Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 49 of 311
Found at i:14044526 original size:48 final size:46
Alignment explanation
Indices: 14044425--14044532 Score: 130
Period size: 48 Copynumber: 2.3 Consensus size: 46
14044415 TCACTTGTGT
* * * *
14044425 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCATATTATGT
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACATATGACGA
14044471 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GACAT-TGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGACATAT--GACGA
14044519 GAGCTAGTGTAAGA
1 GAGCTAGTGTAAGA
14044533 GCTAGTGTAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
46 15 0.28
47 18 0.33
48 21 0.39
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGACATATGACGA
Found at i:14044535 original size:12 final size:12
Alignment explanation
Indices: 14044518--14044544 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14044508 CATTGAGACG
14044518 AGAGCTAGTGTA
1 AGAGCTAGTGTA
14044530 AGAGCTAGTGTA
1 AGAGCTAGTGTA
14044542 AGA
1 AGA
14044545 CATGTCTGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.22
Consensus pattern (12 bp):
AGAGCTAGTGTA
Found at i:14044656 original size:46 final size:45
Alignment explanation
Indices: 14044536--14044658 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 45
14044526 TGTAAGAGCT
**
14044536 AGTGTAAGACATGTCTGGGACATGCATTAGCTTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGT-AGCC
*
14044582 AGTGTAAGACATGTCTGGGACATGCATCGGCTGT-GAGATGT-GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-TCGAGATGTAGCC
*
14044626 AGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
14044659 ACCCTACCCC
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
44 10 0.14
45 14 0.20
46 45 0.64
47 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTTCGAGATGTAGCC
Found at i:14053075 original size:42 final size:42
Alignment explanation
Indices: 14053027--14053111 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
14053017 ATTTTTATTA
*
14053027 CTTAATTTATTATATTTAGTCCGACAAGATTTTTGTTTAAAT
1 CTTAATTTATTATAGTTAGTCCGACAAGATTTTTGTTTAAAT
* * *
14053069 CTTAATTTATTATAGTTAGTTCGATAAGGTTTTTGTTTAAAT
1 CTTAATTTATTATAGTTAGTCCGACAAGATTTTTGTTTAAAT
14053111 C
1 C
14053112 GTCGAACTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.51
Consensus pattern (42 bp):
CTTAATTTATTATAGTTAGTCCGACAAGATTTTTGTTTAAAT
Found at i:14063458 original size:3 final size:3
Alignment explanation
Indices: 14063450--14063499 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
14063440 ATTGAGGAGT
14063450 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14063498 AT
1 AT
14063500 TAAGAAGTAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:14072265 original size:32 final size:32
Alignment explanation
Indices: 14072161--14072267 Score: 108
Period size: 33 Copynumber: 3.3 Consensus size: 32
14072151 GGTGTACATT
* **
14072161 CCTTTCCAAGTGGTACACACAAAGTATACATTT
1 CCTTTTCAA-TGGTACACACAAAGTATACATAA
* *
14072194 CCTTTTCATATGGTATACACAAAGTATACCTAA
1 CCTTTTCA-ATGGTACACACAAAGTATACATAA
* * *
14072227 CATTTTCAACT-GTACACACAAGGTGTACATAA
1 CCTTTTCAA-TGGTACACACAAAGTATACATAA
14072259 CCTTTTCAA
1 CCTTTTCAA
14072268 ATTGTACCAT
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
32 26 0.43
33 34 0.56
34 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (32 bp):
CCTTTTCAATGGTACACACAAAGTATACATAA
Found at i:14073687 original size:22 final size:22
Alignment explanation
Indices: 14073656--14073697 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
14073646 ACTATCATTT
14073656 TCTAAATAAAATAATAATAATA
1 TCTAAATAAAATAATAATAATA
* *
14073678 TCTAAGTAAAATATTAATAA
1 TCTAAATAAAATAATAATAA
14073698 AATAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (22 bp):
TCTAAATAAAATAATAATAATA
Found at i:14074604 original size:15 final size:15
Alignment explanation
Indices: 14074584--14074613 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14074574 ATTATGAAAG
14074584 ATATGTTTTGGATTA
1 ATATGTTTTGGATTA
*
14074599 ATATGTTTTGTATTA
1 ATATGTTTTGGATTA
14074614 GAATTTTCGA
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:0.27, C:0.00, G:0.17, T:0.57
Consensus pattern (15 bp):
ATATGTTTTGGATTA
Found at i:14075236 original size:43 final size:43
Alignment explanation
Indices: 14075175--14075394 Score: 302
Period size: 43 Copynumber: 5.1 Consensus size: 43
14075165 ATGTGATTTC
* *
14075175 GATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCGTT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* * *
14075218 GATATGTGATTACGTGTAAGACCACGTCTGGGACATTGACATC
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* * *
14075261 GATATGTGATTACATGTAAGACCACGTCTAGGATGTTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
* *
14075304 GATACGTGATTACGTGTAAGACC-CTGTCTGGGACAG-TGGCATC
1 GATATGTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCATT
*
14075347 GATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATT
1 GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
14075390 G-TATG
1 GATATG
14075395 ATATGTGTGA
Statistics
Matches: 154, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
42 6 0.04
43 146 0.95
44 2 0.01
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.30
Consensus pattern (43 bp):
GATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATT
Found at i:14075318 original size:86 final size:86
Alignment explanation
Indices: 14075173--14075390 Score: 348
Period size: 86 Copynumber: 2.5 Consensus size: 86
14075163 ATATGTGATT
* * * *
14075173 TCGATATGTGATTACGTGTAAGACCATGTCTGGGACGTTGGCGTTGATATGTGATTACGTGTAAG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGATACGTGATTACGTGTAAG
*
14075238 ACCAC-GTCTGGGACATTGACA
66 ACC-CTGTCTGGGACAGTGACA
* *
14075259 TCGATATGTGATTACATGTAAGACCACGTCTAGGATGTTGGCATTGATACGTGATTACGTGTAAG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGATACGTGATTACGTGTAAG
*
14075324 ACCCTGTCTGGGACAGTGGCA
66 ACCCTGTCTGGGACAGTGACA
14075345 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTG
14075391 TATGATATGT
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
85 1 0.01
86 120 0.99
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (86 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATTGATACGTGATTACGTGTAAG
ACCCTGTCTGGGACAGTGACA
Found at i:14076576 original size:10 final size:10
Alignment explanation
Indices: 14076563--14076601 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
14076553 ATATGTGAAT
14076563 ATATCATGGC
1 ATATCATGGC
14076573 ATATCATGTGC
1 ATATCATG-GC
14076584 ATATCATGGC
1 ATATCATGGC
14076594 ATATCATG
1 ATATCATG
14076602 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:14076589 original size:21 final size:21
Alignment explanation
Indices: 14076563--14076602 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14076553 ATATGTGAAT
14076563 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
14076584 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
14076603 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:14076668 original size:25 final size:25
Alignment explanation
Indices: 14076640--14076690 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
14076630 ATAACATAAC
* * *
14076640 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
14076665 CCTAGGGGCAAAAAGGTCATTTTCA
1 CCTAGGGGCAAAAAGGTCATTTTCA
14076690 C
1 C
14076691 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (25 bp):
CCTAGGGGCAAAAAGGTCATTTTCA
Found at i:14084409 original size:10 final size:10
Alignment explanation
Indices: 14084396--14084434 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
14084386 ATATGTGAAT
14084396 ATATCATGGC
1 ATATCATGGC
14084406 ATATCATGTGC
1 ATATCATG-GC
14084417 ATATCATGGC
1 ATATCATGGC
14084427 ATATCATG
1 ATATCATG
14084435 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:14084422 original size:21 final size:21
Alignment explanation
Indices: 14084396--14084435 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
14084386 ATATGTGAAT
14084396 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
14084417 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
14084436 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:14084520 original size:24 final size:25
Alignment explanation
Indices: 14084475--14084524 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
14084465 ATAACATAAC
* *
14084475 CCTAGGGGTATAATGGTCATTTTCA
1 CCTAGGGGCATAAAGGTCATTTTCA
14084500 CCTAGGGGCA-AAAGGTCATTTTCA
1 CCTAGGGGCATAAAGGTCATTTTCA
14084524 C
1 C
14084525 ATTATAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (25 bp):
CCTAGGGGCATAAAGGTCATTTTCA
Found at i:14086900 original size:33 final size:33
Alignment explanation
Indices: 14086858--14086924 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
14086848 TATATAAGTA
14086858 TACATATATGTGAATCTTGTTTGATATGCTTTG
1 TACATATATGTGAATCTTGTTTGATATGCTTTG
14086891 TACATATATGTGAATCTTGTTTGATATGCTTTG
1 TACATATATGTGAATCTTGTTTGATATGCTTTG
14086924 T
1 T
14086925 TAAGGTTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (33 bp):
TACATATATGTGAATCTTGTTTGATATGCTTTG
Found at i:14089643 original size:6 final size:6
Alignment explanation
Indices: 14089632--14089666 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
14089622 AGGTTTCCAA
*
14089632 AAATGG AAATGG AAAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG -AAATGG AAATGG AAATGG AAAT
14089667 TTACAATCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.57, C:0.00, G:0.26, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:14089649 original size:13 final size:13
Alignment explanation
Indices: 14089631--14089666 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14089621 TAGGTTTCCA
14089631 AAAATGGAAATGG
1 AAAATGGAAATGG
*
14089644 AAAATGAAAATGG
