Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014435.1 Kokia drynarioides strain JFW-HI SEQ_129473, 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: 110253
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33
Warning! 102 characters in sequence are not A, C, G, or T
Found at i:7520 original size:21 final size:21
Alignment explanation
Indices: 7496--7570 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
7486 GAAATTTAAA
* *
7496 ACAAACATAATAATAAGAGTT
1 ACAAACATAATGATGAGAGTT
7517 ACAAAACAT-ATGATGAGAGTT
1 AC-AAACATAATGATGAGAGTT
* *
7538 ACAAACATTATGAGGAGAGTT
1 ACAAACATAATGATGAGAGTT
7559 ACAAACATAATG
1 ACAAACATAATG
7571 TTTTGTAGGT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
20 6 0.12
21 36 0.75
22 6 0.12
ACGTcount: A:0.51, C:0.11, G:0.16, T:0.23
Consensus pattern (21 bp):
ACAAACATAATGATGAGAGTT
Found at i:7708 original size:20 final size:20
Alignment explanation
Indices: 7685--7724 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
7675 TTTTAAATGG
7685 GCTAAAAATTTCAATAGGCC
1 GCTAAAAATTTCAATAGGCC
7705 GCTAAAAATTTCAATAGGCC
1 GCTAAAAATTTCAATAGGCC
7725 CAACCAGTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (20 bp):
GCTAAAAATTTCAATAGGCC
Found at i:13063 original size:109 final size:109
Alignment explanation
Indices: 12937--13146 Score: 334
Period size: 109 Copynumber: 1.9 Consensus size: 109
12927 AAAACACTTA
* * *
12937 TCGATTTTGAATAGGATATTCAATTACTTAGGTTTAAAGAAAAATCA-AACCTAATACGTTAGGG
1 TCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATAACC-AATACGTTAGGA
13001 CACAATTTATCA-AGTTCCCTAAAATAAAAGAACATTGAACATTTG
65 CACAATTTAT-AGAGTTCCCTAAAATAAAAGAACATTGAACATTTG
* *
13046 TCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATATCCAATACGTTAGGAT
1 TCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATAACCAATACGTTAGGAC
*
13111 ACAATTTCTAGAGTTCCCTAAAATAAAAGAACATTG
66 ACAATTTATAGAGTTCCCTAAAATAAAAGAACATTG
13147 CCTCGATTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
108 1 0.01
109 89 0.96
110 3 0.03
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (109 bp):
TCGATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATAACCAATACGTTAGGAC
ACAATTTATAGAGTTCCCTAAAATAAAAGAACATTGAACATTTG
Found at i:13943 original size:16 final size:16
Alignment explanation
Indices: 13922--13970 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 16
13912 GGTCAGAGTG
13922 ATAAAAAGATTAAATT
1 ATAAAAAGATTAAATT
13938 ATAAAAGAGAGATTAAATT
1 AT-AAA-A-AGATTAAATT
13957 A-AAAAAGATATAAA
1 ATAAAAAGAT-TAAA
13971 AGGATAAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
16 7 0.24
17 6 0.21
18 1 0.03
19 11 0.38
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.24
Consensus pattern (16 bp):
ATAAAAAGATTAAATT
Found at i:13952 original size:19 final size:19
Alignment explanation
Indices: 13928--13964 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
13918 AGTGATAAAA
*
13928 AGATTAAATTATAAAAGAG
1 AGATTAAATTAAAAAAGAG
13947 AGATTAAATTAAAAAAGA
1 AGATTAAATTAAAAAAGA
13965 TATAAAAGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.14, T:0.24
Consensus pattern (19 bp):
AGATTAAATTAAAAAAGAG
Found at i:16095 original size:45 final size:45
Alignment explanation
Indices: 16018--16710 Score: 493
Period size: 45 Copynumber: 16.0 Consensus size: 45
16008 TGAGATTGTA
** * *
16018 GCTTCAATCTATCCCTC-TGAATTTAGGGGTAAAAAATTAGATAGTG
1 GCTTCAATCTGCCCCTCTTG-A-TTAGGGGTAAAAGATTAGATGGTG
* *
16064 GCTTCTATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATAGTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
* *
16109 GCTTCTATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
* * * * *
16154 GCTTTAATTTGTCCCTCTTAATTAGGGGTAAAA-AGTTGGATGGTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGA-TTAGATGGTG
* * * *
16199 GCTTCAATTTGCCTCTCTTGACTTAAGGGTAGAAGATTAGATGGTG
1 GCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTAGATGGTG
* * * *
16245 GCTTCAATGTACCTCTCTTGATTAGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
* * * * * *
16290 ACTAT-AATTTGCCCTTTTTTATTAAGGGTAAAAGATTAGATGGTG
1 GCT-TCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
** *
16335 GCTTCAATCTTTCCCACTTGATTAGGGGTAAAAGATTAGATGGTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
* * * ** * *
16380 ACTTCAATTTTCCCCTCTTGACTTTTGGGTAAAAGATTGGATAGTG
1 GCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTAGATGGTG
* * * *
16426 GCTTTAATCTGTCCCTTTTGATTAGGGGTAAAAGATTGGATGGT-
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
** * *
16470 -CTTCAAT-TTACCCT-TT-AGTTA-GGGTAAAATATTGGATGGT-
1 GCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTAGATGGTG
*
16510 -CTTCAATCTG--CCT-TTTAGTTA-GGGTAAAAGATTAGA---TG
1 GCTTCAATCTGCCCCTCTTGA-TTAGGGGTAAAAGATTAGATGGTG
* * * * *
16548 ACTTCAATCTG--TCTCATGGTTA-GGGTAAAAGATT-GAATGTTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAG-ATGGTG
* * * * *
16590 TCTTCAATCTG--TCTCATGGTTA-GGGTAAAAGATT-GAATGTTG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAG-ATGGTG
* * *
16632 TCTTTAATCTG-CCCTCTAG-TTA-GGGTAAAAGATTAGAT--T-
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
* * *
16671 GCTTCAATCTG-CCC-CATGGTT-GGGGTAAAAGATTGGATGG
1 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGG
16711 AATGATGTAA
Statistics
Matches: 545, Mismatches: 79, Indels: 51
0.81 0.12 0.08
Matches are distributed among these distances:
