Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002609.1 Hibiscus syriacus cultivar Beakdansim tig00005274_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 167397
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 1 of 2
Found at i:1559 original size:23 final size:23
Alignment explanation
Indices: 1469--1551 Score: 157
Period size: 23 Copynumber: 3.6 Consensus size: 23
1459 TATTTTATAT
1469 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
1492 GGCACTTCGGTGCAATTCTACGC
1 GGCACTTCGGTGCAATTCTACGC
*
1515 GGCACTTCGGTGCAATTCTACGT
1 GGCACTTCGGTGCAATTCTACGC
1538 GGCACTTCGGTGCA
1 GGCACTTCGGTGCA
1552 TTTATACGAG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 59 1.00
ACGTcount: A:0.17, C:0.29, G:0.28, T:0.27
Consensus pattern (23 bp):
GGCACTTCGGTGCAATTCTACGC
Found at i:6023 original size:28 final size:27
Alignment explanation
Indices: 5970--6050 Score: 126
Period size: 27 Copynumber: 3.0 Consensus size: 27
5960 CCTGTAAGTT
* *
5970 TTGTCCTTTTATTGTAAATTCTAAAAAA
1 TTGTCC-TTTATTATAAATTATAAAAAA
5998 TTGTCCTTTATTATAAATTATAAAAAA
1 TTGTCCTTTATTATAAATTATAAAAAA
*
6025 TTGTCCTTTATTATAAATTTTAAAAA
1 TTGTCCTTTATTATAAATTATAAAAA
6051 TCTTTATTCT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
27 44 0.88
28 6 0.12
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (27 bp):
TTGTCCTTTATTATAAATTATAAAAAA
Found at i:6071 original size:29 final size:28
Alignment explanation
Indices: 6001--6103 Score: 97
Period size: 29 Copynumber: 3.6 Consensus size: 28
5991 TAAAAAATTG
* * *
6001 TCCTTTATTATAAATTATAAAAA--ATTG
1 TCCTTTA-TATAAATTTTAAAAAGTTTTA
6028 TCCTTTATTATAAATTTTAAAAA-TCTTTA
1 TCCTTTA-TATAAATTTTAAAAAGT-TTTA
*
6057 TTCTTTATAGTAAATTTTAAAAAGTTTTA
1 TCCTTTATA-TAAATTTTAAAAAGTTTTA
6086 TCCTTTAT-TATAATTTTA
1 TCCTTTATATA-AATTTTA
6104 TATTTTCCGT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
27 24 0.36
28 9 0.14
29 32 0.48
30 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (28 bp):
TCCTTTATATAAATTTTAAAAAGTTTTA
Found at i:6818 original size:31 final size:31
Alignment explanation
Indices: 6780--6841 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
6770 GCTCAAAGGA
6780 CTCGTACACCAATTTCTCAACATGATTTCTT
1 CTCGTACACCAATTTCTCAACATGATTTCTT
6811 CTCGTACACCAATTTCTCAACATGATTTCTT
1 CTCGTACACCAATTTCTCAACATGATTTCTT
6842 TCTTTCTTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (31 bp):
CTCGTACACCAATTTCTCAACATGATTTCTT
Found at i:7776 original size:23 final size:23
Alignment explanation
Indices: 7750--7797 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
7740 ATAAAGTACA
*
7750 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
7773 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
7796 AT
1 AT
7798 TTTACCTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:8244 original size:23 final size:23
Alignment explanation
Indices: 8218--8272 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
8208 TAACCACTAC
8218 CTATTACATTATATAAACGATAA
1 CTATTACATTATATAAACGATAA
* * *
8241 CTATTACATTATATAAGCGCTAC
1 CTATTACATTATATAAACGATAA
8264 CTATTACAT
1 CTATTACAT
8273 CATTTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.36
Consensus pattern (23 bp):
CTATTACATTATATAAACGATAA
Found at i:8659 original size:21 final size:20
Alignment explanation
Indices: 8629--8699 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 20
8619 GATAGACACT
*
8629 TTACAATATAACCACTACCTA
1 TTACATTATAA-CACTACCTA
*
8650 TTACATTATATAAACGATACCTA
1 TTACATTATA-ACAC--TACCTA
*
8673 TTACATTATAAGCGCTACCTA
1 TTACATTATAA-CACTACCTA
8694 TTACAT
1 TTACAT
8700 CATATTTTAC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
21 23 0.55
22 2 0.05
23 17 0.40
ACGTcount: A:0.39, C:0.23, G:0.04, T:0.34
Consensus pattern (20 bp):
TTACATTATAACACTACCTA
Found at i:8670 original size:23 final size:23
Alignment explanation
Indices: 8644--8704 Score: 81
Period size: 21 Copynumber: 2.7 Consensus size: 23
8634 ATATAACCAC
8644 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
8667 TACCTATTACA-T-TATAAGCGC
1 TACCTATTACATTATATAAACGA
*
8688 TACCTATTACATCATAT
1 TACCTATTACATTATAT
8705 TTTACCTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:9090 original size:23 final size:23
Alignment explanation
Indices: 9064--9126 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
9054 ATATAACCAC
*
9064 TACCTATTACATTATATAAATGA
1 TACCTATTACATTATATAAACGA
* *
9087 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
9110 TACCTATTACATCATAT
1 TACCTATTACATTATAT
9127 TTTTACCATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:9499 original size:21 final size:22
Alignment explanation
Indices: 9474--9525 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
9464 ATACTTTACA
*
9474 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
9497 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
9520 ATATAA
1 ATATAA
9526 GCGCTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:9510 original size:23 final size:23
Alignment explanation
Indices: 9484--9546 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
9474 ATATAACCAC
9484 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
9507 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
* *
9530 TACATATTACATCATAT
1 TACCTATTACATTATAT
9547 TTTACCTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:9595 original size:420 final size:427
Alignment explanation
Indices: 7856--9746 Score: 3378
Period size: 420 Copynumber: 4.5 Consensus size: 427
7846 AATTTACCTA
* *
7856 TTACATATTATATTAAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
1 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
*
7921 GTAATTTATGTTTTAATTTTTTAATAGTGTTTCATGTTTTTCCACCTAC-ATATTAATTTAATAA
66 GTAATTTATGTTTCAATTTTTTAATAGTGTTTCATG-TTTTCCACCTACAATATTAATTTAATAA
7985 TTTCATTTGCAC-AAAAA-T-TTTGATT-TTTGATATTTTATAAAATATTATTTAGAATTTTTAA
130 TTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAA
8046 TTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
195 TTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
*
8111 TATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
260 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
* *
8176 ACTTTTATAAAAATGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAA
325 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
*
8241 CTATTACATTATATAAGCGCTACCTATTACATCATTTTT
390 CTATTACATTATATAAGCGCTACCTATTACATCA-TATT
*
8280 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAAGATCGATACTTCTTTTAAAGTTAT
1 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
*
8345 GTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGCTTTCCACCTACAATATTAATTTAATA
66 GTAATTTATGTTTCAA--TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATA
*
8410 ATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAAT-TTGTTTAGAATTTTTA
129 ATTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTA
8474 ATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
194 ATTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
*
8539 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATAGA
259 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
8604 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATA
324 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATA
8669 CCTATTACA-T-TATAAGCGCTACCTATTACATCATATT
389 CCTATTACATTATATAAGCGCTACCTATTACATCATATT
8706 TTACCTATTATATTG-AAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
1 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
* *
8770 GTAATTTATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCTACCTATAATATTAATTTAATAA
66 GTAATTTATGTTTCAA-TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
8835 TTTCATTTGCAC-AAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAA
130 TTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAA
8899 TTTAATAAT-ATATATATCGTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAA
195 TTTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAA
8962 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGAC
260 TATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGAC
* *
9026 ACTTTTAT-AAAAGAATAGACACTTTACAATATAACCACTACCTATTACATTATATAAATGATAC
325 ACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATAC
9090 CTATTACATTATATAAGCGCTACCTATTACATCATATTT
390 CTATTACATTATATAAGCGCTACCTATTACATCATA-TT
*
9129 TTACC-ATTATATTGAAAGTGTCCATACTTTTTATAAAAATGATCGATACTTCTTTTAAAGTTAT
1 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
9193 GTAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
66 GTAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
9258 TTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTAT-AAA-ATTATTTAGAA-TTTTAAT
131 TTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
9320 TTAATAAT-A-ATATATCGTAACGTAAAAAAT-AATCATTAGACGCCTATAATTACTAAATTAAT
196 TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
9382 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAGTATGGACA
261 ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
*
9446 CTTTTATAAAAAGGATAGATACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
326 CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
*
9511 TATTACATTATATAAGCGCTACATATTACATCATATT
391 TATTACATTATATAAGCGCTACCTATTACATCATATT
*
9548 TTACCTATTATATTGAAAGTGTCCATATTTTTTATAAAAAGGATCGATACTTC-TTTAAAGTTAT
1 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
9612 GTAATTTATGTTTCAAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
66 GTAATTTATGTTTC-AATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAA
*
9677 TTTCATTTGCACAAAAAATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTTTAA
130 TTTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAA
9742 TTTAA
195 TTTAA
9747 CAACATTAAC
Statistics
Matches: 1419, Mismatches: 29, Indels: 39
0.95 0.02 0.03
Matches are distributed among these distances:
419 156 0.11
420 302 0.21
421 35 0.02
422 188 0.13
423 168 0.12
424 160 0.11
425 75 0.05
426 65 0.05
427 28 0.02
428 2 0.00
429 222 0.16
430 18 0.01
ACGTcount: A:0.39, C:0.12, G:0.08, T:0.41
Consensus pattern (427 bp):
TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTAT
GTAATTTATGTTTCAATTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAAT
TTCATTTGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAAT
TTAATAATAATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAT
ATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACA
CTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACC
TATTACATTATATAAGCGCTACCTATTACATCATATT
Found at i:10014 original size:39 final size:39
Alignment explanation
Indices: 9960--10043 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
9950 CAAGTTGTAG
* *
9960 ATTTTGATTTTCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
9999 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
10038 ATTTTG
1 ATTTTG
10044 TTGAGCATCG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.18, C:0.13, G:0.19, T:0.50
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:10320 original size:18 final size:18
Alignment explanation
Indices: 10297--10333 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10287 CGAAATATAT
10297 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
10315 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
10333 A
1 A
