Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 65 of 144
Found at i:14088574 original size:48 final size:47
Alignment explanation
Indices: 14088442--14088582 Score: 149
Period size: 46 Copynumber: 3.0 Consensus size: 47
14088432 ATGAGATCCC
* * * * *
14088442 TTTTTTGTTGCACGTTGTTTCAAAGGCCTAGTTGTAAAGTTTATTTTCA
1 TTTTTT-TTGCA-TTTGTTTCAAAGGTCTAGTTGTGAGGTTCATTTTCA
* ** *
14088491 TTTTTGTTGCATTT-TTTCAAAGGTCTAGTAATGAGGTTCGTTTTCA
1 TTTTTTTTGCATTTGTTTCAAAGGTCTAGTTGTGAGGTTCATTTTCA
* *
14088537 TTTTTTTTGCATTTTGTTTCAGAGGTCTAGTTGTGAGGTCCATTTT
1 TTTTTTTTGCA-TTTGTTTCAAAGGTCTAGTTGTGAGGTTCATTTT
14088583 TGCTCCACTT
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
46 35 0.47
47 5 0.07
48 30 0.40
49 5 0.07
ACGTcount: A:0.18, C:0.11, G:0.20, T:0.51
Consensus pattern (47 bp):
TTTTTTTTGCATTTGTTTCAAAGGTCTAGTTGTGAGGTTCATTTTCA
Found at i:14088610 original size:16 final size:17
Alignment explanation
Indices: 14088577--14088615 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14088567 TTGTGAGGTC
14088577 CATTTTTGCTCCACTTT
1 CATTTTTGCTCCACTTT
* *
14088594 CATTTTTGTTGCA-TTT
1 CATTTTTGCTCCACTTT
14088610 CATTTT
1 CATTTT
14088616 AGAGGTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.13, C:0.21, G:0.08, T:0.59
Consensus pattern (17 bp):
CATTTTTGCTCCACTTT
Found at i:14088689 original size:58 final size:56
Alignment explanation
Indices: 14088613--14088804 Score: 176
Period size: 58 Copynumber: 3.4 Consensus size: 56
14088603 TGCATTTCAT
* * *
14088613 TTTAGAGGTCTAGATGTGAGGTCCAGTTTCATTTCATTTTTGTCTATGTTTCATTCTG
1 TTTAGAGGCCTAGTTGTGAGGTCCAATTTCATTTCATTTTTGT-TATGTTTCATT-TG
* ***
14088671 TTTAGAGGCCTAGTTGTGAGGTCCAATTTCATTTTCATTTGTGTTGCATTTCA--T-
1 TTTAGAGGCCTAGTTGTGAGGTCCAATTTCA-TTTCATTTTTGTTATGTTTCATTTG
* * * **
14088725 TTTAGAGGCCTAATTATGAGGTTCAATTAAATTTCATTTTCAT-TTATGTTTCATTATG
1 TTTAGAGGCCTAGTTGTGAGGTCCAATTTCATTTCATTTT--TGTTATGTTTCATT-TG
* *
14088783 TTTAGAGACTTAGTTGTGAGGT
1 TTTAGAGGCCTAGTTGTGAGGT
14088805 TTGTTTTCAT
Statistics
Matches: 107, Mismatches: 20, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
53 8 0.07
54 33 0.31
55 2 0.02
57 1 0.01
58 52 0.49
59 11 0.10
ACGTcount: A:0.21, C:0.12, G:0.20, T:0.47
Consensus pattern (56 bp):
TTTAGAGGCCTAGTTGTGAGGTCCAATTTCATTTCATTTTTGTTATGTTTCATTTG
Found at i:14088716 original size:112 final size:115
Alignment explanation
Indices: 14088546--14088804 Score: 301
Period size: 112 Copynumber: 2.3 Consensus size: 115
14088536 ATTTTTTTTG
* * * *
14088546 CATTTTGTTTCAGAGGTCTAGTTGTGAGGTCCATTTTTGCTCCACTTTCATTTTTGTTGCATTTC
1 CATTATGTTT-AGAGGCCTAGTTGTGAGGTCCA-TATT-CTCCACTTTCATTTGTGTTGCATTTC
* * * ** **
14088611 ATTTTAGAGGTCTAGA-TGTGAGGTCCAGTTTCATTTCATTTTTGTCTATGTTT
63 ATTTTAGAGGCCTA-ATTATGAGGTCCAATTAAATTTCATTTTCATCTATGTTT
* *
14088664 CATTCTGTTTAGAGGCCTAGTTGTGAGGTCCA-ATT-T-CATTTTCATTTGTGTTGCATTTCATT
1 CATTATGTTTAGAGGCCTAGTTGTGAGGTCCATATTCTCCACTTTCATTTGTGTTGCATTTCATT
* *
14088726 TTAGAGGCCTAATTATGAGGTTCAATTAAATTTCATTTTCATTTATGTTT
66 TTAGAGGCCTAATTATGAGGTCCAATTAAATTTCATTTTCATCTATGTTT
* *
14088776 CATTATGTTTAGAGACTTAGTTGTGAGGT
1 CATTATGTTTAGAGGCCTAGTTGTGAGGT
14088805 TTGTTTTCAT
Statistics
Matches: 123, Mismatches: 17, Indels: 8
0.83 0.11 0.05
Matches are distributed among these distances:
111 1 0.01
112 89 0.72
113 1 0.01
115 2 0.02
117 21 0.17
118 9 0.07
ACGTcount: A:0.20, C:0.14, G:0.19, T:0.47
Consensus pattern (115 bp):
CATTATGTTTAGAGGCCTAGTTGTGAGGTCCATATTCTCCACTTTCATTTGTGTTGCATTTCATT
TTAGAGGCCTAATTATGAGGTCCAATTAAATTTCATTTTCATCTATGTTT
Found at i:14099900 original size:3 final size:3
Alignment explanation
Indices: 14099892--14099916 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14099882 TTAATATTTG
14099892 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
14099917 AATTTATATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14100884 original size:31 final size:30
Alignment explanation
Indices: 14100849--14100944 Score: 74
Period size: 31 Copynumber: 3.2 Consensus size: 30
14100839 CAGTTTAGAT
14100849 TTTAATGTCCTTAGAATTAATTTAGGTTGGA
1 TTTAAT-TCCTTAGAATTAATTTAGGTTGGA
** * *
14100880 TTTAAATT--TTAG-ATTTTTCTTGGGTT-TA
1 TTT-AATTCCTTAGAATTAAT-TTAGGTTGGA
*
14100908 TTTTAATATCCTTAGAATTAATTTAAGTTGGA
1 -TTTAAT-TCCTTAGAATTAATTTAGGTTGGA
14100940 TTTAA
1 TTTAA
14100945 ACTTTATATT
Statistics
Matches: 48, Mismatches: 9, Indels: 16
0.66 0.12 0.22
Matches are distributed among these distances:
28 8 0.17
29 14 0.29
31 18 0.38
32 8 0.17
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (30 bp):
TTTAATTCCTTAGAATTAATTTAGGTTGGA
Found at i:14100892 original size:29 final size:29
Alignment explanation
Indices: 14100859--14100950 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
14100849 TTTAATGTCC
14100859 TTAGAATTAATTTAGGTTGGATTTAAATT
1 TTAGAATTAATTTAGGTTGGATTTAAATT
** * * *
14100888 TTAG-ATTTTTCTTGGGTT-TATTTTAATATCC
1 TTAGAATTAAT-TTAGGTTGGA-TTTAA-AT-T
* *
14100919 TTAGAATTAATTTAAGTTGGATTTAAACT
1 TTAGAATTAATTTAGGTTGGATTTAAATT
14100948 TTA
1 TTA
14100951 TATTTGTCTT
Statistics
Matches: 45, Mismatches: 12, Indels: 12
0.65 0.17 0.17
Matches are distributed among these distances:
28 5 0.11
29 18 0.40
30 3 0.07
31 14 0.31
32 5 0.11
ACGTcount: A:0.30, C:0.04, G:0.14, T:0.51
Consensus pattern (29 bp):
TTAGAATTAATTTAGGTTGGATTTAAATT
Found at i:14100920 original size:60 final size:60
Alignment explanation
Indices: 14100847--14100960 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
14100837 CTCAGTTTAG
* * * *
14100847 ATTTTAATGTCCTTAGAATTAATTTAGGTTGGATTTAAATTTTAGATTTTTCTTGGGTTT
1 ATTTTAATATCCTTAGAATTAATTTAAGTTGGATTTAAACTTTAGATTTGTCTTGGGTTT
*
14100907 ATTTTAATATCCTTAGAATTAATTTAAGTTGGATTTAAACTTTATATTTGTCTT
1 ATTTTAATATCCTTAGAATTAATTTAAGTTGGATTTAAACTTTAGATTTGTCTT
14100961 AGGATTTTCT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.28, C:0.06, G:0.13, T:0.53
Consensus pattern (60 bp):
ATTTTAATATCCTTAGAATTAATTTAAGTTGGATTTAAACTTTAGATTTGTCTTGGGTTT
Found at i:14101246 original size:17 final size:19
Alignment explanation
Indices: 14101224--14101267 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 19
14101214 AAAATAAATT
14101224 TTAGATTTTTAA-TTT-AA
1 TTAGATTTTTAAGTTTAAA
14101241 TTAGA-TTTTAAGTTTAAA
1 TTAGATTTTTAAGTTTAAA
*
14101259 TTATATTTT
1 TTAGATTTT
14101268 ATATTTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 6 0.26
17 8 0.35
18 6 0.26
19 3 0.13
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TTAGATTTTTAAGTTTAAA
Found at i:14101266 original size:18 final size:16
Alignment explanation
Indices: 14101224--14101273 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
14101214 AAAATAAATT
14101224 TTAGATTTTTAATTTAA
1 TTAGA-TTTTAATTTAA
14101241 TTAGATTTTAAGTTTAAA
1 TTAGATTTTAA-TTT-AA
*
14101259 TTATATTTTATATTT
1 TTAGATTTTA-ATTT
14101274 TTTTAAGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 6 0.21
17 8 0.28
18 14 0.48
19 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (16 bp):
TTAGATTTTAATTTAA
Found at i:14101356 original size:43 final size:42
Alignment explanation
Indices: 14101292--14101405 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 42
14101282 GCAGTTAAAT
*
14101292 TTTAAATTTAAATTAG-GTTTCATACTTTTAAATTCAATTAGA
1 TTTAAATTTAAATTAGTTTTTCATA-TTTTAAATTCAATTAGA
* * * * *
14101334 TTTAATTTTAAATTAGTTTTTCAGAATTTTAATTTTAATTATA
1 TTTAAATTTAAATTAGTTTTTCA-TATTTTAAATTCAATTAGA
*
14101377 TTCAAATTTAAATTAGTTTTT-ATATTTTA
1 TTTAAATTTAAATTAGTTTTTCATATTTTA
14101406 TTTTGAGTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
41 6 0.10
42 16 0.26
43 38 0.62
44 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.05, T:0.54
Consensus pattern (42 bp):
TTTAAATTTAAATTAGTTTTTCATATTTTAAATTCAATTAGA
Found at i:14103376 original size:21 final size:22
Alignment explanation
Indices: 14103336--14103376 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14103326 ATTACCTCGA
*
14103336 TTTTTAAAAATAATTTATGTAT
1 TTTTTAAAAATAATTAATGTAT
14103358 TTTTTAAAAAT-ATTAATGT
1 TTTTTAAAAATAATTAATGT
14103377 GCCATGCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (22 bp):
TTTTTAAAAATAATTAATGTAT
Found at i:14103641 original size:30 final size:30
Alignment explanation
Indices: 14103584--14103643 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
14103574 AAATCTAACA
*
14103584 TAATTAAATTAAAAACAAAATAAATAAATG
1 TAATTAAATTAAAAACAAAAGAAATAAATG
14103614 TAATTAAA-TAAAAA-AATAAGAATATAAATG
1 TAATTAAATTAAAAACAA-AAGAA-ATAAATG
14103644 GCAAAAAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
28 2 0.07
29 10 0.37
30 15 0.56
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (30 bp):
TAATTAAATTAAAAACAAAAGAAATAAATG
Found at i:14103689 original size:15 final size:14
Alignment explanation
Indices: 14103659--14103776 Score: 60
Period size: 14 Copynumber: 8.1 Consensus size: 14
14103649 AAGCAACAAG
*
14103659 TAAAT-AAAATACA
1 TAAATAAAAATAAA
14103672 TAAATAAACAATAAA
1 TAAATAAA-AATAAA
*
14103687 TAAATAAAATTAAA
1 TAAATAAAAATAAA
*** ** *
14103701 TAAAGGCAAGGATA
1 TAAATAAAAATAAA
14103715 TAAATAGCAATAA-AAA
1 TAAATA--AA-AATAAA
14103731 TAAATAACAAATAAA
1 TAAATAA-AAATAAA
* * * *
14103746 AAAAGAACAACAAA
1 TAAATAAAAATAAA
14103760 TAAATAAAAATTAAA
1 TAAATAAAAA-TAAA
14103775 TA
1 TA
14103777 CCAAATAAAT
Statistics
Matches: 76, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
13 5 0.07
14 34 0.45
15 27 0.36
16 9 0.12
17 1 0.01
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.19
Consensus pattern (14 bp):
TAAATAAAAATAAA
Found at i:14103735 original size:16 final size:17
Alignment explanation
Indices: 14103714--14103763 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
14103704 AGGCAAGGAT
*
14103714 ATAAATAGC-AATAAAA
1 ATAAATAACAAATAAAA
14103730 ATAAATAACAAATAAAA
1 ATAAATAACAAATAAAA
* *
14103747 AAAGAACAACAAATAAA
1 ATA-AATAACAAATAAA
14103764 TAAAAATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 8 0.28
17 9 0.31
18 12 0.41
ACGTcount: A:0.74, C:0.08, G:0.04, T:0.14
Consensus pattern (17 bp):
ATAAATAACAAATAAAA
Found at i:14103744 original size:11 final size:10
Alignment explanation
Indices: 14103723--14103802 Score: 53
Period size: 11 Copynumber: 8.1 Consensus size: 10
14103713 TATAAATAGC
14103723 AATAAAAATA
1 AATAAAAATA
14103733 AATAACAAATA
1 AATAA-AAATA
14103744 AA-AAAAGA-A
1 AATAAAA-ATA
* *
14103753 CA-ACAAATA
1 AATAAAAATA
14103762 AATAAAAATTA
1 AATAAAAA-TA
*
14103773 AATACCAAATA
1 AATA-AAAATA
14103784 AAT-AAAAT-
1 AATAAAAATA
*
14103792 AATACAAATA
1 AATAAAAATA
14103802 A
1 A
14103803 TGAAAACTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 16
0.71 0.09 0.21
Matches are distributed among these distances:
8 4 0.07
9 17 0.31
10 13 0.24
11 18 0.33
12 3 0.05
ACGTcount: A:0.74, C:0.07, G:0.01, T:0.17
Consensus pattern (10 bp):
AATAAAAATA
Found at i:14103799 original size:18 final size:19
Alignment explanation
Indices: 14103727--14103802 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 19
14103717 AATAGCAATA
14103727 AAAATAAATAACAAATAAA-
1 AAAATAAAT-ACAAATAAAT
*
14103746 AAAAGAACA-ACAAATAAAT
1 AAAATAA-ATACAAATAAAT
14103765 AAAAATTAAATACCAAATAAAT
1 -AAAA-TAAATA-CAAATAAAT
14103787 AAAAT-AATACAAATAA
1 AAAATAAATACAAATAA
14103803 TGAAAACTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
18 16 0.33
19 10 0.20
20 7 0.14
21 7 0.14
22 9 0.18
ACGTcount: A:0.74, C:0.08, G:0.01, T:0.17
Consensus pattern (19 bp):
AAAATAAATACAAATAAAT
Found at i:14104517 original size:21 final size:21
Alignment explanation
Indices: 14104479--14104520 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14104469 TTACCTTTTC
*
14104479 TTAAGTTAAAAGTCAAAACTA
1 TTAAGTTAAAAATCAAAACTA
14104500 TTAAGTTAAAACAT-AAAACTA
1 TTAAGTTAAAA-ATCAAAACTA
14104521 CGTCATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.55, C:0.10, G:0.07, T:0.29
Consensus pattern (21 bp):
TTAAGTTAAAAATCAAAACTA
Found at i:14105707 original size:12 final size:12
Alignment explanation
Indices: 14105687--14105728 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
14105677 TTCAAAATGG
*
14105687 ATTTATTTTATT
1 ATTTGTTTTATT
14105699 ATTTGTTTTATT
1 ATTTGTTTTATT
*
14105711 ATTT-ATTTA-T
1 ATTTGTTTTATT
14105721 ATTTGTTT
1 ATTTGTTT
14105729 GAGTTTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 5 0.19
11 6 0.23
12 15 0.58
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (12 bp):
ATTTGTTTTATT
Found at i:14107293 original size:12 final size:11
Alignment explanation
Indices: 14107279--14107321 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
