Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 90 of 182
Found at i:27155278 original size:49 final size:49
Alignment explanation
Indices: 27155220--27155317 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
27155210 TAGAAATCCA
27155220 AAAAGAGAGGAAATTGATATCATCCCCTCCAATTTTTCCTTGGAATTGC
1 AAAAGAGAGGAAATTGATATCATCCCCTCCAATTTTTCCTTGGAATTGC
*
27155269 AAAAGAGAGGAAATTGATATCATCCCCTCCACTTTTTCCTTGGAATTGC
1 AAAAGAGAGGAAATTGATATCATCCCCTCCAATTTTTCCTTGGAATTGC
27155318 GTGCTTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (49 bp):
AAAAGAGAGGAAATTGATATCATCCCCTCCAATTTTTCCTTGGAATTGC
Found at i:27157788 original size:22 final size:22
Alignment explanation
Indices: 27157760--27157932 Score: 195
Period size: 22 Copynumber: 7.5 Consensus size: 22
27157750 NNNNNNNNTG
27157760 ATGCTGTCCATTTTAATGTATA
1 ATGCTGTCCATTTTAATGTATA
*
27157782 ATGCTGTCCAATTTTGA-GTATA
1 ATGCTGTCC-ATTTTAATGTATA
27157804 TTGATGCTGTCCATTTTAATGTATA
1 ---ATGCTGTCCATTTTAATGTATA
*
27157829 ATGCTGTCCAATTTTGAGTGTACTA
1 ATGCTGTCC-ATTTT-AATGTA-TA
*
27157854 ATGCTGTCCATTTTAATGTATG
1 ATGCTGTCCATTTTAATGTATA
* *
27157876 ATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCC-ATTTT-AATGTA-TA
*
27157901 ATGCTGTCCATTTTAATATATA
1 ATGCTGTCCATTTTAATGTATA
27157923 ATGCTGTCCA
1 ATGCTGTCCA
27157933 ATTGTGAGTA
Statistics
Matches: 131, Mismatches: 9, Indels: 22
0.81 0.06 0.14
Matches are distributed among these distances:
22 44 0.34
23 25 0.19
24 26 0.20
25 36 0.27
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (22 bp):
ATGCTGTCCATTTTAATGTATA
Found at i:27157827 original size:47 final size:47
Alignment explanation
Indices: 27157760--27158168 Score: 498
Period size: 47 Copynumber: 8.7 Consensus size: 47
27157750 NNNNNNNNTG
* * *
27157760 ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTATATTG
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* * * * *
27157807 ATGCTGTCCATTTTAATGTATAATGCTGTCCAATTTTGAGTGTACTA
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* * * * *
27157854 ATGCTGTCCATTTTAATGTATGATGCTGTCCAATTTTGAGTGTATTG
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* * * *
27157901 ATGCTGTCCATTTTAATATATAATGCTGTCCAATTGTGAGTATATTT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* * * *
27157948 AAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* * * *
27157995 AAGCTGTCTAATTTGATTTATAATGCTGTCCAATTGTGAGTATATTT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* *
27158042 AAGCTGTCTAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* * *
27158089 AAGCTGTCTAATTTGATGTATAATGCTGTCC-ATTTTGAGCATA-TT
1 ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
* *
27158134 ATTGCTGTCCAATTTGTTGAATAATTGCTGTCCAA
1 A-TGCTGTCCAATTTGATGTATAA-TGCTGTCCAA
27158169 AACAGGGTTG
Statistics
Matches: 336, Mismatches: 23, Indels: 5
0.92 0.06 0.01
Matches are distributed among these distances:
45 3 0.01
46 29 0.09
47 303 0.90
48 1 0.00
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (47 bp):
ATGCTGTCCAATTTGATGTATAATGCTGTCCAATTTTGAGTATATTT
Found at i:27158164 original size:23 final size:23
Alignment explanation
Indices: 27157761--27158168 Score: 139
Period size: 22 Copynumber: 17.4 Consensus size: 23
27157751 NNNNNNNTGA
* * *
27157761 TGCTGTCCATTTTAATGTATAA-
1 TGCTGTCCAATTTGATGAATAAT
* *
27157783 TGCTGTCCAATTTTGA-GTATATT
1 TGCTGTCCAA-TTTGATGAATAAT
* * *
27157806 GATGCTGTCCATTTTAATGTATAA-
1 --TGCTGTCCAATTTGATGAATAAT
*
27157830 TGCTGTCCAATTTTGAGTGTACTAA-
1 TGCTGTCCAA-TTTGA-TG-AATAAT
* * * *
27157855 TGCTGTCCATTTTAATGTATGA-
1 TGCTGTCCAATTTGATGAATAAT
* *
27157877 TGCTGTCCAATTTTGAGTGTATTGA-
1 TGCTGTCCAA-TTTGA-TG-AATAAT
* *
27157902 TGCTGTCCATTTTAAT-ATATAA-
1 TGCTGTCCAATTTGATGA-ATAAT
* *
27157924 TGCTGTCCAATTGTGA-GTATATT
1 TGCTGTCCAATT-TGATGAATAAT
* **
27157947 TAAGCTGTCTAATTTGATTTATAA-
1 T--GCTGTCCAATTTGATGAATAAT
* *
27157971 TGCTGTCCAATTGTGA-GTATATT
1 TGCTGTCCAATT-TGATGAATAAT
* **
27157994 TAAGCTGTCTAATTTGATTTATAA-
1 T--GCTGTCCAATTTGATGAATAAT
* *
27158018 TGCTGTCCAATTGTGA-GTATATT
1 TGCTGTCCAATT-TGATGAATAAT
* *
27158041 TAAGCTGTCTAATTTGATGTATAA-
1 T--GCTGTCCAATTTGATGAATAAT
* *
27158065 TGCTGTCCAATTTTGA-GTATATT
1 TGCTGTCCAA-TTTGATGAATAAT
* *
27158088 TAAGCTGTCTAATTTGATGTATAA-
1 T--GCTGTCCAATTTGATGAATAAT
* *
27158112 TGCTGTCCATTTTGA-GCATATTAT
1 TGCTGTCCAATTTGATG-A-ATAAT
*
27158136 TGCTGTCCAATTTGTTGAATAAT
1 TGCTGTCCAATTTGATGAATAAT
27158159 TGCTGTCCAA
1 TGCTGTCCAA
27158169 AACAGGGTTG
Statistics
Matches: 297, Mismatches: 52, Indels: 73
0.70 0.12 0.17
Matches are distributed among these distances:
21 2 0.01
22 103 0.35
23 49 0.16
24 48 0.16
25 95 0.32
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (23 bp):
TGCTGTCCAATTTGATGAATAAT
Found at i:27159278 original size:91 final size:91
Alignment explanation
Indices: 27159131--27159338 Score: 317
Period size: 91 Copynumber: 2.3 Consensus size: 91
27159121 TTGATTTTAG
* *
27159131 TAAATTCATATAAGAACATTTTATTATTAAAAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
27159196 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
27159223 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATA
27159288 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* * *
27159314 CAAATTCATATTAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
27159339 GTTATAATTA
Statistics
Matches: 106, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
91 90 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAAAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:27159307 original size:26 final size:28
Alignment explanation
Indices: 27159253--27159313 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
27159243 TATTATCAAG
* *
27159253 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
27159281 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
27159307 AATTATA
1 AATTATA
27159314 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:27159313 original size:44 final size:43
Alignment explanation
Indices: 27159171--27159313 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
27159161 AAATTTTATG
* *
27159171 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
27159215 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
27159262 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
27159306 AAATTATA
1 AAATTATA
27159314 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:27159431 original size:59 final size:57
Alignment explanation
Indices: 27159365--27159553 Score: 152
Period size: 59 Copynumber: 3.2 Consensus size: 57
27159355 ATTTTATTAA
27159365 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTAT-TTTTATAGT
* * ** * *
27159424 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATT-TTATTA-A--
1 ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATATTAATTATTTA-AATTATTTTTATAGT
* * * *
27159485 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTAAATTAT-TTTTATAGT
27159544 ATCATATATT
1 ATCATATATT
27159554 ATGATTTGAG
Statistics
Matches: 99, Mismatches: 17, Indels: 28
0.69 0.12 0.19
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
59 20 0.20
60 8 0.08
61 10 0.10
63 4 0.04
64 5 0.05
65 6 0.06
66 17 0.17
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.51
Consensus pattern (57 bp):
ATCATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTATTTTTATAGT
Found at i:27159462 original size:66 final size:64
Alignment explanation
Indices: 27159392--27159590 Score: 186
Period size: 66 Copynumber: 3.2 Consensus size: 64
27159382 AAATATATTT
27159392 AATATTAATTATTTCAAATTATCTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
27159457 G
64 G
* * * * * **
27159458 AATATTAATTATTAAGAATT-TTATTA-A--ATTATATATT-TTAATT-A-T-AA-T-ATAT-TT
1 AATATTAATTATTTA-AATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
* *
27159512 AATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTAT-TTAAATTAT-TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
27159577 G
64 G
*
27159578 AATATTGATTATT
1 AATATTAATTATT
27159591 AAGAATTTTA
Statistics
Matches: 101, Mismatches: 18, Indels: 29
0.68 0.12 0.20
Matches are distributed among these distances:
54 14 0.14
55 7 0.07
56 5 0.05
57 3 0.03
58 1 0.01
59 10 0.10
60 8 0.08
61 10 0.10
62 1 0.01
63 3 0.03
64 5 0.05
65 7 0.07
66 27 0.27
ACGTcount: A:0.41, C:0.03, G:0.07, T:0.49
Consensus pattern (64 bp):
AATATTAATTATTTAAATTATTTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:27159478 original size:120 final size:120
Alignment explanation
Indices: 27159354--27159651 Score: 517
Period size: 120 Copynumber: 2.5 Consensus size: 120
27159344 AATTATTTTA
* * * *
27159354 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTT
27159418 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
27159474 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
*
27159539 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
27159594 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
27159652 ATGATTAAAT
Statistics
Matches: 169, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
120 162 0.96
121 7 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:27159494 original size:61 final size:61
Alignment explanation
Indices: 27159427--27159614 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
27159417 TTATAGTATC
27159427 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * *
27159488 ATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-TATTTTA-TAGTAT
1 ATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTTTATTA-AAT
*
27159546 C
61 T
*
27159547 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
27159608 ATATATT
1 ATATATT
27159615 TTAATTATAA
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:27159514 original size:15 final size:15
Alignment explanation
Indices: 27159479--27159530 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
27159469 TTAAGAATTT
*
27159479 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27159493 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27159507 TATTTAATAATAAT-
1 TATTTAATTATAATA
27159521 TATGTTAATT
1 TAT-TTAATT
27159531 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27159629 original size:16 final size:16
Alignment explanation
Indices: 27159608--27159649 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
27159598 TTATTAAATT
*
27159608 ATATATTTTAATTATA
1 ATATATTTTAATAATA
27159624 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
27159639 AT-TATGTTTAA
1 ATATAT-TTTAA
27159650 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:27159634 original size:15 final size:15
Alignment explanation
Indices: 27159599--27159640 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27159589 TTAAGAATTT
*
27159599 TATTAAATTAT-ATA
1 TATTTAATTATAATA
27159613 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
27159627 TATTTAATAATAAT
