Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
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: 8249038
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 38
Found at i:3036361 original size:13 final size:13
Alignment explanation
Indices: 3036343--3036371 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
3036333 TGAATTGCGA
3036343 AAATTTAAAATTT
1 AAATTTAAAATTT
3036356 AAATTTAAAATTT
1 AAATTTAAAATTT
3036369 AAA
1 AAA
3036372 ACCCAATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
AAATTTAAAATTT
Found at i:3036450 original size:3 final size:3
Alignment explanation
Indices: 3036438--3036525 Score: 51
Period size: 3 Copynumber: 29.3 Consensus size: 3
3036428 AAAATGTTAG
* *
3036438 ATA A-A ATA ATA ATA ATA ATA ATA A-A ATA TTAA ATAA ATCCA ATA ACA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A AT-A AT--A ATA ATA
* * *
3036485 A-A ACA AAA ATA ATA ATA ATAA ATA A-A ATA CTA A-A ATA ATA A
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA A
3036526 ATCAAAGGGA
Statistics
Matches: 69, Mismatches: 8, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
2 10 0.14
3 47 0.68
4 9 0.13
5 3 0.04
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (3 bp):
ATA
Found at i:3036633 original size:3 final size:3
Alignment explanation
Indices: 3036625--3036712 Score: 53
Period size: 3 Copynumber: 29.3 Consensus size: 3
3036615 AAGTCAAAAG
*
3036625 AAT AAT AAT AAT AAT AAT AAT -AT AAT AA- AAT AAAT AAAT AGA- GAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT A-AT AAT
* *
3036670 AAAT AA- AAT -TT AAT AAAT AAT AAT AAT AAT GAA- AAT AAA AAT A
1 -AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT -AAT AAT AAT AAT A
3036713 CCAAAATAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
2 10 0.15
3 43 0.63
4 15 0.22
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:3036695 original size:24 final size:23
Alignment explanation
Indices: 3036625--3036695 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 23
3036615 AAGTCAAAAG
3036625 AATAATAA-TAAT-AATAATAATA
1 AATAA-AATTAATAAATAATAATA
* *
3036647 TAATAAAATAAATAAATAGA-GATA
1 -AATAAAATTAATAAATA-ATAATA
3036671 AATAAAATTTAATAAATAATAATA
1 AATAAAA-TTAATAAATAATAATA
3036695 A
1 A
3036696 TAATGAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.05
23 16 0.41
24 20 0.51
25 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (23 bp):
AATAAAATTAATAAATAATAATA
Found at i:3037879 original size:8 final size:8
Alignment explanation
Indices: 3037866--3037926 Score: 59
Period size: 8 Copynumber: 7.1 Consensus size: 8
3037856 AGACCTGAGG
3037866 AAAAAATA
1 AAAAAATA
3037874 AAAAAATAA
1 AAAAAAT-A
3037883 AAAGAAATTA
1 AAA-AAA-TA
3037893 ATAAAAATA
1 A-AAAAATA
*
3037902 AATAAATA
1 AAAAAATA
*
3037910 AAAACATA
1 AAAAAATA
*
3037918 TAAAAATA
1 AAAAAATA
3037926 A
1 A
3037927 TAATAATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
8 25 0.58
9 7 0.16
10 8 0.19
11 3 0.07
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (8 bp):
AAAAAATA
Found at i:3037895 original size:14 final size:14
Alignment explanation
Indices: 3037867--3037913 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
3037857 GACCTGAGGA
* *
3037867 AAAAATAAAAAAAT
1 AAAAAGAAATAAAT
*
3037881 AAAAAGAAATTAAT
1 AAAAAGAAATAAAT
*
3037895 AAAAATAAATAAAT
1 AAAAAGAAATAAAT
3037909 AAAAA
1 AAAAA
3037914 CATATAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (14 bp):
AAAAAGAAATAAAT
Found at i:3037905 original size:10 final size:9
Alignment explanation
Indices: 3037866--3037929 Score: 51
Period size: 10 Copynumber: 7.0 Consensus size: 9
3037856 AGACCTGAGG
3037866 AAAAAAT-A
1 AAAAAATAA
3037874 AAAAAATAA
1 AAAAAATAA
3037883 AAAGAAATTAA
1 AAA-AAA-TAA
*
3037894 TAAAAAT-A
1 AAAAAATAA
*
3037902 AATAAATAA
1 AAAAAATAA
*
3037911 AAACATATAA
1 AAA-AAATAA
*
3037921 AAATAATAA
1 AAAAAATAA
3037930 TAATAGTATT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
8 13 0.30
9 12 0.27
10 14 0.32
11 5 0.11
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAAAATAA
Found at i:3037920 original size:14 final size:14
Alignment explanation
Indices: 3037867--3037921 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
3037857 GACCTGAGGA
* *
3037867 AAAAATAAAAAAAT
1 AAAAACAAATAAAT
* *
3037881 AAAAAGAAATTAAT
1 AAAAACAAATAAAT
*
3037895 AAAAATAAATAAAT
1 AAAAACAAATAAAT
*
3037909 AAAAACATATAAA
1 AAAAACAAATAAA
3037922 AATAATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 34 1.00
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (14 bp):
AAAAACAAATAAAT
Found at i:3037934 original size:9 final size:9
Alignment explanation
Indices: 3037867--3037934 Score: 54
Period size: 8 Copynumber: 7.8 Consensus size: 9
3037857 GACCTGAGGA
3037867 AAAAATAA-
1 AAAAATAAT
*
3037875 AAAAATAAA
1 AAAAATAAT
3037884 AAGAAATTAAT
1 AA-AAA-TAAT
3037895 AAAAATAA-
1 AAAAATAAT
*
3037903 ATAAATAA-
1 AAAAATAAT
*
3037911 AAACAT-AT
1 AAAAATAAT
3037919 AAAAATAAT
1 AAAAATAAT
*
3037928 AATAATA
1 AAAAATA
3037935 GTATTATATA
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
7 1 0.02
8 24 0.49
9 13 0.27
10 6 0.12
11 5 0.10
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:3038059 original size:38 final size:37
Alignment explanation
Indices: 3037956--3038164 Score: 282
Period size: 38 Copynumber: 5.6 Consensus size: 37
3037946 AAATACTTTC
*
3037956 AAAAACTATATA--ATATACA-TTTTCAAAAATGTTTT
1 AAAAACTATATATTATATATATTTTTC-AAAATGTTTT
** * *
3037991 TCAAACTAGATATTATATATA-TTTTAAAAATGTTTT
1 AAAAACTATATATTATATATATTTTTCAAAATGTTTT
*
3038027 AAAAACTATATATTATATATATTTTTTCAAAATATTTT
1 AAAAACTATATATTATATATA-TTTTTCAAAATGTTTT
3038065 AAAAACTATATATTATATATATATTTTCAAAATGTTTT
1 AAAAACTATATATTATATATAT-TTTTCAAAATGTTTT
*
3038103 CAAAAACTATATATTATATATATATATTCAAAATGTTTT
1 -AAAAACTATATATTATATATAT-TTTTCAAAATGTTTT
3038142 AAAAACTATATATTATATATATT
1 AAAAACTATATATTATATATATT
3038165 GTAGACATTT
Statistics
Matches: 156, Mismatches: 12, Indels: 10
0.88 0.07 0.06
Matches are distributed among these distances:
35 9 0.06
36 28 0.18
37 12 0.08
38 70 0.45
39 37 0.24
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.45
Consensus pattern (37 bp):
AAAAACTATATATTATATATATTTTTCAAAATGTTTT
Found at i:3038133 original size:77 final size:75
Alignment explanation
Indices: 3037943--3038163 Score: 290
Period size: 77 Copynumber: 2.9 Consensus size: 75
3037933 TAGTATTATA
** * ** *
3037943 TAAAAATACTTTCAAAAACTATATA--ATATACATTTTCAAAAATGTTTTTCAAACTAGATA-T-
1 TAAAAATGTTTTCAAAAACTATATATTATATATATTTTC-AAAATGTTTTAAAAACTATATATTA
3038004 TATATATATTT
65 TATATATATTT
*
3038015 TAAAAATGTTTT-AAAAACTATATATTATATATATTTTTTCAAAATATTTTAAAAACTATATATT
1 TAAAAATGTTTTCAAAAACTATATATTATATATA--TTTTCAAAATGTTTTAAAAACTATATATT
3038079 ATATATATATTT
64 ATATATATATTT
*
3038091 TCAAAATGTTTTCAAAAACTATATATTATATATATATATTCAAAATGTTTTAAAAACTATATATT
1 TAAAAATGTTTTCAAAAACTATATATTATATATAT-T-TTCAAAATGTTTTAAAAACTATATATT
3038156 ATATATAT
64 ATATATAT
3038164 TGTAGACATT
Statistics
Matches: 131, Mismatches: 9, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
71 12 0.09
72 10 0.08
73 6 0.05
74 18 0.14
75 7 0.05
76 23 0.18
77 55 0.42
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (75 bp):
TAAAAATGTTTTCAAAAACTATATATTATATATATTTTCAAAATGTTTTAAAAACTATATATTAT
ATATATATTT
Found at i:3038391 original size:38 final size:37
Alignment explanation
Indices: 3038234--3038530 Score: 337
Period size: 38 Copynumber: 8.1 Consensus size: 37
3038224 TTCGAAGTCA
* *
3038234 TTTTGAAAA-TTATATATTTTATAGTTTTTAAAAAACA-
1 TTTTGAAAACTTATATAATATATAG-TTTT-AAAAACAT
* *
3038271 TTTTGAAAA--TATATAATATATGGTTTTTAAAACA-
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
3038305 TTTTGAAAACTTATATAATATATAGTTTTGAAATCAACAT
1 TTTTGAAAACTTATATAATATATAGTTTT-AAA--AACAT
** *
3038345 TTTCAAAAACTTATATAATATATAGTTTTAAAAATAT
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
3038382 TTTTGAAAAACTTATATAATATATAGTTTTAAAAACATT
1 TTTTG-AAAACTTATATAATATATAGTTTTAAAAACA-T
* *
3038421 TTTTGAAAAATTATATAATATATAGCTTTAAAAACATT
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACA-T
*
3038459 TTTTGAAAACTTATAT-A-ATAT--TTTT-AAATCAT
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
* *
3038491 TTTTGAAAAC-TATATAATATATAGTTTTGAAAACCT
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
3038527 TTTT
1 TTTT
3038531 TTTAAATATA
Statistics
Matches: 228, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
31 5 0.02
32 12 0.05
33 9 0.04
34 18 0.08
35 8 0.04
36 41 0.18
37 19 0.08
38 76 0.33
39 13 0.06
40 27 0.12
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (37 bp):
TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
Found at i:3038475 original size:69 final size:69
Alignment explanation
Indices: 3038259--3038581 Score: 234
Period size: 76 Copynumber: 4.5 Consensus size: 69
3038249 ATTTTATAGT
* * *
3038259 TTTTAAAAAACA-TTTTGAAAA-TATATAATATATGGTTTTTAAAACA--TTTTGAAAACTTATA
1 TTTT-AAAAACATTTTTGAAAACTATATAATATATAGCTTTAAAAACATTTTTTGAAAAC-T-TA
3038320 TAATATATA
63 T-ATA-ATA
** * *
3038329 GTTTTGAAATCAACATTTTCAAAAACTTATATAATATATAGTTTTAAAAATA-TTTTTGAAAAAC
1 -TTTT-AAA--AACATTTTTGAAAAC-TATATAATATATAGCTTTAAAAACATTTTTTG-AAAAC
3038393 TTATATAATATATA
60 -T-TAT-ATA-ATA
*
3038407 GTTTTAAAAACATTTTTTGAAAAATTATATAATATATAGCTTTAAAAACATTTTTTGAAAACTTA
1 -TTTTAAAAACA-TTTTTG-AAAACTATATAATATATAGCTTTAAAAACATTTTTTGAAAACTTA
3038472 TATAATA
63 TATAATA
* * * * * **
3038479 TTTTTAAATCATTTTTGAAAACTATATAATATATAGTTTTGAAAACCTTTTTTTTAAA--TATAA
1 TTTTAAAAACATTTTTGAAAACTATATAATATATAGCTTTAAAAACATTTTTTGAAAACTTAT-A
3038542 TACA-A
65 TA-ATA
*
3038547 -TTTAAAAATATTTTTGAAATA-TATATATATATATA
1 TTTTAAAAACATTTTTGAAA-ACTATATA-ATATATA
3038582 TTATATGGTT
Statistics
Matches: 216, Mismatches: 22, Indels: 31
0.80 0.08 0.12
Matches are distributed among these distances:
67 25 0.12
68 12 0.06
69 36 0.17
70 6 0.03
71 16 0.07
72 3 0.01
73 7 0.03
74 10 0.05
75 5 0.02
76 54 0.25
77 18 0.08
78 24 0.11
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (69 bp):
TTTTAAAAACATTTTTGAAAACTATATAATATATAGCTTTAAAAACATTTTTTGAAAACTTATAT
AATA
Found at i:3038614 original size:14 final size:13
Alignment explanation
Indices: 3038597--3038626 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
3038587 TGGTTTATAT
3038597 TATATGATTATTAG
1 TATATGATTATT-G
3038611 TATATGATTATTG
1 TATATGATTATTG
3038624 TAT
1 TAT
3038627 TTATTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (13 bp):
TATATGATTATTG
Found at i:3038940 original size:23 final size:22
Alignment explanation
Indices: 3038878--3038926 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
3038868 GAGGGAAACG
3038878 ACCCCTCCAAGATCGGTAACTA
1 ACCCCTCCAAGATCGGTAACTA
3038900 ACCCCTCCAAGATCGGTAACTA
1 ACCCCTCCAAGATCGGTAACTA
3038922 ACCCC
1 ACCCC
3038927 CCGAAGGAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.31, C:0.41, G:0.12, T:0.16
Consensus pattern (22 bp):
ACCCCTCCAAGATCGGTAACTA
Found at i:3039897 original size:9 final size:9
Alignment explanation
Indices: 3039886--3039936 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
3039876 ATTTAACCTT
3039886 TTTA-TTTA
1 TTTATTTTA
3039894 TTTTATTTTA
1 -TTTATTTTA
*
3039904 TTTCTTTT-
1 TTTATTTTA
*
3039912 TTTATTTTG
1 TTTATTTTA
3039921 TTTA-TTTA
1 TTTATTTTA
3039929 TTTATTTT
1 TTTATTTT
3039937 TCCTTTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 14 0.39
9 18 0.50
10 4 0.11
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (9 bp):
TTTATTTTA
Found at i:3039913 original size:26 final size:25
Alignment explanation
Indices: 3039884--3039937 Score: 74
Period size: 25 Copynumber: 2.1 Consensus size: 25
3039874 ATATTTAACC
*
3039884 TTTTTATTTAT-TTTATTTTATTTCTT
1 TTTTTATTT-TGTTTA-TTTATTTATT
3039910 TTTTTATTTTGTTTATTTATTTATT
1 TTTTTATTTTGTTTATTTATTTATT
3039935 TTT
1 TTT
3039938 CCTTTTTACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
