Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 167 of 343
Found at i:55221197 original size:48 final size:48
Alignment explanation
Indices: 55221060--55221200 Score: 183
Period size: 48 Copynumber: 2.9 Consensus size: 48
55221050 CAAAATTTCA
* * * ***
55221060 AGATAAGGTCACGTGTAAGACCATGTCTAGGACATGGCATTAACATCG
1 AGATAAGGTCCCGTATAAGACCATGTCTAGGATATGGCATCGGCATCG
* ** * *
55221108 ATATAAGACCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCG
1 AGATAAGGTCCCGTATAAGACCATGTCTAGGATATGGCATCGGCATCG
55221156 AGATAAGGTCCCGTATAAGACCATGTCTAGGATATGGCATCGGCA
1 AGATAAGGTCCCGTATAAGACCATGTCTAGGATATGGCATCGGCA
55221201 CCGATACGAT
Statistics
Matches: 77, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 77 1.00
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.23
Consensus pattern (48 bp):
AGATAAGGTCCCGTATAAGACCATGTCTAGGATATGGCATCGGCATCG
Found at i:55221223 original size:48 final size:48
Alignment explanation
Indices: 55221075--55221255 Score: 191
Period size: 48 Copynumber: 3.8 Consensus size: 48
55221065 AGGTCACGTG
*** *
55221075 TAAGACCATGTCTAGGACATGGCATTAACATCGATATAAGACCCCGTA
1 TAAGACCATGTCTAGGACATGGCATCGGCATCGATATAAGATCCCGTA
* * * * *
55221123 TAAGACCATATCTGGGATATGGCATCGGCATCGAGATAAGGTCCCGTA
1 TAAGACCATGTCTAGGACATGGCATCGGCATCGATATAAGATCCCGTA
* * ** * * *
55221171 TAAGACCATGTCTAGGATATGGCATCGGCACCGATACGATATCCCATG
1 TAAGACCATGTCTAGGACATGGCATCGGCATCGATATAAGATCCCGTA
* * *
55221219 TAAGACCATGTTTGGGACATGGCATTGGCATCGATAT
1 TAAGACCATGTCTAGGACATGGCATCGGCATCGATAT
55221256 GTGTGTAAGT
Statistics
Matches: 108, Mismatches: 25, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (48 bp):
TAAGACCATGTCTAGGACATGGCATCGGCATCGATATAAGATCCCGTA
Found at i:55221224 original size:96 final size:96
Alignment explanation
Indices: 55221060--55221252 Score: 233
Period size: 96 Copynumber: 2.0 Consensus size: 96
55221050 CAAAATTTCA
* * * * *
55221060 AGATAAGGTCACGTGTAAGACCATGTCTAGGACATGGCATTAACATCGATATAAGACCCCGTATA
1 AGATAAGGTCACGTATAAGACCATGTCTAGGACATGGCATCAACACCGATACAAGACCCCATATA
*
55221125 AGACCATATCTGGGATATGGCATCGGCATCG
66 AGACCATATCTGGGACATGGCATCGGCATCG
* * ** * * * *
55221156 AGATAAGGTCCCGTATAAGACCATGTCTAGGATATGGCATCGGCACCGATACGATATCCCATGTA
1 AGATAAGGTCACGTATAAGACCATGTCTAGGACATGGCATCAACACCGATACAAGACCCCATATA
* * *
55221221 AGACCATGTTTGGGACATGGCATTGGCATCG
66 AGACCATATCTGGGACATGGCATCGGCATCG
55221252 A
1 A
55221253 TATGTGTGTA
Statistics
Matches: 80, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.31, C:0.21, G:0.25, T:0.23
Consensus pattern (96 bp):
AGATAAGGTCACGTATAAGACCATGTCTAGGACATGGCATCAACACCGATACAAGACCCCATATA
AGACCATATCTGGGACATGGCATCGGCATCG
Found at i:55221527 original size:48 final size:48
Alignment explanation
Indices: 55221451--55221627 Score: 239
Period size: 48 Copynumber: 3.7 Consensus size: 48
55221441 TTAATGAGAT
* * *
55221451 CCAGTGTAAGACCATGTCTAGGACATGGCATCAGCGTTGATATGTGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAG
* *
55221499 CCAGTGTAAGACCATGTCTGGGATATGGCATCGGTGTTGATATATGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAG
* * * * *
55221547 -CATATGTAAGACCACGTCTGGGACATGTCATCGGTATTGATATGTGTG
1 CCA-GTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAG
*
55221595 CTAGTGTAAGACCATGTCTGGGACATGGCATCG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCG
55221628 CCACTGATAT
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
47 2 0.02
48 108 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGATATGTGAG
Found at i:55221713 original size:42 final size:47
Alignment explanation
Indices: 55221444--55221713 Score: 150
Period size: 48 Copynumber: 5.8 Consensus size: 47
55221434 ACCATGTTTA
* **
55221444 ATGAGA-TCCAGTGTAAGACCATGTCTAGGACATGGCATCAGCGTTGAT
1 ATGAGATTCCA-TGTAAGACCATGTCTGGGACATGGCATC-GCACTGAT
* * * ***
55221492 ATGTGA-GCCAGTGTAAGACCATGTCTGGGATATGGCATCGGTGTTGATAT
1 ATGAGATTCCA-TGTAAGACCATGTCTGGGACATGGCATC-GCACTG--AT
* * * *
55221542 ATGAGCA-T--ATGTAAGACCACGTCTGGGACATGTCATCGGTATTGAT
1 ATGAG-ATTCCATGTAAGACCATGTCTGGGACATGGCATC-GCACTGAT
* * *
55221588 ATGTG-TGCTAGTGTAAGACCATGTCTGGGACATGGCATCGCCACTGAT
1 ATGAGATTCCA-TGTAAGACCATGTCTGGGACATGGCATCG-CACTGAT
* * * * * *
55221636 ATGAGATTTCGTATAAGACCATAT-TCGAGATATGGCATCG-A-T-AT
1 ATGAGATTCCATGTAAGACCATGTCT-GGGACATGGCATCGCACTGAT
*
55221680 GTG-GA-TCCATGTAAGACCATGTCTGGGACATGGC
1 ATGAGATTCCATGTAAGACCATGTCTGGGACATGGC
55221714 TTTGGCACTC
Statistics
Matches: 177, Mismatches: 34, Indels: 28
0.74 0.14 0.12
Matches are distributed among these distances:
42 21 0.12
43 3 0.02
44 4 0.02
45 1 0.01
46 7 0.04
47 3 0.02
48 129 0.73
49 2 0.01
50 6 0.03
51 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (47 bp):
ATGAGATTCCATGTAAGACCATGTCTGGGACATGGCATCGCACTGAT
Found at i:55224532 original size:42 final size:42
Alignment explanation
Indices: 55224451--55224531 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
55224441 TATAGGGGTT
* *
55224451 TTCACACGGCCTGGCACATGCCCGTGTCCTTAGCCTGTGTGC
1 TTCACACGACCTGGCACACGCCCGTGTCCTTAGCCTGTGTGC
* *
55224493 TTCACACGACCTGG-ACACGCTCGTGTCC-TAGCCCGTGTG
1 TTCACACGACCTGGCACACGCCCGTGTCCTTAGCCTGTGTG
55224532 TAGAAACATG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 10 0.29
41 12 0.34
42 13 0.37
ACGTcount: A:0.14, C:0.36, G:0.26, T:0.25
Consensus pattern (42 bp):
TTCACACGACCTGGCACACGCCCGTGTCCTTAGCCTGTGTGC
Found at i:55225512 original size:46 final size:45
Alignment explanation
Indices: 55225462--55225627 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 45
55225452 ACCTCTCATA
55225462 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTT-CGTCTCGAG
* ** * *
55225508 GCCGATGCATGTCCCAAATATGTCTTACACTACACTT-GTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACT-GGCTTCGTCTCGAG
* * * * * *
55225553 GCCGATGCCATGTCCCAGACATGGCCTTACATTGGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTGGCT-TCGT-CTCGAG
55225601 GCCGATGCATGT-CCAAACATGTCTTAC
1 GCCGATGCATGTCCCAAACATGTCTTAC
55225628 TCTAGCTCAC
Statistics
Matches: 96, Mismatches: 18, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
45 19 0.20
46 51 0.53
47 17 0.18
48 8 0.08
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (45 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTTCGTCTCGAG
Found at i:55234802 original size:49 final size:49
Alignment explanation
Indices: 55234730--55234873 Score: 191
Period size: 49 Copynumber: 2.9 Consensus size: 49
55234720 GCCGAAGCTA
55234730 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCA-ACAG
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACA-AG
* * * * * *
55234779 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAAT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAAG
*
55234828 TTTCGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TCT-G-GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
55234874 TCACAATAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
49 43 0.54
50 2 0.03
51 35 0.44
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (49 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCACAAG
Found at i:55236164 original size:53 final size:53
Alignment explanation
Indices: 55236064--55236168 Score: 131
Period size: 53 Copynumber: 2.0 Consensus size: 53
55236054 TTCCTTTTTA
* * * * *
55236064 AACTTACCATTGCAATGTCTTGACATGGTCTTGCGTGGTATACTTGCCTTATG
1 AACTCACCATTGCAATGCCTTGACATGGTCTTACATGGGATACTTGCCTTATG
* *
55236117 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGAT-CTTTGCCTTAT
1 AACTCACCATTGCAATGCCTTGACATGGTCTTACATGGGATAC-TTGCCTTAT
55236169 AGTAGTTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (53 bp):
AACTCACCATTGCAATGCCTTGACATGGTCTTACATGGGATACTTGCCTTATG
Found at i:55236270 original size:54 final size:54
Alignment explanation
Indices: 55236087--55236270 Score: 165
Period size: 55 Copynumber: 3.4 Consensus size: 54
55236077 AATGTCTTGA
* * * * * * *
55236087 CATGGTCTTGCGTGGTATACTTGCCTTAT-GAACTCACCATTGCCATGCCTTGG
1 CATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAACAATGCCATGCCTTTG
* * ** * *
55236140 CATGGTCTTACATGGGATCTTTGCCTTATAGTAGTTTATCAATGCCATGTC-TTG
1 CATGGTCTTACATGGTATCCTTGCCTTATAG-AACTTAACAATGCCATGCCTTTG
* * * * *
55236194 ACGTGGTCTTACATGATTTCCTTGCCTTGTAGAACTTAACAATGCGATGCCTTTG
1 -CATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAACAATGCCATGCCTTTG
*
55236249 CATGGTCTTACTTGGTATCCTT
1 CATGGTCTTACATGGTATCCTT
55236271 AAACCCTAAT
Statistics
Matches: 100, Mismatches: 27, Indels: 7
0.75 0.20 0.05
Matches are distributed among these distances:
53 24 0.24
54 35 0.35
55 41 0.41
ACGTcount: A:0.19, C:0.22, G:0.21, T:0.38
Consensus pattern (54 bp):
CATGGTCTTACATGGTATCCTTGCCTTATAGAACTTAACAATGCCATGCCTTTG
Found at i:55240742 original size:27 final size:27
Alignment explanation
Indices: 55240707--55240825 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
55240697 CCCCAAAATA
* * *
55240707 GGTAAAATGATCATAATGCCTCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
55240734 GGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
55240761 GGTAAAATGACCTTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * ** *
55240788 GATAAAATGATCGTAATATCCCTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
55240815 GGTAAATTGAC
1 GGTAAAATGAC
55240826 GATTATGCCC
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:55240779 original size:54 final size:54
Alignment explanation
Indices: 55240707--55240837 Score: 172
Period size: 54 Copynumber: 2.4 Consensus size: 54
55240697 CCCCAAAATA
* * *
55240707 GGTAAAATGATCATAATGCCTCTGTAGGGTAAAATGACCGTAATACCCCTGTAG
1 GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAG
* * * *
55240761 GGTAAAATGACCTTAATGCCCCTGTAGGATAAAATGATCGTAATATCCCTGTAT
1 GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAG
* * *
55240815 GGTAAATTGACGATTATGCCCCT
1 GGTAAAATGACCATAATGCCCCT
55240838 ATGTTCCAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 66 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (54 bp):
GGTAAAATGACCATAATGCCCCTGTAGGATAAAATGACCGTAATACCCCTGTAG
Found at i:55240837 original size:27 final size:26
Alignment explanation
Indices: 55240705--55240837 Score: 87
Period size: 27 Copynumber: 5.0 Consensus size: 26
55240695 AACCCCAAAA
* *
55240705 TAGGTAAAATGATC-ATAATGCCTCTG
1 TAGGTAAAATGA-CGATTATGCCCCTG
* *
55240731 TAGGGTAAAATGACCG-TAATACCCCTG
1 TA-GGTAAAATGA-CGATTATGCCCCTG
*
55240758 TAGGGTAAAATGAC-CTTAATGCCCCTG
1 TA-GGTAAAATGACGATT-ATGCCCCTG
*
55240785 TAGGATAAAATGATCGTAATAT--CCCTG
1 TAGG-TAAAATGA-CG-ATTATGCCCCTG
*
55240812 TATGGTAAATTGACGATTATGCCCCT
1 TA-GGTAAAATGACGATTATGCCCCT
55240838 ATGTTCCAAA
Statistics
Matches: 87, Mismatches: 9, Indels: 21
0.74 0.08 0.18
