Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013230.1 Kokia drynarioides strain JFW-HI SEQ_128249, whole genome shotgun sequence
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: 345372
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Warning! 111 characters in sequence are not A, C, G, or T
File 1 of 2
Found at i:3949 original size:19 final size:19
Alignment explanation
Indices: 3904--3950 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
3894 TTTTATTTTA
3904 AAAATTTTACAATTATTAT
1 AAAATTTTACAATTATTAT
** * *
3923 AACTTTTTACAATTTTTGT
1 AAAATTTTACAATTATTAT
3942 AAAATTTTA
1 AAAATTTTA
3951 ACAAATCTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.51
Consensus pattern (19 bp):
AAAATTTTACAATTATTAT
Found at i:4050 original size:21 final size:20
Alignment explanation
Indices: 4001--4050 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
3991 AAAATTTTTT
*
4001 AAAACTTTTACATATTTTAA
1 AAAACTTTTACAAATTTTAA
4021 ATAAA-TTTTA-AAAGTTTCTAA
1 A-AAACTTTTACAAA-TTT-TAA
4042 AAAACTTTT
1 AAAACTTTT
4051 TGATAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 2 0.08
20 12 0.48
21 11 0.44
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAACTTTTACAAATTTTAA
Found at i:7713 original size:31 final size:31
Alignment explanation
Indices: 7647--7713 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
7637 ATTCGGAATC
*
7647 AAACTTGACACTTTTTTTTAATTTCGTACTT
1 AAACTTGACACTTTTTTTTAAGTTCGTACTT
* *
7678 -AACTTGACACTTTTTTTTACGTTGGTACTT
1 AAACTTGACACTTTTTTTTAAGTTCGTACTT
7708 AAACTT
1 AAACTT
7714 TTTGGGATCC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 27 0.84
31 5 0.16
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.49
Consensus pattern (31 bp):
AAACTTGACACTTTTTTTTAAGTTCGTACTT
Found at i:7740 original size:89 final size:89
Alignment explanation
Indices: 7577--7764 Score: 200
Period size: 89 Copynumber: 2.1 Consensus size: 89
7567 CTAATATAAC
* * *
7577 ATTTGGTACTTAAACTTGACACTATTTCTTAATTTAGTACCTAAACTTTTTTTTGGTCCAATTCG
1 ATTTAGTACTTAAACTTGACACTATTTCTTAAGTTAGTACCTAAAC-TTTTTTGGGTCCAATTCG
* *
7642 GAATCAAACTTGACACTTTTTTTTA
65 GAACCAAACTTGACACTTTTTTCTA
* * * * * * *
7667 ATTTCGTACTT-AACTTGACACTTTTTTTTACGTTGGTACTTAAAC-TTTTTGGGATCCAATTTG
1 ATTTAGTACTTAAACTTGACACTATTTCTTAAGTTAGTACCTAAACTTTTTTGGG-TCCAATTCG
* * *
7730 GTACCTAAACTTTACTCTTTTTTCTA
65 GAACC-AAACTTGACACTTTTTTCTA
7756 ATTTAGTAC
1 ATTTAGTAC
7765 CTAATCTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
87 7 0.09
88 11 0.14
89 53 0.65
90 10 0.12
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.47
Consensus pattern (89 bp):
ATTTAGTACTTAAACTTGACACTATTTCTTAAGTTAGTACCTAAACTTTTTTGGGTCCAATTCGG
AACCAAACTTGACACTTTTTTCTA
Found at i:8593 original size:7 final size:7
Alignment explanation
Indices: 8583--8614 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
8573 CTAAAAACTT
8583 TAAACCA
1 TAAACCA
8590 TAAACCA
1 TAAACCA
8597 TAAACCA
1 TAAACCA
8604 TAAACCA
1 TAAACCA
8611 TAAA
1 TAAA
8615 TCTCAAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.25, G:0.00, T:0.16
Consensus pattern (7 bp):
TAAACCA
Found at i:8680 original size:6 final size:6
Alignment explanation
Indices: 8669--8739 Score: 81
Period size: 6 Copynumber: 11.2 Consensus size: 6
8659 AAGGTTTAGT
*
8669 GTTTGA GTTTGA GTTTGA GTTTGA GTTTGA GTTTGAA GTTTAGG GTTT-A
1 GTTTGA GTTTGA GTTTGA GTTTGA GTTTGA GTTTG-A GTTT-GA GTTTGA
8718 GGTTTAGA GTTTGGA GTTTGA G
1 -GTTT-GA GTTT-GA GTTTGA G
8740 GTTTAGGTTA
Statistics
Matches: 57, Mismatches: 3, Indels: 10
0.81 0.04 0.14
Matches are distributed among these distances:
6 36 0.63
7 19 0.33
8 2 0.04
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.46
Consensus pattern (6 bp):
GTTTGA
Found at i:12833 original size:26 final size:25
Alignment explanation
Indices: 12808--13014 Score: 166
Period size: 26 Copynumber: 8.0 Consensus size: 25
12798 CAAAATAGAG
12808 TTTAGCTCTTACGAGCCCAGACAGAGA
1 TTTAGCTCTT-CGAGCCCAGACAGA-A
* * * *
12835 ATT-G-TCATACGAGTCCAGACAGAG
1 TTTAGCTC-TTCGAGCCCAGACAGAA
* * *
12859 TTTAACTCATTCGAGCCTAGACAAAA
1 TTTAGCTC-TTCGAGCCCAGACAGAA
* *
12885 TTTAGCTCATTTGAGCCTAGACAGAA
1 TTTAGCTC-TTCGAGCCCAGACAGAA
* *
12911 TTTAGCTCATTCAAGCCCACACAGAA
1 TTTAGCTC-TTCGAGCCCAGACAGAA
* *
12937 TTTAGCTAATTCGAGCCCAAACAGAA
1 TTTAGCT-CTTCGAGCCCAGACAGAA
*
12963 TTTAGCTATTTCGAGCCCAGACAGAA
1 TTTAGCT-CTTCGAGCCCAGACAGAA
* * *
12989 TTTAGCTCATACGAGTCTAGACAGAA
1 TTTAGCTC-TTCGAGCCCAGACAGAA
13015 ATAACGCTCT
Statistics
Matches: 148, Mismatches: 27, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
24 2 0.01
25 15 0.10
26 129 0.87
27 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (25 bp):
TTTAGCTCTTCGAGCCCAGACAGAA
Found at i:12920 original size:52 final size:52
Alignment explanation
Indices: 12808--13014 Score: 217
Period size: 52 Copynumber: 4.0 Consensus size: 52
12798 CAAAATAGAG
* * *
12808 TTTAGCTC-TTACGAGCCCAGACAGAGAATT-G-TCATACGAGTCC-AGACAGAG
1 TTTAGCTCATT-CGAGCCCAGACAGA-ATTTAGCTCATTCGAG-CCTAGACAGAA
* * * *
12859 TTTAACTCATTCGAGCCTAGACAAAATTTAGCTCATTTGAGCCTAGACAGAA
1 TTTAGCTCATTCGAGCCCAGACAGAATTTAGCTCATTCGAGCCTAGACAGAA
* * * * *
12911 TTTAGCTCATTCAAGCCCACACAGAATTTAGCTAATTCGAGCCCAAACAGAA
1 TTTAGCTCATTCGAGCCCAGACAGAATTTAGCTCATTCGAGCCTAGACAGAA
* *
12963 TTTAGCT-ATTTCGAGCCCAGACAGAATTTAGCTCATACGAGTCTAGACAGAA
1 TTTAGCTCA-TTCGAGCCCAGACAGAATTTAGCTCATTCGAGCCTAGACAGAA
13015 ATAACGCTCT
Statistics
Matches: 128, Mismatches: 23, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
50 3 0.02
51 23 0.18
52 102 0.80
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (52 bp):
TTTAGCTCATTCGAGCCCAGACAGAATTTAGCTCATTCGAGCCTAGACAGAA
Found at i:13013 original size:78 final size:78
Alignment explanation
Indices: 12808--13014 Score: 240
Period size: 78 Copynumber: 2.7 Consensus size: 78
12798 CAAAATAGAG
* * * * *
12808 TTTAGCTCTTACGAGCCCAGACAGAGAATT-G-TCATACGAGTCCAGACAGAGTTTAACTCATTC
1 TTTAGCTATTTCGAGCCCAGACAGA-ATTTAGCTCATACGAGTCCAGACAGAATTTAACTAATTC
* *
12871 GAGCCTAGACAAAA
65 GAGCCCAAACAAAA
* * * * * *
12885 TTTAGCTCATTT-GAGCCTAGACAGAATTTAGCTCATTCAAGCCCACACAGAATTTAGCTAATTC
1 TTTAGCT-ATTTCGAGCCCAGACAGAATTTAGCTCATACGAGTCCAGACAGAATTTAACTAATTC
*
12949 GAGCCCAAACAGAA
65 GAGCCCAAACAAAA
*
12963 TTTAGCTATTTCGAGCCCAGACAGAATTTAGCTCATACGAGTCTAGACAGAA
1 TTTAGCTATTTCGAGCCCAGACAGAATTTAGCTCATACGAGTCCAGACAGAA
13015 ATAACGCTCT
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
76 3 0.03
77 24 0.23
78 79 0.75
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (78 bp):
TTTAGCTATTTCGAGCCCAGACAGAATTTAGCTCATACGAGTCCAGACAGAATTTAACTAATTCG
AGCCCAAACAAAA
Found at i:15797 original size:7 final size:8
Alignment explanation
Indices: 15778--15804 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
15768 AATTTATTTC
15778 TTTTTCAA
1 TTTTTCAA
15786 TTTTTCAA
1 TTTTTCAA
15794 TTTTTCAA
1 TTTTTCAA
15802 TTT
1 TTT
15805 CAAAATATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.22, C:0.11, G:0.00, T:0.67
Consensus pattern (8 bp):
TTTTTCAA
Found at i:21813 original size:64 final size:64
Alignment explanation
Indices: 21706--21832 Score: 209
Period size: 64 Copynumber: 2.0 Consensus size: 64
21696 CCCTTTTGGT
* * * * *
21706 TATGCAATAGTTGATGGTCTGAGAGTCAATCGATCATATAAGTTGGGTAGAATCTGTCTAAAAA
1 TATGCAACAGTTGATGGTCTGAGAGTCAATCGACCATAAAAGTTGCGTAGAATCTGACTAAAAA
21770 TATGCAACAGTTGATGGTCTGAGAGTCAATCGACCATAAAAGTTGCGTAGAATCTGACTAAAA
1 TATGCAACAGTTGATGGTCTGAGAGTCAATCGACCATAAAAGTTGCGTAGAATCTGACTAAAA
21833 CAGAAAGGAC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.28
Consensus pattern (64 bp):
TATGCAACAGTTGATGGTCTGAGAGTCAATCGACCATAAAAGTTGCGTAGAATCTGACTAAAAA
Found at i:30378 original size:15 final size:14
Alignment explanation
Indices: 30358--30387 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30348 ACTTTCTTCG
30358 TAAAATAAAAGAAAA
1 TAAAAT-AAAGAAAA
30373 TAAAATAAAGAAAA
1 TAAAATAAAGAAAA
30387 T
1 T
30388 TTGGTTAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.77, C:0.00, G:0.07, T:0.17
Consensus pattern (14 bp):
TAAAATAAAGAAAA
Found at i:30887 original size:7 final size:7
Alignment explanation
Indices: 30875--30905 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
30865 AAATAGGGAA
30875 CAATAGG
1 CAATAGG
30882 CAATAGG
1 CAATAGG
30889 CAATAGG
1 CAATAGG
30896 CAATAGG
1 CAATAGG
30903 CAA
1 CAA
30906 ACCCAAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.45, C:0.16, G:0.26, T:0.13
Consensus pattern (7 bp):
CAATAGG
Found at i:36961 original size:104 final size:104
Alignment explanation
Indices: 36788--37016 Score: 226
Period size: 104 Copynumber: 2.2 Consensus size: 104
36778 GTTGCGATAC
* ** * * *
36788 TAAATCAACTAACTCAAATAATCAGGGGTTGCGGTCTTAAATCAGCAAGCCTTAATAGAATCAAT
1 TAAATCAACTAACTCAAATAATCAGGGGCTGCAATATTAAATCAGCAAGCCTTAATAAAATCAAC
* * ** * *** *
36853 TGTGAACGCTGGTCAGCGAGTTGTTCGAAGTTGTGATCT
66 TGTGAACGATGATCAGCGAACTGTTCGAAATTACAATCG
* * ** * *
36892 TAAATCAACTAACTCAAATAAT-TGGAGGCTGCAATATTAAATCGGTGAGGCTTAATAAAATCAG
1 TAAATCAACTAACTCAAATAATCAGG-GGCTGCAATATTAAATCAGCAAGCCTTAATAAAATCAA
* *
36956 CTGTGAATGATGATCAGCGAACTGTTTGAAATTACAATCG
65 CTGTGAACGATGATCAGCGAACTGTTCGAAATTACAATCG
*
36996 TAAATTAACTAACTCAAATAA
1 TAAATCAACTAACTCAAATAA
37017 CTGAAGCTTG
Statistics
Matches: 100, Mismatches: 24, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
103 2 0.02
104 98 0.98
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (104 bp):
TAAATCAACTAACTCAAATAATCAGGGGCTGCAATATTAAATCAGCAAGCCTTAATAAAATCAAC
TGTGAACGATGATCAGCGAACTGTTCGAAATTACAATCG
Found at i:38699 original size:17 final size:17
Alignment explanation
Indices: 38642--38699 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 17
38632 TGATCGCATC
38642 CAAAATTGACATAAACT
1 CAAAATTGACATAAACT
*
38659 CAAAAGTGACATAAAC-
1 CAAAATTGACATAAACT
* **
38675 CTATAATTGATTTAAACT
1 C-AAAATTGACATAAACT
38693 CAAAATT
1 CAAAATT
38700 AATTTAACTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 1 0.03
17 31 0.94
18 1 0.03
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.28
Consensus pattern (17 bp):
CAAAATTGACATAAACT
Found at i:43933 original size:108 final size:105
Alignment explanation
Indices: 43816--44020 Score: 243
Period size: 108 Copynumber: 1.9 Consensus size: 105
43806 TTTGTTTATT
* * * * * * *
43816 TTTTATATTTTGATATATATATGCATACTTACATACATATATTTTTTATATTTTAT-TTTCTTCA
1 TTTTATATTTTGATATATATATACATACTAACATACACATATTTTATATAATATATAATT-TTCA
43880 ATTCATACCCATATATATATACACGCATGTATATAAAAATCTAAA
65 ATTCATA-CC---TATATATACACGCATGTATATAAAAATCTAAA
* * * * *
43925 TTTT-TATTTTTATATATATATATATGCTAACGTACCCATATTTTATATAATATATAATTTTCAA
1 TTTTATATTTTGATATATATATACATACTAACATACACATATTTTATATAATATATAATTTTCAA
43989 TTCATACCTATATATACACGCATGTATATAAA
66 TTCATACCTATATATACACGCATGTATATAAA
44021 TGTATAAAAA
Statistics
Matches: 83, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
104 24 0.29
107 2 0.02
108 51 0.61
109 6 0.07
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (105 bp):
TTTTATATTTTGATATATATATACATACTAACATACACATATTTTATATAATATATAATTTTCAA
TTCATACCTATATATACACGCATGTATATAAAAATCTAAA
Found at i:44329 original size:8 final size:8
Alignment explanation
Indices: 44316--44346 Score: 53
Period size: 8 Copynumber: 3.8 Consensus size: 8
44306 AAAACAAAAG
44316 GAGAGAAA
1 GAGAGAAA
44324 GAGAGAAA
1 GAGAGAAA
44332 GAGAGAAAA
1 GAGAG-AAA
44341 GAGAGA
1 GAGAGA
44347 GTTGAGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 14 0.64
9 8 0.36
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (8 bp):
GAGAGAAA
Found at i:44799 original size:30 final size:30
Alignment explanation
Indices: 44759--45136 Score: 223
Period size: 30 Copynumber: 12.9 Consensus size: 30
44749 AAAAATCATG
**
44759 TTTTGA-CCTTAAACTTTTTTAAAATTACA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
*
44788 TTTTGACCCTTAAACTTTTCCAAAATTGA-T
1 TTTTGACCCTTAAACTTTTCCAAAATT-ACA
* * * * *
44818 TTTTAACCCTTAAAATTTTTCAAAACTATA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
*
44848 TTTTAACCCTTAAACTTTTCCAAAATTACA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
* *
44878 TTTTGACCCCCTAAAATTTTCCAAAATTACA
1 TTTTGA-CCCTTAAACTTTTCCAAAATTACA
* * *
44909 TTTTGACCCTTACACTTCTCTAAAATTACA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
* * * *
44939 TTTTTTA-TC-TGAAC--TTCCAAAAATCACA
1 -TTTTGACCCTTAAACTTTTCC-AAAATTACA
* * *
44967 TTTT-ACCCTCAAACTTATCAAAAATTACA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
** * *
44996 TTTTTG-CCCTCGAAC--TTCAAAAAATCACA
1 -TTTTGACCCTTAAACTTTTC-CAAAATTACA
* * * *
45025 TTTT-TCCC-CAAACTTCTCAAAAATTACA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
* * * * *
45053 TTTTG-CCCTTGAACTTCT-AAAAATCATA
1 TTTTGACCCTTAAACTTTTCCAAAATTACA
* * *
45081 TTTTTAACC-TGAAC-TTTCCTAAAATTACA
1 TTTTGACCCTTAAACTTTTCC-AAAATTACA
* *
45110 TTTTTACCCTAAAAC-TTTCCAAAATTA
1 TTTTGACCCTTAAACTTTTCCAAAATTA
45137 TGTTTTAACC
Statistics
Matches: 275, Mismatches: 52, Indels: 44
0.74 0.14 0.12
Matches are distributed among these distances:
26 1 0.00
27 13 0.05
28 53 0.19
29 60 0.22
30 114 0.41
31 34 0.12
ACGTcount: A:0.35, C:0.22, G:0.03, T:0.39
Consensus pattern (30 bp):
TTTTGACCCTTAAACTTTTCCAAAATTACA
Found at i:44830 original size:60 final size:61
Alignment explanation
Indices: 44765--44942 Score: 232
Period size: 61 Copynumber: 2.9 Consensus size: 61
44755 CATGTTTTGA
* * * *
44765 CCTTAAACTTTTTTAAAATTACATTTTGACCCTTAAACTTTTCCAAAATT-GATTTTTAAC
1 CCTTAAAATTTTTCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTGAAC
* * * *
44825 CCTTAAAATTTTTCAAAACTATATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACC
1 CCTTAAAATTTTTCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTGAAC
* * * * *
44886 CCCTAAAATTTTCCAAAATTACATTTTGACCCTTACACTTCTCTAAAATTACATTTT
1 CCTTAAAATTTTTCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTT
44943 TTATCTGAAC
Statistics
Matches: 101, Mismatches: 16, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
60 45 0.45
61 56 0.55
ACGTcount: A:0.34, C:0.21, G:0.02, T:0.42
Consensus pattern (61 bp):
CCTTAAAATTTTTCAAAATTACATTTTGACCCTTAAACTTTTCCAAAATTACATTTTGAAC
Found at i:44981 original size:28 final size:29
Alignment explanation
Indices: 44950--45133 Score: 153
Period size: 29 Copynumber: 6.4 Consensus size: 29
44940 TTTTTATCTG
44950 AACTTCCAAAAATCACA-TTTTACCCTCA
1 AACTTCCAAAAATCACATTTTTACCCTCA
* * * *
44978 AACTTATCAAAAATTACATTTTTGCCCTCG
1 AACTT-CCAAAAATCACATTTTTACCCTCA
*
45008 AACTTCAAAAAATCACATTTTT-CCC-CA
1 AACTTCCAAAAATCACATTTTTACCCTCA
* * **
45035 AACTTCTCAAAAATTACA-TTTTGCCCTTG
1 AACTTC-CAAAAATCACATTTTTACCCTCA
* * * *
45064 AACTTCTAAAAATCATATTTTTAACCT-G
1 AACTTCCAAAAATCACATTTTTACCCTCA
* * *
45092 AACTTTCCTAAAATTACATTTTTACCCTAA
1 AAC-TTCCAAAAATCACATTTTTACCCTCA
45122 AACTTTCCAAAA
1 AAC-TTCCAAAA
45134 TTATGTTTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 14
0.77 0.15 0.09
Matches are distributed among these distances:
27 11 0.09
28 32 0.26
29 56 0.45
30 25 0.20
ACGTcount: A:0.38, C:0.25, G:0.03, T:0.35
Consensus pattern (29 bp):
AACTTCCAAAAATCACATTTTTACCCTCA
Found at i:44991 original size:57 final size:58
Alignment explanation
Indices: 44896--45114 Score: 216
Period size: 57 Copynumber: 3.8 Consensus size: 58
44886 CCCTAAAATT
* * * * * *
44896 TTCC-AAAATTACATTTTGACCCTTACACTTCTCTAAAATTACATTTTTTATCT-GAAC
1 TTCCAAAAATCACATTTT-ACCCTCAAACTTCTCAAAAATTACATTTTTGACCTCGAAC
* *
44953 TTCCAAAAATCACATTTTACCCTCAAACTTATCAAAAATTACATTTTTGCCCTCGAAC
1 TTCCAAAAATCACATTTTACCCTCAAACTTCTCAAAAATTACATTTTTGACCTCGAAC
* * * *
45011 TTCAAAAAATCACATTTTTCCC-CAAACTTCTCAAAAATTACA-TTTTGCCCTTGAAC
1 TTCCAAAAATCACATTTTACCCTCAAACTTCTCAAAAATTACATTTTTGACCTCGAAC
* * * * *
45067 TTCTAAAAATCATATTTTTAACCT-GAACTT-TCCTAAAATTACATTTTT
1 TTCCAAAAATCACA-TTTTACCCTCAAACTTCT-CAAAAATTACATTTTT
45115 ACCCTAAAAC
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
56 26 0.19
57 72 0.52
58 40 0.29
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (58 bp):
TTCCAAAAATCACATTTTACCCTCAAACTTCTCAAAAATTACATTTTTGACCTCGAAC
Found at i:45149 original size:114 final size:113
Alignment explanation
Indices: 44847--45152 Score: 285
Period size: 114 Copynumber: 2.6 Consensus size: 113
44837 TCAAAACTAT
* * *
44847 ATTTTAACCCTTAAACTTTTCCAAAATTACATTTTGACCCCCTAAAATTTTCCAAAATTACATTT
1 ATTTTAA-CCTCAAAC-TTTCCAAAATTACATTTTTA--CCCTAAAACTTTCCAAAATTACATTT
* * * **
44912 TGACCCTTACACTTCTCTAAAATTACATTTTTTATCTGAACTTCCAAAAATCAC
62 TAACCC--AAACTTCTCAAAAATTACATTTTCCATCTGAACTTCCAAAAATCAC
* * * ** * * *
44966 ATTTTACCCTCAAACTTATCAAAAATTACATTTTTGCCCTCGAAC-TTCAAAAAATCACATTTTT
1 ATTTTAACCTCAAACTT-TCCAAAATTACATTTTTACCCTAAAACTTTC-CAAAATTACATTTTA
* * * *
45030 CCCCAAACTTCTCAAAAATTACATTTTGCCCT-TGAACTTCTAAAAATCAT
64 ACCCAAACTTCTCAAAAATTACATTTT-CCATCTGAACTTCCAAAAATCAC
* **
45080 ATTTTTAACCT-GAACTTTCCTAAAATTACATTTTTACCCTAAAACTTTCCAAAATTATGTTTTA
1 A-TTTTAACCTCAAACTTTCC-AAAATTACATTTTTACCCTAAAACTTTCCAAAATTACATTTTA
45144 ACCCAAACT
64 ACCCAAACT
45153 CTCTGGAACT
Statistics
Matches: 150, Mismatches: 31, Indels: 17
0.76 0.16 0.09
Matches are distributed among these distances:
113 2 0.01
114 82 0.55
115 15 0.10
116 21 0.14
117 2 0.01
118 22 0.15
119 6 0.04
ACGTcount: A:0.35, C:0.24, G:0.03, T:0.38
Consensus pattern (113 bp):
ATTTTAACCTCAAACTTTCCAAAATTACATTTTTACCCTAAAACTTTCCAAAATTACATTTTAAC
CCAAACTTCTCAAAAATTACATTTTCCATCTGAACTTCCAAAAATCAC
Found at i:45308 original size:14 final size:15
Alignment explanation
Indices: 45273--45312 Score: 57
Period size: 14 Copynumber: 2.8 Consensus size: 15
45263 TGATTCATGA
45273 TTCGTAT-TTTATTT
1 TTCGTATATTTATTT
*
45287 TTCTTATATTTA-TT
1 TTCGTATATTTATTT
45301 TTCGTATATTTA
1 TTCGTATATTTA
45313 CTCATTCGTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 19 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.07, G:0.05, T:0.68
Consensus pattern (15 bp):
TTCGTATATTTATTT
Found at i:50606 original size:17 final size:17
Alignment explanation
Indices: 50584--50670 Score: 99
Period size: 19 Copynumber: 5.1 Consensus size: 17
50574 TTCGATGAAG
50584 AAAAAGGAAAAAAAAAA
1 AAAAAGGAAAAAAAAAA
*
50601 AAAAA-G-AAATAAAAA
1 AAAAAGGAAAAAAAAAA
* *
50616 AGAAA-GAAAAATAAAA
1 AAAAAGGAAAAAAAAAA
50632 AAAAAGGAAAAAAGAAAA
1 AAAAAGGAAAAAA-AAAA
50650 AAAAGAGGAAAAAGAAAAA
1 AAAA-AGGAAAAA-AAAAA
50669 AA
1 AA
50671 GGAGTCGAGG
Statistics
Matches: 59, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
15 13 0.22
16 12 0.20
17 11 0.19
18 8 0.14
19 14 0.24
20 1 0.02
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAGGAAAAAAAAAA
Found at i:50670 original size:1 final size:1
Alignment explanation
Indices: 50591--50653 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
50581 AAGAAAAAGG
* * * * * ** *
50591 AAAAAAAAAAAAAAAGAAATAAAAAAGAAAGAAAAATAAAAAAAAAGGAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
50654 GAGGAAAAAG
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.87, C:0.00, G:0.10, T:0.03
Consensus pattern (1 bp):
A
Found at i:50671 original size:17 final size:15
Alignment explanation
Indices: 50584--50673 Score: 81
Period size: 16 Copynumber: 5.5 Consensus size: 15
50574 TTCGATGAAG
50584 AAAAAGGAAAAAAAAA
1 AAAAAGG-AAAAAAAA
*
50600 AAAAAAGAAATAAAAA
1 AAAAAGGAAA-AAAAA
* *
50616 AGAAAGAAAAATAAAA
1 AAAAAGGAAAA-AAAA
50632 AAAAAGGAAAAAAGAAAA
1 AAAAAGG--AAAA-AAAA
*
50650 AAAAGAGGAAAAAGAA
1 AAAA-AGGAAAAAAAA
50666 AAAAAGGA
1 AAAAAGGA
50674 GTCGAGGTGA
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
15 8 0.13
16 34 0.56
17 4 0.07
18 12 0.20
19 3 0.05
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAAAGGAAAAAAAA
Found at i:51660 original size:50 final size:48
Alignment explanation
Indices: 51603--51753 Score: 158
Period size: 50 Copynumber: 3.0 Consensus size: 48
51593 AACCCAGTAT
*
51603 CTAAGAAGATGTGATGAGAAAGGTTGAAGTCACAACGACGAATCTGGTAC
1 CTAAGAAGATGTGATG-GAAAGGTTGAGGTCACAACGACGAA-CTGGTAC
* * * *** * *
51653 CTTAGAAGATGTGATTGGAGAGTTTGAGGTCACAACGGTAAACCCGATAC
1 CTAAGAAGATGTGA-TGGAAAGGTTGAGGTCACAACGACGAA-CTGGTAC
*
51703 CTAAGAAGATGTGATGGGAAACGTTGAGGTCACAACGACGAACTCGGTAC
1 CTAAGAAGATGTGAT-GGAAAGGTTGAGGTCACAACGACGAACT-GGTAC
51753 C
1 C
51754 ATGAAGAGAT
Statistics
Matches: 79, Mismatches: 19, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
49 2 0.03
50 75 0.95
51 2 0.03
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.21
Consensus pattern (48 bp):
CTAAGAAGATGTGATGGAAAGGTTGAGGTCACAACGACGAACTGGTAC
Found at i:52217 original size:39 final size:40
Alignment explanation
Indices: 52171--52266 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 40
52161 GATTGAAGAT
*
52171 TCCGATCTCTTACCCCGAACATGGGGCAGATC-ACAGTCA-
1 TCCGATCTCTTACCCCGAACATAGGGCAGATCGACA-TCAG
* *
52210 TCCGATCT-TCTACCCCGAACCTAGGGCAGATCGTCATCAG
1 TCCGATCTCT-TACCCCGAACATAGGGCAGATCGACATCAG
*
52250 T-CAATCTCTTACCCCGA
1 TCCGATCTCTTACCCCGA
52267 GCCTGAGGCA
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
38 1 0.02
39 44 0.90
40 4 0.08
ACGTcount: A:0.24, C:0.35, G:0.18, T:0.23
Consensus pattern (40 bp):
TCCGATCTCTTACCCCGAACATAGGGCAGATCGACATCAG
Found at i:52277 original size:39 final size:39
Alignment explanation
Indices: 52220--52737 Score: 248
Period size: 39 Copynumber: 13.3 Consensus size: 39
52210 TCCGATCTTC
*
52220 TACCCCGAACCT-AGGGCAGATCGTCATCAGTCAATCTCT
1 TACCCCGAGCCTGA-GGCAGATCGTCATCAGTCAATCTCT
* * * * ** *
52259 TACCCCGAGCCTGAGGCAGATTGTAATTATTTGATCTTT
1 TACCCCGAGCCTGAGGCAGATCGTCATCAGTCAATCTCT
* * * *
52298 TACCCCGAGCCT-AGGGCAAATCATCATTAGCCAATCTCT
1 TACCCCGAGCCTGA-GGCAGATCGTCATCAGTCAATCTCT
* * * *
52337 TACCCCGAGCCT-AGGGCATATCATCATTAGCCAATCTCT
1 TACCCCGAGCCTGA-GGCAGATCGTCATCAGTCAATCTCT
* * * * * *
52376 TACCCCGAGCCTAAGGCAGATTG-CAGCCATTCGATCTTT
1 TACCCCGAGCCTGAGGCAGATCGTCA-TCAGTCAATCTCT
* * * * * *
52415 TACCCCAAGCTTGAGGTAGATC-ACTATCAGCCAATTTCT
1 TACCCCGAGCCTGAGGCAGATCGTC-ATCAGTCAATCTCT
* * * * *
52454 TACCCCGAGCCTGGGGCAGATTG-CAGTCATTCGATCTTT
1 TACCCCGAGCCTGAGGCAGATCGTCA-TCAGTCAATCTCT
* * * * *
52493 TACCCCGAGGCTGGGGTAAATCGTCATCAATCAATCTCT
1 TACCCCGAGCCTGAGGCAGATCGTCATCAGTCAATCTCT
* * * * * *
52532 TACCCTGAGCCTGGGGCA-AGTTG-CAGCCAATCAATTTCT
1 TACCCCGAGCCTGAGGCAGA-TCGTCA-TCAGTCAATCTCT
* * * * * * *
52571 TACCTCGAGCCTAAGGTAGATTGT-AGTCATTCGATCTTT
1 TACCCCGAGCCTGAGGCAGATCGTCA-TCAGTCAATCTCT
* * * *
52610 TA-CCCGAGCCTGAGGCAGATCATCATTAGCCAATCTTT
1 TACCCCGAGCCTGAGGCAGATCGTCATCAGTCAATCTCT
* * * * * * * *
52648 TACCCCAAGCCTGTGACAGATTG-CAGCCATTCGATCTTT
1 TACCCCGAGCCTGAGGCAGATCGTCA-TCAGTCAATCTCT
* ** *
52687 TACCCCGAGCTTGAGGCAGATCACCATTAGTCAATCTCT
1 TACCCCGAGCCTGAGGCAGATCGTCATCAGTCAATCTCT
**
52726 TGTCCCGAGCCT
1 TACCCCGAGCCT
52738 AGGGTAGATT
Statistics
Matches: 358, Mismatches: 104, Indels: 34
0.72 0.21 0.07
Matches are distributed among these distances:
38 36 0.10
39 314 0.88
40 8 0.02
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (39 bp):
TACCCCGAGCCTGAGGCAGATCGTCATCAGTCAATCTCT
Found at i:52379 original size:78 final size:78
Alignment explanation
Indices: 52175--52471 Score: 199
Period size: 78 Copynumber: 3.8 Consensus size: 78
52165 GAAGATTCCG
* * * * * * * * * *
52175 ATCTCTTACCCCGAACATGGGGCAGATCACAGTCATCCGATCT-TCTACCCCGAACCTAGGGCAG
1 ATCTCTTACCCCGAGCCTGAGGCAGATCATAATTAGCCAATCTCT-TACCCCGAGCCTAGGGCAA
* *
52239 ATCGTCATCAGTCA
65 ATCATCATCAGCCA
** **** *
52253 ATCTCTTACCCCGAGCCTGAGGCAGATTGTAATTATTTGATCTTTTACCCCGAGCCTAGGGCAAA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCATAATTAGCCAATCTCTTACCCCGAGCCTAGGGCAAA
*
52318 TCATCATTAGCCA
66 TCATCATCAGCCA
* * * *
52331 ATCTCTTACCCCGAGCCT-AGGGCATATCATCATTAGCCAATCTCTTACCCCGAGCCTAAGGCAG
1 ATCTCTTACCCCGAGCCTGA-GGCAGATCATAATTAGCCAATCTCTTACCCCGAGCCTAGGGCAA
* ** *
52395 AT--TGCAGCCATTCG
65 ATCAT-CA-TCAGCCA
* * * * * * *
52409 ATCTTTTACCCCAAGCTTGAGGTAGATCACT-ATCAGCCAATTTCTTACCCCGAGCCTGGGGCA
1 ATCTCTTACCCCGAGCCTGAGGCAGATCA-TAATTAGCCAATCTCTTACCCCGAGCCTAGGGCA
52472 GATTGCAGTC
Statistics
Matches: 173, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
76 1 0.01
77 3 0.02
78 166 0.96
79 3 0.02
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.26
Consensus pattern (78 bp):
ATCTCTTACCCCGAGCCTGAGGCAGATCATAATTAGCCAATCTCTTACCCCGAGCCTAGGGCAAA
TCATCATCAGCCA
Found at i:52380 original size:117 final size:117
Alignment explanation
Indices: 52220--52474 Score: 316
Period size: 117 Copynumber: 2.2 Consensus size: 117
52210 TCCGATCTTC
* * * * *
52220 TACCCCGAACCTAGGGCAGATCGTCATCAGTCAATCTCTTACCCCGAGCCTGAGGCAGATTGTAA
1 TACCCCGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAAGGCAGATTGCAA
** * * *
52285 TTATTTGATCTTTTACCCCGAGCCTAG-GGCAAATCA-TCATTAGCCAATCTCT
66 CCATTCGATCTTTTACCCCAAG-CTAGAGGCAAATCACT-ATCAGCCAATCTCT
* * *
52337 TACCCCGAGCCTAGGGCATATCATCATTAGCCAATCTCTTACCCCGAGCCTAAGGCAGATTGCAG
1 TACCCCGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAAGGCAGATTGCAA
* * * *
52402 CCATTCGATCTTTTACCCCAAGCTTGAGGTAGATCACTATCAGCCAATTTCT
66 CCATTCGATCTTTTACCCCAAGCTAGAGGCAAATCACTATCAGCCAATCTCT
*
52454 TACCCCGAGCCTGGGGCAGAT
1 TACCCCGAGCCTAGGGCAGAT
52475 TGCAGTCATT
Statistics
Matches: 117, Mismatches: 19, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
116 3 0.03
117 113 0.97
118 1 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (117 bp):
TACCCCGAGCCTAGGGCAGATCATCATCAGCCAATCTCTTACCCCGAGCCTAAGGCAGATTGCAA
CCATTCGATCTTTTACCCCAAGCTAGAGGCAAATCACTATCAGCCAATCTCT
Found at i:52696 original size:116 final size:117
Alignment explanation
Indices: 52446--52707 Score: 287
Period size: 116 Copynumber: 2.2 Consensus size: 117
52436 CACTATCAGC
** * * *
52446 CAATTTCTTACCCCGAGCCTGGGGCAGATTGCAGTCATTCGATCTTTTACCCCGAGGCTGGGGTA
1 CAATTTCTTACCCCGAGCCTAAGGCAGATTGCAGTCATTCGATCTTTTACCCCGAGCCTGAGGCA
* * ** *
52511 AATCGTCATCAATCAATCTCTTACCCTGAGCCTGGGGCAAGTTGCAGCCAAT
66 AATCATCATCAACCAATCTCTTACCCCAAGCCTGGGACAAGTTGCAGCCAAT
* * *
52563 CAATTTCTTACCTCGAGCCTAAGGTAGATTGTAGTCATTCGATCTTTTA-CCCGAGCCTGAGGCA
1 CAATTTCTTACCCCGAGCCTAAGGCAGATTGCAGTCATTCGATCTTTTACCCCGAGCCTGAGGCA
* * * * * *
52627 GATCATCATTAGCCAATCTTTTACCCCAAGCCTGTGAC-AGATTGCAGCCATT
66 AATCATCATCAACCAATCTCTTACCCCAAGCCTGGGACAAG-TTGCAGCCAAT
* * *
52679 CGATCTT-TTACCCCGAGCTTGAGGCAGAT
1 CAAT-TTCTTACCCCGAGCCTAAGGCAGAT
52708 CACCATTAGT
Statistics
Matches: 119, Mismatches: 24, Indels: 5
0.80 0.16 0.03
Matches are distributed among these distances:
115 2 0.02
116 71 0.60
117 46 0.39
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.28
Consensus pattern (117 bp):
CAATTTCTTACCCCGAGCCTAAGGCAGATTGCAGTCATTCGATCTTTTACCCCGAGCCTGAGGCA
AATCATCATCAACCAATCTCTTACCCCAAGCCTGGGACAAGTTGCAGCCAAT
Found at i:52802 original size:39 final size:38
Alignment explanation
Indices: 52604--52808 Score: 134
Period size: 39 Copynumber: 5.3 Consensus size: 38
52594 TAGTCATTCG
*
52604 ATCTTTTACCCGAGCCTGAGGCAGATCATCATTAGCCA
1 ATCTTTTACCCGAGCCTGAGGCAGATCACCATTAGCCA
* * * *
52642 ATCTTTTACCCCAAGCCTGTGACAGATTGCAGCCATT---CG
1 ATCTTTTA-CCCGAGCCTGAGGCAGA-T-CA-CCATTAGCCA
* *
52681 ATCTTTTACCCCGAGCTTGAGGCAGATCACCATTAGTCA
1 ATCTTTTA-CCCGAGCCTGAGGCAGATCACCATTAGCCA
* * * * *
52720 ATCTCTTGT-CCCGAGCCT-AGGGTAGATTA-CAGTCATCCG
1 ATCT-TT-TACCCGAGCCTGA-GGCAGATCACCA-TTAGCCA
* * *
52759 ATCTTTTACCTCGAGCCTGGGGTAAATCACCATTAGCCA
1 ATCTTTTACC-CGAGCCTGAGGCAGATCACCATTAGCCA
*
52798 ATCTTTCACCC
1 ATCTTTTACCC
52809 CGACCATGGG
Statistics
Matches: 128, Mismatches: 24, Indels: 30
0.70 0.13 0.16
Matches are distributed among these distances:
36 5 0.04
37 3 0.02
38 17 0.13
39 91 0.71
40 5 0.04
41 3 0.02
42 4 0.03
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (38 bp):
ATCTTTTACCCGAGCCTGAGGCAGATCACCATTAGCCA