25 13 0.50
26 13 0.50
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.81
Consensus pattern (25 bp):
TTTTTATTTTGTTTATTTATTTATT
Found at i:3039914 original size:17 final size:17
Alignment explanation
Indices: 3039886--3039936 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
3039876 ATTTAACCTT
3039886 TTTATTTATTTTATTTTA
1 TTTATTT-TTTTATTTTA
* *
3039904 TTTCTTTTTTTATTTTG
1 TTTATTTTTTTATTTTA
*
3039921 TTTATTTATTTATTTT
1 TTTATTTTTTTATTTT
3039937 TCCTTTTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (17 bp):
TTTATTTTTTTATTTTA
Found at i:3040138 original size:13 final size:13
Alignment explanation
Indices: 3040120--3040149 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
3040110 GAATTGAATG
3040120 TTTTAAATTTTAA
1 TTTTAAATTTTAA
*
3040133 TTTTAATTTTTAA
1 TTTTAAATTTTAA
3040146 TTTT
1 TTTT
3040150 TCTCAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTAAATTTTAA
Found at i:3045427 original size:85 final size:84
Alignment explanation
Indices: 3045275--3045983 Score: 778
Period size: 85 Copynumber: 8.4 Consensus size: 84
3045265 CAATTCGCAT
* * * * * * *
3045275 CATAACTCAAGTCGAGAAGGGTTAACTGCCAACAAAAGACCTTCAAGTTCGATTACATTTATCTC
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAAC--AAGACCTTCGAGTTCGATTACACTCAGCTC
3045340 AAAGGCACATCAAATTTACAG
64 AAAGGCACATCAAATTTACAG
* * *
3045361 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACCAAGACCTTTGAGTTTGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAGACCTTCGAGTTCGATTACACTCAGCTCA
*
3045426 AAGGCACATCAAATTTATAG
65 AAGGCACATCAAATTTACAG
* * * * ** * * *
3045446 TATATCTCAAGGTGAGAAGGGCTATCT-TTGA-AAGACCTTTGAGTTCAATTACACTCACCTCAA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAA
* *
3045509 AGGCATATCAAATTTATAG
66 AGGCACATCAAATTTACAG
* * *
3045528 CATAACTCAAGACGAGAAGGGTTATCTGTTAACCAAGACCTTTGAGTTCGATTACACTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAGACCTTCGAGTTCGATTACACTCAGCTCA
*
3045593 AAGGCACATCAAATTTATAG
65 AAGGCACATCAAATTTACAG
* * * * * *
3045613 CATACCTCAAGGCGAGAAGGGCTATCTGTCAA-AATACCTTCTAGTTCGATTACACTCAGTTCTA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAA
*
3045677 AGGCATATCAAATTTACAG
66 AGGCACATCAAATTTACAG
*
3045696 CATAACTCAATGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAA-CAAGACCTTCGAGTTCGATTACACTCAGCTCA
*
3045761 AAGGCACATCAAATTTATAG
65 AAGGCACATCAAATTTACAG
* * * * * * *
3045781 TATAACTTAAGGCGAGAAGGGCTATCTGTCAA-AATACATTCGAGTTCGATTATATTCAGCTCAA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAA
* * * *
3045845 ATGCATACCCAATTTACAG
66 AGGCACATCAAATTTACAG
* * * * * *
3045864 CATAACTCAAGGTGAGAAGGGTTATCTGTCAGCAAATACCTTCGAGTTTGATTCCATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAAC-AAGACCTTCGAGTTCGATTACACTCAGCTCA
* *** * *
3045929 AGGGCATGCCAAATTCACAC
65 AAGGCACATCAAATTTACAG
* * **
3045949 CATAACTTAAGTCGAGAAAAGTTATCTGTCAACAA
1 CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAA
3045984 AAACTGCCCT
Statistics
Matches: 532, Mismatches: 83, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
82 68 0.13
83 145 0.27
84 4 0.01
85 285 0.54
86 29 0.05
87 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.27
Consensus pattern (84 bp):
CATAACTCAAGGCGAGAAGGGTTATCTGTCAACAAGACCTTCGAGTTCGATTACACTCAGCTCAA
AGGCACATCAAATTTACAG
Found at i:3045745 original size:168 final size:168
Alignment explanation
Indices: 3045307--3045934 Score: 864
Period size: 168 Copynumber: 3.7 Consensus size: 168
3045297 TAACTGCCAA
* * * * *
3045307 CAAAAGACCTTCAAGTTCGATTACATTTATCTCAAAGGCACATCAAATTTACAGCATAACTCAAG
1 CAAAAGACCTTCTAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAG
* * *
3045372 GCGAGAAGGGTTATCTGTCAACCAAGACCTTTGAGTTTGATTACATTCAGCTCAAAGGCACATCA
66 GCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
* *
3045437 AATTTATAGTATATCTCAAGGTGAGAAGGGCTATCT-T
131 AATTTATAGTATAACTCAAGGCGAGAAGGGCTATCTGT
** * * *
3045474 TGAAAGACCTT-TGAGTTCAATTACACTCACCTCAAAGGCATATCAAATTTATAGCATAACTCAA
1 CAAAAGACCTTCT-AGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAA
* * *
3045538 GACGAGAAGGGTTATCTGTTAACCAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATC
65 GGCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC
* *
3045603 AAATTTATAGCATACCTCAAGGCGAGAAGGGCTATCTGT
130 AAATTTATAGTATAACTCAAGGCGAGAAGGGCTATCTGT
* * * *
3045642 CAAAATACCTTCTAGTTCGATTACACTCAGTTCTAAGGCATATCAAATTTACAGCATAACTCAAT
1 CAAAAGACCTTCTAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAG
3045707 GCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
66 GCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
*
3045772 AATTTATAGTATAACTTAAGGCGAGAAGGGCTATCTGT
131 AATTTATAGTATAACTCAAGGCGAGAAGGGCTATCTGT
* * * * * * * *
3045810 CAAAATACATTCGAGTTCGATTATATTCAGCTCAAATGCATACCCAATTTACAGCATAACTCAAG
1 CAAAAGACCTTCTAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAG
* * * * * * * *
3045875 GTGAGAAGGGTTATCTGTCAGCAAATACCTTCGAGTTTGATTCCATTCAGCTCAAGGGCA
66 GCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCA
3045935 TGCCAAATTC
Statistics
Matches: 409, Mismatches: 49, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
167 149 0.36
168 259 0.63
169 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (168 bp):
CAAAAGACCTTCTAGTTCGATTACACTCAGCTCAAAGGCATATCAAATTTACAGCATAACTCAAG
GCGAGAAGGGTTATCTGTCAACCAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCA
AATTTATAGTATAACTCAAGGCGAGAAGGGCTATCTGT
Found at i:3046539 original size:2 final size:2
Alignment explanation
Indices: 3046532--3046560 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3046522 ATTTATCTTT
3046532 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3046561 TGAAGTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3046721 original size:38 final size:37
Alignment explanation
Indices: 3046569--3046820 Score: 287
Period size: 36 Copynumber: 6.9 Consensus size: 37
3046559 ATTGAAGTCA
3046569 TTTTGAAAA-TTATATAATATATAGTTTTTAAAAA-AT
1 TTTTGAAAACTTATATAATATATAG-TTTTAAAAACAT
* *
3046605 ATTTTGAAAA--TATATAATATATGGTTTTTAAAACA-
1 -TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
*
3046640 TTTTGAAAATTTATATAATATATAGTTTTGAAATCAACA-
1 TTTTGAAAACTTATATAATATATAGTTTT-AAA--AACAT
3046679 TTTTGAACAACTTATATAATATATAGTTTTAAAAACAT
1 TTTTGAA-AACTTATATAATATATAGTTTTAAAAACAT
3046717 TTTTGAAAATCTTATATAATATATAGTTTTAAAAACATT
1 TTTTGAAAA-CTTATATAATATATAGTTTTAAAAACA-T
*
3046756 TTTTGAAAAC-T-TAT-ATATAT--TTTT-AAATCAT
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
* *
3046787 TATTGAAAAC-TATATAATATATAGTTTTGAAAAC
1 TTTTGAAAACTTATATAATATATAGTTTTAAAAAC
3046821 CTTTAAAAAA
Statistics
Matches: 192, Mismatches: 8, Indels: 31
0.83 0.03 0.13
Matches are distributed among these distances:
31 11 0.06
32 8 0.04
33 10 0.05
34 9 0.05
35 18 0.09
36 38 0.20
37 18 0.09
38 35 0.18
39 24 0.12
40 21 0.11
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (37 bp):
TTTTGAAAACTTATATAATATATAGTTTTAAAAACAT
Found at i:3046771 original size:31 final size:30
Alignment explanation
Indices: 3046735--3046802 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
3046725 ATCTTATATA
*
3046735 ATATATAGTTTTAAAAACATTTTTTGAAAACTT
1 ATATATA-TTTTAAAAACA-TTATTGAAAAC-T
* *
3046768 ATATATATTTTTAAATCATTATTGAAAACT
1 ATATATATTTTAAAAACATTATTGAAAACT
3046798 ATATA
1 ATATA
3046803 ATATATAGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
30 6 0.19
31 10 0.31
32 9 0.28
33 7 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (30 bp):
ATATATATTTTAAAAACATTATTGAAAACT
Found at i:3048305 original size:23 final size:22
Alignment explanation
Indices: 3048269--3048311 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
3048259 TATTATATTA
3048269 ATGTTTTTTATTATTCTTTTTTC
1 ATGTTTTTTATTATT-TTTTTTC
3048292 ATGTTTGTTT-TTATTTTTTT
1 ATGTTT-TTTATTATTTTTTT
3048312 ACAATCTAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 11 0.58
24 3 0.16
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (22 bp):
ATGTTTTTTATTATTTTTTTTC
Found at i:3048693 original size:40 final size:42
Alignment explanation
Indices: 3048642--3048884 Score: 302
Period size: 40 Copynumber: 6.1 Consensus size: 42
3048632 CGGCCGCGAC
3048642 ATATATATTTTCAAAATG-TTTT-AAAAACTATATATTATAT
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATAT
3048682 ATATATATTTTCAAAATG-TTTT-AAAAACTATATATTATATAT
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATA-T-TATAT
3048724 ATATATATTTTCAAAATGTTTTTCAAAAAC--TATA-TAT-T
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATAT
* *
3048762 ATATATATTTTC-AAA--TTTTTAAAAAAATATATA-TATTAT
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTA-TAT
*
3048801 ATATATATTTTGAAAATGTTTTTCAAAAAC--TATA-TA-AT
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATAT
* *
3048839 ATATATATTTTGAAAATGTTTTTCAAAAACTATATAATATAT
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATAT
3048881 ATAT
1 ATAT
3048885 TTCCAAAACC
Statistics
Matches: 183, Mismatches: 5, Indels: 28
0.85 0.02 0.13
Matches are distributed among these distances:
35 10 0.05
37 9 0.05
38 46 0.25
39 15 0.08
40 47 0.26
41 3 0.02
42 43 0.23
43 4 0.02
44 6 0.03
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (42 bp):
ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATAT
Found at i:3048714 original size:38 final size:38
Alignment explanation
Indices: 3048642--3048961 Score: 293
Period size: 38 Copynumber: 8.2 Consensus size: 38
3048632 CGGCCGCGAC
3048642 ATATATATTTTCAAAATGTTTT-AAAAACTATATATTATAT
1 ATATATATTTTCAAAATGTTTTCAAAAAC--TATA-TATAT
3048682 ATATATATTTTCAAAATGTTTT-AAAAACTATATATTATATAT
1 ATATATATTTTCAAAATGTTTTCAAAAAC----TA-TATATAT
3048724 ATATATATTTTCAAAATGTTTTTCAAAAACTATATAT-T
1 ATATATATTTTCAAAATG-TTTTCAAAAACTATATATAT
* *
3048762 ATATATATTTTC-AAAT-TTTTAAAAAAATATATATATTAT
1 ATATATATTTTCAAAATGTTTT-CAAAAA-CTATATA-TAT
*
3048801 ATATATATTTTGAAAATGTTTTTCAAAAACTATATA-AT
1 ATATATATTTTCAAAATG-TTTTCAAAAACTATATATAT
*
3048839 ATATATATTTTGAAAATGTTTTTCAAAAACTATATA-AT
1 ATATATATTTTCAAAATG-TTTTCAAAAACTATATATAT
* **
3048877 ATATATATTTCCAAAACCCATTTTC-AAAACTATATATAT
1 ATATATATTTTCAAAA--TGTTTTCAAAAACTATATATAT
* ** *
3048916 -TATATGTATTTCTAAAACATTTGC--AAACTATAATATAT
1 ATATATAT-TTTC-AAAATGTTTTCAAAAACTAT-ATATAT
3048954 ATATATAT
1 ATATATAT
3048962 ATATATATAT
Statistics
Matches: 248, Mismatches: 13, Indels: 39
0.83 0.04 0.13
Matches are distributed among these distances:
35 4 0.02
36 5 0.02
37 17 0.07
38 97 0.39
39 33 0.13
40 44 0.18
41 5 0.02
42 31 0.12
43 6 0.02
44 6 0.02
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.45
Consensus pattern (38 bp):
ATATATATTTTCAAAATGTTTTCAAAAACTATATATAT
Found at i:3048901 original size:77 final size:75
Alignment explanation
Indices: 3048642--3048932 Score: 279
Period size: 77 Copynumber: 3.7 Consensus size: 75
3048632 CGGCCGCGAC
3048642 ATATATATTTTCAAAATG-TTTT-AAAAACTATATATTATATATATATATTTTCAAAATG-TTTT
1 ATATATATTTTCAAAATGTTTTTCAAAAAC--TATA-TA-ATATATATATTTT-AAAATGTTTTT
3048704 AAAAACTATATATTATATAT
61 AAAAAC----TA-TATATAT
* * *
3048724 ATATATATTTTCAAAATGTTTTTCAAAAACTATATATTATATATATTTTCAAAT-TTTTAAAAAA
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATAATATATATATTTTAAAATGTTTT-TAAAA
*
3048788 ATATATATATTAT
65 A-CTATATA-TAT
*
3048801 ATATATATTTTGAAAATGTTTTTCAAAAACTATATAATATATATATTTTGAAAATGTTTTTCAAA
1 ATATATATTTTCAAAATGTTTTTCAAAAACTATATAATATATATATTTT-AAAATGTTTTT-AAA
3048866 AACTATATA-AT
64 AACTATATATAT
* *** *
3048877 ATATATATTTCCAAAACCCATTTTC-AAAACTATATATATTATATGTATTTCTAAAA
1 ATATATATTTTCAAAA-TGTTTTTCAAAAACTATATA-A-TATATATATTT-TAAAA
3048933 CATTTGCAAA
Statistics
Matches: 181, Mismatches: 15, Indels: 30
0.80 0.07 0.13
Matches are distributed among these distances:
76 31 0.17
77 58 0.32
78 24 0.13
79 17 0.09
80 17 0.09
81 2 0.01
82 22 0.12
83 4 0.02
84 6 0.03
ACGTcount: A:0.45, C:0.07, G:0.03, T:0.46
