Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01012223.1 Kokia drynarioides strain JFW-HI SEQ_127224, 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: 157318
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Warning! 21 characters in sequence are not A, C, G, or T
Found at i:760 original size:3 final size:3
Alignment explanation
Indices: 752--779 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
742 GCTTTATCCT
752 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
780 AATAATAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:3509 original size:19 final size:20
Alignment explanation
Indices: 3485--3532 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
3475 ACATAAAAAA
3485 AAAAAAATTAATA-TTAAAT
1 AAAAAAATTAATATTTAAAT
*
3504 AAAAAAATAAATATTTAAAT
1 AAAAAAATTAATATTTAAAT
*
3524 AATAAAATT
1 AAAAAAATT
3533 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAAATTAATATTTAAAT
Found at i:3509 original size:20 final size:21
Alignment explanation
Indices: 3484--3530 Score: 62
Period size: 19 Copynumber: 2.3 Consensus size: 21
3474 AACATAAAAA
*
3484 AAAAAAAATTAATA-TTAAAT
1 AAAAAAAATAAATATTTAAAT
3504 -AAAAAAATAAATATTTAAAT
1 AAAAAAAATAAATATTTAAAT
*
3524 AATAAAA
1 AAAAAAA
3531 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.52
20 6 0.26
21 5 0.22
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAAAATAAATATTTAAAT
Found at i:3522 original size:16 final size:16
Alignment explanation
Indices: 3503--3544 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
3493 TAATATTAAA
3503 TAAAAAAATAAATATT
1 TAAAAAAATAAATATT
* *
3519 T-AAATAATAAAATTTT
1 TAAAAAAAT-AAATATT
3535 TAAAAAAATA
1 TAAAAAAATA
3545 TTGATACGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
15 6 0.29
16 9 0.43
17 6 0.29
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAAAATAAATATT
Found at i:3946 original size:17 final size:17
Alignment explanation
Indices: 3924--3957 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
3914 AAAAAAATTC
*
3924 ATTTAAATGTTATTTAA
1 ATTTAAATATTATTTAA
3941 ATTTAAATATTATTTAA
1 ATTTAAATATTATTTAA
3958 TCATGTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTAAATATTATTTAA
Found at i:4834 original size:6 final size:6
Alignment explanation
Indices: 4823--4886 Score: 71
Period size: 6 Copynumber: 11.0 Consensus size: 6
4813 TTTAATTTAT
4823 TTTAAA TTTAAA -TT-AA TCTTAAA TTTAAA TTT-AA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
4869 TTTGAT TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA
4887 AAGTCCATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
4 2 0.04
5 7 0.14
6 37 0.76
7 3 0.06
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:4850 original size:23 final size:22
Alignment explanation
Indices: 4814--4885 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 22
4804 GGGCCCCTTT
*
4814 TTAATTT-ATTTTAAATTTAAA
1 TTAATTTAAATTTAAATTTAAA
*
4835 TTAATCTTAAATTTAAATTTAAT
1 TTAAT-TTAAATTTAAATTTAAA
* *
4858 TTAAATTTAAATTTGATTTTAAAA
1 TT-AATTTAAATTTAAATTT-AAA
4882 TTAA
1 TTAA
4886 AAAGTCCATT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
21 5 0.12
22 2 0.05
23 28 0.67
24 7 0.17
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (22 bp):
TTAATTTAAATTTAAATTTAAA
Found at i:4871 original size:17 final size:17
Alignment explanation
Indices: 4816--4886 Score: 90
Period size: 17 Copynumber: 4.1 Consensus size: 17
4806 GCCCCTTTTT
*
4816 AATTTATTTTAAATTTA
1 AATTTAATTTAAATTTA
4833 AA-TTAATCTTAAATTTA
1 AATTTAAT-TTAAATTTA
4850 AATTTAATTTAAATTTA
1 AATTTAATTTAAATTTA
* *
4867 AATTTGATTTTAAAATTA
1 AATTT-AATTTAAATTTA
4885 AA
1 AA
4887 AAGTCCATTA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
16 4 0.08
17 27 0.56
18 17 0.35
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTAATTTAAATTTA
Found at i:4876 original size:11 final size:11
Alignment explanation
Indices: 4816--4867 Score: 61
Period size: 11 Copynumber: 4.6 Consensus size: 11
4806 GCCCCTTTTT
*
4816 AATTTATTTTA
1 AATTTAATTTA
*
4827 AATTTAAATT-
1 AATTTAATTTA
4837 AATCTTAAATTTA
1 AAT-TT-AATTTA
4850 AATTTAATTTA
1 AATTTAATTTA
4861 AATTTAA
1 AATTTAA
4868 ATTTGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 3 0.09
11 23 0.66
12 6 0.17
13 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (11 bp):
AATTTAATTTA
Found at i:5654 original size:13 final size:13
Alignment explanation
Indices: 5636--5675 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
5626 ACTTTAATGT
5636 TATTAATAAATAA
1 TATTAATAAATAA
*
5649 TATTAATAATTAA
1 TATTAATAAATAA
5662 TATTTAAT-AATAA
1 TA-TTAATAAATAA
5675 T
1 T
5676 GTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TATTAATAAATAA
Found at i:6834 original size:29 final size:29
Alignment explanation
Indices: 6791--6982 Score: 208
Period size: 29 Copynumber: 6.5 Consensus size: 29
6781 GGAGGTCCTT
*
6791 AAACTGTCCAAAAATTCCATTTTTACCCCC
1 AAACT-TCCAAAAATTCCATTTTTACCCCA
* * *
6821 AAACTTCAAAAAATCCCATTTTTGA-CCTA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCA
** *
6850 AAACTTCCAAAAATTTTAGTTTTGACCCCA
1 AAACTTCCAAAAATTCCA-TTTTTACCCCA
* ** *
6880 AAACTTCTAAAAATTATATTTTTACCCCC
1 AAACTTCCAAAAATTCCATTTTTACCCCA
6909 AAACTTCCAAAAATTCCATTTTTAGCCCC-
1 AAACTTCCAAAAATTCCATTTTTA-CCCCA
* *
6938 GAATTTCCAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTCCATTTTT-ACCCCA
6968 AAACTTCCAAAAATT
1 AAACTTCCAAAAATT
6983 ATCATTTTGC
Statistics
Matches: 135, Mismatches: 21, Indels: 12
0.80 0.12 0.07
Matches are distributed among these distances:
29 88 0.65
30 47 0.35
ACGTcount: A:0.38, C:0.27, G:0.03, T:0.32
Consensus pattern (29 bp):
AAACTTCCAAAAATTCCATTTTTACCCCA
Found at i:6946 original size:88 final size:88
Alignment explanation
Indices: 6791--7018 Score: 255
Period size: 88 Copynumber: 2.6 Consensus size: 88
6781 GGAGGTCCTT
** * * *
6791 AAACTGTCCAAAAATTCCATTTTTACCCCCAAACTTCAAAAAATCCCATTTTTGACCTAAAACTT
1 AAACT-TCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCAAAACTT
** *
6856 CCAAAAATTTTAGTTTTGACCCCA
65 CCAAAAATTCCAGTTTTAACCCCA
* ** *
6880 AAACTTCTAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTTT-AGCCCCGAATTT
1 AAACTTCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGA-CCCAAAACTT
*
6944 CCAAAAATTCCATTTTTAACCCCA
65 CCAAAAATTCCAGTTTTAACCCCA
* * *
6968 AAACTTCCAAAAATTATCA-TTTTGCCCCCAGA-TGTCCAAAAACTCCATTTT
1 AAACTTCCAAAAATTAT-ATTTTTACCCCCAAACT-TCCAAAAATTCCATTTT
7019 CGACTTCGAA
Statistics
Matches: 119, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
87 2 0.02
88 111 0.93
89 6 0.05
ACGTcount: A:0.36, C:0.27, G:0.04, T:0.32
Consensus pattern (88 bp):
AAACTTCCAAAAATTATATTTTTACCCCCAAACTTCCAAAAATTCCATTTTTGACCCAAAACTTC
CAAAAATTCCAGTTTTAACCCCA
Found at i:7006 original size:59 final size:59
Alignment explanation
Indices: 6791--7106 Score: 213
Period size: 59 Copynumber: 5.4 Consensus size: 59
6781 GGAGGTCCTT
* * * * *
6791 AAACTGTCCAAAAATT-CCATTTTTACCCCCAAACT-TCAAAAAATCCCATTTTTGA-CCTA
1 AAACT-TCCAAAAATTACCA-TTTTGCCCCCAAA-TGTCCAAAAATTCCATTTTTAACCCCA
** * * ** *
6850 AAACTTCCAAAAATT-TTAGTTTTGACCCCAAAACT-TCTAAAAATTATATTTTT-ACCCCC
1 AAACTTCCAAAAATTACCA-TTTTG-CCCCCAAA-TGTCCAAAAATTCCATTTTTAACCCCA
* *
6909 AAACTTCCAAAAATT-CCATTTTTAG-CCCCGAATTTCCAAAAATTCCATTTTTAACCCCA
1 AAACTTCCAAAAATTACCA-TTTT-GCCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* * * ** ** *
6968 AAACTTCCAAAAATTATCATTTTGCCCCCAGATGTCCAAAAACTCCATTTTCGACTTCG
1 AAACTTCCAAAAATTACCATTTTGCCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* * * *
7027 AAAC-TCTC-AAAATTACCCA-TTTACCTCCAAATGTCTAAAAATTCCATTTTTAACCCCG
1 AAACTTC-CAAAAATTA-CCATTTTGCCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
* *
7085 AAATTTCCCAAAATTACCATTT
1 AAACTTCCAAAAATTACCATTT
7107 CACCCTCGAG
Statistics
Matches: 204, Mismatches: 41, Indels: 24
0.76 0.15 0.09
Matches are distributed among these distances:
57 1 0.00
58 83 0.41
59 117 0.57
60 3 0.01
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (59 bp):
AAACTTCCAAAAATTACCATTTTGCCCCCAAATGTCCAAAAATTCCATTTTTAACCCCA
Found at i:19469 original size:204 final size:205
Alignment explanation
