Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 60 of 198
Found at i:18399803 original size:16 final size:16
Alignment explanation
Indices: 18399782--18399851 Score: 95
Period size: 16 Copynumber: 4.4 Consensus size: 16
18399772 TTGATTTGCT
*
18399782 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
* *
18399798 ATTACACCTCTATTCT
1 ATTACACCTCTAATCC
18399814 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
18399830 AATACACCTCTAATCC
1 ATTACACCTCTAATCC
*
18399846 AATACA
1 ATTACA
18399852 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.33, C:0.34, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18399816 original size:32 final size:32
Alignment explanation
Indices: 18399780--18399841 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
18399770 AGTTGATTTG
* *
18399780 CTATTACACCTCTATTCCATTACACCTCTATT
1 CTATTACACCTCTAATCCAATACACCTCTATT
18399812 CTATTACACCTCTAATCCAATACACCTCTA
1 CTATTACACCTCTAATCCAATACACCTCTA
18399842 ATCCAATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.29, C:0.35, G:0.00, T:0.35
Consensus pattern (32 bp):
CTATTACACCTCTAATCCAATACACCTCTATT
Found at i:18402317 original size:33 final size:33
Alignment explanation
Indices: 18402244--18402318 Score: 105
Period size: 33 Copynumber: 2.3 Consensus size: 33
18402234 TGGACGTACC
*
18402244 TCGTGTTTATTATCCTAACAGATTATCTCTGTT
1 TCGTGTTTATTATCCTAACAGAATATCTCTGTT
** * *
18402277 TTATGTTTATTATCCTAGCAGAATATCTTTGTT
1 TCGTGTTTATTATCCTAACAGAATATCTCTGTT
18402310 TCGTGTTTA
1 TCGTGTTTA
18402319 CTGTCTCGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.21, C:0.15, G:0.13, T:0.51
Consensus pattern (33 bp):
TCGTGTTTATTATCCTAACAGAATATCTCTGTT
Found at i:18405499 original size:43 final size:43
Alignment explanation
Indices: 18405450--18405536 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
18405440 GTGTGTCCGC
* * * *
18405450 CCATGTGGGTATTTGAAATAGTGCCAGATGACCGTGTGCCAAA
1 CCATGTGGGTATTCGAAATAGGGCCACACGACCGTGTGCCAAA
* * *
18405493 CCATGTGTGTATTCGAAGTAGGGTCACACGACCGTGTGCCAAA
1 CCATGTGGGTATTCGAAATAGGGCCACACGACCGTGTGCCAAA
18405536 C
1 C
18405537 TGTGCCACAA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (43 bp):
CCATGTGGGTATTCGAAATAGGGCCACACGACCGTGTGCCAAA
Found at i:18406443 original size:2 final size:2
Alignment explanation
Indices: 18406436--18406470 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
18406426 TATAACCGTC
18406436 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA C
18406471 TCATATATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.51, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:18406711 original size:22 final size:21
Alignment explanation
Indices: 18406677--18406742 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 21
18406667 GAGGTACGAT
18406677 TGTACAATCAGAGGCATCGTAAAG
1 TGTA-AAT-AGAGGCATC-TAAAG
18406701 TGTAAATAGAGGCA-CTAAAG
1 TGTAAATAGAGGCATCTAAAG
** *
18406721 TGCGAACAGAGGCATC-AAAG
1 TGTAAATAGAGGCATCTAAAG
18406741 TG
1 TG
18406743 CGATCCTATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
20 22 0.58
21 2 0.05
22 7 0.18
23 3 0.08
24 4 0.11
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.18
Consensus pattern (21 bp):
TGTAAATAGAGGCATCTAAAG
Found at i:18427594 original size:25 final size:25
Alignment explanation
Indices: 18427566--18427646 Score: 92
Period size: 25 Copynumber: 3.2 Consensus size: 25
18427556 GTTTTGTGAT
*
18427566 TTAAATTGGTCTTGGTTTAGACAAA
1 TTAAATTGGTCTTAGTTTAGACAAA
*
18427591 TTAAATTGGTCTTAGTTTAGAC-AC
1 TTAAATTGGTCTTAGTTTAGACAAA
* * *
18427615 TTTAATTGTGTCTATTGTTTGGACAAA
1 TTAAATTG-GTCT-TAGTTTAGACAAA
18427642 TTAAA
1 TTAAA
18427647 GTGTGTCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
24 8 0.17
25 25 0.54
26 8 0.17
27 5 0.11
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (25 bp):
TTAAATTGGTCTTAGTTTAGACAAA
Found at i:18435965 original size:128 final size:128
Alignment explanation
Indices: 18435833--18436184 Score: 472
Period size: 128 Copynumber: 2.7 Consensus size: 128
18435823 TAGGATTATC
* *
18435833 GGCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTGC
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTAATGC
* *
18435898 TTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTGAC-CAGGGACATAGAACTTGT
66 TTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCT-ACTCAGAGAAATAGAACTTGT
* *
18435961 GGCTTGAATCTGCTTCCTTACACTTGAAGATAAGATTTGCCGTCTTCGATCTGCTCCGCTAATGC
1 GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTAATGC
* * *
18436026 TTAGGGAGACAAGATCTGTAATTTCCTACCTATTCCACTGCTACTCAGAGAAATAGGACTTGT
66 TTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTACTCAGAGAAATAGAACTTGT
* * * * * * * * ** *
18436089 GGCTTAAATCAGTTTCCCTACTCCTGGGGAAGCTAAGATTCGTCGTCTTCGATCTACTCCATTAT
1 GGCTTAAATCTGCTTCCTTAC-ACT--TGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTAA
*
18436154 TTCTTAGGGAGATAAGATCTGTAATTTCCAA
63 TGCTTAGGGAGATAAGATCTGTAATTTCCAA
18436185 TCTTCAACCT
Statistics
Matches: 196, Mismatches: 24, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
127 2 0.01
128 134 0.68
129 2 0.01
131 58 0.30
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (128 bp):
GGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTAATGC
TTAGGGAGATAAGATCTGTAATTTCCAACCTATTCCACTGCTACTCAGAGAAATAGAACTTGT
Found at i:18436306 original size:44 final size:44
Alignment explanation
Indices: 18436258--18436395 Score: 143
Period size: 44 Copynumber: 3.2 Consensus size: 44
18436248 CGACGCAGGA
**
18436258 AGGCAAGATCTGCTATCTTCAACCTGCAACACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
* * * * **** **
18436302 AGGCAAG-GCTGGTATCTTCGATCTGCTCCACTATTGCTTAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
* *
18436345 AGGCAAGATCCGCTATCTTTAACCTGCTCCACTGCAACCGAGGG
1 AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
18436389 AGGCAAG
1 AGGCAAG
18436396 GCTTTGTTTT
Statistics
Matches: 69, Mismatches: 24, Indels: 2
0.73 0.25 0.02
Matches are distributed among these distances:
43 31 0.45
44 38 0.55
ACGTcount: A:0.25, C:0.28, G:0.25, T:0.22
Consensus pattern (44 bp):
AGGCAAGATCTGCTATCTTCAACCTGCTCCACTGCAACCGAGGG
Found at i:18436378 original size:87 final size:88
Alignment explanation
Indices: 18436184--18436398 Score: 263
Period size: 87 Copynumber: 2.5 Consensus size: 88
18436174 GTAATTTCCA
* * * * * *
18436184 ATCTTCAACCTGTTCTACTACAATCGAGGGAGGCAAGGCTTGTGCCTTCGATCTGCTTCCCCATC
1 ATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTACCTTCGATCTGCTTCCCCATC
*
18436249 GACGCAGGAAGGCAAGATCTGCT
66 GACGCAGGAAGGCAAGATCCGCT
** * *
18436272 ATCTTCAACCTGCAACACTGCAACCGAGGGAGGCAAGGCTGGTATCTTCGATCTGC-TCCACTAT
1 ATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTACCTTCGATCTGCTTCC-CCAT
* ** *
18436336 TG-CTTAGGGAGGCAAGATCCGCT
65 CGACGCAGGAAGGCAAGATCCGCT
*
18436359 ATCTTTAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCT
1 ATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCT
18436399 TTGTTTTCGA
Statistics
Matches: 108, Mismatches: 18, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
87 57 0.53
88 51 0.47
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (88 bp):
ATCTTCAACCTGCTCCACTGCAACCGAGGGAGGCAAGGCTGGTACCTTCGATCTGCTTCCCCATC
GACGCAGGAAGGCAAGATCCGCT
Found at i:18437666 original size:6 final size:6
Alignment explanation
Indices: 18437657--18437702 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
18437647 CATTTTTACT
18437657 TTTTCA TTTTTCA TTTTTCA TTTTCA TTTTCA TTTT-- TTTTCA TTTT
1 TTTTCA -TTTTCA -TTTTCA TTTTCA TTTTCA TTTTCA TTTTCA TTTT
18437703 TTATTTCTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.11
6 20 0.54
7 13 0.35
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (6 bp):
TTTTCA
Found at i:18437702 original size:9 final size:10
Alignment explanation
Indices: 18437670--18437717 Score: 53
Period size: 12 Copynumber: 4.5 Consensus size: 10
18437660 TCATTTTTCA
18437670 TTTTTCATTT
1 TTTTTCATTT
18437680 TCATTTTCATTT
1 T--TTTTCATTT
18437692 TTTTTCATTTT
1 TTTTTCA-TTT
18437703 TTATTTC-TTT
1 TT-TTTCATTT
18437713 TTTTT
1 TTTTT
18437718 ACTCAAAGTG
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
9 3 0.09
10 12 0.35
11 5 0.15
12 14 0.41
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTCATTT
Found at i:18437703 original size:7 final size:7
Alignment explanation
Indices: 18437645--18437693 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
18437635 ACTTAGCCTC
18437645 TTCATTT
1 TTCATTT
18437652 TT-ACTTT
1 TTCA-TTT
18437659 TTCATTT
1 TTCATTT
18437666 TTCATTT
1 TTCATTT
18437673 TTCA-TT
1 TTCATTT
18437679 TTCA-TT
1 TTCATTT
18437685 TTCATTT
1 TTCATTT
18437692 TT
1 TT
18437694 TTTCATTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 13 0.33
7 25 0.64
8 1 0.03
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.71
Consensus pattern (7 bp):
TTCATTT
Found at i:18443041 original size:20 final size:22
Alignment explanation
Indices: 18443002--18443045 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
18442992 TGAAATGAAA
*
18443002 TATTTAATATAAATAATATATG
1 TATTTAATATAAACAATATATG
18443024 TATTT-ATAT-AACAATATATG
1 TATTTAATATAAACAATATATG
18443044 TA
1 TA
18443046 AAAGAGGTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 4 0.19
22 5 0.24
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (22 bp):
TATTTAATATAAACAATATATG
Found at i:18447799 original size:21 final size:21
Alignment explanation
Indices: 18447774--18447835 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
18447764 TAGAGTGTAA
18447774 ACAGGGGCATGTAAGTGCAAT
1 ACAGGGGCATGTAAGTGCAAT
* * *
18447795 GCAGGGGTA-GTGAAGTACAA-
1 ACAGGGGCATGT-AAGTGCAAT
*
18447815 ACAGGGGCATGTATGTGCAAT
1 ACAGGGGCATGTAAGTGCAAT
18447836 TCATGGATAC
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.32, C:0.13, G:0.35, T:0.19
Consensus pattern (21 bp):
ACAGGGGCATGTAAGTGCAAT
Found at i:18447833 original size:41 final size:41
Alignment explanation
Indices: 18447772--18447883 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 41
18447762 ACTAGAGTGT
* * * ***
18447772 AAACAGGGGCATGTAAGTGCAATGCAGGGGTAGTGAAGTAC
1 AAACAGGGGCATGTATGTGCAATTCAGGGATACCAAAGTAC
*
18447813 AAACAGGGGCATGTATGTGCAATTCATGGATACCAAAGTAC
1 AAACAGGGGCATGTATGTGCAATTCAGGGATACCAAAGTAC
* * *
18447854 AAATAGGAGCATATATGTGCAATTCAGGGA
1 AAACAGGGGCATGTATGTGCAATTCAGGGA
18447884 AATAATTCAG
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.37, C:0.13, G:0.29, T:0.21
Consensus pattern (41 bp):
AAACAGGGGCATGTATGTGCAATTCAGGGATACCAAAGTAC
Found at i:18449837 original size:25 final size:25
Alignment explanation
Indices: 18449775--18449838 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
18449765 CTACAGATCA
* * *