10334 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:10800 original size:23 final size:23
Alignment explanation
Indices: 10770--10832 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
10760 ATATAACCAC
10770 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* * *
10793 TACTTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
10816 TACCTATTACATCATAT
1 TACCTATTACATTATAT
10833 GTTTACCTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:11233 original size:25 final size:25
Alignment explanation
Indices: 11176--11241 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
11166 CACTCAAAAG
*
11176 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
11201 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
11226 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
11242 TTAATAATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:14135 original size:181 final size:183
Alignment explanation
Indices: 13711--14198 Score: 842
Period size: 181 Copynumber: 2.7 Consensus size: 183
13701 TAAAATTACT
*
13711 GACACTTTTTTAAATGGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
1 GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
* * *
13776 TTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTGTATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
13841 TATTACAAAATTATCTATTACATTATAAATCTGGGTTCCGATGTGTAAATGTC
131 TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
* *
13894 GATACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGAC-TAAAGTACCGACACAATA
1 GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
13958 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
66 TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
*
14023 TATTAC-AAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAATGTC
131 TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
* *
14075 GACACTTTTTAACAAT-GTATCGACACATTTTTCTTCCAATCTGGACAT-AAGTACCGACACAAG
1 GACACTTTTTTA-AATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAAT
14138 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAT-AAACCGGTATATTTATACCG
65 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCG
14199 ATAGCATTGC
Statistics
Matches: 291, Mismatches: 12, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
180 20 0.07
181 138 0.47
182 90 0.31
183 43 0.15
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
GACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATCTGGACATAAAGTACCGACACAATA
TTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTTA
TATTACAAAATTATCTATTACATTATAAATATGGGTTCCGATGTGTAAATGTC
Found at i:15706 original size:12 final size:12
Alignment explanation
Indices: 15693--15787 Score: 118
Period size: 12 Copynumber: 7.9 Consensus size: 12
15683 GTTTGGATCA
*
15693 TCATCTTCATCA
1 TCATCTTCATCG
* *
15705 TCATCATCATCA
1 TCATCTTCATCG
* *
15717 TCGTCATCATCG
1 TCATCTTCATCG
*
15729 TCAGCTTCATCG
1 TCATCTTCATCG
*
15741 TCATCATCATCG
1 TCATCTTCATCG
15753 TCATCTTCATCG
1 TCATCTTCATCG
15765 TCATCTTCATCG
1 TCATCTTCATCG
*
15777 TCAGCTTCATC
1 TCATCTTCATC
15788 TTCTGCGACC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 73 1.00
ACGTcount: A:0.21, C:0.34, G:0.08, T:0.37
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:15708 original size:6 final size:6
Alignment explanation
Indices: 15689--15775 Score: 84
Period size: 6 Copynumber: 14.5 Consensus size: 6
15679 ACTTGTTTGG
* * * * *
15689 ATCATC ATCTTC ATCATC ATCATC ATCATC GTCATC ATCGTC AGCTTC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC
* * * * *
15737 ATCGTC ATCATC ATCGTC ATCTTC ATCGTC ATCTTC ATC
1 ATCATC ATCATC ATCATC ATCATC ATCATC ATCATC ATC
15776 GTCAGCTTCA
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.23, C:0.33, G:0.07, T:0.37
Consensus pattern (6 bp):
ATCATC
Found at i:15790 original size:6 final size:6
Alignment explanation
Indices: 15693--15790 Score: 79
Period size: 6 Copynumber: 16.3 Consensus size: 6
15683 GTTTGGATCA
* * * * * * * *
15693 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCG TCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
15741 TCATCA TCATCG TCATCT TCATCG TCATCT TCATCG TCAGCT TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
15789 TC
1 TC
15791 TGCGACCGCT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 75 1.00
ACGTcount: A:0.20, C:0.34, G:0.08, T:0.38
Consensus pattern (6 bp):
TCATCT
Found at i:17611 original size:199 final size:198
Alignment explanation
Indices: 17253--18417 Score: 2077
Period size: 199 Copynumber: 5.9 Consensus size: 198
17243 TTTAAATTAG
*
17253 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
17318 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
17383 GACACTTTTTATATATGGATTGACACTTTATGATTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
17448 AAA
196 AAA
*
17451 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
17516 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
17581 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
17646 AAAA
195 AAAA
* ** *
17650 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGTTATATTCTCTCATAAAACC-GTATAC
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
17714 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
17779 GACAC-TTTT-TATA-GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
17841 AAA
196 AAA
* *
17844 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGTAAA
1 TATCGACACAAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
17909 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
17974 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGACCA
130 CGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
18039 AAAA
195 AAAA
* *
18043 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAT
1 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
*
18108 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
18173 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
18238 AAA
196 AAA
*
18241 TATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
1 TATCGACACAAACTAAA-AAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAA
* *
18306 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
65 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
18371 TTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
129 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
18418 GGCCATATTG
Statistics
Matches: 926, Mismatches: 33, Indels: 14
0.95 0.03 0.01
Matches are distributed among these distances:
194 66 0.07
195 41 0.04
196 79 0.09
197 79 0.09
198 250 0.27
199 349 0.38
200 62 0.07
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAA
Found at i:17982 original size:393 final size:397
Alignment explanation
Indices: 17253--18417 Score: 2176
Period size: 393 Copynumber: 2.9 Consensus size: 397
17243 TTTAAATTAG
*
17253 TATCGACACAAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
1 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
17318 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
17383 GACACTTTTTATATATGGATTGACACTTTATGATTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
17448 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
17513 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
17578 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
17643 CCAAAAA
391 CCAAAAA
**
17650 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGTTATATTCTCTCATAAAACC-GTATAC
1 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
17714 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
17779 GACAC-TTTT-TATA-GGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
*
17841 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACTGGT
196 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
17906 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
261 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
17971 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
326 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
18036 CCAAAAA
391 CCAAAAA
* *
18043 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTAAAT
1 TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
*
18108 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGTTTTTGGGATC
66 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
18173 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
18238 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
196 AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
* *
18303 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
261 AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTG
* *
18368 GGATTGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
18418 GGCCATATTG
Statistics
Matches: 747, Mismatches: 16, Indels: 9
0.97 0.02 0.01
Matches are distributed among these distances:
393 304 0.41
394 77 0.10
395 8 0.01
396 80 0.11
397 218 0.29
398 60 0.08
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (397 bp):
TATCGACACCAACTAAAAAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAC
TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
AAATATCGACACAAACTAAATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
AAACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
CCAAAAA
Found at i:18582 original size:19 final size:19
Alignment explanation
Indices: 18536--18584 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
18526 TTATATTCAC
*
18536 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
18555 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
18574 ATACAAAATTA
1 ATACAAAATTA
18585 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:20366 original size:33 final size:33
Alignment explanation
Indices: 20329--20394 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
20319 CATCTTAATA
*
20329 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
20362 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
20395 CCATATATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:22701 original size:17 final size:18
Alignment explanation
Indices: 22679--22721 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
22669 ATATATCCGG
22679 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
22696 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
22716 TATCAT
1 TATCAT
22722 ATTTTTACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:22739 original size:20 final size:19
Alignment explanation
Indices: 22684--22730 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
22674 TCCGGTATCA
22684 TTTTACCGGTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
22703 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
22724 TTTTACC
1 TTTTACC
22731 TGTTATATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:22891 original size:20 final size:20
Alignment explanation
Indices: 22864--22910 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
22854 TCCAGTAACG
22864 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
22883 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
22904 TTTTACC
1 TTTTACC
22911 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:23408 original size:226 final size:226
Alignment explanation
Indices: 22959--23662 Score: 1225
Period size: 226 Copynumber: 3.1 Consensus size: 226
22949 ACTTTTATAC
