Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D06
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: 62964862
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 132689 characters in sequence are not A, C, G, or T
File 73 of 207
Found at i:21174519 original size:51 final size:52
Alignment explanation
Indices: 21174457--21174563 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 52
21174447 TTATAAAACT
* * *
21174457 TATATATATATAAAATACA-TAATGCATTTATGAAAACAAGGAAA-ATATAAA
1 TATATACATATAAAATACATTAATGCATTTA-CAAAAAAAGGAAATATATAAA
* * *
21174508 TATATACATATAAAATATATTCATGCATTTACAAAAAAATGAAATATATAAA
1 TATATACATATAAAATACATTAATGCATTTACAAAAAAAGGAAATATATAAA
21174560 TATA
1 TATA
21174564 ATATAAAACG
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
51 27 0.56
52 21 0.44
ACGTcount: A:0.56, C:0.07, G:0.06, T:0.32
Consensus pattern (52 bp):
TATATACATATAAAATACATTAATGCATTTACAAAAAAAGGAAATATATAAA
Found at i:21174838 original size:3 final size:3
Alignment explanation
Indices: 21174830--21174869 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
21174820 ATATGTAGGT
*
21174830 ATA ATA ATA ATA TATA AT- ATA ATA ATA AAA ATA ATA ATA A
1 ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21174870 CAAAATTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21174853 original size:15 final size:12
Alignment explanation
Indices: 21174832--21174883 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
21174822 ATGTAGGTAT
21174832 AATAATAATATATA
1 AATAATAATA-A-A
21174846 ATATAATAATAAA
1 A-ATAATAATAAA
21174859 AATAATAATAACA
1 AATAATAATAA-A
*
21174872 AA-ATTAATAAA
1 AATAATAATAAA
21174883 A
1 A
21174884 TAGACTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
11 2 0.06
12 17 0.49
13 5 0.14
14 2 0.06
15 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (12 bp):
AATAATAATAAA
Found at i:21175271 original size:21 final size:21
Alignment explanation
Indices: 21175234--21175316 Score: 93
Period size: 21 Copynumber: 4.1 Consensus size: 21
21175224 ATTCTAAAAT
*
21175234 TATATC-T-TCTAAGATTGTA
1 TATATCATATCTAAAATTGTA
*
21175253 TATATCATATCTAAAATTGCA
1 TATATCATATCTAAAATTGTA
*
21175274 TATATCATATCTAAGATTG--
1 TATATCATATCTAAAATTGTA
* *
21175293 CATATCTTATCTAAAATTGTA
1 TATATCATATCTAAAATTGTA
21175314 TAT
1 TAT
21175317 CCTCGAAAAT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
19 22 0.42
20 1 0.02
21 30 0.57
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.43
Consensus pattern (21 bp):
TATATCATATCTAAAATTGTA
Found at i:21175317 original size:19 final size:19
Alignment explanation
Indices: 21175253--21175317 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
21175243 TAAGATTGTA
21175253 TATATCATATCTAAAATTG
1 TATATCATATCTAAAATTG
*
21175272 CATATATCATATCTAAGATTG
1 --TATATCATATCTAAAATTG
* *
21175293 CATATCTTATCTAAAATTG
1 TATATCATATCTAAAATTG
21175312 TATATC
1 TATATC
21175318 CTCGAAAATG
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
19 21 0.54
21 18 0.46
ACGTcount: A:0.38, C:0.14, G:0.06, T:0.42
Consensus pattern (19 bp):
TATATCATATCTAAAATTG
Found at i:21180333 original size:11 final size:9
Alignment explanation
Indices: 21180310--21180335 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21180300 AATTAATTTT
21180310 GAGAGAATG
1 GAGAGAATG
21180319 GAGAGAATG
1 GAGAGAATG
21180328 GAGAGAAT
1 GAGAGAAT
21180336 TGAATTTGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.42, T:0.12
Consensus pattern (9 bp):
GAGAGAATG
Found at i:21181070 original size:21 final size:21
Alignment explanation
Indices: 21180999--21181072 Score: 96
Period size: 21 Copynumber: 3.6 Consensus size: 21
21180989 AAATTGAAAA
* *
21180999 TCAATTTGA-TTTGATTGTAT
1 TCAAATTGATTTTGATTTTAT
* *
21181019 TCAAATTTATTTTTATTTTAT
1 TCAAATTGATTTTGATTTTAT
21181040 TCAAATTGATTTTGATTTTAT
1 TCAAATTGATTTTGATTTTAT
*
21181061 TCAAACTGATTT
1 TCAAATTGATTT
21181073 AAAGGTTCCT
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
20 7 0.15
21 39 0.85
ACGTcount: A:0.28, C:0.07, G:0.08, T:0.57
Consensus pattern (21 bp):
TCAAATTGATTTTGATTTTAT
Found at i:21181828 original size:25 final size:24
Alignment explanation
Indices: 21181782--21181829 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21181772 AAATTTTGAT
* *
21181782 TTTTTTTATAAATAAATTTAATAG
1 TTTTTTTAAAAATAAATATAATAG
21181806 TTTTTTTAAAAATAAATAATAATA
1 TTTTTTTAAAAATAAAT-ATAATA
21181830 ATCAATAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
TTTTTTTAAAAATAAATATAATAG
Found at i:21183457 original size:17 final size:17
Alignment explanation
Indices: 21183435--21183468 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
21183425 CTCCAAAGTC
*
21183435 TCTATTTATAGGTATAA
1 TCTATTTATAGGCATAA
21183452 TCTATTTATAGGCATAA
1 TCTATTTATAGGCATAA
21183469 GAAGTATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (17 bp):
TCTATTTATAGGCATAA
Found at i:21200969 original size:2 final size:2
Alignment explanation
Indices: 21200962--21200991 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21200952 AAAATAAACA
21200962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21200992 GGGTATGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21201353 original size:36 final size:34
Alignment explanation
Indices: 21201307--21201396 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
21201297 TTATATATGC
* *
21201307 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
21201343 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
21201379 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
21201397 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:21202756 original size:14 final size:15
Alignment explanation
Indices: 21202738--21202784 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
21202728 CAAGGCTGGT
21202738 TTAGGCTAGTTGGGC
1 TTAGGCTAGTTGGGC
*
21202753 -TAGGGT-GTTGGGC
1 TTAGGCTAGTTGGGC
* *
21202766 TTAGGCTAATTGGGT
1 TTAGGCTAGTTGGGC
21202781 TTAG
1 TTAG
21202785 TTTACTAGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.27
14 10 0.38
15 9 0.35
ACGTcount: A:0.15, C:0.09, G:0.40, T:0.36
Consensus pattern (15 bp):
TTAGGCTAGTTGGGC
Found at i:21203609 original size:86 final size:87
Alignment explanation
Indices: 21203435--21203609 Score: 210
Period size: 86 Copynumber: 2.0 Consensus size: 87
21203425 AGCTATTCCA
** * **
21203435 AGTCTTAATGCTAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTACTCTGCTGCAATGCCAA
1 AGTCTTAACACTAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTACTCCGCTGCAACACCAA
** * *
21203500 GTAAGTAAGACTAATTACTTTT
66 GTAAACAAGACTAACTACCTTT
*
21203522 AGTCTTAACACTA-GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGCTGCAACACC-A
1 AGTCTTAACACTAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTACTCCGCTGCAACACCAA
* **
21203585 GTGAAACAAGATTCGCTACCTTT
66 GT-AAACAAGACTAACTACCTTT
21203608 AG
1 AG
21203610 CTTTAATCTG
Statistics
Matches: 74, Mismatches: 13, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
85 3 0.04
86 60 0.81
87 11 0.15
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (87 bp):
AGTCTTAACACTAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTACTCCGCTGCAACACCAA
GTAAACAAGACTAACTACCTTT
Found at i:21205173 original size:65 final size:65
Alignment explanation
Indices: 21205049--21205180 Score: 189
Period size: 65 Copynumber: 2.0 Consensus size: 65
21205039 CTCTCTATTT
* *
21205049 TCTTTTCTTTTCTTATTTTTTATTTTTTTTGGATTCAAAGCGCCCTTTGAGGGTTTTCACCTTGG
1 TCTTTTCTTTTCTTATTTTTTATTTTTTTTGGAATCAAAGCGCCCTTTGACGGTTTTCACCTTGG
*
21205114 TCTTTT-TTTTGTT-TTTTTCTATCTTTTTTTAGGAATCAAAGCGCCCTTTG-CGGTTTTCACCT
1 TCTTTTCTTTTCTTATTTTT-TAT-TTTTTTT-GGAATCAAAGCGCCCTTTGACGGTTTTCACCT
21205176 TGG
63 TGG
21205179 TC
1 TC
21205181 CCTTCTCATT
Statistics
Matches: 61, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
63 5 0.08
64 9 0.15
65 29 0.48
66 18 0.30
ACGTcount: A:0.12, C:0.18, G:0.15, T:0.55
Consensus pattern (65 bp):
TCTTTTCTTTTCTTATTTTTTATTTTTTTTGGAATCAAAGCGCCCTTTGACGGTTTTCACCTTGG
Found at i:21206082 original size:30 final size:29
Alignment explanation
Indices: 21206035--21206111 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
21206025 CTCCTTTTCC
*
21206035 TTTTCTTTTTCTT-TTTTC-TTTTTTCATCAT
1 TTTTATTTTT-TTATTTTCATTTTTT--TCAT
*
21206065 TTTTATTTTTTTATTTTCATTTTTTTGAT
1 TTTTATTTTTTTATTTTCATTTTTTTCAT
*
21206094 TTTGATTTTTTTTATTTT
1 TTTTA-TTTTTTTATTTT
21206112 TGATTTTGAT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
29 9 0.22
30 26 0.63
31 6 0.15
ACGTcount: A:0.10, C:0.08, G:0.03, T:0.79
Consensus pattern (29 bp):
TTTTATTTTTTTATTTTCATTTTTTTCAT
Found at i:21206086 original size:14 final size:14
Alignment explanation
Indices: 21206063--21206111 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
21206053 TTTTTTCATC
*
21206063 ATTTTTATTTTTTT
1 ATTTTCATTTTTTT
21206077 ATTTTCATTTTTTT
1 ATTTTCATTTTTTT
*
21206091 GATTTTGATTTTTTTT
1 -ATTTTCA-TTTTTTT
21206107 ATTTT
1 ATTTT
21206112 TGATTTTGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 13 0.42
15 11 0.35
16 7 0.23
ACGTcount: A:0.14, C:0.02, G:0.04, T:0.80
Consensus pattern (14 bp):
ATTTTCATTTTTTT
Found at i:21206096 original size:23 final size:24
Alignment explanation
Indices: 21206040--21206084 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
21206030 TTTCCTTTTC
* *
21206040 TTTTTCTTTTTTCTTTTTTCATCA
1 TTTTTATTTTTTCTATTTTCATCA
21206064 TTTTTATTTTTT-TATTTTCAT
1 TTTTTATTTTTTCTATTTTCAT
21206085 TTTTTTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.78
Consensus pattern (24 bp):
TTTTTATTTTTTCTATTTTCATCA
Found at i:21206103 original size:22 final size:22
Alignment explanation
Indices: 21206072--21206125 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
21206062 CATTTTTATT
* *
21206072 TTTTTATTTTCATT-TTTTTGA
1 TTTTGATTTTTATTATTTTTGA
*
21206093 TTTTGATTTTTTTTATTTTTGA
1 TTTTGATTTTTATTATTTTTGA
21206115 TTTTGATTTTT
1 TTTTGATTTTT
21206126 TTTGATTGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.13, C:0.02, G:0.07, T:0.78
Consensus pattern (22 bp):
TTTTGATTTTTATTATTTTTGA
Found at i:21206112 original size:16 final size:15
Alignment explanation
Indices: 21206070--21206132 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
21206060 ATCATTTTTA
*
21206070 TTTTTTTATTTTCAT
1 TTTTTTTATTTTGAT
*
21206085 TTTTTTGATTTTGAT
1 TTTTTTTATTTTGAT
21206100 TTTTTTTATTTTTGAT
1 TTTTTTTA-TTTTGAT
21206116 TTTGATTTT-TTTTGAT
1 TTT--TTTTATTTTGAT
21206132 T
1 T
21206133 GAATCTTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
15 20 0.48
16 18 0.43
18 4 0.10
ACGTcount: A:0.13, C:0.02, G:0.08, T:0.78
Consensus pattern (15 bp):
TTTTTTTATTTTGAT
Found at i:21206126 original size:22 final size:22
Alignment explanation