14107269 TTAGTCCCTT
*
14107279 TTTTAAATTTA
1 TTTTAAATATA
*
14107290 TTTTAATATGTA
1 TTTTAA-ATATA
14107302 TTTTAAATATA
1 TTTTAAATATA
14107313 TTTTTAAAT
1 -TTTTAAAT
14107322 CTTTTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
11 10 0.36
12 18 0.64
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTAAATATA
Found at i:14107353 original size:27 final size:28
Alignment explanation
Indices: 14107323--14107381 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
14107313 TTTTTAAATC
14107323 TTTTGATTTTTTT-AAATGTAATCACTG
1 TTTTGATTTTTTTAAAATGTAATCACTG
*
14107350 TTTTGATTTTTTTAAAATTTAATCACTG
1 TTTTGATTTTTTTAAAATGTAATCACTG
14107378 TTTT
1 TTTT
14107382 TGTTTTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 13 0.43
28 17 0.57
ACGTcount: A:0.25, C:0.07, G:0.08, T:0.59
Consensus pattern (28 bp):
TTTTGATTTTTTTAAAATGTAATCACTG
Found at i:14111257 original size:7 final size:7
Alignment explanation
Indices: 14111245--14111269 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14111235 TAATAAGCCC
14111245 AATTTTA
1 AATTTTA
14111252 AATTTTA
1 AATTTTA
14111259 AATTTTA
1 AATTTTA
14111266 AATT
1 AATT
14111270 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:14111283 original size:16 final size:15
Alignment explanation
Indices: 14111248--14111291 Score: 54
Period size: 16 Copynumber: 2.9 Consensus size: 15
14111238 TAAGCCCAAT
* *
14111248 TTTAAA-TTTTAAAT
1 TTTAAATTTTTTAAG
14111262 TTTAAATTATTTTAAG
1 TTTAAATT-TTTTAAG
14111278 TTTAAATTTTTTAA
1 TTTAAATTTTTTAA
14111292 AAAATTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 6 0.23
15 7 0.27
16 13 0.50
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (15 bp):
TTTAAATTTTTTAAG
Found at i:14111325 original size:17 final size:17
Alignment explanation
Indices: 14111305--14111339 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
14111295 ATTTAAACTA
*
14111305 ATTTTGAGTCTAAATTT
1 ATTTTGAATCTAAATTT
*
14111322 ATTTTGAATTTAAATTT
1 ATTTTGAATCTAAATTT
14111339 A
1 A
14111340 AAATTTAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.09, T:0.54
Consensus pattern (17 bp):
ATTTTGAATCTAAATTT
Found at i:14111862 original size:7 final size:7
Alignment explanation
Indices: 14111850--14111897 Score: 51
Period size: 7 Copynumber: 6.6 Consensus size: 7
14111840 TAATACACCA
14111850 ATTTATT
1 ATTTATT
14111857 ATTTATT
1 ATTTATT
*
14111864 ATATATT
1 ATTTATT
*
14111871 AATATACTT
1 -ATTTA-TT
*
14111880 ATTAATT
1 ATTTATT
14111887 ATTTATT
1 ATTTATT
14111894 ATTT
1 ATTT
14111898 CTTACGAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 25 0.71
8 8 0.23
9 2 0.06
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTATT
Found at i:14111874 original size:30 final size:30
Alignment explanation
Indices: 14111838--14111895 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14111828 GTTTTTTTAC
*
14111838 ATTAATACACCAATTTATTATTTATTATAT
1 ATTAATACACCAATTAATTATTTATTATAT
* **
14111868 ATTAATATACTTATTAATTATTTATTAT
1 ATTAATACACCAATTAATTATTTATTAT
14111896 TTCTTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (30 bp):
ATTAATACACCAATTAATTATTTATTATAT
Found at i:14112953 original size:30 final size:30
Alignment explanation
Indices: 14112919--14113091 Score: 142
Period size: 30 Copynumber: 5.8 Consensus size: 30
14112909 AAGATCCCTG
* *
14112919 AACTTTCCAAAAATTATATTTTGACCCTTA
1 AACTTTCCAAAAATTACATTTTGACCCTCA
* *
14112949 AACTTTGCAAAAATTACATTTAGACCC-CA
1 AACTTTCCAAAAATTACATTTTGACCCTCA
* *
14112978 AACTTCTCC-AAAATTACATTTTAACCCTTA
1 AACTT-TCCAAAAATTACATTTTGACCCTCA
* *
14113008 AAC-TTCTCAAAAATCACATTTTTG-CCCCCA
1 AACTTTC-CAAAAATTACA-TTTTGACCCTCA
* *
14113038 AACTATCCAAAAATTACCATTTTTGACCC-CG
1 AACTTTCCAAAAATTA-CA-TTTTGACCCTCA
**
14113069 AGTTTTCC-AAAATTACCATTTTG
1 AACTTTCCAAAAATTA-CATTTTG
14113092 CCTTCAAGCA
Statistics
Matches: 117, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
28 2 0.02
29 29 0.25
30 63 0.54
31 20 0.17
32 3 0.03
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.34
Consensus pattern (30 bp):
AACTTTCCAAAAATTACATTTTGACCCTCA
Found at i:14113011 original size:59 final size:60
Alignment explanation
Indices: 14112919--14113060 Score: 166
Period size: 59 Copynumber: 2.4 Consensus size: 60
14112909 AAGATCCCTG
* * *
14112919 AACTT-TCCAAAAATTATATTTTGACCCTTAAACTT-TGCAAAAATTACA-TTTAGACCCCA
1 AACTTCTCC-AAAATTACATTTTAACCCTTAAACTTCT-CAAAAATCACATTTTAGACCCCA
* *
14112978 AACTTCTCCAAAATTACATTTTAACCCTTAAACTTCTCAAAAATCACATTTTTGCCCCCA
1 AACTTCTCCAAAATTACATTTTAACCCTTAAACTTCTCAAAAATCACATTTTAGACCCCA
*
14113038 AACTATC-CAAAAATTACCATTTT
1 AACT-TCTCCAAAATTA-CATTTT
14113061 TGACCCCGAG
Statistics
Matches: 72, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
59 39 0.54
60 25 0.35
61 8 0.11
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.34
Consensus pattern (60 bp):
AACTTCTCCAAAATTACATTTTAACCCTTAAACTTCTCAAAAATCACATTTTAGACCCCA
Found at i:14113149 original size:29 final size:29
Alignment explanation
Indices: 14113074--14113155 Score: 87
Period size: 29 Copynumber: 2.8 Consensus size: 29
14113064 CCCCGAGTTT
* *
14113074 TCCAAAATTACCATTTTG-CCTTCAAGCA
1 TCCAAAATTACCATTTTGCCCCTGAAGCA
**
14113102 TCCAAAATTTGCATCTTTGCCCCTGAA-CA
1 TCCAAAATTACCAT-TTTGCCCCTGAAGCA
*
14113131 TCCGAAAATTACCATTTTGCTCCTG
1 TCC-AAAATTACCATTTTGCCCCTG
14113156 GGTGTCCCAA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
28 12 0.27
29 18 0.41
30 14 0.32
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (29 bp):
TCCAAAATTACCATTTTGCCCCTGAAGCA
Found at i:14118180 original size:23 final size:23
Alignment explanation
Indices: 14118139--14118195 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
14118129 GGATTCAACG
*
14118139 AAGAAAAAAATAAATAAAAAGAA
1 AAGAAAAAAATAAAGAAAAAGAA
14118162 AAGAAAGAAAA-AAAGAAAAAGAA
1 AAGAAA-AAAATAAAGAAAAAGAA
*
14118185 AATAGAAAAAA
1 AAGA-AAAAAA
14118196 CGGGAAAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.80
24 6 0.20
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (23 bp):
AAGAAAAAAATAAAGAAAAAGAA
Found at i:14118191 original size:7 final size:6
Alignment explanation
Indices: 14118139--14118194 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
14118129 GGATTCAACG
*
14118139 AAGAAA AA-AATA AATAAA AAG-AA AAGAAA GAA-AAA AAGAAA AAGAAA
1 AAGAAA AAGAA-A AAGAAA AAGAAA AAGAAA -AAGAAA AAGAAA AAGAAA
14118186 ATAGAAA AA
1 A-AGAAA AA
14118195 ACGGGAAAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
5 9 0.21
6 24 0.56
7 10 0.23
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (6 bp):
AAGAAA
Found at i:14119275 original size:51 final size:50
Alignment explanation
Indices: 14119098--14119284 Score: 173
Period size: 50 Copynumber: 3.7 Consensus size: 50
14119088 AGGTTTGACT
* ** * * * *
14119098 GGGAAAGGTTGAGACTGCAACGGCGAACTCAG-TACCTAAGAAGATGTGAT
1 GGGAAAGGTTGAGGCCACAACGGCGAA-TCCGATACCTAAAAAGATGTAAA
* * * * *
14119148 GGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCATGAAGAGATG-ACA
1 GGGAAAGGTTGAGGCCACAACGGCGAATCCGATACC-TAAAAAGATGTAAA
* *
14119198 GGG-GAGGATTAAGGCCACAACGGCGAATCCGATACCTTAAAAAGATGTAAA
1 GGGAAAGG-TTGAGGCCACAACGGCGAATCCGATACC-TAAAAAGATGTAAA
* *
14119249 GGGAAAGGTTGAGGTCGCAACGGCGAATCCGATACC
1 GGGAAAGGTTGAGGCCACAACGGCGAATCCGATACC
14119285 ATGAAGACAG
Statistics
Matches: 108, Mismatches: 24, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
49 4 0.04
50 64 0.59
51 37 0.34
52 3 0.03
ACGTcount: A:0.35, C:0.19, G:0.31, T:0.14
Consensus pattern (50 bp):
GGGAAAGGTTGAGGCCACAACGGCGAATCCGATACCTAAAAAGATGTAAA
Found at i:14119342 original size:101 final size:101
Alignment explanation
Indices: 14119138--14119342 Score: 227
Period size: 101 Copynumber: 2.0 Consensus size: 101
14119128 AGTACCTAAG
* * * * *
14119138 AAGATGTGATGGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCATGAAGAGATGACAGGGGA
1 AAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCATGAAGACATGAAAGGGAA
* * * *
14119203 GGATTAAGGCCACAACGGCGAATCCGATACCTTAAA
66 AGATTAAGGCCACAACGGCGAAACCAACACCTTAAA
* * * *
14119239 AAGATGTAAAGGGAAAGGTTGAGGTCGCAACGGCGAATCCGATACCATGAAGACA-GAAAGGGAA
1 AAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCATGAAGACATGAAAGGGAA
* *
14119303 A-AGTTTAGGCCACAATGGC-AAACCTAACACCTTAGAA
66 AGA-TTAAGGCCACAACGGCGAAACC-AACACCTTA-AA
14119340 AAG
1 AAG
14119343 TGACGGGAAA
Statistics
Matches: 86, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
99 5 0.06
100 28 0.33
101 53 0.62
ACGTcount: A:0.39, C:0.19, G:0.28, T:0.14
Consensus pattern (101 bp):
AAGATGTAAAGGGAAAGGTTGAGGCCACAACGGCGAACCCAATACCATGAAGACATGAAAGGGAA
AGATTAAGGCCACAACGGCGAAACCAACACCTTAAA
Found at i:14119624 original size:38 final size:38
Alignment explanation
Indices: 14119582--14119663 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 38
14119572 TAATCAAGAA
* * *
14119582 GGGCAGAATGAAGATT-CCGATCTCTTACCCCGAGCTTG
1 GGGCAG-ATGAACATTACCAATCTCTTACCCCGAGCCTG
* *
14119620 GGGCAGATTACCATTAGCCAATCTCTTACCCCGAGCCTG
1 GGGCAGATGAACATTA-CCAATCTCTTACCCCGAGCCTG
14119659 GGGCA
1 GGGCA
14119664 AATTACAGCA
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
37 6 0.16
38 6 0.16
39 25 0.68
ACGTcount: A:0.23, C:0.29, G:0.26, T:0.22
Consensus pattern (38 bp):
GGGCAGATGAACATTACCAATCTCTTACCCCGAGCCTG
Found at i:14119831 original size:38 final size:39
Alignment explanation
Indices: 14119713--14119832 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 39
14119703 TCACCATCAG
* * *
14119713 CCAATCTCTTATCCTGAGCC-TAGGGCAGATTGCAGTTAT
1 CCAATCTCTTACCCCGA-CCATGGGGCAGATTGCAGTTAT
* * * * ** **
14119752 TCGATCTTTTACCCCTACCATGGGGCAGATCACAGCCAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATTGCAGTTAT
14119791 CCAATCTCTTA-CCCGACCATGGGGCAGATTGCAGTTAT
1 CCAATCTCTTACCCCGACCATGGGGCAGATTGCAGTTAT
14119829 CCAA
1 CCAA
14119833 AACAATAAAA
Statistics
Matches: 61, Mismatches: 19, Indels: 3
0.73 0.23 0.04
Matches are distributed among these distances:
38 28 0.46
39 33 0.54
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (39 bp):
CCAATCTCTTACCCCGACCATGGGGCAGATTGCAGTTAT
Found at i:14120661 original size:7 final size:7
Alignment explanation
Indices: 14120649--14120673 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14120639 TAATAAACCC
14120649 AATTTTA
1 AATTTTA
14120656 AATTTTA
1 AATTTTA
14120663 AATTTTA
1 AATTTTA
14120670 AATT
1 AATT
14120674 ATTTTAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (7 bp):
AATTTTA
Found at i:14120679 original size:17 final size:17
Alignment explanation
Indices: 14120657--14120759 Score: 145
Period size: 17 Copynumber: 6.1 Consensus size: 17
14120647 CCAATTTTAA
14120657 ATTTTAAATTTTAAA-TT
1 ATTTTAAA-TTTAAATTT
*
14120674 ATTTTAAGTTTAAATTT
1 ATTTTAAATTTAAATTT
*
14120691 ATTTTAAATTTAAACTT
1 ATTTTAAATTTAAATTT
* *
14120708 ATTTTGAGTTTAAATTT
1 ATTTTAAATTTAAATTT
14120725 ATTTTAAATTTAAATTT
1 ATTTTAAATTTAAATTT
*
14120742 ATTTTGAATTTAAATTT
1 ATTTTAAATTTAAATTT
14120759 A
1 A
14120760 AAATTTAATC
Statistics
Matches: 76, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
16 6 0.08
17 70 0.92
ACGTcount: A:0.38, C:0.01, G:0.04, T:0.57
Consensus pattern (17 bp):
ATTTTAAATTTAAATTT
Found at i:14120691 original size:6 final size:6
Alignment explanation
Indices: 14120652--14120767 Score: 73
Period size: 6 Copynumber: 19.8 Consensus size: 6
14120642 TAAACCCAAT
* * *
14120652 TTTAAA TTTTAAA TTTTAAA -TT-AT TTTAAG TTTAAA TTT-AT TTTAAA
1 TTTAAA -TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * * * * *
14120699 TTTAAA CTT-AT TTTGAG TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
14120744 TTTGAA TTTAAA TTTAAAA TTTAA
1 TTTAAA TTTAAA TTT-AAA TTTAA
14120768 TCAATGTCCA
Statistics
Matches: 86, Mismatches: 16, Indels: 15
0.74 0.14 0.13
Matches are distributed among these distances:
4 1 0.01
5 19 0.22
6 47 0.55
7 19 0.22
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:14120742 original size:23 final size:23
Alignment explanation
Indices: 14120650--14120766 Score: 71
Period size: 23 Copynumber: 5.0 Consensus size: 23
14120640 AATAAACCCA
14120650 ATTTTAAATTTTAAATTTTAAA-TT
1 ATTTTAAA-TTTAAA-TTTAAATTT
* *
14120674 ATTTTAAGTTTAAATTT-ATTTT
1 ATTTTAAATTTAAATTTAAATTT
* * * * *
14120696 AAATTTAAACTT-ATTTTGAGTTT
1 -ATTTTAAATTTAAATTTAAATTT
* *
14120719 AAATTT-ATTTTAAATTTAAATTT
1 -ATTTTAAATTTAAATTTAAATTT
*
14120742 ATTTTGAATTTAAATTTAAAATTT
1 ATTTTAAATTTAAATTT-AAATTT
14120766 A
1 A
14120767 ATCAATGTCC
Statistics
Matches: 73, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
21 1 0.01
22 16 0.22
23 42 0.58
