Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 187 of 290
Found at i:59990996 original size:46 final size:44
Alignment explanation
Indices: 59990829--59991002 Score: 161
Period size: 46 Copynumber: 3.8 Consensus size: 44
59990819 TGTAACCCGC
* * *
59990829 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAATGAACTCGGACTCAACTCAACGAGTTC--GCATTCGCAT
* * * *
59990875 CCATAAGTGAACTAGGACTCAACTCAACGAGTTCGGATGC-CTAGTT
1 CCATAAATGAACTCGGACTCAACTCAACGAGTTCGCATTCGC-A--T
* ** **
59990921 ACATTTCACAAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCA-TAAATGAACTCGGACTCAACTCAACGAGTTC-G-CATTCGCAT
59990968 CCATAAATGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAATGAACTCGGACTCAACTCAACGAGTTCG
59991003 GATGCCCAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 62 0.61
47 28 0.27
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
CCATAAATGAACTCGGACTCAACTCAACGAGTTCGCATTCGCAT
Found at i:60002720 original size:19 final size:19
Alignment explanation
Indices: 60002674--60002721 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
60002664 GTAAATATTT
*
60002674 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAAGTAGA
*
60002692 TAAATCTTATTTAAGTAGA
1 TAAATTTTATTTAAGTAGA
*
60002711 TAAGTTTTATT
1 TAAATTTTATT
60002722 AGAATAAGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 4 0.16
19 21 0.84
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAAGTAGA
Found at i:60009676 original size:6 final size:6
Alignment explanation
Indices: 60009667--60009697 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
60009657 GGATGGATTG
*
60009667 GGGAGA GGGAGA GGGAGA GGGAGA GGAAGA G
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA G
60009698 AAGTGCGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.65, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:60009805 original size:6 final size:6
Alignment explanation
Indices: 60009789--60009823 Score: 61
Period size: 6 Copynumber: 5.7 Consensus size: 6
60009779 AGCCCCTTGT
60009789 GCTATTG GCTATG GCTATG GCTATG GCTATG GCTA
1 GCTA-TG GCTATG GCTATG GCTATG GCTATG GCTA
60009824 AAAAAATATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.86
7 4 0.14
ACGTcount: A:0.17, C:0.17, G:0.31, T:0.34
Consensus pattern (6 bp):
GCTATG
Found at i:60020603 original size:22 final size:23
Alignment explanation
Indices: 60020564--60020609 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
60020554 ATACTTCTTG
** *
60020564 ATCATAATTTTTTTATAA-ATGT
1 ATCATAATACTTTCATAACATGT
60020586 ATCATAATACTTTCATAACATGT
1 ATCATAATACTTTCATAACATGT
60020609 A
1 A
60020610 AATTATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (23 bp):
ATCATAATACTTTCATAACATGT
Found at i:60023121 original size:48 final size:47
Alignment explanation
Indices: 60023049--60023218 Score: 196
Period size: 48 Copynumber: 3.6 Consensus size: 47
60023039 TATGTAAGCC
*
60023049 AGTGTAAGACCATGTTTAGAACATGGCATCGGTACTGTTATGAGAGCT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGG-ACTGTTATGAGAGCT
* * * * ** * *
60023097 AGTGTAAGACCATGTATGGGACATGGCATTGGCCTCAATATGTGAGCC
1 AGTGTAAGACCATGTTTGGAACATGGCATCGGACT-GTTATGAGAGCT
* *
60023145 AGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGTT
1 AGTGTAAGACCATGTTTGGAACATGGCATCGG-ACTGTTATGAGAGCT
* *
60023193 AGTGCAAGACCATGTTTGGGACATGG
1 AGTGTAAGACCATGTTTGGAACATGG
60023219 TGATACGGGG
Statistics
Matches: 99, Mismatches: 21, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
47 2 0.02
48 96 0.97
49 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGAACATGGCATCGGACTGTTATGAGAGCT
Found at i:60023202 original size:96 final size:96
Alignment explanation
Indices: 60023038--60023218 Score: 299
Period size: 96 Copynumber: 1.9 Consensus size: 96
60023028 ACGCTGGGGT
* *
60023038 ATATGTAAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGTACTGTTATGAGAGCTAGTGTA
1 ATATGTAAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCACTGTTATGAGAGCTAGTGCA
60023103 AGACCATGTATGGGACATGGCATTGGCCTCA
66 AGACCATGTATGGGACATGGCATTGGCCTCA
* * * *
60023134 ATATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGTTAGTGCA
1 ATATGTAAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCACTGTTATGAGAGCTAGTGCA
*
60023199 AGACCATGTTTGGGACATGG
66 AGACCATGTATGGGACATGG
60023219 TGATACGGGG
Statistics
Matches: 78, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 78 1.00
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.28
Consensus pattern (96 bp):
ATATGTAAGCCAGTGTAAGACCATGTTTAGAACATGGCATCGGCACTGTTATGAGAGCTAGTGCA
AGACCATGTATGGGACATGGCATTGGCCTCA
Found at i:60025468 original size:23 final size:22
Alignment explanation
Indices: 60025416--60025468 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
60025406 TCCACGTCTT
*
60025416 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
60025438 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
60025461 TTTCTTTT
1 TTTCTTTT
60025469 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:60028014 original size:48 final size:48
Alignment explanation
Indices: 60027958--60028066 Score: 191
Period size: 48 Copynumber: 2.3 Consensus size: 48
60027948 GACTCGTATC
* *
60027958 ACATGGCATCTGCCTTAATATGTGAGCCAGTGTAAGACCATGTCTGGG
1 ACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTCTGGG
*
60028006 ACATGGCATCGGCCTCAATATGTGAGCTAGTGTAAGACCATGTCTGGG
1 ACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTCTGGG
60028054 ACATGGCATCGGC
1 ACATGGCATCGGC
60028067 ATCTTACTCT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 58 1.00
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (48 bp):
ACATGGCATCGGCCTCAATATGTGAGCCAGTGTAAGACCATGTCTGGG
Found at i:60030519 original size:93 final size:93
Alignment explanation
Indices: 60030403--60030575 Score: 276
Period size: 93 Copynumber: 1.9 Consensus size: 93
60030393 TGCCCATAAG
* * *
60030403 TGAACTTGGACTCAAGTCAACGAGCTCGGGC-GTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 TGAACTCGGACTCAACTCAACGAGCTCGGACAGTTC-CATCCATAAGTGAACTCGGACTCAACTC
60030467 AACGAGCTCGGATGCCTAGTTACATCGCT
65 AACGAGCTCGGATGCCTAGTTACATCGCT
* *
60030496 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTCCATCCATAAGTGAACTCGGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCATCCATAAGTGAACTCGGACTCAACTCA
*
60030561 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
60030576 CAAACATCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
93 70 0.96
94 3 0.04
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCGCT
Found at i:60030571 original size:46 final size:46
Alignment explanation
Indices: 60030396--60030571 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
60030386 TGTAATCTGC
* * *
60030396 CCATAAGTGAACTTGGACTCAAGTCAACGAGCTCGGGC-GTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTTC-CAT
*
60030442 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-AGTTCCAT
* *
60030492 CGC-T---TGAACTCGGACTCAACTCAACGAGTTCGGACATTTCCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCAT
*
60030535 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60030572 TGCCCAAACA
Statistics
Matches: 113, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 64 0.57
47 29 0.26
49 1 0.01
50 5 0.04
51 4 0.04
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACAGTTCCAT
Found at i:60030590 original size:46 final size:46
Alignment explanation
Indices: 60030447--60030590 Score: 152
Period size: 46 Copynumber: 3.1 Consensus size: 46
60030437 CGCATCCATA
* *
60030447 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCGCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
** * *
60030496 --TGAACTCGGACTCAACTCAACGAGTTCGGACATTTCCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
60030540 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
60030586 AGTGA
1 AGTGA
60030591 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
44 8 0.10
46 34 0.44
47 32 0.41
49 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:60033416 original size:25 final size:25
Alignment explanation
Indices: 60033388--60033438 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
60033378 CATTTTTGAT
60033388 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
60033413 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
60033438 A
1 A
60033439 TGAGGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.20
Consensus pattern (25 bp):
AAGTAGAATATCATCAACATAAAAA
Found at i:60035738 original size:15 final size:15
Alignment explanation
Indices: 60035690--60035769 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
60035680 CAAAGATAAC
*
60035690 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
60035704 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
60035719 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
60035734 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
60035749 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
60035764 AAGAAA
1 AAGAAA
60035770 CCAAGATACG
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:60038802 original size:45 final size:45
Alignment explanation
Indices: 60038662--60038802 Score: 139
Period size: 45 Copynumber: 3.1 Consensus size: 45
60038652 AACGCCCATA
*
60038662 AGTGAACTCGGACTCAACTCAACGAGCT-GGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTA---ACATC-CT
* * **
60038710 --CGAACTCGGACTCAACTCAACGAGTTCGGA--CATTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAACATCC-T
*
60038752 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAACATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAACATCCT
60038798 AGTGA
1 AGTGA