1 TATTTAATTATAAT
27159641 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:27159884 original size:16 final size:16
Alignment explanation
Indices: 27159863--27159916 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
27159853 TTGATTTGCT
*
27159863 ATTACACCTCTATTTC
1 ATTACACCTCTATTCC
27159879 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
27159895 GTTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
27159911 AATACA
1 ATTACA
27159917 GCGAACCAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.26, C:0.33, G:0.04, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:27165317 original size:13 final size:13
Alignment explanation
Indices: 27165301--27165366 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
27165291 TTTAAACCAA
27165301 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
27165314 ACTTCTCAAAAAC
1 ACTTTTCAAAAGC
* *
27165327 ACTTTTCCACAGC
1 ACTTTTCAAAAGC
*
27165340 ACTTTTCAAAAGT
1 ACTTTTCAAAAGC
*
27165353 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
27165366 A
1 A
27165367 ATAAAGAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:27172739 original size:867 final size:867
Alignment explanation
Indices: 27171065--27172798 Score: 3441
Period size: 867 Copynumber: 2.0 Consensus size: 867
27171055 TCTATTAAAG
27171065 ACTCAAATAATTATTGAATTATTTTACAAGGATTTTTTTAGTTAATAAGCTCTCTGTTTTTAAAT
1 ACTCAAATAATTATTGAATTATTTTACAAGGATTTTTTTAGTTAATAAGCTCTCTGTTTTTAAAT
27171130 TATGTAAAAACAATCATATTTCAATTTCGATGCTTATATAATGTTCAAATTTAAGATTAATTCTT
66 TATGTAAAAACAATCATATTTCAATTTCGATGCTTATATAATGTTCAAATTTAAGATTAATTCTT
27171195 TATATTTTAATTTTTAATATAATTTGGTACATCAATATTAGCCTAGATACTTTAACCGATTAAAA
131 TATATTTTAATTTTTAATATAATTTGGTACATCAATATTAGCCTAGATACTTTAACCGATTAAAA
27171260 TGCTAACGTTAATATTTAAACTTGATTATAATATTAAAATTTTTTTTGTTTAATTCGAATTCATT
196 TGCTAACGTTAATATTTAAACTTGATTATAATATTAAAATTTTTTTTGTTTAATTCGAATTCATT
27171325 ATAATATCGAAAAAAGTGTAATTATTGTTTCTTTCACAATCATAATTGCAAATACAATACTACAT
261 ATAATATCGAAAAAAGTGTAATTATTGTTTCTTTCACAATCATAATTGCAAATACAATACTACAT
27171390 TTTAATAATTATTTGTGGATGTAAATGAGATTAAATTTACAAAAAACAGTTATATATATTTATAC
326 TTTAATAATTATTTGTGGATGTAAATGAGATTAAATTTACAAAAAACAGTTATATATATTTATAC
27171455 GAAATGAAATTTAAATTTAAAATGTTATAAAAGTTTTAAAACTTCAATTTCATTATTAAACCAAA
391 GAAATGAAATTTAAATTTAAAATGTTATAAAAGTTTTAAAACTTCAATTTCATTATTAAACCAAA
*
27171520 TCCTCATTCTTTATTTTATTTGTTTTAAAATTTGGTCACCTTAATTAAACTAATCATCAATAAAT
456 TCCTCATTCTTTATTTTATTTGTTTTAAAATTAGGTCACCTTAATTAAACTAATCATCAATAAAT
27171585 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATAATTTTAAATTATAATGAGTTTAGTTATA
521 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATAATTTTAAATTATAATGAGTTTAGTTATA
*
27171650 ATCTCACAAATACCAACAATTAATTTTAGGTCAATTATACATATACCTTTAAATTTTAATATATT
586 ATCTAACAAATACCAACAATTAATTTTAGGTCAATTATACATATACCTTTAAATTTTAATATATT
27171715 TAAAATGTATTTAAATATTTTTTCTTTCTTTATTGTTTGGGTGATTGATAAAGAAATGTAAAGAA
651 TAAAATGTATTTAAATATTTTTTCTTTCTTTATTGTTTGGGTGATTGATAAAGAAATGTAAAGAA
27171780 ATGAAATTAAAGTTACAACGATATCATTTAATAGATACTTTTTTGCTTCGTGTGTTCTAAAGTTG
716 ATGAAATTAAAGTTACAACGATATCATTTAATAGATACTTTTTTGCTTCGTGTGTTCTAAAGTTG
*
27171845 TATTGTTTATTTTTATTTGATAATGTGTAATTGCAACTTCAATTCTTTGATATTGTGTTTTAATT
781 TATTGTTTATTTTTATTTGATAATGTGTAATTGCAACTTCAATTCTTTGATATTGTGTTCTAATT
27171910 TTAATATGTTGCAGTAATGGCA
846 TTAATATGTTGCAGTAATGGCA
27171932 ACTCAAATAATTATTGAATTATTTTACAAGGATTTTTTTAGTTAATAAGCTCTCTGTTTTTAAAT
1 ACTCAAATAATTATTGAATTATTTTACAAGGATTTTTTTAGTTAATAAGCTCTCTGTTTTTAAAT
27171997 TATGTAAAAACAATCATATTTCAATTTCGATGCTTATATAATGTTCAAATTTAAGATTAATTCTT
66 TATGTAAAAACAATCATATTTCAATTTCGATGCTTATATAATGTTCAAATTTAAGATTAATTCTT
27172062 TATATTTTAATTTTTAATATAATTTGGTACATCAATATTAGCCTAGATACTTTAACCGATTAAAA
131 TATATTTTAATTTTTAATATAATTTGGTACATCAATATTAGCCTAGATACTTTAACCGATTAAAA
27172127 TGCTAACGTTAATATTTAAACTTGATTATAATATTAAAATTTTTTTTGTTTAATTCGAATTCATT
196 TGCTAACGTTAATATTTAAACTTGATTATAATATTAAAATTTTTTTTGTTTAATTCGAATTCATT
27172192 ATAATATCGAAAAAAGTGTAATTATTGTTTCTTTCACAATCATAATTGCAAATACAATACTACAT
261 ATAATATCGAAAAAAGTGTAATTATTGTTTCTTTCACAATCATAATTGCAAATACAATACTACAT
27172257 TTTAATAATTATTTGTGGATGTAAATGAGATTAAATTTACAAAAAACAGTTATATATATTTATAC
326 TTTAATAATTATTTGTGGATGTAAATGAGATTAAATTTACAAAAAACAGTTATATATATTTATAC
27172322 GAAATGAAATTTAAATTTAAAATGTTATAAAAGTTTTAAAACTTCAATTTCATTATTAAACCAAA
391 GAAATGAAATTTAAATTTAAAATGTTATAAAAGTTTTAAAACTTCAATTTCATTATTAAACCAAA
27172387 TCCTCATTCTTTATTTTATTTGTTTTAAAATTAGGTCACCTTAATTAAACTAATCATCAATAAAT
456 TCCTCATTCTTTATTTTATTTGTTTTAAAATTAGGTCACCTTAATTAAACTAATCATCAATAAAT
27172452 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATAATTTTAAATTATAATGAGTTTAGTTATA
521 AAACTAATCAATGTTCAAACTTTGAACATGCTTTATAATTTTAAATTATAATGAGTTTAGTTATA
27172517 ATCTAACAAATACCAACAATTAATTTTAGGTCAATTATACATATACCTTTAAATTTTAATATATT
586 ATCTAACAAATACCAACAATTAATTTTAGGTCAATTATACATATACCTTTAAATTTTAATATATT
27172582 TAAAATGTATTTAAATATTTTTTCTTTCTTTATTGTTTGGGTGATTGATAAAGAAATGTAAAGAA
651 TAAAATGTATTTAAATATTTTTTCTTTCTTTATTGTTTGGGTGATTGATAAAGAAATGTAAAGAA
27172647 ATGAAATTAAAGTTACAACGATATCATTTAATAGATACTTTTTTGCTTCGTGTGTTCTAAAGTTG
716 ATGAAATTAAAGTTACAACGATATCATTTAATAGATACTTTTTTGCTTCGTGTGTTCTAAAGTTG
27172712 TATTGTTTATTTTTATTTGATAATGTGTAATTGCAACTTCAATTCTTTGATATTGTGTTCTAATT
781 TATTGTTTATTTTTATTTGATAATGTGTAATTGCAACTTCAATTCTTTGATATTGTGTTCTAATT
27172777 TTAATATGTTGCAGTAATGGCA
846 TTAATATGTTGCAGTAATGGCA
27172799 CGTCTGCCTT
Statistics
Matches: 864, Mismatches: 3, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
867 864 1.00
ACGTcount: A:0.37, C:0.10, G:0.09, T:0.44
Consensus pattern (867 bp):
ACTCAAATAATTATTGAATTATTTTACAAGGATTTTTTTAGTTAATAAGCTCTCTGTTTTTAAAT
TATGTAAAAACAATCATATTTCAATTTCGATGCTTATATAATGTTCAAATTTAAGATTAATTCTT
TATATTTTAATTTTTAATATAATTTGGTACATCAATATTAGCCTAGATACTTTAACCGATTAAAA
TGCTAACGTTAATATTTAAACTTGATTATAATATTAAAATTTTTTTTGTTTAATTCGAATTCATT
ATAATATCGAAAAAAGTGTAATTATTGTTTCTTTCACAATCATAATTGCAAATACAATACTACAT
TTTAATAATTATTTGTGGATGTAAATGAGATTAAATTTACAAAAAACAGTTATATATATTTATAC
GAAATGAAATTTAAATTTAAAATGTTATAAAAGTTTTAAAACTTCAATTTCATTATTAAACCAAA
TCCTCATTCTTTATTTTATTTGTTTTAAAATTAGGTCACCTTAATTAAACTAATCATCAATAAAT
AAACTAATCAATGTTCAAACTTTGAACATGCTTTATAATTTTAAATTATAATGAGTTTAGTTATA
ATCTAACAAATACCAACAATTAATTTTAGGTCAATTATACATATACCTTTAAATTTTAATATATT
TAAAATGTATTTAAATATTTTTTCTTTCTTTATTGTTTGGGTGATTGATAAAGAAATGTAAAGAA
ATGAAATTAAAGTTACAACGATATCATTTAATAGATACTTTTTTGCTTCGTGTGTTCTAAAGTTG
TATTGTTTATTTTTATTTGATAATGTGTAATTGCAACTTCAATTCTTTGATATTGTGTTCTAATT
TTAATATGTTGCAGTAATGGCA
Found at i:27175825 original size:47 final size:47
Alignment explanation
Indices: 27175772--27175924 Score: 220
Period size: 47 Copynumber: 3.3 Consensus size: 47
27175762 ATGATTTTAG
* * * *
27175772 TAAATTCATATAAGAATATTTATTATTAAGAATT-TTATAAAATTATA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATT-TTAAATTATA
27175819 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
* *
27175866 CAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTTTA
1 TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
27175913 TTAAA-TCATATA
1 -TAAATTCATATA
27175925 CTTTAATTAA
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
47 92 0.95
48 5 0.05
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.44
Consensus pattern (47 bp):
TAAATTCATATAAGAAAATTTATTAGTAATAATTATTTTAAATTATA
Found at i:27175970 original size:59 final size:57
Alignment explanation
Indices: 27175892--27176190 Score: 206
Period size: 59 Copynumber: 5.2 Consensus size: 57
27175882 AATTTATTAG
27175892 TAATAATTATTT-TA--A-ATTTTATTAAATCATATACTTTAATTAAAATATATTTAA
1 TAATAATTATTTATATTATATTTTATTAAATCATATA-TTTAATTAAAATATATTTAA
** * ** * * *
27175946 TAATAATTATTTCATATTATATTTTATTGTATCATATATTATGATTTTAGTAAATTCATA
1 TAATAATTATTT-ATATTATATTTTATTAAATCATATATT-TAATTAAAATATATTTA-A
* *
27176006 TAAGAA-TATTTATTATTAAGAATTTTATTAAATCATATATTTTAATTAAAATATATTTAA
1 TAATAATTATTTA-TATT-A-TATTTTATTAAATCATATA-TTTAATTAAAATATATTTAA
* * * * *
27176066 TAATAATTATATTAAATTATATTTTA-TAGTATCATATATTATTATATGAAAT-TCATATAA
1 TAATAATTAT-TTATATTATATTTTATTA-AATCATATATT-TAAT-TAAAATAT-ATTTAA
* * * * *
27176126 GAAT-ATTGA-TTAT-TAAGAATTTTATTAAATTATAT-TTTAATTAAAATATATCTAA
1 TAATAATT-ATTTATATTA-TATTTTATTAAATCATATATTTAATTAAAATATATTTAA
27176181 TAATAATTAT
1 TAATAATTAT
27176191 GTTAAAATAT
Statistics
Matches: 187, Mismatches: 35, Indels: 44
0.70 0.13 0.17
Matches are distributed among these distances:
54 12 0.06
55 14 0.07
56 9 0.05
57 4 0.02
58 23 0.12
59 59 0.32
60 28 0.15
61 33 0.18
62 5 0.03
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (57 bp):
TAATAATTATTTATATTATATTTTATTAAATCATATATTTAATTAAAATATATTTAA
Found at i:27176034 original size:15 final size:16
Alignment explanation
Indices: 27176006--27176035 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
27175996 TAAATTCATA
27176006 TAAGAATATTTATTAT
1 TAAGAATATTTATTAT
27176022 TAAGAAT-TTTATTA
1 TAAGAATATTTATTA
27176036 AATCATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (16 bp):
TAAGAATATTTATTAT
Found at i:27176055 original size:18 final size:15
Alignment explanation
Indices: 27176027--27176092 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
27176017 ATTATTAAGA
27176027 ATTTTATTAAATCATAT
1 ATTTTATTAAA--ATAT
27176044 ATTTTAATTAAAATAT
1 ATTTT-ATTAAAATAT
*
27176060 A-TTTA--ATAATA-
1 ATTTTATTAAAATAT
* *
27176071 ATTATATTAAATTAT
1 ATTTTATTAAAATAT
27176086 ATTTTAT
1 ATTTTAT
27176093 AGTATCATAT
Statistics
Matches: 39, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 1 0.03
12 8 0.21
14 5 0.13
15 9 0.23
16 5 0.13
17 5 0.13
18 6 0.15
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTTATTAAAATAT
Found at i:27176154 original size:117 final size:119
Alignment explanation
Indices: 27175906--27176196 Score: 457
Period size: 120 Copynumber: 2.5 Consensus size: 119
27175896 AATTATTTTA
* *
27175906 AATTTTATTAAATCATATACTTTAATTAAAATATATTTAATAATAATTATTTCATATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATATTTT
* * *
27175971 ATTGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
65 ATAGTATCATATATTATGATTATAGTAAATTCATATAAGAATATTGATTATTAAG
27176026 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTTT
*
27176091 ATAGTATCATATATTATTA-TAT-G-AAATTCATATAAGAATATTGATTATTAAG
65 ATAGTATCATATATTATGATTATAGTAAATTCATATAAGAATATTGATTATTAAG
*
27176143 AATTTTATTAAAT--TATATTTTAATTAAAATATATCTAATAATAATTATGTTAAA
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAA
27176197 ATATGATTAA
Statistics
Matches: 162, Mismatches: 8, Indels: 7
0.92 0.05 0.04
Matches are distributed among these distances:
115 39 0.24
117 41 0.25
118 1 0.01
119 2 0.01
120 77 0.48
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (119 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTTTA
TAGTATCATATATTATGATTATAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:27176162 original size:15 final size:16