Consensus pattern (75 bp):
ATATATATTTTCAAAATGTTTTTCAAAAACTATATAATATATATATTTTAAAATGTTTTTAAAAA
CTATATATAT
Found at i:3048955 original size:2 final size:2
Alignment explanation
Indices: 3048944--3048984 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
3048934 ATTTGCAAAC
3048944 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3048985 AATAAAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:3053509 original size:12 final size:13
Alignment explanation
Indices: 3053482--3053510 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
3053472 TCAATTAGGA
3053482 TTTAAGATATTAT
1 TTTAAGATATTAT
3053495 TTTAA-ATATTAT
1 TTTAAGATATTAT
3053507 TTTA
1 TTTA
3053511 TTTTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (13 bp):
TTTAAGATATTAT
Found at i:3054168 original size:10 final size:10
Alignment explanation
Indices: 3054156--3054197 Score: 61
Period size: 10 Copynumber: 4.4 Consensus size: 10
3054146 TTAACACTTC
*
3054156 TTTTCTTTTC
1 TTTTCTTTTA
3054166 TTTTC--TTA
1 TTTTCTTTTA
3054174 TTTTCTTTTA
1 TTTTCTTTTA
3054184 TTTTCTTTTA
1 TTTTCTTTTA
3054194 TTTT
1 TTTT
3054198 TATTTTCCCA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
8 7 0.24
10 22 0.76
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:3054179 original size:18 final size:18
Alignment explanation
Indices: 3054156--3054204 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
3054146 TTAACACTTC
*
3054156 TTTTCTTTTCTTTTCTTA
1 TTTTCTTTTATTTTCTTA
3054174 TTTTCTTTTATTTTCTT-
1 TTTTCTTTTATTTTCTTA
*
3054191 TTAT-TTTTATTTTC
1 TTTTCTTTTATTTTC
3054205 CCACTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 16 0.55
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTCTTTTATTTTCTTA
Found at i:3054298 original size:62 final size:59
Alignment explanation
Indices: 3054216--3054365 Score: 171
Period size: 62 Copynumber: 2.5 Consensus size: 59
3054206 CACTTTTTAT
* * * ** *
3054216 TTTATTTTATTTTCTCTTTTAACATTTTTTTAT-ATTTTTTTTGAAATTTAATATTTTCTTC
1 TTTATTTTATTTTTTATTTTAACATTTTTATATAACATTTTTTAAAATTTAATA-TTTC--C
3054277 ATTTATTTTATTTTTTATTTTAACATTTTTATATAACATTTTTTAAAATTTAATATTTCC
1 -TTTATTTTATTTTTTATTTTAACATTTTTATATAACATTTTTTAAAATTTAATATTTCC
* *
3054337 TTTTTTTTATTTTTTAATTT-A-ATTTTTAT
1 TTTATTTTATTTTTTATTTTAACATTTTTAT
3054366 TTGATATTTC
Statistics
Matches: 79, Mismatches: 8, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
57 8 0.10
58 1 0.01
59 18 0.23
60 1 0.01
62 34 0.43
63 17 0.22
ACGTcount: A:0.25, C:0.06, G:0.01, T:0.68
Consensus pattern (59 bp):
TTTATTTTATTTTTTATTTTAACATTTTTATATAACATTTTTTAAAATTTAATATTTCC
Found at i:3061815 original size:123 final size:123
Alignment explanation
Indices: 3061562--3061829 Score: 342
Period size: 123 Copynumber: 2.2 Consensus size: 123
3061552 AGAGTTAATG
** *
3061562 TCAACTTCACAACGAAGGATATTAAACTCGATCCAATGCAATTTTCAAGATTGGATTTCAACTTC
1 TCAACTTCACAACGAAGGATATTAAACTCGAAACAATGCAATTTACAAGATTGGATTTCAACTTC
* *
3061627 AAAACGAAGGACATCCAATTCAAAGCTCAACTTCACAGCGAATGAGTCATCCACAATT
66 AAAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACAATT
* * * * *
3061685 TCAACTTCACAACGAAAGATATTAATCTC-AAAGAGATTCAATTTACAAGATTGGATTTTAACTT
1 TCAACTTCACAACGAAGGATATTAAACTCGAAACA-ATGCAATTTACAAGATTGGATTTCAACTT
* * * * * *
3061749 CACAACGAAGGATATTCAATTTAAAGCTCAACTTCACAACGAATGAGCCA-CCTCCGATT
65 CAAAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCC-ACAATT
**
3061808 TTGACTTCACAACGAAGGATAT
1 TCAACTTCACAACGAAGGATAT
3061830 CATACCCAAA
Statistics
Matches: 124, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
122 4 0.03
123 120 0.97
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.26
Consensus pattern (123 bp):
TCAACTTCACAACGAAGGATATTAAACTCGAAACAATGCAATTTACAAGATTGGATTTCAACTTC
AAAACGAAGGACATCCAATTCAAAGCTCAACTTCACAACGAATGAGCCATCCACAATT
Found at i:3063241 original size:18 final size:18
Alignment explanation
Indices: 3063218--3063260 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
3063208 CTTTAGATTA
*
3063218 TTTATTTAATTATTTTCT
1 TTTATTTAATTATTATCT
*
3063236 TTTATTTAATTCTTATCT
1 TTTATTTAATTATTATCT
3063254 TTTATTT
1 TTTATTT
3063261 TAAAAACAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.72
Consensus pattern (18 bp):
TTTATTTAATTATTATCT
Found at i:3063343 original size:5 final size:5
Alignment explanation
Indices: 3063330--3063430 Score: 55
Period size: 5 Copynumber: 18.8 Consensus size: 5
3063320 ACACTTCTTT
* *
3063330 TTTTA TTTTG TTTTA TTTTTA TTTTCCCA CTTT- TT-TA TTTTA TTTTA
1 TTTTA TTTTA TTTTA -TTTTA TTTT---A TTTTA TTTTA TTTTA TTTTA
* *
3063377 TTTTG TTTTA TTTTTA TTTTCTA TTTTAA CTTTTA TTTTA TATTT- TATTA
1 TTTTA TTTTA -TTTTA -TTT-TA TTTT-A -TTTTA TTTTA T-TTTA TTTTA
3063427 TTTT
1 TTTT
3063431 TCTTTTTCTG
Statistics
Matches: 76, Mismatches: 8, Indels: 24
0.70 0.07 0.22
Matches are distributed among these distances:
3 1 0.01
4 5 0.07
5 38 0.50
6 22 0.29
7 6 0.08
8 4 0.05
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:3063403 original size:7 final size:6
Alignment explanation
Indices: 3063361--3063437 Score: 54
Period size: 6 Copynumber: 12.8 Consensus size: 6
3063351 TTTTCCCACT
* *
3063361 TTTTTA -TTTTA -TTTTA -TTTT- GTTTTA TTTTTA TTTTCTA TTTTAA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT-TA TTTTTA
* *
3063406 CTTTTA TTTTATA TTTTATTA TTTTTC TTTTT
1 TTTTTA TTTT-TA -TTT-TTA TTTTTA TTTTT
3063438 CTGAAATTTA
Statistics
Matches: 59, Mismatches: 6, Indels: 12
0.77 0.08 0.16
Matches are distributed among these distances:
5 18 0.31
6 24 0.41
7 11 0.19
8 5 0.08
9 1 0.02
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:3063421 original size:42 final size:41
Alignment explanation
Indices: 3063298--3063422 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 41
3063288 ATCTTTACTA
* *
3063298 TTATTATTTATTATTTTATTTAACACTTCTT-TTTTTATTTTGTT
1 TTATT-TTTATT-TTCTATTTTA-ACTT-TTATTTTTATTTTGTT
* *
3063342 TTATTTTTATTTTCCCACTTTTTTA-TTTTA-TTTTATTTTGTT
1 TTATTTTTATTTT-CTA--TTTTAACTTTTATTTTTATTTTGTT
3063384 TTATTTTTATTTTCTATTTTAACTTTTATTTTATATTTT
1 TTATTTTTATTTTCTATTTTAACTTTTATTTT-TATTTT
3063423 ATTATTTTTC
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
39 5 0.07
40 5 0.07
41 5 0.07
42 35 0.51
43 9 0.13
44 6 0.09
45 3 0.04
ACGTcount: A:0.18, C:0.07, G:0.02, T:0.73
Consensus pattern (41 bp):
TTATTTTTATTTTCTATTTTAACTTTTATTTTTATTTTGTT
Found at i:3063435 original size:26 final size:25
Alignment explanation
Indices: 3063361--3063436 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 25
3063351 TTTTCCCACT
* *
3063361 TTTTTATTTTATTTTATTTTGTTTTA
1 TTTTTATTTTATTAT-TTTTCTTTTA
* *
3063387 TTTTTATTTT-CTATTTTAACTTTTA
1 TTTTTATTTTATTATTTT-TCTTTTA
3063412 TTTTATATTTTATTATTTTTCTTTT
1 TTTT-TATTTTATTATTTTTCTTTT
3063437 TCTGAAATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
24 3 0.07
25 11 0.27
26 21 0.51
27 6 0.15
ACGTcount: A:0.17, C:0.04, G:0.01, T:0.78
Consensus pattern (25 bp):
TTTTTATTTTATTATTTTTCTTTTA
Found at i:3064977 original size:31 final size:29
Alignment explanation
Indices: 3064914--3064985 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
3064904 TTAACTCATT
* *
3064914 AAATTATAAAAAGTATGGAAATTTTATAA
1 AAATAATAAAAAGTATGGAAAATTTATAA
*
3064943 AAATGAATAAAATA-TATGTGAAAATTTATGA
1 AAAT-AATAAAA-AGTATG-GAAAATTTATAA
3064974 AAATAATAAAAA
1 AAATAATAAAAA
3064986 CTATAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
29 5 0.14
30 17 0.46
31 15 0.41
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (29 bp):
AAATAATAAAAAGTATGGAAAATTTATAA
Found at i:3066609 original size:61 final size:61
Alignment explanation
Indices: 3066539--3066721 Score: 357
Period size: 61 Copynumber: 3.0 Consensus size: 61
3066529 TAAATAAAAA
3066539 AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAAATCTTATTCACAAATAT
1 AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAAATCTTATTCACAAATAT
3066600 AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAAATCTTATTCACAAATAT
1 AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAAATCTTATTCACAAATAT
*
3066661 AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAATTCTTATTCACAAATAT
1 AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAAATCTTATTCACAAATAT
3066722 TTCCTATCTC
Statistics
Matches: 121, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 121 1.00
ACGTcount: A:0.39, C:0.20, G:0.03, T:0.38
Consensus pattern (61 bp):
AGCCCTATTATATATTTATAACACTATTACTCCATTATCAAGAAATCTTATTCACAAATAT
Found at i:3070700 original size:64 final size:65
Alignment explanation
Indices: 3070616--3070771 Score: 208
Period size: 64 Copynumber: 2.4 Consensus size: 65
3070606 ACACCCCATT
*
3070616 TCGAATGCATTTAGTGTACCGATGCACACACCATGAATCGATGCACTCAAGG-TT-TATTAAAAC
1 TCGAATGTATTTAGTGTACCGATGCACACACCATGAATCGATGCACTCAAGGCTTGT-TTAAAAC
3070679 A
65 A
* * * * * *
3070680 TCGAATGTATTTTGTGTACCGATGCAAAGACCATGCATCGATGCACTCCAGGCTTGTTTGAAACA
1 TCGAATGTATTTAGTGTACCGATGCACACACCATGAATCGATGCACTCAAGGCTTGTTTAAAACA
* *
3070745 TCGAATGTAATTAGTGCACCGATGCAC
1 TCGAATGTATTTAGTGTACCGATGCAC
3070772 CCCTAGTGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
64 46 0.58
65 32 0.41
66 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.28
Consensus pattern (65 bp):
TCGAATGTATTTAGTGTACCGATGCACACACCATGAATCGATGCACTCAAGGCTTGTTTAAAACA
Found at i:3076335 original size:21 final size:21
Alignment explanation
Indices: 3076311--3076391 Score: 69
Period size: 23 Copynumber: 3.8 Consensus size: 21
3076301 ATGCATGCCT
3076311 TGAATGTGCATCGATACA-TC
1 TGAATGTGCATCGATACACTC
* *
3076331 ATGAA-GATGCATCGATGCATTCC
1 -TGAATG-TGCATCGATACACT-C
*
3076354 TTGAATGTGCATCGATGCACTC
1 -TGAATGTGCATCGATACACTC
*
3076376 TG-TTGTGCATCGATAC
1 TGAATGTGCATCGATAC
3076392 CCTCGTCGGG
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
20 13 0.25
21 17 0.33
22 2 0.04
23 18 0.35
24 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.31
Consensus pattern (21 bp):
TGAATGTGCATCGATACACTC
Found at i:3076364 original size:23 final size:23
Alignment explanation
Indices: 3076299--3076372 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 23
3076289 GACAGTGTAC
*
3076299 CGATGCATGCCTTGAATGTGCAT
1 CGATGCATTCCTTGAATGTGCAT
* *
3076322 CGATACA-T-CATGAA-GATGCAT
1 CGATGCATTCCTTGAATG-TGCAT
3076343 CGATGCATTCCTTGAATGTGCAT
1 CGATGCATTCCTTGAATGTGCAT
3076366 CGATGCA
1 CGATGCA
3076373 CTCTGTTGTG
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
20 1 0.02
21 16 0.38
22 1 0.02
23 23 0.55
24 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
CGATGCATTCCTTGAATGTGCAT
Found at i:3078632 original size:19 final size:19
Alignment explanation
Indices: 3078608--3078647 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
3078598 AAAAAGAGGG
*
3078608 AGAAAGATGTGTTATAGTA
1 AGAAAGATGTGCTATAGTA
3078627 AGAAAGATGTGCTATAGTA
1 AGAAAGATGTGCTATAGTA
3078646 AG
1 AG
3078648 TGGGAGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.28, T:0.28
Consensus pattern (19 bp):
AGAAAGATGTGCTATAGTA
Found at i:3079117 original size:66 final size:65
Alignment explanation
Indices: 3079034--3079170 Score: 188
Period size: 66 Copynumber: 2.1 Consensus size: 65
3079024 ACACCCCATT
* *
3079034 TCGAATGCATTTAGTGTACCGATGCACACAAACCATGCATTGATGCACT-CAGGGTT-TATTGAA
1 TCGAATGCATTTAGTGTACCGATG--CACAAACCATGCATCGATGCACTCCAGGCTTGT-TTGAA
3079097 ACA
63 ACA
* * *
3079100 TCGAATGCATTTTGTGTACCGATGCACAGACTATGCATCGATGCACTCCAGGCTTGTTTGAAACA
1 TCGAATGCATTTAGTGTACCGATGCACAAACCATGCATCGATGCACTCCAGGCTTGTTTGAAACA
3079165 TCGAAT
1 TCGAAT
3079171 ATAATTAGTG
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
64 20 0.31
65 20 0.31
66 24 0.38
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.28
Consensus pattern (65 bp):
TCGAATGCATTTAGTGTACCGATGCACAAACCATGCATCGATGCACTCCAGGCTTGTTTGAAACA
Found at i:3079189 original size:65 final size:64
Alignment explanation