22959 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGA-ATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
23024 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
*
23089 ATTTGATTATTTGATA-TTT-TAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAATA
130 ATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
23152 TAATAATAAATATGTTTTCCACAGTGAAATAA
195 TAATAATAAATATGTTTTCCACAGTGAAATAA
23184 GTATGGACACTTTTAT-AAAATG-ATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
1 GTATGGACACTTTTATAAAAATGAATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TTT
23247 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAAAT
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACAC-AAAAAT
*
23312 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAATAATATTAACCAAAG
129 TATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAG
23377 ATAATAATAAATATGTTTTCCACAGTGAAATAA
194 ATAATAATAAATATGTTTTCCACAGTGAAATAA
23410 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGA-ATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
* *
23475 TTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATTTACAC-ACAA--
65 TTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATT
23537 A----ATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
130 ATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGA
*
23598 TAATAATAAATATATTTT-CACAGTGAAATAA
195 TAATAATAAATATGTTTTCCACAGTGAAATAA
*
23629 GTATGGACACTTTTATAAAAATGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGA-ATATACTTT
23663 ACAATATAAC
Statistics
Matches: 465, Mismatches: 7, Indels: 20
0.95 0.01 0.04
Matches are distributed among these distances:
219 46 0.10
220 76 0.16
222 37 0.08
223 61 0.13
224 30 0.06
225 19 0.04
226 93 0.20
227 6 0.01
228 60 0.13
229 37 0.08
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (226 bp):
GTATGGACACTTTTATAAAAATGAATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTT
TTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAATTA
TTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAAGAT
AATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:24347 original size:25 final size:25
Alignment explanation
Indices: 24330--24384 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
24320 TCACAGTCGG
24330 CTAAACAATAGATTGTCACGATCGA
1 CTAAACAATAGATTGTCACGATCGA
24355 CTAAACAATAGATTGTCACGATCGA
1 CTAAACAATAGATTGTCACGATCGA
24380 CTAAA
1 CTAAA
24385 GAAATTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.24
Consensus pattern (25 bp):
CTAAACAATAGATTGTCACGATCGA
Found at i:24621 original size:20 final size:20
Alignment explanation
Indices: 24596--24635 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24586 GAGTTTAATT
*
24596 TTTTTATAA-AATATTTTTAA
1 TTTTTAAAATAAT-TTTTTAA
24616 TTTTTAAAATAATTTTTTAA
1 TTTTTAAAATAATTTTTTAA
24636 ATTTATCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTAAAATAATTTTTTAA
Found at i:24633 original size:21 final size:20
Alignment explanation
Indices: 24596--24639 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
24586 GAGTTTAATT
* *
24596 TTTTTATAAAATATTTTTAA
1 TTTTTAAAAAATATTTTAAA
*
24616 TTTTTAAAATAATTTTTTAAA
1 TTTTTAAAA-AATATTTTAAA
24637 TTT
1 TTT
24640 ATCAGATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTAAAAAATATTTTAAA
Found at i:34620 original size:4 final size:4
Alignment explanation
Indices: 34611--34642 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
34601 TTTTCTCCTC
34611 TTCT TTCT TTCT TTCT TTCT TTCT TT-T TTCT T
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTCT T
34643 CTTCCTTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 24 0.89
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (4 bp):
TTCT
Found at i:35610 original size:13 final size:13
Alignment explanation
Indices: 35592--35630 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
35582 ATGAAGAGTG
35592 AAAAATATTAATA
1 AAAAATATTAATA
* *
35605 AAAAATAATGATA
1 AAAAATATTAATA
35618 ATAAAATATTAAT
1 A-AAAATATTAAT
35631 TAATGCATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
AAAAATATTAATA
Found at i:37610 original size:18 final size:18
Alignment explanation
Indices: 37587--37621 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
37577 CCGGTCAACG
37587 GTCAACGGGTCGGGTCGA
1 GTCAACGGGTCGGGTCGA
37605 GTCAACGGGTCGGGTCG
1 GTCAACGGGTCGGGTCG
37622 TGACCGGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.23, G:0.46, T:0.17
Consensus pattern (18 bp):
GTCAACGGGTCGGGTCGA
Found at i:37632 original size:23 final size:20
Alignment explanation
Indices: 37579--37621 Score: 63
Period size: 18 Copynumber: 2.2 Consensus size: 20
37569 GAATAACACC
*
37579 GGTCAACGGTCAACGGGTCG
1 GGTCGACGGTCAACGGGTCG
37599 GGTCGA--GTCAACGGGTCG
1 GGTCGACGGTCAACGGGTCG
37617 GGTCG
1 GGTCG
37622 TGACCGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
20 5 0.23
ACGTcount: A:0.16, C:0.23, G:0.44, T:0.16
Consensus pattern (20 bp):
GGTCGACGGTCAACGGGTCG
Found at i:38584 original size:3 final size:3
Alignment explanation
Indices: 38576--38636 Score: 79
Period size: 3 Copynumber: 20.3 Consensus size: 3
38566 GTCGAAAAAA
* * *
38576 TAT TAT TAT TAT TAT TAT TAC TAT AAT TAT TAC TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
38624 TACT T-T TAT TAT T
1 TA-T TAT TAT TAT T
38637 TAAAACCTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:43316 original size:14 final size:15
Alignment explanation
Indices: 43297--43325 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43287 TCAAACATTT
43297 AACAATCCA-AAACA
1 AACAATCCAGAAACA
43311 AACAATCCAGAAACA
1 AACAATCCAGAAACA
43326 TCAAAATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (15 bp):
AACAATCCAGAAACA
Found at i:51145 original size:64 final size:63
Alignment explanation
Indices: 51066--51268 Score: 207
Period size: 65 Copynumber: 3.1 Consensus size: 63
51056 AGAGTGGATC
* *
51066 GATGCATGAAGTGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGCTTGTGCATT
1 GATGCATCAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGG-TTGTGCATT
* * *
51130 GATGCATCAAATGCATTCGATGTTTTCATAA-AGCCCTCAATGCATCGATGCATGGTATGTGCAT
1 GATGCATCAAATGCATTCGATG-TTTCAAAATAG-CCTGAGTGCATCGATGCATGGT-TGTGCAT
*
51194 C
63 T
* ** *
51195 GATGCATGAAATGCATTCGATG-TTCAATTTATTCCATG-GTGCATCGATGCATGGATTAGTGCA
1 GATGCATCAAATGCATTCGATGTTTCAAAATA-GCC-TGAGTGCATCGATGCATGG-TT-GTGCA
51258 TT
62 TT
51260 -AGTGCATCA
1 GA-TGCATCA
51269 CTTTGAAAAA
Statistics
Matches: 115, Mismatches: 15, Indels: 17
0.78 0.10 0.12
Matches are distributed among these distances:
63 4 0.03
64 43 0.37
65 68 0.59
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (63 bp):
GATGCATCAAATGCATTCGATGTTTCAAAATAGCCTGAGTGCATCGATGCATGGTTGTGCATT
Found at i:51191 original size:65 final size:65
Alignment explanation
Indices: 51063--51218 Score: 219
Period size: 65 Copynumber: 2.4 Consensus size: 65
51053 CTAAGAGTGG
* * *
51063 ATCGATGCATGAAGTGCATTCGATG-TTTCAAAATAGCCTGAGTGCATCGATGCATGGCTTGTGC
1 ATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCTCAATGCATCGATGCATGGCTTGTGC
* * *
51127 ATTGATGCATCAAATGCATTCGATGTTTTCATAA-AGCCCTCAATGCATCGATGCATGG-TATGT
1 ATCGATGCATGAAATGCATTCGATGTTTTCAAAATAG-CCTCAATGCATCGATGCATGGCT-TGT
51190 GC
64 GC
51192 ATCGATGCATGAAATGCATTCGATGTT
1 ATCGATGCATGAAATGCATTCGATGTT
51219 CAATTTATTC
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 25 0.31
65 56 0.69
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.31
Consensus pattern (65 bp):
ATCGATGCATGAAATGCATTCGATGTTTTCAAAATAGCCTCAATGCATCGATGCATGGCTTGTGC
Found at i:52276 original size:2 final size:2
Alignment explanation
Indices: 52264--52297 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
52254 TCATTTATCC
* *
52264 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52298 CTTGTTGTCC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:52491 original size:14 final size:14
Alignment explanation
Indices: 52472--52502 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52462 TCCAATAAAT
52472 AAAAAAAGAAACAA
1 AAAAAAAGAAACAA
*
52486 AAAAAAAGAAAGAA
1 AAAAAAAGAAACAA
52500 AAA
1 AAA
52503 GGGACGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAAACAA
Found at i:54111 original size:61 final size:62
Alignment explanation
Indices: 54003--54176 Score: 217
Period size: 61 Copynumber: 2.8 Consensus size: 62
53993 GGCTTCCCAT
* *
54003 TTTCATTAAGAGTCAATTTCAACTTCACAGCGAAGGATATTGGACTCAACAAACAACTTTCCAAC
1 TTTCATT-A-AGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAACAAACAACTTTAC-AC
* * * *
54068 TTTCA-T-AGTCAATTTCAACTTCACAGTGAAGGATATTGTACTCAACAAACAATTTTACAG
1 TTTCATTAAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAACAAACAACTTTACAC
* *
54128 TTTCATTCAGAGTCAATTTCAACTTCACAACAAAGGATATTGAACTCAA
1 TTTCATT-A-AGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAA
54177 AACGACACAA
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
60 6 0.06
61 49 0.51
64 36 0.38
65 5 0.05
ACGTcount: A:0.37, C:0.21, G:0.11, T:0.30
Consensus pattern (62 bp):
TTTCATTAAGTCAATTTCAACTTCACAGCGAAGGATATTGAACTCAACAAACAACTTTACAC
Found at i:54428 original size:43 final size:43
Alignment explanation
Indices: 54378--54489 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
54368 GACGAAAGGG
*
54378 ACATCCACGATTTCAACTCCACGATGGAGGATATCGTACCCAC
1 ACATCCACGATTTCAACTCCACGATAGAGGATATCGTACCCAC
** * *
54421 GGATCCACGATTTCAACTCTACGATAGAGGATATCGTGCCCAC
1 ACATCCACGATTTCAACTCCACGATAGAGGATATCGTACCCAC
* *
54464 ACATCCACGGTTTCAACTTCACGATA
1 ACATCCACGATTTCAACTCCACGATA
54490 AAGAGAATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 59 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
ACATCCACGATTTCAACTCCACGATAGAGGATATCGTACCCAC
Found at i:54965 original size:43 final size:43
Alignment explanation
Indices: 54850--54965 Score: 187
Period size: 43 Copynumber: 2.7 Consensus size: 43
54840 GGCCATTCAT
* * *
54850 GATTTCAACTCCACGACGGAGGATATTGTACCCACAGATCCAC
1 GATTTCAACTCCACGACGGAGGATATCGTGCCCACACATCCAC
54893 GATTTCAACTCCACGACGGAGGATATCGTGCCCACACATCCAC
1 GATTTCAACTCCACGACGGAGGATATCGTGCCCACACATCCAC
* *
54936 GATTTCAACTTCACGACGAAGGATATCGTG
1 GATTTCAACTCCACGACGGAGGATATCGTG
54966 TCTATCAACA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 68 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (43 bp):
GATTTCAACTCCACGACGGAGGATATCGTGCCCACACATCCAC
Found at i:55138 original size:37 final size:37
Alignment explanation
Indices: 55066--55139 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
55056 CCACGATTTC
*
55066 AAATTTTATCTCCCTTGAGACATTTTCTCTTGAAACA
1 AAATTTTATCTCCCTTGAGACATTTTCTCTCGAAACA
**
55103 AAATTTTATCTCCCTTGAGATGGTTTTC-CTCGAAACA
1 AAATTTTATCTCCCTTGAGA-CATTTTCTCTCGAAACA
55140 TAAAATCTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 28 0.85
38 5 0.15
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.39
Consensus pattern (37 bp):
AAATTTTATCTCCCTTGAGACATTTTCTCTCGAAACA
Found at i:55495 original size:3 final size:3
Alignment explanation
Indices: 55479--55534 Score: 58
Period size: 3 Copynumber: 18.3 Consensus size: 3
55469 GTCGAAAAAA
* * * * *
55479 TAT TAT TAAA TAT TAT TAT TAT TAT TAT TGT TAC TAT AAT TAT TAC
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
55525 TAT TAT TAT T
1 TAT TAT TAT T
55535 TAAAACCTAC
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
3 40 0.95