1 AAAATGGAAATGG
14089657 -AAATGGAAAT
1 AAAATGGAAAT
14089667 TTACAATCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 9 0.43
13 12 0.57
ACGTcount: A:0.58, C:0.00, G:0.25, T:0.17
Consensus pattern (13 bp):
AAAATGGAAATGG
Found at i:14091758 original size:30 final size:30
Alignment explanation
Indices: 14091658--14091760 Score: 111
Period size: 30 Copynumber: 3.4 Consensus size: 30
14091648 GTTATTTATA
* **
14091658 TATAATATATATGGGTTTTGGTGTTATA--
1 TATAATATATTTGGGTCATGGTGTTATATG
* **
14091686 TATAATATATGTACGTGCATGGGTGTTATATG
1 TATAATATATTTGGGT-CAT-GGTGTTATATG
*
14091718 AATAATATATTTGGGTCATGGTGTTATATG
1 TATAATATATTTGGGTCATGGTGTTATATG
14091748 TATAATATATTTG
1 TATAATATATTTG
14091761 CGTGGGTCTG
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
28 13 0.21
29 1 0.02
30 32 0.52
31 3 0.05
32 12 0.20
ACGTcount: A:0.30, C:0.03, G:0.21, T:0.46
Consensus pattern (30 bp):
TATAATATATTTGGGTCATGGTGTTATATG
Found at i:14094285 original size:17 final size:18
Alignment explanation
Indices: 14094252--14094285 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14094242 ATGTGACATG
*
14094252 CCCGTGTGGGCCTACACC
1 CCCGTGTGGGCCCACACC
14094270 CCCGTGT-GGCCCACAC
1 CCCGTGTGGGCCCACAC
14094286 GACCCAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.12, C:0.47, G:0.26, T:0.15
Consensus pattern (18 bp):
CCCGTGTGGGCCCACACC
Found at i:14102500 original size:3 final size:3
Alignment explanation
Indices: 14102492--14102541 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
14102482 TGCATTCCAA
14102492 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
14102540 TA
1 TA
14102542 GTAAATGTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14102762 original size:14 final size:15
Alignment explanation
Indices: 14102745--14102774 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14102735 TTTATACTAT
14102745 TGTA-TGTATATTTC
1 TGTATTGTATATTTC
14102759 TGTATTGTATATTTC
1 TGTATTGTATATTTC
14102774 T
1 T
14102775 AACACCACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
TGTATTGTATATTTC
Found at i:14103514 original size:9 final size:9
Alignment explanation
Indices: 14103500--14103524 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14103490 TTATCTTATG
14103500 TATATATTT
1 TATATATTT
14103509 TATATATTT
1 TATATATTT
14103518 TATATAT
1 TATATAT
14103525 ATATTATGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TATATATTT
Found at i:14106716 original size:33 final size:34
Alignment explanation
Indices: 14106669--14106733 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
14106659 CTAAATTACT
* * *
14106669 CAGACTGGGCCTTAGCCCTTTTCGGTATTAGTGG
1 CAGACTGGGCCTTAGCCCATTACAGTATTAGTGG
14106703 CAGA-TGGGCCTTAGCCCATTACAGTATTAGT
1 CAGACTGGGCCTTAGCCCATTACAGTATTAGT
14106734 ACATGTATGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 24 0.86
34 4 0.14
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (34 bp):
CAGACTGGGCCTTAGCCCATTACAGTATTAGTGG
Found at i:14116978 original size:47 final size:47
Alignment explanation
Indices: 14116904--14117268 Score: 239
Period size: 48 Copynumber: 7.7 Consensus size: 47
14116894 AAGGTATAAT
* * *
14116904 GTTGATGCCATGTCTCGGACATAGTCTTACACTGGCTCATC-TATCAA
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATCAA
* * * * *
14116951 GTTGATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAG
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-ATATC-AA
** * * * *
14117000 GCCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACATATC-C
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATATCAA
* * * * * * *
14117048 GTGCTGATGTCATATCCCAGACATGGTCTAATACTGACACCTC-TAT-AC
1 GT--TGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATATCAA
* * *
14117096 GTTCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTAT--A
1 GTT--GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATATCAA
* * * *
14117144 GTTGATG-CATGTCCCAGACAT-GTTTTACACTAGCTCTCGTCTCAA
1 GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAA
* ***
14117189 -TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GT--TGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATCAA
14117238 GTTGATG-CATGTCCCAGACAT-GTCTTACACT
1 GTTGATGCCATGTCCCAGACATGGTCTTACACT
14117269 AGCACACAAA
Statistics
Matches: 247, Mismatches: 50, Indels: 43
0.73 0.15 0.13
Matches are distributed among these distances:
43 4 0.02
44 12 0.05
45 15 0.06
46 21 0.09
47 61 0.25
48 64 0.26
49 37 0.15
50 30 0.12
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (47 bp):
GTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATCAA
Found at i:14117218 original size:92 final size:93
Alignment explanation
Indices: 14117099--14117271 Score: 269
Period size: 92 Copynumber: 1.9 Consensus size: 93
14117089 TCTATACGTT
14117099 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACATC-T-TATAGTTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACAC-TCATATATAGTTGATGCATGTCCCAGA
*
14117162 CATGTTTTACACTAGCTCTCGTCTCAATA
65 CATGTCTTACACTAGCTCTCGTCTCAATA
* * * *
14117191 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCCAGA
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCAT-ATATAGTTGATGCATGTCCCAGA
14117256 CATGTCTTACACTAGC
65 CATGTCTTACACTAGC
14117272 ACACAAATGA
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
91 2 0.03
92 36 0.49
94 35 0.48
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.29
Consensus pattern (93 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACACTCATATATAGTTGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTCGTCTCAATA
Found at i:14117245 original size:48 final size:46
Alignment explanation
Indices: 14116903--14117268 Score: 192
Period size: 47 Copynumber: 7.7 Consensus size: 46
14116893 TAAGGTATAA
* * * *
14116903 TGTTGATGCCATGTCTCGGACATAGTCTTACACTGGCTCATCT-ATCA
1 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTAAT-G
* * * * *
14116950 AGTTGATGTCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCG
1 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TAAT-G
* ** * * * *
14116998 AGGCCGACGCCATGTCCCAGACATGTTCTTACACTAGCTCTCACATATCCG
1 -TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TA-AT--G
* * * * * * * *
14117049 TGCTGATGTCATATCCCAGACATGGTCTAATACTGACACCTCTATACG
1 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCTA-ATG
* * * *
14117097 T-TCCGATGCCATGTCCCAGACATGGTCTTACACTGACACATCTTAT-
1 TGT-TGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTAATG
* * *
14117143 AGTTGATG-CATGTCCCAGACAT-GTTTTACACTAGCTCTCGTCTCAA--
1 TGTTGATGCCATGTCCCAGACATGGTCTTACACT-G-GCTC-TCT-AATG
***
14117189 TACCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATG
1 TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-TAATG
14117236 TGGTTGATG-CATGTCCCAGACAT-GTCTTACACT
1 T-GTTGATGCCATGTCCCAGACATGGTCTTACACT
14117269 AGCACACAAA
Statistics
Matches: 243, Mismatches: 58, Indels: 37
0.72 0.17 0.11
Matches are distributed among these distances:
44 9 0.04
45 19 0.08
46 29 0.12
47 66 0.27
48 50 0.21
49 33 0.14
50 32 0.13
51 5 0.02
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
TGTTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTAATG
Found at i:14118395 original size:11 final size:11
Alignment explanation
Indices: 14118381--14118423 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
14118371 AGATAAATAT
14118381 TATTTTATTAA
1 TATTTTATTAA
14118392 TATTTTA-TAA
1 TATTTTATTAA
*
14118402 TATGTTTATTAT
1 TAT-TTTATTAA
*
14118414 TATATTATTA
1 TATTTTATTA
14118424 TTTATTTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 6 0.21
11 17 0.61
12 5 0.18
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:14120619 original size:46 final size:46
Alignment explanation
Indices: 14120567--14121023 Score: 763
Period size: 46 Copynumber: 9.9 Consensus size: 46
14120557 GTGTGCTCTT
14120567 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14120613 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14120659 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCACCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14120705 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
14120751 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14120797 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
14120843 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*
14120889 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACG
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
*** * *
14120935 TGATATGAAATGAACAAGACCATAGTTGAAAGATACCATGGCAACA
1 TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
* * * * *
14120981 TGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 TGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
14121024 TCATGTCAAA
Statistics
Matches: 393, Mismatches: 17, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
45 1 0.00
46 392 1.00
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (46 bp):
TGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACC
Found at i:14125273 original size:41 final size:41
Alignment explanation
Indices: 14125228--14125308 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
14125218 AAACATTCTT
14125228 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGAA
1 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGAA
14125269 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGA
1 GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGA
14125309 CTATTTGAGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.17, T:0.44
Consensus pattern (41 bp):
GTAAATTTTGTTTTTTGTTTGACTTATAAAGCAAATAGGAA
Found at i:14132612 original size:30 final size:30
Alignment explanation
Indices: 14132577--14132638 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 30
14132567 TTTCGAGTTA
*