Indices: 3079034--3079191 Score: 156
Period size: 65 Copynumber: 2.4 Consensus size: 64
3079024 ACACCCCATT
* * * * * * *
3079034 TCGAATGCATTTAGTGTACCGATGCACACAAACCATGCATTGATGCACTCAGGGTTTATTGAAAC
1 TCGAATACAATTAGTGCACCGATG--CACAGACTATGCATCGATGCACTCAGGCTTTATTGAAAC
3079099 A
64 A
* * * *
3079100 TCGAATGCATTTTGTGTACCGATGCACAGACTATGCATCGATGCACTCCAGGCTTGT-TTGAAAC
1 TCGAATACAATTAGTGCACCGATGCACAGACTATGCATCGATGCACT-CAGGCTT-TATTGAAAC
3079164 A
64 A
* *
3079165 TCGAATATAATTAGTGCACTGATGCAC
1 TCGAATACAATTAGTGCACCGATGCAC
3079192 CCCTAGTGTA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
64 20 0.25
65 35 0.44
66 24 0.30
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (64 bp):
TCGAATACAATTAGTGCACCGATGCACAGACTATGCATCGATGCACTCAGGCTTTATTGAAACA
Found at i:3085236 original size:25 final size:25
Alignment explanation
Indices: 3085208--3085261 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
3085198 CGATCTCCTG
3085208 TTTC-CTCGTCTATCTCTGTTTTTTT
1 TTTCTCTC-TCTATCTCTGTTTTTTT
* *
3085233 TTTCTGTCTCTGTCTCTGTTTTTTT
1 TTTCTCTCTCTATCTCTGTTTTTTT
3085258 TTTC
1 TTTC
3085262 AGGTTCGGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 24 0.92
26 2 0.08
ACGTcount: A:0.02, C:0.22, G:0.09, T:0.67
Consensus pattern (25 bp):
TTTCTCTCTCTATCTCTGTTTTTTT
Found at i:3085697 original size:3 final size:3
Alignment explanation
Indices: 3085689--3085763 Score: 125
Period size: 3 Copynumber: 25.3 Consensus size: 3
3085679 TTAATATATT
*
3085689 TAA TAA TAA TAA TAA TGA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3085736 TAA TAA TAA TAA TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3085764 GTGGGTAAAA
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
2 2 0.03
3 65 0.97
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3086186 original size:99 final size:98
Alignment explanation
Indices: 3086073--3086258 Score: 320
Period size: 99 Copynumber: 1.9 Consensus size: 98
3086063 GACAATGTTG
* *
3086073 ATCCATCAAATGATGAATTCA-AGCAAAAGATTGAACAAGTTCTTCTCATTATGAACTTCTTCTT
1 ATCCATCAAATGATGAATTCAGA-AAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTT
3086137 CCTTCTTCAGATGAGTTCTTCTCATTAAAAGATA
65 CCTTCTTCAGATGAGTTCTTCTCATTAAAAGATA
*
3086171 ATCCATCAATTTGATGAATTCAGAAAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTT
1 ATCCATCAA-ATGATGAATTCAGAAAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTT
3086236 CCTTCTTCAGATGAGTTCTTCTC
65 CCTTCTTCAGATGAGTTCTTCTC
3086259 TCATTATGAA
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
98 9 0.11
99 73 0.88
100 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (98 bp):
ATCCATCAAATGATGAATTCAGAAAAAAGATTGAACAAATTCTTCTCATTATGAACTTCTTCTTC
CTTCTTCAGATGAGTTCTTCTCATTAAAAGATA
Found at i:3086464 original size:225 final size:227
Alignment explanation
Indices: 3086163--3086682 Score: 772
Period size: 225 Copynumber: 2.3 Consensus size: 227
3086153 TCTTCTCATT
*
3086163 AAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGATTGAACAAATTCTTCTCATTATGAAC
1 AAAAGATAATCCATCAATTTGATGAATTCAG-AAAAAGGTTGAACAAATTCTTCTCATTATGAAC
*
3086228 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTCATTATGAACCTTCTCT-G-AAAAGATAATCCA
65 TTCTTCTTCCTTCTTCAAATGAGTTC-T-TCTCATTATGAACCTTCTCTGGAAAAAGATAATCCA
*
3086291 TCAATTTGAT-GAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCT-
128 TCAA-GTGATAGAATT-AG-AAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTC
3086354 TCTTCAGATGA-TTCTTCTCATTATGAACCTTCTCTGG
190 TCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
*
3086391 -AAAGATAATCCATCAATTTGATGAATTCAGGAAAAGGTTGAAC-AATTCTTCTCATTATGAACT
1 AAAAGATAATCCATCAATTTGATGAATTCAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACT
* *
3086454 TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAGCTGATCCATCA
66 TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAGATAATCCATCA
** *
3086519 AGTGATAGAATTAGGCAAAGGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTCTCTTCA
131 AGTGATAGAATTAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTCTTCA
3086584 GATGAGTTCTTCTCATTATGAACCTTCTCTGG
196 GATGAGTTCTTCTCATTATGAACCTTCTCTGG
* * * * *
3086616 AAAAGCTGATCCATCAA-GTGATAGAATT-AGCAGAA-GTTGAACAAATTCTTCTCATTATGAAC
1 AAAAGATAATCCATCAATTTGAT-GAATTCAGAAAAAGGTTGAACAAATTCTTCTCATTATGAA-
3086678 CTTCT
64 CTTCT
3086683 CTTGAAATGT
Statistics
Matches: 269, Mismatches: 14, Indels: 20
0.89 0.05 0.07
Matches are distributed among these distances:
223 61 0.23
224 26 0.10
225 117 0.43
226 35 0.13
227 30 0.11
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (227 bp):
AAAAGATAATCCATCAATTTGATGAATTCAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACCTTCTCTGGAAAAAGATAATCCATCA
AGTGATAGAATTAGAAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTCTTCA
GATGAGTTCTTCTCATTATGAACCTTCTCTGG
Found at i:3086561 original size:113 final size:113
Alignment explanation
Indices: 3086163--3086682 Score: 761
Period size: 112 Copynumber: 4.6 Consensus size: 113
3086153 TCTTCTCATT
* * *
3086163 AAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGATTGAACAAATTCTTCTCATTATGAAC
1 AAAAGATAATCCATCAATGTGATGAATTCAG-GAAAAGGTTGAACAAATTCTTCTCATTATGAAC
3086228 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCTCATTATGAACCTTCTCT-G
65 TTCTTCTTCCTTCTTCAGATGAGTTC-T-TCTCATTATGAACCTTCTCTGG
* *
3086278 AAAAGATAATCCATCAATTTGATGAATTCAGAAAAAAGGTTGAACAAATTCTTCTCATTATGAAC
1 AAAAGATAATCCATCAATGTGATGAATTCAG-GAAAAGGTTGAACAAATTCTTCTCATTATGAAC
3086343 TTCTTCTTCCTTCTTCAGATGA-TTCTTCTCATTATGAACCTTCTCTGG
65 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
*
3086391 -AAAGATAATCCATCAATTTGATGAATTCAGGAAAAGGTTGAAC-AATTCTTCTCATTATGAACT
1 AAAAGATAATCCATCAATGTGATGAATTCAGGAAAAGGTTGAACAAATTCTTCTCATTATGAACT
*
3086454 TCTTCTTCCTTCTTCAAATGAGTTCTTCTCATTATGAACCTTCTCTGG
66 TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
* * *
3086502 AAAAAGCTGATCCATCAA-GTGATAGAATT-AGGCAAAGGTTGAACAAATTCTTCTCATTATGAA
1 -AAAAGATAATCCATCAATGTGAT-GAATTCAGGAAAAGGTTGAACAAATTCTTCTCATTATGAA
*
3086565 TTTCTTCTTCCTCTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
64 CTTCTTCTTCCT-TCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
* * * *
3086616 AAAAGCTGATCCATCAA-GTGATAGAATT-AGCAGAA-GTTGAACAAATTCTTCTCATTATGAAC
1 AAAAGATAATCCATCAATGTGAT-GAATTCAGGAAAAGGTTGAACAAATTCTTCTCATTATGAA-
3086678 CTTCT
64 CTTCT
3086683 CTTGAAATGT
Statistics
Matches: 384, Mismatches: 13, Indels: 18
0.93 0.03 0.04
Matches are distributed among these distances:
110 40 0.10
111 38 0.10
112 94 0.24
113 86 0.22
114 40 0.10
115 86 0.22
ACGTcount: A:0.32, C:0.20, G:0.13, T:0.36
Consensus pattern (113 bp):
AAAAGATAATCCATCAATGTGATGAATTCAGGAAAAGGTTGAACAAATTCTTCTCATTATGAACT
TCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACCTTCTCTGG
Found at i:3087259 original size:83 final size:83
Alignment explanation
Indices: 3087156--3088125 Score: 1551
Period size: 83 Copynumber: 11.7 Consensus size: 83
3087146 AGGCTGAAAC
* * * * *
3087156 CCAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087221 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * * **
3087239 CCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCATATTCATCTTCCCA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087304 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* *
3087322 CTAAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087387 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
* * * **
3087405 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
3087469 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* * *
3087488 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAATAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087553 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
3087571 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087636 ATTCAATGATT-GTTCTG
66 ATTCAATGATTGGTTCTG
3087653 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
3087717 AATTCAATGATT-GTTCTG
65 AATTCAATGATTGGTTCTG
*
3087735 TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087800 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
3087818 CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3087883 ATTCAATGATT-GTTCTG
66 ATTCAATGATTGGTTCTG
* * * **
3087900 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCC
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTA
3087964 AATTCAATGATTGGTTCTG
65 AATTCAATGATTGGTTCTG
* *
3087983 CTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
3088048 ATTCAATGATT-GTTCTG
66 ATTCAATGATTGGTTCTG
**
3088065 TCC-AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTT
1 -CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTT
3088126 TCAGTTAATG
Statistics
Matches: 828, Mismatches: 50, Indels: 19
0.92 0.06 0.02
Matches are distributed among these distances:
81 1 0.00
82 295 0.36
83 531 0.64
84 1 0.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAA
ATTCAATGATTGGTTCTG
Found at i:3087827 original size:165 final size:166
Alignment explanation
Indices: 3087158--3088125 Score: 1626
Period size: 165 Copynumber: 5.9 Consensus size: 166
3087148 GCTGAAACCC
* * * * *
3087158 AAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
* *
3087223 TCAATGATTGGTTCTGCCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 TCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
3087288 CATATTCATCTTCCCAATTCAATGATTGGTTCTGCT
131 CAAATTCATCTTCCCAATTCAATGATTGGTTCTGCT
*
3087324 AAACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
*
3087389 TCAATGATTGGTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 TCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
3087454 CACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
131 CAAATTCATCTTCCCAATTCAATGATTGGTTCTGCT
* *
3087490 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAATAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
*
3087555 TCAATGATTGGTTCTG-CTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
66 TCAATGATTGGTTCTGTC-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
* **
3087619 ACAAATTCATCTTCTAAATTCAATGATT-GTTCTG-T
130 GCAAATTCATCTTCCCAATTCAATGATTGGTTCTGCT
*
3087654 CCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAA
1 -AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAA
*
3087719 TTCAATGATT-GTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTA
65 TTCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGA
* **
3087783 ACAAATTCATCTTCTAAATTCAATGATTGGTTCTGCT
130 GCAAATTCATCTTCCCAATTCAATGATTGGTTCTGCT
3087820 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
*
3087885 TCAATGATT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
66 TCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
*
3087949 CACATTCATCTTCCCAATTCAATGATTGGTTCTGCT
131 CAAATTCATCTTCCCAATTCAATGATTGGTTCTGCT
*
3087985 AAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
1 AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
*
3088050 TCAATGATT-GTTCTGTCCAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-
66 TCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGA
3088113 GCAAATTCATCTT
130 GCAAATTCATCTT
3088126 TCAGTTAATG
Statistics
Matches: 767, Mismatches: 29, Indels: 13
0.95 0.04 0.02
Matches are distributed among these distances:
164 81 0.11
165 379 0.49
166 307 0.40
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.28
Consensus pattern (166 bp):
AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAAT
TCAATGATTGGTTCTGTCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAG
CAAATTCATCTTCCCAATTCAATGATTGGTTCTGCT
Found at i:3087832 original size:247 final size:248
Alignment explanation
Indices: 3087159--3088125 Score: 1690
Period size: 247 Copynumber: 3.9 Consensus size: 248
3087149 CTGAAACCCA
*
3087159 AACCAGATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
* * * *
