Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1
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: 8764944
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 632878 characters in sequence are not A, C, G, or T
File 28 of 52
Found at i:4905544 original size:13 final size:13
Alignment explanation
Indices: 4905526--4905564 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
4905516 ATAATCACCC
*
4905526 TGTATCGATACAG
1 TGTATCGATACAA
4905539 TGTATCGATACAA
1 TGTATCGATACAA
4905552 TGTATCGATACAA
1 TGTATCGATACAA
4905565 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4905575 original size:20 final size:20
Alignment explanation
Indices: 4905550--4905628 Score: 70
Period size: 20 Copynumber: 3.7 Consensus size: 20
4905540 GTATCGATAC
4905550 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
4905570 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
*
4905595 GATGTATCGATACACAA-AAA
1 AATGTATCGATACA-AAGAAA
*
4905615 CATGTATCGATACA
1 AATGTATCGATACA
4905629 TTTTGGACAT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
20 32 0.65
25 16 0.33
26 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.14, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:4905779 original size:8 final size:8
Alignment explanation
Indices: 4905766--4905797 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
4905756 CATCATTCAA
4905766 CACAAAAT
1 CACAAAAT
4905774 CACAAAAT
1 CACAAAAT
4905782 CACAAAAT
1 CACAAAAT
4905790 CACAAAAT
1 CACAAAAT
4905798 TTAATCAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.25, G:0.00, T:0.12
Consensus pattern (8 bp):
CACAAAAT
Found at i:4907671 original size:15 final size:15
Alignment explanation
Indices: 4907651--4907681 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4907641 ATTTCGTTTG
*
4907651 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
4907666 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
4907681 G
1 G
4907682 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:4909738 original size:21 final size:22
Alignment explanation
Indices: 4909696--4909738 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4909686 TTTTCAATTT
* *
4909696 ATTATCTTCTTTTAGTTTAATG
1 ATTATCTTCTTATAGCTTAATG
4909718 ATTATCTTCTTAT-GCTTAATG
1 ATTATCTTCTTATAGCTTAATG
4909739 TTCATGGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.23, C:0.12, G:0.09, T:0.56
Consensus pattern (22 bp):
ATTATCTTCTTATAGCTTAATG
Found at i:4911765 original size:13 final size:13
Alignment explanation
Indices: 4911747--4911772 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4911737 CAATTTTTTG
4911747 TGTATCGATACAT
1 TGTATCGATACAT
4911760 TGTATCGATACAT
1 TGTATCGATACAT
4911773 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4911857 original size:20 final size:20
Alignment explanation
Indices: 4911832--4911904 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
4911822 CAACTTTTTT
4911832 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
4911852 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
4911873 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
4911893 ATGTATCGATAC
1 ATGTATCGATAC
4911905 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:4911870 original size:41 final size:41
Alignment explanation
Indices: 4911811--4911904 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
4911801 CTACCAAGAA
*
4911811 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
4911852 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
4911893 ATGTATCGATAC
1 ATGTATCGATAC
4911905 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:4911886 original size:21 final size:21
Alignment explanation
Indices: 4911811--4911886 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
4911801 CTACCAAGAA
* *
4911811 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
4911832 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
4911852 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
4911873 ATGTATCGATACAT
1 ATGTATCGATACAT
4911887 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:4912372 original size:21 final size:21
Alignment explanation
Indices: 4912343--4912387 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
4912333 AAGTTTTCAT
*
4912343 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
4912363 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
4912385 TTT
1 TTT
4912388 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:4918880 original size:17 final size:17
Alignment explanation
Indices: 4918843--4918881 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4918833 CTTCATACCA
*
4918843 AAAAAAAACAAAAAACC
1 AAAAAAAACAAAAAAAC
* *
4918860 AAAAAAAAGAAAAAAAT
1 AAAAAAAACAAAAAAAC
4918877 AAAAA
1 AAAAA
4918882 TAAAAAACAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.87, C:0.08, G:0.03, T:0.03
Consensus pattern (17 bp):
AAAAAAAACAAAAAAAC
Found at i:4918881 original size:18 final size:17
Alignment explanation
Indices: 4918841--4918888 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
4918831 TCCTTCATAC
*
4918841 CAAAAAAAAACAAAAAAC
1 CAAAAAAAAA-AAAAAAA
*
4918859 CAAAAAAAAGAAAAAAA
1 CAAAAAAAAAAAAAAAA
*
4918876 TAAAAATAAAAAA
1 CAAAAA-AAAAAA
4918889 CAGAAAGGGG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.85, C:0.08, G:0.02, T:0.04
Consensus pattern (17 bp):
CAAAAAAAAAAAAAAAA
Found at i:4920133 original size:28 final size:28
Alignment explanation
Indices: 4920096--4920531 Score: 466
Period size: 28 Copynumber: 15.1 Consensus size: 28
4920086 CATTCATCTC
* * *
4920096 TTCAAAGCCCATAAGTTAGTGGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
*
4920124 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
4920152 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-T
* *
4920181 TTCAAAGCCCATAAGTTAGTGGCA-TCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-T
*
4920209 TTCAAAGCCCACACGAGTCAGTGGCACCCT
1 TTCAAAGCCCACA--AGTCAGTGGCACTCT
*
4920239 TTCAAAGCCCACCAGTCAGTGGCAC-CTT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-T
*
4920267 TTCAAAGCCCACAAGTCAATGGCACTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
*
4920295 TTCAAAGCCCACACAAGTCAGTGGCACCCT
1 TTCAAAG-CC-CACAAGTCAGTGGCACTCT
*
4920325 TTCAAAGCTCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-T
* * * * *
4920354 TTTAAAGCCCACAAGTTAATAGCATTCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
* *
4920382 TTCAAAGCCCATAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACTCT
*
4920410 TTCAAAGCCCATAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCACTC-T
* * *
4920439 TTTAAAGCCCACAAGCCAGTGGTAACTCTT
1 TTCAAAGCCCACAAGTCAGTGG-CACTC-T
*
4920469 TTCAAAGCCCACACGAGT-TGATGGCAACTCTT
1 TTCAAAGCCCACA--AGTCAG-TGGC-ACTC-T
*
4920501 TTCAAAGCCTACACAAGTTAGTGGCAC-CT
1 TTCAAAGCC--CACAAGTCAGTGGCACTCT
4920530 TT
1 TT
4920532 TTTTAAAAAA
Statistics
Matches: 350, Mismatches: 40, Indels: 35
0.82 0.09 0.08
Matches are distributed among these distances:
27 1 0.00
28 175 0.50
29 72 0.21
30 66 0.19
31 4 0.01
32 27 0.08
33 1 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:4920290 original size:115 final size:112
Alignment explanation
Indices: 4920090--4920531 Score: 467
Period size: 115 Copynumber: 3.8 Consensus size: 112
4920080 CTAGAACATT
* * * ** *
4920090 CATCTCTTCAAAGCCCATAAGTTAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
*
4920155 AAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGG
66 AAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGCCCATAAGTCAGTGG
*
4920203 CATCTTTTCAAAGCCCACACGAGTCAGTGGCACCCTTTCAAAGCCCACCAGTCAGTGGCACCTTT
1 CATCTTTTCAAAGCCCACA--AGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTT
* *
4920268 TCAAAGCCCACAAGTCAATGGCACTCTTTCAAAGCCCACACAAGTCAGTGG
64 TCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAG-CC-CATAAGTCAGTGG
* * * * * * * * *
4920319 CACCCTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTTAAAGCCCACAAGTTAATAGCA-TTCTT
1 CATCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACCT-TT
* *
4920383 TCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGG
64 TCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGG
* * * * *
4920432 CACTCTTTTTAAAGCCCACAAGCCAGTGGTAACTCTTTTCAAAGCCCACACGAGT-TGATGGCAA
1 CA-TCTTTTCAAAGCCCACAAGTCAGTGG-CAC-CCTTTCAAAGCCCACA--AGTCAG-TGGC-A
*
4920496 CTCTTTTCAAAGCCTACACAAGTTAGTGGCAC-CTTT
59 C-CTTTTCAAAGCC--CACAAGTCAGTGGCACTCTTT
4920532 TTTTAAAAAA
Statistics
Matches: 276, Mismatches: 37, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
113 31 0.11
114 44 0.16
115 138 0.50
116 27 0.10
117 6 0.02
118 1 0.00
119 10 0.04
120 5 0.02
121 14 0.05
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (112 bp):
CATCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCTTTTC
AAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCATAAGTCAGTGG
Found at i:4920384 original size:143 final size:144
Alignment explanation
Indices: 4920096--4920481 Score: 480
Period size: 143 Copynumber: 2.7 Consensus size: 144
4920086 CATTCATCTC
* * *
4920096 TTCAAAGCCCATAAGTTAGTGGCA-TTCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-
1 TTCAAAGCCCATAAGTCAGTGGCACCT-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGC
* * *
4920159 CC-CACAAGTCAGTGGCACTCTTTTCAAAGCCCATAAGTTAGTGGCATCTTTTCAAAGCCCACAC
65 CCACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACAC
* *
4920223 GAGTCAGTGGCACCCT
130 -AGTCAATAGCACCCT
** *
4920239 TTCAAAGCCCACCAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAATGGCACTCTTTCAAAGCC
1 TTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCC
* *
4920304 CACACAAGTCAGTGGCAC-CCTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTTAAAGCCCACA-
66 CACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAGCCCACAC
* **
4920367 AGTTAATAGCATTCT
130 AGTCAATAGCACCCT
* * *
4920382 TTCAAAGCCCATAAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGCACTCTTTTTAAAG-
1 TTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTCAAAGC
* * *
4920446 CC-CACAAGCCAGTGGTAACTCTTTTCAAAGCCCACA
65 CCACACAAGTCAGTGG-CACTCCTTTCAAAGCCCACA
4920482 CGAGTTGATG
Statistics
Matches: 210, Mismatches: 26, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
142 12 0.06
143 119 0.57
144 47 0.22
145 32 0.15
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (144 bp):
TTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCC
CACACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCATCTTTTCAAAGCCCACACA
GTCAATAGCACCCT
Found at i:4921374 original size:31 final size:31
Alignment explanation
Indices: 4921339--4921403 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
