Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 293 of 427
Found at i:84685501 original size:123 final size:123
Alignment explanation
Indices: 84685278--84685616 Score: 588
Period size: 123 Copynumber: 2.8 Consensus size: 123
84685268 GGATATAATT
* * * * * * *
84685278 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
84685343 ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAACATATC
84685401 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
84685466 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAACATATC
*
84685524 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84685589 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
84685617 CACATAATTC
Statistics
Matches: 206, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
123 206 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCATTACTAAGGCTCAAACACAAACATATC
Found at i:84688266 original size:29 final size:29
Alignment explanation
Indices: 84688233--84688306 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
84688223 GTGACGAGAT
84688233 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
84688262 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
84688291 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84688307 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:84688322 original size:29 final size:28
Alignment explanation
Indices: 84688290--84688364 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
84688280 CTGGAAATAT
* *
84688290 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
84688319 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
84688347 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
84688365 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:84688333 original size:58 final size:57
Alignment explanation
Indices: 84688233--84688364 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
84688223 GTGACGAGAT
* * * * * *
84688233 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
84688291 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
84688348 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
84688365 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:84696142 original size:29 final size:29
Alignment explanation
Indices: 84696109--84696182 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
84696099 GTGACGAGAT
84696109 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
84696138 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
84696167 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
84696183 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:84696198 original size:29 final size:28
Alignment explanation
Indices: 84696166--84696240 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
84696156 CTGGAAATAT
* *
84696166 ATGGCACTAAGTGTGCGAGCTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCT-AAAGCGC
** * *
84696195 ATGGCACTGTGTGTGCGGGCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCTAAAGCGC
84696223 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
84696241 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.23, C:0.20, G:0.36, T:0.21
Consensus pattern (28 bp):
ATGGCACTAAGTGTGCGAGCTAAAGCGC
Found at i:84696209 original size:58 final size:57
Alignment explanation
Indices: 84696109--84696240 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 57
84696099 GTGACGAGAT
* * * * * *
84696109 TGGCACTAAGTGTGCGTGCTGGAAATATATGGCACTAAGTGTGCATGCTGGAAAT-ATA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCT--AAATCACA
* * ** * *
84696167 TGGCACTAAGTGTGCGAGCTCGAAGGGCATGGCACTGTGTGTGCGGGCTAAATCGCA
1 TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
84696224 TGGCACTAAGTGTGCGA
1 TGGCACTAAGTGTGCGA
84696241 AATCGAGTAT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
56 4 0.07
57 18 0.30
58 39 0.64
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.24
Consensus pattern (57 bp):
TGGCACTAAGTGTGCGAGCTCGAAAGACATGGCACTAAGTGTGCAGGCTAAATCACA
Found at i:84703488 original size:40 final size:40
Alignment explanation
Indices: 84703423--84703666 Score: 294
Period size: 40 Copynumber: 6.1 Consensus size: 40
84703413 CGGAATACAA
* ** * * *
84703423 CCGGATATAACCACACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
84703463 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
*
84703503 CCTGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
84703543 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
* * * * *
84703583 CCGGATATAGTC-ACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACAACTTGCACAAATGCCTTCGGGTATTAGC
** * * *
84703623 CCGGATATAATTACTAGCATAAATGTCTTCGGG-ACTTAGC
1 CCGGATATAACAACTTGCACAAATGCCTTCGGGTA-TTAGC
84703663 CCGG
1 CCGG
84703667 GTATCATTCA
Statistics
Matches: 180, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
40 179 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
Found at i:84703821 original size:64 final size:64
Alignment explanation
Indices: 84703753--84703941 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
84703743 GAACACAAAC
84703753 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
84703817 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
84703874 AC
63 AT
84703876 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
84703940 AT
1 AT
84703942 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:84703854 original size:123 final size:123
Alignment explanation
Indices: 84703635--84703973 Score: 597
Period size: 123 Copynumber: 2.8 Consensus size: 123
84703625 GGATATAATT
* * * * * * *
84703635 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATAAATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
*
84703700 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
84703758 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84703823 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
84703881 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
84703946 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
84703974 CACATAATTC
Statistics
Matches: 207, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 207 1.00
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:84709783 original size:21 final size:21
Alignment explanation
Indices: 84709749--84709792 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
84709739 AGATCTCTAC
*
84709749 AATTTCTCCCTAAAGCTCTCA
1 AATTTCTCACTAAAGCTCTCA
* **
84709770 AATTTCTCATTAAATTTCTCA
1 AATTTCTCACTAAAGCTCTCA
84709791 AA
1 AA
84709793 GCTCTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.39
Consensus pattern (21 bp):
AATTTCTCACTAAAGCTCTCA
Found at i:84710960 original size:7 final size:7
Alignment explanation
Indices: 84710950--84710981 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
84710940 AGTCATTTCA
84710950 TATTTAG
1 TATTTAG
84710957 TATTTAG
1 TATTTAG
84710964 TATTTAG
1 TATTTAG
84710971 TATTTAG
1 TATTTAG
84710978 TATT
1 TATT
84710982 ATGCATATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.59
Consensus pattern (7 bp):
TATTTAG
Found at i:84711883 original size:21 final size:21
Alignment explanation
Indices: 84711859--84711909 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
84711849 CCCACAATCG
84711859 GAGCAACCACAACCCCTGCCA
1 GAGCAACCACAACCCCTGCCA
*
84711880 GAGCAACCACAACCCCTGCTA
1 GAGCAACCACAACCCCTGCCA
84711901 GAGCAACCA
1 GAGCAACCA
84711910 AGGAGGAATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.35, C:0.43, G:0.16, T:0.06
Consensus pattern (21 bp):
GAGCAACCACAACCCCTGCCA
Found at i:84714646 original size:22 final size:24
Alignment explanation
Indices: 84714600--84714652 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
84714590 TAATAACTAT
*
84714600 AAGCTCAATTAAGCTGGAAACGGG
1 AAGCTCTATTAAGCTGGAAACGGG
*
84714624 AAGCTCTATTGAGCT-G-AACGGG
1 AAGCTCTATTAAGCTGGAAACGGG
84714646 AAGCTCT
1 AAGCTCT
84714653 TACGAGCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 13 0.48
23 1 0.04
24 13 0.48
ACGTcount: A:0.32, C:0.19, G:0.28, T:0.21
Consensus pattern (24 bp):
AAGCTCTATTAAGCTGGAAACGGG
Found at i:84714659 original size:22 final size:22
Alignment explanation
Indices: 84714618--84714660 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
84714608 TTAAGCTGGA
*
84714618 AACGGGAAGCTCTATTGAGCTG
1 AACGGGAAGCTCTATCGAGCTG
84714640 AACGGGAAGCTCT-TACGAGCT
1 AACGGGAAGCTCTAT-CGAGCT
84714661 ATGGTGAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (22 bp):
AACGGGAAGCTCTATCGAGCTG
Found at i:84743916 original size:20 final size:20
Alignment explanation
Indices: 84743878--84743916 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
84743868 TTAAATAACT
*
84743878 AAAATAACTAAATAATAAAG
1 AAAATAACTAAACAATAAAG
84743898 AAAATAAC-AAACAACTAAA
1 AAAATAACTAAACAA-TAAA
84743917 ATCAATAGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (20 bp):
AAAATAACTAAACAATAAAG
Found at i:84745684 original size:48 final size:46
Alignment explanation
