Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 243 of 290
Found at i:83890478 original size:42 final size:43
Alignment explanation
Indices: 83890403--83890510 Score: 114
Period size: 43 Copynumber: 2.5 Consensus size: 43
83890393 GCCAACGTTT
* * * *
83890403 AGACATGGTCTTACATGTAATCAAATATTGATGCC-ACTGTCCC
1 AGACAAGGTCTTACACGAAATCAAATATCGATGCCGA-TGTCCC
*
83890446 AGACAAGGTCTTACACGAAATCATATA-CGATGCCGATGTCCC
1 AGACAAGGTCTTACACGAAATCAAATATCGATGCCGATGTCCC
*
83890488 AGA-AATGGTCTTATACGTAAATC
1 AGACAA-GGTCTTACACG-AAATC
83890511 TCAAGTCAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
41 2 0.04
42 25 0.45
43 29 0.52
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (43 bp):
AGACAAGGTCTTACACGAAATCAAATATCGATGCCGATGTCCC
Found at i:83901013 original size:42 final size:44
Alignment explanation
Indices: 83900923--83901025 Score: 124
Period size: 42 Copynumber: 2.4 Consensus size: 44
83900913 GTCTTAGACG
* *
83900923 TGGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAA
1 TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
* *
83900967 -GGTCTTACACGAAATCATATA-CGATGCCGA-TGTCGCAGA-AA
1 TGGTCTTACACGAAATCAAATATCGATGCC-ACTGTCCCAGACAA
83901008 TGGTCTTACACGTAAATC
1 TGGTCTTACACG-AAATC
83901026 TCAAGTCAAT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
41 2 0.04
42 26 0.50
43 24 0.46
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.26
Consensus pattern (44 bp):
TGGTCTTACACGAAATCAAATATCGATGCCACTGTCCCAGACAA
Found at i:83902455 original size:42 final size:42
Alignment explanation
Indices: 83902343--83902497 Score: 168
Period size: 42 Copynumber: 3.7 Consensus size: 42
83902333 TGCCATACCA
* * * *
83902343 ACGCCATATCCCAAATATGTTCTTACATGTAATCTCATATCG
1 ACGCCATATCCCAAATATGGTCTTACACGAAATCTCATATTG
* * ** *
83902385 ATGCCAATACCCCAGCTATGGTTTTACACGAAATCTCATATTG
1 ACGCC-ATATCCCAAATATGGTCTTACACGAAATCTCATATTG
*
83902428 ACGCCATATCCTAAATATGGTCTTACACGAAATCTCATA-TG
1 ACGCCATATCCCAAATATGGTCTTACACGAAATCTCATATTG
* * * *
83902469 ATGCCATATCCTAGACATGGTCTTACACG
1 ACGCCATATCCCAAATATGGTCTTACACG
83902498 TAGTCTTAGT
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
41 28 0.30
42 33 0.35
43 33 0.35
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (42 bp):
ACGCCATATCCCAAATATGGTCTTACACGAAATCTCATATTG
Found at i:83906533 original size:27 final size:27
Alignment explanation
Indices: 83906493--83906605 Score: 149
Period size: 27 Copynumber: 4.2 Consensus size: 27
83906483 AGCATGGCTG
* *
83906493 CCAGA-ACAGATATTGTGACAGAGTCA
1 CCAGATACAGATATTGTGGCAGAGCCA
*
83906519 CCAGATACAGATATTATGGCAGAGCCA
1 CCAGATACAGATATTGTGGCAGAGCCA
* *
83906546 CCAGAAACAAATATTTGTGGCAGAGCCA
1 CCAGATACAGATA-TTGTGGCAGAGCCA
83906574 CCAGAT-CAGATATTCGTGGCAGAGCCA
1 CCAGATACAGATATT-GTGGCAGAGCCA
83906601 CCAGA
1 CCAGA
83906606 ACACTTCCTC
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.09
27 51 0.67
28 18 0.24
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CCAGATACAGATATTGTGGCAGAGCCA
Found at i:83906576 original size:55 final size:54
Alignment explanation
Indices: 83906493--83906606 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 54
83906483 AGCATGGCTG
* *
83906493 CCAG-AACAGATATTGTGACAGAGTCACCAGATACAGATATT-ATGGCAGAGCCA
1 CCAGAAACAAATATTGTGACAGAGCCACCAGAT-CAGATATTCATGGCAGAGCCA
* *
83906546 CCAGAAACAAATATTTGTGGCAGAGCCACCAGATCAGATATTCGTGGCAGAGCCA
1 CCAGAAACAAATA-TTGTGACAGAGCCACCAGATCAGATATTCATGGCAGAGCCA
83906601 CCAGAA
1 CCAGAA
83906607 CACTTCCTCC
Statistics
Matches: 54, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
53 4 0.07
54 15 0.28
55 35 0.65
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAAACAAATATTGTGACAGAGCCACCAGATCAGATATTCATGGCAGAGCCA
Found at i:83909032 original size:48 final size:46
Alignment explanation
Indices: 83908952--83909093 Score: 144
Period size: 48 Copynumber: 3.0 Consensus size: 46
83908942 ATGTCTCATA
* * * *
83908952 TCGATGCCAATGCCATATCCTAGATATGGTCTTACGTGGGATCACATG
1 TCGATGCCAATGCCATGTCCCAGACAT-GTCTTACATGGGATCACA-G
**
83909000 TCGATGCCAATGCCATGTCCCATG-CATCGTCTTGTATGGGATCTCACAG
1 TCGATGCCAATGCCATGTCCCA-GACAT-GTCTTACATGGGA--TCACAG
*
83909049 -CGCTGCCAATGCCATGTCCCAGACATGCTCTTACATGGGATCACA
1 TCGATGCCAATGCCATGTCCCAGACATG-TCTTACATGGGATCACA
83909094 CATAACCCTA
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
46 5 0.06
47 2 0.03
48 65 0.82
49 2 0.03
50 5 0.06
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.27
Consensus pattern (46 bp):
TCGATGCCAATGCCATGTCCCAGACATGTCTTACATGGGATCACAG
Found at i:83913377 original size:46 final size:45
Alignment explanation
Indices: 83913240--83913396 Score: 129
Period size: 46 Copynumber: 3.4 Consensus size: 45
83913230 TCATTTGTGT
* * * * *
83913240 GAGCTAGTGTAAGAAATGTCTGGAACATGCATCGGCCAC-ATTATGA
1 GAGCTAGTGTAAGACATGTCTGG-ACATGCATCAGCCTCGA-GACGA
* * * *
83913286 GAGCTAGTGTAAGACCATGTTTGGGATATGGCATCAGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCT-GGACAT-GCATCAGCCTCGAGACGA
*
83913334 GTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGAC-A
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCAGCCTCGAGACGA
* *
83913379 GAAGCCAGTGCAAGACAT
1 G-AGCTAGTGTAAGACAT
83913397 ATTTGGGATA
Statistics
Matches: 88, Mismatches: 18, Indels: 10
0.76 0.16 0.09
Matches are distributed among these distances:
45 2 0.02
46 41 0.47
47 19 0.22
48 25 0.28
49 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.22
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCAGCCTCGAGACGA
Found at i:83913410 original size:46 final size:46
Alignment explanation
Indices: 83913284--83913412 Score: 134
Period size: 46 Copynumber: 2.8 Consensus size: 46
83913274 GCCACATTAT
* *
83913284 GAGAGCTAGTGTAAGACCATGTTTGGGATATGGCATCAGCATTGAGAC
1 GAGAGCCAGTGTAAGA-CATGTTTGGGATAT-GCATCAGCATCGAGAC
* * * * * *
83913332 GAGTGCTAGTGTAAGACATGTCTAGGACATGCATCAGCCTCGAGAC
1 GAGAGCCAGTGTAAGACATGTTTGGGATATGCATCAGCATCGAGAC
* *
83913378 -AGAAGCCAGTGCAAGACATATTTGGGATATGCATC
1 GAG-AGCCAGTGTAAGACATGTTTGGGATATGCATC
83913413 GACTATGAGA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
45 2 0.03
46 39 0.58
47 11 0.16
48 15 0.22
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (46 bp):
GAGAGCCAGTGTAAGACATGTTTGGGATATGCATCAGCATCGAGAC
Found at i:83918326 original size:48 final size:46
Alignment explanation
Indices: 83918265--83918588 Score: 287
Period size: 48 Copynumber: 6.8 Consensus size: 46
83918255 CACATTATGA
* *
83918265 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGA-GT
*
83918313 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGAGA-GT
* **
83918361 GAGCTAGTGTAAGACCATGTTTGGGACATGGCATTAGCTATGAGA-T
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCT-TGAGAGT
* * * * *
83918407 GTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGGATATGT
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGA-GT
* * * * * *
83918455 GAGAGCCAGCGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTGCGAT
1 --GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTTGA--GAG-T
*
83918507 -AGAC-AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGTA-T
1 GAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-G-AGT
* * *
83918553 TAGCTAGTGTAAGACTATGTCTGGGGCATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
83918589 ACATCCTACC
Statistics
Matches: 229, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
46 40 0.17
47 36 0.16
48 85 0.37
49 31 0.14
50 34 0.15
51 2 0.01
52 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (46 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGAGT
Found at i:83918375 original size:96 final size:96
Alignment explanation
Indices: 83918221--83918588 Score: 337
Period size: 96 Copynumber: 3.9 Consensus size: 96
83918211 TGACATGTGT
** * * *
83918221 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACCAC-ATTATGAGAGCCAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGTGAGCCAGTGTAAGACCAT
*
83918283 GTCTGGGACATGGCATCGGCATTGAGACGGGA
66 GTCTGGGACATGGCATCGGC-TTGAGACGAGA
*
83918315 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-GATGTGAGCTAGTGTAAGACCAT
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGTGAGCCAGTGTAAGACCAT
* ** * *
83918379 GTTTGGGACATGGCATTAGCTATGAGA--TGT
66 GTCTGGGACATGGCATCGGCT-TGAGACGAGA
* * * * *
83918409 GTTAGTGTAAGACCATGTTTGGGACATGGCATCGGCATGGAT-ATGTGAGAGCCAGCGTAAGACC
1 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGT--GAGCCAGTGTAAGACC
* * * *
83918473 ATGTCTAGGACATGGCGTCGGCCTCGATTG-CGATA
64 ATGTCTGGGACATGGCATCGG-CTTGA--GACGAGA
* * * *
83918508 GAC-AGTGTAAGACCATGTCTGGGACATGGCATC-GACTTGATGTAT-T-AGCTAGTGTAAGACT
1 G-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATG-ATGTGAGCCAGTGTAAGACC
*
83918569 ATGTCTGGGGCATGGCATCG
64 ATGTCTGGGACATGGCATCG
83918589 ACATCCTACC
Statistics
Matches: 222, Mismatches: 37, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
94 54 0.24
95 15 0.07
96 111 0.50
97 3 0.01
98 6 0.03
99 31 0.14
100 2 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (96 bp):
GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGTGAGCCAGTGTAAGACCAT
GTCTGGGACATGGCATCGGCTTGAGACGAGA
Found at i:83918431 original size:46 final size:46
Alignment explanation
Indices: 83918218--83918588 Score: 258
Period size: 48 Copynumber: 7.8 Consensus size: 46
83918208 GGGTGACATG
** * *
83918218 TGTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCAACCACATTATGA
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGC-TATGA-GA
* *
83918265 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGA
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTA-TGAGA
* * *
83918310 CGGGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGA
1 --TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CTATGAGA
* **
83918358 TGTGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTAGCTATGAGA
1 TGT--GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGA
* * *
83918406 TGTGTTAGTGTAAGACCATGTTTGGGACATGGCATCGGC-ATGGATA
1 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTAT-GAGA
* * * * *
83918452 TGTGAGAGCCAGCGTAAGACCATGTCTAGGACATGGCGTCGGCCTCGATTGCGA
1 TGT----GCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CT--A-TGAGA
* *
83918506 TAG-AC-AGTGTAAGACCATGTCTGGGACATGGCATCGACT-TGATGTA
1 T-GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGA-G-A
* *
83918552 T-TAGCTAGTGTAAGACTATGTCTGGGGCATGGCATCG
1 TGT-GCTAGTGTAAGACCATGTCTGGGACATGGCATCG
83918589 ACATCCTACC
Statistics
Matches: 263, Mismatches: 34, Indels: 54
0.75 0.10 0.15
Matches are distributed among these distances:
44 2 0.01
45 6 0.02
46 57 0.22
47 46 0.17
48 86 0.33
49 29 0.11
50 30 0.11
51 1 0.00
54 4 0.02
55 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTATGAGA
Found at i:83920332 original size:19 final size:19
Alignment explanation
Indices: 83920308--83920354 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
83920298 TTGAGATACA
83920308 GGCATGTGCAAG-CCACACG
1 GGCATGTG-AAGCCCACACG
83920327 GGCATGTGAAGCCCACACG
1 GGCATGTGAAGCCCACACG
*
83920346 GGCCTGTGA
1 GGCATGTGA
83920355 CTCTCCAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 3 0.12
19 23 0.88
ACGTcount: A:0.23, C:0.30, G:0.34, T:0.13