Alignment explanation
Indices: 27176144--27176176 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
27176134 ATTATTAAGA
*
27176144 ATTTT-ATTAAATTAT
1 ATTTTAATTAAAATAT
27176159 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
27176175 AT
1 AT
27176177 CTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:27176226 original size:117 final size:114
Alignment explanation
Indices: 27175906--27176226 Score: 380
Period size: 117 Copynumber: 2.7 Consensus size: 114
27175896 AATTATTTTA
* *
27175906 AATTTTATTAAATCATATACTTTAATTAAAATATATTTAATAATAATTATTTCATATTATATTTT
1 AATTTTATTAAAT-ATATATTTTAATTAAAATATATTTAATAATAATTATTT-AAATTATA--TT
* * * *
27175971 ATTGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTTATTATTAAG
62 ATTATATTAT-TATTAT-ATTATAGTAAATTCATATAAGAATATTGATTATTAAG
27176026 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATATTAAATTATATT-T
1 AATTTTATTAAAT-ATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTATATTAT
* *
27176090 TATAGTATCATATATTATTATA-TGAAATTCATATAAGAATATTGATTATTAAG
64 TATATTATTAT-TA-TATTATAGT-AAATTCATATAAGAATATTGATTATTAAG
* *
27176143 AATTTTATTAAAT-TATATTTTAATTAAAATATATCTAATAATAATTATGTTAAAATATGATTAA
1 AATTTTATTAAATATATATTTTAATTAAAATATATTTAATAATAATTAT-TTAAATTAT-ATT--
27176207 ATTAT-TTATTATTGATATTA
62 ATTATATTATTATT-ATATTA
27176227 ATAATCTTAT
Statistics
Matches: 179, Mismatches: 13, Indels: 21
0.84 0.06 0.10
Matches are distributed among these distances:
115 42 0.23
116 6 0.03
117 60 0.34
118 9 0.05
119 4 0.02
120 56 0.31
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.49
Consensus pattern (114 bp):
AATTTTATTAAATATATATTTTAATTAAAATATATTTAATAATAATTATTTAAATTATATTATTA
TATTATTATTATATTATAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:27176430 original size:16 final size:16
Alignment explanation
Indices: 27176409--27176445 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
27176399 TTGATTTGCT
27176409 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
27176425 ATTACGTCTCTATTCC
1 ATTACGCCTCTATTCC
27176441 ATTAC
1 ATTAC
27176446 AGCGAACCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.32, G:0.05, T:0.41
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:27176964 original size:18 final size:19
Alignment explanation
Indices: 27176905--27176969 Score: 50
Period size: 18 Copynumber: 3.6 Consensus size: 19
27176895 TTCAAAGCTT
* *
27176905 AATTTTTTAAAAAAATTAA
1 AATTTTATAAAAAATTTAA
* *
27176924 AA--ATAT-AAATATTTAA
1 AATTTTATAAAAAATTTAA
27176940 AATTTTA-AAAAAATTTATA
1 AATTTTATAAAAAATTTA-A
27176959 AA-TTTATAAAA
1 AATTTTATAAAA
27176970 CATTATTAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
16 10 0.29
17 2 0.06
18 14 0.40
19 9 0.26
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
AATTTTATAAAAAATTTAA
Found at i:27177360 original size:37 final size:37
Alignment explanation
Indices: 27177313--27177393 Score: 117
Period size: 37 Copynumber: 2.2 Consensus size: 37
27177303 GTCCAATTAA
* *
27177313 AAAATGTGTATCAATTATCTTATTATATGTGTAGACT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
* * *
27177350 AAAAGGTGTATCAATTATTTTCTTACATGTGTAGCCT
1 AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
27177387 AAAAGGT
1 AAAAGGT
27177394 TTAAATAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.40
Consensus pattern (37 bp):
AAAAGGTGTATCAATTATCTTATTACATGTGTAGACT
Found at i:27183112 original size:19 final size:19
Alignment explanation
Indices: 27183085--27183122 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
27183075 ATTCTAGACT
27183085 TTAACTTTTAACTTTTTTTA
1 TTAACTTTTAA-TTTTTTTA
*
27183105 TTAATTTTTAATTTTTTT
1 TTAACTTTTAATTTTTTT
27183123 TTATTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
TTAACTTTTAATTTTTTTA
Found at i:27183113 original size:20 final size:18
Alignment explanation
Indices: 27183084--27183139 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
27183074 TATTCTAGAC
*
27183084 TTTAACTTTTAACTTTTTT
1 TTTAATTTTTAA-TTTTTT
27183103 TATTAATTTTTAATTTTTT
1 T-TTAATTTTTAATTTTTT
*
27183122 TTTATTTTTTGAATTTTT
1 TTTAATTTTT-AATTTTT
27183140 AAAAATATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 8 0.24
19 15 0.45
20 10 0.30
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTAATTTTTAATTTTTT
Found at i:27183121 original size:18 final size:19
Alignment explanation
Indices: 27183098--27183139 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
27183088 ACTTTTAACT
27183098 TTTTTTATTAATTTTT-AA
1 TTTTTTATTAATTTTTGAA
* *
27183116 TTTTTTTTTATTTTTTGAA
1 TTTTTTATTAATTTTTGAA
27183135 TTTTT
1 TTTTT
27183140 AAAAATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 14 0.67
19 7 0.33
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (19 bp):
TTTTTTATTAATTTTTGAA
Found at i:27183192 original size:29 final size:29
Alignment explanation
Indices: 27183160--27183215 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
27183150 CTATAAATTT
27183160 TAATAATGTTTTACAATT-TTTTAAAAAGC
1 TAATAATGTTTTA-AATTATTTTAAAAAGC
* *
27183189 TAATATTTTTTTAAATTATTTTAAAAA
1 TAATAATGTTTTAAATTATTTTAAAAA
27183216 ATTAAGCTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 20 0.83
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (29 bp):
TAATAATGTTTTAAATTATTTTAAAAAGC
Found at i:27189162 original size:30 final size:29
Alignment explanation
Indices: 27189105--27189177 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 29
27189095 CAACCCAATC
* *
27189105 ATAAAAATTACAAATAATTTAATAAATAAAA
1 ATAAAAA-TA-AAAAAATTTAAAAAATAAAA
27189136 ATAAAAATAAAAAAATTTTAAAAAATAAAA
1 ATAAAAATAAAAAAA-TTTAAAAAATAAAA
27189166 ATAAAAATAAAA
1 ATAAAAATAAAA
27189178 TATAAATAGG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
29 5 0.13
30 27 0.69
31 7 0.18
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (29 bp):
ATAAAAATAAAAAAATTTAAAAAATAAAA
Found at i:27189185 original size:6 final size:6
Alignment explanation
Indices: 27189128--27189183 Score: 60
Period size: 6 Copynumber: 9.2 Consensus size: 6
27189118 ATAATTTAAT
***
27189128 AAATAA AAATAA AAATAA AAA-AA TTTTAAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAAT-AA AAATAA AAATAA AAATAA
27189176 AATATAA A
1 AA-ATAA A
27189184 TAGGCACATG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
5 2 0.05
6 31 0.76
7 8 0.20
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:27189345 original size:9 final size:9
Alignment explanation
Indices: 27189331--27189361 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
27189321 GTAGTGATTC
27189331 AATTCGGTT
1 AATTCGGTT
*
27189340 AATTCGGGT
1 AATTCGGTT
27189349 AATTCGGTT
1 AATTCGGTT
27189358 AATT
1 AATT
27189362 TTTAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:27193604 original size:104 final size:105
Alignment explanation
Indices: 27193477--27193689 Score: 383
Period size: 104 Copynumber: 2.0 Consensus size: 105
27193467 TTACTCTGGT
* * *
27193477 AAGATAAAGTCAGGAGTGGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACC-AAA
1 AAGATAAAATCAAGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
*
27193541 AAAATGCTTACACGTTTATATACATTTATGTACATTTATA
66 AAAATGCTTACACGTTTATATACATTTACGTACATTTATA
27193581 AAGATAAAATCAAGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
1 AAGATAAAATCAAGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
27193646 AAAATGCTTACACGTTTATATACATTTACGTACATTTATA
66 AAAATGCTTACACGTTTATATACATTTACGTACATTTATA
27193686 AAGA
1 AAGA
27193690 ATTGTGTTAA
Statistics
Matches: 104, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 58 0.56
105 46 0.44
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.41
Consensus pattern (105 bp):
AAGATAAAATCAAGAGTAGTTTTTGTTTTTTAACTTGATGTATTAGTTAGTCTTGTTCACCAAAA
AAAATGCTTACACGTTTATATACATTTACGTACATTTATA
Found at i:27193942 original size:23 final size:23
Alignment explanation
Indices: 27193916--27193969 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
27193906 TTTAAAAGTT
* *
27193916 AAATATTATTTTATCCTAATATC
1 AAATATTATGTAATCCTAATATC
* *
27193939 AAATATTATGTAATTCTAATATT
1 AAATATTATGTAATCCTAATATC
27193962 AAATATTA
1 AAATATTA
27193970 ATTACAATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.46
Consensus pattern (23 bp):
AAATATTATGTAATCCTAATATC
Found at i:27196981 original size:13 final size:14
Alignment explanation
Indices: 27196957--27196985 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
27196947 CATGCTTTTG
27196957 AACACTTTGATCAT
1 AACACTTTGATCAT
27196971 AACAC-TTGATCAT
1 AACACTTTGATCAT
27196984 AA
1 AA
27196986 ATCAACATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (14 bp):
AACACTTTGATCAT
Found at i:27198965 original size:15 final size:15
Alignment explanation
Indices: 27198945--27198976 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
27198935 CATTTCACTA
*
27198945 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
27198960 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
27198975 TT
1 TT
27198977 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:27205063 original size:33 final size:33
Alignment explanation
Indices: 27205026--27205099 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
27205016 CCTTGCCATA
* * * * *
27205026 GTCTTACGCTTATAGTGCCATAACTTAGATATG
1 GTCTTACGATTAGAATGCCATAACCTAAATATG
*
27205059 GTCTTATC-ATTAGAATGCCATAGCCTAAATATG
1 GTCTTA-CGATTAGAATGCCATAACCTAAATATG
27205092 GTCTTACG
1 GTCTTACG
27205100 TAAAGATTGC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
32 1 0.03
33 31 0.94
34 1 0.03
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (33 bp):
GTCTTACGATTAGAATGCCATAACCTAAATATG
Found at i:27207027 original size:13 final size:13
Alignment explanation
Indices: 27207009--27207035 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27206999 ATTTGTCAGG
27207009 ACGGTGGAAAGAA
1 ACGGTGGAAAGAA
27207022 ACGGTGGAAAGAA
1 ACGGTGGAAAGAA
27207035 A
1 A
27207036 ACTGACTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.37, T:0.07
Consensus pattern (13 bp):
ACGGTGGAAAGAA
Found at i:27224384 original size:16 final size:16
Alignment explanation
Indices: 27224365--27224409 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
27224355 GGCTACAATT
*
27224365 GAATAGAGCTGTAATG
1 GAATAAAGCTGTAATG
*
27224381 GAATAAAGTTGTAATG
1 GAATAAAGCTGTAATG
27224397 GAATAAAGCTGTA
1 GAATAAAGCTGTA
27224410 GTTAGTAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.42, C:0.04, G:0.27, T:0.27
Consensus pattern (16 bp):
GAATAAAGCTGTAATG
Found at i:27228350 original size:33 final size:33
Alignment explanation
Indices: 27228306--27228382 Score: 91
Period size: 33 Copynumber: 2.3 Consensus size: 33
27228296 CTTTATTCTA
* * **
27228306 TGTTTACTGTCCCATCAGACTATTTCTATTTCG
1 TGTTTACTGTCCCAACAGAATAACTCTATTTCG
* * *
27228339 TGTTTATTGTCCTAACAGAATAACTCTATTTTG
1 TGTTTACTGTCCCAACAGAATAACTCTATTTCG
