Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 57 of 250
Found at i:17900903 original size:23 final size:23
Alignment explanation
Indices: 17900871--17900914 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
17900861 AAAATTTCAC
* *
17900871 ACATGTAATTTCACATATAATAG
1 ACATGAAATTTAACATATAATAG
*
17900894 ACATGAAATTTAACATTTAAT
1 ACATGAAATTTAACATATAAT
17900915 TATTTTTGCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
ACATGAAATTTAACATATAATAG
Found at i:17901098 original size:38 final size:38
Alignment explanation
Indices: 17900983--17901151 Score: 203
Period size: 38 Copynumber: 4.4 Consensus size: 38
17900973 GGATGTTACA
* *
17900983 GGTAATATATCCGGGTTAAATACCGCAGGCTTCGTGCT
1 GGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCT
* *
17901021 GGTAATATATCCAGGCTTAAAGACCCGCAGGCTTTGTGCT
1 GGTAATATATCCAGG-TTAAA-TCCCGCAGGCTTCGTGCT
* *
17901061 GGTAATATATCTAGGTTAAATCCCGCAAGCTTCGTGCT
1 GGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCT
* * * * *
17901099 GGTATTATATCCGGGTTAAATCCCGCAGGCCTAGTACT
1 GGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCT
* *
17901137 GGTATTATATTCAGG
1 GGTAATATATCCAGG
17901152 CCTTTGAGCC
Statistics
Matches: 112, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
38 73 0.65
39 10 0.09
40 29 0.26
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.30
Consensus pattern (38 bp):
GGTAATATATCCAGGTTAAATCCCGCAGGCTTCGTGCT
Found at i:17902782 original size:10 final size:11
Alignment explanation
Indices: 17902761--17902786 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
17902751 TGCTAAAATA
17902761 TTTTTAATTTT
1 TTTTTAATTTT
17902772 TTTTTAATTTT
1 TTTTTAATTTT
17902783 TTTT
1 TTTT
17902787 GCAAACCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTAATTTT
Found at i:17904837 original size:40 final size:40
Alignment explanation
Indices: 17904790--17904989 Score: 143
Period size: 43 Copynumber: 4.8 Consensus size: 40
17904780 TTTTATCAAA
* *
17904790 TCACCGGCATTTAGCCTGCTAGGTTTTAAACCCAAATTCA-
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCC-AATTCAT
*** * ** *
17904830 TCACCGGCACGAAGCCTGCTAGACTTTAAGTCTGAACTCAT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAG-CCCAATTCAT
* *
17904871 TCACCGGCATTTCGCCTGCTAGGCTTGAAGCCCAATATCATT
1 TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCAAT-TCA-T
* ***
17904913 TCACTGGCATTATAGCCTGCTAGGCCCAAAGCCCGATATT-AT
1 TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCC-A-ATTCAT
* * *
17904955 CTCACCAGCATTATAGCCTGCTAGGCCTGAAGCCC
1 -TCACCGGCATT-TAGCCTGCTAGGCTTTAAGCCC
17904990 GATAATATTA
Statistics
Matches: 125, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
40 32 0.26
41 28 0.22
42 12 0.10
43 49 0.39
44 2 0.02
45 2 0.02
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.26
Consensus pattern (40 bp):
TCACCGGCATTTAGCCTGCTAGGCTTTAAGCCCAATTCAT
Found at i:17904937 original size:43 final size:43
Alignment explanation
Indices: 17904870--17905040 Score: 152
Period size: 43 Copynumber: 4.0 Consensus size: 43
17904860 TCTGAACTCA
* *
17904870 TTCACCGGCATT-TCGCCTGCTAGGCTTGAAGCCCAATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAATATCAT
* ** * *
17904912 TTCACTGGCATTATAGCCTGCTAGGCCCAAAGCCCGATATTAT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAATATCAT
* * *
17904955 CTCACCAGCATTATAGCCTGCTAGGCCTGAAGCCCGATAAT-ATT
1 TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAAT-ATCA-T
* * * *
17904999 ATTCACCAGC-TTAAAGCTTGCTAGGCC-GAGGCCCGAATATCA
1 -TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCC-AATATCA
17905041 CATTTCGATA
Statistics
Matches: 106, Mismatches: 17, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
42 11 0.10
43 66 0.62
44 21 0.20
45 8 0.08
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCTGAAGCCCAATATCAT
Found at i:17909338 original size:48 final size:48
Alignment explanation
Indices: 17909267--17909362 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
17909257 CAACCTATCC
* *
17909267 AGATTCCTTAGTTGAAATGGAAGCGTATCACCATGGACTTTATTAATG
1 AGATTCCTTAATTGAAATGGAAGCATATCACCATGGACTTTATTAATG
17909315 AGATTCCTTAATTGAAATGGAAGCATATCACCATGGACTTTATTAATG
1 AGATTCCTTAATTGAAATGGAAGCATATCACCATGGACTTTATTAATG
17909363 GCCTACCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (48 bp):
AGATTCCTTAATTGAAATGGAAGCATATCACCATGGACTTTATTAATG
Found at i:17913979 original size:15 final size:15
Alignment explanation
Indices: 17913959--17914006 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
17913949 TCAAAGGTGG
17913959 GTTTATGGATATGAA
1 GTTTATGGATATGAA
* * *
17913974 GTTTATGTAGATGGA
1 GTTTATGGATATGAA
*
17913989 -TTTATGGATATAAA
1 GTTTATGGATATGAA
17914003 GTTT
1 GTTT
17914007 TTGTAGGTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (15 bp):
GTTTATGGATATGAA
Found at i:17914778 original size:14 final size:14
Alignment explanation
Indices: 17914736--17914780 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
17914726 TTAAAGAAGC
17914736 AACTCATTAAATTA
1 AACTCATTAAATTA
* *
17914750 AATTCATCAAA-TA
1 AACTCATTAAATTA
*
17914763 AACTCATTTAATTA
1 AACTCATTAAATTA
17914777 AACT
1 AACT
17914781 AAGATGAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.36
Consensus pattern (14 bp):
AACTCATTAAATTA
Found at i:17917433 original size:30 final size:30
Alignment explanation
Indices: 17917362--17917444 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
17917352 CTTTTGTTTC
* *
17917362 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
17917393 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
17917422 ATTTTCTTTTTCTTTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
17917445 TTTTTCAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.01, T:0.65
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:17917460 original size:12 final size:12
Alignment explanation
Indices: 17917445--17917476 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
17917435 TTTTCTTTTT
17917445 TTTTTCAAAGGC
1 TTTTTCAAAGGC
17917457 TTTTTCAAAGGC
1 TTTTTCAAAGGC
17917469 TTTTTCAA
1 TTTTTCAA
17917477 GTTCTCTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.25, C:0.16, G:0.12, T:0.47
Consensus pattern (12 bp):
TTTTTCAAAGGC
Found at i:17919715 original size:30 final size:30
Alignment explanation
Indices: 17919681--17919777 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
17919671 TAAACTAAAA
* *
17919681 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
17919711 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
17919741 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
17919771 TGAGCTA
1 TGAGCTA
17919778 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:17923995 original size:27 final size:27
Alignment explanation
Indices: 17923757--17924007 Score: 317
Period size: 27 Copynumber: 9.4 Consensus size: 27
17923747 ATACAGAAGT
*
17923757 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
*
17923784 ATTACGATCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
17923811 ATTATGGTTATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * ** *
17923838 ATTATGGTTATTTTACCCTACAAAGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
17923865 ATTACAGCCATTTTACCCTACA-GGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
17923891 ATTA-GGTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
**
17923917 ATTACGGTCATTTTACCCTACAGGGAT
1 ATTACGGTCATTTTACCCTACAGGGGC
***
17923944 ATTATTTTCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
17923971 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
17923998 ATTACAGTCA
1 ATTACGGTCA
17924008 AATAACGACC
Statistics
Matches: 193, Mismatches: 29, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
25 15 0.08
26 14 0.07
27 164 0.85
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGC
Found at i:17924000 original size:133 final size:134
Alignment explanation
Indices: 17923757--17924004 Score: 383
Period size: 133 Copynumber: 1.9 Consensus size: 134
17923747 ATACAGAAGT
*
17923757 ATTACGGTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGGCATTATGGTTAT
1 ATTACGGTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTATGGTTAT
* *
17923822 TTTACCCTACAGGGGCATTATGGTTATTTTACCCTACAAAGGTATTACAGCCATTTTACCCTACA
66 TTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAAGGTATTACAGCCATTTTACCCTACA
17923887 GGGC
131 GGGC
* * * *
17923891 ATTA-GGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGATATTAT-TTTCA
1 ATTACGGTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTATGGTT-A
* **
17923954 TTTTACCCTACAGGGGCATTACGGTCATTTTACCCTATAGGGGTATTACAG
65 TTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAAGGTATTACAG
17924005 TCAAATAACG
Statistics
Matches: 103, Mismatches: 10, Indels: 3
0.89 0.09 0.03
Matches are distributed among these distances:
132 2 0.02
133 97 0.94
134 4 0.04
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (134 bp):
ATTACGGTCATTTTACCCTACAAGGGCATTACGATCATTTTACCCTACAGGGACATTATGGTTAT
TTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAAAGGTATTACAGCCATTTTACCCTACA
