Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 66 of 171
Found at i:24606098 original size:30 final size:30
Alignment explanation
Indices: 24606079--24606285 Score: 315
Period size: 30 Copynumber: 6.9 Consensus size: 30
24606069 GTAGTTTTTG
*
24606079 AAAGTTTTGGGGTTAAAATGTAATTTTGGA
1 AAAGTTTTGGGGTTAAAATATAATTTTGGA
* *
24606109 AAAGTTTTAGGGTCAAAATATAATTTTGGA
1 AAAGTTTTGGGGTTAAAATATAATTTTGGA
24606139 AAAGTTTTGGGGTTAAAATATAATTTTGGA
1 AAAGTTTTGGGGTTAAAATATAATTTTGGA
*
24606169 AAAGTTTTGGGGTTAAAATATAATTTTAGA
1 AAAGTTTTGGGGTTAAAATATAATTTTGGA
24606199 AAAGTTTTGGGGTTAAAATATAATTTTGGA
1 AAAGTTTTGGGGTTAAAATATAATTTTGGA
* ** *
24606229 AAAGTATTGGGGGCAAAATATAATTTTGAA
1 AAAGTTTTGGGGTTAAAATATAATTTTGGA
* * *
24606259 AAAGTTTCGGGGTCAAAAGATAATTTT
1 AAAGTTTTGGGGTTAAAATATAATTTT
24606286 TGGACAATTT
Statistics
Matches: 162, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 162 1.00
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (30 bp):
AAAGTTTTGGGGTTAAAATATAATTTTGGA
Found at i:24607083 original size:18 final size:17
Alignment explanation
Indices: 24607042--24607090 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
24607032 CCTCTTTTTC
*
24607042 CTTTCTTCTCTTCTGTTT
1 CTTTCTT-TCTTCTATTT
24607060 CTTTCTTTCTTCTATTT
1 CTTTCTTTCTTCTATTT
* *
24607077 TTGTTCTTTATTCT
1 CT-TTCTTTCTTCT
24607091 TTATTTTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 10 0.37
18 17 0.63
ACGTcount: A:0.04, C:0.22, G:0.04, T:0.69
Consensus pattern (17 bp):
CTTTCTTTCTTCTATTT
Found at i:24607103 original size:22 final size:23
Alignment explanation
Indices: 24607052--24607103 Score: 56
Period size: 22 Copynumber: 2.3 Consensus size: 23
24607042 CTTTCTTCTC
*
24607052 TTCTGTTTCTTTCTTTCTTCTATT
1 TTCTG-TTCTTTCATTCTTCTATT
24607076 TT-TGTTCTTT-ATTCTT-TATTT
1 TTCTGTTCTTTCATTCTTCTA-TT
24607097 TTCTGTT
1 TTCTGTT
24607104 TTATGTCTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 9 0.36
22 10 0.40
23 2 0.08
24 2 0.08
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (23 bp):
TTCTGTTCTTTCATTCTTCTATT
Found at i:24608197 original size:6 final size:6
Alignment explanation
Indices: 24608178--24608254 Score: 81
Period size: 6 Copynumber: 13.2 Consensus size: 6
24608168 TTTAATTTTT
*
24608178 ATTTAA ATTTAA ATTCAA A-TTAA ATTTAAA TATTTAA ATTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTT-AA -ATTTAA ATTTAA ATTTAA
* *
24608227 A-ATAA ATCTAA ATTTAA A--TAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA A
24608255 ATCAATTTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
4 4 0.07
5 8 0.13
6 40 0.67
7 4 0.07
8 4 0.07
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (6 bp):
ATTTAA
Found at i:24608200 original size:17 final size:17
Alignment explanation
Indices: 24608180--24608264 Score: 79
Period size: 17 Copynumber: 5.2 Consensus size: 17
24608170 TAATTTTTAT
24608180 TTAAATTTAAATTCAAA
1 TTAAATTTAAATTCAAA
*
24608197 TTAAATTTAAA-T--AT
1 TTAAATTTAAATTCAAA
*
24608211 TTAAATTTAAATTTAAA
1 TTAAATTTAAATTCAAA
* * *
24608228 ATAAATCTAAATTTAAA
1 TTAAATTTAAATTCAAA
* *
24608245 -TAAATTTAAAATCAAT
1 TTAAATTTAAATTCAAA
24608261 TTAA
1 TTAA
24608265 CTCAAAAGTC
Statistics
Matches: 56, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
14 12 0.21
15 1 0.02
16 13 0.23
17 30 0.54
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (17 bp):
TTAAATTTAAATTCAAA
Found at i:24608212 original size:31 final size:31
Alignment explanation
Indices: 24608177--24608239 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
24608167 TTTTAATTTT
* *
24608177 TATTTAAATTTAAATTCAAATTAAATTTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
*
24608208 TATTTAAATTTAAATTTAAAATAAATCTAAA
1 TATTTAAATTTAAATTCAAAATAAATCTAAA
24608239 T
1 T
24608240 TTAAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTTAAATTTAAATTCAAAATAAATCTAAA
Found at i:24611936 original size:13 final size:13
Alignment explanation
Indices: 24611904--24611936 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
24611894 AATTTGGACC
24611904 TTTAA-TTAAATT
1 TTTAATTTAAATT
24611916 TTTAAATTTAAATT
1 TTT-AATTTAAATT
24611930 TTTAATT
1 TTTAATT
24611937 CAAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 6 0.32
14 10 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TTTAATTTAAATT
Found at i:24613981 original size:10 final size:8
Alignment explanation
Indices: 24613950--24613982 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
24613940 CATCACTTAA
24613950 CATTCT-T
1 CATTCTCT
24613957 CATTCTCT
1 CATTCTCT
24613965 CATTCTCT
1 CATTCTCT
*
24613973 CATCCTCT
1 CATTCTCT
24613981 CA
1 CA
24613983 ATCCTTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.15, C:0.39, G:0.00, T:0.45
Consensus pattern (8 bp):
CATTCTCT
Found at i:24616343 original size:28 final size:28
Alignment explanation
Indices: 24616308--24616373 Score: 75
Period size: 27 Copynumber: 2.4 Consensus size: 28
24616298 GTCTAATTCA
* *
24616308 TTTT-TAATTTTTATGT-GTTTTGTAAGT
1 TTTTATAATTTTTATGTAATTTT-TAAAT
24616335 TTTTATAA-TTTTATGTAATTTTTAAAT
1 TTTTATAATTTTTATGTAATTTTTAAAT
24616362 TTATTATAATTT
1 TT-TTATAATTT
24616374 ATTAATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 18 0.55
28 13 0.39
29 2 0.06
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (28 bp):
TTTTATAATTTTTATGTAATTTTTAAAT
Found at i:24616351 original size:20 final size:18
Alignment explanation
Indices: 24616328--24616393 Score: 57
Period size: 18 Copynumber: 3.6 Consensus size: 18
24616318 TTATGTGTTT
24616328 TGTAAGTTTTTATAATTTTA
1 TGTAA-TTTTTA-AATTTTA
24616348 TGTAATTTTTAAA-TTTA
1 TGTAATTTTTAAATTTTA
*
24616365 TTATAATTTATT-AATTTTCA
1 -TGTAATTT-TTAAATTTT-A
24616385 T-TAATTTTT
1 TGTAATTTTT
24616394 TTGAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
17 6 0.15
18 17 0.41
19 12 0.29
20 6 0.15
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.62
Consensus pattern (18 bp):
TGTAATTTTTAAATTTTA
Found at i:24616372 original size:10 final size:9
Alignment explanation
Indices: 24616308--24616393 Score: 54
Period size: 10 Copynumber: 9.4 Consensus size: 9
24616298 GTCTAATTCA
24616308 TTTT-TAAT
1 TTTTATAAT
*
24616316 TTTTAT-GT
1 TTTTATAAT
*
24616324 GTTTTGTAAGT
1 -TTTTATAA-T
24616335 TTTTATAAT
1 TTTTATAAT
*
24616344 TTTATGTAAT
1 TTT-TATAAT
24616354 TTTTA-AAT
1 TTTTATAAT
24616362 TTATTATAAT
1 TT-TTATAAT
*
24616372 TTAT-TAAT
1 TTTTATAAT
*
24616380 TTTCATTAAT
1 TTTTA-TAAT
24616390 TTTT
1 TTTT
24616394 TTGAAAAAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
8 16 0.27
9 15 0.25
10 27 0.46
11 1 0.02
ACGTcount: A:0.28, C:0.01, G:0.06, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:24616391 original size:28 final size:28
Alignment explanation
Indices: 24616316--24616382 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
24616306 CATTTTTAAT
* *
24616316 TTTTATGT-GTTTTGTAAGTTT-TTATAA
1 TTTTATGTAATTTT-TAAATTTATTATAA
24616343 TTTTATGTAATTTTTAAATTTATTATAA
1 TTTTATGTAATTTTTAAATTTATTATAA
24616371 -TTTAT-TAATTTT
1 TTTTATGTAATTTT
24616383 CATTAATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
26 7 0.19
27 19 0.53
28 10 0.28
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTTATGTAATTTTTAAATTTATTATAA
Found at i:24617413 original size:22 final size:22
Alignment explanation
Indices: 24617383--24617449 Score: 91
Period size: 22 Copynumber: 3.0 Consensus size: 22
24617373 AGAACTAGCA
24617383 ACCTCTCTTGGAAAACCAGCAGC
1 ACCT-TCTTGGAAAACCAGCAGC
*
24617406 ATCTTCTT-GAAATACCAGCAGC
1 ACCTTCTTGGAAA-ACCAGCAGC
*
24617428 ACCTTCTTGGAAAGCCAGCAGC
1 ACCTTCTTGGAAAACCAGCAGC
24617450 CAAGAACCAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
21 4 0.10
22 28 0.72
23 7 0.18
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.21
Consensus pattern (22 bp):
ACCTTCTTGGAAAACCAGCAGC
Found at i:24618841 original size:19 final size:20
Alignment explanation
Indices: 24618814--24618852 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
24618804 TAATTTTAAA
*
24618814 AAATATTTTATTAAGATATT
1 AAATATTTTAATAAGATATT
*
24618834 AAAT-TTTTAATAATATATT
1 AAATATTTTAATAAGATATT
24618853 TTGTGTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATATTTTAATAAGATATT
Found at i:24619208 original size:16 final size:17
Alignment explanation
Indices: 24619187--24619219 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
24619177 ATAATTATAG
24619187 TATTAAA-AATATTTTA
1 TATTAAATAATATTTTA
24619203 TATTAAATTAATATTTT
1 TATTAAA-TAATATTTT
24619220 TAAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTAAATAATATTTTA
Found at i:24621178 original size:29 final size:31
Alignment explanation
Indices: 24621146--24621210 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
24621136 CGCATAACAA
*
24621146 TTCAGGGACTTAAAT-AAAA-ATTTGAATAG
1 TTCAAGGACTTAAATGAAAACATTTGAATAG
* * *
24621175 TTCAATGATTTAAATGAAAACTTTTGAATAG
1 TTCAAGGACTTAAATGAAAACATTTGAATAG
24621206 TTCAA
1 TTCAA
24621211 AGTCAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 12 0.40
30 4 0.13
31 14 0.47
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (31 bp):
TTCAAGGACTTAAATGAAAACATTTGAATAG
Found at i:24625635 original size:41 final size:41
Alignment explanation
Indices: 24625528--24625803 Score: 227
Period size: 41 Copynumber: 6.8 Consensus size: 41
24625518 ATTGCTTAAC
* * * *
24625528 AAACGCCGCTAATGCTCTGACCTTTAACGACGCTTCCTCAT
1 AAACGCCGCTAATGCTCTAACCTTTAGCGGCACTTCCTCAT
* * * * * * *
24625569 AAACGTCGCTAATACTTTAATCTTTAGCGACATTTTCTCAT
1 AAACGCCGCTAATGCTCTAACCTTTAGCGGCACTTCCTCAT
* **
24625610 AAACGCCGCTAATGCTCTAACCTTTAGTGGTGCTTCCTCAT
1 AAACGCCGCTAATGCTCTAACCTTTAGCGGCACTTCCTCAT
* * ** *
24625651 AAATGTCATTAATGCTCTAACCTTTAGTGGCACTTCCTCAT
1 AAACGCCGCTAATGCTCTAACCTTTAGCGGCACTTCCTCAT
* *** * * *
24625692 AAGCGTTACTAGTACACTAACCTTTAGCGGCACTTCCTCA-
1 AAACGCCGCTAATGCTCTAACCTTTAGCGGCACTTCCTCAT
**
24625732 AAAGCGCCGCTAATGCTC-AGACCTTTAGCGAAACTTCCTCAT
1 AAA-CGCCGCTAATGCTCTA-ACCTTTAGCGGCACTTCCTCAT
* *
24625774 AAA-GCCGTTAATGCT-TCGACCTTTAGCGGC
1 AAACGCCGCTAATGCTCT-AACCTTTAGCGGC
24625804 TATTTTACTA
Statistics
Matches: 184, Mismatches: 46, Indels: 11
0.76 0.19 0.05
Matches are distributed among these distances:
40 24 0.13
41 157 0.85
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.30
Consensus pattern (41 bp):
AAACGCCGCTAATGCTCTAACCTTTAGCGGCACTTCCTCAT
Found at i:24628846 original size:20 final size:20
Alignment explanation
Indices: 24628814--24628859 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
24628804 ACATGGTTTA
*
24628814 AATTAAGTATAAATAT-ATTT
1 AATTAAGTATAAAAATGA-TT
24628834 AATTAAG-ATTAAAAATGATT
1 AATTAAGTA-TAAAAATGATT
24628854 AATTAA
1 AATTAA
24628860 AGCTTAATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.07, T:0.39
Consensus pattern (20 bp):
AATTAAGTATAAAAATGATT
Found at i:24635594 original size:18 final size:18
Alignment explanation
Indices: 24635571--24635606 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
24635561 CTTTTAATAA
*
24635571 TAAATTAATATATTTATT
1 TAAATTAATATATGTATT
*
24635589 TAAATTTATATATGTATT
1 TAAATTAATATATGTATT
24635607 AGTACAATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TAAATTAATATATGTATT
Found at i:24637965 original size:16 final size:16
Alignment explanation
Indices: 24637933--24637964 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
24637923 TATCAATCAT
24637933 TAAATATATATTTATA
1 TAAATATATATTTATA
