Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold330
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: 1763736
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 9 of 14
Found at i:1025037 original size:92 final size:92
Alignment explanation
Indices: 1024889--1025459 Score: 618
Period size: 92 Copynumber: 6.1 Consensus size: 92
1024879 TTCTTTAAAT
* * * * *
1024889 ATCTTCTT-AAAGTCCATGACTCAGTGGCATATTTTTTCTTCAAAGTCCATGACTCAGTGGCAAT
1 ATCTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTT-TCCAAAGTCCACGACTCAGTGGCAAT
1024953 CTCTTCTCAAAGCCCACAACTCAGTGGC
65 CTCTTCTCAAAGCCCACAACTCAGTGGC
* *
1024981 AT-TTTGTCCCAAAGTCCACGACTAAGTGGCAT-TTTTTTTCCAAAGTCCACGACTCAGTGGCAA
1 ATCTTT-T-TCAAAGTCCACGACTCAGTGGCATCTTTTTTTCCAAAGTCCACGACTCAGTGGCAA
* *
1025044 TCTCTTTTCAAAGTCCACAACTCAGTGGC
64 TCTCTTCTCAAAGCCCACAACTCAGTGGC
* * *
1025073 ATCTCTTTTCTAAGTCCACGACTTAGTGGCATC-TCTTTTCTCAAAGTCCACGACTCAGTGGC-A
1 ATCT-TTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTTC-CAAAGTCCACGACTCAGTGGCAA
* * ** *
1025136 TCTTTTTTCTTCAAAGTCCATGACTTAGTGGC
64 TC--TCTTC-TCAAAGCCCACAACTCAGTGGC
*
1025168 AATCTTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCA
1 -ATC-TTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTT-TCCAAAGTCCACGACTCAGTGGCA
*
1025233 ATCTCTTCTCAAAGCCCACGACTCAGTGGC
63 ATCTCTTCTCAAAGCCCACAACTCAGTGGC
** * *
1025263 ATCTTGTCCCAAAGTCCACGACTCACTGGCAT-TTTTTCTCCAAAGTCCACGACTCAGTGGCAAT
1 ATCTT-TTTCAAAGTCCACGACTCAGTGGCATCTTTTTTTCCAAAGTCCACGACTCAGTGGCAAT
* *
1025327 CTCTTTTCAAAGTCCACAACTCAGTGGC
65 CTCTTCTCAAAGCCCACAACTCAGTGGC
* * * * *
1025355 ATCTCTTTTCTAAGTCCACGACTTAGTGGCATCCTTTTCTTCC-AAGTCCACAACTTAGTGGC-A
1 ATCT-TTTTCAAAGTCCACGACTCAGTGGCAT-CTTTTTTTCCAAAGTCCACGACTCAGTGGCAA
* * * *
1025418 TCTTTTTTCTTTAAAGCCCACAACACCGTGGC
64 TC--TCTTC-TCAAAGCCCACAACTCAGTGGC
1025450 ATTCTTTTTC
1 A-TCTTTTTC
1025460 CTTTTAAGTC
Statistics
Matches: 408, Mismatches: 48, Indels: 43
0.82 0.10 0.09
Matches are distributed among these distances:
91 2 0.00
92 163 0.40
93 54 0.13
94 61 0.15
95 62 0.15
96 36 0.09
97 26 0.06
98 4 0.01
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (92 bp):
ATCTTTTTCAAAGTCCACGACTCAGTGGCATCTTTTTTTCCAAAGTCCACGACTCAGTGGCAATC
TCTTCTCAAAGCCCACAACTCAGTGGC
Found at i:1025404 original size:282 final size:282
Alignment explanation
Indices: 1024897--1025433 Score: 950
Period size: 282 Copynumber: 1.9 Consensus size: 282
1024887 ATATCTTCTT
* *
1024897 AAAGTCCATGACTCAGTGGCATATTTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCA
1 AAAGTCCACGACTCAGTGGCATATTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
* * *
1024962 AAGCCCACAACTCAGTGGCATTTTGTCCCAAAGTCCACGACTAAGTGGCATTTTTTTTCCAAAGT
66 AAGCCCACAACTCAGTGGCATCTTGTCCCAAAGTCCACGACTAACTGGCATTTTTTCTCCAAAGT
1025027 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
131 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
*
1025092 GACTTAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCAT
196 GACTTAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCAT
1025157 GACTTAGTGGCAATCTTTTTTC
261 GACTTAGTGGCAATCTTTTTTC
*
1025179 AAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
1 AAAGTCCACGACTCAGTGGCATATTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
* *
1025244 AAGCCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCACTGGCATTTTTTCTCCAAAGT
66 AAGCCCACAACTCAGTGGCATCTTGTCCCAAAGTCCACGACTAACTGGCATTTTTTCTCCAAAGT
1025309 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
131 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
* * *
1025374 GACTTAGTGGCATC-CTTTTCTTCCAAGTCCACAACTTAGTGGCATCTTTTTTCTTTAAAG
196 GACTTAGTGGCATCTCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAG
1025434 CCCACAACAC
Statistics
Matches: 242, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
281 6 0.02
282 236 0.98
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.32
Consensus pattern (282 bp):
AAAGTCCACGACTCAGTGGCATATTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
AAGCCCACAACTCAGTGGCATCTTGTCCCAAAGTCCACGACTAACTGGCATTTTTTCTCCAAAGT
CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
GACTTAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGTCCAT
GACTTAGTGGCAATCTTTTTTC
Found at i:1025473 original size:34 final size:33
Alignment explanation
Indices: 1025336--1025666 Score: 222
Period size: 27 Copynumber: 10.6 Consensus size: 33
1025326 TCTCTTTTCA
*
1025336 AAGTCCACAACTCAGTGGCATCTCTTTT-C---T
1 AAGTCCACAACTCCGTGGCATCT-TTTTCCTTTT
* ** * **
1025366 AAGTCCACGACTTAGTGGCATCCTTTT-CTTCC
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
** * *
1025398 AAGTCCACAACTTAGTGGCATCTTTTTTCTTTA
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* *
1025431 AAGCCCACAACACCGTGGCATTCTTTTTCCTTTT
1 AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
1025465 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
1025492 AAGTCCACAACTCCGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * **
1025519 AAGTCCACAACGCCGTGGCACCTTTTTTTTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
*
1025552 AAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTT
1 -AAGTCCACAACTCCGTGGCA-TCTTTTTCCTTTT
* **
1025587 AAGTCCATAACTTTGTGGCA-C-----CCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1025614 AAGTCCACAACTCCTTAGCATCTTTCTCCTTTT
1 AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
* * *
1025647 AAGCCCACAAGTCAGTGGCA
1 AAGTCCACAACTCCGTGGCA
1025667 CCCTTTTCAA
Statistics
Matches: 244, Mismatches: 38, Indels: 35
0.77 0.12 0.11
Matches are distributed among these distances:
27 73 0.30
28 2 0.01
29 5 0.02
30 20 0.08
32 27 0.11
33 44 0.18
34 63 0.26
35 10 0.04
ACGTcount: A:0.22, C:0.31, G:0.14, T:0.34
Consensus pattern (33 bp):
AAGTCCACAACTCCGTGGCATCTTTTTCCTTTT
Found at i:1025508 original size:61 final size:60
Alignment explanation
Indices: 1025426--1025673 Score: 238
Period size: 61 Copynumber: 4.1 Consensus size: 60
1025416 CATCTTTTTT
* *
1025426 CTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
1 CTTTTAAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
* *
1025487 CTTTTAAGTCCACAACTCCGTGGCA-C-----CCTTTTAAGTCCACAACGCCGTGGCACC
1 CTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
* * **
1025541 TTTTTTTTTTTAAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTAAGTCCATAACTTTGTGGC
1 ------CTTTT-AAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCGTGGC
1025606 ACC
58 ACC
* * * * * * *
1025609 CTTTTAAGTCCACAACTCCTTAGCATCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCACC
1 CTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
1025669 CTTTT
1 CTTTT
1025674 CAAAAGGCCA
Statistics
Matches: 153, Mismatches: 20, Indels: 29
0.76 0.10 0.14
Matches are distributed among these distances:
54 27 0.18
59 1 0.01
60 38 0.25
61 58 0.38
62 4 0.03
63 1 0.01
68 24 0.16
ACGTcount: A:0.21, C:0.32, G:0.13, T:0.34
Consensus pattern (60 bp):
CTTTTAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCGTGGCACC
Found at i:1025576 original size:122 final size:121
Alignment explanation
Indices: 1025398--1025627 Score: 370
Period size: 122 Copynumber: 1.9 Consensus size: 121
1025388 CTTTTCTTCC
** *
1025398 AAGTCCACAACTTAGTGGCATCTTTTTTCTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCTT
1 AAGTCCACAACGCAGTGGCACCTTTTTTCTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCTT
1025463 TTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
66 TTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
* * *
1025519 AAGTCCACAACGCCGTGGCACCTTTTTTTTTTTAAAGCCCACAACTCCGTGGCATTCTTTTTCCT
1 AAGTCCACAACGCAGTGGCACC-TTTTTTCTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCT
* **
1025584 TTTAAGTCCATAACTTTGTGGCACCCTTTTAAGTCCACAACTCC
65 TTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCC
1025628 TTAGCATCTT
Statistics
Matches: 99, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
121 18 0.18
122 81 0.82
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (121 bp):
AAGTCCACAACGCAGTGGCACCTTTTTTCTTTAAAGCCCACAACACCGTGGCATTCTTTTTCCTT
TTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACTCCGTGGCACCCTTTT
Found at i:1025593 original size:282 final size:280
Alignment explanation
Indices: 1024897--1025511 Score: 772
Period size: 282 Copynumber: 2.2 Consensus size: 280
1024887 ATATCTTCTT
** * ** ** *
1024897 AAAGTCCATGACTCAGTGGCATATTTTTTCTTCAAAGTCCATGACTCAGTGGCAATCTCTTCTCA
1 AAAGTCCACAACTCAGTGGCAT-CTCCTTCTT-AAAGTCCACAACTCAGTGGCAATCCCTTCTCA
* * * * * * *
1024962 AAGCCCACAACTCAGTGGCATTTTGTCCCAAAGTCCACGACTAAGTGGCATTTTTTTTCCAAAGT
64 AAGCCCACAACGCAGTGGCATCTTGTCCCAAAGCCCACAACTCACTGGCATTTTTTCTCCAAAGT
1025027 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
129 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
* * *
1025092 GACTTAGTGGCATCTCTTTTCTCAAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCAT
194 GACTTAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGCCCAC
* **
1025157 GACTTAGTGGCAATCTTTTTTC
259 AACACAGTGGCAATCTTTTTTC
* ** * *
1025179 AAAGTCCACGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTCAGTGGCAATCTCTTCTCA
1 AAAGTCCACAACTCAGTGGCATC-TCCTTCTT-AAAGTCCACAACTCAGTGGCAATCCCTTCTCA
* * * *
1025244 AAGCCCACGACTCAGTGGCATCTTGTCCCAAAGTCCACGACTCACTGGCATTTTTTCTCCAAAGT
64 AAGCCCACAACGCAGTGGCATCTTGTCCCAAAGCCCACAACTCACTGGCATTTTTTCTCCAAAGT
1025309 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
129 CCACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCAC
* * *
1025374 GACTTAGTGGCATC-CTTTTCTTCCAAGTCCACAACTTAGTGGCATCTTTTTTCTTTAAAGCCCA
194 GACTTAGTGGCATCTCTTTTC-TCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGCCCA
* * *
1025438 CAACACCGTGGCATTCTTTTTCCTTT
258 CAACACAGTGGCAATC-TTTT--TTC
* * *
1025464 TAAGTCCACAACTCCGTGGCA-C-CCTT-TT-AAGTCCACAACTCCGTGGCA
1 AAAGTCCACAACTCAGTGGCATCTCCTTCTTAAAGTCCACAACTCAGTGGCA
1025512 CCCTTTTAAG
Statistics
Matches: 301, Mismatches: 27, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
279 18 0.06
281 8 0.03
282 250 0.83
283 4 0.01
284 1 0.00
285 20 0.07
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (280 bp):
AAAGTCCACAACTCAGTGGCATCTCCTTCTTAAAGTCCACAACTCAGTGGCAATCCCTTCTCAAA
GCCCACAACGCAGTGGCATCTTGTCCCAAAGCCCACAACTCACTGGCATTTTTTCTCCAAAGTCC
ACGACTCAGTGGCAATCTCTTTTCAAAGTCCACAACTCAGTGGCATCTCTTTTCTAAGTCCACGA
CTTAGTGGCATCTCTTTTCTCAAAGTCCACAACTCAGTGGCATCTTTTTTCTTCAAAGCCCACAA
CACAGTGGCAATCTTTTTTC
Found at i:1025644 original size:60 final size:62
Alignment explanation
Indices: 1025548--1025673 Score: 157
Period size: 60 Copynumber: 2.1 Consensus size: 62
1025538 ACCTTTTTTT
* * * * **
1025548 TTTTAAAGCCCACAACTCCGTGGCATTCTTTTTCCTTTTAAGTCCATAACTTTGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTAGCATTCTTTCTCCTTTTAAGCCCACAACTCAGTGGCACCC
* * *
1025610 TTTT-AAGTCCACAACTCCTTAGCA-TCTTTCTCCTTTTAAGCCCACAAGTCAGTGGCACCC
1 TTTTAAAGCCCACAACTCCGTAGCATTCTTTCTCCTTTTAAGCCCACAACTCAGTGGCACCC
1025670 TTTT
1 TTTT
1025674 CAAAAGGCCA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
60 34 0.62
61 17 0.31
62 4 0.07
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (62 bp):
TTTTAAAGCCCACAACTCCGTAGCATTCTTTCTCCTTTTAAGCCCACAACTCAGTGGCACCC
Found at i:1025647 original size:95 final size:94
Alignment explanation
Indices: 1025486--1025666 Score: 245
Period size: 95 Copynumber: 1.9 Consensus size: 94
1025476 TCCGTGGCAC
* * **
1025486 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACGCCGTGGCACCTTTTTTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACGCCGTAGCACCTTTCTCCTTT
*
1025551 TAAAGCCCACAACTCCGTGGCATTCTTTTT
66 T-AAGCCCACAACTCAGTGGCATTCTTTTT
* ** * * *
1025581 CCTTTTAAGTCCATAACTTTGTGGCACCCTTTTAAGTCCACAACTCCTTAGCATCTTTCTCCTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACGCCGTAGCACCTTTCTCCTTT
*
1025646 TAAGCCCACAAGTCAGTGGCA
66 TAAGCCCACAACTCAGTGGCA
1025667 CCCTTTTCAA
Statistics
Matches: 74, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
94 18 0.24
95 56 0.76
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (94 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGTCCACAACGCCGTAGCACCTTTCTCCTTT
TAAGCCCACAACTCAGTGGCATTCTTTTT
Found at i:1025715 original size:28 final size:29
Alignment explanation
Indices: 1025653--1025747 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 29
1025643 TTTTAAGCCC
* *
1025653 ACAAGTCAGTGGCACCCTTTTCAAAAGGC-C
1 ACAAGTCAGTGGCAACC-TTTCAAAA-GCAT
1025683 ACAAGTCAGTGGCAACCTTT-AAAAGCAT
1 ACAAGTCAGTGGCAACCTTTCAAAAGCAT
**
1025711 ACAAGTTGGT-GCAACCCTTTCAAAAGCCCAT
1 ACAAGTCAGTGGCAA-CCTTTCAAAAG--CAT
1025742 ACAAGT
1 ACAAGT
1025748 TGGTGACGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
27 6 0.11
28 17 0.30
29 8 0.14
30 16 0.29
31 9 0.16
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.21
Consensus pattern (29 bp):
ACAAGTCAGTGGCAACCTTTCAAAAGCAT
Found at i:1025744 original size:31 final size:27
Alignment explanation
Indices: 1025694--1025752 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 27
1025684 CAAGTCAGTG
1025694 GCAACCTTTAAAAGCATACAAGTTGGT
1 GCAACCTTTAAAAGCATACAAGTTGGT
1025721 GCAACCCTTTCAAAAGCCCATACAAGTTGGT
1 GCAA-CCTTT-AAAAG--CATACAAGTTGGT
1025752 G
1 G
1025753 ACGTCTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
27 4 0.14
28 5 0.18
29 5 0.18
31 14 0.50
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (27 bp):
GCAACCTTTAAAAGCATACAAGTTGGT
Found at i:1025937 original size:48 final size:48