Indices: 21206086--21206128 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
21206076 TATTTTCATT
21206086 TTTTTGATTTTGATTTTTTTTA
1 TTTTTGATTTTGATTTTTTTTA
21206108 TTTTTGATTTTGATTTTTTTT
1 TTTTTGATTTTGATTTTTTTT
21206129 GATTGAATCT
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:0.12, C:0.00, G:0.09, T:0.79
Consensus pattern (22 bp):
TTTTTGATTTTGATTTTTTTTA
Found at i:21210681 original size:36 final size:34
Alignment explanation
Indices: 21210635--21210724 Score: 126
Period size: 36 Copynumber: 2.5 Consensus size: 34
21210625 TTATATATGC
* *
21210635 ATATGTGTATAAAAAATAGTTTAATATAAATTGTAT
1 ATATATGTATAAAAAATAGTTTAATACAAA-T-TAT
21210671 ATATATGTATAATAAAAATAGTTTAATACAAATTAT
1 ATATATGTAT-A-AAAAATAGTTTAATACAAATTAT
21210707 ATATATGTATAAAAAATA
1 ATATATGTATAAAAAATA
21210725 TTATGTAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
34 7 0.14
35 1 0.02
36 22 0.44
37 2 0.04
38 18 0.36
ACGTcount: A:0.52, C:0.01, G:0.08, T:0.39
Consensus pattern (34 bp):
ATATATGTATAAAAAATAGTTTAATACAAATTAT
Found at i:21212424 original size:25 final size:25
Alignment explanation
Indices: 21212375--21212454 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
21212365 GTCATTAGGG
* * *
21212375 TTACCGATTCT-ATCTCTTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
21212399 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGATACTCAGCTCGTATGAGC
* ** * *
21212424 TTACCGTTGTTCAGCTCGGAGGAGC
1 TTACCGATACTCAGCTCGTATGAGC
21212449 TTACCG
1 TTACCG
21212455 TTTATCTCTC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 10 0.21
25 37 0.79
ACGTcount: A:0.20, C:0.26, G:0.21, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAGCTCGTATGAGC
Found at i:21213639 original size:12 final size:12
Alignment explanation
Indices: 21213620--21213650 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
21213610 CTCCAGTTTT
21213620 CACACGGCCTAG
1 CACACGGCCTAG
*
21213632 CGCACGGCCTAG
1 CACACGGCCTAG
21213644 CACACGG
1 CACACGG
21213651 GCATGTGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.42, G:0.29, T:0.06
Consensus pattern (12 bp):
CACACGGCCTAG
Found at i:21219600 original size:34 final size:36
Alignment explanation
Indices: 21219510--21219609 Score: 114
Period size: 40 Copynumber: 2.7 Consensus size: 36
21219500 CTGACAGAAG
*
21219510 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAA
1 TTGCGCCCAGCGCTAGTTGGATAAACCAAC-AAAT-AA
* *
21219548 TAGTGAGCCCAGCTCTAGTTGGATAAACCAAC-AAT-A
1 T--TGCGCCCAGCGCTAGTTGGATAAACCAACAAATAA
*
21219584 TTGCGCCCAGCGCTAGTTGTATAAAC
1 TTGCGCCCAGCGCTAGTTGGATAAAC
21219610 TGACGAATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
34 22 0.41
36 2 0.04
38 4 0.07
40 26 0.48
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (36 bp):
TTGCGCCCAGCGCTAGTTGGATAAACCAACAAATAA
Found at i:21219600 original size:74 final size:73
Alignment explanation
Indices: 21219510--21219729 Score: 211
Period size: 74 Copynumber: 3.0 Consensus size: 73
21219500 CTGACAGAAG
21219510 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTGGATAAA
1 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCA-CTCTAGTTGGATAAA
21219575 CCAACAATA
65 CCAACAATA
* * * * *
21219584 TTGCGCCCAGCGCTAGTTGTATAAACTGACG-----AAT-GTGTGCCCAACAACTAGTTAGATAA
1 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCC-AC-TCTAGTTGGATAA
*** *
21219643 ATTGACGGAA-G
64 ACCAAC--AATA
* ** *
21219654 TTGCACCCAATGCTAGTCGGATAAACCGACGAAATAAATAGTGAGCCCCACTCTAGTTGGATAAA
1 TTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAG-CCCACTCTAGTTGGATAAA
*
21219719 CCAACGATA
65 CCAACAATA
21219728 TT
1 TT
21219730 TGTAATTATT
Statistics
Matches: 111, Mismatches: 23, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
68 8 0.07
69 18 0.16
70 25 0.23
71 2 0.02
73 1 0.01
74 31 0.28
75 17 0.15
76 6 0.05
77 3 0.03
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (73 bp):
TTGCGCCCAGCGCTAGTTGGATAAACCGACGAAATAAATAGTGAGCCCACTCTAGTTGGATAAAC
CAACAATA
Found at i:21219626 original size:34 final size:34
Alignment explanation
Indices: 21219460--21219686 Score: 118
Period size: 35 Copynumber: 6.4 Consensus size: 34
21219450 GTGCTAGTCA
* * * * **
21219460 GATAAACCGATGAATGTGTGCTCAGCACTAGTCA
1 GATAAACCGACGAATGTGCGCCCAGCGCTAGTTG
*
21219494 GATAAACTGACAGAA-GTTGCGCCCAGCGCTAGTTG
1 GATAAACCGAC-GAATG-TGCGCCCAGCGCTAGTTG
* *
21219529 GATAAACCGACGAAATAAATAGTGAGCCCAGCTCTAGTTG
1 GATAAACCGACG-----AAT-GTGCGCCCAGCGCTAGTTG
* *
21219569 GATAAACCAAC-AATATTGCGCCCAGCGCTAGTTG
1 GATAAACCGACGAAT-GTGCGCCCAGCGCTAGTTG
* * * * * *
21219603 TATAAACTGACGAATGTGTGCCCAACAACTAGTTA
1 GATAAACCGACGAATGTGCGCCCAGC-GCTAGTTG
** * ** *
21219638 GATAAATTGACGGAA-GTTGCACCCAATGCTAGTCG
1 GATAAACCGAC-GAATG-TGCGCCCAGCGCTAGTTG
21219673 GATAAACCGACGAA
1 GATAAACCGACGAA
21219687 ATAAATAGTG
Statistics
Matches: 148, Mismatches: 32, Indels: 26
0.72 0.16 0.13
Matches are distributed among these distances:
34 50 0.34
35 59 0.40
36 10 0.07
39 2 0.01
40 26 0.18
41 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (34 bp):
GATAAACCGACGAATGTGCGCCCAGCGCTAGTTG
Found at i:21219676 original size:144 final size:143
Alignment explanation
Indices: 21219461--21219729 Score: 405
Period size: 144 Copynumber: 1.9 Consensus size: 143
21219451 TGCTAGTCAG
* * * * *
21219461 ATAAACCGATGAATGTGTGCTCAGCACTAGTCAGATAAACTGACAGAAGTTGCGCCCAGCGCTAG
1 ATAAACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTAG
*
21219526 TTGGATAAACCGACGAAATAAATAGTGAG-CCCAGCTCTAGTTGGATAAACCAACAATATTGCGC
66 TCGGATAAACCGACGAAATAAATAGTGAGCCCCA-CTCTAGTTGGATAAACCAACAATATTGCGC
21219590 CCAGCGCTAGTTGT
130 CCAGCGCTAGTTGT
* * * * *
21219604 ATAAACTGACGAATGTGTGCCCAACAACTAGTTAGATAAATTGACGGAAGTTGCACCCAATGCTA
1 ATAAACCGACGAATGTGTGCCCAAC-ACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTA
*
21219669 GTCGGATAAACCGACGAAATAAATAGTGAGCCCCACTCTAGTTGGATAAACCAACGATATT
65 GTCGGATAAACCGACGAAATAAATAGTGAGCCCCACTCTAGTTGGATAAACCAACAATATT
21219730 TGTAATTATT
Statistics
Matches: 112, Mismatches: 12, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
143 21 0.19
144 87 0.78
145 4 0.04
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (143 bp):
ATAAACCGACGAATGTGTGCCCAACACTAGTCAGATAAACTGACAGAAGTTGCACCCAACGCTAG
TCGGATAAACCGACGAAATAAATAGTGAGCCCCACTCTAGTTGGATAAACCAACAATATTGCGCC
CAGCGCTAGTTGT
Found at i:21222814 original size:53 final size:53
Alignment explanation
Indices: 21222734--21222836 Score: 197
Period size: 53 Copynumber: 1.9 Consensus size: 53
21222724 GCGTGTTATC
*
21222734 AGTTGGATTAAATCTTATGAGCATTTGGCGTGTTATCGGGTGGATTAGCTATT
1 AGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGCTATT
21222787 AGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGCT
1 AGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGCT
21222837 CTTGTGAGCG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.23, C:0.10, G:0.28, T:0.39
Consensus pattern (53 bp):
AGTTGGATTAAATCTTATAAGCATTTGGCGTGTTATCGGGTGGATTAGCTATT
Found at i:21225617 original size:41 final size:41
Alignment explanation
Indices: 21225571--21225654 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
21225561 TTTTAAATAT
21225571 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
1 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
*
21225612 TTTTAAATTTAAATTTTCTTATTTGTTTTGGATTTTTTGAA
1 TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
21225653 TT
1 TT
21225655 ATGAATTGTT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.25, C:0.01, G:0.10, T:0.64
Consensus pattern (41 bp):
TTTTAAATTTAAATTTTATTATTTGTTTTGGATTTTTTGAA
Found at i:21226062 original size:3 final size:3
Alignment explanation
Indices: 21226049--21226129 Score: 153
Period size: 3 Copynumber: 27.0 Consensus size: 3
21226039 CAATCTAGCT
*
21226049 GAA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21226097 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
21226130 TGAGGAGAAG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:21226449 original size:41 final size:39
Alignment explanation
Indices: 21226363--21226462 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 39
21226353 TACTTATTAA
* **
21226363 TAATTATTGTTAT-TTAG-TATTATTATTAGTAAAAAAC
1 TAATTATTATTATGTTAGTTATTAGGATTAGTAAAAAAC
*
21226400 TAATATTATTATTATGGTTAGTTATTAGGATTAGTAAAAACCC
1 T-A-ATTATTATTAT-GTTAGTTATTAGGATTAGTAAAAA-AC
*
21226443 TAATTATTATTTTAGTTAGT
1 TAATTATTATTAT-GTTAGT
21226463 ATGATTGTTA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
37 1 0.02
38 1 0.02
39 10 0.20
41 20 0.39
42 17 0.33
43 2 0.04
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (39 bp):
TAATTATTATTATGTTAGTTATTAGGATTAGTAAAAAAC
Found at i:21226565 original size:76 final size:77
Alignment explanation
Indices: 21226359--21226571 Score: 209
Period size: 76 Copynumber: 2.7 Consensus size: 77
21226349 GGTTTACTTA
* *
21226359 TTAATAATTATTGTTATTTAGTATTATTATTAGTAAAAAACTAATATTATTATTATGGTTAGTTA
1 TTAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTA
21226424 TTAGGATTAGTAAAAACC
60 TTAGGATTAGTAAAAACC
* * * *** * * **
21226442 CTAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATT
1 TTAATTATTATTGTTAGTTAGTATTATTATTAG-TAAAAAACTATTATTATTGTTAGTTATTAGG
*
21226505 TTTAGT-AAAACC
65 ATTAGTAAAAACC
21226517 TTAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TTAATTATTATTGTTAGTTAGTATTATTATT-AGTAAAAAACTATTATTATTGTTA
21226572 TTGTGTTAGT
Statistics
Matches: 106, Mismatches: 20, Indels: 15
0.75 0.14 0.11
Matches are distributed among these distances:
75 24 0.23
76 43 0.41
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 17 0.16
83 13 0.12
ACGTcount: A:0.35, C:0.04, G:0.11, T:0.51
Consensus pattern (77 bp):
TTAATTATTATTGTTAGTTAGTATTATTATTAGTAAAAAACTATTATTATTGTTAGTTATTAGGA
TTAGTAAAAACC
Found at i:21230052 original size:2 final size:2
Alignment explanation
Indices: 21230045--21230088 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
21230035 GTTTTAGAAA
21230045 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG -G
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21230086 AG A
1 AG A
21230089 TTTTGCTATG
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21230785 original size:58 final size:58
Alignment explanation
Indices: 21230714--21230824 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 58
21230704 TGATAGCCAC
* *
21230714 ATTGAGTCTAATTAAATCTAGAGTCGAGCTGGATAGGCCCTTAACAGGAGCAAGCCCT
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
*
21230772 ATTGAGTCGAATTAAATCTAGAGTCGAGTTGGATAGGCCCTAAACAGGAGCAA
1 ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAA
21230825 ACTCTCATAT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
58 50 1.00
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (58 bp):