24637949 TAAATA-ATATTT-TA
1 TAAATATATATTTATA
24637963 TA
1 TA
24637965 TCGATATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 6 0.38
16 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAAATATATATTTATA
Found at i:24638434 original size:23 final size:23
Alignment explanation
Indices: 24638408--24638454 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
24638398 TTGATTCAAA
24638408 AATTTTAAAAATTCAAAAAATTT
1 AATTTTAAAAATTCAAAAAATTT
* * *
24638431 AATTTTCAATATTTAAAAAATTT
1 AATTTTAAAAATTCAAAAAATTT
24638454 A
1 A
24638455 TCAATTCTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTTTAAAAATTCAAAAAATTT
Found at i:24643686 original size:19 final size:19
Alignment explanation
Indices: 24643664--24643700 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24643654 TGACTATCAG
*
24643664 ATTATTATTTTATTCATAT
1 ATTATAATTTTATTCATAT
*
24643683 ATTATAATTTTTTTCATA
1 ATTATAATTTTATTCATA
24643701 CAATTCTTTC
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:0.32, C:0.05, G:0.00, T:0.62
Consensus pattern (19 bp):
ATTATAATTTTATTCATAT
Found at i:24645765 original size:107 final size:107
Alignment explanation
Indices: 24645650--24645864 Score: 430
Period size: 107 Copynumber: 2.0 Consensus size: 107
24645640 TTATTCTATT
24645650 ACAATACATATTAAATCAATACTCATATTTGAAATTTTATAAAGAAAAAGAGAAAGTATTGATTT
1 ACAATACATATTAAATCAATACTCATATTTGAAATTTTATAAAGAAAAAGAGAAAGTATTGATTT
24645715 CTAAATGATAAATTGCTCGAACAAAACAAATTTAATATTAAA
66 CTAAATGATAAATTGCTCGAACAAAACAAATTTAATATTAAA
24645757 ACAATACATATTAAATCAATACTCATATTTGAAATTTTATAAAGAAAAAGAGAAAGTATTGATTT
1 ACAATACATATTAAATCAATACTCATATTTGAAATTTTATAAAGAAAAAGAGAAAGTATTGATTT
24645822 CTAAATGATAAATTGCTCGAACAAAACAAATTTAATATTAAA
66 CTAAATGATAAATTGCTCGAACAAAACAAATTTAATATTAAA
24645864 A
1 A
24645865 TTTCAATTGG
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
107 108 1.00
ACGTcount: A:0.51, C:0.09, G:0.08, T:0.32
Consensus pattern (107 bp):
ACAATACATATTAAATCAATACTCATATTTGAAATTTTATAAAGAAAAAGAGAAAGTATTGATTT
CTAAATGATAAATTGCTCGAACAAAACAAATTTAATATTAAA
Found at i:24645785 original size:17 final size:15
Alignment explanation
Indices: 24645749--24645778 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
24645739 AACAAATTTA
24645749 ATATTAAAACAATAC
1 ATATTAAAACAATAC
*
24645764 ATATTAAATCAATAC
1 ATATTAAAACAATAC
24645779 TCATATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (15 bp):
ATATTAAAACAATAC
Found at i:24647696 original size:24 final size:24
Alignment explanation
Indices: 24647669--24647714 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
24647659 ATACAAGTTA
*
24647669 AGAA-GTAAATATGTCAGCGCAATC
1 AGAATGTAAA-ATGTCAGAGCAATC
*
24647693 AGAATGTTAAATGTCAGAGCAA
1 AGAATGTAAAATGTCAGAGCAA
24647715 ATTATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (24 bp):
AGAATGTAAAATGTCAGAGCAATC
Found at i:24653590 original size:18 final size:18
Alignment explanation
Indices: 24653567--24653615 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 18
24653557 TATGATGATA
24653567 TATATGTGATGAACAATG
1 TATATGTGATGAACAATG
24653585 TATATGTGAAATATGAACAATG
1 TATATGTG----ATGAACAATG
24653607 TATATGTGA
1 TATATGTGA
24653616 AATATTATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
18 9 0.33
22 18 0.67
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (18 bp):
TATATGTGATGAACAATG
Found at i:24653600 original size:22 final size:22
Alignment explanation
Indices: 24653575--24653620 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
24653565 TATATATGTG
24653575 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
24653597 ATGAACAATGTATATGTGAAAT
1 ATGAACAATGTATATGTGAAAT
24653619 AT
1 AT
24653621 TATATGTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.46, C:0.04, G:0.17, T:0.33
Consensus pattern (22 bp):
ATGAACAATGTATATGTGAAAT
Found at i:24653932 original size:37 final size:38
Alignment explanation
Indices: 24653865--24653943 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 38
24653855 GTGTCATTAT
* **
24653865 TTTACTTCGGATAGATTCGATGAGGTACTGGGTACCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
* **
24653903 TTTACTTCGGCTAGA-CCGATGAGACACTGGGTGTCAC
1 TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
24653940 TTTA
1 TTTA
24653944 TTGCTTCGAA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
37 21 0.60
38 14 0.40
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (38 bp):
TTTACTTCGGATAGATCCGATGAGACACTGGGTACCAC
Found at i:24665013 original size:2 final size:2
Alignment explanation
Indices: 24665006--24665044 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
24664996 CAATTATTTC
24665006 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
24665045 TGTAAGCTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:24673477 original size:58 final size:59
Alignment explanation
Indices: 24673370--24673504 Score: 175
Period size: 58 Copynumber: 2.3 Consensus size: 59
24673360 TTTACATTTT
* * * * *
24673370 GGTACCTGAACTTGGCTTAAGATTCAAATTGGTATCTAAGATTT-TTTTTGTCCAATTA
1 GGTACATGAACTTGGCTTAAGACTCAAATTAGTACCTAAGATTTATTTTGGTCCAATTA
* * *
24673428 GGTACTTGAACTTGGCTTAAGGCTCAATTTAGTACCTAATG-TTTATTTTGGTCCAATTA
1 GGTACATGAACTTGGCTTAAGACTCAAATTAGTACCTAA-GATTTATTTTGGTCCAATTA
24673487 GGTACATGAACTTGGCTT
1 GGTACATGAACTTGGCTT
24673505 CTTGGTTCAA
Statistics
Matches: 67, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
58 36 0.54
59 31 0.46
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (59 bp):
GGTACATGAACTTGGCTTAAGACTCAAATTAGTACCTAAGATTTATTTTGGTCCAATTA
Found at i:24673516 original size:31 final size:31
Alignment explanation
Indices: 24673475--24673579 Score: 147
Period size: 31 Copynumber: 3.4 Consensus size: 31
24673465 AATGTTTATT
*
24673475 TTGGTCCAATTAGGTACATGAACTTGGCTTC
1 TTGGTCCAATTTGGTACATGAACTTGGCTTC
*
24673506 TTGGTTCAATTTGGTACATGAACTTGGCTTC
1 TTGGTCCAATTTGGTACATGAACTTGGCTTC
* * * * *
24673537 TTGGTTCAATTTGATACTTGAACTTGCCTTT
1 TTGGTCCAATTTGGTACATGAACTTGGCTTC
24673568 TTGGTCCAATTT
1 TTGGTCCAATTT
24673580 AATGCGTAGC
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 67 1.00
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (31 bp):
TTGGTCCAATTTGGTACATGAACTTGGCTTC
Found at i:24673963 original size:6 final size:6
Alignment explanation
Indices: 24673943--24674023 Score: 62
Period size: 6 Copynumber: 13.8 Consensus size: 6
24673933 TTAAATTGGT
* * * *
24673943 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AG CTTAAA TTTAAA TTATTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -T-TTAAA
* *
24673991 -TTAAA TTTAAA TTT-AC TTTAAG TTTAAA TTTAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
24674024 TGTAAAATCA
Statistics
Matches: 58, Mismatches: 11, Indels: 12
0.72 0.14 0.15
Matches are distributed among these distances:
5 15 0.26
6 38 0.66
7 1 0.02
8 4 0.07
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:24673963 original size:17 final size:17
Alignment explanation
Indices: 24673943--24674022 Score: 90
Period size: 17 Copynumber: 4.6 Consensus size: 17
24673933 TTAAATTGGT
24673943 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
**
24673960 TTTAAATTTAGCTTAAA
1 TTTAAATTTATTTTAAA
24673977 TTTAAA-TTATTTAATTAAA
1 TTTAAATTTA-TT--TTAAA
* *
24673996 TTTAAATTTACTTTAAG
1 TTTAAATTTATTTTAAA
24674013 TTTAAATTTA
1 TTTAAATTTA
24674023 ATGTAAAATC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
16 3 0.06
17 35 0.66
19 12 0.23
20 3 0.06
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:24674010 original size:11 final size:11
Alignment explanation
Indices: 24673943--24674023 Score: 60
Period size: 11 Copynumber: 7.5 Consensus size: 11
24673933 TTAAATTGGT
*
24673943 TTTAAATTTAT
1 TTTAAATTTAA
24673954 TTTAAATTTAAA
1 TTTAAATTT-AA
** *
24673966 TTTAGCTTAAA
1 TTTAAATTTAA
24673977 TTTAAA-TT-A
1 TTTAAATTTAA
*
24673986 TTT-AATTAAA
1 TTTAAATTTAA
*
24673996 TTTAAATTTAC
1 TTTAAATTTAA
*
24674007 TTTAAGTTTAAA
1 TTTAAATTT-AA
24674019 TTTAA
1 TTTAA
24674024 TGTAAAATCA
Statistics
Matches: 53, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
8 2 0.04
9 5 0.09
10 5 0.09
11 28 0.53
12 13 0.25
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:24675928 original size:29 final size:29
Alignment explanation
Indices: 24675868--24676195 Score: 328
Period size: 29 Copynumber: 11.3 Consensus size: 29
24675858 TAAAATTTGT
* *
24675868 ATTTTGACCCCCAAACATTTCC-AAAATTAC
1 ATTTTGA-CCCTAAA-ACTTCCAAAAATTAC
* *
24675898 ATTTTGACCCTGAAACTTCTAAAAATTAC
1 ATTTTGACCCTAAAACTTCCAAAAATTAC
*
24675927 ATTTTGACCCTTAAACTTCCAAAAATTAC
1 ATTTTGACCCTAAAACTTCCAAAAATTAC
* *
24675956 ATTTTAACCCTAAAACTTCCAAAAATTAT
1 ATTTTGACCCTAAAACTTCCAAAAATTAC
*
24675985 ATTTTAACCCTAAAACTTCCAAAAATTAC
1 ATTTTGACCCTAAAACTTCCAAAAATTAC
** * *
24676014 ATTTTTG-CCCCCAAACTTCC-AAATTTCC
1 A-TTTTGACCCTAAAACTTCCAAAAATTAC
* * *
24676042 ATTTTTAACCCCAAAACTTCCCAAAATTAC
1 A-TTTTGACCCTAAAACTTCCAAAAATTAC
* *
24676072 ATTTTTACCCCT-AAACTTCCAAAAATTTC
1 ATTTTGA-CCCTAAAACTTCCAAAAATTAC
*
24676101 ATTTT-ACCCTAAAATTTCCAAAAATTAC
1 ATTTTGACCCTAAAACTTCCAAAAATTAC
*
24676129 ATTTTTGCCCCT-AAACTTCCAAAAATTAC
1 A-TTTTGACCCTAAAACTTCCAAAAATTAC
** * * *
24676158 ATTTTTTCCC-CAAACTTCCAAGAATTCC
1 ATTTTGACCCTAAAACTTCCAAAAATTAC
24676186 ATTTTTGACC
1 A-TTTTGACC
24676196 TCGAAACTCT
Statistics
Matches: 255, Mismatches: 33, Indels: 21
0.83 0.11 0.07
Matches are distributed among these distances:
27 4 0.02
28 56 0.22
29 170 0.67
30 25 0.10
ACGTcount: A:0.37, C:0.27, G:0.02, T:0.34
Consensus pattern (29 bp):
ATTTTGACCCTAAAACTTCCAAAAATTAC
Found at i:24676328 original size:59 final size:58
Alignment explanation
Indices: 24676208--24676355 Score: 145
Period size: 59 Copynumber: 2.5 Consensus size: 58
24676198 GAAACTCTCG
* * * * * *
24676208 AAATTACCATTTGACCTCGAATGTCTAAAAATCTCATTTTTGATCCCGATTTTTCTAA
1 AAATTACAATTTTACCTCGAATGTCTAAAAATCTCATTTTTAACCCCAATTTTTCCAA
* * *
24676266 AAATTACAATTTTACCTTCGATTGTCT-AAAATGTCATTTTTAACCCCAAATTTTTCCCA
1 AAATTACAATTTTACC-TCGAATGTCTAAAAATCTCATTTTTAACCCC-AATTTTTCCAA
* * * *
24676325 AAATTACTATTTTGCCCTCGAAAGTCCAAAA
1 AAATTACAATTTT-ACCTCGAATGTCTAAAA
24676356 TTACCATTTT
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
58 31 0.43
59 36 0.50
60 5 0.07
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (58 bp):
AAATTACAATTTTACCTCGAATGTCTAAAAATCTCATTTTTAACCCCAATTTTTCCAA
Found at i:24676400 original size:146 final size:144
Alignment explanation
Indices: 24676234--24676697 Score: 506
Period size: 146 Copynumber: 3.2 Consensus size: 144
24676224 TCGAATGTCT
* * * *
24676234 AAAAA-TCTCATTTTTGATCCCGATTTTTCTAAAAATTACAATTTTACCTTCGATTGTCTAAAAT
1 AAAAAGTCTCATTTTT-ATCCCGATTCTTCCAAAAATTAC-ATTTTACCTTCGAATATCTAAAAT
*
24676298 GTCATTTTTAACCCCAAATTTTTCCCAAAATTACTATTTTGCCCTCGAAAGTCCAAAATTACCAT
64 GTCATTTTTAACCCCAAA-TTTTCCCAAAATTACCATTTTGCCCTCGAAAGTCCAAAATTACCAT
24676363 TTTACCCCCGGACATTC-
128 TTTACCCCCGGACA-TCA
* ** * *
24676380 GAAAAGTCTCATTTTTATCCCGATTCTTCCAAAAATTATCGCTTTACCCTCGAACATCTAAAATG
1 AAAAAGTCTCATTTTTATCCCGATTCTTCCAAAAATTA-CATTTTACCTTCGAATATCTAAAATG
* * * *
24676445 TCATTTCTAACCTCAAATTTTCCCAAAATTACCATTTTGCCCTCGAGAGTCCAAAATTACTATTT
65 TCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCTCGAAAGTCCAAAATTACCATTT
* ** *
24676510 TGCCCTTGGGCATCA
130 TACCCCCGGACATCA
* * * * * * *
24676525 AAAAAGTCCCGTTCTTGATCCCAATTCTTCCAAAATTTACCATTTTACCCTTAG-GTATCTAAAA
