Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 53 of 325
Found at i:16065591 original size:27 final size:27
Alignment explanation
Indices: 16065561--16065862 Score: 267
Period size: 27 Copynumber: 11.2 Consensus size: 27
16065551 ATAGAATTTA
*
16065561 TGGCTTAATATGAAAGAAAAGCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* * **
16065588 TGGCATAATAAGTAAGAAAAGAATTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* * * *
16065615 TGGCGTAATATGAAATAATATCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
***
16065642 TGATGTAATATGAAAGAAAAGCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* *
16065669 TGGCGTAATATGTATA-AAAAGCCTTTG
1 TGGCATAATATG-AAAGAAAAGCCTTTG
* * *
16065696 TGACATAATATAAAAGAATAA-CTTTTG
1 TGGCATAATATGAAAGAA-AAGCCTTTG
*
16065723 TGGCATAATATGAAAGAAAAACCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
*
16065750 TGGCATAATATGAAAGAATAGCCTTTG
1 TGGCATAATATGAAAGAAAAGCCTTTG
* * *
16065777 TGGCAAAATATGAAATG-AAGGTCTTTG
1 TGGCATAATATGAAA-GAAAAGCCTTTG
* *
16065804 TGGCA-AACCATGACAAG-AAAGCATTTG
1 TGGCATAA-TATGA-AAGAAAAGCCTTTG
*
16065831 TGGCA-AATCATGAAATGGAAA-CCTTTG
1 TGGCATAAT-ATGAAA-GAAAAGCCTTTG
16065858 TGGCA
1 TGGCA
16065863 ATCTCTAAAA
Statistics
Matches: 224, Mismatches: 41, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
26 8 0.04
27 206 0.92
28 10 0.04
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.29
Consensus pattern (27 bp):
TGGCATAATATGAAAGAAAAGCCTTTG
Found at i:16065876 original size:54 final size:54
Alignment explanation
Indices: 16065719--16065881 Score: 131
Period size: 54 Copynumber: 3.0 Consensus size: 54
16065709 AAGAATAACT
* * * * *
16065719 TTTGTGGCATAATATGAAA-GAAAAACCTTTGTGGCATA--ATATGAAAGAATAGCC
1 TTTGTGGCAAAATATGAAATG-AAGACCTTTGTGGCAAACCATA-AAAAGAA-AGCA
** * *
16065773 TTTGTGGCAAAATATGAAATGAAGGTCTTTGTGGCAAACCATGACAAGAAAGCA
1 TTTGTGGCAAAATATGAAATGAAGACCTTTGTGGCAAACCATAAAAAGAAAGCA
* *
16065827 TTTGTGGC-AAATCATGAAATGGAA-ACCTTTGTGGCAATCTC-TAAAAAGAATGCA
1 TTTGTGGCAAAAT-ATGAAAT-GAAGACCTTTGTGGCAAAC-CATAAAAAGAAAGCA
16065881 T
1 T
16065882 CGGTGGCATA
Statistics
Matches: 88, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
53 4 0.05
54 72 0.82
55 10 0.11
56 2 0.02
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (54 bp):
TTTGTGGCAAAATATGAAATGAAGACCTTTGTGGCAAACCATAAAAAGAAAGCA
Found at i:16067881 original size:41 final size:40
Alignment explanation
Indices: 16067824--16068047 Score: 214
Period size: 41 Copynumber: 5.5 Consensus size: 40
16067814 CTTTAATTAT
** * *
16067824 TTTGTACTTCGGTACCCCTTAACTGCACATACGTGCTCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTGC-CCTG
* * *
16067865 TTTGTACTTTAATACCCTTGAATTGCACATACATGACCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTG-CCCTG
* *
16067906 TTTGTACTTCAATACCTCTGAATTGCATATACGTGCCCGTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTGCCC-TG
** *
16067947 TTTGTACTTCGGTACACCTGAATTGCACATACGTGCCCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGTG-CCCTG
* ** * * *
16067988 TTCGTACTTCGGTACCTCTGAATTACACATACGTACCCCTG
1 TTTGTACTTCAATACCCCTGAATTGCACATACGT-GCCCTG
* **
16068029 TTTATACTTCGGTACCCCT
1 TTTGTACTTCAATACCCCT
16068048 AGATGTACTT
Statistics
Matches: 154, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
40 3 0.02
41 147 0.95
42 4 0.03
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.35
Consensus pattern (40 bp):
TTTGTACTTCAATACCCCTGAATTGCACATACGTGCCCTG
Found at i:16067969 original size:82 final size:81
Alignment explanation
Indices: 16067824--16068045 Score: 266
Period size: 82 Copynumber: 2.7 Consensus size: 81
16067814 CTTTAATTAT
* * * ***
16067824 TTTGTACTTCGGTACCCCTTAACTGCACATACGTGCTCCTGTTTGTACTTTAATACCCTTGAATT
1 TTTGTACTTCGGTACCTCTGAATTGCACATACGTGC-CCTGTTTGTACTTCGGTACCCTTGAATT
16067889 GCACATACATGACCCTG
65 GCACATACATGACCCTG
** *
16067906 TTTGTACTTCAATACCTCTGAATTGCATATACGTGCCCGTGTTTGTACTTCGGTACACC-TGAAT
1 TTTGTACTTCGGTACCTCTGAATTGCACATACGTGCCC-TGTTTGTACTTCGGTAC-CCTTGAAT
* *
16067970 TGCACATACGTGCCCCTG
64 TGCACATACATGACCCTG
* * * *
16067988 TTCGTACTTCGGTACCTCTGAATTACACATACGTACCCCTGTTTATACTTCGGTACCC
1 TTTGTACTTCGGTACCTCTGAATTGCACATACGT-GCCCTGTTTGTACTTCGGTACCC
16068046 CTAGATGTAC
Statistics
Matches: 119, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
81 4 0.03
82 110 0.92
83 5 0.04
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (81 bp):
TTTGTACTTCGGTACCTCTGAATTGCACATACGTGCCCTGTTTGTACTTCGGTACCCTTGAATTG
CACATACATGACCCTG
Found at i:16075889 original size:18 final size:17
Alignment explanation
Indices: 16075841--16075891 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 17
16075831 TGTTAATTTC
16075841 ACATTTAAAAATAATTAT
1 ACATTT-AAAATAATTAT
16075859 A-ATTTAATTAATAATTAT
1 ACATTTAA--AATAATTAT
16075877 ACATTTACAAATAAT
1 ACATTTA-AAATAAT
16075892 CAAAATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
16 2 0.07
17 4 0.14
18 17 0.59
19 5 0.17
20 1 0.03
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (17 bp):
ACATTTAAAATAATTAT
Found at i:16075911 original size:36 final size:36
Alignment explanation
Indices: 16075841--16075912 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
16075831 TGTTAATTTC
* * *
16075841 ACATTTAAAAATAATTATAATTTAATTAATAATTAT
1 ACATTTAAAAATAATCAAAATTTAATTAACAATTAT
*
16075877 ACATTTACAAATAATCAAAATTTAAATT-ACAATTAT
1 ACATTTAAAAATAATCAAAATTT-AATTAACAATTAT
16075913 TCCTTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
36 27 0.87
37 4 0.13
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (36 bp):
ACATTTAAAAATAATCAAAATTTAATTAACAATTAT
Found at i:16076649 original size:3 final size:3
Alignment explanation
Indices: 16076641--16076699 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
16076631 AGAAAATCCT
16076641 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
16076689 TTC TTC TTC TT
1 TTC TTC TTC TT
16076700 TTTGCATTAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:16081444 original size:23 final size:23
Alignment explanation
Indices: 16081418--16081465 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
16081408 AATTTTTTTT
16081418 ATATATGAAATATA-GATTTTATC
1 ATATAT-AAATATATGATTTTATC
* *
16081441 ATATATTAATTTATGATTTTATC
1 ATATATAAATATATGATTTTATC
16081464 AT
1 AT
16081466 TTTTGAAGAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (23 bp):
ATATATAAATATATGATTTTATC
Found at i:16089646 original size:29 final size:29
Alignment explanation
Indices: 16089614--16089672 Score: 68
Period size: 29 Copynumber: 2.0 Consensus size: 29
16089604 CTAATACTAT
16089614 TATTTAT-CTAATATT-TATTTGTCTATTTA
1 TATTTATACTAATATTATA-TT-TCTATTTA
* *
16089643 TATTTCTACTATTATTATATTTCTATTTA
1 TATTTATACTAATATTATATTTCTATTTA
16089672 T
1 T
16089673 TATATTTCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
29 15 0.58
30 9 0.35
31 2 0.08
ACGTcount: A:0.27, C:0.08, G:0.02, T:0.63
Consensus pattern (29 bp):
TATTTATACTAATATTATATTTCTATTTA
Found at i:16089662 original size:17 final size:15
Alignment explanation
Indices: 16089640--16089684 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
16089630 ATTTGTCTAT
16089640 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
16089657 TTATATTTCTATTTA
1 TTATATTTCTATTTA
16089672 TTATATTTCTATT
1 TTATATTTCTATT
16089685 ACTATTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:16089689 original size:21 final size:20
Alignment explanation
Indices: 16089660--16089698 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
16089650 ACTATTATTA
*
16089660 TATTTCTATTTATTATATTTC
1 TATTACTATTTA-TATATTTC
16089681 TATTACTATTTATATATT
1 TATTACTATTTATATATT
16089699 AATATTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (20 bp):
TATTACTATTTATATATTTC
Found at i:16089704 original size:20 final size:20
Alignment explanation
Indices: 16089655--16089705 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
16089645 TTTCTACTAT
*
16089655 TATTATATTTCTATTTATTA
1 TATTATATTACTATTTATTA
*
16089675 TATTTCTATTACTATTTA-TA
1 TA-TTATATTACTATTTATTA
16089695 TATTAATATTA
1 TATT-ATATTA
16089706 TGTTCATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 11 0.42
21 13 0.50
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (20 bp):
TATTATATTACTATTTATTA
Found at i:16090058 original size:3 final size:3
Alignment explanation
Indices: 16090044--16090089 Score: 56
Period size: 3 Copynumber: 15.0 Consensus size: 3
16090034 GAAAATTTTA
* **
16090044 TAT TAT TCAT TAT TAT TAT TGT TAT TAT TAT TAT TGC TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16090090 CCTTTTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:16090070 original size:15 final size:15
Alignment explanation
Indices: 16090044--16090089 Score: 69
Period size: 15 Copynumber: 3.2 Consensus size: 15
16090034 GAAAATTTTA
16090044 TATTATT-C-ATTAT
1 TATTATTGCTATTAT
*
16090057 TATTATTGTTATTAT
1 TATTATTGCTATTAT
16090072 TATTATTGCTATTAT
1 TATTATTGCTATTAT
16090087 TAT
1 TAT
16090090 CCTTTTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 7 0.24
15 22 0.76
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (15 bp):
TATTATTGCTATTAT
Found at i:16095912 original size:53 final size:53
Alignment explanation
Indices: 16095832--16095978 Score: 249
Period size: 53 Copynumber: 2.8 Consensus size: 53
16095822 CATCTTACCT
*
16095832 TTATTACATTTGCTATCTTTGATTAACTTACTCATTTCGAGTTAATTCCCTTC
1 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAATTCCCTTC
* *
16095885 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCAAGTTAATTTCCTTC
1 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAATTCCCTTC
* *
16095938 TTATTGCATTTGCTATCTTTGATTAATTTATTCATTTCGAG
1 TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAG
16095979 CAATGCTCCC
Statistics
Matches: 88, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 88 1.00
ACGTcount: A:0.23, C:0.17, G:0.08, T:0.52
Consensus pattern (53 bp):
TTATTACATTTGCTATCTTTGATTAACTTATTCATTTCGAGTTAATTCCCTTC
Found at i:16097652 original size:25 final size:26
Alignment explanation
Indices: 16097619--16097668 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
16097609 TTAATTTATA
16097619 TATTATTATTTTTCAT-ATTTATTTT
1 TATTATTATTTTTCATGATTTATTTT
* *
16097644 TATTCTTATTTTTTATGATTTATTT
1 TATTATTATTTTTCATGATTTATTT
16097669 CAAACTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.64
26 8 0.36
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.72
Consensus pattern (26 bp):
TATTATTATTTTTCATGATTTATTTT
Found at i:16110388 original size:132 final size:132
Alignment explanation
Indices: 16110206--16110496 Score: 367
Period size: 132 Copynumber: 2.2 Consensus size: 132
16110196 GATTGTAGTA
* *
16110206 TTATCTTCCTTAGGTAGCAAGGGAGCAGACTGATGATGTAGATCTTGTCTCCTCA-AGATAGCAG
1 TTATC-TCCCTAGGTAGCAAGGGAGCAGACTAATGATGTAGATCTTGTCTCCT-AGAGATAGCAG
** *
16110270 T-GGGATAGATAAAAAATTGCGAATCTTATCTTCCCGAGGTAGTA-GAG-GATAGATTTTAGCCA
64 TAGGG-TAGATAAAAAACGGCGAATCTTATCTTCCCGAGGTAGTAGGAGAG-CAGATTTTAGCCA
*
16110332 CTAGCC
127 CCAGCC
* * * *
16110338 TTATCTCCCTGAGGTAGCAAGGGAGTATACTAATGAT-TCAGATTTTGTCTCCTAGAGATAGTAG
1 TTATCTCCCT-AGGTAGCAAGGGAGCAGACTAATGATGT-AGATCTTGTCTCCTAGAGATAGCAG
** * *
16110402 TAGGGTAGATTGAAAGCGGTGAATCTTATCTTCCCGAGGTAGTAGGAGAGCAGATTTTAGCCACC
64 TAGGGTAGATAAAAAACGGCGAATCTTATCTTCCCGAGGTAGTAGGAGAGCAGATTTTAGCCACC
16110467 AGCC
129 AGCC
16110471 TTATCTCCCTAGGTAGCAAGGGAGCA
1 TTATCTCCCTAGGTAGCAAGGGAGCA
16110497 AGCTGAAGAT
Statistics
Matches: 138, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
131 6 0.04
132 98 0.71
133 33 0.24
134 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (132 bp):
TTATCTCCCTAGGTAGCAAGGGAGCAGACTAATGATGTAGATCTTGTCTCCTAGAGATAGCAGTA
GGGTAGATAAAAAACGGCGAATCTTATCTTCCCGAGGTAGTAGGAGAGCAGATTTTAGCCACCAG
CC
Found at i:16112651 original size:15 final size:15
Alignment explanation
Indices: 16112628--16112666 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
16112618 TTATCTTAAA
* *
16112628 ATTAATTTATATATT
1 ATTATTTTACATATT
16112643 ATTATTTTACATATT
1 ATTATTTTACATATT
16112658 ATTTATTTT
1 A-TTATTTT