4921329 GTATCAATAC
4921339 ATTGAATAATATATCGATATATCTAGTTAAA
1 ATTGAATAATATATCGATATATCTAGTTAAA
4921370 ATTGAATAATATATCGATATATCTAGTTAAA
1 ATTGAATAATATATCGATATATCTAGTTAAA
4921401 ATT
1 ATT
4921404 AAGTATTTCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (31 bp):
ATTGAATAATATATCGATATATCTAGTTAAA
Found at i:4922294 original size:19 final size:19
Alignment explanation
Indices: 4922260--4922298 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
4922250 CCATGCATTT
*
4922260 TTTTTATTATGTTTCATGCA
1 TTTTTAATATGTTTCA-GCA
4922280 TTTTTAATATG-TTCAGCA
1 TTTTTAATATGTTTCAGCA
4922298 T
1 T
4922299 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTAATATGTTTCAGCA
Found at i:4926069 original size:52 final size:52
Alignment explanation
Indices: 4925991--4926119 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
4925981 CGAAATATGA
4925991 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
* *
4926043 AAATTTGACTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
4926095 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
4926120 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
Found at i:4926130 original size:52 final size:51
Alignment explanation
Indices: 4925991--4926139 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 51
4925981 CGAAATATGA
4925991 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
* *
4926043 AAATTTGACTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGC
*
4926095 AAATTTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
4926140 ATGTATCGAT
Statistics
Matches: 90, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 88 0.98
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGC
Found at i:4926146 original size:13 final size:13
Alignment explanation
Indices: 4926128--4926152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4926118 CAAAGATCAG
4926128 TGTATCGATACAA
1 TGTATCGATACAA
4926141 TGTATCGATACA
1 TGTATCGATACA
4926153 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4926232 original size:13 final size:13
Alignment explanation
Indices: 4926214--4926238 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4926204 ACAAAACTTA
4926214 TGTATCGATACAT
1 TGTATCGATACAT
4926227 TGTATCGATACA
1 TGTATCGATACA
4926239 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4926234 original size:32 final size:33
Alignment explanation
Indices: 4926193--4926258 Score: 116
Period size: 32 Copynumber: 2.0 Consensus size: 33
4926183 AGTAGCTTAT
4926193 ATTGTATCGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
4926225 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
4926258 A
1 A
4926259 AATCGTTGAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.53
33 15 0.47
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:4927023 original size:52 final size:52
Alignment explanation
Indices: 4926896--4927090 Score: 176
Period size: 53 Copynumber: 3.7 Consensus size: 52
4926886 ACCAATACGT
* * * ** *
4926896 TGATTCACGGCCAACGATATTGGGTTTAAAGATGAGAAAAAGGATGTCAATGTGC
1 TGATTCAAGGCCAACAACATTGGACTTAAAGATGAG-AAAA--ATGCCAATGTGC
* * * * * *
4926951 TGATTCACGGTCAGCGACATTAGACTTGAAGATGAGAAAAATGCCAATGTGC
1 TGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
** ** *
4927003 TGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATG-AAGGTGCCAATATGC
1 TGATTCAAGGCCAACAACATT-GGACTTAAAGATGA-GAAAAATGCCAATGTGC
*
4927056 TGATTCAAGGCCAACAATATTGGACTTAAAGATGA
1 TGATTCAAGGCCAACAACATTGGACTTAAAGATGA
4927091 AGATGAGAAA
Statistics
Matches: 116, Mismatches: 22, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
52 40 0.34
53 42 0.36
54 5 0.04
55 29 0.25
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (52 bp):
TGATTCAAGGCCAACAACATTGGACTTAAAGATGAGAAAAATGCCAATGTGC
Found at i:4927153 original size:67 final size:68
Alignment explanation
Indices: 4927031--4927157 Score: 193
Period size: 67 Copynumber: 1.9 Consensus size: 68
4927021 ATTGGGTTTT
* *
4927031 AAAGATGATGAAGGTGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
4927096 AGA
66 AGA
* * * *
4927099 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGA
4927158 GAAAAAGGAT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
67 49 0.92
68 4 0.08
ACGTcount: A:0.39, C:0.13, G:0.24, T:0.24
Consensus pattern (68 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATG
AGA
Found at i:4927206 original size:122 final size:120
Alignment explanation
Indices: 4926991--4927211 Score: 293
Period size: 122 Copynumber: 1.8 Consensus size: 120
4926981 GATGAGAAAA
* *
4926991 ATGCCAATGTGCTGATTCAAGGCCAACAACATTGGGTTTTAAAGATGATGAAGGTGCCAATATGC
1 ATGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATGAAGGTGCCAATATGC
*
4927056 TGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGATGAGAAAAGTGATAAAG
66 TGATTCAAGGCCAACAATATTGAACTTAAAGATGAAGATGAGAAAAGTGATAAAG
* * * * *
4927111 ATGCCAATATGTTGATTCACGGCCAACGATATTGGG-CTTAAAGATGA-GAAAAAGGATGTCAAT
1 ATGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATG---AAGG-TGCCAAT
* * *
4927174 GTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATG
62 ATGCTGATTCAAGGCCAACAATATTGAACTTAAAGATG
4927212 GAAAAGGTGC
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
118 1 0.01
119 10 0.12
120 31 0.36
121 4 0.05
122 40 0.47
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (120 bp):
ATGCCAATATGCTGATTCAAGGCCAACAACATTGGGTCTTAAAGATGATGAAGGTGCCAATATGC
TGATTCAAGGCCAACAATATTGAACTTAAAGATGAAGATGAGAAAAGTGATAAAG
Found at i:4927335 original size:49 final size:49
Alignment explanation
Indices: 4927107--4927814 Score: 688
Period size: 49 Copynumber: 14.7 Consensus size: 49
4927097 GAAAAGTGAT
* * * * *
4927107 AAAGATGCCAATATGTTGATTCACGGCCAACGATATTGGGCTTAAAGATGAG
1 AAAG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA--AG
* * * *
4927159 AAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGG
1 --AAA-G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-AG
*
4927213 AAAAGGTGCTAATATGCTGATTCAAGGCCAGCTATATTGGACTT-----A-
1 -AAA-GTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
*
4927258 AAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* *
4927307 AAAGTGTCAATATGCTGATTCAAAGCCAGCTATATTGGACTTAAAGATAAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAG--AAG
* * * *
4927358 AAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATG
1 --AAA-G-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* * *
4927411 AAAGTGCCAATATGGTGATTCAAGGCAAGCGATATTGGACTT--A-AAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* * * *
4927457 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTACAGATG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
4927503 AAAGTGCCAATATGCTGATTCAAGGCCAG-TGATATTGGACTT--A-AAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCT-ATATTGGACTTAAAGAAG
* *
4927549 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* *
4927595 AAGGTGCCAATATGCTCATTCAAGGCCAGCTATATTGGACTT--A-AAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* * * *
4927641 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* *
4927687 AAAATGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A-AAG
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
* *
4927733 ---GTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGA-AG
* *
4927779 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATT
1 AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATT
4927815 AGGCTTAGAA
Statistics
Matches: 551, Mismatches: 63, Indels: 85
0.79 0.09 0.12
Matches are distributed among these distances:
43 176 0.32
44 4 0.01
45 4 0.01
46 17 0.03
47 5 0.01
48 2 0.00
49 210 0.38
50 1 0.00
51 6 0.01
52 34 0.06
53 11 0.02
54 5 0.01
55 76 0.14
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (49 bp):
AAAGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAAG
Found at i:4927344 original size:92 final size:92
Alignment explanation
Indices: 4927161--4927814 Score: 916
Period size: 92 Copynumber: 6.9 Consensus size: 92
4927151 AAGATGAGAA
* * * * *
4927161 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTATATTGAACTTAAAGATGGAAAAGGTGCTAAT
1 AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AG-AAA-GTGCCAAT
4927226 ATGCTGATTCAAGGCCAGCTATATTGGACTT
62 ATGCTGATTCAAGGCCAGCTATATTGGACTT
* * *
4927257 AAAAGTGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGTCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
*
4927322 TGATTCAAAGCCAGCTATATTGGACTTAAAGAT
66 TGATTCAAGGCCAGCTATATTGGAC-T-----T
* *
4927355 AAGAAAAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAAGTGCCA
1 -----AAAGG-TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCA
* * *
4927420 ATATGGTGATTCAAGGCAAGCGATATTGGACTT
60 ATATGCTGATTCAAGGCCAGCTATATTGGACTT
* *
4927453 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTACAGATGAAAGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
4927518 TGATTCAAGGCCAG-TGATATTGGACTT
66 TGATTCAAGGCCAGCT-ATATTGGACTT
*
4927545 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAGGTGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
*
4927610 TCATTCAAGGCCAGCTATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
* * *
4927637 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGGCTTAAAGATGAAAATGCCAATATGC
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
*
4927702 TGATTCAAGGCCAGCGATATTGGACTT
66 TGATTCAAGGCCAGCTATATTGGACTT
*
4927729 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATA-AAGGTGCCAATATG
1 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGA-AGAAAGTGCCAATATG
*
4927793 CTGATTCAAGGCCAGCGATATT
65 CTGATTCAAGGCCAGCTATATT
4927815 AGGCTTAGAA
Statistics
Matches: 506, Mismatches: 37, Indels: 34
0.88 0.06 0.06
Matches are distributed among these distances:
92 368 0.73
93 10 0.02
94 1 0.00
95 39 0.08
96 4 0.01
98 2 0.00
103 5 0.01
104 77 0.15
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (92 bp):
AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAAGAAAGTGCCAATATGC
TGATTCAAGGCCAGCTATATTGGACTT
Found at i:4927863 original size:33 final size:33
Alignment explanation
Indices: 4927821--4927958 Score: 210
Period size: 33 Copynumber: 4.2 Consensus size: 33
4927811 TATTAGGCTT
4927821 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4927854 AGAATGGTTGCCACCAACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4927887 AG-AGGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
* *
4927918 AAAAAGGGTTGTCACCGACTTGTGTGGGCTTTAG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
4927952 -GAAGGGT
1 AGAAGGGT
4927959 GAAAGATGCC
Statistics
Matches: 95, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
31 1 0.01
32 33 0.35
33 60 0.63