1 AAAAAGTCTCATT-TTTATCCCGATTCTTCCAAAAATTA-CATTTTA-CCTTCGAATATCTAAAA
*
24676589 TGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCT-TAAGAGTCCAAAATTACCA
63 TGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCTCGAA-AGTCCAAAATTACCA
* * * *
24676653 TTTTGCCTCCAGG-TATCC
127 TTTTACC-CCCGGACATCA
*
24676671 AAAAAGTCTCGTTTTTTAATCCCGATT
1 AAAAAGTCTC-ATTTTT-ATCCCGATT
24676698 GCACCGTTTT
Statistics
Matches: 265, Mismatches: 44, Indels: 17
0.81 0.13 0.05
Matches are distributed among these distances:
144 2 0.01
145 64 0.24
146 171 0.65
147 28 0.11
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.36
Consensus pattern (144 bp):
AAAAAGTCTCATTTTTATCCCGATTCTTCCAAAAATTACATTTTACCTTCGAATATCTAAAATGT
CATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCTCGAAAGTCCAAAATTACCATTTT
ACCCCCGGACATCA
Found at i:24683097 original size:28 final size:27
Alignment explanation
Indices: 24683066--24683185 Score: 86
Period size: 27 Copynumber: 4.2 Consensus size: 27
24683056 AAAATGAGAC
24683066 TTTTGGATATC-CGGAGGTAAAATGGTAA
1 TTTTGGA-ATCGCGG-GGTAAAATGGTAA
*
24683094 TTTTGGACTCGCGGGGTAAAATGGTAA
1 TTTTGGAATCGCGGGGTAAAATGGTAA
*
24683121 TTTTCGATGAAATCG-GGGTTAAAATGAG-AA
1 TTTT-G--G-AATCGCGGGGTAAAATG-GTAA
* *
24683151 TTTTGGAAAATTCG-AGGGTAAAATAGTAA
1 TTTTGG--AA-TCGCGGGGTAAAATGGTAA
24683180 TTTTGG
1 TTTTGG
24683186 GTTAAATCAA
Statistics
Matches: 77, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
27 20 0.26
28 15 0.19
29 20 0.26
30 17 0.22
31 5 0.06
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (27 bp):
TTTTGGAATCGCGGGGTAAAATGGTAA
Found at i:24683146 original size:30 final size:29
Alignment explanation
Indices: 24683105--24683275 Score: 115
Period size: 30 Copynumber: 5.8 Consensus size: 29
24683095 TTTGGACTCG
*
24683105 CGGGG-TAAAATGGTAATTTTCGATGAAAT
1 CGGGGTTAAAATGG-AATTTTGGATGAAAT
24683134 CGGGGTTAAAATGAGAATTTTGGA--AAATT
1 CGGGGTTAAAATG-GAATTTTGGATGAAA-T
* * *
24683163 CGAGGG-TAAAATAGTAATTTTGGGTTAAAT
1 CG-GGGTTAAAAT-GGAATTTTGGATGAAAT
**
24683193 CAAGGTTAAAAATGGAATTTT---TGAAAGT
1 CGGGGTT-AAAATGGAATTTTGGATGAAA-T
* *
24683221 TGAGGGGTAAAATGGTAATTTTTGG-TGAAAT
1 CG-GGGTTAAAATGG-AA-TTTTGGATGAAAT
24683252 CGGGGTTGAAAATGGAATTTTGGA
1 CGGGGTT-AAAATGGAATTTTGGA
24683276 AAGTTTAGGG
Statistics
Matches: 112, Mismatches: 13, Indels: 33
0.71 0.08 0.21
Matches are distributed among these distances:
27 4 0.04
28 11 0.10
29 35 0.31
30 39 0.35
31 18 0.16
32 5 0.04
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.32
Consensus pattern (29 bp):
CGGGGTTAAAATGGAATTTTGGATGAAAT
Found at i:24683181 original size:29 final size:28
Alignment explanation
Indices: 24683105--24683185 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 28
24683095 TTTGGACTCG
* *
24683105 CGGGGTAAAATGGTAATTTTCGATGAAAT
1 CGGGGTAAAATAGTAATTTTGGA-GAAAT
24683134 CGGGGTTAAAATGAG-AATTTTGGA-AAATT
1 CGGGG-TAAAAT-AGTAATTTTGGAGAAA-T
24683163 CGAGGGTAAAATAGTAATTTTGG
1 CG-GGGTAAAATAGTAATTTTGG
24683186 GTTAAATCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
28 5 0.11
29 22 0.49
30 17 0.38
31 1 0.02
ACGTcount: A:0.36, C:0.05, G:0.28, T:0.31
Consensus pattern (28 bp):
CGGGGTAAAATAGTAATTTTGGAGAAAT
Found at i:24683182 original size:59 final size:59
Alignment explanation
Indices: 24683106--24683363 Score: 324
Period size: 59 Copynumber: 4.4 Consensus size: 59
24683096 TTGGACTCGC
* * *
24683106 GGGGTAAAATGGTAATTTTCGATGAAATCGGGGTT-AAAATGAGAATTTTGGAAAATTCGA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTT-GA
* * * ** *
24683166 -GGGTAAAATAGTAATTTTGGGTTAAATCAAGGTTAAAAATGGAATTTTTGAAAGTTGA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGA
* *
24683224 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTGAAAATGGAATTTTGGAAAGTTTA
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGA
* * * *
24683283 GGGGTAAAATGGTAATTTTTTGTGAGATTGGGGTTAAAAATAGAATTTTGGAAAGTTCG-
1 GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT-GA
*
24683342 GGTGTAAAATGGTAATTTTTGG
1 GGGGTAAAATGGTAATTTTTGG
24683364 ACCATTCAGG
Statistics
Matches: 171, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
58 2 0.01
59 163 0.95
60 6 0.04
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (59 bp):
GGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTGA
Found at i:24683240 original size:29 final size:27
Alignment explanation
Indices: 24683201--24683362 Score: 110
Period size: 29 Copynumber: 5.6 Consensus size: 27
24683191 ATCAAGGTTA
24683201 AAAATGGAATTTTTGAAAGTTGAGGGGT
1 AAAATGGAATTTTTGAAAGTTG-GGGGT
* *
24683229 AAAATGGTAATTTTTGGTGAAA-TCGGGGTT
1 AAAATGG-AA-TTTT--TGAAAGTTGGGGGT
* *
24683259 GAAAATGGAATTTTGGAAAGTTTAGGGGT
1 -AAAATGGAATTTTTGAAAG-TTGGGGGT
** *
24683288 AAAATGGTAATTTTTTGTGAGATTGGGGTT
1 AAAATGG-AA-TTTTTGAAAG-TTGGGGGT
* * *
24683318 AAAAATAGAATTTTGGAAAGTTCGGGTGT
1 -AAAATGGAATTTTTGAAAGTT-GGGGGT
24683347 AAAATGGTAATTTTTG
1 AAAATGG-AATTTTTG
24683363 GACCATTCAG
Statistics
Matches: 102, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
27 4 0.04
28 22 0.22
29 31 0.30
30 25 0.25
31 15 0.15
32 5 0.05
ACGTcount: A:0.33, C:0.01, G:0.30, T:0.36
Consensus pattern (27 bp):
AAAATGGAATTTTTGAAAGTTGGGGGT
Found at i:24683579 original size:161 final size:162
Alignment explanation
Indices: 24683403--24683768 Score: 515
Period size: 162 Copynumber: 2.3 Consensus size: 162
24683393 CAAAGACTGG
* ** *
24683403 GTGACACGTGGCAGCCCCACAG-GCA-TCCAGA-AGTCAAAGGACGAATTTGTAAATCTTGAAAA
1 GTGACACGTGGCAGCCCC-CAGTGCAGT-CAAACAGTCAAAGGACGAATTTAAAAATC-TCAAAA
* * *
24683465 -ATTATTGGGCCAATTTTGTAATTAAGTAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAA
63 GATTACTAGGCCAATTTTGTAATTAAGCAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAA
24683529 AATGACAGGGACTAGACACATAAATAAACCAAAAA
128 AATGACAGGGACTAGACACATAAATAAACCAAAAA
* ** *
24683564 GTGACACGTGGCAGCCTCTGGTGCAGTCAAACAGTCAAAGGACTAATTTAAAAATCTCAAAAGAT
1 GTGACACGTGGCAGCCCCCAGTGCAGTCAAACAGTCAAAGGACGAATTTAAAAATCTCAAAAGAT
* * *
24683629 TCCTAGGTCAATTTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATTAAAAAT
66 TACTAGGCCAATTTTGTAATTAAGCAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAAT
*
24683694 GACAGGGACTAGATACATAAATAAACCAAAAA
131 GACAGGGACTAGACACATAAATAAACCAAAAA
* * *
24683726 GTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGGAC
1 GTGACACGTGGCAGCCCCCAGTGCAGTCAAACAGTCAAAGGAC
24683769 CAAATTGAAA
Statistics
Matches: 184, Mismatches: 17, Indels: 7
0.88 0.08 0.03
Matches are distributed among these distances:
160 1 0.01
161 28 0.15
162 155 0.84
ACGTcount: A:0.43, C:0.16, G:0.19, T:0.23
Consensus pattern (162 bp):
GTGACACGTGGCAGCCCCCAGTGCAGTCAAACAGTCAAAGGACGAATTTAAAAATCTCAAAAGAT
TACTAGGCCAATTTTGTAATTAAGCAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAAT
GACAGGGACTAGACACATAAATAAACCAAAAA
Found at i:24683643 original size:162 final size:162
Alignment explanation
Indices: 24683475--24683768 Score: 543
Period size: 162 Copynumber: 1.8 Consensus size: 162
24683465 ATTATTGGGC
*
24683475 CAATTTTGTAATTAAGTAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGA
1 CAATTTTGTAATTAAGCAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGA
* *
24683540 CTAGACACATAAATAAACCAAAAAGTGACACGTGGCAGCCTCTGGTGCAGTCAAACAGTCAAAGG
66 CTAGACACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGG
24683605 ACTAATTTAAAAATCTCAAAAGATTCCTAGGT
131 ACTAATTTAAAAATCTCAAAAGATTCCTAGGT
*
24683637 CAATTTTGTAATTAAGCAAAAGTTGATTTGAGGATTAAATTAAAACAAATTAAAAATGACAGGGA
1 CAATTTTGTAATTAAGCAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGA
*
24683702 CTAGATACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGG
66 CTAGACACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGG
24683767 AC
131 AC
24683769 CAAATTGAAA
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
162 127 1.00
ACGTcount: A:0.45, C:0.14, G:0.17, T:0.24
Consensus pattern (162 bp):
CAATTTTGTAATTAAGCAAAAGTTGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGA
CTAGACACATAAATAAACCAAAAAGTGACACATGGCAGCCTCTAGTGCAGTCAAACAGTCAAAGG
ACTAATTTAAAAATCTCAAAAGATTCCTAGGT
Found at i:24685458 original size:6 final size:6
Alignment explanation
Indices: 24685438--24685537 Score: 77
Period size: 6 Copynumber: 17.0 Consensus size: 6
24685428 TTAATATTAT
* *
24685438 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TAAGTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA T--TTAAA
** *
24685485 TTTAAA TTTAAGA --TAAA TTTAAA AATAAA TTTAAA ATT-AA TTTAAA
1 TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24685531 CTTTAAA
1 -TTTAAA
24685538 AAATCAAAAG
Statistics
Matches: 74, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
4 3 0.04
5 15 0.20
6 44 0.59
7 7 0.09
8 5 0.07
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:24685461 original size:11 final size:11
Alignment explanation
Indices: 24685438--24685530 Score: 63
Period size: 11 Copynumber: 8.5 Consensus size: 11
24685428 TTAATATTAT
*
24685438 TTTAAATTTAA
1 TTTAAATTAAA
24685449 -TTAAATTTAAA
1 TTTAAA-TTAAA
*
24685460 TTTAAAATAAA
1 TTTAAATTAAA
24685471 TTTAAA-T-AA
1 TTTAAATTAAA
*
24685480 -GTAAATTTAAA
1 TTTAAA-TTAAA
24685491 TTTAAGA-TAAA
1 TTTAA-ATTAAA
*
24685502 TTTAAAAATAAA
1 TTT-AAATTAAA
24685514 TTTAAAATT-AA
1 TTT-AAATTAAA
24685525 TTTAAA
1 TTTAAA
24685531 CTTTAAAAAA
Statistics
Matches: 68, Mismatches: 5, Indels: 19
0.74 0.05 0.21
Matches are distributed among these distances:
8 4 0.06
9 2 0.03
10 10 0.15
11 29 0.43
12 22 0.32
13 1 0.01
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
TTTAAATTAAA
Found at i:24685488 original size:31 final size:29
Alignment explanation
Indices: 24685450--24685539 Score: 117
Period size: 31 Copynumber: 3.0 Consensus size: 29
24685440 TAAATTTAAT
24685450 TAAATTTAAATTTAAAATAAATTTAAATAA
1 TAAATTTAAATTTAAAATAAATTTAAA-AA
*
24685480 GTAAATTTAAATTTAAGATAAATTTAAAAA
1 -TAAATTTAAATTTAAAATAAATTTAAAAA
* **
24685510 TAAATTTAAAATTAATTTAAACTTTAAAAA
1 TAAATTTAAATTTAAAATAAA-TTTAAAAA
24685540 ATCAAAAGCC
Statistics
Matches: 54, Mismatches: 4, Indels: 3
0.89 0.07 0.05
Matches are distributed among these distances:
29 18 0.33
30 10 0.19
31 26 0.48
ACGTcount: A:0.58, C:0.01, G:0.02, T:0.39
Consensus pattern (29 bp):
TAAATTTAAATTTAAAATAAATTTAAAAA
Found at i:24685867 original size:50 final size:48
Alignment explanation
Indices: 24685800--24685893 Score: 143
Period size: 48 Copynumber: 1.9 Consensus size: 48
24685790 TCGAGGCTTC
* *
24685800 ATCTTGCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAAATG
1 ATCTTGCTCGTACTTCAATTTC--AGAGATAAAGACTTGATATCCAAATG
*
24685850 ATCTTGCTCGTATTTCAATTTCAGAGATAAAGACTTGATATCCA
1 ATCTTGCTCGTACTTCAATTTCAGAGATAAAGACTTGATATCCA
24685894 GCTTTATTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 21 0.51
50 20 0.49
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (48 bp):
ATCTTGCTCGTACTTCAATTTCAGAGATAAAGACTTGATATCCAAATG
Found at i:24685949 original size:76 final size:76
Alignment explanation
Indices: 24685845--24686531 Score: 1103
Period size: 76 Copynumber: 9.1 Consensus size: 76
24685835 CTTGCTATCC
* * * *
24685845 AAATGATCTTGCTCGTATTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTATTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24685910 AAGAGGATAGG
66 AAGAGGATAGG
24685921 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24685986 AAGAGGATAGG
66 AAGAGGATAGG
* * * *
24685997 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24686062 AAGAGGATAGG