Matches are distributed among these distances:
25 4 0.05
26 8 0.09
27 69 0.79
28 3 0.03
29 2 0.02
30 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (26 bp):
TAGGTAAAATGACGATTATGCCCCTG
Found at i:55244647 original size:44 final size:47
Alignment explanation
Indices: 55244545--55244659 Score: 155
Period size: 49 Copynumber: 2.5 Consensus size: 47
55244535 ACACCTAAGT
* * *
55244545 CGATGCCATGTCCTAGACATGTCTTACACTAACTTTCATGTATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAAC-TACATG-ATCGAGGC
*
55244594 CGATGCCATGTCCCAGATAGGTCTTACACTAAC-ACATG-TC-AGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTACATGATCGAGGC
55244638 CGATGCCATGTCCCAGACAGGT
1 CGATGCCATGTCCCAGACAGGT
55244660 TGTAACATAG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
44 25 0.41
45 2 0.03
47 4 0.07
49 30 0.49
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTACATGATCGAGGC
Found at i:55247946 original size:20 final size:20
Alignment explanation
Indices: 55247921--55247959 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
55247911 AAAATTTCAA
55247921 TTATTTCACACA-TTTACAAC
1 TTATTTCACA-ATTTTACAAC
*
55247941 TTATTTTACAATTTTACAA
1 TTATTTCACAATTTTACAA
55247960 AATAGCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.36, C:0.18, G:0.00, T:0.46
Consensus pattern (20 bp):
TTATTTCACAATTTTACAAC
Found at i:55254469 original size:48 final size:48
Alignment explanation
Indices: 55254290--55254470 Score: 148
Period size: 48 Copynumber: 3.8 Consensus size: 48
55254280 AGGTCCAGTG
* * * * *
55254290 TAAGACCATATCTAGGACATTACATCGGCATCGATATGGGA-CCTCGTA
1 TAAGACCATATCTGGGACATGACATCAGCATCGATATGAGATCCT-ATA
* * * * * * * * *
55254338 TAAGACCATATCAGGCATATGGCATTAGTATCGAGATGAGGTCCCATA
1 TAAGACCATATCTGGGACATGACATCAGCATCGATATGAGATCCTATA
* * * * *
55254386 TAAGACCATGTCTGGGACATGGCATCAGCACCGATACGAGATCCTATG
1 TAAGACCATATCTGGGACATGACATCAGCATCGATATGAGATCCTATA
* **
55254434 TAAGACCATGTCTGGGACATGACATTGGCATCGATAT
1 TAAGACCATATCTGGGACATGACATCAGCATCGATAT
55254471 ATGTGTCAGT
Statistics
Matches: 101, Mismatches: 31, Indels: 2
0.75 0.23 0.01
Matches are distributed among these distances:
48 99 0.98
49 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGACATCAGCATCGATATGAGATCCTATA
Found at i:55254741 original size:48 final size:48
Alignment explanation
Indices: 55254670--55254841 Score: 218
Period size: 48 Copynumber: 3.6 Consensus size: 48
55254660 TGAGATCTCA
* * *
55254670 TGTAAGACCATGTCTGGGACATGGAATCGGCGTTGATATGTAAGCCAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
* * *
55254718 TGTAAGGCCATGTCTGGGACATGGCATCAGTGTTGATATGTGAGCCAC
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
* ** * **
55254766 TGTAAGATCATGTCTGGGACATGGCATCAATGTTGATATGTGTGATAG
1 TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
* *
55254814 TGTAAGACTATGTCTGGGAAATGGCATC
1 TGTAAGACCATGTCTGGGACATGGCATC
55254842 GGCACTAATA
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (48 bp):
TGTAAGACCATGTCTGGGACATGGCATCAGCGTTGATATGTGAGCCAG
Found at i:55257790 original size:28 final size:28
Alignment explanation
Indices: 55257750--55257806 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
55257740 ATTACAAAAT
55257750 ATGTACAAATTAAATGAAATAGAATCTA
1 ATGTACAAATTAAATGAAATAGAATCTA
55257778 ATGTACAAATTAAATGAAATAGAATCTA
1 ATGTACAAATTAAATGAAATAGAATCTA
55257806 A
1 A
55257807 CTCATGGCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.54, C:0.07, G:0.11, T:0.28
Consensus pattern (28 bp):
ATGTACAAATTAAATGAAATAGAATCTA
Found at i:55273014 original size:16 final size:17
Alignment explanation
Indices: 55272993--55273028 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
55272983 TAGTCATTAT
55272993 TACACAAAA-TGCAAAA
1 TACACAAAATTGCAAAA
*
55273009 TACACAAAATTTCAAAA
1 TACACAAAATTGCAAAA
55273026 TAC
1 TAC
55273029 TCATGTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.58, C:0.19, G:0.03, T:0.19
Consensus pattern (17 bp):
TACACAAAATTGCAAAA
Found at i:55278998 original size:39 final size:40
Alignment explanation
Indices: 55278890--55279114 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
55278880 TTGAATGATG
* * * *
55278890 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
55278930 TCCGGACTAAGAT-CCGAAGGTATTCGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55278970 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55279009 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55279049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55279090 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55279115 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 120 0.74
41 9 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55279132 original size:80 final size:80
Alignment explanation
Indices: 55278890--55279147 Score: 224
Period size: 80 Copynumber: 3.2 Consensus size: 80
55278880 TTGAATGATG
* * * * * * * *
55278890 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTAT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGCTAAG-TCCCGAAGGCAT
* ** *
55278953 TCGTGCGAGAT-ACTAAT
64 TTGAACGAG-TGACTAAA
* *
55278970 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
** *
55279034 GTGCGAGTTACTAAA
66 GAACGAGTGACTAAA
* *
55279049 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATT
*
55279113 TGAACGAG-GAGCTATA
65 TGAACGAGTGA-CTAAA
* *
55279129 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55279148 TACGTGATTT
Statistics
Matches: 152, Mismatches: 20, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
78 2 0.01
79 72 0.47
80 76 0.50
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
GAACGAGTGACTAAA
Found at i:55279136 original size:119 final size:119
Alignment explanation
Indices: 55278890--55279147 Score: 265
Period size: 119 Copynumber: 2.2 Consensus size: 119
55278880 TTGAATGATG
* * *
55278890 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGTATTC
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTC
* ** *
55278955 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
* * * **
55279009 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * *
55279072 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TCGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGA-CTAAA
* *
55279129 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
55279148 TACGTGATTT
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
118 3 0.03
119 81 0.70
120 31 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTC
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAA
Found at i:55286978 original size:39 final size:40
Alignment explanation
Indices: 55286870--55287094 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
55286860 TTGAATGATG
* * * *
55286870 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * * *
55286910 TCCGGACTAAGAT-ACGAAGGTATTCGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55286950 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55286989 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
55287029 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
55287070 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55287095 AACGAGGAGC
Statistics
Matches: 158, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
39 32 0.20
40 117 0.74
41 9 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55287112 original size:80 final size:79
Alignment explanation
Indices: 55286944--55287117 Score: 210
Period size: 80 Copynumber: 2.2 Consensus size: 79
55286934 CGTGCGAGAT
* * * *
55286944 ACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGG
1 ACTAAATCCGGGTTAAGCCCAAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
** *
55287009 CATTTGTGCGAGTT
66 CATTTGAACGAGTG
* *
55287023 ACTAAATCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAA
1 ACTAAATCCGGGTTAAG-CCCAAAGGCATTGGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAA
55287087 GGCATTTGAACGAG-G
64 GGCATTTGAACGAGTG
*
55287102 AGCTATATCC-GGTTAA
1 A-CTAAATCCGGGTTAA
55287118 ATTCCGAAGG
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
79 22 0.27
80 58 0.71
81 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
ACTAAATCCGGGTTAAGCCCAAAGGCATTGGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGG
CATTTGAACGAGTG
Found at i:55291298 original size:7 final size:7
Alignment explanation
Indices: 55291286--55291312 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
55291276 GTTAAAGCCC
55291286 GATAAAT
1 GATAAAT
55291293 GATAAAT
1 GATAAAT
55291300 GATAAAT
1 GATAAAT
55291307 GATAAA
1 GATAAA
55291313 AATTTTACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (7 bp):
GATAAAT
Found at i:55302821 original size:22 final size:22
Alignment explanation
Indices: 55302796--55302840 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
55302786 TATAAATACA
*
55302796 AGTTTTTTAAATTAATGAGAAT
1 AGTTTTTTAAATTAATAAGAAT
55302818 AGTTTTTTAAATTAATAAGAAT
1 AGTTTTTTAAATTAATAAGAAT
55302840 A
1 A
55302841 TTCTTTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (22 bp):
AGTTTTTTAAATTAATAAGAAT
Found at i:55310302 original size:13 final size:13
Alignment explanation
Indices: 55310284--55310308 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55310274 TAATTATCAC
55310284 TTAATTAATATTT
1 TTAATTAATATTT
55310297 TTAATTAATATT
1 TTAATTAATATT
55310309 AGAGTTAATT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTAATTAATATTT
Found at i:55310772 original size:25 final size:27
Alignment explanation
Indices: 55310744--55310799 Score: 80
Period size: 25 Copynumber: 2.1 Consensus size: 27
55310734 TACCCTTAAG
55310744 AATAATAGATAAAAT-ATATT-ATAAA
1 AATAATAGATAAAATCATATTAATAAA
* *
55310769 AATAGTAGATAAAATCATATTAATAAT
1 AATAATAGATAAAATCATATTAATAAA
55310796 AATA
1 AATA
55310800 TTTTTTGGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 14 0.52
26 5 0.19
27 8 0.30
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (27 bp):
AATAATAGATAAAATCATATTAATAAA
Found at i:55312559 original size:40 final size:40
Alignment explanation
Indices: 55312511--55312773 Score: 341
Period size: 40 Copynumber: 6.6 Consensus size: 40
55312501 CTACTCGCTC
* * *
55312511 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACC
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* * *
55312551 AATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* * *
55312591 AATGTCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
*
55312631 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* *
55312671 AATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
* * * *
55312711 AATGCCTTCGGGGCTTAGCCCGGA-ACTAGTCACT-AGCGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAATAACTCA-CACA
