Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 151 of 186
Found at i:49905612 original size:18 final size:20
Alignment explanation
Indices: 49905585--49905629 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
49905575 TTTTTATTTC
*
49905585 AATAAATTAATA-GCA-AAT
1 AATAATTTAATATGCATAAT
49905603 AATAATTTAATATGCATAAT
1 AATAATTTAATATGCATAAT
*
49905623 ATTAATT
1 AATAATT
49905630 ATTAATTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 11 0.48
19 3 0.13
20 9 0.39
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (20 bp):
AATAATTTAATATGCATAAT
Found at i:49907492 original size:53 final size:54
Alignment explanation
Indices: 49907423--49907629 Score: 182
Period size: 53 Copynumber: 3.8 Consensus size: 54
49907413 TTCCTTTTTA
* * * * *
49907423 AACTTACCATTTCCATGTCTTGACATGGTCGTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * * *
49907476 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * * * * *
49907530 TAGTTTATCAATGTCATGTCTTTACATGGTCTTACATGATTTCCTTGCCTTGTAA
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
49907585 AACTTACCAATGCCATGCCTTGGCATGGTCATACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
49907630 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 35, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
53 44 0.38
54 35 0.30
55 38 0.32
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:49908001 original size:30 final size:30
Alignment explanation
Indices: 49907967--49908024 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
49907957 CCTTAACTCT
49907967 AACTTTGTCAAACTTACACTTTTACCCCTA
1 AACTTTGTCAAACTTACACTTTTACCCCTA
* * * *
49907997 AACTTTTTCATATTTACACTTTTGCCCC
1 AACTTTGTCAAACTTACACTTTTACCCC
49908025 AAGGCTCGAA
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:0.26, C:0.29, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTGTCAAACTTACACTTTTACCCCTA
Found at i:49915952 original size:53 final size:55
Alignment explanation
Indices: 49915884--49916087 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 55
49915874 TTCCTTTTTA
* *
49915884 AACTTACCATTGCCATGTCTTGACATGGTCATACGTGGTATCCTTGCCTTAT-G-
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * * * *
49915937 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCTTTATCGT
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
** * * * * * **
49915992 AGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGT-AA
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
* * * * * *
49916046 AACTTACCAATGACATGCCTTGGCATGGCCTTACTTGGTATC
1 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATC
49916088 AATAAACCCT
Statistics
Matches: 116, Mismatches: 33, Indels: 3
0.76 0.22 0.02
Matches are distributed among these distances:
53 44 0.38
54 33 0.28
55 39 0.34
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (55 bp):
AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATCGT
Found at i:49921104 original size:35 final size:35
Alignment explanation
Indices: 49921058--49921127 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
49921048 CATAGTAATC
49921058 CGATCCCATTTCCATTCAGGAACCATGATAGGCTG
1 CGATCCCATTTCCATTCAGGAACCATGATAGGCTG
*
49921093 CGATCCCATTTCCATTCAGGAATCATGATAGGCTG
1 CGATCCCATTTCCATTCAGGAACCATGATAGGCTG
49921128 GAGTAGTCCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (35 bp):
CGATCCCATTTCCATTCAGGAACCATGATAGGCTG
Found at i:49927417 original size:72 final size:72
Alignment explanation
Indices: 49927337--49927482 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
49927327 TACTAAAAAC
49927337 TTCTCGAATGCAAGTTTTGCAAATTATTCGATTTAGTCCCTAATTTCAACTTAAGCACTTTATGC
1 TTCTCGAATGCAAGTTTTGCAAATTATTCGATTTAGTCCCTAATTTCAACTTAAGCACTTTATGC
49927402 ATAGAAT
66 ATAGAAT
* *
49927409 TTCTCGAATGCAAGTTTTGCAAATTATTCGATTTAGTCCCTAATTTCACCTTAAGCATTTTATGC
1 TTCTCGAATGCAAGTTTTGCAAATTATTCGATTTAGTCCCTAATTTCAACTTAAGCACTTTATGC
49927474 ATAGAAT
66 ATAGAAT
49927481 TT
1 TT
49927483 TGTCATGAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (72 bp):
TTCTCGAATGCAAGTTTTGCAAATTATTCGATTTAGTCCCTAATTTCAACTTAAGCACTTTATGC
ATAGAAT
Found at i:49928561 original size:3 final size:3
Alignment explanation
Indices: 49928553--49928602 Score: 82
Period size: 3 Copynumber: 16.7 Consensus size: 3
49928543 CAAGGATCCC
* *
49928553 GAA GAA GAA GAA GAA GAA GAA TAA GAA GAA GAA GAA GAA GAC GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
49928601 GA
1 GA
49928603 TCCCACAAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.64, C:0.02, G:0.32, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:49929643 original size:30 final size:30
Alignment explanation
Indices: 49929598--49929656 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
49929588 CTTAACAAGA
49929598 AAATACCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* *
49929628 AAATGCCTTTAAAATAATAACAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
49929657 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.59, C:0.14, G:0.02, T:0.25
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:49930124 original size:39 final size:39
Alignment explanation
Indices: 49930081--49930159 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
49930071 ATTGTATGTT
49930081 AGTTGAATTATGATATAAATGTACTCTTAATAAACATGC
1 AGTTGAATTATGATATAAATGTACTCTTAATAAACATGC
49930120 AGTTGAATTATGATATAAATGTACTCTTAATAAACATGC
1 AGTTGAATTATGATATAAATGTACTCTTAATAAACATGC
49930159 A
1 A
49930160 AATCATACCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.35
Consensus pattern (39 bp):
AGTTGAATTATGATATAAATGTACTCTTAATAAACATGC
Found at i:49931164 original size:22 final size:22
Alignment explanation
Indices: 49931136--49931182 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
49931126 AAAATATTAA
49931136 CATACCCTTTTTAACTCAAATT
1 CATACCCTTTTTAACTCAAATT
49931158 CATACCCTTTTTAACTCAAATT
1 CATACCCTTTTTAACTCAAATT
49931180 CAT
1 CAT
49931183 GCAGTTTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.00, T:0.40
Consensus pattern (22 bp):
CATACCCTTTTTAACTCAAATT
Found at i:49931857 original size:24 final size:24
Alignment explanation
Indices: 49931830--49931875 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
49931820 TTGAAACACA
49931830 TCTCTCATC-CTTTCAT-TCTTCACT
1 TCTCTC-TCACTTTC-TCTCTTCACT
49931854 TCTCTCTCACTTTCTCTCTTCA
1 TCTCTCTCACTTTCTCTCTTCA
49931876 AAAACCCTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.11, C:0.39, G:0.00, T:0.50
Consensus pattern (24 bp):
TCTCTCTCACTTTCTCTCTTCACT
Found at i:49934703 original size:48 final size:48
Alignment explanation
Indices: 49934635--49934899 Score: 225
Period size: 48 Copynumber: 5.5 Consensus size: 48
49934625 CATGTCGAAA
* * * ** * *
49934635 CCATATCCCAAATATGGTCTTATACGAGGTCTCATATCGGTGTCGATG
1 CCATGTCCCAAACATGGTCTTACACGAGCACACATATCAGTGTCGATG
* * * * *
49934683 CCATGTCCTAGACATGGTCTTACACTAGCACACATATCATTGTTGATG
1 CCATGTCCCAAACATGGTCTTACACGAGCACACATATCAGTGTCGATG
* *
49934731 CCATGTCCCAAACATGGTCTTACACTG-GCACACATATCAAT-ACTGATG
1 CCATGTCCCAAACATGGTCTTACAC-GAGCACACATATCAGTGTC-GATG
* * ** *
49934779 TCATGTCCCAGACATGGTCTTACACTG-GCACAC-TATCAAAG-CATATG
1 CCATGTCCCAAACATGGTCTTACAC-GAGCACACATATCAGTGTC-GATG
* * ** *
49934826 CCATGTCCCACACATGGTCTTACACTAGCACACATATCAACGCCGATG
1 CCATGTCCCAAACATGGTCTTACACGAGCACACATATCAGTGTCGATG
* *
49934874 CCATGTCCCAGACGTGGTCTTACACG
1 CCATGTCCCAAACATGGTCTTACACG
49934900 TGATCTCATG
Statistics
Matches: 180, Mismatches: 31, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
47 39 0.22
48 140 0.78
49 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (48 bp):
CCATGTCCCAAACATGGTCTTACACGAGCACACATATCAGTGTCGATG
Found at i:49934857 original size:95 final size:96
Alignment explanation
Indices: 49934678--49934898 Score: 311
Period size: 95 Copynumber: 2.3 Consensus size: 96
49934668 ATATCGGTGT
* ** *
49934678 CGATGCCATGTCCTAGACATGGTCTTACACTAGCACACATATCATTGTTGATGCCATGTCCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAAGATGATGCCATGTCCCAAA
* *
49934743 CATGGTCTTACACTGGCACACATATCAATAC
66 CATGGTCTTACACTAGCACACATATCAACAC
* * * *
49934774 TGATGTCATGTCCCAGACATGGTCTTACACTGGCACAC-TATCAAAGCAT-ATGCCATGTCCCAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAAG-ATGATGCCATGTCCCAA
*
49934837 ACATGGTCTTACACTAGCACACATATCAACGC
65 ACATGGTCTTACACTAGCACACATATCAACAC
*
49934869 CGATGCCATGTCCCAGACGTGGTCTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
49934899 GTGATCTCAT
Statistics
Matches: 110, Mismatches: 14, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
95 75 0.68
96 35 0.32
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAAAGATGATGCCATGTCCCAAA
CATGGTCTTACACTAGCACACATATCAACAC
Found at i:49940320 original size:58 final size:60
Alignment explanation
Indices: 49940253--49940368 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 60
49940243 AATCACTTAA
* * * **
49940253 TATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGGTTAAATTTAATATTAAATC
1 TATTAAATTAATAGAATACTTACTACAAAATAAATATCAAATTAAATTTAATATTAAATC
49940311 TATTAAATTAATAGAATACTTATCTACAAAATAAATATCAAATTAAATTTAATATTAA
1 TATTAAATTAATAGAATACTTA-CTACAAAATAAATATCAAATTAAATTTAATATTAA
49940369 GATAATCACT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 21 0.42
60 1 0.02
61 28 0.56
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (60 bp):
TATTAAATTAATAGAATACTTACTACAAAATAAATATCAAATTAAATTTAATATTAAATC
Found at i:49948273 original size:16 final size:17
Alignment explanation
Indices: 49948244--49948276 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
49948234 AGGCTAGTGC
49948244 AGAGAAGAACAATGTCA
1 AGAGAAGAACAATGTCA
49948261 AGAGAAG-ACAATGTCA
1 AGAGAAGAACAATGTCA
49948277 TGAATCGACA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.52, C:0.12, G:0.24, T:0.12
Consensus pattern (17 bp):
AGAGAAGAACAATGTCA
Found at i:49951710 original size:42 final size:42
Alignment explanation
Indices: 49951648--49951849 Score: 163
Period size: 42 Copynumber: 4.6 Consensus size: 42
49951638 TGCGGTTTTG
* *
49951648 TGTAAGACCATATCTAGGATATGGCCTCAATATTTGATCCCA
1 TGTAAGACCATATCTAGGATATGGCATCAATATGTGATCCCA
