Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 110 of 259
Found at i:35461892 original size:46 final size:45
Alignment explanation
Indices: 35461750--35462011 Score: 210
Period size: 46 Copynumber: 5.6 Consensus size: 45
35461740 GTAAGGTGCT
* *
35461750 GATGCCATGTCCCAGACATGGT-TTACACTGGCTCACATCTCAAGTC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCT-TCATCTCAAGCC
* * * **
35461796 GATGGCATGTCCCAGTCATGGTCTTTCATTAACTTTCATCTCATAGCC
1 GAT-GCATGTCCCAGACATGGTCTTACACTGGC-TTCATCTCA-AGCC
* *
35461844 GATGCATGTCCCAGACAT-GTCTTACACTGGCTTACTTCTCGAGGCC
1 GATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTC-AAGCC
* * * *
35461890 GATGCATGTCCCAGACAT-ATCTTACACTAGCCCTT-GTCTCAATGTC
1 GATGCATGTCCCAGACATGGTCTTACACT-G-GCTTCATCTCAA-GCC
* * ***
35461936 GATGCCATGTCCCAGACATGGCCTTACACTGGCTCTCATAATGTGGCC
1 GATG-CATGTCCCAGACATGGTCTTACACTGGCT-TCAT-CTCAAGCC
35461984 GATGCATGTCCCAGACAT-GTCTTACACT
1 GATGCATGTCCCAGACATGGTCTTACACT
35462012 AGCTCACACA
Statistics
Matches: 173, Mismatches: 29, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
45 3 0.02
46 84 0.49
47 60 0.35
48 25 0.14
49 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCAAGCC
Found at i:35461993 original size:94 final size:92
Alignment explanation
Indices: 35461843--35462014 Score: 249
Period size: 94 Copynumber: 1.8 Consensus size: 92
35461833 ATCTCATAGC
* **
35461843 CGATGCATGTCCCAGACATGTCTTACACTGGCTTACTTCTCGAGGCCGATGCATGTCCCAGACAT
1 CGATGCATGTCCCAGACATGCCTTACACTGGCTTACTAATCGAGGCCGATGCATGTCCCAGACAT
35461908 ATCTTACACTAGCCCTTGTCTCAATGT
66 ATCTTACACTAGCCCTTGTCTCAATGT
*
35461935 CGATGCCATGTCCCAGACATGGCCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GCCTTACACTGGCT-TAC-TAATCGAGGCCGATGCATGTCCCAG
*
35461998 ACATGTCTTACACTAGC
62 ACATATCTTACACTAGC
35462015 TCACACACGA
Statistics
Matches: 71, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
92 5 0.07
93 14 0.20
94 49 0.69
95 3 0.04
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGCCTTACACTGGCTTACTAATCGAGGCCGATGCATGTCCCAGACAT
ATCTTACACTAGCCCTTGTCTCAATGT
Found at i:35466786 original size:47 final size:49
Alignment explanation
Indices: 35466663--35466791 Score: 145
Period size: 47 Copynumber: 2.6 Consensus size: 49
35466653 TCGTCCATTC
* * * *
35466663 GAAACACTATTTGTGGACAAGCCACCACTGATTTACAGATAAACTGGCATT
1 GAAACAC--TTTGTGGACAAGCCACCACTGATATACAAATAAACTGCCACT
* * **
35466714 GATAACATTTTGTGGACAAGCCACCA-T-ATATGCAAATATGCTGCCACT
1 GA-AACACTTTGTGGACAAGCCACCACTGATATACAAATAAACTGCCACT
35466762 GAAACACTTTGTGGACAAGCCACCACTGAT
1 GAAACACTTTGTGGACAAGCCACCACTGAT
35466792 TTATAGAAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
47 22 0.33
48 17 0.26
49 3 0.05
50 18 0.27
51 2 0.03
52 4 0.06
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (49 bp):
GAAACACTTTGTGGACAAGCCACCACTGATATACAAATAAACTGCCACT
Found at i:35468877 original size:17 final size:17
Alignment explanation
Indices: 35468838--35468887 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
35468828 TATGGAAAGT
* *
35468838 AATCATAGAATATTAGC
1 AATCTTAGAATATTTGC
*
35468855 AATCTTAGAATATTTGT
1 AATCTTAGAATATTTGC
* *
35468872 AGTCTTAGAAGATTTG
1 AATCTTAGAATATTTG
35468888 ATTCTGTAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (17 bp):
AATCTTAGAATATTTGC
Found at i:35470559 original size:31 final size:31
Alignment explanation
Indices: 35470518--35470586 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
35470508 TTAAATTATT
* *
35470518 AATGAT-AAAATTTTATTTTAGCCTTTAAAA
1 AATGATAAAAATTTGATTTAAGCCTTTAAAA
*
35470548 AATGATAAAAATTTGATTTAATCCTTTAAAA
1 AATGATAAAAATTTGATTTAAGCCTTTAAAA
*
35470579 TAT-ATAAA
1 AATGATAAA
35470587 GATATAGACT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (31 bp):
AATGATAAAAATTTGATTTAAGCCTTTAAAA
Found at i:35478008 original size:69 final size:71
Alignment explanation
Indices: 35477926--35478060 Score: 177
Period size: 69 Copynumber: 1.9 Consensus size: 71
35477916 ATATGTGAGG
* * * * * * *
35477926 TTATATTGAACTTGTATATTTGGTTACATGTGA-GGTTATATTGAATTTGTATA-TCGGCCATAT
1 TTATATTGAACTTGAACATTAGGTTACATGTAATGATT-TATTGAACTTATATATTCGGCCATAT
35477989 GACATGT
65 GACATGT
35477996 TTAT-TTGAACTTGAACATTAGGTTACATGTAATGATTTATTGAACTTATATATTCGGCCATATG
1 TTATATTGAACTTGAACATTAGGTTACATGTAATGATTTATTGAACTTATATATTCGGCCATATG
35478060 A
66 A
35478061 AATAATATAA
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
69 37 0.66
70 19 0.34
ACGTcount: A:0.30, C:0.10, G:0.18, T:0.43
Consensus pattern (71 bp):
TTATATTGAACTTGAACATTAGGTTACATGTAATGATTTATTGAACTTATATATTCGGCCATATG
ACATGT
Found at i:35482666 original size:45 final size:45
Alignment explanation
Indices: 35482600--35483001 Score: 563
Period size: 45 Copynumber: 8.9 Consensus size: 45
35482590 GATTATCATT
*
35482600 TCACCGGCATTATAGCCTGCTAGGCTCGAAA-GCCCGAATAGTATC
1 TCACCGGCATCATAGCCTGCTAGGCTC-AAAGGCCCGAATAGTATC
* * * * * *
35482645 TTACCGACATTATAGCGTGCTAGGCTCAAAGGCCCAAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
35482690 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * *
35482735 TCACCGACATCATAGCCTGCTAGGTTCAAAGGCCTGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * * * * *
35482780 TCACCAGCATCATAACCTGGTAGGCTCAAAGGTCCAAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
35482825 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
35482870 TCACCGGCATCTTAGCCTGCTAGGCTCAAAGGCCCGAACAATATC
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* *
35482915 TCACCGGCATCATAGCCTACTAGGCTCAAAGGCCCGAATAGTATT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
*
35482960 TCACCGGCATCATAGCCTGCTACGCTCAAAGGCCCGAATAGT
1 TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGT
35483002 CAAATCAACG
Statistics
Matches: 313, Mismatches: 43, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
44 3 0.01
45 310 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (45 bp):
TCACCGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:35487208 original size:29 final size:29
Alignment explanation
Indices: 35487140--35487212 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
35487130 CTTAATAATC
*
35487140 AACTGCGCACACTTAGTGCCATGTACTTTA
1 AACT-CGCACACTTAGTGCCATGCACTTTA
*
35487170 AACTCACACACTTAGTGCCATGCA-TTTCA
1 AACTCGCACACTTAGTGCCATGCACTTT-A
**
35487199 AGTTCGCACACTTA
1 AACTCGCACACTTA
35487213 CCTTTTCCGC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
28 3 0.08
29 30 0.81
30 4 0.11
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (29 bp):
AACTCGCACACTTAGTGCCATGCACTTTA
Found at i:35487324 original size:174 final size:174
Alignment explanation
Indices: 35487034--35487362 Score: 604
Period size: 174 Copynumber: 1.9 Consensus size: 174
35487024 AACTCAAGGT
* *
35487034 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* * *
35487099 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACTGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
35487164 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
35487208 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
35487273 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
35487338 ACTTTAAACTCACACACTTAGTGCC
131 ACTTTAAACTCACACACTTAGTGCC
35487363 GTACAATTTA
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:35487355 original size:29 final size:29
Alignment explanation
Indices: 35487321--35487392 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
35487311 ATCAACCGCG
* * *
35487321 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
* *
35487350 CACACTTAGTGCCGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
35487379 CACACTTAGTGCCA
1 CACACTTAGTGCCA
35487393 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:35491854 original size:20 final size:20
Alignment explanation
Indices: 35491829--35491870 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
35491819 ATACGCAAGG
35491829 TATGCTTCGCACCCTCTTCT
1 TATGCTTCGCACCCTCTTCT
35491849 TATGCTTCGCACCCTCTTCT
1 TATGCTTCGCACCCTCTTCT
35491869 TA
1 TA
35491871 CATATTTCTG
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:0.12, C:0.38, G:0.10, T:0.40
Consensus pattern (20 bp):
TATGCTTCGCACCCTCTTCT
Found at i:35495299 original size:29 final size:29
Alignment explanation
Indices: 35495236--35495303 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
35495226 TAATCAACCG
*
35495236 CGCACACTTAGTGCCATGTACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* * **
35495265 CACACACTTAGTGTCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
35495294 CGCACACTTA
1 CGCACACTTA
35495304 CCTTTTCCGC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 3 0.09
29 29 0.91
ACGTcount: A:0.28, C:0.28, G:0.13, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:35495415 original size:174 final size:174
Alignment explanation
Indices: 35495125--35495451 Score: 600
Period size: 174 Copynumber: 1.9 Consensus size: 174
35495115 AACTCAAGGT
* *
35495125 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCACACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
* *
35495190 GAAAATATATATTGAGTTCGCACACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGT
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
35495255 ACTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
*
35495299 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
*
35495364 GAAAATATATATTGGGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
35495429 ACTTTAAACTCACACACTTAGTG
131 ACTTTAAACTCACACACTTAGTG
35495452 CCGTACAATT
Statistics
Matches: 147, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCACACCCTTAATGTAAATAATTTATA
GAAAATATATATTGAGTTCGCACACATAGTGCTCAATAATCAACCGCGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGTCATGCATTTCAAGTTCGCAC
Found at i:35495446 original size:29 final size:29
Alignment explanation
Indices: 35495412--35495483 Score: 99
Period size: 29 Copynumber: 2.5 Consensus size: 29
35495402 ATCAACCGCG
* * *
35495412 CACACTTAGTGCCATGCACTTTAAACTCA
1 CACACTTAGTGCCATACAATTTAAACCCA
* *
35495441 CACACTTAGTGCCGTACAATTTAAACCCG
1 CACACTTAGTGCCATACAATTTAAACCCA
35495470 CACACTTAGTGCCA
1 CACACTTAGTGCCA
35495484 ATCTCATGAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.31, C:0.32, G:0.12, T:0.25
Consensus pattern (29 bp):
CACACTTAGTGCCATACAATTTAAACCCA
Found at i:35507873 original size:91 final size:93
Alignment explanation
Indices: 35507653--35507876 Score: 287
Period size: 91 Copynumber: 2.5 Consensus size: 93
35507643 AATACCATAG
* * * * *
35507653 TAATACACAAATTGATAG-TTCATGTACTACATTGGA-AATTTCAAAGTATAAAATACCACATTG
1 TAATACACAAATTGATAGTTTCAGGTACCACATTAGATATTTTCAAAGTATAAAATACCACATTC
*
35507716 GACATTTTATGGAAATACAGGTACCAAA
66 GACATTTTATGAAAATACAGGTACCAAA
* * * *
35507744 TAATACACAAATTAATAGTTT-AGGTACCACTTTAGATATTTTCAAAGTA-CATATACCACATTC
1 TAATACACAAATTGATAGTTTCAGGTACCACATTAGATATTTTCAAAGTATAAAATACCACATTC
* *
35507807 GACATTTTATGAAAATACATGTTCCAAA
66 GACATTTTATGAAAATACAGGTACCAAA
* *
35507835 TATTACACATATTGATAGTTTCA-GTACCACATTAGATATTTT
1 TAATACACAAATTGATAGTTTCAGGTACCACATTAGATATTTT
35507877 TAATTATAAC
Statistics
Matches: 114, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
91 100 0.88
92 14 0.12
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.34
Consensus pattern (93 bp):
TAATACACAAATTGATAGTTTCAGGTACCACATTAGATATTTTCAAAGTATAAAATACCACATTC
GACATTTTATGAAAATACAGGTACCAAA
Found at i:35509214 original size:99 final size:99
Alignment explanation
Indices: 35509043--35509243 Score: 366
Period size: 99 Copynumber: 2.0 Consensus size: 99
35509033 AATTATTAAC
* *
35509043 CAGCATGCAATTACAATAAAGTAGTATAAAATGCAGAGGACAAGGCAAGAATGCATAGACACTCC
1 CAGCATGCAATTACAAAAAAGTAGTATAAAATGCAGAGGACAAGGCAAGAATGCATAGACACACC
*