Indices: 84745608--84745830 Score: 197
Period size: 48 Copynumber: 4.7 Consensus size: 46
84745598 TATGAGAGCC
*
84745608 AGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAGCACGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTAAGCA-GCT
* *
84745656 AGTGTAAGACCATGTCTAGGACATGGCATCGGCCACATTATGAG-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCCACATTA--AGCAGCT
* * *
84745704 AGTGTAAGACCATGTCTGGGACATGGTATCG--GCATTGAGACGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATT-A-A-G-CAGCT
*
84745752 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTGACATGT--G-AGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GCC---ACAT-TAAGCAGCT
* *
84745800 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
84745831 ACAATTCACC
Statistics
Matches: 149, Mismatches: 13, Indels: 27
0.79 0.07 0.14
Matches are distributed among these distances:
45 6 0.04
46 2 0.01
47 2 0.01
48 130 0.87
49 2 0.01
50 3 0.02
54 3 0.02
55 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGCCACATTAAGCAGCT
Found at i:84745762 original size:96 final size:94
Alignment explanation
Indices: 84745597--84745830 Score: 292
Period size: 96 Copynumber: 2.4 Consensus size: 94
84745587 CATTTGGGCG
* *
84745597 ATATGAGAGCCAGTGCAAGACCATGTCTGGGACATGGCATCAGCCACATTAAGCACGCTAGTGTA
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-G-CACATTAAGCAAGCTAGTGTA
84745662 AGACCATGTCTAGGACATGGCATCGGCC-AC
64 AGACCATGTCTAGGACATGGCATCGGCCTAC
* * *
84745692 ATTATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGTATCG-GCATTGAGACGAGAGCTAGTG
1 A-TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCACATTAAG-C-A-AGCTAGTG
* **
84745756 TAAGACCATGTCTGGGACATGGCATCGGCCTTG
62 TAAGACCATGTCTAGGACATGGCATCGGCCTAC
* * * *
84745789 ACATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCG
1 ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
84745831 ACAATTCACC
Statistics
Matches: 121, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
93 6 0.05
94 1 0.01
95 3 0.02
96 110 0.91
97 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (94 bp):
ATATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGCACATTAAGCAAGCTAGTGTAAG
ACCATGTCTAGGACATGGCATCGGCCTAC
Found at i:84751956 original size:98 final size:95
Alignment explanation
Indices: 84751764--84751980 Score: 239
Period size: 98 Copynumber: 2.3 Consensus size: 95
84751754 TTAAGGGTGC
* * * *
84751764 AAAAAGCCCTCAAACTTTTTC---AAAAAAAGCAATTAAGCCCATGCTTCTTTTTTTGCACTTAT
1 AAAAAGCCCTCAAACTTTTTCAAAAAAAAAAGAAATTAAGCCCATCCTTCTTTTTTTGCACTCAA
* *
84751826 TTGGATACTTGAACTTTCAAAGATGCATAA
66 TTGGATACTTGAACTTTCAAAGAAGAATAA
* * *
84751856 AAAAAGCCCTCAAACCTTTTCAAAAAAAAAAAGAAATTAAGCCCCTACCTTTTTTTTTTTGCACT
1 AAAAAGCCCTCAAACTTTTTC-AAAAAAAAAAGAAATTAAGCCCAT-CC-TTCTTTTTTTGCACT
*
84751921 CAATTGTG-TACTTGAACTTTCAAA-AAGAAT-C
63 CAATTG-GATACTTGAACTTTCAAAGAAGAATAA
* *
84751952 AAAAAGATCCTCAAACTTTTTCACAAAAA
1 AAAAAG-CCCTCAAACTTTTTCAAAAAAA
84751981 GCAATGAAGT
Statistics
Matches: 104, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
92 20 0.19
96 31 0.30
97 18 0.17
98 34 0.33
99 1 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (95 bp):
AAAAAGCCCTCAAACTTTTTCAAAAAAAAAAGAAATTAAGCCCATCCTTCTTTTTTTGCACTCAA
TTGGATACTTGAACTTTCAAAGAAGAATAA
Found at i:84752128 original size:19 final size:18
Alignment explanation
Indices: 84752106--84752176 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 18
84752096 TAATAATTAG
84752106 AAAAAAATATAAAAATCAT
1 AAAAAAATATAAAAAT-AT
84752125 AAAAAAGAATATAAAAA-ATT
1 -AAAAA-AATATAAAAATA-T
*
84752145 GTAAAAAATAT-AAAATAT
1 -AAAAAAATATAAAAATAT
* *
84752163 ATAGAAATATAAAA
1 AAAAAAATATAAAA
84752177 TTTTATAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
17 7 0.17
18 8 0.19
19 7 0.17
20 10 0.24
21 10 0.24
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAAAAATATAAAAATAT
Found at i:84752140 original size:10 final size:9
Alignment explanation
Indices: 84752107--84752176 Score: 61
Period size: 9 Copynumber: 7.4 Consensus size: 9
84752097 AATAATTAGA
84752107 AAAAAATAT
1 AAAAAATAT
*
84752116 AAAAATCATAA
1 AAAAA--ATAT
84752127 AAAAGAATAT
1 AAAA-AATAT
*
84752137 AAAAAATTGT
1 AAAAAA-TAT
84752147 AAAAAATAT
1 AAAAAATAT
*
84752156 AAAATATAT
1 AAAAAATAT
*
84752165 -AGAAATAT
1 AAAAAATAT
84752173 AAAA
1 AAAA
84752177 TTTTATAAAT
Statistics
Matches: 48, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
8 6 0.12
9 19 0.40
10 15 0.31
11 7 0.15
12 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.04, T:0.23
Consensus pattern (9 bp):
AAAAAATAT
Found at i:84752449 original size:11 final size:11
Alignment explanation
Indices: 84752433--84752535 Score: 62
Period size: 10 Copynumber: 10.1 Consensus size: 11
84752423 TAAAAAATCT
84752433 AATTTTTAATA
1 AATTTTTAATA
84752444 AA-TTTT-A-A
1 AATTTTTAATA
*
84752452 AATTTTTATTA
1 AATTTTTAATA
*
84752463 AA-ATTTAAT-
1 AATTTTTAATA
*
84752472 AATTTTT-CTAA
1 AATTTTTAAT-A
*
84752483 AATTTTTTAT-
1 AATTTTTAATA
84752493 AATTTTT-ATA
1 AATTTTTAATA
* *
84752503 ATTTTTTTATA
1 AATTTTTAATA
* *
84752514 ATTTTTTTAT-
1 AATTTTTAATA
84752524 AATTTTTAATA
1 AATTTTTAATA
84752535 A
1 A
84752536 TAGCATGGTC
Statistics
Matches: 73, Mismatches: 9, Indels: 20
0.72 0.09 0.20
Matches are distributed among these distances:
8 3 0.04
9 10 0.14
10 33 0.45
11 26 0.36
12 1 0.01
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (11 bp):
AATTTTTAATA
Found at i:84752455 original size:19 final size:20
Alignment explanation
Indices: 84752432--84752487 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 20
84752422 ATAAAAAATC
*
84752432 TAATTTTTAATAAATTTTAA
1 TAATTTTTAATAAAATTTAA
*
84752452 -AATTTTTATTAAAATTTAA
1 TAATTTTTAATAAAATTTAA
*
84752471 TAATTTTT-CTAAAATTT
1 TAATTTTTAATAAAATTT
84752488 TTTATAATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 25 0.78
20 7 0.22
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TAATTTTTAATAAAATTTAA
Found at i:84752466 original size:20 final size:21
Alignment explanation
Indices: 84752432--84752536 Score: 78
Period size: 20 Copynumber: 5.2 Consensus size: 21
84752422 ATAAAAAATC
84752432 TAATTTTTAAT-AAATTTTAA
1 TAATTTTTAATAAAATTTTAA
*
84752452 -AATTTTTATTAAAA-TTTAA
1 TAATTTTTAATAAAATTTTAA
* *
84752471 TAATTTTT-CTAAAATTTTTTA
1 TAATTTTTAATAAAA-TTTTAA
** *
84752492 TAATTTTT-ATAATTTTTTTA
1 TAATTTTTAATAAAATTTTAA
* *
84752512 TAATTTTT-TTATAATTTTTAA
1 TAATTTTTAATA-AAATTTTAA
84752533 TAAT
1 TAAT
84752537 AGCATGGTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
19 19 0.27
20 26 0.37
21 26 0.37
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (21 bp):
TAATTTTTAATAAAATTTTAA
Found at i:84752494 original size:21 final size:21
Alignment explanation
Indices: 84752446--84752536 Score: 89
Period size: 20 Copynumber: 4.4 Consensus size: 21
84752436 TTTTAATAAA
*
84752446 TTTTAAAATTTTTATTAAAA--
1 TTTTATAATTTTTA-TAAAATT
* *
84752466 TTTAATAATTTTTCTAAAATT
1 TTTTATAATTTTTATAAAATT
*
84752487 TTTTATAATTTTTAT-AATTT
1 TTTTATAATTTTTATAAAATT
* *
84752507 TTTTATAATTTTTTTATAATT
1 TTTTATAATTTTTATAAAATT
*
84752528 TTTAATAAT
1 TTTTATAAT
84752537 AGCATGGTCT
Statistics
Matches: 58, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.09
20 29 0.50
21 24 0.41
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTATAATTTTTATAAAATT
Found at i:84752507 original size:8 final size:9
Alignment explanation
Indices: 84752432--84752536 Score: 66
Period size: 11 Copynumber: 10.4 Consensus size: 9
84752422 ATAAAAAATC
84752432 TAATTTTTAA
1 TAATTTTT-A
*
84752442 TAAATTTTA
1 TAATTTTTA
*
84752451 AAATTTTTA
1 TAATTTTTA
* *
84752460 TTAAAATTTAA
1 -T-AATTTTTA
84752471 TAATTTTTCTA
1 TAA-TTTT-TA
*
84752482 AAATTTTTTA
1 TAA-TTTTTA
84752492 TAATTTTTA
1 TAATTTTTA
84752501 TAATTTTTTTA
1 TAA--TTTTTA
84752512 TAATTTTTTTA
1 TAA--TTTTTA
84752523 TAATTTTTAA
1 TAATTTTT-A
84752533 TAAT
1 TAAT
84752537 AGCATGGTCT
Statistics
Matches: 78, Mismatches: 10, Indels: 14
0.76 0.10 0.14
Matches are distributed among these distances:
9 24 0.31
10 20 0.26
11 34 0.44
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:84752794 original size:2 final size:2
Alignment explanation
Indices: 84752787--84752811 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
84752777 TTTAAACGTG
84752787 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
84752812 TAAATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:84754188 original size:32 final size:32
Alignment explanation
Indices: 84754152--84754255 Score: 86
Period size: 32 Copynumber: 3.2 Consensus size: 32
84754142 TTTTTTCATT
84754152 TATTAAAATTGTATATATATATTTTTTAAGAA
1 TATTAAAATTGTATATATATATTTTTTAAGAA
* * * * * **
84754184 TATTATATTATT-TTTATTTAACAATTTTTTTCA-TT
1 TATTA-A-AATTGTATATAT-A-TA-TTTTTTAAGAA
84754219 TATTAAAATTGTATATATATATTTTTTAAGAA
1 TATTAAAATTGTATATATATATTTTTTAAGAA
84754251 TATTA
1 TATTA
84754256 TATTATTTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 14
