCATCGA
69418731 TGTGAGATCC
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (42 bp):
CGTATAAGACCATATCTGGGATATGGCATCGAAATAAGAATT
Found at i:69426265 original size:85 final size:85
Alignment explanation
Indices: 69426122--69426296 Score: 323
Period size: 85 Copynumber: 2.1 Consensus size: 85
69426112 ATGAATATTC
* *
69426122 TTGATGTTGTTCGATAAAGATTTGAGGTGATAAAAGCCGGTTGGACCTTAGGAATACTTAGGGTA
1 TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGCCGGTTGGACCTTAGAAATACTTAGGGTA
69426187 TAAAAATTAAGACATTTGGG
66 TAAAAATTAAGACATTTGGG
*
69426207 TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGTCGGTTGGACCTTAGAAATACTTAGGGTA
1 TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGCCGGTTGGACCTTAGAAATACTTAGGGTA
69426272 TAAAAATTAAGACATTTGGG
66 TAAAAATTAAGACATTTGGG
69426292 TTGAT
1 TTGAT
69426297 GAGATCCCGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
85 87 1.00
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.33
Consensus pattern (85 bp):
TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGCCGGTTGGACCTTAGAAATACTTAGGGTA
TAAAAATTAAGACATTTGGG
Found at i:69426400 original size:42 final size:42
Alignment explanation
Indices: 69426308--69426506 Score: 182
Period size: 42 Copynumber: 4.6 Consensus size: 42
69426298 AGATCCCGTA
*
69426308 TAAGACCATATCTGGGATATGGCATCGGCATTAGTATGAGTTATCATG
1 TAAGACCATATCTGGGATATGGCATC-G-A-TA-TAAGA-TT-TCATG
* **
69426356 TAAGACCATATCTGGGATATGGCATTGATATAAGATTTTGTG
1 TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
* ** * * * * *
69426398 TAAGACCATATCTGGGACATGGTGTCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
* * *
69426440 TAAGACCATATCTGGGATATGGCATCGATGTGAGATCTCATG
1 TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
* * *
69426482 TAAGTCCATGTCTGGGACATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
69426507 TGGCATCTTA
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
42 91 0.72
43 2 0.02
44 4 0.03
45 2 0.02
46 1 0.01
47 1 0.01
48 25 0.20
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
Found at i:69429643 original size:22 final size:22
Alignment explanation
Indices: 69429618--69429663 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
69429608 ATCTATATGT
*
69429618 ATTCAAAATTAAT-CACCAACAC
1 ATTC-AAATTAATACACAAACAC
*
69429640 ATTCAATTTAATACACAAACAC
1 ATTCAAATTAATACACAAACAC
69429662 AT
1 AT
69429664 CTTTGGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
ATTCAAATTAATACACAAACAC
Found at i:69431799 original size:12 final size:13
Alignment explanation
Indices: 69431784--69431812 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
69431774 CAAAACTTTC
69431784 ACACATACT-TAA
1 ACACATACTGTAA
69431796 ACACATACTGTAA
1 ACACATACTGTAA
69431809 ACAC
1 ACAC
69431813 GAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (13 bp):
ACACATACTGTAA
Found at i:69438063 original size:27 final size:26
Alignment explanation
Indices: 69438033--69438208 Score: 163
Period size: 27 Copynumber: 6.5 Consensus size: 26
69438023 AATTGTACAG
69438033 CACTAAGTGTGCGATTTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
** * *
69438060 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCGATTTGACTATG-TA
* * **
69438087 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
69438114 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
69438141 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
69438168 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
69438195 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
69438209 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:69438092 original size:54 final size:54
Alignment explanation
Indices: 69438031--69438208 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 54
69438021 TAAATTGTAC
*
69438031 AGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGAATTGAATATGAT
* * ** * *
69438086 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGA-ATTGAATATGAT
* * * *
69438140 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTA-CACTAAGTGTGCGAATTGAATATGAT
*
69438194 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69438209 GACTCAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
54 60 0.59
55 42 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTACACTAAGTGTGCGAATTGAATATGAT
Found at i:69438146 original size:82 final size:81
Alignment explanation
Indices: 69438032--69438187 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
69438022 AAATTGTACA
*
69438032 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
69438096 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69438113 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
69438177 GTGCGAGTTGA
64 GTGCGAATTGA
69438188 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 49 0.73
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69438199 original size:82 final size:81
Alignment explanation
Indices: 69438028--69438208 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
69438018 GATTAAATTG
*
69438028 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
69438093 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69438109 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
69438172 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
69438191 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69438209 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69445397 original size:46 final size:47
Alignment explanation
Indices: 69445345--69445658 Score: 168
Period size: 46 Copynumber: 6.7 Consensus size: 47
69445335 TCATTCGTGT
69445345 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CACATTATGA
**
69445391 GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-G-GGCATTGA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACATT-ATGA
* * * * * * *
69445436 CAAGTGTAGAGTAAGA-CATGTCTCGGACAT-GCATC-A-ACCTCAAGA
1 -GAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGACACATTATGA
* * * * *
69445481 CGTAAGCCAATATAAGA-CATGTCTGGGACAT-GCATCGAC-TA-TAAGA
1 -G--AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACATTATGA
* * * *
69445527 TGTGCTAGTGTAAGACCATGTCTGGGACATGGAATTGGCACAATTATGTGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-ATTA--TGA
* * * * **
69445578 GAGATAATGTAAGACCATGTCTGGGACATGGCATCAGCCTCGAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACAC-ATTATGA
* * * *
69445627 TAGCCAATGTAAGACCATGTTTGGGACATGGC
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGC
69445659 GTCGGCACTT
Statistics
Matches: 205, Mismatches: 43, Indels: 37
0.72 0.15 0.13
Matches are distributed among these distances:
44 10 0.05
45 29 0.14
46 64 0.31
47 27 0.13
48 5 0.02
49 33 0.16
50 30 0.15
51 7 0.03
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACACATTATGA
Found at i:69455540 original size:65 final size:66
Alignment explanation
Indices: 69455400--69455556 Score: 205
Period size: 65 Copynumber: 2.4 Consensus size: 66
69455390 TATCATGTGT
* * *
69455400 ACAAGA-AGGCTACGAGATGCTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGA-GATAAAT-GTAGCTAGGTCACATGTGTGATACGGGAAGTATCCCAT
69455464 GTAG
63 GTAG
*
69455468 ACAAGAGAGCTATGTGAGAGATAAATGTAG-TAGGTCACATGTGTGAT-CGGGAAGTA-CCCATG
1 ACAAGAGAGCTA--CGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGAAGTATCCCATG
69455530 TAG
64 TAG
69455533 ACAAGAGAGCTACGAGAGATAAAT
1 ACAAGAGAGCTACGAGAGATAAAT
69455557 CGGCTAGGTC
Statistics
Matches: 81, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
63 11 0.14
65 21 0.26
66 8 0.10
67 17 0.21
68 14 0.17
69 6 0.07
70 4 0.05
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (66 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGAAGTATCCCATGTA
G
Found at i:69463346 original size:50 final size:49
Alignment explanation
Indices: 69463095--69463413 Score: 240
Period size: 46 Copynumber: 6.7 Consensus size: 49
69463085 TCATTTGTGT
* * ** *
69463095 GAGCTAGTGTTAGA-CATGTCTGGGACAT-GCATCGGCCA-C-ATTATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCGAAGATGA
* * *
69463141 GAGCCAGTGTAAGACTATGTCTGGGACATGGCATCGGCATTG-AGACGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGA
* * * * *
69463189 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCTCG-GGAT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGA
* * *
69463234 TAAGCCAGTATAAGA-CATGTTTGGGACAT-GCATCGGC-TACG-AGAT--
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAAGATGA
* * * * *
69463279 GTGTCAGTGTAAGACCATGTCTGCGACATGGCATCGGCATGGTTATG-TGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG--AAGATGA
* * *
69463329 GAGCTAGTGTAAGACCATTTCTGGGACATGGCATCGGCCTCGAAGATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGA
*
69463378 TAGCCAGTGTAA-AGCCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGA-CCATGTCTGGGACATGGCATCG
69463414 ACACTTTACC
Statistics
Matches: 215, Mismatches: 42, Indels: 29
0.75 0.15 0.10
Matches are distributed among these distances:
44 10 0.05
45 14 0.07
46 67 0.31
47 29 0.13
48 25 0.12
49 35 0.16
50 35 0.16
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.24
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAAGATGA
Found at i:69469653 original size:27 final size:27
Alignment explanation
Indices: 69469601--69469654 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
69469591 ATTTTTGTTA
*
69469601 AGTTATAAATTATAAATATATTATTTT
1 AGTTATAAATTATAAATAAATTATTTT
* *
69469628 AGTTATAAATTAT-ATTAAATTAATTT
1 AGTTATAAATTATAAATAAATTATTTT
69469654 A
1 A
69469655 AAATAATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (27 bp):
AGTTATAAATTATAAATAAATTATTTT