35509108 TGTTTCTTGTGGGTGTTATGATTACAGAGAAAAA
66 TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
*
35509142 CAGCATGCAATTACAAAAAAGTTGTATAAAATGCAGAGGACAAGGCAAGAATGCATAGACACACC
1 CAGCATGCAATTACAAAAAAGTAGTATAAAATGCAGAGGACAAGGCAAGAATGCATAGACACACC
35509207 TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
66 TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
35509241 CAG
1 CAG
35509244 AAATTCAGCA
Statistics
Matches: 98, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
99 98 1.00
ACGTcount: A:0.40, C:0.14, G:0.22, T:0.23
Consensus pattern (99 bp):
CAGCATGCAATTACAAAAAAGTAGTATAAAATGCAGAGGACAAGGCAAGAATGCATAGACACACC
TATTTCTTGTGGGTGTTATGATTACAGAGAAAAA
Found at i:35512090 original size:27 final size:27
Alignment explanation
Indices: 35512049--35512144 Score: 156
Period size: 27 Copynumber: 3.6 Consensus size: 27
35512039 GTGGAGAGTG
*
35512049 TCAGATAGGCGGCACCAGTTGTGCCTA
1 TCAGATAGGCAGCACCAGTTGTGCCTA
35512076 TCAGATAGGCAGCACCAGTTGTGCCTA
1 TCAGATAGGCAGCACCAGTTGTGCCTA
*
35512103 TCAGATAGGCAGCACTAGTTGTGCCTA
1 TCAGATAGGCAGCACCAGTTGTGCCTA
* *
35512130 TCTGATAGGCGGCAC
1 TCAGATAGGCAGCAC
35512145 ACCCAGTATA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (27 bp):
TCAGATAGGCAGCACCAGTTGTGCCTA
Found at i:35512233 original size:9 final size:9
Alignment explanation
Indices: 35512221--35512258 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
35512211 AGAGAGGGAG
35512221 AAGAGAAGA
1 AAGAGAAGA
35512230 AAGA-AAGAA
1 AAGAGAAG-A
35512239 AAGAGAAGA
1 AAGAGAAGA
*
35512248 AAGAAAAGA
1 AAGAGAAGA
35512257 AA
1 AA
35512259 TGTAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 3 0.12
9 20 0.77
10 3 0.12
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (9 bp):
AAGAGAAGA
Found at i:35512244 original size:18 final size:19
Alignment explanation
Indices: 35512221--35512258 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
35512211 AGAGAGGGAG
35512221 AAGAGAAGAAAG-AAAGAA
1 AAGAGAAGAAAGAAAAGAA
35512239 AAGAGAAGAAAGAAAAGAA
1 AAGAGAAGAAAGAAAAGAA
35512258 A
1 A
35512259 TGTAATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAAGAAAAGAA
Found at i:35515202 original size:64 final size:64
Alignment explanation
Indices: 35515100--35515255 Score: 262
Period size: 64 Copynumber: 2.5 Consensus size: 64
35515090 TGAGCTCATG
* * *
35515100 TAATTTATATAA-A-AAATTATATTACAAAGTTTGTTCCAATTAAATTATGGTTGTAATGTATT
1 TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAAATTATGATTGTAATGTATT
*
35515162 TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAGATTATGATTGTAATGTATT
1 TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAAATTATGATTGTAATGTATT
35515226 TAATTTATATAACATAATTTATATTACAAA
1 TAATTTATATAACATAATTTATATTACAAA
35515256 ACTAAGTTTG
Statistics
Matches: 88, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
62 12 0.14
63 1 0.01
64 75 0.85
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (64 bp):
TAATTTATATAACATAATTTATATTACAAAGTTTGCTCCAATTAAATTATGATTGTAATGTATT
Found at i:35515711 original size:33 final size:33
Alignment explanation
Indices: 35515674--35515780 Score: 108
Period size: 33 Copynumber: 3.2 Consensus size: 33
35515664 AGTATTATGT
35515674 TGGATACGGGCCGAGGGGAGTGCTGTACTGCGG
1 TGGATACGGGCCGAGGGGAGTGCTGTACTGCGG
* * * * *
35515707 TGGATACGAGCTG-GGAGGAGTGTTGTACTACAG
1 TGGATACGGGCCGAGG-GGAGTGCTGTACTGCGG
* * * * *
35515740 TGGATACAGGCCAAGAGGAGTGCTATACTGCGA
1 TGGATACGGGCCGAGGGGAGTGCTGTACTGCGG
35515773 TGGATACG
1 TGGATACG
35515781 ACCCAAAGAT
Statistics
Matches: 56, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
32 2 0.04
33 53 0.95
34 1 0.02
ACGTcount: A:0.23, C:0.16, G:0.40, T:0.21
Consensus pattern (33 bp):
TGGATACGGGCCGAGGGGAGTGCTGTACTGCGG
Found at i:35518026 original size:110 final size:112
Alignment explanation
Indices: 35517825--35518048 Score: 328
Period size: 110 Copynumber: 2.0 Consensus size: 112
35517815 AACAAAAAAA
*
35517825 TTATATTAAAATACTAAAAATAATATGCCAATAAAAAAAAACATAACATAAACGATACATAATAA
1 TTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAAACATAACATAAACGATACATAATAA
* ** * *
35517890 ATATGAATATTATTATTATTATTTTAAAATGACAATAAGTAAAT-TT
66 AAAAAAAAATTATTATTATTACTTTAAAATGACAATAAGTAAATATT
* * *
35517936 TTATATTAAAATACTAAAAATAACATGCCAAT-AACAAAAACATAATATAAATGATACATAATAA
1 TTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAAACATAACATAAACGATACATAATAA
*
35518000 AAACAAAAAATT-TTATTATTACTTTAAAATGATAATAAGTAAATATT
66 AAA-AAAAAATTATTATTATTACTTTAAAATGACAATAAGTAAATATT
35518047 TT
1 TT
35518049 TGGTTTAAAT
Statistics
Matches: 101, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
110 61 0.60
111 40 0.40
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (112 bp):
TTATATTAAAATACTAAAAATAACATGCCAATAAAAAAAAACATAACATAAACGATACATAATAA
AAAAAAAAATTATTATTATTACTTTAAAATGACAATAAGTAAATATT
Found at i:35518192 original size:16 final size:17
Alignment explanation
Indices: 35518159--35518194 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
35518149 TATAAAACAT
* *
35518159 AAAATAAGATTTTAAAA
1 AAAATAAAATCTTAAAA
35518176 AAAATAAAATCTTAAAA
1 AAAATAAAATCTTAAAA
35518193 AA
1 AA
35518195 TTAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAATAAAATCTTAAAA
Found at i:35518884 original size:27 final size:27
Alignment explanation
Indices: 35518843--35518899 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
35518833 TGCCAAAATG
* *
35518843 GTGCCGCCTCTGCCAGCCCCTCTACCC
1 GTGCCGCCTCTGCCAGACCCTCCACCC
35518870 GTGCCGCCTAC-GCCAGACCCTCCACCC
1 GTGCCGCCT-CTGCCAGACCCTCCACCC
35518897 GTG
1 GTG
35518900 TCCTATCCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.11, C:0.53, G:0.21, T:0.16
Consensus pattern (27 bp):
GTGCCGCCTCTGCCAGACCCTCCACCC
Found at i:35532426 original size:46 final size:44
Alignment explanation
Indices: 35532330--35532434 Score: 124
Period size: 46 Copynumber: 2.3 Consensus size: 44
35532320 AAGTTGAGGC
* * *
35532330 CATGTCCCAGACATGTCTTATACTGACACATCTCGTAGCTGATG
1 CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGACG
*
35532374 CATGTCCCAGACATGTCTTACACTGGCTTACATCAT-G-AGGCCGACG
1 CATGTCCCAGACATGTCTTACACTGAC--ACATC-TCGTA-GCCGACG
35532420 CATGTCCCAGACATG
1 CATGTCCCAGACATG
35532435 CTCTCGTCTC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
44 25 0.47
45 1 0.02
46 26 0.49
47 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (44 bp):
CATGTCCCAGACATGTCTTACACTGACACATCTCGTAGCCGACG
Found at i:35533609 original size:399 final size:394
Alignment explanation
Indices: 35532876--35533656 Score: 1103
Period size: 399 Copynumber: 2.0 Consensus size: 394
35532866 CCATTTTTCC
* *
35532876 TGTAACACCCCGAACCCAAGACCGTCGCCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCA
1 TGTAACACCCCGAACCCAAGACCGACACCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCA
*
35532941 CTTATTAAAATTTTTCCAGACAAGCTGTCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTG
66 CTTATTAAAATTTTTCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTG
*
35533006 AGCTCTGGAACTCGAATCCAGTTCCGTGAATTTTCCCTGAAACTAGACTCATATTCCCATCTACA
131 AGCTCTGGAACTCGAATCCAGTTCCGTGAATTTTCCCAGAAACTAGACTCATATTCCCATCTACA
* * * *
35533071 TATTTTTTCTAGAATTTTGGTCGGTCATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACTG
196 TATTTTTTCTAGAATTTTGGTCGGCCATTAGTACAGTTTATTAGTCAAAATCTCCCAAGTTACAG
* * * *
35533136 GGGTCGACTACGCTGACCTTTGCGCATTACGACCTGGATATCTCCCTGTACAGAGCTTCAATACT
261 GGGTCGACTACACTGACCTTTGCCCATTACGACCTGAATATCTCCCTGCACAGAGCTTCAATACT
35533201 GATGCCGTTTGTTTCTAT-AGAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCC
326 GATGCCGTTTGTTTCTATGA-AAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCC
35533265 TAATT
390 TAATT
* * *
35533270 TGTAACACCCCGAACCCGAA-ACCGACACCGGAGTCGAATACGAGGTGTTAACTGACTT-TAACC
1 TGTAACACCCCGAACCC-AAGACCGACACCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACC
* * *
35533333 CCTTA-TAAAATTTATTTTCCAGAC-A-CTGCCCAATCTGTGTACTAGTCGTTTTAAAAATCATA
65 ACTTATTAAAA--T-TTTTCCAGACAAGCTG-CCAATCTGCGTACTAGTCGCTTTAAAAATCATA
* * * *
35533395 TCTTGAG-TTTCGTAACTCGAAAAT-CAGTTTCGT-AATTTTTCCCAGAAACTAGACTCATGTTC
126 TCTTGAGCTCT-GGAACTCG--AATCCAGTTCCGTGAA-TTTTCCCAGAAACTAGACTCATATTC
** *
35533457 CCATCTATGTATTTTTTTCTAGAATTTTTGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAATC
187 CCATCTACATA-TTTTTTCTAGAA-TTTTGG-TCGGCC-ATTAGTACAGTTTATTAGTCAAAATC
* * *
35533522 TCCCAAGTTGCAGGGGTCGACTACACTGACCTTTGCCCATTACGACTTGAATATCTCCCTGCACG
248 TCCCAAGTTACAGGGGTCGACTACACTGACCTTTGCCCATTACGACCTGAATATCTCCCTGCACA
* *
35533587 GGGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTGTACATATA
313 GAGCTTCAATACTGATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTATACATATA
35533652 TGGTA
378 TGGTA
35533657 CGACCCATAA
Statistics
Matches: 343, Mismatches: 30, Indels: 23
0.87 0.08 0.06
Matches are distributed among these distances:
392 5 0.01
393 13 0.04
394 99 0.29
395 53 0.15
396 15 0.04
397 6 0.02
398 4 0.01
399 147 0.43
400 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (394 bp):
TGTAACACCCCGAACCCAAGACCGACACCGGAGTCGAACACGAGGTGTTAACAGACTTCAAACCA
CTTATTAAAATTTTTCCAGACAAGCTGCCAATCTGCGTACTAGTCGCTTTAAAAATCATATCTTG
AGCTCTGGAACTCGAATCCAGTTCCGTGAATTTTCCCAGAAACTAGACTCATATTCCCATCTACA
TATTTTTTCTAGAATTTTGGTCGGCCATTAGTACAGTTTATTAGTCAAAATCTCCCAAGTTACAG
GGGTCGACTACACTGACCTTTGCCCATTACGACCTGAATATCTCCCTGCACAGAGCTTCAATACT
GATGCCGTTTGTTTCTATGAAAACTAGACTCAGAGAGGAATCTATACATATATGGTATGACTCCT
AATT
Found at i:35534652 original size:27 final size:27
Alignment explanation
Indices: 35534622--35534798 Score: 176
Period size: 27 Copynumber: 6.5 Consensus size: 27
35534612 TATTGAGTCT
* *
35534622 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAATCAACTC
* *
35534649 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
*
35534676 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAATC-AACTC
** ** **
35534704 GCACACTTAGTGCCGCATGGTCAGTTC
1 GCACACTTAGTGCTACATAATCAACTC
* **
35534731 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAATCAACTC
* * *
35534758 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAATCAACTC
35534785 GCACACTTAGTGCT
1 GCACACTTAGTGCT
35534799 GTACAATTTA
Statistics
Matches: 127, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAATCAACTC
Found at i:35534760 original size:82 final size:81
Alignment explanation
Indices: 35534647--35534797 Score: 232
Period size: 82 Copynumber: 1.9 Consensus size: 81
35534637 TATAATCAAC
* *
35534647 TCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCACACTT
1 TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCACACTT
35534712 AGTGCCGCATGGTCAGT
65 AGTGCCGCATGGTCAGT
* **
35534729 TCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
1 TCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTT
35534793 AGTGC
65 AGTGC
35534798 TGTACAATTT
Statistics
Matches: 63, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.25
82 47 0.75
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCACACTTA
GTGCCGCATGGTCAGT
Found at i:35540383 original size:23 final size:23
Alignment explanation
Indices: 35540349--35540393 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
35540339 ACCCGCATAC
*
35540349 GTCACCGGAATAGGGTTAAAGGT
1 GTCACCGAAATAGGGTTAAAGGT
35540372 GTCACCGAAATAGGGTTAAAGG
1 GTCACCGAAATAGGGTTAAAGG
35540394 CATCACCGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (23 bp):
GTCACCGAAATAGGGTTAAAGGT
Found at i:35540399 original size:23 final size:23
Alignment explanation
Indices: 35540350--35540401 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
35540340 CCCGCATACG
* **
35540350 TCACCGGAATAGGGTTAAAGGTG
1 TCACCGAAATAGGGTTAAAGGCA
35540373 TCACCGAAATAGGGTTAAAGGCA
1 TCACCGAAATAGGGTTAAAGGCA
