Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 48 of 343
Found at i:15839569 original size:4 final size:5
Alignment explanation
Indices: 15839525--15839576 Score: 54
Period size: 5 Copynumber: 10.2 Consensus size: 5
15839515 GTTAGTGAGC
*
15839525 TAATA TAAATA TAAATA TAAATA TAATT TAATA T-ATA TAAT- TAATA
1 TAATA T-AATA T-AATA T-AATA TAATA TAATA TAATA TAATA TAATA
15839571 TAATA T
1 TAATA T
15839577 TTTTTATAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
4 8 0.19
5 17 0.40
6 17 0.40
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:15848822 original size:10 final size:10
Alignment explanation
Indices: 15848807--15848862 Score: 78
Period size: 10 Copynumber: 5.6 Consensus size: 10
15848797 AATTTAAAAA
15848807 GATAAATAAG
1 GATAAATAAG
15848817 GATAAATAAG
1 GATAAATAAG
*
15848827 GATAAATAAA
1 GATAAATAAG
15848837 GATAAAT-AG
1 GATAAATAAG
*
15848846 AGATAAATAAA
1 -GATAAATAAG
15848857 GATAAA
1 GATAAA
15848863 AGCTAAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
9 1 0.02
10 39 0.95
11 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.16, T:0.20
Consensus pattern (10 bp):
GATAAATAAG
Found at i:15848832 original size:20 final size:20
Alignment explanation
Indices: 15848806--15848862 Score: 89
Period size: 20 Copynumber: 2.9 Consensus size: 20
15848796 AAATTTAAAA
*
15848806 AGATAAATAAGGATAAATA-
1 AGATAAATAAAGATAAATAG
15848825 AGGATAAATAAAGATAAATAG
1 A-GATAAATAAAGATAAATAG
15848846 AGATAAATAAAGATAAA
1 AGATAAATAAAGATAAA
15848863 AGCTAAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.16, T:0.19
Consensus pattern (20 bp):
AGATAAATAAAGATAAATAG
Found at i:15848838 original size:30 final size:30
Alignment explanation
Indices: 15848804--15848862 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
15848794 CTAAATTTAA
*
15848804 AAAGATAAATA-AGGATAAATAAGGATAAAT
1 AAAGATAAATAGA-GATAAATAAAGATAAAT
15848834 AAAGATAAATAGAGATAAATAAAGATAAA
1 AAAGATAAATAGAGATAAATAAAGATAAA
15848863 AGCTAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 26 0.96
31 1 0.04
ACGTcount: A:0.66, C:0.00, G:0.15, T:0.19
Consensus pattern (30 bp):
AAAGATAAATAGAGATAAATAAAGATAAAT
Found at i:15850843 original size:5 final size:5
Alignment explanation
Indices: 15850833--15850865 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
15850823 ATTAATATCC
*
15850833 AAACA AAACA AAACA AAACA AAACA AAATA AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAA
15850866 TAATAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.82, C:0.15, G:0.00, T:0.03
Consensus pattern (5 bp):
AAACA
Found at i:15850875 original size:13 final size:15
Alignment explanation
Indices: 15850857--15850893 Score: 60
Period size: 13 Copynumber: 2.6 Consensus size: 15
15850847 AAAACAAAAC
15850857 AAAATAAAAT-AAT-
1 AAAATAAAATAAATA
15850870 AAAATAAAATAAATA
1 AAAATAAAATAAATA
15850885 AAAATAAAA
1 AAAATAAAA
15850894 ATTTGTCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.45
14 3 0.14
15 9 0.41
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (15 bp):
AAAATAAAATAAATA
Found at i:15856258 original size:10 final size:10
Alignment explanation
Indices: 15856240--15856288 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
15856230 CTAAATTCTA
15856240 AAAGATAAAG
1 AAAGATAAAG
* *
15856250 AAGGATAAAT
1 AAAGATAAAG
*
15856260 AAAGATAAAT
1 AAAGATAAAG
* *
15856270 AGAGATAAAT
1 AAAGATAAAG
15856280 AAAGATAAA
1 AAAGATAAA
15856289 AGCTAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 34 1.00
ACGTcount: A:0.67, C:0.00, G:0.16, T:0.16
Consensus pattern (10 bp):
AAAGATAAAG
Found at i:15856265 original size:20 final size:20
Alignment explanation
Indices: 15856240--15856289 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
15856230 CTAAATTCTA
15856240 AAAGATAAAGAAG-GATAAAT
1 AAAGATAAA-AAGAGATAAAT
*
15856260 AAAGATAAATAGAGATAAAT
1 AAAGATAAAAAGAGATAAAT
15856280 AAAGATAAAA
1 AAAGATAAAA
15856290 GCTAAAATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 25 0.93
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (20 bp):
AAAGATAAAAAGAGATAAAT
Found at i:15863221 original size:19 final size:19
Alignment explanation
Indices: 15863167--15863224 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
15863157 ATTTTGTAGA
15863167 AAAATATTTTATT-ATTTT
1 AAAATATTTTATTAATTTT
*
15863185 AATAAGATTTAATATTAATTTT
1 AA-AATATTT--TATTAATTTT
*
15863207 TAAATATTTTATTAATTT
1 AAAATATTTTATTAATTT
15863225 AATATTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 2 0.06
19 15 0.45
21 10 0.30
22 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
AAAATATTTTATTAATTTT
Found at i:15863700 original size:26 final size:26
Alignment explanation
Indices: 15863671--15863725 Score: 74
Period size: 26 Copynumber: 2.1 Consensus size: 26
15863661 CAGGCAAATT
* * *
15863671 TTAATATCGGGCATATACTTTCTTCC
1 TTAACATCGGGCAGATACTTTCATCC
*
15863697 TTAACATCGGGCGGATACTTTCATCC
1 TTAACATCGGGCAGATACTTTCATCC
15863723 TTA
1 TTA
15863726 CACAAAGAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.38
Consensus pattern (26 bp):
TTAACATCGGGCAGATACTTTCATCC
Found at i:15864016 original size:48 final size:48
Alignment explanation
Indices: 15863961--15864056 Score: 147
Period size: 48 Copynumber: 2.0 Consensus size: 48
15863951 TCAACAATTG
* *
15863961 TACATAACATTTAACACCTACAGAGTCATATTAACTTACTATTTTCAA
1 TACATAACATATAACACATACAGAGTCATATTAACTTACTATTTTCAA
* * *
15864009 TACATAACATATATCACATACAGAGTCATATTGACTTACTCTTTTCAA
1 TACATAACATATAACACATACAGAGTCATATTAACTTACTATTTTCAA
15864057 ATATTTCCTT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 43 1.00
ACGTcount: A:0.39, C:0.21, G:0.05, T:0.35
Consensus pattern (48 bp):
TACATAACATATAACACATACAGAGTCATATTAACTTACTATTTTCAA
Found at i:15866053 original size:21 final size:21
Alignment explanation
Indices: 15866027--15866080 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
15866017 TCCCTTACAC
*
15866027 TTCTACCGATACTCTGTTGGG
1 TTCTACCGATACTCTATTGGG
15866048 TTCTACCGATACTCTATTGGG
1 TTCTACCGATACTCTATTGGG
15866069 TTCTACCGATAC
1 TTCTACCGATAC
15866081 CAGTTGGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.19, C:0.26, G:0.19, T:0.37
Consensus pattern (21 bp):
TTCTACCGATACTCTATTGGG
Found at i:15868378 original size:29 final size:29
Alignment explanation
Indices: 15868341--15868435 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
15868331 AAACAAACAT
* * *
15868341 CTTTT-TGGTTTTCTTAGTTAAATGAATG
1 CTTTTGTGGTTATCTTAGTTAAAAGGATG
* *
15868369 CTTTTGTGGTGATCTCAGTTAAAAGGATG
1 CTTTTGTGGTTATCTTAGTTAAAAGGATG
* * * *
15868398 CCTTTGTGGCTACCTTTGTTAAAAGGATG
1 CTTTTGTGGTTATCTTAGTTAAAAGGATG
15868427 CTTTTGTGG
1 CTTTTGTGG
15868436 CCATTCTTGT
Statistics
Matches: 54, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
28 5 0.09
29 49 0.91
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (29 bp):
CTTTTGTGGTTATCTTAGTTAAAAGGATG
Found at i:15868445 original size:29 final size:28
Alignment explanation
Indices: 15868352--15868449 Score: 88
Period size: 29 Copynumber: 3.4 Consensus size: 28
15868342 TTTTTGGTTT
* * **
15868352 TCTTAGTTAAATGAATGCTTTTGTGGTGA
1 TCTT-GTTAAAAGGATGCTTTTGTGGCCA
* * *
15868381 TCTCAGTTAAAAGGATGCCTTTGTGGCTA
1 TCT-TGTTAAAAGGATGCTTTTGTGGCCA
*
15868410 CCTTTGTTAAAAGGATGCTTTTGTGGCCA
1 TC-TTGTTAAAAGGATGCTTTTGTGGCCA
15868439 TTCTTGTTAAA
1 -TCTTGTTAAA
15868450 GGAATTCGTG
Statistics
Matches: 55, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
29 53 0.96
30 2 0.04
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.41
Consensus pattern (28 bp):
TCTTGTTAAAAGGATGCTTTTGTGGCCA
Found at i:15874279 original size:29 final size:29
Alignment explanation
Indices: 15874247--15874303 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
15874237 TTTAAATCAG
15874247 AAAACATTGATCTACAAATAAATAATCCA
1 AAAACATTGATCTACAAATAAATAATCCA
15874276 AAAACATTGATCTACAAATAAATAATCC
1 AAAACATTGATCTACAAATAAATAATCC
15874304 GACTTTTAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.25
Consensus pattern (29 bp):
AAAACATTGATCTACAAATAAATAATCCA
Found at i:15875558 original size:16 final size:17
Alignment explanation
Indices: 15875528--15875565 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
15875518 ATTTTTATAT
*
15875528 AAAATAAATTGTTTTAC
1 AAAATAAATTATTTTAC
*
15875545 AAAAT-AATTATTTTTC
1 AAAATAAATTATTTTAC
15875561 AAAAT
1 AAAAT
15875566 TTTTGGTAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (17 bp):
AAAATAAATTATTTTAC
Found at i:15882939 original size:8 final size:8
Alignment explanation
Indices: 15882926--15882956 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
15882916 CTTTATCTTA
15882926 TTTGTTGT
1 TTTGTTGT
15882934 TTTGTTGT
1 TTTGTTGT
15882942 TTTGTTGT
1 TTTGTTGT
*
15882950 TGTGTTG
1 TTTGTTG
15882957 ATGAACATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.00, C:0.00, G:0.29, T:0.71
Consensus pattern (8 bp):
TTTGTTGT
Found at i:15884672 original size:53 final size:53
Alignment explanation
Indices: 15884609--15884715 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
15884599 ATTTCTTTTT
15884609 TTCTACACCGTTATTTTTCCATGAAAATAGACTCAACAAACTTTAATTCCATA
1 TTCTACACCGTTATTTTTCCATGAAAATAGACTCAACAAACTTTAATTCCATA
15884662 TTCTACACCGTTATTTTTCCATGAAAATAGACTCAACAAACTTTAATTCCATA
1 TTCTACACCGTTATTTTTCCATGAAAATAGACTCAACAAACTTTAATTCCATA
15884715 T
1 T
15884716 ATCATTCACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.36, C:0.22, G:0.06, T:0.36
Consensus pattern (53 bp):
