Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009513.1 Kokia drynarioides strain JFW-HI SEQ_124224, 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: 227652
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Warning! 141 characters in sequence are not A, C, G, or T
Found at i:37 original size:30 final size:29
Alignment explanation
Indices: 1--138 Score: 170
Period size: 30 Copynumber: 4.6 Consensus size: 29
*
1 GGGTCAAATCTAAATTTTTGGAAACTTTGA
1 GGGTCAAAT-TAAATTTTTGGAAAATTTGA
31 GGGTCAAATTTAAATTTTTGGAAAATTTGA
1 GGGTCAAA-TTAAATTTTTGGAAAATTTGA
*
61 GGGTCAAATTAAAATTTTTGAAAAATTTGA
1 GGGTCAAATT-AAATTTTTGGAAAATTTGA
* * *
91 GAGTTAAATTTGAATTTTTGGAAAATTTG-
1 GGGTCAAA-TTAAATTTTTGGAAAATTTGA
120 GTGGTCAAATTATAATTTT
1 G-GGTCAAATTA-AATTTT
139 AAAATAAAGT
Statistics
Matches: 94, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
29 5 0.05
30 86 0.91
31 3 0.03
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (29 bp):
GGGTCAAATTAAATTTTTGGAAAATTTGA
Found at i:100 original size:60 final size:59
Alignment explanation
Indices: 1--138 Score: 188
Period size: 60 Copynumber: 2.3 Consensus size: 59
* * *
1 GGGTCAAATCT-AAATTTTTGGAAACTTTGAGGGTCAAATTTAAATTTTTGGAAAATTTG
1 GGGTCAAAT-TAAAATTTTTGAAAAATTTGAGAGTCAAATTTAAATTTTTGGAAAATTTG
* *
60 AGGGTCAAATTAAAATTTTTGAAAAATTTGAGAGTTAAATTTGAATTTTTGGAAAATTTG
1 -GGGTCAAATTAAAATTTTTGAAAAATTTGAGAGTCAAATTTAAATTTTTGGAAAATTTG
*
120 GTGGTCAAATTATAATTTT
1 G-GGTCAAATTAAAATTTT
139 AAAATAAAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
59 2 0.03
60 68 0.97
ACGTcount: A:0.36, C:0.04, G:0.19, T:0.41
Consensus pattern (59 bp):
GGGTCAAATTAAAATTTTTGAAAAATTTGAGAGTCAAATTTAAATTTTTGGAAAATTTG
Found at i:1118 original size:34 final size:34
Alignment explanation
Indices: 1075--1145 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
1065 TTCTGGTTGT
1075 GGAATAGTGCAAATCGTGGAGAGGTGGTGTTCGA
1 GGAATAGTGCAAATCGTGGAGAGGTGGTGTTCGA
1109 GGAATAGTGCAAATCGTGGAGAGGTGGTGTTCGA
1 GGAATAGTGCAAATCGTGGAGAGGTGGTGTTCGA
1143 GGA
1 GGA
1146 TCATGGCGAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.27, C:0.08, G:0.42, T:0.23
Consensus pattern (34 bp):
GGAATAGTGCAAATCGTGGAGAGGTGGTGTTCGA
Found at i:1830 original size:79 final size:78
Alignment explanation
Indices: 1720--2005 Score: 367
Period size: 79 Copynumber: 3.6 Consensus size: 78
1710 TAGCTTTAAA
* * * *
1720 GGTAAAAGATTGAATTGTTTCAATCTTCCCCATGGTTGGGATAAGAGATCTGATGGTCTTCAATC
1 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATC-GATGGTCTTCAATC
1785 TACCCTCTGATTAG
65 TACCCTCTGATTAG
* *
1799 GGTAAAAGATTGAATTGCTTCAATTTGCCCCATGGTCGGGGTAAGAGATCGAATGGTCTTCAATT
1 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCG-ATGGTCTTCAATC
*
1864 TACCCTCTGGTTAG
65 TACCCTCTGATTAG
* * * * *
1878 GGTAAAATATTGGATTGCTTCAATCTGCCCCATGGTCGGTGTAAGAGATCGGATGGTATTAAATC
1 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATC-GATGGTCTTCAATC
*
1943 TGCCCTCT-AGTTAG
65 TACCCTCTGA-TTAG
* * * * *
1957 GGTAAAAGATTGGATTGCTTCAATCTACCTCATGGTTGGGGTAAAAGAT
1 GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGAT
2006 TCGAGGTTAT
Statistics
Matches: 182, Mismatches: 22, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 180 0.99
80 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (78 bp):
GGTAAAAGATTGAATTGCTTCAATCTGCCCCATGGTCGGGGTAAGAGATCGATGGTCTTCAATCT
ACCCTCTGATTAG
Found at i:1841 original size:39 final size:39
Alignment explanation
Indices: 1720--2006 Score: 204
Period size: 39 Copynumber: 7.3 Consensus size: 39
1710 TAGCTTTAAA
* *
1720 GGTAAAAGATTGAATTGTTTCAATCTTCCCCATGGTTGG
1 GGTAAAAGATTGAATTGCTTCAATCTACCCCATGGTTGG
* * * * *
1759 GATAAGAGATCTG-ATGGTCTTCAATCTACCCTC-TGATTAG
1 GGTAAAAGAT-TGAATTG-CTTCAATCTACCC-CATGGTTGG
* * *
1799 GGTAAAAGATTGAATTGCTTCAATTTGCCCCATGGTCGG
1 GGTAAAAGATTGAATTGCTTCAATCTACCCCATGGTTGG
* * * * *
1838 GGTAAGAGATCGAATGGTCTTCAATTTACCCTC-TGGTTAG
1 GGTAAAAGATTGAATTG-CTTCAATCTACCC-CATGGTTGG
* * * *
1878 GGTAAAATATTGGATTGCTTCAATCTGCCCCATGGTCGG
1 GGTAAAAGATTGAATTGCTTCAATCTACCCCATGGTTGG
* * * * * * * * * *
1917 TGTAAGAGATCGGATGGTATTAAATCTGCCCTC-TAGTTAG
1 GGTAAAAGATTGAATTG-CTTCAATCTACCC-CATGGTTGG
* *
1957 GGTAAAAGATTGGATTGCTTCAATCTACCTCATGGTTGG
1 GGTAAAAGATTGAATTGCTTCAATCTACCCCATGGTTGG
1996 GGTAAAAGATT
1 GGTAAAAGATT
2007 CGAGGTTATA
Statistics
Matches: 187, Mismatches: 50, Indels: 22
0.72 0.19 0.08
Matches are distributed among these distances:
38 3 0.02
39 95 0.51
40 86 0.46
41 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (39 bp):
GGTAAAAGATTGAATTGCTTCAATCTACCCCATGGTTGG
Found at i:2128 original size:50 final size:50
Alignment explanation
Indices: 2064--2191 Score: 168
Period size: 50 Copynumber: 2.6 Consensus size: 50
2054 ATTCTTACGA
* *
2064 CTTCAATCTACCCCTCTACAGTTTTAGGTGA-ATGAGATTCGCCATTGCAG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGT-ATATGAGATTCGCCATTGCAG
* * * *
2114 CTTCAATCTGCCCCTCTATAGCTTTAGGTATATGAGATTTGTCATTGCGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGGTATATGAGATTCGCCATTGCAG
* *
2164 CTTCAATCCGCTCCTCTACAGCTTTAGG
1 CTTCAATCTGCCCCTCTACAGCTTTAGG
2192 GGTATAGGAT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 67 0.99
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.34
Consensus pattern (50 bp):
CTTCAATCTGCCCCTCTACAGCTTTAGGTATATGAGATTCGCCATTGCAG
Found at i:2414 original size:6 final size:6
Alignment explanation
Indices: 2403--2442 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
2393 GTATTTGGGC
2403 TTTATT TTTATT TTTATT TTTATTAT TTTATT ATTTATT T
1 TTTATT TTTATT TTTATT TTTA-T-T TTTATT -TTTATT T
2443 ATTTGTATCT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
6 18 0.58
7 8 0.26
8 5 0.16
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:2430 original size:15 final size:17
Alignment explanation
Indices: 2409--2446 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
2399 GGGCTTTATT
2409 TTTATTTTTATT-TTTA
1 TTTATTTTTATTATTTA
2425 -TTA-TTTTATTATTTA
1 TTTATTTTTATTATTTA
2440 TTTATTT
1 TTTATTT
2447 GTATCTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 5
0.79 0.00 0.21
Matches are distributed among these distances:
14 7 0.37
15 7 0.37
16 3 0.16
17 2 0.11
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTATTTTTATTATTTA
Found at i:2461 original size:3 final size:3
Alignment explanation
Indices: 2453--2483 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
2443 ATTTGTATCT
2453 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
2484 AATTAAAAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:6889 original size:2 final size:2
Alignment explanation
Indices: 6882--6907 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6872 CTACATGTAT
6882 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
6908 CTTTATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7777 original size:17 final size:17
Alignment explanation
Indices: 7765--7821 Score: 87
Period size: 17 Copynumber: 3.4 Consensus size: 17
7755 TAATTTGTAT
*
7765 TTTAAATTTATTTTAAG
1 TTTAAATTTATTTTAAA
*
7782 TTTAAAATTATTTTAAA
1 TTTAAATTTATTTTAAA
*
7799 TTTAAATTTATCTTAAA
1 TTTAAATTTATTTTAAA
7816 TTTAAA
1 TTTAAA
7822 ATTTTAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:8574 original size:22 final size:22
Alignment explanation