GGGC
Found at i:17924780 original size:19 final size:19
Alignment explanation
Indices: 17924756--17924795 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
17924746 TTGGCAGATT
17924756 CATGAACTAGTTGAATGGA
1 CATGAACTAGTTGAATGGA
17924775 CATGAACTAGTTGAATGGA
1 CATGAACTAGTTGAATGGA
17924794 CA
1 CA
17924796 CTTTCTTCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (19 bp):
CATGAACTAGTTGAATGGA
Found at i:17925651 original size:30 final size:30
Alignment explanation
Indices: 17925617--17925712 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
17925607 TAAACTAAAA
*
17925617 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
17925647 TGAGCTGAGC-TAAACTCCTAAGCTGAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* *
17925676 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
17925706 TGAGCTA
1 TGAGCTA
17925713 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
29 21 0.43
30 25 0.51
31 3 0.06
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:17928002 original size:15 final size:16
Alignment explanation
Indices: 17927962--17928018 Score: 89
Period size: 16 Copynumber: 3.6 Consensus size: 16
17927952 CTTGCCTCTC
17927962 TTTTCTTTTTATTTCA
1 TTTTCTTTTTATTTCA
17927978 TTTTCTTTTTATTTCA
1 TTTTCTTTTTATTTCA
* *
17927994 TTTTCTTTTT-CTTCT
1 TTTTCTTTTTATTTCA
17928009 TTTTCTTTTT
1 TTTTCTTTTT
17928019 CTTTTTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
15 13 0.33
16 26 0.67
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTTCTTTTTATTTCA
Found at i:17928005 original size:6 final size:6
Alignment explanation
Indices: 17927989--17928033 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
17927979 TTTCTTTTTA
*
17927989 TTTCAT TTTCTT TTTC-- -TTCTT TTTCTT TTTCTT TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT
17928033 T
1 T
17928034 GTTTTCTCTT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
3 3 0.09
5 5 0.15
6 26 0.76
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTCTT
Found at i:17928038 original size:21 final size:21
Alignment explanation
Indices: 17927960--17928044 Score: 84
Period size: 21 Copynumber: 4.0 Consensus size: 21
17927950 CTCTTGCCTC
*
17927960 TCTTTTCTTT-TTATTTCATTT
1 TCTTTTCTTTCTT-TTTCTTTT
* *
17927981 TCTTTTTATTTCATTTTCTTTT
1 TC-TTTTCTTTCTTTTTCTTTT
17928003 TCTTCTT-TTTCTTTTTCTTTT
1 TCTT-TTCTTTCTTTTTCTTTT
*
17928024 TCTTTTCTTTGTTTTCTCTTT
1 TCTTTTCTTTCTTTT-TCTTT
17928045 ACAAGAATGT
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
20 2 0.04
21 28 0.52
22 23 0.43
23 1 0.02
ACGTcount: A:0.05, C:0.16, G:0.01, T:0.78
Consensus pattern (21 bp):
TCTTTTCTTTCTTTTTCTTTT
Found at i:17928980 original size:18 final size:17
Alignment explanation
Indices: 17928947--17928983 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
17928937 CATTAAACAC
17928947 TTTTTTTTCAGATTTTT
1 TTTTTTTTCAGATTTTT
17928964 TTTTCTTTTC-GATTTTT
1 TTTT-TTTTCAGATTTTT
17928981 TTT
1 TTT
17928984 GAATTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.78
Consensus pattern (17 bp):
TTTTTTTTCAGATTTTT
Found at i:17930743 original size:30 final size:30
Alignment explanation
Indices: 17930709--17930805 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
17930699 TAAACTAAAA
* *
17930709 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* * * * * *
17930739 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
* *
17930769 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGATTTAGCTCGTGAGCT-AAAGT
17930799 TGAGCTA
1 TGAGCTA
17930806 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
30 47 0.94
31 3 0.06
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTAAAGT
Found at i:17938829 original size:11 final size:11
Alignment explanation
Indices: 17938813--17938864 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
17938803 CATAAATCAC
17938813 TTTTTTTTGAA
1 TTTTTTTTGAA
*
17938824 TTTTTTTTCGAT
1 TTTTTTTT-GAA
17938836 TTTTTTTTGAA
1 TTTTTTTTGAA
*
17938847 TTTTTTTCG-A
1 TTTTTTTTGAA
17938857 TTTTTTTT
1 TTTTTTTT
17938865 TAAAACTTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
10 8 0.22
11 18 0.50
12 10 0.28
ACGTcount: A:0.12, C:0.04, G:0.08, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:17938843 original size:23 final size:22
Alignment explanation
Indices: 17938813--17938865 Score: 97
Period size: 22 Copynumber: 2.4 Consensus size: 22
17938803 CATAAATCAC
17938813 TTTTTTTTGAATTTTTTTTCGAT
1 TTTTTTTTGAA-TTTTTTTCGAT
17938836 TTTTTTTTGAATTTTTTTCGAT
1 TTTTTTTTGAATTTTTTTCGAT
17938858 TTTTTTTT
1 TTTTTTTT
17938866 AAAACTTGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 19 0.63
23 11 0.37
ACGTcount: A:0.11, C:0.04, G:0.08, T:0.77
Consensus pattern (22 bp):
TTTTTTTTGAATTTTTTTCGAT
Found at i:17941017 original size:27 final size:27
Alignment explanation
Indices: 17940765--17941016 Score: 344
Period size: 27 Copynumber: 9.4 Consensus size: 27
17940755 TGGATAAGTT
*
17940765 GTAGAATTACTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
**
17940792 GTAGAATTACCAAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
17940819 GTAGAATTATTGAAATACCCCTGTAAG
1 GTAGAATTACTGAAATACCCCTGTAGG
* *
17940846 GTAGAATTACCGAAATACCCCTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
17940873 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
17940900 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * *
17940927 ATAGAATTACTGAAATACCCTTATAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
17940954 G-AGAAATACTGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTGTAGG
* * * *
17940980 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTGTAGG
*
17941007 GTAAAATTAC
1 GTAGAATTAC
17941017 CATTTTGCCC
Statistics
Matches: 196, Mismatches: 28, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
26 23 0.12
27 173 0.88
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAGAATTACTGAAATACCCCTGTAGG
Found at i:17941788 original size:26 final size:27
Alignment explanation
Indices: 17941759--17941818 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
17941749 CCACATAAAT
*
17941759 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
17941785 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
17941812 ATATCTG
1 ATATCTG
17941819 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:17941791 original size:71 final size:67
Alignment explanation
Indices: 17941660--17941791 Score: 174
Period size: 71 Copynumber: 1.9 Consensus size: 67
17941650 TCTGGTAGCC
** * *
17941660 TCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGATTTCGTCACAATATCTGGCAA
1 TCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAATATCTGGCAA
17941725 CG
66 CG
* *
17941727 TCGCTGCAATCTGGTGGCTTCGCCACATAAATATATCTGTTCTGGTGGCCTAGCCACAATATCTG
1 TCGCTGCAATCTGGTGGCCTCGCCAC----ATATATCTGTTCTGGTGACCTAGCCACAATATCTG
17941792 TATCTGGTGA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
67 25 0.45
71 30 0.55
ACGTcount: A:0.20, C:0.27, G:0.22, T:0.31
Consensus pattern (67 bp):
TCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTCTGGTGACCTAGCCACAATATCTGGCAA
CG
Found at i:17943828 original size:67 final size:65
Alignment explanation
Indices: 17943749--17943969 Score: 234
Period size: 67 Copynumber: 3.3 Consensus size: 65
17943739 CATCATGTGT
* *
17943749 ACAAGA-AGGCTACGAGATACTATATAGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
1 ACAAGAGA-GCTACGAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATAC-GGATGTATCCCAT
17943813 GTAG
62 GTAG
17943817 ACAA-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGATGTATCCCATGT
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGATGTATCCCATGT
17943881 AG
64 AG
* * * * *
17943883 ACAAGAGAGCTACGTGAGAGATAAATGTAGCTA-GTCGCATGAGTGATTCCAAGTGAAGGA-CAC
1 ACAAGAGAGCTAC--GAGAGATAAATGTAGCTAGGTCACATGTGTGA-T--ACG-GATGTATC-C
17943946 CATGTAG
59 CATGTAG
17943953 ACAAGAGAGCTACGAGA
1 ACAAGAGAGCTACGAGA
17943970 TAAATCGGCT
Statistics
Matches: 137, Mismatches: 7, Indels: 18
0.85 0.04 0.11
Matches are distributed among these distances:
66 32 0.23
67 59 0.43
68 13 0.09
69 8 0.06
70 25 0.18
ACGTcount: A:0.35, C:0.16, G:0.28, T:0.22
Consensus pattern (65 bp):
ACAAGAGAGCTACGAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGATGTATCCCATGTAG
Found at i:17943929 original size:66 final size:67
Alignment explanation
Indices: 17943775--17943929 Score: 269
Period size: 67 Copynumber: 2.3 Consensus size: 67
17943765 ATACTATATA
17943775 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAAGAGCTACGTGAGAGATAA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAAGAGCTACGTGAGAGATAA
17943840 AT
66 AT
17943842 GTAGCTAGGTCACATGTGTGATAC-GGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAA-AGAGCTACGTGAGAGATA
17943906 AAT
65 AAT
* *
17943909 GTAGCTA-GTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
17943930 TCCAAGTGAA
Statistics
Matches: 85, Mismatches: 2, Indels: 3
0.94 0.02 0.03
Matches are distributed among these distances:
66 33 0.39
67 52 0.61
