Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 182 of 320
Found at i:60338610 original size:40 final size:40
Alignment explanation
Indices: 60338526--60338617 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
60338516 GTTTGAATAG
*
60338526 AAAACGCCACTAAAGATTGAGCATTAGCAGCGATTCCCTC
1 AAAACGCCACTAAAGATCGAGCATTAGCAGCGATTCCCTC
* *
60338566 AAAACGCC-GTAATAGATCGAGCATTAGC-GACGCTT-CCTC
1 AAAACGCCACTAA-AGATCGAGCATTAGCAG-CGATTCCCTC
60338605 AAAAACGCCACTA
1 -AAAACGCCACTA
60338618 TATGTCGACC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
39 8 0.18
40 34 0.77
41 2 0.05
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.18
Consensus pattern (40 bp):
AAAACGCCACTAAAGATCGAGCATTAGCAGCGATTCCCTC
Found at i:60339570 original size:120 final size:120
Alignment explanation
Indices: 60339412--60339639 Score: 429
Period size: 120 Copynumber: 1.9 Consensus size: 120
60339402 GGTAACTATC
60339412 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
1 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
*
60339477 TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAATTAACTACACCAT
66 TATTTCGAACATATCTGAAACCGACTTTATAAACAATATAAATTAACTACACCAT
*
60339532 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTT
1 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
*
60339597 TATTTCGAGCATATCTGAAACCGACTTTATAAACAATATAAAT
66 TATTTCGAACATATCTGAAACCGACTTTATAAACAATATAAAT
60339640 CTTTATAAAC
Statistics
Matches: 105, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 105 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (120 bp):
TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
TATTTCGAACATATCTGAAACCGACTTTATAAACAATATAAATTAACTACACCAT
Found at i:60339645 original size:19 final size:19
Alignment explanation
Indices: 60339621--60339658 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
60339611 CTGAAACCGA
60339621 CTTTATAAACAATATAAAT
1 CTTTATAAACAATATAAAT
60339640 CTTTATAAACAATATAAAT
1 CTTTATAAACAATATAAAT
60339659 TAACTACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
CTTTATAAACAATATAAAT
Found at i:60340006 original size:68 final size:66
Alignment explanation
Indices: 60339843--60340059 Score: 194
Period size: 66 Copynumber: 3.3 Consensus size: 66
60339833 AATAACCCTT
* * ** *
60339843 TAAA-CCCAAAGCCCTAAATCTCTAATCATAAACCCATAAAACTATAAACACTAACAA--ATAA-
1 TAAACCCCAAA-CCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACAC-AA-AACCCTAAC
60339904 CCCA
63 CCCA
* * * ** *
60339908 TTCAACACCAGACCCTAAATCTCAAATCATAAACTTTTAAAATTACTCTAAACA-ATAAACCCTA
1 -TAAACCCCAAACCCTAAATCTCAAATCATAAACCCTT-AAA--ACTCCAAACACA-AAACCCTA
60339972 A-CCCA
61 ACCCCA
* *
60339977 TACACCCTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACACAAAACCCTAACCCC
1 TAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACACAAAACCCTAACCCC
*
60340042 T
66 A
60340043 TAAACCCCAAACCCTAA
1 TAAACCCCAAACCCTAA
60340060 CACTAACCTC
Statistics
Matches: 122, Mismatches: 20, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
65 18 0.15
66 44 0.36
67 13 0.11
68 31 0.25
69 16 0.13
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.20
Consensus pattern (66 bp):
TAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACACAAAACCCTAACCCC
A
Found at i:60340152 original size:22 final size:22
Alignment explanation
Indices: 60340100--60340152 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
60340090 CTTAAATTCC
60340100 AAACCCT-AAACTATAAACCAT
1 AAACCCTAAAACTATAAACCAT
* *
60340121 AAATCATAAAATCT-TAAACCAT
1 AAACCCTAAAA-CTATAAACCAT
60340143 AAACCCTAAA
1 AAACCCTAAA
60340153 TTCTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 19 0.73
23 2 0.08
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (22 bp):
AAACCCTAAAACTATAAACCAT
Found at i:60343368 original size:27 final size:27
Alignment explanation
Indices: 60343338--60343391 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
60343328 TTTATGTTAG
60343338 ATATATATCATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
60343365 ATATATATCATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
60343392 CTTACATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATATATCATATAATAACTTACATAA
Found at i:60343390 original size:14 final size:14
Alignment explanation
Indices: 60343346--60343390 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
60343336 AGATATATAT
60343346 CATATAATAACTTA
1 CATATAATAACTTA
60343360 CATA-AAT-A-TATA
1 CATATAATAACT-TA
60343372 TCATATAATAACTTA
1 -CATATAATAACTTA
60343387 CATA
1 CATA
60343391 ACTTACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 1 0.04
12 3 0.12
13 7 0.27
14 11 0.42
15 3 0.12
16 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (14 bp):
CATATAATAACTTA
Found at i:60343391 original size:9 final size:9
Alignment explanation
Indices: 60343379--60343428 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
60343369 ATATCATATA
60343379 ATAACTTAC
1 ATAACTTAC
60343388 ATAACTTAC
1 ATAACTTAC
60343397 ATAACTTAC
1 ATAACTTAC
60343406 -TAAACTTAC
1 AT-AACTTAC
*
60343415 TTAACTTAC
1 ATAACTTAC
*
60343424 GTAAC
1 ATAAC
60343429 ACATAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
8 1 0.03
9 36 0.95
10 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:60344356 original size:31 final size:31
Alignment explanation
Indices: 60344318--60344458 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
60344308 TTTAACGGTT
60344318 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
60344349 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
60344380 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
60344411 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
60344442 ATTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
60344459 ACTGTAAACG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:60344736 original size:25 final size:25
Alignment explanation
Indices: 60344678--60344771 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
60344668 CTCTTTTAAT
* *
60344678 AACTGGGGAAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
60344702 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
60344727 AACTGAGGCAAAGCCCTTCTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
60344752 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
60344772 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:60345609 original size:27 final size:27
Alignment explanation
Indices: 60345579--60345680 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
60345569 GGGCATATTC
* *
60345579 GTCATTTTACCATACAAGGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTATA
* *
60345606 GTCACTTTACCCTACAGGGGCT-TTATA
1 GTCATTTTACCCTACAAGGG-TATTATA
* * *
60345633 GTCTTTTTA-CCTAATAAGGGTATTTTA
1 GTCATTTTACCCT-ACAAGGGTATTATA
*
60345660 GTCATTTCACCCTACAAGGGT
1 GTCATTTTACCCTACAAGGGT
60345681 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.07
27 51 0.86
28 4 0.07
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTATA
Found at i:60345727 original size:27 final size:27
Alignment explanation
Indices: 60345674--60346060 Score: 210
Period size: 27 Copynumber: 14.3 Consensus size: 27
60345664 TTTCACCCTA
* * * * *
60345674 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
60345701 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
60345728 CAATGGTATTTTTA-TAATTTT-TAGGAAC
1 CAAGGGTA-TTTTAGTAATTTTATA--AAC
* *
60345756 TCAAGGGTATTTCTA-TAATTTTGTAAAT
1 -CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
60345784 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** * *
60345811 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
60345837 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * *
60345865 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
60345892 CAGGGGTATTTTAGTAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
60345918 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAC
* *
60345945 CGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
60345972 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* **** * *
60345999 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*** * *
60346026 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
60346053 CGAGGGTA
1 CAAGGGTA
60346061 AAATGGTAAT
Statistics
Matches: 297, Mismatches: 51, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.09
27 239 0.80
28 13 0.04
29 16 0.05
30 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:60345972 original size:80 final size:81
Alignment explanation
Indices: 60345785--60345992 Score: 278
Period size: 80 Copynumber: 2.6 Consensus size: 81
60345775 TTTGTAAATC
** ** *
60345785 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACTAGTGGTATTT
*
60345849 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACG
*
60345866 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTT
* *
60345930 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAACG
* *
60345947 A-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
60345993 GTAAATCGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 62 0.54
81 51 0.45
82 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTT
GGTAATTTTACAAACG
Found at i:60346001 original size:54 final size:54
Alignment explanation
Indices: 60345676--60346131 Score: 276
Period size: 54 Copynumber: 8.4 Consensus size: 54
60345666 TCACCCTACA
* * * * * * *
60345676 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* ** ** *
60345730 ATGGTATTTTTATAATTTTTAGGAACTCAAGGGTATTTCTA-TAATTTTGTAAATC-
1 AGGGTATTTTGGTAA-TTTTACAAAC-CAAGGGTATTT-TAGTAATTTTATAAATCG
*** ** * * *
60345785 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
60345839 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CC
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
60345893 AGGGGTATTTTAGTAATTTTACAGA-CTAGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTA-TAAATCG
* *
60345947 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
***** * * * *** *
60346001 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
*** * ** * * *** * *
60346055 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
*
60346109 AGGGTACTTTGGTAATTTTACAA
1 AGGGTATTTTGGTAATTTTACAA
60346132 GTCGAGGGTA
Statistics
Matches: 323, Mismatches: 67, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
53 43 0.13
54 229 0.71
55 15 0.05
56 35 0.11
57 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