ATTGAGTCGAATTAAATCTAGAGTCGAGCTGGATAGGCCCTAAACAGGAGCAAGCCCT
Found at i:21232954 original size:23 final size:23
Alignment explanation
Indices: 21232928--21232975 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
21232918 CTTTTTCACT
21232928 ATGCCAGCTTCTCTTGTCTAGCA
1 ATGCCAGCTTCTCTTGTCTAGCA
21232951 ATGCCAGCTTCTCTTGTCTAGCA
1 ATGCCAGCTTCTCTTGTCTAGCA
21232974 AT
1 AT
21232976 TTGTTCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (23 bp):
ATGCCAGCTTCTCTTGTCTAGCA
Found at i:21239988 original size:30 final size:30
Alignment explanation
Indices: 21239954--21240050 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
21239944 AGCTCACTCC
21239954 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
21239984 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
21240014 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
21240044 TAGCTCA
1 TAGCTCA
21240051 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:21241684 original size:12 final size:12
Alignment explanation
Indices: 21241669--21241693 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21241659 AAAAAGGAAG
21241669 TCAAAAAAAAAA
1 TCAAAAAAAAAA
21241681 TCAAAAAAAAAA
1 TCAAAAAAAAAA
21241693 T
1 T
21241694 TTTGAGTTGG
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:0.80, C:0.08, G:0.00, T:0.12
Consensus pattern (12 bp):
TCAAAAAAAAAA
Found at i:21241798 original size:13 final size:14
Alignment explanation
Indices: 21241772--21241802 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21241762 AAGAGAGAAG
21241772 AAATTCAGAAAAAA
1 AAATTCAGAAAAAA
21241786 AAATTCA-AAAAAA
1 AAATTCAGAAAAAA
21241799 AAAT
1 AAAT
21241803 CGAGTTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.74, C:0.06, G:0.03, T:0.16
Consensus pattern (14 bp):
AAATTCAGAAAAAA
Found at i:21242762 original size:37 final size:37
Alignment explanation
Indices: 21242711--21242781 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
21242701 CATTCTTGTA
21242711 AAGAGAAAACAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAACAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
21242748 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AACAAAGAAAATGAAAGAAAAAGAAAA
21242782 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (37 bp):
AAGAGAAAACAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:21242781 original size:6 final size:6
Alignment explanation
Indices: 21242721--21242770 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
21242711 AAGAGAAAAC
*
21242721 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
21242770 A
1 A
21242771 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:21242862 original size:11 final size:12
Alignment explanation
Indices: 21242831--21242861 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
21242821 TTGAGAGAAC
21242831 TTGAAAAAGCCT
1 TTGAAAAAGCCT
21242843 TTGAAAAAGCCT
1 TTGAAAAAGCCT
21242855 TTGAAAA
1 TTGAAAA
21242862 GAAAAATGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:21242890 original size:30 final size:30
Alignment explanation
Indices: 21242856--21242926 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
21242846 AAAAAGCCTT
21242856 TGAAAAGAAAAATGAAAATGAAAAAGGAA-A
1 TGAAAAGAAAAATGAAAATGAAAAA-GAAGA
** * *
21242886 TGAAAAGAAATTTGAGAGTGAAAAAGAAGA
1 TGAAAAGAAAAATGAAAATGAAAAAGAAGA
21242916 TGAAAAAGAAA
1 TG-AAAAGAAA
21242927 TTGAAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.09
30 24 0.69
31 8 0.23
ACGTcount: A:0.65, C:0.00, G:0.23, T:0.13
Consensus pattern (30 bp):
TGAAAAGAAAAATGAAAATGAAAAAGAAGA
Found at i:21245038 original size:30 final size:30
Alignment explanation
Indices: 21245004--21245100 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
21244994 AGCTCACTCC
21245004 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
21245034 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
21245064 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
21245094 TAGCTCA
1 TAGCTCA
21245101 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:21249824 original size:32 final size:32
Alignment explanation
Indices: 21249773--21249969 Score: 209
Period size: 32 Copynumber: 6.2 Consensus size: 32
21249763 GAATGGCTAC
* * *
21249773 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* ***
21249804 AAGCCATCAGTAGTAGTAATATGATCAATACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * * *
21249836 CAGCCATCAGTAATAGTAGTATGATTGGTACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* * *
21249868 AAGCCCTCAATAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
21249900 CAA-CCATCAGTAATGGTAATATGATCAGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
21249932 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
21249964 AAGCCA
1 AAGCCA
21249970 ACAATAGCAT
Statistics
Matches: 135, Mismatches: 28, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
31 11 0.08
32 122 0.90
33 2 0.01
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:21249898 original size:96 final size:96
Alignment explanation
Indices: 21249786--21249968 Score: 269
Period size: 96 Copynumber: 1.9 Consensus size: 96
21249776 CCATAAGTAC
* * *
21249786 AGTAATATGATTGGCACA-AAGCCATCAGTAGTAGTAATATGATCAATACACAGCCATCAGTAAT
1 AGTAATATGATCGGCACACAA-CCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAAT
* * *
21249850 AGTAGTATGATTGGTACAAAGCCCTCAATAGT
65 AGTAATATGATCGGCACAAAGCCCTCAATAGT
* * *
21249882 AGTAATATGATCGGCACACAACCATCAGTAATGGTAATATGATCAGCACACAGCCATCAGTAATG
1 AGTAATATGATCGGCACACAACCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATA
21249947 GTAATATGATCGGCACAAAGCC
66 GTAATATGATCGGCACAAAGCC
21249969 AACAATAGCA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
96 75 0.97
97 2 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (96 bp):
AGTAATATGATCGGCACACAACCATCAGTAATAGTAATATGATCAACACACAGCCATCAGTAATA
GTAATATGATCGGCACAAAGCCCTCAATAGT
Found at i:21249958 original size:64 final size:64
Alignment explanation
Indices: 21249786--21249963 Score: 230
Period size: 64 Copynumber: 2.8 Consensus size: 64
21249776 CCATAAGTAC
*** *
21249786 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCAATACACAGCCATCAGTAAT
1 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAAT
* * * *
21249850 AGTAGTATGATTGGTACAAAGCCCTCAATAGTAGTAATATGATCGGCACACAACCATCAGTAAT
1 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAAT
* ** * * *
21249914 GGTAATATGATCAGCACACAGCCATCAGTAATGGTAATATGATCGGCACA
1 AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACA
21249964 AAGCCAACAA
Statistics
Matches: 96, Mismatches: 18, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 96 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (64 bp):
AGTAATATGATTGGCACAAAGCCATCAGTAGTAGTAATATGATCGGCACACAACCATCAGTAAT
Found at i:21250063 original size:27 final size:27
Alignment explanation
Indices: 21250023--21250083 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
21250013 TGGTTGCCAA
*
21250023 TAACAGTATATGTGGCCA-AGCCATCAG
1 TAACAGTATATGTGG-CAGAGCCACCAG
21250050 TAACAGTGAT-TGTGGCAGAGCCACCAG
1 TAACAGT-ATATGTGGCAGAGCCACCAG
21250077 T-ACAGTA
1 TAACAGTA
21250084 CTTCCTCCAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
25 1 0.03
26 7 0.23
27 21 0.68
28 2 0.06
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (27 bp):
TAACAGTATATGTGGCAGAGCCACCAG
Found at i:21250180 original size:24 final size:24
Alignment explanation
Indices: 21250148--21250281 Score: 151
Period size: 24 Copynumber: 5.6 Consensus size: 24
21250138 CCATGCACGG
**
21250148 AATCAGTCATACAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
*
21250172 AATCAGTCATTTAAATCACAGATA
1 AATCAGTCATTTAAATCACAGACA
*
21250196 AATAAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCACAGACA
* * *
21250220 AATCAGTCATTTACATCTCGGACA
1 AATCAGTCATTTAAATCACAGACA
* * * * *
21250244 AATCATTCATTTACATTATAGGCA
1 AATCAGTCATTTAAATCACAGACA
*
21250268 AATCAATCATTTAA
1 AATCAGTCATTTAA
21250282 CCCCGAGGGG
Statistics
Matches: 93, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 93 1.00
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.28
Consensus pattern (24 bp):
AATCAGTCATTTAAATCACAGACA
Found at i:21250365 original size:54 final size:54
Alignment explanation
Indices: 21250300--21250524 Score: 283
Period size: 54 Copynumber: 4.2 Consensus size: 54
21250290 GGTAAAATAG
* *
21250300 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCTTACAGGGCCATTACGA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
* *
21250354 TAATTTTACCCTAC-AGGGCATTACGGTCATTTTACCCTACA-GGGCATTACGG
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
* * * * * * **
21250406 TCATTTTACCCTACAGGGGCGTTACAGTAATTTTACCCTATAGGGGCGTTATTA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
** * * *
21250460 TCATTTTACCCTACGGGGGCATTATGGTCATTTTACCATACAGGGGCATTATGA
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
21250514 TCATTTTACCC
1 TCATTTTACCC
21250525 GTCGAAGGTA
Statistics
Matches: 146, Mismatches: 23, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
52 22 0.15
53 48 0.33
54 76 0.52
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (54 bp):
TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGA
Found at i:21250385 original size:26 final size:26
Alignment explanation
Indices: 21250299--21250524 Score: 254
Period size: 27 Copynumber: 8.5 Consensus size: 26
21250289 GGGTAAAATA
21250299 GTCATTTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTAC-AGGGCATTACG
*
21250326 GTCATTTTACCTTACAGGGCCATTACG
1 GTCATTTTACCCTACAGGG-CATTACG
* *
21250353 ATAATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
21250379 GTCATTTTACCCTACAGGGCATTACG
1 GTCATTTTACCCTACAGGGCATTACG
* *
21250405 GTCATTTTACCCTACAGGGGCGTTACA
1 GTCATTTTACCCTACA-GGGCATTACG
* * * **
21250432 GTAATTTTACCCTATAGGGGCGTTATT
1 GTCATTTTACCCTACA-GGGCATTACG
* * *
21250459 ATCATTTTACCCTACGGGGGCATTATG
1 GTCATTTTACCCTAC-AGGGCATTACG
* *
21250486 GTCATTTTACCATACAGGGGCATTATG
1 GTCATTTTACCCTACA-GGGCATTACG
*
21250513 ATCATTTTACCC
1 GTCATTTTACCC
21250525 GTCGAAGGTA
Statistics
Matches: 172, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
26 51 0.30
27 121 0.70
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.33
Consensus pattern (26 bp):
GTCATTTTACCCTACAGGGCATTACG
Found at i:21250546 original size:27 final size:27
Alignment explanation
Indices: 21250516--21250576 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
21250506 CATTATGATC
*
21250516 ATTTTACCCGTCGAAGGTATTTCGGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
* * * * *
21250543 ATTTGACCCTTTGAGGGTATTTTAGTA
1 ATTTTACCCGTCGAAGGTATTTCAGTA
21250570 ATTTTAC
1 ATTTTAC
21250577 AACCTTTTTG