TTCTACACCGTTATTTTTCCATGAAAATAGACTCAACAAACTTTAATTCCATA
Found at i:15885557 original size:50 final size:50
Alignment explanation
Indices: 15885433--15885683 Score: 279
Period size: 50 Copynumber: 4.8 Consensus size: 50
15885423 GATAATAACA
* * ** * *
15885433 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
15885484 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
15885534 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC--AGGGGACCTCTCATCTCGG
* *
15885586 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
15885641 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
15885684 TTACCCAAAT
Statistics
Matches: 172, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
49 1 0.01
50 47 0.27
51 33 0.19
52 47 0.27
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:15885588 original size:52 final size:52
Alignment explanation
Indices: 15885433--15885674 Score: 282
Period size: 52 Copynumber: 4.6 Consensus size: 52
15885423 GATAATAACA
* ** *
15885433 TGCCAAAGCCATGTCCCAGACATGGTCTTACAT--GGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGGGA-CCTCTCGT-CTCGG
* *
15885484 TGCCCATGCCATGTCCCAGACATGGTCTT--ATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGGGACCTCTCGTCTCGG
*
15885534 TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGGGACCTCTCGTCTCGG
* *
15885586 TGCCCATGCCATGTCCCAGACATGGTCTTAC--AGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGGGACCTCTC--G-TC-T-CGG
15885641 ATGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAT
15885675 GGGATCTCTT
Statistics
Matches: 165, Mismatches: 13, Indels: 19
0.84 0.07 0.10
Matches are distributed among these distances:
49 3 0.02
50 46 0.28
51 31 0.19
52 50 0.30
53 2 0.01
54 1 0.01
55 2 0.01
56 30 0.18
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (52 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGGGACCTCTCGTCTCGG
Found at i:15885609 original size:102 final size:105
Alignment explanation
Indices: 15885432--15885680 Score: 348
Period size: 102 Copynumber: 2.4 Consensus size: 105
15885422 TGATAATAAC
**
15885432 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
* *
15885497 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
66 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
15885534 -TGCCAACGCCATGTCCCAGACATGGTCTTACATAGGGGA-CCTCTCGT-CTCGGTGCCCATGCC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACAT--GGGATCCTCTCGTGAT-GGTGCCCATGCC
15885596 ATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
63 ATGTCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
*
15885641 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATC
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATC
15885681 TCTTTACCCA
Statistics
Matches: 130, Mismatches: 7, Indels: 15
0.86 0.05 0.10
Matches are distributed among these distances:
101 33 0.25
102 50 0.38
103 4 0.03
105 3 0.02
106 5 0.04
107 3 0.02
108 32 0.25
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.25
Consensus pattern (105 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATGGTGCCCATGCCATG
TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:15885799 original size:13 final size:13
Alignment explanation
Indices: 15885778--15885809 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15885768 GCTTGGATCA
*
15885778 TCATCAAATAAAT
1 TCATAAAATAAAT
15885791 TCATAAAATAAAT
1 TCATAAAATAAAT
15885804 TCATAA
1 TCATAA
15885810 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:15886057 original size:30 final size:30
Alignment explanation
Indices: 15886021--15886078 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15886011 CCTCGACTCT
*
15886021 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
15886051 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
15886079 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:15886916 original size:3 final size:3
Alignment explanation
Indices: 15886908--15886956 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
15886898 TCATATATAT
*
15886908 ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA AT- ATA TTA ATA ATA AT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
15886951 ATA ATA
1 ATA ATA
15886957 TAAAAACATA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 10 0.26
3 29 0.74
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
ATA
Found at i:15886919 original size:8 final size:8
Alignment explanation
Indices: 15886906--15886959 Score: 76
Period size: 8 Copynumber: 6.8 Consensus size: 8
15886896 TTTCATATAT
15886906 ATATAATA
1 ATATAATA
15886914 ATATAATA
1 ATATAATA
15886922 ATATAATA
1 ATATAATA
15886930 ATATAAT-
1 ATATAATA
15886937 ATATTAATA
1 ATA-TAATA
15886946 ATA-ATATA
1 ATATA-ATA
15886954 ATATAA
1 ATATAA
15886960 AAACATAATT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
7 4 0.10
8 34 0.81
9 4 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATAATA
Found at i:15886921 original size:5 final size:5
Alignment explanation
Indices: 15886911--15886959 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
15886901 TATATATATA
15886911 ATAAT ATAAT A-ATAT AATAAT ATAAT AT-AT -TAAT AATAAT ATAAT
1 ATAAT ATAAT ATA-AT -ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
15886956 ATAA
1 ATAA
15886960 AAACATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
3 1 0.03
4 5 0.13
5 24 0.63
6 7 0.18
7 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:15886934 original size:24 final size:24
Alignment explanation
Indices: 15886900--15886968 Score: 79
Period size: 24 Copynumber: 2.8 Consensus size: 24
15886890 TTTCTTTTTC
15886900 ATATATATATAATAATATAATAAT-
1 ATATA-ATATAATAATATAATAATA
15886924 ATAATAATATAAT-ATATTAATAATA
1 AT-ATAATATAATAATA-TAATAATA
* *
15886949 ATATAATATAAAAACATAAT
1 ATATAATATAATAATATAAT
15886969 TATTACTTAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
23 3 0.08
24 29 0.74
25 7 0.18
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (24 bp):
ATATAATATAATAATATAATAATA
Found at i:15892236 original size:55 final size:55
Alignment explanation
Indices: 15892114--15892240 Score: 157
Period size: 55 Copynumber: 2.3 Consensus size: 55
15892104 CGAGCCTGCC
* *
15892114 AAAACAACACGGGCGTGCGACACGCCCGTGTGGAAGAACCATGGGTAAACCTGTT
1 AAAACAACACGGACGTGCGACACGCCCGTGTGGAACAACCATGGGTAAACCTGTT
** * * *
15892169 AAAACAGTACGGACGTTCGACATGCCCGTGTGGAACACCCAT-GGTCAAACCTGTT
1 AAAACAACACGGACGTGCGACACGCCCGTGTGGAACAACCATGGGT-AAACCTGTT
**
15892224 AAATTAACACGGACGTG
1 AAAACAACACGGACGTG
15892241 AGGTTTACAC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
54 3 0.05
55 56 0.95
ACGTcount: A:0.31, C:0.25, G:0.26, T:0.17
Consensus pattern (55 bp):
AAAACAACACGGACGTGCGACACGCCCGTGTGGAACAACCATGGGTAAACCTGTT
Found at i:15897141 original size:24 final size:24
Alignment explanation
Indices: 15897109--15897158 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
15897099 TAGCTTAATC
15897109 TAGCTAGCCCATTGGTCAATTTGT
1 TAGCTAGCCCATTGGTCAATTTGT
15897133 TAGCTAGCCCATTGGTCAATTTGT
1 TAGCTAGCCCATTGGTCAATTTGT
15897157 TA
1 TA
15897159 AGTTATTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (24 bp):
TAGCTAGCCCATTGGTCAATTTGT
Found at i:15901819 original size:16 final size:17
Alignment explanation
Indices: 15901783--15901821 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
15901773 TTTTGAAAAG
15901783 AAAACAAATGAATCTTA
1 AAAACAAATGAATCTTA
* *
15901800 AAAACGAATGAGTCTTA
1 AAAACAAATGAATCTTA
15901817 AAAAC
1 AAAAC
15901822 TTAATAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.56, C:0.13, G:0.10, T:0.21
Consensus pattern (17 bp):
AAAACAAATGAATCTTA
Found at i:15907582 original size:167 final size:167
Alignment explanation
Indices: 15907306--15907633 Score: 629
Period size: 167 Copynumber: 2.0 Consensus size: 167
15907296 AGTGAATGGC
* *
15907306 ATCATCAGAAACGCCATTAATTTTGAAAGTGTCACAAAACTCCAGAAAATTCTCCAATTGAGTGT
1 ATCATCAGAAACGCCATTAATTTTGAAAGTGTCACAAAACTCCAGAAAATTCGCCAAGTGAGTGT
15907371 TGGGATCCTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCATCTGAATTGTGTTAGGT
66 TGGGATCCTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCATCTGAATTGTGTTAGGT
15907436 TTCAGTTCAAAATTATTCGTAGCAATAGCAGTTCAAA
131 TTCAGTTCAAAATTATTCGTAGCAATAGCAGTTCAAA
15907473 ATCATCAGAAACGCCATTAATTTTGAAAGTGTCACAAAACTCCAGAAAATTCGCCAAGTGAGTGT
1 ATCATCAGAAACGCCATTAATTTTGAAAGTGTCACAAAACTCCAGAAAATTCGCCAAGTGAGTGT
*
15907538 TGGGATCCTCATCCTGCAAACCATCAAACTGAATAAACTGCTGTATCATCTGAATTGTGTTAGGT
66 TGGGATCCTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCATCTGAATTGTGTTAGGT
15907603 TTCAGTTCAAAATTATTCGTAGCAATAGCAG
131 TTCAGTTCAAAATTATTCGTAGCAATAGCAG
15907634 GTCTAACTAT
Statistics
Matches: 158, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
167 158 1.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (167 bp):
ATCATCAGAAACGCCATTAATTTTGAAAGTGTCACAAAACTCCAGAAAATTCGCCAAGTGAGTGT
TGGGATCCTCATCCTGCAAACCATCAAACTGAACAAACTGCTGTATCATCTGAATTGTGTTAGGT
TTCAGTTCAAAATTATTCGTAGCAATAGCAGTTCAAA
Found at i:15922672 original size:11 final size:11
Alignment explanation
Indices: 15922656--15922681 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15922646 TGTGTATGTA
15922656 TATATATATAT
1 TATATATATAT
15922667 TATATATATAT
1 TATATATATAT
15922678 TATA
1 TATA
15922682 AATGTGTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TATATATATAT
Found at i:15925875 original size:48 final size:50
Alignment explanation
Indices: 15925801--15925894 Score: 120