35540396 TCACCG
1 TCACCG
35540402 GACATATCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.29, T:0.19
Consensus pattern (23 bp):
TCACCGAAATAGGGTTAAAGGCA
Found at i:35541918 original size:43 final size:42
Alignment explanation
Indices: 35541847--35542012 Score: 140
Period size: 43 Copynumber: 3.9 Consensus size: 42
35541837 TGGAAAGCTC
* * * *
35541847 ATACAATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAATATCCCAGACGTGGTCTTACACGAAATCAA
*
35541889 ATATCGATGCCACTATCCCAGACAG-GGTCTTACACGAAATCAA
1 ATA-CGATGCCAATATCCCAGAC-GTGGTCTTACACGAAATCAA
* * * * * * *
35541932 ATACGATACCGATGTCCTAGACATGGTC-TACACATAAATTATA
1 ATACGATGCCAATATCCCAGACGTGGTCTTACAC-GAAATCA-A
* *
35541975 AGT-CGATGCCAATGTCCCAGATGTGGTCTTACACGAAA
1 A-TACGATGCCAATATCCCAGACGTGGTCTTACACGAAA
35542013 ACACATATCG
Statistics
Matches: 98, Mismatches: 19, Indels: 13
0.75 0.15 0.10
Matches are distributed among these distances:
41 5 0.05
42 26 0.27
43 60 0.61
44 7 0.07
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAATATCCCAGACGTGGTCTTACACGAAATCAA
Found at i:35547382 original size:55 final size:55
Alignment explanation
Indices: 35547293--35547403 Score: 204
Period size: 55 Copynumber: 2.0 Consensus size: 55
35547283 TACCTCCAAA
*
35547293 TTCTAAGACACAGCATCTAAGCATATCCTTGAGTACCTAGATTACTCTTTTCGAC
1 TTCTAAGACACAGCATCTAAGCATATCCTCGAGTACCTAGATTACTCTTTTCGAC
*
35547348 TTCTAAGACACAGCATCTAAGCATATCCTCGAGTACCTGGATTACTCTTTTCGAC
1 TTCTAAGACACAGCATCTAAGCATATCCTCGAGTACCTAGATTACTCTTTTCGAC
35547403 T
1 T
35547404 GACCATCTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (55 bp):
TTCTAAGACACAGCATCTAAGCATATCCTCGAGTACCTAGATTACTCTTTTCGAC
Found at i:35556394 original size:45 final size:45
Alignment explanation
Indices: 35556248--35556773 Score: 268
Period size: 45 Copynumber: 11.8 Consensus size: 45
35556238 AGGGGTGTTA
* *
35556248 CAAGATCTTATCTCCCTG-AGTTGCAGTGGAACAGA-TCGAAAAT-G
1 CAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAG
* ** * * * * **
35556292 AAAAACCTTATCTCTCTAAAGTTGCAGTAGAGTAGGTTGAAG-TAG
1 -CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
35556337 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * *
35556382 CAAGTATTATCTCCCAGAAGTTGTAGTGGAGTAGACTGAAGATAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* *** * **
35556427 C-AGATCTTATCTTCCTGAAGTTATTGTGAAATAGA-TCGAAGATAG
1 CAAG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAG
** * * * * **
35556472 CAAACCTTATCTCTCTGAAATTGCGGTAGAGCAGGTTGAAG-TAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * *
35556516 CAAGTATTATCTCCCTCAAGTTGTAGTGGAGCAGACTGAAGACCA-
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAG
** * * ** *
35556561 CAAACCTTATCTCCCTGAAGTTGCGGTGAAGCAGGTTGAA-AGTAC
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGA-TAG
* * * * * * * *
35556606 CAACTCTTACCTACTTGAAGTTCCAGTGGAGTAGATTGAAGCTA-
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
* * * * **
35556650 CAAATCTCT-TCTCCCTGAAATTACATTGGAGCAGA-TCGAAGCCA-
1 CAAGTCT-TATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGATAG
* * * * * * * * *
35556694 CAATTCTTATCTCTCTGAAGTTGTAGTAGAGAAGAATAAAAATACA
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATA-G
** *
35556740 CAAACCTTATTTCCCTGAAGTTGCAGTGGAGCAG
1 CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAG
35556774 GTTGAAATTA
Statistics
Matches: 358, Mismatches: 105, Indels: 35
0.72 0.21 0.07
Matches are distributed among these distances:
43 2 0.01
44 140 0.39
45 185 0.52
46 31 0.09
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAG
Found at i:35556627 original size:179 final size:176
Alignment explanation
Indices: 35556252--35556803 Score: 484
Period size: 179 Copynumber: 3.1 Consensus size: 176
35556242 GTGTTACAAG
* * * * * * *
35556252 ATCTTATCTCCCTG-AGTTGCAGTGGAACAGATCGAAAATGAAAAACCTTATCTCTCT-AAAGTT
1 ATCTTATCTACTTGAAGTTACAGTGAAATAGATCGAAGAT-ACAAACCTTATCTCTCTGAAA-TT
* * *
35556315 GCAGTAGAGTAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGAT
64 GCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGAC
*** * * * ** *
35556380 AGCAAGTATTATCTCCCAGAAGTTGTAGTGGAGTAGACTG-AAGATAGCA
129 A-CAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAG-TACCA
* * **
35556429 GATCTTATCTTCCTGAAGTTATTGTGAAATAGATCGAAGATAGCAAACCTTATCTCTCTGAAATT
1 -ATCTTATCTACTTGAAGTTACAGTGAAATAGATCGAAGATA-CAAACCTTATCTCTCTGAAATT
* * *
35556494 GCGGTAGAGCAGGTTGAAGTAGCAAGTATTATCTCCCTCAAGTTGTAGTGGAGCAGACTGAAGAC
64 GCAGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGA-
* *
35556559 CACAAACCTTATCTCCCTGAAGTTGCGGTGAAGCAGGTTGAAAGTACCA
128 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAGTACCA
* * * * * * * *
35556608 ACTCTTACCTACTTGAAGTTCCAGTGGAGTAGATTGAAGCTACAAATCTCT-TCTCCCTGAAATT
1 A-TCTTATCTACTTGAAGTTACAGTGAAATAGATCGAAGATACAAACCT-TATCTCTCTGAAATT
* * * * * * * * * * * *
35556672 ACATTGGAGCAGATCGAAGCCA-CAATTCTTATCTCTCTGAAGTTGTAGTAGAGAAGAATAAAAA
64 GCAGTAGAGCAGGTTGAAG-TAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACT--GAA
* * *
35556736 TACACAAACCTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCA
126 GACACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAGTACCA
*
35556787 ATTCTTATCTCCTTGAA
1 A-TCTTATCTACTTGAA
35556804 CTTTCAGCAG
Statistics
Matches: 304, Mismatches: 60, Indels: 19
0.79 0.16 0.05
Matches are distributed among these distances:
178 76 0.25
179 218 0.72
180 10 0.03
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (176 bp):
ATCTTATCTACTTGAAGTTACAGTGAAATAGATCGAAGATACAAACCTTATCTCTCTGAAATTGC
AGTAGAGCAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTGAAGACAC
AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAAGTACCA
Found at i:35556645 original size:134 final size:133
Alignment explanation
Indices: 35556294--35556646 Score: 345
Period size: 134 Copynumber: 2.6 Consensus size: 133
35556284 CGAAAATGAA
* * * * *
35556294 AAACCTTATCTCTCTAAAGTTGCAGT-AGAGTAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGA-AGTAGGTTGAAGTACCAACTCTTATCT-CTTGAAGT
* * *
35556358 TGCAGTGGAGCAGACTGAAGATAGCAAGTATTATCTCCCAGAAGTTGTAGTGGAGTAGACTGAAG
64 TGCAGTGGAGCAGATTGAAGATAGCAAGTATTATCTCCCACAAGTTGTAGTGGAGCAGACTGAAG
*
35556423 ATAGC
129 ACAGC
* * * *** * * * * *
35556428 AGATCTTATCTTCCTGAAGTTATTGTGAAATAGATCGAAGATAGCAAAC-CTTATCTCTCTGAAA
1 AAACCTTATCTCCCTGAAGTTGCAGTGAAGTAGGTTGAAG-TA-CCAACTCTTATCTCT-TGAAG
* * * *
35556492 TTGCGGTAGAGCAGGTTGAAG-TAGCAAGTATTATCTCCCTCAAGTTGTAGTGGAGCAGACTGAA
63 TTGCAGTGGAGCAGATTGAAGATAGCAAGTATTATCTCCCACAAGTTGTAGTGGAGCAGACTGAA
35556556 GACCA-C
128 GA-CAGC
* * *
35556562 AAACCTTATCTCCCTGAAGTTGCGGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGAAGTAGGTTG-AAGTACCAACTCTTATCT-CTTGAAGT
* *
35556627 TCCAGTGGAGTAGATTGAAG
64 TGCAGTGGAGCAGATTGAAG
35556647 CTACAAATCT
Statistics
Matches: 169, Mismatches: 42, Indels: 16
0.74 0.19 0.07
Matches are distributed among these distances:
133 4 0.02
134 126 0.75
135 37 0.22
136 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (133 bp):
AAACCTTATCTCCCTGAAGTTGCAGTGAAGTAGGTTGAAGTACCAACTCTTATCTCTTGAAGTTG
CAGTGGAGCAGATTGAAGATAGCAAGTATTATCTCCCACAAGTTGTAGTGGAGCAGACTGAAGAC
AGC
Found at i:35556653 original size:89 final size:88
Alignment explanation
Indices: 35556294--35556850 Score: 293
Period size: 89 Copynumber: 6.2 Consensus size: 88
35556284 CGAAAATGAA
* * * * * *
35556294 AAACCTTATCTCTCTAAAGTTGCAGT-AGAGTAGGTTGAAGTAGCAAGTCTTATCTCCCTGAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGA-AGCAGGTTGAAGTACCAATTCTTATCTCCTTGAAGT
* * * *
35556358 TGCAGTGGAGCAGACTGAAGATAGC
65 TGCAGTAGAGTAGATTGAAGCTA-C
*** * * * * ** *
35556383 AAGTATTATCTCCCAGAAGTTGTAGTGGAGTAGACTGAAGATAGCAGA-TCTTATCTTCC-TGAA
1 AAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAG-TACCA-ATTCTTATC-TCCTTGAA
*** * * *
35556446 GTTATTGT-GAAATAGATCGAAGATAGC
63 GTTGCAGTAG-AGTAGATTGAAGCTA-C
* * * * * * * *
35556473 AAACCTTATCTCTCTGAAATTGCGGT-AGAGCAGGTTGAAGTAGCAAGTATTATCTCCCTCAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGA-AGCAGGTTGAAGTACCAATTCTTATCTCCTTGAAGT
* * * * *
35556537 TGTAGTGGAGCAGACTGAAGACCAC
65 TGCAGTAGAGTAGATTGAAG-CTAC
* * * *
35556562 AAACCTTATCTCCCTGAAGTTGCGGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGAAGT
1 AAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTG-AAGTACCAATTCTTATCTCCTTGAAGT
* *
35556627 TCCAGTGGAGTAGATTGAAGCTAC
65 TGCAGTAGAGTAGATTGAAGCTAC
* * * * * * * *
35556651 AAATCTCT-TCTCCCTGAAATTACATTGGAGCAGATCGAAG-CCACAATTCTTATCT-CTCTGAA
1 AAACCT-TATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGTAC-CAATTCTTATCTCCT-TGAA
* * * * **
35556713 GTTGTAGTAGAGAAGAATAAAAATACAC
63 GTTGCAGTAGAGTAGATTGAAGCT--AC
* * * *
35556741 AAACCTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGAACT
1 AAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTG-AAGTACCAATTCTTATCTCCTTGAAGT
* * *
35556806 TTCAGCAGAGTAGATCGAAGCTAC
65 TGCAGTAGAGTAGATTGAAGCTAC
* * *
35556830 AAATCTTTTTTCCCTGAAGTT
1 AAACCTTATCTCCCTGAAGTT
35556851 ACATTGGAGC
Statistics
Matches: 354, Mismatches: 93, Indels: 42
0.72 0.19 0.09
Matches are distributed among these distances:
87 3 0.01
88 37 0.10
89 144 0.41
90 131 0.37
91 36 0.10
92 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (88 bp):
AAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAGTACCAATTCTTATCTCCTTGAAGTT
GCAGTAGAGTAGATTGAAGCTAC
Found at i:35556819 original size:179 final size:179
Alignment explanation
Indices: 35556559--35556892 Score: 483
Period size: 179 Copynumber: 1.9 Consensus size: 179
35556549 GACTGAAGAC
*
35556559 CACAAACCTTATCTCCCTGAAGTTGCGGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
* ** *
35556624 AGTTCCAGTGGAGTAGATTGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
66 ACTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
*
35556689 AGC-CACAATTCTTAT-CTCTCTGAAGTTGTAGTAGAGAAGAATAAAAATA
131 AGCAC-CAATTCCTATAC-CTCTGAAGTTGTAGTAGAGAAGAATAAAAATA
* * * * * *
35556738 CACAAACCTTATTTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACCAATTCTTATCTCCTTGA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
* * * * *
35556803 ACTTTCAGCAGAGTAGATCGAAGCTACAAATCTTTTTTCCCTGAAGTTACATTGGAGCGGATCGA
66 ACTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
35556868 AGCACCAATTCCTATACCTCTGAAG
131 AGCACCAATTCCTATACCTCTGAAG
35556893 ATACAATGGA
Statistics
Matches: 136, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
179 134 0.99
180 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (179 bp):
CACAAACCTTATCTCCCTGAAGTTGCAGTGAAGCAGGTTGAAAGTACCAACTCTTACCTACTTGA
ACTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAATTACATTGGAGCAGATCGA
AGCACCAATTCCTATACCTCTGAAGTTGTAGTAGAGAAGAATAAAAATA
Found at i:35557783 original size:3 final size:3
Alignment explanation
Indices: 35557770--35557949 Score: 134
Period size: 3 Copynumber: 60.3 Consensus size: 3
35557760 TTGAGTTTTA
* * *
35557770 TAT TCAT TAT TAT TA- TATT TAT TAT TAT T-T CTGT TAT TAT TTT TGT
1 TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * * *
35557816 TAT TAC TGT TAC TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * * * *
35557864 CAC TAT TAT TAT TAT T-T TAT CAC TAC TGT CAT TAT TAT TA- TAG TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
35557910 TAT TAG TAT TAT TAT TAC TAT TAT TTT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35557950 TTTAAAACCA
Statistics
Matches: 139, Mismatches: 31, Indels: 14
0.76 0.17 0.08
Matches are distributed among these distances:
2 7 0.05
3 126 0.91
4 6 0.04
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:35558061 original size:20 final size:19
Alignment explanation
Indices: 35558036--35558096 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 19