14132577 TTCGAG-TCAACTCGAATTTATTTTTCAAAT
1 TTCGAGTTCAA-TCGAATTTAGTTTTCAAAT
*
14132607 TTCGAGTTTGAATCGAATTTAGTTTTCAAAT
1 TTCGAG-TTCAATCGAATTTAGTTTTCAAAT
14132638 T
1 T
14132639 CGAATAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 6 0.21
31 19 0.68
32 3 0.11
ACGTcount: A:0.29, C:0.13, G:0.13, T:0.45
Consensus pattern (30 bp):
TTCGAGTTCAATCGAATTTAGTTTTCAAAT
Found at i:14143375 original size:60 final size:59
Alignment explanation
Indices: 14143295--14143426 Score: 185
Period size: 60 Copynumber: 2.2 Consensus size: 59
14143285 TTAATAGGGG
* * **
14143295 AATCCATAGCATGAGTTAATGTGATAATAG-GAGTTTTATTTAGTGATAAATTTCAAATGA
1 AATCCATAGCATGAGTTAATGTGACAATAGTG-GTTTTAATTAGAAATAAATTTCAAAT-A
*
14143355 AATCCATAGCATTAGTTAATGTGACAATAGTGGTTTTAATTAGAAATAAATTTCAAATA
1 AATCCATAGCATGAGTTAATGTGACAATAGTGGTTTTAATTAGAAATAAATTTCAAATA
*
14143414 AATCTATAGCATG
1 AATCCATAGCATG
14143427 CAATCCACAG
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
59 12 0.19
60 51 0.80
61 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (59 bp):
AATCCATAGCATGAGTTAATGTGACAATAGTGGTTTTAATTAGAAATAAATTTCAAATA
Found at i:14157349 original size:14 final size:14
Alignment explanation
Indices: 14157330--14157357 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
14157320 TTAATGCGAC
14157330 AATAGGGGTTTTAA
1 AATAGGGGTTTTAA
14157344 AATAGGGGTTTTAA
1 AATAGGGGTTTTAA
14157358 TTAGAAAGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
AATAGGGGTTTTAA
Found at i:14160081 original size:18 final size:18
Alignment explanation
Indices: 14160055--14160128 Score: 67
Period size: 18 Copynumber: 4.1 Consensus size: 18
14160045 AATTGATCGG
* *
14160055 TTATCCAGTAATAGTCAA
1 TTATTCAGTAAAAGTCAA
*
14160073 TTATTCAGTAAAAATCAA
1 TTATTCAGTAAAAGTCAA
* * * *
14160091 ATATACAGTAACAATTAAA
1 TTATTCAGTAA-AAGTCAA
*
14160110 TTATTCAGTAACAGTCAA
1 TTATTCAGTAAAAGTCAA
14160128 T
1 T
14160129 ATTTCCAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
18 29 0.67
19 14 0.33
ACGTcount: A:0.46, C:0.14, G:0.08, T:0.32
Consensus pattern (18 bp):
TTATTCAGTAAAAGTCAA
Found at i:14160120 original size:19 final size:19
Alignment explanation
Indices: 14160071--14160127 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 19
14160061 AGTAATAGTC
*
14160071 AATTATTCAGTAAAAATCA
1 AATTATTCAGTAACAATCA
* *
14160090 AA-TATACAGTAACAATTA
1 AATTATTCAGTAACAATCA
*
14160108 AATTATTCAGTAACAGTCA
1 AATTATTCAGTAACAATCA
14160127 A
1 A
14160128 TATTTCCAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (19 bp):
AATTATTCAGTAACAATCA
Found at i:14160367 original size:12 final size:12
Alignment explanation
Indices: 14160350--14160374 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14160340 AGTGCCGAAT
14160350 CGGTAACAGTAA
1 CGGTAACAGTAA
14160362 CGGTAACAGTAA
1 CGGTAACAGTAA
14160374 C
1 C
14160375 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:14160548 original size:20 final size:21
Alignment explanation
Indices: 14160500--14160548 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
14160490 CACTTTCCAA
*
14160500 TTTTCAATTAATTCATATTTT
1 TTTTCAATTAACTCATATTTT
**
14160521 AATT-AATTAACT-ATATTTT
1 TTTTCAATTAACTCATATTTT
14160540 TTTTCAATT
1 TTTTCAATT
14160549 CAATATAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
19 9 0.41
20 11 0.50
21 2 0.09
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTCAATTAACTCATATTTT
Found at i:14164695 original size:16 final size:17
Alignment explanation
Indices: 14164668--14164699 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14164658 AACAAATAAT
14164668 TTAAAAAGTATAAAATA
1 TTAAAAAGTATAAAATA
14164685 TTAAAAA-TATAAAAT
1 TTAAAAAGTATAAAAT
14164700 TCAAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (17 bp):
TTAAAAAGTATAAAATA
Found at i:14164706 original size:16 final size:15
Alignment explanation
Indices: 14164668--14164715 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 15
14164658 AACAAATAAT
*
14164668 TTAAAAAGTATAAAA
1 TTAAAAAATATAAAA
*
14164683 TATTAAAAATATAAAA
1 T-TAAAAAATATAAAA
14164699 TTCAAAAAAATATAAAA
1 TT--AAAAAATATAAAA
14164716 ATTGATAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
15 2 0.07
16 13 0.48
17 12 0.44
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (15 bp):
TTAAAAAATATAAAA
Found at i:14164726 original size:17 final size:15
Alignment explanation
Indices: 14164668--14164718 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 15
14164658 AACAAATAAT
14164668 TTAAAAAGTATAAAATA
1 TTAAAAA-TATAAAA-A
14164685 TTAAAAATAT-AAAA
1 TTAAAAATATAAAAA
14164699 TTCAAAAAAATATAAAAA
1 TT---AAAAATATAAAAA
14164717 TT
1 TT
14164719 GATAAAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 3 0.10
15 3 0.10
16 3 0.10
17 15 0.50
18 6 0.20
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (15 bp):
TTAAAAATATAAAAA
Found at i:14165208 original size:3 final size:3
Alignment explanation
Indices: 14165200--14165245 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
14165190 GAACTCTTCT
* * * *
14165200 ATA ATA ATA ATA ATA ATA ATA ACA ACA ACA ATA ATA AAA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14165246 CGTGCAGTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.24
Consensus pattern (3 bp):
ATA
Found at i:14166800 original size:9 final size:9
Alignment explanation
Indices: 14166778--14166876 Score: 63
Period size: 9 Copynumber: 10.7 Consensus size: 9
14166768 GTAGGGGCAA
*
14166778 TGGAGGGGG
1 TGGAGGTGG
*
14166787 AGGAGGTGG
1 TGGAGGTGG
*
14166796 CGGAGGTGG
1 TGGAGGTGG
**
14166805 TGGAAATGG
1 TGGAGGTGG
* *
14166814 TGGTGGAGG
1 TGGAGGTGG
*
14166823 TGGGGGTGG
1 TGGAGGTGG
*
14166832 GGGAGGTGG
1 TGGAGGTGG
14166841 TGGAGGCAGTGG
1 TGGA-G--GTGG
* *
14166853 GGGAGGAGG
1 TGGAGGTGG
14166862 TGGAGGTGG
1 TGGAGGTGG
*
14166871 CGGAGG
1 TGGAGG
14166877 AAACGGCAAT
Statistics
Matches: 67, Mismatches: 20, Indels: 6
0.72 0.22 0.06
Matches are distributed among these distances:
9 58 0.87
10 1 0.01
11 1 0.01
12 7 0.10
ACGTcount: A:0.15, C:0.03, G:0.68, T:0.14
Consensus pattern (9 bp):
TGGAGGTGG
Found at i:14166839 original size:21 final size:21
Alignment explanation
Indices: 14166828--14166867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
14166818 GGAGGTGGGG
*
14166828 GTGGGGGAGGTGGTGGAGGCA
1 GTGGGGGAGGTGGAGGAGGCA
* *
14166849 GTGGGGGAGGAGGTGGAGG
1 GTGGGGGAGGTGGAGGAGG
14166868 TGGCGGAGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.03, G:0.70, T:0.12
Consensus pattern (21 bp):
GTGGGGGAGGTGGAGGAGGCA
Found at i:14166959 original size:30 final size:30
Alignment explanation
Indices: 14166923--14167029 Score: 90
Period size: 30 Copynumber: 3.3 Consensus size: 30
14166913 AAATGGAGGG
14166923 GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
1 GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
* *
14166953 GGAGGAGGAGGTGGAGGAGGCAATGGTGGTAGGGGA-GGT
1 GGAGGAGG-CG-GG-GGA-G----GG-GGT-GGGAATGGT
*
14166992 GGAGGAGGCGGGGGAGGGAGTGGGAATGGT
1 GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
14167022 GGAGGAGG
1 GGAGGAGG
14167030 TGGAGGCAGC
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
29 4 0.07
30 21 0.34
31 3 0.05
32 2 0.03
33 3 0.05
34 1 0.02
35 1 0.02
36 3 0.05
37 2 0.03
38 3 0.05
39 14 0.23
40 4 0.07
ACGTcount: A:0.21, C:0.03, G:0.66, T:0.10
Consensus pattern (30 bp):
GGAGGAGGCGGGGGAGGGGGTGGGAATGGT
Found at i:14166977 original size:27 final size:27
Alignment explanation
Indices: 14166947--14167000 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
14166937 AGGGGGTGGG
14166947 AATGGTGG-AGGAGGAGGTGGAGGAGGC
1 AATGGTGGTAGG-GGAGGTGGAGGAGGC
14166974 AATGGTGGTAGGGGAGGTGGAGGAGGC
1 AATGGTGGTAGGGGAGGTGGAGGAGGC
14167001 GGGGGAGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 23 0.88
28 3 0.12
ACGTcount: A:0.24, C:0.04, G:0.59, T:0.13
Consensus pattern (27 bp):
AATGGTGGTAGGGGAGGTGGAGGAGGC
Found at i:14168298 original size:24 final size:24
Alignment explanation
Indices: 14168231--14168298 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 24
14168221 TGGAGGATCA
14168231 ATAATACTTCCATTGAAAATATCC
1 ATAATACTTCCATTGAAAATATCC
*
14168255 ---ATA-TT--ATTGAGAAACA-CC
1 ATAATACTTCCATTGA-AAATATCC
14168273 ATAATACTTCCATTGAAAATATCC
1 ATAATACTTCCATTGAAAATATCC
14168297 AT
1 AT
14168299 GTTATTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
18 7 0.21
19 4 0.12
20 2 0.06
21 6 0.18
22 2 0.06
23 4 0.12
24 9 0.26
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (24 bp):
ATAATACTTCCATTGAAAATATCC
Found at i:14173232 original size:18 final size:19
Alignment explanation
Indices: 14173201--14173236 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14173191 ATATTTATTT
*
14173201 TAAACATAATATTAAATAA
1 TAAAAATAATATTAAATAA
14173220 TAAAAATAA-ATTAAATA
1 TAAAAATAATATTAAATA
14173237 GTATTTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAAATAATATTAAATAA
Found at i:14193710 original size:16 final size:16
Alignment explanation
Indices: 14193689--14193736 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
14193679 TTCATTTCGG
14193689 GAAGAAAAAAGGAGAA
1 GAAGAAAAAAGGAGAA
14193705 GAAGAAAAGAA-GAGAA
1 GAAGAAAA-AAGGAGAA
*
14193721 GAAG-AATAAGGAGAA
1 GAAGAAAAAAGGAGAA
14193736 G
1 G
14193737 GAGGCGGCAC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 2 0.07
15 8 0.28
16 17 0.59
17 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (16 bp):
GAAGAAAAAAGGAGAA
Found at i:14194267 original size:16 final size:16
Alignment explanation
Indices: 14194246--14194301 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
14194236 AAAAATAGCA
14194246 TAAAAAAATAAAATAC
1 TAAAAAAATAAAATAC
*** *
14194262 TAAAAAAATATCTTAA
1 TAAAAAAATAAAATAC
*
14194278 TGAAAAAATAAAATAC
1 TAAAAAAATAAAATAC
*
14194294 GAAAAAAA
1 TAAAAAAA