4 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:55506 original size:12 final size:12
Alignment explanation
Indices: 55479--55534 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
55469 GTCGAAAAAA
*
55479 TATTATTAAATAT
1 TATTATT-ACTAT
*
55492 TATTATTATTAT
1 TATTATTACTAT
*
55504 TATTGTTACTAT
1 TATTATTACTAT
*
55516 AATTATTACTAT
1 TATTATTACTAT
55528 TATTATT
1 TATTATT
55535 TAAAACCTAC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
12 30 0.81
13 7 0.19
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (12 bp):
TATTATTACTAT
Found at i:73670 original size:17 final size:16
Alignment explanation
Indices: 73648--73691 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
73638 CTACAAAAAA
73648 AATAAAAAAATATTAAT
1 AATAAAAAAATATT-AT
*
73665 AATAAAAAAAAATTAT
1 AATAAAAAAATATTAT
73681 AATAAAAAAAT
1 AATAAAAAAAT
73692 CAAAATATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AATAAAAAAATATTAT
Found at i:73700 original size:19 final size:18
Alignment explanation
Indices: 73651--73701 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 18
73641 CAAAAAAAAT
73651 AAAAAAATATTAATAATAA
1 AAAAAAATA-TAATAATAA
73670 AAAAAAATTATAATAA-AA
1 AAAAAAA-TATAATAATAA
73688 AAATCAAAATATAA
1 AAA--AAAATATAA
73702 AATCCGGTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 5 0.17
19 18 0.62
20 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAAAAATATAATAATAA
Found at i:74029 original size:84 final size:84
Alignment explanation
Indices: 73919--74103 Score: 235
Period size: 84 Copynumber: 2.2 Consensus size: 84
73909 AGCTGAATGA
* * * *
73919 AATCGAACTCGTCAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGA
1 AATCGAACTCG-AAGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGA
*
73984 TGTGTCTCGGAGCTGAGCGT
65 TGTGCCTCGGAGCTGAGCGT
* * * * * * *
74004 AGTCGAACTTGAAGGTCTTTGGTTGGAAAATAGCCCTTCTTGCCTTGAGCTATGTTGCAAATGAT
1 AATCGAACTCGAAGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
* *
74069 GTGCCTTGGAGCTGAGTGT
66 GTGCCTCGGAGCTGAGCGT
74088 AATCGAACTCGAAGGT
1 AATCGAACTCGAAGGT
74104 TTGGTGTTTC
Statistics
Matches: 84, Mismatches: 16, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
84 75 0.89
85 9 0.11
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (84 bp):
AATCGAACTCGAAGGTCTTTGGTTGGAAAATAACCCTTCTCGACTTAAGCTATGCTGCAAATGAT
GTGCCTCGGAGCTGAGCGT
Found at i:74257 original size:36 final size:36
Alignment explanation
Indices: 74210--74350 Score: 147
Period size: 36 Copynumber: 4.1 Consensus size: 36
74200 CAAAGATTGG
* *
74210 TGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
74246 TGTTTCAAGGGAAACTG--TC-A-A-AG----ATTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
*
74273 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
** *
74309 TGTTTCAAGAAAAACTGTATCAAGAGAGACAAAACTT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TT
74346 TGTTT
1 TGTTT
74351 TGAGTAAATT
Statistics
Matches: 87, Mismatches: 8, Indels: 19
0.76 0.07 0.17
Matches are distributed among these distances:
27 20 0.23
29 2 0.02
30 1 0.01
31 2 0.02
32 3 0.03
33 1 0.01
34 1 0.01
36 50 0.57
37 7 0.08
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
Found at i:74289 original size:63 final size:63
Alignment explanation
Indices: 74140--74326 Score: 257
Period size: 63 Copynumber: 2.9 Consensus size: 63
74130 AAAGGTTTTT
* * *
74140 TTTTGTTTCAAGAGAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACCTATTCAAAG
1 TTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAA-TTTGTTTCAAGAGAAA-CT-GTCAAAG
74205 A
63 A
* * * * *
74206 TTGGTGTTTCAAGGGAAACTGTCTTAAGAGAGATAAAATTTGTTTCAAGGGAAACTGTCAAAGA
1 TT-TTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCAAAGA
*
74270 TTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAAAAACTGT
1 TTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGT
74327 ATCAAGAGAG
Statistics
Matches: 106, Mismatches: 14, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
63 49 0.46
64 9 0.08
65 2 0.02
66 17 0.16
67 29 0.27
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.30
Consensus pattern (63 bp):
TTTTGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAAGAGAAACTGTCAAAGA
Found at i:80814 original size:5 final size:5
Alignment explanation
Indices: 80806--80833 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
80796 TATATTTATG
80806 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
80834 TATAATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:80859 original size:60 final size:59
Alignment explanation
Indices: 80755--80884 Score: 140
Period size: 60 Copynumber: 2.2 Consensus size: 59
80745 TTCTTAATAT
* * * * **
80755 TAAAAT-AAATAAATAAATTATTATTTAATATATATATTATATATATTTATGAATAAAA
1 TAAAATAAAATAAATAAATTATTAATTAATATATAAATTAAATATATATAAAAATAAAA
80813 TAAAATAAAATAAAATAAAATTA-TAATTAAT-TACTAAATTAAATATATATAAAAATAAAA
1 TAAAATAAAAT-AAAT-AAATTATTAATTAATATA-TAAATTAAATATATATAAAAATAAAA
*
80873 TTAAATAGAAAT
1 TAAAATA-AAAT
80885 TGAATAGTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
58 6 0.10
59 6 0.10
60 38 0.63
61 10 0.17
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.37
Consensus pattern (59 bp):
TAAAATAAAATAAATAAATTATTAATTAATATATAAATTAAATATATATAAAAATAAAA
Found at i:80878 original size:10 final size:10
Alignment explanation
Indices: 80806--80890 Score: 50
Period size: 10 Copynumber: 8.4 Consensus size: 10
80796 TATATTTATG
*
80806 AATAAAATAA
1 AATAAAATTA
*
80816 AATAAAATAA
1 AATAAAATTA
80826 AATAAAATTA
1 AATAAAATTA
*
80836 TAAT-TAATT-
1 -AATAAAATTA
*
80845 ACT-AAATTA
1 AATAAAATTA
* *
80854 AATATATATAAA
1 AATA-AAAT-TA
80866 AATAAAATTA
1 AATAAAATTA
*
80876 AATAGAAATTG
1 AATA-AAATTA
80887 AATA
1 AATA
80891 GTGATAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.10
9 2 0.03
10 28 0.47
11 18 0.31
12 5 0.08
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.31
Consensus pattern (10 bp):
AATAAAATTA
Found at i:80885 original size:33 final size:34
Alignment explanation
Indices: 80848--80911 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
80838 ATTAATTACT
80848 AAATTAAATA-T-ATATAAAAATAAAATTAAATAG
1 AAATTAAATAGTGATA-AAAAATAAAATTAAATAG
*
80881 AAATTGAATAGTGATAAAAAATAAAATTAAA
1 AAATTAAATAGTGATAAAAAATAAAATTAAA
80912 ATTACAGGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 9 0.32
34 16 0.57
35 3 0.11
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (34 bp):
AAATTAAATAGTGATAAAAAATAAAATTAAATAG
Found at i:90750 original size:20 final size:20
Alignment explanation
Indices: 90705--90748 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
90695 ATTTTTTAAT
90705 TCAAATATGAGATATTTTTC
1 TCAAATATGAGATATTTTTC
90725 TCAAATA-GAGAATATTTTT-
1 TCAAATATGAG-ATATTTTTC
90744 TCAAA
1 TCAAA
90749 ATCTGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.41, C:0.09, G:0.09, T:0.41
Consensus pattern (20 bp):
TCAAATATGAGATATTTTTC
Found at i:90948 original size:12 final size:12
Alignment explanation
Indices: 90913--90950 Score: 51
Period size: 11 Copynumber: 3.2 Consensus size: 12
90903 CTACTAGGTT
90913 AAACACAATTCAA
1 AAAC-CAATTCAA
*
90926 AAA-CAACTCAA
1 AAACCAATTCAA
90937 AAACCAATTCAA
1 AAACCAATTCAA
90949 AA
1 AA
90951 GAATTCTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 10 0.45
12 9 0.41
13 3 0.14
ACGTcount: A:0.63, C:0.24, G:0.00, T:0.13
Consensus pattern (12 bp):
AAACCAATTCAA
Found at i:91671 original size:15 final size:15
Alignment explanation
Indices: 91647--91685 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
91637 GTCTCGTATG
* *
91647 CACCCACCCCGCATC
1 CACCCGCCCCACATC
91662 CACCCGCCCCACATC
1 CACCCGCCCCACATC
*
91677 CGCCCGCCC
1 CACCCGCCC
91686 ACTAACTACT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.15, C:0.69, G:0.10, T:0.05
Consensus pattern (15 bp):
CACCCGCCCCACATC
Found at i:95837 original size:36 final size:37
Alignment explanation
Indices: 95780--95855 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
95770 TTTTGTCCTA
95780 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
1 CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
* *
95817 CTAGGATTC-AACTC-CTAAAAATATGATAGAATTTTG
1 CTAGGATTCAAACTCTC-AAAAATAGGATAGAATTCTG
95853 CTA
1 CTA
95856 TATTTTAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.03
36 26 0.72
37 9 0.25
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (37 bp):
CTAGGATTCAAACTCTCAAAAATAGGATAGAATTCTG
Found at i:96203 original size:24 final size:23
Alignment explanation
Indices: 96160--96224 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 23
96150 CATGTAATAT
* *
96160 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTA
96183 TTTTTTAC-TTTAGTATATATTTTA
1 TTTTTTACATTT--TATATATTTTA
* *
96207 TTTTTTAGATTATATATA
1 TTTTTTACATTTTATATA
96225 AATATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 3 0.09
23 14 0.40
24 16 0.46
25 2 0.06
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.66
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTA
Found at i:96291 original size:25 final size:25
Alignment explanation
Indices: 96263--96340 Score: 90
Period size: 25 Copynumber: 3.1 Consensus size: 25
96253 TTAATTTATA
96263 TATATATTTACTT-TTTTTATTTTTT
1 TATATATTTA-TTATTTTTATTTTTT
* *
96288 TATATATATATTATTTTTACTTTTT
1 TATATATTTATTATTTTTATTTTTT
96313 TAT-TA-TTATTATTATTTATTTGTTT
1 TATATATTTATTATT-TTTATTT-TTT
96338 TAT
1 TAT
96341 TTCTATATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
23 7 0.15
24 10 0.22
25 29 0.63
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (25 bp):
TATATATTTATTATTTTTATTTTTT
Found at i:96339 original size:33 final size:34
Alignment explanation
Indices: 96248--96332 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
96238 TTATTATCAG
* *
96248 TTTTATTA-ATTTATATATATATTTACTTTTTTTA
1 TTTTATTATATATATAT-TATTTTTACTTTTTTTA
*
96282 TTTTTTTATATATATATTATTTTTAC-TTTTTTA
1 TTTTATTATATATATATTATTTTTACTTTTTTTA
*
96315 TTATTATTAT-TATTTATT
1 TT-TTATTATATATATATT
96333 TGTTTTATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
33 16 0.36
34 21 0.48
35 7 0.16
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (34 bp):
TTTTATTATATATATATTATTTTTACTTTTTTTA
Found at i:96348 original size:50 final size:48
Alignment explanation
Indices: 96278--96383 Score: 126
Period size: 50 Copynumber: 2.2 Consensus size: 48
96268 ATTTACTTTT
96278 TTTATTTTTTTATATATATATTATTTT-TACTTTTT-TATTATTATTATTA
1 TTTATTTTTTTATATATATATT-TTTTCTACTTTTTCT-TTATTATTA-TA
* * * *
96327 TTTATTTGTTTTATTTCTATATTTTTTCTTCTTTTTCTTTATTTTTATA
1 TTTATTT-TTTTATATATATATTTTTTCTACTTTTTCTTTATTATTATA
96376 TTTATTTT
1 TTTATTTT
96384 ACTTACTATT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
48 1 0.02
49 20 0.40
50 28 0.56
51 1 0.02
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.75
Consensus pattern (48 bp):
TTTATTTTTTTATATATATATTTTTTCTACTTTTTCTTTATTATTATA
Found at i:96489 original size:15 final size:15
Alignment explanation
Indices: 96471--96500 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96461 TATTTATTTC
96471 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
96486 TTACCTTTTTATCTA
1 TTACCTTTTTATCTA
96501 ACATGGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (15 bp):
TTACCTTTTTATCTA
Found at i:99504 original size:22 final size:22
Alignment explanation
Indices: 99481--99542 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
