Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold44
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: 3265628
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.28
Warning! 491382 characters in sequence are not A, C, G, or T
File 6 of 17
Found at i:840348 original size:11 final size:10
Alignment explanation
Indices: 840260--840332 Score: 66
Period size: 11 Copynumber: 7.6 Consensus size: 10
840250 AAAAGTGATG
840260 AAAAAAA-AC
1 AAAAAAACAC
840269 -AAAAAACAC
1 AAAAAAACAC
840278 AAAAAAAACAC
1 -AAAAAAACAC
840289 AAAAAAA-A-
1 AAAAAAACAC
*
840297 ACAAAAA-AC
1 AAAAAAACAC
*
840306 AAAAAAACAA
1 AAAAAAACAC
*
840316 AAAAACAAAAC
1 AAAAA-AACAC
840327 AAAAAA
1 AAAAAA
840333 GAAAACACAG
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
8 13 0.25
9 9 0.17
10 14 0.26
11 17 0.32
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAC
Found at i:840349 original size:1 final size:1
Alignment explanation
Indices: 840260--840337 Score: 57
Period size: 1 Copynumber: 78.0 Consensus size: 1
840250 AAAAGTGATG
* * * * * * * * *
840260 AAAAAAAACAAAAAACACAAAAAAAACACAAAAAAAAACAAAAAACAAAAAAACAAAAAAACAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
840325 ACAAAAAAGAAAA
1 AAAAAAAAAAAAA
840338 CACAGAAAAA
Statistics
Matches: 55, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Found at i:840594 original size:1 final size:1
Alignment explanation
Indices: 840588--840639 Score: 50
Period size: 1 Copynumber: 52.0 Consensus size: 1
840578 GTTCTTTTCC
* * * * * *
840588 AAAAAAAGAAACAAAACAAAAAAGAAAAAAAAAACAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
840640 GAAGAAGAAG
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 39 1.00
ACGTcount: A:0.88, C:0.08, G:0.04, T:0.00
Consensus pattern (1 bp):
A
Found at i:840609 original size:17 final size:17
Alignment explanation
Indices: 840587--840645 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
840577 TGTTCTTTTC
840587 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAACAAAA
840604 C-AAAAAAGAAA-AAAA
1 CAAAAAAAGAAACAAAA
*
840619 -AAACAAA-AAACAAAA
1 CAAAAAAAGAAACAAAA
*
840634 AAAAAAGAAGAA
1 CAAAAA-AAGAA
840646 GAAGAAGGGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.37
16 14 0.40
17 3 0.09
18 2 0.06
ACGTcount: A:0.85, C:0.08, G:0.07, T:0.00
Consensus pattern (17 bp):
CAAAAAAAGAAACAAAA
Found at i:840621 original size:18 final size:17
Alignment explanation
Indices: 840587--840639 Score: 70
Period size: 18 Copynumber: 3.0 Consensus size: 17
840577 TGTTCTTTTC
* *
840587 CAAAAAAAGAAACAAAA
1 CAAAAAAAAAAAAAAAA
840604 CAAAAAAGAAAAAAAAAA
1 CAAAAAA-AAAAAAAAAA
840622 CAAAAAACAAAAAAAAAA
1 CAAAAAA-AAAAAAAAAA
840640 GAAGAAGAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
17 7 0.22
18 25 0.78
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:840628 original size:25 final size:23
Alignment explanation
Indices: 840588--840642 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
840578 GTTCTTTTCC
840588 AAAAAAAGAAACAAAACAAAAAA
1 AAAAAAAGAAACAAAACAAAAAA
*
840611 GAAAAAAA-AAACAAAA-AACAAA
1 -AAAAAAAGAAACAAAACAAAAAA
840633 AAAAAAAGAA
1 AAAAAAAGAA
840643 GAAGAAGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 7 0.24
22 7 0.24
23 8 0.28
24 7 0.24
ACGTcount: A:0.87, C:0.07, G:0.05, T:0.00
Consensus pattern (23 bp):
AAAAAAAGAAACAAAACAAAAAA
Found at i:841725 original size:23 final size:23
Alignment explanation
Indices: 841695--841740 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
841685 GCATCTTGTC
841695 TCAAAGTCCACGACTCAGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
*
841718 TCAAAGTCCACGACTCCGTGGCA
1 TCAAAGTCCACGACTCAGTGGCA
841741 ACCCTCTCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (23 bp):
TCAAAGTCCACGACTCAGTGGCA
Found at i:841784 original size:33 final size:33
Alignment explanation
Indices: 841735--842143 Score: 657
Period size: 33 Copynumber: 12.4 Consensus size: 33
841725 CCACGACTCC
*
841735 GTGGC-AACCCTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
841767 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
841800 GTGGC-AACCTTCTTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTC-TCTAAAGCCCACACAAGTCG
*
841833 GTGGCAAACCTTCTCTAAAGCCCACACAAGTTG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
841866 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
841899 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
* *
841932 GTGGC-AGCCTTTTTCTAAAGCCCACACAAGTCG
1 GTGGCAAACC-TTCTCTAAAGCCCACACAAGTCG
*
841965 GTGGCAACCCTTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
841998 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
842031 GTGGC-AACCTTCTTCTAAAGCCCACACAAGTCG
1 GTGGCAAACCTTC-TCTAAAGCCCACACAAGTCG
* * * *
842064 GTAGCAACCCTTCTTTAAAGCCCACACAAGTTG
1 GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
842097 GTGGC-AACCATTCTCTAAAGCCCACACAAGTCG
1 GTGGCAAACC-TTCTCTAAAGCCCACACAAGTCG
*
842130 GTGGCAACCCTTCT
1 GTGGCAAACCTTCT
842144 AAGCCCAATA
Statistics
Matches: 351, Mismatches: 17, Indels: 17
0.91 0.04 0.04
Matches are distributed among these distances:
32 25 0.07
33 307 0.87
34 19 0.05
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.20
Consensus pattern (33 bp):
GTGGCAAACCTTCTCTAAAGCCCACACAAGTCG
Found at i:842201 original size:49 final size:49
Alignment explanation
Indices: 842143--842573 Score: 468
Period size: 49 Copynumber: 9.1 Consensus size: 49
842133 GCAACCCTTC
* *
842143 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
842192 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
842235 T-AGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
842283 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
842326 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * *
842375 TAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCACC-TC--C--
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
** * *
842419 -AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCCT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTT
* * *
842470 TAAGTCCTATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC-AC-CT-TCATCTT
* *
842522 TAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
842571 TAA
1 TAA
842574 CATTCCTAAG
Statistics
Matches: 321, Mismatches: 37, Indels: 48
0.79 0.09 0.12
Matches are distributed among these distances:
42 33 0.10
43 77 0.24
45 2 0.01
46 1 0.00
47 3 0.01
48 6 0.02
49 119 0.37
50 1 0.00
51 1 0.00
52 77 0.24
53 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:842343 original size:43 final size:43
Alignment explanation
Indices: 842280--842564 Score: 228
Period size: 52 Copynumber: 6.1 Consensus size: 43
842270 GCACCTTCAT
* *
842280 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
*
842323 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* * *
842367 TTCATTTTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGGCAC
1 --C---TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
** *
842415 CTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACA-T--TG-----G-CAC
* * * *
842467 CCTTAAGTCCTATATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATT---G-----G-CAC
*
842519 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
842562 CTT
1 CTT
842565 CATCTTTAAC
Statistics
Matches: 200, Mismatches: 24, Indels: 36
0.77 0.09 0.14
Matches are distributed among these distances:
43 73 0.37
44 3 0.01
46 4 0.02
48 1 0.00
49 39 0.19
51 2 0.01
52 78 0.39
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:842396 original size:92 final size:92
Alignment explanation
Indices: 842138--842573 Score: 586
Period size: 92 Copynumber: 4.6 Consensus size: 92
842128 CGGTGGCAAC
* *
842138 CCTTCTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATG
842203 TAGCTGGCCTTGAATCAGCACATTGGCA
65 TAGCTGGCCTTGAATCAGCACATTGGCA
*
842231 CCTTT-AGTCCAATATCGTTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
842295 AGCTGGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
*
842322 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATTTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
*
842387 AGCTAGCCTTGAATCAGCACATTGGCA
66 AGCTGGCCTTGAATCAGCACATTGGCA
** ** * * *
842414 CCTCCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTGCCTTTGTCACCCTTAAGTCCTA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTTAAGTCCAA
* * *
842479 TATCGCTGGCCTTGAATCAGCATATTGGCGTCTTTGTCA
63 TGTAGCTGGCCTTGAATCAGCACATT---G-----G-CA
* * *
842518 TCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAA
842574 CATTCCTAAG
Statistics
Matches: 303, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
91 88 0.29
92 125 0.41
93 4 0.01
94 1 0.00
95 34 0.11
98 1 0.00
101 8 0.03
102 1 0.00
103 1 0.00
104 40 0.13
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (92 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGGCA
Found at i:843449 original size:13 final size:13
Alignment explanation
Indices: 843431--843455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
843421 CATAAAGTGT
843431 TGTATCGATACAA
1 TGTATCGATACAA
843444 TGTATCGATACA
1 TGTATCGATACA
843456 TATTTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:843471 original size:32 final size:33
Alignment explanation
Indices: 843411--843476 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
843401 TTCAACGATT
843411 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
** *
843444 TGTATCGATACAT-ATTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
843476 T
1 T
843477 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:843581 original size:52 final size:50
Alignment explanation
Indices: 843518--843663 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 50
843508 CATTACTCAA
*
843518 ATGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-AT-TATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
843570 ATGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAG
1 ATGTATCGATACACTAT--TATGTATCGATACATGCAGGCAAATTTGCCCAG
843622 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
1 ATGTATCGATACACTATT--ATGTATCGATACATGCAGGCAA
843664 CTTTTCAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 6
0.88 0.06 0.06
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (50 bp):
ATGTATCGATACACTATTATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:847562 original size:15 final size:15
Alignment explanation
Indices: 847544--847577 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
847534 ATGACACAAA
847544 AAAAAAAGAAAAAAG
1 AAAAAAAGAAAAAAG
*
847559 AAAAAAAGAGAAAAG
1 AAAAAAAGAAAAAAG
847574 AAAA
1 AAAA
847578 GAACCTGCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAAAAG
Found at i:848740 original size:61 final size:61
Alignment explanation
Indices: 848549--848888 Score: 443
Period size: 61 Copynumber: 5.5 Consensus size: 61
848539 AAACCTTTTA
* *
848549 ACCTTTCAGTCCTCAAAGAGTAGGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * *
848610 ACCTTTTAGTCCTCAAAGAGCAGGACACATCTTTTCATTTTAAAGCCCATACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGC--CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* *
848673 ACCTTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
* * * ** *
848734 ATCTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAATCCCACATGAGTTGGTAGC
1 ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
**
848795 ACCATTT-AGTCCTCAAAGAGCAGGACG-CTTTCTCCTTGCAAAGCCCACACAAGTTGGTGGC
1 ACC-TTTCAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGC
* *
848856 ACC-TTCTAGTCCCCAAAGTGCAGGACGCGCTTT
1 ACCTTTC-AGTCCTCAAAGAGCAGGACGC-CTTT
848889 AATTTCCTTC
Statistics
Matches: 241, Mismatches: 30, Indels: 14
0.85 0.11 0.05
Matches are distributed among these distances:
59 2 0.01
60 4 0.02
61 172 0.71
62 3 0.01
63 60 0.25
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (61 bp):
ACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGC
Found at i:848949 original size:41 final size:42
Alignment explanation
Indices: 848890--848994 Score: 135
Period size: 41 Copynumber: 2.5 Consensus size: 42
848880 ACGCGCTTTA
* ** *
848890 ATTTCCTTCTTTTCCTTTGTCCTTAAAAAGCATGACGTATTTT
1 ATTTCC-TCTTTTCCTTTGTCCTCAAAAAGCATGACCCATTTC
*
848933 ATTTCCT-TTTTCCTTTGTCCTCAAAGAGCATGACCCATTTC
1 ATTTCCTCTTTTCCTTTGTCCTCAAAAAGCATGACCCATTTC
848974 A-TT-CTCTTTTCCTTTGTCCTC
1 ATTTCCTCTTTTCCTTTGTCCTC
848995 GAAGAGCAGG
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
39 2 0.04
40 17 0.30
41 30 0.54
42 1 0.02
43 6 0.11
ACGTcount: A:0.17, C:0.27, G:0.09, T:0.48
Consensus pattern (42 bp):
ATTTCCTCTTTTCCTTTGTCCTCAAAAAGCATGACCCATTTC
Found at i:849086 original size:35 final size:34
Alignment explanation
Indices: 848978--849091 Score: 140
Period size: 34 Copynumber: 3.3 Consensus size: 34
848968 CATTTCATTC
* *
848978 TCTTTTCCTTTGTCCTCGAAGAGCAGGACATACT
1 TCTTTTCCTTTGTCCTCGAAGAGCAAGACGTACT
* *
849012 TCTTTCCCTTTATCCTCGAAGAG-AAGGACGTACT
1 TCTTTTCCTTTGTCCTCGAAGAGCAA-GACGTACT
* * *
849046 CCTTTTCCTTTGTCCTCAAAGAGCAAGACGTCCCT
1 TCTTTTCCTTTGTCCTCGAAGAGCAAGACGT-ACT