Indices: 8548--8594 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
8538 GAAAGATGAG
8548 AAGTCAGAAGGTTACGATCCTT
1 AAGTCAGAAGGTTACGATCCTT
8570 AAGTCAGAAGGTTACGATCCTT
1 AAGTCAGAAGGTTACGATCCTT
8592 AAG
1 AAG
8595 ACATCGCCGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (22 bp):
AAGTCAGAAGGTTACGATCCTT
Found at i:9884 original size:116 final size:115
Alignment explanation
Indices: 9764--9982 Score: 250
Period size: 116 Copynumber: 1.9 Consensus size: 115
9754 AACTTCACAA
* *
9764 AAATTACATTTTTGCCCCCAAAC-TTCCAAAAATTA-CATTTTCACACACGAACT-TCCAAAA-T
1 AAATTACATTTTTGACCCCAAACTTTCCAAAAATTACCAATTT-ACACA-GAA-TGTCCAAAATT
* * *
9825 TCCATTTTTGATCCCAAACTT-TCAAAGAACTACCATTTTACCCCTGGACATCCAT
63 TCCA-TTTTGACCCCAAACTTCCCAAA-AAATA-CATTTTACCCCTGGACATCCAT
* * * * *
9880 AAATTCCGTTTTTGACCTCAAACTTTCCCAAAATTACCAATTTACCCAGAATGTCCAAAATTTCC
1 AAATTACATTTTTGACCCCAAACTTTCCAAAAATTACCAATTTACACAGAATGTCCAAAATTTCC
*
9945 ATTTTGACCCCGAACTTCCCAAAAAATACATTTTACCC
66 ATTTTGACCCCAAACTTCCCAAAAAATACATTTTACCC
9983 TCGAATGTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
115 11 0.13
116 47 0.54
117 24 0.28
118 5 0.06
ACGTcount: A:0.34, C:0.29, G:0.05, T:0.31
Consensus pattern (115 bp):
AAATTACATTTTTGACCCCAAACTTTCCAAAAATTACCAATTTACACAGAATGTCCAAAATTTCC
ATTTTGACCCCAAACTTCCCAAAAAATACATTTTACCCCTGGACATCCAT
Found at i:9968 original size:29 final size:27
Alignment explanation
Indices: 9734--9968 Score: 100
Period size: 29 Copynumber: 8.1 Consensus size: 27
9724 AAACTTTCTA
* *
9734 AAAATTACA-TTTGACACTCGAACTTCAC
1 AAAATTCCATTTTGAC-CCCGAACTTC-C
* * *
9762 AAAAATTACATTTTTGCCCCCAAACTTCC
1 -AAAATTCCA-TTTTGACCCCGAACTTCC
* * *
9791 AAAAATTACATTTTCACACACGAACTTCC
1 -AAAATTCCATTTTGAC-CCCGAACTTCC
* * *
9820 AAAATTCCATTTTTGATCCCAAACTTTCA
1 AAAATTCCA-TTTTGACCCCGAAC-TTCC
* * *
9849 AAGAACTACCATTTT-ACCCCTGGACATCC
1 AA-AA-TTCCATTTTGACCCC-GAACTTCC
* * *
9878 ATAAATTCCGTTTTTGACCTCAAACTTTCCC
1 A-AAATTCC-ATTTTGACCCCGAAC-TT-CC
* *
9909 AAAATTACCAATTT-ACCCAGAA-TGTCC
1 AAAATT-CCATTTTGACCCCGAACT-TCC
9936 AAAATTTCCATTTTGACCCCGAACTTCCC
1 AAAA-TTCCATTTTGACCCCGAACTT-CC
9965 AAAA
1 AAAA
9969 AATACATTTT
Statistics
Matches: 155, Mismatches: 32, Indels: 38
0.69 0.14 0.17
Matches are distributed among these distances:
27 13 0.08
28 32 0.21
29 66 0.43
30 30 0.19
31 14 0.09
ACGTcount: A:0.35, C:0.29, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAATTCCATTTTGACCCCGAACTTCC
Found at i:9976 original size:29 final size:28
Alignment explanation
Indices: 9574--10037 Score: 242
Period size: 30 Copynumber: 15.8 Consensus size: 28
9564 AAAGGTCCTT
* *
9574 GAACTATCCAAAAATCACATTTTAACCCTC
1 GAACT-TCCAAAAATTACATTTTGACCC-C
** *
9604 GAACTTTTTAAAAATTACATTTTGACCCTT
1 GAAC-TTCCAAAAATTACATTTTGACCC-C
* * *
9634 GAACTTCATAAAAATTACATTTTTACCTTC
1 GAACTTC-CAAAAATTACATTTTGACC-CC
* *
9664 GAACATCACAAAAATTATATTTTGACCCC
1 GAACTTC-CAAAAATTACATTTTGACCCC
* * *
9693 TAAGCTTTCTAAAAATTACATTTTGACCCTT
1 GAA-C-TTCCAAAAATTACATTTTGACCC-C
* * *
9724 AAACTTTCTAAAAATTACA-TTTGACACTC
1 GAAC-TTCCAAAAATTACATTTTGAC-CCC
*
9753 GAACTTCACAAAAATTACATTTTTGCCCCC
1 GAACTTC-CAAAAATTACA-TTTTGACCCC
* * *
9783 AAACTTCCAAAAATTACATTTTCACACAC
1 GAACTTCCAAAAATTACATTTTGAC-CCC
* *
9812 GAACTTCC-AAAATTCCATTTTTGATCCC
1 GAACTTCCAAAAATTACA-TTTTGACCCC
* * *
9840 AAACTTTCAAAGAACTACCATTTT-ACCCC
1 GAACTTCCAAA-AATTA-CATTTTGACCCC
* * * * * *
9869 TGGACATCCATAAATTCCGTTTTTGACCTC
1 -GAACTTCCAAAAATTAC-ATTTTGACCCC
* * * *
9899 AAACTTTCCCAAAATTACCAATTT-ACCCA
1 GAAC-TTCCAAAAATTA-CATTTTGACCCC
* *
9928 GAA-TGTCCAAAATTTCCATTTTGACCCC
1 GAACT-TCCAAAAATTACATTTTGACCCC
*
9956 GAACTTCCCAAAAAATACATTTT-ACCCTC
1 GAACTT-CCAAAAATTACATTTTGACCC-C
* *
9985 GAA-TGTCTAAAAATTACCGTTTT-ACCCC
1 GAACT-TCCAAAAATTA-CATTTTGACCCC
*
10013 TGAACCTCCAAAAATTATCATTTTG
1 -GAACTTCCAAAAATTA-CATTTTG
10038 CTCCGGGCAT
Statistics
Matches: 329, Mismatches: 75, Indels: 60
0.71 0.16 0.13
Matches are distributed among these distances:
27 6 0.02
28 55 0.17
29 115 0.35
30 140 0.43
31 13 0.04
ACGTcount: A:0.36, C:0.26, G:0.06, T:0.33
Consensus pattern (28 bp):
GAACTTCCAAAAATTACATTTTGACCCC
Found at i:9989 original size:57 final size:55
Alignment explanation
Indices: 9704--10036 Score: 201
Period size: 57 Copynumber: 5.8 Consensus size: 55
9694 AAGCTTTCTA
* * * * *
9704 AAAATTACATTTTGACCCTTAAACTTTCTAAAAATTA-CATTTGACACTCGAACTTCAC
1 AAAATTCCATTTTGACCC-CAAAC-TTCCAAAAATTACCATTTTACCCTCGAA-TTC-C
* * * *
9762 AAAAATTACATTTTTGCCCCCAAACTTCCAAAAATTA-CATTTTCACACACGAACTTCC
1 -AAAATTCCA-TTTTGACCCCAAACTTCCAAAAATTACCATTTT-ACCCTCGAA-TTCC
* * * *
9820 AAAATTCCATTTTTGATCCCAAACTTTCAAAGAACTACCATTTTACCCCTGGACA-TCC
1 AAAATTCCA-TTTTGACCCCAAACTTCCAAA-AATTACCATTTTA-CCCTCGA-ATTCC
* * * * *
9878 ATAAATTCCGTTTTTGACCTCAAACTTTCCCAAAATTACCAATTTACCC-AGAATGTCC
1 A-AAATTCC-ATTTTGACCCCAAAC-TTCCAAAAATTACCATTTTACCCTCGAAT-TCC
* * *
9936 AAAATTTCCATTTTGACCCCGAACTTCCCAAAAAATA-CATTTTACCCTCGAATGTCTA
1 AAAA-TTCCATTTTGACCCCAAACTT-CCAAAAATTACCATTTTACCCTCGAAT-TC-C
* * * *
9994 AAAATTACCGTTTT-ACCCCTGAACCTCCAAAAATTATCATTTT
1 AAAATT-CCATTTTGACCCC-AAACTTCCAAAAATTACCATTTT
10037 GCTCCGGGCA
Statistics
Matches: 224, Mismatches: 32, Indels: 37
0.76 0.11 0.13
Matches are distributed among these distances:
56 12 0.05
57 75 0.33
58 58 0.26
59 65 0.29
60 14 0.06
ACGTcount: A:0.35, C:0.27, G:0.06, T:0.32
Consensus pattern (55 bp):
AAAATTCCATTTTGACCCCAAACTTCCAAAAATTACCATTTTACCCTCGAATTCC
Found at i:10149 original size:14 final size:14
Alignment explanation
Indices: 10130--10161 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
10120 ATTAATATGC
10130 TTTTGTATTTTTTA
1 TTTTGTATTTTTTA
10144 TTTTGTATTTTTTA
1 TTTTGTATTTTTTA
10158 TTTT
1 TTTT
10162 TGTGCAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.81
Consensus pattern (14 bp):
TTTTGTATTTTTTA
Found at i:11909 original size:17 final size:17
Alignment explanation
Indices: 11887--11919 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11877 TTTAAATAAA
11887 TAAATAAATTTCTCAAT
1 TAAATAAATTTCTCAAT
*
11904 TAAATAATTTTCTCAA
1 TAAATAAATTTCTCAA
11920 CCTAATTCTA
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:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATAAATTTCTCAAT
Found at i:14073 original size:22 final size:21
Alignment explanation
Indices: 14039--14083 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
14029 GTCCATTAGG
14039 TTAGTTAAGTTAATAAATTTAA
1 TTAGTTAAGTTAAT-AATTTAA
*
14061 TTAGTTTAA-TTAATATTTTAA
1 TTAG-TTAAGTTAATAATTTAA
14082 TT
1 TT
14084 TGAATTAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (21 bp):
TTAGTTAAGTTAATAATTTAA
Found at i:15738 original size:24 final size:22
Alignment explanation
Indices: 15710--15779 Score: 81
Period size: 24 Copynumber: 3.1 Consensus size: 22
15700 TTTTTAATAA
15710 TTTTAAAATTTTAATCTTAAAT
1 TTTTAAAATTTTAATCTTAAAT
* *
15732 TACTTTAATATTTTAA-CGATAAAT
1 T--TTTAAAATTTTAATC-TTAAAT
15756 TTTTAAAATTTTAATCTT-AAT
1 TTTTAAAATTTTAATCTTAAAT
15777 TTT
1 TTT
15780 AGAATCTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 6 0.15
22 14 0.35
23 2 0.05
24 18 0.45
ACGTcount: A:0.39, C:0.06, G:0.01, T:0.54
Consensus pattern (22 bp):
TTTTAAAATTTTAATCTTAAAT
Found at i:16163 original size:25 final size:25
Alignment explanation
Indices: 16104--16163 Score: 59
