Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr7
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: 55462051
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2780933 characters in sequence are not A, C, G, or T
File 84 of 163
Found at i:27382722 original size:14 final size:14
Alignment explanation
Indices: 27382705--27382747 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
27382695 ATTATTAAAA
*
27382705 TAAAATTATAGTAT
1 TAAAATTATATTAT
* *
27382719 T-AAATTTTTTTAT
1 TAAAATTATATTAT
27382732 TAAAATTATATTAT
1 TAAAATTATATTAT
27382746 TA
1 TA
27382748 GAGATTAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TAAAATTATATTAT
Found at i:27384543 original size:20 final size:19
Alignment explanation
Indices: 27384518--27384564 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
27384508 ATTAATTATT
27384518 TATAAAATTTAATTAGAATA
1 TATAAAATTTAATTA-AATA
* * *
27384538 TATAAACTATATTTAAATA
1 TATAAAATTTAATTAAATA
27384557 TA-AAAATT
1 TATAAAATT
27384565 AAATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
18 4 0.18
19 6 0.27
20 12 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TATAAAATTTAATTAAATA
Found at i:27386821 original size:13 final size:13
Alignment explanation
Indices: 27386779--27386828 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
27386769 GCTAAAGCAA
27386779 AGTAGAGCAAAGC
1 AGTAGAGCAAAGC
*
27386792 AGCAGAGGCACAA--
1 AGTAGA-GCA-AAGC
27386805 AGTAGAGCAAAGC
1 AGTAGAGCAAAGC
*
27386818 AGTAAAGCAAA
1 AGTAGAGCAAA
27386829 AGAGGCATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
11 2 0.07
12 3 0.10
13 20 0.67
14 3 0.10
15 2 0.07
ACGTcount: A:0.50, C:0.16, G:0.28, T:0.06
Consensus pattern (13 bp):
AGTAGAGCAAAGC
Found at i:27391648 original size:48 final size:48
Alignment explanation
Indices: 27391595--27391754 Score: 178
Period size: 48 Copynumber: 3.1 Consensus size: 48
27391585 GAGAATCGGA
27391595 GTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTG
1 GTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTG
* * * * *
27391643 GTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAAGGATGGAGAGAGAA-TGG
1 GTAGGGGGA-GGGATG-GTGGGGA---G-GAGGGA-A-AGGGATAGA-AGAGAAGT-G
27391700 GTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTG
1 GTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTG
27391748 GTAGGGG
1 GTAGGGG
27391755 AATGAGATGA
Statistics
Matches: 91, Mismatches: 10, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
48 22 0.24
49 13 0.14
50 7 0.08
51 6 0.07
52 1 0.01
53 1 0.01
54 6 0.07
55 7 0.08
56 13 0.14
57 15 0.16
ACGTcount: A:0.32, C:0.00, G:0.58, T:0.10
Consensus pattern (48 bp):
GTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTG
Found at i:27391703 original size:57 final size:56
Alignment explanation
Indices: 27391627--27391795 Score: 203
Period size: 56 Copynumber: 3.1 Consensus size: 56
27391617 GGAGGGAAAG
*
27391627 GGATAGAAGAGAAGTGGTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAA
1 GGATGGAAGAGAAGTGGTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAA
* * * *
27391683 GGATGGAGAGAGAA-TGGGTAGGGGGA-GGGATG-GTGGGGA---G-GAGGGA-A-AG
1 GGATGGA-AGAGAAGT-GGTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAA
*
27391732 GGATAGAAGAGAAGTGGTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAA
1 GGATGGAAGAGAAGTGGTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAA
27391788 GGATGGAA
1 GGATGGAA
27391796 AATGGTAGCC
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
48 15 0.16
49 13 0.14
50 7 0.08
51 6 0.07
52 1 0.01
53 1 0.01
54 6 0.07
55 7 0.08
56 20 0.22
57 15 0.16
ACGTcount: A:0.35, C:0.00, G:0.56, T:0.09
Consensus pattern (56 bp):
GGATGGAAGAGAAGTGGTAGGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAA
Found at i:27391711 original size:105 final size:107
Alignment explanation
Indices: 27391581--27391794 Score: 414
Period size: 105 Copynumber: 2.0 Consensus size: 107
27391571 GGTGGGGGGA
27391581 GAGAGAGAATCGGAGTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTGGTA
1 GAGAGAGAATCGGAGTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTGGTA
27391646 GGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAAGGATG
66 GGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAAGGATG
27391688 GAGAGAGAAT-GG-GTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTGGTA
1 GAGAGAGAATCGGAGTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTGGTA
27391751 GGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAAGGATG
66 GGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAAGGATG
27391793 GA
1 GA
27391795 AAATGGTAGC
Statistics
Matches: 107, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
105 95 0.89
106 2 0.02
107 10 0.09
ACGTcount: A:0.34, C:0.00, G:0.57, T:0.09
Consensus pattern (107 bp):
GAGAGAGAATCGGAGTAGGGGGAGGGATGGTGGGGAGGAGGGAAAGGGATAGAAGAGAAGTGGTA
GGGGAATGAGATGAGAGGGGAGGGGAGAGGGAGAGAAGGATG
Found at i:27391841 original size:13 final size:13
Alignment explanation
Indices: 27391823--27391849 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
27391813 GTTTGTAACA
27391823 GAAAATGGCAGGT
1 GAAAATGGCAGGT
27391836 GAAAATGGCAGGT
1 GAAAATGGCAGGT
27391849 G
1 G
27391850 TTACGTTTGT
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:0.37, C:0.07, G:0.41, T:0.15
Consensus pattern (13 bp):
GAAAATGGCAGGT
Found at i:27397644 original size:19 final size:21
Alignment explanation
Indices: 27397606--27397644 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
27397596 CTTTTTTTGA
*
27397606 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
27397627 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
27397645 AAAGAAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:27397925 original size:21 final size:21
Alignment explanation
Indices: 27397848--27397918 Score: 133
Period size: 21 Copynumber: 3.4 Consensus size: 21
27397838 AATCATATCT
*
27397848 TCTAAGATTGTATATATCATA
1 TCTAAGATTGCATATATCATA
27397869 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
27397890 TCTAAGATTGCATATATCATA
1 TCTAAGATTGCATATATCATA
27397911 TCTAAGAT
1 TCTAAGAT
27397919 CGTATATCCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.39
Consensus pattern (21 bp):
TCTAAGATTGCATATATCATA
Found at i:27398630 original size:44 final size:44
Alignment explanation
Indices: 27398564--27398676 Score: 115
Period size: 44 Copynumber: 2.6 Consensus size: 44
27398554 GATGCGATCT
*
27398564 GCTCT-CTGCAACTTC-AGAGAGATAAGATCCA-AGGTTTTAATCC
1 GCTCTACTGCAACTTCAAG-GAGATAAGAT-CATAGGCTTTAATCC
* * * * *
27398607 GCTCTACTACAACTTCAAGGAGATACGATTATCGGCTTTAATCT
1 GCTCTACTGCAACTTCAAGGAGATAAGATCATAGGCTTTAATCC
* *
27398651 GCTCCACTGCAACTTCAGGGAGATAA
1 GCTCTACTGCAACTTCAAGGAGATAA
27398677 TATTTGCCAT
Statistics
Matches: 57, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
43 6 0.11
44 49 0.86
45 2 0.04
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (44 bp):
GCTCTACTGCAACTTCAAGGAGATAAGATCATAGGCTTTAATCC
Found at i:27398939 original size:44 final size:44
Alignment explanation
Indices: 27398759--27398939 Score: 116
Period size: 44 Copynumber: 4.1 Consensus size: 44
27398749 TATCTTGGAA
* ** *
27398759 AGATAAGATTTACCGTCTTTGATCTGCTCTACTACTGCTTAGGG
1 AGATAAGATTTACTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** * * * * *
27398803 AGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGG
1 AGATAAGATTTACTGTCTTCAATCTGCTCCACTACTGCTTAGGG
* ** ** * * *
27398847 AGACAAGGCTTGGTGGCTTAAATCTGCTTTCCACTA-T-CTT-GGAA
1 AGATAAGATTTACTGTCTTCAATCTGC--TCCACTACTGCTTAGG-G
* *
27398891 AGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGG
1 AGATAAGATTTACTGTCTTCAATCTGCTCCACTACTGCTTAGGG
27398935 AGATA
1 AGATA
27398940 GGATCTACAA
Statistics
Matches: 96, Mismatches: 35, Indels: 12
0.67 0.24 0.08
Matches are distributed among these distances:
42 7 0.07
43 3 0.03
44 78 0.81
45 3 0.03
46 5 0.05
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
AGATAAGATTTACTGTCTTCAATCTGCTCCACTACTGCTTAGGG
Found at i:27399065 original size:44 final size:44
Alignment explanation
Indices: 27399016--27399200 Score: 126
Period size: 44 Copynumber: 4.2 Consensus size: 44
27399006 TATCTTGGAA
*
27399016 AGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
* * ** * * * * * * *
27399060 AGATAAGATCTACAATATTCAACCTACTCCGCTGCTGCTCAGAG
1 AGATAAGATTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
* * * * * * *
27399104 AGACAAGGCTTTG-TGGCTTAAATCTGCTTCCCACTA-T-CTT-GGAA
1 AGATAA-GATTTGCCGTCTTTAATCTAC-T-CCACTACTGCTTAGG-G
*
27399148 AGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGG
1 AGATAAGATTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
27399192 AGATAAGAT
1 AGATAAGAT
27399201 CTACAATCTT
Statistics
Matches: 97, Mismatches: 36, Indels: 16
0.65 0.24 0.11
Matches are distributed among these distances:
42 6 0.06
43 8 0.08
44 72 0.74
45 7 0.07
46 4 0.04
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (44 bp):
AGATAAGATTTGCCGTCTTTAATCTACTCCACTACTGCTTAGGG
Found at i:27399146 original size:257 final size:257
Alignment explanation
Indices: 27398685--27399206 Score: 900
Period size: 257 Copynumber: 2.0 Consensus size: 257
27398675 AATATTTGCC
* * *
27398685 ATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTTCCACT
1 ATCTACAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
* *
27398750 ATCTTGGAAAGATAAGATTTACCGTCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
* * * *
27398815 CAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTTCCA
131 CAATATTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
* * *
27398880 CTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGG
196 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
*
27398942 ATCTACAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACT
1 ATCTACAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
*
27399007 ATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
66 ATCTTGGAAAGATAAGATTTACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
*
27399072 CAATATTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCA
131 CAATATTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
*
27399137 CTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAG
196 CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
27399199 ATCTACAA
1 ATCTACAA
27399207 TCTTCAACCT
Statistics
Matches: 249, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
257 249 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.30
Consensus pattern (257 bp):
ATCTACAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACT
ATCTTGGAAAGATAAGATTTACCGTCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTA
CAATATTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
CTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAG
Found at i:27399247 original size:132 final size:132
Alignment explanation
Indices: 27398667--27399250 Score: 930
Period size: 132 Copynumber: 4.5 Consensus size: 132
27398657 CTGCAACTTC
* * * * *
27398667 AGGGAGATAATATTTGCCATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGC
* * * *
27398732 TTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTACCGTCTTTGATCTGCTCTACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
27398797 TT
131 TT
* *
27398799 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTGGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGC
* * * *
27398864 TTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTTGCTGTCTTCGATCTGCTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
27398929 TT
131 TT
* *
27398931 AGGGAGATAGGATCT---A----CAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGC
27398989 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
27399054 TT
131 TT
* *
27399056 AGGGAGATAAGATCTACAATATTCAACCTACTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGC
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGC
27399121 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
66 TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
27399186 TT
131 TT
* *
27399188 AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTGTTGCTCAGGGAGACAAGGCTTTGTG
1 AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTG
27399251 TTTCACCGAT
Statistics
Matches: 423, Mismatches: 22, Indels: 14
0.92 0.05 0.03
Matches are distributed among these distances:
125 116 0.27
128 1 0.00
129 1 0.00
132 305 0.72
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (132 bp):
AGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGGC
TTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTCCACTACTGC
TT
Found at i:27400516 original size:11 final size:11
Alignment explanation
Indices: 27400484--27400518 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
27400474 CTCATTTTGC
27400484 TTTTCTTTTCCT
1 TTTTCTTTT-CT
27400496 TTTTC-TTTCT
1 TTTTCTTTTCT
27400506 TTTTCTTTTCT
1 TTTTCTTTTCT
27400517 TT
1 TT
27400519 CTTTCTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 10 0.45
12 5 0.23
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTCT
Found at i:27400516 original size:15 final size:15
Alignment explanation
Indices: 27400485--27400540 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 15
27400475 TCATTTTGCT
*
27400485 TTTCTTTTCCTTTTTC
1 TTTCTTTTTC-TTTTC
27400501 TTTCTTTTTCTTTTC
1 TTTCTTTTTCTTTTC
27400516 TTTCTTTCTCTCTTTT-
1 TTTCTTT-T-TCTTTTC
*
27400532 TTTGTTTTT
1 TTTCTTTTT
27400541 GAAAAATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 1 0.03
15 13 0.36
16 16 0.44
17 6 0.17
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTCTTTTTCTTTTC
Found at i:27400529 original size:27 final size:26
Alignment explanation
Indices: 27400478--27400540 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
27400468 TGGCCTCTCA
27400478 TTTTGCTTTTCTTTTCCTTTTTCTTT
1 TTTTGCTTTTCTTTTCCTTTTTCTTT
*
27400504 CTTTTTCTTTTC-TTT-CTTTCTCTCTTT
1 -TTTTGCTTTTCTTTTCCTTT-T-TCTTT
*
27400531 TTTTGTTTTT
1 TTTTGCTTTT
27400541 GAAAAATTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.13
26 12 0.39
27 15 0.48
ACGTcount: A:0.00, C:0.19, G:0.03, T:0.78
Consensus pattern (26 bp):
TTTTGCTTTTCTTTTCCTTTTTCTTT
Found at i:27405293 original size:52 final size:51
Alignment explanation
Indices: 27405200--27405299 Score: 121
Period size: 51 Copynumber: 1.9 Consensus size: 51
27405190 ACTTATATAT
* *
27405200 ATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATATACAC
1 ATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATATACAC
* * * *
27405251 ATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTATA
1 ATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATATA
27405300 ATATAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 21 0.51
52 20 0.49
ACGTcount: A:0.56, C:0.08, G:0.07, T:0.29
Consensus pattern (51 bp):
ATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATATACAC
Found at i:27405783 original size:21 final size:21
Alignment explanation
Indices: 27405759--27405802 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
27405749 AGTTTCCCTC
27405759 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
27405780 TCTTGTAATTATCTAGTCATT
1 TCTTGTAATTATCTAGTCATT
27405801 TC
1 TC
27405803 AAACCTTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.16, G:0.09, T:0.52
Consensus pattern (21 bp):
TCTTGTAATTATCTAGTCATT
Found at i:27410673 original size:23 final size:24
Alignment explanation
Indices: 27410642--27410688 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
27410632 AAACATATGC
27410642 TCTTCTCTTCTTC-TTCTTCTTTT
1 TCTTCTCTTCTTCTTTCTTCTTTT
* * *
27410665 TCTTTTCTTTTTCTTTTTTCTTTT
1 TCTTCTCTTCTTCTTTCTTCTTTT
27410689 CTTGTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (24 bp):
TCTTCTCTTCTTCTTTCTTCTTTT
Found at i:27410680 original size:11 final size:11
Alignment explanation
Indices: 27410642--27410691 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
27410632 AAACATATGC
* *
27410642 TCTTCTCTTCT
1 TCTTTTCTTTT
27410653 TCTTCTTCTTTT
1 TCTT-TTCTTTT
27410665 TCTTTTCTTTT
1 TCTTTTCTTTT
*
27410676 TCTTTTTTCTTT
1 TCTTTTCT-TTT
27410688 TCTT
1 TCTT
27410692 GTTTTTTCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
11 18 0.53
12 16 0.47
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (11 bp):
TCTTTTCTTTT
Found at i:27412928 original size:25 final size:25
Alignment explanation
Indices: 27412875--27412929 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
27412865 TAATTAGTAT
* * *
27412875 AAAATATTAATAATTCAATAAATTG
1 AAAATATTAATAATTAAATAAAATC
27412900 AAAA-ATTAAATAATTAAATAAAATC
1 AAAATATT-AATAATTAAATAAAATC
27412925 AAAAT
1 AAAAT
27412930 TTAGGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
24 3 0.12
25 22 0.88
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (25 bp):
AAAATATTAATAATTAAATAAAATC
Found at i:27413695 original size:16 final size:15
Alignment explanation
Indices: 27413665--27413703 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27413655 TATGCAAAGT
* *
27413665 TAATAATAATTAATA
1 TAATTATAATAAATA
27413680 TATATTATAATAAATA
1 TA-ATTATAATAAATA
27413696 TAATTATA
1 TAATTATA
27413704 TACTAGTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATTATAATAAATA
Found at i:27419447 original size:71 final size:71
Alignment explanation
Indices: 27419297--27419475 Score: 195
Period size: 71 Copynumber: 2.5 Consensus size: 71
27419287 TGAACTTTAT
** * *
27419297 TCGATGTTGCTCACTCAAGCTATTGAGAATCCACAA-AATGTGTTGGATCTCAGCTATCGATAAG
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACAATGTGTTGAATCTCAGCCATCGATAA-
27419361 GTATAATG
65 G-ATAATG
* * * * *
27419369 -CGGTGTTGTTCACTCAAGCTATCAAGAATCCGCAACACT-TGTTGAATCTCAGCCATCGTTAA-
1 TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACAATGTGTTGAATCTCAGCCATCGATAAG
27419431 ATAATG
66 ATAATG
* *
27419437 ACTCGATGTTGCTCACTCAAGTTGTCAAGAATCCACAAC
1 --TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAAC
27419476 TTAAGTTGTA
Statistics
Matches: 89, Mismatches: 14, Indels: 9
0.79 0.12 0.08
Matches are distributed among these distances:
68 6 0.07
71 81 0.91
72 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (71 bp):
TCGATGTTGCTCACTCAAGCTATCAAGAATCCACAACAATGTGTTGAATCTCAGCCATCGATAAG
ATAATG
Found at i:27422168 original size:28 final size:28
Alignment explanation
Indices: 27422116--27422169 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
27422106 TTCTTTTGGT
* *
27422116 ATTTTTGCCTAAAATATTTTTTTTAACA
1 ATTTTTCCCTAAAATATTTCTTTTAACA
27422144 ATTTTTCCCTAAAATCA-TTCTTTTAA
1 ATTTTTCCCTAAAAT-ATTTCTTTTAA
27422170 AAAATTGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 22 0.96
29 1 0.04
ACGTcount: A:0.31, C:0.15, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTTTCCCTAAAATATTTCTTTTAACA
Found at i:27422214 original size:13 final size:15
Alignment explanation
Indices: 27422196--27422241 Score: 51
Period size: 18 Copynumber: 3.0 Consensus size: 15
27422186 AAATAAACAC
27422196 AATA-TTTATAA-AA
1 AATATTTTATAATAA
27422209 AATATTTTATAATAAAA
1 AATATTTTATAAT--AA
27422226 TAATATTTTATAATAA
1 -AATATTTTATAATAA
27422242 GTTATGTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
13 4 0.14
14 7 0.25
16 2 0.07
17 2 0.07
18 13 0.46
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AATATTTTATAATAA
Found at i:27422232 original size:18 final size:17
Alignment explanation
Indices: 27422203--27422241 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 17
27422193 CACAATATTT
27422203 ATAAAAAATATTTTATA
1 ATAAAAAATATTTTATA
27422220 ATAAAATAATATTTTATA
1 ATAAAA-AATATTTTATA
27422238 ATAA
1 ATAA
27422242 GTTATGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATAAAAAATATTTTATA
Found at i:27428485 original size:25 final size:26
Alignment explanation
Indices: 27428457--27428506 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
27428447 CTCATTCATC
*
27428457 CTCTCTTTCTT-CGTTTTTAGTTTCT
1 CTCTCTTTCTTGCATTTTTAGTTTCT
*
27428482 CTCTCTTTCTTGCATTTTTTGTTTC
1 CTCTCTTTCTTGCATTTTTAGTTTC
27428507 AAACATTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.04, C:0.24, G:0.08, T:0.64
Consensus pattern (26 bp):
CTCTCTTTCTTGCATTTTTAGTTTCT
Found at i:27429555 original size:29 final size:30
Alignment explanation
Indices: 27429518--27429574 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
27429508 TTCAAGCCTT
*
27429518 GGGGAAAAA-TATAATTATGCAAAAGTTTA
1 GGGGAAAAATTATAATTATGAAAAAGTTTA
* * *
27429547 GGGGTAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTATAATTATGAAAAAGTT
27429575 AGAGTCGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.44, C:0.02, G:0.23, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTATAATTATGAAAAAGTTTA
Found at i:27434297 original size:38 final size:39
Alignment explanation
Indices: 27434246--27434321 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 39
27434236 TAACATCTTT
*
27434246 TTTTTTCTTTATCTATTATTATAAA-TTCATTAAAACTA
1 TTTTTTCTTTATCTATTATTATAAACATCATTAAAACTA
*
27434284 TTTTTTCTTTATCTATTGTTATAAACATCATTAAAACT
1 TTTTTTCTTTATCTATTATTATAAACATCATTAAAACT
27434322 TAAGGGAAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
38 24 0.69
39 11 0.31
ACGTcount: A:0.33, C:0.12, G:0.01, T:0.54
Consensus pattern (39 bp):
TTTTTTCTTTATCTATTATTATAAACATCATTAAAACTA
Found at i:27438643 original size:19 final size:19
Alignment explanation
Indices: 27438619--27438655 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
27438609 ATTAAGATAT
27438619 AAATAATAAAAAATTATGA
1 AAATAATAAAAAATTATGA
27438638 AAATAATAAAAAATTATG
1 AAATAATAAAAAATTATG
27438656 TAACGCCCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (19 bp):
AAATAATAAAAAATTATGA
Found at i:27445585 original size:20 final size:20
Alignment explanation
Indices: 27445541--27445668 Score: 96
Period size: 20 Copynumber: 6.3 Consensus size: 20
27445531 ACCACACCAA
* * *
27445541 AGGCATCAAAGATGCATACAA
1 AGGCACCAAAG-TGCAAACAG
*
27445562 AGGCACCGAAGTGCAAACAG
1 AGGCACCAAAGTGCAAACAG
* *
27445582 AGGCA-AAAATGTGCAATCAG
1 AGGCACCAAA-GTGCAAACAG
* *
27445602 AGGCACCAGAGTGCAAATAG
1 AGGCACCAAAGTGCAAACAG
** ***
27445622 AAACACCAAAGTGTTTACAG
1 AGGCACCAAAGTGCAAACAG
*
27445642 AGGCACCAAAGTGCAAATAG
1 AGGCACCAAAGTGCAAACAG
*
27445662 AAGCACC
1 AGGCACC
27445669 GTAGTGCAAT
Statistics
Matches: 80, Mismatches: 25, Indels: 5
0.73 0.23 0.05
Matches are distributed among these distances:
19 2 0.03
20 67 0.84
21 11 0.14
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (20 bp):
AGGCACCAAAGTGCAAACAG
Found at i:27451764 original size:19 final size:19
Alignment explanation
Indices: 27451740--27451778 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
27451730 CAGGAAGAAA
27451740 TATGTTAGTCAGTGGTATC
1 TATGTTAGTCAGTGGTATC
27451759 TATGTTAGTCAGTGGTATC
1 TATGTTAGTCAGTGGTATC
27451778 T
1 T
27451779 CGACAAAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.10, G:0.26, T:0.44
Consensus pattern (19 bp):
TATGTTAGTCAGTGGTATC
Found at i:27462850 original size:52 final size:52
Alignment explanation
Indices: 27462793--27462893 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 52
27462783 ACCAACTAGT
* *
27462793 AAAATATTCATAAAAATGAAACAAAAACTG-T-AGGACTTAAAACTAAAAATAA
1 AAAATATTCACAAAAATAAAACAAAAA-TGATAAGG-CTTAAAACTAAAAATAA
*
27462845 AAAATATTCACCAAAATAAAACAAAAATGATAAGGCTTAAAACTAAAAA
1 AAAATATTCACAAAAATAAAACAAAAATGATAAGGCTTAAAACTAAAAA
27462894 ATGAAACAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
51 2 0.05
52 39 0.89
53 3 0.07
ACGTcount: A:0.62, C:0.11, G:0.07, T:0.20
Consensus pattern (52 bp):
AAAATATTCACAAAAATAAAACAAAAATGATAAGGCTTAAAACTAAAAATAA
Found at i:27462901 original size:34 final size:34
Alignment explanation
Indices: 27462857--27462984 Score: 114
Period size: 34 Copynumber: 3.7 Consensus size: 34
27462847 AATATTCACC
* *
27462857 AAAATAAAACAAAAATGATAAGGCTTAAAACTAA
1 AAAATAAAACAAAAATAATAAGACTTAAAACTAA
* *
27462891 AAAATGAAACAAAAATAATAAGACTTAAAACTCTA
1 AAAATAAAACAAAAATAATAAGACTTAAAACT-AA
* ** ** *
27462926 ACAGCAGAAACACTACTAATAAGACTTAAAACTAA
1 AAAATA-AAACAAAAATAATAAGACTTAAAACTAA
* *
27462961 AAAATGGAAA-AAAAATTATAAGAC
1 AAAAT-AAAACAAAAATAATAAGAC
27462985 CTATAATTAA
Statistics
Matches: 71, Mismatches: 20, Indels: 6
0.73 0.21 0.06
Matches are distributed among these distances:
34 39 0.55
35 9 0.13
36 23 0.32
ACGTcount: A:0.62, C:0.12, G:0.09, T:0.18
Consensus pattern (34 bp):
AAAATAAAACAAAAATAATAAGACTTAAAACTAA
Found at i:27463021 original size:40 final size:41
Alignment explanation
Indices: 27462971--27463056 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 41
27462961 AAAATGGAAA
* *
27462971 AAAAATTATAAGACCTATAATTAATAATACAAAATATTCAC
1 AAAAATTATAAAACCTATAATTAACAATACAAAATATTCAC
** * *
27463012 AAAAA-TATAAAATTTATAATTAACACTACAAAATATTTAC
1 AAAAATTATAAAACCTATAATTAACAATACAAAATATTCAC
27463052 AAAAA
1 AAAAA
27463057 ATCAGATAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 34 0.87
41 5 0.13
ACGTcount: A:0.59, C:0.10, G:0.01, T:0.29
Consensus pattern (41 bp):
AAAAATTATAAAACCTATAATTAACAATACAAAATATTCAC
Found at i:27469721 original size:84 final size:85
Alignment explanation
Indices: 27469616--27469786 Score: 335
Period size: 84 Copynumber: 2.0 Consensus size: 85
27469606 TTTATTTTAT