* ** *
49951690 TGTAAGACCATATCTGGGATATGGCATTGGCATCAATATGTGATTTCG
1 TGTAAGACCATATCTAGG--AT---A-TGGCATCAATATGTGATCCCA
* * * * * * *
49951738 TGTAATACCATGTCTGGGACATGGCATCAATATGAGA-CATCG
1 TGTAAGACCATATCTAGGATATGGCATCAATATGTGATC-CCA
* * * * *
49951780 TGTAAGATCATAGCTTGGCTATTGGCATCGATATGTGATCCCA
1 TGTAAGACCATATCTAGGATA-TGGCATCAATATGTGATCCCA
49951823 TGTAAGACCATATCTAGGATATGGCAT
1 TGTAAGACCATATCTAGGATATGGCAT
49951850 TGGCATCTTA
Statistics
Matches: 125, Mismatches: 26, Indels: 18
0.74 0.15 0.11
Matches are distributed among these distances:
42 55 0.44
43 33 0.26
44 3 0.02
46 1 0.01
47 1 0.01
48 32 0.26
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (42 bp):
TGTAAGACCATATCTAGGATATGGCATCAATATGTGATCCCA
Found at i:49958549 original size:23 final size:23
Alignment explanation
Indices: 49958523--49958647 Score: 130
Period size: 23 Copynumber: 5.5 Consensus size: 23
49958513 AGTGAACAAC
49958523 AAATATTCTCTAGCATGAATAGT
1 AAATATTCTCTAGCATGAATAGT
*
49958546 AAATATTCTCTGGCATGAATAGT
1 AAATATTCTCTAGCATGAATAGT
* * *
49958569 AAA-AATCTCTGGCA-AAATCA-T
1 AAATATTCTCTAGCATGAAT-AGT
* * * *
49958590 TAAGATTCTCTGGCATGAACAGT
1 AAATATTCTCTAGCATGAATAGT
49958613 AAATATTCTCTAGCATGAATAGT
1 AAATATTCTCTAGCATGAATAGT
* *
49958636 GAATATTTTCTA
1 AAATATTCTCTA
49958648 TAGTTTGTAT
Statistics
Matches: 85, Mismatches: 13, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
21 6 0.07
22 22 0.26
23 57 0.67
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (23 bp):
AAATATTCTCTAGCATGAATAGT
Found at i:49958905 original size:16 final size:15
Alignment explanation
Indices: 49958875--49958904 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
49958865 CTCGTTTCTC
*
49958875 CAAATTTTAAGTTTT
1 CAAAATTTAAGTTTT
49958890 CAAAATTTAAGTTTT
1 CAAAATTTAAGTTTT
49958905 TAAATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (15 bp):
CAAAATTTAAGTTTT
Found at i:49959509 original size:24 final size:25
Alignment explanation
Indices: 49959488--49959538 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
49959478 AACAAAAGGA
* *
49959488 AGGAGTTTGCCTATTCAAAAAGAAT
1 AGGAATTTACCTATTCAAAAAGAAT
*
49959513 ATGAATTTACCTATTCAAAAAGAAT
1 AGGAATTTACCTATTCAAAAAGAAT
49959538 A
1 A
49959539 TGAAACAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (25 bp):
AGGAATTTACCTATTCAAAAAGAAT
Found at i:49959549 original size:21 final size:23
Alignment explanation
Indices: 49959500--49959551 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
49959490 GAGTTTGCCT
*
49959500 ATTCAAAAAGAATATGAATTTACCT
1 ATTCAAAAAGAATATGAA--TACCA
49959525 ATTCAAAAAGAATATGAA-A-CA
1 ATTCAAAAAGAATATGAATACCA
49959546 ATTCAA
1 ATTCAA
49959552 TTATTAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 7 0.27
22 1 0.04
25 18 0.69
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.27
Consensus pattern (23 bp):
ATTCAAAAAGAATATGAATACCA
Found at i:49964098 original size:26 final size:24
Alignment explanation
Indices: 49964069--49964187 Score: 93
Period size: 26 Copynumber: 4.8 Consensus size: 24
49964059 GGACTCACCG
49964069 CAGCTCATATA-AGCTTACTGATTTAT
1 CAGCTCATA-AGAGCTTACTG-TTT-T
*
49964095 CAGCTCGTAAGAGCTTACTGTTTT
1 CAGCTCATAAGAGCTTACTGTTTT
* * *
49964119 CAGCTCGTCAGAGCTTACCG-TTT
1 CAGCTCATAAGAGCTTACTGTTTT
* *
49964142 CAGCTCA-ATAGAGCTTACTATCTAT
1 CAGCTCATA-AGAGCTTACTGT-TTT
49964167 CAGCTCA-AGAGGAGCTTACTG
1 CAGCTCATA-A-GAGCTTACTG
49964188 ATCATAGCTT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
23 18 0.23
24 19 0.24
25 15 0.19
26 26 0.33
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
CAGCTCATAAGAGCTTACTGTTTT
Found at i:49964121 original size:24 final size:24
Alignment explanation
Indices: 49964080--49964160 Score: 94
Period size: 24 Copynumber: 3.3 Consensus size: 24
49964070 AGCTCATATA
49964080 AGCTTACTGATTTATCAGCTCGTAAG
1 AGCTTACTG-TTT-TCAGCTCGTAAG
*
49964106 AGCTTACTGTTTTCAGCTCGTCAG
1 AGCTTACTGTTTTCAGCTCGTAAG
* *
49964130 AGCTTACCG-TTTCAGCTC-AATAG
1 AGCTTACTGTTTTCAGCTCGTA-AG
49964153 AGCTTACT
1 AGCTTACT
49964161 ATCTATCAGC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.37
24 19 0.39
25 3 0.06
26 9 0.18
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (24 bp):
AGCTTACTGTTTTCAGCTCGTAAG
Found at i:49964177 original size:23 final size:23
Alignment explanation
Indices: 49964080--49964177 Score: 74
Period size: 24 Copynumber: 4.1 Consensus size: 23
49964070 AGCTCATATA
49964080 AGCTTACTGATTTATCAGCTCGTAAG
1 AGCTTACT-A-TTATCAGCTCG-AAG
* * *
49964106 AGCTTACTGTTTTCAGCTCGTCAG
1 AGCTTACTATTATCAGCTCG-AAG
** *
49964130 AGCTTACCGTT-TCAGCTCAATAG
1 AGCTTACTATTATCAGCTCGA-AG
49964153 AGCTTACTATCTATCAGCTC-AAG
1 AGCTTACTAT-TATCAGCTCGAAG
49964176 AG
1 AG
49964178 GAGCTTACTG
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
23 21 0.34
24 25 0.41
25 7 0.11
26 8 0.13
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (23 bp):
AGCTTACTATTATCAGCTCGAAG
Found at i:49976144 original size:12 final size:12
Alignment explanation
Indices: 49976127--49976158 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
49976117 CCCTTAATTG
49976127 GCACACGGCCTA
1 GCACACGGCCTA
*
49976139 GCACACGGCCTG
1 GCACACGGCCTA
49976151 GCACACGG
1 GCACACGG
49976159 GCGTGTGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.22, C:0.41, G:0.31, T:0.06
Consensus pattern (12 bp):
GCACACGGCCTA
Found at i:49976859 original size:30 final size:30
Alignment explanation
Indices: 49976818--49976886 Score: 111
Period size: 30 Copynumber: 2.3 Consensus size: 30
49976808 ATAGGGTAAG
*
49976818 CCGTGTGTCACACACGACCTAGACAGACGC
1 CCGTGTGTCACACACGACCTAGACACACGC
* *
49976848 CCGTATGTCACATACGACCTAGACACACGC
1 CCGTGTGTCACACACGACCTAGACACACGC
49976878 CCGTGTGTC
1 CCGTGTGTC
49976887 TACCCGTATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.25, C:0.36, G:0.22, T:0.17
Consensus pattern (30 bp):
CCGTGTGTCACACACGACCTAGACACACGC
Found at i:49984191 original size:44 final size:44
Alignment explanation
Indices: 49984008--49984178 Score: 163
Period size: 43 Copynumber: 4.0 Consensus size: 44
49983998 AGCTTGTAAA
* * * * *
49984008 ATGCCAACATCCCAGACGAGGTCTTACATGTAATCAAATA-TCG
1 ATGCCAATATCCCAGACGTGGTCTTACACGAAATCACATATTCG
* * *
49984051 ATGCCACTATCCCAGACAG-GGTCTTACACGAAAT--CATATACA
1 ATGCCAATATCCCAGAC-GTGGTCTTACACGAAATCACATATTCG
* * * * *
49984093 ATGCCAATATCCCAAACATGGTCTTACACATAAATCTCAAATT-G
1 ATGCCAATATCCCAGACGTGGTCTTACAC-GAAATCACATATTCG
*
49984137 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACATATT
1 ATGCCAATATCCCAGACGTGGTCTTACACGAAATCACATATT
49984179 GGATTCCTAT
Statistics
Matches: 102, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
41 3 0.03
42 26 0.25
43 42 0.41
44 27 0.26
45 4 0.04
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (44 bp):
ATGCCAATATCCCAGACGTGGTCTTACACGAAATCACATATTCG
Found at i:49992793 original size:20 final size:20
Alignment explanation
Indices: 49992768--49992864 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
49992758 ACGAGATTTG
49992768 CACTTCGGTGCCCCTGTTTA
1 CACTTCGGTGCCCCTGTTTA
* * * **
49992788 CACTTCGATGTCCCTATTCG
1 CACTTCGGTGCCCCTGTTTA
* *
49992808 CACTACGGTGCCCCTGTTTG
1 CACTTCGGTGCCCCTGTTTA
* * *
49992828 CACATT-TGTGCCCCTATCTA
1 CAC-TTCGGTGCCCCTGTTTA
*
49992848 CACTTCGATGCCCCTGT
1 CACTTCGGTGCCCCTGT
49992865 CTGCACGTCA
Statistics
Matches: 57, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
19 2 0.04
20 54 0.95
21 1 0.02
ACGTcount: A:0.13, C:0.36, G:0.18, T:0.33
Consensus pattern (20 bp):
CACTTCGGTGCCCCTGTTTA
Found at i:49992843 original size:40 final size:40
Alignment explanation
Indices: 49992766--49992870 Score: 115
Period size: 40 Copynumber: 2.6 Consensus size: 40
49992756 GTACGAGATT
* *
49992766 TGCACTTCGGTGCCCCTGTTTACACTTCGATGTCCCTAT-
1 TGCACTTCGGTGCCCCTGTTTGCACTTCGATGCCCCTATC
* *
49992805 TCGCACTACGGTGCCCCTGTTTGCACATTTG-TGCCCCTATC
1 T-GCACTTCGGTGCCCCTGTTTGCAC-TTCGATGCCCCTATC
* * *
49992846 TACACTTCGATGCCCCTGTCTGCAC
1 TGCACTTCGGTGCCCCTGTTTGCAC
49992871 GTCAGTACCC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.02
40 50 0.91
41 4 0.07
ACGTcount: A:0.13, C:0.36, G:0.18, T:0.32
Consensus pattern (40 bp):
TGCACTTCGGTGCCCCTGTTTGCACTTCGATGCCCCTATC
Found at i:49992882 original size:60 final size:61
Alignment explanation
Indices: 49992775--49992890 Score: 139
Period size: 60 Copynumber: 1.9 Consensus size: 61
49992765 TTGCACTTCG
* * * * *
49992775 GTGCCCCTGTTTACACTTCGATGTCCCTATTCGCACTACGGTGCCCCTGTT-TGCACATTT
1 GTGCCCCTATCTACACTTCGATGCCCCTATTCGCACTACAGTACCCCTGTTATGCACATTT
*
49992835 GTGCCCCTATCTACACTTCGATGCCCCT-GTCTGCACGT-CAGTACCCCTGTTATGCA
1 GTGCCCCTATCTACACTTCGATGCCCCTATTC-GCAC-TACAGTACCCCTGTTATGCA
49992891 TTTATGATGC
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
59 2 0.04
60 40 0.85
61 5 0.11
ACGTcount: A:0.15, C:0.35, G:0.18, T:0.32
Consensus pattern (61 bp):
GTGCCCCTATCTACACTTCGATGCCCCTATTCGCACTACAGTACCCCTGTTATGCACATTT
Found at i:50008383 original size:58 final size:58
Alignment explanation
Indices: 50008313--50008428 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
50008303 AATTGGCCTT
50008313 GATACTTCAAATTACTATCAATTTTGTTCTTCTCGCAGTGTTCACCGGGCCCTTTTTC
1 GATACTTCAAATTACTATCAATTTTGTTCTTCTCGCAGTGTTCACCGGGCCCTTTTTC
* *
50008371 GATACTTCAAATTACTCTCGATTTTGTTCTTCTCGCAGTGTTCACCGGGCCCTTTTTC
1 GATACTTCAAATTACTATCAATTTTGTTCTTCTCGCAGTGTTCACCGGGCCCTTTTTC
50008429 TCCAATTGTG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.17, C:0.27, G:0.15, T:0.41
Consensus pattern (58 bp):
GATACTTCAAATTACTATCAATTTTGTTCTTCTCGCAGTGTTCACCGGGCCCTTTTTC
Found at i:50009426 original size:9 final size:9
Alignment explanation
Indices: 50009401--50009435 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
50009391 CTGGGCCTCG
*
50009401 ATGGGCCAA
1 ATGGGCCCA
50009410 ATGGGCCCA
1 ATGGGCCCA
*
50009419 ATGGGCCCC
1 ATGGGCCCA
50009428 ATGGGCCC
1 ATGGGCCC
50009436 GCTTGTGTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.20, C:0.34, G:0.34, T:0.11
Consensus pattern (9 bp):
ATGGGCCCA
Found at i:50010303 original size:27 final size:27
Alignment explanation