Consensus pattern (19 bp):
GGCATGTGAAGCCCACACG
Found at i:83921868 original size:57 final size:57
Alignment explanation
Indices: 83921799--83921908 Score: 184
Period size: 57 Copynumber: 1.9 Consensus size: 57
83921789 GTATGGACTT
* * *
83921799 TGCTCGGTTTTTGATAATTTTTACATTTTTGAGATCGTTGCTTTGATTACTACTCTC
1 TGCTCAGTTTTTGATAATTTTTACATTTTTGAGATCGTTGCTTCGAGTACTACTCTC
*
83921856 TGCTCAGTTTTTGATAATTTTTACGTTTTTGAGATCGTTGCTTCGAGTACTAC
1 TGCTCAGTTTTTGATAATTTTTACATTTTTGAGATCGTTGCTTCGAGTACTAC
83921909 CAGACCCATG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 49 1.00
ACGTcount: A:0.18, C:0.15, G:0.17, T:0.49
Consensus pattern (57 bp):
TGCTCAGTTTTTGATAATTTTTACATTTTTGAGATCGTTGCTTCGAGTACTACTCTC
Found at i:83922724 original size:83 final size:83
Alignment explanation
Indices: 83922580--83922740 Score: 227
Period size: 83 Copynumber: 1.9 Consensus size: 83
83922570 TAACAGTGAT
* *
83922580 ATATCAGGCTTATTGCCTAGCAGGTTTTTATGCCGGTGTAAGATATCAGGCTTATTGCCTAGCAG
1 ATATCAGGCTTATTGCCTAGCAGGTCTTTATGCCGGTGTAAGATATCAGGCTTATTACCTAGCAG
*
83922645 GCTTTGATGCCGGTATATG
66 GCTCTG-TGCCGGTATATG
* * * *
83922664 ATATCAGGCTTATTGTCTAGCAGG-CTTTATGTCGGTGTATTGA-ATCAGGTTTATTACCTAGCA
1 ATATCAGGCTTATTGCCTAGCAGGTCTTTATGCCGGTGTA-AGATATCAGGCTTATTACCTAGCA
83922727 GGCTCTGTGCCGGT
65 GGCTCTGTGCCGGT
83922741 GTTTTATACA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
82 7 0.10
83 37 0.54
84 25 0.36
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.35
Consensus pattern (83 bp):
ATATCAGGCTTATTGCCTAGCAGGTCTTTATGCCGGTGTAAGATATCAGGCTTATTACCTAGCAG
GCTCTGTGCCGGTATATG
Found at i:83922725 original size:41 final size:41
Alignment explanation
Indices: 83922580--83922742 Score: 211
Period size: 42 Copynumber: 3.9 Consensus size: 41
83922570 TAACAGTGAT
* *
83922580 ATATCAGGCTTATTGCCTAGCAGGTTTTTATGCCGGTGTAAG
1 ATATCAGGCTTATTGCCTAGCAGG-CTTTATGCCGGTGTATG
*
83922622 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTATATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCCGGTGTATG
* *
83922664 ATATCAGGCTTATTGTCTAGCAGGCTTTATGTCGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTA-TG
* * * *
83922706 A-ATCAGGTTTATTACCTAGCAGGCTCTGTGCCGGTGT
1 ATATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGT
83922743 TTTATACAAG
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 42 0.39
42 65 0.61
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (41 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTATGCCGGTGTATG
Found at i:83934179 original size:222 final size:222
Alignment explanation
Indices: 83933785--83934228 Score: 723
Period size: 222 Copynumber: 2.0 Consensus size: 222
83933775 GAGTTCTACC
83933785 TAGCCCATGGTCTAAATCTTGCTATGTGATGGAAATGACACTCGGCCATGGATGCATCATTCTTG
1 TAGCCCATGGTCTAAATCTTGCTATGTGATGGAAATGACACTCGGCCATGGATGCATCATTCTTG
* * *
83933850 GTTGGTGTTTGATGTTGTGGTGATGAGGCATGAGGATGAGTTAAGATTCGGCCTAGGTGGATTTT
66 GTTGATGTTTGATGTTGCGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCTAGGTGGATTTT
* * *
83933915 GTGTTAATGCCATTGCATGCTAAATATGAAGCTTGTTAATGATGCATGTGATGGTGGCTTGATGA
131 GTGTTAATGCCATTGCATGCTAAATATAAAGCTTGTTAATGATACATGTGATGGTGGATTGATGA
83933980 TTCTTGAACCTCCTTTTTAGCATTTTT
196 TTCTTGAACCTCCTTTTTAGCATTTTT
83934007 TAGCCCATGGTCTAAATCTTGCTATGTGATGGAAATGACACTCGGCCATGGATGCATCATTCTTG
1 TAGCCCATGGTCTAAATCTTGCTATGTGATGGAAATGACACTCGGCCATGGATGCATCATTCTTG
*
83934072 GTTGATGTTTGATGTTGCGGTGATGAGGCATGAAGATGAGTTAAGTTTCGG-CTAAGGTGGA-TT
66 GTTGATGTTTGATGTTGCGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCT-AGGTGGATTT
* * * *
83934135 TGTGTTGATGTCATTTGCATGCTAAGTGTAAAGCTT-TGTAATGATACATGTGATGGTGGATTGA
130 TGTGTTAATGCCA-TTGCATGCTAAATATAAAGCTTGT-TAATGATACATGTGATGGTGGATTGA
* *
83934199 TGATTCTTGAATCTTCTTTTTAGCATTTTT
193 TGATTCTTGAACCTCCTTTTTAGCATTTTT
83934229 GAGTGAGCAC
Statistics
Matches: 206, Mismatches: 13, Indels: 6
0.92 0.06 0.03
Matches are distributed among these distances:
221 16 0.08
222 190 0.92
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.38
Consensus pattern (222 bp):
TAGCCCATGGTCTAAATCTTGCTATGTGATGGAAATGACACTCGGCCATGGATGCATCATTCTTG
GTTGATGTTTGATGTTGCGGTGATGAGGCATGAAGATGAGTTAAGATTCGGCCTAGGTGGATTTT
GTGTTAATGCCATTGCATGCTAAATATAAAGCTTGTTAATGATACATGTGATGGTGGATTGATGA
TTCTTGAACCTCCTTTTTAGCATTTTT
Found at i:83935024 original size:39 final size:39
Alignment explanation
Indices: 83934981--83935116 Score: 227
Period size: 39 Copynumber: 3.5 Consensus size: 39
83934971 GGACTAAGAT
*
83934981 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
83935020 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
83935059 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
83935099 CCGAAGGCATTTGTGCGA
1 CCGAAGGCATTTGTGCGA
83935117 ATTACTATAA
Statistics
Matches: 92, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 73 0.79
40 19 0.21
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:83935122 original size:40 final size:39
Alignment explanation
Indices: 83934967--83935151 Score: 221
Period size: 39 Copynumber: 4.7 Consensus size: 39
83934957 AAGTGACAAT
* * *
83934967 ATCCGGACTAAGATCCGAAGGCATTTGTACGAGATACTAA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAA
*
83935007 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
* *
83935046 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
*
83935085 ATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACTATA
1 ATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTA-A
* * *
83935126 A-CTGGTCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAG-CCCGAAGGCATTTG
83935152 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 73 0.56
40 55 0.42
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (39 bp):
ATCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:83935123 original size:79 final size:81
Alignment explanation
Indices: 83934933--83935157 Score: 250
Period size: 79 Copynumber: 2.9 Consensus size: 81
83934923 ATGATGTCCA
* * *
83934933 GGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAATATCCGGACTAAGACCCGAAGGCATTTGT
*
83934995 ACGAGATACTAATTCCG
65 ACGAGATACTAAATCCG
*
83935012 GGCTAAG-CCCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-CCCGAAGGCATTTGT
1 GGCTAAGTCCCGAAGGCATTTGTGCGA-ATTACTAATATCCGGACTAAGACCCGAAGGCATTTGT
* *
83935073 GCGAGTTACTAAATCCG
65 ACGAGATACTAAATCCG
* * * * * * *
83935090 GGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACTGGTCTATGTCCCGAAGGCATTTGAA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGACTAAGACCCGAAGGCATTTGTA
83935154 CGAG
66 CGAG
83935158 GAGCTATATC
Statistics
Matches: 124, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
78 46 0.37
79 49 0.40
80 28 0.23
81 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (81 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAATATCCGGACTAAGACCCGAAGGCATTTGTA
CGAGATACTAAATCCG
Found at i:83935173 original size:79 final size:77
Alignment explanation
Indices: 83934981--83935184 Score: 200
Period size: 79 Copynumber: 2.6 Consensus size: 77
83934971 GGACTAAGAT
* *
83934981 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA
1 CCGAAGGCATTTGTACGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTA
*
83935045 ATTCCGGGCTAAGC
64 ATACCGGGCTAAGC
* *
83935059 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT
1 CCGAAGGCATTTGTACGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACT
* * *
83935123 -ATAACTGGTCTATGTC
63 AAT-ACCGGGCTAAG-C
* * *
83935139 CCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGAAGGCATTTGTACGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
83935185 TACGTGATTT
Statistics
Matches: 107, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
78 35 0.33
79 48 0.45
80 24 0.22
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.25
Consensus pattern (77 bp):
CCGAAGGCATTTGTACGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
ACCGGGCTAAGC
Found at i:83953718 original size:2 final size:2
Alignment explanation
Indices: 83953711--83953839 Score: 91
Period size: 2 Copynumber: 64.5 Consensus size: 2
83953701 ACATACAATA
* *
83953711 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AC AC AC ATC AT
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A-C AC
* * ** * * *
83953754 TC -C TAT TG AT TC AC AC AC GC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC -AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
* * * * * *
83953796 CC AC CC AC -C CC CC CC AC AC AC AC AC AC AC AT AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
83953837 AC A
1 AC A
83953840 TATATATAAA
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
1 2 0.02
2 97 0.96
3 2 0.02
ACGTcount: A:0.42, C:0.49, G:0.02, T:0.08
Consensus pattern (2 bp):
AC
Found at i:83954913 original size:42 final size:44
Alignment explanation
Indices: 83954859--83954981 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 44
83954849 ATCACATATT
* * * *
83954859 GATGCCACTGTCCCAGACAGGGTCATACCCG-AACTCATATA-C
1 GATGCCAATGTCCCAGACAGGGTCATACACGTAAATCATAAATC
* * * *
83954901 GATGCCAATGTCCTAGATATGGTCTTACACGTAAATCATAAATC
1 GATGCCAATGTCCCAGACAGGGTCATACACGTAAATCATAAATC
*
83954945 GATGCCAATGTCCCAGAC-GTGGTCTTACACG-AAATCA
1 GATGCCAATGTCCCAGACAG-GGTCATACACGTAAATCA
83954982 CATATTGGAA
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 25 0.37
43 14 0.21
44 28 0.42
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (44 bp):
GATGCCAATGTCCCAGACAGGGTCATACACGTAAATCATAAATC
Found at i:83954949 original size:44 final size:43
Alignment explanation
Indices: 83954820--83954986 Score: 165
Period size: 43 Copynumber: 3.9 Consensus size: 43
83954810 TCATACAACA
* ** * * * *
83954820 CCAACGTCCCAGATGTGGTCTTACATGTAATCACATATTGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCATATATCGATG
* * * * *
83954863 CCACTGTCCCAGACAGGGTCATACCCGAACTCATATA-CGATG
1 CCAATGTCCCAGACATGGTCTTACACGAAATCATATATCGATG
* * *
83954905 CCAATGTCCTAGATATGGTCTTACACGTAAATCATAAATCGATG
1 CCAATGTCCCAGACATGGTCTTACACG-AAATCATATATCGATG
* *
83954949 CCAATGTCCCAGACGTGGTCTTACACGAAATCACATAT
1 CCAATGTCCCAGACATGGTCTTACACGAAATCATATAT
83954987 TGGAATCCTA
Statistics
Matches: 97, Mismatches: 25, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 25 0.26
43 43 0.44
44 29 0.30
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (43 bp):
CCAATGTCCCAGACATGGTCTTACACGAAATCATATATCGATG
Found at i:83955653 original size:24 final size:24
Alignment explanation
Indices: 83955626--83955678 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
83955616 CACAAAAGTC
83955626 ATCAAGGTACCAACAATGAAAAAT
1 ATCAAGGTACCAACAATGAAAAAT
83955650 ATCAAGGTACCAACAATGAAAAAT
1 ATCAAGGTACCAACAATGAAAAAT
*
83955674 CTCAA
1 ATCAA
83955679 ATTCATCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (24 bp):
ATCAAGGTACCAACAATGAAAAAT
Found at i:83962428 original size:18 final size:18
Alignment explanation
Indices: 83962405--83962466 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
83962395 CAGGAAATTC
83962405 ATGATGCTCAGCTTAATG
1 ATGATGCTCAGCTTAATG
* ** *
83962423 ATGATG-ACAGCAGGAAATTC
1 ATGATGCTCAGC--TTAA-TG
83962443 ATGATGCTCAGCTTAATG
1 ATGATGCTCAGCTTAATG
83962461 ATGATG
1 ATGATG
83962467 ACTTGCAAGC