0.65 0.18 0.18
Matches are distributed among these distances:
31 7 0.14
32 11 0.22
33 10 0.20
34 10 0.20
35 6 0.12
36 7 0.14
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (32 bp):
TATTAAAATTGTATATATATATTTTTTAAGAA
Found at i:84754223 original size:67 final size:67
Alignment explanation
Indices: 84754107--84754304 Score: 380
Period size: 67 Copynumber: 3.0 Consensus size: 67
84754097 ATATTTTTAT
84754107 TTTTTTAAGAATATTATATTATTTTTATTTAATAA-TTTTTTCATTTATTAAAATTGTATATATA
1 TTTTTTAAGAATATTATATTATTTTTATTTAATAATTTTTTTCATTTATTAAAATTGTATATATA
84754171 TA
66 TA
*
84754173 TTTTTTAAGAATATTATATTATTTTTATTTAACAATTTTTTTCATTTATTAAAATTGTATATATA
1 TTTTTTAAGAATATTATATTATTTTTATTTAATAATTTTTTTCATTTATTAAAATTGTATATATA
84754238 TA
66 TA
84754240 TTTTTTAAGAATATTATATTATTTTTATTTAATAATTTTTTTCATTTATTAAAATTGTATATATA
1 TTTTTTAAGAATATTATATTATTTTTATTTAATAATTTTTTTCATTTATTAAAATTGTATATATA
84754305 GGTATCTTTT
Statistics
Matches: 129, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
66 34 0.26
67 95 0.74
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (67 bp):
TTTTTTAAGAATATTATATTATTTTTATTTAATAATTTTTTTCATTTATTAAAATTGTATATATA
TA
Found at i:84754871 original size:8 final size:8
Alignment explanation
Indices: 84754853--84754891 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
84754843 AGAGGGAAGG
84754853 TTTTATAAT
1 TTTTAT-AT
84754862 TTTTATAT
1 TTTTATAT
*
84754870 TTTTCTATT
1 TTTTATA-T
84754879 TTTTATAT
1 TTTTATAT
84754887 TTTTA
1 TTTTA
84754892 ACTTTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 14 0.52
9 13 0.48
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTTTATAT
Found at i:84755537 original size:18 final size:19
Alignment explanation
Indices: 84755484--84755534 Score: 75
Period size: 19 Copynumber: 2.7 Consensus size: 19
84755474 AAATTACAAA
*
84755484 AAAATTCAAAATAATTTTC
1 AAAATTCAAAATAATTTTT
*
84755503 AAATTTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
*
84755522 AAAATTAAAAATA
1 AAAATTCAAAATA
84755535 TTTATAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:84756717 original size:21 final size:21
Alignment explanation
Indices: 84756693--84756735 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
84756683 ATTGGACAAA
84756693 AAAATAATTATTTTGGAACCC
1 AAAATAATTATTTTGGAACCC
84756714 AAAATAATTATTTTGGAACCC
1 AAAATAATTATTTTGGAACCC
84756735 A
1 A
84756736 CTGGTGATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.14, G:0.09, T:0.33
Consensus pattern (21 bp):
AAAATAATTATTTTGGAACCC
Found at i:84760041 original size:37 final size:38
Alignment explanation
Indices: 84759961--84760049 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 38
84759951 TAGATAGATA
** *
84759961 GCTAGGATTATTAGTTACCTTTAGGATTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
* *
84759999 ACTAGGATTAAAAGATATCTTTAGG-TTTAAATCTAGG
1 GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
84760036 GCTAGGATTAAAAG
1 GCTAGGATTAAAAG
84760050 TTTATTTGTA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
37 25 0.56
38 20 0.44
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (38 bp):
GCTAGGATTAAAAGATACCTTTAGGATTTAAATCTAGG
Found at i:84762699 original size:3 final size:3
Alignment explanation
Indices: 84762684--84762725 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
84762674 AGGCTAAGAC
* * *
84762684 GGT GGT GGC GGT GGT GGT GGT GGT GGT GGT GAT GAT GGT GGT
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT GGT
84762726 CAAGAGAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.05, C:0.02, G:0.62, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:84768557 original size:19 final size:19
Alignment explanation
Indices: 84768515--84768558 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
84768505 GTGTACCAAA
* *
84768515 TATGCGCTTTGTGTGCCAG
1 TATGCACTTCGTGTGCCAG
* *
84768534 AATGCACTTCGTGTGCCGG
1 TATGCACTTCGTGTGCCAG
84768553 TATGCA
1 TATGCA
84768559 TTTTATGTGT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.32
Consensus pattern (19 bp):
TATGCACTTCGTGTGCCAG
Found at i:84776407 original size:18 final size:18
Alignment explanation
Indices: 84776386--84776420 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
84776376 TTATGCTTAT
* *
84776386 TTTTACTTTTATTTTTAG
1 TTTTACCTTTATCTTTAG
84776404 TTTTACCTTTATCTTTA
1 TTTTACCTTTATCTTTA
84776421 TCTTTTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTACCTTTATCTTTAG
Found at i:84776434 original size:20 final size:19
Alignment explanation
Indices: 84776411--84776466 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 19
84776401 TAGTTTTACC
84776411 TTTATCTTTATCTTTTTTTT
1 TTTATCTTTAT-TTTTTTTT
*
84776431 TTTATGTTTATTTTTTTATAT
1 TTTATCTTTATTTTTTT-T-T
*
84776452 TTTGAACTTTATTTT
1 TTT-ATCTTTATTTT
84776467 AATTATTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 6 0.20
20 11 0.37
21 4 0.13
22 9 0.30
ACGTcount: A:0.16, C:0.05, G:0.04, T:0.75
Consensus pattern (19 bp):
TTTATCTTTATTTTTTTTT
Found at i:84789967 original size:36 final size:35
Alignment explanation
Indices: 84789926--84790010 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
84789916 ATCTTGACTC
*
84789926 GGAGTTAGCCAAGAA-AGAAAGATTATTTCAACTTTA
1 GGAGTT-G-CAAGAATACAAAGATTATTTCAACTTTA
* * *
84789962 GGAGTTGGAAGAATTCCAAGATTATTTCAACTTTA
1 GGAGTTGCAAGAATACAAAGATTATTTCAACTTTA
* *
84789997 GGAATTGGAAGAAT
1 GGAGTTGCAAGAAT
84790011 TCCATTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
34 5 0.12
35 32 0.74
36 6 0.14
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.29
Consensus pattern (35 bp):
GGAGTTGCAAGAATACAAAGATTATTTCAACTTTA
Found at i:84789984 original size:35 final size:35
Alignment explanation
Indices: 84789944--84790014 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
84789934 CCAAGAAAGA
*
84789944 AAGATTATTTCAACTTTAGGAGTTGGAAGAATTCC
1 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
84789979 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
1 AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
84790014 A
1 A
84790015 TTTTATGGCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (35 bp):
AAGATTATTTCAACTTTAGGAATTGGAAGAATTCC
Found at i:84790714 original size:11 final size:12
Alignment explanation
Indices: 84790698--84790726 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
84790688 TTTTGTCACC
84790698 AAAAAAG-AAAG
1 AAAAAAGAAAAG
84790709 AAAAAAGAAAAG
1 AAAAAAGAAAAG
84790721 AAAAAA
1 AAAAAA
84790727 AATGAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAGAAAAG
Found at i:84790721 original size:16 final size:15
Alignment explanation
Indices: 84790700--84790733 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
84790690 TTGTCACCAA
84790700 AAAAGAAAGAAAAAAG
1 AAAAGAAA-AAAAAAG
*
84790716 AAAAGAAAAAAAATG
1 AAAAGAAAAAAAAAG
84790731 AAA
1 AAA
84790734 TTGCAGGTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.82, C:0.00, G:0.15, T:0.03
Consensus pattern (15 bp):
AAAAGAAAAAAAAAG
Found at i:84798453 original size:25 final size:25
Alignment explanation
Indices: 84798424--84798471 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
84798414 TTATAATATG
* * *
84798424 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
84798449 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
84798472 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:84798540 original size:20 final size:20
Alignment explanation
Indices: 84798515--84798573 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
84798505 TAAATATGGT
84798515 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
84798535 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
84798555 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
84798574 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:84798654 original size:23 final size:24
Alignment explanation
Indices: 84798624--84798718 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
84798614 GAGGAAGTGA
84798624 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
84798647 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
84798671 GAAAGGGCTT-TGGCCCCAGTTATT
1 AAAAGGGCTTAT-GCCCCAGTTATT
*
84798695 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
84798719 ATGATAAAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 23 0.36
24 30 0.47
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:84798692 original size:47 final size:49
Alignment explanation
Indices: 84798625--84798718 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
84798615 AGGAAGTGAA
*
84798625 AAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTATTG
1 AAAGGGCTTATGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTATTG
84798672 AAAGGGCTT-TGGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
1 AAAGGGCTTAT-GCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTAT
84798719 ATGATAAAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 1 0.02
47 19 0.45
48 11 0.26
49 11 0.26