18449775 TGAGAGCATACCAATTTATAGCTTG
1 TGAGATCATACCGATTTATAGCTCG
18449800 TGAGATCATACCGATTTATAGCTCG
1 TGAGATCATACCGATTTATAGCTCG
18449825 TGAGATCATACCGA
1 TGAGATCATACCGA
18449839 CCTAGAGCTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (25 bp):
TGAGATCATACCGATTTATAGCTCG
Found at i:18449847 original size:25 final size:25
Alignment explanation
Indices: 18449794--18449848 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
18449784 ACCAATTTAT
* ** *
18449794 AGCTTGTGAGATCATACCGATTTAT
1 AGCTCGTGAGATCATACCGACCTAG
18449819 AGCTCGTGAGATCATACCGACCTAG
1 AGCTCGTGAGATCATACCGACCTAG
18449844 AGCTC
1 AGCTC
18449849 AAGTGAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (25 bp):
AGCTCGTGAGATCATACCGACCTAG
Found at i:18463358 original size:25 final size:25
Alignment explanation
Indices: 18463307--18463446 Score: 119
Period size: 25 Copynumber: 5.7 Consensus size: 25
18463297 TCGATATATT
* * *
18463307 GCTCTCTTGGGCTTCCCG-TTATTTG
1 GCTCTCATGAGCTTCCCGATTA-ATG
*
18463332 GCTCTCATGAGCTTCCTGATTAATG
1 GCTCTCATGAGCTTCCCGATTAATG
* *
18463357 GCTCTC-CGAAGCTTCCCGA-TATTG
1 GCTCTCATG-AGCTTCCCGATTAATG
* * *
18463381 GCTCGCATGAGTTTCCCGATT-ACG
1 GCTCTCATGAGCTTCCCGATTAATG
*
18463405 GCTCTTATGAGCTTCCCG-TTACATG
1 GCTCTCATGAGCTTCCCGATTA-ATG
*
18463430 GCTCACATGAGCTTCCC
1 GCTCTCATGAGCTTCCC
18463447 ATTTACATAC
Statistics
Matches: 91, Mismatches: 18, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
23 2 0.02
24 35 0.38
25 51 0.56
26 3 0.03
ACGTcount: A:0.15, C:0.30, G:0.21, T:0.34
Consensus pattern (25 bp):
GCTCTCATGAGCTTCCCGATTAATG
Found at i:18463407 original size:24 final size:24
Alignment explanation
Indices: 18463366--18463446 Score: 74
Period size: 24 Copynumber: 3.3 Consensus size: 24
18463356 GGCTCTCCGA
* ** *
18463366 AGCTTCCCGATATTGGCTCGCATG
1 AGCTTCCCGTTACAGGCTCACATG
* **
18463390 AGTTTCCCGATTAC-GGCTCTTATG
1 AGCTTCCCG-TTACAGGCTCACATG
18463414 AGCTTCCCGTTACATGGCTCACATG
1 AGCTTCCCGTTACA-GGCTCACATG
18463439 AGCTTCCC
1 AGCTTCCC
18463447 ATTTACATAC
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
23 4 0.09
24 24 0.52
25 18 0.39
ACGTcount: A:0.17, C:0.31, G:0.21, T:0.31
Consensus pattern (24 bp):
AGCTTCCCGTTACAGGCTCACATG
Found at i:18463432 original size:49 final size:49
Alignment explanation
Indices: 18463317--18463446 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 49
18463307 GCTCTCTTGG
* * * *
18463317 GCTTCCCGTTATTTGGCTCTCATGAGCTTCCTGATTAATGGCTCTCCGAA
1 GCTTCCCGTTA-TTGGCTCACATGAGCTTCCCGATTAACGGCTCTACGAA
* * * *
18463367 GCTTCCCGATATTGGCTCGCATGAGTTTCCCGATT-ACGGCTCTTATG-A
1 GCTTCCCGTTATTGGCTCACATGAGCTTCCCGATTAACGGCTC-TACGAA
*
18463415 GCTTCCCGTTACATGGCTCACATGAGCTTCCC
1 GCTTCCCGTTA-TTGGCTCACATGAGCTTCCC
18463447 ATTTACATAC
Statistics
Matches: 67, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
48 17 0.25
49 40 0.60
50 10 0.15
ACGTcount: A:0.16, C:0.30, G:0.21, T:0.33
Consensus pattern (49 bp):
GCTTCCCGTTATTGGCTCACATGAGCTTCCCGATTAACGGCTCTACGAA
Found at i:18463464 original size:25 final size:25
Alignment explanation
Indices: 18463410--18463466 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
18463400 TTACGGCTCT
*
18463410 TATGAGCTTCCCGTTACATGGCTCA
1 TATGAGCTTCCCGTTACATGACTCA
* * *
18463435 CATGAGCTTCCCATTTACAT-ACTCG
1 TATGAGCTTCCC-GTTACATGACTCA
18463460 TATGAGC
1 TATGAGC
18463467 ATACATGACT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.32
Consensus pattern (25 bp):
TATGAGCTTCCCGTTACATGACTCA
Found at i:18467062 original size:41 final size:41
Alignment explanation
Indices: 18467006--18467096 Score: 110
Period size: 41 Copynumber: 2.2 Consensus size: 41
18466996 TGATTCAGTA
* * * *
18467006 CACCGGCTTTTAGCCTGCTAGACCTATAGTCCGAAATGTAT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
* * * *
18467047 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
18467088 CACCGGCAT
1 CACCGGCAT
18467097 CAATAAGATA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACCTAAAGTCCGAAATATAT
Found at i:18467751 original size:20 final size:21
Alignment explanation
Indices: 18467722--18467762 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
18467712 TCATAAAATC
*
18467722 AAATTTAGCTTA-AGAACATA
1 AAATTCAGCTTATAGAACATA
18467742 AAATTCAGCTTATAGAACATA
1 AAATTCAGCTTATAGAACATA
18467763 TATATATTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.49, C:0.12, G:0.10, T:0.29
Consensus pattern (21 bp):
AAATTCAGCTTATAGAACATA
Found at i:18469623 original size:3 final size:3
Alignment explanation
Indices: 18469615--18469650 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
18469605 AAATTGAACA
18469615 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18469651 TGACTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:18473004 original size:16 final size:16
Alignment explanation
Indices: 18472985--18473016 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
18472975 ATATTAATGT
*
18472985 TATTTAATTTTAAAAA
1 TATTTAATATTAAAAA
18473001 TATTTAATATTAAAAA
1 TATTTAATATTAAAAA
18473017 ATACAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTAATATTAAAAA
Found at i:18473018 original size:17 final size:16
Alignment explanation
Indices: 18472985--18473019 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
18472975 ATATTAATGT
*
18472985 TATTTAATTTTAAAAA
1 TATTTAATTTAAAAAA
18473001 TATTTAATATTAAAAAA
1 TATTTAAT-TTAAAAAA
18473018 TA
1 TA
18473020 CAAAAGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TATTTAATTTAAAAAA
Found at i:18473107 original size:21 final size:20
Alignment explanation
Indices: 18473049--18473108 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
18473039 ATATTAATAT
*
18473049 TAATATATT-ATAATTTAAA
1 TAATATATTAATAAATTAAA
** *
18473068 TAATAATATTAATTTATTATA
1 TAAT-ATATTAATAAATTAAA
18473089 TATATATATTAATAAATTAA
1 TA-ATATATTAATAAATTAA
18473109 TTTATTTTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
19 4 0.13
20 5 0.16
21 20 0.65
22 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TAATATATTAATAAATTAAA
Found at i:18473628 original size:3 final size:3
Alignment explanation
Indices: 18473611--18473670 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
18473601 TTTAGGTTTA
* *
18473611 ATT ATT AAT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18473659 ATT ATT ATT ATT
1 ATT ATT ATT ATT
18473671 TTGTTAAAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:18475723 original size:32 final size:32
Alignment explanation
Indices: 18475659--18475729 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
18475649 CTATTCTGAA
* *
18475659 AATAGTTATTTTGGACATAACTATTCTCAAAC
1 AATAGTTATTTTGAACACAACTATTCTCAAAC
* *
18475691 AATAGTTATTTTGAACAACAATTGTTCT-AAAC
1 AATAGTTATTTTGAAC-ACAACTATTCTCAAAC
*
18475723 AAGAGTT
1 AATAGTT
18475730 GTTATTCTTG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
32 25 0.76
33 8 0.24
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (32 bp):
AATAGTTATTTTGAACACAACTATTCTCAAAC
Found at i:18480021 original size:35 final size:35
Alignment explanation
Indices: 18479982--18480094 Score: 81
Period size: 35 Copynumber: 3.1 Consensus size: 35
18479972 ATTTTCATAA
18479982 TCTATACAATGTAAGTGAGAGGATACCTTTCACTC
1 TCTATACAATGTAAGTGAGAGGATACCTTTCACTC
* * * * * *
18480017 TCTATTTAAGCTATG-AA-TTACACG-TTCCATTTTCA-TAA
1 TCTA--T-A-CAATGTAAGTGAGAGGATACC--TTTCACT-C
18480055 TCTATACAATGTAAGTGAGAGGATACCTTTCACTC
1 TCTATACAATGTAAGTGAGAGGATACCTTTCACTC
18480090 TCTAT
1 TCTAT
18480095 TTAAGCTATG
Statistics
Matches: 55, Mismatches: 12, Indels: 22
0.62 0.13 0.25
Matches are distributed among these distances:
34 4 0.07
35 17 0.31
36 9 0.16
37 9 0.16
38 12 0.22
39 4 0.07
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (35 bp):
TCTATACAATGTAAGTGAGAGGATACCTTTCACTC
Found at i:18480083 original size:73 final size:73
Alignment explanation
Indices: 18479964--18480108 Score: 290
Period size: 73 Copynumber: 2.0 Consensus size: 73
18479954 GACTTGTTGT
18479964 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
1 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
18480029 ATGAATTA
66 ATGAATTA
18480037 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
1 CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
18480102 ATGAATT
66 ATGAATT
18480109 CCACTAGTAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 72 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.37
Consensus pattern (73 bp):
CACGTTCCATTTTCATAATCTATACAATGTAAGTGAGAGGATACCTTTCACTCTCTATTTAAGCT
ATGAATTA
Found at i:18484342 original size:24 final size:24
Alignment explanation
Indices: 18484315--18484368 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
18484305 TAGGGGTAGG
**
18484315 ATCTGTGGCTACATTTGTATATGA
1 ATCTGTGGCTACATTTACATATGA
* * *
18484339 ATCTGTGTCTGCATTTACATCTGA
1 ATCTGTGGCTACATTTACATATGA
18484363 ATCTGT
1 ATCTGT
18484369 ATAAGTATCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
ATCTGTGGCTACATTTACATATGA
Found at i:18484925 original size:20 final size:19
Alignment explanation
Indices: 18484890--18484937 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 19
18484880 CAATCACGAA
18484890 ATTTCATTCCATATATATATT
1 ATTTCATT--ATATATATATT
18484911 ATTATCATTATATATATATT
1 ATT-TCATTATATATATATT
18484931 ATTTCAT
1 ATTTCAT
18484938 AAATTAGACC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 14 0.54
21 3 0.12
22 5 0.19
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTCATTATATATATATT
Found at i:18490269 original size:43 final size:44
Alignment explanation
Indices: 18490165--18490272 Score: 134
Period size: 44 Copynumber: 2.5 Consensus size: 44
18490155 TGTGTTGTCG
* * *
18490165 TGTAAGACCACGTCTGGGACGTTGGTATTGACTTGTGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACA
18490209 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGA-TATGTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGACT-TGTGATTTACA
18490252 TGTAAGACCACGTCTGGGACG
1 TGTAAGACCACGTCTGGGACG
18490273 ATGACATTGT
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
42 1 0.02
43 24 0.42
44 31 0.54
45 1 0.02
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.29
Consensus pattern (44 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGACTTGTGATTTACA
Found at i:18491088 original size:23 final size:23
Alignment explanation
Indices: 18491058--18491253 Score: 185
Period size: 23 Copynumber: 8.4 Consensus size: 23
18491048 TTCGATTCAA
* * *
18491058 GTCCAATTCGATGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* * **
18491081 GTCCAATTTTGGTGTAAAAATATT
1 GTCCAA-TTTGGTGTATATATGCT
*
18491105 GTCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
18491128 GCCCAATTTGGTGTCTATATGCT
1 GTCCAATTTGGTGTATATATGCT
* *
18491151 GTCCAATTTTGGTGTAAAAATGCT