Found at i:52811 original size:78 final size:76
Alignment explanation
Indices: 52570--52811 Score: 270
Period size: 78 Copynumber: 3.1 Consensus size: 76
52560 AATCAATTTC
* * * *
52570 TTACCTCGAGCCTAAGGTAGATTGTAGTCATTCGATCTTTTACCCGAGCCTGAGGCAGATCATCA
1 TTACCCCGAGCCTAGGGTAGATTGCAGTCATTCGATCTTTTACCCGAGCCTGAGGCAGATCACCA
52635 TTAGCCAATCTT
66 TTAGCCAATC-T
* ** * *
52647 TTACCCCAAGCCT-GTGACAGATTGCAGCCATTCGATCTTTTACCCCGAGCTTGAGGCAGATCAC
1 TTACCCCGAGCCTAG-GGTAGATTGCAGTCATTCGATCTTTTA-CCCGAGCCTGAGGCAGATCAC
*
52711 CATTAGTCAATCT
64 CATTAGCCAATCT
** * * * * *
52724 CTTGTCCCGAGCCTAGGGTAGATTACAGTCATCCGATCTTTTACCTCGAGCCTGGGGTAAATCAC
1 -TTACCCCGAGCCTAGGGTAGATTGCAGTCATTCGATCTTTTACC-CGAGCCTGAGGCAGATCAC
52789 CATTAGCCAATCT
64 CATTAGCCAATCT
52802 TTCACCCCGA
1 TT-ACCCCGA
52812 CCATGGGGCA
Statistics
Matches: 134, Mismatches: 25, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
77 39 0.29
78 94 0.70
79 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (76 bp):
TTACCCCGAGCCTAGGGTAGATTGCAGTCATTCGATCTTTTACCCGAGCCTGAGGCAGATCACCA
TTAGCCAATCT
Found at i:52846 original size:272 final size:273
Alignment explanation
Indices: 52331--52846 Score: 666
Period size: 272 Copynumber: 1.9 Consensus size: 273
52321 TCATTAGCCA
* * *
52331 ATCTCTTACCCCGAGCCTAGGGCATATCATCATTAGCCAATCTCTTACCCCGAGCCTAAGGCAGA
1 ATCTCTTACCCCGAGCCTAGGGCAGATCATCATTAGCCAATCTCTTACCCCAAGCCTAAGACAGA
* * *
52396 TTGCAGCCATTCGATCTTTTACCCCAAGCTTGAGGTAGATCACTATCAGCCAATTTCTTACCCCG
66 TTGCAGCCATTCGATCTTTTACCCCAAGCTTGAGGCAGATCACCATCAGCCAATCTCTTACCCCG
* * * * ** *
52461 AGCCTGGGGCAGATTGCAGTCATTCGATCTTTTACCCCGAGGCTGGGGTAAATCGTCATCAATCA
131 AGCCTAGGGCAGATTACAGTCATCCGATCTTTTACCCCGAGCCTGGGGTAAATCACCATCAACCA
* * *
52526 ATCTCTTACCCTGAGCCTGGGGCAAGTTGCAGCCAATCAATTTCTTACCTCGAGCCTAAGGTAGA
196 ATCTCTTACCCCGAGCCTGGGGCAAGTTGCAGACAATCAATCTCTTACCTCGAGCCTAAGGTAGA
52591 TTGTAGTCATTCG
261 TTGTAGTCATTCG
* * **
52604 ATCTTTTA-CCCGAGCCT-GAGGCAGATCATCATTAGCCAATCTTTTACCCCAAGCCTGTGACAG
1 ATCTCTTACCCCGAGCCTAG-GGCAGATCATCATTAGCCAATCTCTTACCCCAAGCCTAAGACAG
* * * **
52667 ATTGCAGCCATTCGATCTTTTACCCCGAGCTTGAGGCAGATCACCATTAGTCAATCTCTTGTCCC
65 ATTGCAGCCATTCGATCTTTTACCCCAAGCTTGAGGCAGATCACCATCAGCCAATCTCTTACCCC
* * * *
52732 GAGCCTAGGGTAGATTACAGTCATCCGATCTTTTACCTCGAGCCTGGGGTAAATCACCATTAGCC
130 GAGCCTAGGGCAGATTACAGTCATCCGATCTTTTACCCCGAGCCTGGGGTAAATCACCATCAACC
**
52797 AATCT-TTCACCCCGA-CCATGGGGC-AGATTTTAGAC-ATCCAATCTCTTACC
195 AATCTCTT-ACCCCGAGCC-TGGGGCAAG-TTGCAGACAAT-CAATCTCTTACC
52847 CCAATCATGG
Statistics
Matches: 207, Mismatches: 31, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
271 9 0.04
272 191 0.92
273 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (273 bp):
ATCTCTTACCCCGAGCCTAGGGCAGATCATCATTAGCCAATCTCTTACCCCAAGCCTAAGACAGA
TTGCAGCCATTCGATCTTTTACCCCAAGCTTGAGGCAGATCACCATCAGCCAATCTCTTACCCCG
AGCCTAGGGCAGATTACAGTCATCCGATCTTTTACCCCGAGCCTGGGGTAAATCACCATCAACCA
ATCTCTTACCCCGAGCCTGGGGCAAGTTGCAGACAATCAATCTCTTACCTCGAGCCTAAGGTAGA
TTGTAGTCATTCG
Found at i:54577 original size:398 final size:398
Alignment explanation
Indices: 53841--54637 Score: 1515
Period size: 398 Copynumber: 2.0 Consensus size: 398
53831 AAAAATTTCA
53841 AAAAACCCTAATTTGCAAGTTGTTAGCTACTGCCACTCCTCACCCAACCAGCCTCTCCCATGTCA
1 AAAAACCCTAATTTGCAAGTTGTTAGCTACTGCCACTCCTCACCCAACCAGCCTCTCCCATGTCA
53906 GCTTCCACCACCAGCACCATCCACCACTTGCCACTGCCACCACGTGAAAATACCTGCAAAAAAAC
66 GCTTCCACCACCAGCACCATCCACCACTTGCCACTGCCACCACGTGAAAATACCTGCAAAAAAAC
*
53971 AGAGAAGACAAGACAGCAAAAGCAAGAAAAATAATGAAAAAATGCAAATTATAATGACTATAAAA
131 AGAGAAGACAAAACAGCAAAAGCAAGAAAAATAATGAAAAAATGCAAATTATAATGACTATAAAA
54036 AGCCAACAAAAACTATAAAGAGAGCCGATTTGTTTCCCTTTCGATTTTCACACGAAATTAATAAA
196 AGCCAACAAAAACTATAAAGAGAGCCGATTTGTTTCCCTTTCGATTTTCACACGAAATTAATAAA
*
54101 AAGATAGAAAAAAAAAGAAGAAGATTCAAGCAAAGACAACTCTACATATTATTTTCGCAAGGTAT
261 AAGATAGAAAAAAAAAGAAGAAGATTCAAGCAAAGACAACTCTACATATTATTTTCGCAAAGTAT
54166 ACTAAAACCTATGCATATACATATACCTAACATATATTTTTGTTTGTTTATTTTTTTATATTTTG
326 ACTAAAACCTATGCATATACATATACCTAACATATATTTTTGTTTGTTTATTTTTTTATATTTTG
54231 ACATATAT
391 ACATATAT
*
54239 AAAAACCCTAATTTGCAAGTTGTTAGCTACTGTCACTCCTCACCCAACCAGCCTCTCCCATGTCA
1 AAAAACCCTAATTTGCAAGTTGTTAGCTACTGCCACTCCTCACCCAACCAGCCTCTCCCATGTCA
54304 GCTTCCACCACCAGCACCATCCACCACTTGCCACTGCCACCACGTGAAAATACCTGCAAAAAAAC
66 GCTTCCACCACCAGCACCATCCACCACTTGCCACTGCCACCACGTGAAAATACCTGCAAAAAAAC
* *
54369 AGAGAAGACAAAACAGCAAAAGCAAGAAAAATAATTAAAAAATGCAAATTGTAATGACTATAAAA
131 AGAGAAGACAAAACAGCAAAAGCAAGAAAAATAATGAAAAAATGCAAATTATAATGACTATAAAA
* *
54434 AGCCAACAAAAACTGTAAAGAGAGCCGATTTTTTTCCCTTTCGATTTTCACACGAAATTAATAAA
196 AGCCAACAAAAACTATAAAGAGAGCCGATTTGTTTCCCTTTCGATTTTCACACGAAATTAATAAA
54499 AAGATAGCAAAAAAAAA-AAGAAGATTCAAGCAAAGACAACTCTACATATTATTTTCGCAAAGTA
261 AAGATAG-AAAAAAAAAGAAGAAGATTCAAGCAAAGACAACTCTACATATTATTTTCGCAAAGTA
54563 TACTAAAACCTATGCATATACATATACCTAACATATATTTTTGTTTGTTTATTTTTTTATATTTT
325 TACTAAAACCTATGCATATACATATACCTAACATATATTTTTGTTTGTTTATTTTTTTATATTTT
54628 GACATATAT
390 GACATATAT
54637 A
1 A
54638 TGCATACTTA
Statistics
Matches: 391, Mismatches: 7, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
398 382 0.98
399 9 0.02
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.26
Consensus pattern (398 bp):
AAAAACCCTAATTTGCAAGTTGTTAGCTACTGCCACTCCTCACCCAACCAGCCTCTCCCATGTCA
GCTTCCACCACCAGCACCATCCACCACTTGCCACTGCCACCACGTGAAAATACCTGCAAAAAAAC
AGAGAAGACAAAACAGCAAAAGCAAGAAAAATAATGAAAAAATGCAAATTATAATGACTATAAAA
AGCCAACAAAAACTATAAAGAGAGCCGATTTGTTTCCCTTTCGATTTTCACACGAAATTAATAAA
AAGATAGAAAAAAAAAGAAGAAGATTCAAGCAAAGACAACTCTACATATTATTTTCGCAAAGTAT
ACTAAAACCTATGCATATACATATACCTAACATATATTTTTGTTTGTTTATTTTTTTATATTTTG
ACATATAT
Found at i:55389 original size:11 final size:11
Alignment explanation
Indices: 55375--55399 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55365 ATCATTAATG
55375 TTATTTTAAAT
1 TTATTTTAAAT
55386 TTATTTTAAAT
1 TTATTTTAAAT
55397 TTA
1 TTA
55400 CCCAATAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTATTTTAAAT
Found at i:55686 original size:30 final size:30
Alignment explanation
Indices: 55499--55705 Score: 172
Period size: 30 Copynumber: 6.9 Consensus size: 30
55489 TCTAGTGGGT
* *
55499 CCTTAAAC-TTTCTAAAAATTATGTTTTGA-
1 CCTTAAACTTTTC-CAAAATTATATTTTGAC
* * ** * *
55528 CTTTAAAATTTTCTTAAATTACATTTTAACC
1 CCTTAAACTTTTCCAAAATTATATTTTGA-C
**
55559 CCAAAAACTTTTCCAAAATTGA-ATTTT-AGC
1 CCTTAAACTTTTCCAAAATT-ATATTTTGA-C
*
55589 CCTTAAAATTTTCCAAAATTATATTTTGAC
1 CCTTAAACTTTTCCAAAATTATATTTTGAC
** * *
55619 CCCCAAACTTTTCCAAAATTACATTTTAAC
1 CCTTAAACTTTTCCAAAATTATATTTTGAC
*
55649 CCTTAAACTTTTTCAAAATTATATTTTGAC
1 CCTTAAACTTTTCCAAAATTATATTTTGAC
* *
55679 CAC-TAAACTTCTCAAAAATTATATTTT
1 C-CTTAAACTTTTCCAAAATTATATTTT
55706 TCCCCTAACT
Statistics
Matches: 141, Mismatches: 30, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
29 18 0.13
30 101 0.72
31 21 0.15
32 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.03, T:0.42
Consensus pattern (30 bp):
CCTTAAACTTTTCCAAAATTATATTTTGAC
Found at i:55713 original size:29 final size:29
Alignment explanation
Indices: 55603--55905 Score: 203
Period size: 30 Copynumber: 10.4 Consensus size: 29
55593 AAAATTTTCC
* * * *
55603 AAAATTATATTTTGACCCCCAAACTTTTCC
1 AAAATTATATTTT-TCCCCTAAACTTCTCA
* * * *
55633 AAAATTACATTTTAACCCTTAAACTTTTTC-
1 AAAATTATATTTT-TCCCCTAAAC-TTCTCA
* *
55663 AAAATTATATTTTGACCACTAAACTTCTCA
1 AAAATTATATTTT-TCCCCTAAACTTCTCA
*
55693 AAAATTATATTTTTCCCCT-AACTTC-AA
1 AAAATTATATTTTTCCCCTAAACTTCTCA
* *
55720 AAAATTACATTTTTACCCCTAAACTTCTAA
1 AAAATTATATTTTT-CCCCTAAACTTCTCA
* *
55750 AAAATTACATTTTTCCCTTAAACTTC-CA
1 AAAATTATATTTTTCCCCTAAACTTCTCA
* * *
55778 AAAATCACATTTTTACCCCCAAAACTTCT-A
1 AAAATTATATTTTT--CCCCTAAACTTCTCA
*
55808 AAAATCATATTTTTTACCCCTAAACTTC-CA
1 AAAATTATA-TTTTT-CCCCTAAACTTCTCA
* * * *
55838 AAAATCACA-TTTTACCCTCAAACTTCT-T
1 AAAATTATATTTTTCCCCT-AAACTTCTCA
* * * *
55866 AAAATTTTATTTTGCCCCTGAACTT-TCC
1 AAAATTATATTTTTCCCCTAAACTTCTCA
55894 AAAATTAT-TTTT
1 AAAATTATATTTT
55906 AACCCTGAAC
Statistics
Matches: 227, Mismatches: 32, Indels: 31
0.78 0.11 0.11
Matches are distributed among these distances:
27 23 0.10
28 54 0.24
29 32 0.14
30 108 0.48
31 10 0.04
ACGTcount: A:0.36, C:0.24, G:0.01, T:0.39
Consensus pattern (29 bp):
AAAATTATATTTTTCCCCTAAACTTCTCA
Found at i:55754 original size:30 final size:30
Alignment explanation
Indices: 55543--55869 Score: 246
Period size: 30 Copynumber: 11.1 Consensus size: 30
55533 AAATTTTCTT
* * * *
55543 AAATTACATTTTAACCCCAAAAACTTTTCCA
1 AAATTACATTTTTACCCC-TAAACTTCTCAA
* * * *
55574 AAATTGA-A-TTTTAGCCCTTAAAATTTTCCA
1 AAATT-ACATTTTTA-CCCCTAAACTTCTCAA
* * * * *
55604 AAATTATATTTTGACCCCCAAACTTTTCCA
1 AAATTACATTTTTACCCCTAAACTTCTCAA
* * *
55634 AAATTACATTTTAACCCTTAAACTTTTTC-A
1 AAATTACATTTTTACCCCTAAAC-TTCTCAA
* * *
55664 AAATTATATTTTGACCACTAAACTTCTCAA
1 AAATTACATTTTTACCCCTAAACTTCTCAA
* *
55694 AAATTATATTTTT-CCCCT-AACTTC-AAA
1 AAATTACATTTTTACCCCTAAACTTCTCAA
*
55721 AAATTACATTTTTACCCCTAAACTTCTAAA
1 AAATTACATTTTTACCCCTAAACTTCTCAA
*
55751 AAATTACATTTTT-CCCTTAAACTTC-CAA
1 AAATTACATTTTTACCCCTAAACTTCTCAA
* *
55779 AAATCACATTTTTACCCCCAAAACTTCT-AA
1 AAATTACATTTTTA-CCCCTAAACTTCTCAA
* *
55809 AAATCATATTTTTTACCCCTAAACTTC-CAA
1 AAATTACA-TTTTTACCCCTAAACTTCTCAA
* *
55839 AAATCACA-TTTTA-CCCTCAAACTTCTTAA
1 AAATTACATTTTTACCCCT-AAACTTCTCAA
55868 AA
1 AA
55870 TTTTATTTTG
Statistics
Matches: 250, Mismatches: 30, Indels: 34
0.80 0.10 0.11
Matches are distributed among these distances:
27 18 0.07
28 37 0.15
29 30 0.12
30 140 0.56
31 24 0.10
32 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.01, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTTACCCCTAAACTTCTCAA
Found at i:55811 original size:58 final size:58
Alignment explanation
Indices: 55683--55897 Score: 258
Period size: 58 Copynumber: 3.7 Consensus size: 58
55673 TTTGACCACT
* * * *
55683 AAACTTCTCAAAAATTATATTTTTCCCCT-AACTTCAAAAAATTACATTTTTACCCCT
1 AAACTTCTAAAAAATTATATTTTTCCCCTAAACTTCCAAAAATCACATTTTTACCCCC
* *
55740 AAACTTCTAAAAAATTACATTTTTCCCTTAAACTTCCAAAAATCACATTTTTACCCCC
1 AAACTTCTAAAAAATTATATTTTTCCCCTAAACTTCCAAAAATCACATTTTTACCCCC
* *
55798 AAAACTTCT-AAAAATCATATTTTTTACCCCTAAACTTCCAAAAATCACA-TTTTACCCTC
1 -AAACTTCTAAAAAATTATA-TTTTT-CCCCTAAACTTCCAAAAATCACATTTTTACCCCC
* * * *
55857 AAACTTCT-TAAAATTTTATTTTGCCCCTGAACTTTCCAAAA
1 AAACTTCTAAAAAATTATATTTTTCCCCTAAAC-TTCCAAAA
55898 TTATTTTTAA
Statistics
Matches: 138, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
56 8 0.06
57 38 0.28
58 48 0.35
59 22 0.16
60 22 0.16
ACGTcount: A:0.37, C:0.26, G:0.01, T:0.36
Consensus pattern (58 bp):
AAACTTCTAAAAAATTATATTTTTCCCCTAAACTTCCAAAAATCACATTTTTACCCCC
Found at i:56062 original size:15 final size:15
Alignment explanation
Indices: 56042--56086 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
56032 TGATTCATAT
*
56042 TTTATTTTTCTTATA
1 TTTATTTTTCGTATA
56057 TTTA-TTTTCGTATA
1 TTTATTTTTCGTATA
*
56071 TTTATTCATTCGTATA
1 TTTATT-TTTCGTATA
56087 ATTGTTCGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 13 0.50
15 5 0.19
16 8 0.31
ACGTcount: A:0.22, C:0.09, G:0.04, T:0.64
Consensus pattern (15 bp):
TTTATTTTTCGTATA
Found at i:58047 original size:20 final size:20
Alignment explanation
Indices: 57981--58049 Score: 61
Period size: 20 Copynumber: 3.4 Consensus size: 20
57971 TAAATTAAAA
* *
57981 AAAAATTTTA-AAAATACTT
1 AAAATTTTTATAAAATACAT
*
58000 AAAAATCTTTTCATAAAA-ATAT
1 -AAAAT-TTTT-ATAAAATACAT
58022 ATAAATTTTTATAAAATACAT
1 A-AAATTTTTATAAAATACAT
58043 AAAATTT
1 AAAATTT
58050 AAAAGCGAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
20 16 0.40
21 13 0.32
22 7 0.17
23 4 0.10
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAATTTTTATAAAATACAT
Found at i:59599 original size:31 final size:31
Alignment explanation
Indices: 59561--59671 Score: 97
Period size: 31 Copynumber: 3.7 Consensus size: 31
59551 TTAATATAAC
59561 ATTTGATACTTGAACTTGATACTTTTTCCTA
1 ATTTGATACTTGAACTTGATACTTTTTCCTA
* * *
59592 ATTTGATACCT-AAATT--T-TTTTTGATCC-A
1 ATTTGATACTTGAACTTGATACTTTT--TCCTA
* *
59620 ATTTAATACTTGAACTTGATACTTTTTCTTA
1 ATTTGATACTTGAACTTGATACTTTTTCCTA
* * *
59651 ATTTGGTACATGAATTTGATA
1 ATTTGATACTTGAACTTGATA
59672 TATTTTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
27 4 0.07
28 11 0.18
29 7 0.11
30 6 0.10
31 29 0.48
32 4 0.07
ACGTcount: A:0.29, C:0.13, G:0.10, T:0.49
Consensus pattern (31 bp):
ATTTGATACTTGAACTTGATACTTTTTCCTA
Found at i:59993 original size:109 final size:109
Alignment explanation
Indices: 59880--60213 Score: 248
Period size: 109 Copynumber: 3.1 Consensus size: 109
59870 AGATTAGGTA
59880 TGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCTA
1 TGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCTA
59945 AATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGT
66 AATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGT
* * * ** ** * *** *
59989 TGAATTT--T-TTTTATTATGCTACAAAAATATTG--TCAG----TTTTAGAGAAAATTCATGTT
1 TGAATTTGATATTTT-TTTTTCT--TAATTTGGTGCCTAAGCTTTTTTTAGATTCAATT--TGGT
* * * * ** * *
60045 A---AAAGTAGGTATTGAGTTATGCTTA-ACAAATTAATATAAAAAAATATTA-GGT-A
61 ACCTAAA-T--TTATT-A--AAT-ATTACAAAAATT-ATGCAAAACAATA--ACGGTGT
60098 TGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCTA
1 TGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCTA
60163 AATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGT
66 AATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGT
60207 TGAATTT
1 TGAATTT
60214 TTTTTATTAT
Statistics
Matches: 155, Mismatches: 40, Indels: 60
0.61 0.16 0.24
Matches are distributed among these distances:
102 3 0.02
103 12 0.08
105 8 0.05
106 5 0.03
107 10 0.06
108 11 0.07
109 57 0.37
110 11 0.07
111 10 0.06
112 5 0.03
