Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 65 of 343
Found at i:20946064 original size:124 final size:124
Alignment explanation
Indices: 20945839--20946118 Score: 323
Period size: 124 Copynumber: 2.3 Consensus size: 124
20945829 ACTAAAACGC
* * ** * * * *
20945839 CGCAAAAAAAAACATTTTGCTTTAAA-CAAAACGGTGCCGTTTTTAGTGGCGTCTTTAGTGGCAT
1 CGCAGAAAAAAACATTTTACTTTAAATC-AAACGGAACCGCTTTAAGTGGCGCCTTTAATGGCAT
** *
20945903 TAGCGGCGCTAGGTGAAAAACGCCACAATAGATCGAGCATCAGCGGCGCTACGGAAAAAA
65 TAGCGGCGCTAGGCAAAAAACGCCACAATAGATCGAGCATCAGCAGCGCTACGGAAAAAA
*
20945963 -GTC-GTAAAAAAACATTTTACTTTAAATCAAACGGAACCGCTTTAAGTTGCGCCTTTAATGGCA
1 CG-CAG-AAAAAAACATTTTACTTTAAATCAAACGGAACCGCTTTAAGTGGCGCCTTTAATGGCA
* ** * * *
20946026 TTAGCGGCGCTAGGCAAAAAACTCTGCAATAGATCGAGCATTAGCAGCGCTATGTAAAAAA
64 TTAGCGGCGCTAGGCAAAAAACGCCACAATAGATCGAGCATCAGCAGCGCTACGGAAAAAA
* * *
20946087 CGCAGCAAAAAATATTTTACTTTAAATAAAAC
1 CGCAGAAAAAAACATTTTACTTTAAATCAAAC
20946119 AAGTGGCGTC
Statistics
Matches: 130, Mismatches: 21, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
123 1 0.01
124 126 0.97
125 3 0.02
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (124 bp):
CGCAGAAAAAAACATTTTACTTTAAATCAAACGGAACCGCTTTAAGTGGCGCCTTTAATGGCATT
AGCGGCGCTAGGCAAAAAACGCCACAATAGATCGAGCATCAGCAGCGCTACGGAAAAAA
Found at i:20979766 original size:29 final size:30
Alignment explanation
Indices: 20979733--20979795 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 30
20979723 AGACAAAAGA
20979733 AAACATGTCAATAAACAGACTT-ACGTAGT
1 AAACATGTCAATAAACAGACTTAACGTAGT
* *
20979762 AAACATGTTAATAAACTGACTTACACGTAGT
1 AAACATGTCAATAAACAGACTTA-ACGTAGT
20979793 AAA
1 AAA
20979796 TTGAGTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.67
31 10 0.33
ACGTcount: A:0.46, C:0.16, G:0.13, T:0.25
Consensus pattern (30 bp):
AAACATGTCAATAAACAGACTTAACGTAGT
Found at i:20980805 original size:65 final size:66
Alignment explanation
Indices: 20980734--20980864 Score: 246
Period size: 66 Copynumber: 2.0 Consensus size: 66
20980724 ATATAGAAAA
*
20980734 ATATTTTTAAATGATTGTAATTGTAAAAAAAA-ATTATATCAACTTTTACTTTAATTATAATTAT
1 ATATTTTAAAATGATTGTAATTGTAAAAAAAAGATTATATCAACTTTTACTTTAATTATAATTAT
20980798 T
66 T
20980799 ATATTTTAAAATGATTGTAATTGTAAAAAAAAGATTATATCAACTTTTACTTTAATTATAATTAT
1 ATATTTTAAAATGATTGTAATTGTAAAAAAAAGATTATATCAACTTTTACTTTAATTATAATTAT
20980864 T
66 T
20980865 TTAACTGGAC
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
65 31 0.48
66 33 0.52
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.47
Consensus pattern (66 bp):
ATATTTTAAAATGATTGTAATTGTAAAAAAAAGATTATATCAACTTTTACTTTAATTATAATTAT
T
Found at i:20983568 original size:18 final size:18
Alignment explanation
Indices: 20983539--20983573 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20983529 ATATTTTTTA
20983539 ATTTTATAAAAATATATAT
1 ATTTTATAAAAAT-TATAT
20983558 ATTTT-TAAAAATTATA
1 ATTTTATAAAAATTATA
20983574 AATAATAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
ATTTTATAAAAATTATAT
Found at i:20983572 original size:27 final size:28
Alignment explanation
Indices: 20983525--20983580 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
20983515 GAAAATTTTA
* **
20983525 ATATATATTTTTTAATTTTATAAA-AAT
1 ATATATATTTTTAAAAATTATAAATAAT
20983552 ATATATATTTTTAAAAATTATAAATAAT
1 ATATATATTTTTAAAAATTATAAATAAT
20983580 A
1 A
20983581 GAAAATATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 21 0.84
28 4 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (28 bp):
ATATATATTTTTAAAAATTATAAATAAT
Found at i:20983576 original size:25 final size:25
Alignment explanation
Indices: 20983501--20983577 Score: 63
Period size: 25 Copynumber: 3.1 Consensus size: 25
20983491 AAAAAACAAC
* *
20983501 ATATATA-AATTTTAGAAAATT-TTA
1 ATATATATATTTTTA-AAAATTATAA
**
20983525 ATATATAT-TTTTT-AATTTTATAAAA
1 ATATATATATTTTTAAAAATTAT--AA
20983550 ATATATATATTTTTAAAAATTATAA
1 ATATATATATTTTTAAAAATTATAA
20983575 ATA
1 ATA
20983578 ATAGAAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
22 4 0.10
23 1 0.02
24 11 0.27
25 14 0.34
26 5 0.12
27 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (25 bp):
ATATATATATTTTTAAAAATTATAA
Found at i:20985399 original size:19 final size:19
Alignment explanation
Indices: 20985375--20985414 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
20985365 GCAATGAGCA
20985375 TAGAATTTTAATAAAATAC
1 TAGAATTTTAATAAAATAC
20985394 TAGAATTTTAATAAAATAC
1 TAGAATTTTAATAAAATAC
20985413 TA
1 TA
20985415 ACTTATCCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (19 bp):
TAGAATTTTAATAAAATAC
Found at i:20993108 original size:30 final size:30
Alignment explanation
Indices: 20993073--20993131 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
20993063 CTTAACAAGT
*
20993073 AAATACCTCTAAAATAATAATAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
*
20993103 AAATACCTTTAAAATAATAACAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
20993132 TAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.61, C:0.12, G:0.00, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:20993135 original size:15 final size:15
Alignment explanation
Indices: 20993115--20993185 Score: 58
Period size: 15 Copynumber: 4.5 Consensus size: 15
20993105 ATACCTTTAA
20993115 AATAATAACAAAATT
1 AATAATAACAAAATT
20993130 AATAATAA-AATAAGTTTT
1 AATAATAACAA-AA---TT
*
20993148 ATACAATATAC-AAA-T
1 A-ATAATA-ACAAAATT
20993163 AATAATAACAAAATT
1 AATAATAACAAAATT
20993178 AATAATAA
1 AATAATAA
20993186 AATAAGTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
13 2 0.04
14 10 0.22
15 21 0.47
18 3 0.07
19 7 0.16
20 2 0.04
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (15 bp):
AATAATAACAAAATT
Found at i:20993171 original size:48 final size:48
Alignment explanation
Indices: 20993115--20993224 Score: 193
Period size: 48 Copynumber: 2.3 Consensus size: 48
20993105 ATACCTTTAA
20993115 AATAATAACAAAATTAATAATAAAATAAGTTTTATACAATATACAAAT
1 AATAATAACAAAATTAATAATAAAATAAGTTTTATACAATATACAAAT
*
20993163 AATAATAACAAAATTAATAATAAAATAAGTTTTATACAATATCCAAAT
1 AATAATAACAAAATTAATAATAAAATAAGTTTTATACAATATACAAAT
* *
20993211 AATAACAATAAAAT
1 AATAATAACAAAAT
20993225 AAGAGCAACT
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (48 bp):
AATAATAACAAAATTAATAATAAAATAAGTTTTATACAATATACAAAT
Found at i:20999668 original size:22 final size:22
Alignment explanation
Indices: 20999643--20999691 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
20999633 TTTAATTTGA
*
20999643 TATATTAACT-TAATCTAACTTT
1 TATATTAA-TATAATATAACTTT
*
20999665 TATATTAATATTATATAACTTT
1 TATATTAATATAATATAACTTT
20999687 TATAT
1 TATAT
20999692 GTTATTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 1 0.04
22 23 0.96
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (22 bp):
TATATTAATATAATATAACTTT
Found at i:21000341 original size:17 final size:16
Alignment explanation
Indices: 21000321--21000353 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
21000311 TATTTTATAT
21000321 TAATTAAATAAAGTAAA
1 TAATTAAATAAA-TAAA
21000338 TAATTAAATAAATAAA
1 TAATTAAATAAATAAA
21000354 AGAAAGACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
TAATTAAATAAATAAA
Found at i:21001820 original size:28 final size:28
Alignment explanation
Indices: 21001774--21001830 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
21001764 TGAATATTAC
* *
21001774 TGAATAATAAAGATCAATTGATTGCTAT
1 TGAATAATAAAGATAAATTGATTGATAT
* *
21001802 TGAATGATAATGATAAATTGATTGATAT
1 TGAATAATAAAGATAAATTGATTGATAT
21001830 T
1 T
21001831 AAAAAGTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.39
Consensus pattern (28 bp):
TGAATAATAAAGATAAATTGATTGATAT
Found at i:21002896 original size:22 final size:21
Alignment explanation
Indices: 21002847--21002902 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
21002837 ACGGTGTGCT
*
21002847 CACACGGGTGTGTCACGGAGA
1 CACACGGGTGTGTCACGAAGA
* *
21002868 CACACGGGTGTGTCACTTAAGC
1 CACACGGGTGTGTCAC-GAAGA
*
21002890 CACACGGGCGTGT
1 CACACGGGTGTGT
21002903 GGTACTGTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 16 0.53
22 14 0.47
ACGTcount: A:0.21, C:0.27, G:0.34, T:0.18
Consensus pattern (21 bp):
CACACGGGTGTGTCACGAAGA
Found at i:21006506 original size:18 final size:18
Alignment explanation
Indices: 21006483--21006548 Score: 114
Period size: 18 Copynumber: 3.7 Consensus size: 18
21006473 AAAATGTGAG
* *
21006483 AAATGATGTTCGCATTTT
1 AAATGATGTTCACATTTC
21006501 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
21006519 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTC
21006537 AAATGATGTTCA
1 AAATGATGTTCA
21006549 AATTGATGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (18 bp):
AAATGATGTTCACATTTC
Found at i:21007072 original size:72 final size:71
Alignment explanation
Indices: 21006972--21007143 Score: 229
Period size: 72 Copynumber: 2.4 Consensus size: 71
21006962 AACAAAAATC
* * * *
21006972 CTAAACTAGTTTTATCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTA
1 CTAAATTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
21007037 TCTAT-
66 TCTATA
* * * *
21007042 GTGTAATCTACTTTTATTAATAGTTGTTTATGTTTGGTCTTTGGTTATTGAATTTATGTTCTACT
1 CT-AAAT-TACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACT
*
21007107 TATTTATA
64 TATCTATA
*
21007115 CTAAATTAGTTTTATCAATAGTTGTTTAT
1 CTAAATTACTTTTATCAATAGTTGTTTAT
21007144 ATATGATTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
70 1 0.01
71 23 0.27
72 61 0.71
73 1 0.01