14194302 ATAATTTTTT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (16 bp):
TAAAAAAATAAAATAC
Found at i:14194590 original size:151 final size:150
Alignment explanation
Indices: 14194338--14195023 Score: 990
Period size: 151 Copynumber: 4.6 Consensus size: 150
14194328 GCGGGTTTTT
14194338 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTTAAAAAATAAAAT-------T
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA-TTTTAAAAAATAAAATCCGAAAAT
* * * *
14194395 TAAAAAAT-ACAAACTAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAA
65 AAAAAAATAACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTT-AA
14194459 ATAATACATTT-AAACATTATG
129 ATAATACATTTGAAACATTATG
* *
14194480 TACTAAAATAATATAAAAAAATAAAATACGAAAATAGTAAATTTTAAAAAATAAAATCTGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
* * * * *
14194545 AAAAAAATAACCAACAAAGTGTCAAAATAAAGGTTATTTATTAAATTAATATAAAAACACTTAAA
65 AAAAAAATAACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAA
14194610 TAATACATTTGAAACATTATG
130 TAATACATTTGAAACATTATG
*
14194631 TACTAAAATAATATAAAAAAATGAAATACGAAAATAGTATATTTT--AAAATAAAATCCGAAAAT
1 TACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT
*
14194694 AAAAAAA-ATACCAACAAATGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTTA
65 AAAAAAATA-ACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAA-ACTTA
*
14194758 AATAATACATTTAAAACATTATG
128 AATAATACATTTGAAACATTATG
* *
14194781 TACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
* * *
14194846 AAAAAA-ATACCAACAAAGGGTCAAAATTAGGGTTATTTATTAAATTAATAGAAAAAAAACTTAA
66 AAAAAATA-ACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATA-TAAAAAAACTTAA
*
14194910 ATAATACATTTGAAATATTATG
129 ATAATACATTTGAAACATTATG
**
14194932 TACTAAAATAATAT-AAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATAAGAAAATA
1 TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
14194996 AAAAAAT-ACCAACAAAGGGCCAAAATCA
66 AAAAAATAACCAACAAAGGGCCAAAATCA
14195024 CCGAAAAAAA
Statistics
Matches: 492, Mismatches: 35, Indels: 27
0.89 0.06 0.05
Matches are distributed among these distances:
142 14 0.03
143 16 0.03
144 24 0.05
148 1 0.00
149 114 0.23
150 114 0.23
151 203 0.41
152 6 0.01
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (150 bp):
TACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATA
AAAAAATAACCAACAAAGGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAAACTTAAAT
AATACATTTGAAACATTATG
Found at i:14194763 original size:300 final size:296
Alignment explanation
Indices: 14194338--14195023 Score: 1053
Period size: 300 Copynumber: 2.3 Consensus size: 296
14194328 GCGGGTTTTT
* *
14194338 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTT-TAA-AAAAT-AAAATTTAAAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAATAAAATGAAAA-TAAAAA
* *
14194400 AATACAAACTAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAAATAATA
65 AATACCAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAAATAATA
14194465 CATTT-AAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAGTAAATTTTAAAA
130 CATTTAAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTAAATTTTAAAA
** *
14194529 AATAAAATCTGAAAAT-AAAAAAATAACCAACAAAGTGTCAAAATAAAGGTTATTTATTAAATTA
194 AATAAAATCCAAAAATAAAAAAAAT-ACCAACAAAGGGTCAAAATAAAGGTTATTTATTAAATTA
* *
14194593 ATA-TAAAAACACTTAAATAATACATTTGAAACATTATG
258 ATAGAAAAAAAACTTAAATAATACATTTGAAACATTATG
*
14194631 TACTAAAATAATATAAAAAAATGAAATACGAAAATAGTATATTTTAAAATAAAATCCGAAAATAA
1 TACTAAAATAATAT--AAAAATAAAATACGAAAATAGTATATTTTAAAATAAAAT--GAAAAT-A
* *
14194696 AAAAAATACCAACAAATGGCCAAAATCAGGGTTATTTATTAAATTAATATAAAAAATACTT-AAA
61 AAAAAATACCAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAA-ACTTAAAA
* *
14194760 TAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTATATTTT
125 TAATACATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAAATTTT
* *
14194825 AAAAAATAAAATCCAAAAATAAAAAAAATACCAACAAAGGGTCAAAATTAGGGTTATTTATTAAA
190 AAAAAATAAAATCCAAAAATAAAAAAAATACCAACAAAGGGTCAAAATAAAGGTTATTTATTAAA
*
14194890 TTAATAGAAAAAAAACTTAAATAATACATTTGAAATATTATG
255 TTAATAGAAAAAAAACTTAAATAATACATTTGAAACATTATG
14194932 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATAAGAAAATAA
1 TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTT--AAAATAAAAT--GAAAATAA
14194997 AAAAATACCAACAAAGGGCCAAAATCA
62 AAAAATACCAACAAAGGGCCAAAATCA
14195024 CCGAAAAAAA
Statistics
Matches: 358, Mismatches: 21, Indels: 21
0.89 0.05 0.05
Matches are distributed among these distances:
293 14 0.04
295 28 0.08
296 2 0.01
297 5 0.01
299 29 0.08
300 182 0.51
301 98 0.27
ACGTcount: A:0.58, C:0.08, G:0.07, T:0.27
Consensus pattern (296 bp):
TACTAAAATAATATAAAAATAAAATACGAAAATAGTATATTTTAAAATAAAATGAAAATAAAAAA
ATACCAACAAAGGGCCAAAATCAGGGTTATTTACTAAATTAATATAAAAAAACTTAAAATAATAC
ATTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTAAATTTTAAAAAA
TAAAATCCAAAAATAAAAAAAATACCAACAAAGGGTCAAAATAAAGGTTATTTATTAAATTAATA
GAAAAAAAACTTAAATAATACATTTGAAACATTATG
Found at i:14199473 original size:28 final size:28
Alignment explanation
Indices: 14199442--14199495 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
14199432 AAAACTAAAG
14199442 AAAAAAATAAAAATATT-TTAAATTTATT
1 AAAAAAATAAAAA-ATTGTTAAATTTATT
* *
14199470 AAAAATATAAAAAATTGTTAGATTTA
1 AAAAAAATAAAAAATTGTTAAATTTA
14199496 AAGTTGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (28 bp):
AAAAAAATAAAAAATTGTTAAATTTATT
Found at i:14199966 original size:18 final size:19
Alignment explanation
Indices: 14199945--14199982 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14199935 AAAAGCTAAT
14199945 AAAAGA-AGAAAAAGGCCC
1 AAAAGAGAGAAAAAGGCCC
* *
14199963 AAAAGAGAGTAAATGGCCC
1 AAAAGAGAGAAAAAGGCCC
14199982 A
1 A
14199983 CAAAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.55, C:0.16, G:0.24, T:0.05
Consensus pattern (19 bp):
AAAAGAGAGAAAAAGGCCC
Found at i:14205684 original size:21 final size:21
Alignment explanation
Indices: 14205658--14205699 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14205648 TATGACCTCT
14205658 ATTGTTTCATTATTAAAAAAA
1 ATTGTTTCATTATTAAAAAAA
14205679 ATTGTTTCATTATTAAAAAAA
1 ATTGTTTCATTATTAAAAAAA
14205700 GAGAGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
ATTGTTTCATTATTAAAAAAA
Found at i:14207291 original size:7 final size:7
Alignment explanation
Indices: 14207279--14207305 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
14207269 AATCTGAGTA
14207279 TAACATT
1 TAACATT
14207286 TAACATT
1 TAACATT
14207293 TAACATT
1 TAACATT
14207300 TAACAT
1 TAACAT
14207306 GTTTTGTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (7 bp):
TAACATT
Found at i:14208134 original size:31 final size:32
Alignment explanation
Indices: 14208027--14208153 Score: 220
Period size: 32 Copynumber: 4.0 Consensus size: 32
14208017 TATAACTATA
14208027 CTACTTTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
*
14208059 CTACTTTTTTATATGCAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
* *
14208091 CAACTTTTTTATATGTAAACCTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
14208123 CTAC-TTTTTATATGTAAAACTAATGTATGAT
1 CTACTTTTTTATATGTAAAACTAATGTATGAT
14208154 ATTTTTTATG
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
31 26 0.29
32 63 0.71
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (32 bp):
CTACTTTTTTATATGTAAAACTAATGTATGAT
Found at i:14210206 original size:21 final size:21
Alignment explanation
Indices: 14210154--14210212 Score: 75
Period size: 21 Copynumber: 2.8 Consensus size: 21
14210144 CACCATTGTT
14210154 TCTAATCTCACCGCTACAGTA
1 TCTAATCTCACCGCTACAGTA
*
14210175 TCCAATCTCACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGT-A
* *
14210197 T-TAATTTCACCACTAC
1 TCTAATCTCACCGCTAC
14210213 CGCTGTTTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 31 0.94
22 2 0.06
ACGTcount: A:0.31, C:0.34, G:0.07, T:0.29
Consensus pattern (21 bp):
TCTAATCTCACCGCTACAGTA
Found at i:14210848 original size:15 final size:14
Alignment explanation
Indices: 14210813--14210845 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
14210803 CTAACATAAC
14210813 ATAATT-TTTTAAA
1 ATAATTATTTTAAA
14210826 ATAATTATTTTAAA
1 ATAATTATTTTAAA
14210840 ATAATT
1 ATAATT
14210846 TATCTACAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATAATTATTTTAAA
Found at i:14212268 original size:28 final size:29
Alignment explanation
Indices: 14212236--14212294 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
14212226 TATAGAAAAA
*
14212236 TTTTAATAATATT-TTATTTTTATATATT
1 TTTTAATAATATTATTATTTTTATAAATT
* *
14212264 TTTTAATAATTTTATTTTTTTTATAAATT
1 TTTTAATAATATTATTATTTTTATAAATT
14212293 TT
1 TT
14212295 ATCATTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 12 0.44
29 15 0.56
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (29 bp):
TTTTAATAATATTATTATTTTTATAAATT
Found at i:14212285 original size:18 final size:18
Alignment explanation
Indices: 14212262--14212310 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
14212252 TTTTTATATA
14212262 TTTTTTAATAATTTTAT-
1 TTTTTTAATAATTTTATC
*
14212279 TTTTTTTATAAATTTTATC
1 TTTTTTAAT-AATTTTATC
* *
14212298 ATTTTTACTAATT
1 TTTTTTAATAATT
14212311 ATAATCATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
17 8 0.31
18 12 0.46
19 6 0.23
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTTAATAATTTTATC
Found at i:14212302 original size:26 final size:26
Alignment explanation
Indices: 14212233--14212295 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
14212223 TTTTATAGAA
14212233 AAATTTTAATAATATTTTATTTTTATAT
1 AAATTTTAAT-A-ATTTTATTTTTATAT
** *
14212261 ATTTTTTAATAATTTTATTTTTTTTAT
1 AAATTTTAATAATTTTA-TTTTTATAT
14212288 AAATTTTA
1 AAATTTTA
14212296 TCATTTTTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 6 0.21
27 15 0.52
28 8 0.28