34 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:4927900 original size:65 final size:64
Alignment explanation
Indices: 4927819--4927958 Score: 210
Period size: 65 Copynumber: 2.2 Consensus size: 64
4927809 GATATTAGGC
* *
4927819 TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTT-AGAGAATGGTTGCCACCAACTTGTGTGGGCT
1 TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGA-AAAAGGGTTGCCACCAACTTGTGTGGGCT
* *
4927883 TTAGAGAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGGTTGTCACCGACTTGTGTGGGCT
1 TTAGA-AGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGGTTGCCACCAACTTGTGTGGGCT
4927948 TTAGGAAGGGT
1 TTA-GAAGGGT
4927959 GAAAGATGCC
Statistics
Matches: 69, Mismatches: 4, Indels: 5
0.88 0.05 0.06
Matches are distributed among these distances:
64 5 0.07
65 61 0.88
66 3 0.04
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.29
Consensus pattern (64 bp):
TTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTGAAAAAGGGTTGCCACCAACTTGTGTGGGCT
Found at i:4928002 original size:33 final size:33
Alignment explanation
Indices: 4927960--4928353 Score: 361
Period size: 33 Copynumber: 11.8 Consensus size: 33
4927950 AGGAAGGGTG
* *
4927960 AAAGATGCCACGAAGTTGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4927993 CAAGGTGCCACGGAGTTGTGGACTTTAAACGGGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAA-AGGAA
* * **
4928028 AAAGAGTGCCACGAAGTTGTGGGCTTTGAA--AA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* * *
4928060 GAAGGTGCCACGGAGTCGTAGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4928093 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGAA
** **
4928128 AAAGAGTGCCATAGAGTTGTAGG-CTTTGAA--AA
1 AAAG-GTGCCACGGAGTTGT-GGACTTAAAAGGAA
* *
4928160 GAAGGTGCCACGGAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4928193 CAAGGTGCCACGGAGTTGTGGAATTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGG-ACTTAAAA-GGAA
* **
4928228 AAAGTGTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAG-GTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4928260 GAAGGTGCCACGGAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
* *
4928293 CAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAA
1 AAAGGTGCCACGGAGTTGTGGAC-TTAAAA-GGAA
*
4928328 AAAGAGTGCCACGGAGTTATGGACTT
1 AAAG-GTGCCACGGAGTTGTGGACTT
4928354 TGAAGAAAAA
Statistics
Matches: 289, Mismatches: 52, Indels: 38
0.76 0.14 0.10
Matches are distributed among these distances:
30 2 0.01
31 57 0.20
32 15 0.05
33 84 0.29
34 24 0.08
35 41 0.14
36 64 0.22
37 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.34, T:0.20
Consensus pattern (33 bp):
AAAGGTGCCACGGAGTTGTGGACTTAAAAGGAA
Found at i:4928084 original size:100 final size:100
Alignment explanation
Indices: 4927965--4928384 Score: 646
Period size: 100 Copynumber: 4.2 Consensus size: 100
4927955 GGGTGAAAGA
* * *
4927965 TGCCACGAAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAACGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
4928030 AGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
66 AGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
* *
4928065 TGCCACGGAGTCGTAGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
* *
4928130 AGAGTGCCA-TAGAGTTGTAGGCTTTGAAAAGAAGG
66 AGAGTGCCACGA-AGTTGTGGGCTTTGAAAAGAAGG
*
4928165 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGAATTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
* *
4928230 AGTGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGG
66 AGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
*
4928265 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGGGTTGTGGACTTTAAAAGGGAAAA
1 TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
* * * **
4928330 AGAGTGCCACGGAGTTATGGACTTTGAAGAA-AAAA
66 AGAGTGCCACGAAGTTGTGGGCTTTGAA-AAGAAGG
* *
4928365 AGCCACTGAGTCGTGGACTT
1 TGCCACGGAGTCGTGGACTT
4928385 TGAGACAAAA
Statistics
Matches: 294, Mismatches: 23, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
99 1 0.00
100 291 0.99
101 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.33, T:0.20
Consensus pattern (100 bp):
TGCCACGGAGTCGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGACTTTAAAAGGGAAAA
AGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAGG
Found at i:4928402 original size:30 final size:30
Alignment explanation
Indices: 4928347--4928452 Score: 153
Period size: 30 Copynumber: 3.5 Consensus size: 30
4928337 CACGGAGTTA
*
4928347 TGGACTTTGAAGAAAAAAAGCCACTGAGTCG
1 TGGACTTTGAAG-AAAAATGCCACTGAGTCG
4928378 TGGACTTTG-AGACAAAATGCCACTGAGTCG
1 TGGACTTTGAAGA-AAAATGCCACTGAGTCG
4928408 TGGACTTTGAAGAAAAGGATGCCACTGAGTCG
1 TGGACTTTGAAGAAAA--ATGCCACTGAGTCG
4928440 TGGACTTT-AAGAA
1 TGGACTTTGAAGAA
4928453 GGTATTTGAA
Statistics
Matches: 70, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
29 1 0.01
30 30 0.43
31 17 0.24
32 22 0.31
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (30 bp):
TGGACTTTGAAGAAAAATGCCACTGAGTCG
Found at i:4928575 original size:8 final size:8
Alignment explanation
Indices: 4928552--4928597 Score: 65
Period size: 8 Copynumber: 5.6 Consensus size: 8
4928542 GATGCAAATA
*
4928552 ATGATGTT
1 ATGATGTC
*
4928560 ATTGATGTT
1 A-TGATGTC
4928569 ATGATGTC
1 ATGATGTC
4928577 ATGATGTC
1 ATGATGTC
4928585 ATGATGTC
1 ATGATGTC
4928593 ATGAT
1 ATGAT
4928598 TATAGCACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
8 28 0.78
9 8 0.22
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (8 bp):
ATGATGTC
Found at i:4929437 original size:12 final size:11
Alignment explanation
Indices: 4929420--4929484 Score: 67
Period size: 11 Copynumber: 5.7 Consensus size: 11
4929410 TCCTCTCTTC
4929420 TTTTTTTGTTT
1 TTTTTTTGTTT
4929431 GTTTTTTTGTTT
1 -TTTTTTTGTTT
* * *
4929443 GTTTCTTCTTT
1 TTTTTTTGTTT
*
4929454 TTTTTTTCTTT
1 TTTTTTTGTTT
4929465 TTTGTTTTGTTT
1 TTT-TTTTGTTT
*
4929477 CTTTTTTG
1 TTTTTTTG
4929485 GAAAAGAACA
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
11 25 0.56
12 20 0.44
ACGTcount: A:0.00, C:0.06, G:0.11, T:0.83
Consensus pattern (11 bp):
TTTTTTTGTTT
Found at i:4929466 original size:30 final size:31
Alignment explanation
Indices: 4929415--4929483 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
4929405 GTTTTTCCTC
*
4929415 TCTTCTTTTTTTGTTTGTTTTTT-TGTTTGTT
1 TCTTCTTTTTTTGTTTCTTTTTTGT-TTTGTT
4929446 TCTTCTTTTTTT-TTTCTTTTTTGTTTTGTT
1 TCTTCTTTTTTTGTTTCTTTTTTGTTTTGTT
4929476 TCTT-TTTT
1 TCTTCTTTT
4929484 GGAAAAGAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
29 4 0.11
30 19 0.53
31 13 0.36
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (31 bp):
TCTTCTTTTTTTGTTTCTTTTTTGTTTTGTT
Found at i:4929484 original size:16 final size:15
Alignment explanation
Indices: 4929415--4929483 Score: 86
Period size: 16 Copynumber: 4.5 Consensus size: 15
4929405 GTTTTTCCTC
*
4929415 TCTTCTTTTTTTGTT
1 TCTTTTTTTTTTGTT
*
4929430 TGTTTTTTTGTTTGTT
1 TCTTTTTTT-TTTGTT
*
4929446 TCTTCTTTTTTT-TT
1 TCTTTTTTTTTTGTT
4929460 TCTTTTTTGTTTTGTT
1 TCTTTTTT-TTTTGTT
4929476 TCTTTTTT
1 TCTTTTTT
4929484 GGAAAAGAAC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
14 9 0.20
15 14 0.30
16 23 0.50
ACGTcount: A:0.00, C:0.09, G:0.09, T:0.83
Consensus pattern (15 bp):
TCTTTTTTTTTTGTT
Found at i:4929756 original size:8 final size:8
Alignment explanation
Indices: 4929738--4929772 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
4929728 CTGTGTTTTA
4929738 TTTTGTTT
1 TTTTGTTT
*
4929746 TTTT-TTG
1 TTTTGTTT
4929753 TTTTGTTT
1 TTTTGTTT
4929761 TTTTGTTT
1 TTTTGTTT
4929769 TTTT
1 TTTT
4929773 TTTCATCATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (8 bp):
TTTTGTTT
Found at i:4929756 original size:15 final size:15
Alignment explanation
Indices: 4929733--4929775 Score: 56
Period size: 13 Copynumber: 3.1 Consensus size: 15
4929723 TTTATCTGTG
*
4929733 TTTTATTTTGTTTTT
1 TTTTGTTTTGTTTTT
4929748 TTTTGTTTTG--TTT
1 TTTTGTTTTGTTTTT
4929761 TTTTGTTTT-TTTTT
1 TTTTGTTTTGTTTTT
4929775 T
1 T
4929776 CATCATTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 12 0.48
14 4 0.16
15 9 0.36
ACGTcount: A:0.02, C:0.00, G:0.09, T:0.88
Consensus pattern (15 bp):
TTTTGTTTTGTTTTT
Found at i:4929761 original size:13 final size:12
Alignment explanation
Indices: 4929743--4929775 Score: 57
Period size: 13 Copynumber: 2.7 Consensus size: 12
4929733 TTTTATTTTG
4929743 TTTTTTTTTGTT
1 TTTTTTTTTGTT
4929755 TTGTTTTTTTGTT
1 TT-TTTTTTTGTT
4929768 TTTTTTTT
1 TTTTTTTT
4929776 CATCATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (12 bp):
TTTTTTTTTGTT
Found at i:4929771 original size:10 final size:10
Alignment explanation
Indices: 4929731--4929774 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
4929721 CTTTTATCTG
*
4929731 TGTTTTATTT
1 TGTTTTTTTT
4929741 TGTTTTTTTT
1 TGTTTTTTTT
4929751 TGTTTTGTTTTTT
1 TG--TT-TTTTTT
4929764 TGTTTTTTTT
1 TGTTTTTTTT
4929774 T
1 T
4929775 TCATCATTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
10 18 0.60
11 2 0.07
12 2 0.07
13 8 0.27
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.86
Consensus pattern (10 bp):
TGTTTTTTTT
Found at i:4933086 original size:32 final size:30
Alignment explanation
Indices: 4933050--4933108 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
4933040 GAAATCAAAT
4933050 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
4933082 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
4933109 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:4937927 original size:52 final size:52
Alignment explanation
Indices: 4937849--4937998 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
4937839 TGAAATATGA
* *
4937849 AAATTTGCCTACATGTATCGATACATTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
* *
4937901 AAATTTGACTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
*** *
4937953 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACAT
4937999 TTGAGTAATG
Statistics
Matches: 88, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 88 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
Found at i:4938077 original size:13 final size:13
Alignment explanation
Indices: 4938059--4938083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4938049 ACAAAACTTA
4938059 TGTATCGATACAT
1 TGTATCGATACAT
4938072 TGTATCGATACA
1 TGTATCGATACA
4938084 ACACTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:4938082 original size:32 final size:33
Alignment explanation
Indices: 4938038--4938103 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
4938028 AGTAGCTTAT
*
4938038 ATTGTATTGATACAAAAC-TTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
*
4938070 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAACTTTATGTATCGATAC
4938103 A
1 A
4938104 AATCGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 16 0.52
33 15 0.48
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (33 bp):
ATTGTATCGATACAAAACTTTATGTATCGATAC
Found at i:4948586 original size:17 final size:17
Alignment explanation
Indices: 4948567--4948600 Score: 59
Period size: 17 Copynumber: 1.9 Consensus size: 17
4948557 AAATATTAAT
4948567 AAATAAATAATATAATTA
1 AAATAAA-AATATAATTA
4948585 AAATAAAAATATAATT
1 AAATAAAAATATAATT
4948601 GTATCTCTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAATAAAAATATAATTA
Found at i:4949288 original size:2 final size:2
Alignment explanation
Indices: 4949283--4949316 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4949273 AAAATTGAAA
4949283 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4949317 GAATAGACTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4950175 original size:36 final size:35
Alignment explanation
Indices: 4950111--4950179 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
4950101 TGAATTATTT
* * *
4950111 ACACATTAAAATTTATATAAATTAATAATACTTTAA
1 ACACATAAAAAATAATATAAATTAATAAT-CTTTAA
4950147 ACACATAAAAAATAATATAAA-TATATAATCTTT
1 ACACATAAAAAATAATATAAATTA-ATAATCTTT
4950180 TCTTTTCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 6 0.21
36 23 0.79
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (35 bp):
ACACATAAAAAATAATATAAATTAATAATCTTTAA
Found at i:4951892 original size:18 final size:18
Alignment explanation
Indices: 4951859--4951905 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
4951849 TTTCCATTAT
*
4951859 ATTTCTTTTTTT-TCCTTC
1 ATTT-TTTTTTTCTCCTCC
4951877 -TTTTTTGTTTTCTCCTCC
1 ATTTTTT-TTTTCTCCTCC
4951895 ATTTTTTTTTT
1 ATTTTTTTTTT
4951906 TTGCATCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 7 0.28
18 9 0.36
19 6 0.24
ACGTcount: A:0.04, C:0.19, G:0.02, T:0.74
Consensus pattern (18 bp):
ATTTTTTTTTTCTCCTCC
Found at i:4953729 original size:13 final size:13
Alignment explanation
Indices: 4953711--4953736 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4953701 TACACCAAGT
4953711 ATGTATCGATACA
1 ATGTATCGATACA
4953724 ATGTATCGATACA
1 ATGTATCGATACA
4953737 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4959916 original size:13 final size:13
Alignment explanation
Indices: 4959898--4959935 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
4959888 CATTTTTCTT
4959898 TGTATCGATACAA
1 TGTATCGATACAA
*
4959911 TGTATCGATACAC
1 TGTATCGATACAA
4959924 TGTATCGATACA
1 TGTATCGATACA
4959936 GGGTGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:4960099 original size:20 final size:20
Alignment explanation
Indices: 4960056--4960101 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
4960046 AAATCTTTTG
4960056 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
4960077 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
4960097 CAAAA
1 CAAAA
4960102 CTAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:4961837 original size:67 final size:67
Alignment explanation
Indices: 4961729--4961868 Score: 280
Period size: 67 Copynumber: 2.1 Consensus size: 67
4961719 CATGTGCAAA
4961729 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTAATATAAGGGGAGAATG
1 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTAATATAAGGGGAGAATG
4961794 CG
66 CG
4961796 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTAATATAAGGGGAGAATG
1 TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTAATATAAGGGGAGAATG
4961861 CG
66 CG
4961863 TAAATT
1 TAAATT
4961869 GCTACAATTA
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 73 1.00
ACGTcount: A:0.31, C:0.03, G:0.24, T:0.42
Consensus pattern (67 bp):
TAAATTTTTGATATGTTTGAATTACTTGTTTAAGGGGGAGATTTTTTTAATATAAGGGGAGAATG
CG
Found at i:4962569 original size:13 final size:13
Alignment explanation
Indices: 4962551--4962576 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4962541 TACACCAAGT
4962551 ATGTATCGATACA
1 ATGTATCGATACA
4962564 ATGTATCGATACA
1 ATGTATCGATACA
4962577 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:4965284 original size:58 final size:57
Alignment explanation
Indices: 4965222--4965637 Score: 325
Period size: 58 Copynumber: 7.2 Consensus size: 57
4965212 AAAAATATCT
* * ** * * * *
4965222 TAAATAATATCAAAATTTATAAAATTGTATCAAAGTTCTTAAATCATGAAAATTGACC
1 TAAATAACATCAAAATTCATAAAATTACATAAAAGTCCCTAGATCATGAAAA-TGACC
* * * ** *
4965280 TAAATGACATAAAAAATTCATAGAATTACATCTAAGTCCCTAGATCATGGATAATGACC
1 TAAATAACAT-CAAAATTCATAAAATTACATAAAAGTCCCTAGATCAT-GAAAATGACC
* * *
4965339 TAAATGAA-ATCAAAATTCATAAAATTATATAAAAATCCCTGGATCATGACAAATGACC
1 TAAAT-AACATCAAAATTCATAAAATTACATAAAAGTCCCTAGATCATGA-AAATGACC
* * * * * *
4965397 TAAATGACATCAATATTCGTAAAATTATATAAAAGTCCCTAAATAATGAAAAATGACC
1 TAAATAACATCAAAATTCATAAAATTACATAAAAGTCCCTAGATCATG-AAAATGACC
* * * * * *
4965455 TAAATGACATCAACATTCATAAAATTACAAAAAAATCCTTAGATCATAAAAAAT-AGCC
1 TAAATAACATCAAAATTCATAAAATTACATAAAAGTCCCTAGATCAT-GAAAATGA-CC
* * * * * * *
4965513 TAAATGACATCAAACTTAATAAAATTGCACT-AAAGTCCTTTGATAATGAAAATGACC
1 TAAATAACATCAAAATTCATAAAATTACA-TAAAAGTCCCTAGATCATGAAAATGACC
* ** * * * *
4965570 TAAATTACATCAAAATTCATAAAATTACATCTAAGTCTCTAAATGATTGAAAATGACT
1 TAAATAACATCAAAATTCATAAAATTACATAAAAGTCCCTAGATCA-TGAAAATGACC
*
4965628 TAAATGACAT
1 TAAATAACAT
4965638 AAGGTATGCA
Statistics
Matches: 288, Mismatches: 58, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
56 1 0.00
57 45 0.16
58 196 0.68
59 41 0.14
60 5 0.02
ACGTcount: A:0.48, C:0.15, G:0.08, T:0.29
Consensus pattern (57 bp):
TAAATAACATCAAAATTCATAAAATTACATAAAAGTCCCTAGATCATGAAAATGACC
Found at i:4965473 original size:116 final size:112
Alignment explanation
Indices: 4965264--4965598 Score: 366
Period size: 116 Copynumber: 2.9 Consensus size: 112
4965254 AAGTTCTTAA
* * * *
4965264 ATCATGAAAATTGACCTAAATGACATAAAAAATTCATAGAATTACATCTAAGTCCCTAGATCATG
1 ATCATGAAAA-TGACCTAAATGACAT--CAAATTCATAAAATTACAT-AAAGTCCCTAGATAAT-
* * * * *
4965329 GATAATGACCTAAATGAAATCAAAATTCATAAAATTATATAAAAATCCCTGG
61 GAAAATGACCTAAATGACATCAAAATTCATAAAATTACAAAAAAATCCCTAG
* * *
4965381 ATCATGACAAATGACCTAAATGACATCAATATTCGTAAAATTATATAAAAGTCCCTAAATAATGA
1 ATCATGA-AAATGACCTAAATGACATCAA-ATTCATAAAATTACAT-AAAGTCCCTAGATAATG-
* *
4965446 AAAATGACCTAAATGACATCAACATTCATAAAATTACAAAAAAATCCTTAG
62 AAAATGACCTAAATGACATCAAAATTCATAAAATTACAAAAAAATCCCTAG
* * * * *
4965497 ATCATAAAAAAT-AGCCTAAATGACATCAAACTTAATAAAATTGCACTAAAGTCCTTTGATAATG
1 ATCAT-GAAAATGA-CCTAAATGACATCAAA-TTCATAAAATTACA-TAAAGTCCCTAGATAATG
*
4965561 AAAATGACCTAAATTACATCAAAATTCATAAAATTACA
62 AAAATGACCTAAATGACATCAAAATTCATAAAATTACA
4965599 TCTAAGTCTC
Statistics
Matches: 186, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
115 41 0.22
116 118 0.63
117 24 0.13
118 3 0.02
ACGTcount: A:0.49, C:0.16, G:0.08, T:0.27
Consensus pattern (112 bp):
ATCATGAAAATGACCTAAATGACATCAAATTCATAAAATTACATAAAGTCCCTAGATAATGAAAA
TGACCTAAATGACATCAAAATTCATAAAATTACAAAAAAATCCCTAG
Found at i:4968044 original size:35 final size:35
Alignment explanation
Indices: 4968005--4968075 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
4967995 TTTAAGTATT
4968005 TTGTTGTTATTGTGTGAAGTTGTTTCATGCTCAAA
1 TTGTTGTTATTGTGTGAAGTTGTTTCATGCTCAAA
*
4968040 TTGTTGTTTTTGTGTGAAGTTGTTTCATGCTCAAA
1 TTGTTGTTATTGTGTGAAGTTGTTTCATGCTCAAA
4968075 T
1 T
4968076 AATGATAAAA
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:0.18, C:0.08, G:0.23, T:0.51
Consensus pattern (35 bp):
TTGTTGTTATTGTGTGAAGTTGTTTCATGCTCAAA
Found at i:4970213 original size:19 final size:19
Alignment explanation
Indices: 4970174--4970218 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
4970164 AACACAACAC
*
4970174 TAATATGTTAAAATCTATA
1 TAATATGTTAAAATATATA
* *
4970193 TAATGTGTTAAAATATGTA
1 TAATATGTTAAAATATATA
4970212 TATATAT
1 TA-ATAT
4970219 ATATATAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 18 0.86
20 3 0.14
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.44
Consensus pattern (19 bp):
TAATATGTTAAAATATATA
Found at i:4971397 original size:34 final size:34
Alignment explanation
Indices: 4971351--4971535 Score: 266
Period size: 34 Copynumber: 5.5 Consensus size: 34
4971341 GTAAAAACCA
*
4971351 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
4971385 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
*
4971419 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
4971453 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
4971487 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
4971520 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
4971536 TCTCCCACTT
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
33 18 0.13
34 115 0.84
35 4 0.03
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:4971493 original size:102 final size:101
Alignment explanation
Indices: 4971351--4971535 Score: 325
Period size: 102 Copynumber: 1.8 Consensus size: 101
4971341 GTAAAAACCA
4971351 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
4971416 CACCCATTTAATCAACAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
4971453 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
4971518 CACCATTTAATCAACAAT
66 CACCATTTAATCAACAAT
4971536 TCTCCCACTT
Statistics
Matches: 79, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 16 0.20
102 63 0.80
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:4975628 original size:19 final size:19
Alignment explanation
Indices: 4975601--4975663 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
4975591 TCACGTGTAC
* *
4975601 AGTAACCGTATACTTGAAT
1 AGTACCCGTATACGTGAAT
4975620 AGTACCCGTATACGTGAAT
1 AGTACCCGTATACGTGAAT
**
4975639 AGTACCTATATACGTGAAT
1 AGTACCCGTATACGTGAAT
4975658 AGTACC
1 AGTACC
4975664 TCGACAACCA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (19 bp):
AGTACCCGTATACGTGAAT
Found at i:4976015 original size:34 final size:34
Alignment explanation
Indices: 4975969--4976151 Score: 262
Period size: 34 Copynumber: 5.4 Consensus size: 34
4975959 GTAAAAACCA
*
4975969 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
4976003 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
*
4976037 CCATTTAATCAACAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
4976071 CCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
4976105 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
4976138 CCATTTAATCAACA
1 CCATTTAATCAACA
4976152 CAACCGACAA
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
33 16 0.12
34 115 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:4976111 original size:102 final size:101
Alignment explanation