ACGTcount: A:0.25, C:0.08, G:0.13, T:0.54
Consensus pattern (71 bp):
CTAAATTACTTTTATCAATAGTTGTTTATGTTTGGTCTTTGGATATTGAATTTATGTTCTACTTA
TCTATA
Found at i:21009220 original size:13 final size:13
Alignment explanation
Indices: 21009160--21009220 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
21009150 CTTAAAATTT
*
21009160 TCAAAAGTACTTC
1 TCAAAAGCACTTC
* *
21009173 TTAAAAACACTTC
1 TCAAAAGCACTTC
*
21009186 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
21009199 TCCACAGCACTTC
1 TCAAAAGCACTTC
21009212 TCAAAAGCA
1 TCAAAAGCA
21009221 TTGTCAAACT
Statistics
Matches: 37, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
13 37 1.00
ACGTcount: A:0.39, C:0.28, G:0.07, T:0.26
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:21026914 original size:23 final size:21
Alignment explanation
Indices: 21026881--21026923 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
21026871 AATTAATTAA
*
21026881 AAAATAATATTTTAATAAATC
1 AAAATAATATTATAATAAATC
*
21026902 AAAATAAATTATTATGATAAAT
1 AAAAT-AA-TATTATAATAAAT
21026924 TGTGACAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 5 0.28
22 2 0.11
23 11 0.61
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (21 bp):
AAAATAATATTATAATAAATC
Found at i:21029779 original size:34 final size:34
Alignment explanation
Indices: 21029741--21029805 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
21029731 TCTAAATTAT
***
21029741 AACATGAATAAGTGTAGATAACTTTGAATATTCA
1 AACATGAATAAAAATAGATAACTTTGAATATTCA
*
21029775 AACATGAATAAAAATTGATAACTTTGAATAT
1 AACATGAATAAAAATAGATAACTTTGAATAT
21029806 ATTCTGTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 27 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (34 bp):
AACATGAATAAAAATAGATAACTTTGAATATTCA
Found at i:21030559 original size:10 final size:10
Alignment explanation
Indices: 21030544--21030585 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
21030534 AACCCAAAAT
*
21030544 AAAAAATAAA
1 AAAAAAGAAA
21030554 AAAAAAGAAA
1 AAAAAAGAAA
*
21030564 AAAAATG-AA
1 AAAAAAGAAA
*
21030573 GAAAAAGAAA
1 AAAAAAGAAA
21030583 AAA
1 AAA
21030586 CATAACCTCT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.86, C:0.00, G:0.10, T:0.05
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:21030566 original size:19 final size:19
Alignment explanation
Indices: 21030544--21030590 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 19
21030534 AACCCAAAAT
21030544 AAAAAATAAAAAAAAAGAA
1 AAAAAATAAAAAAAAAGAA
* *
21030563 AAAAAATGAAGAAAAAGAA
1 AAAAAATAAAAAAAAAGAA
*
21030582 AAAACATAA
1 AAAAAATAA
21030591 CCTCTTCACC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.83, C:0.02, G:0.09, T:0.06
Consensus pattern (19 bp):
AAAAAATAAAAAAAAAGAA
Found at i:21031776 original size:19 final size:19
Alignment explanation
Indices: 21031752--21031791 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21031742 TTGAGATTGC
21031752 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
21031771 CAACCTATTTGCTTGAAAT
1 CAACCTATTTGCTTGAAAT
21031790 CA
1 CA
21031792 TTCATTTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.10, T:0.35
Consensus pattern (19 bp):
CAACCTATTTGCTTGAAAT
Found at i:21048530 original size:21 final size:22
Alignment explanation
Indices: 21048492--21048536 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
21048482 TCACGTCAAT
* *
21048492 AAATAATTTAAAATTTATAAAA
1 AAATAATTCAAAAATTATAAAA
21048514 AAAT-ATTCAAAAATTATAAAA
1 AAATAATTCAAAAATTATAAAA
21048535 AA
1 AA
21048537 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (22 bp):
AAATAATTCAAAAATTATAAAA
Found at i:21051211 original size:6 final size:6
Alignment explanation
Indices: 21051200--21051225 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21051190 CTGGGTATCG
21051200 CGATAT CGATAT CGATAT CGATAT CG
1 CGATAT CGATAT CGATAT CGATAT CG
21051226 TGAGGGGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (6 bp):
CGATAT
Found at i:21053925 original size:35 final size:35
Alignment explanation
Indices: 21053879--21053948 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21053869 TGGAAACAAG
21053879 ATAAACCCAGAACCCGCTTCAAATGGCTTTAATCT
1 ATAAACCCAGAACCCGCTTCAAATGGCTTTAATCT
21053914 ATAAACCCAGAACCCGCTTCAAATGGCTTTAATCT
1 ATAAACCCAGAACCCGCTTCAAATGGCTTTAATCT
21053949 CCCTTCCAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (35 bp):
ATAAACCCAGAACCCGCTTCAAATGGCTTTAATCT
Found at i:21067347 original size:31 final size:29
Alignment explanation
Indices: 21067278--21067351 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
21067268 ACAAAATAAT
**
21067278 AACATAAGTGACTAAAACGTAACATTTCA
1 AACATAAGTGACTAAAACGTAACATAGCA
*
21067307 AACATAAGTGACTAAAATGTAACATGAAGCA
1 AACATAAGTGACTAAAACGTAACAT--AGCA
*
21067338 AACAAAAGTGACTA
1 AACATAAGTGACTA
21067352 TTTTTAAGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
29 24 0.62
31 15 0.38
ACGTcount: A:0.51, C:0.15, G:0.14, T:0.20
Consensus pattern (29 bp):
AACATAAGTGACTAAAACGTAACATAGCA
Found at i:21069120 original size:25 final size:25
Alignment explanation
Indices: 21069079--21069126 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
21069069 AAATAAAACT
* *
21069079 ATATGAAACATATAATACTATTATA
1 ATATGAAACATAAAATAATATTATA
21069104 ATAT-AAACATTAAAATAATATTA
1 ATATGAAACA-TAAAATAATATTA
21069127 AGATGATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.35
Consensus pattern (25 bp):
ATATGAAACATAAAATAATATTATA
Found at i:21070531 original size:21 final size:21
Alignment explanation
Indices: 21070501--21070556 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
21070491 AACAGCGGTG
*
21070501 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
* * *
21070522 GCGGTAAGATTGGATATTGTA
1 GCGGTGAGATTAGATACTGTA
21070543 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
21070557 AACAGCGGTG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.27, C:0.07, G:0.36, T:0.30
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:21073957 original size:12 final size:13
Alignment explanation
Indices: 21073938--21073963 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21073928 GATTGAGTAC
21073938 CAAAAAAATTAAG
1 CAAAAAAATTAAG
21073951 CAAAAAAATTAAG
1 CAAAAAAATTAAG
21073964 GGTTCATTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (13 bp):
CAAAAAAATTAAG
Found at i:21074484 original size:25 final size:26
Alignment explanation
Indices: 21074456--21074515 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 26
21074446 GAATATGCTG
21074456 AGAAGAGAAG-ATGAAGAACGGAAGA
1 AGAAGAGAAGAATGAAGAACGGAAGA
*
21074481 AGAA-A-AAGGAATGAAGAACGGATGA
1 AGAAGAGAA-GAATGAAGAACGGAAGA
21074506 AG--GAGAAGAA
1 AGAAGAGAAGAA
21074516 GCCTTACCTG
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
23 2 0.07
24 6 0.20
25 22 0.73
ACGTcount: A:0.57, C:0.03, G:0.35, T:0.05
Consensus pattern (26 bp):
AGAAGAGAAGAATGAAGAACGGAAGA
Found at i:21080086 original size:23 final size:21
Alignment explanation
Indices: 21080051--21080093 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
21080041 GTTTCTTGTT
21080051 TAAAACTCAAACTTGGTTCGAGA
1 TAAAACTCAAAC-T-GTTCGAGA
* *
21080074 TAAAAGTCGAACTGTTCGAG
1 TAAAACTCAAACTGTTCGAG
21080094 CTTACTCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (21 bp):
TAAAACTCAAACTGTTCGAGA
Found at i:21091574 original size:26 final size:24
Alignment explanation
Indices: 21091545--21091608 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 24
21091535 ATTAGAATTT
*
21091545 TTTTAAAATAATTTTTATTTTTATAC
1 TTTTAAAATAATTTTTA-TTTAAT-C
*
21091571 TTTTATACAT-ATTTTTATTTAATC
1 TTTTA-AAATAATTTTTATTTAATC
*
21091595 TTTTAAATTAATTT
1 TTTTAAAATAATTT
21091609 CCTTTTTTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
23 2 0.06
24 10 0.31
25 5 0.16
26 12 0.38
27 3 0.09
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (24 bp):
TTTTAAAATAATTTTTATTTAATC
Found at i:21092745 original size:54 final size:54
Alignment explanation
Indices: 21092663--21092775 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
21092653 TGTAATTACA
* * *
21092663 TATTTGTTTATCTAATTTATTATTAAAGAAATTGCTATTATTATTTTCAGTCTT
1 TATTTCTTTATCTAATTTATTAATAAAGAAATTGCTATTATTATTTTCAATCTT
* * * * *
21092717 TATTTCTTTATTTAGTTTTTTAATAAAGACATTGTTATTATTATTTTCAATCTT
1 TATTTCTTTATCTAATTTATTAATAAAGAAATTGCTATTATTATTTTCAATCTT
21092771 TATTT
1 TATTT
21092776 GTAGGTATTA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.28, C:0.07, G:0.06, T:0.58
Consensus pattern (54 bp):
TATTTCTTTATCTAATTTATTAATAAAGAAATTGCTATTATTATTTTCAATCTT
Found at i:21093921 original size:20 final size:19
Alignment explanation
Indices: 21093862--21093931 Score: 68
Period size: 20 Copynumber: 3.5 Consensus size: 19
21093852 TTCATATTCT
*
21093862 TGATAGCACTACGGTGCTCC
1 TGATAGCACTAC-ATGCTCC
* * * *
21093882 TGACAGTACTTTCATACTCC
1 TGATAGCAC-TACATGCTCC
21093902 TGATAGCACTACAATGCTCC
1 TGATAGCACTAC-ATGCTCC
21093922 TGATAGCACT
1 TGATAGCACT
21093932 TTCGTACTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.05
20 35 0.90
21 2 0.05
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (19 bp):
TGATAGCACTACATGCTCC
Found at i:21093969 original size:40 final size:40
Alignment explanation
Indices: 21093744--21093960 Score: 265
Period size: 40 Copynumber: 5.4 Consensus size: 40
21093734 AGTGCTTCTA
* *
21093744 ATAGCACTATGGTGCTCCTAACCA-TACTTTCGTACTCTTG
1 ATAGCACTACGGTGCTCCTGA-CAGTACTTTCGTACTCTTG
* * * *
21093784 ATAGCACAACGGTGCTCTTGACAGTACTTTCGTATTCCTG