60038803 CATGTCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 17
0.74 0.10 0.17
Matches are distributed among these distances:
41 1 0.01
42 5 0.07
45 36 0.47
46 25 0.33
47 9 0.12
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAACATCCT
Found at i:60041251 original size:15 final size:15
Alignment explanation
Indices: 60041174--60041251 Score: 59
Period size: 15 Copynumber: 5.2 Consensus size: 15
60041164 AGAAAACCGA
*
60041174 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
* *
60041189 ATAGAGAAACCCAAA
1 ATAAAGAAACCCAAG
* * *
60041204 ATAAAGAGA-TCTAG
1 ATAAAGAAACCCAAG
* * *
60041218 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
60041234 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
60041249 ATA
1 ATA
60041252 TGATACTATG
Statistics
Matches: 47, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
14 2 0.04
15 43 0.91
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:60044296 original size:93 final size:93
Alignment explanation
Indices: 60044181--60044352 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
60044171 GCACATAAGT
* * *
60044181 GAACTCGGACTCAAGTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60044246 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
60044274 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
60044339 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
60044353 CAAACATCCT
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:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:60044348 original size:46 final size:46
Alignment explanation
Indices: 60044174--60044348 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
60044164 GTAACCCGCA
* * * *
60044174 CATAAGTGAACTCGGACTCAAGTCAACGAGCTCGGGCGTTCGCATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATC
* *
60044220 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATC
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATC
* *
60044270 TC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATC
1 -CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATC
*
60044313 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
60044349 TGCCCAAACA
Statistics
Matches: 109, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 63 0.58
47 28 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (46 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATC
Found at i:60045944 original size:21 final size:21
Alignment explanation
Indices: 60045915--60045954 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60045905 GTTAAGATGT
*
60045915 CACACGGGCGTGTCGCCCTTC
1 CACACGGGCGTGTCCCCCTTC
*
60045936 CACATGGGCGTGTCCCCCT
1 CACACGGGCGTGTCCCCCT
60045955 GTTTGCATTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.42, G:0.28, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTCCCCCTTC
Found at i:60047221 original size:25 final size:25
Alignment explanation
Indices: 60047193--60047243 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
60047183 CATTTTTGAT
60047193 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
60047218 AAGTAGAATATCATCAACATAAAAA
1 AAGTAGAATATCATCAACATAAAAA
60047243 A
1 A
60047244 TGAGGAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.61, C:0.12, G:0.08, T:0.20
Consensus pattern (25 bp):
AAGTAGAATATCATCAACATAAAAA
Found at i:60050124 original size:38 final size:38
Alignment explanation
Indices: 60050040--60050115 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
60050030 AACATATGCC
*
60050040 ATAATCAACCATTTACACCCCACTTTGAAATGCAAACA
1 ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
60050078 ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
1 ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
60050116 TACTTCAACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.43, C:0.29, G:0.04, T:0.24
Consensus pattern (38 bp):
ATAATCAACCATTTACACCCCACTTTAAAATGCAAACA
Found at i:60056591 original size:198 final size:194
Alignment explanation
Indices: 60056257--60056640 Score: 615
Period size: 198 Copynumber: 2.0 Consensus size: 194
60056247 CATCTTAGGT
* *
60056257 TTGGGTGTCGTAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCTCCTTTGAC
1 TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCCCCTTTGAC
* *
60056322 TCAATCTGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTGTCAGCTTATC
66 TCAATATGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTATCAGCTTATC
* * *
60056387 CACAATGGAATTGAACACCCATTGCATCGCTTTCACTTTGGAACTGAGAGCCTTCACCACAAGC
131 CACAATGGAATTGAACACCCATTGCATCACTTTCACATTGGAACCGAGAGCCTTCACCACAAGC
*
60056451 TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATGAGCCCCCCTTTGAG
1 TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCCCCTTTGA-
* *
60056516 CTCTTCAATATGTTCTTTCGAAGTCGACACCATAACATCGAGAGCATCATCCCTTACTATCAGCT
65 --C-TCAATATGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTATCAGCT
* * *
60056581 TCTCCACAATGGAATTGAACACCCATTGCATCACTTTCTCATTGGAACCGAGAGCTTTCA
127 TATCCACAATGGAATTGAACACCCATTGCATCACTTTCACATTGGAACCGAGAGCCTTCA
60056641 TCGCAAAATC
Statistics
Matches: 173, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
194 61 0.35
197 1 0.01
198 111 0.64
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (194 bp):
TTGGGTGTCGCAACCAACACCCCATTACCCAAAGAAGTTTTGCAAATAATAAGCCCCCCTTTGAC
TCAATATGTTCCTTCGAAGTCGACACCACAACATCGAGAGCATCATCCCTTACTATCAGCTTATC
CACAATGGAATTGAACACCCATTGCATCACTTTCACATTGGAACCGAGAGCCTTCACCACAAGC
Found at i:60057138 original size:55 final size:54
Alignment explanation
Indices: 60057009--60057112 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
60056999 AATCAAAAAA
* * *
60057009 ATATATAAAAATACATAAATATTTTTTTAAAATATAATAATAAATTTTAAATAC
1 ATATTTAAAAATAAATAAATATTTTTATAAAATATAATAATAAATTTTAAATAC
60057063 ATATTTAAAAATAAATAAATATTTTTCATAAAATATAATAAT-AATTTTAA
1 ATATTTAAAAATAAATAAATATTTTT-ATAAAATATAATAATAAATTTTAA
60057113 TATTTATATT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
54 32 0.70
55 14 0.30
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (54 bp):
ATATTTAAAAATAAATAAATATTTTTATAAAATATAATAATAAATTTTAAATAC
Found at i:60060726 original size:14 final size:14
Alignment explanation
Indices: 60060707--60060736 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60060697 ATGATTATTT
*
60060707 TAATCTAAATTTAC
1 TAATCTAAATTAAC
60060721 TAATCTAAATTAAC
1 TAATCTAAATTAAC
60060735 TA
1 TA
60060737 CAAACGCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:60063515 original size:17 final size:18
Alignment explanation
Indices: 60063461--60063531 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 18
60063451 TAAGTTGAAG
60063461 AAAAT-AAA-AAAATAAA
1 AAAATAAAATAAAATAAA
* * *
60063477 GCAACTAAAACAAAATTAAA
1 -AAAATAAAATAAAA-TAAA
*
60063497 AAAATAAGAT-AAAT-AA
1 AAAATAAAATAAAATAAA
60063513 AAAATAAAATAAAATAAA
1 AAAATAAAATAAAATAAA
60063531 A
1 A
60063532 TGAATAATAA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
16 11 0.26
17 8 0.19
18 9 0.21
19 10 0.24
20 4 0.10
ACGTcount: A:0.77, C:0.04, G:0.03, T:0.15
Consensus pattern (18 bp):
AAAATAAAATAAAATAAA
Found at i:60063545 original size:6 final size:5
Alignment explanation
Indices: 60063482--60063554 Score: 58
Period size: 5 Copynumber: 13.8 Consensus size: 5
60063472 ATAAAGCAAC
* * * *
60063482 TAAAA CAAAA TTAAA -AAAA TAAGA TAAATA AAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAA-A TAAAA TAAAA TAAAA TAAAA
60063532 TGAATAA TAATAA TAACAA TAAA
1 T-AA-AA TAA-AA TAA-AA TAAA
60063555 CTCGATGATT
Statistics
Matches: 55, Mismatches: 9, Indels: 8
0.76 0.12 0.11
Matches are distributed among these distances:
4 3 0.05
5 30 0.55
6 19 0.35
7 3 0.05
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (5 bp):
TAAAA
Found at i:60063626 original size:15 final size:14
Alignment explanation
Indices: 60063600--60063740 Score: 92
Period size: 15 Copynumber: 9.4 Consensus size: 14
60063590 TAATAATAGT
60063600 AAAAAAAT--AATA
1 AAAAAAATAAAATA
60063612 AAAAAAATAGAAAT-
1 AAAAAAATA-AAATA
60063626 AAAAAAATAAAATAA
1 AAAAAAATAAAAT-A
60063641 AATAAAAATATAAGTATA
1 AA-AAAAATA-AA--ATA
* *
60063659 AGAATAAT-AAATA
1 AAAAAAATAAAATA
60063672 AAACATAAATAAAATA
1 AAA-A-AAATAAAATA
*
60063688 AAAAATAGTAAAATA
1 AAAAA-AATAAAATA
*
60063703 AAAATAAATAATATA
1 AAAA-AAATAAAATA
*
60063718 ACAAATAATAATAAATA
1 A-AAAAAAT-A-AAATA
60063735 AAAAAA
1 AAAAAA
60063741 TGGGGTGGCT
Statistics
Matches: 102, Mismatches: 10, Indels: 30
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.08
13 9 0.09
14 11 0.11
15 34 0.33
16 24 0.24
17 12 0.12
18 2 0.02
19 2 0.02
ACGTcount: A:0.76, C:0.01, G:0.03, T:0.20
Consensus pattern (14 bp):
AAAAAAATAAAATA
Found at i:60063629 original size:23 final size:24
Alignment explanation
Indices: 60063588--60063650 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
60063578 AGGTAATTTT
*
60063588 AATAATAATAGTAAA-AAAATAATAA
1 AATAA-AATAG-AAATAAAAAAATAA
60063613 AA-AAAATAGAAATAAAAAAATAA
1 AATAAAATAGAAATAAAAAAATAA
*
60063636 AATAAAATAAAAATA
1 AATAAAATAGAAATA
60063651 TAAGTATAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
22 3 0.09
23 16 0.47
24 13 0.38
25 2 0.06
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (24 bp):
AATAAAATAGAAATAAAAAAATAA
Found at i:60063703 original size:38 final size:41
Alignment explanation
Indices: 60063623--60063732 Score: 109
Period size: 44 Copynumber: 2.6 Consensus size: 41
60063613 AAAAAATAGA
*
60063623 AATAAA-AAAATAAAATAAAATAAAAATATAAGTATAAGAAT
1 AATAAATAAAACAAAATAAAATAAAAATATAAG-ATAAGAAT
* *
60063664 AATAAATAAAACATAAATAAAATAAAAAATAGTAAAATAAAAAT
1 AATAAATAAAACA-AAATAAAAT-AAAAATA-TAAGATAAGAAT
*
60063708 AA-ATAATATAAC-AAATAATAATAAA