Period size: 48 Copynumber: 1.9 Consensus size: 50
15925791 TATCGACTTT
* * *
15925801 GATATGTGTGATCCCATATAATACCATGTCTAGGACATGGCATTGGCATC
1 GATATGTGTGATCCCATATAAGACCATATCGAGGACATGGCATTGGCATC
* * *
15925851 GATATGTG-G-TCCCATGTAAGACCATATCGAGGATATGGCGTTGG
1 GATATGTGTGATCCCATATAAGACCATATCGAGGACATGGCATTGG
15925895 AACCCTACTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
48 29 0.76
49 1 0.03
50 8 0.21
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
GATATGTGTGATCCCATATAAGACCATATCGAGGACATGGCATTGGCATC
Found at i:15935484 original size:43 final size:44
Alignment explanation
Indices: 15935417--15935499 Score: 141
Period size: 43 Copynumber: 1.9 Consensus size: 44
15935407 TGGTTGGTTG
15935417 TTAGATGAATTAGGCTAAAATTAGCATATAGAATGTATATAAAT
1 TTAGATGAATTAGGCTAAAATTAGCATATAGAATGTATATAAAT
* *
15935461 TTAGATGGATTA-GCTAAAATTAGCATATGGAATGTATAT
1 TTAGATGAATTAGGCTAAAATTAGCATATAGAATGTATAT
15935500 GAATACCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
43 26 0.70
44 11 0.30
ACGTcount: A:0.42, C:0.05, G:0.18, T:0.35
Consensus pattern (44 bp):
TTAGATGAATTAGGCTAAAATTAGCATATAGAATGTATATAAAT
Found at i:15936743 original size:21 final size:21
Alignment explanation
Indices: 15936717--15936756 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
15936707 TGATAGTGTT
15936717 CTTTGAAGATATAATTTTTTG
1 CTTTGAAGATATAATTTTTTG
15936738 CTTTGAAGATATAATTTTT
1 CTTTGAAGATATAATTTTT
15936757 CTCTGTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (21 bp):
CTTTGAAGATATAATTTTTTG
Found at i:15942662 original size:45 final size:45
Alignment explanation
Indices: 15942494--15942705 Score: 168
Period size: 45 Copynumber: 4.8 Consensus size: 45
15942484 CCATACAATT
* * ** * *
15942494 CCAACGTCCCAGACGTGATCTTACATGTTATCTC--ATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCGATA
* ** *
15942537 CC-ACTGTCCCAAACAAGGTCTTACACG-AATC-GA-ATAT-GATA
1 CCAAC-GTCCCAGACGTGGTCTTACACGAAATCACATATATCGATA
* ** * * * * * *
15942578 CCGATATCCCAAACATGGTCTTACACGTAACCACGTATATCGATG
1 CCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCGATA
*
15942623 CCAACGTCCTAGACGTGGTCTTACACGAAATCACATATATCGATA
1 CCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCGATA
* *
15942668 CCAACTTCCCAGACGTGGTCTTTCACGAAATCACATAT
1 CCAACGTCCCAGACGTGGTCTTACACGAAATCACATAT
15942706 CGGAATCCTA
Statistics
Matches: 134, Mismatches: 28, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
41 25 0.19
42 13 0.10
43 19 0.14
44 4 0.03
45 73 0.54
ACGTcount: A:0.31, C:0.28, G:0.15, T:0.25
Consensus pattern (45 bp):
CCAACGTCCCAGACGTGGTCTTACACGAAATCACATATATCGATA
Found at i:15950012 original size:24 final size:24
Alignment explanation
Indices: 15949985--15950077 Score: 143
Period size: 24 Copynumber: 3.9 Consensus size: 24
15949975 GAAATGACCT
*
15949985 TGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
15950009 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
15950033 TGGCACTATGTGTGCGGATTT-ATA
1 TGGCACTATGTGTGCGGATTTGA-A
*
15950057 CGGCACTATGTGTGCGGATTT
1 TGGCACTATGTGTGCGGATTT
15950078 CAATCGTCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
24 64 1.00
ACGTcount: A:0.18, C:0.13, G:0.32, T:0.37
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:15957420 original size:24 final size:24
Alignment explanation
Indices: 15957393--15957552 Score: 130
Period size: 24 Copynumber: 6.6 Consensus size: 24
15957383 GAAATGACCT
15957393 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
15957417 TGGCACTATGTGTGCGGATTTGTA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
15957441 TAGCACTATGTATACGGATTT-ATA
1 TGGCACTATGTGTGCGGATTTGA-A
* *
15957465 CGGCACTATGTGTGTGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* ** *
15957489 TCGTCGA-TATGTGTATGGATTATTAA
1 T-GGC-ACTATGTGTGCGGATT-TGAA
* *
15957515 -GGCACTATGTGTGCGG-GTTAACA
1 TGGCACTATGTGTGCGGATTTGA-A
*
15957538 TGGCACTATGGGTGC
1 TGGCACTATGTGTGC
15957553 AAATTTCCTT
Statistics
Matches: 108, Mismatches: 20, Indels: 16
0.75 0.14 0.11
Matches are distributed among these distances:
22 2 0.02
23 3 0.03
24 83 0.77
25 16 0.15
26 4 0.04
ACGTcount: A:0.23, C:0.13, G:0.30, T:0.34
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:15960580 original size:45 final size:45
Alignment explanation
Indices: 15960432--15960691 Score: 271
Period size: 45 Copynumber: 5.9 Consensus size: 45
15960422 ATACCATACA
* * * ** *
15960432 ATGCCAACGTCCCAGACGTGGTCTTACATGTTAT--CTTATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* * * *
15960475 TTGCCACTGTCCCAGACAGGGTCTTACACG-AATCA-A-ATA-CA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* * * * *
15960516 ATGTCGATGTCCTAGACATGGTCTTACACGTAACCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATATCG
*
15960561 ATGCCAATGTCCCAAACATGGTCTTACACGAAATCACATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* * * * *
15960606 ATGCCAACGACCCAGACATGGTCTTACATGAAACCACATATATTG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATATCG
* *
15960651 AAGCCAACGTCCCAGACATGGTCTTACACGAAATCACATAT
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATAT
15960692 CAAAATCCTA
Statistics
Matches: 178, Mismatches: 33, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
41 25 0.14
42 9 0.05
43 25 0.14
44 3 0.02
45 116 0.65
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACATATATCG
Found at i:15960646 original size:90 final size:89
Alignment explanation
Indices: 15960427--15960691 Score: 315
Period size: 90 Copynumber: 3.0 Consensus size: 89
15960417 CACATATACC
* * * * * *
15960427 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTTA--TCTTATATCGTTGCCACTGTCCCAG
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAACCACATATATCGATGCCAATGTCCCAG
*
15960490 ACAGGGTCTTACACG-AATCA-A-
66 ACATGGTCTTACACGAAATCACAT
* * * * * *
15960511 ATACAATGTCGATGTCCTAGACATGGTCTTACACGTAACCACATATATCGATGCCAATGTCCCAA
1 ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAACCACATATATCGATGCCAATGTCCCAG
15960576 ACATGGTCTTACACGAAATCACAT
66 ACATGGTCTTACACGAAATCACAT
* * * * * *
15960600 ATATCGATGCCAACGACCCAGACATGGTCTTACATGAAACCACATATATTGAAGCCAACGTCCCA
1 ATA-CAATGCCAACGTCCCAGACATGGTCTTACATGTAACCACATATATCGATGCCAATGTCCCA
15960665 GACATGGTCTTACACGAAATCACAT
65 GACATGGTCTTACACGAAATCACAT
15960690 AT
1 AT
15960692 CAAAATCCTA
Statistics
Matches: 150, Mismatches: 25, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
84 31 0.21
86 34 0.23
87 5 0.03
88 1 0.01
89 3 0.02
90 76 0.51
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (89 bp):
ATACAATGCCAACGTCCCAGACATGGTCTTACATGTAACCACATATATCGATGCCAATGTCCCAG
ACATGGTCTTACACGAAATCACAT
Found at i:15966835 original size:25 final size:26
Alignment explanation
Indices: 15966786--15966836 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
15966776 TTTATTATTT
*
15966786 TTATTAAAATATATTTAATAATAATC
1 TTATTAAAATATATATAATAATAATC
*
15966812 TTATTAAAATTTA-ATAATAATAATC
1 TTATTAAAATATATATAATAATAATC
15966837 ATCTACCTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.48
26 12 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
TTATTAAAATATATATAATAATAATC
Found at i:15969510 original size:12 final size:12
Alignment explanation
Indices: 15969495--15969527 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
15969485 GACGCCACAC
15969495 GGCCGTGTGGTA
1 GGCCGTGTGGTA
*
15969507 GGCCGCGTGGTA
1 GGCCGTGTGGTA
15969519 GGCCGTGTG
1 GGCCGTGTG
15969528 CAATGACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.21, G:0.52, T:0.21
Consensus pattern (12 bp):
GGCCGTGTGGTA
Found at i:15979033 original size:27 final size:28
Alignment explanation
Indices: 15978990--15979042 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
15978980 AAATATTAAG
*
15978990 ATAATTCTAATAAAAAATTTAGAGAAAT
1 ATAATTCTAATAAAAAATTGAGAGAAAT
*
15979018 ATAATT-TAATAGAAAATTGAGAGAA
1 ATAATTCTAATAAAAAATTGAGAGAA
15979043 TTTTGAGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.57, C:0.02, G:0.11, T:0.30
Consensus pattern (28 bp):
ATAATTCTAATAAAAAATTGAGAGAAAT
Found at i:15980255 original size:18 final size:20
Alignment explanation
Indices: 15980234--15980274 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
15980224 TAAATCATAG
*
15980234 AAAATTATT-AAAATT-ACA
1 AAAATGATTAAAAATTAACA
15980252 AAAATGATTAAAAATTAACA
1 AAAATGATTAAAAATTAACA
15980272 AAA
1 AAA
15980275 GTTTACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 6 0.30
20 6 0.30
ACGTcount: A:0.66, C:0.05, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAATGATTAAAAATTAACA
Found at i:15980608 original size:29 final size:29
Alignment explanation
Indices: 15980566--15980642 Score: 91
Period size: 30 Copynumber: 2.6 Consensus size: 29
15980556 TATATTAACT
* *
15980566 TAAATAATCAATTAAGTCAAGTAAAATAA
1 TAAAAAATCAATTAAGCCAAGTAAAATAA
* **
15980595 TAAAAAATCAATTAAACCCTCGTAAAATAA
1 TAAAAAATCAATT-AAGCCAAGTAAAATAA
*
15980625 TATAAAATCAATTAAGCC
1 TAAAAAATCAATTAAGCC
15980643 TTCCATATCA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
29 16 0.40
30 24 0.60
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (29 bp):
TAAAAAATCAATTAAGCCAAGTAAAATAA
Found at i:15982834 original size:16 final size:16
Alignment explanation
Indices: 15982793--15982834 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
15982783 TATTTGAAAT
*
15982793 AATTAATAATTAATTA
1 AATTAATATTTAATTA
*
15982809 AATTATTATTTAATTGA
1 AATTAATATTTAATT-A
15982826 AA-TAATATT
1 AATTAATATT
15982835 ATTTTTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