1 GTCCAA-TTTGGTGTATATATGCT
*
18491175 GTCCAATTTGGTATATATATGCT
1 GTCCAATTTGGTGTATATATGCT
** * *
18491198 ACCCAATTTGGTGTCTATATGTT
1 GTCCAATTTGGTGTATATATGCT
* * *
18491221 GTCCAATTTTGGTGTAAAAATGAT
1 GTCCAA-TTTGGTGTATATATGCT
18491245 GTCCAATTT
1 GTCCAATTT
18491254 AATATATATA
Statistics
Matches: 137, Mismatches: 33, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
23 82 0.60
24 55 0.40
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (23 bp):
GTCCAATTTGGTGTATATATGCT
Found at i:18491127 original size:47 final size:46
Alignment explanation
Indices: 18491073--18491264 Score: 161
Period size: 47 Copynumber: 4.1 Consensus size: 46
18491063 ATTCGATGTC
*
18491073 TATATGCTGTCCAATTTTGGTGTAAAAATATTGTCCAATTTGGTATA
1 TATATGCTGTCCAA-TTTGGTGTAAAAATACTGTCCAATTTGGTATA
* ** * * *
18491120 TATATGCTGCCCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTA
1 TATATGCTGTCCAATTTGGTGTAAAAATACTGTCCAA-TTTGGTATA
* * * * * * ** * *
18491167 AAAATGCTGTCCAATTTGGTATATATATGCTACCCAATTTGGTGTC
1 TATATGCTGTCCAATTTGGTGTAAAAATACTGTCCAATTTGGTATA
* **
18491213 TATATGTTGTCCAATTTTGGTGTAAAAATGA-TGTCCAATTTAATATA
1 TATATGCTGTCCAA-TTTGGTGTAAAAAT-ACTGTCCAATTTGGTATA
18491260 TATAT
1 TATAT
18491265 ATATATATAT
Statistics
Matches: 114, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 37 0.32
47 77 0.68
ACGTcount: A:0.28, C:0.13, G:0.17, T:0.42
Consensus pattern (46 bp):
TATATGCTGTCCAATTTGGTGTAAAAATACTGTCCAATTTGGTATA
Found at i:18491134 original size:70 final size:70
Alignment explanation
Indices: 18491060--18491411 Score: 461
Period size: 70 Copynumber: 4.9 Consensus size: 70
18491050 CGATTCAAGT
* * ** *
18491060 CCAATTCGATGTCTATATGCTGTCCAATTTTGGTGTAAAAATATTGTCCAATTTGGTATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
18491125 GCTGC
66 GCTGC
*
18491130 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGGTATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
*
18491195 GCTAC
66 GCTGC
* * *
18491200 CCAATTTGGTGTCTATATGTTGTCCAATTTTGGTGTAAAAATGATGTCCAATTTAATATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCC------A-AT-T-T-G
18491265 ATATATATATGCTGC
56 ATATATATATGCTGC
*
18491280 CCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
18491345 GCTGC
66 GCTGC
* * * * * *
18491350 CCATTTTGGTGTATAAATGTTGTCCAATTTTGGTGTATAAATGCTGTCCAATTTGATGTATA
1 CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATA
18491412 AGAGCTGTCC
Statistics
Matches: 251, Mismatches: 21, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
70 182 0.73
71 1 0.00
72 1 0.00
73 2 0.01
74 1 0.00
76 1 0.00
77 2 0.01
78 1 0.00
79 1 0.00
80 59 0.24
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (70 bp):
CCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAATTTGATATATATAT
GCTGC
Found at i:18491292 original size:150 final size:150
Alignment explanation
Indices: 18491116--18491403 Score: 504
Period size: 150 Copynumber: 1.9 Consensus size: 150
18491106 TCCAATTTGG
*
18491116 TATATATATGCTGCCCAATTTGGTGTCTATATGCTGTCCAATTTTGGTGTAAAAATGCTGTCCAA
1 TATATATATGCTGCCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGCTGTCCAA
* * *
18491181 TTTGGTATATATATGCTACCCAATTTGGTGTCTATATGTTGTCCAATTTTGGTGTAAAAATGATG
66 TTTGATATATATATGCTACCCAATTTGGTGTATAAATGTTGTCCAATTTTGGTGTAAAAATGATG
18491246 TCCAATTTAATATATATATA
131 TCCAATTTAATATATATATA
18491266 TATATATATGCTGCCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGCTGTCCAA
1 TATATATATGCTGCCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGCTGTCCAA
* * * *
18491331 TTTGATATATATATGCTGCCCATTTTGGTGTATAAATGTTGTCCAATTTTGGTGTATAAATGCTG
66 TTTGATATATATATGCTACCCAATTTGGTGTATAAATGTTGTCCAATTTTGGTGTAAAAATGATG
18491396 TCCAATTT
131 TCCAATTT
18491404 GATGTATAAG
Statistics
Matches: 130, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
150 130 1.00
ACGTcount: A:0.27, C:0.14, G:0.17, T:0.42
Consensus pattern (150 bp):
TATATATATGCTGCCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGCTGTCCAA
TTTGATATATATATGCTACCCAATTTGGTGTATAAATGTTGTCCAATTTTGGTGTAAAAATGATG
TCCAATTTAATATATATATA
Found at i:18491319 original size:80 final size:80
Alignment explanation
Indices: 18491186--18491344 Score: 273
Period size: 80 Copynumber: 2.0 Consensus size: 80
18491176 TCCAATTTGG
* *
18491186 TATATATATGCTACCCAATTTGGTGTCTATATGTTGTCCAATTTTGGTGTAAAAATGATGTCCAA
1 TATATATATGCTACCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGATGTCCAA
18491251 TTTAATATATATATA
66 TTTAATATATATATA
* *
18491266 TATATATATGCTGCCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGCTGTCCAA
1 TATATATATGCTACCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGATGTCCAA
*
18491331 TTTGATATATATAT
66 TTTAATATATATAT
18491345 GCTGCCCATT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
80 74 1.00
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (80 bp):
TATATATATGCTACCCAATTTGGTGTCTATATGCTATCCAATTTTGGTGTAAAAATGATGTCCAA
TTTAATATATATATA
Found at i:18491409 original size:23 final size:23
Alignment explanation
Indices: 18491268--18491423 Score: 161
Period size: 23 Copynumber: 6.7 Consensus size: 23
18491258 TATATATATA
* *
18491268 TATATATGCTGCCCAATTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
* * *
18491291 TCTATATGCTATCCAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
* * *
18491315 TAAAAATGCTGTCCAATTTGATA
1 TATAAATGCTGTCCAATTTGGTG
* * *
18491338 TATATATGCTGCCCATTTTGGTG
1 TATAAATGCTGTCCAATTTGGTG
*
18491361 TATAAATGTTGTCCAATTTTGGTG
1 TATAAATGCTGTCCAA-TTTGGTG
*
18491385 TATAAATGCTGTCCAATTTGATG
1 TATAAATGCTGTCCAATTTGGTG
18491408 TATAAGA-GCTGTCCAA
1 TATAA-ATGCTGTCCAA
18491424 ACAGGGTAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 6
0.80 0.15 0.04
Matches are distributed among these distances:
23 67 0.61
24 42 0.39
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (23 bp):
TATAAATGCTGTCCAATTTGGTG
Found at i:18491412 original size:47 final size:46
Alignment explanation
Indices: 18491268--18491423 Score: 170
Period size: 47 Copynumber: 3.3 Consensus size: 46
18491258 TATATATATA
* * * *
18491268 TATATATGCTGCCCAATTTGGTGTCTATATGCTATCCAATTTTGGTG
1 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAA-TTTGGTG
* * * * *
18491315 TAAAAATGCTGTCCAATTTGATATATATATGCTGCCCATTTTGGTG
1 TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTG
* * *
18491361 TATAAATGTTGTCCAATTTTGGTGTATAAATGCTGTCCAATTTGATG
1 TATAAATGCTGTCCAA-TTTGGTGTATATATGCTGTCCAATTTGGTG
18491408 TATAAGA-GCTGTCCAA
1 TATAA-ATGCTGTCCAA
18491424 ACAGGGTAGA
Statistics
Matches: 89, Mismatches: 18, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
46 21 0.24
47 67 0.75
48 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (46 bp):
TATAAATGCTGTCCAATTTGGTGTATATATGCTGTCCAATTTGGTG
Found at i:18493735 original size:13 final size:13
Alignment explanation
Indices: 18493719--18493743 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18493709 ATTAGACTCG
18493719 TAAATATTTATAT
1 TAAATATTTATAT
18493732 TAAATATTTATA
1 TAAATATTTATA
18493744 GAGTTATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TAAATATTTATAT
Found at i:18495168 original size:18 final size:19
Alignment explanation
Indices: 18495145--18495187 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
18495135 TGATTTTGAT
18495145 ATGGAAATAG-AATGGGAA
1 ATGGAAATAGAAATGGGAA
*
18495163 ATGG-AATTGAAATGGGAA
1 ATGGAAATAGAAATGGGAA
18495181 AT-GAAAT
1 ATGGAAAT
18495188 GTGAAATTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.49, C:0.00, G:0.30, T:0.21
Consensus pattern (19 bp):
ATGGAAATAGAAATGGGAA
Found at i:18495663 original size:2 final size:2
Alignment explanation
Indices: 18495656--18495680 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18495646 GAAGGCTATG
18495656 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
18495681 GTAAGAATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18496013 original size:28 final size:28
Alignment explanation
Indices: 18495948--18496015 Score: 118
Period size: 28 Copynumber: 2.4 Consensus size: 28
18495938 GTTTAGTGAA
*
18495948 TTGGTGTTTGGATGTAATTAATATGGAT
1 TTGGTGTTTTGATGTAATTAATATGGAT
*
18495976 TTGGTTTTTTGATGTAATTAATATGGAT
1 TTGGTGTTTTGATGTAATTAATATGGAT
18496004 TTGGTGTTTTGA
1 TTGGTGTTTTGA
18496016 ATGGAATGGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.22, C:0.00, G:0.26, T:0.51
Consensus pattern (28 bp):
TTGGTGTTTTGATGTAATTAATATGGAT
Found at i:18503080 original size:10 final size:10
Alignment explanation
Indices: 18503054--18503087 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
18503044 CTGAAACGAC
18503054 AATAAAAATACA
1 AATAAAAAT--A
18503066 AATAAAAATA
1 AATAAAAATA
18503076 AATAAAAATA
1 AATAAAAATA
18503086 AA
1 AA
18503088 ATCGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 13 0.59
12 9 0.41
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (10 bp):
AATAAAAATA
Found at i:18512162 original size:19 final size:20
Alignment explanation
Indices: 18512124--18512162 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18512114 AATAGGTAGA
18512124 ATTCCTAGAAAATAGAATTT
1 ATTCCTAGAAAATAGAATTT
*
18512144 ATTCCTAGAATAT-GAATTT
1 ATTCCTAGAAAATAGAATTT
18512163 CCACTACTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (20 bp):
ATTCCTAGAAAATAGAATTT
Found at i:18515349 original size:45 final size:44
Alignment explanation
Indices: 18515282--18515451 Score: 191
Period size: 45 Copynumber: 3.8 Consensus size: 44
18515272 ATGTACTGAG
18515282 TATCATTGATTATAAAGGTGGTTGCTATGAGCTGATTCCACCAGA
1 TATCATTGATTATAAAGGTGGTTGCTATGAGCTGATTCCACC-GA
* *
18515327 TACCATTGATTATAAAGGTGGTTGCTATGAGCTGACTCCACCGGA
1 TATCATTGATTATAAAGGTGGTTGCTATGAGCTGATTCCACC-GA
* * ** * *
18515372 AATTATTGAAAATAAAGGTGGTTGATAT-ATGTTGATTCCACCGAA
1 TATCATTGATTATAAAGGTGGTTGCTATGA-GCTGATTCCACCG-A
* * *
18515417 TATAATTGATTATAAGGGTGGTT-CTATGTGCTGAT
1 TATCATTGATTATAAAGGTGGTTGCTATGAGCTGAT
18515452 CAACCATGTA
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
44 10 0.10
45 93 0.90
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (44 bp):
TATCATTGATTATAAAGGTGGTTGCTATGAGCTGATTCCACCGA
Found at i:18517911 original size:27 final size:27
Alignment explanation
Indices: 18517881--18517932 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
18517871 TTTCATCTCC
*
18517881 TAGGGTTATAACGGTCATTTTACCCTA
1 TAGGGTTATAACGGTAATTTTACCCTA
**
18517908 TAGGGTTATTTCGGTAATTTTACCC
1 TAGGGTTATAACGGTAATTTTACCC
18517933 ATCGAGGGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (27 bp):
TAGGGTTATAACGGTAATTTTACCCTA
Found at i:18517944 original size:27 final size:27
Alignment explanation
Indices: 18517892--18518035 Score: 132
Period size: 27 Copynumber: 5.3 Consensus size: 27
18517882 AGGGTTATAA
*
18517892 CGGTCATTTTACCCTAT--AGGGTTATTT