24 14 0.19
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.56
Consensus pattern (23 bp):
ATTTTAAATTTAAATTTAAATTT
Found at i:14122047 original size:29 final size:30
Alignment explanation
Indices: 14122014--14122073 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
14122004 CCTTTCTAAT
14122014 ATTTTAATTT-ATTTTAAATTT-GTCCATTA
1 ATTTT-ATTTCATTTTAAATTTAGTCCATTA
* *
14122043 ATTTTATTTCATTTTCAATTTAGTCCTTTA
1 ATTTTATTTCATTTTAAATTTAGTCCATTA
14122073 A
1 A
14122074 CATTTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 4 0.15
29 15 0.56
30 8 0.30
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.58
Consensus pattern (30 bp):
ATTTTATTTCATTTTAAATTTAGTCCATTA
Found at i:14122373 original size:29 final size:29
Alignment explanation
Indices: 14122296--14122442 Score: 156
Period size: 29 Copynumber: 4.9 Consensus size: 29
14122286 TCCAGAAGGT
* *
14122296 CCCTAAACTTTCCAAAAATTATATTTTTGA
1 CCCTAAACTTTCCAAAAATTACA-TTTTAA
14122326 CCCTTAAACTTTCCAAAAATTACATTTTAA
1 CCC-TAAACTTTCCAAAAATTACATTTTAA
14122356 CCCTAAACTTCTCC-AAAATTACATTTTAA
1 CCCTAAACTT-TCCAAAAATTACATTTTAA
* **
14122385 CCCTCAAAC-TTCTCAAAAATCACATTTTTG
1 CCCT-AAACTTTC-CAAAAATTACATTTTAA
*
14122415 CGCC-AAACTATCCAAAAATTACCATTTT
1 C-CCTAAACTTTCCAAAAATTA-CATTTT
14122443 TGACCTCGAG
Statistics
Matches: 102, Mismatches: 7, Indels: 16
0.82 0.06 0.13
Matches are distributed among these distances:
28 2 0.02
29 40 0.39
30 39 0.38
31 21 0.21
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (29 bp):
CCCTAAACTTTCCAAAAATTACATTTTAA
Found at i:14122410 original size:59 final size:60
Alignment explanation
Indices: 14122296--14122443 Score: 169
Period size: 59 Copynumber: 2.5 Consensus size: 60
14122286 TCCAGAAGGT
* * * *
14122296 CCCTAAACTTTCCAAAAATTATATTTTTGACCCTTAAACTTTCCAAAAATTACATTTTAA
1 CCCTAAACTTTCCAAAAATTACATTTTTAACCCTCAAACTTTCCAAAAATCACATTTTAA
**
14122356 CCCTAAACTTCTCC-AAAATTACA-TTTTAACCCTCAAAC-TTCTCAAAAATCACATTTTTG
1 CCCTAAACTT-TCCAAAAATTACATTTTTAACCCTCAAACTTTC-CAAAAATCACATTTTAA
*
14122415 CGCC-AAACTATCCAAAAATTACCATTTTT
1 C-CCTAAACTTTCCAAAAATTA-CATTTTT
14122444 GACCTCGAGT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
58 6 0.08
59 40 0.53
60 22 0.29
61 7 0.09
ACGTcount: A:0.37, C:0.26, G:0.02, T:0.35
Consensus pattern (60 bp):
CCCTAAACTTTCCAAAAATTACATTTTTAACCCTCAAACTTTCCAAAAATCACATTTTAA
Found at i:14122461 original size:29 final size:30
Alignment explanation
Indices: 14122424--14122499 Score: 102
Period size: 29 Copynumber: 2.6 Consensus size: 30
14122414 GCGCCAAACT
*
14122424 ATCCAAAAATTACCATTTTTGACCTCGAGT
1 ATCCAAAAATTACCATTTTTGACCTCGAGC
* * *
14122454 TTTC-AAAATTACCA-TTTTGCCCTCGAGC
1 ATCCAAAAATTACCATTTTTGACCTCGAGC
14122482 ATCCAAAAATTACCATTT
1 ATCCAAAAATTACCATTT
14122500 GCTCCCGAGT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
28 14 0.37
29 20 0.53
30 4 0.11
ACGTcount: A:0.33, C:0.25, G:0.08, T:0.34
Consensus pattern (30 bp):
ATCCAAAAATTACCATTTTTGACCTCGAGC
Found at i:14122480 original size:28 final size:28
Alignment explanation
Indices: 14122429--14122533 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 28
14122419 AAACTATCCA
* *
14122429 AAAATTACCATTTTTGACCTCGAGTTTTC
1 AAAATTACCA-TTTTGCCCTCGAGTTTCC
**
14122458 AAAATTACCATTTTGCCCTCGAGCATCC
1 AAAATTACCATTTTGCCCTCGAGTTTCC
*
14122486 AAAAATTACCA-TTTGCTCC-CGAGTGTCCC
1 -AAAATTACCATTTTGC-CCTCGAGT-TTCC
* *
14122515 AAAATTACCGTTTTACCCT
1 AAAATTACCATTTTGCCCT
14122534 TGGCATCTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
28 34 0.55
29 28 0.45
ACGTcount: A:0.29, C:0.28, G:0.10, T:0.33
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCTCGAGTTTCC
Found at i:14122516 original size:29 final size:28
Alignment explanation
Indices: 14122424--14122555 Score: 92
Period size: 28 Copynumber: 4.6 Consensus size: 28
14122414 GCGCCAAACT
* *
14122424 ATCCAAAAATTACCATTTTTGACCTCGAGT
1 ATCC-AAAATTACCA-TTTTGCCCTCGAGC
* *
14122454 TTTCAAAATTACCATTTTGCCCTCGAGC
1 ATCCAAAATTACCATTTTGCCCTCGAGC
*
14122482 ATCCAAAAATTACCA-TTTGCTCC-CGAGT
1 ATCC-AAAATTACCATTTTGC-CCTCGAGC
* * * *
14122510 GTCCCAAAATTACCGTTTTACCCTTG-GC
1 AT-CCAAAATTACCATTTTGCCCTCGAGC
*
14122538 ATCTAAAAATTA-CATTTT
1 ATC-CAAAATTACCATTTT
14122556 TGACTCCATT
Statistics
Matches: 81, Mismatches: 15, Indels: 15
0.73 0.14 0.14
Matches are distributed among these distances:
27 6 0.07
28 44 0.54
29 29 0.36
30 2 0.02
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (28 bp):
ATCCAAAATTACCATTTTGCCCTCGAGC
Found at i:14131809 original size:93 final size:93
Alignment explanation
Indices: 14131540--14132696 Score: 919
Period size: 93 Copynumber: 12.3 Consensus size: 93
14131530 ACATGTAGCA
* * * *
14131540 GATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCTTATATCCCTGAGTTA
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
* * ** * * *
14131605 TAGTGGATTGGATCAAATG-AGT-AA-TA
66 CAGTGGGTCAGATTAAA-GCAATGAAGTG
* * *
14131631 GATCTCAATGTCCCTGAAGTTACAGTGGAATAGAAG-GAAGTTACAACATCAAAT-CTCATACCC
1 GATCTCAATGTCCTTGAGGTTACAGTGGAAT-GGAGTGAAG---C-AC--CAAATCCT-ATACCC
*
14131694 CTGAGTTATAGTGGGTCAGATTAAAGCAATGAAGTG
58 CTGAGTTACAGTGGGTCAGATTAAAGCAATGAAGTG
* * * *
14131730 GATCTCAATGTCCTTGAAGTTATAGTGGAATGAAGTGAAGTACCAAATCCTATACCCCTGAGTTA
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
* **
14131795 CAGTGGGTCAGATTAAAGTAATGAAACG
66 CAGTGGGTCAGATTAAAGCAATGAAGTG
14131823 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGA-TGAAGCACCAAATCCTATACCCCTGAGTTA
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
* **
14131887 CAGTGGGTCGGATTAAAGCAATGAAGCA
66 CAGTGGGTCAGATTAAAGCAATGAAGTG
* * * * *
14131915 GATCTTAATGTCCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTGAGTTG
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
* * * *
14131980 CAGTGGAT-AGATCAAATG-AA--AAATT
66 CAGTGGGTCAGATTAAA-GCAATGAAGTG
* * * * *
14132005 GATCTCAATATCCCTGAGGTTACAGTGGAATGGAGAGAAGTTAAAACATCAAATCCCATACCCCC
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAG------CACCAAATCCTATA-CCCC
* * * *
14132070 TGAGTTACATTGAGTCGGATTAAAGCAATGAAGCG
59 TGAGTTACAGTGGGTCAGATTAAAGCAATGAAGTG
*
14132105 GATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
* *
14132170 CAGTGAGTTAGATTAAAGCAATGAAGTG
66 CAGTGGGTCAGATTAAAGCAATGAAGTG
* * *
14132198 GATCTCAATGTCCCTGAGGTTACAATGCAATGGAGTGAAGCACCAAATCCTATACCCCCTGAGTT
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATA-CCCCTGAGTT
** * * **
14132263 GTAGTGGGTCAAATTAAAGTAATGAAGCA
65 ACAGTGGGTCAGATTAAAGCAATGAAGTG
* * * * * * *
14132292 AATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTAAATTT
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCT-GAGTT
*
14132357 ACAGTGGATCAGATT-AA--AATG-AGTAACG
65 ACAGTGGGTCAGATTAAAGCAATGAAGT---G
* * * *
14132385 GATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGAGAAGTTA-C--A----ATACCCCTAAGTT
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAG-CACCAAATCCTATACCCCTGAGTT
** * * *
14132443 GTAGTGGGTCAGATTCAAA-CAACGAAATA
65 ACAGTGGGTCAGATT-AAAGCAATGAAGTG
* * * ** * *** *
14132472 GATCTCATTGTCCTTGAGGTTATAGTGGAATGGAGTGAAACTTCAAATCATATTTGCTTGAGGTT
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGA-GTT
* * * * *
14132537 ACAGTGAAGT-GGATCAAA--ATAGGTAA-TA
65 ACAGTG-GGTCAGATTAAAGCA-ATG-AAGTG
* * * *
14132565 GATCTCAATGTCCCTGAAGTTACAGTAGAATAGAGTGAAGTTACAATGCCAAATCCTATACCCCT
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAG---C-A--CCAAATCCTATACCCCT
* * **
14132630 GAAGTTGCAGTGGGTCAGATTGAAA-CAACGAAGCA
60 G-AGTTACAGTGGGTCAGATT-AAAGCAATGAAGTG
* * *
14132665 AATCTCAAAGTCCTTGAGGTTACAATGGAATG
1 GATCTCAATGTCCTTGAGGTTACAGTGGAATG
14132697 AAAAAAAGCT
Statistics
Matches: 860, Mismatches: 148, Indels: 107
0.77 0.13 0.10
Matches are distributed among these distances:
86 16 0.02
87 45 0.05
88 2 0.00
89 4 0.00
90 41 0.05
91 39 0.05
92 97 0.11
93 281 0.33
94 122 0.14
95 6 0.01
96 14 0.02
97 47 0.05
98 16 0.02
99 59 0.07
100 70 0.08
101 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (93 bp):
GATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTA
CAGTGGGTCAGATTAAAGCAATGAAGTG
Found at i:14132117 original size:190 final size:186
Alignment explanation
Indices: 14131536--14132696 Score: 1061
Period size: 190 Copynumber: 6.2 Consensus size: 186
14131526 TAAAACATGT
* *
14131536 AGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCTTATATCCCTGA
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCTGA
* * ** * * *
14131601 GTTATAGTGGATTGGATCAAATGAGTAATAGATCTCAATGTCCCTGAAGTTACAGTGGAATAGA-
66 GTTACAGTGGA-TAGATCAAATGAAAAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAG
* *
14131665 AGGAAGTTACAACATCAAATCTCATACCCCTGAGTTATAGTGGGTCAGATTAAAGCAATGA
130 A-GAAGTTAC-AC--CAAATCCCATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGA
** * * * * * *
14131726 AGTGGATCTCAATGTCCTTGAAGTTATAGTGGAATGAAGTGAAGTACCAAATCCTATACCCCTGA
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCTGA
* * * *
14131791 GTTACAGTGGGTCAGATTAAA-GTAATGAAACGGATCTCAATGTCCTTGAGGTTACAGTGGAATG
66 GTTACAGTGGAT-AGATCAAATG-AA--AAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATG
* * *
14131855 GA-TGAAG---CACCAAATCCTATACCCCTGAGTTACAGTGGGTCGGATTAAAGCAATGA
127 GAGAGAAGTTACACCAAATCCCATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGA
* *
14131911 AGCAGATCTTAATGTCCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTGA
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCTGA
* * *
14131976 GTTGCAGTGGATAGATCAAATGAAAAATTGATCTCAATATCCCTGAGGTTACAGTGGAATGGAGA
66 GTTACAGTGGATAGATCAAATGAAAAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGA
* * * *
14132041 GAAGTTAAAACATCAAATCCCATACCCCCTGAGTTACATTGAGTCGGATTAAAGCAATGA
131 GAAGTT---ACACCAAATCCCATA-CCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGA
* * * *
14132101 AGCGGATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGA
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCTGA
* * * * *
14132166 GTTACAGTGAGTTAGATTAAA-GCAATGAAGTGGATCTCAATGTCCCTGAGGTTACAATGCAATG
66 GTTACAGTG-GATAGATCAAATG-AA--AAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATG
* * ** * *
14132230 GAGTGAAG---CACCAAATCCTATACCCCCTGAGTTGTAGTGGGTCAAATTAAAGTAATGA
127 GAGAGAAGTTACACCAAATCCCATA-CCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGA
* * * *
14132288 AGCAAATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTAA
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCT-G
* * ** * * *
14132353 ATTTACAGTGGATCAGATTAAAATGAGTAACGGATCTCAATGTCCTTGAGGTTATAGTGGAATGG
65 AGTTACAGTGGAT-AGA-TCAAATGAAAAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATGG
* ** *
14132418 AGAGAAGTT--A-C--A----ATACCCCTAAGTTGTAGTGGGTCAGATTCAAA-CAACGA
128 AGAGAAGTTACACCAAATCCCATACCCCTGAGTTACAGTGGGTCAGATT-AAAGCAATGA
** * * * ** * * * * *
14132468 AATAGATCTCATTGTCCTTGAGGTTATAGTGGAATGGAGTGAAACTTCAAATCATATTTGCTTGA
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCTGA
* * ** * * * *
14132533 GGTTACAGTGAAGTGGATCAAAAT-AGGTAATAGATCTCAATGTCCCTGAAGTTACAGTAGAATA
66 -GTTACAGTGGA-TAGATC-AAATGA-AAAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATG
* * * *
14132597 GAGTGAAGTTACAATGCCAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAA-CAACGA
127 GAGAGAAGTTAC-A--CCAAATCCCATACCCCTG-AGTTACAGTGGGTCAGATT-AAAGCAATGA
* * *
14132661 AGCAAATCTCAAAGTCCTTGAGGTTACAATGGAATG
1 AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATG
14132697 AAAAAAAGCT
Statistics
Matches: 796, Mismatches: 134, Indels: 79
0.79 0.13 0.08
Matches are distributed among these distances:
179 3 0.00
180 130 0.16
181 7 0.01
182 35 0.04
183 5 0.01
184 9 0.01
185 109 0.14
186 1 0.00
187 139 0.17
188 15 0.02
189 19 0.02
190 173 0.22
191 15 0.02
192 41 0.05
193 95 0.12
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (186 bp):
AGCAGATCTCAATGTCCTTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCCTATATCCCTGA
GTTACAGTGGATAGATCAAATGAAAAATGGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGA
GAAGTTACACCAAATCCCATACCCCTGAGTTACAGTGGGTCAGATTAAAGCAATGA
Found at i:14132203 original size:375 final size:376
Alignment explanation
Indices: 14131536--14132427 Score: 1313
Period size: 375 Copynumber: 2.4 Consensus size: 376
14131526 TAAAACATGT
* *
14131536 AGCAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGTGAAGCACCAGATCTTATATCCCTGA
1 AGCAGATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTGA
* * * *
14131601 GTTATAGTGGATTGGATCAAATGAGTAATAGATCTCAATGTCCCTGAAGTTACAGTGGAATAGA-
66 GTTACAGTGGA-TAGATCAAATGAGTAATAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAG
* * * * *
14131665 AGGAAGTTACAACATCAAATCTCATACCCCTGAGTTATAGTGGGTCAGATTAAAGCAATGAAGTG
130 A-GAAGTTAAAACATCAAATCCCATACCCCTGAGTTACAGTGAGTCAGATTAAAGCAATGAAGCG
*
14131730 GATCTCAATGTCCTTGAAGTTATAGTGGAATGAAGTGAAGTACCAAATCCTATACCCCTGAGTTA
194 GATCTCAATGTCCTTGAAGTTATAGTGGAATGAAGTGAAGCACCAAATCCTATACCCCTGAGTTA
* * * * *
14131795 CAGTGGGTCAGATTAAAGTAATGAAACGGATCTCAATGTCCTTGAGGTTACAGTGGAATGGA-TG
259 CAGTGAGTCAGATTAAAGCAATGAAACGGATCTCAATGTCCCTGAGGTTACAATGCAATGGAGTG
**
14131859 AAGCACCAAATCCTATA-CCCCTGAGTTACAGTGGGTCGGATTAAAGCAATGA
324 AAGCACCAAATCCTATACCCCCTGAGTTACAGTGGGTCAAATTAAAGCAATGA
* *
14131911 AGCAGATCTTAATGTCCTTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTGA
1 AGCAGATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTGA
* ** * *
14131976 GTTGCAGTGGATAGATCAAATGAAAAATTGATCTCAATATCCCTGAGGTTACAGTGGAATGGAGA
66 GTTACAGTGGATAGATCAAATGAGTAATAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGA
* *
14132041 GAAGTTAAAACATCAAATCCCATACCCCCTGAGTTACATTGAGTCGGATTAAAGCAATGAAGCGG
131 GAAGTTAAAACATCAAATCCCATA-CCCCTGAGTTACAGTGAGTCAGATTAAAGCAATGAAGCGG
* *
14132106 ATCTCAATGTCCTTGAGGTTATAGTGGAATGGAGTGAAGCACCAAATCCTATACCCCTGAGTTAC
195 ATCTCAATGTCCTTGAAGTTATAGTGGAATGAAGTGAAGCACCAAATCCTATACCCCTGAGTTAC
* **
14132171 AGTGAGTTAGATTAAAGCAATGAAGTGGATCTCAATGTCCCTGAGGTTACAATGCAATGGAGTGA
260 AGTGAGTCAGATTAAAGCAATGAAACGGATCTCAATGTCCCTGAGGTTACAATGCAATGGAGTGA
** *
14132236 AGCACCAAATCCTATACCCCCTGAGTTGTAGTGGGTCAAATTAAAGTAATGA
325 AGCACCAAATCCTATACCCCCTGAGTTACAGTGGGTCAAATTAAAGCAATGA
* *
14132288 AGCAAATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTAA
1 AGCAGATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCT-G
* * ** * *
14132353 ATTTACAGTGGATCAGATTAAAATGAGTAACGGATCTCAATGTCCTTGAGGTTATAGTGGAATGG
65 AGTTACAGTGGAT-AGA-TCAAATGAGTAATAGATCTCAATGTCCCTGAGGTTACAGTGGAATGG
14132418 AGAGAAGTTA
128 AGAGAAGTTA
14132428 CAATACCCCT
Statistics
Matches: 460, Mismatches: 50, Indels: 9
0.89 0.10 0.02
Matches are distributed among these distances:
374 67 0.15
375 221 0.48
376 19 0.04
377 90 0.20
378 11 0.02
379 3 0.01
380 49 0.11
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (376 bp):
AGCAGATCTCAATGTCCCTGAGGTTACAGTGGAGTGGAGTGAAGCACCAGATCCTATATCCCTGA
GTTACAGTGGATAGATCAAATGAGTAATAGATCTCAATGTCCCTGAGGTTACAGTGGAATGGAGA
GAAGTTAAAACATCAAATCCCATACCCCTGAGTTACAGTGAGTCAGATTAAAGCAATGAAGCGGA
TCTCAATGTCCTTGAAGTTATAGTGGAATGAAGTGAAGCACCAAATCCTATACCCCTGAGTTACA
GTGAGTCAGATTAAAGCAATGAAACGGATCTCAATGTCCCTGAGGTTACAATGCAATGGAGTGAA
GCACCAAATCCTATACCCCCTGAGTTACAGTGGGTCAAATTAAAGCAATGA
Found at i:14134462 original size:24 final size:24
Alignment explanation
Indices: 14134434--14134479 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14134424 TTTTAGTCCC
* * *
14134434 TGTTTTTTTAATTTTGTTTTAATA
1 TGTTTTTTAAATATAGTTTTAATA
14134458 TGTTTTTTAAATATAGTTTTAA
1 TGTTTTTTAAATATAGTTTTAA
14134480 ATCTTTTGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.65
Consensus pattern (24 bp):
TGTTTTTTAAATATAGTTTTAATA
Found at i:14138058 original size:30 final size:28
Alignment explanation
Indices: 14137993--14138101 Score: 89
Period size: 30 Copynumber: 3.9 Consensus size: 28
14137983 TAATAAATTT
* *
14137993 AGGTACCAAATTGAATAAAAAAAAAGCTT
1 AGGTACCAAATT-AAGAAAAAAAAAGCTC
14138022 AGGTACCAAATTAAGAAAAAATACCAAG-TC
1 AGGTACCAAATTAAGAAAAAA-A--AAGCTC
* ** * *
14138052 AGGTACCAGATTAAGTCAAAAAAA-TTT
1 AGGTACCAAATTAAGAAAAAAAAAGCTC
*
14138079 AAGTACCAAATT-AGAAAAAAAAA
1 AGGTACCAAATTAAGAAAAAAAAA
14138102 TTGTCAAATT
Statistics
Matches: 66, Mismatches: 10, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
26 9 0.14
27 13 0.20
28 8 0.12
29 14 0.21
30 19 0.29
31 3 0.05
ACGTcount: A:0.56, C:0.12, G:0.13, T:0.19
Consensus pattern (28 bp):
AGGTACCAAATTAAGAAAAAAAAAGCTC
Found at i:14148583 original size:29 final size:29
Alignment explanation
Indices: 14148543--14148622 Score: 142
Period size: 29 Copynumber: 2.8 Consensus size: 29
14148533 ACAAAATACT
14148543 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
14148572 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATTTCA
* *
14148601 AACATAAATGACTAAAATGTAA
1 AACATAAGTGACTAAAACGTAA
14148623 TCTGAGGCAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 49 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATTTCA
Found at i:14150633 original size:18 final size:20
Alignment explanation
Indices: 14150588--14150636 Score: 59
Period size: 22 Copynumber: 2.5 Consensus size: 20
14150578 AGATGAAACC
14150588 CAAAAT-AATAAAAAATATGA
1 CAAAATAAATAAAAAATA-GA
14150608 CAATAATAAATAAAAAATA-A
1 CAA-AATAAATAAAAAATAGA
14150628 -AAAATAAAT
1 CAAAATAAAT
14150637 TCTCAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 7 0.26
19 2 0.07
20 4 0.15
21 3 0.11
22 11 0.41
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.20
Consensus pattern (20 bp):
CAAAATAAATAAAAAATAGA
Found at i:14150818 original size:13 final size:13
Alignment explanation
Indices: 14150800--14150846 Score: 71
Period size: 13 Copynumber: 3.8 Consensus size: 13
14150790 CAGCCGACGT
14150800 TGCCACGTCAGCA
1 TGCCACGTCAGCA
14150813 TGCCACGTCAGCA
1 TGCCACGTCAGCA
*
14150826 TGCCGCGTCAGCA
1 TGCCACGTCAGCA
14150839 --CCACGTCA
1 TGCCACGTCA
14150847 CCGCCCCGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 7 0.22
13 25 0.78
ACGTcount: A:0.21, C:0.40, G:0.23, T:0.15
Consensus pattern (13 bp):
TGCCACGTCAGCA
Found at i:14168214 original size:49 final size:49
Alignment explanation
Indices: 14168159--14168490 Score: 248
Period size: 49 Copynumber: 6.8 Consensus size: 49
14168149 AAAAGCACGG
*
14168159 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATACAA
1 AGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAAGATACAA
* * * * * *
14168208 AGGGAAAGGTTTAAGTCACAATGACGAA-CCTTGTACCTAAGAAGCAT--GA
1 AGGGAAAGATTTAAGTCGCAACGACGAATCC-AGTACC-ACGAAG-ATACAA
* *
14168257 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGCTACAA
1 AGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAAGATACAA
* * * * * * * * **
14168306 AAGGAAAGGTTTAAGCCACAACGACGAA-CCTTGTACCTC-AAAAAATGA
1 AGGGAAAGATTTAAGTCGCAACGACGAATCC-AGTACCACGAAGATACAA
* **
14168354 AGGGAAAGATTTAAG-CTGCAACGACGAATCCAGTACCATGAAGACGCAA
1 AGGGAAAGATTTAAGTC-GCAACGACGAATCCAGTACCACGAAGATACAA
* * * * * *
14168403 AGGGAAAGGTTTAAGTCGCAACGAC-AAACCTTGTACCTCGAA-AGCACGA
1 AGGGAAAGATTTAAGTCGCAACGACGAATCC-AGTACCACGAAGA-TACAA
* * * * *
14168452 ATGGAAAGATTTAAGCCGCAATGGCGAATCTAGTACCAC
1 AGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCAC
14168491 AAAAACATTG
Statistics
Matches: 215, Mismatches: 54, Indels: 28
0.72 0.18 0.09
Matches are distributed among these distances:
47 2 0.01
48 46 0.21
49 154 0.72
50 11 0.05
51 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (49 bp):
AGGGAAAGATTTAAGTCGCAACGACGAATCCAGTACCACGAAGATACAA
Found at i:14168312 original size:98 final size:98
Alignment explanation
Indices: 14168159--14168490 Score: 449
Period size: 98 Copynumber: 3.4 Consensus size: 98
14168149 AAAAGCACGG
*
14168159 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGATACAAAGGGAAAGGTTTAAGT
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGCTACAAAGGGAAAGGTTTAAGT
*
14168224 CACAATGACGAACCTTGTACCTAAGAAGCATGA
66 CACAACGACGAACCTTGTACCTAAGAAGCATGA
* *
14168257 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGCTACAAAAGGAAAGGTTTAAGC
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGCTACAAAGGGAAAGGTTTAAGT
*
14168322 CACAACGACGAACCTTGTACCTCAA-AA-AATGA
66 CACAACGACGAACCTTGTACCT-AAGAAGCATGA
* * *
14168354 AGGGAAAGATTTAAG-CTGCAACGACGAATCCAGTACCATGAAGAC-GCAAAGGGAAAGGTTTAA
1 AGGGAAAGATTTAAGTC-GCAACGGCGAATCCAGTACCACGAAG-CTACAAAGGGAAAGGTTTAA
* * * *
14168417 GTCGCAACGACAAACCTTGTACCT-CGAAAGCACGA
64 GTCACAACGACGAACCTTGTACCTAAG-AAGCATGA
* * * *
14168452 ATGGAAAGATTTAAGCCGCAATGGCGAATCTAGTACCAC
1 AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCAC
14168491 AAAAACATTG
Statistics
Matches: 207, Mismatches: 20, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
96 1 0.00
97 82 0.40
98 121 0.58
99 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.23, T:0.17
Consensus pattern (98 bp):
AGGGAAAGATTTAAGTCGCAACGGCGAATCCAGTACCACGAAGCTACAAAGGGAAAGGTTTAAGT
CACAACGACGAACCTTGTACCTAAGAAGCATGA
Found at i:14168985 original size:7 final size:7
Alignment explanation
Indices: 14168955--14169008 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
14168945 AATGAAACCC
14168955 AAAATAAT
1 AAAA-AAT
14168963 AAAAAAT
1 AAAAAAT
* *
14168970 ATGACAAT
1 A-AAAAAT
*
14168978 AATAAAT
1 AAAAAAT
*
14168985 AATAAAT
1 AAAAAAT
14168992 AAAAAAT
1 AAAAAAT
14168999 AAAAAAT
1 AAAAAAT
14169006 AAA
1 AAA
14169009 TTCTCAAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
7 30 0.77
8 9 0.23
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:14169113 original size:19 final size:19
Alignment explanation
Indices: 14169086--14169133 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
14169076 CCTAAATATA
* *
14169086 CAAGTCCAAATCACAAAAC
1 CAAGCCCAAATAACAAAAC
14169105 CAAGCCCAAATAACAAAAC
1 CAAGCCCAAATAACAAAAC
14169124 CAAGCCCAAA
1 CAAGCCCAAA
14169134 AATTTTACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.54, C:0.33, G:0.06, T:0.06
Consensus pattern (19 bp):
CAAGCCCAAATAACAAAAC
Found at i:14169214 original size:11 final size:11
Alignment explanation
Indices: 14169181--14169228 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
14169171 AGCCGCCGTT
14169181 ACCACGTCAGC
1 ACCACGTCAGC
14169192 ATGCCACGTCAGC
1 A--CCACGTCAGC
*
14169205 ACCACTTCAGC
1 ACCACGTCAGC
*
14169216 ACCACTTCAGC
1 ACCACGTCAGC
14169227 AC
1 AC
14169229 TGTGACCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
11 23 0.68
13 11 0.32
ACGTcount: A:0.27, C:0.44, G:0.15, T:0.15
Consensus pattern (11 bp):
ACCACGTCAGC
Found at i:14173133 original size:22 final size:23
Alignment explanation
Indices: 14173088--14173133 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
14173078 ATAAATTTTT
**
14173088 AATATAATTATATAAAGTTTATA
1 AATATAATTATATAAAGTAAATA
*
14173111 AATAT-ATTTTATAAAGTAAATA
1 AATATAATTATATAAAGTAAATA
14173133 A
1 A
14173134 TTATCATCTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
AATATAATTATATAAAGTAAATA
Found at i:14174923 original size:25 final size:25
Alignment explanation
Indices: 14174871--14174924 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
14174861 TTATATAAAA
14174871 AATAA-AAAAAATGAAAATAGTTTT
1 AATAATAAAAAATGAAAATAGTTTT
14174895 -ATAATAATAAAAT-AAAAGTA-TTTT
1 AATAATAA-AAAATGAAAA-TAGTTTT
14174919 AATAAT
1 AATAAT
14174925 TTCACACCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
23 4 0.15
24 10 0.38
25 12 0.46
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (25 bp):
AATAATAAAAAATGAAAATAGTTTT
Found at i:14175878 original size:15 final size:16
Alignment explanation
Indices: 14175853--14175886 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
14175843 AAAATGTAAT
14175853 TTTATTATTTTAATAA
1 TTTATTATTTTAATAA
*
14175869 TTTA-TATTTTTATAA
1 TTTATTATTTTAATAA
14175884 TTT
1 TTT
14175887 TTAAATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TTTATTATTTTAATAA
Found at i:14176396 original size:20 final size:20
Alignment explanation
Indices: 14176373--14176410 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14176363 ATCTACAAAA
* *
14176373 AAATCTCTAAGATTACAATC
1 AAATCTCAAAGATCACAATC
14176393 AAATCTCAAAGATCACAA
1 AAATCTCAAAGATCACAA
14176411 GGATCATATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.21, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATCTCAAAGATCACAATC
Found at i:14185363 original size:28 final size:28
Alignment explanation
Indices: 14185332--14185392 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
14185322 AAATATCCCT
* * *
14185332 AAAAATTTCACTAATCATATTTCGTTCA
1 AAAAATTTCACGAACCATATTTCATTCA
* *
14185360 AAAAATTTGACGAACCCTATTTCATTCA
1 AAAAATTTCACGAACCATATTTCATTCA
14185388 AAAAA
1 AAAAA
14185393 AAATTCACCA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (28 bp):
AAAAATTTCACGAACCATATTTCATTCA
Found at i:14192265 original size:10 final size:10
Alignment explanation
Indices: 14192248--14192306 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
14192238 ATCGACAGAT
14192248 TAATTAAATA
1 TAATTAAATA
* *
14192258 TTATTAAAAA
1 TAATTAAATA
14192268 TAATTAAATTA
1 TAATTAAA-TA
14192279 TAA--AAATA
1 TAATTAAATA
* *
14192287 AAAATAAA-A
1 TAATTAAATA
14192296 TAATTAAATA
1 TAATTAAATA
14192306 T
1 T