37 1 0.00
38 3 0.01
39 62 0.11
40 46 0.08
41 6 0.01
42 75 0.14
43 11 0.02
44 2 0.00
45 247 0.45
46 89 0.16
47 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (45 bp):
GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATGGTG
Found at i:16273 original size:136 final size:134
Alignment explanation
Indices: 16029--16518 Score: 539
Period size: 136 Copynumber: 3.7 Consensus size: 134
16019 CTTCAATCTA
* * * * *
16029 TCCCTCTGAATTTAGGGGTAAAAAATTAGATAGTGGCTTCTATCTGCCCCTCTTGATTAGGGGTA
1 TCCCTCTTAA-TTAGGGGTAAAAGATTAGATGGTGGCTTCAATTTG-CCCTCTTGATTAGGGGTA
* * *
16094 AAAGATTAGATAGTGGCTTCTATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGGCTTT
64 AAAGATTAGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGGCTTT
16159 AATTTG
129 AATTTG
* *
16165 TCCCTCTTAATTAGGGGTAAAA-AGTTGGATGGTGGCTTCAATTTGCCTCTCTTGACTTAAGGGT
1 TCCCTCTTAATTAGGGGTAAAAGA-TTAGATGGTGGCTTCAATTTGCC-CTCTTGA-TTAGGGGT
* * * * *
16229 AGAAGATTAGATGGTGGCTTCAATGTACCTCTCTTGATTAGGGGTAAAAGATTGGATGGTGACTA
63 AAAAGATTAGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGGCTT
16294 TAATTTG
128 TAATTTG
* * * * *
16301 -CCCTTTTTTATTAAGGGTAAAAGATTAGATGGTGGCTTCAATCTTTCCCACTTGATTAGGGGTA
1 TCCC-TCTTAATTAGGGGTAAAAGATTAGATGGTGGCTTCAAT-TTGCCCTCTTGATTAGGGGTA
* * * ** *
16365 AAAGATTAGATGGTGACTTCAATTTTCCCCTCTTGACTTTTGGGTAAAAGATTGGATAGTGGCTT
64 AAAGATTAGATGGTGGCTTCAATCTACCCCTCTTGA-TTAGGGGTAAAAGATTGGATGGTGGCTT
*
16430 TAATCTG
128 TAATTTG
* * * *
16437 TCCCTTTTGATTAGGGGTAAAAGATTGGATGGT--CTTCAATTTACCCT-TT-AGTTA-GGGTAA
1 TCCCTCTTAATTAGGGGTAAAAGATTAGATGGTGGCTTCAATTTGCCCTCTTGA-TTAGGGGTAA
* *
16497 AATATTGGATGGT--CTTCAATCT
65 AAGATTAGATGGTGGCTTCAATCT
16519 GCCTTTTAGT
Statistics
Matches: 305, Mismatches: 40, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
129 8 0.03
131 18 0.06
132 5 0.02
133 5 0.02
134 10 0.03
135 78 0.26
136 173 0.57
137 8 0.03
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (134 bp):
TCCCTCTTAATTAGGGGTAAAAGATTAGATGGTGGCTTCAATTTGCCCTCTTGATTAGGGGTAAA
AGATTAGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGGCTTTAA
TTTG
Found at i:16322 original size:181 final size:179
Alignment explanation
Indices: 16044--16476 Score: 507
Period size: 181 Copynumber: 2.4 Consensus size: 179
16034 CTGAATTTAG
* * * * *
16044 GGGTAAAAAATTAGATAGTGGCTTCTATCTGCCCCTCTTGATTAGGGGTAAAAGATTAGATAGTG
1 GGGTAAAAGATTAGATAGTGGCTTC-A-ATGTCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * * * * *
16109 GCTTCTATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGGCTTTAAT-TTGTCCCTCTT
64 ACTTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTAGATGGTGGCTTCAATCTT-TCCCACTT
* * *
16173 AATTAGGGGTAAAA-AGTTGGATGGTGGCTTCAATTTGCCTCTCTTGACTTAA
128 AATTAGGGGTAAAAGA-TTAGATGGTGACTTCAATTTGCCCCTCTTGACTTAA
* *
16225 GGGTAGAAGATTAGATGGTGGCTTCAATGTACCTCTCTTGATTAGGGGTAAAAGATTGGATGGTG
1 GGGTAAAAGATTAGATAGTGGCTTCAATGT-CC-CTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * * *
16290 ACTAT-AATTTGCCCTTTTTTATTAAGGGTAAAAGATTAGATGGTGGCTTCAATCTTTCCCACTT
64 ACT-TCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTAGATGGTGGCTTCAATCTTTCCCACTT
* * **
16354 GATTAGGGGTAAAAGATTAGATGGTGACTTCAATTTTCCCCTCTTGACTTTT
128 AATTAGGGGTAAAAGATTAGATGGTGACTTCAATTTGCCCCTCTTGACTTAA
* * *
16406 GGGTAAAAGATTGGATAGTGGCTTTAATCTGTCCCTTTTGATTAGGGGTAAAAGATTGGATGGT-
1 GGGTAAAAGATTAGATAGTGGCTTCAA--TGTCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
16470 -CTTCAAT
64 ACTTCAAT
16477 TTACCCTTTA
Statistics
Matches: 215, Mismatches: 29, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
178 1 0.00
179 7 0.03
180 3 0.01
181 195 0.91
182 6 0.03
183 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.25, T:0.36
Consensus pattern (179 bp):
GGGTAAAAGATTAGATAGTGGCTTCAATGTCCCTCTTGATTAGGGGTAAAAGATTGGATGGTGAC
TTCAATCTGCCCCTCTTGATTAAGGGTAAAAGATTAGATGGTGGCTTCAATCTTTCCCACTTAAT
TAGGGGTAAAAGATTAGATGGTGACTTCAATTTGCCCCTCTTGACTTAA
Found at i:16606 original size:42 final size:41
Alignment explanation
Indices: 16487--16705 Score: 229
Period size: 42 Copynumber: 5.4 Consensus size: 41
16477 TTACCCTTTA
* ** *
16487 GTTAGGGTAAAATATTGGATG--GTCTTCAATCTGCCTTTTA
1 GTTAGGGTAAAAGATT-GATGTTGTCTTCAATCTGCCTCATG
* * *
16527 GTTAGGGTAAAAGATT-A-GATGACTTCAATCTGTCTCATG
1 GTTAGGGTAAAAGATTGATGTTGTCTTCAATCTGCCTCATG
*
16566 GTTAGGGTAAAAGATTGAATGTTGTCTTCAATCTGTCTCATG
1 GTTAGGGTAAAAGATTG-ATGTTGTCTTCAATCTGCCTCATG
* *
16608 GTTAGGGTAAAAGATTGAATGTTGTCTTTAATCTGCCCTC-TA
1 GTTAGGGTAAAAGATTG-ATGTTGTCTTCAATCTG-CCTCATG
*
16650 GTTAGGGTAAAAGATT-A-GATTG-CTTCAATCTGCCCCATG
1 GTTAGGGTAAAAGATTGATG-TTGTCTTCAATCTGCCTCATG
*
16689 GTTGGGGTAAAAGATTG
1 GTTAGGGTAAAAGATTG
16706 GATGGAATGA
Statistics
Matches: 155, Mismatches: 15, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
37 1 0.01
38 4 0.03
39 56 0.36
40 19 0.12
41 1 0.01
42 71 0.46
43 3 0.02
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (41 bp):
GTTAGGGTAAAAGATTGATGTTGTCTTCAATCTGCCTCATG
Found at i:16676 original size:81 final size:79
Alignment explanation
Indices: 16451--16705 Score: 250
Period size: 81 Copynumber: 3.2 Consensus size: 79
16441 TTTTGATTAG
* * * * *
16451 GGGTAAAAGATTGGATG-GTCTTCAATTTACCCTTTAGTTAGGGTAAAATATTGGATGGTCTTCA
1 GGGTAAAAGATT-GATGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATT-GATTGTCTTCA
** *
16515 ATCTGCCTTTTAGTTA
64 ATCTGCCTCATGGTTA
* * *
