Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 283 of 325
Found at i:90620364 original size:52 final size:51
Alignment explanation
Indices: 90620286--90620386 Score: 157
Period size: 52 Copynumber: 2.0 Consensus size: 51
90620276 TGATTGAAAC
* *
90620286 GTACAATACCTAACCTACGCACAGAAAAAAACAAATCGTACACTAAGTATAT
1 GTACAATACCTAACCTACGCACAG-AAAAAACAAAGCATACACTAAGTATAT
* *
90620338 GTACAATACCTAACTTACGCACAGAAAAAACAAAGCATACTCTAAGTAT
1 GTACAATACCTAACCTACGCACAGAAAAAACAAAGCATACACTAAGTAT
90620387 GACTTAGTGG
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 22 0.49
52 23 0.51
ACGTcount: A:0.48, C:0.23, G:0.10, T:0.20
Consensus pattern (51 bp):
GTACAATACCTAACCTACGCACAGAAAAAACAAAGCATACACTAAGTATAT
Found at i:90637817 original size:23 final size:22
Alignment explanation
Indices: 90637771--90637817 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
90637761 ATCACCCCAA
* *
90637771 TTTTATTTTATTTATTATTAAT
1 TTTTATTTTACTAATTATTAAT
90637793 TTTTATTTTACTAATTAATTAAT
1 TTTTATTTTACTAATT-ATTAAT
90637816 TT
1 TT
90637818 ATTTATTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
TTTTATTTTACTAATTATTAAT
Found at i:90637829 original size:16 final size:17
Alignment explanation
Indices: 90637810--90637878 Score: 61
Period size: 16 Copynumber: 4.0 Consensus size: 17
90637800 TTACTAATTA
90637810 ATTAATTTATTTAT-TT
1 ATTAATTTATTTATATT
*
90637826 ATTATTCTTATACTTATATT
1 ATTAAT-TTAT--TTATATT
*
90637846 TTTAATTT-TTTATATT
1 ATTAATTTATTTATATT
* *
90637862 TTTAATTTATATATATT
1 ATTAATTTATTTATATT
90637879 TTTTATATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
16 20 0.45
17 11 0.25
18 1 0.02
19 6 0.14
20 6 0.14
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTAATTTATTTATATT
Found at i:90637874 original size:15 final size:15
Alignment explanation
Indices: 90637840--90637895 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
90637830 TTCTTATACT
*
90637840 TATATTTTTAATTTTT
1 TATATTTTTAA-TTTA
90637856 TATATTTTTAATTTA
1 TATATTTTTAATTTA
90637871 TATATATTTT--TTATA
1 TATAT-TTTTAATT-TA
90637886 TATATTTTTA
1 TATATTTTTA
90637896 TTTTGCTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
14 6 0.17
15 15 0.42
16 15 0.42
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TATATTTTTAATTTA
Found at i:90637883 original size:13 final size:13
Alignment explanation
Indices: 90637850--90637894 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
90637840 TATATTTTTA
90637850 ATTTTTTATAT-T
1 ATTTTTTATATAT
90637862 -TTTAATTTATATAT
1 ATTT--TTTATATAT
90637876 ATTTTTTATATAT
1 ATTTTTTATATAT
90637889 ATTTTT
1 ATTTTT
90637895 ATTTTGCTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.10
13 22 0.76
14 1 0.03
15 3 0.10
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTTTTATATAT
Found at i:90637889 original size:17 final size:17
Alignment explanation
Indices: 90637840--90637890 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
90637830 TTCTTATACT
* *
90637840 TATATTTTTAAT-TTTT
1 TATATTTTTAATATATA
*
90637856 TATATTTTTAATTTATA
1 TATATTTTTAATATATA
*
90637873 TATATTTTTTATATATA
1 TATATTTTTAATATATA
90637890 T
1 T
90637891 TTTTATTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 12 0.40
17 18 0.60
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TATATTTTTAATATATA
Found at i:90637906 original size:44 final size:44
Alignment explanation
Indices: 90637779--90637915 Score: 100