1 ATAGCACTACGGTGCTCCTGACAGTACTTTCGTACTCTTG
* * *
21093824 ATAGCACTACGGTGCTCCTGACAGTATTTTCATATTCTTG
1 ATAGCACTACGGTGCTCCTGACAGTACTTTCGTACTCTTG
* *
21093864 ATAGCACTACGGTGCTCCTGACAGTACTTTCATACTCCTG
1 ATAGCACTACGGTGCTCCTGACAGTACTTTCGTACTCTTG
** * *
21093904 ATAGCACTACAATGCTCCTGATAGCACTTTCGTACTCTTG
1 ATAGCACTACGGTGCTCCTGACAGTACTTTCGTACTCTTG
* *
21093944 TTAGCACTATGGTGCTC
1 ATAGCACTACGGTGCTC
21093961 TTGATAGCAT
Statistics
Matches: 152, Mismatches: 24, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
39 2 0.01
40 150 0.99
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (40 bp):
ATAGCACTACGGTGCTCCTGACAGTACTTTCGTACTCTTG
Found at i:21094009 original size:19 final size:20
Alignment explanation
Indices: 21093985--21094026 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
21093975 ATGCTCTTAT
21093985 TTGCACTACGGTGCC-CTGA
1 TTGCACTACGGTGCCTCTGA
**
21094004 TTGCACTTTGGTGCCTCTGA
1 TTGCACTACGGTGCCTCTGA
21094024 TTG
1 TTG
21094027 TACTTTTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.12, C:0.26, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCACTACGGTGCCTCTGA
Found at i:21094025 original size:20 final size:19
Alignment explanation
Indices: 21093994--21094032 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
21093984 TTTGCACTAC
21093994 GGTGCCCTGATTGCACTTT
1 GGTGCCCTGATTGCACTTT
*
21094013 GGTGCCTCTGATTGTACTTT
1 GGTGCC-CTGATTGCACTTT
21094033 TGTTCCCCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.10, C:0.23, G:0.26, T:0.41
Consensus pattern (19 bp):
GGTGCCCTGATTGCACTTT
Found at i:21108699 original size:34 final size:34
Alignment explanation
Indices: 21108611--21108692 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
21108601 TCCAATGCTT
* *
21108611 AATTAAATTCGGCAACATATATATTTATATATAC
1 AATTCAATTCGGTAACATATATATTTATATATAC
21108645 AATTCAATTCGGTAACATATATATTTATATATAC
1 AATTCAATTCGGTAACATATATATTTATATATAC
21108679 AATTCAATTCGGTA
1 AATTCAATTCGGTA
21108693 TTATATAATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (34 bp):
AATTCAATTCGGTAACATATATATTTATATATAC
Found at i:21111543 original size:17 final size:17
Alignment explanation
Indices: 21111523--21111555 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21111513 TGAGTGATTT
21111523 ATTCAAAATAGCCGGTC
1 ATTCAAAATAGCCGGTC
21111540 ATTCAAAATAGCCGGT
1 ATTCAAAATAGCCGGT
21111556 GTGACTGAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (17 bp):
ATTCAAAATAGCCGGTC
Found at i:21134888 original size:47 final size:47
Alignment explanation
Indices: 21134824--21135432 Score: 941
Period size: 47 Copynumber: 12.7 Consensus size: 47
21134814 CCCTTCGGCA
* * * * * *
21134824 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21134870 CTCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CT-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21134918 CTCATCACATATATACACTTTCACATTCATCACATCGGCAATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21134965 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135061 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21135110 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135159 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21135206 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135253 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135300 CTTATCACAGATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * * *
21135349 CTTACCGCATATATATACACTTTCACATTCATCACATTGGCCATTCGAC
1 CTTA--TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135398 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
21135433 ATATACACTT
Statistics
Matches: 525, Mismatches: 28, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
46 2 0.00
47 296 0.56
48 2 0.00
49 223 0.42
51 2 0.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21135014 original size:96 final size:94
Alignment explanation
Indices: 21134824--21135432 Score: 941
Period size: 96 Copynumber: 6.4 Consensus size: 94
21134814 CCCTTCGGCA
* * * * * * *
21134824 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCACATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATACA
21134888 CTTTCACATTCATCACATCGGCCATTAGGC
65 CTTTCACATTCATCACATCGGCCATTAGGC
* *
21134918 CTCATCACATATATACACTTTCACATTCATCACATCGGCAATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
*
21134983 ACTTTCACATTCATCACATCGGCTATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
21135014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
21135079 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
21135110 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
21135175 ACTTTCACATTCATCACATCGGCCATTAGGC
64 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
21135206 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
21135271 TTTCACATTCATCACATCGGCCATTAGGC
66 TTTCACATTCATCACATCGGCCATTAGGC
* *
21135300 CTTATCACAGATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCGCATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA--TCACATATAT
* * *
21135365 ACACTTTCACATTCATCACATTGGCCATTCGAC
62 ACACTTTCACATTCATCACATCGGCCATTAGGC
21135398 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
21135433 ATATACACTT
Statistics
Matches: 480, Mismatches: 26, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
94 133 0.28
95 2 0.00
96 254 0.53
98 91 0.19
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (94 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGC
Found at i:21135260 original size:239 final size:240
Alignment explanation
Indices: 21134824--21135432 Score: 1023
Period size: 239 Copynumber: 2.6 Consensus size: 240
21134814 CCCTTCGGCA
* * * * * *
21134824 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGG-CTCTGTCAC--ATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT-TATCACATATATA
* * *
21134884 TACACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATC
65 TACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATC
*
21134949 ACATCGGCAATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
130 ACATCGGCAATTAGGCCTCATCACA-ATATATACACTTTCACATTCATCACATCGGCTATTAGGC
21135014 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
194 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21135061 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
21135126 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
*
21135191 CATCGGCCATTAGGCCTCATCAC-ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
131 CATCGGCAATTAGGCCTCATCACAATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
21135255 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
21135300 CTTATCACAGATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCGCATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
21135365 ACACTTTCACATTCATCACATTGGCCATTCGACCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
21135430 CAT
131 CAT
21135433 ATATACACTT
Statistics
Matches: 352, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
237 10 0.03
238 1 0.00
239 250 0.71
240 2 0.01
241 89 0.25
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (240 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCAATTAGGCCTCATCACAATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21135435 original size:25 final size:25
Alignment explanation
Indices: 21135359--21135448 Score: 107
Period size: 25 Copynumber: 3.7 Consensus size: 25
21135349 CTTACCGCAT
21135359 ATATATACACTTTCACATTCATCAC
1 ATATATACACTTTCACATTCATCAC
** * *
21135384 AT-T-GGC-CATTCGACCTT-ATCAC
1 ATATATACACTTTC-ACATTCATCAC
21135406 ATATATACACTTTCACATTCATCAC
1 ATATATACACTTTCACATTCATCAC
21135431 ATATATACACTTTCACAT
1 ATATATACACTTTCACAT
21135449 CACAATTATC
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
22 11 0.21
23 6 0.12
24 6 0.12
25 29 0.56
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.36
Consensus pattern (25 bp):
ATATATACACTTTCACATTCATCAC
Found at i:21144230 original size:28 final size:27
Alignment explanation
Indices: 21144167--21144318 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
21144157 ATATTAAGTC
* * *
21144167 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
*
21144194 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
21144222 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
21144249 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
*
21144277 CGCACACTTAGTGCTACATAGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACT
21144304 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21144319 GCACAATTTA
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:21144251 original size:55 final size:55
Alignment explanation
Indices: 21144167--21144318 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
21144157 ATATTAAGTC
* * *
21144167 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
21144222 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
*
21144277 CGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
21144319 GCACAATTTA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACT
Found at i:21157553 original size:5 final size:5
Alignment explanation
Indices: 21157543--21157572 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
21157533 AAATTTCTGT
21157543 TAAAA TAAAA TAAAA TAAAA TAAAAA TAAA
1 TAAAA TAAAA TAAAA TAAAA T-AAAA TAAA
21157573 GAACACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:21157563 original size:15 final size:16
Alignment explanation