Indices: 18844--19503 Score: 844
Period size: 206 Copynumber: 3.2 Consensus size: 205
18834 AAACAACAAC
* * * * *
18844 GCGGTCATCTGCCAGATGAGATACCGAGAAGAAGACCAAATCAAACCCACACTTGATGTGAGCAA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA-GTGAGCAA
* * * * * *
18909 ATCTTCGAATCCCAGCTTCCTGATGAGACACCGAGAAGCAGATCGAAGCAATAAAACGGTTAGCT
65 ATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCT
* *
18974 TCCTGATGAGATACTGAGAAGTGGACCAAATTCGA-CTTCCTAAT-AAGATACAGAGAAGCGGAT
130 TCCTGATGAGATACTGAGAAGTGAACCAAATTC-ATCTTCCTGATGAA-ATACAGAGAAGCGGAT
*
19037 TGAAACAAACGAC
193 TGAAACAAACGAT
19050 GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGATGTGAGCAA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA-GTGAGCAA
* *
19115 ATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAACT-GATAGC
65 ATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAA-TGGTTAGC
* * *
19179 TTCCTGATGAGATACTAAGAAGTGAACCAAATTCGTCTTCCTGATGAGATACAGAGAAGCGGATT
129 TTCCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATT
19244 GAAACAAACGAT
194 GAAACAAACGAT
* * * *
19256 GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCGCGA-TAAACGAA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGAGTGAGCAAA
* *
19320 TCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATATAATGGTTAACTT
66 TCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTT
* * * * * * * * **
19385 CCTAATGAAATACGGGGAAGTAAACCAAAATT-ATCTTCTTGATGAAACACAGAGAAGTGGATCA
131 CCTGATGAGATACTGAGAAGTGAACC-AAATTCATCTTCCTGATGAAATACAGAGAAGCGGATTG
**
19449 AAACAAGTGAT
195 AAACAAACGAT
*** * * *
19460 ATAGTCATCTTCCGGATGAGATACTGAGAAGAAGGCCAAGTCAA
1 GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAA
19504 TAAAACCAGA
Statistics
Matches: 401, Mismatches: 48, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
203 1 0.00
204 156 0.39
205 5 0.01
206 238 0.59
207 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.20
Consensus pattern (205 bp):
GCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGAGTGAGCAAA
TCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAAATGGTTAGCTT
CCTGATGAGATACTGAGAAGTGAACCAAATTCATCTTCCTGATGAAATACAGAGAAGCGGATTGA
AACAAACGAT
Found at i:19835 original size:6 final size:6
Alignment explanation
Indices: 19821--19901 Score: 62
Period size: 6 Copynumber: 14.0 Consensus size: 6
19811 TTTAATTTAT
* * *
19821 TTTAAA TTTAGA TTT-AT TTTAAA TTTAAA -TT-AA TCTTAAA TTAAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA
* * * *
19867 TTT-AA TTTAAT TTTAAA TTTGAT TTTAAA ATTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
19902 AAGTCAATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 10
0.71 0.16 0.12
Matches are distributed among these distances:
4 2 0.04
5 10 0.18
6 42 0.74
7 3 0.05
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:19837 original size:17 final size:17
Alignment explanation
Indices: 19814--19901 Score: 104
Period size: 17 Copynumber: 5.1 Consensus size: 17
19804 GGCCCCTTTT
19814 AATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
*
19831 GATTTATTTTAAATTTA
1 AATTTATTTTAAATTTA
* * *
19848 AATTAATCTTAAATTAA
1 AATTTATTTTAAATTTA
* *
19865 AATTTAATTTAATTTTA
1 AATTTATTTTAAATTTA
*
19882 AATTTGATTTTAAAATTA
1 AATTT-ATTTTAAATTTA
19900 AA
1 AA
19902 AAGTCAATTA
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
17 46 0.81
18 11 0.19
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (17 bp):
AATTTATTTTAAATTTA
Found at i:19894 original size:23 final size:23
Alignment explanation
Indices: 19841--19885 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
19831 GATTTATTTT
19841 AAATTTAAATTAATCTTAAATTA
1 AAATTTAAATTAATCTTAAATTA
* *
19864 AAATTTAATTTAATTTTAAATT
1 AAATTTAAATTAATCTTAAATT
19886 TGATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATTTAAATTAATCTTAAATTA
Found at i:20682 original size:7 final size:7
Alignment explanation
Indices: 20659--20694 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
20649 CTTTAATGTT
20659 ATTAATA
1 ATTAATA
*
20666 AATAAT-
1 ATTAATA
20672 ATTAATA
1 ATTAATA
20679 ATTAATA
1 ATTAATA
20686 ATTAATA
1 ATTAATA
20693 AT
1 AT
20695 AACGTTTTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 5 0.19
7 21 0.81
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTAATA
Found at i:21819 original size:29 final size:29
Alignment explanation
Indices: 21772--22004 Score: 229
Period size: 29 Copynumber: 7.9 Consensus size: 29
21762 CCCTGGAGGT
*
21772 CCCTAAACTGTCCAAAAATTTCATTTTTAC
1 CCCTAAACT-TCCAAAAATTCCATTTTTAC
* *
21802 TCCC-AAACTTCCAAAAATCCCACTTTTGAC
1 -CCCTAAACTTCCAAAAATTCCA-TTTTTAC
* *
21832 CCC-GAACTTCCAAAAATTCTATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
* *
21860 CCTTAAACTTCCAAAAATCCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTCCATTTTT-AC
* * * * **
21890 CCCAAAACTACTAAAATTTTTATTTTTAC
1 CCCTAAACTTCCAAAAATTCCATTTTTAC
21919 CCCTAAACTTCCAAAAATTCCATTTTTAGC
1 CCCTAAACTTCCAAAAATTCCATTTTTA-C
* * *
21949 CCC-GAATTTACAAAAATTCCATTTTTGAC
1 CCCTAAACTTCCAAAAATTCCATTTTT-AC
*
21978 CCCGAAACTTCCAAAAATTACCATTTT
1 CCCTAAACTTCCAAAAATT-CCATTTT
22005 GCCCCCGGAT
Statistics
Matches: 164, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
28 8 0.05
29 97 0.59
30 49 0.30
31 10 0.06
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTCCATTTTTAC
Found at i:21872 original size:58 final size:57
Alignment explanation
Indices: 21777--22011 Score: 249
Period size: 59 Copynumber: 4.0 Consensus size: 57
21767 GAGGTCCCTA
21777 AACTGTCCAAAAATT-TCATTTTTACTCCC-AAACTTCCAAAAATCCCACTTTTGACCCCG
1 AACT-TCCAAAAATTCT-ATTTTTAC-CCCTAAACTTCCAAAAATCCCA-TTTTGACCCCG
* *
21836 AACTTCCAAAAATTCTATTTTTACCCTTAAACTTCCAAAAATCCCATTTTTGACCCCAA
1 AACTTCCAAAAATTCTATTTTTACCCCTAAACTTCCAAAAATCCCA-TTTTGACCCC-G
* * * * * *
21895 AACTACTAAAATTTTTATTTTTACCCCTAAACTTCCAAAAATTCCATTTTTAGCCCCG
1 AACTTCCAAAAATTCTATTTTTACCCCTAAACTTCCAAAAATCCCATTTTGA-CCCCG
* * * * * *
21953 AATTTACAAAAATTCCATTTTTGACCCCGAAACTTCCAAAAATTACCATTTTGCCCCCG
1 AACTTCCAAAAATTCTATTTTT-ACCCCTAAACTTCCAAAAA-TCCCATTTTGACCCCG
22012 GATGTCCAAA
Statistics
Matches: 148, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
57 2 0.01
58 66 0.45
59 72 0.49
60 8 0.05
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (57 bp):
AACTTCCAAAAATTCTATTTTTACCCCTAAACTTCCAAAAATCCCATTTTGACCCCG
Found at i:22011 original size:59 final size:59
Alignment explanation
Indices: 21784--22119 Score: 237
Period size: 58 Copynumber: 5.7 Consensus size: 59
21774 CTAAACTGTC
* * * *
21784 CAAAAATTTCATTTTTACTCCC-AAACTTCCAAAAA-TCCCACTTTTGACCCCGAACT-TC
1 CAAAAATTCCATTTTTAC-CCCGAAACTTCCAAAAATTACCATTTTTGACCCCGAA-TGTA
* ** * * **
21842 CAAAAATTCTATTTTTACCCTTAAACTTCCAAAAA-TCCCATTTTTGACCCCAAAACTA
1 CAAAAATTCCATTTTTACCCCGAAACTTCCAAAAATTACCATTTTTGACCCCGAATGTA
* ** * *
21900 CTAAAATTTTTATTTTTACCCCTAAACTTCCAAAAATT-CCATTTTT-AGCCCCGAATTTA
1 C-AAAAATTCCATTTTTACCCCGAAACTTCCAAAAATTACCATTTTTGA-CCCCGAATGTA
* * *
21959 CAAAAATTCCATTTTTGACCCCGAAACTTCCAAAAATTACCA-TTTTGCCCCCGGATGTC
1 CAAAAATTCCATTTTT-ACCCCGAAACTTCCAAAAATTACCATTTTTGACCCCGAATGTA
* * ** * *
22018 CAAAAACTCCATTTTCGACTTCGAAAC-TCTC-AAAATTACC-CTTTT-ACCCCCAAATGT-
1 CAAAAATTCCATTTT-TACCCCGAAACTTC-CAAAAATTACCATTTTTGA-CCCCGAATGTA
* * ** *
22075 CTAAAAATTCCATTTTTAACTCGAATTTTCCCAAAATTACCATTT
1 C-AAAAATTCCATTTTTACCCCGAAACTTCCAAAAATTACCATTT
22120 CACCTCCGAG
Statistics
Matches: 227, Mismatches: 35, Indels: 31
0.77 0.12 0.11
Matches are distributed among these distances:
57 10 0.04
58 108 0.48
59 105 0.46
60 4 0.02
ACGTcount: A:0.34, C:0.28, G:0.04, T:0.34
Consensus pattern (59 bp):
CAAAAATTCCATTTTTACCCCGAAACTTCCAAAAATTACCATTTTTGACCCCGAATGTA
Found at i:22019 original size:29 final size:27
Alignment explanation
Indices: 21782--22032 Score: 135
Period size: 29 Copynumber: 8.6 Consensus size: 27
21772 CCCTAAACTG
* * *
21782 TCCAAAAATTTCATTTTTACTCCCAAACT
1 TCCAAAAATTCCATTTTTGC-CCCGAA-T
* *
21811 TCCAAAAATCCCACTTTTGACCCCGAACT
1 TCCAAAAATTCCATTTTTG-CCCCGAA-T
* * **
21840 TCCAAAAATTCTATTTTTACCCTTAAACT
1 TCCAAAAATTCCATTTTTGCCC-CGAA-T
* *
21869 TCCAAAAATCCCATTTTTGACCCCAAAACT