Alignment explanation
Indices: 1025781--1026586 Score: 516
Period size: 48 Copynumber: 17.4 Consensus size: 48
1025771 CGTTGGCTTC
* * *
1025781 GAATTAGCACATTGGCACCTTCATCTTTAAG-TCTAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTT-GTCTTTAAGATC-AATATCGCTGGCCTT
*
1025830 GAATCAGCATATTGGCACCTT-TACTATCT-TGAGTCCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGT-CT-T-TAAGA-T-CAATATCGCTGGCCTT
* * *
1025881 GAATCAACATATTGGCACCTTGTCTTAAAGATCAATGTCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* * **
1025929 GAATCAACACATTGGCA------C---AAGCCCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* * * *
1025968 GAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCGTTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* * **
1026016 GAATCAGCACATTTGCA------C---AAGCCCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* * *
1026055 GAATCAGCATATTGGCACCTTGTCTTTATGACCAATGTCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* * * **
1026103 GAATCAACACATTAGCA-CAAGTC--T-AG-----TATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* **
1026142 GAATCAGCACATTGGCA------C---AAGCCCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
1026181 GAATCAGCATATTGGCACCTTGTCTTTAAGA-CTAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATC-AATATCGCTGGCCTT
*
1026229 GAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
* *
1026277 GAATCAGCATATTGTCACCTTTGTCATCTTTAAG-TCCAATGTCGCTGGCCTT
1 GAATCAGCATATTGGCACC-TTG---TCTTTAAGAT-CAATATCGCTGGCCTT
1026329 GAATCAGCATATTGGCA------C---AAG-TCCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACCTTGTCTTTAAGAT-CAATATCGCTGGCCTT
* * *
1026368 GAATCAGCATATTGGCGCCTTTGTCAACTTTAAG-TCCAATGTCGTTGGCCTT
1 GAATCAGCATATTGGCACC-TTGT---CTTTAAGAT-CAATATCGCTGGCCTT
* * **
1026420 GAATCAGTACATTGGCACCATCATCTTTAAG-TCCAATATCGCTGGCCTT
1 GAATCAGCATATTGGCACC-TTGTCTTTAAGAT-CAATATCGCTGGCCTT
* ** * **
1026469 GAATCAACATATTGGCGGCTTCGTCATCTTTAAGACCAATGCCGCTGGCCTT
1 GAATCAGCATATTGGCACCTT-G---TCTTTAAGATCAATATCGCTGGCCTT
* * * **
1026521 GAATCAGTACATTGGCATCTTCAG-CTTTAAG-TCCAATATCATTGGCCTT
1 GAATCAGCATATTGGCACCTT--GTCTTTAAGAT-CAATATCGCTGGCCTT
1026570 GAATCAGCATATTGGCA
1 GAATCAGCATATTGGCA
1026587 TCTTTAACAT
Statistics
Matches: 611, Mismatches: 78, Indels: 136
0.74 0.09 0.16
Matches are distributed among these distances:
34 3 0.00
39 157 0.26
42 3 0.00
44 1 0.00
45 4 0.01
47 6 0.01
48 180 0.29
49 98 0.16
50 4 0.01
51 38 0.06
52 116 0.19
53 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (48 bp):
GAATCAGCATATTGGCACCTTGTCTTTAAGATCAATATCGCTGGCCTT
Found at i:1025972 original size:39 final size:39
Alignment explanation
Indices: 1025913--1026198 Score: 248
Period size: 39 Copynumber: 6.9 Consensus size: 39
1025903 TCTTAAAGAT
* *
1025913 CAATGTCGCTGGCCTTGAATCAACACATTGGCACAAGCC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCC
* **
1025952 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAAC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCA------C---AAGCC
* * *
1026000 CAATGTCGTTGGCCTTGAATCAGCACATTTGCACAAGCC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCC
* * *
1026039 CAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTATGAC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCA------C---AAGCC
* * * *
1026087 CAATGTCGCTGGCCTTGAATCAACACATTAGCACAAGTC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCC
* *
1026126 TAGTATCGCTGGCCTTGAATCAGCACATTGGCACAAGCC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCC
*
1026165 CAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1 CAATATCGCTGGCCTTGAATCAGCACATTGGCAC
1026199 CTTGTCTTTA
Statistics
Matches: 197, Mismatches: 32, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
39 129 0.65
42 2 0.01
45 2 0.01
48 64 0.32
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (39 bp):
CAATATCGCTGGCCTTGAATCAGCACATTGGCACAAGCC
Found at i:1026013 original size:87 final size:87
Alignment explanation
Indices: 1025864--1026282 Score: 514
Period size: 87 Copynumber: 4.8 Consensus size: 87
1025854 TATCTTGAGT
* * *
1025864 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTAAAGATCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1025929 GAATCAACACATTGGCACAAGC
66 GAATCAACACATTGGCACAAGC
* *
1025951 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAAACCAATGTCGTTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1026016 GAATCAGCACATTTGCACAAGC
66 GAATCAACACATTGGCACAAGC
*
1026038 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTATGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1026103 GAATCAACACATTAGCACAAGT
66 GAATCAACACATTGGCACAAGC
* * * * *
1026125 CTAGTATCGCTGGCCTTGAATCAGCACATTGGCA------C---AAGCCCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * *
1026181 GAATCAGCATATTGGCACCTTGTCTTTAAGA
66 GAATCAACACATTGGCA------C---AAGC
* *
1026212 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
1026277 GAATCA
66 GAATCA
1026283 GCATATTGTC
Statistics
Matches: 288, Mismatches: 26, Indels: 27
0.84 0.08 0.08
Matches are distributed among these distances:
78 32 0.11
81 1 0.00
84 1 0.00
87 227 0.79
93 1 0.00
96 26 0.09
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAACACATTGGCACAAGC
Found at i:1026158 original size:174 final size:167
Alignment explanation
Indices: 1025864--1026383 Score: 531
Period size: 174 Copynumber: 3.0 Consensus size: 167
1025854 TATCTTGAGT
* * *
1025864 CCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTGTCTTAAAGATCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* *
1025929 GAATCAACACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTT
66 GAATCAACACATTAGCACAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C--
* * * *
1025994 TAAAACCAATGTCGTTGGCCTTGAATCAGCACATTTGCA-C-AAGC
123 -AAAACCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTAAGA
*
1026038 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTATGACCAATGTCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * * **
1026103 GAATCAACACATTAGCACAAGTCTAGTATCGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAA
66 GAATCAACACATTAGCACAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAAACCAA
*
1026168 TATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
131 TATCGCTGGCCTTGAATCAGCACATTGGCA-----TC--TAAGA
* *
1026212 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
* * * * *
1026277 GAATCAGCATATTGTCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATT
66 GAAT---CA-A----CACATTAG-CA-C---AAGCCCAATATCGCTGGCCTTGAATCAGCACATT
** *
1026342 GGCACAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
118 GGCACAAAACCAATATCGCTGGCCTTGAATCAGCACATTGGC
1026384 GCCTTTGTCA
Statistics
Matches: 298, Mismatches: 26, Indels: 31
0.84 0.07 0.09
Matches are distributed among these distances:
165 32 0.11
168 1 0.00
171 1 0.00
174 181 0.61
177 2 0.01
178 1 0.00
182 6 0.02
183 2 0.01
184 1 0.00
187 71 0.24
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (167 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTT
GAATCAACACATTAGCACAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCACAAAACCAA
TATCGCTGGCCTTGAATCAGCACATTGGCATCTAAGA
Found at i:1026329 original size:52 final size:48
Alignment explanation
Indices: 1026164--1026586 Score: 416
Period size: 52 Copynumber: 8.7 Consensus size: 48
1026154 TGGCACAAGC
1026164 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
*
1026212 CTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
* *
1026260 CCAATATCGCTGGCCTTGAATCAGCATATTGTCACCTTTGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTG---TCTTTAAGA
* *
1026312 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA------C---AAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
* *
1026351 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT---CTTTAAGA
* * * * ** *
1026403 CCAATGTCGTTGGCCTTGAATCAGTACATTGGCACCATCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTCTTTAAGA
* **
1026452 CCAATATCGCTGGCCTTGAATCAACATATTGGCGGCTTCGTCATCTTTAAGA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGA
** * * * *
1026504 CCAATGCCGCTGGCCTTGAATCAGTACATTGGCATCTTCAG-CTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT--GTCTTTAAGA
**
1026553 CCAATATCATTGGCCTTGAATCAGCATATTGGCA
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1026587 TCTTTAACAT
Statistics
Matches: 312, Mismatches: 41, Indels: 43
0.79 0.10 0.11
Matches are distributed among these distances:
39 36 0.12
42 1 0.00
48 82 0.26
49 76 0.24
52 116 0.37
53 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (48 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGA
Found at i:1026362 original size:39 final size:39
Alignment explanation
Indices: 1026308--1026383 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
1026298 TGTCATCTTT
*
1026308 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1026347 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1026384 GCCTTTGTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (39 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
Found at i:1026417 original size:91 final size:93
Alignment explanation
Indices: 1026131--1026585 Score: 449
Period size: 101 Copynumber: 4.7 Consensus size: 93
1026121 AAGTCTAGTA
* *
1026131 TCGCTGGCCTTGAATCAGCACATTGGCA-C-AAGCCCAATATCGCTGGCCTTGAATCAGCATATT
1 TCGCTGGCCTTGAATCAGTACATTGGCATCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
* * * *
1026194 GGCACC-TTG---TCTTTAAGACTAATA
66 GGCGCCTTTGTCATCTTTAAGTCCAATG
* * *
1026218 TCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCA
1 TCGCTGGCCTTGAATCAGTACATTGGCA-----TC--TAAGTCCAATATCGCTGGCCTTGAATCA
* *
1026283 GCATATTGTCACCTTTGTCATCTTTAAGTCCAATG
59 GCATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
* *
1026318 TCGCTGGCCTTGAATCAGCATATTGGCA-C-AAGTCCAATATCGCTGGCCTTGAATCAGCATATT
1 TCGCTGGCCTTGAATCAGTACATTGGCATCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
*
1026381 GGCGCCTTTGTCAACTTTAAGTCCAATG
66 GGCGCCTTTGTCATCTTTAAGTCCAATG
*
1026409 TCGTTGGCCTTGAATCAGTACATTGGCACCATCATCTTTAAGTCCAATATCGCTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGTACATTGG------CATC--TAAGTCCAATATCGCTGGCCTTGAATC
* * * *
1026474 AACATATTGGCGGCTTCGTCATCTTTAAGACCAATG
58 AGCATATTGGCGCCTTTGTCATCTTTAAGTCCAATG
* **
1026510 CCGCTGGCCTTGAATCAGTACATTGGCATCTTCAGCTTTAAGTCCAATATCATTGGCCTTGAATC
1 TCGCTGGCCTTGAATCAGTACATTGGCA---T---C--TAAGTCCAATATCGCTGGCCTTGAATC
1026575 AGCATATTGGC
58 AGCATATTGGC
1026586 ATCTTTAACA
Statistics
Matches: 316, Mismatches: 23, Indels: 44
0.83 0.06 0.11
Matches are distributed among these distances:
87 27 0.09
91 81 0.26
93 1 0.00
94 1 0.00
95 2 0.01
96 38 0.12
97 5 0.02
98 2 0.01
100 40 0.13
101 119 0.38
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.31
Consensus pattern (93 bp):
TCGCTGGCCTTGAATCAGTACATTGGCATCTAAGTCCAATATCGCTGGCCTTGAATCAGCATATT
GGCGCCTTTGTCATCTTTAAGTCCAATG
Found at i:1026466 original size:140 final size:137
Alignment explanation
Indices: 1026214--1026484 Score: 391
Period size: 140 Copynumber: 1.9 Consensus size: 137
1026204 CTTTAAGACT
1026214 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGA
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGA
* * * * *
1026279 ATCAGCATATTGTCACCTTTGTCATCTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGG
66 ATCAGCACATTGGCACC--TATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGG
1026344 CACAAGTCC
129 CACAAGTCC
* * * *
1026353 AATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTTAAGTCCAATGTCGTTGGCC
1 AATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGT---CTTTAAGACCAATATCGCTGGCC
*
1026418 TTGAATCAGTACATTGGCACC-ATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATT
62 TTGAATCAGCACATTGGCACCTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATT
1026482 GGC
127 GGC
1026485 GGCTTCGTCA
Statistics
Matches: 118, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
139 33 0.28
140 47 0.40
143 38 0.32
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (137 bp):
AATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATATCGCTGGCCTTGA
ATCAGCACATTGGCACCTATCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCA
CAAGTCC
Found at i:1026524 original size:192 final size:187
Alignment explanation
Indices: 1026132--1026537 Score: 587
Period size: 192 Copynumber: 2.1 Consensus size: 187
1026122 AGTCTAGTAT
1026132 CGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 CGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * **
1026197 ACCTTGTCTTTAAGACTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACC
66 ACCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACC
* * * * *
1026262 AATATCGCTGGCCTTGAATCAGCATATTGTCACCTTTGTCATCTTTAAGTCCAATGT
131 AATATCGCTGGCCTTGAATCAACATATTGGCACCTTCGTCATCTTTAAGACCAATGC
* *
1026319 CGCTGGCCTTGAATCAGCATATTGGCACAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGC
1 CGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
* * * * *
1026384 GCCTTTGTCAACTTTAAGTCCAATGTCGTTGGCCTTGAATCAGTACATTGGCACCATCATCTTTA
66 ACC-TTGT---CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TCATCTTTA
* **
1026449 AGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGGCTTCGTCATCTTTAAGACCAATGC
126 AGACCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTCGTCATCTTTAAGACCAATGC
*
1026511 CGCTGGCCTTGAATCAGTACATTGGCA
1 CGCTGGCCTTGAATCAGCACATTGGCA
1026538 TCTTCAGCTT
Statistics
