Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 47 of 316
Found at i:13526852 original size:24 final size:24
Alignment explanation
Indices: 13526812--13526862 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
13526802 TATAACTATC
*
13526812 AAAAATACTAAAAATA-TCAAAAT
1 AAAAATACTAAAAATATTAAAAAT
* *
13526835 AAAAATATCTCAACATATTAAAAAT
1 AAAAATA-CTAAAAATATTAAAAAT
13526860 AAA
1 AAA
13526863 TTTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 7 0.30
24 7 0.30
25 9 0.39
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (24 bp):
AAAAATACTAAAAATATTAAAAAT
Found at i:13526952 original size:30 final size:30
Alignment explanation
Indices: 13526916--13526978 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
13526906 ACTTAACAAG
**
13526916 CAAATGT-TTCTAAAATAATAACCAAATTAA
1 CAAATGTGTT-TAAAATAATAAAAAAATTAA
13526946 CAAATGTGTTTAAAATAATAAAAAAATTAA
1 CAAATGTGTTTAAAATAATAAAAAAATTAA
13526976 CAA
1 CAA
13526979 TAAAATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.57, C:0.10, G:0.05, T:0.29
Consensus pattern (30 bp):
CAAATGTGTTTAAAATAATAAAAAAATTAA
Found at i:13528235 original size:19 final size:20
Alignment explanation
Indices: 13528193--13528236 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
13528183 CTAAAATAGA
*
13528193 AAATTATTTTTAAAGTCTTT
1 AAATTATTTTTAAAATCTTT
*
13528213 -AATTCTTTTTAAAAT-TTT
1 AAATTATTTTTAAAATCTTT
13528231 AAATTA
1 AAATTA
13528237 ATAAAAGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
18 3 0.15
19 17 0.85
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.55
Consensus pattern (20 bp):
AAATTATTTTTAAAATCTTT
Found at i:13532135 original size:28 final size:28
Alignment explanation
Indices: 13532095--13532179 Score: 170
Period size: 28 Copynumber: 3.0 Consensus size: 28
13532085 CTTACTTTTC
13532095 AAAGTTGATTTGTAATCCAAAGAGAGAG
1 AAAGTTGATTTGTAATCCAAAGAGAGAG
13532123 AAAGTTGATTTGTAATCCAAAGAGAGAG
1 AAAGTTGATTTGTAATCCAAAGAGAGAG
13532151 AAAGTTGATTTGTAATCCAAAGAGAGAG
1 AAAGTTGATTTGTAATCCAAAGAGAGAG
13532179 A
1 A
13532180 GAAAGAGCTG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 57 1.00
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.25
Consensus pattern (28 bp):
AAAGTTGATTTGTAATCCAAAGAGAGAG
Found at i:13532262 original size:13 final size:13
Alignment explanation
Indices: 13532244--13532306 Score: 58
Period size: 13 Copynumber: 4.8 Consensus size: 13
13532234 TTGGCAATAC
13532244 TTTTGAAAAGTGT
1 TTTTGAAAAGTGT
13532257 TTTTGAAAAGTG-
1 TTTTGAAAAGTGT
* *
13532269 CTGTGAAAAAGTGCT
1 TTTTG-AAAAGTG-T
* *
13532284 TTTT-AGAAGTGC
1 TTTTGAAAAGTGT
13532296 TTTTGAAAAGT
1 TTTTGAAAAGT
13532307 TTGGTTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
12 7 0.18
13 30 0.77
15 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.24, T:0.40
Consensus pattern (13 bp):
TTTTGAAAAGTGT
Found at i:13532304 original size:26 final size:26
Alignment explanation
Indices: 13532243--13532306 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
13532233 TTTGGCAATA
13532243 CTTTTGAAAAGTGTTTTTGAAAAGTG
1 CTTTTGAAAAGTGTTTTTGAAAAGTG
* *
13532269 C-TGTGAAAAAGTGCTTTTT-AGAAGTG
1 CTTTTG-AAAAGTG-TTTTTGAAAAGTG
13532295 CTTTTGAAAAGT
1 CTTTTGAAAAGT
13532307 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
25 3 0.09
26 21 0.66
27 8 0.25
ACGTcount: A:0.31, C:0.06, G:0.23, T:0.39
Consensus pattern (26 bp):
CTTTTGAAAAGTGTTTTTGAAAAGTG
Found at i:13532795 original size:18 final size:18
Alignment explanation
Indices: 13532772--13532822 Score: 102
Period size: 18 Copynumber: 2.8 Consensus size: 18
13532762 AGCTTTTCTT
13532772 CCAGAAGTGCTTTTGGAG
1 CCAGAAGTGCTTTTGGAG
13532790 CCAGAAGTGCTTTTGGAG
1 CCAGAAGTGCTTTTGGAG
13532808 CCAGAAGTGCTTTTG
1 CCAGAAGTGCTTTTG
13532823 AAAAACAATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (18 bp):
CCAGAAGTGCTTTTGGAG
Found at i:13536227 original size:14 final size:14
Alignment explanation
Indices: 13536208--13536235 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13536198 CATTATCTCA
13536208 ATCTACATTATCAT
1 ATCTACATTATCAT
13536222 ATCTACATTATCAT
1 ATCTACATTATCAT
13536236 TGACTTTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (14 bp):
ATCTACATTATCAT
Found at i:13539955 original size:19 final size:18
Alignment explanation
Indices: 13539931--13539971 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
13539921 AAGAACAGCT
13539931 ATTTTGTTAATTAGTTAAC
1 ATTTTGTTAATTAGTT-AC
*
13539950 ATTTTGTTACTTAGTTAC
1 ATTTTGTTAATTAGTTAC
13539968 ATTT
1 ATTT
13539972 AACTAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.56
Consensus pattern (18 bp):
ATTTTGTTAATTAGTTAC
Found at i:13541399 original size:17 final size:17
Alignment explanation
Indices: 13541377--13541412 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13541367 ATATTTCAAG
*
13541377 ATAAATTATTAAAAAAA
1 ATAAATTAATAAAAAAA
*
13541394 ATAAATTAATAAAATAA
1 ATAAATTAATAAAAAAA
13541411 AT
1 AT
13541413 TTCATATTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATAAATTAATAAAAAAA
Found at i:13542436 original size:20 final size:20
Alignment explanation
Indices: 13542399--13542442 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
13542389 ATTTCTCTTA
*
13542399 TGATTCATATATCGAAAAGT
1 TGATTCATATATCGAAAAAT
*
13542419 TGATTCCATATAT-TAAAAAT
1 TGATT-CATATATCGAAAAAT
13542439 TGAT
1 TGAT
13542443 GAATGTATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (20 bp):
TGATTCATATATCGAAAAAT
Found at i:13544449 original size:20 final size:20
Alignment explanation
Indices: 13544407--13544456 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
13544397 AAACATGTCT
* *
13544407 CAAATGTGTTTTAACTTATC
1 CAAATGTGTTTCAACATATC
13544427 CAAATGTGTTTCAAGCATA-C
1 CAAATGTGTTTCAA-CATATC
13544447 C-AATGTGTTT
1 CAAATGTGTTT
13544457 TTAAGTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 9 0.33
20 15 0.56
21 3 0.11
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (20 bp):
CAAATGTGTTTCAACATATC
Found at i:13546341 original size:40 final size:39
Alignment explanation
Indices: 13546297--13546488 Score: 147
Period size: 40 Copynumber: 4.7 Consensus size: 39
13546287 GATCGAGTAC
*
13546297 TAGCGGCGTTTTCTTAAAAACGCCGCTATATGTGCACCTT
1 TAGCGGCGTTTT-TTAAAAACGCCGCTATATGTACACCTT
* * * * *
13546337 TAGCGGCGTTTTTTGAAAAACGCCACAAAAAAATTTAACAGGCTT
1 TAGCGGCGTTTTTT-AAAAACGCCGC---TATATGT-ACA-CCTT
* ** *
13546382 TAGAGGCACTTTTTAAAAACGCCGCTA-AAG-ATCGA-CTAT
1 TAGCGGCGTTTTTTAAAAACGCCGCTATATGTA-C-ACCT-T
13546421 TAGCGGCGCTTTTTTAAAAACGCCGCTATATGTACACCTT
1 TAGCGGCG-TTTTTTAAAAACGCCGCTATATGTACACCTT
* *
13546461 TAGCAGCGCTTTTTAGAAAACGCCGCTA
1 TAGCGGCGTTTTTTA-AAAACGCCGCTA
13546489 ATACTTGATC
Statistics
Matches: 119, Mismatches: 19, Indels: 28
0.72 0.11 0.17
Matches are distributed among these distances:
38 3 0.03
39 16 0.13
40 63 0.53
41 6 0.05
42 1 0.01
43 4 0.03
44 12 0.10
45 14 0.12
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (39 bp):
TAGCGGCGTTTTTTAAAAACGCCGCTATATGTACACCTT
Found at i:13546502 original size:40 final size:37
Alignment explanation
Indices: 13546379--13546526 Score: 120
Period size: 40 Copynumber: 3.8 Consensus size: 37
13546369 ATTTAACAGG
* * * *
13546379 CTTTAGAGGCACTTTTTAAAAACGCCGCTAAAGATCGA
1 CTTTAGCGGCGCTTTTTAAAAACGCCGCT-AATATTGA
*
13546417 CTATTAGCGGCGCTTTTTTAAAAACGCCGCT-ATATGTACA
1 CT-TTAGCGGCGC-TTTTTAAAAACGCCGCTAATAT-T-GA
*
13546457 CCTTTAGCAGCGCTTTTTAGAAAACGCCGCTAATACTTGA
1 -CTTTAGCGGCGCTTTTTA-AAAACGCCGCTAATA-TTGA
*
13546497 TCTTTAGTGGCG-TTTTTCAAAAAACGCCGC
1 -CTTTAGCGGCGCTTTTT--AAAAACGCCGC
13546527 AAAAAATTTT
Statistics
Matches: 90, Mismatches: 10, Indels: 18
0.76 0.08 0.15
Matches are distributed among these distances:
38 5 0.06
39 19 0.21
40 58 0.64
41 7 0.08
42 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (37 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCGCTAATATTGA
Found at i:13546907 original size:22 final size:22
Alignment explanation
Indices: 13546882--13546926 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
13546872 GAGTTACAAT
* *
13546882 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAAGGG
* *
13546904 TTTAGGGATTATGGTTTAAGGG
1 TTTAAGGATTATGGATTAAGGG
13546926 T
1 T
13546927 GGTTTAAGGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (22 bp):
TTTAAGGATTATGGATTAAGGG
Found at i:13546925 original size:15 final size:15
Alignment explanation
Indices: 13546887--13546921 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
13546877 ACAATTTTAA
*
13546887 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
13546902 GGTTTAGGGATTAT-
1 GGTTTAGGGATTATG
13546916 GGTTTA
1 GGTTTA
13546922 AGGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.00, G:0.34, T:0.46
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:13547171 original size:14 final size:13
Alignment explanation
Indices: 13547149--13547193 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
13547139 TTAATTATCA
13547149 TTATAGTTTAGGGT
1 TTATAGTTTA-GGT
*
13547163 TTATGGTTTAGGT
1 TTATAGTTTAGGT
13547176 TATATAGTTTAAGGT
1 T-TATAGTTT-AGGT
13547191 TTA
1 TTA
13547194 AAGTGTATGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 4 0.15
14 18 0.67
15 5 0.19
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (13 bp):
TTATAGTTTAGGT
Found at i:13547554 original size:27 final size:26
Alignment explanation
Indices: 13547524--13547588 Score: 60
Period size: 28 Copynumber: 2.4 Consensus size: 26
13547514 AAATATTAGT
*
13547524 TAAATTTTAAAAGATTATTTATTTAAA
1 TAAATTTTAAAAGACTA-TTATTTAAA
** *
13547551 TAAAAAATTAAAATACTATTATTTAAA
1 T-AAATTTTAAAAGACTATTATTTAAA
13547578 -ATAATTTTAAA
1 TA-AATTTTAAA
13547589 GTTTTTTGAG
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 10 0.33
28 12 0.40
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (26 bp):
TAAATTTTAAAAGACTATTATTTAAA
Found at i:13548014 original size:27 final size:27
Alignment explanation
Indices: 13547953--13548024 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
13547943 AAATCCCAAC
13547953 CCATC-TCTGCATCGCCG--GACCCGA
1 CCATCTTCTGCATCGCCGTCGACCCGA
* **
13547977 CCATCTGCTGCATCGCCGTCGACTTGA
1 CCATCTTCTGCATCGCCGTCGACCCGA
*
13548004 CCATCTTCTGCGTCGCCGTCG
1 CCATCTTCTGCATCGCCGTCG
13548025 CACTGCTCTT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 5 0.12
25 11 0.28
27 24 0.60
ACGTcount: A:0.12, C:0.42, G:0.22, T:0.24
Consensus pattern (27 bp):
CCATCTTCTGCATCGCCGTCGACCCGA
Found at i:13550601 original size:15 final size:16
Alignment explanation
Indices: 13550581--13550611 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13550571 GTTTTTGTCT
13550581 TATATATGAT-TAAAA
1 TATATATGATCTAAAA
13550596 TATATATGATCTAAAA
1 TATATATGATCTAAAA
13550612 GCAAGAGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (16 bp):
TATATATGATCTAAAA
Found at i:13551745 original size:42 final size:42
Alignment explanation
Indices: 13551568--13551803 Score: 215
Period size: 43 Copynumber: 5.5 Consensus size: 42
13551558 ATAATTTTTT
* * * *
13551568 TAAAGGTTATGAT-TTTAGCGGCGTTTGTGGGAAAAGCGTCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGG-AAAGCGCCGC
