Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 36 of 352
Found at i:11469933 original size:31 final size:31
Alignment explanation
Indices: 11469898--11470045 Score: 242
Period size: 31 Copynumber: 4.8 Consensus size: 31
11469888 TTGTCACTTT
*
11469898 TAGCCGAAGCTACCACTATTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
* * *
11469929 TAGCCGGAGCTACTATTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
11469960 TAGCCGGAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
*
11469991 TAGCAGAAGCTACCACTTTTCACTGATCAGG
1 TAGCCGAAGCTACCACTTTTCACTGATCAGG
11470022 TAGCCGAAGCTACCACTTTTCACT
1 TAGCCGAAGCTACCACTTTTCACT
11470046 TGTCATTTGT
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 108 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
TAGCCGAAGCTACCACTTTTCACTGATCAGG
Found at i:11470122 original size:50 final size:50
Alignment explanation
Indices: 11470021--11470197 Score: 273
Period size: 50 Copynumber: 3.5 Consensus size: 50
11470011 CACTGATCAG
* *
11470021 GTAGCCGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCATTTGTCCTTGATCAGATAAGT
* * *
11470072 GTAGCCGAAGCTATCACTTATCTCTTTCACTTATCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
* * *
11470122 GTAGCCAAAACTATTACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
11470172 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
11470198 GTTGCCATGG
Statistics
Matches: 112, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 89 0.79
51 23 0.21
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.36
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
Found at i:11474735 original size:23 final size:23
Alignment explanation
Indices: 11474706--11474751 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11474696 ATTATATTAA
* *
11474706 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAAAATAAATAT
*
11474729 AATTAAAAATAAAAAATATATAT
1 AATTAAAAATAAAAAATAAATAT
11474752 TTATTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AATTAAAAATAAAAAATAAATAT
Found at i:11476457 original size:25 final size:25
Alignment explanation
Indices: 11476427--11476506 Score: 99
Period size: 25 Copynumber: 3.2 Consensus size: 25
11476417 GGACTCACCA
* *
11476427 CAGCTCGTATGAGCTTACCGATTTT
1 CAGCTCATATGAGCTTACCGATATT
* * *
11476452 CTGCTCATGA-GAGCTTATCGATACT
1 CAGCTCAT-ATGAGCTTACCGATATT
11476477 CAGCTCATATGAGCTTACCGATATT
1 CAGCTCATATGAGCTTACCGATATT
11476502 CAGCT
1 CAGCT
11476507 TGTAGGAGCT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
24 1 0.02
25 43 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (25 bp):
CAGCTCATATGAGCTTACCGATATT
Found at i:11476515 original size:25 final size:25
Alignment explanation
Indices: 11476427--11476519 Score: 98
Period size: 25 Copynumber: 3.7 Consensus size: 25
11476417 GGACTCACCA
*
11476427 CAGCTCGTATGAGCTTACCGATTTT
1 CAGCTCGTATGAGCTTACCGATATT
* * * *
11476452 CTGCTCATGA-GAGCTTATCGATACT
1 CAGCTCGT-ATGAGCTTACCGATATT
*
11476477 CAGCTCATATGAGCTTACCGATATT
1 CAGCTCGTATGAGCTTACCGATATT
* *
11476502 CAGCTTGTAGGAGCTTAC
1 CAGCTCGTATGAGCTTAC
11476520 ATATTATCGC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
24 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGATATT
Found at i:11482042 original size:65 final size:65
Alignment explanation
Indices: 11481971--11482097 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
11481961 TTTCTGAGTG
* * ** * **
11481971 GTACACACAAAGTATACCTTTCATTTTCATATGGTATACACAAAGTATACCTTTCCTTTTCAAGT
1 GTACACACAAAGTACACATAACATTTTCATATGGTATACACAAAATATACCTAACCTTTTCAAGT
* *
11482036 GTACACACAAAGTACACATAACCTTTTCATGTGGTATACACAAAATATACCTAACCTTTTCA
1 GTACACACAAAGTACACATAACATTTTCATATGGTATACACAAAATATACCTAACCTTTTCA
11482098 CATTCGATAG
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (65 bp):
GTACACACAAAGTACACATAACATTTTCATATGGTATACACAAAATATACCTAACCTTTTCAAGT
Found at i:11482049 original size:32 final size:33
Alignment explanation
Indices: 11481967--11482097 Score: 140
Period size: 33 Copynumber: 4.0 Consensus size: 33
11481957 TTTCTTTCTG
** *
11481967 AGTGGTACACACAAAGTATACCTTTCATTTTCA
1 AGTGGTACACACAAAGTATACCTAACCTTTTCA
* **
11482000 TA-TGGTATACACAAAGTATACCTTTCCTTTTCA
1 -AGTGGTACACACAAAGTATACCTAACCTTTTCA
* *
11482033 AGT-GTACACACAAAGTACACATAACCTTTTCA
1 AGTGGTACACACAAAGTATACCTAACCTTTTCA
* * *
11482065 TGTGGTATACACAAAATATACCTAACCTTTTCA
1 AGTGGTACACACAAAGTATACCTAACCTTTTCA
11482098 CATTCGATAG
Statistics
Matches: 83, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
32 27 0.33
33 55 0.66
34 1 0.01
ACGTcount: A:0.35, C:0.22, G:0.10, T:0.33
Consensus pattern (33 bp):
AGTGGTACACACAAAGTATACCTAACCTTTTCA
Found at i:11482132 original size:29 final size:29
Alignment explanation
Indices: 11482090--11482158 Score: 129
Period size: 29 Copynumber: 2.4 Consensus size: 29
11482080 ATATACCTAA
11482090 CCTTTTCACATTCGATAGCCAAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
*
11482119 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCGATAGCCAAAGCTATC
11482148 CCTTTTCACAT
1 CCTTTTCACAT
11482159 GGTACACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.25, C:0.32, G:0.10, T:0.33
Consensus pattern (29 bp):
CCTTTTCACATTCGATAGCCAAAGCTATC
Found at i:11484216 original size:15 final size:15
Alignment explanation
Indices: 11484193--11484232 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
11484183 GAAGCCCAGA
11484193 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* * *
11484208 ATAAAGAAACCCATG
1 ATAAGGAAATCCAAG
11484223 ATAAGGAAAT
1 ATAAGGAAAT
11484233 TCCATTTACA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.55, C:0.12, G:0.17, T:0.15
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:11485092 original size:6 final size:6
Alignment explanation
Indices: 11485081--11485179 Score: 198
Period size: 6 Copynumber: 16.5 Consensus size: 6
11485071 ACTCAACTCT
11485081 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
11485129 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA CATATA CATATA CATATA
11485177 CAT
1 CAT
11485180 GTAACATAGT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 93 1.00
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:11486781 original size:93 final size:93
Alignment explanation
Indices: 11486666--11486836 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
11486656 GCCCATAAGT
* *
11486666 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
11486731 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGAATGCCTAGTTACATCTCTC
* * *
11486759 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
11486824 CGAGTTCGAATGC
66 CGAGCTCGAATGC
11486837 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGAATGCCTAGTTACATCTCTC
Found at i:11486831 original size:46 final size:46
Alignment explanation
Indices: 11486658--11486827 Score: 195
Period size: 46 Copynumber: 3.7 Consensus size: 46
11486648 TGTAACCCGC
* * *
11486658 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
* * *
11486704 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCAT
* *
11486754 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
11486797 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
11486828 TTCGAATGCT
Statistics
Matches: 103, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
42 1 0.01
43 8 0.08
44 1 0.01
46 58 0.56
47 27 0.26
49 1 0.01
50 6 0.06
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCAT
Found at i:11490597 original size:15 final size:15
Alignment explanation
Indices: 11490577--11490606 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
11490567 TTTCTGAGTG
11490577 GTACATACAAAGTAT
1 GTACATACAAAGTAT
11490592 GTACATACAAAGTAT
1 GTACATACAAAGTAT
11490607 ACCTTTCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (15 bp):
GTACATACAAAGTAT
Found at i:11490636 original size:33 final size:33
Alignment explanation
Indices: 11490598--11490783 Score: 191
Period size: 33 Copynumber: 5.7 Consensus size: 33
11490588 GTATGTACAT
* **
11490598 ACAAAGTATACCTTTCCTTTTCATATGGTATAC
1 ACAAAGTATACATAACCTTTTCATATGGTATAC
** *
11490631 ACAAAGTATACATTTCCTTTTTATATGGTATAC
1 ACAAAGTATACATAACCTTTTCATATGGTATAC
** *
11490664 ACAAAGTATACATTTCCTTTTCA-A-GTGTACAC
1 ACAAAGTATACATAACCTTTTCATATG-GTATAC
* *
11490696 ACAAAGTGTACATAACCTTTTCA-A-GTGTACAC
1 ACAAAGTATACATAACCTTTTCATATG-GTATAC
** *
11490728 ACAAAGTGCACATAACCTTTTCATGTGGTATAC
1 ACAAAGTATACATAACCTTTTCATATGGTATAC
*
11490761 ACAAAGTATACCTAACCTTTTCA
1 ACAAAGTATACATAACCTTTTCA
11490784 CATTCAATAG
Statistics
Matches: 137, Mismatches: 13, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
31 1 0.01
32 57 0.42
33 78 0.57
34 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.10, T:0.34
Consensus pattern (33 bp):
ACAAAGTATACATAACCTTTTCATATGGTATAC
Found at i:11490822 original size:29 final size:29
Alignment explanation
Indices: 11490776--11490841 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
11490766 GTATACCTAA
*
11490776 CCTTTTCACATTCAATAGCTGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAGCTATC
*
11490805 CCTTTTCACATTCGATAGCCGAAGCTATC
1 CCTTTTCACATTCAATAGCCGAAGCTATC
*
11490834 TCTTTTCA
1 CCTTTTCA
11490842 TATGGTACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.24, C:0.29, G:0.11, T:0.36
Consensus pattern (29 bp):
CCTTTTCACATTCAATAGCCGAAGCTATC
Found at i:11496671 original size:6 final size:6
Alignment explanation
Indices: 11496660--11496717 Score: 55
Period size: 6 Copynumber: 9.0 Consensus size: 6
11496650 ATTAGGGTAG
*
11496660 GAAAAA GAAAAA GAAGAAAA GAAAAA GAGAAAGA TGAAAAA G-AAAA TAAAAA
1 GAAAAA GAAAAA G-A-AAAA GAAAAA GA-AAA-A -GAAAAA GAAAAA GAAAAA
11496712 GAAAAA
1 GAAAAA
11496718 AGGGCCAAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
5 4 0.09
6 23 0.52
7 6 0.14
8 9 0.20
9 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.19, T:0.03
Consensus pattern (6 bp):
GAAAAA
Found at i:11496685 original size:20 final size:20
Alignment explanation
Indices: 11496660--11496719 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
11496650 ATTAGGGTAG
11496660 GAAAAAGAAAAAGAAGAAAA
1 GAAAAAGAAAAAGAAGAAAA
* *
11496680 GAAAAAGAGAAAGATGAAAA
1 GAAAAAGAAAAAGAAGAAAA
*
11496700 -AGAAAATAAAAAGAA-AAAA
1 GA-AAAAGAAAAAGAAGAAAA
11496719 G
1 G
11496720 GGCCAAAGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 5 0.15
20 28 0.85
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.03
Consensus pattern (20 bp):
GAAAAAGAAAAAGAAGAAAA
Found at i:11496692 original size:26 final size:26
Alignment explanation
Indices: 11496663--11496713 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
11496653 AGGGTAGGAA
11496663 AAAGA-AAAAGAAGAAAAGAAAAAGAG
1 AAAGATAAAA-AAGAAAAGAAAAAGAG
* *
11496689 AAAGATGAAAAAGAAAATAAAAAGA
1 AAAGATAAAAAAGAAAAGAAAAAGA
11496714 AAAAAGGGCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (26 bp):
AAAGATAAAAAAGAAAAGAAAAAGAG
Found at i:11498004 original size:17 final size:20
Alignment explanation
Indices: 11497970--11498018 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 20