Found at i:69469986 original size:21 final size:21
Alignment explanation
Indices: 69469957--69469997 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
69469947 ATTTTATTTA
* *
69469957 ATTAGTAAATATATATTTATT
1 ATTAGTAAAAAAATATTTATT
*
69469978 ATTATTAAAAAAATATTTAT
1 ATTAGTAAAAAAATATTTAT
69469998 GAGATAAATA
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:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTAGTAAAAAAATATTTATT
Found at i:69471039 original size:33 final size:33
Alignment explanation
Indices: 69470996--69471072 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
69470986 ATGGATAAGT
* *
69470996 ATTGATATTGAATTGTATATTAA-TGAAAAGTGAA
1 ATTGA-ATTGAATTGTAAATGAATTG-AAAGTGAA
* *
69471030 ATTGAATTGATTTGTAAATGAATTGAAAGTGAT
1 ATTGAATTGAATTGTAAATGAATTGAAAGTGAA
69471063 ATTGAATTGA
1 ATTGAATTGA
69471073 GAAAATGAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 31 0.82
34 7 0.18
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (33 bp):
ATTGAATTGAATTGTAAATGAATTGAAAGTGAA
Found at i:69476832 original size:39 final size:39
Alignment explanation
Indices: 69476642--69476835 Score: 289
Period size: 39 Copynumber: 5.0 Consensus size: 39
69476632 TTCAAGACGC
* **
69476642 TGGAAATGTATCCGGGCTAAAGTACCGCAGGCTTCATGT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGT
* **
69476681 TGGAAATGTATCCGGGCTAAAGTCCCACAGGCTTCCTGT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGT
* * *
69476720 TGGAAGTGTATCCAGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGT
69476759 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGT
* *
69476798 TGGAAATGTATCCGGGCTAAAGACCCGCAAGCTTTGTG
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
69476836 CTGGTAATAT
Statistics
Matches: 141, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 141 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGT
Found at i:69480391 original size:55 final size:55
Alignment explanation
Indices: 69480315--69480419 Score: 131
Period size: 55 Copynumber: 1.9 Consensus size: 55
69480305 CGTGCCCGTA
* * * *
69480315 GCCCGTGTGCAACACTGACTTTAAAACATGGA-CATGGCGCACGCCCGTGTGGCCT
1 GCCCGTGTACAACACTAACTTTAAAACA-CGACCATGGCACACGCCCGTGTGGCCT
* * *
69480370 GCCCGTGTACAATACTAACTTTAATACACGACCATGGCATACGCCCGTGT
1 GCCCGTGTACAACACTAACTTTAAAACACGACCATGGCACACGCCCGTGT
69480420 ACAACAATGA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 2 0.05
55 40 0.95
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (55 bp):
GCCCGTGTACAACACTAACTTTAAAACACGACCATGGCACACGCCCGTGTGGCCT
Found at i:69485002 original size:27 final size:28
Alignment explanation
Indices: 69484971--69485032 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
69484961 ACAGGGTTAG
* *
69484971 CACATAT-GGTTCGCACCTAGTGGTTGTT
1 CACATATGGGTTCGCACCCAGAGGTT-TT
*
69484999 -ACATATGGGTTTGCACCCAGAGGTTTT
1 CACATATGGGTTCGCACCCAGAGGTTTT
69485026 CACATAT
1 CACATAT
69485033 ATGGGTTTGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 8 0.28
28 21 0.72
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.34
Consensus pattern (28 bp):
CACATATGGGTTCGCACCCAGAGGTTTT
Found at i:69487280 original size:55 final size:56
Alignment explanation
Indices: 69487215--69487329 Score: 130
Period size: 55 Copynumber: 2.1 Consensus size: 56
69487205 AACCTGGCTG
* * *
69487215 CCAGATACAGA-AAATGTGAC-AGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAAG-GCCACCAGA-ACAGATACTTTGTGGCA-TAGCCA
* *
69487271 CCAGA-ACAGATATACGTGGCAAGGCCACCAGAACAGATACTTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAAGGCCACCAGAACAGATACTTTGTGGCATAGCCA
69487326 CCAG
1 CCAG
69487330 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 19 0.37
57 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAAGGCCACCAGAACAGATACTTTGTGGCATAGCCA
Found at i:69487326 original size:28 final size:27
Alignment explanation
Indices: 69487240--69487329 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 27
69487230 GTGACAGAGT
69487240 CACCAGATACAGATATTTTGTGGCAGT-GC
1 CACCAGA-ACAGATA-TTTGTGGCA-TAGC
**
69487269 CACCAGAACAGATATACGTGGCA-AGGC
1 CACCAGAACAGATATTTGTGGCATA-GC
69487296 CACCAGAACAGATACTTTGTGGCATAGC
1 CACCAGAACAGATA-TTTGTGGCATAGC
69487324 CACCAG
1 CACCAG
69487330 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
27 23 0.43
28 22 0.42
29 8 0.15
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCATAGC
Found at i:69487482 original size:28 final size:28
Alignment explanation
Indices: 69487435--69487499 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
69487425 AAATTAACCC
*
69487435 TAGGGGTATAAAGGTCATTTTGCACACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
* *
69487463 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCACACA
69487491 TAGGGGTAT
1 TAGGGGTAT
69487500 TCTAGTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.09, G:0.28, T:0.32
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCACACA
Found at i:69488586 original size:12 final size:13
Alignment explanation
Indices: 69488567--69488599 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
69488557 GGGTTCGGCT
69488567 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
69488580 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
69488592 ATGGAGAA
1 ATGGAGAA
69488600 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:69491335 original size:40 final size:40
Alignment explanation
Indices: 69491098--69491344 Score: 247
Period size: 40 Copynumber: 6.2 Consensus size: 40
69491088 CGGATGATAA
*
69491098 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGACTATA-T
*
69491138 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCTAGTGACTATA-T
* * * * *
69491178 TCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCT-ATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAG-TGACTATAT
* * * *
69491218 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTATAT
* * * *
69491257 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTATAT
* *
69491297 CCAGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTATAT
69491337 CC-GGCTAA
1 CCGGGCTAA
69491345 ACTCCGAAGG
Statistics
Matches: 186, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
39 44 0.24
40 138 0.74
41 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGACTATAT
Found at i:69491354 original size:79 final size:79
Alignment explanation
Indices: 69491141--69491344 Score: 250
Period size: 79 Copynumber: 2.6 Consensus size: 79
69491131 GCTAATTCCG
* * *
69491141 GGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAATTTCGGGCTAAGTCCCGAAGGCGTTTGTG
1 GGCTAAGTCCCGAAG-GCATTTGAGCTAGTGGCT-ATATCCGGCTAAGTCCCGAAGGCATTTGTG
* * * *
69491205 CGAGCTATTATATCCG
64 CAAGCTACTATAACCA
* * ***
69491221 GGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTGTGC
1 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAAGTCCCGAAGGCATTTGTGC
*
69491285 AAGTTACTATAACCA
65 AAGCTACTATAACCA
69491300 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
1 GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAA
69491345 ACTCCGAAGG
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
78 1 0.01
79 73 0.71
80 27 0.26
81 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
GGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCCGGCTAAGTCCCGAAGGCATTTGTGCA
AGCTACTATAACCA
Found at i:69498413 original size:55 final size:56
Alignment explanation
Indices: 69498348--69498462 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
69498338 AGCATGGCTG
* * *
69498348 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
69498404 CCAGA-ACAGATATACGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
69498459 CCAG
1 CCAG
69498463 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.57
56 21 0.41
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (56 bp):
CCAGATACAGATAAACGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:69498459 original size:28 final size:27
Alignment explanation
Indices: 69498373--69498462 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
69498363 GTGACAGAGT
*
69498373 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCA-TGC
** *
69498402 CACCAGAACAGAT-ATACGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCA-TGC
69498429 CACCAGAACAGATAATTTGTGGCATAGC
1 CACCAGAACAGATAATTTGTGGCAT-GC
69498457 CACCAG
1 CACCAG
69498463 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
27 23 0.44
28 22 0.42
29 7 0.13
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
CACCAGAACAGATAATTTGTGGCATGC
Found at i:69498615 original size:28 final size:28
Alignment explanation
Indices: 69498568--69498632 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
69498558 AAATTAACCC
*
69498568 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
69498596 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
69498624 TAGGGGTAT
1 TAGGGGTAT
69498633 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.31, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:69499713 original size:12 final size:13
Alignment explanation
Indices: 69499694--69499726 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
69499684 GGGTTCGGCT
69499694 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
69499707 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
69499719 ATGGAGAA
1 ATGGAGAA
69499727 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:69500711 original size:35 final size:35
Alignment explanation
Indices: 69500672--69500804 Score: 135
Period size: 35 Copynumber: 3.8 Consensus size: 35
69500662 AAGTTATGAC
*
69500672 ACGTAGGTATGGTATTATCCATACTGAGCTATAAT