16531 GGGTAAAAGATT-A-GATGACTTCAATCTG-TCTCATGGTTAGGGTAAAAGATTGAATGTTGTCT
1 GGGTAAAAGATTGATG-TGTCTTCAATCTGCCCTC-TAGTTAGGGTAAAAGATTG-A--TTGTCT
*
16593 TCAATCTGTCTCATGGTTA
61 TCAATCTGCCTCATGGTTA
*
16612 GGGTAAAAGATTGAATGTTGTCTTTAATCTGCCCTCTAGTTAGGGTAAAAGATTAGATTG-CTTC
1 GGGTAAAAGATTG-ATG-TGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATT-GATTGTCTTC
* *
16676 AATCTGCCCCATGGTTG
63 AATCTGCCTCATGGTTA
16693 GGGTAAAAGATTG
1 GGGTAAAAGATTG
16706 GATGGAATGA
Statistics
Matches: 144, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
77 1 0.01
78 4 0.03
79 26 0.18
80 12 0.08
81 63 0.44
82 3 0.02
83 1 0.01
84 30 0.21
85 4 0.03
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (79 bp):
GGGTAAAAGATTGATGTGTCTTCAATCTGCCCTCTAGTTAGGGTAAAAGATTGATTGTCTTCAAT
CTGCCTCATGGTTA
Found at i:22246 original size:25 final size:25
Alignment explanation
Indices: 22204--22327 Score: 92
Period size: 25 Copynumber: 4.9 Consensus size: 25
22194 AGACGATGAA
* * *
22204 GATATTCTGTTTGACTCGAAAGAGC
1 GATATTTTGTCTGGCTCGAAAGAGC
*
22229 GATATTTTGTCTGGCTCGTAAGAGC
1 GATATTTTGTCTGGCTCGAAAGAGC
* **
22254 GATATTCTGAATTCTGGCTC-ATGGAGC
1 GATATTTTG---TCTGGCTCGAAAGAGC
* *
22281 GATATTTTGTCTGGCTTG-AATAGC
1 GATATTTTGTCTGGCTCGAAAGAGC
* *
22305 -ATTTTTCTGTCTGGCTCGTAAGA
1 GATATTT-TGTCTGGCTCGAAAGA
22328 TCAAAAATCT
Statistics
Matches: 77, Mismatches: 16, Indels: 12
0.73 0.15 0.11
Matches are distributed among these distances:
23 5 0.06
24 20 0.26
25 32 0.42
27 12 0.16
28 8 0.10
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (25 bp):
GATATTTTGTCTGGCTCGAAAGAGC
Found at i:25268 original size:21 final size:22
Alignment explanation
Indices: 25244--25287 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
25234 TTGTATGGTG
*
25244 TGAA-TAAAAATGTTTATCAAA
1 TGAATTAAAAATATTTATCAAA
* *
25265 TGAATTTAAAATATTTGTCAAA
1 TGAATTAAAAATATTTATCAAA
25287 T
1 T
25288 AAGACAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.48, C:0.05, G:0.09, T:0.39
Consensus pattern (22 bp):
TGAATTAAAAATATTTATCAAA
Found at i:28678 original size:108 final size:109
Alignment explanation
Indices: 28556--28762 Score: 272
Period size: 108 Copynumber: 1.9 Consensus size: 109
28546 AACACTTATC
* * * * * * **
28556 GATTGTAATTAGGATATTTAGTTACTTAGGTTTAGAGAAAAATCATGCCCAGTAC-TTAAGACAC
1 GATTGTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAAAACGTTAAGACAC
*
28620 AATTTCTTGAGTTCCCTAAAATAAAAAAACATTGAACATTTGTT
66 AATTTCTCGAGTTCCCTAAAATAAAAAAACATTGAACATTTGTT
* * * **
28664 GATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACTCAAAACGTTAGGGTAC
1 GATTGTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAAAACGTTAAGACAC
*
28729 AATTTCTCGAGTTCCCTAAAATAAAAGAACATTG
66 AATTTCTCGAGTTCCCTAAAATAAAAAAACATTG
28763 CCTTGATTTT
Statistics
Matches: 83, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
108 45 0.54
109 38 0.46
ACGTcount: A:0.40, C:0.14, G:0.14, T:0.32
Consensus pattern (109 bp):
GATTGTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAAAACGTTAAGACAC
AATTTCTCGAGTTCCCTAAAATAAAAAAACATTGAACATTTGTT
Found at i:29108 original size:19 final size:19
Alignment explanation
Indices: 29074--29110 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
29064 AGTGATAAAA
**
29074 GGATTAAATTCTAAAAGAG
1 GGATTAAATTAAAAAAGAG
29093 GGATTAAATTAAAAAAGA
1 GGATTAAATTAAAAAAGA
29111 TATAAAAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.19, T:0.24
Consensus pattern (19 bp):
GGATTAAATTAAAAAAGAG
Found at i:29155 original size:28 final size:28
Alignment explanation
Indices: 29123--29193 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
29113 TAAAAGGATA
*
29123 AAAAATAAAAAAAATAAAA-GAGTAATTTT
1 AAAAA-AACAAAAATAAAAGGAGTAA-TTT
*
29152 AAAAGAAACAAAAATAAAAGGGGTAATTT
1 AAAA-AAACAAAAATAAAAGGAGTAATTT
*
29181 AAAAAAATAAAAA
1 AAAAAAACAAAAA
29194 GATTTAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.22
29 23 0.62
30 6 0.16
ACGTcount: A:0.70, C:0.01, G:0.10, T:0.18
Consensus pattern (28 bp):
AAAAAAACAAAAATAAAAGGAGTAATTT
Found at i:29155 original size:29 final size:31
Alignment explanation
Indices: 29122--29193 Score: 94
Period size: 30 Copynumber: 2.4 Consensus size: 31
29112 ATAAAAGGAT
*
29122 AAAAAATAAAAAAAATAAAA-GAGTAATTTT
1 AAAAAATAAAAAAAATAAAAGGAGTAATTTA
* * *
29152 AAAAGA-AACAAAAATAAAAGGGGTAATTTA
1 AAAAAATAAAAAAAATAAAAGGAGTAATTTA
29182 AAAAAATAAAAA
1 AAAAAATAAAAA
29194 GATTTAATTT
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
29 12 0.35
30 18 0.53
31 4 0.12
ACGTcount: A:0.71, C:0.01, G:0.10, T:0.18
Consensus pattern (31 bp):
AAAAAATAAAAAAAATAAAAGGAGTAATTTA
Found at i:29193 original size:23 final size:23
Alignment explanation
Indices: 29161--29216 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
29151 TAAAAGAAAC
*
29161 AAAAAT-AAAAGGGGTAATTTAA
1 AAAAATAAAAAGAGGTAATTTAA
**
29183 AAAAATAAAAAGATTTAATTTAA
1 AAAAATAAAAAGAGGTAATTTAA
29206 AAAAA-AAAAAG
1 AAAAATAAAAAG
29217 CAAAGTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 12 0.40
23 18 0.60
ACGTcount: A:0.68, C:0.00, G:0.11, T:0.21
Consensus pattern (23 bp):
AAAAATAAAAAGAGGTAATTTAA
Found at i:35261 original size:24 final size:24
Alignment explanation
Indices: 35233--35288 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 24
35223 TAGACTAACA
35233 AGAGTTTGACTT-AAACAAATAAAC
1 AGAGTTT-ACTTGAAACAAATAAAC
*
35257 AGAGTTTAGTTGAAACAAATAAAC