16112667 TATTCTTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTATTTTACATATT
Found at i:16113872 original size:46 final size:46
Alignment explanation
Indices: 16113819--16113966 Score: 206
Period size: 46 Copynumber: 3.2 Consensus size: 46
16113809 AGAGCAAATT
*
16113819 GATTGAAGAAGATACAAATCCTATACCCCTGAATTGTAGTGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
* *
16113865 GATTGAAGAAGATACAAATCCTATACCCCTGAGCTGTAATGGGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
* * * * * *
16113911 GATTGAAGATGGTACAAATTCTATACCCTTGAGTTGCAGTGAGATG
1 GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
*
16113957 GATGGAAGAA
1 GATTGAAGAA
16113967 ACCACAAATT
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 89 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (46 bp):
GATTGAAGAAGATACAAATCCTATACCCCTGAGTTGTAGTGGGATG
Found at i:16114420 original size:45 final size:43
Alignment explanation
Indices: 16114314--16114440 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 43
16114304 TAAATCTACA
*
16114314 AATCTTAT-TTCCCTGAAGTATCAGTGGAGCAGATTGAAGTCGCG
1 AATCTTATCTT-CCTGAAGT-TCAGTGGAGTAGATTGAAGTCGCG
* * *
16114358 AATCTTATC-TCCTTGAAGTTGCAATGGAGTAGATTGAAGATGGTG
1 AATCTTATCTTCC-TGAAGTT-CAGTGGAGTAGATTGAAG-TCGCG
* *
16114403 GATCTTATCTTCCTGAAGTT-ACGTGAAGTAGATTGAAG
1 AATCTTATCTTCCTGAAGTTCA-GTGGAGTAGATTGAAG
16114441 CCACCAGCCT
Statistics
Matches: 70, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
43 4 0.06
44 45 0.64
45 18 0.26
46 3 0.04
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
AATCTTATCTTCCTGAAGTTCAGTGGAGTAGATTGAAGTCGCG
Found at i:16114691 original size:143 final size:143
Alignment explanation
Indices: 16114397--16114763 Score: 479
Period size: 143 Copynumber: 2.6 Consensus size: 143
16114387 TAGATTGAAG
* * *
16114397 ATGGTGGATCTTATCTTCCTGAAGTTAC-GTGAAGTAGATTGAAGCCACCAGCCTTATCTCCTTG
1 ATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCTTG
* * * * * * *
16114461 AAGTTTCAACCGAACAAACTGAAGAAATCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
16114526 AAAGCTACAAAAA
131 AAAGCTACAAAAA
* * *
16114539 ATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTAAAGCCACCAGCCTTATCTCCCTG
1 ATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCTTG
*
16114604 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCTCT-AGAGTTGCAGTGGAACAGAT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTGA-AGTTGCAGTGGAACAGAT
* * **
16114668 TGAAGCTACGAATT
130 TAAAGCTACAAAAA
* * **
16114682 ATGGTGGATCTTATC-TTCTTGAAGTTGCAATGGAGGAGATTGAAGCTGCCAGCCTTATCTCCTT
1 ATGGTGGATCTTATCTTTC-TGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCTT
* *
16114746 GAAGTTGTAGTGGAGCAG
65 GAAGTTGCAGCGGAGCAG
16114764 GTTGAAATTA
Statistics
Matches: 195, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
142 29 0.15
143 166 0.85
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (143 bp):
ATGGTGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTGAAGCCACCAGCCTTATCTCCTTG
AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATT
AAAGCTACAAAAA
Found at i:16114802 original size:143 final size:143
Alignment explanation
Indices: 16114397--16114822 Score: 380
Period size: 143 Copynumber: 3.0 Consensus size: 143
16114387 TAGATTGAAG
* * * * * * * *
16114397 ATGGTGGATCTTATCTTCCTGAAGTTAC-GTGAAGTAGATTGAAGCCACCAGCCTTATCTCCTTG
1 ATGGCGGATCTTATCTTTCTGAAGTTGCAATGGAGGAGATTAAAGCCACCAGCCTTATCTCCCTG
* * * * * * * * * **
16114461 AAGTTTCAACCGAACAAACTGAAGAAATCGAATCTTATTTCCCT-GAAGTTGTAGTGGAACAGAT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCCAATCTTATTACTCTAG-AGTTCCAGTGGAACAGAT
*
16114525 TAAAGCTACAAAAA
130 TGAAGCTACAAAAA
* *
16114539 ATGGCGGATCTTATCTTTCTGAAGTTGCAGTGGAGTAGATTAAAGCCACCAGCCTTATCTCCCTG
1 ATGGCGGATCTTATCTTTCTGAAGTTGCAATGGAGGAGATTAAAGCCACCAGCCTTATCTCCCTG
* * *
16114604 AAGTTGCAGCGGAGCAGACTGAAGAAAGCGAATCTTATTTCTCTAGAGTTGCAGTGGAACAGATT
66 AAGTTGCAGCGGAGCAGACTGAAGAAAGCCAATCTTATTACTCTAGAGTTCCAGTGGAACAGATT
* **
16114669 GAAGCTACGAATT
131 GAAGCTACAAAAA
* * ** *
16114682 ATGGTGGATCTTATC-TTCTTGAAGTTGCAATGGAGGAGATTGAAGCTGCCAGCCTTATCTCCTT
1 ATGGCGGATCTTATCTTTC-TGAAGTTGCAATGGAGGAGATTAAAGCCACCAGCCTTATCTCCCT
* * ** * * *
16114746 GAAGTTGTAGTGGAGCAGGTTGAA-ATTA-CCAATTCTTATCTACTTTA-AGTTCCAGT-GAAGT
65 GAAGTTGCAGCGGAGCAGACTGAAGA-AAGCCAA-TCTTAT-TACTCTAGAGTTCCAGTGGAA-C
*
16114807 AGATCGAAGCTACAAA
126 AGATTGAAGCTACAAA
16114823 TCTCTTGTAA
Statistics
Matches: 240, Mismatches: 37, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
142 35 0.15
143 199 0.83
144 6 0.03
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (143 bp):
ATGGCGGATCTTATCTTTCTGAAGTTGCAATGGAGGAGATTAAAGCCACCAGCCTTATCTCCCTG
AAGTTGCAGCGGAGCAGACTGAAGAAAGCCAATCTTATTACTCTAGAGTTCCAGTGGAACAGATT
GAAGCTACAAAAA
Found at i:16117787 original size:37 final size:38
Alignment explanation
Indices: 16117727--16117799 Score: 112
Period size: 37 Copynumber: 1.9 Consensus size: 38
16117717 AAAAAAAATA
** *
16117727 ATTTTTATATTTTTTTATTAATTTTTAAATTTTAAACT
1 ATTTTTATAAATTTTTATGAATTTTTAAATTTTAAACT
16117765 ATTTTTATAAATTTTT-TGAATTTTTAAATTTTAAA
1 ATTTTTATAAATTTTTATGAATTTTTAAATTTTAAA
16117800 AAATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 18 0.56
38 14 0.44
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.63
Consensus pattern (38 bp):
ATTTTTATAAATTTTTATGAATTTTTAAATTTTAAACT
Found at i:16120495 original size:25 final size:25
Alignment explanation
Indices: 16120446--16120494 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
16120436 AAATTGATAC
*
16120446 GAAACAGAGGAAAAAAGGGAGAAAA
1 GAAACAGAGGAAAAAAGAGAGAAAA
16120471 GAAACAGA-GAAAGAAAGA-AGAAAA
1 GAAACAGAGGAAA-AAAGAGAGAAAA
16120495 ATTAGGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 12 0.55
ACGTcount: A:0.67, C:0.04, G:0.29, T:0.00
Consensus pattern (25 bp):
GAAACAGAGGAAAAAAGAGAGAAAA
Found at i:16122731 original size:3 final size:3
Alignment explanation
Indices: 16122723--16122758 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
16122713 CAATAGATAG
16122723 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
16122759 CGGAATAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:16124817 original size:44 final size:44
Alignment explanation
Indices: 16124708--16124887 Score: 191
Period size: 44 Copynumber: 4.1 Consensus size: 44
16124698 GATTTGTGAC
* * * * *
16124708 TTGTAGCTTTAATCTGTTCTACTGCAAGTTCAGGGA-AGTGAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAGA-TGAGAT
* * *
16124752 TCGCTATCTTCAATCTGCTCCACTGCAATTTCAAGGAGATGAGAT
1 TTG-TAACTTCAATCTGCTCCACTGCAATTTCAGGGAGATGAGAT
* * * * *
16124797 TTGTAACTTCAACCTGCTCCACTGTAATTTTAGGGAGATAAGGT
1 TTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAGATGAGAT
** *
16124841 TTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATGAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAGATGAGAT
16124885 TTG
1 TTG
16124888 CCACGATGAC
Statistics
Matches: 111, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 75 0.68
45 35 0.32
46 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (44 bp):
TTGTAACTTCAATCTGCTCCACTGCAATTTCAGGGAGATGAGAT
Found at i:16142937 original size:19 final size:20
Alignment explanation
Indices: 16142915--16142953 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
16142905 TTATGAAACT
*
16142915 TAATACATATG-ATGAAATG
1 TAATACAGATGAATGAAATG
*
16142934 TAATGCAGATGAATGAAATG
1 TAATACAGATGAATGAAATG
16142954 AATGCAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.46, C:0.05, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATACAGATGAATGAAATG
Found at i:16146695 original size:3 final size:3
Alignment explanation
Indices: 16146682--16146738 Score: 96
Period size: 3 Copynumber: 18.7 Consensus size: 3
16146672 ATAAATACAC
16146682 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
16146728 AAT AAC AAT AA
1 AAT AAT AAT AA
16146739 CGGAATAGAT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
3 48 0.94
4 3 0.06
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:16146830 original size:22 final size:23
Alignment explanation
Indices: 16146783--16146830 Score: 55
Period size: 22 Copynumber: 2.1 Consensus size: 23
16146773 AATAAAACCA
*
16146783 AAATAAAGAACAAATAAAAAGGT
1 AAATAAAGAACAAATAAAAAGAT
*
16146806 AAATAAAGTA-AAATAAATAA-AT
1 AAATAAAGAACAAATAAA-AAGAT
16146828 AAA
1 AAA
16146831 CAATAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.17
Consensus pattern (23 bp):
AAATAAAGAACAAATAAAAAGAT
Found at i:16149229 original size:40 final size:40
Alignment explanation
Indices: 16149185--16149274 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
16149175 ATCAAAATGG
* * * *
16149185 ATAGGATTTGTTATTGATTCACTATGGTAATTTAAAGTGA
1 ATAGGATTTGTTACTGATTCACTACGGTAACTTAAAGCGA
* * *
16149225 ATAGGATTTATTCCTGATTCACTACGGTAACTTAAGGCGA
1 ATAGGATTTGTTACTGATTCACTACGGTAACTTAAAGCGA
16149265 ATAGGATTTG
1 ATAGGATTTG
16149275 ACCTAAAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (40 bp):
ATAGGATTTGTTACTGATTCACTACGGTAACTTAAAGCGA
Found at i:16152329 original size:38 final size:39
Alignment explanation
Indices: 16152255--16152331 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
16152245 TAATTTAGGG
*
16152255 TTAGGGTTTTTTAGGATTTAAGGTTAAAGGTTTTTTAAA
1 TTAGGGTTTTTTAGGATTTAAGGTTAAAGGTATTTTAAA
* * *
16152294 TTAGGG-TTTTTAGGGTTTTAGGGTTTAAGG-ATTTTAAA
1 TTAGGGTTTTTTA-GGATTTAAGGTTAAAGGTATTTTAAA
16152332 AAAATGATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 13 0.39
39 20 0.61
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (39 bp):
TTAGGGTTTTTTAGGATTTAAGGTTAAAGGTATTTTAAA
Found at i:16152414 original size:19 final size:19
Alignment explanation
Indices: 16152390--16152460 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 19
16152380 AGTTTAAGGT
16152390 ATTAGGGTTAATTAATTAA
1 ATTAGGGTTAATTAATTAA
* * *
16152409 ATTAGGGATAA--ATTTAGGG
1 ATTAGGGTTAATTAATTA--A
* *
16152428 TTTAGGGTTAATTGATTAA
1 ATTAGGGTTAATTAATTAA
16152447 ATTTAGGGTTAATT
1 A-TTAGGGTTAATT
16152461 GATACATAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 9
0.68 0.16 0.16
Matches are distributed among these distances:
17 4 0.11
19 19 0.50
20 12 0.32
21 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (19 bp):
ATTAGGGTTAATTAATTAA
Found at i:16152829 original size:34 final size:34
Alignment explanation
Indices: 16152791--16152903 Score: 92
Period size: 34 Copynumber: 3.4 Consensus size: 34
16152781 AAAAAAAGTG
*
16152791 AATTAGAATTTAGGGTTTTAGGGTTAATTCATTA
1 AATTAGAGTTTAGGGTTTTAGGGTTAATTCATTA
* * ** * *
16152825 AATTA-ACTATTA--ATTTTA-AATACTAAAT-ACTA
1 AATTAGAGT-TTAGGGTTTTAGGGT--TAATTCATTA
*
16152857 AATTAGAGTTTAGGGTATTAGGGTTAATTCATTA
1 AATTAGAGTTTAGGGTTTTAGGGTTAATTCATTA
16152891 AATTAGAGTTTAG
1 AATTAGAGTTTAG
16152904 TTTTTTTAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
31 1 0.02
32 16 0.28
33 12 0.21
34 28 0.48
35 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.16, T:0.42
Consensus pattern (34 bp):
AATTAGAGTTTAGGGTTTTAGGGTTAATTCATTA
Found at i:16153218 original size:126 final size:126
Alignment explanation
Indices: 16152991--16153501 Score: 621
Period size: 126 Copynumber: 4.0 Consensus size: 126
16152981 TTTCTGCAAG
* * * *
16152991 AATAATTCTGAGTAGACGTTTCTAAACAAATAGTGTCGAAAAATACTTCAAGTAGGATGCACTGT
1 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTC-AAAAACACTTCAAGCAGGATGCACTGT
* * * *
16153056 CAGCAAAATTTTTGGAAAAAGCTCCCACATGAACGCTTTTTTGCTACAGTAGTTCGTAGAAA
65 CAGCAAAATTTCTAGAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * ** * *
16153118 AATAATTCTGAATAGACGTTTCTGAACATATAATGTCAAAAACGTTTCAAGCATGATGCACTATC
1 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCACTGTC
* * * *
16153183 AGTAAAATTTCTAGAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAATAGTTTGTAGAAA
66 AGCAAAATTTCTAGAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
** *
16153244 AATAATTCT-AAGTAGACGTTTCTGAACAAATAGTGTCAAAAATGCTTCAAGCATGATGCACTGT
1 AATAATTCTGAA-TAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCACTGT
** * * * * *
16153308 CAATAAAATTTC-AGAAAAAAGCTCCCATGTGGATGCTCTTTTGCTATAGTAGTTCATAGAAA