Indices: 4975969--4976151 Score: 321
Period size: 102 Copynumber: 1.8 Consensus size: 101
4975959 GTAAAAACCA
4975969 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
4976034 CACCCATTTAATCAACAATGGTAAGCTACCAAATCTC
66 CA-CCATTTAATCAACAATGGTAAGCTACCAAATCTC
* * * *
4976071 CCATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACTACCAAAT
1 CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
4976136 CACCATTTAATCAACA
66 CACCATTTAATCAACA
4976152 CAACCGACAA
Statistics
Matches: 77, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 14 0.18
102 63 0.82
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (101 bp):
CCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCACCAAAT
CACCATTTAATCAACAATGGTAAGCTACCAAATCTC
Found at i:4978117 original size:2 final size:2
Alignment explanation
Indices: 4978110--4978134 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4978100 CATCCTTCCT
4978110 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
4978135 GCGCATAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:4978675 original size:63 final size:59
Alignment explanation
Indices: 4978502--4978723 Score: 201
Period size: 59 Copynumber: 3.7 Consensus size: 59
4978492 TATGCTGATA
* * * *
4978502 GATTAGGTTCTTATCTTTTAAAAAACATAACTGATTCGGGTAAAGGCAGTTTTAGCCAGG
1 GATTGGGTTATTATCTTTT-AAAACCATAACTGATTCGGGTAAAGGAAGTTTTAGCCAGG
** ** * * * * * *
4978562 GATTGGGTTATTATCTTTTGCAACCATGCCTAATTTGGGTAAAGCAAGTTTTGGTCTGG
1 GATTGGGTTATTATCTTTTAAAACCATAACTGATTCGGGTAAAGGAAGTTTTAGCCAGG
* * * *
4978621 GATTGGGTTATCATCTATCTTTTAAAACCACAACTGATTCAGGTAAAGGTAGTTTTATCCAGG
1 GATTGGG-T-T-AT-TATCTTTTAAAACCATAACTGATTCGGGTAAAGGAAGTTTTAGCCAGG
* ** *
4978684 GATTGGGTTGTCGTCTTTAAAAACCATAACTGATTCGGGT
1 GATTGGGTTATTATCTTTTAAAACCATAACTGATTCGGGT
4978724 CAAGACAGTT
Statistics
Matches: 124, Mismatches: 34, Indels: 9
0.74 0.20 0.05
Matches are distributed among these distances:
59 59 0.48
60 19 0.15
61 2 0.02
62 3 0.02
63 41 0.33
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (59 bp):
GATTGGGTTATTATCTTTTAAAACCATAACTGATTCGGGTAAAGGAAGTTTTAGCCAGG
Found at i:4987256 original size:61 final size:61
Alignment explanation
Indices: 4987178--4987292 Score: 176
Period size: 61 Copynumber: 1.9 Consensus size: 61
4987168 AAAGATGGTA
* * * *
4987178 AAGATGAGAAGAGTGATAAAGATGCCAATATGCTGATTCAAGGCCAACGATATTAGTTTTT
1 AAGATGAGAAAAATGATAAAGATACCAATATGCTGATTCAAAGCCAACGATATTAGTTTTT
* *
4987239 AAGATGAGAAAAATGATAAAGGTACTAATATGCTGATTCAAAGCCAACGATATT
1 AAGATGAGAAAAATGATAAAGATACCAATATGCTGATTCAAAGCCAACGATATT
4987293 TGGGCTTAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (61 bp):
AAGATGAGAAAAATGATAAAGATACCAATATGCTGATTCAAAGCCAACGATATTAGTTTTT
Found at i:4987465 original size:43 final size:43
Alignment explanation
Indices: 4987412--4987493 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
4987402 ACAAAGGCAC
* * *
4987412 CAATATGCTGATTCAAGGCTAGTGATATTGGACTTAAAGGTGT
1 CAATATGCTGATTCAAGGCCAGAGACATTGGACTTAAAGGTGT
* *
4987455 CAATGTGCTGATTCAAGGCCAGAGACATTGGGCTTAAAG
1 CAATATGCTGATTCAAGGCCAGAGACATTGGACTTAAAG
4987494 ATGCGAAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
CAATATGCTGATTCAAGGCCAGAGACATTGGACTTAAAGGTGT
Found at i:4987527 original size:61 final size:61
Alignment explanation
Indices: 4987446--4987619 Score: 201
Period size: 61 Copynumber: 2.9 Consensus size: 61
4987436 ATATTGGACT
* * *
4987446 TAAAGGTGTCAATGTGCTGATTCAAGGCCAGAGACATTGGGCTTAAAGATGCGAAGAATGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGAGACATTGGGCTTAAAGATGAGAAGAATGA
* * * * *
4987507 TAAAGGTGCCAATATGCTGATTCGAGGCTAGTA-ATATCGGGCTTGAAGATGAGAAGAATGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAG-AGACATTGGGCTTAAAGATGAGAAGAATGA
* * *
4987568 TAAGGGTGCCAATATGCTAATTCAAGGCCA-ACG-CTATTGGTCTTAAAGATGA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAGA-GAC-ATTGGGCTTAAAGATGA
4987620 AGGTGCCAAT
Statistics
Matches: 93, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
59 1 0.01
61 91 0.98
62 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.25
Consensus pattern (61 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAGAGACATTGGGCTTAAAGATGAGAAGAATGA
Found at i:4987718 original size:32 final size:30
Alignment explanation
Indices: 4987670--4987787 Score: 137
Period size: 32 Copynumber: 3.7 Consensus size: 30
4987660 TAGAAGGAGA
4987670 TGCCACCGACTTGTGTGGGCTTTTGAAAGGGT
1 TGCCA-CGACTTGTGTGGGC-TTTGAAAGGGT
* *
4987702 TGTCACTGACTTGTGTGGGCTTTAAGAAGGGT
1 TGCCAC-GACTTGTGTGGGCTTTGA-AAGGGT
* *
4987734 TGCCACCAGCTTGTGTGGGCTTTGAAGGGGT
1 TGCCACGA-CTTGTGTGGGCTTTGAAAGGGT
*
4987765 TACCAGCGACTTGTGTGGGCTTT
1 TGCCA-CGACTTGTGTGGGCTTT
4987788 ACGTAGGATT
Statistics
Matches: 74, Mismatches: 8, Indels: 9
0.81 0.09 0.10
Matches are distributed among these distances:
31 29 0.39
32 45 0.61
ACGTcount: A:0.15, C:0.18, G:0.35, T:0.32
Consensus pattern (30 bp):
TGCCACGACTTGTGTGGGCTTTGAAAGGGT
Found at i:4987781 original size:63 final size:65
Alignment explanation
Indices: 4987661--4987788 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 65
4987651 CGTTAGACTT
**
4987661 AGAAGGAGATGCCACCGACTTGTGTGGGCTTTTGAAAGGGTTGTCACTGACTTGTGTGGGCTTTA
1 AGAAGGAGATGCCACCGACTTGTGTGGGCTTTTGAAAGGGTTACCACTGACTTGTGTGGGCTTTA
* *
4987726 AGAAGG-GTTGCCACC-AGCTTGTGTGGGC-TTTGAAGGGGTTACCAGC-GACTTGTGTGGGCTT
1 AGAAGGAGATGCCACCGA-CTTGTGTGGGCTTTTGAAAGGGTTACCA-CTGACTTGTGTGGGCTT
4987787 TA
64 TA
4987789 CGTAGGATTT
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
63 31 0.54
64 20 0.35
65 6 0.11
ACGTcount: A:0.19, C:0.16, G:0.35, T:0.30
Consensus pattern (65 bp):
AGAAGGAGATGCCACCGACTTGTGTGGGCTTTTGAAAGGGTTACCACTGACTTGTGTGGGCTTTA
Found at i:4988042 original size:28 final size:28
Alignment explanation
Indices: 4987966--4988058 Score: 134
Period size: 28 Copynumber: 3.4 Consensus size: 28
4987956 ATACCGCAAG
*
4987966 TGCCACTGA-TTGTGGACTTCAAAAAGA
1 TGCCACTGACTTGTGGACTTCGAAAAGA
*
4987993 TACCACTGACTTGTGGACTTCGAAAAGA
1 TGCCACTGACTTGTGGACTTCGAAAAGA
* *
4988021 TGCCACTGACTTGTGGACTTCGAAGAGG
1 TGCCACTGACTTGTGGACTTCGAAAAGA
*
4988049 TGCCATTGAC
1 TGCCACTGAC
4988059 GAGTGGGCTT
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 8 0.14
28 51 0.86
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (28 bp):
TGCCACTGACTTGTGGACTTCGAAAAGA
Found at i:4989437 original size:8 final size:8
Alignment explanation
Indices: 4989426--4989481 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
4989416 TTCTTGTTTG
4989426 TTGTTTTT
1 TTGTTTTT
*
4989434 TTG-TGTT
1 TTGTTTTT
*
4989441 TT-TTTGT
1 TTGTTTTT
4989448 TT-TTTTT
1 TTGTTTTT
4989455 TTGTTTTT
1 TTGTTTTT
*
4989463 TTATTTTT
1 TTGTTTTT
4989471 TTGTGTTTT
1 TTGT-TTTT
4989480 TT
1 TT
4989482 TTTACGAAGG
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 15 0.38
8 18 0.46
9 6 0.15
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (8 bp):
TTGTTTTT
Found at i:4989442 original size:10 final size:10
Alignment explanation
Indices: 4989422--4989482 Score: 74
Period size: 9 Copynumber: 6.3 Consensus size: 10
4989412 TTCTTTCTTG
4989422 TTTGTTGTTTT
1 TTTG-TGTTTT
4989433 TTTGTGTTTT
1 TTTGTGTTTT
4989443 TTTGT-TTTT
1 TTTGTGTTTT
*
4989452 TTTTTG-TTT
1 TTTGTGTTTT
*
4989461 TTT-TATTTT
1 TTTGTGTTTT
4989470 TTTGTGTTTT
1 TTTGTGTTTT
4989480 TTT
1 TTT
4989483 TTACGAAGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
8 1 0.02
9 20 0.45
10 19 0.43
11 4 0.09
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (10 bp):
TTTGTGTTTT
Found at i:4989449 original size:18 final size:18
Alignment explanation
Indices: 4989426--4989482 Score: 87
Period size: 18 Copynumber: 3.1 Consensus size: 18
4989416 TTCTTGTTTG
4989426 TTGTTTTTTTGTGTTTTT
1 TTGTTTTTTTGTGTTTTT
*
4989444 TTGTTTTTTTTTTGTTTTT
1 TTG-TTTTTTTGTGTTTTT
*
4989463 TTATTTTTTTGTGTTTTT
1 TTGTTTTTTTGTGTTTTT
4989481 TT
1 TT
4989483 TTACGAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
18 19 0.54
19 16 0.46
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (18 bp):
TTGTTTTTTTGTGTTTTT
Found at i:4989460 original size:29 final size:29
Alignment explanation
Indices: 4989426--4989484 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 29
4989416 TTCTTGTTTG
*
4989426 TTGTTTTTTTGTGTTTTTT-TGTTTTTTTT
1 TTGTTTTTTTAT-TTTTTTGTGTTTTTTTT
4989455 TTGTTTTTTTATTTTTTTGTGTTTTTTTT
1 TTGTTTTTTTATTTTTTTGTGTTTTTTTT
4989484 T
1 T
4989485 ACGAAGGATG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
28 6 0.21
29 22 0.79
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (29 bp):
TTGTTTTTTTATTTTTTTGTGTTTTTTTT
Found at i:5003832 original size:61 final size:61
Alignment explanation
Indices: 5003767--5003890 Score: 185
Period size: 61 Copynumber: 2.0 Consensus size: 61
5003757 ATGAAAAGAG
** * *
5003767 TGATAAAGATGCCAATATGCTGATTCAGGGCTAACGATATTGGGCTTAAAGATGGGAAAAA
1 TGATAAAGATGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTTAAAGATGCGAAAAA
* * *
5003828 TGATAAAGGTGCCAATATGTTGATTCAAAGCCAACGATATTGGGCTTAAAGATGCGAAGAA
1 TGATAAAGATGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTTAAAGATGCGAAAAA
5003889 TG
1 TG
5003891 TTAATGTGCT
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (61 bp):
TGATAAAGATGCCAATATGCTGATTCAAAGCCAACGATATTGGGCTTAAAGATGCGAAAAA
Found at i:5003963 original size:43 final size:43
Alignment explanation
Indices: 5003897--5004055 Score: 165
Period size: 43 Copynumber: 3.5 Consensus size: 43
5003887 AATGTTAATG
**
5003897 TGCTGATTCAAGGCCAATAACATTAGACTTAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAACGACATTAGACTTAAAGGTGCCAATA
*
5003940 TGCTGATTCAAGGCCAGCGACATTAGACTTAAAGTTGACAAAGATGCCAATA
1 TGCTGATTCAAGGCCAACGACATTAGACTTAAA---G-----G-TGCCAATA
* * * *
5003992 TGCTGATTCAAGGCCAGCGATATTAGACTTAAAGGTGTCAATG
1 TGCTGATTCAAGGCCAACGACATTAGACTTAAAGGTGCCAATA
*
5004035 TACTGATTCAAGGCCAACGAC
1 TGCTGATTCAAGGCCAACGAC
5004056 GTTGGGCTTA
Statistics
Matches: 98, Mismatches: 9, Indels: 18
0.78 0.07 0.14
Matches are distributed among these distances:
43 54 0.55
44 1 0.01
46 1 0.01
49 1 0.01
51 1 0.01
52 40 0.41
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (43 bp):
TGCTGATTCAAGGCCAACGACATTAGACTTAAAGGTGCCAATA
Found at i:5003996 original size:95 final size:95
Alignment explanation
Indices: 5003831--5004072 Score: 279
Period size: 95 Copynumber: 2.5 Consensus size: 95
5003821 GGAAAAATGA
* * * * * * **
5003831 TAAAGGTGCCAATATGTTGATTCAAAGCCAACGATATTGGGCTTAAAGATGCGAAGAATGTTAAT
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGCAAAGAATGCCAAT
* *
5003896 GTGCTGATTCAAGGCCAATAACATTAGACT
66 ATGCTGATTCAAGGCCAACAACATTAGACT
* *
5003926 TAAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGTTGACAAAG-ATGCCAA
