Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 14 of 136
Found at i:4371192 original size:27 final size:27
Alignment explanation
Indices: 4371135--4371242 Score: 88
Period size: 27 Copynumber: 4.3 Consensus size: 27
4371125 TTTAACAATT
* * * *
4371135 AATATACTATTATAAATATATT-TTTTT
1 AATATACTGTT-TTAATATATTGTTATA
*
4371162 AATATATTGTTTTAATATATTGTTATA
1 AATATACTGTTTTAATATATTGTTATA
*
4371189 AATATACTGTTTTAATATAATGTT-T-
1 AATATACTGTTTTAATATATTGTTATA
*
4371214 --TA-AC--TTTTAATATACTGTTATA
1 AATATACTGTTTTAATATATTGTTATA
4371236 AATATAC
1 AATATAC
4371243 ATTTAATTTG
Statistics
Matches: 67, Mismatches: 8, Indels: 14
0.75 0.09 0.16
Matches are distributed among these distances:
20 14 0.21
21 1 0.01
22 2 0.03
23 2 0.03
24 2 0.03
25 2 0.03
26 10 0.15
27 34 0.51
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (27 bp):
AATATACTGTTTTAATATATTGTTATA
Found at i:4371212 original size:13 final size:13
Alignment explanation
Indices: 4371149--4371216 Score: 91
Period size: 13 Copynumber: 5.2 Consensus size: 13
4371139 TACTATTATA
*
4371149 AATATATTTTTTT
1 AATATATTGTTTT
4371162 AATATATTGTTTT
1 AATATATTGTTTT
*
4371175 AATATATTGTTATA
1 AATATATTGTT-TT
*
4371189 AATATACTGTTTT
1 AATATATTGTTTT
*
4371202 AATATAATGTTTT
1 AATATATTGTTTT
4371215 AA
1 AA
4371217 CTTTTAATAT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
13 38 0.78
14 11 0.22
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (13 bp):
AATATATTGTTTT
Found at i:4371869 original size:137 final size:138
Alignment explanation
Indices: 4371612--4371890 Score: 524
Period size: 137 Copynumber: 2.0 Consensus size: 138
4371602 GTATGAAAGT
*
4371612 TCTCTCAAACGTCAAAAGTCTACCACTTCAAAGGTGTGGGATGAAATGACAAAGCTTGAATGCGA
1 TCTCTCAAACATCAAAAGTCTACCACTTCAAAGGTGTGGGATGAAATGACAAAGCTTGAATGCGA
*
4371677 GAACAAAAATGAATTGAAGGCACAATGTAATCACTGTAAGACTATCTTCTCTGCTAAATCTTCTA
66 GAACAAAAATGAATTGAAGGCACAATGTAATCACTGGAAGACTATCTTCTCTGCTAAATCTTCTA
4371742 GTGGAACC
131 GTGGAACC
*
4371750 TCTCT-AAACATCAAAAGTCTACCACTTCAAAGGTGTGGGATGAAATGACAAAGCTTGAATGTGA
1 TCTCTCAAACATCAAAAGTCTACCACTTCAAAGGTGTGGGATGAAATGACAAAGCTTGAATGCGA
4371814 GAACAAAAATGAATTGAAGGCACAATGTAATCACTGGAAGACTATCTTCTCTGCTAAATCTTCTA
66 GAACAAAAATGAATTGAAGGCACAATGTAATCACTGGAAGACTATCTTCTCTGCTAAATCTTCTA
4371879 GTGGAACC
131 GTGGAACC
4371887 TCTC
1 TCTC
4371891 ATTTAAGGCG
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
137 133 0.96
138 5 0.04
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (138 bp):
TCTCTCAAACATCAAAAGTCTACCACTTCAAAGGTGTGGGATGAAATGACAAAGCTTGAATGCGA
GAACAAAAATGAATTGAAGGCACAATGTAATCACTGGAAGACTATCTTCTCTGCTAAATCTTCTA
GTGGAACC
Found at i:4373565 original size:9 final size:9
Alignment explanation
Indices: 4373551--4373585 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4373541 TTGCAAAAAG
4373551 GACGATGAC
1 GACGATGAC
*
4373560 GACGATGAG
1 GACGATGAC
4373569 GACGATGAC
1 GACGATGAC
*
4373578 GATGATGA
1 GACGATGA
4373586 TGTTTCTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.37, T:0.14
Consensus pattern (9 bp):
GACGATGAC
Found at i:4373572 original size:18 final size:18
Alignment explanation
Indices: 4373549--4373585 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
4373539 GGTTGCAAAA
4373549 AGGACGATGACGACGATG
1 AGGACGATGACGACGATG
*
4373567 AGGACGATGACGATGATG
1 AGGACGATGACGACGATG
4373585 A
1 A
4373586 TGTTTCTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.14, G:0.38, T:0.14
Consensus pattern (18 bp):
AGGACGATGACGACGATG
Found at i:4373827 original size:30 final size:30
Alignment explanation
Indices: 4373791--4373849 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
4373781 AAAGATAGTT
* * *
4373791 TGAAGCAAAATTAGATATTGGGATTTTCAC
1 TGAAGCAAAATTACAGATTGGAATTTTCAC
4373821 TGAAGCAAAATTACAGATTGGAATTTTCA
1 TGAAGCAAAATTACAGATTGGAATTTTCA
4373850 ATGCTTGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (30 bp):
TGAAGCAAAATTACAGATTGGAATTTTCAC
Found at i:4378480 original size:25 final size:25
Alignment explanation
Indices: 4378435--4378527 Score: 87
Period size: 25 Copynumber: 3.6 Consensus size: 25
4378425 CTATACATAT
* * *
4378435 ATGCTCACATGAGTTGTAAATCAGA
1 ATGCTCACACGAGCTGAAAATCAGA
* *
4378460 ATGCTCACACGAGCTGCAAATCATA
1 ATGCTCACACGAGCTGAAAATCAGA
* ** *
4378485 ATGCTCACATGAGCTGTGAAAATGGGC
1 ATGCTCACACGAGC--TGAAAATCAGA
4378512 ATGCTCACACGAGCTG
1 ATGCTCACACGAGCTG
4378528 TGGGTCGAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
25 36 0.65
27 19 0.35
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
ATGCTCACACGAGCTGAAAATCAGA
Found at i:4378524 original size:52 final size:51
Alignment explanation
Indices: 4378430--4378527 Score: 135
Period size: 52 Copynumber: 1.9 Consensus size: 51
4378420 AATTCCTATA
*
4378430 CATATATGCTCACATGAGTTGTAAATCAGAATGCTCACACGAGCTGCAAAT
1 CATATATGCTCACATGAGTTGAAAATCAGAATGCTCACACGAGCTGCAAAT
** *
4378481 CATA-ATGCTCACATGAGCTGTGAAAATGGGCATGCTCACACGAGCTG
1 CATATATGCTCACATGAG-T-TGAAAATCAGAATGCTCACACGAGCTG
4378528 TGGGTCGAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
50 13 0.32
51 5 0.12
52 23 0.56
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (51 bp):
CATATATGCTCACATGAGTTGAAAATCAGAATGCTCACACGAGCTGCAAAT
Found at i:4380495 original size:6 final size:6
Alignment explanation
Indices: 4380484--4380510 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
4380474 CTGGTTTCAG
4380484 CCGCCA CCGCCA CCGCCA CCGCCA CCG
1 CCGCCA CCGCCA CCGCCA CCGCCA CCG
4380511 GCGACGCCCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.67, G:0.19, T:0.00
Consensus pattern (6 bp):
CCGCCA
Found at i:4380876 original size:14 final size:15
Alignment explanation
Indices: 4380857--4380892 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
4380847 ACCCAAATAC
*
4380857 AGCCCAAAAC-CCGA
1 AGCCCAAAACACCCA
4380871 AGCCCAAAACACCCA
1 AGCCCAAAACACCCA
4380886 AGCCCAA
1 AGCCCAA
4380893 TTTCATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.44, C:0.44, G:0.11, T:0.00
Consensus pattern (15 bp):
AGCCCAAAACACCCA
Found at i:4380940 original size:82 final size:81
Alignment explanation
Indices: 4380845--4381004 Score: 311
Period size: 82 Copynumber: 2.0 Consensus size: 81
4380835 AACCTAAAAC
4380845 TAACCCAAATACAGCCCAAAACCCGAAGCCCAAAACACCCAAGCCCAATTTCATAAAAAAAATCT
1 TAACCCAAATACAGCCCAAAACCCGAAGCCCAAAACACCCAAGCCCAATTTCAT-AAAAAAATCT
4380910 GCCTAGGGTTTCAGTCT
65 GCCTAGGGTTTCAGTCT
4380927 TAACCCAAATACAGCCCAAAACCCGAAGCCCAAAACACCCAAGCCCAATTTCATAAAAAAATCTG
1 TAACCCAAATACAGCCCAAAACCCGAAGCCCAAAACACCCAAGCCCAATTTCATAAAAAAATCTG
4380992 CCTAGGGTTTCAG
66 CCTAGGGTTTCAG
4381005 AGACTGAAAC
Statistics
Matches: 78, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
81 24 0.31
82 54 0.69
ACGTcount: A:0.41, C:0.32, G:0.11, T:0.16
Consensus pattern (81 bp):
TAACCCAAATACAGCCCAAAACCCGAAGCCCAAAACACCCAAGCCCAATTTCATAAAAAAATCTG
CCTAGGGTTTCAGTCT
Found at i:4380958 original size:14 final size:15
Alignment explanation
Indices: 4380939--4380974 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
4380929 ACCCAAATAC
*
4380939 AGCCCAAAAC-CCGA
1 AGCCCAAAACACCCA
4380953 AGCCCAAAACACCCA
1 AGCCCAAAACACCCA
4380968 AGCCCAA
1 AGCCCAA
4380975 TTTCATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.44, C:0.44, G:0.11, T:0.00
Consensus pattern (15 bp):
AGCCCAAAACACCCA
Found at i:4382147 original size:3 final size:3
Alignment explanation
Indices: 4382078--4382127 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
4382068 TTTTAGTGTC
4382078 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4382126 AT
1 AT
4382128 CATCATTACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:4400818 original size:96 final size:97
Alignment explanation
Indices: 4400654--4401610 Score: 940
Period size: 96 Copynumber: 9.8 Consensus size: 97
4400644 NNNNNNNNNN
* * ** * *
4400654 TCGAAGCCACAACAGCGAATCTTACTTTCAGGCGATGCAGCAAAATAGATTGAAGCTACAATGGC
1 TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
4400719 GAGTCTCACTTCCC-CATTGCAATTTAAAAGA
66 GAGTCTCACTTCCCACATTGCAATTTAAAAGA
* * * *
4400750 TCGAAGCCACAACGGTGAATTTTACTTCCAGGCGATGCAACGGAACAGATTGAAGCTACAACAGC
1 TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
*
4400815 GAGTCTGACTTCCC-CATTGCAATTTAAAAGA
66 GAGTCTCACTTCCCACATTGCAATTTAAAAGA
*
4400846 TCGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
1 TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
4400911 GAGTCTCACTTCCC-CATTGCAATTTAAAAGA
66 GAGTCTCACTTCCCACATTGCAATTTAAAAGA
** * ** * *
4400942 TCGAAGCCACAACAACGAATCTTACTTCCAGGCAATGCAATGAAACAGATTGAAGCTACAACAGC
1 TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
* *
4401007 GAGTCTCACTTCCCCAACATTGC-AGTCAAATAGA
66 GAGTCTCACTT-CCC-ACATTGCAATTTAAA-AGA
* * * * * * * *
4401041 TTGAAGCTACAACAGCGAGTCTCACAT-CATTGGCGATGCAACGGAACAGATTGAAGCTACAACA
1 TCGAAGCCACAACGGCGAATCTTACTTCCA--GGCGATGCAGCGGAACAGATTGAAGCTACAACG
* *
4401105 GCGAGTCTCACTTCCCCAACATTGC-A-GT--CA-A
64 GCGAGTCTCACTT-CCC-ACATTGCAATTTAAAAGA
* * *
4401136 -CGAAGCCACAACGGCGAATCTTACTTTCAGGCGATGCAGCGAAACAGATTGAAGCTACAACGGT
1 TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
*
4401200 GAATCTCACTTCCCCGACATTGCAATTTAAAAGA
66 GAGTCTCACTT-CCC-ACATTGCAATTTAAAAGA
* * * * * * *
4401234 TTGAGGCCACGACGGCGGATCTTACTTACTTA-GCGATGCAGCGAAACAGATTGAAGCTGCAACG
1 TCGAAGCCACAACGGCGAATCTTACTT-C-CAGGCGATGCAGCGGAACAGATTGAAGCTACAACG
* *
4401298 GCGAATCTCACTTCCCCGACATTACAATTTAAAAGA
64 GCGAGTCTCACTT-CCC-ACATTGCAATTTAAAAGA
* * * * * * * *
4401334 TTGAGGCCACGACGGCGGATCTTACTTCCAAGCGAT-CTAGAGGAACAAATTGAAGCTACAATGG
1 TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGC-AGCGGAACAGATTGAAGCTACAACGG
* * *
4401398 CG-GATCTCACTCCCTCGACATTGTAATTTAAAAAA
65 CGAG-TCTCACTTCC-C-ACATTGCAATTTAAAAGA
* * * * * *
4401433 TTGAGGCCACGACGGC-AGATCTTACTTCCAAGCAATGCAGCGGAACAGATTGAAGCTACAATGG
1 TCGAAGCCACAACGGCGA-ATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGG
* *
4401497 CGAATCTCACTCCCCTGACATTGCAA-TTAAAAGA
65 CGAGTCTCACTTCCC--ACATTGCAATTTAAAAGA
* * * * * * * *
4401531 TTGAGGCCACAACGGCAAATCTTA-TTCCTAAGCAGGTACAGTGGAACAGATTGAAGCTACAATG
1 TCGAAGCCACAACGGCGAATCTTACTTCC-AGGC-GATGCAGCGGAACAGATTGAAGCTACAACG
* *
4401595 GCGAATCTCGCTTCCC
64 GCGAGTCTCACTTCCC
4401611 TGACATTTTA
Statistics
Matches: 748, Mismatches: 87, Indels: 49
0.85 0.10 0.06
Matches are distributed among these distances:
93 52 0.07
94 21 0.03
95 4 0.01
96 244 0.33
97 8 0.01
98 45 0.06
99 224 0.30
100 149 0.20
101 1 0.00
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (97 bp):
TCGAAGCCACAACGGCGAATCTTACTTCCAGGCGATGCAGCGGAACAGATTGAAGCTACAACGGC
GAGTCTCACTTCCCACATTGCAATTTAAAAGA
Found at i:4401049 original size:50 final size:50
Alignment explanation
Indices: 4400793--4401135 Score: 214
Period size: 50 Copynumber: 7.0 Consensus size: 50
4400783 GATGCAACGG