99471 CAAAAAGGGC
99481 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAGAAAAAA-AAAAGAAGCA
* *
99504 AAAAAGGAAAAAACAAGAA-CA
1 AAAAAGAAAAAAAAAAGAAGCA
99525 AAAAAGAAAGAACAAAAA
1 AAAAAGAAA-AA-AAAAA
99543 TAAAAAAGGG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
21 10 0.30
22 8 0.24
23 15 0.45
ACGTcount: A:0.79, C:0.06, G:0.15, T:0.00
Consensus pattern (22 bp):
AAAAAGAAAAAAAAAAGAAGCA
Found at i:99533 original size:20 final size:20
Alignment explanation
Indices: 99481--99550 Score: 68
Period size: 20 Copynumber: 3.3 Consensus size: 20
99471 CAAAAAGGGC
*
99481 AAAAAGAAAAAAGAAAAGAAGCA
1 AAAAAG-AAAAA-ACAAGAA-CA
99504 AAAAAGGAAAAAACAAGAACA
1 AAAAA-GAAAAAACAAGAACA
* * *
99525 AAAAAGAAAGAACAAAAATA
1 AAAAAGAAAAAACAAGAACA
99545 AAAAAG
1 AAAAAG
99551 GGAACAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 18 0.43
21 7 0.17
22 6 0.14
23 10 0.24
24 1 0.02
ACGTcount: A:0.79, C:0.06, G:0.14, T:0.01
Consensus pattern (20 bp):
AAAAAGAAAAAACAAGAACA
Found at i:100183 original size:22 final size:22
Alignment explanation
Indices: 100155--100209 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
100145 GCTATCCCAT
100155 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
100177 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATGC
100199 CAAACCTTTGA
1 CAAACCTTTGA
100210 CCAAACACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATGC
Found at i:100629 original size:18 final size:18
Alignment explanation
Indices: 100606--100641 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100596 TCAACATCAA
*
100606 ATATTGGGGCATTTTTGG
1 ATATTGGGGCATCTTTGG
100624 ATATTGGGGCATCTTTGG
1 ATATTGGGGCATCTTTGG
100642 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.08, G:0.33, T:0.42
Consensus pattern (18 bp):
ATATTGGGGCATCTTTGG
Found at i:101325 original size:73 final size:73
Alignment explanation
Indices: 101205--101482 Score: 396
Period size: 73 Copynumber: 3.8 Consensus size: 73
101195 ATTGAAAACA
* * *
101205 TTTCCCTTGAAATAAATTTTCATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTC
1 TTTCCCTTGAAACAAA-TTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTC
101270 TTGAGACAG
65 TTGAGACAG
* * *
101279 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA-TAAATTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
101343 TGAGACAG
66 TGAGACAG
* * ** * * *
101351 TTTCCCTTGAAACAAATTTCGTCCCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCT
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
101416 TGAGACAG
66 TGAGACAG
* *
101424 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTG
101483 AATTTATTTC
Statistics
Matches: 181, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
72 64 0.35
73 97 0.54
74 20 0.11
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (73 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCTCTCT
TGAGACAG
Found at i:101364 original size:109 final size:110
Alignment explanation
Indices: 101205--101482 Score: 407
Period size: 109 Copynumber: 2.5 Consensus size: 110
101195 ATTGAAAACA
* * * *
101205 TTTCCCTTGAAATAAATTTTCATCTCTCTTGAGATAGTTTCCCTTGAAACAAAATTTTGTCTCTC
1 TTTCCCTTGAAATAAATTTT-GTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCCCCC
101270 TTGAGACAGTTTCCCTT-GAAATAAATTTTGTCTCTCTTGAGACAG
65 TTGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGACAG
*
101315 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTCGTCCCCCT
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCCCCCT
** * *
101379 TGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
66 TGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGACAG
* * * *
101424 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTG
1 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAAT-TTTG
101483 AATTTATTTC
Statistics
Matches: 151, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
108 26 0.17
109 98 0.65
110 24 0.16
111 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.40
Consensus pattern (110 bp):
TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAATTTTGTCCCCCT
TGAGACAGTTTCCCTTGGAAATAAATTTTGTCTCTCTTGAGACAG
Found at i:101472 original size:36 final size:36
Alignment explanation
Indices: 101205--101475 Score: 380
Period size: 36 Copynumber: 7.4 Consensus size: 36
101195 ATTGAAAACA
* * *
101205 TTTCCCTTGAAATAAATTTTCATCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTT-GTCTCTCTTGAGACAG
101242 TTTCCCTTGAAACAAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
101279 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
101315 TTTCCCTTGAAATAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * *
101351 TTTCCCTTGAAACAAATTTCGTCCCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
** * *
101387 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
* * *
101424 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
101460 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
101476 ATCTTTGAAT
Statistics
Matches: 211, Mismatches: 21, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
36 136 0.64
37 68 0.32
38 7 0.03
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:101583 original size:67 final size:67
Alignment explanation
Indices: 101433--101605 Score: 217
Period size: 67 Copynumber: 2.6 Consensus size: 67
101423 GTTTCTCTTG
* ** * **
101433 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTG-AA-ACAAAATCTTTGAATTTATTTCCCC
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCC
101496 TA
66 TA
* *
101498 AAACAAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCC
101563 TA
66 TA
* * *
101565 AAACATAATTTT-TTTCCCTTGAGACCGTTTCTCATGAAACA
1 AAACA-AATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
101606 ACAGATATCT
Statistics
Matches: 93, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
65 31 0.33
66 2 0.02
67 54 0.58
68 6 0.06
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (67 bp):
AAACAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAAAATCTTCAAATTTATTTCCCC
TA
Found at i:101790 original size:29 final size:28
Alignment explanation
Indices: 101757--101824 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 28
101747 GAATGTGCAC
*
101757 ATCAGATTTAAACATTTGAAGAATTCAAG-
1 ATCAGATTCAAA-ATTTGAAG-ATTCAAGA
101786 ATCAGGGA-TCAAAATTTGAAGATTCAAGA
1 ATCA--GATTCAAAATTTGAAGATTCAAGA
101815 ATCAAGATTC
1 ATC-AGATTC
101825 CAGACAGGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 10
0.75 0.02 0.23
Matches are distributed among these distances:
28 9 0.27
29 17 0.52
30 5 0.15
31 2 0.06
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (28 bp):
ATCAGATTCAAAATTTGAAGATTCAAGA
Found at i:102369 original size:106 final size:105
Alignment explanation
Indices: 102210--102663 Score: 551
Period size: 106 Copynumber: 4.3 Consensus size: 105
102200 GCCATCCGCG
* * *
102210 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCGAGACAACACAAGTTCAACTTCACAACGAA
* *
102275 GGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
63 GGGACGGCTGATTGTCAAC-AACAATTTCTCAATTTCAGAGCCA
* *
102319 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * *
102384 ACCGCTGCTTGTCAACAACAATTTTTCAAATTTCAGAGCCA
66 ACGGCTGATTGTCAACAACAATTTCTC-AATTTCAGAGCCA
* *
102425 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAAAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * *
102490 ACGGCTGATTGTCAACAA-GATTT-T--GTTT-AGAGTCA
66 ACGGCTGATTGTCAACAACAATTTCTCAATTTCAGAGCCA
* * * * *
102525 ATTTCAACTTCACAACGAAGGATATTAGACTCGAAACAGCACAAGCTCAACTTCACAGCGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
* * * ** * *
102590 GCGGCTGACTGTCAACAAACAATTTCCCGGTTCCAGAACCA
66 ACGGCTGATTGTCAAC-AACAATTTCTCAATTTCAGAGCCA
*
102631 ATTTCAACTTCACAGC-AGAGGATATTGGACTCG
1 ATTTCAACTTCACAACGA-AGGATATTGGACTCG
102664 GAACAATATT
Statistics
Matches: 303, Mismatches: 34, Indels: 19
0.85 0.10 0.05
Matches are distributed among these distances:
100 78 0.26
101 5 0.02
102 4 0.01
104 1 0.00
105 17 0.06
106 173 0.57
107 3 0.01
109 22 0.07
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (105 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGATTGTCAACAACAATTTCTCAATTTCAGAGCCA
Found at i:102606 original size:206 final size:212
Alignment explanation
Indices: 102210--102663 Score: 570
Period size: 206 Copynumber: 2.2 Consensus size: 212
102200 GCCATCCGCG
* * *
102210 ATTTCAACTCCAC-GACGGAGGATATCGTGGCACTCGAGACAACACAAGTTCAACTTCACAACGA
1 ATTTCAACTTCACAG-CGAAGGATAT--TGG-ACTCGAGAAAACACAAGTTCAACTTCACAACGA
*
102274 AGGGACGGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
62 AGGGACGGCTGATTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAG
* * *
102339 GATATTGGACTCCAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGCTTGTCAAC-AAC
127 GATATTAGACTCCAAACAACACAAGCTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAAC
* * *
102403 AATTTTTCAAATTTCAGAGCCA
192 AA-TTTCCAAATTCCAGAACCA
102425 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAAAACACAAGTTCAACTTCACAACGAAGGG
1 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAAAACACAAGTTCAACTTCACAACGAAGGG
* ** *
102490 ACGGCTGATTGTCAAC-AA-GA-TT-T-TGTTT-AGAGTCAATTTCAACTTCACAACGAAGGATA
66 ACGGCTGATTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
* * * *
102549 TTAGACTCGAAACAGCACAAGCTCAACTTCAC-AGCGAAGGGGCGGCTGAC-TGTCAACAAACAA
131 TTAGACTCCAAACAACACAAGCTCAACTTCACGA-CGAAGGGACCGCTG-CTTGTCAACAAACAA
***
102612 TTTCCCGGTTCCAGAACCA
194 TTTCCAAATTCCAGAACCA
102631 ATTTCAACTTCACAGC-AGAGGATATTGGACTCG
1 ATTTCAACTTCACAGCGA-AGGATATTGGACTCG
102664 GAACAATATT
Statistics
Matches: 213, Mismatches: 21, Indels: 19
0.84 0.08 0.08
Matches are distributed among these distances:
205 2 0.01
206 120 0.56
207 9 0.04
208 1 0.00
209 2 0.01
210 1 0.00
211 2 0.01
212 51 0.24
213 3 0.01
215 21 0.10
216 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (212 bp):
ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGAAAACACAAGTTCAACTTCACAACGAAGGG
ACGGCTGATTGTCAACAAACAACTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATA
TTAGACTCCAAACAACACAAGCTCAACTTCACGACGAAGGGACCGCTGCTTGTCAACAAACAATT
TCCAAATTCCAGAACCA
Found at i:103181 original size:36 final size:36
Alignment explanation
Indices: 103125--103224 Score: 112
Period size: 37 Copynumber: 2.7 Consensus size: 36
103115 TTTGTCCTAA
103125 TAGGATTCAAACT-CTCAAAAATAGGATAGAATTCTGC
1 TAGGATTC-AACTCCT-AAAAATAGGATAGAATTCTGC
* *
103162 TAGGATTCAACTCCTAAAAATATGATAGAATTTTGC
1 TAGGATTCAACTCCTAAAAATAGGATAGAATTCTGC
** * *
103198 TATGTTTTAAACTCCTAAAGATAGGAT
1 TA-GGATTCAACTCCTAAAAATAGGAT
103225 CCACAAGCAC
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
36 25 0.46
37 29 0.54
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (36 bp):
TAGGATTCAACTCCTAAAAATAGGATAGAATTCTGC
Found at i:103540 original size:24 final size:23
Alignment explanation
Indices: 103497--103542 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
103487 CATATAATAT
*
103497 TTTTTTACATTTTATGTATTTTC
1 TTTTTTACATTTTATATATTTTC
103520 TTTTTTAC-TTTAGTATATATTTT
1 TTTTTTACATTT--TATATATTTT
103543 TATTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 8 0.40
24 9 0.45
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (23 bp):
TTTTTTACATTTTATATATTTTC
Found at i:103620 original size:43 final size:40
Alignment explanation
Indices: 103555--103678 Score: 134