1 AATA-AATAAAACAAAATAA-AATAAA
60063733 TAAAAAAATG
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
41 6 0.10
42 14 0.24
43 13 0.22
44 23 0.39
45 3 0.05
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.22
Consensus pattern (41 bp):
AATAAATAAAACAAAATAAAATAAAAATATAAGATAAGAAT
Found at i:60063704 original size:63 final size:60
Alignment explanation
Indices: 60063608--60063740 Score: 173
Period size: 63 Copynumber: 2.2 Consensus size: 60
60063598 GTAAAAAAAT
*
60063608 AATAAAAAAAATAGAAATAAAAAAATAAAAT-AAAATAAA-AATATAAGTATAAGAATAATA
1 AATAAAAAAAATAGAAATAAAAAAATAAAATAAAAATAAATAATATAA-CA-AAGAATAATA
*
60063668 AATAAAACATAAATA-AAATAAAAAATAGTAAAATAAAAATAAATAATATAACAAATAATAATA
1 AATAAAA-A-AAATAGAAATAAAAAA-A-TAAAATAAAAATAAATAATATAACAAAGAATAATA
60063731 AATAAAAAAA
1 AATAAAAAAA
60063741 TGGGGTGGCT
Statistics
Matches: 65, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
60 7 0.11
61 13 0.20
62 7 0.11
63 22 0.34
64 9 0.14
65 7 0.11
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (60 bp):
AATAAAAAAAATAGAAATAAAAAAATAAAATAAAAATAAATAATATAACAAAGAATAATA
Found at i:60063736 original size:56 final size:57
Alignment explanation
Indices: 60063597--60063741 Score: 142
Period size: 60 Copynumber: 2.5 Consensus size: 57
60063587 TAATAATAAT
*
60063597 AGTAAAAAAATAATAA-AAA-AAATAGAAATAAAAAAATAAAATAAAATAAAAATATA
1 AGTATAAAAATAATAATAAATAAATA-AAATAAAAAAATAAAATAAAATAAAAATATA
* *
60063653 AGTATAAGAATAATAAATAAAACATAAATAAAAT-AAAAAAT--AGTAAAATAAAAATAAATA
1 AGTATAAAAATAAT-AAT--AA-ATAAATAAAATAAAAAAATAAAATAAAATAAAAAT--ATA
60063713 A-TATAACAAATAATAATAAATAAA-AAAAT
1 AGTATAA-AAATAATAATAAATAAATAAAAT
60063742 GGGGTGGCTT
Statistics
Matches: 76, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
55 5 0.07
56 17 0.22
57 4 0.05
58 13 0.17
59 8 0.11
60 19 0.25
61 5 0.07
62 5 0.07
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.21
Consensus pattern (57 bp):
AGTATAAAAATAATAATAAATAAATAAAATAAAAAAATAAAATAAAATAAAAATATA
Found at i:60066680 original size:25 final size:25
Alignment explanation
Indices: 60066648--60066695 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
60066638 TTATAATATG
* **
60066648 AAAATGACCGTTTTACCCCTAGGTA
1 AAAATGACCATTAAACCCCTAGGTA
60066673 AAAATGACCATTAAACCCCTAGG
1 AAAATGACCATTAAACCCCTAGG
60066696 GTTTATATAT
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:0.38, C:0.25, G:0.15, T:0.23
Consensus pattern (25 bp):
AAAATGACCATTAAACCCCTAGGTA
Found at i:60066746 original size:9 final size:9
Alignment explanation
Indices: 60066734--60066810 Score: 64
Period size: 9 Copynumber: 7.9 Consensus size: 9
60066724 TTTGATAAAC
60066734 ATGATATGT
1 ATGATATGT
*
60066743 ATGATATGCAC
1 ATGATATG--T
60066754 ATGATATGT
1 ATGATATGT
*
60066763 ATGATATGCAC
1 ATGATATG--T
*
60066774 ATGACATGT
1 ATGATATGT
*
60066783 ATGATATGCAC
1 ATGATATG--T
60066794 ATGATATGT
1 ATGATATGT
60066803 ATGATATG
1 ATGATATG
60066811 CTCACGATAT
Statistics
Matches: 54, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 31 0.57
11 23 0.43
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:60066757 original size:20 final size:20
Alignment explanation
Indices: 60066732--60066822 Score: 155
Period size: 20 Copynumber: 4.5 Consensus size: 20
60066722 ATTTTGATAA
60066732 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
60066752 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
60066772 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
60066792 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
60066812 TCACGATATGT
1 ACATGATATGT
60066823 TCATAAATGC
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 67 1.00
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:60066759 original size:11 final size:11
Alignment explanation
Indices: 60066743--60066801 Score: 63
Period size: 11 Copynumber: 5.7 Consensus size: 11
60066733 CATGATATGT
60066743 ATGATATGCAC
1 ATGATATGCAC
*
60066754 ATGATATG--T
1 ATGATATGCAC
60066763 ATGATATGCAC
1 ATGATATGCAC
* *
60066774 ATGACATG--T
1 ATGATATGCAC
60066783 ATGATATGCAC
1 ATGATATGCAC
60066794 ATGATATG
1 ATGATATG
60066802 TATGATATGC
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 15 0.39
11 23 0.61
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:60066922 original size:23 final size:24
Alignment explanation
Indices: 60066867--60066959 Score: 154
Period size: 24 Copynumber: 3.9 Consensus size: 24
60066857 GAGGAAGTGC
60066867 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60066891 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60066915 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
60066938 AAAAAAGGGCTT-TGCCCCAGTT
1 --AAAAGGGCTTATGCCCCAGTT
60066960 CCCAGTTATT
Statistics
Matches: 66, Mismatches: 0, Indels: 5
0.93 0.00 0.07
Matches are distributed among these distances:
23 23 0.35
24 24 0.36
25 10 0.15
26 9 0.14
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:60066937 original size:47 final size:47
Alignment explanation
Indices: 60066868--60066959 Score: 159
Period size: 47 Copynumber: 1.9 Consensus size: 47
60066858 AGGAAGTGCA
60066868 AAAGGGCTTATGCCCCAGTTATT-AAAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTT-TGCCCCAGTTATT
60066915 AAAGGGCTTATGCCCCAGTTATTAAAAAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTATGCCCCAGTTATT-AAAAAGGGCTTTGCCCCAGTT
60066960 CCCAGTTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
47 23 0.53
48 10 0.23
49 10 0.23
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (47 bp):
AAAGGGCTTATGCCCCAGTTATTAAAAAGGGCTTTGCCCCAGTTATT
Found at i:60066959 original size:25 final size:26
Alignment explanation
Indices: 60066867--60066998 Score: 152
Period size: 24 Copynumber: 5.1 Consensus size: 26
60066857 GAGGAAGTGC
60066867 AAAAGGGCTTATGCCCCAGTTATT--
1 AAAAGGGCTTATGCCCCAGTTATTAA
60066891 AAAAGGGCTTATGCCCCAGTTATT--
1 AAAAGGGCTTATGCCCCAGTTATTAA
60066915 -AAAGGGCTTATGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAA
60066940 AAAAGGGCTT-TGCCCCAGTTCCCAGTTATTAA
1 AAAAGGGCTTATG---C----CCCAGTTATTAA
60066972 AAAAGGGCTT-TGCCCCAGTTATTAA
1 AAAAGGGCTTATGCCCCAGTTATTAA
60066997 AA
1 AA
60066999 GAGGCTAGGC
Statistics
Matches: 98, Mismatches: 0, Indels: 19
0.84 0.00 0.16
Matches are distributed among these distances:
23 23 0.23
24 24 0.24
25 16 0.16
26 9 0.09
28 1 0.01
29 1 0.01
32 24 0.24
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTATTAA
Found at i:60066969 original size:32 final size:32
Alignment explanation
Indices: 60066928--60066991 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
60066918 GGGCTTATGC
60066928 CCCAGTTATTAAAAAAGGGCTTTGCCCCAGTT
1 CCCAGTTATTAAAAAAGGGCTTTGCCCCAGTT
60066960 CCCAGTTATTAAAAAAGGGCTTTGCCCCAGTT
1 CCCAGTTATTAAAAAAGGGCTTTGCCCCAGTT
60066992 ATTAAAAGAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (32 bp):
CCCAGTTATTAAAAAAGGGCTTTGCCCCAGTT
Found at i:60067249 original size:31 final size:31
Alignment explanation
Indices: 60067211--60067274 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
60067201 CGTTTACCGT
60067211 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* ** *
60067242 AAAGGCTTCGGCCCGGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
60067273 AA
1 AA
60067275 TATGAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:60068631 original size:42 final size:41
Alignment explanation
Indices: 60068513--60068631 Score: 111
Period size: 42 Copynumber: 2.8 Consensus size: 41
60068503 TACCATAACA
* *
60068513 ATGCCATATCCCAGATAT-GTCTT-ACATGGGATCTCGTATTG
1 ATGCCATATCCCAGATATGGTCTTAACAT-AG-TCTCGTATCG
* *
60068554 ATGCCAATAACCCA-ACTATGGTCTTAGACGA-AGTCTCTTATCG
1 ATGCC-ATATCCCAGA-TATGGTCTTA-AC-ATAGTCTCGTATCG
60068597 ATGCCATATCCCAGATATGGTCTTACACATAGTCT
1 ATGCCATATCCCAGATATGGTCTTA-ACATAGTCT
60068632 TAATAGCTCT
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
41 7 0.11
42 34 0.53
43 19 0.30
44 1 0.02
45 2 0.03
46 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTAACATAGTCTCGTATCG
Found at i:60078829 original size:19 final size:19
Alignment explanation
Indices: 60078807--60078844 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
60078797 TATAAACACC
60078807 TATTAT-TTTTACTTTTTAT
1 TATTATATTTTA-TTTTTAT
*
60078826 TATTTTATTTTATTTTTAT
1 TATTATATTTTATTTTTAT
60078845 CTTTATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.76
Consensus pattern (19 bp):
TATTATATTTTATTTTTAT
Found at i:60078844 original size:6 final size:6
Alignment explanation
Indices: 60078809--60078859 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
60078799 TAAACACCTA
* *
60078809 TTATTT TTACTTT TTATTAT TT-TATT TTATTT TTATCT TTATTT ATATTT
1 TTATTT TTA-TTT TTATT-T TTAT-TT TTATTT TTATTT TTATTT TTATTT
60078859 T
1 T
60078860 GGAATTACTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 26 0.70
7 11 0.30
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTATTT
Found at i:60080475 original size:14 final size:14
Alignment explanation
Indices: 60080456--60080482 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
60080446 TATCAAGACA
60080456 ATAATTAAGAACAC
1 ATAATTAAGAACAC
60080470 ATAATTAAGAACA
1 ATAATTAAGAACA
60080483 AGCCAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:60087331 original size:14 final size:14
Alignment explanation
Indices: 60087312--60087341 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60087302 ATGATTATTT
*
60087312 TAATCTAAATTTAC
1 TAATCTAAATTAAC
60087326 TAATCTAAATTAAC
1 TAATCTAAATTAAC
60087340 TA
1 TA
60087342 CGAACGCAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TAATCTAAATTAAC
Found at i:60098761 original size:59 final size:60