** * * * * ** * * *
13551610 TACGGGTCATGATTTTTAGCGGCATTTGCAAAAGAAGTGCTGT
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGA-AAGCGCCGC
*
13551653 TAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGG-AAAGCGCCGC
13551696 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGAAAGCGCCGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGAAAGCGCCGC
* * ** *
13551738 CAAAGGTCATGATCTTTAGCGGCGTTT-TCAAAAAAAGCGCTGC
1 TAAAGGTCATGGTCTTTAGCGGCGTTTGT--AGGAAAGCGCCGC
*
13551781 TAAAAGTCATGGTCTTTAGCGGC
1 TAAAGGTCATGGTCTTTAGCGGC
13551804 ACATGCTATA
Statistics
Matches: 156, Mismatches: 33, Indels: 9
0.79 0.17 0.05
Matches are distributed among these distances:
41 1 0.01
42 46 0.29
43 108 0.69
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (42 bp):
TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGAAAGCGCCGC
Found at i:13551796 original size:128 final size:128
Alignment explanation
Indices: 13551568--13551803 Score: 330
Period size: 128 Copynumber: 1.8 Consensus size: 128
13551558 ATAATTTTTT
* * * * ** *
13551568 TAAAGGTTATGATTTTAGCGGCGTTTGTGGGAAAAGCGTCGCTACGGGTCATGATTTTTAGCGGC
1 TAAAGGTCATGATTTTAGCGGCGTTTGTAGGAAAAGCGCCGCCAAAGGTCATGATCTTTAGCGGC
* * * *
13551633 ATTTGCAAAAGAAGTGCTGTTAAAGGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
66 ATTTGCAAAAAAAGCGCTGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
*
13551696 TAAAGGTCATGGTCTTTAGCGGCGTTTGTAGG-AAAGCGCCGCCAAAGGTCATGATCTTTAGCGG
1 TAAAGGTCATGAT-TTTAGCGGCGTTTGTAGGAAAAGCGCCGCCAAAGGTCATGATCTTTAGCGG
* *
13551760 CGTTTTCAAAAAAAGCGCTGCTAAAAGTCATGGTCTTTAGCGGC
65 CATTTGCAAAAAAAGCGCTGCTAAAAGTCATGGTCTTTAGCGGC
13551804 ACATGCTATA
Statistics
Matches: 93, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
128 76 0.82
129 17 0.18
ACGTcount: A:0.25, C:0.17, G:0.30, T:0.28
Consensus pattern (128 bp):
TAAAGGTCATGATTTTAGCGGCGTTTGTAGGAAAAGCGCCGCCAAAGGTCATGATCTTTAGCGGC
ATTTGCAAAAAAAGCGCTGCTAAAAGTCATGGTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:13552685 original size:94 final size:91
Alignment explanation
Indices: 13552416--13552686 Score: 284
Period size: 92 Copynumber: 2.9 Consensus size: 91
13552406 TTAAGGGTGT
* * *
13552416 AAAAA-ACTCTCAAACTTTTTTTAAAAAAGTAATTAAGTCCC-TACT-TTTTTTTTTGCTCTCAA
1 AAAAAGACTCTCAAATTTTTTTTAAAAAAGCAATTAA--CCCTTACTCTTTTTTTTTGCACTCAA
**
13552478 TTGGGTACTTGAACTTTCAAAATGTATA
64 TTGGGTACTTGAACTTTCAAAATACATA
** * * * *
13552506 AAAAATG-CTCTCAAATTTTTTCAAAAAAAAAACAATTAA--TTTCCTGCTTTTGTTTTGCACTC
1 AAAAA-GACTCTCAAATTTTTT--TTAAAAAAGCAATTAACCCTTACT-CTTTTTTTTTGCACTC
*
13552568 AATTGGGTATTTGAACTTTCAAAATACATA
62 AATTGGGTACTTGAACTTTCAAAATACATA
*
13552598 AAAAAGACCCTCAAATTTTTTTTAAAAAAGCAATTAACCCCTTACTCTTATTTTTGTTGCACTCA
1 AAAAAGACTCTCAAATTTTTTTTAAAAAAGCAATTAA-CCCTTACTCTT-TTTTT-TTGCACTCA
* *
13552663 ATTGAGTACTTGAACTTCCAAAAT
63 ATTGGGTACTTGAACTTTCAAAAT
13552687 GCATCAGGAA
Statistics
Matches: 146, Mismatches: 22, Indels: 22
0.77 0.12 0.12
Matches are distributed among these distances:
90 21 0.14
91 14 0.10
92 61 0.42
93 20 0.14
94 30 0.21
ACGTcount: A:0.36, C:0.17, G:0.08, T:0.38
Consensus pattern (91 bp):
AAAAAGACTCTCAAATTTTTTTTAAAAAAGCAATTAACCCTTACTCTTTTTTTTTGCACTCAATT
GGGTACTTGAACTTTCAAAATACATA
Found at i:13552854 original size:9 final size:9
Alignment explanation
Indices: 13552840--13552931 Score: 64
Period size: 9 Copynumber: 10.4 Consensus size: 9
13552830 TAAATTTTTA
13552840 AAAAATAAT
1 AAAAATAAT
13552849 AAAAATAA-
1 AAAAATAAT
** *
13552857 AAATTTATT
1 AAAAATAAT
13552866 AAAAATAA-
1 AAAAATAAT
*
13552874 AAAAATTAT
1 AAAAATAAT
*
13552883 AAAAATCAT
1 AAAAATAAT
*
13552892 AAAAGATTAT
1 AAAA-ATAAT
*
13552902 AAAAAT-GT
1 AAAAATAAT
* *
13552910 AAAATTTAT
1 AAAAATAAT
*
13552919 AAAAATCAT
1 AAAAATAAT
13552928 AAAA
1 AAAA
13552932 TGTAAAATAT
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
8 18 0.28
9 39 0.60
10 8 0.12
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (9 bp):
AAAAATAAT
Found at i:13552860 original size:26 final size:25
Alignment explanation
Indices: 13552831--13552879 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
13552821 ACCAATTATT
13552831 AAATTT-TTAAAAAATAATAAAAATAA
1 AAATTTATT-AAAAATAA-AAAAATAA
13552857 AAATTTATTAAAAATAAAAAAAT
1 AAATTTATTAAAAATAAAAAAAT
13552880 TATAAAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.27
26 14 0.64
27 2 0.09
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (25 bp):
AAATTTATTAAAAATAAAAAAATAA
Found at i:13552930 original size:18 final size:17
Alignment explanation
Indices: 13552847--13552977 Score: 95
Period size: 17 Copynumber: 7.3 Consensus size: 17
13552837 TTAAAAAATA
13552847 ATAAAAATA-AAAATTT
1 ATAAAAATATAAAATTT
* *
13552863 ATTAAAAATAAAAAAATT
1 A-TAAAAATATAAAATTT
*
13552881 ATAAAAATCATAAAAGATT
1 ATAAAAAT-ATAAAA-TTT
*
13552900 ATAAAAATGTAAAATTT
1 ATAAAAATATAAAATTT
*
13552917 ATAAAAATCATAAAATGT
1 ATAAAAAT-ATAAAATTT
* *
13552935 A-AAATATATAGAAATAT
1 ATAAAAATATA-AAATTT
*
13552952 AGAAAATAATTATAAAATTTT
1 A-TAAA-AA-TATAAAA-TTT
13552973 ATAAA
1 ATAAA
13552978 TCGTAAAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
16 4 0.04
17 36 0.39
18 25 0.27
19 14 0.15
20 7 0.08
21 7 0.08
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (17 bp):
ATAAAAATATAAAATTT
Found at i:13552996 original size:18 final size:18
Alignment explanation
Indices: 13552975--13553014 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
13552965 AAAATTTTAT
13552975 AAATCGTAAA-AAATATAA
1 AAAT-GTAAAGAAATATAA
13552993 AAATGTAAAGAAATATAA
1 AAATGTAAAGAAATATAA
13553011 AAAT
1 AAAT
13553015 TATCGTAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (18 bp):
AAATGTAAAGAAATATAA
Found at i:13553236 original size:28 final size:29
Alignment explanation
Indices: 13553195--13553266 Score: 87
Period size: 28 Copynumber: 2.5 Consensus size: 29
13553185 TTTTTGATGC
*
13553195 ATTTTT-TAATTTTAATAAAATTT-TAAT
1 ATTTTTATATTTTTAATAAAATTTATAAT
*
13553222 ATTTTTATATTTTTATTAAAATTTATAAT
1 ATTTTTATATTTTTAATAAAATTTATAAT
13553251 -TTTTTATTATCTTTTA
1 ATTTTTA-TAT-TTTTA
13553267 TTGGTTTTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
27 6 0.15
28 21 0.54
29 7 0.18
30 5 0.13
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTTATATTTTTAATAAAATTTATAAT
Found at i:13553580 original size:17 final size:18
Alignment explanation
Indices: 13553558--13553591 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13553548 ATATTTATAT
13553558 CCAAACAC-AATATTATC
1 CCAAACACAAATATTATC
13553575 CCAAACACAAATATTAT
1 CCAAACACAAATATTAT
13553592 ACACATTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (18 bp):
CCAAACACAAATATTATC
Found at i:13556006 original size:32 final size:34
Alignment explanation
Indices: 13555965--13556032 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
13555955 GGTGCCTAAG
13555965 AGTTGTTATTGA-TTTT-TCTTTCTTTTCAAAGA
1 AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
13555997 AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
1 AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
13556031 AG
1 AG
13556033 AAATTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 12 0.35
33 4 0.12
34 18 0.53
ACGTcount: A:0.22, C:0.10, G:0.13, T:0.54
Consensus pattern (34 bp):
AGTTGTTATTGATTTTTCTCTTTCTTTTCAAAGA
Found at i:13563353 original size:18 final size:19
Alignment explanation
Indices: 13563311--13563355 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
13563301 TTAACACTGC
* *
13563311 TAATTTTCTTAACATTATT
1 TAATTTTTTTAACATTAAT
*
13563330 TCATTTTTTTAA-ATTAAT
1 TAATTTTTTTAACATTAAT
13563348 TAATTTTT
1 TAATTTTT
13563356 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.62
Consensus pattern (19 bp):
TAATTTTTTTAACATTAAT
Found at i:13563880 original size:43 final size:43
Alignment explanation
Indices: 13563832--13563921 Score: 126
Period size: 43 Copynumber: 2.1 Consensus size: 43
13563822 AAAACGCTTT
* * * *
13563832 TAAAGATCATGACCTTTAGCGGCGCTTTTCCCACAAATGCCGC
1 TAAAGATCATGACCTTTAGCGACCCTTTTCCCAAAAACGCCGC
* *
13563875 TAAAGATCATTACCTTTAGCGACCCTTTTTCCAAAAACGCCGC
1 TAAAGATCATGACCTTTAGCGACCCTTTTCCCAAAAACGCCGC
13563918 TAAA
1 TAAA
13563922 AGTCATAAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.30, C:0.29, G:0.14, T:0.27
Consensus pattern (43 bp):
TAAAGATCATGACCTTTAGCGACCCTTTTCCCAAAAACGCCGC
Found at i:13564397 original size:64 final size:64
Alignment explanation
Indices: 13564322--13564448 Score: 254
Period size: 64 Copynumber: 2.0 Consensus size: 64
13564312 TGTAAAATAT
13564322 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAGA
1 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAGA
13564386 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAG
1 AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAG
13564449 TCAAAATTGC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.40, C:0.13, G:0.11, T:0.36
Consensus pattern (64 bp):
AAGATTTGAATATCCATTCCCATGTGAAATATCAACATTGATTATTTAAATTGATTAACTAAGA
Found at i:13565328 original size:15 final size:15
Alignment explanation
Indices: 13565300--13565333 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
13565290 CTCAGATGAA
*
13565300 CAAAAATGGTACATC
1 CAAAAATGGAACATC
*
13565315 CAAAATTGGAACATC
1 CAAAAATGGAACATC
13565330 CAAA
1 CAAA
13565334 CATCAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.12, T:0.18
Consensus pattern (15 bp):
CAAAAATGGAACATC
Found at i:13570769 original size:7 final size:7
Alignment explanation
Indices: 13570757--13570876 Score: 59
Period size: 7 Copynumber: 17.0 Consensus size: 7
13570747 CTAATTAATA
13570757 TAAACCC
1 TAAACCC
13570764 TAAACCTC
1 TAAACC-C
*
13570772 TAACCCC
1 TAAACCC
*
13570779 T-ACCCC
1 TAAACCC
* *
13570785 TAAATCT
1 TAAACCC
*
13570792 TAAATCC
1 TAAACCC
*
13570799 TAAACAC
1 TAAACCC
13570806 TAAA-CC
1 TAAACCC
13570812 TATAACCC
1 TA-AACCC
* *
13570820 -CATCCC
1 TAAACCC
*
13570826 TTAACCC
1 TAAACCC
*
13570833 TTAAACAC
1 -TAAACCC
13570841 TAAACCC
1 TAAACCC
*
13570848 TTAACACC
1 TAAAC-CC
*
13570856 TAACCCC
1 TAAACCC
13570863 T-AACCC
1 TAAACCC
13570869 TTAAACCC
1 -TAAACCC
13570877 CAACACATAA
Statistics
Matches: 85, Mismatches: 19, Indels: 17
0.70 0.16 0.14
Matches are distributed among these distances:
6 17 0.20
7 45 0.53
8 23 0.27
ACGTcount: A:0.38, C:0.41, G:0.00, T:0.22
Consensus pattern (7 bp):
TAAACCC
Found at i:13570836 original size:42 final size:42
Alignment explanation
Indices: 13570757--13570875 Score: 102
Period size: 42 Copynumber: 2.8 Consensus size: 42
13570747 CTAATTAATA
* * *
13570757 TAAACCCTAAACCTCTAACCCCTACCCCTAAATCTTAAATC-C
1 TAAACACTAAACCTATAACCCCTACCCCTAAACCTTAAA-CAC
* *
13570799 TAAACACTAAACCTATAACCCC-ATCCCTTAACCCTTAAACAC
1 TAAACACTAAACCTATAACCCCTA-CCCCTAAACCTTAAACAC
* *
13570841 TAAACCCTTAACACC--TAACCCCTAACCCTTAAACC
1 TAAACAC-TAA-ACCTATAACCCCT-ACCCCTAAACC
13570876 CCAACACATA
Statistics
Matches: 64, Mismatches: 7, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.03
42 46 0.72
43 12 0.19
44 4 0.06
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (42 bp):