* * *
4400793 AACAGATTGAAGCTACAACAGCGAGTCTGACTT-CCC--CATTGCAATTTA
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGC-AGTCA
* * * * * * * *
4400841 AA-AGATCGAAGCCACAACGGCGAATCTTACTT--TCAGGCGA-TGCAG-CGG
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCA-AC-ATTGCAGTC-A
* * *
4400889 AACAGATTGAAGCTACAACGGCGAGTCTCACTT-CCC--CATTGCAATTTA
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGC-AGTCA
* * * * * * * * *
4400937 AA-AGATCGAAGCCACAACAACGAATCTTACTT--CCAGGCAATGCAATGA
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCA-ACATTGCAGTCA
4400985 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGCAGTCA
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGCAGTCA
* * ***** * *
4401035 AATAGATTGAAGCTACAACAGCGAGTCTCACATCATTGGCGA-TGCA-ACGG
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAAC-ATTGCAGTC-A
4401085 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGCAGTCA
1 AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGCAGTCA
4401135 A
1 A
4401136 CGAAGCCACA
Statistics
Matches: 222, Mismatches: 53, Indels: 38
0.71 0.17 0.12
Matches are distributed among these distances:
46 4 0.02
47 53 0.24
48 13 0.06
49 62 0.28
50 85 0.38
51 5 0.02
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.20
Consensus pattern (50 bp):
AACAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGCAGTCA
Found at i:4401335 original size:50 final size:50
Alignment explanation
Indices: 4400700--4401552 Score: 290
Period size: 49 Copynumber: 17.5 Consensus size: 50
4400690 GCAGCAAAAT
* *
4400700 AGATTGAAGCTACAATGGCGAGTCTCACTT-CCC--CATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * * * * * *** *
4400747 AGATCGAAGCCACAACGGTGAATTTTACTT-CCAGGCGA-TGCAACGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTAAA
* * *
4400796 AGATTGAAGCTACAACAGCGAGTCTGACTT-CCC--CATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * * * * **** *
4400843 AGATCGAAGCCACAACGGCGAATCTTACTT-TCAGGCGA-TGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTAAA
*
4400892 AGATTGAAGCTACAACGGCGAGTCTCACTT-CCC--CATTGCAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * ** * * * * *
4400939 AGATCGAAGCCACAACAACGAATCTTACTT-CCAGGCAATGCAA-TGAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * * *
4400987 CAGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGC-AGTCAAA
1 -AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * *** * *** *
4401037 TAGATTGAAGCTACAACAGCGAGTCTCACATCATTGGCGA-TGCAACGGAAC
1 -AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTAAA
* * * * *
4401088 AGATTGAAGCTACAACAGCGAGTCTCACTTCCCCAACATTGC-A-GT--C
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * * * * ***
4401134 A-A-CGAAGCCACAACGGCGAATCTTACTT-TCAGGCGA-TGC-AGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-ATTGCAATTTAAA
*
4401180 CAGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * * * * ** ***
4401231 AGATTGAGGCCACGACGGCGGATCTTACTT-ACTTAGCGA-TGC-AGCGAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGA-C-ATTGCAATTTAAA
* *
4401280 CAGATTGAAGCTGCAACGGCGAATCTCACTTCCCCGACATTACAATTTAAA
1 -AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
* * * * * ** **
4401331 AGATTGAGGCCACGACGGCGGATCTTACTTCCAAG-CGA-T-CTAGA-GGAACA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGAC-ATTGC-A-ATTTAA-A
* * *
4401381 A-ATTGAAGCTACAATGGCGGATCTCAC-TCCCTCGACATTGTAATTTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCC-CGACATTGCAATTTAAA
* * * * * ** * **** *
4401430 AAATTGAGGCCACGACGGC-AGATCTTACTTCCAAG-CAATGCAGCGGAAC
1 AGATTGAAGCTACAACGGCGA-ATCTCACTTCCCCGACATTGCAATTTAAA
*
4401479 AGATTGAAGCTACAATGGCGAATCTCAC-TCCCCTGACATTGCAA-TTAAA
1 AGATTGAAGCTACAACGGCGAATCTCACTTCCCC-GACATTGCAATTTAAA
* * *
4401528 AGATTGAGGCCACAACGGCAAATCT
1 AGATTGAAGCTACAACGGCGAATCT
4401553 TATTCCTAAG
Statistics
Matches: 576, Mismatches: 183, Indels: 92
0.68 0.22 0.11
Matches are distributed among these distances:
43 6 0.01
44 22 0.04
45 1 0.00
46 4 0.01
47 93 0.16
48 13 0.02
49 214 0.37
50 205 0.36
51 18 0.03
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.21
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGCGAATCTCACTTCCCCGACATTGCAATTTAAA
Found at i:4403169 original size:3 final size:3
Alignment explanation
Indices: 4403163--4403225 Score: 90
Period size: 3 Copynumber: 20.7 Consensus size: 3
4403153 TATTATAGTG
* * *
4403163 TTA TTA TTA TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA CTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4403211 TTA TTAA TTA TTA TT
1 TTA TT-A TTA TTA TT
4403226 GGCTTTATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 52 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4406153 original size:1 final size:1
Alignment explanation
Indices: 4406147--4406178 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
4406137 AAGACACCGT
*
4406147 CCCCCCCCCCCCCCCCCCCCCCCCCCTCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
4406179 TCTACGTGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.97, G:0.00, T:0.03
Consensus pattern (1 bp):
C
Found at i:4406881 original size:72 final size:72
Alignment explanation
Indices: 4406795--4406934 Score: 271
Period size: 72 Copynumber: 1.9 Consensus size: 72
4406785 GTTGAAATGG
4406795 TGAAGTTTAAGTCCAAAAAGAAAAGGAAGAAATGGTAAAGTTAAGGCATTGACAACTATGATGTT
1 TGAAGTTTAAGTCCAAAAAGAAAAGGAAGAAATGGTAAAGTTAAGGCATTGACAACTATGATGTT
4406860 TTAGGAT
66 TTAGGAT
*
4406867 TGAAGTTTAAGTCCAAAAAGAAAAGGAAGAAATGGTAAAGTTAAGGCATTGACAACTATGGTGTT
1 TGAAGTTTAAGTCCAAAAAGAAAAGGAAGAAATGGTAAAGTTAAGGCATTGACAACTATGATGTT
4406932 TTA
66 TTA
4406935 AGAAAAGGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 67 1.00
ACGTcount: A:0.43, C:0.07, G:0.24, T:0.26
Consensus pattern (72 bp):
TGAAGTTTAAGTCCAAAAAGAAAAGGAAGAAATGGTAAAGTTAAGGCATTGACAACTATGATGTT
TTAGGAT
Found at i:4406943 original size:50 final size:50
Alignment explanation
Indices: 4406884--4406984 Score: 166
Period size: 50 Copynumber: 2.0 Consensus size: 50
4406874 TAAGTCCAAA
* * *
4406884 AAGAAAAGGAAGAAATGGTAAAGTTAAGGCATTGACAACTATGGTGTTTT
1 AAGAAAAGGAAGAAATGATAAAGTTAAGGCATAGACAACTATGATGTTTT
*
4406934 AAGAAAAGGAAGAACTGATAAAGTTAAGGCATAGACAACTATGATGTTTT
1 AAGAAAAGGAAGAAATGATAAAGTTAAGGCATAGACAACTATGATGTTTT
4406984 A
1 A
4406985 GGATTGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.45, C:0.07, G:0.24, T:0.25
Consensus pattern (50 bp):
AAGAAAAGGAAGAAATGATAAAGTTAAGGCATAGACAACTATGATGTTTT
Found at i:4411601 original size:17 final size:17
Alignment explanation
Indices: 4411579--4411613 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4411569 CATCCTATAC
4411579 ATATTTTAATAAGTGAA
1 ATATTTTAATAAGTGAA
4411596 ATATTTTAATAAGTGAA
1 ATATTTTAATAAGTGAA
4411613 A
1 A
4411614 GACGACGTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (17 bp):
ATATTTTAATAAGTGAA
Found at i:4417473 original size:15 final size:15
Alignment explanation
Indices: 4417453--4417485 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
4417443 AAAGGAAATG
4417453 AAATGGTAAGTATGC
1 AAATGGTAAGTATGC
4417468 AAATGGTAAGTATGC
1 AAATGGTAAGTATGC
4417483 AAA
1 AAA
4417486 ATCTTATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.24, T:0.24
Consensus pattern (15 bp):
AAATGGTAAGTATGC
Found at i:4425170 original size:20 final size:20
Alignment explanation
Indices: 4425145--4425244 Score: 101
Period size: 20 Copynumber: 5.0 Consensus size: 20
4425135 CATGCCTCTA
*
4425145 TTTGTACTTTGGTACCCCTG
1 TTTGTACTTCGGTACCCCTG
*
4425165 TTTGTACTTCGATACCCCTG
1 TTTGTACTTCGGTACCCCTG
** * * ** *
4425185 AATGCACATATGTGCCCCTG
1 TTTGTACTTCGGTACCCCTG
*
4425205 TTTGTACTTCGGTGCCCCTG
1 TTTGTACTTCGGTACCCCTG
*
4425225 TTTGTACTCCGGTACCCCTG
1 TTTGTACTTCGGTACCCCTG
4425245 AATGCACATA
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
20 62 1.00
ACGTcount: A:0.13, C:0.30, G:0.20, T:0.37
Consensus pattern (20 bp):
TTTGTACTTCGGTACCCCTG
Found at i:4425212 original size:60 final size:60
Alignment explanation
Indices: 4425119--4425284 Score: 235
Period size: 60 Copynumber: 2.8 Consensus size: 60
4425109 CACATTTGTG
* * * *
4425119 CCCCTGAATGCACGTACA-TGCCTCTATTTGTACTTTGGTACCCCTGTTTGTACTTCGATA
1 CCCCTGAATGCACATA-AGTGCCCCTGTTTGTACTTTGGTACCCCTGTTTGTACTCCGATA
* * * *
4425179 CCCCTGAATGCACATATGTGCCCCTGTTTGTACTTCGGTGCCCCTGTTTGTACTCCGGTA
1 CCCCTGAATGCACATAAGTGCCCCTGTTTGTACTTTGGTACCCCTGTTTGTACTCCGATA
*
4425239 CCCCTGAATGCACATAAGTGCCCCTGGTTGTACTTTGGTACCCCTG
1 CCCCTGAATGCACATAAGTGCCCCTGTTTGTACTTTGGTACCCCTG
4425285 AACGGACATC
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
60 93 1.00
ACGTcount: A:0.16, C:0.31, G:0.20, T:0.33
Consensus pattern (60 bp):
CCCCTGAATGCACATAAGTGCCCCTGTTTGTACTTTGGTACCCCTGTTTGTACTCCGATA
Found at i:4428941 original size:50 final size:50
Alignment explanation
Indices: 4428885--4429009 Score: 142
Period size: 50 Copynumber: 2.5 Consensus size: 50
4428875 TATCCCAGAT
** * **
4428885 ATGGTCTTACATAAGAGTTCTCATATCGATGCCCATGCCATGTCCCAAAC
1 ATGGTCTTACATAAGACCTCTCATATCGATGCCAACACCATGTCCCAAAC
** * * *
4428935 ATGGTCTTACAGGAGACCTCTCATCTCGGTGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATAAGACCTCTCATATCGATGCCAACACCATGTCCCAAAC
**
4428985 ATGGTCTTACATGGGACCTCTCATA
1 ATGGTCTTACATAAGACCTCTCATA
4429010 ACCTCAATAA
Statistics
Matches: 62, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (50 bp):
ATGGTCTTACATAAGACCTCTCATATCGATGCCAACACCATGTCCCAAAC
Found at i:4440577 original size:19 final size:19
Alignment explanation
Indices: 4440555--4440609 Score: 61
Period size: 19 Copynumber: 3.3 Consensus size: 19
4440545 TCATATCCTG
4440555 TTAATTTCCTGTATGCAAT
1 TTAATTTCCTGTATGCAAT
4440574 TTAATTTCC----TGC---
1 TTAATTTCCTGTATGCAAT
4440586 TTAATTTCCTGTATGCAAT
1 TTAATTTCCTGTATGCAAT
4440605 TTAAT
1 TTAAT
4440610 ATACAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 14
0.67 0.00 0.33
Matches are distributed among these distances:
12 9 0.31
15 3 0.10
16 3 0.10
19 14 0.48
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (19 bp):
TTAATTTCCTGTATGCAAT
Found at i:4440590 original size:31 final size:30
Alignment explanation
Indices: 4440550--4440609 Score: 111
Period size: 31 Copynumber: 2.0 Consensus size: 30
4440540 TTGTCTCATA
4440550 TCCTGTTAATTTCCTGTATGCAATTTAATT
1 TCCTGTTAATTTCCTGTATGCAATTTAATT
4440580 TCCTGCTTAATTTCCTGTATGCAATTTAAT
1 TCCTG-TTAATTTCCTGTATGCAATTTAAT
4440610 ATACAAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 5 0.17
31 24 0.83
ACGTcount: A:0.23, C:0.18, G:0.10, T:0.48
Consensus pattern (30 bp):
TCCTGTTAATTTCCTGTATGCAATTTAATT
Found at i:4449533 original size:5 final size:5
Alignment explanation
Indices: 4449523--4449548 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4449513 ATTATTTTAG
4449523 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