1 AGAGTTTACTTGAAACAAATAAAC
35281 AGAGTTTA
1 AGAGTTTA
35289 ACTAAAAGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 3 0.10
24 27 0.90
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (24 bp):
AGAGTTTACTTGAAACAAATAAAC
Found at i:38894 original size:25 final size:25
Alignment explanation
Indices: 38866--39092 Score: 131
Period size: 25 Copynumber: 9.0 Consensus size: 25
38856 TCATGCGAGT
38866 CAGACAGAATATCGCTCTTATGAGC
1 CAGACAGAATATCGCTCTTATGAGC
* * **
38891 CAGACAGAATATTGCTCATGCGAGC
1 CAGACAGAATATCGCTCTTATGAGC
* * *
38916 CAAATAAAATATCGCTCTTATGAGC
1 CAGACAGAATATCGCTCTTATGAGC
* **
38941 CAGACAGAATATCGCTCATACAAGC
1 CAGACAGAATATCGCTCTTATGAGC
* * * **
38966 CAGATAGAATATTGTTCTTACAAGC
1 CAGACAGAATATCGCTCTTATGAGC
* *
38991 CAGATAGAATTTCGCTC--ATGCAAGC
1 CAGACAGAATATCGCTCTTATG--AGC
*
39016 TAGACAGAATATTTCGCTC--ATGCAAGC
1 CAGACAGAATA--TCGCTCTTATG--AGC
* * * *
39043 TAGACAAAATATCGCTCATGTGAGC
1 CAGACAGAATATCGCTCTTATGAGC
* * *
39068 CAAACA-AACATACGCTCTTAAGAGC
1 CAGACAGAATAT-CGCTCTTATGAGC
39093 TTGAATCAGA
Statistics
Matches: 158, Mismatches: 37, Indels: 14
0.76 0.18 0.07
Matches are distributed among these distances:
23 1 0.01
24 4 0.03
25 127 0.80
27 26 0.16
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (25 bp):
CAGACAGAATATCGCTCTTATGAGC
Found at i:38952 original size:75 final size:74
Alignment explanation
Indices: 38866--39092 Score: 192
Period size: 75 Copynumber: 3.0 Consensus size: 74
38856 TCATGCGAGT
38866 CAGACAGAATATCGCTCTTATGAGCCAGACAGAATATTGCTCATGCGAGCCAAATAAAATATCGC
1 CAGACAGAATATCGCTC-TATGAGCCAGACAGAATATTGCTCATGCGAGCCAAATAAAATATCGC
38931 TCTTATGAGC
65 TCTTATGAGC
** * * * * * * * *
38941 CAGACAGAATATCGCTCATACAAGCCAGATAGAATATTGTTCTTACAAGCCAGATAGAATTTCGC
1 CAGACAGAATATCGCTC-TATGAGCCAGACAGAATATTGCTCATGCGAGCCAAATAAAATATCGC
39006 TC--ATGCAAGC
65 TCTTATG--AGC
* * * * * *
39016 TAGACAGAATATTTCGCTC-ATGCAAGCTAGACAAAATATCGCTCATGTGAGCCAAACAAACATA
1 CAGACAGAATA--TCGCTCTATG--AGCCAGACAGAATATTGCTCATGCGAGCCAAATAAA-ATA
*
39080 -CGCTCTTAAGAGC
61 TCGCTCTTATGAGC
39093 TTGAATCAGA
Statistics
Matches: 115, Mismatches: 28, Indels: 16
0.72 0.18 0.10
Matches are distributed among these distances:
73 3 0.03
75 70 0.61
77 38 0.33
78 2 0.02
79 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.23
Consensus pattern (74 bp):
CAGACAGAATATCGCTCTATGAGCCAGACAGAATATTGCTCATGCGAGCCAAATAAAATATCGCT
CTTATGAGC
Found at i:39028 original size:50 final size:50
Alignment explanation
Indices: 38840--39062 Score: 207
Period size: 50 Copynumber: 4.4 Consensus size: 50
38830 TCTAACGAGC
* * * * *
38840 CCAGATAGAACATCACTCATGCGAGTCAGACAGAATATCGCTCTTATGAG
1 CCAGACAGAATATCGCTCATGCAAGCCAGACAGAATATCGCTCTTATGAG
* * * * *
38890 CCAGACAGAATATTGCTCATGCGAGCCAAATAAAATATCGCTCTTATGAG
1 CCAGACAGAATATCGCTCATGCAAGCCAGACAGAATATCGCTCTTATGAG
* * * * **
38940 CCAGACAGAATATCGCTCATACAAGCCAGATAGAATATTGTTCTTACAAG
1 CCAGACAGAATATCGCTCATGCAAGCCAGACAGAATATCGCTCTTATGAG
* * *
38990 CCAGATAGAATTTCGCTCATGCAAGCTAGACAGAATATTTCGCTC--ATGCAAG
1 CCAGACAGAATATCGCTCATGCAAGCCAGACAGAATA--TCGCTCTTATG--AG
* *
39042 CTAGACAAAATATCGCTCATG
1 CCAGACAGAATATCGCTCATG
39063 TGAGCCAAAC
Statistics
Matches: 139, Mismatches: 30, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
50 116 0.83
52 23 0.17
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (50 bp):
CCAGACAGAATATCGCTCATGCAAGCCAGACAGAATATCGCTCTTATGAG
Found at i:52769 original size:21 final size:21
Alignment explanation
Indices: 52745--52785 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
52735 TAAGACTTAG
52745 AAAACAAAGTTAAGGGTTTTT
1 AAAACAAAGTTAAGGGTTTTT
* **
52766 AAAACCATTTTAAGGGTTTT
1 AAAACAAAGTTAAGGGTTTT
52786 GCATGTTCTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (21 bp):
AAAACAAAGTTAAGGGTTTTT
Found at i:68349 original size:3 final size:3
Alignment explanation
Indices: 68334--68375 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
68324 CACGAAAATT
*
68334 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
68376 AGTTTAATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:68926 original size:3 final size:3
Alignment explanation
Indices: 68918--68959 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
68908 GTTAAGCCTG
*
68918 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
68960 TTATTATTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:72463 original size:18 final size:18
Alignment explanation
Indices: 72425--72475 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
72415 GTAACCTGAC
*
72425 CAGATGCGATCACAGAAT
1 CAGATGCAATCACAGAAT
* *
72443 CAGATGCAATCACATACT
1 CAGATGCAATCACAGAAT
* *
72461 CAGATACAACCACAG
1 CAGATGCAATCACAG
72476 GTTCAAATGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.27, G:0.16, T:0.16
Consensus pattern (18 bp):
CAGATGCAATCACAGAAT
Found at i:78634 original size:3 final size:3
Alignment explanation
Indices: 78586--78655 Score: 58
Period size: 3 Copynumber: 23.7 Consensus size: 3
78576 GTATTGAGGC
* * *
78586 AGA AGA A-A AGTA A-A AGA A-A ATA AGA GAGA AAA AAA AG- AGA AGGA
1 AGA AGA AGA AG-A AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA A-GA
78630 AGA AGA AGA AGA AGA AGA AGA AGA AG
1 AGA AGA AGA AGA AGA AGA AGA AGA AG
78656 GAATTACCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
2 8 0.14
3 41 0.72
4 8 0.14