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
17 4 0.12
18 13 0.41
19 4 0.12
20 7 0.22
21 4 0.12
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (18 bp):
ATGATGCTCAGCTTAATG
Found at i:83962443 original size:38 final size:38
Alignment explanation
Indices: 83962392--83962468 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
83962382 GCCAACATTT
83962392 CAGCAGGAAATTCATGATGCTCAGCTTAATGATGATGA
1 CAGCAGGAAATTCATGATGCTCAGCTTAATGATGATGA
83962430 CAGCAGGAAATTCATGATGCTCAGCTTAATGATGATGA
1 CAGCAGGAAATTCATGATGCTCAGCTTAATGATGATGA
83962468 C
1 C
83962469 TTGCAAGCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (38 bp):
CAGCAGGAAATTCATGATGCTCAGCTTAATGATGATGA
Found at i:83977294 original size:49 final size:49
Alignment explanation
Indices: 83977222--83977396 Score: 242
Period size: 49 Copynumber: 3.5 Consensus size: 49
83977212 TGAGGTCACG
* *
83977222 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCT
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
* * * * *
83977271 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCTGATAACTTCGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT-GGTCGCA
* *
83977322 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
*
83977371 TGTGTAGTACTAAGTGTAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
83977397 TGCATACCAG
Statistics
Matches: 111, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
49 66 0.59
50 4 0.04
51 41 0.37
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCA
Found at i:83977392 original size:100 final size:100
Alignment explanation
Indices: 83977217--83977398 Score: 319
Period size: 100 Copynumber: 1.8 Consensus size: 100
83977207 TATTGTGAGG
*
83977217 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCTTGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGTACT
83977282 AAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
66 AAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
* **
83977317 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTTGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGTACT
*
83977382 AAGTGTAGGCTACTATG
66 AAGTGCAGGCTACTATG
83977399 CATACCAGAT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 77 1.00
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGCCGCATGTGTAGTACT
AAGTGCAGGCTACTATGTGTACCTGATAACTTCGA
Found at i:83981665 original size:21 final size:21
Alignment explanation
Indices: 83981636--83981678 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
83981626 AACACCCCTA
83981636 ACCCATATCCATTGTCGGACT
1 ACCCATATCCATTGTCGGACT
*
83981657 ACCCGTATCCATTGTCGGACT
1 ACCCATATCCATTGTCGGACT
83981678 A
1 A
83981679 AGGTTGAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.23, C:0.33, G:0.16, T:0.28
Consensus pattern (21 bp):
ACCCATATCCATTGTCGGACT
Found at i:83984717 original size:29 final size:29
Alignment explanation
Indices: 83984654--83984736 Score: 107
Period size: 28 Copynumber: 2.9 Consensus size: 29
83984644 AGCATGATTG
* *
83984654 TAAATGTGATTTGGGCCTAGT-GGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCACA
*
83984682 TGAATGTGATTTGGGCCTAATGGGCCACA
1 TAAATGTGATTTGGGCCTAATGGGCCACA
* *
83984711 TAAATGTGA-ATGGGCCTGATGGGCCA
1 TAAATGTGATTTGGGCCTAATGGGCCA
83984737 TATATAGGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
28 34 0.71
29 14 0.29
ACGTcount: A:0.25, C:0.16, G:0.31, T:0.28
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAATGGGCCACA
Found at i:83994562 original size:30 final size:30
Alignment explanation
Indices: 83994528--83994588 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
83994518 TCCTTAACTC
83994528 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
83994558 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
83994588 A
1 A
83994589 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:83999463 original size:40 final size:40
Alignment explanation
Indices: 83999385--83999608 Score: 249
Period size: 40 Copynumber: 5.5 Consensus size: 40
83999375 ACCCAAGTAT
* *
83999385 CTTCGCGATTTAG-CCGGATATAG-CAACTCA-CACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCACAAATGC
* **
83999424 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
83999464 CCTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
83999504 CTTCGGAACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* * * *
83999547 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATTC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
83999587 CCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
83999609 CATCCGAATA
Statistics
Matches: 157, Mismatches: 20, Indels: 15
0.82 0.10 0.08
Matches are distributed among these distances:
39 12 0.08
40 110 0.70
41 1 0.01
43 34 0.22
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:83999581 original size:83 final size:79
Alignment explanation
Indices: 83999385--83999608 Score: 254
Period size: 83 Copynumber: 2.8 Consensus size: 79
83999375 ACCCAAGTAT
* * * *
83999385 CTTCGCGATTTAGCCGGATATAGCAACTCA-CACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCGGATATAGTAACT-AGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
83999449 CACTAGCATGAATGC
65 CACTAGCACAAATGC
* * * *
83999464 CCTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGAACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAG-CCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
83999528 CAACTACTCGCACAAATGC
65 C-ACTA---GCACAAATGC
* * *
83999547 CTTCGGGACTTAGCCTGGATATAGTAACTTGCACAAATTCCCTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCC-GGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
83999609 CATCCGAATA
Statistics
Matches: 121, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
79 12 0.10
80 47 0.39
82 2 0.02
83 60 0.50
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTC
ACTAGCACAAATGC
Found at i:84005299 original size:40 final size:40
Alignment explanation
Indices: 84005240--84005469 Score: 306
Period size: 40 Copynumber: 5.8 Consensus size: 40
84005230 AGATTGATAA
84005240 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
84005279 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
84005319 CCAGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT-AT
* *
84005360 -CGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
84005399 CCGGGCTAAGTCCCGAAGGCATGTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
** * *
84005439 CCGGGCTAACCCCCGACGGC-CTTGTGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
84005470 GGTTATATCC
Statistics
Matches: 168, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
39 20 0.12
40 147 0.88
41 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:84010359 original size:33 final size:32
Alignment explanation
Indices: 84010308--84010371 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 32
84010298 ACGAAGTCAC
* *
84010308 CAGATACAAATATTGTGGCTAGGCCACCAGAA
1 CAGATACAAATATTGTGGCGAAGCCACCAGAA
* *
84010340 CAGATATATATATATGTGGCGAAGCCACCAGA
1 CAGATACAAATAT-TGTGGCGAAGCCACCAGA
84010372 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 11 0.41
33 16 0.59
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (32 bp):
CAGATACAAATATTGTGGCGAAGCCACCAGAA
Found at i:84015529 original size:30 final size:30
Alignment explanation
Indices: 84015482--84015541 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
84015472 TTCCCGAGCC
84015482 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGAAAAAGTGTAATTATGCAAAAGTT
* * *
84015512 TAGGGGCAAAA-TGGTAATTTTGCCAAAGTT
1 TAGGGGAAAAAGT-GTAATTATGCAAAAGTT
84015542 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.38, C:0.07, G:0.27, T:0.28
Consensus pattern (30 bp):
TAGGGGAAAAAGTGTAATTATGCAAAAGTT
Found at i:84016267 original size:50 final size:50
Alignment explanation
Indices: 84016188--84016333 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 50
84016178 AGCTATTGTG
* ** **
84016188 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
84016238 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACTTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
84016288 -GGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
84016334 GCTTCGGCTA
Statistics
Matches: 82, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 39 0.48
50 43 0.52
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.31
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:84019104 original size:16 final size:15
Alignment explanation
Indices: 84019073--84019104 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84019063 TCGTATCATA
84019073 GATTTCTTTATCTTG
1 GATTTCTTTATCTTG
84019088 GATTTCTTTATTCTTG
1 GATTTCTTTA-TCTTG
84019104 G
1 G
84019105 CTTCTCTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.12, C:0.12, G:0.16, T:0.59
Consensus pattern (15 bp):
GATTTCTTTATCTTG
Found at i:84021897 original size:50 final size:50
Alignment explanation
Indices: 84021838--84021983 Score: 204
Period size: 50 Copynumber: 2.9 Consensus size: 50
84021828 AGCTATTGTG
* * **
84021838 AGGTCACGTGTGTAGTACTAAGTGCAGGATACTACGTGTATCAGATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
84021888 AGGTCACGTGTGTGGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
84021938 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
84021984 GCTTCGGCTA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 41 0.48
50 45 0.52
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:84024699 original size:43 final size:42
Alignment explanation
Indices: 84024642--84024796 Score: 156
Period size: 43 Copynumber: 3.7 Consensus size: 42
84024632 ATATATCGTA
*
84024642 CAATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATAT
1 CAATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATAT
* *
84024685 CAATGCC-ACTGTCCCAGACAG-GGTCTTACACGAACCAAATA-
1 CAATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCACATAT
* * * * *
84024726 CGATACCAATGTCCC-GAACATGGTCTTACACGTATTCACATAT
1 CAATGCCAACGTCCCAG-ACGTGGTCTTACACG-AATCACATAT
*
84024769 CAATGCCAACGTCCCAAACGTGGTCTTA
1 CAATGCCAACGTCCCAGACGTGGTCTTA
84024797 GTTGAGAACA
Statistics
Matches: 89, Mismatches: 15, Indels: 16
0.74 0.12 0.13
Matches are distributed among these distances:
40 1 0.01
41 23 0.26
42 16 0.18
43 48 0.54
44 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.23
Consensus pattern (42 bp):
CAATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATAT
Found at i:84035601 original size:34 final size:34
Alignment explanation
Indices: 84035554--84035629 Score: 107
Period size: 34 Copynumber: 2.2 Consensus size: 34
84035544 AGTTATAGTC
*
84035554 CAGTATCAGTGTGGGCCCTAGCCCATTACAATAA
1 CAGTATCAATGTGGGCCCTAGCCCATTACAATAA
** *
84035588 CAGTATCAATGTGGGCTTTAGCCCATTACGATAA
1 CAGTATCAATGTGGGCCCTAGCCCATTACAATAA
*
84035622 TAGTATCA
1 CAGTATCA
84035630 GAAAATACAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (34 bp):
CAGTATCAATGTGGGCCCTAGCCCATTACAATAA
Found at i:84045448 original size:40 final size:40
Alignment explanation
Indices: 84045404--84045483 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
84045394 TTTAGACAAA
*
84045404 TGTCAAGTATGTTGAATTGTTATTAGTTATCGAAAACATT