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (26 bp):
AAATTTTAATAATTTTATTTTTATAT
Found at i:14212484 original size:27 final size:25
Alignment explanation
Indices: 14212414--14212482 Score: 70
Period size: 24 Copynumber: 2.8 Consensus size: 25
14212404 TTTTTTTCTA
*
14212414 TATT-TTTTAATGAATTATCTATATTT
1 TATTATTTTAAT-AATT-TTTATATTT
* * *
14212440 TAATATTATAATAATTTATATA-TT
1 TATTATTTTAATAATTTTTATATTT
14212464 TATTATTTTAATAATTTTT
1 TATTATTTTAATAATTTTT
14212483 TAAATAACAA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 18 0.50
25 5 0.14
26 7 0.19
27 6 0.17
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (25 bp):
TATTATTTTAATAATTTTTATATTT
Found at i:14214327 original size:25 final size:25
Alignment explanation
Indices: 14214299--14214351 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
14214289 TCCAAATGAC
14214299 AAAATTAATGAGCCAAATTTTAATT
1 AAAATTAATGAGCCAAATTTTAATT
14214324 AAAATTAATGAGCCAAATTTTAATT
1 AAAATTAATGAGCCAAATTTTAATT
14214349 AAA
1 AAA
14214352 CTTTAAAGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.34
Consensus pattern (25 bp):
AAAATTAATGAGCCAAATTTTAATT
Found at i:14215174 original size:10 final size:11
Alignment explanation
Indices: 14215159--14215187 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
14215149 TTTATTGTGA
14215159 AAAATAAAA-T
1 AAAATAAAATT
14215169 AAAATAAAATT
1 AAAATAAAATT
14215180 AAAATAAA
1 AAAATAAA
14215188 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAATAAAATT
Found at i:14219566 original size:11 final size:11
Alignment explanation
Indices: 14219547--14219575 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14219537 CAATTTGTGA
14219547 AAAAT-AAAAT
1 AAAATAAAAAT
14219557 AAAATAAAAAT
1 AAAATAAAAAT
14219568 AAAATAAA
1 AAAATAAA
14219576 GAACACACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:14220769 original size:17 final size:17
Alignment explanation
Indices: 14220747--14220781 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14220737 CAAATTGGCA
*
14220747 TAGTTTTGTCTTTTAAC
1 TAGTTTTGACTTTTAAC
14220764 TAGTTTTGACTTTTAAC
1 TAGTTTTGACTTTTAAC
14220781 T
1 T
14220782 TTAGAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.11, G:0.11, T:0.57
Consensus pattern (17 bp):
TAGTTTTGACTTTTAAC
Found at i:14223399 original size:16 final size:17
Alignment explanation
Indices: 14223375--14223408 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14223365 TATTAGTTCA
*
14223375 AAATTATTTATTT-TTT
1 AAATAATTTATTTATTT
14223391 AAATAATTTATTTATTT
1 AAATAATTTATTTATTT
14223408 A
1 A
14223409 TCTTTTCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AAATAATTTATTTATTT
Found at i:14224611 original size:3 final size:3
Alignment explanation
Indices: 14224605--14224636 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
14224595 TTTTTTGTAA
14224605 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
14224637 ACTAATGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:14224993 original size:33 final size:33
Alignment explanation
Indices: 14224951--14225013 Score: 126
Period size: 33 Copynumber: 1.9 Consensus size: 33
14224941 ATAAAGTAAG
14224951 TTAAATCAAGTAAGATTCGTCGTTTTAATTAAA
1 TTAAATCAAGTAAGATTCGTCGTTTTAATTAAA
14224984 TTAAATCAAGTAAGATTCGTCGTTTTAATT
1 TTAAATCAAGTAAGATTCGTCGTTTTAATT
14225014 TGGTTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.41
Consensus pattern (33 bp):
TTAAATCAAGTAAGATTCGTCGTTTTAATTAAA
Found at i:14231612 original size:11 final size:11
Alignment explanation
Indices: 14231598--14231629 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
14231588 TTGTGGTAGT
14231598 ATATTTTGATG
1 ATATTTTGATG
*
14231609 ATATTTTAATG
1 ATATTTTGATG
14231620 ATATTTTGAT
1 ATATTTTGAT
14231630 TTACTCAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (11 bp):
ATATTTTGATG
Found at i:14234080 original size:14 final size:14
Alignment explanation
Indices: 14234061--14234087 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14234051 TTATCAACTC
14234061 TTATTATTTTATTA
1 TTATTATTTTATTA
14234075 TTATTATTTTATT
1 TTATTATTTTATT
14234088 CCAAATTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTATTTTATTA
Found at i:14235095 original size:24 final size:23
Alignment explanation
Indices: 14235068--14235119 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
14235058 AAAACTTAGT
* *
14235068 TTTATTTCCAGAATACTAAAGTTA
1 TTTATTTACAAAATACTAAAG-TA
*
14235092 TTTAATTTACAAAATACTCAAGTA
1 TTT-ATTTACAAAATACTAAAGTA
14235116 TTTA
1 TTTA
14235120 GAAGATTACG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 8 0.33
25 15 0.62
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (23 bp):
TTTATTTACAAAATACTAAAGTA
Found at i:14238446 original size:19 final size:20
Alignment explanation
Indices: 14238402--14238446 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
14238392 TTATGATTTG
*
14238402 AATATTTTATTATAATATTA
1 AATATTTTATAATAATATTA
14238422 AA-ATTTTA-AATAA-ATTA
1 AATATTTTATAATAATATTA
14238439 ATATATTT
1 A-ATATTT
14238447 GAATTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 5 0.23
18 5 0.23
19 10 0.45
20 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
AATATTTTATAATAATATTA
Found at i:14239532 original size:31 final size:31
Alignment explanation
Indices: 14239496--14239555 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
14239486 TTTAGAGAGT
14239496 CACACGCCCGTGTGGGTAAGCCGTGTGGCCA
1 CACACGCCCGTGTGGGTAAGCCGTGTGGCCA
** *
14239527 CACACGCCCGTGTGTTTAGGCCGTGTGGC
1 CACACGCCCGTGTGGGTAAGCCGTGTGGC
14239556 GAATTAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.13, C:0.32, G:0.35, T:0.20
Consensus pattern (31 bp):
CACACGCCCGTGTGGGTAAGCCGTGTGGCCA
Found at i:14245173 original size:3 final size:3
Alignment explanation
Indices: 14245167--14245191 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14245157 TTTGAATCAC
14245167 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
14245192 TTTTATTACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:14246393 original size:12 final size:12
Alignment explanation
Indices: 14246376--14246400 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14246366 TCACTCAAAA
14246376 ACCTAAGCTCTT
1 ACCTAAGCTCTT
14246388 ACCTAAGCTCTT
1 ACCTAAGCTCTT
14246400 A
1 A
14246401 ATTAGTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.32, G:0.08, T:0.32
Consensus pattern (12 bp):
ACCTAAGCTCTT
Found at i:14249875 original size:14 final size:14
Alignment explanation
Indices: 14249858--14249896 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14249848 ATCATTATAG
14249858 TTTAGGGTTTATGA
1 TTTAGGGTTTATGA
* *
14249872 TTTAGGGTATATGG
1 TTTAGGGTTTATGA
*
14249886 TTCAGGGTTTA
1 TTTAGGGTTTA
14249897 AAGTGTAGGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.21, C:0.03, G:0.31, T:0.46
Consensus pattern (14 bp):
TTTAGGGTTTATGA
Found at i:14251017 original size:158 final size:157
Alignment explanation
Indices: 14250812--14251144 Score: 415
Period size: 158 Copynumber: 2.1 Consensus size: 157
14250802 ACGTTTTTTA
* * *
14250812 AAAAAACGCCGCAAAAAACAGTATAATTTAAAGAAAACGGCGTCGTTTTAGT-TGGATAGGGGAT
1 AAAAAACGACGCAAAAAACAGTATAATTTAAAGAAAACGGCGCCGTTTTAGTCT-AATAGGGGAT
* *
14250876 TAATGGTG-TTTTGAAAAACGCCGCAACAGAATTAAAGTGTACTGGA-AGCGTCGTTGTTTTAGT
65 TAATGGTGCTTTT-AAAAACGCCGCAAAAGAATTAAAGTGTACTGGACA-CGTCGTCGTTTTAGT
14250939 TGAATATATAGGGGATTAGCGGCATTTTTCT
128 TGAATATATA-GGGATTAGCGGCATTTTTCT
** * * *
14250970 AAAAAACGACGCAAAAGTC-GTATTAGTTTAAAGAAAACGGCGCCGTTTTAGTCTAATAGTGTAT
1 AAAAAACGACGCAAAAAACAGTA-TAATTTAAAGAAAACGGCGCCGTTTTAGTCTAATAGGGGAT
* * * *
14251034 TAGTGGTGCTTTTAAAAACGCCGTAAAAGAATTAAAGTTTACTGTACACGTCGTCGTTTTAGTTG
65 TAATGGTGCTTTTAAAAACGCCGCAAAAGAATTAAAGTGTACTGGACACGTCGTCGTTTTAGTTG
** *
14251099 AATATATAGGGATTAGCGGTGTTTTTTT
130 AATATATAGGGATTAGCGGCATTTTTCT
*
14251127 AATAAAC-ACCGCAAAAAA
1 AAAAAACGA-CGCAAAAAA
14251145 AATTAATGCT
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
156 1 0.01
157 33 0.22
158 110 0.73
159 6 0.04
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (157 bp):
AAAAAACGACGCAAAAAACAGTATAATTTAAAGAAAACGGCGCCGTTTTAGTCTAATAGGGGATT
AATGGTGCTTTTAAAAACGCCGCAAAAGAATTAAAGTGTACTGGACACGTCGTCGTTTTAGTTGA
ATATATAGGGATTAGCGGCATTTTTCT
Found at i:14252869 original size:8 final size:8
Alignment explanation
Indices: 14252855--14252910 Score: 67
Period size: 8 Copynumber: 7.0 Consensus size: 8
14252845 GTGATTATGA
14252855 TAATAGTG
1 TAATAGTG
*
14252863 GAATAGTG
1 TAATAGTG
*
14252871 GAATAGTG
1 TAATAGTG
* *
14252879 TAATTGCG
1 TAATAGTG
14252887 TAATAGTG
1 TAATAGTG
*
14252895 TAATAGAG
1 TAATAGTG
14252903 TAATAGTG
1 TAATAGTG
14252911 GAATTTTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
8 40 1.00
ACGTcount: A:0.38, C:0.02, G:0.29, T:0.32
Consensus pattern (8 bp):
TAATAGTG
Found at i:14252891 original size:32 final size:32
Alignment explanation
Indices: 14252855--14252915 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
14252845 GTGATTATGA
* *
14252855 TAATAGTGGAATAGTGGAATAGTGTAATTGCG
1 TAATAGTGGAATAGAGGAATAGTGGAATTGCG
* *
14252887 TAATAGTGTAATAGAGTAATAGTGGAATT
1 TAATAGTGGAATAGAGGAATAGTGGAATT
14252916 TTTTGATTGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.38, C:0.02, G:0.28, T:0.33
Consensus pattern (32 bp):
TAATAGTGGAATAGAGGAATAGTGGAATTGCG
Found at i:14253771 original size:5 final size:5
Alignment explanation
Indices: 14253754--14253783 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
14253744 GTATTTAAAG
*
14253754 TTTTA TTTCA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
14253784 ATCACGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:14253880 original size:86 final size:86
Alignment explanation
Indices: 14253769--14254051 Score: 442
Period size: 86 Copynumber: 3.2 Consensus size: 86