TAAACACTAAACCTATAACCCCTACCCCTAAACCTTAAACAC
Found at i:13570858 original size:15 final size:15
Alignment explanation
Indices: 13570828--13570876 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
13570818 CCCATCCCTT
13570828 AACCCTTAA-ACACTA
1 AACCCTTAACAC-CTA
13570843 AACCCTTAACACCT-
1 AACCCTTAACACCTA
*
13570857 AACCCCTAAC-CCTTA
1 AACCCTTAACACC-TA
13570872 AACCC
1 AACCC
13570877 CAACACATAA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 2 0.07
14 10 0.33
15 16 0.53
16 2 0.07
ACGTcount: A:0.39, C:0.43, G:0.00, T:0.18
Consensus pattern (15 bp):
AACCCTTAACACCTA
Found at i:13570865 original size:22 final size:22
Alignment explanation
Indices: 13570823--13571000 Score: 62
Period size: 22 Copynumber: 8.2 Consensus size: 22
13570813 ATAACCCCAT
* *
13570823 CCCTTAAC-CCTTAAACACTAAA
1 CCCTTAACACC-TAACCCCTAAA
13570845 CCCTTAACACCTAACCCCT-AA
1 CCCTTAACACCTAACCCCTAAA
* * * *
13570866 CCCTTAA-ACCCCAACACATAAT
1 CCCTTAACA-CCTAACCCCTAAA
* *
13570888 CCC-TAA-ACCATAATCCATAAA
1 CCCTTAACACC-TAACCCCTAAA
* ** * *
13570909 -CCTTAAAATATTAACTCATAAA
1 CCCTTAACA-CCTAACCCCTAAA
* * * * **
13570931 CCATAAACCCCTAACCCTTCTA
1 CCCTTAACACCTAACCCCTAAA
* **
13570953 CCCTTAACGCCTAACCCCTATC
1 CCCTTAACACCTAACCCCTAAA
* *
13570975 CCCTTAACACTTAACCCCTAAT
1 CCCTTAACACCTAACCCCTAAA
13570997 CCCT
1 CCCT
13571001 AACCATTAAC
Statistics
Matches: 114, Mismatches: 34, Indels: 16
0.70 0.21 0.10
Matches are distributed among these distances:
20 5 0.04
21 30 0.26
22 73 0.64
23 6 0.05
ACGTcount: A:0.37, C:0.40, G:0.01, T:0.23
Consensus pattern (22 bp):
CCCTTAACACCTAACCCCTAAA
Found at i:13570946 original size:7 final size:7
Alignment explanation
Indices: 13570936--13571018 Score: 53
Period size: 7 Copynumber: 11.7 Consensus size: 7
13570926 ATAAACCATA
13570936 AACCCCT
1 AACCCCT
13570943 AACCCTTCT
1 AACCC--CT
*
13570952 -ACCCTT
1 AACCCCT
*
13570958 AACGCCT
1 AACCCCT
13570965 AACCCCT
1 AACCCCT
*
13570972 ATCCCCTT
1 AACCCC-T
* *
13570980 AACACTT
1 AACCCCT
13570987 AACCCCT
1 AACCCCT
*
13570994 AATCCCT
1 AACCCCT
**
13571001 AACCATT
1 AACCCCT
13571008 AACCCC-
1 AACCCCT
13571014 AACCC
1 AACCC
13571019 TTAAACCACC
Statistics
Matches: 56, Mismatches: 16, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
6 6 0.11
7 40 0.71
8 8 0.14
9 2 0.04
ACGTcount: A:0.29, C:0.48, G:0.01, T:0.22
Consensus pattern (7 bp):
AACCCCT
Found at i:13571013 original size:21 final size:22
Alignment explanation
Indices: 13570953--13570999 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
13570943 AACCCTTCTA
* *
13570953 CCCTTAACGCCTAACCCCTATC
1 CCCTTAACACTTAACCCCTATC
13570975 CCCTTAACACTTAACCCCTAATC
1 CCCTTAACACTTAACCCCT-ATC
13570998 CC
1 CC
13571000 TAACCATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.26, C:0.49, G:0.02, T:0.23
Consensus pattern (22 bp):
CCCTTAACACTTAACCCCTATC
Found at i:13571026 original size:21 final size:21
Alignment explanation
Indices: 13570964--13571013 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 21
13570954 CCTTAACGCC
13570964 TAACCCCT-ATCCCCTTAA-CACT
1 TAACCCCTAAT-CCC-TAACCA-T
13570986 TAACCCCTAATCCCTAACCAT
1 TAACCCCTAATCCCTAACCAT
13571007 TAACCCC
1 TAACCCC
13571014 AACCCTTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 11 0.42
22 13 0.50
23 2 0.08
ACGTcount: A:0.30, C:0.46, G:0.00, T:0.24
Consensus pattern (21 bp):
TAACCCCTAATCCCTAACCAT
Found at i:13571547 original size:130 final size:132
Alignment explanation
Indices: 13571280--13571548 Score: 371
Period size: 130 Copynumber: 2.0 Consensus size: 132
13571270 ATTTTTTTGT
* ** * *
13571280 GGCGTTTTTTAAAAAATGCAGCTAAAGATTGAGCATTAGCGGCATTTCTTAAAAAAGCGTCGCTA
1 GGCG-TTTTTAAAAAACGCAGCTAAAGATCAAGCATTAGCGGCATTTCTCAAAAAAGCGCCGCTA
* * *
13571345 ATACTCGATCTTTAGCGGCGCTTTTTAAAAATGCCGCTAAAGCCACTAAAAGCTCAATACAAAAC
65 ATACTCGATCTTTAACGGCGCTTTTTAAAAACGCCGCTAAAGCCACTAAAAGCACAATACAAAAC
*
13571410 GAT
130 GAC
* * *
13571413 GGCGTTTTTAAAAAACGCCGCTAAAGATCAAGCATTAGCGGCGTTT-TCCAAAAAGCGCCGCTAA
1 GGCGTTTTTAAAAAACGCAGCTAAAGATCAAGCATTAGCGGCATTTCTCAAAAAAGCGCCGCTAA
* * * *
13571477 TACTCGATCTTTAATGGCG-TTTTTAAAAGCGCCGGTAAAGCCACTAAAGGCACAATACAAAACG
66 TACTCGATCTTTAACGGCGCTTTTTAAAAACGCCGCTAAAGCCACTAAAAGCACAATACAAAACG
13571541 AC
131 AC
13571543 GGCGTT
1 GGCGTT
13571549 GTGTTAATTT
Statistics
Matches: 120, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
130 47 0.39
131 32 0.27
132 37 0.31
133 4 0.03
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (132 bp):
GGCGTTTTTAAAAAACGCAGCTAAAGATCAAGCATTAGCGGCATTTCTCAAAAAAGCGCCGCTAA
TACTCGATCTTTAACGGCGCTTTTTAAAAACGCCGCTAAAGCCACTAAAAGCACAATACAAAACG
AC
Found at i:13572000 original size:21 final size:20
Alignment explanation
Indices: 13571972--13572019 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
13571962 TAATCACCCC
*
13571972 AATTTTATTTTATTTATTTT
1 AATTTTATATTATTTATTTT
13571992 AATTGTTATATTATTTATTTT
1 AATT-TTATATTATTTATTTT
*
13572013 TATTTTA
1 AATTTTA
13572020 CTAATTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (20 bp):
AATTTTATATTATTTATTTT
Found at i:13572104 original size:19 final size:17
Alignment explanation
Indices: 13572052--13572107 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
13572042 ATTCTTATAC
13572052 TTATAT-TTTTAATTTT
1 TTATATATTTTAATTTT
13572068 TTATATATTTTAATTTT
1 TTATATATTTTAATTTT
*
13572085 TTATATACTTTTATTATTT
1 TTATATA-TTTTAAT-TTT
13572104 TTAT
1 TTAT
13572108 TTTGCTATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
16 6 0.17
17 17 0.47
18 6 0.17
19 7 0.19
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATATTTTAATTTT
Found at i:13572132 original size:22 final size:22
Alignment explanation
Indices: 13572096--13572150 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
13572086 TATATACTTT
13572096 TATTATTTTTATTTTGCTATTTC-
1 TATT-TTTTTATTTT-CTATTTCG
* * *
13572119 TATTTTTTTCTTTTTTCTTTCG
1 TATTTTTTTATTTTCTATTTCG
13572141 TATTTTTTTA
1 TATTTTTTTA
13572151 CTATTATCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 18 0.67
23 4 0.15
ACGTcount: A:0.13, C:0.09, G:0.04, T:0.75
Consensus pattern (22 bp):
TATTTTTTTATTTTCTATTTCG
Found at i:13578440 original size:43 final size:43
Alignment explanation
Indices: 13578383--13578537 Score: 222
Period size: 43 Copynumber: 3.6 Consensus size: 43
13578373 CCGGCATTAC
*
13578383 GCCTGCTAGCCACGAAGGCCCGAATACACATCACTGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCATGAA
13578426 GCCTGCTAGGCACGAAGGCCCGAATACACATCA-TCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACT-GGCATGAA
* * * ** *
13578469 TCCTGCTAGGCACGAAGGCTCGAATACACATCACCGATACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCATGAA
*
13578512 GCCTGCTAGGCACGAATGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
13578538 TAATACCAGC
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 99 0.99
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.15
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACTGGCATGAA
Found at i:13578587 original size:38 final size:38
Alignment explanation
Indices: 13578530--13578637 Score: 128
Period size: 38 Copynumber: 2.8 Consensus size: 38
13578520 GGCACGAATG
* * *
13578530 CCCGAATATAATACCAGCACTAGGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* * *
13578568 CTCGGATATATTACTAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
13578606 CCCGGATATAATTCCAGCA-TATAGCCTGCGGG
1 CCCGGATATAATACCAGCACGA-AGCCTGCGGG
13578638 TAGGCCCGGA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.02
38 57 0.98
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:13586493 original size:19 final size:17
Alignment explanation
Indices: 13586469--13586504 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 17
13586459 TAAGGCTCAT
13586469 TTTCCTTTTTCCGTTCTTC
1 TTTCC-TTTTCC-TTCTTC
13586488 TTTCCTTTTCCTTCTTC
1 TTTCCTTTTCCTTCTTC
13586505 CGTTCTTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.00, C:0.33, G:0.03, T:0.64
Consensus pattern (17 bp):
TTTCCTTTTCCTTCTTC
Found at i:13593470 original size:16 final size:16
Alignment explanation
Indices: 13593449--13593493 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
13593439 CAACAAAAGT
13593449 CGAAAAGTCAAAATGC
1 CGAAAAGTCAAAATGC
*
13593465 CGAAAAGTCGAAATGC
1 CGAAAAGTCAAAATGC
*
13593481 CGAAAAGCCAAAA
1 CGAAAAGTCAAAA
13593494 GTTTGGCTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.51, C:0.20, G:0.20, T:0.09
Consensus pattern (16 bp):
CGAAAAGTCAAAATGC
Found at i:13593786 original size:29 final size:29
Alignment explanation
Indices: 13593710--13593827 Score: 148
Period size: 29 Copynumber: 4.1 Consensus size: 29
13593700 CATGAATGTT
* * *
13593710 ATGTGATTTGGGCCGGTTGGGACATATAA
1 ATGTGAATTGGGCCGGATGGGCCATATAA
* ** *
13593739 ATGAG-ATTGGGCCTAATGGGCCATATGA
1 ATGTGAATTGGGCCGGATGGGCCATATAA
* *
13593767 ATGTGAATTGGGCCTGATGGGCCATATGA
1 ATGTGAATTGGGCCGGATGGGCCATATAA
13593796 ATGTGAATTGGGCCGGATGGGCCATATAA
1 ATGTGAATTGGGCCGGATGGGCCATATAA
13593825 ATG
1 ATG
13593828 AGATGGGTCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 21 0.27
29 56 0.73
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.27
Consensus pattern (29 bp):
ATGTGAATTGGGCCGGATGGGCCATATAA
Found at i:13593821 original size:58 final size:57
Alignment explanation
Indices: 13593710--13593827 Score: 146
Period size: 57 Copynumber: 2.1 Consensus size: 57
13593700 CATGAATGTT
* * * *
13593710 ATGTGATTTGGGCCGGTTGGGACATATAAATGAGATTGGGCCTAATGGGCCATATGA
1 ATGTGAATTGGGCCGGATGGGACATATAAATGAGATTGGGCCGAATGGGCCATATAA
* * * * *
13593767 ATGTGAATTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCGGATGGGCCATATAA
1 ATGTGAATTGGGCCGGATGGGACATATAAATGAG-ATTGGGCCGAATGGGCCATATAA
13593825 ATG
1 ATG
13593828 AGATGGGTCA
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
57 28 0.55
58 23 0.45
ACGTcount: A:0.26, C:0.13, G:0.34, T:0.27
Consensus pattern (57 bp):
ATGTGAATTGGGCCGGATGGGACATATAAATGAGATTGGGCCGAATGGGCCATATAA
Found at i:13596914 original size:13 final size:14
Alignment explanation
Indices: 13596877--13596914 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
13596867 CCAGAAAAGT
*
13596877 AAATCGTTTTTCAG
1 AAATCATTTTTCAG
13596891 AAATCATTTTTCAG
1 AAATCATTTTTCAG
13596905 AAATCATTTT
1 AAATCATTTT
13596915 ACTGGCAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.34, C:0.13, G:0.08, T:0.45
Consensus pattern (14 bp):
AAATCATTTTTCAG
Found at i:13601747 original size:37 final size:38
Alignment explanation
Indices: 13601671--13601748 Score: 88
Period size: 37 Copynumber: 2.1 Consensus size: 38
13601661 TAAATTAATA
* * * *
13601671 AATTAATAACTTGTTTTTCAATTATTATCATTCTATAT
1 AATTAATAAATTGTTATTCAAATATTAACATTCTATAT
*
13601709 AATTAATAAATTG-TATTCAAATA-TAACATTTTATTAT
1 AATTAATAAATTGTTATTCAAATATTAACATTCTA-TAT
13601746 AAT
1 AAT
13601749 GTGTAAATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 8 0.24
37 14 0.41
38 12 0.35
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (38 bp):
AATTAATAAATTGTTATTCAAATATTAACATTCTATAT
Found at i:13605566 original size:42 final size:42
Alignment explanation