*
55312751 AATGCCTCCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
55312774 TTATCATCCG
Statistics
Matches: 202, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 202 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACA
Found at i:55312611 original size:80 final size:79
Alignment explanation
Indices: 55312491--55312773 Score: 381
Period size: 80 Copynumber: 3.5 Consensus size: 79
55312481 CAGGATTTAA
* * * * * *
55312491 CCGGATATAGCTACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
55312555 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
*
55312570 CCGGATATAGTAGCTCGCACAAATGTCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
55312635 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* * *
55312650 CCGGATGTAATAACTCACACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATG
*
55312715 CCTTCGGGGCTTAGC
65 CCTTCGGGACTTAGC
* * *
55312730 CCGGA-ACTAGTCACTAGCGCAAATGCCTCCGGGACTTAGCCCGG
1 CCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
55312774 TTATCATCCG
Statistics
Matches: 181, Mismatches: 19, Indels: 7
0.87 0.09 0.03
Matches are distributed among these distances:
78 2 0.01
79 16 0.09
80 162 0.90
81 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCGCACAAATGC
CTTCGGGACTTAGC
Found at i:55312728 original size:120 final size:120
Alignment explanation
Indices: 55312503--55312773 Score: 382
Period size: 120 Copynumber: 2.3 Consensus size: 120
55312493 GGATATAGCT
* * * *
55312503 ACTCGCTC-AATGCCTTCGGGACATAGCCCGGATATAGTAACTCACACCAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
* * * **
55312567 AGCCCGGATATAGTAGCTCGCACAAATGTCTTCGGGACTTAGCCCGGATGTAATA
66 AGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAATA
*
55312622 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATGTAATAACTCACACAAATGCCTTCGGGACTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
* * * *
55312687 AGCCCGGATGTAATAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGAACTAGTC
66 AGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAATA
* * *
55312742 ACTAGCGCAAATGCCTCCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
55312774 TTATCATCCG
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
119 7 0.05
120 127 0.95
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.22
Consensus pattern (120 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAACTCACACAAATGCCTTCGGGACTT
AGCCCGGATATAATAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAATA
Found at i:55319870 original size:14 final size:14
Alignment explanation
Indices: 55319851--55319880 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
55319841 TTAAAAAATG
55319851 AATTAATATTTTAA
1 AATTAATATTTTAA
*
55319865 AATTAATTTTTTAA
1 AATTAATATTTTAA
55319879 AA
1 AA
55319881 AAATCAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTAATATTTTAA
Found at i:55339013 original size:23 final size:23
Alignment explanation
Indices: 55338935--55339017 Score: 69
Period size: 23 Copynumber: 3.4 Consensus size: 23
55338925 CACATCTTAA
*
55338935 ATGAGCTTACCGATATATTAGCTCGT
1 ATGAGCTTACC-AT-T-TCAGCTCGT
* * * *
55338961 AAGAGCTTACTATTTTCATCTCAT
1 ATGAGCTTACCA-TTTCAGCTCGT
55338985 -TGGAGCTTACCATTTCAGCTCGT
1 AT-GAGCTTACCATTTCAGCTCGT
55339008 ATGAGCTTAC
1 ATGAGCTTAC
55339018 TGTTCAGCTC
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
23 17 0.38
24 16 0.36
25 2 0.04
26 10 0.22
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (23 bp):
ATGAGCTTACCATTTCAGCTCGT
Found at i:55345584 original size:27 final size:27
Alignment explanation
Indices: 55345543--55345596 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
55345533 GTAAGACCTT
*
55345543 GTCTAGGACAGTGGCATCAATCTGTGA
1 GTCTAGGACAATGGCATCAATCTGTGA
* *
55345570 GTCTAGGATAATGGCATCGATCTGTGA
1 GTCTAGGACAATGGCATCAATCTGTGA
55345597 CGACATGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.28
Consensus pattern (27 bp):
GTCTAGGACAATGGCATCAATCTGTGA
Found at i:55354679 original size:6 final size:6
Alignment explanation
Indices: 55354668--55354692 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55354658 AGATCAATTA
55354668 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
55354693 AATCAGCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:55355926 original size:18 final size:19
Alignment explanation
Indices: 55355891--55355927 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
55355881 TTAAGTTTCA
*
55355891 CTTCCTTTGCTCCACTTTT
1 CTTCCTTTGCTACACTTTT
55355910 CTTCCTTT-CTACACTTTT
1 CTTCCTTTGCTACACTTTT
55355928 GTCGCCCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.08, C:0.35, G:0.03, T:0.54
Consensus pattern (19 bp):
CTTCCTTTGCTACACTTTT
Found at i:55359033 original size:15 final size:15
Alignment explanation
Indices: 55359013--55359056 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55359003 GGGATGATGG
*
55359013 TTTTTTTTGTTTTAT
1 TTTTTTTTATTTTAT
*
55359028 TTTTTTATATTTTAT
1 TTTTTTTTATTTTAT
* *
55359043 TATTTTTTAATTTA
1 TTTTTTTTATTTTA
55359057 CTATATTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTTTATTTTAT
Found at i:55362624 original size:39 final size:39
Alignment explanation
Indices: 55362579--55362698 Score: 195
Period size: 39 Copynumber: 3.1 Consensus size: 39
55362569 TTCAAGACAT
55362579 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
* * * *
55362618 TGGAAATGTATCCGGGCTAAAATGCCGCGGGCTTCGTGT
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
*
55362657 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTGC
1 TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
55362696 TGG
1 TGG
55362699 TAATATAATT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.20, C:0.23, G:0.33, T:0.25
Consensus pattern (39 bp):
TGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGC
Found at i:55364987 original size:29 final size:29
Alignment explanation
Indices: 55364951--55365107 Score: 131
Period size: 29 Copynumber: 5.4 Consensus size: 29
55364941 CCGTAACTGA
*
55364951 GCACTGTGTGTCCGAGATCGGTTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* ***
55364980 GCACTGTGTGTGCGAGTTTC-GTAACTGA-
1 GCACTGTGTGTGCGAG-ATCGGTTGTTGAG
*
55365008 GCACTGTGTGTGCGAGATCGATTGTTGAG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* ** ****
55365037 GCACTGTGTGTGCGAGTTTTGTAACCGA-
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
* *
55365065 GCACTGTGTGTGCGAGATCGATTGTTGGG
1 GCACTGTGTGTGCGAGATCGGTTGTTGAG
55365094 GCACTAAGTGTGTG
1 GCACT--GTGTGTG
55365108 AAATGAGATC
Statistics
Matches: 95, Mismatches: 27, Indels: 10
0.72 0.20 0.08
Matches are distributed among these distances:
27 2 0.02
28 39 0.41
29 45 0.47
30 2 0.02
31 7 0.07
ACGTcount: A:0.17, C:0.16, G:0.36, T:0.31
Consensus pattern (29 bp):
GCACTGTGTGTGCGAGATCGGTTGTTGAG
Found at i:55365009 original size:57 final size:57
Alignment explanation
Indices: 55364921--55365107 Score: 284
Period size: 57 Copynumber: 3.2 Consensus size: 57
55364911 AAGTGAACAT
* * * * *
55364921 AGGCATTGTCTGTGCGAGTTCCGTAACTGAGCACTGTGTGTCCGAGATCGGTTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
55364978 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
* *
55365035 AGGCACTGTGTGTGCGAGTTTTGTAACCGAGCACTGTGTGTGCGAGATCGATTGTTG
1 AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
*
55365092 GGGCACTAAGTGTGTG
1 AGGCACT--GTGTGTG
55365108 AAATGAGATC
Statistics
Matches: 120, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
57 113 0.94
59 7 0.06
ACGTcount: A:0.17, C:0.17, G:0.35, T:0.31
Consensus pattern (57 bp):
AGGCACTGTGTGTGCGAGTTTCGTAACTGAGCACTGTGTGTGCGAGATCGATTGTTG
Found at i:55368271 original size:39 final size:39
Alignment explanation
Indices: 55368155--55368272 Score: 184
Period size: 39 Copynumber: 3.0 Consensus size: 39
55368145 CAAGACACTA
*
55368155 GAAATGTATCCGGGCTAAAG-TCCTGCAGGCTTTGTGCTA
1 GAAATGTATCCGGGCTAAAGTTCC-GCAGGCTTTGTGCTG
* * *
55368194 GAAATGTATCCAGGCTAAAGTCCCGCAGGCTTCGTGCTG
1 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
55368233 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
1 GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
55368272 G
1 G
55368273 TAATATAATT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
39 69 0.97
40 2 0.03
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.26
Consensus pattern (39 bp):
GAAATGTATCCGGGCTAAAGTTCCGCAGGCTTTGTGCTG
Found at i:55370017 original size:40 final size:40
Alignment explanation
Indices: 55369973--55370160 Score: 290
Period size: 40 Copynumber: 4.7 Consensus size: 40
55369963 GCTACTTGCT
55369973 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
55370013 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
55370053 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
** * * *
55370093 CAAATGCCTTCGGG-CTTAGCTTGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
55370132 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
55370161 CATCCAAATA
Statistics
Matches: 134, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 31 0.23
40 101 0.75
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:55370151 original size:119 final size:119
Alignment explanation
Indices: 55369940--55370160 Score: 313
Period size: 119 Copynumber: 1.9 Consensus size: 119
55369930 AAACCAAGTA
* * * *
55369940 CCTTCGGAATTTAGCCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
55370005 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* **
55370059 CCTTCGGGACTTAGCCCGGATATAG-TAGCTCGCACAAATGCCTTCGGG-CTTAGCTTGGA-ATT
1 CCTTCGGAACTTAG-CCGGATATAGCTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-T
*
55370121 AGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
63 AGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
55370161 CATCCAAATA
Statistics
Matches: 90, Mismatches: 9, Indels: 6
0.86 0.09 0.06
Matches are distributed among these distances:
118 1 0.01
119 61 0.68
120 28 0.31
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (119 bp):
CCTTCGGAACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:55376491 original size:28 final size:28
Alignment explanation
Indices: 55376437--55376492 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
55376427 CTAATGCCTC
***
55376437 AATTATTAATACCATTATTATTTAATTT
1 AATTATTAATACCATTATTAACAAATTT
* *
55376465 AATTATTATTATCATTATTAACAAATTT
1 AATTATTAATACCATTATTAACAAATTT
55376493 TTTATTTTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (28 bp):
AATTATTAATACCATTATTAACAAATTT
Found at i:55386326 original size:27 final size:28
Alignment explanation
Indices: 55386289--55386428 Score: 175
Period size: 27 Copynumber: 5.2 Consensus size: 28