Matches: 193, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
187 65 0.34
188 4 0.02
191 38 0.20
192 86 0.45
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (187 bp):
CGCTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGC
ACCTTGTCTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCATCTTTAAGACC
AATATCGCTGGCCTTGAATCAACATATTGGCACCTTCGTCATCTTTAAGACCAATGC
Found at i:1026587 original size:49 final size:49
Alignment explanation
Indices: 1026347--1026590 Score: 254
Period size: 49 Copynumber: 4.9 Consensus size: 49
1026337 ATATTGGCAC
* * *
1026347 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAACTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATT-G-GCATCT-TCATCTTT
* * * * * *
1026399 AAGTCCAATGTCGTTGGCCTTGAATCAGTACATTGGCACCATCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
* * *
1026448 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGGCTTCGTCATCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATT---GGCATCTTCATCTTT
* ** * * *
1026500 AAGACCAATGCCGCTGGCCTTGAATCAGTACATTGGCATCTTCAGCTTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
**
1026549 AAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCATCTT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTT
1026591 TAACATTCCT
Statistics
Matches: 156, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
49 83 0.53
50 2 0.01
51 1 0.01
52 70 0.45
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (49 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTT
Found at i:1026634 original size:101 final size:100
Alignment explanation
Indices: 1026347--1026682 Score: 349
Period size: 101 Copynumber: 3.4 Consensus size: 100
1026337 ATATTGGCAC
*
1026347 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGTCAAC-TT-TAAGTCCAATGT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCC-TT-T-AACATTCTAAGACCAATGT
* * *
1026410 CGTTGGCCTTGAATCAGTACATTGGCACCATCATCTTT
63 CGTTGGCCTTGAATCAGTACATTGGCATCTTCAGCTTT
* * *** * *
1026448 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCGGCTTCGTCATCTTTAAGACCAATGCCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTAACAT-TCTAAGACCAATGTCG
*
1026513 CTGGCCTTGAATCAGTACATTGGCATCTTCAGCTTT
65 TTGGCCTTGAATCAGTACATTGGCATCTTCAGCTTT
** ** *
1026549 AAGTCCAATATCATTGGCCTTGAATCAGCATATTGGCATCTTTAACATTCCTAAGCCCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTAACATT-CTAAGACCAATGTCG
** * * *
1026614 TTGGCCTTGTCTTAGCACATTGGCATTCTTCTGC---
65 TTGGCCTTGAATCAGTACATTGGCA-TCTTCAGCTTT
* * * *
1026648 AAGTCTAATGTCGCTGGCCATGAATCAGCACATTG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
1026683 TCATTCTTCG
Statistics
Matches: 196, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
98 1 0.01
99 30 0.15
100 4 0.02
101 154 0.79
102 7 0.04
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (100 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTAACATTCTAAGACCAATGTCGT
TGGCCTTGAATCAGTACATTGGCATCTTCAGCTTT
Found at i:1027470 original size:19 final size:21
Alignment explanation
Indices: 1027424--1027477 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
1027414 TTTCAACAAT
1027424 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACAAACAGTAA
* *
1027445 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAACAGTAA
1027464 TTGTATCGATACAA
1 TTGTATCGATACAA
1027478 TGTATCGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (21 bp):
TTGTATCGATACAAACAGTAA
Found at i:1027530 original size:20 final size:20
Alignment explanation
Indices: 1027505--1027610 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
1027495 ACTGCCTAGG
1027505 CAATGTATCGATACATTATT
1 CAATGTATCGATACATTATT
1027525 CAATGTATCGATACATTGA-T
1 CAATGTATCGATACATT-ATT
** *
1027545 CTTTGTATCGATACATCGAGAATTTT
1 CAATGTATCGATACAT------TATT
1027571 ACCTAGATGTATCGATACATTATT
1 --C-A-ATGTATCGATACATTATT
1027595 CAATGTATCGATACAT
1 CAATGTATCGATACAT
1027611 ACAAGCAAAT
Statistics
Matches: 68, Mismatches: 6, Indels: 24
0.69 0.06 0.24
Matches are distributed among these distances:
20 46 0.68
21 2 0.03
22 1 0.01
24 3 0.04
26 2 0.03
28 1 0.01
30 13 0.19
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
CAATGTATCGATACATTATT
Found at i:1031680 original size:15 final size:15
Alignment explanation
Indices: 1031662--1031693 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
1031652 TTCATCCGAG
1031662 TCACCATCATCATCA
1 TCACCATCATCATCA
*
1031677 TCACCATCATTATCA
1 TCACCATCATCATCA
1031692 TC
1 TC
1031694 TTCATCATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (15 bp):
TCACCATCATCATCA
Found at i:1033431 original size:19 final size:19
Alignment explanation
Indices: 1033385--1033440 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1033375 CTGCTAGTTT
**
1033385 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1033405 CGTGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1033424 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1033441 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1033443 original size:13 final size:13
Alignment explanation
Indices: 1033425--1033451 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1033415 TACAATGAAC
1033425 ATGTATCGATACA
1 ATGTATCGATACA
1033438 ATGTATCGATACA
1 ATGTATCGATACA
1033451 A
1 A
1033452 GGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1034543 original size:13 final size:13
Alignment explanation
Indices: 1034525--1034551 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1034515 ACATTATGCT
1034525 TTGTATCGATACA
1 TTGTATCGATACA
1034538 TTGTATCGATACA
1 TTGTATCGATACA
1034551 T
1 T
1034552 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1034566 original size:32 final size:33
Alignment explanation
Indices: 1034506--1034570 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1034496 CACACCCAGA
*
1034506 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
1034539 TGTATCGATACA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
1034571 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:1034581 original size:20 final size:19
Alignment explanation
Indices: 1034535--1034591 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1034525 TTGTATCGAT
**
1034535 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
1034554 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1034573 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1034592 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1034652 original size:13 final size:14
Alignment explanation
Indices: 1034634--1034665 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1034624 ATCGATACAT
1034634 GATACAATT-TATC
1 GATACAATTGTATC
1034647 GATAC-ATTGTATC
1 GATACAATTGTATC
1034660 GATACA
1 GATACA
1034666 TGATGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 14 0.82
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (14 bp):
GATACAATTGTATC
Found at i:1034662 original size:33 final size:33
Alignment explanation
Indices: 1034620--1034686 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1034610 CTACCACTGT
1034620 TTGTATCGATACATGATACAATT-TATCGATACA
1 TTGTATCGATACATGAT-CAATTGTATCGATACA
*
1034653 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATCAATTGTATCGATACA
1034686 T
1 T
1034687 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATCAATTGTATCGATACA
Found at i:1041416 original size:19 final size:19
Alignment explanation
Indices: 1041370--1041425 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1041360 CTGCTAGTTT
**
1041370 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1041390 CGTGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1041409 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1041426 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1041428 original size:13 final size:13
Alignment explanation
Indices: 1041410--1041436 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1041400 TACAATGAAC
1041410 ATGTATCGATACA
1 ATGTATCGATACA
1041423 ATGTATCGATACA
1 ATGTATCGATACA
1041436 A
1 A
1041437 GGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1042528 original size:13 final size:13
Alignment explanation
Indices: 1042510--1042536 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1042500 ACATTATGCT
1042510 TTGTATCGATACA
1 TTGTATCGATACA
1042523 TTGTATCGATACA
1 TTGTATCGATACA
1042536 T
1 T
1042537 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1042551 original size:32 final size:33
Alignment explanation
Indices: 1042491--1042555 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1042481 CACACCCAGA
*
1042491 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
1042524 TGTATCGATACA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
1042556 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:1042566 original size:20 final size:19
Alignment explanation
Indices: 1042520--1042576 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1042510 TTGTATCGAT
**
1042520 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
1042539 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1042558 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1042577 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1042637 original size:13 final size:14
Alignment explanation
Indices: 1042619--1042650 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1042609 ATCGATACAT
1042619 GATACAATT-TATC
1 GATACAATTGTATC
1042632 GATAC-ATTGTATC
1 GATACAATTGTATC
1042645 GATACA
1 GATACA
1042651 TGATGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 14 0.82
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (14 bp):
GATACAATTGTATC
Found at i:1042647 original size:33 final size:33
Alignment explanation
Indices: 1042605--1042671 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1042595 CTACCACTGT
1042605 TTGTATCGATACATGATACAATT-TATCGATACA
1 TTGTATCGATACATGAT-CAATTGTATCGATACA
*
1042638 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATCAATTGTATCGATACA
1042671 T
1 T
1042672 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATCAATTGTATCGATACA
Found at i:1049401 original size:19 final size:19
Alignment explanation
Indices: 1049355--1049410 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
1049345 CTGCTAGTTT
**
1049355 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
1049375 CGTGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
1049394 CATGTATCGATACAATG
1 CATGTATCGATACAATG
1049411 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1049413 original size:13 final size:13
Alignment explanation
Indices: 1049395--1049421 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1049385 TACAATGAAC
1049395 ATGTATCGATACA
1 ATGTATCGATACA
1049408 ATGTATCGATACA
1 ATGTATCGATACA
1049421 A
1 A
1049422 GGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1050513 original size:13 final size:13
Alignment explanation
Indices: 1050495--1050521 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1050485 ACATTATGCT
1050495 TTGTATCGATACA
1 TTGTATCGATACA
1050508 TTGTATCGATACA
1 TTGTATCGATACA
1050521 T
1 T
1050522 ATTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1050536 original size:32 final size:33
Alignment explanation
Indices: 1050476--1050540 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
1050466 CACACCCAGA
*
1050476 TGTATCGATACATTATGCTTTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
*
1050509 TGTATCGATACA-TATTCATTGTATCGATACAT
1 TGTATCGATACATTATGCATTGTATCGATACAT
1050541 GGACAATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 18 0.60
33 12 0.40
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATGCATTGTATCGATACAT
Found at i:1050551 original size:20 final size:19
Alignment explanation
Indices: 1050505--1050561 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
1050495 TTGTATCGAT
**
1050505 ACATTGTATCGATACATAT
1 ACATTGTATCGATACATGG
*
1050524 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
1050543 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
1050562 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:1050622 original size:13 final size:14
Alignment explanation
Indices: 1050604--1050635 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
1050594 ATCGATACAT
1050604 GATACAATT-TATC
1 GATACAATTGTATC
1050617 GATAC-ATTGTATC
1 GATACAATTGTATC
1050630 GATACA
1 GATACA
1050636 TGATGAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 14 0.82
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (14 bp):
GATACAATTGTATC
Found at i:1050632 original size:33 final size:33
Alignment explanation
Indices: 1050590--1050656 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
1050580 CTACCACTGT
1050590 TTGTATCGATACATGATACAATT-TATCGATACA
1 TTGTATCGATACATGAT-CAATTGTATCGATACA
*
1050623 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATCAATTGTATCGATACA
1050656 T
1 T
1050657 AGCTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 4 0.12
33 28 0.88
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (33 bp):
TTGTATCGATACATGATCAATTGTATCGATACA
Found at i:1058227 original size:22 final size:21
Alignment explanation
Indices: 1058202--1058249 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
1058192 AACTTTTACA
1058202 TTTGACAAAGGGGGAGAAATGT
1 TTTGACAAAGGGGGAGAAAT-T
**
1058224 TTTGATTAAGGGGGAGAAATT
1 TTTGACAAAGGGGGAGAAATT
1058245 TTTGA
1 TTTGA
1058250 TTAAGGAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.33, C:0.02, G:0.33, T:0.31