27228372 TGTTTACTGTC
1 TGTTTACTGTC
27228383 TCAATGGATT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (33 bp):
TGTTTACTGTCCCAACAGAATAACTCTATTTCG
Found at i:27228440 original size:33 final size:34
Alignment explanation
Indices: 27228403--27228481 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 34
27228393 ATTTCTTTTC
** *
27228403 CGTGTTTAATGTCT-AGACGGGCTATATTTGTTT
1 CGTGTTTAATGTCTCAGACGAACTATATATGTTT
* *
27228436 CGTGTTTACTGT-TCAGATGAACTATATATGTTT
1 CGTGTTTAATGTCTCAGACGAACTATATATGTTT
*
27228469 CGTGTTTATTGTC
1 CGTGTTTAATGTC
27228482 CCAACAGACT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.19, C:0.13, G:0.22, T:0.47
Consensus pattern (34 bp):
CGTGTTTAATGTCTCAGACGAACTATATATGTTT
Found at i:27228700 original size:51 final size:50
Alignment explanation
Indices: 27228605--27228700 Score: 111
Period size: 51 Copynumber: 1.9 Consensus size: 50
27228595 CTCATCATAC
* **
27228605 CTAGCTGTCATAACATCTTTTATCTATAGTTTTACACCGTATACCTTATA
1 CTAGCTGTCATAACATCTTTAATCTATAGTTTTACACCACATACCTTATA
* * * **
27228655 CTAGACTGTCATAGCCTCTTTAATCTATGGTTTTATGCCACATACC
1 CTAG-CTGTCATAACATCTTTAATCTATAGTTTTACACCACATACC
27228701 ATCATTACGG
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
50 4 0.11
51 33 0.89
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (50 bp):
CTAGCTGTCATAACATCTTTAATCTATAGTTTTACACCACATACCTTATA
Found at i:27237638 original size:138 final size:138
Alignment explanation
Indices: 27237375--27237638 Score: 397
Period size: 138 Copynumber: 1.9 Consensus size: 138
27237365 AGAGAACATA
* * *
27237375 AATATAATTAATGTATGAATTTGATTCATACAAAATATTAATTGTATGTATTTTACCGAATTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAGTTAT
* * *
27237440 TAATATAAACAGTTATATTAATTAATTTCAGTCAAAATATAAAAGGCGTGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATGAATATTCTT
27237505 TTGGAAAG
131 TTGGAAAG
27237513 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAGTTAT
1 AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAGTTAT
* * * * *
27237578 TAATATTAACAATTATATTAGTTAATTT-TGATCAAAATATAAACGACATTGGAAA-GAATAT
66 TAATATAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAAGAC-GTGGAAATGAATAT
27237639 AATTTTGTTT
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
137 1 0.01
138 106 0.94
139 6 0.05
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (138 bp):
AATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAGTTAT
TAATATAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACGTGGAAATGAATATTCTT
TTGGAAAG
Found at i:27237705 original size:75 final size:75
Alignment explanation
Indices: 27237626--27237764 Score: 210
Period size: 75 Copynumber: 1.9 Consensus size: 75
27237616 ATAAACGACA
* *
27237626 TTGGAAAGAATATAATT-TTGTTTTCTAACTTTCCATTTGCCTTCTTTATTAATAA-AGAAATAA
1 TTGGAAAGAATATAATTCAT-TTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAG-AATAA
27237689 TGATATATTCTT
64 TGATATATTCTT
* *
27237701 TTGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAAT
1 TTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAAT
27237765 CCTAGTTTTC
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
75 55 0.95
76 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.46
Consensus pattern (75 bp):
TTGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAATG
ATATATTCTT
Found at i:27237724 original size:22 final size:22
Alignment explanation
Indices: 27237682--27237723 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
27237672 TATTAATAAA
27237682 GAAATAATGATATATTCTTTTG
1 GAAATAATGATATATTCTTTTG
27237704 GAAATAAT-ATA-ATTCATTTT
1 GAAATAATGATATATTC-TTTT
27237724 TCTAACTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 7 0.37
22 8 0.42
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (22 bp):
GAAATAATGATATATTCTTTTG
Found at i:27238404 original size:27 final size:27
Alignment explanation
Indices: 27238374--27238466 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
27238364 ATTCCAAATT
*
27238374 GGGTTCGCCAGTTGATTTGGCGAGCTG
1 GGGTTCGCCAGTTGATTTGGCGAGTTG
* *
27238401 GGGTTCTCCAATTGATTTGGCGAGTTG
1 GGGTTCGCCAGTTGATTTGGCGAGTTG
* * *
27238428 GGGTTCGCCAGATGGTTTAGCGAGTTG
1 GGGTTCGCCAGTTGATTTGGCGAGTTG
* *
27238455 GTGTTCACCAGT
1 GGGTTCGCCAGT
27238467 CAAAGTCAAG
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.14, C:0.17, G:0.37, T:0.32
Consensus pattern (27 bp):
GGGTTCGCCAGTTGATTTGGCGAGTTG
Found at i:27242198 original size:17 final size:17
Alignment explanation
Indices: 27242176--27242212 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
27242166 AATTTTTGAA
27242176 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
27242193 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
27242210 TTA
1 TTA
27242213 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:27243490 original size:46 final size:46
Alignment explanation
Indices: 27243437--27243668 Score: 410
Period size: 46 Copynumber: 5.0 Consensus size: 46
27243427 CCATGGAAAA
*
27243437 TTGTGAAAAGTAGATATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
27243483 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
27243529 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* *
27243575 TTGTGAAAAGTAGGCATGGTGTTTCAGTGAAGAAAACCATACTGAT
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
* * *
27243621 TTGTGAAAAGTAGATATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
27243667 TT
1 TT
27243669 ATAGCATTGT
Statistics
Matches: 178, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 178 1.00
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
Found at i:27247730 original size:20 final size:20
Alignment explanation
Indices: 27247701--27247745 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
27247691 CTATTTATGC
* *
27247701 ACATATTC-AAGAGACTTAA
1 ACATATTCAAACACACTTAA
27247720 ACATCATTCAAACACACTTAA
1 ACAT-ATTCAAACACACTTAA
27247741 ACATA
1 ACATA
27247746 CCATTTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.18
20 5 0.23
21 13 0.59
ACGTcount: A:0.49, C:0.22, G:0.04, T:0.24
Consensus pattern (20 bp):
ACATATTCAAACACACTTAA
Found at i:27257524 original size:95 final size:95
Alignment explanation
Indices: 27257357--27257534 Score: 329
Period size: 95 Copynumber: 1.9 Consensus size: 95
27257347 TATTATTTAG
27257357 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
*
27257422 TTGTTTATGTTTCATGCATTATACGAATGC
66 TTCTTTATGTTTCATGCATTATACGAATGC
* *
27257452 AATATGCCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTGCAATTATGATATTGCATGT
1 AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
27257517 TTCTTTATGTTTCATGCA
66 TTCTTTATGTTTCATGCA
27257535 CGAATGCATC
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (95 bp):
AATATACCTTTAGATGTTAATATATAAAACCAGTGTCAGTGGGGTACAATTATGATATTGCATGT
TTCTTTATGTTTCATGCATTATACGAATGC
Found at i:27262098 original size:13 final size:14
Alignment explanation
Indices: 27262068--27262100 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
27262058 TCAATAATCA
27262068 AAAAATAGAAAATG
1 AAAAATAGAAAATG
*
27262082 AAAATTAGAAAAT-
1 AAAAATAGAAAATG
27262095 AAAAAT
1 AAAAAT
27262101 GAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (14 bp):
AAAAATAGAAAATG
Found at i:27263977 original size:43 final size:43
Alignment explanation
Indices: 27263916--27264002 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
27263906 CATAGTTTGA
27263916 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
1 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
27263959 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
1 TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
27264002 T
1 T
27264003 ATCTTATTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (43 bp):
TTAGATTTATTGAATTCTACCAAGTTGGATACAGAAATTAATT
Found at i:27264704 original size:19 final size:19
Alignment explanation
Indices: 27264675--27264720 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
27264665 GTTAAAGATG
*
27264675 TTATT-AAAATAAT-TTTTC
1 TTATTCAAAAT-ATGTTTTA
27264693 TTATTCAAAATATGTTTTA
1 TTATTCAAAATATGTTTTA
27264712 TTATTCAAA
1 TTATTCAAA
27264721 GTTATTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.39, C:0.07, G:0.02, T:0.52
Consensus pattern (19 bp):
TTATTCAAAATATGTTTTA
Found at i:27265028 original size:19 final size:20
Alignment explanation
Indices: 27265004--27265048 Score: 58
Period size: 19 Copynumber: 2.3 Consensus size: 20
27264994 TCAAAATTTT
27265004 ATTTTAATATTT-TT-TATAC
1 ATTTTAAT-TTTATTATATAC
*
27265023 ATTTTAATTTTATTATGTAC
1 ATTTTAATTTTATTATATAC
27265043 ATTTTA
1 ATTTTA
27265049 TTACCTCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 10 0.43
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTTTAATTTTATTATATAC
Found at i:27270312 original size:22 final size:21
Alignment explanation
Indices: 27270272--27270312 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
27270262 AGTTTTAAGT
**
27270272 TTAGTTTTCTCTAGGTTTTCC
1 TTAGTTTTCTCTACATTTTCC
27270293 TTAGTTTTTCTCTACATTTT
1 TTAG-TTTTCTCTACATTTT
27270313 TCTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.12, C:0.17, G:0.10, T:0.61
Consensus pattern (21 bp):
TTAGTTTTCTCTACATTTTCC
Found at i:27277009 original size:28 final size:27
Alignment explanation
Indices: 27276951--27277010 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
27276941 GAAGCATTTG
* **
27276951 TGGCAATCTATGAAATGAAAGTCTTTG
1 TGGCAATCTATGAAATGAAAGCCTTCA
* *
27276978 TGGCGATCTATGGAAATGAATGCCTTCA
1 TGGCAATCTAT-GAAATGAAAGCCTTCA
27277006 TGGCA
1 TGGCA
27277011 GATTCTAAAG
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
27 10 0.38
28 16 0.62
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (27 bp):
TGGCAATCTATGAAATGAAAGCCTTCA
Found at i:27277230 original size:27 final size:26
Alignment explanation
Indices: 27277174--27277291 Score: 94
Period size: 27 Copynumber: 4.4 Consensus size: 26
27277164 GCGTGTGGCT
* * * * *
27277174 AACTCTAAAGGACTGTAGATATGGTA
1 AACTCTGAAGGAATGAATATATGGTG
27277200 AACTCT-AAGAGAATGATATATATGGTG
1 AACTCTGAAG-GAATGA-ATATATGGTG
* *
27277227 AACTCTGAAGGAACAGAATATATGGCG
1 AACTCTGAAGGAA-TGAATATATGGTG
* ** *
27277254 AACTCTGAAGGAATAGCACGTATGGCG
1 AACTCTGAAGGAAT-GAATATATGGTG
27277281 AACTCTGAAGG
1 AACTCTGAAGG
27277292 GACGGTTCTA
Statistics
Matches: 77, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
25 3 0.04
26 10 0.13
27 59 0.77
28 5 0.06
ACGTcount: A:0.38, C:0.14, G:0.25, T:0.23
Consensus pattern (26 bp):
AACTCTGAAGGAATGAATATATGGTG
Found at i:27283815 original size:25 final size:25
Alignment explanation
Indices: 27283781--27283830 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27283771 TTAAACAACC
27283781 AACATACTTTCATCATGTCATATGT
1 AACATACTTTCATCATGTCATATGT
27283806 AACATACTTTCATCATGTCATATGT
1 AACATACTTTCATCATGTCATATGT