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (49 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAGAGGCTAGGCCTCCAGTTATTG
Found at i:84798961 original size:38 final size:38
Alignment explanation
Indices: 84798910--84799072 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
84798900 CGTTTACAGT
84798910 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
84798948 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
84798979 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
* *
84799017 AAAGGCTTCGGCCCAGTATTATGAAATATGAAATACGA
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
*
84799055 AAAGGGCTACGGCCCAGT
1 AAA-GGCTTCGGCCCAGT
84799073 GCATGATTGA
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 29 0.26
33 1 0.01
36 1 0.01
38 68 0.61
39 13 0.12
ACGTcount: A:0.38, C:0.17, G:0.23, T:0.22
Consensus pattern (38 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
Found at i:84798972 original size:31 final size:31
Alignment explanation
Indices: 84798934--84799049 Score: 142
Period size: 31 Copynumber: 3.5 Consensus size: 31
84798924 AGTATTATGA
84798934 AATATGAAACATGAAAAGGCTTCGGCCCAGT
1 AATATGAAACATGAAAAGGCTTCGGCCCAGT
*
84798965 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTAT
1 AATATGAAACATGAAAAGGCTTCGGCCCAG-----T
84799001 GAAATATGAAACATGAAAAGGCTTCGGCCCAGT
1 --AATATGAAACATGAAAAGGCTTCGGCCCAGT
* *
84799034 ATTATGAAATATGAAA
1 AATATGAAACATGAAA
84799050 TACGAAAAGG
Statistics
Matches: 74, Mismatches: 4, Indels: 14
0.80 0.04 0.15
Matches are distributed among these distances:
31 43 0.58
33 1 0.01
36 1 0.01
38 29 0.39
ACGTcount: A:0.41, C:0.15, G:0.21, T:0.23
Consensus pattern (31 bp):
AATATGAAACATGAAAAGGCTTCGGCCCAGT
Found at i:84798986 original size:69 final size:69
Alignment explanation
Indices: 84798910--84799049 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
84798900 CGTTTACAGT
84798910 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
84798975 ATGA
66 ATGA
*
84798979 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGAAAT
1 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
84799044 ATGA
66 ATGA
84799048 AA
1 AA
84799050 TACGAAAAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (69 bp):
AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGAAAAGGCTTCGGCCCAGTAATATGAAAT
ATGA
Found at i:84808851 original size:17 final size:17
Alignment explanation
Indices: 84808829--84808868 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
84808819 TAGGGACTTG
84808829 GTCATTTTGTTATATAT
1 GTCATTTTGTTATATAT
84808846 GTCATTTTGTTATATAT
1 GTCATTTTGTTATATAT
84808863 GTCATT
1 GTCATT
84808869 ATGAATTTGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.07, G:0.12, T:0.57
Consensus pattern (17 bp):
GTCATTTTGTTATATAT
Found at i:84818250 original size:21 final size:21
Alignment explanation
Indices: 84818224--84818269 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
84818214 GCTTTGGAAT
84818224 GCCTAAGAGCCCTCAAAATTA
1 GCCTAAGAGCCCTCAAAATTA
84818245 GCCTAAGAGCCCTCAAAATTA
1 GCCTAAGAGCCCTCAAAATTA
84818266 GCCT
1 GCCT
84818270 TTTTTGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (21 bp):
GCCTAAGAGCCCTCAAAATTA
Found at i:84824126 original size:14 final size:15
Alignment explanation
Indices: 84824102--84824131 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
84824092 GGATATCAAA
84824102 ACAAGAATTAAGAAC
1 ACAAGAATTAAGAAC
84824117 ACAA-AATTAAGAAC
1 ACAAGAATTAAGAAC
84824131 A
1 A
84824132 AGTTAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.13, G:0.10, T:0.13
Consensus pattern (15 bp):
ACAAGAATTAAGAAC
Found at i:84825014 original size:426 final size:426
Alignment explanation
Indices: 84824221--84825065 Score: 1467
Period size: 426 Copynumber: 2.0 Consensus size: 426
84824211 TTTAGTTCAT
*
84824221 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAACTCCT
1 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAAATCCT
* *
84824286 GAAGGGGAAATTGAGGAGAGATCTTCAGTTTTGATGATGAATCCGACTTCTTAGATGGATCAATC
66 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * *
84824351 AGCTTCCTTGGAGTAATTCCTTACTCCCTATTCTGTGTCTCCTTTTTCCTCCTCCTCTACGGTGT
131 AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTTTTTCCTCCTCCTCTACGGTGT
84824416 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
196 ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
* *
84824481 GGCTCGGCAGGAACATGTCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
261 GGCTCGGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
* *
84824546 GGCCGTGTGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTC
326 GGCCGTATGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
* *
84824611 TTCTTTTTTGGCCCATTTCTCGTTCCTTTAGTATAA
391 TCCTTTTTTCGCCCATTTCTCGTTCCTTTAGTATAA
*
84824647 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAATCCAAAAATCCT
1 AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAAATCCT
*
84824712 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATTGATCAATC
66 GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
* * *
84824777 GGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCT-CTTCTTTCTTCCTCCTCTAGGGTG
131 AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTT-TTTCCTCCTCCTCTACGGTG
*
84824841 TATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTTGAATTGGACTCAACTT
195 TATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTT
* *
84824906 GGGCTCGGCAGGGACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTGTCAAATTGACA
260 GGGCTCGGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACA
*
84824971 CGGCCGTATGGTCTACCCGTGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTT
325 CGGCCGTATGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTT
**
84825036 ATCCTTTTTTCGCCTGTTTCTCGTTCCTTT
390 ATCCTTTTTTCGCCCATTTCTCGTTCCTTT
84825066 CGCTCTCTTA
Statistics
Matches: 395, Mismatches: 23, Indels: 2
0.94 0.05 0.00
Matches are distributed among these distances:
425 3 0.01
426 392 0.99
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (426 bp):
AACTAAATAAGAAAACATCTCAGAATAATAAAGAATACAAAACATAAAGAAAACCCAAAAATCCT
GAAGGGGAAATTGAGGAGAGATCTTCAGTCTTGATGATGAATCCGACTTCTGAGATGGATCAATC
AGCTTCCTTGGAGGAATTCCTTAATCCCTATTATGTGTCTCCTTTTTCCTCCTCCTCTACGGTGT
ATTTATAGGCTTTGAAATGCCTAAGAGCCCTCAAAATTAGCCTTTTTCGAATTGGACTCAACTTG
GGCTCGGCAGGAACACGCCCGTGTGCGATTACTTCAGGCCATGCTCGAGCCTATCAAATTGACAC
GGCCGTATGGTCTACCCATGTGAGGAGGTCCAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTA
TCCTTTTTTCGCCCATTTCTCGTTCCTTTAGTATAA
Found at i:84829454 original size:19 final size:19
Alignment explanation
Indices: 84829430--84829467 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
84829420 ATATTAAATG
84829430 TTATACTATATCCTTACTA
1 TTATACTATATCCTTACTA
*
84829449 TTATACTATGTCCTTACTA
1 TTATACTATATCCTTACTA
84829468 AGTTGTGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.21, G:0.03, T:0.47
Consensus pattern (19 bp):
TTATACTATATCCTTACTA
Found at i:84842465 original size:25 final size:23
Alignment explanation
Indices: 84842437--84842513 Score: 55
Period size: 25 Copynumber: 3.1 Consensus size: 23
84842427 AATGCTTTCT
84842437 AAATGACTTGCCACAAGGGCTCCCC
1 AAAT-ACTTGCCACAA-GGCTCCCC
* * ***
84842462 AAATAATACGCCACATAGGCTTTTC
1 AAATACT-TGCCACA-AGGCTCCCC
84842487 AAATAACTTGCCACAAAGGCTCCCC
1 AAAT-ACTTGCCAC-AAGGCTCCCC
84842512 AA
1 AA
84842514 GTAATACGCC
Statistics
Matches: 38, Mismatches: 10, Indels: 8
0.68 0.18 0.14
Matches are distributed among these distances:
24 2 0.05
25 32 0.84
26 4 0.11
ACGTcount: A:0.35, C:0.31, G:0.14, T:0.19
Consensus pattern (23 bp):
AAATACTTGCCACAAGGCTCCCC
Found at i:84842524 original size:25 final size:25
Alignment explanation
Indices: 84842446--84842526 Score: 83
Period size: 25 Copynumber: 3.2 Consensus size: 25
84842436 TAAATGACTT
*
84842446 GCCACAAGGGCTCCCCAAATAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
* *** *
84842471 GCCACATAGGCTTTTCAAATAACT-T
1 GCCACAAAGGCTCCCCAAATAA-TAC
*
84842496 GCCACAAAGGCTCCCCAAGTAATAC
1 GCCACAAAGGCTCCCCAAATAATAC
84842521 GCCACA
1 GCCACA
84842527 TAACTTTTTA
Statistics
Matches: 42, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
24 1 0.02
25 40 0.95
26 1 0.02
ACGTcount: A:0.35, C:0.33, G:0.15, T:0.17
Consensus pattern (25 bp):
GCCACAAAGGCTCCCCAAATAATAC
Found at i:84842560 original size:49 final size:50
Alignment explanation
Indices: 84842442--84842602 Score: 225
Period size: 50 Copynumber: 3.2 Consensus size: 50
84842432 TTTCTAAATG
** * *
84842442 ACTTGCCACAAGGGCTCCCCAAATAATACGCCACATAGGCTTTTCAAATA
1 ACTTGCCACAAAAGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* * *
84842492 ACTTGCCACAAAGGCTCCCCAAGTAATACGCCACATA-ACTTTTTAGATA
1 ACTTGCCACAAAAGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
* * *
84842541 ACTTACCACAAAAGTTCCCCAAGTAATACGCAACATAGGCTTTTCAGATA
1 ACTTGCCACAAAAGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
84842591 ACTTGCCACAAA
1 ACTTGCCACAAA