849081 TCTTTTCCTTT
1 TCTTTTCCTTT
849092 CCTTTCCCCT
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
33 1 0.01
34 52 0.78
35 14 0.21
ACGTcount: A:0.19, C:0.29, G:0.15, T:0.37
Consensus pattern (34 bp):
TCTTTTCCTTTGTCCTCGAAGAGCAAGACGTACT
Found at i:852175 original size:79 final size:79
Alignment explanation
Indices: 852075--852622 Score: 561
Period size: 79 Copynumber: 7.0 Consensus size: 79
852065 ATGTTTTTAC
* * **
852075 TTTC-GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTGATTTTCCATAATCAAGGATA
1 TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATA
* * *
852139 GTCCAACCTCGATA
66 CTCCAACCCCGTTA
* * * * * * *
852153 TTTTTGAGGGGATACTCCAACCCTGGTTTTATTTTTAAAACACCAATTTTTCATAATCGAGGATA
1 TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATA
852218 CTCCAACCCCGTTA
66 CTCCAACCCCGTTA
* * * * *
852232 TTTCTGAAGGGATGCTCCAACCCCAATTTTATTT-TCAAAACA-TCGATTTTCCACAATCGGGGA
1 TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACT-AATTTTCCATAATCGGGGA
852295 TACTCCAA-CCCGTTA
64 TACTCCAACCCCGTTA
* * * ** * * * *
852310 TTT-TCAAGAGGACACTCCAACCCTAATTTTATTACCAAAACACCAATTTTTCATAATCGGGGAT
1 TTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCATAATCGGGGAT
852374 ACTCCAACCCCGTTA
65 ACTCCAACCCCGTTA
* * * *
852389 TTTCTGAAGGGATGCTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATA
1 TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATA
*
852454 CTCCAACCCCATTA
66 CTCCAACCCCGTTA
* ** * * *
852468 TTTCTGAGGGGATATTCCAACTTCGGTTTTATTT-TCAAAACACTAATTTTCCACAATCAGGGAT
1 TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTCCATAATCGGGGAT
* *
852532 ACTTCGACCCCGTTA
65 ACTCCAACCCCGTTA
* * ** * * **
852547 TTT-TCGAGAGGATACTTCAACCTTGATTTTATTTCCAAAACACCAATTTTCCACCATCGGGGAT
1 TTTCT-GAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCATAATCGGGGAT
852611 ACTCCAACCCCG
65 ACTCCAACCCCG
852623 ATTTTATTTC
Statistics
Matches: 389, Mismatches: 70, Indels: 21
0.81 0.15 0.04
Matches are distributed among these distances:
77 1 0.00
78 67 0.17
79 320 0.82
80 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.32
Consensus pattern (79 bp):
TTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCATAATCGGGGATA
CTCCAACCCCGTTA
Found at i:852575 original size:158 final size:156
Alignment explanation
Indices: 852082--852621 Score: 633
Period size: 158 Copynumber: 3.4 Consensus size: 156
852072 TACTTTCGAG
* * * ** *
852082 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACTGATTTTCCATAATCAAGGATAGTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCACAATCGGGGATACTCCAACC
* *
852147 TCGA-TATTTTTGAGGGGATACTCCAACCCTGGTTTTATTTTTAAAACACCAATTTTTCATAATC
66 -CCATTA-TTTTGAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCATAATC
852211 GAGGATACTCCAACCCCGTTATTTCTGAA
129 G-GGATACTCCAACCCCGTTATTTCTGAA
* * *
852240 GGGATGCTCCAACCCCAATTTTATTTTCAAAACA-TCGATTTTCCACAATCGGGGATACTCCAA-
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACT-GATTTTCCACAATCGGGGATACTCCAAC
* * * * ** **
852303 CCCGTTATTTTCAAGAGGACACTCCAACCCTAATTTTATTACCAAAACACCAATTTTTCATAATC
65 CCCATTATTTT-GAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCATAATC
852368 GGGGATACTCCAACCCCGTTATTTCTGAA
129 -GGGATACTCCAACCCCGTTATTTCTGAA
* *
852397 GGGATGCTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCACAATCGGGGATACTCCAACC
* * * * *
852462 CCATTATTTCTGAGGGGATATTCCAA-CTTCGGTTTTATTTTCAAAACACTAATTTTCCACAATC
66 CCATTATTT-TGAGGGGATACTCCAACCCT-GGTTTTATTTTCAAAACACCAATTTTTCATAATC
* *
852526 AGGGATACTTCGACCCCGTTATTT-TCG-A
129 -GGGATACTCCAACCCCGTTATTTCT-GAA
* ** ** *
852554 GAGGATACTTCAACCTTGATTTTATTTCCAAAACACCAATTTTCCACCATCGGGGATACTCCAAC
1 G-GGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCACAATCGGGGATACTCCAAC
852619 CCC
65 CCC
852622 GATTTTATTT
Statistics
Matches: 326, Mismatches: 46, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
156 5 0.02
157 139 0.43
158 181 0.56
159 1 0.00
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (156 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCACAATCGGGGATACTCCAACC
CCATTATTTTGAGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACCAATTTTTCATAATCGG
GATACTCCAACCCCGTTATTTCTGAA
Found at i:852619 original size:51 final size:51
Alignment explanation
Indices: 852556--852668 Score: 136
Period size: 51 Copynumber: 2.2 Consensus size: 51
852546 ATTTTCGAGA
* ** * *
852556 GGATACTTCAACCTTGATTTTATTTCCAAAACACCAATTTTCCACCATCGG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAACCGG
* * ** *
852607 GGATACTCCAACCCCGATTTTATTTCTAGAACATTAATTTTCCTCAACCGG
1 GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAACCGG
852658 GGATACTCCAA
1 GGATACTCCAA
852669 TCCTGTTATT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTTCCACAACCGG
Found at i:852631 original size:130 final size:130
Alignment explanation
Indices: 852475--852752 Score: 308
Period size: 130 Copynumber: 2.1 Consensus size: 130
852465 TTATTTCTGA
* ** * * * *
852475 GGGGATATTCCAACTTCGGTTTTATTT-TCAAAACACTAATTTTCCACAATCAGGGATACTTCGA
1 GGGGATACTCCAACCCCGATTTTATTTCT-AAAACACTAATTTTCCACAACCAGGGATACTCCAA
* * *
852539 CCCCGTTATTTTCGAGAGGATACTTCAA-CCTTGATTTTATTTCCAAAACACCAATTTTCCACCA
65 CCCCGTTATTTTCGAGAGGATACTCCAACCCTAG-TTTTATTTCCAAAACACCAATTTTCCACAA
852603 TC
129 TC
* * * * *
852605 GGGGATACTCCAACCCCGATTTTATTTCTAGAACATTAATTTTCCTCAACCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAACCAGGGATACTCCAAC
* * * * * * *
852670 CCTGTTATTTTCGAGGGGATACTCCAACCCTAGTTTTATTTTCAGAACATCGATTTTCCATAATC
66 CCCGTTATTTTCGAGAGGATACTCCAACCCTAGTTTTATTTCCAAAACACCAATTTTCCACAATC
* *
852735 GAGGATACTCCAGCCCCG
1 GGGGATACTCCAACCCCG
852753 TTAGTTTTGA
Statistics
Matches: 122, Mismatches: 24, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
130 117 0.96
131 5 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (130 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAACACTAATTTTCCACAACCAGGGATACTCCAAC
CCCGTTATTTTCGAGAGGATACTCCAACCCTAGTTTTATTTCCAAAACACCAATTTTCCACAATC
Found at i:852771 original size:209 final size:209
Alignment explanation
Indices: 852397--852777 Score: 488
Period size: 209 Copynumber: 1.8 Consensus size: 209
852387 TATTTCTGAA
* * *
852397 GGGATGCTCCAACCCCGATTTTATTTCCAAAACACTGATTTTCCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCATAACCGGGGATACTCCAACC
* * *
852462 CCATTATTTCTGAGGGGATATTCCAACTTCGGTTTTATTTTCAAAACACTAATTTTCCACAATCA
66 CCATTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACACTAATTTTCCACAATCA
* *
852527 GGGATACTTCGACCCCGTTATTTTCGAGAGGATACTTCAACCTTGATTTTATTTCCAAAACACCA
131 GGGATACTCCGACCCCGTTATTTTCGAGAGGATACTCCAACCTTGATTTTATTTCCAAAACACCA
852592 ATTTTCCACCATCG
196 ATTTTCCACCATCG
* * * *
852606 GGGATACTCCAACCCCGATTTTATTTCTAGAACATTAATTTTCC-TCAACCGGGGATACTCCAAT
1 GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCAT-AACCGGGGATACTCCAAC
** * * *
852670 CCTGTTATTT-TCGAGGGGATACTCCAACC-CTAGTTTTATTTTCAGAACA-TCGATTTTCCATA
65 CCCATTATTTCT-GAGGGGATACTCCAACCTC-AGTTTTATTTTCAAAACACT-AATTTTCCACA
*
852732 ATC-GAGGATACTCC-AGCCCCGTTAGTTTT-GAGGGGATACTCCAACC
127 ATCAG-GGATACTCCGA-CCCCGTTA-TTTTCGAGAGGATACTCCAACC
852778 CCGTCTTTAT
Statistics
Matches: 147, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
208 6 0.04
209 137 0.93
210 4 0.03
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (209 bp):
GGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCATAACCGGGGATACTCCAACC
CCATTATTTCTGAGGGGATACTCCAACCTCAGTTTTATTTTCAAAACACTAATTTTCCACAATCA
GGGATACTCCGACCCCGTTATTTTCGAGAGGATACTCCAACCTTGATTTTATTTCCAAAACACCA
ATTTTCCACCATCG
Found at i:852787 original size:79 final size:79
Alignment explanation
Indices: 852605--852787 Score: 221
Period size: 79 Copynumber: 2.3 Consensus size: 79
852595 TTCCACCATC
* *
852605 GGGGATACTCCAACCCCGATTTTA-TTTCTAGAACATTAATTTTCCTCAACCGGGGATACTCCAA
1 GGGGATACTCCAACCCCG-TTTTATTTTCTAGAACATCAATTTTCCTCAACCGAGGATACTCCAA
* *
852669 TCCTGTTATTTTCGA
65 CCCCGTTATTTTCGA
* * *
852684 GGGGATACTCCAACCCTAGTTTTATTTTC-AGAACATCGATTTTCCAT-AATCGAGGATACTCCA
1 GGGGATACTCCAACCC-CGTTTTATTTTCTAGAACATCAATTTTCC-TCAACCGAGGATACTCCA
*
852747 GCCCCGTTAGTTTT-GA
64 ACCCCGTTA-TTTTCGA
852763 GGGGATACTCCAACCCCGTCTTTAT
1 GGGGATACTCCAACCCCGT-TTTAT
852788 CTCCAAAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 2 0.02
79 78 0.87
80 10 0.11
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTTTATTTTCTAGAACATCAATTTTCCTCAACCGAGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:853911 original size:88 final size:87
Alignment explanation
Indices: 853800--854022 Score: 270
Period size: 87 Copynumber: 2.6 Consensus size: 87
853790 GGCATTAGGT
* * * * * * **
853800 GGCAAATGCATATGAAATAATGCAAATGC-CAATGTTATCT-GAATGCAAATGCATACAAAATGA
1 GGCAAATGCACATGCAATGATGCAAA--CACAATGTCATCTAAAATGCAAATGCAGACAAAACAA
*
853863 TACAAAATGCAAGCATCAACCAAGG
64 TAC-AAATGCAAGCATCAACAAAGG
* * *** *
853888 GGCAAATGTACATGCAATGATGCAAACACAATGTCATCTAAAATGCAAATGTAGGTGAAACAATG
1 GGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAATGCAAATGCAGACAAAACAATA
853953 CAAATGCAAGCATCAACAAAGG
66 CAAATGCAAGCATCAACAAAGG
853975 GGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAATGCAA
1 GGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAATGCAA
854023 TGTAGTCTAA
Statistics
Matches: 117, Mismatches: 16, Indels: 5
0.85 0.12 0.04
Matches are distributed among these distances:
86 1 0.01
87 77 0.66
88 39 0.33
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (87 bp):
GGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAATGCAAATGCAGACAAAACAATA
CAAATGCAAGCATCAACAAAGG
Found at i:853940 original size:43 final size:43
Alignment explanation
Indices: 853889--854026 Score: 138
Period size: 43 Copynumber: 3.2 Consensus size: 43
853879 CAACCAAGGG
853889 GCAAATGTACATGCAATGATGCAAACACAATGTCATCTAAAAT
1 GCAAATGTACATGCAATGATGCAAACACAATGTCATCTAAAAT
** * ** ** * *
853932 GCAAATGTAGGTGAAACAATGCAAATGCAA-G-CATCAACAAAGGG
1 GCAAATGTACATGCAATGATGCAAACACAATGTCATCTA-AAA--T
*
853976 GCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAAT
1 GCAAATGTACATGCAATGATGCAAACACAATGTCATCTAAAAT
854019 GC-AATGTA
1 GCAAATGTA
854027 GTCTAATCCA
Statistics
Matches: 70, Mismatches: 20, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
41 5 0.07
42 9 0.13
43 25 0.36
44 22 0.31
45 4 0.06
46 5 0.07
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.20
Consensus pattern (43 bp):
GCAAATGTACATGCAATGATGCAAACACAATGTCATCTAAAAT
Found at i:853975 original size:87 final size:86
Alignment explanation
Indices: 853867--854027 Score: 295
Period size: 87 Copynumber: 1.9 Consensus size: 86
853857 AAATGATACA
* *
853867 AAATGCAAGCATCAACCAAGGGGCAAATGTACATGCAATGATGCAAACACAATGTCATCTAAAAT
1 AAATGCAAGCATCAACAAAGGGGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAAT
853932 GCAAATGTAGGTGAAACAATGC
66 GC-AATGTAGGTGAAACAATGC
853954 AAATGCAAGCATCAACAAAGGGGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAAT
1 AAATGCAAGCATCAACAAAGGGGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAAT
854019 GCAATGTAG
66 GCAATGTAG
854028 TCTAATCCAA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
86 7 0.10
87 65 0.90
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.18
Consensus pattern (86 bp):
AAATGCAAGCATCAACAAAGGGGCAAATGCACATGCAATGATGCAAACACAATGTCATCTAAAAT
GCAATGTAGGTGAAACAATGC
Found at i:853998 original size:44 final size:44
Alignment explanation
Indices: 853858--854000 Score: 130
Period size: 44 Copynumber: 3.2 Consensus size: 44
853848 ATGCATACAA
* *
853858 AATGATACAAAATGCAAGCATCAACCAAGGGGCAAATGTACATGC
1 AATGATGC-AAATGCAAGCATCAACAAAGGGGCAAATGTACATGC
** * * ** *
853903 AATGATGCAAACACAATGTCATCTA-AAA--TGCAAATGTAGGTGA
1 AATGATGCAAATGCAA-G-CATCAACAAAGGGGCAAATGTACATGC
** *
853946 AACAATGCAAATGCAAGCATCAACAAAGGGGCAAATGCACATGC
1 AATGATGCAAATGCAAGCATCAACAAAGGGGCAAATGTACATGC
853990 AATGATGCAAA
1 AATGATGCAAA
854001 CACAATGTCA
Statistics
Matches: 72, Mismatches: 21, Indels: 11
0.69 0.20 0.11
Matches are distributed among these distances:
41 5 0.07
42 4 0.06
43 23 0.32
44 25 0.35
45 10 0.14
46 5 0.07
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (44 bp):
AATGATGCAAATGCAAGCATCAACAAAGGGGCAAATGTACATGC
Found at i:855082 original size:22 final size:21
Alignment explanation
Indices: 855033--855082 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 21
855023 TCTTTTCATG
855033 CTCTTTTTTTCCTTTCTTTTC
1 CTCTTTTTTTCCTTTCTTTTC
* *
855054 C-CATTTTTTGCTTT-TTCTTC
1 CTCTTTTTTTCCTTTCTT-TTC
855074 TCTCTTTTT
1 -CTCTTTTT
855083 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
19 2 0.09
20 14 0.61
21 2 0.09
22 5 0.22
ACGTcount: A:0.02, C:0.26, G:0.02, T:0.70
Consensus pattern (21 bp):
CTCTTTTTTTCCTTTCTTTTC
Found at i:858784 original size:156 final size:154
Alignment explanation
Indices: 858508--859029 Score: 457
Period size: 155 Copynumber: 3.4 Consensus size: 154
858498 AAATGCCCCA
*
858508 AGGGGATACTTTCGACGTAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATTACAAATGAG
1 AGGGGATACTTTCAACGTAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATTACAAATGAG
* * * * *
858573 ATTAACCTATCCTAAATACTCACCTACGGCATAAAAGCATACTCGGTGACAACCTAGGACTCATT
66 ATGAACCTATCCTAAATACCCACCTACGGCATAAAAGCAGACCCGGTGACAACCTAGGACTCAGT
* *
858638 TCTAAAAGAATACGAAAATACCCTT
131 TCTAAAA-AATACAAAAATAACCTT
* * * * ** *
858663 AGGGGATACTTTTAATGTAGAAGTGCCTGATATTCCTAAAGGACTTAAAAAGGACTATA-AAAT-
1 AGGGGATACTTTCAACGTAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGA-T-TACAAATG
* ** * * *
858726 AGGATGAACCTATTCTAAATACCCACCTTTGGCATTAAAGCGGACCCGGTGACAACCTAGGACTT
64 A-GATGAACCTATCCTAAATACCCACCTACGGCATAAAAGCAGACCCGGTGACAACCTAGGACTC
* * *
858791 GGTTCTAAAAATTATAAAAATAACCTT
128 AGTTCTAAAAAATACAAAAATAACCTT
* * * * ** * * * *
858818 AGGGGATGCCTTT-GACATAAAAGTACCCGGCACCCCTAAAGGA-TTTAAAAGTATCATAGAAA-
1 AGGGGAT-ACTTTCAACGTAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGAT--TACAAAT
* * * * * *
858880 G-GATGAACCTATCCGAAATACCCACCTCCGGCGTAAAAGCAAACCCGATGCCAACCTAGGACTC
63 GAGATGAACCTATCCTAAATACCCACCTACGGCATAAAAGCAGACCCGGTGACAACCTAGGACTC
** *
858944 -GATTCTAAAAAAATTACAAAAATGCCCCT
128 AG-TTCT-AAAAAA-TACAAAAATAACCTT
* * * * *
858973 AGAGGATACCTTCGACGTAAAAGTACCTGATACCTCTAAA-AGACTTAAAAAAGATTA
1 AGGGGATACTTTCAACGTAAAAGTACCTGATACCCCTAAAGA-ACTTAAAAAGGATTA
859030 TGGTTGTCAC
Statistics
Matches: 289, Mismatches: 65, Indels: 27
0.76 0.17 0.07
Matches are distributed among these distances:
152 1 0.00
153 57 0.20
154 21 0.07
155 130 0.45
156 78 0.27
157 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (154 bp):
AGGGGATACTTTCAACGTAAAAGTACCTGATACCCCTAAAGAACTTAAAAAGGATTACAAATGAG
ATGAACCTATCCTAAATACCCACCTACGGCATAAAAGCAGACCCGGTGACAACCTAGGACTCAGT
TCTAAAAAATACAAAAATAACCTT
Found at i:1040310 original size:20 final size:20
Alignment explanation
Indices: 1040284--1040336 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1040274 GTAGCCAAAC
* *
1040284 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
1040303 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
1040324 TTGTATCGATACA
1 TTGTATCGATACA
1040337 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1046499 original size:13 final size:13
Alignment explanation
Indices: 1046481--1046505 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1046471 CATTTTTCTT
1046481 TGTATCGATACAC
1 TGTATCGATACAC
1046494 TGTATCGATACA
1 TGTATCGATACA
1046506 GGGGGATTAT
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:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1046660 original size:20 final size:20
Alignment explanation
Indices: 1046617--1046662 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1046607 AAATCTTTTG
1046617 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1046638 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1046658 CAAAA
1 CAAAA
1046663 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1048317 original size:29 final size:29
Alignment explanation
Indices: 1048275--1048342 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
1048265 GAGAGAATAG
* *
1048275 ATGTATGTATGTGCAAATAAATTTTTGAT
1 ATGTGTGTAAGTGCAAATAAATTTTTGAT
1048304 ATGTGTGTAAGTGCAAATAAATTTTTGAT
1 ATGTGTGTAAGTGCAAATAAATTTTTGAT
1048333 ATGTGTGTAA
1 ATGTGTGTAA
1048343 ATTACCTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.34, C:0.03, G:0.21, T:0.43
Consensus pattern (29 bp):
ATGTGTGTAAGTGCAAATAAATTTTTGAT
Found at i:1049096 original size:20 final size:20
Alignment explanation
Indices: 1049070--1049122 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1049060 GTAGCCAAAC
* *
1049070 TTGTATCGATACAC-CAAAG
1 TTGTATCGATACACAAAAAA
1049089 TATGTATCGATACACAAAAAA
1 T-TGTATCGATACACAAAAAA
1049110 TTGTATCGATACA
1 TTGTATCGATACA
1049123 TTGGCTTGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
19 1 0.03
20 25 0.83
21 4 0.13
ACGTcount: A:0.42, C:0.17, G:0.13, T:0.28
Consensus pattern (20 bp):
TTGTATCGATACACAAAAAA
Found at i:1050513 original size:34 final size:34
Alignment explanation
Indices: 1050475--1050605 Score: 244
Period size: 34 Copynumber: 3.9 Consensus size: 34
1050465 ATATACATGT
*
1050475 TAACACACCTAACATTCTCACCAAATATATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
*
1050509 TAACACACCTAACATTCTCACCAAACACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
1050543 TAACACACCTAACATTCTCACCAAATACATCACC
1 TAACACACCTAACATTCTCACCAAATACATCACC
1050577 TAACACACCTAACATTCTCACCAAATACA
1 TAACACACCTAACATTCTCACCAAATACA
1050606 CTTAACAAAG
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 94 1.00
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (34 bp):
TAACACACCTAACATTCTCACCAAATACATCACC
Found at i:1050577 original size:25 final size:23
Alignment explanation
Indices: 1050480--1050582 Score: 65
Period size: 25 Copynumber: 4.4 Consensus size: 23
1050470 CATGTTAACA
*
1050480 CACCTAACATTCTCACCAAATATAT
1 CACCTAACA--CTCACCAAATACAT
*
1050505 CACCTAACA--CACCTAACATTC-T
1 CACCTAACACTCACC-AA-ATACAT
* *
1050527 CACCAAACACATCACC-TA-ACA-
1 CACCTAACAC-TCACCAAATACAT
1050548 CACCTAACATTCTCACCAAATACAT
1 CACCTAACA--CTCACCAAATACAT
1050573 CACCTAACAC
1 CACCTAACAC
1050583 ACCTAACATT
Statistics
Matches: 60, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
21 13 0.22
22 17 0.28
23 5 0.08
24 3 0.05
25 22 0.37
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (23 bp):
CACCTAACACTCACCAAATACAT
Found at i:1055336 original size:20 final size:20
Alignment explanation
Indices: 1055307--1055353 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
1055297 CTCACCAATA
*
1055307 TCACCTAACACCTAACATTC
1 TCACCAAACACCTAACATTC
1055327 TCACCAAACACCTAACATTC
1 TCACCAAACACCTAACATTC
1055347 TCACCAA
1 TCACCAA
1055354 CACATCACCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.21
Consensus pattern (20 bp):
TCACCAAACACCTAACATTC
Found at i:1055386 original size:53 final size:49
Alignment explanation
Indices: 1055285--1055387 Score: 161
Period size: 53 Copynumber: 2.0 Consensus size: 49
1055275 ACATGTTAAC
*
1055285 ACACCTAACATTCTCACCAATATCACCTAACACCTAACATTCTCACCAA
1 ACACCTAACATTCTCACCAACATCACCTAACACCTAACATTCTCACCAA
1055334 ACACCTAACATTCTCACCAACACATCACCTAACACACCTAACATTCTCACCAA
1 ACACCTAACATTCTCACC-A-ACATCACCT-A-ACACCTAACATTCTCACCAA
1055387 A
1 A
1055388 TACATCACCT
Statistics
Matches: 49, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
49 18 0.37
50 1 0.02
51 8 0.16
52 1 0.02
53 21 0.43
ACGTcount: A:0.40, C:0.40, G:0.00, T:0.20
Consensus pattern (49 bp):
ACACCTAACATTCTCACCAACATCACCTAACACCTAACATTCTCACCAA
Found at i:1055398 original size:34 final size:34
Alignment explanation
Indices: 1055327--1055425 Score: 168
Period size: 34 Copynumber: 3.0 Consensus size: 34
1055317 CCTAACATTC
*
1055327 TCACC-AA-ACACCTAACATTCTCACC-AACACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
1055358 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
1055392 TCACCTAACACACCTAACATTCTCACCAAATACA
1 TCACCTAACACACCTAACATTCTCACCAAATACA
1055426 CTTAACAAAG
Statistics
Matches: 64, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
31 5 0.08
32 2 0.03
33 18 0.28
34 39 0.61
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.19
Consensus pattern (34 bp):
TCACCTAACACACCTAACATTCTCACCAAATACA
Found at i:1056660 original size:12 final size:12
Alignment explanation
Indices: 1056645--1056671 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1056635 TCTGTTTTTC
1056645 TTGCATTATATT
1 TTGCATTATATT
1056657 TTGCATTATATT
1 TTGCATTATATT
1056669 TTG
1 TTG
1056672 TATGAAGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.07, G:0.11, T:0.59
Consensus pattern (12 bp):
TTGCATTATATT
Found at i:1056782 original size:29 final size:30
Alignment explanation
Indices: 1056747--1056805 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
1056737 AAATAAATTT
1056747 TTATCAA-GGGGAGAAAATCTTTTAAACGA
1 TTATCAAGGGGGAGAAAATCTTTTAAACGA
*
1056776 TTATCAAGGGGGAGAAAATTTTTTAAACGA
1 TTATCAAGGGGGAGAAAATCTTTTAAACGA
1056806 GAACCTTAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 7 0.25
30 21 0.75
ACGTcount: A:0.41, C:0.08, G:0.22, T:0.29
Consensus pattern (30 bp):
TTATCAAGGGGGAGAAAATCTTTTAAACGA
Found at i:1057417 original size:20 final size:19
Alignment explanation
Indices: 1057371--1057427 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1057361 ATGTATTGAT
*
1057371 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGC
*
1057390 TCATTGTATCGATACATGC
1 ACATTGTATCGATACATGC
*
1057409 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
1057428 AAACTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGC
Found at i:1057491 original size:13 final size:13
Alignment explanation
Indices: 1057473--1057524 Score: 53
Period size: 13 Copynumber: 4.5 Consensus size: 13
1057463 GATACGTGGC
*
1057473 ACATTGTATTGAT
1 ACATTGTATCGAT
1057486 ACATTGTATCGAT
1 ACATTGTATCGAT
1057499 ACA-TG-AT-G--
1 ACATTGTATCGAT
1057507 A-ATTGTATCGAT
1 ACATTGTATCGAT
1057519 ACATTG
1 ACATTG
1057525 CTTCAAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 12
0.71 0.02 0.27
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 19 0.59
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:1058216 original size:19 final size:19
Alignment explanation
Indices: 1058177--1058264 Score: 100
Period size: 19 Copynumber: 4.9 Consensus size: 19
1058167 TTTCAACGAT
*
1058177 TTGTATCGATACGTAAAGTG
1 TTGTATCGATACAT-AAGTG
1058197 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1058216 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
*
1058230 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
1058248 TTGTATCGATACA-AAGT
1 TTGTATCGATACATAAGT
1058265 AAGCTACTGC
Statistics
Matches: 61, Mismatches: 1, Indels: 14
0.80 0.01 0.18
Matches are distributed among these distances:
13 11 0.18
15 2 0.03
17 2 0.03
18 4 0.07
19 29 0.48
20 13 0.21
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1058235 original size:13 final size:13
Alignment explanation
Indices: 1058217--1058241 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1058207 ACATAAGTGT
1058217 TGTATCGATACAA
1 TGTATCGATACAA
1058230 TGTATCGATACA
1 TGTATCGATACA
1058242 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1058239 original size:32 final size:32
Alignment explanation
Indices: 1058198--1058261 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
1058188 CGTAAAGTGT
1058198 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1058230 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1058262 AGTAAGCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.12, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1058300 original size:13 final size:13
Alignment explanation
Indices: 1058282--1058306 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1058272 TGCCAAAAAA
1058282 TGTATCGATACAT
1 TGTATCGATACAT
1058295 TGTATCGATACA
1 TGTATCGATACA
1058307 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1058373 original size:52 final size:52
Alignment explanation
Indices: 1058315--1058439 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1058305 CACTGATCTT
*
1058315 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCAATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCAATACACTATAAAA
* * *
1058367 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCAATACACTATAAAA
1058419 TGTATCGATACATGCAGGCAA
1 TGTATCGATACATGCAGGCAA
1058440 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCAAGATGTATCAATACACTATAAAA
Found at i:1063167 original size:13 final size:13
Alignment explanation
Indices: 1063145--1063183 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
1063135 ATAAACCCTT
*
1063145 TGTATCGATACAC
1 TGTATCGATACAA
*
1063158 TGTATTGATACAA
1 TGTATCGATACAA
1063171 TGTATCGATACAA
1 TGTATCGATACAA
1063184 AGAATGCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1063598 original size:18 final size:18
Alignment explanation
Indices: 1063577--1063612 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1063567 TCATTAAACC
*
1063577 AAGTTCTCTCATAATGGT
1 AAGTTCTCCCATAATGGT
1063595 AAGTTCTCCCATAATGGT
1 AAGTTCTCCCATAATGGT
1063613 GCAAAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (18 bp):
AAGTTCTCCCATAATGGT
Found at i:1075934 original size:118 final size:118
Alignment explanation
Indices: 1075726--1075962 Score: 447
Period size: 118 Copynumber: 2.0 Consensus size: 118
1075716 TTATACCATT
1075726 AAAGAAATTCAAGATGCTTTTGATGATTTGGTAATAGAATTTAAGTCAATGAACTCTAAGCATAA
1 AAAGAAATTCAAGATGCTTTTGATGATTTGGTAATAGAATTTAAGTCAATGAACTCTAAGCATAA
1075791 GAAAACCATCTCTAAACTAAATGAAGAAAATAAATCGATAAGTTTAGAGAATG
66 GAAAACCATCTCTAAACTAAATGAAGAAAATAAATCGATAAGTTTAGAGAATG
* * *
1075844 AAAGAACTTTAAGATGCTTTTGATGATTTGGTATTAGAATTTAAGTCAATGAACTCTAAGCATAA
1 AAAGAAATTCAAGATGCTTTTGATGATTTGGTAATAGAATTTAAGTCAATGAACTCTAAGCATAA
1075909 GAAAACCATCTCTAAACTAAATGAAGAAAATAAATCGATAAGTTTAGAGAATG
66 GAAAACCATCTCTAAACTAAATGAAGAAAATAAATCGATAAGTTTAGAGAATG
1075962 A
1 A
1075963 TGAGATTAAA
Statistics
Matches: 116, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
118 116 1.00
ACGTcount: A:0.45, C:0.10, G:0.16, T:0.29
Consensus pattern (118 bp):