27469616 AATAAAATAATATTTTATAATAAGTAATGTTTTCTATAGACTTAACAATTACTGATGCATTCTTA
1 AATAAAATAATATTTTATAATAAGTAATGTTTTCTATAGACTTAACAATTACTGATGCATTCTTA
27469681 AAAAAATGATGCTTAATTAA
66 AAAAAATGATGCTTAATTAA
27469701 AATAAAATAA-ATTTTATAATAAGTAATGTTTTCTATAGACTTAACAATTACTGATGCATTCTTA
1 AATAAAATAATATTTTATAATAAGTAATGTTTTCTATAGACTTAACAATTACTGATGCATTCTTA
27469765 AAAAAATGATGCTTAATTAA
66 AAAAAATGATGCTTAATTAA
27469785 AA
1 AA
27469787 CTTAATTTGA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
84 76 0.88
85 10 0.12
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (85 bp):
AATAAAATAATATTTTATAATAAGTAATGTTTTCTATAGACTTAACAATTACTGATGCATTCTTA
AAAAAATGATGCTTAATTAA
Found at i:27471045 original size:16 final size:16
Alignment explanation
Indices: 27471026--27471075 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
27471016 GAGAGAATGG
27471026 AAAAAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
* *
27471042 AAAAAGTAAAGTTAAAA
1 AAAAAGAAAAG-AAAAA
*
27471059 AAACAGAAAAGAAAAA
1 AAAAAGAAAAGAAAAA
27471075 A
1 A
27471076 TTTAAATTGC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
16 15 0.54
17 13 0.46
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAA
Found at i:27471069 original size:17 final size:15
Alignment explanation
Indices: 27471026--27471075 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 15
27471016 GAGAGAATGG
27471026 AAAAAGAAAAGAAAAA
1 AAAAAGAAAAG-AAAA
*
27471042 AAAAAGTAAAGTTAAAA
1 AAAAAGAAAAG--AAAA
*
27471059 AAACAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
27471074 AA
1 AA
27471076 TTTAAATTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 6 0.21
16 10 0.34
17 13 0.45
ACGTcount: A:0.80, C:0.02, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:27474589 original size:32 final size:32
Alignment explanation
Indices: 27474548--27474610 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
27474538 ACACAATTAT
*
27474548 ATGCTAGTTTTCTCAACTTTAAAGATCTCCCA
1 ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
*
27474580 ATGCTAGTTTTATCAATTTTAAAGATCTCCC
1 ATGCTAGTTTTATCAACTTTAAAGATCTCCC
27474611 GTGTACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.10, T:0.40
Consensus pattern (32 bp):
ATGCTAGTTTTATCAACTTTAAAGATCTCCCA
Found at i:27478691 original size:34 final size:32
Alignment explanation
Indices: 27478643--27478725 Score: 87
Period size: 33 Copynumber: 2.5 Consensus size: 32
27478633 AGAAACTATG
* * *
27478643 ATTTCTAACACATATTCTAAGTCTATATTG-ACCA
1 ATTTCTAACTCATATTCT-A-TATAT-TTGAACAA
*
27478677 ATTTCTAACTCATATTTCTATATGTTTGAACAA
1 ATTTCTAACTCATA-TTCTATATATTTGAACAA
27478710 ATTTCTAACTCATATT
1 ATTTCTAACTCATATT
27478726 TCAATATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
32 5 0.12
33 20 0.47
34 14 0.33
35 4 0.09
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (32 bp):
ATTTCTAACTCATATTCTATATATTTGAACAA
Found at i:27479345 original size:18 final size:18
Alignment explanation
Indices: 27479314--27479361 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
27479304 TGTTGTTCGT
*
27479314 TTTCAAAACATTATTC-A
1 TTTCAAAACGTTATTCAA
*
27479331 TTTACAAATCGTTATTCAA
1 TTT-CAAAACGTTATTCAA
27479350 TTTCAAAACGTT
1 TTTCAAAACGTT
27479362 TTCTTATTGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.73
19 4 0.15
ACGTcount: A:0.38, C:0.17, G:0.04, T:0.42
Consensus pattern (18 bp):
TTTCAAAACGTTATTCAA
Found at i:27489000 original size:24 final size:24
Alignment explanation
Indices: 27488968--27489016 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
27488958 ATTTGTTGAG
27488968 TATGACTCCTATTTCAGTCAAATT
1 TATGACTCCTATTTCAGTCAAATT
27488992 TATGACTCCTATTTCAGTCAAATT
1 TATGACTCCTATTTCAGTCAAATT
27489016 T
1 T
27489017 GAGAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.29, C:0.20, G:0.08, T:0.43
Consensus pattern (24 bp):
TATGACTCCTATTTCAGTCAAATT
Found at i:27496298 original size:19 final size:19
Alignment explanation
Indices: 27496274--27496312 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
27496264 AAAAACAAAT
27496274 TAACATAAATGATCTAAAA
1 TAACATAAATGATCTAAAA
*
27496293 TAACATAAATTATCTAAAA
1 TAACATAAATGATCTAAAA
27496312 T
1 T
27496313 TAAGACAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (19 bp):
TAACATAAATGATCTAAAA
Found at i:27505092 original size:20 final size:20
Alignment explanation
Indices: 27505069--27505138 Score: 63
Period size: 20 Copynumber: 3.3 Consensus size: 20
27505059 TCAAAAAGGG
27505069 AAATAATAAAAAGAAAACTT
1 AAATAATAAAAAGAAAACTT
27505089 AAATAAATGAAATAA-ATAAGACATT
1 AAAT-AAT-AAA-AAGA-AA-AC-TT
*
27505114 -GATAATAAAAAGAAAACTT
1 AAATAATAAAAAGAAAACTT
27505133 AAATAA
1 AAATAA
27505139 ATGAAATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
19 2 0.05
20 10 0.25
21 7 0.17
22 8 0.20
23 7 0.17
24 4 0.10
25 2 0.05
ACGTcount: A:0.67, C:0.04, G:0.07, T:0.21
Consensus pattern (20 bp):
AAATAATAAAAAGAAAACTT
Found at i:27505121 original size:44 final size:44
Alignment explanation
Indices: 27505071--27505159 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
27505061 AAAAAGGGAA
27505071 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
27505115 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
1 ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
27505159 A
1 A
27505160 CATGATGATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.22
Consensus pattern (44 bp):
ATAATAAAAAGAAAACTTAAATAAATGAAATAAATAAGACATTG
Found at i:27506402 original size:146 final size:146
Alignment explanation
Indices: 27505896--27506489 Score: 814
Period size: 146 Copynumber: 4.1 Consensus size: 146
27505886 CAAAGTTTTC
* * *
27505896 TTTAGAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATCAA
1 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATAAA
* * *
27505961 ATTTTGTTTTAAAATTTTAAACTTTTCATTTAAAATGACTAAAAAATATATTTTTATTTTTAAAA
66 ATTTTGTTTTAAAATTGTAAACTTTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTAAAA
27506026 ATCTAAACTTTCTC-T
131 ATCTAAACTTTCTCTT
* * * * *
27506041 TTTAAAAAAATCACTCTTTTTATTAAAAATCAAAATTTTATTTCGAAATAGTTGAAAAACAT-CA
1 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATAAA
*
27506105 ATTTT-TTTT--AATT-TAATA-TTTTCCTTTAAAATGACTAAAAACAT--CTTTTTATTTTTAA
66 ATTTTGTTTTAAAATTGTAA-ACTTTTCCTTTAAAATGACTAAAAA-ATAGATTTTTATTTTTAA
27506163 AAATCTAAACTTTCTCTT
129 AAATCTAAACTTTCTCTT
* * *
27506181 TTAAAAAAAATAATCACTATTTTTCTTAAAAATCAAAGCTTTATTTTGAAATAGTTGAAAAAGAT
1 TT--TAAAAA-AATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGAT
*
27506246 CAAAATTTTGTTTTAAAATTGTAAACATTTCCTTTAAAATGACTAAAAACA-A-ATTTTTATTTT
63 -AAAATTTTGTTTTAAAATTGTAAACTTTTCCTTTAAAATGACTAAAAA-ATAGATTTTTATTTT
* *
27506309 TAAAAATATAAAATTTCTCTT
126 TAAAAATCTAAACTTTCTCTT
27506330 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATTAA
1 TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGA-TAA
* * * *
27506395 AACTTTGTTTTAAAAATGTAAGCCTTTCCTTTAAAATGACTAAAGAAATAGATTTTTATTTTTAA
65 AATTTTGTTTTAAAATTGTAAACTTTTCCTTTAAAATGACTAAA-AAATAGATTTTTATTTTTAA
27506460 AAATCTAAACTTTCTCTTT
129 AAATCTAAACTTTCTC-TT
27506479 TTTGAAAAAAA
1 TTT-AAAAAAA
27506490 AAATCAAAAA
Statistics
Matches: 399, Mismatches: 30, Indels: 35
0.86 0.06 0.08
Matches are distributed among these distances:
139 29 0.07
140 28 0.07
141 7 0.02
142 5 0.01
143 52 0.13
144 6 0.02
145 62 0.16
146 98 0.25
147 9 0.02
148 33 0.08
149 63 0.16
150 7 0.02
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.42
Consensus pattern (146 bp):
TTTAAAAAAATCACTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAAAGATAAA
ATTTTGTTTTAAAATTGTAAACTTTTCCTTTAAAATGACTAAAAAATAGATTTTTATTTTTAAAA
ATCTAAACTTTCTCTT
Found at i:27506819 original size:3 final size:3
Alignment explanation
Indices: 27506813--27506876 Score: 56
Period size: 3 Copynumber: 21.0 Consensus size: 3
27506803 TAAAGAAAAA
* * * * * *
27506813 AAT AAT AAT GAT ATTT AAT AAT AAT AAT AAT AGT AGT AGT AGT AAT
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
27506859 GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT
27506877 TTGGGCCTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 50 0.96
4 2 0.04
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:27507389 original size:42 final size:42
Alignment explanation
Indices: 27507329--27507503 Score: 244
Period size: 42 Copynumber: 4.2 Consensus size: 42
27507319 ATATACACTA
* *
27507329 CAATTAAAAGTAAATGGACCTCCACATCT-GGCCTTCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCC-TCTAAATG
* *
27507371 CAATGAAAGGTAAATGGACCTCCACACCTGGGCCTTTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
*
27507413 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATA
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
* ** *
27507455 CAATGAAAAGTAAGTGGACCTCCACATTTGGGCCCCTAAATG
1 CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
*
27507497 TAATGAA
1 CAATGAA
27507504 TGCTTTCCTT
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
42 115 0.97
43 4 0.03
ACGTcount: A:0.36, C:0.23, G:0.18, T:0.22
Consensus pattern (42 bp):
CAATGAAAAGTAAATGGACCTCCACACCTGGGCCTCTAAATG
Found at i:27507895 original size:2 final size:2
Alignment explanation
Indices: 27507888--27507927 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
27507878 AATTTAGTTC
27507888 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
27507928 GTTGTTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:27516068 original size:4 final size:4
Alignment explanation
Indices: 27516027--27516075 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
27516017 TGAATAAACA
* * * * *
27516027 AATG AACG AATG AGTG AACG AATG GATG AATA AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
27516075 A
1 A
27516076 TATTGGGTCA
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.49, C:0.04, G:0.27, T:0.20
Consensus pattern (4 bp):
AATG
Found at i:27519648 original size:16 final size:15
Alignment explanation
Indices: 27519629--27519667 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
27519619 CGTTCTCCTC
27519629 TTTCTTTTTCTTTTGT
1 TTTCTTTTTCTTTT-T
*
27519645 TTTCTTTTTGTTTTT
1 TTTCTTTTTCTTTTT
27519660 TCTTCTTT
1 T-TTCTTT
27519668 CCTTTTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTCTTTTT
Found at i:27524489 original size:151 final size:149
Alignment explanation
Indices: 27524184--27524513 Score: 455
Period size: 151 Copynumber: 2.2 Consensus size: 149
27524174 AAAATCAAAA
* * * * * *
27524184 TTTTCTTTAAAAAATCACTACTTTTGTTAAAATTCAGAGCTTTATTTCGAAATAGTTGAAAAGGA
1 TTTTTTTTAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAACGA
* *
27524249 TCAAAACTTTGTTTTAGAATTTTAAACTTTTCCTTTAAATGACTAAAAATCATATTTTTATTTTT
66 TCAAAACTTTGTTTTAGAAATTTAAACTTTTCCTTTAAATGACTAAAAAACATATTTTTATTTTT
27524314 AAAAATCTAAACTTTCTCTT
131 AAAAATCTAAACTTTCTC-T
* *
27524334 TTTTTTTTAAAAAAATCGCTATTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAACG
1 TTTTTTTT-AAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAACG
* *
27524399 ATCAATACTTTGTTTT-GAAAATTTAAACTTTTTCTTTTAAAATGACTAAAAAACATATTTTTAT
65 ATCAAAACTTTGTTTTAG-AAATTTAAAC-TTTTCCTTT-AAATGACTAAAAAACATATTTTTAT
27524463 TTTTAAAAATCTAAACTTTCTCT
127 TTTTAAAAATCTAAACTTTCTCT
** **
27524486 TTTTTGAATAAAAAATCAAAACTTTTCT
1 TTTTT-TTTAAAAAATCACTACTTTTCT
27524514 CAAGATCAAG
Statistics
Matches: 157, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
150 8 0.05
151 73 0.46
152 29 0.18
153 47 0.30
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (149 bp):
TTTTTTTTAAAAAATCACTACTTTTCTTAAAAATCAAAACTTTATTTCGAAATAGTTGAAAACGA
TCAAAACTTTGTTTTAGAAATTTAAACTTTTCCTTTAAATGACTAAAAAACATATTTTTATTTTT
AAAAATCTAAACTTTCTCT
Found at i:27527912 original size:22 final size:22
Alignment explanation
Indices: 27527882--27527924 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
27527872 ACACCAAAAC
*
27527882 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
27527904 AGGCCTTTAGCGGCGCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
27527925 AGCGCCGCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.21, G:0.28, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:27528112 original size:43 final size:43
Alignment explanation
Indices: 27528018--27528605 Score: 601
Period size: 43 Copynumber: 13.3 Consensus size: 43
27528008 TTTTAGAAAT
27528018 AAACGCCGCTAAAGAACC-AGACCTTTAGCGGCG-TTTTCCCAC
1 AAACGCCGCTAAAG-ACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
27528060 AAACGCCGCTAAAGACCAAGACCTTTAGCTGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * *
27528103 AAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