14253759 TTTCATTTTA
* *
14253769 TTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14253834 TAAATTAAATTGTATTTAAAG
66 TAAATTAAATTGTATTTAAAG
14253855 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14253920 TAAATTAAATTGTATTTAAAG
66 TAAATTAAATTGTATTTAAAG
14253941 TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAA
1 TTTTATTTTATTTTA----ATC---A-CA--AAAAAACTTTTGTCTACTTTTATTTTATTTTTAA
14254006 ATTACCTAATTAAATTAAATT-TCATTTAAAG
56 ATTACCTAATTAAATTAAATTGT-ATTTAAAG
14254037 TTTTATTTTATTTTA
1 TTTTATTTTATTTTA
14254052 TTTTATTTTA
Statistics
Matches: 184, Mismatches: 2, Indels: 12
0.93 0.01 0.06
Matches are distributed among these distances:
86 99 0.54
90 3 0.02
93 1 0.01
94 2 0.01
95 1 0.01
96 78 0.42
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.54
Consensus pattern (86 bp):
TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
TAAATTAAATTGTATTTAAAG
Found at i:14253969 original size:182 final size:185
Alignment explanation
Indices: 14253696--14254051 Score: 639
Period size: 182 Copynumber: 1.9 Consensus size: 185
14253686 GTTTAAAATA
14253696 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATT
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG--TTATT
*
14253761 TCATTTTATTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAAT
64 TCATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAAT
14253826 TACCTAATTAAATTAAATTGT-ATTTAAAGTTTTATTTTATTTTAATCACAAAAAAAC
129 TACCTAATTAAATTAAATT-TCATTTAAAGTTTTATTTTATTTTAATCACAAAAAAAC
14253883 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAG-T-TTT-
1 TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTATTTC
*
14253945 ATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTA
66 ATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTA
14254010 CCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTA
131 CCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTA
14254052 TTTTATTTTA
Statistics
Matches: 166, Mismatches: 2, Indels: 7
0.95 0.01 0.04
Matches are distributed among these distances:
181 1 0.01
182 103 0.62
183 3 0.02
184 1 0.01
187 58 0.35
ACGTcount: A:0.33, C:0.08, G:0.04, T:0.55
Consensus pattern (185 bp):
TTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTATTTC
ATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACCTTTATTTTATTTTTAAATTA
CCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTAATCACAAAAAAAC
Found at i:14253978 original size:96 final size:96
Alignment explanation
Indices: 14253855--14254057 Score: 372
Period size: 96 Copynumber: 2.1 Consensus size: 96
14253845 GTATTTAAAG
*
14253855 TTTTATTTTATTTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATCTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14253920 TAAATTAAATTGT-ATTTAAAGTTTTATTTTA
66 TAAATTAAATT-TCATTTAAAGTTTTATTTTA
*
14253951 TTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
1 TTTTATTTTATCTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
14254016 TAAATTAAATTTCATTTAAAGTTTTATTTTA
66 TAAATTAAATTTCATTTAAAGTTTTATTTTA
14254047 TTTTATTTTAT
1 TTTTATTTTAT
14254058 TTTATTTTAA
Statistics
Matches: 104, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
95 1 0.01
96 103 0.99
ACGTcount: A:0.33, C:0.08, G:0.03, T:0.56
Consensus pattern (96 bp):
TTTTATTTTATCTTAATCACAAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAAT
TAAATTAAATTTCATTTAAAGTTTTATTTTA
Found at i:14254045 original size:5 final size:5
Alignment explanation
Indices: 14254037--14254066 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
14254027 TCATTTAAAG
14254037 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
14254067 AATTACCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:14254082 original size:62 final size:63
Alignment explanation
Indices: 14253989--14254118 Score: 237
Period size: 62 Copynumber: 2.1 Consensus size: 63
14253979 TTTTGTCTAC
14253989 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATT-TCATTTAAAGTTTTATTTTATTTTA
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGT-ATTTAAAGTTTTATTTTATTTTA
14254052 TTTTATTTTA-TTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA
1 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA
14254114 TTTTA
1 TTTTA
14254119 ATCACGAAAA
Statistics
Matches: 66, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
62 55 0.83
63 11 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (63 bp):
TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA
Found at i:14254105 original size:42 final size:42
Alignment explanation
Indices: 14254050--14254200 Score: 114
Period size: 42 Copynumber: 3.5 Consensus size: 42
14254040 TATTTTATTT
14254050 TATTT-TA-TTTTATTTTAAATTACCTAATTAAATTAAATTG
1 TATTTATAGTTTTATTTTAAATTACCTAATTAAATTAAATTG
* ** ** * *
14254090 TATTTAAAGTTTTATTTTATTTTATTTTAATCACGAA-AAAACTTTTG
1 TATTTATAGTTTTATTTTAAATTA-CCTAATTA--AATTAAA---TTG
14254137 TCTACTTT-TA-TTTTATTTATAAATTACCTAATTAAATTAAATTG
1 --TA-TTTATAGTTTTATTT-TAAATTACCTAATTAAATTAAATTG
14254181 TATTTATAGTTTTATTTTAA
1 TATTTATAGTTTTATTTTAA
14254201 GTATTTTATT
Statistics
Matches: 82, Mismatches: 14, Indels: 28
0.66 0.11 0.23
Matches are distributed among these distances:
40 5 0.06
41 4 0.05
42 20 0.24
43 13 0.16
44 6 0.07
45 2 0.02
46 2 0.02
47 6 0.07
48 13 0.16
49 8 0.10
50 3 0.04
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.55
Consensus pattern (42 bp):
TATTTATAGTTTTATTTTAAATTACCTAATTAAATTAAATTG
Found at i:14254106 original size:47 final size:47
Alignment explanation
Indices: 14254045--14254199 Score: 153
Period size: 47 Copynumber: 3.4 Consensus size: 47
14254035 AGTTTTATTT
14254045 TATTT-TA-TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTG
1 TATTTATAGTTTTATTTTATTTTAAATTACCTAATTAAATTAAATTG
* ** * * **
14254090 TATTTAAAGTTTTATTTTATTTTATTTTA-ATCACGAAA--AAACTT-
1 TATTTATAGTTTTATTTTATTTTAAATTACCTAATTAAATTAAA-TTG
* * *
14254134 T-TGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAATTG
1 TATTTATAGTTTTATTTTATTT-TAAATTACCTAATTAAATTAAATTG
14254181 TATTTATAGTTTTATTTTA
1 TATTTATAGTTTTATTTTA
14254200 AGTATTTTAT
Statistics
Matches: 81, Mismatches: 20, Indels: 15
0.70 0.17 0.13
Matches are distributed among these distances:
43 16 0.20
44 9 0.11
45 12 0.15
46 8 0.10
47 22 0.27
48 14 0.17
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.56
Consensus pattern (47 bp):
TATTTATAGTTTTATTTTATTTTAAATTACCTAATTAAATTAAATTG
Found at i:14254136 original size:153 final size:158
Alignment explanation
Indices: 14253893--14254224 Score: 550
Period size: 153 Copynumber: 2.1 Consensus size: 158
14253883 TTTTGTCTAC
14253893 TTTTATTTTATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATT
1 TTTTATTTTA-TTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA--
*
14253958 TTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAAATTACCTAATTAAATTA
63 TTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTA
14254023 AATT-TCATTTAAAGTTTTA-TTT-TATTTTA
128 AATTGT-ATTTAAAGTTTTATTTTATATTTTA
14254052 TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTA-T-
1 TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATTA
14254115 T-TTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAAT
66 TCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAAT
*
14254179 TGTATTTATAGTTTTATTTTAAGTATTTTA
131 TGTATTTAAAGTTTTATTTT-A-TATTTTA
14254209 TTTTATTTTATTTTAA
1 TTTTATTTTATTTTAA
14254225 TCACGAAGAA
Statistics
Matches: 166, Mismatches: 2, Indels: 12
0.92 0.01 0.07
Matches are distributed among these distances:
153 75 0.45
154 5 0.03
155 1 0.01
157 23 0.14
158 52 0.31
159 10 0.06
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (158 bp):
TTTTATTTTATTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTATTTTATTA
TCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAAATTACCTAATTAAATTAAAT
TGTATTTAAAGTTTTATTTTATATTTTA
Found at i:14254256 original size:153 final size:149
Alignment explanation
Indices: 14253941--14254260 Score: 425
Period size: 153 Copynumber: 2.1 Consensus size: 149
14253931 GTATTTAAAG
*
14253941 TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTTTAA
1 TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAA
*
14254006 ATTACCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTATTTTATTTTATTTTAAATT
66 ATTACCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTATTTTATTTTATTTTAAATC
* *
14254071 ACCTAATTAAATTAAATTGTA
131 ACCGAATGAAATT--ATTGTA
* *
14254092 TTTAAAGTTTTATTTTATTTTATTTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTAT
1 TTT-TA-TTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTAT
*
14254157 AAATTACCTAATTAAATTAAATTGT-ATTTATAGTTTTATTTTAAGTATTTTATTTTATTTTATT
64 AAATTACCTAATTAAATTAAATT-TCATTTAAAGTTTTA-TTT---TATTTTATTTTATTTTATT
14254221 TT-AATCA-CGAA-GAATATT-TTGTCTA
124 TTAAATCACCGAATGAA-ATTATTG--TA
14254246 CTTTTATTTTATTTT
1 -TTTTATTTTATTTT
14254261 TAAATTACCT
Statistics
Matches: 150, Mismatches: 8, Indels: 20
0.84 0.04 0.11
Matches are distributed among these distances:
151 3 0.02
152 4 0.03
153 100 0.67
154 9 0.06
155 9 0.06
156 4 0.03
157 21 0.14
ACGTcount: A:0.32, C:0.07, G:0.04, T:0.57
Consensus pattern (149 bp):
TTTTATTTTATTTTATTTTATCTTAATCACGAAAAAACTTTTGTCTACTTTTATTTTATTTATAA
ATTACCTAATTAAATTAAATTTCATTTAAAGTTTTATTTTATTTTATTTTATTTTATTTTAAATC
ACCGAATGAAATTATTGTA
Found at i:14254492 original size:10 final size:9
Alignment explanation
Indices: 14254476--14254582 Score: 76
Period size: 9 Copynumber: 11.7 Consensus size: 9
14254466 AAATATATAT
*
14254476 CATATTTTA
1 CATAATTTA
14254485 CATAATTTA
1 CATAATTTA
*
14254494 CATAACTTA
1 CATAATTTA
*
14254503 TATAA--TA
1 CATAATTTA
14254510 CATAAATATATA
1 CAT-AAT-T-TA
14254522 TCAT-ATCTTA
1 -CATAAT-TTA
14254532 CATAATTTA
1 CATAATTTA
**
14254541 CATAATTCG
1 CATAATTTA
* *
14254550 GATAACTTA