Indices: 13605483--13605567 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
13605473 GCTAATTATG
* ***
13605483 TGCACTTAGTATGCAAAATCGAGATAGCTTCGGTTACATATT
1 TGCACTTAGTATACAAAATCGAGATAGCTTCAACTACATATT
* * * *
13605525 TGCACTTAGTGTACAAGATTGAGATAGCTTCAACTATATATT
1 TGCACTTAGTATACAAAATCGAGATAGCTTCAACTACATATT
13605567 T
1 T
13605568 CTTGGCACTT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.18, T:0.35
Consensus pattern (42 bp):
TGCACTTAGTATACAAAATCGAGATAGCTTCAACTACATATT
Found at i:13605600 original size:46 final size:46
Alignment explanation
Indices: 13605526--13605613 Score: 113
Period size: 46 Copynumber: 1.9 Consensus size: 46
13605516 TTACATATTT
* *
13605526 GCACTTAGTGTACAAGATTGAGATAGCTTCAACTATATATTTCTTG
1 GCACTTAGTGTACAAGATTAAGACAGCTTCAACTATATATTTCTTG
* * * * *
13605572 GCACTTAGTGTGCGAGATTAATACAGCTTCGACTATTTATTT
1 GCACTTAGTGTACAAGATTAAGACAGCTTCAACTATATATTT
13605614 GGCACTAAGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
46 35 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (46 bp):
GCACTTAGTGTACAAGATTAAGACAGCTTCAACTATATATTTCTTG
Found at i:13615357 original size:44 final size:44
Alignment explanation
Indices: 13615294--13615381 Score: 158
Period size: 44 Copynumber: 2.0 Consensus size: 44
13615284 GGGGTTAGAA
*
13615294 TTGTAAATCTGCATCTAGTTCTGTTTCTATATATGATATATGTT
1 TTGTAAATCTGCATCTAGTTCTGTTTATATATATGATATATGTT
*
13615338 TTGTAAATTTGCATCTAGTTCTGTTTATATATATGATATATGTT
1 TTGTAAATCTGCATCTAGTTCTGTTTATATATATGATATATGTT
13615382 CTGTGCCTGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.26, C:0.09, G:0.14, T:0.51
Consensus pattern (44 bp):
TTGTAAATCTGCATCTAGTTCTGTTTATATATATGATATATGTT
Found at i:13615383 original size:24 final size:24
Alignment explanation
Indices: 13615311--13615385 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 24
13615301 TCTGCATCTA
*
13615311 GTTCTGTTTCTATATATGATATAT
1 GTTCTGTTTATATATATGATATAT
* * *
13615335 GTT-T-TGTA-A-ATTTGCATCTA-
1 GTTCTGTTTATATATATG-ATATAT
13615355 GTTCTGTTTATATATATGATATAT
1 GTTCTGTTTATATATATGATATAT
13615379 GTTCTGT
1 GTTCTGT
13615386 GCCTGTTCTG
Statistics
Matches: 38, Mismatches: 7, Indels: 12
0.67 0.12 0.21
Matches are distributed among these distances:
20 7 0.18
21 6 0.16
22 5 0.13
23 6 0.16
24 14 0.37
ACGTcount: A:0.24, C:0.08, G:0.15, T:0.53
Consensus pattern (24 bp):
GTTCTGTTTATATATATGATATAT
Found at i:13618611 original size:10 final size:10
Alignment explanation
Indices: 13618596--13618622 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
13618586 CTTTAATAAG
13618596 TTGAATTTGT
1 TTGAATTTGT
13618606 TTGAATTTGT
1 TTGAATTTGT
13618616 TTGAATT
1 TTGAATT
13618623 AGCTCAAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.22, C:0.00, G:0.19, T:0.59
Consensus pattern (10 bp):
TTGAATTTGT
Found at i:13625692 original size:40 final size:40
Alignment explanation
Indices: 13625533--13625677 Score: 222
Period size: 40 Copynumber: 3.6 Consensus size: 40
13625523 CGGATGATAA
* *
13625533 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
13625573 CCGGGCTAAG-CTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTC-CCGAAGGCATTTGTGCGAGTTACTATAT
*
13625613 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
13625653 CCGGGCTAAGTCCCGAAGGTATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
13625678 AGCAAGTAGT
Statistics
Matches: 98, Mismatches: 4, Indels: 6
0.91 0.04 0.06
Matches are distributed among these distances:
39 1 0.01
40 95 0.97
41 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:13625692 original size:80 final size:80
Alignment explanation
Indices: 13625533--13625709 Score: 220
Period size: 80 Copynumber: 2.2 Consensus size: 80
13625523 CGGATGATAA
13625533 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCATTTG
* *
13625598 TGCGAGTTACTATAT
66 AGCAAGTTACTATAT
* *
13625613 CCGGGCTAAGTCCCGAAGGCATTTGTG-TGAGTTACT-ATATCCGGGCTAAG-TCCCGAAGGTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTGACTAAT-TCCGGGCTAAGCT-CCGAAGGCAT
*
13625675 TTGAGCAAG-TAGTTATAT
63 TTGAGCAAGTTA-CTATAT
* *
13625693 TC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAG
13625710 ATGCTTGAGT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
79 20 0.23
80 66 0.77
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGCTCCGAAGGCATTTG
AGCAAGTTACTATAT
Found at i:13625977 original size:22 final size:21
Alignment explanation
Indices: 13625936--13625978 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
13625926 GAATGTGCAT
13625936 ATATGAAGTTATCCATTTAGCA
1 ATATGAAGTTATCCA-TTAGCA
13625958 ATATGAATGTTATACC-TTAGC
1 ATATGAA-GTTAT-CCATTAGC
13625979 CGAAACTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.63
23 5 0.26
24 2 0.11
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (21 bp):
ATATGAAGTTATCCATTAGCA
Found at i:13638251 original size:6 final size:6
Alignment explanation
Indices: 13638240--13638270 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
13638230 TCATCTTTTA
*
13638240 TTTATT TTTATT TTTATT TTTATC TTTATT T
1 TTTATT TTTATT TTTATT TTTATT TTTATT T
13638271 ATCTCTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:13638299 original size:29 final size:26
Alignment explanation
Indices: 13638256--13638315 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
13638246 TTTATTTTTA
*
13638256 TTTTTATCTTTATTTATCTCTTTAACTTAC
1 TTTTTATCTCTA-TT-TCTCTTTAA--TAC
13638286 TTTTTATC-CTATTTCTCTTTAATAC
1 TTTTTATCTCTATTTCTCTTTAATAC
13638311 TTTTT
1 TTTTT
13638316 TTCTTCATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
25 8 0.28
27 9 0.31
28 2 0.07
29 2 0.07
30 8 0.28
ACGTcount: A:0.18, C:0.17, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTTTATCTCTATTTCTCTTTAATAC
Found at i:13639104 original size:42 final size:44
Alignment explanation
Indices: 13638995--13639116 Score: 117
Period size: 43 Copynumber: 2.8 Consensus size: 44
13638985 AAACAAGTAC
* ** *
13638995 AATGCCGACGTCCCAGATGTGGTCTTACATGTAATTCAATATCG
1 AATGCCGATGTCCCAGAAATGGTCTTACATGTAAATCAATATCG
** *
13639039 AAT-CCTCTGTCCCAGAAAAGGTCTTACATG-AAATCAGATA-CG
1 AATGCCGATGTCCCAGAAATGGTCTTACATGTAAATCA-ATATCG
* * *
13639081 -ATGCCGATGTCCCAGACATGGTCTTATACGTAAATC
1 AATGCCGATGTCCCAGAAATGGTCTTACATGTAAATC
13639117 TCAATCAAGG
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
41 2 0.03
42 28 0.45
43 29 0.47
44 3 0.05
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
AATGCCGATGTCCCAGAAATGGTCTTACATGTAAATCAATATCG
Found at i:13646530 original size:41 final size:41
Alignment explanation
Indices: 13646453--13646670 Score: 305
Period size: 41 Copynumber: 5.3 Consensus size: 41
13646443 AAAGCAATAG
* * *
13646453 AAACGCCGCTAAAAA-TAGAGCAATAGCGGC-TTTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-GGTA
*
13646493 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTCGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
* *
13646534 AAACGCCGCTAAAAACCAGAGCATTAGCTGCCCTTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
* * *
13646575 AAACGCCGCTAAATACCAGAGCATTGGCGGTGCTTTTGGTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
* * *
13646616 AAACGCCGCTAAAAACCAGAGCATTAGCGGTGTTTTTGCTA
1 AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
13646657 AAACGCCGCTAAAA
1 AAACGCCGCTAAAA
13646671 GTCATATAAC
Statistics
Matches: 160, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
40 15 0.09
41 142 0.89
42 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (41 bp):
AAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGGTA
Found at i:13646953 original size:7 final size:7
Alignment explanation
Indices: 13646941--13647047 Score: 56
Period size: 7 Copynumber: 15.0 Consensus size: 7
13646931 TAGAGATTAT
13646941 GGTTTAG
1 GGTTTAG
13646948 GGTTTAG
1 GGTTTAG
*
13646955 GGTTGA-
1 GGTTTAG
* *
13646961 AGTTTAA
1 GGTTTAG
*
13646968 GGTGTAAG
1 GGT-TTAG
*
13646976 GGTTTGG
1 GGTTTAG
*
13646983 GGTTAAG
1 GGTTTAG
13646990 GGTTTAG
1 GGTTTAG
* *
13646997 TGTTTAA
1 GGTTTAG
*
13647004 TGTTTAG
1 GGTTTAG
*
13647011 TGTTTATG
1 GGTTTA-G
*
13647019 GG-ATAGG
1 GGTTTA-G
*
13647026 GGTTAAG
1 GGTTTAG
13647033 AGGTTTAG
1 -GGTTTAG
13647041 GGTTTAG
1 GGTTTAG
13647048 ATTAATTAGT
Statistics
Matches: 75, Mismatches: 20, Indels: 10
0.71 0.19 0.10
Matches are distributed among these distances:
6 4 0.05
7 57 0.76
8 14 0.19
ACGTcount: A:0.21, C:0.00, G:0.39, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:13650419 original size:30 final size:29
Alignment explanation
Indices: 13650372--13650457 Score: 127
Period size: 30 Copynumber: 2.9 Consensus size: 29
13650362 GGATTTCAGC
13650372 AATTTTTTAATGTAGTCAATGTTATTCAA
1 AATTTTTTAATGTAGTCAATGTTATTCAA
* ** *
13650401 AATTTTTTCAATGCAGTCAATGTTGCTCAG
1 AATTTTTT-AATGTAGTCAATGTTATTCAA
13650431 AATTTTTTAATGTAGTCAATGTTATTC
1 AATTTTTTAATGTAGTCAATGTTATTC
13650458 CGGTATAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
29 24 0.49
30 25 0.51
ACGTcount: A:0.30, C:0.10, G:0.13, T:0.47
Consensus pattern (29 bp):
AATTTTTTAATGTAGTCAATGTTATTCAA
Found at i:13653017 original size:29 final size:29
Alignment explanation
Indices: 13652978--13653049 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
13652968 AGAAAATGAT
13652978 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
13653007 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
*
13653036 AACAAAAGTGACTA
1 AACATAAGTGACTA
13653050 TTTTTGTAGT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.50, C:0.17, G:0.11, T:0.22
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATTTCA
Found at i:13656287 original size:46 final size:45
Alignment explanation
Indices: 13656144--13656287 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 45
13656134 CCCGCCCATA
*
13656144 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATC-CT
* *
13656193 --CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCA-AC-CATCC-T
*
13656236 AAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCATCCT
13656283 AGTGA
1 AGTGA
13656288 CATGTCACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 23
0.73 0.06 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 6 0.08
44 1 0.01
46 33 0.42
47 29 0.37
48 5 0.06
49 1 0.01
50 2 0.03
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCCT
Found at i:13659527 original size:75 final size:75
Alignment explanation
Indices: 13659439--13659585 Score: 224
Period size: 75 Copynumber: 2.0 Consensus size: 75
13659429 GTTGTCCCAT
*
13659439 AATTTTTTGATGTCATGGGAAACAGGTTGACAACATATT-TGCAACGTGTTTACTGCTTCTATTA
1 AATTTTTTGATGTCATGGGAAACAGGTTGACAACATATTCT-CAACGTGTTAACTGCTTCTATTA
13659503 GGATTTTGTAG
65 GGATTTTGTAG
* * * * *
13659514 AATTTTTTTATGTCATGTGAAACCGGTTGACAACATGTTCTCAACTTGTTAACTGCTTCTATTAG
1 AATTTTTTGATGTCATGGGAAACAGGTTGACAACATATTCTCAACGTGTTAACTGCTTCTATTAG
13659579 GATTTTG
66 GATTTTG
13659586 CATATAAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
75 64 0.98
76 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (75 bp):
AATTTTTTGATGTCATGGGAAACAGGTTGACAACATATTCTCAACGTGTTAACTGCTTCTATTAG
GATTTTGTAG
Found at i:13659841 original size:35 final size:35