Indices: 21157543--21157572 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21157533 AAATTTCTGT
21157543 TAAAAT-AAAATAAAA
1 TAAAATAAAAATAAAA
21157558 TAAAATAAAAATAAA
1 TAAAATAAAAATAAA
21157573 GAACACACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (16 bp):
TAAAATAAAAATAAAA
Found at i:21161995 original size:5 final size:5
Alignment explanation
Indices: 21161985--21162020 Score: 54
Period size: 5 Copynumber: 6.8 Consensus size: 5
21161975 ACCAGTTTGT
21161985 TAAAA TAAAA TAAAAA TAAAA TAAAA TAAAAA TAAA
1 TAAAA TAAAA T-AAAA TAAAA TAAAA T-AAAA TAAA
21162021 GAACACACAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 19 0.66
6 10 0.34
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
TAAAA
Found at i:21162002 original size:11 final size:11
Alignment explanation
Indices: 21161986--21162020 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
21161976 CCAGTTTGTT
21161986 AAAATAAAATA
1 AAAATAAAATA
21161997 AAAATAAAAT-
1 AAAATAAAATA
21162007 AAAATAAAAATA
1 AAAAT-AAAATA
21162019 AA
1 AA
21162021 GAACACACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 5 0.23
11 15 0.68
12 2 0.09
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:21162006 original size:16 final size:16
Alignment explanation
Indices: 21161985--21162020 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
21161975 ACCAGTTTGT
21161985 TAAAATAAAATAAAAA
1 TAAAATAAAATAAAAA
21162001 TAAAATAAAATAAAAA
1 TAAAATAAAATAAAAA
21162017 TAAA
1 TAAA
21162021 GAACACACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (16 bp):
TAAAATAAAATAAAAA
Found at i:21169464 original size:20 final size:20
Alignment explanation
Indices: 21169441--21169481 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
21169431 AAAATAATTT
*
21169441 TAAAC-CAAAGGTATCGATAC
1 TAAACTCAAA-GTATAGATAC
21169461 TAAACTCAAAGTATAGATAC
1 TAAACTCAAAGTATAGATAC
21169481 T
1 T
21169482 TCCTTTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.46, C:0.17, G:0.12, T:0.24
Consensus pattern (20 bp):
TAAACTCAAAGTATAGATAC
Found at i:21177216 original size:39 final size:40
Alignment explanation
Indices: 21177116--21177338 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
21177106 TTGAATGATG
* *
21177116 TCCGGGCTAAGT-CCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
21177154 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
21177195 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21177234 TCCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTAAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AAT
* *
21177274 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
21177312 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
21177339 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
38 2 0.01
39 79 0.48
40 71 0.43
41 11 0.07
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21177275 original size:79 final size:79
Alignment explanation
Indices: 21177116--21177338 Score: 258
Period size: 79 Copynumber: 2.8 Consensus size: 79
21177106 TTGAATGATG
* * * * *
21177116 TCCGGGCTAAGTCCGAAGGC-TTTGTGCTA-AGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGA-T-ACTATATCCGGGCTAAGACCCGAAGGCATT
21177179 TGTGCGAGATACTAAT
64 TGTGCGAGATACTAAT
21177195 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTA-ATTCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATA-TCCGGGCTAAGACCCGAAGGCATTT
* *
21177258 GTGTGAGTTACTAAAT
65 GTGCGAGATACT-AAT
* * * * *
21177274 T-CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTT
21177338 G
65 G
21177339 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 13
0.84 0.07 0.09
Matches are distributed among these distances:
78 31 0.25
79 70 0.56
80 24 0.19
81 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGATACTATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGATACTAAT
Found at i:21177369 original size:79 final size:79
Alignment explanation
Indices: 21177168--21177371 Score: 202
Period size: 79 Copynumber: 2.6 Consensus size: 79
21177158 GGACTAAGAT
** * * *
21177168 CCGAAGGCATTTGTGCGAGATACT-AATTCCGGGCT-AAGCCCGAAGGCATTTGTGCGAGATACT
1 CCGAAGGCATTTGAACGAGTTACTAAATTCC-GGTTAAATCCCGAAGGCATTTGTGCGAGATACT
*
21177231 AATTCCGGGCTAAGC
65 AATACCGGGCTAAGC
*** * * *
21177246 CCGAAGGCATTTGTGTGAGTTACTAAATTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-
1 CCGAAGGCATTTGAACGAGTTACTAAATTCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
*
21177310 ATAACCGGGCTATGTC
66 AT-ACCGGGCTAAG-C
* *
21177326 CCGAAGGCATTTGAACGAG-TAGCTATA-TCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTTA-CTAAATTCCGGTTAAATCCCGAAGG
21177372 TACGTGATTT
Statistics
Matches: 105, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 27 0.26
79 57 0.54
80 21 0.20
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTTACTAAATTCCGGTTAAATCCCGAAGGCATTTGTGCGAGATACTA
ATACCGGGCTAAGC
Found at i:21181774 original size:40 final size:39
Alignment explanation
Indices: 21181730--21181806 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
21181720 AGTGACCATA
*
21181730 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
21181770 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTA
21181807 TTAAGTCCGG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 24 0.71
40 10 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:21181791 original size:39 final size:41
Alignment explanation
Indices: 21181690--21181837 Score: 135
Period size: 40 Copynumber: 3.6 Consensus size: 41
21181680 TTGAATGATG
* * *
21181690 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGA-T-ACTAATA
* *
21181730 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
* *
21181770 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATTAA
1 TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAAT-A
* **
21181811 GTCCGGGGTATTACCCGAAGGCATTTG
1 -TCCGGGCTAAGACCCGAAGGCATTTG
21181838 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
39 25 0.28
40 30 0.34
41 11 0.12
42 9 0.10
43 14 0.16
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGACCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:21187409 original size:20 final size:20
Alignment explanation
Indices: 21187384--21187423 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21187374 TACGTATGAA
21187384 CTTACTTTGTTACCTTTTCT
1 CTTACTTTGTTACCTTTTCT
21187404 CTTACTTTGTTACCTTTTCT
1 CTTACTTTGTTACCTTTTCT
21187424 TCCTCAGGCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.10, C:0.25, G:0.05, T:0.60
Consensus pattern (20 bp):
CTTACTTTGTTACCTTTTCT
Found at i:21192927 original size:44 final size:43
Alignment explanation
Indices: 21192833--21192953 Score: 147
Period size: 44 Copynumber: 2.8 Consensus size: 43
21192823 GATGCCTCTT
* *
21192833 TCCCAGACAGGGTCTTACACGAAA--TCAGATACGATGCCAATG
1 TCCCAGACACGGTCTTACACGAAATCTCAGAT-CGAGGCCAATG
* * **
21192875 TCCCAGACATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTG
1 TCCCAGACACGGTCTTACACG-AAATCTCAGATCGAGGCCAATG
*
21192919 TCCCAGACACGGTCTTACACGATATCTCAGATCGA
1 TCCCAGACACGGTCTTACACGAAATCTCAGATCGA
21192954 TGTCAACGTT
Statistics
Matches: 68, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
42 20 0.29
43 15 0.22
44 28 0.41
45 5 0.07
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (43 bp):
TCCCAGACACGGTCTTACACGAAATCTCAGATCGAGGCCAATG
Found at i:21196058 original size:85 final size:86
Alignment explanation
Indices: 21195957--21196115 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
21195947 CACAGACAAG
** * *
21195957 TACGATGCCGATGTCCCAAATGTGGTCTTACA-TGT-AA-TTCAATATCGATGCCTCTGTCCCAG
1 TACGATGCCGATGTCCCAAACATGGTCTAACACT-TAAATTTCAA-ATCGATGCCTCTGTCCCAA
21196019 ACAAGGTCTTATACCAAAACAGA
64 ACAAGGTCTTATACCAAAACAGA
* *
21196042 TACGATGCCGATGTCCCAGACATGGTCTAACACTTAAATTTCAAATCGATGCCTGTGTCCCAAAC
1 TACGATGCCGATGTCCCAAACATGGTCTAACACTTAAATTTCAAATCGATGCCTCTGTCCCAAAC
*
21196107 ACGGTCTTA
66 AAGGTCTTA
21196116 CACGATAATT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
85 29 0.45
86 30 0.47
87 5 0.08
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.27
Consensus pattern (86 bp):
TACGATGCCGATGTCCCAAACATGGTCTAACACTTAAATTTCAAATCGATGCCTCTGTCCCAAAC
AAGGTCTTATACCAAAACAGA
Found at i:21202485 original size:9 final size:9
Alignment explanation
Indices: 21202471--21202495 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
21202461 AACCATTCAA
21202471 TCATTCATT
1 TCATTCATT
21202480 TCATTCATT
1 TCATTCATT
21202489 TCATTCA
1 TCATTCA
21202496 AAATAATCCA
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:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (9 bp):
TCATTCATT
Found at i:21211273 original size:24 final size:24
Alignment explanation
Indices: 21211206--21211273 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 24
21211196 GGTTTGGTAA
*
21211206 CAGAAGCAATTTCAG-TTCATATT
1 CAGAAGCAATTTCAGTTTCATATG
*
21211229 CA-AAACAGA--TCAGTTAT-ATATG
1 CAGAAGCA-ATTTCAGTT-TCATATG
21211251 CAGAAGCAATTTCAGTTTCATAT
1 CAGAAGCAATTTCAGTTTCATAT
21211274 ACAAAACAGA
Statistics
Matches: 35, Mismatches: 3, Indels: 13
0.69 0.06 0.25
Matches are distributed among these distances:
21 4 0.11
22 12 0.34
23 9 0.26
24 10 0.29
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (24 bp):
CAGAAGCAATTTCAGTTTCATATG
Found at i:21211298 original size:46 final size:45
Alignment explanation
Indices: 21211206--21211300 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
21211196 GGTTTGGTAA
* * *
21211206 CAGAAGCAATTTCAGTTCATATTCAAAACAGATCAGTTATATATG