1 TGTCAAGTATGTTGAATTCTTATTAGTTATCGAAAACATT
84045444 TGTCAAGTATGTTGAATTCTTATTAGTTATCGAAAACATT
1 TGTCAAGTATGTTGAATTCTTATTAGTTATCGAAAACATT
84045484 CTTTCTTGCG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (40 bp):
TGTCAAGTATGTTGAATTCTTATTAGTTATCGAAAACATT
Found at i:84045939 original size:34 final size:34
Alignment explanation
Indices: 84045855--84045939 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
84045845 TCCATTTGAG
* *
84045855 TTACAAT-CCAGTATCAATGTGGGCCTTAGCCCA
1 TTACAATAACAGTATCAGTGTGGGCCTTAGCCCA
* *
84045888 TTACAATAATAGTATCAGTGTGGGCTTTAGCCCA
1 TTACAATAACAGTATCAGTGTGGGCCTTAGCCCA
84045922 TTACAATAACAGTATCAG
1 TTACAATAACAGTATCAG
84045940 AAAATGCAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 7 0.15
34 39 0.85
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (34 bp):
TTACAATAACAGTATCAGTGTGGGCCTTAGCCCA
Found at i:84047152 original size:23 final size:23
Alignment explanation
Indices: 84047126--84047200 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 23
84047116 ACTTACCCAC
84047126 ACTGATCGAAACAATAGCCCAGA
1 ACTGATCGAAACAATAGCCCAGA
** * * *
84047149 ACTGCCAAAGATACCACTTA-CCCA-T
1 ACTG--ATCGA-AACA-ATAGCCCAGA
84047174 ACTGATCGAAACAATAGCCCAGA
1 ACTGATCGAAACAATAGCCCAGA
84047197 ACTG
1 ACTG
84047201 CCAAAGAAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 12
0.62 0.17 0.21
Matches are distributed among these distances:
21 2 0.06
22 7 0.19
23 11 0.31
25 7 0.19
26 7 0.19
27 2 0.06
ACGTcount: A:0.40, C:0.29, G:0.15, T:0.16
Consensus pattern (23 bp):
ACTGATCGAAACAATAGCCCAGA
Found at i:84047183 original size:48 final size:48
Alignment explanation
Indices: 84047112--84047207 Score: 183
Period size: 48 Copynumber: 2.0 Consensus size: 48
84047102 GGAGAAGGAT
84047112 TACCACTTACCCACACTGATCGAAACAATAGCCCAGAACTGCCAAAGA
1 TACCACTTACCCACACTGATCGAAACAATAGCCCAGAACTGCCAAAGA
*
84047160 TACCACTTACCCATACTGATCGAAACAATAGCCCAGAACTGCCAAAGA
1 TACCACTTACCCACACTGATCGAAACAATAGCCCAGAACTGCCAAAGA
84047208 AGAAGAAGAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.40, C:0.32, G:0.12, T:0.16
Consensus pattern (48 bp):
TACCACTTACCCACACTGATCGAAACAATAGCCCAGAACTGCCAAAGA
Found at i:84054334 original size:7 final size:7
Alignment explanation
Indices: 84054322--84054351 Score: 51
Period size: 7 Copynumber: 4.1 Consensus size: 7
84054312 TAATGACAAT
84054322 TAATATA
1 TAATATA
84054329 TAATATA
1 TAATATA
84054336 TAATATA
1 TAATATA
84054343 TTAATATA
1 -TAATATA
84054351 T
1 T
84054352 TATTTGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 15 0.68
8 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAATATA
Found at i:84054387 original size:7 final size:7
Alignment explanation
Indices: 84054375--84054408 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
84054365 CTTATTTATT
84054375 AAAAATA
1 AAAAATA
84054382 AAAAATA
1 AAAAATA
84054389 AAAAATAA
1 AAAAAT-A
84054397 AAAAATA
1 AAAAATA
84054404 AAAAA
1 AAAAA
84054409 CTTTTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAATA
Found at i:84054399 original size:15 final size:14
Alignment explanation
Indices: 84054375--84054408 Score: 59
Period size: 15 Copynumber: 2.4 Consensus size: 14
84054365 CTTATTTATT
84054375 AAAAATAAAAAATA
1 AAAAATAAAAAATA
84054389 AAAAATAAAAAAATA
1 AAAAAT-AAAAAATA
84054404 AAAAA
1 AAAAA
84054409 CTTTTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAATAAAAAATA
Found at i:84059477 original size:12 final size:12
Alignment explanation
Indices: 84059460--84059492 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
84059450 GGGGACACAC
84059460 GACCGTGTACAT
1 GACCGTGTACAT
84059472 GACCGTGTACAT
1 GACCGTGTACAT
84059484 GACCGTGTA
1 GACCGTGTA
84059493 TCACACACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (12 bp):
GACCGTGTACAT
Found at i:84065684 original size:36 final size:36
Alignment explanation
Indices: 84065644--84065712 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
84065634 CCAATAATCT
* *
84065644 GGTACACGTAGTAGCTTGCACTTAGTACTACACTCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACTCG
*
84065680 GGTACGCATAGTAGCCTGCACTTAGTACTACAC
1 GGTACACATAGTAGCCTGCACTTAGTACTACAC
84065713 ATGCGACCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (36 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACTCG
Found at i:84065738 original size:85 final size:85
Alignment explanation
Indices: 84065595--84065761 Score: 298
Period size: 85 Copynumber: 2.0 Consensus size: 85
84065585 GAAGCCATCT
* * *
84065595 GGTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATAATCTGGTACACGTAGTAGCT
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
84065660 TGCACTTAGTACTACACTCG
66 TGCACTTAGTACTACACTCG
*
84065680 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
84065745 TGCACTTAGTACTACAC
66 TGCACTTAGTACTACAC
84065762 ACGTGACCTC
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 78 1.00
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (85 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACTCG
Found at i:84074307 original size:49 final size:47
Alignment explanation
Indices: 84074192--84074318 Score: 148
Period size: 49 Copynumber: 2.6 Consensus size: 47
84074182 GATCAAATGC
**
84074192 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAGCATATTAAAGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTAACTAGCATATTAAAGT
* * ** *
84074240 CGATGCCGTGTCCTAGACAGGTCTTACACTAACTTTCATATATCCAAG-
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTAGCATAT-T-AAAGT
84074288 CTGATGCCATGTCCCAGACAGGTCTTACACT
1 C-GATGCCATGTCCCAGACAGGTCTTACACT
84074319 GACACCCAAC
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
47 18 0.27
48 19 0.28
49 30 0.45
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTAGCATATTAAAGT
Found at i:84076509 original size:40 final size:40
Alignment explanation
Indices: 84076445--84076619 Score: 246
Period size: 40 Copynumber: 4.3 Consensus size: 40
84076435 TCGTCAGGAT
* *
84076445 TTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
84076484 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGAC
*
84076524 TTAGCCCGGGTATAGCAACTACTCGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGCAACTA---GCACAAATGCCTTCGGGAC
* * *
84076567 TTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
84076607 TTAGCCCGGATAT
1 TTAGCCCGGATAT
84076620 CATCCGAATA
Statistics
Matches: 123, Mismatches: 7, Indels: 11
0.87 0.05 0.08
Matches are distributed among these distances:
39 5 0.04
40 80 0.65
41 1 0.01
43 37 0.30
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:84076592 original size:83 final size:83
Alignment explanation
Indices: 84076461--84076615 Score: 274
Period size: 83 Copynumber: 1.9 Consensus size: 83
84076451 GGATATAGCA
* * *
84076461 ACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCCTCGGGACTT
84076526 AGCCCGGGTATAGCAACT
66 AGCCCGGGTATAGCAACT
*
84076544 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCCTCGGGACTT
84076609 AGCCCGG
66 AGCCCGG
84076616 ATATCATCCG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
83 68 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (83 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCCTCGGGACTT
AGCCCGGGTATAGCAACT
Found at i:84084323 original size:43 final size:40
Alignment explanation
Indices: 84084206--84084367 Score: 204
Period size: 40 Copynumber: 4.0 Consensus size: 40
84084196 TCGTCAGGAT
* *
84084206 TTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
84084245 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-CAACTAGCACAAATGCCTTCGGGAC
*
84084285 TTAGCCCAGG-TATAGCAACTACTCAAACAAATGCCTTCGGGAC
1 TTAGCCC-GGATATAGCAACTA-GC--ACAAATGCCTTCGGGAC
* * *
84084328 TTAGCCCGGATATAGTAACTTGCACAAATGCCCTCGGGAC
1 TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
84084368 CGCACGAATG
Statistics
Matches: 108, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
39 5 0.05
40 63 0.58
41 4 0.04
42 3 0.03
43 33 0.31
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
TTAGCCCGGATATAGCAACTAGCACAAATGCCTTCGGGAC
Found at i:84085793 original size:20 final size:20
Alignment explanation
Indices: 84085768--84085807 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
84085758 CAATTCACGG
* *
84085768 CAATGGAGGAGCATGGATGA
1 CAATGGAAGAGCATAGATGA
84085788 CAATGGAAGAGCATAGATGA
1 CAATGGAAGAGCATAGATGA
84085808 AACAACTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.10, G:0.35, T:0.15
Consensus pattern (20 bp):
CAATGGAAGAGCATAGATGA
Found at i:84088962 original size:33 final size:33
Alignment explanation
Indices: 84088925--84088990 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
84088915 AATAAAAGGA
84088925 TTAATTTTGAATAAATATAGATCAAGAAAAGAG
1 TTAATTTTGAATAAATATAGATCAAGAAAAGAG
84088958 TTAATTTTGAATAAATATAGATCAAGAAAAGAG
1 TTAATTTTGAATAAATATAGATCAAGAAAAGAG
84088991 GATTTTGAAC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (33 bp):
TTAATTTTGAATAAATATAGATCAAGAAAAGAG
Found at i:84088999 original size:31 final size:32
Alignment explanation
Indices: 84088926--84088999 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 32
84088916 ATAAAAGGAT
84088926 TAATTTTGAATAAATATAGATCAAGAAAAGAG
1 TAATTTTGAATAAATATAGATCAAGAAAAGAG
84088958 TTAATTTTGAATAAATATAGATCAAGAAAAGAG
1 -TAATTTTGAATAAATATAGATCAAGAAAAGAG
*
84088991 -GATTTTGAA
1 TAATTTTGAA
84089000 CTTAGACCGA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
31 8 0.20
33 32 0.80
ACGTcount: A:0.50, C:0.03, G:0.16, T:0.31
Consensus pattern (32 bp):
TAATTTTGAATAAATATAGATCAAGAAAAGAG
Found at i:84098060 original size:40 final size:40
Alignment explanation
Indices: 84098005--84098266 Score: 411
Period size: 40 Copynumber: 6.6 Consensus size: 40
84097995 TATTCGAATG
*
84098005 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
84098045 ATATCCAGGCTAAGTCCCGAAGGCATTTGTGTTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
84098085 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
84098125 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
84098165 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
84098205 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
84098245 ATATCC-AGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
84098267 TACTTGGGTT
Statistics
Matches: 205, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
39 13 0.06
40 190 0.93
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:84102437 original size:55 final size:54
Alignment explanation
Indices: 84102366--84102517 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 54
84102356 TATCATTACT
*
84102366 TTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGGCCTTTGCC
1 TTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGGCC-TTGCC
* * ***
84102419 TTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCC
1 TTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGGCCTTGCC
* *
84102474 TTCTAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 TTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGA
84102518 TATCCTTGTC
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
53 4 0.05
54 36 0.42
55 44 0.51
56 2 0.02
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.34