4449549 TAACTTTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:4451885 original size:40 final size:40
Alignment explanation
Indices: 4451823--4451950 Score: 175
Period size: 40 Copynumber: 3.2 Consensus size: 40
4451813 GACATTATAA
* * *
4451823 TGCATTCATGGAGTACCGAAGTACAAACAGGGGCATGTATG
1 TGCATTCA-GGGGTACCCAAGTACAAACAGGGGCACGTATG
* * *
4451864 TGCATTCAGGGGTACCTAAGTACAAACATGGACACGTATG
1 TGCATTCAGGGGTACCCAAGTACAAACAGGGGCACGTATG
*
4451904 TTCATTCAGGGGTACCCAAGTACAAACAGGGGCACGTATG
1 TGCATTCAGGGGTACCCAAGTACAAACAGGGGCACGTATG
*
4451944 AGCATTC
1 TGCATTC
4451951 TTATATAATC
Statistics
Matches: 76, Mismatches: 11, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
40 68 0.89
41 8 0.11
ACGTcount: A:0.31, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
TGCATTCAGGGGTACCCAAGTACAAACAGGGGCACGTATG
Found at i:4454737 original size:39 final size:40
Alignment explanation
Indices: 4454690--4454796 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 40
4454680 CGACACACAG
4454690 CCTGCTAGGCACATAGCCTGAATAATCACT-GGCACA-CT
1 CCTGCTAGGCACATAGCCTGAATAATCACTCGGCACACCT
* * * *
4454728 ACCTGCTAGGCACAAATCTTGAATAATCA-TCGGTACACCT
1 -CCTGCTAGGCACATAGCCTGAATAATCACTCGGCACACCT
* * **
4454768 TCTACTAGGCACATAGCCCAAATAATCAC
1 CCTGCTAGGCACATAGCCTGAATAATCAC
4454797 AAAGCTCTAA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
38 1 0.02
39 51 0.94
40 2 0.04
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.22
Consensus pattern (40 bp):
CCTGCTAGGCACATAGCCTGAATAATCACTCGGCACACCT
Found at i:4454884 original size:39 final size:39
Alignment explanation
Indices: 4454818--4455201 Score: 565
Period size: 39 Copynumber: 9.9 Consensus size: 39
4454808 AATTAACGGT
* *
4454818 ACACAGCCTGC-AGACACAT-GCCCGAATAATCACTGGC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* *
4454855 ACAAAACCTGCTAGGCACATAGCCCGAATAATCACCGGC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* * *
4454894 ACACAGCCTGCTAGGCACATAACCTGAATAATCACCGAC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* * *
4454933 ATACAGCCTGCTAGGCACATAGCCCGAATAATCATCGAC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* *
4454972 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* *
4455011 ACACAGCCTGCTAGGCACATAGCCCGAATAATCATCGAC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* *
4455050 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* *
4455089 ACACAGCCTGCTAGGCACATAGCCCGAATAATCATCGAC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
* *
4455128 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
*
4455167 ACACAGCCTGTTAGGCACATAGCCCGAATAATCAC
1 ACACAGCCTGCTAGGCACATAGCCCGAATAATCAC
4455202 TGTATTTCTA
Statistics
Matches: 308, Mismatches: 37, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
37 9 0.03
38 7 0.02
39 292 0.95
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (39 bp):
ACACAGCCTGCTAGGCACATAGCCCGAATAATCACCGGC
Found at i:4454945 original size:78 final size:78
Alignment explanation
Indices: 4454818--4455200 Score: 635
Period size: 78 Copynumber: 4.9 Consensus size: 78
4454808 AATTAACGGT
* * * * * *
4454818 ACACAGCCTGC-AGACACAT-GCCCGAATAATCACTGGCACAAAACCTGCTAGGCACATAGCCCG
1 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
* *
4454881 AATAATCACCGGC
66 AATAATCATCGAC
* * * *
4454894 ACACAGCCTGCTAGGCACATAACCTGAATAATCACCGACATACAGCCTGCTAGGCACATAGCCCG
1 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
4454959 AATAATCATCGAC
66 AATAATCATCGAC
4454972 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
1 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
4455037 AATAATCATCGAC
66 AATAATCATCGAC
4455050 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
1 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
4455115 AATAATCATCGAC
66 AATAATCATCGAC
*
4455128 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGTTAGGCACATAGCCCG
1 ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
4455193 AATAATCA
66 AATAATCA
4455201 CTGTATTTCT
Statistics
Matches: 290, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
76 11 0.04
77 7 0.02
78 272 0.94
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.16
Consensus pattern (78 bp):
ACACAGCCTTCTAGGCACATAGCCTGAATAATCACCGGCACACAGCCTGCTAGGCACATAGCCCG
AATAATCATCGAC
Found at i:4455566 original size:17 final size:18
Alignment explanation
Indices: 4455535--4455568 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4455525 CTCGAAATTC
*
4455535 ATCAAATTAACTAATTTT
1 ATCAAATCAACTAATTTT
4455553 ATCAAATCAA-TAATTT
1 ATCAAATCAACTAATTT
4455569 ATCCAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (18 bp):
ATCAAATCAACTAATTTT
Found at i:4462593 original size:39 final size:39
Alignment explanation
Indices: 4462518--4462759 Score: 290
Period size: 39 Copynumber: 6.2 Consensus size: 39
4462508 TGCAAATTTT
* *
4462518 TAATACACCGACATACAGCCTGCTAGGCACATAGCCCGAA
1 TAAT-CACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
* * *
4462558 TAATCACCAGCACAGAGCCTGCTAGGCACAAAGCCCGAA
1 TAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
* * * *
4462597 TAATTACCGACACACTA-CTTGCTAGGCACATAGCCTGAA
1 TAATCACCGGCACAC-AGCCTGCTAGGCACATAGCCCGAA
*
4462636 TAATCACCGGCACACAGCCTGCTAGGCACAT-GCATCGAA
1 TAATCACCGGCACACAGCCTGCTAGGCACATAGC-CCGAA
* *
4462675 TAATCAACGGCACACAGCCTGCTAGGCACATAGCCCAAA
1 TAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
* * * * *
4462714 TAATTACCGGCACACAACTTGCTAAGCACATAGCTCGAA
1 TAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
4462753 TAATCAC
1 TAATCAC
4462760 TATATTTCTA
Statistics
Matches: 170, Mismatches: 28, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
38 3 0.02
39 160 0.94
40 7 0.04
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (39 bp):
TAATCACCGGCACACAGCCTGCTAGGCACATAGCCCGAA
Found at i:4462734 original size:117 final size:117
Alignment explanation
Indices: 4462518--4462759 Score: 344
Period size: 117 Copynumber: 2.1 Consensus size: 117
4462508 TGCAAATTTT
* * *
4462518 TAATACACCGACATACAGCCTGCTAGGCACATAGCCCGAATAATCACCAGCACAGAGCCTGCTAG
1 TAAT-CACCGACACACAGCCTGCTAGGCACATAGCCCGAATAATCAACAGCACACAGCCTGCTAG
* * *
4462583 GCACAAAGCCCGAATAATTACCGACACACTACTTGCTAGGCACATAGC-CTGAA
65 GCACAAAGCCCAAATAATTACCGACACACAACTTGCTAAGCACATAGCTC-GAA
* * *
4462636 TAATCACCGGCACACAGCCTGCTAGGCACAT-GCATCGAATAATCAACGGCACACAGCCTGCTAG
1 TAATCACCGACACACAGCCTGCTAGGCACATAGC-CCGAATAATCAACAGCACACAGCCTGCTAG
* *
4462700 GCACATAGCCCAAATAATTACCGGCACACAACTTGCTAAGCACATAGCTCGAA
65 GCACAAAGCCCAAATAATTACCGACACACAACTTGCTAAGCACATAGCTCGAA
4462753 TAATCAC
1 TAATCAC
4462760 TATATTTCTA
Statistics
Matches: 111, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
116 2 0.02
117 104 0.94
118 5 0.05
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.17
Consensus pattern (117 bp):
TAATCACCGACACACAGCCTGCTAGGCACATAGCCCGAATAATCAACAGCACACAGCCTGCTAGG
CACAAAGCCCAAATAATTACCGACACACAACTTGCTAAGCACATAGCTCGAA
Found at i:4479596 original size:39 final size:40
Alignment explanation
Indices: 4479507--4479614 Score: 139
Period size: 40 Copynumber: 2.7 Consensus size: 40
4479497 ACCAAAAATT
*
4479507 TAATTTAAAAATTAAAACAAAAATTAAAAAAATATTTTAAAAA
1 TAATTT-AAAATT-TAA-AAAAATTAAAAAAATATTTTAAAAA
* *
4479550 TATTTTAAAATTTAAAAAAATTAAAAAAGTATTTTAAAAA
1 TAATTTAAAATTTAAAAAAATTAAAAAAATATTTTAAAAA
*
4479590 -AATTTAAAATTTTAAAAAA-TAAAAA
1 TAATTTAAAATTTAAAAAAATTAAAAA
4479615 CGGGCCGTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
38 6 0.10
39 17 0.28
40 24 0.40
41 2 0.03
42 6 0.10
43 5 0.08
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (40 bp):
TAATTTAAAATTTAAAAAAATTAAAAAAATATTTTAAAAA
Found at i:4488914 original size:35 final size:35
Alignment explanation
Indices: 4488837--4488928 Score: 96
Period size: 35 Copynumber: 2.6 Consensus size: 35
4488827 GATATTTTAG
* * * *
4488837 TTCGCATGTTAAGTATGTCACTATATTGTTTCGGG
1 TTCGCATGTTAAGCATGCCACTATATTGATTCGGA
* *
4488872 TTTGCATGTTAAGCATGCCACTATACTT-ATTCTGA
1 TTCGCATGTTAAGCATGCCACTATA-TTGATTCGGA
* *
4488907 TTCGCATGTAAAACATGCCACT
1 TTCGCATGTTAAGCATGCCACT
4488929 GTGTTAAATC
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
35 45 0.96
36 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (35 bp):
TTCGCATGTTAAGCATGCCACTATATTGATTCGGA
Found at i:4500478 original size:20 final size:21
Alignment explanation
Indices: 4500449--4500487 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
4500439 GAGCTTGCCT
*
4500449 TTATT-TTTTTATTTTAAATC
1 TTATTATTTTGATTTTAAATC
4500469 TTATTATTTTGATTTTAAA
1 TTATTATTTTGATTTTAAA
4500488 AGGATATTCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (21 bp):
TTATTATTTTGATTTTAAATC
Found at i:4506085 original size:24 final size:24
Alignment explanation
Indices: 4506037--4506083 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4506027 ATTGGTCATA
* *
4506037 GAGAGATTTTAGGAAGGATATTTG
1 GAGAGATTTGAGGAAAGATATTTG
4506061 GAGAGATTTGAGGAAAGAGTATT
1 GAGAGATTTGAGGAAAGA-TATT
4506084 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.34, T:0.30
Consensus pattern (24 bp):
GAGAGATTTGAGGAAAGATATTTG
Found at i:4506772 original size:26 final size:27
Alignment explanation
Indices: 4506692--4506778 Score: 149
Period size: 27 Copynumber: 3.3 Consensus size: 27
4506682 TTACACTGTT
4506692 ATGACTGAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
*
4506719 ATGATTGAAATACCCCCATAGGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
*
4506746 ATGACTGAAATA-CCCTATAGGGTAAA
1 ATGACTGAAATACCCCCATAGGGTAAA
4506772 ATGACTG
1 ATGACTG
4506779 TTATACCTCT
Statistics
Matches: 57, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
26 20 0.35
27 37 0.65
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (27 bp):
ATGACTGAAATACCCCCATAGGGTAAA
Found at i:4508829 original size:17 final size:18
Alignment explanation
Indices: 4508809--4508843 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
4508799 TAAAATACTT
4508809 AAAT-TTTTTTATTTTTA
1 AAATATTTTTTATTTTTA
*
4508826 AAATATTTTTTGTTTTTA
1 AAATATTTTTTATTTTTA
4508844 TTAAAAACCG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
AAATATTTTTTATTTTTA
Found at i:4508859 original size:5 final size:5
Alignment explanation
Indices: 4508851--4508881 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
4508841 TTATTAAAAA
4508851 CCGGG CCGGG CCGGG CCGGG CCGGG CCGGG C
1 CCGGG CCGGG CCGGG CCGGG CCGGG CCGGG C
4508882 TTATTATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.00, C:0.42, G:0.58, T:0.00
Consensus pattern (5 bp):
CCGGG
Found at i:4510074 original size:20 final size:20
Alignment explanation
Indices: 4510049--4510097 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4510039 GAGTACAGAG
* *
4510049 GTATTGATAATTGGGCGCAA
1 GTATTGATAATTCGGAGCAA
* *
4510069 GTATTGATACTTCTGAGCAA
1 GTATTGATAATTCGGAGCAA