11497960 CATGACAGGT
11497970 TAATATTTAATTATTTTTAA
1 TAATATTTAATTATTTTTAA
*
11497990 TAATATTT-A-TATTTTAAAA
1 TAATATTTAATTATTTT-TAA
11498009 TAAT-TTTAAT
1 TAATATTTAAT
11498019 AATTAAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 9 0.36
19 8 0.32
20 8 0.32
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TAATATTTAATTATTTTTAA
Found at i:11507256 original size:25 final size:21
Alignment explanation
Indices: 11507205--11507263 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 21
11507195 ATCCATATAA
*
11507205 TTTTAAATTTTTTTAATAAAT
1 TTTTATATTTTTTTAATAAAT
11507226 TATTTATATTATTTTTAATTTAATAT
1 T-TTTATATT-TTTTTAA--TAA-AT
11507252 TTTTATATTTTT
1 TTTTATATTTTT
11507264 CATCTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.03
22 7 0.22
23 7 0.22
24 3 0.09
25 11 0.34
26 3 0.09
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTATATTTTTTTAATAAAT
Found at i:11507314 original size:24 final size:25
Alignment explanation
Indices: 11507245--11507314 Score: 67
Period size: 25 Copynumber: 2.9 Consensus size: 25
11507235 TATTTTTAAT
*
11507245 TTAATATTTTT-ATATTTTTCATCTA
1 TTAAAATTTTTAATATTTTT-ATCTA
**
11507270 TTAAAATTTTTAA-ATAATTATC--
1 TTAAAATTTTTAATATTTTTATCTA
11507292 TTATAAATTTTTAATATTTTTAT
1 TTA-AAATTTTTAATATTTTTAT
11507315 TATAATATTA
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.08
23 10 0.27
24 9 0.24
25 14 0.38
26 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (25 bp):
TTAAAATTTTTAATATTTTTATCTA
Found at i:11507317 original size:22 final size:22
Alignment explanation
Indices: 11507205--11507319 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
11507195 ATCCATATAA
11507205 TTTTAA-ATTTTT-TTAATAAAT
1 TTTTAATATTTTTATT-ATAAAT
11507226 TATTTATATTATTTTTAATT-TAATAT
1 T-TTTA-A-TATTTTT-ATTATAA-AT
11507252 TTTT-ATATTTTTCATCTATTAAAAT
1 TTTTAATATTTTT-AT-TA-T-AAAT
* * *
11507277 TTTTAAATAATTATCTTATAAAT
1 TTTT-AATATTTTTATTATAAAT
11507300 TTTTAATATTTTTATTATAA
1 TTTTAATATTTTTATTATAA
11507320 TATTATATAT
Statistics
Matches: 74, Mismatches: 7, Indels: 25
0.70 0.07 0.24
Matches are distributed among these distances:
21 1 0.01
22 26 0.35
23 11 0.15
24 1 0.01
25 21 0.28
26 6 0.08
27 8 0.11
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTTAATATTTTTATTATAAAT
Found at i:11510877 original size:24 final size:24
Alignment explanation
Indices: 11510850--11510907 Score: 91
Period size: 24 Copynumber: 2.4 Consensus size: 24
11510840 ATATAATATA
11510850 TAAATGTAAATGTAAAATTAAAAC
1 TAAATGTAAATGTAAAATTAAAAC
*
11510874 TAAATGTAAATGTAGAATTAAAAC
1 TAAATGTAAATGTAAAATTAAAAC
11510898 TATAAT-TAAA
1 TA-AATGTAAA
11510908 ATTAAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (24 bp):
TAAATGTAAATGTAAAATTAAAAC
Found at i:11513645 original size:46 final size:46
Alignment explanation
Indices: 11513603--11513866 Score: 384
Period size: 46 Copynumber: 5.7 Consensus size: 46
11513593 ATGAAATGTG
* *
11513603 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
11513649 CAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
11513695 CAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * **
11513741 TAAGACCATGGCTGAAAGATACCATGGCAATATGATGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* *
11513787 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
* * * *
11513833 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
11513867 TCGAAGATAA
Statistics
Matches: 200, Mismatches: 18, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 200 1.00
ACGTcount: A:0.41, C:0.16, G:0.25, T:0.18
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAA
Found at i:11515476 original size:34 final size:35
Alignment explanation
Indices: 11515438--11515560 Score: 187
Period size: 34 Copynumber: 3.6 Consensus size: 35
11515428 AATGTGAAAC
*
11515438 GTAGGTATGGTA-TTTCCATACTGAGCTATGATAT
1 GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
*
11515472 GTAGGTATGGTATTTT-CATATTGAGCTATGATAC
1 GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
* * *
11515506 GTAGGTATGATATTTTCCATATTGAGTTATGAAAT
1 GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
11515541 GTAGGTATGGTATTTTCCAT
1 GTAGGTATGGTATTTTCCAT
11515561 GAGGAAAACC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
34 43 0.54
35 37 0.46
ACGTcount: A:0.27, C:0.09, G:0.23, T:0.41
Consensus pattern (35 bp):
GTAGGTATGGTATTTTCCATATTGAGCTATGATAT
Found at i:11521095 original size:41 final size:40
Alignment explanation
Indices: 11520965--11521115 Score: 187
Period size: 40 Copynumber: 3.8 Consensus size: 40
11520955 TTAATTTTTT
* * *
11520965 GCGGCGTTTTTCAAAAAGCGCCGCTAATGCTCAACCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
* **
11521005 GCGGCATTTTTTAAAAAGCATCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
*
11521045 GTGGC-TTTTTTATAAAAGCGCCGCTAATGCTCGATCTATA
1 GCGGCGTTTTTTA-AAAAGCGCCGCTAATGCTCGATCTATA
* * *
11521085 GCAGCGTTTTTTCTAAAAGCGTCGCTAATGC
1 GCGGCGTTTTTT-AAAAAGCGCCGCTAATGC
11521116 CACTAAAGCT
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
39 7 0.07
40 66 0.69
41 22 0.23
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (40 bp):
GCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTATA
Found at i:11521252 original size:40 final size:40
Alignment explanation
Indices: 11521163--11521252 Score: 126
Period size: 40 Copynumber: 2.2 Consensus size: 40
11521153 ATTTTTTTGT
11521163 GACATTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGC
1 GACATTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGC
* * * * *
11521203 GGCACTTTTTGAAAAACGCCGCTAATGCTCGATTTGTAGC
1 GACATTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGC
*
11521243 GACGTTTTTT
1 GACATTTTTT
11521253 TATCCAAACG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (40 bp):
GACATTTTTTAAAAAACGCCGCTAATGCTCGATCTATAGC
Found at i:11526868 original size:24 final size:26
Alignment explanation
Indices: 11526841--11526893 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
11526831 TTTCATCACT
11526841 ATAAATAA-TGAC-AACTTTTGATTA
1 ATAAATAAGTGACAAACTTTTGATTA
*
11526865 ATAATTAAGTGACATAACTTTTGATTA
1 ATAAATAAGTGACA-AACTTTTGATTA
11526892 AT
1 AT
11526894 TATAATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
27 14 0.56
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (26 bp):
ATAAATAAGTGACAAACTTTTGATTA
Found at i:11529271 original size:3 final size:3
Alignment explanation
Indices: 11529259--11529291 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11529249 ATGTCTTAAC
11529259 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11529292 TTACTTAGTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:11536934 original size:46 final size:46
Alignment explanation
Indices: 11536874--11537233 Score: 481
Period size: 46 Copynumber: 8.0 Consensus size: 46
11536864 TTTGACGTGA
* * * * * *
11536874 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * *
11536920 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
11536966 TGCCATGGTACCTTTCAACCATGGTCTTACACATCTCATATCA-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11537011 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11537057 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA----GGT
11537107 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11537153 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CA-GT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11537190 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11537234 AGAGCACACT
Statistics
Matches: 285, Mismatches: 14, Indels: 30
0.87 0.04 0.09
Matches are distributed among these distances:
37 30 0.11
38 2 0.01
39 4 0.01
41 1 0.00
42 1 0.00
44 4 0.01
45 49 0.17
46 148 0.52
50 46 0.16
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11537023 original size:91 final size:91
Alignment explanation
Indices: 11536874--11537233 Score: 477
Period size: 91 Copynumber: 4.0 Consensus size: 91
11536864 TTTGACGTGA
* * * * * *
11536874 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTCTGTCATGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCTATCAGGTTGCCATGGTATCTTTCAAC
** * * *
11536939 CATGGTCTTATTCTTTTCATGTCACGT
65 CATGGTCTTACACATTTCATATCAGGT
* *
11536966 TGCCATGGTACCTTTCAACCATGGTCTTACACATCTCATATCA-GTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCAGGTTGCCATGGTATCTTTCAAC
11537030 CATGGTCTTACACATTTCATATCAGGT
65 CATGGTCTTACACATTTCATATCAGGT
11537057 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGGTTGCCATGGTATCTTT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTC-TATCA----GGTTGCCATGGTATCTTT
11537122 CAACCATGGTCTTACACATTTCATATCAGGT
61 CAACCATGGTCTTACACATTTCATATCAGGT
11537153 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C-A-CA-GTTGCCATGGTATCTTTCAACC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGTTGCCATGGTATCTTTCAACC
11537210 ATGGTCTTACACATTTCATATCAG
66 ATGGTCTTACACATTTCATATCAG
11537234 AGAGCACACT
Statistics
Matches: 248, Mismatches: 14, Indels: 21
0.88 0.05 0.07
Matches are distributed among these distances:
83 46 0.19
88 2 0.01
89 1 0.00
91 88 0.35
92 32 0.13
94 3 0.01
96 76 0.31
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCTATCAGGTTGCCATGGTATCTTTCAACC
ATGGTCTTACACATTTCATATCAGGT
Found at i:11537201 original size:37 final size:37
Alignment explanation
Indices: 11537151--11537222 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
11537141 TTCATATCAG
11537151 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACACA
11537188 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 GTTGCCATGGTATCTTTCAACCATGGTCTTACACA
11537223 TTTCATATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.26, G:0.17, T:0.33
Consensus pattern (37 bp):
GTTGCCATGGTATCTTTCAACCATGGTCTTACACACA
Found at i:11542387 original size:46 final size:46
Alignment explanation
Indices: 11542327--11542636 Score: 426
Period size: 46 Copynumber: 7.0 Consensus size: 46
11542317 TTTGACGTGA
* * * * *
11542327 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
** * * **
11542373 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACAT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
11542419 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11542465 TGCCATGGTATCTTTCAACCATGGT-TTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11542510 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11542556 TGCCATGGTATCTTTCAACCAT-GTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
11542593 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11542637 AGAGCACACT
Statistics
Matches: 237, Mismatches: 16, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
37 27 0.11
38 6 0.03
40 4 0.02
43 4 0.02
45 54 0.23
46 142 0.60
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:11542490 original size:25 final size:25
Alignment explanation
Indices: 11542462--11542534 Score: 59
Period size: 25 Copynumber: 3.1 Consensus size: 25
11542452 TCTCATATCA
11542462 GGTTGCCATGGTATCTTTCAACCAT
1 GGTTGCCATGGTATCTTTCAACCAT
** * *
11542487 GGTTTACA---CA--TTTCATATCA-