35558026 TAGAATTTCC
35558036 TTTATTATTTCATTAATTAT
1 TTTATTATTTCATT-ATTAT
*
35558056 TTTATTTATTTCATTTTTAT
1 TTTA-TTATTTCATTATTAT
* *
35558076 TTTATTCTTGTCCTTATTAT
1 TTTATTATT-TCATTATTAT
35558096 T
1 T
35558097 ATTACCTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 4 0.11
20 21 0.60
21 10 0.29
ACGTcount: A:0.21, C:0.08, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTATTATTTCATTATTAT
Found at i:35558114 original size:15 final size:15
Alignment explanation
Indices: 35558086--35558124 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
35558076 TTTATTCTTG
35558086 TCCTTATTATTATTA
1 TCCTTATTATTATTA
35558101 -CCTTATTATATATTA
1 TCCTTATTAT-TATTA
35558116 TCC-TATTAT
1 TCCTTATTAT
35558125 GTGCCTATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 11 0.50
16 2 0.09
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.56
Consensus pattern (15 bp):
TCCTTATTATTATTA
Found at i:35562736 original size:31 final size:31
Alignment explanation
Indices: 35562695--35562758 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
35562685 CCTTTTCATA
*
35562695 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
** *
35562726 TTTCAAATTTCATATTACTGGGCTGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
35562757 TT
1 TT
35562759 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:35563004 original size:24 final size:24
Alignment explanation
Indices: 35562972--35563117 Score: 215
Period size: 24 Copynumber: 6.2 Consensus size: 24
35562962 GCCTTACCTA
*
35562972 TTTTAATAACTGGGGCAAAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
35562996 TTTTTATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
35563020 -TTTAATAACTGGGGCGTAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
* *
35563043 TTTTGATAACTGGGGCATAAGTCC
1 TTTTAATAACTGGGGCATAAGCCC
*
35563067 TTTTGATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
*
35563091 -GTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCC
35563114 TTTT
1 TTTT
35563118 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
23 42 0.39
24 67 0.61
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (24 bp):
TTTTAATAACTGGGGCATAAGCCC
Found at i:35563055 original size:71 final size:71
Alignment explanation
Indices: 35562972--35563117 Score: 238
Period size: 71 Copynumber: 2.1 Consensus size: 71
35562962 GCCTTACCTA
* * *
35562972 TTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCCTTTAATAACTGGGGCGT
1 TTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCGTTAATAACTGGGGCAT
35563037 AAGCCC
66 AAGCCC
* * *
35563043 TTTTGATAACTGGGGCATAAGTCCTTTTGATAACTGGGGCATAAGCCCGTTAATAACTGGGGCAT
1 TTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCGTTAATAACTGGGGCAT
35563108 AAGCCC
66 AAGCCC
35563114 TTTT
1 TTTT
35563118 TCACTTCCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (71 bp):
TTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGCCCGTTAATAACTGGGGCAT
AAGCCC
Found at i:35563117 original size:47 final size:48
Alignment explanation
Indices: 35562972--35563117 Score: 215
Period size: 47 Copynumber: 3.1 Consensus size: 48
35562962 GCCTTACCTA
* *
35562972 TTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * *
35563020 -TTTAATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGTCC
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
* *
35563067 TTTTGATAACTGGGGCATAAGCCC-GTTAATAACTGGGGCATAAGCCC
1 TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
35563114 TTTT
1 TTTT
35563118 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
47 67 0.76
48 21 0.24
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (48 bp):
TTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:35563192 original size:20 final size:20
Alignment explanation
Indices: 35563167--35563213 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
35563157 TTATGAATAC
35563167 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
35563187 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
35563207 ACCATGT
1 ATCATGT
35563214 TTATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:35572911 original size:29 final size:29
Alignment explanation
Indices: 35572877--35573008 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
35572867 TAATCAACCG
* * *
35572877 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTCAGTGCCATGCA-TTTCAAGCT
* *
35572906 CGCACACTTAGCGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
35572935 CGCACACTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
*
35572964 CGCACAGTCAGTGCCATGCATTTCAAGCT
1 CGCACACTCAGTGCCATGCATTTCAAGCT
35572993 CGCACACTCAGTGCCA
1 CGCACACTCAGTGCCA
35573009 ATCTCTCAAC
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
28 3 0.03
29 92 0.97
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.24
Consensus pattern (29 bp):
CGCACACTCAGTGCCATGCATTTCAAGCT
Found at i:35580815 original size:29 final size:29
Alignment explanation
Indices: 35580781--35580846 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
35580771 TAATCAACCG
* *
35580781 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGCGCCATGCA-TTTCAAACT
*
35580810 CGCACACTTAGCGCCATGCATTTCAAGCT
1 CGCACACTTAGCGCCATGCATTTCAAACT
35580839 CGCACACT
1 CGCACACT
35580847 CAGTTATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 3 0.09
29 30 0.91
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGCGCCATGCATTTCAAACT
Found at i:35583254 original size:31 final size:31
Alignment explanation
Indices: 35583213--35583276 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
35583203 CCTTTTCATA
* *
35583213 TTTCATATTTCATAACATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
35583244 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
35583275 TT
1 TT
35583277 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:35583516 original size:24 final size:24
Alignment explanation
Indices: 35583489--35583635 Score: 172
Period size: 24 Copynumber: 6.2 Consensus size: 24
35583479 GGCCTTACCT
* *
35583489 CTTTTAATAAATGGGGCAAAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
*
35583513 CTTTTTATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* *
35583537 C-TTTAATAACTGGGCCGTAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
* * * *
35583560 CTTTTGATAACTAGGGCGTAAGTC
1 CTTTTAATAACTGGGGCATAAGCC
* * *
35583584 CTTTTGATAACTAGGGCAGAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
35583608 C-TTTAATAACTGGGGCATAAGCC
1 CTTTTAATAACTGGGGCATAAGCC
35583631 CTTTT
1 CTTTT
35583636 TCACTTCCTC
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
23 40 0.38
24 65 0.62
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (24 bp):
CTTTTAATAACTGGGGCATAAGCC
Found at i:35583559 original size:47 final size:47
Alignment explanation
Indices: 35583491--35583634 Score: 166
Period size: 47 Copynumber: 3.1 Consensus size: 47
35583481 CCTTACCTCT
* * * *
35583491 TTTAATAAATGGGGCAAAAGCCCTTTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCAGAAGCCCTTTTAATAACTGGGGCATAAGCCC
* * * * *
35583538 TTTAATAACT-GGGCCGTAAGCCCTTTTGATAACTAGGGCGTAAGTCCT
1 TTTAATAACTAGGGCAG-AAGCCCTTTTAATAACTGGGGCATAAG-CCC
*
35583586 TTTGATAACTAGGGCAGAAGCCC-TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTAGGGCAGAAGCCCTTTTAATAACTGGGGCATAAGCCC
35583632 TTT
1 TTT
35583635 TTCACTTCCT
Statistics
Matches: 81, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
46 9 0.11
47 50 0.62
48 17 0.21
49 5 0.06
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (47 bp):
TTTAATAACTAGGGCAGAAGCCCTTTTAATAACTGGGGCATAAGCCC
Found at i:35583699 original size:11 final size:11
Alignment explanation
Indices: 35583683--35583740 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
35583673 ATTTATGAAT
35583683 ATATCATGTGC
1 ATATCATGTGC
*
35583694 ATATCA--TAC
1 ATATCATGTGC
*
35583703 ATATTATGTGC
1 ATATCATGTGC
*
35583714 ATATCA--TAC
1 ATATCATGTGC
*
35583723 ATGTCATGTGC
1 ATATCATGTGC
35583734 ATATCAT
1 ATATCAT
35583741 ACATACCATG
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
9 14 0.40
11 21 0.60
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.38
Consensus pattern (11 bp):
ATATCATGTGC
Found at i:35583711 original size:20 final size:20
Alignment explanation
Indices: 35583683--35583751 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
35583673 ATTTATGAAT
35583683 ATATCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
*
35583703 ATATTATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
*
35583723 ATGTCATGTGCATATCATAC
1 ATATCATGTGCATATCATAC
*
35583743 ATACCATGT
1 ATATCATGT
35583752 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (20 bp):
ATATCATGTGCATATCATAC
Found at i:35592105 original size:93 final size:93
Alignment explanation
Indices: 35591992--35592163 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
35591982 CGCCCATAAG
***
35591992 CGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
35592057 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
35592085 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
35592150 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35592164 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35592160 original size:46 final size:46
Alignment explanation
Indices: 35591985--35592160 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
35591975 TGTAACCCGC
* ***
35591985 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
35592031 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35592081 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35592124 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35592161 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35600137 original size:30 final size:30
Alignment explanation
Indices: 35600102--35600158 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
35600092 TAACTCAAAT
*
35600102 TTTTGCAAAATTACAATTTTGCCCCTAAAC
1 TTTTGCAAAATTACAATTTTGACCCTAAAC
* * *
35600132 TTTTGCATATTTACATTTTTGACCCTA
1 TTTTGCAAAATTACAATTTTGACCCTA
35600159 GGCTCGGGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGACCCTAAAC
Found at i:35618327 original size:27 final size:27
Alignment explanation
Indices: 35618297--35618568 Score: 308
Period size: 27 Copynumber: 10.3 Consensus size: 27
35618287 GTAATGACCA
35618297 AAATACCCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
35618324 AAATA-CCCCA-AGGGTAAAATGACCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
35618349 AAATA-CCCTATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* *
35618375 AAATACCCACATAGGGTAAAAT-AACTG
1 AAATACCCCCATAGGGTAAAATGATC-G
* *
35618402 AAATACCCCTATAGGATAAAATGA-CTG
1 AAATACCCCCATAGGGTAAAATGATC-G
*
35618429 AAATACCCCCATAGGATAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
* * * * * * * *
35618456 AAATGCTCCAATATGATAAAATAACCA
1 AAATACCCCCATAGGGTAAAATGATCG
* *
35618483 AAATA-CCCCATAGGG-AAAATGACCA
1 AAATACCCCCATAGGGTAAAATGATCG
35618508 AAATA-CCCCATAGGGTAAAATGATCG
1 AAATACCCCCATAGGGTAAAATGATCG
*
35618534 AAATACCCCCATAGGGTAAAATGATCA
1 AAATACCCCCATAGGGTAAAATGATCG
35618561 AAATACCC
1 AAATACCC
35618569 TTGTAAGGTA
Statistics
Matches: 212, Mismatches: 26, Indels: 14
0.84 0.10 0.06
Matches are distributed among these distances:
25 47 0.22
26 45 0.21
27 118 0.56
28 2 0.01
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATACCCCCATAGGGTAAAATGATCG
Found at i:35618565 original size:132 final size:131
Alignment explanation
Indices: 35618289--35618568 Score: 359
Period size: 132 Copynumber: 2.1 Consensus size: 131
35618279 GGGCCGAAGT
* * * * *
35618289 AATGACCAAAATACCCCCATAGGGTAAAATGATCGAAATACCCCAAGGGTAAAATGACCGAAATA