Indices: 50010271--50010322 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
50010261 CATCTGATAC
50010271 TGATTCT-GTAATGGGCTTAGGCCCACA
1 TGATTCTAGTAATGGGC-TAGGCCCACA
*
50010298 TGATTCTATTAATGGGCTAGGCCCA
1 TGATTCTAGTAATGGGCTAGGCCCA
50010323 TTGTTACTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (27 bp):
TGATTCTAGTAATGGGCTAGGCCCACA
Found at i:50011723 original size:25 final size:25
Alignment explanation
Indices: 50011695--50011749 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
50011685 ACACACACAT
50011695 TAAGCTATCATAGCTTAGTAAGTCA
1 TAAGCTATCATAGCTTAGTAAGTCA
50011720 TAAGCTATCATAGCTTAGTAAGTCA
1 TAAGCTATCATAGCTTAGTAAGTCA
50011745 TAAGC
1 TAAGC
50011750 AAACAAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.31
Consensus pattern (25 bp):
TAAGCTATCATAGCTTAGTAAGTCA
Found at i:50018821 original size:30 final size:30
Alignment explanation
Indices: 50018786--50018844 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
50018776 CTTAATAATT
50018786 AAATGTCTCTAAAATAATAACAAAATTAAC
1 AAATGTCTCTAAAATAATAACAAAATTAAC
*
50018816 AAATGTCTTTAAAATAATAACAAAATTAA
1 AAATGTCTCTAAAATAATAACAAAATTAA
50018845 TAAAAACATA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.58, C:0.10, G:0.03, T:0.29
Consensus pattern (30 bp):
AAATGTCTCTAAAATAATAACAAAATTAAC
Found at i:50018932 original size:22 final size:22
Alignment explanation
Indices: 50018885--50018932 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
50018875 CAATAACAAC
* *
50018885 AAAATAGTAGCAACATAATAGT
1 AAAATAGTAACAAAATAATAGT
*
50018907 AAAATGGTAACAAAATAGATAG-
1 AAAATAGTAACAAAATA-ATAGT
50018929 AAAA
1 AAAA
50018933 CAACAAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.60, C:0.06, G:0.15, T:0.19
Consensus pattern (22 bp):
AAAATAGTAACAAAATAATAGT
Found at i:50020371 original size:23 final size:23
Alignment explanation
Indices: 50020341--50020386 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50020331 AGTGCTGCCT
50020341 ATTTTTCTAAAAATTTAATTGTA
1 ATTTTTCTAAAAATTTAATTGTA
50020364 ATTTTTCTAAAAATTTAATTGTA
1 ATTTTTCTAAAAATTTAATTGTA
50020387 GTATATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (23 bp):
ATTTTTCTAAAAATTTAATTGTA
Found at i:50024041 original size:18 final size:18
Alignment explanation
Indices: 50024018--50024054 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
50024008 ACGGGAGAAA
50024018 AAATAATCTTTAAAGAGC
1 AAATAATCTTTAAAGAGC
50024036 AAATAATCTTTAAAGAGC
1 AAATAATCTTTAAAGAGC
50024054 A
1 A
50024055 TATATTTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.11, T:0.27
Consensus pattern (18 bp):
AAATAATCTTTAAAGAGC
Found at i:50024673 original size:29 final size:29
Alignment explanation
Indices: 50024631--50024688 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
50024621 CTATATTATT
50024631 TAATTTTAAATGAAGATATAATGGATGTA
1 TAATTTTAAATGAAGATATAATGGATGTA
50024660 TAATTTTAAATGAAGATATAATGGATGTA
1 TAATTTTAAATGAAGATATAATGGATGTA
50024689 CGGAAGCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.00, G:0.17, T:0.38
Consensus pattern (29 bp):
TAATTTTAAATGAAGATATAATGGATGTA
Found at i:50036437 original size:36 final size:37
Alignment explanation
Indices: 50036390--50036461 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 37
50036380 CATGGCTCTT
50036390 GGCTCCCTCGGACTCATCTCGAGCTTG-ATCGGAAGC
1 GGCTCCCTCGGACTCATCTCGAGCTTGAATCGGAAGC
* * *
50036426 GGCTCCCTCGGACTCCTCTTGGGCTTGAATCGGAAG
1 GGCTCCCTCGGACTCATCTCGAGCTTGAATCGGAAG
50036462 ACATTACTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 24 0.75
37 8 0.25
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (37 bp):
GGCTCCCTCGGACTCATCTCGAGCTTGAATCGGAAGC
Found at i:50045401 original size:40 final size:40
Alignment explanation
Indices: 50045324--50045500 Score: 252
Period size: 40 Copynumber: 4.5 Consensus size: 40
50045314 AAACCAAGTA
* *
50045324 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
50045363 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
50045403 CCTTCGGGACCTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
50045443 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
50045483 CCCTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
50045501 ATTATCATAC
Statistics
Matches: 126, Mismatches: 9, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
39 15 0.12
40 111 0.88
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:50049426 original size:59 final size:60
Alignment explanation
Indices: 50049295--50049428 Score: 164
Period size: 59 Copynumber: 2.2 Consensus size: 60
50049285 TATTTTATTA
* * *
50049295 TATATAAATATATAATACATGCATGCTTTGATTGGTTTAATGCATGTTGTAGTTTCGTATG
1 TATAT-AATATATAATACATACATGCTTTGATTGGTTTAATGCATGTTGAAGTTTCGAATG
* * * *
50049356 TATA-AATATATAATATATACATGCTTTGATTGGTTTAATGCATGTT-AATTTTGGAAATT
1 TATATAATATATAATACATACATGCTTTGATTGGTTTAATGCATGTTGAAGTTTCG-AATG
50049415 TATATAAATATATA
1 TATAT-AATATATA
50049429 TGATTATCTT
Statistics
Matches: 63, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
58 5 0.08
59 46 0.73
61 12 0.19
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.45
Consensus pattern (60 bp):
TATATAATATATAATACATACATGCTTTGATTGGTTTAATGCATGTTGAAGTTTCGAATG
Found at i:50067931 original size:13 final size:13
Alignment explanation
Indices: 50067913--50067937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
50067903 GAAACTTATC
50067913 TGTAAATAATTTG
1 TGTAAATAATTTG
50067926 TGTAAATAATTT
1 TGTAAATAATTT
50067938 ACCCTACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TGTAAATAATTTG
Found at i:50077328 original size:20 final size:20
Alignment explanation
Indices: 50077305--50077350 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
50077295 CTCATCTGTT
* *
50077305 TAAACAGTACTTCATCCATA
1 TAAACAATAATTCATCCATA
*
50077325 TAAACAATAATTCATCCGTA
1 TAAACAATAATTCATCCATA
50077345 TAAACA
1 TAAACA
50077351 CATAGCTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TAAACAATAATTCATCCATA
Found at i:50077512 original size:25 final size:25
Alignment explanation
Indices: 50077476--50077529 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 25
50077466 TATCATTTCC
*
50077476 GCTCTTTCGAGCT-AT-GATCAGTAA
1 GCTCCTTCGAGCTGATGGA-CAGTAA
50077500 GCTCCTTCTGAGCTGATGGACAGTAA
1 GCTCCTTC-GAGCTGATGGACAGTAA
50077526 GCTC
1 GCTC
50077530 TATTGAGCTG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 12 0.46
27 2 0.08
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (25 bp):
GCTCCTTCGAGCTGATGGACAGTAA
Found at i:50086361 original size:40 final size:40
Alignment explanation
Indices: 50086291--50086505 Score: 301
Period size: 40 Copynumber: 5.4 Consensus size: 40
50086281 AAACCAAGTA
** * *
50086291 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* *
50086330 CCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
50086370 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGTACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
50086410 CCTTCGGGACTTGGCCCGGTTATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
50086450 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
50086490 CCTTCGGG-CTTAGCCC
1 CCTTCGGGACTTAGCCC
50086506 NNNNNNNNNN
Statistics
Matches: 159, Mismatches: 15, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
39 20 0.13
40 139 0.87
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:50087008 original size:39 final size:39
Alignment explanation
Indices: 50086954--50087030 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
50086944 GGAAAATCAC
*
50086954 TAAAAATAGTAGGAAGGGAATTAAATAGTGAATAAATTT
1 TAAAAATAGTAGGAAGGAAATTAAATAGTGAATAAATTT
50086993 TAAAAATAGTAGGAAGGAAATTAAATAGTGAATAAATT
1 TAAAAATAGTAGGAAGGAAATTAAATAGTGAATAAATT
50087031 ATGTAAACGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.53, C:0.00, G:0.19, T:0.27
Consensus pattern (39 bp):
TAAAAATAGTAGGAAGGAAATTAAATAGTGAATAAATTT
Found at i:50087020 original size:19 final size:19
Alignment explanation
Indices: 50086957--50087021 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
50086947 AAATCACTAA
*
50086957 AAATAGTAGGAAGGGAATT
1 AAATAGTAGGAAGGAAATT
*
50086976 AAATAGT--GAA-TAAATTTT
1 AAATAGTAGGAAGGAAA--TT
50086994 AAAAATAGTAGGAAGGAAATT
1 --AAATAGTAGGAAGGAAATT
50087015 AAATAGT
1 AAATAGT
50087022 GAATAAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 14
0.68 0.06 0.26
Matches are distributed among these distances:
16 2 0.06
17 3 0.08
18 2 0.06
19 14 0.39
20 7 0.19
21 2 0.06
22 3 0.08
23 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (19 bp):
AAATAGTAGGAAGGAAATT
Found at i:50109292 original size:40 final size:40
Alignment explanation
Indices: 50109248--50109472 Score: 230
Period size: 40 Copynumber: 5.6 Consensus size: 40
50109238 GCTCCTCGTT
*
50109248 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
* *
50109288 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCA
*
50109328 CAAATGCCTTCGGGACTTAGCCCGG-AATTAGT-ATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCA
*
50109368 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGG-TTATAGTAAT-TCGCA
* * * * * * *
50109408 CAAATGCCTTCGGGTCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGT-AATTCGCA
50109449 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
50109473 ACATCATTCA
Statistics
Matches: 157, Mismatches: 17, Indels: 22
0.80 0.09 0.11
Matches are distributed among these distances:
39 5 0.03
40 139 0.89
41 12 0.08
42 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCA
Found at i:50109349 original size:80 final size:79
Alignment explanation
Indices: 50109248--50109473 Score: 278
Period size: 80 Copynumber: 2.8 Consensus size: 79
50109238 GCTCCTCGTT
* *
50109248 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
50109313 ATTTAGTAACTCGCA
65 ATTTAGTAACTCGCA
* *
50109328 CAAATGCCTTCGGGACTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAGCCC
*
50109391 GGATTTAGTATCTCGCA
63 GGATTTAGTAACTCGCA
* * * * * *
50109408 CAAATGCCTTCGGGTCTTAGTCTGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
50109472 GA
64 GA
50109474 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 14