Alignment explanation
Indices: 60098633--60098779 Score: 233
Period size: 59 Copynumber: 2.5 Consensus size: 60
60098623 AAATATACAA
** * *
60098633 CAGGATTACCAGTCCAGGCTAAATTTTGTCTCCAATATATATTTACTTAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATA-TTACTCAATAGAGCTTAGT
60098694 CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATA-TACTCAATAGAGCTTAGT
1 CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATATTACTCAATAGAGCTTAGT
*
60098753 CAGGATTACCAGTCCAAGCTAAATCCT
1 CAGGATTACCAGTCCAGGCTAAATCCT
60098780 TTTTATGACA
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
59 43 0.53
61 38 0.47
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (60 bp):
CAGGATTACCAGTCCAGGCTAAATCCTATCTCCAATATATATTACTCAATAGAGCTTAGT
Found at i:60098833 original size:57 final size:57
Alignment explanation
Indices: 60098684--60098853 Score: 155
Period size: 57 Copynumber: 2.9 Consensus size: 57
60098674 TTTACTTAAT
* * * * *
60098684 AGAGCTTAGTCAGGATTACCAGTCCAGGCTAAATCCTATCTCCA-ATATATATACTC-AA
1 AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCT--ATA-ACATATGCTCTAA
* ** * *
60098742 TAGAGCTTAGTCAGGATTACCAGTCCAAGCTAAATCCTTTTTATGACATATGCTCTAA
1 -AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCTATAACATATGCTCTAA
* * ** *
60098800 AGAGCTTAATCTGGATTACCCGTCCGGGTTAAATCCAATCTATAACATATGCTC
1 AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCTATAACATATGCTC
60098854 GAGAGGACTT
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
57 53 0.57
58 2 0.02
59 38 0.41
ACGTcount: A:0.32, C:0.23, G:0.15, T:0.30
Consensus pattern (57 bp):
AGAGCTTAATCAGGATTACCAGTCCAAGCTAAATCCAATCTATAACATATGCTCTAA
Found at i:60103744 original size:27 final size:26
Alignment explanation
Indices: 60103708--60103811 Score: 104
Period size: 27 Copynumber: 3.9 Consensus size: 26
60103698 ATTTCTTTAG
* *
60103708 AGTTCACCATACGTACTATTCCTTCAG
1 AGTTCACCATACATACTATT-CTTCAA
*
60103735 AGTTCACCATATATACTATTCTCTCAA
1 AGTTCACCATACATACTATTCT-TCAA
* * *
60103762 AGTTTACCATACCTACCATTCTTCAA
1 AGTTCACCATACATACTATTCTTCAA
60103788 AGTT-AGCCATACATA-TCATTCTTC
1 AGTTCA-CCATACATACT-ATTCTTC
60103812 TAGGGTTTGT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
25 1 0.02
26 25 0.38
27 39 0.60
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.36
Consensus pattern (26 bp):
AGTTCACCATACATACTATTCTTCAA
Found at i:60103996 original size:27 final size:27
Alignment explanation
Indices: 60103906--60104006 Score: 98
Period size: 27 Copynumber: 3.7 Consensus size: 27
60103896 TTTAGAATGC
*
60103906 GCCACGAAGGCGTTCC-TTTCCATAGA-T
1 GCCACAAAGGC-TTCCATTT-CATAGACT
** * *
60103933 CGCCACAAAAACTTCTATTTTATAGACT
1 -GCCACAAAGGCTTCCATTTCATAGACT
*
60103961 ACCACAAAGGCTTCCATTTCATAGACT
1 GCCACAAAGGCTTCCATTTCATAGACT
*
60103988 GCCACAAAGGCTTTCATTT
1 GCCACAAAGGCTTCCATTT
60104007 TCTAGTGTAT
Statistics
Matches: 59, Mismatches: 12, Indels: 5
0.78 0.16 0.07
Matches are distributed among these distances:
27 47 0.80
28 12 0.20
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (27 bp):
GCCACAAAGGCTTCCATTTCATAGACT
Found at i:60112204 original size:46 final size:46
Alignment explanation
Indices: 60112151--60112276 Score: 234
Period size: 46 Copynumber: 2.7 Consensus size: 46
60112141 AACCCGCCCC
* *
60112151 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
60112197 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
60112243 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
60112277 TGCTCAACCA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:60118956 original size:19 final size:20
Alignment explanation
Indices: 60118932--60118969 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
60118922 GGTACCACCA
60118932 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
60118951 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
60118970 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:60119253 original size:42 final size:43
Alignment explanation
Indices: 60119194--60119361 Score: 205
Period size: 42 Copynumber: 3.8 Consensus size: 43
60119184 CGCCCCTAAG
60119194 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
60119236 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATT
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACA-T
* *** *
60119280 TCACGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATA-AG
1 T---GAACTCGGACTCAACTCAACGAGTTCGG--A-T-GCCTAGTTACAT
60119329 TGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGC
60119362 TCAACCATCC
Statistics
Matches: 112, Mismatches: 5, Indels: 18
0.83 0.04 0.13
Matches are distributed among these distances:
42 44 0.39
43 1 0.01
44 2 0.02
46 28 0.25
47 28 0.25
49 2 0.02
50 2 0.02
51 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (43 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
Found at i:60125726 original size:33 final size:32
Alignment explanation
Indices: 60125689--60125761 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
60125679 CTATCGAATG
*
60125689 TGAAAAGGAAAGGTATACTTTGTGTATACCACA
1 TGAAAAGGAAAGGTACACTTTGTGTATA-CACA
** * * *
60125722 TGAAAAGGCTATGTACACTTTGTGTGTACACT
1 TGAAAAGGAAAGGTACACTTTGTGTATACACA
60125754 TGAAAAGG
1 TGAAAAGG
60125762 TATACTTCGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 11 0.32
33 23 0.68
ACGTcount: A:0.36, C:0.12, G:0.23, T:0.29
Consensus pattern (32 bp):
TGAAAAGGAAAGGTACACTTTGTGTATACACA
Found at i:60125776 original size:27 final size:27
Alignment explanation
Indices: 60125697--60125789 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 27
60125687 TGTGAAAAGG
* *
60125697 AAAGGTATACTTTGTGTATACCACATGA
1 AAAGGTATACTTTGTGTGTA-CACTTGA
60125725 AAAGGCTATGTACACTTTGTGTGTACACTTGA
1 AAAGG-TA--T--ACTTTGTGTGTACACTTGA
* *
60125757 AAAGGTATACTTCGTGTGTACTATTTGA
1 AAAGGTATACTTTGTGTGTAC-ACTTGA
60125785 AAAGG
1 AAAGG
60125790 AAATGTAAAC
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 12 0.22
28 15 0.27
29 3 0.05
31 3 0.05
32 11 0.20
33 11 0.20
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (27 bp):
AAAGGTATACTTTGTGTGTACACTTGA
Found at i:60131826 original size:27 final size:27
Alignment explanation
Indices: 60131747--60131839 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 27
60131737 TGTGAAAAGG
* * *
60131747 AAAGGTATATTTTGTGTATACAACATGA
1 AAAGGTATACTTTGTGTGTAC-ACTTGA
60131775 AAAGGCTATGTACACTTTGTGTGTACACTTGA
1 AAAGG-TA--T--ACTTTGTGTGTACACTTGA
*
60131807 AAAGGTATACTTTGTGTGTACCATTTGA
1 AAAGGTATACTTTGTGTGTA-CACTTGA
60131835 AAAGG
1 AAAGG
60131840 AAATGTACAC
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
27 12 0.22
28 16 0.29
29 3 0.05
31 3 0.05
32 10 0.18
33 11 0.20
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.34
Consensus pattern (27 bp):
AAAGGTATACTTTGTGTGTACACTTGA
Found at i:60131836 original size:60 final size:61
Alignment explanation
Indices: 60131747--60131872 Score: 146
Period size: 60 Copynumber: 2.1 Consensus size: 61
60131737 TGTGAAAAGG
* ** * * * *
60131747 AAAGGTATATTTTGTGTATACAACATGAAAAGGCTATGTACACTTTGTGTGTAC-ACTTGA
1 AAAGGTATACTTTGTGTATACAACATGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
* * **
60131807 AAAGGTATACTTTGTGTGTACCATTTGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
1 AAAGGTATACTTTGTGTATACAACATGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
60131868 AAAGG
1 AAAGG
60131873 AAATATCCAT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
60 44 0.81
61 10 0.19
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (61 bp):
AAAGGTATACTTTGTGTATACAACATGAAAAGGAAATGTACACCTCGAGTGTACTACTGGA
Found at i:60134341 original size:23 final size:22
Alignment explanation
Indices: 60134314--60134358 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
60134304 AACTAGGCTC
60134314 ATTAAG-CTTTAATTACATATTTT
1 ATTAAGTCTTTAATT-CA-ATTTT
60134337 ATTAAGTCTTTAATTCAATTTT
1 ATTAAGTCTTTAATTCAATTTT
60134359 CACAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 5 0.24
23 8 0.38
24 8 0.38
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (22 bp):
ATTAAGTCTTTAATTCAATTTT
Found at i:60137522 original size:48 final size:48
Alignment explanation
Indices: 60137451--60137780 Score: 294
Period size: 48 Copynumber: 6.9 Consensus size: 48
60137441 GACATTTGGG
* * * *
60137451 TGACATGTGAGCTAGTGTAAGACCATGTCTGGTACATAGCTTCGGCCA
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * ** *
60137499 TGACATGAGAGCTAGTGTAAGACCATGTTTAGAACATGGCATCAACAA
1 TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
60137547 TGTA-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
1 TG-ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * *
60137594 TTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CA
1 -TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
* * * * * *
60137642 TTAACATGTGCGCTAGTAT-AGAACAATGTCTAGGACATGGCATCGGCCA
1 -TGACATGAGAGCTAGTGTAAG-ACCATGTCTGGGACATGGCATCGGCCA
* * * * * * * *
60137691 -CATTATGAGACCGAGTGTAAAACGATGTTTGGGACATGGCATCAG-CA
1 TGA-CATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
** *
60137738 TTGAGGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 -TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
60137781 GTAACACCCC
Statistics
Matches: 229, Mismatches: 44, Indels: 18
0.79 0.15 0.06
Matches are distributed among these distances:
47 7 0.03
48 217 0.95
49 5 0.02
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TGACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA
Found at i:60137632 original size:96 final size:97
Alignment explanation
Indices: 60137453--60137780 Score: 337
Period size: 96 Copynumber: 3.4 Consensus size: 97