1 CAGAAGCAATTTCAGTTCATATACAAAACAGATCAGTTACAGATG
*
21211251 CAGAAGCAATTTCAGTTTCATATACAAAACAGATGAGATT-CAGATG
1 CAGAAGCAATTTCAG-TTCATATACAAAACAGATCAG-TTACAGATG
21211297 CAGA
1 CAGA
21211301 TATTCCTACC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 15 0.34
46 27 0.61
47 2 0.05
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (45 bp):
CAGAAGCAATTTCAGTTCATATACAAAACAGATCAGTTACAGATG
Found at i:21212739 original size:14 final size:13
Alignment explanation
Indices: 21212716--21212745 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
21212706 AGACAAGAAA
21212716 AAAGATAAAAATG
1 AAAGATAAAAATG
21212729 AAAGAATAAAAATG
1 AAAG-ATAAAAATG
21212743 AAA
1 AAA
21212746 AACTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.13
Consensus pattern (13 bp):
AAAGATAAAAATG
Found at i:21212747 original size:22 final size:23
Alignment explanation
Indices: 21212713--21212760 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
21212703 TAAAGACAAG
21212713 AAAAAAGATAAAAAT-GAAAGAAT
1 AAAAAAGATAAAAATAGAAA-AAT
* *
21212736 AAAAATGA-AAAACTAGAAAAAT
1 AAAAAAGATAAAAATAGAAAAAT
21212758 AAA
1 AAA
21212761 TTAAAAAGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.75, C:0.02, G:0.10, T:0.12
Consensus pattern (23 bp):
AAAAAAGATAAAAATAGAAAAAT
Found at i:21219715 original size:21 final size:20
Alignment explanation
Indices: 21219678--21219719 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 20
21219668 AATCAAGTAT
*
21219678 AAAAATAAGCAAAAAGATAAA
1 AAAAAAAAGCAAAAAGA-AAA
21219699 AAAAAAAAG-AAAGAAGAAAA
1 AAAAAAAAGCAAA-AAGAAAA
21219719 A
1 A
21219720 TGAAGAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.81, C:0.02, G:0.12, T:0.05
Consensus pattern (20 bp):
AAAAAAAAGCAAAAAGAAAA
Found at i:21220083 original size:14 final size:14
Alignment explanation
Indices: 21220064--21220091 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21220054 TAATTACTGC
21220064 AAATTCTCAAAATT
1 AAATTCTCAAAATT
21220078 AAATTCTCAAAATT
1 AAATTCTCAAAATT
21220092 TTGGGGCGTT
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:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (14 bp):
AAATTCTCAAAATT
Found at i:21220479 original size:21 final size:21
Alignment explanation
Indices: 21220453--21220493 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21220443 TTAAGAGATG
*
21220453 TTACTTGAATAGTTGTATCTC
1 TTACTTGAATAGTTATATCTC
*
21220474 TTACTTTAATAGTTATATCT
1 TTACTTGAATAGTTATATCT
21220494 ATTTAAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.12, G:0.10, T:0.51
Consensus pattern (21 bp):
TTACTTGAATAGTTATATCTC
Found at i:21221436 original size:16 final size:17
Alignment explanation
Indices: 21221415--21221448 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
21221405 AAAAAATAGC
21221415 TTTAATTTTT-GGGTTT
1 TTTAATTTTTGGGGTTT
21221431 TTTAATTTTTGGGGTTT
1 TTTAATTTTTGGGGTTT
21221448 T
1 T
21221449 CACATGTTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.12, C:0.00, G:0.21, T:0.68
Consensus pattern (17 bp):
TTTAATTTTTGGGGTTT
Found at i:21233712 original size:16 final size:15
Alignment explanation
Indices: 21233687--21233734 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
21233677 CTCTTTTAAG
21233687 TTTATTTTAATTTTA
1 TTTATTTTAATTTTA
21233702 TTTATTTTTAATTATTA
1 TTTA-TTTTAATT-TTA
21233719 -TTATTTTAGATTTTA
1 TTTATTTTA-ATTTTA
21233734 T
1 T
21233735 ATTAATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
15 12 0.41
16 14 0.48
17 3 0.10
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTATTTTAATTTTA
Found at i:21234670 original size:19 final size:19
Alignment explanation
Indices: 21234623--21234662 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21234613 TATTTTGTTA
21234623 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
21234642 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
21234661 TT
1 TT
21234663 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:21245025 original size:19 final size:19
Alignment explanation
Indices: 21244978--21245017 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
21244968 TATTTTGTTA
21244978 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
21244997 TTTATTTTTATTTCATCTT
1 TTTATTTTTATTTCATCTT
21245016 TT
1 TT
21245018 ACTTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.15, C:0.10, G:0.00, T:0.75
Consensus pattern (19 bp):
TTTATTTTTATTTCATCTT
Found at i:21248624 original size:13 final size:13
Alignment explanation
Indices: 21248608--21248633 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21248598 TCATTACGCA
21248608 AACAAATGGTTTT
1 AACAAATGGTTTT
21248621 AACAAATGGTTTT
1 AACAAATGGTTTT
21248634 TTGAAACACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
AACAAATGGTTTT
Found at i:21251371 original size:15 final size:16
Alignment explanation
Indices: 21251346--21251375 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21251336 TTTTATTACT
21251346 TTAATAAAAATATTTA
1 TTAATAAAAATATTTA
21251362 TTAA-AAAAATATTT
1 TTAATAAAAATATTT
21251376 TTTCTCAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAATAAAAATATTTA
Found at i:21252391 original size:39 final size:34
Alignment explanation
Indices: 21252352--21252419 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
21252342 TTATTCTAAA
21252352 ATAAAATAAAAGAAGTGTAATTCTATATGGATTT
1 ATAAAATAAAAGAAGTGTAATTCTATATGGATTT
21252386 ATAAAATAAAAGAAGTGTAATTCTATATGGATTT
1 ATAAAATAAAAGAAGTGTAATTCTATATGGATTT
21252420 TACTTTTATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.35
Consensus pattern (34 bp):
ATAAAATAAAAGAAGTGTAATTCTATATGGATTT
Found at i:21258235 original size:17 final size:19
Alignment explanation
Indices: 21258213--21258250 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
21258203 TTTCTGTTGG
21258213 TGACATT-TC-CAACTCTT
1 TGACATTGTCACAACTCTT
21258230 TGACATTGGTCACAACTCTT
1 TGACATT-GTCACAACTCTT
21258250 T
1 T
21258251 ACGTATGCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.24, C:0.26, G:0.11, T:0.39
Consensus pattern (19 bp):
TGACATTGTCACAACTCTT
Found at i:21269814 original size:47 final size:45
Alignment explanation
Indices: 21269736--21269868 Score: 162
Period size: 47 Copynumber: 2.9 Consensus size: 45
21269726 TATGGGTTAT
21269736 TGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATT-A
1 TGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGG-C-CATTGA
*
21269782 TGAGAGCCAGTGTAAGAACATGTCTAGGACATGGCATCGG-CATTGAGA
1 TGAGAGCTAGTGTAAG-ACATGTCTAGGACAT-GCATCGGCCATT--GA
* * *
21269830 CGAGAGCTAGTGTAAGATATGTCTGGGACATGCATCGGC
1 TGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGC
21269869 TACAAGATGT
Statistics
Matches: 76, Mismatches: 5, Indels: 11
0.83 0.05 0.12
Matches are distributed among these distances:
45 4 0.05
46 22 0.29
47 28 0.37
48 22 0.29
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (45 bp):
TGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCATTGA
Found at i:21269929 original size:94 final size:93
Alignment explanation
Indices: 21269736--21269956 Score: 268
Period size: 94 Copynumber: 2.3 Consensus size: 93
21269726 TATGGGTTAT
*
21269736 TGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGAAC
1 TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCCAGTGTAAGAAC
*
21269801 ATGTCTAGGACATGGCATCGGCATTGAGA
65 ATGTCTAGGACATGGCATCGGCATAGAGA
* * * * ** *
21269830 CGAGAGCTAGTGTAAGATATGTCTGGGACATGCATCGGCTACA-A-GATGTGTTAGTGTAAGACC
1 TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA-GAGCCAGTGTAAGAAC
* *
21269893 ATGTCT-GCGACATGGCATCGGTATAGATA
65 ATGTCTAG-GACATGGCATCGGCATAGAGA
21269922 TGTGAGAGCTAGTGTAAGACCATGTCTGGGACATG
1 --TGAGAGCTAGTGTAAGA-CATGTCTGGGACATG
21269957 GCGTCAGCCT
Statistics
Matches: 109, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
91 3 0.03
92 37 0.34
94 55 0.50
95 14 0.13
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.24
Consensus pattern (93 bp):
TGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCCAGTGTAAGAACA
TGTCTAGGACATGGCATCGGCATAGAGA
Found at i:21271067 original size:38 final size:38
Alignment explanation
Indices: 21271023--21271096 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
21271013 TTGATAAATT
*
21271023 GCTTATTATTTTCATATGGTCTTACTAAGCTATAAAAC
1 GCTTATTATTTTCATACGGTCTTACTAAGCTATAAAAC
21271061 GCTTATTATTTTCATACGGTCTTACTAAGCTATAAA
1 GCTTATTATTTTCATACGGTCTTACTAAGCTATAAA
21271097 GCTTAATCCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.31, C:0.16, G:0.11, T:0.42
Consensus pattern (38 bp):
GCTTATTATTTTCATACGGTCTTACTAAGCTATAAAAC
Found at i:21277238 original size:18 final size:18
Alignment explanation
Indices: 21277217--21277251 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21277207 TCAGTAACAC
21277217 ATTCAGTCATAGTATCAT
1 ATTCAGTCATAGTATCAT
*
21277235 ATTCAGTCATGGTATCA
1 ATTCAGTCATAGTATCA
21277252 GTAGTTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (18 bp):
ATTCAGTCATAGTATCAT
Found at i:21277980 original size:14 final size:14
Alignment explanation
Indices: 21277963--21277995 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
21277953 ATGTATATGT
21277963 ATGTATGTATGCAA
1 ATGTATGTATGCAA
*
21277977 ATGTATGTATGCAG
1 ATGTATGTATGCAA
21277991 ATGTA
1 ATGTA
21277996 CCAATTCAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (14 bp):
ATGTATGTATGCAA
Found at i:21279134 original size:12 final size:13
Alignment explanation
Indices: 21279109--21279160 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