0.82 0.08 0.09
Matches are distributed among these distances:
79 6 0.05
80 107 0.85
81 12 0.10
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGA
TTTAGTAACTCGCA
Found at i:50109457 original size:120 final size:120
Alignment explanation
Indices: 50109248--50109473 Score: 298
Period size: 120 Copynumber: 1.9 Consensus size: 120
50109238 GCTCCTCGTT
50109248 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
50109313 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
66 ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * * **
50109368 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGT-ATCTCGCACAAATGCCTTCGGGTCTTAGTC
1 CAAATGCCTTCGGGA-CATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACC
* * *
50109430 TGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
63 CGGATATAGTAAC-TAGCACAAATGCCTTCGGGACTTAGCCCGGA
50109474 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
119 5 0.05
120 77 0.84
121 10 0.11
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.27
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:50112462 original size:48 final size:48
Alignment explanation
Indices: 50112391--50112485 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
50112381 AACAATCATC
*
50112391 GTCATCAATTTGAAACTCCGATTCCTTGTTCGGAGCACACTCAGCCCG
1 GTCATCAATTTGAAACTCCGATTCCTTGTTCGGAACACACTCAGCCCG
50112439 GTCATCAATTTGAAACTCCGATTCCTTGTTCGGAACACACTCAGCCC
1 GTCATCAATTTGAAACTCCGATTCCTTGTTCGGAACACACTCAGCCC
50112486 ATTTTGCAAC
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (48 bp):
GTCATCAATTTGAAACTCCGATTCCTTGTTCGGAACACACTCAGCCCG
Found at i:50117216 original size:79 final size:78
Alignment explanation
Indices: 50117114--50117337 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 78
50117104 GCTCCTCGTT
* *
50117114 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
50117179 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
*
50117194 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAAT-TCGCACAAATGCCTTCGGGACTTAGCCCGG
*
50117257 AATTAGTATCTCGCA
64 AATTAGTAACTCGCA
* * * * *
50117272 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGT-AATTCGCACAAATGCCTTCGGGACTTAGCCCG
50117336 GA
63 GA
50117338 CATCATTCAA
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
78 38 0.30
79 53 0.42
80 34 0.27
81 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAATTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:50117231 original size:39 final size:40
Alignment explanation
Indices: 50117114--50117337 Score: 275
Period size: 40 Copynumber: 5.7 Consensus size: 40
50117104 GCTCCTCGTT
* *
50117114 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
50117154 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
50117194 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
50117233 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
50117272 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
50117313 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
50117338 CATCATTCAA
Statistics
Matches: 167, Mismatches: 9, Indels: 16
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.01
39 73 0.44
40 75 0.45
41 17 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:50123416 original size:34 final size:34
Alignment explanation
Indices: 50123351--50123416 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 34
50123341 TGATTGTATT
* * * * *
50123351 ACTGTTACTGTTAGTGTATTGGGCTAAGACCCAC
1 ACTGATACTGATACTGTAATGGACTAAGACCCAC
*
50123385 ACTGATACTGATACTGTAATGGACTACGACCC
1 ACTGATACTGATACTGTAATGGACTAAGACCC
50123417 TAACTAATAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (34 bp):
ACTGATACTGATACTGTAATGGACTAAGACCCAC
Found at i:50126517 original size:93 final size:93
Alignment explanation
Indices: 50126403--50126574 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
50126393 CGCCCATAAG
* * *
50126403 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTAAACTCGGACACAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACACAACTCA
50126468 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * *
50126496 CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACACAACTCA
50126561 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
50126575 TCAACCATCC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTAAACTCGGACACAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:50126571 original size:46 final size:46
Alignment explanation
Indices: 50126396--50126571 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
50126386 TGTAACCCGC
* * *
50126396 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
** * *
50126442 CCATAAGTAAACTCGGACACAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
50126492 -C-TCA-CGAACTCGAACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
50126535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
50126572 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:50128659 original size:44 final size:44
Alignment explanation
Indices: 50128591--50128745 Score: 142
Period size: 44 Copynumber: 3.6 Consensus size: 44
50128581 CATAGGGTTC
* * *
50128591 CGATATGTGATTTATGTGTAAGACCACGTCTAGGACGTTGGCAT
1 CGATATGTGATTTAAGTGTAAGACCACGTCTAGGACATCGGCAT
* *
50128635 CGATTTGTGATTTAAGTGTAAGACCATGTCTAGGACATCGGCAT
1 CGATATGTGATTTAAGTGTAAGACCACGTCTAGGACATCGGCAT
* * * * * *
50128679 CG-TATATAAGTT-CGTGTAAGACC-CTGTCTGGGACAGT-GGAAT
1 CGATATGTGATTTAAGTGTAAGACCAC-GTCTAGGACA-TCGGCAT
50128721 CGATATGTGA-TTACA-TGTAAGACCA
1 CGATATGTGATTTA-AGTGTAAGACCA
50128746 TATTTAGGAC
Statistics
Matches: 89, Mismatches: 16, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
42 27 0.30
43 21 0.24
44 41 0.46
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (44 bp):
CGATATGTGATTTAAGTGTAAGACCACGTCTAGGACATCGGCAT
Found at i:50134741 original size:41 final size:40
Alignment explanation
Indices: 50134650--50134787 Score: 127
Period size: 41 Copynumber: 3.4 Consensus size: 40
50134640 GCACCAAAGC
* * *
50134650 ATAGCTGAAGCTAT-TATAGTCTCGCACACTAAGTGCCTTT
1 ATAGCCGAAGCTATCTA-GGTCTCGCACACTAAGTGCCTAT
* *
50134690 CATAGACGAAGCTATCTAGGTCTAGCACACTAAGTGCCATAT
1 -ATAGCCGAAGCTATCTAGGTCTCGCACACTAAGTGCC-TAT
* * * * * *
50134732 ATAGCCGAAGGTATTTCGAT-TCGCAAACTAAGTGCTTTAT
1 ATAGCCGAAGCTATCTAGGTCTCGCACACTAAGTGC-CTAT
50134772 ATAGCCGAAGCTATCT
1 ATAGCCGAAGCTATCT
50134788 CTATACGCAC
Statistics
Matches: 79, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
40 30 0.38
41 45 0.57
42 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTAGGTCTCGCACACTAAGTGCCTAT
Found at i:50134773 original size:40 final size:40
Alignment explanation
Indices: 50134718--50134804 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
50134708 GGTCTAGCAC
* * *
50134718 ACTAAGTGCCATATATAGCCGAAGGTATTTCGATTCGCAA
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCGATACGCAA
** * *
50134758 ACTAAGTGCTTTATATAGCCGAAGCTATCTCTATACGCAC
1 ACTAAGTGCCATATATAGCCGAAGCTATCTCGATACGCAA
50134798 ACTAAGT
1 ACTAAGT
50134805 ACCAAACATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (40 bp):
ACTAAGTGCCATATATAGCCGAAGCTATCTCGATACGCAA
Found at i:50158324 original size:43 final size:43
Alignment explanation
Indices: 50158260--50158374 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 43
50158250 CAATACCATA
* *
50158260 CAATGCC-ATATCCCAGATATGGTCTTACATGTAA-TCTCGTAT
1 CAATGCCAATAGCCCAGATATGGTCTTACACG-AAGTCTCGTAT
*
50158302 CAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCGTAT
1 CAATGCCAATAGCCCAGATATGGTCTTACACGAAGTCTCGTAT
* * * *
50158345 CGATGCC-ATATCCTAAATATGGTCTTACAC
1 CAATGCCAATAGCCCAGATATGGTCTTACAC
50158375 ATAATCTTAG
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 28 0.44
43 35 0.56
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (43 bp):
CAATGCCAATAGCCCAGATATGGTCTTACACGAAGTCTCGTAT
Found at i:50175174 original size:21 final size:20
Alignment explanation
Indices: 50175146--50175185 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
50175136 CAAAACTTGT
50175146 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
*
50175166 ATAATCTATCATCAATCATT
1 ATAA-CTATCATCAAACATT
50175186 AAAATACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:50175852 original size:32 final size:31
Alignment explanation
Indices: 50175816--50175877 Score: 88
Period size: 32 Copynumber: 2.0 Consensus size: 31
50175806 TGTGCAAGAT
* *
50175816 GAATTTGCTTTTGTTTACTCCCATCTTTTTTA
1 GAATTTGCTTCTATTTACTCCCAT-TTTTTTA
*
50175848 GAATTTTCTTCTATTTACTCCCATTTTTTT
1 GAATTTGCTTCTATTTACTCCCATTTTTTT
50175878 GTTTCACTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.16, C:0.19, G:0.06, T:0.58
Consensus pattern (31 bp):
GAATTTGCTTCTATTTACTCCCATTTTTTTA
Found at i:50185737 original size:197 final size:199
Alignment explanation
Indices: 50185398--50185795 Score: 755
Period size: 197 Copynumber: 2.0 Consensus size: 199
50185388 ATACACAAAA
50185398 AAAAAGTGTGTAGTTGATTCTTTCCCCCCCCCCCAATTGCCGTGAGCTAAAGAAAAGAGAGGAGA
1 AAAAAGTGTGTAGTTGATTCTTT--CCCCCCCCCAATTGCCGTGAGCTAAAGAAAAGAGAGGAGA
50185463 AGATCTTTGTTCATCCTTTTCTCACCTTCATTTAGCCTAAATTAGAAAGAAAAACAAAGAAAAAA
64 AGATCTTTGTTCATCCTTTTCTCACCTTCATTTAGCCTAAATTAGAAAGAAAAACAAAGAAAAAA
50185528 ATTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAG
129 ATTTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAG
50185593 AGATTC
194 AGATTC
*
50185599 AAAAAGTGTGTAGTTGATTCTTT-TCCCCCCC-ATTGCCGTGAGCTAAAGAAAAGAGAGGAGAAG
1 AAAAAGTGTGTAGTTGATTCTTTCCCCCCCCCAATTGCCGTGAGCTAAAGAAAAGAGAGGAGAAG
50185662 ATCTTTGTTCATCCTTTTCTCACCTTCATTTAGCCTAAATTAGAAAGAAAAACAAAGAAAAAAAT
66 ATCTTTGTTCATCCTTTTCTCACCTTCATTTAGCCTAAATTAGAAAGAAAAACAAAGAAAAAAAT
50185727 TTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAG
131 TTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAG
50185792 ATTC
196 ATTC
50185796 GGCCATGCAT
Statistics
Matches: 196, Mismatches: 1, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
197 166 0.85
198 7 0.04
201 23 0.12
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (199 bp):
AAAAAGTGTGTAGTTGATTCTTTCCCCCCCCCAATTGCCGTGAGCTAAAGAAAAGAGAGGAGAAG