1 GGTTGCCATGGTATCTTTCA-ACCAT
11542507 GGTTGCCATGGTATCTTTCAACCAT
1 GGTTGCCATGGTATCTTTCAACCAT
11542532 GGT
1 GGT
11542535 CTTACACATT
Statistics
Matches: 33, Mismatches: 8, Indels: 14
0.60 0.15 0.25
Matches are distributed among these distances:
20 11 0.33
21 3 0.09
22 1 0.03
23 1 0.03
24 3 0.09
25 14 0.42
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (25 bp):
GGTTGCCATGGTATCTTTCAACCAT
Found at i:11542540 original size:91 final size:91
Alignment explanation
Indices: 11542327--11542636 Score: 424
Period size: 91 Copynumber: 3.5 Consensus size: 91
11542317 TTTGACGTGA
* * * * *
11542327 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TATCATGTTGCCATGGTATCTTTCAA
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTATCTTTCAA
* * * **
11542391 CCATGGTCTTATTCTTTTCATGTCACAT
65 CCATGGTCTTA-ACATTTCATATCAGGT
*
11542419 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
11542484 CATGGT-TTACACATTTCATATCAGGT
66 CATGGTCTTA-ACATTTCATATCAGGT
11542510 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
11542575 CAT-GTCTT-ACA---C--A-CAGGT
66 CATGGTCTTAACATTTCATATCAGGT
11542593 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
11542637 AGAGCACACT
Statistics
Matches: 203, Mismatches: 13, Indels: 13
0.89 0.06 0.06
Matches are distributed among these distances:
83 49 0.24
84 1 0.00
86 1 0.00
89 3 0.01
90 2 0.01
91 86 0.42
92 61 0.30
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.38
Consensus pattern (91 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGGTCTTAACATTTCATATCAGGT
Found at i:11542601 original size:37 final size:38
Alignment explanation
Indices: 11542551--11542625 Score: 143
Period size: 37 Copynumber: 2.0 Consensus size: 38
11542541 CATTTCATAT
11542551 CAGGTTGCCATGGTATCTTTCAACCAT-GTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
11542588 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
11542626 TTTCATATCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 27 0.73
38 10 0.27
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:11551723 original size:30 final size:30
Alignment explanation
Indices: 11551689--11551750 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
11551679 CTTAACAAGT
*
11551689 AAATGCCTCTAAAATAATAATAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
11551719 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
11551749 AA
1 AA
11551751 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.27
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:11555719 original size:23 final size:23
Alignment explanation
Indices: 11555692--11555738 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
11555682 CAAGTTAACT
*
11555692 GGCCACATCAGTGGTCCCGTTAA
1 GGCCACATCAATGGTCCCGTTAA
11555715 GGCCACATCAATGGTCCCGTTAA
1 GGCCACATCAATGGTCCCGTTAA
11555738 G
1 G
11555739 ACACTAACGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.30, G:0.26, T:0.21
Consensus pattern (23 bp):
GGCCACATCAATGGTCCCGTTAA
Found at i:11556614 original size:76 final size:76
Alignment explanation
Indices: 11556484--11556636 Score: 297
Period size: 76 Copynumber: 2.0 Consensus size: 76
11556474 ATTTTTCCCC
11556484 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
1 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
11556549 TTAGCCTTGTG
66 TTAGCCTTGTG
*
11556560 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCATCCTTTTGAAGAGCCC
1 CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
11556625 TTAGCCTTGTG
66 TTAGCCTTGTG
11556636 C
1 C
11556637 CAAACGAGGT
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 76 1.00
ACGTcount: A:0.25, C:0.30, G:0.10, T:0.35
Consensus pattern (76 bp):
CTTTACACTCCAATCTTGATACACCTTGAACTATTACCATCTTTAACCACCCTTTTGAAGAGCCC
TTAGCCTTGTG
Found at i:11569007 original size:42 final size:42
Alignment explanation
Indices: 11568948--11569030 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
11568938 ATCAACTCCT
*
11568948 CAACAGCTGAAAGTGGGTTCGAAAGCTCCGTACCGTCTACTG
1 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACTG
11568990 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACT
1 CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACT
11569031 ATGTTACAGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.22
Consensus pattern (42 bp):
CAACAGCTGAAAATGGGTTCGAAAGCTCCGTACCGTCTACTG
Found at i:11571491 original size:18 final size:19
Alignment explanation
Indices: 11571470--11571542 Score: 57
Period size: 21 Copynumber: 3.9 Consensus size: 19
11571460 AAGTATTTAA
11571470 TTAATAT-TTTAATAATTT
1 TTAATATATTTAATAATTT
11571488 TTAAGTATATATTAGAT-ATTT
1 TTAA-TATAT-TTA-ATAATTT
* *
11571509 TTAATAT-GTT-ATAA-GT
1 TTAATATATTTAATAATTT
*
11571525 TTAATATCTTTAATAATT
1 TTAATATATTTAATAATT
11571543 ATTTTGTATC
Statistics
Matches: 43, Mismatches: 4, Indels: 15
0.69 0.06 0.24
Matches are distributed among these distances:
16 10 0.23
17 3 0.07
18 10 0.23
19 3 0.07
20 4 0.09
21 11 0.26
22 2 0.05
ACGTcount: A:0.38, C:0.01, G:0.05, T:0.55
Consensus pattern (19 bp):
TTAATATATTTAATAATTT
Found at i:11576964 original size:12 final size:12
Alignment explanation
Indices: 11576947--11576971 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11576937 CACCGTAGGG
11576947 TAACAGTAACAA
1 TAACAGTAACAA
11576959 TAACAGTAACAA
1 TAACAGTAACAA
11576971 T
1 T
11576972 CATAGTCAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.08, T:0.20
Consensus pattern (12 bp):
TAACAGTAACAA
Found at i:11577911 original size:21 final size:21
Alignment explanation
Indices: 11577873--11577916 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
11577863 TTGTTTGTTC
* *
11577873 TTTCTTTCTTTTTCTATTTTA
1 TTTCTTTATTTTTCTATTATA
11577894 TTTCTTTATTCTTT-TATTATA
1 TTTCTTTATT-TTTCTATTATA
11577915 TT
1 TT
11577917 ATTATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTTATTTTTCTATTATA
Found at i:11577916 original size:13 final size:13
Alignment explanation
Indices: 11577908--11577968 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
11577898 TTTATTCTTT
11577908 TATTATATTATTA
1 TATTATATTATTA
11577921 TATTATATTATTA
1 TATTATATTATTA
* *
11577934 TATTTTAGTAATTA
1 TATTATA-TTATTA
11577948 TTATTAT-TTACTTA
1 -TATTATATTA-TTA
*
11577962 TAATATA
1 TATTATA
11577969 GGTAAACATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
13 26 0.67
14 8 0.21
15 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:11578020 original size:20 final size:20
Alignment explanation
Indices: 11577997--11578034 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11577987 CTACACATGT
11577997 ATGT-ATTATACTTTATACAC
1 ATGTAATTA-ACTTTATACAC
*
11578017 ATGTAATTAATTTTATAC
1 ATGTAATTAACTTTATAC
11578035 CTCACATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (20 bp):
ATGTAATTAACTTTATACAC
Found at i:11579970 original size:131 final size:131
Alignment explanation
Indices: 11579751--11579986 Score: 289
Period size: 131 Copynumber: 1.8 Consensus size: 131
11579741 ACCTAAATGA
* * * * *
11579751 ATATTCGATTGTTTTGAGCAAACGAGAAGTCACAACCCAGCACGATAGGGCATGATTCTCGAATT
1 ATATTCGATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCACGAATT
* * *
11579816 GTCAATCACCGAATATTGCCTTCGTTTTAAATG-ATTTTTAGAAGACATGCGTGAAATTTTGGAG
66 GCCAATCACCAAATATCGCCTTCGTTTTAAA-GAATTTTTAGAAGACATGCGTGAAATTTTGGAG
11579880 GG
130 GG
* ** *
11579882 ATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCACG-AT
1 ATATTCGATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATT-CACGAAT
* * *
11579946 TGCCAAAT-ATCAAATCTCGTCTTCGTTTTAAAGAATTTTTA
65 TGCC-AATCACCAAATATCGCCTTCGTTTTAAAGAATTTTTA
11579987 AGTGAATACT
Statistics
Matches: 87, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
130 1 0.01
131 80 0.92
132 6 0.07
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (131 bp):
ATATTCGATTATTTTAAGCAAACGAGAAATCACAACCCAGCACGATAGGGCACGATTCACGAATT
GCCAATCACCAAATATCGCCTTCGTTTTAAAGAATTTTTAGAAGACATGCGTGAAATTTTGGAGG
G
Found at i:11581302 original size:44 final size:44
Alignment explanation
Indices: 11581239--11581465 Score: 328
Period size: 44 Copynumber: 5.2 Consensus size: 44
11581229 CGGGAACACC
* * * *
11581239 AATCTGTTATTTTCGATCTGCTCTCTGCCAATACAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* * * * *
11581283 AATCTGCTATCTTCGATCTGCCCTCTGACAATATAGAGATGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
11581327 AATCTGCTATCTTTGATCTACTCTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
* *
11581371 AATCTGCTATCTTCGATCTGCTCTCCACCAAAACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
*
11581415 AATCTGCTATCTTCGATCTGCTGTCCGCCAATACAGAGACGCCA
1 AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
11581459 AATCTGC
1 AATCTGC
11581466 AGGATTTACC
Statistics
Matches: 164, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 164 1.00
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (44 bp):
AATCTGCTATCTTCGATCTGCTCTCCGCCAATACAGAGACGCCA
Found at i:11598684 original size:28 final size:27
Alignment explanation
Indices: 11598642--11598717 Score: 68
Period size: 28 Copynumber: 2.7 Consensus size: 27
11598632 AGGCCCACCC
* *
11598642 ATATTATTTTTTATTTTTTAA-AATATTT
1 ATATTATATTATATTTTTTAATAA-A-TT
11598670 ATATTATATTATATTAATATTTAATAAATT
1 ATATTATATTATATT--T-TTTAATAAATT
11598700 -TA-TATATTATATTTTTTA
1 ATATTATATTATATTTTTTA
11598718 TGTAGTCATA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
25 4 0.10
26 1 0.02
28 24 0.57
29 2 0.05
30 3 0.07
31 6 0.14
32 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATATTATATTATATTTTTTAATAAATT
Found at i:11603211 original size:5 final size:5
Alignment explanation
Indices: 11603201--11603226 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11603191 CACTAATTTT
11603201 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
11603227 ATATATGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:11613096 original size:21 final size:21
Alignment explanation
Indices: 11613071--11613110 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
11613061 CAAAACAACT
* *
11613071 TAGTTTTGCCTTTTAACTTGA
1 TAGTTTTGACTTTAAACTTGA
11613092 TAGTTTTGACTTTAAACTT
1 TAGTTTTGACTTTAAACTT
11613111 TAGAAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.12, T:0.53
Consensus pattern (21 bp):
TAGTTTTGACTTTAAACTTGA
Found at i:11613498 original size:18 final size:19
Alignment explanation
Indices: 11613475--11613510 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11613465 TTTTTTAAAA
11613475 TATAAAT-TTTGGAATTTC
1 TATAAATATTTGGAATTTC
*
11613493 TATAAATATTTTGAATTT
1 TATAAATATTTGGAATTT
11613511 AAAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (19 bp):
TATAAATATTTGGAATTTC
Found at i:11614083 original size:24 final size:24
Alignment explanation
Indices: 11614046--11614102 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
11614036 GTGGCAGGTA
*
11614046 TAAAATAAAAAAATT-TAAAGTCTT
1 TAAAATATAAAAATTATAAAGT-TT
*
11614070 TAAAATATATAAATTAATAAAGTTT
1 TAAAATATAAAAATT-ATAAAGTTT
11614095 TAAAATAT
1 TAAAATAT
11614103 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 13 0.45