Consensus pattern (21 bp):
TTTGACAAAGGGGGAGAAATT
Found at i:1058273 original size:19 final size:18
Alignment explanation
Indices: 1058236--1058274 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
1058226 TGATTAAGGG
*
1058236 GGAGAAATTTTTGATTAA
1 GGAGAAATTTTTAATTAA
1058254 GGAGAAATTCTTTAATTAA
1 GGAGAAATT-TTTAATTAA
1058273 GG
1 GG
1058275 GGGAGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.23, T:0.36
Consensus pattern (18 bp):
GGAGAAATTTTTAATTAA
Found at i:1058282 original size:22 final size:21
Alignment explanation
Indices: 1058209--1058282 Score: 100
Period size: 22 Copynumber: 3.6 Consensus size: 21
1058199 ACATTTGACA
1058209 AAGGGGGAGAAATGTTTTGATT
1 AAGGGGGAGAAAT-TTTTGATT
1058231 AAGGGGGAGAAATTTTTGATT
1 AAGGGGGAGAAATTTTTGATT
*
1058252 AA---GGAGAAATTCTTTAATT
1 AAGGGGGAGAAATT-TTTGATT
1058271 AAGGGGGAGAAA
1 AAGGGGGAGAAA
1058283 AATGAAAACT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
18 9 0.19
19 8 0.17
21 10 0.21
22 20 0.43
ACGTcount: A:0.38, C:0.01, G:0.32, T:0.28
Consensus pattern (21 bp):
AAGGGGGAGAAATTTTTGATT
Found at i:1058862 original size:19 final size:19
Alignment explanation
Indices: 1058834--1058889 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1058824 TTGTATAAAT
* *
1058834 ACATTATATCGATACATAT
1 ACATTGTATCGATACATAG
* *
1058853 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATAG
1058872 ACAATTGTATCGATACAT
1 AC-ATTGTATCGATACAT
1058890 GAGTTTGGCA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATAG
Found at i:1058945 original size:20 final size:20
Alignment explanation
Indices: 1058920--1058985 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
1058910 TACCACTGTT
1058920 TGTATCGATACATGATACAA
1 TGTATCGATACATGATACAA
1058940 TGTATCGATAC---AT----
1 TGTATCGATACATGATACAA
1058953 TGTATCGATACATGATACAA
1 TGTATCGATACATGATACAA
1058973 TGTATCGATACAT
1 TGTATCGATACAT
1058986 TGTATCGATA
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
16 2 0.05
17 2 0.05
20 24 0.62
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATGATACAA
Found at i:1058961 original size:33 final size:33
Alignment explanation
Indices: 1058919--1059018 Score: 166
Period size: 33 Copynumber: 3.0 Consensus size: 33
1058909 CTACCACTGT
1058919 TTGTATCGATACATGATACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
1058952 TTGTATCGATACATGATACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
* *
1058985 TTGTATCGATACATGATGA-ATTGTATTGATACA
1 TTGTATCGATACATGAT-ACAATGTATCGATACA
1059018 T
1 T
1059019 AGCTTGTAAC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 63 0.98
34 1 0.02
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATACA
Found at i:1058998 original size:13 final size:13
Alignment explanation
Indices: 1058933--1058998 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
1058923 ATCGATACAT
*
1058933 GATACAATGTATC
1 GATACATTGTATC
1058946 GATACATTGTATC
1 GATACATTGTATC
1058959 GATAC-----AT-
1 GATACATTGTATC
*
1058966 GATACAATGTATC
1 GATACATTGTATC
1058979 GATACATTGTATC
1 GATACATTGTATC
1058992 GATACAT
1 GATACAT
1058999 GATGAATTGT
Statistics
Matches: 45, Mismatches: 2, Indels: 12
0.76 0.03 0.20
Matches are distributed among these distances:
7 5 0.11
8 2 0.04
12 2 0.04
13 36 0.80
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (13 bp):
GATACATTGTATC
Found at i:1064201 original size:16 final size:16
Alignment explanation
Indices: 1064176--1064207 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1064166 GATGAAAAGA
*
1064176 ATTTTTTTATTATTTT
1 ATTTTGTTATTATTTT
1064192 ATTTTGTTATTATTTT
1 ATTTTGTTATTATTTT
1064208 GTTATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (16 bp):
ATTTTGTTATTATTTT
Found at i:1064204 original size:11 final size:11
Alignment explanation
Indices: 1064190--1064215 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
1064180 TTTTATTATT
1064190 TTATTTTGTTA
1 TTATTTTGTTA
1064201 TTATTTTGTTA
1 TTATTTTGTTA
1064212 TTAT
1 TTAT
1064216 ATTTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (11 bp):
TTATTTTGTTA
Found at i:1065227 original size:31 final size:31
Alignment explanation
Indices: 1065156--1065215 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
1065146 CTGATGTGTT
* *
1065156 CGTGGAAGCTGGAAGAGGCTCGAGCTGCTGC
1 CGTGGAAGCTGAAAGAGGCTCGAGCTACTGC
*
1065187 CATGGAAGCTGAAAGAGGCTCGAGCTACT
1 CGTGGAAGCTGAAAGAGGCTCGAGCTACT
1065216 AGCGTGCAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.25, C:0.22, G:0.37, T:0.17
Consensus pattern (31 bp):
CGTGGAAGCTGAAAGAGGCTCGAGCTACTGC
Found at i:1065811 original size:31 final size:31
Alignment explanation
Indices: 1065761--1065826 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
1065751 TTCTTTCCAT
* *
1065761 TTGCTTGTGTCCCCTATGATTACATGCTGCA
1 TTGCATGTGTCCCCTATGATTACATGCTACA
*
1065792 TTGCATGTGTCTCCC-ATGATTGCATGCTACA
1 TTGCATGTGTC-CCCTATGATTACATGCTACA
1065823 TTGC
1 TTGC
1065827 CCTGCATGCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.17, C:0.26, G:0.20, T:0.38
Consensus pattern (31 bp):
TTGCATGTGTCCCCTATGATTACATGCTACA
Found at i:1066477 original size:42 final size:42
Alignment explanation
Indices: 1066431--1067313 Score: 734
Period size: 42 Copynumber: 21.3 Consensus size: 42
1066421 AGTCTTCAAG
* * * *
1066431 GTCAAAGCCGACAGGCAAACTAAGGGTAGAAAAGTTTCCAGA
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * * * * * *
1066473 GTC-AAGACTGATAGGCAGGCTAAAGGTAGAAAAGCCTCCAGG
1 GTCAAAG-CCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * * *
1066515 GTTAAAGTCGACAGGCAGACTAAGGGTAGAAAATTCTCCA-A
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * * *
1066556 GGTC-AAGTCGACGGGCCGACTGAGGGAA-AAAAGTCTCCA-A
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * * *
1066596 GGTCAAAGCCAACAGGTAGACTGAGGGTAGGAAAGTCTCCAGG
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * *
1066639 GTCAAAGTCGACAGGCAAACTAAGGGTAGGAAAGTCTCCA-A
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* *
1066680 GGTCAAA-CCGATAGGCAG-CTTAAGGGTAA-GAAAGTCTCCAGG
1 -GTCAAAGCCGACAGGCAGAC-TAAGGG-AAGGAAAGTCTCCAGA
* * * *
1066722 GTCAAAGTCGACAAGAAGACTAAGGGTAGGAAAGTCTCCATG-
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCA-GA
** * * *
1066764 GTCAAAGCTAAC-GGCAGACTAAGGGAAGGAAGGTCTTCAGG
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * **
1066805 GTCAAAGCCGATAGGTAGACTAAGGGAAAAAAAGTCTCCA-A
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
** * * * * *
1066846 GGTCAAAGTTGACAGGCAGACTGAGGGTAGTAATGTCTCGA-A
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * *
1066888 GGTCAAAGCCGACAGGTAGAC-----GAAGGAAAGTCTCTAGG
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
*
1066926 GTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCA-A
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * * *
1066967 GGTCAAAGTCGACAAGCAGACTAAGGGAATGAAAGTCTCTAGG
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
1067010 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCA-A
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * *
1067051 GGTCAAAGTCGAAAAGCAGACTAAGGGAAGGAAAGTCTCCAGG
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * * *
1067094 GTCAAAGCTGACAGGTAGACTATGGGAAGGAAAGTCTCTAGG
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * * *
1067136 GTCAAAGTCGAAAGGCAGACTAAGGGAAAGAAAGTCTCCAGG
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
1067178 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCA-A
1 GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* * **
1067219 GGTCAAAGCTGACAAGCAGACTAAGGGAAGGAAAGTCTTTA-A
1 -GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
* ** *
1067261 GGTCAAAGCC-A-ATGGCAGACTAAGAGAAGGAAAGTCTATAGG
1 -GTCAAAGCCGACA-GGCAGACTAAGGGAAGGAAAGTCTCCAGA
1067303 GTCAAAGCCGA
1 GTCAAAGCCGA
1067314 TAGGTTGAAT
Statistics
Matches: 682, Mismatches: 128, Indels: 62
0.78 0.15 0.07
Matches are distributed among these distances:
37 30 0.04
40 18 0.03
41 138 0.20
42 491 0.72
43 5 0.01
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.14
Consensus pattern (42 bp):
GTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAGA
Found at i:1066561 original size:84 final size:84
Alignment explanation
Indices: 1066421--1067297 Score: 872
Period size: 84 Copynumber: 10.6 Consensus size: 84
1066411 TAAATGAGGC
* * * * * * *
1066421 AGTCTTCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGAAAAGTTTCC-AGAGTC-AAGACTGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAG-GTCAAAGTC-GA
* * * *
1066484 TAGGCAGGCTAAAGGTAGAAA
64 CAGGCAGACTAAGGGAAGAAA
* * * * * * *
1066505 AGCCTCCAGGGTTAAAGTCGACAGGCAGACTAAGGGTAGAAAATTCTCCAAGGTC-AAGTCGACG
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
* *
1066569 GGCCGACTGAGGGAA-AAA
66 GGCAGACTAAGGGAAGAAA
* * * * * *
1066587 AGTCTCCAAGGTCAAAGCCAACAGGTAGACTGAGGGTAGGAAAGTCTCCAGGGTCAAAGTCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
* * *
1066652 GGCAAACTAAGGGTAGGAA
66 GGCAGACTAAGGGAAGAAA
* * *
1066671 AGTCTCCAAGGTCAAA-CCGATAGGCAG-CTTAAGGGTAA-GAAAGTCTCCAGGGTCAAAGTCGA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGAC-TAAGGG-AAGGAAAGTCTCCAAGGTCAAAGTCGA
* * * *
1066733 CAAGAAGACTAAGGGTAGGAA
64 CAGGCAGACTAAGGGAAGAAA
* ** * * * * *
1066754 AGTCTCCATGGTCAAAGCTAAC-GGCAGACTAAGGGAAGGAAGGTCTTCAGGGTCAAAGCCGATA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
* *
1066818 GGTAGACTAAGGGAAAAAA
66 GGCAGACTAAGGGAAGAAA
* ** * * * * * *
1066837 AGTCTCCAAGGTCAAAGTTGACAGGCAGACTGAGGGTAGTAATGTCTCGAAGGTCAAAGCCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
* *
1066902 GGTAGAC-----GAAGGAA
66 GGCAGACTAAGGGAAGAAA
* *
1066916 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTCGACA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
*
1066981 AGCAGACTAAGGGAATG-AA
66 GGCAGACTAAGGGAA-GAAA
* *
1067000 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
* *
1067065 AGCAGACTAAGGGAAGGAA
66 GGCAGACTAAGGGAAGAAA
* * * * * *
1067084 AGTCTCCAGGGTCAAAGCTGACAGGTAGACTATGGGAAGGAAAGTCTCTAGGGTCAAAGTCGAAA
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
1067149 GGCAGACTAAGGGAA-AGAA
66 GGCAGACTAAGGGAAGA-AA
1067168 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAG-CTGAC
1 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTC-GAC
* *
1067232 AAGCAGACTAAGGGAAGGAA
65 AGGCAGACTAAGGGAAGAAA
** * *
1067252 AGTCTTTAAGGTCAAAGCC-A-ATGGCAGACTAAGAGAAGGAAAGTCT
1 AGTCTCCAGGGTCAAAGCCGACA-GGCAGACTAAGGGAAGGAAAGTCT
1067298 ATAGGGTCAA
Statistics
Matches: 673, Mismatches: 100, Indels: 41
0.83 0.12 0.05
Matches are distributed among these distances:
79 65 0.10
82 52 0.08
83 193 0.29
84 360 0.53
85 3 0.00
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (84 bp):
AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAGTCGACA
GGCAGACTAAGGGAAGAAA
Found at i:1067097 original size:126 final size:126
Alignment explanation
Indices: 1066421--1067313 Score: 911
Period size: 126 Copynumber: 7.2 Consensus size: 126
1066411 TAAATGAGGC
* * * * *
1066421 AGTCTTCAAGGTCAAAGCCGACAGGCAAACTAAGGGTAGAAAAGTTTCC-AGAGTC-AAGACTGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAG-GTCAAAGTC-GA
* * * * * * * * * * *
1066484 TAGGCAGGCTAAAGGTAGAAAAGCCTCCAGGGTTAAAGTCGACAGGCAGACTAAGGGTAGAAA
64 CAAGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * * * *
1066547 ATTCTCCAAGGTC-AAGTCGACGGGCCGACTGAGGGAA-AAAAGTCTCCAAGGTCAAAGCCAACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTCGACA
* * * * * * *
1066610 GGTAGACTGAGGGTAGGAAAGTCTCCAGGGTCAAAGTCGACAGGCAAACTAAGGGTAGGAA
66 AGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
1066671 AGTCTCCAAGGTCAAA-CCGATAGGCAG-CTTAAGGGTAAG-AAAGTCTCCAGGGTCAAAGTCGA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGAC-TAAGGG-AAGAAAAGTCTCCAAGGTCAAAGTCGA
* * * **
1066733 CAAGAAGACTAAGGGTAGGAAAGTCTCCATGGTCAAAGCTAAC-GGCAGACTAAGGGAAGGAA
64 CAAGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * * * *
1066795 GGTCTTCAGGGTCAAAGCCGATAGGTAGACTAAGGGAAAAAAAGTCTCCAAGGTCAAAGTTGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTCGACA
* * * * * * * *
1066860 GGCAGACTGAGGGTAGTAATGTCTCGAAGGTCAAAGCCGACAGGTAGAC-----GAAGGAA
66 AGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
1066916 AGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTCGACA
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTCGACA
* *
1066981 AGCAGACTAAGGGAATGAAAGTCTCTAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
66 AGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* * * * *
1067042 AGTCTCCAAGGTCAAAGTCGAAAAGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAG-CTGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTC-GAC
* * * * * * *
1067106 AGGTAGACTATGGGAAGGAAAGTCTCTAGGGTCAAAGTCGAAAGGCAGACTAAGGGAAAGAA
65 AAGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
* *
1067168 AGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAAAGTCTCCAAGGTCAAAG-CTGAC
1 AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTC-GAC
** * *
1067232 AAGCAGACTAAGGGAAGGAAAGTCTTTAAGGTCAAAGCC-A-ATGGCAGACTAAGAGAAGGAA
65 AAGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACA-GGCAGACTAAGGGAAGGAA
** *
1067293 AGTCTATAGGGTCAAAGCCGA
1 AGTCTCCAAGGTCAAAGCCGA
1067314 TAGGTTGAAT
Statistics
Matches: 649, Mismatches: 101, Indels: 35
0.83 0.13 0.04
Matches are distributed among these distances:
121 105 0.16
123 1 0.00
124 123 0.19