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:79103 original size:62 final size:62
Alignment explanation
Indices: 79006--79127 Score: 226
Period size: 62 Copynumber: 2.0 Consensus size: 62
78996 AATGAGTTAG
79006 TTTACTTTTCCGTAATTAGTTGCATGCATAATTTTTTGTCATTGTATTTTTATTGTCTCTTC
1 TTTACTTTTCCGTAATTAGTTGCATGCATAATTTTTTGTCATTGTATTTTTATTGTCTCTTC
* *
79068 TTTACTTTTCTGTAATTAGTTGCATGCATATTTTTTTGTCATTGTATTTTTATTGTCTCT
1 TTTACTTTTCCGTAATTAGTTGCATGCATAATTTTTTGTCATTGTATTTTTATTGTCTCT
79128 GCATTTTATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 58 1.00
ACGTcount: A:0.17, C:0.13, G:0.11, T:0.58
Consensus pattern (62 bp):
TTTACTTTTCCGTAATTAGTTGCATGCATAATTTTTTGTCATTGTATTTTTATTGTCTCTTC
Found at i:81358 original size:24 final size:23
Alignment explanation
Indices: 81312--81358 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
81302 ACCATCAATT
* * *
81312 CATTTTTTATTAATTTGCTCTGA
1 CATTTTGTATTAAATTGCACTGA
81335 CATTTTGTATTACAATTGCACTGA
1 CATTTTGTATTA-AATTGCACTGA
81359 TAATTTTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.49
Consensus pattern (23 bp):
CATTTTGTATTAAATTGCACTGA
Found at i:87095 original size:16 final size:17
Alignment explanation
Indices: 87074--87106 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
87064 TACTTGGTAA
*
87074 GAAAGATAAAA-AATTT
1 GAAAGAAAAAATAATTT
87090 GAAAGAAAAAATAATTT
1 GAAAGAAAAAATAATTT
87107 TCTTTCAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (17 bp):
GAAAGAAAAAATAATTT
Found at i:92024 original size:23 final size:23
Alignment explanation
Indices: 91998--92042 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
91988 TCGATTCATA
**
91998 TTTTACTATTTCTTTTGGATTGT
1 TTTTACTATTGATTTTGGATTGT
*
92021 TTTTTCTATTGATTTTGGATTG
1 TTTTACTATTGATTTTGGATTG
92043 CTTTATCTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.13, C:0.07, G:0.16, T:0.64
Consensus pattern (23 bp):
TTTTACTATTGATTTTGGATTGT
Found at i:94292 original size:963 final size:949
Alignment explanation
Indices: 90452--95843 Score: 3239
Period size: 963 Copynumber: 5.6 Consensus size: 949
90442 CTCAGTCACC
* * * * * *
90452 CAAAATCAAACATAATCTATAGTTTATTT-TTAAAAAAA-ATAACAAC--CCA-TCATAACTCAT
1 CAAAATCAAACATAATCCATAATTTATTTATTAAAAAAACAAAACAACAACAACCCATAACCCAT
* * * * * * * *
90512 TATTACATGGTCAACAAAAACCCAAAAAATAAAAATTAAAACAAAAAGTTCCCGAAATCTCCAAA
66 TATTACCTGATCACCCAAAACCTAAAAAATAAAAATTAAAA-AAAAAATTTCCTAAATC-CC---
* * * *
90577 TCCACACAACCCTTTCTTCTTCTTCTTCTATTGTGAGGCAAAGAGCTAAAAACAAAAGAGGAAAA
126 -CCA-AC--CCC---CTTCTTCTTCTTTTATAGTGAGGCAGAGAGCCAAAAACAAAAGA-GAAAA
* * * * * * *
90642 AAAATTAGGGTTTAGGTTTTCTTTACTTTTCTTTATAAGATTCGTC-CCTTCTTTCTCCATTTTT
183 TAAATTAGGGTTTAAG-----TTTA-TTTT-TGTAT--GA-TCCTCATCTTCTTTTTTCA--TTT
* * * * *
90706 TTTCTAATTTCTTTAAACTTTGCCCA-AGTTACCATTGATTCCTA-TCAAAAT-CCCTGAAAAAT
236 TTTCCAATTTCTTTAAACTTTGCCTAGA-CTACTATTGATTCCTACT-AAAATACTC-G-AAAAT
* * * *
90768 ATAAAGATGATTTGCAAAGATTTTGTCAAAAATTTCTCATCAATCTTTGCATCTTACAACAAAAA
297 ATAAAGATGATTTGCAAAGATTTTGTCAAAAAATTCTAATCAATTTTTGCATCTTACAAAAAAAA
* * *
90833 GAAGCAAGAATCAAGACAAAAAAATTCAAGTACTTATTTGAAAATTATGAATTTCTAAAAGTG--
362 GAAGCAAGAATCAAAACAAAAAAATT----TACGTACTTGAAAATTATGAATTTCTAAAAGTGCA
* * * * * * *
90896 -GTAAGATTTTATTTAGACATTTTTGTGAATGTGTTATGATTTTGTTTGGATTGGAATTT-----
423 AGTAA-AATTTGTTTAGAGATTTTTGTGATTGTGTTGTGATTTTGTTTGGTTTGGAGTTTGGACA
* * ** *
90955 G-G--A--T---AGTGAAATTTTAGAGTTTGGACTATTTTTTTTGTTTTTTGAACAAATTTCTTC
487 GTGAAATCTGAGAGTGAAAGTTTAGAGTTTGGATTGCTTTTTTTGTTTTTTGAACAAATTTCTTG
* * * *
91012 TACTGATAACCGATTCATATTTTTCTATTTACTTTTGGACTACTTTTTTTCTATTGATTTTGAAT
552 TACCGATAACCAATTCATATTTTTCTATTGA-TTTTGGACTGC--TTTTTC--------------
* * * **
91077 TGTTTTTTCTTTTTTTAATTGAAAATTATTTGCTTTTGC-AGATGAAGAATATCTTCCATTTGTC
600 ----TTTT-TTTTTTTAATTGAAAATT-TCTGATTTTGCAAG-TGAAGAA-ATATTCTTTTTGTC
* * * **
91141 TTATAATATTTTTG-TAATTTTTTTTAAAAGAGTTGGTTTTTTTTTAAATTTTAACGTAACGGAA
657 TTATTATATTTATGTTGA-TTTTTTT-AAAGAGTTGAATTTTTTTT-AATTTTAACGTAACGGAA
* * ** * * * * * * * * *
91205 CAATAA--CAAGAGCAGCAGCCCGTTATTGCCGCAATTGATTGTTACTCGTTAAATTGTGATTGC
719 CAATAATGGAA-A-TAGTGGCCCGTTAATGCTGCAATTGGTCGTTACCCATTAAATTGCGATCGA
* * * * *
91268 GATCCACCGCTATTATTGTGAATCCGCTTCACATCGTAATTTTTGACT-GTAGCAAT-TTTGGAC
782 GATCCACCGTTATTGTTGTGATTCCGCTTCACATC--AA-TTTTGAATAGTA--ACTGTTT-GAC
* * * * ** ** * * * * *
91331 GGC-ACTATTACCGCTATTTAGTGATCGCTATTCTACT-ATCCAACTGCTATTTAAATTCCTAAC
841 GGCGTC-ACTACCACTATATAACGGCCGCTATTC-GCTAAT-CGACCGCTATTTAAATTCTTGAC
** * * * * *
91394 TTATTAATAACCAATCACCTAAAATCAAGAGGTCAAAACTCAACACTCA
903 CCATTATTACCCAATCACCCAAAATCAAGAGG-CCAAACTCAAAAC-CA
91443 CAAAATCAAAC--AATCCATAATTTA--T-TT----AAA-AAAA-AACAACAACCC---ACCCAT
1 CAAAATCAAACATAATCCATAATTTATTTATTAAAAAAACAAAACAACAACAACCCATAACCCAT
* * * * * *
91494 TATTACCTGGTCACCAAAAACCCAAAAAATAAAAGTTAAAACAAAAAGTTTTCC-AAATCACCCT
66 TATTACCTGATCACCCAAAACCTAAAAAATAAAAATTAAAA-AAAAA-ATTTCCTAAATC-CCCC
** * * * *
91558 AACCATCTTCTTTTTCTTTTATTGTGAGGCAGAGAGCCAAAAACAAGA-AGAAAA-AAATTAGAG
128 AACCCCCTTCTTCTTCTTTTATAGTGAGGCAGAGAGCCAAAAACAAAAGAGAAAATAAATTAGGG
* * * * * * *
91621 TTTAGGTTTTCTTTGCTTTTCTTTGCAAGATCCGTCGT-TTCTTTCTCCATTTTTTTTCCAATTT
193 TTTAAG------TT--TATT-TTTGTATGATCC-TCATCTTCTTTTTTCA--TTTTTTCCAATTT
** * * * * *
91685 CTTTAAACTTTGTTTAGGCTACCATTGATTCCTACCAAAATACTAGAAAATGTAAAGATGATTTG
246 CTTTAAACTTTGCCTAGACTACTATTGATTCCTACTAAAATACTCGAAAATATAAAGATGATTTG