21279099 AAGGAAGAAG
21279109 AATAAAAATAAAA
1 AATAAAAATAAAA
*
21279122 AATAAAAGT-AAA
1 AATAAAAATAAAA
21279134 AATAAATAATAATAA
1 AATAAA-AATAA-AA
*
21279149 TAATAATAATAA
1 -AATAAAAATAA
21279161 TAAACAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
12 9 0.28
13 10 0.31
14 1 0.03
15 7 0.22
16 5 0.16
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (13 bp):
AATAAAAATAAAA
Found at i:21279146 original size:3 final size:3
Alignment explanation
Indices: 21279109--21279163 Score: 53
Period size: 3 Copynumber: 18.7 Consensus size: 3
21279099 AAGGAAGAAG
* *
21279109 AAT AAA AAT AA- AA- AAT AA- AAGT AAA AAT AAAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT -AAT AAT AAT AAT AAT
21279153 AAT AAT AAT AA
1 AAT AAT AAT AA
21279164 ACAAATAAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.14
3 33 0.75
4 5 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.24
Consensus pattern (3 bp):
AAT
Found at i:21282776 original size:17 final size:17
Alignment explanation
Indices: 21282754--21282789 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
21282744 AAGGATGGCT
*
21282754 TTTACAAAGAGAGAGTA
1 TTTACAAAGAGAGAATA
21282771 TTTACAAAGAGAGAATA
1 TTTACAAAGAGAGAATA
21282788 TT
1 TT
21282790 GAAAGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (17 bp):
TTTACAAAGAGAGAATA
Found at i:21287611 original size:26 final size:25
Alignment explanation
Indices: 21287573--21287637 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 25
21287563 CTAAAACGGT
*
21287573 ACAT-AGTACCTGATCAGAATACGAC
1 ACATAAGTGCCTGATCAG-ATACGAC
21287598 ACATAAGTGCCTGA-C--ATACGAC
1 ACATAAGTGCCTGATCAGATACGAC
21287620 ACATAAGTGCCTGATCAG
1 ACATAAGTGCCTGATCAG
21287638 TAAAGCCGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
22 21 0.60
23 1 0.03
25 5 0.14
26 8 0.23
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (25 bp):
ACATAAGTGCCTGATCAGATACGAC
Found at i:21287617 original size:22 final size:22
Alignment explanation
Indices: 21287591--21287633 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21287581 CCTGATCAGA
21287591 ATACGACACATAAGTGCCTGAC
1 ATACGACACATAAGTGCCTGAC
21287613 ATACGACACATAAGTGCCTGA
1 ATACGACACATAAGTGCCTGA
21287634 TCAGTAAAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.19
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTGAC
Found at i:21287850 original size:23 final size:24
Alignment explanation
Indices: 21287824--21287918 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
21287814 AAATGTCCAA
21287824 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
21287847 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
21287875 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
21287904 CCAAAACACACCAGA
1 CCAAAACACACCAGA
21287919 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:21287920 original size:29 final size:28
Alignment explanation
Indices: 21287838--21287921 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
21287828 AACACACCAG
* *
21287838 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
21287866 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
21287894 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
21287922 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:21291461 original size:39 final size:39
Alignment explanation
Indices: 21291417--21291491 Score: 141
Period size: 39 Copynumber: 1.9 Consensus size: 39
21291407 ATCTATATAC
*
21291417 ATATCATATACGGGTATTACAGTCATTAAGATATTTCAT
1 ATATCATATACGGGTATTACAGACATTAAGATATTTCAT
21291456 ATATCATATACGGGTATTACAGACATTAAGATATTT
1 ATATCATATACGGGTATTACAGACATTAAGATATTT
21291492 TATTCATTCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.37
Consensus pattern (39 bp):
ATATCATATACGGGTATTACAGACATTAAGATATTTCAT
Found at i:21294316 original size:663 final size:652
Alignment explanation
Indices: 21292752--21294382 Score: 2698
Period size: 652 Copynumber: 2.5 Consensus size: 652
21292742 GGGTGTTACA
* *
21292752 GATGTTGTCTATATTCATTAACTCTATTTCATCTAACTGTAATGAAT-TGATGACAGTCTTGGTG
1 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
* *
21292816 AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTTATAGAAAATCATCAATCTCT
66 AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTCT
* * * *
21292881 ATATCAACTATCTTTTTTAATAACTTCAGAGATTCTTCTTCTCTATCTTTCTGGATATTTTCAGT
131 ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTCTGGATATTTTCAGT
* *
21292946 ATCATCAGCCACTATCCTTCTTCCATCAGTCTAAAGTTTATAATTCTAATGTTGAAGTAGGTGCT
196 ATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGCT
21293011 GAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGGT
261 GAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGGT
21293076 CTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAAG
326 CTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAAG
21293141 ATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCCT
391 ATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCCT
* *
21293206 AAACTCTATTTAATTTTACTTCAATCCGGCACAGTATTTCTGATAAGGATGAATTGATTGTAGCT
456 AAACTCTATTTAATTTTACTTCAATCCGGCACAATATTTCTGATAAGGATGAACTGATTGTAGCT
*
21293271 TCCATGTAGCCTGCCATTTTTCACATCAACTCTTTGTTTGCTTATAAATGCCTTGTTGTTTAAGT
521 TCCACGTAGCCTGCCATTTTTCACATCAACTCTTTGTTTGCTTATAAATGCCTTGTTGTTTAAGT
*
21293336 TACCACCAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTTTGTCTTTATCCTTCT
586 TACCACAAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTTTGTCTTTATCCTTCT
21293401 TG
651 TG
* * *
21293403 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAGGTTTAATGAATCTGATGACAGTCTGGGTG
1 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
* * *
21293468 AATTCCAAGTCTCCTACGTATTTCTGATTTCCTCTATTATTTTTGATGGAAAATCATCAATCTCT
66 AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTCT
* *
21293533 ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTTTGGAT-TTTTCCAT
131 ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTCTGGATATTTT-CAG
* **
21293597 TATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTAAAATTCTGGTGTTGAAGTACGTGC
195 TATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGC
*
21293662 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAATG
260 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGG
21293727 TCTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAA
325 TCTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAA
* *
21293792 GATTTCTAAACTATTTTTTGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCT
390 GATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCC
21293857 TAAACTCTATTTAATTCTT-CTTCAATCTC-GCACAATATTTCTGAT-AGTGATGAACTGATTGT
455 TAAACTCTATTTAATT-TTACTTCAATC-CGGCACAATATTTCTGATAAG-GATGAACTGATTGT
* * *
21293919 AGCTTCCACGTAGCCTGGCATTTTTCACATCAATATCACAACAACTTTTTGTTTGCTTATAGATG
517 AGCTTCCACGTAGCCTGCCATTTTT--CA-C---AT-----CAACTCTTTGTTTGCTTATAAATG
* *
21293984 CCTTGTTGTTTAAGTTACCACAAATCTTGAATTTCTTGGTGTGCTTCCACGTGGTTATCTTATTT
571 CCTTGTTGTTTAAGTTACCACAAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTT
21294049 TGTCTTTATCCTTCTTG
636 TGTCTTTATCCTTCTTG
* *
21294066 GATGTTGTCTAGATTCAGTAACTCTATTTCATCTAAGTGTAATAAATCTGATGACAGTCTTGGTG
1 GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
* * * *
21294131 AATTCCAAGACTCCCACGTTTTTTC-GATTTCCTCTATTATTTCTAACGGAAAATCATCAATCTC
66 AATTCCAAGTCTCCCACG-TATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTC
*
21294195 TATATCAGCTATCTTTTATAACAGCTTCAGAGATTCTTCGTCTCTATCTTTCTGGATATTTTCAG
130 TATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTCTGGATATTTTCAG
* *
21294260 TATCATCAGCCACGATACTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGC
195 TATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGC
21294325 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTAT
260 TGAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTAT
21294383 AACACTTGTC
Statistics
Matches: 911, Mismatches: 51, Indels: 24
0.92 0.05 0.02
Matches are distributed among these distances:
651 49 0.05
652 457 0.50
653 3 0.00
654 2 0.00
655 1 0.00
658 2 0.00
663 388 0.43
664 9 0.01
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (652 bp):
GATGTTGTCTAGATTCATTAACTCTATTTCATCTAAGTGTAATGAATCTGATGACAGTCTTGGTG
AATTCCAAGTCTCCCACGTATTTCAGATTTCCTCTATTATTTTTAATGGAAAATCATCAATCTCT
ATATCAGCTATCTTTTTTAACAGCTTCAGAGATTCTTCGTCTCTATCTTTCTGGATATTTTCAGT
ATCATCAGCCACTATCCTTCTTCCATCAGTCCAAAGTTTATAATTCTAATGTTGAAGTACGTGCT
GAGCTGTTGTTATTAAATCAATTCCTGCTTGGATCTGATAATAATTAAAATTATTATTAAAAGGT
CTTTTAAATAATTTATTAATATATTTATTATTGACAAAGAGAGAATATTGAAAGTAAAAGAAAAG
ATTTCTAAACTATTTTTCGATGCCTTGTTTAGGCTTCATACATCGCTATTTATAGCAAAATTCCT
AAACTCTATTTAATTTTACTTCAATCCGGCACAATATTTCTGATAAGGATGAACTGATTGTAGCT
TCCACGTAGCCTGCCATTTTTCACATCAACTCTTTGTTTGCTTATAAATGCCTTGTTGTTTAAGT
TACCACAAATCTTGAATTTCTTGGTGTGCTTCCACGTGGCTAGCTTATTTTGTCTTTATCCTTCT
TG
Found at i:21305258 original size:12 final size:12
Alignment explanation
Indices: 21305241--21305270 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
21305231 GCCATACAAG
21305241 CGTGTGGTAGGC
1 CGTGTGGTAGGC
21305253 CGTGTGGTAGGC
1 CGTGTGGTAGGC
*
21305265 TGTGTG
1 CGTGTG
21305271 ACGATACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.13, G:0.50, T:0.30
Consensus pattern (12 bp):
CGTGTGGTAGGC
Found at i:21305373 original size:18 final size:18
Alignment explanation
Indices: 21305352--21305386 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21305342 CTGTGTGTGA
21305352 CACACAGGCATGTGGGCC
1 CACACAGGCATGTGGGCC