27283831 CAAACTTCCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (25 bp):
AACATACTTTCATCATGTCATATGT
Found at i:27304548 original size:19 final size:19
Alignment explanation
Indices: 27304524--27304565 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
27304514 TTTTTACTCT
*
27304524 TTTTGTT-TTTGTTTTACTA
1 TTTTGTTGTTT-TTTCACTA
27304543 TTTTGTTGTTTTTTCACTA
1 TTTTGTTGTTTTTTCACTA
27304562 TTTT
1 TTTT
27304566 ATTACATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.74
Consensus pattern (19 bp):
TTTTGTTGTTTTTTCACTA
Found at i:27311387 original size:20 final size:20
Alignment explanation
Indices: 27311354--27311392 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27311344 TGAATTTTGT
*
27311354 AAAAATCAGAGTGAAATAGG
1 AAAAAACAGAGTGAAATAGG
* *
27311374 AAAAAACAGTGTGATATAG
1 AAAAAACAGAGTGAAATAG
27311393 TGAGCCAACA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.05, G:0.23, T:0.18
Consensus pattern (20 bp):
AAAAAACAGAGTGAAATAGG
Found at i:27312474 original size:6 final size:6
Alignment explanation
Indices: 27312463--27312498 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
27312453 TGACATACCC
* *
27312463 CTAAAG CTAAAG CTGAAG CTAAAG CTGAAG CTAAAG
1 CTAAAG CTAAAG CTAAAG CTAAAG CTAAAG CTAAAG
27312499 TCAAGCAAAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (6 bp):
CTAAAG
Found at i:27312483 original size:12 final size:12
Alignment explanation
Indices: 27312466--27312498 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
27312456 CATACCCCTA
27312466 AAGCTAAAGCTG
1 AAGCTAAAGCTG
27312478 AAGCTAAAGCTG
1 AAGCTAAAGCTG
27312490 AAGCTAAAG
1 AAGCTAAAG
27312499 TCAAGCAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.15
Consensus pattern (12 bp):
AAGCTAAAGCTG
Found at i:27315144 original size:15 final size:15
Alignment explanation
Indices: 27315124--27315153 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
27315114 CACTTTTCCA
27315124 TTTTATGCATAATAT
1 TTTTATGCATAATAT
27315139 TTTTATGCATAATAT
1 TTTTATGCATAATAT
27315154 CCCACTCTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTTATGCATAATAT
Found at i:27317082 original size:3 final size:3
Alignment explanation
Indices: 27317074--27317131 Score: 100
Period size: 3 Copynumber: 19.7 Consensus size: 3
27317064 CCACTTAAGA
*
27317074 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAT AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
27317122 AA- AAG AAG AA
1 AAG AAG AAG AA
27317132 CCTTCTTCAG
Statistics
Matches: 52, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (3 bp):
AAG
Found at i:27317202 original size:3 final size:3
Alignment explanation
Indices: 27317194--27317275 Score: 157
Period size: 3 Copynumber: 27.7 Consensus size: 3
27317184 CAATTTAACA
27317194 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
27317242 AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
27317276 CCTGCTTCAG
Statistics
Matches: 78, Mismatches: 0, Indels: 2
0.98 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 76 0.97
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:27317329 original size:144 final size:144
Alignment explanation
Indices: 27317074--27317334 Score: 452
Period size: 144 Copynumber: 1.8 Consensus size: 144
27317064 CCACTTAAGA
* *
27317074 AAGAAGAAGAAGAAGAAGAAGAAGAAGAATAAGAAGAAGAAGAAGAAGAAAAGAAGAACCTTCTT
1 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAGAAGAACCTGCTT
* *
27317139 CAGAACTCATCTTACATATATAAATATGACTCAACTTACTTAGTGCAATTTAACAAAGAAGAAGA
66 CAGAACTCATCTTACACATATAAATATGACTAAACTTACTTAGTGCAATTTAACAAAGAAGAAGA
27317204 AGAAGAAGAAGAAG
131 AGAAGAAGAAGAAG
27317218 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA-AAGAACCTGCT
1 AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAA-AAGAAGAACCTGCT
* *
27317282 TCAGAACTCATCTTACGCATATAAATATGACTAAACTTACTTGGTGCAATTTA
65 TCAGAACTCATCTTACACATATAAATATGACTAAACTTACTTAGTGCAATTTA
27317335 TCAAGTGCCA
Statistics
Matches: 110, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
144 108 0.98
145 2 0.02
ACGTcount: A:0.52, C:0.10, G:0.21, T:0.16
Consensus pattern (144 bp):
AAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAAAGAAGAACCTGCTT
CAGAACTCATCTTACACATATAAATATGACTAAACTTACTTAGTGCAATTTAACAAAGAAGAAGA
AGAAGAAGAAGAAG
Found at i:27336099 original size:20 final size:20
Alignment explanation
Indices: 27336074--27336114 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
27336064 CACATGGTAG
*
27336074 TGTGTTTGAAAACCATAACT
1 TGTGTTGGAAAACCATAACT
*
27336094 TGTGTTGGGAAACCATAACT
1 TGTGTTGGAAAACCATAACT
27336114 T
1 T
27336115 TACTTAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.34
Consensus pattern (20 bp):
TGTGTTGGAAAACCATAACT
Found at i:27378052 original size:29 final size:29
Alignment explanation
Indices: 27378020--27378094 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
27378010 TTTTTTTTAA
*
27378020 ATTTACCGAAATGGGTCAGGTATTTTATT
1 ATTTACCGAAATGGGCCAGGTATTTTATT
*
27378049 ATTTACTGAAATGGGCCAGGTATTTTATT
1 ATTTACCGAAATGGGCCAGGTATTTTATT
27378078 ATTTACC-AGAATGGGCC
1 ATTTACCGA-AATGGGCC
27378095 CTTTTCCCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 1 0.02
29 41 0.98
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.37
Consensus pattern (29 bp):
ATTTACCGAAATGGGCCAGGTATTTTATT
Found at i:27378379 original size:12 final size:12
Alignment explanation
Indices: 27378362--27378414 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 12
27378352 ACTAATACTC
27378362 TCTCAAATTTCT
1 TCTCAAATTTCT
27378374 TCTC-AATTTGCT
1 TCTCAAATTT-CT
*
27378386 T-TCAAATTCCT
1 TCTCAAATTTCT
*
27378397 TC-AAAATTTC-
1 TCTCAAATTTCT
27378407 TCTCAAAT
1 TCTCAAAT
27378415 CCATATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
10 2 0.06
11 20 0.61
12 11 0.33
ACGTcount: A:0.28, C:0.25, G:0.02, T:0.45
Consensus pattern (12 bp):
TCTCAAATTTCT
Found at i:27378404 original size:23 final size:22
Alignment explanation
Indices: 27378360--27378414 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
27378350 AAACTAATAC
* **
27378360 TCTCTCAAATTTCTTCTCAATT
1 TCTCTCAAATTCCTTCAAAATT
*
27378382 TGCTTTCAAATTCCTTCAAAATT
1 T-CTCTCAAATTCCTTCAAAATT
27378405 TCTCTCAAAT
1 TCTCTCAAAT
27378415 CCATATTTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.45
Consensus pattern (22 bp):
TCTCTCAAATTCCTTCAAAATT
Found at i:27378436 original size:51 final size:51
Alignment explanation
Indices: 27378376--27378473 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
27378366 AAATTTCTTC
*
27378376 TCAATTTGCTTTCAAATTCCT-TCAAAATTTCTCTCAAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTGT-AAAATTTCTCTCAAATCCATATTTATTT
* * * *
27378427 TCAATTTGCTCTCAAGTTCCTGTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTGTAAAATTTCTCTCAAATCCATATTT
27378474 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
51 40 0.98
52 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.04, T:0.47
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTGTAAAATTTCTCTCAAATCCATATTTATTT
Found at i:27380275 original size:18 final size:18
Alignment explanation
Indices: 27380252--27380291 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
27380242 CAGGTGCGTT
*
27380252 TCCTAACCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
27380270 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
27380288 TCCT
1 TCCT
27380292 TTTTCCAGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.30, G:0.05, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:27380589 original size:21 final size:21
Alignment explanation
Indices: 27380549--27380595 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
27380539 ATGCCCTATT
*
27380549 GGAAGAACCAGAATCCCCGCC
1 GGAAGAACCACAATCCCCGCC
27380570 GGAAGAACCACAA-CCGCCGCC
1 GGAAGAACCACAATCC-CCGCC
*
27380591 AGAAG
1 GGAAG
27380596 CTGGACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.36, C:0.36, G:0.26, T:0.02
Consensus pattern (21 bp):
GGAAGAACCACAATCCCCGCC
Found at i:27380911 original size:22 final size:22
Alignment explanation
Indices: 27380886--27380987 Score: 145
Period size: 22 Copynumber: 4.7 Consensus size: 22
27380876 CTTAAATTAA
*
27380886 AAACCCTTAACCTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
27380908 AAACCCTTAACTTAAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
* *
27380930 -AACCCTTAACTTTAAAATCCT
1 AAACCCTTAACTTAAAAACCCT
* *
27380951 AAACCCTTAAATTTAAAACCCT
1 AAACCCTTAACTTAAAAACCCT
27380973 -AACCCTTAACTTAAA
1 AAACCCTTAACTTAAA
27380988 TATAATTTGA
Statistics
Matches: 72, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
21 32 0.44
22 40 0.56
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCCTTAACTTAAAAACCCT
Found at i:27380912 original size:15 final size:15
Alignment explanation
Indices: 27380883--27380912 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
27380873 ACCCTTAAAT
*
27380883 TAAAAACCCTTAACC
1 TAAAAACCCTAAACC
27380898 TAAAAACCCTAAACC
1 TAAAAACCCTAAACC
27380913 CTTAACTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (15 bp):
TAAAAACCCTAAACC
Found at i:27380927 original size:15 final size:15
Alignment explanation
Indices: 27380844--27380907 Score: 62
Period size: 15 Copynumber: 4.5 Consensus size: 15
27380834 GACAAACCTT
27380844 AAACCCTTAACTTAA
1 AAACCCTTAACTTAA
*
27380859 AAACCC-TAAC--CA
1 AAACCCTTAACTTAA
** *
27380871 TGACCCTTAAATTAA
1 AAACCCTTAACTTAA
*
27380886 AAACCCTTAACCTAA
1 AAACCCTTAACTTAA
27380901 AAACCCT
1 AAACCCT
27380908 AAACCCTTAA
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
12 5 0.14
13 3 0.08
14 4 0.11
15 25 0.68
ACGTcount: A:0.45, C:0.31, G:0.02, T:0.22
Consensus pattern (15 bp):
AAACCCTTAACTTAA
Found at i:27380945 original size:64 final size:65
Alignment explanation
Indices: 27380837--27380987 Score: 189
Period size: 64 Copynumber: 2.4 Consensus size: 65
27380827 TTTAATTGAC
* * * *
27380837 AAACCTTAAACCCTTAACTTAAAAACCCTAACCATGACCCTT-AAATTAAAAACCCTTAACCTAA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCATGAACCTTAAAATCAAAAACCCTTAAACTAA
* * * ** * *
27380901 AAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTTAAAATCCTAAACCCTTAAATTTA
1 AAACCCTAAACCCTTAACTTAAAAACCCTAACCATGAACCTTAAAATCAAAAACCCTTAAACTAA
27380966 AAACCCT-AACCCTTAACTTAAA
1 AAACCCTAAACCCTTAACTTAAA
27380988 TATAATTTGA
Statistics
Matches: 75, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
64 52 0.69
65 23 0.31
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (65 bp):
AAACCCTAAACCCTTAACTTAAAAACCCTAACCATGAACCTTAAAATCAAAAACCCTTAAACTAA
Found at i:27380952 original size:43 final size:43
Alignment explanation
Indices: 27380887--27380987 Score: 157
Period size: 43 Copynumber: 2.3 Consensus size: 43
27380877 TTAAATTAAA
* *
27380887 AACCCTTAACCTAAAAACCCTAAACCCTTAACTTAAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
* * *
27380930 AACCCTTAACTTTAAAATCCTAAACCCTTAAATTTAAAACCCT