Alignment explanation
Indices: 13659783--13660238 Score: 258
Period size: 35 Copynumber: 12.6 Consensus size: 35
13659773 GACAAAGATC
** **
13659783 TATCCCAACCTTTTTAAATTTGCCTTAGATGGGTT
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
13659818 TA-CCCTAACCTTTTTAAGGTTGCCTTAGACAA-GTT
1 TATCCC-AACCTTTTTAAGGTTGCCTTAGA-AAGGTT
* * *
13659853 TATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTC
1 TATCCCAAC-CTTTTTAAGGTTGCCTTAG-AAAGGTT
* * *
13659889 TATCCCAACCTTTTTAAGGTTGCTTTA-AACGAGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAG-GTT
* * * * *
13659924 TATCCCAACATTTCTAAGGTTGTCTTAGATAGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
* * ** *
13659959 AATCCCAACTTTTTTTAAAATTTACCTTAGACAAGGTT
1 TATCCCAAC-CTTTTT-AAGGTTGCCTTAGA-AAGGTT
* * * *
13659997 TATCCCAACCTTTTTAAGGTTACCTTA-AACGAATC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAG-GTT
* **
13660032 TATCCCAACTTTTTTAAGGTTGTTTTAGATAA-GTT
1 TATCCCAACCTTTTTAAGGTTGCCTTAGA-AAGGTT
* * * *
13660067 TATTCCAACCTTTTTCGAAAGTTGCCTTAGACAAGATC
1 TATCCCAACCTTTTT--AAGGTTGCCTTAGA-AAGGTT
* * *
13660105 TATCCTAACTTTTTTTAAAGGTTGCCTTAGACAAGGTC
1 TATCCCAAC-CTTTTT-AAGGTTGCCTTAGA-AAGGTT
* ** ** ** *
13660143 TATCCCAAACTTTTTTAAAATATATCTTAGACTGGTC
1 TATCCC-AACCTTTTTAAGGT-TGCCTTAGAAAGGTT
* * * ** *
13660180 TATTCCAACCTTTTTAATGTTGCGTTAGATGGGTC
1 TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
13660215 TATCCCAACCTTTTTCAATGGTTG
1 TATCCCAACCTTTTT-AA-GGTTG
13660239 GTCTTGACTA
Statistics
Matches: 326, Mismatches: 72, Indels: 44
0.74 0.16 0.10
Matches are distributed among these distances:
34 8 0.02
35 149 0.46
36 59 0.18
37 45 0.14
38 57 0.17
39 8 0.02
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (35 bp):
TATCCCAACCTTTTTAAGGTTGCCTTAGAAAGGTT
Found at i:13659908 original size:71 final size:72
Alignment explanation
Indices: 13659828--13660158 Score: 278
Period size: 71 Copynumber: 4.6 Consensus size: 72
13659818 TACCCTAACC
* *
13659828 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAA-GTTGCCTTGGAAAAGGTCTAT
1 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAGATCTAT
*
13659892 CCCAACC
66 CCCAACT
* * * * * * * * * *
13659899 TTTTTAAGGTTGCTTTAAACGAGTCTATCCCAAC-ATTTCTAAGGTTGTCTTAG-ATAGGTCAAT
1 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAGATCTAT
13659962 CCCAACTT
66 CCCAAC-T
** * * * *
13659970 TTTTTAAAATTTACCTTAGACAAGGTTTATCCCAAC-CTTTTTAAGGTTACCTT--AAACGAATC
1 TTTTT-AAGGTTGCCTTAGACAA-GTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAG-ATC
13660032 TATCCCAACT
63 TATCCCAACT
** * * ** * *
13660042 TTTTTAAGGTTGTTTTAGATAAGTTTATTCCAACCTTTTTCGAAAGTTGCCTTAGACAAGATCTA
1 TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAA-CTTTTTTTAAGGTTGCCTTAGAAAAGATCTA
*
13660107 TCCTAACTT
65 TCCCAAC-T
*
13660116 TTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAACTTTTTT
1 TTTTT-AAGGTTGCCTTAGACAA-GTTTATCCC-AACTTTTTT
13660159 AAAATATATC
Statistics
Matches: 199, Mismatches: 47, Indels: 23
0.74 0.17 0.09
Matches are distributed among these distances:
70 30 0.15
71 55 0.28
72 31 0.16
73 45 0.23
74 9 0.05
75 14 0.07
76 13 0.07
77 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (72 bp):
TTTTTAAGGTTGCCTTAGACAAGTTTATCCCAACTTTTTTTAAGGTTGCCTTAGAAAAGATCTAT
CCCAACT
Found at i:13660025 original size:108 final size:107
Alignment explanation
Indices: 13659772--13660238 Score: 395
Period size: 108 Copynumber: 4.3 Consensus size: 107
13659762 ATTGGACATG
* ** * * * * *
13659772 AGACAAAGATCTATCCCAACCTTTTTAAATTTGCCTTAGATGGGTTTA-CCCTAACCTTTTTAAG
1 AGAC-AAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCC-AACATTTTTAAG
* *
13659836 GTTGCCTTAGACAAGTTTATCCCAACTTTTTTT-AAGTTGCCTT
64 GTTGTCTTAGATAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
* * * *
13659879 GGAAAAGGTCTATCCCAACCTTTTTAAGGTTGCTTTAAACGAGTCTATCCCAACATTTCTAAGGT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCCAACATTTTTAAGGT
* ** * *
13659944 TGTCTTAGATAGGTCAATCCCAACTTTTTTTAAAATTTACCTT
66 TGTCTTAGATAAGTTTATCCCAACTTTTTTT-AAAGTTGCCTT
* * * *
13659987 AGACAAGGTTTATCCCAACCTTTTTAAGGTTACCTTAAACGAATCTATCCCAACTTTTTTAAGGT
1 AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCCAACATTTTTAAGGT
* * **
13660052 TGTTTTAGATAAGTTTATTCCAACCTTTTTCGAAAGTTGCCTT
66 TGTCTTAGATAAGTTTATCCCAA-CTTTTTTTAAAGTTGCCTT
* * * * * *
13660095 AGACAAGATCTATCCTAACTTTTTTTAAAGGTTGCCTTAGACAAGGTCTATCCCAAACTTTTTTA
1 AGACAAGGTCTATCCCAAC-CTTTTT-AAGGTTGCCTTAAACGA-GTCTATCCC-AACATTTTTA
** * * * * * * *
13660160 AAATATATCTTAGACT-GGTCTATTCCAAC-CTTTTTAATGTTGCGTT
62 AGGT-TGTCTTAGA-TAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
**
13660206 AGA-TGGGTCTATCCCAACCTTTTTCAATGGTTG
1 AGACAAGGTCTATCCCAACCTTTTT-AA-GGTTG
13660239 GTCTTGACTA
Statistics
Matches: 288, Mismatches: 61, Indels: 19
0.78 0.17 0.05
Matches are distributed among these distances:
106 73 0.25
107 5 0.02
108 108 0.38
109 18 0.06
110 30 0.10
111 23 0.08
112 13 0.05
113 17 0.06
114 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (107 bp):
AGACAAGGTCTATCCCAACCTTTTTAAGGTTGCCTTAAACGAGTCTATCCCAACATTTTTAAGGT
TGTCTTAGATAAGTTTATCCCAACTTTTTTTAAAGTTGCCTT
Found at i:13660037 original size:143 final size:145
Alignment explanation
Indices: 13659840--13660157 Score: 349
Period size: 143 Copynumber: 2.2 Consensus size: 145
13659830 TTTAAGGTTG
* * *
13659840 CCTTAGACAA-GTTTATCCCAACTTTTTTTAAGTTGCCTTGGAAAAGGTCTATCCCAACCTTTTT
1 CCTTAGACAAGGTTTATCCCAAC-CTTTTTAAGTTACCTT-GAAAAGATCTATCCCAACCTTTTT
* * * * * *
13659904 AAGGTTGCTTTAAACGAGTCTATCCCAA-C-ATTTCTAAGGTTGTCTTAGA-TAGGTCAATCCCA
64 AAGGTTGCTTTAAACAAGTCTATCCCAACCTATTTCGAAAGTTGCCTTAGACAAGATCAATCCCA
*
13659966 ACTTTTTTTAAAATTTA
129 ACTTTTTTTAAAAGTTA
* *
13659983 CCTTAGACAAGGTTTATCCCAACCTTTTTAAGGTTACCTT-AAACGAATCTATCCCAACTTTTTT
1 CCTTAGACAAGGTTTATCCCAACCTTTTTAA-GTTACCTTGAAAAG-ATCTATCCCAACCTTTTT
* * * * * * * *
13660047 AAGGTTGTTTTAGATAAGTTTATTCCAACCTTTTTCGAAAGTTGCCTTAGACAAGATCTATCCTA
64 AAGGTTGCTTTAAACAAGTCTATCCCAACCTATTTCGAAAGTTGCCTTAGACAAGATCAATCCCA
* *
13660112 ACTTTTTTTAAAGGTTG
129 ACTTTTTTTAAAAGTTA
* *
13660129 CCTTAGACAAGGTCTATCCCAAACTTTTT
1 CCTTAGACAAGGTTTATCCCAACCTTTTT
13660158 TAAAATATAT
Statistics
Matches: 145, Mismatches: 24, Indels: 9
0.81 0.13 0.05
Matches are distributed among these distances:
142 4 0.03
143 55 0.38
144 20 0.14
145 16 0.11
146 50 0.34
ACGTcount: A:0.28, C:0.20, G:0.13, T:0.39
Consensus pattern (145 bp):
CCTTAGACAAGGTTTATCCCAACCTTTTTAAGTTACCTTGAAAAGATCTATCCCAACCTTTTTAA
GGTTGCTTTAAACAAGTCTATCCCAACCTATTTCGAAAGTTGCCTTAGACAAGATCAATCCCAAC
TTTTTTTAAAAGTTA
Found at i:13660262 original size:38 final size:36
Alignment explanation
Indices: 13660167--13660262 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 36
13660157 TTAAAATATA
13660167 TCTTAGACTGGTCTATT-CCAACCTTTTTAATGTTGCG
1 TCTT-GACTGGTCT-TTCCCAACCTTTTTAATGTTGCG
* *
13660204 T-TAGA-TGGGTCTATCCCAACCTTTTTCAATGGTTG-G
1 TCTTGACT-GGTCTTTCCCAACCTTTTT-AAT-GTTGCG
13660240 TCTTGACTAGGTCTTTCCCAACC
1 TCTTGACT-GGTCTTTCCCAACC
13660263 CTTCAATAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
34 2 0.04
35 18 0.38
36 6 0.12
37 8 0.17
38 14 0.29
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (36 bp):
TCTTGACTGGTCTTTCCCAACCTTTTTAATGTTGCG
Found at i:13661981 original size:15 final size:15
Alignment explanation
Indices: 13661961--13661999 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
13661951 ATGATAAGTG
13661961 ATATATAAAAAATAT
1 ATATATAAAAAATAT
**
13661976 ATATATAAAATGTAT
1 ATATATAAAAAATAT
13661991 ATAATATAA
1 AT-ATATAA
13662000 TATATAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 15 0.71
16 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
ATATATAAAAAATAT
Found at i:13662238 original size:31 final size:30
Alignment explanation
Indices: 13662193--13662251 Score: 73
Period size: 31 Copynumber: 1.9 Consensus size: 30
13662183 AAGAAAAAAA
*
13662193 AATGTAAGAAATAATATATATAGTAAAATAT
1 AATGTAAGAAATAATATATA-AATAAAATAT
* * *
13662224 AATGTATGATATAATTTATAAATAAAAT
1 AATGTAAGAAATAATATATAAATAAAAT
13662252 GTATAATAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.36
Consensus pattern (30 bp):
AATGTAAGAAATAATATATAAATAAAATAT
Found at i:13663948 original size:44 final size:44
Alignment explanation
Indices: 13663885--13664615 Score: 285
Period size: 44 Copynumber: 16.6 Consensus size: 44
13663875 CTTAGGAATA
* * * ** *
13663885 CCAAATCTGTTAACTTCGATCTGCTCTCAGACACTACAAAAACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * *
13663929 CCAAATCTGCTATCTTCGATCTGCTCTCTGATAAAATAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * *
13663973 CCAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAAAGACA
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* *
13664017 CCAAATCTGCTATCTTTGATCTGCTCTCTGAAAAAACAGAAGA-G
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACA-AAGACG
** *** * *
13664061 CCAAATCTGCTATCTTCGATCTGCTC-CTTGTGAGCGCAAGGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TGACAAAACAAAGACG
* * *
13664105 CCAAA--T-C-ATCTTGGATTTGCT-T-TGATGCAAAAACATCCAA-AGG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AAAACA---AAGACG
** * * * * * *** *
13664148 TTAGATCTGCTATGTCTTCGATCTGCTTTCCGTCGAATATGGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AAAACAAAGACG
* * * * * * * *
13664195 CCAAATCT-ATTTTTTCGATTTGTTCTCTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
*** * *
13664238 CCAAATCTGCTATCTTCGATCTGCTC-CTTGTA-AGCGCAAGGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAAAACAAAGACG
* ** *
13664282 CCAAA--T-C-ATCTTGGATCTGCT-TC-GATGCAAAAACATCCGAAGG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGA--C-AAAACA-AAG-ACG
** * * * * *** *
13664325 TTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AAAACAAAGACG
* * * ** * * *
13664372 CCAAATCTG-TTTCTTCAATTTATTTTCTGACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* ** * * * *
13664415 CCAAATCTGCTATTTTTTATCTGCTCTCTGACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * *
13664459 CCAAATCTGCTATCTTTGATCTGCTCTCTGACTATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * * *
13664503 CCAAATCTGCTATCTTTGATCTGCTCCCTGACAATACAGAGATG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* * * *
13664547 CCAAATCTGCTATCTTCGATCTGCTCCCTAACAATACAGAGACG
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
* *
13664591 CCAAATATGCTATCTTTGATCTGCT
1 CCAAATCTGCTATCTTCGATCTGCT
13664616 ATCTTTGATC
Statistics
Matches: 523, Mismatches: 126, Indels: 76
0.72 0.17 0.10
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
40 26 0.05
41 8 0.02
42 3 0.01
43 49 0.09
44 367 0.70
45 7 0.01
46 5 0.01
47 17 0.03
48 1 0.00
49 31 0.06
50 3 0.01
51 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (44 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAAACAAAGACG
Found at i:13664109 original size:88 final size:88
Alignment explanation
Indices: 13663885--13664615 Score: 346
Period size: 88 Copynumber: 8.3 Consensus size: 88
13663875 CTTAGGAATA
* * * *
13663885 CCAAATCTGTTAACTTCGATCTGCTCTCAGAC-ACTACAAAAACGCCAAATCTGCTATCTTCGAT