60137443 CATTTGGGTG
* * * * *
60137453 ACATGTGAGCTAGTGTAAGACCATGTCTGGTACATAGCTTCGGCCATGACATGAGAGCTAGTGTA
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCTAGTGTA
* * *
60137518 AGACCATGTTTAGAACATGGCATCAACAATGT
66 AGACCATGTTTGGGACATGGCATCAGCAATGT
* *
60137550 A-ATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGATATGTGTGCTAGTGT
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TGATATGAGAGCTAGTGT
* *
60137613 AAGACCATGTCTGGGACATGGCATCGGC-AT-T
65 AAGACCATGTTTGGGACATGGCATCAGCAATGT
* * * * * * * *
60137644 AACATGTGCGCTAGTAT-AGAACAATGTCTAGGACATGGCATCGGCCA-CATTATGAGACCGAGT
1 -ACATGAGAGCTAGTGTAAG-ACCATGTCTGGGACATGGCATCGGCCATGA-TATGAGAGCTAGT
* * *
60137707 GTAAAACGATGTTTGGGACATGGCATCAGCATTG-
63 GTAAGACCATGTTTGGGACATGGCATCAGCAATGT
** *
60137741 AGGTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
60137781 GTAACACCCC
Statistics
Matches: 187, Mismatches: 35, Indels: 19
0.78 0.15 0.08
Matches are distributed among these distances:
94 1 0.01
95 8 0.04
96 172 0.92
97 6 0.03
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.25
Consensus pattern (97 bp):
ACATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATGATATGAGAGCTAGTGTA
AGACCATGTTTGGGACATGGCATCAGCAATGT
Found at i:60137724 original size:144 final size:144
Alignment explanation
Indices: 60137455--60137780 Score: 381
Period size: 144 Copynumber: 2.3 Consensus size: 144
60137445 TTTGGGTGAC
* * * * *
60137455 ATGTGAGCTAGTGTAAGACCATGTCTGGTACATAGCTTCGGCCATGACATGAGAGCTAGTGTAAG
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGAGCTAGTATAAG
* * * * *
60137520 ACCATGTTTAGAACATGGCATCAACAATGTAATGAGAGCTAGTGTAAGACCATGTCTGGGACATG
66 ACAATGTCTAGAACATGGCATCAACAATGTAATGAGACCGAGTGTAAAACCATGTCTGGGACATG
* *
60137585 GCATCGGCATTGAT
131 GCATCAGCATTGAG
* * *
60137599 ATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTAACATGTGCGCTAGTAT-A
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA-TAACATGAGAGCTAGTATAA
* ** * *
60137662 GAACAATGTCTAGGACATGGCATCGGCCACAT-T-ATGAGACCGAGTGTAAAACGATGTTTGGGA
65 G-ACAATGTCTAGAACATGGCATC-AACA-ATGTAATGAGACCGAGTGTAAAACCATGTCTGGGA
60137725 CATGGCATCAGCATTGAG
127 CATGGCATCAGCATTGAG
* **
60137743 GTGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
1 ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
60137781 GTAACACCCC
Statistics
Matches: 154, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
143 4 0.03
144 145 0.94
145 3 0.02
146 2 0.01
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.25
Consensus pattern (144 bp):
ATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATAACATGAGAGCTAGTATAAG
ACAATGTCTAGAACATGGCATCAACAATGTAATGAGACCGAGTGTAAAACCATGTCTGGGACATG
GCATCAGCATTGAG
Found at i:60145739 original size:46 final size:48
Alignment explanation
Indices: 60145624--60145745 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 48
60145614 TGTCTTCGAC
* * *
60145624 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATACATCTAAT
1 ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCA-ATATA-ATCTAAT
* *
60145674 ATGGGCTTACAT-AGCTCATTCCTGTCTCCAAAGCC-ATAT-ATCTGAT
1 ATGGACTTACATGA-CTCATTCCTGTCTCCAAAGCCAATATAATCTAAT
*
60145720 ATGGACTTACATGACTCATTTCTGTC
1 ATGGACTTACATGACTCATTCCTGTC
60145746 CTGTTCGGTC
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
46 28 0.44
47 1 0.02
48 4 0.06
49 1 0.02
50 29 0.46
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGACTCATTCCTGTCTCCAAAGCCAATATAATCTAAT
Found at i:60148060 original size:47 final size:47
Alignment explanation
Indices: 60147995--60148248 Score: 373
Period size: 47 Copynumber: 5.4 Consensus size: 47
60147985 CAGCCAAGAG
* *
60147995 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
60148042 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
60148089 AGTGTATATATGTGATAAGGCCTAACGGCCGATGCGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
60148136 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
60148183 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTAATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
60148230 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
60148249 TCCCGAAAGG
Statistics
Matches: 187, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 187 1.00
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:60148423 original size:37 final size:37
Alignment explanation
Indices: 60148367--60148445 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60148357 CCGAGCTCTA
* * *
60148367 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60148404 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60148441 AAGAC
1 AAGAC
60148446 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:60154186 original size:46 final size:46
Alignment explanation
Indices: 60154119--60154294 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
60154109 TGTAACCCGC
* *
60154119 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
60154165 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-G--GAC--GTTCGCAT
* *
60154215 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
60154258 CCATAAGTGAACTTGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
60154295 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 3 0.03
45 2 0.02
46 61 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:60154240 original size:93 final size:93
Alignment explanation
Indices: 60154126--60154297 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
60154116 CGCCCATAAG
* *
60154126 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60154191 ACGAGTTCAGATGCCTAGTTACATCTCA
66 ACGAGTTCAGATGCCTAGTTACATCTCA
* *
60154219 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
60154284 ACGAGTTCGGATGC
66 ACGAGTTCAGATGC
60154298 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCA
Found at i:60158893 original size:46 final size:45
Alignment explanation
Indices: 60158840--60159006 Score: 140
Period size: 46 Copynumber: 3.6 Consensus size: 45
60158830 CTTGTAGCTA
* * *
60158840 ATGCATGTCCCAAACATGTCTTACACTG-ACTTACGTCTCGAGGCCG
1 ATGCATGTCCCAGACATGTCTTACACTGCAC-T-CATCTCAAGGCCG
** * *
60158886 ATGCATGTCTTAGACATGTCTTACACTAGCACTCATCTCAATGTCG
1 ATGCATGTCCCAGACATGTCTTACACT-GCACTCATCTCAAGGCCG
* * ** *
60158932 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCTG
1 ATG-CATGTCCCAGACAT-GTCTTACACT-GCACTCAT-CTCAAGGCCG
*
60158980 ATGCATATCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
60159007 AGCTTACAAT
Statistics
Matches: 98, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
46 46 0.47
47 27 0.28
48 24 0.24
49 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGCACTCATCTCAAGGCCG
Found at i:60169296 original size:4 final size:4
Alignment explanation
Indices: 60169278--60169311 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
60169268 ATATAAAATT
60169278 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
60169312 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:60174431 original size:23 final size:22
Alignment explanation
Indices: 60174379--60174431 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
60174369 TCCACGTCTT
*
60174379 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
60174401 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
60174424 TTTCTTTT
1 TTTCTTTT
60174432 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:60176762 original size:22 final size:23
Alignment explanation
Indices: 60176737--60176796 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
60176727 TGGACTGAAT
60176737 ATAAAAATTTAAACTAAAT-AAA
1 ATAAAAATTTAAACTAAATAAAA
*
60176759 ATAAATAA-ATAAA-TAAATAAAA
1 ATAAA-AATTTAAACTAAATAAAA
*
60176781 ATAAAACTTTACAACT
1 ATAAAAATTTA-AACT
60176797 TGGGCCACTT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 6 0.20
22 19 0.63
23 4 0.13
24 1 0.03
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (23 bp):
ATAAAAATTTAAACTAAATAAAA
Found at i:60176764 original size:4 final size:4
Alignment explanation
Indices: 60176746--60176779 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
60176736 TATAAAAATT
60176746 TAAA CTAAA TAAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA -TAAA T-AAA TAAA TAAA TAAA TAAA TAAA
60176780 AATAAAACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:60179010 original size:13 final size:13
Alignment explanation
Indices: 60178994--60179018 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60178984 CTAGTACCCA
60178994 ACCCAACCCAATT
1 ACCCAACCCAATT
60179007 ACCCAACCCAAT
1 ACCCAACCCAAT
60179019 CATAAAAATT
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:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:60179056 original size:5 final size:6
Alignment explanation
Indices: 60179043--60179083 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
60179033 ATAATTTAAT
*
60179043 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
60179084 ATATTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:60179084 original size:20 final size:20
Alignment explanation
Indices: 60179046--60179084 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
60179036 ATTTAATAAA
**
60179046 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
60179066 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
60179085 TATTTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:60179134 original size:18 final size:18
Alignment explanation
Indices: 60179103--60179179 Score: 84
Period size: 18 Copynumber: 4.3 Consensus size: 18
60179093 TTTATACAAA
60179103 TAATTCG-GTCAATTCGGT
1 TAATTCGAGT-AATTCGGT
* * * *
60179121 TAATTTGGGTAATTTGGG