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATG-CAAAGAATGCCAA
* * *
5003990 TATGCTGATTCAAGGCCAGCGATATTAGACT
65 TATGCTGATTCAAGGCCAACAACATTAGACT
* * * * * *
5004021 TAAAGGTGTCAATGTACTGATTCAAGGCCAACGACGTTGGGCTTAAAGATGC
1 TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGC
5004073 GAGGAATAAT
Statistics
Matches: 123, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
94 1 0.01
95 118 0.96
96 4 0.03
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (95 bp):
TAAAGGTGCCAATATGCTGATTCAAGGCCAACGACATTAGACTTAAAGATGCAAAGAATGCCAAT
ATGCTGATTCAAGGCCAACAACATTAGACT
Found at i:5004010 original size:52 final size:52
Alignment explanation
Indices: 5003927--5004025 Score: 180
Period size: 52 Copynumber: 1.9 Consensus size: 52
5003917 CATTAGACTT
*
5003927 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGTTGAC
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGTTGAC
*
5003979 AAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
1 AAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAG
5004026 GTGTCAATGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 45 1.00
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.23
Consensus pattern (52 bp):
AAAGATGCCAATATGCTGATTCAAGGCCAGCGACATTAGACTTAAAGTTGAC
Found at i:5004104 original size:61 final size:61
Alignment explanation
Indices: 5004021--5004176 Score: 150
Period size: 61 Copynumber: 2.6 Consensus size: 61
5004011 ATATTAGACT
* * * ** *
5004021 TAAAGGTGTCAATGTACTGATTCAAGGCCAACGACGTTGGGCTTAAAGATGCGAGGAATAA
1 TAAAGGTGCCAATATACTGATTCAAGGCCAACGACATCAGGCTTAAAGATGCGAAGAATAA
* ** * * * * *
5004082 TAAAGGTGCCAATATGCTGATTCGTGGCCAGCAATATCAGGCTTAAAGATGGGAAGAATGA
1 TAAAGGTGCCAATATACTGATTCAAGGCCAACGACATCAGGCTTAAAGATGCGAAGAATAA
* * * *
5004143 TAAGGGTGGCAATACACTAATTCAAGGCCAACGA
1 TAAAGGTGCCAATATACTGATTCAAGGCCAACGA
5004177 TATTGGTTTT
Statistics
Matches: 72, Mismatches: 23, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.35, C:0.16, G:0.27, T:0.22
Consensus pattern (61 bp):
TAAAGGTGCCAATATACTGATTCAAGGCCAACGACATCAGGCTTAAAGATGCGAAGAATAA
Found at i:5004343 original size:31 final size:31
Alignment explanation
Indices: 5004245--5004363 Score: 138
Period size: 32 Copynumber: 3.8 Consensus size: 31
5004235 TAGAAGGAGA
5004245 TGCCACTAG-CTTGTGTGGGCTTTTGAAAGGGT
1 TGCCACTAGACTTGTGTGGGC-TTT-AAAGGGT
* * *
5004277 TACCA-TTGACTTGTGTGGGGTTTAAGAAGGGT
1 TGCCACTAGACTTGTGTGGGCTTT-A-AAGGGT
5004309 TGCCACTAG-CTTGTGTGGGCTTTAAAGGGGT
1 TGCCACTAGACTTGTGTGGGCTTTAAA-GGGT
5004340 TGCCACT-GACTTGTGTGGGCTTTA
1 TGCCACTAGACTTGTGTGGGCTTTA
5004364 CGAAGGATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 11
0.81 0.08 0.12
Matches are distributed among these distances:
30 3 0.04
31 33 0.44
32 37 0.49
33 2 0.03
ACGTcount: A:0.17, C:0.15, G:0.34, T:0.34
Consensus pattern (31 bp):
TGCCACTAGACTTGTGTGGGCTTTAAAGGGT
Found at i:5004369 original size:63 final size:64
Alignment explanation
Indices: 5004236--5004369 Score: 191
Period size: 63 Copynumber: 2.1 Consensus size: 64
5004226 CGTTGGACAT
* * *
5004236 AGAAGGAGATGCCACTAGCTTGTGTGGGCTTTTGAAAGGGTTACCATTGACTTGTGTGGGGTTTA
1 AGAAGG-GTTGCCACTAGCTTGTGTGGGCTTTTGAAAGGGTTACCACTGACTTGTGTGGGCTTTA
*
5004301 AGAAGGGTTGCCACTAGCTTGTGTGGGC-TTT-AAAGGGGTTGCCACTGACTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACTAGCTTGTGTGGGCTTTTGAAA-GGGTTACCACTGACTTGTGTGGGCTTTA
*
5004364 CGAAGG
1 AGAAGG
5004370 ATTTCTCCAT
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
62 3 0.05
63 33 0.52
64 21 0.33
65 6 0.10
ACGTcount: A:0.20, C:0.14, G:0.35, T:0.31
Consensus pattern (64 bp):
AGAAGGGTTGCCACTAGCTTGTGTGGGCTTTTGAAAGGGTTACCACTGACTTGTGTGGGCTTTA
Found at i:5004589 original size:28 final size:28
Alignment explanation
Indices: 5004542--5004641 Score: 132
Period size: 28 Copynumber: 3.6 Consensus size: 28
5004532 TATACCGCAA
5004542 GTGCCACTGA-TTGTGGACTTCGAAAAG
1 GTGCCACTGACTTGTGGACTTCGAAAAG
* * *
5004569 ATGCCACTGACTTGTGCACTTCGAAGAG
1 GTGCCACTGACTTGTGGACTTCGAAAAG
5004597 GTGCCACTGACTTGTGGACTTC-AAACAG
1 GTGCCACTGACTTGTGGACTTCGAAA-AG
* *
5004625 GTGCCATTGACTGGTGG
1 GTGCCACTGACTTGTGG
5004642 GCTTTAAAGG
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
27 11 0.17
28 52 0.83
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGACTTCGAAAAG
Found at i:5016919 original size:20 final size:22
Alignment explanation
Indices: 5016890--5016929 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
5016880 ATACTCAAAA
5016890 ATTTTGAAAA-AATTGTTTAGT
1 ATTTTGAAAATAATTGTTTAGT
*
5016911 ATTTT-AAAATAATTTTTTA
1 ATTTTGAAAATAATTGTTTA
5016930 ACCCGAGCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (22 bp):
ATTTTGAAAATAATTGTTTAGT
Found at i:5018331 original size:33 final size:32
Alignment explanation
Indices: 5018294--5018356 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
5018284 CTACATTATT
5018294 TGTATCGATACATG-GCACATTGTATCGATATAA
1 TGTATCGATACATGAG-A-ATTGTATCGATATAA
5018327 TGTATCGATACATGATGAATTGTATCGATA
1 TGTATCGATACATGA-GAATTGTATCGATA
5018357 CATTTCTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 26 0.93
34 1 0.04
35 1 0.04
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATGAGAATTGTATCGATATAA
Found at i:5026991 original size:13 final size:13
Alignment explanation
Indices: 5026973--5026999 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5026963 ATATTATGCT
5026973 TTGTATCGATACA
1 TTGTATCGATACA
5026986 TTGTATCGATACA
1 TTGTATCGATACA
5026999 T
1 T
5027000 ACACAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:5027074 original size:20 final size:19
Alignment explanation
Indices: 5027049--5027102 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
5027039 CTACTACTAT
5027049 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
5027069 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
5027089 TTGTATCGATACAT
1 TTGTATCGATACAT
5027103 TGCTTCTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:5030548 original size:52 final size:52
Alignment explanation
Indices: 5030400--5030528 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
5030390 CGAAATATGA
*
5030400 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
*
5030452 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
5030504 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
5030529 AAGATCAGTG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTAGGC
Found at i:5030628 original size:19 final size:18
Alignment explanation
Indices: 5030604--5030733 Score: 110
Period size: 19 Copynumber: 7.8 Consensus size: 18
5030594 TAGCTTACAT
5030604 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
5030623 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
5030636 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
5030655 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
5030668 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
5030687 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
5030700 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
5030720 TGTATCGATACAAA
1 TGTATCGATACAAA
5030734 TCATTGAAAT
Statistics
Matches: 92, Mismatches: 0, Indels: 38
0.71 0.00 0.29
Matches are distributed among these distances:
13 33 0.36
14 3 0.03
16 6 0.07
18 2 0.02
19 35 0.38
20 13 0.14
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:5030640 original size:32 final size:32
Alignment explanation
Indices: 5030599--5030731 Score: 239
Period size: 32 Copynumber: 4.1 Consensus size: 32
5030589 AGCAGTAGCT
5030599 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
5030631 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
5030663 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAAAACTTATGTATCGA
*
5030695 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAAAAC-TTATGTATCGA
5030728 TACA
1 TACA
5030732 AATCATTGAA
Statistics
Matches: 99, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
32 84 0.85
33 15 0.15
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAAAACTTATGTATCGA
Found at i:5030641 original size:13 final size:13
Alignment explanation
Indices: 5030623--5030711 Score: 70
Period size: 13 Copynumber: 5.9 Consensus size: 13
5030613 ACAAAACTTA
5030623 TGTATCGATACAT
1 TGTATCGATACAT
5030636 TGTATCGATACAAAACTT
1 TGTATCGATAC---A--T
5030654 ATGTATCGATACAT
1 -TGTATCGATACAT
5030668 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
5030686 ATGTATCGATACAT
1 -TGTATCGATACAT
5030700 TGTATCGATACA
1 TGTATCGATACA
5030712 ACACTTTATG
Statistics
Matches: 64, Mismatches: 0, Indels: 24
0.73 0.00 0.27
Matches are distributed among these distances:
13 32 0.50
14 2 0.03
16 8 0.12
18 2 0.03
19 20 0.31
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5032186 original size:38 final size:38
Alignment explanation
Indices: 5032076--5032217 Score: 123
Period size: 38 Copynumber: 3.8 Consensus size: 38
5032066 GTTTCAACTG
* ** *
5032076 TGCCACCAATTAAGAATAATAATTTTTGTTTC-AACACG
1 TGCCACCAGTTAAGAATAATGGTTTTTGTTTCGAAC-CA
* *
5032114 TGCCACCAG-TAAG-ATAGTGGTTTTT-ATTCTGAACCA
1 TGCCACCAGTTAAGAATAATGGTTTTTGTTTC-GAACCA
* *
5032150 TGCTACTAGTTAAGAATAATGGTTTTTGTTTCGAACCA
1 TGCCACCAGTTAAGAATAATGGTTTTTGTTTCGAACCA
* * *
5032188 TACCACCAGATTAA-AATAGTAGTTTTTGTT
1 TGCCACCAG-TTAAGAATAATGGTTTTTGTT
5032218 CTGACCTATA
Statistics
Matches: 83, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
35 3 0.04
36 17 0.20
37 11 0.13
38 45 0.54
39 7 0.08
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (38 bp):
TGCCACCAGTTAAGAATAATGGTTTTTGTTTCGAACCA
Found at i:5032294 original size:116 final size:116
Alignment explanation
Indices: 5032159--5032370 Score: 318
Period size: 116 Copynumber: 1.8 Consensus size: 116
5032149 ATGCTACTAG
* *
5032159 TTAAGAATAATGGTTTTTGTTTCGAACCATACCACCAGATTAAAATAGTAGTTTTTGTTCTGACC
1 TTAAGAATAATAGTTTTTGTTTCGAACCATACCACCAGATTAAAATAGTAGTTTTTGTTCTAACC
5032224 TATACCAT-GGGGCTTAAATGTGGTTTTAGTAAAATTATGGGATACTACCAA
66 TATACCATAGGGG-TTAAATGTGGTTTTAGTAAAATTATGGGATACTACCAA
* * * * *
5032275 TTAAGAATAATAGTTTTTGTTTTGAACCGTACCATCGGATTAAAATAGTAGTTTTTGTTTTAACC
1 TTAAGAATAATAGTTTTTGTTTCGAACCATACCACCAGATTAAAATAGTAGTTTTTGTTCTAACC
* * *
5032340 TATGCTATAGGGGTTAACTGTGGTTTTAGTA
66 TATACCATAGGGGTTAAATGTGGTTTTAGTA
5032371 TGTTACGGGA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
116 81 0.95
117 4 0.05
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (116 bp):
TTAAGAATAATAGTTTTTGTTTCGAACCATACCACCAGATTAAAATAGTAGTTTTTGTTCTAACC
TATACCATAGGGGTTAAATGTGGTTTTAGTAAAATTATGGGATACTACCAA
Found at i:5037966 original size:37 final size:38
Alignment explanation
Indices: 5037925--5038045 Score: 106