AATTAATATTTAATTA
Found at i:15982834 original size:19 final size:19
Alignment explanation
Indices: 15982786--15982838 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 19
15982776 TATGAAATAT
* *
15982786 TTGAAATAATTAATAATTAA
1 TTGAAATAA-TATTATTTAA
15982806 TT-AAAT--TATTATTTAA
1 TTGAAATAATATTATTTAA
15982822 TTGAAATAATATTATTT
1 TTGAAATAATATTATTT
15982839 TTCATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 10 0.36
17 4 0.14
19 12 0.43
20 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TTGAAATAATATTATTTAA
Found at i:15994613 original size:26 final size:26
Alignment explanation
Indices: 15994583--15994662 Score: 88
Period size: 28 Copynumber: 2.9 Consensus size: 26
15994573 CCCATTGAAT
15994583 CATTCGATATTTCGCACACTAAGTGC
1 CATTCGATATTTCGCACACTAAGTGC
*
15994609 CATTCTCAATATTTCGCACACTAAGTGC
1 CA-T-TCGATATTTCGCACACTAAGTGC
* * *
15994637 CATATTTGATGTTCCGCACACTAAGT
1 C--ATTCGATATTTCGCACACTAAGT
15994663 TCTGTACATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 2 0.04
27 1 0.02
28 40 0.89
29 1 0.02
30 1 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (26 bp):
CATTCGATATTTCGCACACTAAGTGC
Found at i:16002565 original size:18 final size:17
Alignment explanation
Indices: 16002521--16002565 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 17
16002511 ATAATATTGT
16002521 AAATAATAATATACATA
1 AAATAATAATATACATA
16002538 AAA-AAT-ATATA-ATA
1 AAATAATAATATACATA
16002552 GATAATAATAATAT
1 -A-AATAATAATAT
16002566 GAAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 3 0.12
15 6 0.25
16 5 0.21
17 6 0.25
18 4 0.17
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
AAATAATAATATACATA
Found at i:16002575 original size:30 final size:29
Alignment explanation
Indices: 16002501--16002577 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
16002491 AATATCAATT
*
16002501 TAATATGAAAATAATAT-TGTAAATAATAA
1 TAATATG-AAATAATATATATAAATAATAA
* * *
16002530 TATACAT-AAAAAATATATAATAGATAATAA
1 TA-ATATGAAATAATATAT-ATAAATAATAA
16002560 TAATATGAAATAATATAT
1 TAATATGAAATAATATAT
16002578 TGTTAAAATG
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
28 8 0.21
29 6 0.16
30 24 0.63
ACGTcount: A:0.60, C:0.01, G:0.05, T:0.34
Consensus pattern (29 bp):
TAATATGAAATAATATATATAAATAATAA
Found at i:16002745 original size:22 final size:23
Alignment explanation
Indices: 16002670--16002756 Score: 86
Period size: 22 Copynumber: 3.6 Consensus size: 23
16002660 TGATATATGT
* * *
16002670 TAAAATATATATTAATATGATAA
1 TAAAATATATAATAATATAATTA
*
16002693 TAGAAAGATATGAAGTAATATAATATAA
1 TA-AAATATAT-AA-TAATATAAT-T-A
16002721 TAAAATATATAATAA-ATAATTA
1 TAAAATATATAATAATATAATTA
16002743 TAAAATATATAATA
1 TAAAATATATAATA
16002757 CGTATATTCA
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
22 15 0.28
23 3 0.06
24 12 0.22
25 4 0.07
26 10 0.19
27 7 0.13
28 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (23 bp):
TAAAATATATAATAATATAATTA
Found at i:16002748 original size:11 final size:12
Alignment explanation
Indices: 16002670--16002756 Score: 65
Period size: 12 Copynumber: 7.2 Consensus size: 12
16002660 TGATATATGT
16002670 TAAAATATAT-A
1 TAAAATATATAA
*
16002681 T-TAATATGATAA
1 TAAAATAT-ATAA
*
16002693 TAGAAAGATATGAA
1 TA-AAATATAT-AA
*
16002707 GTAATATAATATAA
1 -TAAAAT-ATATAA
16002721 TAAAATATATAA
1 TAAAATATATAA
*
16002733 T-AAATA-ATTA
1 TAAAATATATAA
16002743 TAAAATATATAA
1 TAAAATATATAA
16002755 TA
1 TA
16002757 CGTATATTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
10 9 0.15
11 13 0.22
12 14 0.24
13 7 0.12
14 10 0.17
15 6 0.10
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (12 bp):
TAAAATATATAA
Found at i:16004686 original size:206 final size:206
Alignment explanation
Indices: 16004313--16004860 Score: 794
Period size: 206 Copynumber: 2.7 Consensus size: 206
16004303 AAATCTGCTT
* *
16004313 CTTCGATTTGTTCTCTGACAATATAGAGATGCCAAATCATCTTAGATTTGCTTCAGCGTAAGCAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * * *
16004378 GCGAAAACCAAATCAGCTATGTGTTTGATTTGCTCCTTGTAAGCACAAGGATACCAAACCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * ** * * *
16004443 GGATCTGATTCAGTCTAATCATCTGAAGGTTAGATCTGCTATGTGTTTGCCCTCCGTCGAATATG
131 GGATCTGATTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCCCTCCGTCAAATATG
*
16004508 GAGATGCCAAA
196 GAGACGCCAAA
* *
16004519 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAGCAT
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* * * * *
16004584 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTGGTATGTATAAGGATGCCAAATCATCTT
66 GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
* * *
16004649 AGATCT-ACTTCAGTATAAACATCTTAAGGCCAGATCTGCTATGTATCTGCTCTCCGTCAAATAT
131 GGATCTGA-TTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCCCTCCGTCAAATAT
*
16004713 GGAGACGCCAGA
195 GGAGACGCCAAA
* *
16004725 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACATAAACAC
1 CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
* *
16004790 GTGAAAGCCAAATCAGCTATGTCTGC-ATTTTGTTCCTTGTAAGCACAAGGATGCCAAACCATCT
66 GTGAAAGCCAAATCAGCTATGTCTTCGA-TTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCT
16004854 TGGATCT
130 TGGATCT
16004861 TGCTTCAGCC
Statistics
Matches: 303, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
205 2 0.01
206 301 0.99
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (206 bp):
CTTCGATTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCAACGTAAGCAC
GTGAAAGCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCCAAACCATCTT
GGATCTGATTCAGTATAAACATCTGAAGGCCAGATCTGCTATGTATCTGCCCTCCGTCAAATATG
GAGACGCCAAA
Found at i:16005778 original size:6 final size:6
Alignment explanation
Indices: 16005767--16005793 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
16005757 GGCCTCTCCG
16005767 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
16005794 TTGAAATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:16018119 original size:11 final size:11
Alignment explanation
Indices: 16018103--16018127 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16018093 GCGTCCGTTG
16018103 GGATGGCTTCT
1 GGATGGCTTCT
16018114 GGATGGCTTCT
1 GGATGGCTTCT
16018125 GGA
1 GGA
16018128 ATCTTCTGTT
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:0.12, C:0.16, G:0.40, T:0.32
Consensus pattern (11 bp):
GGATGGCTTCT
Found at i:16021421 original size:32 final size:32
Alignment explanation
Indices: 16021360--16021443 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
16021350 ATTAAGTGTG
**
16021360 TATATATGTGTAGTTGGATAAAGTTGAATGTC
1 TATATATGTGTAGTTGGATAAAGCCGAATGTC
*
16021392 TATATATGTGT-GATTGGATATAA-CCGAATGTG
1 TATATATGTGTAG-TTGGATA-AAGCCGAATGTC
* * *
16021424 TATCTAGGTGTAGTTTGATA
1 TATATATGTGTAGTTGGATA
16021444 TAGCTGATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
31 1 0.02
32 39 0.91
33 3 0.07
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.40
Consensus pattern (32 bp):
TATATATGTGTAGTTGGATAAAGCCGAATGTC
Found at i:16021618 original size:27 final size:26
Alignment explanation
Indices: 16021587--16021735 Score: 88
Period size: 27 Copynumber: 5.6 Consensus size: 26
16021577 TTTGAGGGAT
16021587 GCACTAAGTGTGCGAATTTGATACTGA
1 GCACTAAGTGTGCGAATTTGAT-CTGA
* * *
16021614 GCACTAAGTGTGC-AAGTTGGATTTAA
1 GCACTAAGTGTGCGAA-TTTGATCTGA
* * *
16021640 GCACTATGTGTGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
* * * * *
16021667 GCATTAAGTGTGCGAGTTGGATTTAA
1 GCACTAAGTGTGCGAATTTGATCTGA
* * * *
16021693 GCACTATGTATGTGAATTAAT-TTCTGA
1 GCACTAAGTGTGCGAATT--TGATCTGA
16021720 GCACTAAGTGTGCGAA
1 GCACTAAGTGTGCGAA
16021736 ATCAGTTACT
Statistics
Matches: 86, Mismatches: 29, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
26 33 0.38
27 53 0.62
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.34
Consensus pattern (26 bp):
GCACTAAGTGTGCGAATTTGATCTGA
Found at i:16021733 original size:53 final size:53
Alignment explanation
Indices: 16021610--16021734 Score: 223
Period size: 53 Copynumber: 2.4 Consensus size: 53
16021600 GAATTTGATA
* *
16021610 CTGAGCACTAAGTGTGCAAGTTGGATTTAAGCACTATGTGTGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTATGTGAATTAATTT
*
16021663 CTGAGCATTAAGTGTGCGAGTTGGATTTAAGCACTATGTATGTGAATTAATTT
1 CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTATGTGAATTAATTT
16021716 CTGAGCACTAAGTGTGCGA
1 CTGAGCACTAAGTGTGCGA
16021735 AATCAGTTAC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 68 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.34
Consensus pattern (53 bp):
CTGAGCACTAAGTGTGCGAGTTGGATTTAAGCACTATGTATGTGAATTAATTT
Found at i:16025858 original size:48 final size:48
Alignment explanation
Indices: 16025656--16025930 Score: 158
Period size: 48 Copynumber: 5.8 Consensus size: 48
16025646 CATAGTAGGG
* ** * * * * *
16025656 TGCCAATGCCATATCCTGGATATGGTCTTACATGGG-CCACATATCTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATAACGA
* * *
16025703 TGCCAATGCCATGTCCCAGACATGGTCTTATGTGGGATCACA-CA-TA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATAACGA
* * * *
16025749 T-CGAA--CCGATAG-CCCA-ACTATGGTCTTACACAAT-GTA-CTCATATA-GA
1 TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTT--A-TATGGGATCACATA-ACGA
* * *
16025796 TGCCACTGCCATGTCCCGGACATGGTTTTATATGGGATCACATAACGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATAACGA
* * * * * * *
16025844 TGTCAATGCCATGTCGCAAACATGGTCTTACATGGGGTCATATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATAACGA
* * *
16025892 TGCCAATGCCATATCCCAGATATGGTCTTATACGGGATC
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATC
16025931 TCATCAACTG
Statistics
Matches: 170, Mismatches: 41, Indels: 33
0.70 0.17 0.14
Matches are distributed among these distances:
43 4 0.02
44 14 0.08
45 7 0.04
46 8 0.05
47 38 0.22
48 83 0.49
49 12 0.07
50 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGATCACATAACGA
Found at i:16027382 original size:29 final size:29
Alignment explanation
Indices: 16027350--16027437 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
16027340 TCGGCTATCA
** *
16027350 ATTATGAAAAGGGATGGTGACAACCATTG
1 ATTATGAAAAGGGATGGTTTCAACCATCG
*
16027379 ATTAATGAAAAGGGATGGTTTCGACCATCG
1 ATT-ATGAAAAGGGATGGTTTCAACCATCG
*
16027409 AATATGAAAAGGGATGGTTTCAACCATCG
1 ATTATGAAAAGGGATGGTTTCAACCATCG
16027438 TTTAGCACAC
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 28 0.54
30 24 0.46
ACGTcount: A:0.36, C:0.12, G:0.26, T:0.25
Consensus pattern (29 bp):
ATTATGAAAAGGGATGGTTTCAACCATCG
Found at i:16027416 original size:59 final size:59
Alignment explanation
Indices: 16027323--16027435 Score: 156
Period size: 59 Copynumber: 1.9 Consensus size: 59
16027313 ATCATCGACC
* *
16027323 AATGAAAAGGGATAGCTTCGGCTATCAATTATGAAAAGGGATGGTGACAACCATTGATT
1 AATGAAAAGGGATAGCTTCGACCATCAATTATGAAAAGGGATGGTGACAACCATTGATT
* * **
16027382 AATGAAAAGGGATGGTTTCGACCATCGAA-TATGAAAAGGGATGGTTTCAACCAT
1 AATGAAAAGGGATAGCTTCGACCATC-AATTATGAAAAGGGATGGTGACAACCAT
16027436 CGTTTAGCAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 45 0.96
60 2 0.04
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (59 bp):
AATGAAAAGGGATAGCTTCGACCATCAATTATGAAAAGGGATGGTGACAACCATTGATT
Found at i:16030190 original size:61 final size:61
Alignment explanation
Indices: 16030095--16030217 Score: 246
Period size: 61 Copynumber: 2.0 Consensus size: 61
16030085 GGTTTTCCCC
16030095 TTTCCTCTGCGTTTTCCTTTCAATTTAATTGTTCAATTTTTGTATTTCAGCTTTTCGGTGT
1 TTTCCTCTGCGTTTTCCTTTCAATTTAATTGTTCAATTTTTGTATTTCAGCTTTTCGGTGT
16030156 TTTCCTCTGCGTTTTCCTTTCAATTTAATTGTTCAATTTTTGTATTTCAGCTTTTCGGTGT
1 TTTCCTCTGCGTTTTCCTTTCAATTTAATTGTTCAATTTTTGTATTTCAGCTTTTCGGTGT
16030217 T
1 T
16030218 CTTGTGCATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.13, C:0.18, G:0.13, T:0.56
Consensus pattern (61 bp):
TTTCCTCTGCGTTTTCCTTTCAATTTAATTGTTCAATTTTTGTATTTCAGCTTTTCGGTGT
Found at i:16034158 original size:9 final size:9
Alignment explanation
Indices: 16034144--16034177 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
16034134 TTTTAGGGAC
16034144 TAAATTGAA
1 TAAATTGAA
16034153 TAAATTGAA
1 TAAATTGAA
* *
16034162 AAAATTGCA
1 TAAATTGAA
16034171 TAAATTG
1 TAAATTG
16034178 TTAATCCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (9 bp):
TAAATTGAA
Found at i:16034675 original size:10 final size:11
Alignment explanation
Indices: 16034655--16034686 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
16034645 TAAATTGGAT
16034655 AAATGGAAATG
1 AAATGGAAATG
16034666 AAAT-GAAATG
1 AAATGGAAATG
16034676 AAATGGAAATG
1 AAATGGAAATG
16034687 TGAAATGCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:16045888 original size:26 final size:25
Alignment explanation
Indices: 16045859--16045913 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
16045849 ATAAAACCTA
*
16045859 AAAAGGAAATAGTA-TTAAAGGAAAAT
1 AAAA-GAAAAAGTACTTAAA-GAAAAT
* *
16045885 AAAATAAAAAGTACTTAAAGAAGAT
1 AAAAGAAAAAGTACTTAAAGAAAAT
16045910 AAAA
1 AAAA
16045914 ATGAAATAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
25 16 0.64
26 9 0.36
ACGTcount: A:0.65, C:0.02, G:0.15, T:0.18
Consensus pattern (25 bp):
AAAAGAAAAAGTACTTAAAGAAAAT
Found at i:16059835 original size:15 final size:15
Alignment explanation
Indices: 16059815--16059844 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
16059805 CCAGCTCAGT
16059815 CCAACCAACACACCA
1 CCAACCAACACACCA
*
16059830 CCAACCACCACACCA
1 CCAACCAACACACCA
16059845 TGTGGGGATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.57, G:0.00, T:0.00
Consensus pattern (15 bp):
CCAACCAACACACCA
Found at i:16062561 original size:28 final size:28
Alignment explanation
Indices: 16062530--16062595 Score: 89
Period size: 28 Copynumber: 2.4 Consensus size: 28
16062520 CCATCACAAA
* *
16062530 AACAGTATCAGGTGGGCCTTAGCCCATT
1 AACAGAATCAGGTGGGCCTAAGCCCATT
* *
16062558 AACAGAATTAGGTGGGCCTAAGCCCAAT
1 AACAGAATCAGGTGGGCCTAAGCCCATT
16062586 -ACAGAATCAG
1 AACAGAATCAG
16062596 TATCAGATGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 9 0.27
28 24 0.73
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (28 bp):
AACAGAATCAGGTGGGCCTAAGCCCATT
Found at i:16075498 original size:21 final size:22
Alignment explanation
Indices: 16075459--16075499 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16075449 GTTGAAATGT
*
16075459 CACACGGGCGTGTTGCCCCTCC
1 CACACGAGCGTGTTGCCCCTCC
16075481 CACACGAGCGTG-TGCCCCT
1 CACACGAGCGTGTTGCCCCT
16075500 GTGTTAAGAG
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:0.12, C:0.44, G:0.27, T:0.17
Consensus pattern (22 bp):
CACACGAGCGTGTTGCCCCTCC
Found at i:16083788 original size:33 final size:33
Alignment explanation
Indices: 16083742--16083808 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
16083732 GGCTTTGGCA
* *
16083742 AGGAAAGGCTTGGTTTTTAAGTGGTCAAATTTG
1 AGGAAAGACTTGGTTTTTAAGTGGCCAAATTTG
*
16083775 AGGAAAGATTTGGTTTTTAAGTGGCCAAATTTG
1 AGGAAAGACTTGGTTTTTAAGTGGCCAAATTTG
16083808 A
1 A
16083809 CTCGCCTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.28, T:0.36
Consensus pattern (33 bp):
AGGAAAGACTTGGTTTTTAAGTGGCCAAATTTG
Found at i:16084796 original size:39 final size:39
Alignment explanation
Indices: 16084741--16084819 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
16084731 TGCCCTCCTG
*
16084741 AAGCTCAGCCCGAAGCGAGAAATCACTAGAGAGATTCTA
1 AAGCTCAGCCCAAAGCGAGAAATCACTAGAGAGATTCTA
*
16084780 AAGCTCAGCCCAAAGCGAGAAATCACTGGAGAGATTCTA
1 AAGCTCAGCCCAAAGCGAGAAATCACTAGAGAGATTCTA
16084819 A
1 A
16084820 CTTGATTGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.15
Consensus pattern (39 bp):
AAGCTCAGCCCAAAGCGAGAAATCACTAGAGAGATTCTA
Found at i:16085658 original size:27 final size:28
Alignment explanation
Indices: 16085620--16085676 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
16085610 AAGCAATGGG
*
16085620 AGAAGTTATTTTACATTTT-ATAATTTT
1 AGAAATTATTTTACATTTTGATAATTTT
16085647 AGAAATTATTTTACATTTTGATAATTTT
1 AGAAATTATTTTACATTTTGATAATTTT
16085675 AG
1 AG
16085677 GAAGATTGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.53
Consensus pattern (28 bp):
AGAAATTATTTTACATTTTGATAATTTT
Found at i:16087576 original size:11 final size:11
Alignment explanation
Indices: 16087560--16087589 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
16087550 ACACGCCCGT
16087560 GTGGCCTACCC
1 GTGGCCTACCC
16087571 GTGGCCTACCC
1 GTGGCCTACCC
*
16087582 GTGTCCTA
1 GTGGCCTA
16087590 TACTAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.10, C:0.40, G:0.27, T:0.23
Consensus pattern (11 bp):
GTGGCCTACCC
Found at i:16096459 original size:17 final size:18
Alignment explanation
Indices: 16096430--16096465 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
16096420 TTTAAAATTT
16096430 TAAAATTATTAAAAAAAA
1 TAAAATTATTAAAAAAAA
16096448 TAAAATTA-TAAAAAAAA
1 TAAAATTATTAAAAAAAA
16096465 T
1 T
16096466 TATAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATTATTAAAAAAAA
Found at i:16096464 original size:12 final size:12
Alignment explanation
Indices: 16096444--16096486 Score: 68
Period size: 12 Copynumber: 3.4 Consensus size: 12
16096434 ATTATTAAAA
16096444 AAAATAAAATTAT
1 AAAA-AAAATTAT
16096457 AAAAAAAATTAT
1 AAAAAAAATTAT
16096469 AAAAAAAAGTTAT
1 AAAAAAAA-TTAT
16096482 AAAAA
1 AAAAA
16096487 TTTTAAATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
12 16 0.55
13 13 0.45
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.23
Consensus pattern (12 bp):
AAAAAAAATTAT
Found at i:16096501 original size:13 final size:13
Alignment explanation
Indices: 16096485--16096528 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
16096475 AAGTTATAAA
16096485 AATTTTAAATTAT
1 AATTTTAAATTAT
* * *
16096498 AATTTT-TATAAA
1 AATTTTAAATTAT
16096510 AATTTTAAATTAT
1 AATTTTAAATTAT
16096523 AATTTT
1 AATTTT
16096529 TTGCTAAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
AATTTTAAATTAT
Found at i:16096539 original size:27 final size:25
Alignment explanation
Indices: 16096478--16096529 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
16096468 TAAAAAAAAG
16096478 TTATAAAAATTTTAAATTATAATTT
1 TTATAAAAATTTTAAATTATAATTT
16096503 TTATAAAAATTTTAAATTATAATTT
1 TTATAAAAATTTTAAATTATAATTT
16096528 TT
1 TT
16096530 TGCTAAAAAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
TTATAAAAATTTTAAATTATAATTT
Found at i:16097398 original size:33 final size:33
Alignment explanation
Indices: 16097360--16097424 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
16097350 GAAATGACAG
*
16097360 CAAAACAATGGGAAAATAGTAAG-AAAACAACAA
1 CAAAACAATGGAAAAATAGT-AGTAAAACAACAA
16097393 CAAAACAATGGAAAAATAGTAGTAAAACAACA
1 CAAAACAATGGAAAAATAGTAGTAAAACAACA
16097425 TTTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 28 0.93
ACGTcount: A:0.63, C:0.12, G:0.14, T:0.11
Consensus pattern (33 bp):
CAAAACAATGGAAAAATAGTAGTAAAACAACAA
Found at i:16107285 original size:14 final size:14
Alignment explanation