Period size: 41 Copynumber: 3.1 Consensus size: 40
103545 TTTTTTTAGA
*
103555 TTATATATAAATATATTA--TTTTTATTATCAGTTTTATTAAT
1 TTATATATATATATATTACTTTTTTATTAT-A-TTTTATT-AT
103596 TTATATATATATATATTACTTTTTTATT-T-TTTTA-T-T
1 TTATATATATATATATTACTTTTTTATTATATTTTATTAT
*
103632 TTATATATATATTATTTTACTTTTTTATTATTATTTTATTTAT
1 TTATATATATA-TATATTACTTTTTTATTA-TATTTTA-TTAT
103675 TTAT
1 TTAT
103679 TTTATTTCTA
Statistics
Matches: 72, Mismatches: 2, Indels: 16
0.80 0.02 0.18
Matches are distributed among these distances:
36 12 0.17
37 16 0.22
38 1 0.01
39 6 0.08
40 5 0.07
41 17 0.24
42 2 0.03
43 13 0.18
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (40 bp):
TTATATATATATATATTACTTTTTTATTATATTTTATTAT
Found at i:103626 original size:8 final size:8
Alignment explanation
Indices: 103615--103735 Score: 59
Period size: 9 Copynumber: 13.9 Consensus size: 8
103605 TATATATTAC
103615 TTTTTTAT
1 TTTTTTAT
103623 TTTTTTAT
1 TTTTTTAT
103631 TTTATATATAT
1 TTT-T-T-TAT
*
103642 ATTATTTTAC
1 -TT-TTTTAT
103652 TTTTTTA-
1 TTTTTTAT
*
103659 -TTATTAT
1 TTTTTTAT
103666 TTTATTTAT
1 TTT-TTTAT
103675 TTATTTTAT
1 TT-TTTTAT
* *
103684 TTCTATAT
1 TTTTTTAT
103692 TTATTTT-T
1 TT-TTTTAT
*
103700 CTTTTCTTCT
1 -TTTT-TTAT
103710 TTTCTTTAT
1 TTT-TTTAT
103719 TTTTTATAT
1 TTTTT-TAT
103728 TTATTTTA
1 TT-TTTTA
103736 CTTACTATTT
Statistics
Matches: 89, Mismatches: 8, Indels: 31
0.70 0.06 0.24
Matches are distributed among these distances:
6 5 0.06
8 29 0.33
9 38 0.43
10 9 0.10
11 4 0.04
12 3 0.03
13 1 0.01
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (8 bp):
TTTTTTAT
Found at i:103635 original size:13 final size:13
Alignment explanation
Indices: 103617--103735 Score: 64
Period size: 13 Copynumber: 8.4 Consensus size: 13
103607 TATATTACTT
103617 TTTTATTTTTTTA
1 TTTTATTTTTTTA
*
103630 TTTTATATATATATTA
1 TTTTAT-T-T-TTTTA
*
103646 TTTTACTTTTTTA
1 TTTTATTTTTTTA
103659 TTATTATTTTATTTA
1 TT-TTATTTT-TTTA
103674 -TTTATTTTATTTCTA
1 TTTTA-TTT-TTT-TA
103689 TATTTATTTTTCTT-
1 T-TTTATTTTT-TTA
*
103703 TTCTTCTTTTCTTTA
1 TT-TTATTTT-TTTA
*
103718 TTTT-TTATATTTA
1 TTTTATT-TTTTTA
103731 TTTTA
1 TTTTA
103736 CTTACTATTT
Statistics
Matches: 84, Mismatches: 6, Indels: 31
0.69 0.05 0.26
Matches are distributed among these distances:
13 26 0.31
14 26 0.31
15 15 0.18
16 13 0.15
17 4 0.05
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.75
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:103639 original size:30 final size:30
Alignment explanation
Indices: 103596--103665 Score: 88
Period size: 29 Copynumber: 2.2 Consensus size: 30
103586 TTTTATTAAT
*
103596 TTATATATATATATATTACTTTTTTATTTTTTTA
1 TTAT-TATATATATATTA---TTTTACTTTTTTA
103630 TT-TTATATATATATTATTTTACTTTTTTA
1 TTATTATATATATATTATTTTACTTTTTTA
103659 TTATTAT
1 TTATTAT
103666 TTTATTTATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
29 14 0.41
30 4 0.12
32 13 0.38
33 1 0.03
34 2 0.06
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.69
Consensus pattern (30 bp):
TTATTATATATATATTATTTTACTTTTTTA
Found at i:103647 original size:24 final size:23
Alignment explanation
Indices: 103619--103699 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 23
103609 TATTACTTTT
103619 TTATTTTTTTATTTTATATATATA
1 TTATTTTTTTATTTTAT-TATATA
* *
103643 TTATTTTACTT-TTTTATTATTATT
1 TTATTTT-TTTATTTTATTA-TATA
* *
103667 TTATTTATTTATTTTATTTCTATA
1 TTATTTTTTTATTTTA-TTATATA
103691 TTTATTTTT
1 -TTATTTTT
103700 CTTTTCTTCT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
23 4 0.09
24 30 0.67
25 11 0.24
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (23 bp):
TTATTTTTTTATTTTATTATATA
Found at i:103672 original size:48 final size:49
Alignment explanation
Indices: 103609--103729 Score: 140
Period size: 48 Copynumber: 2.5 Consensus size: 49
103599 TATATATATA
103609 TATTACTTTTTTATTTTTTTATTTTATATATATA-TTATTTTACTTTT-T
1 TATTA-TTTTTTATTTTTTTATTTTATATATATATTTATTTTACTTTTCT
* * * *
103657 TATTATTATTTTATTTATTTATTTTATTTCTATATTTATTTTTCTTTTCT
1 TATTATT-TTTTATTTTTTTATTTTATATATATATTTATTTTACTTTTCT
* *
103707 TCTT-TTCTTTATTTTTTATATTT
1 TATTATTTTTTATTTTTT-TATTT
103730 ATTTTACTTA
Statistics
Matches: 62, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
47 2 0.03
48 37 0.60
49 19 0.31
50 4 0.06
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (49 bp):
TATTATTTTTTATTTTTTTATTTTATATATATATTTATTTTACTTTTCT
Found at i:103752 original size:36 final size:33
Alignment explanation
Indices: 103626--103757 Score: 92
Period size: 36 Copynumber: 3.8 Consensus size: 33
103616 TTTTTATTTT
*
103626 TTTATTTTATATATATATTATTTTACTTTTTTAT-
1 TTTATTTTAT-TATATTTTATTTTA-TTTTTTATA
*
103660 TATTATTTTATT-TA-TTTATTTTA-TTTCTATA
1 T-TTATTTTATTATATTTTATTTTATTTTTTATA
* * * *
103691 TTTATTTTTCTTTTCTTCTTTTCTTTATTTTTTATA
1 TTTA-TTTTATTATATT-TTAT-TTTATTTTTTATA
*
103727 TTTATTTTACTTACTATTTTATCTTTGTTTT
1 TTTATTTTA-TTA-TATTTTAT-TTTATTTT
103758 CTTTATCTTA
Statistics
Matches: 77, Mismatches: 11, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
30 9 0.12
31 7 0.09
32 9 0.12
33 3 0.04
34 5 0.06
35 17 0.22
36 24 0.31
37 3 0.04
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.73
Consensus pattern (33 bp):
TTTATTTTATTATATTTTATTTTATTTTTTATA
Found at i:103757 original size:23 final size:20
Alignment explanation
Indices: 103643--103797 Score: 63
Period size: 21 Copynumber: 7.6 Consensus size: 20
103633 TATATATATA
*
103643 TTAT-TTTACTTT-TTTATT
1 TTATCTTTATTTTCTTTATT
*
103661 ATTAT-TTTA-TTTATTTATT
1 -TTATCTTTATTTTCTTTATT
*
103680 TTAT-TTCTATATTTATTT-TT
1 TTATCTT-TAT-TTTCTTTATT
* *
103700 CTTTTC-TTCTTTTCTTTATTTT
1 -TTATCTTTATTTTCTTTA--TT
*
103722 TTATATTTATTTTACTTACTATT
1 TTATCTTTATTTT-CTT--TATT
* *
103745 TTATCTTTGTTTTCTTTATC
1 TTATCTTTATTTTCTTTATT
** *
103765 TTATCTTTTATTTAATTTGTT
1 TTATC-TTTATTTTCTTTATT
*
103786 TTCTCTTTATTT
1 TTATCTTTATTT
103798 AATTTAATTA
Statistics
Matches: 107, Mismatches: 15, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
18 9 0.08
19 22 0.21
20 19 0.18
21 28 0.26
22 11 0.10
23 16 0.15
25 2 0.02
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (20 bp):
TTATCTTTATTTTCTTTATT
Found at i:111584 original size:8 final size:8
Alignment explanation
Indices: 111571--111615 Score: 54
Period size: 8 Copynumber: 5.5 Consensus size: 8
111561 CAATAAGAGA
111571 TTTTAGAT
1 TTTTAGAT
*
111579 TTTTAGAGA
1 TTTTAGA-T
*
111588 TTTTAGTT
1 TTTTAGAT
*
111596 TTTTAGTT
1 TTTTAGAT
111604 TTTTAGAT
1 TTTTAGAT
111612 TTTT
1 TTTT
111616 TTATAATTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 26 0.81
9 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.13, T:0.67
Consensus pattern (8 bp):
TTTTAGAT
Found at i:111588 original size:17 final size:17
Alignment explanation
Indices: 111566--111615 Score: 66
Period size: 17 Copynumber: 3.0 Consensus size: 17
111556 GGTTGCAATA
111566 AGAGATTTTAGATTTTT
1 AGAGATTTTAGATTTTT
*
111583 AGAGATTTTAGTTTTTT
1 AGAGATTTTAGATTTTT
**
111600 AG-TTTTTTAGATTTTT
1 AGAGATTTTAGATTTTT
111616 TTATAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (17 bp):
AGAGATTTTAGATTTTT
Found at i:111700 original size:18 final size:18
Alignment explanation
Indices: 111675--111714 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111665 TTTTAGTTTT
*
111675 AAATTTTTTA-ATTAAAA
1 AAATATTTTATATTAAAA
*
111692 AAATATTTTATTTTAAAA
1 AAATATTTTATATTAAAA
111710 AAATA
1 AAATA
111715 AAAAATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AAATATTTTATATTAAAA
Found at i:114057 original size:18 final size:17
Alignment explanation
Indices: 114028--114064 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
114018 AAATATATAT
114028 TTAAATAATAAAAGCAA
1 TTAAATAATAAAAGCAA
*
114045 TTAAATAAATAAAAGTAA
1 TTAAAT-AATAAAAGCAA
114063 TT
1 TT
114065 TAAGTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (17 bp):
TTAAATAATAAAAGCAA
Found at i:115185 original size:625 final size:621
Alignment explanation
Indices: 113845--115070 Score: 1852
Period size: 625 Copynumber: 2.0 Consensus size: 621
113835 CAATGGCGTT
* * * *
113845 AATTTGACAACTGTCATTTCGATGTCAAAATAAAATTCCTTCTTCTCGGATAATAAATAAGGAAA
1 AATTAGACAACTATCGTTTCGATGTCAAAATAAAATT-CTTATTCTCGGA-AATAAATAAGGAAA
* * * * *
113910 TTCGTAGTGTAGAGAAGTATGGGTCGAATCCAGAGGGACTTAGAAAATTCTTAATTTATGTTTGA
64 TTCGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCTTAATTTATGTCTGA
* *
113975 CTGGTTTACTCCAGGCGTGAAAATAGTAAACGGGGAGTTTGGTAAATATATATTTAAATAATAAA
129 CTGGTTTACTCCAGGCGTGAAAATAGTAAACGGGGAGTTTAGTAAATAGATATTTAAATAATAAA
* *
114040 AGCAATTAAATAAATAAAAGTAATTTAAGTAAAAATAAGAGAATAAAGATTGTGAATAAATACGG
194 AGCAATTAAATAAATAAAAGCAATTTAAGTAAAAATAAGAGAATAAAGATTCTGAATAAATACGG
* *
114105 TAAAAGTAGCATCAAGCCTTGCTTTAACTTAATTCCCCTTTGATCATCGAATTAGATTTTCCCTC
259 TAAAAGTAACATCAAGCCTTGCTTTAACTCAATTCCCCTTTGATCATCGAATTAGATTTTCCCTC
* *
114170 CAGGATTCACGTCGGTTACTTTTTCTACAAGGGCAATCCCCGTGACTCTATCTTGTATACCAAAT
324 CAGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTATCTTG-ATACCAAAT
* * *
114235 ACCCAAGGCAATCTTTGATTCTGGCTTCGGAAATTGATTCTAACAACATCAATTTTCGTAGATCA
388 ACCCAAGGCAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACATCAATTGTCGTAGATCA
* * * *
114300 TTTACCGTTTAAATTCGTGGCGACCGACTCGGATTGTTGTTTCTATAACCGTCAATTCCGATCTC
453 ATTACCGTTTAAATTCGTGGCGACCGACTCAGATTGTTGTTTATATAACCGTCAATTCCGATCTA
* **
114365 ATATCCCTCTTGGCGAAGTTATCTTGCCAAGTGTGTTCCCAGGAAGTCGAATGTGCTTTCAATAA
518 AAATCCCTCTTGGCGAAGTTATCTCACCAAGTGTGTTCCCAGGAAGTCGAATGTGCTTTCAATAA
* *** * *
114430 GCCGAATCTTCCAATTTGACTATCTCCACGGCAACGACGTC
583 GCCAAATCTTCC-ATCCCACTATCTCAACGGCAACGAC-AC
*
114471 AATTTGACAACTATCGTTTCGATGTCAAAATAAAATTCCTTATTCTCGGATAATAAATAAGGAAA
1 AATTAGACAACTATCGTTTCGATGTCAAAATAAAATT-CTTATTCTCGGA-AATAAATAAGGAAA
114536 TTCGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGG-CTTAGAAAATTCTTAATTTATGTCTGA
64 TTCGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCTTAATTTATGTCTGA
* * * *
114600 TTGGTTTACTCGAGGCGT-AAAAGTAGTAAATGGGGGGTTTAGTAAATAGATATTTAAATAATAA
129 CTGGTTTACTCCAGGCGTGAAAA-TAGTAAACGGGGAGTTTAGTAAATAGATATTTAAATAATAA
**
114664 AAGTGATTAAATAAATAAAAGCAATTTAAGTAAAAATAAGAGAATAAAGATTCTGAATAAATACG
193 AAGCAATTAAATAAATAAAAGCAATTTAAGTAAAAATAAGAGAATAAAGATTCTGAATAAATACG
* * * *
114729 GTAAAAGTAACCTCAAGCCTTGCTTTGACTCAATTCCCCTTTGATCATTGAATTAGATTTTTCCT
258 GTAAAAGTAACATCAAGCCTTGCTTTAACTCAATTCCCCTTTGATCATCGAATTAGATTTTCCCT
* * *
114794 TCGGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTATCTTG-TACCGAAT
323 CCAGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTATCTTGATACCAAAT
*
114858 ACCCAAGGCAATCTTTGATTCCGGCTTCGAAAATTGATTCTAATAACATCAATTGTCGTAGATCA
388 ACCCAAGGCAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACATCAATTGTCGTAGATCA
*
114923 ATTACCGTTTAAATTTGTGGCGACCGACTCAGATTGTT-TCTTATATAACCGTCAATTCCGATCT
453 ATTACCGTTTAAATTCGTGGCGACCGACTCAGATTGTTGT-TTATATAACCGTCAATTCCGATCT
* *
114987 AAAATCCCTCTTGGCGAAGCTT-TCTCATCAAGTGTGTTCTCAGGAAGTCGAATGTGCTTTCAAT
517 AAAATCCCTCTTGGCGAAG-TTATCTCACCAAGTGTGTTCCCAGGAAGTCGAATGTGCTTTCAAT
*
115051 AAGTCAAATCTTCC-TCCCAC
581 AAGCCAAATCTTCCATCCCAC
115071 ATGTTTAATC
Statistics
Matches: 549, Mismatches: 48, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
621 3 0.01
622 1 0.00
623 193 0.35
624 6 0.01
625 251 0.46
626 95 0.17
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (621 bp):