Found at i:60346061 original size:27 final size:27
Alignment explanation
Indices: 60345983--60346114 Score: 201
Period size: 27 Copynumber: 4.9 Consensus size: 27
60345973 AAGGGTATTT
* *
60345983 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
60346010 CAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
60346037 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
60346064 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
60346091 TGGTAATTCTATAAATCGAGGGTA
1 TAGTAATTCTATAAATCGAGGGTA
60346115 CTTTGGTAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:60346121 original size:27 final size:27
Alignment explanation
Indices: 60345985--60346141 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
60345975 GGGTATTTTA
* * **
60345985 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
60346012 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
60346039 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
60346066 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
***
60346093 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
60346120 GTAATTTTACAAGTCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
60346142 TTTCAAAATA
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:60346124 original size:81 final size:81
Alignment explanation
Indices: 60345943--60346141 Score: 236
Period size: 81 Copynumber: 2.5 Consensus size: 81
60345933 AATTTTACTG
* * * *** *
60345943 ATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAA
60346008 AACAGTAATTCTATAA
66 AACAGTAATTCTATAA
* ** * * *
60346024 ATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAA
**
60346089 AATGGTAATTCTATAA
66 AACAGTAATTCTATAA
* * *
60346105 ATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTA
60346142 TTTCAAAATA
Statistics
Matches: 95, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAA
AACAGTAATTCTATAA
Found at i:60352148 original size:13 final size:14
Alignment explanation
Indices: 60352132--60352160 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60352122 TTATAAATAT
60352132 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
60352145 TTATAATGGTTTAA
1 TTATAATGGTTTAA
60352159 TT
1 TT
60352161 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:60352577 original size:21 final size:21
Alignment explanation
Indices: 60352553--60352604 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
60352543 TAGAGCGGAT
* *
60352553 GCAGCAGTGAGGGTGGCA-ACG
1 GCAGCAGCGAGGGAGGCAGA-G
60352574 GCAGCAGCGAGGGAGGCAGAG
1 GCAGCAGCGAGGGAGGCAGAG
60352595 GCAGCAGCGA
1 GCAGCAGCGA
60352605 TGGCAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.21, G:0.48, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGAG
Found at i:60352878 original size:33 final size:33
Alignment explanation
Indices: 60352839--60352917 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 33
60352829 AGATTTAATT
* * *
60352839 TTTTTGGTTGTATTTTTTATGCTACATTTGCTG
1 TTTTTGGTTGGATTTTTCACGCTACATTTGCTG
*
60352872 TTTTTGGTTGGA--TTTCACGCTATATTTGCTG
1 TTTTTGGTTGGATTTTTCACGCTACATTTGCTG
60352903 TTTTTGGTTGGATTT
1 TTTTTGGTTGGATTT
60352918 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 28 0.70
33 12 0.30
ACGTcount: A:0.11, C:0.09, G:0.22, T:0.58
Consensus pattern (33 bp):
TTTTTGGTTGGATTTTTCACGCTACATTTGCTG
Found at i:60352902 original size:31 final size:31
Alignment explanation
Indices: 60352859--60352917 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
60352849 TATTTTTTAT
60352859 GCTACATTTGCTGTTTTTGGTTGGATTTCAC
1 GCTACATTTGCTGTTTTTGGTTGGATTTCAC
*
60352890 GCTATATTTGCTGTTTTTGGTTGGATTT
1 GCTACATTTGCTGTTTTTGGTTGGATTT
60352918 AATGCAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (31 bp):
GCTACATTTGCTGTTTTTGGTTGGATTTCAC
Found at i:60353108 original size:43 final size:43
Alignment explanation
Indices: 60352999--60353108 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
60352989 AAAAGCGTCA
*
60352999 CTAAAAGTCATGACTTTTAGCGGCGCTTCCTCCACAAACGCCG
1 CTAAAAGTCATGACTTTTAGTGGCGCTTCCTCCACAAACGCCG
* * *
60353042 CTAAAAGCCATGACTTTTAGTGGCGCTT-TTCCAGCAGACGCCG
1 CTAAAAGTCATGACTTTTAGTGGCGCTTCCTCCA-CAAACGCCG
60353085 CTAAAAGTCATGATCTTTT-GTGGC
1 CTAAAAGTCATGA-CTTTTAGTGGC
60353109 ATTTTTTCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 4 0.07
43 51 0.85
44 5 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
CTAAAAGTCATGACTTTTAGTGGCGCTTCCTCCACAAACGCCG
Found at i:60355993 original size:20 final size:20
Alignment explanation
Indices: 60355943--60355994 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
60355933 ATCTGATCGT
60355943 ACACGCTCGTGTGGCTCAAG
1 ACACGCTCGTGTGGCTCAAG
* * * *
60355963 ACTCACCCGTGTGGCTCAGG
1 ACACGCTCGTGTGGCTCAAG
60355983 ACACGCTCGTGT
1 ACACGCTCGTGT
60355995 CCTCCACCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.21
Consensus pattern (20 bp):
ACACGCTCGTGTGGCTCAAG
Found at i:60357870 original size:48 final size:48
Alignment explanation
Indices: 60357717--60357984 Score: 209
Period size: 48 Copynumber: 5.5 Consensus size: 48
60357707 AGGGTAAAAT
* * * * * * **
60357717 GCCGATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATACATTGGT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACAT--ATCGAC
* * * * * * * *
60357767 GCCGGTGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACATATCGAC
* * *
60357815 GCCGATGCCATG-CTCCAAACATGGTCTTATACTGACTCACATATTGAG
1 GCCGATGCCATGTC-CCAGACATGGTCTTATACTGACTCACATATCGAC
* * * *
60357863 GCTGATGCCATGTCCCAGACATGGTTTTACACT-AGCACACATATCGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGA-CTCACATATCGAC
* * * **
60357911 GCCGGTGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACAT-ATCGAC
*
60357959 GCCGATGTCATGTCCCAGACATGGTC
1 GCCGATGCCATGTCCCAGACATGGTC
60357985 CTACACTAGC
Statistics
Matches: 173, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
47 2 0.01
48 134 0.77
49 3 0.02
50 34 0.20
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACATATCGAC
Found at i:60357895 original size:96 final size:94
Alignment explanation
Indices: 60357714--60358005 Score: 327
Period size: 96 Copynumber: 3.0 Consensus size: 94
60357704 AAAAGGGTAA
* * *
60357714 AATGCCGATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATACATTGGTGCCGGTGCCATG
1 AATGCCGATGCCATGTC-CAGACATGGTCTTATACTGGCTCTCAT--ATTGG-GCCGATGCCATG
*
60357779 TCCTAGACATGGTCTTACACT-G-ACACATATAAC
62 TCCCAGACATGGTCTTACACTAGCACACATAT--C
* * * *
60357812 AATGCCGATGCCATGCTCCAAACATGGTCTTATACTGACTCACATATTGAGGCTGATGCCATGTC
1 AATGCCGATGCCATG-TCCAGACATGGTCTTATACTGGCTCTCATATTG-GGCCGATGCCATGTC
*
60357877 CCAGACATGGTTTTACACTAGCACACATATC
64 CCAGACATGGTCTTACACTAGCACACATATC
* * * * * *
60357908 GACGCCGGTGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTTGCCGATGTCATGTC
1 AATGCCGATGCCATGT-CCAGACATGGTCTTATACTGGCTCTCATATTG-GGCCGATGCCATGTC
* *
60357973 CCAGACATGGTCCTACACTAGCACACGTATC
64 CCAGACATGGTCTTACACTAGCACACATATC
60358004 AA
1 AA
60358006 CCAAATGTCT
Statistics
Matches: 165, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
95 1 0.01
96 115 0.70
97 2 0.01
98 45 0.27
99 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCAGACATGGTCTTATACTGGCTCTCATATTGGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACACATATC
Found at i:60366900 original size:26 final size:26
Alignment explanation
Indices: 60366839--60366889 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
60366829 ACCAAAATCA
*
60366839 CATTTCC-TTTGAACACTTACCCTTT
1 CATTTCCTTTTGAACACTTACCATTT
60366864 CATTTCCTTTTGAACACTTACCATTT
1 CATTTCCTTTTGAACACTTACCATTT
60366890 TGTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (26 bp):
CATTTCCTTTTGAACACTTACCATTT
Found at i:60373169 original size:40 final size:40
Alignment explanation
Indices: 60373114--60373210 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
60373104 GGATGATAAT
*
60373114 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
60373154 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
* *
60373194 C-GGCTAAATCCCAAAGG
1 CGGGCTAAGTCCCGAAGG
60373211 TACTTGGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 16 0.30
40 37 0.70
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
Found at i:60377098 original size:22 final size:22
Alignment explanation
Indices: 60377068--60377119 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
60377058 ATAAGAAAAT
*
60377068 AAATAAATTGCGTAAAAGAATA
1 AAATGAATTGCGTAAAAGAATA
60377090 AAATGAATTGCGTAAAAGAATA
1 AAATGAATTGCGTAAAAGAATA
60377112 AAA-GAATT
1 AAATGAATT
60377120 TGTTGATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (22 bp):
AAATGAATTGCGTAAAAGAATA
Found at i:60380532 original size:48 final size:46
Alignment explanation
Indices: 60380479--60380582 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 46
60380469 CTTCTTCCCT
* * * *
60380479 CTTTCTCAATCAATTTTTCTTTGGCCGATTGCTT-CTAGTTCTTTTTCC
1 CTTTCTCAATC-AGTTTCCCTTGACCGATTGCTTCCTA-TT-TTTTTCC
*
60380527 CTTTCTCAATCGGTTTCCCTTGACCGATTGCTTCCTATTTTTTTCC
1 CTTTCTCAATCAGTTTCCCTTGACCGATTGCTTCCTATTTTTTTCC
*
60380573 CTCTCTCAAT
1 CTTTCTCAAT
60380583 AGGTTCTTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 16 0.33
47 19 0.39
48 14 0.29
ACGTcount: A:0.12, C:0.29, G:0.10, T:0.49
Consensus pattern (46 bp):
CTTTCTCAATCAGTTTCCCTTGACCGATTGCTTCCTATTTTTTTCC
Found at i:60387757 original size:48 final size:47
Alignment explanation
Indices: 60387703--60387809 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 47
60387693 CTTCTTCCCT
* *
60387703 CTTTCTCAATCAG-TTTCCCTGTGATTGATTGCTTC-TAGTTCTTTTTCC
1 CTTTCTCAATC-GTTTTCCCT-TGATCGATTACTTCTTA-TTCTTTTTCC
60387751 CTTTCTCAATCGTTTTCCCTTGATCGATTACTTCTTATTCTTTTTCC
1 CTTTCTCAATCGTTTTCCCTTGATCGATTACTTCTTATTCTTTTTCC
*
60387798 CTCTCTCAATCG
1 CTTTCTCAATCG
60387810 GTTCTTAGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
47 34 0.63
48 20 0.37
ACGTcount: A:0.13, C:0.28, G:0.09, T:0.50
Consensus pattern (47 bp):
CTTTCTCAATCGTTTTCCCTTGATCGATTACTTCTTATTCTTTTTCC
Found at i:60388108 original size:21 final size:21
Alignment explanation
Indices: 60388082--60388124 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
60388072 ATCCTCTCTT
60388082 GTGTCGAATGTTGATTTGACA
1 GTGTCGAATGTTGATTTGACA
60388103 GTGTCGAATGTTGATTTGACA
1 GTGTCGAATGTTGATTTGACA
60388124 G
1 G
60388125 CATCAAATCG
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:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (21 bp):