ATCTTTGTTCATCCTTTTCTCACCTTCATTTAGCCTAAATTAGAAAGAAAAACAAAGAAAAAAAT
TTCTCATCCTTTGGTTCATCCTTGGCCAAAAATTTTAAGGAGGAAAGAAGAAGAAAGGTGAAGAG
ATTC
Found at i:50186850 original size:80 final size:79
Alignment explanation
Indices: 50186766--50186937 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
50186756 GGACTAAGAT
*
50186766 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
50186830 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
50186846 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
50186911 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
50186925 CCGAAGGCATTTG
1 CCGAAGGCATTTG
50186938 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:50186917 original size:39 final size:39
Alignment explanation
Indices: 50186713--50186935 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
50186703 TTGAATGCTG
* * * * *
50186713 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
50186753 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
50186792 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
50186833 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
50186873 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
50186912 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
50186936 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:50186955 original size:79 final size:80
Alignment explanation
Indices: 50186793--50186970 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
50186783 AGATACAAAT
* * * *
50186793 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
50186858 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
50186873 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
50186937 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
50186952 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
50186971 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:50190658 original size:51 final size:51
Alignment explanation
Indices: 50190579--50190678 Score: 137
Period size: 51 Copynumber: 2.0 Consensus size: 51
50190569 CGATCAATTA
* * * * **
50190579 AAGGGAGCATCGGTGTTTTCTAAGATAGATTTGAGATCGGGTTATTATCTG
1 AAGGGAGCATCAGTGTTCTCAAAAATAGATTTGAGATCGGACTATTATCTG
*
50190630 AAGGGAGCCTCAGTGTTCTCAAAAATAGATTTGAGATCGGACTATTATC
1 AAGGGAGCATCAGTGTTCTCAAAAATAGATTTGAGATCGGACTATTATC
50190679 AGTTGCGAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (51 bp):
AAGGGAGCATCAGTGTTCTCAAAAATAGATTTGAGATCGGACTATTATCTG
Found at i:50194779 original size:40 final size:40
Alignment explanation
Indices: 50194748--50194997 Score: 292
Period size: 40 Copynumber: 6.3 Consensus size: 40
50194738 GGACTAAGAT
* *
50194748 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATATCAAA-TCCGGGTTAAGTC
* *
50194788 CCGAAGGCCTTTGTGCGAGATA-CTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATC-AAATCCGGGTTAAGTC
* *
50194828 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* *
50194868 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* * * *
50194908 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
* * * * *
50194948 CCGAAGGCATT-GTGTGAGTTA-CTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATATC-AAATCCGGGTTAAGTC
50194987 CCGAAGGCATT
1 CCGAAGGCATT
50194998 TGAACGAGGA
Statistics
Matches: 194, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
39 33 0.17
40 158 0.81
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATATCAAATCCGGGTTAAGTC
Found at i:50194832 original size:80 final size:79
Alignment explanation
Indices: 50194695--50194997 Score: 342
Period size: 80 Copynumber: 3.8 Consensus size: 79
50194685 TTGAATGCTG
* * * * * **
50194695 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
50194758 TTGTGCGAGATACAAA
64 TCGTGCGAGTTATAAA
* *
50194774 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
50194839 CGTGCGAGTTATTAAA
65 CGTGCGAGTTA-TAAA
* * *
50194855 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
*
50194920 GTGCGAGTTGTTAAA
66 GTGCGAGTT-ATAAA
* * * * * *
50194935 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATT
50194998 TGAACGAGGA
Statistics
Matches: 192, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
79 36 0.19
80 145 0.76
81 11 0.06
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATAAA
Found at i:50194911 original size:120 final size:119
Alignment explanation
Indices: 50194695--50194997 Score: 358
Period size: 120 Copynumber: 2.5 Consensus size: 119
50194685 TTGAATGCTG
* * * * * *
50194695 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
* * *
50194759 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
64 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* *
50194815 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* * * * **
50194880 GTGCGAGTTATTAAA-TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
* * * * *
50194935 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATT
50194998 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
119 35 0.22
120 115 0.73
121 7 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTCGTGCGAGATACTAAA
Found at i:50195419 original size:31 final size:31
Alignment explanation
Indices: 50195381--50195560 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
50195371 ACAAATGACA
*
50195381 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
50195412 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
50195443 AGTGAAAAGTGGTAG-TTCTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
50195474 AGTGAAAAGTGGTAGCTCCGGCTACCTAATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
50195505 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
50195536 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
50195561 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 3 0.02
31 132 0.96
32 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:50195571 original size:7 final size:7
Alignment explanation
Indices: 50195559--50195587 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
50195549 AGCTTCAGCT
50195559 ACAAGTG
1 ACAAGTG
50195566 ACAAGTG
1 ACAAGTG
50195573 ACAAGTG
1 ACAAGTG
50195580 ACAAGTG
1 ACAAGTG
50195587 A
1 A
50195588 TTTCCGTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.14, G:0.28, T:0.14
Consensus pattern (7 bp):
ACAAGTG
Found at i:50199281 original size:40 final size:40
Alignment explanation
Indices: 50199217--50199354 Score: 141
Period size: 40 Copynumber: 3.5 Consensus size: 40
50199207 CTTTTCAGGT
* * * *
50199217 CAAATCCTATTCGCCTTAAGTTACCACAGTGAATTAGGAA
1 CAAATCCTATTCACTTTAAATTACCACAGTGAATCAGGAA
* *
50199257 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 CAAATCCTATTCACTTTAAATTACCACAGTGAATCAGGAA
* * ** ** *
50199297 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAGGAA
1 CAAATCCTATTCACTTTAAATTACCACAGTGAATCAGGAA
* *
50199337 CGAATCCTATCCACTTTA
1 CAAATCCTATTCACTTTA
50199355 TATTCTCGAG
Statistics
Matches: 83, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.30
Consensus pattern (40 bp):
CAAATCCTATTCACTTTAAATTACCACAGTGAATCAGGAA
Found at i:50201804 original size:22 final size:22
Alignment explanation
Indices: 50201779--50201822 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
50201769 TGGTATCTAG
*
50201779 TAAGAATTTGCCTGTTGGGTTT
1 TAAGAATTTGCCTGTTGAGTTT
*
50201801 TAAGAATTTTCCTGTTGAGTTT
1 TAAGAATTTGCCTGTTGAGTTT
50201823 ATTGTGTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.09, G:0.23, T:0.48
Consensus pattern (22 bp):
TAAGAATTTGCCTGTTGAGTTT
Found at i:50209499 original size:21 final size:21
Alignment explanation
Indices: 50209465--50209510 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
50209455 CTAAGATGTG
*
50209465 AATTGGATTGAATTGA-GTTTA
1 AATTGGATTAAATTGATG-TTA
*
50209486 AATTGTATTAAATTGATGTTA
1 AATTGGATTAAATTGATGTTA
50209507 AATT
1 AATT
50209511 TACTCGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.46
Consensus pattern (21 bp):
AATTGGATTAAATTGATGTTA
Found at i:50209748 original size:19 final size:18
Alignment explanation
Indices: 50209720--50209771 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
50209710 ATCCGACAAA
50209720 GCCC-AATAAATGATAAT
1 GCCCGAATAAATGATAAT
*
50209737 GCCTGAAATAAATGATAAT
1 GCCCG-AATAAATGATAAT
50209756 GCCCG-ATAAATGATAA
1 GCCCGAATAAATGATAA
50209772 ATGATAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 14 0.45
19 17 0.55
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.23
Consensus pattern (18 bp):
GCCCGAATAAATGATAAT
Found at i:50215609 original size:45 final size:45
Alignment explanation
Indices: 50215524--50215690 Score: 176
Period size: 45 Copynumber: 3.7 Consensus size: 45
50215514 CGAACAGAAA
* * ** *
50215524 CAAACATAGCCTCCAAACACAACC-AATTTACGTTCAAAACACAAC
1 CAAACATAGCCTCC-AATACAACCAAATATACCATCCAAACACAAC
* *
50215569 CAAACATACCCTCCAATACAACCAAATATACCCTCCAAACACAAC
1 CAAACATAGCCTCCAATACAACCAAATATACCATCCAAACACAAC
* * * *
50215614 CAAATATAGCCTCCCAATACAACGAAATATATCATCCAAACATAAC
1 CAAACATAGCCT-CCAATACAACCAAATATACCATCCAAACACAAC
* *
50215660 CAAATATAGCCTCCCA-ACACACCAAATATAC
1 CAAACATAGCCTCCAATACA-ACCAAATATAC
50215691 AACCAAATAT
Statistics
Matches: 104, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
44 11 0.11
45 52 0.50
46 41 0.39
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (45 bp):
CAAACATAGCCTCCAATACAACCAAATATACCATCCAAACACAAC
Found at i:50215616 original size:23 final size:23
Alignment explanation
Indices: 50215524--50215690 Score: 160
Period size: 23 Copynumber: 7.4 Consensus size: 23
50215514 CGAACAGAAA
* *
50215524 CAAACATAGCCTCCAAACACAAC
1 CAAATATACCCTCCAAACACAAC
* ** *
50215547 C-AATTTACGTTCAAAACACAAC
1 CAAATATACCCTCCAAACACAAC
* *
50215569 CAAACATACCCTCC-AATACAAC
1 CAAATATACCCTCCAAACACAAC
50215591 CAAATATACCCTCCAAACACAAC
1 CAAATATACCCTCCAAACACAAC
* * *
50215614 CAAATATAGCCTCCCAATACAAC
1 CAAATATACCCTCCAAACACAAC
* * * *
50215637 GAAATATATCATCCAAACATAAC
1 CAAATATACCCTCCAAACACAAC
* *
50215660 CAAATATAGCCTCCCAACAC-AC
1 CAAATATACCCTCCAAACACAAC
50215682 CAAATATAC
1 CAAATATAC
50215691 AACCAAATAT
Statistics
Matches: 113, Mismatches: 29, Indels: 5