1 AATGA-CAAAATACCCCCATAGGATAAAATGATCGAAATACCCAAAGGATAAAATAACCAAAATA
* * * *
35618354 CCCTATAGGGTAAAATGATCGAAATACCCACATAGGGTAAAATAACTGAAATACCCCTATAGGAT
65 CCCCATAGGGTAAAATGACCAAAATACCCACATAGGGTAAAATAACTGAAATACCCCCATAGGAT
35618419 AA
130 AA
* * *
35618421 AATGACTGAAATACCCCCATAGGATAAAATGATCGAAATGCTCCAATATGATAAAATAACCAAAA
1 AATGAC-AAAATACCCCCATAGGATAAAATGATCGAAATAC-CCAA-AGGATAAAATAACCAAAA
*
35618486 TACCCCATAGGG-AAAATGACCAAAATACCC-CATAGGGTAAAATGA-TCGAAATACCCCCATAG
63 TACCCCATAGGGTAAAATGACCAAAATACCCACATAGGGTAAAATAACT-GAAATACCCCCATAG
*
35618548 GGTAA
127 GATAA
35618553 AATGATCAAAATACCC
1 AATGA-CAAAATACCC
35618569 TTGTAAGGTA
Statistics
Matches: 128, Mismatches: 15, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
131 2 0.02
132 81 0.63
133 20 0.16
134 25 0.20
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (131 bp):
AATGACAAAATACCCCCATAGGATAAAATGATCGAAATACCCAAAGGATAAAATAACCAAAATAC
CCCATAGGGTAAAATGACCAAAATACCCACATAGGGTAAAATAACTGAAATACCCCCATAGGATA
A
Found at i:35618967 original size:18 final size:18
Alignment explanation
Indices: 35618944--35618986 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
35618934 CGTTTACTGC
35618944 TACTGCACTGTATACCGT
1 TACTGCACTGTATACCGT
35618962 TACTGCACTGTATACCGT
1 TACTGCACTGTATACCGT
35618980 TACTGCA
1 TACTGCA
35618987 AAGGGCAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (18 bp):
TACTGCACTGTATACCGT
Found at i:35622098 original size:27 final size:27
Alignment explanation
Indices: 35621760--35622087 Score: 442
Period size: 27 Copynumber: 12.2 Consensus size: 27
35621750 GGGCCGAAGT
*
35621760 AATGACCGAAATACCCCCGTAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * * *
35621787 AATAATCGAAGTACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
35621814 AATGACCGAAGTACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
35621841 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
35621868 AATGATCAAAATA-CCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
** *
35621894 AATGATTGAAATACCCCCATAAGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
35621921 AATGATCGAAATTCTCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
35621948 AATGACCAAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
* * *
35621975 AATGATCGAAATACCCCTATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
* *
35622002 AATGACCAAAATACCCCCATAGGATAA
1 AATGACCGAAATACCCCCATAGGGTAA
*
35622029 AATGACCGAAATACCCCTATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
35622056 AATGACCGAAATACCCCCATAGGGTAA
1 AATGACCGAAATACCCCCATAGGGTAA
35622083 AATGA
1 AATGA
35622088 TTGTAATACC
Statistics
Matches: 267, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 23 0.09
27 244 0.91
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.19
Consensus pattern (27 bp):
AATGACCGAAATACCCCCATAGGGTAA
Found at i:35626881 original size:42 final size:41
Alignment explanation
Indices: 35626834--35626988 Score: 195
Period size: 42 Copynumber: 3.7 Consensus size: 41
35626824 AATCATTCCA
*
35626834 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCATATCG
1 ATGCCATATCCCAGATATGGTCTTACAT-GGATCTCATATCG
* *
35626876 ATGCCAATAGCCCAGCTATGGTCTTACAT-GATTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGGA-TCTCATATCG
* * * *
35626918 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACG
1 ATGCCATATCCCAGATATGGTCTTACATG-GATCTCATATCG
*
35626960 AGGCCATATCCCAGATATGGTCTTACATG
1 ATGCCATATCCCAGATATGGTCTTACATG
35626989 TAAACTCATA
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
41 21 0.22
42 55 0.57
43 21 0.22
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGGATCTCATATCG
Found at i:35626997 original size:84 final size:84
Alignment explanation
Indices: 35626834--35626998 Score: 215
Period size: 84 Copynumber: 2.0 Consensus size: 84
35626824 AATCATTCCA
* * * ** * * *
35626834 ATGCCATATTCCAGATATGGTCTTACATGGGATCTCATATCGATGCCAATAGCCCAGCTATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
**
35626899 TTACATGATTCTCATATCG
66 TTACATGAAACTCATATCG
*
35626918 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCC-ATATCCCAGATATGGTC
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
35626982 TTACATGTAAACTCATA
66 TTACATG-AAACTCATA
35626999 ACCCTAATAC
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
83 22 0.32
84 47 0.68
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (84 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATAACGAGGCCAATAGCCCAGATATGGTC
TTACATGAAACTCATATCG
Found at i:35633951 original size:47 final size:46
Alignment explanation
Indices: 35633875--35634191 Score: 244
Period size: 47 Copynumber: 6.8 Consensus size: 46
35633865 AGGGTGTAAC
35633875 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CATCAA
* * * *
35633922 GTCGATGCCATGTCCCAGACATGGACTTACACTGACT-ATCGAAATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC---ATC-AA
* * *
35633971 GCCAACGCCATGTCCCAGACATGGT-TTACACTAGCTC-TCA-CATATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATC--A-A
* * * *
35634017 CGTGCCAATGCCATATCCCAAACATGGTCTTACACTGGCACATC-TCATA
1 ---GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCA-A
* * *
35634066 GCTGATG-CATGTCCCAGAAAT-GTCTTACACTGGCTTACATC-TCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-T-CATCATC-AA
* *
35634112 GCCGATG-CATGTCCCATACAT-GTCTTACACTAGCTC-TCATCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCA--TCAA
35634157 TGCCGATGCCATGTCCCAGACAT-GTCTTACACTGG
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGG
35634192 TACACAAATA
Statistics
Matches: 218, Mismatches: 31, Indels: 42
0.75 0.11 0.14
Matches are distributed among these distances:
43 2 0.01
44 15 0.07
45 16 0.07
46 52 0.24
47 59 0.27
48 14 0.06
49 47 0.22
50 10 0.05
51 3 0.01
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (46 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCAA
Found at i:35634155 original size:145 final size:144
Alignment explanation
Indices: 35633879--35634191 Score: 346
Period size: 145 Copynumber: 2.2 Consensus size: 144
35633869 TGTAACGCCG
* * * *
35633879 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACAT
1 ATGCCATATCCCAAACATGGTCTTACACTGGCACATCCAT-AAGTCGATGCCATGTCCCAGAAAT
35633944 GGACTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCTCT
65 GGACTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCTCT
35634009 CACATATACGTGCCA
130 CACATATACGTGCCA
35634024 ATGCCATATCCCAAACATGGTCTTACACTGGCACATCTCAT-AG-CTGATG-CATGTCCCAGAAA
1 ATGCCATATCCCAAACATGGTCTTACACTGGCACATC-CATAAGTC-GATGCCATGTCCCAGAAA
* * ** * * *
35634086 T-GTCTTACACTGGCT-TAC-ATCTCGAGGCCGATG-CATGTCCCATACAT-GTCTTACACTAGC
64 TGGACTTACACTGACTAT-CGAAATCGAGGCCAACGCCATGTCCCAGACATGGT-TTACACTAGC
*
35634146 TCTCATC-TCA-A--TGCCG
127 TCTCA-CAT-ATACGTGCCA
* *
35634162 ATGCCATGTCCCAGACAT-GTCTTACACTGG
1 ATGCCATATCCCAAACATGGTCTTACACTGG
35634192 TACACAAATA
Statistics
Matches: 148, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
137 12 0.08
138 20 0.14
139 2 0.01
140 30 0.20
141 14 0.09
142 13 0.09
143 14 0.09
144 6 0.04
145 34 0.23
146 3 0.02
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.26
Consensus pattern (144 bp):
ATGCCATATCCCAAACATGGTCTTACACTGGCACATCCATAAGTCGATGCCATGTCCCAGAAATG
GACTTACACTGACTATCGAAATCGAGGCCAACGCCATGTCCCAGACATGGTTTACACTAGCTCTC
ACATATACGTGCCA
Found at i:35642911 original size:6 final size:6
Alignment explanation
Indices: 35642906--35642986 Score: 87
Period size: 6 Copynumber: 13.8 Consensus size: 6
35642896 ATGATGTTTA
* * * *
35642906 ATTTT- ATTTT- ATCTTT- ATTTTT ATTTTT ATTTTT ATTTTT ATTTTC
1 ATTTTC ATTTTC AT-TTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC
*
35642952 ATTTTC ATTTTC ATTTTC ATTTTA ATTTTC ATTTT
1 ATTTTC ATTTTC ATTTTC ATTTTC ATTTTC ATTTT
35642987 ATGTTTTTAT
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
5 10 0.14
6 61 0.86
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (6 bp):
ATTTTC
Found at i:35642929 original size:12 final size:12
Alignment explanation
Indices: 35642902--35642997 Score: 95
Period size: 12 Copynumber: 8.0 Consensus size: 12
35642892 GATGATGATG
*
35642902 TTTAATTTTA-T
1 TTTATTTTTATT
*
35642913 TTTATCTTTATT
1 TTTATTTTTATT
35642925 TTTATTTTTATT
1 TTTATTTTTATT
35642937 TTTATTTTTATT
1 TTTATTTTTATT
* *
35642949 TTCATTTTCATT
1 TTTATTTTTATT
* *
35642961 TTCATTTTCATT
1 TTTATTTTTATT
* *
35642973 TTAATTTTCATT
1 TTTATTTTTATT
*
35642985 TTATGTTTTTATT
1 TT-TATTTTTATT
35642998 AATTTCACCT
Statistics
Matches: 74, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
11 8 0.11
12 59 0.80
13 7 0.09
ACGTcount: A:0.19, C:0.06, G:0.01, T:0.74
Consensus pattern (12 bp):
TTTATTTTTATT
Found at i:35645047 original size:13 final size:13
Alignment explanation
Indices: 35645029--35645068 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
35645019 GAAGTAATCA
35645029 CACACGGGCGTGT
1 CACACGGGCGTGT
*
35645042 CACACGGGCGTGC
1 CACACGGGCGTGT
*
35645055 CACATGGGCGTGT
1 CACACGGGCGTGT
35645068 C
1 C
35645069 CCTACAGAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.15, C:0.33, G:0.38, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:35655692 original size:78 final size:82
Alignment explanation
Indices: 35655549--35655732 Score: 238
Period size: 78 Copynumber: 2.3 Consensus size: 82
35655539 GCTACTCGTT
* *
35655549 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
35655613 GATTTAGTAAC-TCGCA
66 GATATAGTAACTTAGCA
**
35655629 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ACTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
35655690 GGATATGGTCACTTAGCA
65 GGATATAGTAACTTAGCA
35655708 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35655733 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
77 3 0.03
78 42 0.46
79 32 0.35
80 15 0.16
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTTAGCA
Found at i:35655732 original size:40 final size:40
Alignment explanation
Indices: 35655530--35655732 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35655520 CGGAATTTAA
** *
35655530 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35655570 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35655610 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35655649 CCGGA-ATTAGT-ACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35655688 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35655728 CCGGA
1 CCGGA
35655733 CATCATTCAA
Statistics
Matches: 142, Mismatches: 13, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
37 2 0.01
38 18 0.13
39 28 0.20
40 83 0.58
41 11 0.08
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35663741 original size:79 final size:82
Alignment explanation
Indices: 35663630--35663814 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
35663620 GCTACTCGTT
* *
35663630 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* * *
35663693 GGATTTAGTAAC-TCGCA
65 GGATATACTAACTTAGCA
* **
35663710 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
*
35663773 GATATACTCACTTAGCA
66 GATATACTAACTTAGCA
35663790 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35663815 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATACTAACTTAGCA
Found at i:35663814 original size:40 final size:40
Alignment explanation
Indices: 35663611--35663814 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
35663601 CGGAATTTAA
** *
35663611 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35663651 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
35663691 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
35663730 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
35663770 CCGGATATACTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