3087224 CAATGATTGGTTCTGCCAAACCAAATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
66 CAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
* ** *
3087289 ATATTCATCTTCCCAATTCAATGATTGGTTCTGCTAAACCAGATCAAATAACTCAAAGAACACTT
131 AAATTCATCTTCTAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTT
3087354 CCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGGTTCTGTCC
196 CCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATT-GTTCTGTCC
*
3087408 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
* *
3087473 CAATGATTGGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAT
66 CAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
3087538 AAATTCATCTTCTAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTT
131 AAATTCATCTTCTAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTT
3087603 CCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGTTCTGTCC
196 CCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGTTCTGTCC
* * * *
3087656 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAACAAATTCATCTTCTAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
3087721 CAATGATT-GTTCTG-TCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAA
66 CAATGATTGGTTCTGCT-AAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAA
3087784 CAAATTCATCTTCTAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACT
130 CAAATTCATCTTCTAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACT
3087849 TCCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGTTCTGTCC
195 TCCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGTTCTGTCC
*
3087903 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCCAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
*
3087968 CAATGATTGGTTCTGCTAAACCAGGTCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
66 CAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
*
3088033 AAATTCATCTTCTAAATTCAATGATT-GTTCTG-TCCAACCAGATCAGATAACTCAAAGAACACT
131 AAATTCATCTTCTAAATTCAATGATTGGTTCTGCT-AAACCAGATCAGATAACTCAAAGAACACT
**
3088096 TCCAGAAGATGCTATTGGCAAATTCATCTT
195 TCCAGAAGATGCTATTAACAAATTCATCTT
3088126 TCAGTTAATG
Statistics
Matches: 686, Mismatches: 28, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
246 2 0.00
247 300 0.44
248 156 0.23
249 228 0.33
ACGTcount: A:0.37, C:0.22, G:0.13, T:0.28
Consensus pattern (248 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATT
CAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTAAC
AAATTCATCTTCTAAATTCAATGATTGGTTCTGCTAAACCAGATCAGATAACTCAAAGAACACTT
CCAGAAGATGCTATTAACAAATTCATCTTCTAAATTCAATGATTGTTCTGTCC
Found at i:3089410 original size:22 final size:22
Alignment explanation
Indices: 3089393--3089459 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
3089383 CTCGTATAAA
3089393 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
3089415 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
3089437 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
3089459 T
1 T
3089460 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:3089720 original size:30 final size:31
Alignment explanation
Indices: 3089679--3089737 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
3089669 TAGACATAGT
*
3089679 ATTTCCATACCTTTAACACATAG-GCATATC
1 ATTTACATACCTTTAACACATAGTGCATATC
*
3089709 ATTTACATACCTTTATCACATAGTGCATA
1 ATTTACATACCTTTAACACATAGTGCATA
3089738 GAACTTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.36
Consensus pattern (31 bp):
ATTTACATACCTTTAACACATAGTGCATATC
Found at i:3089794 original size:29 final size:29
Alignment explanation
Indices: 3089752--3089823 Score: 117
Period size: 29 Copynumber: 2.5 Consensus size: 29
3089742 TTTTCTGCAT
**
3089752 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
3089781 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
3089810 ATTCATGTCATGTA
1 ATTCATGTCATGTA
3089824 TCATAATATG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:3090288 original size:67 final size:68
Alignment explanation
Indices: 3090125--3090297 Score: 210
Period size: 69 Copynumber: 2.5 Consensus size: 68
3090115 TTTTCTCATA
* * *
3090125 GGGGAATCGGTTCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGATG
1 GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
3090190 AGG
66 AGG
* * *
3090193 GGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-AT
1 GGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA-
3090256 TGA-G
64 TGAGG
* *
3090260 GGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
3090298 AACCCAGAAA
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
65 6 0.06
67 30 0.32
68 16 0.17
69 41 0.44
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.28
Consensus pattern (68 bp):
GGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGATG
AGG
Found at i:3092855 original size:67 final size:68
Alignment explanation
Indices: 3092707--3092858 Score: 227
Period size: 68 Copynumber: 2.2 Consensus size: 68
3092697 TTTTTCTCAT
* * *
3092707 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
3092772 TGA
66 TGA
* * *
3092775 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-A
1 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
3092838 TTGA
66 -TGA
3092842 GGGGGTATCGGTTCCCC
1 GGGGGTATCGGTTCCCC
3092859 TTGAATGGGT
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
66 1 0.01
67 22 0.29
68 54 0.70
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.27
Consensus pattern (68 bp):
GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
TGA
Found at i:3092870 original size:67 final size:67
Alignment explanation
Indices: 3092707--3092880 Score: 210
Period size: 68 Copynumber: 2.6 Consensus size: 67
3092697 TTTTTCTCAT
* * *
3092707 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
3092772 TGA
65 TGA
* * *
3092775 GGGGGTATCGGTTCCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTC-A
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
3092838 TTGA
65 -TGA
* *
3092842 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
3092881 AACCCAGAAA
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
65 6 0.06
66 1 0.01
67 34 0.36
68 54 0.57
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:3094033 original size:9 final size:10
Alignment explanation
Indices: 3093997--3094034 Score: 67
Period size: 10 Copynumber: 3.8 Consensus size: 10
3093987 TTGACCCCTC
*
3093997 TTTTTTCTCT
1 TTTTTTTTCT
3094007 TTTTTTTTCT
1 TTTTTTTTCT
3094017 TTTTTTTTCT
1 TTTTTTTTCT
3094027 TTTTTTTT
1 TTTTTTTT
3094035 TCTTCAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:3094035 original size:11 final size:11
Alignment explanation
Indices: 3093997--3094038 Score: 68
Period size: 11 Copynumber: 3.8 Consensus size: 11
3093987 TTGACCCCTC
3093997 TTTTTTCTCTTT
1 TTTTTTCT-TTT
3094009 TTTTTTC-TTT
1 TTTTTTCTTTT
3094019 TTTTTTCTTTT
1 TTTTTTCTTTT
3094030 TTTTTTCTT
1 TTTTTTCTT
3094039 CAAGCATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.34
11 12 0.41
12 7 0.24
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTTCTTTT
Found at i:3094035 original size:21 final size:22
Alignment explanation
Indices: 3093997--3094038 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
3093987 TTGACCCCTC
3093997 TTTTTTCTCTTTTTTTTTCTTT
1 TTTTTTCTCTTTTTTTTTCTTT
3094019 TTTTTTCT-TTTTTTTTTCTT
1 TTTTTTCTCTTTTTTTTTCTT
3094039 CAAGCATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (22 bp):
TTTTTTCTCTTTTTTTTTCTTT
Found at i:3104582 original size:152 final size:156
Alignment explanation
Indices: 3104399--3104703 Score: 566
Period size: 154 Copynumber: 2.0 Consensus size: 156
3104389 CAAATAAATA
3104399 AAAACATATAAATATTATGAAAATAATAAGT-AATATAAAAA-TTTGAAAAGAAAGAATTAAAAA
1 AAAACATATAAATATTATGAAAATAATAAGTAAATATAAAAATTTTGAAAAGAAAGAATT-AAAA
3104462 TT-AATATATTAACTTTTAATTTTTAATTAATAGAGACAA-TTATAATTGATTTTAAAAG-TTGA
65 TTAAATATATTAACTTTTAATTTTTAATTAATAGAGACAATTTATAATTGATTTTAAAAGTTTGA
3104524 CCGGTCCCCAGCGGAGTCGCCAAGAAT
130 CCGGTCCCCAGCGGAGTCGCCAAGAAT
3104551 AAAACATATAAATATTATGAAAATAATAAGTAAATATAAAAATTTTGAAAAGAAAGAATTAAAAT
1 AAAACATATAAATATTATGAAAATAATAAGTAAATATAAAAATTTTGAAAAGAAAGAATTAAAAT
3104616 TAAATATATTAACTTTTAATTTTTAATTAATAGAGACAATTTATAATTGATTTTAAAAGTTTGAC
66 TAAATATATTAACTTTTAATTTTTAATTAATAGAGACAATTTATAATTGATTTTAAAAGTTTGAC
3104681 CGGTCCCCAGCGGAGTCGCCAAG
131 CGGTCCCCAGCGGAGTCGCCAAG
3104704 CTGTCATAAC
Statistics
Matches: 148, Mismatches: 0, Indels: 6
0.96 0.00 0.04
Matches are distributed among these distances:
152 31 0.21
153 16 0.11
154 54 0.36
155 19 0.13
156 28 0.19
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.32
Consensus pattern (156 bp):
AAAACATATAAATATTATGAAAATAATAAGTAAATATAAAAATTTTGAAAAGAAAGAATTAAAAT
TAAATATATTAACTTTTAATTTTTAATTAATAGAGACAATTTATAATTGATTTTAAAAGTTTGAC
CGGTCCCCAGCGGAGTCGCCAAGAAT
Found at i:3105573 original size:26 final size:26
Alignment explanation
Indices: 3105530--3105582 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
3105520 ATTAAAAATA
*
3105530 TAAACTAAGGATTAAAATATTTTATT
1 TAAACTAAGGATTAAAATATGTTATT
* *
3105556 TAAATTAAGGGATT-AAATCTGTTATT
1 TAAACTAA-GGATTAAAATATGTTATT
3105582 T
1 T
3105583 CCTAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (26 bp):
TAAACTAAGGATTAAAATATGTTATT
Found at i:3106706 original size:12 final size:11
Alignment explanation
Indices: 3106689--3106724 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
3106679 GGTCTGTAAT
3106689 TATTTATTTATA
1 TATTTATTTA-A
3106701 TATTTATTTAA
1 TATTTATTTAA
*
3106712 TATATATTTAA
1 TATTTATTTAA
3106723 TA
1 TA
3106725 ATAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.57
12 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTATTTAA
Found at i:3106728 original size:3 final size:3
Alignment explanation
Indices: 3106720--3106783 Score: 101
Period size: 3 Copynumber: 21.3 Consensus size: 3
3106710 AATATATATT
* *
3106720 TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3106768 TAA TAA TAA TAG TAA T
1 TAA TAA TAA TAA TAA T
3106784 GTGGGTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:3109100 original size:30 final size:30
Alignment explanation
Indices: 3109056--3109119 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 30
3109046 TCAAACGGTC
*
3109056 GGGGACTATATTGCAAACAGACTAAATGTT
1 GGGGACCATATTGCAAACAGACTAAATGTT
* *
3109086 GGGGACCATTTTGCAAACGGACTAAATGTT
1 GGGGACCATATTGCAAACAGACTAAATGTT
3109116 GGGG
1 GGGG
3109120 GACTGTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.30, T:0.25
Consensus pattern (30 bp):
GGGGACCATATTGCAAACAGACTAAATGTT
Found at i:3110396 original size:29 final size:29
Alignment explanation
Indices: 3110381--3110503 Score: 103
Period size: 29 Copynumber: 4.4 Consensus size: 29
3110371 TATTTTCTTT
3110381 TAATTTATAAATAGTCTTGATATTTATTG
1 TAATTTATAAATAGTCTTGATATTTATTG
*** * *
3110410 TAATTTATAAA-AAAATTGGTACTTATTG
1 TAATTTATAAATAGTCTTGATATTTATTG
* * * *
3110438 CAATTTATAGAA-AATTTTGGTATTTATTG
1 TAATTTATA-AATAGTCTTGATATTTATTG
* *
3110467 TAATTTATAAA-A-ACTT-ATCTTTATTG
1 TAATTTATAAATAGTCTTGATATTTATTG
3110493 TAATTTATAAA
1 TAATTTATAAA
3110504 AAAATTGGTA
Statistics
Matches: 79, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
26 19 0.24
27 2 0.03
28 23 0.29
29 35 0.44
ACGTcount: A:0.39, C:0.04, G:0.09, T:0.48
Consensus pattern (29 bp):
TAATTTATAAATAGTCTTGATATTTATTG
Found at i:3110443 original size:28 final size:28
Alignment explanation
Indices: 3110404--3110524 Score: 140
Period size: 28 Copynumber: 4.4 Consensus size: 28
3110394 GTCTTGATAT
3110404 TTATTGTAATTTATAAAAAAATTGGTAC
1 TTATTGTAATTTATAAAAAAATTGGTAC
* ** *
3110432 TTATTGCAATTTATAGAAAATTTTGGTAT
1 TTATTGTAATTTATA-AAAAAATTGGTAC
* *
3110461 TTATTGTAATTTAT-AAAAACTT-AT-C
1 TTATTGTAATTTATAAAAAAATTGGTAC
*
3110486 TTTATTGTAATTTATAAAAAAATTGGTAT
1 -TTATTGTAATTTATAAAAAAATTGGTAC
3110515 TTATTGTAAT
1 TTATTGTAAT
3110525 ATTTTAAGAA
Statistics