1 AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
27380973 AACCCTTAACTTAAA
1 AACCCTTAACTTAAA
27380988 TATAATTTGA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.26
Consensus pattern (43 bp):
AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCT
Found at i:27384294 original size:124 final size:124
Alignment explanation
Indices: 27384134--27384698 Score: 622
Period size: 125 Copynumber: 4.5 Consensus size: 124
27384124 CCTAAACATG
* * * *
27384134 CTACTGTAGAAAAAGCGCGTTCAAGTA-GGCGCGATTTCACAAATTCTTCTCATAAAGCATCTTG
1 CTACTGTAGCAAAAGCGCGTCCACG-AGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
* * * *
27384198 CTAGAAGCGATTTTATACTATTTGCTCAGAAATG-CTAAGTCGAAATTATTTTTCCAAGAC
65 CTTGAAGCGATTTTAAACTATTTGCTCAGAAACGTC-AACTCGAAATTATTTTTCCAAGAC
* *
27384258 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAACATGCTG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
* * * * *
27384322 CTTGCAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTA-TTTT-CAGGAC
65 CTTGAAGCG--ATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* ** * * * *
27384382 CTACTATAGCAAAAATGCATCCACGTGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
** *
27384447 TTGAAGCTTTTTTAAAACTATTTGCTCA-AAAAGTCAACTCGAAATTATTTCTTCCAAGAC
66 TTGAAGCGATTTT-AAACTATTTGCTCAGAAACGTCAACTCGAAATTATTT-TTCCAAGAC
* * * *
27384507 CAACTGTAGCAAAAGCGAGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGTATCCTTC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
27384572 TTGAAGC-ATTTTTTAAACTTTTTGATCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
66 TTGAAGCGA--TTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
* * * * * * * * *
27384632 CTACTGTAGCAAAAGTGCGTACATGTGGGCGCGACTTCAAAAATCCTTCTGATAAATCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
27384697 TT
66 TT
27384699 TGATTTTATC
Statistics
Matches: 369, Mismatches: 59, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
122 21 0.06
123 18 0.05
124 126 0.34
125 146 0.40
126 57 0.15
127 1 0.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTGAAGCGATTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAAGAC
Found at i:27398141 original size:16 final size:15
Alignment explanation
Indices: 27398120--27398159 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
27398110 TTTATGCTTG
27398120 TGAAAAAAATGAAAAA
1 TGAAAAAAA-GAAAAA
*
27398136 TGAAAAGAAAGAGAAA
1 TGAAAA-AAAGAAAAA
27398152 TGAAAAAA
1 TGAAAAAA
27398160 TGGATTCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 17 0.77
17 3 0.14
ACGTcount: A:0.72, C:0.00, G:0.17, T:0.10
Consensus pattern (15 bp):
TGAAAAAAAGAAAAA
Found at i:27400042 original size:27 final size:27
Alignment explanation
Indices: 27400011--27400084 Score: 76
Period size: 30 Copynumber: 2.6 Consensus size: 27
27400001 GTTCATTGGC
27400011 CTAGTTTAGATTTAGTGGTTGTGAGGT
1 CTAGTTTAGATTTAGTGGTTGTGAGGT
* * * *
27400038 CTAGTTTACATAGTGTATTAGTTTTGAGGT
1 CTAGTTTAGAT--T-TAGTGGTTGTGAGGT
*
27400068 CTATTTTAGATTTAGTG
1 CTAGTTTAGATTTAGTG
27400085 ACCTAGTTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
27 13 0.36
28 1 0.03
29 1 0.03
30 21 0.58
ACGTcount: A:0.22, C:0.05, G:0.26, T:0.47
Consensus pattern (27 bp):
CTAGTTTAGATTTAGTGGTTGTGAGGT
Found at i:27401761 original size:12 final size:12
Alignment explanation
Indices: 27401744--27401772 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
27401734 AAGCTTTTTC
27401744 TTTTAGAAGCTG
1 TTTTAGAAGCTG
27401756 TTTTAGAAGCTG
1 TTTTAGAAGCTG
27401768 TTTTA
1 TTTTA
27401773 ACAATCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (12 bp):
TTTTAGAAGCTG
Found at i:27401783 original size:23 final size:23
Alignment explanation
Indices: 27401756--27401807 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
27401746 TTAGAAGCTG
*
27401756 TTTTAGAAGCTGTTTTAACAATC
1 TTTTAGAAGCTGTTTTAACAATA
*
27401779 TTTTAGAAGTTGTTTTAACAATA
1 TTTTAGAAGCTGTTTTAACAATA
27401802 TTTTAG
1 TTTTAG
27401808 GTTGTGGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (23 bp):
TTTTAGAAGCTGTTTTAACAATA
Found at i:27404668 original size:30 final size:30
Alignment explanation
Indices: 27404634--27404693 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
27404624 AGAGTATACA
27404634 ATAAGAAGCTTTGAATCATGGTACTACTTG
1 ATAAGAAGCTTTGAATCATGGTACTACTTG
27404664 ATAAGAAGCTTTGAATCATGGTACTACTTG
1 ATAAGAAGCTTTGAATCATGGTACTACTTG
27404694 TGGACCGACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (30 bp):
ATAAGAAGCTTTGAATCATGGTACTACTTG
Found at i:27405418 original size:17 final size:17
Alignment explanation
Indices: 27405398--27405436 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
27405388 CCAAAAATAA
27405398 TAATATTTTAA-TAAATT
1 TAATA-TTTAATTAAATT
*
27405415 TAATATTTAATTTAATT
1 TAATATTTAATTAAATT
27405432 TAATA
1 TAATA
27405437 CTTATCCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TAATATTTAATTAAATT
Found at i:27414849 original size:6 final size:6
Alignment explanation
Indices: 27414838--27414894 Score: 96
Period size: 6 Copynumber: 9.5 Consensus size: 6
27414828 TTCTTATTTC
* *
27414838 AAAAAT AAAAAT AAAAAT AAAAAT AACACT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
27414886 AAAAAT AAA
1 AAAAAT AAA
27414895 GAAGACCAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.81, C:0.04, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:27432954 original size:16 final size:16
Alignment explanation
Indices: 27432933--27432964 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27432923 GTTTTGTTGC
*
27432933 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
27432949 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
27432965 CTTTCAATCA
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:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:27433336 original size:50 final size:49
Alignment explanation
Indices: 27433188--27433379 Score: 210
Period size: 50 Copynumber: 3.8 Consensus size: 49
27433178 GATACCGGTT
* * *
27433188 CACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACATATGACCATCA-T-TCTGGTA
* * *
27433239 CACGTAGTAGCCTGCACATAGTACCACACACGTGATTGA--AGCA-TCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACA--T-A-TGACCATCATTCTGGTA
* * *
27433289 CGCATAGTAGCTTGCACATAGTACTACACATACGACCTATCATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACATATGACC-ATCATTCTGGTA
*
27433339 CACGTAGTAGCCTGCACATAGTACTACACATATGACCATCA
1 CACATAGTAGCCTGCACATAGTACTACACATATGACCATCA
27433380 CTTTCACTTT
Statistics
Matches: 117, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
46 2 0.02
47 1 0.01
48 1 0.01
49 7 0.06
50 71 0.61
51 28 0.24
53 4 0.03
55 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.24
Consensus pattern (49 bp):
CACATAGTAGCCTGCACATAGTACTACACATATGACCATCATTCTGGTA
Found at i:27433397 original size:101 final size:100
Alignment explanation
Indices: 27433185--27433368 Score: 246
Period size: 101 Copynumber: 1.8 Consensus size: 100
27433175 AATGATACCG
**
27433185 GTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGC
1 GTTCACATAGTAGCCTGCACATAGTACTACACATACGACCATCACTATCCGATACACGTAGTAGC
**
27433250 CTGCACATAGTACCACACACGTGATTGAAGCATCTG
66 CTGCACATAGTACCACACAC-TGATTGAAGCATCAC
* * * * *
27433286 GTACGCATAGTAGCTTGCACATAGTACTACACATACGACCTATCA-T-TCTGGTACACGTAGTAG
1 GTTCACATAGTAGCCTGCACATAGTACTACACATACGACC-ATCACTATCCGATACACGTAGTAG
*
27433349 CCTGCACATAGTACTACACA
65 CCTGCACATAGTACCACACA
27433369 TATGACCATC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 34 0.46
101 36 0.49
102 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (100 bp):
GTTCACATAGTAGCCTGCACATAGTACTACACATACGACCATCACTATCCGATACACGTAGTAGC
CTGCACATAGTACCACACACTGATTGAAGCATCAC
Found at i:27435466 original size:16 final size:17
Alignment explanation
Indices: 27435445--27435478 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
27435435 TTGGATTGAG
27435445 AAAATT-ATTTAATTAA
1 AAAATTAATTTAATTAA
*
27435461 AAAATTAATTTATTTAA
1 AAAATTAATTTAATTAA
27435478 A
1 A
27435479 TTATTTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAATTTAATTAA
Found at i:27438067 original size:42 final size:43
Alignment explanation
Indices: 27437862--27438057 Score: 252
Period size: 43 Copynumber: 4.6 Consensus size: 43
27437852 TTTGCGACGC
27437862 CTTTTC-CACAAACGCCGCTATAAACCACGACCTTTAGCGGCA
1 CTTTTCTCACAAACGCCGCTATAAACCACGACCTTTAGCGGCA
* *
27437904 CTTTTCTCACAAACGCCGCTATAGACCATGACCTTTAGCGGCA
1 CTTTTCTCACAAACGCCGCTATAAACCACGACCTTTAGCGGCA
* ** *
27437947 CTTTTCCCACAAACGCCGCTATTGACCACGACCTTTAGCGGCG
1 CTTTTCTCACAAACGCCGCTATAAACCACGACCTTTAGCGGCA
* * * *
27437990 CTTTTATCACAAACGCCGCTAAAAAACA-AACCTTTAGCGGCA
1 CTTTTCTCACAAACGCCGCTATAAACCACGACCTTTAGCGGCA
* * * *
27438032 CTTCTCGCAAAAACGCCGCTAAAAAC
1 CTTTTCTCACAAACGCCGCTATAAAC
27438058 ATAACCTTTA
Statistics
Matches: 134, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
42 39 0.29
43 95 0.71
ACGTcount: A:0.30, C:0.34, G:0.15, T:0.22
Consensus pattern (43 bp):
CTTTTCTCACAAACGCCGCTATAAACCACGACCTTTAGCGGCA
Found at i:27439981 original size:22 final size:22
Alignment explanation
Indices: 27439953--27439996 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27439943 CAACGTTATA
27439953 TAAAATTCTTATAGCCAATAGC
1 TAAAATTCTTATAGCCAATAGC
27439975 TAAAATTCTTATAGCCAATAGC
1 TAAAATTCTTATAGCCAATAGC
27439997 CAATATTTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (22 bp):
TAAAATTCTTATAGCCAATAGC
Found at i:27442761 original size:146 final size:147
Alignment explanation
Indices: 27442496--27442789 Score: 450
Period size: 146 Copynumber: 2.0 Consensus size: 147
27442486 GGGGGTTTTT
*
27442496 TATAAAATGGCGCTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGC
1 TATAAAATGGCACTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGC
* * *** *
27442561 TATTTCTTACATTTTGCGATGTTTTTGTGAAAAACGCTGTAACAAATTATTTCATTTGGAATAAA
66 TATTGCTTACATTTTGCGATGTTTTTATGAAAAACGCCACAAAAAATTATTTCATTTGGAATAAA
*
27442626 ATGACACTGTTTTGCTA
131 ACGACACTGTTTTGCTA
*
27442643 TATAAAATGGCACTA-TTTTTTTAAAGTAAAATTATTTTTTGTGGCG-TTTTTATAAAAACGCCG
1 TATAAAATGGCACTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTAT-AAAACGCCG
* *
27442706 CTATTGCTTACCTTTTGCGGTGTTTTTCAT-AAAAACGCCACAAAAAATTATTTCATTTGGAATA
65 CTATTGCTTACATTTTGCGATGTTTTT-ATGAAAAACGCCACAAAAAATTATTTCATTTGGAATA
27442770 AAACGACACTGTTTTGCTA
129 AAACGACACTGTTTTGCTA
27442789 T
1 T
27442790 GCTTAAAATC
Statistics
Matches: 134, Mismatches: 11, Indels: 5
0.89 0.07 0.03
Matches are distributed among these distances:
145 7 0.05
146 112 0.84
147 15 0.11
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (147 bp):
TATAAAATGGCACTATTTTTTTTAAAGTAAAATTAATTTTTGTGGCGTTTTTTATAAAACGCCGC
TATTGCTTACATTTTGCGATGTTTTTATGAAAAACGCCACAAAAAATTATTTCATTTGGAATAAA
ACGACACTGTTTTGCTA
Found at i:27443612 original size:7 final size:7