14192307 TTTTTATAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
8 4 0.11
9 10 0.26
10 20 0.53
11 4 0.11
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
TAATTAAATA
Found at i:14192348 original size:22 final size:21
Alignment explanation
Indices: 14192320--14192380 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
14192310 TTATAACCAT
14192320 TAATTTAAAATACCTTAAACCC
1 TAATTTAAAATACC-TAAACCC
* *
14192342 TTATTTAAAATACCAAAACCC
1 TAATTTAAAATACCTAAACCC
*
14192363 TAAATTAAAA-ACCCTAAA
1 TAATTTAAAATA-CCTAAA
14192381 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
20 1 0.03
21 19 0.58
22 13 0.39
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.28
Consensus pattern (21 bp):
TAATTTAAAATACCTAAACCC
Found at i:14192362 original size:21 final size:22
Alignment explanation
Indices: 14192320--14192381 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
14192310 TTATAACCAT
*
14192320 TAATTTAAAATACCTTAAACCC
1 TAATTTAAAATACCTAAAACCC
*
14192342 TTATTTAAAATACC-AAAACCC
1 TAATTTAAAATACCTAAAACCC
*
14192363 TAAATTAAAA-ACCCTAAAA
1 TAATTTAAAATA-CCTAAAA
14192382 TTAATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 16 0.47
22 17 0.50
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (22 bp):
TAATTTAAAATACCTAAAACCC
Found at i:14192375 original size:14 final size:15
Alignment explanation
Indices: 14192356--14192385 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
14192346 TTAAAATACC
14192356 AAAACCCT-AAATTA
1 AAAACCCTAAAATTA
14192370 AAAACCCTAAAATTA
1 AAAACCCTAAAATTA
14192385 A
1 A
14192386 TTAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (15 bp):
AAAACCCTAAAATTA
Found at i:14192478 original size:30 final size:30
Alignment explanation
Indices: 14192427--14192487 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 30
14192417 CAAAATAGCA
14192427 AAATTTAGATATATTGTTTTG-AATTTTAG
1 AAATTTAGATATATTGTTTTGAAATTTTAG
*
14192456 AAATTTAGATATGTTAGTTTTGAAATTTTAG
1 AAATTTAGATATATT-GTTTTGAAATTTTAG
14192487 A
1 A
14192488 CGTTAAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 14 0.48
30 6 0.21
31 9 0.31
ACGTcount: A:0.36, C:0.00, G:0.15, T:0.49
Consensus pattern (30 bp):
AAATTTAGATATATTGTTTTGAAATTTTAG
Found at i:14192665 original size:25 final size:26
Alignment explanation
Indices: 14192636--14192685 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
14192626 TAAACAAATC
14192636 CTAATTTAAAA-AAAAAC-CCCTAAAA
1 CTAA-TTAAAACAAAAACACCCTAAAA
14192661 CTAATTAAAACAAAAACACCCTAAA
1 CTAATTAAAACAAAAACACCCTAAA
14192686 CCCTAAGGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 10 0.43
26 7 0.30
ACGTcount: A:0.60, C:0.22, G:0.00, T:0.18
Consensus pattern (26 bp):
CTAATTAAAACAAAAACACCCTAAAA
Found at i:14192955 original size:3 final size:3
Alignment explanation
Indices: 14192947--14192974 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14192937 TAATAAACCC
14192947 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14192975 CACATGTATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14199749 original size:24 final size:22
Alignment explanation
Indices: 14199713--14199760 Score: 60
Period size: 24 Copynumber: 2.1 Consensus size: 22
14199703 TTCAAGGTTG
* *
14199713 TTTTTATATTTATTTATTATAAA
1 TTTTTATAATTATTTAGTA-AAA
14199736 TTTTTAATAATTATTTAGTAAAA
1 TTTTT-ATAATTATTTAGTAAAA
14199759 TT
1 TT
14199761 GATTAGACCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TTTTTATAATTATTTAGTAAAA
Found at i:14204834 original size:4 final size:4
Alignment explanation
Indices: 14204827--14204851 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
14204817 ATATACACTC
14204827 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
14204852 TTTGGTTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:14206185 original size:103 final size:103
Alignment explanation
Indices: 14206006--14206214 Score: 382
Period size: 103 Copynumber: 2.0 Consensus size: 103
14205996 GAAATTCAGT
14206006 GACCATGCAAACTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
1 GACCATGCAAACTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
14206071 ACGCATAACTTGGATATGATTTTGTTTTACAGCTCAAA
66 ACGCATAACTTGGATATGATTTTGTTTTACAGCTCAAA
* *
14206109 GACCATGCAAACTTGAGTCTAATACTCTTGGACTCTTGAGATCCATTTGTCTGAAATTTGAAGAA
1 GACCATGCAAACTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
* *
14206174 ATGCATAACTTGGCTATGATTTTGTTTTACAGCTCAAA
66 ACGCATAACTTGGATATGATTTTGTTTTACAGCTCAAA
14206212 GAC
1 GAC
14206215 TTCAGCTTGC
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.33
Consensus pattern (103 bp):
GACCATGCAAACTCGAGTCTAATACTCTTGGACTCTTGAGATCCATTTATCTGAAATTTGAAGAA
ACGCATAACTTGGATATGATTTTGTTTTACAGCTCAAA
Found at i:14207307 original size:23 final size:23
Alignment explanation
Indices: 14207263--14207307 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14207253 TCACGAGCTT
*
14207263 AAATAATAGTATAAATATTTTTA
1 AAATAATAGTATAAATAATTTTA
*
14207286 AAAT-ATAGATATAACTAATTTT
1 AAATAATAG-TATAAATAATTTT
14207308 CTATGCTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.42
Consensus pattern (23 bp):
AAATAATAGTATAAATAATTTTA
Found at i:14209840 original size:51 final size:51
Alignment explanation
Indices: 14209764--14209866 Score: 179
Period size: 51 Copynumber: 2.0 Consensus size: 51
14209754 AAGAGTCAAT
*
14209764 ACCTTTCTTGCATATACATTTATACATTCATAAAGTTTTGCAACGCATTTC
1 ACCTTTCTTGCATATACATTCATACATTCATAAAGTTTTGCAACGCATTTC
* *
14209815 ACCTTTCTTGCATATGCATTCATACATTCATAAAGTTTTGCATCGCATTTC
1 ACCTTTCTTGCATATACATTCATACATTCATAAAGTTTTGCAACGCATTTC
14209866 A
1 A
14209867 TGCATTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (51 bp):
ACCTTTCTTGCATATACATTCATACATTCATAAAGTTTTGCAACGCATTTC
Found at i:14211546 original size:25 final size:23
Alignment explanation
Indices: 14211518--14211563 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
14211508 GTTGGATCCA
14211518 AATTAAATTCTAAAAAGATAATTAG
1 AATTAAA-TCTAAAAA-ATAATTAG
*
14211543 AATTAAATCTAAACAATAATT
1 AATTAAATCTAAAAAATAATT
14211564 CCTTAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.57, C:0.07, G:0.04, T:0.33
Consensus pattern (23 bp):
AATTAAATCTAAAAAATAATTAG
Found at i:14216644 original size:30 final size:30
Alignment explanation
Indices: 14216610--14216670 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
14216600 CTTGAGGATT
* * *
14216610 ATGAGCCATTTGATTTTGATTTTCCAAATG
1 ATGAGCCATTGGATTTCGATTTTCAAAATG
14216640 ATGAGCCATTGGATTTCGATTTTCAAAATG
1 ATGAGCCATTGGATTTCGATTTTCAAAATG
14216670 A
1 A
14216671 AGATCTAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (30 bp):
ATGAGCCATTGGATTTCGATTTTCAAAATG
Found at i:14219605 original size:48 final size:50
Alignment explanation
Indices: 14219445--14219603 Score: 234
Period size: 50 Copynumber: 3.2 Consensus size: 50
14219435 ACAAAACAAC
* *
14219445 GAATCTTATACACCTAAAGCTGTAAAGGAGCAGATTGAAGCCGTAATGGT
1 GAATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGTAAGGGT
* *
14219495 GAATCTTATACACCTAAAGTTGTAGAGGAGCAGATTGAAGCTGTAAGGGCT
1 GAATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGTAAGGG-T
* *
14219546 -AATCTTATAC-TCTAAAGCTGTAGA-GAGCAGATTGAAGCCGAAAGGGT
1 GAATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGTAAGGGT
14219593 GAATCTTATAC
1 GAATCTTATAC
14219604 TCCTGATTCT
Statistics
Matches: 99, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 1 0.01
48 30 0.30
49 12 0.12
50 55 0.56
51 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (50 bp):
GAATCTTATACACCTAAAGCTGTAGAGGAGCAGATTGAAGCCGTAAGGGT
Found at i:14220594 original size:90 final size:91
Alignment explanation
Indices: 14220435--14220608 Score: 305
Period size: 90 Copynumber: 1.9 Consensus size: 91
14220425 TTACAAGCCC
* * *
14220435 ATTTTCAATGCCCAAACCCAATTTTACAAACCCAAATCTTAAACCAAAAAAGAGAATATCCTAAC
1 ATTTACAATGCCCAAACCCAATTTTACAAACCCAAATCTTAAACCAAAAAAGAGAAAACCCTAAC
14220500 CCTAGCCACCTATGTTTCTTAAACCA
66 CCTAGCCACCTATGTTTCTTAAACCA
14220526 ATTTACAATGCCCAAACCCAATTTTACAAA-CCAAATCTTAAACCAAAAAAGAGAAAACCCTAAC
1 ATTTACAATGCCCAAACCCAATTTTACAAACCCAAATCTTAAACCAAAAAAGAGAAAACCCTAAC
*
14220590 CCTAGCCGCCTATGTTTCT
66 CCTAGCCACCTATGTTTCT
14220609 ACCATCGTCG
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
90 50 0.63
91 29 0.37
ACGTcount: A:0.41, C:0.29, G:0.06, T:0.24
Consensus pattern (91 bp):
ATTTACAATGCCCAAACCCAATTTTACAAACCCAAATCTTAAACCAAAAAAGAGAAAACCCTAAC
CCTAGCCACCTATGTTTCTTAAACCA
Found at i:14221791 original size:14 final size:13
Alignment explanation
Indices: 14221756--14221794 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
14221746 TTCTGACCCG
14221756 TTTTTTAATTTTT
1 TTTTTTAATTTTT
*
14221769 TTTACTTAATTTTT
1 TTT-TTTAATTTTT
14221783 TTATTTTAATTT
1 TT-TTTTAATTT
14221795 AACCCTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.21, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTAATTTTT
Found at i:14222076 original size:9 final size:9
Alignment explanation
Indices: 14222062--14222086 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14222052 TATAATTGGC
14222062 ATTATTTTA
1 ATTATTTTA
14222071 ATTATTTTA
1 ATTATTTTA
14222080 ATTATTT
1 ATTATTT
14222087 ATTTGTTACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTATTTTA
Found at i:14224990 original size:29 final size:30
Alignment explanation
Indices: 14224958--14225018 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 30
14224948 TTGATTAAAT
*
14224958 GTGCAATTTGATACATGAACTTTAATT-TG
1 GTGCAATTTAATACATGAACTTTAATTATG
*
14224987 GTGCAATTTAATACATGAACTTTGATTATG
1 GTGCAATTTAATACATGAACTTTAATTATG
14225017 GT
1 GT
14225019 TCAAATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (30 bp):
GTGCAATTTAATACATGAACTTTAATTATG
Found at i:14241092 original size:30 final size:30
Alignment explanation
Indices: 14241056--14241116 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
14241046 TTTAGAAAAC
14241056 ACATTGTCCTCAATGTGTAGCCCCTTAAAT
1 ACATTGTCCTCAATGTGTAGCCCCTTAAAT
14241086 ACATTGTCCTCAATGTGTAGCCCCTTAAAT
1 ACATTGTCCTCAATGTGTAGCCCCTTAAAT
14241116 A
1 A
14241117 GTAAGGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (30 bp):
ACATTGTCCTCAATGTGTAGCCCCTTAAAT
Found at i:14244632 original size:21 final size:22
Alignment explanation
Indices: 14244606--14244650 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
14244596 GGCTTGTATT
* *
14244606 TTTTGGGT-TTTAATTTGGGTA
1 TTTTGGGTATGTAATTTGGATA
14244627 TTTTGGGTATGTAATTTGGATA
1 TTTTGGGTATGTAATTTGGATA
14244649 TT
1 TT
14244651 AGATTTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.18, C:0.00, G:0.27, T:0.56
Consensus pattern (22 bp):
TTTTGGGTATGTAATTTGGATA
Found at i:14245564 original size:20 final size:20
Alignment explanation
Indices: 14245539--14245581 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
14245529 CCCAATTTTG
14245539 ACCGGCCTCGTACAAAATAA
1 ACCGGCCTCGTACAAAATAA
*
14245559 ACCGGCCTCTTACAAAATAA
1 ACCGGCCTCGTACAAAATAA
14245579 ACC
1 ACC
14245582 AAAACAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.33, G:0.12, T:0.16
Consensus pattern (20 bp):
ACCGGCCTCGTACAAAATAA
Found at i:14246986 original size:30 final size:30
Alignment explanation
Indices: 14246914--14247006 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
14246904 ATTTTATTTT
* * *
14246914 AAAATTATATTTCAACCCTCAAACTTCCTA
1 AAAATTACATTTTAACCCTCAAACTTTCTA
*
14246944 AAAATTGCATTTTAACCCTCAAACTTTCTA
1 AAAATTACATTTTAACCCTCAAACTTTCTA
* *
14246974 AAAATTACATTTTGACCC-CTAAACTTTCCA
1 AAAATTACATTTTAACCCTC-AAACTTTCTA
14247004 AAA
1 AAA
14247007 TTTTTGTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 1 0.02
30 54 0.98
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATTACATTTTAACCCTCAAACTTTCTA
Found at i:14250259 original size:16 final size:15
Alignment explanation
Indices: 14250233--14250264 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
14250223 GTTCATACCA
14250233 TAATTAATTATTCTT
1 TAATTAATTATTCTT
14250248 TAATTCAATTATTCTT
1 TAATT-AATTATTCTT
14250264 T
1 T
14250265 GGATCCCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATTAATTATTCTT
Found at i:14250830 original size:12 final size:13
Alignment explanation
Indices: 14250799--14250829 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
14250789 AAGAAACAAA
*
14250799 AAAAAAAAGAAAG
1 AAAAAAGAGAAAG
14250812 AAAAAAGAGAAAG
1 AAAAAAGAGAAAG
14250825 AAAAA
1 AAAAA
14250830 GTCAAGGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAAAG
Found at i:14251727 original size:12 final size:11
Alignment explanation
Indices: 14251706--14251760 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