Period size: 26 Copynumber: 2.4 Consensus size: 25
16094 ATTTATTTTA
**
16104 AACATAAAACTTTTTAATTTAATGG
1 AACATAAAACTTTTTAAAATAATGG
* *
16129 AAAATAAAAACTTTTTAAAAATAAT-T
1 AACAT-AAAACTTTTT-AAAATAATGG
16155 AACATAAAA
1 AACATAAAA
16164 AATACACTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
25 8 0.29
26 14 0.50
27 6 0.21
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (25 bp):
AACATAAAACTTTTTAAAATAATGG
Found at i:29512 original size:14 final size:14
Alignment explanation
Indices: 29489--29528 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
29479 AAAATATTCA
29489 AAAATAAAAAAAAT
1 AAAATAAAAAAAAT
*
29503 AAAATTAAAAAAAT
1 AAAATAAAAAAAAT
*
29517 ATATATAAAAAA
1 A-AAATAAAAAA
29529 TAGCATGAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
14 14 0.64
15 8 0.36
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAAAAAAAT
Found at i:37574 original size:28 final size:30
Alignment explanation
Indices: 37534--37595 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
37524 ACGGGGTCGA
* *
37534 AAAATAAAGTTTTAG-AGTATTT-GGGGTT
1 AAAATAAAGTTTTAGAAGAATTTAAGGGTT
37562 AAAATATAA-TTTTAGAAGAATTTAAGGGTT
1 AAAATA-AAGTTTTAGAAGAATTTAAGGGTT
37592 AAAA
1 AAAA
37596 GGTAATCTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
28 12 0.41
29 8 0.28
30 9 0.31
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (30 bp):
AAAATAAAGTTTTAGAAGAATTTAAGGGTT
Found at i:37624 original size:29 final size:29
Alignment explanation
Indices: 37587--37682 Score: 117
Period size: 28 Copynumber: 3.3 Consensus size: 29
37577 AAGAATTTAA
* *
37587 GGGTTAAAAGGTAATCTTATGAAAGTTTG
1 GGGTTAAAAGGTGATTTTATGAAAGTTTG
37616 GGGTTAAAATGG-GATTTTAT-AAAGTTTG
1 GGGTTAAAA-GGTGATTTTATGAAAGTTTG
*
37644 GGGTTAAAAAGTGATTTTA-GAAAAGTTTGG
1 GGGTTAAAAGGTGATTTTATG-AAAGTTT-G
37674 GGGTTAAAA
1 GGGTTAAAA
37683 TGCAATTTTG
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
27 1 0.02
28 24 0.41
29 22 0.37
30 12 0.20
ACGTcount: A:0.35, C:0.01, G:0.29, T:0.34
Consensus pattern (29 bp):
GGGTTAAAAGGTGATTTTATGAAAGTTTG
Found at i:37679 original size:30 final size:29
Alignment explanation
Indices: 37553--37702 Score: 128
Period size: 30 Copynumber: 5.1 Consensus size: 29
37543 TTTTAGAGTA
37553 TTTGGGGTTAAAATA-TAATTTTAGAAGAA-
1 TTTGGGGTTAAAA-AGTAATTTTAGAA-AAG
* * *
37582 TTTAAGGGTTAAAAGGTAATCTTATG-AAAG
1 TTT-GGGGTTAAAAAGTAATTTTA-GAAAAG
* ** *
37612 TTTGGGGTTAAAATGGGATTTTA-TAAAG
1 TTTGGGGTTAAAAAGTAATTTTAGAAAAG
*
37640 TTTGGGGTTAAAAAGTGATTTTAGAAAAG
1 TTTGGGGTTAAAAAGTAATTTTAGAAAAG
* * *
37669 TTTGGGGGTTAAAATGCAATTTTGGAAAAG
1 TTT-GGGGTTAAAAAGTAATTTTAGAAAAG
37699 TTTG
1 TTTG
37703 AAGGTCAAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
28 25 0.25
29 28 0.28
30 45 0.45
31 1 0.01
ACGTcount: A:0.36, C:0.01, G:0.26, T:0.37
Consensus pattern (29 bp):
TTTGGGGTTAAAAAGTAATTTTAGAAAAG
Found at i:37713 original size:30 final size:29
Alignment explanation
Indices: 37657--37832 Score: 140
Period size: 30 Copynumber: 5.9 Consensus size: 29
37647 TTAAAAAGTG
* ** *
37657 ATTTTAGAAAAGTTTGGGGGTTAAAATGCA
1 ATTTTGGAAAAGTTTGAAGGTCAAAATG-A
37687 ATTTTGGAAAAGTTTGAAGGTCAAAATGA
1 ATTTTGGAAAAGTTTGAAGGTCAAAATGA
* * *
37716 TATTTTGGAAAAGTTTG-AGTATGAAAATGTG
1 -ATTTTGGAAAAGTTTGAAG-GTCAAAATG-A
* *
37747 ATTTTGGAAAGGTTT-AGGGTCAAAATGA
1 ATTTTGGAAAAGTTTGAAGGTCAAAATGA
** ** *
37775 TATTTTGGAAAAGTTTGTGGGAGAAAATGTG
1 -ATTTTGGAAAAGTTTGAAGGTCAAAATG-A
* *
37806 ATTTTGGAAAGGTTTTAAGGTCAAAAT
1 ATTTTGGAAAAGTTTGAAGGTCAAAAT
37833 ATAGTTTTTT
Statistics
Matches: 116, Mismatches: 23, Indels: 14
0.76 0.15 0.09
Matches are distributed among these distances:
29 24 0.21
30 92 0.79
ACGTcount: A:0.36, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
ATTTTGGAAAAGTTTGAAGGTCAAAATGA
Found at i:37789 original size:59 final size:59
Alignment explanation
Indices: 37687--37840 Score: 222
Period size: 59 Copynumber: 2.6 Consensus size: 59
37677 TTAAAATGCA
* *
37687 ATTTTGGAAAAGTTTGAAGGTCAAAATGATATTTTGGAAAAGTTTG-AGTATGAAAATGTG
1 ATTTTGGAAAGGTTT-AAGGTCAAAATGATATTTTGGAAAAGTTTGTAGGA-GAAAATGTG
* *
37747 ATTTTGGAAAGGTTTAGGGTCAAAATGATATTTTGGAAAAGTTTGTGGGAGAAAATGTG
1 ATTTTGGAAAGGTTTAAGGTCAAAATGATATTTTGGAAAAGTTTGTAGGAGAAAATGTG
37806 ATTTTGGAAAGGTTTTAAGGTCAAAAT-ATAGTTTT
1 ATTTTGGAAAGG-TTTAAGGTCAAAATGATA-TTTT
37841 TTAAATAAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
59 53 0.62
60 33 0.38
ACGTcount: A:0.36, C:0.02, G:0.26, T:0.36
Consensus pattern (59 bp):
ATTTTGGAAAGGTTTAAGGTCAAAATGATATTTTGGAAAAGTTTGTAGGAGAAAATGTG
Found at i:37802 original size:89 final size:90
Alignment explanation
Indices: 37649--37820 Score: 215
Period size: 89 Copynumber: 1.9 Consensus size: 90
37639 GTTTGGGGTT
* * *
37649 AAAAAGTGATTTTAGAAAAGTTTGGGGGTTAAAATGCAATTTTGGAAAAGTTTGAAGGTCAAAAT
1 AAAAAGTGATTTTAGAAAAGTTTGAGGGTCAAAATGCAATTTTGGAAAAGTTTGAAGGACAAAAT
37714 GAT-ATTTTGGAAAAGTTTGAGTATG
66 G-TGATTTTGGAAAAGTTTGAGTATG
* * * ** *
37739 AAAATGTGATTTTGGAAAGGTTT-AGGGTCAAAATG-ATATTTTGGAAAAGTTTGTGGGAGAAAA
1 AAAAAGTGATTTTAGAAAAGTTTGAGGGTCAAAATGCA-ATTTTGGAAAAGTTTGAAGGACAAAA
*
37802 TGTGATTTTGGAAAGGTTT
65 TGTGATTTTGGAAAAGTTT
37821 TAAGGTCAAA
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
88 2 0.03
89 48 0.69
90 20 0.29
ACGTcount: A:0.37, C:0.02, G:0.27, T:0.34
Consensus pattern (90 bp):
AAAAAGTGATTTTAGAAAAGTTTGAGGGTCAAAATGCAATTTTGGAAAAGTTTGAAGGACAAAAT
GTGATTTTGGAAAAGTTTGAGTATG
Found at i:38520 original size:99 final size:98
Alignment explanation
Indices: 38383--38625 Score: 303
Period size: 99 Copynumber: 2.5 Consensus size: 98
38373 TAAGGCATTA
* * * *
38383 GGTTCACCGTTGCGGCCTTAACCTTTCCCTTCATATCTTCATGGTAAT-GGGATTACCGTTACAG
1 GGTTCGCCGTTGC-GCCTCAACCTTTCCCTTCAAATCTTCATGGTAATCAGGATTACCGTTACAG
*
38447 CCTCAACCTTTCCCATCACATCTTCTAAGGTACCG
65 CCTCAACCTTTCCCATCAAATCTTC-AAGGTACCG
* * * * * *
38482 GGTTTGCCGTTGCAGCCTCAACCTTT-CCTTCTAAATCTTAATGG-AATCAGGTTTGCCGTTGCG
1 GGTTCGCCGTTGC-GCCTCAACCTTTCCCTTC-AAATCTTCATGGTAATCAGGATTACCGTTACA
* *
38545 GCCTCAATCTTTCCCATCAAATCTTCATGGTACCG
64 GCCTCAACCTTTCCCATCAAATCTTCAAGGTACCG
38580 GGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCATGGTA
1 GGTTCGCCGTTGCG-CCTCAACCTTTCCCTTCAAATCTTCATGGTA
38626 CCTCATTTGG
Statistics
Matches: 123, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
97 1 0.01
98 50 0.41
99 72 0.59
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.33
Consensus pattern (98 bp):
GGTTCGCCGTTGCGCCTCAACCTTTCCCTTCAAATCTTCATGGTAATCAGGATTACCGTTACAGC
CTCAACCTTTCCCATCAAATCTTCAAGGTACCG
Found at i:38601 original size:148 final size:147
Alignment explanation
Indices: 38173--38627 Score: 427
Period size: 148 Copynumber: 3.1 Consensus size: 147
38163 CCCGTCATGA
** * * ** * * **
38173 TTCTAAGGTACTAGGTTCGTCTTTGCAAACTCAACCTTTTCCTTCAACTCTTCATGGTGTCAGGT
1 TTCTAAGGTACCGGGTTCGCCGTTGCAGCCTCAACC-TTTCCTTCAAATCTTAATGGAATCAGGT
* * * * * * * * *
38238 TCGCCGTTGCAGCCTCAACCTTGCCCATCACAT-TTCGTGGAACTAGATTCGTCATTACGACCTC
65 TCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACTGGGTTCGCCGTTACGACCTC
*
38302 AATCC-TCCCCATCACATC
130 AA-CCTTTCCCATCACATC
* * * * * * *
38320 TTCTAAGGTATCGGGTTCGCCGTTGCGGCCTCAATCTTTCCGTTCACAGTTTCTAA-GGCATTAG
1 TTCTAAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCC-TTCA-AATCT-TAATGGAATCAG
* * * * * *