Indices: 16107266--16107299 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
16107256 TGAGTCAGGT
*
16107266 AAATTTTGAGGCTG
1 AAATTTTGAGGCCG
16107280 AAATTTTGAGGCCG
1 AAATTTTGAGGCCG
16107294 AAATTT
1 AAATTT
16107300 CTTTTAGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.35
Consensus pattern (14 bp):
AAATTTTGAGGCCG
Found at i:16111504 original size:11 final size:11
Alignment explanation
Indices: 16111488--16111513 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
16111478 GAATGAACAT
16111488 TAAAGAGGAGA
1 TAAAGAGGAGA
16111499 TAAAGAGGAGA
1 TAAAGAGGAGA
16111510 TAAA
1 TAAA
16111514 CATCAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.31, T:0.12
Consensus pattern (11 bp):
TAAAGAGGAGA
Found at i:16116278 original size:18 final size:21
Alignment explanation
Indices: 16116243--16116283 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 21
16116233 ATATAATTTT
*
16116243 AAAATATATATAATACAT-AA
1 AAAATATATATAAAACATCAA
16116263 AAAATA-ATA-AAAACATCAA
1 AAAATATATATAAAACATCAA
16116282 AA
1 AA
16116284 TAAATATTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 6 0.32
19 7 0.37
20 6 0.32
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (21 bp):
AAAATATATATAAAACATCAA
Found at i:16116283 original size:19 final size:20
Alignment explanation
Indices: 16116243--16116283 Score: 50
Period size: 18 Copynumber: 2.1 Consensus size: 20
16116233 ATATAATTTT
*
16116243 AAAATATATATAATACATAA
1 AAAATATATATAAAACATAA
*
16116263 AAAATA-ATA-AAAACATCA
1 AAAATATATATAAAACATAA
16116281 AAA
1 AAA
16116284 TAAATATTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 10 0.53
19 3 0.16
20 6 0.32
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAATATATATAAAACATAA
Found at i:16116401 original size:30 final size:30
Alignment explanation
Indices: 16116365--16116427 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
16116355 ACTTAACAAG
16116365 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
16116395 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
16116425 CAA
1 CAA
16116428 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.27
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:16118491 original size:43 final size:42
Alignment explanation
Indices: 16118437--16118579 Score: 180
Period size: 43 Copynumber: 3.3 Consensus size: 42
16118427 TTTATTTAAA
* *
16118437 AAAAACGCCGCTAAAAGTCATGACTTTTAACGGCGTTTGTTGG
1 AAAAGCGCCGCTAAAAGTCATG-CTTTTAACGGCGTTTTTTGG
* *
16118480 AAAAGCGCCGCTAAAAGTCATTGCTTTTAACGACCTTTTTTGG
1 AAAAGCGCCGCTAAAAGTCA-TGCTTTTAACGGCGTTTTTTGG
* *
16118523 AAAAGCGCCGCTAAAAGTCACGGCTTTTAGCGGCGTTTTTATGG
1 AAAAGCGCCGCTAAAAGTCA-TGCTTTTAACGGCGTTTTT-TGG
*
16118567 CAAA-CGCCGCTAA
1 AAAAGCGCCGCTAA
16118580 TTTTGACAGA
Statistics
Matches: 88, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
43 80 0.91
44 8 0.09
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (42 bp):
AAAAGCGCCGCTAAAAGTCATGCTTTTAACGGCGTTTTTTGG
Found at i:16118688 original size:31 final size:32
Alignment explanation
Indices: 16118633--16118715 Score: 87
Period size: 31 Copynumber: 2.6 Consensus size: 32
16118623 CTTCCTGCAT
* * *
16118633 TAAAATCCAACCAAATACAACAAATATA-ATA
1 TAAAATACAACCAAAAATAACAAATATACATA
* * *
16118664 TAAAATGCAACCAAAAATAGCAAATTTAGCATA
1 TAAAATACAACCAAAAATAACAAATATA-CATA
*
16118697 AAAAATACAACCAAAAATA
1 TAAAATACAACCAAAAATA
16118716 TTAATTCTAA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
31 23 0.53
33 20 0.47
ACGTcount: A:0.61, C:0.17, G:0.04, T:0.18
Consensus pattern (32 bp):
TAAAATACAACCAAAAATAACAAATATACATA
Found at i:16118971 original size:21 final size:21
Alignment explanation
Indices: 16118947--16119043 Score: 108
Period size: 21 Copynumber: 4.6 Consensus size: 21
16118937 TCTGCTGCCA
* *
16118947 TCGCTACTGCCTCTACCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
16118968 TCGCT-CGTGCCTCTGCCTCCC
1 TCGCTGC-TGCCTCTGCCTCCC
* * *
16118989 TCACTGCTACCGCTGCCTCCC
1 TCGCTGCTGCCTCTGCCTCCC
16119010 TCGCTGCTG-CTGCTGCCTCCC
1 TCGCTGCTGCCT-CTGCCTCCC
*
16119031 TCTCTGCTGCCTC
1 TCGCTGCTGCCTC
16119044 CGCTCTAAGT
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.03
21 59 0.92
22 3 0.05
ACGTcount: A:0.04, C:0.51, G:0.16, T:0.29
Consensus pattern (21 bp):
TCGCTGCTGCCTCTGCCTCCC
Found at i:16119037 original size:15 final size:16
Alignment explanation
Indices: 16119019--16119049 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
16119009 CTCGCTGCTG
16119019 CTGCTGCCTCC-CTCT
1 CTGCTGCCTCCGCTCT
16119034 CTGCTGCCTCCGCTCT
1 CTGCTGCCTCCGCTCT
16119050 AAGTTGTTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.00, C:0.52, G:0.16, T:0.32
Consensus pattern (16 bp):
CTGCTGCCTCCGCTCT
Found at i:16124612 original size:9 final size:9
Alignment explanation
Indices: 16124591--16124711 Score: 63
Period size: 9 Copynumber: 13.6 Consensus size: 9
16124581 TATATATTAC
*
16124591 GTAAGTTAA
1 GTAAGTTAT
16124600 GTAAGCTT-T
1 GTAAG-TTAT
16124609 GTAAGTTAT
1 GTAAGTTAT
16124618 GTAAGTTAT
1 GTAAGTTAT
* *
16124627 GTTA-TGAT
1 GTAAGTTAT
* *
16124635 ATACATTTAT
1 GTA-AGTTAT
**
16124645 GTAAGGCAT
1 GTAAGTTAT
16124654 GTAAGTTAT
1 GTAAGTTAT
* *
16124663 GATATGATAT
1 G-TAAGTTAT
* *
16124673 AT-ATTTAT
1 GTAAGTTAT
16124681 GT-A-TTAT
1 GTAAGTTAT
*
16124688 GTAAGTTGT
1 GTAAGTTAT
16124697 GTAAGTTAT
1 GTAAGTTAT
16124706 GATAAG
1 G-TAAG
16124712 ATATATATTT
Statistics
Matches: 83, Mismatches: 21, Indels: 15
0.70 0.18 0.13
Matches are distributed among these distances:
7 6 0.07
8 12 0.14
9 48 0.58
10 17 0.20
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:16124732 original size:56 final size:56
Alignment explanation
Indices: 16124665--16124896 Score: 348
Period size: 56 Copynumber: 4.2 Consensus size: 56
16124655 TAAGTTATGA
16124665 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
16124721 TATGATATATATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
1 TATGATATATATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* * *
16124778 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATT
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
* *
16124834 TATGATATATATTTATGTATTATGTAAGTTTTGTAAGTTATG-TAAG-T-TAT-TA
1 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
16124886 TATGATATATA
1 TATGATATATA
16124897 ATAAACATTA
Statistics
Matches: 163, Mismatches: 10, Indels: 10
0.89 0.05 0.05
Matches are distributed among these distances:
52 12 0.07
53 3 0.02
54 1 0.01
55 4 0.02
56 91 0.56
57 51 0.31
58 1 0.01
ACGTcount: A:0.34, C:0.00, G:0.16, T:0.49
Consensus pattern (56 bp):
TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATT
Found at i:16124794 original size:113 final size:112
Alignment explanation
Indices: 16124665--16124875 Score: 361
Period size: 113 Copynumber: 1.9 Consensus size: 112
16124655 TAAGTTATGA
*
16124665 TATGATATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
16124730 TATTTGGA-GTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
66 TATTT--ATGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
* *
16124778 TATGAAATATATTTATGTATTATGTTAGTTGTGTAAGTTATGATATGATATATATTTATGATATA
1 TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
*
16124843 TATTTATGTATTATGTAAGTTTTGTAAGTTATG
66 TATTTATGTATTATGTAAGTTGTGTAAGTTATG
16124876 TAAGTTATTA
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
111 1 0.01
112 25 0.27
113 67 0.72
ACGTcount: A:0.34, C:0.00, G:0.17, T:0.49
Consensus pattern (112 bp):
TATGAAATATATTTATGTATTATGTAAGTTGTGTAAGTTATGATAAGATATATATTTATGATATA
TATTTATGTATTATGTAAGTTGTGTAAGTTATGATATGATACATATT
Found at i:16124839 original size:13 final size:13
Alignment explanation
Indices: 16124821--16124850 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
16124811 TAAGTTATGA
16124821 TATGATATATATT
1 TATGATATATATT
16124834 TATGATATATATT
1 TATGATATATATT
16124847 TATG
1 TATG
16124851 TATTATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (13 bp):
TATGATATATATT
Found at i:16124870 original size:9 final size:9
Alignment explanation
Indices: 16124853--16124883 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16124843 TATTTATGTA
16124853 TTATGTAAG
1 TTATGTAAG
*
16124862 TTTTGTAAG
1 TTATGTAAG
16124871 TTATGTAAG
1 TTATGTAAG
16124880 TTAT
1 TTAT
16124884 TATATGATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:16127396 original size:59 final size:60
Alignment explanation
Indices: 16127272--16127400 Score: 170
Period size: 60 Copynumber: 2.2 Consensus size: 60
16127262 TTTCAAATTG
* * ** * * *
16127272 GGGAGAAAGGGGTAATTATTTTAGGGTTTCAAATTAGGGAAAATGGGGGGAGATAAACTA
1 GGGAGAAGGGGGTAATTATTTTAGGGATTCAAAGAAGGGAAAATGGGGGGAAACAAACCA
* *
16127332 GGGAGAAGGGGGTGATTATTTTAGGGATTCGAAGAAGGGAAAAT-GGGGGAAACAAACCA
1 GGGAGAAGGGGGTAATTATTTTAGGGATTCAAAGAAGGGAAAATGGGGGGAAACAAACCA
16127391 GGGAGAAGGG
1 GGGAGAAGGG
16127401 AGAAAATGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
59 22 0.37
60 38 0.63
ACGTcount: A:0.36, C:0.05, G:0.40, T:0.19
Consensus pattern (60 bp):
GGGAGAAGGGGGTAATTATTTTAGGGATTCAAAGAAGGGAAAATGGGGGGAAACAAACCA
Found at i:16127630 original size:114 final size:113
Alignment explanation
Indices: 16127478--16127965 Score: 466
Period size: 114 Copynumber: 4.2 Consensus size: 113
16127468 ATTAACATTT
*
16127478 GTGGCGTTTTCCCCTAGCGCCGCTAAAGGCAAACCAATTGCGGCGTTTTAACAT-AAACGCCACT
1 GTGGCGTTTTTCCCTAGCGCCGCTAAAGGCAAA-CAATTGCGGCGTTTTAACATAAAACGCCACT
* *
16127542 AAAAA-ACAAACAAAACGACACCGTTTTGATATAAACAGAATAAACTTTA