25 10 0.34
26 6 0.21
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (24 bp):
TAAAATATAAAAATTATAAAGTTT
Found at i:11622567 original size:22 final size:25
Alignment explanation
Indices: 11622517--11622574 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 25
11622507 TTGTAATGTT
11622517 TTTATAT-TTTAATAATTGAGTATTA
1 TTTATATATTTAAT-ATTGAGTATTA
11622542 -TTATATATTTAAT-TTGA-T-TTA
1 TTTATATATTTAATATTGAGTATTA
*
11622563 TTTATTTATTTA
1 TTTATATATTTA
11622575 TAAATAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 3 0.10
22 11 0.37
23 4 0.13
24 6 0.20
25 6 0.20
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (25 bp):
TTTATATATTTAATATTGAGTATTA
Found at i:11622747 original size:14 final size:15
Alignment explanation
Indices: 11622725--11622801 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
11622715 CAATCAAACA
11622725 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
11622739 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
11622754 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
11622774 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
11622788 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
11622802 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:11622766 original size:20 final size:20
Alignment explanation
Indices: 11622741--11622780 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11622731 AATATTTTCC
*
11622741 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11622761 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11622781 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11622786 original size:34 final size:35
Alignment explanation
Indices: 11622729--11622795 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
11622719 CAAACACCAG
*
11622729 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11622764 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11622796 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11622802 original size:14 final size:14
Alignment explanation
Indices: 11622764--11622803 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11622754 ACAGAAAAGT
*
11622764 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
11622778 AAATCATTTTACGG
1 AAAACATTTTACAG
11622792 AAAACATTTTAC
1 AAAACATTTTAC
11622804 TGGCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:11625502 original size:42 final size:46
Alignment explanation
Indices: 11625456--11625560 Score: 128
Period size: 49 Copynumber: 2.3 Consensus size: 46
11625446 CATAGTTCAA
*
11625456 CTATGGTCTTACAC-A-T-AT-TCATATATCGATACCATAGCCCAG
1 CTATGGTCTTACACAATTAATATCACATATCGATACCATAGCCCAG
*
11625498 CTATGGTCTTACACGTAATTACATATCACATATCGATGCCATAGCCCAG
1 CTATGGTCTTACAC--AATTA-ATATCACATATCGATACCATAGCCCAG
*
11625547 CTAGGGTCTTACAC
1 CTATGGTCTTACAC
11625561 GAATCACATA
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
42 14 0.26
45 1 0.02
46 1 0.02
48 2 0.04
49 35 0.66
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (46 bp):
CTATGGTCTTACACAATTAATATCACATATCGATACCATAGCCCAG
Found at i:11625540 original size:49 final size:48
Alignment explanation
Indices: 11625467--11625656 Score: 165
Period size: 49 Copynumber: 4.0 Consensus size: 48
11625457 TATGGTCTTA
* *
11625467 CACATATTCATATATCGATACCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACG-AAT
* *
11625517 TACATATCACATATCGATGCCATAGCCCAGCTAGGGTCTTACACGAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * *
11625565 CACATATCTC--A-CGGATGCCATATCCCAGATATGGTCTTATAC-AGT
1 CACATATCACATATC-GATGCCATAGCCCAGCTATGGTCTTACACGAAT
* * * * ** *
11625610 -AGCATATAACACACCGATGCCATATCCCAAATATGGTCTTATACGAA
1 CA-CATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAA
11625657 AATCACTTGT
Statistics
Matches: 119, Mismatches: 15, Indels: 14
0.80 0.10 0.09
Matches are distributed among these distances:
44 1 0.01
45 9 0.08
46 26 0.22
47 29 0.24
48 13 0.11
49 36 0.30
50 5 0.04
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (48 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAAT
Found at i:11625601 original size:46 final size:46
Alignment explanation
Indices: 11625531--11625656 Score: 144
Period size: 47 Copynumber: 2.7 Consensus size: 46
11625521 TATCACATAT
* * * * * * *
11625531 CGATGCCATAGCCCAGCTAGGGTCTTACACGAATCACATATCTCAC
1 CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATAACACAC
* * *
11625577 GGATGCCATATCCCAGATATGGTCTTATACAGTAGCATATAACACAC
1 CGATGCCATATCCCAGATATGGTCTTATAC-GAAGCACATAACACAC
*
11625624 CGATGCCATATCCCAAATATGGTCTTATACGAA
1 CGATGCCATATCCCAGATATGGTCTTATACGAA
11625657 AATCACTTGT
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
46 27 0.41
47 39 0.59
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (46 bp):
CGATGCCATATCCCAGATATGGTCTTATACGAAGCACATAACACAC
Found at i:11625715 original size:31 final size:31
Alignment explanation
Indices: 11625680--11625789 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
11625670 TTGTATTCGA
*
11625680 AGCTACCACTATTCACTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
*
11625711 AGCTACCATTTTTCACTGATCAGGTAGCTGG
1 AGCTACCACTTTTCACTGATCAGGTAGCTGG
*
11625742 AGCTACCACTTTTCACTGATCAGGTAG-TAGA
1 AGCTACCACTTTTCACTGATCAGGTAGCT-GG
11625773 AGCTACCACTTTTCACT
1 AGCTACCACTTTTCACT
11625790 TGCCATTTGT
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
30 1 0.01
31 73 0.99
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (31 bp):
AGCTACCACTTTTCACTGATCAGGTAGCTGG
Found at i:11652021 original size:20 final size:21
Alignment explanation
Indices: 11651988--11652026 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
11651978 GGGACCACTA
11651988 ATGTGGCAAATTAA-TTGCTG
1 ATGTGGCAAATTAACTTGCTG
* *
11652008 ATGTGGCCAGTTAACTTGC
1 ATGTGGCAAATTAACTTGC
11652027 CATGTTGGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (21 bp):
ATGTGGCAAATTAACTTGCTG
Found at i:11655938 original size:12 final size:12
Alignment explanation
Indices: 11655921--11655946 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11655911 GATGGAAGCC
11655921 ATTGACATAGAG
1 ATTGACATAGAG
11655933 ATTGACATAGAG
1 ATTGACATAGAG
11655945 AT
1 AT
11655947 AGAGAACGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (12 bp):
ATTGACATAGAG
Found at i:11656038 original size:3 final size:3
Alignment explanation
Indices: 11656032--11656075 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
11656022 GTCATCATTC
11656032 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
11656076 TGATGATGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:11656080 original size:3 final size:3
Alignment explanation
Indices: 11656074--11656120 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
11656064 AGAAGAAGAA
*
11656074 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
11656121 GGAGGAGGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:11656176 original size:9 final size:9
Alignment explanation
Indices: 11656173--11656204 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
11656163 GGACGATGAC
*
11656173 GACGACGAT
1 GACGACGGT
11656182 GACGACGGT
1 GACGACGGT
11656191 GACGACGGT
1 GACGACGGT
11656200 GACGA
1 GACGA
11656205 TGACAATGAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.28, C:0.22, G:0.41, T:0.09
Consensus pattern (9 bp):
GACGACGGT
Found at i:11656197 original size:12 final size:12
Alignment explanation
Indices: 11656164--11656188 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11656154 GGAGGAGGAG
11656164 GACGATGACGAC
1 GACGATGACGAC
11656176 GACGATGACGAC
1 GACGATGACGAC
11656188 G
1 G
11656189 GTGACGACGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.24, G:0.36, T:0.08
Consensus pattern (12 bp):
GACGATGACGAC
Found at i:11656258 original size:3 final size:3
Alignment explanation
Indices: 11656250--11656279 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11656240 GATCATTTTT
11656250 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
11656280 CTCATTGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11656405 original size:48 final size:47
Alignment explanation
Indices: 11656347--11656640 Score: 151
Period size: 51 Copynumber: 6.2 Consensus size: 47
11656337 ATCAACACTT
*
11656347 GAAGAAGAAGAAGACTCACCATTGCAATCATCATTGTCAATAGGGGAA
1 GAAGAAGAAGAAGACTCACCATTGCAATCATCATT-TCAACAGGGGAA
* * * ** *
11656395 GAAGATGAAGAAGAATATTCACAAAGGCAATCATCATTTTCAACAGAAGAAGAA
1 G-A-A-GAAGAAGAAGACTCACCATTGCAATCATCA-TTTCAACAG--G-GGAA
** * *
11656449 GAAGAAGAAGAAGACTCACTGTTACAATCATCAAATTCAACA---GAA
1 GAAGAAGAAGAAGACTCACCATTGCAATCATC-ATTTCAACAGGGGAA
* * * * ** **
11656494 GAAGATGAAGAACATTCACCAGTGGGATCA--A--T--AC--TTGAA
1 GAAGAAGAAGAAGACTCACCATTGCAATCATCATTTCAACAGGGGAA
*
11656533 GAAGAAGAAGAAGACCCACCATTGCAATCATCATTGTCAACAGGGGAA
1 GAAGAAGAAGAAGACTCACCATTGCAATCATCATT-TCAACAGGGGAA
* * * * **
11656581 GAAGATGAAGAAGAATATTCACAAATGCAATCATCATTTTCAACAGAAGAA
1 G-A-A-GAAGAAGAAGACTCACCATTGCAATCATCA-TTTCAACAGGGGAA
11656632 GAAGAAGAA
1 GAAGAAGAA
11656641 AGCAAAAAGA
Statistics
Matches: 183, Mismatches: 40, Indels: 46
0.68 0.15 0.17
Matches are distributed among these distances:
38 2 0.01
39 26 0.14
40 1 0.01
41 1 0.01
42 1 0.01
44 1 0.01
45 24 0.13
46 2 0.01
48 11 0.06
49 3 0.02
50 3 0.02
51 96 0.52
52 6 0.03
53 2 0.01
54 4 0.02
ACGTcount: A:0.46, C:0.16, G:0.20, T:0.18
Consensus pattern (47 bp):
GAAGAAGAAGAAGACTCACCATTGCAATCATCATTTCAACAGGGGAA
Found at i:11656445 original size:186 final size:187
Alignment explanation
Indices: 11656253--11656640 Score: 667
Period size: 186 Copynumber: 2.1 Consensus size: 187
11656243 CATTTTTAGA
*
11656253 AGAAGAAGAAGAAGAAGAAGAAGAAGACTCATTGTTACAATCACCAAATTCAACAGAAGAAGATG
1 AGAAGAAGAAGAAGAAGAAGAAGAAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATG
*
11656318 AAGAACATTCACCAATGGGATCAACACTT-GAAGAAGAAGAAGACTCACCATTGCAATCATCATT
66 AAGAACATTCACCAATGGGATCAACACTTAGAAGAAGAAGAAGACCCACCATTGCAATCATCATT
*
11656382 GTCAATAGGGGAAGAAGATGAAGAAGAATATTCACAAAGGCAATCATCATTTTCAAC
131 GTCAACAGGGGAAGAAGATGAAGAAGAATATTCACAAAGGCAATCATCATTTTCAAC
*
11656439 ---AGAAGAAGAAGAAGAAGAAGAAGACTCACTGTTACAATCATCAAATTCAACAGAAGAAGATG
1 AGAAGAAGAAGAAGAAGAAGAAGAAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATG
* *
11656501 AAGAACATTCACCAGTGGGATCAATACTTGAAGAAGAAGAAGAAGACCCACCATTGCAATCATCA
66 AAGAACATTCACCAATGGGATCAACACTT--AGAAGAAGAAGAAGACCCACCATTGCAATCATCA
*
11656566 TTGTCAACAGGGGAAGAAGATGAAGAAGAATATTCACAAATGCAATCATCATTTTCAAC
129 TTGTCAACAGGGGAAGAAGATGAAGAAGAATATTCACAAAGGCAATCATCATTTTCAAC
11656625 AGAAGAAGAAGAAGAA
1 AGAAGAAGAAGAAGAA
11656641 AGCAAAAAGA
Statistics
Matches: 189, Mismatches: 7, Indels: 9
0.92 0.03 0.04
Matches are distributed among these distances:
183 87 0.46
186 89 0.47
189 13 0.07
ACGTcount: A:0.47, C:0.16, G:0.20, T:0.18
Consensus pattern (187 bp):
AGAAGAAGAAGAAGAAGAAGAAGAAGACTCACTGTTACAATCACCAAATTCAACAGAAGAAGATG
AAGAACATTCACCAATGGGATCAACACTTAGAAGAAGAAGAAGACCCACCATTGCAATCATCATT
GTCAACAGGGGAAGAAGATGAAGAAGAATATTCACAAAGGCAATCATCATTTTCAAC
Found at i:11656477 original size:51 final size:51