Matches: 76, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
26 15 0.20
27 13 0.17
28 25 0.33
29 23 0.30
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (28 bp):
TTATTGTAATTTATAAAAAAATTGGTAC
Found at i:3110536 original size:28 final size:27
Alignment explanation
Indices: 3110401--3110536 Score: 121
Period size: 28 Copynumber: 4.9 Consensus size: 27
3110391 ATAGTCTTGA
*
3110401 TATTTATTGTAATTTATAAAAAAATTGG
1 TATTTATTGTAATTT-TTAAAAAATTGG
* * * *
3110429 TACTTATTGCAATTTATAGAAAATTTTGG
1 TATTTATTGTAATTTTTA-AAAA-ATTGG
* * *
3110458 TATTTATTGTAATTTATAAAAACTT-A
1 TATTTATTGTAATTTTTAAAAAATTGG
* *
3110484 TCTTTATTGTAATTTATAAAAAAATTGG
1 TATTTATTGTAATTT-TTAAAAAATTGG
*
3110512 TATTTATTGTAATATTTTAAGAAAT
1 TATTTATTGTAAT-TTTTAAAAAAT
3110537 ATACTTTGTA
Statistics
Matches: 86, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
26 14 0.16
27 10 0.12
28 40 0.47
29 22 0.26
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.48
Consensus pattern (27 bp):
TATTTATTGTAATTTTTAAAAAATTGG
Found at i:3110549 original size:83 final size:82
Alignment explanation
Indices: 3110403--3110558 Score: 208
Period size: 83 Copynumber: 1.9 Consensus size: 82
3110393 AGTCTTGATA
** *
3110403 TTTATTGTAATTTATAAAAAAATTGGTACTTATTGCAATTTATAGAAAATTTTGGTATTTATTGT
1 TTTATTGTAATTTATAAAAAAATTGGTACTTATTGCAATTTATAGAAAATACT-GTATGTATTGT
3110468 AATTTATAAAAACTTATC
65 AATTTATAAAAACTTATC
* * *
3110486 TTTATTGTAATTTATAAAAAAATTGGTATTTATTGTAATATTTTAAGAAATATACT-T-TGTATT
1 TTTATTGTAATTTATAAAAAAATTGGTACTTATTGCAAT-TTAT-AGAAA-ATACTGTATGTATT
3110549 GTAATTTATA
63 GTAATTTATA
3110559 TAAATATTTG
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
83 52 0.81
84 4 0.06
85 5 0.08
86 3 0.05
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (82 bp):
TTTATTGTAATTTATAAAAAAATTGGTACTTATTGCAATTTATAGAAAATACTGTATGTATTGTA
ATTTATAAAAACTTATC
Found at i:3111758 original size:187 final size:184
Alignment explanation
Indices: 3111453--3111914 Score: 576
Period size: 187 Copynumber: 2.5 Consensus size: 184
3111443 GGTTGAGCCG
* *
3111453 AAAATGTTATCAAG-GTTTAAGTTGATAGAACCTTGAATTTTCACACGATAAGAAAATAATTAAA
1 AAAATGTTAT-AAGAATTTAAG-TGATAGAA-CTTGAATTTTC-CATGATAAGAAAATAATTAAA
* *
3111517 AACT-AAAAATGTTATGAATATATATAAGAAATACGGTTGTGACAAATAATGTCATAATTCACTA
62 AACTGAAAAATGTTATGAATATATAGAAGAAATACGGTTGCGACAAATAATGTCATAATTCACTA
* * * * *
3111581 AGAAAGCAGGTTGCAATCTGGAATCTTAATATTTTTATTAATAAAATGAGTTGCA-CT
127 AGAAAGCAGATTACAATATGAAATCTTAATATTTTTAATAATAAAATGAGTTGCACCT
*
3111638 AAAATGTTATTAGAATTTAAGCTGAT-GAAGCTTTGAATTTTCCTATGATAAGAAAATAAGTTAA
1 AAAATGTTATAAGAATTTAAG-TGATAGAA-C-TTGAATTTTCC-ATGATAAGAAAATAA-TTAA
* * *
3111702 AAACTGAAAAATATTATGAATATATAGAAGAAATATGGTTGCG-CATAATAATGTCATATTTCAC
61 AAACTGAAAAATGTTATGAATATATAGAAGAAATACGGTTGCGACA-AATAATGTCATAATTCAC
* * *
3111766 TAAGAAATCATATTACAATATGAAATCTTAATATTTTTAATAATAAAATGAGTTGTACCT
125 TAAGAAAGCAGATTACAATATGAAATCTTAATATTTTTAATAATAAAATGAGTTGCACCT
* * *
3111826 AAAATGTTATAAGAGTTTAATGTGATGGAATCTTGGATTTTCCCATGATAAGAAAATAAATTAAA
1 AAAATGTTATAAGAATTTAA-GTGATAGAA-CTTGAATTTT-CCATGATAAGAAAAT-AATTAAA
*
3111891 AGCTG-AAAATGTTATGAATATATA
62 AACTGAAAAATGTTATGAATATATA
3111915 TGATTTTGCC
Statistics
Matches: 242, Mismatches: 24, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
184 7 0.03
185 44 0.18
186 11 0.05
187 117 0.48
188 54 0.22
189 9 0.04
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (184 bp):
AAAATGTTATAAGAATTTAAGTGATAGAACTTGAATTTTCCATGATAAGAAAATAATTAAAAACT
GAAAAATGTTATGAATATATAGAAGAAATACGGTTGCGACAAATAATGTCATAATTCACTAAGAA
AGCAGATTACAATATGAAATCTTAATATTTTTAATAATAAAATGAGTTGCACCT
Found at i:3112090 original size:80 final size:77
Alignment explanation
Indices: 3111922--3112092 Score: 204
Period size: 77 Copynumber: 2.2 Consensus size: 77
3111912 ATATGATTTT
* *
3111922 GCCCAATAATGTCATGGTTCACTAAGAAATGCGTTACGATATGTAATGTTAATATTTTTATTAAT
1 GCCCAAGAATGTCATGGTCCACTAAGAAATGCGTTACGATATGTAATGTTAATATTTTTATTAAT
3111987 AAAATAGGTTAC
66 AAAATAGGTTAC
* * * *
3111999 TCCTAAGAATGTTATGGTCCACTAAGAAATTAG-GTTATGATGCAATGTAATGTTAATATTTTT-
1 GCCCAAGAATGTCATGGTCCACTAAGAAA-T-GCGTTACGAT---ATGTAATGTTAATATTTTTA
*
3112062 TTTATAAAATAGG-TAGC
61 TTAATAAAATAGGTTA-C
3112079 GCCCAAGAATGTCA
1 GCCCAAGAATGTCA
3112093 AGATTTTGAA
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
77 24 0.31
78 8 0.10
79 3 0.04
80 24 0.31
81 19 0.24
ACGTcount: A:0.36, C:0.12, G:0.17, T:0.36
Consensus pattern (77 bp):
GCCCAAGAATGTCATGGTCCACTAAGAAATGCGTTACGATATGTAATGTTAATATTTTTATTAAT
AAAATAGGTTAC
Found at i:3112553 original size:211 final size:205
Alignment explanation
Indices: 3112163--3112726 Score: 661
Period size: 211 Copynumber: 2.7 Consensus size: 205
3112153 GGTTGTGCCC
* * * *
3112163 AAAAAATGAAAAACAG-TTCAAAATTTTAAATATCAATA-TTGAATTTATTATTATGGGTACTTT
1 AAAAAATAAAAAATAGATT-AAAATTTTAAATATCAATACTT-AATATATTATTAT-GATACTTT
* * * * *
3112226 TAAATATTGAAAAGTTGAAGATAAAATCAAAAGTGAAAATATCAATACTTATGTGGTAATAATCG
63 TAAATATTGAAAAGTTTAAGATAAGATCAAAAGTTAAAATATCAATACTTATGAGGTAATGATCG
* * * *
3112291 ATACTGTTAAAAATTGAAAGAAAATAAGTTAAAAACTTAAAATGTTATGAATATATATATAAGAA
128 ATACTTTTAAAAATTGAAAGAAAACAAGTTAAAAACTAAAAATGGTATG-A-ATATATATAAGAA
*
3112356 ATACAGTTGTGTCCAA
191 ATACAGTTG-GACCAA
* * *
3112372 AAAAAATTAAAAAAATAGATTGAAATTTTAAACATCGATACTTAATATATTATTATCGATACTTT
1 AAAAAA-T-AAAAAATAGATTAAAATTTTAAATATCAATACTTAATATATTATTAT-GATACTTT
* ** * *
3112437 TAAATATTGAAAAAGTTTAAGATAAGATCAAAATTTAAAATATTGATACTTATGCGGTAATGATT
63 TAAATATTG-AAAAGTTTAAGATAAGATCAAAAGTTAAAATATCAATACTTATGAGGTAATGATC
3112502 GATACTTTTAAAAATT-AAAGAAAACAAGTTAAAAACTAAAAATGGTATGAATATATATAAGAAA
127 GATACTTTTAAAAATTGAAAGAAAACAAGTTAAAAACTAAAAATGGTATGAATATATATAAGAAA
** **
3112566 TATGGTTGGACCCT
192 TACAGTTGGACCAA
* *
3112580 AAAAAATAAAAAATCGATTAAAATTTTATAAATATCAACACTTAATATATTATTAATGATACTTT
1 AAAAAATAAAAAATAGATTAAAA-TTT-TAAATATCAATACTTAATATATTATT-ATGATACTTT
* ** * *
3112645 T--ATATTGAAAAGTTTAAGGTAAGATTGAAAGCTAAAATATCAATATTTATGAGGTAATGATCG
63 TAAATATTGAAAAGTTTAAGATAAGATCAAAAGTTAAAATATCAATACTTATGAGGTAATGATCG
* *
3112708 ACACATTTAAAAATTGAAA
128 ATACTTTTAAAAATTGAAA
3112727 AAATTGATAA
Statistics
Matches: 303, Mismatches: 43, Indels: 21
0.83 0.12 0.06
Matches are distributed among these distances:
205 59 0.19
206 23 0.08
207 4 0.01
208 41 0.14
209 28 0.09
210 2 0.01
211 81 0.27
212 65 0.21
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.33
Consensus pattern (205 bp):
AAAAAATAAAAAATAGATTAAAATTTTAAATATCAATACTTAATATATTATTATGATACTTTTAA
ATATTGAAAAGTTTAAGATAAGATCAAAAGTTAAAATATCAATACTTATGAGGTAATGATCGATA
CTTTTAAAAATTGAAAGAAAACAAGTTAAAAACTAAAAATGGTATGAATATATATAAGAAATACA
GTTGGACCAA
Found at i:3122952 original size:12 final size:12
Alignment explanation
Indices: 3122935--3122960 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3122925 AGCTTATTCC
3122935 TCTAATACTAAT
1 TCTAATACTAAT
3122947 TCTAATACTAAT
1 TCTAATACTAAT
3122959 TC
1 TC
3122961 CTTGGAGTTA
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:0.38, C:0.19, G:0.00, T:0.42
Consensus pattern (12 bp):
TCTAATACTAAT
Found at i:3127454 original size:16 final size:17
Alignment explanation
Indices: 3127433--3127466 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
3127423 ATAAATCAAG
3127433 TTATTT-TCTAATTTTA
1 TTATTTATCTAATTTTA
*
3127449 TTATTTATTTAATTTTA
1 TTATTTATCTAATTTTA
3127466 T
1 T
3127467 ATCCTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATTTATCTAATTTTA
Found at i:3130648 original size:20 final size:20
Alignment explanation
Indices: 3130625--3130664 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
3130615 TATTTATGTC
3130625 GTCGAGGCAAGGTTTATCTA
1 GTCGAGGCAAGGTTTATCTA
*
3130645 GTCGATGCAAGGTTTATCTA
1 GTCGAGGCAAGGTTTATCTA
3130665 AAGAAGTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.33
Consensus pattern (20 bp):
GTCGAGGCAAGGTTTATCTA
Found at i:3132737 original size:36 final size:36
Alignment explanation
Indices: 3132690--3132771 Score: 146
Period size: 36 Copynumber: 2.3 Consensus size: 36
3132680 GCAACTGATC
3132690 AAGAGAATAGCAATCGATCAGGTAGTGAAAGCTATG
1 AAGAGAATAGCAATCGATCAGGTAGTGAAAGCTATG
* *
3132726 AAGAGAATAGCAATCGATCAGGTAGTGGAAGCTTTG
1 AAGAGAATAGCAATCGATCAGGTAGTGAAAGCTATG
3132762 AAGAGAATAG
1 AAGAGAATAG
3132772 TGAGCACCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.41, C:0.10, G:0.29, T:0.20
Consensus pattern (36 bp):
AAGAGAATAGCAATCGATCAGGTAGTGAAAGCTATG
Found at i:3137935 original size:22 final size:22
Alignment explanation
Indices: 3137907--3137984 Score: 83
Period size: 22 Copynumber: 3.6 Consensus size: 22
3137897 ACCGAAAGAG
*
3137907 AGTATCGATACCATAGTGTAGT
1 AGTATCGATACCATAGTGTAGA
3137929 AGTATCGATA--AT-GTG-AGAA
1 AGTATCGATACCATAGTGTAG-A
* *
3137948 AGGTATCGGTACCATAGTATAGA
1 A-GTATCGATACCATAGTGTAGA
3137971 AGTATCGATACCAT
1 AGTATCGATACCAT
3137985 GGTAGGGGTA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
18 2 0.04
19 4 0.09
20 10 0.22
22 24 0.52
23 4 0.09
24 2 0.04
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (22 bp):
AGTATCGATACCATAGTGTAGA
Found at i:3140221 original size:100 final size:99
Alignment explanation
Indices: 3140014--3140376 Score: 311
Period size: 100 Copynumber: 3.6 Consensus size: 99
3140004 TTTGTATTAA
* * * * * *
3140014 TTTTCATAATGTATACGGTTTCAACCTATAACTTAACTAGTTATCATAACAAAAAGACACAACCT
1 TTTTCATAATATACATGTTTTCAACCTATAACTTAACTAGTTAACATAACAACAAGACACAACCT
* ** *
3140079 ATAACATTATCCAAGAAACCAAGTTTGTATTAGT
66 ATAACATTATACAAGAAACCAAGTTAATATTACT
* * * * *
3140113 TTTTCATAATATACAAT-TTTTCAACTTATAACATAACTAGTTAACATAGCAACATGACATAACC
1 TTTTCATAATATAC-ATGTTTTCAACCTATAACTTAACTAGTTAACATAACAACAAGACACAA-C
* *
3140177 CTATAA-TTTCATACATGAAACCAAGTTAATATTACT
64 CTATAACATT-ATACAAGAAACCAAGTTAATATTACT
* * ***
3140213 TTTTCATAATATACATGGTTTT-AGCCTATAACTTAACCAGTTAACATAACAACAAGGTGCAACC
1 TTTTCATAATATACAT-GTTTTCAACCTATAACTTAACTAGTTAACATAACAACAAGACACAACC
** * * ** * * * *
3140277 TATAATGTTATTCAGGAAAATAGGTTTATTTTATTT
65 TATAACATTATACAAGAAACCAAGTTAATATTA-CT
* * * * *
3140313 TTTTCATAATATACACGGTTTCAACCTATAACTTAA-TCAGTTAACATAACGATAAGGCACAACC
1 TTTTCATAATATACATGTTTTCAACCTATAACTTAACT-AGTTAACATAACAACAAGACACAACC
3140377 GGTAACGTTA
Statistics
Matches: 211, Mismatches: 44, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
99 81 0.38
100 126 0.60
101 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (99 bp):
TTTTCATAATATACATGTTTTCAACCTATAACTTAACTAGTTAACATAACAACAAGACACAACCT
ATAACATTATACAAGAAACCAAGTTAATATTACT
Found at i:3141978 original size:33 final size:33
Alignment explanation
Indices: 3141901--3141978 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
3141891 CCAATCAACC
*
3141901 GATGAGTTCTTGGTTGATTGCCAGAGATGTTTT
1 GATGAGTTGTTGGTTGATTGCCAGAGATGTTTT
* ** *
3141934 GGTGAGTTGTTGGTTGATTGCTGGAGATTTTTT
1 GATGAGTTGTTGGTTGATTGCCAGAGATGTTTT
*
3141967 GATGAGCTGTTG
1 GATGAGTTGTTG
3141979 ATTGGTTTCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.15, C:0.06, G:0.35, T:0.44
Consensus pattern (33 bp):
GATGAGTTGTTGGTTGATTGCCAGAGATGTTTT
Found at i:3144999 original size:45 final size:45
Alignment explanation
Indices: 3144919--3145010 Score: 116
Period size: 45 Copynumber: 2.0 Consensus size: 45
3144909 AAGGCGCTAC
* *
3144919 TATAATGTAATACTTATAAAGTTGTTTTGCTTTACTTTTGCATAA
1 TATAATGTAATACTTAAAAACTTGTTTTGCTTTACTTTTGCATAA
* *
3144964 TATAATGTAATACTTAAAAACCTAT-TTTTTC-TTACTTTTGTATAA
1 TATAATGTAATACTTAAAAA-CT-TGTTTTGCTTTACTTTTGCATAA
3145009 TA
1 TA
3145011 GAAAAGGTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
45 34 0.83
46 6 0.15
47 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.49
Consensus pattern (45 bp):
TATAATGTAATACTTAAAAACTTGTTTTGCTTTACTTTTGCATAA
Found at i:3145014 original size:145 final size:146
Alignment explanation
Indices: 3144819--3145114 Score: 400
Period size: 145 Copynumber: 2.0 Consensus size: 146