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAAGAGCTACGTGAGAGATAA
AT
Found at i:17944003 original size:66 final size:66
Alignment explanation
Indices: 17943809--17944003 Score: 163
Period size: 66 Copynumber: 2.9 Consensus size: 66
17943799 GGGATGTATC
* *
17943809 CCATGTAGACAA-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--G-GA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTA-GTCGCATGAGTGATACCAAGTGA
* *
17943869 TGTATC-
61 AGGA-CA
*
17943875 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGTCGCATGAGTGATTCCAAGTGAA
1 CCATGTAGACAAGAGAGCTAC--G-GAGATAAATG-AGCTAGTCGCATGAGTGATACCAAGTGAA
17943940 GGACA
62 GGACA
* *
17943945 CCATGTAGACAAGAGAGCTAC-GAGATAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGATAAAT-GAGCTA-GTCGCATGAGTGATACCAAGTG
17944004 TTCACCATGT
Statistics
Matches: 113, Mismatches: 8, Indels: 16
0.82 0.06 0.12
Matches are distributed among these distances:
65 4 0.04
66 52 0.46
67 30 0.27
69 2 0.02
70 25 0.22
ACGTcount: A:0.34, C:0.16, G:0.29, T:0.22
Consensus pattern (66 bp):
CCATGTAGACAAGAGAGCTACGGAGATAAATGAGCTAGTCGCATGAGTGATACCAAGTGAAGGAC
A
Found at i:17951403 original size:68 final size:60
Alignment explanation
Indices: 17951331--17951503 Score: 181
Period size: 58 Copynumber: 2.8 Consensus size: 60
17951321 GTACTATATA
*
17951331 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGCGTGAT-C-GGA--TA--CCATGTAGACAAGAGAGCTAC--GAGAGATA
17951396 AAT
58 AAT
*
17951399 GTAGCTAGGTCGCATGCGTGATCGGATACCATGTAGACAAGAGAGCTACGAGAGATAAA-
1 GTAGCTAGGTCACATGCGTGATCGGATACCATGTAGACAAGAGAGCTACGAGAGATAAAT
* * ** *
17951458 -T-GCTAGGTCGCATGAGTGAAAGTGACACCATGTAGACAAGAGAGCT
1 GTAGCTAGGTCACATGCGTGATCG-GATACCATGTAGACAAGAGAGCT
17951504 GAACAGAGAA
Statistics
Matches: 98, Mismatches: 6, Indels: 12
0.84 0.05 0.10
Matches are distributed among these distances:
57 18 0.18
58 23 0.23
60 10 0.10
62 21 0.21
64 2 0.02
66 3 0.03
67 1 0.01
68 20 0.20
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (60 bp):
GTAGCTAGGTCACATGCGTGATCGGATACCATGTAGACAAGAGAGCTACGAGAGATAAAT
Found at i:18046812 original size:97 final size:94
Alignment explanation
Indices: 18046543--18046960 Score: 562
Period size: 90 Copynumber: 4.5 Consensus size: 94
18046533 AAATTATTAG
*
18046543 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTG-ATATATGTGATAA-GCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGAT
18046605 GTGATGAATGTGAAAGTGTATA-ATGTTGA
66 GTGATGAATGTGAAAGTGTATATATG-TGA
* * *
18046634 TAAGG-CTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCAATATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA-ATGGCAGA
18046697 TGTTTGATGAATGTGAAAGTGTATATATGTGA
65 TG--TGATGAATGTGAAAGTGTATATATGTGA
18046729 TAAGGCCTAATGGACCGATGTGATGAATGTGTGAAAGTGTATATATGTGATAAGGCCTAATGGCA
1 TAAGGCCTAATGG-CCGATGTGATGAA--TGTGAAAGTGTATATATGTGATAAGGCCTAATGGCA
18046794 G-TGTGTATGAATGTGAAAGTGTATATATGTGA
63 GATGTG-ATGAATGTGAAAGTGTATATATGTGA
*
18046826 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TG-T-AGGCCTGATGGCCA-A
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG-CAGA
* *
18046886 CGTGATGAATGTGAAAGTG-ATAAATGTGA
65 TGTGATGAATGTGAAAGTGTATATATGTGA
18046915 TAAGGCCTAATGGCCGAGTGTTGATGAA--TG-AAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGA-TG-TGATGAATGTGAAAGTGTATATATGTGA
18046961 CGGCCGAGTG
Statistics
Matches: 299, Mismatches: 8, Indels: 40
0.86 0.02 0.12
Matches are distributed among these distances:
88 11 0.04
89 28 0.09
90 52 0.17
91 31 0.10
92 10 0.03
93 10 0.03
94 16 0.05
95 29 0.10
96 24 0.08
97 52 0.17
98 2 0.01
99 21 0.07
100 13 0.04
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (94 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGAT
GTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18046827 original size:47 final size:47
Alignment explanation
Indices: 18046543--18046960 Score: 578
Period size: 46 Copynumber: 9.0 Consensus size: 47
18046533 AAATTATTAG
18046543 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTG-ATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18046588 TAA-GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA-ATGTTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATG-TGA
*
18046634 TAAGG-CTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
18046679 TAAGGCCAATATGGCCGATGTTTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTA-ATGGCCGATG--TGATGAATGTGAAAGTGTATATATGTGA
18046729 TAAGGCCTAATGGACCGATGTGATGAATGTGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGG-CCGATGTGATGAA--TGTGAAAGTGTATATATGTGA
*
18046779 TAAGGCCTAATGGCAG-TGTGTATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTG-ATGAATGTGAAAGTGTATATATGTGA
18046826 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TG-
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * *
18046870 T-AGGCCTGATGGCCAACGTGATGAATGTGAAAGTG-ATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
18046915 TAAGGCCTAATGGCCGAGTGTTGATGAA--TG-AAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGA-TG-TGATGAATGTGAAAGTGTATATATGTGA
18046961 CGGCCGAGTG
Statistics
Matches: 337, Mismatches: 14, Indels: 43
0.86 0.04 0.11
Matches are distributed among these distances:
42 4 0.01
43 31 0.09
44 29 0.09
45 27 0.08
46 70 0.21
47 68 0.20
48 22 0.07
49 33 0.10
50 53 0.16
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:18046956 original size:90 final size:92
Alignment explanation
Indices: 18046543--18047015 Score: 522
Period size: 90 Copynumber: 5.0 Consensus size: 92
18046533 AAATTATTAG
* *
18046543 TAAGGCCTAATGGCCGATGTGATGAATGTG-AAGTG-ATATATGTGATAAGCCTAATGGCCGATG
1 TAAGGCCTAATGGCCGATGTGATGAA-GTGAAAGTGTATATATGTGATAGGCCTAATGGCCAATG
18046606 TGATGAATGTGAAAGTGTAT-AATGTTGA
65 TGATGAATGTGAAAGTGTATAAATG-TGA
* * *
18046634 TAAGG-CTAATAGCCGATGTGATGAATGTGAAAGTGTATAT-TGTGATAAGGCCAATATGGCCGA
1 TAAGGCCTAATGGCCGATGTGATGAA-GTGAAAGTGTATATATGTGAT-AGGCCTA-ATGGCCAA
*
18046697 TGTTTGATGAATGTGAAAGTGTATATATGTGA
63 TG--TGATGAATGTGAAAGTGTATAAATGTGA
18046729 TAAGGCCTAATGGACCGATGTGATGAATGTGTGAAAGTGTATATATGTGATAAGGCCTAATGG-C
1 TAAGGCCTAATGG-CCGATGTGATGAA---GTGAAAGTGTATATATGTGAT-AGGCCTAATGGCC
* *
18046793 AGTGTGTATGAATGTGAAAGTGTATATATGTGA
61 AATGTG-ATGAATGTGAAAGTGTATAAATGTGA
* *
18046826 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA--TG-TAGGCCTGATGGCCAACG
1 TAAGGCCTAATGGCCGATGTGATGAA-GTGAAAGTGTATATATGTGATAGGCCTAATGGCCAATG
18046888 TGATGAATGTGAAAGTG-ATAAATGTGA
65 TGATGAATGTGAAAGTGTATAAATGTGA
* * * *
18046915 TAAGGCCTAATGGCCGAGTGTTGATGAA-TG-AAGTGTATATATGTGA-CGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGA-TG-TGATGAAGTGAAAGTGTATATATGTGATAGGCCTAATGGCCAAT
*
18046977 GTGGATGCGGATGTGAAAGTTGCATATAAATGTGA
64 GT-GAT--GAATGTGAAAG-TG--TATAAATGTGA
18047012 TAAG
1 TAAG
18047016 TCGCCGAAGG
Statistics
Matches: 339, Mismatches: 17, Indels: 46
0.84 0.04 0.11
Matches are distributed among these distances:
88 11 0.03
89 28 0.08
90 66 0.19
91 32 0.09
92 11 0.03
93 20 0.06
94 18 0.05
95 28 0.08
96 24 0.07
97 66 0.19
98 3 0.01
99 19 0.06
100 13 0.04
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (92 bp):
TAAGGCCTAATGGCCGATGTGATGAAGTGAAAGTGTATATATGTGATAGGCCTAATGGCCAATGT
GATGAATGTGAAAGTGTATAAATGTGA
Found at i:18047211 original size:36 final size:37
Alignment explanation
Indices: 18047136--18047213 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
18047126 CCGAGCTCTA
* * *
18047136 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGAGAATTATGTCCGGGT
*
18047173 AAGACCCGATAACTTCGTGTGAG-ATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGAGAATTATGTCCGGGT
18047209 AAGAC
1 AAGAC
18047214 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
36 17 0.46
37 20 0.54
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGAGAATTATGTCCGGGT
Found at i:18049095 original size:43 final size:43
Alignment explanation
Indices: 18049034--18049132 Score: 148
Period size: 43 Copynumber: 2.3 Consensus size: 43
18049024 GGTTTGTTCA
18049034 GCACTAA-GTGTGCGGGCAATAAGTGTTCACGGGTGTGAGATTG
1 GCACTAATGTGTGCGGGCAATAAGTGTTCAC-GGTGTGAGATTG
* *
18049077 GCACTAATGTGTGC-GGCAATAAGTGTTCACGTTTTGAGATTG
1 GCACTAATGTGTGCGGGCAATAAGTGTTCACGGTGTGAGATTG
18049119 GCACTAAGTGTGTG
1 GCACTAA-TGTGTG
18049133 GGCTTGAAAT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
42 17 0.33
43 29 0.56
44 6 0.12
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.29
Consensus pattern (43 bp):
GCACTAATGTGTGCGGGCAATAAGTGTTCACGGTGTGAGATTG
Found at i:18049149 original size:29 final size:29
Alignment explanation
Indices: 18049117--18049190 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
18049107 GTTTTGAGAT
* * *
18049117 TGGCACTAAGTGTGTGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
18049146 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
18049175 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
18049191 TGAGTGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:18049685 original size:40 final size:42
Alignment explanation
Indices: 18049600--18049695 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 42