1 CGGTAATTTTACCC-ATCGAGGG-TATTT
18517919 CGGTAATTTTACCCATCGAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
** * *
18517946 TAGTAATTTTACACATCAAGGGTATTT
1 CGGTAATTTTACCCATCGAGGGTATTT
* *
18517973 CAGTAATTTTACCCATTTG-GGGTATTT
1 CGGTAATTTTACCCA-TCGAGGGTATTT
* * * *
18518000 CGATAATCTTACCCATCGGGGGTCTTT
1 CGGTAATTTTACCCATCGAGGGTATTT
*
18518027 CGGTCATTT
1 CGGTAATTT
18518036 AATAACCTTT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
26 4 0.04
27 87 0.91
28 5 0.05
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.40
Consensus pattern (27 bp):
CGGTAATTTTACCCATCGAGGGTATTT
Found at i:18519047 original size:26 final size:27
Alignment explanation
Indices: 18519001--18519053 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
18518991 GAGAGGAGAG
18519001 GAGAAGAAAGAAGTATTCGGCCAACAA
1 GAGAAGAAAGAAGTATTCGGCCAACAA
18519028 GAGAAGAGAAG-AG-ATTCGGCCAACAA
1 GAGAAGA-AAGAAGTATTCGGCCAACAA
18519054 CCAAAAAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 13 0.52
27 9 0.36
28 3 0.12
ACGTcount: A:0.47, C:0.15, G:0.28, T:0.09
Consensus pattern (27 bp):
GAGAAGAAAGAAGTATTCGGCCAACAA
Found at i:18519500 original size:25 final size:25
Alignment explanation
Indices: 18519471--18519524 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
18519461 TGAACCTCTG
*
18519471 ACCTCATTACCACACTTGTGAT-GCC
1 ACCTCATTACCACACCTGTG-TCGCC
* *
18519496 ACCTCCTTGCCACACCTGTGTCGCC
1 ACCTCATTACCACACCTGTGTCGCC
18519521 ACCT
1 ACCT
18519525 TGCCACTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.04
25 24 0.96
ACGTcount: A:0.19, C:0.43, G:0.13, T:0.26
Consensus pattern (25 bp):
ACCTCATTACCACACCTGTGTCGCC
Found at i:18523666 original size:16 final size:17
Alignment explanation
Indices: 18523635--18523667 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18523625 ATACACATAA
18523635 ACCAAAACCTATTCAAG
1 ACCAAAACCTATTCAAG
*
18523652 ACCAAAATC-ATTCAAG
1 ACCAAAACCTATTCAAG
18523668 TATGACATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.48, C:0.27, G:0.06, T:0.18
Consensus pattern (17 bp):
ACCAAAACCTATTCAAG
Found at i:18533381 original size:17 final size:18
Alignment explanation
Indices: 18533361--18533399 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
18533351 AAAGGTAATT
18533361 AGGAATT-GAAG-GTCAAA
1 AGGAATTAGAAGAG-CAAA
18533378 AGGAATTAGAAGAGCAAA
1 AGGAATTAGAAGAGCAAA
18533396 AGGA
1 AGGA
18533400 GAGTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 12 0.60
19 1 0.05
ACGTcount: A:0.51, C:0.05, G:0.31, T:0.13
Consensus pattern (18 bp):
AGGAATTAGAAGAGCAAA
Found at i:18534142 original size:19 final size:19
Alignment explanation
Indices: 18534120--18534161 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
18534110 CATATACCCG
*
18534120 ATATCATATAGCATAATTC
1 ATATCAAATAGCATAATTC
* *
18534139 ATATCAAATATCATATTTC
1 ATATCAAATAGCATAATTC
18534158 ATAT
1 ATAT
18534162 ATCAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.40
Consensus pattern (19 bp):
ATATCAAATAGCATAATTC
Found at i:18543121 original size:27 final size:27
Alignment explanation
Indices: 18543082--18543182 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
18543072 ACGTGTCATA
* *
18543082 AAAATGAAACCTTTGTGGCAATTTATG
1 AAAATGAAGCCTTTGTGGCAATCTATG
* *
18543109 AAAATGAAGCCTTGGTGGTAATCTATG
1 AAAATGAAGCCTTTGTGGCAATCTATG
*
18543136 AAAAGGAAGCCTTTGTGGCAATCTATG
1 AAAATGAAGCCTTTGTGGCAATCTATG
* *
18543163 AAAAAAGAAGCTTTTGTGGC
1 -AAAATGAAGCCTTTGTGGC
18543183 GATTTATCAT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
27 47 0.73
28 17 0.27
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.29
Consensus pattern (27 bp):
AAAATGAAGCCTTTGTGGCAATCTATG
Found at i:18543178 original size:28 final size:27
Alignment explanation
Indices: 18543081--18543210 Score: 127
Period size: 27 Copynumber: 4.7 Consensus size: 27
18543071 AACGTGTCAT
* *
18543081 AAAAATGAAACCTTTGTGGCAATTTATG
1 AAAAA-GAAGCCTTTGTGGCAATCTATG
* * *
18543109 AAAATGAAGCCTTGGTGGTAATCTATG
1 AAAAAGAAGCCTTTGTGGCAATCTATG
*
18543136 AAAAGGAAGCCTTTGTGGCAATCTATG
1 AAAAAGAAGCCTTTGTGGCAATCTATG
* * * *
18543163 AAAAAAGAAGCTTTTGTGGCGATTTATC
1 -AAAAAGAAGCCTTTGTGGCAATCTATG
*
18543191 ATAAAA-AAGCCTCTGTGGCA
1 A-AAAAGAAGCCTTTGTGGCA
18543211 CCCTCTAATG
Statistics
Matches: 84, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
27 54 0.64
28 30 0.36
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.28
Consensus pattern (27 bp):
AAAAAGAAGCCTTTGTGGCAATCTATG
Found at i:18547495 original size:43 final size:43
Alignment explanation
Indices: 18547432--18547557 Score: 141
Period size: 43 Copynumber: 2.9 Consensus size: 43
18547422 AGGACTCCGT
*
18547432 TATGTGTTTTTGTGTAAGACCACGTCTGGGACGTTGGCATCGAC
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCG-C
* *
18547476 T-TGTGTTTTCGTGTAAGACC-CTTTCTGGGACAG-TGGCATCGG
1 TATGTGTTTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATCGC
* * * *
18547518 TATGTGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
18547558 TGTACTAGCT
Statistics
Matches: 69, Mismatches: 8, Indels: 11
0.78 0.09 0.12
Matches are distributed among these distances:
42 3 0.04
43 63 0.91
44 3 0.04
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TATGTGTTTTCGTGTAAGACCACGTCTGGGACGTTGGCATCGC
Found at i:18548227 original size:14 final size:15
Alignment explanation
Indices: 18548203--18548237 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
18548193 TACTTTAATC
18548203 ATGGATTAGTATTT-T
1 ATGG-TTAGTATTTAT
18548218 ATGGTTAGTATTTAT
1 ATGGTTAGTATTTAT
18548233 ATGGT
1 ATGGT
18548238 AATGTATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (15 bp):
ATGGTTAGTATTTAT
Found at i:18548557 original size:47 final size:47
Alignment explanation
Indices: 18548488--18548756 Score: 466
Period size: 47 Copynumber: 5.7 Consensus size: 47
18548478 GAGTAAATGA
* *
18548488 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAATCCAATTAGAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
18548535 ATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
* * *
18548582 ATGTATATGCTATCAAATTTTGATGTATAAATGCAATCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
18548629 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAAATATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
18548676 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
*
18548723 ATGTATATGCTGTCAAATTTTGATGTATAAATGC
1 ATGTATATGCTGTCAAATTTTGATGTACAAATGC
18548757 NNNNNNNNNN
Statistics
Matches: 211, Mismatches: 11, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 211 1.00
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (47 bp):
ATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATAT
Found at i:18549154 original size:47 final size:47
Alignment explanation
Indices: 18548922--18549142 Score: 376
Period size: 47 Copynumber: 4.7 Consensus size: 47
18548912 NNNNNNTGCT
*
18548922 GTCCAA-TATATATGTATATGCTGTCAAATTTTGATGTACAAATGCA
1 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
18548968 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
1 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
18549015 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
1 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
18549062 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
1 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
* *
18549109 GTCCAAATT-T-TGTATATATGCTGTCCAAATTTTG
1 GTCC-AATTATATATGTATATGCTGT-CAAATTTTG
18549143 GTGTGAAAAT
Statistics
Matches: 169, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
46 18 0.11
47 147 0.87
48 4 0.02
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (47 bp):
GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCA
Found at i:18549170 original size:46 final size:46
Alignment explanation
Indices: 18548936--18549196 Score: 238
Period size: 47 Copynumber: 5.6 Consensus size: 46
18548926 AATATATATG
* *
18548936 TATATGCTGTCAAATTTTGATGTACAAATGCAGTCC-AATTAT-ATA
1 TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-TGGTA
*
18548981 TGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCC-AATTAT-ATA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-TGGTA
*
18549028 TGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCC-AATTAT-ATA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATT-TGGTA
*
18549075 TGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATTTTGTA
1 --TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATTTGGTA
* * *
18549123 TATATGCTGTCCAAATTTTGGTGTGA-AAATGCTA-T-CTAGTTTGGTA
1 TATATGCTGT-CAAATTTTGATGT-ATAAATGC-AGTCCAAATTTGGTA
18549169 TATAAATGCTGTTCAAA--TTGATGTATAA
1 TAT--ATGCTG-TCAAATTTTGATGTATAA
18549197 TAATTGTCCA
Statistics
Matches: 198, Mismatches: 7, Indels: 19
0.88 0.03 0.08
Matches are distributed among these distances:
45 1 0.01
46 29 0.15
47 149 0.75
48 18 0.09
49 1 0.01
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (46 bp):
TATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAAATTTGGTA
Found at i:18549178 original size:94 final size:94
Alignment explanation
Indices: 18548922--18549196 Score: 332
Period size: 94 Copynumber: 2.9 Consensus size: 94
18548912 NNNNNNTGCT
* * * *
18548922 GTCCAA-TATATATGTATATGCTGTCAAATTTTGATGTACAAATGCAGTCCAATTATATATGTAT
1 GTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATAA
18548986 ATGCTGTCAAATTTTGATGTATAAATGCA
66 ATGCTGTCAAATTTTGATGTATAAATGCA
* * *
18549015 GTCCAATTATATATGTATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATGTAT
1 GTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATAA
18549080 ATGCTGTCAAATTTTGATGTATAAATGCA
66 ATGCTGTCAAATTTTGATGTATAAATGCA
* * * * *
18549109 GTCCAAATT-T-TGTATATATGCTGTCCAAATTTTGGTGTGA-AAATGCTA-TCTAGTT-TGGTA
1 GTCC-AATTATATATATATATGCTGT-CAAATTTTGATGT-ATAAATGC-AGTCCAATTAT-ATA
18549169 TATAAATGCTGTTCAAA--TTGATGTATAA
61 TATAAATGCTG-TCAAATTTTGATGTATAA
18549197 TAATTGTCCA
Statistics
Matches: 166, Mismatches: 9, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
93 30 0.18
94 125 0.75
95 11 0.07
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.40
Consensus pattern (94 bp):
GTCCAATTATATATATATATGCTGTCAAATTTTGATGTATAAATGCAGTCCAATTATATATATAA
ATGCTGTCAAATTTTGATGTATAAATGCA
Found at i:18549195 original size:23 final size:23
Alignment explanation
Indices: 18548986--18549196 Score: 59
Period size: 22 Copynumber: 9.0 Consensus size: 23
18548976 ATATATGTAT
18548986 ATGCTG-TCAAATTTTGATGTATAA
1 ATGCTGTTCAAA--TTGATGTATAA
* *
18549010 ATGCAGTCCAATTATAT-ATGTAT--
1 ATGCTGTTCAA--AT-TGATGTATAA
18549033 ATGCTG-TCAAATTTTGATGTATAA
1 ATGCTGTTCAAA--TTGATGTATAA
* *
18549057 ATGCAGTCCAATTATAT-ATGTAT--
1 ATGCTGTTCAA--AT-TGATGTATAA
18549080 ATGCTG-TCAAATTTTGATGTATAA
1 ATGCTGTTCAAA--TTGATGTATAA