38384 GTTCACCGTTGCGGCCTTAACCTTTCCCTTCATATCTTCATGGTAATGGGATT-ACCGTTAC-AG
63 GTTCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACTGGG-TTCGCCGTTACGA-
38447 CCTCAACCTTTCCCATCACATC
126 CCTCAACCTTTCCCATCACATC
*
38469 TTCTAAGGTACCGGGTTTGCCGTTGCAGCCTCAACCTTTCCTTCTAAATCTTAATGGAATCAGGT
1 TTCTAAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCCTTC-AAATCTTAATGGAATCAGGT
* * * *
38534 TTGCCGTTGCGGCCTCAATCTTTCCCATCAAATCTTCATGGTACCGGGTTCGCCGTTGCGACCTC
65 TCGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACTGGGTTCGCCGTTACGACCTC
* *
38599 AACCTTTCCCTTCAAATC
130 AACCTTTCCCATCACATC
*
38617 TTC-ATGGTACC
1 TTCTAAGGTACC
38628 TCATTTGGCG
Statistics
Matches: 246, Mismatches: 51, Indels: 22
0.77 0.16 0.07
Matches are distributed among these distances:
146 5 0.02
147 43 0.17
148 123 0.50
149 73 0.30
150 2 0.01
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.33
Consensus pattern (147 bp):
TTCTAAGGTACCGGGTTCGCCGTTGCAGCCTCAACCTTTCCTTCAAATCTTAATGGAATCAGGTT
CGCCGTTGCGGCCTCAACCTTTCCCATCAAATCTTCATGGTACTGGGTTCGCCGTTACGACCTCA
ACCTTTCCCATCACATC
Found at i:38626 original size:49 final size:49
Alignment explanation
Indices: 38179--38627 Score: 257
Period size: 49 Copynumber: 9.1 Consensus size: 49
38169 ATGATTCTAA
* * * * * * *
38179 GGTACTAGGTTCGTCTTTGCAAACTCAACCTTTTCCTTCAACTCTTCAT
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCAT
** * * * *
38228 GGTGTCAGGTTCGCCGTTGC-AGCCTCAACCTTGCCCATCACAT-TTCGT
1 GGTACCAGGTTCGCCGTTGCGA-CCTCAACCTTTCCCTTCAAATCTTCAT
* * * * * * * * * *
38276 GGAACTAGATTCGTCATTACGACCTCAATCC-TCCCCATCACATCTTCTAA
1 GGTACCAGGTTCGCCGTTGCGACCTCAA-CCTTTCCCTTCAAATCTTC-AT
* * * * * * *
38326 GGTATCGGGTTCGCCGTTGCGGCCTCAATCTTTCCGTTCACAGT-TTCTAA
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCA-AATCTTC-AT
* ** * * * *
38376 GGCATTAGGTTCACCGTTGCGGCCTTAACCTTTCCCTTCATATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCAT
*** * * * * *
38425 GGTAATGGGATT-ACCGTTAC-AGCCTCAACCTTTCCCATCACATCTTCTAA
1 GGTACCAGG-TTCGCCGTTGCGA-CCTCAACCTTTCCCTTCAAATCTTC-AT
* * *
38475 GGTACCGGGTTTGCCGTTGC-AGCCTCAACCTTT-CCTTCTAAATCTTAAT
1 GGTACCAGGTTCGCCGTTGCGA-CCTCAACCTTTCCCTTC-AAATCTTCAT
* * * * * *
38524 GGAATCAGGTTTGCCGTTGCGGCCTCAATCTTTCCCATCAAATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCAT
*
38573 GGTACCGGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCAT
1 GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCAT
38622 GGTACC
1 GGTACC
38628 TCATTTGGCG
Statistics
Matches: 306, Mismatches: 79, Indels: 30
0.74 0.19 0.07
Matches are distributed among these distances:
48 34 0.11
49 165 0.54
50 106 0.35
51 1 0.00
ACGTcount: A:0.19, C:0.31, G:0.17, T:0.33
Consensus pattern (49 bp):
GGTACCAGGTTCGCCGTTGCGACCTCAACCTTTCCCTTCAAATCTTCAT
Found at i:39543 original size:16 final size:14
Alignment explanation
Indices: 39522--39601 Score: 81
Period size: 16 Copynumber: 5.2 Consensus size: 14
39512 TCGACCTCTC
39522 TTTTTCTTTTTCCTGT
1 TTTTTCTTTTT-CT-T
39538 TTTTTCTATTTTCTT
1 TTTTTCT-TTTTCTT
39553 TTTCTTC-TTTTCTT
1 TTT-TTCTTTTTCTT
39567 TTTTTCTTCTTTTCTT
1 TTTTTC-T-TTTTCTT
39583 TTTTTCCTTTTTCCTT
1 TTTTT-CTTTTT-CTT
39599 TTT
1 TTT
39602 CATTTCATTT
Statistics
Matches: 57, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
13 3 0.05
14 10 0.18
15 8 0.14
16 31 0.54
17 5 0.09
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTTCTT
Found at i:39549 original size:8 final size:7
Alignment explanation
Indices: 39522--39636 Score: 72
Period size: 7 Copynumber: 15.1 Consensus size: 7
39512 TCGACCTCTC
39522 TTTTTCT
1 TTTTTCT
*
39529 TTTTCCTGT
1 TTTT--TCT
39538 TTTTTCT
1 TTTTTCT
*
39545 ATTTTC-
1 TTTTTCT
39551 TTTTTCT
1 TTTTTCT
39558 TCTTTTCTT
1 T-TTTTC-T
39567 TTTTTCT
1 TTTTTCT
39574 TCTTTTCTT
1 T-TTTTC-T
*
39583 TTTTTCC
1 TTTTTCT
*
39590 TTTTTCC
1 TTTTTCT
39597 TTTTTCAT
1 TTTTTC-T
39605 TTCATTTCT
1 TT--TTTCT
39614 TTCTTT-T
1 TT-TTTCT
*
39621 TTATTTAT
1 TT-TTTCT
39629 TTTTTCT
1 TTTTTCT
39636 T
1 T
39637 CATTGAATCC
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
6 5 0.06
7 38 0.43
8 28 0.32
9 13 0.15
10 4 0.05
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.77
Consensus pattern (7 bp):
TTTTTCT
Found at i:39553 original size:29 final size:30
Alignment explanation
Indices: 39520--39585 Score: 91
Period size: 29 Copynumber: 2.2 Consensus size: 30
39510 CCTCGACCTC
39520 TCTTTTTCTT-TTTCCTGTTTTTTC-TATTT
1 TCTTTTTCTTCTTTCCT-TTTTTTCTTATTT
* *
39549 TCTTTTTCTTCTTTTCTTTTTTTCTTCTTT
1 TCTTTTTCTTCTTTCCTTTTTTTCTTATTT
39579 TCTTTTT
1 TCTTTTT
39586 TTCCTTTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 17 0.52
30 16 0.48
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (30 bp):
TCTTTTTCTTCTTTCCTTTTTTTCTTATTT
Found at i:39621 original size:20 final size:18
Alignment explanation
Indices: 39590--39636 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 18
39580 CTTTTTTTCC
*
39590 TTTTTCCTTTTTCATTTCA
1 TTTTTTCTTTTTCATTT-A
*
39609 TTTCTTTCTTTTTTATTTA
1 TTT-TTTCTTTTTCATTTA
39628 TTTTTTCTT
1 TTTTTTCTT
39637 CATTGAATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 6 0.24
19 7 0.28
20 12 0.48
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTTTTCTTTTTCATTTA
Found at i:47990 original size:90 final size:89
Alignment explanation
Indices: 47890--48055 Score: 235
Period size: 90 Copynumber: 1.9 Consensus size: 89
47880 TTTTATGAAT
* ** *
47890 GTTTGGGGTTAAAATGGGATTTTGGAAAAGTTTAAAAGTTAAAATATGATTTTGGAGAA-GTTTA
1 GTTTGGGGTTAAAATGGAATTTTAAAAAAGTTTAAAAGTAAAAATATGATTTTGGA-AAGGTTTA
47954 GGGGTCAAAATACAATTTTGGAAAA
65 GGGGTCAAAATACAATTTTGGAAAA
** * *
47979 GTTTGAGGGTTAAAATGGAATTTTAAAAAAGTTTACGAGTAAAAATGTGATTTTGGAAAGGTTTG
1 GTTTG-GGGTTAAAATGGAATTTTAAAAAAGTTTAAAAGTAAAAATATGATTTTGGAAAGGTTTA
48044 GGGGTCAAAATA
65 GGGGTCAAAATA
48056 TAGTTTTTAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
89 7 0.10
90 60 0.90
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.33
Consensus pattern (89 bp):
GTTTGGGGTTAAAATGGAATTTTAAAAAAGTTTAAAAGTAAAAATATGATTTTGGAAAGGTTTAG
GGGTCAAAATACAATTTTGGAAAA
Found at i:48054 original size:30 final size:30
Alignment explanation
Indices: 47836--48054 Score: 135
Period size: 30 Copynumber: 7.3 Consensus size: 30
47826 TTCCTTTTGA
* *
47836 GGTTAAAACGTAATTTTGGAAGAA-TTTAGG
1 GGTTAAAATGTGATTTTGGAA-AAGTTTAGG
* * *
47866 GGTTAAAA-GATAATTTT-TATGAATGTTT-GG
1 GGTTAAAATG-TGATTTTGGA--AAAGTTTAGG
* **
47896 GGTTAAAATGGGATTTTGGAAAAGTTTAAA
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGG
* * *
47926 AGTTAAAATATGATTTTGGAGAAGTTTAGG
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGG
* ***
47956 GGTCAAAATACAATTTTGGAAAAGTTT-GAG
1 GGTTAAAATGTGATTTTGGAAAAGTTTAG-G
** *
47986 GGTTAAAATG-GAATTTTAAAAAAGTTTACG
1 GGTTAAAATGTG-ATTTTGGAAAAGTTTAGG
* * * *
48016 AGTAAAAATGTGATTTTGGAAAGGTTTGGG
1 GGTTAAAATGTGATTTTGGAAAAGTTTAGG
*
48046 GGTCAAAAT
1 GGTTAAAAT
48055 ATAGTTTTTA
Statistics
Matches: 144, Mismatches: 34, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
29 9 0.06
30 128 0.89
31 7 0.05
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.34
Consensus pattern (30 bp):
GGTTAAAATGTGATTTTGGAAAAGTTTAGG
Found at i:48426 original size:89 final size:89
Alignment explanation
Indices: 48275--48447 Score: 337
Period size: 89 Copynumber: 1.9 Consensus size: 89