113 8 0.05
115 12 0.08
116 3 0.02
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (109 bp):
TGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCTA
AATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGT
Found at i:60088 original size:218 final size:218
Alignment explanation
Indices: 59660--60316 Score: 1271
Period size: 218 Copynumber: 3.0 Consensus size: 218
59650 AATTTGGTAC
59660 ATGAATTTGATATATTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACC
1 ATGAATTTGATAT-TTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACC
59725 TAAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAA-TTTTTTTATTATGC
65 TAAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAATTTTTTTTATTATGC
59789 TACAAAAATATTGCCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACA
130 TACAAAAATATTGCCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACA
59854 AATTAATATAAAAAAAAGATTAGGT
195 AATTAATAT-AAAAAAAGATTAGGT
59879 ATGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCT
1 ATGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCT
59944 AAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAATTTTTTTTATTATGCT
66 AAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAATTTTTTTTATTATGCT
*
60009 ACAAAAATATTGTCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACAA
131 ACAAAAATATTGCCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACAA
*
60074 ATTAATATAAAAAAATATTAGGT
196 ATTAATATAAAAAAAGATTAGGT
60097 ATGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCT
1 ATGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCT
60162 AAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAATTTTTTTTATTATGCT
66 AAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAATTTTTTTTATTATGCT
60227 ACAAAAATATTGCCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACAA
131 ACAAAAATATTGCCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACAA
60292 ATTAATATAAAAAAAGATTAGGT
196 ATTAATATAAAAAAAGATTAGGT
60315 AT
1 AT
60317 CAAATTAGAA
Statistics
Matches: 433, Mismatches: 4, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
218 333 0.77
219 100 0.23
ACGTcount: A:0.37, C:0.08, G:0.13, T:0.41
Consensus pattern (218 bp):
ATGAATTTGATATTTTTTTTTCTTAATTTGGTGCCTAAGCTTTTTTTAGATTCAATTTGGTACCT
AAATTTATTAAATATTACAAAAATTATGCAAAACAATAACGGTGTTGAATTTTTTTTATTATGCT
ACAAAAATATTGCCAGTTTTAGAGAAAATTCATGTTAAAAGTAGGTATTGAGTTATGCTTAACAA
ATTAATATAAAAAAAGATTAGGT
Found at i:65319 original size:145 final size:145
Alignment explanation
Indices: 65103--65393 Score: 546
Period size: 145 Copynumber: 2.0 Consensus size: 145
65093 GCTATCACAC
* *
65103 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAATGGGGATCTTCTATAATTTCGCACT
1 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
*
65168 TGAGGGGTTATTTTTTGGTTTTGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
66 TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
65233 AGAAACAACGCTCAT
131 AGAAACAACGCTCAT
65248 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
1 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
*
65313 TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGGTTATTTTTAGATAATAGTATAT
66 TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
65378 AGAAACAACGCTCAT
131 AGAAACAACGCTCAT
65393 A
1 A
65394 AGGAGTCCTT
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (145 bp):
ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
AGAAACAACGCTCAT
Found at i:67718 original size:16 final size:17
Alignment explanation
Indices: 67695--67733 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
67685 ATAACAACCT
*
67695 ATAA-AAAAATAATAAA
1 ATAACAAAAATAAGAAA
67711 A-AACAAAAATAAGAAA
1 ATAACAAAAATAAGAAA
67727 ATAACAA
1 ATAACAA
67734 TTTTTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (17 bp):
ATAACAAAAATAAGAAA
Found at i:75883 original size:145 final size:145
Alignment explanation
Indices: 75667--75957 Score: 546
Period size: 145 Copynumber: 2.0 Consensus size: 145
75657 GCTATCACAC
* *
75667 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAATGGGGATCTTCTATAATTTCGCACT
1 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
*
75732 TGAGGGGTTATTTTTTGGTTTTGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
66 TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
75797 AGAAACAACGCTCAT
131 AGAAACAACGCTCAT
75812 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
1 ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
*
75877 TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGGTTATTTTTAGATAATAGTATAT
66 TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
75942 AGAAACAACGCTCAT
131 AGAAACAACGCTCAT
75957 A
1 A
75958 AGGAGTCCTT
Statistics
Matches: 142, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
145 142 1.00
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (145 bp):
ATACAATCATATTCAATTCGATGAAATTGTTTGATCTTAAAGGGGATCTTCTATAATTTCGCACG
TGAGGGGTTATTTTTTGGTTTCGTCCAGTCATTAATAACTTGATTATTTTTAGATAATAGTATAT
AGAAACAACGCTCAT
Found at i:78282 original size:16 final size:17
Alignment explanation
Indices: 78259--78297 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
78249 ATAACAACCT
*
78259 ATAA-AAAAATAATAAA
1 ATAACAAAAATAAGAAA
78275 A-AACAAAAATAAGAAA
1 ATAACAAAAATAAGAAA
78291 ATAACAA
1 ATAACAA
78298 TTTTTTTGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 13 0.65
17 5 0.25
ACGTcount: A:0.79, C:0.05, G:0.03, T:0.13
Consensus pattern (17 bp):
ATAACAAAAATAAGAAA
Found at i:81955 original size:17 final size:18
Alignment explanation
Indices: 81935--81971 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
81925 GGATGATGAA
81935 TTTAAAGGTTA-TGGGTC
1 TTTAAAGGTTATTGGGTC
*
81952 TTTAATGGTTATTGGGTC
1 TTTAAAGGTTATTGGGTC
81970 TT
1 TT
81972 CTTGAAAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.05, G:0.27, T:0.49
Consensus pattern (18 bp):
TTTAAAGGTTATTGGGTC
Found at i:88807 original size:16 final size:17
Alignment explanation
Indices: 88784--88822 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
88774 ATAACAACCT
88784 ATAA-AAAAATAAGAAA
1 ATAACAAAAATAAGAAA
88800 A-AACAAAAATAAGAAA
1 ATAACAAAAATAAGAAA
88816 ATAACAA
1 ATAACAA
88823 TTTTTTTGAC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 2 0.10
16 14 0.67
17 5 0.24
ACGTcount: A:0.79, C:0.05, G:0.05, T:0.10
Consensus pattern (17 bp):
ATAACAAAAATAAGAAA
Found at i:90852 original size:11 final size:11
Alignment explanation
Indices: 90836--90860 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
90826 AACTTCAAGG
90836 CAAATTTAAAA
1 CAAATTTAAAA
90847 CAAATTTAAAA
1 CAAATTTAAAA
90858 CAA
1 CAA
90861 CATAAGGAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (11 bp):
CAAATTTAAAA
Found at i:92196 original size:21 final size:22
Alignment explanation
Indices: 92170--92224 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
92160 AATTTAAGGT
92170 TTGGTTT-TGATGGGCTTGTAA
1 TTGGTTTGTGATGGGCTTGTAA
*
92191 TTGGTTTAGGTGATGGGTTTGTAA
1 TTGGTTT--GTGATGGGCTTGTAA
*
92215 TTGGGTTGTG
1 TTGGTTTGTG
92225 GGTTAGGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 7 0.24
22 3 0.10
24 19 0.66
ACGTcount: A:0.13, C:0.02, G:0.38, T:0.47
Consensus pattern (22 bp):
TTGGTTTGTGATGGGCTTGTAA
Found at i:95637 original size:25 final size:25
Alignment explanation
Indices: 95616--95662 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
95606 TCCAATTAGG
95616 AAATTAT-TATTTAG-ATTTAATTC
1 AAATTATCTATTTAGAATTTAATTC
*
95639 AAATTATCTTTTTAGAATTTAATT
1 AAATTATCTATTTAGAATTTAATT
95663 TGGATCCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.53
Consensus pattern (25 bp):
AAATTATCTATTTAGAATTTAATTC
Found at i:100577 original size:21 final size:20
Alignment explanation
Indices: 100526--100578 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
100516 CCTACAAAAT
*
100526 ATTATGTTTGTAACTCTCCTC
1 ATTAT-TTTGTAACTCTCATC
*
100547 ATAAGTTTTGTAACTCTCATC
1 ATTA-TTTTGTAACTCTCATC
100568 ATTATATTTGT
1 ATTAT-TTTGT
100579 TTTAAATTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.04
21 25 0.93
22 1 0.04
ACGTcount: A:0.25, C:0.17, G:0.09, T:0.49
Consensus pattern (20 bp):
ATTATTTTGTAACTCTCATC
Found at i:108783 original size:2 final size:2
Alignment explanation
Indices: 108776--108817 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
108766 GGATTTCTGG
*
108776 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
108817 T
1 T
108818 TAATGTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:108821 original size:12 final size:13
Alignment explanation
Indices: 108776--108825 Score: 61
Period size: 12 Copynumber: 4.1 Consensus size: 13
108766 GGATTTCTGG
*
108776 TATATAT-ATATA
1 TATATATAATGTA
*
108788 TATATAT-ATATA
1 TATATATAATGTA
108800 TATATATAATGTA
1 TATATATAATGTA
108813 TATAT-TAATGTA
1 TATATATAATGTA
108825 T
1 T
108826 TTGATTGAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
12 27 0.75
13 9 0.25
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (13 bp):
TATATATAATGTA
Found at i:109753 original size:14 final size:14
Alignment explanation
Indices: 109719--109757 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
109709 ATTTACCTCA
*
109719 TATTATATTTTAAT
1 TATTATATTTGAAT
*
109733 TATTTATGTTTGAAT
1 TA-TTATATTTGAAT
109748 TATTATATTT
1 TATTATATTT
109758 TAGTAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (14 bp):
TATTATATTTGAAT
Found at i:110359 original size:13 final size:15
Alignment explanation
Indices: 110332--110365 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
110322 ATATCAACTA
110332 TAAAAAATAATAATT
1 TAAAAAATAATAATT
110347 TAAAAAA-AA-AATT
1 TAAAAAATAATAATT
110360 TAAAAA
1 TAAAAA
110366 TAGTTTAATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 2 0.11
15 7 0.37
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAAATAATAATT
Found at i:111510 original size:61 final size:55
Alignment explanation
Indices: 111394--111555 Score: 166
Period size: 55 Copynumber: 2.8 Consensus size: 55
111384 TAAATTTAGG
* * *
111394 TACCAAATTGAATCTTAAAAAAAGCTTAGGTACCAAATTAGGAAAAAATATCAGA
1 TACCAAATTGAATCCTAAAAAAAGCTTAAGTACCAAATTAGAAAAAAATATCAGA
*
111449 TACCGAATTGAATCCTAGAAAAAA-CTTAAGTACCAAATTAGAAAAAAGTATCAAGTTCAGA
1 TACCAAATTGAATCCTA-AAAAAAGCTTAAGTACCAAATTAGAAAAAA--AT--A--TCAGA
** * *
111510 TACCAAATTGAAT-AAAAAAAAAGTTTAGGTACCAAATTAAGAAAAA
1 TACCAAATTGAATCCTAAAAAAAGCTTAAGTACCAAATT-AGAAAAA
111556 GTGTCAAATT
Statistics
Matches: 89, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
55 36 0.40
56 6 0.07
57 2 0.02
59 7 0.08
60 14 0.16
61 24 0.27
ACGTcount: A:0.52, C:0.12, G:0.12, T:0.23
Consensus pattern (55 bp):
TACCAAATTGAATCCTAAAAAAAGCTTAAGTACCAAATTAGAAAAAAATATCAGA
Found at i:111542 original size:29 final size:28
Alignment explanation
Indices: 111479--111555 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 28
111469 AAAACTTAAG
111479 TACCAAATT-AGAAAAAAGTATCAAGTTCAGA
1 TACCAAATTAAGAAAAAA--A--AAGTTCAGA
* * *
111510 TACCAAATTGAATAAAAAAAAAGTTTAGG
1 TACCAAATT-AAGAAAAAAAAAGTTCAGA
111539 TACCAAATTAAGAAAAA
1 TACCAAATTAAGAAAAA
111556 GTGTCAAATT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
28 7 0.17
29 16 0.40
31 10 0.25
33 7 0.17
ACGTcount: A:0.56, C:0.10, G:0.12, T:0.22
Consensus pattern (28 bp):
TACCAAATTAAGAAAAAAAAAGTTCAGA
Found at i:114777 original size:12 final size:12
Alignment explanation
Indices: 114760--114804 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
114750 TATACCCTTT
* *
114760 GAGAGAGTGAGA
1 GAGAGAGAGGGA
*
114772 GAGAGAGGGGGA
1 GAGAGAGAGGGA
*
114784 GAGGGAGAGGGA
1 GAGAGAGAGGGA
114796 GAGAGAGAG
1 GAGAGAGAG
114805 AACGGAATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (12 bp):
GAGAGAGAGGGA
Found at i:114785 original size:14 final size:14
Alignment explanation
Indices: 114760--114805 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
114750 TATACCCTTT
*
114760 GAGAGAGTGAGAGA
1 GAGAGAGGGAGAGA
114774 GAGAG-GGG-GAGA
1 GAGAGAGGGAGAGA
*
114786 GGGAGAGGGAGAGA
1 GAGAGAGGGAGAGA
114800 GAGAGA
1 GAGAGA
114806 ACGGAATCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 8 0.30
13 5 0.19
14 14 0.52
ACGTcount: A:0.39, C:0.00, G:0.59, T:0.02
Consensus pattern (14 bp):
GAGAGAGGGAGAGA
Found at i:115694 original size:22 final size:22
Alignment explanation
Indices: 115669--115716 Score: 78
Period size: 22 Copynumber: 2.2 Consensus size: 22
115659 AATATTAACA
115669 TATATCACATTTTAAAACTGCC
1 TATATCACATTTTAAAACTGCC
* *
115691 TATATCACATTTTAAAATTTCC
1 TATATCACATTTTAAAACTGCC
115713 TATA
1 TATA
115717 AAATTATACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.42
Consensus pattern (22 bp):
TATATCACATTTTAAAACTGCC
Found at i:118282 original size:15 final size:15
Alignment explanation
Indices: 118263--118292 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
118253 TTAGTACATA
118263 ATTTTTT-AACACTT
1 ATTTTTTCAACACTT
118277 ATTTTTTCAACACTT
1 ATTTTTTCAACACTT
118292 A
1 A
118293 AATTCTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.17, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTTTCAACACTT
Found at i:118479 original size:103 final size:103
Alignment explanation
Indices: 118300--118510 Score: 298
Period size: 103 Copynumber: 2.0 Consensus size: 103
118290 TTAAATTCTT
*
118300 AGTTTATTAAACAACACCTAAATTATAGAGTAAAATCTATTGAAAAATATGGAATGATTCAAATG
1 AGTTTATTAAACAACACCTAAATTATAAAGTAAAATCTATTGAAAAATATGGAATGATTCAAATG
* *
118365 TGCCTAAGGAAGTGCCCAC-TCCCTAAAGCATTATGACA
66 TACCTAAGGAAGTGCCCACTTCCC-AAAGCATTACGACA
* * * *
118403 AGTTTATTAAACAACAGCTAAATTGTAAAGTAAAATCTATTGAAAAATATGGAATGATTGAGATG
1 AGTTTATTAAACAACACCTAAATTATAAAGTAAAATCTATTGAAAAATATGGAATGATTCAAATG
* * * * *
118468 TACTTGAGGAAGTGCTCACTTCCCGAAGCATTGCGACA
66 TACCTAAGGAAGTGCCCACTTCCCAAAGCATTACGACA
118506 AGTTT
1 AGTTT