3144809 AGGCTCTACC
* *
3144819 TATAGTGTTATACTTAAAAACCTATTTTGTCTTACTTTTGCATAATAGAAAAGGTTTCAAACATA
1 TATAATGTAATACTTAAAAACCTATTTTGTCTTACTTTTGCATAATAGAAAAGGTTTCAAACATA
* * **
3144884 TAAAGTAAACAATTGAA-AAATAAAAAAGGCGCTA-CTATAATGTAATACTTATAAAGTTGTTTT
66 TAAAGTAAACAATT-AACAAATAAAAAAGGCGCTACCTATAATATAATACATATAAACCTGTTTT
*
3144947 G-CTTTACTTTTGCATAA
130 GTC-TTAATTTTGCATAA
* * *
3144964 TATAATGTAATACTTAAAAACCTATTTTTTCTTACTTTTGTATAATAGAAAAGGTTTCAATCATA
1 TATAATGTAATACTTAAAAACCTATTTTGTCTTACTTTTGCATAATAGAAAAGGTTTCAAACATA
* * * * * * *
3145029 TAACGTAAACGATTAACAATTACAAAAGGCGCTACCTGTATTATTATACATATAAACCTGTTTTG
66 TAAAGTAAACAATTAACAAATAAAAAAGGCGCTACCTATAATATAATACATATAAACCTGTTTTG
3145094 TCTTAATTTTGCATAA
131 TCTTAATTTTGCATAA
3145110 TATAA
1 TATAA
3145115 CAAAGTTTCA
Statistics
Matches: 131, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
144 2 0.02
145 87 0.66
146 41 0.31
147 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.38
Consensus pattern (146 bp):
TATAATGTAATACTTAAAAACCTATTTTGTCTTACTTTTGCATAATAGAAAAGGTTTCAAACATA
TAAAGTAAACAATTAACAAATAAAAAAGGCGCTACCTATAATATAATACATATAAACCTGTTTTG
TCTTAATTTTGCATAA
Found at i:3145158 original size:102 final size:101
Alignment explanation
Indices: 3144981--3145332 Score: 431
Period size: 102 Copynumber: 3.5 Consensus size: 101
3144971 TAATACTTAA
* * * * * ** *
3144981 AAACCTATTTTTTCTTACTTTTGTATAATAGAAAAGGTTTCAATCATATAACGTAAACGATTAAC
1 AAACCTGTTTTGTCTTACTTTTGCATAATATAAAAAGTTTCAATCATATAACGTAAAAAATTGAC
* * *
3145046 AATTACAAAAGGCGCTACCTGTATTATTATACATAT
66 AATTAAAAAAGGCACTACCTGTATTGTTATACATAT
*
3145082 AAACCTGTTTTGTCTTAATTTTGCATAATATAACAAAGTTTCAATCATATAACGTAAAAAATTGA
1 AAACCTGTTTTGTCTTACTTTTGCATAATATAA-AAAGTTTCAATCATATAACGTAAAAAATTGA
*
3145147 CAATTAAAAAAGGCTCTACCTGTATTGTTATACATAT
65 CAATTAAAAAAGGCACTACCTGTATTGTTATACATAT
* * * * * *
3145184 AAACCAGTTTTGTATTACTTTTGCATAATATAACAAAGTTTCAATCGTATAAAGTAAATAGTTGA
1 AAACCTGTTTTGTCTTACTTTTGCATAATATAA-AAAGTTTCAATCATATAACGTAAAAAATTGA
* *
3145249 CAAATT-AAAAA-GTACTACATGTATTGTTATACATAT
65 C-AATTAAAAAAGGCACTACCTGTATTGTTATACATAT
* * *
3145285 AAACTTGTTTTGTGC-TACTTTTTCATAATATAAAAGGTTTCAATCATA
1 AAACCTGTTTTGT-CTTACTTTTGCATAATATAAAAAGTTTCAATCATA
3145333 CACCATAAAT
Statistics
Matches: 220, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
100 13 0.06
101 78 0.35
102 125 0.57
103 4 0.02
ACGTcount: A:0.39, C:0.13, G:0.10, T:0.38
Consensus pattern (101 bp):
AAACCTGTTTTGTCTTACTTTTGCATAATATAAAAAGTTTCAATCATATAACGTAAAAAATTGAC
AATTAAAAAAGGCACTACCTGTATTGTTATACATAT
Found at i:3151034 original size:21 final size:21
Alignment explanation
Indices: 3151007--3151086 Score: 81
Period size: 21 Copynumber: 3.7 Consensus size: 21
3150997 TTTTCTTAAG
*
3151007 AGTACTTTTTGTACTTGAAGT
1 AGTACTTTGTGTACTTGAAGT
*
3151028 GGTACTTTGTGTACTATGGTAAG-
1 AGTACTTTGTGTACT-T-G-AAGT
* * *
3151051 AGTACTTTATGTGCTTGTAGT
1 AGTACTTTGTGTACTTGAAGT
3151072 AGTACTTTGTGTACT
1 AGTACTTTGTGTACT
3151087 ATGATACTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
20 2 0.04
21 27 0.57
22 2 0.04
23 13 0.28
24 3 0.06
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (21 bp):
AGTACTTTGTGTACTTGAAGT
Found at i:3151077 original size:44 final size:44
Alignment explanation
Indices: 3151003--3151089 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
3150993 TGCATTTTCT
* *
3151003 TAAGAGTACTTTTTGTACTTGAAGTGGTACTTTGTGTACTATGG
1 TAAGAGTACTTTATGTACTTGAAGTAGTACTTTGTGTACTATGG
* *
3151047 TAAGAGTACTTTATGTGCTTGTAGTAGTACTTTGTGTACTATG
1 TAAGAGTACTTTATGTACTTGAAGTAGTACTTTGTGTACTATG
3151090 ATACTTTGTG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.23, C:0.09, G:0.24, T:0.44
Consensus pattern (44 bp):
TAAGAGTACTTTATGTACTTGAAGTAGTACTTTGTGTACTATGG
Found at i:3151757 original size:12 final size:12
Alignment explanation
Indices: 3151740--3151772 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
3151730 TCTGTGACTC
3151740 GTGTACGAGGAT
1 GTGTACGAGGAT
3151752 GTGTACGAGGAT
1 GTGTACGAGGAT
*
3151764 GTATACGAG
1 GTGTACGAG
3151773 AAATGAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.39, T:0.24
Consensus pattern (12 bp):
GTGTACGAGGAT
Found at i:3158812 original size:12 final size:12
Alignment explanation
Indices: 3158785--3158850 Score: 60
Period size: 12 Copynumber: 5.2 Consensus size: 12
3158775 TTTATCTGGG
*
3158785 ATATTTTTATTTA
1 ATATTATTA-TTA
3158798 ATATTATTATTA
1 ATATTATTATTA
*
3158810 ATATTATCATTA
1 ATATTATTATTA
*
3158822 TCATTATTATTATTT
1 --A-TATTATTATTA
*
3158837 ATATTTTTATTA
1 ATATTATTATTA
3158849 AT
1 AT
3158851 TTTACAGGCC
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 25 0.57
13 9 0.20
14 1 0.02
15 9 0.20
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:3163215 original size:137 final size:135
Alignment explanation
Indices: 3162987--3163465 Score: 522
Period size: 137 Copynumber: 3.5 Consensus size: 135
3162977 AAAGTCTGGC
* * *
3162987 TATCTAAGGGTGACACGGGTCCTATGTGATGAGGAGATCTGGTCGGTGGATGACACGGATCCTAC
1 TATCTAAGGTTGACAC-GGTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTAC
* * * * * *** *
3163052 TTGATGAGGATGGA-TGACTATTTTTAGGGATAATGGTAATAACACAATTCCTACGTAATGAGGA
65 GTGATGAGGA-CGACTGGCCATTTTTAGGGATAATGGTGATAACATGGTTCCTACGTGATGAGGA
3163116 CGATTGTT
129 CGATTG-T
* * * *
3163124 TATCTAAGGTTGACACAGGTCCTACATGATGAGGAGATTTGGTCGGTGGATGACACAGTTCATAC
1 TATCTAAGGTTGACAC-GGTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTAC
* * *
3163189 GTGATGAGGACGACTGGCCATCTTTAGGGATAATGGTGATAACATGGTTCCTATGTGACGAGGAT
65 GTGATGAGGACGACTGGCCATTTTTAGGGATAATGGTGATAACATGGTTCCTACGTGATGAGGA-
* *
3163254 GGCTTGT
129 CGATTGT
* ** * * * * * * *
3163261 TATCTATGGTTGATGCGGTTCCTACGTGATGAAGAGATTTGATTGGTGGATGACATGATTCTTAC
1 TATCTAAGGTTGACACGG-TCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTAC
* *
3163326 GCGATGAGGACGGCTGGCCATTTTTAGGGATAATGGTGATAACATGGTTCCTACGTGATGAGGAC
65 GTGATGAGGACGACTGGCCATTTTTAGGGATAATGGTGATAACATGGTTCCTACGTGATGAGGAC
*
3163391 GACTGGT
130 GA-TTGT
* *
3163398 TATCTAAGGTTGACGCGG-----C-TGATGAGGAGATCTGGTTGGTGGATGACACGGTTCCTACG
1 TATCTAAGGTTGACACGGTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACG
3163457 TGATGAGGA
66 TGATGAGGA
3163466 GATCTGGTCA
Statistics
Matches: 288, Mismatches: 50, Indels: 15
0.82 0.14 0.04
Matches are distributed among these distances:
130 42 0.15
131 1 0.00
136 5 0.02
137 236 0.82
138 4 0.01
ACGTcount: A:0.25, C:0.14, G:0.31, T:0.29
Consensus pattern (135 bp):
TATCTAAGGTTGACACGGTCCTACGTGATGAGGAGATCTGGTCGGTGGATGACACGGTTCCTACG
TGATGAGGACGACTGGCCATTTTTAGGGATAATGGTGATAACATGGTTCCTACGTGATGAGGACG
ATTGT
Found at i:3164330 original size:19 final size:19
Alignment explanation
Indices: 3164306--3164363 Score: 116
Period size: 19 Copynumber: 3.1 Consensus size: 19
3164296 TATGAGAATT
3164306 TTTCCCTTAACTGTTAGGC
1 TTTCCCTTAACTGTTAGGC
3164325 TTTCCCTTAACTGTTAGGC
1 TTTCCCTTAACTGTTAGGC
3164344 TTTCCCTTAACTGTTAGGC
1 TTTCCCTTAACTGTTAGGC
3164363 T
1 T
3164364 CCCGGGGGAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 39 1.00
ACGTcount: A:0.16, C:0.26, G:0.16, T:0.43
Consensus pattern (19 bp):
TTTCCCTTAACTGTTAGGC
Found at i:3164513 original size:14 final size:14
Alignment explanation
Indices: 3164494--3164520 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
3164484 ATTTGTTTTT
3164494 TTTCTCTTTTTCTA
1 TTTCTCTTTTTCTA
3164508 TTTCTCTTTTTCT
1 TTTCTCTTTTTCT
3164521 TTCTTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTCTTTTTCTA
Found at i:3164525 original size:24 final size:24
Alignment explanation
Indices: 3164489--3164552 Score: 58
Period size: 24 Copynumber: 2.6 Consensus size: 24
3164479 CCTTTATTTG
* *
3164489 TTTTTTTTCTCTTTTTCTATTT-CTC
1 TTTTTATT-TCTTTTTAT-TTTCCTC
* * *
3164514 TTTTTCTTTCTTTATATTTTCCTT
1 TTTTTATTTCTTTTTATTTTCCTC
3164538 TTTTTATTTCTTTTT
1 TTTTTATTTCTTTTT
3164553 TCTCTTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
23 3 0.09
24 22 0.69
25 7 0.22
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTATTTCTTTTTATTTTCCTC
Found at i:3164559 original size:37 final size:36
Alignment explanation
Indices: 3164492--3164579 Score: 106
Period size: 37 Copynumber: 2.4 Consensus size: 36
3164482 TTATTTGTTT
* *
3164492 TTTTTCTCTTTTTCTATTTCTCTTTTTC-TTTCTTTA
1 TTTTTC-CTTTTTTTATTTCTCTTTTTCTTTTCCTTA
*
3164528 TATTTTCCTTTTTTTATTTCTTTTTTCTCTTTTCCTTA
1 T-TTTTCCTTTTTTTATTTCTCTTTT-TCTTTTCCTTA
*
3164566 TTTTTACTTTTTTT
1 TTTTTCCTTTTTTT
3164580 TCTTCAAGTG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
36 18 0.40
37 19 0.42
38 8 0.18
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (36 bp):
TTTTTCCTTTTTTTATTTCTCTTTTTCTTTTCCTTA
Found at i:3164569 original size:27 final size:28
Alignment explanation
Indices: 3164516--3164582 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
3164506 TATTTCTCTT
*
3164516 TTTCTTTCTTTATATTTTCCTT-TTTTTA
1 TTTCTTT-TTTCTATTTTCCTTATTTTTA
*
3164544 TTTCTTTTTTCTCTTTTCCTTATTTTTA
1 TTTCTTTTTTCTATTTTCCTTATTTTTA
*
3164572 CTT-TTTTTTCT
1 TTTCTTTTTTCT
3164583 TCAAGTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTCTTTTTTCTATTTTCCTTATTTTTA
Found at i:3164577 original size:36 final size:35
Alignment explanation
Indices: 3164499--3164578 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 35
3164489 TTTTTTTTCT
* *
3164499 CTTTTTCTATTTCTCTTTTTCTTTCTTTATATTTTC
1 CTTTTT-TATTTCTCTTTTTCTTTCCTTATATTTTA
*
3164535 CTTTTTTTATTTCTTTTTTCTCTTTTCCTTAT-TTTTA
1 C-TTTTTTATTTCTCTTTT-TC-TTTCCTTATATTTTA
3164572 CTTTTTT
1 CTTTTTT
3164579 TTCTTCAAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
36 18 0.47
37 12 0.32
38 8 0.21
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (35 bp):
CTTTTTTATTTCTCTTTTTCTTTCCTTATATTTTA
Found at i:3171294 original size:42 final size:41
Alignment explanation
Indices: 3171248--3171365 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 41
3171238 CCTATCATGT
* **
3171248 TGCTCGAAAGACTTATAAATGGCCCGAAGGACTTACATGTCA
1 TGCTCGAAAGACTTAT-GATGGCCCGAAGGACTTACAAATCA
* * * *
3171290 TGCTCAAAAGACTTATTGATGGCCTGAAAGACTTGCAAATCA
1 TGCTCGAAAGACTTA-TGATGGCCCGAAGGACTTACAAATCA
* *
3171332 AGCTCGAAAGACTTACTGATGACCCGAAGGACTT
1 TGCTCGAAAGACTTA-TGATGGCCCGAAGGACTT
3171366 CAGCTGATTC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
42 61 0.98
43 1 0.02
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (41 bp):
TGCTCGAAAGACTTATGATGGCCCGAAGGACTTACAAATCA
Found at i:3171727 original size:53 final size:53
Alignment explanation
Indices: 3171639--3172045 Score: 480
Period size: 53 Copynumber: 7.7 Consensus size: 53
3171629 TTCTTAATTG
* * * * *
3171639 TCAAGGAACCCCTAAAAATTAGTCTTAGCTCCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
** * *
3171692 TCAAGAAACATCTGAAAATCAGGCTTAGTTTCTTTCCAATTCATTTGAAAACA
1 TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * * *
3171745 TCGAGAAACCCCTGAAAATCAGGCATAGCTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* *
3171798 TCGAGAAACCCCT-AAAATTAGGCTTAATTTCTTTCAAATTCATTTGAAAACA
1 TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
* * * * *
3171850 TCGAGAAACCCCTGAAAATCAAGCTTAGTTTTTTTTTCAAATTCATTTTAAAACA
1 TCAAGAAACCCCTGAAAATTAGGCTTAG--TTTCTTTCAAATTCATTTGAAAACA
*
3171905 TCAAGAAACCCCTAAAAATTAGGCTTTA-TTTCTTTCAAATTCATTTG-AAACA
1 TCAAGAAACCCCTGAAAATTAGGC-TTAGTTTCTTTCAAATTCATTTGAAAACA
* * * *
3171957 TCAAGAAACCCCTAAAAATTAGGCTTAATTTCTTTGAAAGTTC-TTTTAAAATCA
1 TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTTCAAA-TTCATTTGAAAA-CA
** * *
3172011 TCAAGAAACTTCAGAAAATTAGACTTAGTTTCTTT
1 TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTT
3172046 AAAAACACAT
Statistics
Matches: 308, Mismatches: 38, Indels: 15
0.85 0.11 0.04
Matches are distributed among these distances:
51 3 0.01
52 90 0.29
53 138 0.45
54 31 0.10
55 43 0.14
56 3 0.01
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (53 bp):