48265 CAAAAACACA
*
48275 CGGATCTCCTTGCTAGATTGGAGAAGGTCGGATCGAGTTATCCAAAACGATGCCGTTTTGATGTG
1 CGGATCTCCTTGCTAGATTGGAGAAGGTCGGATCGAGTTATCCAAAACAATGCCGTTTTGATGTG
48340 TTTTGGCCACACCCAAAACGGCAT
66 TTTTGGCCACACCCAAAACGGCAT
48364 CGGATCTCCTTGCTAGATTGGAGAAGGTCGGATCGAGTTATCCAAAACAATGCCGTTTTGATGTG
1 CGGATCTCCTTGCTAGATTGGAGAAGGTCGGATCGAGTTATCCAAAACAATGCCGTTTTGATGTG
48429 TTTTGGCCACACCCAAAAC
66 TTTTGGCCACACCCAAAAC
48448 AATGCCGTTT
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
89 83 1.00
ACGTcount: A:0.25, C:0.23, G:0.25, T:0.27
Consensus pattern (89 bp):
CGGATCTCCTTGCTAGATTGGAGAAGGTCGGATCGAGTTATCCAAAACAATGCCGTTTTGATGTG
TTTTGGCCACACCCAAAACGGCAT
Found at i:53733 original size:71 final size:69
Alignment explanation
Indices: 53595--53818 Score: 243
Period size: 71 Copynumber: 3.2 Consensus size: 69
53585 ATTGTTACTA
** * * * * *
53595 CCGAAACTTCTCAAGTCAGTAGCCAAGTTATCTTTTCTCCTAAACATCTACCGATACTTCATTGA
1 CCGAAACAACTCAAGTCAGTAGCCAAGGTATCTTCTC-CCTAAACTTCTACCGGTACTT-ATAGA
53660 GTTGTT
64 GTTGTT
** * * *
53666 CCG-TTCTAACTCAAATCAGTAGCCATGGTATCTTCTCCCTACAACTTCTACCGGTACATTGTAG
1 CCGAAAC-AACTCAAGTCAGTAGCCAAGGTATCTTCTCCCTA-AACTTCTACCGGTAC-TTATAG
53730 AGTTGTT
63 AGTTGTT
* * *
53737 CCGAAACAACTCAAGTCAATAGCCAAGGTATATTCTCCCCTAAACTTCTACCGGTACTTTCTAGA
1 CCGAAACAACTCAAGTCAGTAGCCAAGGTATCTTCT-CCCTAAACTTCTACCGGTAC-TTATAGA
53802 GTTGTT
64 GTTGTT
53808 CCGAAACAACT
1 CCGAAACAACT
53819 TAAGGTAGTA
Statistics
Matches: 128, Mismatches: 20, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
70 5 0.04
71 115 0.90
72 8 0.06
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (69 bp):
CCGAAACAACTCAAGTCAGTAGCCAAGGTATCTTCTCCCTAAACTTCTACCGGTACTTATAGAGT
TGTT
Found at i:55115 original size:20 final size:21
Alignment explanation
Indices: 55090--55129 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
55080 TTTATTCACT
55090 TAATAT-CAC-AACTTTCTACC
1 TAATATCCACTAA-TTTCTACC
55110 TAATATCCACTAATTTCTAC
1 TAATATCCACTAATTTCTAC
55130 TTATTCTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 10 0.56
22 2 0.11
ACGTcount: A:0.35, C:0.28, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATATCCACTAATTTCTACC
Found at i:60519 original size:15 final size:15
Alignment explanation
Indices: 60492--60529 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
60482 ATTTTAAAAT
60492 ATTATAAAAATATAA
1 ATTATAAAAATATAA
60507 ATTA-AAAATATATAA
1 ATTATAAAA-ATATAA
60522 ATTCATAA
1 ATT-ATAA
60530 TTTAATATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 4 0.20
15 13 0.65
16 1 0.05
17 2 0.10
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATTATAAAAATATAA
Found at i:85492 original size:24 final size:25
Alignment explanation
Indices: 85444--85498 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
85434 TGTCTGCAAT
85444 TTTTTTCTTTCTATCTACAAGTTTTC
1 TTTTTTCTTTC-ATCTACAAGTTTTC
* *
85470 TTTTTTCTTTC-TCTGCAATTTTTC
1 TTTTTTCTTTCATCTACAAGTTTTC
85494 TTTTT
1 TTTTT
85499 CTTACTGTCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 16 0.59
26 11 0.41
ACGTcount: A:0.11, C:0.18, G:0.04, T:0.67
Consensus pattern (25 bp):
TTTTTTCTTTCATCTACAAGTTTTC
Found at i:85672 original size:77 final size:78
Alignment explanation
Indices: 85561--85716 Score: 217
Period size: 77 Copynumber: 2.0 Consensus size: 78
85551 TCATAAAACG
* *
85561 TAAACAATAAGTAACTTATTATAAGTT-AAAAAAAACTAAAAAATTTTAACTGAAAAAATAGTTT
1 TAAACAATAAATAACTTATTATAAGTTAAAAAAAAACTAAAAAATTTTAACTGAAAAAATA-ATT
85625 TTTTTTGGGC-CCC
65 TTTTTTGGGCACCC
** * * * *
85638 TAAACAATAAATAACTTATTATAAGTTTCAAAAAAAGTGAAAATTTTTAATTGAAAAAATAATTT
1 TAAACAATAAATAACTTATTATAAGTTAAAAAAAAACTAAAAAATTTTAACTGAAAAAATAATTT
85703 TTTTTGGGCACCC
66 TTTTTGGGCACCC
85716 T
1 T
85717 TTTAATGTTA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
77 38 0.54
78 32 0.46
ACGTcount: A:0.46, C:0.10, G:0.09, T:0.35
Consensus pattern (78 bp):
TAAACAATAAATAACTTATTATAAGTTAAAAAAAAACTAAAAAATTTTAACTGAAAAAATAATTT
TTTTTGGGCACCC
Found at i:86077 original size:18 final size:19
Alignment explanation
Indices: 86044--86079 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
86034 TTTTGTTTTG
*
86044 TCTGCAATTTTTTTCTTTC
1 TCTGCAATTCTTTTCTTTC
86063 TCTGC-ATTCTTTTCTTT
1 TCTGCAATTCTTTTCTTT
86080 TTCTTTCTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.08, C:0.22, G:0.06, T:0.64
Consensus pattern (19 bp):
TCTGCAATTCTTTTCTTTC
Found at i:86276 original size:76 final size:76
Alignment explanation
Indices: 86144--86288 Score: 247
Period size: 76 Copynumber: 1.9 Consensus size: 76
86134 TCATAAAACG
*
86144 TAAACAATAAGTAACTTATTATAAGTTAAAAAAACTGAAAAATTTTAACTGAAAAAAATAGTTTT
1 TAAACAATAAGTAACTTATTATAAGTTAAAAAAACTGAAAAATTTTAACTGAAAAAAATAATTTT
86209 TTTTTTAGTCC
66 TTTTTTAGTCC
* *
86220 TAAACAATAAGTAACTTATTATAAGTTTAAAAAAAGTGAAAAATTTTAATTG-AAAAAATAATTT
1 TAAACAATAAGTAACTTATTATAAG-TTAAAAAAACTGAAAAATTTTAACTGAAAAAAATAATTT
86284 TTTTT
65 TTTTT
86289 GGGCACCCTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
76 41 0.63
77 24 0.37
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.38
Consensus pattern (76 bp):
TAAACAATAAGTAACTTATTATAAGTTAAAAAAACTGAAAAATTTTAACTGAAAAAAATAATTTT
TTTTTTAGTCC
Found at i:86649 original size:19 final size:21
Alignment explanation
Indices: 86627--86678 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
86617 TTTCTTTTTG
86627 TTTTTATTT-TGTCTGCAA-T
1 TTTTTATTTCTGTCTGCAAGT
*
86646 TTTTTCTTTCTGTCTGCAAGT
1 TTTTTATTTCTGTCTGCAAGT
*
86667 TTTCTTTTTTCT
1 TTT-TTATTTCT
86679 TTCTCTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 4 0.14
22 7 0.25
ACGTcount: A:0.10, C:0.15, G:0.10, T:0.65
Consensus pattern (21 bp):
TTTTTATTTCTGTCTGCAAGT
Found at i:86659 original size:20 final size:18
Alignment explanation
Indices: 86627--86674 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
86617 TTTCTTTTTG
*
86627 TTTTTATTTTGTCTGCAA
1 TTTTTCTTTTGTCTGCAA
86645 TTTTTTCTTTCTGTCTGCAA
1 -TTTTTCTTT-TGTCTGCAA
*
86665 GTTTTCTTTT
1 TTTTTCTTTT
86675 TTCTTTCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.04
19 16 0.62
20 9 0.35
ACGTcount: A:0.10, C:0.15, G:0.10, T:0.65
Consensus pattern (18 bp):
TTTTTCTTTTGTCTGCAA
Found at i:91073 original size:23 final size:23
Alignment explanation
Indices: 91035--91079 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
91025 TGGTTTGGTC
* *
91035 AAATAAATTATTAAAAATTTATA
1 AAATAAAATATAAAAAATTTATA
91058 AAATAAAATATAAAAAATTTAT
1 AAATAAAATATAAAAAATTTAT
91080 TTGACTGATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAAAATATAAAAAATTTATA
Found at i:95788 original size:23 final size:23
Alignment explanation
Indices: 95747--95790 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
95737 AATATTCGTA
*
95747 AATATGTTCGATCAAATTAAATG
1 AATATGTTCGATAAAATTAAATG
95770 AATATGTTCG-TAAACATTAAA
1 AATATGTTCGATAAA-ATTAAA
95791 CAAACGAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (23 bp):
AATATGTTCGATAAAATTAAATG
Found at i:95826 original size:30 final size:27
Alignment explanation
Indices: 95786--95848 Score: 81
Period size: 30 Copynumber: 2.2 Consensus size: 27
95776 TTCGTAAACA
*
95786 TTAAACAAACGAATATGAACACACATAATT
1 TTAAATAAACGAATATGAACA-A-A-AATT
*
95816 TTAAATAAACGACTATGAACAAAAATT
1 TTAAATAAACGAATATGAACAAAAATT
95843 TTAAAT
1 TTAAAT