* * * *
18549104 ATGCAGTCCAAATT-TTGTATAT
1 ATGCTGTTCAAATTGATGTATAA
* *
18549126 ATGCTGTCCAAATTTTGGTGTGA-AA
1 ATGCTGTTCAAA--TTGATGT-ATAA
* ** * *
18549151 ATGCT-ATCTAGTTTGGTATATAA
1 ATGCTGTTC-AAATTGATGTATAA
18549174 ATGCTGTTCAAATTGATGTATAA
1 ATGCTGTTCAAATTGATGTATAA
18549197 TAATTGTCCA
Statistics
Matches: 136, Mismatches: 25, Indels: 53
0.64 0.12 0.25
Matches are distributed among these distances:
20 2 0.01
21 2 0.01
22 38 0.28
23 35 0.26
24 20 0.15
25 34 0.25
26 3 0.02
27 2 0.01
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (23 bp):
ATGCTGTTCAAATTGATGTATAA
Found at i:18550852 original size:25 final size:25
Alignment explanation
Indices: 18550810--18550862 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
18550800 AAATACATAA
*
18550810 AAATAACCTAAAATTAAAAATAAAT
1 AAATAACCAAAAATTAAAAATAAAT
* *
18550835 AAAT-ACCAAAAATATAAAACTTAAT
1 AAATAACCAAAAAT-TAAAAATAAAT
18550860 AAA
1 AAA
18550863 CTAATATTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.68, C:0.09, G:0.00, T:0.23
Consensus pattern (25 bp):
AAATAACCAAAAATTAAAAATAAAT
Found at i:18553997 original size:17 final size:17
Alignment explanation
Indices: 18553975--18554009 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
18553965 CATGAATGGT
18553975 TTAAAGAATGTTCAAGC
1 TTAAAGAATGTTCAAGC
18553992 TTAAAGAATGTTCAAGC
1 TTAAAGAATGTTCAAGC
18554009 T
1 T
18554010 CAGTTAATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (17 bp):
TTAAAGAATGTTCAAGC
Found at i:18555742 original size:26 final size:26
Alignment explanation
Indices: 18555707--18555758 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
18555697 AATGTGAAAG
*
18555707 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
18555733 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
18555759 TTCATTGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:18555788 original size:103 final size:103
Alignment explanation
Indices: 18555525--18555893 Score: 593
Period size: 103 Copynumber: 3.6 Consensus size: 103
18555515 TGTATATAAA
** *
18555525 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATGGGTGGTGCTGAGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
18555590 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATT-CCCCG
*
18555629 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
18555694 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
*
18555732 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCG-TGATCCACCATATCT
* *
18555796 TTGAAATG-AAAAGGGGGTTGCTATGTGCTGATTTCTCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGA-TTCCCCG
*
18555835 AGGGGTTGCTAAGTGTTGATTCCCCGATTCA-GTGGTGGTGCTAAGTGCAG-GATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATG-GGTGGTGCTAAGTGC-GTGATCCACCA
18555894 ATAACGGTTA
Statistics
Matches: 250, Mismatches: 10, Indels: 11
0.92 0.04 0.04
Matches are distributed among these distances:
102 22 0.09
103 132 0.53
104 96 0.38
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.31
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATGGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCG
Found at i:18557474 original size:25 final size:25
Alignment explanation
Indices: 18557446--18557504 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
18557436 CTTCTCCTAG
* **
18557446 TTAAACTCTGTTTTTAGTTTTTCAC
1 TTAAACTCTATTTTTAGTTTCACAC
18557471 TTAAACTCTATTTTTAGTTTCACAC
1 TTAAACTCTATTTTTAGTTTCACAC
18557496 TTAAACTCT
1 TTAAACTCT
18557505 TATTAGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.25, C:0.19, G:0.05, T:0.51
Consensus pattern (25 bp):
TTAAACTCTATTTTTAGTTTCACAC
Found at i:18557510 original size:23 final size:24
Alignment explanation
Indices: 18557459--18557511 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
18557449 AACTCTGTTT
** *
18557459 TTAGTTTTTCACTTAAACTCTATTT
1 TTAGTTTCACACTTAAACTC-ATTA
18557484 TTAGTTTCACACTTAAACTC-TTA
1 TTAGTTTCACACTTAAACTCATTA
18557507 TTAGT
1 TTAGT
18557512 GTAGGTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 7 0.28
25 18 0.72
ACGTcount: A:0.26, C:0.17, G:0.06, T:0.51
Consensus pattern (24 bp):
TTAGTTTCACACTTAAACTCATTA
Found at i:18559618 original size:2 final size:2
Alignment explanation
Indices: 18559611--18559639 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18559601 ATCAAACTCG
18559611 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18559640 TTCTATTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:18561179 original size:17 final size:17
Alignment explanation
Indices: 18561149--18561205 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
18561139 ATTTTTATCT
*
18561149 AATAT-TTATTAATTAA
1 AATATATTATAAATTAA
*
18561165 AATATATTATAAATTTA
1 AATATATTATAAATTAA
* * *
18561182 TATGTATGATAAACTTAA
1 AATATATTATAAA-TTAA
18561200 AATATA
1 AATATA
18561206 ACTAATTTTA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
16 5 0.16
17 19 0.61
18 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.04, T:0.44
Consensus pattern (17 bp):
AATATATTATAAATTAA
Found at i:18568592 original size:19 final size:19
Alignment explanation
Indices: 18568570--18568610 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
18568560 TTTAACTTTT
* *
18568570 ATTATACTTTTCTATTCTA
1 ATTAAACTTTTCGATTCTA
18568589 ATTAAACTTTTCGATTCTA
1 ATTAAACTTTTCGATTCTA
18568608 ATT
1 ATT
18568611 TAAAAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.02, T:0.54
Consensus pattern (19 bp):
ATTAAACTTTTCGATTCTA
Found at i:18569415 original size:20 final size:20
Alignment explanation
Indices: 18569390--18569429 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
18569380 AATTAAGAAA
18569390 AATTGCTAAAGTATCAATAC
1 AATTGCTAAAGTATCAATAC
* *
18569410 AATTGCTTAGGTATCAATAC
1 AATTGCTAAAGTATCAATAC
18569430 CTCAGAGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (20 bp):
AATTGCTAAAGTATCAATAC
Found at i:18581320 original size:29 final size:27
Alignment explanation
Indices: 18581287--18581341 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 27
18581277 GTGATTAAAT
18581287 AAAATCGACA-CAAGCAGAATTTAAAAGAA
1 AAAATCGACAGCAAG-A-AA-TTAAAAGAA
*
18581316 AAAATTGACAGCAAGAAATTAAAAGA
1 AAAATCGACAGCAAGAAATTAAAAGA
18581342 TAAGTCCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 8 0.33
28 2 0.08
29 10 0.42
30 4 0.17
ACGTcount: A:0.60, C:0.11, G:0.15, T:0.15
Consensus pattern (27 bp):
AAAATCGACAGCAAGAAATTAAAAGAA
Found at i:18582612 original size:17 final size:17
Alignment explanation
Indices: 18582557--18582613 Score: 53
Period size: 17 Copynumber: 3.1 Consensus size: 17
18582547 TTTATAACAT
18582557 TTTTTATAAATAA-TTA
1 TTTTTATAAATAAGTTA
18582573 TTTTTCATAACTTTATAAAGTTA
1 TTTTT-ATAA----AT-AAGTTA
18582596 TTTTTATAAATAAGTTA
1 TTTTTATAAATAAGTTA
18582613 T
1 T
18582614 GGAAAAAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
16 5 0.15
17 11 0.32
18 2 0.06
21 2 0.06
22 6 0.18
23 8 0.24
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (17 bp):
TTTTTATAAATAAGTTA
Found at i:18584373 original size:3 final size:3
Alignment explanation
Indices: 18584365--18584418 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
18584355 TTGTTTACCC
18584365 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18584413 TTA TTA
1 TTA TTA
18584419 AAGTAAAATT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18585086 original size:174 final size:174
Alignment explanation
Indices: 18584789--18585136 Score: 534
Period size: 174 Copynumber: 2.0 Consensus size: 174
18584779 ATATAGATAC
* * *
18584789 TTAGGGTATGTTTGGTTGGCTGTAATACCAATACATTACAGCTTAATTCAGTGGGCCCATCACTA
1 TTAGGGCATGTTTGGTTGGCTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCACTA
* * *
18584854 AGCCATTGTTTGGTTGGTTGCAATGAGCTATTACAACCTTATTCCTTACGGGCTTATTCAGGGAA
66 AGCCATTGTTTGGTTGGCTGCAATGAGCTATTACAACCCTATTCCATACGGGCTTATTCAGGGAA
*
18584919 AAAATGTTGTTTACCATTCGGTGGTATCCCCACGAAATGATGAT
131 AAAATGTTGTTTACCATTCAGTGGTATCCCCACGAAATGATGAT
*
18584963 TTAGGGCATGTTTGGTTGGTTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCACTA
1 TTAGGGCATGTTTGGTTGGCTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCACTA
* * * * * *
18585028 AGCTATTGTTTGGTTGGCTGTAATGTGCTATTACAGCCCTATTCCATACTGGCTTATTCAGGGCA
66 AGCCATTGTTTGGTTGGCTGCAATGAGCTATTACAACCCTATTCCATACGGGCTTATTCAGGGAA
* * * *
18585093 AAAATGTTGTTTACCATTTAGTGGTCTCCCCATGGAATGATGAT
131 AAAATGTTGTTTACCATTCAGTGGTATCCCCACGAAATGATGAT
18585137 GCAAGGAATG
Statistics
Matches: 156, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
174 156 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (174 bp):
TTAGGGCATGTTTGGTTGGCTATAATACCAATACATTACAGCTCAATTCAGTGGGCCCATCACTA
AGCCATTGTTTGGTTGGCTGCAATGAGCTATTACAACCCTATTCCATACGGGCTTATTCAGGGAA
AAAATGTTGTTTACCATTCAGTGGTATCCCCACGAAATGATGAT
Found at i:18588911 original size:15 final size:15
Alignment explanation
Indices: 18588874--18588916 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
18588864 TAAAACTATT
* *
18588874 TTTATTTTTGATATG
1 TTTATTTTTGTTATA
*
18588889 TTTAATTTATGTTATA
1 TTT-ATTTTTGTTATA
18588905 TTTATTTTTGTT
1 TTTATTTTTGTT
18588917 CTTTAAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (15 bp):
TTTATTTTTGTTATA
Found at i:18591829 original size:23 final size:23
Alignment explanation
Indices: 18591781--18591830 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 23
18591771 TAAATTACGT
* *
18591781 TATATATTATTTTTATAATGTTA
1 TATATATGATTTTTATAATGTCA
*
18591804 TATATTATGATTTTTTTAAT-TCA
1 TATA-TATGATTTTTATAATGTCA
18591827 TATA
1 TATA
18591831 ATAATAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TATATATGATTTTTATAATGTCA
Found at i:18593308 original size:26 final size:25
Alignment explanation
Indices: 18593241--18593312 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
18593231 GTTTTTTAAA
18593241 AGAAATAAAT--TATATAT-AT-AT
1 AGAAATAAATAATATATATAATAAT
18593262 AGAAATAAATAATA-ATAATAATAAT
1 AGAAATAAATAATATAT-ATAATAAT
*
18593287 ATGAAATCAATAATATATATAA-AAT
1 A-GAAATAAATAATATATATAATAAT
18593312 A
1 A
18593313 AAAAATATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
21 10 0.23
22 2 0.05
23 4 0.09
24 2 0.05
25 7 0.16
26 16 0.37
27 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
AGAAATAAATAATATATATAATAAT
Found at i:18593311 original size:18 final size:18
Alignment explanation
Indices: 18593243--18593321 Score: 55
Period size: 18 Copynumber: 4.8 Consensus size: 18
18593233 TTTTTAAAAG
*
18593243 AAATAAATTATATATAT-
1 AAATAAATAATATATATA
* *
18593260 ATAGAAATAA-ATA-AT-
1 AAATAAATAATATATATA
*
18593275 -AAT-AATAATA-ATATG
1 AAATAAATAATATATATA
*
18593290 AAATCAATAATATATATA
1 AAATAAATAATATATATA
*
18593308 AAATAAAAAATATA
1 AAATAAATAATATA
18593322 AACTATGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.12