66 AAGAGGATAGG
* *
24686073 AAATAATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGATATCCAGCTTTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24686138 AAGAGGATAGG
66 AAGAGGATAGG
*
24686149 AAATGATCTTG--C-T-CTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAGTTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24686210 AAGAGGATAGG
66 AAGAGGATAGG
* *
24686221 AAATGATCTTGCTCTTACTTCAATTTCAGAGATGAAGATTTGATATCCGGCTTTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
*
24686286 AAGAGGATATG
66 AAGAGGATAGG
* * * *
24686297 AAATGATCTTGCTTTTACTTCAATTTTAGAGATGAAGATTTGATATCCGGCTTTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
*
24686362 AAGAGGATATG
66 AAGAGGATAGG
* *
24686373 AAATGATCTTGCTCTTACTTCAATTTCAGAGATGAAGATTTGATATCCAACTTTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24686438 AAGAGGATAGG
66 AAGAGGATAGG
* * * * * *
24686449 AAATGATCTTGCTCTTATTTCAATTTCAAAGATAAAGACTTGTTATCCAACTCTACTTCAATTTC
1 AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
24686514 AAGAGGATAGG
66 AAGAGGATAGG
24686525 AAATGAT
1 AAATGAT
24686532 GTTGGATTGA
Statistics
Matches: 575, Mismatches: 32, Indels: 8
0.93 0.05 0.01
Matches are distributed among these distances:
72 68 0.12
73 1 0.00
74 2 0.00
75 1 0.00
76 503 0.87
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (76 bp):
AAATGATCTTGCTCTTACTTCAATTTCAGAGATAAAGATTTGATATCCAGCTTTACTTCAATTTC
AAGAGGATAGG
Found at i:24686171 original size:34 final size:34
Alignment explanation
Indices: 24686128--24686236 Score: 96
Period size: 34 Copynumber: 3.1 Consensus size: 34
24686118 TCCAGCTTTA
24686128 CTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
1 CTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
* ** **
24686162 CTTCAATTTC-AGA-GATAAAGATTTGATATCCAGCTTT
1 CTTCAATTTCAAGAGGAT-AGGAAATG--ATCTTGC--T
*
24686199 ACTTCAGTTTCAAGAGGATAGGAAATGATCTTGCT
1 -CTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
24686234 CTT
1 CTT
24686237 ACTTCAATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 16
0.67 0.13 0.19
Matches are distributed among these distances:
32 3 0.05
33 8 0.14
34 13 0.23
35 6 0.11
37 6 0.11
38 9 0.16
39 8 0.14
40 3 0.05
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (34 bp):
CTTCAATTTCAAGAGGATAGGAAATGATCTTGCT
Found at i:24687076 original size:20 final size:19
Alignment explanation
Indices: 24687037--24687076 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
24687027 TTCATCATCT
* *
24687037 TAATATGAAAATACTTGGA
1 TAATATGAAAATAATGGGA
24687056 TAATATGAGAAATAATGGGA
1 TAATATGA-AAATAATGGGA
24687076 T
1 T
24687077 TGTATTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.47, C:0.03, G:0.20, T:0.30
Consensus pattern (19 bp):
TAATATGAAAATAATGGGA
Found at i:24698629 original size:28 final size:28
Alignment explanation
Indices: 24698598--24698657 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
24698588 GAAATGAGAC
*
24698598 TTTTGGACATCCT-GGGGCAAAATGGTAA
1 TTTTAGAC-TCCTGGGGGCAAAATGGTAA
*
24698626 TTTTAGACTCGTGGGGGCAAAATGGTAA
1 TTTTAGACTCCTGGGGGCAAAATGGTAA
24698654 TTTT
1 TTTT
24698658 TAATGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 3 0.10
28 26 0.90
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
TTTTAGACTCCTGGGGGCAAAATGGTAA
Found at i:24698772 original size:59 final size:59
Alignment explanation
Indices: 24698644--24699013 Score: 419
Period size: 59 Copynumber: 6.3 Consensus size: 59
24698634 TCGTGGGGGC
* ** * *
24698644 AAAATGGTAATTTTTAATGAAATCGAGGTT-AAAA-GAGAATTTTGGAAAATTTGAGGGT
1 AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATG-GAATTTTGGAAAGTTTGAGGGT
* * *
24698702 AAAAT-AGTAATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCGAGGGT
1 AAAATGA-TAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
* * * *
24698761 AAAACGATAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGGAAGTTTGGGGGT
1 AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
* * * *
24698820 AAAACGACAATTTTTGGTGAAA-CTAGGGTTAAAAATGGAATTTT-GAAAGTTTTAGGGGT
1 AAAATGATAATTTTTGGTGAAATC-GGGGTTAAAAATGGAATTTTGGAAAGTTTGA-GGGT
* * * *
24698879 AAAATGGTAATTTTTTGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAATTT-AGGGGT
1 AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGA-GGGT
* * * * *
24698938 AAAATGGTAATTTTTTGTGAGATCGGGGTTAAAAATGGAATTTTGGAAAGTTCGGGGGT
1 AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
*
24698997 AAAATGGTAATTTTTGG
1 AAAATGATAATTTTTGG
24699014 ACCATCCAGG
Statistics
Matches: 273, Mismatches: 30, Indels: 17
0.85 0.09 0.05
Matches are distributed among these distances:
58 32 0.12
59 232 0.85
60 9 0.03
ACGTcount: A:0.35, C:0.03, G:0.28, T:0.34
Consensus pattern (59 bp):
AAAATGATAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTTGAGGGT
Found at i:24698992 original size:29 final size:29
Alignment explanation
Indices: 24698724--24699010 Score: 129
Period size: 29 Copynumber: 9.8 Consensus size: 29
24698714 TTTGGTTAAA
*
24698724 TCGGGGTTAAAAATGGAATTTTGGGAAGT
1 TCGGGGTTAAAAATGGAATTTTGGAAAGT
24698753 TCGAGGG-TAAAACGAT--AATTTTTGGTGAAA--
1 TCG-GGGTTAAAA--ATGGAA-TTTT-G-GAAAGT
* *
24698783 TCAGGGTTAAAAATGGAATTTTGGGAAGT
1 TCGGGGTTAAAAATGGAATTTTGGAAAGT
* * * * *
24698812 TTGGGGGT-AAAACGACAATTTTTGGTGAAA-C
1 TCGGGGTTAAAAATG-GAA-TTTT-G-GAAAGT
*
24698843 T-AGGGTTAAAAATGGAATTTT-GAAAGTTT
1 TCGGGGTTAAAAATGGAATTTTGGAAAG--T
*
24698872 TAGGGG-T-AAAATGGTAATTTTTTGTGAAA-T
1 TCGGGGTTAAAAATGG-AA--TTTTG-GAAAGT
*
24698902 T-GGGGTTAAAAATGGAATTTTGGAAAATT
1 TCGGGGTTAAAAATGGAATTTTGG-AAAGT
* * ** *
24698931 TAGGGG-T-AAAATGGTAATTTTTTGTGAGA
1 TCGGGGTTAAAAATGG-AA-TTTTGGAAAGT
24698960 TCGGGGTTAAAAATGGAATTTTGGAAAGT
1 TCGGGGTTAAAAATGGAATTTTGGAAAGT
*
24698989 TCGGGGGT-AAAATGGTAATTTT
1 TCGGGGTTAAAAATGG-AATTTT
24699011 TGGACCATCC
Statistics
Matches: 196, Mismatches: 27, Indels: 70
0.67 0.09 0.24
Matches are distributed among these distances:
26 4 0.02
27 4 0.02
28 37 0.19
29 67 0.34
30 46 0.23
31 28 0.14
32 6 0.03
33 4 0.02
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (29 bp):
TCGGGGTTAAAAATGGAATTTTGGAAAGT
Found at i:24699011 original size:177 final size:176
Alignment explanation
Indices: 24698638--24699013 Score: 472
Period size: 177 Copynumber: 2.1 Consensus size: 176
24698628 TTAGACTCGT
* ** *
24698638 GGGGGCAAAATGGTAATTTTTAATGAAATCGAGGTTAAAAGAGAATTTTGGAAAATTTGAGGGTA
1 GGGGGTAAAATGGTAATTTTTGGTGAAATAGAGGTTAAAAGAGAATTTTGGAAAATTTGAGGGTA
* * *
24698703 AAATAGTAATTTTTGGTTAAATCGGGGTTAAAAATGGAATTTTGGGAAGTTCGAGGGTAAAACGA
66 AAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTAGAGGGTAAAACGA
* *
24698768 TAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGGAAGTTT
131 TAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
* ** * *
24698814 GGGGGTAAAACGACAATTTTTGGTGAAACTAG-GGTTAAAA-ATGGAATTTT-GAAAGTTTTAGG
1 GGGGGTAAAATGGTAATTTTTGGTGAAA-TAGAGGTTAAAAGA--GAATTTTGGAAAATTTGA-G
* * * *
24698876 GGTAAAATGGTAATTTTTTGTGAAATTGGGGTTAAAAATGGAATTTTGGAAAATTTAG-GGGTAA
62 GGTAAAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGG-AAAGTTAGAGGGTAA
* * * * *
24698940 AATGGTAATTTTTTGTGAGATCGGGGTTAAAAATGGAATTTTGGAAAGTTC
126 AACGATAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
24698991 GGGGGTAAAATGGTAATTTTTGG
1 GGGGGTAAAATGGTAATTTTTGG
24699014 ACCATCCAGG
Statistics
Matches: 169, Mismatches: 26, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
175 1 0.01
176 38 0.22
177 125 0.74
178 5 0.03
ACGTcount: A:0.35, C:0.03, G:0.29, T:0.34
Consensus pattern (176 bp):
GGGGGTAAAATGGTAATTTTTGGTGAAATAGAGGTTAAAAGAGAATTTTGGAAAATTTGAGGGTA
AAATAGTAATTTTTGGTGAAATCGGGGTTAAAAATGGAATTTTGGAAAGTTAGAGGGTAAAACGA
TAATTTTTGGTGAAATCAGGGTTAAAAATGGAATTTTGGAAAGTTC
Found at i:24699378 original size:160 final size:161
Alignment explanation
Indices: 24699084--24699415 Score: 517
Period size: 161 Copynumber: 2.1 Consensus size: 161
24699074 GGCATCCAGA
** * * * *
24699084 AGTCAAAGGACGAATTTGTAAATCTTGAAAAATTCTTGGGCCAATTTTGTAATTAAATAAAAGTT
1 AGTCAAAGGACGAATTTAAAAATCTTCAAAAATTCCTGGGCAAATTTTGTAATTAAACAAAAGTT
*
24699149 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAGGGACTAGACAATAAATAAACCAAAAAG
66 GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAAGGACTAGACAATAAATAAACCAAAAAG
24699214 TGACACGTGGCAGCCTCTGGTGCAGTCAAAC
131 TGACACGTGGCAGCCTCTGGTGCAGTCAAAC
* * *
24699245 AGTCAAAGGACTAATTTAAAAATC-TCAAAAGATTCCTGGGTAAATTTTGTAATTAAGCAAAAGT
1 AGTCAAAGGACGAATTTAAAAATCTTCAAAA-ATTCCTGGGCAAATTTTGTAATTAAACAAAAGT
* *
24699309 TGATTTGAGGATTAAATTAAAACAAATT-AAAATGACAAGGACTAGATACATAAATAAACC-AAA
65 TGATTTAAGGATTAAATTAAAACAAATTAAAAATGACAAGGACTAGACA-ATAAATAAACCAAAA
24699372 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
129 AGTGACACGTGGCAGCCTCTGGTGCAGTCAAAC
24699405 AGTCAAAGGAC
1 AGTCAAAGGAC
24699416 CAAATTGACA
Statistics
Matches: 157, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
160 70 0.45
161 87 0.55
ACGTcount: A:0.44, C:0.14, G:0.18, T:0.25
Consensus pattern (161 bp):
AGTCAAAGGACGAATTTAAAAATCTTCAAAAATTCCTGGGCAAATTTTGTAATTAAACAAAAGTT
GATTTAAGGATTAAATTAAAACAAATTAAAAATGACAAGGACTAGACAATAAATAAACCAAAAAG
TGACACGTGGCAGCCTCTGGTGCAGTCAAAC
Found at i:24701062 original size:13 final size:14
Alignment explanation
Indices: 24701044--24701073 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
24701034 CTTTTGGTTA
24701044 TTTGTAAATGAA-T
1 TTTGTAAATGAACT
24701057 TTTGTAAATGAACT
1 TTTGTAAATGAACT
24701071 TTT
1 TTT
24701074 ATTTATCAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.33, C:0.03, G:0.13, T:0.50
Consensus pattern (14 bp):
TTTGTAAATGAACT
Found at i:24701106 original size:17 final size:17
Alignment explanation
Indices: 24701084--24701150 Score: 91
Period size: 17 Copynumber: 4.0 Consensus size: 17
24701074 ATTTATCAAG
* *
24701084 TTTAATATTATTTTAAA
1 TTTAATATAAATTTAAA
24701101 TTTAAT-TAAATTTAAA
1 TTTAATATAAATTTAAA
*
24701117 TTTAAAATAAATTTAAA
1 TTTAATATAAATTTAAA
*
24701134 TTTAAGATAAATTTAAA
1 TTTAATATAAATTTAAA
24701151 AATAAATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
16 13 0.29
17 32 0.71
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (17 bp):
TTTAATATAAATTTAAA
Found at i:24701115 original size:6 final size:6
Alignment explanation
Indices: 24701095--24701180 Score: 76
Period size: 6 Copynumber: 15.0 Consensus size: 6
24701085 TTAATATTAT
*
24701095 TTTAAA TTT-AA -TTAAA TTTAAA TTTAAA -ATAAA TTTAAA TTTAAGA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAA-A
** *
24701141 --TAAA TTTAAA AATAAA TTTAAA ATT-AA TTTAAA CTTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA -TTTAAA
24701181 AAATCAAAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 15
0.74 0.09 0.17
Matches are distributed among these distances:
4 3 0.05
5 15 0.23
6 39 0.61
7 7 0.11
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (6 bp):
TTTAAA
Found at i:24701118 original size:11 final size:11
Alignment explanation
Indices: 24701096--24701173 Score: 65
Period size: 11 Copynumber: 7.0 Consensus size: 11
24701086 TAATATTATT
24701096 TTAAATTT-AA
1 TTAAATTTAAA
24701106 TTAAATTTAAA
1 TTAAATTTAAA
*
24701117 TTTAAA-ATAAA
1 -TTAAATTTAAA
24701128 TTTAAATTTAAGA
1 -TTAAATTTAA-A
24701141 -TAAATTTAAAA
1 TTAAATTT-AAA
*
24701152 ATAAATTTAAAA
1 TTAAATTT-AAA
24701164 TT-AATTTAAA
1 TTAAATTTAAA
24701174 CTTTAAAAAA
Statistics
Matches: 59, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