TCAAGAAACCCCTGAAAATTAGGCTTAGTTTCTTTCAAATTCATTTGAAAACA
Found at i:3173874 original size:19 final size:20
Alignment explanation
Indices: 3173824--3173875 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
3173814 TTCATCATGA
3173824 TGTCTTCAATCATGTCTTGCT
1 TGTCTTCAATC-TGTCTTGCT
* * *
3173845 TGACTTGAATCTG-CTTGTT
1 TGTCTTCAATCTGTCTTGCT
3173864 TGTCTTCAATCT
1 TGTCTTCAATCT
3173876 TTTTTCTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 15 0.58
20 2 0.08
21 9 0.35
ACGTcount: A:0.15, C:0.21, G:0.15, T:0.48
Consensus pattern (20 bp):
TGTCTTCAATCTGTCTTGCT
Found at i:3173894 original size:23 final size:22
Alignment explanation
Indices: 3173859--3173915 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
3173849 TTGAATCTGC
3173859 TTGTTTGTCTTCAATCTTTTTTCTT
1 TTGTTT-T-TTCAATC-TTTTTCTT
*
3173884 TT-TTCTTTTCATTCTTTTTCTT
1 TTGTT-TTTTCAATCTTTTTCTT
3173906 TTGTTTTTTC
1 TTGTTTTTTC
3173916 TCTCATTCTC
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 15 0.52
23 8 0.28
24 3 0.10
25 3 0.10
ACGTcount: A:0.05, C:0.16, G:0.05, T:0.74
Consensus pattern (22 bp):
TTGTTTTTTCAATCTTTTTCTT
Found at i:3173938 original size:26 final size:27
Alignment explanation
Indices: 3173877--3173940 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
3173867 CTTCAATCTT
* *
3173877 TTTTCTTTTTTCTTTTCATTCTTTTTC
1 TTTTCTTTTTTCTTCTCATTCTTTTGC
* *
3173904 TTTTGTTTTTTC-TCTCATTCTCTTTGG
1 TTTTCTTTTTTCTTCTCATTCT-TTTGC
3173931 TTTT-TTTTTT
1 TTTTCTTTTTT
3173941 GTTTTTTTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.03, C:0.16, G:0.05, T:0.77
Consensus pattern (27 bp):
TTTTCTTTTTTCTTCTCATTCTTTTGC
Found at i:3174201 original size:2 final size:2
Alignment explanation
Indices: 3174194--3174229 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3174184 ACAACAGGGG
3174194 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3174230 TTGAAAGGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3180898 original size:19 final size:19
Alignment explanation
Indices: 3180853--3180922 Score: 72
Period size: 19 Copynumber: 3.8 Consensus size: 19
3180843 TATATTTTAT
* *
3180853 AAATATGATATTTAACATA
1 AAATATAATATTTAATATA
* * *
3180872 TAACATAATATTTATTATA
1 AAATATAATATTTAATATA
*
3180891 AAATATAATA--AAATATA
1 AAATATAATATTTAATATA
3180908 AAATATAATATTTAA
1 AAATATAATATTTAA
3180923 ACAAGGCTCT
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
17 15 0.38
19 24 0.62
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (19 bp):
AAATATAATATTTAATATA
Found at i:3191045 original size:3 final size:3
Alignment explanation
Indices: 3191037--3191075 Score: 51
Period size: 3 Copynumber: 12.7 Consensus size: 3
3191027 TTTATTTGTG
**
3191037 TTA TTA TTA TTA TATA AGA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT
3191076 TATGTATTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
3 29 0.94
4 2 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:3193837 original size:16 final size:16
Alignment explanation
Indices: 3193818--3193853 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
3193808 GAGCCAAAAT
3193818 TAACTCAAACTT-AAAG
1 TAACTCAAA-TTGAAAG
3193834 TAACTCAAATTGAAAG
1 TAACTCAAATTGAAAG
3193850 TAAC
1 TAAC
3193854 CTAAACCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.50, C:0.17, G:0.08, T:0.25
Consensus pattern (16 bp):
TAACTCAAATTGAAAG
Found at i:3195551 original size:17 final size:17
Alignment explanation
Indices: 3195531--3195578 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
3195521 GTTGATCGAT
*
3195531 CCGACCCGTTGACCTAC
1 CCGACCCGTTGACCAAC
*
3195548 CCGACCCGTTGATCAAC
1 CCGACCCGTTGACCAAC
* *
3195565 CCAACCCATTGACC
1 CCGACCCGTTGACC
3195579 GTTGACTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.23, C:0.46, G:0.15, T:0.17
Consensus pattern (17 bp):
CCGACCCGTTGACCAAC
Found at i:3195598 original size:20 final size:20
Alignment explanation
Indices: 3195573--3195612 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3195563 ACCCAACCCA
*
3195573 TTGACCGTTGACTATTGACT
1 TTGACCATTGACTATTGACT
*
3195593 TTGACCATTGACTGTTGACT
1 TTGACCATTGACTATTGACT
3195613 ATAAACTGTA
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:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (20 bp):
TTGACCATTGACTATTGACT
Found at i:3196231 original size:29 final size:29
Alignment explanation
Indices: 3196165--3196220 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
3196155 TCCTGATTAT
*
3196165 GCATGGGATTTATTCCCCGTTCTGACTCA
1 GCATGGGATTGATTCCCCGTTCTGACTCA
3196194 GCATGGGATTGATTCCCCGTTCTGACT
1 GCATGGGATTGATTCCCCGTTCTGACT
3196221 TTTCATGGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.16, C:0.27, G:0.23, T:0.34
Consensus pattern (29 bp):
GCATGGGATTGATTCCCCGTTCTGACTCA
Found at i:3196237 original size:29 final size:28
Alignment explanation
Indices: 3196165--3196245 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
3196155 TCCTGATTAT
*
3196165 GCATGGGATTTATTCCCCGTTCTGACTCA
1 GCATGGGA-TGATTCCCCGTTCTGACTCA
**
3196194 GCATGGGATTGATTCCCCGTTCTGACTTT
1 GCATGGGA-TGATTCCCCGTTCTGACTCA
* *
3196223 TCATGGGATGAATTCCTCGTTCT
1 GCATGGGATG-ATTCCCCGTTCT
3196246 AATTCTGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 2 0.04
29 44 0.96
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.37
Consensus pattern (28 bp):
GCATGGGATGATTCCCCGTTCTGACTCA
Found at i:3202430 original size:17 final size:16
Alignment explanation
Indices: 3202374--3202438 Score: 60
Period size: 17 Copynumber: 3.9 Consensus size: 16
3202364 TACAATTTAT
*
3202374 CTGACCTATTGACTGATA
1 CTGACCCATTGACT-A-A
*
3202392 -TGACCCGTTGACTAA
1 CTGACCCATTGACTAA
*
3202407 CTCGACCCATTGACTAGC
1 CT-GACCCATTGACTA-A
3202425 CTGACCCATTGACT
1 CTGACCCATTGACT
3202439 GACCCGACTC
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
15 1 0.03
16 2 0.05
17 35 0.88
18 2 0.05
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.28
Consensus pattern (16 bp):
CTGACCCATTGACTAA
Found at i:3202451 original size:17 final size:16
Alignment explanation
Indices: 3202393--3202454 Score: 61
Period size: 17 Copynumber: 3.7 Consensus size: 16
3202383 TGACTGATAT
* *
3202393 GACCCGTTGACTAACTC
1 GACCCATTGACT-ACCC
*
3202410 GACCCATTGACTAGCCT
1 GACCCATTGACTA-CCC
3202427 GACCCATTGACTGACCC
1 GACCCATTGACT-ACCC
*
3202444 GACTCATTGAC
1 GACCCATTGAC
3202455 CGTTGACTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 36 0.95
18 1 0.03
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.23
Consensus pattern (16 bp):
GACCCATTGACTACCC
Found at i:3203187 original size:29 final size:29
Alignment explanation
Indices: 3203126--3203188 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
3203116 CTCTACATAG
* *
3203126 GATTAATTCCCTATTCTGATTTTGTATGG
1 GATTAATTCCCCATTCTGATTTTGTATGC
* *
3203155 GATTAATTCCCCATT-TTATTTCTGTTTGC
1 GATTAATTCCCCATTCTGATTT-TGTATGC
3203184 GATTA
1 GATTA
3203189 TATCCACGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 5 0.17
29 24 0.83
ACGTcount: A:0.21, C:0.16, G:0.14, T:0.49
Consensus pattern (29 bp):
GATTAATTCCCCATTCTGATTTTGTATGC
Found at i:3203294 original size:18 final size:18
Alignment explanation
Indices: 3203267--3203303 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3203257 ACTTGGCATT
3203267 CTCTTCAGAGGTAACATC
1 CTCTTCAGAGGTAACATC
*
3203285 CTCTTTAGAGGTAACATC
1 CTCTTCAGAGGTAACATC
3203303 C
1 C
3203304 CTATTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (18 bp):
CTCTTCAGAGGTAACATC
Found at i:3206847 original size:32 final size:29
Alignment explanation
Indices: 3206811--3206874 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 29
3206801 TTTTTATTTT
3206811 AAATATTACATGTCGTAATTAAATATTAATAA
1 AAATA-TACAT-T-GTAATTAAATATTAATAA
* * *
3206843 AAATATATATTGTCATTATATATTAATAA
1 AAATATACATTGTAATTAAATATTAATAA
3206872 AAA
1 AAA
3206875 AATCCACGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 19 0.66
30 1 0.03
31 4 0.14
32 5 0.17
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.39
Consensus pattern (29 bp):
AAATATACATTGTAATTAAATATTAATAA
Found at i:3207845 original size:25 final size:25
Alignment explanation
Indices: 3207811--3207864 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
3207801 CTTTTAAAAC
3207811 ATTTCCATATTTGTAAACCCATACA
1 ATTTCCATATTTGTAAACCCATACA
*
3207836 ATTTCCATATTTGTAAAGCCATACA
1 ATTTCCATATTTGTAAACCCATACA
3207861 ATTT
1 ATTT
3207865 TATTTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (25 bp):
ATTTCCATATTTGTAAACCCATACA
Found at i:3209316 original size:137 final size:137
Alignment explanation
Indices: 3209037--3209316 Score: 368
Period size: 137 Copynumber: 2.0 Consensus size: 137
3209027 CCTAAGTGCT
* *
3209037 GAAATGGAAACTCACAAACTCATTAGGAATTCCATGGATGCACACATAGTGTCGAAAGTACATAT
1 GAAATGGAAACTCACAAACTCATTAGGAATACCATGGATGCACACATAGTGTCGAAAGTACACAT
* * * ** *
3209102 AGTACTGATACGAGAATGCAACATATGCATTAAACAAAATTGATCGATAACTTTTATACACAATT
66 AGTACTGATACAAAAATACAACATATGCATTAAACAAAATTGATCGATAACCATCATACACAATT
3209167 GTAAATC
131 GTAAATC
* * * * *
3209174 AAAATGGTAATTCACAAACTCATTATGAATACCATGGTTGCACATC-TAGTG-CGGAAAGTACAC
1 GAAATGGAAACTCACAAACTCATTAGGAATACCATGGATGCACA-CATAGTGTC-GAAAGTACAC
* *
3209237 ATAGTACTGATACAAAAATACAACATTATGCATTACACAAAATTGATCGATAACCATCATATACA
64 ATAGTACTGATACAAAAATACAACA-TATGCATTAAACAAAATTGATCGATAACCATCATACACA
*
3209302 ATT-TATATC
128 ATTGTAAATC
3209311 GAAATG
1 GAAATG
3209317 CACCTATGAC
Statistics
Matches: 123, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
136 1 0.01
137 84 0.68
138 38 0.31
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (137 bp):
GAAATGGAAACTCACAAACTCATTAGGAATACCATGGATGCACACATAGTGTCGAAAGTACACAT
AGTACTGATACAAAAATACAACATATGCATTAAACAAAATTGATCGATAACCATCATACACAATT
GTAAATC
Found at i:3209510 original size:19 final size:20
Alignment explanation
Indices: 3209476--3209513 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
3209466 TTATTTCCAT
3209476 AAATATTATGAAAACATATC
1 AAATATTATGAAAACATATC
*
3209496 AAATATTGT-AAAACATAT
1 AAATATTATGAAAACATAT
3209514 TTTTAACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.55, C:0.08, G:0.05, T:0.32
Consensus pattern (20 bp):
AAATATTATGAAAACATATC
Found at i:3210966 original size:41 final size:40
Alignment explanation
Indices: 3210920--3211079 Score: 149
Period size: 41 Copynumber: 3.9 Consensus size: 40
3210910 AAAATCGTCG
* * *
3210920 CTAAAGACTCATATTTTAGTGGAGTTTGTGTACAAATACTA
1 CTAAAGACTCATACTTTAGTGGAGTTT-TATACAAACACTA
** * * *
3210961 CTAAAGACTTGTACTTTAGTGGCATTTTTATACAAACGCTG
1 CTAAAGACTCATACTTTAGTGG-AGTTTTATACAAACACTA
* * * *
3211002 CTATATACTCATACTTTAGTGGCGCTTTTATACAAACACAA
1 CTAAAGACTCATACTTTAGTGGAG-TTTTATACAAACACTA
* * *
3211043 CTAAAGACTCGTACTTTAGTGGCGTTTTTATATAAAC
1 CTAAAGACTCATACTTTAGTGGAG-TTTTATACAAAC
3211080 GCTGTAATAA
Statistics
Matches: 95, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
41 91 0.96
42 4 0.04
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (40 bp):
CTAAAGACTCATACTTTAGTGGAGTTTTATACAAACACTA
Found at i:3211036 original size:82 final size:82
Alignment explanation
Indices: 3210926--3211083 Score: 228
Period size: 82 Copynumber: 1.9 Consensus size: 82
3210916 GTCGCTAAAG
* * * * *
3210926 ACTCATATTTTAGTGGAGTTTGTGTACAAATACTACTAAAGACTTGTACTTTAGTGGCATTTTTA
1 ACTCATACTTTAGTGGAGTTTGTATACAAACACAACTAAAGACTCGTACTTTAGTGGCATTTTTA
3210991 TACAAACGCTGCTATAT
66 TACAAACGCTGCTATAT
* *
3211008 ACTCATACTTTAGTGGCGCTTT-TATACAAACACAACTAAAGACTCGTACTTTAGTGGCGTTTTT
1 ACTCATACTTTAGTGGAG-TTTGTATACAAACACAACTAAAGACTCGTACTTTAGTGGCATTTTT
*
3211072 ATATAAACGCTG
65 ATACAAACGCTG
3211084 TAATAAGACA
Statistics
Matches: 67, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
82 64 0.96
83 3 0.04
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (82 bp):
ACTCATACTTTAGTGGAGTTTGTATACAAACACAACTAAAGACTCGTACTTTAGTGGCATTTTTA
TACAAACGCTGCTATAT
Done.