65 AAAAATCCAAA-AAAACGACACCGTTTTGATATAAACAAAATAAACTTTA
* * *
16127591 GTGGCGTTTTTCCCATAGCGCCGCTAAAGGCAAATCAATTGCGGCGTTTCACCCTAAAACGCCAC
1 GTGGCGTTTTTCCC-TAGCGCCGCTAAAGGCAAA-CAATTGCGGCGTTTTAACATAAAACGCCAC
* * * * *
16127656 TAAAAATCCAAAAAAAGCGACGA-CATTTTCATATGAACAGAAT-AACATTTT
64 TAAAAATCCAAAAAAA-CGAC-ACCGTTTTGATATAAACAAAATAAAC-TTTA
* * * * *
16127707 GTGGCGTTTTATCACTAAGCGCCGCTAAAGGCGAAACTATTACGGCGTTTTACCCTAAAACGCCA
1 GTGGCGTTTT-TCCCT-AGCGCCGCTAAAGGC-AAACAATTGCGGCGTTTTAACATAAAACGCCA
* * * * * * * *
16127772 CTAATAATCGAATAAAACTACATCATTTTGATATAAACAAAATAACCATTA
63 CTAAAAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAAACTTTA
* * * * * *
16127823 GTGGCGTTTATACCCTAGCGCCGCTAAA-TCAAACTTATTGTGGCGTTTGAACCA-AAAATGCCA
1 GTGGCGTTT-TTCCCTAGCGCCGCTAAAGGCAAAC-AATTGCGGCGTTTTAA-CATAAAACGCCA
* * * * *
16127886 CTAAAAATCCATAAAAACTACACTGTTTTGATCTAAACAAAATAACCCTTTA
63 CTAAAAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAA-ACTTTA
* *
16127938 GCGGCGTTTATTCCATAGCGCCGCTAAA
1 GTGGCGTTT-TTCCCTAGCGCCGCTAAA
16127966 TCCAATTTTT
Statistics
Matches: 315, Mismatches: 45, Indels: 28
0.81 0.12 0.07
Matches are distributed among these distances:
113 17 0.05
114 94 0.30
115 66 0.21
116 73 0.23
117 62 0.20
118 3 0.01
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.25
Consensus pattern (113 bp):
GTGGCGTTTTTCCCTAGCGCCGCTAAAGGCAAACAATTGCGGCGTTTTAACATAAAACGCCACTA
AAAATCCAAAAAAACGACACCGTTTTGATATAAACAAAATAAACTTTA
Found at i:16127946 original size:231 final size:231
Alignment explanation
Indices: 16127493--16127946 Score: 524
Period size: 231 Copynumber: 2.0 Consensus size: 231
16127483 GTTTTCCCCT
*
16127493 AGCGCCGCTAAAGGCAAACCAATTGCGGCGTTTTAACATAAACGCCACTAAAAAACAAACAAAAC
1 AGCGCCGCTAAAGGCAAACCAATTACGGCGTTTTAACATAAACGCCACTAAAAAACAAACAAAAC
* * * *
16127558 GACACCGTTTTGATATAAACAGAATAAACTTTAGTGGCGTTTTTCCCATAGCGCCGCTAAAGGCA
66 GACACCATTTTGATATAAACAAAATAAACATTAGTGGCGTTTTACCCATAGCGCCGCTAAAGGCA
* *
16127623 AATCAATTGCGGCGTTTCACCCTAAAACGCCACTAAAAATCCAAAAAAAGCGACGACATTTTCAT
131 AATCAATTGCGGCGTTTCAACCAAAAACGCCACTAAAAATCCAAAAAAAGCGACGACATTTTCAT
* * * *
16127688 ATGAACAGAATAACATTTTGTGGCGTTTTATCACTA
196 ATAAACAAAATAACATTTAGCGGCGTTTTATCACTA
* * * * * * *
16127724 AGCGCCGCTAAAGGCGAAA-CTATTACGGCGTTTTACCCTAAAACGCCACTAATAATCGAATAAA
1 AGCGCCGCTAAAGGC-AAACCAATTACGGCGTTTTAACAT-AAACGCCACTAAAAAACAAACAAA
* * *
16127788 ACTACATCATTTTGATATAAACAAAATAACCATTAGTGGCGTTTATACCC-TAGCGCCGCTAAA-
64 ACGACACCATTTTGATATAAACAAAATAAACATTAGTGGCGTTT-TACCCATAGCGCCGCTAAAG
* * * * * * * *
16127851 TCAAA-CTTATTGTGGCGTTTGAACCAAAAATGCCACTAAAAATCCATAAAAA-CTAC-ACTGTT
128 GCAAATC-AATTGCGGCGTTTCAACCAAAAACGCCACTAAAAATCCAAAAAAAGCGACGAC-ATT
* * *
16127913 TTGATCTAAACAAAATAACCCTTTAGCGGCGTTT
191 TTCATATAAACAAAATAA-CATTTAGCGGCGTTT
16127947 ATTCCATAGC
Statistics
Matches: 185, Mismatches: 32, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
229 2 0.01
230 20 0.11
231 85 0.46
232 74 0.40
233 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (231 bp):
AGCGCCGCTAAAGGCAAACCAATTACGGCGTTTTAACATAAACGCCACTAAAAAACAAACAAAAC
GACACCATTTTGATATAAACAAAATAAACATTAGTGGCGTTTTACCCATAGCGCCGCTAAAGGCA
AATCAATTGCGGCGTTTCAACCAAAAACGCCACTAAAAATCCAAAAAAAGCGACGACATTTTCAT
ATAAACAAAATAACATTTAGCGGCGTTTTATCACTA
Found at i:16128960 original size:28 final size:28
Alignment explanation
Indices: 16128928--16128982 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
16128918 ATTTTATACA
* * * *
16128928 AAGCGCCGCTAATTCTTTGGTTTTTAGT
1 AAGCGCCACTAATGCTCTGGCTTTTAGT
16128956 AAGCGCCACTAATGCTCTGGCTTTTAG
1 AAGCGCCACTAATGCTCTGGCTTTTAG
16128983 CGGCGTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (28 bp):
AAGCGCCACTAATGCTCTGGCTTTTAGT
Found at i:16129041 original size:41 final size:40
Alignment explanation
Indices: 16128977--16129134 Score: 183
Period size: 41 Copynumber: 3.9 Consensus size: 40
16128967 ATGCTCTGGC
** **
16128977 TTTTAGCGGCGTTTTTGGCAAAACGCCATTATTGCTATGTT
1 TTTTAGCGGCGTTTTTGATAAAACGCCGCTATTGCTATG-T
* * *
16129018 TTTTGGCGGCGTTTTCT-ATAAAACGCCGCTATTTCTATAT
1 TTTTAGCGGCGTTTT-TGATAAAACGCCGCTATTGCTATGT
* * *
16129058 TTTTAGCGTCGTTTTATGAAAAAACGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTT-TGATAAAACGCCGCTATTGCTATGT
*
16129099 TTTTACCGGCGTTTTTGATAAAACGCCGCTATTGCT
1 TTTTAGCGGCGTTTTTGATAAAACGCCGCTATTGCT
16129135 CTGCATTTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
40 35 0.36
41 62 0.63
42 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.41
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTGATAAAACGCCGCTATTGCTATGT
Found at i:16129065 original size:81 final size:81
Alignment explanation
Indices: 16128977--16129131 Score: 206
Period size: 81 Copynumber: 1.9 Consensus size: 81
16128967 ATGCTCTGGC
** * **
16128977 TTTTAGCGGCGTTTT-TGGCAAAACGCCATTATTGCTATGTTTTTTGGCGGCGTTTTCT-ATAAA
1 TTTTAGCGGCGTTTTATGAAAAAACGCCACTATTGCTATG-TTTTTACCGGCGTTTT-TGATAAA
16129040 ACGCCGCTATTTCTATAT
64 ACGCCGCTATTTCTATAT
* * *
16129058 TTTTAGCGTCGTTTTATGAAAAAACGCCGCTATTGCTCTGTTTTTACCGGCGTTTTTGATAAAAC
1 TTTTAGCGGCGTTTTATGAAAAAACGCCACTATTGCTATGTTTTTACCGGCGTTTTTGATAAAAC
16129123 GCCGCTATT
66 GCCGCTATT
16129132 GCTCTGCATT
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 1 0.02
81 44 0.69
82 19 0.30
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTATGAAAAAACGCCACTATTGCTATGTTTTTACCGGCGTTTTTGATAAAAC
GCCGCTATTTCTATAT
Found at i:16129135 original size:40 final size:41
Alignment explanation
Indices: 16128959--16129137 Score: 175
Period size: 41 Copynumber: 4.4 Consensus size: 41
16128949 TTTTAGTAAG
* * * **
16128959 CGCCACTAATGCTCTGGCTTTTAGCGGCGTTTT-TGGCAAAA
1 CGCCGCTATTGCTCT-GTTTTTAGCGGCGTTTTATGATAAAA
** * * *
16129000 CGCCATTATTGCTATGTTTTTTGGCGGCGTTTTCT-ATAAAA
1 CGCCGCTATTGCTCTG-TTTTTAGCGGCGTTTTATGATAAAA
* * * * *
16129041 CGCCGCTATTTCTATATTTTTAGCGTCGTTTTATGAAAAAA
1 CGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTATGATAAAA
*
16129082 CGCCGCTATTGCTCTGTTTTTACCGGCGTTTT-TGATAAAA
1 CGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTATGATAAAA
16129122 CGCCGCTATTGCTCTG
1 CGCCGCTATTGCTCTG
16129138 CATTTTACAA
Statistics
Matches: 114, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
40 39 0.34
41 74 0.65
42 1 0.01
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.39
Consensus pattern (41 bp):
CGCCGCTATTGCTCTGTTTTTAGCGGCGTTTTATGATAAAA
Found at i:16132148 original size:16 final size:16
Alignment explanation
Indices: 16132115--16132154 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
16132105 ATAGAATTAC
16132115 AAATAAAAATAAACCT
1 AAATAAAAATAAACCT
16132131 AAATACAAAATAAA-CT
1 AAATA-AAAATAAACCT
*
16132147 AAAGAAAA
1 AAATAAAA
16132155 TTGAAAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 11 0.50
17 8 0.36
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (16 bp):
AAATAAAAATAAACCT
Found at i:16135826 original size:23 final size:23
Alignment explanation
Indices: 16135796--16135843 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
16135786 TGAAAATATA
16135796 TTTTGGGGATTTATAAAAGCATG
1 TTTTGGGGATTTATAAAAGCATG
16135819 TTTTGGGGATTTATAAAAGCATG
1 TTTTGGGGATTTATAAAAGCATG
16135842 TT
1 TT
16135844 AATAATTTGT
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:0.29, C:0.04, G:0.25, T:0.42
Consensus pattern (23 bp):
TTTTGGGGATTTATAAAAGCATG
Found at i:16146676 original size:19 final size:19
Alignment explanation
Indices: 16146648--16146686 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
16146638 AGAGCGAAAT
16146648 AAATGAG-AAACGGGCCAA
1 AAATGAGAAAACGGGCCAA
*
16146666 AAATGGAGAAAATGGGCCAA
1 AAAT-GAGAAAACGGGCCAA
16146686 A
1 A
16146687 GTATAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.13, G:0.28, T:0.08
Consensus pattern (19 bp):
AAATGAGAAAACGGGCCAA
Found at i:16149476 original size:51 final size:51
Alignment explanation
Indices: 16149307--16149454 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 51
16149297 ACTAGTGATT
** * *
16149307 CAAGTGTTATACTATGTGAAGGCCACATTGAGAAG-AGATAGC-TTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
* * *
16149356 CAAGTGTGGTACTATGTGAAAGCCACTTTTTAAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGCTTTGGTCA
*
16149408 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGGTAGCTTTG
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTG
16149455 AATGCAAGGG
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
49 28 0.33
51 18 0.21
52 39 0.46
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGCTTTGGTCA
Found at i:16158294 original size:6 final size:6
Alignment explanation
Indices: 16158285--16158309 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
16158275 TATCTTATTT
16158285 ATTAAA ATTAAA ATTAAA ATTAAA A
1 ATTAAA ATTAAA ATTAAA ATTAAA A
16158310 ACTTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTAAA
Found at i:16163899 original size:17 final size:19
Alignment explanation
Indices: 16163877--16163917 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 19
16163867 GGTTCATTAT
16163877 TGATTTATAT-TT-TAATA
1 TGATTTATATATTATAATA
*
16163894 TGATTTATATATTATATTA
1 TGATTTATATATTATAATA
16163913 TGATT
1 TGATT
16163918 AATAAAATCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.48
18 2 0.10
19 9 0.43
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (19 bp):
TGATTTATATATTATAATA
Found at i:16167905 original size:40 final size:40
Alignment explanation
Indices: 16167859--16167978 Score: 120
Period size: 40 Copynumber: 3.3 Consensus size: 40