10 11 0.19
11 25 0.42
12 22 0.37
13 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.42
Consensus pattern (11 bp):
TTAAATTTAAA
Found at i:24701153 original size:29 final size:29
Alignment explanation
Indices: 24701113--24701182 Score: 97
Period size: 29 Copynumber: 2.4 Consensus size: 29
24701103 TAATTAAATT
*
24701113 TAAATTT-AAAATAAATTTAAATTTAAGA
1 TAAATTTAAAAATAAATTTAAAATTAAGA
**
24701141 TAAATTTAAAAATAAATTTAAAATTAATT
1 TAAATTTAAAAATAAATTTAAAATTAAGA
24701170 TAAACTTTAAAAA
1 TAAA-TTTAAAAA
24701183 ATCAAAAGCC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 7 0.19
29 22 0.59
30 8 0.22
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (29 bp):
TAAATTTAAAAATAAATTTAAAATTAAGA
Found at i:24708076 original size:40 final size:40
Alignment explanation
Indices: 24708022--24708171 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
24708012 AATTTCTATC
*
24708022 CTCT-TGAAATTGTAGTAAAGTTGGATAGTAAGTCTTTAT
1 CTCTCTGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
*** *
24708061 CTCTCTGAAGTTGTAGTAAGAGCAAGATGAAGCATCAAACATCAATTCCTAT
1 CTCTCTGAAGTTGTAGTAA-AGTTGGAT--AG--T--AA-GTC--TT--TAT
*
24708113 C-CTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTAT
1 CTCTC-TGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
*
24708153 CTCTCTAAAGTTGTAGTAA
1 CTCTCTGAAGTTGTAGTAA
24708172 GAGCAAGATG
Statistics
Matches: 85, Mismatches: 11, Indels: 29
0.68 0.09 0.23
Matches are distributed among these distances:
39 4 0.05
40 30 0.35
41 8 0.09
42 2 0.02
43 2 0.02
44 2 0.02
45 3 0.04
47 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 8 0.09
52 18 0.21
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (40 bp):
CTCTCTGAAGTTGTAGTAAAGTTGGATAGTAAGTCTTTAT
Found at i:24708204 original size:92 final size:92
Alignment explanation
Indices: 24707544--24708185 Score: 1126
Period size: 92 Copynumber: 7.0 Consensus size: 92
24707534 TCAGATCAAA
24707544 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAG-CTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
24707608 GAAGTTGTAGTAAGTGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* *
24707635 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTAGATAGTAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
24707700 GAAGTTGTAGTAAGAGCTAGATGAAG-
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* *
24707726 ATCAAACATCAATTCCTATCCTCTTAAAGTTGTAGTAAAGTTGGATAGCAAGTCCTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
24707791 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
*
24707818 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTCATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
24707883 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* * *
24707910 ATCAAACATCAATTCCTATCCTCTTGAACTTGTAGTAAAGTTGGATAGTAAGTCTTCATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
* *
24707975 GAAGTTGTAGTAAGAGCAAGGTAAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
* * *
24708002 ATCAAACATCAATTTCTATCCTCTTGAAATTGTAGTAAAGTTGGATAGTAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
24708067 GAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
24708094 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
1 ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
*
24708159 AAAGTTGTAGTAAGAGCAAGATGAAGC
66 GAAGTTGTAGTAAGAGCAAGATGAAGC
24708186 CTCGACATCA
Statistics
Matches: 524, Mismatches: 25, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
91 136 0.26
92 388 0.74
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.32
Consensus pattern (92 bp):
ATCAAACATCAATTCCTATCCTCTTGAAGTTGTAGTAAAGTTGGATAGCAAGTCTTTATCTCTCT
GAAGTTGTAGTAAGAGCAAGATGAAGC
Found at i:24708694 original size:17 final size:19
Alignment explanation
Indices: 24708654--24708712 Score: 65
Period size: 17 Copynumber: 3.3 Consensus size: 19
24708644 TAAATTGGTT
24708654 TTTAAATTTATCTAATTAAA
1 TTTAAATTTATCT-ATTAAA
*
24708674 TTTAAATTTA-CT-TTAAG
1 TTTAAATTTATCTATTAAA
24708691 TTTAAATTTA---ATTAAA
1 TTTAAATTTATCTATTAAA
24708707 TTTAAA
1 TTTAAA
24708713 ACAATAATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
16 10 0.28
17 14 0.39
19 2 0.06
20 10 0.28
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (19 bp):
TTTAAATTTATCTATTAAA
Found at i:24710632 original size:29 final size:30
Alignment explanation
Indices: 24710499--24710790 Score: 325
Period size: 29 Copynumber: 10.0 Consensus size: 30
24710489 CCTTGAAGGT
* *
24710499 CCCTAAATTGTCCAAAAATTATA-TTTTGAC
1 CCCTAAACT-TCCAAAAATTACATTTTTGAC
* *
24710529 CCCTAAACTTCTCCAAAATTACA-TTTTAAC
1 CCCTAAACTTC-CAAAAATTACATTTTTGAC
* * *
24710559 CCCAAAACTT-CTAAAATTA-AATTTTGAC
1 CCCTAAACTTCCAAAAATTACATTTTTGAC
*
24710587 CCTTAAACTTCCAAAAATTACATTTTTGAC
1 CCCTAAACTTCCAAAAATTACATTTTTGAC
* * *
24710617 CCTTAAACTTCCAAAAATTCCA-TTTTAAC
1 CCCTAAACTTCCAAAAATTACATTTTTGAC
* *
24710646 CCCAAAACTTCCTAAAATTACATTTTT-AC
1 CCCTAAACTTCCAAAAATTACATTTTTGAC
*
24710675 CCCTAAACTTCCAAAAATTCCATTTTT-A-
1 CCCTAAACTTCCAAAAATTACATTTTTGAC
24710703 CCCTAAAACTTCCAAAAATTACATTTTTG-C
1 CCCT-AAACTTCCAAAAATTACATTTTTGAC
24710733 CCCTAAACTTCCAAAAATTACATTTTTG-C
1 CCCTAAACTTCCAAAAATTACATTTTTGAC
* * * *
24710762 CCCCAAACTTTCAAGAATTCCATTTTTGA
1 CCCTAAACTTCCAAAAATTACATTTTTGA
24710791 TCTCGAAACT
Statistics
Matches: 228, Mismatches: 25, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
27 1 0.00
28 26 0.11
29 132 0.58
30 69 0.30
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
CCCTAAACTTCCAAAAATTACATTTTTGAC
Found at i:24710655 original size:87 final size:88
Alignment explanation
Indices: 24710499--24710790 Score: 358
Period size: 87 Copynumber: 3.3 Consensus size: 88
24710489 CCTTGAAGGT
* * * *
24710499 CCCTAAATTGTCCAAAAATTATA-TTTTGACCCCTAAACTTCTCCAAAATTACATTTTAACCCCA
1 CCCTAAACT-TCCAAAAATTACATTTTTGACCCTTAAACTTC-CAAAAATTACATTTTAACCCCA
24710563 AAACTT-CTAAAATTAAATTTTGAC
64 AAACTTCCTAAAATTAAATTTTGAC
* *
24710587 CCTTAAACTTCCAAAAATTACATTTTTGACCCTTAAACTTCCAAAAATTCCATTTTAACCCCAAA
1 CCCTAAACTTCCAAAAATTACATTTTTGACCCTTAAACTTCCAAAAATTACATTTTAACCCCAAA
* *
24710652 ACTTCCTAAAATTACATTTTTAC
66 ACTTCCTAAAATTAAATTTTGAC
* * ** *
24710675 CCCTAAACTTCCAAAAATTCCATTTTT-ACCCTAAAACTTCCAAAAATTACATTTTTGCCCCTAA
1 CCCTAAACTTCCAAAAATTACATTTTTGACCCTTAAACTTCCAAAAATTACATTTTAACCCCAAA
* *
24710739 ACTTCCAAAAATTACATTTTTG-C
66 ACTTCCTAAAATTA-AATTTTGAC
* * * *
24710762 CCCCAAACTTTCAAGAATTCCATTTTTGA
1 CCCTAAACTTCCAAAAATTACATTTTTGA
24710791 TCTCGAAACT
Statistics
Matches: 178, Mismatches: 22, Indels: 8
0.86 0.11 0.04
Matches are distributed among these distances:
87 108 0.61
88 70 0.39
ACGTcount: A:0.37, C:0.26, G:0.03, T:0.35
Consensus pattern (88 bp):
CCCTAAACTTCCAAAAATTACATTTTTGACCCTTAAACTTCCAAAAATTACATTTTAACCCCAAA
ACTTCCTAAAATTAAATTTTGAC
Found at i:24711115 original size:117 final size:118
Alignment explanation
Indices: 24710906--24711162 Score: 356
Period size: 117 Copynumber: 2.2 Consensus size: 118
24710896 CATTTTTAAC
* * ** * * * *
24710906 CCCAAAATTACCATTTTACCCCCGAACATCCGAAAAGTCTTATTTTTTATACCGATTCTTTCGAA
1 CCCAAAATTACCATTTTGCCCCCGAACATCCGAAAAGCCCCATTCTTGATACCGATTCTTCCAAA
* * *
24710971 AATTATCGTTTTACCCCTGAATATCTAAAATGTCATTTTTAACCTCAAATTTT
66 AATTACCATTTTACCCCTGAATATCTAAAATGTCATTTTTAACCCCAAATTTT
* *
24711024 CCCAAAATTACCATTTTGCCCCCGAGCATCC-AAAAGCCCCATTCTTGATCCCGATTCTTCCAAA
1 CCCAAAATTACCATTTTGCCCCCGAACATCCGAAAAGCCCCATTCTTGATACCGATTCTTCCAAA
* *
24711088 AATTACCATTTTA-CCCTTAAGTGTCTAAAATGTCATTTTTAACCCCAAATTTT
66 AATTACCATTTTACCCCTGAA-TATCTAAAATGTCATTTTTAACCCCAAATTTT
24711141 CCCAAAATTACCATTTTGCCCC
1 CCCAAAATTACCATTTTGCCCC
24711163 TAAGAGTCTA
Statistics
Matches: 123, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
116 6 0.05
117 88 0.72
118 29 0.24
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (118 bp):
CCCAAAATTACCATTTTGCCCCCGAACATCCGAAAAGCCCCATTCTTGATACCGATTCTTCCAAA
AATTACCATTTTACCCCTGAATATCTAAAATGTCATTTTTAACCCCAAATTTT
Found at i:24711118 original size:28 final size:28
Alignment explanation
Indices: 24711086--24711190 Score: 97
Period size: 28 Copynumber: 3.7 Consensus size: 28
24711076 GATTCTTCCA
*
24711086 AAAATTACCATTTTACCCTTAAGTGTCT
1 AAAATTACCATTTTACCCCTAAGTGTCT
* * * *
24711114 AAAATGT--CATTTTTAACCCCAAATTTTCCC
1 AAAAT-TACCA-TTTT-ACCCCTAAGTGT-CT
* *
24711144 AAAATTACCATTTTGCCCCTAAGAGTCT
1 AAAATTACCATTTTACCCCTAAGTGTCT
24711172 AAAATTACCATTTTACCCC
1 AAAATTACCATTTTACCCC
24711191 GAGTATCCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
27 2 0.03
28 28 0.47
29 17 0.29
30 10 0.17
31 2 0.03
ACGTcount: A:0.33, C:0.26, G:0.06, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTACCCCTAAGTGTCT
Found at i:24711174 original size:58 final size:58
Alignment explanation
Indices: 24710994--24711176 Score: 192
Period size: 58 Copynumber: 3.1 Consensus size: 58
24710984 CCCCTGAATA
* **
24710994 TCTAAAATGTCATTTTTAACCTCAAATTTTCCCAAAATTACCATTTTGCCCCCGAGCA-
1 TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCTAAG-AG
* * * * * * * * * *
24711052 TCCAAAA-GCCCCATTCTTGATCCC-GATTCTTCCAAAAATTACCATTTTACCCTTAAGTG
1 TCTAAAATG--TCATTTTTAACCCCAAATT-TTCCCAAAATTACCATTTTGCCCCTAAGAG
24711111 TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCTAAGAG
1 TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCTAAGAG
24711169 TCTAAAAT
1 TCTAAAAT
24711177 TACCATTTTA
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
57 1 0.01
58 53 0.55
59 41 0.43
60 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (58 bp):
TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCTAAGAG
Found at i:24711217 original size:117 final size:117
Alignment explanation
Indices: 24710994--24711203 Score: 293
Period size: 117 Copynumber: 1.8 Consensus size: 117
24710984 CCCCTGAATA
* *
24710994 TCTAAAATGTCATTTTTAACCTCAAATTTTCCCAAAATTACCATTTTGCCCCCGAGCATCCAAAA
1 TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCCAAGCATCCAAAA
* * * *
24711059 GCCCCATTCTTGATCCCGATTCTTCCAAAAATTACCATTTTACCCTTAAGTG
66 GCACCATTCTTGACCCCGAGTCATCCAAAAATTACCATTTTACCCTTAAGTG
* *
24711111 TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCTAAG-AGTCTAAA
1 TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCCAAGCA-TCCAAA
**
24711175 ATTACCATT-TT-ACCCCGAGT-ATCCAAAAA
65 AGCACCATTCTTGACCCCGAGTCATCCAAAAA
24711204 GTCTCGTTTT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
114 8 0.10
115 7 0.09
116 3 0.04
117 64 0.78
ACGTcount: A:0.32, C:0.28, G:0.07, T:0.33
Consensus pattern (117 bp):
TCTAAAATGTCATTTTTAACCCCAAATTTTCCCAAAATTACCATTTTGCCCCCAAGCATCCAAAA
GCACCATTCTTGACCCCGAGTCATCCAAAAATTACCATTTTACCCTTAAGTG
Found at i:24720729 original size:22 final size:20
Alignment explanation
Indices: 24720634--24720729 Score: 56
Period size: 22 Copynumber: 4.6 Consensus size: 20
24720624 TAAATTACTT
* *
24720634 TATATTATAATTTTATTTTAA
1 TATATTA-AATTTTAATATAA
*
24720655 TA-A-TCAATTTTAACTATAA
1 TATATTAAATTTTAA-TATAA
*
24720674 TAATTTTAAATTTTACATGAT-A
1 T-ATATTAAATTTTA-AT-ATAA
24720696 T-TATTAACATTTTAATAATAA
1 TATATTAA-ATTTTAAT-ATAA
24720717 TATATTACAATTT
1 TATATTA-AATTT
24720730 ATAAATATTT
Statistics
Matches: 58, Mismatches: 7, Indels: 19
0.69 0.08 0.23
Matches are distributed among these distances:
18 7 0.12
19 6 0.10
20 11 0.19
21 10 0.17
22 20 0.34
23 4 0.07
ACGTcount: A:0.43, C:0.05, G:0.01, T:0.51
Consensus pattern (20 bp):
TATATTAAATTTTAATATAA
Found at i:24722809 original size:16 final size:16