AATTAGACAACTATCGTTTCGATGTCAAAATAAAATTCTTATTCTCGGAAATAAATAAGGAAATT
CGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCTTAATTTATGTCTGACT
GGTTTACTCCAGGCGTGAAAATAGTAAACGGGGAGTTTAGTAAATAGATATTTAAATAATAAAAG
CAATTAAATAAATAAAAGCAATTTAAGTAAAAATAAGAGAATAAAGATTCTGAATAAATACGGTA
AAAGTAACATCAAGCCTTGCTTTAACTCAATTCCCCTTTGATCATCGAATTAGATTTTCCCTCCA
GGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTATCTTGATACCAAATACC
CAAGGCAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACATCAATTGTCGTAGATCAATT
ACCGTTTAAATTCGTGGCGACCGACTCAGATTGTTGTTTATATAACCGTCAATTCCGATCTAAAA
TCCCTCTTGGCGAAGTTATCTCACCAAGTGTGTTCCCAGGAAGTCGAATGTGCTTTCAATAAGCC
AAATCTTCCATCCCACTATCTCAACGGCAACGACAC
Found at i:115722 original size:3 final size:3
Alignment explanation
Indices: 115714--115808 Score: 181
Period size: 3 Copynumber: 31.3 Consensus size: 3
115704 AAGCAAGAAC
115714 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT AAT
115760 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
115808 A
1 A
115809 TAAGAACCGT
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
3 88 0.97
4 3 0.03
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:126780 original size:17 final size:17
Alignment explanation
Indices: 126758--126792 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
126748 TTGCAATAAC
126758 AGATTTTAGATTTTTAG
1 AGATTTTAGATTTTTAG
*
126775 AGATTTTAGTTTTTTAG
1 AGATTTTAGATTTTTAG
126792 A
1 A
126793 TTTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.17, T:0.54
Consensus pattern (17 bp):
AGATTTTAGATTTTTAG
Found at i:129257 original size:18 final size:18
Alignment explanation
Indices: 129207--129257 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
129197 GTAAATATAT
*
129207 ATTTAAATAATAAAAGCA
1 ATTTAAATAAAAAAAGCA
*
129225 A-TTAAATAAATAAAAGTA
1 ATTTAAATAAA-AAAAGCA
*
129243 ATTTAAGTAAAAAAA
1 ATTTAAATAAAAAAA
129258 AAGAGAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 8 0.29
18 12 0.43
19 8 0.29
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
ATTTAAATAAAAAAAGCA
Found at i:130215 original size:623 final size:626
Alignment explanation
Indices: 129012--130246 Score: 2014
Period size: 623 Copynumber: 2.0 Consensus size: 626
129002 GGCGAAGTCT
* * * *
129012 CCGGCAACGGCGTCAATTTGACAACTGTCATTTCGATGTCAAAATAAAATTCCTTCTTCTTGGAT
1 CCGGCAACGACGTCAATTTGACAACTATCATTTCGATGTCAAAATAAAATTCCTTATTCTCGGAT
*
129077 AATAAATAAGGAAATTCGTAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCT
66 AATAAATAAGGAAATTCGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCT
* * *
129142 TAATTTATGTCTGATTGGTTTACTCCAGGCGTGAAAATAGTAAACGGGGAGTTTGGTAAATATAT
131 TAATTTATGTCTGATTGGTTTACTCCAGGCGTAAAAATAGTAAACGGGGAGTTCGGTAAATAGAT
129207 ATTTAAATAATAAAAGCAATTAAATAAATAAAAGTAATTTAAGTAAAAAAAAAGAGAATAAAGAT
196 ATTTAAATAATAAAAGCAATTAAATAAATAAAAGTAATTTAAGTAAAAAAAAAGAGAATAAAGAT
* * *
129272 TGTGAATAAATACGGTAAAAGTAGCCTCAAGCCTTGCTTTAACTTAATTCCCCTTTGATCATCGA
261 TCTGAATAAATACGGTAAAAGTAACCTCAAGCCTTGCTTTAACTCAATTCCCCTTTGATCATCGA
*
129337 ATTAGATTTTCCCTCCAGGATTCACGTCGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTA
326 ATTAGATTTTCCCTCCAGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTA
*
129402 TCTTGTATACCGAATACCCAAGACAATCTTTGATTCTGGCTTCGAAAATTGATTCTAACAACATC
391 TCTTG-ATACCGAATACCCAAGACAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACATC
* * ** * *
129467 AATTTTCGTAGATCATTTATTGTTTAAATTCGTGGCGACCAACTCGGATTTTTGCTTCTATAACC
455 AATTGTCGTAGATCAATTACCGTTTAAATTCGTGGCGACCAACTCAGATTTTTGCTTATATAACC
* * * **
129532 GTCAATTCCGATCTCATATCCCTCTTGGCGAAGTTATCTTGCCAAGTGTGTTCCCAGGAAGTCGA
520 GTCAATTCCGATCTAAAATCCCTCTTGGCGAAGCTATCTCACCAAGTGTGTTCCCAGGAAGTCGA
129597 ATGTGCTTTCAATAAGCCGAATCTTCCAATTTGACTATCTCC
585 ATGTGCTTTCAATAAGCCGAATCTTCCAATTTGACTATCTCC
* * *
129639 CCGGCAATGACGTCAATTTGACAACTATCGTTTCGATGTCAAAATAAAATTTCTTATTCTCGGAT
1 CCGGCAACGACGTCAATTTGACAACTATCATTTCGATGTCAAAATAAAATTCCTTATTCTCGGAT
*
129704 AATAAATAAGGAAATTCGCAGTATAGAGAAGTAAGGGTCGAATTCACAGGG-CTTAGAAAATTCT
66 AATAAATAAGGAAATTCGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCT
* *
129768 TAATTTATGTCTGATTGGTTTACTCGAGGCGTAAAAATAGTAAATTGGGG-GTTCGGTAAATAGA
131 TAATTTATGTCTGATTGGTTTACTCCAGGCGTAAAAATAGTAAA-CGGGGAGTTCGGTAAATAGA
** *
129832 TATTTAAATAATAAAAGTGATTAAATAAATAAAA-TCAATTTAAGT-AAAAATAAGAGAATAAAG
195 TATTTAAATAATAAAAGCAATTAAATAAATAAAAGT-AATTTAAGTAAAAAAAAAGAGAATAAAG
*
129895 ATTCTGAATAAATACGGTAAAAGTAACCTCAAGCCTTGCTTTGACTCAATTCCCCTTTGATCATC
259 ATTCTGAATAAATACGGTAAAAGTAACCTCAAGCCTTGCTTTAACTCAATTCCCCTTTGATCATC
* *
129960 GAATTAGATTTTCCCTTCGGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTC
324 GAATTAGATTTTCCCTCCAGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTC
*
130025 TATCTTG-TACCGAATACCCAAGGCAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACAT
389 TATCTTGATACCGAATACCCAAGACAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACAT
* *
130089 CAATTGTCGTAGATCAATTACCGTTTAAATTTGTGGCGACCGACTCAGATTGTTT-CTTATATAA
454 CAATTGTCGTAGATCAATTACCGTTTAAATTCGTGGCGACCAACTCAGATT-TTTGCTTATATAA
* *
130153 CCGTCAATTCCGATCTAAAATCTCTCTTGGCGAAGCTATCTCATCAAGTGTGTTCCCAGGAAGTC
518 CCGTCAATTCCGATCTAAAATCCCTCTTGGCGAAGCTATCTCACCAAGTGTGTTCCCAGGAAGTC
*
130218 GAATGTGTTTTCAATAAGCCGAATCTTCC
583 GAATGTGCTTTCAATAAGCCGAATCTTCC
130247 TCCCACGTGT
Statistics
Matches: 563, Mismatches: 42, Indels: 10
0.92 0.07 0.02
Matches are distributed among these distances:
623 193 0.34
624 3 0.01
625 148 0.26
626 108 0.19
627 111 0.20
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (626 bp):
CCGGCAACGACGTCAATTTGACAACTATCATTTCGATGTCAAAATAAAATTCCTTATTCTCGGAT
AATAAATAAGGAAATTCGCAGTATAGAGAAGTAAGGGTCGAATCCACAGGGACTTAGAAAATTCT
TAATTTATGTCTGATTGGTTTACTCCAGGCGTAAAAATAGTAAACGGGGAGTTCGGTAAATAGAT
ATTTAAATAATAAAAGCAATTAAATAAATAAAAGTAATTTAAGTAAAAAAAAAGAGAATAAAGAT
TCTGAATAAATACGGTAAAAGTAACCTCAAGCCTTGCTTTAACTCAATTCCCCTTTGATCATCGA
ATTAGATTTTCCCTCCAGGATTCACGTAGGTTACTTTGTCTACAAGGGCAATCCCCGTGACTCTA
TCTTGATACCGAATACCCAAGACAATCTTTGATTCCGGCTTCGAAAATTGATTCTAACAACATCA
ATTGTCGTAGATCAATTACCGTTTAAATTCGTGGCGACCAACTCAGATTTTTGCTTATATAACCG
TCAATTCCGATCTAAAATCCCTCTTGGCGAAGCTATCTCACCAAGTGTGTTCCCAGGAAGTCGAA
TGTGCTTTCAATAAGCCGAATCTTCCAATTTGACTATCTCC
Found at i:130970 original size:3 final size:3
Alignment explanation
Indices: 130962--131028 Score: 134
Period size: 3 Copynumber: 22.3 Consensus size: 3
130952 AAGCAAGAAC
130962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
131010 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
131029 TAAGAACCGT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 64 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:136460 original size:21 final size:20
Alignment explanation
Indices: 136374--136531 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
136364 AAATGACCAA
**
136374 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
136393 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
136413 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
136433 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
136454 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
136475 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
136495 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
136516 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
136532 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:136522 original size:20 final size:20
Alignment explanation
Indices: 136498--136691 Score: 192
Period size: 20 Copynumber: 9.7 Consensus size: 20
136488 CGATTTTCCA
** *
136498 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
136518 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
* *
136538 AAATCGCAACACGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
136558 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* **
136578 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGAATCCGT
* *
136598 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* * *
136618 ATATCGCAACGCGTATCTGT
1 AAATCGCAACGCGAATCCGT
**
136638 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
136658 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
136678 AAATCGCAACGCGA
1 AAATCGCAACGCGA
136692 TATTTAAAGC
Statistics
Matches: 146, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
20 145 0.99
21 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Found at i:137112 original size:33 final size:33
Alignment explanation
Indices: 137073--137143 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
137063 TTCACTTAGA
*
137073 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
137106 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
137139 TTTCA
1 TTTCA
137144 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:137280 original size:41 final size:38
Alignment explanation
Indices: 137222--137334 Score: 146
Period size: 41 Copynumber: 3.0 Consensus size: 38
137212 TTGCAGAAGA
*
137222 GTCGCAACGAGATAAATGAAAATCGCAACGAGAGAATGAC
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAAT--C
137262 TGTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATC
1 -GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATC
*
137301 GT---AAC--GCGAAATGAAAATCGCAACGAGAGAATC
1 GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATC
137334 G
1 G
137335 CAACGCGAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 8
0.88 0.03 0.10
Matches are distributed among these distances:
33 28 0.40
35 3 0.04
38 2 0.03
39 1 0.01
41 36 0.51
ACGTcount: A:0.44, C:0.18, G:0.26, T:0.12
Consensus pattern (38 bp):
GTCGCAACGAGAGAAATGAAAATCGCAACGAGAGAATC
Found at i:137296 original size:21 final size:21
Alignment explanation
Indices: 137223--137298 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
137213 TGCAGAAGAG
*
137223 TCGCAACGAGATAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
***
137244 TCGCAACGAGAG-AATGACTG
1 TCGCAACGAGAGAAATGAAAA
137264 TCGCAACGAGAGAAATGAAAA
1 TCGCAACGAGAGAAATGAAAA
137285 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
137299 TCGTAACGCG
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 17 0.36
21 30 0.64
ACGTcount: A:0.46, C:0.17, G:0.25, T:0.12
Consensus pattern (21 bp):
TCGCAACGAGAGAAATGAAAA
Found at i:137317 original size:33 final size:33
Alignment explanation
Indices: 137275--137355 Score: 135
Period size: 33 Copynumber: 2.5 Consensus size: 33
137265 CGCAACGAGA
*
137275 GAAATGAAAATCGCAACGAGAGAATCGTAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
137308 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
137341 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
137356 TTGCGATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.47, C:0.21, G:0.22, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:137335 original size:14 final size:14
Alignment explanation
Indices: 137283--137339 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
137273 GAGAAATGAA
137283 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
137297 AATCGTAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
137316 AATCGCAACGAGAG
1 AATCGCAACGAGAG
137330 AATCGCAACG
1 AATCGCAACG
137340 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.44, C:0.21, G:0.25, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:137373 original size:19 final size:19
Alignment explanation