27528146 AAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
27528189 AAACGCCACTAAAAACCAAGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
** ** *
27528232 AAACGCCGCTAAATCCCGCAA-ACCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCAC
1 AAACGCCGCTAAA-GAC-CAAGA--C-CTTTAG--C--G-GC---------GCTTTTCCCAC
* * * *
27528293 AAACGCCACTAAAAACCAAGACCTTTAGCGGCACTTTTTCCA-
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
27528335 ACAACGCCGCTAAAGACCAAGACCTTGAGCTGCGCTTTTCCCAC
1 A-AACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
27528379 AACCGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCGC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
27528422 AAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * *
27528465 AAACGCCACTAAAAACCAAGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
*
27528508 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCAC
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * ** *
27528551 AAACGCCGCTATAGATCAA-ACCTTTAACGGCGCTTCTAGCAA
1 AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
27528593 AAACGCCGCTAAA
1 AAACGCCGCTAAA
27528606 AACATAACCT
Statistics
Matches: 455, Mismatches: 67, Indels: 48
0.80 0.12 0.08
Matches are distributed among these distances:
41 3 0.01
42 60 0.13
43 344 0.76
44 3 0.01
45 3 0.01
46 1 0.00
47 4 0.01
49 1 0.00
51 1 0.00
52 2 0.00
53 1 0.00
55 1 0.00
57 4 0.01
58 1 0.00
59 3 0.01
60 2 0.00
61 21 0.05
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:27528293 original size:61 final size:62
Alignment explanation
Indices: 27528183--27528305 Score: 167
Period size: 61 Copynumber: 2.0 Consensus size: 62
27528173 GAGGCGCTTT
* * *
27528183 TCCCACAAACGCCACTAAAAACCAAGACCTTTAGCGGCACTTTTTCCACAAACGCCGCTAAA
1 TCCCACAAACGCCACTAAAAACCAAGACCTTTAGAGGCACTTTTCCCACAAACGCCACTAAA
* * * * *
27528245 TCCCGCAAAC-CCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAA
1 TCCCACAAACGCCACTAAAAACCAAGACCTTTAGAGGCACTTTTCCCACAAACGCCACTAAA
27528306 AACCAAGACC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
61 44 0.83
62 9 0.17
ACGTcount: A:0.33, C:0.36, G:0.13, T:0.18
Consensus pattern (62 bp):
TCCCACAAACGCCACTAAAAACCAAGACCTTTAGAGGCACTTTTCCCACAAACGCCACTAAA
Found at i:27528331 original size:104 final size:105
Alignment explanation
Indices: 27528140--27528348 Score: 395
Period size: 104 Copynumber: 2.0 Consensus size: 105
27528130 GCGGCGCTTC
27528140 TCCCGCAAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAAC
1 TCCCGCAAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAAC
27528205 CAAGACCTTTAGCGGCACTTTTTCC-ACAAACGCCGCTAAA
66 CAAGACCTTTAGCGGCACTTTTTCCAAC-AACGCCGCTAAA
27528245 TCCCGCAAAC-CCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAAC
1 TCCCGCAAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAAC
27528309 CAAGACCTTTAGCGGCACTTTTTCCAACAACGCCGCTAAA
66 CAAGACCTTTAGCGGCACTTTTTCCAACAACGCCGCTAAA
27528349 GACCAAGACC
Statistics
Matches: 103, Mismatches: 0, Indels: 3
0.97 0.00 0.03
Matches are distributed among these distances:
104 91 0.88
105 12 0.12
ACGTcount: A:0.32, C:0.34, G:0.15, T:0.19
Consensus pattern (105 bp):
TCCCGCAAACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAAC
CAAGACCTTTAGCGGCACTTTTTCCAACAACGCCGCTAAA
Found at i:27528344 original size:233 final size:233
Alignment explanation
Indices: 27528018--27528477 Score: 647
Period size: 233 Copynumber: 2.0 Consensus size: 233
27528008 TTTTAGAAAT
* * *
27528018 AAACGCCGCTAAAGAACCAGACCTTTAGCGGCGTTTTCCCACAAACGCCGCTAAAGACCAAGACC
1 AAACGCCGCTAAAGAACCAGACCTTTAGAGGCGTTTTCCCACAAACGCCACTAAAAACCAAGACC
* * * * *
27528083 TTTAGCTGCGCTTTTCCCACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCGCAA
66 TTTAGCGGCACTTTTCCAACAAACGCCGCTAAAGAACAAGACCTTGAGCGGCGCTTCTCCCACAA
* * *
27528148 ACGCCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAACCAAGACCT
131 ACGCCGCTAAAGAACAAGACCTTTAGAGGCGCTTCTCCCACAAACGCCACTAAAAACCAAGACCT
* * *
27528213 TTAGCGGCACTTTTTCCACAAACGCCGCTAAATCCCGC
196 TTAGAGGCACTTTTCCCACAAACGCCACTAAATCCCGC
*
27528251 AAAC-CCGCTAAAG-ACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAACCAAGA
1 AAACGCCGCTAAAGAACC-AGACCTTTAGAGGCG-TTTTCCCACAAACGCCACTAAAAACCAAGA
* * *
27528314 CCTTTAGCGGCACTTTTTCCAAC-AACGCCGCTAAAGACCAAGACCTTGAGCTGCGCTTTTCCCA
64 CCTTTAGCGGCAC-TTTTCCAACAAACGCCGCTAAAGAACAAGACCTTGAGCGGCGCTTCTCCCA
* * * * *
27528378 CAACCGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCGCAAACGCCGCTAAAGACCAAGA
128 CAAACGCCGCTAAAGAACAAGACCTTTAGAGGCGCTTCTCCCACAAACGCCACTAAAAACCAAGA
* *
27528443 CCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAA
193 CCTTTAGAGGCACTTTTCCCACAAACGCCACTAAA
27528478 AACCAAGACC
Statistics
Matches: 199, Mismatches: 25, Indels: 6
0.87 0.11 0.03
Matches are distributed among these distances:
231 3 0.02
232 22 0.11
233 166 0.83
234 8 0.04
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.19
Consensus pattern (233 bp):
AAACGCCGCTAAAGAACCAGACCTTTAGAGGCGTTTTCCCACAAACGCCACTAAAAACCAAGACC
TTTAGCGGCACTTTTCCAACAAACGCCGCTAAAGAACAAGACCTTGAGCGGCGCTTCTCCCACAA
ACGCCGCTAAAGAACAAGACCTTTAGAGGCGCTTCTCCCACAAACGCCACTAAAAACCAAGACCT
TTAGAGGCACTTTTCCCACAAACGCCACTAAATCCCGC
Found at i:27528379 original size:147 final size:148
Alignment explanation
Indices: 27528097--27528391 Score: 396
Period size: 147 Copynumber: 2.0 Consensus size: 148
27528087 GCTGCGCTTT
* * * *
27528097 TCCCACAAACGCCGCTAAAGAACAAGACCTTTAGCGGCGCTTCTCCCGCAAACGCCGCTAAAGAC
1 TCCCACAAACGCCGCTAAAGAACAAGACCTTTAGAGGCGCTTCTCCCACAAACGCCACTAAAAAC
* * * *
27528162 CAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAACCAAGACCTTTAGCGGCACTTTT
66 CAAGACCTTTAGAGGCACTTTTCCAACAAACGCCACTAAAAACCAAGACCTTGAGCGGCACTTTT
*
27528227 TCCACAAACGCCGCTAAA
131 CCCACAAACGCCGCTAAA
* * * *
27528245 TCCCGCAAAC-CCGCTAAAGACCAAGACCTTTTGAGGCGCTTTTCCCACAAACGCCACTAAAAAC
1 TCCCACAAACGCCGCTAAAGAACAAGACCTTTAGAGGCGCTTCTCCCACAAACGCCACTAAAAAC
* * * * *
27528309 CAAGACCTTTAGCGGCACTTTTTCCAAC-AACGCCGCTAAAGACCAAGACCTTGAGCTGCGCTTT
66 CAAGACCTTTAGAGGCAC-TTTTCCAACAAACGCCACTAAAAACCAAGACCTTGAGCGGCACTTT
*
27528373 TCCCACAACCGCCGCTAAA
130 TCCCACAAACGCCGCTAAA
27528392 GAACAAGACC
Statistics
Matches: 127, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
147 110 0.87
148 17 0.13
ACGTcount: A:0.31, C:0.35, G:0.16, T:0.19
Consensus pattern (148 bp):
TCCCACAAACGCCGCTAAAGAACAAGACCTTTAGAGGCGCTTCTCCCACAAACGCCACTAAAAAC
CAAGACCTTTAGAGGCACTTTTCCAACAAACGCCACTAAAAACCAAGACCTTGAGCGGCACTTTT
CCCACAAACGCCGCTAAA
Found at i:27534253 original size:41 final size:41
Alignment explanation
Indices: 27534196--27534463 Score: 405
Period size: 41 Copynumber: 6.5 Consensus size: 41
27534186 NNNNNNNNNN
* *
27534196 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTCTC
* *
27534237 AAAAACGTCGCTAAAGATCTGAGTATTAGCGGCGCTTTCTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTCTC
* * *
27534278 AAAAACG-CGACTAAAGATCTGAGCATTAGCGTCGCTTTTTT
1 AAAAACGCCG-CTAAAGATCTGAGCATTAGCGGCGCTTTCTC
*
27534319 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCTCTTTCTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTCTC
*
27534360 AAAAATGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTCTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTCTC
*
27534401 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTTTTTC
1 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGC--TTTCTC
27534444 -AAAACGCCGCTAAAGATCTG
1 AAAAACGCCGCTAAAGATCTG
27534464 TAAGGTTCAA
Statistics
Matches: 207, Mismatches: 16, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
40 2 0.01
41 178 0.86
42 22 0.11
43 5 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTTCTC
Found at i:27534546 original size:40 final size:41
Alignment explanation
Indices: 27534496--27534591 Score: 117
Period size: 39 Copynumber: 2.4 Consensus size: 41
27534486 GGGCTTAGAC
27534496 TTTTT-GCGGCGTTTTTCCAAAAAACGCCGCTAATGAT-AA
1 TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGATCAA
* * * * *
27534535 TTTTTAGCGGCG-CTTTCCTAGAAACGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGATCAA
*
27534575 TTTTTAGTGGCGTTTTT
1 TTTTTAGCGGCGTTTTT
27534592 TGTCCAAACG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 26 0.55
40 18 0.38
41 3 0.06
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTTTCCAAAAAACGCCGCTAATGATCAA
Found at i:27540637 original size:137 final size:138
Alignment explanation
Indices: 27540372--27540640 Score: 321
Period size: 137 Copynumber: 2.0 Consensus size: 138
27540362 GACATGTCAT
* ** ** * *
27540372 TAGGATTACCATGTTTCGGGTGCTAGTCTTGAATGTCCTACCGGTGGCTGATTTTCGGCATGTGT
1 TAGGATTACCATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCATGTGT
* * **
27540437 TGCGAATACTTAACAGCCTGTGTGAGCAACACCGTGTAGCTACGTTCCGACCGGTAGCTTGTGTG
66 TGCGAATACTCAACAGCCTGTGTGAGCAACACCGTGTAGCTACATTCCGACCGACAGCTTGTGTG
27540502 AGAAAACC
131 AGAAAACC
*
27540510 TAGG-TTACTATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCAT-TAG
1 TAGGATTACCATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCATGT-G
* * * * * *
27540573 TTGC-AGATACTCGATAGCTTGTGTGAGCAGCATCGTGTAGCTTACATTCTGACCGACAGC-TGT
65 TTGCGA-ATACTCAACAGCCTGTGTGAGCAACACCGTGTAGC-TACATTCCGACCGACAGCTTGT
27540636 GTGAG
128 GTGAG
27540641 CAGTCCCATT
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
136 2 0.02
137 90 0.82
138 18 0.16
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.30
Consensus pattern (138 bp):
TAGGATTACCATGTATCGGGTGCTAGTCTTGAATGTCCTACCAATGGCTGAGGTCCAGCATGTGT
TGCGAATACTCAACAGCCTGTGTGAGCAACACCGTGTAGCTACATTCCGACCGACAGCTTGTGTG
AGAAAACC
Found at i:27546211 original size:35 final size:35
Alignment explanation
Indices: 27546160--27546230 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
27546150 ATATACAACA
27546160 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
*
27546195 AAATTGATTATCTATGTTAAATTTTATAAATTAAT
1 AAATCGATTATCTATGTTAAATTTTATAAATTAAT
27546230 A
1 A
27546231 TCTATTTAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.46
Consensus pattern (35 bp):
AAATCGATTATCTATGTTAAATTTTATAAATTAAT
Found at i:27546215 original size:26 final size:25
Alignment explanation
Indices: 27546186--27546239 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
27546176 TTAAATTTTA
*
27546186 TAAA-TTAATAAATTGATTATCTATGT
1 TAAATTTAATAAATT-AATATCTAT-T
*
27546212 TAAATTTTATAAATTAATATCTATT
1 TAAATTTAATAAATTAATATCTATT
27546237 TAA
1 TAA
27546240 TCATTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.16
26 12 0.48
27 9 0.36
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (25 bp):
TAAATTTAATAAATTAATATCTATT
Found at i:27555288 original size:12 final size:12
Alignment explanation
Indices: 27555271--27555297 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27555261 ACAGATTAAA
27555271 ATGGTTCAAAAG
1 ATGGTTCAAAAG
27555283 ATGGTTCAAAAG
1 ATGGTTCAAAAG
27555295 ATG
1 ATG
27555298 AGGAAAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.26, T:0.26
Consensus pattern (12 bp):
ATGGTTCAAAAG
Found at i:27555482 original size:20 final size:21
Alignment explanation
Indices: 27555450--27555492 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
27555440 AAACAAACCC
27555450 TTTCATTCTTTCA-AAAAATT
1 TTTCATTCTTTCATAAAAATT
*
27555470 TTTCAATTC-TTCATATAAATT
1 TTTC-ATTCTTTCATAAAAATT
27555491 TT
1 TT
27555493 CTAAAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTCATTCTTTCATAAAAATT
Found at i:27563598 original size:20 final size:20
Alignment explanation
Indices: 27563560--27563632 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
27563550 CATACAAAGG
* **
27563560 CACCATAGTGCAATTAGAGA
1 CACCAAAGTGCAAACAGAGA
* * * *
27563580 CACGAAAGTGTATACAGAGG
1 CACCAAAGTGCAAACAGAGA
*
27563600 CACCAAAGTGCAAACAGAGT
1 CACCAAAGTGCAAACAGAGA
27563620 CACCAAAGTGCAA
1 CACCAAAGTGCAA
27563633 GTCCCGTACA
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.42, C:0.22, G:0.22, T:0.14
Consensus pattern (20 bp):
CACCAAAGTGCAAACAGAGA
Found at i:27563628 original size:40 final size:40
Alignment explanation
Indices: 27563551--27563629 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
27563541 ATCAAATGCC
* ** *
27563551 ATACAAAGGCACCATAGTGCAATTAGAGACACGAAAGTGT
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
* *
27563591 ATACAGAGGCACCAAAGTGCAAACAGAGTCACCAAAGTG
1 ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTG
27563630 CAAGTCCCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.14
Consensus pattern (40 bp):
ATACAAAGGCACCAAAGTGCAAACAGAGACACCAAAGTGT
Found at i:27564139 original size:20 final size:20
Alignment explanation