125 193 0.30
126 227 0.35
ACGTcount: A:0.37, C:0.18, G:0.30, T:0.15
Consensus pattern (126 bp):
AGTCTCCAAGGTCAAAGCCGACAGGCAGACTAAGGGAAGAAAAGTCTCCAAGGTCAAAGTCGACA
AGCAGACTAAGGGAAGGAAAGTCTCCAGGGTCAAAGCCGACAGGCAGACTAAGGGAAGGAA
Found at i:1080904 original size:32 final size:32
Alignment explanation
Indices: 1080868--1080932 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
1080858 CAATTGCTAG
1080868 AGCTGCTA-TTGTTCAATGCTGTCGCTACTGGA
1 AGCTGCTATTTG-TCAATGCTGTCGCTACTGGA
* ** *
1080900 AGCTGCTGTTTGTGGATGCTGTCGCTGCTGGA
1 AGCTGCTATTTGTCAATGCTGTCGCTACTGGA
1080932 A
1 A
1080933 TATTCGCGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 25 0.89
33 3 0.11
ACGTcount: A:0.15, C:0.20, G:0.31, T:0.34
Consensus pattern (32 bp):
AGCTGCTATTTGTCAATGCTGTCGCTACTGGA
Found at i:1081036 original size:21 final size:21
Alignment explanation
Indices: 1080988--1081064 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 21
1080978 AGCTGCTATG
*
1080988 GTGTTCATGGATGCTACTGCTACC
1 GTGTTCGTGGATGCTACTG---CC
1081012 GTGTTCGTGGATGCTACTGCC
1 GTGTTCGTGGATGCTACTGCC
* *
1081033 GTGTTCGTGGATGCTGCTGCT
1 GTGTTCGTGGATGCTACTGCC
1081054 GTGTTCGTGGA
1 GTGTTCGTGGA
1081065 AGCTGGAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
21 32 0.64
24 18 0.36
ACGTcount: A:0.10, C:0.21, G:0.34, T:0.35
Consensus pattern (21 bp):
GTGTTCGTGGATGCTACTGCC
Found at i:1081093 original size:31 final size:32
Alignment explanation
Indices: 1081058--1081147 Score: 121
Period size: 31 Copynumber: 2.9 Consensus size: 32
1081048 GCTGCTGTGT
*
1081058 TCGTGGAAGCTGGAAGAGGCTCGAGCTGC-CG
1 TCGTGGAAGCTGGAAGAGGCTCGAGCTGCTAG
*
1081089 TCGTGGAAGCTGGAAGAGGCTTGAGCTGCTAG
1 TCGTGGAAGCTGGAAGAGGCTCGAGCTGCTAG
* * *
1081121 -CGTGAAAGCTGGATGAAGCTCGAGCTG
1 TCGTGGAAGCTGGAAGAGGCTCGAGCTG
1081148 TTGGTTTCGG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
31 51 0.98
32 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.40, T:0.19
Consensus pattern (32 bp):
TCGTGGAAGCTGGAAGAGGCTCGAGCTGCTAG
Found at i:1086215 original size:66 final size:65
Alignment explanation
Indices: 1086137--1086266 Score: 197
Period size: 66 Copynumber: 2.0 Consensus size: 65
1086127 TTCCCACTCA
* *
1086137 GTGGATGATTTACCAATACATCGAGACTTGCTTGCTTTCTGGAATGCTATGTAATTCTTAGTTAG
1 GTGGATAATTTACCAACACATCGAGACTTGCTTGCTTTCT-GAATGCTATGTAATTCTTAGTTAG
1086202 G
65 G
* * * *
1086203 GTGGATAATTTACCGACACATTGAGACTTGCTTGCTTTCTGAGTGTTATGTAATTCTTAGTTAG
1 GTGGATAATTTACCAACACATCGAGACTTGCTTGCTTTCTGAATGCTATGTAATTCTTAGTTAG
1086267 CCTCTAGAGG
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
65 22 0.38
66 36 0.62
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (65 bp):
GTGGATAATTTACCAACACATCGAGACTTGCTTGCTTTCTGAATGCTATGTAATTCTTAGTTAGG
Found at i:1089988 original size:97 final size:98
Alignment explanation
Indices: 1089803--1090045 Score: 276
Period size: 97 Copynumber: 2.5 Consensus size: 98
1089793 TTTTTGATTG
* * ** * *
1089803 AAAAACGGGGATGAAGTGTCCCCTCGGAGGAATGGGGTTGGAGTGT-CCTCGAAGAGGACAATTT
1 AAAAACGGGGTTGAAGTATCCCCTCAAAAGAATGGGGTTGGAGTATCCCTCGAAGAGGACAATTT
* * *
1089867 GGGTGAAATTAAGATTTAAATCTTGACAAGTTT
66 GAGTCAAAATAAGATTTAAATCTTGACAAGTTT
* * * * *
1089900 AGAAATGGGGTTGGAGTATCCCCTCAAAAGAATGGGGTTGGAGTATCCCT-GATGATGACAATTT
1 AAAAACGGGGTTGAAGTATCCCCTCAAAAGAATGGGGTTGGAGTATCCCTCGAAGAGGACAATTT
* * *
1089964 GAG-CAAGAATAAGGTTTAGATCTTGATAAGTTT
66 GAGTCAA-AATAAGATTTAAATCTTGACAAGTTT
** *
1089997 AAAAACGGGGTTGAAGTATCCCCTCGGATGAATGGGGTTGGAGTATCCC
1 AAAAACGGGGTTGAAGTATCCCCTCAAAAGAATGGGGTTGGAGTATCCC
1090046 AATGAATAAA
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
96 2 0.02
97 116 0.96
98 3 0.02
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (98 bp):
AAAAACGGGGTTGAAGTATCCCCTCAAAAGAATGGGGTTGGAGTATCCCTCGAAGAGGACAATTT
GAGTCAAAATAAGATTTAAATCTTGACAAGTTT
Found at i:1092255 original size:51 final size:51
Alignment explanation
Indices: 1092199--1092379 Score: 231
Period size: 51 Copynumber: 3.6 Consensus size: 51
1092189 TAGATTTATT
*
1092199 GATACATTGAAAAATGTATCGATACATTTGGGTCAAAACCCAGAATGTATC
1 GATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCCAGAATGTATC
* * * * * *
1092250 GATACAATGAATAATGTATTGATATATTTAGGTCAAAAACTCAAAATGTATC
1 GATACAATGAAAAATGTATCGATACATTTGGGTC-AAAACCCAGAATGTATC
* * *
1092302 GATACAATG-AAAATGTATCGATACATTTGGATC-AATCCTAGAATGTATC
1 GATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCCAGAATGTATC
* *
1092351 GATACAATAAAAAATGTATCAATACATTT
1 GATACAATGAAAAATGTATCGATACATTT
1092380 TCTTTCTAGA
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
49 20 0.18
50 18 0.16
51 48 0.44
52 24 0.22
ACGTcount: A:0.43, C:0.13, G:0.14, T:0.30
Consensus pattern (51 bp):
GATACAATGAAAAATGTATCGATACATTTGGGTCAAAACCCAGAATGTATC
Found at i:1092943 original size:33 final size:33
Alignment explanation
Indices: 1092857--1092955 Score: 91
Period size: 33 Copynumber: 3.1 Consensus size: 33
1092847 ATACATTATT
* ** *
1092857 CATTGTATCGATACATTCTGGGTT-TACCCA-A
1 CATTGTATTGATACATTCTGCATTGTACCAATA
*
1092888 -A-TGTATTGATACATTTTGCATTGTACCAATA
1 CATTGTATTGATACATTCTGCATTGTACCAATA
* *
1092919 CATTGTATTGATACATTGCT-CATTGTATCGATA
1 CATTGTATTGATACATT-CTGCATTGTACCAATA
1092952 CATT
1 CATT
1092956 TTACAATGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 8
0.77 0.11 0.11
Matches are distributed among these distances:
29 17 0.31
30 6 0.11
31 1 0.02
32 1 0.02
33 29 0.53
34 1 0.02
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.40
Consensus pattern (33 bp):
CATTGTATTGATACATTCTGCATTGTACCAATA
Found at i:1095404 original size:51 final size:51
Alignment explanation
Indices: 1095340--1095458 Score: 175
Period size: 51 Copynumber: 2.3 Consensus size: 51
1095330 GTTATTTTCG
* * *
1095340 AGGGGATACTCCAACCCTGGTTTTATTTCTAAAATACCAATTTTCCACAAT
1 AGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCCACAAT
* * * *
1095391 CGGGGATACTCCAACTCTGATTTTATTTCCAAAACACCATTTTTTCACAAT
1 AGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCCACAAT
1095442 AGGGGATACTCCAACCC
1 AGGGGATACTCCAACCC
1095459 CGTTATTTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (51 bp):
AGGGGATACTCCAACCCTGATTTTATTTCCAAAACACCAATTTTCCACAAT
Found at i:1095477 original size:79 final size:78
Alignment explanation
Indices: 1095393--1095695 Score: 286
Period size: 79 Copynumber: 3.9 Consensus size: 78
1095383 TCCACAATCG
* * * *
1095393 GGGATACTCCAACTCTGATTTTATTTCCAAAACACCATTTTTTCACAATAGGGGATACTCCAACC
1 GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATAGGGGATACTCCAACC
* * *
1095458 CCGTTATTTCCAA
66 CCATTATTTTCGA
* *** * * * * * *
1095471 GAGGATACTTCAACCCCGGCCTTATTTCTAAATCATCGATTTTTCACAATCGGAGATACTCTAAC
1 G-GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
1095536 CCCATTATTTTCGA
65 CCCATTATTTTCGA
* * * * *
1095550 GGGGATACTCCAACCCCGATTTCATTTTTAAAATACCAATTTTT-ATAATCA-GGGATGCTCCAA
1 -GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAAT-AGGGGATACTCCAA
*
1095613 CCCTATTATTTTCGA
64 CCCCATTATTTTCGA
* ** * * * *
1095628 GGTGATACTCCAACCTCGATTTTATTTCTGGAACACCAATTTTCCATAATCGGGGATACTCCAGC
1 GG-GATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATAGGGGATACTCCAAC
1095693 CCC
65 CCC
1095696 GTTGTTATCT
Statistics
Matches: 175, Mismatches: 44, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
77 2 0.01
78 62 0.35
79 110 0.63
80 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.32
Consensus pattern (78 bp):
GGGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTTCACAATAGGGGATACTCCAACC
CCATTATTTTCGA
Found at i:1098303 original size:116 final size:116
Alignment explanation
Indices: 1098099--1098328 Score: 334
Period size: 116 Copynumber: 2.0 Consensus size: 116
1098089 ATGATTTGGC
* * *
1098099 CCCTATAAAACCATAGAATTAAAAAAAGTGATGCATTAATGAATATAAGATTGTGGGCCATTTAA
1 CCCTATAAAACAAGAGAATTAAAAAAAGTGATACATTAATGAATATAAGATTGTGGGCCATTTAA
* ** * * *
1098164 GTTGGGCTTGGTCAAGATTCGTATTCGGGTCACATTGTGACAACTTGGCCA
66 ATCAGGCTTGGTCAAGATTCGTATTCGAGCCACATTGCGACAACTTGGCCA
* *
1098215 CCCTATAAAATAAGAGAATTAAAAAAAGTGATACATTAATGAATATAATATTGTGGGCCATTTAA
1 CCCTATAAAACAAGAGAATTAAAAAAAGTGATACATTAATGAATATAAGATTGTGGGCCATTTAA
* * *
1098280 ATCAGGCTTGGTTAGGATTCGTATTCGAGCCACGTTGCGACAACTTGGC
66 ATCAGGCTTGGTCAAGATTCGTATTCGAGCCACATTGCGACAACTTGGC
1098329 AACTGCACTA
Statistics
Matches: 100, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
116 100 1.00
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (116 bp):
CCCTATAAAACAAGAGAATTAAAAAAAGTGATACATTAATGAATATAAGATTGTGGGCCATTTAA
ATCAGGCTTGGTCAAGATTCGTATTCGAGCCACATTGCGACAACTTGGCCA
Found at i:1106121 original size:52 final size:52
Alignment explanation
Indices: 1106059--1106174 Score: 137
Period size: 52 Copynumber: 2.2 Consensus size: 52
1106049 GTGAAAACTA
* *
1106059 GGGTTGGAGTATCCC-AAGAAATGAAGAAAT-CAATATTGTGGAAGTAAAAATG
1 GGGTTGGAGTATCCCTAA-AAATGAAG-AATGCAACATTGTAGAAGTAAAAATG
* * *
1106111 GGGTTGGAGTATCCCTAAAGATGAAGAATGCGACATTTTAGAAGTAAAAATG
1 GGGTTGGAGTATCCCTAAAAATGAAGAATGCAACATTGTAGAAGTAAAAATG
* *
1106163 AGGTTAGAGTAT
1 GGGTTGGAGTAT
1106175 TTTTAGAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
51 3 0.05
52 50 0.91
53 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.28, T:0.25
Consensus pattern (52 bp):
GGGTTGGAGTATCCCTAAAAATGAAGAATGCAACATTGTAGAAGTAAAAATG
Found at i:1106244 original size:78 final size:78
Alignment explanation
Indices: 1106111--1106317 Score: 222
Period size: 78 Copynumber: 2.6 Consensus size: 78
1106101 AGTAAAAATG
* * * ** *
1106111 GGGTTGGAGTATCCCTAAAGATGAAGAATG-CGACATTTTAGAAGTAAAAATGAGGTTAGAGTAT
1 GGGTTGGAATATCCC-AAAGATGAAAAATGTAG-TGTTTTAGAAGTAAAAACGAGGTTAGAGTAT
*
1106175 T-TTTAGAGAT-AGTA
64 TCCTTAGAGATGA-TA
* * *
1106189 GGGTTGGAATATTCCCAAAGATTATAAATGTAGTGTTTTAGAAGTAAAAACGAGGTTGGAGTATT
1 GGGTTGGAATA-TCCCAAAGATGAAAAATGTAGTGTTTTAGAAGTAAAAACGAGGTTAGAGTATT
*
1106254 CCCTTAGAGATGATG
65 -CCTTAGAGATGATA
* * *
1106269 GGGTTGGAGTATCCCAGAGATGAAAAATTTAGTGTTTTAGAAGTAAAAA
1 GGGTTGGAATATCCCAAAGATGAAAAATGTAGTGTTTTAGAAGTAAAAA
1106318 TAGGGTTGGA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 49 0.45
79 39 0.36
80 19 0.18
81 1 0.01
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.30
Consensus pattern (78 bp):
GGGTTGGAATATCCCAAAGATGAAAAATGTAGTGTTTTAGAAGTAAAAACGAGGTTAGAGTATTC
CTTAGAGATGATA
Found at i:1106316 original size:79 final size:77
Alignment explanation
Indices: 1106146--1106330 Score: 221
Period size: 79 Copynumber: 2.4 Consensus size: 77
1106136 GAATGCGACA
* *
1106146 TTTTAGAAGTAAAAATGAGGTTAGAGTATTTTTAGAGATAGTAGGGTTGGAATATTCCCAAAGAT
1 TTTTAGAAGTAAAAA-GAGGTTGGAGTATTCTTAGAGATAGTAGGGTTGGAATATTCCCAAAGAT
* *
1106211 TATAAATGTAGTG
65 GAAAAATGTAGTG
* * *
1106224 TTTTAGAAGTAAAAACGAGGTTGGAGTATTCCCTTAGAGAT-GATGGGGTTGGAGTA-TCCCAGA
1 TTTTAGAAGTAAAAA-GAGGTTGGAGTATT--CTTAGAGATAG-TAGGGTTGGAATATTCCCAAA
*
1106287 GATGAAAAATTTAGTG
62 GATGAAAAATGTAGTG
*
1106303 TTTTAGAAGTAAAAATAGGGTTGGAGTA
1 TTTTAGAAGTAAAAAGA-GGTTGGAGTA
1106331 CCCATTTTGA
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
78 29 0.31
79 45 0.48
80 19 0.20
ACGTcount: A:0.36, C:0.05, G:0.27, T:0.32
Consensus pattern (77 bp):
TTTTAGAAGTAAAAAGAGGTTGGAGTATTCTTAGAGATAGTAGGGTTGGAATATTCCCAAAGATG
AAAAATGTAGTG
Found at i:1107988 original size:13 final size:13
Alignment explanation
Indices: 1107970--1107994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1107960 ATTACTCAAA
1107970 TGTATCGATACAT
1 TGTATCGATACAT
1107983 TGTATCGATACA
1 TGTATCGATACA
1107995 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:1108046 original size:52 final size:50
Alignment explanation
Indices: 1107983--1108122 Score: 181
Period size: 52 Copynumber: 2.7 Consensus size: 50
1107973 ATCGATACAT
* *
1107983 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGAAAATTTGCCCAGA
1 TGTATCGATACACT-AT-TATGTATCGATACATGCAGGAAAATTTGCCCAAA
* * *
1108035 TGTATCGATACATTATAAAATGTATCGATACATGCAGGCAAATTTGCCCAAA
1 TGTATCGATACACTAT--TATGTATCGATACATGCAGGAAAATTTGCCCAAA
1108087 TGTATCGATACACTATTAAATGTATCGATACATGCA
1 TGTATCGATACACTATT--ATGTATCGATACATGCA
1108123 AGCAACTTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
51 2 0.03
52 75 0.97
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (50 bp):
TGTATCGATACACTATTATGTATCGATACATGCAGGAAAATTTGCCCAAA
Found at i:1112281 original size:20 final size:21
Alignment explanation
Indices: 1112244--1112287 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1112234 TACAAGCACA
* **
1112244 TATCGATACATTTGCTTA-TG
1 TATCAATACATTAACTTATTG
1112264 TATCAATACATTAACTTATTG
1 TATCAATACATTAACTTATTG
1112285 TAT
1 TAT
1112288 TGATACTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.32, C:0.14, G:0.09, T:0.45
Consensus pattern (21 bp):
TATCAATACATTAACTTATTG
Found at i:1116260 original size:20 final size:20
Alignment explanation
Indices: 1116235--1116287 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1116225 TTACCTAGAT
*
1116235 GTATCGATACATT-TATGAAG
1 GTATCGATACATTGT-TCAAG
*
1116255 GTATCGATACATTGTTCAAT
1 GTATCGATACATTGTTCAAG
1116275 GTATCGATACATT
1 GTATCGATACATT
1116288 CTGTGTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (20 bp):
GTATCGATACATTGTTCAAG
Found at i:1120829 original size:52 final size:52
Alignment explanation
Indices: 1120751--1120854 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
1120741 ATCCAATCTA
1120751 TCGCTTTCTCTGAAAGCATAACCTAGGAGAATGAGATGAAGATTGTCAAGTG