65 CAGCAAAATTTCTAG-AAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
* * * * * *
16153370 ATTAACTCTGAGTAGACATTTCTGAACAAATAGTGTCGAAAACACTTCAAGTAGGATGCACTGTC
1 AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCACTGTC
* * *
16153435 AGCAAAATTTCAAAAAAAAAAAGCTCCCACGTGAATGCTCTTTTGCTACAGTAGTTCGTAGAAA
66 AGCAAAATTTC---TAGAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
16153499 AAT
1 AAT
16153502 GAGGCTATAA
Statistics
Matches: 330, Mismatches: 47, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
125 4 0.01
126 246 0.75
127 34 0.10
129 45 0.14
130 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (126 bp):
AATAATTCTGAATAGACGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCACTGTC
AGCAAAATTTCTAGAAAAAGCTCCCACGTGAACGCTCTTTTGCTACAGTAGTTCGTAGAAA
Found at i:16153715 original size:16 final size:16
Alignment explanation
Indices: 16153694--16153731 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
16153684 AGTTTTTAAC
16153694 CAGAACATAGATTTGA
1 CAGAACATAGATTTGA
16153710 CAGAACATAGATTTGA
1 CAGAACATAGATTTGA
16153726 CAGAAC
1 CAGAAC
16153732 TTCATAAAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.45, C:0.16, G:0.18, T:0.21
Consensus pattern (16 bp):
CAGAACATAGATTTGA
Found at i:16156719 original size:29 final size:29
Alignment explanation
Indices: 16156687--16156777 Score: 130
Period size: 29 Copynumber: 3.2 Consensus size: 29
16156677 GGGCCTACCT
16156687 GGCCATATAAATGTGATTTGGGCCTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
* *
16156716 GGCCATATACAGGTGATTTGGGCCTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
* * *
16156745 GGCCATATGAATATGA-TTGGGCTTAATG
1 GGCCATATAAATGTGATTTGGGCCTAATG
16156773 GGCCA
1 GGCCA
16156778 GATACAGGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 16 0.29
29 39 0.71
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (29 bp):
GGCCATATAAATGTGATTTGGGCCTAATG
Found at i:16161288 original size:48 final size:47
Alignment explanation
Indices: 16161210--16161345 Score: 166
Period size: 48 Copynumber: 2.8 Consensus size: 47
16161200 ATGCAAACAT
*
16161210 CATAAATGAAAAAAAAAATCAAACAGTATTGAAATTGTAATTATAA-TTG
1 CATAAATG-AAAAAAATATCAAACAGTATTGAAATT-TAATTA-AATTTG
* *
16161259 CATAAATGAATAAAATATCAAACAATATTGCAAATTTAATTAAATTTG
1 CATAAATGAAAAAAATATCAAACAGTATTG-AAATTTAATTAAATTTG
* * *
16161307 CATAAATTAAAAAAATATCGAATAGTATTGAAAATTTAA
1 CATAAATGAAAAAAATATCAAACAGTATTG-AAATTTAA
16161346 AACTATCACT
Statistics
Matches: 76, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 2 0.03
48 61 0.80
49 13 0.17
ACGTcount: A:0.54, C:0.07, G:0.08, T:0.31
Consensus pattern (47 bp):
CATAAATGAAAAAAATATCAAACAGTATTGAAATTTAATTAAATTTG
Found at i:16161499 original size:11 final size:11
Alignment explanation
Indices: 16161483--16161520 Score: 67
Period size: 11 Copynumber: 3.5 Consensus size: 11
16161473 AACAAACAAA
16161483 TTTGATAGAAT
1 TTTGATAGAAT
*
16161494 TTTGATAGAAA
1 TTTGATAGAAT
16161505 TTTGATAGAAT
1 TTTGATAGAAT
16161516 TTTGA
1 TTTGA
16161521 AAAAATTTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (11 bp):
TTTGATAGAAT
Found at i:16161508 original size:22 final size:22
Alignment explanation
Indices: 16161480--16161545 Score: 82
Period size: 22 Copynumber: 3.0 Consensus size: 22
16161470 TTAAACAAAC
16161480 AAATTTGATAGAATTTTGATAG
1 AAATTTGATAGAATTTTGATAG
*
16161502 AAATTTGATAGAATTTTGA-AA
1 AAATTTGATAGAATTTTGATAG
* *
16161523 AAATTTCA-ATGAAATTTGATAG
1 AAATTTGATA-GAATTTTGATAG
16161545 A
1 A
16161546 TTTTTTAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 16 0.42
22 21 0.55
ACGTcount: A:0.45, C:0.02, G:0.15, T:0.38
Consensus pattern (22 bp):
AAATTTGATAGAATTTTGATAG
Found at i:16165471 original size:29 final size:30
Alignment explanation
Indices: 16165439--16165496 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
16165429 ATTATGAAAA
16165439 ATATATTTTTATAAAAA-TATAAAAATATT
1 ATATATTTTTATAAAAATTATAAAAATATT
* *
16165468 ATATATTTTTTTAAAAATTATATAAATAT
1 ATATATTTTTATAAAAATTATAAAAATAT
16165497 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (30 bp):
ATATATTTTTATAAAAATTATAAAAATATT
Found at i:16165478 original size:30 final size:29
Alignment explanation
Indices: 16165439--16165496 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
16165429 ATTATGAAAA
16165439 ATATATTTTTATAAAAA-TATAAAAATATT
1 ATATATTTTT-TAAAAATTATAAAAATATT
*
16165468 ATATATTTTTTTAAAAATTATATAAATAT
1 ATATA-TTTTTTAAAAATTATAAAAATAT
16165497 ATTTAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 11 0.42
30 15 0.58
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (29 bp):
ATATATTTTTTAAAAATTATAAAAATATT
Found at i:16165482 original size:21 final size:22
Alignment explanation
Indices: 16165458--16165509 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
16165448 TATAAAAATA
* * *
16165458 TAAAAATAT-TATATATTTTTT
1 TAAAAATATATATAAATATATT
16165479 TAAAAAT-TATATAAATATATT
1 TAAAAATATATATAAATATATT
16165500 TAAAAATATA
1 TAAAAATATA
16165510 AAATGTTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 23 0.88
22 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAAAATATATATAAATATATT
Found at i:16165510 original size:18 final size:18
Alignment explanation
Indices: 16165477--16165524 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 18
16165467 TATATATTTT
*
16165477 TTTAAAAATTATATAAATATA
1 TTTAAAAA-TATA-AAAT-GA
*
16165498 TTTAAAAATATAAAATGT
1 TTTAAAAATATAAAATGA
16165516 TTTAAAAAT
1 TTTAAAAAT
16165525 TTGAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.36
19 4 0.16
20 4 0.16
21 8 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
TTTAAAAATATAAAATGA
Found at i:16166590 original size:20 final size:20
Alignment explanation
Indices: 16166544--16166586 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
16166534 AAAATCCACG
16166544 AGTTAACCAAAAACTAATTA
1 AGTTAACCAAAAACTAATTA
*
16166564 AGTTAACC-AAAACTGATTA
1 AGTTAACCAAAAACTAATTA
16166583 AGTT
1 AGTT
16166587 TAACATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (20 bp):
AGTTAACCAAAAACTAATTA
Found at i:16170715 original size:53 final size:53
Alignment explanation
Indices: 16170642--16170789 Score: 188
Period size: 53 Copynumber: 2.8 Consensus size: 53
16170632 TTTGAAGAAT
* * *
16170642 CATATTGTGTAAGACCGTAATTGGTGGGTTATGACATCATATAAAAAGAAGAC
1 CATATCGTGTAAGACAGTAATTGGTGGGTTATGACATCATATAAAAAGAAAAC
* * * * *
16170695 CATATCGTGTAAAACAGTAATTGGTGGGTTATGGCATCAAATAGAAAGAAAAT
1 CATATCGTGTAAGACAGTAATTGGTGGGTTATGACATCATATAAAAAGAAAAC
* ** *
16170748 CATATCATGTAAGATTGTAACTGGTGGGTTATGACATCATAT
1 CATATCGTGTAAGACAGTAATTGGTGGGTTATGACATCATAT
16170790 GAGAAAAATT
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 80 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (53 bp):
CATATCGTGTAAGACAGTAATTGGTGGGTTATGACATCATATAAAAAGAAAAC
Found at i:16171004 original size:61 final size:61
Alignment explanation
Indices: 16170909--16171074 Score: 242
Period size: 61 Copynumber: 2.7 Consensus size: 61
16170899 ACCAGGAAAT
* *
16170909 GAAAGCCTTTGTGGCGAATATTGAATGTAAAGGAACGCCTTTGTAACAAAACTCTGGACAA
1 GAAAGCCTTTGTGGCGAGTATTGAATGTAAAGGAATGCCTTTGTAACAAAACTCTGGACAA
* * * * *
16170970 GAAAGCCTTTGTAGAGAGTATTAAATGTAAAGGAATGCCTTTGTAGCAAAACTCTGGACAT
1 GAAAGCCTTTGTGGCGAGTATTGAATGTAAAGGAATGCCTTTGTAACAAAACTCTGGACAA
* * *
16171031 GAAAGCTTTTGTGGCGAGTACTGAATGTAAATGAATGCCTTTGT
1 GAAAGCCTTTGTGGCGAGTATTGAATGTAAAGGAATGCCTTTGT
16171075 GGCGCAATTT
Statistics
Matches: 92, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 92 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (61 bp):
GAAAGCCTTTGTGGCGAGTATTGAATGTAAAGGAATGCCTTTGTAACAAAACTCTGGACAA
Found at i:16179869 original size:17 final size:17
Alignment explanation
Indices: 16179839--16179899 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
16179829 AAATCTCTCT
16179839 ATAATAATAATAAAATTA
1 ATAATAA-AATAAAATTA
16179857 ATAATAAAATAAAA-TA
1 ATAATAAAATAAAATTA
* * *
16179873 GTGAAAAAAATAAAATAA
1 AT-AATAAAATAAAATTA
*
16179891 AAAATAAAA
1 ATAATAAAA
16179900 AAACAACATT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
16 3 0.09
17 24 0.69
18 8 0.23
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (17 bp):
ATAATAAAATAAAATTA
Found at i:16179901 original size:22 final size:22
Alignment explanation
Indices: 16179839--16179902 Score: 67
Period size: 22 Copynumber: 2.8 Consensus size: 22
16179829 AAATCTCTCT
16179839 ATAATAATAATAAAATTAATAATAAA
1 ATAA-AATAATAAAA--AA-AATAAA
* *
16179865 ATAAAATAGTGAAAAAAATAAA
1 ATAAAATAATAAAAAAAATAAA
16179887 ATAAAA-AATAAAAAAA
1 ATAAAATAATAAAAAAA
16179903 CAACATTTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
21 8 0.24
22 12 0.35
23 2 0.06
25 8 0.24
26 4 0.12
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (22 bp):
ATAAAATAATAAAAAAAATAAA
Found at i:16185678 original size:45 final size:45
Alignment explanation
Indices: 16185537--16185686 Score: 137
Period size: 45 Copynumber: 3.4 Consensus size: 45
16185527 CCTTTGCACC
* * * *
16185537 ACGATGTGGATGAACCACTAAGCGTTGTAGATAAAA--TGCTAGT
1 ACGATGTGGATAAACCACTAATCGATGCAGATAAAAGTTGCTAGT
** * * *
16185580 ACGATGTAAATAAATCACTAATC-AGTGCATATAAAAGTGGCTAGT
1 ACGATGTGGATAAACCACTAATCGA-TGCAGATAAAAGTTGCTAGT
* * *
16185625 TC-AGTGTGGATAAACCACTATTCGATGCAGATAAAAGTTGCTAAT
1 ACGA-TGTGGATAAACCACTAATCGATGCAGATAAAAGTTGCTAGT
*
16185670 ACGATGTGGATTAACCA
1 ACGATGTGGATAAACCA
16185687 TTAAACGCTG
Statistics
Matches: 82, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
43 27 0.33
44 1 0.01
45 52 0.63
46 2 0.02
ACGTcount: A:0.37, C:0.15, G:0.21, T:0.27
Consensus pattern (45 bp):
ACGATGTGGATAAACCACTAATCGATGCAGATAAAAGTTGCTAGT
Found at i:16185817 original size:33 final size:34
Alignment explanation
Indices: 16185754--16185833 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
16185744 CAATGCAACA
*
16185754 TAACATGC-TATAACAGACTAGTACAGTAGC-AT
1 TAACATGCTTATAACAGACTAGTACAATAGCAAT
16185786 TAACATGCTTATAACAAGTA-TA-TACAATAGCAAT
1 TAACATGCTTATAAC-AG-ACTAGTACAATAGCAAT
*
16185820 TATCATGCTTATAA
1 TAACATGCTTATAA
16185834 TATATCATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
32 8 0.19
33 14 0.33
34 19 0.45
35 1 0.02
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.30
Consensus pattern (34 bp):
TAACATGCTTATAACAGACTAGTACAATAGCAAT
Found at i:16187378 original size:63 final size:63
Alignment explanation
Indices: 16187297--16187502 Score: 263
Period size: 63 Copynumber: 3.3 Consensus size: 63
16187287 ACAAACGGGT
* *
16187297 ATGTGTCTAGGTCGTGTAACTCACTGACTTCAGATTTGAGTCACACGGGCAAGACACACGAGC
1 ATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGAGTCACACGGGCAAGACACACGAGC
* * * * * * * *
16187360 ATGTGTCCAGGCCGTGTAACTCTCTGACTTTAGATTGGAGTCATATGGGTAAGACACAAGGGC
1 ATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGAGTCACACGGGCAAGACACACGAGC
* *
16187423 ATGTGTCCAGGCCGTGTAACTCATTGACTTCAGATTTGAGACACACGGGCAAGACACAC-AGGC
1 ATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGAGTCACACGGGCAAGACACACGA-GC
* *
16187486 GTGTG-CCAGGCTGTGTA
1 ATGTGTCCAGGCCGTGTA
16187503 GAGCCACATG
Statistics
Matches: 120, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
62 11 0.09
63 109 0.91
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (63 bp):
ATGTGTCCAGGCCGTGTAACTCACTGACTTCAGATTTGAGTCACACGGGCAAGACACACGAGC
Found at i:16192398 original size:15 final size:15
Alignment explanation
Indices: 16192380--16192409 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16192370 TTTATTCTTT
16192380 CTTTTATTATTATTA
1 CTTTTATTATTATTA
16192395 CTTTTATTATTATTA
1 CTTTTATTATTATTA
16192410 ATATTATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (15 bp):
CTTTTATTATTATTA
Found at i:16192416 original size:15 final size:15
Alignment explanation
Indices: 16192383--16192416 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16192373 ATTCTTTCTT
* *
16192383 TTATTATTATTACTT
1 TTATTATTATTAATA
16192398 TTATTATTATTAATA
1 TTATTATTATTAATA
16192413 TTAT
1 TTAT
16192417 AACATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATTATTATTAATA
Found at i:16196445 original size:10 final size:9