Period size: 38 Copynumber: 3.2 Consensus size: 38
5037915 AAAATAGTGA
* **
5037925 TTTTTGTTTCG-ACCTGTGCCATTGG-TAAGAATAATAG
1 TTTTTGTTTCGAATC-GTGCCACCGGTTAAGAATAATAG
5037962 TTTTTG-TTCTGAATCGTGCCACCGGTTAAGAATAATAG
1 TTTTTGTTTC-GAATCGTGCCACCGGTTAAGAATAATAG
* * * * * *
5038000 TTTTTATTTCGAACCATACCATCGGATT-AGAATAGTAG
1 TTTTTGTTTCGAATCGTGCCACCGG-TTAAGAATAATAG
5038038 TTTTTGTT
1 TTTTTGTT
5038046 CTAACTTATG
Statistics
Matches: 69, Mismatches: 10, Indels: 9
0.78 0.11 0.10
Matches are distributed among these distances:
36 3 0.04
37 15 0.22
38 46 0.67
39 5 0.07
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (38 bp):
TTTTTGTTTCGAATCGTGCCACCGGTTAAGAATAATAG
Found at i:5038001 original size:38 final size:40
Alignment explanation
Indices: 5037950--5038047 Score: 114
Period size: 38 Copynumber: 2.5 Consensus size: 40
5037940 GTGCCATTGG
* * *
5037950 TAAGAATAATAGTTTTTGTTCT-GAATCGTGCCACCGG-T
1 TAAGAATAATAGTTTTTGTTCTCGAACCATACCACCGGAT
* *
5037988 TAAGAATAATAGTTTTTATT-TCGAACCATACCATCGGAT
1 TAAGAATAATAGTTTTTGTTCTCGAACCATACCACCGGAT
*
5038027 T-AGAATAGTAGTTTTTGTTCT
1 TAAGAATAATAGTTTTTGTTCT
5038048 AACTTATGTC
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.02
38 46 0.92
39 3 0.06
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (40 bp):
TAAGAATAATAGTTTTTGTTCTCGAACCATACCACCGGAT
Found at i:5049143 original size:9 final size:9
Alignment explanation
Indices: 5049129--5049216 Score: 95
Period size: 10 Copynumber: 9.1 Consensus size: 9
5049119 GTACCAAAAC
5049129 AAAAAACAA
1 AAAAAACAA
5049138 AAAAAACAAA
1 AAAAAAC-AA
5049148 AAAAAACAAA
1 AAAAAAC-AA
5049158 AAAGAAACAA
1 AAA-AAACAA
5049168 AAAAAACCAA
1 AAAAAA-CAA
*
5049178 GAAAAAAAACA
1 -AAAAAACA-A
5049189 AAAAAACAA
1 AAAAAACAA
*
5049198 AAAAAATAA
1 AAAAAACAA
*
5049207 AAAAACCAA
1 AAAAAACAA
5049216 A
1 A
5049217 GGCAATAAAA
Statistics
Matches: 69, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
9 27 0.39
10 31 0.45
11 11 0.16
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (9 bp):
AAAAAACAA
Found at i:5049151 original size:17 final size:17
Alignment explanation
Indices: 5049124--5049250 Score: 88
Period size: 17 Copynumber: 7.7 Consensus size: 17
5049114 CCATCGTACC
*
5049124 AAAACAAAAAACA-AAA
1 AAAACAAAAAAAACAAA
5049140 AAAACAAAAAAAAACAAA
1 AAAAC-AAAAAAAACAAA
*
5049158 AAAGA-AACAAAAA-AAA
1 AAA-ACAAAAAAAACAAA
** *
5049174 CCAAGAAAAAAAACAAA
1 AAAACAAAAAAAACAAA
*
5049191 AAAACAAAAAAAATAAA
1 AAAACAAAAAAAACAAA
* **
5049208 AAAAC--CAAAGGCAATA
1 AAAACAAAAAAAACAA-A
5049224 AAAAC--AAAAAACAAA
1 AAAACAAAAAAAACAAA
*
5049239 CAAACAAAAAAA
1 AAAACAAAAAAA
5049251 GGTCTAAATG
Statistics
Matches: 86, Mismatches: 17, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
15 11 0.13
16 28 0.33
17 40 0.47
18 6 0.07
19 1 0.01
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.02
Consensus pattern (17 bp):
AAAACAAAAAAAACAAA
Found at i:5049183 original size:33 final size:30
Alignment explanation
Indices: 5049123--5049211 Score: 117
Period size: 30 Copynumber: 2.9 Consensus size: 30
5049113 TCCATCGTAC
5049123 CAAAACAAAAAACAAAAAAAACAAAAAAAAA
1 CAAAA-AAAAAACAAAAAAAACAAAAAAAAA
* *
5049154 CAAAAAAGAAACAAAAAAAACCAAGAAAAAA
1 CAAAAAAAAAACAAAAAAAA-CAAAAAAAAA
* *
5049185 -AACAAAAAAACAAAAAAAATAAAAAAA
1 CAAAAAAAAAACAAAAAAAACAAAAAAA
5049212 CCAAAGGCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
29 6 0.12
30 31 0.61
31 14 0.27
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (30 bp):
CAAAAAAAAAACAAAAAAAACAAAAAAAAA
Found at i:5049227 original size:1 final size:1
Alignment explanation
Indices: 5049124--5049211 Score: 68
Period size: 1 Copynumber: 88.0 Consensus size: 1
5049114 CCATCGTACC
* * * * * * ** * *
5049124 AAAACAAAAAACAAAAAAAACAAAAAAAAACAAAAAAGAAACAAAAAAAACCAAGAAAAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
5049189 AAAAAACAAAAAAAATAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAA
5049212 CCAAAGGCAA
Statistics
Matches: 65, Mismatches: 22, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 65 1.00
ACGTcount: A:0.86, C:0.10, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:5050527 original size:28 final size:28
Alignment explanation
Indices: 5050496--5050657 Score: 245
Period size: 28 Copynumber: 5.8 Consensus size: 28
5050486 CGTTCATCTC
* *
5050496 TTCAAAGCTCACAAGTAAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
* *
5050524 TTCAAAGCCCATAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
5050552 TTCAAAGCCTACAAGTCAGTGGCA-CTCT
1 TTCAAAGCCCACAAGTCAGTGGCATC-CT
*
5050580 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
*
5050608 TTCAAAGCCCACAAGTTAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCCT
5050636 TTCAAAGCCCACAAGTCAGTGG
1 TTCAAAGCCCACAAGTCAGTGG
5050658 TGTCGTGACG
Statistics
Matches: 122, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
27 1 0.01
28 120 0.98
29 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCCT
Found at i:5050639 original size:84 final size:84
Alignment explanation
Indices: 5050496--5050657 Score: 270
Period size: 84 Copynumber: 1.9 Consensus size: 84
5050486 CGTTCATCTC
* * *
5050496 TTCAAAGCTCACAAGTAAGTGGCATCCTTTCAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCC
1 TTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
*
5050561 TACAAGTCAGTGGCACTCT
66 CACAAGTCAGTGGCACTCT
* *
5050580 TTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCC
1 TTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
5050645 CACAAGTCAGTGG
66 CACAAGTCAGTGG
5050658 TGTCGTGACG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
84 72 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.25
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTAAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCC
CACAAGTCAGTGGCACTCT
Found at i:5051749 original size:79 final size:79
Alignment explanation
Indices: 5051608--5051866 Score: 342
Period size: 79 Copynumber: 3.3 Consensus size: 79
5051598 TGGAGATAAC
*
5051608 AACGGGGCTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
*
5051673 ATCCCCTTGAAAAT
66 ATCCCCTCGAAAAT
* * ** * ** *
5051687 AACGGGGTTGGAGTATCCCCGGTTGTGAAAAATTGATGA-TTAGGAAATAAAATCGGGATTGGAG
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAAT-ATTTTGGAAATAAAGCCGGGGTTGGAG
5051751 TATCCCCTCGAAAAT
65 TATCCCCTCGAAAAT
* * * *
5051766 AACGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
* **
5051831 ATCCCC-CGGAGGT
66 ATCCCCTCGAAAAT
5051844 AACGGGGTTGGAGTATCCCCGAT
1 AACGGGGTTGGAGTATCCCCGAT
5051867 GAAATAACGA
Statistics
Matches: 151, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
78 26 0.17
79 124 0.82
80 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGT
ATCCCCTCGAAAAT
Found at i:5051857 original size:27 final size:28
Alignment explanation
Indices: 5051819--5051889 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
5051809 GGAATAAAGC
**
5051819 CGGGGTTGGAGTATCCCCCG-GAGGTAA
1 CGGGGTTGGAGTATCCCCCGAGAAATAA
5051846 CGGGGTTGGAGTAT-CCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCCGA-GAAATAA
*
5051874 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
5051890 TCGATTGTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 5 0.13
27 14 0.37
28 18 0.47
29 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.37, T:0.21
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCCGAGAAATAA
Found at i:5051947 original size:52 final size:51
Alignment explanation
Indices: 5051877--5052272 Score: 280
Period size: 52 Copynumber: 7.6 Consensus size: 51
5051867 GAAATAACGA
* * *
5051877 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * *
5051929 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTT-GAAGATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAA-ATAAAATCGG
* * * * * *
5051981 GGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
* *** * * *
5052032 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAAT-AAAGCTAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATC-GG
* **** * ** * * *
5052083 GGTGGGAGTATCCCCTCGGAGGTAACGAGGTTGGAGTATCCCT-GATAA-AATAAT-GA
1 GGTTGGAGTATCCCCGATTATG-AA--AAATTGGTGT-T--TTGGA-AATAA-AATCGG
* *
5052139 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGG
* * * * *
5052191 AGTTGGAGTATCCCTGATTAAAGGAAAATTGGTGTTTTGAAAATAAAATCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGG
*
5052243 GGTTGGAGTATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
5052273 AGAAACTTAA
Statistics
Matches: 261, Mismatches: 65, Indels: 37
0.72 0.18 0.10
Matches are distributed among these distances:
50 4 0.02
51 94 0.36
52 105 0.40
53 29 0.11
54 4 0.02
55 3 0.01
56 16 0.06
57 4 0.02
58 2 0.01
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGG
Found at i:5052170 original size:262 final size:261
Alignment explanation
Indices: 5051768--5052261 Score: 844
Period size: 262 Copynumber: 1.9 Consensus size: 261
5051758 TCGAAAATAA
* * *
5051768 CGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCAGGGTGGGAGTAT
* *
5051833 CCCCCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGT
66 CCCCCGGAGGTAACGAGGTTGGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCTCGATTGT
5051898 GAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
131 GAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
5051963 TTTTGAAGATAAAACCGGGGTTGGAGTATCCCTGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
196 TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
5052028 C
261 C
* * *
5052029 CGGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCTAGGGTGGGAGTAT
1 CGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCAGGGTGGGAGTAT
* *
5052094 CCCCTCGGAGGTAACGAGGTTGGAGTATCCCTGATAAAATAATGAGGTTGGAGTATCCTCGATTG
66 CCCC-CGGAGGTAACGAGGTTGGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCTCGATTG
* *
5052159 TGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCTGATTAAAGGAAAATTGGT
130 TGAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGT
*
5052224 GTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCGATT
195 GTTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATT
5052262 ATGAACAATT
Statistics
Matches: 217, Mismatches: 15, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
261 63 0.29
262 154 0.71
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (261 bp):
CGGGGTTAGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCAGGGTGGGAGTAT
CCCCCGGAGGTAACGAGGTTGGAGTATCCCCGATAAAATAACGAGGTTGGAGTATCCTCGATTGT
GAAAAATTGGTGTTTTTGGAAATAAAATCGAAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
TTTTGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAATTAGTGTTTTAGAAATAAAA
C
Found at i:5054691 original size:21 final size:21