55386279 AGCATGGCTG
* *
55386289 CCAGA-ACAGATA-ATGTGACAGAGTCA
1 CCAGATACAGATATATGTGGCAGAGCCA
55386315 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGATACAGATATAT-GTGGCAGAGCCA
55386343 CCAGA-ACAGATATATGTGGCAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
55386370 CCAGAT-CAGATATTTGTGGTAGAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
* *
55386397 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATATATGTGGCAGAGCCA
55386424 CCAGA
1 CCAGA
55386429 ACGCTTCCTC
Statistics
Matches: 104, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
26 5 0.05
27 82 0.79
28 17 0.16
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (28 bp):
CCAGATACAGATATATGTGGCAGAGCCA
Found at i:55388084 original size:26 final size:26
Alignment explanation
Indices: 55388048--55388157 Score: 177
Period size: 26 Copynumber: 4.2 Consensus size: 26
55388038 CATGAAATTC
55388048 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
55388074 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
55388100 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
55388126 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
55388152 TTATCA
1 TTATCA
55388158 ATTTGTACCA
Statistics
Matches: 81, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
26 79 0.98
27 2 0.02
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:55392899 original size:21 final size:21
Alignment explanation
Indices: 55392875--55392914 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
55392865 TCACACAGGC
*
55392875 GTGTGCCTTAGTCACACGGTT
1 GTGTGCCTTAGCCACACGGTT
**
55392896 GTGTTTCTTAGCCACACGG
1 GTGTGCCTTAGCCACACGG
55392915 GCATGTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.33
Consensus pattern (21 bp):
GTGTGCCTTAGCCACACGGTT
Found at i:55404688 original size:49 final size:50
Alignment explanation
Indices: 55404614--55404756 Score: 171
Period size: 51 Copynumber: 2.9 Consensus size: 50
55404604 GCCGAAGCTA
* *
55404614 TCTGGTACGCATAGTAGCCTACACTTAGTACTACAAATGCGACA-AATAG
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACACAATAG
* * * * * **
55404663 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGTTT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CACAATAG
* *
55404714 TCGGGTACGCATAATAGCCTGCACTTAGTACTACACATGCGAC
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGAC
55404757 CTCACAATAG
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
49 36 0.47
50 3 0.04
51 38 0.49
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (50 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACACAATAG
Found at i:55409843 original size:41 final size:41
Alignment explanation
Indices: 55409797--55409943 Score: 222
Period size: 41 Copynumber: 3.6 Consensus size: 41
55409787 TAAATCCTAG
* * * *
55409797 TATAATACACCGGCACAGAGCCTGCTAGGCAATAGGCCTGA
1 TATAATACACCGGCATAAAGCCTGCTAGCCAATAAGCCTGA
*
55409838 AATAATACACCGGCATAAAGCCTGCTAGCCAATAAGCCTGA
1 TATAATACACCGGCATAAAGCCTGCTAGCCAATAAGCCTGA
*
55409879 TATAATTCACCGGCATAAAGCCTGCTAGCCAATAAGCCTGA
1 TATAATACACCGGCATAAAGCCTGCTAGCCAATAAGCCTGA
* *
55409920 TATAATTCACCGACATAAAGCCTG
1 TATAATACACCGGCATAAAGCCTG
55409944 AATATCATTG
Statistics
Matches: 98, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (41 bp):
TATAATACACCGGCATAAAGCCTGCTAGCCAATAAGCCTGA
Found at i:55425068 original size:27 final size:27
Alignment explanation
Indices: 55425038--55425138 Score: 116
Period size: 27 Copynumber: 3.7 Consensus size: 27
55425028 CTGATTGATG
*
55425038 AAAATGA-TAATTTTGCCCTTATGTGGT
1 AAAATGACT-ATTTTGCCCTTATATGGT
55425065 AAAATGACTATTTTGCCCTTATATGGT
1 AAAATGACTATTTTGCCCTTATATGGT
** *
55425092 AAAATGACTGA-AATGCCCTTACATGGT
1 AAAATGACT-ATTTTGCCCTTATATGGT
*
55425119 AAATTGACTATTTTGTCCCT
1 AAAATGACTATTTTG-CCCT
55425139 ATGTGATATA
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.02
27 56 0.89
28 6 0.10
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (27 bp):
AAAATGACTATTTTGCCCTTATATGGT
Found at i:55425480 original size:18 final size:18
Alignment explanation
Indices: 55425457--55425491 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55425447 ATTACATATC
55425457 TGCACTAATTACTGTTAT
1 TGCACTAATTACTGTTAT
**
55425475 TGCACTGGTTACTGTTA
1 TGCACTAATTACTGTTA
55425492 CTACAATAGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.43
Consensus pattern (18 bp):
TGCACTAATTACTGTTAT
Found at i:55431076 original size:26 final size:26
Alignment explanation
Indices: 55431040--55431104 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
55431030 ACAGATAACA
*
55431040 AAAGCCTTTGTGGCGCAATATGAAAG
1 AAAGCCTTTGTGGCGCAATACGAAAG
* *
55431066 AAAGTCTTTGTGGCGTAATACGAAAG
1 AAAGCCTTTGTGGCGCAATACGAAAG
*
55431092 AATGCCTTTGTGG
1 AAAGCCTTTGTGG
55431105 AAAACTCCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (26 bp):
AAAGCCTTTGTGGCGCAATACGAAAG
Found at i:55437517 original size:28 final size:28
Alignment explanation
Indices: 55437485--55437543 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
55437475 CCTCAAAGAG
* *
55437485 TAAGTAAGAAAATTCGTATCATTGTTGA
1 TAAGTAAGAAAATTCATATCATTATTGA
*
55437513 TAAGTAAGGAAATTCATATCATTATTGA
1 TAAGTAAGAAAATTCATATCATTATTGA
55437541 TAA
1 TAA
55437544 ATATTGGTGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.36
Consensus pattern (28 bp):
TAAGTAAGAAAATTCATATCATTATTGA
Found at i:55439760 original size:68 final size:65
Alignment explanation
Indices: 55439688--55439902 Score: 188
Period size: 67 Copynumber: 3.3 Consensus size: 65
55439678 GAGTGCACAT
*
55439688 CATGTGTACAAGAGAGCTACAAGACATTATAATGTAGCTAGGTCACATGGGTGATACTATGTGTA
1 CATGTGTACAAGAGAGCTAC--GAGA-TATAATGTAGCTAGGTCACATGGGTGATACTATGTGTA
55439753 CAC
63 CAC
** * ** * * * * * *
55439756 CATGTAAACAAGAGAGCTACGGGATAT-ATGTAGCTAGGTCGGATGCGTGGTTCCAAGTGAAGGA
1 CATGTGTACAAGAGAGCTACGAGATATAATGTAGCTAGGTCACATGGGT-GATACTA-TG-TGTA
55439820 CAC
63 CAC
* * *
55439823 CATGTAG-ACAAGAGAGCTACGAGATA-AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTC
1 CATGT-GTACAAGAGAGCTACGAGATATAA-TGTAGCTAGGTCACATGGGTGATACTATGTGTAC
55439884 AC
64 AC
55439886 CATGTGTACAAGAGAGC
1 CATGTGTACAAGAGAGC
55439903 CAAACTATAT
Statistics
Matches: 116, Mismatches: 24, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 19 0.16
65 11 0.09
66 17 0.15
67 29 0.25
68 20 0.17
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.23
Consensus pattern (65 bp):
CATGTGTACAAGAGAGCTACGAGATATAATGTAGCTAGGTCACATGGGTGATACTATGTGTACAC
Found at i:55442499 original size:26 final size:26
Alignment explanation
Indices: 55442455--55442603 Score: 85
Period size: 26 Copynumber: 5.7 Consensus size: 26
55442445 ACACGATAGA
*
55442455 TAAAGTAAGCCTTTT-TGGCGTAAT-T
1 TAAAGAAAG-CTTTTGTGGCGTAATAT
55442480 TGAAAGAAAGCTTTTGTGGCGTAATAT
1 T-AAAGAAAGCTTTTGTGGCGTAATAT
* * **
55442507 TAAAGAATGTTTTTGTGG-AAAACTCCA-
1 TAAAGAAAGCTTTTGTGGCGTAA-T--AT
* * * * * *
55442534 TAAGGAACGCCTTTATGGCACT-TTAT
1 TAAAGAAAGCTTTTGTGGC-GTAATAT
55442560 T-AAGAAAGCTTTTGTGGCGTAATAT
1 TAAAGAAAGCTTTTGTGGCGTAATAT
* *
55442585 TAAAGAATGTTTTTGTGGC
1 TAAAGAAAGCTTTTGTGGC
55442604 AAACTCCATA
Statistics
Matches: 92, Mismatches: 21, Indels: 21
0.69 0.16 0.16
Matches are distributed among these distances:
24 1 0.01
25 26 0.28
26 48 0.52
27 16 0.17
28 1 0.01
ACGTcount: A:0.31, C:0.11, G:0.22, T:0.36
Consensus pattern (26 bp):
TAAAGAAAGCTTTTGTGGCGTAATAT
Found at i:55442576 original size:78 final size:78
Alignment explanation
Indices: 55442483--55442643 Score: 313
Period size: 78 Copynumber: 2.1 Consensus size: 78
55442473 CGTAATTTGA
55442483 AAGAAAGCTTTTGTGGCGTAATATTAAAGAATGTTTTTGTGGAAAACTCCATAAGGAACGCCTTT
1 AAGAAAGCTTTTGTGGCGTAATATTAAAGAATGTTTTTGTGGAAAACTCCATAAGGAACGCCTTT
55442548 ATGGCACTTTATT
66 ATGGCACTTTATT
*
55442561 AAGAAAGCTTTTGTGGCGTAATATTAAAGAATGTTTTTGTGGCAAACTCCATAAGGAACGCCTTT
1 AAGAAAGCTTTTGTGGCGTAATATTAAAGAATGTTTTTGTGGAAAACTCCATAAGGAACGCCTTT
55442626 ATGGCACTTTATT
66 ATGGCACTTTATT
55442639 AAGAA
1 AAGAA
55442644 CCGCCCTTGT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 82 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (78 bp):
AAGAAAGCTTTTGTGGCGTAATATTAAAGAATGTTTTTGTGGAAAACTCCATAAGGAACGCCTTT
ATGGCACTTTATT
Found at i:55444363 original size:50 final size:50
Alignment explanation
Indices: 55444286--55444423 Score: 224
Period size: 50 Copynumber: 2.7 Consensus size: 50
55444276 TTAATTTAAA
* * *
55444286 GATGCAAACCTTAACTAACATGGGAGTTACATAATGGATA-TCATTATTTAT
1 GATGCATA-CTTAACTAACATGAGAGTTACATAATGCA-AGTCATTATTTAT
55444337 GATGCATACTTAACTAACATGAGAGTTACATAATGCAAGTCATTATTTAT
1 GATGCATACTTAACTAACATGAGAGTTACATAATGCAAGTCATTATTTAT
55444387 GATGCATACTTAACTAACATGAGAGTTACATAATGCA
1 GATGCATACTTAACTAACATGAGAGTTACATAATGCA
55444424 TGACTTTATT
Statistics
Matches: 83, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
49 1 0.01
50 75 0.90
51 7 0.08
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (50 bp):
GATGCATACTTAACTAACATGAGAGTTACATAATGCAAGTCATTATTTAT
Found at i:55444433 original size:50 final size:50
Alignment explanation
Indices: 55444258--55444433 Score: 221
Period size: 50 Copynumber: 3.5 Consensus size: 50
55444248 TGAACAAATC
* * * * *
55444258 AGTTACTTAATGCATGGC-TTAATTTAAAGATGCAAACCTTAACTAACATGGG
1 AGTTACATAATGCATGACATT-ATTT-ATGATGCATA-CTTAACTAACATGAG
*
55444310 AGTTACATAATGGAT-ATCATTATTTATGATGCATACTTAACTAACATGAG
1 AGTTACATAATGCATGA-CATTATTTATGATGCATACTTAACTAACATGAG
* *
55444360 AGTTACATAATGCAAGTCATTATTTATGATGCATACTTAACTAACATGAG
1 AGTTACATAATGCATGACATTATTTATGATGCATACTTAACTAACATGAG
*
55444410 AGTTACATAATGCATGACTTTATT
1 AGTTACATAATGCATGACATTATT
55444434 AAATGCAGAA
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
50 81 0.74
51 8 0.07
52 18 0.17
53 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.35
Consensus pattern (50 bp):
AGTTACATAATGCATGACATTATTTATGATGCATACTTAACTAACATGAG
Found at i:55452973 original size:27 final size:26
Alignment explanation
Indices: 55452895--55453033 Score: 154
Period size: 27 Copynumber: 5.2 Consensus size: 26
55452885 AGCATGGCTG
* * *
55452895 CCAGAACAGATAATATGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
55452921 CCAGATACAAATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
55452949 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
55452976 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
55453003 CTAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
55453030 CCAG
1 CCAG
55453034 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
26 7 0.07
27 75 0.77
28 16 0.16
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:55461073 original size:46 final size:46
Alignment explanation