35663810 CCGGA
1 CCGGA
35663815 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:35670386 original size:47 final size:47
Alignment explanation
Indices: 35670320--35670846 Score: 820
Period size: 47 Copynumber: 11.1 Consensus size: 47
35670310 GAAATGATAG
*
35670320 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
35670367 TAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
35670414 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
35670461 TAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * *
35670508 TAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
35670555 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
35670604 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA--TATGTGA
35670653 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35670700 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
35670747 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
35670796 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
35670843 TAAG
1 TAAG
35670847 TCCCGAAGGG
Statistics
Matches: 451, Mismatches: 23, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
47 320 0.71
49 131 0.29
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:35670697 original size:25 final size:25
Alignment explanation
Indices: 35670669--35670747 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
35670659 CTAATGGCCG
35670669 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
35670694 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
35670716 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
35670741 ATGTGAT
1 ATGTGAT
35670748 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:35670756 original size:192 final size:190
Alignment explanation
Indices: 35670320--35670846 Score: 869
Period size: 192 Copynumber: 2.8 Consensus size: 190
35670310 GAAATGATAG
*
35670320 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCGAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
*
35670385 GTGATGAATGTGAAAGTG--TATATACGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
35670448 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
131 TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* *
35670508 TAGGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
*
35670573 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
* *
35670638 TGTATATGTATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TGTATA--TATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
* *
35670700 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
* * * * * * *
35670765 GTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
35670830 TGTATAAATGTGATAAG
131 TGTATATATGTGATAAG
35670847 TCCCGAAGGG
Statistics
Matches: 315, Mismatches: 20, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
188 80 0.25
190 59 0.19
192 176 0.56
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (190 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
Found at i:35672649 original size:40 final size:40
Alignment explanation
Indices: 35672617--35672928 Score: 498
Period size: 40 Copynumber: 7.8 Consensus size: 40
35672607 CCAGCATGAT
* * * *
35672617 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
35672657 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35672697 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35672737 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35672777 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
35672817 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
35672857 TGCTCTTTGGGACTTAGCCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
35672897 TGCTCTTCGGGACATAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
35672929 CTCAATTCTC
Statistics
Matches: 251, Mismatches: 21, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 251 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:35674422 original size:25 final size:25
Alignment explanation
Indices: 35674394--35674472 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
35674384 ACTCGGCCCT
35674394 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
35674419 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATACACTTTC-ACATTC
35674441 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
35674466 ATCACAT
1 ATCACAT
35674473 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.13
24 5 0.13
25 18 0.46
ACGTcount: A:0.32, C:0.29, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:35674422 original size:47 final size:47
Alignment explanation
Indices: 35674346--35674494 Score: 199
Period size: 47 Copynumber: 3.2 Consensus size: 47
35674336 CTTCGGGACT
* * * **
35674346 TATCACATTTATACACTTTCAGATCCATCATGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
* *
35674393 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
* * * *
35674440 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
35674487 TATCACAT
1 TATCACAT
35674495 GGCCATTAGG
Statistics
Matches: 93, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 93 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATTGGCCACTCGGCCC
Found at i:35674500 original size:21 final size:22
Alignment explanation
Indices: 35674466--35674515 Score: 93
Period size: 21 Copynumber: 2.3 Consensus size: 22
35674456 TTTCACATTC
35674466 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
35674488 ATCACAT-GGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
35674509 ATCACAT
1 ATCACAT
35674516 ATATACACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:35674507 original size:68 final size:68
Alignment explanation
Indices: 35674419--35674562 Score: 270
Period size: 68 Copynumber: 2.1 Consensus size: 68
35674409 TTTCACATTC
*
35674419 ATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
1 ATCACA-TGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGG
35674484 CCTT
65 CCTT
35674488 ATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 ATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35674553 CTT
66 CTT
35674556 ATCACAT
1 ATCACAT
35674563 ATATACACTT
Statistics
Matches: 74, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 68 0.92
69 6 0.08
ACGTcount: A:0.28, C:0.30, G:0.11, T:0.31
Consensus pattern (68 bp):
ATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
CTT
Found at i:35674548 original size:47 final size:46
Alignment explanation
Indices: 35674488--35674579 Score: 175
Period size: 47 Copynumber: 2.0 Consensus size: 46
35674478 ATTAGGCCTT
35674488 ATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
1 ATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
35674534 ATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 ATCACAT-GGCCATTAGGCCTTATCACATATATACACTTTCACATT
35674580 TATTCAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 7 0.16
47 38 0.84
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.33
Consensus pattern (46 bp):
ATCACATGGCCATTAGGCCTTATCACATATATACACTTTCACATTC
Found at i:35691023 original size:18 final size:19
Alignment explanation
Indices: 35690992--35691032 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
35690982 AAAAGCACCC
35690992 TTAAAATAATATAATTTAT
1 TTAAAATAATATAATTTAT
*
35691011 TTAAAAT-ATATAATTTTT
1 TTAAAATAATATAATTTAT
35691029 TTAA
1 TTAA
35691033 TAATTCTGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAAAATAATATAATTTAT
Found at i:35697450 original size:26 final size:25
Alignment explanation
Indices: 35697421--35697470 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 25
35697411 TTTTGTTAAT
35697421 GGACT-TTTGATGAAAATGTGAAATAG
1 GGACTATTTG-TG-AAATGTGAAATAG
35697447 GGACTAATTTGTGAAATGTGAAAT
1 GGACT-ATTTGTGAAATGTGAAAT
35697471 TTATGAGTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
26 16 0.73
27 2 0.09
28 4 0.18
ACGTcount: A:0.38, C:0.04, G:0.26, T:0.32
Consensus pattern (25 bp):
GGACTATTTGTGAAATGTGAAATAG
Found at i:35698017 original size:42 final size:42
Alignment explanation
Indices: 35697970--35698084 Score: 117
Period size: 42 Copynumber: 2.7 Consensus size: 42
35697960 ACTGAAATTC
*
35697970 CGTATAAGACCATATTTGGGATATGGCATTGGTATG-TGATTT
1 CGTATAAGACCATATTAGGGATATGGCATTGGTATGAT-ATTT
* * ** *
35698012 CGTATAAGACCATGTTAGGGACATGGGGTCGGTATGATATTT
1 CGTATAAGACCATATTAGGGATATGGCATTGGTATGATATTT
* * *
35698054 CATGTAAGACCATATCCA-GGATATGGCATTG
1 CGTATAAGACCATAT-TAGGGATATGGCATTG
35698085 ATACAGTACT
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 55 0.96
43 2 0.04
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (42 bp):
CGTATAAGACCATATTAGGGATATGGCATTGGTATGATATTT
Found at i:35706114 original size:47 final size:47
Alignment explanation
Indices: 35706042--35706183 Score: 241
Period size: 47 Copynumber: 3.0 Consensus size: 47
35706032 GTTGAATTTA
*
35706042 AAGCTTGTTAAA-TTGCTCTTAATATTTCCAGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
*
35706088 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATATGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
* *
35706135 AAGCTTGTTAAATTTGCCCTTAATATTTTCGGATAAGTTACTTAGTT
1 AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
35706182 AA
1 AA
35706184 AGACAATTTT
Statistics
Matches: 90, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
46 12 0.13
47 78 0.87
ACGTcount: A:0.29, C:0.13, G:0.14, T:0.44
Consensus pattern (47 bp):
AAGCTTGTTAAATTTGCTCTTAATATTTCCGGATAAGTTACTTAGTT
Found at i:35711248 original size:40 final size:40
Alignment explanation
Indices: 35711211--35711475 Score: 367
Period size: 40 Copynumber: 6.7 Consensus size: 40
35711201 GCCACTCGTT
* *
35711211 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
35711251 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTGGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35711291 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
35711331 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
35711370 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * *
35711410 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
* *
35711451 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
35711476 CATCATTCGA
Statistics
Matches: 205, Mismatches: 15, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
39 40 0.20
40 152 0.74
41 13 0.06
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:35711389 original size:119 final size:122
Alignment explanation
Indices: 35711211--35711475 Score: 398
Period size: 119 Copynumber: 2.2 Consensus size: 122
35711201 GCCACTCGTT
*
35711211 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* * *
35711275 GATTTAGTAACTGGCACAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
66 GATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGGATATAGTAACTTAGCA
*
35711331 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAACTTGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
** *
35711394 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
66 GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA
*
35711451 CAAA-ACCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
35711476 CATCATTCGA
Statistics
Matches: 132, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
118 3 0.02
119 94 0.71
120 35 0.27
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATTTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGATATAGTAACTTAGCA
Found at i:35729805 original size:21 final size:21
Alignment explanation
Indices: 35729757--35729805 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
35729747 ATTCATTTCT
* *
35729757 CGGAATGCCCATTGAACCGTA
1 CGGAATCCCCATTGAAACGTA
**
35729778 CAAAATCCCCATTGAAACGTA
1 CGGAATCCCCATTGAAACGTA
35729799 CGGAATC