Alignment explanation
Indices: 24722788--24722819 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
24722778 ATAATTTCAG
*
24722788 TATTTTAATTTATTTT
1 TATTTTAAATTATTTT
24722804 TATTTTAAATTATTTT
1 TATTTTAAATTATTTT
24722820 GATCATTAAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTAAATTATTTT
Found at i:24728728 original size:14 final size:14
Alignment explanation
Indices: 24728709--24728738 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24728699 ATAACCAGAC
24728709 AATGAGACAAAATA
1 AATGAGACAAAATA
24728723 AATGAGACAAAATA
1 AATGAGACAAAATA
24728737 AA
1 AA
24728739 ATCTAATTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.07, G:0.13, T:0.13
Consensus pattern (14 bp):
AATGAGACAAAATA
Found at i:24740393 original size:17 final size:17
Alignment explanation
Indices: 24740371--24740405 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
24740361 CTTTAGCTTT
24740371 TTTTATATCATATTATA
1 TTTTATATCATATTATA
*
24740388 TTTTATATCGTATTATA
1 TTTTATATCATATTATA
24740405 T
1 T
24740406 AAATATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.60
Consensus pattern (17 bp):
TTTTATATCATATTATA
Found at i:24740683 original size:6 final size:6
Alignment explanation
Indices: 24740672--24740712 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
24740662 TATGCCGGGG
24740672 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
1 GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGGA GAGGG
24740713 GGTTTCATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.68, T:0.00
Consensus pattern (6 bp):
GAGGGA
Found at i:24741891 original size:21 final size:23
Alignment explanation
Indices: 24741867--24741915 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
24741857 ACATTATAGT
24741867 ATAATT-ATATTGAT-AAAT-TTA
1 ATAATTGA-ATTGATAAAATATTA
*
24741888 ATAATTGAATTGTTAAAATATTA
1 ATAATTGAATTGATAAAATATTA
24741911 ATAAT
1 ATAAT
24741916 AAAAATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.46
22 5 0.21
23 8 0.33
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
ATAATTGAATTGATAAAATATTA
Found at i:24745544 original size:13 final size:13
Alignment explanation
Indices: 24745526--24745591 Score: 62
Period size: 13 Copynumber: 5.1 Consensus size: 13
24745516 AGTTTAGCAT
*
24745526 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
*
24745539 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
24745552 TG-TTTTGGAAAAG
1 TGCTTTT-GAAAAG
* *
24745565 TGATTTTAAAAAG
1 TGCTTTTGAAAAG
**
24745578 TATTTTTGAAAAG
1 TGCTTTTGAAAAG
24745591 T
1 T
24745592 TTGATTTAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.09
13 36 0.82
14 4 0.09
ACGTcount: A:0.35, C:0.03, G:0.21, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:24745571 original size:26 final size:26
Alignment explanation
Indices: 24745536--24745591 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
24745526 TGCTTTTGAG
* *
24745536 AAGTGCTTTTAAAAAGTGTTTTGGAA
1 AAGTGATTTTAAAAAGTATTTTGGAA
*
24745562 AAGTGATTTTAAAAAGTATTTTTGAA
1 AAGTGATTTTAAAAAGTATTTTGGAA
24745588 AAGT
1 AAGT
24745592 TTGATTTAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.02, G:0.20, T:0.39
Consensus pattern (26 bp):
AAGTGATTTTAAAAAGTATTTTGGAA
Found at i:24746503 original size:2 final size:2
Alignment explanation
Indices: 24746496--24746525 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24746486 AAATATAGAA
24746496 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
24746526 TATTTTATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24751940 original size:12 final size:11
Alignment explanation
Indices: 24751924--24751956 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
24751914 TTTTCTTTAG
24751924 ATTTTTTTAAA
1 ATTTTTTTAAA
*
24751935 ATTTTTTTATA
1 ATTTTTTTAAA
24751946 A-TTTTTTAAA
1 ATTTTTTTAAA
24751956 A
1 A
24751957 AATATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTTTTTAAA
Found at i:24751943 original size:21 final size:22
Alignment explanation
Indices: 24751913--24751956 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
24751903 CTTTCTTTAT
*
24751913 ATTTTCTTTAGATTTTTTTAAA
1 ATTTTCTTTAGAATTTTTTAAA
*
24751935 ATTTT-TTTATAATTTTTTAAA
1 ATTTTCTTTAGAATTTTTTAAA
24751956 A
1 A
24751957 AATATATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTTCTTTAGAATTTTTTAAA
Found at i:24751994 original size:19 final size:19
Alignment explanation
Indices: 24751961--24752018 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
24751951 TTAAAAAATA
*
24751961 TATAAA-TTTTCGAATTTT
1 TATAAATTTTTTGAATTTT
24751979 TATAAATTTTTTGAA-TTT
1 TATAAATTTTTTGAATTTT
*
24751997 TAAAAATTATTTTGTAATTTT
1 TATAAATT-TTTTG-AATTTT
24752018 T
1 T
24752019 TTGTTGAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 16 0.47
19 12 0.35
20 2 0.06
21 4 0.12
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (19 bp):
TATAAATTTTTTGAATTTT
Found at i:24754243 original size:16 final size:16
Alignment explanation
Indices: 24754222--24754268 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
24754212 TGAAAAACTA
24754222 AAAAAATAATTAAAAT
1 AAAAAATAATTAAAAT
*
24754238 AAAAAA-ACTTAGAAAT
1 AAAAAATAATTA-AAAT
* *
24754254 TATAAATAATTAAAA
1 AAAAAATAATTAAAA
24754269 ATATATATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
15 4 0.16
16 17 0.68
17 4 0.16
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (16 bp):
AAAAAATAATTAAAAT
Found at i:24754315 original size:29 final size:31
Alignment explanation
Indices: 24754273--24754333 Score: 92
Period size: 29 Copynumber: 2.0 Consensus size: 31
24754263 TTAAAAATAT
24754273 ATATGTCTATAATTATTT-AAAAAA-TTAAAA
1 ATATGTCTATAATT-TTTCAAAAAATTTAAAA
24754303 ATATGT-TATAATTTTTCAAAAAATTTAAAA
1 ATATGTCTATAATTTTTCAAAAAATTTAAAA
24754333 A
1 A
24754334 AATAAAAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 3 0.10
29 13 0.45
30 13 0.45
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.41
Consensus pattern (31 bp):
ATATGTCTATAATTTTTCAAAAAATTTAAAA
Found at i:24754348 original size:18 final size:20
Alignment explanation
Indices: 24754320--24754365 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
24754310 ATAATTTTTC
24754320 AAAAAAT-TTAAAA-A-AAT
1 AAAAAATATTAAAATAGAAT
*
24754337 AAAAAATATTAAAATAGTAT
1 AAAAAATATTAAAATAGAAT
24754357 AAAAAATAT
1 AAAAAATAT
24754366 AAATGATTAG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 7 0.28
18 6 0.24
19 1 0.04
20 11 0.44
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAAAATATTAAAATAGAAT
Found at i:24754366 original size:9 final size:9
Alignment explanation
Indices: 24754320--24754368 Score: 55
Period size: 9 Copynumber: 5.3 Consensus size: 9
24754310 ATAATTTTTC
*
24754320 AAAAAATTT
1 AAAAAATAT
24754329 AAAAAA-AT
1 AAAAAATAT
24754337 AAAAAATATT
1 AAAAAATA-T
*
24754347 AAAATAGTAT
1 AAAA-AATAT
24754357 AAAAAATAT
1 AAAAAATAT
24754366 AAA
1 AAA
24754369 TGATTAGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
8 7 0.21
9 14 0.41
10 10 0.29
11 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (9 bp):
AAAAAATAT
Found at i:24755014 original size:18 final size:19
Alignment explanation
Indices: 24754988--24755029 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24754978 TATTTTAGTG
24754988 ATTTTAATAA-TTTTGT-A
1 ATTTTAATAATTTTTGTAA
24755005 ATTTTAAATAATTTTTGTAA
1 ATTTT-AATAATTTTTGTAA
24755025 ATTTT
1 ATTTT
24755030 TATTTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 6 0.27
20 6 0.27
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (19 bp):
ATTTTAATAATTTTTGTAA
Found at i:24756588 original size:27 final size:27
Alignment explanation
Indices: 24756558--24756611 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
24756548 TTATTTAAAG
24756558 ATCTGTCACATGACATATTCGCCATAT
1 ATCTGTCACATGACATATTCGCCATAT
24756585 ATCTGTCACATGACATATTCGCCATAT
1 ATCTGTCACATGACATATTCGCCATAT
24756612 TTAATGGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (27 bp):
ATCTGTCACATGACATATTCGCCATAT
Found at i:24757543 original size:15 final size:15
Alignment explanation
Indices: 24757523--24757582 Score: 57
Period size: 15 Copynumber: 3.7 Consensus size: 15
24757513 TTTATATATT
* *
24757523 ATTTTAACTTTTTAA
1 ATTTTAAATTTATAA
*
24757538 ATTTTAAATTTATAT
1 ATTTTAAATTTATAA
24757553 ATTTTATAATTTCATAAAA
1 ATTTTA-AATTT-AT--AA
24757572 ATTTTAAATTT
1 ATTTTAAATTT
24757583 TTTAAACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
15 18 0.49
16 5 0.14
17 2 0.05
18 5 0.14
19 7 0.19
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTAAATTTATAA
Found at i:24768806 original size:14 final size:14
Alignment explanation
Indices: 24768787--24768815 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24768777 TTATACAAGT
24768787 ATCGGTAGAAGTTC
1 ATCGGTAGAAGTTC
24768801 ATCGGTAGAAGTTC
1 ATCGGTAGAAGTTC
24768815 A
1 A
24768816 GGATAGGAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (14 bp):
ATCGGTAGAAGTTC
Found at i:24768922 original size:11 final size:11
Alignment explanation
Indices: 24768903--24768974 Score: 58
Period size: 11 Copynumber: 6.5 Consensus size: 11
24768893 CATTTTGAAA
* *
24768903 TTAAATTTATT
1 TTAATTTTAAT
24768914 TTAATTTTAAAT
1 TTAATTTT-AAT
24768926 TT-ATTTTAAAT
1 TTAATTTT-AAT
*
24768937 TCAA-TTTAAT
1 TTAATTTTAAT
*
24768947 TTGAATTTGAAT
1 TT-AATTTTAAT
*
24768959 TTAATTTAAAT
1 TTAATTTTAAT
24768970 TTAAT
1 TTAAT
24768975 ATTATTGTAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
10 4 0.08
11 35 0.69
12 12 0.24
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (11 bp):
TTAATTTTAAT
Found at i:24768923 original size:17 final size:16
Alignment explanation
Indices: 24768903--24768993 Score: 76
Period size: 17 Copynumber: 5.4 Consensus size: 16
24768893 CATTTTGAAA
24768903 TTAAATTTATTTTAATT
1 TTAAATTTATTTTAA-T
*
24768920 TTAAATTTATTTTAAA
1 TTAAATTTATTTTAAT
* *
24768936 TTCAATTTAATTTGAAT
1 TTAAATTT-ATTTTAAT
* *
24768953 TTGAATTTAATTTAAAT
1 TTAAATTT-ATTTTAAT
*
24768970 TT-AATATTATTGTAAAT
1 TTAAAT-TTATT-TTAAT
24768987 TTAAATT
1 TTAAATT
24768994 AAAAATGTCC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
16 13 0.20
17 48 0.75
18 3 0.05
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (16 bp):
TTAAATTTATTTTAAT
Found at i:24768972 original size:6 final size:6
Alignment explanation
Indices: 24768903--24768993 Score: 54
Period size: 6 Copynumber: 16.2 Consensus size: 6
24768893 CATTTTGAAA
* * * *
24768903 TTAAAT TT-ATT TTAATT TTAAAT TT-ATT TTAAA- TTCAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
24768947 TTGAAT TTGAAT TT-AAT TTAAAT TT-AAT ATT--AT TGTAAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT -TTAAAT T-TAAAT TTAAAT
24768993 T
1 T
24768994 AAAAATGTCC
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
4 1 0.01
5 28 0.39
6 39 0.55
7 3 0.04
ACGTcount: A:0.40, C:0.01, G:0.03, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:24769718 original size:6 final size:6
Alignment explanation
Indices: 24769701--24769764 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
24769691 ATTAAATAGC
* * *
24769701 ATTAAT AATAAT ATTAAT AATAAGT A-TAAT ATTAAT AATAA- A-TAAT
1 ATTAAT ATTAAT ATTAAT ATTAA-T ATTAAT ATTAAT ATTAAT ATTAAT
* *
24769747 ATTAGT ATTAAT TTTAAT
1 ATTAAT ATTAAT ATTAAT
24769765 GACTGTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 3 0.06
5 4 0.09
6 38 0.81
7 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (6 bp):