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.23, C:0.15, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCGTCGAAGGTATTTCAGTA
Found at i:21251000 original size:53 final size:53
Alignment explanation
Indices: 21250937--21251042 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
21250927 TGGTCCCAAA
*
21250937 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTATAGTGGAGAGTTTACACACC
1 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
* *** *
21250990 CGCCGTATTTCGGCTTTTGTTGTTCTACAGTTACAGTGGGGAGTTTACACACC
1 CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
21251043 TGATGCGATT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.35
Consensus pattern (53 bp):
CGCCGTATTTCAGCTTTTACCGTTCTACAGTTACAGTGGAGAGTTTACACACC
Found at i:21252376 original size:20 final size:21
Alignment explanation
Indices: 21252353--21252401 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21252343 ATCAAATGCA
* *
21252353 TTTTATTATTATAA-TATATG
1 TTTTATAATTATAATTATAAG
*
21252373 TTTTATAATTTTAATTATAAG
1 TTTTATAATTATAATTATAAG
21252394 TTTTATAA
1 TTTTATAA
21252402 CAGACATCCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
TTTTATAATTATAATTATAAG
Found at i:21258502 original size:31 final size:31
Alignment explanation
Indices: 21258464--21258522 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
21258454 TGTCATCTTG
* *
21258464 GATTTCCCGACAATGATGACCTGCCACCTTA
1 GATTTCCCGAAAATGATGACCTACCACCTTA
*
21258495 GATTTCCCGAAAATGATGGCCTACCACC
1 GATTTCCCGAAAATGATGACCTACCACC
21258523 CCGAATAGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (31 bp):
GATTTCCCGAAAATGATGACCTACCACCTTA
Found at i:21262094 original size:15 final size:15
Alignment explanation
Indices: 21262074--21262105 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
21262064 CATTTCACTA
*
21262074 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
21262089 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
21262104 TT
1 TT
21262106 TGCATGCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:21267665 original size:16 final size:15
Alignment explanation
Indices: 21267640--21267673 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
21267630 AAAGTTGATA
*
21267640 ATAATTAATATATATT
1 ATAATAAATATA-ATT
21267656 ATAATAAATATAATT
1 ATAATAAATATAATT
21267671 ATA
1 ATA
21267674 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:21276405 original size:25 final size:25
Alignment explanation
Indices: 21276369--21276440 Score: 117
Period size: 25 Copynumber: 2.9 Consensus size: 25
21276359 TCTTGTACAT
* *
21276369 GTATGCTTACACGAGCTATGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
21276394 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCG
*
21276419 GTATGCTCACATGAGCTGTGAA
1 GTATGCTCACACGAGCTGTGAA
21276441 AATGGGCCTG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCG
Found at i:21293027 original size:16 final size:15
Alignment explanation
Indices: 21293005--21293040 Score: 63
Period size: 16 Copynumber: 2.3 Consensus size: 15
21292995 CTTTAAAAAG
21293005 AAATAAAGAAATTTA
1 AAATAAAGAAATTTA
21293020 ATAATAAAGAAATTTA
1 A-AATAAAGAAATTTA
21293036 AAATA
1 AAATA
21293041 GCAAAAGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (15 bp):
AAATAAAGAAATTTA
Found at i:21293096 original size:24 final size:23
Alignment explanation
Indices: 21293060--21293111 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
21293050 TAAATTTGAG
*
21293060 AATAAAAACAAATAAAAATCATA
1 AATAAAAACAAATAAAAATCAAA
* * *
21293083 AATAAATAAGAAATAGAAATTAAA
1 AATAAA-AACAAATAAAAATCAAA
21293107 AATAA
1 AATAA
21293112 CAAAGTGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.19
Consensus pattern (23 bp):
AATAAAAACAAATAAAAATCAAA
Found at i:21296803 original size:17 final size:17
Alignment explanation
Indices: 21296781--21296815 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21296771 TGAAGAATGA
*
21296781 ATTCCCATGACTCTTTG
1 ATTCCCACGACTCTTTG
21296798 ATTCCCACGACTCTTTG
1 ATTCCCACGACTCTTTG
21296815 A
1 A
21296816 AGAAAATTGA
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:0.31, G:0.11, T:0.37
Consensus pattern (17 bp):
ATTCCCACGACTCTTTG
Found at i:21301140 original size:21 final size:22
Alignment explanation
Indices: 21301115--21301155 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
21301105 GAAATTTGAA
*
21301115 ATTTAAT-TTTTATATTTTTAT
1 ATTTAATATTTAATATTTTTAT
21301136 ATTTAATATTTAATATTTTT
1 ATTTAATATTTAATATTTTT
21301156 TACTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTAATATTTAATATTTTTAT
Found at i:21302796 original size:13 final size:13
Alignment explanation
Indices: 21302755--21302820 Score: 72
Period size: 13 Copynumber: 5.5 Consensus size: 13
21302745 AATTTTGAAT
21302755 TATTTAGTGATAA
1 TATTTAGTGATAA
* *
21302768 TATCTA-T-A-AT
1 TATTTAGTGATAA
21302778 TATTTAGTGATAA
1 TATTTAGTGATAA
21302791 TATTTAG-GAT--
1 TATTTAGTGATAA
21302801 TATTTAGTGATAA
1 TATTTAGTGATAA
21302814 TATTTAG
1 TATTTAG
21302821 GAAAAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
10 13 0.30
11 5 0.12
12 5 0.12
13 20 0.47
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:21302817 original size:23 final size:23
Alignment explanation
Indices: 21302753--21302822 Score: 113
Period size: 23 Copynumber: 3.0 Consensus size: 23
21302743 TAAATTTTGA
* **
21302753 ATTATTTAGTGATAATATCTATA
1 ATTATTTAGTGATAATATTTAGG
21302776 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
21302799 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
21302822 A
1 A
21302823 AAAATTTAGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.37, C:0.01, G:0.14, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:21303464 original size:15 final size:16
Alignment explanation
Indices: 21303444--21303480 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21303434 TTTGGATTAA
21303444 TTCAAA-ATTTTGAA-T
1 TTCAAATATTTT-AATT
21303459 TTCAAATATTTTAATT
1 TTCAAATATTTTAATT
21303475 TTCAAA
1 TTCAAA
21303481 CAAATATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (16 bp):
TTCAAATATTTTAATT
Found at i:21305339 original size:18 final size:18
Alignment explanation
Indices: 21305298--21305339 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
21305288 GGAAACTTCA
*
21305298 TTTCTGAACACATCTTTT
1 TTTCTTAACACATCTTTT
21305316 TTTCTTAACACATCTTTT
1 TTTCTTAACACATCTTTT
21305334 TTTCTT
1 TTTCTT
21305340 TCTCTTTTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.19, C:0.21, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTCTTAACACATCTTTT
Found at i:21307452 original size:2 final size:2
Alignment explanation
Indices: 21307445--21307482 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
21307435 AAAGAAATAT
21307445 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
21307483 GTATGCATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21308885 original size:18 final size:17
Alignment explanation
Indices: 21308856--21308910 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 17
21308846 TTTTTAAATT
*
21308856 AAAAATATAATTTTAAA
1 AAAAATAAAATTTTAAA
21308873 AAAAATTAAAATTATTAAA
1 AAAAA-TAAAATT-TTAAA
*
21308892 AAACATAAAATTTATAAA
1 AAAAATAAAATTT-TAAA
21308910 A
1 A
21308911 TATATTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
17 6 0.18
18 18 0.55
19 9 0.27
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATAAAATTTTAAA
Found at i:21311081 original size:15 final size:15
Alignment explanation
Indices: 21311061--21311100 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
21311051 CTAGATTACT
21311061 TTCTAGGGTTGTCAA
1 TTCTAGGGTTGTCAA
*
21311076 TTCTAGGGTTGTTAA
1 TTCTAGGGTTGTCAA
*
21311091 TTTTAGGGTT
1 TTCTAGGGTT
21311101 TAAACACACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.47
Consensus pattern (15 bp):
TTCTAGGGTTGTCAA
Found at i:21311958 original size:27 final size:29
Alignment explanation
Indices: 21311910--21311981 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 29
21311900 TGTCCTCAAG
* * *
21311910 CAAACAAAAAACAAAAACAAAA-ACAA-A
1 CAAACTAAAAATAAAAACAAAAGAAAACA
**
21311937 CAAACTAAAAATAAAATGAAAAGAAAACA
1 CAAACTAAAAATAAAAACAAAAGAAAACA
*
21311966 CACAACTAAAACTAAA
1 CA-AACTAAAAATAAA
21311982 GTACTTGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 18 0.50
28 3 0.08
29 3 0.08
30 12 0.33
ACGTcount: A:0.74, C:0.17, G:0.03, T:0.07
Consensus pattern (29 bp):
CAAACTAAAAATAAAAACAAAAGAAAACA
Found at i:21321425 original size:13 final size:13
Alignment explanation
Indices: 21321409--21321435 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21321399 AAAAAAAAAG
21321409 ATGAAAAATGAAA
1 ATGAAAAATGAAA
21321422 ATGAAAAATGAAA
1 ATGAAAAATGAAA
21321435 A
1 A
21321436 AATGAAAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
ATGAAAAATGAAA
Found at i:21321428 original size:21 final size:21
Alignment explanation
Indices: 21321404--21321453 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 21
21321394 ATTGCAAAAA
21321404 AAAAGATG-AAAAATGAAAATG
1 AAAA-ATGAAAAAATGAAAATG
*
21321425 AAAAATGAAAAAATGAAAAAG
1 AAAAATGAAAAAATGAAAATG
21321446 TAAAAATG
1 -AAAAATG
21321454 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 3 0.12
21 16 0.62
22 7 0.27
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (21 bp):
AAAAATGAAAAAATGAAAATG
Found at i:21321438 original size:8 final size:7
Alignment explanation
Indices: 21321404--21321453 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
21321394 ATTGCAAAAA
21321404 AAAAGATG
1 AAAA-ATG
21321412 AAAAATG
1 AAAAATG
21321419 -AAAATG
1 AAAAATG
21321425 AAAAATG
1 AAAAATG
21321432 AAAAAATG
1 -AAAAATG
21321440 AAAAA-G
1 AAAAATG
21321446 TAAAAATG
1 -AAAAATG
21321454 GAGAGGCTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 19 0.50
8 12 0.32
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:21322894 original size:44 final size:44
Alignment explanation
Indices: 21322828--21323233 Score: 277
Period size: 44 Copynumber: 8.8 Consensus size: 44
21322818 GGAAATGGTG
*
21322828 AATCTTATCTCCCTGATG-TTACAGCGGAGCAGATTGAAGCCAGA
1 AATCTTATCTCCCTGA-GATTACAGCGGAGCAGATTGAAGCTAGA
*
21322872 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * **
21322916 AATCCTATCTCTCTGAGATTACAGTGGAGCAGATT-AAAATA-A
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* *
21322958 AGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCTAGA
1 A--ATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGATTGAAGCTAGA
*
21323014 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * * ** *
21323058 AATCCTATCTCTCTGAGATTA-TGTGGAGCAGATT-AAAATAAA
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* * * * *
21323100 GAATTTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAGA
1 -AATCTTATCTCCCTGAGA-TTAC---AGCG--GA--G---CAGATTGAAGCTAGA