16167849 GCTATGTTTA
16167859 GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACG
1 GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACG
* * *
16167899 GTACTTAGTGTGTG-----AGATA--TT--G--A-GTACC
1 GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACG
*
16167927 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACG
1 GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACG
16167967 GCACTTAGTGTG
1 GCACTTAGTGTG
16167979 CGAGACATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 24
0.66 0.08 0.26
Matches are distributed among these distances:
28 15 0.25
29 1 0.02
31 1 0.02
33 7 0.11
35 7 0.11
37 1 0.02
39 1 0.02
40 28 0.46
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (40 bp):
GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACG
Found at i:16167973 original size:68 final size:68
Alignment explanation
Indices: 16167859--16168009 Score: 257
Period size: 68 Copynumber: 2.2 Consensus size: 68
16167849 GCTATGTTTA
* * * *
16167859 GCACTTAGTGTGTGATTTAAGATAGCTTCAGCTATATACGGTACTTAGTGTGTGAGATATTGAGT
1 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
16167924 ACC
66 ACC
16167927 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
1 GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
*
16167992 ACG
66 ACC
16167995 GCACTTAGTGTGCGA
1 GCACTTAGTGTGCGA
16168010 GACATTGAGT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
68 78 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (68 bp):
GCACTTAGTGTGCGATTTAAGATAGCTTCAGCTATATACGGCACTTAGTGTGCGAGACATTGAGT
ACC
Found at i:16168003 original size:28 final size:28
Alignment explanation
Indices: 16167963--16168233 Score: 391
Period size: 28 Copynumber: 9.7 Consensus size: 28
16167953 TTCAGCTATA
16167963 TACGGCACTTAGTGTGCGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
16167991 TACGGCACTTAGTGTGCGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16168019 TATGGCACTTAGTGTACGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* * *
16168047 TACGGGACTTAGTGTGCAAGACATTTAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
*
16168075 TACGGCACTTAGTGTGCAAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
*
16168103 TACGGCACTTAGTGTGCAAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16168131 TATGGAACTTAGTGTGCGAGACATTGAG
1 TACGGCACTTAGTGTGCGAGACATTGAG
* * *
16168159 TATGGCACTTAGTGTGTGAGACATTGAA
1 TACGGCACTTAGTGTGCGAGACATTGAG
* *
16168187 AATGGCACTTAGTGTGCGAGACATTTG-G
1 TACGGCACTTAGTGTGCGAGACA-TTGAG
*
16168215 TATGGCACTTAGTGTGCGA
1 TACGGCACTTAGTGTGCGA
16168234 AATATCGAGT
Statistics
Matches: 223, Mismatches: 19, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
28 220 0.99
29 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (28 bp):
TACGGCACTTAGTGTGCGAGACATTGAG
Found at i:16170746 original size:17 final size:17
Alignment explanation
Indices: 16170719--16170752 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16170709 AAATACTGTG
16170719 TCAATTAATT-ATAATT
1 TCAATTAATTAATAATT
16170735 TCAATCTAATTAATAATT
1 TCAAT-TAATTAATAATT
16170753 AATTCATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (17 bp):
TCAATTAATTAATAATT
Found at i:16174475 original size:21 final size:21
Alignment explanation
Indices: 16174434--16174475 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
16174424 TTTTCTGAAA
*
16174434 TTGAATCAAGTGAGATGGAAT
1 TTGAATCAAGTGAGATCGAAT
*
16174455 TTGAATCGAATTGA-ATCGAAT
1 TTGAATC-AAGTGAGATCGAAT
16174476 ATATTTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (21 bp):
TTGAATCAAGTGAGATCGAAT
Found at i:16177488 original size:30 final size:30
Alignment explanation
Indices: 16177454--16177511 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16177444 TTTTCGAGCA
*
16177454 TAGGGGTAAAATGGTCATTTTGCCAAAGTT
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTT
*
16177484 TAGGGGCAAAATGGTCATTTTTCCAAAG
1 TAGGGGCAAAATGGTCATTTTGCCAAAG
16177512 AAGTGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTT
Found at i:16178138 original size:49 final size:49
Alignment explanation
Indices: 16177856--16178219 Score: 228
Period size: 49 Copynumber: 7.7 Consensus size: 49
16177846 CTTATGTGCC
* * * * *
16177856 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGACCAC-ATTATGAGT-GCC
1 AGTGTAAGACGATATCTGGGACATGGCATCGGCCTCGATGATGA-TAGCT
* * * * *
16177902 AGTATAAGACCATGTCTGGGACATGGCATCGGCAC-AGA-GATGAGT-GCC
1 AGTGTAAGACGATATCTGGGACATGGCATCGGC-CTCGATGATGA-TAGCT
* * * * *
16177950 AGTGTAAGAC-A-AGTCTGGGACAT-GTATCAGCCTTGACGATGATAGCC
1 AGTGTAAGACGATA-TCTGGGACATGGCATCGGCCTCGATGATGATAGCT
* * ** * *
16177997 AGTGTAATACG-TGTCTGGGACA-CACATCGG-CTAAGA-GTTG-T-GCT
1 AGTGTAAGACGATATCTGGGACATGGCATCGGCCT-CGATGATGATAGCT
* * * * *
16178041 AGTGTAAGAC-ATGTCTGGAACAT-GCATCAG-CACGTAT-ATACGAGAGCT
1 AGTGTAAGACGATATCTGGGACATGGCATCGGCCTCG-ATGAT--GATAGCT
* * *
16178089 AGTATAAGACCACATCTGGGACATGGCATCGGCCTCGATGATGATAGCT
1 AGTGTAAGACGATATCTGGGACATGGCATCGGCCTCGATGATGATAGCT
* *
16178138 AGTGTAAGATGATATCTGGGACATGGCATCAGCCTCGATGATGATAGCT
1 AGTGTAAGACGATATCTGGGACATGGCATCGGCCTCGATGATGATAGCT
*
16178187 AGTGTAAGACGATGTCTGGGACATGGCATCGGC
1 AGTGTAAGACGATATCTGGGACATGGCATCGGC
16178220 AACTTATCCC
Statistics
Matches: 254, Mismatches: 40, Indels: 45
0.75 0.12 0.13
Matches are distributed among these distances:
43 1 0.00
44 29 0.11
45 2 0.01
46 24 0.09
47 56 0.22
48 37 0.15
49 92 0.36
50 8 0.03
51 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACGATATCTGGGACATGGCATCGGCCTCGATGATGATAGCT
Found at i:16197615 original size:30 final size:28
Alignment explanation
Indices: 16197555--16197615 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
16197545 CATTTTCTTG
**
16197555 TTGATTTTGTGTTTGTTGCTTCTTAGCT
1 TTGATTTTGTGTTTGTTGCTTCCAAGCT
16197583 TTGATTTTGTGTTATGTCT-CTTCACAAGCT
1 TTGATTTTGTGTT-TGT-TGCTTC-CAAGCT
16197613 TTG
1 TTG
16197616 GATTGGAGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 13 0.46
29 7 0.25
30 8 0.29
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (28 bp):
TTGATTTTGTGTTTGTTGCTTCCAAGCT
Found at i:16206545 original size:18 final size:18
Alignment explanation
Indices: 16206491--16206548 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 18
16206481 CCTAAAGCTC
*
16206491 TCATGCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
* *** *
16206509 TCATCCAGTAAGCTTCCT
1 TCATCCATTCTTCTCCCT
16206527 TCATCCATTCTTCTCCCT
1 TCATCCATTCTTCTCCCT
16206545 TCAT
1 TCAT
16206549 TCCTTCAAAT
Statistics
Matches: 29, Mismatches: 11, Indels: 0
0.73 0.28 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.38, G:0.05, T:0.41
Consensus pattern (18 bp):
TCATCCATTCTTCTCCCT
Found at i:16207271 original size:12 final size:12
Alignment explanation
Indices: 16207254--16207279 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
16207244 CGTTTGTGTA
16207254 TTCGATATAATG
1 TTCGATATAATG
16207266 TTCGATATAATG
1 TTCGATATAATG
16207278 TT
1 TT
16207280 TTCTGGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (12 bp):
TTCGATATAATG
Found at i:16208677 original size:13 final size:13
Alignment explanation
Indices: 16208659--16208686 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
16208649 CTTGTACAAG
16208659 TAAACTTCATAAA
1 TAAACTTCATAAA
16208672 TAAACTTCATAAA
1 TAAACTTCATAAA
16208685 TA
1 TA
16208687 GAGAAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (13 bp):
TAAACTTCATAAA
Found at i:16209144 original size:20 final size:20
Alignment explanation
Indices: 16209119--16209158 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
16209109 AATATTTTTC
*
16209119 AGTAAATCATTTTACAGAAA
1 AGTAAAGCATTTTACAGAAA
*
16209139 AGTAAAGCATTTTCCAGAAA
1 AGTAAAGCATTTTACAGAAA
16209159 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.28
Consensus pattern (20 bp):
AGTAAAGCATTTTACAGAAA
Found at i:16210552 original size:26 final size:26
Alignment explanation
Indices: 16210520--16210569 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
16210510 TTGTAGTGGC
**
16210520 TGATTTGAACAATTGATTCTATTAGT
1 TGATTTGAACAACAGATTCTATTAGT
*
16210546 TGATTTGACCAACAGATTCTATTA
1 TGATTTGAACAACAGATTCTATTA
16210570 ATTGTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (26 bp):
TGATTTGAACAACAGATTCTATTAGT
Found at i:16214615 original size:19 final size:19
Alignment explanation
Indices: 16214591--16214629 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16214581 GAAATGAATA
*
16214591 ATTTCAGGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16214610 ATTTCAAGCAAATAGGTTG
1 ATTTCAAGCAAATAGGTTG
16214629 A
1 A
16214630 CAATCTCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.31
Consensus pattern (19 bp):
ATTTCAAGCAAATAGGTTG
Found at i:16220102 original size:8 final size:8
Alignment explanation
Indices: 16220089--16220113 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
16220079 CTTTAATTAT
16220089 ATATAAAA
1 ATATAAAA
16220097 ATATAAAA
1 ATATAAAA
16220105 ATATAAAA
1 ATATAAAA
16220113 A
1 A
16220114 AATTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATATAAAA
Found at i:16220413 original size:21 final size:22
Alignment explanation
Indices: 16220372--16220413 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
16220362 GGCATAGAAC
*
16220372 TTGATTTAAAGATATTACTAAT
1 TTGATTTAAAGATAATACTAAT
*
16220394 TTGATTTCAAGA-AATACTAA
1 TTGATTTAAAGATAATACTAA
16220414 AGAGGCATGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (22 bp):
TTGATTTAAAGATAATACTAAT
Done.