Alignment explanation
Indices: 16196427--16196464 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
16196417 ATCTTAATTA
16196427 TTTTTATAT
1 TTTTTATAT
16196436 TTTTTAATAT
1 TTTTT-ATAT
*
16196446 TTTTTATAA
1 TTTTTATAT
16196455 TTTTTA-AT
1 TTTTTATAT
16196463 TT
1 TT
16196465 ATTTGTCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
8 3 0.12
9 14 0.54
10 9 0.35
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (9 bp):
TTTTTATAT
Found at i:16199279 original size:20 final size:21
Alignment explanation
Indices: 16199251--16199303 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
16199241 ATTACACAAT
*
16199251 AAATTAAAATAATTT-TCAAA
1 AAATTAAAATAATTTATAAAA
*
16199271 AATTTAAAAT-ATTTATAAAA
1 AAATTAAAATAATTTATAAAA
16199291 AAATTATAAATAA
1 AAATTA-AAATAA
16199304 AAAATTAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 4 0.15
20 18 0.67
21 4 0.15
22 1 0.04
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATTAAAATAATTTATAAAA
Found at i:16200215 original size:14 final size:16
Alignment explanation
Indices: 16200196--16200228 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
16200186 TCAGTTAATA
16200196 TTATATAA-GTTT-TT
1 TTATATAATGTTTCTT
16200210 TTATATAATGTTTCTT
1 TTATATAATGTTTCTT
16200226 TTA
1 TTA
16200229 GCTCTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 4 0.24
16 5 0.29
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (16 bp):
TTATATAATGTTTCTT
Found at i:16201386 original size:19 final size:20
Alignment explanation
Indices: 16201362--16201422 Score: 79
Period size: 21 Copynumber: 3.0 Consensus size: 20
16201352 TCCTAAGTGA
16201362 AATTAAAATA-ATAAATTTT
1 AATTAAAATATATAAATTTT
* *
16201381 AATTAAAATATTATTAATTAT
1 AATTAAAATA-TATAAATTTT
*
16201402 ATTTAAAATATATAAATTTT
1 AATTAAAATATATAAATTTT
16201422 A
1 A
16201423 TATTTTATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
19 10 0.29
20 9 0.26
21 16 0.46
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTAAAATATATAAATTTT
Found at i:16203268 original size:31 final size:31
Alignment explanation
Indices: 16203206--16203273 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
16203196 GTTAAATACC
16203206 CAATAACTTAAATAAAAACTTTCTAACAGTT
1 CAATAACTTAAATAAAAACTTTCTAACAGTT
* * *
16203237 CAATGACTTAAATGAAAACTTTC-ATATAGTT
1 CAATAACTTAAATAAAAACTTTCTA-ACAGTT
16203268 CAATAA
1 CAATAA
16203274 TCACTTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 1 0.03
31 31 0.97
ACGTcount: A:0.47, C:0.15, G:0.06, T:0.32
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTCTAACAGTT
Found at i:16206579 original size:130 final size:130
Alignment explanation
Indices: 16206346--16206608 Score: 508
Period size: 130 Copynumber: 2.0 Consensus size: 130
16206336 TATATTTGAT
16206346 CAAATAACATCTAAGAAAAGATACCAATAAAAATTGGAGAGTGTTTGTGTTAATATGTTAGAATT
1 CAAATAACATCTAAGAAAAGATACCAATAAAAATTGGAGAGTGTTTGTGTTAATATGTTAGAATT
16206411 GTTTATAAAAAATGAGGTATTAAAGAAATTGTTTTTCAAAAAGGGTATATTGGATTTTATTCGAA
66 GTTTATAAAAAATGAGGTATTAAAGAAATTGTTTTTCAAAAAGGGTATATTGGATTTTATTCGAA
*
16206476 CAAATAACATCTAAGAAAAGATACCAATAAAAATTGGAGAGTGTTTGTGTTAGTATGTTAGAATT
1 CAAATAACATCTAAGAAAAGATACCAATAAAAATTGGAGAGTGTTTGTGTTAATATGTTAGAATT
*
16206541 GTTTATAAAAAATGGGGTATTAAAGAAATTGTTTTTCAAAAAGGGTATATTGGATTTTATTCGAA
66 GTTTATAAAAAATGAGGTATTAAAGAAATTGTTTTTCAAAAAGGGTATATTGGATTTTATTCGAA
16206606 CAA
1 CAA
16206609 CAATGGCACC
Statistics
Matches: 131, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
130 131 1.00
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (130 bp):
CAAATAACATCTAAGAAAAGATACCAATAAAAATTGGAGAGTGTTTGTGTTAATATGTTAGAATT
GTTTATAAAAAATGAGGTATTAAAGAAATTGTTTTTCAAAAAGGGTATATTGGATTTTATTCGAA
Found at i:16209731 original size:40 final size:40
Alignment explanation
Indices: 16209676--16209751 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
16209666 TGCAGTACCT
* **
16209676 TATGGTGTGTAGGGATGGATGGGTCAATTTTATCCCCATA
1 TATGGTGTGCAGGGATGGATAAGTCAATTTTATCCCCATA
*
16209716 TATGGTGTGCAGGGATGGGTAAGTCAATTTTATCCC
1 TATGGTGTGCAGGGATGGATAAGTCAATTTTATCCC
16209752 TACGTGGTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.22, C:0.13, G:0.30, T:0.34
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATAAGTCAATTTTATCCCCATA
Found at i:16211429 original size:13 final size:13
Alignment explanation
Indices: 16211411--16211437 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16211401 TAAACAATCG
16211411 CACACGGGCGTGT
1 CACACGGGCGTGT
16211424 CACACGGGCGTGT
1 CACACGGGCGTGT
16211437 C
1 C
16211438 CCTACCGAGC
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:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:16220342 original size:27 final size:27
Alignment explanation
Indices: 16220304--16220357 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
16220294 ATTCAGAGTC
16220304 AGAATAACAAGTGAAGTCTAGGTGGAT
1 AGAATAACAAGTGAAGTCTAGGTGGAT
16220331 AGAATAACAAGTGAAGTCTAGGTGGAT
1 AGAATAACAAGTGAAGTCTAGGTGGAT
16220358 TTTTACTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.30, T:0.22
Consensus pattern (27 bp):
AGAATAACAAGTGAAGTCTAGGTGGAT
Found at i:16224451 original size:13 final size:13
Alignment explanation
Indices: 16224435--16224467 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16224425 TTTAATTAAA
*
16224435 TTAGTTAATTAGT
1 TTAGATAATTAGT
16224448 TTAGATAATTAGT
1 TTAGATAATTAGT
16224461 TTA-ATAA
1 TTAGATAA
16224468 ATAAATCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:16237895 original size:14 final size:11
Alignment explanation
Indices: 16237870--16237970 Score: 57
Period size: 12 Copynumber: 8.8 Consensus size: 11
16237860 AATCCTCCTA
16237870 TTTTA-TTTAT
1 TTTTATTTTAT
16237880 TTAGTTATTCTTAT
1 TT--TTATT-TTAT
16237894 TTTTATTTTA-
1 TTTTATTTTAT
16237904 TTTTA-TTTA-
1 TTTTATTTTAT
16237913 TTTTATTTTTAT
1 TTTTA-TTTTAT
* *
16237925 TCTTCTTTTGAT
1 TTTTATTTT-AT
*
16237937 TTTTCTTTTCAT
1 TTTTATTTT-AT
**
16237949 TTCAATTTTATT
1 TTTTATTTTA-T
16237961 ATTTTATTTT
1 -TTTTATTTT
16237971 GAAAGACATA
Statistics
Matches: 72, Mismatches: 9, Indels: 17
0.73 0.09 0.17
Matches are distributed among these distances:
9 9 0.12
10 7 0.10
11 12 0.17
12 30 0.42
13 8 0.11
14 6 0.08
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:16237904 original size:5 final size:5
Alignment explanation
Indices: 16237868--16237970 Score: 56
Period size: 5 Copynumber: 20.2 Consensus size: 5
16237858 TGAATCCTCC
*
16237868 TATTT TA-TT TA-TT TA-GT TATTCT TATTTT TATTT TATTT TA-TT TATTT
1 TATTT TATTT TATTT TATTT TATT-T TA-TTT TATTT TATTT TATTT TATTT
* * *
16237916 TATTTT TATTCT TCTTT TGATTTT TCTTT TCATTT CAATTT TA--T TATTT
1 TA-TTT TATT-T TATTT T-A-TTT TATTT T-ATTT -TATTT TATTT TATTT
16237965 TATTT T
1 TATTT T
16237971 GAAAGACATA
Statistics
Matches: 78, Mismatches: 8, Indels: 24
0.71 0.07 0.22
Matches are distributed among these distances:
3 3 0.04
4 15 0.19
5 32 0.41
6 22 0.28
7 6 0.08
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:16237914 original size:9 final size:9
Alignment explanation
Indices: 16237868--16237920 Score: 58
Period size: 9 Copynumber: 6.1 Consensus size: 9
16237858 TGAATCCTCC
16237868 TATTTTATT
1 TATTTTATT
*
16237877 TA-TTTAGT
1 TATTTTATT
16237885 TATTCTTATT
1 TATT-TTATT
*
16237895 T-TTAT-TT
1 TATTTTATT
16237902 TATTTTATT
1 TATTTTATT
16237911 TATTTTATT
1 TATTTTATT
16237920 T
1 T
16237921 TTATTCTTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
7 3 0.08
8 11 0.31
9 17 0.47
10 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
TATTTTATT
Found at i:16237918 original size:25 final size:25
Alignment explanation
Indices: 16237870--16237925 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
16237860 AATCCTCCTA
16237870 TTTTA-TTTATTTAGTTATTCTTAT
1 TTTTATTTTATTTAGTTATTCTTAT
*
16237894 TTTTATTTTATTTTATTTATT-TTAT
1 TTTTATTTTA-TTTAGTTATTCTTAT
16237919 TTTTATT
1 TTTTATT
16237926 CTTCTTTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 5 0.17
25 15 0.52
26 9 0.31
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTATTTTATTTAGTTATTCTTAT
Found at i:16239816 original size:21 final size:21
Alignment explanation
Indices: 16239792--16239831 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16239782 AGAGCACCAA
* *
16239792 GAGCCAAAAGGAGCCAAAAAC
1 GAGCCAAAAAGAGACAAAAAC
*
16239813 GAGCTAAAAAGAGACAAAA
1 GAGCCAAAAAGAGACAAAA
16239832 CGGACCAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.17, G:0.23, T:0.03
Consensus pattern (21 bp):
GAGCCAAAAAGAGACAAAAAC
Found at i:16243992 original size:40 final size:40
Alignment explanation
Indices: 16243927--16244004 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
16243917 TGCCGTACCT
* * *
16243927 TATGGTGTGTAGGGATGGATGGGTCGATTTTATCCCCATA
1 TATGATGTGCAGGGATGGATAGGTCGATTTTATCCCCATA
*
16243967 TATGATGTGCAGGGATGGGTAGGTCGATTTTATCCCCA
1 TATGATGTGCAGGGATGGATAGGTCGATTTTATCCCCA
16244005 CGTGGTGTGT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.32, T:0.33
Consensus pattern (40 bp):
TATGATGTGCAGGGATGGATAGGTCGATTTTATCCCCATA
Found at i:16246646 original size:24 final size:24
Alignment explanation
Indices: 16246619--16246665 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16246609 TTTAGAGAAT
16246619 TTTGTGTTTACA-TTTTGAGGGTTA
1 TTTGTGTTTA-AGTTTTGAGGGTTA
* *
16246643 TTTGTTTTTAAGTTTTTAGGGTT
1 TTTGTGTTTAAGTTTTGAGGGTT
16246666 TAGTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 19 0.95
ACGTcount: A:0.15, C:0.02, G:0.23, T:0.60
Consensus pattern (24 bp):
TTTGTGTTTAAGTTTTGAGGGTTA
Found at i:16257824 original size:16 final size:16
Alignment explanation
Indices: 16257803--16257834 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16257793 TATGTATAGA
16257803 CATGTTCATGAAAAGT
1 CATGTTCATGAAAAGT
16257819 CATGTTCATGAAAAGT
1 CATGTTCATGAAAAGT
16257835 ATGAATGCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
CATGTTCATGAAAAGT
Found at i:16262164 original size:13 final size:13
Alignment explanation
Indices: 16262146--16262170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16262136 AGTAATCGTA
16262146 CACGGGCGTGTCT
1 CACGGGCGTGTCT
16262159 CACGGGCGTGTC
1 CACGGGCGTGTC
16262171 CTTGTCGAGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.40, T:0.20
Consensus pattern (13 bp):
CACGGGCGTGTCT
Found at i:16269537 original size:22 final size:19
Alignment explanation
Indices: 16269506--16269552 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 19
16269496 AAAAATGATA
16269506 ATTATTAATATATAATTATATCT
1 ATTA-TAATATAT-ATTA-AT-T
16269529 ATTATAATATATATTAATT
1 ATTATAATATATATTAATT
16269548 ATTAT
1 ATTAT
16269553 CAATTTTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 4 0.17
22 8 0.33
23 4 0.17
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTATAATATATATTAATT
Found at i:16269548 original size:16 final size:15
Alignment explanation
Indices: 16269508--16269549 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
16269498 AAATGATAAT
16269508 TATTAATATATAATTA
1 TATTAAT-TATAATTA
16269524 TATCT-ATTATAATATA
1 TAT-TAATTATAAT-TA
16269540 TATTAATTAT
1 TATTAATTAT
16269550 TATCAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.30
16 15 0.65
17 1 0.04
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:16269663 original size:22 final size:24
Alignment explanation
Indices: 16269618--16269665 Score: 66
Period size: 22 Copynumber: 2.1 Consensus size: 24
16269608 TAATCTTTAA
16269618 TATATAATTATATCTATTATAATT
1 TATATAATTATATCTATTATAATT
16269642 TATAT-ATTA-ATCT-TTATCAATT
1 TATATAATTATATCTATTAT-AATT
16269664 TA
1 TA
16269666 GCATAGAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 4 0.17
22 10 0.43
23 4 0.17
24 5 0.22
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (24 bp):
TATATAATTATATCTATTATAATT
Found at i:16280873 original size:34 final size:34
Alignment explanation
Indices: 16280830--16280895 Score: 123
Period size: 34 Copynumber: 1.9 Consensus size: 34
16280820 TTGTTAGTAG
*
16280830 GTTTAACTTCATTTAAGTCATGCATATATATACC
1 GTTTAACTTCATATAAGTCATGCATATATATACC
16280864 GTTTAACTTCATATAAGTCATGCATATATATA