Indices: 27564114--27564162 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
27564104 AACATTTAAA
27564114 TTTACATTTTGA-CCTAAACT
1 TTTACATTTT-ACCCTAAACT
*
27564134 TTTACACATTTACCCTAAACT
1 TTTACA-TTTTACCCTAAACT
27564155 TTTACATT
1 TTTACATT
27564163 GTATCCAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 8 0.32
21 17 0.68
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTACATTTTACCCTAAACT
Found at i:27571245 original size:32 final size:32
Alignment explanation
Indices: 27571209--27571275 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
27571199 TGGTCTTACG
*
27571209 CCATATACCATCGTCATAGCAAGTACTTTATA
1 CCATATACCATCATCATAGCAAGTACTTTATA
*
27571241 CCATATACCGTCATCATAGCAAGTACTTTATA
1 CCATATACCATCATCATAGCAAGTACTTTATA
27571273 CCA
1 CCA
27571276 GACTATCATA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.27, G:0.09, T:0.30
Consensus pattern (32 bp):
CCATATACCATCATCATAGCAAGTACTTTATA
Found at i:27577231 original size:20 final size:20
Alignment explanation
Indices: 27577206--27577243 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27577196 CAAATATAAA
* *
27577206 AGTCCAAATAAAATAACATC
1 AGTCCAAAAAAAAAAACATC
27577226 AGTCCAAAAAAAAAAACA
1 AGTCCAAAAAAAAAAACA
27577244 AATAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.18, G:0.05, T:0.13
Consensus pattern (20 bp):
AGTCCAAAAAAAAAAACATC
Found at i:27578133 original size:21 final size:21
Alignment explanation
Indices: 27578092--27578137 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27578082 TTTGGTTCGT
*
27578092 TTTTTTAATTCCATTTTTTTA
1 TTTTTTAATTCCATTTGTTTA
*
27578113 TTTTTTAATT-TATCTTGTTTA
1 TTTTTTAATTCCAT-TTGTTTA
27578134 TTTT
1 TTTT
27578138 GAATATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTAATTCCATTTGTTTA
Found at i:27578477 original size:16 final size:17
Alignment explanation
Indices: 27578456--27578501 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
27578446 TTTTTATATG
27578456 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
27578472 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
27578488 TTATTTTAAAATTT
1 TTATTTTAAAATTT
27578502 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:27578574 original size:26 final size:26
Alignment explanation
Indices: 27578535--27578622 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
27578525 TTTTTTTAAA
*
27578535 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* *
27578561 TTATGTTAAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
27578588 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
27578614 TTATTTTAA
1 TTATTTTAA
27578623 AATTATTCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:27578625 original size:15 final size:17
Alignment explanation
Indices: 27578593--27578627 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
27578583 TTATTTTATT
27578593 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
27578610 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
27578625 TTA
1 TTA
27578628 TTCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:27582650 original size:20 final size:20
Alignment explanation
Indices: 27582625--27582662 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
27582615 CAAATATAAA
* *
27582625 AGTCCAAATAAAATAACATC
1 AGTCCAAAAAAAAAAACATC
27582645 AGTCCAAAAAAAAAAACA
1 AGTCCAAAAAAAAAAACA
27582663 AATAACTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.63, C:0.18, G:0.05, T:0.13
Consensus pattern (20 bp):
AGTCCAAAAAAAAAAACATC
Found at i:27583885 original size:16 final size:17
Alignment explanation
Indices: 27583864--27583909 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
27583854 TTTTTATATG
27583864 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
27583880 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
27583896 TTATTTTAAAATTT
1 TTATTTTAAAATTT
27583910 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:27583982 original size:26 final size:26
Alignment explanation
Indices: 27583943--27584030 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
27583933 TTTTTTTAAA
*
27583943 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* *
27583969 TTATGTTAAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
27583996 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
27584022 TTATTTTAA
1 TTATTTTAA
27584031 AATTATTCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:27584033 original size:15 final size:17
Alignment explanation
Indices: 27584001--27584035 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
27583991 TTATTTTATT
27584001 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
27584018 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
27584033 TTA
1 TTA
27584036 TTCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:27584632 original size:17 final size:18
Alignment explanation
Indices: 27584599--27584637 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
27584589 TGCTCTTAAG
*
27584599 TGTATTGTATTGCTTATT
1 TGTATTGTATTGATTATT
27584617 TGTATT-TATTGATTATT
1 TGTATTGTATTGATTATT
27584634 TGTA
1 TGTA
27584638 GCTCATTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.21, C:0.03, G:0.15, T:0.62
Consensus pattern (18 bp):
TGTATTGTATTGATTATT
Found at i:27588836 original size:25 final size:27
Alignment explanation
Indices: 27588811--27588864 Score: 72
Period size: 29 Copynumber: 1.9 Consensus size: 27
27588801 GCATTTATTT
27588811 TGAGCAAATATTCTTTCATTCTTTTTATA
1 TGAGCAAATATTCTTTCATTC-TTTT-TA
* *
27588840 TGAGTAATTATTCTTTCATTCTTTT
1 TGAGCAAATATTCTTTCATTCTTTT
27588865 GGATATTTTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (27 bp):
TGAGCAAATATTCTTTCATTCTTTTTA
Found at i:27592089 original size:139 final size:138
Alignment explanation
Indices: 27591924--27592409 Score: 586
Period size: 139 Copynumber: 3.5 Consensus size: 138
27591914 ATATCAAACT
* * * *
27591924 TTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATACCAATCTTATCTCCCTGAAGTTGCAAT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
27591989 GGAGCGGATTAAAATGACAAATCCTATACCTCTAAAGTTACAGTAGGTCGGATCAAATTCACCAA
66 GGAGCGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
27592054 CGCCAAATC
131 -GCCAAATC
* * *
27592063 TTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACTAATCCTATCTCTCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
27592128 GAAGCTGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGTTCGGATCAAATTCACCAA
66 GGAGCGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
27592193 TGCC-AATCC
131 -GCCAAAT-C
* * * * * **
27592202 TTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAGCTACTAATCCTATCTCCCTGAAATTTTAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
* * *
27592267 GGAGCGGATTAAAA-CAATGAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATTAAA-TCTACC
66 GGAGCGGATTAAAATGAA-AAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTC-ACC
* *
27592330 ATA-ACAAGTC
129 A-AGCCAAATC
* * * * * * *
27592340 TTATATCCTTGAAGTTACAGTGGAGCAGATTGAAGCCACC-AGCCTTATCTCCCTAAAGTTGTAG
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCC-TATCTCCCTGAAGTTGCAG
27592404 TGGAGC
65 TGGAGC
27592410 AGGTTGGAGA
Statistics
Matches: 299, Mismatches: 42, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
137 3 0.01
138 63 0.21
139 232 0.78
140 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (138 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACCAATCCTATCTCCCTGAAGTTGCAGT
GGAGCGGATTAAAATGAAAAATCCTATACCTCTGAAGTTGCAGTAGGTCGGATCAAATTCACCAA
GCCAAATC
Found at i:27592127 original size:44 final size:44
Alignment explanation
Indices: 27592059--27592502 Score: 184
Period size: 44 Copynumber: 9.8 Consensus size: 44
27592049 ACCAACGCCA
* *
27592059 AATCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTACT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * ** **
27592103 AATCCTATCTCTCTGAAGTTGCAGTGAAGCTGATT-AAAATGAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT-ACT
* * * * * * *
27592147 AATCCTATAC-CTCTGAAGTTGCAGTAGTTCGGATCAAATTCACCA-ATGCC
1 AATCCTAT-CTCCCTGAAGTTGC---AG-T-GGAGCAGATTGA--AGCTACT
* * *
27592197 AATCCTTATCTCACTGAAGTTGCAGTGGAGTAGATTAAAGCTACT
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* ** * * * *
27592242 AATCCTATCTCCCTGAAATTTTAGTGGAGCGGATTAAAAC-AAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * *
27592285 GAATCCTATAC-CTCTGAAGTTGCAGTAGG-TCGGATTAAATCTACCAT
1 -AATCCTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGCTA-C-T
* * * * *
27592332 AACAAGTCTTATATCCTTGAAGTTACAGTGGAGCAGATTGAAGCCAC-
1 ---AA-TCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * * * * * *
27592379 CAGCCTTATCTCCCTAAAGTTGTAGTGGAGCAGGTTGGAGATACC
1 AATCC-TATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * *
27592424 AATCTTATATCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTTCT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
* * * *
27592468 AATCCTA-CTTCCCTGAGGATGCAATGGAGTAGATT
1 AATCCTATC-TCCCTGAAGTTGCAGTGGAGCAGATT
27592503 AAAACAATGA
Statistics
Matches: 294, Mismatches: 79, Indels: 54
0.69 0.19 0.13
Matches are distributed among these distances:
43 6 0.02
44 198 0.67
45 14 0.05
46 8 0.03
47 4 0.01
48 3 0.01
49 11 0.04
50 33 0.11
51 16 0.05
52 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACT
Found at i:27593670 original size:21 final size:21
Alignment explanation
Indices: 27593629--27593674 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
27593619 TTTGGTTCGT
*
27593629 TTTTTTAATTCCATTTTTTTA
1 TTTTTTAATTCCATTTGTTTA
*
27593650 TTTTTTAATT-TATCTTGTTTA
1 TTTTTTAATTCCAT-TTGTTTA
27593671 TTTT
1 TTTT
27593675 GAATATTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.74
Consensus pattern (21 bp):
TTTTTTAATTCCATTTGTTTA
Found at i:27594014 original size:16 final size:17
Alignment explanation
Indices: 27593993--27594038 Score: 69
Period size: 16 Copynumber: 2.8 Consensus size: 17
27593983 TTTTTATATG
27593993 TTATTTTAAAATTTG-T
1 TTATTTTAAAATTTGTT
*
27594009 TTATTTT-TAATTTGTT
1 TTATTTTAAAATTTGTT
27594025 TTATTTTAAAATTT
1 TTATTTTAAAATTT
27594039 CTCTTATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 6 0.23
16 15 0.58
17 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (17 bp):
TTATTTTAAAATTTGTT
Found at i:27594111 original size:26 final size:26
Alignment explanation
Indices: 27594072--27594159 Score: 104
Period size: 26 Copynumber: 3.3 Consensus size: 26
27594062 TTTTTTTAAA
*
27594072 TTATTTTAACTTGCTTTGTAAATTAT
1 TTATTTTAAGTTGCTTTGTAAATTAT
* *
27594098 TTATGTTAAGTTGCTTTGTATATTATT
1 TTATTTTAAGTTGCTTTGTAAATTA-T
** * *
27594125 TTATTTTAAGTTATTTTATAAATTAA
1 TTATTTTAAGTTGCTTTGTAAATTAT
27594151 TTATTTTAA
1 TTATTTTAA
27594160 AATTATTCTA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
26 31 0.60
27 21 0.40
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.59
Consensus pattern (26 bp):
TTATTTTAAGTTGCTTTGTAAATTAT
Found at i:27594162 original size:15 final size:17
Alignment explanation
Indices: 27594130--27594164 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
27594120 TTATTTTATT
27594130 TTAAGTTATTTTATAAA
1 TTAAGTTATTTTATAAA
27594147 TTAA-TTATTTTA-AAA
1 TTAAGTTATTTTATAAA
27594162 TTA
1 TTA
27594165 TTCTATACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 8 0.44
17 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TTAAGTTATTTTATAAA
Found at i:27594763 original size:17 final size:18
Alignment explanation
Indices: 27594725--27594768 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
27594715 ATTATTACTC
* *
27594725 TTATGTGTATTGTATTGC
1 TTATTTGTATTGTATTGA
27594743 TTATTTGTATT-TATTGA
1 TTATTTGTATTGTATTGA
27594760 TTATTTGTA
1 TTATTTGTA
27594769 GTTCATTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 14 0.58
18 10 0.42
ACGTcount: A:0.20, C:0.02, G:0.16, T:0.61
Consensus pattern (18 bp):
TTATTTGTATTGTATTGA
Found at i:27597451 original size:25 final size:25
Alignment explanation
Indices: 27597418--27597487 Score: 140
Period size: 25 Copynumber: 2.8 Consensus size: 25
27597408 TGGAGGGATT
27597418 TTTATTTAATATTAATATAATTATA
1 TTTATTTAATATTAATATAATTATA
27597443 TTTATTTAATATTAATATAATTATA
1 TTTATTTAATATTAATATAATTATA
27597468 TTTATTTAATATTAATATAA
1 TTTATTTAATATTAATATAA
27597488 ATATTACTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTATTTAATATTAATATAATTATA
Found at i:27597458 original size:31 final size:32
Alignment explanation
Indices: 27597423--27597499 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
27597413 GGATTTTTAT
27597423 TTAATATTAATATAATTATATTT-AT-TTAATA
1 TTAATATTAATATAATT-TATTTAATATTAATA