1 TAATTCGAGTAATTCGGT
*
60179139 TAATTCAAGTAATTCGGT
1 TAATTCGAGTAATTCGGT
*
60179157 TAATTCGATTAATTCGGT
1 TAATTCGAGTAATTCGGT
60179175 TAATT
1 TAATT
60179180 TTATACTTAT
Statistics
Matches: 48, Mismatches: 10, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
18 46 0.96
19 2 0.04
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (18 bp):
TAATTCGAGTAATTCGGT
Found at i:60179160 original size:9 final size:9
Alignment explanation
Indices: 60179103--60179179 Score: 75
Period size: 9 Copynumber: 8.6 Consensus size: 9
60179093 TTTATACAAA
60179103 TAATTCGGT
1 TAATTCGGT
*
60179112 CAATTCGGT
1 TAATTCGGT
* *
60179121 TAATTTGGG
1 TAATTCGGT
* *
60179130 TAATTTGGG
1 TAATTCGGT
*
60179139 TAATTCAAG-
1 TAATTC-GGT
60179148 TAATTCGGT
1 TAATTCGGT
*
60179157 TAATTCGAT
1 TAATTCGGT
60179166 TAATTCGGT
1 TAATTCGGT
60179175 TAATT
1 TAATT
60179180 TTATACTTAT
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 1 0.02
9 55 0.96
10 1 0.02
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (9 bp):
TAATTCGGT
Found at i:60180951 original size:9 final size:9
Alignment explanation
Indices: 60180937--60180999 Score: 56
Period size: 9 Copynumber: 6.8 Consensus size: 9
60180927 TTCACATCCT
60180937 TCTCTCAAC
1 TCTCTCAAC
*
60180946 TCTCTCAAT
1 TCTCTCAAC
* *
60180955 TTTCTCAAAT
1 TCTCTC-AAC
60180965 TCTCTCAAAC
1 TCTCTC-AAC
*
60180975 CCTCTCAAGC
1 TCTCTCAA-C
60180985 -CTCTCAAC
1 TCTCTCAAC
60180993 TCTCTCA
1 TCTCTCA
60181000 TTTTTAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
8 1 0.02
9 28 0.61
10 17 0.37
ACGTcount: A:0.24, C:0.40, G:0.02, T:0.35
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:60183565 original size:49 final size:49
Alignment explanation
Indices: 60183392--60183623 Score: 293
Period size: 49 Copynumber: 4.7 Consensus size: 49
60183382 TCTATTGTGA
* * * * *
60183392 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-T
* * * * **
60183443 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
60183492 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
60183542 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGAATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * *
60183591 GGTCGCATGTATAGTACTATGTGCAGGCTACTA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTA
60183624 TGCGTACCAG
Statistics
Matches: 158, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 77 0.49
50 44 0.28
51 37 0.23
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:60190679 original size:15 final size:16
Alignment explanation
Indices: 60190650--60190679 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60190640 CAAACATGTT
60190650 TTAACACATTATCAAA
1 TTAACACATTATCAAA
60190666 TTAACACA-TATCAA
1 TTAACACATTATCAA
60190680 TAAGGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:60192150 original size:137 final size:138
Alignment explanation
Indices: 60191903--60192177 Score: 383
Period size: 137 Copynumber: 2.0 Consensus size: 138
60191893 AGCTATAAAA
* * * ** *
60191903 TGGGTCTACTTACACAAGTTGTTGGTCGGAATGTAAGCTACAAGATGCTTCTCACACAAGCTTCC
1 TGGGTCTACTCACACAAGCTATTGGTCAAAATGTAAGCTACAAGATGCTGCTCACACAAGCTTCC
* * * * * *
60191968 GTGTATCAACAACTAATTCCAAACCTTAGCCATCGGTAGGACATTCAAGACCAGCACCCAAAACA
66 GAGCATCAACAACTAATACCAAACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAACA
60192033 TGGTAACC
131 TGGTAACC
*
60192041 TGGGTCTACTCACACAAGCTATTGGTCAAAATGT-AGCTACACGATGCTGCTCACACAAGCTGT-
1 TGGGTCTACTCACACAAGCTATTGGTCAAAATGTAAGCTACAAGATGCTGCTCACACAAGCT-TC
** *
60192104 CGAGCATCTGCAACTAATACCAGACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAAC
65 CGAGCATCAACAACTAATACCAAACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAAC
60192169 ATGGTAACC
130 ATGGTAACC
60192178 CTAATGACAT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
137 90 0.75
138 30 0.25
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.22
Consensus pattern (138 bp):
TGGGTCTACTCACACAAGCTATTGGTCAAAATGTAAGCTACAAGATGCTGCTCACACAAGCTTCC
GAGCATCAACAACTAATACCAAACCTCAGCCATCGATAAGACATTCAAGACCAGCACCCAAAACA
TGGTAACC
Found at i:60198307 original size:48 final size:48
Alignment explanation
Indices: 60198236--60198745 Score: 894
Period size: 48 Copynumber: 10.6 Consensus size: 48
60198226 AGATAAATAT
60198236 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
60198284 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
60198332 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
60198380 ATATGTATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
** *
60198428 ATATGTATATGTGGTAAAGCCGAATGGCTAGCGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
60198476 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
60198524 ATATGCATATGAGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
60198572 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
60198620 ATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
60198668 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
60198716 ATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
60198746 GTGATTCGGC
Statistics
Matches: 441, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 441 1.00
ACGTcount: A:0.35, C:0.08, G:0.28, T:0.29
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:60198968 original size:37 final size:37
Alignment explanation
Indices: 60198918--60199020 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
60198908 GGAAATATAT
60198918 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
60198955 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
60198992 TCCGGGTAAGACCCGATAACTATGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
60199021 GGACTATTCG
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:60209505 original size:19 final size:18
Alignment explanation
Indices: 60209483--60209534 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
60209473 AAAGAGAGCA
*
60209483 AAAAGAAAGTAAGAAAAAG
1 AAAAGAAAAT-AGAAAAAG
*
60209502 AAAAGCAAAATTGAAAAAG
1 AAAAG-AAAATAGAAAAAG
60209521 AGAAAGAAAA-AGAA
1 A-AAAGAAAATAGAA
60209535 TTTGATCAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
18 3 0.11
19 17 0.61
20 8 0.29
ACGTcount: A:0.73, C:0.02, G:0.19, T:0.06
Consensus pattern (18 bp):
AAAAGAAAATAGAAAAAG
Found at i:60211840 original size:40 final size:40
Alignment explanation
Indices: 60211796--60211877 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
60211786 ATTAAATGTG
* * *
60211796 TTCATTTCCTTTATAGGTTTAGCCGAATATGGAAGTGCAT
1 TTCATTTCATTTATAGGTTCAGCCGAATACGGAAGTGCAT
* *
60211836 TTCATTTCATTTGTAGGTTCAGTCGAATACGGAAGTGCAT
1 TTCATTTCATTTATAGGTTCAGCCGAATACGGAAGTGCAT
60211876 TT
1 TT
60211878 AAGGCTAGGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.24, C:0.15, G:0.21, T:0.40
Consensus pattern (40 bp):
TTCATTTCATTTATAGGTTCAGCCGAATACGGAAGTGCAT
Found at i:60213186 original size:48 final size:46
Alignment explanation
Indices: 60213116--60213329 Score: 197
Period size: 47 Copynumber: 4.6 Consensus size: 46
60213106 GAGGCTGATA
*
60213116 CATGTCCCAGGCATGTCTTACACTAGCACTCATCTCAATGTCAATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGTCAATG
* * * *
60213162 TCATGTCTCAGACATGGTCTTACACTGGCTCTCA--T-AATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATGT---CAATG
* *
60213210 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGTCAATG
* * * *
60213256 CCATGTCCCAAACATGGTCTTACACTGGCTCTCA--T-AATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCACTCATCTCAATGT---CAATG
60213304 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
60213330 ATCACACAAG
Statistics
Matches: 136, Mismatches: 19, Indels: 25
0.76 0.11 0.14
Matches are distributed among these distances:
45 9 0.07
46 32 0.24
47 51 0.38
48 40 0.29
49 4 0.03
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGTCAATG
Found at i:60213226 original size:94 final size:94
Alignment explanation
Indices: 60213116--60213329 Score: 374
Period size: 94 Copynumber: 2.3 Consensus size: 94
60213106 GAGGCTGATA
* * * * *
60213116 CATGTCCCAGGCATGTCTTACACTAGCACTCATCTCAATGTCAATGTCATGTCTCAGACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCAATGCCATGTCCCAAACATGGTC
60213181 TTACACTGGCTCTCATAATGTGGCCGATG
66 TTACACTGGCTCTCATAATGTGGCCGATG
*
60213210 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCAATGCCATGTCCCAAACATGGTC
1 CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCAATGCCATGTCCCAAACATGGTC
60213275 TTACACTGGCTCTCATAATGTGGCCGATG
66 TTACACTGGCTCTCATAATGTGGCCGATG
60213304 CATGTCCCAGACATGTCTTACACTAG
1 CATGTCCCAGACATGTCTTACACTAG
60213330 ATCACACAAG
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
94 114 1.00
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCATCTCAATGCCAATGCCATGTCCCAAACATGGTC
TTACACTGGCTCTCATAATGTGGCCGATG
Found at i:60219664 original size:26 final size:26
Alignment explanation
Indices: 60219628--60219686 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
60219618 CTCCTTGGTT
60219628 CATTGTTATGGTCTTGGATTGTCCTA
1 CATTGTTATGGTCTTGGATTGTCCTA
60219654 CATTGTTATGGTCTTGGATTGTCCTA
1 CATTGTTATGGTCTTGGATTGTCCTA
60219680 CATTGTT
1 CATTGTT
60219687 TCCCCTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.47
Consensus pattern (26 bp):
CATTGTTATGGTCTTGGATTGTCCTA
Found at i:60243291 original size:47 final size:47
Alignment explanation
Indices: 60243232--60243484 Score: 407
Period size: 47 Copynumber: 5.4 Consensus size: 47
60243222 GATGTACAAG
* *
60243232 GTGTGTATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
60243279 GTGTATATATGTGATAAGGTCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
60243326 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