1 ACGTAGGTATGATATTATCCATACTGAGCTATAAT
*
69500707 ACGTAGGTATGATATTATCCATACTAAGCTATAAT
1 ACGTAGGTATGATATTATCCATACTGAGCTATAAT
* ** * * *
69500742 ATGTAGGTACAATATT-TCCTATACCGAGTTGTGAA-
1 ACGTAGGTATGATATTATCC-ATACTGAGCTAT-AAT
* * *
69500777 ACGTAGGTATGGTATTAACCATATTGAG
1 ACGTAGGTATGATATTATCCATACTGAG
69500805 TTGTGAATCA
Statistics
Matches: 79, Mismatches: 16, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
34 3 0.04
35 72 0.91
36 4 0.05
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.34
Consensus pattern (35 bp):
ACGTAGGTATGATATTATCCATACTGAGCTATAAT
Found at i:69502031 original size:28 final size:28
Alignment explanation
Indices: 69501960--69502031 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 28
69501950 GGTGTTACAG
* * *
69501960 TTCGTATACAGAGGCTCGCCTATAGGGG
1 TTCGCATACAGAGGCTCACCTATAGGGC
* * *
69501988 TTCACATATAGAGGCTCACTTATAGGGC
1 TTCGCATACAGAGGCTCACCTATAGGGC
*
69502016 TTCGCATACAGGGGCT
1 TTCGCATACAGAGGCT
69502032 TACATGTAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (28 bp):
TTCGCATACAGAGGCTCACCTATAGGGC
Found at i:69503417 original size:39 final size:39
Alignment explanation
Indices: 69503365--69503526 Score: 225
Period size: 39 Copynumber: 4.2 Consensus size: 39
69503355 GACTTTAGCT
* * * *
69503365 CGGACATATTTCCAGCACGTAGCCTGCGGACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
* * * *
69503404 CGGTTATAATTCCAGCATATAGCCTGCGAACCTTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
*
69503443 CAGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
*
69503482 CGGATATAATTCTAGCACATAGCCTGCGGACCCTAAGTC
1 CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
*
69503521 TGGATA
1 CGGATA
69503527 AACATCACTG
Statistics
Matches: 109, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 109 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (39 bp):
CGGATATAATTCCAGCACATAGCCTGCGGACCCTAAGTC
Found at i:69510368 original size:27 final size:27
Alignment explanation
Indices: 69510338--69510521 Score: 163
Period size: 27 Copynumber: 6.8 Consensus size: 27
69510328 TACTGAAATG
* * **
69510338 CCCTCAATTTGTAAAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* *
69510365 CCCTCAATTTA-AAGAATTACCGTTTTA
1 CCCTCGATTTATAA-AATTACCATTTTA
69510392 CCCTCGATTTATAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
*
69510419 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * ***
69510446 CACTCGATTTACAAAATTACTAAAATA
1 CCCTCGATTTATAAAATTACCATTTTA
* * * ***
69510473 CCCTTGGTTTACAAAATTACCAAAATA
1 CCCTCGATTTATAAAATTACCATTTTA
**
69510500 CCCTCGATCAATAAAATTACCA
1 CCCTCGATTTATAAAATTACCA
69510522 AAATACCCCT
Statistics
Matches: 134, Mismatches: 21, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 130 0.97
28 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.35
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCATTTTA
Found at i:69510522 original size:27 final size:27
Alignment explanation
Indices: 69510390--69510611 Score: 196
Period size: 27 Copynumber: 8.2 Consensus size: 27
69510380 ATTACCGTTT
***
69510390 TACCCTCGATTTATAAAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* ***
69510417 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69510444 TACACTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
* * *
69510471 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
**
69510498 TACCCTCGATCAATAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
*
69510525 TACCC-CTGATTTTGTAAAATTACCAAAA
1 TACCCTC-GA-TTTATAAAATTACCAAAA
* * *
69510553 TACCC-CTAGCTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTATAAAATTACCAAAA
* * * *
69510580 TACCCTTGATTTGTGAAATTATCAAAA
1 TACCCTCGATTTATAAAATTACCAAAA
69510607 TACCC
1 TACCC
69510612 CTGTACGGTA
Statistics
Matches: 164, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
26 1 0.01
27 141 0.86
28 22 0.13
ACGTcount: A:0.39, C:0.23, G:0.06, T:0.32
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACCAAAA
Found at i:69510575 original size:82 final size:82
Alignment explanation
Indices: 69510458--69510614 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 82
69510448 CTCGATTTAC
* * * *
69510458 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAA
1 AAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAA
69510523 AATACCCCTGATTTTGT
66 AATACCCCTGATTTTGT
** * *** * *
69510540 AAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTATCAA
1 AAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAA
69510605 AATACCCCTG
66 AATACCCCTG
69510615 TACGGTAGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
82 63 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (82 bp):
AAAATTACCAAAATACCCCTAGCTTACAAAATTACCAAAATACCCTCGATCAATAAAATTACCAA
AATACCCCTGATTTTGT
Found at i:69510647 original size:26 final size:27
Alignment explanation
Indices: 69510604--69510736 Score: 133
Period size: 27 Copynumber: 5.0 Consensus size: 27
69510594 GAAATTATCA
* * * *
69510604 AAATACCCCTGTACGGTAGAATTACTG
1 AAATACCCATATAGGGTAGAATTACCG
69510631 AAATACCC-TATAGGGTAGAATTACCG
1 AAATACCCATATAGGGTAGAATTACCG
* * *
69510657 AAATACCCTTGTAGGGTAGAAATACCG
1 AAATACCCATATAGGGTAGAATTACCG
* *
69510684 AAATACCCATATAGGGTATAATTATCG
1 AAATACCCATATAGGGTAGAATTACCG
* * * * *
69510711 AGATATCCTTGTAGGGTAAAATTACC
1 AAATACCCATATAGGGTAGAATTACC
69510737 ATTTTGCCCC
Statistics
Matches: 89, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 23 0.26
27 66 0.74
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (27 bp):
AAATACCCATATAGGGTAGAATTACCG
Found at i:69510675 original size:53 final size:54
Alignment explanation
Indices: 69510604--69510736 Score: 178
Period size: 54 Copynumber: 2.5 Consensus size: 54
69510594 GAAATTATCA
* * *
69510604 AAATACCCCTGTACGGTAGAATTACTGAAATACCC-TATAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCATATAGGGTAGAATTACCG
* * *
69510657 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCATATAGGGTATAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCATATAGGGTAGAATTACCG
* * *
69510711 AGATATCCTTGTAGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
69510737 ATTTTGCCCC
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
53 31 0.45
54 38 0.55
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAATTACCGAAATACCCATATAGGGTAGAATTACCG
Found at i:69510721 original size:54 final size:53
Alignment explanation
Indices: 69510604--69510732 Score: 170
Period size: 53 Copynumber: 2.4 Consensus size: 53
69510594 GAAATTATCA
* * * *
69510604 AAATACCCCTGTACGGTAGAATTACTGAAATACCCTATAGGGTAGAATTACCG
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCTATAGGGTAGAATTACCG
* *
69510657 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCATATAGGGTATAATTATCG
1 AAATACCCTTGTAGGGTAGAAATACCGAAATACCC-TATAGGGTAGAATTACCG
* *
69510711 AGATATCCTTGTAGGGTA-AAAT
1 AAATACCCTTGTAGGGTAGAAAT
69510733 TACCATTTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
53 35 0.52
54 32 0.48
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.26
Consensus pattern (53 bp):
AAATACCCTTGTAGGGTAGAAATACCGAAATACCCTATAGGGTAGAATTACCG
Found at i:69510977 original size:25 final size:25
Alignment explanation
Indices: 69510939--69511008 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
69510929 AGGAAGTGCT
* * *
69510939 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
69510964 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
69510989 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
69511009 ATTAAAAGAG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:69511010 original size:24 final size:25
Alignment explanation
Indices: 69510964--69511015 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
69510954 TAGTTTACCG
* *
69510964 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTACCCCAAGTTATCA
*
69510989 AAAAGGGCTTTACCCC-AGTTATTA
1 AAAAGGGCTTTACCCCAAGTTATCA
69511013 AAA
1 AAA
69511016 GAGGCTAGGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTACCCCAAGTTATCA
Found at i:69511265 original size:31 final size:31
Alignment explanation
Indices: 69511230--69511313 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
69511220 CGTTTACAGT
69511230 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
69511261 AAAGGCTTCGGCCCAGTGACATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
69511292 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
69511314 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
30 4 0.08
31 46 0.92
ACGTcount: A:0.32, C:0.19, G:0.26, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:69512242 original size:17 final size:16
Alignment explanation
Indices: 69512215--69512251 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
69512205 AACCCTAAAT
*
69512215 TTTCCTTTTCTTTTTC
1 TTTCCTTTTCTTCTTC
69512231 TTTCCTTTTTCTTCTTC
1 TTTCC-TTTTCTTCTTC
69512248 TTTC
1 TTTC
69512252 TTTCCCTGCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTCCTTTTCTTCTTC
Found at i:69512345 original size:14 final size:15
Alignment explanation
Indices: 69512309--69512345 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
69512299 TTTCTTTTAT
*
69512309 TTATTATAACTATTA
1 TTATTATATCTATTA
69512324 -TATTATATC-ATTA
1 TTATTATATCTATTA
69512337 TTATTATAT
1 TTATTATAT
69512346 TTTTAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 4 0.20
14 16 0.80
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (15 bp):
TTATTATATCTATTA
Found at i:69512360 original size:18 final size:20
Alignment explanation
Indices: 69512333--69512371 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