1 CATAATTTA
14254559 CATAATTTA
1 CATAATTTA
*
14254568 CATAACTTA
1 CATAATTTA
14254577 CATAAT
1 CATAAT
14254583 ACATAAATAT
Statistics
Matches: 76, Mismatches: 15, Indels: 14
0.72 0.14 0.13
Matches are distributed among these distances:
7 4 0.05
8 2 0.03
9 58 0.76
10 4 0.05
11 3 0.04
12 2 0.03
13 3 0.04
ACGTcount: A:0.44, C:0.14, G:0.02, T:0.40
Consensus pattern (9 bp):
CATAATTTA
Found at i:14254507 original size:18 final size:18
Alignment explanation
Indices: 14254482--14254582 Score: 89
Period size: 18 Copynumber: 5.5 Consensus size: 18
14254472 ATATCATATT
14254482 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
* *
14254500 TTATATAA--TACATAAA
1 TTACATAATTTACATAAC
* *
14254516 TATATATCATATCTTACATAAT
1 T-TACAT-A-AT-TTACATAAC
***
14254538 TTACATAATTCGGATAAC
1 TTACATAATTTACATAAC
14254556 TTACATAATTTACATAAC
1 TTACATAATTTACATAAC
14254574 TTACATAAT
1 TTACATAAT
14254583 ACATAAATAT
Statistics
Matches: 66, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
16 8 0.12
17 5 0.08
18 37 0.56
19 3 0.05
20 1 0.02
21 4 0.06
22 8 0.12
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.40
Consensus pattern (18 bp):
TTACATAATTTACATAAC
Found at i:14259662 original size:13 final size:14
Alignment explanation
Indices: 14259646--14259674 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14259636 TTATAAATAT
14259646 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
14259659 TTATAATGGTTTAA
1 TTATAATGGTTTAA
14259673 TT
1 TT
14259675 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:14260438 original size:31 final size:31
Alignment explanation
Indices: 14260391--14260456 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
14260381 TGTATTTTTT
*
14260391 ATGCTACATTTGCTGTTTTTGGTTGGATTTC
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
* *
14260422 ATGCTATATTTTCTGTTTTTGGTTGGATTTA
1 ATGCTACATTTGCTGTTTTTGGTTGGATTTA
14260453 ATGC
1 ATGC
14260457 AGGAAGGTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.15, C:0.11, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTACATTTGCTGTTTTTGGTTGGATTTA
Found at i:14260577 original size:43 final size:43
Alignment explanation
Indices: 14260530--14260622 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
14260520 AAAAAAGCGT
* *
14260530 CGCTAAAAACAATGATTTTTAGCGGCGCTTTTAC-AAGAAACGC
1 CGCTAAAAACAATGACTTTTAGCGGCGCTTTT-CTAACAAACGC
* * * *
14260573 CGCTAAAAGCCATGACTTTTAGCGGTGCTTTTCTTACAAACGC
1 CGCTAAAAACAATGACTTTTAGCGGCGCTTTTCTAACAAACGC
14260616 CGCTAAA
1 CGCTAAA
14260623 TTTTGTAGCG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 1 0.02
43 42 0.98
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
CGCTAAAAACAATGACTTTTAGCGGCGCTTTTCTAACAAACGC
Found at i:14262639 original size:26 final size:26
Alignment explanation
Indices: 14262602--14262659 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
14262592 TGATACAAAT
14262602 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
14262628 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
14262654 TGATAA
1 TGATAA
14262660 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:14269571 original size:26 final size:24
Alignment explanation
Indices: 14269530--14269608 Score: 131
Period size: 26 Copynumber: 3.2 Consensus size: 24
14269520 TGATACAAAT
14269530 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTT-CA
14269555 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATG-TTCA
14269581 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
14269605 TGAT
1 TGAT
14269609 GAATTTCATG
Statistics
Matches: 52, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
24 8 0.15
25 20 0.38
26 22 0.42
27 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:14273633 original size:26 final size:25
Alignment explanation
Indices: 14273549--14273643 Score: 103
Period size: 26 Copynumber: 3.9 Consensus size: 25
14273539 TGATACAAAT
14273549 TGATAATGGTTAGGTAAATG-TCCA
1 TGATAATGGTTAGGTAAATGTTCCA
*
14273573 TGATAA-GGATTAGG---AT-ATCCA
1 TGATAATGG-TTAGGTAAATGTTCCA
*
14273594 TGATAATGCGTTAGGTAAATGTTTCA
1 TGATAATG-GTTAGGTAAATGTTCCA
14273620 TGATAATGGTTTAGGTAAATGTTC
1 TGATAATGG-TTAGGTAAATGTTC
14273644 AGATGGAATT
Statistics
Matches: 59, Mismatches: 3, Indels: 16
0.76 0.04 0.21
Matches are distributed among these distances:
21 12 0.20
22 6 0.10
23 3 0.05
24 11 0.19
25 3 0.05
26 24 0.41
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.36
Consensus pattern (25 bp):
TGATAATGGTTAGGTAAATGTTCCA
Found at i:14290726 original size:33 final size:33
Alignment explanation
Indices: 14290671--14290826 Score: 88
Period size: 33 Copynumber: 4.7 Consensus size: 33
14290661 AACTGATGGA
* *
14290671 TAAGACCATGGCT-GGGTCATGGCAATATATGTG
1 TAAGACCATAGCTAGGCT-ATGGCAATATATGTG
* *
14290704 TAAGACCATAGCTAGGCTATGGC-ATCCTGATG-A
1 TAAGACCATAGCTAGGCTATGGCAAT-AT-ATGTG
* * ** *
14290737 TAAGACCATATCTAGGATATGGCACCACGA-GTG
1 TAAGACCATAGCTAGGCTATGGCAATA-TATGTG
* * ** * *
14290770 TAAGACCATGGCTAGGCCATGATAATACACGTG
1 TAAGACCATAGCTAGGCTATGGCAATATATGTG
*
14290803 TAAGACCATAG-TTGGACTATGGCA
1 TAAGACCATAGCTAGG-CTATGGCA
14290827 TCATACTAGA
Statistics
Matches: 90, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
32 7 0.08
33 77 0.86
34 6 0.07
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (33 bp):
TAAGACCATAGCTAGGCTATGGCAATATATGTG
Found at i:14290887 original size:45 final size:45
Alignment explanation
Indices: 14290836--14290951 Score: 178
Period size: 45 Copynumber: 2.6 Consensus size: 45
14290826 ATCATACTAG
14290836 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
* * *
14290881 AGATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGATTC
1 AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
* * *
14290926 AAATGTGTAAGACCATGGTTGAAAGA
1 AAATGAGTAAGACCATAGCTGAAAGA
14290952 TACCATGGCA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 64 1.00
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (45 bp):
AAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGATTC
Found at i:14290986 original size:46 final size:46
Alignment explanation
Indices: 14290835--14291151 Score: 289
Period size: 46 Copynumber: 6.9 Consensus size: 46
14290825 CATCATACTA
* * ** * * *
14290835 GAAATGAGTAAGACCATAGCTGAAAGACGCTATGGCATCACGAT-T
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * * * * * * **
14290880 CAGATGAGTAAGACCATAGCTGAAAGATGCTATGGCATCGCGAT-T
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * **
14290925 CAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATTTTAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* ** *
14290971 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATGTGACAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* ***
14291017 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGACGGG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGA-TAT
* *
14291064 GAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACCTGATA-
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
* * * *
14291109 GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 G-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
14291152 TCAAATATAA
Statistics
Matches: 232, Mismatches: 37, Indels: 5
0.85 0.14 0.02
Matches are distributed among these distances:
45 75 0.32
46 115 0.50
47 42 0.18
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGATAT
Found at i:14291115 original size:93 final size:93
Alignment explanation
Indices: 14290933--14291151 Score: 280
Period size: 93 Copynumber: 2.4 Consensus size: 93
14290923 TTCAAATGTG
*** * **
14290933 TAAGACCATGGTTGAAAGATACCATGGCAACAT-TTTATGAAATGTGTAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGGAAATGAATAAGACCATGGTTGAAAG
**
14290997 ATACCATGGCAATGTGACATGAAATGAA
66 ATACCATGGCAACCTGACATGAAATGAA
*
14291025 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGGGGAAATGAATAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGGAAATGAATAAGACCATGGTTGAAAG
* *
14291090 ATACCATGGCAACCTGATA-GAAAATGAG
66 ATACCATGGCAACCTGACATG-AAATGAA
* * * *
14291118 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
14291152 TCAAATATAA
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
92 34 0.31
93 76 0.69
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (93 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACGAGGAAATGAATAAGACCATGGTTGAAAG
ATACCATGGCAACCTGACATGAAATGAA
Found at i:14311668 original size:16 final size:16
Alignment explanation
Indices: 14311647--14311691 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14311637 AATGAGTTTT
14311647 ATTTTTATAATTTTCA
1 ATTTTTATAATTTTCA
*
14311663 ATTTTTTATAATTTTTTA
1 A-TTTTTATAA-TTTTCA
14311681 A-TTTTATAATT
1 ATTTTTATAATT
14311692 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.08
16 9 0.35
17 9 0.35
18 6 0.23
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (16 bp):
ATTTTTATAATTTTCA
Found at i:14312744 original size:15 final size:16
Alignment explanation
Indices: 14312724--14312754 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14312714 AAGAATATCA
14312724 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
14312739 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
14312755 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:14312845 original size:38 final size:39
Alignment explanation
Indices: 14312769--14312846 Score: 90
Period size: 38 Copynumber: 2.0 Consensus size: 39
14312759 TAAAATTGAA
*
14312769 ATATTAAACAATTTATTAAAATAATAAATTATACTAATT
1 ATATTAAACAATTTATTAAAATAATAAATTATAATAATT
* *
14312808 ATATT-AATAATTTATT-ATATGAATAAA-TATAAATAATT
1 ATATTAAACAATTTATTAAAAT-AATAAATTAT-AATAATT
14312846 A
1 A
14312847 AATATGTATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
37 6 0.18
38 23 0.68
39 5 0.15