GTGTCGAATGTTGATTTGACA
Found at i:60393765 original size:29 final size:29
Alignment explanation
Indices: 60393702--60393769 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
60393692 TAATCAACCG
60393702 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
60393731 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
60393760 CGCACACTTA
1 CGCACACTTA
60393770 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:60393882 original size:174 final size:174
Alignment explanation
Indices: 60393591--60393918 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
60393581 AACTCAAGGT
* *
60393591 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
60393656 GAAAATATATATTGGGTTCGCATACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
60393721 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
60393765 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
60393830 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
60393895 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
60393919 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:60393910 original size:29 final size:30
Alignment explanation
Indices: 60393871--60393949 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
60393861 CTTAATAATC
60393871 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
60393901 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
60393930 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
60393950 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:60395840 original size:24 final size:25
Alignment explanation
Indices: 60395783--60395843 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
60395773 ATGAATTATG
* *
60395783 AATCGGTATGCTCTTACAAGCTGTA
1 AATCGGTAAGCTCTCACAAGCTGTA
*
60395808 AATTGGTAAGCTCTCACAAGCTG-A
1 AATCGGTAAGCTCTCACAAGCTGTA
*
60395832 AATCAGTAAGCT
1 AATCGGTAAGCT
60395844 TATACGAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACAAGCTGTA
Found at i:60398108 original size:39 final size:39
Alignment explanation
Indices: 60398063--60398245 Score: 276
Period size: 39 Copynumber: 4.7 Consensus size: 39
60398053 GTACGTGGCT
* * *
60398063 TGCGGACTTCAAGTCCAGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
* *
60398102 TACGGACCTCATGTCCGGATATATTCCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
* * **
60398141 TGCGGACTTCACGTCCGGATATATTTCCATAATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
60398180 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
*
60398219 TGCGGACCTCATGTCCGGATGTATTTC
1 TGCGGACCTCATGTCCGGATATATTTC
60398246 AAATACCATG
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 128 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
Found at i:60405939 original size:39 final size:39
Alignment explanation
Indices: 60405923--60406130 Score: 317
Period size: 39 Copynumber: 5.3 Consensus size: 39
60405913 CGGACTTTAA
* *
60405923 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCGCAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
60405962 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
* *
60406001 GTCCGGATATATTCCCAGCATATAGCCTGCGGACTTCGT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
* ** *
60406040 GTCCGAATATATTCCCAGCATATAGCCTGTAGACCACAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
* *
60406079 GTCCGAATATATTCCCAGCATATAGCTTGCGGACCTCAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
*
60406118 GTCCGGATGTATT
1 GTCCGGATATATT
60406131 TCAAATACCA
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 153 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
Found at i:60408376 original size:42 final size:44
Alignment explanation
Indices: 60408317--60408439 Score: 151
Period size: 42 Copynumber: 2.8 Consensus size: 44
60408307 ATGTAATTCA
* *
60408317 ATATCGATGCCTCTGTCCCAGACAAGGTCTTACAC-AAAATCAG
1 ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAAATCAC
* * *
60408360 ATAT-GATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTC
1 ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAAATCAC
* * * *
60408403 AAATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGA
60408440 TATCTTAGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 28 0.41
43 12 0.18
44 28 0.41
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (44 bp):
ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAAATCAC
Found at i:60408425 original size:44 final size:44
Alignment explanation
Indices: 60408297--60408438 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 44
60408287 CGTCCCGAAT
* * *
60408297 ATGGTCTTGCATGT-AAT-TCAATATCGATGCCTCTGTCCCAGAC
1 ATGGTCTTACACGTAAATCTCAA-ATCGATGCCTATGTCCCAGAC
* * ** *
60408340 AAGGTCTTACAC-AAAATCAGATAT-GATGCCTATGTCCCAGAC
1 ATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCAGAC
* *
60408382 ATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAGAC
1 ATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCAGAC
*
60408426 ACGGTCTTACACG
1 ATGGTCTTACACG
60408439 ATATCTTAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 28 0.35
43 22 0.28
44 29 0.37
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCAGAC
Found at i:60414500 original size:29 final size:29
Alignment explanation
Indices: 60414450--60414523 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
60414440 GTCATGAGAT
* *
60414450 TGGCACTGAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA--GTACA
60414481 -GG-ACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTTAAAGTACA
60414508 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60414524 TGGTTGATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.13
28 2 0.05
29 30 0.77
30 2 0.05
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:60414748 original size:174 final size:174
Alignment explanation
Indices: 60414483--60414808 Score: 589
Period size: 174 Copynumber: 1.9 Consensus size: 174
60414473 ATTGTACAGG
60414483 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTG
* * *
60414548 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
60414613 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
* *
60414657 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTG
* *
60414722 TGCAAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGTGACTTTACCGAGTCAATT
66 TGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
60414787 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
60414809 ACCTTGAGTT
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 145 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.32
Consensus pattern (174 bp):
ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTG
TGCAAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
Found at i:60422652 original size:29 final size:30
Alignment explanation
Indices: 60422581--60422653 Score: 100
Period size: 28 Copynumber: 2.5 Consensus size: 30
60422571 GTCATGAGAT
*
60422581 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACA
60422612 --G-ACTAAGTGTGCGAGTTTAAA-GTACA
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA
60422638 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
60422654 TGGTTGATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
26 5 0.13
28 20 0.53
29 13 0.34
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.29
Consensus pattern (30 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACA
Found at i:60422903 original size:174 final size:174
Alignment explanation
Indices: 60422613--60423112 Score: 937
Period size: 174 Copynumber: 2.9 Consensus size: 174
60422603 AATTGTACAG
* *
60422613 ACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
60422678 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
60422743 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
* *
60422787 ACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTGAGCACTATGTG
1 ACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
60422852 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
60422917 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
131 TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
60422961 ACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
1 ACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
* * *
60423026 TGCGAACTCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAATT
66 TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
60423091 TTGGACAGCGGAAAAGGTAAGT
131 TTGGACAGCGGAAAAGGTAAGT
60423113 ACCTTGAGTT
Statistics
Matches: 317, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 317 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
ACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATGTG
TGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGATT
TTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATGGC
Found at i:60430904 original size:48 final size:48
Alignment explanation
Indices: 60430827--60431294 Score: 398
Period size: 48 Copynumber: 9.8 Consensus size: 48
60430817 TGGTACATGT
* * * * *
60430827 GAGCCTGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * * * * * * * *
60430875 AAGCTAGTGTAAAACCATGTCTAGGACATGGCATCGGCCTCAATAGGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * * *
60430923 GAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGTTGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* ** * * * *
60430971 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATTAGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * * *
60431019 GAGCCAGTGTACGACCATGTTTGGAACATGGCATCGGCATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * * * * * **
60431067 GAGCTACTGTAAAACCATGTCTGGGACATGGGATCGGCCTCAATT-TCT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TATTATGA
* * *
60431115 GAGCCAGTGTAAGACCATGTTTTGAACATGGCATCGGCATTATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * * * * * * *
60431163 AAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCAATATGT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * * * * **
60431211 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCTTTGTTACAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
* * *
60431259 AAACCATTGTAAGACCATGTCTGGGACATGGCATCG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCG
60431295 ACATCTTACT
Statistics
Matches: 321, Mismatches: 97, Indels: 4
0.76 0.23 0.01
Matches are distributed among these distances:
47 3 0.01
48 316 0.98