4510089 GTATTGATA
1 GTATTGATA
4510098 CTTCTGAGCT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (20 bp):
GTATTGATAATTCGGAGCAA
Found at i:4510098 original size:20 final size:20
Alignment explanation
Indices: 4510065--4510106 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
4510055 ATAATTGGGC
4510065 GCAAGTATTGATACTTCTGA
1 GCAAGTATTGATACTTCTGA
4510085 GCAAGTATTGATACTTCTGA
1 GCAAGTATTGATACTTCTGA
4510105 GC
1 GC
4510107 TAATTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (20 bp):
GCAAGTATTGATACTTCTGA
Found at i:4510604 original size:14 final size:14
Alignment explanation
Indices: 4510585--4510624 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4510575 TTGATAGCCA
4510585 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
4510599 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
4510613 GGAAAATGTTTT
1 GTAAAATGTTTT
4510625 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:4510633 original size:20 final size:20
Alignment explanation
Indices: 4510608--4510647 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4510598 CGTAAAATGA
*
4510608 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
4510628 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
4510648 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:4510637 original size:34 final size:35
Alignment explanation
Indices: 4510593--4510659 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4510583 CAGTAAAATG
*
4510593 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
4510627 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
4510660 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4510663 original size:14 final size:15
Alignment explanation
Indices: 4510587--4510663 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
4510577 GATAGCCAGT
* *
4510587 AAAATG-TTTTCCGT
1 AAAATGATTTTCTGG
4510601 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
4510615 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
4510635 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
4510650 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
4510664 TGTTTGATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 25 0.50
15 11 0.22
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:4526650 original size:25 final size:25
Alignment explanation
Indices: 4526622--4526695 Score: 103
Period size: 25 Copynumber: 3.0 Consensus size: 25
4526612 TATACGAGTT
* * **
4526622 GTATGCTCTTATGAGCTATGAATTG
1 GTATGCTCTTACGAGCTATAAATCA
4526647 GTATGCTCTTACGAGCTATAAATCA
1 GTATGCTCTTACGAGCTATAAATCA
*
4526672 GTATGCTCTTACAAGCTATAAATC
1 GTATGCTCTTACGAGCTATAAATC
4526696 GGTAACCCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCA
Found at i:4527454 original size:19 final size:19
Alignment explanation
Indices: 4527430--4527466 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4527420 CATACCATGC
*
4527430 ACTTAGAAATATGCTAGCT
1 ACTTAGAAATAAGCTAGCT
4527449 ACTTAGAAATAAGCTAGC
1 ACTTAGAAATAAGCTAGC
4527467 CAAATATTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
ACTTAGAAATAAGCTAGCT
Found at i:4530608 original size:12 final size:13
Alignment explanation
Indices: 4530584--4530612 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
4530574 GGGCTATAAC
4530584 TATTGCATTTATT
1 TATTGCATTTATT
4530597 TATTGC-TTTATT
1 TATTGCATTTATT
4530609 TATT
1 TATT
4530613 CATGTATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.66
Consensus pattern (13 bp):
TATTGCATTTATT
Found at i:4544164 original size:13 final size:13
Alignment explanation
Indices: 4544142--4544175 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
4544132 TTTTCAAGTC
* *
4544142 ATGTTCTAAAGCT
1 ATGTTTTAAAGAT
4544155 ATGTTTTAAAGAT
1 ATGTTTTAAAGAT
4544168 ATGTTTTA
1 ATGTTTTA
4544176 TGCGTGCTCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (13 bp):
ATGTTTTAAAGAT
Found at i:4546919 original size:22 final size:21
Alignment explanation
Indices: 4546894--4546972 Score: 52
Period size: 22 Copynumber: 3.6 Consensus size: 21
4546884 AAAATCAAAA
*
4546894 TTTTATTTTAAAATTTTAAACT
1 TTTTATTTTAAAA-TATAAACT
** * *
4546916 TTTTCCTTTAAAAAATAGA-T
1 TTTTATTTTAAAATATAAACT
*
4546936 TTTTATTTCTAAAAATCTAAACT
1 TTTTATTT-T-AAAATATAAACT
*
4546959 TTCTTTTTTTAAAA
1 TT-TTATTTTAAAA
4546973 AAAATCAAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
20 7 0.17
21 4 0.10
22 22 0.52
23 4 0.10
24 5 0.12
ACGTcount: A:0.37, C:0.09, G:0.01, T:0.53
Consensus pattern (21 bp):
TTTTATTTTAAAATATAAACT
Found at i:4546929 original size:43 final size:44
Alignment explanation
Indices: 4546882--4546974 Score: 109
Period size: 43 Copynumber: 2.1 Consensus size: 44
4546872 AAATAGTTGA
* *
4546882 AAAAAATCAAAATTTTATTT-TAAAATTTTAAACTTT-TTCCTTT
1 AAAAAAT-AAAATTTTATTTCTAAAAATCTAAACTTTCTTCCTTT
* * **
4546925 AAAAAATAGATTTTTATTTCTAAAAATCTAAACTTTCTTTTTTT
1 AAAAAATAAAATTTTATTTCTAAAAATCTAAACTTTCTTCCTTT
4546969 AAAAAA
1 AAAAAA
4546975 AATCAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 10 0.24
43 21 0.50
44 11 0.26
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (44 bp):
AAAAAATAAAATTTTATTTCTAAAAATCTAAACTTTCTTCCTTT
Found at i:4552377 original size:7 final size:7
Alignment explanation
Indices: 4552365--4552389 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
4552355 TAGGACTTGA
4552365 ACCTAAG
1 ACCTAAG
4552372 ACCTAAG
1 ACCTAAG
4552379 ACCTAAG
1 ACCTAAG
4552386 ACCT
1 ACCT
4552390 CTATGATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.40, C:0.32, G:0.12, T:0.16
Consensus pattern (7 bp):
ACCTAAG
Found at i:4552565 original size:20 final size:19
Alignment explanation
Indices: 4552537--4552630 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 19
4552527 GGATGTGACA
*
4552537 CAAACAGAGGCACAAATGTG
1 CAAATAGAGGCACAAA-GTG
* *
4552557 CAAATAGAGGTACCGAAGTG
1 CAAATAGAGGCA-CAAAGTG
* *
4552577 CAAATGGAGGCACTTAAGTG
1 CAAATAGAGGCAC-AAAGTG
*
4552597 CAAATCA-AGGCACGAATGTG
1 CAAAT-AGAGGCAC-AAAGTG
*
4552617 CAAATAGAGACACA
1 CAAATAGAGGCACA
4552631 TATATGCGAA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 3 0.05
20 53 0.90
21 3 0.05
ACGTcount: A:0.43, C:0.18, G:0.26, T:0.14
Consensus pattern (19 bp):
CAAATAGAGGCACAAAGTG
Found at i:4554430 original size:19 final size:20
Alignment explanation
Indices: 4554406--4554450 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4554396 AGAAAACAAA
4554406 ATATCTC-CAAAATAAAAAT
1 ATATCTCACAAAATAAAAAT
* *
4554425 ATATCTCACTAAATAACAAT
1 ATATCTCACAAAATAAAAAT
4554445 AT-TCTC
1 ATATCTC
4554451 TAATAACTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 11 0.48
20 12 0.52
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.31
Consensus pattern (20 bp):
ATATCTCACAAAATAAAAAT
Found at i:4554501 original size:214 final size:214
Alignment explanation
Indices: 4554105--4554501 Score: 564
Period size: 214 Copynumber: 1.9 Consensus size: 214
4554095 GGATCATTAC
* *
4554105 AAACCCAACTTTGTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGGTTCACAATC
1 AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGATTCACAATC
* * * * * *
4554170 TCTTTAGATGACAGATAACAAGATATCTCCAATATAAGAGTATATCTCACCAAATAATAATATTC
66 TCTTTAGATGACAGAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTC
* * * *
4554235 TCTAACAAGTACTACAACCATTAACCATTTACTCAAATTCCAAATGAAAAACATTTGGTAACCAA
131 TCTAACAACTACTAAAACCATTAACCATTTACTCAAATTACAAATCAAAAACATTTGGTAACCAA
4554300 ATACTCAAAAACCTATTGA
196 ATACTCAAAAACCTATTGA
* *
4554319 AAACTCAACTTTCTAAAAATTCATAAAAAAAATTGTTAATTAAAAATTATAATCA-ATTCACAAT
1 AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAAT-AGATTCACAAT
* * * *
4554383 CTGTTTATATGATAGAAAACAAAATATCTCCAAAATAAAAATATATCTCACTAAATAACAATATT
65 CTCTTTAGATGACAGAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATT
* * **
4554448 CTCTAATAACTACTAAAACC-TTCAACTATTTACTCAAATTATTAATCAAAAACA
130 CTCTAACAACTACTAAAACCATT-AACCATTTACTCAAATTACAAATCAAAAACA
4554502 CACTTTTGTA
Statistics
Matches: 159, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
213 2 0.01
214 156 0.98
215 1 0.01
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (214 bp):
AAACCCAACTTTCTAAAAATTCATAAAAAAAATTATTAATTAAAAATTATAATAGATTCACAATC
TCTTTAGATGACAGAAAACAAAATATCTCCAAAATAAAAATATATCTCACCAAATAACAATATTC
TCTAACAACTACTAAAACCATTAACCATTTACTCAAATTACAAATCAAAAACATTTGGTAACCAA
ATACTCAAAAACCTATTGA
Found at i:4561210 original size:38 final size:38
Alignment explanation
Indices: 4561159--4561235 Score: 120
Period size: 38 Copynumber: 2.0 Consensus size: 38
4561149 GAATAGCAGC
4561159 ACAAAGGTTGAGTAGTTTGCC-TTTCTCATGCATCCTAT
1 ACAAAGGTTGAGTAGTTT-CCGTTTCTCATGCATCCTAT
* *
4561197 ACAAAGTTTGAGTAGTTTCCGTTTCTCATGCATGCTAT
1 ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
4561235 A
1 A
4561236 TTTGTCAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (38 bp):
ACAAAGGTTGAGTAGTTTCCGTTTCTCATGCATCCTAT
Found at i:4563626 original size:5 final size:6
Alignment explanation
Indices: 4563611--4563635 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4563601 TTTGAAATTA
4563611 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
4563636 TATATTTATT
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:4566256 original size:19 final size:20
Alignment explanation
Indices: 4566232--4566290 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
4566222 TGTACATGAA
*
4566232 AATAATG-AATAATATTAAT
1 AATAATGCAATAATAGTAAT
4566251 AATAATATGCAATAATAGTAAT
1 AAT-A-ATGCAATAATAGTAAT
*
4566273 AATAA-ACAAATAATAGTA
1 AATAATGC-AATAATAGTA
4566291 TCATAAAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.12
20 12 0.35
21 4 0.12
22 14 0.41
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.31
Consensus pattern (20 bp):
AATAATGCAATAATAGTAAT
Found at i:4566287 original size:33 final size:30
Alignment explanation
Indices: 4566230--4566308 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 30
4566220 AATGTACATG
**
4566230 AAAATAATGAATAATATTAATAATAATATGCAAT
1 AAAATAAT-AATAA-ACAAATAATAATAT-C-AT
* *
4566264 AATAGTAATAATAAACAAATAATAGTATCAT
1 AA-AATAATAATAAACAAATAATAATATCAT
4566295 AAAATAATAATAAA
1 AAAATAATAATAAA
4566309 AAAAAGTCTA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
30 11 0.28
31 4 0.10
32 1 0.03
33 11 0.28
34 7 0.18
35 5 0.13
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (30 bp):
AAAATAATAATAAACAAATAATAATATCAT
Found at i:4566306 original size:19 final size:20
Alignment explanation
Indices: 4566239--4566290 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
4566229 GAAAATAATG
*
4566239 AATAATATTAATAATAATATGC-
1 AATAATAGTAATAATAA-A--CA
4566261 AATAATAGTAATAATAAACA
1 AATAATAGTAATAATAAACA
4566281 AATAATAGTA
1 AATAATAGTA
4566291 TCATAAAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 10 0.36
21 1 0.04
22 16 0.57