ATTAAT
Found at i:24769718 original size:9 final size:9
Alignment explanation
Indices: 24769706--24769750 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
24769696 ATAGCATTAA
24769706 TAATAATAT
1 TAATAATAT
*
24769715 TAATAATAAG
1 TAATAAT-AT
24769725 T-ATAATAT
1 TAATAATAT
24769733 TAATAATA-
1 TAATAATAT
24769741 -AATAATAT
1 TAATAATAT
24769749 TA
1 TA
24769751 GTATTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 7 0.23
8 2 0.07
9 19 0.63
10 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TAATAATAT
Found at i:24769731 original size:18 final size:16
Alignment explanation
Indices: 24769703--24769750 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 16
24769693 TAAATAGCAT
24769703 TAAT-AATAATATTAA
1 TAATAAATAATATTAA
24769718 TAATAAGTATAATATTAA
1 TAATAA--ATAATATTAA
24769736 TAATAAATAATATTA
1 TAATAAATAATATTA
24769751 GTATTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.13
16 10 0.33
18 16 0.53
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TAATAAATAATATTAA
Found at i:24769800 original size:16 final size:16
Alignment explanation
Indices: 24769779--24769812 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24769769 GTTATAATTG
24769779 ATATTAATAACAATAA
1 ATATTAATAACAATAA
* *
24769795 ATATTATTAATAATAA
1 ATATTAATAACAATAA
24769811 AT
1 AT
24769813 GTTTAATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATTAATAACAATAA
Found at i:24782877 original size:40 final size:40
Alignment explanation
Indices: 24782821--24782971 Score: 117
Period size: 40 Copynumber: 3.5 Consensus size: 40
24782811 CATTTCCTAT
24782821 CCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTC
1 CCTCTTGAAATTGAAGTAAAG-TGGATAACAAGCCTTCGTC
* * * *
24782862 CCTC-TGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTAT
1 CCTCTTGAAATTGAAGTAA-AGT-GGAT-AA-CA--AGC--C---TTCGT-C
24782913 CCTCTTGAAATTGAAGTAAAGTTGGATAACAAGCCTTCGTC
1 CCTCTTGAAATTGAAGTAAAG-TGGATAACAAGCCTTCGTC
*
24782954 CCTC-TAAAATTGAAGTAA
1 CCTCTTGAAATTGAAGTAA
24782972 GAGTAAGAAG
Statistics
Matches: 87, Mismatches: 9, Indels: 29
0.70 0.07 0.23
Matches are distributed among these distances:
40 28 0.32
41 13 0.15
42 6 0.07
43 2 0.02
45 3 0.03
47 3 0.03
49 2 0.02
50 6 0.07
51 9 0.10
52 15 0.17
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (40 bp):
CCTCTTGAAATTGAAGTAAAGTGGATAACAAGCCTTCGTC
Found at i:24782925 original size:92 final size:92
Alignment explanation
Indices: 24782813--24783092 Score: 497
Period size: 92 Copynumber: 3.0 Consensus size: 92
24782803 TCAAACACCA
24782813 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
24782878 AAGAGTAAGATGAAGCACCAACATCAT
66 AAGAGTAAGATGAAGCACCAACATCAT
* *
24782905 TTTCCTATCCTCTTGAAATTGAAGTAAAGTTGGATAACAAGCCTTCGTCCCTCTAAAATTGAAGT
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
* *
24782970 AAGAGTAAGAAGAAGGACCAACATCAT
66 AAGAGTAAGATGAAGCACCAACATCAT
* * *
24782997 TTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCTTTCGTCCCTTTGAAATTGAAGT
1 TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
24783062 AAGAGTAAGATGAAGCACCAACATCAT
66 AAGAGTAAGATGAAGCACCAACATCAT
24783089 TTTC
1 TTTC
24783093 GTCCCTTTAA
Statistics
Matches: 177, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 177 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (92 bp):
TTTCCTATCCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGAAATTGAAGT
AAGAGTAAGATGAAGCACCAACATCAT
Found at i:24783137 original size:141 final size:142
Alignment explanation
Indices: 24782948--24783233 Score: 450
Period size: 141 Copynumber: 2.0 Consensus size: 142
24782938 ATAACAAGCC
* * *
24782948 TTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGGACCAACATCATTTTCCTATTCTCTTGA
1 TTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGCACCAACATCATTTTCCTATCCCCTTGA
* *
24783013 AATTGAAGTAAAGCTGGATAACAAG-CTTTCGTCCCTTTGAAATTGAAGTAAGAGTAAGATGAAG
66 AATTGAAGTAAAGCTGGATAACAAGAC-TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAG
24783077 CACCAACATCATT
130 CACCAACATCATT
* * * *
24783090 TTCGTCCCTTTAAAATT-TAGTAAGAGTAAGATGAAGCACCAATATCATTTTCCTATCCCCTTGA
1 TTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGCACCAACATCATTTTCCTATCCCCTTGA
* *
24783154 AATTGAAGTAAAGCTGGATAACAAGACTTCGTCCCTCTGAAATTGAAGTAAGGGTAAGAAGAAGG
66 AATTGAAGTAAAGCTGGATAACAAGACTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAGC
24783219 ACCAACATCATT
131 ACCAACATCATT
24783231 TTC
1 TTC
24783234 CTATCGTCTT
Statistics
Matches: 132, Mismatches: 11, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
141 115 0.87
142 17 0.13
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (142 bp):
TTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGCACCAACATCATTTTCCTATCCCCTTGA
AATTGAAGTAAAGCTGGATAACAAGACTTCGTCCCTCTGAAATTGAAGTAAGAGTAAGAAGAAGC
ACCAACATCATT
Found at i:24783223 original size:92 final size:92
Alignment explanation
Indices: 24783090--24783325 Score: 375
Period size: 92 Copynumber: 2.6 Consensus size: 92
24783080 CAACATCATT
* * * *
24783090 TTCGTCCCTTTAAAATT-TAGTAAGAGTAAGATGAAGCACCAATATCATTTTCCTATCCCCTTGA
1 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCCCTTGA
24783154 AATTGAAGTAAAGCTGGATAACAAGAC
66 AATTGAAGTAAAGCTGGATAACAAGAC
* * * **
24783181 TTCGTCCCTCTGAAATTGAAGTAAGGGTAAGAAGAAGGACCAACATCATTTTCCTATCGTCTTGA
1 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCCCTTGA
*
24783246 AATTGAAGTAAAGCTGGATAACAAGCC
66 AATTGAAGTAAAGCTGGATAACAAGAC
24783273 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTC
1 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTC
24783326 GTCCCTCTAA
Statistics
Matches: 131, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 15 0.11
92 116 0.89
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (92 bp):
TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCCCTTGA
AATTGAAGTAAAGCTGGATAACAAGAC
Found at i:24783289 original size:233 final size:232
Alignment explanation
Indices: 24782856--24783433 Score: 957
Period size: 233 Copynumber: 2.5 Consensus size: 232
24782846 ATAACAAGCC
*
24782856 TTCGTCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGA
1 TTCGTCCCTCTAAAATT-AAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGA
*
24782921 AATTGAAGTAAAGTTGGATAACAAGCCTTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGG
65 AATTGAAGTAAAGCTGGATAACAAG-CTTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGG
* *
24782986 ACCAACATCATTTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCTTTCGTCCCTTT
129 ACCAACATCATTTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
24783051 GAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATT
194 GAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATT
* * * *
24783090 TTCGTCCCTTTAAAATTTAGTAAGAGTAAGATGAAGCACCAATATCATTTTCCTATCCCCTTGAA
1 TTCGTCCCTCTAAAATTAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAA
* *
24783155 ATTGAAGTAAAGCTGGATAACAAGACTTCGTCCCTCTGAAATTGAAGTAAGGGTAAGAAGAAGGA
66 ATTGAAGTAAAGCTGGATAACAAG-CTTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGGA
24783220 CCAACATCATTTTCCTA-TCGTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
130 CCAACATCATTTTCCTATTC-TCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCT
24783284 GAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATT
194 GAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATT
* *
24783323 TTCGTCCCTCTAAAATTGAGTAAGAGTAAGATGAAGCACCAACATCA-TTTCCTATGCTCTTGAA
1 TTCGTCCCTCTAAAATTAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAA
* * *
24783387 ATTGAAGTAGAGCTGAATATCAAG--TCGTCCCTCTAAAATTGAAGTAA
66 ATTGAAGTAAAGCTGGATAACAAGCTTCGTCCCTCTAAAATTGAAGTAA
24783434 CAGCAAGACG
Statistics
Matches: 323, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
229 22 0.07
232 38 0.12
233 248 0.77
234 15 0.05
ACGTcount: A:0.36, C:0.19, G:0.18, T:0.28
Consensus pattern (232 bp):
TTCGTCCCTCTAAAATTAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCCTATCCTCTTGAA
ATTGAAGTAAAGCTGGATAACAAGCTTCGTCCCTCTAAAATTGAAGTAAGAGTAAGAAGAAGGAC
CAACATCATTTTCCTATTCTCTTGAAATTGAAGTAAAGCTGGATAACAAGCCTTCGTCCCTCTGA
AATTGAAGTAAGAGTAAGATGAAGCACCAACATCATT
Found at i:24783389 original size:50 final size:49
Alignment explanation
Indices: 24783277--24783391 Score: 160
Period size: 49 Copynumber: 2.3 Consensus size: 49
24783267 CAAGCCTTCG
* *
24783277 TCCCTCTGAAATTGAAGTAAGAGTAAGATGAAGCACCAACATCATTTTCG
1 TCCCTCTGAAATTG-AGTAAGAGTAAGATGAAGCACCAACATCATTTCCA
*
24783327 TCCCTCTAAAATTGAGTAAGAGTAAGATGAAGCACCAACATCATTTCCTA
1 TCCCTCTGAAATTGAGTAAGAGTAAGATGAAGCACCAACATCATTTCC-A
*
24783377 T-GCTCTTGAAATTGA
1 TCCCTC-TGAAATTGA
24783392 AGTAGAGCTG
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
49 36 0.62
50 22 0.38
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (49 bp):
TCCCTCTGAAATTGAGTAAGAGTAAGATGAAGCACCAACATCATTTCCA
Found at i:24783721 original size:11 final size:11
Alignment explanation
Indices: 24783705--24783759 Score: 76
Period size: 11 Copynumber: 5.0 Consensus size: 11
24783695 CATTTTGAAA
*
24783705 TTAAATTTATT
1 TTAAATTTAAT
24783716 TTAAATTTAAT
1 TTAAATTTAAT
24783727 TT-AATTTGAAT
1 TTAAATTT-AAT
*
24783738 TTGAATTTAAT
1 TTAAATTTAAT
24783749 TTAAATTTAAT
1 TTAAATTTAAT
24783760 ATTATTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
10 5 0.12
11 30 0.75
12 5 0.12
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:24783725 original size:17 final size:16
Alignment explanation
Indices: 24783696--24783775 Score: 79
Period size: 17 Copynumber: 4.8 Consensus size: 16
24783686 AGCCCAAACC
*
24783696 ATTTTGAAATTAAATTT
1 ATTTT-AAATTTAATTT
24783713 ATTTTAAATTTAATTT
1 ATTTTAAATTTAATTT
* *
24783729 AATTTGAATTTGAATTT
1 ATTTTAAATTT-AATTT
*
24783746 AATTTAAATTTAATATT
1 ATTTTAAATTTAAT-TT
* *
24783763 ATTGTAATTTTAA
1 ATTTTAAATTTAA
24783776 ATTAAAAATG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
16 22 0.41
17 32 0.59
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (16 bp):
ATTTTAAATTTAATTT
Found at i:24783738 original size:6 final size:5
Alignment explanation
Indices: 24783703--24783772 Score: 61
Period size: 5 Copynumber: 13.0 Consensus size: 5
24783693 ACCATTTTGA
* *
24783703 AATTA AATTT ATTTT AAATTT AATTT AATTT GAATTT GAATTT AATTT
1 AATTT AATTT AATTT -AATTT AATTT AATTT -AATTT -AATTT AATTT
24783751 AAATTT AATATT -ATTGT AATTT
1 -AATTT AAT-TT AATT-T AATTT
24783773 TAAATTAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
4 1 0.02
5 30 0.54
6 25 0.45
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (5 bp):
AATTT
Found at i:24784503 original size:6 final size:6
Alignment explanation
Indices: 24784486--24784549 Score: 53
Period size: 6 Copynumber: 11.0 Consensus size: 6
24784476 ATTAAATAGC
* * *
24784486 ATTAAT AATAAT ATTAAT AATAAGT A-TAAT ATTAAT AATAA- A-TAAT
1 ATTAAT ATTAAT ATTAAT ATTAA-T ATTAAT ATTAAT ATTAAT ATTAAT
* *
24784532 ATTAGT ATTAAT TTTAAT
1 ATTAAT ATTAAT ATTAAT
24784550 GACTGTTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
4 3 0.06
5 4 0.09
6 38 0.81
7 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (6 bp):
ATTAAT
Found at i:24784503 original size:9 final size:9
Alignment explanation
Indices: 24784491--24784535 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
24784481 ATAGCATTAA
24784491 TAATAATAT
1 TAATAATAT
*
24784500 TAATAATAAG
1 TAATAAT-AT
24784510 T-ATAATAT
1 TAATAATAT
24784518 TAATAATA-