1 GTTTAACTTCATATAAGTCATGCATATATATA
16280896 TATTATAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (34 bp):
GTTTAACTTCATATAAGTCATGCATATATATACC
Found at i:16286001 original size:46 final size:45
Alignment explanation
Indices: 16285943--16286113 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 45
16285933 ACCTTTCGTA
* *
16285943 GCCGATACATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTT-CGTCTCGAG
* *
16285989 GCCGATGCATGTCCCAGACATGTCTTACACTAGCGCTT-GTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACT-G-GCTTCGTCTCGAG
** * * * *
16286035 GCTAATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAAT-GTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCGT-CTCGAG
16286083 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
16286114 AGCTCACAAT
Statistics
Matches: 104, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
46 53 0.51
47 30 0.29
48 20 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.27
Consensus pattern (45 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTTCGTCTCGAG
Found at i:16286488 original size:30 final size:30
Alignment explanation
Indices: 16286454--16286511 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
16286444 AATTCACATA
* *
16286454 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
16286484 TTTGGCAAAATGACCATTTTACCCCTAG
1 TTTGGCAAAATGACCATTTTACCCCTAG
16286512 GTTCGAAAAT
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:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:16293642 original size:4 final size:4
Alignment explanation
Indices: 16293633--16293721 Score: 79
Period size: 4 Copynumber: 21.8 Consensus size: 4
16293623 CCCTTTTCTA
*** *
16293633 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TCAAG TTTGC TCTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T-TTC TTT-C TTTC
* * ** *
16293683 TGTA ACTC TTTC TATC TTTC TTTC TTTC TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
16293722 TTAACCTACT
Statistics
Matches: 67, Mismatches: 16, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 64 0.96
5 3 0.04
ACGTcount: A:0.06, C:0.25, G:0.03, T:0.66
Consensus pattern (4 bp):
TTTC
Found at i:16299393 original size:18 final size:19
Alignment explanation
Indices: 16299349--16299394 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
16299339 ACTTTCTTGT
*
16299349 TAAC-ATAAAATTCTTAAA
1 TAACTATAAAATACTTAAA
16299367 TAACT-TAAAATACTT-AA
1 TAACTATAAAATACTTAAA
*
16299384 TAATTATAAAA
1 TAACTATAAAA
16299395 AATTCAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.57, C:0.09, G:0.00, T:0.35
Consensus pattern (19 bp):
TAACTATAAAATACTTAAA
Found at i:16306446 original size:17 final size:17
Alignment explanation
Indices: 16306424--16306467 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
16306414 TGTAATTATC
*
16306424 ACAATTCTTATTAAAT-T
1 ACAATTATT-TTAAATAT
16306441 ACAATTATTTTAAATAT
1 ACAATTATTTTAAATAT
16306458 ACAATTATTT
1 ACAATTATTT
16306468 CAATTTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
ACAATTATTTTAAATAT
Found at i:16310848 original size:12 final size:13
Alignment explanation
Indices: 16310831--16310859 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
16310821 AAATCTCTAA
16310831 TTCTCCTTT-TTT
1 TTCTCCTTTCTTT
16310843 TTCTCCTTTCTTT
1 TTCTCCTTTCTTT
16310856 TTCT
1 TTCT
16310860 TTCCTTTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (13 bp):
TTCTCCTTTCTTT
Found at i:16310901 original size:15 final size:16
Alignment explanation
Indices: 16310875--16310904 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
16310865 TTTCCTCTCC
16310875 TATTCGTTTTCTATTA
1 TATTCGTTTTCTATTA
16310891 TATTC-TTTTCTATT
1 TATTCGTTTTCTATT
16310905 CCATTTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.17, C:0.13, G:0.03, T:0.67
Consensus pattern (16 bp):
TATTCGTTTTCTATTA
Found at i:16314745 original size:37 final size:38
Alignment explanation
Indices: 16314698--16314776 Score: 142
Period size: 37 Copynumber: 2.1 Consensus size: 38
16314688 AATTGAGAAG
16314698 GAAGATAGCTTCATTCGACCATTGTTTTTCTTACCTTT
1 GAAGATAGCTTCATTCGACCATTGTTTTTCTTACCTTT
*
16314736 GAAG-TAGCTTCATTCGGCCATTGTTTTTCTTACCTTT
1 GAAGATAGCTTCATTCGACCATTGTTTTTCTTACCTTT
16314773 GAAG
1 GAAG
16314777 CCCCAATTGG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 36 0.90
38 4 0.10
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (38 bp):
GAAGATAGCTTCATTCGACCATTGTTTTTCTTACCTTT
Found at i:16315606 original size:36 final size:36
Alignment explanation
Indices: 16315566--16315640 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 36
16315556 CTAATGTAAT
* *
16315566 TGTTAATTTAATTGAACAAAAGTTTATGGATGTATA
1 TGTTAATTCAATTGAACAAAAGTTTATGGAAGTATA
* *
16315602 TGTTAATTCAATTGAATAGAAGTTTATGGAAGTATA
1 TGTTAATTCAATTGAACAAAAGTTTATGGAAGTATA
16315638 TGT
1 TGT
16315641 ATTTAGATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (36 bp):
TGTTAATTCAATTGAACAAAAGTTTATGGAAGTATA
Found at i:16315827 original size:71 final size:70
Alignment explanation
Indices: 16315699--16315877 Score: 216
Period size: 71 Copynumber: 2.5 Consensus size: 70
16315689 TCACGGATGA
* * * * * ** *
16315699 ACAACTATCGTTGGTCATCCGACTGGCGCTAGGG-GCAATAATTTTTCAACTTGTTTGACTAGTG
1 ACAACTATCATCGGTTATTCGACTAGCGCT-GGGCGCAATAATTTTTCAACTCATTTGACTAATG
16315763 CTAGGC
65 CTAGGC
* *
16315769 ACACACTATCATCGGTTATTCGACTAGCGCTGGGCGTAATAATTTTTCGACTCATTTGACTAATG
1 ACA-ACTATCATCGGTTATTCGACTAGCGCTGGGCGCAATAATTTTTCAACTCATTTGACTAATG
* *
16315834 TTGGGC
65 CTAGGC
*
16315840 ACAACTATCATCGGTTATTCGACTAGTGCTGGGCGCAA
1 ACAACTATCATCGGTTATTCGACTAGCGCTGGGCGCAA
16315878 AACCTTATTC
Statistics
Matches: 93, Mismatches: 14, Indels: 4
0.84 0.13 0.04
Matches are distributed among these distances:
70 39 0.42
71 54 0.58
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (70 bp):
ACAACTATCATCGGTTATTCGACTAGCGCTGGGCGCAATAATTTTTCAACTCATTTGACTAATGC
TAGGC
Found at i:16320254 original size:35 final size:35
Alignment explanation
Indices: 16320210--16320577 Score: 425
Period size: 35 Copynumber: 10.5 Consensus size: 35
16320200 TCCTCATTGA
*
16320210 AATACCATACCTACATTTCACAACTCAGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTAT-GGAT
* * ** *
16320245 AATGCCATACTTACATTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
16320280 AATACCATACCTACATTTCACGACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * *
16320315 GATACCATACTTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
16320350 AATACCATACCTATATTTCTCAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
16320385 GATACCATACCTACATTTCACAACTCGATATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * * * *
16320420 GATACCATACCTACGTTTCACATCTTGGTATGGTT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
16320455 AATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * * * * *
16320490 AATACCATACCTACGTATCATAGCTCAGTATGGAC
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* ***
16320525 GACGTCATACCTACATTTCACAACTCGGTATGG-T
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
16320559 TATACCATACCTACATTTC
1 AATACCATACCTACATTTC
16320578 GCACTTTGCC
Statistics
Matches: 281, Mismatches: 51, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
34 18 0.06
35 263 0.94
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCGGTATGGAT
Found at i:16322283 original size:31 final size:31
Alignment explanation
Indices: 16322245--16322308 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
16322235 TATACATTTG
16322245 ATACAATTTAATCCTTTTTGTTCAATTAACT
1 ATACAATTTAATCCTTTTTGTTCAATTAACT
16322276 ATACAATTTAATCCTTTTTGTTCAATTAACT
1 ATACAATTTAATCCTTTTTGTTCAATTAACT
16322307 AT
1 AT
16322309 CAGAACTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.33, C:0.16, G:0.03, T:0.48
Consensus pattern (31 bp):
ATACAATTTAATCCTTTTTGTTCAATTAACT
Found at i:16325148 original size:35 final size:35
Alignment explanation
Indices: 16325098--16325465 Score: 425
Period size: 35 Copynumber: 10.5 Consensus size: 35
16325088 TCTTCATTTA
16325098 AATACCATACCTACATTTCACAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCGGTAT-GGAT
* ** *
16325133 AATGCCATACCTACATTTCTTAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * *
16325168 AATACCATACCTACATTTCACGACTCAGTGTGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * *
16325203 GATACCATACCTATATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
16325238 AATACCATACCTATATTTCTCAACTCGGTATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
16325273 GATACCATACCTACATTTCACAACTCGATATGGAT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * * * *
16325308 GATACCATACCTACGTTTCACATCTTGGTATGGTT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* *
16325343 AATACCATACCTACGTTTCACAACTCGGTATGGTT
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* * * * * *
16325378 AATACCATACCTACGTATCATAGCTCAGTATGGAC
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
* ***
16325413 GACGTCATACCTACATTTCACAACTCGGTATGG-T
1 AATACCATACCTACATTTCACAACTCGGTATGGAT
*
16325447 TATACCATACCTACATTTC
1 AATACCATACCTACATTTC
16325466 GCACTTTGCC
Statistics
Matches: 284, Mismatches: 48, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
34 18 0.06
35 266 0.94
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCGGTATGGAT
Found at i:16325281 original size:105 final size:105
Alignment explanation
Indices: 16325099--16325465 Score: 470
Period size: 105 Copynumber: 3.5 Consensus size: 105
16325089 CTTCATTTAA
* * *
16325099 ATACCATACCTACATTTCACAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACTCAGTA
1 ATACCATACCTACATTTCACAACTCGGTAT-GGATAATACCATACCTACATTTCTCAACTCGGTA
* *
16325163 TGGATAATACCATACCTACATTTCACGACTCAGTGTGGATG
65 TGGATAATACCATACCTACATTTCACAACTCAGTATGGATG
* * *
16325204 ATACCATACCTATATTTCACAACTCAGTATGGATAATACCATACCTATATTTCTCAACTCGGTAT
1 ATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACATTTCTCAACTCGGTAT
*
16325269 GGATGATACCATACCTACATTTCACAACTC-GATATGGATG
66 GGATAATACCATACCTACATTTCACAACTCAG-TATGGATG
* * * * * *
16325309 ATACCATACCTACGTTTCACATCTTGGTATGGTTAATACCATACCTACGTTTCACAACTCGGTAT
1 ATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACATTTCTCAACTCGGTAT
* * * * * *
16325374 GGTTAATACCATACCTACGTATCATAGCTCAGTATGGACG
66 GGATAATACCATACCTACATTTCACAACTCAGTATGGATG
*** *
16325414 ACGTCATACCTACATTTCACAACTCGGTATGG-TTATACCATACCTACATTTC
1 ATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACATTTC
16325466 GCACTTTGCC
Statistics
Matches: 226, Mismatches: 33, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
104 22 0.10
105 203 0.90
106 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (105 bp):
ATACCATACCTACATTTCACAACTCGGTATGGATAATACCATACCTACATTTCTCAACTCGGTAT
GGATAATACCATACCTACATTTCACAACTCAGTATGGATG
Found at i:16330220 original size:3 final size:3
Alignment explanation
Indices: 16330214--16330252 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
16330204 GAAAAGAAGA
16330214 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
16330253 TAAGATAGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:16331202 original size:36 final size:34
Alignment explanation
Indices: 16331158--16331232 Score: 114
Period size: 36 Copynumber: 2.1 Consensus size: 34
16331148 GTAATTCTTA
*
16331158 ATTTAATTGAATGAAAGTTTATGGATGTATATGTT
1 ATTTAATTGAATGAAAGTTTATGGAAGTATATG-T
*
16331193 ATTTCAATTGAATGGAAGTTTATGGAAGTATATGT
1 ATTT-AATTGAATGAAAGTTTATGGAAGTATATGT
16331228 ATTTA
1 ATTTA
16331233 GATAAAAAGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
34 1 0.03
35 9 0.24
36 27 0.73
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (34 bp):
ATTTAATTGAATGAAAGTTTATGGAAGTATATGT
Found at i:16331399 original size:70 final size:70
Alignment explanation
Indices: 16331320--16331498 Score: 234
Period size: 70 Copynumber: 2.6 Consensus size: 70
16331310 GTGTTGGACA
* * * *
16331320 CAATAATTTGTTGACTCATTCGACTAGTTCTGGGCCCAACTATCATCGGTTATCCTACTAGCCCT
1 CAATAATTTGTTGACTCATTCGACTAGTTCTGGGCACAACTATAATCGGTTATCCGACTAACCCT
16331385 AGGCG
66 AGGCG
* * * *
16331390 CAATAATTTGTTGACCCGTTCGACTAATGT-TGGGCACAACTATAATCGGTTATCCGACTAACGC