1 TCCAAAAATTCCATTTTTG-CCCC-GAA-T
* * * ** * *
21899 ACTAAAATTTTTATTTTTACCCCTAAACT
1 TCCAAAAATTCCATTTTTGCCCC-GAA-T
21928 TCCAAAAATTCCATTTTTAGCCCCGAATT
1 TCCAAAAATTCCATTTTT-GCCCCGAA-T
*
21957 TACAAAAATTCCATTTTTGACCCCGAAACT
1 TCCAAAAATTCCATTTTTG-CCCCG-AA-T
*
21987 TCCAAAAATTACCA-TTTTGCCCCCGGAT
1 TCCAAAAATT-CCATTTTTG-CCCCGAAT
*
22015 GTCCAAAAACTCCATTTT
1 -TCCAAAAATTCCATTTT
22033 CGACTTCGAA
Statistics
Matches: 175, Mismatches: 37, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
28 8 0.05
29 117 0.67
30 47 0.27
31 3 0.02
ACGTcount: A:0.33, C:0.29, G:0.04, T:0.33
Consensus pattern (27 bp):
TCCAAAAATTCCATTTTTGCCCCGAAT
Found at i:22020 original size:88 final size:88
Alignment explanation
Indices: 21784--22032 Score: 231
Period size: 88 Copynumber: 2.8 Consensus size: 88
21774 CTAAACTGTC
* * *
21784 CAAAAATTTCATTTTT-ACTCCCAAACTTCCAAAAA-TCCCACTTTTGACCCCGAACTTCCAAAA
1 CAAAAATTCCATTTTTGAC-CCCAAACTTCCAAAAATTACCACTTTTGCCCCCGAACTTCCAAAA
* * *
21847 ATTCTATTTTTACCCTTAAACTTC
65 ATTCCATTTTTACCCTCAAACTTA
* * * *** * * **
21871 CAAAAATCCCATTTTTGACCCCAAAAC-TACTAAAATTTTTATTTTTACCCCTAAACTTCCAAAA
1 CAAAAATTCCATTTTTGACCCC-AAACTTCCAAAAATTACCACTTTTGCCCCCGAACTTCCAAAA
* *
21935 ATTCCATTTTTAGCCC-CGAATTTA
65 ATTCCATTTTTA-CCCTCAAACTTA
*
21959 CAAAAATTCCATTTTTGACCCCGAAACTTCCAAAAATTACCA-TTTTGCCCCCGGA-TGTCCAAA
1 CAAAAATTCCATTTTTGACCCC-AAACTTCCAAAAATTACCACTTTTGCCCCCGAACT-TCCAAA
*
22022 AACTCCATTTT
64 AATTCCATTTT
22033 CGACTTCGAA
Statistics
Matches: 127, Mismatches: 29, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
87 24 0.19
88 91 0.72
89 12 0.09
ACGTcount: A:0.34, C:0.29, G:0.04, T:0.33
Consensus pattern (88 bp):
CAAAAATTCCATTTTTGACCCCAAACTTCCAAAAATTACCACTTTTGCCCCCGAACTTCCAAAAA
TTCCATTTTTACCCTCAAACTTA
Found at i:28259 original size:26 final size:26
Alignment explanation
Indices: 28198--28247 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
28188 TTCTGTTTCC
*
28198 TTTCCTTCTTCAAAAATTTTGCTTCA
1 TTTCCTTCTTCAAAAAATTTGCTTCA
28224 TTTCCTTCTT-AAAAAATTTGCTTC
1 TTTCCTTCTTCAAAAAATTTGCTTC
28248 TCTTCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.24, C:0.22, G:0.04, T:0.50
Consensus pattern (26 bp):
TTTCCTTCTTCAAAAAATTTGCTTCA
Found at i:30421 original size:22 final size:24
Alignment explanation
Indices: 30389--30445 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
30379 TAAAATTTTA
* *
30389 ATAAATAAAAAATCAT-TAAATAT
1 ATAAATTAAAAATAATATAAATAT
30412 -TAAATT-AAAATAATATAAATAT
1 ATAAATTAAAAATAATATAAATAT
*
30434 ATAATTTAAAAA
1 ATAAATTAAAAA
30446 ATTTTTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 7 0.25
22 12 0.43
23 5 0.18
24 4 0.14
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
ATAAATTAAAAATAATATAAATAT
Found at i:30454 original size:24 final size:23
Alignment explanation
Indices: 30389--30458 Score: 65
Period size: 23 Copynumber: 3.0 Consensus size: 23
30379 TAAAATTTTA
*
30389 ATAAA-TAAAAAATCATTAAATAT
1 ATAAATTAAAAAAT-TTTAAATAT
*
30412 -TAAATTAAAATAA-TATAAATAT
1 ATAAATTAAAA-AATTTTAAATAT
*
30434 ATAATTTAAAAAATTTTTAAATAT
1 ATAAATTAAAAAA-TTTTAAATAT
30458 A
1 A
30459 ATATAGACAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
22 13 0.34
23 14 0.37
24 11 0.29
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
ATAAATTAAAAAATTTTAAATAT
Found at i:31780 original size:20 final size:21
Alignment explanation
Indices: 31744--31799 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 21
31734 TGTAAATTAC
*
31744 AATTATTAGTT-ACAAAT-TTT
1 AATTATTATTTGA-AAATATTT
31764 AATTATTATTTGAAAATATTT
1 AATTATTATTTGAAAATATTT
31785 -ATTATAATATTTGAA
1 AATTAT--TATTTGAA
31800 TTGATAAGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
20 19 0.61
21 4 0.13
22 8 0.26
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (21 bp):
AATTATTATTTGAAAATATTT
Found at i:35921 original size:23 final size:24
Alignment explanation
Indices: 35871--35921 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
35861 ACGAACAAGC
**
35871 TCGTTTAAAAGCTTGTTTATTGGT
1 TCGTTTAAAAGCTCATTTATTGGT
*
35895 TCGTTTATAAGCTCATTTA-TGGT
1 TCGTTTAAAAGCTCATTTATTGGT
35918 TCGT
1 TCGT
35922 CTATTTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 8 0.33
24 16 0.67
ACGTcount: A:0.20, C:0.12, G:0.20, T:0.49
Consensus pattern (24 bp):
TCGTTTAAAAGCTCATTTATTGGT
Found at i:36324 original size:29 final size:29
Alignment explanation
Indices: 36288--36375 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 29
36278 GCAAGTGGCG
* *
36288 CCCT-AACTTTGGTAAAATTGCAATAACA
1 CCCTCAACTTTAGTAAAATTGCAATAAAA
* *
36316 CCCTCAACTTTAGTGAAATTGTAATAAAA
1 CCCTCAACTTTAGTAAAATTGCAATAAAA
* *
36345 TCCTCAACTTTAATAAAATTGCAATAAAA
1 CCCTCAACTTTAGTAAAATTGCAATAAAA
36374 CC
1 CC
36376 TTTAAACTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
28 4 0.08
29 46 0.92
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.30
Consensus pattern (29 bp):
CCCTCAACTTTAGTAAAATTGCAATAAAA
Found at i:39203 original size:34 final size:34
Alignment explanation
Indices: 39165--39265 Score: 96
Period size: 35 Copynumber: 2.9 Consensus size: 34
39155 TTGGAAACCT
*
39165 TTGATTGTTTATGATATGTGAATCAACT-AAATTC
1 TTGATTGTTTATAATATGTGAATCAA-TGAAATTC
** *
39199 TTGATTAATTATAATATGTGAATGAATGGAAATTC
1 TTGATTGTTTATAATATGTGAATCAAT-GAAATTC
* * * *
39234 TTAATTGTTTGTAATATATGAATAAATTGAAA
1 TTGATTGTTTATAATATGTGAATCAA-TGAAA
39266 ATTTTTACCT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
33 1 0.02
34 22 0.41
35 30 0.56
36 1 0.02
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.43
Consensus pattern (34 bp):
TTGATTGTTTATAATATGTGAATCAATGAAATTC
Found at i:39249 original size:35 final size:36
Alignment explanation
Indices: 39130--39256 Score: 113
Period size: 34 Copynumber: 3.7 Consensus size: 36
39120 GTTTCATTTA
* *
39130 CTTGATTG-TT-TAATATATGAATGAATTGGAAA-C
1 CTTGATTGTTTATAATATATGAATGAACTGGAAATT
* * *
39163 CTTTGATTGTTTATGATATGTGAATCAACT--AAATT
1 C-TTGATTGTTTATAATATATGAATGAACTGGAAATT
** *
39198 CTTGATTAATTATAATATGTGAATGAA-TGGAAATT
1 CTTGATTGTTTATAATATATGAATGAACTGGAAATT
* *
39233 CTTAATTGTTTGTAATATATGAAT
1 CTTGATTGTTTATAATATATGAAT
39257 AAATTGAAAA
Statistics
Matches: 74, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
33 2 0.03
34 32 0.43
35 27 0.36
36 13 0.18
ACGTcount: A:0.35, C:0.06, G:0.16, T:0.43
Consensus pattern (36 bp):
CTTGATTGTTTATAATATATGAATGAACTGGAAATT
Found at i:42885 original size:61 final size:61
Alignment explanation
Indices: 42790--43023 Score: 331
Period size: 61 Copynumber: 4.0 Consensus size: 61
42780 GTTTCACTCG
* * * **
42790 CATTTATTACTCACGATTACACATAGTCATCGGACCTCTTGTTCTATATAGGAACTCATTT
1 CATTTAATACTCACGATGACATATAGTCATCGGACCTCTTGTTCCGTATAGGAACTCATTT
42851 CATTTAATACTCACGATGACATATAGTCATCGGACCTCTTGTTCCGTATAGGAACTCATTT
1 CATTTAATACTCACGATGACATATAGTCATCGGACCTCTTGTTCCGTATAGGAACTCATTT
*
42912 CATTTAATACTCACGATGACATATAATCATCGGACCTCTTGTTCCGTATA-GAA---A-TT
1 CATTTAATACTCACGATGACATATAGTCATCGGACCTCTTGTTCCGTATAGGAACTCATTT
* * *
42968 -A-AT-ATACTCACGATGACATATAGTCATCGGACCTTTTGTTCCGTATAGGAATTCAT
1 CATTTAATACTCACGATGACATATAGTCATCGGACCTCTTGTTCCGTATAGGAACTCAT
43024 ATACTCATGA
Statistics
Matches: 159, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
53 42 0.26
54 4 0.03
55 1 0.01
56 2 0.01
57 2 0.01
60 3 0.02
61 105 0.66
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (61 bp):
CATTTAATACTCACGATGACATATAGTCATCGGACCTCTTGTTCCGTATAGGAACTCATTT
Found at i:42995 original size:53 final size:53
Alignment explanation
Indices: 42918--43038 Score: 197
Period size: 53 Copynumber: 2.3 Consensus size: 53
42908 ATTTCATTTA
42918 ATACTCACGATGACATATAATCATCGGACCTCTTGTTCCGTATAGAAATTAAT
1 ATACTCACGATGACATATAATCATCGGACCTCTTGTTCCGTATAGAAATTAAT
* * * *
42971 ATACTCACGATGACATATAGTCATCGGACCTTTTGTTCCGTATAGGAATTCAT
1 ATACTCACGATGACATATAATCATCGGACCTCTTGTTCCGTATAGAAATTAAT
*
43024 ATACTCATGATGACA
1 ATACTCACGATGACA
43039 CTGAGTTATC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
53 63 1.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.32
Consensus pattern (53 bp):
ATACTCACGATGACATATAATCATCGGACCTCTTGTTCCGTATAGAAATTAAT