* * * *
21323155 AATCTTATCTCCTTAAGATTACATCGGAGCAGATTGAAGCTAGT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
* *
21323199 AATCCTATCTCCCTGAGATTACAGTGGAGCAGATT
1 AATCTTATCTCCCTGAGATTACAGCGGAGCAGATT
21323234 AAAATAAAGG
Statistics
Matches: 285, Mismatches: 45, Indels: 64
0.72 0.11 0.16
Matches are distributed among these distances:
42 7 0.02
43 32 0.11
44 166 0.58
47 7 0.02
49 8 0.03
51 7 0.02
54 45 0.16
55 11 0.04
56 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGA
Found at i:21323029 original size:142 final size:142
Alignment explanation
Indices: 21322857--21323284 Score: 750
Period size: 142 Copynumber: 3.0 Consensus size: 142
21322847 TACAGCGGAG
21322857 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
21322922 ATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
21322987 AGTAGATCGCAT
131 AGTAGATCGCAT
*
21322999 CAGATTGAAGCTAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
* * * *
21323064 ATCTCTCTGAGATTA-TGTGGAGCAGATTAAAATAAAGAATTTTATCTCTCTAAAGTTACAGTAG
66 ATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
21323128 AGTAGATCGCAT
131 AGTAGATCGCAT
* * *
21323140 CAGATTGAAGCCAGAAATCTTATCTCCTTAAGATTACATCGGAGCAGATTGAAGCTAGTAATCCT
1 CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
*
21323205 ATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
66 ATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
* *
21323270 ATTAGATCACAT
131 AGTAGATCGCAT
21323282 CAG
1 CAG
21323285 GTCTTATCTC
Statistics
Matches: 269, Mismatches: 16, Indels: 2
0.94 0.06 0.01
Matches are distributed among these distances:
141 132 0.49
142 137 0.51
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.29
Consensus pattern (142 bp):
CAGATTGAAGCCAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTAGTAATCCT
ATCTCTCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTAG
AGTAGATCGCAT
Found at i:21323252 original size:44 final size:41
Alignment explanation
Indices: 21323204--21323311 Score: 101
Period size: 44 Copynumber: 2.6 Consensus size: 41
21323194 CTAGTAATCC
21323204 TATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAGCAGA-TAAAAT-AAGG-TCT
* * ** * * *
21323248 TATCTCTCTGA-AGTTACAGTAGATTAGATCACATCAGGTCT
1 TATCTCCCTGAGA-TTACAGTGGAGCAGATAAAATAAGGTCT
*
21323289 TATCTCCCTGAGATTACGGTGGA
1 TATCTCCCTGAGATTACAGTGGA
21323312 ATAGACCGAA
Statistics
Matches: 52, Mismatches: 10, Indels: 7
0.75 0.14 0.10
Matches are distributed among these distances:
41 21 0.40
42 4 0.08
43 5 0.10
44 22 0.42
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.31
Consensus pattern (41 bp):
TATCTCCCTGAGATTACAGTGGAGCAGATAAAATAAGGTCT
Found at i:21323403 original size:50 final size:50
Alignment explanation
Indices: 21323352--21323800 Score: 321
Period size: 50 Copynumber: 8.9 Consensus size: 50
21323342 CAAGCGATGT
* ** *
21323352 AGTGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACATTGT
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGC
** * ** * * * * *
21323402 AGTTAAAAAGATTAAAGCTACAATAGCGAATCGTACTTCC-CTAGCAGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGA-CATTGC
* * *
21323452 AGTGGAACAAAATTAAAGCCACATCGGTGAATCTTGCTTCC-CTGACATTGT
1 AGTGGAA-AAGATTAAAGCCACAACGGTGAATCTTGCTTCCTC-GACATTGC
** * * * * **
21323503 AGTTAAAAAGATTAAAGCTACAACAGTGAATCTTAC-TCC-CCAGGTGGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACAT--TGC
* * **
21323553 AGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTAT
1 AGTGGAA-AAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGC
** * * * * * * * **
21323604 AGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTCCCTAGGCGGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGC
* * *
21323654 AGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAATGC
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGC
** * * * * * * **
21323704 AGTTCAAAAGATTAAAGCTACAACAGCGAATCTTACTTCCTAGGCGGTGC
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGC
* *
21323754 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACAT
21323801 CACAATTAAG
Statistics
Matches: 292, Mismatches: 99, Indels: 16
0.72 0.24 0.04
Matches are distributed among these distances:
48 2 0.01
49 6 0.02
50 211 0.72
51 66 0.23
52 4 0.01
53 3 0.01
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (50 bp):
AGTGGAAAAGATTAAAGCCACAACGGTGAATCTTGCTTCCTCGACATTGC
Found at i:21323816 original size:100 final size:100
Alignment explanation
Indices: 21323352--21323800 Score: 693
Period size: 101 Copynumber: 4.5 Consensus size: 100
21323342 CAAGCGATGT
* * *
21323352 AGTGGAATAGATTAAAGCCACATTGGTGAATCTTGCTTCCTCGACATTGTAGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAA
* * *
21323417 AGCTACAATAGCGAATCGTACTTCCCTA-GCAGTGC
66 AGCTACAACAGCGAATCTTAC-TCCCTAGGCGGTGC
* *
21323452 AGTGGAACAAAATTAAAGCCACATCGGTGAATCTTGCTTCCCTGACATTGTAGTTAAAAAGATTA
1 AGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTA
* * *
21323517 AAGCTACAACAGTGAATCTTACTCCCCAGGTGGTGC
65 AAGCTACAACAGCGAATCTTACTCCCTAGGCGGTGC
*
21323553 AGTGGAACAAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTATAGTTAAAAAGATTA
1 AGTGGAAC-AGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTA
21323618 AAGCTACAACAGCGAATCTTACTCCCTAGGCGGTGC
65 AAGCTACAACAGCGAATCTTACTCCCTAGGCGGTGC
* * * * *
21323654 AGTGGAATAGATTAAAGCCACATCGGTGAATCTTGCTTCCTCGACAATGCAGTTCAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAA
*
21323719 AGCTACAACAGCGAATCTTACTTCCTAGGCGGTGC
66 AGCTACAACAGCGAATCTTACTCCCTAGGCGGTGC
*
21323754 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTCCCCGACAT
1 AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
21323801 CACAATTAAG
Statistics
Matches: 319, Mismatches: 28, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
100 141 0.44
101 178 0.56
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACATTGTAGTTAAAAAGATTAA
AGCTACAACAGCGAATCTTACTCCCTAGGCGGTGC
Found at i:21330549 original size:38 final size:38
Alignment explanation
Indices: 21330498--21330571 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
21330488 TATCGTTGCC
* *
21330498 AAGAAGTGTCATTGTCACTCCAATCATCTAGCTTGTGT
1 AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGTGT
*
21330536 AAGAAATGTCATTGTCACCCCTATCATCTAGCTTGT
1 AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGT
21330572 ATTATTCCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.34
Consensus pattern (38 bp):
AAGAAATGTCATTGTCACCCCAATCATCTAGCTTGTGT
Found at i:21332926 original size:23 final size:23
Alignment explanation
Indices: 21332898--21332951 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
21332888 TTATCCACAT
21332898 TCTACTGGCAGTTCATCTGCAAA
1 TCTACTGGCAGTTCATCTGCAAA
* * *
21332921 TCTACTAGCGGTTCATCTGCATA
1 TCTACTGGCAGTTCATCTGCAAA
21332944 TCTACTGG
1 TCTACTGG
21332952 TGGTATATCC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
TCTACTGGCAGTTCATCTGCAAA
Found at i:21342607 original size:26 final size:26
Alignment explanation
Indices: 21342550--21342607 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
21342540 TTTTATACTC
* *
21342550 TATTTTTAAGATATGTTTCCAAGTTA
1 TATTTTTAAGATATGTTTCAAAGATA
** * *
21342576 CGTTTTTAAGCTATGTTTTAAAGATA
1 TATTTTTAAGATATGTTTCAAAGATA
21342602 TATTTT
1 TATTTT
21342608 ACACGTGCTC
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (26 bp):
TATTTTTAAGATATGTTTCAAAGATA
Found at i:21347933 original size:14 final size:14
Alignment explanation
Indices: 21347914--21347940 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21347904 GCTACCATGT
21347914 TACTATTATGTTGC
1 TACTATTATGTTGC
21347928 TACTATTATGTTG
1 TACTATTATGTTG
21347941 TTATTGTTTG
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:0.22, C:0.11, G:0.15, T:0.52
Consensus pattern (14 bp):
TACTATTATGTTGC
Found at i:21348185 original size:12 final size:13
Alignment explanation
Indices: 21348162--21348196 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
21348152 TATATATTTT
21348162 AAAATT-ATAT-A
1 AAAATTAATATAA
21348173 AAAATTAATATAA
1 AAAATTAATATAA
21348186 AAAATTAATAT
1 AAAATTAATAT
21348197 GGGCAGGCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 6 0.27
12 4 0.18
13 12 0.55
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAAATTAATATAA
Found at i:21350451 original size:25 final size:25
Alignment explanation
Indices: 21350423--21350474 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
21350413 TTCATTTATA
21350423 TTTCACCAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
21350448 TTTCACCAGTCCCGTCTGTTTAAGT
1 TTTCACCAGTCCCGTCTGTTTAAGT
21350473 TT
1 TT
21350475 ACTGATTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.15, C:0.27, G:0.15, T:0.42
Consensus pattern (25 bp):
TTTCACCAGTCCCGTCTGTTTAAGT
Found at i:21351489 original size:120 final size:120
Alignment explanation
Indices: 21351355--21351871 Score: 901
Period size: 120 Copynumber: 4.3 Consensus size: 120
21351345 TTATTTAATA
* * *
21351355 TTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTTTTTAGTATCATATATTATGAT
1 TTAATTATAATATATTTAATAATAATTATGTT-AAATTATATTTTATAGTATCATATATTATGAT
*
21351419 TTTAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
65 TTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
* *
21351475 TTAATTATAATATATTTAACAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
* *
21351540 TGAGTAAATTCATATAAGAATGTTAATTATTAAGAATTTTATTAAATTATATATT
66 TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
21351595 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
* *
21351660 TGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATAAT
66 TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
*
21351715 TTAATTATAATATATTTAATAATAATTATGTTAAATTATCTTTTATAGTATCATATATTATGATT
1 TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
*
21351780 TGAGTAAATTCATATAAGAATATTGATTATTAATAATTTTATTAAATTATATATT
66 TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
21351835 TTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 TTAATTATAATATATTTAATAATAATTATG-TTAAAT
21351872 ATGATTAAAT
Statistics
Matches: 379, Mismatches: 16, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
120 371 0.98
121 8 0.02
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
TTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTTATAGTATCATATATTATGATT
TGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATT
Found at i:21351609 original size:16 final size:16
Alignment explanation
Indices: 21351588--21351634 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
21351578 TTATTAAATT
21351588 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
21351604 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