Alignment explanation
Indices: 27443600--27443644 Score: 90
Period size: 7 Copynumber: 6.4 Consensus size: 7
27443590 ACTATCTCTT
27443600 AACCCCA
1 AACCCCA
27443607 AACCCCA
1 AACCCCA
27443614 AACCCCA
1 AACCCCA
27443621 AACCCCA
1 AACCCCA
27443628 AACCCCA
1 AACCCCA
27443635 AACCCCA
1 AACCCCA
27443642 AAC
1 AAC
27443645 TCCTAGCCAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.44, C:0.56, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCCCA
Found at i:27443935 original size:118 final size:118
Alignment explanation
Indices: 27443733--27443986 Score: 508
Period size: 118 Copynumber: 2.2 Consensus size: 118
27443723 ACCCGAATCC
27443733 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACGCTAATTAATCTAAACCCT
1 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACGCTAATTAATCTAAACCCT
27443798 AAACCCTAACCTGACATCGAATCCATAAACACTAAATTCCTAACTCTTAACCT
66 AAACCCTAACCTGACATCGAATCCATAAACACTAAATTCCTAACTCTTAACCT
27443851 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACGCTAATTAATCTAAACCCT
1 CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACGCTAATTAATCTAAACCCT
27443916 AAACCCTAACCTGACATCGAATCCATAAACACTAAATTCCTAACTCTTAACCT
66 AAACCCTAACCTGACATCGAATCCATAAACACTAAATTCCTAACTCTTAACCT
27443969 CTAACCCCTAACCCCTAA
1 CTAACCCCTAACCCCTAA
27443987 CCCATAAACC
Statistics
Matches: 136, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 136 1.00
ACGTcount: A:0.41, C:0.30, G:0.02, T:0.26
Consensus pattern (118 bp):
CTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACGCTAATTAATCTAAACCCT
AAACCCTAACCTGACATCGAATCCATAAACACTAAATTCCTAACTCTTAACCT
Found at i:27444037 original size:14 final size:15
Alignment explanation
Indices: 27444020--27444052 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27444010 CTTAAATCAG
*
27444020 AATCCCTGA-TCCAT
1 AATCCCTAATTCCAT
27444034 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
27444049 AATC
1 AATC
27444053 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:27444527 original size:41 final size:40
Alignment explanation
Indices: 27444470--27444622 Score: 164
Period size: 41 Copynumber: 3.8 Consensus size: 40
27444460 CGCTTTTTCA
* *
27444470 AAAACGCCGCTAAAGCCCCGAGCATTAGCGACACATCTTGG
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCAC-TCTTGG
* **
27444511 AAAACGCCGCTAAAG-CCAGAGCATTAGCGGCACTTTTCCA
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTCTT-GG
** * *
27444551 AAAACGCCGCTAAAGATCTGAGCATTAGCGGCTCTTCTTGG
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCAC-TCTTGG
* * *
27444592 AAAACACCACTAAATCCCAGAGCATTAGCGG
1 AAAACGCCGCTAAAGCCCAGAGCATTAGCGG
27444623 TGCTTTTCCA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 31 0.34
41 55 0.60
42 3 0.03
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTCTTGG
Found at i:27444591 original size:81 final size:82
Alignment explanation
Indices: 27444456--27444656 Score: 269
Period size: 81 Copynumber: 2.5 Consensus size: 82
27444446 AAATGTTTTT
* ** * * *
27444456 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCGACACATCTTGGAAAACGCCGC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACATCTTGGAAAACACCAC
*
27444521 TAAA-GCCAGAGCATTA
66 TAAATCCCAGAGCATTA
* * * *
27444537 GCGGCACTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGGCTCTTCTTGGAAAACACCAC
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACATCTTGGAAAACACCAC
27444602 TAAATCCCAGAGCATTA
66 TAAATCCCAGAGCATTA
* * *
27444619 GCGGTGCTTTTCCAAAAATGCCACTAAAGATCTGAGCA
1 GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCA
27444657 AATCTGAGCA
Statistics
Matches: 104, Mismatches: 15, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
81 59 0.57
82 45 0.43
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.20
Consensus pattern (82 bp):
GCGGCGCTTTTCCAAAAACGCCGCTAAAGATCTGAGCATTAGCGACACATCTTGGAAAACACCAC
TAAATCCCAGAGCATTA
Found at i:27444643 original size:41 final size:39
Alignment explanation
Indices: 27444511--27444648 Score: 109
Period size: 41 Copynumber: 3.4 Consensus size: 39
27444501 CACATCTTGG
* * *
27444511 AAAACGCCGCTAAAG-CCAGAGCATTAGCGGCACTTTTCC
1 AAAAAGCCACTAAAGACCAGAGCATTAGCGG-TCTTTTCC
* * * **
27444550 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCTCTTCTTGG
1 AAAAA-GCCACTAAAGACCAGAGCATTAGCGG-TCTT-TTCC
**
27444592 AAAACA-CCACTAAATCCCAGAGCATTAGCGGTGCTTTTCC
1 AAAA-AGCCACTAAAGACCAGAGCATTAGCGGT-CTTTTCC
27444632 AAAAATGCCACTAAAGA
1 AAAAA-GCCACTAAAGA
27444649 TCTGAGCAAA
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
39 5 0.06
40 17 0.22
41 48 0.62
42 6 0.08
43 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.19, T:0.20
Consensus pattern (39 bp):
AAAAAGCCACTAAAGACCAGAGCATTAGCGGTCTTTTCC
Found at i:27444656 original size:41 final size:39
Alignment explanation
Indices: 27444529--27444656 Score: 114
Period size: 41 Copynumber: 3.1 Consensus size: 39
27444519 GCTAAAGCCA
* *
27444529 GAGCATTAGCGGCACTTTTCCAAAAACGCCGCTAAAGATCT
1 GAGCATTAGCGG-TCTTTTCCAAAAA-GCCACTAAAGATCT
** *** *
27444570 GAGCATTAGCGGCTCTTCTTGGAAAACA-CCACTAAATCCCA
1 GAGCATTAGCGG-TCTT-TTCCAAAA-AGCCACTAAAGATCT
27444611 GAGCATTAGCGGTGCTTTTCCAAAAATGCCACTAAAGATCT
1 GAGCATTAGCGGT-CTTTTCCAAAAA-GCCACTAAAGATCT
27444652 GAGCA
1 GAGCA
27444657 AATCTGAGCA
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
39 1 0.01
40 7 0.10
41 53 0.78
42 6 0.09
43 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.23
Consensus pattern (39 bp):
GAGCATTAGCGGTCTTTTCCAAAAAGCCACTAAAGATCT
Found at i:27454272 original size:27 final size:27
Alignment explanation
Indices: 27454242--27454303 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
27454232 TATAAAATAA
* * *
27454242 TTAAAATTCAATTTTTTTA-AATGAAGG
1 TTAAAATT-AATTATTTTATAATAAAAG
27454269 TT-AAATTAATTATTTTATAATAAAAG
1 TTAAAATTAATTATTTTATAATAAAAG
27454295 TATAAAATT
1 T-TAAAATT
27454304 TGACAGAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 9 0.31
26 12 0.41
27 3 0.10
28 5 0.17
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (27 bp):
TTAAAATTAATTATTTTATAATAAAAG
Found at i:27457603 original size:43 final size:43
Alignment explanation
Indices: 27457552--27457645 Score: 134
Period size: 43 Copynumber: 2.2 Consensus size: 43
27457542 GAGTCCTCAG
* * * *
27457552 TGCATCATCAGATAAACCGAAGCAAATATATTGGCACACATAA
1 TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
* *
27457595 TGTATCATCAAACAAACCGAAGCAAATATACTGACACACATAG
1 TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
27457638 TGCATCAT
1 TGCATCAT
27457646 TGGAAAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.44, C:0.22, G:0.13, T:0.21
Consensus pattern (43 bp):
TGCATCATCAAACAAACCGAAGCAAATATACTGACACACATAA
Found at i:27458225 original size:9 final size:9
Alignment explanation
Indices: 27458211--27458237 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
27458201 TACATCCAAG
27458211 TTTAATTTA
1 TTTAATTTA
27458220 TTTAATTTA
1 TTTAATTTA
27458229 TTTAATTTA
1 TTTAATTTA
27458238 GTCCCTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTAATTTA
Found at i:27462967 original size:26 final size:27
Alignment explanation
Indices: 27462929--27462980 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
27462919 GTACATTCAT
27462929 ATCTGATCACATT-ATTTTTAAAAAAA
1 ATCTGATCACATTAATTTTTAAAAAAA
**
27462955 ATCTGATTTCATTAAATTTTTAAAAA
1 ATCTGATCACATT-AATTTTTAAAAA
27462981 TCATCTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 11 0.50
28 11 0.50
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (27 bp):
ATCTGATCACATTAATTTTTAAAAAAA
Found at i:27468346 original size:52 final size:46
Alignment explanation
Indices: 27468327--27468673 Score: 460
Period size: 46 Copynumber: 7.3 Consensus size: 46
27468317 TGACAAGTGG
* * *
27468327 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
27468373 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* * *
27468419 AAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC
1 ------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
27468471 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* * * *
27468517 AAGTGAAAAGTGATAAGTGATAGCTACGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
27468569 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
* *
27468615 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
27468661 AAAGTGATAAGTG
1 AAAGTGATAAGTG
27468674 GCTACACTTA
Statistics
Matches: 272, Mismatches: 17, Indels: 24
0.87 0.05 0.08
Matches are distributed among these distances:
46 187 0.69
52 85 0.31
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC
Found at i:27468381 original size:98 final size:98
Alignment explanation
Indices: 27468261--27468673 Score: 667
Period size: 98 Copynumber: 4.3 Consensus size: 98
27468251 TTTGAGTACT
* *
27468261 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
27468326 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
27468359 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
27468424 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
27468457 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* * *
27468522 AAAAGTGATAAGTGATAGCTACGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
27468555 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* ** *
27468615 -AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
*
27468647 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
27468674 GCTACACTTA
Statistics
Matches: 303, Mismatches: 12, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
92 55 0.18
98 248 0.82
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:27468681 original size:37 final size:37
Alignment explanation
Indices: 27468637--27468856 Score: 390
Period size: 37 Copynumber: 6.0 Consensus size: 37
27468627 GATAGCTTTA
*
27468637 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
27468674 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
27468711 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
27468748 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
27468785 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
27468822 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
27468857 ATCATACGTA
Statistics
Matches: 178, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
35 11 0.06
36 4 0.02
37 163 0.92
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:27471448 original size:46 final size:46
Alignment explanation
Indices: 27471387--27471557 Score: 270
Period size: 46 Copynumber: 3.6 Consensus size: 46
27471377 TTTGAGTACT
27471387 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
27471433 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
27471479 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC------AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
27471531 TCTGATCAAGAGACAAAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