0.77 0.20 0.03
Matches are distributed among these distances:
22 46 0.41
23 67 0.59
ACGTcount: A:0.47, C:0.34, G:0.03, T:0.16
Consensus pattern (23 bp):
CAAATATACCCTCCAAACACAAC
Found at i:50215652 original size:46 final size:45
Alignment explanation
Indices: 50215524--50215697 Score: 183
Period size: 46 Copynumber: 3.9 Consensus size: 45
50215514 CGAACAGAAA
* * * * * *
50215524 CAAACATAGCCTCCAAACACAACC-AATTTACGTTCAAAACACAAC
1 CAAATATAGCCTCCCAATACAACCAAATATAC-ATCCAAACACAAC
* * *
50215569 CAAACATACCCT-CCAATACAACCAAATATACCCTCCAAACACAAC
1 CAAATATAGCCTCCCAATACAACCAAATATA-CATCCAAACACAAC
* *
50215614 CAAATATAGCCTCCCAATACAACGAAATATATCATCCAAACATAAC
1 CAAATATAGCCTCCCAATACAACCAAATATA-CATCCAAACACAAC
* *
50215660 CAAATATAGCCTCCCAACAC-ACCAAATATACAACCAAA
1 CAAATATAGCCTCCCAATACAACCAAATATACATCCAAA
50215698 TATATCCTCC
Statistics
Matches: 111, Mismatches: 15, Indels: 7
0.83 0.11 0.05
Matches are distributed among these distances:
44 16 0.14
45 46 0.41
46 49 0.44
ACGTcount: A:0.48, C:0.34, G:0.03, T:0.16
Consensus pattern (45 bp):
CAAATATAGCCTCCCAATACAACCAAATATACATCCAAACACAAC
Found at i:50215685 original size:32 final size:33
Alignment explanation
Indices: 50215649--50215714 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 33
50215639 AATATATCAT
*
50215649 CCAAACAT-AACCAAATATAGCCTCCCAACACA
1 CCAAACATAAACCAAATATAGCCTCCAAACACA
* *
50215681 CCAAATATACAACCAAATATATCCTCCAAACACA
1 CCAAACATA-AACCAAATATAGCCTCCAAACACA
50215715 ACCACTTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 7 0.24
34 22 0.76
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.15
Consensus pattern (33 bp):
CCAAACATAAACCAAATATAGCCTCCAAACACA
Found at i:50216915 original size:16 final size:16
Alignment explanation
Indices: 50216894--50216943 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
50216884 TTATAAATTA
50216894 TTAGAAGCTCAATCGG
1 TTAGAAGCTCAATCGG
* * *
50216910 TTAGAAACTTAGTCGG
1 TTAGAAGCTCAATCGG
*
50216926 TTGGAAGCTCAATCGG
1 TTAGAAGCTCAATCGG
50216942 TT
1 TT
50216944 TGAATATAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (16 bp):
TTAGAAGCTCAATCGG
Found at i:50223224 original size:16 final size:16
Alignment explanation
Indices: 50223203--50223234 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
50223193 CTGATGTTGG
50223203 ATATACCATAATCTAT
1 ATATACCATAATCTAT
50223219 ATATACCATAATCTAT
1 ATATACCATAATCTAT
50223235 GTAGAGGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATACCATAATCTAT
Found at i:50234154 original size:47 final size:46
Alignment explanation
Indices: 50234086--50234205 Score: 143
Period size: 47 Copynumber: 2.6 Consensus size: 46
50234076 TGTGTGCTAG
* * *
50234086 TGAAAGACATGTCTGGAACATGCATCAGCCA-TATTATGAGAGCCAA
1 TGAAAGACATGTCTGGGACATGCATCAG-CATTAATACGAGAGCCAA
* *
50234132 TGAAAGACCATGTCTGGGACATGGCATCAGCATTAATACGAGAGCTAG
1 TGAAAGA-CATGTCTGGGACAT-GCATCAGCATTAATACGAGAGCCAA
* *
50234180 TGTAAGACATGTCTGAGACATGCATC
1 TGAAAGACATGTCTGGGACATGCATC
50234206 GGCCTCGAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
46 12 0.19
47 28 0.44
48 24 0.38
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (46 bp):
TGAAAGACATGTCTGGGACATGCATCAGCATTAATACGAGAGCCAA
Found at i:50234261 original size:46 final size:44
Alignment explanation
Indices: 50234178--50234292 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
50234168 TACGAGAGCT
* * *
50234178 AGTGTAAGACATGTCTGAGACATGCATCGGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGAGGT--GCC
* *
50234224 AGTGTAAGACATGTTTGGGACATGCATC-GACTACGAGAGGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGACT-CGAGAGGTGCC
*
50234268 AGTATAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
50234293 GCATTGGCAC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 10 0.17
45 17 0.28
46 33 0.55
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGACTCGAGAGGTGCC
Found at i:50241989 original size:15 final size:15
Alignment explanation
Indices: 50241969--50241999 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
50241959 TAAAATAAAA
50241969 TCAAATGGGTCATCT
1 TCAAATGGGTCATCT
50241984 TCAAATGGGTCATCT
1 TCAAATGGGTCATCT
50241999 T
1 T
50242000 TCTTCTCCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (15 bp):
TCAAATGGGTCATCT
Found at i:50242969 original size:45 final size:46
Alignment explanation
Indices: 50242870--50242988 Score: 143
Period size: 45 Copynumber: 2.6 Consensus size: 46
50242860 TATGAGGGAA
* * * * *
50242870 AGTGTAAGACCATGTCTGGGACATGGATAGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTTTGGGACATGCATAGGCATCGAGATGAGAACC
*
50242917 AGTGTAAGACATGTTTGGGACATGCAT-GGCCTCGAGATGTA-AACC
1 AGTGTAAGACATGTTTGGGACATGCATAGGCATCGAGATG-AGAACC
*
50242962 AGTGTAAGACATGTTTGGAACATGCAT
1 AGTGTAAGACATGTTTGGGACATGCAT
50242989 CGGCTACAAG
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
45 38 0.59
46 17 0.27
47 9 0.14
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTTTGGGACATGCATAGGCATCGAGATGAGAACC
Found at i:50243020 original size:45 final size:44
Alignment explanation
Indices: 50242917--50243038 Score: 131
Period size: 45 Copynumber: 2.7 Consensus size: 44
50242907 GATGAGAGCT
*
50242917 AGTGTAAGACATGTTTGGGACATGCAT-GGCCTCGAGATGTAAACC
1 AGTGTAAGACATGTTTGGGACATGCATCGG-CTCAAGATGT-AACC
* **
50242962 AGTGTAAGACATGTTTGGAACATGCATCGGCTACAAGATGT-GTC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCT-CAAGATGTAACC
**
50243006 AGTGTAAGACCATGTCGGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGC
50243039 ATGTATAGAG
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
44 10 0.15
45 39 0.59
46 17 0.26
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCTCAAGATGTAACC
Found at i:50252274 original size:40 final size:39
Alignment explanation
Indices: 50252180--50252354 Score: 190
Period size: 40 Copynumber: 4.4 Consensus size: 39
50252170 TATTCGAATG
*
50252180 ATATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGTCC-GAAGGCATTTGTGCTA-GTGACT
* * * *
50252221 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAG-TGACT
* * *
50252261 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAG-TCCGAAGGCATTTGTGCTAGTGACT
* *
50252301 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGT-CCGAAGGCATTTGTGCTAGTGACT
*
50252341 ACATCCGGGCTAAG
1 ATATCCGGGCTAAG
50252355 ACCCAAAGGC
Statistics
Matches: 112, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 81 0.72
41 27 0.24
42 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCGAAGGCATTTGTGCTAGTGACT
Found at i:50252355 original size:80 final size:81
Alignment explanation
Indices: 50252182--50252364 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 81
50252172 TTCGAATGAT
* * * *
50252182 ATCCGGGCTAAGTCCTGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGCAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
* * *
50252247 TCGTGCGAGTTGCTAT
66 TCATGCGAGTTGCCAC
* * *
50252263 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGATTATATCCGGGCTAAG-TCCCGAAGGCA
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGGCA
* *
50252326 TTTATGCTAG-TGACCAC
65 TTCATGCGAGTTG-CCAC
*
50252343 ATCCGGGCTAAGACCCAAAGGC
1 ATCCGGGCTAAGACCCGAAGGC
50252365 CTTGCGCAAG
Statistics
Matches: 87, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 55 0.63
81 29 0.33
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (81 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGCAT
TCATGCGAGTTGCCAC
Found at i:50291434 original size:12 final size:11
Alignment explanation
Indices: 50291417--50291447 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
50291407 TTTTTTCTCT
50291417 AAAAAAATAGAA
1 AAAAAAAT-GAA
50291429 AAAAAAATGAA
1 AAAAAAATGAA
50291440 AAAAAAAT
1 AAAAAAAT
50291448 TGATTGAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (11 bp):
AAAAAAATGAA
Found at i:50297211 original size:26 final size:26
Alignment explanation
Indices: 50297180--50297261 Score: 76
Period size: 27 Copynumber: 3.1 Consensus size: 26
50297170 AAAATACAAG
*
50297180 AAAATAAAAATAAAACAAAACAATTA
1 AAAATAAAAATAAAACAAAACAATAA
** *
50297206 GGAATAGAAAT-AAACATAAACATATAA
1 AAAATAAAAATAAAACA-AAACA-ATAA
* *
50297233 AAAATAAAAAAAAAAGAAAACAAATAA
1 AAAATAAAAATAAAACAAAAC-AATAA
50297260 AA
1 AA
50297262 TCAATGATCC
Statistics
Matches: 43, Mismatches: 9, Indels: 7
0.73 0.15 0.12
Matches are distributed among these distances:
25 5 0.12
26 13 0.30
27 20 0.47
28 5 0.12
ACGTcount: A:0.76, C:0.06, G:0.05, T:0.13
Consensus pattern (26 bp):
AAAATAAAAATAAAACAAAACAATAA
Found at i:50298627 original size:18 final size:17
Alignment explanation
Indices: 50298595--50298629 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
50298585 CTCAACAAAA
*
50298595 GAAAATAAATCGATAAT
1 GAAAATAAATAGATAAT
50298612 GAAAATAAAATAGATAAT
1 GAAAAT-AAATAGATAAT
50298630 AATCCTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.63, C:0.03, G:0.11, T:0.23
Consensus pattern (17 bp):
GAAAATAAATAGATAAT
Found at i:50303401 original size:2 final size:2
Alignment explanation
Indices: 50303396--50303430 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
50303386 AATATATATA
50303396 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
50303431 AAATGGCCTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:50306769 original size:153 final size:153
Alignment explanation
Indices: 50306491--50306798 Score: 607
Period size: 153 Copynumber: 2.0 Consensus size: 153
50306481 TCCATCAAGA
50306491 TTGAAGAGTCCCTTTTGATTTCTTTGGAGATTATTATGAGTTTCTTTGTTTCTTGCAGCTATACT
1 TTGAAGAGTCCCTTTTGATTTCTTTGGAGATTATTATGAGTTTCTTTGTTTCTTGCAGCTATACT
*
50306556 ATATTTTGGATGTTTTTATTTGCTAGCATGAACTAATTTTCTAAATACCTAGGGAGATGAACCTT
66 ATATTTTGGATGTTTGTATTTGCTAGCATGAACTAATTTTCTAAATACCTAGGGAGATGAACCTT
50306621 TTGGTGGACTTTATCTTTTGATT
131 TTGGTGGACTTTATCTTTTGATT
50306644 TTGAAGAGTCCCTTTTGATTTCTTTGGAGATTATTATGAGTTTCTTTGTTTCTTGCAGCTATACT
1 TTGAAGAGTCCCTTTTGATTTCTTTGGAGATTATTATGAGTTTCTTTGTTTCTTGCAGCTATACT
50306709 ATATTTTGGATGTTTGTATTTGCTAGCATGAACTAATTTTCTAAATACCTAGGGAGATGAACCTT
66 ATATTTTGGATGTTTGTATTTGCTAGCATGAACTAATTTTCTAAATACCTAGGGAGATGAACCTT