118511 TCATATTTAA
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
103 91 0.96
104 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (103 bp):
AGTTTATTAAACAACACCTAAATTATAAAGTAAAATCTATTGAAAAATATGGAATGATTCAAATG
TACCTAAGGAAGTGCCCACTTCCCAAAGCATTACGACA
Found at i:120011 original size:27 final size:28
Alignment explanation
Indices: 119961--120016 Score: 105
Period size: 27 Copynumber: 2.0 Consensus size: 28
119951 AAAAAAACTC
119961 ATCCATGTAACAAAAAAAATGGCATTGT
1 ATCCATGTAACAAAAAAAATGGCATTGT
119989 ATCCATGTAAC-AAAAAAATGGCATTGT
1 ATCCATGTAACAAAAAAAATGGCATTGT
120016 A
1 A
120017 ACTAACTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 17 0.61
28 11 0.39
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.25
Consensus pattern (28 bp):
ATCCATGTAACAAAAAAAATGGCATTGT
Found at i:121448 original size:18 final size:18
Alignment explanation
Indices: 121425--121461 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
121415 ATTCGGTTAA
*
121425 TCGATCAATTAATCTAAT
1 TCGATCAATTAATCGAAT
*
121443 TCGATCGATTAATCGAAT
1 TCGATCAATTAATCGAAT
121461 T
1 T
121462 TTTCTCGGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (18 bp):
TCGATCAATTAATCGAAT
Found at i:121859 original size:15 final size:15
Alignment explanation
Indices: 121839--121869 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
121829 CATTCATGGA
*
121839 AGAGCATAAATACAG
1 AGAGCATAAACACAG
121854 AGAGCATAAACACAG
1 AGAGCATAAACACAG
121869 A
1 A
121870 TGGCGAGTAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.16, G:0.19, T:0.10
Consensus pattern (15 bp):
AGAGCATAAACACAG
Found at i:122238 original size:25 final size:26
Alignment explanation
Indices: 122175--122238 Score: 60
Period size: 25 Copynumber: 2.5 Consensus size: 26
122165 CCTTTCATTT
*
122175 TTTGCCACAAAGGAAGTCCCTTTTAAG
1 TTTGCCACAAA-GAAGTCCCTTTGAAG
* * *
122202 -TTGCCCAAAAAGCAGT-TCTTTGAAG
1 TTTG-CCACAAAGAAGTCCCTTTGAAG
122227 TTTGCCACAAAG
1 TTTGCCACAAAG
122239 GCTATTAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
25 14 0.47
26 10 0.33
27 6 0.20
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (26 bp):
TTTGCCACAAAGAAGTCCCTTTGAAG
Found at i:124146 original size:16 final size:15
Alignment explanation
Indices: 124108--124148 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
124098 CTTATTTCTG
124108 TCTTTCTT-TTTCAT
1 TCTTTCTTCTTTCAT
*
124122 TATTT-TTCTTTCCAT
1 TCTTTCTTCTTT-CAT
124137 TCTTTCTTCTTT
1 TCTTTCTTCTTT
124149 ACTTTTCCTC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 2 0.09
14 7 0.32
15 7 0.32
16 6 0.27
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTTTCTTCTTTCAT
Found at i:125239 original size:55 final size:55
Alignment explanation
Indices: 125165--125329 Score: 226
Period size: 55 Copynumber: 3.0 Consensus size: 55
125155 ATGTGCTATG
*
125165 TAACAATTGATTTAAACATATAAAAAATCGATTC-AAAGCAAGAAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAG-AAGAAGTATTCCAACA
* *
125220 TAATAATCGATTTAAACATATAAACAATCGATTCAAAAGAA-ATAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGA-AGTATTCCAACA
* * * * *
125275 TGACAATCGATTTAAATATATAAAAAAACGATTCAAAAGAAGTAGTATTTCAACA
1 TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGTATTCCAACA
125330 ATTAAGAAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
54 1 0.01
55 92 0.95
56 4 0.04
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAAAAATCGATTCAAAAGAAGAAGTATTCCAACA
Found at i:125586 original size:17 final size:17
Alignment explanation
Indices: 125566--125622 Score: 69
Period size: 17 Copynumber: 3.3 Consensus size: 17
125556 GTAACATCCA
125566 TTTCATTTTCATTTTCAT
1 TTTCATTTTCA-TTTCAT
* *
125584 TTCCATTTTCATATCAT
1 TTTCATTTTCATTTCAT
*
125601 TCTCATTTTCATTTCAT
1 TTTCATTTTCATTTCAT
*
125618 ATTCA
1 TTTCA
125623 AATCCTAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
17 22 0.69
18 10 0.31
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTCATTTTCATTTCAT
Found at i:125622 original size:6 final size:6
Alignment explanation
Indices: 125566--125614 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
125556 GTAACATCCA
* * *
125566 TTTCAT TTTCAT TTTCAT TTCCAT TTTCA- TATCAT TCTCAT TTTCAT
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
125613 TT
1 TT
125615 CATATTCAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
5 4 0.11
6 33 0.89
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.61
Consensus pattern (6 bp):
TTTCAT
Found at i:126473 original size:27 final size:28
Alignment explanation
Indices: 126429--126485 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 28
126419 ATATTACTTA
**
126429 TAAAATATTATTATTTTAAGTAAAATAT
1 TAAAATATTATTATTTTAACAAAAATAT
*
126457 TAAATTATTATTA-TTTAACAAAAATAT
1 TAAAATATTATTATTTTAACAAAAATAT
126484 TA
1 TA
126486 TTCAAAAGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (28 bp):
TAAAATATTATTATTTTAACAAAAATAT
Found at i:126640 original size:13 final size:13
Alignment explanation
Indices: 126622--126649 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
126612 GGAGGGCTAT
126622 AAAATATATACAA
1 AAAATATATACAA
126635 AAAATATATACAA
1 AAAATATATACAA
126648 AA
1 AA
126650 GGGAAAATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATATATACAA
Found at i:126875 original size:14 final size:15
Alignment explanation
Indices: 126852--126894 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
126842 GGAGAGAATG
126852 AAAATAAATAAA-AA
1 AAAATAAATAAATAA
*
126866 AAAATTAATAAATAA
1 AAAATAAATAAATAA
*
126881 AAAATAAATGAATA
1 AAAATAAATAAATA
126895 TTATGGTGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (15 bp):
AAAATAAATAAATAA
Found at i:126877 original size:18 final size:19
Alignment explanation
Indices: 126854--126894 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 19
126844 AGAGAATGAA
*
126854 AATAAATAAAAAA-AAATT
1 AATAAATAAAAAATAAATG
126872 AATAAATAAAAAATAAATG
1 AATAAATAAAAAATAAATG
126891 AATA
1 AATA
126895 TTATGGTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
AATAAATAAAAAATAAATG
Found at i:127280 original size:11 final size:11
Alignment explanation
Indices: 127256--127307 Score: 52
Period size: 11 Copynumber: 4.6 Consensus size: 11
127246 ATTATAGTTA
*
127256 TATTATAATTTT
1 TATTA-AATATT
127268 TATTAAATATT
1 TATTAAATATT
127279 TATTAAA-ATTT
1 TATTAAATA-TT
* *
127290 TAATATATATT
1 TATTAAATATT
127301 TATTAAA
1 TATTAAA
127308 ATAATTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 1 0.03
11 26 0.79
12 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTAAATATT
Found at i:127319 original size:23 final size:22
Alignment explanation
Indices: 127274--127319 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
127264 TTTTTATTAA
*
127274 ATATTTATTAAAATTTTAATAT
1 ATATTTATTAAAATATTAATAT
127296 ATATTTATTAAAATAATTAATAT
1 ATATTTATTAAAAT-ATTAATAT
127319 A
1 A
127320 GATTAAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATATTTATTAAAATATTAATAT
Found at i:128566 original size:18 final size:18
Alignment explanation
Indices: 128545--128581 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
128535 ATTTAAATGT
128545 CCAATTTCAAACCCAAAC
1 CCAATTTCAAACCCAAAC
128563 CCAATTTCAAACCCAAAC
1 CCAATTTCAAACCCAAAC
128581 C
1 C
128582 AATCCTAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.41, G:0.00, T:0.16
Consensus pattern (18 bp):
CCAATTTCAAACCCAAAC
Found at i:129730 original size:29 final size:29
Alignment explanation
Indices: 129697--129846 Score: 155
Period size: 30 Copynumber: 5.1 Consensus size: 29
129687 CCTAAGAGGT
* * *
129697 CCCTCAACTTTTTTAAAATTATATTTTGA
1 CCCTAAACTTTTTCAAAATTACATTTTGA
*
129726 CCCTCAAA-TTCTTTCAAAATTACATTTTAAA
1 CCCT-AAACTT-TTTCAAAATTACATTTT-GA
* *
129757 CCCTAAACTCTTTCAAAATTGCA-TTTGA
1 CCCTAAACTTTTTCAAAATTACATTTTGA
*
129785 CCCCTAAACTTTTTCAAAACTACATTTTGA
1 -CCCTAAACTTTTTCAAAATTACATTTTGA
*
129815 CTCCTGAACTTTTT-AAAATTACATTTTG-
1 C-CCTAAACTTTTTCAAAATTACATTTTGA
129843 CCCT
1 CCCT
129847 GAAATTCTCA
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
27 3 0.03
28 2 0.02
29 43 0.42
30 48 0.47
31 6 0.06
ACGTcount: A:0.32, C:0.23, G:0.04, T:0.41
Consensus pattern (29 bp):
CCCTAAACTTTTTCAAAATTACATTTTGA
Found at i:129747 original size:30 final size:29
Alignment explanation
Indices: 129697--129852 Score: 133
Period size: 29 Copynumber: 5.3 Consensus size: 29
129687 CCTAAGAGGT
* * *
129697 CCCTCAACTTTTTTAAAATTATATTTTGA
1 CCCTCAAATTTTTCAAAATTACATTTTGA
*
129726 CCCTCAAATTCTTTCAAAATTACATTTTAAA
1 CCCTCAAATT-TTTCAAAATTACATTTT-GA
* *
129757 CCCT-AAACTCTTTCAAAATTGCA-TTTGA
1 CCCTCAAA-TTTTTCAAAATTACATTTTGA
*
129785 CCC-CTAAACTTTTTCAAAACTACATTTTGA
1 CCCTC-AAA-TTTTTCAAAATTACATTTTGA
* *
129815 CTCCTGAACTTTTT-AAAATTACATTTTG-
1 C-CCTCAAATTTTTCAAAATTACATTTTGA
*
129843 CCCTGAAATT
1 CCCTCAAATT
129853 CTCAAAAACT
Statistics
Matches: 105, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
27 8 0.08
28 5 0.05
29 41 0.39
30 41 0.39
31 10 0.10
ACGTcount: A:0.33, C:0.22, G:0.04, T:0.40
Consensus pattern (29 bp):
CCCTCAAATTTTTCAAAATTACATTTTGA
Found at i:129787 original size:59 final size:59
Alignment explanation
Indices: 129706--129854 Score: 155
Period size: 59 Copynumber: 2.5 Consensus size: 59
129696 TCCCTCAACT
* * *
129706 TTTTTAAAATTATATTTTGACCCTCAAATTCTTTCAAAATTACATTTTAAAC-CCTAAAC
1 TTTTCAAAATTACATTTTGACCCTCAAATTCTTTCAAAACTACATTTT-AACTCCTAAAC
* * *
129765 TCTTTCAAAATTGCA-TTTGACCC-CTAAACTT-TTTCAAAACTACATTTTGACTCCTGAAC
1 T-TTTCAAAATTACATTTTGACCCTC-AAA-TTCTTTCAAAACTACATTTTAACTCCTAAAC
* *
129824 TTTTTAAAATTACATTTTG-CCCTGAAATTCT
1 TTTTCAAAATTACATTTTGACCCTCAAATTCT
129855 CAAAAACTTC
Statistics
Matches: 74, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
57 2 0.03
58 21 0.28
59 39 0.53
60 12 0.16
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.42
Consensus pattern (59 bp):
TTTTCAAAATTACATTTTGACCCTCAAATTCTTTCAAAACTACATTTTAACTCCTAAAC
Found at i:130904 original size:28 final size:28
Alignment explanation
Indices: 130872--130927 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
130862 GCTAGTTAAG
130872 TTTGCATTCATATGTGTTTGTTACTACC
1 TTTGCATTCATATGTGTTTGTTACTACC
130900 TTTGCATTCATATGTGTTTGTTACTACC
1 TTTGCATTCATATGTGTTTGTTACTACC
130928 CTTTTAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.18, C:0.18, G:0.14, T:0.50
Consensus pattern (28 bp):
TTTGCATTCATATGTGTTTGTTACTACC
Found at i:132253 original size:22 final size:22
Alignment explanation
Indices: 132210--132253 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
132200 ATTTAATTTC
132210 AACTATGCCAAACCTTAAGTGG
1 AACTATGCCAAACCTTAAGTGG
* *
132232 AACTGTGCCAAACCTTTAGTGG
1 AACTATGCCAAACCTTAAGTGG
132254 TTACCTGAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (22 bp):
AACTATGCCAAACCTTAAGTGG
Found at i:135157 original size:17 final size:18
Alignment explanation
Indices: 135137--135183 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
135127 TATTTCATTG
135137 AAAAAAAAAGGAAA-GGA
1 AAAAAAAAAGGAAAGGGA
*
135154 AAAAAGAAAA-AAAAGGGA
1 AAAAA-AAAAGGAAAGGGA
*
135172 AAAAGAAAAGGA
1 AAAAAAAAAGGA
135184 GAGGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAGGAAAGGGA
Found at i:135180 original size:23 final size:23
Alignment explanation
Indices: 135136--135180 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
135126 ATATTTCATT
*
135136 GAAAAAAAAAGGAAAGGAAAAAA
1 GAAAAAAAAAGGAAAAGAAAAAA
*
135159 GAAAAAAAAGGGAAAAAGAAAA
1 GAAAAAAAAAGG-AAAAGAAAA
135181 GGAGAGGTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (23 bp):
GAAAAAAAAAGGAAAAGAAAAAA
Found at i:136289 original size:99 final size:98
Alignment explanation
Indices: 136091--136314 Score: 261
Period size: 99 Copynumber: 2.3 Consensus size: 98
136081 CTGAGAAACT
* * *
136091 ATGAAGATTTGAAGGGAAAGGTTGAGGTCACGACGGTGAACCCGGTACCTCAGAAGATGTGATGG
1 ATGAAGATTT-AAGGGAAAGATTGAGGTCACGACGGCGAACCCGGTACCTCAAAAGATGTGATGG
* *** *
136156 GAAAGATTGAGGCCGCAACGGTGAATCCGGTACC
65 GAAAGATTAAGGCCGCAACGACAAATCCGATACC
** * *
136190 ATGAAGATTTAACGGGAAAGATTGAGGTCATTATGGCGAACCCGGTATCTCAAAAGATGTGATGG
1 ATGAAGATTTAA-GGGAAAGATTGAGGTCACGACGGCGAACCCGGTACCTCAAAAGATGTGATGG
* * *
136255 GAAAGATTAAGGTCGTAACGACAAATTCGATACC
65 GAAAGATTAAGGCCGCAACGACAAATCCGATACC
* *
136289 ATGAA-ATGTGATGGGAAAGATTGAGG
1 ATGAAGAT-TTAAGGGAAAGATTGAGG
136315 CTGCAATGGT
Statistics
Matches: 106, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
98 18 0.17
99 88 0.83
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (98 bp):
ATGAAGATTTAAGGGAAAGATTGAGGTCACGACGGCGAACCCGGTACCTCAAAAGATGTGATGGG
AAAGATTAAGGCCGCAACGACAAATCCGATACC
Found at i:136436 original size:147 final size:147
Alignment explanation
Indices: 136143--137059 Score: 572
Period size: 147 Copynumber: 6.2 Consensus size: 147
136133 CGGTACCTCA
* * * * *
136143 GAAGATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCGGTACCATGAAGAT-TTAACGGGA
1 GAAGATGTGAAGGGAAAGATTGAGGCTGCAATGGTGAACCCGGTACCATGAAGATGTGAA-GGGA
* *** * * * * *
136207 AAGATTGAGGTCATTATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGGTCGTA
65 AAGATTGAGGCCGCAATGGCGAACCTGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCGCA
* * *
136272 ACGACAAATTCGATACCAT
130 ACGGCGAATCCG-TACCAT
* * ** *
136291 GAA-ATGTGATGGGAAAGATTGAGGCTGCAATGGTGAACCCGATACCATGATTATTTGAAGGGAA
1 GAAGATGTGAAGGGAAAGATTGAGGCTGCAATGGTGAACCCGGTACCATGAAGATGTGAAGGGAA
* * * *
136355 AGGTTGAGGCCGCGATGGCGAACCTGGTACCTCAAAAGATGTTATGAGAAAGATTGAGGCCGCAA
66 AGATTGAGGCCGCAATGGCGAACCTGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCGCAA
136420 CGGCGAATCCAGTACCAT
131 CGGCGAATCC-GTACCAT
* * * * * * * *
136438 GAAGATTTGAAAGGAAAGGTTAAGG-TCGCGATGGCGAACCCGGTATCTCA-AAAGATGTGATGG
1 GAAGATGTGAAGGGAAAGATTGAGGCT-GCAATGGTGAACCCGGTA-C-CATGAAGATGTGAAGG
* * * *
136501 GAAAGATTGAGGCGGCAATGGCGAATCTGGTA-C-CATGAA-ATGTGATGGGAAAGATTGAGGCT