Alignment explanation
Indices: 11656347--11656505 Score: 174
Period size: 51 Copynumber: 3.1 Consensus size: 51
11656337 ATCAACACTT
* * * **
11656347 GAAGAAGAAGAAGACTCACCATTGCAATCATCATTGTCAATAGGGGAAGAA
1 GAAGAAGAAGAAGACTCACAATTGCAATCATCATTTTCAACAGAAGAAGAA
* * * **
11656398 GATGAAGAAGAATATTCACAAAGGCAATCATCATTTTCAACAGAAGAAGAA
1 GAAGAAGAAGAAGACTCACAATTGCAATCATCATTTTCAACAGAAGAAGAA
** * ** *
11656449 GAAGAAGAAGAAGACTCACTGTTACAATCATCAAATTCAACAGAAGAAGAT
1 GAAGAAGAAGAAGACTCACAATTGCAATCATCATTTTCAACAGAAGAAGAA
11656500 GAAGAA
1 GAAGAA
11656506 CATTCACCAG
Statistics
Matches: 87, Mismatches: 21, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
51 87 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (51 bp):
GAAGAAGAAGAAGACTCACAATTGCAATCATCATTTTCAACAGAAGAAGAA
Found at i:11658856 original size:19 final size:19
Alignment explanation
Indices: 11658805--11658856 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
11658795 AAAATAACAA
* *
11658805 AAAAATCAAAGTAATTTTC
1 AAAATTCAAAATAATTTTC
* *
11658824 AAAATTTGAAAATAATTTTT
1 AAAA-TTCAAAATAATTTTC
11658844 AAAATTCAAAATA
1 AAAATTCAAAATA
11658857 TATATAGAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTC
Found at i:11658925 original size:16 final size:16
Alignment explanation
Indices: 11658906--11658967 Score: 65
Period size: 16 Copynumber: 4.0 Consensus size: 16
11658896 TAAATTTTAA
*
11658906 AAAAAAACTATAATTT
1 AAAAAAATTATAATTT
*
11658922 AAAAAAATTATAAATT
1 AAAAAAATTATAATTT
* * *
11658938 CAAAATA-TAT-TTTT
1 AAAAAAATTATAATTT
11658952 AAAAAAATTATAATTT
1 AAAAAAATTATAATTT
11658968 TTTAAGGAGG
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
14 7 0.20
15 6 0.17
16 22 0.63
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
AAAAAAATTATAATTT
Found at i:11658969 original size:18 final size:18
Alignment explanation
Indices: 11658888--11658969 Score: 54
Period size: 16 Copynumber: 4.9 Consensus size: 18
11658878 ATATTTTTTT
*
11658888 AAAAATTATAAATTTTAAAA
1 AAAAATTAT-AATTTT-TAA
*
11658908 AAAAACTATAA--TTTAA
1 AAAAATTATAATTTTTAA
*
11658924 AAAAATTATAA--ATT--
1 AAAAATTATAATTTTTAA
*
11658938 CAAAA-TAT-ATTTTTAA
1 AAAAATTATAATTTTTAA
11658954 AAAAATTATAATTTTT
1 AAAAATTATAATTTTT
11658970 TAAGGAGGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
12 1 0.02
13 3 0.06
14 6 0.12
16 18 0.37
17 5 0.10
18 6 0.12
19 2 0.04
20 8 0.16
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAAATTATAATTTTTAA
Found at i:11668039 original size:23 final size:23
Alignment explanation
Indices: 11668013--11668057 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11668003 TATATACTAA
**
11668013 ATATATATTTTTTATTTTTAATC
1 ATATATACATTTTATTTTTAATC
*
11668036 ATATTTACATTTTATTTTTAAT
1 ATATATACATTTTATTTTTAAT
11668058 TTTAATATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATATATACATTTTATTTTTAATC
Found at i:11670919 original size:12 final size:11
Alignment explanation
Indices: 11670895--11670924 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
11670885 CATTTTGTTC
11670895 TTTAGTTTCTTT
1 TTTA-TTTCTTT
11670907 TTTATTTCTTT
1 TTTATTTCTTT
11670918 TTTATTT
1 TTTATTT
11670925 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:11672081 original size:3 final size:3
Alignment explanation
Indices: 11672073--11672106 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11672063 TCGATTTTAC
11672073 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
11672107 TAGTCCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:11679078 original size:138 final size:138
Alignment explanation
Indices: 11678710--11679759 Score: 1617
Period size: 138 Copynumber: 7.6 Consensus size: 138
11678700 GTAGATCAAC
* *
11678710 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
11678775 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11678840 TCGAAGTT
131 TCGAAGTT
* * *
11678848 ACAAGTCTTATCTCCTTGAA-TTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* * * *
11678912 GTTGCAGTGGAATAGATTGAAGCTAAATTATAGATCTTATCTCTCTGAAGTTGCAATAGAGTAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11678977 TCGAAGTT
131 TCGAAGTT
* * * * *
11678985 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAATATAGCAAATCATATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* *
11679050 GTTGTAGTGGAACAGATTGAAGCTAAATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11679115 TCGAAGTT
131 TCGAAGTT
*
11679123 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
11679188 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
**
11679253 TTAAAGTT
131 TCGAAGTT
* * *
11679261 ACAAGTCTTATCTCCTTGAAGTTGCAGAGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* * *
11679326 GTT-CAG-GGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTTCAGTAGAACAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11679389 TCGAAGTT
131 TCGAAGTT
* * * *
11679397 ACAAGTCTTATCTCTCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
* ** * *
11679462 GTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGTAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11679527 TCGAAGTT
131 TCGAAGTT
* *
11679535 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11679600 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11679665 TCGAAGTT
131 TCGAAGTT
* * * * * * *
11679673 ACAAGTCTTATCTCTCTAAAGTTGTAGTAGAGCAG-GTCGAA-ATTA-CAAGTCTTAATCTCCCT
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-GAAGA-TAGCAAATCTT-ATTTCCCT
* *
11679735 GAAGTTGCAGTGGAGCAGACTGAAG
63 GAAGTTGCAGTGGAACAGATTGAAG
11679760 ATAGTAAATC
Statistics
Matches: 838, Mismatches: 68, Indels: 12
0.91 0.07 0.01
Matches are distributed among these distances:
136 121 0.14
137 146 0.17
138 571 0.68
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (138 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
TCGAAGTT
Found at i:11679548 original size:412 final size:413
Alignment explanation
Indices: 11678710--11679686 Score: 1634
Period size: 412 Copynumber: 2.4 Consensus size: 413
11678700 GTAGATCAAC
* *
11678710 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
11678775 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
* *
11678840 TCGAAGTTACAAGTCTTATCTCCTTGAATTGCAGTGGAGCAGACTGAAGATAGTAAATCTTATTT
131 TCGAAGTTACAAGTCTTATCTCCTTGAATTGCAGAGGAGCAGACTGAAGATAGCAAATCTTATTT
* * * *
11678905 TCCTGAAGTTGCAGTGGAATAGATTGAAGCTAAATTATAGATCTTATCTCTCTGAAGTTGCAATA
196 CCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAATA
** * * *
11678970 GAGTAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAATATAGCAAA
261 GAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAGCAAA
* * * * **
11679035 TCATATTTTCCTGAAGTTGTAGTGGAACAGATTGAAGCTAAATTATAGATCTTATCTCTCTGAAG
326 TCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCCAAAG
*
11679100 TTGCAGTAGAGCAGGTCGAAGTT
391 TTGCAATAGAGCAGGTCGAAGTT
*
11679123 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAAATCTTATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
11679188 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
** *
11679253 TTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCAGAGGAGCAGATTGAAGATAGCAAATCTTATT
131 TCGAAGTTACAAGTCTTATCTCCTTGAA-TTGCAGAGGAGCAGACTGAAGATAGCAAATCTTATT
* *
11679318 TCCCTGAAGTT-CAG-GGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTTCAGT
195 TCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAAT
* *
11679381 AGAACAGGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAACAGACTGAAGATAGCAA
260 AGAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAGCAA
*
11679446 ATCATATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCCAAA
325 ATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCCAAA
*
11679511 GTTGCAATAGAGTAGGTCGAAGTT
390 GTTGCAATAGAGCAGGTCGAAGTT
* *
11679535 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTGAA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
*
11679600 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGG
66 GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
11679665 TCGAAGTTACAAGTCTTATCTC
131 TCGAAGTTACAAGTCTTATCTC
11679687 TCTAAAGTTG
Statistics
Matches: 527, Mismatches: 36, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
412 328 0.62
413 156 0.30
414 43 0.08
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.30
Consensus pattern (413 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
TCGAAGTTACAAGTCTTATCTCCTTGAATTGCAGAGGAGCAGACTGAAGATAGCAAATCTTATTT
CCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTGCAATA
GAACAGGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAAACTGAAGATAGCAAA
TCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCCAAAG
TTGCAATAGAGCAGGTCGAAGTT
Found at i:11679878 original size:276 final size:277
Alignment explanation
Indices: 11678710--11680162 Score: 1482
Period size: 276 Copynumber: 5.3 Consensus size: 277
11678700 GTAGATCAAC
* * * *
11678710 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTGAAGATAGTAAATCTTATTTTCCTGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-GAAGTTAGCAAATCTTATTTCCCTGA
11678774 AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
65 AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
*
11678839 GTCGAAGTTACAAGTCTTATCTC-CTTGAA-TTGCAGTGGAGCAGACTGAAGA-TAGTAAATCTT
130 GTCGAAGTTACAAGTCTTATCTCTC-TGAAGTTGCAGTGGAGCAGACTGAAGATTA-CAAATCTT
* * *
11678901 ATTTTCCTGAAGTTGCAGTGGAATAGATTGAAGCTAAATTATAGATCTTA-TCTCTCTGAAGTTG
193 ATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC-AAATTACAGATCTTATTCTC-CTGAAGTTG
* *
11678965 CAATAGAGTAGGTCGAAG--TT
256 CAGTAGAGTAGGTTGAAGAATT
* * * * *
11678985 ACAAGTCTTATCTCCCTGAAGTTGTAGTGGAGCA-AACTGAA-TATAGCAAATCATATTTTCCTG
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-GAAGT-TAGCAAATCTTATTTCCCTG
* *
11679048 AAGTTGTAGTGGAACAGATTGAAGCTAAATTATAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
64 AAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCA
* *
11679113 GGTCGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAGA-TAGCAAATCTT
129 GGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATTA-CAAATCTT
11679177 ATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTA-TCTCTCTGAAGTTG
193 ATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC-AAATTACAGATCTTATTCTC-CTGAAGTTG
* *
11679241 CAGTAGAGCAGGTT-AA-AGTT
256 CAGTAGAGTAGGTTGAAGAATT
* * *
11679261 ACAAGTCTTATCTCCTTGAAGTTGCAG-AGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTA-GAGCAGATCGAAGTTAGCAAATCTTATTTCCCTGA
* * *
11679325 AGTT-CAG-GGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTAAAGTTTCAGTAGAACAG
65 AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* *
11679388 GTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAACAGACTGAAGA-TAGCAAATCATA
130 GTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATTA-CAAATCTTA
* * *
11679452 TTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTAAATTACAGATCTTATCTCTCC-AAAGTTGC
194 TTTCCCTGAAGTTGCAGTGGAACAGATTGAAGC-AAATTACAGATCTTAT-TCTCCTGAAGTTGC
* *
11679516 AATAGAGTAGGTCGAAG--TT