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAAC-ACAAAGACGCCAAATCTGCTATCTTCGAT
* *
13663949 CTGCTCTCTGATAAAATAGAGATG
65 CTGCTCTCTGAAAAAACAGAGATG
* * * * *
13663973 CCAAATCTGTTATCTTTGATCTGCTCTCTGACAATACAAAGACACCAAATCTGCTATCTTTGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAACACAAAGACGCCAAATCTGCTATCTTCGATC
13664038 TGCTCTCTGAAAAAACAGAAGA-G
66 TGCTCTCTGAAAAAACAG-AGATG
** * * * * *
13664061 CCAAATCTGCTATCTTCGATCTGCTC-CTTGTGAGCGCAAGGATGCCAAA--T-C-ATCTTGGAT
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TGACAACACAAAGACGCCAAATCTGCTATCTTCGAT
* * * * * * *
13664121 TTGCTTTGATGCAAAAACATCCAAAGG
65 CTGCTCT-CTGAAAAAACA--GAGATG
** * * * * * *** * * * *
13664148 TTAGATCTGCTATGTCTTCGATCTGCTTTCCGTCGAATATGGAGATGCCAAATCT-ATTTTTTCG
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AACACAAAGACGCCAAATCTGCTATCTTCG
* * * *
13664212 ATTTGTTCTCTGACAATACAGAGATG
63 ATCTGCTCTCTGAAAAAACAGAGATG
* * * * *
13664238 CCAAATCTGCTATCTTCGATCTGCTC-CTTGTA-AGCGCAAGGATGCCAAA--T-C-ATCTTGGA
1 CCAAATCTGCTATCTTCGATCTGCTCTC-TG-ACAACACAAAGACGCCAAATCTGCTATCTTCGA
* *
13664297 TCTGCT-TCGATGCAAAAACATCCGA-AGG
64 TCTGCTCTC--TG-AAAAA-A-CAGAGATG
** * * * * *** * * *
13664325 TTAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAATCTG-TTTCTTCA
1 CCAAATCTGCTA--TCTTCGATCTGCTCTCTGAC-AACACAAAGACGCCAAATCTGCTATCTTCG
* ** * * * *
13664389 ATTTATTTTCTGACAATACAGAGACG
63 ATCTGCTCTCTGAAAAAACAGAGATG
* ** * * * * *
13664415 CCAAATCTGCTATTTTTTATCTGCTCTCTGACTATACAGAGATGCCAAATCTGCTATCTTTGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAACACAAAGACGCCAAATCTGCTATCTTCGATC
** *
13664480 TGCTCTCTGACTATACAGAGATG
66 TGCTCTCTGAAAAAACAGAGATG
* * * * *
13664503 CCAAATCTGCTATCTTTGATCTGCTCCCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATC
1 CCAAATCTGCTATCTTCGATCTGCTCTCTGACAACACAAAGACGCCAAATCTGCTATCTTCGATC
* * *
13664568 TGCTCCCT-AACAATACAGAGACG
66 TGCTCTCTGAA-AAAACAGAGATG
* *
13664591 CCAAATATGCTATCTTTGATCTGCT
1 CCAAATCTGCTATCTTCGATCTGCT
13664616 ATCTTTGATC
Statistics
Matches: 482, Mismatches: 127, Indels: 68
0.71 0.19 0.10
Matches are distributed among these distances:
83 2 0.00
84 22 0.05
85 13 0.03
86 6 0.01
87 53 0.11
88 268 0.56
89 37 0.08
90 46 0.10
91 3 0.01
92 11 0.02
93 19 0.04
94 2 0.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.32
Consensus pattern (88 bp):
CCAAATCTGCTATCTTCGATCTGCTCTCTGACAACACAAAGACGCCAAATCTGCTATCTTCGATC
TGCTCTCTGAAAAAACAGAGATG
Found at i:13664440 original size:177 final size:176
Alignment explanation
Indices: 13664041--13664427 Score: 639
Period size: 177 Copynumber: 2.2 Consensus size: 176
13664031 TTTGATCTGC
* * *
13664041 TCTCTGAAAAAACAGAAGAGCCAAATCTGCTATCTTCGATCTGCTCCTTGTGAGCGCAAGGATGC
1 TCTCTGACAATACAG-AGAGCCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGC
* *
13664106 CAAATCATCTTGGATTTGCTTTGATGCAAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATC
65 CAAATCATCTTGGATCTGCTTCGATGCAAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATC
* * * *
13664171 TGCTTTCCGTCGAATATGGAGATGCCAAATCTATTTTTTCGATTTGT
130 TGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCAATTTAT
13664218 TCTCTGACAATACAGAGATGCCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGC
1 TCTCTGACAATACAGAGA-GCCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGC
*
13664283 CAAATCATCTTGGATCTGCTTCGATGCAAAAACATCCGAAGGTTAGATCTGCTATGTCTTCGATC
65 CAAATCATCTTGGATCTGCTTCGATGCAAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATC
*
13664348 TGCTCTCCGTCGAATATGGAGATGCCAAATCTGTTTCTTCAATTTAT
130 TGCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCAATTTAT
*
13664395 TTTCTGACAATACAGAGACGCCAAATCTGCTAT
1 TCTCTGACAATACAGAGA-GCCAAATCTGCTAT
13664428 TTTTTATCTG
Statistics
Matches: 196, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
176 3 0.02
177 193 0.98
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (176 bp):
TCTCTGACAATACAGAGAGCCAAATCTGCTATCTTCGATCTGCTCCTTGTAAGCGCAAGGATGCC
AAATCATCTTGGATCTGCTTCGATGCAAAAACATCCAAAGGTTAGATCTGCTATGTCTTCGATCT
GCTCTCCGTCGAATATGGAGATGCCAAATCTATTTCTTCAATTTAT
Found at i:13664617 original size:14 final size:14
Alignment explanation
Indices: 13664598--13664625 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13664588 ACGCCAAATA
13664598 TGCTATCTTTGATC
1 TGCTATCTTTGATC
13664612 TGCTATCTTTGATC
1 TGCTATCTTTGATC
13664626 AGCTCTCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.50
Consensus pattern (14 bp):
TGCTATCTTTGATC
Found at i:13675964 original size:40 final size:40
Alignment explanation
Indices: 13675881--13676103 Score: 236
Period size: 40 Copynumber: 5.6 Consensus size: 40
13675871 TTGAATGCTG
* * * * * *
13675881 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
13675921 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
**
13675961 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
13676001 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
*
13676041 TCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * *
13676080 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
13676104 TGACCGAGGA
Statistics
Matches: 161, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 34 0.21
40 119 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:13676123 original size:79 final size:80
Alignment explanation
Indices: 13675956--13676138 Score: 226
Period size: 79 Copynumber: 2.3 Consensus size: 80
13675946 GTGCGAGATA
** * *
13675956 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
13676021 CATTCGTGCGAGTTG
66 CATTCGACCGAGGAG
* * *
13676036 TTAAATCCGGGTTAAGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
13676100 CATTTGACCGAGGAG
66 CATTCGACCGAGGAG
* *
13676115 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
13676139 TACGTGATTT
Statistics
Matches: 88, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 15 0.17
79 45 0.51
80 28 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGACCGAGGAG
Found at i:13678255 original size:17 final size:17
Alignment explanation
Indices: 13678233--13678275 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
13678223 ATGATAAGTA
13678233 ATATATAAAAAATATAT
1 ATATATAAAAAATATAT
* *
13678250 ATATATATAAAATGTAT
1 ATATATAAAAAATATAT
13678267 ATAATATAA
1 AT-ATATAA
13678276 TATATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 17 0.77
18 5 0.23
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
ATATATAAAAAATATAT
Found at i:13678257 original size:19 final size:18
Alignment explanation
Indices: 13678231--13678274 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
13678221 ATATGATAAG
13678231 TAATATATAAAAAATATA
1 TAATATATAAAAAATATA
**
13678249 TATATATATAAAATGTATA
1 TA-ATATATAAAAAATATA
13678268 TAATATA
1 TAATATA
13678275 ATATATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (18 bp):
TAATATATAAAAAATATA
Found at i:13678609 original size:21 final size:20
Alignment explanation
Indices: 13678583--13678643 Score: 54
Period size: 21 Copynumber: 3.1 Consensus size: 20
13678573 ATAATGGATA
13678583 ATTTATATAATAAAAATAAT
1 ATTTATATAATAAAAATAAT
* * * *
13678603 ATGTTATTTTATATAACTAAT
1 AT-TTATATAATAAAAATAAT
*
13678624 ATTTATA-AA-AATAATAAT
1 ATTTATATAATAAAAATAAT
13678642 AT
1 AT
13678644 ATAAAGTATA
Statistics
Matches: 31, Mismatches: 9, Indels: 4
0.70 0.20 0.09
Matches are distributed among these distances:
18 8 0.26
19 1 0.03
20 6 0.19
21 16 0.52
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTTATATAATAAAAATAAT
Found at i:13682531 original size:33 final size:31
Alignment explanation
Indices: 13682489--13682590 Score: 82
Period size: 33 Copynumber: 3.1 Consensus size: 31
13682479 ATTTAATGGT
13682489 TTTATTTAAATATTTAAAATATAATTTATATA
1 TTTA-TTAAATATTTAAAATATAATTTATATA
* *
13682521 TTCTAATTAAAT-TTTATAA-ATAATTAATATTTA
1 TT-T-ATTAAATATTTAAAATATAATT--TATATA
*
13682554 TTTATTAAAAATATTTAAAATTTATATTTCATATA
1 TTTATT--AAATATTTAAAATATA-ATTT-ATATA
13682589 TT
1 TT
13682591 AAAATATTAA
Statistics
Matches: 55, Mismatches: 5, Indels: 17
0.71 0.06 0.22
Matches are distributed among these distances:
31 9 0.16
32 9 0.16
33 18 0.33
34 8 0.15
35 8 0.15
36 3 0.05
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (31 bp):
TTTATTAAATATTTAAAATATAATTTATATA
Found at i:13682582 original size:30 final size:30
Alignment explanation
Indices: 13682542--13682598 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
13682532 TTTTATAAAT
*
13682542 AATTAATATTT-ATTTATTAAAAATATTTAA
1 AATTAATATTTCATATATT-AAAATATTTAA
*
13682572 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
13682599 AACAACAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 18 0.75
31 6 0.25
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:13682814 original size:13 final size:13
Alignment explanation
Indices: 13682783--13682824 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
13682773 AAACTTCTCA
*
13682783 AAAACACTTTTCC
1 AAAACACTTTTTC
* *
13682796 AGAACACTTTTTT
1 AAAACACTTTTTC
13682809 AAAACA-TTTTTC
1 AAAACACTTTTTC
13682821 AAAA
1 AAAA
13682825 GCATTACTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (13 bp):
AAAACACTTTTTC
Found at i:13684323 original size:48 final size:48
Alignment explanation
Indices: 13684250--13684395 Score: 197
Period size: 48 Copynumber: 3.0 Consensus size: 48
13684240 GTCATTAAGG
*
13684250 GATTCATTGATTTGGCTTTGGGCCATGATATTGGCACTTCAGGTGCGA
1 GATTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
* * *
13684298 GCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTCAGGTGCAA
1 GATTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
* * *
13684346 GATAT-GTTGAGTTGGCTTCGGGTCATGATATTGGCACTT-AGTGTGCGA
1 GAT-TCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAG-GTGCGA
13684394 GA
1 GA
13684396 CTCCTGAGTA
Statistics
Matches: 86, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
47 2 0.02
48 83 0.97
49 1 0.01
ACGTcount: A:0.20, C:0.16, G:0.29, T:0.34
Consensus pattern (48 bp):
GATTCATTGATTTGGCTTCGGGCCATGATATTGGCACTTCAGGTGCGA
Found at i:13701051 original size:6 final size:6
Alignment explanation
Indices: 13701040--13701072 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
13701030 TCCTCTTATC
*
13701040 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
13701073 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:13701078 original size:18 final size:18
Alignment explanation
Indices: 13701040--13701079 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13701030 TCCTCTTATC
* **
13701040 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
13701058 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
13701076 TTTT
1 TTTT
13701080 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:13714872 original size:19 final size:19
Alignment explanation
Indices: 13714845--13714883 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
13714835 GATTTCTAAT
* *
13714845 GATAGAAAATGTATGTTTG
1 GATAAAAAATGCATGTTTG
13714864 GATAAAAAATGCATGTTTG
1 GATAAAAAATGCATGTTTG
13714883 G
1 G
13714884 TGTTTGATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.26, T:0.33