AAAGAAATTCAAGATGCTTTTGATGATTTGGTAATAGAATTTAAGTCAATGAACTCTAAGCATAA
GAAAACCATCTCTAAACTAAATGAAGAAAATAAATCGATAAGTTTAGAGAATG
Found at i:1077027 original size:13 final size:13
Alignment explanation
Indices: 1077009--1077034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1076999 GCATGAGTTT
1077009 TGTATCGATACAA
1 TGTATCGATACAA
1077022 TGTATCGATACAA
1 TGTATCGATACAA
1077035 AACTACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1077083 original size:20 final size:20
Alignment explanation
Indices: 1077058--1077115 Score: 107
Period size: 20 Copynumber: 2.9 Consensus size: 20
1077048 AATGCCAAGG
1077058 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTAAT
1077078 AAATGTATCGATACATTAAT
1 AAATGTATCGATACATTAAT
*
1077098 AAATGTATCAATACATTA
1 AAATGTATCGATACATTA
1077116 TATCAATACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.47, C:0.10, G:0.09, T:0.34
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:1077121 original size:13 final size:13
Alignment explanation
Indices: 1077103--1077127 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1077093 TTAATAAATG
1077103 TATCAATACATTA
1 TATCAATACATTA
1077116 TATCAATACATT
1 TATCAATACATT
1077128 GATAATTGTA
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:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (13 bp):
TATCAATACATTA
Found at i:1077138 original size:33 final size:33
Alignment explanation
Indices: 1077083--1077146 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
1077073 TTAATAAATG
*
1077083 TATCGATACATTAATAAATGTATCAATACATTA
1 TATCAATACATTAATAAATGTATCAATACATTA
* * *
1077116 TATCAATACATTGATAATTGTATCGATACAT
1 TATCAATACATTAATAAATGTATCAATACAT
1077147 CTGGGAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.38
Consensus pattern (33 bp):
TATCAATACATTAATAAATGTATCAATACATTA
Found at i:1086541 original size:49 final size:48
Alignment explanation
Indices: 1086418--1086553 Score: 137
Period size: 48 Copynumber: 2.8 Consensus size: 48
1086408 GAAAAATGAT
* *
1086418 AAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTTAAGAA
1 AAAGGTGCCAATATGTTGATTCAAGGCTAGCGACATTGGACTTAAGAA
* * * * ** *
1086466 AAAAGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGTTTTAAAGAT
1 AAAGGTGCCAATATGTTGATTCAAGGCTAGCGACATTGGACTT-AAGAA
* * * * *
1086515 GAAGGTGCCAATATGTTAATTTAAGGCTAACGATATTGG
1 AAAGGTGCCAATATGTTGATTCAAGGCTAGCGACATTGG
1086554 GCTTGTACCA
Statistics
Matches: 69, Mismatches: 18, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
48 35 0.51
49 34 0.49
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (48 bp):
AAAGGTGCCAATATGTTGATTCAAGGCTAGCGACATTGGACTTAAGAA
Found at i:1086629 original size:88 final size:88
Alignment explanation
Indices: 1086473--1086719 Score: 332
Period size: 88 Copynumber: 2.8 Consensus size: 88
1086463 GAAAAAAGTG
* * * * *
1086473 CCAATGTGCTGATTCAAGGCTAGTGACATTGGTTTTAAAGATGAAGGTGCCAATATGTTAATTTA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGATTCA
1086538 AGGCTAACGATATTGGGCTTGTA
66 AGGCTAACGATATTGGGCTTGTA
* * * * *
1086561 CCAATGTGTTGATTCAAGGCCAGCGATAGTGGTCTTAAATATGAAGATGCCAATATGTTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGATTCA
* *
1086626 AGGCCAACGATATTGGGCTTGTG
66 AGGCTAACGATATTGGGCTTGTA
* * * * * *
1086649 CCAATATACTGATTCAAAGCCAACAACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGATTCA
1 CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGATTCA
1086714 AGGCTA
66 AGGCTA
1086720 GTGCCATTGG
Statistics
Matches: 135, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 135 1.00
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (88 bp):
CCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGGTGCCAATATGTTGATTCA
AGGCTAACGATATTGGGCTTGTA
Found at i:1086792 original size:32 final size:32
Alignment explanation
Indices: 1086743--1086957 Score: 247
Period size: 32 Copynumber: 6.8 Consensus size: 32
1086733 TAGAAGGAGA
* *
1086743 TGCCACCAACTTATGTGGGCTTTTAAGAGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
* *
1086775 TGCCACCGACTTGTGTGGGCTTTGAAG-GGGG
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
* * *
1086806 TGCCACCGACCTATGTGGGCTTTTGAAGA-GGT
1 TGCCACCAACTTGTGTGGGC-TTTGAAGAGGGT
* * *
1086838 TGCCACTAGCTTGTGTGGGCTTCAGAA-AGGGT
1 TGCCACCAACTTGTGTGGGCTT-TGAAGAGGGT
*
1086870 TGCCACCAACTTGTGTGGGCTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
* * * *
1086902 TGCCACCAGCTTGTGGGGGCTTTGGAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
*
1086934 TGCCACCAACTTATGTGGGCTTTG
1 TGCCACCAACTTGTGTGGGCTTTG
1086958 GAAAAGGTTT
Statistics
Matches: 155, Mismatches: 23, Indels: 10
0.82 0.12 0.05
Matches are distributed among these distances:
31 27 0.17
32 128 0.83
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.28
Consensus pattern (32 bp):
TGCCACCAACTTGTGTGGGCTTTGAAGAGGGT
Found at i:1087164 original size:64 final size:64
Alignment explanation
Indices: 1087084--1087381 Score: 209
Period size: 62 Copynumber: 4.9 Consensus size: 64
1087074 CTAGCTCATG
* * * *
1087084 TGGGCTTTGGAAAGGAAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGGTGCCGCGTAGTTTA
1 TGGGCTTTGAAAAGGAAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTTA
*** * * * * * *
1087148 TGGGCTTTGAAAAGGAAAAAAAATGCCACAAAGTTGTGGACTTAAAAAGGTTCCATGAAGTTTG
1 TGGGCTTTGAAAAGGAAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTTA
* * * * * * *
1087212 TGGGC-TT-AAAAAGAAAATGGGTGCGACGGAGTTATGGACTTAAAAGGGTGCTACGGAG-TTG
1 TGGGCTTTGAAAAGGAAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTTA
* *
1087273 TGGAG--TT--------AAAAGGGTGCCAC-GACGTTGTGGACTTAAAAGGGTGCCACGGAGTTG
1 TGG-GCTTTGAAAAGGAAAAAGGGTGCCACAGA-GTTATGGACTTAAAAGGGTGCCACGAAGTT-
1087327 TA
63 TA
* * *
1087329 --GGC-TTAAAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCAC
1 TGGGCTTTGAAAAGGAAAAAGGGTGCCACAGAGTTATGGACTT-AAAAGGGTGCCAC
1087382 AGAGTTGTGG
Statistics
Matches: 187, Mismatches: 32, Indels: 32
0.75 0.13 0.13
Matches are distributed among these distances:
53 3 0.02
54 40 0.21
55 1 0.01
56 1 0.01
61 27 0.14
62 57 0.30
63 2 0.01
64 56 0.30
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.22
Consensus pattern (64 bp):
TGGGCTTTGAAAAGGAAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTTA
Found at i:1087267 original size:27 final size:27
Alignment explanation
Indices: 1087225--1087642 Score: 318
Period size: 27 Copynumber: 14.2 Consensus size: 27
1087215 GCTTAAAAAG
* *
1087225 AAAATGGGTGCGACGGAGTTATGGACTT
1 AAAA-GGGTGCCACGGAGTTGTGGACTT
* *
1087253 AAAAGGGTGCTACGGAGTTGTGGAGTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1087280 AAAAGGGTGCCAC-GACGTTGTGGACTT
1 AAAAGGGTGCCACGGA-GTTGTGGACTT
1087307 AAAAGGGTGCCACGGAGTTGTAGG-CTT
1 AAAAGGGTGCCACGGAGTTGT-GGACTT
1087334 AAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAA-G-----GGTGCCACGGAGTTGTGGACTT
*
1087368 AAAAAGGGTGCCACAGAGTTGTGGACTT
1 -AAAAGGGTGCCACGGAGTTGTGGACTT
* * * *
1087396 AAAAAGGTGCCAAGAAGTTGTGGGCTTTGT
1 AAAAGGGTGCCACGGAGTTGTGGAC--T-T
*
1087426 AAAGGAAAAAGGGTGCCACAGAGTTGTGGACTT
1 ------AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
1087459 AAAAGGGTACCACGGAGTTATGGCCTTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT
*
1087487 GAAAAGGAAAAACGGTGCCACGGAGTTATGGACTT
1 -AAAA-G------GGTGCCACGGAGTTGTGGACTT
*
1087522 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
1087549 AAAAGTGTGCCACAGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* *
1087576 AAAAGGGTGCCACGAAGTTGCGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
1087603 AAAAGGAAAATGGGTGCCACGGAGTTGTGGACTT
1 ------AAAA-GGGTGCCACGGAGTTGTGGACTT
1087637 AAAAGG
1 AAAAGG
1087643 AAAATGGGTG
Statistics
Matches: 323, Mismatches: 31, Indels: 73
0.76 0.07 0.17
Matches are distributed among these distances:
26 2 0.01
27 175 0.54
28 39 0.12
29 6 0.02
30 2 0.01
33 9 0.03
34 50 0.15
35 2 0.01
36 38 0.12
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:1087312 original size:54 final size:54
Alignment explanation
Indices: 1087225--1087608 Score: 313
Period size: 63 Copynumber: 6.6 Consensus size: 54
1087215 GCTTAAAAAG
* * * * *
1087225 AAAATGGGTGCGACGGAGTTATGGACTTAAAAGGGTGCTACGGAGTTGTGGAGTT
1 AAAA-GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
*
1087280 AAAAGGGTGCCAC-GACGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGG-CTT
1 AAAAGGGTGCCACGGA-GTTGTGGACTTAAAAGGGTGCCACAGAGTTGT-GGACTT
1087334 AAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACTT
1 -AAAA-G-----GGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACAGAGTTGTGGACTT
* * * *
1087396 AAAAAGGTGCCAAGAAGTTGTGGGCTTTGTAAAGGAAAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC--T-T------AAAAGGGTGCCACAGAGTTGTGGACTT
* * * * *
1087459 AAAAGGGTACCACGGAGTTATGGCCTTTGAAAAGGAAAAACGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAA-G------GGTGCCACAGAGTTGTGGACTT
* * *
1087522 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGTGTGCCACAGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
* *
1087576 AAAAGGGTGCCACGAAGTTGCGGACTTAAAAGG
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGG
1087609 AAAATGGGTG
Statistics
Matches: 276, Mismatches: 26, Indels: 55
0.77 0.07 0.15
Matches are distributed among these distances:
53 2 0.01
54 89 0.32
55 27 0.10
56 5 0.02
57 2 0.01
58 1 0.00
60 1 0.00
61 30 0.11
62 29 0.11
63 90 0.33
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.22
Consensus pattern (54 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
Found at i:1087351 original size:34 final size:34
Alignment explanation
Indices: 1087307--1087701 Score: 194
Period size: 27 Copynumber: 12.7 Consensus size: 34
1087297 TTGTGGACTT
*
1087307 AAAAGGGTGCCACGGAGTTGTAGG-CTTAAAAAGG
1 AAAAAGGTGCCACGGAGTTGT-GGACTTAAAAAGG
1087341 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
*
1087374 -----GGTGCCACAGAGTTGTGGACTT-------
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
* * * **
1087396 AAAAAGGTGCCAAGAAGTTGTGGGCTTTGTAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGG
*
1087431 AAAAAGGGTGCCACAGAGTTGTGGACTT-AAAA-G
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAAGG
* * * *
1087464 -----GGTACCACGGAGTTATGGCCTTTGAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGG
*
1087494 AAAAACGGTGCCACGGAGTTATGGACTT-AAAA-G
1 AAAAA-GGTGCCACGGAGTTGTGGACTTAAAAAGG
*
1087527 -----GGTGCCACGGAGTTATGGACTT-AAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
* * *
1087554 -----TGTGCCACAGAGTTATGGACTT-AAAA-G
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
* *
1087581 -----GGTGCCACGAAGTTGCGGACTT-AAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
*
1087609 AAAATGGGTGCCACGGAGTTGTGGACTT-AAAAGG
1 AAAA-AGGTGCCACGGAGTTGTGGACTTAAAAAGG
* ** *
1087643 AAAATGGGTGCCACGGAGTTGTGGACTTTTAGAGG
1 AAAA-AGGTGCCACGGAGTTGTGGACTTAAAAAGG
1087678 AAAAAAGGTGCCACGGAGTTGTGG
1 -AAAAAGGTGCCACGGAGTTGTGG
1087702 GCTTTTGGAA
Statistics
Matches: 299, Mismatches: 29, Indels: 65
0.76 0.07 0.17
Matches are distributed among these distances:
27 105 0.35
28 26 0.09
29 4 0.01
30 1 0.00
33 5 0.02
34 89 0.30
35 31 0.10
36 38 0.13
ACGTcount: A:0.32, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAGG
Found at i:1087387 original size:62 final size:61
Alignment explanation
Indices: 1087280--1087402 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 61
1087270 TTGTGGAGTT
* *
1087280 AAAAGGGTGCCACGACGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGG-CTTAAAAAGG
1 AAAAAGGTGCCACGACGTTGTGGACTTAAAAGGGTGCCACAGAGTTGT-GGACTTAAAAAGG
1087341 AAAAAGGTGCCACGGA-GTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
1 AAAAAGGTGCCAC-GACGTTGTGGACTT-AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
1087403 TGCCAAGAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
61 25 0.44
62 32 0.56
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (61 bp):
AAAAAGGTGCCACGACGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
Found at i:1087387 original size:116 final size:116
Alignment explanation
Indices: 1087171--1087418 Score: 329
Period size: 116 Copynumber: 2.1 Consensus size: 116
1087161 GGAAAAAAAA
* * * * *
1087171 TGCCACAAAGTTGTGGACTTAAAAAGGTTCCATGAAGTTTGTGGGCTTAAAAAGAAAATGGGTGC
1 TGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTTGTAGGCTTAAAAAGAAAATAGGTGC
* * * * *
1087236 GACGGAGTTATGGACTTAAAAGGGTGCTACGGAGTTGTGGAGTTAAAAGGG
66 CACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
* * *
1087287 TGCCACGACGTTGTGGACTTAAAAGGGTGCCACGGAG-TTGTAGGCTTAAAAAGGAAAA-AGGTG
1 TGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTTGTAGGCTTAAAAA-GAAAATAGGTG
*
1087350 CCACGGAGTTGTGGACTTAAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
65 CCACGGAGTTATGGACTT-AAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
*
1087403 TGCCAAGAAGTTGTGG
1 TGCCACGAAGTTGTGG
1087419 GCTTTGTAAA
Statistics
Matches: 114, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
115 34 0.30
116 80 0.70
ACGTcount: A:0.31, C:0.12, G:0.33, T:0.23
Consensus pattern (116 bp):