Consensus pattern (54 bp):
TTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGAGGGCCTTGCC
Found at i:84102511 original size:54 final size:55
Alignment explanation
Indices: 84102371--84102530 Score: 207
Period size: 54 Copynumber: 2.9 Consensus size: 55
84102361 TTACTTTATG
* ***
84102371 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATG-GGGCCTTTGCCTTATAGT
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAGT
* * * *
84102426 AACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAG-
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGT
* *
84102480 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTA
1 AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTA
84102531 CCAAATGCCA
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
54 45 0.49
55 44 0.48
56 2 0.02
ACGTcount: A:0.22, C:0.26, G:0.17, T:0.35
Consensus pattern (55 bp):
AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGT
Found at i:84102871 original size:55 final size:54
Alignment explanation
Indices: 84102792--84102950 Score: 164
Period size: 55 Copynumber: 2.9 Consensus size: 54
84102782 TGATGTGGTA
* *
84102792 CCTTGCTTTAT-GAACTCACCAATGCCATGCCTTGGAATGGTCTTTCATG-CGG
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGAATGGTCTTTCATGACGG
* ***
84102844 CCTTTGCCTTATAGTAACTCATCAATGCCATGTCTT-GACATGGTCTTAT-ATGATTT
1 CC-TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGA-ATGGTCTT-TCATGACGG
* * * *
84102900 CCTTGCCTTCTAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGA
1 CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGAATGGTCTTTCATGA
84102951 TATCCTTGTC
Statistics
Matches: 88, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
52 2 0.02
53 8 0.09
54 34 0.39
55 41 0.47
56 3 0.03
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CCTTGCCTTATAGAACTCATCAATGCCATGCCTTGGAATGGTCTTTCATGACGG
Found at i:84102940 original size:54 final size:55
Alignment explanation
Indices: 84102792--84102963 Score: 174
Period size: 54 Copynumber: 3.2 Consensus size: 55
84102782 TGATGTGGTA
* * * ***
84102792 CCTTGCTTTAT-G-AACTCACCAATGCCATGCCTTGGAATGGTCTT-TCATG-CGG
1 CCTTGCCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTAT-ATGATAT
* * *
84102844 CCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTATATGATTT
1 CC-TTGCCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTATATGATAT
* * *
84102900 CCTTGCCTTCTAG-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATAT
1 CCTTGCCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTATATGATAT
*
84102954 CCTTGTCTTA
1 CCTTGCCTTA
84102964 CCAAATGCCA
Statistics
Matches: 99, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
52 2 0.02
53 8 0.08
54 45 0.45
55 41 0.41
56 3 0.03
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (55 bp):
CCTTGCCTTATAGTAACTCATCAATGCCATGCCTTGGCATGGTCTTATATGATAT
Found at i:84103170 original size:433 final size:434
Alignment explanation
Indices: 84102364--84103213 Score: 1585
Period size: 433 Copynumber: 2.0 Consensus size: 434
84102354 GGTATCATTA
* *
84102364 CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGGCCTTTGCCTTATAGTAAC
1 CTTTATGAACTCACCAATGCCATGCCTTGGAATGGTCTTACATGCGGCCTTTGCCTTATAGTAAC
84102429 TCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAGAACTTATCAATGCC
66 TCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAGAACTTATCAATGCC
84102494 ATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
131 ATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
84102559 ACATGGTATCCTTGTCTTAGTGTTAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATC
196 ACATGGTATCCTTGTCTTAGTGTTAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATC
* *
84102624 AATGCCAATGTCATGTCTTGACATGGTTTTACACGAGATCCTAGCCATACCAATGCCATGGTCTT
261 AATGCCAATGCCATGTCTTGACATGGTCTTACACGAGATCCTAGCCATACCAATGCCATGGTCTT
* *
84102689 ACATGGTATCCTTAACCGTCAATTCCTCCTTAAGTGCCATGTTATGAACATGGAC-TTTTTTTCA
326 ACATGGTATCCTTAACCATCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTTTTTCA
84102753 ATTCTTCCTTAATTGCCATGGTACAACGATGATGTGGTACCTTG
391 ATTCTTCCTTAATTGCCATGGTACAACGATGATGTGGTACCTTG
*
84102797 CTTTATGAACTCACCAATGCCATGCCTTGGAATGGTCTTTCATGCGGCCTTTGCCTTATAGTAAC
1 CTTTATGAACTCACCAATGCCATGCCTTGGAATGGTCTTACATGCGGCCTTTGCCTTATAGTAAC
*
84102862 TCATCAATGCCATGTCTTGACATGGTCTTATATGATTTCCTTGCCTTCTAGAACTTATCAATGCC
66 TCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAGAACTTATCAATGCC
*
84102927 ATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTTCAAACATGGTCTT
131 ATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
*
84102992 ACATGGTATCCTTGTCTTAGTGTTAATGCCACATTTTGATGTGGTCTTACATGGAGTCCTTAATC
196 ACATGGTATCCTTGTCTTAGTGTTAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATC
*
84103057 AATGCCGATGCCATGTCTTGACATGGTCTTACACGAGATCCTAGCCATACCAATGCCATGGTCTT
261 AATGCCAATGCCATGTCTTGACATGGTCTTACACGAGATCCTAGCCATACCAATGCCATGGTCTT
*
84103122 ACATGTTATCCTTAACCATCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTTTTTCA
326 ACATGGTATCCTTAACCATCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTTTTTCA
84103187 ATTCTTCCTTAATTGCCATGGTACAAC
391 ATTCTTCCTTAATTGCCATGGTACAAC
84103214 TATGGACTTT
Statistics
Matches: 404, Mismatches: 12, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
433 368 0.91
434 36 0.09
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.36
Consensus pattern (434 bp):
CTTTATGAACTCACCAATGCCATGCCTTGGAATGGTCTTACATGCGGCCTTTGCCTTATAGTAAC
TCATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTCTAGAACTTATCAATGCC
ATGCCTTGGCATGGTCTTACATGATATCCTTGTCTTACCAAATGCCATGTTCCAAACATGGTCTT
ACATGGTATCCTTGTCTTAGTGTTAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAATC
AATGCCAATGCCATGTCTTGACATGGTCTTACACGAGATCCTAGCCATACCAATGCCATGGTCTT
ACATGGTATCCTTAACCATCAATTCCTCCTTAAATGCCATGTTATGAACATGGACTTTTTTTTCA
ATTCTTCCTTAATTGCCATGGTACAACGATGATGTGGTACCTTG
Found at i:84103196 original size:44 final size:44
Alignment explanation
Indices: 84103140--84103223 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
84103130 TCCTTAACCA
* *
84103140 TCAATTCCTCCTTAAATGCCATGTTATGAAC-ATGGACTTTTTTT
1 TCAATTCCTCCTTAAATGCCATGGTA-CAACTATGGACTTTTTTT
* *
84103184 TCAATTCTTCCTTAATTGCCATGGTACAACTATGGACTTT
1 TCAATTCCTCCTTAAATGCCATGGTACAACTATGGACTTT
84103224 AAGATATCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
43 3 0.09
44 32 0.91
ACGTcount: A:0.25, C:0.21, G:0.12, T:0.42
Consensus pattern (44 bp):
TCAATTCCTCCTTAAATGCCATGGTACAACTATGGACTTTTTTT
Found at i:84107772 original size:40 final size:40
Alignment explanation
Indices: 84107726--84107877 Score: 216
Period size: 40 Copynumber: 3.7 Consensus size: 40
84107716 GCAACTCGCG
*
84107726 CAAATGCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
**
84107766 TGAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
* *
84107806 CAAATGCCTTCGGAACTTAGCCCGGGTATAG-CAACTACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCA
84107849 CAAATGCCTTCGGGACTTAGCCCGGATAT
1 CAAATGCCTTCGGGACTTAGCCCGGATAT
84107878 CATCCGAATA
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 68 0.69
43 30 0.30
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCA
Found at i:84112452 original size:53 final size:53
Alignment explanation
Indices: 84112361--84112566 Score: 173
Period size: 53 Copynumber: 3.8 Consensus size: 53
84112351 GAACCTTTTC
* * * * * *
84112361 CTTTTTGAACTTACCATTGCCATGTCTTGACATCGTCTTACGTGGTATACTTG
1 CTTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATACTTG
* * * *
84112414 CTTTATGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTT
1 CTTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATAC-TTG
* * * * *
84112467 CCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGATTTACTTG
1 CTTTAT-G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATACTTG
* * * **
84112522 CCTTGTA-GAACTTATCAATGCTATGCCTTGGTATGGTCTTACATG
1 -CTT-TATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATG
84112567 ATATCCTTAC
Statistics
Matches: 122, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
52 1 0.01
53 46 0.38
54 33 0.27
55 37 0.30
56 3 0.02
57 2 0.02
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (53 bp):
CTTTATGAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATACTTG
Found at i:84112490 original size:55 final size:54
Alignment explanation
Indices: 84112411--84112566 Score: 167
Period size: 55 Copynumber: 2.9 Consensus size: 54
84112401 CGTGGTATAC
* *
84112411 TTGCTTTAT-GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTT-
1 TTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACAT-GGA-CTTA
* * *
84112465 TT-CCTTATAGTAACTCATCAATGCCATGTCTTGACATGGTCTTACAT-GATTTA
1 TTGCCTTATAG-AACTCATCAATGCCATGCCTTGGCATGGTCTTACATGGACTTA
* * * *
84112518 CTTGCCTTGTAGAACTTATCAATGCTATGCCTTGGTATGGTCTTACATG
1 -TTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATG
84112567 ATATCCTTAC
Statistics
Matches: 85, Mismatches: 11, Indels: 11
0.79 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 7 0.08
54 36 0.42
55 40 0.47
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.37
Consensus pattern (54 bp):
TTGCCTTATAGAACTCATCAATGCCATGCCTTGGCATGGTCTTACATGGACTTA
Found at i:84112580 original size:109 final size:108
Alignment explanation
Indices: 84112378--84112580 Score: 266
Period size: 109 Copynumber: 1.9 Consensus size: 108
84112368 AACTTACCAT
* *
84112378 TGCCATGTCTTGACATCGTCTTACGTGGTATACTTGCTTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATCGTCTTACATGATATACTTGCTTTATGAACTCACCAATGCCATGCCTTG
* *
84112443 GCATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGAGACCTTTACCTTATAGTAACTCATCAA
* * * * *
84112486 TGCCATGTCTTGACATGGTCTTACATGATTTACTTGCCTTGTA-GAACTTATCAATGCTATGCCT
1 TGCCATGTCTTGACATCGTCTTACATGATATACTTG-CTT-TATGAACTCACCAATGCCATGCCT
* *
84112550 TGGTATGGTCTTACATGATATCC-TTACCTTA
64 TGGCATGGTCTTACATGAGA-CCTTTACCTTA
84112581 CCAAATGCCA
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
108 32 0.40
109 45 0.56
110 4 0.05
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (108 bp):
TGCCATGTCTTGACATCGTCTTACATGATATACTTGCTTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGAGACCTTTACCTTATAGTAACTCATCAA
Found at i:84112661 original size:47 final size:47
Alignment explanation
Indices: 84112556--84112664 Score: 164
Period size: 47 Copynumber: 2.3 Consensus size: 47
84112546 GCCTTGGTAT
* **
84112556 GGTCTTACATGATATCCTTACCTTACCAAATGCCATGTTCCAAACTT
1 GGTCTTACATGGTATCCTTACCTTACCAAATGCCATGTTCCAAACAA
* **
84112603 GGTCTTACATGGTATCTTTGTCTTACCAAATGCCATGTTCCAAACAA
1 GGTCTTACATGGTATCCTTACCTTACCAAATGCCATGTTCCAAACAA
84112650 GGTCTTACATGGTAT
1 GGTCTTACATGGTAT
84112665 TCATGCCTTA
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.35
Consensus pattern (47 bp):
GGTCTTACATGGTATCCTTACCTTACCAAATGCCATGTTCCAAACAA
Found at i:84112711 original size:48 final size:48
Alignment explanation
Indices: 84112652--84112757 Score: 167
Period size: 48 Copynumber: 2.2 Consensus size: 48
84112642 CCAAACAAGG
* *
84112652 TCTTACATGGTATTCATGCCTTAGTGTCAATGCCACATCTTGATGTGC
1 TCTTACATGGTATCCATGCCTTAGTGCCAATGCCACATCTTGATGTGC
* * *
84112700 TCTTACATGGTATCCTTGTCTTAGTGCCAATGCCACATCTTGATGTGG