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (39 bp):
ATATTAAACAATTTATTAAAATAATAAATTATAATAATT
Found at i:14315960 original size:61 final size:61
Alignment explanation
Indices: 14315895--14316028 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 61
14315885 TATTTTTAAC
* * **
14315895 TTTTAGAATTAGAACTAAATTGAAAAATTTTGTAAATGTTGAGGGCTAAATTTATTAAATT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTAAATT
* * * * *
14315956 TTTTAGAACTAAAACTAAAATGACAACTTTTATAAACATTGAGGGCTAAATTTATTAATTT
1 TTTTAGAATTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTAAATT
*
14316017 TTTTAGATTTAG
1 TTTTAGAATTAG
14316029 GTCAAATTGA
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.41
Consensus pattern (61 bp):
TTTTAGAATTAGAACTAAAATGAAAAATTTTATAAACATTGAGGGCTAAATTTATTAAATT
Found at i:14323733 original size:24 final size:23
Alignment explanation
Indices: 14323706--14323755 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
14323696 AGATATAACC
14323706 ATAGA-ACACAATGATCATAATAAT
1 ATAGATACACAAT-A-CATAATAAT
*
14323730 ATAGATTACATAATACATAATAAT
1 ATAGA-TACACAATACATAATAAT
14323754 AT
1 AT
14323756 TTCATGCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 16 0.70
25 1 0.04
26 6 0.26
ACGTcount: A:0.54, C:0.10, G:0.06, T:0.30
Consensus pattern (23 bp):
ATAGATACACAATACATAATAAT
Found at i:14323758 original size:67 final size:67
Alignment explanation
Indices: 14323687--14323838 Score: 200
Period size: 67 Copynumber: 2.3 Consensus size: 67
14323677 ATGCATTATC
* * * * *
14323687 ATTTCATGCAGATATAACCATAGAACACAATG-ATCATAATAATATAGATTACATAATACATAAT
1 ATTTCATGCAAATATAACCATAGAAAACAATGAAT-ATAACAATATAAATTACATAATACATAAC
14323751 AAT
65 AAT
* *
14323754 ATTTCATGCAAAATATAA-CATAGAAAACAATGAATATAACAATATAAATTGCATAATATATAAC
1 ATTTCATGC-AAATATAACCATAGAAAACAATGAATATAACAATATAAATTACATAATACATAAC
14323818 AAT
65 AAT
*
14323821 ATTTTATGCAAATATAAC
1 ATTTCATGCAAATATAAC
14323839 TTAAAATAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
66 8 0.11
67 57 0.77
68 9 0.12
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (67 bp):
ATTTCATGCAAATATAACCATAGAAAACAATGAATATAACAATATAAATTACATAATACATAACA
AT
Found at i:14324362 original size:19 final size:19
Alignment explanation
Indices: 14324325--14324363 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14324315 TAAAAATGTA
*
14324325 AGGAATAATATATATATAT
1 AGGAATAATATATACATAT
14324344 AGGAA-AATATATAACATAT
1 AGGAATAATATAT-ACATAT
14324363 A
1 A
14324364 ATAAAATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.56, C:0.03, G:0.10, T:0.31
Consensus pattern (19 bp):
AGGAATAATATATACATAT
Found at i:14324396 original size:21 final size:21
Alignment explanation
Indices: 14324372--14324417 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14324362 TAATAAAATT
14324372 TATAAATAAAATG-TATAATAA
1 TATAAATAAAATGATA-AATAA
*
14324393 TATAAATAATATGATAAATAA
1 TATAAATAAAATGATAAATAA
14324414 TATA
1 TATA
14324418 TAAAAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (21 bp):
TATAAATAAAATGATAAATAA
Found at i:14324401 original size:12 final size:11
Alignment explanation
Indices: 14324386--14324432 Score: 58
Period size: 12 Copynumber: 3.9 Consensus size: 11
14324376 AATAAAATGT
14324386 ATAATAATATAA
1 ATAAT-ATATAA
14324398 ATAATATGATAA
1 ATAATAT-ATAA
14324410 ATAATATATAAAA
1 ATAATATAT--AA
14324423 ATAATATATA
1 ATAATATATA
14324433 TACAATTTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 5 0.16
12 16 0.50
13 11 0.34
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
ATAATATATAA
Found at i:14326043 original size:44 final size:44
Alignment explanation
Indices: 14325995--14326261 Score: 401
Period size: 44 Copynumber: 6.1 Consensus size: 44
14325985 GGAGAAACCG
* * *
14325995 AATCTGTCATCTTGGACCTGCCCTCTGTCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
14326039 AATCTG-CTATCTTCGATCTGCTTTCTGTCAATACAGAGAAGCCA
1 AATCTGTC-ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* * *
14326083 AATATGTTATCTTCGATCTGCTCTCTATCAATACAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
14326127 AATCTATCATCTTCGATCTGCTCTCTGTCAATAAAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
* *
14326171 AATCTGTCATCTTCGATCTGCTCTCTATCAATATAGAGACGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
*
14326215 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCA
1 AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
14326259 AAT
1 AAT
14326262 TTGCTATCGG
Statistics
Matches: 200, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
43 1 0.00
44 199 1.00
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (44 bp):
AATCTGTCATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCA
Found at i:14338265 original size:21 final size:20
Alignment explanation
Indices: 14338239--14338287 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
14338229 ACATAGTCTG
*
14338239 GCCACACGGGCATGTGGGGAA
1 GCCACACGGCCATGT-GGGAA
* *
14338260 GCCACATGGCCATGTGTGAA
1 GCCACACGGCCATGTGGGAA
14338280 GCCACACG
1 GCCACACG
14338288 ATCGTGTGAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.24, C:0.29, G:0.35, T:0.12
Consensus pattern (20 bp):
GCCACACGGCCATGTGGGAA
Found at i:14344261 original size:20 final size:19
Alignment explanation
Indices: 14344238--14344277 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
14344228 TATTATACAT
14344238 TATAAGATTATTTGATTATA
1 TATAAGATTATTT-ATTATA
**
14344258 TATATTATTATTTATTATA
1 TATAAGATTATTTATTATA
14344277 T
1 T
14344278 CTTATTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (19 bp):
TATAAGATTATTTATTATA
Found at i:14344314 original size:13 final size:13
Alignment explanation
Indices: 14344296--14344330 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14344286 TTCACAAATT
14344296 ATTATTATTTTAC
1 ATTATTATTTTAC
*
14344309 ATTATTATTTTAT
1 ATTATTATTTTAC
14344322 ATTATTATT
1 ATTATTATT
14344331 ATATCTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (13 bp):
ATTATTATTTTAC
Found at i:14344924 original size:13 final size:12
Alignment explanation
Indices: 14344859--14344927 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 12
14344849 AAGTCATTTC
14344859 ATTTTATATA-T
1 ATTTTATATATT
*
14344870 A-TATATATATAT
1 ATTTTATATAT-T
** *
14344882 ATTGCATATATC
1 ATTTTATATATT
14344894 ATGTGTTATATATT
1 AT-T-TTATATATT
14344908 ATTTTATATATTT
1 ATTTTATATA-TT
14344921 ATTTTAT
1 ATTTTAT
14344928 GAACATGTAC
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
10 7 0.16
11 1 0.02
12 11 0.24
13 18 0.40
14 8 0.18
ACGTcount: A:0.35, C:0.03, G:0.04, T:0.58
Consensus pattern (12 bp):
ATTTTATATATT
Found at i:14350981 original size:15 final size:15
Alignment explanation
Indices: 14350945--14350994 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
14350935 CGATATCCTT
14350945 TTTGCAT-TCATGCA
1 TTTGCATCTCATGCA
14350959 TTTGCATCTCATAGCA
1 TTTGCATCTCAT-GCA
*
14350975 TTT-CATCACAT-CA
1 TTTGCATCTCATGCA
14350988 TTTGCAT
1 TTTGCAT
14350995 TCAAAGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.31
15 11 0.34
16 6 0.19
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.42
Consensus pattern (15 bp):
TTTGCATCTCATGCA
Found at i:14361296 original size:205 final size:205
Alignment explanation
Indices: 14360941--14361526 Score: 838
Period size: 206 Copynumber: 2.8 Consensus size: 205
14360931 ACAGGCCACA
* *
14360941 ACATAGCAGATCTGGCATTCAGATGTTTATACTGAAGCAGATCCAAAATGATTTGGGCATCCTTG
1 ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTT-GGCATCCTTG
* * * **
14361006 TGCTTACAAGGAACAAATCAAAGACATAGCTGATTTGACTTTCATGTGTTTACGATAAAGCAAAT
65 TGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAAT
* *
14361071 CTAAGATGATTTGTCATCTCTGTATTGTCAGAGAGCAAATCGAAGTCTGGCATCTCCACTTCAAC
130 CTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAAC
14361136 GGGGAGCAGAT
195 GGGGAGCAGAT
*
14361147 ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGT
1 ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
* * *
14361212 GCTTACAAGGAGCAAATAAAAGACGTAGCTGATTTGGCTTTCACGTGTTTATGAGGAAGCAAATC
66 GCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAATC
* *
14361277 TAAGATGATTTGGCATCTCTGTATTTTCAGAGAACAAATCAAAGTCTGGCATCTCCACTTCAACG
131 TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAACG
14361342 GGGAGCAGAT
196 GGGAGCAGAT
* * * *
14361352 ACATAGCAGATCT--CATCTTCAGATAATCT-CACTGAAGCAAGATCCAAGATGATTTGGCATTC
1 ACATAGCAGATCTGGC-T-TTCAGAT-GTTTATACTGAAGC-AGATCCAAGATGATTTGGCATCC
* * * * * *
14361414 TTGTGCTTACAAGGAGAAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGCTTACGCTGG-AGC
62 TTGTGCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACG-AGGAAGC
** *
14361478 AAATCTAAGATGATTTGGTGTCTTTGTATTGTCAGAGAACAAATCGAAG
126 AAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAG
14361527 AAGCAGATTT
Statistics
Matches: 341, Mismatches: 34, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
203 1 0.00
204 1 0.00
205 167 0.49
206 170 0.50
207 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (205 bp):
ACATAGCAGATCTGGCTTTCAGATGTTTATACTGAAGCAGATCCAAGATGATTTGGCATCCTTGT
GCTTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTCACGTGTTTACGAGGAAGCAAATC
TAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATCGAAGTCTGGCATCTCCACTTCAACG
GGGAGCAGAT
Found at i:14363162 original size:25 final size:23
Alignment explanation
Indices: 14363126--14363183 Score: 57
Period size: 25 Copynumber: 2.5 Consensus size: 23
14363116 TTTACCTTAC
14363126 TTTTA-TATTATACATTATAAGATTA
1 TTTTATTA-TATACATTAT--GATTA
* *
14363151 TTTTATTATATATATTATTATTA
1 TTTTATTATATACATTATGATTA
14363174 -TTTATTATAT
1 TTTTATTATAT
14363184 CTTATTTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
22 10 0.33
23 4 0.13
25 14 0.47
26 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTATTATATACATTATGATTA
Done.