84842603 GGCCCTATGT
Statistics
Matches: 98, Mismatches: 12, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
49 42 0.43
50 56 0.57
ACGTcount: A:0.36, C:0.29, G:0.12, T:0.23
Consensus pattern (50 bp):
ACTTGCCACAAAAGCTCCCCAAGTAATACGCCACATAGGCTTTTCAGATA
Found at i:84849395 original size:28 final size:28
Alignment explanation
Indices: 84849352--84849406 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
84849342 CCGACAAAGA
*
84849352 AAGTGACATTTGATAACTCTAACTCGAT
1 AAGTGACATTTCATAACTCTAACTCGAT
*
84849380 AAGTGACATTTCATAACTCTGACTCGA
1 AAGTGACATTTCATAACTCTAACTCGA
84849407 CGATCGAGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.31
Consensus pattern (28 bp):
AAGTGACATTTCATAACTCTAACTCGAT
Found at i:84854596 original size:16 final size:16
Alignment explanation
Indices: 84854577--84854607 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
84854567 GAAGGCACTT
84854577 TTGAGTTATAAAAATG
1 TTGAGTTATAAAAATG
*
84854593 TTGAGTTATGAAAAT
1 TTGAGTTATAAAAAT
84854608 TAAAGACGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (16 bp):
TTGAGTTATAAAAATG
Found at i:84855032 original size:23 final size:24
Alignment explanation
Indices: 84855000--84855047 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
84854990 TAGAGCTTTT
*
84855000 TAAGGGTTTTT-GTTTAGGATTTG
1 TAAGGATTTTTAGTTTAGGATTTG
84855023 TAAGGATTTTTAGAGTTTAGGATTT
1 TAAGGATTTTT--AGTTTAGGATTT
84855048 AGGTCCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
26 11 0.52
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (24 bp):
TAAGGATTTTTAGTTTAGGATTTG
Found at i:84862412 original size:13 final size:13
Alignment explanation
Indices: 84862396--84862428 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
84862386 TGAGAGAATT
84862396 TAAATAAATAAAA
1 TAAATAAATAAAA
*
84862409 TAAATAAATAATA
1 TAAATAAATAAAA
84862422 -AAATAAA
1 TAAATAAA
84862429 CAAACGACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
TAAATAAATAAAA
Found at i:84862417 original size:8 final size:9
Alignment explanation
Indices: 84862397--84862428 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
84862387 GAGAGAATTT
84862397 AAATAAATA
1 AAATAAATA
84862406 AAATAAAT-
1 AAATAAATA
84862414 AAAT-AATA
1 AAATAAATA
84862422 AAATAAA
1 AAATAAA
84862429 CAAACGACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 3 0.14
8 8 0.38
9 10 0.48
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATAAATA
Found at i:84864107 original size:18 final size:18
Alignment explanation
Indices: 84864084--84864121 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
84864074 GACTTATGAC
84864084 TTAGTATGCATTTGCTGG
1 TTAGTATGCATTTGCTGG
84864102 TTAGTATGCATTTGCTGG
1 TTAGTATGCATTTGCTGG
84864120 TT
1 TT
84864122 TAAGTAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.16, C:0.11, G:0.26, T:0.47
Consensus pattern (18 bp):
TTAGTATGCATTTGCTGG
Found at i:84875255 original size:30 final size:30
Alignment explanation
Indices: 84875219--84875278 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
84875209 ATTTAATACG
*
84875219 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
*
84875249 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTGCAAAATTACACTTTTGCCCCTA
84875279 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.25, G:0.07, T:0.40
Consensus pattern (30 bp):
AACTTTTGCAAAATTACACTTTTGCCCCTA
Found at i:84876719 original size:18 final size:18
Alignment explanation
Indices: 84876696--84876731 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
84876686 AAGAAGATAG
84876696 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
84876714 TTACAAAAATTGATTATA
1 TTACAAAAATTGATTATA
84876732 GAATAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (18 bp):
TTACAAAAATTGATTATA
Found at i:84876739 original size:18 final size:18
Alignment explanation
Indices: 84876698--84876739 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
84876688 GAAGATAGTT
**
84876698 ACAAAAATTGATTATATT
1 ACAAAAATTGATTATAGA
84876716 ACAAAAATTGATTATAGA
1 ACAAAAATTGATTATAGA
*
84876734 ATAAAA
1 ACAAAA
84876740 TTATACGCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.31
Consensus pattern (18 bp):
ACAAAAATTGATTATAGA
Found at i:84880104 original size:2 final size:2
Alignment explanation
Indices: 84880097--84880129 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
84880087 TTCATTTCAA
84880097 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
84880130 GGGCTCCAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:84880786 original size:11 final size:11
Alignment explanation
Indices: 84880724--84880794 Score: 63
Period size: 11 Copynumber: 6.5 Consensus size: 11
84880714 CTGAACTAAA
* *
84880724 AGAATTAAGTG
1 AGAATTGAGAG
*
84880735 AGAATTAAGAG
1 AGAATTGAGAG
*
84880746 AGAATTGAAAG
1 AGAATTGAGAG
*
84880757 AGGATTGAGA-
1 AGAATTGAGAG
84880767 ATGAATTGAGAG
1 A-GAATTGAGAG
*
84880779 AGAGTTGAGAG
1 AGAATTGAGAG
*
84880790 TGAAT
1 AGAAT
84880795 AAAAAAGTGG
Statistics
Matches: 49, Mismatches: 9, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
10 1 0.02
11 47 0.96
12 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AGAATTGAGAG
Found at i:84881154 original size:30 final size:30
Alignment explanation
Indices: 84881120--84881181 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
84881110 CCTGTATCTG
84881120 ATAAGTTTTTAATAATATATAATTTTATTT
1 ATAAGTTTTTAATAATATATAATTTTATTT
84881150 ATAAGTTTTTAATAATATATAATTTTATTT
1 ATAAGTTTTTAATAATATATAATTTTATTT
84881180 AT
1 AT
84881182 TCTTTTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.56
Consensus pattern (30 bp):
ATAAGTTTTTAATAATATATAATTTTATTT
Found at i:84881175 original size:16 final size:16
Alignment explanation
Indices: 84881126--84881176 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
84881116 TCTGATAAGT
84881126 TTTTAATAATATATAA
1 TTTTAATAATATATAA
84881142 TTTT-AT--T-TATAA
1 TTTTAATAATATATAA
84881154 GTTTTTAATAATATATAA
1 --TTTTAATAATATATAA
84881172 TTTTA
1 TTTTA
84881177 TTTATTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 12
0.71 0.00 0.29
Matches are distributed among these distances:
12 5 0.17
13 1 0.03
14 4 0.14
15 4 0.14
16 9 0.31
17 1 0.03
18 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTTTAATAATATATAA
Found at i:84881187 original size:28 final size:28
Alignment explanation
Indices: 84881125--84881190 Score: 98
Period size: 30 Copynumber: 2.3 Consensus size: 28
84881115 ATCTGATAAG
84881125 TTTTTAATAATATATAATTTTATTTATAA
1 TTTTTAATAATATATAATTTTATTTAT-A
84881154 GTTTTTAATAATATATAATTTTATTTAT-
1 -TTTTTAATAATATATAATTTTATTTATA
84881182 TCTTTTAAT
1 T-TTTTAAT
84881191 GATTTTTACT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
27 1 0.03
28 7 0.20
30 27 0.77
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (28 bp):
TTTTTAATAATATATAATTTTATTTATA
Found at i:84884259 original size:19 final size:19
Alignment explanation
Indices: 84884237--84884290 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
84884227 AAATTAGAAA
*
84884237 AAATATTATAAAAATTATT
1 AAATTTTATAAAAATTATT
*
84884256 AAATTTTAGAAAAATTATT
1 AAATTTTATAAAAATTATT
84884275 AAATTTTAATAAAAAT
1 AAATTTT-ATAAAAAT
84884291 ATAAAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 24 0.77
20 7 0.23
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (19 bp):
AAATTTTATAAAAATTATT
Found at i:84884319 original size:30 final size:31
Alignment explanation
Indices: 84884278--84884335 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
84884268 AATTATTAAA
*
84884278 TTTTAATAAAAAT-ATAAAAAATTAAAATTT
1 TTTTAATAAAAATCATAAAAAATAAAAATTT
* *
84884308 TTTTTATAAAAATCTTAAAAAATAAAAA
1 TTTTAATAAAAATCATAAAAAATAAAAA
84884336 AATTTAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (31 bp):
TTTTAATAAAAATCATAAAAAATAAAAATTT
Found at i:84884587 original size:10 final size:10
Alignment explanation
Indices: 84884574--84884643 Score: 85
Period size: 10 Copynumber: 7.3 Consensus size: 10
84884564 CTTCATAAAA
84884574 TTTTATAATT
1 TTTTATAATT
84884584 TTTT-T-ATAT
1 TTTTATAAT-T
* *
84884593 TTCTAT-ATA
1 TTTTATAATT
84884602 TTTTATAATT
1 TTTTATAATT
84884612 TTTTATAATT
1 TTTTATAATT
84884622 TTTTATAA-T
1 TTTTATAATT
84884631 TTTTATAATT
1 TTTTATAATT
84884641 TTT
1 TTT
84884644 AATATTTATT
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
8 2 0.04
9 19 0.37
10 31 0.60
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:84884596 original size:38 final size:38
Alignment explanation
Indices: 84884542--84884638 Score: 101
Period size: 38 Copynumber: 2.6 Consensus size: 38
84884532 ATTTCTTTAC
*
84884542 ATTTTGTATAACTTTCTTATAACTTCATAAAATTTTATA
1 ATTTTTTATAA-TTTCTTATAACTTCATAAAATTTTATA
* * **
84884581 ATTTTTT-TATATTTC-TATATATTTTATAATTTTTTATA
1 ATTTTTTATA-ATTTCTTATA-ACTTCATAAAATTTTATA
84884619 ATTTTTTATAATTT-TTATAA
1 ATTTTTTATAATTTCTTATAA
84884639 TTTTTAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
37 5 0.10
38 35 0.71
39 9 0.18