1 TCTTACATGGTATCCATGCCTTAGTGCCAATGCCACATCTTGATGTGC
84112748 TCTTACATGG
1 TCTTACATGG
84112758 AGTCCTTAAT
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.38
Consensus pattern (48 bp):
TCTTACATGGTATCCATGCCTTAGTGCCAATGCCACATCTTGATGTGC
Found at i:84112764 original size:48 final size:48
Alignment explanation
Indices: 84112671--84112849 Score: 156
Period size: 48 Copynumber: 3.8 Consensus size: 48
84112661 GTATTCATGC
* ** *
84112671 CTTAGTGTCAATGCCACATCTTGATGTGCTCTTACATGGTA-TCCTTGT
1 CTTAGTGCCAATGCCACATCTTGACATGGTCTTACATGG-AGTCCTTGT
** *
84112719 CTTAGTGCCAATGCCACATCTTGATGTGGTCTTACATGGAGTCCTTAAT
1 CTTAGTGCCAATGCCACATCTTGACATGGTCTTACATGGAGTCCTT-GT
* * ** *
84112768 C--AATGCCGATGCCATGTCTTGACATGGTCTTACAT-GAGATCCTTGC
1 CTTAGTGCCAATGCCACATCTTGACATGGTCTTACATGGAG-TCCTTGT
**
84112814 CTTA---CCAATGCCATGTCTTGACATGGTCTTACATGG
1 CTTAGTGCCAATGCCACATCTTGACATGGTCTTACATGG
84112850 TATACTTAAC
Statistics
Matches: 113, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
45 29 0.26
46 5 0.04
47 34 0.30
48 43 0.38
49 2 0.02
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (48 bp):
CTTAGTGCCAATGCCACATCTTGACATGGTCTTACATGGAGTCCTTGT
Found at i:84112796 original size:47 final size:46
Alignment explanation
Indices: 84112726--84112849 Score: 135
Period size: 45 Copynumber: 2.7 Consensus size: 46
84112716 TGTCTTAGTG
** ** * *
84112726 CCAATGCCACATCTTGATGTGGTCTTACATGGAG-TCCTTAATCAATG
1 CCAATGCCATGTCTTGACATGGTCTTACATGGAGATCCTT--GCAATA
* **
84112773 CCGATGCCATGTCTTGACATGGTCTTACAT-GAGATCCTTGCCTTA
1 CCAATGCCATGTCTTGACATGGTCTTACATGGAGATCCTTGCAATA
84112818 CCAATGCCATGTCTTGACATGGTCTTACATGG
1 CCAATGCCATGTCTTGACATGGTCTTACATGG
84112850 TATACTTAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 5
0.81 0.12 0.06
Matches are distributed among these distances:
45 31 0.48
46 4 0.06
47 30 0.46
ACGTcount: A:0.23, C:0.25, G:0.20, T:0.32
Consensus pattern (46 bp):
CCAATGCCATGTCTTGACATGGTCTTACATGGAGATCCTTGCAATA
Found at i:84113525 original size:30 final size:31
Alignment explanation
Indices: 84113485--84113545 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 31
84113475 CTAGCTCAAA
84113485 CTTTGACAAAATTACAATTTTGCCCCTAAAC
1 CTTTGACAAAATTACAATTTTGCCCCTAAAC
**
84113516 CTTTG-CAAAATTATGATTTTGCCCCTAAAC
1 CTTTGACAAAATTACAATTTTGCCCCTAAAC
84113546 TAAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
30 23 0.82
31 5 0.18
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (31 bp):
CTTTGACAAAATTACAATTTTGCCCCTAAAC
Found at i:84115983 original size:21 final size:21
Alignment explanation
Indices: 84115959--84116008 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
84115949 CAAGAAAAGA
84115959 GGAATTCGGACTTAGACCGAG
1 GGAATTCGGACTTAGACCGAG
**
84115980 GGAATTCATACTTAGACCGAG
1 GGAATTCGGACTTAGACCGAG
84116001 GGAATTCG
1 GGAATTCG
84116009 AAGAATATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (21 bp):
GGAATTCGGACTTAGACCGAG
Found at i:84120265 original size:28 final size:28
Alignment explanation
Indices: 84120200--84120266 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
84120190 CAATGCCTCG
* *
84120200 CACACTAAATGCCATACTCGATATCACA
1 CACACTAAGTGCCACACTCGATATCACA
*
84120228 CACACTAAGTGCCACACTCGATATCTCA
1 CACACTAAGTGCCACACTCGATATCACA
*
84120256 CACACCAAGTG
1 CACACTAAGTG
84120267 TCGTACATAG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.36, C:0.34, G:0.10, T:0.19
Consensus pattern (28 bp):
CACACTAAGTGCCACACTCGATATCACA
Found at i:84120322 original size:40 final size:40
Alignment explanation
Indices: 84120273--84120349 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
84120263 AGTGTCGTAC
*
84120273 ATAGTCGAAGCTATCTCA-AATCGCACACTAAGTGCCATAT
1 ATAGCCGAAGCTATCT-AGAATCGCACACTAAGTGCCATAT
*
84120313 ATAGCCGAAGCTATGTAGAATCGCACACTAAGTGCCA
1 ATAGCCGAAGCTATCTAGAATCGCACACTAAGTGCCA
84120350 CAAATTGGCG
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.03
40 33 0.97
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTAGAATCGCACACTAAGTGCCATAT
Found at i:84120875 original size:21 final size:20
Alignment explanation
Indices: 84120851--84120889 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
84120841 TAGTTTAATT
84120851 ATCAACAACCATTGAAATTCC
1 ATCAACAACCATT-AAATTCC
* *
84120872 ATCATCACCCATTAAATT
1 ATCAACAACCATTAAATT
84120890 ACTCAAGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.28, G:0.03, T:0.28
Consensus pattern (20 bp):
ATCAACAACCATTAAATTCC
Found at i:84122351 original size:40 final size:40
Alignment explanation
Indices: 84122282--84122459 Score: 200
Period size: 40 Copynumber: 4.5 Consensus size: 40
84122272 ACCCAAGTAT
* *
84122282 CTTCGGGAT-TTAG-CCAGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAGCAACTCGCACAAATGC
84122321 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
** * * *
84122361 CTTCGGGGTCTTAGCCCAAATATAATC-ACTAGCATAAATGC
1 CTTC-GGGTCTTAGCCCGGATAT-AGCAACTCGCACAAATGC
* * *
84122402 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGC
1 CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
* *
84122442 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
84122460 TTATCATCCA
Statistics
Matches: 115, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
38 1 0.01
39 13 0.11
40 67 0.58
41 32 0.28
42 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGCAACTCGCACAAATGC
Found at i:84122434 original size:81 final size:79
Alignment explanation
Indices: 84122282--84122447 Score: 235
Period size: 81 Copynumber: 2.1 Consensus size: 79
84122272 ACCCAAGTAT
* * * *
84122282 CTTCGGGATTTAGCCAGATATAACAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCA
1 CTTCGGGATTTAGCCAAATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
84122347 ACTCGCACAAATGC
66 ACTCGCACAAATGC
* *
84122361 CTTCGGGGTCTTAGCCCAAATATAATC-ACTAGCATAAATGCCTTCGGGACATAGCCCGGATATA
1 CTTCGGGAT-TTAG-CCAAATATAA-CAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATA
*
84122425 GCAACTCGCACGAATGC
63 GCAACTCGCACAAATGC
84122442 CTTCGG
1 CTTCGG
84122448 ATCTTAGTCC
Statistics
Matches: 77, Mismatches: 7, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
79 8 0.10
80 4 0.05
81 64 0.83
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (79 bp):
CTTCGGGATTTAGCCAAATATAACAACTAGCACAAATGCCTTCGGGACATAGCCCGGATATAGCA
ACTCGCACAAATGC
Found at i:84131022 original size:40 final size:40
Alignment explanation
Indices: 84130972--84131076 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
84130962 CGATATCTCA
* **
84130972 CACACTAAGTGCCGTACATAGTTGAAGCTATCTCAAATAG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAG
* * * *
84131012 CACACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCG
1 CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAG
* * *
84131052 CACACTAAGTACCACAAATAGCCGA
1 CACACTAAGTGCCATACATAGCCGA
84131077 TTTTTGGTCG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.36, C:0.26, G:0.17, T:0.21
Consensus pattern (40 bp):
CACACTAAGTGCCATACATAGCCGAAGCTATCTCAAATAG
Found at i:84133641 original size:27 final size:27
Alignment explanation
Indices: 84133611--84133734 Score: 187
Period size: 27 Copynumber: 4.6 Consensus size: 27
84133601 TGTAGGATAG
84133611 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
84133638 AATTACCAAAATACCCCTAGTTTGTAA
1 AATTACCAAAATACCCCTAGTTTGTAA
* * *
84133665 AATTACCGAAATACCACTAGTTTGTGA
1 AATTACCAAAATACCCCTAGTTTGTAA
* *
84133692 AATTACCGAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-AGTTTGTAA
84133719 AATTACCAAAATACCC
1 AATTACCAAAATACCC
84133735 TTGATTTACA
Statistics
Matches: 88, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
26 3 0.03
27 83 0.94
28 2 0.02
ACGTcount: A:0.41, C:0.23, G:0.08, T:0.28
Consensus pattern (27 bp):
AATTACCAAAATACCCCTAGTTTGTAA
Found at i:84133652 original size:54 final size:54
Alignment explanation
Indices: 84133578--84133733 Score: 181
Period size: 54 Copynumber: 2.9 Consensus size: 54
84133568 TTACCCTCGA
* * *
84133578 TTGTGAAATTACTGAAATACCCCT-GTAGGATAGAATTACCAAAATACCCCTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGG-TAAAATTACCAAAATACCACTAGT
* * ** *
84133632 TTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAATACCACTAGT
1 TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
* **
84133686 TTGTGAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACC
1 TTGTGAAATTACCGAAATACCCCT-AGTAGGTAAAATTACCAAAATACC
84133734 CTTGATTTAC
Statistics
Matches: 88, Mismatches: 12, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
53 4 0.05
54 81 0.92
55 3 0.03
ACGTcount: A:0.40, C:0.21, G:0.11, T:0.29
Consensus pattern (54 bp):
TTGTGAAATTACCGAAATACCCCTAGTAGGTAAAATTACCAAAATACCACTAGT
Found at i:84133741 original size:27 final size:27
Alignment explanation
Indices: 84133611--84133847 Score: 158
Period size: 27 Copynumber: 8.7 Consensus size: 27
84133601 TGTAGGATAG
*
84133611 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
*
84133638 AATTACCAAAATACCCCT-AGTTTGTAA
1 AATTACCAAAATACCCTTGA-TTTGTAA
* * *
84133665 AATTACCGAAATACCACTAG-TTTGTGA
1 AATTACCAAAATACC-CTTGATTTGTAA
* **
84133692 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
84133719 AATTACCAAAATACCCTTGATTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
** * *
84133746 AATTATAAAAATACCATTGACTTTCTAAA
1 AATTACCAAAATACCCTTGA-TTTGT-AA
* * * **
84133775 AATTA-TAGAAATACCATTGGTTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
** * * *
84133802 AATTACTGAAATACCATTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
84133829 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
84133848 TAGGATGAAA
Statistics
Matches: 173, Mismatches: 30, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
26 2 0.01
27 144 0.83
28 9 0.05
29 18 0.10
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:84133758 original size:81 final size:81
Alignment explanation
Indices: 84133611--84133761 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
84133601 TGTAGGATAG
* ** **
84133611 AATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCGAAA
1 AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
84133676 TACCACTAGTTTGTGA
66 TACCACTAGTTTGTGA
* * *
84133692 AATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATA-CCCTTGATTTACAAAATTATAAA
1 AATTACCAAAATACCCCT-AATTTGTAAAATTACCAAAATACCCCTAG-TTTACAAAATTACAAA
84133755 AATACCA
64 AATACCA
84133762 TTGACTTTCT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 9 0.15
81 51 0.85
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (81 bp):
AATTACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCCCTAGTTTACAAAATTACAAAAA
TACCACTAGTTTGTGA
Found at i:84134784 original size:25 final size:26
Alignment explanation
Indices: 84134750--84134803 Score: 101
Period size: 25 Copynumber: 2.1 Consensus size: 26
84134740 AGGAAGTGCT
84134750 AAAAGGGCTCTGCCCCAGTTTATC-G
1 AAAAGGGCTCTGCCCCAGTTTATCAG
84134775 AAAAGGGCTCTGCCCCAGTTTATCAG
1 AAAAGGGCTCTGCCCCAGTTTATCAG
84134801 AAA
1 AAA
84134804 GGGTTTTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (26 bp):
AAAAGGGCTCTGCCCCAGTTTATCAG
Found at i:84134815 original size:25 final size:25
Alignment explanation