* *
21305370 CACACGGGCGTGTGGGC
1 CACACAGGCATGTGGGC
21305387 TTTTTGGGCC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.31, G:0.40, T:0.11
Consensus pattern (18 bp):
CACACAGGCATGTGGGCC
Found at i:21306742 original size:21 final size:22
Alignment explanation
Indices: 21306713--21306753 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
21306703 AAAATAAATT
**
21306713 AATAGATAAATTTATTATTTCA
1 AATAGATAAATAAATTATTTCA
21306735 AATA-ATAAATAAATTATTT
1 AATAGATAAATAAATTATTT
21306754 TCCTTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
AATAGATAAATAAATTATTTCA
Found at i:21306849 original size:12 final size:12
Alignment explanation
Indices: 21306768--21306830 Score: 63
Period size: 12 Copynumber: 5.1 Consensus size: 12
21306758 TTTAAATAAA
*
21306768 TTATTAACATAT
1 TTATTAATATAT
21306780 TTATTAATATAT
1 TTATTAATATAT
21306792 TTATTAATATTAT
1 TTATTAATA-TAT
* * * *
21306805 TCAATAAATAAAA
1 T-TATTAATATAT
21306818 TTATTAATATAT
1 TTATTAATATAT
21306830 T
1 T
21306831 AATATTTATT
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
12 28 0.70
13 6 0.15
14 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (12 bp):
TTATTAATATAT
Found at i:21307599 original size:12 final size:12
Alignment explanation
Indices: 21307567--21307614 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
21307557 ATAATTTTCC
*
21307567 ATATAATAATAA
1 ATATATTAATAA
*
21307579 ATAATATTAGTAA
1 AT-ATATTAATAA
21307592 ATATATTAATAA
1 ATATATTAATAA
*
21307604 GTATATCTAAT
1 ATATAT-TAAT
21307615 TGATTATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 16 0.53
13 14 0.47
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (12 bp):
ATATATTAATAA
Found at i:21311163 original size:102 final size:108
Alignment explanation
Indices: 21310920--21311181 Score: 347
Period size: 110 Copynumber: 2.4 Consensus size: 108
21310910 TTTTTTTTCA
* *
21310920 AATTTATATTAGTTACTAACAAAATAACTTTAAAATAAATTAAAAAAGTAATAAAAGATTACATT
1 AATTTATAATAATTACTAACAAAATAACTTTAAAATAAATT-AAAAAGTAATAAAAGATTACATT
*
21310985 AATAATCTAAAAAATAACAATAAACATTAAACTAAACAAACAATT
65 AATAACCTAAAAAATAACAATAAACATTAAACTAAAC-AACAATT
* * *
21311030 AACCTAATCACAAAAATTACTAACAAAATAACTTTAAAATAAATTAAAAA-TAA-AAAA-ATTAC
1 AA--T--TTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAAGTAATAAAAGATTAC
* * *
21311092 ATTCATAACCTAACAAATCACAATAAACATTAAACTAAAC-A-AATT
62 ATTAATAACCTAAAAAATAACAATAAACATTAAACTAAACAACAATT
21311137 -ATTTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAA
1 AATTTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAA
21311182 CAATATAAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 16
0.83 0.07 0.10
Matches are distributed among these distances:
102 40 0.29
104 1 0.01
106 1 0.01
107 4 0.03
108 1 0.01
110 43 0.32
111 4 0.03
112 4 0.03
113 5 0.04
114 33 0.24
ACGTcount: A:0.60, C:0.11, G:0.01, T:0.28
Consensus pattern (108 bp):
AATTTATAATAATTACTAACAAAATAACTTTAAAATAAATTAAAAAGTAATAAAAGATTACATTA
ATAACCTAAAAAATAACAATAAACATTAAACTAAACAACAATT
Found at i:21311226 original size:33 final size:35
Alignment explanation
Indices: 21311149--21311227 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
21311139 TTATAATAAT
**
21311149 TACTAACAAAATAACTTTAAAATAAATTAAAAACAA
1 TACTAACAAAATAACAATAAAATAAATT-AAAACAA
*
21311185 TA-T-A-AAAATAACAAT-AAATAAATT-ACACAA
1 TACTAACAAAATAACAATAAAATAAATTAAAACAA
21311215 TACTAACAAAATA
1 TACTAACAAAATA
21311228 GTTTATCCTT
Statistics
Matches: 37, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
30 7 0.19
31 1 0.03
32 10 0.27
33 15 0.41
34 1 0.03
35 1 0.03
36 2 0.05
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (35 bp):
TACTAACAAAATAACAATAAAATAAATTAAAACAA
Found at i:21311300 original size:22 final size:22
Alignment explanation
Indices: 21311275--21311320 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
21311265 AACAAAAATA
21311275 CCTTATCCTTCTTT-TTTCTTCT
1 CCTT-TCCTTCTTTCTTTCTTCT
*
21311297 CCTTTCTTTCTTTCTTTCTTCT
1 CCTTTCCTTCTTTCTTTCTTCT
21311319 CC
1 CC
21311321 CTCTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (22 bp):
CCTTTCCTTCTTTCTTTCTTCT
Found at i:21317797 original size:59 final size:58
Alignment explanation
Indices: 21317691--21317802 Score: 136
Period size: 59 Copynumber: 1.9 Consensus size: 58
21317681 ATTTTTATCA
* * * *
21317691 ATTTAATTCTAAATCTAAAAATTCAACAAATTTAATTCTCAATATTTAAAAAAAATTC
1 ATTTAATTCTAAATCAAAAAATTCAACAAATTTAATCCTAAACATTTAAAAAAAATTC
* * *
21317749 ATTTAATTCTAATTCAAAAAAGTTCAATAAATTT-ATCCCTAAACATTTATAAAA
1 ATTTAATTCTAAATCAAAAAA-TTCAACAAATTTAAT-CCTAAACATTTAAAAAA
21317803 TTCATCAATT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
58 21 0.47
59 24 0.53
ACGTcount: A:0.49, C:0.12, G:0.01, T:0.38
Consensus pattern (58 bp):
ATTTAATTCTAAATCAAAAAATTCAACAAATTTAATCCTAAACATTTAAAAAAAATTC
Found at i:21350996 original size:25 final size:25
Alignment explanation
Indices: 21350936--21350986 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
21350926 GTACTGATAG
21350936 TAGCAAATCAGGAAAGTAGGGGCTT
1 TAGCAAATCAGGAAAGTAGGGGCTT
21350961 TAGCAAATCAGGAAAGTAGGGGCTT
1 TAGCAAATCAGGAAAGTAGGGGCTT
21350986 T
1 T
21350987 CTTCATTCAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (25 bp):
TAGCAAATCAGGAAAGTAGGGGCTT
Found at i:21353542 original size:5 final size:5
Alignment explanation
Indices: 21353532--21353564 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
21353522 ATCATAATAT
*
21353532 TATAA TATAA TATAA CATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TAT
21353565 TGGCATGTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:21354375 original size:34 final size:35
Alignment explanation
Indices: 21354312--21354377 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
21354302 GTACAGCCAA
*
21354312 AACAGCTTTGGGCCTAAGCCCTTTCCAGTATAAGT
1 AACAGCTTTGGGCCTAAGCCCTCTCCAGTATAAGT
*
21354347 AACAG-TTTGGGCCTTAGCCCATCT-CAGTATA
1 AACAGCTTTGGGCCTAAGCCC-TCTCCAGTATA
21354378 GTATTAAGTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
34 21 0.75
35 7 0.25
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (35 bp):
AACAGCTTTGGGCCTAAGCCCTCTCCAGTATAAGT
Found at i:21355994 original size:44 final size:44
Alignment explanation
Indices: 21355894--21356159 Score: 288
Period size: 44 Copynumber: 6.0 Consensus size: 44
21355884 AGCTCGTACA
* ** * *
21355894 ATGCCAATGTCCCAGACATGGTCTTACGTGTAATCA-AATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACTATATCG
* *
21355937 ATGCCACTGTCCCAGACATGGTCTTACACGTAAATCACTA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCACTATATCG
* *
21355981 ATGCCAATATCCCAGAC-TCGGTCTTACACGAAATCAAGTATATCG
1 ATGCCAATGTCCCAGACGT-GGTCTTACACGAAATC-ACTATATCG
* * *
21356026 CTGCCAACGTCCCAAACGTGGTCTTACACGAAAATCACTA-ATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCACTATATCG
* * *
21356070 ATGCCAATATCCCAGACGCGGGCTTACACGAAATCACGTATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCAC-TATATCG
* *
21356115 CTGCCAACGTCCCAGACGTGGTCTTACACGAAAATCACATATATC
1 ATGCCAATGTCCCAGACGTGGTCTTACACG-AAATCAC-TATATC
21356160 ACTCTTTGAT
Statistics
Matches: 188, Mismatches: 25, Indels: 17
0.82 0.11 0.07
Matches are distributed among these distances:
43 40 0.21
44 68 0.36
45 61 0.32
46 19 0.10
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGAAATCACTATATCG
Found at i:21356061 original size:89 final size:89
Alignment explanation
Indices: 21355894--21356152 Score: 373
Period size: 89 Copynumber: 2.9 Consensus size: 89
21355884 AGCTCGTACA
* ** * * *
21355894 ATGCCAATGTCCCAGACAT-GGTCTTACGTGTAATCAA--ATATCGATGCC-ACTGTCCCAGACA
1 ATGCCAATATCCCAGAC-TCGGTCTTACACGAAATCAAGTATATCGCTGCCAAC-GTCCCAGACG
*
21355955 TGGTCTTACACGTAAATCACTAATCG
64 TGGTCTTACACGAAAATCACTAATCG
*
21355981 ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGCTGCCAACGTCCCAAACGTG
1 ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGCTGCCAACGTCCCAGACGTG
21356046 GTCTTACACGAAAATCACTAATCG
66 GTCTTACACGAAAATCACTAATCG
* * *
21356070 ATGCCAATATCCCAGACGCGGGCTTACACGAAATCACGTATATCGCTGCCAACGTCCCAGACGTG
1 ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGCTGCCAACGTCCCAGACGTG
21356135 GTCTTACACGAAAATCAC
66 GTCTTACACGAAAATCAC
21356153 ATATATCACT
Statistics
Matches: 156, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
86 1 0.01
87 31 0.20
89 122 0.78
90 2 0.01
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (89 bp):
ATGCCAATATCCCAGACTCGGTCTTACACGAAATCAAGTATATCGCTGCCAACGTCCCAGACGTG
GTCTTACACGAAAATCACTAATCG
Found at i:21361887 original size:23 final size:23
Alignment explanation
Indices: 21361857--21361900 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21361847 AATTAAATTG
21361857 ATAAATTT-TGTAAATGTTTAGGT
1 ATAAATTTAT-TAAATGTTTAGGT
*
21361880 ATAAATTTATTAAATTTTTAG
1 ATAAATTTATTAAATGTTTAG
21361901 AATTAGAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
ATAAATTTATTAAATGTTTAGGT
Found at i:21363092 original size:19 final size:19
Alignment explanation
Indices: 21363051--21363108 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 19
21363041 TTACAAAATT
*
21363051 ATTCAAAATAATTTTCAAAA
1 ATTCAAAATAATTTT-TAAA
21363071 ATTCAAAATAATTTTTAAA
1 ATTCAAAATAATTTTTAAA
*
21363090 ATTCAAAAT-ATTTATAAA
1 ATTCAAAATAATTTTTAAA
21363108 A
1 A
21363109 ATCCCAAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.25
19 12 0.33
20 15 0.42
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCAAAATAATTTTTAAA
Found at i:21363109 original size:19 final size:19