Indices: 137351--137448 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 19
137341 GAAACCAAAA
*
137351 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
137370 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
137384 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
137403 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
137417 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
137436 TCGCGTTGCGATT
1 TCGCGTTGCGATT
137449 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:137392 original size:14 final size:14
Alignment explanation
Indices: 137373--137462 Score: 72
Period size: 14 Copynumber: 5.7 Consensus size: 14
137363 TTTCATTTCG
137373 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
137387 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
137406 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
137420 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
137439 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
137453 CGTTGCGATT
1 CGTTGCGATT
137463 TTCATTTCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
14 30 0.48
15 1 0.02
16 5 0.08
17 5 0.08
18 1 0.02
19 20 0.32
ACGTcount: A:0.09, C:0.24, G:0.23, T:0.43
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:137398 original size:33 final size:33
Alignment explanation
Indices: 137356--137470 Score: 221
Period size: 33 Copynumber: 3.5 Consensus size: 33
137346 CAAAATCGCA
137356 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
137389 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
137422 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
137455 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
137471 AACCAAAAGA
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 80 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:139327 original size:93 final size:93
Alignment explanation
Indices: 139168--139822 Score: 1276
Period size: 93 Copynumber: 7.1 Consensus size: 93
139158 TAGATTGCTT
*
139168 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
139233 TTTGTCTTTGTTTTGTCATTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139261 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139326 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
139354 AGTAAATTTGTTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139419 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139447 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139512 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139540 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139605 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139633 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139698 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139726 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
139791 TTTGTCTTTGTTTTGTCTTTTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
139818 AGTAA
1 AGTAA
139823 TGCAATTTTG
Statistics
Matches: 558, Mismatches: 4, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.01
93 552 0.99
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:139858 original size:19 final size:19
Alignment explanation
Indices: 139834--139895 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
139824 GCAATTTTGG
*
139834 TGCGATTTTCATTTCTTGT
1 TGCGATTTTCATTTCGTGT
*
139853 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGTGT
**
139872 TGCGATTTTGGTTTCGTGT
1 TGCGATTTTCATTTCGTGT
139891 TGCGA
1 TGCGA
139896 AAGTAAACTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.10, C:0.16, G:0.24, T:0.50
Consensus pattern (19 bp):
TGCGATTTTCATTTCGTGT
Found at i:140327 original size:21 final size:21
Alignment explanation
Indices: 140303--140343 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
140293 GTCATCCCTC
* *
140303 AAGAGTCCACTCCTATCATTG
1 AAGAGGCCACCCCTATCATTG
*
140324 AAGAGGCCCCCCCTATCATT
1 AAGAGGCCACCCCTATCATT
140344 CCTCGAGAGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (21 bp):
AAGAGGCCACCCCTATCATTG
Found at i:141840 original size:14 final size:14
Alignment explanation
Indices: 141821--141856 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
141811 ATTGTTTAAT
141821 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
141835 TGATTTGTATAAGT
1 TGATTTGTAAAAGA
141849 TGATTTGT
1 TGATTTGT
141857 GTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:141979 original size:19 final size:19
Alignment explanation
Indices: 141963--142060 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
141953 AAAAATGACT
141963 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
141982 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
142001 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
142015 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
142034 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
142054 ATCGCAA
1 ATCGCAA
142061 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:142092 original size:53 final size:53
Alignment explanation
Indices: 141963--142078 Score: 225
Period size: 53 Copynumber: 2.2 Consensus size: 53
141953 AAAAATGACT
141963 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
142015 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
142068 ATCGCAATGCG
1 ATCGCAATGCG
142079 TTTATAATTT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.46
53 34 0.54
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:142112 original size:14 final size:16
Alignment explanation
Indices: 142092--142217 Score: 66
Period size: 19 Copynumber: 7.6 Consensus size: 16
142082 ATAATTTCGC
142092 ATTGCGATTC-TCTCG
1 ATTGCGATTCATCTCG
*
142107 -TTGCGATTTCATTTCG
1 ATTGCGA-TTCATCTCG
*
142123 CATTGCGATTTTCATTTCG
1 -ATTGCGA--TTCATCTCG
142142 CATTGCGATTC-TCTCG
1 -ATTGCGATTCATCTCG
* *
142158 -TTGCGATTTTAATTTCG
1 ATTGCGA--TTCATCTCG
*
142175 CATTGCGATTTTCATTTCG
1 -ATTGCGA--TTCATCTCG
142194 CATTGCGATTC-TCTCG
1 -ATTGCGATTCATCTCG
142210 -TTGCGATT
1 ATTGCGATT
142218 TTCATTTCCG
Statistics
Matches: 95, Mismatches: 6, Indels: 21
0.78 0.05 0.17
Matches are distributed among these distances:
14 20 0.21
15 3 0.03
16 14 0.15
17 10 0.11
18 6 0.06
19 42 0.44
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.45
Consensus pattern (16 bp):
ATTGCGATTCATCTCG
Found at i:142137 original size:19 final size:19
Alignment explanation
Indices: 142107--142270 Score: 162
Period size: 19 Copynumber: 9.4 Consensus size: 19
142097 GATTCTCTCG
142107 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
142125 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
142144 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
*
142158 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
142177 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
142196 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
142210 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
142230 TTACGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
*
142244 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
142263 TTGCGATT
1 TTGCGATT
142271 CTCTCGTTGC
Statistics
Matches: 119, Mismatches: 10, Indels: 33
0.73 0.06 0.20
Matches are distributed among these distances:
14 22 0.18
16 15 0.13
17 13 0.11
18 9 0.08
19 49 0.41
20 11 0.09
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:142195 original size:52 final size:52
Alignment explanation
Indices: 142085--142242 Score: 282
Period size: 52 Copynumber: 3.0 Consensus size: 52
142075 TGCGTTTATA
142085 ATTTCGCATTGCGATTCTCTCGTTGCGA-TTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
142136 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTAATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
142188 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTACGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
142241 AT
1 AT
142243 GTTGGGATTT
Statistics
Matches: 102, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
51 28 0.27
52 58 0.57
53 16 0.16
ACGTcount: A:0.15, C:0.23, G:0.16, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:142292 original size:33 final size:33
Alignment explanation
Indices: 142085--142284 Score: 192
Period size: 33 Copynumber: 5.9 Consensus size: 33
142075 TGCGTTTATA
142085 ATTTCGCATTGCGATTCTCTCGTTGCGA-TTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
*
142117 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TC
* * *** * *
142157 GTTGCG-ATTTTAATT-TCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
142188 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
* * *
142221 ATTTCCGCATTACGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTCTC-TCGTTGCGATTTTC
142255 ATTTCGCATTGCGATTCTCTCGTTGCGATT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATT
142285 GTAATTTCCG
Statistics
Matches: 133, Mismatches: 22, Indels: 25
0.74 0.12 0.14
Matches are distributed among these distances:
31 6 0.05
32 22 0.17
33 47 0.35
34 31 0.23
35 7 0.05
37 8 0.06
38 1 0.01
39 5 0.04
40 6 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
Found at i:144584 original size:12 final size:12
Alignment explanation
Indices: 144567--144591 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
144557 TCTTCGGGGA
144567 CTTTTTCTTCTT
1 CTTTTTCTTCTT
144579 CTTTTTCTTCTT
1 CTTTTTCTTCTT
144591 C
1 C
144592 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:144800 original size:24 final size:24
Alignment explanation
Indices: 144766--144812 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
144756 CTGAAACATC
144766 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
144790 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
144813 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:145523 original size:20 final size:20
Alignment explanation
Indices: 145495--145724 Score: 237
Period size: 20 Copynumber: 11.5 Consensus size: 20
145485 AAATTTCAGT
* * *
145495 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
145515 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
145535 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
145555 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
145575 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
145595 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* ** *
145615 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATTCGC
* *
145635 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
145655 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
145675 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
145695 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
145715 GTTGCGATTT
1 GTTGCGATTT
145725 TGGAAAATCG
Statistics
Matches: 182, Mismatches: 26, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
20 181 0.99
21 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:145741 original size:21 final size:21
Alignment explanation
Indices: 145711--145793 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
145701 ATTTTCATAT
*
145711 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
145732 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
145753 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
145774 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
145794 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Done.