69512323 ATATTATATC
*
69512333 ATTATTATTA-TATTT-TTA
1 ATTATAATTATTATTTCTTA
69512351 ATTATAATTATTATTTCTTA
1 ATTATAATTATTATTTCTTA
69512371 A
1 A
69512372 ATATTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 5 0.28
20 4 0.22
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
ATTATAATTATTATTTCTTA
Found at i:69517048 original size:16 final size:16
Alignment explanation
Indices: 69517027--69517060 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
69517017 TTAGCAAATT
69517027 AACATACATTATTTCC
1 AACATACATTATTTCC
69517043 AACATACATTATTTCC
1 AACATACATTATTTCC
69517059 AA
1 AA
69517061 GTACGTTCAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (16 bp):
AACATACATTATTTCC
Found at i:69517896 original size:40 final size:41
Alignment explanation
Indices: 69517719--69517896 Score: 244
Period size: 40 Copynumber: 4.5 Consensus size: 41
69517709 AAACCAAGTA
*
69517719 CCTTCGGGA-TATAG-CCGG-ATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACT-TAGCCCGGAATATAG-TAACTCGCACAAATG
*
69517758 CCTTCGGGACTTAGCCC-GAATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATG
69517798 CCTTCGGGACTTAGCCCGG-ATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATG
* * *
69517838 CCTTCGGGACTTATCCCGGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATG
69517878 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
69517897 TTACCATCCG
Statistics
Matches: 126, Mismatches: 7, Indels: 11
0.88 0.05 0.08
Matches are distributed among these distances:
39 14 0.11
40 109 0.87
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATG
Found at i:69520727 original size:30 final size:30
Alignment explanation
Indices: 69520693--69520752 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
69520683 ATTTAATACG
69520693 AACTTTTGAAAAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
* *
69520723 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGAAAAATTACACTTTTGCCCCTA
69520753 GGCTCGAGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTTGAAAAATTACACTTTTGCCCCTA
Found at i:69522621 original size:48 final size:48
Alignment explanation
Indices: 69522563--69523055 Score: 824
Period size: 48 Copynumber: 10.2 Consensus size: 48
69522553 ATATACACAC
* *
69522563 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
69522611 ATCTCGTACATATTTCACACTAACCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
69522659 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
69522707 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
69522755 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
69522803 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
69522851 ATCTCATATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
69522901 ATCTCATATATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
69522949 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCCCATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* **
69522997 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCGTATATACAT
1 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
69523045 ATCTCATATAT
1 ATCTCATATAT
69523056 CAATTTCAGC
Statistics
Matches: 428, Mismatches: 15, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
48 381 0.89
50 47 0.11
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:69541876 original size:40 final size:40
Alignment explanation
Indices: 69541802--69541878 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
69541792 TCAATGCCAC
*
69541802 ATATAGCCGAAGCTATTCCAATTCACACACTGAGTGCTTT
1 ATATAGCCGAAGCTATTCCAAATCACACACTGAGTGCTTT
* * *
69541842 ATATAGCCGAAGCTATTTCAAATCGCACATTGAGTGC
1 ATATAGCCGAAGCTATTCCAAATCACACACTGAGTGC
69541879 CAAACATAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (40 bp):
ATATAGCCGAAGCTATTCCAAATCACACACTGAGTGCTTT
Found at i:69547002 original size:30 final size:30
Alignment explanation
Indices: 69546945--69547002 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
69546935 TTTTCGGGCT
* ***
69546945 TAGGGGTAAAATGGTCATTTTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTTCACCAAAGTC
69546975 TAGGGGCAAAATGGTCATTTCACCAAAG
1 TAGGGGCAAAATGGTCATTTCACCAAAG
69547003 ATATGAATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTCACCAAAGTC
Found at i:69547522 original size:46 final size:45
Alignment explanation
Indices: 69547345--69547560 Score: 208
Period size: 46 Copynumber: 4.7 Consensus size: 45
69547335 TGTGTGAGGT
* * * *
69547345 AGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACA-GACGAGAGCC
* *
69547391 AGTGTAAGACCATGTCTGGGACATGGCATTGGCATTA-AGACGAGTGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC--TACAGACGAGAGCC
69547439 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTAC-AGACG-AGAGCC
* *
69547485 AGTGTAAGACATGTCTGGGACATGCATCGGCTAC-GA-GATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGACGA-GAGCC
* *
69547529 AGTGTAAGACCCTGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
69547561 GATAGATATG
Statistics
Matches: 145, Mismatches: 12, Indels: 26
0.79 0.07 0.14
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 13 0.09
45 15 0.10
46 61 0.42
47 29 0.20
48 23 0.16
49 1 0.01
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACAGACGAGAGCC
Found at i:69549921 original size:32 final size:32
Alignment explanation
Indices: 69549880--69549943 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
69549870 TGTGTGTGTG
69549880 GAAGTTGAAACTAAAGGCTTATCCTTTGAGTT
1 GAAGTTGAAACTAAAGGCTTATCCTTTGAGTT
69549912 GAAGTTGAAACTAAAGGCTTATCCTTTGAGTT
1 GAAGTTGAAACTAAAGGCTTATCCTTTGAGTT
69549944 AATCTTGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (32 bp):
GAAGTTGAAACTAAAGGCTTATCCTTTGAGTT
Found at i:69556579 original size:123 final size:123
Alignment explanation
Indices: 69556360--69556581 Score: 426
Period size: 123 Copynumber: 1.8 Consensus size: 123
69556350 AAGGAGATCT
*
69556360 ATTCTAGGACTACCGTAATACGTCCGGGTCTAGCTATACATGCCGATATGTGTTTATTTGATAGT
1 ATTCTAAGACTACCGTAATACGTCCGGGTCTAGCTATACATGCCGATATGTGTTTATTTGATAGT
69556425 GTGGAGATTTCTGACAGTTAAAAATGTGTTTATTGGTATCAGAGCTACGGTTTAGTCG
66 GTGGAGATTTCTGACAGTTAAAAATGTGTTTATTGGTATCAGAGCTACGGTTTAGTCG
*
69556483 ATTCTAAGACTACCGTAATACGTCTGGGTCTAGCTATACATGCCGATATGTGTTTATTTGATAGT
1 ATTCTAAGACTACCGTAATACGTCCGGGTCTAGCTATACATGCCGATATGTGTTTATTTGATAGT
69556548 GTGGAGATTTCTGACAGTTAAAAATGTGTTTATT
66 GTGGAGATTTCTGACAGTTAAAAATGTGTTTATT
69556582 TATAGTAATG
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
123 97 1.00
ACGTcount: A:0.26, C:0.14, G:0.23, T:0.37
Consensus pattern (123 bp):
ATTCTAAGACTACCGTAATACGTCCGGGTCTAGCTATACATGCCGATATGTGTTTATTTGATAGT
GTGGAGATTTCTGACAGTTAAAAATGTGTTTATTGGTATCAGAGCTACGGTTTAGTCG
Found at i:69563496 original size:27 final size:26
Alignment explanation
Indices: 69563466--69563641 Score: 163
Period size: 27 Copynumber: 6.5 Consensus size: 26
69563456 AATTGTACAG
69563466 CACTAAGTGTGCGATTTGACTATGTTA
1 CACTAAGTGTGCGATTTGACTATG-TA
** * *
69563493 CACTAAGTGTGCGAAATGAATATGATG
1 CACTAAGTGTGCGATTTGACTATG-TA
* * **
69563520 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATG-TA
69563547 CACTAAGTGTGCGAGTTTGACTATGTA
1 CACTAAGTGTGCGA-TTTGACTATGTA
* *
69563574 GCACTAAGTGTGCGATTTGATTACGTA
1 -CACTAAGTGTGCGATTTGACTATGTA
* * *
69563601 GCACTAAGTGTGCGAGTTGATTATATA
1 -CACTAAGTGTGCGATTTGACTATGTA
*
69563628 GCACTGAGTGTGCG
1 -CACTAAGTGTGCG
69563642 GACTCAATAT
Statistics
Matches: 127, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 105 0.83
28 22 0.17
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
CACTAAGTGTGCGATTTGACTATGTA
Found at i:69563525 original size:54 final size:54
Alignment explanation
Indices: 69563464--69563641 Score: 191
Period size: 54 Copynumber: 3.3 Consensus size: 54
69563454 TAAATTGTAC
*
69563464 AGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGAATTGAATATGAT
* * ** * *
69563519 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TACACTAAGTGTGCGA-ATTGAATATGAT
* * * *
69563573 AGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTA-CACTAAGTGTGCGAATTGAATATGAT
*
69563627 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69563642 GACTCAATAT
Statistics
Matches: 102, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
54 60 0.59
55 42 0.41
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTACACTAAGTGTGCGAATTGAATATGAT
Found at i:69563579 original size:82 final size:81
Alignment explanation
Indices: 69563465--69563620 Score: 226
Period size: 82 Copynumber: 1.9 Consensus size: 81
69563455 AAATTGTACA
*
69563465 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
69563529 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
69563546 GCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGT
1 GCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGTAGCACTAAGT
*
69563610 GTGCGAGTTGA
64 GTGCGAATTGA
69563621 TTATATAGCA
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
81 17 0.25
82 49 0.73
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69563632 original size:82 final size:81
Alignment explanation
Indices: 69563461--69563641 Score: 222
Period size: 82 Copynumber: 2.2 Consensus size: 81
69563451 GATTAAATTG
*
69563461 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
69563526 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69563542 TGCGGCACTAAGTGTGCGAGTTTGACTATG-TAGCACTAAGTGTGCGATTTGATTACG-TAGCAC
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTTA-CACTAAGTGTGCGAAATGAATACGAT-GCAC
* **
69563605 TAAGTGTGCGAGTTGATTA
63 TAAGTGTGCGAATTGACCA
* *
69563624 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69563642 GACTCAATAT