Found at i:43050 original size:53 final size:53
Alignment explanation
Indices: 42918--43056 Score: 190
Period size: 53 Copynumber: 2.6 Consensus size: 53
42908 ATTTCATTTA
* * *
42918 ATACTCACGATGACATATAATCATCGGACCTCTTGTTCCGTATAGAAATTAAT
1 ATACTCACGATGACATAGAGTCATCGGACCTTTTGTTCCGTATAGAAATTAAT
* * *
42971 ATACTCACGATGACATATAGTCATCGGACCTTTTGTTCCGTATAGGAATTCAT
1 ATACTCACGATGACATAGAGTCATCGGACCTTTTGTTCCGTATAGAAATTAAT
* *
43024 ATACTCATGATGACACT-GAGTTATCGGACCTTT
1 ATACTCACGATGACA-TAGAGTCATCGGACCTTT
43057 AATCTATCAT
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 77 0.99
54 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (53 bp):
ATACTCACGATGACATAGAGTCATCGGACCTTTTGTTCCGTATAGAAATTAAT
Found at i:43090 original size:51 final size:51
Alignment explanation
Indices: 42919--43159 Score: 198
Period size: 51 Copynumber: 4.6 Consensus size: 51
42909 TTTCATTTAA
* ** * * * * *
42919 TACTCACGATGACA-TATAATCATCGGACCTCTTGTTCCGTATAGAAATTAATA
1 TACTCACGATGACACT-TAGTCATCGGACCT-TTAATCCATAAAG-GATTCATT
** * * *
42972 TACTCACGATGACA-TATAGTCATCGGACCTTTTGTTCCGTATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGACC-TTTAATCCATAAAGG-ATTCATT
* * * * * *
43025 TACTCATGATGACACTGAGTTATCGGACCTTTAATCTATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
* * * *
43076 TACTCACGGTGACACTTAGTCATCAGACCTTTAATCCGTAAAGGATTCACT
1 TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
43127 TACTCACGATGACACTTAGTCATCGGATCCTTT
1 TACTCACGATGACACTTAGTCATCGGA-CCTTT
43160 CGTTTATAGC
Statistics
Matches: 158, Mismatches: 26, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
51 72 0.46
52 13 0.08
53 71 0.45
54 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCTTTAATCCATAAAGGATTCATT
Found at i:43105 original size:104 final size:103
Alignment explanation
Indices: 42972--43159 Score: 247
Period size: 102 Copynumber: 1.8 Consensus size: 103
42962 GAAATTAATA
* ** * *
42972 TACTCACGATGACATATAGTCATCGGACCTTTTGTTCCGTATAGGAATTCA-TATACTCATGATG
1 TACTCACGATGACATATAGTCATCAGACC-TTTAATCCGTAAAGG-ATTCACT-TACTCACGATG
*
43036 ACACTGAGTTATCGGA-CCTTTAATCTATCATGGATTCATT
63 ACACTGAGTCATCGGATCCTTTAATCTATCATGGATTCATT
*
43076 TACTCACGGTGACACT-TAGTCATCAGACCTTTAATCCGTAAAGGATTCACTTACTCACGATGAC
1 TACTCACGATGACA-TATAGTCATCAGACCTTTAATCCGTAAAGGATTCACTTACTCACGATGAC
*
43140 ACTTAGTCATCGGATCCTTT
65 ACTGAGTCATCGGATCCTTT
43160 CGTTTATAGC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
102 29 0.40
103 18 0.25
104 25 0.34
105 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (103 bp):
TACTCACGATGACATATAGTCATCAGACCTTTAATCCGTAAAGGATTCACTTACTCACGATGACA
CTGAGTCATCGGATCCTTTAATCTATCATGGATTCATT
Found at i:44772 original size:11 final size:11
Alignment explanation
Indices: 44756--44780 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44746 TTTTGCAATC
44756 ATACTATGCAT
1 ATACTATGCAT
44767 ATACTATGCAT
1 ATACTATGCAT
44778 ATA
1 ATA
44781 GACTGTAAAA
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (11 bp):
ATACTATGCAT
Found at i:47461 original size:17 final size:18
Alignment explanation
Indices: 47438--47547 Score: 113
Period size: 17 Copynumber: 6.3 Consensus size: 18
47428 TCAAACTCAT
47438 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
* *
47456 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
47473 TTTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
47490 TTTAAATTTAATTTAAG-
1 TTTAAATTTATTTTAAGA
* *
47507 TTTAAATTCATTTTCAA-C
1 TTTAAATTTATTTT-AAGA
* *
47525 TTTAAAATTATTATAA-A
1 TTTAAATTTATTTTAAGA
47542 TTTAAA
1 TTTAAA
47548 ATAAGTAAAG
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
17 51 0.65
18 27 0.35
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:47481 original size:6 final size:6
Alignment explanation
Indices: 47470--47514 Score: 58
Period size: 6 Copynumber: 7.8 Consensus size: 6
47460 ATTTGTTTTA
* *
47470 AAATTT AAATTT -ATTTT AAATTT AAATTT -AATTT AAGTTT AAATT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAATT
47515 CATTTTCAAC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 9 0.27
6 24 0.73
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (6 bp):
AAATTT
Found at i:47484 original size:35 final size:34
Alignment explanation
Indices: 47438--47547 Score: 116
Period size: 35 Copynumber: 3.2 Consensus size: 34
47428 TCAAACTCAT
**
47438 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTAATTT-AAA
*
47473 TTTAAATTTATTTTAAATTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
* * *
47507 TTTAAATTCATTTTCAACTTTAAAATT-ATTATAAA
1 TTTAAATTTATTTT-AAATTTAAATTTAATT-TAAA
47542 TTTAAA
1 TTTAAA
47548 ATAAGTAAAG
Statistics
Matches: 65, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
34 19 0.29
35 46 0.71
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTAATTTAAA
Found at i:47487 original size:11 final size:12
Alignment explanation
Indices: 47473--47514 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 12
47463 TGTTTTAAAA
47473 TTTAAATTT-AT
1 TTTAAATTTAAT
*
47484 TTTAAATTTAAA
1 TTTAAATTTAAT
*
47496 TTT-AATTTAAG
1 TTTAAATTTAAT
47507 TTTAAATT
1 TTTAAATT
47515 CATTTTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 19 0.70
12 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (12 bp):
TTTAAATTTAAT
Found at i:47529 original size:52 final size:52
Alignment explanation
Indices: 47438--47547 Score: 148
Period size: 52 Copynumber: 2.1 Consensus size: 52
47428 TCAAACTCAT
* ** * *
47438 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTAATTTAAGATTAAATTCATTTTAAAATTTAAAATTATTATAAA
* * *
47490 TTTAAATTTAATTTAAGTTTAAATTCATTTTCAACTTTAAAATTATTATAAA
1 TTTAAATTTAATTTAAGATTAAATTCATTTTAAAATTTAAAATTATTATAAA
47542 TTTAAA
1 TTTAAA
47548 ATAAGTAAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (52 bp):
TTTAAATTTAATTTAAGATTAAATTCATTTTAAAATTTAAAATTATTATAAA
Found at i:49434 original size:29 final size:29
Alignment explanation
Indices: 49396--49652 Score: 299
Period size: 29 Copynumber: 8.7 Consensus size: 29
49386 GATGTCCCTA
49396 AACTATCCAAAAATTCCATTTTTACCCTCG
1 AACT-TCCAAAAATTCCATTTTTACCCTCG
***
49426 AACTTCCAAAAA-TCCAATTTTTGACCCAAA
1 AACTTCCAAAAATTCC-ATTTTT-ACCCTCG
*
49456 AACTTCCAAAAAATCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
49485 AACTTCCAAAAA-TCTCATTTTTGACCC-CG
1 AACTTCCAAAAATTC-CATTTTT-ACCCTCG
* *
49514 AAACTTCAAAAAATTCCATTTTTACCCTCA
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
* *
49544 AACTTCAAAAAATTCCATTTTTACCCCCG
1 AACTTCCAAAAATTCCATTTTTACCCTCG
*
49573 AACTTCCAAAAATGCCATTTTTTACCC-CG
1 AACTTCCAAAAATTCCA-TTTTTACCCTCG
*
49602 AAACTTCCCAAAATTCCATTTTTACCCTCG
1 -AACTTCCAAAAATTCCATTTTTACCCTCG
*
49632 AACCTCC-AAAATCTCCATTTT
1 AACTTCCAAAAAT-TCCATTTT
49653 CGACCTCAAA
Statistics
Matches: 200, Mismatches: 15, Indels: 25
0.83 0.06 0.10
Matches are distributed among these distances:
28 10 0.05
29 110 0.55
30 75 0.38
31 5 0.03
ACGTcount: A:0.35, C:0.30, G:0.04, T:0.32
Consensus pattern (29 bp):
AACTTCCAAAAATTCCATTTTTACCCTCG
Found at i:49555 original size:88 final size:87
Alignment explanation
Indices: 49396--49630 Score: 307
Period size: 88 Copynumber: 2.7 Consensus size: 87
49386 GATGTCCCTA
**
49396 AACTATCCAAAAAT-TCCATTTTTACCCTCG-AACTTCCAAAAA-TCCAATTTTTGACCCAAAAA
1 AACT-TCCAAAAATCT-CATTTTTACCC-CGAAACTTCCAAAAATTCC-ATTTTT-ACCCTCAAA
* *
49458 CTTCCAAAAAATCCATTTTTACCCTCG
61 CTTCAAAAAAATCCATTTTTACCCCCG
*
49485 AACTTCCAAAAATCTCATTTTTGACCCCGAAACTTCAAAAAATTCCATTTTTACCCTCAAACTTC
1 AACTTCCAAAAATCTCATTTTT-ACCCCGAAACTTCCAAAAATTCCATTTTTACCCTCAAACTTC
*
49550 AAAAAATTCCATTTTTACCCCCG
65 AAAAAAATCCATTTTTACCCCCG
*
49573 AACTTCCAAAAATGC-CATTTTTTACCCCGAAACTTCCCAAAATTCCATTTTTACCCTC
1 AACTTCCAAAAAT-CTCA-TTTTTACCCCGAAACTTCCAAAAATTCCATTTTTACCCTC
49631 GAACCTCCAA
Statistics
Matches: 132, Mismatches: 8, Indels: 13
0.86 0.05 0.08
Matches are distributed among these distances:
88 97 0.73
89 32 0.24
90 3 0.02
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.31
Consensus pattern (87 bp):
AACTTCCAAAAATCTCATTTTTACCCCGAAACTTCCAAAAATTCCATTTTTACCCTCAAACTTCA
AAAAAATCCATTTTTACCCCCG