Alignment explanation
Indices: 5054665--5054706 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
5054655 TGTATTGATA
5054665 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
5054686 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
5054707 GGCAGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.10, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:5054755 original size:19 final size:18
Alignment explanation
Indices: 5054731--5054793 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
5054721 AATGATACAT
5054731 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
5054750 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
5054763 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
5054782 TGTATCGATACA
1 TGTATCGATACA
5054794 TTTTCTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:5054765 original size:32 final size:32
Alignment explanation
Indices: 5054724--5054795 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 32
5054714 GCTTCGTAAT
5054724 GATACATTGTATCGATACAAAACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
*
5054756 GATACATTGTATCGATACAACACTTATGTATC
1 GATACATTGTATCGATACAAAACTTATGTATC
5054788 GATACATT
1 GATACATT
5054796 TTCTGTTTGT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (32 bp):
GATACATTGTATCGATACAAAACTTATGTATC
Found at i:5054768 original size:13 final size:13
Alignment explanation
Indices: 5054750--5054774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5054740 ACAAAACTTA
5054750 TGTATCGATACAT
1 TGTATCGATACAT
5054763 TGTATCGATACA
1 TGTATCGATACA
5054775 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:5054822 original size:19 final size:19
Alignment explanation
Indices: 5054762--5054822 Score: 61
Period size: 19 Copynumber: 3.1 Consensus size: 19
5054752 TATCGATACA
5054762 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* **
5054781 ATGTATCGATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
5054802 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
5054821 TT
1 TT
5054823 AAAGTTCAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
19 18 0.55
20 2 0.06
21 13 0.39
ACGTcount: A:0.28, C:0.16, G:0.13, T:0.43
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:5055190 original size:28 final size:28
Alignment explanation
Indices: 5055105--5055690 Score: 601
Period size: 28 Copynumber: 20.9 Consensus size: 28
5055095 GGTGTCTACA
5055105 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* **
5055133 ---GGCATCTTTTCAAAAAACCACAAGTC
1 AGTGGCATCCTTTC-AAAGCCCACAAGTC
* *
5055159 AGTGGCATCTTTTCAAAGCCCACAAGTT
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
*
5055187 AGTGGCATCCTTTCAAAGCCCACAAGTT
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
5055215 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* *
5055243 AATGGCAT-CTCTTCAAAAGACCACAAGTC
1 AGTGGCATCCT-TTC-AAAGCCCACAAGTC
* *
5055272 AAGTGGCATCCTTTCAAAACCCACAAATC
1 -AGTGGCATCCTTTCAAAGCCCACAAGTC
* *
5055301 AGTGGCACCCTTCCAAAGCCCACAAGTC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* * * * * *
5055329 AGTGGTACCCCTTCAAAACCCATAAATC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* * * *
5055357 AGTAGCA-CCCTTCAAAAGACCATAAGTC
1 AGTGGCATCCTTTC-AAAGCCCACAAGTC
** *
5055385 AGTAACATCCTTTCAAAGCCCACAAATC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* *
5055413 AGTGGCACCCTTCCAAAGCCCACAAGTC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* * *
5055441 AGTGGTATCCTTTCAAAGCCGACAAATC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* * * ** *
5055469 AATGGCACCCTTCCAAAGCCCGTAAATC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* ** *
5055497 AGTGGCA-CCCTTCAAAATACCATAAGTC
1 AGTGGCATCCTTTC-AAAGCCCACAAGTC
*
5055525 AGTGGCATCCTTTCAAAGCCCACAAATC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* * *
5055553 AGTGGCA-CCCTTCAAAAGACCACAAGTT
1 AGTGGCATCCTTTC-AAAGCCCACAAGTC
5055581 AGTGGCATCCTTTCAAAGCCCACAAGTC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
* *
5055609 AGTGGTACCCTTTCAAAGCCCACAAGTC
1 AGTGGCATCCTTTCAAAGCCCACAAGTC
*
5055637 AGTGGCATACCCTTTTAAAGCCCACAAGTC
1 AGTGGCAT--CCTTTCAAAGCCCACAAGTC
* *
5055667 GGTGGCACCCTTTCAAAGCCCACA
1 AGTGGCATCCTTTCAAAGCCCACA
5055691 CAAGTTGGTG
Statistics
Matches: 464, Mismatches: 78, Indels: 32
0.81 0.14 0.06
Matches are distributed among these distances:
25 10 0.02
26 12 0.03
27 17 0.04
28 338 0.73
29 50 0.11
30 35 0.08
31 2 0.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (28 bp):
AGTGGCATCCTTTCAAAGCCCACAAGTC
Found at i:5055871 original size:45 final size:48
Alignment explanation
Indices: 5055820--5055951 Score: 146
Period size: 49 Copynumber: 2.8 Consensus size: 48
5055810 AAATTTGATA
* * *
5055820 TCGTTGGCATTGAATCAGTATATTAG-CAC-CTTT-ATTAGCCCAATG
1 TCGTTGGCCTTGAATCAGCACATTAGCCACTCTTTCATTAGCCCAATG
* * *
5055865 TCGTTGGCCTTGAATCAGCACATTGGTCCACTTTTTCCTTAGCCCAATG
1 TCGTTGGCCTTGAATCAGCACATTAG-CCACTCTTTCATTAGCCCAATG
* *
5055914 TCGTTGGCCTTGAATTAGCACATT-GGCACTCTTCTCAT
1 TCGTTGGCCTTGAATCAGCACATTAGCCACTCTT-TCAT
5055952 CTCTAAGTCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
45 22 0.31
47 9 0.12
48 7 0.10
49 34 0.47
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (48 bp):
TCGTTGGCCTTGAATCAGCACATTAGCCACTCTTTCATTAGCCCAATG
Found at i:5056636 original size:20 final size:20
Alignment explanation
Indices: 5056611--5056665 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
5056601 TTTTATCTAG
* *
5056611 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTATAA
** *
5056631 ATGTATTAATACATGTATAA
1 ATGTATCGATACATTTATAA
5056651 ATGTATCGATACATT
1 ATGTATCGATACATT
5056666 CTGCCTTTTT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:5056755 original size:67 final size:69
Alignment explanation
Indices: 5056600--5056763 Score: 235
Period size: 71 Copynumber: 2.4 Consensus size: 69
5056590 AAAAGTCACA
* * *
5056600 TTTTTATCTAGATGTATCGATACATTTTTCAATGTATTAATACATGTATAAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTAT--ATGTATCGATACAT
5056665 TCTGCC
64 TCTGCC
*
5056671 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT-TCAT-T-TATCGATACATT
1 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGT-ATATGTATCGATACATT
*
5056733 CTGTC
65 CTGCC
5056738 TTTTTACCCAGATGTATCGATACATT
1 TTTTTACCCAGATGTATCGATACATT
5056764 GAATAATGTA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
67 42 0.48
68 1 0.01
70 1 0.01
71 43 0.49
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (69 bp):
TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCAATACATGTATATGTATCGATACATTC
TGCC
Found at i:5056759 original size:31 final size:31
Alignment explanation
Indices: 5056651--5056763 Score: 93
Period size: 31 Copynumber: 3.5 Consensus size: 31
5056641 ACATGTATAA
*
5056651 ATGTATCGATACATTCTGCCTTTTTACCCAG
1 ATGTATCGATACATTCTGTCTTTTTACCCAG
* * ****
5056682 ATGTATCGATACATT-TTTCAATGTATCGATACATTC
1 ATGTATCGATACATTCTGTC--T-T-T--TTACCCAG
*
5056718 ATTTATCGATACATTCTGTCTTTTTACCCAG
1 ATGTATCGATACATTCTGTCTTTTTACCCAG
5056749 ATGTATCGATACATT
1 ATGTATCGATACATT
5056764 GAATAATGTA
Statistics
Matches: 60, Mismatches: 15, Indels: 14
0.67 0.17 0.16
Matches are distributed among these distances:
30 2 0.03
31 32 0.53
32 1 0.02
33 2 0.03
34 2 0.03
35 1 0.02
36 17 0.28
37 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.42
Consensus pattern (31 bp):
ATGTATCGATACATTCTGTCTTTTTACCCAG
Found at i:5065551 original size:13 final size:13
Alignment explanation
Indices: 5065533--5065584 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 13
5065523 TAATAAATTA
5065533 TTAATAATTAAAT
1 TTAATAATTAAAT
5065546 TTAATAACTT-AAT
1 TTAATAA-TTAAAT
* *
5065559 TTAATAAATATAT
1 TTAATAATTAAAT
* *
5065572 TTTATATTTAAAT
1 TTAATAATTAAAT
5065585 AAAATTATAA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
12 1 0.03
13 28 0.90
14 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAATAATTAAAT
Found at i:5065575 original size:14 final size:13
Alignment explanation
Indices: 5065523--5065567 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
5065513 ATAGAAAATA
5065523 TAATAAATT-A-T
1 TAATAAATTAATT
5065534 TAAT-AATTAAATT
1 TAATAAATT-AATT
*
5065547 TAATAACTTAATT
1 TAATAAATTAATT
5065560 TAATAAAT
1 TAATAAAT
5065568 ATATTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
10 4 0.14
11 4 0.14
12 1 0.04
13 16 0.57
14 3 0.11
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATAAATTAATT
Found at i:5065847 original size:8 final size:8
Alignment explanation
Indices: 5065834--5065861 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
5065824 ATGTTATATT
5065834 AAAGAAGA
1 AAAGAAGA
5065842 AAAGAAGA
1 AAAGAAGA
5065850 AAAGAAGA
1 AAAGAAGA
5065858 AAAG
1 AAAG
5065862 TACGCGTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (8 bp):
AAAGAAGA
Found at i:5069050 original size:46 final size:46
Alignment explanation
Indices: 5068983--5069080 Score: 128
Period size: 46 Copynumber: 2.1 Consensus size: 46
5068973 ATAATTAATT
* * *
5068983 ATTTTATTTTTAATTAAATTAAAT-TAATTTAA-AGATAAATAAAAAA
1 ATTTTACTTCTAATTAAATT-AATCTAA-TTAAGAGATAAACAAAAAA
*
5069029 ATTTTACTTCTAATTAAATTAATCTAATTAAGAGATAAACAAAATA
1 ATTTTACTTCTAATTAAATTAATCTAATTAAGAGATAAACAAAAAA
5069075 ATTTTA
1 ATTTTA
5069081 TACATTAAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
45 7 0.15
46 39 0.85
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (46 bp):
ATTTTACTTCTAATTAAATTAATCTAATTAAGAGATAAACAAAAAA
Found at i:5069123 original size:34 final size:37
Alignment explanation
Indices: 5069041--5069117 Score: 90
Period size: 38 Copynumber: 2.1 Consensus size: 37
5069031 TTTACTTCTA
*
5069041 ATTA-AATT-AATCTAATTAAGAGATAAACAAAATAAT
1 ATTATAATTAAAT-TAATTAAAAGATAAACAAAATAAT
*
5069077 TTTATACATTAAATTAATTAAAAGATAAA-AAAATAA-
1 ATTATA-ATTAAATTAATTAAAAGATAAACAAAATAAT
5069113 ATTAT
1 ATTAT
5069118 TTTAAAAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
36 7 0.20
37 8 0.23
38 17 0.49
39 3 0.09
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (37 bp):
ATTATAATTAAATTAATTAAAAGATAAACAAAATAAT
Found at i:5073112 original size:20 final size:20
Alignment explanation
Indices: 5073089--5073155 Score: 93
Period size: 20 Copynumber: 3.4 Consensus size: 20
5073079 CCCAGATGTG
5073089 TCGATACATATTGCTTTGTA
1 TCGATACATATTGCTTTGTA
5073109 TCGATACATATTGCTTTGTA
1 TCGATACATATTGCTTTGTA
* *
5073129 TAGATACA-AGTT-CATTGTA
1 TCGATACATA-TTGCTTTGTA
5073148 TCGATACA
1 TCGATACA
5073156 CACTAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.33
20 29 0.67
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (20 bp):
TCGATACATATTGCTTTGTA
Done.