Indices: 55461023--55461198 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
55461013 TGGTTGAGCA
* *
55461023 TCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
55461069 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
55461116 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
55461162 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55461199 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 62 0.58
47 29 0.27
48 3 0.03
50 4 0.04
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:55461179 original size:93 final size:93
Alignment explanation
Indices: 55461020--55461190 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
55461010 GGATGGTTGA
* * * *
55461020 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGTTGAGT
55461085 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * * *
55461113 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATACGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGTTGAGT
55461178 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
55461191 GCTTATGGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTAAGTTGAGTCCGAGTTCACTCATGGATACAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:55463188 original size:27 final size:26
Alignment explanation
Indices: 55463153--55463264 Score: 145
Period size: 27 Copynumber: 4.2 Consensus size: 26
55463143 AGCATGGCTG
* *
55463153 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
55463179 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
55463207 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
*
55463234 CCAGATCAGATAATTGTGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
55463261 CCAG
1 CCAG
55463265 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
26 7 0.09
27 54 0.69
28 17 0.22
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:55463244 original size:54 final size:54
Alignment explanation
Indices: 55463153--55463264 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
55463143 AGCATGGCTG
*
55463153 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGC-GTAGCCA
* *
55463207 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCGTAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCA
55463261 CCAG
1 CCAG
55463265 GACGCTTCCT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
53 1 0.02
54 34 0.64
55 18 0.34
ACGTcount: A:0.36, C:0.23, G:0.25, T:0.16
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCGTGGCGTAGCCA
Found at i:55465588 original size:43 final size:43
Alignment explanation
Indices: 55465517--55465671 Score: 154
Period size: 43 Copynumber: 3.7 Consensus size: 43
55465507 TGTGATTTTG
* * * * *
55465517 TGTAAGACCACCTCTAGGACATTAGCATCGAT-TTGAGATTACA
1 TGTAAGACCACGTCTGGGATATTGGCATCGATATT-TGATTACA
* **
55465560 TGTAAGACCATGTCTGGGATATTGGCATC-ATATTTGATT-TT
1 TGTAAGACCACGTCTGGGATATTGGCATCGATATTTGATTACA
* ** *
55465601 TTTAAGACCTTGTCTGGGATAGTGGCATCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGATATTGGCATCGATATTTGATTACA
* *
55465644 TATAAGACCACGTCTGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGATATTGGCAT
55465672 TGTACGAGCT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 26 0.29
42 16 0.18
43 49 0.54
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGATATTGGCATCGATATTTGATTACA
Found at i:55465615 original size:41 final size:42
Alignment explanation
Indices: 55465562--55465671 Score: 134
Period size: 41 Copynumber: 2.6 Consensus size: 42
55465552 AGATTACATG
*
55465562 TAAGACCATGTCTGGGATATTGGCATC-ATATTTGATTTTTT
1 TAAGACCATGTCTGGGATAGTGGCATCGATATTTGATTTTTT
* ** *
55465603 TAAGACCTTGTCTGGGATAGTGGCATCGATATTTGATTACATA
1 TAAGACCATGTCTGGGATAGTGGCATCGATATTTGATT-TTTT
*
55465646 TAAGACCACGTCTGGGAT-GTTGGCAT
1 TAAGACCATGTCTGGGATAG-TGGCAT
55465672 TGTACGAGCT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 25 0.42
42 11 0.19
43 23 0.39
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (42 bp):
TAAGACCATGTCTGGGATAGTGGCATCGATATTTGATTTTTT
Found at i:55466297 original size:32 final size:32
Alignment explanation
Indices: 55466256--55466318 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
55466246 ATATGGTCAC
55466256 TATAATGTGTTCATGAATGGCTAATAGAATTA
1 TATAATGTGTTCATGAATGGCTAATAGAATTA
55466288 TATAATGTGTTCATGAATGGCTAATAGAATT
1 TATAATGTGTTCATGAATGGCTAATAGAATT
55466319 GGTCATTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (32 bp):
TATAATGTGTTCATGAATGGCTAATAGAATTA
Found at i:55469374 original size:40 final size:40
Alignment explanation
Indices: 55469182--55469367 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
55469172 TTAAATGATG
* * * * *
55469182 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* **
55469222 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55469262 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
55469302 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55469343 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
55469368 AACGAGTAGC
Statistics
Matches: 131, Mismatches: 11, Indels: 8
0.87 0.07 0.05
Matches are distributed among these distances:
39 1 0.01
40 120 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55469374 original size:80 final size:79
Alignment explanation
Indices: 55469235--55469400 Score: 219
Period size: 80 Copynumber: 2.1 Consensus size: 79
55469225 GGACTAAGAT
* * **
55469235 CCGAAGGCATTTGTGCGAGTTACTAAATCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
55469299 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
55469315 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
55469379 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
55469394 CCGAAGG
1 CCGAAGG
55469401 TACGTGATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
79 16 0.21
80 58 0.76
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:55471417 original size:13 final size:13
Alignment explanation
Indices: 55471399--55471423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
55471389 TATGTGATAT
55471399 GTGTGAAAATTTC
1 GTGTGAAAATTTC
55471412 GTGTGAAAATTT
1 GTGTGAAAATTT
55471424 TATCATTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:55473243 original size:27 final size:26
Alignment explanation
Indices: 55473169--55473254 Score: 100
Period size: 27 Copynumber: 3.2 Consensus size: 26
55473159 AGCATGGTTG
* * *
55473169 CCAGAACAGATATTGTGACAGCGTCA
1 CCAGAACAGATATTGTGGCAGAGCCA
* *
55473195 CGAGATACAGATATTGTAGCAGAGCCA
1 CCAGA-ACAGATATTGTGGCAGAGCCA
*
55473222 CCAGAACAGATGTTTGTGGCAGAGCCA
1 CCAGAACAGAT-ATTGTGGCAGAGCCA
55473249 CCAGAA
1 CCAGAA
55473255 TACTTCCTCC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.35, C:0.22, G:0.26, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATATTGTGGCAGAGCCA
Found at i:55475454 original size:42 final size:42
Alignment explanation
Indices: 55475329--55475456 Score: 107
Period size: 42 Copynumber: 3.0 Consensus size: 42
55475319 TAGAATTTTG
* *
55475329 GTATGTGATTTCGTGTAAGACCATGTCTGGGAT-GTTGGCATC
1 GTATATGATTTCGTGTAAGACCATGTTTGGGATAG-TGGCATC
* * * ** * * *
55475371 G-ATTTGAGATTTACATGTAAAACCATGTTTGTAACATTGGCATT
1 GTATAT--GATTT-CGTGTAAGACCATGTTTGGGATAGTGGCATC
*
55475415 GTATATGATTTCGTGTAAGACCTTGTTTGGGATAGTGGCATC
1 GTATATGATTTCGTGTAAGACCATGTTTGGGATAGTGGCATC
55475457 AATATTTGAT
Statistics
Matches: 63, Mismatches: 18, Indels: 10
0.69 0.20 0.11
Matches are distributed among these distances:
41 3 0.05
42 24 0.38
43 10 0.16
44 23 0.37
45 3 0.05
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (42 bp):
GTATATGATTTCGTGTAAGACCATGTTTGGGATAGTGGCATC
Found at i:55481542 original size:45 final size:45
Alignment explanation
Indices: 55481478--55481577 Score: 155
Period size: 45 Copynumber: 2.2 Consensus size: 45
55481468 AAAGATTATT
* * *
55481478 AACATGTCCCATAAGTGTAGCATAAATCTAAGCACTCTCTACACC
1 AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCGCCACACC
*
55481523 AACATGTCTAATAAGTGTAGCATAAATCTAAGCACTCGCCACACC
1 AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCGCCACACC
*
55481568 AACATATCCA
1 AACATGTCCA
55481578 TTGAATGGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (45 bp):
AACATGTCCAATAAGTGTAGCATAAATCTAAGCACTCGCCACACC
Found at i:55500322 original size:47 final size:47
Alignment explanation
Indices: 55500256--55500902 Score: 1100
Period size: 47 Copynumber: 13.8 Consensus size: 47
55500246 GAAATGATAG
55500256 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500303 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500350 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500396 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
55500445 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
55500492 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500539 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500586 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500633 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55500680 TAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55500726 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55500773 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55500820 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * *
55500867 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
55500903 CATAAACGTG
Statistics
Matches: 580, Mismatches: 16, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
46 92 0.16
47 443 0.76
49 45 0.08
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55500864 original size:330 final size:329
Alignment explanation
Indices: 55500256--55500866 Score: 1125
Period size: 330 Copynumber: 1.9 Consensus size: 329
55500246 GAAATGATAG
* *
55500256 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
*
55500321 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
* *
55500386 ATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
131 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG-ATATATATGTAATAAGGC
*
55500451 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATG
195 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
55500516 AATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
260 AATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
55500581 TGTGA
325 TGTGA
55500586 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
55500651 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
*
55500716 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTAATAAGGCC
131 ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTAATAAGGCC
*
55500780 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
196 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
*
55500845 ATGTGAAAGTGTATATATGTGA
261 ATGTGAAAGTGTATATGTGTGA