18049590 AGTCCCGAGC
* * *
18049600 AAGAG-ATTCATGCTTAGTGATGTATCCGAGGCTAAGTTCCG
1 AAGAGCATTCATGCTTAGTGATATATCCGAGGCTAAATCCCG
* *
18049641 AAGAGCATTCGTGC-TAGTGATATATCCG-TGCTAAATCCCG
1 AAGAGCATTCATGCTTAGTGATATATCCGAGGCTAAATCCCG
*
18049681 AAGAGCAATCATGCT
1 AAGAGCATTCATGCT
18049696 GGTGACGTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 21 0.46
41 18 0.39
42 7 0.15
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (42 bp):
AAGAGCATTCATGCTTAGTGATATATCCGAGGCTAAATCCCG
Found at i:18054909 original size:8 final size:8
Alignment explanation
Indices: 18054893--18054924 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
18054883 TCACAAATGC
18054893 CGGCTTTT
1 CGGCTTTT
*
18054901 CGACTTTT
1 CGGCTTTT
18054909 CGGCTTTT
1 CGGCTTTT
18054917 CGGCTTTT
1 CGGCTTTT
18054925 GCCGATCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.03, C:0.25, G:0.22, T:0.50
Consensus pattern (8 bp):
CGGCTTTT
Found at i:18059304 original size:43 final size:41
Alignment explanation
Indices: 18059249--18059343 Score: 99
Period size: 43 Copynumber: 2.3 Consensus size: 41
18059239 GTTTAAATCG
18059249 AAGCAATCATACT-GACACACA-TGGCA-CATCATCGAATAAACCA
1 AAGCAATCATACTAG-CACACAGT-GCATCATCA--G-ATAAACCA
18059292 AAGCAAAT-ATACTAGCACACAGTGCATCATCAGATAAACCA
1 AAGC-AATCATACTAGCACACAGTGCATCATCAGATAAACCA
*
18059333 AAGTAATCATA
1 AAGCAATCATA
18059344 TTGGAAAATG
Statistics
Matches: 46, Mismatches: 1, Indels: 12
0.78 0.02 0.20
Matches are distributed among these distances:
40 3 0.07
41 14 0.30
42 1 0.02
43 18 0.39
44 10 0.22
ACGTcount: A:0.46, C:0.24, G:0.12, T:0.18
Consensus pattern (41 bp):
AAGCAATCATACTAGCACACAGTGCATCATCAGATAAACCA
Found at i:18061626 original size:23 final size:22
Alignment explanation
Indices: 18061574--18061626 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
18061564 TCCACGTCTT
*
18061574 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
18061596 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
18061619 TTTCTTTT
1 TTTCTTTT
18061627 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:18064729 original size:27 final size:27
Alignment explanation
Indices: 18064676--18064729 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
18064666 ATATATAAAT
* * *
18064676 ATTATAAAATAATTATTTTGTACTTAA
1 ATTATAAAATAATGAATTTGTAATTAA
18064703 ATTATTAAAATAATGAATTT-TAATTAA
1 ATTA-TAAAATAATGAATTTGTAATTAA
18064730 GTTTATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (27 bp):
ATTATAAAATAATGAATTTGTAATTAA
Found at i:18064750 original size:10 final size:10
Alignment explanation
Indices: 18064713--18064764 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
18064703 ATTATTAAAA
*
18064713 TAATGAATTT
1 TAATTAATTT
18064723 TAATTAAGTTT
1 TAATTAA-TTT
18064734 ATAATTAATTT
1 -TAATTAATTT
*
18064745 TGATTAATTT
1 TAATTAATTT
*
18064755 TGATT-ATTT
1 TAATTAATTT
18064764 T
1 T
18064765 CGATAGATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
9 5 0.13
10 20 0.53
11 6 0.16
12 7 0.18
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.58
Consensus pattern (10 bp):
TAATTAATTT
Found at i:18068237 original size:40 final size:40
Alignment explanation
Indices: 18068162--18068238 Score: 100
Period size: 40 Copynumber: 1.9 Consensus size: 40
18068152 TATTAGTGGC
* * *
18068162 GCTTTTTAAAAAGTGCCATTATAGATCGAGAATTAGCGAT
1 GCTTTTTAAAAAATGCCACTATAGATCGACAATTAGCGAT
* * *
18068202 GCTTTTTAAAAAATGTCACTATAGGTCGACCATTAGC
1 GCTTTTTAAAAAATGCCACTATAGATCGACAATTAGC
18068239 AGCACTTTCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (40 bp):
GCTTTTTAAAAAATGCCACTATAGATCGACAATTAGCGAT
Found at i:18068398 original size:40 final size:40
Alignment explanation
Indices: 18068316--18068411 Score: 104
Period size: 40 Copynumber: 2.4 Consensus size: 40
18068306 TTAGCGGAGT
* *
18068316 TTTTTGAAAAACG-TGCTATAGATCGAGCATTAGCGACAC
1 TTTTTGAAAAAAGCCGCTATAGATCGAGCATTAGCGACAC
* * * ***
18068355 TTTTTGAAAAATGCCGCTATAGATCGAGCTTTAGTGGTGC
1 TTTTTGAAAAAAGCCGCTATAGATCGAGCATTAGCGACAC
*
18068395 TTTTTTAAAAAAGCCGC
1 TTTTTGAAAAAAGCCGC
18068412 AAAAAACATT
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 12 0.26
40 35 0.74
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (40 bp):
TTTTTGAAAAAAGCCGCTATAGATCGAGCATTAGCGACAC
Found at i:18068415 original size:151 final size:154
Alignment explanation
Indices: 18068029--18068417 Score: 382
Period size: 151 Copynumber: 2.6 Consensus size: 154
18068019 AAACACTGCC
* * * * * *
18068029 ATAGATAGAGCATTAGAGTCGCTTTTCGACAAACGCCGCTATAGATCGAGCATTAGCGGCGC-TT
1 ATAGATCGAGCATTAGCGACGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTT
* * * *
18068093 TCTAAAAATGCCGC-AAAAAATTAAGCACAACACCGTCATTTTATGTTGAGATTTGGTGGTATTA
66 TTTAAAAAAGCCGCAAAAAAATTAAGCACAACACCGTCATTTTATGTTGAGATTTAGTGGCATTA
* *
18068157 GTGGCGCTTTTTAAAAAGTGCCATT
131 GCGGAGCTTTTTAAAAAGTGCCA-T
* * * * * * * * *
18068182 ATAGATCGAGAATTAGCGATGCTTTTTAAAAAATGTCACTATAGGTCGACCATTAGCAGCACTTT
1 ATAGATCGAGCATTAGCGACGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTT
* * * ** *
18068247 CTGAAGAACAA-CC-CAAAAAAATTAAGCAC-A-A-TGTTGTTTTATGTTGAGCTTTAGTGGCAT
66 TTTAA-AA-AAGCCGCAAAAAAATTAAGCACAACACCGTCATTTTATGTTGAGATTTAGTGGCAT
*
18068307 TAGCGGAGTTTTTTGAAAAACGTG-C-T
129 TAGCGGAGCTTTTT-AAAAA-GTGCCAT
* * * *
18068333 ATAGATCGAGCATTAGCGACACTTTTTGAAAAATGCCGCTATAGATCGAGCTTTAGTGGTGCTTT
1 ATAGATCGAGCATTAGCGACGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTT
18068398 TTTAAAAAAGCCGCAAAAAA
66 TTTAAAAAAGCCGCAAAAAA
18068418 CATTTTATCT
Statistics
Matches: 185, Mismatches: 43, Indels: 18
0.75 0.17 0.07
Matches are distributed among these distances:
149 2 0.01
150 4 0.02
151 63 0.34
152 34 0.18
153 54 0.29
154 9 0.05
155 18 0.10
156 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (154 bp):
ATAGATCGAGCATTAGCGACGCTTTTTGAAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTT
TTTAAAAAAGCCGCAAAAAAATTAAGCACAACACCGTCATTTTATGTTGAGATTTAGTGGCATTA
GCGGAGCTTTTTAAAAAGTGCCAT
Found at i:18068728 original size:7 final size:7
Alignment explanation
Indices: 18068716--18068905 Score: 59
Period size: 7 Copynumber: 26.7 Consensus size: 7
18068706 ATCATTATAA
18068716 TTTAGGG
1 TTTAGGG
18068723 TTTAGGG
1 TTTAGGG
18068730 TTTAGGG
1 TTTAGGG
*
18068737 TTTAAGG
1 TTTAGGG
*
18068744 TTTATGAG
1 TTTA-GGG
*
18068752 TTACTA--T
1 TT--TAGGG
*
18068759 TTTAAGG
1 TTTAGGG
*
18068766 TTTATGG
1 TTTAGGG
*
18068773 ATTATGGG
1 TTTA-GGG
18068781 TTTAGGG
1 TTTAGGG
*
18068788 ATTATGGG
1 TTTA-GGG
*
18068796 -TTA-TG
1 TTTAGGG
18068801 TTTAAGGG
1 TTT-AGGG
*
18068809 -TTGGGG
1 TTTAGGG
* *
18068815 TTCAAGG
1 TTTAGGG
*
18068822 TTTAAGG
1 TTTAGGG
* *
18068829 TTTAAGT
1 TTTAGGG
18068836 TTTAGGGG
1 TTTA-GGG
18068844 TTTAGGG
1 TTTAGGG
* *
18068851 TTTATGA
1 TTTAGGG
***
18068858 TTTATAT
1 TTTAGGG
* *
18068865 TTTATGA
1 TTTAGGG
18068872 TTTAGGG
1 TTTAGGG
18068879 TTTAAGGG
1 TTT-AGGG
18068887 -TTAGGGG
1 TTTA-GGG
*
18068894 TTTAAGG
1 TTTAGGG
18068901 TTTAG
1 TTTAG
18068906 ATTAGTTAGT
Statistics
Matches: 138, Mismatches: 30, Indels: 30
0.70 0.15 0.15
Matches are distributed among these distances:
5 3 0.02
6 6 0.04
7 103 0.75
8 24 0.17
10 2 0.01
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (7 bp):
TTTAGGG
Found at i:18068784 original size:15 final size:15
Alignment explanation
Indices: 18068764--18068797 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
18068754 ACTATTTTAA
*
18068764 GGTTTATGGATTATG
1 GGTTTAGGGATTATG
18068779 GGTTTAGGGATTATG
1 GGTTTAGGGATTATG
18068794 GGTT
1 GGTT
18068798 ATGTTTAAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.00, G:0.38, T:0.44
Consensus pattern (15 bp):
GGTTTAGGGATTATG
Found at i:18068784 original size:22 final size:20
Alignment explanation
Indices: 18068759--18068807 Score: 53
Period size: 22 Copynumber: 2.4 Consensus size: 20
18068749 GAGTTACTAT
*
18068759 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT--G
* *
18068781 TTTAGGGATTATGGGTTATG
1 TTTAAGGATTATGGATTATG
18068801 TTTAAGG
1 TTTAAGG
18068808 GTTGGGGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
22 16 0.70
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.45
Consensus pattern (20 bp):
TTTAAGGATTATGGATTATG
Found at i:18068861 original size:22 final size:22
Alignment explanation
Indices: 18068820--18068861 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18068810 TGGGGTTCAA
*
18068820 GGTTTAAGGTTTAAGTTTTAGG
1 GGTTTAAGGTTTAAGATTTAGG
* *
18068842 GGTTTAGGGTTTATGATTTA
1 GGTTTAAGGTTTAAGATTTA
18068862 TATTTTATGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (22 bp):
GGTTTAAGGTTTAAGATTTAGG
Found at i:18068896 original size:15 final size:15
Alignment explanation
Indices: 18068876--18068905 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
18068866 TTATGATTTA
18068876 GGGTTTAAGGGTTAG
1 GGGTTTAAGGGTTAG
*
18068891 GGGTTTAAGGTTTAG
1 GGGTTTAAGGGTTAG
18068906 ATTAGTTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.00, G:0.43, T:0.37
Consensus pattern (15 bp):