60243373 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * *
60243420 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGGATGTAAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
60243467 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
60243485 TCCCGAAGGG
Statistics
Matches: 191, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 191 1.00
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:60255426 original size:17 final size:17
Alignment explanation
Indices: 60255393--60255426 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
60255383 TCATGGCATG
60255393 GTTTTGGTTTATCGTGT
1 GTTTTGGTTTATCGTGT
60255410 GTTTTCGGTTTAT-GTGT
1 GTTTT-GGTTTATCGTGT
60255427 CCGCCACTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.06, C:0.06, G:0.29, T:0.59
Consensus pattern (17 bp):
GTTTTGGTTTATCGTGT
Found at i:60262995 original size:68 final size:68
Alignment explanation
Indices: 60262827--60263002 Score: 177
Period size: 68 Copynumber: 2.6 Consensus size: 68
60262817 TAGTACCACC
* * * *
60262827 CATGTGACCTAGCCA-AT-T-TATCTCGTAGCTCTCTTGTCTACATGGTGTGCTTCACTTGGGAT
1 CATGTGACCTAGCTACATCTATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCAC-TCGGAT
60262889 CACA
65 CACA
* *
60262893 CATGTGACCTAGCTACATCTATCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACATC-C-CGT
1 CATGTGACCTAGCTACATCTATATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATCACTCGG
60262955 ATCACA
63 ATCACA
*
60262961 CATGTTACCTAGCTAC-TACATAGTATCTCGTAGCTCTCTTGT
1 CATGTGACCTAGCTACAT-C-TA-TATCTCGTAGCTCTCTTGT
60263003 ACACATGATG
Statistics
Matches: 93, Mismatches: 8, Indels: 16
0.79 0.07 0.14
Matches are distributed among these distances:
66 14 0.15
67 3 0.03
68 38 0.41
69 6 0.06
70 6 0.06
71 26 0.28
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.34
Consensus pattern (68 bp):
CATGTGACCTAGCTACATCTATATCTCGTAGCTCTCTTGTCTACATGGTGTACATCACTCGGATC
ACA
Found at i:60267386 original size:42 final size:42
Alignment explanation
Indices: 60267309--60267443 Score: 157
Period size: 42 Copynumber: 3.2 Consensus size: 42
60267299 TATATGGGAT
* * *
60267309 CTCATATCGATGCCAATAGCCCAG-CTTTGGTCTTACACGAAAA
1 CTCATAACGATGCC-ATATCCCAGAC-ATGGTCTTACACGAAAA
* *
60267352 CTCATAACGATGCCATGTCCCAGACATGGTCTTACACGAAAT
1 CTCATAACGATGCCATATCCCAGACATGGTCTTACACGAAAA
* *
60267394 CTCATAACGATGCCATATCCTAGATATGGTCTTACAC-ATAAA
1 CTCATAACGATGCCATATCCCAGACATGGTCTTACACGA-AAA
*
60267436 CTTATAAC
1 CTCATAAC
60267444 CCTAATGTCA
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 65 0.81
43 14 0.17
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.27
Consensus pattern (42 bp):
CTCATAACGATGCCATATCCCAGACATGGTCTTACACGAAAA
Found at i:60268158 original size:39 final size:39
Alignment explanation
Indices: 60268112--60268189 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
60268102 GATCAGGTGA
60268112 ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
1 ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
*
60268151 ATACGACTTCAAATATGTAATGAGCATTAAAAACGAGGC
1 ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
60268190 TAGGATGCAC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (39 bp):
ATACGACTTCAAATATGTAAAGAGCATTAAAAACGAGGC
Found at i:60269570 original size:23 final size:23
Alignment explanation
Indices: 60269540--60269599 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
60269530 GGTTGAGCCT
60269540 CACACGCCCGTGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
60269563 CACACGCCCGCGTGGAGGCAATG
1 CACACGCCCGTGTGGAGGCAATG
*
60269586 CACACTCCCGTGTG
1 CACACGCCCGTGTG
60269600 CTTTGGACGC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.20, C:0.35, G:0.32, T:0.13
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAATG
Found at i:60269737 original size:40 final size:40
Alignment explanation
Indices: 60269693--60269782 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
60269683 CCAAGCACAT
* * *
60269693 GCCCGTGTCCCTCACACGGCTTAGACACGCCTATGTTCTC
1 GCCCGTGTCCCTCACACGGCCTAGACACGCCCATGTCCTC
* *
60269733 GCCCGTGTCCCTCACATGGCCTAGACACGCCCGTGTCCTC
1 GCCCGTGTCCCTCACACGGCCTAGACACGCCCATGTCCTC
*
60269773 GCCTGTGTCC
1 GCCCGTGTCC
60269783 AAAAACCTGG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.12, C:0.42, G:0.22, T:0.23
Consensus pattern (40 bp):
GCCCGTGTCCCTCACACGGCCTAGACACGCCCATGTCCTC
Found at i:60272362 original size:7 final size:7
Alignment explanation
Indices: 60272350--60272374 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
60272340 AAATAAATAG
60272350 AAATATT
1 AAATATT
60272357 AAATATT
1 AAATATT
60272364 AAATATT
1 AAATATT
60272371 AAAT
1 AAAT
60272375 TAAGAGATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATATT
Found at i:60275055 original size:20 final size:21
Alignment explanation
Indices: 60275012--60275058 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
60275002 AGCTAGATCA
*
60275012 AGCTGAATTCTAGCTCAAACG
1 AGCTGAATTCGAGCTCAAACG
**
60275033 AGCTGAA-TCGAGCTCAAGTG
1 AGCTGAATTCGAGCTCAAACG
60275053 AGCTGA
1 AGCTGA
60275059 TGGGAGCTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.32, C:0.21, G:0.26, T:0.21
Consensus pattern (21 bp):
AGCTGAATTCGAGCTCAAACG
Found at i:60277386 original size:19 final size:20
Alignment explanation
Indices: 60277362--60277401 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
60277352 TCAATCTCAT
60277362 TTTCTTTTCTTTGTTT-TTC
1 TTTCTTTTCTTTGTTTCTTC
60277381 TTTCTTTTCTTTGTTTCTTC
1 TTTCTTTTCTTTGTTTCTTC
60277401 T
1 T
60277402 CTCGATTTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.00, C:0.17, G:0.05, T:0.78
Consensus pattern (20 bp):
TTTCTTTTCTTTGTTTCTTC
Found at i:60279902 original size:67 final size:63
Alignment explanation
Indices: 60279756--60279902 Score: 154
Period size: 67 Copynumber: 2.3 Consensus size: 63
60279746 ATATAGTTCG
* * * *
60279756 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAGTTTATCTCGTA
1 GCTCTCTTGTACACATGGTGAACACTTAGAACCACCCATGCGACCTAGCCAGTATATCCCGTA
** * *
60279819 GCTCTCTTGT-CTACATGGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACA-TATATCC
1 GCTCTCTTGTAC-ACATGGTG---AACACTTAGAACCACCCATGCGACCTAGC--CAGTATATCC
60279882 CGTA
60 CGTA
60279886 GCTCTCTTGTACACATG
1 GCTCTCTTGTACACATG
60279903 ATGTGCACCC
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
62 1 0.01
63 18 0.26
66 23 0.33
67 24 0.35
68 3 0.04
ACGTcount: A:0.22, C:0.30, G:0.18, T:0.31
Consensus pattern (63 bp):
GCTCTCTTGTACACATGGTGAACACTTAGAACCACCCATGCGACCTAGCCAGTATATCCCGTA
Found at i:60280617 original size:30 final size:30
Alignment explanation
Indices: 60280583--60280643 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
60280573 TCCTTAACTC
60280583 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
60280613 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
60280643 A
1 A
60280644 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:60281800 original size:18 final size:18
Alignment explanation
Indices: 60281777--60281819 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
60281767 CACACACTTT
*
60281777 TTTTTTTAATTTTGTATA
1 TTTTTTTAATTTCGTATA
*
60281795 TTTTTTTTATTTCGTATA
1 TTTTTTTAATTTCGTATA
60281813 TTTTTTT
1 TTTTTTT
60281820 CTTTTTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTTTTTAATTTCGTATA
Found at i:60284401 original size:27 final size:28
Alignment explanation
Indices: 60284317--60284414 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
60284307 GTTGATTTCG
* * * *
60284317 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
60284346 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60284374 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60284401 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60284415 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60284425 original size:27 final size:27
Alignment explanation
Indices: 60284345--60284427 Score: 87
Period size: 27 Copynumber: 3.0 Consensus size: 27
60284335 TAAATTGTAC
* * *
60284345 AGCACTAAGTGTGCAAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
60284373 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
60284400 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
60284427 A
1 A
60284428 TTTTTGAATC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
27 30 0.61
28 19 0.39
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:60284428 original size:29 final size:27
Alignment explanation
Indices: 60284317--60284428 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
60284307 GTTGATTTCG
** * *
60284317 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGC-GACTT-AATTATATA
* * *
60284346 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGA-CTTAATTATATA
* *
60284374 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGACTTAATTATATA
*
60284401 GCACTGAGTGTGCGGACTTAATATATAT
1 GCACTAAGTGTGC-GACTTAAT-TATAT
60284429 TTTTGAATCA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
27 23 0.33
28 26 0.37
29 21 0.30
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
GCACTAAGTGTGCGACTTAATTATATA
Found at i:60286663 original size:20 final size:21
Alignment explanation
Indices: 60286625--60286673 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
60286615 TGAGCTAGAT
*
60286625 CGAGCTGAATTCTAGCTCAAA
1 CGAGCTGAATTCGAGCTCAAA
*
60286646 CGAGCTGAA-TCGAGCTCAAG
1 CGAGCTGAATTCGAGCTCAAA
*
60286666 TGAGCTGA
1 CGAGCTGA
60286674 TGGGAGTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
CGAGCTGAATTCGAGCTCAAA
Found at i:60291616 original size:42 final size:42
Alignment explanation
Indices: 60291456--60291618 Score: 148