55500867 CGGGGCCGAG
Statistics
Matches: 272, Mismatches: 9, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
328 101 0.37
330 171 0.63
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.30
Consensus pattern (329 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGCCGATGTGATGAATGTGAAAGTGT
ATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGATATATATGTAATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGA
ATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGA
Found at i:55500910 original size:25 final size:24
Alignment explanation
Indices: 55500882--55500938 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 24
55500872 CCGAGTGGCC
55500882 AACGTGATGGATGTGAAAGTGCATA
1 AACGTGATGGATGTGAAAGTGCA-A
55500907 AACGTGATGGATGTGAAAGTGCAA
1 AACGTGATGGATGTGAAAGTGCAA
*
55500931 AATGTGAT
1 AACGTGAT
55500939 AAGTCCGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
24 8 0.26
25 23 0.74
ACGTcount: A:0.37, C:0.07, G:0.32, T:0.25
Consensus pattern (24 bp):
AACGTGATGGATGTGAAAGTGCAA
Found at i:55501114 original size:37 final size:37
Alignment explanation
Indices: 55501058--55501136 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
55501048 CCGAGCTCTA
* *
55501058 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
55501095 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55501132 AAGAC
1 AAGAC
55501137 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55503069 original size:43 final size:43
Alignment explanation
Indices: 55503000--55503189 Score: 362
Period size: 43 Copynumber: 4.4 Consensus size: 43
55502990 TTGGTTTTCA
55503000 GCACTAAGTGTGCGGGCAATAAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAT-AAGTGTTCACGGTTGTGAGATTG
55503044 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
55503087 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
55503130 GCACTAAGTGTGCGGGTAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
55503173 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
55503190 TTGAAATGCA
Statistics
Matches: 144, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
43 124 0.86
44 20 0.14
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:55503206 original size:29 final size:29
Alignment explanation
Indices: 55503171--55503244 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
55503161 GTTGTGAGAT
* *
55503171 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
55503200 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
55503229 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
55503245 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:55503749 original size:23 final size:23
Alignment explanation
Indices: 55503683--55503749 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
55503673 ATGTATCCGG
55503683 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
* * **
55503706 GCT-AG--CCG-A-TGTA-TCGG
1 GCTAAGTCCCGAAGAGCATTCAT
55503723 GCTAAGTCCCGAAGAGCATTCAT
1 GCTAAGTCCCGAAGAGCATTCAT
55503746 GCTA
1 GCTA
55503750 GCGATGTATC
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 5 0.17
18 4 0.13
19 1 0.03
20 6 0.20
21 1 0.03
22 4 0.13
23 9 0.30
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (23 bp):
GCTAAGTCCCGAAGAGCATTCAT
Found at i:55503797 original size:41 final size:40
Alignment explanation
Indices: 55503638--55503871 Score: 337
Period size: 40 Copynumber: 5.8 Consensus size: 40
55503628 GAGTTACTAA
55503638 ATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
*
55503677 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGCCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAG-TGATGT
*
55503718 AT-CGGGCTAAGTCCCGAAGAGCATTCATGCTAGCGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
55503757 ATCCGGGCTAAGTCCCGAAGAGCAATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGC-ATTCATGCTAGTGATGT
* * *
55503798 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * *
55503838 AATCCGTGCTAAATCTCGAAGAGCAATCAATGCT
1 -ATCCGGGCTAAGTCCCGAAGAGCATTC-ATGCT
55503872 GGTGGACGTG
Statistics
Matches: 178, Mismatches: 11, Indels: 9
0.90 0.06 0.05
Matches are distributed among these distances:
39 21 0.12
40 86 0.48
41 67 0.38
42 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:55507211 original size:47 final size:47
Alignment explanation
Indices: 55507142--55507659 Score: 862
Period size: 47 Copynumber: 11.1 Consensus size: 47
55507132 GAAATGACAG
55507142 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55507189 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
55507234 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55507281 TAA-GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55507327 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55507374 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55507421 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
55507468 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55507515 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55507562 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
55507609 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
55507656 TAAG
1 TAAG
55507660 TCCCGAAGGG
Statistics
Matches: 449, Mismatches: 19, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
45 44 0.10
46 45 0.10
47 360 0.80
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:55507832 original size:37 final size:37
Alignment explanation
Indices: 55507776--55507854 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
55507766 CCGAGCTCTA
* *
55507776 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
55507813 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55507850 AAGAC
1 AAGAC
55507855 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55511841 original size:47 final size:47
Alignment explanation
Indices: 55511717--55511871 Score: 231
Period size: 47 Copynumber: 3.3 Consensus size: 47
55511707 CCCTTCGGGA
* * * * * *
55511717 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
55511764 CCTGTCACATATATA-ACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55511810 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
55511857 CTTATCACATATATA
1 CTTATCACATATATA
55511872 TATACACTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 39 0.40
47 58 0.60
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:55524815 original size:40 final size:40
Alignment explanation
Indices: 55524714--55524970 Score: 292
Period size: 40 Copynumber: 6.5 Consensus size: 40
55524704 AGATTGATAA
* **
55524714 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
* * *
55524754 TCGGGCTAAG-CCCGAAGGCATTTATGCGAGTTACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
55524793 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
55524833 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
55524873 CCGGGCTAAGTCCCGAAGGCATTTGTCCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * * *
55524913 CCGGGCTATGTCTCGAAGGTATTCGAGTGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
55524953 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
55524971 TACTTGGCTT
Statistics
Matches: 189, Mismatches: 23, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 46 0.24
40 142 0.75
41 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:55524930 original size:120 final size:119
Alignment explanation
Indices: 55524716--55524931 Score: 333
Period size: 119 Copynumber: 1.8 Consensus size: 119
55524706 ATTGATAACC
* * * *
55524716 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAATTTCGGGCTAAGCCCGAAGGCATTTATGC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTATCC
55524781 GAGTTACCATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCT
66 GAGTTACCATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCT
* * *
55524835 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCCGGGCTAAGTCCCGAAGGCATTTGTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAG-CCCGAAGGCATTTATC
* * *
55524900 CGAGTTACTATATCCGGGCTATGTCTCGAAGG
65 CGAGTTACCATATCCGGGCTAAGTCCCGAAGG
55524932 TATTCGAGTG
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
119 43 0.50
120 43 0.50
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (119 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGCCCGAAGGCATTTATCC
GAGTTACCATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAGTTCT
Found at i:55529655 original size:16 final size:17
Alignment explanation
Indices: 55529626--55529658 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
55529616 TTGCTGGGGA
55529626 CCTTGGCTTCGGTTTTT
1 CCTTGGCTTCGGTTTTT
*
55529643 CCTT-GCTTTGGTTTTT
1 CCTTGGCTTCGGTTTTT
55529659 TTTTCTCTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.00, C:0.21, G:0.21, T:0.58
Consensus pattern (17 bp):
CCTTGGCTTCGGTTTTT
Found at i:55531059 original size:27 final size:27
Alignment explanation
Indices: 55531029--55531089 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
55531019 CCCAAAATAT
*
55531029 GTAAAATGATCGTAATACCCCTGTAGG
1 GTAAAATGACCGTAATACCCCTGTAGG
*
55531056 GTAAAATGACCGTAATACCCCTGTATG
1 GTAAAATGACCGTAATACCCCTGTAGG
55531083 GTAAAAT
1 GTAAAAT
55531090 AACGATTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (27 bp):
GTAAAATGACCGTAATACCCCTGTAGG
Found at i:55543101 original size:48 final size:48
Alignment explanation
Indices: 55543048--55543280 Score: 385
Period size: 48 Copynumber: 4.8 Consensus size: 48
55543038 CAAGATAAAT
* *
55543048 ATATATATGTGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
55543096 ATATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATA--TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
55543146 ACATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
55543194 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* * *
55543242 ACATGTATATGTGGTAAATCCGAATGGCTAATGTGAAAT
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAAT
55543281 GTAACACCCC
Statistics
Matches: 174, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
48 130 0.75
50 44 0.25
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:55544772 original size:38 final size:40
Alignment explanation
Indices: 55544656--55544839 Score: 216
Period size: 40 Copynumber: 4.7 Consensus size: 40
55544646 GCTACTCGTT
*
55544656 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
55544696 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
55544736 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
55544774 CAAATGCCTTC-GGATCTTAGTCTGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
55544815 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55544840 CATCATTCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