14251696 AGAGAAAAAG
14251706 AAAAAA-GAAA
1 AAAAAAGGAAA
14251716 GAAAAAAGGAAA
1 -AAAAAAGGAAA
*
14251728 AGAAAAAGGGAA
1 A-AAAAAGGAAA
*
14251740 AAAGAAGGAAA
1 AAAAAAGGAAA
14251751 AAGAAAAGGA
1 AA-AAAAGGA
14251761 GAAGTCCAGG
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 17 0.46
12 20 0.54
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (11 bp):
AAAAAAGGAAA
Found at i:14251729 original size:13 final size:13
Alignment explanation
Indices: 14251701--14251741 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
14251691 AAGGAAGAGA
14251701 AAAAGAAAAAA-G
1 AAAAGAAAAAAGG
14251713 -AAAGAAAAAAGG
1 AAAAGAAAAAAGG
*
14251725 AAAAGAAAAAGGG
1 AAAAGAAAAAAGG
14251738 AAAA
1 AAAA
14251742 AGAAGGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 10 0.38
12 1 0.04
13 15 0.58
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAGAAAAAAGG
Found at i:14251733 original size:23 final size:24
Alignment explanation
Indices: 14251699--14251757 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
14251689 AGAAGGAAGA
*
14251699 GAAAAAGAAAAAAGAAAGAAAAAAG
1 GAAAAAGAAAAAGGAAA-AAAAAAG
* *
14251724 G-AAAAGAAAAAGGGAAAAAGAAG
1 GAAAAAGAAAAAGGAAAAAAAAAG
14251747 GAAAAAGAAAA
1 GAAAAAGAAAA
14251758 GGAGAAGTCC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.23
24 22 0.73
25 1 0.03
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (24 bp):
GAAAAAGAAAAAGGAAAAAAAAAG
Found at i:14251753 original size:30 final size:30
Alignment explanation
Indices: 14251670--14251752 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 30
14251660 TTCACCCTAA
* * *
14251670 AAAAATAAAAAATAAA-AAAAGAAGGAAGAG
1 AAAAAGAAAAAAGAAAGAAAA-AAGGAAAAG
14251700 AAAAAGAAAAAAGAAAGAAAAAAGGAAAAG
1 AAAAAGAAAAAAGAAAGAAAAAAGGAAAAG
* *
14251730 AAAAAGGGAAAAAGAAGGAAAAA
1 AAAAA-GAAAAAAGAAAGAAAAA
14251753 GAAAAGGAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.77, C:0.00, G:0.20, T:0.02
Consensus pattern (30 bp):
AAAAAGAAAAAAGAAAGAAAAAAGGAAAAG
Found at i:14252206 original size:111 final size:112
Alignment explanation
Indices: 14252067--14252287 Score: 327
Period size: 111 Copynumber: 2.0 Consensus size: 112
14252057 AATGTTTTTC
* * *
14252067 ATTTTTTATCTTTTCATTCATGCGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATTCACGCAAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
* * *
14252132 CCTTGTTCAGGCACGTTTGCATTGAAATAACAGTTAGTGGACTAATG
66 CCCTGTTCAAGCACGTTTGCATTAAAATAACAGTTAGTGGACTAATG
*
14252179 ATTTTTAATC-TTTCATTCACGCAAGCTTTGCCTCTAATAAAATTCAATTTTATCCACCTTACAA
1 ATTTTTAATCTTTTCATTCACGCAAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
** * * *
14252243 CCCTGTTCAAGCATTTTTGCATTAAAATGACGGTTAGTGGTCTAA
66 CCCTGTTCAAGCACGTTTGCATTAAAATAACAGTTAGTGGACTAA
14252288 CTATATAAGG
Statistics
Matches: 97, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
111 88 0.91
112 9 0.09
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (112 bp):
ATTTTTAATCTTTTCATTCACGCAAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA
CCCTGTTCAAGCACGTTTGCATTAAAATAACAGTTAGTGGACTAATG
Found at i:14252900 original size:98 final size:97
Alignment explanation
Indices: 14252687--14253074 Score: 424
Period size: 98 Copynumber: 4.0 Consensus size: 97
14252677 TAATACCCTA
* * * *
14252687 GAGATATAGAGGGAAAGGTTAAAGCCGCAACAGCAAACCTTGTACCTTAGAGACGTAATGAAAAG
1 GAGATATAGAGGGAAAGGTTAAAGCCGCAACGGCGAACCTTGTACCTTAGAGACGTGATGGAAAG
* * * *
14252752 ATTGAAGTCGCAAC-AGTGAATATTGTACCATA
66 ATTGAAGCCGCAACGA-CGAATCTTGTACCATG
*
14252784 GAGATATAGAGGGAAAGGTTGAAA-CCGCAACGGCGAACCTTATACCTTAGAGACGTGATGGGAA
1 GAGATATAGAGGGAAAGGTT-AAAGCCGCAACGGCGAACCTTGTACCTTAGAGACGTGAT-GGAA
*
14252848 AGATTGAAGCCGTAACGACGAATCTTGTACCATG
64 AGATTGAAGCCGCAACGACGAATCTTGTACCATG
* * *
14252882 GAGATATGGAGGGAAAGGTTAAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATAGGAAA
1 GAGATATAGAGGGAAAGGTTAAAGCCGCAACGGCGAACCTTGTACCTTAGAGACGTGAT-GGAAA
* * *
14252947 GATTCAAACCGCAACGACGAATCTTGTATCATG
65 GATTGAAGCCGCAACGACGAATCTTGTACCATG
* * * * * * ** *
14252980 GAGATATGGAGGGAAAGATTGAAGCCAG-AACGGTGAATCTTGTACCAT-GAAGATATGGAGGGA
1 GAGATATAGAGGGAAAGGTTAAAGCC-GCAACGGCGAACCTTGTACCTTAG-AGACGT-GATGGA
* * * *
14253043 AAGGTTGAAGCCGCAATGGCGAACCTTGTACC
63 AAGATTGAAGCCGCAACGACGAATCTTGTACC
14253075 TTAGAAAGGG
Statistics
Matches: 250, Mismatches: 34, Indels: 13
0.84 0.11 0.04
Matches are distributed among these distances:
97 55 0.22
98 191 0.76
99 4 0.02
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (97 bp):
GAGATATAGAGGGAAAGGTTAAAGCCGCAACGGCGAACCTTGTACCTTAGAGACGTGATGGAAAG
ATTGAAGCCGCAACGACGAATCTTGTACCATG
Found at i:14253120 original size:92 final size:95
Alignment explanation
Indices: 14252990--14253271 Score: 365
Period size: 92 Copynumber: 3.0 Consensus size: 95
14252980 GAGATATGGA
* * **
14252990 GGGAAAGATTGAAGCCAGAACGGTGAATCTTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCC
1 GGGAAAGATTAAAGCCACAACGACGAATCTTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCC
14253055 GCAA-TGGCGAACCTTGTACCTTAGA-A-A-
66 GCAACT-GCGAACCTTGTACCTTAGAGAGAT
** *
14253082 GGGAAAGATTAAAGCTGCAACGACGAATCTTGTACCATGAAGATATGGAGGAAAAGGTTGAAGCC
1 GGGAAAGATTAAAGCCACAACGACGAATCTTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCC
14253147 GCAACTGCGAACCTTGTACCTTAGAGACGTGAT
66 GCAACTGCGAACCTTGTACCTTAGAGA---GAT
* * * *
14253180 GGGAAAGATTAAAGCCACAATGACGAATCTTATACCATGGAGATATGGAGGGAAAGGTTGAAGGC
1 GGGAAAGATTAAAGCCACAACGACGAATCTTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCC
** * *
14253245 TTAACTCCGAACCTTATACCTTAGAGA
66 GCAACTGCGAACCTTGTACCTTAGAGA
14253272 TGTGAAGGGA
Statistics
Matches: 165, Mismatches: 18, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
92 81 0.49
93 2 0.01
97 1 0.01
98 81 0.49
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.21
Consensus pattern (95 bp):
GGGAAAGATTAAAGCCACAACGACGAATCTTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCC
GCAACTGCGAACCTTGTACCTTAGAGAGAT
Found at i:14253151 original size:190 final size:190
Alignment explanation
Indices: 14252891--14253242 Score: 442
Period size: 190 Copynumber: 1.9 Consensus size: 190
14252881 GGAGATATGG
* * * *
14252891 AGGGAAAGGTTAAAGCCGCAACGACGAACCTTGTACCTTAGAGATGTGATAGGAAAGATTCAAAC
1 AGGGAAAGATTAAAGCCGCAACGACGAACCTTGTACCTGAGAGATATGAGAGGAAAGATTCAAAC
* * * * * * **
14252956 CGCAAC-GACGAATCTTGTATCATGGAGATATGGA-GGGAAAGATTGAAGCCAGAACGGTGAATC
66 CGCAACTG-CGAACCTTGTACCATAGAGACAT-GATGGGAAAGATTAAAGCCACAACGACGAATC
*
14253019 TTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAA
129 TTATACCATGAAGATATGGAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAA
* * * *
14253081 AGGGAAAGATTAAAGCTGCAACGACGAATCTTGTACCATGA-AGATATG-GAGGAAAAGGTTGAA
1 AGGGAAAGATTAAAGCCGCAACGACGAACCTTGTACC-TGAGAGATATGAGAGG-AAAGATTCAA
* * * *
14253144 GCCGCAACTGCGAACCTTGTACCTTAGAGACGTGATGGGAAAGATTAAAGCCACAATGACGAATC
64 ACCGCAACTGCGAACCTTGTACCATAGAGACATGATGGGAAAGATTAAAGCCACAACGACGAATC
*
14253209 TTATACCATGGAGATATGGAGGGAAAGGTTGAAG
129 TTATACCATGAAGATATGGAGGGAAAGGTTGAAG
14253243 GCTTAACTCC
Statistics
Matches: 136, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
189 5 0.04
190 128 0.94
191 3 0.02
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (190 bp):
AGGGAAAGATTAAAGCCGCAACGACGAACCTTGTACCTGAGAGATATGAGAGGAAAGATTCAAAC
CGCAACTGCGAACCTTGTACCATAGAGACATGATGGGAAAGATTAAAGCCACAACGACGAATCTT
ATACCATGAAGATATGGAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGAA
Found at i:14253184 original size:141 final size:144
Alignment explanation
Indices: 14252846--14253215 Score: 405
Period size: 141 Copynumber: 2.6 Consensus size: 144
14252836 ACGTGATGGG
* * * *
14252846 AAAGATTGAAGCC-GTAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTAAAGCCGC
1 AAAGATTGAAGCCAG-AACGGCGAACCTTGTACCATGAAGACATGGAGGGAAAGGTTAAAGCCGC
*
14252910 AACGACGAACCTTGTACCTTAGAGATGTGATAGGAAAGATTCAAACCGCAACGACGAATCTTGTA
65 AATGACGAACCTTGTACCTTAGAGA---GATAGGAAAGATTCAAACCGCAACGACGAATCTTGTA
* * *
14252975 TCATGGAGATATGGAGGG
127 CCATGAAGATATGGAGGA
* * * *
14252993 AAAGATTGAAGCCAGAACGGTGAATCTTGTACCATGAAGATATGGAGGGAAAGGTTGAAGCCGCA
1 AAAGATTGAAGCCAGAACGGCGAACCTTGTACCATGAAGACATGGAGGGAAAGGTTAAAGCCGCA
* * *
14253058 ATGGCGAACCTTGTACCTTAGA-A-A-GGGAAAGATT-AAAGCTGCAACGACGAATCTTGTACCA
66 ATGACGAACCTTGTACCTTAGAGAGATAGGAAAGATTCAAA-CCGCAACGACGAATCTTGTACCA
14253119 TGAAGATATGGAGGA
130 TGAAGATATGGAGGA
* * * * *
14253134 AAAGGTTGAAGCC-GCAACTGCGAACCTTGTACC-TTAGAGACGT-GATGGGAAAGATTAAAGCC
1 AAAGATTGAAGCCAG-AACGGCGAACCTTGTACCATGA-AGACATGGA-GGGAAAGGTTAAAGCC
* * *
14253196 ACAATGACGAATCTTATACC
63 GCAATGACGAACCTTGTACC
14253216 ATGGAGATAT
Statistics
Matches: 194, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
140 8 0.04
141 104 0.54
142 1 0.01
146 1 0.01
147 79 0.41
148 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (144 bp):
AAAGATTGAAGCCAGAACGGCGAACCTTGTACCATGAAGACATGGAGGGAAAGGTTAAAGCCGCA
ATGACGAACCTTGTACCTTAGAGAGATAGGAAAGATTCAAACCGCAACGACGAATCTTGTACCAT
GAAGATATGGAGGA
Found at i:14253283 original size:239 final size:242
Alignment explanation
Indices: 14252777--14253313 Score: 660
Period size: 239 Copynumber: 2.2 Consensus size: 242
14252767 GTGAATATTG
*
14252777 TACCAT-AGAGATAT-AGAGGGAAAGGTTGAAACCGCAACGGCGAACCTTATACCTTAGAGACGT
1 TACCATGA-AGATATGA-AGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGA---
* * * *
14252840 GATGGGAAAGATTGAAGCCGTAACGACGAATCTTGTACCATGGAGATATGGAGGGAAAGGTTAAA
61 GATGGGAAAGATTAAAGCCGCAACGACGAATCTTGTACCATGAAGATATGGAGGAAAAGGTTAAA
* *
14252905 GCCGCAACGACGAACCTTGTACCTTAGAGATGTGATAGGAAAGATTCAAACCGCAACGACGAATC
126 GCCGCAACGACGAACCTTGTACCTTAGAGACGTGATAGGAAAGATTCAAACCACAACGACGAATC
* * ** * *
14252970 TTGTATCATGGAGATATGGAGGGAAAGATTGAAGCCAGAACGGTGAATCTTG
191 TTATACCATGGAGATATGGAGGGAAAGATTGAAGCCAGAACGCCGAACCTTA
* * *
14253022 TACCATGAAGATATGGAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTGTACCTTAGA-A-A-GG
1 TACCATGAAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGAGATGG
* *
14253084 GAAAGATTAAAGCTGCAACGACGAATCTTGTACCATGAAGATATGGAGGAAAAGGTTGAAGCCGC
66 GAAAGATTAAAGCCGCAACGACGAATCTTGTACCATGAAGATATGGAGGAAAAGGTTAAAGCCGC
* *
14253149 AACTG-CGAACCTTGTACCTTAGAGACGTGATGGGAAAGATT-AAAGCCACAATGACGAATCTTA
131 AAC-GACGAACCTTGTACCTTAGAGACGTGATAGGAAAGATTCAAA-CCACAACGACGAATCTTA
* * ** *
14253212 TACCATGGAGATATGGAGGGAAAGGTTGAAGGCTTAACTCCGAACCTTA
194 TACCATGGAGATATGGAGGGAAAGATTGAAGCCAGAACGCCGAACCTTA
* * * * *
14253261 TACC-TTAGAGATGTGAAGGGAAA-GTTAGAGGCCGCAACGGTGAATCTTATACC
1 TACCATGA-AGATATGAAGGGAAAGGTT-GAAGCCGCAACGGCGAACCTTATACC
14253314 CTGAAGATGA
Statistics
Matches: 253, Mismatches: 33, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
238 8 0.03
239 190 0.75
240 2 0.01
244 1 0.00
245 51 0.20
246 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.28, T:0.20
Consensus pattern (242 bp):
TACCATGAAGATATGAAGGGAAAGGTTGAAGCCGCAACGGCGAACCTTATACCTTAGAGAGATGG
GAAAGATTAAAGCCGCAACGACGAATCTTGTACCATGAAGATATGGAGGAAAAGGTTAAAGCCGC
AACGACGAACCTTGTACCTTAGAGACGTGATAGGAAAGATTCAAACCACAACGACGAATCTTATA
CCATGGAGATATGGAGGGAAAGATTGAAGCCAGAACGCCGAACCTTA
Found at i:14253310 original size:49 final size:48
Alignment explanation
Indices: 14252680--14253313 Score: 367
Period size: 49 Copynumber: 13.1 Consensus size: 48
14252670 ATAAATCTAA
* * * * *
14252680 TACCCTAGAGATAT-AGAGGGAAAGGTTAAAGCCGCAACAGCAAACCTTG
1 TACCATAGAGATATGA-AGGGAAA-GTTGAAGCCGCAACGGCGAATCTTG
* ** * * * * * *
14252729 TACCTTAGAGACGT-AATGAAAAGATTGAAGTCGCAACAGTGAATATTG
1 TACCATAGAGATATGAAGGGAAAG-TTGAAGCCGCAACGGCGAATCTTG
* * *
14252777 TACCATAGAGATAT-AGAGGGAAAGGTTGAAACCGCAACGGCGAACCTTA
1 TACCATAGAGATATGA-AGGGAAA-GTTGAAGCCGCAACGGCGAATCTTG
* ** * * *
14252826 TACCTTAGAGACGTGATGGGAAAGATTGAAGCCGTAACGACGAATCTTG
1 TACCATAGAGATATGAAGGGAAAG-TTGAAGCCGCAACGGCGAATCTTG
* * * * *
14252875 TACCATGGAGATATGGAGGGAAAGGTTAAAGCCGCAACGACGAACCTTG
1 TACCATAGAGATATGAAGGGAAA-GTTGAAGCCGCAACGGCGAATCTTG
* * * * *
14252924 TACCTTAGAGATGTGATA-GGAAAGATTCAAACCGCAACGACGAATCTTG
1 TACCATAGAGATATGA-AGGGAAAG-TTGAAGCCGCAACGGCGAATCTTG
* * * *
14252973 TATCATGGAGATATGGAGGGAAAGATTGAAGCCAG-AACGGTGAATCTTG
1 TACCATAGAGATATGAAGGGAAAG-TTGAAGCC-GCAACGGCGAATCTTG
* * *
14253022 TACCAT-GAAGATATGGAGGGAAAGGTTGAAGCCGCAATGGCGAACCTTG
1 TACCATAG-AGATATGAAGGGAAA-GTTGAAGCCGCAACGGCGAATCTTG
* * * *
14253071 TACC-T-TAG--A--AAGGGAAAGATTAAAGCTGCAACGACGAATCTTG
1 TACCATAGAGATATGAAGGGAAAG-TTGAAGCCGCAACGGCGAATCTTG
* * * *
14253114 TACCAT-GAAGATATGGAGGAAAAGGTTGAAGCCGCAACTGCGAACCTTG
1 TACCATAG-AGATATGAAGGGAAA-GTTGAAGCCGCAACGGCGAATCTTG