50306774 TTGGTGGACTTTATCTTTTGATT
131 TTGGTGGACTTTATCTTTTGATT
50306797 TT
1 TT
50306799 TATTTTACGC
Statistics
Matches: 154, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 154 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (153 bp):
TTGAAGAGTCCCTTTTGATTTCTTTGGAGATTATTATGAGTTTCTTTGTTTCTTGCAGCTATACT
ATATTTTGGATGTTTGTATTTGCTAGCATGAACTAATTTTCTAAATACCTAGGGAGATGAACCTT
TTGGTGGACTTTATCTTTTGATT
Found at i:50308690 original size:17 final size:17
Alignment explanation
Indices: 50308668--50308706 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
50308658 GGCTCAGGAA
50308668 GGAGTAGAATAGGAGTT
1 GGAGTAGAATAGGAGTT
50308685 GGAGTAGAATAGGAGTT
1 GGAGTAGAATAGGAGTT
50308702 GGAGT
1 GGAGT
50308707 CTCTCCTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.44, T:0.23
Consensus pattern (17 bp):
GGAGTAGAATAGGAGTT
Found at i:50312106 original size:27 final size:27
Alignment explanation
Indices: 50312076--50312253 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50312066 ATATTGAGTC
* * * *
50312076 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50312103 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50312130 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50312158 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50312185 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50312212 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50312239 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50312254 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50312215 original size:82 final size:81
Alignment explanation
Indices: 50312097--50312252 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50312087 TGCTATATAA
* *
50312097 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50312162 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50312179 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50312243 CACTTAGTGC
65 CACTTAGTGC
50312253 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50315127 original size:111 final size:111
Alignment explanation
Indices: 50314992--50315212 Score: 424
Period size: 111 Copynumber: 2.0 Consensus size: 111
50314982 CTTAGTCAGC
50314992 CTATCAACAACAACCCAAATCGCATCCTTCTTACTTGCGGACAATGGCAGTCCGGACACAAAGTC
1 CTATCAACAACAACCCAAATCGCATCCTTCTTACTTGCGGACAATGGCAGTCCGGACACAAAGTC
*
50315057 CATTGTGACTCGGTCCCATTTCCACTCGGGTATCATGATCGGCTGT
66 CATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTGT
*
50315103 CTATCAACAACAACCCAAATCGCATCCTTCTTACTTGCTGACAATGGCAGTCCGGACACAAAGTC
1 CTATCAACAACAACCCAAATCGCATCCTTCTTACTTGCGGACAATGGCAGTCCGGACACAAAGTC
50315168 CATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
66 CATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTG
50315213 AAGTAACCCT
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
111 108 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (111 bp):
CTATCAACAACAACCCAAATCGCATCCTTCTTACTTGCGGACAATGGCAGTCCGGACACAAAGTC
CATTGTGACTCGATCCCATTTCCACTCGGGTATCATGATCGGCTGT
Found at i:50316692 original size:118 final size:118
Alignment explanation
Indices: 50316483--50316717 Score: 443
Period size: 118 Copynumber: 2.0 Consensus size: 118
50316473 ATCCATAAAC
*
50316483 ACCGCAGGGGCATTAGTGAGCCCAAACGGCATCATTAAGAACTCGTAGTGACCGTACCTCGTTCT
1 ACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCT
*
50316548 GAAAGCAGTCTTGGGTACGTCTGAATCTCGAATCCGCAACTGATAATAACCCT
66 GAAAGCAGTCTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCT
50316601 ACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCT
1 ACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCT
*
50316666 GAAAGCAGTTTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCC
66 GAAAGCAGTCTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCC
50316718 GATCTCAAAT
Statistics
Matches: 114, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 114 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (118 bp):
ACCGCAGGGGCATTAGTGAGCCCAAACGGCATCACTAAGAACTCGTAGTGACCGTACCTCGTTCT
GAAAGCAGTCTTGGGTACGTCCGAATCTCGAATCCGCAACTGATAATAACCCT
Found at i:50320399 original size:27 final size:27
Alignment explanation
Indices: 50320369--50320546 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50320359 ATATTGAGTC
* * * *
50320369 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50320396 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50320423 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50320451 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50320478 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50320505 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50320532 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50320547 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50320508 original size:82 final size:81
Alignment explanation
Indices: 50320390--50320545 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50320380 TGCTATATAA
* *
50320390 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50320455 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50320472 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50320536 CACTTAGTGC
65 CACTTAGTGC
50320546 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50324891 original size:40 final size:40
Alignment explanation
Indices: 50324835--50324983 Score: 196
Period size: 40 Copynumber: 3.7 Consensus size: 40
50324825 ACTACTTGCT
50324835 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * *
50324875 CAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
* * *
50324915 CAAATGCCTTC-GGAGCTTAGCCCGG-AATTAGTCACT-AGCT
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTA-TAGTAACTCA-CA
50324955 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
50324984 CATCCGAATA
Statistics
Matches: 96, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
39 4 0.04
40 88 0.92
41 4 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCACA
Found at i:50329593 original size:34 final size:34
Alignment explanation
Indices: 50329555--50329631 Score: 91
Period size: 34 Copynumber: 2.3 Consensus size: 34
50329545 ACATAATTAT
* *
50329555 ATATGTATAGTTTGGTATAATCAAAAGTGAATAC
1 ATATGTATAGTTTGATATAACCAAAAGTGAATAC
* * * *
50329589 ATATGTATGGTTTGATATCACCAAAGGTGAATAT
1 ATATGTATAGTTTGATATAACCAAAAGTGAATAC
*
50329623 ATATATATA
1 ATATGTATA
50329632 CACATTTATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.40, C:0.06, G:0.17, T:0.36
Consensus pattern (34 bp):
ATATGTATAGTTTGATATAACCAAAAGTGAATAC
Found at i:50330606 original size:39 final size:39
Alignment explanation
Indices: 50330563--50330753 Score: 294
Period size: 39 Copynumber: 4.9 Consensus size: 39
50330553 ATGCAAGACA
* *
50330563 CTGGAAATGTATTCGGGCTATAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
50330602 CTGGAAATGTATCAGGGCTAAAGTCCCGCAGGCTTCATG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
50330641 CTGGAAATGTATCCGGGCTAAAGTCCCGTAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* *
50330680 CTGGAAATGTATCCAGGG-TAAAGTCTCGTAGGCTTCGTG
1 CTGGAAATGTATCC-GGGCTAAAGTCCCGCAGGCTTCGTG
*
50330719 CAGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTT
50330754 TGTGTTGGTA
Statistics
Matches: 139, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
38 3 0.02
39 133 0.96
40 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.25
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:50333038 original size:28 final size:28
Alignment explanation
Indices: 50333000--50333163 Score: 130
Period size: 28 Copynumber: 5.8 Consensus size: 28
50332990 GTGAACATAG
* **
50333000 GCACCGTGTGTGCGAGTTCCATAACCGA
1 GCACTGTGTGTGCGAGTTCGGTAACCGA
* * ****
50333028 GCATTGTGTGTGCGAGATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCGGTAACCGA
*
50333056 GGCACTGTGTGTGCGAGTTCTGTAACCGA
1 -GCACTGTGTGTGCGAGTTCGGTAACCGA
** ****
50333085 GCACTGTGTGTGCGACATCGGTTGTTGA
1 GCACTGTGTGTGCGAGTTCGGTAACCGA
**
50333113 GGCACTGTGTGTGCGAGTTCTATAACCGA
1 -GCACTGTGTGTGCGAGTTCGGTAACCGA
* *
50333142 GCACTGTGTGTGCAAGATCGGT
1 GCACTGTGTGTGCGAGTTCGGT
50333164 TGTTGGAGCA
Statistics
Matches: 99, Mismatches: 35, Indels: 4
0.72 0.25 0.03
Matches are distributed among these distances:
28 58 0.59
29 41 0.41
ACGTcount: A:0.18, C:0.20, G:0.34, T:0.29
Consensus pattern (28 bp):
GCACTGTGTGTGCGAGTTCGGTAACCGA
Found at i:50333174 original size:29 final size:28
Alignment explanation
Indices: 50333026--50333184 Score: 129
Period size: 29 Copynumber: 5.5 Consensus size: 28
50333016 TTCCATAACC
*
50333026 GAGCATTGTGTGTGCGAGATCGGTTGTT
1 GAGCACTGTGTGTGCGAGATCGGTTGTT
* * ****
50333054 GAGGCACTGTGTGTGCGAGTTCTGTAACC
1 GA-GCACTGTGTGTGCGAGATCGGTTGTT
*
50333083 GAGCACTGTGTGTGCGACATCGGTTGTT
1 GAGCACTGTGTGTGCGAGATCGGTTGTT
* ** ****
50333111 GAGGCACTGTGTGTGCGAGTTCTATAACC
1 GA-GCACTGTGTGTGCGAGATCGGTTGTT
*
50333140 GAGCACTGTGTGTGCAAGATCGGTTGTT
1 GAGCACTGTGTGTGCGAGATCGGTTGTT
50333168 GGAGCACTAAGTGTGTG
1 -GAGCACT--GTGTGTG
50333185 AAATGAGATC
Statistics
Matches: 96, Mismatches: 30, Indels: 7
0.72 0.23 0.05
Matches are distributed among these distances:
28 41 0.43
29 48 0.50
31 7 0.07
ACGTcount: A:0.18, C:0.16, G:0.36, T:0.30
Consensus pattern (28 bp):
GAGCACTGTGTGTGCGAGATCGGTTGTT
Found at i:50333182 original size:57 final size:57
Alignment explanation
Indices: 50332998--50333168 Score: 288
Period size: 57 Copynumber: 3.0 Consensus size: 57
50332988 AAGTGAACAT
* * *
50332998 AGGCACCGTGTGTGCGAGTTCCATAACCGAGCATTGTGTGTGCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCTATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
* *
50333055 AGGCACTGTGTGTGCGAGTTCTGTAACCGAGCACTGTGTGTGCGACATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCTATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
*
50333112 AGGCACTGTGTGTGCGAGTTCTATAACCGAGCACTGTGTGTGCAAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTCTATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
50333169 GAGCACTAAG
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 106 1.00
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.29