Alignment explanation
Indices: 21363051--21363110 Score: 86
Period size: 19 Copynumber: 3.1 Consensus size: 19
21363041 TTACAAAATT
21363051 ATTCAAAATAATTTTCAAAA
1 ATTCAAAATAATTTT-AAAA
*
21363071 ATTCAAAATAATTTTTAAA
1 ATTCAAAATAATTTTAAAA
21363090 ATTCAAAAT-ATTTATAAAA
1 ATTCAAAATAATTT-TAAAA
21363109 AT
1 AT
21363111 CCCAAAATTC
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 4 0.11
19 18 0.49
20 15 0.41
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (19 bp):
ATTCAAAATAATTTTAAAA
Found at i:21366082 original size:30 final size:30
Alignment explanation
Indices: 21366035--21366091 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
21366025 AACAAATTTT
21366035 AAATTTTGAATAATAGGGACTA-AATTGTGA
1 AAATTTTGAATAATAGGGA-TATAATTGTGA
*
21366065 AAATTTTGAA-ATTTAGGGATATAATTG
1 AAATTTTGAATA-ATAGGGATATAATTG
21366092 AAAATAGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
29 3 0.12
30 21 0.88
ACGTcount: A:0.42, C:0.02, G:0.19, T:0.37
Consensus pattern (30 bp):
AAATTTTGAATAATAGGGATATAATTGTGA
Found at i:21368605 original size:22 final size:22
Alignment explanation
Indices: 21368552--21368609 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
21368542 TAACACTCTT
* * *
21368552 AAAGGGCTTTCATATGTCCCAT
1 AAAGGGCTCTCATACGTCCCAC
*
21368574 ATAGGGCTCTCATACGTCCCAC
1 AAAGGGCTCTCATACGTCCCAC
*
21368596 AAAGGACTCTCATA
1 AAAGGGCTCTCATA
21368610 TACTGATGCG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (22 bp):
AAAGGGCTCTCATACGTCCCAC
Found at i:21369924 original size:18 final size:18
Alignment explanation
Indices: 21369901--21369964 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
21369891 GAACAATTAT
*
21369901 TTATTCAGTAATAGTCAG
1 TTATTCAGTAATAATCAG
* * *
21369919 TTATTCGGTAACAATCAA
1 TTATTCAGTAATAATCAG
* * *
21369937 ATATTCAATAATAACCAG
1 TTATTCAGTAATAATCAG
21369955 TTATTCAGTA
1 TTATTCAGTA
21369965 TCGATCAATT
Statistics
Matches: 34, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAATAATCAG
Found at i:21370044 original size:19 final size:18
Alignment explanation
Indices: 21369999--21370047 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
21369989 TAACAGTCAA
*
21369999 TTATTTAGTAA-AATCAG
1 TTATTTAGTAACAATAAG
* *
21370016 ATATTCAGTAACAATTAAG
1 TTATTTAGTAACAA-TAAG
21370035 TTATTTAGTAACA
1 TTATTTAGTAACA
21370048 GTCATTCATT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 9 0.36
18 2 0.08
19 14 0.56
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (18 bp):
TTATTTAGTAACAATAAG
Found at i:21370397 original size:45 final size:45
Alignment explanation
Indices: 21370249--21370397 Score: 228
Period size: 45 Copynumber: 3.3 Consensus size: 45
21370239 AACAGTAACA
* *
21370249 GTAACAGT-ATAGTAACAATATCCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
* * *
21370293 GTAACGGTAAAAGTAACAATATTCGACACACAAAGTGCCGAGTCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
21370338 ATAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
1 GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
*
21370383 GTAACAGTAGCAGTA
1 GTAACAGTAACAGTA
21370398 GCGGTAACAG
Statistics
Matches: 94, Mismatches: 10, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
44 7 0.07
45 87 0.93
ACGTcount: A:0.42, C:0.21, G:0.19, T:0.18
Consensus pattern (45 bp):
GTAACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCG
Found at i:21372000 original size:16 final size:16
Alignment explanation
Indices: 21371975--21372020 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
21371965 AAAGTATCTT
21371975 TATT-ATATAATAAAA
1 TATTAATATAATAAAA
*
21371990 TATTAATATAATAATA
1 TATTAATATAATAAAA
* *
21372006 TAATAATATACTAAA
1 TATTAATATAATAAA
21372021 CATAAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 4 0.15
16 22 0.85
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (16 bp):
TATTAATATAATAAAA
Found at i:21372006 original size:8 final size:8
Alignment explanation
Indices: 21371979--21372015 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
21371969 TATCTTTATT
21371979 ATATAATA
1 ATATAATA
* *
21371987 AAATATTA
1 ATATAATA
21371995 ATATAATA
1 ATATAATA
21372003 ATATAATA
1 ATATAATA
21372011 ATATA
1 ATATA
21372016 CTAAACATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 25 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:21383117 original size:26 final size:28
Alignment explanation
Indices: 21383070--21383121 Score: 72
Period size: 26 Copynumber: 1.9 Consensus size: 28
21383060 TTACTAAGTG
*
21383070 ATTTTTGATAAAAATATTTAAAAATGAC
1 ATTTTTGATAAAAATATATAAAAATGAC
*
21383098 ATTTTTG-TAAAACT-TATAAAAATG
1 ATTTTTGATAAAAATATATAAAAATG
21383122 GGTAGTAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 9 0.41
27 6 0.27
28 7 0.32
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (28 bp):
ATTTTTGATAAAAATATATAAAAATGAC
Found at i:21385788 original size:63 final size:63
Alignment explanation
Indices: 21385713--21385895 Score: 181
Period size: 63 Copynumber: 2.8 Consensus size: 63
21385703 AGACATTATG
* * *
21385713 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCACGTGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAA
* * * * * *
21385776 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT-GACAAGAGAGCTACGAGAT
21385841 AA
62 AA
* * * *
21385843 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTGTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTG-ACAAGAGAGC
21385896 CGAACTATAT
Statistics
Matches: 96, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 39 0.41
64 5 0.05
65 6 0.06
66 23 0.24
67 20 0.21
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (63 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTGACAAGAGAGCTACGAGATAA
Found at i:21385873 original size:66 final size:65
Alignment explanation
Indices: 21385746--21385873 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 65
21385736 TACTATGTGT
* * * *
21385746 ACACCACGTGACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAG
1 ACACCACGTGACAAGAGAGCTACGAGATAAATG-AGCTAGGTCACATGCGTGGTACCAAGTGAAG
21385811 G
65 G
* * *
21385812 ACACCATGTAGACAAGAGAGCTACGAGATAAACTG-GCTAGGTCACATGGGTGGTACTAAGTG
1 ACACCACGT-GACAAGAGAGCTACGAGATAAA-TGAGCTAGGTCACATGCGTGGTACCAAGTG
21385874 TTCACCATGT
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
66 31 0.58
67 20 0.38
68 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.30, T:0.20
Consensus pattern (65 bp):
ACACCACGTGACAAGAGAGCTACGAGATAAATGAGCTAGGTCACATGCGTGGTACCAAGTGAAGG
Found at i:21396149 original size:54 final size:54
Alignment explanation
Indices: 21396086--21396318 Score: 234
Period size: 54 Copynumber: 4.1 Consensus size: 54
21396076 AGTATCATAT
*
21396086 ATTATGATTTGAGTAAATTCATATAAAAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
*
21396140 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * * *
21396194 ATTATATATTTTAATTATAATAT-ATTTAATAATAATTATGTTAATTTATATTTTATAGTATCAT
1 ATTAT-GA-TTTGAGTA-AAT-TCATATAAGAAT-ATTA-ATT-ATTAAGAATTT-TA-T-T-A-
21396258 A
54 A
*
21396259 TATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
21396314 ATTAT
1 ATTAT
21396319 ATATTTTAAT
Statistics
Matches: 143, Mismatches: 22, Indels: 28
0.74 0.11 0.15
Matches are distributed among these distances:
54 62 0.43
55 2 0.01
56 7 0.05
57 12 0.08
58 5 0.03
59 4 0.03
60 16 0.11
61 4 0.03
62 5 0.03
63 12 0.08
64 7 0.05
65 2 0.01
66 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.48
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:21396186 original size:28 final size:27
Alignment explanation
Indices: 21396101--21396186 Score: 63
Period size: 28 Copynumber: 3.1 Consensus size: 27
21396091 GATTTGAGTA
*
21396101 AATTCATATAAAAATATTAATTATTAAG
1 AATTCATAT-AAAATATTGATTATTAAG
* * *
21396129 AATT-TTATTAAAT-TATGA-T-TTGAG
1 AATTCATATAAAATAT-TGATTATTAAG
21396153 TAAATTCATATAAGAATATTGATTATTAAG
1 --AATTCATATAA-AATATTGATTATTAAG
21396183 AATT
1 AATT
21396187 TTATTAAATT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
24 4 0.09
25 2 0.05
26 10 0.23
27 7 0.16
28 14 0.33
29 2 0.05
30 4 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (27 bp):
AATTCATATAAAATATTGATTATTAAG
Found at i:21396223 original size:15 final size:15
Alignment explanation
Indices: 21396188--21396239 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
21396178 TTAAGAATTT
*
21396188 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21396202 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21396216 TATTTAATAATAAT-
1 TATTTAATTATAATA
21396230 TATGTTAATT
1 TAT-TTAATT
21396240 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:21396265 original size:120 final size:120
Alignment explanation
Indices: 21396140--21396355 Score: 432
Period size: 120 Copynumber: 1.8 Consensus size: 120
21396130 ATTTTATTAA
21396140 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
21396205 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
66 TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
21396260 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
1 ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
21396325 TAATTATAATATATTTAATAATAATTATGTT
66 TAATTATAATATATTTAATAATAATTATGTT
21396356 TAAATATGAT
Statistics
Matches: 96, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 96 1.00
ACGTcount: A:0.42, C:0.01, G:0.07, T:0.50
Consensus pattern (120 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTT
TAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATAT
Done.