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (38 bp):
ATTTTTTATAATTTCTTATAACTTCATAAAATTTTATA
Found at i:84884605 original size:19 final size:18
Alignment explanation
Indices: 84884573--84884650 Score: 63
Period size: 19 Copynumber: 4.2 Consensus size: 18
84884563 ACTTCATAAA
84884573 ATTTTATA-ATTTTTTTAT
1 ATTTTATATA-TTTTTTAT
*
84884591 ATTTCTATATATTTTATA-
1 ATTT-TATATATTTTTTAT
*
84884609 ATTTTTTATAATTTTTTAT
1 ATTTTATAT-ATTTTTTAT
*
84884628 AATTTT-TATAATTTTTAAT
1 -ATTTTATAT-ATTTTTTAT
84884647 ATTT
1 ATTT
84884651 ATTTTTAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
17 4 0.08
18 19 0.37
19 22 0.43
20 6 0.12
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTATATATTTTTTAT
Found at i:84884610 original size:28 final size:29
Alignment explanation
Indices: 84884548--84884643 Score: 99
Period size: 29 Copynumber: 3.3 Consensus size: 29
84884538 TTACATTTTG
* * * * *
84884548 TATAACTTTCTTATAACTTCATAAAATTT
1 TATAATTTTTTTATAATTTTATATAATTT
84884577 TATAATTTTTTTAT-ATTTCTATAT-ATTT
1 TATAATTTTTTTATAATTT-TATATAATTT
*
84884605 TATAA-TTTTTTATAATTTTTTATAATTTT
1 TATAATTTTTTTATAATTTTATATAA-TTT
84884634 TATAATTTTT
1 TATAATTTTT
84884644 AATATTTATT
Statistics
Matches: 56, Mismatches: 6, Indels: 9
0.79 0.08 0.13
Matches are distributed among these distances:
27 12 0.21
28 17 0.30
29 23 0.41
30 4 0.07
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (29 bp):
TATAATTTTTTTATAATTTTATATAATTT
Found at i:84884614 original size:9 final size:9
Alignment explanation
Indices: 84884574--84884644 Score: 81
Period size: 9 Copynumber: 7.6 Consensus size: 9
84884564 CTTCATAAAA
84884574 TTTTATAAT
1 TTTTATAAT
*
84884583 TTTTTTATAT
1 TTTTATA-AT
*
84884593 TTCTAT-AT
1 TTTTATAAT
84884601 ATTTTATAATT
1 -TTTTATAA-T
84884612 TTTTATAATT
1 TTTTATAA-T
84884622 TTTTATAAT
1 TTTTATAAT
84884631 TTTTATAAT
1 TTTTATAAT
84884640 TTTTA
1 TTTTA
84884645 ATATTTATTT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
8 2 0.04
9 26 0.48
10 25 0.46
11 1 0.02
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:84884659 original size:29 final size:29
Alignment explanation
Indices: 84884602--84884660 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
84884592 TTTCTATATA
*
84884602 TTTTATAATTTTTTATAATTTTTTATAAT
1 TTTTATAATTTTTAATAATTTTTTATAAT
*
84884631 TTTTATAATTTTTAAT-ATTTATTTTTAAT
1 TTTTATAATTTTTAATAATTT-TTTATAAT
84884660 T
1 T
84884661 AAAATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
28 4 0.15
29 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTATAATTTTTAATAATTTTTTATAAT
Found at i:84884845 original size:89 final size:90
Alignment explanation
Indices: 84884720--84884949 Score: 286
Period size: 89 Copynumber: 2.5 Consensus size: 90
84884710 TTTAATAAAT
* *
84884720 GTAGGGGCTTAATTGCTTTTATTTTTGAAAAAGTTTGAGGATCTTTTTGATGTATTTTGAAAGTT
1 GTAGGGGCTTAATTGC--TT-TTTTTG-AAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATT
* *
84884785 CAAGTACCCAATTGAATGC-GAAAAAA-A
62 CAAGTACCCAAATGAATGCAAAAAAAAGA
* * *
84884812 GTAGGGGCTTAATTGGTTTTTTTGAAAAGGTTTGAGGGTCTTTTTGATGCATTTTGAAAATTTAA
1 GTAGGGGCTTAATTGCTTTTTTTGAAAA-GTTTGAGGATCTTTTTGATGCATTTTGAAAATTCAA
*
84884877 GTACCCAAATGAGTGCAAAAAAAAAAAAGA
65 GTACCCAAATGAATGC----AAAAAAAAGA
84884907 GTAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGGA-CTTTTT
1 GTAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGGATCTTTTT
84884950 ACACCCTCAA
Statistics
Matches: 121, Mismatches: 10, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
88 4 0.03
89 52 0.43
90 2 0.02
92 15 0.12
93 6 0.05
94 14 0.12
95 28 0.23
ACGTcount: A:0.32, C:0.08, G:0.23, T:0.38
Consensus pattern (90 bp):
GTAGGGGCTTAATTGCTTTTTTTGAAAAGTTTGAGGATCTTTTTGATGCATTTTGAAAATTCAAG
TACCCAAATGAATGCAAAAAAAAGA
Found at i:84890209 original size:54 final size:55
Alignment explanation
Indices: 84890128--84890236 Score: 193
Period size: 54 Copynumber: 2.0 Consensus size: 55
84890118 CTTGGAATGC
84890128 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGG-TTTTTTGGGTGGTCTTT
1 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
* *
84890182 ATATATTCACTCCATACGATATGAGAGGAATGAAAGGTTTTTTTTGGTGGTCTTT
1 ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
84890237 TTTTTGCTGC
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
54 36 0.69
55 16 0.31
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (55 bp):
ATATATTCACTCCATAAGATATGAGAGGAATGAAAGGTTTTTTTGGGTGGTCTTT
Found at i:84891293 original size:18 final size:17
Alignment explanation
Indices: 84891266--84891313 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 17
84891256 AGAAAAGAGG
*
84891266 TATTTCTATTTTCATATT
1 TATTTATATTTTCAT-TT
84891284 TATTTATATTTTCATTT
1 TATTTATATTTTCATTT
* *
84891301 CATTTATACTTTC
1 TATTTATATTTTC
84891314 CAACATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (17 bp):
TATTTATATTTTCATTT
Found at i:84891307 original size:17 final size:18
Alignment explanation
Indices: 84891267--84891313 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
84891257 GAAAAGAGGT
* *
84891267 ATTTCTATTTTCATATTT
1 ATTTATATTTTCATATTC
84891285 ATTTATATTTTCAT-TTC
1 ATTTATATTTTCATATTC
*
84891302 ATTTATACTTTC
1 ATTTATATTTTC
84891314 CAACATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTATATTTTCATATTC
Found at i:84891482 original size:2 final size:2
Alignment explanation
Indices: 84891470--84891503 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
84891460 AATGGCTGAT
*
84891470 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
84891504 AGTTATTTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:84900095 original size:17 final size:17
Alignment explanation
Indices: 84900073--84900109 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
84900063 AGAACTAAAT
84900073 ATTATGTTGCTACGACG
1 ATTATGTTGCTACGACG
*
84900090 ATTATGTTGCTACGATG
1 ATTATGTTGCTACGACG
84900107 ATT
1 ATT
84900110 CTAACATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.41
Consensus pattern (17 bp):
ATTATGTTGCTACGACG
Found at i:84901885 original size:23 final size:23
Alignment explanation
Indices: 84901855--84901964 Score: 132
Period size: 23 Copynumber: 4.8 Consensus size: 23
84901845 GAGCTGATGG
*
84901855 ACAGTAAGTTC-TACTGAGTTGAA
1 ACAGTAAGCTCTTAC-GAGTTGAA
* * * **
84901878 ACGGTAAGCTCTGATGACCTGAA
1 ACAGTAAGCTCTTACGAGTTGAA
*
84901901 TCAGTAAGCTCTTACGAGTTGAA
1 ACAGTAAGCTCTTACGAGTTGAA
84901924 ACAGTAAGCTCTTACGAGTTGAA
1 ACAGTAAGCTCTTACGAGTTGAA
*
84901947 ATAGTAAGCTCTTACGAG
1 ACAGTAAGCTCTTACGAG
84901965 CTGTGGTGAG
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
23 71 0.99
24 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (23 bp):
ACAGTAAGCTCTTACGAGTTGAA
Found at i:84903087 original size:27 final size:27
Alignment explanation
Indices: 84903042--84903174 Score: 146
Period size: 27 Copynumber: 5.0 Consensus size: 27
84903032 GTCACTAGAT
84903042 ACAGATAT-TGTGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
*
84903068 ACAGATATATGCGGCAGAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * * *
84903095 TCAGATA-ATTGTGGCATAGCCACCGGG
1 ACAGATATA-TGTGGCAGAGCCACCAGA
*
84903122 ACAGATATATGTGGCAAAGCCACCAGA
1 ACAGATATATGTGGCAGAGCCACCAGA
* * *
84903149 TCAGATA-ATTATGGCATAGCCACCAG
1 ACAGATATA-TGTGGCAGAGCCACCAG
84903175 GACGCTTCCT
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
26 10 0.11
27 79 0.88
28 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
ACAGATATATGTGGCAGAGCCACCAGA
Found at i:84903126 original size:54 final size:54
Alignment explanation
Indices: 84903038--84903177 Score: 210
Period size: 54 Copynumber: 2.6 Consensus size: 54
84903028 CGGAGTCACT
* * *
84903038 AGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGCGGCAGAGCCACC
1 AGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGCCACC
* *
84903092 AGATCAGATAATTGTGGCATAGCCACCGGGACAGATATATGTGGCAAAGCCACC
1 AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGCCACC
*
84903146 AGATCAGATAATTATGGCATAGCCACCAGGAC
1 AGATCAGATAATTGTGGCATAGCCACCAGGAC
84903178 GCTTCCTCCA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
AGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGCGGCAAAGCCACC
Found at i:84904824 original size:26 final size:26
Alignment explanation
Indices: 84904761--84904866 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
84904751 TGAAATGCCC
*
84904761 ATCATGGAACATTTACCTAAACCA--
1 ATCATGGAACATTTACCTAACCCATT
84904785 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84904811 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84904837 ATCATGGAACATTTACCTAGCTCATT
1 ATCATGGAACATTTACCTAACCCATT
84904863 ATCA
1 ATCA
84904867 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
24 23 0.32
26 50 0.68
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84909800 original size:27 final size:27
Alignment explanation
Indices: 84909752--84909909 Score: 173
Period size: 27 Copynumber: 5.9 Consensus size: 27