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.31
Consensus pattern (20 bp):
AATAATAGTAATAATAAACA
Found at i:4566935 original size:16 final size:16
Alignment explanation
Indices: 4566899--4566934 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4566889 AACGCAAAAG
*
4566899 AAAATAAAATATATAA
1 AAAATAAAATAAATAA
4566915 AAAATAAAATAAAATAA
1 AAAATAAAAT-AAATAA
4566932 AAA
1 AAA
4566935 TGCAAGAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
AAAATAAAATAAATAA
Found at i:4568177 original size:100 final size:100
Alignment explanation
Indices: 4568029--4568292 Score: 465
Period size: 100 Copynumber: 2.6 Consensus size: 100
4568019 TGTAATGTCG
* *
4568029 GGGAAACCAGATCCGCCGTCGTAGCTTCAGTCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCCG
*
4568094 CTGTTGTGGCTTCAATCGTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCGTTTTAATTGCAATATCA
* *
4568129 GGGAAACCAGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCTG
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCCG
*
4568194 CCGTTGTGGCTTCAATCTTTTTAATTGCAATATCA
66 CCGTTGTGGCTTCAATCGTTTTAATTGCAATATCA
*
4568229 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCC
1 GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCC
4568293 ATGGTTTCAC
Statistics
Matches: 155, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 155 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCGTTTTAATTGCAATATCA
Found at i:4568291 original size:50 final size:50
Alignment explanation
Indices: 4568037--4568292 Score: 194
Period size: 50 Copynumber: 5.1 Consensus size: 50
4568027 CGGGGAAACC
*
4568037 AGATCCGCCGTCGTAGCTTCAGTCTGTTCCACTGCACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * ** * * * * ***
4568087 AGATCCGCTGTTGTGGCTTCAATC-GTTTTAATTGCAAT-ATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTG-TTCCACTGCACTGCT-AAGGAAGTA
* *
4568137 AGATCCGCTGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
* * * * ** * * * * ***
4568187 AGATCTGCCGTTGTGGCTTCAATCTTTTTAATTGCAAT-ATCAGGGAAACC
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTA
* *
4568237 AGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGTACTGCTAAGGAAGTA
1 AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
4568287 AGATCC
1 AGATCC
4568293 ATGGTTTCAC
Statistics
Matches: 146, Mismatches: 54, Indels: 12
0.69 0.25 0.06
Matches are distributed among these distances:
49 3 0.02
50 140 0.96
51 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (50 bp):
AGATCCGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTA
Found at i:4584542 original size:5 final size:5
Alignment explanation
Indices: 4584528--4584565 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
4584518 AATAAAACGC
* *
4584528 AAAAG AAAAT AAAAT -ATAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
4584566 ATGCAAGAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:4587074 original size:42 final size:41
Alignment explanation
Indices: 4586954--4587185 Score: 238
Period size: 42 Copynumber: 5.5 Consensus size: 41
4586944 TAACCGTTAC
* * * * *
4586954 ACGGTGGAATCAACACTTAGCAACCACATTATAATAAATGAT
1 ACGGTGGAATCAGCACATAGCAACC-CCTTATAATCAAGGAT
*
4586996 ACGG-GGAATCAGCACATAGCAACCCCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCCC-TT-ATAATCAAGGAT
* * *
4587038 ACGGTGAAATCAGCACTTAGCAACCGCCTTATAATCAATGAT
1 ACGGTGGAATCAGCACATAGCAACC-CCTTATAATCAAGGAT
4587080 ACGG-GGAATCAGCACATAGCAACCCCTT-TCACAGTCAAGGAT
1 ACGGTGGAATCAGCACATAGCAACCCCTTAT-A-A-TCAAGGAT
* * *
4587122 ACGGTGGAATCAGCACATAGCAACCACATTTATATTCAATGAT
1 ACGGTGGAATCAGCACATAGCAACC-C-CTTATAATCAAGGAT
*
4587165 AAGG-GGAATCAGCACATAGCA
1 ACGGTGGAATCAGCACATAGCA
4587186 TTTAACTTAT
Statistics
Matches: 162, Mismatches: 17, Indels: 22
0.81 0.08 0.11
Matches are distributed among these distances:
39 1 0.01
40 6 0.04
41 39 0.24
42 59 0.36
43 50 0.31
44 3 0.02
45 3 0.02
46 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
ACGGTGGAATCAGCACATAGCAACCCCTTATAATCAAGGAT
Found at i:4587095 original size:84 final size:84
Alignment explanation
Indices: 4586954--4587185 Score: 374
Period size: 84 Copynumber: 2.8 Consensus size: 84
4586944 TAACCGTTAC
* *
4586954 ACGGTGGAATCAACACTTAGCAACCACATTATAATAAATGATACGGGGAATCAGCACATAGCAAC
1 ACGGTGGAATCAGCACTTAGCAACCACATTATAATCAATGATACGGGGAATCAGCACATAGCAAC
4587019 CCCTTTCACAATCAAGGAT
66 CCCTTTCACAATCAAGGAT
* * *
4587038 ACGGTGAAATCAGCACTTAGCAACCGCCTTATAATCAATGATACGGGGAATCAGCACATAGCAAC
1 ACGGTGGAATCAGCACTTAGCAACCACATTATAATCAATGATACGGGGAATCAGCACATAGCAAC
*
4587103 CCCTTTCACAGTCAAGGAT
66 CCCTTTCACAATCAAGGAT
* * *
4587122 ACGGTGGAATCAGCACATAGCAACCACATTTATATTCAATGATAAGGGGAATCAGCACATAGCA
1 ACGGTGGAATCAGCACTTAGCAACCACA-TTATAATCAATGATACGGGGAATCAGCACATAGCA
4587186 TTTAACTTAT
Statistics
Matches: 135, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
84 102 0.76
85 33 0.24
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (84 bp):
ACGGTGGAATCAGCACTTAGCAACCACATTATAATCAATGATACGGGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAGGAT
Found at i:4587670 original size:22 final size:21
Alignment explanation
Indices: 4587617--4587671 Score: 76
Period size: 20 Copynumber: 2.6 Consensus size: 21
4587607 AACATTAAAA
*
4587617 ATGGGGCTTAGAATCACTTAC
1 ATGGGGCTTGGAATCACTTAC
4587638 -TGGGGCTTGGAATCACTTAC
1 ATGGGGCTTGGAATCACTTAC
*
4587658 TATGGAGCTTGGAA
1 -ATGGGGCTTGGAA
4587672 GCTTGAGACC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 19 0.63
22 11 0.37
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (21 bp):
ATGGGGCTTGGAATCACTTAC
Found at i:4588918 original size:11 final size:11
Alignment explanation
Indices: 4588902--4588927 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4588892 TAAAAATAAA
4588902 AAAAGTATTTT
1 AAAAGTATTTT
4588913 AAAAGTATTTT
1 AAAAGTATTTT
4588924 AAAA
1 AAAA
4588928 TTAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:4588942 original size:9 final size:9
Alignment explanation
Indices: 4588924--4588953 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
4588914 AAAGTATTTT
*
4588924 AAAATTAAA
1 AAAATAAAA
4588933 AAAATAAAA
1 AAAATAAAA
4588942 AAAATAAAA
1 AAAATAAAA
4588951 AAA
1 AAA
4588954 TTTATTATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (9 bp):
AAAATAAAA
Found at i:4590537 original size:40 final size:40
Alignment explanation
Indices: 4590477--4590653 Score: 336
Period size: 40 Copynumber: 4.4 Consensus size: 40
4590467 GCACCATAGA
4590477 TGCATAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
1 TGCA-AACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
4590518 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
1 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
4590558 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
1 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
4590598 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
1 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
*
4590638 TGCAAACAGGAGCACC
1 TGCAAACAGGGGCACC
4590654 GTAGTGCGAA
Statistics
Matches: 135, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
40 131 0.97
41 4 0.03
ACGTcount: A:0.42, C:0.16, G:0.27, T:0.15
Consensus pattern (40 bp):
TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
Found at i:4590687 original size:80 final size:80
Alignment explanation
Indices: 4590477--4590691 Score: 270
Period size: 80 Copynumber: 2.7 Consensus size: 80
4590467 GCACCATAGA
* * * **
4590477 TGCATAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGGGCACCAAAGTGTA
1 TGCA-AACAGGAGCACCAAAGTGCAAACAAGGACACAAATGTGCAAACAGGGGCACCAAAGTGTA
4590542 AATAAGGGTACAAATG
65 AATAAGGGTACAAATG
* * * **
4590558 TGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGGGCACCAAAGTGTAA
1 TGCAAACAGGAGCACCAAAGTGCAAACAAGGACACAAATGTGCAAACAGGGGCACCAAAGTGTAA
4590623 ATAAGGGTACAAATG
66 ATAAGGGTACAAATG
** * * *
4590638 TGCAAACAGGAGCACCGTAGTGCGAACAAGGACACCAAA-GTGTATACAGGGGCA
1 TGCAAACAGGAGCACCAAAGTGCAAACAAGGACA-CAAATGTGCAAACAGGGGCA
4590692 AAGAAGTGCA
Statistics
Matches: 123, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
80 115 0.93
81 8 0.07
ACGTcount: A:0.41, C:0.17, G:0.28, T:0.14
Consensus pattern (80 bp):
TGCAAACAGGAGCACCAAAGTGCAAACAAGGACACAAATGTGCAAACAGGGGCACCAAAGTGTAA
ATAAGGGTACAAATG
Found at i:4590699 original size:120 final size:121
Alignment explanation
Indices: 4590477--4590699 Score: 308
Period size: 120 Copynumber: 1.9 Consensus size: 121
4590467 GCACCATAGA
* *
4590477 TGCATAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGGGCACCAAAGTGTA
1 TGCATAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGAGCACCAAAGTGCA
* ** *
4590542 AATAAGGGTACAAATGTGCAAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATG
66 AACAAGGACACAAATGTGCAAACAGGGGCACAAAAGTGTAAATAAGGGTACAAATG
** *
4590598 TGCA-AACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGAGCACCGTAGTGCG
1 TGCATAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGAGCACCAAAGTGCA
* *
4590662 AACAAGGACACCAAA-GTGTATACAGGGGCA-AAGAAGTG
66 AACAAGGACA-CAAATGTGCAAACAGGGGCACAA-AAGTG
4590700 CAAACAGGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 1 0.01
120 80 0.90
121 8 0.09
ACGTcount: A:0.41, C:0.16, G:0.28, T:0.14
Consensus pattern (121 bp):
TGCATAACAGGGGCACCAAAGTGTAAATAAGGGTACAAATGTGCAAACAGGAGCACCAAAGTGCA
AACAAGGACACAAATGTGCAAACAGGGGCACAAAAGTGTAAATAAGGGTACAAATG
Found at i:4590717 original size:20 final size:20
Alignment explanation
Indices: 4590637--4590720 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
4590627 GGGTACAAAT
*
4590637 GTGCAAACAGGAGCACCGTA
1 GTGCAAACAGGAGCACCGAA
* *
4590657 GTGCGAACAAGGA-CACCAAA
1 GTGCAAAC-AGGAGCACCGAA
* * * **
4590677 GTGTATACAGGGGCAAAGAA
1 GTGCAAACAGGAGCACCGAA
4590697 GTGCAAACAGGAGCACCGAA
1 GTGCAAACAGGAGCACCGAA
4590717 GTGC
1 GTGC
4590721 CAATCCTGTA
Statistics
Matches: 47, Mismatches: 15, Indels: 4
0.71 0.23 0.06
Matches are distributed among these distances:
19 3 0.06
20 40 0.85
21 4 0.09
ACGTcount: A:0.38, C:0.21, G:0.31, T:0.10
Consensus pattern (20 bp):
GTGCAAACAGGAGCACCGAA
Found at i:4592680 original size:139 final size:139
Alignment explanation
Indices: 4592523--4593049 Score: 925
Period size: 139 Copynumber: 3.8 Consensus size: 139
4592513 TAGAGAACAT
4592523 TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
1 TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
*
4592588 ATAGAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
66 ATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
4592653 TACAAAATA
131 TACAAAATA
4592662 TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
1 TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
4592727 ATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
66 ATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
4592792 TACAAAATA