Found at i:49634 original size:59 final size:59
Alignment explanation
Indices: 49396--49746 Score: 300
Period size: 59 Copynumber: 6.0 Consensus size: 59
49386 GATGTCCCTA
* ***
49396 AACTATCCAAAAATTCCATTTTTACCCTCG-AACTT-CCAAAAATCCAATTTTTGACCCAAA
1 AACT-TCCAAAAATTCCATTTTTACCCTCGAAACTTCCCAAAATTCC-ATTTTT-ACCCCCG
* *
49456 AACTTCCAAAAAATCCATTTTTACCCTCG-AACTT-CCAAAAATCTCATTTTTGA-CCCCG
1 AACTTCCAAAAATTCCATTTTTACCCTCGAAACTTCCCAAAATTC-CATTTTT-ACCCCCG
* **
49514 AAACTTCAAAAAATTCCATTTTTACCCTC-AAACTTCAAAAAATTCCATTTTTACCCCCG
1 -AACTTCCAAAAATTCCATTTTTACCCTCGAAACTTCCCAAAATTCCATTTTTACCCCCG
* *
49573 AACTTCCAAAAATGCCATTTTTTACCC-CGAAACTTCCCAAAATTCCATTTTTACCCTCG
1 AACTTCCAAAAATTCCA-TTTTTACCCTCGAAACTTCCCAAAATTCCATTTTTACCCCCG
* * * * *
49632 AACCTCC-AAAATCTCCATTTTCGA-CCTCAAAAC-TCTCAAAATTCC-CTTTTACCCCCG
1 AACTTCCAAAAAT-TCCATTTT-TACCCTCGAAACTTCCCAAAATTCCATTTTTACCCCCG
* * *
49689 AA-TGTCTAAAAATTCTATTTTTAAACCCT--AAATTTTCCCAAAATTACCA-TTTTACCCC
1 AACT-TCCAAAAATTCCATTTTT--ACCCTCGAAA-CTTCCCAAAATT-CCATTTTTACCCC
49747 AGAGTATCCG
Statistics
Matches: 245, Mismatches: 27, Indels: 38
0.79 0.09 0.12
Matches are distributed among these distances:
57 24 0.10
58 47 0.19
59 152 0.62
60 22 0.09
ACGTcount: A:0.34, C:0.30, G:0.03, T:0.32
Consensus pattern (59 bp):
AACTTCCAAAAATTCCATTTTTACCCTCGAAACTTCCCAAAATTCCATTTTTACCCCCG
Found at i:49659 original size:29 final size:28
Alignment explanation
Indices: 49405--49685 Score: 121
Period size: 29 Copynumber: 9.6 Consensus size: 28
49395 AAACTATCCA
* *
49405 AAAATTCCATTTTTACCCTC-GAACTTCC
1 AAAATTCCATTTTGACCCTCAAAAC-TCC
* *
49433 AAAAATCCAATTTTTGACCC-AAAAACTTCC
1 AAAATTCC-A-TTTTGACCCTCAAAAC-TCC
* * *
49463 AAAAAATCCATTTTTACCCTC-GAACTTCC
1 -AAAATTCCATTTTGACCCTCAAAAC-TCC
* * *
49492 AAAAATCTCATTTTTGACCC-CGAAACTTCAA
1 AAAATTC-CA-TTTTGACCCTCAAAAC-TC-C
* *
49523 AAAATTCCATTTTTACCCTC-AAACTTCAA
1 AAAATTCCATTTTGACCCTCAAAAC-TC-C
* **
49552 AAAATTCCATTTTTACCC-CCGAACTTCC
1 AAAATTCCATTTTGACCCTCAAAAC-TCC
* * *
49580 AAAAATGCCATTTTTTACCC-CGAAACTTCCC
1 -AAAATTCCA-TTTTGACCCTCAAAAC-T-CC
* * *
49611 AAAATTCCATTTTTACCCTCGAACCTCC
1 AAAATTCCATTTTGACCCTCAAAACTCC
49639 AAAATCTCCATTTTCGA-CCTCAAAACTCTC
1 AAAAT-TCCATTTT-GACCCTCAAAACTC-C
*
49669 AAAATTCCCTTTT-ACCC
1 AAAATTCCATTTTGACCC
49686 CCGAATGTCT
Statistics
Matches: 211, Mismatches: 23, Indels: 38
0.78 0.08 0.14
Matches are distributed among these distances:
27 1 0.00
28 24 0.11
29 102 0.48
30 68 0.32
31 16 0.08
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (28 bp):
AAAATTCCATTTTGACCCTCAAAACTCC
Found at i:52321 original size:15 final size:15
Alignment explanation
Indices: 52301--52330 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
52291 TTTACTGGTT
52301 TCAAGACAATACATA
1 TCAAGACAATACATA
*
52316 TCAAGACAATTCATA
1 TCAAGACAATACATA
52331 CCCGAGACTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (15 bp):
TCAAGACAATACATA
Found at i:58876 original size:14 final size:14
Alignment explanation
Indices: 58857--58883 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
58847 AACAACCTTA
58857 GAGATCACTAGAAG
1 GAGATCACTAGAAG
58871 GAGATCACTAGAA
1 GAGATCACTAGAA
58884 ATAGGGTCGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.26, T:0.15
Consensus pattern (14 bp):
GAGATCACTAGAAG
Found at i:62179 original size:206 final size:205
Alignment explanation
Indices: 61369--62181 Score: 1103
Period size: 205 Copynumber: 4.0 Consensus size: 205
61359 GTGATTATCC
* ** * *
61369 ACAAACTACGCGGTCATCTTCCTGACAAGATACTGAGAAGAAGACCAAATCAAACCTACGCTCAA
1 ACAAACAACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
** *
61434 TGTGAGCAAATCTTCGAACCTTAGCTTCCTTATGAGACACTGAGAAGCAAGTCGAAGTAATAAAA
66 TGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGTAATAAAA
* * *
61499 GGTTAGCTTCCTGATGAGATATTGAGAAGTAGACCAAATTCGTCTTCCTGACGAGATACAGAAAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
61564 GCTA-ATTGAA
196 GC-AGATTGAA
** * *
61574 ACAAATGACACAGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
1 ACAAACAACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* * * *
61639 TGTGAGCAAATCTTCGAACCCTAGCTTCCTGATGAGACACTGAGAAGCAGGTCGAAGCAATAAAG
66 TGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGTAATAAAA
* *
61704 GGTTAGCTTCCTGATGAGATATTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGATAA
131 GGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
61769 GC-GAATTGAA
196 GCAG-ATTGAA
* * * *
61779 ACAAACAATGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATTAAACTCATGCTCGA
1 ACAAACAACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
* * * *
61844 TGTGAGCGAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAAGTTGAAGTAATAAAA
66 TGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGTAATAAAA
* * *
61909 TGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCCT-ATTAGGGTACAGAG
131 -GGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGA-GATACAGAG
61973 AAGCAGATTGAA
194 AAGCAGATTGAA
* * * *
61985 ACAAACAACGCGGTCATCTTCCTGATGAGACACAGA-AGAGAATACCAAATCAAACCCACACTCG
1 ACAAACAACGCGGTCATCTTCCTGATGAGATACTGAGA-AGAAGACCAAATCAAACCCACGCTCG
* * *
62049 ATGTGAGCAAATCTTCGAACCCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAAA
65 ATGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGTAATAAA
* * * * ** * * * *
62114 ACGGTTAGCTTCCTGATGAAATACGGGGAAGTAAACCAAAACCATCTTCTTGATGAAACACAGAG
130 A-GGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAG
62179 AAG
194 AAG
62182 TGGATCAAAA
Statistics
Matches: 538, Mismatches: 63, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
205 306 0.57
206 228 0.42
207 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.22
Consensus pattern (205 bp):
ACAAACAACGCGGTCATCTTCCTGATGAGATACTGAGAAGAAGACCAAATCAAACCCACGCTCGA
TGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGACACTGAGAAGCAAGTCGAAGTAATAAAA
GGTTAGCTTCCTGATGAGATACTGAGAAGTAGACCAAATTCGTCTTCCTGATGAGATACAGAGAA
GCAGATTGAA
Found at i:62595 original size:17 final size:18
Alignment explanation
Indices: 62572--62681 Score: 131
Period size: 17 Copynumber: 6.3 Consensus size: 18
62562 TCAAACTCAT
62572 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
* *
62590 -TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAAGA
62607 TTTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
62624 TTTAAATTTATTTTAAG-
1 TTTAAATTTATTTTAAGA
*
62641 TTTAAATTCATTTTCAA-A
1 TTTAAATTTATTTT-AAGA
* *
62659 TTTAAAATTATTATAA-A
1 TTTAAATTTATTTTAAGA
62676 TTTAAA
1 TTTAAA
62682 ATAAATAAAG
Statistics
Matches: 81, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
17 54 0.67
18 27 0.33
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:62618 original size:35 final size:34
Alignment explanation
Indices: 62572--62681 Score: 141
Period size: 35 Copynumber: 3.2 Consensus size: 34
62562 TCAAACTCAT
*
62572 TTTAAATTTATTTTAAGA-TTAAATTTGTTTTAAAA
1 TTTAAATTTATTTTAA-ATTTAAATTTATTTT-AAA
*
62607 TTTAAATTTATTTTAAATTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
* * *
62641 TTTAAATTCATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTATTTT-AAATTTAAATTTATTTTAAA
62676 TTTAAA
1 TTTAAA
62682 ATAAATAAAG
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
34 16 0.24
35 51 0.76
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (34 bp):
TTTAAATTTATTTTAAATTTAAATTTATTTTAAA
Found at i:62660 original size:52 final size:52
Alignment explanation
Indices: 62572--62681 Score: 166
Period size: 52 Copynumber: 2.1 Consensus size: 52
62562 TCAAACTCAT
** * *
62572 TTTAAATTTATTTTAAGATTAAATTTGTTTTAAAATTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAGATTAAATTCATTTTAAAATTTAAAATTATTATAAA
* *
62624 TTTAAATTTATTTTAAGTTTAAATTCATTTTCAAATTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAGATTAAATTCATTTTAAAATTTAAAATTATTATAAA
62676 TTTAAA
1 TTTAAA
62682 ATAAATAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.54
Consensus pattern (52 bp):
TTTAAATTTATTTTAAGATTAAATTCATTTTAAAATTTAAAATTATTATAAA
Found at i:63702 original size:16 final size:17
Alignment explanation
Indices: 63671--63711 Score: 50