63 GAAAGATTGAGGCCGCAATGGCGAACCTGGTACCTCA-AAAGATGTGATGGGAAAGATTGAGGCC
* **
136563 GCAACGGCGAACCCGGTACTGT
127 GCAACGGCGAATCC-GTACCAT
* * * * * *
136585 GAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCAGGTACCTTAGAAGATGTGATGGGA
1 GAAGATGTGAAGGGAAAGATTGAGGCTGCAATGGTGAACCCGGTACCAT-GAAGATGTGAAGGGA
* * * * * * * *
136650 AAGGTTGAGGCCGCAATAGCGAACCTAGTACCTTAGAAA-ATTTGATGGGAAAGGTTGAGGTCGT
65 AAGATTGAGGCCGCAATGGCGAACCTGGTACCTCA-AAAGATGTGATGGGAAAGATTGAGGCCGC
*
136714 AATAGG-GAA-CCTGATACCAT
129 AA-CGGCGAATCC-G-TACCAT
* * * *** * * ** * ** * *
136734 AAAGATATAAAAAAAAAGGTTGAGGCTGCAACGACGAACCCGATACTTTAGAATATGTGATGGGA
1 GAAGATGTGAAGGGAAAGATTGAGGCTGCAATGGTGAACCCGGTACCAT-GAAGATGTGAAGGGA
* * * * * * * * *
136799 AAGATTGAGGCCGCAACGGTGAATCC---AACAC-CATGAAGATATGAAGGGAAATATTAAGGTC
65 AAGATTGAGGCCGCAATGGCGAA-CCTGGTAC-CTCA-AAAGATGTGATGGGAAAGATTGAGGCC
* * * *
136860 GTAATGGCGAATCTGACACCAT
127 GCAACGGCGAATCCG-TACCAT
* * * * ** *
136882 GAA-ATGTGATGGGAAAGATTGAAGCTGCAATGGCGAACTCGGTACTGTGAAGATTTGAAGGGAA
1 GAAGATGTGAAGGGAAAGATTGAGGCTGCAATGGTGAACCCGGTACCATGAAGATGTGAAGGGAA
* * * * * * * *
136946 ATG-TTTAGGCTGCAACGGTGAACCAGGTACCTTAGAAGATGTGATGGGAAACG-TTGAGGCCAC
66 A-GATTGAGGCCGCAATGGCGAACCTGGTACCTCAAAAGATGTGATGGGAAA-GATTGAGGCCGC
*
137009 AACGGCGAACCCGATACCAT
129 AACGGCGAATCCG-TACCAT
* * ** * *
137029 AAAGATATGAAAAGAAAGGTTGAGGCCGCAA
1 GAAGATGTGAAGGGAAAGATTGAGGCTGCAA
137060 CTGCGAACCA
Statistics
Matches: 601, Mismatches: 142, Indels: 52
0.76 0.18 0.07
Matches are distributed among these distances:
145 3 0.00
146 32 0.05
147 316 0.53
148 104 0.17
149 140 0.23
150 6 0.01
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (147 bp):
GAAGATGTGAAGGGAAAGATTGAGGCTGCAATGGTGAACCCGGTACCATGAAGATGTGAAGGGAA
AGATTGAGGCCGCAATGGCGAACCTGGTACCTCAAAAGATGTGATGGGAAAGATTGAGGCCGCAA
CGGCGAATCCGTACCAT
Found at i:136474 original size:99 final size:99
Alignment explanation
Indices: 136294--137143 Score: 456
Period size: 99 Copynumber: 8.6 Consensus size: 99
136284 ATACCATGAA
* * * ** *
136294 ATGTGATGGGAAAGATTGAGGCTGCAATGGTGAA-CCCGATACCATGATTATTTGAAGGGAAAGG
1 ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAG-TACCATGAAGATTTGAAAGGAAAGG
* *
136358 TTGAGGCCGCGATGGCGAACCTGGTACCTCAAAAG
65 TTAAGGCCGCGATGGCGAACCCGGTACCTCAAAAG
* * *
136393 ATGTTATGAGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGT
1 ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGT
* *
136458 TAAGGTCGCGATGGCGAACCCGGTATCTCAAAAG
66 TAAGGCCGCGATGGCGAACCCGGTACCTCAAAAG
* ** * ** *
136492 ATGTGATGGGAAAGATTGAGGCGGCAATGGCGAATCTGGTACCATGAA-ATGTGATGGGAAAGAT
1 ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGT
* * * * ***
136556 TGAGGCTGCAACGGCGAACCCGGTA-CTGTGAAG
66 TAAGGCCGCGATGGCGAACCCGGTACCTCAAAAG
* * * ** * * * **
136589 ATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAA-CCAGGTACCTTAGAAGATGTGATGGGAAAG
1 ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCA-GTACCAT-GAAGATTTGAAAGGAAAG
* * * ** *
136653 GTTGAGGCCGCAATAGCGAACCTAGTACCTTAGAAA-
64 GTTAAGGCCGCGATGGCGAACCCGGTACCTCA-AAAG
* * * * * * * * **
136689 ATTTGATGGGAAAGGTTGAGGTCGTAATAGG-GAA-CCTGATACCATAAAGATATAAAAAAAAAG
1 ATGTGATGGGAAAGATTGAGGCCGCAAT-GGCGAATCCAG-TACCATGAAGATTTGAAAGGAAAG
* * * * * * * * * *
136752 GTTGAGGCTGCAACGACGAACCCGATACTTTAGAAT
64 GTTAAGGCCGCGATGGCGAACCCGGTACCTCAAAAG
* * ** * * **
136788 ATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAACACCATGAAGATATGAAGGGAAATAT
1 ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGT
* ** * * *
136853 TAAGGTCGTAATGGCGAA-TCTG-ACAC-CATGAA-
66 TAAGGCCGCGATGGCGAACCCGGTAC-CTCA-AAAG
* * * ** * *
136885 ATGTGATGGGAAAGATTGAAGCTGCAATGGCGAA-CTCGGTACTGTGAAGATTTGAAGGGAAATG
1 ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATC-CAGTACCATGAAGATTTGAAAGGAAAGG
* * * * * * * *
136949 TTTAGGCTGCAACGGTGAACCAGGTACCTTAGAAG
65 TTAAGGCCGCGATGGCGAACCCGGTACCTCAAAAG
* * * * * *
136984 ATGTGATGGGAAACG-TTGAGGCCACAACGGCGAA-CCCGATACCATAAAGATATGAAAAGAAAG
1 ATGTGATGGGAAA-GATTGAGGCCGCAATGGCGAATCCAG-TACCATGAAGATTTGAAAGGAAAG
* * * * * *
137047 GTTGAGGCCGCAACT-GCGAA-CCAGTACTTTAGAAG
64 GTTAAGGCCGCGA-TGGCGAACCCGGTACCTCAAAAG
* * * * ** * *
137082 ATGTGAT-GGAAAGGATTAAGGTCGCAACGGTGAATCCAACACCATGAAGATATGAAGGGAAA
1 ATGTGATGGGAAA-GATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATTTGAAAGGAAA
137144 TATTTAGGCC
Statistics
Matches: 579, Mismatches: 149, Indels: 47
0.75 0.19 0.06
Matches are distributed among these distances:
96 2 0.00
97 112 0.19
98 103 0.18
99 317 0.55
100 41 0.07
101 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (99 bp):
ATGTGATGGGAAAGATTGAGGCCGCAATGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGT
TAAGGCCGCGATGGCGAACCCGGTACCTCAAAAG
Found at i:136537 original size:246 final size:246
Alignment explanation
Indices: 136091--136712 Score: 820
Period size: 246 Copynumber: 2.5 Consensus size: 246
136081 CTGAGAAACT
* * *
136091 ATGAAGATTTGAAGGGAAAGGTTGAGGTCACGACGGTGAACCCGGTACCTCAGAAGATGTGATGG
1 ATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGTGAACCAGGTACCTCAGAAGATGTGATGG
* * * *
136156 GAAAGATTGAGGCCGCAACGGTGAATCCGGTACCATGAAGATTT-AACGGGAAAGATTGAGGTCA
66 GAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATTTGAA-GGGAAAGGTTGAGGTCG
** *
136220 TTATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGGTCGTAACGACAAATTCGA
130 CGATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGGTCGCAACGACAAATTCGA
* *
136285 TACCATGAAATGTGATGGGAAAGATTGAGGCTGCAATGGTGAACCCGATACC
195 TACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
** * * * * * *
136337 ATGATTATTTGAAGGGAAAGGTTGAGGCCGCGATGGCGAACCTGGTACCTCAAAAGATGTTATGA
1 ATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGTGAACCAGGTACCTCAGAAGATGTGATGG
* *
136402 GAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGTTAAGGTCGC
66 GAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGC
* * * *
136467 GATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTGAGG-CGGCAATGGCGAA-TCTG
131 GATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGGTC-GCAACGACAAATTC-G
* * *
136530 GTACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGGTACT
194 ATACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
* * * *
136583 GTGAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCAGGTACCTTAGAAGATGTGATGG
1 ATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGTGAACCAGGTACCTCAGAAGATGTGATGG
* ** * * *
136648 GAAAGGTTGAGGCCGCAATAGCGAA-CCTAGTACCTTAGAAAATTTGATGGGAAAGGTTGAGGTC
66 GAAAGATTGAGGCCGCAACGGCGAATCC-AGTACCAT-GAAGATTTGAAGGGAAAGGTTGAGGTC
136712 G
129 G
136713 TAATAGGGAA
Statistics
Matches: 323, Mismatches: 48, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
245 5 0.02
246 292 0.90
247 26 0.08
ACGTcount: A:0.32, C:0.15, G:0.32, T:0.21
Consensus pattern (246 bp):
ATGAAGATTTGAAGGGAAAGGTTGAGGCCACGATGGTGAACCAGGTACCTCAGAAGATGTGATGG
GAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATTTGAAGGGAAAGGTTGAGGTCGC
GATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGGTCGCAACGACAAATTCGAT
ACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
Found at i:136759 original size:246 final size:246
Alignment explanation
Indices: 136091--136849 Score: 702
Period size: 246 Copynumber: 3.1 Consensus size: 246
136081 CTGAGAAACT
* * * * * * *
136091 ATGAAGATTTGAAGGGAAAGGTTGAGGTCACGACGGTGAACCCGGTACCTCAGAAGATGTGATGG
1 ATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGGCGAACCAGGTACCTCAAAAGATGTGATGA
* * * * * * * *
136156 GAAAGATTGAGGCCGCAACGGTGAATCCGGTACCATGAAGATTT-AACGGGAAAGATTGAGGTCA
66 GAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAAATTTGAA-AGGAAAGGTTAAGGTCG
** * * * **** * * * **
136220 TTATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGGTC-GTAACGACAAATTCG
130 CAATGGCGAACCCGATATCTCAAAAGATATAAAAAAAAAGATTGAGG-CGGCAACGACGAACCCG
* *
136284 ATACCATGAAATGTGATGGGAAAGATTGAGGCTGCAATGGTGAACCCGATACC
194 ATACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
** * * * *
136337 ATGATTATTTGAAGGGAAAGGTTGAGGCCGCGATGGCGAACCTGGTACCTCAAAAGATGTTATGA
1 ATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGGCGAACCAGGTACCTCAAAAGATGTGATGA
* *
136402 GAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATTTGAAAGGAAAGGTTAAGGTCGC
66 GAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAAATTTGAAAGGAAAGGTTAAGGTCGC
* * * * **** * * * * *
136467 GATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTGAGGCGGCAATGGCGAATCTGGT
131 AATGGCGAACCCGATATCTCAAAAGATATAAAAAAAAAGATTGAGGCGGCAACGACGAACCCGAT
* *
136532 ACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGGTACT
196 ACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
* * * * * *
136583 GTGAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCAGGTACCTTAGAAGATGTGATGG
1 ATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGGCGAACCAGGTACCTCAAAAGATGTGATGA
* * * ** *
136648 GAAAGGTTGAGGCCGCAATAGCGAA-CCTAGTACCTTAGAAAATTTGATGGGAAAGGTTGAGGTC
66 GAAAGATTGAGGCCGCAACAGCGAATCC-AGTACCAT-GAAAATTTGAAAGGAAAGGTTAAGGTC
* * * *
136712 GTAATAGG-GAACCTGATA-C-CATAAAGATATAAAAAAAAAGGTTGAGGCTGCAACGACGAACC
129 GCAAT-GGCGAACCCGATATCTCA-AAAGATATAAAAAAAAAGATTGAGGCGGCAACGACGAACC
** * * * * *
136774 CGATACTTTAGAATATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAACACC
192 CGATACCAT-GAA-ATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
*
136831 ATGAAGATATGAAGGGAAA
1 ATGAAGATTTGAAGGGAAA
136850 TATTAAGGTC
Statistics
Matches: 427, Mismatches: 78, Indels: 14
0.82 0.15 0.03
Matches are distributed among these distances:
245 5 0.01
246 328 0.77
247 39 0.09
248 55 0.13
ACGTcount: A:0.34, C:0.15, G:0.31, T:0.20
Consensus pattern (246 bp):
ATGAAGATTTGAAGGGAAAGGTTGAGGCCACAATGGCGAACCAGGTACCTCAAAAGATGTGATGA
GAAAGATTGAGGCCGCAACAGCGAATCCAGTACCATGAAAATTTGAAAGGAAAGGTTAAGGTCGC
AATGGCGAACCCGATATCTCAAAAGATATAAAAAAAAAGATTGAGGCGGCAACGACGAACCCGAT
ACCATGAAATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGATACC
Found at i:136759 original size:345 final size:341
Alignment explanation
Indices: 136091--137068 Score: 929
Period size: 345 Copynumber: 2.8 Consensus size: 341
136081 CTGAGAAACT
*
136091 ATGAAGATTTGAAGGGAAAGGTTGAGGTCACGACGGTGAACCCGGTACCTCAGAAGATGTGATGG
1 ATGAAGATTTGAAGGGAAAGGTTGAGGTCGCGACGGTGAACCCGGTA-CTCAGAAGATGTGATGG
* * * * * *
136156 GAAAGATTGAGGCCGCAACGGTGAATCCGGTACCATGAAGATTTAACGGGAAAGATTGAGG-T-C
65 GAAAGATTGAGG-CGCAATGGCGAATCTGGTACCATGAA-ATGTGATGGGAAAGATTGAGGCTGC
*** * * * *** *
136219 ATTATGGCGAACCCGGTATCTCAAAAGATGTGATGGGAAAGATTAAGG-TCGTAACGACAAATTC
128 A--ATGGCGAACCCGGTA-CTGTGAAGATTTGAAGGGAAAGGTTAAGGCTC--AACGGTGAA-CC
* * * * * * * **
136283 -GATACCAT-GAA-ATGTGATGGGAAAGATTGAGGCTGCAATGGTGAACCCGATACCATGATTAT
187 AGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACCAGATACCATGAAAAT
* * * * ** *
136345 TTGAAGGGAAAGGTTGAGGCCGCGATGGCGAACCTGGTACCTCAAAAGATGTTATGAGAAAGATT
252 TTGAAGGGAAAGGTTGAGGCCGCAATGGCGAACCTGATACCT-AAAAGATATAAAAAAAAAGATT
*
136410 GAGGCCGCAACGGCGAATCCAG-TACC
316 GAGGCCGCAACGACGAA-CCAGATACC
* * * * *
136436 ATGAAGATTTGAAAGGAAAGGTTAAGGTCGCGATGGCGAACCCGGTATCTCAAAAGATGTGATGG
1 ATGAAGATTTGAAGGGAAAGGTTGAGGTCGCGACGGTGAACCCGGTA-CTCAGAAGATGTGATGG
136501 GAAAGATTGAGGCGGCAATGGCGAATCTGGTACCATGAAATGTGATGGGAAAGATTGAGGCTGCA
65 GAAAGATTGAGGC-GCAATGGCGAATCTGGTACCATGAAATGTGATGGGAAAGATTGAGGCTGCA
* * *
136566 ACGGCGAACCCGGTACTGTGAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCAGGTAC
129 ATGGCGAACCCGGTACTGTGAAGATTTGAAGGGAAAGGTTAAGGCT-CAACGGTGAACCAGGTAC
*
136631 CTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACCTAG-TACCTTAGAAAATTTGA
193 CTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACC-AGATACCAT-GAAAATTTGA
* * * *
136695 TGGGAAAGGTTGAGGTCGTAATAGG-GAACCTGATACC-ATAAAGATATAAAAAAAAAGGTTGAG
256 AGGGAAAGGTTGAGGCCGCAAT-GGCGAACCTGATACCTA-AAAGATATAAAAAAAAAGATTGAG
* * *
136758 GCTGCAACGACGAACCCGATACT
319 GCCGCAACGACGAACCAGATACC
* * * * * * * * *** * *
136781 TTAGAATATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAACAC-CATGAAGATATGAAG
1 AT-GAAGATTTGAAGGGAAAGGTTGAGGTCGCGACGGTGAACCCGGTACTCA-GAAGATGTGATG
* * * ** *
136845 GGAAATATTAAGGTCGTAATGGCGAATCTGACACCATGAAATGTGATGGGAAAGATTGAAGCTGC
64 GGAAAGATTGAGG-CGCAATGGCGAATCTGGTACCATGAAATGTGATGGGAAAGATTGAGGCTGC
* * *
136910 AATGGCGAACTCGGTACTGTGAAGATTTGAAGGGAAATGTTTAGGCTGCAACGGTGAACCAGGTA
128 AATGGCGAACCCGGTACTGTGAAGATTTGAAGGGAAAGGTTAAGGCT-CAACGGTGAACCAGGTA
* * ** * *
136975 CCTTAGAAGATGTGATGGGAAACGTTGAGGCCACAACGGCGAACCCGATACCAT-AAAGATATGA
192 CCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACCAGATACCATGAAA-ATTTGA
**
137039 AAAGAAAGGTTGAGGCCGCAACT-GCGAACC
256 AGGGAAAGGTTGAGGCCGCAA-TGGCGAACC
137069 AGTACTTTAG
Statistics
Matches: 520, Mismatches: 93, Indels: 41
0.80 0.14 0.06
Matches are distributed among these distances:
342 1 0.00
343 37 0.07
344 70 0.13
345 338 0.65
346 72 0.14
347 2 0.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (341 bp):
ATGAAGATTTGAAGGGAAAGGTTGAGGTCGCGACGGTGAACCCGGTACTCAGAAGATGTGATGGG
AAAGATTGAGGCGCAATGGCGAATCTGGTACCATGAAATGTGATGGGAAAGATTGAGGCTGCAAT
GGCGAACCCGGTACTGTGAAGATTTGAAGGGAAAGGTTAAGGCTCAACGGTGAACCAGGTACCTT
AGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACCAGATACCATGAAAATTTGAAGGGA
AAGGTTGAGGCCGCAATGGCGAACCTGATACCTAAAAGATATAAAAAAAAAGATTGAGGCCGCAA
CGACGAACCAGATACC
Found at i:136975 original size:49 final size:49
Alignment explanation
Indices: 136093--137087 Score: 287
Period size: 50 Copynumber: 20.2 Consensus size: 49
136083 GAGAAACTAT
* * * *
136093 GAAGATTTGAAGGGAAAGGTTGAGG-T-CACGACGGTGAACCCGGTACCTCA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCA--ACGGCGAA-CCGGTACCTTA
* * * *
136143 GAAGATGTGATGGGAAA-GATTGAGGCCGCAACGGTGAATCCGGTACCAT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAA-CCGGTACCTTA