14 4 0.08
15 2 0.04
16 6 0.12
17 14 0.29
18 16 0.33
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATAAATAATATATATA
Found at i:18593555 original size:23 final size:23
Alignment explanation
Indices: 18593472--18593627 Score: 111
Period size: 23 Copynumber: 6.8 Consensus size: 23
18593462 TGCATAAAAC
* *
18593472 AATACATGCTAAATTTAAATAAC
1 AATACATGATAAATTTAAATAAT
* ** * * *
18593495 CATAGTTGATAAGTTCAAAATACT
1 AATACATGATAAATT-TAAATAAT
*
18593519 AATACATGATAACTTTAAATAA-
1 AATACATGATAAATTTAAATAAT
*
18593541 AATACATGATAAACTTAAAATAAT
1 AATACATGATAAA-TTTAAATAAT
**
18593565 GTTA-ATGATAAATTTAAAATAAT
1 AATACATGATAAATTT-AAATAAT
* * *
18593588 AATATATTATAAATTAAAATAAT
1 AATACATGATAAATTTAAATAAT
**
18593611 -ATTGATGATAAATTTAA
1 AATACATGATAAATTTAA
18593628 GAATATATTA
Statistics
Matches: 101, Mismatches: 27, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
22 27 0.27
23 47 0.47
24 27 0.27
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (23 bp):
AATACATGATAAATTTAAATAAT
Found at i:18593584 original size:69 final size:70
Alignment explanation
Indices: 18593501--18593632 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 70
18593491 TAACCATAGT
* * * *
18593501 TGATAAGTTCAAAATACTAATACATGATAACTTTAAATAAAATACATGATAAACTTAA-AATAAT
1 TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATAAT
18593565 GTTAA
66 GTTAA
* * * * ** *
18593570 TGATAAATTTAAAATAATAATATATTATAAATTAAAATAATATTGATGATAAATTTAAGAATA
1 TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATA
18593633 TATTAAGCTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
69 47 0.92
70 4 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (70 bp):
TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATAAT
GTTAA
Found at i:18593585 original size:46 final size:46
Alignment explanation
Indices: 18593501--18593632 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 46
18593491 TAACCATAGT
* * * *
18593501 TGATAAGTTCAAAATACTAATACATGATAACTTT-AAATAA-AATACA
1 TGATAAATT-AAAATAATATTA-ATGATAAATTTAAAATAATAATACA
* *
18593547 TGATAAACTTAAAATAATGTTAATGATAAATTTAAAATAATAATATA
1 TGATAAA-TTAAAATAATATTAATGATAAATTTAAAATAATAATACA
* *
18593594 TTATAAATTAAAATAATATTGATGATAAATTTAAGAATA
1 TGATAAATTAAAATAATATTAATGATAAATTTAA-AATA
18593633 TATTAAGCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 10 0.14
46 46 0.63
47 17 0.23
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (46 bp):
TGATAAATTAAAATAATATTAATGATAAATTTAAAATAATAATACA
Found at i:18593652 original size:46 final size:45
Alignment explanation
Indices: 18593524--18593657 Score: 107
Period size: 46 Copynumber: 2.9 Consensus size: 45
18593514 ATACTAATAC
* * * *
18593524 ATGATAACTTT-AAATAA-AATACATGATAAACTTAAAATAATGTTA
1 ATGATAAATTTAAAATAATAATATAT--TAAACATAAAATAATATTA
*
18593569 ATGATAAATTTAAAATAATAATATATTATAA-ATTAAAATAATATTG
1 ATGATAAATTTAAAATAATAATATATTA-AACA-TAAAATAATATTA
*
18593615 ATGATAAATTTAAGAAT-ATATTA-AGCTTAAACATAAAAATAAT
1 ATGATAAATTTAA-AATAATAATATA--TTAAACAT-AAAATAAT
18593658 TTTAGATTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
45 13 0.18
46 40 0.54
47 21 0.28
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (45 bp):
ATGATAAATTTAAAATAATAATATATTAAACATAAAATAATATTA
Found at i:18597946 original size:19 final size:20
Alignment explanation
Indices: 18597922--18597968 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
18597912 TGGTAGACTT
* *
18597922 TAATGCATATG-ATGCAATG
1 TAATGCAAATGCATGAAATG
18597941 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
18597961 -AATGCAAA
1 TAATGCAAA
18597969 AAGAGACGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.11, G:0.19, T:0.26
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:18600503 original size:26 final size:25
Alignment explanation
Indices: 18600436--18600507 Score: 75
Period size: 26 Copynumber: 3.0 Consensus size: 25
18600426 GTTTTTTAAA
18600436 AGAAATAAAT--TATATAT-AT-AT
1 AGAAATAAATAATATATATAATAAT
18600457 AGAAATAAATAATA-ATAATAATAAT
1 AGAAATAAATAATATAT-ATAATAAT
*
18600482 ATGAAATCAATAATATATATAA-AAT
1 A-GAAATAAATAATATATATAATAAT
18600507 A
1 A
18600508 AAAAATATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 10
0.80 0.02 0.19
Matches are distributed among these distances:
21 10 0.23
22 2 0.05
23 4 0.09
24 2 0.05
25 7 0.16
26 16 0.37
27 2 0.05
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (25 bp):
AGAAATAAATAATATATATAATAAT
Found at i:18600506 original size:18 final size:18
Alignment explanation
Indices: 18600438--18600516 Score: 55
Period size: 18 Copynumber: 4.8 Consensus size: 18
18600428 TTTTTAAAAG
*
18600438 AAATAAATTATATATAT-
1 AAATAAATAATATATATA
* *
18600455 ATAGAAATAA-ATA-AT-
1 AAATAAATAATATATATA
*
18600470 -AAT-AATAATA-ATATG
1 AAATAAATAATATATATA
*
18600485 AAATCAATAATATATATA
1 AAATAAATAATATATATA
*
18600503 AAATAAAAAATATA
1 AAATAAATAATATA
18600517 AACTATGTAT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
13 6 0.12
14 4 0.08
15 2 0.04
16 6 0.12
17 14 0.29
18 16 0.33
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATAAATAATATATATA
Found at i:18600750 original size:23 final size:23
Alignment explanation
Indices: 18600667--18600822 Score: 111
Period size: 23 Copynumber: 6.8 Consensus size: 23
18600657 TGCATAAAAC
* *
18600667 AATACATGCTAAATTTAAATAAC
1 AATACATGATAAATTTAAATAAT
* ** * * *
18600690 CATAGTTGATAAGTTCAAAATACT
1 AATACATGATAAATT-TAAATAAT
*
18600714 AATACATGATAACTTTAAATAA-
1 AATACATGATAAATTTAAATAAT
*
18600736 AATACATGATAAACTTAAAATAAT
1 AATACATGATAAA-TTTAAATAAT
**
18600760 GTTA-ATGATAAATTTAAAATAAT
1 AATACATGATAAATTT-AAATAAT
* * *
18600783 AATATATTATAAATTAAAATAAT
1 AATACATGATAAATTTAAATAAT
**
18600806 -ATTGATGATAAATTTAA
1 AATACATGATAAATTTAA
18600823 GAATATATTA
Statistics
Matches: 101, Mismatches: 27, Indels: 11
0.73 0.19 0.08
Matches are distributed among these distances:
22 27 0.27
23 47 0.47
24 27 0.27
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (23 bp):
AATACATGATAAATTTAAATAAT
Found at i:18600779 original size:69 final size:70
Alignment explanation
Indices: 18600696--18600827 Score: 158
Period size: 69 Copynumber: 1.9 Consensus size: 70
18600686 TAACCATAGT
* * * *
18600696 TGATAAGTTCAAAATACTAATACATGATAACTTTAAATAAAATACATGATAAACTTAA-AATAAT
1 TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATAAT
18600760 GTTAA
66 GTTAA
* * * * ** *
18600765 TGATAAATTTAAAATAATAATATATTATAAATTAAAATAATATTGATGATAAATTTAAGAATA
1 TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATA
18600828 TATTAAGCTT
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
69 47 0.92
70 4 0.08
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (70 bp):
TGATAAATTCAAAATAATAATACATGATAAATTAAAATAAAATACATGATAAACTTAAGAATAAT
GTTAA
Found at i:18600780 original size:46 final size:46
Alignment explanation
Indices: 18600696--18600827 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 46
18600686 TAACCATAGT
* * * *
18600696 TGATAAGTTCAAAATACTAATACATGATAACTTT-AAATAA-AATACA
1 TGATAAATT-AAAATAATATTA-ATGATAAATTTAAAATAATAATACA
* *
18600742 TGATAAACTTAAAATAATGTTAATGATAAATTTAAAATAATAATATA
1 TGATAAA-TTAAAATAATATTAATGATAAATTTAAAATAATAATACA
* *
18600789 TTATAAATTAAAATAATATTGATGATAAATTTAAGAATA
1 TGATAAATTAAAATAATATTAATGATAAATTTAA-AATA
18600828 TATTAAGCTT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
45 10 0.14
46 46 0.63
47 17 0.23
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.35
Consensus pattern (46 bp):
TGATAAATTAAAATAATATTAATGATAAATTTAAAATAATAATACA
Found at i:18600847 original size:46 final size:45
Alignment explanation
Indices: 18600719--18600852 Score: 107
Period size: 46 Copynumber: 2.9 Consensus size: 45
18600709 ATACTAATAC
* * * *
18600719 ATGATAACTTT-AAATAA-AATACATGATAAACTTAAAATAATGTTA
1 ATGATAAATTTAAAATAATAATATAT--TAAACATAAAATAATATTA
*
18600764 ATGATAAATTTAAAATAATAATATATTATAA-ATTAAAATAATATTG
1 ATGATAAATTTAAAATAATAATATATTA-AACA-TAAAATAATATTA
*
18600810 ATGATAAATTTAAGAAT-ATATTA-AGCTTAAACATAAAAATAAT
1 ATGATAAATTTAA-AATAATAATATA--TTAAACAT-AAAATAAT
18600853 TTTAGATTTA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
45 13 0.18
46 40 0.54
47 21 0.28
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (45 bp):
ATGATAAATTTAAAATAATAATATATTAAACATAAAATAATATTA
Found at i:18604499 original size:122 final size:118
Alignment explanation
Indices: 18604330--18604560 Score: 383
Period size: 122 Copynumber: 1.9 Consensus size: 118
18604320 GTAAGTATTG
*
18604330 TAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 TAGTATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
18604395 ATTATATATATTTT-TTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTA
66 ATTATATAT-TTTTATTAAATTATA-TT--TAATAATTATGTTAAAATTATATTTTA
* *
18604451 TAGTATTATATATTTTGATTTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTA
1 TAGTATTATATATTATGA-TTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
18604516 AATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAAAT
65 AATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAAAT
18604561 ATGATTAAAT
Statistics
Matches: 105, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
119 18 0.17
121 23 0.22
122 64 0.61
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (118 bp):
TAGTATTATATATTATGATTTTAATAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
ATTATATATTTTTATTAAATTATATTTAATAATTATGTTAAAATTATATTTTA
Found at i:18604511 original size:62 final size:62
Alignment explanation
Indices: 18604334--18604528 Score: 215
Period size: 62 Copynumber: 3.2 Consensus size: 62
18604324 GTATTGTAGT
* * *
18604334 ATTATATATTATGA-TTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTTTGATTTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
* * * * * *
18604395 ATTATATATATT--TTTTAAATTATATTTA-ATAATAATTATGTTAAAATT-AT-ATTTTA-TAG
1 ATTATATATTTTGATTTTTAA-TAAATTCATATAAGAA-TAT-TTAATATTAATAATTTTATTA-
*
18604454 T
62 A
18604455 ATTATATATTTTGATTTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
1 ATTATATATTTTGATTTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
18604517 ATTATATATTTT
1 ATTATATATTTT
18604529 TATTAAATTA
Statistics
Matches: 106, Mismatches: 17, Indels: 21
0.74 0.12 0.15
Matches are distributed among these distances:
59 2 0.02
60 34 0.32
61 31 0.29
62 37 0.35
63 2 0.02
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (62 bp):
ATTATATATTTTGATTTTTAATAAATTCATATAAGAATATTTAATATTAATAATTTTATTAA
Found at i:18604529 original size:18 final size:18
Alignment explanation
Indices: 18604495--18604541 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
18604485 ATAAGAATAT
18604495 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATAATTTTA
*
18604513 TTAAATTATATATTTTTA