1 CAATAATTTGTTGACTCATTCGACTAGT-TCTGGGCACAACTATAATCGGTTATCCGACTAACCC
*
16331454 TGGGCG
65 TAGGCG
* * *
16331460 CAATAACTTGTTGACTCATTCGACTAGTGCTGGGTACAA
1 CAATAATTTGTTGACTCATTCGACTAGTTCTGGGCACAA
16331499 AAATGATCTT
Statistics
Matches: 92, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
70 91 0.99
71 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (70 bp):
CAATAATTTGTTGACTCATTCGACTAGTTCTGGGCACAACTATAATCGGTTATCCGACTAACCCT
AGGCG
Found at i:16334126 original size:44 final size:43
Alignment explanation
Indices: 16334077--16334175 Score: 121
Period size: 44 Copynumber: 2.3 Consensus size: 43
16334067 AAGAACCCGA
16334077 ACACTTAGTGCAT-A-AATAATTAGCCGAAGCTATAACGATATCGC
1 ACACTTAGTGCATCACAATAA--A-CCGAAGCTATAACGATATCGC
* **
16334121 ACACTTAGTGCCATCACATTAAACCGAAGCTATCTCGATATCGC
1 ACACTTAGTG-CATCACAATAAACCGAAGCTATAACGATATCGC
16334165 ACACTTAGTGC
1 ACACTTAGTGC
16334176 CACATAAAGC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
43 1 0.02
44 39 0.80
45 4 0.08
46 1 0.02
47 4 0.08
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.25
Consensus pattern (43 bp):
ACACTTAGTGCATCACAATAAACCGAAGCTATAACGATATCGC
Found at i:16341966 original size:20 final size:20
Alignment explanation
Indices: 16341930--16341967 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
16341920 TAACAATTCA
16341930 ACTCATTTAATCACATAATT
1 ACTCATTTAATCACATAATT
*
16341950 ACTCAATTTCATC-CATAA
1 ACTC-ATTTAATCACATAA
16341968 ACATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
ACTCATTTAATCACATAATT
Found at i:16363618 original size:16 final size:16
Alignment explanation
Indices: 16363594--16363624 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16363584 TTAACAAATG
16363594 ACTACCAGACTAACCA
1 ACTACCAGACTAACCA
*
16363610 ACTATCAGACTAACC
1 ACTACCAGACTAACC
16363625 GATACTTAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.35, G:0.06, T:0.16
Consensus pattern (16 bp):
ACTACCAGACTAACCA
Found at i:16365778 original size:23 final size:22
Alignment explanation
Indices: 16365752--16365797 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
16365742 TTAAATAGTA
16365752 ATAGTGTTAGAAATATACTATAT
1 ATAGTGTTAGAAATATA-TATAT
* *
16365775 ATAGTGTTTGAAGTATATATAT
1 ATAGTGTTAGAAATATATATAT
16365797 A
1 A
16365798 AAATAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.41
Consensus pattern (22 bp):
ATAGTGTTAGAAATATATATAT
Found at i:16365803 original size:25 final size:23
Alignment explanation
Indices: 16365751--16365805 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
16365741 TTTAAATAGT
16365751 AATAGTGTTAGAAATATACTATA
1 AATAGTGTTAGAAATATACTATA
* *
16365774 TATAGTGTTTGAAGTATATA-TATAA
1 AATAGTGTTAGAA--ATATACTAT-A
16365799 AATAGTG
1 AATAGTG
16365806 AAATATAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 11 0.42
24 3 0.12
25 12 0.46
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.38
Consensus pattern (23 bp):
AATAGTGTTAGAAATATACTATA
Found at i:16365923 original size:22 final size:24
Alignment explanation
Indices: 16365865--16366011 Score: 84
Period size: 25 Copynumber: 5.8 Consensus size: 24
16365855 ATAGATATAA
* *
16365865 AAAAATATGTACATAATATAGTGT
1 AAAAATATATACATAATATAATGT
*
16365889 AAAAAATACATACATAATATAAT-T
1 -AAAAATATATACATAATATAATGT
*
16365913 -AAAATATATACATAAGATAACATG-
1 AAAAATATATACATAATAT-A-ATGT
* *
16365937 AAAAATATATATATATAAATATATAGT
1 AAAAATATATACATA-ATATA-AT-GT
* * *
16365964 ATTAAAGATATATACATAAAATAGTAT
1 A--AAA-ATATATACATAATATAATGT
* *
16365991 AATATATATATACGTAATATA
1 AA-AAATATATACATAATATA
16366012 GAATTTAGAA
Statistics
Matches: 97, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
22 16 0.16
23 1 0.01
24 3 0.03
25 50 0.52
26 5 0.05
27 3 0.03
28 1 0.01
29 8 0.08
30 10 0.10
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (24 bp):
AAAAATATATACATAATATAATGT
Found at i:16365958 original size:14 final size:14
Alignment explanation
Indices: 16365939--16366002 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
16365929 ATAACATGAA
16365939 AAATATATATATAT
1 AAATATATATATAT
16365953 AAATATATAGTAT-T
1 AAATATATA-TATAT
* *
16365967 AAAGATATATACAT
1 AAATATATATATAT
16365981 AAA-ATAGTATA-AT
1 AAATATA-TATATAT
*
16365994 ATATATATA
1 AAATATATA
16366003 CGTAATATAG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 11 0.26
14 29 0.67
15 3 0.07
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.38
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:16367444 original size:93 final size:87
Alignment explanation
Indices: 16367255--16367729 Score: 327
Period size: 90 Copynumber: 5.4 Consensus size: 87
16367245 GCACGTAGCC
* * *** ** *
16367255 GAGGCTCAACTC-CTTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTTGTAAAACGAT-TT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTAAAAAAAAAATAAT
* * *
16367316 TGAAAATATCTCGGTATGTG-CC-
66 TGAAAATACCTCAG--CGTGACCT
* *
16367338 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAACATAAATTAAAAAAAAAACAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGC-AAACATAAATT-AAAAAAAAA-AT
16367403 CAATTGAAAATACCTTGGC-GCGTGACCT
63 -AATTGAAAATACC-T--CAGCGTGACCT
*
16367431 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTGAAAAAAAAATAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTAAAAAAAAAATAAT
* *
16367496 TGAAAATATCTCAGCGTGTCCT
66 TGAAAATACCTCAGCGTGACCT
* * * * *
16367518 GAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTAGAAAACA-ATATTGAAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTT-GCAAACATAAATT-AAAAAAAAAA
* * *
16367582 T--TCGAAAATACCTCAACGTGTGA-GT
62 TAATTGAAAATACCTC-A-GCGTGACCT
* * * * * * *
16367607 CAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATT---GAAAACA
1 -GAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGCAA-ACATAAATTAAAAAAAAAA
* * * *
16367669 GAATGGAAAACACCTCAGCGT--CTT
62 TAATTGAAAATACCTCAGCGTGACCT
* *
16367693 GAGGTTCAACTCACCTCTC-CAATATGAGCTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16367730 TTTGAAAGAC
Statistics
Matches: 321, Mismatches: 45, Indels: 53
0.77 0.11 0.13
Matches are distributed among these distances:
82 5 0.02
83 11 0.03
84 36 0.11
85 16 0.05
86 7 0.02
87 51 0.16
88 17 0.05
89 40 0.12
90 59 0.18
91 25 0.08
92 14 0.04
93 39 0.12
94 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (87 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTAAAAAAAAAATAAT
TGAAAATACCTCAGCGTGACCT
Found at i:16367543 original size:87 final size:86
Alignment explanation
Indices: 16367255--16367555 Score: 337
Period size: 87 Copynumber: 3.4 Consensus size: 86
16367245 GCACGTAGCC
* * * ** *
16367255 GAGGCTCAACTC-CTTCTCGCAATATGAGTTGATTTTT-AAAACA-AAATTTG-TAAAACGAT-T
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAA-TTGAAAAAAAAATAA
16367315 TTGAAAATATCTCG-GTATGTGCC-
65 TTGAAAATATCTCGCG--TGT-CCT
* * *
16367338 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGCAAAACATAAATTAAAAAAAAAACAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGC-AAACATAAATT-GAAAAAAAA-AT
* *
16367403 CAATTGAAAATACCTTGGCGCGTGACCT
63 -AATTGAAAATATC-T--CGCGTGTCCT
16367431 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTGAAAAAAAAATAAT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTGAAAAAAAAATAAT
16367496 TGAAAATATCTCAGCGTGTCCT
66 TGAAAATATCTC-GCGTGTCCT
*
16367518 GAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTT
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
16367556 TTAGAAAACA
Statistics
Matches: 186, Mismatches: 17, Indels: 26
0.81 0.07 0.11
Matches are distributed among these distances:
83 11 0.06
84 23 0.12
86 8 0.04
87 48 0.26
88 5 0.03
89 14 0.08
90 2 0.01
91 18 0.10
92 14 0.08
93 40 0.22
94 2 0.01
95 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (86 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAACATAAATTGAAAAAAAAATAAT
TGAAAATATCTCGCGTGTCCT
Found at i:16367615 original size:177 final size:159
Alignment explanation
Indices: 16367569--16368555 Score: 456
Period size: 146 Copynumber: 6.6 Consensus size: 159
16367559 GAAAACAATA
* * *
16367569 TTGAAAAACAGAATTCGAAAATACCTCAACGTGTGAGTCAAGGCTCAACTCACCACTCGCAATAT
1 TTGAAAAACAAAATT-GAAAATACCTCAACGTGT--CTCAAGGCTCAACTCACCTCTCGCAATAT
* * *
16367634 GAGCTGATTTTTTTG-AAACACAGAAATTG---AAAACAGAATGGAAAACACCTCAGCGTCTTGA
63 GAGTTGA--TTTTTGCAAACA-A-AAATTGAAAAAAAAAGAATGGAAAACACCTCAGCGTCCTGA
*
16367695 GGTTCAACTCACCTCTCCAATATGAGCTGATTTTTT
124 GGCTCAACTCACCTCTCCAATATGAGCTGATTTTTT
* **
16367731 TTGAAAGACAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAG
1 TTGAAAAACAAAATTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAG
* * *
16367796 TTGATTTTTGACAAACAAAAATTG--------A-AAT------TACCTCAGCGTCTTGAGGTTCA
66 TTGATTTTTG-CAAACAAAAATTGAAAAAAAAAGAATGGAAAACACCTCAGCGTCCTGAGGCTCA
** *
16367846 ACTCACCTAGCGCAATATGAGTTGA-TTTTT
130 ACTCACCTCTC-CAATATGAGCTGATTTTTT
** *
16367876 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACA-AAATTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
** * * * * * * *
16367941 ACTGATTTTT-----------TT-AAAGACAGA-AATTGAAAATA-CTCAACGTGTCTTGAGGCT
65 GTTGATTTTTGCAAACAAAAATTGAAAAAAAAAGAATGGAAAACACCTC-A-GCGTCCTGAGGCT
*
16367992 CAACTCACCTCTCGCAATATGAGTTGA---TTT
128 CAACTCACCTCTC-CAATATGAGCTGATTTTTT
* * * * *
16368022 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTC-CTGAGGCTCAACTCACCTATCGCAATATG
1 TTGAAAAAC-AAAATTGAAAATACCTCAACGTGTCTC-AAGGCTCAACTCACCTCTCGCAATATG
* * * ** * *
16368086 AGTTGATTTTT-----------TTGAAAAACAGA-AATTGAAAGTACCTCAACATGTCTTGAGGC
64 AGTTGATTTTTGCAAACAAAAATTGAAAAAAAAAGAATGGAAAACACCTCAGC--GTCCTGAGGC
* * *
16368139 TCAACTCACCTCTTGCAATATGAGTTGA---GTT
127 TCAACTCACCTC-TCCAATATGAGCTGATTTTTT
* * * * * *
16368170 TTGACAAACAAAAATTCAAATTACCTCAAC--GTCTTAAGGTTCAACTCACCTATCGCAATATGA
1 TTGAAAAAC-AAAATTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
* * * * * * * *
16368233 GCTGATTTTT-----------TTGAAAAACAGA-AATTGAAAATACCTCAACGTGTCTTGAGGTT
65 GTTGATTTTTGCAAACAAAAATTGAAAAAAAAAGAATGGAAAACACCTC-A-GCGTCCTGAGGCT
*
16368286 CAACTCACCTCTCGCAATATGAGCTGATTTTTC
128 CAACTCACCTCTC-CAATATGAGCTGATTTTTT
* * ** * *
16368319 TT-AAAGACAGATATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAGCTCTCGCAATATAA
1 TTGAAAAACA-AAATTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
*
16368383 GTTGATTTTTGACAAACAAAAATTG--------A-AAT------TACCTCAGCGTGTCCTGAGGC
65 GTTGATTTTTG-CAAACAAAAATTGAAAAAAAAAGAATGGAAAACACCTCAGC--GTCCTGAGGC
* *
16368433 TCAACTCACCTATCGCAATATGAGTTGA---TTT
127 TCAACTCACCTCTC-CAATATGAGCTGATTTTTT
** *
16368464 TTGAAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACA-AAATTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGA
*
16368528 GTTGAGTTTTGACAAACAAAAATTGAAA
65 GTTGATTTTTG-CAAACAAAAATTGAAA
16368556 TTACCTCAGC
Statistics
Matches: 700, Mismatches: 70, Indels: 124
0.78 0.08 0.14
Matches are distributed among these distances:
134 2 0.00
141 4 0.01
145 117 0.17
146 255 0.36
147 26 0.04
148 164 0.23
149 4 0.01
150 37 0.05
151 3 0.00
152 1 0.00
154 4 0.01
157 12 0.02
158 1 0.00
159 36 0.05
161 18 0.03
162 16 0.02
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (159 bp):
TTGAAAAACAAAATTGAAAATACCTCAACGTGTCTCAAGGCTCAACTCACCTCTCGCAATATGAG
TTGATTTTTGCAAACAAAAATTGAAAAAAAAAGAATGGAAAACACCTCAGCGTCCTGAGGCTCAA
CTCACCTCTCCAATATGAGCTGATTTTTT
Found at i:16367642 original size:90 final size:87
Alignment explanation
Indices: 16367430--16367750 Score: 329
Period size: 90 Copynumber: 3.7 Consensus size: 87
16367420 GCGCGTGACC
* * * *
16367430 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGCAA-ACATAAATTGAAAAA-AAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAAAACAGA
* *
16367491 ATAATTGAAAATATCTCAGCGTGT
66 AT--TCGAAAATACCTCAGCGTGT
* * *
16367515 CCTGAGGCTGAACTCACCTCTCGCAATATGAGTTGATTTTTTTAGAAA-ACA-ATATTGAAAAAC
1 --TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT-GAAACACAGAAATTGAAAAAC
*
16367578 AGAATTCGAAAATACCTCAACGTGT
63 AGAATTCGAAAATACCTCAGCGTGT
* *
16367603 GAGTCAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTG-AAAA
1 ---T-GAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAAAA
* * *
16367667 CAGAA-TGGAAAACACCTCAGCGTCT
62 CAGAATTCGAAAATACCTCAGCGTGT
* *
16367692 TGAGGTTCAACTCACCTCTC-CAATATGAGCTGATTTTTTTTGAAAGACA-AAATTGAAAA
1 TGAGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTTGAAACACAGAAATTGAAAA
16367751 TACCTCAACG
Statistics
Matches: 202, Mismatches: 22, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
84 19 0.09
85 33 0.16
86 1 0.00
87 33 0.16
88 17 0.08
89 36 0.18
90 58 0.29
91 5 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (87 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAAAACAGA
ATTCGAAAATACCTCAGCGTGT
Found at i:16367885 original size:73 final size:73
Alignment explanation
Indices: 16367674--16368630 Score: 1043
Period size: 73 Copynumber: 13.1 Consensus size: 73
16367664 AAACAGAATG
* * * *
16367674 GAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTC-CAATATGAGCTGATTTTTTTTGAAAG
1 GAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAA
16367738 AC-AAAATT
65 ACAAAAATT
* *
16367746 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACA
1 GAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
16367809 AACAAAAATT
64 AACAAAAATT
* * **
16367819 GAAATTACCTCAGCGTCTTGAGGTTCAACTCACCTAGCGCAATATGAGTTGATTTTTTTGAAAAA
1 GAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
*
16367884 CAGAAATT
66 CAAAAATT
* * **
16367892 GAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGATTTTTTT-AAA
1 GAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
* *
16367956 GACAGAAATT
64 AACAAAAATT
* *
16367966 GAAAATA-CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACA
1 GAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
16368028 AACAAAAATT
64 AACAAAAATT
* * *
16368038 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTTGAAA
1 GAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
*
16368103 AACAGAAATT
64 AACAAAAATT
* * * * *
16368113 GAAAGTACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--GTTTTGACA
1 GAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
16368176 AACAAAAATT
64 AACAAAAATT
* * * * * * *
16368186 CAAATTACCTCAACGTCTTAAGGTTCAACTCACCTATCGCAATATGAGCTGATTTTTTTGAAAAA
1 GAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
*
16368251 CAGAAATT
66 CAAAAATT
* * *
16368259 GAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTCTT-AA
1 GAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGAA
* * *
16368323 AGACAGATATT
63 AAACAAAAATT
* * * *
16368334 GAAAATACCTCAACGTGTCTTGAGGCTCAACTCAGCTCTCGCAATATAAGTTGA--TTTTTGACA
1 GAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
16368397 AACAAAAATT
64 AACAAAAATT
* * *
16368407 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGA--TTTTTGAAA
1 GAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
*
16368470 AACAGAAATT
64 AACAAAAATT
* * * *
16368480 G-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--GTTTTGACA
1 GAAAATACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
16368542 AACAAAAATT
64 AACAAAAATT
* * * *
16368552 GAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTT-AGA
1 GAAAATACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
*
16368616 AACATAAATT
64 AACAAAAATT
*
16368626 AAAAA
1 GAAAA
16368631 AATGAAAATT
Statistics
Matches: 763, Mismatches: 93, Indels: 56
0.84 0.10 0.06
Matches are distributed among these distances:
71 77 0.10
72 102 0.13
73 297 0.39
74 60 0.08
75 225 0.29
76 2 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (73 bp):
GAAAATACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAA
CAAAAATT
Found at i:16367947 original size:146 final size:147
Alignment explanation
Indices: 16367680--16368697 Score: 1188
Period size: 146 Copynumber: 6.8 Consensus size: 147
16367670 AATGGAAAAC
* * *
16367680 ACCTCAGCGTCTTGAGGTTCAACTCACCTCTC-CAATATGAGCTGATTTTTTTTGAAAGACA-AA
1 ACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAAAACAGAA
16367743 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGA
65 ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
16367807 CAAACAAAAATTGAAATT
130 CAAACAAAAATTGAAATT
* **
16367825 ACCTCAGCGTCTTGAGGTTCAACTCACCTAGCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
1 ACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
* ** *
16367890 TTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTGATTTTTTTA-
66 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
* *
16367954 AAGACAGAAATTGAAAAT
131 AA-ACAAAAATTGAAATT
* * *
16367972 A-CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGACAAACAAA
1 ACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
* * * *
16368034 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGATTTTTTT
64 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * *
16368099 GAAAAACAGAAATTGAAAGT
128 GACAAACAAAAATTGAAATT
* * * * *
16368119 ACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA--GTTTTGACAAACAAA
1 ACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
* * * * * *
16368182 AATTCAAATTACCTCAAC--GTCTTAAGGTTCAACTCACCTATCGCAATATGAGCTGATTTTTTT
64 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTT
* * *
16368245 GAAAAACAGAAATTGAAAAT
128 GACAAACAAAAATTGAAATT
* * * *
16368265 ACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTCTT-AAAGACAG
1 ACCTC-A-GCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT-TTGAAAAACAG
* * *
16368329 ATATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAGCTCTCGCAATATAAGTTGA-TTTTT
63 AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
16368393 GACAAACAAAAATTGAAATT
128 GACAAACAAAAATTGAAATT
* *
16368413 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGAGTTGA--TTTTTGAAAAACAGA
1 ACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGA
* *
16368476 AATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTGA-GTTTTG
64 AATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG
16368539 ACAAACAAAAATTGAAATT
129 ACAAACAAAAATTGAAATT
* *
16368558 ACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTAGAAACATAA
1 ACCTCAGC--GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT-G--------
* * *
16368623 ATTAAAAAAATGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATAT
55 ---AAAAACA-G-AAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
16368688 GAGTTGATTT
115 GAGTTGATTT
16368698 GAAAAGCAGA
Statistics
Matches: 759, Mismatches: 75, Indels: 60
0.85 0.08 0.07
Matches are distributed among these distances:
145 165 0.22
146 253 0.33
147 51 0.07
148 193 0.25
149 2 0.00
150 32 0.04
159 6 0.01
160 1 0.00
161 6 0.01
162 49 0.06
163 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (147 bp):
ACCTCAGCGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAACAGAAA
TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAC
AAACAAAAATTGAAATT
Found at i:16368111 original size:221 final size:222
Alignment explanation
Indices: 16367663--16368630 Score: 1266
Period size: 221 Copynumber: 4.4 Consensus size: 222
16367653 ACAGAAATTG
* * * * *
16367663 AAAACAG-AATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCACCTCTC-CAATATGAGCTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
** * *
16367724 ATTTTTTTTGAAAGACAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
66 ATTTTTTTACAAACA-AAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTATCGCA
* * *
16367789 ATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGGTTCAACTCAC
130 ATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAC
*
16367852 CTAGCGCAATATGAGTTGATTTTTTTGA
195 CTATCGCAATATGAGTTGATTTTTTTGA
* **
16367880 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAACTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* *
16367945 ATTTTTTTA-AAGACAGAAATTGAAAATA-CTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA
66 ATTTTTTTACAA-ACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTATCGCA
* * *
16368008 ATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCAC
130 ATATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCAC
16368073 CTATCGCAATATGAGTTGATTTTTTTGA
195 CTATCGCAATATGAGTTGATTTTTTTGA
* * *
16368101 AAAACAGAAATTGAAAGTACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * * * *
16368166 A-GTTTTGACAAACAAAAATTCAAATTACCTCAAC--GTCTTAAGGTTCAACTCACCTATCGCAA
66 ATTTTTTTACAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTATCGCAA
* * * *
16368228 TATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCA
131 TATGAGTTGA--TTTTTGAAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCA
* *
16368293 CCTCTCGCAATATGAGCTGATTTTTCTT-A
194 CCTATCGCAATATGAGTTGATTTTT-TTGA
* * * *
16368322 AAGACAGATATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCAGCTCTCGCAATATAAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * * *
16368387 A-TTTTTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAA
66 ATTTTTTTACAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTATCGCAA
*
16368451 TATGAGTTGATTTTTGAAAAACAGAAATTGAAA-TACCTCAACGTGTCTTGAGGCTCAACTCACC
131 TATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACC
* * *
16368515 TCTTGCAATATGAGTTGA--GTTTTGA
196 TATCGCAATATGAGTTGATTTTTTTGA
* * * * * *
16368540 CAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
1 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
* * *
16368605 ATTTTTTTAGAAACATAAATTAAAAA
66 ATTTTTTTACAAACAAAAATTGAAAA
16368631 AATGAAAATT
Statistics
Matches: 667, Mismatches: 68, Indels: 30
0.87 0.09 0.04
Matches are distributed among these distances:
217 9 0.01
218 72 0.11
219 130 0.19
220 103 0.15
221 317 0.48
222 2 0.00
223 34 0.05
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (222 bp):
AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTACAAACAAAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTATCGCAA
TATGAGTTGATTTTTGAAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCACC
TATCGCAATATGAGTTGATTTTTTTGA
Found at i:16368835 original size:14 final size:13
Alignment explanation
Indices: 16368800--16368844 Score: 72
Period size: 13 Copynumber: 3.4 Consensus size: 13
16368790 TTGATTTTTG
16368800 AAAAACAGAAATT
1 AAAAACAGAAATT
*
16368813 AAAAGCAGAAATT
1 AAAAACAGAAATT
16368826 GAAAAACAGAAATT
1 -AAAAACAGAAATT
16368840 AAAAA
1 AAAAA
16368845 TACCTCGGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
13 17 0.59
14 12 0.41
ACGTcount: A:0.69, C:0.07, G:0.11, T:0.13
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:16368888 original size:99 final size:101
Alignment explanation
Indices: 16368636--16368930 Score: 429
Period size: 99 Copynumber: 3.0 Consensus size: 101
16368626 AAAAAAATGA
*
16368636 AAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* * * *
16368699 AAAAGCAGAATTTGTAAGGAAAAAATTGAAAAACAG
66 AAAAGCAGAAATTGAAAAGAAGAAATTGAAAAACAG
16368735 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
16368800 AAAAACAGAAATT-AAAAGCAGAAATTGAAAAACAG
66 AAAAGCAGAAATTGAAAAGAAGAAATTGAAAAACAG
* * * *
16368835 AAATTAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAA-ATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
* *
16368899 AAAAGCATAAATTGAAAA-ATGGAAATTGAAAA
66 AAAAGCAGAAATTGAAAAGA-AGAAATTGAAAA
16368931 TACCTCAGCG
Statistics
Matches: 177, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
99 84 0.47
100 78 0.44
101 15 0.08
ACGTcount: A:0.40, C:0.18, G:0.18, T:0.24
Consensus pattern (101 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
AAAAGCAGAAATTGAAAAGAAGAAATTGAAAAACAG
Found at i:16374818 original size:91 final size:90
Alignment explanation
Indices: 16374691--16374925 Score: 243
Period size: 91 Copynumber: 2.6 Consensus size: 90
16374681 GCGTGTCCTG
* * *
16374691 AGGCTGAACTCACCTCTCGC-ATATGAGTTGATTTTTTTAGAAAAACA-ATATTTGAAAAACAGA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTAGAAAAACAGA-AATTGAAAAACAGA
* *
16374754 ATTCGAAAATACCTCAACGT-GTGAGT
64 AATCGAAAACACCTCAACGTCGTGAGT
* * * *
16374780 CAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTGAAGAACAGA
1 --AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTAGAAAAACAGAAATTGAAAAACAGA
* * *
16374845 AATGGAAAACACCTCAGCGTCTTGAGT
64 AATCGAAAACACCTCAACGTCGTGAGT
* *