* * * *
91750 CAAAGATTTTATCAAAAAATTCTCATCAATCTTTGCATCTTACAACAAAAAGAAGCAAGAATCAA
311 CAAAGATTTTGTCAAAAAATTCTAATCAATTTTTGCATCTTACAAAAAAAAGAAGCAAGAATCAA
* * * * *
91815 GACAAAAAAAAATCACGTACTTACTTGAAAATTATGAATTTCTAAAAGTGCAAGTGAGATTTTGT
376 -A-ACAAAAAAAT---TTACGTACTTGAAAATTATGAATTTCTAAAAGTGCAAGT-AAAATTTGT
*
91880 TTAGAAATTTTTGTGATTGTGATTGTG--TTTG--T--TTTGGAGTTT-----G-G--A-C----
435 TTAGAGATTTTTGTGATTGTG-TTGTGATTTTGTTTGGTTTGGAGTTTGGACAGTGAAATCTGAG
* * * * * * *
91926 AGTGAAAGTTTACAGTTTGAATTGCTTTTTCTGTTTTTTGAATAATTTTCTTGTACCGATAATCG
499 AGTGAAAGTTTAGAGTTTGGATTGCTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACCA
* ** * * * ** ** ** *
91991 ATTCATATTTTACTATTTCTTTTGGATTGTTTTTTCTATTGATTTTGGATTG--CTTTATCT-TT
564 ATTCATATTTTTCTATTGATTTTGGACTGCTTTTTCTTTTTTTTTTTAATTGAAAATT-TCTGAT
* * * *** * *
92053 TTTG--A-TTAA-AAATTATT-TGATTTTG-C-AAGTAAAGCGTATATTCCCTTCATCTTATTAT
628 TTTGCAAGTGAAGAAA-TATTCT--TTTTGTCTTA-T-TA---TAT-TTATGTTGAT-TT-TTTT
***** * * * * *
92111 ATTTCTCTTG-ATTTTTTTTAATTTTAACGTAACAGAACAATAA-CGAGAATAGCGACCCGTTAC
682 A-AAGAGTTGAATTTTTTTTAATTTTAACGTAACGGAACAATAATGGA-AATAGTGGCCCGTTAA
* * * * *
92174 TACCGCAATTGGTCGTTACCCATTAAATTGCGATCGAGATCCACCGGTATTGTTATGACTCCGCT
745 TGCTGCAATTGGTCGTTACCCATTAAATTGCGATCGAGATCCACCGTTATTGTTGTGATTCCGCT
* * ** * *
92239 TCACATCGTAATTTTCGACAATAGCAA-T-TTCGAACGATGCCACTACCGA-TATATAACGGTCG
810 TCACATC--AATTTT-G--AATAGTAACTGTTTG-ACGGCGTCACTACC-ACTATATAACGGCCG
* ** ** *
92301 TTATTCCGCTACCCGACCGCTATTTAAA-TCTCTGACTTATTATTACCTAATCACCCAAAATCAA
868 CTATT-CGCTAATCGACCGCTATTTAAATTCT-TGACCCATTATTACCCAATCACCCAAAATCAA
*
92365 GAGGGCAAACTCAAAACCCA
931 GAGGCCAAACTCAAAA-CCA
* * * * *
92385 TAAAATCAAACACAATTCACAATTTATTTA-AAAACAATAACAACAACAACAACAACCCATAACC
1 CAAAATCAAACATAATCCATAATTTATTTATTAAA-AA-AACAA-AACAACAACAACCCATAACC
** * * * * *
92449 GTTTATTACACAG-TCACCCAAAACC----CAA-AAAAA--AAAAACAAAATTCCCTAAATCGCC
63 CATTATTAC-CTGATCACCCAAAACCTAAAAAATAAAAATTAAAAAAAAAATTTCCTAAATCCCC
* * * *
92506 CAACCCTCTTATTCGTT-TTCTATAGTGAGGCAGGGAGCCAAAAACAAAAGA-AGAAATAAATTA
127 CAACCCCCTTCTTC-TTCTTTTATAGTGAGGCAGAGAGCCAAAAACAAAAGAGA-AAATAAATTA
* * * * * * * * * *
92569 GGGTTTAGGTTTACTTTT-CAAGATCCTCCTTTTCTTTCTCCATTTTTTTC-ATTTTTTTAAAAC
190 GGGTTTAAGTTTATTTTTGTATGATCCTCATCTTCTTTTTTCATTTTTTCCAATTTCTTT-AAAC
** * * * *
92632 TTTGCCTAGGTTACCATTGATTCTTA-TCAAAATACTCGAAAATGTAAAGATGATTTTCAAAGAT
254 TTTGCCTAGACTACTATTGATTCCTACT-AAAATACTCGAAAATATAAAGATGATTTGCAAAGAT
* * *
92696 TTTGTCAAAAATTTCTAATCAATCTTTT-CATCTTACAACAAAAAGAAGCAGGAATCAAAACAAA
318 TTTGTCAAAAAATTCTAATCAAT-TTTTGCATCTTACAAAAAAAAGAAGCAAGAATCAAAAC--A
* * * * * *
92760 AAAAAATTCACATACTTGAAAATTATGAATTTCTAAAAGTGCAAATGATATTTTGTTTAGAGACT
380 AAAAAATTTACGTACTTGAAAATTATGAATTTCTAAAAGTGCAAGT-AAAATTTGTTTAGAGATT
* * *
92825 TTTGTGATTGTGTTGTGATTTTGTTTGTTTTGGAGTTTGGACAGTGAAATCTAAGAGTGGAAGTT
444 TTTGTGATTGTGTTGTGATTTTGTTTGGTTTGGAGTTTGGACAGTGAAATCTGAGAGTGAAAGTT
* ** * * *
92890 TACAGTTTGGATTTTTTTTTTTTGTTTTTTTAACAAATTTTTTGTACCGATAACGAATTCATATT
509 TAGAGTTTGGA-TTGCTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACCAATTCATATT
*** *
92955 TTTCTATTTCTTTTGAACTATTTTTCCTGTTGATTTTGGATTGCTTTTTCTTTTTTTAATTGAAA
573 TTTCTA------TTG-A-T-TTTGGAC---TG-CTTT---TT-C-TTTT-TTTTTTTAATTGAAA
* *
93020 ATCATT-TGATTTTGCAAGTAAAG-AATATTCTCTCTTTGTCTTATTATATTTCTGTTGATTTTT
619 AT--TTCTGATTTTGCAAGTGAAGAAATATTCT-T-TTTGTCTTATTATATTTATGTTGATTTTT
* *
93083 TTAAAGAGCTGAATTTTTTTAAAATTTTAACGTAACGGAACAATAACT-GAAATAGTGGCCCGTT
680 TTAAAGAGTTGAATTTTTTT-TAATTTTAACGTAACGGAACAATAA-TGGAAATAGTGGCCCGTT
* * ** * *
93147 ACTGTTGCAATTGGTCGTTACCCATTAAATTGCGATCGAGATTAACTGTTATTGTTGTGATTCTG
743 AATGCTGCAATTGGTCGTTACCCATTAAATTGCGATCGAGATCCACCGTTATTGTTGTGATTCCG
* * * * * *
93212 CTTCACATCACAATTTTTGACT-GT-AGTGATTTTGAACGGCGCCACTACTACTATAAAATGGCC
808 CTTCACAT--CAA-TTTTGAATAGTAACTG--TTTG-ACGGCGTCACTACCACTATATAACGGCC
** ** *
93275 GCTATTTTACTACCCGACCGTTATTTAAATTCTTGACCCATTATTACCCAATCACCCAAAATCAA
867 GCTA-TTCGCTAATCGACCGCTATTTAAATTCTTGACCCATTATTACCCAATCACCCAAAATCAA
93340 GAGGCCAAACTCAAAACCTA
931 GAGGCCAAACTCAAAACC-A
* * * *
93360 CAAAATCGAACATAAT-TAGGAATTTATTTAAAATTAACAAAAACAGTAACAACAACAACCCATA
1 CAAAATCAAACATAATCCA-TAATTTATTT---ATTAA-AAAAACA-AAACAACAACAACCCATA
*
93424 ACCCATTATTACCTGGTCACCCAAAACCTAAAAAATAAAAATTAGAAAAAAAAATTTTCCTAAAT
60 ACCCATTATTACCTGATCACCCAAAACCTAAAAAATAAAAATTA-AAAAAAAAA-TTTCCTAAAT
* * * *
93489 CCCTCCAACCCCCTTCTT-TCACTTTTATAGTGAGCCAAAGAGCCAAAAATAAAAGAGAAAATAA
123 CCC-CCAACCCCCTTCTTCT-TCTTTTATAGTGAGGCAGAGAGCCAAAAACAAAAGAGAAAATAA
*
93553 ATTAGGGTTTAAGTTT-TTTTTGTATGATCCGCATCTTCTTTTTTCATTTTTTCCAATTTCTTTA
186 ATTAGGGTTTAAGTTTATTTTTGTATGATCCTCATCTTCTTTTTTCATTTTTTCCAATTTCTTTA
* * * **
93617 AATTTTGCCTAGGCTACTATTGATTCTTACTAAAATACTAAAAAATATAAAGATGATTTGCAAAG
251 AACTTTGCCTAGACTACTATTGATTCCTACTAAAATACTCGAAAATATAAAGATGATTTGCAAAG
* * *
93682 ATTTTGTAAAAAAATTCTAATCACTTTTTGCATCTTACAAAAAAAAGAAGCAAGAATCAAGAC-A
316 ATTTTGTCAAAAAATTCTAATCAATTTTTGCATCTTACAAAAAAAAGAAGCAAGAATCAAAACAA
*
93746 AAAAATTTACGTACTTGAAGATTATGAATTTCTAAAAGTGCAAGTGAAAATTTGTTTAGAGATTT
381 AAAAATTTACGTACTTGAAAATTATGAATTTCTAAAAGTGCAAGT-AAAATTTGTTTAGAGATTT
* * * *
93811 TTGTGATTGTGTTGTGAGTTTGTTTGGTTTGGAATTTGGACAGTGAAATCTGAGAGTAAAAATTT
445 TTGTGATTGTGTTGTGATTTTGTTTGGTTTGGAGTTTGGACAGTGAAATCTGAGAGTGAAAGTTT
* *