Indices: 84134750--84134819 Score: 88
Period size: 25 Copynumber: 2.8 Consensus size: 25
84134740 AGGAAGTGCT
*
84134750 AAAAGGGCTCTGCCCCAGTTTATCG
1 AAAAGGGCTCTACCCCAGTTTATCG
*
84134775 AAAAGGGCTCTGCCCCAGTTTATC-
1 AAAAGGGCTCTACCCCAGTTTATCG
* *
84134799 AGAAAGGGTTTTACCCCAGTT
1 A-AAAGGGCTCTACCCCAGTT
84134820 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
24 1 0.02
25 40 0.98
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTCTACCCCAGTTTATCG
Found at i:84135088 original size:31 final size:31
Alignment explanation
Indices: 84135039--84135121 Score: 152
Period size: 31 Copynumber: 2.7 Consensus size: 31
84135029 CGCTTACAGT
84135039 AAAGGCTTCGG-CCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
84135069 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
84135100 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
84135122 TCGAGACTGA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
30 16 0.31
31 36 0.69
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:84135193 original size:34 final size:33
Alignment explanation
Indices: 84135149--84135220 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
84135139 CTTAGGCCCA
**
84135149 TACTGCTACTATTTGAGGGCTAAGGCCCAGACTG
1 TACTGCTACTAAAT-AGGGCTAAGGCCCAGACTG
* ** *
84135183 TACTGTTACTAAATAGGGCTTTGGCCCAGATTG
1 TACTGCTACTAAATAGGGCTAAGGCCCAGACTG
84135216 TACTG
1 TACTG
84135221 ACACTGTGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 21 0.66
34 11 0.34
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.31
Consensus pattern (33 bp):
TACTGCTACTAAATAGGGCTAAGGCCCAGACTG
Found at i:84152103 original size:43 final size:43
Alignment explanation
Indices: 84152055--84152139 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
84152045 TACACACCTG
*
84152055 GTTGATGACGATTGATGACGATATCTCCCATGCGATAATCCTA
1 GTTGATGACGATTGATGACGATATCTCCCACGCGATAATCCTA
*
84152098 GTTGATGATGATTGATGACGATATCTCCCACGCGATAATCCT
1 GTTGATGACGATTGATGACGATATCTCCCACGCGATAATCCT
84152140 GTTAGGAGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (43 bp):
GTTGATGACGATTGATGACGATATCTCCCACGCGATAATCCTA
Found at i:84158607 original size:27 final size:26
Alignment explanation
Indices: 84158559--84158618 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
84158549 GCAAGGCTGC
*
84158559 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
84158586 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
84158612 CATATAT
1 CAGATAT
84158619 ATATGTGGCG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:84159168 original size:43 final size:43
Alignment explanation
Indices: 84159107--84159195 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
84159097 CGTTTACACA
* *
84159107 CCTGGTTGATGATGATTGATGACGTTATCTCCCACGCGATAAT
1 CCTGGTTGATGACGATTGATGACGATATCTCCCACGCGATAAT
*
84159150 CCTGGTTGATGACGATTGATGATGATATCTCCCACGCGATAAT
1 CCTGGTTGATGACGATTGATGACGATATCTCCCACGCGATAAT
84159193 CCT
1 CCT
84159196 ATTAGGAGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (43 bp):
CCTGGTTGATGACGATTGATGACGATATCTCCCACGCGATAAT
Found at i:84160529 original size:11 final size:11
Alignment explanation
Indices: 84160514--84160550 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
84160504 TAAAAGCTAT
84160514 TAAAAATAA-A
1 TAAAAATAATA
84160524 TAAAAATAATA
1 TAAAAATAATA
*
84160535 T-AAAATAATG
1 TAAAAATAATA
84160545 TAAAAA
1 TAAAAA
84160551 GAAAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
10 18 0.75
11 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.24
Consensus pattern (11 bp):
TAAAAATAATA
Found at i:84167855 original size:46 final size:46
Alignment explanation
Indices: 84167805--84167980 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
84167795 TGGTTGAGCA
84167805 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84167851 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
84167896 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
84167944 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
84167981 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:84167961 original size:93 final size:93
Alignment explanation
Indices: 84167802--84167973 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
84167792 GGATGGTTGA
* *
84167802 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84167867 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
84167895 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
84167960 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
84167974 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:84173390 original size:40 final size:40
Alignment explanation
Indices: 84173342--84173768 Score: 764
Period size: 40 Copynumber: 10.7 Consensus size: 40
84173332 GCAAACACAT
* *
84173342 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
84173382 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
** *
84173422 TTGCCTTCGGGTCACAGCCCGGATATATCAACTCGCATAG
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84173462 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
84173502 TTGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84173542 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
84173582 CTGCCTTCGGGTTTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84173622 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
84173662 TTTCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84173702 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84173742 TTGCCTTCGGGTCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
84173769 ATCCAATGCT
Statistics
Matches: 369, Mismatches: 18, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 369 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:84182043 original size:40 final size:40
Alignment explanation
Indices: 84181995--84182861 Score: 1707
Period size: 40 Copynumber: 21.7 Consensus size: 40
84181985 GCAAACACAT
* *
84181995 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182035 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182075 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182115 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182155 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182195 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182235 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182275 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182315 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182355 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182395 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182435 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182475 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182515 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182555 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182595 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182635 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182675 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182715 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182755 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
84182795 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
84182835 TTGCCTTCGGGCCTTAGCCCGGATATA
1 TTGCCTTCGGGTCTTAGCCCGGATATA
84182862 ATCCAATGCT
Statistics
Matches: 824, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 824 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:84186000 original size:11 final size:11
Alignment explanation
Indices: 84185984--84186010 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
84185974 TTTAATGTCA
84185984 CGATTAAGTCC
1 CGATTAAGTCC
84185995 CGATTAAGTCC
1 CGATTAAGTCC
84186006 CGATT
1 CGATT
84186011 CGATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (11 bp):
CGATTAAGTCC
Found at i:84188990 original size:14 final size:14
Alignment explanation
Indices: 84188954--84188993 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
84188944 TTGTTTCACA
*
84188954 GAAAATGACTTATG
1 GAAAATGATTTATG
*
84188968 GAAAATGATTTCTG
1 GAAAATGATTTATG
84188982 GAAAATGATTTA
1 GAAAATGATTTA
84188994 CTTTTCTGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTATG
Found at i:84190180 original size:19 final size:18
Alignment explanation
Indices: 84190145--84190194 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
84190135 AATGGCTATT
*
84190145 TTGTAAAGTTGTAAAATAA
1 TTGTAAA-TTGTGAAATAA
84190164 GTTGTAAATTGTGAAATAA
1 -TTGTAAATTGTGAAATAA
*
84190183 TTG-AAACTGTGA
1 TTGTAAATTGTGA
84190195 GCTGTTATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 8 0.29
18 3 0.11
19 10 0.36
20 7 0.25
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (18 bp):
TTGTAAATTGTGAAATAA
Found at i:84190845 original size:45 final size:45
Alignment explanation
Indices: 84190637--84190904 Score: 229
Period size: 45 Copynumber: 6.0 Consensus size: 45
84190627 GATATTATGC
* ** *
84190637 GATATATG-GAAGCATCCGAACTTGTTGAGTTGGTCCAAGTTCAT
1 GATATATGTGAAGCATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
* * *
84190681 GATTATATGTGAAGCATTCGAGCTCGTTGAGTTGGTCTGAGTTCAT
1 GA-TATATGTGAAGCATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
* * * * *
84190727 TATACATGCGAA-CATCCGAGCTCATTGAGTCGGTCCGAGTTCGT
1 GATATATGTGAAGCATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
* *** * ** * *
84190771 GATATATGTG-AGAAATTTTAACTTGTTGAGTTGGTCCCAGTTCGT
1 GATATATGTGAAG-CATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
* **
84190816 CATATATGTGAAGCATCCGAGCTCATTGAGTTGGTTTGAGTTCAT
1 GATATATGTGAAGCATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
* * * * *
84190861 TATAGATGCG-AGCATCCGAGCTTATTAAGTTGGTCCGAGTTCAT
1 GATATATGTGAAGCATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
84190905 TATAGATGCG
Statistics
Matches: 175, Mismatches: 44, Indels: 10
0.76 0.19 0.04
Matches are distributed among these distances:
43 1 0.01
44 66 0.38
45 74 0.42
46 34 0.19
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.34
Consensus pattern (45 bp):
GATATATGTGAAGCATCCGAGCTCATTGAGTTGGTCCGAGTTCAT
Found at i:84190877 original size:134 final size:135
Alignment explanation
Indices: 84190655--84190902 Score: 390
Period size: 134 Copynumber: 1.8 Consensus size: 135
84190645 GAAGCATCCG
* * *
84190655 AACTTGTTGAGTTGGTCCAAGTTCATGATTATATGTGAAGCATTCGAGCTCGTTGAGTTGGTCTG
1 AACTTGTTGAGTTGGTCCAAGTTCATCATTATATGTGAAGCATCCGAGCTCATTGAGTTGGTCTG
*
84190720 AGTTCATTATACATGCGAACATCCGAGCTCATTGAGTCGGTCCGAGTTCGTGATATATGTGAGAA
66 AGTTCATTATACATGCGAACATCCGAGCTCATTAAGTCGGTCCGAGTTCGTGATATATGTGAGAA
84190785 ATTTT
131 ATTTT
* * *
84190790 AACTTGTTGAGTTGGTCCCAGTTCGTCA-TATATGTGAAGCATCCGAGCTCATTGAGTTGGTTTG
1 AACTTGTTGAGTTGGTCCAAGTTCATCATTATATGTGAAGCATCCGAGCTCATTGAGTTGGTCTG
* * * *
84190854 AGTTCATTATAGATGCGAGCATCCGAGCTTATTAAGTTGGTCCGAGTTC
66 AGTTCATTATACATGCGAACATCCGAGCTCATTAAGTCGGTCCGAGTTC
84190903 ATTATAGATG
Statistics
Matches: 102, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
134 77 0.75
135 25 0.25
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.35
Consensus pattern (135 bp):
AACTTGTTGAGTTGGTCCAAGTTCATCATTATATGTGAAGCATCCGAGCTCATTGAGTTGGTCTG