131 TACAAAATA
4592801 TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
1 TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
4592866 ATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
66 ATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
4592931 TACAAAATA
131 TACAAAATA
* * * * * **
4592940 TTAATTTTATATATTTTAGT-AAATTTATGAATATAAATAATTATATTAATTGATTTCGGTCAAA
1 TTAATTGTATATATTTTA-TCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATC-AA
* *
4593004 ATATAAAAGACATGGAAATTAATA-CTT-TTTTGAAAAGAATATAATT
64 ATATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATT
4593050 TTTTTTTCTA
Statistics
Matches: 376, Mismatches: 10, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
138 18 0.05
139 331 0.88
140 27 0.07
ACGTcount: A:0.44, C:0.05, G:0.08, T:0.43
Consensus pattern (139 bp):
TTAATTGTATATATTTTATCGAATTTATTAATATAAATAGTTATATTAATTAATTTCAATCAAAT
ATAAAAGACATGGAAATTAATATTTTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCA
TACAAAATA
Found at i:4596078 original size:6 final size:6
Alignment explanation
Indices: 4596062--4596098 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
4596052 ACTAAAATGT
4596062 ATTAT- ATTATA ATTATA ATTAT- ATTATA ATGTATA AT
1 ATTATA ATTATA ATTATA ATTATA ATTATA AT-TATA AT
4596099 AGTTAAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 10 0.34
6 13 0.45
7 6 0.21
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
ATTATA
Found at i:4596084 original size:17 final size:18
Alignment explanation
Indices: 4596062--4596098 Score: 67
Period size: 17 Copynumber: 2.1 Consensus size: 18
4596052 ACTAAAATGT
4596062 ATTATATTATAAT-TATA
1 ATTATATTATAATGTATA
4596079 ATTATATTATAATGTATA
1 ATTATATTATAATGTATA
4596097 AT
1 AT
4596099 AGTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
ATTATATTATAATGTATA
Found at i:4608016 original size:5 final size:5
Alignment explanation
Indices: 4608008--4608042 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
4607998 ATAAATTTAA
*
4608008 TTATT TTATT TTATT TTATT TTATT TTATG TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT
4608043 AATATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (5 bp):
TTATT
Found at i:4609864 original size:14 final size:14
Alignment explanation
Indices: 4609847--4609890 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
4609837 TTCAAACTTT
4609847 AAACCCTGAACTCG
1 AAACCCTGAACTCG
* *
4609861 AAACACTAAACTC-
1 AAACCCTGAACTCG
4609874 AAACCCTGAACCTCG
1 AAACCCTGAA-CTCG
4609889 AA
1 AA
4609891 TCTCAAATCC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 8 0.33
14 14 0.58
15 2 0.08
ACGTcount: A:0.43, C:0.34, G:0.09, T:0.14
Consensus pattern (14 bp):
AAACCCTGAACTCG
Found at i:4609918 original size:7 final size:7
Alignment explanation
Indices: 4609908--4609974 Score: 91
Period size: 7 Copynumber: 9.7 Consensus size: 7
4609898 TCCAAACTCA
4609908 AACCTTG
1 AACCTTG
*
4609915 AACCCT-
1 AACCTTG
*
4609921 AAACTTG
1 AACCTTG
*
4609928 AACCTTT
1 AACCTTG
4609935 AACCTTG
1 AACCTTG
4609942 AACCTTG
1 AACCTTG
*
4609949 AACCTCG
1 AACCTTG
4609956 AACCTTG
1 AACCTTG
4609963 AACCTTG
1 AACCTTG
4609970 AACCT
1 AACCT
4609975 CGGGTTTGAG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
6 4 0.08
7 47 0.92
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.27
Consensus pattern (7 bp):
AACCTTG
Found at i:4612194 original size:104 final size:104
Alignment explanation
Indices: 4612072--4612279 Score: 407
Period size: 104 Copynumber: 2.0 Consensus size: 104
4612062 AAAAGTAGAA
4612072 GAGTGAATATTTAGTTTTTTTTTTATAAATATTAAATTTCTCTTATAAGGTTATTAATCCATCTT
1 GAGTGAATATTTAGTTTTTTTTTTATAAATATTAAATTTCTCTTATAAGGTTATTAATCCATCTT
4612137 TTTTCATTTGAATTTTTTTTTAAAATTTTTCAATCTGAG
66 TTTTCATTTGAATTTTTTTTTAAAATTTTTCAATCTGAG
*
4612176 GAGTGAATTTTTAGTTTTTTTTTTATAAATATTAAATTTCTCTTATAAGGTTATTAATCCATCTT
1 GAGTGAATATTTAGTTTTTTTTTTATAAATATTAAATTTCTCTTATAAGGTTATTAATCCATCTT
4612241 TTTTCATTTGAATTTTTTTTTAAAATTTTTCAATCTGAG
66 TTTTCATTTGAATTTTTTTTTAAAATTTTTCAATCTGAG
4612280 TTGGTGTTTA
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.28, C:0.08, G:0.09, T:0.55
Consensus pattern (104 bp):
GAGTGAATATTTAGTTTTTTTTTTATAAATATTAAATTTCTCTTATAAGGTTATTAATCCATCTT
TTTTCATTTGAATTTTTTTTTAAAATTTTTCAATCTGAG
Found at i:4613584 original size:2 final size:2
Alignment explanation
Indices: 4613577--4613601 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4613567 TCGTGGAGTG
4613577 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
4613602 TTAANNNNNN
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4615337 original size:29 final size:28
Alignment explanation
Indices: 4615288--4615342 Score: 67
Period size: 29 Copynumber: 1.9 Consensus size: 28
4615278 TTTTTTGATT
*
4615288 CTTTTAATAATACATGAATTAAATTTACC
1 CTTTTAATAATAAATGAATT-AATTTACC
*
4615317 CTTTTAATAGTAAAATG-ATTAATTTA
1 CTTTTAATAAT-AAATGAATTAATTTA
4615343 ATCTGATCCC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 6 0.26
29 13 0.57
30 4 0.17
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (28 bp):
CTTTTAATAATAAATGAATTAATTTACC
Found at i:4615565 original size:21 final size:20
Alignment explanation
Indices: 4615541--4615609 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 20
4615531 ATTAGCAAGC
4615541 CCAAGAGAAAAAACTTGAAAT
1 CCAA-AGAAAAAACTTGAAAT
*
4615562 CCAAAG---AAA-TTAGCAAGT
1 CCAAAGAAAAAACTT-G-AAAT
4615580 CCAAGAGAAAAAACTTGAAAT
1 CCAA-AGAAAAAACTTGAAAT
4615601 CCAAAGAAA
1 CCAAAGAAA
4615610 TTAGCAAGCC
Statistics
Matches: 39, Mismatches: 2, Indels: 15
0.70 0.04 0.27
Matches are distributed among these distances:
16 2 0.05
17 4 0.10
18 7 0.18
19 2 0.05
20 7 0.18
21 11 0.28
22 4 0.10
23 2 0.05
ACGTcount: A:0.57, C:0.16, G:0.14, T:0.13
Consensus pattern (20 bp):
CCAAAGAAAAAACTTGAAAT
Found at i:4615573 original size:39 final size:39
Alignment explanation
Indices: 4615528--4615624 Score: 185
Period size: 39 Copynumber: 2.5 Consensus size: 39
4615518 AATTAATTAT
4615528 GAAATTAGCAAGCCCAAGAGAAAAAACTTGAAATCCAAA
1 GAAATTAGCAAGCCCAAGAGAAAAAACTTGAAATCCAAA
*
4615567 GAAATTAGCAAGTCCAAGAGAAAAAACTTGAAATCCAAA
1 GAAATTAGCAAGCCCAAGAGAAAAAACTTGAAATCCAAA
4615606 GAAATTAGCAAGCCCAAGA
1 GAAATTAGCAAGCCCAAGA
4615625 AGGCAAAGCC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 56 1.00
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.13
Consensus pattern (39 bp):
GAAATTAGCAAGCCCAAGAGAAAAAACTTGAAATCCAAA
Found at i:4616722 original size:18 final size:18
Alignment explanation
Indices: 4616680--4616723 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
4616670 TATTTCTTTA
*
4616680 AATTAATTAATTAGAAAT
1 AATTAATTAATTAGAAAC
*
4616698 AATTAATTAATT-TAAAC
1 AATTAATTAATTAGAAAC
4616715 AATCTAATT
1 AAT-TAATT
4616724 TCAGTTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (18 bp):
AATTAATTAATTAGAAAC
Found at i:4616986 original size:14 final size:15
Alignment explanation
Indices: 4616910--4616986 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
4616900 GATTGCCAGT
*
4616910 AAAAT-ATTTTCTGT
1 AAAATGATTTTCTGG
*
4616924 AAAATGA-TTTCGGG
1 AAAATGATTTTCTGG
*
4616938 AAAATGTTCTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
4616958 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
4616973 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
4616987 TGTTTGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
14 24 0.49
15 12 0.24
16 1 0.02
18 1 0.02
20 11 0.22
ACGTcount: A:0.34, C:0.09, G:0.16, T:0.42
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:4627927 original size:41 final size:41
Alignment explanation
Indices: 4627863--4627962 Score: 110
Period size: 41 Copynumber: 2.4 Consensus size: 41
4627853 CCCACAGGGT
* * * ** *
4627863 CTGACACATGACCATGTGGCTCACATGGTCTGGCACACGGA
1 CTGACACATGGCCGTGTGACTCACACAGTCTAGCACACGGA
* * *
4627904 CTGACACATGGCTGTGTGACTCACACAGTCTAGCGCACGGC
1 CTGACACATGGCCGTGTGACTCACACAGTCTAGCACACGGA
*
4627945 CTGACACACGGCCGTGTG
1 CTGACACATGGCCGTGTG
4627963 GCATCGCCAA
Statistics
Matches: 48, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (41 bp):
CTGACACATGGCCGTGTGACTCACACAGTCTAGCACACGGA
Found at i:4629671 original size:107 final size:106
Alignment explanation
Indices: 4629479--4629909 Score: 607
Period size: 107 Copynumber: 4.0 Consensus size: 106
4629469 TTAAAAAGGG
*
4629479 AAAATTTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAATGTGCTG
1 AAAA-TTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTG
*
4629544 GGTTTCGATTTTTTTCGTTCGACCAAATAGCAAAATATCCTATT
65 GGTTTCGA-TTTTTTCGTTCGACCAAATAGC-AAATATCCTTTT
* *
4629588 AAAATTTCAAAGTAAGG-AATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTACTGG
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
*
4629652 GTTTCGATTTTTTTTGTTCGACCAAATAGCTAAATATCCTTTT
66 GTTTCGA-TTTTTTCGTTCGACCAAATAGC-AAATATCCTTTT
* * * *
4629695 AAAATTTCAAAGTAAGGTAATATTTTGCGTTTGCAAATTTGAGAAAACGTGCCCTAATGTGCTGA
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* * *
4629760 GTTTCGATTTTTTTGTTTGACCAAATAGTCAAATAACCTTTT
66 GTTTCGATTTTTTCGTTCGACCAAATAG-CAAATATCCTTTT
* * * *
4629802 AAAATTTCAAAGTAAGACTATATTTTGCGTTTGAAAATTTGAG-AAACGTGCCCTAATGTGCTGG
1 AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
* * *
4629866 GTTTCG-GTTTCTCGTTCGACCAAATAGCCAAATATCCTCTT
66 GTTTCGATTTTTTCGTTCGACCAAATAG-CAAATATCCTTTT
4629907 AAA
1 AAA
4629910 TCTTAATCCA
Statistics
Matches: 295, Mismatches: 25, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
105 31 0.11
106 26 0.09
107 171 0.58
108 63 0.21
109 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (106 bp):
AAAATTTCAAAGTAAGGCAATATTTTGCGTTTGGAAATTCGAGAAAACGTGCCCTAATGTGCTGG
GTTTCGATTTTTTCGTTCGACCAAATAGCAAATATCCTTTT
Found at i:4630512 original size:3 final size:3
Alignment explanation
Indices: 4630504--4630529 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4630494 TCTATTTTCT
4630504 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
4630530 TTCATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:4638968 original size:9 final size:9
Alignment explanation
Indices: 4638954--4639018 Score: 91
Period size: 8 Copynumber: 7.3 Consensus size: 9
4638944 TCAGACTAAA
4638954 AAAAAAATC
1 AAAAAAATC
4638963 AAAAAAATC
1 AAAAAAATC
4638972 -AAAAAATC
1 AAAAAAATC
4638980 -AAAAAATC
1 AAAAAAATC
4638988 AAAAAAAAAT-
1 --AAAAAAATC
4638998 AAAAAAATC
1 AAAAAAATC
4639007 AAAAAAATC
1 AAAAAAATC
4639016 AAA
1 AAA
4639019 GTCAAAAATA
Statistics
Matches: 52, Mismatches: 0, Indels: 8
0.87 0.00 0.13
Matches are distributed among these distances:
8 24 0.46
9 21 0.40
11 7 0.13
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATC
Found at i:4639037 original size:44 final size:42
Alignment explanation
Indices: 4638951--4639045 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