1 TTAAATTATATAATTTTA
18604531 TTAAATTATAT
1 TTAAATTATAT
18604542 TTAATAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 4 0.15
18 23 0.85
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTAAATTATATAATTTTA
Found at i:18604605 original size:34 final size:33
Alignment explanation
Indices: 18604528--18604605 Score: 77
Period size: 32 Copynumber: 2.3 Consensus size: 33
18604518 TTATATATTT
* *
18604528 TTATTAAATTATATTTAATAATTATGTTAAAATA
1 TTATTAAAAT-TATTTAATAATTATATTAAAATA
* * * *
18604562 TGATT-AAATTATTTATTATTTATATTAATAATC
1 TTATTAAAATTATTTAATAATTATATTAA-AATA
18604595 TTATTAAAATT
1 TTATTAAAATT
18604606 TAATAATAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 4
0.76 0.15 0.09
Matches are distributed among these distances:
32 16 0.46
33 10 0.29
34 9 0.26
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (33 bp):
TTATTAAAATTATTTAATAATTATATTAAAATA
Found at i:18604798 original size:16 final size:16
Alignment explanation
Indices: 18604779--18604824 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
18604769 CTATTACGCA
18604779 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
18604795 TCTATTCCATTACAGC
1 TCTATTCCATTACAGC
18604811 TCTATTCCATTACA
1 TCTATTCCATTACA
18604825 TCGAACCAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.26, C:0.30, G:0.04, T:0.39
Consensus pattern (16 bp):
TCTATTCCATTACAGC
Found at i:18605702 original size:26 final size:25
Alignment explanation
Indices: 18605666--18605716 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 25
18605656 TTTATTATTT
*
18605666 TTTTAATAAAATATATTTAACAATAA
1 TTTTAATAAAATATA-ATAACAATAA
* *
18605692 TTTTATTAAAATTTAATAACAATAA
1 TTTTAATAAAATATAATAACAATAA
18605717 CAATAATCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TTTTAATAAAATATAATAACAATAA
Found at i:18605846 original size:16 final size:16
Alignment explanation
Indices: 18605825--18605876 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
18605815 CAAGAACATT
18605825 ATTACAGTTCTATTCA
1 ATTACAGTTCTATTCA
*
18605841 ATTACAGTTCTATTCC
1 ATTACAGTTCTATTCA
*
18605857 ATTACA-ATCTTATTCA
1 ATTACAGTTC-TATTCA
18605873 ATTA
1 ATTA
18605877 TAGTCAACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 2 0.06
16 30 0.94
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.44
Consensus pattern (16 bp):
ATTACAGTTCTATTCA
Found at i:18606567 original size:6 final size:6
Alignment explanation
Indices: 18606558--18606591 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
18606548 ATATTTTATT
18606558 TATAAA TATAAA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATAAA TATA
18606592 GATTTATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
TATAAA
Found at i:18606860 original size:2 final size:2
Alignment explanation
Indices: 18606853--18606895 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18606843 TACTTAACTT
18606853 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18606895 T
1 T
18606896 TTATTATAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18612410 original size:21 final size:21
Alignment explanation
Indices: 18612384--18612425 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
18612374 TACCAAGAAG
*
18612384 AAATAGGTTTTTGAAGCTTAA
1 AAATAGGTTTTTAAAGCTTAA
18612405 AAATAGGTTTTTAAAGCTTAA
1 AAATAGGTTTTTAAAGCTTAA
18612426 TCGAGCTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
AAATAGGTTTTTAAAGCTTAA
Found at i:18618388 original size:3 final size:3
Alignment explanation
Indices: 18618380--18618432 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
18618370 CTTTGCCTTA
18618380 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
18618428 AAT AA
1 AAT AA
18618433 AGCTAGCTTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18622127 original size:31 final size:31
Alignment explanation
Indices: 18622089--18622150 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
18622079 ATTAGAGACA
*
18622089 TAGAGCGGTGAGGATAAGATAGGGAATGATC
1 TAGAGCGGTGAGAATAAGATAGGGAATGATC
18622120 TAGAGCGGTGAGAATAAGATAGGGAATGATC
1 TAGAGCGGTGAGAATAAGATAGGGAATGATC
18622151 AAAGCACCCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.37, C:0.06, G:0.37, T:0.19
Consensus pattern (31 bp):
TAGAGCGGTGAGAATAAGATAGGGAATGATC
Found at i:18630070 original size:28 final size:29
Alignment explanation
Indices: 18630014--18630076 Score: 101
Period size: 28 Copynumber: 2.2 Consensus size: 29
18630004 TTAACTAAGA
*
18630014 GTTTGAACAGAAACATGTTGGCAAGCTGG
1 GTTTGAACAGAAACATATTGGCAAGCTGG
*
18630043 GTTTGAACAG-AACTTATTGGCAAGCTGG
1 GTTTGAACAGAAACATATTGGCAAGCTGG
18630071 GTTTGA
1 GTTTGA
18630077 TTAACATTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.29, C:0.13, G:0.30, T:0.29
Consensus pattern (29 bp):
GTTTGAACAGAAACATATTGGCAAGCTGG
Found at i:18630219 original size:30 final size:30
Alignment explanation
Indices: 18630185--18630268 Score: 152
Period size: 30 Copynumber: 2.8 Consensus size: 30
18630175 CTAATCTCAG
*
18630185 TTACTGATTATTAGGAAATTAGGATATCAA
1 TTACTGATTCTTAGGAAATTAGGATATCAA
18630215 TTACTGATTCTTAGGAAATTAGGATATCAA
1 TTACTGATTCTTAGGAAATTAGGATATCAA
18630245 TTACTGATTCTTAGG-AATTAGGAT
1 TTACTGATTCTTAGGAAATTAGGAT
18630269 TTATTTCCTT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 9 0.17
30 44 0.83
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (30 bp):
TTACTGATTCTTAGGAAATTAGGATATCAA
Found at i:18631655 original size:19 final size:21
Alignment explanation
Indices: 18631631--18631669 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
18631621 AGAAATCATT
*
18631631 GGAATTTAT-TGG-ATTTTAG
1 GGAATTGATATGGCATTTTAG
18631650 GGAATTGATATGGCATTTTA
1 GGAATTGATATGGCATTTTA
18631670 AGGTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.26, T:0.44
Consensus pattern (21 bp):
GGAATTGATATGGCATTTTAG
Found at i:18642641 original size:30 final size:30
Alignment explanation
Indices: 18642604--18642701 Score: 135
Period size: 30 Copynumber: 3.3 Consensus size: 30
18642594 TCCTTTTATT
*
18642604 AAAAAAAAGGGTGCATTTCACATTAATCGAG
1 AAAAAAAA-GGTGTATTTCACATTAATCGAG
* * *
18642635 AAAAAAAAGTTATATTTCACATTAATTGAG
1 AAAAAAAAGGTGTATTTCACATTAATCGAG
*
18642665 AAAAAAAAGGTGTATTTCATATTAATCGA-
1 AAAAAAAAGGTGTATTTCACATTAATCGAG
18642694 AAAAAAAA
1 AAAAAAAA
18642702 TTGTATCCAG
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
29 8 0.14
30 43 0.73
31 8 0.14
ACGTcount: A:0.52, C:0.08, G:0.13, T:0.27
Consensus pattern (30 bp):
AAAAAAAAGGTGTATTTCACATTAATCGAG
Found at i:18643294 original size:3 final size:3
Alignment explanation
Indices: 18643286--18643318 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
18643276 AATTAGGGTT
18643286 ATA ATA ATA ATA ATA ATA ATA ATA ATAA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA AT
18643319 CTAAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:18644237 original size:4 final size:4
Alignment explanation
Indices: 18644228--18644279 Score: 104
Period size: 4 Copynumber: 13.0 Consensus size: 4
18644218 TTTTCTTTAA
18644228 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
18644276 AAAT
1 AAAT
18644280 GAGCTGAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:18645107 original size:44 final size:44
Alignment explanation
Indices: 18644984--18645734 Score: 278
Period size: 44 Copynumber: 17.0 Consensus size: 44
18644974 TGCTGCAACT
*
18644984 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGTA
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * *
18645028 CAAGAAGGTAAGATCTGCTAT-TTC-AGTCTGCTTCGCTG-CA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* *
18645070 CCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGATTCGCTGTCAGTA
1 -C-AGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * *
18645116 CAGGAAGGCAAGATCTGCTATCTTC-AGTCTGC-TCTGCTG-CA-ACC
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGA-A
* *
18645160 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTA
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * * *
18645204 CAAGAAGGCAAGATCTGCTATCTTC-AGTTTGCTCCGCTGT-A-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* * *
18645247 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * * *
18645293 CAAGAAGGCAAGATCTGCTATCTT-TAGTCTGCTCCGCTG-CA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* * * * * *
18645336 CCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCGTTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * ** * * * *
18645382 CATGAAGGCAAGATTTGCTATCTT-TAGTCTGC-TCTGCTG-CA-ACC
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTC-GCTGTCAGA-A
* *
18645426 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTA
1 CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * ** * * * * *
18645470 CAAGAAGGCAATATCTGTTATTTTC-AGTCTACTCCGCTG-CA-AA
1 CAGGGAGGCAA-GGCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
** * *
18645513 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCATTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * * *
18645559 CAGGAAGGCAAGATCTGCTATCTT-TAGTTTGCTCCGCTG-CA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
* * * ** * *
18645602 CCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCATTGTTAGTA
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
* * * * * *
18645648 CAGGAAGGCAAGCTCTGCTATCTTC-AGTCTGCTCCGCT-ACA-AA
1 CAGGGAGGCAAG-GCTGGTGTCTTCGA-TCTGCTTCGCTGTCAGAA
*
18645691 CCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAG
1 --CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAG
18645735 TACATGAAAA
Statistics
Matches: 488, Mismatches: 160, Indels: 116
0.64 0.21 0.15
Matches are distributed among these distances:
42 1 0.00
43 48 0.10
44 246 0.50
45 188 0.39
46 5 0.01
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (44 bp):
CAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCAGAA
Found at i:18645288 original size:89 final size:89
Alignment explanation
Indices: 18644955--18645810 Score: 1224
Period size: 89 Copynumber: 9.7 Consensus size: 89
18644945 AAGAAACATT
** * *
18644955 TGCTATCTTCAGTCTGCTTTGCTGC-AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* *
18645019 CTGTCAGTACAAGAAGGTAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* * * *
18645043 TGCTAT-TTCAGTCTGCTTCGCTGCAAACCTAGGGAGGCAAGGCTGGTGTCTTCGATCTGATTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* *
18645107 CTGTCAGTACAGGAAGGCAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* *
18645131 TGCTATCTTCAGTCTGCTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
18645195 CTGTTAGTACAAGAAGGCAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* *
18645219 TGCTATCTTCAGTTTGCTCCGCTGTAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
18645284 CTGTTAGTACAAGAAGGCAAGATC