95849 TCTTAACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
27 10 0.32
28 1 0.03
29 1 0.03
30 19 0.61
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (27 bp):
TTAAATAAACGAATATGAACAAAAATT
Found at i:102001 original size:13 final size:13
Alignment explanation
Indices: 101983--102007 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101973 AAGAGCATCC
101983 ATATATATATATT
1 ATATATATATATT
101996 ATATATATATAT
1 ATATATATATAT
102008 ATACATTATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
ATATATATATATT
Found at i:102091 original size:56 final size:54
Alignment explanation
Indices: 102029--102138 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
102019 GGTGTCGGTT
* * * *
102029 ATCAGTGTCCTAACATTAAAAAAATATTTTTTTAATCTAGAAAAAGGGTGTTGACC
1 ATCAGTGTCCCAACA--AAAAAAATATTTTTTTAATCTAAAAAAAGAGTGTCGACC
*** *
102085 ATCAGTGTCCCAACAACCCAAATTTTTTTTTAATCTAAAAAAAGAGTGTCGACC
1 ATCAGTGTCCCAACAAAAAAAATATTTTTTTAATCTAAAAAAAGAGTGTCGACC
102139 TTCAATATCT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
54 32 0.70
56 14 0.30
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (54 bp):
ATCAGTGTCCCAACAAAAAAAATATTTTTTTAATCTAAAAAAAGAGTGTCGACC
Found at i:102192 original size:54 final size:53
Alignment explanation
Indices: 102081--102257 Score: 135
Period size: 54 Copynumber: 3.3 Consensus size: 53
102071 AAAGGGTGTT
* * * * **
102081 GACCATCAGTGTCCCAACAACCCAAATTTTTTTTTAATCTA-AAAAAAGAGTGTC
1 GACCATCAATATCTCAAC-ACCC-AATTTTTTTTAAATCTATAAAAAAGAGTCCC
* * * *
102135 GACCTTCAATATCTCAATACTCTTAATTTTTTTTAAATCTATAAAAGAGA-TCCC
1 GACCATCAATATCTCAACAC-C-CAATTTTTTTTAAATCTATAAAAAAGAGTCCC
* * * * * *
102189 GACCATCATTATCTTAACACCCAAATTTTTTTAAATATATAAAAAGGA-TACC
1 GACCATCAATATCTCAACACCCAATTTTTTTTAAATCTATAAAAAAGAGTCCC
* *
102241 AACCATCAATGTCTCAA
1 GACCATCAATATCTCAA
102258 ATATATACCA
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
52 38 0.40
53 3 0.03
54 48 0.50
55 7 0.07
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (53 bp):
GACCATCAATATCTCAACACCCAATTTTTTTTAAATCTATAAAAAAGAGTCCC
Found at i:103045 original size:12 final size:12
Alignment explanation
Indices: 103030--103090 Score: 54
Period size: 12 Copynumber: 5.1 Consensus size: 12
103020 ATTTTGATGC
103030 TGTTTTTGTTGT
1 TGTTTTTGTTGT
103042 TGTTTTT-TATGT
1 TGTTTTTGT-TGT
* *
103054 TATTTTTGTTAT
1 TGTTTTTGTTGT
*
103066 AG-TTTTGATTGT
1 TGTTTTTG-TTGT
*
103078 TATTTTTGTTGT
1 TGTTTTTGTTGT
103090 T
1 T
103091 TGGGTGTTAT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
11 6 0.16
12 26 0.68
13 6 0.16
ACGTcount: A:0.10, C:0.00, G:0.18, T:0.72
Consensus pattern (12 bp):
TGTTTTTGTTGT
Found at i:103059 original size:24 final size:24
Alignment explanation
Indices: 103010--103090 Score: 76
Period size: 24 Copynumber: 3.4 Consensus size: 24
103000 TATATATTTA
* * * *
103010 TTTTGGTGTTATTTTGA-TGCTGT
1 TTTTGTTGTTGTTTTGATTGTTAT
*
103033 TTTTGTTGTTGTTTT-TTATGTTAT
1 TTTTGTTGTTGTTTTGAT-TGTTAT
* *
103057 TTTTGTTATAGTTTTGATTGTTAT
1 TTTTGTTGTTGTTTTGATTGTTAT
103081 TTTTGTTGTT
1 TTTTGTTGTT
103091 TGGGTGTTAT
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 13 0.29
24 31 0.69
25 1 0.02
ACGTcount: A:0.10, C:0.01, G:0.20, T:0.69
Consensus pattern (24 bp):
TTTTGTTGTTGTTTTGATTGTTAT
Found at i:103237 original size:10 final size:9
Alignment explanation
Indices: 103221--103259 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
103211 ATATAAAGAA
103221 TTTTTAATG
1 TTTTTAATG
*
103230 TATTTTAATT
1 T-TTTTAATG
103240 TTTTTAATG
1 TTTTTAATG
103249 TTTTTAA-G
1 TTTTTAATG
103257 TTT
1 TTT
103260 ATTAGATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
8 4 0.15
9 15 0.56
10 8 0.30
ACGTcount: A:0.23, C:0.00, G:0.08, T:0.69
Consensus pattern (9 bp):
TTTTTAATG
Found at i:106421 original size:22 final size:22
Alignment explanation
Indices: 106396--106447 Score: 86
Period size: 22 Copynumber: 2.4 Consensus size: 22
106386 AACACATGCT
106396 CGTGTCCTCACATCCACACGCC
1 CGTGTCCTCACATCCACACGCC
* *
106418 CGTGTCCCCACATTCACACGCC
1 CGTGTCCTCACATCCACACGCC
106440 CGTGTCCT
1 CGTGTCCT
106448 TGGCCATGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.15, C:0.48, G:0.15, T:0.21
Consensus pattern (22 bp):
CGTGTCCTCACATCCACACGCC
Found at i:107617 original size:49 final size:49
Alignment explanation
Indices: 107561--107659 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
107551 TGGTTATGTG
107561 TTATTGATTAAATTATAGTAAAGTTAAGCTAGGAATTAAATTGTTGGAT
1 TTATTGATTAAATTATAGTAAAGTTAAGCTAGGAATTAAATTGTTGGAT
107610 TTATTGATTAAATTATAGTAAAGTTAAGCTAGGAATTAAATTGTTGGAT
1 TTATTGATTAAATTATAGTAAAGTTAAGCTAGGAATTAAATTGTTGGAT
107659 T
1 T
107660 AGTAGAATTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.38, C:0.02, G:0.18, T:0.41
Consensus pattern (49 bp):
TTATTGATTAAATTATAGTAAAGTTAAGCTAGGAATTAAATTGTTGGAT
Found at i:111335 original size:108 final size:108
Alignment explanation
Indices: 111134--111328 Score: 250
Period size: 108 Copynumber: 1.8 Consensus size: 108
111124 TATTAATAGG
* ** *
111134 AGCCCAGCTCTAGTTGGATTAACAAACAATATTGCGCCCAGTGCTAGTCGGATAAATCGACGAAT
1 AGCCCAGCTCTAGTTGGATTAACAAACAATATTACGCCCAGCACTAGTCGGATAAACCGACGAAT
* * *
111199 TTATGCCCAGCACTAATTACATAAACTGACGAAGTAGATAGTA
66 ATATGCCCAGCACTAATCAAATAAACTGACGAAGTAGATAGTA
* *
111242 AGCCCAGCTCTAGTT-GATTAAACCAACGATATTTACGCCCAGCACTAGTCGGAT-AACCGACGA
1 AGCCCAGCTCTAGTTGGATT-AACAAACAATA-TTACGCCCAGCACTAGTCGGATAAACCGACGA
* * *
111305 ATATGTGCCTAGCACTAGTCAAAT
64 ATATATGCCCAGCACTAATCAAAT
111329 TCACTGATAA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
107 4 0.05
108 50 0.68
109 19 0.26
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (108 bp):
AGCCCAGCTCTAGTTGGATTAACAAACAATATTACGCCCAGCACTAGTCGGATAAACCGACGAAT
ATATGCCCAGCACTAATCAAATAAACTGACGAAGTAGATAGTA
Found at i:113873 original size:29 final size:29
Alignment explanation
Indices: 113834--113890 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
113824 TATAATTTTT
113834 AAAGGATTAAA-TCAAAATTTTTATTTTTAA
1 AAAGGATTAAAGT-AAAA-TTTTATTTTTAA
*
113864 AAAGG-TTAAAGTATAATTTTATTTTTA
1 AAAGGATTAAAGTAAAATTTTATTTTTA
113891 CTAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 11 0.44
29 8 0.32
30 6 0.24
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.46
Consensus pattern (29 bp):
AAAGGATTAAAGTAAAATTTTATTTTTAA
Found at i:118940 original size:16 final size:16
Alignment explanation
Indices: 118919--118949 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
118909 CAATAAAAAA
118919 TAAAATTAAAGTCCAT
1 TAAAATTAAAGTCCAT
*
118935 TAAAATTAAATTCCA
1 TAAAATTAAAGTCCA
118950 AATTACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.13, G:0.03, T:0.32
Consensus pattern (16 bp):
TAAAATTAAAGTCCAT
Found at i:120395 original size:7 final size:7
Alignment explanation
Indices: 120379--120413 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
120369 ATTTCCAGCA
120379 TTTTTA-
1 TTTTTAT
120385 TTTTTAT
1 TTTTTAT
120392 TTTTTAT
1 TTTTTAT
120399 TATTTTAT
1 T-TTTTAT
120407 TTTTTAT
1 TTTTTAT
120414 CCTTAATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 6 0.22
7 14 0.52
8 7 0.26
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:134811 original size:26 final size:26
Alignment explanation
Indices: 134768--134843 Score: 71
Period size: 26 Copynumber: 2.9 Consensus size: 26