GGGTTTAAGGGTTAG
Found at i:18070186 original size:20 final size:20
Alignment explanation
Indices: 18070155--18070192 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
18070145 TAATATTTAG
18070155 CTTAAGTAATTAA-ATGTTT
1 CTTAAGTAATTAACATGTTT
18070174 CTTAAGCTAATTAACATGT
1 CTTAAG-TAATTAACATGT
18070193 CTAAGAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
CTTAAGTAATTAACATGTTT
Found at i:18071977 original size:30 final size:31
Alignment explanation
Indices: 18071943--18072030 Score: 90
Period size: 30 Copynumber: 2.9 Consensus size: 31
18071933 CTAGCTTATA
18071943 TTCAGCTCACGAGCTAAACCTTAGCTCAA-T
1 TTCAGCTCACGAGCTAAACCTTAGCTCAACT
* * * * * *
18071973 TTCAGCTTAGGAGTTTAATCTCAGCTCAACT
1 TTCAGCTCACGAGCTAAACCTTAGCTCAACT
* *
18072004 TT-AGCTGACGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAACCTTAGCTCA
18072031 TTTTAGTTTA
Statistics
Matches: 45, Mismatches: 12, Indels: 2
0.76 0.20 0.03
Matches are distributed among these distances:
30 42 0.93
31 3 0.07
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (31 bp):
TTCAGCTCACGAGCTAAACCTTAGCTCAACT
Found at i:18073966 original size:30 final size:30
Alignment explanation
Indices: 18073881--18073977 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
18073871 TAAACTAAAA
* *
18073881 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
18073911 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18073941 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18073970 ATGAGCTA
1 -TGAGCTA
18073978 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 51 0.98
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:18075802 original size:30 final size:30
Alignment explanation
Indices: 18075731--18075813 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
18075721 CTTTTGTTTC
*
18075731 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCACTCTCA
*
18075762 AATTTC-TTTTCGTTCTCTTTTTCAGTCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCACTCTCA
* *
18075791 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
18075814 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.12, C:0.22, G:0.02, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCACTCTCA
Found at i:18075813 original size:18 final size:18
Alignment explanation
Indices: 18075764--18075819 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
18075754 CACTCTCAAA
* *
18075764 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
18075781 TTTCAGTCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
18075799 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
18075818 TT
1 TT
18075820 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.05, C:0.20, G:0.05, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:18075820 original size:12 final size:12
Alignment explanation
Indices: 18075789--18075813 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18075779 TTTTTCAGTC
18075789 TCATTTTCTTTT
1 TCATTTTCTTTT
18075801 TCATTTTCTTTT
1 TCATTTTCTTTT
18075813 T
1 T
18075814 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:18075892 original size:5 final size:5
Alignment explanation
Indices: 18075882--18075938 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
18075872 CTCTTGCCTC
*
18075882 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
18075929 TCTTT TCTTT
1 TCTTT TCTTT
18075939 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:18075902 original size:15 final size:14
Alignment explanation
Indices: 18075882--18075945 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
18075872 CTCTTGCCTC
18075882 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
18075897 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
18075912 TCTTTTGCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
*
18075929 TCTTTTCTTTATTT
1 TCTTTTCTTTTTTT
18075943 TCT
1 TCT
18075946 CTTTACAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.24
15 9 0.21
16 15 0.36
17 8 0.19
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:18075914 original size:25 final size:25
Alignment explanation
Indices: 18075886--18075934 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
18075876 TGCCTCTCTT
18075886 TTCTTTT-TATTTCTTTTTCTTTTTC
1 TTCTTTTCTATTTC-TTTTCTTTTTC
*
18075911 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTATTTCTTTTCTTTT
18075935 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTATTTCTTTTCTTTTTC
Found at i:18075948 original size:21 final size:20
Alignment explanation
Indices: 18075880--18075949 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
18075870 GCCTCTTGCC
18075880 TCTCTTTTCTTTT-TATTTCTT
1 TCTCTTTTCTTTTCT-TTT-TT
* *
18075901 TTTCTTTT-TCTTCTTTTGCTT
1 TCTCTTTTCTTTTCTTTT--TT
*
18075922 TTTCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTTCTTT-TTT
18075943 TCTCTTT
1 TCTCTTT
18075950 ACAAGAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.15
21 27 0.66
22 7 0.17
23 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (20 bp):
TCTCTTTTCTTTTCTTTTTT
Found at i:18078971 original size:23 final size:22
Alignment explanation
Indices: 18078919--18078971 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
18078909 TCCACGTCTT
*
18078919 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
18078941 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
18078964 TTTCTTTT
1 TTTCTTTT
18078972 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:18083317 original size:30 final size:30
Alignment explanation
Indices: 18083234--18083328 Score: 102
Period size: 30 Copynumber: 3.2 Consensus size: 30
18083224 AACTAAAATA
* *
18083234 AGCTAAGCTTTAGCTCGTGAGCTAAAGTTG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAGTTG
* * * * * *
18083264 AGCTGAGGCTAAACTCCTAAGCTGAAGTTG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAGTTG
18083294 AGCTAAGGTTTAGCTCGTGAGCTGAA-TATG
1 AGCTAAGGTTTAGCTCGTGAGCTGAAGT-TG
18083324 AGCTA
1 AGCTA
18083329 GGAGTGAGCT
Statistics
Matches: 50, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (30 bp):
AGCTAAGGTTTAGCTCGTGAGCTGAAGTTG
Found at i:18091153 original size:30 final size:30
Alignment explanation
Indices: 18091068--18091155 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
18091058 TAAACTAAAA
* **
18091068 TGAGCTAAGCTTTAGCTCGTGAGCAAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
18091098 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18091128 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAA
18091156 AGTGATCTAG
Statistics
Matches: 43, Mismatches: 15, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:18092081 original size:33 final size:34
Alignment explanation
Indices: 18092008--18092081 Score: 82
Period size: 33 Copynumber: 2.2 Consensus size: 34
18091998 AATTTCAATT
*
18092008 TTCTTTTTCTCATTCTCTTTTTACTCTCTTTCACA
1 TTCTTTTTCTCATTCTCTTTTTA-TCTCTTTCAAA
*
18092043 CTCTTTTTCCTCAATT-TCTTTTT-T-TCTTTCAAA
1 TTCTTTTT-CTC-ATTCTCTTTTTATCTCTTTCAAA
18092076 TTCTTT
1 TTCTTT
18092082 CTCACATGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
33 13 0.38
34 1 0.03
35 7 0.21
36 10 0.29
37 3 0.09
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (34 bp):
TTCTTTTTCTCATTCTCTTTTTATCTCTTTCAAA
Found at i:18094939 original size:23 final size:23
Alignment explanation
Indices: 18094894--18094940 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
18094884 ATTTTTTTCC
*
18094894 TTTTTTGAATTTTTTTTTCAAAA
1 TTTTTTGAATTTTTTTCTCAAAA
18094917 TTTTTTGAATTTTTTTGCT-AAAA
1 TTTTTTGAATTTTTTT-CTCAAAA
18094940 T
1 T
18094941 GTAATCCTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.26, C:0.04, G:0.06, T:0.64
Consensus pattern (23 bp):
TTTTTTGAATTTTTTTCTCAAAA
Found at i:18097605 original size:29 final size:28
Alignment explanation
Indices: 18097549--18097642 Score: 116
Period size: 28 Copynumber: 3.3 Consensus size: 28
18097539 ATTGCATGAC
* *
18097549 TATGAATGTGATTGGGCCTAATAGGCCA
1 TATGAATGTGATTAGGCCTAATGGGCCA
*
18097577 TATGAATGTGATTTTGGCCTAATGGGCCA
1 TATGAATGTGA-TTAGGCCTAATGGGCCA
* * *
18097606 TATGAAAGAGATTAGGCCTAGTGGGCCA
1 TATGAATGTGATTAGGCCTAATGGGCCA
*
18097634 TATGCATGT
1 TATGAATGT
18097643 ATGTAGACTT
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
28 32 0.57
29 24 0.43
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.30
Consensus pattern (28 bp):
TATGAATGTGATTAGGCCTAATGGGCCA
Found at i:18102673 original size:38 final size:38
Alignment explanation
Indices: 18102631--18102770 Score: 226
Period size: 38 Copynumber: 3.7 Consensus size: 38
18102621 TTAAGCTCGA
*
18102631 ATATAATACCAGCACTAAGCCTGCGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* *
18102669 ATATAATACTAGCACGAAGCCTGTGGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
* * *
18102707 ATATAATACCAGTACGAAGCTTGCAGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
18102745 ATATAATACCAGCACGAAGCCTGCGG
1 ATATAATACCAGCACGAAGCCTGCGG
18102771 ACCTTTAAGC
Statistics
Matches: 91, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTTAACCCGG
Found at i:18111316 original size:30 final size:30
Alignment explanation
Indices: 18111221--18111317 Score: 72
Period size: 30 Copynumber: 3.2 Consensus size: 30
18111211 AGCTCACTCC
* * *
18111221 TAGCTC-ACTTTCAACTCATGAGCTAAACCT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGCT
* * * * **
18111251 TAGCTCAACTTCAGGTTAGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
18111281 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
18111311 TAGCTCA
1 TAGCTCA
18111318 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 16, Indels: 6
0.69 0.23 0.09
Matches are distributed among these distances:
29 2 0.04
30 39 0.81
31 7 0.15
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:18115465 original size:21 final size:21
Alignment explanation
Indices: 18115441--18115482 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18115431 TCATCAGATC
*
18115441 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
18115462 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
18115483 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:18117013 original size:30 final size:30
Alignment explanation
Indices: 18116928--18117024 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
18116918 TAAACTAAAA
*
18116928 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
18116958 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18116988 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18117017 ATGAGCTA
1 -TGAGCTA
18117025 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:18119204 original size:30 final size:30
Alignment explanation
Indices: 18119133--18119215 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
18119123 CTTTTGTTTC
* *
18119133 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
18119164 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
18119193 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
18119216 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:18119215 original size:18 final size:18
Alignment explanation
Indices: 18119166--18119221 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
18119156 CACTCTCAAA
* *
18119166 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
18119183 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
18119201 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
18119220 TT
1 TT
18119222 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:18119222 original size:12 final size:12
Alignment explanation
Indices: 18119191--18119215 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18119181 TTTTTCAATC
18119191 TCATTTTCTTTT
1 TCATTTTCTTTT
18119203 TCATTTTCTTTT
1 TCATTTTCTTTT
18119215 T
1 T
18119216 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:18120274 original size:14 final size:12
Alignment explanation
Indices: 18120255--18120310 Score: 94
Period size: 12 Copynumber: 4.5 Consensus size: 12
18120245 CCACAAATCA
18120255 TTTTTTTTGAAACT
1 TTTTTTTTG-AA-T
18120269 TTTTTTTTGAAT
1 TTTTTTTTGAAT
18120281 TTTTTTTTGAAT
1 TTTTTTTTGAAT
18120293 TTTTTTTTGAAT
1 TTTTTTTTGAAT
18120305 TTTTTT
1 TTTTTT
18120311 ATACTTGTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
12 31 0.74
13 2 0.05
14 9 0.21
ACGTcount: A:0.16, C:0.02, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:18122023 original size:30 final size:30
Alignment explanation
Indices: 18121938--18122034 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
18121928 TAAACTAAAA
*
18121938 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
* * * * * *
18121968 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18121998 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
18122027 ATGAGCTA
1 -TGAGCTA
18122035 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTGAAGT
Found at i:18126423 original size:11 final size:11
Alignment explanation
Indices: 18126409--18126436 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
18126399 AAAAGTATAT
18126409 AAAAAATTCAA
1 AAAAAATTCAA
18126420 AAAAAATTCAA
1 AAAAAATTCAA
18126431 AAAAAA
1 AAAAAA
18126437 GGTGTTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAATTCAA
Found at i:18127315 original size:9 final size:10
Alignment explanation
Indices: 18127308--18127364 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
18127298 AAGAGAAAAC
18127308 AAAGAAAAGA
1 AAAGAAAAGA
18127318 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
18127330 AAAGAAGA-A
1 AAAGAAAAGA
*
18127339 AAAGAAAATA
1 AAAGAAAAGA
*
18127349 AAATAAAAAGA
1 AAA-GAAAAGA
18127360 AAAGA
1 AAAGA
18127365 GAGGCAAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 8 0.21
10 9 0.24
11 16 0.42
12 5 0.13
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:18127331 original size:21 final size:20
Alignment explanation
Indices: 18127297--18127362 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
18127287 ACATTCTTGT
18127297 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
18127318 AAAGAAAAAGCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
*
18127339 AAAGAAAATAAAATAAAAAGAA
1 AAAGAAAA-ACAA-AAAAAGAA
18127361 AA
1 AA
18127363 GAGAGGCAAG
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
20 8 0.21
21 20 0.53
22 10 0.26
ACGTcount: A:0.79, C:0.03, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:18127332 original size:6 final size:5
Alignment explanation
Indices: 18127308--18127364 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
18127298 AAGAGAAAAC
* * *
18127308 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATA AAATAA
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAAGA AAA-GA
18127355 AAAGA AAAGA
1 AAAGA AAAGA
18127365 GAGGCAAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
4 3 0.07
5 26 0.60
6 14 0.33
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:18127357 original size:25 final size:25
Alignment explanation
Indices: 18127312--18127360 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
18127302 GAAAACAAAG
18127312 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
18127338 AAAAGAAAATAAAATA-AAAAGAA
1 AAAAGAAAAGAAAA-ACAAAAGAA
18127361 AAGAGAGGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 13 0.62
27 1 0.05
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:18127467 original size:12 final size:12
Alignment explanation
Indices: 18127445--18127469 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18127435 TTTGAAAAAC
18127445 AAAAAGAAAATG
1 AAAAAGAAAATG
18127457 AAAAAGAAAATG
1 AAAAAGAAAATG
18127469 A
1 A
18127470 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:18127476 original size:18 final size:18
Alignment explanation
Indices: 18127436--18127481 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
18127426 CAAAAAGCCT
*
18127436 TTGAAAAACAAAAAGAAA
1 TTGAAAAAGAAAAAGAAA
* * *
18127454 ATGAAAAAGAAAATGAGA
1 TTGAAAAAGAAAAAGAAA
18127472 TTGAAAAAGA
1 TTGAAAAAGA
18127482 GAACAAAAAG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.17, T:0.13
Consensus pattern (18 bp):
TTGAAAAAGAAAAAGAAA
Found at i:18127479 original size:30 final size:31
Alignment explanation
Indices: 18127445--18127523 Score: 90
Period size: 30 Copynumber: 2.6 Consensus size: 31
18127435 TTTGAAAAAC
*
18127445 AAAAAGAAAATGAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
* * *
18127475 AAAAAGAGAA-CAAAAAGAAATTTGAGAGTG
1 AAAAAGAAAATGAAAAAGAAATATGAGAGTG
**
18127505 AAAAAGAAGTTGAAAAAGA
1 AAAAAGAAAATGAAAAAGA
18127524 TATTGAAAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
29 9 0.23
30 23 0.59
31 7 0.18
ACGTcount: A:0.65, C:0.01, G:0.22, T:0.13
Consensus pattern (31 bp):
AAAAAGAAAATGAAAAAGAAATATGAGAGTG
Found at i:18127521 original size:13 final size:12
Alignment explanation
Indices: 18127503--18127535 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18127493 AATTTGAGAG
18127503 TGAAAAAGA-AGT
1 TGAAAAAGATA-T
18127515 TGAAAAAGATAT
1 TGAAAAAGATAT
18127527 TGAAAAAGA
1 TGAAAAAGA
18127536 GATTAAAGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.61, C:0.00, G:0.21, T:0.18
Consensus pattern (12 bp):
TGAAAAAGATAT
Found at i:18134055 original size:23 final size:22
Alignment explanation
Indices: 18134003--18134055 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
18133993 TCCACGTCTT
*
18134003 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
18134025 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
18134048 TTTCTTTT
1 TTTCTTTT
18134056 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:18141537 original size:20 final size:20
Alignment explanation
Indices: 18141493--18141530 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
18141483 GCATCTAGGT
18141493 GTTCACACAATAATAAAAAC
1 GTTCACACAATAATAAAAAC
* *
18141513 GTTCACACTATATTAAAA
1 GTTCACACAATAATAAAA
18141531 TAGTTCATAA
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:0.18, G:0.05, T:0.26
Consensus pattern (20 bp):
GTTCACACAATAATAAAAAC
Found at i:18142425 original size:30 final size:29
Alignment explanation
Indices: 18142384--18142486 Score: 82