27471558 GCTACACTTA
Statistics
Matches: 116, Mismatches: 3, Indels: 12
0.89 0.02 0.09
Matches are distributed among these distances:
46 72 0.62
52 44 0.38
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.28
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:27471513 original size:52 final size:52
Alignment explanation
Indices: 27471439--27471557 Score: 193
Period size: 52 Copynumber: 2.2 Consensus size: 52
27471429 CTTATCTGAT
*
27471439 CAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 CAAGTGA-AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
*
27471492 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGA
1 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
*
27471544 CAAAGTGATAAGTG
1 C-AAGTGAAAAGTG
27471558 GCTACACTTA
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
52 44 0.71
53 18 0.29
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAGA
Found at i:27471567 original size:37 final size:37
Alignment explanation
Indices: 27471520--27471629 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
27471510 TGATAGCTTC
*
27471520 GGCTATACTTATCTGATCAAGAGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
* *
27471557 GGCTACACTTATCTGATCAAGAAACAAAGTGATAGGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
27471594 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
27471629 G
1 G
27471630 ATCATACGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 11 0.16
36 4 0.06
37 52 0.78
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:27473463 original size:6 final size:6
Alignment explanation
Indices: 27473452--27473510 Score: 64
Period size: 6 Copynumber: 9.7 Consensus size: 6
27473442 AGGAGGAAGA
* ** *
27473452 AAAATC AAAATC AAAATC AAAAGC AAAAAGA AAAATC AAAATC AAAGTC
1 AAAATC AAAATC AAAATC AAAATC -AAAATC AAAATC AAAATC AAAATC
*
27473501 AAAGTC AAAA
1 AAAATC AAAA
27473511 AATGAAAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 41 0.89
7 5 0.11
ACGTcount: A:0.68, C:0.14, G:0.07, T:0.12
Consensus pattern (6 bp):
AAAATC
Found at i:27473483 original size:31 final size:31
Alignment explanation
Indices: 27473448--27473511 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
27473438 AAAAAGGAGG
27473448 AAGAAAAATCAAAATCAAAATCAAAAG-CAAA
1 AAGAAAAATCAAAATCAAAATC-AAAGTCAAA
*
27473479 AAGAAAAATCAAAATCAAAGTCAAAGTCAAA
1 AAGAAAAATCAAAATCAAAATCAAAGTCAAA
27473510 AA
1 AA
27473512 ATGAAAATGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 4 0.13
31 27 0.87
ACGTcount: A:0.69, C:0.12, G:0.08, T:0.11
Consensus pattern (31 bp):
AAGAAAAATCAAAATCAAAATCAAAGTCAAA
Found at i:27474629 original size:38 final size:38
Alignment explanation
Indices: 27474578--27474654 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
27474568 GGGCGGCTCA
27474578 AATATTGATCAGATTGGGGCATGTGGTGATCTTGATAT
1 AATATTGATCAGATTGGGGCATGTGGTGATCTTGATAT
27474616 AATATTGATCAGATTGGGGCATGTGGTGATCTTGATAT
1 AATATTGATCAGATTGGGGCATGTGGTGATCTTGATAT
27474654 A
1 A
27474655 CTTGAATCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.27, C:0.08, G:0.29, T:0.36
Consensus pattern (38 bp):
AATATTGATCAGATTGGGGCATGTGGTGATCTTGATAT
Found at i:27475613 original size:13 final size:13
Alignment explanation
Indices: 27475595--27475625 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
27475585 GATCATTCTC
27475595 AAAATAAATAAAT
1 AAAATAAATAAAT
27475608 AAAATAAATAAAT
1 AAAATAAATAAAT
27475621 AAAAT
1 AAAAT
27475626 TCTGCAAGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (13 bp):
AAAATAAATAAAT
Found at i:27475807 original size:44 final size:42
Alignment explanation
Indices: 27475758--27475984 Score: 121
Period size: 44 Copynumber: 5.2 Consensus size: 42
27475748 GATAACAGAT
*
27475758 CTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCCTGCA-TGACAGTGAAGCAGATCGAAGACAC-AGC
* * * * * * * * *
27475802 CTTGCCTCCCTGGATTACAGTGGAGCAGGTTGAAAATAACAGAT
1 CTTGCCTTCCTGCATGACAGTGAAGCAGATCGAAGA-CACAG-C
* * *
27475846 CTTGTCTTCCTGTATTGACAGTTAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCA-TGACAGTGAAGCAGATCGAAGACA-CAGC
** * * * * ** * * *
27475890 CTTGCCTTCCTGGGTTACAGCGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCATGACAGTGAAGCAGATCGAAGACA-CAG-C
* * *
27475934 CTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGA
1 CTTGCCTTCCTGCA-TGACAGTGAAGCAGATCGAAGACA-CAGC
27475978 CTTGCCT
1 CTTGCCT
27475985 CCCTAGGTTG
Statistics
Matches: 129, Mismatches: 48, Indels: 12
0.68 0.25 0.06
Matches are distributed among these distances:
43 36 0.28
44 56 0.43
45 37 0.29
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.24
Consensus pattern (42 bp):
CTTGCCTTCCTGCATGACAGTGAAGCAGATCGAAGACACAGC
Found at i:27475902 original size:88 final size:87
Alignment explanation
Indices: 27475744--27476209 Score: 601
Period size: 88 Copynumber: 5.3 Consensus size: 87
27475734 AACAGATCAG
* * ** *
27475744 TGAAGATAACAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
* *
27475809 CCCTGGATTACAGTGGAGCAGGT
66 CCCTGG-TTGCAGCGGAGCAGGT
* *
27475832 TGAAAATAACAGATCTTGTCTTCCTGTATTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
* *
27475897 TCCTGGGTTACAGCGGAGCAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* * *
27475920 TAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGACTTGCCT
1 TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
*
27475985 CCCTAGGTTGCAGCGGAGTAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
* * * * * ** **
27476008 TAAAAATAGCATATCTTGCCTTCCTGCACCGATGGCAAAGCAGATCGAAGACACCAGCCTTGCCT
1 TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
*
27476073 CCCTGGATTGCAGTGGAGCAGGT
66 CCCTGG-TTGCAGCGGAGCAGGT
* * * *
27476096 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCGGACTTGCCT
1 TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
*
27476161 CCTTAGGTTGCAGCGGAGCAGGT
66 CCCT-GGTTGCAGCGGAGCAGGT
27476184 TGAAAA-ATACAGATCTTGCCTTCCTG
1 TGAAAATA-ACAGATCTTGCCTTCCTG
27476210 CACCGATGGN
Statistics
Matches: 331, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
87 3 0.01
88 324 0.98
89 4 0.01
ACGTcount: A:0.27, C:0.25, G:0.24, T:0.24
Consensus pattern (87 bp):
TGAAAATAACAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTGGTTGCAGCGGAGCAGGT
Found at i:27476051 original size:176 final size:176
Alignment explanation
Indices: 27475744--27476626 Score: 918
Period size: 176 Copynumber: 5.1 Consensus size: 176
27475734 AACAGATCAG
* * *
27475744 TGAAGATAACAGATCTTGCCTTCCTGCACTGACAGCGAAGCAGATCGAAGACACTAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCT
* * * * * ** * **
27475809 CCCT-GGATTACAGTGGAGCAGGTTGAAAATAACAGATCTTGTCTTCCTGTATTGACAGTTAAGC
66 CCCTAGG-TTGCAGTGGAGTAGGTTAAAAATAACAGATCTTGCCTTCCTGCACCGATAGCAAAGC
* * * *
27475873 AGATCGAAGACACCAGCCTTGCCTTCCTGGGTTACAGCGGAGCAGGT
130 AGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
* * * * *
27475920 TAAAAATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCAGACTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCT
* * * *
27475985 CCCTAGGTTGCAGCGGAGTAGGTTAAAAATAGCATATCTTGCCTTCCTGCACCGATGGCAAAGCA
66 CCCTAGGTTGCAGTGGAGTAGGTTAAAAATAACAGATCTTGCCTTCCTGCACCGATAGCAAAGCA
27476050 GATCGAAGACACCAGCCTTGCCTCCCT-GGATTGCAGTGGAGCAGGT
131 GATCGAAGACACCAGCCTTGCCTCCCTCGG-TTGCAGTGGAGCAGGT
* * * *
27476096 TGAAGATAGCAGATCTTGCCTTCCTGTACTGACAGTTAAGCAGATCGAAGACACCGGACTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCT
* * *
27476161 CCTTAGGTTGCAGCGGAGCAGGTTGAAAAAT-ACAGATCTTGCCTTCCTGCACCGAT------G-
66 CCCTAGGTTGCAGTGGAGTAGGTT-AAAAATAACAGATCTTGCCTTCCTGCACCGATAGCAAAGC
* *
27476218 -G-NC----ACA--AGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGT
130 AGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
* * * * *
27476257 TGAAGATAGCAGATCTTGCCTTCCTGCA-TCGAAAGCAAAGCAGATCAAAGACACAAGCCTTGCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCACT-GACAGCTAAGCAGATCGAAGACACCAGCCTTGCC
* * * * * * * * *
27476321 TCTCTCGGTTGTAGTAGAGTAGGTTGAAGATAGCGGATCTTGCCTTCCTGCATCGATAGCAAAGC
65 TCCCTAGGTTGCAGTGGAGTAGGTTAAAAATAACAGATCTTGCCTTCCTGCACCGATAGCAAAGC
* * *
27476386 AGATCGAAGAC-CAAAGCCTTGCCTCCCTCGGTTGTAGTGGAGTAGGT
130 AGATCGAAGACAC-CAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
* *
27476433 TGAAGATAAC-GAATCTTGCCTTCCTGCA-TCGACAGC-AGAGCAGATCGAAGACACCAGCCTTA
1 TGAAGATAGCAG-ATCTTGCCTTCCTGCACT-GACAGCTA-AGCAGATCGAAGACACCAGCCTTG
* * * * *
27476495 CCTCCCTTGGTTGCAGTGGAGCT-GGTTAAAGATAACAGATCTTGCCTTCCTGCGA-TGACAGCG
63 CCTCCCTAGGTTGCAGTGGAG-TAGGTTAAAAATAACAGATCTTGCCTTCCTGC-ACCGATAGCA
* *
27476558 AAGCAGATCGAAGATACCAGCCTTGCCTCCCTCGGTTGC-GATGGGGCAGGT
126 AAGCAGATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAG-TGGAGCAGGT
* *
27476609 TAAAGATAGTAGATCTTG
1 TGAAGATAGCAGATCTTG
27476627 TCCCTAAGCA
Statistics
Matches: 597, Mismatches: 81, Indels: 58
0.81 0.11 0.08
Matches are distributed among these distances:
160 5 0.01
161 122 0.20
162 2 0.00
163 3 0.01
167 2 0.00
168 1 0.00
169 1 0.00
170 2 0.00
174 2 0.00
175 5 0.01
176 440 0.74
177 12 0.02
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.24
Consensus pattern (176 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCACTGACAGCTAAGCAGATCGAAGACACCAGCCTTGCCT
CCCTAGGTTGCAGTGGAGTAGGTTAAAAATAACAGATCTTGCCTTCCTGCACCGATAGCAAAGCA
GATCGAAGACACCAGCCTTGCCTCCCTCGGTTGCAGTGGAGCAGGT
Found at i:27476333 original size:88 final size:88
Alignment explanation
Indices: 27476220--27476626 Score: 525
Period size: 88 Copynumber: 4.6 Consensus size: 88
27476210 CACCGATGGN
27476220 CACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
1 CACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
* *
27476285 TCGAAAGCAAAGCAGATCAAAGA
66 TCGACAGCAAAGCAGATCGAAGA
* * * * *
27476308 CACAAGCCTTGCTTCTCTCGGTTGTAGTAGAGTAGGTTGAAGATAGCGGATCTTGCCTTCCTGCA
1 CACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
*
27476373 TCGATAGCAAAGCAGATCGAAGA
66 TCGACAGCAAAGCAGATCGAAGA
* *
27476396 C-CAAAGCCTTGCCTCCCTCGGTTGTAGTGGAGTAGGTTGAAGATAAC-GAATCTTGCCTTCCTG
1 CAC-AAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAG-ATCTTGCCTTCCTG
*
27476459 CATCGACAGCAGAGCAGATCGAAGA
64 CATCGACAGCAAAGCAGATCGAAGA
* * * * * * *
27476484 CACCAGCCTTACCTCCCTTGGTTGCAGTGGAGCTGGTTAAAGATAACAGATCTTGCCTTCCTGCG
1 CACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGC-
*
27476549 AT-GACAGCGAAGCAGATCGAAGA
65 ATCGACAGCAAAGCAGATCGAAGA
* * * * * *
27476572 TACCAGCCTTGCCTCCCTCGGTTG-CGATGGGGCAGGTTAAAGATAGTAGATCTTG
1 CACAAGCCTTGCCTCCCTCGGTTGTAG-TGGAGCAGGTTGAAGATAGCAGATCTTG
27476627 TCCCTAAGCA
Statistics
Matches: 283, Mismatches: 30, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
87 3 0.01
88 276 0.98
89 4 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (88 bp):
CACAAGCCTTGCCTCCCTCGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCA
TCGACAGCAAAGCAGATCGAAGA
Done.