TGCCACGAAGTTGTGGACTTAAAAAGGTGCCACGAAGTTTGTAGGCTTAAAAAGAAAATAGGTGC
CACGGAGTTATGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGG
Found at i:1087447 original size:63 final size:61
Alignment explanation
Indices: 1087368--1087642 Score: 303
Period size: 63 Copynumber: 4.6 Consensus size: 61
1087358 TTGTGGACTT
* * * * *
1087368 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCAAGAAGTTGTGGGCTTTGTAAAGG
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGGAC-TT-AAAAGG
* * *
1087431 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAGTTATGGCCTTTGAAAAGG
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGGAC-TT-AAAAGG
* * * *
1087494 AAAAACGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTT------
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGGACTTAAAAGG
* * **
1087549 -AAAAGTGTGCCACAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGCGGACTTAAAAGG
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGGACTTAAAAGG
* *
1087609 AAAATGGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGG
1087643 AAAATGGGTG
Statistics
Matches: 183, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
54 48 0.26
61 29 0.16
62 2 0.01
63 104 0.57
ACGTcount: A:0.33, C:0.14, G:0.32, T:0.21
Consensus pattern (61 bp):
AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGAAGTTATGGACTTAAAAGG
Found at i:1087522 original size:269 final size:269
Alignment explanation
Indices: 1087099--1087640 Score: 734
Period size: 269 Copynumber: 2.0 Consensus size: 269
1087089 TTTGGAAAGG
* ** *
1087099 AAAAAGGGTGCCACAGAGTTATAGACTTAAAAGGGTGCCGCGTAGTTTATGGGCTTTGAAAAGGA
1 AAAAAGGGTGCCACAGAGTTATAGACTTAAAAAGGTGCCAAGAAGTTTATGGGCTTTGAAAAGGA
* * * *
1087164 AAAAAAATGCCACAAAGTTGTGGACTTAAAAAGGTTCCATGAAGTTTGTGGGCTTAAAAAGAAAA
66 AAAAAAATGCCACAAAGTTGTGGACTTAAAAAGGTACCACGAAGTTTATGGCCTTAAAAAGAAAA
** * * * *
1087229 TGGGTGCGACGGAGTTATGGACTTAAAAGGGTGCTACGGAGTTGTGGAGTTAAAAGGGTGCCAC-
131 ACGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACA
* *
1087293 GACGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTAGG-CTTAAAAAGGAAAA-AGGTGCCACGG
196 GA-GTTATGGACTTAAAAGGGTGCCACGAAGTTG-AGGACTT-AAAAGGAAAATAGGTGCCACGG
1087356 AGTTGTGGACTT
258 AGTTGTGGACTT
* * * *
1087368 AAAAAGGGTGCCACAGAGTTGTGGACTTAAAAAGGTGCCAAGAAG-TTGTGGGCTTTGTAAAGGA
1 AAAAAGGGTGCCACAGAGTTATAGACTTAAAAAGGTGCCAAGAAGTTTATGGGCTTTGAAAAGGA
*** * * * *
1087432 AAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGGTACCACGGAG-TTATGGCCTTTGAAAAGGAA
66 AAAAAAATGCCACAAAGTTGTGGACTTAAAAAGGTACCACGAAGTTTATGGCC-TT-AAAAAGAA
*
1087496 AAACGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGTGTGCCA
129 AAACGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCA
* *
1087561 CAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGCGGACTTAAAAGGAAAATGGGTGCCACGGA
194 CAGAGTTATGGACTTAAAAGGGTGCCACGAAGTTGAGGACTTAAAAGGAAAATAGGTGCCACGGA
1087626 GTTGTGGACTT
259 GTTGTGGACTT
1087637 AAAA
1 AAAA
1087641 GGAAAATGGG
Statistics
Matches: 238, Mismatches: 30, Indels: 10
0.86 0.11 0.04
Matches are distributed among these distances:
267 6 0.03
268 67 0.28
269 163 0.68
270 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.32, T:0.22
Consensus pattern (269 bp):
AAAAAGGGTGCCACAGAGTTATAGACTTAAAAAGGTGCCAAGAAGTTTATGGGCTTTGAAAAGGA
AAAAAAATGCCACAAAGTTGTGGACTTAAAAAGGTACCACGAAGTTTATGGCCTTAAAAAGAAAA
ACGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGGTGCCACA
GAGTTATGGACTTAAAAGGGTGCCACGAAGTTGAGGACTTAAAAGGAAAATAGGTGCCACGGAGT
TGTGGACTT
Found at i:1087688 original size:35 final size:34
Alignment explanation
Indices: 1087576--1087701 Score: 180
Period size: 34 Copynumber: 3.7 Consensus size: 34
1087566 TTATGGACTT
* *
1087576 AAAAGGGTGCCACGAAGTTGCGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
*
1087610 AAATGGGTGCCACGGAGTTGTGGACTTAAAAGGA
1 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
* * *
1087644 AAATGGGTGCCACGGAGTTGTGGACTTTTAGAGGA
1 AAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGA
*
1087679 AAAAAGGTGCCACGGAGTTGTGG
1 AAAAGGGTGCCACGGAGTTGTGG
1087702 GCTTTTGGAA
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
34 56 0.67
35 28 0.33
ACGTcount: A:0.32, C:0.13, G:0.36, T:0.20
Consensus pattern (34 bp):
AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:1088944 original size:21 final size:23
Alignment explanation
Indices: 1088910--1088957 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
1088900 TTGTGTTGTT
*
1088910 TTTTTTGTTGTTTTGTT-TTTG-G
1 TTTTTTGTTATTTT-TTCTTTGAG
1088932 TTTTTT-TTATTTTTTCTTTGAG
1 TTTTTTGTTATTTTTTCTTTGAG
1088954 TTTT
1 TTTT
1088958 CGTCATTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 10 0.43
22 11 0.48
ACGTcount: A:0.04, C:0.02, G:0.15, T:0.79
Consensus pattern (23 bp):
TTTTTTGTTATTTTTTCTTTGAG
Found at i:1091345 original size:20 final size:20
Alignment explanation
Indices: 1091319--1091392 Score: 91
Period size: 20 Copynumber: 3.8 Consensus size: 20
1091309 AAAACCCTAG
1091319 AATGTATCGATACATATCT-
1 AATGTATCGATACATATCTC
*
1091338 AGATGTATCGATACATGT-TC
1 A-ATGTATCGATACATATCTC
*
1091358 ATTGTATCGATACATA-CTC
1 AATGTATCGATACATATCTC
1091377 AATTGTATCGATACAT
1 AA-TGTATCGATACAT
1091393 GAAACTGGCG
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
19 18 0.38
20 29 0.62
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATATCTC
Found at i:1091365 original size:19 final size:20
Alignment explanation
Indices: 1091341--1091393 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
1091331 CATATCTAGA
*
1091341 TGTATCGATACATGTTC-AT
1 TGTATCGATACATGCTCAAT
*
1091360 TGTATCGATACATACTCAAT
1 TGTATCGATACATGCTCAAT
1091380 TGTATCGATACATG
1 TGTATCGATACATG
1091394 AAACTGGCGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (20 bp):
TGTATCGATACATGCTCAAT
Found at i:1091447 original size:20 final size:19
Alignment explanation
Indices: 1091422--1091474 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 19
1091412 TTAAGTGAAA
1091422 TGTATCGATACATG-GCACAT
1 TGTATCGATACATGAG-A-AT
1091442 TGTATCGATACATGAAGAAT
1 TGTATCGATACATG-AGAAT
1091462 TGTATCGATACAT
1 TGTATCGATACAT
1091475 TATGCCCAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (19 bp):
TGTATCGATACATGAGAAT
Found at i:1093058 original size:80 final size:81
Alignment explanation
Indices: 1092938--1093087 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 81
1092928 CCCAAAAATA
* * *
1092938 AAAAATTTGATCTTTTTAGAAGTGAAAACAGGGTTTGAGTATCCCCTCAAAGATGGTAGG-TTAG
1 AAAAATTCGATCTTTTTAAAAATGAAAACAGGGTTTGAGTATCCCCTCAAAGATGGTAGGATTAG
1093002 AGTATTTCTAAAGATG
66 AGTATTTCTAAAGATG
* * * * * *
1093018 AAAAATTCGATGTTTTTAAAAATGAAAA-TGGGTTTAGAGTATCCCTTTAGAGATGGTAGGATTG
1 AAAAATTCGATCTTTTTAAAAATGAAAACAGGGTTT-GAGTATCCCCTCAAAGATGGTAGGATTA
1093082 GAGTAT
65 GAGTAT
1093088 CTTTTTTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
79 6 0.10
80 45 0.76
81 8 0.14
ACGTcount: A:0.35, C:0.08, G:0.23, T:0.33
Consensus pattern (81 bp):
AAAAATTCGATCTTTTTAAAAATGAAAACAGGGTTTGAGTATCCCCTCAAAGATGGTAGGATTAG
AGTATTTCTAAAGATG
Found at i:1094422 original size:19 final size:19
Alignment explanation
Indices: 1094381--1094433 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 19
1094371 CCAGTTTCAC
1094381 GTATCGATATAATTGAGTCT
1 GTATCGATATAA-TGAGTCT
*
1094401 GTATCGATACAATGAG-CAT
1 GTATCGATATAATGAGTC-T
1094420 GTATCGATATAATG
1 GTATCGATATAATG
1094434 TATTGATACA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 1 0.03
19 18 0.60
20 11 0.37
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (19 bp):
GTATCGATATAATGAGTCT
Found at i:1096287 original size:52 final size:53
Alignment explanation
Indices: 1096223--1096333 Score: 170
Period size: 53 Copynumber: 2.1 Consensus size: 53
1096213 AATTGCCTAT
*
1096223 ATGTATCAATACATTG-AAGAATGTATCGATACATTTAGGTAAAAAACCCAGA
1 ATGTATCAATACATTGCAAGAATGTATCGATACATATAGGTAAAAAACCCAGA
* * * *
1096275 TTGTATCGATACATTGCAAGCATGTATCGATACATATAGGTCAAAAACCCAGA
1 ATGTATCAATACATTGCAAGAATGTATCGATACATATAGGTAAAAAACCCAGA
1096328 ATGTAT
1 ATGTAT
1096334 TGATGCAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 14 0.27
53 38 0.73
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (53 bp):
ATGTATCAATACATTGCAAGAATGTATCGATACATATAGGTAAAAAACCCAGA
Found at i:1096361 original size:73 final size:73
Alignment explanation
Indices: 1096278--1096455 Score: 266
Period size: 73 Copynumber: 2.4 Consensus size: 73
1096268 ACCCAGATTG
* *
1096278 TATCGATACATTGCAAGCATGTATCGATACATATAGGTCAAAAACCCAGAATGTATTGATGCAAT
1 TATCGATACATTGCAAGCATGTATCGATACATATAGGTCAAAAACCCAGAATGTATCGATACAAT
1096343 GAGAAATA
66 GAGAAATA
* * * * *
1096351 TATTGATACATTACAAACATGTATCGATACATTTGGGTCAAAAACCCAGAATGTATCGATACAAT
1 TATCGATACATTGCAAGCATGTATCGATACATATAGGTCAAAAACCCAGAATGTATCGATACAAT
*
1096416 GAGAAATG
66 GAGAAATA
* *
1096424 TATCGATATATTGAAAGCATGTATCGATACAT
1 TATCGATACATTGCAAGCATGTATCGATACAT
1096456 TCACTTATGT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
73 92 1.00
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (73 bp):
TATCGATACATTGCAAGCATGTATCGATACATATAGGTCAAAAACCCAGAATGTATCGATACAAT
GAGAAATA
Found at i:1096425 original size:20 final size:19
Alignment explanation
Indices: 1096400--1096454 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 19
1096390 AAAAACCCAG
1096400 AATGTATCGATACAATGAGA
1 AATGTATCGATACAATGA-A
* *
1096420 AATGTATCGATATATTGAA
1 AATGTATCGATACAATGAA
1096439 AGCATGTATCGATACA
1 A--ATGTATCGATACA
1096455 TTCACTTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.07
20 16 0.53
21 12 0.40
ACGTcount: A:0.42, C:0.11, G:0.18, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:1096540 original size:20 final size:21
Alignment explanation
Indices: 1096515--1096566 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1096505 ACATGGTCTA
1096515 GTATCGATACATTCA-CTTA-T
1 GTATCGATACA-TCAGCTTATT
* *
1096535 GTATCGAGATATCAGCTTATT
1 GTATCGATACATCAGCTTATT
1096556 GTATCGATACA
1 GTATCGATACA
1096567 AATTGTAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.12
20 13 0.50
21 10 0.38
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (21 bp):
GTATCGATACATCAGCTTATT
Found at i:1097491 original size:33 final size:32
Alignment explanation
Indices: 1097449--1097556 Score: 83
Period size: 33 Copynumber: 3.2 Consensus size: 32
1097439 TTTTACCACA
1097449 GTCACACTTTTGTTGACATGATGGTTTCGCCCT
1 GTCA-ACTTTTGTTGACATGATGGTTTCGCCCT
* ** * *
1097482 GTTCAACTTTTTTTCCCACT-AAGGTTTTGCCCT
1 G-TCAACTTTTGTTGACA-TGATGGTTTCGCCCT
* * * *
1097515 AGTCACCTTTTGTTGATATGATGATTTCACCCT
1 -GTCAACTTTTGTTGACATGATGGTTTCGCCCT
1097548 GGTCAACTT
1 -GTCAACTT
1097557 CTTTTCGACT
Statistics
Matches: 55, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
32 1 0.02
33 49 0.89
34 5 0.09
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.42
Consensus pattern (32 bp):
GTCAACTTTTGTTGACATGATGGTTTCGCCCT
Found at i:1097527 original size:66 final size:66
Alignment explanation
Indices: 1097317--1097562 Score: 223
Period size: 66 Copynumber: 3.7 Consensus size: 66
1097307 TTTCACCTTG
* * * * * * * *
1097317 GTCACCCTTTGTTAACGTGATGG-TTCGTCTTGGTCAACTTTTTTTGCAACTTCA-GTTTTGTCC
1 GTCACCTTTTGTTGACATGATGGTTTCGCCCTGGTCAACTTTTTTTCCAAC-TAAGGTTTTGCCC
1097380 TA
65 TA
* * * ** *
1097382 GTCACCTTTTTGGTTGACATTATGGTTTTGTCCTGGTCAA-TTTCTTTT-GGACTAAGGTTTTAC
1 GTCACC-TTTT-GTTGACATGATGGTTTCGCCCTGGTCAACTTT-TTTTCCAACTAAGGTTTTGC
1097445 CAC-A
63 C-CTA
* *
1097449 GTCACACTTTTGTTGACATGATGGTTTCGCCCTGTTCAACTTTTTTTCCCACTAAGGTTTTGCCC
1 GTCAC-CTTTTGTTGACATGATGGTTTCGCCCTGGTCAACTTTTTTTCCAACTAAGGTTTTGCCC
1097514 TA
65 TA
* * * *
1097516 GTCACCTTTTGTTGATATGATGATTTCACCCTGGTCAACTTCTTTTC
1 GTCACCTTTTGTTGACATGATGGTTTCGCCCTGGTCAACTTTTTTTC
1097563 GACTTAGGTT
Statistics
Matches: 148, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
65 6 0.04
66 71 0.48
67 53 0.36
68 18 0.12
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (66 bp):
GTCACCTTTTGTTGACATGATGGTTTCGCCCTGGTCAACTTTTTTTCCAACTAAGGTTTTGCCCT
A
Found at i:1098962 original size:152 final size:150
Alignment explanation
Indices: 1098583--1098976 Score: 430
Period size: 151 Copynumber: 2.6 Consensus size: 150
1098573 CTCTATTTGT
* *
1098583 ATTTTTCTTAGTTTATAATTTTCAAAATTCTTTAAATATTATTGTTTAGTTCATAGTT-AATCAG
1 ATTTTTC-TAATTTATAATTTTCAAAATTC-TTAAATATTATTGTTTAATTCATA-TTAAATCAG
* *
1098647 TTTTGAAAAATTCAATTTATTTTATGAGTTTTAAAATTTTTCTATTATCAAAATACGAGTTTTAT
63 TTTTGAAAAATTTAATTTATTTTATGAGTTTTAAAATTTTTCTATTATCAAAATACAAGTTTTAT
1098712 ACTCTGTAATTTTTTTCGATAGG
128 ACTCTGTAATTTTTTTCGATAGG
*
1098735 A-TTTTCTAAGCTTATAATTTTCAAAATTCTTCAAATATTATTGTTTAATTCATATTAAATCAGT
1 ATTTTTCTAA-TTTATAATTTTCAAAATTCTT-AAATATTATTGTTTAATTCATATTAAATCAGT
* * *
1098799 TTGGAAAAATTTAATTTATTTTCTGAGTTTTAAAATTTTT-T-TT-TCCAAAGTACAAAAGTTTT
64 TTTGAAAAATTTAATTTATTTTATGAGTTTTAAAATTTTTCTATTAT-CAAAATAC--AAGTTTT
* *
1098861 CA-AC-CTTGTAAAATTTTTTTGGAT-TG
126 -ATACTC-TGT--AATTTTTTTCGATAGG
* * * * *
1098887 ATTTTTCTCAATTTAAAATTTT-AAAATTCATTAAATATTTTTATTAAATTCATATTAAATTAGT
1 ATTTTTCT-AATTTATAATTTTCAAAATTC-TTAAATATTATTGTTTAATTCATATTAAATCAGT