49 2 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTATTATGA
Found at i:60430989 original size:96 final size:96
Alignment explanation
Indices: 60430823--60431294 Score: 683
Period size: 96 Copynumber: 4.9 Consensus size: 96
60430813 GTTATGGTAC
* * *
60430823 ATGTGAGCCTGTGTAAGACCATGTTTGGAACATGGCATTGGCATTGTTATGAAAGCTAGTGTAAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAG
*
60430888 ACCATGTCTAGGACATGGCATCGGCCTCAAT
66 ACCATGTCTGGGACATGGCATCGGCCTCAAT
* * * * *
60430919 AGGTGAGCCAGTGTAAGACCATGTTTGGGACATGGCATCGGTATTGTTGTGAGAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAG
**
60430984 ACCATGTCTGGGACATGGCATTAGCCTCAAT
66 ACCATGTCTGGGACATGGCATCGGCCTCAAT
* * * *
60431015 ATGTGAGCCAGTGTACGACCATGTTTGGAACATGGCATCGGCATTGTTATGAGAGCTACTGTAAA
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAG
*
60431080 ACCATGTCTGGGACATGGGATCGGCCTCAAT
66 ACCATGTCTGGGACATGGCATCGGCCTCAAT
* * * *
60431111 TTCTGAGCCAGTGTAAGACCATGTTTTGAACATGGCATCGGCATTATTATGAAAGCTAGTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAG
* *
60431176 ACCATGTTTGGGACATGGCATTGGCCTCAAT
66 ACCATGTCTGGGACATGGCATCGGCCTCAAT
* * ** * * *
60431207 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATTGGCTTTGTTACAAAAACCATTGTAAG
1 ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAG
60431272 ACCATGTCTGGGACATGGCATCG
66 ACCATGTCTGGGACATGGCATCG
60431295 ACATCTTACT
Statistics
Matches: 331, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
96 331 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (96 bp):
ATGTGAGCCAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTGTTATGAAAGCTAGTGTAAG
ACCATGTCTGGGACATGGCATCGGCCTCAAT
Found at i:60434500 original size:47 final size:46
Alignment explanation
Indices: 60434431--60434559 Score: 147
Period size: 47 Copynumber: 2.8 Consensus size: 46
60434421 GTTATTGTGA
* *
60434431 GCTAGTGTAAGACATGTCTGGGATATGCATCGGCCACATT-ATGAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-CATTGACGAGT
* * *
60434477 GCTAGTGTAAAACCATGTTTGGGACATGGCACCGG--CATTGAGACGAGT
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCCATT--GACGAGT
60434525 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC
60434560 TTGAGACATA
Statistics
Matches: 68, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
45 4 0.06
46 17 0.25
47 25 0.37
48 22 0.32
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCCATTGACGAGT
Found at i:60434530 original size:48 final size:46
Alignment explanation
Indices: 60434431--60434566 Score: 134
Period size: 46 Copynumber: 2.9 Consensus size: 46
60434421 GTTATTGTGA
* * * *
60434431 GCTAGTGTAAGACATGTCTGGGATATGCATCGGCCACATT---ATGAGT
1 GCTAGTGTAAAACATGTCTGGGACATGCACCGG---CATTGAGACGAGT
*
60434477 GCTAGTGTAAAACCATGTTTGGGACATGGCACCGGCATTGAGACGAGT
1 GCTAGTGTAAAA-CATGTCTGGGACAT-GCACCGGCATTGAGACGAGT
* * *
60434525 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGAC
1 GCTAGTGTAAAACATGTCTGGGACATGCACCGGCATTGAGAC
60434567 ATAAGTCAGT
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
45 4 0.05
46 25 0.33
47 25 0.33
48 22 0.29
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAAACATGTCTGGGACATGCACCGGCATTGAGACGAGT
Found at i:60438909 original size:10 final size:10
Alignment explanation
Indices: 60438896--60438928 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
60438886 AAAACGAGAA
60438896 AAAAAGGGAC
1 AAAAAGGGAC
60438906 AAAAAGGGAC
1 AAAAAGGGAC
*
60438916 -AAAACGGAC
1 AAAAAGGGAC
60438925 AAAA
1 AAAA
60438929 TCGAGAAGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.38
10 13 0.62
ACGTcount: A:0.64, C:0.12, G:0.24, T:0.00
Consensus pattern (10 bp):
AAAAAGGGAC
Found at i:60439970 original size:13 final size:13
Alignment explanation
Indices: 60439952--60439976 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60439942 GTTTAATTAG
60439952 TTAATTAGTTTAT
1 TTAATTAGTTTAT
60439965 TTAATTAGTTTA
1 TTAATTAGTTTA
60439977 ATAAACAACC
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAATTAGTTTAT
Found at i:60447976 original size:14 final size:14
Alignment explanation
Indices: 60447957--60447986 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60447947 GATAAATACT
60447957 TGATTTGTTCTTAA
1 TGATTTGTTCTTAA
60447971 TGATTTGTTCTTAA
1 TGATTTGTTCTTAA
60447985 TG
1 TG
60447987 CTTTAGTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.07, G:0.17, T:0.57
Consensus pattern (14 bp):
TGATTTGTTCTTAA
Found at i:60448435 original size:13 final size:13
Alignment explanation
Indices: 60448417--60448441 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60448407 AGTTTAATTA
60448417 GTTAATTAGTTTG
1 GTTAATTAGTTTG
60448430 GTTAATTAGTTT
1 GTTAATTAGTTT
60448442 AATAAACAAC
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:0.24, C:0.00, G:0.20, T:0.56
Consensus pattern (13 bp):
GTTAATTAGTTTG
Found at i:60452000 original size:47 final size:47
Alignment explanation
Indices: 60451942--60452395 Score: 802
Period size: 47 Copynumber: 9.7 Consensus size: 47
60451932 ACGTTTCATT
60451942 CCTTAT-ACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
60451988 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
*
60452035 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCTATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
*
60452082 CCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
60452129 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
*
60452176 CATTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
* *
60452223 CCTTAGCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
60452270 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
* *
60452317 CCTTAGCACATATATGCATGTTCACATTCATCACATTGGCCATTCGG
1 CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
* * **
60452364 CCTTATCACATATATACACATTCACATTCATC
1 CCTTATCACACATATGCATGTTCACATTCATC
60452396 TCATAAAATC
Statistics
Matches: 391, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
46 6 0.02
47 385 0.98
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
CCTTATCACACATATGCATGTTCACATTCATCACATTGGCCATTCGG
Found at i:60452372 original size:22 final size:22
Alignment explanation
Indices: 60452252--60452374 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
60452242 GTTCACATTC
60452252 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
60452274 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
60452298 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
* * * *
60452321 AGCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
60452345 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60452368 ATCACAT
1 ATCACAT
60452375 ATATACACAT
Statistics
Matches: 73, Mismatches: 12, Indels: 32
0.62 0.10 0.27
Matches are distributed among these distances:
22 22 0.30
23 18 0.25
24 18 0.25
25 15 0.21
ACGTcount: A:0.25, C:0.29, G:0.14, T:0.32
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:60462759 original size:46 final size:46
Alignment explanation
Indices: 60462634--60462794 Score: 143
Period size: 46 Copynumber: 3.5 Consensus size: 46
60462624 GTGCGAATGC
* * * *
60462634 CATGTCCCAGACATGGTCTTACACTGACATA--TCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGACTTACGTCTC-AAGGCCAACG
* *
60462679 CATGTCCCAAACATGTCTTACACTGACTTACGTCTCGAGGCCAACG
1 CATGTCCCAGACATGTCTTACACTGACTTACGTCTCAAGGCCAACG
* * * *
60462725 CATGTCCCAGACATGTCTTATACTAGCAC-T-CGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACT-G-ACTTACGTCTCAAGGCCAACG
60462771 CCATGTCCCAGACATGGTCTTACA
1 -CATGTCCCAGACAT-GTCTTACA
60462795 ATGGCTCTCA
Statistics
Matches: 97, Mismatches: 12, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
44 15 0.15
45 14 0.14
46 43 0.44
47 16 0.16
48 9 0.09
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTTACGTCTCAAGGCCAACG
Found at i:60464009 original size:25 final size:25
Alignment explanation
Indices: 60463968--60464019 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
60463958 TGTGTACTAA
60463968 TGAATGAATAAGAGCACTATGTGTG
1 TGAATGAATAAGAGCACTATGTGTG
* *
60463993 TGAATG-ATTAGAGGCACTGTGTGTG
1 TGAATGAATAAGA-GCACTATGTGTG
60464018 TG
1 TG
60464020 CGAATTCCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.29, C:0.08, G:0.33, T:0.31
Consensus pattern (25 bp):
TGAATGAATAAGAGCACTATGTGTG
Found at i:60466652 original size:47 final size:47
Alignment explanation
Indices: 60466583--60466841 Score: 428
Period size: 47 Copynumber: 5.5 Consensus size: 47
60466573 GTGTGTATAC
* *
60466583 GTGAAAGTGTATATATGTGATAAGGCTTAATAGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
60466630 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
60466677 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
60466724 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * * *
60466771 GTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
*
60466818 GTGAAAGTGTATAAATGTGATAAG
1 GTGAAAGTGTATATATGTGATAAG
60466842 TCCCGAAGGG
Statistics
Matches: 200, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 200 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:60467016 original size:37 final size:37
Alignment explanation
Indices: 60466960--60467038 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
60466950 CCGAGCTCTA
* * *
60466960 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
60466997 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
60467034 AAGAC
1 AAGAC
60467039 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:60468609 original size:34 final size:34
Alignment explanation
Indices: 60468571--60468640 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
60468561 TTAACCCCTC
* *
60468571 TTTCAATAGCAGTAGCAGTCTCGGCCTGAGCCCA
1 TTTCAATAACAATAGCAGTCTCGGCCTGAGCCCA
* * * *
60468605 TTTCAGTAACAATGGCAGTCTGGGCCTTAGCCCA
1 TTTCAATAACAATAGCAGTCTCGGCCTGAGCCCA
60468639 TT
1 TT
60468641 ACATTACAGT
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:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (34 bp):
TTTCAATAACAATAGCAGTCTCGGCCTGAGCCCA
Found at i:60469103 original size:18 final size:19
Alignment explanation
Indices: 60469063--60469103 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
60469053 CATATCGCAG
60469063 GCCCATGTGGACCTACACA
1 GCCCATGTGGACCTACACA
*
60469082 -CCCATGTGG-CCTACATA
1 GCCCATGTGGACCTACACA
60469099 GCCCA
1 GCCCA
60469104 AACATGGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.24, C:0.39, G:0.20, T:0.17