134758 TCTCACCCCT
134768 ATTTTACCCTTAGCAAAAATTTGACG
1 ATTTTACCCTTAGCAAAAATTTGACG
* * * * *
134794 ATTTTACCTTTGGTAAAATTTTGATG
1 ATTTTACCCTTAGCAAAAATTTGACG
* * * *
134820 ATTTTGCCCCTAGTAAAATTTTGA
1 ATTTTACCCTTAGCAAAAATTTGA
134844 GAAAATATGT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (26 bp):
ATTTTACCCTTAGCAAAAATTTGACG
Found at i:135472 original size:16 final size:16
Alignment explanation
Indices: 135451--135485 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
135441 TCTTTTAAGA
135451 AAAGTCAACCACTATC
1 AAAGTCAACCACTATC
135467 AAAGTCAACCACTATC
1 AAAGTCAACCACTATC
135483 AAA
1 AAA
135486 TAGTGATCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.49, C:0.29, G:0.06, T:0.17
Consensus pattern (16 bp):
AAAGTCAACCACTATC
Found at i:139811 original size:25 final size:25
Alignment explanation
Indices: 139777--139834 Score: 100
Period size: 25 Copynumber: 2.3 Consensus size: 25
139767 AGATGATGAA
139777 GATATTCTATCT-AGCTCGTAAGAGC
1 GATATTCTATCTGA-CTCGTAAGAGC
139802 GATATTCTATCTGACTCGTAAGAGC
1 GATATTCTATCTGACTCGTAAGAGC
139827 GATATTCT
1 GATATTCT
139835 TTTTGGCTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (25 bp):
GATATTCTATCTGACTCGTAAGAGC
Found at i:139844 original size:25 final size:25
Alignment explanation
Indices: 139790--139876 Score: 86
Period size: 25 Copynumber: 3.5 Consensus size: 25
139780 ATTCTATCTA
* *
139790 GCTCGTAAGAGCGATATTCTATCTG
1 GCTCGTAAGAGCGATATTCTTTTTG
*
139815 ACTCGTAAGAGCGATATTCTTTTTG
1 GCTCGTAAGAGCGATATTCTTTTTG
* * * *
139840 GCTCGTTAGA-AGATACTCTGTTTGG
1 GCTCGTAAGAGCGATATTCT-TTTTG
*
139865 GCTTGTAAGAGC
1 GCTCGTAAGAGC
139877 TAAACTTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
24 7 0.14
25 42 0.86
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (25 bp):
GCTCGTAAGAGCGATATTCTTTTTG
Found at i:143175 original size:2 final size:2
Alignment explanation
Indices: 143168--143216 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
143158 TTGTATAATA
143168 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
143210 AC AC AC A
1 AC AC AC A
143217 TATAAATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:143868 original size:17 final size:17
Alignment explanation
Indices: 143801--143868 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 17
143791 CATTAATTTA
143801 CAATGACACATGGAAATG
1 CAATGACA-ATGGAAATG
* *
143819 CAATGACAATGCATATG
1 CAATGACAATGGAAATG
* **
143836 CAGTGACAATTAAAATG
1 CAATGACAATGGAAATG
*
143853 CAATGACAAAGGAAAT
1 CAATGACAATGGAAAT
143869 ATGGTGATAA
Statistics
Matches: 40, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
17 32 0.80
18 8 0.20
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (17 bp):
CAATGACAATGGAAATG
Found at i:164296 original size:10 final size:10
Alignment explanation
Indices: 164281--164306 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
164271 ACTTGAAATG
164281 CTCCCTTACT
1 CTCCCTTACT
164291 CTCCCTTACT
1 CTCCCTTACT
164301 CTCCCT
1 CTCCCT
164307 CTTGTGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.08, C:0.54, G:0.00, T:0.38
Consensus pattern (10 bp):
CTCCCTTACT
Found at i:164846 original size:13 final size:13
Alignment explanation
Indices: 164828--164852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
164818 TAAGTTAAAA
164828 ATGCTAAAAATGC
1 ATGCTAAAAATGC
164841 ATGCTAAAAATG
1 ATGCTAAAAATG
164853 ATAAAATGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ATGCTAAAAATGC
Found at i:175989 original size:25 final size:25
Alignment explanation
Indices: 175952--176022 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 25
175942 AGACAATGAA
175952 GATATTCTATTTGGCTCGTAAGAGT
1 GATATTCTATTTGGCTCGTAAGAGT
* *
175977 GATATTCTGTTTGGCTCGTAAGA-A
1 GATATTCTATTTGGCTCGTAAGAGT
176001 GAT-TCTCTATTTAGGCTCGTAA
1 GATAT-TCTATTT-GGCTCGTAA
176023 CAGCTAAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
23 1 0.02
24 9 0.22
25 31 0.76
ACGTcount: A:0.24, C:0.14, G:0.23, T:0.39
Consensus pattern (25 bp):
GATATTCTATTTGGCTCGTAAGAGT
Found at i:179929 original size:25 final size:25
Alignment explanation
Indices: 179890--179955 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
179880 AAGAGTTTAA
*
179890 CTCTTACGACCCTAGACAGAATATCG
1 CTCTTACGA-GCTAGACAGAATATCG
*
179916 CTCTTACGAGCTAGACAGAATATTG
1 CTCTTACGAGCTAGACAGAATATCG
*
179941 TTCTTACGAGCTAGA
1 CTCTTACGAGCTAGA
179956 GTTCAGATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
25 28 0.76
26 9 0.24
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.27
Consensus pattern (25 bp):
CTCTTACGAGCTAGACAGAATATCG
Found at i:184427 original size:19 final size:19
Alignment explanation
Indices: 184403--184441 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
184393 TATTATCTCC
184403 TCTGTTTCCACCCACATTT
1 TCTGTTTCCACCCACATTT
184422 TCTGTTTCCACCCACATTT
1 TCTGTTTCCACCCACATTT
184441 T
1 T
184442 ACTCTGTCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.36, G:0.05, T:0.44
Consensus pattern (19 bp):
TCTGTTTCCACCCACATTT
Found at i:184629 original size:57 final size:57
Alignment explanation
Indices: 184537--184645 Score: 200
Period size: 57 Copynumber: 1.9 Consensus size: 57
184527 TTTTGAACCA
*
184537 GGTGATCAGTTGCTCCATCCCTATAACACGCTCCCTTTTTAAACCAAGATTCATCTT
1 GGTGATCAGTTGCTCCATCCCTATAACACGCTCCCTTTTTAAACCAACATTCATCTT
*
184594 GGTGATCAGTTGCTCCATCCCTATAACACGTTCCCTTTTTAAACCAACATTC
1 GGTGATCAGTTGCTCCATCCCTATAACACGCTCCCTTTTTAAACCAACATTC
184646 CCCAAGATGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.25, C:0.30, G:0.12, T:0.33
Consensus pattern (57 bp):
GGTGATCAGTTGCTCCATCCCTATAACACGCTCCCTTTTTAAACCAACATTCATCTT
Found at i:186950 original size:26 final size:26
Alignment explanation
Indices: 186910--186988 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
186900 AGTCTTCCAA
**
186910 AATTTAGCTCATACGAGCCCAGACAG
1 AATTTAGCTTTTACGAGCCCAGACAG
* *
186936 AGTTTAGCTTTTACGAGCCTAGACAG
1 AATTTAGCTTTTACGAGCCCAGACAG
* *
186962 AATATCGCTTTTACGAG-CC-GACAG
1 AATTTAGCTTTTACGAGCCCAGACAG
186986 AAT
1 AAT
186989 ATCGCTCTTA
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
24 8 0.18
25 1 0.02
26 36 0.80
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (26 bp):
AATTTAGCTTTTACGAGCCCAGACAG
Found at i:186989 original size:24 final size:25
Alignment explanation
Indices: 186921--187001 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 25
186911 ATTTAGCTCA
* * *
186921 TACGAGCCCAGACAGAGTTTAGCTTT
1 TACGAG-CCAGACAGAATATCGCTTT
186947 TACGAGCCTAGACAGAATATCGCTTT
1 TACGAGCC-AGACAGAATATCGCTTT
*
186973 TACGAGCC-GACAGAATATCGCTCT
1 TACGAGCCAGACAGAATATCGCTTT
186997 TACGA
1 TACGA
187002 ACTATAGTTC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.40
25 2 0.04
26 28 0.56
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.25
Consensus pattern (25 bp):
TACGAGCCAGACAGAATATCGCTTT
Found at i:189473 original size:17 final size:17
Alignment explanation
Indices: 189453--189486 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
189443 CTCACTCGCT
*
189453 ATTTCAATAGCATTTTC
1 ATTTCAATAACATTTTC
189470 ATTTCAATAACATTTTC
1 ATTTCAATAACATTTTC
189487 CATATAAACT
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:0.32, C:0.18, G:0.03, T:0.47
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:205955 original size:33 final size:34