* ** * * * * * *
14253163 TACCTTAGAGACGTGATGGGAAAGATTAAAGCCACAATGACGAATCTTA
1 TACCATAGAGATATGAAGGGAAAG-TTGAAGCCGCAACGGCGAATCTTG
* * * ** ** * *
14253212 TACCATGGAGATATGGAGGGAAAGGTTGAAGGCTTAACTCCGAACCTTA
1 TACCATAGAGATATGAAGGGAAA-GTTGAAGCCGCAACGGCGAATCTTG
* * * * *
14253261 TACCTTAGAGATGTGAAGGGAAAGTTAGAGGCCGCAACGGTGAATCTTA
1 TACCATAGAGATATGAAGGGAAAGTT-GAAGCCGCAACGGCGAATCTTG
14253310 TACC
1 TACC
14253314 CTGAAGATGA
Statistics
Matches: 445, Mismatches: 115, Indels: 50
0.73 0.19 0.08
Matches are distributed among these distances:
42 1 0.00
43 30 0.07
44 1 0.00
45 3 0.01
47 4 0.01
48 45 0.10
49 352 0.79
50 9 0.02
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.21
Consensus pattern (48 bp):
TACCATAGAGATATGAAGGGAAAGTTGAAGCCGCAACGGCGAATCTTG
Found at i:14253627 original size:38 final size:38
Alignment explanation
Indices: 14253584--14254251 Score: 228
Period size: 38 Copynumber: 16.9 Consensus size: 38
14253574 AGCTACCATT
* * *
14253584 CAATCTCATACCCCGATCATGGGGCAGATTAAAGCATC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATC
* * **
14253622 CAATCTTTTACCCTAATCAAAGGGCAGATTGAAG-ATACAC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAGCAT---C
* * * *
14253662 CAATCTCATATCCCGATCATGGGGCAAATTGAAGCATC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATC
* * *
14253700 CAATCTTTTGCCCTAATCA-GAGGGCAGATTGAAGCATC
1 CAATCTCTTACCCCAATCATG-GGGCAGATTGAAGCATC
* * *** *
14253738 CAATCTTTTACCCTAATCAAAAGGCAGATTGAAGACACAC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAG-CA-TC
*
14253778 CAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATC
* * * * *
14253816 CAATCTTTTACCCTAA-GA--GGGAAAATTGAAGAGACAT-
1 CAATCTCTTACCCCAATCATGGGGCAGATTG-A-AG-CATC
* * *** *
14253853 CGATCTTTTACCTTGATCATGAGGCAGATTGACAGATTGAAGCATT
1 CAATCTCTTACCCCAATCAT--GG--G---G-CAGATTGAAGCATC
* * * ** * * *
14253899 TAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACACAC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAG-CA-TC
* * * * * * *
14253939 CAATCT-TTGACCCTAATCA-GAGAGTAAATTAAAACATT
1 CAATCTCTT-ACCCCAATCATG-GGGCAGATTGAAGCATC
* * ** *
14253977 CAATCTTTTACCCTAATCAAAGGGAAGATTGAAGACA-C
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAG-CATC
* * * * *
14254015 ATTAATCTCTCACCTCGATCATGGGGTAGATTGAAGCATC
1 --CAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATC
* * ** * *
14254055 CAACCTTTTACCTTAATTA-GAGGGAAGATTGAAGACAAAT-
1 CAATCTCTTACCCCAATCATG-GGGCAGATTGAAG-C--ATC
* * * *
14254095 CGATCTTTTACCCTAATCACGGGGCA-AGTTGAAGCCATC
1 CAATCTCTTACCCCAATCATGGGGCAGA-TTGAAG-CATC
* * *
14254134 CAATCTCTTA-CCCGATCAAGGGACAGATTGAAGATACCATC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAG----CATC
* * *
14254175 TAATCTCTTACCCCGATCATAGGGCAGATTGAAGGCCTCATC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAA-G---CATC
* *
14254217 CAATCTCTTACCACAATCATGTGGCAGATTGAAGC
1 CAATCTCTTACCCCAATCATGGGGCAGATTGAAGC
14254252 TACCATCTTA
Statistics
Matches: 474, Mismatches: 110, Indels: 92
0.70 0.16 0.14
Matches are distributed among these distances:
35 8 0.02
36 1 0.00
37 20 0.04
38 181 0.38
39 28 0.06
40 133 0.28
41 20 0.04
42 53 0.11
43 1 0.00
44 2 0.00
45 3 0.01
46 17 0.04
47 2 0.00
48 5 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (38 bp):
CAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATC
Found at i:14253714 original size:78 final size:78
Alignment explanation
Indices: 14253584--14253733 Score: 255
Period size: 78 Copynumber: 1.9 Consensus size: 78
14253574 AGCTACCATT
*
14253584 CAATCTCATACCCCGATCATGGGGCAGATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGCAG
1 CAATCTCATACCCCGATCATGGGGCAAATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGCAG
14253649 ATTGAAGATACAC
66 ATTGAAGATACAC
* * * *
14253662 CAATCTCATATCCCGATCATGGGGCAAATTGAAGCATCCAATCTTTTGCCCTAATCAGAGGGCAG
1 CAATCTCATACCCCGATCATGGGGCAAATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGCAG
14253727 ATTGAAG
66 ATTGAAG
14253734 CATCCAATCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
78 67 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.24
Consensus pattern (78 bp):
CAATCTCATACCCCGATCATGGGGCAAATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGCAG
ATTGAAGATACAC
Found at i:14253742 original size:116 final size:114
Alignment explanation
Indices: 14253609--14254166 Score: 475
Period size: 116 Copynumber: 4.7 Consensus size: 114
14253599 ATCATGGGGC
* * *
14253609 AGATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGATACACCAATCTCATATC
1 AGATTGAAGCAT-CAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACACACCAATCTCTTA-C
* *
14253674 CCGATCATGGGGCAAATTGAAGCATCCAATCTTTTGCCCTAATCAGAGGGC
64 CCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGA
*
14253725 AGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCAGATTGAAGACACACCAATCTCTTACC
1 AGATTGAAGCAT-CAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACACACCAATCTCTTA-C
*
14253790 CCGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCT-A--AGAGGGA
64 CCGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGA
* * * * * * **
14253838 AAATTGAAGAGACATCGATCTTTTACCTTGATC-ATGAGGCAGATTGACAGATTGAAGCATTTAA
1 AGATTG-A-AG-CATCAATCTTTTACCCTAATCAAAG-GGCAGATTGA-AGA---CA-CA-CCAA
* * ** * * * *
14253902 TCTTTTACCCTAATCAAAGGGTAAATTGAAGACACACCAATCTTTGACCCTAATCAGAGAGTA
56 TCTCTTACCC-GATCATGGGGCAAATTGAAG-CA-TCCAATCTTTTACCCTAATCAGAG-GGA
* * * ** *
14253965 A-ATTAAAACATTCAATCTTTTACCCTAATCAAAGGGAAGATTGAAGACACATTAATCTCTCACC
1 AGATTGAAGCA-TCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACACACCAATCTCTTACC
* * * * *
14254029 TCGATCATGGGGTAGATTGAAGCATCCAACCTTTTACCTTAATTAGAGGGA
65 -CGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGA
* **
14254080 AGATTGAAGACAAATCGATCTTTTACCCTAATCACGGGGCA-AGTTGAAG-C-CATCCAATCTCT
1 AGATTGAAG-C--ATCAATCTTTTACCCTAATCAAAGGGCAGA-TTGAAGACACA-CCAATCTCT
* * *
14254142 TACCCGATCAAGGGACAGATTGAAG
61 TACCCGATCATGGGGCAAATTGAAG
14254167 ATACCATCTA
Statistics
Matches: 358, Mismatches: 58, Indels: 52
0.76 0.12 0.11
Matches are distributed among these distances:
113 11 0.03
114 2 0.01
115 31 0.09
116 148 0.41
117 15 0.04
118 56 0.16
119 5 0.01
120 6 0.02
121 23 0.06
122 2 0.01
123 19 0.05
124 27 0.08
125 3 0.01
126 7 0.02
127 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (114 bp):
AGATTGAAGCATCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGACACACCAATCTCTTACCC
GATCATGGGGCAAATTGAAGCATCCAATCTTTTACCCTAATCAGAGGGA
Found at i:14253781 original size:78 final size:79
Alignment explanation
Indices: 14253621--14254208 Score: 415
Period size: 78 Copynumber: 7.5 Consensus size: 79
14253611 ATTAAAGCAT
* ** * **
14253621 CCAATCTTTTACCCTAATCA-AAGGGCAGATTGAAG-ATACACCAATCTCATATCCC-GATCATG
1 CCAATCTTTTACCCTAATCATGAGGGCAGATTGAAGCAT---CCAATCTTTTA-CCCTAATCAAA
*
14253683 GGGCAA-ATTGAAG-CA-T
62 GGG-AAGATTGAAGACACA
* * *
14253699 CCAATCTTTTGCCCTAATCA-GAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGC
1 CCAATCTTTTACCCTAATCATGAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAGGGA
14253763 AGATTGAAGACACA
66 AGATTGAAGACACA
* ** *
14253777 CCAATCTCTTACCCCGATCATG-GGGCAGATTGAAGCATCCAATCTTTTACCCT-A--AGAGGGA
1 CCAATCTTTTACCCTAATCATGAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAGGGA
* *
14253838 AAATTGAAGAGACA
66 AGATTGAAGACACA
* * * * **
14253852 TCGATCTTTTACCTTGATCATGAGGCAGATTGACAGATTGAAGCATTTAATCTTTTACCCTAATC
1 CCAATCTTTTACCCTAATCATGA-G--G---G-CAGATTGAAGCATCCAATCTTTTACCCTAATC
14253917 AAAGGGTAA-ATTGAAGACACA
59 AAAGGG-AAGATTGAAGACACA
* * * * * * *
14253938 CCAATCTTTGACCCTAATCA-GAGAGTAAATTAAAACATTCAATCTTTTACCCTAATCAAAGGGA
1 CCAATCTTTTACCCTAATCATGAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAGGGA
14254002 AGATTGAAGACACA
66 AGATTGAAGACACA
** * * * * * * * *
14254016 TTAATCTCTCA-CCTCGATCATG-GGGTAGATTGAAGCATCCAACCTTTTACCTTAATTAGAGGG
1 CCAATCTTTTACCCT-AATCATGAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAGGG
*
14254079 AAGATTGAAGACAAA
65 AAGATTGAAGACACA
* * * * *
14254094 TCGATCTTTTACCCTAATCACG-GGGCA-AGTTGAAGCCATCCAATCTCTTACCC-GATC-AAGG
1 CCAATCTTTTACCCTAATCATGAGGGCAGA-TTGAAG-CATCCAATCTTTTACCCTAATCAAAGG
*
14254155 GACAGATTGAAGATACCA
64 GA-AGATTGAAGACA-CA
* * **
14254173 TCTAATCTCTTACCCCGATCAT-AGGGCAGATTGAAG
1 -CCAATCTTTTACCCTAATCATGAGGGCAGATTGAAG
14254209 GCCTCATCCA
Statistics
Matches: 405, Mismatches: 76, Indels: 56
0.75 0.14 0.10
Matches are distributed among these distances:
75 37 0.09
76 22 0.05
77 15 0.04
78 217 0.54
79 24 0.06
80 25 0.06
81 1 0.00
82 1 0.00
83 26 0.06
84 2 0.00
85 2 0.00
86 31 0.08
87 2 0.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (79 bp):
CCAATCTTTTACCCTAATCATGAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAGGGA
AGATTGAAGACACA
Found at i:14253955 original size:40 final size:41
Alignment explanation
Indices: 14253618--14254146 Score: 238
Period size: 40 Copynumber: 13.4 Consensus size: 41
14253608 CAGATTAAAG
* * *
14253618 CATCCAATCTTTTACCCTAATCAAAGGGCAGATTGAAGATA
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
** * ** *
14253659 CA-CCAATCTCATATCCC-GATCATGGGGCAAATTGAAG---
1 CATCCAATCTTTTA-CCCTAATCAAAGGGTAAATTGAAGACA
* * * *
14253696 CATCCAATCTTTTGCCCTAATCAGAGGGCAGATTGAAG---
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
* * *
14253734 CATCCAATCTTTTACCCTAATCAAAAGGCAGATTGAAGACA
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
* ** ** * *
14253775 CA-CCAATCTCTTACCCCGATCATGGGGCAGATTGAAG---
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
* * *
14253812 CATCCAATCTTTTACCCT-A--AGAGGGAAAATTGAAGAGA
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
* * * * * * *
14253850 CAT-CGATCTTTTACCTTGATC-ATGAGGCAGATTGACAGATTGAA
1 CATCCAATCTTTTACCCTAATCAAAG-GGTAAATTGA-AGA---CA
**
14253894 GCATTTAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
1 -CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
* * *
14253936 CA-CCAATCTTTGACCCTAATCAGAGAGTAAATT-AA-A-A
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
*
14253973 CATTCAATCTTTTACCCTAATCAAAGGG-AAGATTGAAGACA
1 CATCCAATCTTTTACCCTAATCAAAGGGTAA-ATTGAAGACA
* * * * ** *
14254014 CAT-TAATCTCTCA-CCTCGATCATGGGGTAGATTGAAG---
1 CATCCAATCTTTTACCCT-AATCAAAGGGTAAATTGAAGACA
* * * *
14254051 CATCCAACCTTTTACCTTAATTAGAGGG-AAGATTGAAGACA
1 CATCCAATCTTTTACCCTAATCAAAGGGTAA-ATTGAAGACA
* * ** * *
14254092 AAT-CGATCTTTTACCCTAATCACGGGGCAAGTTGAAG-C-
1 CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
*
14254130 CATCCAATCTCTTACCC
1 CATCCAATCTTTTACCC
14254147 GATCAAGGGA
Statistics
Matches: 372, Mismatches: 80, Indels: 74
0.71 0.15 0.14
Matches are distributed among these distances:
35 12 0.03
37 29 0.08
38 122 0.33
39 22 0.06
40 134 0.36
41 21 0.06
42 1 0.00
44 1 0.00
45 6 0.02
46 22 0.06
47 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (41 bp):
CATCCAATCTTTTACCCTAATCAAAGGGTAAATTGAAGACA
Found at i:14254101 original size:156 final size:158
Alignment explanation
Indices: 14253715--14254208 Score: 375
Period size: 161 Copynumber: 3.1 Consensus size: 158
14253705 TTTTGCCCTA
* * * * * *
14253715 ATCAGAGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCAGATTGAAGACACACCA
1 ATCATAGGGCAGATTGAAGCATCCAACCTTTTACCCTAATCAAAGGGTAAATTGAAGACAAACCA
** * * * * * * *
14253780 ATCTCTT-ACCCCGATCATGGGGCAGATTG-AAGCATCCAATCTTTTACCCTAA--GAGGGA-AA
66 ATCT-TTGACCCTAATCACGGAGCAAATTGAAAACATCCAATCTCTTACCC-AATCAAGGGACAG
* * * * **
14253840 ATTGAAGAGA-CATC-GATCTTTTACCTTG
129 ATTGAAGACACCATCTAATCTCTCACCCCG
** *
14253868 ATCATGAGGCAGATTGACAGATTGAAGCATTTAATCTTTTACCCTAATCAAAGGGTAAATTGAAG
1 ATCAT-A-G--G---G-CAGATTGAAGCATCCAACCTTTTACCCTAATCAAAGGGTAAATTGAAG
* * * *
14253933 ACACACCAATCTTTGACCCTAATCA-GAGAGTAAATT-AAAACATTCAATCTTTTACCCTAATCA
58 ACAAACCAATCTTTGACCCTAATCACG-GAGCAAATTGAAAACATCCAATCTCTTACCC-AATC-
*
14253996 AAGGGA-AGATTGAAGACA-CAT-TAATCTCTCACCTCG
120 AAGGGACAGATTGAAGACACCATCTAATCTCTCACCCCG
* * * * * *
14254032 ATCATGGGGTAGATTGAAGCATCCAACCTTTTACCTTAATTAGAGGG-AAGATTGAAGACAAATC
1 ATCATAGGGCAGATTGAAGCATCCAACCTTTTACCCTAATCAAAGGGTAA-ATTGAAGACAAACC
* * * * ** *
14254096 GATCTTTTACCCTAATCACGGGGCAAGTTGAAGCCATCCAATCTCTTACCCGATCAAGGGACAGA
65 AATCTTTGACCCTAATCACGGAGCAAATTGAAAACATCCAATCTCTTACCCAATCAAGGGACAGA
* *
14254161 TTGAAGATACCATCTAATCTCTTACCCCG
130 TTGAAGACACCATCTAATCTCTCACCCCG
14254190 ATCATAGGGCAGATTGAAG
1 ATCATAGGGCAGATTGAAG
14254209 GCCTCATCCA
Statistics
Matches: 275, Mismatches: 45, Indels: 37
0.77 0.13 0.10
Matches are distributed among these distances:
153 4 0.01