Consensus pattern (19 bp):
GCCCATGTGGACCTACACA
Found at i:60471439 original size:93 final size:93
Alignment explanation
Indices: 60471324--60471494 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
60471314 GCCCCTAAGT
* * *
60471324 GAACTCGGACTCAACTGAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
60471389 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
60471417 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60471482 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60471495 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60471482 original size:46 final size:45
Alignment explanation
Indices: 60471321--60471491 Score: 179
Period size: 46 Copynumber: 3.7 Consensus size: 45
60471311 CCCGCCCCTA
* * * *
60471321 AGTGAACTCGGACTCAACTGAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
* *
60471366 AAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-T
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCAT
*
60471414 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
60471459 AGGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 A-GTGAACTCGGACTCAACTCAACGAGTTCGGA
60471492 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 11, Indels: 20
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 3 0.03
45 1 0.01
46 57 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT
Found at i:60471948 original size:30 final size:30
Alignment explanation
Indices: 60471914--60471973 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
60471904 ATTTAATACG
60471914 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
60471944 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
60471974 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:60478903 original size:46 final size:46
Alignment explanation
Indices: 60478831--60479002 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
60478821 AACCCGCCCC
* * * *
60478831 TAAGTGAACTCAGACGCAACTGAACGAGCTT-GGGCGTTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGGCATTTGCATCCA
* *
60478877 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCATCCA
* * * *
60478925 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
*
60478970 TAGGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
60479003 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.05
44 2 0.02
45 3 0.03
46 55 0.53
47 28 0.27
48 3 0.03
49 2 0.02
50 5 0.05
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCATCCA
Found at i:60478950 original size:93 final size:93
Alignment explanation
Indices: 60478836--60479006 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
60478826 GCCCCTAAGT
* * * *
60478836 GAACTCAGACGCAACTGAACGAGCTT-GGGCGTTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACGCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
60478900 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
* * *
60478929 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAGGTGAACTCGGACTCAACTCAA
1 GAACTCAGACGCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
60478994 CGAGTTCGGATGC
66 CGAGTTCGGATGC
60479007 TCAACCATCT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.22
Consensus pattern (93 bp):
GAACTCAGACGCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:60482632 original size:11 final size:11
Alignment explanation
Indices: 60482613--60482642 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
60482603 GACTCAGGTA
60482613 CATACGAGATT
1 CATACGAGATT
*
60482624 CATATGAGATT
1 CATACGAGATT
60482635 CATACGAG
1 CATACGAG
60482643 TATTGAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (11 bp):
CATACGAGATT
Found at i:60483654 original size:27 final size:26
Alignment explanation
Indices: 60483614--60483664 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
60483604 CGAGGCTGCT
*
60483614 AGATATTATGGCGAAGTCACCAGAAC
1 AGATATTATGGCGAAGCCACCAGAAC
* *
60483640 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TATGGCGAAGCCACCAGA
60483665 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTATGGCGAAGCCACCAGAAC
Found at i:60483933 original size:8 final size:8
Alignment explanation
Indices: 60483920--60483948 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
60483910 TACCAAAGTG
60483920 GGCCCATT
1 GGCCCATT
60483928 GGCCCATT
1 GGCCCATT
60483936 GGCCCATT
1 GGCCCATT
60483944 GGCCC
1 GGCCC
60483949 TTTTTCGACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.10, C:0.41, G:0.28, T:0.21
Consensus pattern (8 bp):
GGCCCATT
Found at i:60486654 original size:27 final size:27
Alignment explanation
Indices: 60486624--60486799 Score: 133
Period size: 27 Copynumber: 6.5 Consensus size: 27
60486614 ATTGAGCCCA
* *
60486624 CACACTCAGTGCTATATAATCAACTCG
1 CACACTTAGTGCTACATAATCAACTCG
* * * *
60486651 CACATTTAGTGCCACGTAATCAAATCG
1 CACACTTAGTGCTACATAATCAACTCG
* *
60486678 CACACTTAGTGCTACATAGTCAAACCCG
1 CACACTTAGTGCTACATAATC-AACTCG
** ** *
60486706 CACACTTAGTGCCGCATGGTCAATTCG
1 CACACTTAGTGCTACATAATCAACTCG
* **
60486733 CACACTTAGTGC-ATCATATTCATTTCG
1 CACACTTAGTGCTA-CATAATCAACTCG
* *
60486760 CACACTTAGTGCAACA-AAGT-AGAATCG
1 CACACTTAGTGCTACATAA-TCA-ACTCG
60486787 CACACTTAGTGCT
1 CACACTTAGTGCT
60486800 GTACAATTTA
Statistics
Matches: 119, Mismatches: 25, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 94 0.79
28 23 0.19
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
CACACTTAGTGCTACATAATCAACTCG
Found at i:60491692 original size:21 final size:23
Alignment explanation
Indices: 60491659--60491701 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
60491649 GATGAGTATG
*
60491659 TACATCCTTGATTATAG-AATTA
1 TACATCCTCGATTATAGTAATTA
*
60491681 TACA-CCTCGATTGTAGTAATT
1 TACATCCTCGATTATAGTAATT
60491702 GTGACCTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.40
Consensus pattern (23 bp):
TACATCCTCGATTATAGTAATTA
Found at i:60510329 original size:46 final size:46
Alignment explanation
Indices: 60510279--60510454 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
60510269 TGATTGAGCA
60510279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
60510325 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
60510370 CATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
60510418 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60510455 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 11, Indels: 20
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 60 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:60510435 original size:93 final size:93
Alignment explanation
Indices: 60510276--60510447 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
60510266 GGATGATTGA
*
60510276 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
60510341 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
60510369 GCATCCGAACTTGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
60510433 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
60510448 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60514327 original size:12 final size:13
Alignment explanation
Indices: 60514291--60514328 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
60514281 AAATATTTGA
60514291 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
60514304 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
60514318 CTTG-TCTTAAT
1 CTTGTTCTTAAT
60514329 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:60515339 original size:21 final size:21
Alignment explanation
Indices: 60515315--60515366 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
60515305 GGCCTGTAAT
*
60515315 ACGGGTGTGT-CCTATGATCAC
1 ACGGGTGTGTCCCT-TGACCAC
**
60515336 ACGGGCATGTCCCTTGACCAC
1 ACGGGTGTGTCCCTTGACCAC
*
60515357 ACGAGTGTGT
1 ACGGGTGTGT
60515367 GAACCCTACA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.19, C:0.27, G:0.29, T:0.25
Consensus pattern (21 bp):
ACGGGTGTGTCCCTTGACCAC
Found at i:60520880 original size:12 final size:12
Alignment explanation
Indices: 60520863--60520896 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
60520853 TAACCCGCCC
60520863 ATATTAATTTTT
1 ATATTAATTTTT
*
60520875 ATATTATTTTTT
1 ATATTAATTTTT
60520887 ATA-TAATTTT
1 ATATTAATTTT
60520897 AAAATATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:60520982 original size:30 final size:30
Alignment explanation
Indices: 60520946--60521008 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
60520936 ATTTGACAAG
60520946 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
60520976 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
60521006 CAA
1 CAA
60521009 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:60521736 original size:19 final size:19
Alignment explanation
Indices: 60521714--60521752 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60521704 CTTCTACATC
60521714 TATTCTTT-TTCTTGTTCTT
1 TATTCTTTCTTCTT-TTCTT
*
60521733 TATTTTTTCTTCTTTTCTT
1 TATTCTTTCTTCTTTTCTT
60521752 T
1 T
60521753 TTGTCTATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (19 bp):
TATTCTTTCTTCTTTTCTT
Found at i:60529726 original size:69 final size:68
Alignment explanation
Indices: 60529615--60529752 Score: 240
Period size: 69 Copynumber: 2.0 Consensus size: 68
60529605 GTTTCGTATA
* **
60529615 ATCTAAATTAGGCAATGAGATTGTATTCTGATGATCTTTTATTGAATATTTTGTTATATATATAG
1 ATCTAAATTAGGCAATGAGATTGCATTCCAATGATCTTTTATTGAATATTTTGTTATATATATAG
60529680 CTTG
66 -TTG
60529684 ATCTAAATTAGGCAATGAGATTGCATTCCAATGATCTTTTATTGAATATTTTGTTATATATATAG
1 ATCTAAATTAGGCAATGAGATTGCATTCCAATGATCTTTTATTGAATATTTTGTTATATATATAG
60529749 TTG
66 TTG
60529752 A
1 A
60529753 CATGAAAGTT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 4 0.06
69 62 0.94
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (68 bp):
ATCTAAATTAGGCAATGAGATTGCATTCCAATGATCTTTTATTGAATATTTTGTTATATATATAG
TTG
Found at i:60530062 original size:37 final size:37
Alignment explanation
Indices: 60530012--60530101 Score: 180
Period size: 37 Copynumber: 2.4 Consensus size: 37
60530002 TCACTATGTA
60530012 AGTGTGTAGGGATGGATGTGTACTTGATACCCTATAT
1 AGTGTGTAGGGATGGATGTGTACTTGATACCCTATAT
60530049 AGTGTGTAGGGATGGATGTGTACTTGATACCCTATAT
1 AGTGTGTAGGGATGGATGTGTACTTGATACCCTATAT
60530086 AGTGTGTAGGGATGGA
1 AGTGTGTAGGGATGGA
60530102 CGAAGATGGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.33
Consensus pattern (37 bp):
AGTGTGTAGGGATGGATGTGTACTTGATACCCTATAT
Found at i:60533687 original size:27 final size:27