1 CGGAATC
35729806 AAATAGGATA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (21 bp):
CGGAATCCCCATTGAAACGTA
Found at i:35729908 original size:43 final size:41
Alignment explanation
Indices: 35729837--35729955 Score: 125
Period size: 42 Copynumber: 2.8 Consensus size: 41
35729827 CGAAAAACTC
*
35729837 ATACAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAA-TCAA
1 ATACAATGCC-ATGTCCCAGACAG-GGTCTTACACG-AAGTCAA
* *
35729879 ATATCGATGCCACTGTCTCAGACAGGGTCTTACACGAAGTCAA
1 ATA-CAATGCCA-TGTCCCAGACAGGGTCTTACACGAAGTCAA
* *
35729922 TTACAATGCCGATGTCCCAGACATGGTCTTACAC
1 ATACAATGCC-ATGTCCCAGACAGGGTCTTACAC
35729956 ATAAATCTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
42 32 0.49
43 32 0.49
44 1 0.02
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (41 bp):
ATACAATGCCATGTCCCAGACAGGGTCTTACACGAAGTCAA
Found at i:35729944 original size:42 final size:41
Alignment explanation
Indices: 35729837--35730010 Score: 129
Period size: 43 Copynumber: 4.1 Consensus size: 41
35729827 CGAAAAACTC
*
35729837 ATACAATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAA
1 ATACAATGCC-ATGTCCCAGACAG-GGTCTTACACGTAATCAA
* *
35729879 ATATCGATGCCACTGTCTCAGACAGGGTCTTACACG-AAGTCAA
1 ATA-CAATGCCA-TGTCCCAGACAGGGTCTTACACGTAA-TCAA
* * *
35729922 TTACAATGCCGATGTCCCAGACATGGTCTTACACATAAATCTCAA
1 ATACAATGCC-ATGTCCCAGACAGGGTCTTACACGT-AA--TCAA
* ** * * *
35729967 AT-CGATGCCAACATCCCAGACATGATCTTACACGAAATCAA
1 ATACAATGCC-ATGTCCCAGACAGGGTCTTACACGTAATCAA
35730008 ATA
1 ATA
35730011 TCAAAATCCT
Statistics
Matches: 106, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
41 6 0.06
42 32 0.30
43 34 0.32
44 29 0.27
45 5 0.05
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (41 bp):
ATACAATGCCATGTCCCAGACAGGGTCTTACACGTAATCAA
Found at i:35737857 original size:11 final size:11
Alignment explanation
Indices: 35737841--35737909 Score: 69
Period size: 11 Copynumber: 6.8 Consensus size: 11
35737831 TACAATATTG
35737841 ATATGATATGC
1 ATATGATATGC
*
35737852 ACATGATATG-
1 ATATGATATGC
35737862 -TATGATATGC
1 ATATGATATGC
*
35737872 ACATGATATG-
1 ATATGATATGC
*
35737882 -TAGGATATGC
1 ATATGATATGC
35737892 ATATGATATG-
1 ATATGATATGC
35737902 -TATGATAT
1 ATATGATAT
35737910 ACACATGATG
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
9 23 0.48
11 25 0.52
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.36
Consensus pattern (11 bp):
ATATGATATGC
Found at i:35737867 original size:20 final size:20
Alignment explanation
Indices: 35737842--35737918 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
35737832 ACAATATTGA
35737842 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
35737862 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
35737882 TAGGATATGCATATGATATG
1 TATGATATGCACATGATATG
*
35737902 TATGATATACACATGAT
1 TATGATATGCACATGAT
35737919 GTATTCATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:35737868 original size:9 final size:9
Alignment explanation
Indices: 35737854--35737909 Score: 58
Period size: 9 Copynumber: 5.8 Consensus size: 9
35737844 TGATATGCAC
35737854 ATGATATGT
1 ATGATATGT
*
35737863 ATGATATGCAC
1 ATGATATG--T
35737874 ATGATATGT
1 ATGATATGT
*
35737883 AGGATATGCAT
1 ATGATATG--T
35737894 ATGATATGT
1 ATGATATGT
35737903 ATGATAT
1 ATGATAT
35737910 ACACATGATG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
9 23 0.59
11 16 0.41
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (9 bp):
ATGATATGT
Found at i:35743220 original size:28 final size:28
Alignment explanation
Indices: 35743152--35743281 Score: 170
Period size: 28 Copynumber: 4.6 Consensus size: 28
35743142 ATCATGAGAT
* * **
35743152 TAGCACTAAGTGTGCGGGTTTAAATTGCA
1 TAGCACTAAGTGTGCGAGTTT-GATTATA
*
35743181 TAGCACTAAGTGTGCAAGTTTGATTATA
1 TAGCACTAAGTGTGCGAGTTTGATTATA
*
35743209 TAGCACTAAGTGTGCGAGTTTGATTATG
1 TAGCACTAAGTGTGCGAGTTTGATTATA
*
35743237 TAAGCACTAAGTGTGCGAGTTTTATTATA
1 T-AGCACTAAGTGTGCGAGTTTGATTATA
*
35743266 TAACACTAAGTGTGCG
1 TAGCACTAAGTGTGCG
35743282 GACTTACTAT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 45 0.50
29 45 0.50
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (28 bp):
TAGCACTAAGTGTGCGAGTTTGATTATA
Found at i:35743243 original size:57 final size:57
Alignment explanation
Indices: 35743152--35743281 Score: 181
Period size: 57 Copynumber: 2.3 Consensus size: 57
35743142 ATCATGAGAT
*
35743152 TAGCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATA
1 TAGCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATA
* * * * *
35743209 TAGCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTTATTATA
1 TAGCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATA
*
35743266 TAACACTAAGTGTGCG
1 TAGCACTAAGTGTGCG
35743282 GACTTACTAT
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 62 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (57 bp):
TAGCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATA
Found at i:35748122 original size:40 final size:40
Alignment explanation
Indices: 35747969--35748115 Score: 176
Period size: 40 Copynumber: 3.7 Consensus size: 40
35747959 GATGTCTGGG
* * * *
35747969 CTAAG-TCCTGAAGGC-TTTGTGCTAAGTGACCATATCCGGA
1 CTAAGATCC-GAAGGCATTTGTGC-GAGTTACTATAACCGGA
35748009 CTAAGATCCGAAGGCATTTGTGCGAGTTACTATAACCGGA
1 CTAAGATCCGAAGGCATTTGTGCGAGTTACTATAACCGGA
35748049 CTAAGATCCGAAGGCATTTGTGCGAGTTACTATAACCAGG-
1 CTAAGATCCGAAGGCATTTGTGCGAGTTACTATAACC-GGA
* *
35748089 CTATG-TCCCGAAGGCATTTGAGCGAGT
1 CTAAGAT-CCGAAGGCATTTGTGCGAGT
35748116 AGCTATATCC
Statistics
Matches: 97, Mismatches: 6, Indels: 8
0.87 0.05 0.07
Matches are distributed among these distances:
39 1 0.01
40 84 0.87
41 12 0.12
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CTAAGATCCGAAGGCATTTGTGCGAGTTACTATAACCGGA
Found at i:35748405 original size:47 final size:47
Alignment explanation
Indices: 35748336--35748547 Score: 325
Period size: 47 Copynumber: 4.5 Consensus size: 47
35748326 GGTTGGTAAG
35748336 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
*
35748383 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
*
35748430 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
* * * * * * *
35748477 GTGAAGGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
* *
35748524 GTGAAAGTGCATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
35748548 TCCTGAAGGG
Statistics
Matches: 151, Mismatches: 14, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 151 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGACGTGATGAAT
Found at i:35748724 original size:37 final size:37
Alignment explanation
Indices: 35748666--35748744 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
35748656 CCGAGCTCTA
* *
35748666 AAGACCCGATGACTACATGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAG-ATTATGTCCGGGT
* *
35748703 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
35748740 AAGAC
1 AAGAC
35748745 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.97
38 1 0.03
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:35750136 original size:27 final size:27
Alignment explanation
Indices: 35750106--35750372 Score: 367
Period size: 27 Copynumber: 9.9 Consensus size: 27
35750096 GGGTGTTATA
35750106 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
35750133 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* * *
35750160 GTAATTCTACCCTACTGGGATATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
35750187 GTAATTCTACCCTACACGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCG
*
35750214 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCG
**
35750241 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCG
*
35750268 GTAATTCTACGCTACAGGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-G
*
35750295 GTAATTCTACCCTACAAGGGTA-TTCTG
1 GTAATTCTACCCTACAGGGGTATTTC-G
* *
35750322 GTAATTCTACCCGACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCG
* *
35750349 TTAATTCTACCCTACATGGGTATT
1 GTAATTCTACCCTACAGGGGTATT
35750373 CTGATAATTT
Statistics
Matches: 211, Mismatches: 27, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 2 0.01
27 207 0.98
28 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCG
Found at i:35750408 original size:54 final size:54
Alignment explanation
Indices: 35750123--35750516 Score: 203
Period size: 54 Copynumber: 7.3 Consensus size: 54
35750113 TACCCTACAG
** * * *** *
35750123 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCCTAC-T
1 GGGTATTTTAGTAATTCTACCCTACAGGGGTATTCTGATAATTCTACTAAACAA
* * *** *
35750176 GGGATATTTCAGTAATTCTACCCTACACGGGTATTGC-GATAATTCTACCCTACAG
1 GGG-TATTTTAGTAATTCTACCCTACAGGGGTATT-CTGATAATTCTACTAAACAA
** * *** *
35750231 GGGTATTTCGGTAATTCTACCCTACAGGGGTATT-TTAGTAATTCTACGCTACAG
1 GGGTATTTTAGTAATTCTACCCTACAGGGGTATTCTGA-TAATTCTACTAAACAA
* * * * *** *
35750285 GGGTATTCTGGTAATTCTACCCTACAAGGGTATTCTGGTAATTCTACCCGACAG
1 GGGTATTTTAGTAATTCTACCCTACAGGGGTATTCTGATAATTCTACTAAACAA
** * *
35750339 GGGTA-TTCCGTTAATTCTACCCTACATGGGTATTCTGATAATTTTA-TAAACAAA
1 GGGTATTTTAG-TAATTCTACCCTACAGGGGTATTCTGATAATTCTACTAAAC-AA
* ** * * **
35750393 GGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATT-TTGTAAACCAA
1 GGGTATTTTAGTAATTCTACCCTAC-AGGGGTATTCTGATAATTCTACTAAA-CAA
* * ** * * * *
35750447 GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTGGTGATTTTA-TAAACCAA
1 GGGTATTTTAGTAATTCTACCCTA-CAGGGGTATTCTGATAATTCTACTAAA-CAA
*
35750501 TGGTATTTTAGTAATT
1 GGGTATTTTAGTAATT
35750517 TTACAAACCA
Statistics
Matches: 288, Mismatches: 39, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
53 12 0.04
54 265 0.92
55 11 0.04
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
GGGTATTTTAGTAATTCTACCCTACAGGGGTATTCTGATAATTCTACTAAACAA
Found at i:35750435 original size:81 final size:81
Alignment explanation
Indices: 35750106--35750435 Score: 265
Period size: 81 Copynumber: 4.1 Consensus size: 81
35750096 GGGTGTTATA
* ** * **
35750106 GTAATTCTACCCTACAGGGGTATT-TCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTAC
1 GTAATTCTACCCTACAGGGGTATTCT-GATAATTCTACCAAACAAGGGTATTCTAGTAATTCTAC
** * * **
35750170 CCTACTGGGATATTTCA
65 CAAACAGGGGTATTTTG
* ** * *
35750187 GTAATTCTACCCTACACGGGTATTGC-GATAATTCTACCCTACAGGGGTATT-TCGGTAATTCTA
1 GTAATTCTACCCTACAGGGGTATT-CTGATAATTCTACCAAACAAGGGTATTCT-AGTAATTCTA
** *
35750250 CCCTACAGGGGTATTTTA
64 CCAAACAGGGGTATTTTG
* * ** *
35750268 GTAATTCTACGCTACAGGGGTATTCTGGTAATTCTACCCTACAAGGGTATTCTGGTAATTCTACC
1 GTAATTCTACCCTACAGGGGTATTCTGATAATTCTACCAAACAAGGGTATTCTAGTAATTCTACC
** **
35750333 CGACAGGGGTATTCCG
66 AAACAGGGGTATTTTG
* * * * * *
35750349 TTAATTCTACCCTACATGGGTATTCTGATAATTTTA-TAAACAAAGGGTATTTTAGTAATTTTA-
1 GTAATTCTACCCTACAGGGGTATTCTGATAATTCTACCAAAC-AAGGGTATTCTAGTAATTCTAC
35750412 CAAACTAGGGGTATTTTG
65 CAAAC-AGGGGTATTTTG
35750430 GTAATT
1 GTAATT
35750436 TTGTAAACCA
Statistics
Matches: 212, Mismatches: 30, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
80 6 0.03
81 205 0.97
82 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTCTGATAATTCTACCAAACAAGGGTATTCTAGTAATTCTACC
AAACAGGGGTATTTTG
Found at i:35750551 original size:27 final size:27
Alignment explanation
Indices: 35750366--35750544 Score: 223
Period size: 27 Copynumber: 6.6 Consensus size: 27
35750356 TACCCTACAT
* * *
35750366 GGGTATTCTGATAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
35750393 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
35750420 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* *
35750447 GGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
35750474 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
35750501 TGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