Period size: 30 Copynumber: 3.4 Consensus size: 29
18142374 CGAGTTTAAA
*
18142384 CTAAAATGAGCTAAGCTTTAGCTCGTGAG
1 CTAAAGTGAGCTAAGCTTTAGCTCGTGAG
* * * * *
18142413 CTAAAGTCGAGCTGAGGC-TAAACTCCTAAG
1 CTAAAGT-GAGCT-AAGCTTTAGCTCGTGAG
* *
18142443 CTGAAGTTGAGCTAAGGTTTAGCTCGTGAG
1 CTAAAG-TGAGCTAAGCTTTAGCTCGTGAG
*
18142473 TTGAAAGTGAGCTA
1 CT-AAAGTGAGCTA
18142487 GGAGTGAGCT
Statistics
Matches: 54, Mismatches: 15, Indels: 9
0.69 0.19 0.12
Matches are distributed among these distances:
29 8 0.15
30 39 0.72
31 7 0.13
ACGTcount: A:0.30, C:0.17, G:0.27, T:0.26
Consensus pattern (29 bp):
CTAAAGTGAGCTAAGCTTTAGCTCGTGAG
Found at i:18144666 original size:30 final size:30
Alignment explanation
Indices: 18144595--18144677 Score: 89
Period size: 30 Copynumber: 2.7 Consensus size: 30
18144585 CTTTTGTTTC
* *
18144595 AATTTCTTTTTCATCTTCTTTTTCACTCTCA
1 AATTTCTTTTTCTTC-TCTTTTTCAATCTCA
18144626 AATTTC-TTTTCGTTCTCTTTTTCAATCTC-
1 AATTTCTTTTTC-TTCTCTTTTTCAATCTCA
* *
18144655 ATTTTCTTTTTCATTTTCTTTTT
1 AATTTCTTTTTC-TTCTCTTTTT
18144678 GCTTTTCAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
29 5 0.11
30 32 0.71
31 8 0.18
ACGTcount: A:0.13, C:0.22, G:0.01, T:0.64
Consensus pattern (30 bp):
AATTTCTTTTTCTTCTCTTTTTCAATCTCA
Found at i:18144677 original size:18 final size:18
Alignment explanation
Indices: 18144628--18144683 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
18144618 CACTCTCAAA
* *
18144628 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
18144645 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
18144663 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
18144682 TT
1 TT
18144684 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:18144684 original size:12 final size:12
Alignment explanation
Indices: 18144653--18144677 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18144643 TTTTTCAATC
18144653 TCATTTTCTTTT
1 TCATTTTCTTTT
18144665 TCATTTTCTTTT
1 TCATTTTCTTTT
18144677 T
1 T
18144678 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:18144695 original size:12 final size:12
Alignment explanation
Indices: 18144680--18144710 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18144670 TTCTTTTTGC
18144680 TTTTCAAAGGCT
1 TTTTCAAAGGCT
18144692 TTTTCAAAGGCT
1 TTTTCAAAGGCT
18144704 TTTTCAA
1 TTTTCAA
18144711 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:18144798 original size:6 final size:5
Alignment explanation
Indices: 18144758--18144820 Score: 51
Period size: 6 Copynumber: 12.0 Consensus size: 5
18144748 CTCTTGCCTC
18144758 TCTTT TCTTT T-TATT TCATTT TCATTT TC--T TCTTT TGCTTT TGCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TC-TTT TCTTT TCTTT T-CTTT T-CTTT
18144805 TCCTTT TCTTT TCTTT
1 T-CTTT TCTTT TCTTT
18144821 GTTTTCTCTT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
3 3 0.06
4 1 0.02
5 20 0.39
6 26 0.51
7 1 0.02
ACGTcount: A:0.05, C:0.19, G:0.03, T:0.73
Consensus pattern (5 bp):
TCTTT
Found at i:18147406 original size:30 final size:30
Alignment explanation
Indices: 18147372--18147468 Score: 81
Period size: 30 Copynumber: 3.2 Consensus size: 30
18147362 TAAACTAAAA
*
18147372 TGAGCTAAGCTTTAGCTTGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
18147402 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
18147432 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
18147462 TGAGCTA
1 TGAGCTA
18147469 GGAGTGAGCT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
29 2 0.04
30 41 0.84
31 6 0.12
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:18153930 original size:10 final size:10
Alignment explanation
Indices: 18153887--18153922 Score: 72
Period size: 10 Copynumber: 3.6 Consensus size: 10
18153877 TAAGCTCGGT
18153887 TGAGCTCAAA
1 TGAGCTCAAA
18153897 TGAGCTCAAA
1 TGAGCTCAAA
18153907 TGAGCTCAAA
1 TGAGCTCAAA
18153917 TGAGCT
1 TGAGCT
18153923 GAATTGAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.22
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:18153930 original size:20 final size:20
Alignment explanation
Indices: 18153886--18153930 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
18153876 GTAAGCTCGG
18153886 TTGAGCTCAAATGAGCTCAA
1 TTGAGCTCAAATGAGCTCAA
* *
18153906 ATGAGCTCAAATGAGCTGAA
1 TTGAGCTCAAATGAGCTCAA
18153926 TTGAG
1 TTGAG
18153931 TTGGACGGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (20 bp):
TTGAGCTCAAATGAGCTCAA
Found at i:18154423 original size:35 final size:35
Alignment explanation
Indices: 18154377--18154449 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
18154367 GATGTAAAAG
18154377 AAAGAATTTATTTTAGTTCGAAATGGTAAGAAACA
1 AAAGAATTTATTTTAGTTCGAAATGGTAAGAAACA
18154412 AAAGAATTTATTTTAGTTCGAAATGGTAAGAAACA
1 AAAGAATTTATTTTAGTTCGAAATGGTAAGAAACA
18154447 AAA
1 AAA
18154450 ATGGATTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.48, C:0.05, G:0.16, T:0.30
Consensus pattern (35 bp):
AAAGAATTTATTTTAGTTCGAAATGGTAAGAAACA
Found at i:18155470 original size:63 final size:65
Alignment explanation
Indices: 18155401--18155535 Score: 154
Period size: 67 Copynumber: 2.1 Consensus size: 65
18155391 CTAACTTAAA
*
18155401 TAAATGAAC-TAACACTTATGCATCA-T-TTAATCC-AGCAACTAGTTTAATTAATAGAAGCAT-
1 TAAATGAACTTAA-ACTCATGCATCACTATT-ATCCTAGCAACTAGTTTAATTAA-AGAAGCATC
18155461 TAT
63 TAT
* * *
18155464 TAAATGAACTTTAACTCATGCATCACTAAATTATCCTAGTAACTAGTTTATTTAAAGAAGCATCT
1 TAAATGAACTTAAACTCATGCATCACT--ATTATCCTAGCAACTAGTTTAATTAAAGAAGCATCT
18155529 AT
64 AT
18155531 TAAAT
1 TAAAT
18155536 CAAGTTCATA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
63 20 0.33
64 3 0.05
66 12 0.20
67 26 0.43
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.35
Consensus pattern (65 bp):
TAAATGAACTTAAACTCATGCATCACTATTATCCTAGCAACTAGTTTAATTAAAGAAGCATCTAT
Found at i:18158682 original size:10 final size:10
Alignment explanation
Indices: 18158667--18158693 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
18158657 TACTCCTTCA
18158667 AGCTCAAATC
1 AGCTCAAATC
18158677 AGCTCAAATC
1 AGCTCAAATC
18158687 AGCTCAA
1 AGCTCAA
18158694 CTTCAACTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.30, G:0.11, T:0.19
Consensus pattern (10 bp):
AGCTCAAATC
Found at i:18158715 original size:10 final size:10
Alignment explanation
Indices: 18158667--18158715 Score: 53
Period size: 10 Copynumber: 4.8 Consensus size: 10
18158657 TACTCCTTCA
*
18158667 AGCTCAAATC
1 AGCTCAACTC
*
18158677 AGCTCAAATC
1 AGCTCAACTC
18158687 AGCTCAACTTC
1 AGCTCAAC-TC
* *
18158698 AACTCAACTT
1 AGCTCAACTC
18158708 AGCTCAAC
1 AGCTCAAC
18158716 GAGCTCGTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
10 25 0.74
11 9 0.26
ACGTcount: A:0.37, C:0.33, G:0.08, T:0.22
Consensus pattern (10 bp):
AGCTCAACTC
Found at i:18163690 original size:30 final size:30
Alignment explanation
Indices: 18163656--18163751 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
18163646 TAAACTAAAA
*
18163656 TGAGCTAAGCTTTACCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAACTCGTGAGCTAAAGT
* * * *
18163686 TGAGCTAAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCTAA-GCTTTAACTCGTGAGCTAAAGT
* * *
18163716 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAACTCGTGAGCT-AAAGT
18163746 TGAGCT
1 TGAGCT
18163752 CAGTTTAGCT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 1 0.02
30 45 0.88
31 5 0.10
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAACTCGTGAGCTAAAGT
Found at i:18166016 original size:30 final size:30
Alignment explanation
Indices: 18165946--18166027 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 30
18165936 TTTTGTTTCA
* *
18165946 ATTTCTTTTTCATCTTCTTTTTCACTCTCAG
1 ATTTCTTTTTCTTC-TCTTTTTCAATCTCAG
18165977 ATTTC-TTTTCGTTCTCTTTTTCAATCTCA-
1 ATTTCTTTTTC-TTCTCTTTTTCAATCTCAG
* *
18166006 TTTTCTTTTTCATTTTCTTTTT
1 ATTTCTTTTTC-TTCTCTTTTT
18166028 GCTTTTCAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.09
30 33 0.75
31 7 0.16
ACGTcount: A:0.11, C:0.22, G:0.02, T:0.65
Consensus pattern (30 bp):
ATTTCTTTTTCTTCTCTTTTTCAATCTCAG
Found at i:18166027 original size:18 final size:18
Alignment explanation
Indices: 18165978--18166033 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
18165968 CACTCTCAGA
* *
18165978 TTTC-TTTTCGTTCTCTT
1 TTTCATTTTCATTTTCTT
* *
18165995 TTTCAATCTCATTTTCTT
1 TTTCATTTTCATTTTCTT
*
18166013 TTTCATTTTCTTTTTGCTT
1 TTTCATTTTCATTTT-CTT
18166032 TT
1 TT
18166034 CAAAGGCTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
17 4 0.13
18 21 0.70
19 5 0.17
ACGTcount: A:0.07, C:0.20, G:0.04, T:0.70
Consensus pattern (18 bp):
TTTCATTTTCATTTTCTT
Found at i:18166034 original size:12 final size:12
Alignment explanation
Indices: 18166003--18166027 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18165993 TTTTTCAATC
18166003 TCATTTTCTTTT
1 TCATTTTCTTTT
18166015 TCATTTTCTTTT
1 TCATTTTCTTTT
18166027 T
1 T
18166028 GCTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:18166045 original size:12 final size:12
Alignment explanation