Alignment explanation
Indices: 60533657--60533834 Score: 137
Period size: 27 Copynumber: 6.6 Consensus size: 27
60533647 ATATTGAGCC
* *
60533657 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
60533684 CGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
60533711 CGCACACTTAGTGCTACATAGTCAAACC
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
60533739 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
60533766 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
60533793 CGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTACATAA-TCA-ACT
60533820 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60533835 GTACAATTTA
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 96 0.79
28 23 0.19
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:60533769 original size:55 final size:54
Alignment explanation
Indices: 60533657--60533834 Score: 164
Period size: 54 Copynumber: 3.3 Consensus size: 54
60533647 ATATTGAGCC
* * * * *
60533657 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
* * ** *
60533711 CGCACACTTAGTGCTACATAGTCAAACCCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACCCGCACACTTAGTGCCACATAATCAAAT
* *** *
60533766 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACA-AAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACCCGCACACTTAGTGCCACATAA-TCA-AAT
60533820 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
60533835 GTACAATTTA
Statistics
Matches: 100, Mismatches: 19, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
53 1 0.01
54 55 0.55
55 44 0.44
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACCCGCACACTTAGTGCCACATAATCAAAT
Found at i:60561001 original size:36 final size:36
Alignment explanation
Indices: 60560947--60561021 Score: 132
Period size: 36 Copynumber: 2.1 Consensus size: 36
60560937 GGGTGTCGTC
*
60560947 TTTATCAATTTCTATTCTTCAAGTCTTTTTCCAAAT
1 TTTATCAATTGCTATTCTTCAAGTCTTTTTCCAAAT
*
60560983 TTTATCAATTGCTTTTCTTCAAGTCTTTTTCCAAAT
1 TTTATCAATTGCTATTCTTCAAGTCTTTTTCCAAAT
60561019 TTT
1 TTT
60561022 CTCTTTGCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.23, C:0.19, G:0.04, T:0.55
Consensus pattern (36 bp):
TTTATCAATTGCTATTCTTCAAGTCTTTTTCCAAAT
Found at i:60563784 original size:49 final size:49
Alignment explanation
Indices: 60563667--60563843 Score: 239
Period size: 49 Copynumber: 3.6 Consensus size: 49
60563657 AATTGTGATG
* * **
60563667 ACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCA-AATGGTTAGGTC
1 ACGTGTGTAGTACTAAGTACAGGCTACTACGTGTA-CAGGATAATT-GGTC
60563717 ACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACAGGATAATTGGTC
1 ACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACAGGATAATTGGTC
* *
60563766 ACGTGTGTAGTATTAAGTACAGGCTACTACGTGTACCGGATAATTGGTC
1 ACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACAGGATAATTGGTC
* * * *
60563815 GCATGTGTAGTACTATGTGCAGGCTACTA
1 ACGTGTGTAGTACTAAGTACAGGCTACTA
60563844 TGCGTACCAG
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
49 77 0.67
50 38 0.33
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (49 bp):
ACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACAGGATAATTGGTC
Found at i:60563851 original size:49 final size:49
Alignment explanation
Indices: 60563612--60563856 Score: 233
Period size: 49 Copynumber: 4.9 Consensus size: 49
60563602 TCTATTGTGA
* * * * ** * *
60563612 GGTCGCATGTGCAGTACTAAGTGCATGCTACTATGCATACCCGAAAATT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * **
60563661 GTGAT-GACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 G-G-TCG-CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
60563712 AGGTCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTA-CAGGATAATT
1 -GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA-GATAATT
* * * *
60563762 GGTCACGTGTGTAGTATTAAGTACAGGCTACTACGTGTACCGGATAATT
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * *
60563811 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
60563857 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
49 86 0.53
50 41 0.25
51 34 0.21
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
GGTCGCGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:60567961 original size:17 final size:17
Alignment explanation
Indices: 60567939--60568002 Score: 74
Period size: 17 Copynumber: 3.7 Consensus size: 17
60567929 TTTTGATTTA
* *
60567939 TTTATTCTTATTCTCAT
1 TTTATTTTTATTTTCAT
*
60567956 TTTATTTTTATTTTTAT
1 TTTATTTTTATTTTCAT
60567973 TTTGATTTTTATTTTCAT
1 TTT-ATTTTTATTTTCAT
* *
60567991 TTAAATTTTATT
1 TTTATTTTTATT
60568003 ATTTTATTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
17 25 0.62
18 15 0.38
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.72
Consensus pattern (17 bp):
TTTATTTTTATTTTCAT
Found at i:60567972 original size:12 final size:12
Alignment explanation
Indices: 60567946--60567992 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
60567936 TTATTTATTC
*
60567946 TTATTCTCA-TT
1 TTATTTTCATTT
*
60567957 TTATTTTTATTT
1 TTATTTTCATTT
*
60567969 TTATTTTGATTT
1 TTATTTTCATTT
60567981 TTATTTTCATTT
1 TTATTTTCATTT
60567993 AAATTTTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
11 7 0.23
12 24 0.77
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.74
Consensus pattern (12 bp):
TTATTTTCATTT
Found at i:60567974 original size:6 final size:6
Alignment explanation
Indices: 60567955--60567992 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
60567945 CTTATTCTCA
* *
60567955 TTTTAT TTTTAT TTTTAT TTTGAT TTTTAT TTTCAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
60567993 AAATTTTATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:60567991 original size:35 final size:37
Alignment explanation
Indices: 60567946--60568014 Score: 97
Period size: 35 Copynumber: 1.9 Consensus size: 37
60567936 TTATTTATTC
* *
60567946 TTATTCTCATTTTATTTTTA-T-TTTTATTTTGATTT
1 TTATTCTCATTTAAATTTTATTATTTTATTTTGATTT
*
60567981 TTATTTTCATTTAAATTTTATTATTTTATTTTGA
1 TTATTCTCATTTAAATTTTATTATTTTATTTTGA
60568015 AAGACATATC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 17 0.59
36 1 0.03
37 11 0.38
ACGTcount: A:0.22, C:0.04, G:0.03, T:0.71
Consensus pattern (37 bp):
TTATTCTCATTTAAATTTTATTATTTTATTTTGATTT
Found at i:60583285 original size:22 final size:23
Alignment explanation
Indices: 60583260--60583302 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
60583250 TATCCCCACA
*
60583260 TGGAGTGTAG-GGCTGGACGGAG
1 TGGAGTGTAGAGGATGGACGGAG
60583282 TGGAGTGTAGAGGATGGACGG
1 TGGAGTGTAGAGGATGGACGG
60583303 GCAGGACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.21, C:0.07, G:0.53, T:0.19
Consensus pattern (23 bp):
TGGAGTGTAGAGGATGGACGGAG
Found at i:60588702 original size:15 final size:15
Alignment explanation
Indices: 60588670--60588708 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
60588660 TCCCTTTTCC
*
60588670 TTCTTTCTTTTTCTTA
1 TTCTTTC-TTTCCTTA
60588686 TTCTTTCTTTCCTTA
1 TTCTTTCTTTCCTTA
*
60588701 TTATTTCT
1 TTCTTTCT
60588709 CTTTCTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.72
Consensus pattern (15 bp):
TTCTTTCTTTCCTTA
Found at i:60591874 original size:47 final size:47
Alignment explanation
Indices: 60591823--60591974 Score: 268
Period size: 47 Copynumber: 3.2 Consensus size: 47
60591813 TAGCATTAAT
*
60591823 TATGTGATAAGGCCGAATAGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
60591870 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGCAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
60591917 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
60591964 AATGTGATAAG
1 TATGTGATAAG
60591975 TCCCGAAGGG
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 100 1.00
ACGTcount: A:0.34, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
Found at i:60594067 original size:40 final size:40
Alignment explanation
Indices: 60594008--60594203 Score: 311
Period size: 40 Copynumber: 4.9 Consensus size: 40
60593998 CTCGACGATG
60594008 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
60594048 ATCTGGGCAAAATCCCGAAGGGCATTCGTGTCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
*
60594088 ATCCGGGCAAAATTCCGAAGGGCATTCGTGCCGGTGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* * * *
60594128 ATCCAGGCTAAATCCCGAAGGGTATTCGTGCCGATGTTAT
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
* *
60594168 ATCCGGGCTAAGTCCCGAAGGGCATTCGTGCCGGTG
1 ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTG
60594204 ATGTGTATTC
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
ATCCGGGCAAAATCCCGAAGGGCATTCGTGCCGGTGTTAT
Found at i:60598393 original size:47 final size:47
Alignment explanation
Indices: 60598338--60598536 Score: 371
Period size: 47 Copynumber: 4.2 Consensus size: 47
60598328 TAGTATTAAT
60598338 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
60598385 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGCAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
60598432 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
60598479 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
*
60598526 AATGTGATAAG
1 TATGTGATAAG
60598537 TCCGGAAGGG
Statistics
Matches: 148, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 148 1.00
ACGTcount: A:0.33, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
Found at i:60602462 original size:16 final size:16
Alignment explanation
Indices: 60602437--60602472 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
60602427 TTCAATTGAT
60602437 GTTAGTAATTT-TCTA
1 GTTAGTAATTTATCTA
60602452 GTTAGGTAATTTATCTA
1 GTTA-GTAATTTATCTA
60602469 GTTA
1 GTTA
60602473 ATCTCGATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 8 0.42
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.50
Consensus pattern (16 bp):
GTTAGTAATTTATCTA
Found at i:60616394 original size:47 final size:47
Alignment explanation
Indices: 60616337--60616640 Score: 412
Period size: 47 Copynumber: 6.4 Consensus size: 47
60616327 ATTGATGTAC
* * *
60616337 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * *
60616384 AAGTTTATATATATGTGATAGGGCCGAGTGGCCAACGTGATGAATGTGA
1 AAG--TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * * ** *
60616433 AAGTGTATATATGTGATAGGGTCGAGTGATCAACGTGATGAATGT-A
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
60616479 GAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