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
81 20 0.24
82 64 0.76
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTTACACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69570734 original size:53 final size:54
Alignment explanation
Indices: 69570674--69570848 Score: 221
Period size: 53 Copynumber: 3.3 Consensus size: 54
69570664 TAAATTGTAC
* **
69570674 AGCACTAAGTGTGCGATTTGACTATGTTCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
69570728 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATG-TGCACTAAGTGTGCGAGTTGAATATGAT
* * *
69570781 AGCACTAAGTGTGCGATTTGATTACGTGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
*
69570834 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69570849 GACTTAATAT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 62 0.60
54 42 0.40
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:69570740 original size:27 final size:26
Alignment explanation
Indices: 69570675--69570848 Score: 186
Period size: 27 Copynumber: 6.5 Consensus size: 26
69570665 AAATTGTACA
*
69570675 GCACTAAGTGTGCGATTTGACTATGT
1 GCACTAAGTGTGCGAATTGACTATGT
* * *
69570701 TCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATG-T
* *
69570728 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATG-T
*
69570755 GCACTAAGTGTGCGAGTTGACTATGT
1 GCACTAAGTGTGCGAATTGACTATGT
* * *
69570781 AGCACTAAGTGTGCGATTTGATTACGT
1 -GCACTAAGTGTGCGAATTGACTATGT
* * *
69570808 GCACTAAGTGTGCGAGTTGATTATAT
1 GCACTAAGTGTGCGAATTGACTATGT
*
69570834 AGCACTGAGTGTGCG
1 -GCACTAAGTGTGCG
69570849 GACTTAATAT
Statistics
Matches: 125, Mismatches: 20, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
26 44 0.35
27 81 0.65
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTGACTATGT
Found at i:69570811 original size:80 final size:80
Alignment explanation
Indices: 69570675--69570827 Score: 227
Period size: 80 Copynumber: 1.9 Consensus size: 80
69570665 AAATTGTACA
* * *
69570675 GCACTAAGTGTGCGATTTGACTATGTTCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGTG
1 GCACTAAGTGTGCGAGTTGACTATGTGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTG
69570740 CGAATTGACCATGCG
66 CGAATTGACCATGCG
** *
69570755 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGT-GCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGT
*
69570819 GCGAGTTGA
65 GCGAATTGA
69570828 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
80 45 0.69
81 20 0.31
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (80 bp):
GCACTAAGTGTGCGAGTTGACTATGTGCACTAAGTGTGCGAAATGAATACGATGCACTAAGTGTG
CGAATTGACCATGCG
Found at i:69570839 original size:80 final size:80
Alignment explanation
Indices: 69570671--69570848 Score: 223
Period size: 80 Copynumber: 2.2 Consensus size: 80
69570661 GATTAAATTG
* * *
69570671 TACAGCACTAAGTGTGCGATTTGACTATGTTCACTAAGTGTGCGAAATGAATATGATGCACTAAG
1 TACAGCACTAAGTGTGCGAGTTGACTATGTGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
69570736 TGTGCGAATTGACCA
66 TGTGCGAATTGACCA
* * ** *
69570751 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGT-GCACTAAGTGTGCGAAATGAATACGATGCACTAA
* **
69570815 GTGTGCGAGTTGATTA
65 GTGTGCGAATTGACCA
* *
69570831 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69570849 GACTTAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
80 62 0.76
81 20 0.24
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.30
Consensus pattern (80 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTGCACTAAGTGTGCGAAATGAATACGATGCACTAAG
TGTGCGAATTGACCA
Found at i:69578533 original size:27 final size:27
Alignment explanation
Indices: 69578502--69578678 Score: 203
Period size: 27 Copynumber: 6.6 Consensus size: 27
69578492 TAAATTGTAC
*
69578502 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
69578529 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
69578555 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
69578583 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
69578610 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * * *
69578637 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
69578664 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69578679 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:69578563 original size:54 final size:55
Alignment explanation
Indices: 69578502--69578678 Score: 243
Period size: 54 Copynumber: 3.3 Consensus size: 55
69578492 TAAATTGTAC
* **
69578502 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
69578557 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
69578610 AGCACTAAGTGTGCGATTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
69578664 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
69578679 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.01
54 106 0.99
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:69578642 original size:81 final size:81
Alignment explanation
Indices: 69578503--69578657 Score: 240
Period size: 81 Copynumber: 1.9 Consensus size: 81
69578493 AAATTGTACA
* *
69578503 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
69578568 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
** *
69578584 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TGGCACTAAGTG
1 GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTG
*
69578648 TGCGAGTTGA
65 TGCGAATTGA
69578658 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
80 1 0.01
81 66 0.99
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:69578669 original size:81 final size:81
Alignment explanation
Indices: 69578499--69578678 Score: 236
Period size: 81 Copynumber: 2.2 Consensus size: 81
69578489 GATTAAATTG
* *
69578499 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
69578564 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
69578580 TGCGGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TGGCACTA
1 TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACTA
* **
69578644 AGTGTGCGAGTTGATTA
65 AGTGTGCGAATTGACCA
* *
69578661 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
69578679 GACTTAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 1 0.01
81 83 0.99
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:69581086 original size:21 final size:20
Alignment explanation
Indices: 69581062--69581105 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
69581052 CGCTTCTCCT
* *
69581062 ACGCTCGTGTTTTATGGTAGC
1 ACGCCCGTGTATTATGGTA-C
*
69581083 ACGCCCGTGTATTATTGTAC
1 ACGCCCGTGTATTATGGTAC
69581103 ACG
1 ACG
69581106 GTTGAATGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.18, C:0.23, G:0.25, T:0.34
Consensus pattern (20 bp):
ACGCCCGTGTATTATGGTAC
Found at i:69595552 original size:47 final size:45
Alignment explanation
Indices: 69595483--69595692 Score: 160
Period size: 47 Copynumber: 4.5 Consensus size: 45
69595473 ACTGATGCTG
* * *
69595483 TGTCCCAAACATGATCTTACACTGGCTTATATCTCAAGTCGAAGCCA
1 TGTCCCAGACATGGTCTTACACTGGC-TATATCTCAAGTCGATG-CA
* * * *
69595530 TGTCCCAGACATGGTCTTACACTGACTATCATCTTATAG-CTGACGTA
1 TGTCCCAGACATGGTCTTACACTGGCTAT-ATCTCA-AGTC-GATGCA
* * *
69595577 TGTCCCAGACAT-GTCTTACACTCGCT-TACGTCTCGAGGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTGGCTATA--TCTC-AAGTCGATGCA
* *
69595623 TGTCCCAGACAT-GTCTTACACTAGC-ACTAGTCTCAATGTTGATGCCA
1 TGTCCCAGACATGGTCTTACACTGGCTA-TA-TCTCAA-GTCGATG-CA
*
69595670 TGTCCTAGACATGGTCTTACACT
1 TGTCCCAGACATGGTCTTACACT
69595693 AGCTCTCACA
Statistics
Matches: 134, Mismatches: 17, Indels: 23
0.77 0.10 0.13
Matches are distributed among these distances:
44 1 0.01
45 2 0.01
46 57 0.43
47 59 0.44
48 15 0.11
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (45 bp):
TGTCCCAGACATGGTCTTACACTGGCTATATCTCAAGTCGATGCA
Found at i:69595656 original size:46 final size:47
Alignment explanation
Indices: 69595483--69595695 Score: 150
Period size: 46 Copynumber: 4.5 Consensus size: 47
69595473 ACTGATGCTG
* * * ** * *
69595483 TGTCCCAAACATGATCTTACACTGGCTTATATCTCAA-GTCGAAGCCA
1 TGTCCCAGACATG-TCTTACACTAGCCTACGTCTCAAGGCCGATGCCA
* * * * * *
69595530 TGTCCCAGACATGGTCTTACACT-GACTATCATCTTATA-GCTGACG-TA
1 TGTCCCAGACAT-GTCTTACACTAGCCTA-CGTCTCA-AGGCCGATGCCA
* * *
69595577 TGTCCCAGACATGTCTTACACTCGCTTACGTCTCGAGGCCGATG-CA
1 TGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCGATGCCA
* **
69595623 TGTCCCAGACATGTCTTACACTAGCACTA-GTCTCAATGTTGATGCCA
1 TGTCCCAGACATGTCTTACACTAGC-CTACGTCTCAAGGCCGATGCCA
*
69595670 TGTCCTAGACATGGTCTTACACTAGC
1 TGTCCCAGACAT-GTCTTACACTAGC
69595696 TCTCACAATT
Statistics
Matches: 134, Mismatches: 24, Indels: 15
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 58 0.43
47 56 0.42
48 19 0.14
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (47 bp):
TGTCCCAGACATGTCTTACACTAGCCTACGTCTCAAGGCCGATGCCA
Found at i:69602838 original size:47 final size:46
Alignment explanation
Indices: 69602757--69602870 Score: 108
Period size: 47 Copynumber: 2.4 Consensus size: 46
69602747 GCCGATGCCT
** **
69602757 TGTCCCAGACACA-GTCTTACACTGGCTTATATCTCA-AGTTGAAGCCA
1 TGTCCCA-A-ACATGTCTTACACTAACTTATATCTCATAGCCGAAG-CA
*
69602804 TGTCCCAAACATGGTCTTACACTAAC-TATCATCTCATAGCCGACGCA
1 TGTCCCAAACAT-GTCTTACACTAACTTAT-ATCTCATAGCCGAAGCA
*
69602851 TGTCCCATACATGTCTTACA
1 TGTCCCAAACATGTCTTACA
69602871 TTAGCTCTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
45 3 0.05
46 12 0.21
47 37 0.65
48 5 0.09
ACGTcount: A:0.28, C:0.30, G:0.14, T:0.28
Consensus pattern (46 bp):
TGTCCCAAACATGTCTTACACTAACTTATATCTCATAGCCGAAGCA
Found at i:69618241 original size:40 final size:40
Alignment explanation