Period size: 16 Copynumber: 2.4 Consensus size: 17
63661 AACACCGATT
63671 TCTAAAGAGTTTTTCA-G
1 TCTAAA-AGTTTTTCATG
63688 ATCTAAAAG-TTTTCATG
1 -TCTAAAAGTTTTTCATG
63705 TCTAAAA
1 TCTAAAA
63712 ACAAGTTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 13 0.59
17 3 0.14
18 6 0.27
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
TCTAAAAGTTTTTCATG
Found at i:64634 original size:59 final size:59
Alignment explanation
Indices: 64542--64819 Score: 323
Period size: 59 Copynumber: 4.7 Consensus size: 59
64532 AGACTGTCCG
* **
64542 AAAATTCCATTTTTACCCTTGAACTTCCAAAAATCCCATTTTTGACCTTGAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAAACTTCCA
* * * *
64601 AAAATTCCATTTTTACCCCCGAACTTCCCAAAATCCCATTTTTTACCCTGAAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAAACTTCCA
* * * *
64660 AAAATTCCATTTTTACCCTCGAACTTCTAAAAATGCCATTTTTTACCCCGAAACTTCCC
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAAACTTCCA
* * * *
64719 AAAATTCCATTTTTACCCTTGAACCTCC-AAAATCTCCATTTTCGACCTCGAAAC-TCTC-
1 AAAATTCCATTTTTACCCTCGAACTTCCAAAAATC-CCATTTTTGACCCCGAAACTTC-CA
* * *
64777 AAAATTACC-CTTTTACCCTCGAA-TGTCTAAAAATTCCATTTTT
1 AAAATT-CCATTTTTACCCTCGAACT-TCCAAAAATCCCATTTTT
64820 AAACCTCAAA
Statistics
Matches: 190, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
58 34 0.18
59 156 0.82
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.35
Consensus pattern (59 bp):
AAAATTCCATTTTTACCCTCGAACTTCCAAAAATCCCATTTTTGACCCCGAAACTTCCA
Found at i:64819 original size:29 final size:29
Alignment explanation
Indices: 64542--64820 Score: 261
Period size: 29 Copynumber: 9.5 Consensus size: 29
64532 AGACTGTCCG
*
64542 AAAATTCCATTTTTACCCTTGAACTTCCA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
* *
64571 AAAATCCCATTTTTGA-CCTTGAAACTTCCA
1 AAAATTCCATTTTT-ACCCTCG-AACTTCCA
* *
64601 AAAATTCCATTTTTACCCCCGAACTTCCC
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
64630 AAAATCCCATTTTTTACCCT-GAAACTTCCA
1 AAAATTCCA-TTTTTACCCTCG-AACTTCCA
*
64660 AAAATTCCATTTTTACCCTCGAACTTCTA
1 AAAATTCCATTTTTACCCTCGAACTTCCA
* *
64689 AAAATGCCATTTTTTACCC-CGAAACTTCCC
1 AAAATTCCA-TTTTTACCCTCG-AACTTCCA
* *
64719 AAAATTCCATTTTTACCCTTGAACCTCC-
1 AAAATTCCATTTTTACCCTCGAACTTCCA
*
64747 AAAATCTCCATTTTCGA-CCTCGAAAC-TCTC-
1 AAAAT-TCCATTTT-TACCCTCG-AACTTC-CA
* *
64777 AAAATTACC-CTTTTACCCTCGAA-TGTCTA
1 AAAATT-CCATTTTTACCCTCGAACT-TCCA
64806 AAAATTCCATTTTTA
1 AAAATTCCATTTTTA
64821 AACCTCAAAT
Statistics
Matches: 209, Mismatches: 22, Indels: 38
0.78 0.08 0.14
Matches are distributed among these distances:
28 10 0.05
29 113 0.54
30 86 0.41
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (29 bp):
AAAATTCCATTTTTACCCTCGAACTTCCA
Found at i:71237 original size:49 final size:48
Alignment explanation
Indices: 71166--71260 Score: 145
Period size: 49 Copynumber: 2.0 Consensus size: 48
71156 GCCATAAGTA
* *
71166 CCACTTTCCTTTGTTGTGGCAAGTCAACAAATTCATTGCCAACACAGT
1 CCACTATCCTTTGTTGTGGCAAGTCAACAAATTCATTACCAACACAGT
* *
71214 CCACTATCCTTTTGTTGTGGCAAGTCAACAGATTCCTTACCAACACA
1 CCACTATCC-TTTGTTGTGGCAAGTCAACAAATTCATTACCAACACA
71261 TTTCACCTTT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
48 8 0.19
49 34 0.81
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (48 bp):
CCACTATCCTTTGTTGTGGCAAGTCAACAAATTCATTACCAACACAGT
Found at i:72807 original size:18 final size:18
Alignment explanation
Indices: 72786--72843 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
72776 GTAATTGTGT
*
72786 TAGTTTAGATATTTGTAA
1 TAGTTTATATATTTGTAA
*
72804 TAGTATTATATAATGTGT--
1 TAGT-TTATAT-ATTTGTAA
72822 TAGTTTATATATTTGTAA
1 TAGTTTATATATTTGTAA
72840 TAGT
1 TAGT
72844 ACTAAACGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
16 5 0.15
17 6 0.18
18 12 0.36
19 5 0.15
20 5 0.15
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.52
Consensus pattern (18 bp):
TAGTTTATATATTTGTAA
Found at i:77436 original size:105 final size:104
Alignment explanation
Indices: 77243--77441 Score: 231
Period size: 105 Copynumber: 1.9 Consensus size: 104
77233 ATACATTGGA
* * *
77243 CCTTTTGATGCAAAATGAAATGACATCCAAGCACTCCACCCCGGTTACTCAGCCCAACATGCTCT
1 CCTTTTGACGCAAAATGAAATGACATCCAAGCACTCCACCCCAGTTACTCAGCCCAACA-GCACT
* * * *
77308 TCAATTTTTTTTTTCTCTTTTTTTTTTAGAATGTGGTAGC
65 CCAATTTCTTATTTATCTTTTTTTTTTAGAATGTGGTAGC
* * * *
77348 CCTTTTGACGCGAAATGAAATGACAAT-CAAGCACTCCATCCCAGTTACTCAGTCTAACA-CACT
1 CCTTTTGACGCAAAATGAAATGAC-ATCCAAGCACTCCACCCCAGTTACTCAGCCCAACAGCACT
77411 CCGAATTTACTTATTTATTTCTTTTTTTTTT
65 CC-AATTT-CTTATTTA--TCTTTTTTTTTT
77442 TCTCTTTTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 8
0.80 0.11 0.08
Matches are distributed among these distances:
103 4 0.05
104 5 0.06
105 55 0.71
106 2 0.03
107 12 0.15
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.38
Consensus pattern (104 bp):
CCTTTTGACGCAAAATGAAATGACATCCAAGCACTCCACCCCAGTTACTCAGCCCAACAGCACTC
CAATTTCTTATTTATCTTTTTTTTTTAGAATGTGGTAGC
Found at i:80016 original size:3 final size:3
Alignment explanation
Indices: 80008--80033 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
79998 GAAAATAAAT
80008 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
80034 TGGGTTGCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:80357 original size:29 final size:29
Alignment explanation
Indices: 80315--80373 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
80305 GTAACACTTT
80315 TTGCCCTATTGAGAAATGCTTTCGGGATA
1 TTGCCCTATTGAGAAATGCTTTCGGGATA
*
80344 TTGCCCTATTGAGAAATGCTTTTGGGATA
1 TTGCCCTATTGAGAAATGCTTTCGGGATA
80373 T
1 T
80374 CATTCTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (29 bp):
TTGCCCTATTGAGAAATGCTTTCGGGATA
Found at i:85462 original size:17 final size:17
Alignment explanation
Indices: 85416--85499 Score: 91
Period size: 17 Copynumber: 5.0 Consensus size: 17
85406 TTTGAATTAT
85416 TTTTAAACTTT-AATTTA
1 TTTTAAA-TTTAAATTTA
*
85433 TTTTAAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
*
85450 TTTTAAATTTAAACTTA
1 TTTTAAATTTAAATTTA
* * *
85467 CTTTGAGTTTAAATTTA
1 TTTTAAATTTAAATTTA
*
85484 -TTTAAATTAAAATTTA
1 TTTTAAATTTAAATTTA
85500 ATTAAAAATG
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
16 16 0.29
17 40 0.71
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Found at i:87373 original size:30 final size:29
Alignment explanation
Indices: 87339--87475 Score: 120
Period size: 30 Copynumber: 4.7 Consensus size: 29
87329 AAACTATCCA
87339 AAAATTACATTTTGACCCCTACACTTTTCC
1 AAAATTACATTTTGACCCCTA-ACTTTTCC
* * *
87369 AAAATTCCATTTTTAACCCTAAACTTTTCC
1 AAAATTACATTTTGACCCCT-AACTTTTCC
*
87399 AAAATTACATTTT-ACCCTCGAAC-TTTCC
1 AAAATTACATTTTGACCC-CTAACTTTTCC
* * * *
87427 AAAATTTCATTTTTGA-CCATGATTTTTCC
1 AAAATTACA-TTTTGACCCCTAACTTTTCC
87456 AAAAATTACCATTTT-ACCCC
1 -AAAATTA-CATTTTGACCCC
87476 CAAACTTCTA
Statistics
Matches: 86, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
28 14 0.16
29 18 0.21
30 51 0.59
31 3 0.03
ACGTcount: A:0.32, C:0.26, G:0.03, T:0.39
Consensus pattern (29 bp):
AAAATTACATTTTGACCCCTAACTTTTCC
Found at i:87548 original size:117 final size:116
Alignment explanation
Indices: 87335--87621 Score: 355
Period size: 117 Copynumber: 2.4 Consensus size: 116
87325 CCCTAAACTA
* * *
87335 TCCAAAAATTACATTTTGACCCCTACACTTTTCCAAAATTCCATTTTTAACCCTAAACTTTTCCA
1 TCCAAAAATTACATTTT-ACCCCTAAACTTCT-AAAAATTCCATTTTTAACCCTAAACTTTTCCA
* *
87400 AAATTACATTTTACCCTCGAACTTTCCAAAATTTCATTTTTGACCATGATTTT
64 AAATTACATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCATAATTTT
* * * **
87453 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATTCTATTTTTGA-CCTCGA-TTTTCCAA
1 TCCAAAAATTA-CATTTTACCCCTAAACTTCTAAAAATTCCATTTTTAACCCTAAACTTTTCC-A
*
87516 AAATTACCATTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTGACCTTAATTTT
64 AAATTA-CATTTTACCCTCGAACTTTCC-AAAATTCCATTTTTGACCATAATTTT
* * * *
87570 TCCAAAAATTATTATTTTACCCTTGAACTTCCAAAAATTCCATTTTTAACCC
1 TCCAAAAATTA-CATTTTACCCCTAAACTTCTAAAAATTCCATTTTTAACCC
87622 CAATTTTTTT
Statistics
Matches: 145, Mismatches: 19, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
115 6 0.04
116 15 0.10
117 94 0.65
118 24 0.17