21351619 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
21351635 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:21351729 original size:18 final size:18
Alignment explanation
Indices: 21351688--21351721 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21351678 AATATTGATT
*
21351688 ATTA-ATAATTTTATTAA
1 ATTATATAATTTAATTAA
21351705 ATTATATAATTTAATTA
1 ATTATATAATTTAATTA
21351722 TAATATATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATATAATTTAATTAA
Found at i:21351733 original size:15 final size:15
Alignment explanation
Indices: 21351699--21351753 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
21351689 TTAATAATTT
*
21351699 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21351713 -ATTTAATTATAATA
1 TATTTAATTATAATA
*
21351727 TATTTAATAATAAT-
1 TATTTAATTATAATA
21351741 TATGTTAAATTAT
1 TAT-TT-AATTAT
21351754 CTTTTATAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 6 0.18
15 14 0.41
16 5 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21351849 original size:16 final size:16
Alignment explanation
Indices: 21351810--21351869 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
21351800 TATTGATTAT
*
21351810 TAATA-ATTTTATTAAA
1 TAATATATTTTAAT-AA
* *
21351826 TTATATATTTTAATTA
1 TAATATATTTTAATAA
21351842 TAATATA-TTTAATAA
1 TAATATATTTTAATAA
21351857 TAAT-TATGTTTAA
1 TAATATAT-TTTAA
21351870 ATATGATTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
14 2 0.06
15 11 0.31
16 16 0.44
17 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TAATATATTTTAATAA
Found at i:21351854 original size:15 final size:15
Alignment explanation
Indices: 21351819--21351860 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
21351809 TTAATAATTT
*
21351819 TATTAAATTAT-ATA
1 TATTTAATTATAATA
21351833 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
21351847 TATTTAATAATAAT
1 TATTTAATTATAAT
21351861 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:21353956 original size:147 final size:147
Alignment explanation
Indices: 21353614--21353968 Score: 392
Period size: 147 Copynumber: 2.4 Consensus size: 147
21353604 TACTTAACCG
* * * ** * *
21353614 ATGTTAATTATATATATTATAATCTACCATAAAGTTAGTTACACATTCAAAATTTAAGGTTATGC
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
* * * * *
21353679 ATCATTAATATAAAATTGTACATTATAATATCATAATTGTGCATAGTGTTACATATCATTAATAA
66 ATCATTAATATAAAATTGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAA
*
21353744 TCTACCTTAATTGAATA
131 TCTACATTAATTGAATA
* * * * * * *
21353761 ATGCTACTTGCATATATTATAATCTACCATAAAGTTAGTTCCATGTTTAGGGTTTAAGTTTACGT
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
* * *
21353826 ATCATTAATATTAAAA-TGTAAATTACAATAACATAGTTGTATATAG-GAATACATATCATTGAT
66 ATCATTAATA-TAAAATTGTAAATTACAATAACATAATTGTACATAGTG-ATACATATCATTAAT
*
21353889 AATCTATATTAATT-ATATA
129 AATCTACATTAATTGA-ATA
* * * * * *
21353908 ATGTTAGTTGTATATATTATAATTTACCATAAAATTAGTTTCGCGTTTAAGGTTTAGGTTT
1 ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTT
21353969 CATATTACTA
Statistics
Matches: 171, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
146 2 0.01
147 164 0.96
148 5 0.03
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (147 bp):
ATGTTAATTGTATATATTATAATCTACCATAAAGTTAGTTACACGTTTAAGGTTTAAGTTTACGC
ATCATTAATATAAAATTGTAAATTACAATAACATAATTGTACATAGTGATACATATCATTAATAA
TCTACATTAATTGAATA
Found at i:21361068 original size:173 final size:173
Alignment explanation
Indices: 21360779--21361127 Score: 671
Period size: 173 Copynumber: 2.0 Consensus size: 173
21360769 CCTATCACAC
21360779 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
1 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
*
21360844 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGTAATG
66 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
*
21360909 TCTTACCAAAGTGTGACTTTTGGGTCACTTATAAGTGCATGTA
131 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
21360952 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
1 TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
*
21361017 CGTTATGTAATGGTGATTTTGATTTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
66 CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
21361082 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
131 TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
21361125 TAT
1 TAT
21361128 AAGGTTATTT
Statistics
Matches: 173, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
173 173 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (173 bp):
TATCCAGCAATCAATTCAGTAGTTTTTGAGCATTTTGGCCAAGGTTTATAATGGCATGTATAGGA
CGTTATGTAATGGTGATTTTGATGTTTATGTTTTAAAGTTTGTGTTGATTTGGTAATTTGCAATG
TCTTACCAAAGTATGACTTTTGGGTCACTTATAAGTGCATGTA
Found at i:21361292 original size:39 final size:39
Alignment explanation
Indices: 21361233--21361316 Score: 150
Period size: 39 Copynumber: 2.2 Consensus size: 39
21361223 TAAGGTTAAC
* *
21361233 TTGATTTGGTAAATGGAGTTTGATGCAATTGTGGTGCCT
1 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
21361272 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
1 TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
21361311 TTGAAT
1 TTGAAT
21361317 GACACATTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.24, C:0.07, G:0.29, T:0.40
Consensus pattern (39 bp):
TTGAATTGGTAAATGAAGTTTGATGCAATTGTGGTGCCT
Found at i:21362827 original size:19 final size:19
Alignment explanation
Indices: 21362803--21362850 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
21362793 TTGTTTAAGT
* *
21362803 TTAATATATTTTAATTTTA
1 TTAATATATTTCAATATTA
21362822 TTAATACTATTTCAATATTA
1 TTAATA-TATTTCAATATTA
21362842 -TAATATATT
1 TTAATATATT
21362851 ATTATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 4 0.15
19 11 0.42
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATATATTTCAATATTA
Found at i:21363205 original size:29 final size:29
Alignment explanation
Indices: 21363173--21363252 Score: 83
Period size: 29 Copynumber: 2.7 Consensus size: 29
21363163 ATTTTATCTC
21363173 TTTCAAATATTTTAACATTTTTTAATTTA
1 TTTCAAATATTTTAACATTTTTTAATTTA
* * * *
21363202 TTTCAACTTATTTCAATA-TTGTTAATTTA
1 TTTCAA-ATATTTTAACATTTTTTAATTTA
21363231 TTT-AAATTTATTTTAACATTTT
1 TTTCAAA--TATTTTAACATTTT
21363253 AATTCATATA
Statistics
Matches: 39, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
28 2 0.05
29 27 0.69
30 10 0.26
ACGTcount: A:0.33, C:0.07, G:0.01, T:0.59
Consensus pattern (29 bp):
TTTCAAATATTTTAACATTTTTTAATTTA
Found at i:21368674 original size:16 final size:16
Alignment explanation
Indices: 21368653--21368685 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
21368643 CCACACATTG
*
21368653 ACACAATTTACATATA
1 ACACAATTCACATATA
21368669 ACACAATTCACATATA
1 ACACAATTCACATATA
21368685 A
1 A
21368686 AACGGCTCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.27
Consensus pattern (16 bp):
ACACAATTCACATATA
Found at i:21368716 original size:17 final size:17
Alignment explanation
Indices: 21368679--21368903 Score: 220
Period size: 17 Copynumber: 13.3 Consensus size: 17
21368669 ACACAATTCA
*
21368679 CATATAAA-ACGGCTCG
1 CATATAAACACAGCTCG
* *
21368695 CATATAAACACAACTTG
1 CATATAAACACAGCTCG
*
21368712 CATATAAACACAACTCG
1 CATATAAACACAGCTCG
* * *
21368729 TATATAAACACATCTTG
1 CATATAAACACAGCTCG
* *
21368746 CATATAAACACATCTCA
1 CATATAAACACAGCTCG
*
21368763 CATATAAACATAGCTCG
1 CATATAAACACAGCTCG
*
21368780 CATATAAACATAGCTCG
1 CATATAAACACAGCTCG
*
21368797 CATATAAACACAGTTCG
1 CATATAAACACAGCTCG
* * *
21368814 AATATAAATACATCT-G
1 CATATAAACACAGCTCG
* *
21368830 ACATATAAACATAGCTAG
1 -CATATAAACACAGCTCG
*
21368848 CATATAAACACAGCTCA
1 CATATAAACACAGCTCG
* *
21368865 CATATAAACATAGCTAG
1 CATATAAACACAGCTCG
* * *
21368882 CATATAAATATAACTCG
1 CATATAAACACAGCTCG
21368899 CATAT
1 CATAT
21368904 TGTCATAGTT
Statistics
Matches: 174, Mismatches: 32, Indels: 5
0.82 0.15 0.02
Matches are distributed among these distances:
16 9 0.05
17 164 0.94
18 1 0.01
ACGTcount: A:0.45, C:0.22, G:0.08, T:0.24
Consensus pattern (17 bp):
CATATAAACACAGCTCG
Found at i:21372107 original size:25 final size:23
Alignment explanation
Indices: 21372053--21372148 Score: 72
Period size: 25 Copynumber: 3.9 Consensus size: 23
21372043 GAAGCACTTC
21372053 CGAGTCATATAACGGGAAGCTC-A
1 CGAG-CATATAACGGGAAGCTCTA
*
21372076 CGTGAGCTGTATAACGGGAAGCTCTTA
1 C--GAGC-ATATAACGGGAAGCTC-TA
*
21372103 CGAGCCA-ATTATCGGGAAGCTCATA
1 CGAG-CATA-TAACGGGAAGCTC-TA
21372128 CGAGCCATA-AACGGGAAGCTC
1 CGAG-CATATAACGGGAAGCTC
21372149 AAGAGAGCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 15
0.75 0.06 0.19
Matches are distributed among these distances:
23 1 0.02
24 13 0.22
25 42 0.70
26 2 0.03
27 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.27, T:0.19
Consensus pattern (23 bp):
CGAGCATATAACGGGAAGCTCTA
Found at i:21372184 original size:74 final size:75
Alignment explanation
Indices: 21372053--21372237 Score: 178
Period size: 74 Copynumber: 2.5 Consensus size: 75
21372043 GAAGCACTTC
* * * ** * * *
21372053 CGAGTCATATAACGGGAAGCTCACGTGAGCTGTATAACGGGAAGCTCTTACGAGCCAATTATCGG
1 CGAGCCATATAACGGGAAGCTCAAGAGAGCCATATAACGGGAAGCTCATACGAGCCAAATATCGA
21372118 GAAGCTCATA
66 GAAGCTCATA
**
21372128 CGAGCCATA-AACGGGAAGCTCAAGAGAGCCAT-TAATCGGGAAGCTCATGGGAGCCAAATATCG
1 CGAGCCATATAACGGGAAGCTCAAGAGAGCCATATAA-CGGGAAGCTCATACGAGCCAAATATCG
* *
21372191 AGAAGATCGTA
65 AGAAGCTCATA
* * * * *
21372202 AGAGACATATATCAGGAAGCTC-CGAAGAGCCATATA
1 CGAGCCATATAACGGGAAGCTCAAG-AGAGCCATATA
21372238 TCGAGATGCT
Statistics
Matches: 89, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
73 3 0.03
74 58 0.65
75 26 0.29
76 2 0.02
ACGTcount: A:0.35, C:0.21, G:0.26, T:0.18
Consensus pattern (75 bp):
CGAGCCATATAACGGGAAGCTCAAGAGAGCCATATAACGGGAAGCTCATACGAGCCAAATATCGA
GAAGCTCATA
Found at i:21372255 original size:25 final size:25
Alignment explanation
Indices: 21372104--21372256 Score: 102
Period size: 25 Copynumber: 6.2 Consensus size: 25
21372094 AAGCTCTTAC
*
21372104 GAGCCA-ATTATCGGGAAGCTCAT-A
1 GAGCCATA-TATCGAGAAGCTCATGA
* * *
21372128 CGAGCCATA-AACGGGAAGCTCAAGA
1 -GAGCCATATATCGAGAAGCTCATGA
* *
21372153 GAGCCAT-TAATCGGGAAGCTCATGG
1 GAGCCATAT-ATCGAGAAGCTCATGA
* * * *
21372178 GAGCCAAATATCGAGAAGATCGTAA
1 GAGCCATATATCGAGAAGCTCATGA
* *
21372203 GAGACATATATC-AGGAAGCTC-CGAA
1 GAGCCATATATCGA-GAAGCTCATG-A
*
21372228 GAGCCATATATCGAGATGCTCATGA
1 GAGCCATATATCGAGAAGCTCATGA
21372253 GAGC
1 GAGC
21372257 TAATAACGGG
Statistics
Matches: 100, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
24 20 0.20
25 76 0.76
26 4 0.04
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.17
Consensus pattern (25 bp):
GAGCCATATATCGAGAAGCTCATGA
Found at i:21378811 original size:23 final size:23
Alignment explanation