154 1 0.00
155 9 0.03
156 79 0.29
157 23 0.08
158 30 0.11
160 5 0.02
161 90 0.33
162 1 0.00
164 33 0.12
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (158 bp):
ATCATAGGGCAGATTGAAGCATCCAACCTTTTACCCTAATCAAAGGGTAAATTGAAGACAAACCA
ATCTTTGACCCTAATCACGGAGCAAATTGAAAACATCCAATCTCTTACCCAATCAAGGGACAGAT
TGAAGACACCATCTAATCTCTCACCCCG
Found at i:14254203 original size:42 final size:41
Alignment explanation
Indices: 14254129--14254258 Score: 149
Period size: 42 Copynumber: 3.1 Consensus size: 41
14254119 CAAGTTGAAG
14254129 CCATCCAATCTCTTA-CCCGATCA-AGGGACAGATTGAAGATA
1 CCATCCAATCTCTTACCCCGATCATAGGG-CAGATTGAAG-TA
* **
14254170 CCATCTAATCTCTTACCCCGATCATAGGGCAGATTGAAGGC
1 CCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGTA
* *
14254211 CTCATCCAATCTCTTACCACAATCAT-GTGGCAGATTGAAGCTA
1 C-CATCCAATCTCTTACCCCGATCATAG-GGCAGATTGAAG-TA
14254254 CCATC
1 CCATC
14254259 TTACAGAAGT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
41 16 0.21
42 55 0.72
43 5 0.07
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (41 bp):
CCATCCAATCTCTTACCCCGATCATAGGGCAGATTGAAGTA
Found at i:14259154 original size:23 final size:23
Alignment explanation
Indices: 14259124--14259172 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
14259114 AAATGAGCAG
14259124 TTTTGTTGTCCCTCCATTTCCCC
1 TTTTGTTGTCCCTCCATTTCCCC
* *
14259147 TTTTGTTGTCCCTTCATTTTCCC
1 TTTTGTTGTCCCTCCATTTCCCC
14259170 TTT
1 TTT
14259173 GATTGAATTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.04, C:0.33, G:0.08, T:0.55
Consensus pattern (23 bp):
TTTTGTTGTCCCTCCATTTCCCC
Found at i:14259598 original size:50 final size:49
Alignment explanation
Indices: 14259459--14259598 Score: 145
Period size: 49 Copynumber: 2.8 Consensus size: 49
14259449 TGCTTAAATA
* * * * *
14259459 TAATTAACATATGAAATGCATAAATGCATGGCTTAATTAAAATATAAATT
1 TAATTAACATATGAAATGC-TTAATGCATGACTTAATTAAAACACAAACT
* * * * *
14259509 TATTTAACATATGAATTACATAATGCATGACATAATTAAAACACAAACT
1 TAATTAACATATGAAATGCTTAATGCATGACTTAATTAAAACACAAACT
* * *
14259558 TAATTAACATGTGAAATGCTTTTATGCATGATTTAATTAAA
1 TAATTAACATATGAAATGC-TTAATGCATGACTTAATTAAA
14259599 TGTAGAATAC
Statistics
Matches: 71, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
49 38 0.54
50 33 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (49 bp):
TAATTAACATATGAAATGCTTAATGCATGACTTAATTAAAACACAAACT
Found at i:14261717 original size:3 final size:3
Alignment explanation
Indices: 14261709--14261747 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
14261699 AATTAGGCAT
14261709 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TT
14261748 GTTAGAGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14264223 original size:12 final size:13
Alignment explanation
Indices: 14264195--14264228 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
14264185 GTCATTTTGT
*
14264195 TTTTATTTTCTAT
1 TTTTATTTTCTAC
14264208 TTTTATTTTCT-C
1 TTTTATTTTCTAC
14264220 TTTTATTTT
1 TTTTATTTT
14264229 ATGCTCTTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTATTTTCTAC
Found at i:14264763 original size:12 final size:13
Alignment explanation
Indices: 14264734--14264768 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
14264724 ATTCATTTTG
14264734 CTTTTATTTTCTA
1 CTTTTATTTTCTA
*
14264747 TTTTTATTTTCT-
1 CTTTTATTTTCTA
14264759 CTTTTATTTT
1 CTTTTATTTT
14264769 ATGCTCTTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (13 bp):
CTTTTATTTTCTA
Found at i:14279962 original size:17 final size:17
Alignment explanation
Indices: 14279940--14280043 Score: 118
Period size: 17 Copynumber: 6.0 Consensus size: 17
14279930 AACTTTTAAT
*
14279940 TTTTAAATTTTAATTTA
1 TTTTAAATTTAAATTTA
*
14279957 TTTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
*
14279974 TTCTTAAATTTAAATTCA
1 TT-TTAAATTTAAATTTA
* *
14279992 TTTTTGAGTTTAAATTTA
1 -TTTTAAATTTAAATTTA
* *
14280010 CTTTAAATTTGAATTTA
1 TTTTAAATTTAAATTTA
*
14280027 TTTTAAATTAAAATTTA
1 TTTTAAATTTAAATTTA
14280044 ATATTAAAAG
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
17 45 0.62
18 25 0.35
19 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:14279981 original size:35 final size:34
Alignment explanation
Indices: 14279941--14280043 Score: 116
Period size: 35 Copynumber: 3.0 Consensus size: 34
14279931 ACTTTTAATT
* * *
14279941 TTTAAATTTTAATTTATTTTAAATTTGAATTTAT
1 TTTAAATTTAAATTTATTTTAAATTTAAATTTAC
* * *
14279975 TCTTAAATTTAAATTCATTTTTGAGTTTAAATTTAC
1 T-TTAAATTTAAATTTA-TTTTAAATTTAAATTTAC
* *
14280011 TTTAAATTTGAATTTATTTTAAATTAAAATTTA
1 TTTAAATTTAAATTTATTTTAAATTTAAATTTA
14280044 ATATTAAAAG
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
34 15 0.27
35 26 0.46
36 15 0.27
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.56
Consensus pattern (34 bp):
TTTAAATTTAAATTTATTTTAAATTTAAATTTAC
Found at i:14279986 original size:6 final size:6
Alignment explanation
Indices: 14279941--14280044 Score: 54
Period size: 6 Copynumber: 17.8 Consensus size: 6
14279931 ACTTTTAATT
* * * *
14279941 TTTAAA TTTTAA TTT-AT TTTAAA TTTGAA TTT-AT TCTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
* ** * * * * *
14279988 TTCATT TTTGAG TTTAAA TTT-AC TTTAAA TTTGAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
14280034 TTAAAA TTTAA
1 TTTAAA TTTAA
14280045 TATTAAAAGT
Statistics
Matches: 71, Mismatches: 22, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
5 14 0.20
6 55 0.77
7 2 0.03
ACGTcount: A:0.38, C:0.03, G:0.04, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:14279995 original size:53 final size:52
Alignment explanation
Indices: 14279938--14280041 Score: 154
Period size: 53 Copynumber: 2.0 Consensus size: 52
14279928 CCAACTTTTA
* * *
14279938 ATTTTTAAATTTTAATTTATTTTAAATTTGAATTTATTCTTAAATTTAAATTC
1 ATTTTTAAATTTAAATTTACTTTAAATTTGAATTTATT-TTAAATTAAAATTC
* *
14279991 ATTTTTGAGTTTAAATTTACTTTAAATTTGAATTTATTTTAAATTAAAATT
1 ATTTTTAAATTTAAATTTACTTTAAATTTGAATTTATTTTAAATTAAAATT
14280042 TAATATTAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
52 12 0.26
53 34 0.74
ACGTcount: A:0.37, C:0.03, G:0.04, T:0.57
Consensus pattern (52 bp):
ATTTTTAAATTTAAATTTACTTTAAATTTGAATTTATTTTAAATTAAAATTC
Found at i:14281896 original size:29 final size:29
Alignment explanation
Indices: 14281785--14282134 Score: 180
Period size: 30 Copynumber: 11.9 Consensus size: 29
14281775 TGAGGTCTCT
* * * *
14281785 AAACTATCCAAAAATCATATTTTGACCCCT
1 AAACT-TCCAAAAATTACATTTTTACCCCC
* * * *
14281815 AAACTTTTCAAAAATTGCATTTTGACCCTC
1 AAAC-TTCCAAAAATTACATTTTTACCCCC
*
14281845 AAACTTCATAAAAATTACATTTTTACCCCC
1 AAACTTC-CAAAAATTACATTTTTACCCCC
**
14281875 AAACTTCCAAAAATTACATTTTTACCCTT
1 AAACTTCCAAAAATTACATTTTTACCCCC
* * *
14281904 AAATTTCCAAAAAATTCCATTTTTGA-CCCT
1 AAACTTCC-AAAAATTACATTTTT-ACCCCC
*
14281934 AAACTTCCAAAAATTATCA-TTTTACCCTC
1 AAACTTCCAAAAATTA-CATTTTTACCCCC
* * ** *
14281963 -GATTTCCAAAAATTATGTTTTTGCCCCC
1 AAACTTCCAAAAATTACATTTTTACCCCC
* * *
14281991 GAACTTTCCAAAAATTACCA-TTTTATCTCC
1 AAAC-TTCCAAAAATTA-CATTTTTACCCCC
** * *
14282021 GGA-TGTCCAAAAATTCCACTTTTGA-CCCC
1 AAACT-TCCAAAAATTACA-TTTTTACCCCC
* * *
14282050 GAACCTCCAAAAATTACCA-TTTTATCCCCG
1 AAACTTCCAAAAATTA-CATTTTTA-CCCCC
* *
14282080 AGTA-TT-CAAAAATTACAATTTTACCCCC
1 A-AACTTCCAAAAATTACATTTTTACCCCC
* * * *
14282108 GATCATCCCAAAATTAC-TATTTTACCC
1 AAACTTCCAAAAATTACAT-TTTTACCC
14282135 TCAGGTATCC
Statistics
Matches: 245, Mismatches: 53, Indels: 45
0.71 0.15 0.13
Matches are distributed among these distances:
28 36 0.15
29 98 0.40
30 108 0.44
31 3 0.01
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (29 bp):
AAACTTCCAAAAATTACATTTTTACCCCC
Found at i:14281917 original size:59 final size:61
Alignment explanation
Indices: 14281794--14282014 Score: 199
Period size: 59 Copynumber: 3.7 Consensus size: 61
14281784 TAAACTATCC
* * * * * * * * *
14281794 AAAAATCATATTTTGACCCCTAAACTTTTCAAAAATT-GCATTTTGACCCTCAAACTT-CA
1 AAAAATTACATTTTTACCCCCAAACTTTCCAAAAATTACCATTTTTACCCTTAAATTTCCA
14281853 TAAAAATTACATTTTTACCCCCAAAC-TTCCAAAAATTA-CATTTTTACCCTTAAATTTCCA
1 -AAAAATTACATTTTTACCCCCAAACTTTCCAAAAATTACCATTTTTACCCTTAAATTTCCA
* * * **
14281913 AAAAATTCCATTTTTGA-CCCTAAAC-TTCCAAAAATTATCA-TTTTACCC-TCGATTTCC-
1 AAAAATTACATTTTT-ACCCCCAAACTTTCCAAAAATTACCATTTTTACCCTTAAATTTCCA
** * *
14281970 AAAAATTATGTTTTTGCCCCCGAACTTTCCAAAAATTACCATTTT
1 AAAAATTACATTTTTACCCCCAAACTTTCCAAAAATTACCATTTT
14282015 ATCTCCGGAT
Statistics
Matches: 135, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
57 18 0.13
58 21 0.16
59 70 0.52
60 26 0.19
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (61 bp):
AAAAATTACATTTTTACCCCCAAACTTTCCAAAAATTACCATTTTTACCCTTAAATTTCCA
Found at i:14282002 original size:58 final size:57
Alignment explanation
Indices: 14281854--14282106 Score: 230
Period size: 59 Copynumber: 4.4 Consensus size: 57
14281844 CAAACTTCAT
**
14281854 AAAAATTACATTTTT-ACCCCCAAACTTCCAAAAATTA-CATTTT-TACCCTTAAATTTCC
1 AAAAATTACATTTTTGA-CCCCAAACTTCCAAAAATTACCATTTTAT-CCC--CGATTTCC
* * *
14281912 AAAAAATTCCATTTTTGACCCTAAACTTCCAAAAATTATCATTTTA-CCCTCGATTTCC
1 -AAAAATTACATTTTTGACCCCAAACTTCCAAAAATTACCATTTTATCCC-CGATTTCC
** * * * *
14281970 AAAAATTATGTTTTTGCCCCCGAACTTTCCAAAAATTACCATTTTATCTCCGGATGTCC
1 AAAAATTACATTTTTGACCCCAAAC-TTCCAAAAATTACCATTTTATC-CCCGATTTCC
* * * *
14282029 AAAAATTCCACTTTTGACCCCGAACCTCCAAAAATTACCATTTTATCCCCGAGTATT-C
1 AAAAATTACATTTTTGACCCCAAACTTCCAAAAATTACCATTTTATCCCCGA-T-TTCC
*
14282087 AAAAATTACAATTTT-ACCCC
1 AAAAATTACATTTTTGACCCC
14282107 CGATCATCCC
Statistics
Matches: 163, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
57 28 0.17
58 62 0.38
59 64 0.39
60 9 0.06
ACGTcount: A:0.34, C:0.27, G:0.05, T:0.34
Consensus pattern (57 bp):
AAAAATTACATTTTTGACCCCAAACTTCCAAAAATTACCATTTTATCCCCGATTTCC
Found at i:14282108 original size:58 final size:59
Alignment explanation
Indices: 14281854--14282131 Score: 191
Period size: 58 Copynumber: 4.8 Consensus size: 59
14281844 CAAACTTCAT
* * * ** *
14281854 AAAAATTACATTTTTACCCCCAAACTTCCAAAAATTA-CATTTT-TACCCTTA-AATTTCC
1 AAAAATTACAATTTTACCCCCGAACATCCAAAAATTACCATTTTAT-CCCCGAGTA-TTCC
* * ** * *
14281912 AAAAAATTCCATTTTTGA-CCCTAAACTTCCAAAAATTATCATTTTA-CCCTCGA-T-TTCC
1 -AAAAATTACAATTTT-ACCCCCGAACATCCAAAAATTACCATTTTATCCC-CGAGTATTCC
*** * * *
14281970 AAAAATTATGTTTTTGCCCCCGAACTTTCCAAAAATTACCATTTTATCTCCG-G-ATGTCC
1 AAAAATTACAATTTTACCCCCGAAC-ATCCAAAAATTACCATTTTATCCCCGAGTAT-TCC
* * *
14282029 AAAAATTCCACTTTTGA-CCCCGAACCTCCAAAAATTACCATTTTATCCCCGAGTATT-C
1 AAAAATTACAATTTT-ACCCCCGAACATCCAAAAATTACCATTTTATCCCCGAGTATTCC
* * *
14282087 AAAAATTACAATTTTACCCCCGATCATCCCAAAATTACTATTTTA
1 AAAAATTACAATTTTACCCCCGAACATCCAAAAATTACCATTTTA
14282132 CCCTCAGGTA
Statistics
Matches: 179, Mismatches: 26, Indels: 29
0.76 0.11 0.12
Matches are distributed among these distances:
57 19 0.11
58 88 0.49
59 62 0.35
60 10 0.06
ACGTcount: A:0.35, C:0.27, G:0.05, T:0.34
Consensus pattern (59 bp):
AAAAATTACAATTTTACCCCCGAACATCCAAAAATTACCATTTTATCCCCGAGTATTCC
Found at i:14282160 original size:116 final size:114
Alignment explanation
Indices: 14281789--14282162 Score: 312
Period size: 116 Copynumber: 3.2 Consensus size: 114
14281779 GTCTCTAAAC
* * * * *
14281789 TATCCAAAAA-T-CATATTTTGACCCCTAAACTTTTCAAAAATT-GCATTTTGACCCTCAAACTT
1 TATCCAAAAATTCCAT-TTTTGACCCC-AAAC-CTCCAAAAATTACCATTTT-ACCCTC-GATTT
* * * **
14281851 CATAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTACATTTTTACCCTTAAA
61 C-CAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTACA-TTTTACCCTCAGG
* * * *
14281907 TTTCCAAAAAATTCCATTTTTGACCCTAAACTTCCAAAAATTATCATTTTACCCTCGATTTCCAA
1 TATCC-AAAAATTCCATTTTTGACCCCAAACCTCCAAAAATTACCATTTTACCCTCGATTTCCAA
** * * *
14281972 AAATTATGTTTTTGCCCCCGAACTTTCCAAAAATTACCATTTTA-TCTCCGG
65 AAATTACATTTTTACCCCCGAAC-TTCCAAAAATTA-CATTTTACCCTCAGG
* * *
14282023 ATGTCCAAAAATTCCACTTTTGACCCCGAACCTCCAAAAATTACCATTTTATCCC-CGAGTATT-
1 -TATCCAAAAATTCCATTTTTGACCCCAAACCTCCAAAAATTACCATTTTA-CCCTCGA-T-TTC
* * * *
14282086 CAAAAATTACAATTTTACCCCCGATCATCCCAAAATTACTATTTTACCCTCAGG
62 CAAAAATTACATTTTTACCCCCGAACTTCCAAAAATTAC-ATTTTACCCTCAGG
*
14282140 TATCCAGAAA-TCGCATTTTTGAC
1 TATCCAAAAATTC-CATTTTTGAC
14282163 TCCGTTTGTT
Statistics
Matches: 209, Mismatches: 34, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
115 3 0.01
116 99 0.47
117 55 0.26
118 24 0.11
119 15 0.07
120 10 0.05
121 3 0.01
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (114 bp):
TATCCAAAAATTCCATTTTTGACCCCAAACCTCCAAAAATTACCATTTTACCCTCGATTTCCAAA
AATTACATTTTTACCCCCGAACTTCCAAAAATTACATTTTACCCTCAGG
Done.