35750528 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
35750545 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 24, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:35750551 original size:54 final size:54
Alignment explanation
Indices: 35750366--35750544 Score: 286
Period size: 54 Copynumber: 3.3 Consensus size: 54
35750356 TACCCTACAT
* * * *
35750366 GGGTATTCTGATAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
35750420 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
35750474 GGGTATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
35750528 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
35750545 GGTAAACTAA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 114 1.00
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:35753769 original size:11 final size:11
Alignment explanation
Indices: 35753753--35753830 Score: 78
Period size: 11 Copynumber: 7.6 Consensus size: 11
35753743 TACAATATTG
35753753 ATATGATATGC
1 ATATGATATGC
*
35753764 ACATGATATG-
1 ATATGATATGC
35753774 -TATGATATGC
1 ATATGATATGC
*
35753784 ACATGATATG-
1 ATATGATATGC
*
35753794 -TAGGATATGC
1 ATATGATATGC
35753804 ATATGATATG-
1 ATATGATATGC
35753814 -TATGATATGC
1 ATATGATATGC
*
35753824 ACATGAT
1 ATATGAT
35753831 GTATTCATAA
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 24 0.44
11 30 0.56
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (11 bp):
ATATGATATGC
Found at i:35753779 original size:20 final size:20
Alignment explanation
Indices: 35753754--35753830 Score: 136
Period size: 20 Copynumber: 3.9 Consensus size: 20
35753744 ACAATATTGA
35753754 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
35753774 TATGATATGCACATGATATG
1 TATGATATGCACATGATATG
* *
35753794 TAGGATATGCATATGATATG
1 TATGATATGCACATGATATG
35753814 TATGATATGCACATGAT
1 TATGATATGCACATGAT
35753831 GTATTCATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (20 bp):
TATGATATGCACATGATATG
Found at i:35753780 original size:9 final size:9
Alignment explanation
Indices: 35753766--35753822 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
35753756 TGATATGCAC
35753766 ATGATATGT
1 ATGATATGT
*
35753775 ATGATATGCAC
1 ATGATATG--T
35753786 ATGATATGT
1 ATGATATGT
*
35753795 AGGATATGCAT
1 ATGATATG--T
35753806 ATGATATGT
1 ATGATATGT
35753815 ATGATATG
1 ATGATATG
35753823 CACATGATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 24 0.60
11 16 0.40
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:35753909 original size:26 final size:26
Alignment explanation
Indices: 35753880--35753952 Score: 146
Period size: 26 Copynumber: 2.8 Consensus size: 26
35753870 GAGGAAGTGC
35753880 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
35753906 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
35753932 AAAAGGGCTTATGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
35753953 ATTAAAAGAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 47 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:35756813 original size:51 final size:51
Alignment explanation
Indices: 35756708--35756814 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
35756698 AGATATGGTG
* *
35756708 AAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGA
1 AAATGGAGAAATA-GAAACATTTGGAAATGACTATGGTTTTCTCAAAAATGA
* *
35756760 AAATGGGGAAAT-GAAATCATTTGGAAATGACTGTGGTTTTCTCAAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATGACTATGGTTTTCTCAAAAATGA
35756811 AAAT
1 AAAT
35756815 AAAAATGAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
50 4 0.08
51 35 0.70
52 11 0.22
ACGTcount: A:0.42, C:0.07, G:0.21, T:0.29
Consensus pattern (51 bp):
AAATGGAGAAATAGAAACATTTGGAAATGACTATGGTTTTCTCAAAAATGA
Found at i:35774451 original size:15 final size:16
Alignment explanation
Indices: 35774417--35774454 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
35774407 TATCACATTT
35774417 ATAACCATTTCAAGATC
1 ATAA-CATTTCAAGATC
35774434 ATAACATTTCAA-ATC
1 ATAACATTTCAAGATC
35774449 ATAACA
1 ATAACA
35774455 ATATCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAACATTTCAAGATC
Found at i:35782595 original size:42 final size:41
Alignment explanation
Indices: 35782538--35782651 Score: 111
Period size: 44 Copynumber: 2.7 Consensus size: 41
35782528 CAGTGCCACT
* * *
35782538 ATCCCAGACAGGGTCTTACGCAAAATCAAATACGATGCCGAT
1 ATCCCAGACATGGTCTTACGCAAAATCAAAT-CGATGCCAAC
* * * *
35782580 GTCCCAGACATGGTCTTACACGTAAATCTCAAATTGATGCCAAC
1 ATCCCAGACATGGTCTT--ACGCAAA-ATCAAATCGATGCCAAC
* *
35782624 ATCCCAGACATGGTCTTACACGAAATCA
1 ATCCCAGACATGGTCTTACGCAAAATCA
35782652 CATATCGGAA
Statistics
Matches: 57, Mismatches: 12, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
41 3 0.05
42 19 0.33
44 29 0.51
45 6 0.11
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
ATCCCAGACATGGTCTTACGCAAAATCAAATCGATGCCAAC
Found at i:35782640 original size:86 final size:85
Alignment explanation
Indices: 35782487--35782651 Score: 201
Period size: 86 Copynumber: 1.9 Consensus size: 85
35782477 AGCTTGTACA
* * *
35782487 ATGCCAATGTCCTAGACGTGGTCTTACATGTAATTAAATATCAGTGCCACTATCCCAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTAAATATCAGTGCCACTATCCCAGACAGGGT
*
35782552 CTTACGCAAAATCAAATACG
66 CTTACACAAAATCAAATACG
* *
35782572 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-TGA-TGCCAAC-ATCCCAGACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AAT-T-AAATATCAGTGCC-ACTATCCCAGACA
* *
35782634 TGGTCTTACACGAAATCA
62 GGGTCTTACACAAAATCA
35782652 CATATCGGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 27 0.40
86 32 0.47
87 5 0.07
88 4 0.06
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATTAAATATCAGTGCCACTATCCCAGACAGGGT
CTTACACAAAATCAAATACG
Found at i:35783032 original size:8 final size:8
Alignment explanation
Indices: 35783021--35783045 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35783011 AAATTAACCA
35783021 TCACATTT
1 TCACATTT
35783029 TCACATTT
1 TCACATTT
35783037 TCACATTT
1 TCACATTT
35783045 T
1 T
35783046 AACACTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:35791278 original size:47 final size:47
Alignment explanation
Indices: 35791210--35791522 Score: 475
Period size: 47 Copynumber: 6.6 Consensus size: 47
35791200 CCTGTATATA
*
35791210 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
***
35791257 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C---ATGCG
* *
35791308 TATGCGTGATAAGG-CGAATGGCCAATGTGATGAATGTGAACATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
35791354 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
35791401 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
**
35791448 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
35791495 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
35791523 CGAAATGTGT
Statistics
Matches: 245, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
46 16 0.07
47 186 0.76
48 1 0.00
49 1 0.00
50 26 0.11
51 15 0.06
ACGTcount: A:0.30, C:0.12, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:35791632 original size:46 final size:46
Alignment explanation
Indices: 35791496--35791632 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
35791486 GAACATGTAT
* *
35791496 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
35791542 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
35791588 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
35791633 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:35791854 original size:37 final size:37
Alignment explanation
Indices: 35791813--35791923 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
35791803 GTGGTGACTA
* *
35791813 TGTCCAGGTAAGACCCGATGACTACGTGTAGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
*
35791850 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* *
35791887 TGTCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
35791924 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:35792899 original size:28 final size:27
Alignment explanation
Indices: 35792799--35792912 Score: 135
Period size: 27 Copynumber: 4.2 Consensus size: 27
35792789 AGCATGGCTG
* *
35792799 CCAG-AACAGATATTGTGACAGAGTCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
35792825 CCAGATACAGATATTGTGGCAGAGCCA
1 CCAGAAACAGATATTGTGGCAGAGCCA
*
35792852 CCAG-AACAGATATTTATGGC-GTAGCCA
1 CCAGAAACAGATA-TTGTGGCAG-AGCCA
*
35792879 CCAGAAACAGATATTTGTGGCATAGCCA
1 CCAGAAACAGATA-TTGTGGCAGAGCCA
35792907 CCAGAA
1 CCAGAA
35792913 CGCTTCCTCC
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
26 12 0.16
27 38 0.50
28 26 0.34
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
CCAGAAACAGATATTGTGGCAGAGCCA
Found at i:35794294 original size:33 final size:33
Alignment explanation
Indices: 35794252--35794318 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
35794242 GACCTAGCTG
35794252 AATTTGCCTATACTAAAGACCCTTGGCCGGCCA
1 AATTTGCCTATACTAAAGACCCTTGGCCGGCCA
35794285 AATTTGCCTATACTAAAGACCCTTGGCCGGCCA
1 AATTTGCCTATACTAAAGACCCTTGGCCGGCCA
35794318 A
1 A
35794319 CTCTTGCTCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (33 bp):
AATTTGCCTATACTAAAGACCCTTGGCCGGCCA
Found at i:35799261 original size:20 final size:21
Alignment explanation
Indices: 35799213--35799265 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
35799203 TTTCCAGGTG
35799213 GTATCGATACCACTTAAAGGAA
1 GTATCGATACCAC-TAAAGGAA
* * *
35799235 ATATCGATACCA-TAGAGGCA
1 GTATCGATACCACTAAAGGAA
35799255 GTATCGATACC
1 GTATCGATACC
35799266 TACATAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (21 bp):
GTATCGATACCACTAAAGGAA
Found at i:35801456 original size:27 final size:27
Alignment explanation
Indices: 35801275--35801458 Score: 214
Period size: 27 Copynumber: 6.9 Consensus size: 27
35801265 GCCCTACATA
* *
35801275 GGTATTTCGGTAATTTTACACTAC-AAG
1 GGTATTTCGATAATTTTACA-AACTAAG
* * *
35801302 GGTATTTGGGTAATTTTACACTA-TAAG
1 GGTATTTCGATAATTTTACA-AACTAAG
*
35801329 GGTATTTCGATAATTTTACACTA-TAAG
1 GGTATTTCGATAATTTTACA-AACTAAG
* *
35801356 GGTATTTTGATAATTTTACAAACT-GG
1 GGTATTTCGATAATTTTACAAACTAAG
* *
35801382 GGTATTTCAATAATTTTACAAACTGAG
1 GGTATTTCGATAATTTTACAAACTAAG
*
35801409 GGTATTTCGATAATTTTACAAACTGAG
1 GGTATTTCGATAATTTTACAAACTAAG
35801436 GGTATTTCGATAATTTTACAAAC
1 GGTATTTCGATAATTTTACAAAC
35801459 AGGGGCTTTC
Statistics
Matches: 144, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
26 24 0.17
27 120 0.83
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAACTAAG
Found at i:35808953 original size:25 final size:25
Alignment explanation
Indices: 35808919--35808969 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
35808909 TGACTTCCCG
35808919 GAAGACTTCTTCTCCAATCTATTTT
1 GAAGACTTCTTCTCCAATCTATTTT
35808944 GAAGACTTCTTCTCCAATCTATTTT
1 GAAGACTTCTTCTCCAATCTATTTT
35808969 G
1 G
35808970 TTTTTCTTCT
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:0.24, C:0.24, G:0.10, T:0.43
Consensus pattern (25 bp):
GAAGACTTCTTCTCCAATCTATTTT
Found at i:35813134 original size:7 final size:7
Alignment explanation
Indices: 35813122--35813146 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
35813112 CGGCTCGATA
35813122 TAAGGTG
1 TAAGGTG
35813129 TAAGGTG
1 TAAGGTG
35813136 TAAGGTG
1 TAAGGTG
35813143 TAAG
1 TAAG
35813147 ACCGTAGATG
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:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (7 bp):
TAAGGTG
Found at i:35815446 original size:2 final size:2
Alignment explanation
Indices: 35815441--35815479 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
35815431 GACAGAGAGA
35815441 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
35815480 AGGGAAAGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (2 bp):
GT
Done.