84909742 GCGAGGCTGC
* * *
84909752 CAGATATTGTGACGGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
84909779 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
84909805 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
84909832 CAGATAATTGTGGTATAGCCACC-G-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
84909858 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
84909885 CAGATAATTATGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
84909910 GACGCTTCTC
Statistics
Matches: 112, Mismatches: 11, Indels: 16
0.81 0.08 0.12
Matches are distributed among these distances:
25 2 0.02
26 27 0.24
27 79 0.71
28 4 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:84909836 original size:53 final size:54
Alignment explanation
Indices: 84909752--84909909 Score: 223
Period size: 53 Copynumber: 3.0 Consensus size: 54
84909742 GCGAGGCTGC
* * * *
84909752 CAGATAT-TGTGACGGAGTCACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAA
1 CAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCACCAGAA
* *
84909805 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGTATAGCCACC-GGA
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
*
84909858 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTATGGCATAGCCACCAG
1 CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAG
84909910 GACGCTTCTC
Statistics
Matches: 94, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
53 62 0.66
54 32 0.34
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (54 bp):
CAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCACCAGAA
Found at i:84911528 original size:26 final size:26
Alignment explanation
Indices: 84911497--84911604 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
84911487 TGAAATGCCC
*
84911497 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
84911523 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
84911549 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
84911575 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
84911601 ATCA
1 ATCA
84911605 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:84913287 original size:40 final size:42
Alignment explanation
Indices: 84913214--84913291 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 42
84913204 CTTGGAAAAT
* * *
84913214 AAATAATATAAAAAATGAGAAGATAATCTTGGGTTGTTCAAA
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
*
84913256 AAATAAT-TTAAAAA-GAGAAGAAAAACATGGGTTGTT
1 AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTT
84913292 GGAGTTACCC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 19 0.59
41 6 0.19
42 7 0.22
ACGTcount: A:0.51, C:0.04, G:0.18, T:0.27
Consensus pattern (42 bp):
AAATAATATAAAAAATGAGAAGAAAAACATGGGTTGTTCAAA
Found at i:84913823 original size:29 final size:29
Alignment explanation
Indices: 84913781--84913839 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
84913771 AAGGGTTTGA
*
84913781 TTGGTTAGATTAAAATTAAATGAAATGAG
1 TTGGTTAGACTAAAATTAAATGAAATGAG
84913810 TTGGTTAGACTAAAATTAAATGAAATGAG
1 TTGGTTAGACTAAAATTAAATGAAATGAG
84913839 T
1 T
84913840 AAGTATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (29 bp):
TTGGTTAGACTAAAATTAAATGAAATGAG
Found at i:84916223 original size:43 final size:43
Alignment explanation
Indices: 84916156--84916324 Score: 155
Period size: 43 Copynumber: 4.0 Consensus size: 43
84916146 AAAGCTCGTA
* * *
84916156 CAATGCC-ATATCCCAAATATGGTCTTACATGTTATCACATAT
1 CAATGCCAATGTCCCAAATATGGTCTTACACGTAATCACATAT
* * * ** *
84916198 CAATGCCACTGTCCCAGATAGGGTCTTACACAAAATCGA-ATAA
1 CAATGCCAATGTCCCAAATATGGTCTTACACGTAATC-ACATAT
* ** * *
84916241 CGACACCAATGTCCCAGACATGGTCTTACACGTAATCACA-AT
1 CAATGCCAATGTCCCAAATATGGTCTTACACGTAATCACATAT
* *
84916283 ACAATGCCAATGTCCCAAAAATGGTCTTACATGTAATCACAT
1 -CAATGCCAATGTCCCAAATATGGTCTTACACGTAATCACAT
84916325 CTTGGTAATC
Statistics
Matches: 98, Mismatches: 24, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
42 9 0.09
43 88 0.90
44 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAAATATGGTCTTACACGTAATCACATAT
Found at i:84917847 original size:56 final size:56
Alignment explanation
Indices: 84917761--84917893 Score: 187
Period size: 56 Copynumber: 2.4 Consensus size: 56
84917751 ATGGCATCGA
* * * * *
84917761 TATATCTGTGCAAGTAAGACCACGTTTAATACTTTGGCA-TCGATATGTGATTTCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGG-AGTCGATATGTGACTCCGT
*
84917817 TATATGTGTGCGAGTAAGACCACGTTTAATAGATTGGAGTCGATATGTGACTCCGT
1 TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
*
84917873 CATATGTGTGCGAGTAAGACC
1 TATATGTGTGCGAGTAAGACC
84917894 CTGTCTGGGA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
55 1 0.01
56 68 0.99
ACGTcount: A:0.27, C:0.16, G:0.24, T:0.33
Consensus pattern (56 bp):
TATATGTGTGCGAGTAAGACCACGTTTAATACATTGGAGTCGATATGTGACTCCGT
Found at i:84919518 original size:38 final size:38
Alignment explanation
Indices: 84919467--84919540 Score: 148
Period size: 38 Copynumber: 1.9 Consensus size: 38
84919457 TTCGGTTATG
84919467 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
84919505 TAATGAAGTAGATATAAATAATATTTGTATGTTTTT
1 TAATGAAGTAGATATAAATAATATTTGTATGTTTTT
84919541 TATTATTGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.46
Consensus pattern (38 bp):
TAATGAAGTAGATATAAATAATATTTGTATGTTTTTGA
Found at i:84919703 original size:2 final size:2
Alignment explanation
Indices: 84919696--84919723 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84919686 GGTTATATGG
84919696 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84919724 TTAGCCGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84919750 original size:15 final size:15
Alignment explanation
Indices: 84919730--84919763 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
84919720 ATATTTAGCC
84919730 GAATATGTGATTATT
1 GAATATGTGATTATT
*
84919745 GAATATGTGGTTATT
1 GAATATGTGATTATT
84919760 GAAT
1 GAAT
84919764 TAGTTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (15 bp):
GAATATGTGATTATT
Found at i:84922399 original size:24 final size:24
Alignment explanation
Indices: 84922372--84922422 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
84922362 ATAAAATATG
84922372 TAGACTTCTTCAAACAGCCAATAA
1 TAGACTTCTTCAAACAGCCAATAA
* * *
84922396 TAGACTTTTTCAAATAGTCAATAA
1 TAGACTTCTTCAAACAGCCAATAA
84922420 TAG
1 TAG
84922423 TTCAGATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (24 bp):
TAGACTTCTTCAAACAGCCAATAA
Found at i:84932322 original size:26 final size:27
Alignment explanation
Indices: 84932281--84932348 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
84932271 ACCCCATATT
* * *
84932281 GGTAAAATAACCATTATAGC-CTAAGA
1 GGTAAAATGACTATTATAACACTAAGA
*
84932307 GGTAAAATGACTATTATAACACTATGA
1 GGTAAAATGACTATTATAACACTAAGA
84932334 GGTAAAATGACTATT
1 GGTAAAATGACTATT
84932349 TAAGCATGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 17 0.46
27 20 0.54
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (27 bp):
GGTAAAATGACTATTATAACACTAAGA
Found at i:84933749 original size:29 final size:28
Alignment explanation
Indices: 84933696--84933783 Score: 131
Period size: 28 Copynumber: 3.1 Consensus size: 28
84933686 TTGCATGACA
*
84933696 ATGAATGTGATTAGGCCTAATGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
84933724 ATGAATGTGATTTGGGCCTAATGGGCCAT
1 ATGAATGTGA-TTGGGCCTAATGGGCCAT
* * *
84933753 ATGAAAGAGATTGGGCCTAGTGGGCCAT
1 ATGAATGTGATTGGGCCTAATGGGCCAT
84933781 ATG
1 ATG
84933784 CATATATGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
28 30 0.55
29 25 0.45
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (28 bp):
ATGAATGTGATTGGGCCTAATGGGCCAT
Found at i:84933776 original size:28 final size:28
Alignment explanation
Indices: 84933704--84933783 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 28
84933694 CAATGAATGT
* * *
84933704 GATTAGGCCTAATGGGCCATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
84933732 GATTTGGGCCTAATGGGCCATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
*
84933761 GATTGGGCCTAGTGGGCCATATG
1 GATTGGGCCTAATGGGCCATATG
84933784 CATATATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
28 22 0.47
29 25 0.53
ACGTcount: A:0.26, C:0.15, G:0.33, T:0.26
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:84948793 original size:28 final size:28
Alignment explanation
Indices: 84948753--84948808 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
84948743 TGTAGGCATG
84948753 AAATTGGCCAAAAACAAGCCATTTCCAT
1 AAATTGGCCAAAAACAAGCCATTTCCAT
* *
84948781 AAATTGGCCAAAATCAAGCTATTTCCAT
1 AAATTGGCCAAAAACAAGCCATTTCCAT
84948809 CACCCATTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.41, C:0.23, G:0.11, T:0.25
Consensus pattern (28 bp):
AAATTGGCCAAAAACAAGCCATTTCCAT
Found at i:84951154 original size:17 final size:17
Alignment explanation
Indices: 84951128--84951166 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
84951118 AAACAGTCTA
* *
84951128 CCAAACCTTAAAGTTTG