1 TCGCTTTCTCTGAAAGCATAACCTAGGAGAATGAGATGAAGATTGTCAAGTG
1120803 TCGCTTTCTCTGAAAGCATAACCTAGGAGAATGAGATGAAGATTGTCAAGTG
1 TCGCTTTCTCTGAAAGCATAACCTAGGAGAATGAGATGAAGATTGTCAAGTG
1120855 GCATTTGAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (52 bp):
TCGCTTTCTCTGAAAGCATAACCTAGGAGAATGAGATGAAGATTGTCAAGTG
Found at i:1124090 original size:92 final size:92
Alignment explanation
Indices: 1123863--1124375 Score: 526
Period size: 92 Copynumber: 5.6 Consensus size: 92
1123853 GAGGGTCCAA
* * * *
1123863 ACCATATC-TTCCCAATCATATCCCCTTTATCCAACCACTAGATGTTATTGATACATCATAAGGC
1 ACCATA-CATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* *
1123927 TTGAATTCCTTAGGGCAAGGATATTCTG
65 TTGATTTCCTTAGGGCAAGGATATCCTG
* *
1123955 ACCATTCA-TCCCAATCATAT-CCCTTTCATCCAACCAC-AGGATGGTTTTGATGCATCACAAAG
1 ACCATACATTCCCAATCATATCCCCTTT-ATCCAACCACTA-GATGGTATTGATGCATCACAAAG
* * * * * *
1124017 CCTAACTTCCTTGGGGAAAGGATATCTTG
64 CTTGATTTCCTTAGGGCAAGGATATCCTG
* * *
1124046 ACCACACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTAATGCATCACAAAGCC
1 ACCATACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCT
** *
1124111 TGATTTCCTTAAAGCAAGGATATCCCG
66 TGATTTCCTTAGGGCAAGGATATCCTG
* * * * * *
1124138 ATCATACATTCCTAATTATATCCCCTTCAACCAACCACTAGATGGTATTGATGCATCATAAAGCT
1 ACCATACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCT
* * *
1124203 TGATTTCCTTAGAG-AAGG---TGCAG
66 TGATTTCCTTAGGGCAAGGATATCCTG
* *
1124226 ACCATACATTCCCAATCATAT-CCCTTTCATCCAACCACTAGATGGTATTGATGTATCACAAATC
1 ACCATACATTCCCAATCATATCCCCTTT-ATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* * *
1124290 TTGATTTTCTTGGGGCAAGGATATCCTA
65 TTGATTTCCTTAGGGCAAGGATATCCTG
* * * ** * *
1124318 ATCACT-CATTCCTAATCATAT-CCCTTTCTTTTAGCCACTAAATGGTATTGATGCATCA
1 ACCA-TACATTCCCAATCATATCCCCTTT-ATCCAACCACTAGATGGTATTGATGCATCA
1124376 GATAACCACA
Statistics
Matches: 350, Mismatches: 59, Indels: 24
0.81 0.14 0.06
Matches are distributed among these distances:
87 5 0.01
88 65 0.19
89 4 0.01
90 7 0.02
91 73 0.21
92 188 0.54
93 8 0.02
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (92 bp):
ACCATACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCT
TGATTTCCTTAGGGCAAGGATATCCTG
Found at i:1124272 original size:180 final size:183
Alignment explanation
Indices: 1123863--1124375 Score: 592
Period size: 180 Copynumber: 2.8 Consensus size: 183
1123853 GAGGGTCCAA
* * * *
1123863 ACCATATC-TTCCCAATCATATCCCCTTTATCCAACCACTAGATGTTATTGATACATCATAAGGC
1 ACCATA-CATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* * * *
1123927 TTGAATTCCTTAGGGCAAGGATATTCTGACCATTCA-TCCCAATCATATCCCTTTCATCCAACCA
65 TTGATTTCCTTAGGGCAAGGATATCCTGATCA-TCATTCCTAATCATATCCCTTTCATCCAACCA
* * * * *
1123991 C-AGGATGGTTTTGATGCATCACAAAGCCTAACTTCCTTGGGGAAAGGATATCTTG
129 CTA-GATGGTATTGATGCATCACAAAGCCTAACTTCCTTAGAGAAAGGATAGCTAG
* * *
1124046 ACCACACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTAATGCATCACAAAGCC
1 ACCATACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCT
** * * * *
1124111 TGATTTCCTTAAAGCAAGGATATCCCGATCATACATTCCTAATTATATCCCCTTCAACCAACCAC
66 TGATTTCCTTAGGGCAAGGATATCCTGATCAT-CATTCCTAATCATATCCCTTTCATCCAACCAC
* * * *
1124176 TAGATGGTATTGATGCATCATAAAGCTTGATTTCCTTAGAG-AAGG-T-GC-AG
130 TAGATGGTATTGATGCATCACAAAGCCTAACTTCCTTAGAGAAAGGATAGCTAG
* *
1124226 ACCATACATTCCCAATCATAT-CCCTTTCATCCAACCACTAGATGGTATTGATGTATCACAAATC
1 ACCATACATTCCCAATCATATCCCCTTT-ATCCAACCACTAGATGGTATTGATGCATCACAAAGC
* * * * ** *
1124290 TTGATTTTCTTGGGGCAAGGATATCCTAATCACTCATTCCTAATCATATCCCTTTCTTTTAGCCA
65 TTGATTTCCTTAGGGCAAGGATATCCTGATCA-TCATTCCTAATCATATCCCTTTCATCCAACCA
*
1124355 CTAAATGGTATTGATGCATCA
129 CTAGATGGTATTGATGCATCA
1124376 GATAACCACA
Statistics
Matches: 279, Mismatches: 45, Indels: 15
0.82 0.13 0.04
Matches are distributed among these distances:
179 6 0.02
180 123 0.44
181 2 0.01
182 3 0.01
183 87 0.31
184 57 0.20
185 1 0.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (183 bp):
ACCATACATTCCCAATCATATCCCCTTTATCCAACCACTAGATGGTATTGATGCATCACAAAGCT
TGATTTCCTTAGGGCAAGGATATCCTGATCATCATTCCTAATCATATCCCTTTCATCCAACCACT
AGATGGTATTGATGCATCACAAAGCCTAACTTCCTTAGAGAAAGGATAGCTAG
Found at i:1124374 original size:272 final size:273
Alignment explanation
Indices: 1123871--1124375 Score: 658
Period size: 272 Copynumber: 1.8 Consensus size: 273
1123861 AAACCATATC
* * * *
1123871 TTCCCAATCATATCCCCTTTATCCAACCACTAGATGTTATTGATACATCATAAGGCTTGAATTCC
1 TTCCCAATCATATCCCCTTCAACCAACCACTAGATGGTATTGATACATCATAAAGCTTGAATTCC
* * * * *
1123936 TTAGGGCAAGGATATTCTGACCATTCATCCCAATCATATCCCTTTCATCCAACCACAGGATGGTT
66 TTAGAGCAAGG--ATGCAGACCATACATCCCAATCATATCCCTTTCATCCAACCACAGGATGGTA
* *
1124001 TTGATGCATCACAAAGCCTAACTTCCTTGGGGAAAGGATATCTTGACCACACATTCCCAATCATA
129 TTGATGCATCACAAAGCCTAACTTCCTTGGGGAAAGGATATCCTAACCACACATTCCCAATCATA
*
1124066 TCCCCTTTATCCAACCACTAGATGGTATTAATGCATCACAAAGCCTGATTTCCTTAAAGCAAGGA
194 TCCCCTTTATCCAACCACTAAATGGTATTAATGCATCACAAAGCCTGATTTCCTTAAAGCAAGGA
1124131 TATCCCGATCATACA
259 TATCCCGATCATACA
* * * *
1124146 TTCCTAATTATATCCCCTTCAACCAACCACTAGATGGTATTGATGCATCATAAAGCTTGATTTCC
1 TTCCCAATCATATCCCCTTCAACCAACCACTAGATGGTATTGATACATCATAAAGCTTGAATTCC
1124211 TTAGAG-AAGG-TGCAGACCATACATTCCCAATCATATCCCTTTCATCCAACCACTA-GATGGTA
66 TTAGAGCAAGGATGCAGACCATACA-TCCCAATCATATCCCTTTCATCCAACCAC-AGGATGGTA
* * * * * * * * * *
1124273 TTGATGTATCACAAATCTTGATTTTCTTGGGGCAAGGATATCCTAATCACTCATTCCTAATCATA
129 TTGATGCATCACAAAGCCTAACTTCCTTGGGGAAAGGATATCCTAACCACACATTCCCAATCATA
* ** * *
1124338 T-CCCTTTCTTTTAGCCACTAAATGGTATTGATGCATCA
194 TCCCCTTT-ATCCAACCACTAAATGGTATTAATGCATCA
1124376 GATAACCACA
Statistics
Matches: 196, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
271 16 0.08
272 113 0.58
273 1 0.01
274 4 0.02
275 62 0.32
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (273 bp):
TTCCCAATCATATCCCCTTCAACCAACCACTAGATGGTATTGATACATCATAAAGCTTGAATTCC
TTAGAGCAAGGATGCAGACCATACATCCCAATCATATCCCTTTCATCCAACCACAGGATGGTATT
GATGCATCACAAAGCCTAACTTCCTTGGGGAAAGGATATCCTAACCACACATTCCCAATCATATC
CCCTTTATCCAACCACTAAATGGTATTAATGCATCACAAAGCCTGATTTCCTTAAAGCAAGGATA
TCCCGATCATACA
Found at i:1125007 original size:44 final size:44
Alignment explanation
Indices: 1124932--1125324 Score: 299
Period size: 44 Copynumber: 8.9 Consensus size: 44
1124922 AATCTTTAGA
* * ** *
1124932 CCTACGTCAAACTTCATTTCACATTCATTTGACATGATGGTTCTGT
1 CCTA-GTCAAAC-TCCTTTCACTTTTGTTTGACATGATGGTTCTGC
* ** *
1124978 CCTGGTCAAACTCCTTTCACTTTTGTTTGATGTGATGGTTTTGC
1 CCTAGTCAAACTCCTTTCACTTTTGTTTGACATGATGGTTCTGC
* * * * ** *
1125022 CTTAGTTAAACTCCTTTCGC-TTTGTTTAATGTGATGGTTCTAC
1 CCTAGTCAAACTCCTTTCACTTTTGTTTGACATGATGGTTCTGC
* * ** *
1125065 CCGAGTCAAACTCTTTTCGTTTTTGTTTGACATGATGGTTCTAC
1 CCTAGTCAAACTCCTTTCACTTTTGTTTGACATGATGGTTCTGC
* * * *
1125109 TCTAGTCAAACTCTTTTCACTTTTGTTTTACATGATGGTTCTAC
1 CCTAGTCAAACTCCTTTCACTTTTGTTTGACATGATGGTTCTGC
** *
1125153 CCTAGTCAAACTCCTTT-GGTTTTCGTTTGACATGACGGTTCTGC
1 CCTAGTCAAACTCCTTTCACTTTT-GTTTGACATGATGGTTCTGC
** ** ** * *
1125197 CCT-GATCAAACTTTTTTTGCTTTCATTTTACGTGATGGTTCTGC
1 CCTAG-TCAAACTCCTTTCACTTTTGTTTGACATGATGGTTCTGC
* ** * **
1125241 CCTGGTCAAACTCCTTTCACTTTCT-TTTGATGTGATGGTTTTAT
1 CCTAGTCAAACTCCTTTCACTTT-TGTTTGACATGATGGTTCTGC
** **
1125285 CCTAGTCAAACTTGTTTCACTTTCCTTTGACATGATGGTT
1 CCTAGTCAAACTCCTTTCACTTTTGTTTGACATGATGGTT
1125325 TCCTTTCACT
Statistics
Matches: 280, Mismatches: 60, Indels: 16
0.79 0.17 0.04
Matches are distributed among these distances:
43 40 0.14
44 225 0.80
45 12 0.04
46 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.44
Consensus pattern (44 bp):
CCTAGTCAAACTCCTTTCACTTTTGTTTGACATGATGGTTCTGC
Found at i:1125314 original size:132 final size:132
Alignment explanation
Indices: 1124937--1125324 Score: 422
Period size: 132 Copynumber: 2.9 Consensus size: 132
1124927 TTAGACCTAC
* * * *
1124937 GTCAAACTTCATTTCACATTCATTTGACATGATGGTTCTGTCCTGGTCAAACTCCTTTCACTTTT
1 GTCAAAC-TCTTTTCGCTTTCATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTT
* * * * **
1125002 GTTTGATGTGATGGTTTTGCCTTAGTTAAACTCCTTTCGCTTT-GTTTAATGTGATGGTTCTACC
65 GTTTGATGTGATGGTTTTACCCTAGTCAAACTCCTTTCGCTTTCGTTTGACATGATGGTTCTACC
1125066 CGA
130 CGA
* ** * * * *
1125069 GTCAAACTCTTTTCGTTTTTGTTTGACATGATGGTTCTACTCTAGTCAAACTCTTTTCACTTTTG
1 GTCAAACTCTTTTCGCTTTCATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTTG
* ** * * * * *
1125134 TTTTACATGATGGTTCTACCCTAGTCAAACTCCTTTGGTTTTCGTTTGACATGACGGTTCTGCCC
66 TTTGATGTGATGGTTTTACCCTAGTCAAACTCCTTTCGCTTTCGTTTGACATGATGGTTCTACCC
1125199 TGA
131 -GA
* * * *
1125202 -TCAAACTTTTTTTGCTTTCATTTTACGTGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTCT
1 GTCAAACTCTTTTCGCTTTCATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTT-T
* ** * *
1125266 -TTTGATGTGATGGTTTTATCCTAGTCAAACTTGTTTCACTTTCCTTTGACATGATGGTT
65 GTTTGATGTGATGGTTTTACCCTAGTCAAACTCCTTTCGCTTTCGTTTGACATGATGGTT
1125325 TCCTTTCACT
Statistics
Matches: 205, Mismatches: 48, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
131 80 0.39
132 122 0.60
133 3 0.01
ACGTcount: A:0.18, C:0.21, G:0.16, T:0.45
Consensus pattern (132 bp):
GTCAAACTCTTTTCGCTTTCATTTGACATGATGGTTCTGCCCTGGTCAAACTCCTTTCACTTTTG
TTTGATGTGATGGTTTTACCCTAGTCAAACTCCTTTCGCTTTCGTTTGACATGATGGTTCTACCC
GA
Found at i:1125378 original size:28 final size:28
Alignment explanation
Indices: 1125343--1125397 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
1125333 CTTTCATTTG
1125343 ACGTGATGGTTCT-GCCCTAGTT-AAACTA
1 ACGTGATGGTT-TGGCCCTA-TTCAAACTA
1125371 ACGTGATGGTTTGGCCCTATTCAAACT
1 ACGTGATGGTTTGGCCCTATTCAAACT
1125398 CCTTTCCTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (28 bp):
ACGTGATGGTTTGGCCCTATTCAAACTA
Found at i:1125479 original size:43 final size:42
Alignment explanation
Indices: 1125385--1125510 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 42
1125375 GATGGTTTGG
* * * * *
1125385 CCCTATTCAAACTCCTTTCCTTCATTTGAAATGACGGTTCTG
1 CCCTAGTCAAACTCCTTTCCTTCGTTTGACATGATGGTTCTA
* *
1125427 CCCTAGTCAAACTCTTTTTCCTTCGTTTGACATGATGGTTTTA
1 CCCTAGTCAAACTC-CTTTCCTTCGTTTGACATGATGGTTCTA
* * * *
1125470 CCTTGGTCAAACTCCTTTCACTTTTGTTTGACGTGATGGTT
1 CCCTAGTCAAACTCCTTTC-C-TTCGTTTGACATGATGGTT
1125511 ATGCCCTGGT
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 17 0.25
43 35 0.51
44 17 0.25
ACGTcount: A:0.18, C:0.25, G:0.15, T:0.42
Consensus pattern (42 bp):
CCCTAGTCAAACTCCTTTCCTTCGTTTGACATGATGGTTCTA
Found at i:1126545 original size:167 final size:166
Alignment explanation
Indices: 1126212--1126617 Score: 416
Period size: 167 Copynumber: 2.5 Consensus size: 166
1126202 AAATATTATT
* * * * * * * *
1126212 ATTTAATT-ACCATTAAATC-AGTTTAAAAAATTTATTTATTTTCATTAGTTTTTCA--TCTTTT
1 ATTTAATTCA-CAATAAATCAATTTTGAAAAATTCATTTACTTTCATAAGTATTTCATTTTTTTT
* * *
1126273 CTTAAAATTCTCTTATTTTCGAAAAATTAAGTTTTCTACTCCATAAATGTTTCCAAGGGGGATTT
65 CTTAAAATTTTCTTATTTTCGAAAAATGAAGTTTTCTACTCCATAAATGTTTCC-AGGGGGAATT
* *
1126338 TTCTCAATTTAAAATTTTAATATTCATCAAATATCATC
129 TTCTCAATTCAAAATTTTAATATTCATCAAATAACATC
* * *
1126376 ATTTAATTCACAATAAATTAATTTTTAAAATTTCATTTACTTTCATAAGTATTTCATTTTTTTTT
1 ATTTAATTCACAATAAATCAATTTTGAAAAATTCATTTACTTTCATAAGTATTTCA-TTTTTTTT
* * *
1126441 CTTAAAATTTTCTTATTTTTGAACAATGGAGTTTTCTACCTCGCA-AATAT-TTT-C-GGGGGAG
65 CTTAAAATTTTCTTATTTTCGAAAAATGAAGTTTTCTA-CTC-CATAA-ATGTTTCCAGGGGGA-
** *
1126502 ATTTTCTCGGTTCAAAATTTTGATATTCATCAAATAACATC
126 ATTTTCTCAATTCAAAATTTTAATATTCATCAAATAACATC
* * * * ** * *
1126543 ATTTAATTCATAGTAAATCAGTTTTGAAAAATTCATTTATTTTTTTAAGTTTTTCATTTTTTCT-
1 ATTTAATTCACAATAAATCAATTTTGAAAAATTCATTTACTTTCATAAGTATTTCATTTTTTTTC
1126607 TTAAAATTTTC
66 TTAAAATTTTC
1126618 CTACCCCTAA
Statistics
Matches: 201, Mismatches: 32, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
164 15 0.07
165 41 0.20
166 13 0.06
167 81 0.40
168 39 0.19
169 8 0.04
170 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (166 bp):
ATTTAATTCACAATAAATCAATTTTGAAAAATTCATTTACTTTCATAAGTATTTCATTTTTTTTC
TTAAAATTTTCTTATTTTCGAAAAATGAAGTTTTCTACTCCATAAATGTTTCCAGGGGGAATTTT
CTCAATTCAAAATTTTAATATTCATCAAATAACATC
Found at i:1126616 original size:21 final size:21
Alignment explanation
Indices: 1126574--1126616 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
1126564 TTTTGAAAAA
* *
1126574 TTCATTTATTTTTTTAAGTTT
1 TTCATTTATTTTTTAAAATTT
1126595 TTCATTT-TTTCTTTAAAATTT
1 TTCATTTATTT-TTTAAAATTT
1126616 T
1 T
1126617 CCTACCCCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.21, C:0.07, G:0.02, T:0.70
Consensus pattern (21 bp):
TTCATTTATTTTTTAAAATTT
Found at i:1127253 original size:11 final size:10
Alignment explanation
Indices: 1127234--1127282 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
1127224 CTTGGCAAGT
1127234 GAAAAAAAAA
1 GAAAAAAAAA
*
1127244 GAAGAAAAAA
1 GAAAAAAAAA
*
1127254 GAAAGAAAAA
1 GAAAAAAAAA
1127264 GAAAGAAAAAAA
1 G-AA-AAAAAAA
1127276 GAAAAAA
1 GAAAAAA
1127283 CTAAGTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 22 0.67
11 4 0.12
12 7 0.21
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (10 bp):
GAAAAAAAAA
Found at i:1127258 original size:14 final size:14
Alignment explanation
Indices: 1127234--1127282 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 14
1127224 CTTGGCAAGT
1127234 GAAAAAA-AAAGAA
1 GAAAAAAGAAAGAA
1127247 GAAAAAAGAAAGAA
1 GAAAAAAGAAAGAA
*
1127261 -AAAGAAAGAAAAAAA
1 GAAA-AAAG-AAAGAA
1127276 GAAAAAA
1 GAAAAAA
1127283 CTAAGTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 10 0.32