* *
1098951 TTT-AGAGAATTTAATTTATTTCATGA
64 TTTGA-AAAATTTAATTTATTTTATGA
1098977 TCTTTGAATT
Statistics
Matches: 208, Mismatches: 20, Indels: 28
0.81 0.08 0.11
Matches are distributed among these distances:
148 1 0.00
149 9 0.04
150 8 0.04
151 100 0.48
152 59 0.28
153 29 0.14
154 2 0.01
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.50
Consensus pattern (150 bp):
ATTTTTCTAATTTATAATTTTCAAAATTCTTAAATATTATTGTTTAATTCATATTAAATCAGTTT
TGAAAAATTTAATTTATTTTATGAGTTTTAAAATTTTTCTATTATCAAAATACAAGTTTTATACT
CTGTAATTTTTTTCGATAGG
Found at i:1099158 original size:25 final size:25
Alignment explanation
Indices: 1099104--1099159 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
1099094 TTCATTATTA
* *
1099104 ATATTTTTAATTTTAATTTTCTCTT
1 ATATTTTAAATTTTAATTTTATCTT
*
1099129 A-ATTTTGAAATTTT-ATTTTATTTT
1 ATATTTT-AAATTTTAATTTTATCTT
1099153 ATATTTT
1 ATATTTT
1099160 TTAACTAGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.68
Consensus pattern (25 bp):
ATATTTTAAATTTTAATTTTATCTT
Found at i:1099813 original size:16 final size:16
Alignment explanation
Indices: 1099792--1099825 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
1099782 GAAATGTTTA
1099792 TTATATTATGTTCATG
1 TTATATTATGTTCATG
1099808 TTATATTATGTTCATG
1 TTATATTATGTTCATG
1099824 TT
1 TT
1099826 GCTTCATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.06, G:0.12, T:0.59
Consensus pattern (16 bp):
TTATATTATGTTCATG
Found at i:1101147 original size:160 final size:155
Alignment explanation
Indices: 1100918--1101356 Score: 431
Period size: 158 Copynumber: 2.8 Consensus size: 155
1100908 TTCTTTACCC
* *
1100918 TTTAGGGTTACTAGGATACTTTCACATTGAAGGTATACCTATAGGGGCATTTTCATAATTTTTTT
1 TTTAGGGTTACTA-GATACTTTCACGTTGAAGGTATACCTATAGGGGCATTTTCATAATTTTATT
* * * * * * *
1100983 AGAACCGAGT-TTTAGTTTGTTATC-GAGATGCTTTTGTGCCAAAGGTAGGTATTTAGGATAGGT
65 AGAACCAAGTCCTAAG-TTGTCACCAGA-ATGCTTTTATGCCAAAAGTAGGTATTTA-GATAGGT
*
1101046 TCATCCCATTTATGATCATTTTTTAAGTCT
127 TCATCCCATTTATGA-CACTTTTTAAGTCT
* * * *
1101076 TTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACACTTATAGGGGTATTTTCATAATTTTA
1 TTTAGGGTTACT-AGATACTTTCACGTTGAAGGTATAC-C-TATAGGGGCATTTTCATAATTTTA
* *
1101141 TTAGAACTAAGTCCTAAGTTGTCACCAGAATGCTTTTATGCCAAAAGTGGGTATTTAGATAGGTT
63 TTAGAACCAAGTCCTAAGTTGTCACCAGAATGCTTTTATGCCAAAAGTAGGTATTTAGATAGGTT
* * *
1101206 CATTCCATTTATGACCCTTTTTAAGTTT
128 CATCCCATTTATGACACTTTTTAAGTCT
* * * * * * * *
1101234 TTTTGGGTTACCAAGATACTTTCACGTTAAAGGTATA-CTCATAAGAGTATTTTCGTAATTTTTT
1 TTTAGGGTTA-CTAGATACTTTCACGTTGAAGGTATACCT-ATAGGGGCATTTTCATAATTTTAT
* * * *** *
1101298 TAAAACCTAGTCCTAAGTTGCCATTGGGATGCTTTTATGCC-AAAGT--GTATTTAGGATAG
64 TAGAACCAAGTCCTAAGTTGTCACCAGAATGCTTTTATGCCAAAAGTAGGTATTTA-GATAG
1101357 ATTTACCCTA
Statistics
Matches: 236, Mismatches: 37, Indels: 20
0.81 0.13 0.07
Matches are distributed among these distances:
153 7 0.03
154 5 0.02
155 6 0.03
156 54 0.23
158 72 0.31
159 24 0.10
160 63 0.27
161 5 0.02
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.40
Consensus pattern (155 bp):
TTTAGGGTTACTAGATACTTTCACGTTGAAGGTATACCTATAGGGGCATTTTCATAATTTTATTA
GAACCAAGTCCTAAGTTGTCACCAGAATGCTTTTATGCCAAAAGTAGGTATTTAGATAGGTTCAT
CCCATTTATGACACTTTTTAAGTCT
Found at i:1101333 original size:156 final size:158
Alignment explanation
Indices: 1101009--1101356 Score: 402
Period size: 156 Copynumber: 2.2 Consensus size: 158
1100999 TTGTTATCGA
* * *
1101009 GATGCTTTTGTGCCAAAGGTAGGTATTTAGGATAGGTTCATCCCATTTATGATCATTTTTTAAGT
1 GATGCTTTTATGCCAAAAGT-GGTATTTAGGATAGGTTCATCCCATTTATGATCACTTTTTAAGT
** * * * * *
1101074 CTTTTAAGGTTACTGAGATACTTTCATGTCGAAGGTATACACTTATAGGGGTATTTTCATAATTT
65 CTTTTAAGGTTACCAAGATACTTTCACGTCAAAGGTATA-ACTCATAAGAGTATTTTCATAATTT
* *
1101139 TATTAGAACTAAGTCCTAAGTTGTCACCAG
129 TATTAAAACTAAGTCCTAAGTTGCCACCAG
* * *
1101169 AATGCTTTTATGCCAAAAGTGGGTATTTA-GATAGGTTCATTCCATTTATGA-CCCTTTTTAAGT
1 GATGCTTTTATGCCAAAAGT-GGTATTTAGGATAGGTTCATCCCATTTATGATCACTTTTTAAGT
* ** * *
1101232 TTTTTTGGGTTACCAAGATACTTTCACGTTAAAGGTAT-ACTCATAAGAGTATTTTCGTAATTTT
65 CTTTTAAGGTTACCAAGATACTTTCACGTCAAAGGTATAACTCATAAGAGTATTTTCATAATTTT
* ***
1101296 TTTAAAACCT-AGTCCTAAGTTGCCATTGG
130 ATTAAAA-CTAAGTCCTAAGTTGCCACCAG
1101325 GATGCTTTTATGCC-AAAGT-GTATTTAGGATAG
1 GATGCTTTTATGCCAAAAGTGGTATTTAGGATAG
1101357 ATTTACCCTA
Statistics
Matches: 160, Mismatches: 26, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
153 7 0.04
154 5 0.03
155 5 0.03
156 55 0.34
157 2 0.01
158 40 0.25
159 21 0.13
160 25 0.16
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.40
Consensus pattern (158 bp):
GATGCTTTTATGCCAAAAGTGGTATTTAGGATAGGTTCATCCCATTTATGATCACTTTTTAAGTC
TTTTAAGGTTACCAAGATACTTTCACGTCAAAGGTATAACTCATAAGAGTATTTTCATAATTTTA
TTAAAACTAAGTCCTAAGTTGCCACCAG
Found at i:1103307 original size:13 final size:13
Alignment explanation
Indices: 1103289--1103345 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
1103279 CATAAAGTGT
1103289 TGTATCGATACAA
1 TGTATCGATACAA
1103302 TGTATCGATACATAA
1 TGTATCGATAC--AA
1103317 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1103334 TGTATCGATACA
1 TGTATCGATACA
1103346 TAAGTGTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1103324 original size:32 final size:32
Alignment explanation
Indices: 1103269--1103364 Score: 183
Period size: 32 Copynumber: 3.0 Consensus size: 32
1103259 TTCAATGATT
1103269 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACAT-AAGTGTTGTATCGATACAA
1103302 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1103334 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
1103365 TAAGTTTTGT
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
32 50 0.79
33 13 0.21
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1103326 original size:19 final size:19
Alignment explanation
Indices: 1103268--1103383 Score: 121
Period size: 19 Copynumber: 6.7 Consensus size: 19
1103258 TTTCAATGAT
1103268 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
1103288 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1103302 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1103320 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1103334 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
1103352 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
*
1103371 TTGTATTGATACA
1 TTGTATCGATACA
1103384 ATGTAAGCTA
Statistics
Matches: 82, Mismatches: 2, Indels: 25
0.75 0.02 0.23
Matches are distributed among these distances:
13 22 0.27
15 4 0.05
17 4 0.05
19 40 0.49
20 12 0.15
ACGTcount: A:0.34, C:0.11, G:0.18, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1103423 original size:13 final size:13
Alignment explanation
Indices: 1103405--1103429 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1103395 TGCCAAAAAA
1103405 TGTATCGATACAT
1 TGTATCGATACAT
1103418 TGTATCGATACA
1 TGTATCGATACA
1103430 CTGATCTTTG
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:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1103496 original size:52 final size:52
Alignment explanation
Indices: 1103438--1103566 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1103428 CACTGATCTT
*
1103438 TGTATCGATACATGCAGGCAAATTTGGCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1103490 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1103542 TATATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1103567 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1107136 original size:8 final size:7
Alignment explanation
Indices: 1107123--1107164 Score: 50
Period size: 8 Copynumber: 5.9 Consensus size: 7
1107113 TGAAGCAAAT
1107123 AAAAAAG
1 AAAAAAG
1107130 CAAAAAAG
1 -AAAAAAG
*
1107138 AAAAGAAA
1 AAAA-AAG
1107146 AAAAAAG
1 AAAAAAG
1107153 -AAAAAG
1 AAAAAAG
1107159 AAAAAA
1 AAAAAA
1107165 ATGGAAAGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
6 6 0.20
7 11 0.37
8 13 0.43
ACGTcount: A:0.86, C:0.02, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:1107146 original size:10 final size:11
Alignment explanation
Indices: 1107132--1107162 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
1107122 TAAAAAAGCA
1107132 AAAAAGAAAAG
1 AAAAAGAAAAG
1107143 AAAAA-AAAAG
1 AAAAAGAAAAG
1107153 AAAAAGAAAA
1 AAAAAGAAAA
1107163 AAATGGAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:1107171 original size:16 final size:16
Alignment explanation
Indices: 1107131--1107165 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1107121 ATAAAAAAGC
1107131 AAAAAAG-AAAAGAAA
1 AAAAAAGAAAAAGAAA
1107146 AAAAAAGAAAAAGAAA
1 AAAAAAGAAAAAGAAA
1107162 AAAA
1 AAAA
1107166 TGGAAAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.37
16 12 0.63
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAAAGAAA
Found at i:1108173 original size:20 final size:20
Alignment explanation
Indices: 1108150--1108203 Score: 108
Period size: 20 Copynumber: 2.7 Consensus size: 20
1108140 ACAATTCAAA
1108150 GTATCGATACATGTTGTAAT
1 GTATCGATACATGTTGTAAT
1108170 GTATCGATACATGTTGTAAT
1 GTATCGATACATGTTGTAAT
1108190 GTATCGATACATGT
1 GTATCGATACATGT
1108204 CATTGAGATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (20 bp):
GTATCGATACATGTTGTAAT
Found at i:1108270 original size:13 final size:13
Alignment explanation
Indices: 1108252--1108277 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1108242 ACACCAAAGT
1108252 ATGTATCGATACA
1 ATGTATCGATACA
1108265 ATGTATCGATACA
1 ATGTATCGATACA
1108278 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1108275 original size:33 final size:33
Alignment explanation
Indices: 1108233--1108297 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1108223 TAGCCAAACT
* *
1108233 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1108266 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1108298 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1111788 original size:15 final size:15
Alignment explanation
Indices: 1111768--1111798 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1111758 TAAAAATGTC
*
1111768 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1111783 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1111798 C
1 C
1111799 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1113880 original size:13 final size:13
Alignment explanation
Indices: 1113862--1113900 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
1113852 ACATTTTTCT
1113862 TTGTATCGATACA
1 TTGTATCGATACA
1113875 TTGTATCGATACA
1 TTGTATCGATACA
*
1113888 CTGTATCGATACA
1 TTGTATCGATACA
1113901 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1114055 original size:20 final size:20
Alignment explanation
Indices: 1114012--1114057 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
1114002 AAATCTTTTG
1114012 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
1114033 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
1114053 CAAAA
1 CAAAA
1114058 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:1116407 original size:13 final size:13
Alignment explanation
Indices: 1116389--1116414 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1116379 ACACCAAAGT
1116389 ATGTATCGATACA
1 ATGTATCGATACA
1116402 ATGTATCGATACA
1 ATGTATCGATACA
1116415 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1116412 original size:33 final size:33
Alignment explanation
Indices: 1116370--1116434 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
1116360 TAGCCAAACT
* *
1116370 TGTATCGATACAC-CAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAAAAT-TGTATCGATACAA
1116403 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
1116435 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:1117399 original size:88 final size:87
Alignment explanation
Indices: 1117263--1117567 Score: 283
Period size: 88 Copynumber: 3.5 Consensus size: 87
1117253 CGTTCCTTGA
* * * *
1117263 GCATTTACCTTTTTATTAATACTTGCATTTGCATCATTTTACGTACATTTGTATTTTATATGACA
1 GCATTTACCTTTTTATTGATACTTGTATTTGCATCATTTTACG-ACATTTGCATTTTAGATGACA
* ** *
1117328 TTGGCATTTACATTTTTTCATGT
65 TTAGCATTTACATCATTTCATAT
* * *
1117351 GCATTTTCCTTCTTATTGATGCTTGTATTTGCATCACTTTGTAC-ACATTTGCATTTTAGATGAC
1 GCATTTACCTTTTTATTGATACTTGTATTTGCATCA-TTT-TACGACATTTGCATTTTAGATGAC
*
1117415 ATTAGCATTTGCATCATTTCATAT
64 ATTAGCATTTACATCATTTCATAT
* * * ** * * *
1117439 GCATTTACCTTTTTGTTGATATTTGTA-TTACATCATTTCGCGTACATCTGCACTTTAGATAACA
1 GCATTTACCTTTTTATTGATACTTGTATTTGCATCATTTTACG-ACATTTGCATTTTAGATGACA
* * * *
1117503 TTAGTAATTGCATAATTTCATAT
65 TTAGCATTTACATCATTTCATAT
* * * * *
1117526 GCATTT-GCTATTTTATTGATGCTTGCATTTACATCATCTTAC
1 GCATTTACCT-TTTTATTGATACTTGTATTTGCATCATTTTAC
1117568 CTGCATTTGC
Statistics
Matches: 177, Mismatches: 34, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
85 1 0.01
86 5 0.03
87 64 0.36
88 101 0.57
89 3 0.02
90 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (87 bp):
GCATTTACCTTTTTATTGATACTTGTATTTGCATCATTTTACGACATTTGCATTTTAGATGACAT
TAGCATTTACATCATTTCATAT
Found at i:1117444 original size:44 final size:44
Alignment explanation