Period size: 42 Copynumber: 3.9 Consensus size: 42
60291446 ATACCAATGT
* * * ** *
60291456 CATATCCTAGATTTGGTCTTACATGGGATCTCATATCGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATAACGATGC
** * * * *
60291498 CAATAGGCTAGCTATGGTCTTACACGAAATCTCATTATGATGC
1 C-ATATCCCAGATATGGTCTTACACGAAATCTCATAACGATGC
* * *
60291541 CATGTCCCAGACATGGTCTTACACAAAATCTCATAACGATGC
1 CATATCCCAGATATGGTCTTACACGAAATCTCATAACGATGC
* *
60291583 CATATCTCAGATATGGTTTTACACGTAAA-CTCATAA
1 CATATCCCAGATATGGTCTTACACG-AAATCTCATAA
60291619 TCATAATGTC
Statistics
Matches: 95, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
42 60 0.63
43 35 0.37
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (42 bp):
CATATCCCAGATATGGTCTTACACGAAATCTCATAACGATGC
Found at i:60298594 original size:16 final size:16
Alignment explanation
Indices: 60298573--60298609 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
60298563 AATTGACCTT
60298573 CACATGAAGTTTTGTG
1 CACATGAAGTTTTGTG
60298589 CACATGAAGTTTTGTG
1 CACATGAAGTTTTGTG
60298605 CACAT
1 CACAT
60298610 TTATCACGGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (16 bp):
CACATGAAGTTTTGTG
Found at i:60299189 original size:22 final size:23
Alignment explanation
Indices: 60299162--60299206 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
60299152 AGGTATAGTA
60299162 AAATCT-AATTTCTT-TTTTTTTT
1 AAATCTAAATTT-TTATTTTTTTT
60299184 AAATCTAAATTTTTATTTTTTTT
1 AAATCTAAATTTTTATTTTTTTT
60299207 GCTTTCCGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (23 bp):
AAATCTAAATTTTTATTTTTTTT
Found at i:60304321 original size:5 final size:5
Alignment explanation
Indices: 60304311--60304356 Score: 67
Period size: 5 Copynumber: 9.2 Consensus size: 5
60304301 TAAGAACTAT
*
60304311 TTATA TTATA TTATA TTATA TTATA TAATA TTATA -TATA TATATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA T-TATA T
60304357 AGATAGATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
4 4 0.11
5 28 0.76
6 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TTATA
Found at i:60304347 original size:2 final size:2
Alignment explanation
Indices: 60304312--60304357 Score: 50
Period size: 2 Copynumber: 26.0 Consensus size: 2
60304302 AAGAACTATT
60304312 TA TA T- TA TA T- TA TA T- TA TA T- TA TA TA -A TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
60304348 TA TA TA TA TA
1 TA TA TA TA TA
60304358 GATAGATAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
1 6 0.16
2 32 0.84
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:60305470 original size:5 final size:5
Alignment explanation
Indices: 60305460--60305484 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
60305450 ATATTAATGT
60305460 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
60305485 ATTTATCCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:60306358 original size:17 final size:17
Alignment explanation
Indices: 60306321--60306371 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
60306311 ACACACACAA
* *
60306321 AAAAAAAAAAAAAAAAGG
1 AAAAAAAGAAAAAGAA-G
*
60306339 AAAAAAAGAAGAAGAAG
1 AAAAAAAGAAAAAGAAG
*
60306356 AAAGAAAGAAAAAGAA
1 AAAAAAAGAAAAAGAA
60306372 ATACAGAGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
17 15 0.54
18 13 0.46
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (17 bp):
AAAAAAAGAAAAAGAAG
Found at i:60316999 original size:31 final size:31
Alignment explanation
Indices: 60316934--60317036 Score: 107
Period size: 31 Copynumber: 3.3 Consensus size: 31
60316924 AGATTGGGTG
* * * * **
60316934 TGTGCGCCAATACAGGCATGCCACACAAGCA
1 TGTGGGCCCATACGGGCAAGCCACACGGGCA
*
60316965 TGTGGGCCCATACGGGCAAGCCACACGGGTA
1 TGTGGGCCCATACGGGCAAGCCACACGGGCA
* * *
60316996 TGTGGGCTCATACGGGCAAGCTACATGGGCA
1 TGTGGGCCCATACGGGCAAGCCACACGGGCA
*
60317027 TATGGGCCCA
1 TGTGGGCCCA
60317037 AAATTTTGAA
Statistics
Matches: 59, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 59 1.00
ACGTcount: A:0.25, C:0.28, G:0.31, T:0.16
Consensus pattern (31 bp):
TGTGGGCCCATACGGGCAAGCCACACGGGCA
Found at i:60324657 original size:75 final size:75
Alignment explanation
Indices: 60324578--60324716 Score: 172
Period size: 75 Copynumber: 1.9 Consensus size: 75
60324568 TTAAAAACAG
* * * * *
60324578 AAATCGAATAAATTCTGTTGAACGTCAAGAA-AAGAATATTGAAACAGAATTATTCAATTGATTT
1 AAATCAAACAAATCCTGTTAAACGACAAGAATAA-AATATTGAAACAGAATTATTCAATTGATTT
60324642 TTATTTAAAAA
65 TTATTTAAAAA
* * * * *
60324653 AAATCAAACAAATCCTGTTAAATGACAGGAATAAAATCTTGAAACAGATTTGTTCAATTGATTT
1 AAATCAAACAAATCCTGTTAAACGACAAGAATAAAATATTGAAACAGAATTATTCAATTGATTT
60324717 CTGTTTACAA
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
75 51 0.96
76 2 0.04
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (75 bp):
AAATCAAACAAATCCTGTTAAACGACAAGAATAAAATATTGAAACAGAATTATTCAATTGATTTT
TATTTAAAAA
Found at i:60328414 original size:20 final size:19
Alignment explanation
Indices: 60328391--60328429 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
60328381 GGGATGTGTG
60328391 ATGAATGGAA-CATGTGCTAA
1 ATGAAT-GAATCATG-GCTAA
60328411 ATGAATGAATCATGGCTAA
1 ATGAATGAATCATGGCTAA
60328430 TAAGTACGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.26
Consensus pattern (19 bp):
ATGAATGAATCATGGCTAA
Found at i:60329126 original size:18 final size:18
Alignment explanation
Indices: 60329040--60329137 Score: 119
Period size: 18 Copynumber: 5.4 Consensus size: 18
60329030 GTGTCCCAAG
*
60329040 CCACACGGGCGTGT-ATA
1 CCACACGGGCGTGTGTTA
* *
60329057 GCCACATGGGCTTGTG-TA
1 -CCACACGGGCGTGTGTTA
*
60329075 GCCACACGGGCATGTGTTA
1 -CCACACGGGCGTGTGTTA
60329094 CCACACGGGCGTGTGTTA
1 CCACACGGGCGTGTGTTA
60329112 CCACACGGGCGTGTGTTA
1 CCACACGGGCGTGTGTTA
*
60329130 CTACACGG
1 CCACACGG
60329138 CCTACCCACA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
18 70 0.97
19 2 0.03
ACGTcount: A:0.19, C:0.28, G:0.32, T:0.21
Consensus pattern (18 bp):
CCACACGGGCGTGTGTTA
Found at i:60333064 original size:22 final size:25
Alignment explanation
Indices: 60333033--60333085 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
60333023 AAAATTATGG
60333033 TTATTA-TTTT-T-TACCTTGTTGA
1 TTATTATTTTTATGTACCTTGTTGA
* *
60333055 TTATTCTTTTTATGTACGTTGTTGA
1 TTATTATTTTTATGTACCTTGTTGA
60333080 TTATTA
1 TTATTA
60333086 GATTTAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 5 0.20
23 4 0.16
24 1 0.04
25 15 0.60
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.62
Consensus pattern (25 bp):
TTATTATTTTTATGTACCTTGTTGA
Found at i:60334892 original size:42 final size:42
Alignment explanation
Indices: 60334833--60334983 Score: 187
Period size: 42 Copynumber: 3.6 Consensus size: 42
60334823 AGATTACGTT
* * *
60334833 TAAGACCATATCTGGGATATGCCATCAATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATG
* *
60334875 TAAGACCATATCTGGGATATGGCATTGATATGAGGCTTCATG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATG
* * * * *
60334917 TAAGACCATAGCTAGGCTATTGGCATCGATACGAGA-TCCCATG
1 TAAGACCATATCTGGGATA-TGGCATCGATATGAGACT-TCATG
60334960 TAAGACCATATCTGGGATATGGCA
1 TAAGACCATATCTGGGATATGGCA
60334984 ATGGTATGGT
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCATG
Found at i:60338154 original size:28 final size:29
Alignment explanation
Indices: 60338123--60338183 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
60338113 ATGAGCATGA
60338123 ATAT-AAGGTGATTTGGGCCTAAAGGGAC
1 ATATAAAGGTGATTTGGGCCTAAAGGGAC
* *
60338151 ATATAAAGGTGATTTGGGCCTAATGGGCC
1 ATATAAAGGTGATTTGGGCCTAAAGGGAC
60338180 ATAT
1 ATAT
60338184 GAATATGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 4 0.13
29 26 0.87
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (29 bp):
ATATAAAGGTGATTTGGGCCTAAAGGGAC
Found at i:60338263 original size:28 final size:29
Alignment explanation
Indices: 60338164--60338268 Score: 126
Period size: 30 Copynumber: 3.6 Consensus size: 29
60338154 TAAAGGTGAT
*
60338164 TTGGGCCTAATGGGCCATATGAATATGAAA
1 TTGGGCC-AATGGGCCATATGAATATGAGA
*
60338194 TTGGGCCTGATGGGCCATATGAATATGA-A
1 TTGGGCC-AATGGGCCATATGAATATGAGA
* *
60338223 TCGGGCCGATGGGCCATAT-AA-ATGAGA
1 TTGGGCCAATGGGCCATATGAATATGAGA
60338250 TTGGGCCAAGTGGGCCATA
1 TTGGGCCAA-TGGGCCATA
60338269 CGTATGTATG
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
26 4 0.06
27 10 0.14
28 21 0.30
29 7 0.10
30 27 0.39
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (29 bp):
TTGGGCCAATGGGCCATATGAATATGAGA
Found at i:60342407 original size:16 final size:16
Alignment explanation
Indices: 60342386--60342428 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
60342376 GTATATCGGC
60342386 AAAAGCTGAAATGTCG
1 AAAAGCTGAAATGTCG
60342402 AAAAGCTGAAATGTCG
1 AAAAGCTGAAATGTCG
*
60342418 AAAAGCCGAAA
1 AAAAGCTGAAA
60342429 GTTTGGCTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.49, C:0.14, G:0.23, T:0.14
Consensus pattern (16 bp):
AAAAGCTGAAATGTCG
Found at i:60342685 original size:29 final size:29
Alignment explanation
Indices: 60342643--60342760 Score: 112
Period size: 29 Copynumber: 4.1 Consensus size: 29
60342633 GCATGAATGT
*
60342643 AAGGTGATTTGGGCCTAACGGGCCATATA
1 AAGGTGATTTGGGCCTAATGGGCCATATA
* *
60342672 AAGGTGATTTGGGCCAAATGGGCCATATG
1 AAGGTGATTTGGGCCTAATGGGCCATATA
** * *
60342701 AATATGAAATTGGGCCTAATGGGCCATATG
1 AAGGTG-ATTTGGGCCTAATGGGCCATATA
* * * * *
60342731 AATGTGAATCGGGCC-GATTGGCCATATA
1 AAGGTGATTTGGGCCTAATGGGCCATATA
60342759 AA
1 AA
60342761 TGAGATTGGG
Statistics
Matches: 76, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
28 12 0.16
29 38 0.50
30 26 0.34
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.25
Consensus pattern (29 bp):
AAGGTGATTTGGGCCTAATGGGCCATATA
Done.