1 CCAAAACTTAAAGTTCG
*
84951145 CCAAAACTTAGAGTTCG
1 CCAAAACTTAAAGTTCG
84951162 CCAAA
1 CCAAA
84951167 TGGAGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (17 bp):
CCAAAACTTAAAGTTCG
Found at i:84952851 original size:24 final size:25
Alignment explanation
Indices: 84952824--84952884 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
84952814 AAAGACATTT
*
84952824 TGGTTAATTCTCT-AGAAGAT-TTTG
1 TGGTTAATTCTCTAAAAAG-TCTTTG
84952848 TGGTTAATTCTCTAAAAAGTCTTTG
1 TGGTTAATTCTCTAAAAAGTCTTTG
*
84952873 TGGTAAATTCTC
1 TGGTTAATTCTC
84952885 CGAAAAGCCA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
24 14 0.42
25 19 0.58
ACGTcount: A:0.26, C:0.11, G:0.18, T:0.44
Consensus pattern (25 bp):
TGGTTAATTCTCTAAAAAGTCTTTG
Found at i:84952890 original size:25 final size:25
Alignment explanation
Indices: 84952844--84952901 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
84952834 TCTAGAAGAT
* * *
84952844 TTTGTGGTTAATTCTCTAAAAAGTC
1 TTTGTGGTAAATTCTCCAAAAAGCC
*
84952869 TTTGTGGTAAATTCTCCGAAAAGCC
1 TTTGTGGTAAATTCTCCAAAAAGCC
*
84952894 ATTGTGGT
1 TTTGTGGT
84952902 GAGTTGTTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (25 bp):
TTTGTGGTAAATTCTCCAAAAAGCC
Found at i:84953367 original size:14 final size:14
Alignment explanation
Indices: 84953348--84953376 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
84953338 CATGCCATCC
84953348 GATCAAATATAGAA
1 GATCAAATATAGAA
84953362 GATCAAATATAGAA
1 GATCAAATATAGAA
84953376 G
1 G
84953377 GGTGAGGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.07, G:0.17, T:0.21
Consensus pattern (14 bp):
GATCAAATATAGAA
Found at i:84954796 original size:14 final size:14
Alignment explanation
Indices: 84954754--84954799 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
84954744 AACAGGATGG
84954754 GAAAAATGAAAATAA
1 GAAAAATG-AAATAA
*
84954769 -AAAAATG-AACAA
1 GAAAAATGAAATAA
*
84954781 GAAGAATGAAATAA
1 GAAAAATGAAATAA
84954795 GAAAA
1 GAAAA
84954800 GGGAAAAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
12 4 0.16
13 6 0.24
14 15 0.60
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (14 bp):
GAAAAATGAAATAA
Found at i:84959782 original size:28 final size:28
Alignment explanation
Indices: 84959748--84959801 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
84959738 CAATACAGTT
84959748 TGGGCCTAAGCCCA-TATCAGTAACAGAC
1 TGGGCCTAAGCCCATTA-CAGTAACAGAC
* *
84959776 TGGGCCTGAGCCTATTACAGTAACAG
1 TGGGCCTAAGCCCATTACAGTAACAG
84959802 TAACAGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
TGGGCCTAAGCCCATTACAGTAACAGAC
Found at i:84959831 original size:34 final size:34
Alignment explanation
Indices: 84959765--84959834 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
84959755 AAGCCCATAT
* *
84959765 CAGTAACAGACTGGGCCTGAGCCTATTACAGTAA
1 CAGTAACAGACTGGGCCTGAGCCCAATACAGTAA
** * *
84959799 CAGTAACAGTGTGGGCCTTAGCCCAATGCAGTAA
1 CAGTAACAGACTGGGCCTGAGCCCAATACAGTAA
84959833 CA
1 CA
84959835 ATACAGTACA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.31, C:0.24, G:0.24, T:0.20
Consensus pattern (34 bp):
CAGTAACAGACTGGGCCTGAGCCCAATACAGTAA
Found at i:84965581 original size:51 final size:49
Alignment explanation
Indices: 84965505--84965642 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 49
84965495 TATTGTGAGG
84965505 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACT-TTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC--A-AACTGTTGA
* * *
84965556 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGACTGTTGG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAACTGTTGA
* * * *
84965605 TCGCATGTGTAGTACTAAGAGCAGGCTACTATACGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTAC
84965643 TAGATAGCTT
Statistics
Matches: 78, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
48 3 0.04
49 37 0.47
51 38 0.49
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (49 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAACTGTTGA
Found at i:84967048 original size:20 final size:20
Alignment explanation
Indices: 84966974--84967092 Score: 125
Period size: 20 Copynumber: 6.0 Consensus size: 20
84966964 TATCAGTATA
84966974 TGGCACAAAGCCAT-AAGTAG
1 TGGCACAAAGCCATCAA-TAG
* * * *
84966994 CGGCTCGAAGCCATCAGTAG
1 TGGCACAAAGCCATCAATAG
*
84967014 CGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
84967034 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
* * *
84967054 TGGCA-AAATTCAATGAATAG
1 TGGCACAAA-GCCATCAATAG
*
84967074 TGGCACAAAGCCATAAATA
1 TGGCACAAAGCCATCAATA
84967093 TCGCAGTAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 3 0.04
20 75 0.91
21 4 0.05
ACGTcount: A:0.39, C:0.23, G:0.22, T:0.16
Consensus pattern (20 bp):
TGGCACAAAGCCATCAATAG
Found at i:84974891 original size:51 final size:51
Alignment explanation
Indices: 84974813--84974916 Score: 181
Period size: 51 Copynumber: 2.0 Consensus size: 51
84974803 GCATGTTAAT
* *
84974813 TGTATGCTTAACATTAATAAATGTAATTAGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAAGAAATATAATTAGTAAGTTTTAACTCCTATTATA
*
84974864 TGTATGCTTAACATTAAGAAATATAATTGGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAAGAAATATAATTAGTAAGTTTTAACTCCTATTATA
84974915 TG
1 TG
84974917 AACTTACTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.42
Consensus pattern (51 bp):
TGTATGCTTAACATTAAGAAATATAATTAGTAAGTTTTAACTCCTATTATA
Found at i:84975424 original size:15 final size:15
Alignment explanation
Indices: 84975404--84975438 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
84975394 AGACAGAGGC
84975404 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
84975419 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
84975434 GTGTG
1 GTGTG
84975439 CTACACGGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.06, C:0.23, G:0.37, T:0.34
Consensus pattern (15 bp):
GTGTGTCTCAGCCGT
Found at i:84979297 original size:2 final size:2
Alignment explanation
Indices: 84979290--84979319 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
84979280 TTGTAAGCTC
84979290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84979320 GCATGCATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:84983289 original size:49 final size:50
Alignment explanation
Indices: 84983209--84983455 Score: 300
Period size: 49 Copynumber: 5.0 Consensus size: 50
84983199 AGCTATTTTG
* *
84983209 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
84983259 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
84983309 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
84983359 AGGTCACGTGTGTAGTACTAAATGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
84983409 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
84983456 CTTCGGCTAC
Statistics
Matches: 165, Mismatches: 30, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 80 0.48
50 47 0.28
51 38 0.23
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:85002479 original size:20 final size:19
Alignment explanation
Indices: 85002453--85002504 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 19
85002443 AGCAATGAAT
*
85002453 CTGTTCACCAAGAGATATAA
1 CTGTTCA-CAAGAGATACAA
*
85002473 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
85002490 CTGTTCATCAAGAGA
1 CTGTTCA-CAAGAGA
85002505 CAGAACTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 13 0.50
18 2 0.08
19 2 0.08
20 9 0.35
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:85004115 original size:27 final size:28
Alignment explanation
Indices: 85004052--85004117 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
85004042 CAAATGTGAG
*
85004052 TCTTATTTAGATATATTTCAATTATTAA
1 TCTTATTTATATATATTTCAATTATTAA
*
85004080 T-TTATTTATATATAATTT-AATT-TTTA
1 TCTTATTTATATAT-ATTTCAATTATTAA
85004106 TCTTATTTATAT
1 TCTTATTTATAT
85004118 GAATGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 4 0.12
27 25 0.74
28 5 0.15
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TCTTATTTATATATATTTCAATTATTAA
Found at i:85005138 original size:22 final size:23
Alignment explanation
Indices: 85005113--85005156 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
85005103 CAAATTTTAT
*
85005113 TTAAAACTAT-AAAAAAATTCCA
1 TTAAAAATATAAAAAAAATTCCA
85005135 TTAAAAATATAAAAAAAATTCC
1 TTAAAAATATAAAAAAAATTCC
85005157 CAAAAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.61, C:0.11, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAAAATATAAAAAAAATTCCA
Found at i:85005163 original size:23 final size:22
Alignment explanation
Indices: 85005115--85005165 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 22
85005105 AATTTTATTT
* *
85005115 AAAACTATAAAAAAATTCCATT
1 AAAAATATAAAAAAATTCCATA
*
85005137 AAAAATATAAAAAAAATTCCCAAA
1 AAAAATAT-AAAAAAATT-CCATA
85005161 AAAAA
1 AAAAA
85005166 ACTATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 7 0.29
23 9 0.38
24 8 0.33
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.20
Consensus pattern (22 bp):
AAAAATATAAAAAAATTCCATA
Done.