14 10 0.32
15 8 0.26
16 3 0.10
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (14 bp):
GAAAAAAGAAAGAA
Found at i:1128301 original size:4 final size:4
Alignment explanation
Indices: 1128292--1128335 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
1128282 TAATTTTCAA
1128292 AAAT AAAT AAAT -AAT -AAT -AAT -AAT -AAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1128335 A
1 A
1128336 CCAAATATTA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 15 0.38
4 24 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
AAAT
Found at i:1128303 original size:23 final size:22
Alignment explanation
Indices: 1128290--1128332 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
1128280 TATAATTTTC
1128290 AAAAATAAATAAATAATAATAAT
1 AAAAATAAATAAAT-ATAATAAT
*
1128313 AATAATAAATAAATA-AATAA
1 AAAAATAAATAAATATAATAA
1128333 ATACCAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 1 0.05
23 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAAATAAATAAATATAATAAT
Found at i:1129248 original size:20 final size:21
Alignment explanation
Indices: 1129223--1129276 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 21
1129213 ATTCTATAAT
1129223 ATGTATCGATACATAAATG-A
1 ATGTATCGATACATAAATGAA
***
1129243 ATGTATCGATACATGTTTGAA
1 ATGTATCGATACATAAATGAA
1129264 ATGTATCGATACA
1 ATGTATCGATACA
1129277 AGGCCATGTC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATAAATGAA
Found at i:1129417 original size:52 final size:50
Alignment explanation
Indices: 1129313--1129449 Score: 177
Period size: 52 Copynumber: 2.7 Consensus size: 50
1129303 TCTAGAAAGA
* * * *
1129313 AAATATATTGATACATTTTT-ATTGTATCGATATATTCTGAGTTTGATCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGAGTTTGACCC
* * *
1129362 AAATGTATCGATACATTTTTCATTGTATTGATACATTTTGGGTTTTTGACCC
1 AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGAG--TTTGACCC
*
1129414 AAATGTATCGATACATTATTCATTGTATCGATACAT
1 AAATGTATCGATACATTTTTCATTGTATCGATACAT
1129450 CCAGTTAAAT
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
49 18 0.24
50 17 0.22
52 41 0.54
ACGTcount: A:0.30, C:0.12, G:0.13, T:0.45
Consensus pattern (50 bp):
AAATGTATCGATACATTTTTCATTGTATCGATACATTCTGAGTTTGACCC
Found at i:1131859 original size:27 final size:27
Alignment explanation
Indices: 1131821--1131893 Score: 112
Period size: 27 Copynumber: 2.7 Consensus size: 27
1131811 TTTATTTATC
1131821 GGGATACTCCAAACCTATTCTTCCGAG
1 GGGATACTCCAAACCTATTCTTCCGAG
1131848 GGGATACTCCAACACC-ATTCTTCCGAG
1 GGGATACTCCAA-ACCTATTCTTCCGAG
* *
1131875 GGGATACTCTAACCCTATT
1 GGGATACTCCAAACCTATT
1131894 TTTTTCTAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
26 2 0.05
27 37 0.88
28 3 0.07
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (27 bp):
GGGATACTCCAAACCTATTCTTCCGAG
Found at i:1142595 original size:20 final size:20
Alignment explanation
Indices: 1142570--1142703 Score: 155
Period size: 20 Copynumber: 6.7 Consensus size: 20
1142560 TACCTAGATA
*
1142570 TATCGATACATTTTTCAATG
1 TATCGATACATTCTTCAATG
* *
1142590 TATCGATACATGT-ATGAATG
1 TATCGATACAT-TCTTCAATG
*
1142610 TATCGATGCATTCTTCAATG
1 TATCGATACATTCTTCAATG
* *
1142630 TATCGATACATGT-ATGAATG
1 TATCGATACAT-TCTTCAATG
*
1142650 TATCGATGCATTCTTCAATG
1 TATCGATACATTCTTCAATG
* *
1142670 TATCAATACATTCTTCAACG
1 TATCGATACATTCTTCAATG
1142690 TATCGATACATTCT
1 TATCGATACATTCT
1142704 ATCTTTTCAC
Statistics
Matches: 95, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
19 2 0.02
20 91 0.96
21 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (20 bp):
TATCGATACATTCTTCAATG
Found at i:1142627 original size:40 final size:40
Alignment explanation
Indices: 1142570--1142680 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
1142560 TACCTAGATA
* *
1142570 TATCGATACATTTTTCAATGTATCGATACATGTATGAATG
1 TATCGATGCATTCTTCAATGTATCGATACATGTATGAATG
1142610 TATCGATGCATTCTTCAATGTATCGATACATGTATGAATG
1 TATCGATGCATTCTTCAATGTATCGATACATGTATGAATG
*
1142650 TATCGATGCATTCTTCAATGTATCAATACAT
1 TATCGATGCATTCTTCAATGTATCGATACAT
1142681 TCTTCAACGT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 68 1.00
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (40 bp):
TATCGATGCATTCTTCAATGTATCGATACATGTATGAATG
Found at i:1142693 original size:40 final size:40
Alignment explanation
Indices: 1142570--1142703 Score: 189
Period size: 40 Copynumber: 3.4 Consensus size: 40
1142560 TACCTAGATA
*
1142570 TATCGATACATTTTTCAATGTATCGATACATGTATGAATG
1 TATCGATACATTCTTCAATGTATCGATACATGTATGAATG
*
1142610 TATCGATGCATTCTTCAATGTATCGATACATGTATGAATG
1 TATCGATACATTCTTCAATGTATCGATACATGTATGAATG
* * * * *
1142650 TATCGATGCATTCTTCAATGTATCAATACAT-TCTTCAACG
1 TATCGATACATTCTTCAATGTATCGATACATGT-ATGAATG
1142690 TATCGATACATTCT
1 TATCGATACATTCT
1142704 ATCTTTTCAC
Statistics
Matches: 86, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
39 1 0.01
40 85 0.99
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (40 bp):
TATCGATACATTCTTCAATGTATCGATACATGTATGAATG
Found at i:1156533 original size:11 final size:11
Alignment explanation
Indices: 1156517--1156550 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1156507 ATCCTTTTTT
1156517 AAAAAAACAAA
1 AAAAAAACAAA
1156528 AAAAAAACAAA
1 AAAAAAACAAA
1156539 AAACAAAA-AAA
1 AAA-AAAACAAA
1156550 A
1 A
1156551 CAGAAAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Found at i:1156546 original size:16 final size:17
Alignment explanation
Indices: 1156527--1156558 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
1156517 AAAAAAACAA
1156527 AAAAAAAACA-AAAAAC
1 AAAAAAAACAGAAAAAC
1156543 AAAAAAAACAGAAAAA
1 AAAAAAAACAGAAAAA
1156559 GGAGTGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAAACAGAAAAAC
Found at i:1157771 original size:13 final size:13
Alignment explanation
Indices: 1157712--1157793 Score: 62
Period size: 14 Copynumber: 6.2 Consensus size: 13
1157702 CAATTCGCCA
1157712 TTTGTCAAGAAAT
1 TTTGTCAAGAAAT
*
1157725 GGTTGTCAAGAAAT
1 -TTTGTCAAGAAAT
*
1157739 TATCT-TCAAGAACT
1 T-T-TGTCAAGAAAT
*
1157753 TCTGTCAAG-AAT
1 TTTGTCAAGAAAT
*
1157765 GTTTGTC-AGAAAC
1 -TTTGTCAAGAAAT
*
1157778 TTTGTCCAGAAAT
1 TTTGTCAAGAAAT
1157791 TTT
1 TTT
1157794 CATCAATAGA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
12 11 0.20
13 20 0.37
14 22 0.41
15 1 0.02
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (13 bp):
TTTGTCAAGAAAT
Found at i:1157881 original size:28 final size:28
Alignment explanation
Indices: 1157807--1158301 Score: 373
Period size: 28 Copynumber: 17.2 Consensus size: 28
1157797 CAATAGAACC
* *
1157807 CTTTTCAAAGCTCATAAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
1157835 CCTTCTCAAAGCCCACAAGTCAGTGGCAT
1 -CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
1157864 CTTTTCAAAGCTCGCAAGCCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * * * *
1157892 CCTTTCAAAGCCTATAAGTTAGCGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
1157920 CTTTTCCAAGCCCACAAGTCAGTGGCACC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-T
* *
1157949 CTTTTCAAAGCCCACAAATCAGTGGTAACT
1 CTTTTCAAAGCCCACAAGTCAGTGG-CA-T
* *
1157979 CTTTTCAAAATCCACACAAGTCGGTGGCAACT
1 CTTTTC-AAAGCC-CACAAGTCAGTGGC-A-T
* * * *
1158011 CTTTTCAAAGCCTACTCCAA-TCGGTGCCAC
1 CTTTTCAAAGCC--C-ACAAGTCAGTGGCAT
* * * *
1158041 CCTTCCAAAGCCCACAAGTCAGTGTCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
*
1158069 CTTTTCAAAGCCCACAAGTTAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
1158097 ACCCTTTCAAAGCCCACAAGTCTGTGGCAC
1 --CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
1158127 CCTTTGAAACCCCACAAGACAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * *
1158155 CCTTTCAAAGCCCATAGGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
1158183 CATTTT-AAAGCCCGCAAGTTAGTGGTAC
1 C-TTTTCAAAGCCCACAAGTCAGTGGCAT
* * * *
1158211 CATTTCGAAGCCCATAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* ** *
1158239 CCTTTCAAAGCCCACAAGTCAGTGATAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAT
* *
1158267 CCTTTCAAAGCCCACATAAGTCAGTGGCAC
1 CTTTTCAAAGCCCAC--AAGTCAGTGGCAT
1158297 CTTTT
1 CTTTT
1158302 TTTAAAGCCC
Statistics
Matches: 373, Mismatches: 79, Indels: 27
0.78 0.16 0.06
Matches are distributed among these distances:
27 6 0.02
28 215 0.58
29 52 0.14
30 57 0.15
31 11 0.03
32 29 0.08
33 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAT
Found at i:1157943 original size:56 final size:56
Alignment explanation
Indices: 1157806--1158300 Score: 413
Period size: 56 Copynumber: 8.6 Consensus size: 56
1157796 TCAATAGAAC
* *
1157806 CCTTTTCAAAGCTCATAAGTCAGTGGCATCCTTCTCAAAGCCCACAAGTCAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAGCCCACAAGTCAGTGGCA
* * * * * * * *
1157863 TCTTTTCAAAGCTCGCAAGCCAGTGGCATCCTTTCAAAGCCTATAAGTTAGCGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
1157919 CCTTTTCCAAGCCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAAATCAGTGGTAA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGG-CA
* * * * * *
1157977 CTCTTTTCAAAATCCACACAAGTCGGTGGCAACTCTTTTCAAAGCCTACTCCAA-TCGGTGCCA
1 C-CTTTTC-AAAGCC-CACAAGTCAGTGGC-A-TCCTTTCAAAGCC--C-ACAAGTCAGTGGCA
* * * *
1158040 CCCTTCCAAAGCCCACAAGTCAGTGTCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGC--A
* * * * * *
1158098 CCCTTTCAAAGCCCACAAGTCTGTGGCACCCTTTGAAACCCCACAAGACAGTGGCA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * *
1158154 TCC-TTTCAAAGCCCATAGGTCAGTGGCATCATTTTAAAGCCCGCAAGTTAGTGGTA
1 -CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * **
1158210 CCATTTCGAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGATA
1 CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
*
1158266 CCCTTTCAAAGCCCACATAAGTCAGTGGCA-CCTTT
1 CCTTTTCAAAGCCCAC--AAGTCAGTGGCATCCTTT
1158301 TTTTAAAGCC
Statistics
Matches: 351, Mismatches: 68, Indels: 38
0.77 0.15 0.08
Matches are distributed among these distances:
55 5 0.01
56 151 0.43
57 55 0.16
58 70 0.20
59 9 0.03
60 16 0.05
61 18 0.05
62 15 0.04
63 3 0.01
64 6 0.02
65 3 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (56 bp):
CCTTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:1158320 original size:32 final size:33
Alignment explanation
Indices: 1158273--1158335 Score: 85
Period size: 32 Copynumber: 1.9 Consensus size: 33
1158263 ATACCCTTTC
*
1158273 AAAGCCCACATAAGTC-AGTGGCA-CCTTTTTTT
1 AAAGCCCACACAAGTCGA-TGGCAGCCTTTTTTT
*
1158305 AAAGCCCACGCAAGTCGATGGCAGCCTTTTT
1 AAAGCCCACACAAGTCGATGGCAGCCTTTTT
1158336 CAAATCACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 19 0.70
33 8 0.30
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGATGGCAGCCTTTTTTT
Found at i:1159478 original size:20 final size:20
Alignment explanation
Indices: 1159453--1159598 Score: 98
Period size: 20 Copynumber: 6.8 Consensus size: 20
1159443 ACCCCGATGA
*
1159453 ATCGATACATTTTTCAATGT
1 ATCGATACATTTATCAATGT
* * *
1159473 ATCGATACATGTATGAGTGT
1 ATCGATACATTTATCAATGT
1159493 ATCGATACATTCTATCTTTTACCCTGATGT
1 ATCGATACATT-TATC----A-----ATGT
*
1159523 ATCGATACATTTTTCAATGT
1 ATCGATACATTTATCAATGT
* *
1159543 ATCGATACATGTA-CGAATAT
1 ATCGATACATTTATC-AATGT
1159563 ATCGATACATTCT-TCAATGT
1 ATCGATACATT-TATCAATGT
1159583 ATCGATACATTCTATC
1 ATCGATACATT-TATC
1159599 TTTTTACCCA
Statistics
Matches: 99, Mismatches: 13, Indels: 27
0.71 0.09 0.19
Matches are distributed among these distances:
19 1 0.01
20 72 0.73
21 7 0.07
25 2 0.02
29 3 0.03
30 14 0.14
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (20 bp):
ATCGATACATTTATCAATGT
Found at i:1159512 original size:70 final size:70
Alignment explanation
Indices: 1159399--1159575 Score: 282
Period size: 70 Copynumber: 2.5 Consensus size: 70
1159389 TTTTACCCAT
* * *
1159399 ATGTATCGATACATTTTTTAATGTATCGATACATTCTATCTTTTACCCCGATGAATCGATACATT
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTACCCCGATGAATCGATACATT
1159464 TTTCA
66 TTTCA
* * *
1159469 ATGTATCGATACATGTATGAGTGTATCGATACATTCTATCTTTTACCCTGATGTATCGATACATT
1 ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTACCCCGATGAATCGATACATT
1159534 TTTCA
66 TTTCA
* *
1159539 ATGTATCGATACATGTACGAATATATCGATACATTCT
1 ATGTATCGATACATGTATGAATGTATCGATACATTCT
1159576 TCAATGTATC
Statistics
Matches: 98, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 98 1.00
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (70 bp):
ATGTATCGATACATGTATGAATGTATCGATACATTCTATCTTTTACCCCGATGAATCGATACATT
TTTCA
Found at i:1159552 original size:90 final size:92
Alignment explanation
Indices: 1159453--1159643 Score: 273
Period size: 90 Copynumber: 2.1 Consensus size: 92
1159443 ACCCCGATGA
* * * * *
1159453 ATCGATACATTTTTC-AATGTATCGATACATGT-ATGAGTGTATCGATACATTCTATC-TTTTAC
1 ATCGATACATTGTACGAATATATCGATACAT-TCATCAATGTATCGATACATTCTATCTTTTTAC
* *
1159515 CCTGATGTATCGATACATTTTTCAATGT
65 CCAGATGTATCGATAAATTTTTCAATGT
*
1159543 ATCGATACA-TGTACGAATATATCGATACATTCTTCAATGTATCGATACATTCTATCTTTTTACC
1 ATCGATACATTGTACGAATATATCGATACATTCATCAATGTATCGATACATTCTATCTTTTTACC
1159607 CAGATGTATCGATAAATTTTTCAATGT
66 CAGATGTATCGATAAATTTTTCAATGT
1159634 ATCGATACAT
1 ATCGATACAT
1159644 CTAGTTAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
89 4 0.04
90 44 0.49
91 41 0.46
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.40
Consensus pattern (92 bp):
ATCGATACATTGTACGAATATATCGATACATTCATCAATGTATCGATACATTCTATCTTTTTACC
CAGATGTATCGATAAATTTTTCAATGT
Found at i:1167548 original size:10 final size:11
Alignment explanation