257 AGTAGAGTAGGTTGAAGAATT
* * * *
11679535 ACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGCA-AACTGAAGATAGCAAATCATATTTCCCTGA
1 ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATC-GAAGTTAGCAAATCTTATTTCCCTGA
*
11679599 AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAG
65 AGTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAG
* * * * *
11679664 GTCGAAGTTACAAGTCTTATCTCTCTAAAGTTGTAGTAGAGCAG-GTCGAA-ATTACAAGTCTTA
130 GTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACT-GAAGATTACAAATCTT-
* * * * * *
11679727 ATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGTA-A-ATCTTATTTTCCTGAAGTTGCA
193 ATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCAAATTACAGATCTTATTCTCCTGAAGTTGCA
* ** *
11679789 GTGGAACAGATTGAAGCTAAATT
258 GTAGAGTAGGTTGAAG---AATT
* * * * * *
11679812 AC-AGATCTTATCTCTCTGAAATTGCAGTAGAGCAGGTCGAAGTTA-CAAGTCTTATCTCCTTGA
1 ACAAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTTAGCAAATCTTATTTCCCTGA
* * * * * * *
11679875 AGTTGCAGT-GAAGCAGACTGAAG--ATAGTA-A-ATCCTAT-TTTCCTGAAGTTGCAGTGGAAC
65 AGTTGCAGTGGAA-CAGATTGAAGCTAAATTACAGATCTTATCTCT-CTGAAGTTGCAGTAGAGC
* * * * *
11679934 AGATTGAAGCTAAATTAC-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCATGTC-GAAG-TTAT
128 AGGTCGAAG-----TTACAAG-TCTTATCTCTCTGAAGTTGCAGTGGAGCA-GACTGAAGATTAC
** * * * * *
11679996 AAGCCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG---A-TAGCAAATCTTATT-TCCCT
186 AAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCAAATTA-CAGATCTTATTCT-CCT
* *
11680056 AAAGTTGCAGTAGAGTAGATTGAAGCTAAATT
249 GAAGTTGCAGTAGAGTAGGTTGAAG---AATT
* * * * * * *
11680088 AC-AGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTA-CAAGTTTTATCTCTCTTA
1 ACAAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTTAGCAAATCTTATTTCCCTGA
11680151 AGTTGCAGTGGA
65 AGTTGCAGTGGA
11680163 GTAGACTGAA
Statistics
Matches: 1033, Mismatches: 101, Indels: 86
0.85 0.08 0.07
Matches are distributed among these distances:
271 6 0.01
272 53 0.05
273 5 0.00
274 250 0.24
275 170 0.16
276 465 0.45
277 82 0.08
278 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (277 bp):
ACAAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATCGAAGTTAGCAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGG
TCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATTACAAATCTTATT
TCCCTGAAGTTGCAGTGGAACAGATTGAAGCAAATTACAGATCTTATTCTCCTGAAGTTGCAGTA
GAGTAGGTTGAAGAATT
Found at i:11679939 original size:321 final size:320
Alignment explanation
Indices: 11679358--11680028 Score: 1076
Period size: 321 Copynumber: 2.1 Consensus size: 320
11679348 AAATTACAGA
* * *
11679358 TCTTATCTCTCTAAAGTT-TCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGC
1 TCTTATCTCTCTAAAGTTGT-AGTAGAGCAGGTCGAAATTACAAGTCTTATCTCCCTGAAGTTGC
*
11679422 AGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTA
65 AGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTA
*
11679487 AATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGTAGGTCGAAGTTACAAGTCTTATCTCCCT
130 AATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCT
*
11679552 GAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGAT
195 GAAGTTGCAGTGAAGCAAACTGAAGATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGAT
*
11679617 TGAAGCTAAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAG
260 TGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAG
11679678 TCTTATCTCTCTAAAGTTGTAGTAGAGCAGGTCGAAATTACAAGTCTTAATCTCCCTGAAGTTGC
1 TCTTATCTCTCTAAAGTTGTAGTAGAGCAGGTCGAAATTACAAGTCTT-ATCTCCCTGAAGTTGC
* * * * *
11679743 AGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
65 AGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTA
* * *
11679808 AATTACAGATCTTATCTCTCTGAAA-TTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCCT
130 AATTACAGATCTTATCTCTC-CAAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCC
* * * *
11679872 TGAAGTTGCAGTGAAGCAGACTGAAGATAGTAAATCCTATTTTCCTGAAGTTGCAGTGGAACAGA
194 TGAAGTTGCAGTGAAGCAAACTGAAGATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGA
* *
11679937 TTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATGTCGAAGTTATAAG
259 TTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAG
* * * *
11679999 CCTTATCTCTCTGAAGTTGCAGTGGAGCAG
1 TCTTATCTCTCTAAAGTTGTAGTAGAGCAG
11680029 ACTGAAGATA
Statistics
Matches: 323, Mismatches: 25, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
320 44 0.14
321 276 0.85
322 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (320 bp):
TCTTATCTCTCTAAAGTTGTAGTAGAGCAGGTCGAAATTACAAGTCTTATCTCCCTGAAGTTGCA
GTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGAAGCTAA
ATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGCAGGTCGAAGTTACAAGTCTTATCTCCCTG
AAGTTGCAGTGAAGCAAACTGAAGATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAACAGATT
GAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAG
Found at i:11679940 original size:459 final size:456
Alignment explanation
Indices: 11679222--11680159 Score: 1497
Period size: 459 Copynumber: 2.1 Consensus size: 456
11679212 AAATTACAGA
* * *
11679222 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTAAAGTTACAAGTCTTATCTCCTTGAAGTTGCA
1 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTGAAAGTTACAAGTCTTATCTCCCTGAAGTTGCA
*
11679287 GAGGAGCAGATTGAAGATAGCAAATCTTATTTCCCTGAAGTTCAGGGAACAGATTGAAGCTAAAT
66 GAGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTCAGGGAACAGATTGAAGCTAAAT
*
11679352 TACAGATCTTATCTCTCTAAAGTTTCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCTCTGAA
131 TACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCTCTGAA
*
11679417 GTTGCAGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAATAGATTGA
196 GTTGCAGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGA
* *
11679482 AGCTAAATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGTAGGTCGAAGTTACAAGTCTTATC
261 AGCTAAATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGCAGGTCGAAGTTACAAGCCTTATC
* *
11679547 TCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTGAAGTTGCAGTGGAA
326 TCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTAGAA
*
11679612 CAGATTGAAGCTAAATTACAGATCTTATCTCTTTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAA
391 CAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAA
11679677 G
456 G
*
11679678 TCTTATCTCTCTAAAGTTGTAGTAGAGCAGGTCGAAA-TTACAAGTCTTAATCTCCCTGAAGTTG
1 TCTTATCTCTCTAAAGTTGCAGTAGAGCAGGT-GAAAGTTACAAGTCTT-ATCTCCCTGAAGTTG
* * *
11679742 CAGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCT
64 CAGAGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTT-CAG-GGAACAGATTGAAGCT
*
11679807 AAATTACAGATCTTATCTCTCTGAAA-TTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTC-
127 AAATTACAGATCTTATCTCTCT-AAAGTTGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCT
* * * *
11679870 CTTGAAGTTGCAGT-GAAGCAGACTGAAGATAGTAAATCCTATTTTCCTGAAGTTGCAGTGGAAC
191 C-TGAAGTTGCAGTGGAA-CAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAAC
** * * *
11679934 AGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCATGTCGAAGTTATAAG
254 AGATTGAAGCTAAATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGCAGGTCGAAGTTACAAG
* * *
11679999 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGC
319 CCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTAAAGTTGC
**
11680064 AGTAGAGTAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAA
384 AGTAGAACAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAA
11680129 GTTACAAG
449 GTTACAAG
* *
11680137 TTTTATCTCTCTTAAGTTGCAGT
1 TCTTATCTCTCTAAAGTTGCAGT
11680160 GGAGTAGACT
Statistics
Matches: 442, Mismatches: 33, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
456 41 0.09
457 57 0.13
458 7 0.02
459 334 0.76
460 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (456 bp):
TCTTATCTCTCTAAAGTTGCAGTAGAGCAGGTGAAAGTTACAAGTCTTATCTCCCTGAAGTTGCA
GAGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGTTCAGGGAACAGATTGAAGCTAAAT
TACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGGTCGAAGTTACAAGTCTTATCTCTCTGAA
GTTGCAGTGGAACAGACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTGGAACAGATTGA
AGCTAAATTACAGATCTTATCTCTCCAAAGTTGCAATAGAGCAGGTCGAAGTTACAAGCCTTATC
TCCCTGAAGTTGCAGTGGAGCAAACTGAAGATAGCAAATCATATTTCCCTAAAGTTGCAGTAGAA
CAGATTGAAGCTAAATTACAGATCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAA
G
Found at i:11680254 original size:49 final size:47
Alignment explanation
Indices: 11678715--11680257 Score: 625
Period size: 45 Copynumber: 33.6 Consensus size: 47
11678705 TCAACACAAG
* * * * * *
11678715 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGTAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * **
11678760 TCTTAT-TTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * *
11678809 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * *
11678853 TCTTATCTC-CTTGAA-TTGCAGTGGAGCAGACTGAAG-ATAGTAA-A
1 TCTTATCTCTC-TGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * *
11678897 TCTTAT-TTTCCTGAAGTTGCAGTGGAATAGATTGAAGCTAAATTATAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * *
11678946 TCTTATCTCTCTGAAGTTGCAATAGAGTAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * * * * **
11678990 TCTTATCTCCCTGAAGTTGTAGTGGAGCAAACTGAA-TATAGCAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * **
11679035 TCATAT-TTTCCTGAAGTTGTAGTGGAACAGATTGAAGCTAAATTATAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * *
11679084 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * ** * * **
11679128 TCTTATCTCCCTGAAGTTGCAGTGGAACAGACTGAAG-ATAGCAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * **
11679173 TCTTATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * *
11679222 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTTAAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * **
11679266 TCTTATCTC-CTTGAAGTTGCAG-AGGAGCAGATTGAAG-ATAGCAA-A
1 TCTTATCTCTC-TGAAGTTGCAGTA-GAGTAGATTGAAGTAAATTAAGA
* * * **
11679311 TCTTATTTCCCTGAAGTT-CAG-GGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * ** * * * *
11679358 TCTTATCTCTCTAAAGTTTCAGTAGAACAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* ** * * **
11679402 TCTTATCTCTCTGAAGTTGCAGTGGAACAGACTGAAG-ATAGCAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * * *
11679447 TCATATTTCCCTAAAGTTGCAGTGGAATAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
** * * * * *
11679496 TCTTATCTCTCCAAAGTTGCAATAGAGTAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * * * **
11679540 TCTTATCTCCCTGAAGTTGCAGTGGAGCAAACTGAAG-ATAGCAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * **
11679585 TCATATTTCCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * * *
11679634 TCTTATCTCTTTGAAGTTGCAGTAGAGCAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * * * * *
11679678 TCTTATCTCTCTAAAGTTGTAGTAGAGCAGGTCGAAAT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * * *
11679722 TCTTAATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGTAA-A
1 TCTT-ATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * **
11679768 TCTTAT-TTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * * *
11679817 TCTTATCTCTCTGAAATTGCAGTAGAGCAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * *
11679861 TCTTATCTC-CTTGAAGTTGCAGT-GAAGCAGACTGAAG-ATAGTAA-A
1 TCTTATCTCTC-TGAAGTTGCAGTAG-AGTAGATTGAAGTAAATTAAGA
* * * **
11679906 TCCTAT-TTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTAAATTACAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * *
11679955 TCTTATCTCTCTGAAGTTGCAGTAGAGCATG-TCGAAGT-TA-TAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTA-GATTGAAGTAAATTAAGA
* * * * * **
11679999 CCTTATCTCTCTGAAGTTGCAGTGGAGCAGACTGAAG-ATAGCAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * *
11680044 TCTTATTTCCCTAAAGTTGCAGTAGAGTAGATTGAAGCTAAATTACAGA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
* * * * *
11680093 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGT-TA-CAAG-
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * * * *
11680137 TTTTATCTCTCTTAAGTTGCAGTGGAGTAGACTGAAG-ATAGTAA-A
1 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
* * * *
11680182 TCTTAT-TTTCCTGAAGTTACAGTAGAATAGATTAAAGCTAAATTATAGA
1 TCTTATCTCT-CTGAAGTTGCAGTAGAGTAGATTGAAG-TAAATTA-AGA
11680231 TCTTATCTCTCTGAAGTTGCAGTAGAG
1 TCTTATCTCTCTGAAGTTGCAGTAGAG
11680258 CAGGTCGAAG
Statistics
Matches: 1161, Mismatches: 236, Indels: 198
0.73 0.15 0.12
Matches are distributed among these distances:
43 39 0.03
44 331 0.29
45 372 0.32
46 21 0.02
47 62 0.05
48 23 0.02
49 300 0.26
50 13 0.01
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (47 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGTAAATTAAGA
Found at i:11680284 original size:138 final size:138
Alignment explanation
Indices: 11679678--11680284 Score: 973
Period size: 138 Copynumber: 4.4 Consensus size: 138
11679668 AAGTTACAAG
* * * *
11679678 TCTTATCTCTCTAAAGTTGTAGTAGAGCAGGTCGAAATTACAAGTCTTAATCTCCCTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTT-ATCTCTCTGAAGTTGC
*
11679743 AGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
65 AGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTAGAACAGATTGAAGCTA
11679808 AATTACAGA
130 AATTACAGA
*
11679817 TCTTATCTCTCTGAAATTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTC-CTTGAAGTTGC
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCTC-TGAAGTTGC
* * *
11679881 AGTGAAGCAGACTGAAGATAGTAAATCCTATTTTCCTGAAGTTGCAGTGGAACAGATTGAAGCTA
65 AGTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTAGAACAGATTGAAGCTA
11679946 AATTACAGA
130 AATTACAGA
* * *
11679955 TCTTATCTCTCTGAAGTTGCAGTAGAGCATGTCGAAGTTATAAGCCTTATCTCTCTGAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCA
* * * **
11680020 GTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTAAAGTTGCAGTAGAGTAGATTGAAGCTAA
66 GTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTAGAACAGATTGAAGCTAA
11680085 ATTACAGA
131 ATTACAGA
* *
11680093 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTTTTATCTCTCTTAAGTTGCA
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCA
* * * *
11680158 GTGGAGTAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTACAGTAGAATAGATTAAAGCTAA
66 GTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTAGAACAGATTGAAGCTAA
*
11680223 ATTATAGA
131 ATTACAGA
11680231 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCT
1 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCT
11680285 TTGTGCTTAC
Statistics
Matches: 434, Mismatches: 32, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
137 1 0.00
138 388 0.89
139 45 0.10
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (138 bp):
TCTTATCTCTCTGAAGTTGCAGTAGAGCAGGTCGAAGTTACAAGTCTTATCTCTCTGAAGTTGCA
GTGGAGCAGACTGAAGATAGTAAATCTTATTTTCCTGAAGTTGCAGTAGAACAGATTGAAGCTAA
ATTACAGA
Found at i:11688745 original size:29 final size:30
Alignment explanation
Indices: 11688687--11688745 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 30
11688677 CTAATATAAT
* * *
11688687 TAATTATTTTAATAAAATTCTTTAATATTA
1 TAATTATTTTAATAAAAATCTATAACATTA
11688717 TAATT-TTTTAATAATAAAT-TATAACATTA
1 TAATTATTTTAATAA-AAATCTATAACATTA
11688746 ATGATTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
TAATTATTTTAATAAAAATCTATAACATTA
Found at i:11690169 original size:24 final size:26
Alignment explanation
Indices: 11690119--11690191 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
11690109 ATACGTGGAT
* *
11690119 TCCTCCCAAACACACCAGAATATTATAAA
1 TCCTCCCAAACACACCAG--TA-TACATA
11690148 TCCT-CCATAACACACCAGTATATCATA
1 TCCTCCCA-AACACACCAGTATA-CATA
11690175 TCCTCCCAAACACACCA
1 TCCTCCCAAACACACCA
11690192 ATAAGGCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
26 2 0.05
27 17 0.44
28 6 0.15
29 14 0.36
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.21
Consensus pattern (26 bp):
TCCTCCCAAACACACCAGTATACATA
Found at i:11690177 original size:27 final size:28
Alignment explanation
Indices: 11690119--11690191 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 28
11690109 ATACGTGGAT
*
11690119 TCCTCCCAAACACACCAGAATATTATAAA
1 TCCTCCCAAACACACCAGAATATCAT-AA
*
11690148 TCCT-CCATAACACACCAGTATATCAT-A
1 TCCTCCCA-AACACACCAGAATATCATAA
11690175 TCCTCCCAAACACACCA
1 TCCTCCCAAACACACCA
11690192 ATAAGGCATT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 14 0.35
28 6 0.15
29 20 0.50
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.21
Consensus pattern (28 bp):
TCCTCCCAAACACACCAGAATATCATAA
Found at i:11690655 original size:15 final size:15
Alignment explanation
Indices: 11690635--11690681 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
11690625 TAATATATAT
11690635 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
11690650 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
11690665 TTCAATCAATATAAA
1 TTCAATCAATATAAA
11690680 TT
1 TT
11690682 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:11697656 original size:30 final size:32
Alignment explanation
Indices: 11697604--11697666 Score: 94
Period size: 30 Copynumber: 2.0 Consensus size: 32
11697594 CTAAGTTTTG
*
11697604 AATCAATCTCAATTTCTTCAAGTGTTTGTATT
1 AATCAATCTCAATTTCTTCAAGTATTTGTATT
*
11697636 AATCAATCTTAA-TT-TTCAAGTATTTGTATT
1 AATCAATCTCAATTTCTTCAAGTATTTGTATT
11697666 A
1 A
11697667 CTCATCCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 16 0.55
31 2 0.07
32 11 0.38
ACGTcount: A:0.32, C:0.13, G:0.08, T:0.48
Consensus pattern (32 bp):
AATCAATCTCAATTTCTTCAAGTATTTGTATT
Found at i:11710003 original size:3 final size:3
Alignment explanation
Indices: 11709995--11710023 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
11709985 CAGACACATA
11709995 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
11710024 ATGTGGAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:11710248 original size:29 final size:29
Alignment explanation
Indices: 11710209--11710268 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
11710199 TGATATTTAT
* *
11710209 AAAAATACATAAAAAAAGCATCATTTAAA
1 AAAAATACATAAAAAAAGAATCATATAAA
* **
11710238 AAAAATCCATATTAAAAGAATCATATAAA
1 AAAAATACATAAAAAAAGAATCATATAAA
11710267 AA
1 AA
11710269 TTTTAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.22
Consensus pattern (29 bp):
AAAAATACATAAAAAAAGAATCATATAAA
Found at i:11715537 original size:30 final size:30
Alignment explanation
Indices: 11715501--11715564 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
11715491 ACTGTTAAAA
11715501 ATTTGTATAGTTAATTATAACCAATGATGG
1 ATTTGTATAGTTAATTATAACCAATGATGG
11715531 ATTTGTATAGTTAATTATAACCAATGATGG
1 ATTTGTATAGTTAATTATAACCAATGATGG
11715561 ATTT
1 ATTT
11715565 AGGGGCGGGC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.42
Consensus pattern (30 bp):
ATTTGTATAGTTAATTATAACCAATGATGG
Found at i:11716617 original size:27 final size:27
Alignment explanation
Indices: 11716584--11716645 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
11716574 CAGGTTGCGT
* *
11716584 CTATCTCTGAGGTGCGACTAGTTGAGC
1 CTATCTCAGAGGTGCGACTAATTGAGC
* * *
11716611 CTTTCTCAGAGGTGTGACTAATTGTGC
1 CTATCTCAGAGGTGCGACTAATTGAGC
11716638 CTATCTCA
1 CTATCTCA
11716646 AATGCGCAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (27 bp):
CTATCTCAGAGGTGCGACTAATTGAGC
Found at i:11719968 original size:81 final size:82
Alignment explanation
Indices: 11719809--11719961 Score: 220
Period size: 81 Copynumber: 1.9 Consensus size: 82
11719799 AAAGTCTATT
* * *
11719809 TATTTAAATTTCAAATTTAAAAAAAACCATAAAATTGATAAAAAAAATGGCAAAAAATTCATTAA
1 TATTTAAATTGCAAATGTAAAAAAAACCATAAAATTGATAAAAAAAATGCCAAAAAATTCATTAA
11719874 ATAAATACAAAGTTTAC
66 ATAAATACAAAGTTTAC
* * *
11719891 TATTTAAATTGCAAA-GTAAAAAAAAGCC-TTAAATTGATTAATAAAATGCCAAAAAATTCATTA
1 TATTTAAATTGCAAATGTAAAAAAAA-CCATAAAATTGATAAAAAAAATGCCAAAAAATTCATTA
*
11719954 CATAAATA
65 AATAAATA
11719962 TGAAGTTATT
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
81 47 0.75
82 16 0.25
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (82 bp):
TATTTAAATTGCAAATGTAAAAAAAACCATAAAATTGATAAAAAAAATGCCAAAAAATTCATTAA
ATAAATACAAAGTTTAC
Found at i:11721499 original size:37 final size:37
Alignment explanation
Indices: 11721444--11721518 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
11721434 AAACCAATCC
11721444 AAACACATTTTATATATTATCTAATACTTAACTTTAA
1 AAACACATTTTATATATTATCTAATACTTAACTTTAA
*
11721481 AAACGCATTTTATATATTATCTAATACTTAACTTTAA
1 AAACACATTTTATATATTATCTAATACTTAACTTTAA
11721518 A
1 A
11721519 CACTTATCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.43, C:0.13, G:0.01, T:0.43
Consensus pattern (37 bp):
AAACACATTTTATATATTATCTAATACTTAACTTTAA
Found at i:11722193 original size:18 final size:18
Alignment explanation
Indices: 11722159--11722218 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
11722149 AATTGGTTAA
* *
11722159 TCAGTAATATTCATTTAT
1 TCAGTAACAGTCATTTAT
* *
11722177 TCAGTATCAGTCGTTTAT
1 TCAGTAACAGTCATTTAT
*
11722195 TCTA-TAACAGTCAATTAT
1 TC-AGTAACAGTCATTTAT
11722213 TCAGTA
1 TCAGTA
11722219 GCAGACAGTC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 1 0.03
18 31 0.94
19 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.10, T:0.43
Consensus pattern (18 bp):
TCAGTAACAGTCATTTAT
Found at i:11722353 original size:6 final size:6
Alignment explanation
Indices: 11722344--11722382 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
11722334 GGAATACACC
* *
11722344 GTAATA GTAACA GTAACA GTAACA GTAACA GTAGCA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
11722383 CACAAAGTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (6 bp):
GTAACA
Found at i:11722794 original size:3 final size:3
Alignment explanation
Indices: 11722779--11722808 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11722769 ATTCAATACC
*
11722779 ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11722809 CTTACCATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11723502 original size:13 final size:13
Alignment explanation
Indices: 11723484--11723508 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11723474 TTCTTTCCTT
11723484 TTTCTTTATTTCA