Alignment explanation
Indices: 205876--205972 Score: 117
Period size: 33 Copynumber: 2.9 Consensus size: 34
205866 ATCTTTTTCC
*
205876 CCATTTTTCCATCTAACACCCCTTT-TTCTTCTCAG
1 CCATTTTTCCATCTAACA-CCATTTCTTC-TCTCAG
** *
205911 TGATTTTTCCATCTAACAACATTTCTTCTCTCA-
1 CCATTTTTCCATCTAACACCATTTCTTCTCTCAG
*
205944 CCATTTTTCCATCTAACACCACTTCTTCT
1 CCATTTTTCCATCTAACACCATTTCTTCT
205973 TCTCGTCATC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
33 25 0.47
34 9 0.17
35 19 0.36
ACGTcount: A:0.21, C:0.34, G:0.02, T:0.43
Consensus pattern (34 bp):
CCATTTTTCCATCTAACACCATTTCTTCTCTCAG
Found at i:207120 original size:29 final size:29
Alignment explanation
Indices: 207076--207136 Score: 81
Period size: 29 Copynumber: 2.1 Consensus size: 29
207066 TCATTATGTC
*
207076 AAATTTTTTTATCAACTTTTAAGATAA-CT
1 AAATTTTTTTATCAACTTATAAGA-AACCT
207105 AAATTTTTTT-TCCAACTTATAAGAAACCT
1 AAATTTTTTTAT-CAACTTATAAGAAACCT
207134 AAA
1 AAA
207137 CTCTCATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.41, C:0.13, G:0.03, T:0.43
Consensus pattern (29 bp):
AAATTTTTTTATCAACTTATAAGAAACCT
Found at i:207939 original size:18 final size:18
Alignment explanation
Indices: 207916--207958 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
207906 CAATAGGTTT
207916 TTAATTAAATAAATTT-AA
1 TTAATTAAA-AAATTTAAA
* *
207934 TTAATTGAAAATTTTAAA
1 TTAATTAAAAAATTTAAA
207952 TTAATTA
1 TTAATTA
207959 TATTTTGAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATTAAAAAATTTAAA
Found at i:215100 original size:46 final size:46
Alignment explanation
Indices: 215047--215193 Score: 201
Period size: 46 Copynumber: 3.2 Consensus size: 46
215037 ATATGCAGAC
215047 ATATATATGTATACATAGACAT-ATATTATGATTTTATTCTTTATAT
1 ATATATATGTATA-ATAGACATAATATTATGATTTTATTCTTTATAT
* *
215093 ATATATATATAT-ATAAACATACATATTATGATTTTATTCTTTATAT
1 ATATATATGTATAATAGACATA-ATATTATGATTTTATTCTTTATAT
* * *
215139 ACATATATATATAAAAG-CATACATATTATGATTTTATTCTTTATAT
1 ATATATATGTATAATAGACATA-ATATTATGATTTTATTCTTTATAT
215185 ATATATATG
1 ATATATATG
215194 CAAACATACA
Statistics
Matches: 91, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
44 7 0.08
46 82 0.90
47 2 0.02
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (46 bp):
ATATATATGTATAATAGACATAATATTATGATTTTATTCTTTATAT
Found at i:221816 original size:34 final size:34
Alignment explanation
Indices: 221778--221854 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 34
221768 CCCAATCAAC
* * * *
221778 TTAAATTTATTTTAAAATTAAGTTTATTCTAAAT
1 TTAAATTTAGTTGAAAATTAAATTTATTATAAAT
* *
221812 TTAAATTTGGTTGAAATTTAAATTTATTATAAAT
1 TTAAATTTAGTTGAAAATTAAATTTATTATAAAT
221846 TTAAATTTA
1 TTAAATTTA
221855 AAATTTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (34 bp):
TTAAATTTAGTTGAAAATTAAATTTATTATAAAT
Found at i:221864 original size:17 final size:17
Alignment explanation
Indices: 221778--221854 Score: 84
Period size: 17 Copynumber: 4.5 Consensus size: 17
221768 CCCAATCAAC
* *
221778 TTAAATTTATTTTAAAA
1 TTAAATTTATTATAAAT
* *
221795 TTAAGTTTATTCTAAAT
1 TTAAATTTATTATAAAT
* *
221812 TTAAATTTGGTT-GAAAT
1 TTAAATTT-ATTATAAAT
221829 TTAAATTTATTATAAAT
1 TTAAATTTATTATAAAT
221846 TTAAATTTA
1 TTAAATTTA
221855 AAATTTATTT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
16 2 0.04
17 46 0.92
18 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.52
Consensus pattern (17 bp):
TTAAATTTATTATAAAT
Found at i:222547 original size:18 final size:19
Alignment explanation
Indices: 222524--222560 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
222514 TGAATGAGAT
222524 TTATTATT-ATTAAAAATA
1 TTATTATTAATTAAAAATA
222542 TTATTATTAATTAAAAATA
1 TTATTATTAATTAAAAATA
222561 AAAAAAACGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTATTATTAATTAAAAATA
Found at i:223815 original size:58 final size:59
Alignment explanation
Indices: 223682--224021 Score: 434
Period size: 59 Copynumber: 5.8 Consensus size: 59
223672 CCTCAGGCTA
*
223682 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCAAACCT
1 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAACCT
* * *
223741 TCCAAAAATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTCGACCCCGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAACCT
*** * * *
223800 TCC-AAAATTACCATTTTACCATTGAACTTCAAAAAATCTCATTTTTGACCCTAAACCT
1 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAACCT
* *
223858 TCCAAAAAATACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCAAACCT
1 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAACCT
* * * * ** **
223917 TCCAAAAACTACCATTTTACCCCCAAACTTTC-AAATTTTCATTTTTGACCCTGAACCT
1 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAACCT
* * *
223975 TTC-AAAATTACCATTTTACCCCCGAACCTTCCGAAAATTACCATTTT
1 TCCAAAAATTACCATTTTACCCCCGAA-CTTCC-AAAAATCCCATTTT
224022 ACCCTCGAAC
Statistics
Matches: 243, Mismatches: 34, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
57 21 0.09
58 77 0.32
59 134 0.55
60 11 0.05
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (59 bp):
TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCCCAAACCT
Found at i:223871 original size:117 final size:117
Alignment explanation
Indices: 223682--224021 Score: 443
Period size: 117 Copynumber: 2.9 Consensus size: 117
223672 CCTCAGGCTA
* * *
223682 TCCAAAAATTACCATTTTACCCCCGAACTTCCAAAAATCCCAATTTTGACCCCAAACCTTCCAAA
1 TCCAAAAATTACCATTTTACCCCCGAACTT-CAAAAATCTCATTTTTGACCCTAAACCTTCCAAA
* *
223747 AATTACCATTTTACCCTCGAACTTCCAAAAATCCCATTTTCGACCCCGAACCT
65 AATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCT
***
223800 TCC-AAAATTACCATTTTACCATTGAACTTCAAAAAATCTCATTTTTGACCCTAAACCTTCCAAA
1 TCCAAAAATTACCATTTTACCCCCGAACTTC-AAAAATCTCATTTTTGACCCTAAACCTTCCAAA
* * *
223864 AAATACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTTGACCTCAAACCT
65 AATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCT
* * * * * *
223917 TCCAAAAACTACCATTTTACCCCCAAACTTTC-AAATTTTCATTTTTGACCCTGAACCTTTC-AA
1 TCCAAAAATTACCATTTTACCCCCGAAC-TTCAAAAATCTCATTTTTGACCCTAAACCTTCCAAA
* *
223980 AATTACCATTTTACCCCCGAACCTTCCGAAAATTACCATTTT
65 AATTACCATTTTACCCCCGAA-CTTCC-AAAAATCCCATTTT
224022 ACCCTCGAAC
Statistics
Matches: 194, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
116 23 0.12
117 134 0.69
118 34 0.18
119 3 0.02
ACGTcount: A:0.34, C:0.32, G:0.04, T:0.30
Consensus pattern (117 bp):
TCCAAAAATTACCATTTTACCCCCGAACTTCAAAAATCTCATTTTTGACCCTAAACCTTCCAAAA
ATTACCATTTTACCCCCGAACTTCCAAAAATCCCATTTTCGACCCCAAACCT
Found at i:224077 original size:59 final size:59
Alignment explanation
Indices: 224008--224146 Score: 181
Period size: 59 Copynumber: 2.4 Consensus size: 59
223998 GAACCTTCCG
* **
224008 AAAATTACCATTTTACCCTCGAACTCCCAAATATCCCAATTTT-GACCCCAAAACTTCTA
1 AAAATTACCATTTTACCCTCGAACTCCCAAAAATCCC-ATTTTCGACCCCAAAACACCTA
* * * *
224067 AAAACTACCATTTTACCCCCGAACTCCCAAAAATCCCCTTTTCGACCCCGAAACACCTA
1 AAAATTACCATTTTACCCTCGAACTCCCAAAAATCCCATTTTCGACCCCAAAACACCTA
* *
224126 AAAATTACTATTTTACTCTCG
1 AAAATTACCATTTTACCCTCG
224147 GACATCCGAA
Statistics
Matches: 68, Mismatches: 11, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
58 4 0.06
59 64 0.94
ACGTcount: A:0.35, C:0.34, G:0.04, T:0.27
Consensus pattern (59 bp):
AAAATTACCATTTTACCCTCGAACTCCCAAAAATCCCATTTTCGACCCCAAAACACCTA
Done.