16374872 ----TCAACTCACCTCTCGCAATATGA-CTGATTTTTTTTGAAAGACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGCTGA-TTTTTTAGAAAAACAGAAATTGAAAA
16374926 TACCTCAACG
Statistics
Matches: 125, Mismatches: 15, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
85 4 0.03
86 46 0.37
91 59 0.47
92 16 0.13
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (90 bp):
AGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTAGAAAAACAGAAATTGAAAAACAGAAA
TCGAAAACACCTCAACGTCGTGAGT
Found at i:16375119 original size:73 final size:74
Alignment explanation
Indices: 16374833--16375799 Score: 1133
Period size: 72 Copynumber: 13.3 Consensus size: 74
16374823 AACACAGAAA
* * * * *
16374833 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGA-GTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16374895 -CTGATTTTTT
66 GTTGA--TTTT
*
16374905 TTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
16374970 GTTGA-TTT
66 GTTGATTTT
* * * * **
16374978 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGG-TCAACTCACCTAGCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
16375040 GTTGATTTT
66 GTTGATTTT
*
16375049 TTGAAAAACAGAAA-TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
**
16375113 ACTGATTTTTT
66 GTTGA--TTTT
* *
16375124 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC-A-ATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
16375187 GTTGA-TTT
66 GTTGATTTT
* * * * *
16375195 TTGACAAACAAAAAATTG-AAATACCTCAGCGTTGTCCTGAGGCTCAACTCACCTATCGCAATAT
1 TTGAAAAAC-AGAAATTGAAAATACCTCAACG-TGTCTTGAGGCTCAACTCACCTCTCGCAATAT
16375259 GAGTTGATTTTTT
64 GAGTTGA--TTTT
* * *
16375272 TTGAAAAACAGAAATTGAAAGTACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16375337 GTTGA-GTT
66 GTTGATTTT
* * * * * * *
16375345 TTGACAAACAAAAATTCAAATTACCTCAAC--GTCTTAAGGTTCAACTCACCTATCGCAAATATG
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC-AATATG
*
16375408 AGCTGATTTT
65 AGTTGATTTT
*
16375418 TT-AAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16375482 GCTG-TTTT
66 GTTGATTTT
* * * *
16375490 TCTTAAAGACAGATA-TG-AAATACCTCAACGTGTC-TGAGGCTCAACTCAGCTCTCGCATATAT
1 T-TGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCA-ATAT
16375552 -AGTTGA-TTT
64 GAGTTGATTTT
* * * * * *
16375561 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
16375626 GTTGATTTT
66 GTTGATTTT
*
16375635 TTGAAAAACAGAAATTG-AAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16375699 GTTGA-GTT
66 GTTGATTTT
* * * * *
16375707 TTGACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
16375771 GTTGATTTT
66 GTTGATTTT
* * *
16375780 TT-AGAAACATAAATTAAAAA
1 TTGAAAAACAGAAATTGAAAA
16375800 ATGAAAATTG
Statistics
Matches: 769, Mismatches: 91, Indels: 69
0.83 0.10 0.07
Matches are distributed among these distances:
70 45 0.06
71 106 0.14
72 209 0.27
73 184 0.24
74 75 0.10
75 41 0.05
76 88 0.11
77 21 0.03
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (74 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTT
Found at i:16375463 original size:145 final size:143
Alignment explanation
Indices: 16374833--16375794 Score: 1063
Period size: 145 Copynumber: 6.6 Consensus size: 143
16374823 AACACAGAAA
* * * * *
16374833 TTGAAGAACAGAAATGGAAAACACCTC-A-GCGTCTTGA-GTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16374895 CTGATT-TTTTTTGAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTC
66 --G-TTGATTTTTGAAA-ACAGAAATTG-AAATACCTCAAC-TGTCTTGAGGCTCAACTCACCTC
16374959 TCGCAATATGAGTTGATTT
125 TCGCAATATGAGTTGATTT
* * * * **
16374978 TTGACAAACAAAAATTGAAATTACCTC-A-GCGTCTTGAGG-TCAACTCACCTAGCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16375040 GTTGATTTTTTGAAAAACAGAAA-TGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTC
66 GTTGA-TTTTTG-AAAACAGAAATTG-AAATACCTCAAC-TGTCTTGAGGCTCAACTCACCTCTC
**
16375104 GCAATATGAACTGATTTTTT
127 GCAATATGAGTTGA---TTT
* *
16375124 TTTAAAGACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGC-A-ATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * *
16375187 GTTGATTTTTGACAAACAAAAAATTGAAATACCTCAGCGTTGTCCTGAGGCTCAACTCACCTATC
66 GTTGATTTTTGA-AAAC-AGAAATTGAAATACCTCAAC--TGTCTTGAGGCTCAACTCACCTCTC
16375252 GCAATATGAGTTGATTTTTT
127 GCAATATGAGTTGA---TTT
* * *
16375272 TTGAAAAACAGAAATTGAAAGTACCTCAACATGTCTTGAGGCTCAACTCACCTCTTGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * * *
16375337 GTTGAGTTTTGACAAACAAAAATTCAAATTACCTCAAC-GTCTTAAGGTTCAACTCACCTATCGC
66 GTTGATTTTTGA-AAACAGAAATTGAAA-TACCTCAACTGTCTTGAGGCTCAACTCACCTCTCGC
*
16375401 AAATATGAGCTGATTT
129 -AATATGAGTTGATTT
* *
16375417 TTTAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* * * * *
16375482 GCTGTTTTTCTTAAAGACAGATA-TGAAATACCTCAACGTGTC-TGAGGCTCAACTCAGCTCTCG
66 GTTGATTTT-TGAAA-ACAGAAATTGAAATACCTCAAC-TGTCTTGAGGCTCAACTCACCTCTCG
16375545 CATATAT-AGTTGATTT
128 CA-ATATGAGTTGATTT
* * * * * *
16375561 TTGACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTATCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
*
16375626 GTTGATTTTTTGAAAAACAGAAATTGAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTTG
66 GTTGA-TTTTTG-AAAACAGAAATTGAAATACCTCAAC-TGTCTTGAGGCTCAACTCACCTCTCG
*
16375691 CAATATGAGTTGAGTT
128 CAATATGAGTTGATTT
* * * * *
16375707 TTGACAAACA-AAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
* *
16375771 GTTGATTTTTTAGAAACATAAATT
66 GTTGATTTTTGA-AAACAGAAATT
16375795 AAAAAATGAA
Statistics
Matches: 712, Mismatches: 76, Indels: 59
0.84 0.09 0.07
Matches are distributed among these distances:
142 2 0.00
143 54 0.08
144 113 0.16
145 240 0.34
146 85 0.12
147 48 0.07
148 117 0.16
149 25 0.04
150 28 0.04
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (143 bp):
TTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTGAAAACAGAAATTGAAATACCTCAACTGTCTTGAGGCTCAACTCACCTCTCGCAA
TATGAGTTGATTT
Found at i:16375986 original size:13 final size:13
Alignment explanation
Indices: 16375965--16376008 Score: 63
Period size: 13 Copynumber: 3.4 Consensus size: 13
16375955 TTGATTTTTG
16375965 AAAAACAGAAATT
1 AAAAACAGAAATT
*
16375978 AAAAGCAGAAATT
1 AAAAACAGAAATT
16375991 GAAAAACAGAAA-T
1 -AAAAACAGAAATT
16376004 AAAAA
1 AAAAA
16376009 TACCTCGGCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
12 5 0.18
13 13 0.46
14 10 0.36
ACGTcount: A:0.70, C:0.07, G:0.11, T:0.11
Consensus pattern (13 bp):
AAAAACAGAAATT
Found at i:16376000 original size:14 final size:14
Alignment explanation
Indices: 16375962--16376003 Score: 68
Period size: 14 Copynumber: 3.1 Consensus size: 14
16375952 GAGTTGATTT
16375962 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
*
16375976 TT-AAAAGCAGAAA
1 TTGAAAAACAGAAA
16375989 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
16376003 T
1 T
16376004 AAAAATACCT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.48
14 13 0.52
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:16376000 original size:100 final size:99
Alignment explanation
Indices: 16375804--16376150 Score: 395
Period size: 99 Copynumber: 3.6 Consensus size: 99
16375794 TAAAAAATGA
*
16375804 AAATTGAAAATACCTCAGCGTGTCCTGA-GCTCAACTCACCTCTCGC-ATATGAGTTGA-TTTGA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
* ** *
16375866 AAAGCAGAATTTGTAGGAAAAAATTGAAAAACAG
66 AAAGCAGAAATTAAAAGAAAAAATTGAAAAACAG
16375900 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTG
* * *
16375965 AAAAACAGAAATTAAAAGCAGAAATTGAAAAACAG
65 AAAAGCAGAAATTAAAAGAAAAAATTGAAAAACAG
* * * *
16376000 AAA-TAAAAATACCTCGGCGTGCCCCGAGGCTCAGCTCACCTCTCGCAATATGAGTTGATTTTGA
1 AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
*
16376064 AAAGCATAAATT----GAAAAAA-TG-------G
66 AAAGCAGAAATTAAAAGAAAAAATTGAAAAACAG
* * *
16376086 AAATTGAAAATACCTCAGCGTGTGACCTGA-GCCCAAATCACCTCTCGCAAATATGAGTTGATTT
1 AAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGC-AATATGAGTTGATTT
16376150 T
63 T
16376151 TTTGAAAGGA
Statistics
Matches: 220, Mismatches: 23, Indels: 23
0.83 0.09 0.09
Matches are distributed among these distances:
86 4 0.02
87 13 0.06
88 15 0.07
89 23 0.10
93 2 0.01
94 5 0.02
96 27 0.12
97 18 0.08
98 27 0.12
99 51 0.23
100 35 0.16
ACGTcount: A:0.37, C:0.20, G:0.18, T:0.24
Consensus pattern (99 bp):
AAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGA
AAAGCAGAAATTAAAAGAAAAAATTGAAAAACAG
Found at i:16380343 original size:25 final size:25
Alignment explanation
Indices: 16380291--16380388 Score: 69
Period size: 25 Copynumber: 3.9 Consensus size: 25
16380281 AATAGATATA
** *
16380291 AAAAAATATGTACATAATATAGTGT
1 AAAAAATACATACATAATATAATGT
16380316 AAAAAATACATACATAAATATAAT-T
1 AAAAAATACATACAT-AATATAATGT
* *
16380341 --AAAATATATACATAAGATAACATGT
1 AAAAAATACATACATAATAT-A-ATGT
* *
16380366 AGAAAAATATATATATAA-ATAAT
1 A-AAAAATACATACATAATATAAT
16380389 ATAGTATTAA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
22 4 0.07
23 13 0.22
24 2 0.03
25 17 0.28
26 8 0.13
27 2 0.03
28 14 0.23
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (25 bp):
AAAAAATACATACATAATATAATGT
Found at i:16380373 original size:28 final size:29
Alignment explanation
Indices: 16380341--16380413 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 29
16380331 AAATATAATT
16380341 AAAATATATACATAAGATAACAT-GTA-GA
1 AAAATATATACATAA-ATAACATAGTATGA
* * *
16380369 AAAATATATATATAAATAATATAGTATTA
1 AAAATATATACATAAATAACATAGTATGA
*
16380398 AAGATATATACATAAA
1 AAAATATATACATAAA
16380414 ATAGTATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 6 0.16
28 17 0.45
29 15 0.39
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (29 bp):
AAAATATATACATAAATAACATAGTATGA
Found at i:16380412 original size:25 final size:25
Alignment explanation
Indices: 16380376--16380506 Score: 86
Period size: 25 Copynumber: 5.6 Consensus size: 25
16380366 AGAAAAATAT
*
16380376 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATTAAAG
*
16380401 ATATATACATAAAATAGTA-TAATA-
1 ATATATACATAATATAGTATTAA-AG
* * *
16380425 ATTATATACGTAATATAGAATT-TAG
1 A-TATATACATAATATAGTATTAAAG
*
16380450 A-ATATACCTAATATA-TA--AAAG
1 ATATATACATAATATAGTATTAAAG
* *
16380471 AATATATA-TTAATATAATATTAAA-
1 -ATATATACATAATATAGTATTAAAG
16380495 A-ATATA-ATAATA
1 ATATATACATAATA
16380507 ACAAAAAAGA
Statistics
Matches: 85, Mismatches: 11, Indels: 23
0.71 0.09 0.19
Matches are distributed among these distances:
21 2 0.02
22 19 0.22
23 21 0.25
24 5 0.06
25 37 0.44
26 1 0.01
ACGTcount: A:0.56, C:0.03, G:0.05, T:0.36
Consensus pattern (25 bp):
ATATATACATAATATAGTATTAAAG
Found at i:16380416 original size:27 final size:27
Alignment explanation
Indices: 16380292--16380416 Score: 84
Period size: 28 Copynumber: 4.7 Consensus size: 27
16380282 ATAGATATAA
* * *
16380292 AAAAATATGTACAT--AATATAGTGTA
1 AAAAATATATACATAAAATATAGTATT
*
16380317 AAAAATACATACAT-AAATATA--ATT
1 AAAAATATATACATAAAATATAGTATT
* * *
16380341 -AAAATATATACATAAGATAACATGTA-G
1 AAAAATATATACATAAAAT-ATA-GTATT
*
16380368 AAAAATATATATATAAATAATATAGTATT
1 AAAAATATATACAT-AA-AATATAGTATT
*
16380397 AAAGATATATACATAAAATA
1 AAAAATATATACATAAAATA
16380417 GTATAATAAT
Statistics
Matches: 76, Mismatches: 14, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
23 12 0.16
24 4 0.05
25 14 0.18
26 6 0.08
27 4 0.05
28 18 0.24
29 16 0.21
30 2 0.03
ACGTcount: A:0.58, C:0.05, G:0.06, T:0.30
Consensus pattern (27 bp):
AAAAATATATACATAAAATATAGTATT
Found at i:16380440 original size:50 final size:47
Alignment explanation
Indices: 16380376--16380500 Score: 110
Period size: 50 Copynumber: 2.6 Consensus size: 47
16380366 AGAAAAATAT
* * *
16380376 ATATATAAATAATATAGTATTAAAGATATATACATAAAATAGTATAATA
1 ATATAT-AGTAATATAGTATTAAAGATATATACATAAAATA-TAAAAGA
* * * *
16380425 ATTATATACGTAATATAGAATT-TAGA-ATATACCTAATATATAAAAGA
1 A-TATATA-GTAATATAGTATTAAAGATATATACATAAAATATAAAAGA
* * *
16380472 ATATATATTAATATAATATTAAAAATATA
1 ATATATAGTAATATAGTATTAAAGATATA
16380501 ATAATAACAA
Statistics
Matches: 60, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
45 10 0.17
46 8 0.13
47 9 0.15
48 12 0.20
49 5 0.08
50 16 0.27
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (47 bp):
ATATATAGTAATATAGTATTAAAGATATATACATAAAATATAAAAGA
Done.