* * * *
136192 GAAGAT-TTAACGGGAAA-GATTGAGG-T-CATTATGGCGAACCCGGTATCTCA
1 GAAGATGTGAA-GGGAAACG-TTGAGGCTGCA--ACGGCGAA-CCGGTACCTTA
* * * * * * * * *
136242 AAAGATGTGATGGGAAA-GATTAAGG-TCGTAACGACAAATTCGATACCAT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCT-GCAACGGCGAA-CCGGTACCTTA
* * * * *
136291 GAA-ATGTGATGGGAAA-GATTGAGGCTGCAATGGTGAACCCGATACCAT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAA-CCGGTACCTTA
** * * * * * *
136339 GATTATTTGAAGGGAAAGGTTGAGGCCGCGATGGCGAACCTGGTACCTCA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAACC-GGTACCTTA
* * * * * * *
136389 AAAGATGTTATGAGAAA-GATTGAGGCCGCAACGGCGAATCCAGTACCAT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAA-CCGGTACCTTA
* * * * * * * *
136438 GAAGATTTGAAAGGAAAGGTTAAGG-TCGCGATGGCGAACCCGGTATCTCA
1 GAAGATGTGAAGGGAAACGTTGAGGCT-GCAACGGCGAA-CCGGTACCTTA
* * * * * *
136488 AAAGATGTGATGGGAAA-GATTGAGGCGGCAATGGCGAATCTGGTACCAT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAA-CCGGTACCTTA
*
136537 GAA-ATGTGATGGGAAA-GATTGAGGCTGCAACGGCGAACCCGGTA-CTGT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAA-CCGGTACCT-TA
* * * * *
136585 GAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCAGGTACCTTA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAACC-GGTACCTTA
* * * ** *
136635 GAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACCTAGTACCTTA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAACC-GGTACCTTA
* * * * * * * *
136685 GAAAATTTGATGGGAAAGGTTGAGG-TCGTAATAGG-GAACCTGATACCATA
1 GAAGATGTGAAGGGAAACGTTGAGGCT-GCAA-CGGCGAACC-GGTACCTTA
* * *** * * * *
136735 -AAGATATAAAAAAAAAGGTTGAGGCTGCAACGACGAACCCGATACTTTA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAA-CCGGTACCTTA
* * * * *** *
136784 GAATATGTGATGGGAAA-GATTGAGGCCGCAACGGTGAATCCAACACCAT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAA-CCGGTACCTTA
* ** * * * * ** *
136833 GAAGATATGAAGGGAAATATTAAGG-TCGTAATGGCGAATCTGACACCAT-
1 GAAGATGTGAAGGGAAACGTTGAGGCT-GCAACGGCGAA-CCGGTACCTTA
* * *
136882 GAA-ATGTGATGGGAAA-GATTGAAGCTGCAATGGCGAACTCGGTA-CTGT-
1 GAAGATGTGAAGGGAAACG-TTGAGGCTGCAACGGCGAAC-CGGTACCT-TA
* * * *
136930 GAAGATTTGAAGGGAAATGTTTAGGCTGCAACGGTGAACCAGGTACCTTA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAACC-GGTACCTTA
* ** * *
136980 GAAGATGTGATGGGAAACGTTGAGGCCACAACGGCGAACCCGATACCATA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAA-CCGGTACCTTA
* ** * * * * *
137030 -AAGATATGAAAAGAAAGGTTGAGGCCGCAACTGCGAACCAGTACTTTA
1 GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAACCGGTACCTTA
137078 GAAGATGTGA
1 GAAGATGTGA
137088 TGGAAAGGAT
Statistics
Matches: 708, Mismatches: 189, Indels: 97
0.71 0.19 0.10
Matches are distributed among these distances:
47 5 0.01
48 124 0.18
49 277 0.39
50 292 0.41
51 7 0.01
52 3 0.00
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (49 bp):
GAAGATGTGAAGGGAAACGTTGAGGCTGCAACGGCGAACCGGTACCTTA
Found at i:137161 original size:49 final size:48
Alignment explanation
Indices: 136143--137160 Score: 303
Period size: 49 Copynumber: 20.7 Consensus size: 48
136133 CGGTACCTCA
* * * **
136143 GAAGATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCGGTACCAT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * *** * **
136192 GAAGAT-TTAACGGGAAAGATTGAGGTCATTATGGCGAACCCGGTATCTCA-
1 GAAGATATGAA-GGGAAAGATTGAGGCCGCAACGGCGAA-CCAATA-C-CAT
* * * * * * * * * *
136242 AAAGATGTGATGGGAAAGATTAAGGTCGTAACGACAAATTCGATACCAT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * * * * *
136291 GAA-ATGTGATGGGAAAGATTGAGGCTGCAATGGTGAACCCGATACCAT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
** * * * * **
136339 GATTATTTGAAGGGAAAGGTTGAGGCCGCGATGGCGAACCTGGTACC-T
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAACC-AATACCAT
* * * * * *
136387 CAAAAGATGTTATGAGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCAT
1 --GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * * * * * * **
136438 GAAGATTTGAAAGGAAAGGTTAAGGTCGCGATGGCGAACCCGGTATCTCA-
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATA-C-CAT
* * * * * ***
136488 AAAGATGTGATGGGAAAGATTGAGGCGGCAATGGCGAATCTGGTACCAT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * * ** **
136537 GAA-ATGTGATGGGAAAGATTGAGGCTGCAACGGCGAACCCGGTACTGT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * ** * * * *
136585 GAAGATTTGAAGGGAAAGGTTGAGGCTACAATGGTGAACCAGGTACCTT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAACCA-ATACCAT
* * * ** * *
136634 AGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAACCTAGTACCTT
1 -GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAACC-AATACCAT
* * * * * * * *
136684 AGAAAATTTGATGGGAAAGGTTGAGGTCGTAATAGG-GAACCTGATACCAT
1 -GAAGATATGAAGGGAAAGATTGAGGCCGCAA-CGGCGAACC-AATACCAT
* * *** * * * * **
136734 AAAGATATAAAAAAAAAGGTTGAGGCTGCAACGACGAACCCGATACTTT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * * * *
136783 AGAATATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCAACACCAT
1 -GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * * * * ** *
136833 GAAGATATGAAGGGAAATATTAAGGTCGTAATGGCGAATCTGACACCAT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAA-CCAATACCAT
* * * * * ** **
136882 GAA-ATGTGATGGGAAAGATTGAAGCTGCAATGGCGAACTCGGTACTGT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAAC-CAATACCAT
* * * * * *
136930 GAAGATTTGAAGGGAAATG-TTTAGGCTGCAACGGTGAACCAGGTACCTT
1 GAAGATATGAAGGGAAA-GATTGAGGCCGCAACGGCGAACCA-ATACCAT
* * * *
136979 AGAAGATGTGATGGGAAACG-TTGAGGCCACAACGGCGAACCCGATACCAT
1 -GAAGATATGAAGGGAAA-GATTGAGGCCGCAACGGCGAA-CCAATACCAT
* ** * * * **
137029 AAAGATATGAAAAGAAAGGTTGAGGCCGCAACTGCGAACCAGTACTTT
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAACCAATACCAT
* * * * * *
137077 AGAAGATGTG-ATGGAAAGGATTAAGGTCGCAACGGTGAATCCAACACCAT
1 -GAAGATATGAAGGGAAA-GATTGAGGCCGCAACGGCGAA-CCAATACCAT
* *
137127 GAAGATATGAAGGGAAATATTTAGGCCGCAACGG
1 GAAGATATGAAGGGAAAGATTGAGGCCGCAACGG
137161 TAAACCCAAT
Statistics
Matches: 726, Mismatches: 210, Indels: 66
0.72 0.21 0.07
Matches are distributed among these distances:
47 1 0.00
48 137 0.19
49 313 0.43
50 262 0.36
51 13 0.02
ACGTcount: A:0.34, C:0.15, G:0.30, T:0.20
Consensus pattern (48 bp):
GAAGATATGAAGGGAAAGATTGAGGCCGCAACGGCGAACCAATACCAT
Found at i:137173 original size:147 final size:145
Alignment explanation
Indices: 136402--137160 Score: 412
Period size: 147 Copynumber: 5.1 Consensus size: 145
136392 GATGTTATGA
* * * * * * *
136402 GAAAGATTGAGGCCGCAACGGCGAATCC-AGTACCATGAAGATTTGAAAGGAAAGGTTAAGG-TC
1 GAAATATTAAGGCCGCAACGGCGAACCCGA-TACCATAAAGATATGAAAAGAAAGGTTGAGGCT-
* * * * * * *
136465 GCGA-TGGCGAACCCGGTA-TCTCAAAAGATGTGATGGGAAAGATTGAGGCGGCAATGGCGAATC
64 GCAACT-GCGAA-CCAGTACT-TTAGAAGATGTGAT-GGAAAGATTAAGGC-GCAACGGTGAATC
**** * *
136528 TGGTACCATGAA-ATGTGATGG
124 CAACACCATGAAGATATGAAGG
* * * * ** * * ** *
136549 GAAAGATTGAGGCTGCAACGGCGAACCCGGTACTGTGAAGATTTGAAGGGAAAGGTTGAGGCTAC
1 GAAATATTAAGGCCGCAACGGCGAACCCGATACCATAAAGATATGAAAAGAAAGGTTGAGGCTGC
* * * * ** *
136614 AA-TGGTGAACCAGGTACCTTAGAAGATGTGATGGGAAAGGTTGAGGCCGCAATAGCGAA-CCTA
66 AACT-GCGAACCA-GTACTTTAGAAGATGTGAT-GGAAAGATTAAGG-CGCAACGGTGAATCC-A
** * * * *
136677 GTACCTTAGAAAATTTGATGG
126 ACACCAT-GAAGATATGAAGG
** * * * * * * *
136698 GAAAGGTTGAGGTCGTAATAGG-GAACCTGATACCATAAAGATATAAAAAAAAAGGTTGAGGCTG
1 GAAATATTAAGGCCGCAA-CGGCGAACCCGATACCATAAAGATATGAAAAGAAAGGTTGAGGCTG
* * *
136762 CAAC-GACGAACCCGATACTTTAGAATATGTGATGGGAAAGATTGAGGCCGCAACGGTGAATCCA
65 CAACTG-CGAACCAG-TACTTTAGAAGATGTGAT-GGAAAGATTAAGG-CGCAACGGTGAATCCA
136826 ACACCATGAAGATATGAAGG
126 ACACCATGAAGATATGAAGG
* * * * * * * * *** * *
136846 GAAATATTAAGGTCGTAATGGCGAATCTGACACCATGAA-ATGTGATGGGAAAGATTGAAGCTGC
1 GAAATATTAAGGCCGCAACGGCGAACCCGATACCATAAAGATATGAAAAGAAAGGTTGAGGCTGC
* * * * *
136910 AA-TGGCGAACTCGGTACTGT-GAAGATTTGAAGGGAAATG-TTTAGGCTGCAACGGTGAA-CCA
66 AACT-GCGAAC-CAGTACTTTAGAAGATGTG-ATGGAAA-GATTAAGGC-GCAACGGTGAATCCA
** * * *
136971 GGTACCTTAGAAGATGTGATGG
126 -ACACCAT-GAAGATATGAAGG
** * * *
136993 GAAACGTTGAGGCCACAACGGCGAACCCGATACCATAAAGATATGAAAAGAAAGGTTGAGGCCGC
1 GAAATATTAAGGCCGCAACGGCGAACCCGATACCATAAAGATATGAAAAGAAAGGTTGAGGCTGC
137058 AACTGCGAACCAGTACTTTAGAAGATGTGATGGAAAGGATTAAGGTCGCAACGGTGAATCCAACA
66 AACTGCGAACCAGTACTTTAGAAGATGTGATGGAAA-GATTAAGG-CGCAACGGTGAATCCAACA
137123 CCATGAAGATATGAAGG
129 CCATGAAGATATGAAGG
*
137140 GAAATATTTAGGCCGCAACGG
1 GAAATATTAAGGCCGCAACGG
137161 TAAACCCAAT
Statistics
Matches: 475, Mismatches: 109, Indels: 56
0.74 0.17 0.09
Matches are distributed among these distances:
145 4 0.01
146 35 0.07
147 219 0.46
148 103 0.22
149 110 0.23
150 4 0.01
ACGTcount: A:0.35, C:0.15, G:0.30, T:0.20
Consensus pattern (145 bp):
GAAATATTAAGGCCGCAACGGCGAACCCGATACCATAAAGATATGAAAAGAAAGGTTGAGGCTGC
AACTGCGAACCAGTACTTTAGAAGATGTGATGGAAAGATTAAGGCGCAACGGTGAATCCAACACC
ATGAAGATATGAAGG
Found at i:137590 original size:85 final size:84
Alignment explanation
Indices: 137423--137592 Score: 218
Period size: 84 Copynumber: 2.0 Consensus size: 84
137413 CTTTAAACAC
* * * * * **
137423 CCATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGTAATAAAGCGTCATCTTTTTGATGAGAT
1 CCATCTTCCTGATGAGACACAGAAAAGTGGATCAAAATAATAAAGCGTCATCTTCCTGATGAGAT
*
137488 ACAGAAAAGTGGACCAAAT
66 ACAGAAAAGTAGACCAAAT
*
137507 CCATCTTCCTGATGAGACACAGAAAAGTGGATTAAAATAATGAAA-CGGTCATCTTCCTGATGAG
1 CCATCTTCCTGATGAGACACAGAAAAGTGGATCAAAATAAT-AAAGC-GTCATCTTCCTGATGAG
137571 ATACA-AAGAAGTAGACCAAAT
64 ATACAGAA-AAGTAGACCAAAT
137592 C
1 C
137593 AATGAAACGA
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 38 0.51
85 36 0.49
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (84 bp):
CCATCTTCCTGATGAGACACAGAAAAGTGGATCAAAATAATAAAGCGTCATCTTCCTGATGAGAT
ACAGAAAAGTAGACCAAAT
Found at i:137597 original size:48 final size:48
Alignment explanation
Indices: 137508--137601 Score: 120
Period size: 48 Copynumber: 2.0 Consensus size: 48
137498 GGACCAAATC
* *
137508 CATCTTCCTGATGAGACACAGAAAAGTGGATTAAAATAATGAAACGGT
1 CATCTTCCTGATGAGACACAGAAAAGTAGATCAAAATAATGAAACGGT
* *
137556 CATCTTCCTGATGAGATACA-AAGAAGTAGA-CCAAATCAATGAAACG
1 CATCTTCCTGATGAGACACAGAA-AAGTAGATCAAAAT-AATGAAACG
137602 AAGCTCAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
47 6 0.15
48 34 0.85
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.21
Consensus pattern (48 bp):
CATCTTCCTGATGAGACACAGAAAAGTAGATCAAAATAATGAAACGGT
Found at i:137684 original size:208 final size:207
Alignment explanation
Indices: 137292--137790 Score: 687
Period size: 208 Copynumber: 2.4 Consensus size: 207
137282 AGTTAAGCGA
* * * * **
137292 ACCAAACCCGTCTTCCTGATGAGATACAGAGAAGTGAATTAAATCAATGAGGCGGTCATCTTCCT
1 ACCAAATCCATCTTCCTGATGAGATACAGAAAAGTGGATTAAAT-AATGAAACGGTCATCTTCCT
* ** *
137357 GATGAGATACAGAGAAGGAGACCAAATCAATGAAGTGAAGCTCAATACGAATGAGACTTTAAACA
65 GATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACTTCAAACA
* * * * **
137422 CCCATCTTCTTGATGAGATACAGAGAAGTGGGTCAAAGTAATAAAGCGTCATCTTTTTGATGAGA
130 CCCATCCTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGTCATCTTCCTGATGAGA
137487 TACAGAAAAGTGG
195 TACAGAAAAGTGG
*
137500 ACCAAATCCATCTTCCTGATGAGACACAGAAAAGTGGATTAAAATAATGAAACGGTCATCTTCCT
1 ACCAAATCCATCTTCCTGATGAGATACAGAAAAGTGGATT-AAATAATGAAACGGTCATCTTCCT
* *
137565 GATGAGATACAAAGAAGTAGACCAAATCAATGAAACGAAGCTCAATATGAATGAGACTTCAAAC-
65 GATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACTTCAAACA
* *
137629 CTCATCCTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAATGATCATCTTCCTGATGAG
130 CCCATCCTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACG-TCATCTTCCTGATGAG
* *
137694 ATGCAGAGAAGTGG
194 ATACAGAAAAGTGG
* * ** *
137708 ACCAAATCCTTCTTGCTGATGAGATACA-AAGAAGTGGATTGAAGCAATAAAACGGTCATCTTCC
1 ACCAAATCCATCTTCCTGATGAGATACAGAA-AAGTGGATT-AAATAATGAAACGGTCATCTTCC
137772 TGATGAGATACAGAGAAGT
64 TGATGAGATACAGAGAAGT
137791 GGATTGAAAC
Statistics
Matches: 257, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
207 44 0.17
208 209 0.81
209 4 0.02
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (207 bp):
ACCAAATCCATCTTCCTGATGAGATACAGAAAAGTGGATTAAATAATGAAACGGTCATCTTCCTG
ATGAGATACAGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACTTCAAACAC
CCATCCTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAACGTCATCTTCCTGATGAGAT
ACAGAAAAGTGG
Found at i:137786 original size:85 final size:85
Alignment explanation
Indices: 137638--137793 Score: 249
Period size: 85 Copynumber: 1.8 Consensus size: 85
137628 CCTCATCCTC
* * * *
137638 CTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAATGATCATCTTCCTGATGAGATGCAGAGA
1 CTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAACGATCATCTTCCTGATGAGATACAGAGA
137703 AGTGGACCAAATCCTTCTTG
66 AGTGGACCAAATCCTTCTTG
** *
137723 CTGATGAGATACAAAGAAGTGGATTGAAGCAATAAAACGGTCATCTTCCTGATGAGATACAGAGA
1 CTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAACGATCATCTTCCTGATGAGATACAGAGA
137788 AGTGGA
66 AGTGGA
137794 TTGAAACAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (85 bp):
CTGATGAGATACAAAGAAGTGGATCAAAGCAATAAAACGATCATCTTCCTGATGAGATACAGAGA
AGTGGACCAAATCCTTCTTG
Found at i:137794 original size:48 final size:48
Alignment explanation
Indices: 137718--137838 Score: 179
Period size: 48 Copynumber: 2.5 Consensus size: 48
137708 ACCAAATCCT
* *
137718 TCTTGCTGATGAGATACAAAGAAGTGGATTGAAGCAATAAAACGGTCA
1 TCTTCCTGATGAGATACAAAGAAGTGGATTGAAACAATAAAACGGTCA
* * **
137766 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCA
1 TCTTCCTGATGAGATACAAAGAAGTGGATTGAAACAATAAAACGGTCA
*
137814 TCTTCCTGATGAGATACAAAAAAGT
1 TCTTCCTGATGAGATACAAAGAAGT
137839 AGACCAAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.24
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAAAGAAGTGGATTGAAACAATAAAACGGTCA
Found at i:137852 original size:48 final size:48