93876 AGAGTTTGGATTGCTTTTTTTGTTATTTGAATAAATTTCTTGTACCGATAACCAATTCATATTTT
510 AGAGTTTGGATTGCTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACCAATTCATATTTT
*
93941 TCTATTGATTTTGGACTGCTTTTTC-TTTTTTTTTTAATTGAAAATTTCTAATTTTGCAAGTGAA
575 TCTATTGATTTTGGACTGCTTTTTCTTTTTTTTTTTAATTGAAAATTTCTGATTTTGCAAGTGAA
* *
94005 GAACATATTCTTTTTGTTTTATTATATTTATGTTGATTTTTTTAAAGGAGTTAAATTTTTTTTAA
640 GAA-ATATTCTTTTTGTCTTATTATATTTATGTTGATTTTTTTAAA-GAGTTGAATTTTTTTTAA
* * * * * ** *
94070 TTTTACCATAACGAAAAAATAATGGAAATAGTGGCCCGTTATTGCTGCAATTTATCGTTACCCGT
703 TTTTAACGTAACGGAACAATAATGGAAATAGTGGCCCGTTAATGCTGCAATTGGTCGTTACCCAT
* * * * * * *
94135 TAAATTGTGGTTGTGATCCACCGTTATTAG-TGTGATTCCGCTTCATAGTGCTATTTTCAATAGT
768 TAAATTGCGATCGAGATCCACCGTTATT-GTTGTGATTCCGCTTCACA-T-CAATTTTGAATAGT
* * ** *
94199 AACTGTTTCAGACGGCGTCGCTACCACTATATAACGGCCACTATTACGCTGTTCGACTGCTATTT
830 AACTGTTT--GACGGCGTCACTACCACTATATAACGGCCGCTATT-CGCTAATCGACCGCTATTT
* * * * * * * *
94264 AAATT-TCTAACCTAATATTACTCAATCACCAAAAATAAAAAGGACAAAACTCAAAATCCA
892 AAATTCT-TGACCCATTATTACCCAATCACCCAAAATCAAGAGG-CCAAACTCAAAA-CCA
* * *
94324 CAAAATCAAACATAATCCATAATTTA-TT-TT-----AA-AAAA-AAC--TAACTCAT---CTAT
1 CAAAATCAAACATAATCCATAATTTATTTATTAAAAAAACAAAACAACAACAACCCATAACCCAT
* * * *
94375 TACTACCTGATCACCTAAAGCCTAAAAAATAAAAATTAAAACAAAAAGTTCTCC-AAATTCCCCC
66 TATTACCTGATCACCCAAAACCTAAAAAATAAAAATTAAAA-AAAAAATT-TCCTAAA-TCCCCC
* * *
94439 AATCCCCTTCTTCTTCTTCTATAGTGAGGCAGAGAGCCAAAAA-AAAGAGGGAAAA-AAATTAGG
128 AACCCCCTTCTTCTTCTTTTATAGTGAGGCAGAGAGCCAAAAACAAA-AGAGAAAATAAATTAGG
* * * *** *** * *
94502 G--T---TTTA-----G---G----T--T-TTCTTTGTT--TTTCTACCAAAAAACCCGAAAATA
192 GTTTAAGTTTATTTTTGTATGATCCTCATCTTCTTTTTTCATTTTTTCC-AATTTCTTTAAACTT
** * * * *
94545 T--AAAGATTACTATTGATTCCTACCAAAAAAC-CCAAAATATAAAGAAT-ATTTGCAAAGATTT
256 TGCCTAGACTACTATTGATTCCTACTAAAATACTCGAAAATATAAAG-ATGATTTGCAAAGATTT
* * * * * *
94606 TGTCAAAAAATTCTCATCAATCTTTGCATGTTACAACAAAAAAGAAGCAAAAATTAAGACAAAAA
320 TGTCAAAAAATTCTAATCAATTTTTGCATCTTACAA-AAAAAAGAAGCAAGAATCAAAAC-AAAA
* * *
94671 AAATCAAGTACTTACTGTGAAAATTATGAATTTCTCAAAGT----GT--AA---G---AGAGATT
383 AAAT---TTACGTACT-TGAAAATTATGAATTTCTAAAAGTGCAAGTAAAATTTGTTTAGAGATT
* * * * *
94724 TTTGTGATTGTATTGTGATTTTGTTTGGTTTAGCGTTTGGACAGTGAAATCTGTGAGTGAAATTT
444 TTTGTGATTGTGTTGTGATTTTGTTTGGTTTGGAGTTTGGACAGTGAAATCTGAGAGTGAAAGTT
* * * * * *
94789 TAG-G---AGATTGCTTTTTTCTGTTTTTTGAGCAAATTTTTTGTACTGATAATCGATTCATATT
509 TAGAGTTTGGATTGCTTTTTT-TGTTTTTTGAACAAATTTCTTGTACCGATAACCAATTCATATT
* * * *
94850 TTTCTATTGCTTTTGGACTTCTTTTTCTTTTTCTTTTTTTATTGAAAATTATCTGATTTTGCAGG
573 TTTCTATTGATTTTGGACTGCTTTTTCTTTTT-TTTTTTAATTGAAAATT-TCTGATTTTGCAAG
* * * *
94915 TGAAGAATATATTC-TTTTATCTTATTATATTTTTGTTGCTTCTTTTTAAAAGAGTTGGATTTTT
636 TGAAGAA-ATATTCTTTTTGTCTTATTATATTTATGTTGATT-TTTTT-AAAGAGTT-GAATTTT
* * * * **
94979 TTTTAATTTTAACGTAACGGAACAATAACGAAAATAGCGGCCCATTAATGCCACAATTGGTCGTT
697 TTTTAATTTTAACGTAACGGAACAATAATGGAAATAGTGGCCCGTTAATGCTGCAATTGGTCGTT
* * ** ** **
95044 ACCCATTAAATTGCAATCGCGATCCACCACTATTGTTGTGATTCCGCTTCACATCACAAATTGGG
762 ACCCATTAAATTGCGATCGAGATCCACCGTTATTGTTGTGATTCCGCTTCACATCA-ATTTTGAA
* ** * * * ** * *
95109 TGAGTAGCAATTT----GC-T-ACTAGCGCTATATAGCATCCGCTATTCTGCTAATCAACTGCTA
826 T-AGTAACTGTTTGACGGCGTCACTACCACTATATAACGGCCGCTATTC-GCTAATCGACCGCTA
* * * * *
95168 TTTAAATCCTTGACCCATTATTACCCAATCACCCAATATCAAGAGGCCAAAATTGAAAACAGA
889 TTTAAATTCTTGACCCATTATTACCCAATCACCCAAAATCAAGAGGCC-AAACTCAAAAC-CA
* * * * * *
95231 AAAAATCAAACATAATCCATAATTTATTTTTTAAAAAAATAAAAATAAAAAC-CCACCATAACCC
1 CAAAATCAAACATAATCCATAATTTATTTATTAAAAAAA-CAAAACAACAACAAC-CCATAACCC
* * * * * ** * *
95295 ATTATTACCCGATCACACAAAACCCAAAAATTAAAAATTAAAACAAAAAGATCCTCAAATCTCTC
64 ATTATTACCTGATCACCCAAAACCTAAAAAATAAAAATTAAAAAAAAAATTTCCT-AAATCCCCC
* * * * * *
95360 AA-CCCCTTCTTCTTCTTTAATTGTAAGGTAGAGAGCCAAAAACAAAAGAGAAAAAAAAATTAAG
128 AACCCCCTTCTTCTTCTTTTATAGTGAGGCAGAGAGCCAAAAACAAAAGAG-AAAATAAATTAGG
* * * *** * *
95424 GTTTAGGTTTTCTATGCTTTTCTTTTGAAGATTCATCCCTTCTTTTTTCATTTTTTTCAATTTTT
192 GTTTAAG--TT-TAT--TTTT-GTATG-ATCCTCAT--CTTCTTTTTTCATTTTTTCCAATTTCT
* * * *
95489 TTAAACTTTGCCTAAACTA-TCATTGATTCCTACTATAATATTTGAAAATATAAAGATGATTTGC
248 TTAAACTTTGCCTAGACTACT-ATTGATTCCTACTAAAATACTCGAAAATATAAAGATGATTTGC
* ** * * * ** *
95553 AAAGATTCTGTCAAAATTTTTTTATCAATATTTGCAAGTTACAACAAAAAGAAGCAAGAATCAAA
312 AAAGATTTTGTCAAAAAATTCTAATCAATTTTTGCATCTTACAAAAAAAAGAAGCAAGAATCAAA
* * * * * *
95618 ACAAAAAAA-TTCCTGATACTTGAAAATTATGAATTTCTAAAAATGTAAGTAAGATTTTGCTTAA
377 ACAAAAAAATTTAC-G-TACTTGAAAATTATGAATTTCTAAAAGTGCAAGTAA-AATTTGTTTAG
*
95682 AGATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGGACAGTGAAATCTGAGAGTGA
439 AGATTTTTGTGATTGTGTTGTGATTTTGTTTGGTTTGGAGTTTGGACAGTGAAATCTGAGAGTGA
* ** *
95747 AAGTTTAGAATTTGGACAGCTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACAAATTCA
504 AAGTTTAGAGTTTGGATTGCTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACCAATTCA
* ** * *
95812 TGTTTTTCTATTTTTTTTAGACTGTTTTTTCT
569 TATTTTTCTATTGATTTTGGACTGCTTTTTCT
95844 ATTGATTTTG
Statistics
Matches: 3505, Mismatches: 604, Indels: 609
0.74 0.13 0.13
Matches are distributed among these distances:
906 3 0.00
907 100 0.03
908 4 0.00
909 4 0.00
910 12 0.00
911 61 0.02
912 4 0.00
913 41 0.01
914 110 0.03
915 110 0.03
916 4 0.00
917 3 0.00
918 1 0.00
919 3 0.00
920 99 0.03
921 63 0.02
922 54 0.02
923 17 0.00
924 9 0.00
925 1 0.00