Indices: 1167523--1167549 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1167513 CTTCGTACCA
1167523 AAAAAACAAAT
1 AAAAAACAAAT
1167534 AAAAAACAAAT
1 AAAAAACAAAT
1167545 AAAAA
1 AAAAA
1167550 GAGAAGGGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAACAAAT
Found at i:1169379 original size:14 final size:13
Alignment explanation
Indices: 1169359--1169397 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
1169349 CCTTTTTCCA
1169359 TTTGTCAAGAATT
1 TTTGTCAAGAATT
*
1169372 TATTGTCAAGAACT
1 T-TTGTCAAGAATT
*
1169386 TTTGTCTAGAAT
1 TTTGTCAAGAAT
1169398 GTTCATCTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 10 0.45
14 12 0.55
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (13 bp):
TTTGTCAAGAATT
Found at i:1169442 original size:28 final size:28
Alignment explanation
Indices: 1169410--1169843 Score: 360
Period size: 28 Copynumber: 15.5 Consensus size: 28
1169400 TCATCTCTTG
1169410 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
1169438 AAAGCCCACAAGTCAGTGGCAT-CTCTTG
1 AAAGCCCACAAGTCAGTGGCATCCT-TTC
1169466 AAAGCCCACAAGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
1169494 AAAGCCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
1169522 AAAGCCCACAGGTCAGTCGTATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
1169550 AAAGTCCACAAGTTAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
** *
1169578 AAAGTTCACAGGTCAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1169606 AAAGTCCACAAGTCAGTGGCATCCTTTT
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * ** *
1169634 TAAGCCCATACCTCGGTGGCA-CCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
1169661 TAAAGCCCCCAAG-CAATGGCACCCTTTTT
1 -AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * * * *
1169690 AAA-CCCATAAGTTAGTGGAACCCTTCC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1169717 AAAGCCCACAAG-CAAGTGGCACCCTTTT
1 AAAGCCCACAAGTC-AGTGGCATCCTTTC
* * * * **
1169745 TAAGCCCACAGGTCGGTGGCACCCTCCC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
1169773 AAAGCCCACAAG-CAAGTGGCACCCTTTT
1 AAAGCCCACAAGTC-AGTGGCATCCTTTC
* ** * * *
1169801 TAAGCCTGCAAGTCGGGGGCA-CCGTTCC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
*
1169829 AAAGCCCACAGGTCA
1 AAAGCCCACAAGTCA
1169844 ATGCCACATC
Statistics
Matches: 321, Mismatches: 73, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
27 27 0.08
28 287 0.89
29 7 0.02
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:1169743 original size:111 final size:112
Alignment explanation
Indices: 1169600--1169803 Score: 295
Period size: 111 Copynumber: 1.8 Consensus size: 112
1169590 TCAGTGGCAT
* * * * * * *
1169600 CCTTTCAAAGTCCACAAGTCAGTGGCATCCTTTTTAAGCCCATACCTCGGTGGCACCTTTCTAAA
1 CCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAGCCCACACCTCGGTGGCACCCTCCCAAA
*
1169665 GCCCCCAAGCAA-TGGCACCCTTTTTAAACCCATAAGTTAGTGGAAC
66 GCCCACAAGCAAGTGGCACCCTTTTTAAACCCATAAGTTAGTGGAAC
**
1169711 CCTTCCAAAGCCCACAAG-CAAGTGGCACCCTTTTTAAGCCCACAGGTCGGTGGCACCCTCCCAA
1 CCTTCCAAAGCCCACAAGTC-AGTGGCACCCTTTTTAAGCCCACACCTCGGTGGCACCCTCCCAA
1169775 AGCCCACAAGCAAGTGGCACCCTTTTTAA
65 AGCCCACAAGCAAGTGGCACCCTTTTTAA
1169804 GCCTGCAAGT
Statistics
Matches: 81, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
110 1 0.01
111 65 0.80
112 15 0.19
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (112 bp):
CCTTCCAAAGCCCACAAGTCAGTGGCACCCTTTTTAAGCCCACACCTCGGTGGCACCCTCCCAAA
GCCCACAAGCAAGTGGCACCCTTTTTAAACCCATAAGTTAGTGGAAC
Found at i:1176216 original size:28 final size:27
Alignment explanation
Indices: 1176151--1176220 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1176141 TTCACAATCA
1176151 GGATACTCCAACCCCGTTAATCATCGG
1 GGATACTCCAACCCCGTTAATCATCGG
**
1176178 GGATACTCCAACCCCGTT-ATTTTCGAGG
1 GGATACTCCAACCCCGTTAATCATC--GG
1176206 GGATACTCCAACCCC
1 GGATACTCCAACCCC
1176221 TGATTTATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
26 4 0.10
27 18 0.46
28 17 0.44
ACGTcount: A:0.24, C:0.34, G:0.19, T:0.23
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTAATCATCGG
Found at i:1176256 original size:79 final size:79
Alignment explanation
Indices: 1176173--1176347 Score: 219
Period size: 79 Copynumber: 2.2 Consensus size: 79
1176163 CCCGTTAATC
* * *
1176173 ATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCTGATTT-ATTCTT-AAA
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCC-GATTTCATT-TTCAAA
* **
1176236 ATATTGATTTCTCATA
64 ACATCAATTTCTCATA
* * * *
1176252 ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCTAATCCCGGTTTCATTTTCAAAGC
1 ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTTCATTTTCAAAAC
*
1176317 ATCAATTTCTCTTA
66 ATCAATTTCTCATA
1176331 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
1176348 TCCGATTTTA
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
78 6 0.07
79 77 0.93
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCAAAGGGATACTCCAACCCCGATTTCATTTTCAAAAC
ATCAATTTCTCATA
Found at i:1176384 original size:51 final size:51
Alignment explanation
Indices: 1176329--1176449 Score: 181
Period size: 51 Copynumber: 2.4 Consensus size: 51
1176319 CAATTTCTCT
* *
1176329 TAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACACCCA-TTTTCCA
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAACTTTT-CA
*
1176380 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAGCACCAACTTTTCA
1 TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAACTTTTCA
* *
1176431 CAATCGGGGATATTCCAAC
1 TAATCGGGGATACTCCAAC
1176450 CCCGTTATTT
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 60 0.94
52 4 0.06
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.31
Consensus pattern (51 bp):
TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAACTTTTCA
Found at i:1176487 original size:79 final size:76
Alignment explanation
Indices: 1176385--1176532 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 76
1176375 TTCCATAATC
* * * *
1176385 GGGGATACTCCAACTCCGATTTTATTTCCAAAGCACCAACTTTTCACAATCGGGGATATTCCAAC
1 GGGGACACTCCAACCCCGATTTTATTTCCAAAACACCAA--TTTCAC-ATCGGGGATACTCCAAC
1176450 CCCGTTATTTCTGA
63 CCCGTTATTTCTGA
* * * * *
1176464 GGGGACACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTCTCATTGGGGATACTCCAACCCC
1 GGGGACACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCACATCGGGGATACTCCAACCCC
1176529 GTTA
66 GTTA
1176533 ATCATCGGGG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
76 22 0.37
77 5 0.08
79 33 0.55
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (76 bp):
GGGGACACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCACATCGGGGATACTCCAACCCC
GTTATTTCTGA
Found at i:1176545 original size:27 final size:28
Alignment explanation
Indices: 1176507--1176584 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 28
1176497 CATCAATTTC
*
1176507 TCATTGGGGATACTCCAACCCCGTTA-A
1 TCATAGGGGATACTCCAACCCCGTTACA
* *
1176534 TCATCGGGGATACTCCAACCCCGTTACC
1 TCATAGGGGATACTCCAACCCCGTTACA
**
1176562 TCCGAGGGGATACTCCAACCCCG
1 TCATAGGGGATACTCCAACCCCG
1176585 GCTTTATTTC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 25 0.56
28 20 0.44
ACGTcount: A:0.23, C:0.36, G:0.21, T:0.21
Consensus pattern (28 bp):
TCATAGGGGATACTCCAACCCCGTTACA
Found at i:1176612 original size:103 final size:104
Alignment explanation
Indices: 1176433--1176635 Score: 282
Period size: 103 Copynumber: 1.9 Consensus size: 104
1176423 ACTTTTCACA
* ** * * *
1176433 ATCGGGGATATTCCAACCCCGTTATTTCTGAGGGGACACTCCAACCCCGGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACTCCAACCCCGGCTTTATTTCCAAAAC
1176498 ATCAATTTCTC-ATTGGGGATACTCCAACCCCGTTAATC
66 ATCAATTTCTCAATTGGGGATACTCCAACCCCGTTAATC
* *
1176536 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAAT
1 ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACTCCAACCCCGGCTTTATTTCCAAAAC
** *
1176601 ATTGATTTCTCATAATTGGGGATACTCTAACCCCG
66 ATCAATTTCTC--AATTGGGGATACTCCAACCCCG
1176636 ATTTTATTTC
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
103 66 0.77
106 20 0.23
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (104 bp):
ATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGACACTCCAACCCCGGCTTTATTTCCAAAAC
ATCAATTTCTCAATTGGGGATACTCCAACCCCGTTAATC
Found at i:1176744 original size:52 final size:51
Alignment explanation
Indices: 1176567--1176787 Score: 237
Period size: 51 Copynumber: 4.3 Consensus size: 51
1176557 TTACCTCCGA
** * * *** * * *
1176567 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATTTCTCATAATT
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
* *
1176618 GGGGATACTCTAACCCCGATTTTA-TTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTTCACAATC
* * **
1176669 GGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTC-ACAATC
* *
1176721 GGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTT-TCAAAACACCAATTTTTCACAATC
*
1176773 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1176788 TCATTATTTC
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
50 3 0.02
51 73 0.51
52 50 0.35
53 16 0.11
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTTCACAATC
Found at i:1176807 original size:28 final size:27
Alignment explanation
Indices: 1176775--1176850 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
1176765 TCACAATCGA
* *
1176775 GGATACTCCAACCTCATTATTTCTTC-GG
1 GGATACTCCAACCCCATTA--CCTTCAGG
1176803 GGATACTCCAACCCCATTACCTTCGAGG
1 GGATACTCCAACCCCATTACCTTC-AGG
*
1176831 GGATACTCCAACTCCATTAC
1 GGATACTCCAACCCCATTAC
1176851 TATCTGCAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 4 0.09
28 39 0.91
ACGTcount: A:0.25, C:0.33, G:0.14, T:0.28
Consensus pattern (27 bp):
GGATACTCCAACCCCATTACCTTCAGG
Found at i:1188945 original size:11 final size:10
Alignment explanation
Indices: 1188927--1188967 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
1188917 CTTTTCTAAA
1188927 AAAAAAAAAC
1 AAAAAAAAAC
*
1188937 AACAAAAAAC
1 AAAAAAAAAC
1188947 GAATAAAAAAAC
1 -AA-AAAAAAAC
1188959 AAAAAAAAA
1 AAAAAAAAA
1188968 AAGAAAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 16 0.59
11 4 0.15
12 7 0.26
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1190128 original size:54 final size:54
Alignment explanation
Indices: 1190046--1190329 Score: 327
Period size: 54 Copynumber: 5.0 Consensus size: 54
1190036 CTCCTTTCAC
* *
1190046 CCTTTAGTCCTCAAAGAGCAAGACGCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1190100 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1190154 -CTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGTCCACACAAGTTGGTGGCG
1 CCTTTAGTCCTCAAAGAGCAGGATGCC---T--TTT-AAAGCCCACACAAGTTGGTGGCA
* * * *
1190213 CCTTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGCCCACACAAGCTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
1190268 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGATG------CCTTTTAAAGCCCACACAAGTTGGTGGCA
1190329 C
1 C
1190330 TTCCCAGTCC
Statistics
Matches: 195, Mismatches: 21, Indels: 21
0.82 0.09 0.09
Matches are distributed among these distances:
53 25 0.13
54 50 0.26
55 43 0.22
56 3 0.02
58 3 0.02
59 20 0.10
60 1 0.01
61 50 0.26
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (54 bp):
CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1190325 original size:116 final size:113
Alignment explanation
Indices: 1190071--1190614 Score: 467
Period size: 116 Copynumber: 4.9 Consensus size: 113
1190061 GAGCAAGACG
* *
1190071 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTCAAAGC
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGC
* *
1190136 CCACACGAGTTGGTGGCACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
66 CCACACAAGCTGGTGGCACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
1190184 CCTTTCAAAGTCCACACAAGTTGGTGGCGCCTTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAG
* *
1190249 CCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGATGCCTTTT
65 CCCACACAAGCTGGTGGCA-C-TTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
1190300 CCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCCAGTCCTCAAAAAGTAGGACG-C--T----
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--TAGTCCTCAAAGAGCAAGACGCCTTTCAAA
* * * ** **
1190357 --CC-CTC---CT-TTCGCCTTTTTGTCCTCAAAGAGCAGGATG------
64 GCCCACACAAGCTGGTGGCACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
1190394 CCATTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGATGCCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAAGACGCCTT-T-C--
* * *
1190459 TTAAAGCCCACACAAGTTGGTGGCACTTCCTAGTCCTCAAAGAGTAGGACGCC-TTT
61 --AAAGCCCACACAAGCTGGTGGCACTT-C-AGTCCTCAAAGAGCAGGATGCCTTTT
** * *
1190515 -C----AAAGCCCACATGAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTTAAAG
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAAGACGCCTTTCAAAG
*
1190575 CCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCA
65 CCCACACAAGCTGGTGGCA-CTTC-AGTCCTCAAAGAGCA
1190615 AGGCGCTCTC
Statistics
Matches: 348, Mismatches: 47, Indels: 75
0.74 0.10 0.16
Matches are distributed among these distances:
94 43 0.12
95 2 0.01
96 2 0.01
98 1 0.00
100 21 0.06
102 3 0.01
103 2 0.01
106 2 0.01
107 2 0.01
109 2 0.01
110 41 0.12
111 3 0.01
113 30 0.09
114 55 0.16
115 7 0.02
116 131 0.38
120 1 0.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.25
Consensus pattern (113 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGACGCCTTTCAAAGC
CCACACAAGCTGGTGGCACTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Done.