Indices: 18166030--18166060 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
18166020 TTCTTTTTGC
18166030 TTTTCAAAGGCT
1 TTTTCAAAGGCT
18166042 TTTTCAAAGGCT
1 TTTTCAAAGGCT
18166054 TTTTCAA
1 TTTTCAA
18166061 GTTCTCTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (12 bp):
TTTTCAAAGGCT
Found at i:18169535 original size:20 final size:20
Alignment explanation
Indices: 18169512--18169558 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18169502 GGGTTAAGAT
*
18169512 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
18169532 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
18169552 TGAGCTG
1 TGAGCTG
18169559 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:18172394 original size:12 final size:11
Alignment explanation
Indices: 18172373--18172418 Score: 51
Period size: 10 Copynumber: 4.3 Consensus size: 11
18172363 CTCACAAGAC
*
18172373 TTTTCACTTTT
1 TTTTTACTTTT
*
18172384 TTTTGTTCTTTT
1 TTTT-TACTTTT
18172396 TTTTTAC-TTT
1 TTTTTACTTTT
18172406 TTTTT-CTTTT
1 TTTTTACTTTT
18172416 TTT
1 TTT
18172419 GCTCACTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 1 0.03
10 14 0.47
11 6 0.20
12 9 0.30
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (11 bp):
TTTTTACTTTT
Found at i:18172404 original size:23 final size:22
Alignment explanation
Indices: 18172373--18172433 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
18172363 CTCACAAGAC
*
18172373 TTTTCACTTTTTTTTGTTCTTTT
1 TTTTCACTTTTTTTTCTT-TTTT
*
18172396 TTTTTACTTTTTTTTCTTTTTT
1 TTTTCACTTTTTTTTCTTTTTT
**
18172418 TGCTCACTTCTTTTTT
1 TTTTCACTT-TTTTTT
18172434 TTCTTTGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 10 0.31
23 22 0.69
ACGTcount: A:0.05, C:0.15, G:0.03, T:0.77
Consensus pattern (22 bp):
TTTTCACTTTTTTTTCTTTTTT
Found at i:18172426 original size:22 final size:20
Alignment explanation
Indices: 18172382--18172433 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 20
18172372 CTTTTCACTT
*
18172382 TTTTTTGTTCTTTTTTTTTAC
1 TTTTTT-TTCTTTTTTTTCAC
18172403 TTTTTTTTCTTTTTTTGCTCAC
1 TTTTTTTTCTTTTTTT--TCAC
18172425 TTCTTTTTT
1 TT-TTTTTT
18172434 TTCTTTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 10 0.37
21 6 0.22
22 5 0.19
23 6 0.22
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTTCAC
Found at i:18173976 original size:20 final size:20
Alignment explanation
Indices: 18173953--18173999 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
18173943 GGGTTAAAAT
*
18173953 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
18173973 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
18173993 TGAGCTG
1 TGAGCTG
18174000 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:18176271 original size:5 final size:5
Alignment explanation
Indices: 18176261--18176317 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
18176251 CTCTTGCCTC
*
18176261 TCTTT TCTTT T-TATT TCTTTT TCTTT T-TCT TCTTT TGCTTTT TCTTT
1 TCTTT TCTTT TCT-TT TC-TTT TCTTT TCTTT TCTTT T-C-TTT TCTTT
18176308 TCTTT TCTTT
1 TCTTT TCTTT
18176318 ATTTTCTCTT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
4 4 0.09
5 29 0.66
6 6 0.14
7 5 0.11
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:18176281 original size:15 final size:14
Alignment explanation
Indices: 18176261--18176324 Score: 65
Period size: 16 Copynumber: 4.2 Consensus size: 14
18176251 CTCTTGCCTC
18176261 TCTTTTCTTTTTATT
1 TCTTTTCTTTTT-TT
*
18176276 TCTTTTTCTTTTTCT
1 TC-TTTTCTTTTTTT
18176291 TCTTTTGCTTTTTCTTT
1 TCTTTT-C-TTTT-TTT
*
18176308 TCTTTTCTTTATTT
1 TCTTTTCTTTTTTT
18176322 TCT
1 TCT
18176325 CTTTACAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
14 10 0.24
15 9 0.21
16 15 0.36
17 8 0.19
ACGTcount: A:0.03, C:0.17, G:0.02, T:0.78
Consensus pattern (14 bp):
TCTTTTCTTTTTTT
Found at i:18176293 original size:25 final size:25
Alignment explanation
Indices: 18176265--18176313 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
18176255 TGCCTCTCTT
18176265 TTCTTTT-TATTTCTTTTTCTTTTTC
1 TTCTTTTCTATTTC-TTTTCTTTTTC
*
18176290 TTCTTTTGCTTTTTCTTTTCTTTT
1 TTCTTTT-CTATTTCTTTTCTTTT
18176314 CTTTATTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 9 0.43
27 5 0.24
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (25 bp):
TTCTTTTCTATTTCTTTTCTTTTTC
Found at i:18176327 original size:21 final size:20
Alignment explanation
Indices: 18176259--18176328 Score: 54
Period size: 21 Copynumber: 3.4 Consensus size: 20
18176249 GCCTCTTGCC
18176259 TCTCTTTTCTTTT-TATTTCTT
1 TCTCTTTTCTTTTCT-TTT-TT
* *
18176280 TTTCTTTT-TCTTCTTTTGCTT
1 TCTCTTTTCTTTTCTTTT--TT
*
18176301 TTTCTTTTCTTTTCTTTATTT
1 TCTCTTTTCTTTTCTTT-TTT
18176322 TCTCTTT
1 TCTCTTT
18176329 ACAAGAATGT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 6 0.15
21 27 0.66
22 7 0.17
23 1 0.02
ACGTcount: A:0.03, C:0.19, G:0.01, T:0.77
Consensus pattern (20 bp):
TCTCTTTTCTTTTCTTTTTT
Found at i:18178932 original size:30 final size:30
Alignment explanation
Indices: 18178898--18178994 Score: 99
Period size: 30 Copynumber: 3.2 Consensus size: 30
18178888 TAAACTAAAA
18178898 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * *
18178928 TGAGCTGAAGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
* *
18178958 TGAGCTAAGGTTTAGCTCGTGAGTTGAAAG-
1 TGAGCTAAGCTTTAGCTCGTGAGCT-AAAGT
18178988 TGAGCTA
1 TGAGCTA
18178995 GGAGTGAGCT
Statistics
Matches: 52, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
29 3 0.06
30 42 0.81
31 7 0.13
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:18179399 original size:14 final size:14
Alignment explanation
Indices: 18179358--18179399 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18179348 ACTTTGTCCA
18179358 CTCTTTTTCTTTTTG
1 CTCTTTTTC-TTTTG
* *
18179373 -GCTTTTTATTTTG
1 CTCTTTTTCTTTTG
18179386 CTCTTTTTCTTTTG
1 CTCTTTTTCTTTTG
18179400 ATCTCTCCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.02, C:0.17, G:0.10, T:0.71
Consensus pattern (14 bp):
CTCTTTTTCTTTTG
Found at i:18186577 original size:30 final size:30
Alignment explanation
Indices: 18186492--18186588 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
18186482 TAAACTAAAA
* *
18186492 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
* * * * *
18186522 TGAGCTGAGATTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
*
18186552 TGAGCTAAGGTTTAGCTCGTGAGCTGAA-T
1 TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
18186581 ATGAGCTA
1 -TGAGCTA
18186589 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 1 0.02
30 52 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGATTTAGCTCGTGAGCTGAAGT
Found at i:18188273 original size:10 final size:10
Alignment explanation
Indices: 18188254--18188288 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
18188244 AACCTCGGTT
18188254 GAGCTCAAAC
1 GAGCTCAAAC
*
18188264 GAGCTGAAAC
1 GAGCTCAAAC
*
18188274 GAGCTCAAAT
1 GAGCTCAAAC
18188284 GAGCT
1 GAGCT
18188289 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.23, G:0.26, T:0.14
Consensus pattern (10 bp):
GAGCTCAAAC
Found at i:18188297 original size:20 final size:20
Alignment explanation
Indices: 18188251--18188298 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
18188241 AGTAACCTCG
18188251 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
*** *
18188271 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
18188291 GTTGAGCT
1 GTTGAGCT
18188299 GGACGGAGCT
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:18189910 original size:18 final size:19
Alignment explanation
Indices: 18189887--18189925 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
18189877 TTTATCTCAA
*
18189887 TTTCTTTTTC-CACTCTTT
1 TTTCTTGTTCACACTCTTT
*
18189905 TTTCTTGTTCACATTCTTT
1 TTTCTTGTTCACACTCTTT
18189924 TT
1 TT
18189926 CTCTCTCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.08, C:0.23, G:0.03, T:0.67
Consensus pattern (19 bp):
TTTCTTGTTCACACTCTTT
Found at i:18189941 original size:48 final size:49
Alignment explanation
Indices: 18189889--18189992 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 49
18189879 TATCTCAATT
* * *
18189889 TCTTTTTCCACTCT-TTTTTC-TTGTTCACATTCTTTTTCTCTCTCAAAC
1 TCTTTTTCCACTCTCTTTTTCAAT-CTCACATTCTTTTTCACTCTCAAAC
* ** *
18189937 TCTTTTT-CATTCTCTTTTTCAATCTCATTTTCTTTTTCACTCTCAATC
1 TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
18189985 TCTTTTTC
1 TCTTTTTC
18189993 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
47 5 0.11
48 40 0.87
49 1 0.02
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (49 bp):
TCTTTTTCCACTCTCTTTTTCAATCTCACATTCTTTTTCACTCTCAAAC
Found at i:18189964 original size:18 final size:18
Alignment explanation
Indices: 18189943--18189992 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
18189933 AAACTCTTTT
18189943 TCATTCTCTTTTTCAATC
1 TCATTCTCTTTTTCAATC
* *
18189961 TCATTTTCTTTTTCACTC
1 TCATTCTCTTTTTCAATC
*
18189979 TCAATCTCTTTTTC
1 TCATTCTCTTTTTC
18189993 TTTTTCTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.14, C:0.28, G:0.00, T:0.58
Consensus pattern (18 bp):
TCATTCTCTTTTTCAATC
Done.