4638941 AGTTCAGACT
*
4638951 AAAAAAAAAATCAAAAAAATCAAAAAATCAAAAAATCAAAAAA
1 AAAAAAAAAATCAAAAAAATC-AAAAATCAAAAAAGCAAAAAA
* * *
4638994 AAATAAAAAAATCAAAAAAATC-AAAGTCAAAAATAGGAGAAAA
1 AAA-AAAAAAATCAAAAAAATCAAAAATCAAAAA-AGCAAAAAA
*
4639037 AGAAAAAAA
1 AAAAAAAAA
4639046 GAAAAAAGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 16 0.36
43 11 0.24
44 18 0.40
ACGTcount: A:0.78, C:0.07, G:0.05, T:0.09
Consensus pattern (42 bp):
AAAAAAAAAATCAAAAAAATCAAAAATCAAAAAAGCAAAAAA
Found at i:4639050 original size:7 final size:7
Alignment explanation
Indices: 4639033--4639065 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
4639023 AAAATAGGAG
4639033 AAAAAGAA
1 AAAAAG-A
4639041 AAAAAGA
1 AAAAAGA
4639048 AAAAAGA
1 AAAAAGA
4639055 AAAAAGA
1 AAAAAGA
4639062 AAAA
1 AAAA
4639066 GGAGAGGTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:4639909 original size:14 final size:14
Alignment explanation
Indices: 4639872--4639906 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4639862 GAAAAAAATG
*
4639872 AATGAAAATGAGAG
1 AATGAAAATGAGAA
4639886 AATGAAAATGA-AA
1 AATGAAAATGAGAA
4639899 AATGAAAA
1 AATGAAAA
4639907 ATGGAGAGGC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (14 bp):
AATGAAAATGAGAA
Found at i:4639909 original size:20 final size:20
Alignment explanation
Indices: 4639872--4639909 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4639862 GAAAAAAATG
*
4639872 AATGAAAATGAGAGAATGAA
1 AATGAAAATGAGAAAATGAA
4639892 AATGAAAAATGA-AAAATG
1 AATG-AAAATGAGAAAATG
4639910 GAGAGGCTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.21, T:0.16
Consensus pattern (20 bp):
AATGAAAATGAGAAAATGAA
Found at i:4642009 original size:46 final size:46
Alignment explanation
Indices: 4641116--4641994 Score: 1238
Period size: 46 Copynumber: 19.1 Consensus size: 46
4641106 ACAGATCAAT
* *
4641116 GAAGATAGCAGATCTTGTCTTCCTATATTTGGCAGCAGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
4641162 GAAGATAGTAGATCTTGTCTTCTTATAATTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
4641208 GAATATAGCAGATCTTATTTTTCTGTATTTGGCAACGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
4641254 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCAGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* *
4641300 GAAGATAGCAGATCTTGTCTTCCTGTAATTAGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
4641346 GAAGATAGCAGATCTTGTCTTCCGGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
4641392 GAAGATAGCAGATCTTGTCTTCCTGTATTTGACAGCGAAAGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
**
4641438 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGAAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
4641484 GAAGATAGCAGATCTTATCTTCATGTATTTGGCAGTGTAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* *
4641530 GAGGATAGCAGATCTTGTCTTCCTGTAATTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
4641576 GAAGATAGCAGATCTTATTTTCCTATATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
*
4641622 GAAGATAGCAGATCTTGTCTTCCTGTAATTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
4641668 GAAGATAGCAGA-CTTATCTTCCTGTAATTGACAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* *
4641713 GAAGATAGCAGATCTTGTCTTCTTATATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * ** *
4641759 GAAGATAGTAGATCTTGTCTTCCTGTATTTGGCAGCGAAGAAGATT
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * * * *
4641805 AAAGATAACATATCTTATCTTCATGTATTTGGCAGCGAAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * *
4641851 GAGGATAGCAGATCTTGTCTTCCTGTAATTGGCAGCAGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
4641897 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
* * * * *
4641943 GAAGATGGCAGATCTTATCTTCATGTATTTGGCAACGGAGGAGATC
1 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
4641989 GAAGAT
1 GAAGAT
4641995 GGTGAATCTT
Statistics
Matches: 735, Mismatches: 97, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
45 43 0.06
46 692 0.94
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (46 bp):
GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGCGGAGGGGATC
Found at i:4642192 original size:88 final size:86
Alignment explanation
Indices: 4642048--4642466 Score: 226
Period size: 88 Copynumber: 4.8 Consensus size: 86
4642038 CCATTAGTCC
* * * * * * *
4642048 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
1 TATCACCCTAAACAGTAGAGAAGCAGATTGAAGATTG-AG-TCCTATCACCCTAAGCAGTAGTGG
4642113 AGCAGATCGAAGATGGTGAATCT
64 AGCAGATCGAAGATGGTGAATCT
* * *
4642136 TATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT-AGTCCTATCACCCTAAGCAGTAGT
1 TATC-ACCCTAA-ACAGTAGAGAAGCAGATTGAAG--ATTGAGTCCTATCACCCTAAGCAGTAGT
* * * ** *
4642199 GGAGTAGGTTGAAGATTGCAGATTC-
62 GGAGCAGATCGAAGA-TGGTGAATCT
* * * * * * * * * * *
4642224 TGTCACCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTGAATCTTATCTTCCC-AATACAGTGGA
1 TATCACCCTAAACAGTAGAGAAGCAGATTGAAGAT--TGAGTCCTATC-ACCCTAA-GCAGTAGT
* ** * *
4642288 GAAGCAGATTTAAGCCAT--T-AGTCC
62 GGAGCAGATCGAAG--ATGGTGAATCT
* * * * * * *
4642312 TATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGG
1 TATCACCCTAAACAGTAGAGAAGCAGATTGAAGATTG-AG-TCCTATCACCCTAAGCAGTAGTGG
4642377 AGCAGATCGAAGATGGTGAATCT
64 AGCAGATCGAAGATGGTGAATCT
* * *
4642400 TATCTTCCC-AATACAGTGGAGAAGCAGATTTAAGCCATT-AGTCCTATCACCCTAAGCAGTAGT
1 TATC-ACCCTAA-ACAGTAGAGAAGCAGATTGAAG--ATTGAGTCCTATCACCCTAAGCAGTAGT
4642463 GGAG
62 GGAG
4642467 TAGGTTGAAG
Statistics
Matches: 244, Mismatches: 63, Indels: 48
0.69 0.18 0.14
Matches are distributed among these distances:
85 4 0.02
86 2 0.01
87 44 0.18
88 122 0.50
89 64 0.26
90 1 0.00
91 7 0.03
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (86 bp):
TATCACCCTAAACAGTAGAGAAGCAGATTGAAGATTGAGTCCTATCACCCTAAGCAGTAGTGGAG
CAGATCGAAGATGGTGAATCT
Found at i:4642221 original size:132 final size:132
Alignment explanation
Indices: 4641979--4642642 Score: 1265
Period size: 132 Copynumber: 5.0 Consensus size: 132
4641969 ATTTGGCAAC
* * *
4641979 GGAGGAGATCGAAGATGGTGAATCTTATCTTTCCAATATAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
4642044 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
4642109 GT
131 GT
4642111 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
4642176 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
4642241 GT
131 GT
4642243 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
4642308 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
4642373 GT
131 GT
4642375 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
4642440 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
4642505 GT
131 GT
4642507 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
1 GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
* * * *
4642572 GTCCTATCACGCTAAGCAGTAGTGGAGTAGGTTAAAGATTGTAGATTCTATCACCCTAAGCAGTA
66 GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
4642637 GT
131 GT
4642639 GGAG
1 GGAG
4642643 TAGGTCAAAG
Statistics
Matches: 525, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 525 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (132 bp):
GGAGCAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTA
GTCCTATCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTA
GT
Found at i:4646034 original size:21 final size:22
Alignment explanation
Indices: 4645998--4646042 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
4645988 GATTACCACC
*
4645998 AAGGAATAAGGCAAAAAAATGA
1 AAGGAATAAGGAAAAAAAATGA
4646020 AAGGAA-AAGGAAAAAAAATGA
1 AAGGAATAAGGAAAAAAAATGA
4646041 AA
1 AA
4646043 ACAAAGAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.69, C:0.02, G:0.22, T:0.07
Consensus pattern (22 bp):
AAGGAATAAGGAAAAAAAATGA
Found at i:4647745 original size:64 final size:64
Alignment explanation
Indices: 4647641--4647775 Score: 245
Period size: 64 Copynumber: 2.1 Consensus size: 64
4647631 ATCACTAGTG
*
4647641 TTAGAATAAATTAAACAATTATTGATTTAAAAATTCTAATTGACAAGACAAATATTCTAAGCTA
1 TTAGAATAAATTAAACAATTATTGATTTAAAAATTATAATTGACAAGACAAATATTCTAAGCTA
*
4647705 TTAGAATAAATTAAACAATTATTGATTTAAAAATTATAATTGACAAGACAAATATTCTAATCTA
1 TTAGAATAAATTAAACAATTATTGATTTAAAAATTATAATTGACAAGACAAATATTCTAAGCTA
4647769 TT-GAATA
1 TTAGAATA
4647776 CGAATCCAAC
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
63 5 0.07
64 64 0.93
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (64 bp):
TTAGAATAAATTAAACAATTATTGATTTAAAAATTATAATTGACAAGACAAATATTCTAAGCTA
Found at i:4651517 original size:43 final size:43
Alignment explanation
Indices: 4651471--4651625 Score: 215
Period size: 43 Copynumber: 3.6 Consensus size: 43
4651461 ACTTTTTGCG
* *
4651471 GCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGATT-TTTAGTG
1 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATG-TTCTTTAGTA
*
4651514 GCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
1 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
* * *
4651557 GCGTTTGTG-AAAAAGTGCAGCTAAAGGTCATGTTCTTTAGCA
1 GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
* *
4651599 GCGTTTGTGAAAAAAGCACTGCTAAAG
1 GCGTTTGTGAAAAAAGCGCCGCTAAAG
4651626 AACATGACCT
Statistics
Matches: 100, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
42 40 0.40
43 60 0.60
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (43 bp):
GCGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
Found at i:4651584 original size:42 final size:42
Alignment explanation
Indices: 4651471--4651612 Score: 205
Period size: 42 Copynumber: 3.3 Consensus size: 42
4651461 ACTTTTTGCG
* *
4651471 GCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGATT-TTTAGTG
1 GCGTTTGT-GAAAAAGCGCCGCTAAAGGTCATG-TTCTTTAGTA
4651514 GCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
1 GCGTTTGTGA-AAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
* * *
4651557 GCGTTTGTGAAAAAGTGCAGCTAAAGGTCATGTTCTTTAGCA
1 GCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
4651599 GCGTTTGTGAAAAA
1 GCGTTTGTGAAAAA
4651613 AGCACTGCTA
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
42 46 0.50
43 46 0.50
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (42 bp):
GCGTTTGTGAAAAAGCGCCGCTAAAGGTCATGTTCTTTAGTA
Found at i:4651638 original size:85 final size:86
Alignment explanation
Indices: 4651471--4651639 Score: 207
Period size: 85 Copynumber: 2.0 Consensus size: 86
4651461 ACTTTTTGCG
* ** * *
4651471 GCGTTTGTAAAAAAAGCGCCGCTAAAGGTCATGATTTTTAGTGGCGTTTGTGATAAAAGCGCCGC
1 GCGTTTGTAAAAAAAGCGCAGCTAAAGGTCATGATTTTTAGCAGCGTTTGTGAAAAAAGCACCGC
** **
4651536 TAAAGGTCATGTTCTTTAGTA
66 TAAAGAACATGACCTTTAGTA
* * *
4651557 GCGTTTGT-GAAAAAGTGCAGCTAAAGGTCATG-TTCTTTAGCAGCGTTTGTGAAAAAAGCACTG
1 GCGTTTGTAAAAAAAGCGCAGCTAAAGGTCATGATT-TTTAGCAGCGTTTGTGAAAAAAGCACCG
4651620 CTAAAGAACATGACCTTTAG
65 CTAAAGAACATGACCTTTAG