66 CTGTTAGTACAAGAAGGCAAGATC
* * * *
18645308 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
* *
18645373 T-TGTTAGTACATGAAGGCAAGATT
65 TCTGTTAGTACAAGAAGGCAAGATC
* * *
18645397 TGCTATCTTTAGTCTGCTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
*
18645461 CTGTTAGTACAAGAAGGCAATATC
66 CTGTTAGTACAAGAAGGCAAGATC
* * *
18645485 TGTTATTTTCAGTCTACTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
*
18645550 T-TGTTAGTACAGGAAGGCAAGATC
65 TCTGTTAGTACAAGAAGGCAAGATC
* * * * *
18645574 TGCTATCTTTAGTTTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCA
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
* *
18645639 T-TGTTAGTACAGGAAGGCAAGCTC
65 TCTGTTAGTACAAGAAGGCAAGATC
*
18645663 TGCTATCTTCAGTCTGCTCCGCTACAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTT-T
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* * ***
18645727 GCTGTCAGTACATGAAAATAAGATC
66 -CTGTTAGTACAAGAAGGCAAGATC
*
18645752 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
18645811 ACTCCACTAC
Statistics
Matches: 696, Mismatches: 63, Indels: 17
0.90 0.08 0.02
Matches are distributed among these distances:
87 18 0.03
88 226 0.32
89 451 0.65
90 1 0.00
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (89 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
CTGTTAGTACAAGAAGGCAAGATC
Found at i:18645391 original size:266 final size:266
Alignment explanation
Indices: 18644955--18645810 Score: 1342
Period size: 266 Copynumber: 3.2 Consensus size: 266
18644945 AAGAAACATT
** * *
18644955 TGCTATCTTCAGTCTGCTTTGCTGC-AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
* * * * **
18645019 CTGTCAGTACAAGAAGGTAAGATCTGCTAT-TTCAGTCTGCTTCGCTGCAAACCTAGGGAGGCAA
66 CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
* * *
18645083 GGCTGGTGTCTTCGATCTGA-TTCGCTGTCAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTG
131 GGTTGGTGTCTTCGATCT-ACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTG
18645147 CTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGG
195 CTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGG
18645212 CAAGATC
260 CAAGATC
* *
18645219 TGCTATCTTCAGTTTGCTCCGCTGTAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
18645284 CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
66 CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
* * *
18645349 GGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACATGAAGGCAAGATTTGCTATCTTTAGTCTGC
131 GGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
18645414 TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGC
196 TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGC
*
18645479 AATATC
261 AAGATC
* * *
18645485 TGTTATTTTCAGTCTACTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCA
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTC-
* *
18645550 T-TGTTAGTACAGGAAGGCAAGATCTGCTATCTTTAGTTTGCTCCGCTGCAAACCCGGGGAGGCA
65 TCTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCA
* *
18645614 AGGTTGGTGTCTTCGATCTACTTCATTGTTAGTACAGGAAGGCAAGCTCTGCTATCTTCAGTCTG
130 AGGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTG
* * * * * *
18645679 CTCCGCTACAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTGCTGTCAGTACATGAAA
195 CTCTGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAG
**
18645744 ATAAGATC
259 GCAAGATC
*
18645752 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCT
18645811 ACTCCACTAC
Statistics
Matches: 543, Mismatches: 44, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
264 21 0.04
265 66 0.12
266 344 0.63
267 112 0.21
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (266 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCT
CTGTTAGTACAAGAAGGCAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAA
GGTTGGTGTCTTCGATCTACTTCGTTGTTAGTACAGGAAGGCAAGATCTGCTATCTTCAGTCTGC
TCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGGC
AAGATC
Found at i:18645859 original size:355 final size:353
Alignment explanation
Indices: 18644955--18645840 Score: 1235
Period size: 355 Copynumber: 2.5 Consensus size: 353
18644945 AAGAAACATT
** *
18644955 TGCTATCTTCAGTCTGCTTTGCTGC-AACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
* * * *
18645019 CTGTCAGTACAAGAAGGTAAGATCTGCTAT-TTCAGTCTGCTTCGCTGCAAACCTAGGGAGGCAA
66 CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
* ** * * *
18645083 GGCTGGTGTCTTCGATCTGATTCGCTGTCAGTAC-AGGAAGGCAAGATCTGCTATCTTCAGTCTG
131 GGCTGGTGTCTTCGATCT-ACTC-CACT-ACTACTAGGAAGGCAAGATCTGCTATTTTCAGTCTA
* *
18645147 CTCTGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTACAAGAAGG
193 CTCCGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAGG
*
18645212 CAAGATCTGCTATCTTCAGTTTGCTCCGCTGTAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATC
258 CAAGATCTGCTATCTTCAGTTTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATC
*
18645277 TGCTTCTCTGTTAGTACAAGAAGGCAAGATC
323 TACTTCTCTGTTAGTACAAGAAGGCAAGATC
* * * *
18645308 TGCTATCTTTAGTCTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGATCTACTTCG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
* * * * *
18645373 TTGTTAGTACATGAAGGCAAGATTTGCTATCTTTAGTCTGCTCTGCTGC-AACCCAGGGAGGCAA
66 CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
* ** * * * *
18645437 GGCTGGTGTCTTCGATCTGCTTCGCTGTTAGTAC-AAGAAGGCAATATCTGTTATTTTCAGTCTA
131 GGCTGGTGTCTTCGATCTAC-TC-C-ACTACTACTAGGAAGGCAAGATCTGCTATTTTCAGTCTA
* *
18645501 CTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCATTGTTAGTACAGGAAG
193 CTCCGCTGC-AACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAG
* * *
18645566 GCAAGATCTGCTATCTTTAGTTTGCTCCGCTGCAAACCCGGGGAGGCAAGGTTGGTGTCTTCGAT
257 GCAAGATCTGCTATCTTCAGTTTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGAT
* *
18645631 CTACTTCAT-TGTTAGTACAGGAAGGCAAGCTC
322 CTACTTC-TCTGTTAGTACAAGAAGGCAAGATC
* *
18645663 TGCTATCTTCAGTCTGCTCCGCTACAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTTG
1 TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
**
18645728 CTGTCAGTACATGAAAATAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
66 CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
* *
18645793 GGCTGGTGTCTTCGATCTACTCCACTACTACTTAGGGAGACAAGATCT
131 GGCTGGTGTCTTCGATCTACTCCACTACTAC-TAGGAAGGCAAGATCT
18645841 ACAATTTTTA
Statistics
Matches: 467, Mismatches: 57, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
353 27 0.06
354 135 0.29
355 270 0.58
356 35 0.07
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (353 bp):
TGCTATCTTCAGTCTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG
CTGTCAGTACATGAAGGTAAGATCTGCTATCTTTAGTCTGCTCCGCTGCAAACCCAGGGAGGCAA
GGCTGGTGTCTTCGATCTACTCCACTACTACTAGGAAGGCAAGATCTGCTATTTTCAGTCTACTC
CGCTGCAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCACTGTTAGTACAAGAAGGCAA
GATCTGCTATCTTCAGTTTGCTCCGCTGCAAACCCAGGGAGGCAAGGCTGGTGTCTTCGATCTAC
TTCTCTGTTAGTACAAGAAGGCAAGATC
Found at i:18646043 original size:132 final size:131
Alignment explanation
Indices: 18645802--18646146 Score: 473
Period size: 132 Copynumber: 2.6 Consensus size: 131
18645792 AGGCTGGTGT
* *
18645802 CTTCGATCTACTCCACTACTACTTAGGGAGACAAGATCTACAATTTTTAACCTACTCCACTGCTG
1 CTTCGATCTACTCCACTACTATTTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGCTG
* * *
18645867 CTCAGGAAGA-AGAGATTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTTGC
66 CTCAGGAAGATAG-GACTGGTGGCTTAAATCTGCTTCACTACTACCTTGGGAAGATAAGATTCG-
18645931 TAC-
129 T-CG
* * *
18645934 CTTCGATCTACTCCACTACTATTTAGGGAGATAGGATCTACAATCTTTAACCTACTCCATTGCTG
1 CTTCGATCTACTCCACTACTATTTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGCTG
* *
18645999 CTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCATTGCTACCTTGGGAAGATAAGATTCGTC
66 CTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACCTTGGGAAGATAAGATTCGTC
18646064 G
131 G
* * * *
18646065 TCTTCAATCTACTCCACTACT-TCTTA-GGAAACATGATCTACAATCTTCAACCTACTCCACTGC
1 -CTTCGATCTACTCCACTACTAT-TTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGC
* *
18646128 TGCTCAGGGAGATAAGACT
64 TGCTCAGGAAGATAGGACT
18646147 AGTATCTTCG
Statistics
Matches: 191, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
130 1 0.01
131 51 0.27
132 137 0.72
133 2 0.01
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (131 bp):
CTTCGATCTACTCCACTACTATTTAGGGAGACAAGATCTACAATCTTTAACCTACTCCACTGCTG
CTCAGGAAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTACCTTGGGAAGATAAGATTCGTC
G
Found at i:18646204 original size:45 final size:45
Alignment explanation
Indices: 18646149--18646422 Score: 413
Period size: 45 Copynumber: 6.1 Consensus size: 45
18646139 ATAAGACTAG
* *
18646149 TATCTTCGATCTACTTCGCTGCCAGTACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* * *
18646194 TATATTCGATCTACTTCACTGCCAATACAAGAAGACAATATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
*
18646239 TATCTTCGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* *
18646284 TATCTTCGATCTACTTCGCTGCAAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
18646329 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
* ** * * *
18646374 TATTTTTTATCCTTCTTCACTGCCAATACAAGAAGACAATATCTGC
1 TATCTTCGAT-CTACTTCACTGCCAATACAGGAAGACAAGATCTGC
18646420 TAT
1 TAT
18646423 TTTTTAACCT
Statistics
Matches: 210, Mismatches: 18, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
45 175 0.83
46 35 0.17
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTGC
Found at i:18651067 original size:19 final size:20
Alignment explanation
Indices: 18651043--18651089 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
18651033 TAATAGTCTT
* *
18651043 TAATGCATATG-ATGTAATG
1 TAATGCAAATGCATGAAATG
18651062 TAATGCAAATGCATGAAATG
1 TAATGCAAATGCATGAAATG
18651082 -AATGCAAA
1 TAATGCAAA
18651090 AAGAGGCGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.45, C:0.09, G:0.19, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGCATGAAATG
Found at i:18656943 original size:83 final size:83
Alignment explanation
Indices: 18656799--18656957 Score: 248
Period size: 83 Copynumber: 1.9 Consensus size: 83
18656789 ATCTTGTGCA
**
18656799 GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTATGTGGAGACTTAGA
1 GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTACATGGAGACTTAGA
18656864 AGAAATATACACGAAGAT
66 AGAAATATACACGAAGAT
* * *
18656882 GCCAACCTTGATTGGGATTTCTAACAATTTGATGTTAGAAATGCTTTTTTACAT-GATGACTTAG
1 GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTACATGGA-GACTTAG
*
18656946 AAGAAGTATACA
65 AAGAAATATACA
18656958 TGGAGATTCC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
82 2 0.03
83 67 0.97
ACGTcount: A:0.35, C:0.13, G:0.18, T:0.34
Consensus pattern (83 bp):
GCCAACCTTGATTGGGATCTCTAACAATTTGATATTAAAAATGCTTTTTTACATGGAGACTTAGA
AGAAATATACACGAAGAT
Done.