Indices: 1117287--1117540 Score: 113
Period size: 44 Copynumber: 5.8 Consensus size: 44
1117277 ATTAATACTT
* ** * * *
1117287 GCATTTGCATCATTTTACGTACATTTGTATTTTATATGACATTG
1 GCATTTGCATCATTTCATATACATTTGCATTTTAGATGACATTA
* ** * * * *
1117331 GCATTTACATTTTTTCATGTGCATTTTCCTTCTTATTGATG-C-TT-
1 GCATTTGCATCATTTCATATACATTTGCATT-TTA--GATGACATTA
* * *
1117375 GTATTTGCATCACTTT-GTACACATTTGCATTTTAGATGACATTA
1 GCATTTGCATCA-TTTCATATACATTTGCATTTTAGATGACATTA
* * * * * * *
1117419 GCATTTGCATCATTTCATATGCATTTACCTTTTTGTTGATATTT
1 GCATTTGCATCATTTCATATACATTTGCATTTTAGATGACATTA
* * *** * * *
1117463 GTA-TTACATCATTTCGCGTACATCTGCACTTTAGATAACATTA
1 GCATTTGCATCATTTCATATACATTTGCATTTTAGATGACATTA
* * * *
1117506 GTAATTGCATAATTTCATATGCATTTGCTATTTTA
1 GCATTTGCATCATTTCATATACATTTGC-ATTTTA
1117541 TTGATGCTTG
Statistics
Matches: 147, Mismatches: 53, Indels: 19
0.67 0.24 0.09
Matches are distributed among these distances:
41 4 0.03
42 1 0.01
43 37 0.25
44 88 0.60
45 13 0.09
46 1 0.01
47 3 0.02
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.47
Consensus pattern (44 bp):
GCATTTGCATCATTTCATATACATTTGCATTTTAGATGACATTA
Found at i:1118477 original size:14 final size:14
Alignment explanation
Indices: 1118458--1118486 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1118448 ATGCCTTCGA
1118458 CTATAAGTTTTAGG
1 CTATAAGTTTTAGG
1118472 CTATAAGTTTTAGG
1 CTATAAGTTTTAGG
1118486 C
1 C
1118487 ATTGGCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.10, G:0.21, T:0.41
Consensus pattern (14 bp):
CTATAAGTTTTAGG
Found at i:1118756 original size:41 final size:41
Alignment explanation
Indices: 1118670--1118760 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
1118660 TGACTTTATC
* * * * * *
1118670 GGTTTTGCCTTAGTCAACCCTTATAACTTGCTGGTTTTATC
1 GGTTTCGCCCTAGCCAACCCTTATAACTTGCTGGCTATATA
* *
1118711 GGTTTCGCCCTAGCCAACCCTTCTAACTTGTTGGCTATATA
1 GGTTTCGCCCTAGCCAACCCTTATAACTTGCTGGCTATATA
1118752 GGTTTCGCC
1 GGTTTCGCC
1118761 TCTTAACTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.16, C:0.26, G:0.19, T:0.38
Consensus pattern (41 bp):
GGTTTCGCCCTAGCCAACCCTTATAACTTGCTGGCTATATA
Found at i:1118891 original size:41 final size:41
Alignment explanation
Indices: 1118846--1119254 Score: 193
Period size: 41 Copynumber: 10.0 Consensus size: 41
1118836 TTAACCCTTT
**
1118846 TAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCTCTC
1 TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
** *** * * *
1118887 TAAC-TAGTTGAATTTATTGGTTTCGCCTTGGTCAACC-CTTC
1 TAACTTA-TTGGCTTTATCAATTTTGCCCTGGCCAACCTC-TC
* * * * *
1118928 TAACTTGTTGGCTTTATCAATTTTGCCCTAGCTAATCTTTC
1 TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
* * ** * ** * *
1118969 TGAA-TTATT-GATTTCATCAGTTTCACCTTGATCGACCGCTC
1 T-AACTTATTGGCTTT-ATCAATTTTGCCCTGGCCAACCTCTC
* *
1119010 TAACTTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTC
1 TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
* * * * *
1119051 TAACTTGTTGCCTTTATCAGTTTCGCCCTAGCCAACCTCTC
1 TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
** ** * * *
1119092 TAA-TTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTC
1 TAACTTA-TTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
* * *** * * *
1119133 TGACTTGTTGGCTTTATGGGTTTCGCCTTGGCCAACGTCTC
1 TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
* ** ***
1119174 TAA-ATAGTTGATTTTATCAATTTTGCCCTATTCAACC-CTTC
1 TAACTTA-TTGGCTTTATCAATTTTGCCCTGGCCAACCTC-TC
* ** * *
1119215 TAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCT
1 TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCT
1119255 TTCCTAGCTA
Statistics
Matches: 254, Mismatches: 100, Indels: 28
0.66 0.26 0.07
Matches are distributed among these distances:
40 13 0.05
41 230 0.91
42 11 0.04
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (41 bp):
TAACTTATTGGCTTTATCAATTTTGCCCTGGCCAACCTCTC
Found at i:1118906 original size:82 final size:82
Alignment explanation
Indices: 1118794--1119060 Score: 231
Period size: 82 Copynumber: 3.3 Consensus size: 82
1118784 TATCACCCTA
* * * *
1118794 GCCAACCTTCTTAATTGGTTGATTTGATTGGTTTCG-CTCTGGTTAACCCTTTTAACTTATTGGC
1 GCCAACCTTCTTAACTAGTTGATTTGATTGGTTTCGCCT-TGGTCAACCCTTCTAACTTATTGGC
1118858 TTTATCAATTTTGCTTTG
65 TTTATCAATTTTGCTTTG
*
1118876 GCCAACC-TCTCTAACTAGTTGAATTT-ATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGG
1 GCCAACCTTCT-TAACTAGTTG-ATTTGATTGGTTTCGCCTTGGTCAACCCTTCTAACTTATTGG
** *
1118939 CTTTATCAATTTTGCCCTA
64 CTTTATCAATTTTGCTTTG
* * * * * ** * * * *
1118958 GCTAATCTTTCTGAATTA-TTGATTTCATCAGTTTCACCTTGATCGACCGC-TCTAACTTATTAG
1 GCCAA-CCTTCTTAACTAGTTGATTTGATTGGTTTCGCCTTGGTCAACC-CTTCTAACTTATTGG
* **
1119021 CTTTATCGATTTTGCCCTG
64 CTTTATCAATTTTGCTTTG
*
1119040 GCCAACC-TCTCTAACTTGTTG
1 GCCAACCTTCT-TAACTAGTTG
1119061 CCTTTATCAG
Statistics
Matches: 150, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
80 3 0.02
81 11 0.07
82 121 0.81
83 12 0.08
84 3 0.02
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (82 bp):
GCCAACCTTCTTAACTAGTTGATTTGATTGGTTTCGCCTTGGTCAACCCTTCTAACTTATTGGCT
TTATCAATTTTGCTTTG
Found at i:1119093 original size:82 final size:81
Alignment explanation
Indices: 1118846--1119254 Score: 281
Period size: 82 Copynumber: 5.0 Consensus size: 81
1118836 TTAACCCTTT
** * ** *
1118846 TAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCTCTCTAACTAGTTGAATTTATTGGTTTC
1 TAACTTATT-GCTTTATCAATTTTGCCCTGGCCAACCTCTCTAACTTGTTGGCTTTATCGGTTTC
* *
1118911 GCCTTGGTCAACC-CTTC
65 GCCCTGGCCAACCTC-TC
* * * * * * * *
1118928 TAACTTGTTGGCTTTATCAATTTTGCCCTAGCTAATCTTTCTGAA-TTATT-GATTTCATCAGTT
1 TAACTTATT-GCTTTATCAATTTTGCCCTGGCCAACCTCTCT-AACTTGTTGGCTTT-ATCGGTT
* * ** * *
1118991 TCACCTTGATCGACCGCTC
63 TCGCCCTGGCCAACCTCTC
* * *
1119010 TAACTTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTCTAACTTGTTGCCTTTATCAGTTTC
1 TAACTTATT-GCTTTATCAATTTTGCCCTGGCCAACCTCTCTAACTTGTTGGCTTTATCGGTTTC
*
1119075 GCCCTAGCCAACCTCTC
65 GCCCTGGCCAACCTCTC
* ** * * * * *
1119092 TAA-TTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTCTGACTTGTTGGCTTTATGGGTTT
1 TAACTTA-TTG-CTTTATCAATTTTGCCCTGGCCAACCTCTCTAACTTGTTGGCTTTATCGGTTT
* *
1119156 CGCCTTGGCCAACGTCTC
64 CGCCCTGGCCAACCTCTC
* * ***
1119174 TAA-ATAGTTGATTTTATCAATTTTGCCCTATTCAACC-CTTCTAACTTGTTGGCTTTATCGGTT
1 TAACTTA-TTG-CTTTATCAATTTTGCCCTGGCCAACCTC-TCTAACTTGTTGGCTTTATCGGTT
* * *
1119237 TTGCCTTGGCCAATCTCT
63 TCGCCCTGGCCAACCTCT
1119255 TTCCTAGCTA
Statistics
Matches: 264, Mismatches: 55, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
81 11 0.04
82 247 0.94
83 6 0.02
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.42
Consensus pattern (81 bp):
TAACTTATTGCTTTATCAATTTTGCCCTGGCCAACCTCTCTAACTTGTTGGCTTTATCGGTTTCG
CCCTGGCCAACCTCTC
Found at i:1119312 original size:81 final size:82
Alignment explanation
Indices: 1119021--1119312 Score: 236
Period size: 82 Copynumber: 3.6 Consensus size: 82
1119011 AACTTATTAG
* *** * * * *
1119021 CTTTATCGATTTTGCCCTGGCCAA-CCTCTCTAACTTGTTGCCTTTATCAGTTTCGCCCTAGCCA
1 CTTTATCAATTTTGCCCTATTCAACCCT-TCTAACTTGTTGGCTTTATCGGTTTCGCCTTGGCCA
* * * *
1119085 ACCTCTCTAATTAGTTGA
65 ACGTCTCTAAATAGCTAA
* ** * * * *
1119103 TTTTATTGATTTTGCCC-AGGTCAACCCCTCTGACTTGTTGGCTTTATGGGTTTCGCCTTGGCCA
1 CTTTATCAATTTTGCCCTA-TTCAACCCTTCTAACTTGTTGGCTTTATCGGTTTCGCCTTGGCCA
* *
1119167 ACGTCTCTAAATAGTTGA
65 ACGTCTCTAAATAGCTAA
* *
1119185 TTTTATCAATTTTGCCCTATTCAACCCTTCTAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAA
1 CTTTATCAATTTTGCCCTATTCAACCCTTCTAACTTGTTGGCTTTATCGGTTTCGCCTTGGCCAA
***
1119250 --TCTCTTTCCTAGCTAA
66 CGTCTC-TAAATAGCTAA
** *
1119266 CTTTATCGGTTTTGCTCTAATT-AA-CCTATCTAACTTGTTGGCTTTAT
1 CTTTATCAATTTTGCCCT-ATTCAACCCT-TCTAACTTGTTGGCTTTAT
1119313 TCAACAAGTT
Statistics
Matches: 175, Mismatches: 29, Indels: 13
0.81 0.13 0.06
Matches are distributed among these distances:
80 7 0.04
81 41 0.23
82 124 0.71
83 3 0.02
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (82 bp):
CTTTATCAATTTTGCCCTATTCAACCCTTCTAACTTGTTGGCTTTATCGGTTTCGCCTTGGCCAA
CGTCTCTAAATAGCTAA
Found at i:1119603 original size:41 final size:41
Alignment explanation
Indices: 1119558--1120521 Score: 464
Period size: 41 Copynumber: 23.7 Consensus size: 41
1119548 TTAACCCTTT
* * *
1119558 TAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCTCTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* ** ** * *
1119599 TAACTAGTTGAATTTATTGGTTTCGCCTTGGTCAACC-CTTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTC-TC
* * * * * *
1119640 TAACTTGTTGGCTTTATCAATTTTGCCCTAGCTAATCTTTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* * ** ** * *
1119681 TGAA-TTATT-GATTTCATCAGTTTCACCTTGATCGACCGCTC
1 T-AACTTGTTGGCTTT-ATCAGTTTTGCCTTGGCCAACCTCTC
* * *
1119722 TAACTTATTAGCTTTATC-GATTTTGCCCTGGCCAACCTCTC
1 TAACTTGTTGGCTTTATCAG-TTTTGCCTTGGCCAACCTCTC
* * * *
1119763 TAACTTGTTGCCTTTATCAGTTTCGCCCTAGCCAACCTCTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
** * ** * *
1119804 TAA-TTAGTTGATTTTAT-TGATTTTGCCCAGGTCAACCCCTC
1 TAACTT-GTTGGCTTTATCAG-TTTTGCCTTGGCCAACCTCTC
* *** * *
1119845 TGACTTGTTGGCTTTAAGGGTTTCGCCTTGGCCAACGTCTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* * ** * * ***
1119886 TAAATAGTTGATTTTATCAATTTTGCCCTATTCAACC-CTTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTC-TC
* *
1119927 TAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCT-
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
** * * ** * **** *
1119967 TTCCTAGCTAACTTTATCGGTTTTG-CTCTAATTAACCTATC
1 TAACTTGTTGGCTTTATCAGTTTTGCCT-TGGCCAACCTCTC
** * * *
1120008 TAACTTGTTGGCTTTATTGGTTTTGCCTTGGTCAAACTCTT
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
** * *
1120049 TAACTTGTTGGCTTTATTGGTTTTGCCCTGGCGAACC-CTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* ** * *
1120089 TAACTGGTTAACTTTATCAGTTTTGCCTTAGTCAACC-CTTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTC-TC
* * * * *
1120130 TAACTTGTTGGCTTCATCAATTTCGCCTTAGCTAACCTCTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* * * * * * *
1120171 TAAATGGTTGACTTTATCAATTTTGCC----CAAACCCCTT
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* **
1120208 TAACTTATTGGCTTTATTGGTTTCT-CCTTGGCCAACCTCTC
1 TAACTTGTTGGCTTTATCAGTTT-TGCCTTGGCCAACCTCTC
** * *
1120249 TAAC-TGATTAACTTTATC-GTTTTTGCCTTGGTCAACC-CTTT
1 TAACTTG-TTGGCTTTATCAG-TTTTGCCTTGGCCAACCTC-TC
* * *
1120290 TAACTTGTTAGCTTTATCAGTTTTTCCTTGGCCAACCTCTT
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* * * * * * *
1120331 TAACTGGTTGACGTTATC-GATTTTGCCCTAGTCAACCAC-C
1 TAACTTGTTGGCTTTATCAG-TTTTGCCTTGGCCAACCTCTC
* * * * *
1120371 TTAACTTATTAGCATTATCATTTTTGCCTTAGCCAACCTCTC
1 -TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
* * * *
1120413 TAACTGGTTGACTTTATCAATTTTGCCTTGGTCATA-CTCTC
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCA-ACCTCTC
* ** * *
1120454 TAACTTGTTTGCTTTATTGGGTTTGCCTTAGCCAA-CTACAT-
1 TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCT-C-TC
* *
1120495 TAACTGGTTGACTTTATCAGTTTTGCC
1 TAACTTGTTGGCTTTATCAGTTTTGCC
1120522 CTAGTCAGCC
Statistics
Matches: 674, Mismatches: 211, Indels: 76
0.70 0.22 0.08
Matches are distributed among these distances:
37 25 0.04
38 1 0.00
39 2 0.00
40 76 0.11
41 549 0.81
42 21 0.03
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (41 bp):
TAACTTGTTGGCTTTATCAGTTTTGCCTTGGCCAACCTCTC
Found at i:1119618 original size:82 final size:82
Alignment explanation
Indices: 1119506--1119772 Score: 231
Period size: 82 Copynumber: 3.3 Consensus size: 82
1119496 TATCACCCTA
* * * *
1119506 GCCAACCTTCTTAATTGGTTGATTTGATTGGTTTCG-CTCTGGTTAACCCTTTTAACTTATTGGC
1 GCCAACCTTCTTAACTAGTTGATTTGATTGGTTTCGCCT-TGGTCAACCCTTCTAACTTATTGGC
1119570 TTTATCAATTTTGCTTTG
65 TTTATCAATTTTGCTTTG
*
1119588 GCCAACC-TCTCTAACTAGTTGAATTT-ATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGG
1 GCCAACCTTCT-TAACTAGTTG-ATTTGATTGGTTTCGCCTTGGTCAACCCTTCTAACTTATTGG
** *
1119651 CTTTATCAATTTTGCCCTA
64 CTTTATCAATTTTGCTTTG
* * * * * ** * * * *
1119670 GCTAATCTTTCTGAATTA-TTGATTTCATCAGTTTCACCTTGATCGACCGC-TCTAACTTATTAG
1 GCCAA-CCTTCTTAACTAGTTGATTTGATTGGTTTCGCCTTGGTCAACC-CTTCTAACTTATTGG
* **
1119733 CTTTATCGATTTTGCCCTG
64 CTTTATCAATTTTGCTTTG
*
1119752 GCCAACC-TCTCTAACTTGTTG
1 GCCAACCTTCT-TAACTAGTTG
1119773 CCTTTATCAG
Statistics
Matches: 150, Mismatches: 26, Indels: 18
0.77 0.13 0.09
Matches are distributed among these distances:
80 3 0.02
81 11 0.07
82 121 0.81
83 12 0.08
84 3 0.02
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.43
Consensus pattern (82 bp):
GCCAACCTTCTTAACTAGTTGATTTGATTGGTTTCGCCTTGGTCAACCCTTCTAACTTATTGGCT
TTATCAATTTTGCTTTG
Found at i:1119712 original size:712 final size:712
Alignment explanation
Indices: 1118689--1120025 Score: 2656
Period size: 712 Copynumber: 1.9 Consensus size: 712
1118679 TTAGTCAACC
1118689 CTTATAACTTGCTGGTTTTATCGGTTTCGCCCTAGCCAACCCTTCTAACTTGTTGGCTATATAGG
1 CTTATAACTTGCTGGTTTTATCGGTTTCGCCCTAGCCAACCCTTCTAACTTGTTGGCTATATAGG
1118754 TTTCGCCTCTTAACTTGTTGGTGTAATTGATATCACCCTAGCCAACCTTCTTAATTGGTTGATTT