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTCTATAACCGAGCACTGTGTGTGCGAGATCGGTTGTTG
Found at i:50342048 original size:56 final size:56
Alignment explanation
Indices: 50341962--50342137 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
50341952 ACAAGGGATG
50341962 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
50342018 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
50342074 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
50342130 ATGGGCAA
1 ATGGGCAA
50342138 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:50343969 original size:22 final size:22
Alignment explanation
Indices: 50343942--50344016 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
50343932 CATGAGTATG
50343942 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
50343964 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
50343989 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
50344011 TGTGAT
1 TGTGAT
50344017 GGGTGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:50344044 original size:47 final size:47
Alignment explanation
Indices: 50343638--50344017 Score: 649
Period size: 47 Copynumber: 8.0 Consensus size: 47
50343628 GATGAATGTA
50343638 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
50343685 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
50343732 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
50343779 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
50343826 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
* * *
50343873 GAATGTGAA-AGTGTATATATATATGGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACA-TG-A-GTATGTGT-GATAAGGCCGAATGGCCAATGTGAT
50343923 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
*
50343970 GAATGTGAA-AGTGTA-TATATGTGATAAGGCCGAATGGCCAATGTGAT
1 GAATGTGAACA-TG-AGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
50344017 G
1 G
50344018 GGTGTGGAAG
Statistics
Matches: 319, Mismatches: 7, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
46 2 0.01
47 267 0.84
48 7 0.02
49 6 0.02
50 36 0.11
51 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
GAATGTGAACATGAGTATGTGTGATAAGGCCGAATGGCCAATGTGAT
Found at i:50351806 original size:27 final size:27
Alignment explanation
Indices: 50351776--50351953 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
50351766 ATATTGAGTC
* * * *
50351776 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
50351803 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50351830 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
50351858 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
50351885 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
50351912 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
50351939 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50351954 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:50351915 original size:82 final size:81
Alignment explanation
Indices: 50351797--50351952 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
50351787 TGCTATATAA
* *
50351797 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
50351862 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
50351879 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
50351943 CACTTAGTGC
65 CACTTAGTGC
50351953 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:50358034 original size:33 final size:34
Alignment explanation
Indices: 50357997--50358085 Score: 96
Period size: 33 Copynumber: 2.7 Consensus size: 34
50357987 TTTGGGCTTG
*
50357997 AGCCCATACTAGTAGCAATATCAG-GGGGGCCTT
1 AGCCCATACTAGTAGCAGTATCAGTGGGGGCCTT
* * * *
50358030 AGCCCACTAC-AGTAGTAGTAACTGTGTGGGCCTT
1 AGCCCA-TACTAGTAGCAGTATCAGTGGGGGCCTT
50358064 AGCCCA-ACTAGTA-CAGTATCAG
1 AGCCCATACTAGTAGCAGTATCAG
50358086 AAATGCAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
32 8 0.18
33 20 0.44
34 17 0.38
ACGTcount: A:0.28, C:0.25, G:0.25, T:0.22
Consensus pattern (34 bp):
AGCCCATACTAGTAGCAGTATCAGTGGGGGCCTT
Found at i:50361303 original size:21 final size:21
Alignment explanation
Indices: 50361279--50361331 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
50361269 TGTAGGGCAC
**
50361279 ACACGCCAGTGTGGTCA-AGGG
1 ACACGCCAGTGTGACCATA-GG
*
50361300 ACACGCCCGTGTGACCATAGG
1 ACACGCCAGTGTGACCATAGG
50361321 ACACGCCAGTG
1 ACACGCCAGTG
50361332 CTATATGCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.25, C:0.30, G:0.32, T:0.13
Consensus pattern (21 bp):
ACACGCCAGTGTGACCATAGG
Found at i:50386054 original size:26 final size:26
Alignment explanation
Indices: 50386017--50386074 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
50386007 TGATACAAAT
50386017 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
50386043 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
50386069 TGATAA
1 TGATAA
50386075 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:50392741 original size:40 final size:40
Alignment explanation
Indices: 50392689--50393006 Score: 435
Period size: 40 Copynumber: 8.0 Consensus size: 40
50392679 CGTTTGGATA
* * *
50392689 AAAAACGCCGCTATAGATCAAGCATTAGCGGTGCTATCTG
1 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTG
* *
50392729 AAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTG
* * *
50392769 AAAATCGCCGCTATAGATCGAA-CATTAGGGGCGATTTTTG
1 AAAAACGCCGCTATAGATC-AAGCATTAGCGGCGCTTTTTG
*
50392809 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTG
* * *
50392849 AAAATCGCCGCTATAGATCGAA-CATTAGGGGCGATTTTTG
1 AAAAACGCCGCTATAGATC-AAGCATTAGCGGCGCTTTTTG
*
50392889 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTTTG
1 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTG
* * *
50392929 AAAATCGCCGCTATAGATCGAA-CATTAGGGGCGATTTTTG
1 AAAAACGCCGCTATAGATC-AAGCATTAGCGGCGCTTTTTG
*
50392969 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTT
1 AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTT
50393007 AAATATATTT
Statistics
Matches: 242, Mismatches: 30, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.01
40 236 0.98
41 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCAAGCATTAGCGGCGCTTTTTG
Found at i:50392787 original size:80 final size:80
Alignment explanation
Indices: 50392689--50393006 Score: 557
Period size: 80 Copynumber: 4.0 Consensus size: 80
50392679 CGTTTGGATA
* * * * * * *
50392689 AAAAACGCCGCTATAGATC-AAGCATTAGCGGTGCTATCTGAAAAATGCCGCTATAGATCGAGCA
1 AAAATCGCCGCTATAGATCGAA-CATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCA
50392753 TTAGCGGCGCTTTTTG
65 TTAGCGGCGCTTTTTG
50392769 AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
1 AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
50392834 TAGCGGCGCTTTTTG
66 TAGCGGCGCTTTTTG
50392849 AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
1 AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
50392914 TAGCGGCGCTTTTTG
66 TAGCGGCGCTTTTTG
50392929 AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
1 AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
50392994 TAGCGGCGCTTTT
66 TAGCGGCGCTTTT
50393007 AAATATATTT
Statistics
Matches: 230, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
80 228 0.99
81 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (80 bp):
AAAATCGCCGCTATAGATCGAACATTAGGGGCGATTTTTGAAAAACGCCGCTATAGATCGAGCAT
TAGCGGCGCTTTTTG
Found at i:50393404 original size:29 final size:28
Alignment explanation
Indices: 50393372--50393435 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
50393362 GAGTTTCTAT
*
50393372 TTTAAGGTTTATGGATTATGGATTATGGG
1 TTTAAGGATTATGGATTATGGATTAT-GG
* * *
50393401 TTTAATGATTATGGTTTATGGTTTATGG
1 TTTAAGGATTATGGATTATGGATTATGG
50393429 TTTAAGG
1 TTTAAGG
50393436 GTTAGGGTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 8 0.27
29 22 0.73
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.48
Consensus pattern (28 bp):
TTTAAGGATTATGGATTATGGATTATGG
Found at i:50393429 original size:7 final size:7
Alignment explanation
Indices: 50393309--50393510 Score: 79
Period size: 7 Copynumber: 28.4 Consensus size: 7
50393299 TTAATTATCA
*
50393309 TTATAGT
1 TTATGGT
50393316 TTA-GGAT
1 TTATGG-T
*
50393323 TTATGGC
1 TTATGGT
*
50393330 TTAGGGT
1 TTATGGT
* *
50393337 ATATAGT
1 TTATGGT
*
50393344 TTAGGGT
1 TTATGGT
*
50393351 TTAAGGT
1 TTATGGT
*
50393358 TTAGGAGT
1 TTATG-GT
* **
50393366 TTCTATT
1 TTATGGT
*
50393373 TTAAGGT
1 TTATGGT
*
50393380 TTATGGA
1 TTATGGT
*
50393387 TTATGGA
1 TTATGGT
50393394 TTATGGGT
1 TTAT-GGT
*
50393402 TTAAT-GA
1 TT-ATGGT
50393409 TTATGGT
1 TTATGGT
50393416 TTATGGT
1 TTATGGT
50393423 TTATGGT
1 TTATGGT
* *
50393430 TTAAGGG
1 TTATGGT
*
50393437 TTAGGGT
1 TTATGGT
*
50393444 TTAAGGT
1 TTATGGT
50393451 TTA-GGT
1 TTATGGT
*
50393457 GTTATGGG
1 -TTATGGT
* *
50393465 TTAAGGG
1 TTATGGT
*
50393472 TTATCGGC
1 TTAT-GGT
*
50393480 TTAGGGT
1 TTATGGT
50393487 TTAT-GT
1 TTATGGT
*
50393493 TGTATGAT
1 T-TATGGT
*
50393501 TTAAGGT
1 TTATGGT
50393508 TTA
1 TTA
50393511 AGGGATAGGA
Statistics
Matches: 144, Mismatches: 40, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
6 9 0.06
7 114 0.79
8 19 0.13
9 2 0.01
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.46
Consensus pattern (7 bp):
TTATGGT
Found at i:50393537 original size:7 final size:7
Alignment explanation
Indices: 50393413--50393540 Score: 50
Period size: 7 Copynumber: 18.0 Consensus size: 7
50393403 TAATGATTAT
*
50393413 GGTTTAT
1 GGTTTAG
*
50393420 GGTTTAT
1 GGTTTAG
50393427 GGTTTAAG
1 GGTTT-AG
50393435 GG-TTAG
1 GGTTTAG
*
50393441 GGTTTAA
1 GGTTTAG
50393448 GGTTTA-
1 GGTTTAG
50393454 GGTGTTATG
1 GGT-TTA-G
*
50393463 GGTTAAG
1 GGTTTAG
*
50393470 GG-TTATC
1 GGTTTA-G
*
50393477 GGCTTAG
1 GGTTTAG
50393484 GGTTTA-
1 GGTTTAG
* *
50393490 TGTTGTAT
1 GGTT-TAG
* *
50393498 GATTTAA
1 GGTTTAG
50393505 GGTTTAAG
1 GGTTT-AG
*
50393513 GG-ATAG
1 GGTTTAG
*
50393519 GAGTTAAG
1 G-GTTTAG
50393527 GGTTTAG
1 GGTTTAG
50393534 GGTTTAG
1 GGTTTAG
50393541 ATTAATTAGT
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
6 15 0.16
7 58 0.63
8 16 0.17
9 3 0.03
ACGTcount: A:0.21, C:0.02, G:0.36, T:0.41
Consensus pattern (7 bp):
GGTTTAG
Done.