1 TAATAATAT
24784526 -AATAATAT
1 TAATAATAT
24784534 TA
1 TA
24784536 GTATTAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
7 7 0.23
8 2 0.07
9 19 0.63
10 2 0.07
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (9 bp):
TAATAATAT
Found at i:24784516 original size:18 final size:16
Alignment explanation
Indices: 24784488--24784535 Score: 71
Period size: 18 Copynumber: 2.9 Consensus size: 16
24784478 TAAATAGCAT
24784488 TAAT-AATAATATTAA
1 TAATAAATAATATTAA
24784503 TAATAAGTATAATATTAA
1 TAATAA--ATAATATTAA
24784521 TAATAAATAATATTA
1 TAATAAATAATATTA
24784536 GTATTAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.13
16 10 0.33
18 16 0.53
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (16 bp):
TAATAAATAATATTAA
Found at i:24784585 original size:16 final size:16
Alignment explanation
Indices: 24784564--24784597 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
24784554 GTTATAATTG
24784564 ATATTAATAACAATAA
1 ATATTAATAACAATAA
* *
24784580 ATATTATTAATAATAA
1 ATATTAATAACAATAA
24784596 AT
1 AT
24784598 GTTTAATAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATATTAATAACAATAA
Found at i:24787720 original size:24 final size:24
Alignment explanation
Indices: 24787669--24787720 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24787659 TTCGTAAGCC
* *
24787669 AAATAAATTATGCTAATAAATGCA
1 AAATAAATTATACTAATAAATACA
* *
24787693 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACA
24787717 AAAT
1 AAAT
24787721 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACA
Found at i:24790487 original size:7 final size:6
Alignment explanation
Indices: 24790446--24790525 Score: 71
Period size: 6 Copynumber: 14.0 Consensus size: 6
24790436 TTATTATTGT
* *
24790446 TTTAAA TTT-AA -TTAAA TTTAAA CTTAAA -CTAAA TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
** *
24790492 TTT-AA GCTAAA TTTAAA TTTAAA -ATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
24790526 ACCAATTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
4 2 0.03
5 15 0.25
6 36 0.61
7 6 0.10
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (6 bp):
TTTAAA
Found at i:24790504 original size:17 final size:17
Alignment explanation
Indices: 24790481--24790525 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
24790471 AAACTAAATT
*
24790481 ATAAATTTAAATTTAAG
1 ATAAATTTAAATTTAAA
*
24790498 CTAAATTTAAATTTAAA
1 ATAAATTTAAATTTAAA
24790515 ATAAATTTAAA
1 ATAAATTTAAA
24790526 ACCAATTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
ATAAATTTAAATTTAAA
Found at i:24790516 original size:24 final size:23
Alignment explanation
Indices: 24790457--24790514 Score: 89
Period size: 24 Copynumber: 2.5 Consensus size: 23
24790447 TTAAATTTAA
*
24790457 TTAAATTTAAACTTAAACTAAAT
1 TTAAATTTAAATTTAAACTAAAT
*
24790480 TATAAATTTAAATTTAAGCTAAAT
1 T-TAAATTTAAATTTAAACTAAAT
24790504 TTAAATTTAAA
1 TTAAATTTAAA
24790515 ATAAATTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
23 11 0.34
24 21 0.66
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (23 bp):
TTAAATTTAAATTTAAACTAAAT
Found at i:24791244 original size:92 final size:92
Alignment explanation
Indices: 24791130--24792172 Score: 1743
Period size: 92 Copynumber: 11.4 Consensus size: 92
24791120 TCGAAGCTTT
*
24791130 ATCTTGCTCTCACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
*
24791195 AGTATAGGAATTGATGTTTGAAACTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
* *
24791222 ATCTTTCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTTAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
24791287 AGGATAGGAATTGATGTTTGAAACTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
*
24791314 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTTCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
*
24791379 AGAATAGGAATTGATGTTTGAAACTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
* *
24791406 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTCCTATCCAACTTTACTACAAGTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
*
24791471 AGGATAGG----GA---TTG--ATTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
24791489 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
24791554 AGGATA-GAGATTGATGTTTGAAACTTC
66 AGGATAGGA-ATTGATGTTTGAAACTTC
*
24791581 ATCTTGCTCTTACTACAACTTTAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
*
24791646 AGGATAGGAATTGAGGTTTGAAACTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
* *
24791673 ATCTTGTTCTTATTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
24791738 AGGATA-GAGATTGATGTTTGAAACTTC
66 AGGATAGGA-ATTGATGTTTGAAACTTC
* *
24791765 ATCTTGTTCTTACTACATCTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
*
24791830 AGGATATGAATTGATGTTTGAAACTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
*
24791857 ATCTTGCTCTTACTACAACTTCAAAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
24791922 AGGATA-GAGATTGATGTTTGAAACTTC
66 AGGATAGGA-ATTGATGTTTGAAACTTC
* *
24791949 ATCTTGCTCTTACTACAACATCAGAGAGATAAAGACTTGCTATCTAACTTTACTACAACTTCAAG
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
*
24792014 AGGATAGGAATTGAGGTTTGAAACTTC
66 AGGATAGGAATTGATGTTTGAAACTTC
*
24792041 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAA
1 ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
24792106 AGGATA-GAGATTGATGTTTGAAACTTC
66 AGGATAGGA-ATTGATGTTTGAAACTTC
*
24792133 ATCTTACTCTTACTACAACTTCAGAGAGAGATAAAGACTT
1 ATCTTGCTCTTACTACAACTTC--AGAGAGATAAAGACTT
24792173 TTACCTTTTG
Statistics
Matches: 898, Mismatches: 35, Indels: 34
0.93 0.04 0.04
Matches are distributed among these distances:
82 1 0.00
83 73 0.08
85 3 0.00
87 2 0.00
88 2 0.00
90 3 0.00
91 6 0.01
92 786 0.88
93 6 0.01
94 16 0.02
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.32
Consensus pattern (92 bp):
ATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTACAACTTCAAG
AGGATAGGAATTGATGTTTGAAACTTC
Found at i:24791459 original size:40 final size:39
Alignment explanation
Indices: 24791415--24791555 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 39
24791405 CATCTTGCTC
24791415 TTACTACAACTTCAGAGAGATAAAGACTTCCTATCCAACT
1 TTACTACAACTTCA-AGAGATAAAGACTTCCTATCCAACT
* * * ***
24791455 TTACTACAAGTTCAAGAGGATAGGGATTGA-TTTC-ATCTTGCT
1 TTACTACAACTTCAAGA-GATA---A-AGACTTCCTATCCAACT
*
24791497 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACT
1 -TTACTACAACTTCA-AGAGATAAAGACTTCCTATCCAACT
24791538 TTACTACAACTTCAAGAG
1 TTACTACAACTTCAAGAG
24791556 GATAGAGATT
Statistics
Matches: 80, Mismatches: 12, Indels: 19
0.72 0.11 0.17
Matches are distributed among these distances:
39 9 0.11
40 35 0.44
41 5 0.06
42 5 0.06
43 21 0.26
44 5 0.06
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (39 bp):
TTACTACAACTTCAAGAGATAAAGACTTCCTATCCAACT
Found at i:24791977 original size:46 final size:46
Alignment explanation
Indices: 24791927--24792161 Score: 120
Period size: 46 Copynumber: 5.1 Consensus size: 46
24791917 TCAAGAGGAT
* *
24791927 AGAGATTGATGTTTGAAACTTCATCTTGCTCTTACTACAACATCAG
1 AGAGATTGAAGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAG
* * **
24791973 AGAGA-TAAAGACTTG---C-T-ATCTAACT-TTACTACAACTTCAAG
1 AGAGATTGAAG-TTTGAAACTTCATCTTGCTCTTACTACAACTTC-AG
*
24792014 AGGATAGGAATTGAGGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAG
1 A-G--A-G-ATTGAAGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAG
* * ***
24792065 AGAGA-TAAAGACTTG---C-T-ATCCAACT-TTACTACAACTTCAAAAGG
1 AGAGATTGAAG-TTTGAAACTTCATCTTGCTCTTACTACAACTTC---A-G
* *
24792109 ATAGAGATTGATGTTTGAAACTTCATCTTACTCTTACTACAACTTCAG
1 --AGAGATTGAAGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAG
24792157 AGAGA
1 AGAGA
24792162 GATAAAGACT
Statistics
Matches: 139, Mismatches: 22, Indels: 56
0.64 0.10 0.26
Matches are distributed among these distances:
40 25 0.18
41 14 0.10
42 3 0.02
43 3 0.02
44 2 0.01
45 7 0.05
46 29 0.21
47 7 0.05
48 2 0.01
49 3 0.02
50 3 0.02
51 15 0.11
52 26 0.19
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (46 bp):
AGAGATTGAAGTTTGAAACTTCATCTTGCTCTTACTACAACTTCAG
Found at i:24792002 original size:40 final size:40
Alignment explanation
Indices: 24791958--24792103 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 40
24791948 CATCTTGCTC
*
24791958 TTACTACAACATCAGAGAGATAAAGACTTGCTATCTAACT
1 TTACTACAACTTCAGAGAGATAAAGACTTGCTATCTAACT
* **
24791998 TTACTACAACTTCA-AGAGGATAGGAATTGAGGTTTGAAACTTCATCTTGCT
1 TTACTACAACTTCAGAGA-GATA--AA--GA--CTTG---C-T-ATCTAACT
*
24792049 CTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACT
1 -TTACTACAACTTCAGAGAGATAAAGACTTGCTATCTAACT
24792090 TTACTACAACTTCA
1 TTACTACAACTTCA
24792104 AAAGGATAGA
Statistics
Matches: 84, Mismatches: 8, Indels: 28
0.70 0.07 0.23
Matches are distributed among these distances:
39 3 0.04
40 31 0.37
41 5 0.06
42 3 0.04
43 1 0.01
44 2 0.02
46 6 0.07
48 2 0.02
49 1 0.01
50 3 0.04
51 6 0.07
52 18 0.21
53 3 0.04
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.30
Consensus pattern (40 bp):
TTACTACAACTTCAGAGAGATAAAGACTTGCTATCTAACT
Found at i:24792412 original size:50 final size:50
Alignment explanation
Indices: 24792167--24792414 Score: 155
Period size: 50 Copynumber: 4.9 Consensus size: 50
24792157 AGAGAGATAA
* * * * ** *
24792167 AGACTTTTACCTTTTGTCTTTTTGCGGTACTAGATCTACCGTTACAGTCTT
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTT-GTGACTT
* * * * * *
24792218 AGATCTTTCCCGTTGTGTC-TTCTGGGGTACATGG-TCCACTGTTGCGACTT
1 AGACCTTTCCC-TTTTGTCTTTTTGCGGTAC-TGGATCCACCGTTGTGACTT
* * * *
24792268 AGACCTTTCCCTTTTATCTTTTTGCGATACTGGATCCACCATTACG-GTCTT
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTT--GTGACTT
** * ** * * * **
24792319 AGATATTTCTCATCGTGTC-TTCTGAGGTACACGG-TCCGTCGTTGTGACTT
1 AGACCTTTC-CCTTTTGTCTTTTTGCGGTAC-TGGATCCACCGTTGTGACTT
24792369 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTTGTG
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTTGTG
24792415 GTTTTAGATC
Statistics
Matches: 141, Mismatches: 45, Indels: 23
0.67 0.22 0.11
Matches are distributed among these distances:
49 17 0.12
50 59 0.42
51 49 0.35
52 16 0.11
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (50 bp):
AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTTGTGACTT
Found at i:24792423 original size:101 final size:101
Alignment explanation
Indices: 24792167--24792411 Score: 330
Period size: 101 Copynumber: 2.4 Consensus size: 101
24792157 AGAGAGATAA
* * * * * * * *
24792167 AGACTTTTACCTTTTGTCTTTTTGCGGTACTAGATCTACCGTTACAGTCTTAGATCTTTCCCGTT
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTTACGGTCTTAGATATTTCCCATC
* *
24792232 GTGTCTTCTGGGGTACATGGTCCACTGTTGCGACTT
66 GTGTCTTCTGAGGTACACGGTCCACTGTTGCGACTT
* * * *
24792268 AGACCTTTCCCTTTTATCTTTTTGCGATACTGGATCCACCATTACGGTCTTAGATATTTCTCATC
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTTACGGTCTTAGATATTTCCCATC
* *
24792333 GTGTCTTCTGAGGTACACGGTCC-GTCGTTGTGACTT
66 GTGTCTTCTGAGGTACACGGTCCACT-GTTGCGACTT
24792369 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTT
1 AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTT
24792412 GTGGTTTTAG
Statistics
Matches: 124, Mismatches: 19, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
100 1 0.01
101 123 0.99
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (101 bp):
AGACCTTTCCCTTTTGTCTTTTTGCGGTACTGGATCCACCGTTACGGTCTTAGATATTTCCCATC
GTGTCTTCTGAGGTACACGGTCCACTGTTGCGACTT
Done.