38 35 0.28
39 2 0.02
40 74 0.60
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:55544823 original size:78 final size:80
Alignment explanation
Indices: 55544656--55544839 Score: 216
Period size: 78 Copynumber: 2.3 Consensus size: 80
55544646 GCTACTCGTT
* *
55544656 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
55544720 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
* ** *
55544736 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCTG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
55544798 GATATGGTCACTTAGCA
65 GATATAGTAAC-TAGCA
55544815 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
55544840 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 3 0.03
78 51 0.57
79 13 0.15
80 22 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTAGCA
Found at i:55558583 original size:56 final size:56
Alignment explanation
Indices: 55558518--55558693 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
55558508 ACAAGGGATG
*
55558518 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55558574 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55558630 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
55558686 ATGGGCAA
1 ATGGGCAA
55558694 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:55560015 original size:79 final size:79
Alignment explanation
Indices: 55559823--55560046 Score: 283
Period size: 79 Copynumber: 2.8 Consensus size: 79
55559813 TTGAATGATG
* * * * *
55559823 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGCTAAG-TCCGAAGGCATT
*
55559887 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAA
* * *
55559903 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
*
55559967 TGCGAGTTACTAAA
66 TGCGAGATACTAAA
* *
55559981 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCC-GAAGGCATT
55560045 TG
64 TG
55560047 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
78 35 0.28
79 61 0.49
80 29 0.23
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCGAAGGCATTTG
TGCGAGATACTAAA
Found at i:55560053 original size:40 final size:40
Alignment explanation
Indices: 55559823--55560046 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
55559813 TTGAATGATG
* * * *
55559823 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
55559863 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55559903 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55559942 TCCGGGTTAAGTCCC-AAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
55559981 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
55560022 -CCGGGCTATGTCCTGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
55560047 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 12
0.85 0.08 0.06
Matches are distributed among these distances:
39 72 0.44
40 80 0.49
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:55560077 original size:79 final size:79
Alignment explanation
Indices: 55559862--55560079 Score: 219
Period size: 79 Copynumber: 2.8 Consensus size: 79
55559852 AAGTGACCAT
* * ** * * * *
55559862 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGCCCGAAGGCATT
1 ATCCGGGCTAAG-TCCCAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATT
55559926 GGTGCGAGTTACTAA
65 GGTGCGAGTTACTAA
* ** * *
55559941 ATCCGGGTTAAGTCCCAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 ATCCGGGCTAAGTCCCAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTG
55560006 GTGCGAGTTACTATA
66 GTGCGAGTTACTA-A
* * * *
55560021 A-CCGGGCTATGTCCTGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCC-CAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAATCCCGAAGG
55560080 TACGTGATTT
Statistics
Matches: 118, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
78 32 0.27
79 63 0.53
80 23 0.19
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
ATCCGGGCTAAGTCCCAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATCCCGAAGGCATTG
GTGCGAGTTACTAA
Found at i:55562982 original size:27 final size:27
Alignment explanation
Indices: 55562952--55563148 Score: 259
Period size: 27 Copynumber: 7.3 Consensus size: 27
55562942 GCAAAATGGA
* * **
55562952 AATTTTACCCTACAAGGGTATCTCATT
1 AATTCTACCCTACAAGGGTATTTCGGT
55562979 AATTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
55563006 ATTTCTACCCTACAAGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
55563033 AATTCTATCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* **
55563060 AATTCTACCCTACAGGGGTATTTCAAT
1 AATTCTACCCTACAAGGGTATTTCGGT
*
55563087 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * * *
55563114 AATTCTACCTTATAGGGGTATTTTGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
55563141 AATTCTAC
1 AATTCTAC
55563149 AACTTATCCA
Statistics
Matches: 154, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 154 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:55565486 original size:24 final size:24
Alignment explanation
Indices: 55565403--55565539 Score: 89
Period size: 24 Copynumber: 5.6 Consensus size: 24
55565393 AAGAAATTTC
* * *
55565403 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTACGT
* * *
55565427 AGCACTATGTGTGCAAAAACTACGT
1 AGCACTATGTGTGC-GAGATTACGT
* * *
55565452 GGCACTCTGTGTGCGAGATTACAT
1 AGCACTATGTGTGCGAGATTACGT
* *
55565476 AGCACTATGTGTGTGAGGA-AACGT
1 AGCACTATGTGTGCGA-GATTACGT
* * * *
55565500 GGCACTATGTGTGCAAATGAATAAG-
1 AGCACTATGTGTGC-GA-GATTACGT
55565525 AGCACTATGTGTGCG
1 AGCACTATGTGTGCG
55565540 GACCTTTAAA
Statistics
Matches: 84, Mismatches: 25, Indels: 8
0.72 0.21 0.07
Matches are distributed among these distances:
24 48 0.57
25 34 0.40
26 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTACGT
Found at i:55568674 original size:27 final size:26
Alignment explanation
Indices: 55568657--55568726 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 26
55568647 ATATTAAGTC
55568657 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATAT-ATCAACT
*
55568684 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATAT-ATC-AACT
*
55568712 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
55568727 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (26 bp):
CGCACACTCAGTGCTATATATCAACT
Found at i:55568720 original size:28 final size:28
Alignment explanation
Indices: 55568657--55568754 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
55568647 ATATTAAGTC
*
55568657 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
55568684 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
55568712 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55568741 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55568755 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55576376 original size:24 final size:24
Alignment explanation
Indices: 55576294--55576379 Score: 91
Period size: 24 Copynumber: 3.5 Consensus size: 24
55576284 AAGAAATTTC
* * *
55576294 AGCACTATGTGTGCGAGGTTATGC
1 AGCACTATGTGTGCGAGATTACGT
* * *
55576318 AGCACTATGTGTGCAAAAACTACGT
1 AGCACTATGTGTGC-GAGATTACGT
* *
55576343 GGCACTATGTGTGCGAGATTACAT
1 AGCACTATGTGTGCGAGATTACGT
55576367 AGCACTATGTGTG
1 AGCACTATGTGTG
55576380 TGAGGAAATG
Statistics
Matches: 49, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
24 32 0.65
25 17 0.35
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (24 bp):
AGCACTATGTGTGCGAGATTACGT
Found at i:55580586 original size:28 final size:28
Alignment explanation
Indices: 55580554--55580681 Score: 175
Period size: 29 Copynumber: 4.5 Consensus size: 28
55580544 ATAGTAAGTC
*
55580554 CGCACACTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
*
55580582 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGC-TATATAATCAAACT
55580611 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* ** * *
55580639 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
55580668 CGCACACTTAGTGC
1 CGCACACTTAGTGC
55580682 CAATCTCATG
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 44 0.49
29 45 0.51
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:55580644 original size:57 final size:57
Alignment explanation
Indices: 55580553--55580681 Score: 188
Period size: 57 Copynumber: 2.3 Consensus size: 57
55580543 TATAGTAAGT
*
55580553 CCGCACACTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
55580610 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
55580667 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
55580682 CAATCTCATG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:55585373 original size:27 final size:26
Alignment explanation
Indices: 55585326--55585379 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
55585316 TCACACAAGT
*
55585326 TAGTCATTTACACACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGAAAAA
* *
55585352 TAGTCATTTAACACCCTAGGGGAAAAA
1 TAGTCATTT-ACACACGAGGGGAAAAA
55585379 T
1 T
55585380 GGAAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGAAAAA
Found at i:55585413 original size:27 final size:27
Alignment explanation
Indices: 55585383--55585552 Score: 198
Period size: 27 Copynumber: 6.3 Consensus size: 27
55585373 GAAAAATGGA
* * *
55585383 AATTTTACCCCACAAGGGTATCTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* *
55585410 AATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
* * *
55585437 ATTTCTACCCTACAAGGGTATTTCAGC
1 AATTCTACCCTACAAGGGTATTTCGGT
* * *
55585464 AATTCTATCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCGGT
**
55585491 AATTCTACCCTAC-AGCGGTATTTCAAT
1 AATTCTACCCTACAAG-GGTATTTCGGT
*
55585518 AATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCGGT
55585545 AATTCTAC
1 AATTCTAC
55585553 AACTTACCCA
Statistics
Matches: 119, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 117 0.98
28 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (27 bp):
AATTCTACCCTACAAGGGTATTTCGGT
Found at i:55585446 original size:54 final size:54
Alignment explanation
Indices: 55585383--55585552 Score: 234
Period size: 54 Copynumber: 3.1 Consensus size: 54
55585373 GAAAAATGGA
* * * * *
55585383 AATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
* * * *
55585437 ATTTCTACCCTACAAGGGTATTTCAGCAATTCTATCCTACAGGGGTATTTCGAT
1 AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
*
55585491 AATTCTACCCTAC-AGCGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGGT
1 AATTCTACCCTACAAG-GGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
55585545 AATTCTAC
1 AATTCTAC
55585553 AACTTACCCA
Statistics
Matches: 101, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 2 0.02
54 99 0.98
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (54 bp):
AATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGT
Found at i:55585501 original size:81 final size:81
Alignment explanation
Indices: 55585398--55585551 Score: 218
Period size: 81 Copynumber: 1.9 Consensus size: 81
55585388 TACCCCACAA
* * * ** *
55585398 GGGTATCTCGGTAATTCTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCAG
1 GGGTATCTCGATAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAG
55585463 CAATTCTATCCTACAG
66 CAATTCTATCCTACAG
* * *
55585479 GGGTATTTCGATAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATCTCGATAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAG
*
55585544 TAATTCTA
66 CAATTCTA
55585552 CAACTTACCC
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 63 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (81 bp):
GGGTATCTCGATAATTCTACCCTACAGCGGTATTTCAATAATTCTACCCTACAAGGGTATTTCAG
CAATTCTATCCTACAG
Found at i:55589760 original size:39 final size:39
Alignment explanation
Indices: 55589716--55589833 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
55589706 AATTATATTA
*
55589716 CCAGCACAAAGCCTGCGGGACTTTAGCTCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* **
55589755 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATAC
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
55589794 CCAGCACAAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
55589833 C
1 C
55589834 TAGTGTCTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.26, C:0.31, G:0.23, T:0.19
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:55599510 original size:47 final size:47
Alignment explanation
Indices: 55599410--55599786 Score: 583
Period size: 47 Copynumber: 7.9 Consensus size: 47
55599400 TAGTATCGCG
*
55599410 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
55599459 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55599506 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
55599553 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
55599600 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* * *
55599649 TGATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGTC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * *
55599696 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
55599743 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
55599787 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
47 230 0.76
49 73 0.24
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:55599673 original size:143 final size:142
Alignment explanation
Indices: 55599410--55599786 Score: 582
Period size: 143 Copynumber: 2.6 Consensus size: 142
55599400 TAGTATCGCG
55599410 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAAT-GCCGATGTGATGAATGTGAAAGTGTATATATA--TGATAGGGCCTAATGGCCGATGTGAT
*
55599475 GAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTAT
63 GAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTAT
55599538 ATATGTGATAAGGCC
128 ATATGTGATAAGGCC
*
55599553 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCCTAATGGCCGATGTGATGA
1 TAAT-GCCGATGTGATGAATGTGAAAGTGTATATATATGATAGGGCCTAATGGCCGATGTGATGA
*
55599618 ATGTGAAAGTGTATATATATGTGATAAGGCCTGATAGCCGATGTGATGAATGTGAAAGTGTATAT
65 ATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATAT
*
55599683 ATGTGATAAGGTC
130 ATGTGATAAGGCC
* * * * * * *
55599696 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATG-CCGATGTGATGAATGTGAAAGTGTATATATATGATAGGGCCTAATGGCCGATGTGATGA
55599761 ATGTGAAAGTGTATA-A-ATGTGATAAG
65 ATGTGAAAGTGTATATATATGTGATAAG
55599787 TCCCGAAGGG
Statistics
Matches: 218, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
141 48 0.22
142 2 0.01
143 168 0.77
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (142 bp):
TAATGCCGATGTGATGAATGTGAAAGTGTATATATATGATAGGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCC
Found at i:55599733 original size:190 final size:190
Alignment explanation
Indices: 55599410--55599786 Score: 619
Period size: 190 Copynumber: 2.0 Consensus size: 190
55599400 TAGTATCGCG
* *
55599410 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
55599475 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
55599540 ATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATATGATAAGGCC
131 ATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATAAATATGATAAGGCC
*
55599600 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTGATAGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
*
55599665 GAATGTGAAAGTGTATATATGTGATAAGGTCTAATGACCGATGTGATGAATGTGAAAGTGTATAT
66 GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATAT
* * * * *
55599730 ATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
131 ATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATAAATATGATAAG
55599787 TCCCGAAGGG
Statistics
Matches: 172, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
190 172 1.00
ACGTcount: A:0.33, C:0.08, G:0.30, T:0.29
Consensus pattern (190 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGAT
GAATGTGAAAGTGTATATATGTGATAAGGCCTAATGACCGATGTGATGAATGTGAAAGTGTATAT
ATGTGACAAGGCCGAATAGCCAACGTGATGAATGTGAAAGTGTATAAATATGATAAGGCC
Found at i:55599961 original size:37 final size:37
Alignment explanation
Indices: 55599905--55599983 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
55599895 CCGAGCTCTA
* *
55599905 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
55599942 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
55599979 AAGAC
1 AAGAC
55599984 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:55602065 original size:10 final size:10
Alignment explanation
Indices: 55602037--55602095 Score: 66
Period size: 10 Copynumber: 5.9 Consensus size: 10
55602027 AATTTTAGCT
*
55602037 TTTATCTTCA
1 TTTATCTTTA
55602047 TTTATCTTTA
1 TTTATCTTTA
*
55602057 ATTATCTTTA
1 TTTATCTTTA
* *
55602067 ATTATATTTA
1 TTTATCTTTA
55602077 TTTAT-TTGTA
1 TTTATCTT-TA
55602087 TTTATCTTT
1 TTTATCTTT
55602096 TACAATTTAA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.66
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:55605875 original size:15 final size:16
Alignment explanation
Indices: 55605855--55605894 Score: 64
Period size: 15 Copynumber: 2.5 Consensus size: 16
55605845 CCCAATTTTG
55605855 TTTTATTTATATAT-T
1 TTTTATTTATATATAT
55605870 TTTTATTTATATATAT
1 TTTTATTTATATATAT
55605886 TTTCTATTT
1 TTT-TATTT
55605895 TCTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.61
16 4 0.17
17 5 0.22
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTATTTATATATAT
Found at i:55606860 original size:100 final size:100
Alignment explanation
Indices: 55606698--55606877 Score: 272
Period size: 100 Copynumber: 1.8 Consensus size: 100
55606688 TGTTGGACTG
* * * * *
55606698 AGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGTTTCGACATGTTCTTAA
1 AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAACATATTCTTAA
*
55606763 G-AAAAATATAAAAAAATTAGGAGTATGCTGGGCCA
66 GCAAAAA-AGAAAAAAATTAGGAGTATGCTGGGCCA
* *
55606798 AGTAACCAGGGTGGGGTGTTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAATATATTCTTAA
1 AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAACATATTCTTAA
55606863 GCAAAAAAGAAAAAA
66 GCAAAAAAGAAAAAA
55606878 GAGAAAAAAA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
100 66 0.93
101 5 0.07
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (100 bp):
AGTAACCAGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCAACATATTCTTAA
GCAAAAAAGAAAAAAATTAGGAGTATGCTGGGCCA
Found at i:55606904 original size:11 final size:10
Alignment explanation
Indices: 55606865--55606914 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
55606855 ATTCTTAAGC
55606865 AAAAAAG-AA
1 AAAAAAGAAA
*
55606874 AAAAGAGAAA
1 AAAAAAGAAA
55606884 AAAACAA-AAA
1 AAAA-AAGAAA
*
55606894 GAAAAAGAAA
1 AAAAAAGAAA
55606904 AACAAAAGAAA
1 AA-AAAAGAAA
55606915 TGCATTAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 8 0.24
10 16 0.48
11 9 0.27
ACGTcount: A:0.84, C:0.04, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:55606910 original size:23 final size:23
Alignment explanation
Indices: 55606866--55606910 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
55606856 TTCTTAAGCA
*
55606866 AAAAAGAAAAAAGAGAAAAAAAC
1 AAAAAGAAAAAAGAAAAAAAAAC
55606889 AAAAAG-AAAAAGAAAAACAAAA
1 AAAAAGAAAAAAGAAAAA-AAAA
55606911 GAAATGCATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.84, C:0.04, G:0.11, T:0.00
Consensus pattern (23 bp):
AAAAAGAAAAAAGAAAAAAAAAC
Found at i:55607562 original size:10 final size:10
Alignment explanation
Indices: 55607538--55607596 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
55607528 AATTTTAGCT
*
55607538 TTTATCTTCA
1 TTTATCTTTA
55607548 TTTATCTTTA
1 TTTATCTTTA
* *
55607558 ATTATATTTA
1 TTTATCTTTA
* *
55607568 ATCATCTTTA
1 TTTATCTTTA
55607578 TTTAT-TTGTA
1 TTTATCTT-TA
55607588 TTTATCTTT
1 TTTATCTTT
55607597 TAAAATTTAA
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
9 2 0.05
10 36 0.90
11 2 0.05
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTATCTTTA
Found at i:55609590 original size:3 final size:3
Alignment explanation
Indices: 55609577--55609613 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
55609567 TTCCATTTCC
55609577 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
55609614 AAGTAAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:55612331 original size:23 final size:22
Alignment explanation
Indices: 55612288--55612331 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
55612278 AAATAAAATC
*
55612288 TAATCCCTATAAACCTGCTATG
1 TAATCCCTATAAACCTACTATG
* *
55612310 TAATCTCCTCTAAATCTACTAT
1 TAATC-CCTATAAACCTACTAT
55612332 ACAAATATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (22 bp):
TAATCCCTATAAACCTACTATG
Found at i:55614426 original size:33 final size:33
Alignment explanation
Indices: 55614382--55614449 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
55614372 TGATACATGT
*
55614382 CCTATATCAGTGTCTTCATCA-TTAGATCCAACC
1 CCTATACCAGTGTCTTCATCATTTA-ATCCAACC
*
55614415 CCTATACCAGTGTCTTCGTCATTTAATCCAACC
1 CCTATACCAGTGTCTTCATCATTTAATCCAACC
55614448 CC
1 CC
55614450 AATTAACCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 29 0.91
34 3 0.09
ACGTcount: A:0.25, C:0.34, G:0.09, T:0.32
Consensus pattern (33 bp):
CCTATACCAGTGTCTTCATCATTTAATCCAACC
Found at i:55616763 original size:19 final size:19
Alignment explanation
Indices: 55616739--55616779 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
55616729 TATTTTAAAG
55616739 TTATTT-AGATAGATAAATC
1 TTATTTAAG-TAGATAAATC
55616758 TTATTTAAGTAGATAAATC
1 TTATTTAAGTAGATAAATC
55616777 TTA
1 TTA
55616780 GAATAAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (19 bp):
TTATTTAAGTAGATAAATC
Done.