Indices: 69618161--69618379 Score: 320
Period size: 40 Copynumber: 5.5 Consensus size: 40
69618151 TTCGGATGAC
*
69618161 ATCCGGGCTAAGTCCCGAAGGCA-TGGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
*
69618200 ATCCGGGCTAAGTCCCAAAGGCAGTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
* *
69618240 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
69618280 ATCCGGGCTAAGTCCCGAAGGC-GTTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCAG-TTGTGCTAGTGACTAT
* *
69618320 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAG-TGACTAT
* *
69618360 ATCC-GACTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
69618380 TACTTGGGTT
Statistics
Matches: 165, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
39 36 0.22
40 127 0.77
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCAGTTGTGCTAGTGACTAT
Found at i:69631208 original size:13 final size:13
Alignment explanation
Indices: 69631190--69631220 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
69631180 TATATCCGGC
69631190 TATATGCTGGAAT
1 TATATGCTGGAAT
69631203 TATATGCTGGAAT
1 TATATGCTGGAAT
69631216 TATAT
1 TATAT
69631221 CCGGCTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.19, T:0.42
Consensus pattern (13 bp):
TATATGCTGGAAT
Found at i:69631387 original size:38 final size:38
Alignment explanation
Indices: 69631207--69631410 Score: 257
Period size: 38 Copynumber: 5.4 Consensus size: 38
69631197 TGGAATTATA
* * ** *
69631207 TGCTGGAATTATATCCGGCTTAAAGACCGCAGGCTAT-A
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCT-TCG
* * *
69631245 TGCTGGAATTATATCCGGGGTAAATCCTGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
69631283 TGCTGGTAATATATCCGGGTTAAATCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* *
69631321 TGCTGGTAATATATCCGGGTTAATTCCCGCAGGCTTCG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
* * *
69631359 TGCTAGTATTATATCCGGGTTAAATCCCGCAAGCTTAG
1 TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
*
69631397 TGCTGCTATTATAT
1 TGCTGGTATTATAT
69631411 TCGAGCCTTT
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
37 1 0.01
38 146 0.99
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TGCTGGTATTATATCCGGGTTAAATCCCGCAGGCTTCG
Found at i:69631472 original size:45 final size:45
Alignment explanation
Indices: 69631408--69631537 Score: 158
Period size: 45 Copynumber: 2.9 Consensus size: 45
69631398 GCTGCTATTA
69631408 TATTCGAGCCTTTGAGCCTAGCAGACTAGT-ATGCCGATGAGACAC
1 TATTCGAGCCTTTGAGCCTAGCAGACTA-TAATGCCGATGAGACAC
* * * * *
69631453 TATTCGGGCCTTTGGGCCTAGCAGGCTATAATGCCGGTGAGATAC
1 TATTCGAGCCTTTGAGCCTAGCAGACTATAATGCCGATGAGACAC
*
69631498 TATTCGTG-CTTTCGAGCCTAGCAGGA-TATAATGCCGATGA
1 TATTCGAGCCTTT-GAGCCTAGCA-GACTATAATGCCGATGA
69631538 AATGATAATT
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
44 5 0.07
45 67 0.92
46 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (45 bp):
TATTCGAGCCTTTGAGCCTAGCAGACTATAATGCCGATGAGACAC
Found at i:69637389 original size:20 final size:20
Alignment explanation
Indices: 69637364--69637405 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
69637354 TCATATTCCC
69637364 CTGTTTGAGCTCTAAAAATT
1 CTGTTTGAGCTCTAAAAATT
69637384 CTGTTTGAGCTCTAAAAATT
1 CTGTTTGAGCTCTAAAAATT
69637404 CT
1 CT
69637406 TTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
CTGTTTGAGCTCTAAAAATT
Found at i:69644865 original size:48 final size:48
Alignment explanation
Indices: 69644813--69644999 Score: 223
Period size: 48 Copynumber: 3.7 Consensus size: 48
69644803 ACGATGCCTC
69644813 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAACA
* * *
69644861 ATGCCGATGTCATGTCCCAGACATAGTCTTACACTAGCTCACGTAAGCTCACGTAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCT----T-A---CA--TAACA
* *
69644919 ATGCCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCACATAACA
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAACA
*
69644967 ATGCCGATACCATGT-CCAGACATGGTCTTACAC
1 ATGCCGATGCCATGTCCCAGACATGGTCTTACAC
69645000 CGATGTCATG
Statistics
Matches: 119, Mismatches: 10, Indels: 21
0.79 0.07 0.14
Matches are distributed among these distances:
47 17 0.14
48 55 0.46
50 2 0.02
52 1 0.01
53 2 0.02
56 2 0.02
58 40 0.34
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (48 bp):
ATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACATAACA
Found at i:69645003 original size:29 final size:30
Alignment explanation
Indices: 69644970--69645031 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
69644960 CATAACAATG
*
69644970 CCGATACCATGT-CCAGACATGGTCTTACA
1 CCGATACCATGTCCCAGACATAGTCTTACA
**
69644999 CCGATGTCATGTCCCAGACATAGTCTTACA
1 CCGATACCATGTCCCAGACATAGTCTTACA
69645029 CCG
1 CCG
69645032 GCTCATGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.26, C:0.32, G:0.18, T:0.24
Consensus pattern (30 bp):
CCGATACCATGTCCCAGACATAGTCTTACA
Found at i:69645016 original size:77 final size:78
Alignment explanation
Indices: 69644922--69645077 Score: 224
Period size: 77 Copynumber: 2.0 Consensus size: 78
69644912 CGTAACAATG
* * * *
69644922 CCGATGCCATGTCCCAGACATGGTCTTATACTGGCTCACATAACAATGCCGATACCATGTCC-AG
1 CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCACATAACAATGCCGATACCATGTCCTAA
*
69644986 ACATGGTCTTACA
66 ACATGGTATTACA
* ** *
69644999 CCGATGTCATGTCCCAGACATAGTCTTACACCGGCTCATGTAACAATGCCGATGCCATGTCCTAA
1 CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCACATAACAATGCCGATACCATGTCCTAA
69645064 ACATGGTATTACA
66 ACATGGTATTACA
69645077 C
1 C
69645078 GGTTACACAT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
77 55 0.80
78 14 0.20
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (78 bp):
CCGATGCCATGTCCCAGACATAGTCTTACACCGGCTCACATAACAATGCCGATACCATGTCCTAA
ACATGGTATTACA
Found at i:69645037 original size:29 final size:28
Alignment explanation
Indices: 69644977--69645039 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 28
69644967 ATGCCGATAC
*
69644977 CATGTCCAGACATGGTCTTACACCGATGT
1 CATGTCCAGACATAGTCTTACACCGA-GT
69645006 CATGTCCCAGACATAGTCTTACACCG-GCT
1 CATGT-CCAGACATAGTCTTACACCGAG-T
69645035 CATGT
1 CATGT
69645040 AACAATGCCG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 1 0.03
29 11 0.35
30 19 0.61
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (28 bp):
CATGTCCAGACATAGTCTTACACCGAGT
Found at i:69647022 original size:23 final size:25
Alignment explanation
Indices: 69646986--69647031 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
69646976 AAGAATATTT
*
69646986 TATATATATATTTTCTTTATTTATG
1 TATATATATATTTTCTTGATTTATG
69647011 TATAT-TAT-TTTTCTTGATTTA
1 TATATATATATTTTCTTGATTTA
69647032 CGAGCTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (25 bp):
TATATATATATTTTCTTGATTTATG
Found at i:69648192 original size:20 final size:20
Alignment explanation
Indices: 69648169--69648215 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
69648159 AAAAATAAAT
69648169 TAAAAATGTAAAAATGTGAG
1 TAAAAATGTAAAAATGTGAG
69648189 T-AAAATGTAAAAATGTGAG
1 TAAAAATGTAAAAATGTGAG
69648208 TAAAAATG
1 TAAAAATG
69648216 GACTTATCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (20 bp):
TAAAAATGTAAAAATGTGAG
Found at i:69648875 original size:19 final size:19
Alignment explanation
Indices: 69648847--69648910 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 19
69648837 TTATTAACTT
*
69648847 TTTATATATTTTTAAATTA
1 TTTATTTATTTTTAAATTA
*
69648866 TTTATTTA-TTTGAATATT-
1 TTTATTTATTTTTAA-ATTA
* *
69648884 TTTA-TAAATTTTAAATTA
1 TTTATTTATTTTTAAATTA
*
69648902 TTTTTTTAT
1 TTTATTTAT
69648911 GACACATATA
Statistics
Matches: 34, Mismatches: 7, Indels: 8
0.69 0.14 0.16
Matches are distributed among these distances:
17 5 0.15
18 17 0.50
19 12 0.35
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTATTTTTAAATTA
Found at i:69651688 original size:150 final size:150
Alignment explanation
Indices: 69651417--69651717 Score: 548
Period size: 150 Copynumber: 2.0 Consensus size: 150
69651407 ACAGTACCAA
69651417 TACCAATTACCTTACTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
1 TACCAATTACCTTACTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
69651482 GTGAAGAACTATTCTCTATTGGGACACATGTGGAAAGAACATCCCGAATCTAGGATCCACTCGAA
66 GTGAAGAACTATTCTCTATTGGGACACATGTGGAAAGAACATCCCGAATCTAGGATCCACTCGAA
*
69651547 TGTGAGCTTAGAGTTATCGC
131 CGTGAGCTTAGAGTTATCGC
* *
69651567 TACCAATTACCTTGCTAGATGAATAATTTCCCATGCGCACAACTTCACTTTCAACTGAACTGTAT
1 TACCAATTACCTTACTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
* *
69651632 GTGAAGAACTATTTTCTATTGGGACACATGTGGAAAGAACATCCCGAATCTAGGATCCACTCGGA
66 GTGAAGAACTATTCTCTATTGGGACACATGTGGAAAGAACATCCCGAATCTAGGATCCACTCGAA
*
69651697 CGTGAGCTTGGAGTTATCGC
131 CGTGAGCTTAGAGTTATCGC
69651717 T
1 T
69651718 CGTTAAAACT
Statistics
Matches: 145, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 145 1.00
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (150 bp):
TACCAATTACCTTACTAGATGAATAATTTCCCATGCGCACAACTTCACCTTCAACTGAACTGTAT
GTGAAGAACTATTCTCTATTGGGACACATGTGGAAAGAACATCCCGAATCTAGGATCCACTCGAA
CGTGAGCTTAGAGTTATCGC
Found at i:69658726 original size:25 final size:25
Alignment explanation
Indices: 69658694--69658744 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
69658684 AGGGACTTGG
69658694 ATGTTTTTGTTTCATCGGATTCATT
1 ATGTTTTTGTTTCATCGGATTCATT
69658719 ATGTTTTTGTTTCATCGGATTCATT
1 ATGTTTTTGTTTCATCGGATTCATT
69658744 A
1 A
69658745 AGTTCTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.12, G:0.16, T:0.55
Consensus pattern (25 bp):
ATGTTTTTGTTTCATCGGATTCATT
Found at i:69662904 original size:16 final size:16