4651640 CTGCGCTTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
84 2 0.03
85 60 0.86
86 8 0.11
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (86 bp):
GCGTTTGTAAAAAAAGCGCAGCTAAAGGTCATGATTTTTAGCAGCGTTTGTGAAAAAAGCACCGC
TAAAGAACATGACCTTTAGTA
Found at i:4652597 original size:24 final size:23
Alignment explanation
Indices: 4652561--4652612 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 23
4652551 CCCCCCCCAA
*
4652561 AAAAAACTTCACCATGAATCTAC
1 AAAAAACTCCACCATGAATCTAC
*
4652584 AGAAAAACTCCACCGTGAATCTAC
1 A-AAAAACTCCACCATGAATCTAC
4652608 AAAAA
1 AAAAA
4652613 TCAACATTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 5 0.19
24 21 0.81
ACGTcount: A:0.50, C:0.25, G:0.08, T:0.17
Consensus pattern (23 bp):
AAAAAACTCCACCATGAATCTAC
Found at i:4653144 original size:26 final size:25
Alignment explanation
Indices: 4653111--4653164 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
4653101 ACTTTTAAAT
4653111 AAATAGTTAATAGAATCAATTGGTC
1 AAATAGTTAATAGAATCAATTGGTC
**
4653136 AAATCAGTTAATAGAATCGGTTGGTC
1 AAAT-AGTTAATAGAATCAATTGGTC
4653162 AAA
1 AAA
4653165 CCAACCACTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 4 0.15
26 22 0.85
ACGTcount: A:0.43, C:0.09, G:0.19, T:0.30
Consensus pattern (25 bp):
AAATAGTTAATAGAATCAATTGGTC
Found at i:4653338 original size:17 final size:17
Alignment explanation
Indices: 4653316--4653350 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
4653306 ATAATTTTTA
4653316 CAAGATAGATTATCAAT
1 CAAGATAGATTATCAAT
4653333 CAAGATAGATTATCAAT
1 CAAGATAGATTATCAAT
4653350 C
1 C
4653351 TTTCAACACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.29
Consensus pattern (17 bp):
CAAGATAGATTATCAAT
Found at i:4653679 original size:17 final size:17
Alignment explanation
Indices: 4653667--4653699 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4653657 GCTGTGATTT
4653667 TGTGCATCTTGTGTTTG
1 TGTGCATCTTGTGTTTG
*
4653684 TGTTCATCTTGTGTTT
1 TGTGCATCTTGTGTTT
4653700 AACATATTGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (17 bp):
TGTGCATCTTGTGTTTG
Found at i:4660634 original size:48 final size:48
Alignment explanation
Indices: 4660556--4660735 Score: 164
Period size: 48 Copynumber: 3.8 Consensus size: 48
4660546 AGGTGAAAGA
* * * *
4660556 AATAGTGTCTGGTTACCTGTTTGGGTTAAACCTACATGAATAA-AAATT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAA-T
* * *
4660604 AATAGTGCCTAGTTACCCGTTAGGGCTAAACCTACACGAATAATGAAT
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAAT
* * * * * * *
4660652 AGTAGTACCTAATTACCCATTAGGGTTAAACCTACATGATTAATGAAC
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAAT
** * * * *
4660700 AATAGTGTTTGGTTACCCATTAAGGTTAAAACTACA
1 AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACA
4660736 CGACAAATAG
Statistics
Matches: 108, Mismatches: 23, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
48 106 0.98
49 2 0.02
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (48 bp):
AATAGTGCCTAGTTACCCGTTAGGGTTAAACCTACATGAATAATAAAT
Found at i:4666425 original size:160 final size:161
Alignment explanation
Indices: 4666160--4666485 Score: 505
Period size: 160 Copynumber: 2.0 Consensus size: 161
4666150 GTGTGATGGT
* * *
4666160 CACTTGAAAGATTGTAGGAGATATTCCTTAATTTAAAAAAAACACTATTATCTTAACTAACAAGA
1 CACTTGAAAGATTGTAAGAGATATTCCTCAATTTAAAAAAAACACTATTATCTCAACTAACAAGA
* *
4666225 TTTAACCACTAATTCTATCTAACTAATCAAAATTTGAATTTAACCCAATTACCATCAACATAGGC
66 TTTAACCACTAATTCTATCTAACAAATCAAAATTTGAATTTAACCCAATTACCAACAACATAGGC
*
4666290 GGCACAAACAAGGAGTAGGAAAAATAATTCC
131 GACACAAACAAGGAGTAGGAAAAATAATTCC
*
4666321 CACTTGAAAGAATT-TAAGAGCTATTCCTCAA-TTAAAAAAAACACTATTATCTCAACTAACAAG
1 CACTTGAAAG-ATTGTAAGAGATATTCCTCAATTTAAAAAAAACACTATTATCTCAACTAACAAG
* * * *
4666384 ATTTCACCACTAA-TCTTATCTAACAAATTAGAATTTGAATTTAACCCAATTACCAACAACATGG
65 ATTTAACCACTAATTC-TATCTAACAAATCAAAATTTGAATTTAACCCAATTACCAACAACATAG
*
4666448 GCGACACAAACAGGGAGTAGGAAAAATAATTCC
129 GCGACACAAACAAGGAGTAGGAAAAATAATTCC
4666481 CACTT
1 CACTT
4666486 CAGCACAACA
Statistics
Matches: 151, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
159 2 0.01
160 122 0.81
161 24 0.16
162 3 0.02
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.27
Consensus pattern (161 bp):
CACTTGAAAGATTGTAAGAGATATTCCTCAATTTAAAAAAAACACTATTATCTCAACTAACAAGA
TTTAACCACTAATTCTATCTAACAAATCAAAATTTGAATTTAACCCAATTACCAACAACATAGGC
GACACAAACAAGGAGTAGGAAAAATAATTCC
Found at i:4672865 original size:27 final size:27
Alignment explanation
Indices: 4672825--4673047 Score: 200
Period size: 27 Copynumber: 8.3 Consensus size: 27
4672815 GAAATGTTAT
* * *
4672825 AAATGACTGTAATACCCTTGTAGGGTA
1 AAATGACCGAAATACCCTCGTAGGGTA
* * *
4672852 AAATGATCGAAATACCC-CTATAGGGAA
1 AAATGACCGAAATACCCTC-GTAGGGTA
** * *
4672879 AAATGACCGTCATACCCTCATAAGGTA
1 AAATGACCGAAATACCCTCGTAGGGTA
*
4672906 AAATGACCGTAATACCC-CTGTAGGGTA
1 AAATGACCGAAATACCCTC-GTAGGGTA
**
4672933 AAATGACCGAAA-ACCCTTATAGGGTA
1 AAATGACCGAAATACCCTCGTAGGGTA
** * *
4672959 AAATGATTGTAATACCCTCGAAGGGTA
1 AAATGACCGAAATACCCTCGTAGGGTA
* * * *
4672986 AAATTTATCGAATTACCCTCGAAGGGTA
1 AAA-TGACCGAAATACCCTCGTAGGGTA
*
4673014 AAATGACCGAAATACCCTCGTAGGATA
1 AAATGACCGAAATACCCTCGTAGGGTA
4673041 AAATGAC
1 AAATGAC
4673048 TGTTATAGCC
Statistics
Matches: 158, Mismatches: 32, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
26 21 0.13
27 113 0.72
28 24 0.15
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCGTAGGGTA
Found at i:4673012 original size:81 final size:81
Alignment explanation
Indices: 4672825--4673047 Score: 247
Period size: 81 Copynumber: 2.8 Consensus size: 81
4672815 GAAATGTTAT
* * * * * *
4672825 AAATGACTGTAATACCCTTGTAGGGTAAAATGATCGAAATACCCCTATAGGGAAAAATGACCGTC
1 AAATGACCGTAATACCCTCGTAGGGTAAAATGACCGAAATACCCTTATAGGGTAAAATGACCGTA
4672890 ATACCCTCATAAGGTA
66 ATACCCTCATAAGGTA
**
4672906 AAATGACCGTAATACCC-CTGTAGGGTAAAATGACCGAAA-ACCCTTATAGGGTAAAATGATTGT
1 AAATGACCGTAATACCCTC-GTAGGGTAAAATGACCGAAATACCCTTATAGGGTAAAATGACCGT
*
4672969 AATACCCTCGA-AGGGTA
65 AATACCCTC-ATAAGGTA
* * * ** *
4672986 AAATTTATCG-AATTACCCTCGAAGGGTAAAATGACCGAAATACCCTCGTAGGATAAAATGAC
1 AAA-TGACCGTAA-TACCCTCGTAGGGTAAAATGACCGAAATACCCTTATAGGGTAAAATGAC
4673048 TGTTATAGCC
Statistics
Matches: 120, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
80 38 0.32
81 64 0.53
82 18 0.15
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (81 bp):
AAATGACCGTAATACCCTCGTAGGGTAAAATGACCGAAATACCCTTATAGGGTAAAATGACCGTA
ATACCCTCATAAGGTA
Found at i:4677159 original size:12 final size:13
Alignment explanation
Indices: 4677113--4677162 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 13
4677103 GTTGATGTCC
4677113 TGAAATAATA-AAT
1 TGAAA-AATACAAT
4677126 TGATTAAAATACAATT
1 TGA--AAAATACAA-T
4677142 TGAAAAATACAA-
1 TGAAAAATACAAT
4677154 TGAAAAATA
1 TGAAAAATA
4677163 ATCTCATGCA
Statistics
Matches: 33, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
12 9 0.27
13 3 0.09
14 13 0.39
15 4 0.12
16 4 0.12
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (13 bp):
TGAAAAATACAAT
Found at i:4685471 original size:33 final size:33
Alignment explanation
Indices: 4685430--4685554 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 33
4685420 ATCGGTAGAT
4685430 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
* *
4685463 TCAACACTTAGCAACCCCTTTCAGATTCAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAACCAC---CAG--T----GAT-TCGG-GGAA
*
4685506 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
*
4685539 TCAGCACTTACCAACC
1 TCAGCACTTAGCAACC
4685555 CCTTGGGAGA
Statistics
Matches: 74, Mismatches: 6, Indels: 24
0.71 0.06 0.23
Matches are distributed among these distances:
33 36 0.49
34 5 0.07
36 3 0.04
38 2 0.03
40 2 0.03
42 5 0.07
43 21 0.28
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAGTGATTCGGGGAA
Found at i:4685644 original size:33 final size:30
Alignment explanation
Indices: 4685602--4685683 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 30
4685592 AAAATACGGT
4685602 GGAATCAACACTTAGCAACCACCAATGAGTAGG
1 GGAATCAACACTTAGCAACC-CCAAT-A-TAGG
*
4685635 GGAATCAACACTTAGCAACCCC--T-TGGG
1 GGAATCAACACTTAGCAACCCCAATATAGG
*
4685662 GGAATCAGCACTTAGCAACCCC
1 GGAATCAACACTTAGCAACCCC
4685684 CTTCAAATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
27 24 0.51
30 1 0.02
32 2 0.04
33 20 0.43
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.16
Consensus pattern (30 bp):
GGAATCAACACTTAGCAACCCCAATATAGG
Found at i:4685729 original size:102 final size:102
Alignment explanation
Indices: 4685457--4685788 Score: 515
Period size: 102 Copynumber: 3.3 Consensus size: 102
4685447 CCAGTGATTC
* * * *
4685457 GGGGAATCAACACTTAGCAACCCCTTTCAGATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAACACTTAGCAACCCCCTTCAAATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
* * *
4685522 ACCAATGATTCGGGGAATCAGCACTTACCAACCCCTTG
65 ACCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
* * *
4685560 GGAGAATCAGCACTTA-CAA-CCCCTTCAAATTTAAAATACGGTGGAATCAACACTTAGCAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
4685623 CCAATGAGTAGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
* * *
4685660 GGGGAATCAGCACTTAGCAACCCCCTTCAAATTTAAAATACGGTAGAATCAGCACTTAACAACCA
1 GGGGAATCAACACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
4685725 CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
4685762 GGGGAATCAACACTTAGCAACCCCCTT
1 GGGGAATCAACACTTAGCAACCCCCTT
4685789 TATATTCAAT
Statistics
Matches: 210, Mismatches: 17, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
100 74 0.35
101 16 0.08
102 106 0.50
103 14 0.07
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (102 bp):
GGGGAATCAACACTTAGCAACCCCCTTCAAATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTAGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:4694071 original size:9 final size:9
Alignment explanation
Indices: 4694055--4694089 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
4694045 TTAATTGAGA
4694055 AATTAATTT
1 AATTAATTT
*
4694064 AGTTAATTT
1 AATTAATTT
*
4694073 AATTAATTA
1 AATTAATTT
4694082 AATTAATT
1 AATTAATT
4694090 GAATAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:4696423 original size:3 final size:3
Alignment explanation
Indices: 4696415--4696464 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
4696405 ACTAAAATCC
4696415 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
4696463 TA
1 TA
4696465 CACAACTCAC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:4699626 original size:3 final size:3
Alignment explanation
Indices: 4699618--4699643 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4699608 CTTTCTTTCT
4699618 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
4699644 GCCTTTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Done.