926 7 0.00
927 22 0.01
929 2 0.00
930 2 0.00
931 1 0.00
934 1 0.00
935 5 0.00
936 63 0.02
937 7 0.00
938 18 0.01
939 134 0.04
940 6 0.00
941 32 0.01
942 39 0.01
943 191 0.05
944 82 0.02
945 69 0.02
946 8 0.00
947 1 0.00
948 7 0.00
949 48 0.01
950 41 0.01
951 33 0.01
952 10 0.00
953 21 0.01
954 66 0.02
955 113 0.03
957 1 0.00
958 21 0.01
959 4 0.00
960 1 0.00
961 2 0.00
962 15 0.00
963 286 0.08
964 80 0.02
965 13 0.00
966 67 0.02
967 94 0.03
968 89 0.03
969 110 0.03
970 20 0.01
971 15 0.00
972 72 0.02
973 12 0.00
974 24 0.01
975 221 0.06
976 21 0.01
977 15 0.00
978 50 0.01
979 10 0.00
980 12 0.00
981 2 0.00
982 62 0.02
983 15 0.00
984 54 0.02
985 128 0.04
986 9 0.00
987 22 0.01
988 195 0.06
989 20 0.01
991 11 0.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.37
Consensus pattern (949 bp):
CAAAATCAAACATAATCCATAATTTATTTATTAAAAAAACAAAACAACAACAACCCATAACCCAT
TATTACCTGATCACCCAAAACCTAAAAAATAAAAATTAAAAAAAAAATTTCCTAAATCCCCCAAC
CCCCTTCTTCTTCTTTTATAGTGAGGCAGAGAGCCAAAAACAAAAGAGAAAATAAATTAGGGTTT
AAGTTTATTTTTGTATGATCCTCATCTTCTTTTTTCATTTTTTCCAATTTCTTTAAACTTTGCCT
AGACTACTATTGATTCCTACTAAAATACTCGAAAATATAAAGATGATTTGCAAAGATTTTGTCAA
AAAATTCTAATCAATTTTTGCATCTTACAAAAAAAAGAAGCAAGAATCAAAACAAAAAAATTTAC
GTACTTGAAAATTATGAATTTCTAAAAGTGCAAGTAAAATTTGTTTAGAGATTTTTGTGATTGTG
TTGTGATTTTGTTTGGTTTGGAGTTTGGACAGTGAAATCTGAGAGTGAAAGTTTAGAGTTTGGAT
TGCTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACCAATTCATATTTTTCTATTGATTT
TGGACTGCTTTTTCTTTTTTTTTTTAATTGAAAATTTCTGATTTTGCAAGTGAAGAAATATTCTT
TTTGTCTTATTATATTTATGTTGATTTTTTTAAAGAGTTGAATTTTTTTTAATTTTAACGTAACG
GAACAATAATGGAAATAGTGGCCCGTTAATGCTGCAATTGGTCGTTACCCATTAAATTGCGATCG
AGATCCACCGTTATTGTTGTGATTCCGCTTCACATCAATTTTGAATAGTAACTGTTTGACGGCGT
CACTACCACTATATAACGGCCGCTATTCGCTAATCGACCGCTATTTAAATTCTTGACCCATTATT
ACCCAATCACCCAAAATCAAGAGGCCAAACTCAAAACCA
Found at i:97624 original size:26 final size:26
Alignment explanation
Indices: 97591--97646 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
97581 ATATAAAGAT
97591 AATT-TACAAAGATTTTGTAAAAAAA
1 AATTATACAAAGATTTTGTAAAAAAA
97616 AATTATACAAAGATTTTGTAAAAAAA
1 AATTATACAAAGATTTTGTAAAAAAA
97642 AATTA
1 AATTA
97647 ATCAATCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.13
26 26 0.87
ACGTcount: A:0.57, C:0.04, G:0.07, T:0.32
Consensus pattern (26 bp):
AATTATACAAAGATTTTGTAAAAAAA
Found at i:102682 original size:2 final size:2
Alignment explanation
Indices: 102675--102706 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
102665 ATTAGGAAAC
*
102675 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102707 TAAACATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:107311 original size:18 final size:17
Alignment explanation
Indices: 107288--107329 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
107278 ACCCCACAGC
107288 AAACCAAAAGAAAGCAAA
1 AAACCAAAAGAAA-CAAA
*
107306 AAACCAACAGAAACAAA
1 AAACCAAAAGAAACAAA
107323 AAGACCA
1 AA-ACCA
107330 GAACGTGCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.69, C:0.21, G:0.10, T:0.00
Consensus pattern (17 bp):
AAACCAAAAGAAACAAA
Found at i:109374 original size:17 final size:18
Alignment explanation
Indices: 109354--109395 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
109344 ATTTTATTAA
109354 ATTATTTA-TATAATTTT
1 ATTATTTATTATAATTTT
* *
109371 ATTATATATTATATTTTT
1 ATTATTTATTATAATTTT
*
109389 ATAATTT
1 ATTATTT
109396 GTATTTTATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTATTTATTATAATTTT
Found at i:109380 original size:29 final size:27
Alignment explanation
Indices: 109356--109407 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
109346 TTTATTAAAT
109356 TATTTATATAATTT-TATTATATATTA
1 TATTTATATAATTTGTATTATATATTA
* *
109382 TATTTTTATAATTTGTATTTTATATT
1 TATTTATATAATTTGTATTATATATT
109408 CTTTTTAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (27 bp):
TATTTATATAATTTGTATTATATATTA
Found at i:109601 original size:23 final size:24
Alignment explanation
Indices: 109570--109617 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
109560 TTTAAGGATC
*
109570 AAATTGATAAA-ATTTGTAAATGT
1 AAATGGATAAATATTTGTAAATGT
109593 AAATGGATAAATTTATTTGTAAATG
1 AAATGGATAAA--TATTTGTAAATG
109618 CAAGGATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 10 0.48
26 11 0.52
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AAATGGATAAATATTTGTAAATGT
Found at i:110103 original size:11 final size:11
Alignment explanation
Indices: 110087--110139 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
110077 GGGGACCAAC
* *
110087 GAAAAATGAAG
1 GAAAAAAGAAA
110098 GAAAAAAGAAA
1 GAAAAAAGAAA
110109 G-AAAAA-AAA
1 GAAAAAAGAAA
110118 GAAAGAAAGAAA
1 GAAA-AAAGAAA
*
110130 GAAAGAAGAA
1 GAAAAAAGAA
110140 GGAAGAAGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
9 4 0.11
10 7 0.19
11 18 0.50
12 7 0.19
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (11 bp):
GAAAAAAGAAA
Found at i:110111 original size:4 final size:4
Alignment explanation
Indices: 110098--110136 Score: 53
Period size: 4 Copynumber: 9.8 Consensus size: 4
110088 AAAAATGAAG
*
110098 GAAA -AAA GAAA GAAAA AAAA GAAA GAAA GAAA GAAA GAA
1 GAAA GAAA GAAA G-AAA GAAA GAAA GAAA GAAA GAAA GAA
110137 GAAGGAAGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.10
4 25 0.81
5 3 0.10
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (4 bp):
GAAA
Done.