1 -AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
* * *
60616527 AAGTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
60616574 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGA
1 AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
*
60616621 AAGTGTATAAATGTGATAAG
1 AAGTGTATATATGTGATAAG
60616641 TCCCGAAGGG
Statistics
Matches: 234, Mismatches: 19, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
46 1 0.00
47 186 0.79
48 1 0.00
49 46 0.20
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
AAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA
Found at i:60619756 original size:94 final size:93
Alignment explanation
Indices: 60619591--60619846 Score: 288
Period size: 94 Copynumber: 2.7 Consensus size: 93
60619581 TTTGTGCGCC
* * * * * *
60619591 AGTGTAAGACGTGTCTGGGACATGC-TTCGGCCACATTATGAGAGGCAGTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTAGGACATGCATT-GGCCATACTATGATAGCCAGTGTAAGACCATGTCTG
* *
60619655 GGGCATGGCATCGACATC-CAGACAAGGGCT
65 GGACATGGCA-CGACA-CAAAGACAAGGGCT
*
60619685 AGTGTAAGACATGTCTAGGACATGCATTAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTAGGACATGCATTGGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
** *
60619750 GACATGGCACGACACAAAGATGAGTGCT
66 GACATGGCACGACACAAAGACAAGGGCT
* * *
60619778 AGTATAAGACATGTCTAGGACATGCATTGGCC-T-CGATAGAGATAGCCAGTGTAAGA-CGTGTC
1 AGTGTAAGACATGTCTAGGACATGCATTGGCCATAC--TA-TGATAGCCAGTGTAAGACCATGTC
60619840 TGGGACA
63 TGGGACA
60619847 CGCATCGGCT
Statistics
Matches: 141, Mismatches: 16, Indels: 11
0.84 0.10 0.07
Matches are distributed among these distances:
91 1 0.01
92 2 0.01
93 57 0.40
94 79 0.56
95 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTAGGACATGCATTGGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCACGACACAAAGACAAGGGCT
Found at i:60622765 original size:79 final size:80
Alignment explanation
Indices: 60622602--60622826 Score: 246
Period size: 79 Copynumber: 2.8 Consensus size: 80
60622592 TTGAATGATG
* * * * * * *
60622602 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGACTAAGTCCAGAAGGCATTTGTGCGAACT-ACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
60622665 TTGTGCTAGATACTAAA
64 TTGTGCGAGATACTAAA
*
60622682 TCCGGACTAAGATCC-GAAGGCATTTGTGCGAGA-TACTA-ATTCCGGGCTAAG-CCCGAAGGCA
1 TCCGGACTAAG-TCCAGAAGGCATTTGTGCGA-ACTACTATA-ACCGGGCTAAGTCCCGAAGGCA
*
60622743 TTTGTGCGAGTTACTAAA
63 TTTGTGCGAGATACTAAA
** *
60622761 TCCGGGTTAAGTCCAGAAGGCATTTGTGCGAACTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGACTAAGTCCAGAAGGCATTTGTGCGAACTACTATAACCGGGCTAAGTCCCGAAGGCATTT
60622826 G
66 G
60622827 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 10, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
78 4 0.03
79 65 0.52
80 44 0.35
81 12 0.10
82 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCAGAAGGCATTTGTGCGAACTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:60622791 original size:40 final size:40
Alignment explanation
Indices: 60622602--60622826 Score: 248
Period size: 40 Copynumber: 5.7 Consensus size: 40
60622592 TTGAATGATG
* * *
60622602 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAA
* *
60622642 TCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
* *
60622682 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAA
*
60622722 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
60622761 TCCGGGTTAAGTCCAGAAGGCATTTGTGCGA-ACTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTA-AA
*
60622802 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60622827 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 14, Indels: 14
0.85 0.07 0.07
Matches are distributed among these distances:
39 35 0.21
40 115 0.70
41 13 0.08
42 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:60622818 original size:119 final size:120
Alignment explanation
Indices: 60622602--60622826 Score: 282
Period size: 119 Copynumber: 1.9 Consensus size: 120
60622592 TTGAATGATG
*
60622602 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
60622667 GTGCTAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
60622722 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCAGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGATCC-GAAGGCAT
* *
60622784 TTGTGCGA-ACTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
60622827 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 11
0.82 0.08 0.10
Matches are distributed among these distances:
118 5 0.05
119 66 0.73
120 20 0.22
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:60622848 original size:79 final size:79
Alignment explanation
Indices: 60622676--60622859 Score: 200
Period size: 79 Copynumber: 2.3 Consensus size: 79
60622666 TGTGCTAGAT
** *
60622676 ACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGG
1 ACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGG
** *
60622741 CATTTGTGCGAGTT
66 CATTTGAACGAGTG
*
60622755 ACTAAATCCGGGTTAAG-TCCAGAAGGCATTTGTGCGA-ACTACT-ATAACCGGGCTATGTCCCG
1 ACTAAATCCGGGTTAAGATCC-GAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCG
60622817 AAGGCATTTGAACGAG-G
62 AAGGCATTTGAACGAGTG
*
60622834 AGCTATATCC-GGTTAA-ATTCCGAAGG
1 A-CTAAATCCGGGTTAAGA-TCCGAAGG
60622860 TACGTGATTT
Statistics
Matches: 90, Mismatches: 8, Indels: 14
0.80 0.07 0.12
Matches are distributed among these distances:
78 6 0.07
79 56 0.62
80 28 0.31
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGATCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGG
CATTTGAACGAGTG
Found at i:60630323 original size:47 final size:46
Alignment explanation
Indices: 60630263--60630529 Score: 208
Period size: 47 Copynumber: 5.7 Consensus size: 46
60630253 GACAAGGGCT
*
60630263 AGTGTAAGACATGTCTGGGACATGCATTAGC-CATACTATGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACATA-TATGATAGCC
* * * *
60630309 AGTGTAAGACCATGTCTGGGACATGGCACCGGCACAGAGATGAGT-GCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCACATATATGA-TAGCC
* * * *
60630357 AGTATAAGACATGTCTGGGACATGCATCGGC-C-TGAACAGAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCACAT--ATA-TGATAGCC
* ** * *
60630404 AGTGTAAGACGTGTCTGGGACACACATCAGCTA-AGAGT-TG-TA-CT
1 AGTGTAAGACATGTCTGGGACATGCATCAGC-ACATA-TATGATAGCC
* *
60630448 AGTGTAAGACATGTCTGGGACATGCATCAACACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCA--CATATATGATAGCC
*
60630496 AGTGTAAGACCATGTTTGGGACATGGCATCAGCA
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCA
60630530 GTGTATCCCA
Statistics
Matches: 173, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
43 1 0.01
44 28 0.16
45 4 0.02
46 24 0.14
47 61 0.35
48 30 0.17
49 17 0.10
50 8 0.05
ACGTcount: A:0.30, C:0.20, G:0.28, T:0.22
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCACATATATGATAGCC
Found at i:60630334 original size:94 final size:93
Alignment explanation
Indices: 60630169--60630525 Score: 293
Period size: 94 Copynumber: 3.8 Consensus size: 93
60630159 TTTGCGCGCC
** * * * * *
60630169 AGTGTAAGATGTGTCT-GGAGCATGCTTTGGCCACATTATGAGAGCCACTGTAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGA-CATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTG
* * *
60630233 GGGCATGGCATCGACATCCAGACAAGGGCT
65 GGACATGGCATCGACAT-CAGAGAAGTGCT
*
60630263 AGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
60630328 GACATGGCACCGGCA-CAGAGATGAGTGCC
66 GACATGGCATCGACATCAGAGA--AGTGCT
* ** *
60630357 AGTATAAGACATGTCTGGGACATGCATCGGCC-TGAAC-A-GAGATAGCCAGTGTAAGA-CGTGT
1 AGTGTAAGACATGTCTGGGACATGCATTAGCCAT--ACTATGAG--AGCCAGTGTAAGACCATGT
** * ** *
60630418 CTGGGACA-CACATC-AGC-TAAGAGTTGTACT
62 CTGGGACATGGCATCGA-CATCAGAGAAGTGCT
* * *
60630448 AGTGTAAGACATGTCTGGGACATGCATCAACACGCATA-TATGAGAGCCAGTGTAAGACCATGTT
1 AGTGTAAGACATGTCTGGGACATGCAT-TA-GC-CATACTATGAGAGCCAGTGTAAGACCATGTC
60630512 TGGGACATGGCATC
63 TGGGACATGGCATC
60630526 AGCAGTGTAT
Statistics
Matches: 210, Mismatches: 36, Indels: 34
0.75 0.13 0.12
Matches are distributed among these distances:
91 29 0.14
92 18 0.09
93 25 0.12
94 119 0.57
95 19 0.09
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.22
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGCCATACTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACATCAGAGAAGTGCT
Found at i:60644847 original size:46 final size:46
Alignment explanation
Indices: 60644794--60644922 Score: 204
Period size: 46 Copynumber: 2.8 Consensus size: 46
60644784 TGGTTAAGCA
60644794 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAATG
*
60644840 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAATG
* * * * *
60644886 CCCGAGCTCATTGAGTTGAGTCCAAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60644923 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAAGCGAATG
Found at i:60652338 original size:46 final size:46
Alignment explanation
Indices: 60652285--60652457 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
60652275 TTAAGCATCT
60652285 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* * *
60652331 GAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGCATCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G--TCC
* *
60652378 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
* *
60652424 GAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
60652458 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 60 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCC
Found at i:60652438 original size:93 final size:93
Alignment explanation
Indices: 60652279--60652450 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
60652269 GGATGGTTAA
* * *
60652279 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
60652344 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
60652372 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
60652437 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
60652451 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60654028 original size:133 final size:134
Alignment explanation
Indices: 60653875--60654148 Score: 435
Period size: 133 Copynumber: 2.1 Consensus size: 134
60653865 GAGGAACAAC
*
60653875 AGAAAGAATCGGTTCCTAGAAGCTCAATGCAGGAGCACAATTCAACCAACAAGGATTAGATTGCA
1 AGAAAGAATCAGTTCCTAGAAGCTCAATGCAGGAGCACAATTCAACCAACAAGGATTAGATTGCA
*
60653940 CTGAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAAT-GAATGAGATAGA
66 CTAAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAATCGAATGAGATAGA
60654004 GAGG
131 GAGG
* * * *