Alignment explanation
Indices: 69662883--69662924 Score: 84
Period size: 16 Copynumber: 2.6 Consensus size: 16
69662873 TTTTATGTAG
69662883 AAATTCTGAATTTAAA
1 AAATTCTGAATTTAAA
69662899 AAATTCTGAATTTAAA
1 AAATTCTGAATTTAAA
69662915 AAATTCTGAA
1 AAATTCTGAA
69662925 ATAACTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (16 bp):
AAATTCTGAATTTAAA
Found at i:69664064 original size:51 final size:51
Alignment explanation
Indices: 69663981--69664097 Score: 182
Period size: 51 Copynumber: 2.3 Consensus size: 51
69663971 ACTTCTGATC
69663981 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTAATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTAATCAGTGACA
* * * *
69664032 AGTGATAAGTGATAAGTGGTAGCTTCT-TCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTAGTAGCTT-TAGCTACACTTATCTAATCAGTGACA
69664083 AGTGACAAGTGATAA
1 AGTGACAAGTGATAA
69664098 ATGTGATCAG
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 59 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTAGTAGCTTTAGCTACACTTATCTAATCAGTGACA
Found at i:69667141 original size:20 final size:20
Alignment explanation
Indices: 69667100--69667141 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
69667090 TAATCTATTA
*
69667100 AAACTAAAAAACTATAAGAG
1 AAACTAAAAAACTACAAGAG
*
69667120 AAACTAAAGAAATTACAA-AG
1 AAACTAAA-AAACTACAAGAG
69667140 AA
1 AA
69667142 GAATATTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.14
Consensus pattern (20 bp):
AAACTAAAAAACTACAAGAG
Found at i:69667225 original size:17 final size:18
Alignment explanation
Indices: 69667192--69667225 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
69667182 AAACTAATTT
69667192 TCTCTTATTTATTTTCTA
1 TCTCTTATTTATTTTCTA
*
69667210 TCTCTTCTTT-TTTTCT
1 TCTCTTATTTATTTTCT
69667226 TTGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.21, G:0.00, T:0.71
Consensus pattern (18 bp):
TCTCTTATTTATTTTCTA
Found at i:69672554 original size:45 final size:46
Alignment explanation
Indices: 69672441--69672655 Score: 145
Period size: 48 Copynumber: 4.5 Consensus size: 46
69672431 TGAGAGCCAT
* * * * * * * *
69672441 TGTAAGACCATGTCTGGGACATGGCATTGGCATTGAAACAAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCA-CG-TAGAGGTGTTAG
* *
69672489 TGTAAGA-CATGTCTAGGACAT-GCATCGGCTACG-GGATGTGTTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGC-ACGTAGAGGTGTTAG
*
69672533 TGTAAGACCATGTCTCA-GACATGGCATCGGCACGTATAGAGGTGTCAG
1 TGTAAGACCATGTCT-AGGACATGGCATCGGCACG--TAGAGGTGTTAG
* * *
69672581 TGTAAGACCATGTCTGGGACATGGCATTGGCA--TAGAGATGTGAGAGCTAG
1 TGTAAGACCATGTCTAGGACATGGCATCGGCACGTAGAG--GT----GTTAG
*
69672631 TGTAAGACCATGGCTAGGACATGGC
1 TGTAAGACCATGTCTAGGACATGGC
69672656 GTCGACCTCG
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
44 18 0.13
45 15 0.11
46 19 0.14
47 14 0.10
48 44 0.32
50 26 0.19
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
TGTAAGACCATGTCTAGGACATGGCATCGGCACGTAGAGGTGTTAG
Found at i:69677704 original size:40 final size:40
Alignment explanation
Indices: 69677649--69677731 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
69677639 TACACTGGTT
* *
69677649 CACATATCAAAGTCGATGCCATGTCTCAGACATTATCTTA
1 CACATATCAAAGTCGATGACATGTCCCAGACATTATCTTA
69677689 CACATATCAAAGTCGATGACATGTCCCAGACATTATCTTA
1 CACATATCAAAGTCGATGACATGTCCCAGACATTATCTTA
69677729 CAC
1 CAC
69677732 TGACTCTCGT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.28
Consensus pattern (40 bp):
CACATATCAAAGTCGATGACATGTCCCAGACATTATCTTA
Found at i:69677874 original size:95 final size:96
Alignment explanation
Indices: 69677742--69677927 Score: 295
Period size: 95 Copynumber: 1.9 Consensus size: 96
69677732 TGACTCTCGT
* * *
69677742 ATATCGAGGCTGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATCTATCG-GTGCCGAT
1 ATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAG-GCCGAT
69677806 GCCATGTCCCAAACATGGTCTTACACTGACAC
65 GCCATGTCCCAAACATGGTCTTACACTGACAC
*
69677838 ATATC-AGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCGAGGCCGATG
1 ATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATG
* *
69677902 CCATGTCCCAGACATGGTCTTGCACT
66 CCATGTCCCAAACATGGTCTTACACT
69677928 AGCTCTCATA
Statistics
Matches: 83, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
95 77 0.93
96 6 0.07
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (96 bp):
ATATCGAGGCCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGCCGATG
CCATGTCCCAAACATGGTCTTACACTGACAC
Found at i:69677941 original size:50 final size:50
Alignment explanation
Indices: 69677702--69677938 Score: 290
Period size: 50 Copynumber: 4.8 Consensus size: 50
69677692 ATATCAAAGT
* * ** *
69677702 CGATGACATGTCCCAGACATTATCTTACACT-GACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAG-CTCTCATATATCGAGGC
* * *
69677752 TGATGCCATGTCCCATACATGGTCTTACACTAGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAG-GC
* *
69677802 CGATGCCATGTCCCAAACATGGTCTTACACT-G---ACACATATC-AGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGC
*
69677847 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATCTCGAGGC
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGC
* *
69677897 CGATGCCATGTCCCAGACATGGTCTTGCACTAGCTCTCATAT
1 CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATAT
69677939 CTCCCTAGCA
Statistics
Matches: 162, Mismatches: 17, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
45 33 0.20
46 8 0.05
49 8 0.05
50 112 0.69
51 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATATCGAGGC
Found at i:69679986 original size:37 final size:38
Alignment explanation
Indices: 69679918--69679992 Score: 134
Period size: 37 Copynumber: 2.0 Consensus size: 38
69679908 CAACAAGGGA
*
69679918 AGTCTTACAAATTATCATTTTTTGGATTCCACTACCAT
1 AGTCATACAAATTATCATTTTTTGGATTCCACTACCAT
69679956 AGTCATACAAATTATCA-TTTTTGGATTCCACTACCAT
1 AGTCATACAAATTATCATTTTTTGGATTCCACTACCAT
69679993 GTATCATCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 20 0.56
38 16 0.44
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (38 bp):
AGTCATACAAATTATCATTTTTTGGATTCCACTACCAT
Found at i:69685064 original size:14 final size:14
Alignment explanation
Indices: 69685041--69685071 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
69685031 TTATAATACA
69685041 TTTGGATTTTAAAT
1 TTTGGATTTTAAAT
*
69685055 TTTGGGTTTTAAAT
1 TTTGGATTTTAAAT
69685069 TTT
1 TTT
69685072 AAGTTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.16, T:0.61
Consensus pattern (14 bp):
TTTGGATTTTAAAT
Found at i:69687034 original size:5 final size:5
Alignment explanation
Indices: 69687024--69687062 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
69687014 GTTGATAGAG
*
69687024 AAAAT AAAAT AAACA- AAAAT ATAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAA-AT AAAAT AAAAT AAAAT AAAAT AAAA
69687063 ATAGATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
4 1 0.03
5 28 0.93
6 1 0.03
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:69689482 original size:7 final size:7
Alignment explanation
Indices: 69689470--69689497 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
69689460 CCAATTTGTA
69689470 TTTCTTT
1 TTTCTTT
69689477 TTTCTTT
1 TTTCTTT
69689484 TTTCTTT
1 TTTCTTT
69689491 TTTCTTT
1 TTTCTTT
69689498 CTGCAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTCTTT
Found at i:69697866 original size:6 final size:7
Alignment explanation
Indices: 69697849--69697873 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
69697839 CCAATTTTTC
69697849 AAAAAAG
1 AAAAAAG
69697856 AAAAAAG
1 AAAAAAG
69697863 AAAAAAG
1 AAAAAAG
69697870 AAAA
1 AAAA
69697874 TTCAACCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:69715686 original size:13 final size:13
Alignment explanation
Indices: 69715665--69715698 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
69715655 AAGACAAATC
*
69715665 CTGGTATGTTACA
1 CTGGCATGTTACA
69715678 CTGGCATGTTACA
1 CTGGCATGTTACA
69715691 CTGGCATG
1 CTGGCATG
69715699 CAATTAAATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (13 bp):
CTGGCATGTTACA
Found at i:69716792 original size:21 final size:21
Alignment explanation
Indices: 69716744--69716792 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
69716734 ATAAATTTTT
*
69716744 TATAATATATAACTTTATAAA
1 TATAATATATAACTTTACAAA
*
69716765 AATTAATATA-AACTTTACAATA
1 TA-TAATATATAACTTTACAA-A
69716787 TATAAT
1 TATAAT
69716793 CTTTATAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (21 bp):
TATAATATATAACTTTACAAA
Found at i:69718726 original size:12 final size:13
Alignment explanation
Indices: 69718704--69718732 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
69718694 AGGCAGGCTC
69718704 CAAATATCAAAAT
1 CAAATATCAAAAT
69718717 CAAA-ATCAAAAT
1 CAAATATCAAAAT
69718729 CAAA
1 CAAA
69718733 GTTTTCTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (13 bp):
CAAATATCAAAAT
Found at i:69721231 original size:13 final size:13
Alignment explanation
Indices: 69721213--69721263 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
69721203 AATTTGGCAA
69721213 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
69721226 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
** *
69721239 TGCGGTGGAAAAG
1 TGCTTTTGAAAAG
*
69721252 TACTTTTGAAAA
1 TGCTTTTGAAAA
69721264 ATTTAAGTGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:69721442 original size:8 final size:9
Alignment explanation
Indices: 69721424--69721471 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
69721414 TATTATAACT
69721424 TATTATTAA
1 TATTATTAA
69721433 TATT-TTAATA
1 TATTATT-A-A
69721443 TATTATTAA
1 TATTATTAA