1 TTTCTTTATTTCA
11723497 TTTCTTTATTTC
1 TTTCTTTATTTC
11723509 TTTTATTTTA
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:11728220 original size:30 final size:30
Alignment explanation
Indices: 11728186--11728245 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
11728176 ACTTAACAAG
*
11728186 CAAATATCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
* *
11728216 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
11728246 TAATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:11731119 original size:50 final size:51
Alignment explanation
Indices: 11731039--11731164 Score: 184
Period size: 50 Copynumber: 2.5 Consensus size: 51
11731029 GACCATGGCA
* *
11731039 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCAACACTTATCTAATCAAGGACAAA-TG
*
11731090 A-AAGTGATAAGTGATAGCTTCGGCAACACTTATCTAATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCAACACTTATCTAATCAAGGACAAATG
* *
11731140 ACAAGTGAAAAGTGGTAGCTTCGGC
1 ACAAGTGATAAGTGATAGCTTCGGC
11731165 TACCTGATTA
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
50 43 0.63
51 25 0.37
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCAACACTTATCTAATCAAGGACAAATG
Found at i:11731181 original size:31 final size:31
Alignment explanation
Indices: 11731143--11731252 Score: 177
Period size: 31 Copynumber: 3.5 Consensus size: 31
11731133 ACAAATGACA
*
11731143 AGTGAAAAGTGGTAGCTTCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
*
11731174 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
11731205 AGTGAAAAGTGGTAG-TACCGGCTACCTGATT
1 AGTGAAAAGTGGTAGCT-CCGGCTACCTGATT
*
11731236 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
11731253 TCGACTACAA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
30 1 0.01
31 71 0.97
32 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATT
Found at i:11731396 original size:46 final size:47
Alignment explanation
Indices: 11731279--11731401 Score: 176
Period size: 47 Copynumber: 2.6 Consensus size: 47
11731269 AGTGATTTCC
* * *
11731279 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
*
11731326 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATTTGATA-T
1 GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
* * *
11731372 GTGTAAGACCATAGCTGGGCTATGGCATCA
1 GTATAAGACCATATCTGGGATATGGCATCA
11731402 TTATGTGAAG
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
46 28 0.41
47 41 0.59
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCAGTGAGATATATGATACT
Found at i:11732426 original size:17 final size:15
Alignment explanation
Indices: 11732404--11732462 Score: 57
Period size: 17 Copynumber: 3.7 Consensus size: 15
11732394 TTAAAAAAAA
11732404 TATTTTATTTATCCATT
1 TATTTTATTT-T-CATT
11732421 TATTTTATTTT-ATT
1 TATTTTATTTTCATT
* *
11732435 AAATTTATTTTTGCATT
1 TATTTTA-TTTT-CATT
11732452 TATTTTATTTT
1 TATTTTATTTT
11732463 ATTACACTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
14 8 0.23
15 4 0.11
16 5 0.14
17 18 0.51
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (15 bp):
TATTTTATTTTCATT
Found at i:11732452 original size:31 final size:31
Alignment explanation
Indices: 11732407--11732466 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
11732397 AAAAAAATAT
11732407 TTTATTTATCCATTTATTTTATTTTATTAAA
1 TTTATTTATCCATTTATTTTATTTTATTAAA
* *
11732438 TTTATTTTTGCATTTATTTTATTTTATTA
1 TTTATTTATCCATTTATTTTATTTTATTA
11732467 CACTTCATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (31 bp):
TTTATTTATCCATTTATTTTATTTTATTAAA
Found at i:11735035 original size:20 final size:20
Alignment explanation
Indices: 11735010--11735051 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11735000 TAAGTATTCA
11735010 TTTATATATATT-TATGTATT
1 TTTATA-ATATTATATGTATT
*
11735030 TTTATAATTTTATATGTATT
1 TTTATAATATTATATGTATT
11735050 TT
1 TT
11735052 ATCGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTATAATATTATATGTATT
Found at i:11735566 original size:12 final size:13
Alignment explanation
Indices: 11735540--11735565 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11735530 AAATTAAATC
11735540 TAAAAAATAATTT
1 TAAAAAATAATTT
11735553 TAAAAAATAATTT
1 TAAAAAATAATTT
11735566 ATTTTTCTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAAAATAATTT
Found at i:11736044 original size:15 final size:15
Alignment explanation
Indices: 11736024--11736077 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
11736014 ATACTACAAA
11736024 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
11736039 ATATTTATAATTATAAT
1 ATATTTATTA-T-TAAT
*
11736056 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
11736073 ATATT
1 ATATT
11736078 AATATAGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:11736063 original size:19 final size:19
Alignment explanation
Indices: 11736039--11736075 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11736029 TATTATTAAT
*
11736039 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
11736058 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
11736076 TTAATATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:11736182 original size:22 final size:22
Alignment explanation
Indices: 11736142--11736197 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
11736132 AATAAAATTG
*
11736142 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
11736162 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
11736184 TATTAATAATTTAT
1 AAATAATAAATTAT
11736198 TATATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:11737268 original size:3 final size:3
Alignment explanation
Indices: 11737260--11737314 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
11737250 TAGTTAAAGT
11737260 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
11737308 AG- AGA AG
1 AGA AGA AG
11737315 GAAAGTAGGA
Statistics
Matches: 51, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:11755079 original size:7 final size:7
Alignment explanation
Indices: 11755067--11755102 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
11755057 GAAGACTAAA
11755067 GGCAAAG
1 GGCAAAG
11755074 GGCAAAG
1 GGCAAAG
*
11755081 GGCAGAG
1 GGCAAAG
11755088 GGCAAAG
1 GGCAAAG
*
11755095 GGAAAAG
1 GGCAAAG
11755102 G
1 G
11755103 CGACAAGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.42, C:0.11, G:0.47, T:0.00
Consensus pattern (7 bp):
GGCAAAG
Found at i:11759219 original size:44 final size:44
Alignment explanation
Indices: 11759156--11759243 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
11759146 ACAATAATGG
11759156 ATCGTTTCCTCTTCTTTTCTTTTTTTTCTTTTGAACTTTGCATT
1 ATCGTTTCCTCTTCTTTTCTTTTTTTTCTTTTGAACTTTGCATT
11759200 ATCGTTTCCTCTTCTTTTCTTTTTTTTCTTTTGAACTTTGCATT
1 ATCGTTTCCTCTTCTTTTCTTTTTTTTCTTTTGAACTTTGCATT
11759244 TTGCAATGAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.09, C:0.20, G:0.07, T:0.64
Consensus pattern (44 bp):
ATCGTTTCCTCTTCTTTTCTTTTTTTTCTTTTGAACTTTGCATT
Found at i:11762202 original size:16 final size:17
Alignment explanation
Indices: 11762181--11762217 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
11762171 ACTGAGACAA
11762181 AAATAAATTT-TTAATT
1 AAATAAATTTATTAATT
11762197 AAATAAATTTAATTAATT
1 AAATAAATTT-ATTAATT
11762215 AAA
1 AAA
11762218 ACTTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.53
18 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATAAATTTATTAATT
Found at i:11765101 original size:23 final size:25
Alignment explanation
Indices: 11765075--11765121 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11765065 TATCATTTAT
*
11765075 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
11765098 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
11765122 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:11765442 original size:46 final size:46
Alignment explanation
Indices: 11765382--11765593 Score: 282
Period size: 46 Copynumber: 4.6 Consensus size: 46
11765372 TTTGACGTGA
* * * * * * *
11765382 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TCTCATATCAGGT
** * * * *
11765428 TGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
11765474 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
11765520 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
*
11765566 TGCCATGGTATCTTTCAACCATGATCTT
1 TGCCATGGTATCTTTCAACCATGGTCTT
11765594 TTGCCATGGT
Statistics
Matches: 152, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
45 4 0.03
46 148 0.97
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
Found at i:11765587 original size:16 final size:16
Alignment explanation
Indices: 11765568--11765619 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
11765558 TATCAGGTTG
11765568 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
**
11765584 CCAT-G-ATCTTT-TG
1 CCATGGTATCTTTCAA
11765597 CCATGGTATCTTTCAA
1 CCATGGTATCTTTCAA
11765613 CCATGGT
1 CCATGGT
11765620 CTTACACATT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
13 4 0.14
14 7 0.24
15 7 0.24
16 11 0.38
ACGTcount: A:0.21, C:0.25, G:0.15, T:0.38
Consensus pattern (16 bp):
CCATGGTATCTTTCAA
Found at i:11765600 original size:29 final size:29
Alignment explanation
Indices: 11765565--11765622 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
11765555 TCATATCAGG
11765565 TTGCCATGGTATCTTTCAACCATGATCTT
1 TTGCCATGGTATCTTTCAACCATGATCTT
*
11765594 TTGCCATGGTATCTTTCAACCATGGTCTT
1 TTGCCATGGTATCTTTCAACCATGATCTT
11765623 ACACATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.19, C:0.24, G:0.16, T:0.41
Consensus pattern (29 bp):
TTGCCATGGTATCTTTCAACCATGATCTT
Found at i:11765604 original size:75 final size:75
Alignment explanation
Indices: 11765519--11765722 Score: 284
Period size: 75 Copynumber: 2.6 Consensus size: 75
11765509 TCATATCAGG
11765519 TTGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACAT-TCATATCAGGTTGCCATGGTATCTTTCAA
11765584 CCATGATCTT-
65 CCATGATCTTA
11765594 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTATCTTTCAA
1 TTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTCATATCAGGTTGCCATGGTATCTTTCAA
*
11765659 CCATGGTCTTACACAGA
65 CCATGATCTT------A
*
11765676 GGTTGTCATGGTATCTTTCAACCATGGTCTTACACAATTCATATCAG
1 --TTGCCATGGTATCTTTCAACCATGGTCTTACAC-ATTCATATCAG
11765723 AGAGCACACT
Statistics
Matches: 116, Mismatches: 2, Indels: 13
0.89 0.02 0.10
Matches are distributed among these distances:
75 72 0.62
76 1 0.01
84 42 0.36
85 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (75 bp):
TTGCCATGGTATCTTTCAACCATGGTCTTACACATTCATATCAGGTTGCCATGGTATCTTTCAAC
CATGATCTTA
Found at i:11765688 original size:38 final size:38
Alignment explanation
Indices: 11765637--11765711 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
11765627 ATTTCATATC
11765637 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAG
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAG
*
11765675 AGGTTGTCATGGTATCTTTCAACCATGGTCTTACACA
1 AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
11765712 ATTCATATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (38 bp):
AGGTTGCCATGGTATCTTTCAACCATGGTCTTACACAG
Done.