Alignment explanation
Indices: 137718--137853 Score: 130
Period size: 48 Copynumber: 2.8 Consensus size: 48
137708 ACCAAATCCT
* * * ** * * **
137718 TCTTGCTGATGAGATACAAAGAAGTGGATTGAAGCAATAAAACGGTCA
1 TCTTCCTGATGAGATACAAAAAAGTAGATCCAAACAATGAGGCGGTCA
* * * **
137766 TCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCA
1 TCTTCCTGATGAGATACAAAAAAGTAGATCCAAACAATGAGGCGGTCA
137814 TCTTCCTGATGAGATACAAAAAAGTAGA-CCAAATCAATGA
1 TCTTCCTGATGAGATACAAAAAAGTAGATCCAAA-CAATGA
137854 AGCGAAGCTT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
47 3 0.04
48 73 0.96
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.23
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAAAAAAGTAGATCCAAACAATGAGGCGGTCA
Found at i:138044 original size:166 final size:166
Alignment explanation
Indices: 137752--138127 Score: 452
Period size: 166 Copynumber: 2.2 Consensus size: 166
137742 TGGATTGAAG
* * * * *
137752 CAATAAAACGGTCATCTTCCTGATGAGATACAGAGAAGTGGATTGAAACAATGAGGCGGTCATCT
1 CAATAAAACGGTCATCTTCCTAATGAGATACAAAAAAGTGAATTGAAACAATGAGGCGATCATCT
*
137817 TCCTGATGAGATACAAAAAAGTAGACCAAATCAATGAAGCGAAGCTTAATACGAATGAGACTTCA
66 TCCTGATGAGATACAAAAAAGTAGACCAAATCAATGAAGCAAAGCTTAATACGAATGAGACTTCA
137882 AACCCCATATTCTTGATGAGATATGGAGAAGAGGGT
131 AACCCCATATTCTTGATGAGATATGGAGAAGAGGGT
* * *
137918 CAATAAAGCGGTCATCTTCCTAATGAGATACAAAAAAGTGAATTGAAATAATGAGGTGATCATCT
1 CAATAAAACGGTCATCTTCCTAATGAGATACAAAAAAGTGAATTGAAACAATGAGGCGATCATCT
* * * * * *
137983 TCCTGATGAGATACAGAGAAGTAGACCAAATCAATGATGTAAAG-TTCAATGCGAGTGAGACTTC
66 TCCTGATGAGATACAAAAAAGTAGACCAAATCAATGAAGCAAAGCTT-AATACGAATGAGACTTC
* * * **
138047 AAACCTCAT-TATCCTGATTAGATACAGAGAAGTA-GGT
130 AAACCCCATAT-TCTTGATGAGATATGGAGAAG-AGGGT
* * *
138084 CAAAGCAATAAAATGGTCATCTTCCTGATGAGATACAAAGAAGT
1 -----CAATAAAACGGTCATCTTCCTAATGAGATACAAAAAAGT
138128 AAACCAAAAG
Statistics
Matches: 178, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
165 3 0.02
166 139 0.78
167 1 0.01
171 35 0.20
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (166 bp):
CAATAAAACGGTCATCTTCCTAATGAGATACAAAAAAGTGAATTGAAACAATGAGGCGATCATCT
TCCTGATGAGATACAAAAAAGTAGACCAAATCAATGAAGCAAAGCTTAATACGAATGAGACTTCA
AACCCCATATTCTTGATGAGATATGGAGAAGAGGGT
Found at i:152619 original size:38 final size:38
Alignment explanation
Indices: 152577--152681 Score: 138
Period size: 38 Copynumber: 2.7 Consensus size: 38
152567 CATATAACAA
*
152577 GAGAATCTACAACAAGGCTAGATCTCGTCATATTACTT
1 GAGAATCTACAACAAGGCTAGATCTCGTCATATTACTC
* * * *
152615 GAGAATCTACAAGAAGGCTAGATCCCATTATATTACTC
1 GAGAATCTACAACAAGGCTAGATCTCGTCATATTACTC
* *
152653 GAGAATCTACAACAAATGCTAGATTTCGT
1 GAGAATCTACAAC-AAGGCTAGATCTCGT
152682 TACAATACCC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
38 45 0.80
39 11 0.20
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (38 bp):
GAGAATCTACAACAAGGCTAGATCTCGTCATATTACTC
Found at i:153851 original size:20 final size:20
Alignment explanation
Indices: 153815--153864 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
153805 ATTAGCATGA
153815 TTTATATTAAGTATAAATAG-G
1 TTTA-ATTAAGTATAAA-AGCG
153836 TTTAATTAAG-ATTAAAAGCG
1 TTTAATTAAGTA-TAAAAGCG
*
153856 ATTAATTAA
1 TTTAATTAA
153865 ATCTTAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 3 0.12
20 19 0.73
21 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTAATTAAGTATAAAAGCG
Found at i:164543 original size:2 final size:2
Alignment explanation
Indices: 164536--164573 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
164526 ACACTGAATA
164536 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
164574 TAAAAATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:172537 original size:17 final size:18
Alignment explanation
Indices: 172500--172543 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
172490 ATCCAAACCC
*
172500 AAATTCAAAACAAATTTT
1 AAATTTAAAACAAATTTT
*
172518 AAATTTAAAATAAA-TTT
1 AAATTTAAAACAAATTTT
172535 AAATTTAAA
1 AAATTTAAA
172544 TGTCTAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATTTAAAACAAATTTT
Found at i:173077 original size:22 final size:22
Alignment explanation
Indices: 173049--173094 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
173039 AAGCATTTTT
173049 TATTTATGTA-TATATATTAATA
1 TATTTATGTATTATATATT-ATA
* *
173071 TATTTATTTATTATTTATTATA
1 TATTTATGTATTATATATTATA
173093 TA
1 TA
173095 GTAATATACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (22 bp):
TATTTATGTATTATATATTATA
Found at i:173081 original size:30 final size:29
Alignment explanation
Indices: 173043--173102 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
173033 ATTTCGAAGC
*
173043 ATTTTTTATTTATGTA-TATATATTAATAT
1 ATTTTTTA-TTATGTATTATATAGTAATAT
*
173072 ATTTATTTATTATTTATTATATAGTAATAT
1 ATTT-TTTATTATGTATTATATAGTAATAT
173102 A
1 A
173103 CCTATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 10 0.37
30 17 0.63
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (29 bp):
ATTTTTTATTATGTATTATATAGTAATAT
Found at i:174136 original size:30 final size:30
Alignment explanation
Indices: 174086--174358 Score: 198
Period size: 30 Copynumber: 9.2 Consensus size: 30
174076 AAATTTTCCA
* *
174086 AAAATCATATTTTAACCCTCGAACTTTTCT
1 AAAATTATATTTTAACCCTCAAACTTTTCT
* * * *
174116 AAAATTACATTTTCACCCTCGAATTTTTCT
1 AAAATTATATTTTAACCCTCAAACTTTTCT
** * * * * *
174146 AATTTTACATGTCACCCCT-AAACTTTTCC
1 AAAATTATATTTTAACCCTCAAACTTTTCT
* * *
174175 AAAATCATATTTTAACCC-CAAAACTTTCCC
1 AAAATTATATTTTAACCCTC-AAACTTTTCT
* * *
174205 AAAATCATATTTTAACCCCCAAACTTTCCT
1 AAAATTATATTTTAACCCTCAAACTTTTCT
* * *
174235 AAAATAATATTTTAA-CCTCCAAACTTTCCC
1 AAAATTATATTTTAACCCT-CAAACTTTTCT
* * * *
174265 AAAATAATATTTTGACCCCCAAACTTTCCT
1 AAAATTATATTTTAACCCTCAAACTTTTCT
* * *
174295 AAAATAATATTTTAACCCT-AAATTTTTCC
1 AAAATTATATTTTAACCCTCAAACTTTTCT
* * *
174324 AAAATTACATTTTAACACT-AAA-TTCTCT
1 AAAATTATATTTTAACCCTCAAACTTTTCT
174352 AAAATTA
1 AAAATTA
174359 CATAGTCTAT
Statistics
Matches: 200, Mismatches: 38, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
28 11 0.05
29 46 0.23
30 140 0.70
31 3 0.01
ACGTcount: A:0.37, C:0.25, G:0.01, T:0.37
Consensus pattern (30 bp):
AAAATTATATTTTAACCCTCAAACTTTTCT
Found at i:174239 original size:60 final size:59
Alignment explanation
Indices: 174159--174339 Score: 247
Period size: 60 Copynumber: 3.0 Consensus size: 59
174149 TTTACATGTC
* * *
174159 ACCCCTAAACTTTTCC-AAAATCATATTTTAACCCCAAAACTTTCCCAAAATCATATTTTA
1 ACCCCCAAAC-TTTCCTAAAATAATATTTTAACCCC-AAACTTTCCCAAAATAATATTTTA
*
174219 ACCCCCAAACTTTCCTAAAATAATATTTTAACCTCCAAACTTTCCCAAAATAATATTTTG
1 ACCCCCAAACTTTCCTAAAATAATATTTTAACC-CCAAACTTTCCCAAAATAATATTTTA
* * * * *
174279 ACCCCCAAACTTTCCTAAAATAATATTTTAACCCTAAATTTTTCCAAAATTACATTTTA
1 ACCCCCAAACTTTCCTAAAATAATATTTTAACCCCAAACTTTCCCAAAATAATATTTTA
174338 AC
1 AC
174340 ACTAAATTCT
Statistics
Matches: 109, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
59 27 0.25
60 80 0.73
61 2 0.02
ACGTcount: A:0.39, C:0.27, G:0.01, T:0.34
Consensus pattern (59 bp):
ACCCCCAAACTTTCCTAAAATAATATTTTAACCCCAAACTTTCCCAAAATAATATTTTA
Found at i:174323 original size:90 final size:89
Alignment explanation
Indices: 174165--174339 Score: 235
Period size: 90 Copynumber: 2.0 Consensus size: 89
174155 TGTCACCCCT
* * *
174165 AAACTTTTCCAAAATCATATTTTAACCCCAAAACTTTCCCAAAATCATATTTTAACCCCCAAACT
1 AAACTTTCCCAAAATAATATTTTAACCCCAAAACTTTCCCAAAATAATATTTTAACCCCCAAACT
*
174230 TTCCTAAAATAATATTTTAACCTCC
66 TTCC-AAAATAACATTTTAACCTCC
* * * * *
174255 AAACTTTCCCAAAATAATATTTTGACCCCCAAACTTTCCTAAAATAATATTTTAA-CCCTAAATT
1 AAACTTTCCCAAAATAATATTTTAACCCCAAAACTTTCCCAAAATAATATTTTAACCCCCAAA-C
*
174319 TTTCCAAAATTACATTTTAAC
65 TTTCCAAAATAACATTTTAAC
174340 ACTAAATTCT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
89 20 0.27
90 54 0.73
ACGTcount: A:0.39, C:0.25, G:0.01, T:0.35
Consensus pattern (89 bp):
AAACTTTCCCAAAATAATATTTTAACCCCAAAACTTTCCCAAAATAATATTTTAACCCCCAAACT
TTCCAAAATAACATTTTAACCTCC
Found at i:177598 original size:85 final size:85
Alignment explanation
Indices: 177453--177619 Score: 196
Period size: 85 Copynumber: 2.0 Consensus size: 85
177443 CAAACCTCTA
* *
177453 TCTTCCTAATGAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGATAACTTTCCTAATGAGATAC
1 TCTTCCTAATGAGACACAGAGAAGTAGGTCAAAACAATAAAGCGATAACTTTCCTAATGAGATAC
177518 AGAGAAGT-GAACCAAATTCG
66 AGAGAAGTAG-ACCAAATTCG
* * * * * *
177538 TCTTCCTAATGAGACACAGAGAAGT-GGATTAAAACAATAACGTGGTCA-TCTTCCTGATGAGAT
1 TCTTCCTAATGAGACACAGAGAAGTAGG-TCAAAACAATAAAGCGATAACT-TTCCTAATGAGAT
* *
177601 ATAGATAAGTAGACCAAAT
64 ACAGAGAAGTAGACCAAAT
177620 CGATGAAGTG
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
84 3 0.04
85 65 0.94
86 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.24
Consensus pattern (85 bp):
TCTTCCTAATGAGACACAGAGAAGTAGGTCAAAACAATAAAGCGATAACTTTCCTAATGAGATAC
AGAGAAGTAGACCAAATTCG
Found at i:177613 original size:209 final size:208
Alignment explanation
Indices: 177230--177826 Score: 733
Period size: 209 Copynumber: 2.9 Consensus size: 208
177220 GGAAGAGAGA
* *
177230 AAACTTCAAA-CTC-ATCTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGGTCAT
1 AAACTTCAAACCTCTATCTTCCTGATGAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGGTCAT
* * * * * *
177293 CTTCTTGATAAGATACAGAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAAAGAAATAGAT
66 CTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAGAGAAATGGAT
* * ** *
177358 TAAAACAATGAGGCGGTTGTCTTCCTAATGAGATACAAAGAAGTAGACCAAATCAATGAAGTGAA
131 TAAAACAAT-AAGTGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGTGAA
* *
177423 GCTCAGTGTGAGTG
195 GCTCAATGAGAGTG
* * *
177437 AAACTTCAAACCTCTATCTTCCTAATGAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGAT-AA
1 AAACTTCAAACCTCTATCTTCCTGATGAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGGTCAT
* * * * *
177501 CTTTCCTAATGAGATACAGAGAAGTGAACCAAATTCGTCTTCCTAATGAGACACAGAGAAGTGGA
66 C-TTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAGAGAAATGGA
* * * *
177566 TTAAAACAATAACGTGGTCATCTTCCTGATGAGATATAGATAAGTAGACCAAATCGATGAAGTGA
130 TTAAAACAATAA-GTGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGTGA
177631 AGCTCAATGAGAGTG
194 AGCTCAATGAGAGTG
* *
177646 AAACTTCAAACCCCTATCTTCTTGATGAGATACAGAG-AG-ATGGATC-AAGACAATAAAGCGGT
1 AAACTTCAAACCTCTATCTTCCTGATGAGATACAGAGAAGTA-GG-TCAAAG-CAATAAAGCGGT
* *
177708 CATCTTCGTGAA-GAGATACAGAGAAGT-AGACCAAATCCACCTTCCTGATGAGATACAGAGAAA
63 CATCTTCCT-AATGAGATACAGAGAAGTGA-ACCAAATCCATCTTCCTGATGAGATACAGAGAAA
* * * * *
177771 TGGATCAAGACAATGAAGTGGTCAACTTCCTGATAAGATACAAAGAAGTGGACCAA
126 TGGATTAAAACAAT-AAGTGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAA
177827 GAGATGAAGC
Statistics
Matches: 332, Mismatches: 47, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
207 11 0.03
208 14 0.04
209 301 0.91
210 6 0.02
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (208 bp):
AAACTTCAAACCTCTATCTTCCTGATGAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGGTCAT
CTTCCTAATGAGATACAGAGAAGTGAACCAAATCCATCTTCCTGATGAGATACAGAGAAATGGAT
TAAAACAATAAGTGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAATGAAGTGAAG
CTCAATGAGAGTG
Found at i:177768 original size:85 final size:85
Alignment explanation
Indices: 177663--177826 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 85
177653 AAACCCCTAT
* * * *
177663 CTTCTTGATGAGATACAGAGAGATGGATCAAGACAATAAAGCGGTCATCTTCGTGA-AGAGATAC
1 CTTCCTGATGAGATACAGAGAAATGGATCAAGACAATAAAGCGGTCAACTTCCTGATA-AGATAC
*
177727 AGAGAAGTAGACCAAATCCAC
65 AAAGAAGTAGACCAAATCCAC
* *
177748 CTTCCTGATGAGATACAGAGAAATGGATCAAGACAATGAAGTGGTCAACTTCCTGATAAGATACA
1 CTTCCTGATGAGATACAGAGAAATGGATCAAGACAATAAAGCGGTCAACTTCCTGATAAGATACA
*
177813 AAGAAGTGGACCAA
66 AAGAAGTAGACCAA
177827 GAGATGAAGC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
85 69 0.99
86 1 0.01
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (85 bp):
CTTCCTGATGAGATACAGAGAAATGGATCAAGACAATAAAGCGGTCAACTTCCTGATAAGATACA
AAGAAGTAGACCAAATCCAC
Found at i:178286 original size:42 final size:45
Alignment explanation
Indices: 178221--178307 Score: 126
Period size: 43 Copynumber: 2.0 Consensus size: 45
178211 TAAAAACAAA
* *
178221 TTTTAAATTTAAATTTATTTTAAATTT-AAAATGTCCAA-TACAT
1 TTTTAAATTTAAATTTACTTTAAATTTAAAAAGGTCCAATTACAT
*
178264 TTTTGAATTTAAATTT-CTTTAAATTTAAAAAGGTCCAATTACAT
1 TTTTAAATTTAAATTTACTTTAAATTTAAAAAGGTCCAATTACAT
178308 GCCCAATTTA
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 9 0.23
43 25 0.64
44 5 0.13
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (45 bp):
TTTTAAATTTAAATTTACTTTAAATTTAAAAAGGTCCAATTACAT
Found at i:178316 original size:43 final size:43
Alignment explanation
Indices: 178226--178317 Score: 98
Period size: 43 Copynumber: 2.1 Consensus size: 43
178216 ACAAATTTTA
* * ****
178226 AATTTAAATTTATTTTAAATTTAAAATGTCCAATACATTTTTG
1 AATTTAAATTTACTTTAAATTTAAAAGGTCCAATACATTGCCC
178269 AATTTAAATTT-CTTTAAATTTAAAAAGGTCCAATTACA-TGCCC
1 AATTTAAATTTACTTTAAATTT-AAAAGGTCCAA-TACATTGCCC
178312 AATTTA
1 AATTTA
178318 TAAAGTCTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
42 9 0.22
43 28 0.68
44 4 0.10
ACGTcount: A:0.40, C:0.11, G:0.05, T:0.43
Consensus pattern (43 bp):
AATTTAAATTTACTTTAAATTTAAAAGGTCCAATACATTGCCC
Found at i:178802 original size:30 final size:30
Alignment explanation
Indices: 178764--178829 Score: 73
Period size: 30 Copynumber: 2.2 Consensus size: 30
178754 ATTTCGAAGC
*
178764 ATTT-TTTATTTAAGTA-TATATATTAATAT
1 ATTTATTTA-TTAAGTATTATATAGTAATAT
**
178793 ATTTATTTATTATTTATTATATAGTAATAT
1 ATTTATTTATTAAGTATTATATAGTAATAT
*
178823 ATCTATT
1 ATTTATT
178830 AACTGCTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
29 9 0.29
30 22 0.71
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (30 bp):
ATTTATTTATTAAGTATTATATAGTAATAT
Done.