AGTTCATTATACATGCGAACATCCGAGCTCATTAAGTCGGTCCGAGTTCGTGATATATGTGAGAA
ATTTT
Found at i:84197273 original size:46 final size:45
Alignment explanation
Indices: 84197220--84197485 Score: 279
Period size: 46 Copynumber: 5.8 Consensus size: 45
84197210 TGGTTGAGCA
84197220 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-G
*** *
84197266 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-AA-T-GCGAAG
84197313 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-G
*** *
84197359 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-AA-T-GCGAAG
* *
84197406 TCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAA-G
* * * *
84197452 CCCGAGCTCATTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
84197486 GGGGCGGTTA
Statistics
Matches: 184, Mismatches: 22, Indels: 28
0.79 0.09 0.12
Matches are distributed among these distances:
43 2 0.01
44 6 0.03
45 3 0.02
46 96 0.52
47 65 0.35
48 4 0.02
49 6 0.03
50 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAAG
Found at i:84197376 original size:93 final size:93
Alignment explanation
Indices: 84197217--84197480 Score: 465
Period size: 93 Copynumber: 2.8 Consensus size: 93
84197207 GGATGGTTGA
84197217 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
84197282 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
84197310 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
84197375 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * * * * *
84197403 GCATCCGAACTCGTTGAGTTGAGTCAGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
*
84197468 TGAGTCTGAGTTC
66 TGAGTCCGAGTTC
84197481 ACTTAGGGGC
Statistics
Matches: 164, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 164 1.00
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGAATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:84200459 original size:45 final size:45
Alignment explanation
Indices: 84200385--84200563 Score: 207
Period size: 45 Copynumber: 4.0 Consensus size: 45
84200375 TGATATTATA
**
84200385 TGATATATGTGAAGCATCTGAACTTGTTGAGTTGGTCCAAGTTCG
1 TGATATATGTGAAGCATCCAAACTTGTTGAGTTGGTCCAAGTTCG
* * * **
84200430 TGATATATGTGAAGCATCCGAGCTCGTTGAGTTGGTCTGAGTTCG
1 TGATATATGTGAAGCATCCAAACTTGTTGAGTTGGTCCAAGTTCG
* * *
84200475 TGATATATGTG-AGAAATCCAAAATTGTTGAGTTGGTCCAAATTCG
1 TGATATATGTGAAG-CATCCAAACTTGTTGAGTTGGTCCAAGTTCG
* * * * *
84200520 TGATATATGTAAAGTATCCAAGCTTATTGAGTTGGTCTAAGTTC
1 TGATATATGTGAAGCATCCAAACTTGTTGAGTTGGTCCAAGTTC
84200564 ATAATGGATG
Statistics
Matches: 112, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
44 2 0.02
45 108 0.96
46 2 0.02
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (45 bp):
TGATATATGTGAAGCATCCAAACTTGTTGAGTTGGTCCAAGTTCG
Found at i:84203825 original size:30 final size:30
Alignment explanation
Indices: 84203791--84203848 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
84203781 CCGAGCCTAA
84203791 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
1 GGGCAAAAGTGTAAATATGCAAAAGTTTAG
* * * *
84203821 GGGCAAAATTGTAATTTTGCCAAAGTTT
1 GGGCAAAAGTGTAAATATGCAAAAGTTT
84203849 GAGTTAAAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.29
Consensus pattern (30 bp):
GGGCAAAAGTGTAAATATGCAAAAGTTTAG
Found at i:84208814 original size:10 final size:10
Alignment explanation
Indices: 84208799--84208823 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
84208789 CTGCACTTAT
84208799 TTTATGAAAA
1 TTTATGAAAA
84208809 TTTATGAAAA
1 TTTATGAAAA
84208819 TTTAT
1 TTTAT
84208824 TCGACCACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
TTTATGAAAA
Found at i:84209372 original size:15 final size:15
Alignment explanation
Indices: 84209352--84209405 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
84209342 ATACTACAAA
84209352 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
84209367 ATATTTATAAGTGTAAT
1 ATATTTATTA-T-TAAT
*
84209384 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
84209401 ATATT
1 ATATT
84209406 AATATTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:84209469 original size:16 final size:16
Alignment explanation
Indices: 84209438--84209474 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
84209428 ATGTGAATAA
84209438 TATTATTTAAAATTAT
1 TATTATTTAAAATTAT
84209454 TATT-TTTAAAATTTAT
1 TATTATTTAAAA-TTAT
84209470 TATTA
1 TATTA
84209475 AAATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TATTATTTAAAATTAT
Found at i:84209507 original size:20 final size:20
Alignment explanation
Indices: 84209482--84209542 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 20
84209472 TTAAAATAAA
84209482 ATTGAAATATTAAATAATTT
1 ATTGAAATATTAAATAATTT
*
84209502 ATTGAAATAATAAATTATATTT
1 ATTGAAATATTAAA-TA-ATTT
84209524 ATT---ATATT-AATAATTT
1 ATTGAAATATTAAATAATTT
84209540 ATT
1 ATT
84209543 ATATGACTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 7 0.19
17 2 0.05
18 2 0.05
19 4 0.11
20 13 0.35
21 2 0.05
22 7 0.19
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
ATTGAAATATTAAATAATTT
Found at i:84209553 original size:16 final size:16
Alignment explanation
Indices: 84209520--84209554 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
84209510 AATAAATTAT
*
84209520 ATTTATTATATTAATA
1 ATTTATTATATGAATA
*
84209536 ATTTATTATATGACTA
1 ATTTATTATATGAATA
84209552 ATT
1 ATT
84209555 GTAAATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (16 bp):
ATTTATTATATGAATA
Found at i:84212890 original size:48 final size:47
Alignment explanation
Indices: 84212823--84212934 Score: 170
Period size: 48 Copynumber: 2.4 Consensus size: 47
84212813 AAGTTTGTGG
* *
84212823 ATGAATCACTAGTATTTGCAGATAAACTACCAGTAGTAAAAATTATGA
1 ATGAACCACTAGTATTTGCAGATAAACTACCAGTAGTAAAAA-AATGA
* *
84212871 ATGAACCACTAGTATTTGCAGATAAACTGCCAGTAGTAAAAAAATGG
1 ATGAACCACTAGTATTTGCAGATAAACTACCAGTAGTAAAAAAATGA
*
84212918 ATGAACCACCAGTATTT
1 ATGAACCACTAGTATTT
84212935 TCAATTTAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
47 19 0.32
48 40 0.68
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (47 bp):
ATGAACCACTAGTATTTGCAGATAAACTACCAGTAGTAAAAAAATGA
Found at i:84224004 original size:20 final size:21
Alignment explanation
Indices: 84223979--84224029 Score: 68
Period size: 20 Copynumber: 2.4 Consensus size: 21
84223969 GGGGTGTGAC
*
84223979 AAAAACATATAAAAATTC-TT
1 AAAAACATATAAAAAATCATT
*
84223999 AAAAACTTATAAAAAATCATT
1 AAAAACATATAAAAAATCATT
84224020 AAAAATCATA
1 AAAAA-CATA
84224030 AAATATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 16 0.62
21 7 0.27
22 3 0.12
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAACATATAAAAAATCATT
Found at i:84224100 original size:19 final size:19
Alignment explanation
Indices: 84224076--84224213 Score: 118
Period size: 19 Copynumber: 7.7 Consensus size: 19
84224066 GAATTGATAT
84224076 AAACTTATAAAAATTATAA
1 AAACTTATAAAAATTATAA
*
84224095 AAACTTATAAAGATTATAA
1 AAACTTATAAAAATTATAA
*
84224114 AAAATTAT-AAAA-TAT--
1 AAACTTATAAAAATTATAA
*
84224129 --A-TT-TAAGATATTATAA
1 AAACTTATAA-AAATTATAA
84224145 AAACTTATAAAAATTCATAA
1 AAACTTATAAAAATT-ATAA
84224165 AAA-TTATAATAAATTATAA
1 AAACTTATAA-AAATTATAA
* * *
84224184 AAA-ATAT-AAATTTATTA
1 AAACTTATAAAAATTATAA
84224201 AAACTTATAAAAA
1 AAACTTATAAAAA
84224214 AATCATATAA
Statistics
Matches: 96, Mismatches: 10, Indels: 26
0.73 0.08 0.20
Matches are distributed among these distances:
11 1 0.01
12 3 0.03
13 3 0.03
14 3 0.03
17 13 0.14
18 8 0.08
19 50 0.52
20 15 0.16
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
AAACTTATAAAAATTATAA
Found at i:84224102 original size:10 final size:9
Alignment explanation
Indices: 84224080--84224213 Score: 126
Period size: 10 Copynumber: 14.0 Consensus size: 9
84224070 TGATATAAAC
84224080 TTATAAAAA
1 TTATAAAAA
84224089 TTATAAAAA
1 TTATAAAAA
*
84224098 CTTATAAAGA
1 -TTATAAAAA
84224108 TTATAAAAAA
1 TTAT-AAAAA
84224118 TTATAAAATA
1 TTATAAAA-A
* *
84224128 TATTTAAGATA
1 T-TATAA-AAA
84224139 TTATAAAAA
1 TTATAAAAA
84224148 CTTATAAAAA
1 -TTATAAAAA
84224158 TTCATAAAAA
1 TT-ATAAAAA
84224168 TTATAATAAA
1 TTATAA-AAA
84224178 TTATAAAAA
1 TTATAAAAA
* *
84224187 ATAT-AAAT
1 TTATAAAAA
*
84224195 TTATTAAAAC
1 TTA-TAAAAA
84224205 TTATAAAAA
1 TTATAAAAA
84224214 AATCATATAA
Statistics
Matches: 104, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
8 5 0.05
9 37 0.36
10 55 0.53
11 6 0.06
12 1 0.01
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
TTATAAAAA
Found at i:84224145 original size:31 final size:30
Alignment explanation
Indices: 84224082--84224214 Score: 79
Period size: 29 Copynumber: 4.6 Consensus size: 30
84224072 ATATAAACTT
* *
84224082 ATAAAAATTATAAAAACTTATAAAGAT-T-
1 ATAAAAATTATAAAAAATTATAAAAATATC
* *
84224110 ATAAAAAATTATAAAATATATT-T-AAGATATT
1 AT-AAAAATTATAAAA-A-ATTATAAAAATATC
84224141 ATAAAAACTTAT-AAAAATTCATAAAAAT-T-
1 ATAAAAA-TTATAAAAAATT-ATAAAAATATC
**
84224170 ATAATAAATTATAAAAAA-TATAAATTTAT-
1 ATAA-AAATTATAAAAAATTATAAAAATATC
*
84224199 -TAAAACTTATAAAAAA
1 ATAAAAATTATAAAAAA
84224215 ATCATATAAA
Statistics
Matches: 88, Mismatches: 5, Indels: 25
0.75 0.04 0.21
Matches are distributed among these distances:
27 12 0.14
28 14 0.16
29 29 0.33
30 21 0.24
31 12 0.14
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.34
Consensus pattern (30 bp):
ATAAAAATTATAAAAAATTATAAAAATATC
Found at i:84226803 original size:20 final size:20
Alignment explanation
Indices: 84226755--84226795 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
84226745 TTACATAAAA
*
84226755 TAATTAAATATAAAATAATT
1 TAATTTAATATAAAATAATT
*
84226775 TAATTTAATA-AAAATTATT
1 TAATTTAATATAAAATAATT
84226794 TA
1 TA
84226796 TTATTAATCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
TAATTTAATATAAAATAATT
Found at i:84227815 original size:33 final size:33
Alignment explanation
Indices: 84227778--84227848 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
84227768 CCTAAACTTC
*
84227778 TTTTTGTCCAATTTAATACTTAAACTTGACACT
1 TTTTTGTCCAAATTAATACTTAAACTTGACACT
* ** * *
84227811 TTTTTTTTTAAATTAGTACTTAAACTTGACATT
1 TTTTTGTCCAAATTAATACTTAAACTTGACACT
84227844 TTTTT
1 TTTTT
84227849 TAAGTTGATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.28, C:0.13, G:0.06, T:0.54
Consensus pattern (33 bp):
TTTTTGTCCAAATTAATACTTAAACTTGACACT
Found at i:84227848 original size:30 final size:31
Alignment explanation
Indices: 84227793--84227865 Score: 96
Period size: 30 Copynumber: 2.3 Consensus size: 31
84227783 GTCCAATTTA
84227793 ATACTTAAACTTGACACTTTTTTTTTTAAATT-
1 ATACTTAAACTTGACA--TTTTTTTTTAAATTG
*
84227825 AGTACTTAAACTTGACA-TTTTTTTTAAGTTG
1 A-TACTTAAACTTGACATTTTTTTTTAAATTG
84227856 ATACTTAAAC
1 ATACTTAAAC
84227866 ACTCTTACCT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
30 21 0.55
31 1 0.03
32 1 0.03
33 15 0.39
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (31 bp):
ATACTTAAACTTGACATTTTTTTTTAAATTG
Found at i:84228246 original size:12 final size:12
Alignment explanation
Indices: 84228229--84228254 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
84228219 AAAATAGGGC
84228229 TTTAGCGGCGTT
1 TTTAGCGGCGTT
84228241 TTTAGCGGCGTT
1 TTTAGCGGCGTT
84228253 TT
1 TT
84228255 ATTAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Done.