69721452 TATT-TTAA
1 TATTATTAA
69721460 TA-TA-TAA
1 TATTATTAA
69721467 TATTA
1 TATTA
69721472 ATTTTAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
7 6 0.18
8 10 0.29
9 10 0.29
10 6 0.18
11 2 0.06
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:69721470 original size:21 final size:19
Alignment explanation
Indices: 69721424--69721482 Score: 84
Period size: 19 Copynumber: 3.1 Consensus size: 19
69721414 TATTATAACT
69721424 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
69721443 TATTATTAATATTTTAATA
1 TATTATTAATATTTTAATA
*
69721462 TATAATATTAAT-TTTAAATA
1 TAT--TATTAATATTTTAATA
69721482 T
1 T
69721483 TTCTAAGTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 22 0.59
20 8 0.22
21 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TATTATTAATATTTTAATA
Found at i:69723614 original size:72 final size:72
Alignment explanation
Indices: 69723304--69723614 Score: 491
Period size: 72 Copynumber: 4.3 Consensus size: 72
69723294 AAAATCATAT
** * *
69723304 ATAAACAACTATTGATAAAACTA-ATTTA-GTATAAATAAATAGAACATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAGA-TTACACATAAATAAGTAGAACATAAATTCAATATCCAAA
* *
69723367 TACCAAAT
65 AACCAAAC
* *
69723375 ATAAACAACTATTAATAAAACTAAATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
69723440 ACCAAAC
66 ACCAAAC
*
69723447 ATAAACAACTATTAATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
69723512 ACCAAAC
66 ACCAAAC
* *
69723519 ATAAACAACCATTGGTAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
1 ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
69723584 ACCAAAC
66 ACCAAAC
*
69723591 ATAAATAACTATTGATAAAACTAG
1 ATAAACAACTATTGATAAAACTAG
69723615 TTTAGCATTT
Statistics
Matches: 224, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
71 25 0.11
72 199 0.89
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.24
Consensus pattern (72 bp):
ATAAACAACTATTGATAAAACTAGATTACACATAAATAAGTAGAACATAAATTCAATATCCAAAA
ACCAAAC
Found at i:69724064 original size:18 final size:18
Alignment explanation
Indices: 69724043--69724108 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
69724033 TCCATCAATT
69724043 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
*
69724061 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
69724079 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
69724097 TGAACATCATTT
1 TGAACATCATTT
69724109 CTCACATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:69725064 original size:21 final size:21
Alignment explanation
Indices: 69725038--69725107 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
69725028 AGATAATATA
69725038 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
* **
69725059 TATAAAAATATTACAGTCAATA-
1 TATAAATATA-TATGGTC-ATAG
69725081 TATAAATATATATGGTCATAG
1 TATAAATATATATGGTCATAG
*
69725102 TCTAAA
1 TATAAA
69725108 CCAATGGAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
20 3 0.08
21 19 0.49
22 14 0.36
23 3 0.08
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (21 bp):
TATAAATATATATGGTCATAG
Found at i:69725084 original size:22 final size:23
Alignment explanation
Indices: 69725032--69725093 Score: 65
Period size: 22 Copynumber: 2.7 Consensus size: 23
69725022 CGCATAAGAT
* **
69725032 AATATATATAAATATATATGGTC
1 AATATATAAAAATATATACAGTC
69725055 -ATAGTATAAAAATAT-TACAGTC
1 AATA-TATAAAAATATATACAGTC
*
69725077 AATATATAAATATATAT
1 AATATATAAAAATATAT
69725094 GGTCATAGTC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
22 18 0.56
23 14 0.44
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (23 bp):
AATATATAAAAATATATACAGTC
Found at i:69727178 original size:21 final size:21
Alignment explanation
Indices: 69727154--69727193 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
69727144 AGGAACAAAG
69727154 CAGAGAAGAAAGAGTAAAGTT
1 CAGAGAAGAAAGAGTAAAGTT
*
69727175 CAGAGAAGAAAGCGTAAAG
1 CAGAGAAGAAAGAGTAAAG
69727194 GCAAAGAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (21 bp):
CAGAGAAGAAAGAGTAAAGTT
Found at i:69727774 original size:19 final size:19
Alignment explanation
Indices: 69727752--69727794 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
69727742 TGTAAATAGA
69727752 TTAAAA-TTATTTTAAAATT
1 TTAAAATTTA-TTTAAAATT
69727771 TTAAAATTTATTTAAAATT
1 TTAAAATTTATTTAAAATT
*
69727790 ATAAA
1 TTAAA
69727795 TAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTAAAATTTATTTAAAATT
Found at i:69727812 original size:24 final size:25
Alignment explanation
Indices: 69727780--69727845 Score: 73
Period size: 24 Copynumber: 2.7 Consensus size: 25
69727770 TTTAAAATTT
*
69727780 ATTTAAAATTATAAATAA-TAAAAA
1 ATTTTAAATTATAAATAATTAAAAA
*
69727804 ATTTTAAATAATAAA-AATTAAAAA
1 ATTTTAAATTATAAATAATTAAAAA
* *
69727828 TTTTTAAAATTGTAAATA
1 ATTTT-AAATTATAAATA
69727846 GTTATTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
23 2 0.06
24 23 0.68
25 8 0.24
26 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (25 bp):
ATTTTAAATTATAAATAATTAAAAA
Found at i:69727822 original size:16 final size:17
Alignment explanation
Indices: 69727784--69727820 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
69727774 AAATTTATTT
69727784 AAAATTATAAATAATAA
1 AAAATTATAAATAATAA
*
69727801 AAAATTTTAAATAATAA
1 AAAATTATAAATAATAA
69727818 AAA
1 AAA
69727821 TTAAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTATAAATAATAA
Found at i:69728233 original size:16 final size:16
Alignment explanation
Indices: 69728199--69728255 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
69728189 ATATTGAATT
69728199 ATTTATAAAAA-AT-AA
1 ATTTA-AAAAATATAAA
69728214 ATTTAAAAAATATAAA
1 ATTTAAAAAATATAAA
* *
69728230 ATTTTAAAAAT-GAAA
1 ATTTAAAAAATATAAA
69728245 ATTATAAAAAA
1 ATT-TAAAAAA
69728256 AAAAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.14
15 13 0.36
16 18 0.50
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (16 bp):
ATTTAAAAAATATAAA
Found at i:69728260 original size:15 final size:15
Alignment explanation
Indices: 69728201--69728260 Score: 52
Period size: 15 Copynumber: 4.0 Consensus size: 15
69728191 ATTGAATTAT
*
69728201 TTAT-AAAAAATAAA
1 TTATAAAAAAAAAAA
69728215 TT-TAAAAAATATAAAA
1 TTATAAAAAA-A-AAAA
* **
69728231 TTTTAAAAATGAAAA
1 TTATAAAAAAAAAAA
69728246 TTATAAAAAAAAAAA
1 TTATAAAAAAAAAAA
69728261 AGAAAAAATC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
13 1 0.03
14 7 0.19
15 17 0.47
16 5 0.14
17 6 0.17
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (15 bp):
TTATAAAAAAAAAAA
Found at i:69729868 original size:19 final size:19
Alignment explanation
Indices: 69729844--69729880 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
69729834 TTAGGAAATA
*
69729844 GACAAATTAGTTTCTATTT
1 GACAAATCAGTTTCTATTT
*
69729863 GACAAATCAGTTTGTATT
1 GACAAATCAGTTTCTATT
69729881 GAATTATTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (19 bp):
GACAAATCAGTTTCTATTT
Found at i:69730022 original size:202 final size:202
Alignment explanation
Indices: 69729581--69730064 Score: 657
Period size: 202 Copynumber: 2.4 Consensus size: 202
69729571 AGTAAATGGA
* * * * * **
69729581 AGGTTTGGATTTTTCTAAAGTCATGGTCTACCATGTGCATACAAATAGCCTTAGGTTTAAGGTTA
1 AGGTTTGGATTTTTCTAAAGTTATTGTCTACCATGTGCATACTAATAGCCTTAGG--AAAAGACA
* * * * *
69729646 AATCAGTTCCTATTTGACAAATCAGTTTTTATTGAATTATTCAAAATTGTGTATGTGATTGAATT
64 AATCAGTTCCTATTTGACAAATCAGTTTGTATTGAATTATTCAAAACTATGTATGTCATTCAATT
* * *
69729711 ATTCAAATACGATTCAAAACATTTTTTTAAATGTTGGTTCAAATATGATTATTGTTTATATCAAA
129 ATTCAAATACGATCCAAAACATTTTTTTAAATGTTGGTTCAAATAGGATCATTGTTTATATCAAA
*
69729776 TTGAATTGT
194 TTGAATTGC
* * *
69729785 AGGTTTAGATTTTTCT-AAGTTGTTGTCTACCATGTGCATACTACTAGCCTTAGGAAATAGACAA
1 AGGTTTGGATTTTTCTAAAGTTATTGTCTACCATGTGCATACTAATAGCCTTAGGAAA-AGACAA
* * *
69729849 ATTAGTTTCTATTTGACAAATCAGTTTGTATTGAATTATTCGAAACTATGTATGTCATTCAATTA
65 ATCAGTTCCTATTTGACAAATCAGTTTGTATTGAATTATTCAAAACTATGTATGTCATTCAATTA
* * * *
69729914 TTTAAATATGATCCAAAACA-TTTTTTAAATGTTGGTTCAAATAGGATCGTTGTTTGTATCAAAT
130 TTCAAATACGATCCAAAACATTTTTTTAAATGTTGGTTCAAATAGGATCATTGTTTATATCAAAT
69729978 TGAATTGC
195 TGAATTGC
* *
69729986 AGGTTTGGATTTTTCTAAAGTTATTGTCTGCCATGTGCATACTAATAACCTTAGGAAAGAGACAA
1 AGGTTTGGATTTTTCTAAAGTTATTGTCTACCATGTGCATACTAATAGCCTTAGGAAA-AGACAA
*
69730051 ATCAATTCCTATTT
65 ATCAGTTCCTATTT
69730065 TTATGACTAA
Statistics
Matches: 243, Mismatches: 35, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
201 64 0.26
202 131 0.54
203 33 0.14
204 15 0.06
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (202 bp):
AGGTTTGGATTTTTCTAAAGTTATTGTCTACCATGTGCATACTAATAGCCTTAGGAAAAGACAAA
TCAGTTCCTATTTGACAAATCAGTTTGTATTGAATTATTCAAAACTATGTATGTCATTCAATTAT
TCAAATACGATCCAAAACATTTTTTTAAATGTTGGTTCAAATAGGATCATTGTTTATATCAAATT
GAATTGC
Found at i:69730291 original size:46 final size:46
Alignment explanation
Indices: 69730233--69730395 Score: 163
Period size: 46 Copynumber: 3.6 Consensus size: 46
69730223 GATACTGTTT
*
69730233 TGGATTTATTTGTATTAAATTGTTTGGTTATTGTACATGACA-AACA
1 TGGATTTCTTTGTATTAAATTGTTTGGTTATTGTACATGACAGAA-A
* ** * **
69730279 TGGGTTTCTTTGTATTTTATTGTCT-GCCATGTGT--ATGACAGAAA
1 TGGATTTCTTTGTATTAAATTGTTTGGTTAT-TGTACATGACAGAAA
* *
69730323 TGGATTTGTTTGTATTAAATTGTTTGGTTATTGTACATGATAGAAA
1 TGGATTTCTTTGTATTAAATTGTTTGGTTATTGTACATGACAGAAA
* * * *
69730369 TTGATTTATTTGTCTTGAATTGTTTGG
1 TGGATTTCTTTGTATTAAATTGTTTGG
69730396 CTATCTCTGT
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
44 30 0.32
45 8 0.09
46 55 0.59
ACGTcount: A:0.25, C:0.06, G:0.21, T:0.48
Consensus pattern (46 bp):
TGGATTTCTTTGTATTAAATTGTTTGGTTATTGTACATGACAGAAA
Done.