Indices: 21378780--21378830 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
21378770 ACCTACTTTC
* *
21378780 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
21378803 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
21378826 TTACA
1 TTACA
21378831 AAAGTCAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:21379423 original size:36 final size:36
Alignment explanation
Indices: 21379376--21379447 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
21379366 GCAACACTAG
21379376 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
1 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
21379412 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
1 GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
21379448 ACCAATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (36 bp):
GATTCACCACTAGATACGTTAAGTTTCTGCTCTTAT
Found at i:21380270 original size:4 final size:4
Alignment explanation
Indices: 21380261--21380337 Score: 145
Period size: 4 Copynumber: 19.2 Consensus size: 4
21380251 TTGCCTCAAC
*
21380261 ATGT ATGT ATGT ATGT ATGC ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
21380309 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
21380338 ATACAAGTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
4 71 1.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:21386849 original size:31 final size:31
Alignment explanation
Indices: 21386814--21386875 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
21386804 TATACATTCC
21386814 CTATTTAGGGATTTGTTATGGAAAGATATTA
1 CTATTTAGGGATTTGTTATGGAAAGATATTA
21386845 CTATTTAGGGATTTGTTATGGAAAGATATTA
1 CTATTTAGGGATTTGTTATGGAAAGATATTA
21386876 TGTAATGTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.03, G:0.23, T:0.42
Consensus pattern (31 bp):
CTATTTAGGGATTTGTTATGGAAAGATATTA
Found at i:21401154 original size:40 final size:40
Alignment explanation
Indices: 21401057--21401761 Score: 352
Period size: 40 Copynumber: 16.8 Consensus size: 40
21401047 TGTGGTTTTG
* **
21401057 TCTGCTCCACTACTGCTTAGAGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* *
21401099 TCTGCTCCACTACTGCTTAGGGAGATAAGAATTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
***
21401139 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* * * ** * *
21401182 TCTCCTCTACTGCAACTTTAGGGAGATAGGA-TTGGTTTTTTTTCCG-
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGACTT-G------TTGCGA
* *
21401228 TCTGCTCCACTACTGCTTAGGTAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
* ***
21401268 TCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TG-TTGCGA
* * ** * *
21401311 TCCGCTCCACTGCAACTTTAGGGAGATAGGA-TTGGTTTCTTCCG-
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGACTT-G----TTGCGA
* * ** * * *
21401355 TCTGTTCCACTGCAACTTCAGGGAGGTAAGACTAGATGCGA
1 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTTGTTGCGA
* * ** * * ***
21401396 TCTGCTCTACTGCAACTTTAGAGAGATATGACCTGTGTTTTTA
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGA-CT-TGTTGCGA
* **
21401439 TCTGCTCCACTACTACTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
*
21401481 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
**
21401521 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* *
21401563 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
* ***
21401603 TCTGCTCCACTGCTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-T-GTTGCGA
* * * *
21401646 T-TCGCTCCACT-GTAACTTCAGGGAGATAGGA-TTGGTTTTTTTTCCG-
1 TCT-GCTCCACTACT-GCTT-AGGGAGATAAGACTT-G------TTGCGA
* *
21401692 TCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
* *
21401732 TCTACTCTACTACTGCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
21401762 TCTGTGGTTT
Statistics
Matches: 518, Mismatches: 96, Indels: 100
0.73 0.13 0.14
Matches are distributed among these distances:
39 16 0.03
40 150 0.29
41 42 0.08
42 119 0.23
43 69 0.13
44 62 0.12
45 27 0.05
46 27 0.05
47 6 0.01
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGTTGCGA
Found at i:21401247 original size:129 final size:128
Alignment explanation
Indices: 21400992--21401561 Score: 606
Period size: 129 Copynumber: 4.5 Consensus size: 128
21400982 TTGCAACTTC
* * * * ** * *
21400992 AGGGAGGTAAGACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATATGATCTGTGG-TTTT
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTT-AGGGAGATAAGATCTGTGGTTTTT
* * * ** * * **
21401056 GTCTGCTCCACTACTGC-TTAGAGAGATAAGATCT-GTGGTTTT--GTCTGCTCCACTACTGCTT
65 ATCTCCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTCCGTCTGCTCCACTACTGCTT
* *
21401117 AGGGAGATAAGAATTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
*
21401182 TCTCCTCTACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTTCCGTCTGCTCCACTACTGCTT
66 TCTCCTCCACTGCAACTTTAGGGAGATAGGATTGG-TTTTTTTCCGTCTGCTCCACTACTGCTT
* * *
21401246 AGGTAGATAAGACTTGATGCGATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTGTTTTTTA
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
* * * **
21401311 TC-CGCTCCACTGCAACTTTAGGGAGATAGGATTGG-TTTCTTCCGTCTGTTCCACTGCAACTT
66 TCTC-CTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTCCGTCTGCTCCACTACTGCTT
* * * * ** * * *
21401373 CAGGGAGGTAAGACTAGATGCGATCTGCTCTACTGCAACTTTAGAGAGATATGACCTGT-GTTTT
1 -AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTGGTTTT
* * * * **
21401437 TATCTGCTCCACTACTAC-TTAGGGAGATAAGATCT-GTGGTTTT--GTCTGCTCCACTACTGCT
64 TATCTCCTCCACTGCAACTTTAGGGAGATAGGAT-TGGTTTTTTTCCGTCTGCTCCACTACTGCT
21401498 T
128 T
21401499 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
1 AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTT
21401562 GTCTGCTCCA
Statistics
Matches: 369, Mismatches: 63, Indels: 26
0.81 0.14 0.06
Matches are distributed among these distances:
124 33 0.09
125 85 0.23
126 29 0.08
127 42 0.11
128 53 0.14
129 127 0.34
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.34
Consensus pattern (128 bp):
AGGGAGATAAGACTTGATGCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTTA
TCTCCTCCACTGCAACTTTAGGGAGATAGGATTGGTTTTTTTCCGTCTGCTCCACTACTGCTT
Found at i:21401281 original size:89 final size:86
Alignment explanation
Indices: 21401139--21401643 Score: 194
Period size: 82 Copynumber: 5.9 Consensus size: 86
21401129 ATTGATGCGA
* * * *
21401139 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGTTTTAATCTCCTCTACTGCAACTTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATCT-AGCTCCACTACTG----TTTAGG
* *
21401204 GAGATAGGAT-TG-GTTTTTTTTCCG
61 GAGATAAGATCTGTGTTTTTTATCCG
*
21401228 TCTGCTCCACTACTGCTTAGGTAGATAAGA-CTTGATGCGATCT-GCTCCACTACTGTTTAGGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATC-TG-TG-GATCTAGCTCCACTACTGTTTAGGGA
21401291 GATAAGATCTGTGTTTTTTAT-C-
63 GATAAGATCTGTGTTTTTTATCCG
* ** * ** * * ** *
21401313 -C-GCTCCACTGCAACTTTAGGGAGATAGGAT-TG-GTTTCTTCCGTCTGTTCCACTGCAACTTC
1 TCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTGGATC-T-AG-C---TCCACTAC-TGTTT
* * *
21401374 AGGGAGGTAAGA-CT-AG------ATGCG
58 AGGGAGATAAGATCTGTGTTTTTTATCCG
* * ** * * * * **
21401395 ATCTGCTCTACTGCAACTTTAGAGAGATATGACCTGTGTTTTTATCT-GCTCCACTACTACTTAG
1 -TCTGCTCCACTACTGC-TTAGGGAGATAAGATCTGTG----GATCTAGCTCCACTACTGTTTAG
*
21401459 GGAGATAAGATCTGTG--GTTT-T--G
60 GGAGATAAGATCTGTGTTTTTTATCCG
*
21401481 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGATGCGATCT-GCTCCACTACTGCTTAGGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATC-TG-TG-GATCTAGCTCCACTACTGTTTAGGGA
*
21401544 GATAAGATCTGTG--GTTT-T--G
63 GATAAGATCTGTGTTTTTTATCCG
* *
21401563 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTTGATGTGATCT-GCTCCACTGCTGCTTAGGGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATC-TG-TG-GATCTAGCTCCACTACTGTTTAGGGA
*
21401626 GATAAGATCTGTGGTTTT
63 GATAAGATCTGTGTTTTT
21401644 AATTCGCTCC
Statistics
Matches: 336, Mismatches: 44, Indels: 77
0.74 0.10 0.17
Matches are distributed among these distances:
80 4 0.01
81 3 0.01
82 116 0.35
83 26 0.08
84 40 0.12
85 55 0.16
86 7 0.02
87 19 0.06
88 16 0.05
89 41 0.12
90 3 0.01
91 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.24, T:0.34
Consensus pattern (86 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTGGATCTAGCTCCACTACTGTTTAGGGAGAT
AAGATCTGTGTTTTTTATCCG
Found at i:21401720 original size:129 final size:129
Alignment explanation
Indices: 21401562--21401808 Score: 413
Period size: 129 Copynumber: 1.9 Consensus size: 129
21401552 CTGTGGTTTT
* * * *
21401562 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTGCTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
* * * *
21401627 ATAAGATCTGTGGTTTTAATTCGCTCCACTGTAACTTCAGGGAGATAGGATTGGTTTTTTTTCC
66 ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTGGTTTTTTTTCC
*
21401691 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCTACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
21401756 ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTG
66 ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTG
21401809 ATTTCTTTCA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
129 109 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (129 bp):
GTCTGCTCCACTACTGCTTAGGAAGATAAGACTTGATGCGATCTACTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTTTAATCCGCTACACTGCAACTTCAAGGAGATAGGATTGGTTTTTTTTCC
Found at i:21402002 original size:50 final size:50
Alignment explanation
Indices: 21401842--21402566 Score: 378
Period size: 50 Copynumber: 14.5 Consensus size: 50
21401832 GTCGGGGAAC
* * * * **
21401842 AAGATTTGCCATTGTAGCTTCAATCTGATCTACGGC-ATCGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAAT-GCCAGGGAAGT
** * ** * *
21401892 AAGATTCGCCGTTGCGGCTTCAATCT-TTTAATTGCAATATCGGGGAA-C
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * **
21401940 AAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
*** * * ** * *
21401990 AAGATTCGCCGTTACGGCTTCAATCTTTTAAATTGCAATATCAGGGGAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * * * * *
21402040 AAGATTCGTCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * * ** *
21402090 GAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTTCAATATCAGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * * * * * *
21402140 AAGATTCACCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * * * ** *
21402190 GAGATTCACCGTTGTGGCTTTAATCTTTTAAATTGCAATATCAGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * * * * ** * *
21402240 AAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGCTATGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * * * *
21402290 AAGATTCACCGTTGCAGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
*** * ** * * * ** * * *
21402340 AAGATTTATCGTTGTAGCTTTAATCTACTCCACTGGACCGCTATGAAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * * * *
21402390 AAGATTCGCCGTTGCAGCTTCAATCTTTTTAATTGCAATGTC-GGAGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGG-GAAGT
* * * * *
21402440 AAGATTCGCCGTTGTAGCTTTAATCTGCTCCATTGCACTGCCATGGAAGT
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
** * * * * *
21402490 AAGATTCGCCGTTGCGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGC
1 AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
* * *
21402540 AAGATTCACTGTTGTAGCTTTAATCTG
1 AAGATTCGCCGTTGTAGCTTCAATCTG
21402567 CTCCACTGCA
Statistics
Matches: 469, Mismatches: 201, Indels: 10
0.69 0.30 0.01
Matches are distributed among these distances:
48 23 0.05
49 23 0.05
50 422 0.90
51 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (50 bp):
AAGATTCGCCGTTGTAGCTTCAATCTGTTCAATTGCAATGCCAGGGAAGT
Found at i:21402087 original size:100 final size:99
Alignment explanation
Indices: 21401826--21402588 Score: 927
Period size: 100 Copynumber: 7.7 Consensus size: 99
21401816 TCAAATTGAC
* * ** * * * * *
21401826 TGCAATGTCGGGGAACAAGATTTGCCATTGTAGCTTCAATCTGATCTACGGCA-TCGCCAGGGAA
1 TGCAATATCGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACT-GCCAGGGAA
21401890 GTAAGATTCGCCGTTGCGGCTTCAATCTTTT-AAT
65 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * *
21401924 TGCAATATCGGGGAACAAGATTCACCGTTGTAGCTTCAATCTGATCCACTGCACCGCCAGGGAAG
1 TGCAATATCGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAG
*
21401989 TAAGATTCGCCGTTACGGCTTCAATCTTTTAAAT
66 TAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
** * *
21402023 TGCAATATCAGGGGAGCAAGATTCGTCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATC-GGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* *
21402088 GTGAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
21402123 TTCAATATCAGGGAAGCAAGATTCACCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATC-GGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * * *
21402188 GTGAGATTCACCGTTGTGGCTTTAATCTTTTAAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * *
21402223 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGCTTTAATCTGCTCCACTGTACCGCTATGGAA
1 TGCAATATC-GGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* * *
21402288 GTAAGATTCACCGTTGCAGCTTCAATCTTTTTAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * * * * * *
21402323 TGCAATGTCGGGGAAGCAAGATTTATCGTTGTAGCTTTAATCTACTCCACTGGACCGCTATGAAA
1 TGCAATATCGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
* *
21402388 GTAAGATTCGCCGTTGCAGCTTCAATCTTTTTAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * * *
21402423 TGCAATGTCGGAGAAGCAAGATTCGCCGTTGTAGCTTTAATCTGCTCCATTGCACTGCCATGGAA
1 TGCAATATCGG-GGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
21402488 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
65 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
* * * *
21402523 TGCAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTTAATCTGCTCCACTGCACTACTAGGGAA
1 TGCAATATCGGGG-AGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAA
21402588 G
65 G
21402589 GTAACTTCAT
Statistics
Matches: 595, Mismatches: 64, Indels: 10
0.89 0.10 0.01
Matches are distributed among these distances:
98 86 0.14
99 16 0.03
100 492 0.83
101 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (99 bp):
TGCAATATCGGGGAGCAAGATTCACCGTTGTAGCTTTAATCTGCTCCACTGCACTGCCAGGGAAG
TAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
Found at i:21402918 original size:23 final size:24
Alignment explanation
Indices: 21402869--21402925 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
21402859 TGGATTGCCC
21402869 CCACTGTAATCTTCGAAGTTCAAT
1 CCACTGTAATCTTCGAAGTTCAAT
* *
21402893 CCACTGTAATCTT-TAAGTTCAGT
1 CCACTGTAATCTTCGAAGTTCAAT
21402916 CCACTGTAAT
1 CCACTGTAAT
21402926 TTTGGGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 18 0.58
24 13 0.42
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (24 bp):
CCACTGTAATCTTCGAAGTTCAAT
Found at i:21403843 original size:11 final size:11
Alignment explanation
Indices: 21403814--21403855 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
21403804 TGGCGTCTCC
21403814 TTTT-TTTTCGT
1 TTTTCTTTTC-T
*
21403825 TCTTCTTTTCT
1 TTTTCTTTTCT
21403836 TTTTCTTTTCT
1 TTTTCTTTTCT
*
21403847 TTTTATTTT
1 TTTTCTTTT
21403856 TTGTTTCCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 22 0.81
12 5 0.19
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:21403855 original size:16 final size:17
Alignment explanation
Indices: 21403814--21403855 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
21403804 TGGCGTCTCC
21403814 TTTTTTTTCGTTCTTCT
1 TTTTTTTTCGTTCTTCT
21403831 TTTCTTTTTC-TT-TTCT
1 TTT-TTTTTCGTTCTTCT
21403847 TTTTATTTT
1 TTTT-TTTT
21403856 TTGTTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 1 0.04
16 11 0.48
17 5 0.22
18 6 0.26
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.81
Consensus pattern (17 bp):
TTTTTTTTCGTTCTTCT
Found at i:21406997 original size:19 final size:20
Alignment explanation
Indices: 21406968--21407019 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
21406958 CATTTCGTGA
* *
21406968 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
21406987 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
21407007 AAATG-AATGCAAA
1 AAATGTAATGCAAA
21407020 AAGAGACGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.25
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:21413429 original size:44 final size:42
Alignment explanation
Indices: 21413364--21413541 Score: 202
Period size: 44 Copynumber: 4.2 Consensus size: 42
21413354 TAACCGTTAC
* **
21413364 ACGGTGGAACCAGCACTTAGCAACCACCTCATGTTCAAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTCATAATC-AAGGAT
* * *
21413407 CCTGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
1 AC-GGTGGAATCAGCACTTAGCAACCACCTCATAATCAAGGAT
* *
21413450 ACGG-GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGAT
1 ACGGTGGAATCAGCACTTAGCAACCACC--TCATAATCAAGGAT
*
21413492 ACGGTGGAATCAGCACTTAGCAACCACCTTATAATC-AGTGAT
1 ACGGTGGAATCAGCACTTAGCAACCACCTCATAATCAAG-GAT
21413534 ACGG-GGAA
1 ACGGTGGAA
21413542 CTGACACATA
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
40 2 0.02
41 25 0.22
42 30 0.26
43 26 0.23
44 32 0.28
ACGTcount: A:0.34, C:0.26, G:0.20, T:0.20
Consensus pattern (42 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTCATAATCAAGGAT
Found at i:21413470 original size:41 final size:41
Alignment explanation
Indices: 21413413--21413557 Score: 186
Period size: 41 Copynumber: 3.5 Consensus size: 41
21413403 GGATCCTGGT
*
21413413 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
* *
21413454 GGAATCAGCACATAGCAACC-CCTTTCACAATCAAGGATACGG
1 GGAATCAGCACATAGCAACCACC-TT-ATAATCAATGATACGG
* *
21413496 TGGAATCAGCACTTAGCAACCACCTTATAATCAGTGATACGG
1 -GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
*
21413538 GGAA-CTGACACATAGCAACC
1 GGAATCAG-CACATAGCAACC
21413558 TTTTTTTGAA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
40 4 0.04
41 36 0.40
42 27 0.30
43 21 0.23
44 2 0.02
ACGTcount: A:0.36, C:0.26, G:0.19, T:0.19
Consensus pattern (41 bp):
GGAATCAGCACATAGCAACCACCTTATAATCAATGATACGG
Found at i:21413516 original size:84 final size:85
Alignment explanation
Indices: 21413401--21413557 Score: 264
Period size: 84 Copynumber: 1.9 Consensus size: 85
21413391 CTCATGTTCA
*
21413401 AAGGATCCTGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAATCAG-CAC
1 AAGGATACTGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAA-CAGACAC
21413465 ATAGCAACCCCTTTCACAATC
65 ATAGCAACCCCTTTCACAATC
* *
21413486 AAGGATAC-GGTGGAATCAGCACTTAGCAACCACCTTATAATCAGTGATACGGGGAACTGACACA
1 AAGGATACTGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAACAGACACA
21413550 TAGCAACC
66 TAGCAACC
21413558 TTTTTTTGAA
Statistics
Matches: 68, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
83 2 0.03
84 59 0.87
85 7 0.10
ACGTcount: A:0.35, C:0.25, G:0.20, T:0.20
Consensus pattern (85 bp):
AAGGATACTGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGGGGAACAGACACA
TAGCAACCCCTTTCACAATC
Found at i:21413694 original size:11 final size:11
Alignment explanation
Indices: 21413678--21413702 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21413668 AAATTTTCCA
21413678 ATTTATTCTAT
1 ATTTATTCTAT
21413689 ATTTATTCTAT
1 ATTTATTCTAT
21413700 ATT
1 ATT
21413703 CAATCATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTTATTCTAT
Found at i:21423426 original size:24 final size:24
Alignment explanation
Indices: 21423394--21423451 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 24
21423384 ATGTGTAATT
*
21423394 AAAATAATTTGAGCTC-AAGTTTTA
1 AAAAAAATTTGAGCTCAAAG-TTTA
21423418 AAAAAAA-TTGAGCTCAAAGTTTA
1 AAAAAAATTTGAGCTCAAAGTTTA
21423441 ATAAAAAATTT
1 A-AAAAAATTT
21423452 AAGGTTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 13 0.43
24 15 0.50
25 2 0.07
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (24 bp):
AAAAAAATTTGAGCTCAAAGTTTA
Found at i:21423428 original size:23 final size:23
Alignment explanation
Indices: 21423392--21423450 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
21423382 AAATGTGTAA
* *
21423392 TTAAAATAATTTGAGCTC-AAGTT
1 TTAAAAAAAATTGAGCTCAAAG-T
21423415 TTAAAAAAAATTGAGCTCAAAGT
1 TTAAAAAAAATTGAGCTCAAAGT
21423438 TTAATAAAAAATT
1 TTAA-AAAAAATT
21423451 TAAGGTTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.34
Consensus pattern (23 bp):
TTAAAAAAAATTGAGCTCAAAGT
Found at i:21436619 original size:79 final size:79
Alignment explanation
Indices: 21436494--21436780 Score: 337
Period size: 79 Copynumber: 3.6 Consensus size: 79
21436484 GTTTATAAAG
* * *
21436494 AGAAATCGATTGAACAATTCTGTTTTAGGATTTTATTCCTATCGTTCAACAAGATTTGTTCGATT
1 AGAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGATT
* *
21436559 TTCTGTTTCCAAAC
66 TTCTATTTCCAAAA
* * * * *
21436573 ATAAATCAATTGAATAATTTTGTTTCAGGATTTTATTCTTGCCGTTCAACAAGATTTGGTT-GAT
1 AGAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTT-GTTCGAT
* * *
21436637 TTTTTCTTTCCAAAT
65 TTTCTATTTCCAAAA
* * * * * *
21436652 AGAAA-CAAATTAAACAATTCTGTTTTAGGATTTTATCCCTGTCATTCAACAAGATTTCTTCGAA
1 AGAAATC-AATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGAT
21436716 TTTCTATTTCCAAAA
65 TTTCTATTTCCAAAA
* *
21436731 AGAAATCAATTGAACAATTTTGTTTC-GAGATTCTATTCCTGTCGTTCAAC
1 AGAAATCAATTGAACAATTCTGTTTCAG-GATTTTATTCCTGTCGTTCAAC
21436781 TGAATTTATT
Statistics
Matches: 172, Mismatches: 31, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
78 4 0.02
79 164 0.95
80 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.12, T:0.41
Consensus pattern (79 bp):
AGAAATCAATTGAACAATTCTGTTTCAGGATTTTATTCCTGTCGTTCAACAAGATTTGTTCGATT
TTCTATTTCCAAAA
Done.