27597454 TTAATA-TAAT-TATATTTATTTAATATTAATA
1 TTAATATTAATATA-ATTTATTTAATATTAATA
* *
27597485 TAAATATTACTATAA
1 TTAATATTAATATAA
27597500 AATTTNNNNN
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
29 7 0.18
30 9 0.23
31 17 0.44
32 4 0.10
33 2 0.05
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (32 bp):
TTAATATTAATATAATTTATTTAATATTAATA
Found at i:27598836 original size:20 final size:21
Alignment explanation
Indices: 27598799--27598841 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 21
27598789 ATCTTCAATG
*
27598799 ATTTTCAATTAAAAATAATAA
1 ATTTTCAATTAAAAATAAAAA
**
27598820 ATTTT-AATTAATTATAAAAA
1 ATTTTCAATTAAAAATAAAAA
27598840 AT
1 AT
27598842 ACTTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTTCAATTAAAAATAAAAA
Found at i:27601097 original size:18 final size:18
Alignment explanation
Indices: 27601076--27601110 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27601066 TAGAGTTTGA
*
27601076 AAATATATAAAAAGATAC
1 AAATAAATAAAAAGATAC
*
27601094 AAATAAATAAAACGATA
1 AAATAAATAAAAAGATA
27601111 TAATAAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.06, G:0.06, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAGATAC
Found at i:27602753 original size:44 final size:44
Alignment explanation
Indices: 27602690--27603813 Score: 561
Period size: 44 Copynumber: 24.9 Consensus size: 44
27602680 TTTAATCTAT
* ** *
27602690 TCCACTACAACTTTTGGGAGATAATATTAGTATCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAATCTGC
* * * * * *
27602734 TCCACTACATCTTTAGGGAGATAAGATTAATAACTT-TATCCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAAT-CTGC
* * * * *
27602778 TCCACTGTATCTTCAGGGAGATAAAATTTA-TAGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATCTGC
* * * * * *
27602822 TCTACTGCAGCTTCAGAGAGATAAGATTTGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTCAATCTGC
* * * * *
27602867 TCCACTGCAACTTCAGGGAGATAAGGTT--T-GCTAT-GATTTGT
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCT-TCAATCTGC
* * * * * *
27602908 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATATGT
1 TCCACTGCAACTTCAGGGAGATAAGA--T-T-A-GTAT--CTTCAATCTGC
* * *
27602959 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTCAATCTGC
* * *
27603004 TCCACTGCAACTTCAGGAAGATAAGACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATCTGC
* *
27603048 TCCACTGCAACTTTAGGGAGATAA-AGTT--TA-CTAT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCT-TCAATCTGC
** * * * *
27603089 TTTACTGCAACTTCAGAGAGATAAGATCTA-TAATTTATAGCTGTAATATGT
1 TCCACTGCAACTTCAGGGAGATAAGAT-TAGT-ATCT-T--C---AATCTGC
* * * * * * *
27603140 TCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTCAATCTGC
* * *
27603185 TCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATCTGC
* * * *
27603229 TCCACTGTAACTTCAGGGAGATAAAACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATCTGC
* * *
27603273 TCCACTGCAACTTCAGGGAGATAAAACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATCTGC
* * *
27603317 TCCACTGTAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATCTGC
* * * * *
27603361 TCCACTGCAACTTTAGAGAGATAAGGTTTACAACTTGTAGCTTCAATCTGG
1 TCCACTGCAACTTCAGGGAGATAA-GATT---A---GTATCTTCAATCTGC
** * * * * *
27603412 TCCGTTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTCAATCTGC
* * *
27603457 TCCGCTGCAACTTTAGGGAGATAAGACTT-GTAACTTCAA-CTTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-TTAGTATCTTCAATC-TGC
* ** * * * *
27603501 TACACTTTAACTTCAGGGAGATAAGGTTTG-AT-AT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAATCTGC
* * * * *
27603542 TCTACTGCAACTTCAGAGAGATAAGATCTATTATTTATAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAG----ATTA-GTAT--CTTCAATCTGC
* * * * **
27603593 TCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTTCAGGCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAG-TATCTTCAATCTGC
* * * *
27603638 TCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAATCTGC
* * * *
27603682 TCCACTGCAACTTCAGGGAGATAAGGTTTG-AT-AT-GATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAATCTGC
* * * *
27603723 TCTACTGCAACTTTAGAGAGATAAGATCTAGAATTTATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGAT-TAG----TAT--CTTCAATCTGC
* * **
27603774 TCCACTGCAACTTTAGGGAGATAAGACTAGTGGCTTCAAT
1 TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAAT
27603814 GACCTGTTAC
Statistics
Matches: 834, Mismatches: 178, Indels: 136
0.73 0.16 0.12
Matches are distributed among these distances:
41 106 0.13
42 12 0.01
43 14 0.02
44 356 0.43
45 168 0.20
46 7 0.01
47 13 0.02
48 2 0.00
49 1 0.00
50 11 0.01
51 143 0.17
52 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTCAATCTGC
Found at i:27602929 original size:41 final size:42
Alignment explanation
Indices: 27602821--27602934 Score: 133
Period size: 45 Copynumber: 2.7 Consensus size: 42
27602811 CTTTAATCTG
* *
27602821 CTCTACTGCAGCTTCAGAGAGATAAGATTTGCTATCTTCAGT
1 CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTCAGT
* * *
27602863 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATT-TGT
1 CT-CT--ACTGCAACTTCAGAGAGATAAGATTTGCTAT-ATTCAGT
27602908 -TCTACTGCAACTTCAGAGAGATAAGAT
1 CTCTACTGCAACTTCAGAGAGATAAGAT
27602935 CTGTAATTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 9
0.79 0.09 0.12
Matches are distributed among these distances:
41 22 0.36
42 2 0.03
43 4 0.07
44 1 0.02
45 30 0.49
46 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.32
Consensus pattern (42 bp):
CTCTACTGCAACTTCAGAGAGATAAGATTTGCTATATTCAGT
Found at i:27602992 original size:92 final size:91
Alignment explanation
Indices: 27602867--27603799 Score: 296
Period size: 89 Copynumber: 10.3 Consensus size: 91
27602857 TTCAGTCTAC
* * *
27602867 TCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATTTGTTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATTTGTTCTACTGCAACTTCAGAGAGATAA
27602932 GATCTGTAATTTATAGCTTTAATATGT
66 GATCT-TAATTTATAGCTTTAATATGT
* *
27602959 TCCACTGCAACTTCAGGGAAATAAGATTCGCTAT-CTTCAGTCTGCTCCACTGCAACTTCAG-GA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATT-TGT-T-CT--ACTGCAACTTCAGAG-
* * ** *
27603022 AGATAAGA-C-T--TGTA-A-CTTCAACCTGC
60 AGATAAGATCTTAATTTATAGCTTTAATATGT
* * ** *
27603048 TCCACTGCAACTTTAGGGAGATAA-AGTTTACTATGATCTGCTT-TACTGCAACTTCAGAGAGAT
1 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCTATGATTTG-TTCTACTGCAACTTCAGAGAGAT
*
27603111 AAGATCTATAATTTATAGCTGTAATATGT
64 AAGATCT-TAATTTATAGCTTTAATATGT
* * * * *
27603140 TCCACTACAACTTTAGGGAAATAAGATTCGCTAT-CTTTAGTCTACTCCACTGTAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATTT-GT-T-CT--ACTGCAACTTCAGAGA
* * ** *
27603204 GATAAGA-C-T--TGTA-A-CTTCAACCTGC
61 GATAAGATCTTAATTTATAGCTTTAATATGT
* * * * ** * * *
27603229 TCCACTGTAACTTCAGGGAGATAAAACTT-G-TAACTTCAACCTGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCT-A--T-GATTTGTTCTACTGCAACTTCAGAGA
* * * ** *
27603292 GATAA-AAC-T--TGTA-A-CTTCAACCTGC
61 GATAAGATCTTAATTTATAGCTTTAATATGT
* * * ** * * *
27603317 TCCACTGTAACTTCAGGGAGATAAGACTT-G-TAACTTCAACCTGCTCCACTGCAACTTTAGAGA
1 TCCACTGCAACTTCAGGGAAATAAGA-TTCGCT-A--T-GATTTGTTCTACTGCAACTTCAGAGA
* * * * * *
27603380 GATAAGGT-TTACAACTTGTAGCTTCAATCTGG
61 GATAAGATCTT--AATTTATAGCTTTAATATGT
** * * * * * *
27603412 TCCGTTGCAACTTCAGGGAAATAAGATTCGCTGT-CTTCAGTCTACTCCGCTGCAACTTTAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATT-TGT-T-CT--ACTGCAACTTCAGAGA
* * *
27603476 GATAAGA-C-T--TGTA-A-CTTCAACT-TGC
61 GATAAGATCTTAATTTATAGCTTTAA-TATGT
* ** * * * * * *
27603501 TACACTTTAACTTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATTTGTTCTACTGCAACTTCAGAGAGATAA
* *
27603566 GATCTATTATTTATAGCTTTAATCTGT
66 GATCT-TAATTTATAGCTTTAATATGT
* * * * * *
27603593 TCCACTGCAATTTCAAGGAAATAAGATTCGCTAT-CTTCAGGCTGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATT-----TGTTCTACTGCAACTTCAGAGA
* * ** **
27603657 GATAAGA-C-T-A-GTA-A-CTTCAACCTAC
61 GATAAGATCTTAATTTATAGCTTTAATATGT
* * * * * * *
27603682 TCCACTGCAACTTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTTAGAGAGATAA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATTTGTTCTACTGCAACTTCAGAGAGATAA
* * *
27603747 GATCTAGAATTTATAGCTTCAATCTGT
66 GATCT-TAATTTATAGCTTTAATATGT
* *
27603774 TCCACTGCAACTTTAGGGAGATAAGA
1 TCCACTGCAACTTCAGGGAAATAAGA
27603800 CTAGTGGCTT
Statistics
Matches: 639, Mismatches: 132, Indels: 140
0.70 0.14 0.15
Matches are distributed among these distances:
85 67 0.10
86 4 0.01
87 4 0.01
88 108 0.17
89 136 0.21
90 20 0.03
91 21 0.03
92 136 0.21
93 9 0.01
94 7 0.01
95 37 0.06
96 90 0.14
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (91 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGCTATGATTTGTTCTACTGCAACTTCAGAGAGATAA
GATCTTAATTTATAGCTTTAATATGT
Found at i:27603053 original size:181 final size:181
Alignment explanation
Indices: 27602817--27603253 Score: 653
Period size: 181 Copynumber: 2.4 Consensus size: 181
27602807 ATAGCTTTAA
* * * * ** *
27602817 TCTGCTCTACTGCAGCTTCA-GAGAGATAAGATTTGCTATCTTCAGTCTACTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGA-AGATAAGACTTG-TAACTTCAACCTGCTCCACTGCAACTTC
* * * *
27602881 AGGGAGATAAGGTTTGCTATGATTTG-TTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTTA
64 AGGGAGATAAAGTTTACTATGATCTGCTT-TACTGCAACTTCAGAGAGATAAGATCTATAATTTA
* *
27602945 TAGCTTTAATATGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAG
128 TAGCTGTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
*
27602999 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAG
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
27603064 GGAGATAAAGTTTACTATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAG
66 GGAGATAAAGTTTACTATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAG
* *
27603129 CTGTAATATGTTCCACTACAACTTTAGGGAAATAAGATTCGCTATCTTTAG
131 CTGTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * *
27603180 TCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
27603245 GGAGATAAA
66 GGAGATAAA
27603254 ACTTGTAACT
Statistics
Matches: 232, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 199 0.86
182 31 0.13
183 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (181 bp):
TCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAG
GGAGATAAAGTTTACTATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAG
CTGTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
Found at i:27603239 original size:21 final size:21
Alignment explanation
Indices: 27603213--27603331 Score: 67
Period size: 21 Copynumber: 5.5 Consensus size: 21
27603203 AGATAAGACT
27603213 TGTAACTTCAACCTGCTCCAC
1 TGTAACTTCAACCTGCTCCAC
**** * **
27603234 TGTAACTTCAGGGAGATAAAAC
1 TGTAACTTCAACCTGCT-CCAC
27603256 TTGTAACTTCAACCTGCTCCAC
1 -TGTAACTTCAACCTGCTCCAC
* **** * **
27603278 TGCAACTTCAGGGAGATAAAAC
1 TGTAACTTCAACCTGCT-CCAC
27603300 TTGTAACTTCAACCTGCTCCAC
1 -TGTAACTTCAACCTGCTCCAC
27603322 TGTAACTTCA
1 TGTAACTTCA
27603332 GGGAGATAAG
Statistics
Matches: 64, Mismatches: 30, Indels: 8
0.63 0.29 0.08
Matches are distributed among these distances:
21 33 0.52
22 8 0.12
23 23 0.36
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (21 bp):
TGTAACTTCAACCTGCTCCAC
Found at i:27603483 original size:272 final size:270
Alignment explanation
Indices: 27602959--27603524 Score: 735
Period size: 272 Copynumber: 2.1 Consensus size: 270
27602949 TTTAATATGT
* * * * **
27602959 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAG
1 TCCACTGTAACTTCAGGGAGATAAAATTCGCTAACTTCAACCTGCTCCACTGCAACTTCAGGAAG
* * * * *
27603024 ATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAAGTTTACTATGATCTGC
66 ATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAACTTTACTATAACCTGC
** * * * *
27603089 TTTACTGCAACTTCAGAGAGATAAGATCTATAATTTATAGCTGTAATATGTTCCACTACAACTTT
131 TCCACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTGTAATATGGTCCACTACAACTTC
* *
27603154 AGGGAAATAAGATTCGCTATCTTTAGTCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTAAC
196 AGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
27603219 TTCAACCTGC
261 TTCAACCTGC
*
27603229 TCCACTGTAACTTCAGGGAGATAAAACTT-G-TAACTTCAACCTGCTCCACTGCAACTTCAGGGA
1 TCCACTGTAACTTCAGGGAGATAAAA-TTCGCTAACTTCAACCTGCTCCACTGCAACTTCAGGAA
*
27603292 GATAAAACTTGTAACTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAACT-TCAA
65 GATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAA-ACTT-T-ACTAT-AA
* * * * * ** *
27603356 CCTGCTCCACTGCAACTTTAGAGAGATAAGGTTTACAACTTGTAGCT-TCAATCTGGTCCGTTGC
126 CCTGCTCCACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTGT-AATATGGTCCACTAC
* * *
27603420 AACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTTAGGGAGATAAGACT
190 AACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACT
*
27603485 TGTAACTTCAACTTGC
255 TGTAACTTCAACCTGC
* *
27603501 TACACTTTAACTTCAGGGAGATAA
1 TCCACTGTAACTTCAGGGAGATAA
27603525 GGTTTGATAT
Statistics
Matches: 255, Mismatches: 35, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
269 75 0.29
270 27 0.11
271 5 0.02
272 148 0.58
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (270 bp):
TCCACTGTAACTTCAGGGAGATAAAATTCGCTAACTTCAACCTGCTCCACTGCAACTTCAGGAAG
ATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAACTTTACTATAACCTGC
TCCACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTGTAATATGGTCCACTACAACTTC
AGGGAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTAAC
TTCAACCTGC
Found at i:27603521 original size:453 final size:451
Alignment explanation
Indices: 27602656--27603705 Score: 1329
Period size: 453 Copynumber: 2.3 Consensus size: 451
27602646 CAAATTTAGG
* * * * * * * *
27602656 GAGATAAGATTTATAACTTGTAGCTTTAATCTATTCCACTACAACTTTTGGGAGATAATATTAG-
1 GAGATAAGATCTATAATTTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGC
* * * * * * *
27602720 TATCTTCAATCTGCTCCACTACATCTTTAGGGAGATAAGA-TTAATAACTTTATCCTGCTCCACT
66 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-GTAACTTCAACCTGCTCCACT
* * * * * * * * *
27602784 GTATCTTCAGGGAGATAAAATTTATAGCTTTAATCTGCTCTACTGCAGCTTCAGAGAGATAAGAT
130 GTAACTTCAGGGAGATAAAACTTATAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAAAC
* ** * * * ** * *
27602849 TTGCTATCTTCAGTCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGCTATGATTTGTTCTACT
195 TTGCTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGCTTTACTATAACCTGCTCCACT
** * * *
27602914 GCAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATATGTTCCACTGCAACTTCAGGGAA
260 GCAACTTCAGAGAGATAAGATCTACAACTTATAGCTTCAATATGGTCCACTGCAACTTCAGGGAA
*
27602979 ATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAAC
325 ATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAAC
* * *
27603044 CTGCTCCACTGCAACTTTAGGGAGATAAAGTTT-ACTATGATCTGCTTTACTGCAACTTCAGA
390 CTGCTACACTGCAACTTCAGGGAGATAAAGTTTGA-TATGATCTGCTCTACTGCAACTTCAGA
* *
27603106 GAGATAAGATCTATAATTTATAGCTGTAATATGTTCCACTACAACTTTAGGGAAATAAGATTCGC
1 GAGATAAGATCTATAATTTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGC
* * *
27603171 TATCTTTAGTCTACTCCACTGTAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTG
66 TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTG
* *
27603236 TAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAAACT
131 TAACTTCAGGGAGATAAAACTTATAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAAACT
* *
27603301 TG-TAACTTCAACCTGCTCCACTGTAACTTCAGGGAGATAAGACTTGTAACT-TCAACCTGCTCC
196 TGCTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAG-CTT-T-ACTAT-AACCTGCTCC
* * * * * **
27603364 ACTGCAACTTTAGAGAGATAAGGTTTACAACTTGTAGCTTCAATCTGGTCCGTTGCAACTTCAGG
257 ACTGCAACTTCAGAGAGATAAGATCTACAACTTATAGCTTCAATATGGTCCACTGCAACTTCAGG
* * * *
27603429 GAAATAAGATTCGCTGTCTTCAGTCTACTCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTC
322 GAAATAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTC
* ** *
27603494 AACTTGCTACACTTTAACTTCAGGGAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGA
387 AACCTGCTACACTGCAACTTCAGGGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGA
* * *
27603559 GAGATAAGATCTATTATTTATAGCTTTAATCTGTTCCACTGCAA-TTTCAAGGAAATAAGATTCG
1 GAGATAAGATCTATAATTTATAGCTTTAATCTGTTCCACTACAACTTT-AGGGAAATAAGATTCG
* * *
27603623 CTATCTTCAGGCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACT
65 CTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACT
*
27603688 GCAACTTCAGGGAGATAA
130 GTAACTTCAGGGAGATAA
27603706 GGTTTGATAT
Statistics
Matches: 513, Mismatches: 79, Indels: 13
0.85 0.13 0.02
Matches are distributed among these distances:
450 88 0.17
451 110 0.21
452 7 0.01
453 307 0.60
454 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (451 bp):
GAGATAAGATCTATAATTTATAGCTTTAATCTGTTCCACTACAACTTTAGGGAAATAAGATTCGC
TATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTG
TAACTTCAGGGAGATAAAACTTATAACTTCAACCTGCTCCACTGCAACTTCAGAGAGATAAAACT
TGCTAACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGCTTTACTATAACCTGCTCCACTG
CAACTTCAGAGAGATAAGATCTACAACTTATAGCTTCAATATGGTCCACTGCAACTTCAGGGAAA
TAAGATTCGCTATCTTCAGTCTACTCCACTGCAACTTCAGGAAGATAAGACTTGTAACTTCAACC
TGCTACACTGCAACTTCAGGGAGATAAAGTTTGATATGATCTGCTCTACTGCAACTTCAGA
Found at i:27603649 original size:181 final size:181
Alignment explanation
Indices: 27603269--27603786 Score: 714
Period size: 181 Copynumber: 2.8 Consensus size: 181
27603259 TAACTTCAAC
*
27603269 CTGCTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAACCTGCTCCACTGTAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCAGG
** * * * * * * *
27603334 GAGATAAGACTTG-TAACTTCAACCTGCTCCACTGCAACTTTAGAGAGATAAGGTTTACAACTTG
66 GAGATAAGGTTTGAT-A--T-GATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTA
* ** * * *
27603398 TAGCTTCAATCTGGTCCGTTGCAACTTCAGGGAAATAAGATTCGCTGTCTTCAGT
127 TAGCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGG
* * * * * *
27603453 CTACTCCGCTGCAACTTTAGGGAGATAAGACTTGTAACTTCAACTTGCTACACTTTAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCAGG
* **
27603518 GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTATTTATAGC
66 GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATAGC
* *
27603583 TTTAATCTGTTCCACTGCAATTTCAAGGAAATAAGATTCGCTATCTTCAGG
131 TTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGG
* * *
27603634 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGTAACTTCAACCTACTCCACTGCAACTTCAGG
1 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCAGG
*
27603699 GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTAGAATTTATAGC
66 GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATAGC
27603764 TTCAATCTGTTCCACTGCAACTT
131 TTCAATCTGTTCCACTGCAACTT
27603787 TAGGGAGATA
Statistics
Matches: 292, Mismatches: 41, Indels: 5
0.86 0.12 0.01
Matches are distributed among these distances:
181 220 0.75
182 1 0.00
184 70 0.24
185 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (181 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTGCTCCACTGTAACTTCAGG
GAGATAAGGTTTGATATGATCTGCTCTACTGCAACTTTAGAGAGATAAGATCTACAATTTATAGC
TTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGG
Found at i:27610569 original size:52 final size:52
Alignment explanation
Indices: 27610478--27610722 Score: 144
Period size: 51 Copynumber: 4.5 Consensus size: 52
27610468 TTTCATATAT
* * * ** *
27610478 TGGTGCCGGTCATTGACAGGCCAGCACCT-AAAATTTTTTTTTCCCGTAAAGG
1 TGGTGCCAGCCATTGACAGGCCACCA-CTAAAAAAATATTTTTCCCGTAAAGG
*** *
27610530 TGGTGCCAGCCATTGACAGGCCACCACT-AAAAAA-ATTTTTCTTTTTAAATTTTTTTGTATA
1 TGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATATTTTTC-CCGTAAA-------G---G
* *
27610591 TTGGTG-CAGGCCATTGACAGGCCAGCACTTGAAAAAAA-AATTTTCCCGTAAAGG
1 T-GGTGCCAG-CCATTGACAGGCCACCAC-T-AAAAAAATATTTTTCCCGTAAAGG
* * **
27610645 TGGTGCCGGCCATTGACAGGCCACCAC-AAAAAAAAATTTCCCCCGTAAAGG
1 TGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATATTTTTCCCGTAAAGG
27610696 TGGTGCC-GACCATTGACAGGCCACCAC
1 TGGTGCCAG-CCATTGACAGGCCACCAC
27610723 AATTTTTTTT
Statistics
Matches: 153, Mismatches: 21, Indels: 39
0.72 0.10 0.18
Matches are distributed among these distances:
50 14 0.09
51 48 0.31
52 23 0.15
53 21 0.14
54 3 0.02
57 1 0.01
58 1 0.01
61 4 0.03
62 21 0.14
63 1 0.01
64 4 0.03
65 12 0.08
ACGTcount: A:0.29, C:0.24, G:0.21, T:0.26
Consensus pattern (52 bp):
TGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATATTTTTCCCGTAAAGG
Found at i:27610615 original size:114 final size:115
Alignment explanation
Indices: 27610414--27610678 Score: 374
Period size: 115 Copynumber: 2.3 Consensus size: 115
27610404 ACTATGTTAT
* * *
27610414 AGGTGGTGCCAGCTATTGACAGGCCACCAC-CAAAAATTTTTTTTTTTAAAATTTTTTCATATAT
1 AGGTGGTGCCAGCCATTGACAGGCCACCACAAAAAAATTTTTCTTTTTAAAATTTTTTCATATAT
* * *****
27610478 TGGTGCCGGTCATTGACAGGCCAGCACCT-AAAATTTTTTTTTCCCGTAA
66 TGGTGCAGGCCATTGACAGGCCAGCACCTGAAAAAAAAATTTTCCCGTAA
**
27610527 AGGTGGTGCCAGCCATTGACAGGCCACCACTAAAAAAATTTTTCTTTTT-AAATTTTTTTGTATA
1 AGGTGGTGCCAGCCATTGACAGGCCACCAC-AAAAAAATTTTTCTTTTTAAAATTTTTTCATATA
*
27610591 TTGGTGCAGGCCATTGACAGGCCAGCACTTGAAAAAAAAATTTTCCCGTAA
65 TTGGTGCAGGCCATTGACAGGCCAGCACCTGAAAAAAAAATTTTCCCGTAA
*
27610642 AGGTGGTGCCGGCCATTGACAGGCCACCACAAAAAAA
1 AGGTGGTGCCAGCCATTGACAGGCCACCACAAAAAAA
27610679 AATTTCCCCC
Statistics
Matches: 135, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
113 29 0.21
114 47 0.35
115 59 0.44
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.31
Consensus pattern (115 bp):
AGGTGGTGCCAGCCATTGACAGGCCACCACAAAAAAATTTTTCTTTTTAAAATTTTTTCATATAT
TGGTGCAGGCCATTGACAGGCCAGCACCTGAAAAAAAAATTTTCCCGTAA
Found at i:27610656 original size:53 final size:51
Alignment explanation
Indices: 27610592--27610724 Score: 196
Period size: 51 Copynumber: 2.6 Consensus size: 51
27610582 TTTTGTATAT
* * *
27610592 TGGTGCAGGCCATTGACAGGCCAGCACTTGAAAAAAAAATTT-TCCCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCAC---AAAAAAAAATTTCCCCCGTAAAGG
27610645 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAATTTCCCCCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAATTTCCCCCGTAAAGG
*
27610696 TGGTGCCGACCATTGACAGGCCACCACAA
1 TGGTGCCGGCCATTGACAGGCCACCACAA
27610725 TTTTTTTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
50 12 0.16
51 38 0.51
53 25 0.33
ACGTcount: A:0.32, C:0.27, G:0.23, T:0.17
Consensus pattern (51 bp):
TGGTGCCGGCCATTGACAGGCCACCACAAAAAAAAATTTCCCCCGTAAAGG
Found at i:27610969 original size:114 final size:111
Alignment explanation
Indices: 27610764--27611367 Score: 640
Period size: 111 Copynumber: 5.4 Consensus size: 111
27610754 TGTCGACCTG
* * *
27610764 TTTTTTTCTCGTAAAGGTGGTGTC-AGCCATTCACAGGCCACCACCAAAAAAAAAATATTTTTTT
1 TTTTTTTCCCGTAAAGGTGGTGTCGA-CCATTGACAGGCCACCACC---AAAAAAATTTTTTTTT
* * *
27610828 -AATTTTTTCGTATACTGGTGTCGGCCATTGACAGACCAGCACTAGAAATT
62 AAATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAA-T
* * *
27610878 TTTTTTTTCCGTAAAGGTGGCGTCGACCATAGACAGGCCACCACCAAAAAAATTTATTTTTTAAA
1 TTTTTTTCCCGTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTT-TTTTTT-AA
* * * * *
27610943 ATTTTTTCGTATATTGGTGCCAGCCATTGACAGACTAGCACCCGAAAT
64 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAAT
* * * *
27610991 TTTTTTT-CCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACTAAAAAAAATTGTTTTATT-A
1 TTTTTTTCCCGTAAAGGTGGTGTCGACCATTGACAGGCCACCAC-CAAAAAAATT-TTTTTTTAA
* * *
27611054 ATTTTTTCGTATACTGGTGCCGGGCATTGACAGGCCAGCACCCAAAAAAAA
64 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCA-CC--AGAAAT
* * *
27611105 ATTTTTTCCCTGTAAAGGTGGTGCCGACCATTGACAGGCCACCA-C----TAATTTTTTTTTAAA
1 TTTTTTTCCC-GTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTTTTTTTTAAA
* * *
27611165 TTTTTTCGTATACTAGTGCCAGCCATTGACAGGCCAGCACCTGAAAATT
65 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAG-AAA-T
* * * *
27611214 TTTTTTTCCCTGTAAAAGTGGTGTCGGCCATTGACAGGCCACCGCC---AAAATTTTTTTTTTAA
1 TTTTTTTCCC-GTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTTTTTTTTAAA
* *
27611276 TTTTTTCGTATACTGGTGCCGGCCATTAACAGGCCAGCACCCGAAAT
65 TTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAAT
* * *
27611323 TTTTTTTCCCATAAAGGTGGTG-CTGGCCATTGACAGGCCAGCACC
1 TTTTTTTCCCGTAAAGGTGGTGTC-GACCATTGACAGGCCACCACC
27611368 CGAAAATTTT
Statistics
Matches: 421, Mismatches: 52, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
107 1 0.00
108 32 0.08
109 58 0.14
110 46 0.11
111 97 0.23
112 40 0.10
113 22 0.05
114 90 0.21
115 3 0.01
116 32 0.08
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (111 bp):
TTTTTTTCCCGTAAAGGTGGTGTCGACCATTGACAGGCCACCACCAAAAAAATTTTTTTTTAAAT
TTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCAGAAAT
Found at i:27611289 original size:221 final size:219
Alignment explanation
Indices: 27610764--27611376 Score: 673
Period size: 221 Copynumber: 2.7 Consensus size: 219
27610754 TGTCGACCTG
* * * * * *
27610764 TTTTTTTCTCGTAAAGGTGGTGTCAGCCATTCACAGGCCACCACCAAAAAAAAAATATTTTTTTA
1 TTTTTTTC-CGTAAAAGTGGTGCCGGCCATTGACAGGCCACCA-C---AAAAAATTGTTTTTTTA
* * * * *
27610829 ATTTTTTCGTATACTGGTGTCGGCCATTGACAGACCAGCA-CTAGAAATTTTTTTTTTCCGTAAA
61 ATTTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCA-AAAATTTTTTTTCCCGTAAA
* * * *
27610893 GGTGGCGTCGACCATAGACAGGCCACCACCAAAAAAATTTATTTTTTAAAATTTTTTCGTATATT
125 GGTGGTGCCGACCATTGACAGGCCACCACC---AAAATTTATTTTTTAAAATTTTTTCGTATACT
* *
27610958 GGTGCCAGCCATTGACAGACTAGCACCCGAAAT
187 AGTGCCAGCCATTGACAGACCAGCACCCGAAAT