60654008 AGAAAGAATCAGTTCCTAGAAGGTTAATGCAGGAGCACTATTCGACCAACAAGGATTAGATTGCA
1 AGAAAGAATCAGTTCCTAGAAGCTCAATGCAGGAGCACAATTCAACCAACAAGGATTAGATTGCA
* * * * *
60654073 CTAAAGAGAGGGGAGAAAGAAAAAGAATGACTCGGTCACCATAATCCAAAATCGAATGAGATGGA
66 CTAAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAATCGAATGAGATAGA
60654138 GAGG
131 GAGG
60654142 A-AAAGAA
1 AGAAAGAA
60654149 GATACAATCG
Statistics
Matches: 129, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
133 113 0.88
134 16 0.12
ACGTcount: A:0.44, C:0.15, G:0.25, T:0.15
Consensus pattern (134 bp):
AGAAAGAATCAGTTCCTAGAAGCTCAATGCAGGAGCACAATTCAACCAACAAGGATTAGATTGCA
CTAAAGAGAAGGGAGAAAGAAAAAGAATGACTCAGTCACCACAAGCCAAAATCGAATGAGATAGA
GAGG
Found at i:60656122 original size:15 final size:15
Alignment explanation
Indices: 60656093--60656133 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
60656083 AAGGGATACA
60656093 AAATAGAAA-AATAAC
1 AAATA-AAATAATAAC
60656108 AGAA-AAAATAATAAC
1 A-AATAAAATAATAAC
60656123 AAATAAAATAA
1 AAATAAAATAA
60656134 AATAAAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
14 5 0.22
15 16 0.70
16 2 0.09
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.15
Consensus pattern (15 bp):
AAATAAAATAATAAC
Found at i:60659681 original size:193 final size:193
Alignment explanation
Indices: 60659348--60659733 Score: 657
Period size: 193 Copynumber: 2.0 Consensus size: 193
60659338 TGTCTAATTT
* *
60659348 GATAAAAGGACTTAATCGTGAAAATTGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGTT
1 GATAAAAGGACTTAATCGTGAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGCT
* * **
60659413 ATGGTTTCTTAATTTTAAAGTCCTTAAAATGGAATTTGGCCATTGAAAAACGAGATTGATGGTTA
66 ATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAACGAGATGGACAGTTA
* *
60659478 TGGGTTTAAAATGAATGATTTTATTTTGTATAAAGGATGGATAAAATTGTAAATTGTATATTA
131 TGGATTTAAAATGAATGATTTTATTTTGTATAAAAGATGGATAAAATTGTAAATTGTATATTA
60659541 GATAAAAGGACTTAATCAG-GAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGC
1 GATAAAAGGACTTAATC-GTGAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGC
* *
60659605 TATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAATGGGATGGACAGTT
65 TATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAACGAGATGGACAGTT
*
60659670 ATGGATTTAAAATGAATGATTTTATTTTGTATAAAAGATGGGTAAAATTGTAAATTGTATATTA
130 ATGGATTTAAAATGAATGATTTTATTTTGTATAAAAGATGGATAAAATTGTAAATTGTATATTA
60659734 ATAGGTAATA
Statistics
Matches: 181, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
193 180 0.99
194 1 0.01
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (193 bp):
GATAAAAGGACTTAATCGTGAAAAATGTAAAAGAGGCTTTCTATTTGTTAAAGTACTTATTTGCT
ATGGTTTCTTAATTTTAAAGTCCTTAAAATGAAATTTGGCCATTGAAAAACGAGATGGACAGTTA
TGGATTTAAAATGAATGATTTTATTTTGTATAAAAGATGGATAAAATTGTAAATTGTATATTA
Found at i:60662567 original size:50 final size:53
Alignment explanation
Indices: 60662510--60662620 Score: 183
Period size: 50 Copynumber: 2.2 Consensus size: 53
60662500 ATGTCATTTT
*
60662510 CATTTTCATTTTGGAGAAAA-CACA-TTCATTTCCAAATGTTTCC-ATTTCTC
1 CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
*
60662560 CATTTTCATTTTGGAGAAAACCACATTTCATTTTCAAATGTTTCCTATTTATC
1 CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
60662613 CATTTTCA
1 CATTTTCA
60662621 CCATTTCAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
50 20 0.36
51 4 0.07
52 18 0.32
53 14 0.25
ACGTcount: A:0.28, C:0.21, G:0.07, T:0.44
Consensus pattern (53 bp):
CATTTTCATTTTGGAGAAAACCACATTTCATTTCCAAATGTTTCCTATTTATC
Found at i:60666099 original size:40 final size:40
Alignment explanation
Indices: 60666015--60666239 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
60666005 TTGAATGATG
* * * *
60666015 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
60666055 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
60666095 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
60666134 TCCGGGTTAAGTCCCGAAGGCATTTGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
60666174 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
60666215 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
60666240 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 35 0.21
40 120 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:60666261 original size:119 final size:119
Alignment explanation
Indices: 60666015--60666272 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
60666005 TTGAATGATG
* *
60666015 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
60666080 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
60666134 TCCGGGTTAAGTCCCGAAGGCATTTGTG-TGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
60666197 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
60666254 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
60666273 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:60668497 original size:39 final size:39
Alignment explanation
Indices: 60668443--60668519 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
60668433 ACCATAAAGA
60668443 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATAG
1 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATAG
60668482 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATA
1 TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATA
60668520 TACACATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.06, T:0.44
Consensus pattern (39 bp):
TTATTCATCATTCAAACCCTTTTGGCTTACTTATCATAG
Found at i:60674649 original size:16 final size:16
Alignment explanation
Indices: 60674608--60674659 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
60674598 GTAATAGACT
* *
60674608 AGCTTGTAAACTAAGG
1 AGCTTGTAAACTGACG
* *
60674624 AGCACT-TAAACTGATG
1 AGC-TTGTAAACTGACG
60674640 AGCTTGTAAACTGACG
1 AGCTTGTAAACTGACG
60674656 AGCT
1 AGCT
60674660 CACACGACAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
15 1 0.03
16 27 0.93
17 1 0.03
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (16 bp):
AGCTTGTAAACTGACG
Found at i:60676034 original size:28 final size:28
Alignment explanation
Indices: 60675991--60676095 Score: 156
Period size: 28 Copynumber: 3.8 Consensus size: 28
60675981 ATTACCATAA
* *
60675991 ATGTGGAAGTTTGTCAAGACTATCTTAT
1 ATGTGGAAGTCTGTCAGGACTATCTTAT
*
60676019 ATGTGGAAGTCCGTCAGGACTATCTTAT
1 ATGTGGAAGTCTGTCAGGACTATCTTAT
*
60676047 ATGTTGAAGTCTGTCAGGACTATCTTAT
1 ATGTGGAAGTCTGTCAGGACTATCTTAT
* *
60676075 ATATGGAAGTTTGTCAGGACT
1 ATGTGGAAGTCTGTCAGGACT
60676096 GTGACAGCCC
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 69 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (28 bp):
ATGTGGAAGTCTGTCAGGACTATCTTAT
Found at i:60677500 original size:18 final size:18
Alignment explanation
Indices: 60677458--60677500 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
60677448 GCCCATTCCG
*
60677458 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
60677476 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
60677494 AAGTATG
1 AAGTATG
60677501 CCCATTCGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:60678051 original size:27 final size:28
Alignment explanation
Indices: 60677939--60678064 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
60677929 CATGAGATTG
* * * *
60677939 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60677968 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60677996 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60678024 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60678051 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60678065 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60678061 original size:55 final size:57
Alignment explanation
Indices: 60677939--60678064 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
60677929 CATGAGATTG
* *
60677939 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
60677996 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
60678051 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60678065 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60678075 original size:27 final size:27
Alignment explanation
Indices: 60677967--60678078 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 27
60677957 TAAATTGTAC
*
60677967 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
60677995 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGATTATAT
*
60678023 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGATTATAT
* *
60678050 AGCACTGAGTGTGCGGACTTAATATATAT
1 AGCACTAAGTGTGC-GACTTGAT-TATAT
60678079 TTTTTGGATC
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
27 23 0.29
28 50 0.64
29 5 0.06
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGATTATAT
Found at i:60685817 original size:18 final size:18
Alignment explanation
Indices: 60685775--60685817 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
60685765 GCCCATTCCG
*
60685775 AAGTATATATATATACAT
1 AAGTATGTATATATACAT
60685793 ATA-TATGTATATATACAT
1 A-AGTATGTATATATACAT
60685811 AAGTATG
1 AAGTATG
60685818 CCCATTCGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 1 0.05
18 20 0.91
19 1 0.05
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (18 bp):
AAGTATGTATATATACAT
Found at i:60686366 original size:27 final size:28
Alignment explanation
Indices: 60686254--60686379 Score: 191
Period size: 28 Copynumber: 4.5 Consensus size: 28
60686244 CATGAGATTG
* * * *
60686254 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
60686283 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60686311 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
60686339 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
60686366 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60686380 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 24 0.26
28 50 0.54
29 18 0.20
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:60686376 original size:55 final size:57
Alignment explanation
Indices: 60686254--60686379 Score: 193
Period size: 55 Copynumber: 2.2 Consensus size: 57
60686244 CATGAGATTG
* *
60686254 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
* *
60686311 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
*
60686366 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60686380 GACTTAATAT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
55 24 0.38
56 22 0.34
57 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATA
Done.