Consensus pattern (19 bp):
GATAAAAAATGCATGTTTG
Found at i:13727277 original size:23 final size:22
Alignment explanation
Indices: 13727250--13727304 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
13727240 CAGCTCTTTG
*
13727250 GAGCTTACCGTTTTAGCTCAATAA
1 GAGCTTACCG-TTCAGCTCAA-AA
**
13727274 -AGCTTAATGTTCAGCTCAAAA
1 GAGCTTACCGTTCAGCTCAAAA
13727295 GAGCTTACCG
1 GAGCTTACCG
13727305 ACCATGACTC
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 2 0.08
22 16 0.64
23 7 0.28
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (22 bp):
GAGCTTACCGTTCAGCTCAAAA
Found at i:13734244 original size:23 final size:23
Alignment explanation
Indices: 13734216--13734284 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
13734206 TTTTCAGCTC
* *
13734216 CCGTTTCAGCTTATTGGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
*
13734239 CCGTTTTAGCTCATTAGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
* *
13734262 CCATTTCAGCTCAATAGAGCTTA
1 CCGTTTCAGCTCATTAGAGCTTA
13734285 ATATTCAGCT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (23 bp):
CCGTTTCAGCTCATTAGAGCTTA
Found at i:13734294 original size:22 final size:21
Alignment explanation
Indices: 13734254--13734328 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 21
13734244 TTAGCTCATT
*
13734254 AGAGCTTACCATTTCAGCTCAAT
1 AGAGCTTA--ATTTCAGCTCAAA
13734277 AGAGCTTAATATTCAGCTCAAA
1 AGAGCTTAAT-TTCAGCTCAAA
*
13734299 AGAGCTTAATGTTCGGCTCAAA
1 AGAGCTTAAT-TTCAGCTCAAA
13734321 AGAGCTTA
1 AGAGCTTA
13734329 CCGACCATGA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
21 2 0.04
22 38 0.79
23 8 0.17
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (21 bp):
AGAGCTTAATTTCAGCTCAAA
Found at i:13736403 original size:56 final size:55
Alignment explanation
Indices: 13736252--13736404 Score: 164
Period size: 56 Copynumber: 2.7 Consensus size: 55
13736242 ATAACATGAT
* * * *
13736252 ACATGCTAGGTCCGGGAGCTTGTGTAGCCCTGTTGAGAGGCATGTAATTATGTGGC
1 ACATGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGCATG-AATTATGAGAC
* * * * * *
13736308 ACACGCTAGGTCTGGGAGCTTATGTAGCCTTATTAAGAGGCATG-GTTATGAGAT
1 ACATGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGCATGAATTATGAGAC
* *
13736362 GCATGCTAGGTCTGGGTGCTCTTATGTAGCCCTGTTGAGAGGC
1 ACATGCTAGGTCTGGGAG--CTTATGTAGCCCTGTTGAGAGGC
13736405 GTGCTATGTT
Statistics
Matches: 79, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
54 21 0.27
56 58 0.73
ACGTcount: A:0.20, C:0.18, G:0.33, T:0.29
Consensus pattern (55 bp):
ACATGCTAGGTCTGGGAGCTTATGTAGCCCTGTTGAGAGGCATGAATTATGAGAC
Found at i:13741203 original size:42 final size:44
Alignment explanation
Indices: 13741103--13741259 Score: 157
Period size: 43 Copynumber: 3.7 Consensus size: 44
13741093 AGCTCGTACA
* * *
13741103 ATGCCAACGTCCCAGA-TGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAAAGTCCCAGACAGTGGTCTTACATGAAATCAAATATCG
** *
13741146 ATGCCATTGTCCCAGACAG-GGTTTTACATGAAATCAAATA-CG
1 ATGCCAAAGTCCCAGACAGTGGTCTTACATGAAATCAAATATCG
*
13741188 ATGCCAAAGTCCCAGAC-GTGGTCTTACACAT-AAATCATAA-GTCG
1 ATGCCAAAGTCCCAGACAGTGGTCTT--ACATGAAATCA-AATATCG
* *
13741232 ATGCCAACGTCCCAAAC-GTGGTCTTACA
1 ATGCCAAAGTCCCAGACAGTGGTCTTACA
13741260 CGATAACACA
Statistics
Matches: 97, Mismatches: 11, Indels: 13
0.80 0.09 0.11
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 39 0.40
44 32 0.33
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
ATGCCAAAGTCCCAGACAGTGGTCTTACATGAAATCAAATATCG
Found at i:13741223 original size:43 final size:43
Alignment explanation
Indices: 13741103--13741265 Score: 165
Period size: 44 Copynumber: 3.8 Consensus size: 43
13741093 AGCTCGTACA
* **
13741103 ATGCCAACGTCCCAGATGTGGTCTTACATGT-AATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCAAATA-CG
** *
13741146 ATGCCATTGTCCCAGACAG-GGT-TT-TACATGAAATCAAATACG
1 ATGCCAACGTCCCAGAC-GTGGTCTTACACAT-AAATCAAATACG
*
13741188 ATGCCAAAGTCCCAGACGTGGTCTTACACATAAATCATAAGT-CG
1 ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCA-AA-TACG
*
13741232 ATGCCAACGTCCCAAACGTGGTCTTACACGATAA
1 ATGCCAACGTCCCAGACGTGGTCTTACAC-ATAA
13741266 CACATATCGG
Statistics
Matches: 100, Mismatches: 11, Indels: 16
0.79 0.09 0.13
Matches are distributed among these distances:
41 3 0.03
42 22 0.22
43 34 0.34
44 36 0.36
45 5 0.05
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACATAAATCAAATACG
Found at i:13746447 original size:35 final size:35
Alignment explanation
Indices: 13746401--13746530 Score: 145
Period size: 35 Copynumber: 3.6 Consensus size: 35
13746391 TTTCCTCATT
13746401 GAAATACCATACCTACATTTTACAACTCGGTATGG
1 GAAATACCATACCTACATTTTACAACTCGGTATGG
* * * *
13746436 GAAATGCCATACCTACGTTTCT-TAACTCAGTATGG
1 GAAATACCATACCTACATTT-TACAACTCGGTATGG
*
13746471 ATTTGATAATACCATACCAACATTTTACAACTCGGTATGG
1 ----GA-AATACCATACCTACATTTTACAACTCGGTATGG
*
13746511 GAAATGCCATACCTACATTT
1 GAAATACCATACCTACATTT
13746531 CACACTTTGT
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
35 45 0.58
36 3 0.04
39 3 0.04
40 26 0.34
ACGTcount: A:0.33, C:0.22, G:0.14, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTTACAACTCGGTATGG
Found at i:13749475 original size:9 final size:10
Alignment explanation
Indices: 13749446--13749478 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
13749436 AGGTAATAAG
13749446 ATGATGAAAA
1 ATGATGAAAA
13749456 ATGATGAAAA
1 ATGATGAAAA
*
13749466 ATGATTAAAA
1 ATGATGAAAA
13749476 ATG
1 ATG
13749479 TGATATGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.18, T:0.24
Consensus pattern (10 bp):
ATGATGAAAA
Found at i:13762697 original size:51 final size:51
Alignment explanation
Indices: 13762642--13762758 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
13762632 CTCTCTTACC
13762642 AAAATTTTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAAA
1 AAAATTTTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAAA
* * * * * *
13762693 AAAATATTTTTTTATATTGGTGCTGCTCATCTCTCTCTCTCCACCCTTAAA
1 AAAATTTTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAAA
*
13762744 AAAATATTTGTTTTA
1 AAAAT-TTTTTTTTA
13762759 AGACACATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
51 50 0.88
52 7 0.12
ACGTcount: A:0.26, C:0.26, G:0.08, T:0.41
Consensus pattern (51 bp):
AAAATTTTTTTTTATACTGGTGCCGCCCATCTCTCTCCCTCCACCCATAAA
Found at i:13766742 original size:46 final size:46
Alignment explanation
Indices: 13766692--13766867 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
13766682 TGGTTGAGCA
13766692 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
13766738 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA---A-GAGATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G
* * * *
13766783 CATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
13766831 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13766868 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 8, Indels: 22
0.79 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
45 1 0.01
46 65 0.59
47 28 0.25
48 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:13766848 original size:93 final size:93
Alignment explanation
Indices: 13766689--13766860 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
13766679 GGATGGTTGA
* * * *
13766689 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
13766754 TGAGTCCGAGTTCAAGAGATGTAACTAG
66 TGAGTCCGAGTTCAAGAGATGTAACTAG
* *
13766782 GCATCCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
13766847 TGAGTCCGAGTTCA
66 TGAGTCCGAGTTCA
13766861 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATACGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCAAGAGATGTAACTAG
Found at i:13769850 original size:15 final size:15
Alignment explanation
Indices: 13769812--13769855 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
13769802 CATAGTATCG
* *
13769812 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
13769827 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
13769842 TATCTTGGATTTCT
1 TATCTTGGATTTCT
13769856 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:13772309 original size:46 final size:46
Alignment explanation
Indices: 13772256--13772430 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
13772246 GGTTGAGCAT
13772256 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *** * *
13772302 CCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGC
* *
13772349 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
13772395 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13772431 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 30 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:13772411 original size:93 final size:93
Alignment explanation
Indices: 13772252--13772422 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13772242 GGATGGTTGA
*
13772252 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
13772317 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
13772345 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
13772410 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13772423 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:13784414 original size:46 final size:46
Alignment explanation
Indices: 13784361--13784535 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 46
13784351 GGTTGAGCAT
13784361 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *** * *
13784407 CCAAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT--
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATGC
* *
13784454 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
13784500 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13784536 GCGAGTTACA
Statistics
Matches: 108, Mismatches: 14, Indels: 14
0.79 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 30 0.28
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:13784516 original size:93 final size:93
Alignment explanation
Indices: 13784357--13784527 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
13784347 GGATGGTTGA
*
13784357 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCAAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
13784422 TGAGTCCGAGTTCGAGAGATGTAACTAG
66 TGAGTCCGAGTTCGAGAGATGTAACTAG
* * *
13784450 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
13784515 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
13784528 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCAAACTCGTTGAGT
TGAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:13787321 original size:24 final size:25
Alignment explanation
Indices: 13787234--13787321 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
13787224 TTACCGATTC
* * *
13787234 CAGCTCTTATGAGCTTAACGATACTT
1 CAGCTCGTATGAGCTTACCGTTA-TT
*
13787260 -AGCTCGTATGAGTTTACCGTTATT
1 CAGCTCGTATGAGCTTACCGTTATT
* *
13787284 CAGCTCGGAAGAGCTTACCGTT-TAT
1 CAGCTCGTATGAGCTTACCGTTAT-T
13787309 C-GCTCGTATGAGC
1 CAGCTCGTATGAGC
13787322 ATACATGTAC
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
24 13 0.25
25 38 0.75
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.33
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCGTTATT
Found at i:13800263 original size:16 final size:16
Alignment explanation
Indices: 13800244--13800274 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13800234 TTCTATCAAA
13800244 ATCACATAATAAAATC
1 ATCACATAATAAAATC
*
13800260 ATCATATAATAAAAT
1 ATCACATAATAAAAT
13800275 TAGAGCTTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (16 bp):
ATCACATAATAAAATC
Found at i:13808505 original size:25 final size:25
Alignment explanation
Indices: 13808449--13808508 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
13808439 AGGGTTACTG
* *
13808449 ATTCTAGCTCTTATGAGCTTATTGAT
1 ATTC-AGCTCGTATGAGCTTATCGAT
* *
13808475 ACTCAGCTCGTATGAGCTTATCGTT
1 ATTCAGCTCGTATGAGCTTATCGAT
13808500 ATTCAGCTC
1 ATTCAGCTC
13808509 AGAGGAGCTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (25 bp):
ATTCAGCTCGTATGAGCTTATCGAT
Found at i:13808724 original size:22 final size:22
Alignment explanation
Indices: 13808691--13808741 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
13808681 TTACATGGAA
*
13808691 ATGGTTATATATGATATACGTATAC
1 ATGG-TATATATG--ATACATATAC
*
13808716 ATGGTATATATGATACATGTAC
1 ATGGTATATATGATACATATAC
13808738 ATGG
1 ATGG
13808742 GATTCAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 12 0.50
24 8 0.33
25 4 0.17
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (22 bp):
ATGGTATATATGATACATATAC
Found at i:13817382 original size:50 final size:50
Alignment explanation
Indices: 13817305--13817644 Score: 249
Period size: 50 Copynumber: 6.8 Consensus size: 50
13817295 TCCGTTGTGT
* * *
13817305 GTCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATTCATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
* * ** * *
13817355 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCG-TTGACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--CTTAG
* * * * ** *
13817406 ATCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
* * ** **
13817456 TTCACGTGTGTAGTACTAAGTGTAGGCTACTA--TGTACTGGATTGATAG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
** * * * * * * *
13817504 GTTGCATGCGTAGTACTAAGTACAGGCTACTATGCGTACC-CATTAACTTCG
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATT--CTTAG
* * * * * ** *
13817555 ATCACGTGTGTAGTACTAAGTGCTGGCTACTATGTATATCAGATGGTTAA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
*
13817605 GTCACGTGTGTAGTACTAAGTGCAGG-TACTACATGTACCA
1 GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
13817645 AATTAATAGT
Statistics
Matches: 216, Mismatches: 66, Indels: 17
0.72 0.22 0.06
Matches are distributed among these distances:
48 35 0.16
49 15 0.07
50 95 0.44
51 68 0.31
52 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (50 bp):
GTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTCTTAG
Found at i:13817483 original size:101 final size:101
Alignment explanation
Indices: 13817306--13817489 Score: 260
Period size: 101 Copynumber: 1.8 Consensus size: 101
13817296 CCGTTGTGTG
* * * * * *
13817306 TCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATTCATAGGTCACATGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTAC
13817371 TAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
66 TAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
* ** * *
13817407 TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTATCAGATGGTTAATTCACGTGTGTAGTAC
1 TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTAC
*
13817472 TAAGTGTAGGCTACTATG
66 TAAGTGCAGGCTACTATG
13817490 TACTGGATTG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 71 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACGTGTATAGTACTAAGTGCAGGCTACCACGTGTACCAGATGCATAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGTTGACTTCGA
Found at i:13817583 original size:149 final size:150
Alignment explanation
Indices: 13817305--13817653 Score: 486
Period size: 149 Copynumber: 2.3 Consensus size: 150
13817295 TCCGTTGTGT
* *
13817305 GTCACGTGTGTAGTATTAAGTGTAGGCTACTACGTGTACCAGATTCATAGGTCACATGTGTAGTA
1 GTCACGTGTGTAGTACTAAGTGTAGGCTACTAC-TGTACCAGATTCATAGGTCACATGCGTAGTA
* * *
13817370 CTAAGTGCAGGCTACTATGCATACCCGTTGACTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
65 CTAAGTACAGGCTACTATGCATACCCATTAACTTCGATCACGTGTATAGTACTAAGTGCAGGCTA
*
13817435 CCACGTGTATCAGATGGTTAA
130 CCACGTATATCAGATGGTTAA
* ** * **
13817456 TTCACGTGTGTAGTACTAAGTGTAGGCTACTA-TGTACTGGATTGATAGGTTGCATGCGTAGTAC
1 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACTGTACCAGATTCATAGGTCACATGCGTAGTAC
* * *
13817520 TAAGTACAGGCTACTATGCGTACCCATTAACTTCGATCACGTGTGTAGTACTAAGTGCTGGCTAC
66 TAAGTACAGGCTACTATGCATACCCATTAACTTCGATCACGTGTATAGTACTAAGTGCAGGCTAC
* *
13817585 TATGTATATCAGATGGTTAA
131 CACGTATATCAGATGGTTAA
* * *
13817605 GTCACGTGTGTAGTACTAAGTGCAGG-TACTACATGTACCAAATTAATAG
1 GTCACGTGTGTAGTACTAAGTGTAGGCTACTAC-TGTACCAGATTCATAG
13817654 TTAGTACTAA
Statistics
Matches: 173, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
148 5 0.03
149 126 0.73
150 12 0.07
151 30 0.17
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (150 bp):
GTCACGTGTGTAGTACTAAGTGTAGGCTACTACTGTACCAGATTCATAGGTCACATGCGTAGTAC
TAAGTACAGGCTACTATGCATACCCATTAACTTCGATCACGTGTATAGTACTAAGTGCAGGCTAC
CACGTATATCAGATGGTTAA
Found at i:13817908 original size:16 final size:16
Alignment explanation
Indices: 13817887--13817918 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13817877 AGAATGGAGT
13817887 AAGTGAAATTATGTAA
1 AAGTGAAATTATGTAA
*
13817903 AAGTGAAATTTTGTAA
1 AAGTGAAATTATGTAA
13817919 TAAAACAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.19, T:0.34
Consensus pattern (16 bp):
AAGTGAAATTATGTAA
Found at i:13823936 original size:50 final size:50
Alignment explanation
Indices: 13823855--13824398 Score: 441
Period size: 50 Copynumber: 10.8 Consensus size: 50
13823845 TCCGTTGTGA
* * *
13823855 GTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * ** * *
13823905 GTCGCATGTGTAGTATTAAGTGTAGGCTACTATGCATACCCG-TTAACTTCA-
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--T-AG
* * * * ** * *
13823956 ATCACATGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGACGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* ** * *
13824006 TTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * *
13824056 GTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* ** * * * * * * *
13824107 ATCATGTGTGTGGTACTAAGTGCAGGCTACTACGTATATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * *
13824157 GTCACGTGTGTAGTACTAAGTGCTGGCTACTATGTGTACCAGATTGGTAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* * * * * * *
13824207 GTCGCATGTGTAGTAATAAGTGCAAGCTACTATGCGTACCCG-TTAACTTCG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA--TAG
* *** * * * * *
13824258 ATCTTGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAA
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
* *
13824308 GTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATTAATAG
1 GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
*
13824358 GT-ATCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 GTCA-CATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
13824399 AGGAGCTTCG
Statistics
Matches: 378, Mismatches: 104, Indels: 24
0.75 0.21 0.05
Matches are distributed among these distances:
49 9 0.02
50 265 0.70
51 101 0.27
52 3 0.01
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
GTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAG
Found at i:13824036 original size:101 final size:99
Alignment explanation
Indices: 13823856--13824398 Score: 405
Period size: 101 Copynumber: 5.4 Consensus size: 99
13823846 CCGTTGTGAG
* * * * * *
13823856 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGTAT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
* *
13823921 TAAGTGTAGGCTACTATGCATACCCGTTAACTTCAA
66 TAAGTGCAGGCTACTATGCATACCAGTT-ACTT-AA
* * * * * **
13823957 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGACGGTTAATTCATGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
* ** ** *
13824022 TAAGTGCAGGCTACTACGTGTACCAGATT-GGTAGG
66 TAAGTGCAGGCTACTATGCATACCAG-TTACTTA-A
* * * * * * ** * ** *
13824057 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGTTAACTT-CGATCATGTGTGTGGT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-GGTTAAG-TCACATGTGTAGT
* * * * **
13824121 ACTAAGTGCAGGCTACTACGTATATCAGATGGTTAA
64 ACTAAGTGCAGGCTACTATGCATACCAGTTACTTAA
* * * *
13824157 GTCACGTGTGTAGTACTAAGTGCTGGCTACTATGTGTACCAGATTGG-TAGGTCGCATGTGTAGT
1 -TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TGGTTAAGTCACATGTGTAGT
* * * * *
13824221 AATAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGA
64 ACTAAGTGCAGGCTACTATGCATACCAGTT-ACTT-AA
** *
13824259 TCTTGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAAGTCACATGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
*** *
13824324 TAAGTGCAGGCTACTATATGTACCAGATTA-ATAGGTA
66 TAAGTGCAGGCTACTATGCATACCAG-TTACTTA---A
* *
13824361 TCA--TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
13824399 AGGAGCTTCG
Statistics
Matches: 346, Mismatches: 81, Indels: 31
0.76 0.18 0.07
Matches are distributed among these distances:
99 1 0.00
100 105 0.30
101 231 0.67
102 9 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (99 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAAGTCACATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCAGTTACTTAA
Found at i:13824408 original size:151 final size:151
Alignment explanation
Indices: 13823854--13824397 Score: 854
Period size: 151 Copynumber: 3.6 Consensus size: 151
13823844 ATCCGTTGTG
*
13823854 AGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * * * ** *
13823919 ATTAAGTGTAGGCTACTATGCATACCCGTTAACTTCAATCACATGTGTAGTACTAAGTACAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
*
13823984 ACTACGTGTATCAGACGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
13824005 ATTCATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGGTAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
*
13824070 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTGGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
*
13824135 ACTACGTATATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* * *
13824156 AGTCACGTGTGTAGTACTAAGTGCTGGCTACTATGTGTACCAGATTGGTAGGTCGCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
* * *
13824221 AATAAGTGCAAGCTACTATGCGTACCCGTTAACTTCGATCTTGTGTGTAGTACTAAGTGCAGGCT
66 ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
13824286 ACTACGTGTATCAGATGGTTA
131 ACTACGTGTATCAGATGGTTA
* ** * **
13824307 AGTCACATGTGTAGTACTAAGTGCAGGCTACTATATGTACCAGATTAATAGGTATCATGTGTAGT
1 AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
13824372 ACTAAGTGCAGGCTACTATGCGTACC
66 ACTAAGTGCAGGCTACTATGCGTACC
13824398 AAGGAGCTTC
Statistics
Matches: 361, Mismatches: 32, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
151 361 1.00
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (151 bp):
AGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGATAGGTCGCATGTGTAGT
ACTAAGTGCAGGCTACTATGCGTACCCGTTAACTTCGATCATGTGTGTAGTACTAAGTGCAGGCT
ACTACGTGTATCAGATGGTTA
Done.