* *
27610991 TTTTTTTCCGTAAAGGTGGTGCCGGCCATTGACAGGCCACCACTAAAAAAAATTGTTTTATTAAT
1 TTTTTTTCCGTAAAAGTGGTGCCGGCCATTGACAGGCCACCAC---AAAAAATTGTTTTTTTAAT
* **
27611056 TTTTTCGTATACTGGTGCCGGGCATTGACAGGCCAGCACCCAAAAAAAAATTTTTTCCCTGTAAA
63 TTTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCC--AAAAATTTTTTTTCCC-GTAAA
*
27611121 GGTGGTGCCGACCATTGACAGGCCACCA-C-TAATTT-TTTTTT-AAATTTTTTCGTATACTAGT
125 GGTGGTGCCGACCATTGACAGGCCACCACCAAAATTTATTTTTTAAAATTTTTTCGTATACTAGT
* *
27611182 GCCAGCCATTGACAGGCCAGCACCTGAAAATT
190 GCCAGCCATTGACAGACCAGCACCCG-AAA-T
* * * *
27611214 TTTTTTTCCCTGTAAAAGTGGTGTCGGCCATTGACAGGCCACCGC-CAAAATTTTTTTTTTAATT
1 TTTTTTT-CC-GTAAAAGTGGTGCCGGCCATTGACAGGCCACCACAAAAAATTGTTTTTTTAATT
* * *
27611278 TTTTCGTATACTGGTGCCGGCCATTAACAGGCCAGCACCC-GAAATTTTTTTTCCCATAAAGGTG
64 TTTTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCCCGTAAAGGTG
* * *
27611342 GTGCTGGCCATTGACAGGCCAGCACCCGAAAATTT
129 GTGCCGACCATTGACAGGCCACCA-CC-AAAATTT
27611377 TCTTTTCTCG
Statistics
Matches: 334, Mismatches: 40, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
217 29 0.09
218 12 0.04
219 1 0.00
221 100 0.30
222 9 0.03
223 13 0.04
224 2 0.01
225 85 0.25
226 32 0.10
227 20 0.06
228 31 0.09
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.32
Consensus pattern (219 bp):
TTTTTTTCCGTAAAAGTGGTGCCGGCCATTGACAGGCCACCACAAAAAATTGTTTTTTTAATTTT
TTCGTATACTGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATTTTTTTTCCCGTAAAGGTGGT
GCCGACCATTGACAGGCCACCACCAAAATTTATTTTTTAAAATTTTTTCGTATACTAGTGCCAGC
CATTGACAGACCAGCACCCGAAAT
Found at i:27611351 original size:51 final size:51
Alignment explanation
Indices: 27611289--27611431 Score: 209
Period size: 53 Copynumber: 2.8 Consensus size: 51
27611279 TTTCGTATAC
27611289 TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTTCCCATAAAGG
1 TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTTCCCATAAAGG
* * * *
27611340 TGGTGCTGGCCATTGACAGGCCAGCACCCGAAAATTTTCTTTTCTCGTAAAGG
1 TGGTGCCGGCCATTAACAGGCCAGCACCCG-AAATTTT-TTTTCCCATAAAGG
*
27611393 TGGTGCCGGCCATTAACTGGCCAGCA-CC-AAATTTTTTTT
1 TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTT
27611432 TCTTTTTGTT
Statistics
Matches: 83, Mismatches: 7, Indels: 6
0.86 0.07 0.06
Matches are distributed among these distances:
49 4 0.05
50 7 0.08
51 28 0.34
52 9 0.11
53 35 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (51 bp):
TGGTGCCGGCCATTAACAGGCCAGCACCCGAAATTTTTTTTCCCATAAAGG
Found at i:27611404 original size:53 final size:52
Alignment explanation
Indices: 27611289--27611433 Score: 197
Period size: 51 Copynumber: 2.8 Consensus size: 52
27611279 TTTCGTATAC
* *
27611289 TGGTGCCGGCCATTAACAGGCCAGCACCCG-AAATTTTTTTTCCCATAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTCCCGTAAAGG
* *
27611340 TGGTGCTGGCCATTGACAGGCCAGCACCCGAAAATTTTCTTTTCTCGTAAAGG
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTT-TTTTCCCGTAAAGG
* * *
27611393 TGGTGCCGGCCATTAACTGGCCAGCA-CC-AAATTTTTTTTTC
1 TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTC
27611434 TTTTTGTTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
50 5 0.06
51 35 0.42
52 9 0.11
53 35 0.42
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.29
Consensus pattern (52 bp):
TGGTGCCGGCCATTGACAGGCCAGCACCCGAAAATTTTTTTTCCCGTAAAGG
Found at i:27615063 original size:91 final size:91
Alignment explanation
Indices: 27614900--27615104 Score: 279
Period size: 91 Copynumber: 2.3 Consensus size: 91
27614890 AACCCGGACA
* * * * *
27614900 CTAT-AGTTTGTGGATGAACCACTAGTGTTTGTTGGTTAATATATTGCCAGTAGGTTGTGAATGC
1 CTATAAGTTTGTGGATGAACCACCAATGTTTGTAGGTTAATACACTGCCAGTAGGTTGTGAATGC
* *
27614964 ACATCGTATTTGCATATAAAAGTTGT
66 ACAACGTATTTGCAGATAAAAGTTGT
** *
27614990 CTATAAGTTTGTGGATGAACTGCCAATGTTTGTAGGTTAATACACTGCTAGTAGGTTGTGAATGC
1 CTATAAGTTTGTGGATGAACCACCAATGTTTGTAGGTTAATACACTGCCAGTAGGTTGTGAATGC
27615055 ACAACGTATTTGCAGATAAAAGTTGT
66 ACAACGTATTTGCAGATAAAAGTTGT
* *
27615081 -TACTAAATTTGTGGATAAACCACC
1 CTA-TAAGTTTGTGGATGAACCACC
27615105 TCTTTTCAAT
Statistics
Matches: 99, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
90 6 0.06
91 93 0.94
ACGTcount: A:0.29, C:0.13, G:0.22, T:0.36
Consensus pattern (91 bp):
CTATAAGTTTGTGGATGAACCACCAATGTTTGTAGGTTAATACACTGCCAGTAGGTTGTGAATGC
ACAACGTATTTGCAGATAAAAGTTGT
Found at i:27615217 original size:38 final size:39
Alignment explanation
Indices: 27615175--27615273 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 39
27615165 TAAATAGTAA
*
27615175 ACATGCTTAACATGTATTCGGTTT-AACAGTAACAATAG
1 ACATGCTTAACATGTATTCGGTTTCAACAATAACAATAG
* *
27615213 ACATGCTTATCATGTATTC-ATTTCAACAATAACAATAG
1 ACATGCTTAACATGTATTCGGTTTCAACAATAACAATAG
* * *
27615251 GCATGTTTAATATGTATTCGGTT
1 ACATGCTTAACATGTATTCGGTT
27615274 CAATAGTTAT
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
37 3 0.06
38 46 0.90
39 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.36
Consensus pattern (39 bp):
ACATGCTTAACATGTATTCGGTTTCAACAATAACAATAG
Found at i:27620469 original size:58 final size:58
Alignment explanation
Indices: 27620288--27620475 Score: 175
Period size: 58 Copynumber: 3.2 Consensus size: 58
27620278 TTTGACAATT
* * * * *
27620288 TTAGGTACCAAATTGGACAGAGAAAGCTTAGGTCCCAAATTATAAAAAAGTGTCAAG-
1 TTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
* * * * * * * * *
27620345 TTCAAGTGCCACATTGAACCCCAAAAAAGCTTAGCTACCAAAATAG-GAAAATTGTCAA-A
1 TT-AGGTACCAAATTGGA--CAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
*
27620404 TTTAGGTACCATATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
1 -TTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
*
27620463 TTAGGTACTAAAT
1 TTAGGTACCAAAT
27620476 GTTATATTCA
Statistics
Matches: 100, Mismatches: 24, Indels: 13
0.73 0.18 0.09
Matches are distributed among these distances:
57 25 0.25
58 32 0.32
59 22 0.22
60 21 0.21
ACGTcount: A:0.44, C:0.15, G:0.17, T:0.23
Consensus pattern (58 bp):
TTAGGTACCAAATTGGACAAAAAAAGCTTAGGTACCAAATTAGAAAAAAATGTCAAGA
Found at i:27623522 original size:22 final size:22
Alignment explanation
Indices: 27623497--27623542 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
27623487 TTAGTAATAT
*
27623497 AATAGCAAAATGACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
*
27623519 AATATCAAAATAACAACAAAAC
1 AATAGCAAAATAACAACAAAAC
27623541 AA
1 AA
27623543 CAGTGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.67, C:0.17, G:0.04, T:0.11
Consensus pattern (22 bp):
AATAGCAAAATAACAACAAAAC
Found at i:27624023 original size:25 final size:25
Alignment explanation
Indices: 27623988--27624036 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
27623978 GAATTCAGAT
* *
27623988 TTTTTTTTTTAACTTGGTACTTAAG
1 TTTTTTATTTAACTTGATACTTAAG
*
27624013 TTTTTTATTTAATTTGATACTTAA
1 TTTTTTATTTAACTTGATACTTAA
27624037 ATATAGTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.06, G:0.08, T:0.61
Consensus pattern (25 bp):
TTTTTTATTTAACTTGATACTTAAG
Found at i:27624657 original size:29 final size:28
Alignment explanation
Indices: 27624563--27624675 Score: 104
Period size: 29 Copynumber: 3.9 Consensus size: 28
27624553 TTTGACAAAT
27624563 TTAGGTACCAAATT-GAACAAAAAAAAGC
1 TTAGGTACCAAATTGGAA-AAAAAAAAGC
* * ** *
27624591 TTAGCTACCAAAATAGGAAAAATTGTCAAA-T
1 TTAGGTACC-AAATTGGAAAAA---AAAAAGC
27624622 TTAGGTACCAAATTGGACAAAAAAAAAGC
1 TTAGGTACCAAATTGGA-AAAAAAAAAGC
*
27624651 TTAGGTACCAAATTAGAAAAAAAAA
1 TTAGGTACCAAATTGGAAAAAAAAA
27624676 TGCCAAAATT
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
28 19 0.28
29 23 0.34
30 10 0.15
31 12 0.18
32 3 0.04
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.20
Consensus pattern (28 bp):
TTAGGTACCAAATTGGAAAAAAAAAAGC
Found at i:27624670 original size:59 final size:59
Alignment explanation
Indices: 27624558--27624672 Score: 185
Period size: 60 Copynumber: 1.9 Consensus size: 59
27624548 TGATATTTGA
27624558 CAAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGT
1 CAAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGT
* * * *
27624617 CAAATTTAGGTACCAAATTGGACAAAAAAAAAGCTTAGGTACCAAATTAGAAAAAA
1 CAAATTTAGGTACCAAATTGAAC-AAAAAAAAGCTTAGCTACCAAAATAGGAAAAA
27624673 AAATGCCAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
59 22 0.43
60 29 0.57
ACGTcount: A:0.52, C:0.13, G:0.14, T:0.21
Consensus pattern (59 bp):
CAAATTTAGGTACCAAATTGAACAAAAAAAAGCTTAGCTACCAAAATAGGAAAAATTGT
Found at i:27626043 original size:92 final size:92
Alignment explanation
Indices: 27625862--27626046 Score: 239
Period size: 92 Copynumber: 2.0 Consensus size: 92
27625852 GAACTTCTCG
* * *
27625862 GAACTTCTTATTAGCAAGATTATTCGGCAACTGCTGGTTGCTGCTATTCAATTGCTTTTTTTTCG
1 GAACTTCTTACTAACAAGATTATTCGGCAACTGCTGGTTGCTGCTATTCAATTGCTTTTTTTTCA
*
27625927 GCACTGCTCCGAACTTCTTCTTTTTTT
66 GCACTGATCCGAACTTCTTCTTTTTTT
* *
27625954 GAACTTCTTACTAACAAGATT-TCTTGGCAACTGTTGGTTGCTGCTATTCAATTG-TTGTTTTTC
1 GAACTTCTTACTAACAAGATTAT-TCGGCAACTGCTGGTTGCTGCTATTCAATTGCTT-TTTTT-
* * * *
27626017 TCAGTACTTATCTGAACTTCTTTTTTTTTT
63 TCAGCACTGATCCGAACTTCTTCTTTTTTT
27626047 TTTTAACTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
91 3 0.04
92 53 0.66
93 24 0.30
ACGTcount: A:0.18, C:0.19, G:0.15, T:0.47
Consensus pattern (92 bp):
GAACTTCTTACTAACAAGATTATTCGGCAACTGCTGGTTGCTGCTATTCAATTGCTTTTTTTTCA
GCACTGATCCGAACTTCTTCTTTTTTT
Found at i:27626564 original size:24 final size:24
Alignment explanation
Indices: 27626537--27626592 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
27626527 TCTTCTAGTT
*
27626537 AAACTTTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
27626561 AAACTCTGTTTATTTGTTTCAATC
1 AAACTCTGTTTATTTGTTTCAATC
27626585 AAACTCTG
1 AAACTCTG
27626593 ATTAGTCTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:27628985 original size:30 final size:29
Alignment explanation
Indices: 27628951--27629040 Score: 87
Period size: 30 Copynumber: 3.1 Consensus size: 29
27628941 TATAAAAAAC
27628951 ATAAAATTATAAAAATTATAATTTTTTAAA
1 ATAAAATTATAAAAA-TATAATTTTTTAAA
* **
27628981 ATAAAACTTATAAAAA-ATAAACTCATTAAA
1 ATAAAA-TTATAAAAATAT-AATTTTTTAAA
* *
27629011 ATAAAA-AATAAAAA-ATATTTTTTTAAA
1 ATAAAATTATAAAAATATAATTTTTTAAA
27629038 ATA
1 ATA
27629041 TAAAAAGTTT
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
27 10 0.20
28 9 0.18
29 2 0.04
30 20 0.40
31 9 0.18
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
ATAAAATTATAAAAATATAATTTTTTAAA
Found at i:27629675 original size:17 final size:17
Alignment explanation
Indices: 27629655--27629697 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
27629645 TATTTTTAAA
*
27629655 TTTTAAAGAGTTTTTAT
1 TTTTAAAAAGTTTTTAT
*
27629672 TTTTATAAAATTTTTTAT
1 TTTTA-AAAAGTTTTTAT
27629690 TTTTAAAA
1 TTTTAAAA
27629698 TTTATGTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (17 bp):
TTTTAAAAAGTTTTTAT
Found at i:27635848 original size:122 final size:122
Alignment explanation
Indices: 27635651--27635883 Score: 326
Period size: 122 Copynumber: 1.9 Consensus size: 122
27635641 TACCTTTAGA
*
27635651 ACTTCTATCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
1 ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
** **
27635716 CTGCTAGGTTCTACTGATACCAGTTGAAACCAC-CAGAGTTCTACCGCTTCCTTGAGG
66 CTAATAGGTTCTACTGATACCAAATGAAACC-CTCAGAGTTCTACCGCTTCCTTGAGG
* * * *
27635773 ACTTCTACCAAAACAAGTCAAAATAGTGGGCAAAGTTTAGCCTCC-CTTGCACTTCTACCGATAC
1 ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCC-CCTCTAGCACTTCTACCGATAC
* * *
27635837 TCTAATGGGTTCTACTGATACTAAATGAAACCCTCTGAGTTCTACCG
65 TCTAATAGGTTCTACTGATACCAAATGAAACCCTCAGAGTTCTACCG
27635884 ATACAGGAGA
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
121 1 0.01
122 94 0.97
123 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.27
Consensus pattern (122 bp):
ACTTCTACCAAAACAAGTCAAAATAGTAGCCAAAGTTCAGCCCCTCTAGCACTTCTACCGATACT
CTAATAGGTTCTACTGATACCAAATGAAACCCTCAGAGTTCTACCGCTTCCTTGAGG
Found at i:27637154 original size:56 final size:57
Alignment explanation
Indices: 27637092--27637205 Score: 221
Period size: 57 Copynumber: 2.0 Consensus size: 57
27637082 GATTATGAGT
27637092 TGTTTAAAGAAAAA-CGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
1 TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
27637148 TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
1 TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
27637205 T
1 T
27637206 CATCAATGGT
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 14 0.25
57 43 0.75
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.18
Consensus pattern (57 bp):
TGTTTAAAGAAAAACCGAAAGAAAGAATCAAGGAGATGTCCGACCGCTTCACCCATA
Done.