66 TTTCGCCTCTTAACTTGTTGGTGTAATTGATATCACCCTAGCCAACCTTCTTAATTGGTTGATTT
1118819 GATTGGTTTCGCTCTGGTTAACCCTTTTAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCT
131 GATTGGTTTCGCTCTGGTTAACCCTTTTAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCT
1118884 CTCTAACTAGTTGAATTTATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGGCTTTATCAAT
196 CTCTAACTAGTTGAATTTATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGGCTTTATCAAT
1118949 TTTGCCCTAGCTAATCTTTCTGAATTATTGATTTCATCAGTTTCACCTTGATCGACCGCTCTAAC
261 TTTGCCCTAGCTAATCTTTCTGAATTATTGATTTCATCAGTTTCACCTTGATCGACCGCTCTAAC
1119014 TTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTCTAACTTGTTGCCTTTATCAGTTTCGCCC
326 TTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTCTAACTTGTTGCCTTTATCAGTTTCGCCC
1119079 TAGCCAACCTCTCTAATTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTCTGACTTGTTGG
391 TAGCCAACCTCTCTAATTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTCTGACTTGTTGG
*
1119144 CTTTATGGGTTTCGCCTTGGCCAACGTCTCTAAATAGTTGATTTTATCAATTTTGCCCTATTCAA
456 CTTTAAGGGTTTCGCCTTGGCCAACGTCTCTAAATAGTTGATTTTATCAATTTTGCCCTATTCAA
1119209 CCCTTCTAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCTTTCCTAGCTAACTTTATCG
521 CCCTTCTAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCTTTCCTAGCTAACTTTATCG
1119274 GTTTTGCTCTAATTAACCTATCTAACTTGTTGGCTTTATTCAACAAGTTAACTTGTTGGCTTTAT
586 GTTTTGCTCTAATTAACCTATCTAACTTGTTGGCTTTATTCAACAAGTTAACTTGTTGGCTTTAT
1119339 CTAACTTCTTTCAGTTTTAAAGAAGTCAGCATTTTGAATAGCTTTTCCATTTTCATGCATAA
651 CTAACTTCTTTCAGTTTTAAAGAAGTCAGCATTTTGAATAGCTTTTCCATTTTCATGCATAA
1119401 CTTATAACTTGCTGGTTTTATCGGTTTCGCCCTAGCCAACCCTTCTAACTTGTTGGCTATATAGG
1 CTTATAACTTGCTGGTTTTATCGGTTTCGCCCTAGCCAACCCTTCTAACTTGTTGGCTATATAGG
*
1119466 TTTCGCCTCTTAACTTGTTGGTGTTATTGATATCACCCTAGCCAACCTTCTTAATTGGTTGATTT
66 TTTCGCCTCTTAACTTGTTGGTGTAATTGATATCACCCTAGCCAACCTTCTTAATTGGTTGATTT
1119531 GATTGGTTTCGCTCTGGTTAACCCTTTTAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCT
131 GATTGGTTTCGCTCTGGTTAACCCTTTTAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCT
1119596 CTCTAACTAGTTGAATTTATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGGCTTTATCAAT
196 CTCTAACTAGTTGAATTTATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGGCTTTATCAAT
1119661 TTTGCCCTAGCTAATCTTTCTGAATTATTGATTTCATCAGTTTCACCTTGATCGACCGCTCTAAC
261 TTTGCCCTAGCTAATCTTTCTGAATTATTGATTTCATCAGTTTCACCTTGATCGACCGCTCTAAC
1119726 TTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTCTAACTTGTTGCCTTTATCAGTTTCGCCC
326 TTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTCTAACTTGTTGCCTTTATCAGTTTCGCCC
1119791 TAGCCAACCTCTCTAATTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTCTGACTTGTTGG
391 TAGCCAACCTCTCTAATTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTCTGACTTGTTGG
1119856 CTTTAAGGGTTTCGCCTTGGCCAACGTCTCTAAATAGTTGATTTTATCAATTTTGCCCTATTCAA
456 CTTTAAGGGTTTCGCCTTGGCCAACGTCTCTAAATAGTTGATTTTATCAATTTTGCCCTATTCAA
1119921 CCCTTCTAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCTTTCCTAGCTAACTTTATCG
521 CCCTTCTAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCTTTCCTAGCTAACTTTATCG
1119986 GTTTTGCTCTAATTAACCTATCTAACTTGTTGGCTTTATT
586 GTTTTGCTCTAATTAACCTATCTAACTTGTTGGCTTTATT
1120026 GGTTTTGCCT
Statistics
Matches: 623, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
712 623 1.00
ACGTcount: A:0.19, C:0.23, G:0.15, T:0.42
Consensus pattern (712 bp):
CTTATAACTTGCTGGTTTTATCGGTTTCGCCCTAGCCAACCCTTCTAACTTGTTGGCTATATAGG
TTTCGCCTCTTAACTTGTTGGTGTAATTGATATCACCCTAGCCAACCTTCTTAATTGGTTGATTT
GATTGGTTTCGCTCTGGTTAACCCTTTTAACTTATTGGCTTTATCAATTTTGCTTTGGCCAACCT
CTCTAACTAGTTGAATTTATTGGTTTCGCCTTGGTCAACCCTTCTAACTTGTTGGCTTTATCAAT
TTTGCCCTAGCTAATCTTTCTGAATTATTGATTTCATCAGTTTCACCTTGATCGACCGCTCTAAC
TTATTAGCTTTATCGATTTTGCCCTGGCCAACCTCTCTAACTTGTTGCCTTTATCAGTTTCGCCC
TAGCCAACCTCTCTAATTAGTTGATTTTATTGATTTTGCCCAGGTCAACCCCTCTGACTTGTTGG
CTTTAAGGGTTTCGCCTTGGCCAACGTCTCTAAATAGTTGATTTTATCAATTTTGCCCTATTCAA
CCCTTCTAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCTTTCCTAGCTAACTTTATCG
GTTTTGCTCTAATTAACCTATCTAACTTGTTGGCTTTATTCAACAAGTTAACTTGTTGGCTTTAT
CTAACTTCTTTCAGTTTTAAAGAAGTCAGCATTTTGAATAGCTTTTCCATTTTCATGCATAA
Found at i:1120104 original size:40 final size:41
Alignment explanation
Indices: 1120019--1120134 Score: 110
Period size: 40 Copynumber: 2.9 Consensus size: 41
1120009 AACTTGTTGG
* * * * **
1120019 CTTTATTGGTTTTGCCTTGGTCAAACTCTTTAACTTGTTGG
1 CTTTATTGGTTTTGCCCTGGTCAAACCCTCTAACTGGTTAA
*
1120060 CTTTATTGGTTTTGCCCTGG-CGAACCCTCTAACTGGTTAA
1 CTTTATTGGTTTTGCCCTGGTCAAACCCTCTAACTGGTTAA
** * *
1120100 CTTTATCAGTTTTGCCTTAGTC-AACCCTTCTAACT
1 CTTTATTGGTTTTGCCCTGGTCAAACCC-TCTAACT
1120135 TGTTGGCTTC
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
40 35 0.56
41 27 0.44
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (41 bp):
CTTTATTGGTTTTGCCCTGGTCAAACCCTCTAACTGGTTAA
Found at i:1120158 original size:122 final size:122
Alignment explanation
Indices: 1119927--1120158 Score: 272
Period size: 122 Copynumber: 1.9 Consensus size: 122
1119917 TCAACCCTTC
* * ** *
1119927 TAACTTGTTGGCTTTATCGGTTTTGCCTTGGCCAATCTCTTTCCTAGCTAACTTTATCGGTTTTG
1 TAACTTGTTGGCTTTATCGGTTTTGCCCTGGCCAACCTCTTAACTAGCTAACTTTATCAGTTTTG
* * *** *
1119992 CTCTAATTAACCTATCTAACTTGTTGGCTTTATTGGTTTTGCCTTGGTCAAACTCTT
66 CTCTAATCAACCTATCTAACTTGTTGGCTTCATCAATTTCGCCTTGGTCAAACTCTT
* * * *
1120049 TAACTTGTTGGCTTTATTGGTTTTGCCCTGGCGAACC-CTCTAACTGGTTAACTTTATCAGTTTT
1 TAACTTGTTGGCTTTATCGGTTTTGCCCTGGCCAACCTCT-TAACTAGCTAACTTTATCAGTTTT
*
1120113 GC-CTTAGTCAACCCT-TCTAACTTGTTGGCTTCATCAATTTCGCCTT
65 GCTC-TAATCAA-CCTATCTAACTTGTTGGCTTCATCAATTTCGCCTT
1120159 AGCTAACCTC
Statistics
Matches: 91, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
121 3 0.03
122 85 0.93
123 3 0.03
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.44
Consensus pattern (122 bp):
TAACTTGTTGGCTTTATCGGTTTTGCCCTGGCCAACCTCTTAACTAGCTAACTTTATCAGTTTTG
CTCTAATCAACCTATCTAACTTGTTGGCTTCATCAATTTCGCCTTGGTCAAACTCTT
Found at i:1120539 original size:41 final size:39
Alignment explanation
Indices: 1120249--1120593 Score: 137
Period size: 41 Copynumber: 8.5 Consensus size: 39
1120239 CCAACCTCTC
* * * * *
1120249 TAACTGATTAACTTTATCGTTTTTGCCTTGGTCAACCCTTT
1 TAACTGGTTGACTTTATCGATTTTGCCCTAGTCAA--CTTT
* * * * *
1120290 TAACTTGTT-AGCTTTATC-AGTTTTTCCTTGGCCAACCTCTT
1 TAACTGGTTGA-CTTTATCGA-TTTTGCCCTAGTCAA-CT-TT
* **
1120331 TAACTGGTTGACGTTATCGATTTTGCCCTAGTCAACCACCT
1 TAACTGGTTGACTTTATCGATTTTGCCCTAGTCAA-C-TTT
** * * * *
1120372 TAACTTATT-AGCATTATC-ATTTTTGCCTTAGCCAACCTCTC
1 TAACTGGTTGA-CTTTATCGA-TTTTGCCCTAGTCAA-CT-TT
* * * *
1120413 TAACTGGTTGACTTTATCAATTTTGCCTTGGTCATACTCTC
1 TAACTGGTTGACTTTATCGATTTTGCCCTAGTCA-ACT-TT
* * ** * * *
1120454 TAACTTGTTTG-CTTTATTGGGTTTGCCTTAGCCAACTACAT
1 TAAC-TGGTTGACTTTATCGATTTTGCCCTAGTCAACT--TT
*
1120495 TAACTGGTTGACTTTATC-AGTTTTGCCCTAGTCAGCCCTTT
1 TAACTGGTTGACTTTATCGA-TTTTGCCCTAGTCA--ACTTT
* *
1120536 TAACTTGTT-AGCTTTATCGATTTTGCCCTAGTTAACTTT
1 TAACTGGTTGA-CTTTATCGATTTTGCCCTAGTCAACTTT
*
1120575 TGAACTGGTTGATTTTATC
1 T-AACTGGTTGACTTTATC
1120594 CCTAATCAAC
Statistics
Matches: 234, Mismatches: 48, Indels: 45
0.72 0.15 0.14
Matches are distributed among these distances:
39 5 0.02
40 28 0.12
41 188 0.80
42 11 0.05
43 2 0.01
ACGTcount: A:0.20, C:0.22, G:0.14, T:0.43
Consensus pattern (39 bp):
TAACTGGTTGACTTTATCGATTTTGCCCTAGTCAACTTT
Found at i:1120551 original size:123 final size:121
Alignment explanation
Indices: 1120249--1120562 Score: 294
Period size: 123 Copynumber: 2.5 Consensus size: 121
1120239 CCAACCTCTC
* *
1120249 TAACTGATTAACTTTATC-GTTTTTGCCTTGGTCAACCCTTTTAACTTGTTAGCTTTATCAGTTT
1 TAACTGATT-ACTTTATCAG-TTTTGCCTTAGTC-ACCCTTTTAACTTGTTAGCTTTATCAATTT
* * * * *
1120313 TTCCTTGGCCAACCTCTTTAACTGGTTGACGTTATCGATTTTGCCCTAGTCAACCACCT
63 TGCCTTGGCCAACCTCTCTAACTGGTTGACGTTATCGAGTTTGCCCTAGCCAACCACAT
* * * * * * *
1120372 TAACTTATTAGCATTATCATTTTTGCCTTAGCCAACCTCTCTAACTGGTT-GACTTTATCAATTT
1 TAACTGATTA-CTTTATCAGTTTTGCCTTAGTCACCCT-TTTAACTTGTTAG-CTTTATCAATTT
* * * * * * *
1120436 TGCCTTGGTCATA-CTCTCTAACTTGTTTG-CTTTATTGGGTTTGCCTTAGCCAACTACAT
63 TGCCTTGGCCA-ACCTCTCTAAC-TGGTTGACGTTATCGAGTTTGCCCTAGCCAACCACAT
* * *
1120495 TAACTGGTTGACTTTATCAGTTTTGCCCTAGTCAGCCCTTTTAACTTGTTAGCTTTATCGATTTT
1 TAACTGATT-ACTTTATCAGTTTTGCCTTAGTCA-CCCTTTTAACTTGTTAGCTTTATCAATTTT
1120560 GCC
64 GCC
1120563 CTAGTTAACT
Statistics
Matches: 151, Mismatches: 31, Indels: 18
0.75 0.16 0.09
Matches are distributed among these distances:
122 6 0.04
123 134 0.89
124 11 0.07
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.43
Consensus pattern (121 bp):
TAACTGATTACTTTATCAGTTTTGCCTTAGTCACCCTTTTAACTTGTTAGCTTTATCAATTTTGC
CTTGGCCAACCTCTCTAACTGGTTGACGTTATCGAGTTTGCCCTAGCCAACCACAT
Found at i:1120562 original size:164 final size:162
Alignment explanation
Indices: 1120008--1120562 Score: 529
Period size: 164 Copynumber: 3.4 Consensus size: 162
1119998 TTAACCTATC
* * ** * * * * * * *
1120008 TAACTTGTTGGCTTTATTGGTTTTGCCTTGGTCAAACTCTTTAACTTGTTGGCTTTATTGGTTTT
1 TAACTGGTTGACTTTATCAGTTTTGCCCTAGTC-AACCCTTTAACTTATTAGCTTTATCGATTTT
* * * *
1120073 GCCCTGGCGAACC-CTCTAACTGGTTAACTTTATCAGTTTTGCCTTAGTCAACCCTTCTAACTTG
65 GCCTTGGCCAACCTCTCTAACTGGTTAACTTTATCAATTTTGCCTTGGTCAACCCTTCTAACTTG
* * * *
1120137 TTGGCTTCATCA-ATTTCGCCTTAGCTAACCTCT
130 TTAGCTTTATTAGATTT-GCCTTAGCCAACCTCT
* * * * *
1120170 CTAAATGGTTGACTTTATCAATTTTGCCC-A---AACCCCTTTAACTTATTGGCTTTATTGGTTT
1 -TAACTGGTTGACTTTATCAGTTTTGCCCTAGTCAA-CCCTTTAACTTATTAGCTTTATCGATTT
* ** *
1120231 CT-CCTTGGCCAACCTCTCTAACTGATTAACTTTATCGTTTTTGCCTTGGTCAACCCTTTTAACT
64 -TGCCTTGGCCAACCTCTCTAACTGGTTAACTTTATCAATTTTGCCTTGGTCAACCCTTCTAACT
* * * *
1120295 TGTTAGCTTTATCAGTTTTTCCTTGGCCAACCTCTT
128 TGTTAGCTTTATTAGATTTGCCTTAGCCAACCTC-T
* * *
1120331 TAACTGGTTGACGTTATC-GATTTTGCCCTAGTCAACCACCTTAACTTATTAGCATTATC-ATTT
1 TAACTGGTTGACTTTATCAG-TTTTGCCCTAGTCAACC-CTTTAACTTATTAGCTTTATCGA-TT
* * *
1120394 TTGCCTTAGCCAACCTCTCTAACTGGTTGACTTTATCAATTTTGCCTTGGTCATACTC-TCTAAC
63 TTGCCTTGGCCAACCTCTCTAACTGGTTAACTTTATCAATTTTGCCTTGGTCA-ACCCTTCTAAC
* * *
1120458 TTGTTTGCTTTATTGGGTTTGCCTTAGCCAA-CTACAT
127 TTGTTAGCTTTATTAGATTTGCCTTAGCCAACCT-C-T
* *
1120495 TAACTGGTTGACTTTATCAGTTTTGCCCTAGTCAGCCCTTTTAACTTGTTAGCTTTATCGATTTT
1 TAACTGGTTGACTTTATCAGTTTTGCCCTAGTCAACCC-TTTAACTTATTAGCTTTATCGATTTT
1120560 GCC
65 GCC
1120563 CTAGTTAACT
Statistics
Matches: 324, Mismatches: 50, Indels: 35
0.79 0.12 0.09
Matches are distributed among these distances:
158 2 0.01
159 36 0.11
160 93 0.29
161 5 0.02
163 27 0.08
164 156 0.48
165 5 0.02
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.43
Consensus pattern (162 bp):
TAACTGGTTGACTTTATCAGTTTTGCCCTAGTCAACCCTTTAACTTATTAGCTTTATCGATTTTG
CCTTGGCCAACCTCTCTAACTGGTTAACTTTATCAATTTTGCCTTGGTCAACCCTTCTAACTTGT
TAGCTTTATTAGATTTGCCTTAGCCAACCTCT
Found at i:1121741 original size:145 final size:144
Alignment explanation
Indices: 1121482--1121752 Score: 427
Period size: 145 Copynumber: 1.9 Consensus size: 144
1121472 CGTAGTACTT
*
1121482 TTTCATGAATCAAATTGAAAATATTTTGAAAAATATTAAATTAATTTTCTTACCTCTTATTCTCA
1 TTTCATGAATCAAATTGAAAATATTTTAAAAAATATTAAATTAATTTTCTTACCTCTTATTCTCA
* * *
1121547 AAAATAATGTTTTAAATGAATATTTATACTTAGAATATTTTTTAGACAAGTTTAAGCGATTATTT
66 AAAATAATATTTCAAATGAAAATTTATACTTAGAATATTTTTTAGACAAGTTTAAGCGATTATTT
1121612 CTAAACTTAGTATC
131 CTAAACTTAGTATC
* * * * *
1121626 TTTCTTGAATTAAATTGAAAATATTTTAAAAAATATTAAATTACTTTTTTTACCTCTAATTTTCT
1 TTTCATGAATCAAATTGAAAATATTTTAAAAAATATTAAATTAATTTTCTTACCTCT--TATTCT
*
1121691 C-AAAATAATATTTCAAATGAAAATTTATACTTAGAATATTTTTTAGACAAGTTTAAGTGATT
64 CAAAAATAATATTTCAAATGAAAATTTATACTTAGAATATTTTTTAGACAAGTTTAAGCGATT
1121753 TTCAAGCCAA
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
144 52 0.45
145 57 0.50
146 6 0.05
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (144 bp):
TTTCATGAATCAAATTGAAAATATTTTAAAAAATATTAAATTAATTTTCTTACCTCTTATTCTCA
AAAATAATATTTCAAATGAAAATTTATACTTAGAATATTTTTTAGACAAGTTTAAGCGATTATTT
CTAAACTTAGTATC
Found at i:1124018 original size:24 final size:24
Alignment explanation
Indices: 1123991--1124042 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
1123981 TTATGGATTT
1123991 TATTGATATATTTGACTTTTGTTG
1 TATTGATATATTTGACTTTTGTTG
1124015 TATTGATATATTTGACTTTTGTTG
1 TATTGATATATTTGACTTTTGTTG
1124039 TATT
1 TATT
1124043 TTTGTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.04, G:0.15, T:0.60
Consensus pattern (24 bp):
TATTGATATATTTGACTTTTGTTG
Found at i:1134311 original size:19 final size:20
Alignment explanation
Indices: 1134248--1134322 Score: 125
Period size: 20 Copynumber: 3.8 Consensus size: 20
1134238 CTGCCGATTT
*
1134248 CATGTATCAATACAATTGGG
1 CATGTATCGATACAATTGGG
1134268 CATGTATCGATACAATTGGG
1 CATGTATCGATACAATTGGG
*
1134288 CATGTATCGATACAA-TGAG
1 CATGTATCGATACAATTGGG
1134307 CATGTATCGATACAAT
1 CATGTATCGATACAAT
1134323 ATATTGATAC
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
19 18 0.35
20 34 0.65
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (20 bp):
CATGTATCGATACAATTGGG
Done.