119 6 0.04
ACGTcount: A:0.32, C:0.25, G:0.03, T:0.39
Consensus pattern (116 bp):
TCCAAAAATTACATTTTACCCCTAAACTTCTAAAAATTCCATTTTTAACCCTAAACTTTTCCAAA
ATTACATTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCATAATTTT
Found at i:87627 original size:59 final size:59
Alignment explanation
Indices: 87335--87801 Score: 312
Period size: 59 Copynumber: 7.8 Consensus size: 59
87325 CCCTAAACTA
* * * *
87335 TCCAAAAATTA-CATTTTGACCC-CTACACTTTTCC-AAAATTCCATTTTTAACCCTAAACTTT
1 TCCAAAAATTACCATTTT-ACCCTCGA-AC--TTCCAAAAATTCCATTTTTGACCC-CAATTTT
* ***
87396 TCC-AAAATTA-CATTTTACCCTCGAACTTTCC-AAAATTTCATTTTTGACCATGATTTT
1 TCCAAAAATTACCATTTTACCCTCGAAC-TTCCAAAAATTCCATTTTTGACCCCAATTTT
* * * * * *
87453 TCCAAAAATTACCATTTTACCCCCAAACTTCTAAAAATTCTATTTTTGACCTCGA-TTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAATTTT
**
87511 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCTTAATTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAATTTT
** * *
87570 TCCAAAAATTATTATTTTACCCTTGAACTTCCAAAAATTCCATTTTTAACCCCAATTTTTTT
1 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAA---TTTT
** * * * ** **
87632 GAAATAAAAAAATTTCTATTTTTAACCC-CGAA-TGTCTAAAAATTCCATTTTAAACCCCAAACT
1 ----TCCAAAAATTACCA-TTTT-ACCCTCGAACT-TCCAAAAATTCCATTTTTGACCCCAATTT
87695 T
59 T
* * * * **
87696 TCCAAAAATTACCATTTTACCCTCCAAATGTCTC--AAATTTCATTTTTAACCCCAAACTT
1 TCCAAAAATTACCATTTTACCCTCGAACT-TC-CAAAAATTCCATTTTTGACCCCAATTTT
* * * *
87755 TCCCAAAATTACTATTTTACCCCCG-AGTGTCC-AAAATTACCATTTTT
1 TCCAAAAATTACCATTTTACCCTCGAACT-TCCAAAAATT-CCATTTTT
87802 CCCTCGGGTA
Statistics
Matches: 337, Mismatches: 49, Indels: 42
0.79 0.11 0.10
Matches are distributed among these distances:
57 8 0.02
58 97 0.29
59 148 0.44
60 29 0.09
61 3 0.01
62 4 0.01
64 2 0.01
66 11 0.03
67 31 0.09
68 4 0.01
ACGTcount: A:0.33, C:0.25, G:0.03, T:0.38
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATTCCATTTTTGACCCCAATTTT
Found at i:87674 original size:30 final size:30
Alignment explanation
Indices: 87639--87751 Score: 108
Period size: 29 Copynumber: 3.8 Consensus size: 30
87629 TTTGAAATAA
* *
87639 AAAAATTTCTATTTTTAACCCCGAATGTCT
1 AAAAATTTCCATTTTTAACCCCAAATGTCT
* * *
87669 AAAAA-TTCCATTTTAAACCCCAAACTTTCC
1 AAAAATTTCCATTTTTAACCCCAAA-TGTCT
* *
87699 AAAAATTACCA-TTTTACCCTCCAAATGTCT
1 AAAAATTTCCATTTTTAACC-CCAAATGTCT
*
87729 -CAAATTT-CATTTTTAACCCCAAA
1 AAAAATTTCCATTTTTAACCCCAAA
87752 CTTTCCCAAA
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
28 7 0.11
29 28 0.42
30 22 0.33
31 9 0.14
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
AAAAATTTCCATTTTTAACCCCAAATGTCT
Found at i:87773 original size:30 final size:30
Alignment explanation
Indices: 87670--87800 Score: 103
Period size: 29 Copynumber: 4.5 Consensus size: 30
87660 CGAATGTCTA
*
87670 AAAATT-CCATTTTAAACCCCAAACTTTCCA
1 AAAATTACCATTTT-AACCCCAAACTTTCCC
* * *
87700 AAAATTACCATTTTACCCTCCAAA-TGTCTC
1 AAAATTACCATTTTAACC-CCAAACTTTCCC
*
87730 -AAATT-TCATTTTTAACCCCAAACTTTCCC
1 AAAATTACCA-TTTTAACCCCAAACTTTCCC
* ** * *
87759 AAAATTACTATTTT-ACCCCCGAGTGT-CC
1 AAAATTACCATTTTAACCCCAAACTTTCCC
87787 AAAATTACCATTTT
1 AAAATTACCATTTT
87801 TCCCTCGGGT
Statistics
Matches: 80, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
28 22 0.28
29 24 0.30
30 21 0.26
31 13 0.16
ACGTcount: A:0.34, C:0.28, G:0.03, T:0.34
Consensus pattern (30 bp):
AAAATTACCATTTTAACCCCAAACTTTCCC
Found at i:87777 original size:29 final size:28
Alignment explanation
Indices: 87670--87777 Score: 85
Period size: 30 Copynumber: 3.6 Consensus size: 28
87660 CGAATGTCTA
* *
87670 AAAATTCCATTTTAAACCCCAAACTTTCCA
1 AAAATTACATTTT--ACCCCAAACTTTCCC
* *
87700 AAAATTACCATTTTACCCTCCAAA-TGTCTC
1 AAAATTA-CATTTTA-CC-CCAAACTTTCCC
*
87730 -AAATTTCATTTTTAACCCCAAACTTTCCC
1 AAAATTACA-TTTT-ACCCCAAACTTTCCC
87759 AAAATTACTATTTTACCCC
1 AAAATTAC-ATTTTACCCC
87778 CGAGTGTCCA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
28 7 0.11
29 21 0.34
30 22 0.35
31 12 0.19
ACGTcount: A:0.35, C:0.30, G:0.01, T:0.34
Consensus pattern (28 bp):
AAAATTACATTTTACCCCAAACTTTCCC
Found at i:87818 original size:28 final size:28
Alignment explanation
Indices: 87757--87818 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
87747 CCAAACTTTC
* *
87757 CCAAAATTACTATTTTACCCCCGAGTGT
1 CCAAAATTACCATTTTACCCCCGAGTAT
* * *
87785 CCAAAATTACCATTTTTCCCTCGGGTAT
1 CCAAAATTACCATTTTACCCCCGAGTAT
*
87813 CTAAAA
1 CCAAAA
87819 ATCTCATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.32
Consensus pattern (28 bp):
CCAAAATTACCATTTTACCCCCGAGTAT
Found at i:90404 original size:23 final size:23
Alignment explanation
Indices: 90378--90497 Score: 102
Period size: 23 Copynumber: 5.1 Consensus size: 23
90368 TATTAGCGCA
*
90378 CTCTCCGATTAGCACTGTGTGTG
1 CTCTCCGATTAGCACTGTATGTG
*
90401 CTCTCC-ATTTAGCACTTTATGTG
1 CTCTCCGA-TTAGCACTGTATGTG
* * *
90424 CTCTCTGTTTAGCAC-GTTTCGTG
1 CTCTCCGATTAGCACTGTAT-GTG
90447 CTCTCCGTTATTAGCACT-TCATGTG
1 CTCTCCG--ATTAGCACTGT-ATGTG
* * *
90472 CTCTCTGATTAGCACTTTGTGTG
1 CTCTCCGATTAGCACTGTATGTG
90495 CTC
1 CTC
90498 AGTACTTTGT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
22 3 0.04
23 56 0.72
24 1 0.01
25 17 0.22
26 1 0.01
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (23 bp):
CTCTCCGATTAGCACTGTATGTG
Found at i:90496 original size:48 final size:46
Alignment explanation
Indices: 90378--90497 Score: 152
Period size: 48 Copynumber: 2.6 Consensus size: 46
90368 TATTAGCGCA
* * *
90378 CTCTCCGATTAGCACTGTGTGTGCTCTCCATTTAGCACTTTATGTG
1 CTCTCTGATTAGCACTTTGTGTGCTCTCCATTTAGCACTTCATGTG
* * *
90424 CTCTCTGTTTAGCACGTTT-CGTGCTCTCCGTTATTAGCACTTCATGTG
1 CTCTCTGATTAGCAC-TTTGTGTGCTCTCC-AT-TTAGCACTTCATGTG
90472 CTCTCTGATTAGCACTTTGTGTGCTC
1 CTCTCTGATTAGCACTTTGTGTGCTC
90498 AGTACTTTGT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
46 22 0.35
47 6 0.10
48 34 0.55
ACGTcount: A:0.13, C:0.27, G:0.19, T:0.41
Consensus pattern (46 bp):
CTCTCTGATTAGCACTTTGTGTGCTCTCCATTTAGCACTTCATGTG
Found at i:103788 original size:17 final size:17
Alignment explanation
Indices: 103766--103798 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
103756 TAGTTACAAG
103766 AATATGAAAAGTTAAAT
1 AATATGAAAAGTTAAAT
*
103783 AATATGAAAGGTTAAA
1 AATATGAAAAGTTAAA
103799 GGTCAAGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.15, T:0.27
Consensus pattern (17 bp):
AATATGAAAAGTTAAAT
Found at i:106338 original size:33 final size:33
Alignment explanation
Indices: 106296--106364 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
106286 TCTTTTCTCT
106296 TCCATTGTTTTTTCCGTTGCAGAATACAGGAGA
1 TCCATTGTTTTTTCCGTTGCAGAATACAGGAGA
106329 TCCATTGTTTTTTCCGTTGCAGAATACAGGAGA
1 TCCATTGTTTTTTCCGTTGCAGAATACAGGAGA
106362 TCC
1 TCC
106365 TCTCGTCACC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.36
Consensus pattern (33 bp):
TCCATTGTTTTTTCCGTTGCAGAATACAGGAGA
Found at i:115227 original size:23 final size:23
Alignment explanation
Indices: 115197--115240 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
115187 TAAACAAAGG
115197 ACGAGCCTGTTAAACAAAAACGA
1 ACGAGCCTGTTAAACAAAAACGA
*
115220 ACGAGCCTGTTAAATAAAAAC
1 ACGAGCCTGTTAAACAAAAAC
115241 AAACAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.20, G:0.16, T:0.16
Consensus pattern (23 bp):
ACGAGCCTGTTAAACAAAAACGA
Found at i:118087 original size:2 final size:2
Alignment explanation
Indices: 118080--118106 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
118070 ACAGACATAT
118080 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
118107 AAGGAAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:120416 original size:62 final size:62
Alignment explanation
Indices: 120330--120456 Score: 218
Period size: 62 Copynumber: 2.0 Consensus size: 62
120320 CTCTTAACTC
* *
120330 TATGCTGCACGAACTCTTCTATCTTGAGCTATACTAACATAAAGTAATGACCCCAGTCGCAT
1 TATGCTGCACGAACTCTTCAATCTTGAGCTATACTAACATAAAGTAATGACCCCAGTCACAT
* *
120392 TATGTTGCTCGAACTCTTCAATCTTGAGCTATACTAACATAAAGTAATGACCCCAGTCACAT
1 TATGCTGCACGAACTCTTCAATCTTGAGCTATACTAACATAAAGTAATGACCCCAGTCACAT
120454 TAT
1 TAT
120457 TCGGATAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.31
Consensus pattern (62 bp):
TATGCTGCACGAACTCTTCAATCTTGAGCTATACTAACATAAAGTAATGACCCCAGTCACAT
Found at i:127991 original size:34 final size:37
Alignment explanation
Indices: 127953--128031 Score: 92
Period size: 38 Copynumber: 2.2 Consensus size: 37
127943 ATATATATAT
*
127953 ATATATTCATAA-GACTA-T-AAAAAGAAAGAGAACC
1 ATATATTCATAACGAATATTCAAAAAGAAAGAGAACC
** *
127987 ATATATTGTTAACGAATATTTCAAAAATAAAGAGAACC
1 ATATATTCATAACGAATA-TTCAAAAAGAAAGAGAACC
128025 ATATATT
1 ATATATT
128032 ATTAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 10 0.27
35 4 0.11
37 1 0.03
38 22 0.59
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (37 bp):
ATATATTCATAACGAATATTCAAAAAGAAAGAGAACC
Found at i:128046 original size:38 final size:38
Alignment explanation
Indices: 127971--128049 Score: 113
Period size: 38 Copynumber: 2.1 Consensus size: 38
127961 ATAAGACTAT
* * *
127971 AAAAAGAAAGAGAACCATATATTGTTAACGAATATTTC
1 AAAAAGAAAGAGAACCATATATTATTAACAAAAATTTC
* *
128009 AAAAATAAAGAGAACCATATATTATTAATAAAAATTTC
1 AAAAAGAAAGAGAACCATATATTATTAACAAAAATTTC
128047 AAA
1 AAA
128050 TAATTTAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.56, C:0.09, G:0.09, T:0.27
Consensus pattern (38 bp):
AAAAAGAAAGAGAACCATATATTATTAACAAAAATTTC
Found at i:129570 original size:17 final size:17
Alignment explanation
Indices: 129548--129597 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
129538 AACCATTCAA
*
129548 ATTTTTTATA-ATATATT
1 ATTTTTTAGAGAT-TATT
129565 ATTTTTTAGAGATTATT
1 ATTTTTTAGAGATTATT
129582 ATTTATTTA-AGATTAT
1 ATTT-TTTAGAGATTAT
129598 AGAAGTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (17 bp):
ATTTTTTAGAGATTATT
Found at i:129667 original size:20 final size:20
Alignment explanation
Indices: 129642--129682 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
129632 ATTACATTAA
129642 ATTTAA-TAAATAGATAATTT
1 ATTTAACTAAA-AGATAATTT
129662 ATTTAATCTAAAAGATAATTT
1 ATTTAA-CTAAAAGATAATTT
129683 TTTTTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.32
21 9 0.47
22 4 0.21
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
ATTTAACTAAAAGATAATTT
Found at i:134832 original size:35 final size:35
Alignment explanation
Indices: 134793--134864 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
134783 CTTTCAAGGG
134793 CATGAGAAGCTATTACTTCCCACTGCTCTATGTGA
1 CATGAGAAGCTATTACTTCCCACTGCTCTATGTGA
134828 CATGAGAAGCTATTACTTCCCACTGCTCTATGTGA
1 CATGAGAAGCTATTACTTCCCACTGCTCTATGTGA
134863 CA
1 CA
134865 CCCTGTCTAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (35 bp):
CATGAGAAGCTATTACTTCCCACTGCTCTATGTGA
Found at i:138293 original size:4 final size:4
Alignment explanation
Indices: 138284--138357 Score: 69
Period size: 4 Copynumber: 18.2 Consensus size: 4
138274 AAATAAACGG
* * * * * *
138284 GAAA GAAA GAAA GAAAA GAAA TAAA GAAA GGAA GGAA GGAA GAAG GAGAG
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GA-AA
138334 GAAA GAAA G-AA GAAA GAAA GAAA G
1 GAAA GAAA GAAA GAAA GAAA GAAA G
138358 GTAATGTGTT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
3 3 0.05
4 50 0.82
5 8 0.13
ACGTcount: A:0.66, C:0.00, G:0.32, T:0.01
Consensus pattern (4 bp):
GAAA
Found at i:141879 original size:14 final size:14
Alignment explanation
Indices: 141832--141883 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
141822 TAGTGTTTAG
*
141832 GTTTAGAGTTTCAA
1 GTTTAGGGTTTCAA
** *
141846 GTTTAACGTTT-AT
1 GTTTAGGGTTTCAA
141859 GATTTAGGGTTTCAA
1 G-TTTAGGGTTTCAA
141874 GTTTAGGGTT
1 GTTTAGGGTT
141884 GATAGTTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 26 0.87
15 2 0.07
ACGTcount: A:0.23, C:0.06, G:0.25, T:0.46
Consensus pattern (14 bp):
GTTTAGGGTTTCAA
Found at i:141892 original size:28 final size:27
Alignment explanation
Indices: 141832--141897 Score: 71
Period size: 28 Copynumber: 2.4 Consensus size: 27
141822 TAGTGTTTAG
*
141832 GTTTAGAGTTTCAAGTTTAACGTTTAT
1 GTTTAGAGTTTCAAGTTTAACGTTGAT
* **
141859 GATTTAGGGTTTCAAGTTTAGGGTTGAT
1 G-TTTAGAGTTTCAAGTTTAACGTTGAT
141887 AGTTTA-AGTTT
1 -GTTTAGAGTTT
141898 TAGGGTTTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
27 5 0.16
28 26 0.81
29 1 0.03
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.47
Consensus pattern (27 bp):
GTTTAGAGTTTCAAGTTTAACGTTGAT
Found at i:142156 original size:29 final size:30
Alignment explanation
Indices: 142124--142181 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
142114 AATTATTTAT
142124 ATTTAATAATATAATAAA-TAATTAATATA
1 ATTTAATAATATAATAAATTAATTAATATA
* * * *
142153 ATTTATTATTTTAATAAATTATTTAATAT
1 ATTTAATAATATAATAAATTAATTAATAT
142182 TTCAATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTAATAATATAATAAATTAATTAATATA
Found at i:143420 original size:31 final size:30
Alignment explanation
Indices: 143384--143494 Score: 83
Period size: 30 Copynumber: 3.8 Consensus size: 30
143374 TTTTATTTTT
143384 AAAATATTTAAAATTATTAATATATTAATAC
1 AAAATATTT-AAATTATTAATATATTAATAC
143415 AAAATA-TTATAATT-TTCAATATTATTAA-AC
1 AAAATATTTA-AATTATT-AATA-TATTAATAC
* *
143445 ATAGATATTT-AATTATTTATAT-TTAAT-C
1 A-AAATATTTAAATTATTAATATATTAATAC
* **
143473 -ATATAAATAAATTATTAATATA
1 AAAATATTTAAATTATTAATATA
143495 ATTTATTATT
Statistics
Matches: 65, Mismatches: 6, Indels: 21
0.71 0.07 0.23
Matches are distributed among these distances:
26 5 0.08
27 11 0.17
28 5 0.08
29 4 0.06
30 20 0.31
31 18 0.28
32 2 0.03
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.45
Consensus pattern (30 bp):
AAAATATTTAAATTATTAATATATTAATAC
Found at i:143467 original size:30 final size:31
Alignment explanation
Indices: 143384--143467 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 31
143374 TTTTATTTTT
*
143384 AAAATATTTAAAATTATTAATA-TATTAATAC
1 AAAATA-TTATAATTATTAATATTATTAATAC
143415 AAAATATTATAATT-TTCAATATTATTAA-AC
1 AAAATATTATAATTATT-AATATTATTAATAC
* *
143445 ATAGATATT-TAATTATTTATATT
1 A-AAATATTATAATTATTAATATT
143468 TAATCATATA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
29 2 0.04
30 24 0.52
31 20 0.43
ACGTcount: A:0.49, C:0.04, G:0.01, T:0.46
Consensus pattern (31 bp):
AAAATATTATAATTATTAATATTATTAATAC
Found at i:143742 original size:29 final size:29
Alignment explanation
Indices: 143708--143788 Score: 117
Period size: 29 Copynumber: 2.8 Consensus size: 29
143698 TCACAAATTT
*
143708 AGAATTTAGTCTATGTATTTTTATTTTCA
1 AGAATTTAGTCTATGTACTTTTATTTTCA
* *
143737 GGAATTTAGTCTATGTACTTTTATTTTTA
1 AGAATTTAGTCTATGTACTTTTATTTTCA
* *
143766 AGAATTTAGTCTCTCTACTTTTA
1 AGAATTTAGTCTATGTACTTTTA
143789 AGATTGAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.26, C:0.10, G:0.11, T:0.53
Consensus pattern (29 bp):
AGAATTTAGTCTATGTACTTTTATTTTCA
Found at i:146547 original size:17 final size:16
Alignment explanation
Indices: 146521--146552 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
146511 GAATTTGGAG
146521 AAAAAATTAAAAAAAA
1 AAAAAATTAAAAAAAA
146537 AAAAGAATTAAAAAAA
1 AAAA-AATTAAAAAAA
146553 TATAAAATAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (16 bp):
AAAAAATTAAAAAAAA
Found at i:147352 original size:13 final size:14
Alignment explanation
Indices: 147329--147366 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
147319 AGATCCACTT
147329 TAAACTCTAAAAA-A
1 TAAA-TCTAAAAAGA
147343 TAAATCTAAAAAGA
1 TAAATCTAAAAAGA
*
147357 TAAATATAAA
1 TAAATCTAAA
147367 TTAAATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 8 0.36
14 14 0.64
ACGTcount: A:0.66, C:0.08, G:0.03, T:0.24
Consensus pattern (14 bp):
TAAATCTAAAAAGA
Found at i:151373 original size:48 final size:48
Alignment explanation
Indices: 151302--151397 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
151292 GGATGAATCT
151302 GATGATATTGATGGTGACTCAAAGCATGAAAGAGAAGTATTGGAACAA
1 GATGATATTGATGGTGACTCAAAGCATGAAAGAGAAGTATTGGAACAA
151350 GATGATATTGATGGTGACTCAAAGCATGAAAGAGAAGTATTGGAACAA
1 GATGATATTGATGGTGACTCAAAGCATGAAAGAGAAGTATTGGAACAA
151398 CTGGAGCCTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.42, C:0.08, G:0.27, T:0.23
Consensus pattern (48 bp):
GATGATATTGATGGTGACTCAAAGCATGAAAGAGAAGTATTGGAACAA
Done.