Period size: 52 Copynumber: 2.9 Consensus size: 44
90637769 AATTTTATTT
* * *
90637779 TATTTATTAT-TA-ATTTTTATTTTACTAATTAATTAATTTATTTATT
1 TATTTTTTATATATATTTTTATTTTACT-ATT-TTTAATTTA--TATA
90637825 TATTATTCTTATACTTATATTTTTAATTTTTTA-TATTTTTAATTTATATA
1 TATT-TT-TTATA--TATATTTTT-A--TTTTACTATTTTTAATTTATATA
* * *
90637875 TATTTTTTATATATATTTTTATTTTGCTATTTCTATTTTAT
1 TATTTTTTATATATATTTTTATTTTACTATTTTTAATTTAT
90637916 TTTTTTCGTT
Statistics
Matches: 75, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
43 4 0.05
44 12 0.16
45 1 0.01
46 13 0.17
47 1 0.01
48 9 0.12
49 2 0.03
50 7 0.09
51 2 0.03
52 14 0.19
53 4 0.05
54 1 0.01
55 5 0.07
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.67
Consensus pattern (44 bp):
TATTTTTTATATATATTTTTATTTTACTATTTTTAATTTATATA
Found at i:90641106 original size:20 final size:19
Alignment explanation
Indices: 90641081--90641129 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
90641071 AAAATCAATA
90641081 TTCATGGTT-CAATCCACCAT
1 TTCAT-GTTCCAATCCA-CAT
*
90641101 TTCATGTTCCATTCCACAT
1 TTCATGTTCCAATCCACAT
90641120 TTCAT-TTCCA
1 TTCATGTTCCA
90641130 TTTCAGTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.41
20 11 0.41
ACGTcount: A:0.22, C:0.31, G:0.06, T:0.41
Consensus pattern (19 bp):
TTCATGTTCCAATCCACAT
Found at i:90641120 original size:19 final size:19
Alignment explanation
Indices: 90641093--90641131 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
90641083 CATGGTTCAA
90641093 TCCACCATTTCATGTTCCAT
1 TCCACCATTTCAT-TTCCAT
90641113 TCCA-CATTTCATTTCCAT
1 TCCACCATTTCATTTCCAT
90641131 T
1 T
90641132 TCAGTATCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.37
19 8 0.42
20 4 0.21
ACGTcount: A:0.21, C:0.33, G:0.03, T:0.44
Consensus pattern (19 bp):
TCCACCATTTCATTTCCAT
Found at i:90643496 original size:11 final size:10
Alignment explanation
Indices: 90643468--90643492 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
90643458 CCCCAAATCA
90643468 ATTTTAAATT
1 ATTTTAAATT
90643478 ATTTTAAATT
1 ATTTTAAATT
90643488 ATTTT
1 ATTTT
90643493 TAAAACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (10 bp):
ATTTTAAATT
Found at i:90653490 original size:10 final size:11
Alignment explanation
Indices: 90653469--90653509 Score: 52
Period size: 10 Copynumber: 4.0 Consensus size: 11
90653459 AATTAAAATC
90653469 TAAAAGATAAA
1 TAAAAGATAAA
90653480 TAAAA-ATAAA
1 TAAAAGATAAA
90653490 T-AAAGA-AAA
1 TAAAAGATAAA
*
90653499 TTAAAGATAAA
1 TAAAAGATAAA
90653510 AGATAAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 7 0.26
10 12 0.44
11 8 0.30
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (11 bp):
TAAAAGATAAA
Found at i:90653503 original size:20 final size:20
Alignment explanation
Indices: 90653471--90653527 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
90653461 TTAAAATCTA
90653471 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
*
90653491 AAAGA-AAATTAAAGAT--A-
1 AAAGATAAA-TAAAAATAAAT
*
90653508 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
90653528 TCTAAAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
17 10 0.34
18 4 0.14
19 4 0.14
20 11 0.38
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:90654161 original size:13 final size:13
Alignment explanation
Indices: 90654143--90654167 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90654133 CTTTTTTTTC
90654143 TTTTTTAATTAAA
1 TTTTTTAATTAAA
90654156 TTTTTTAATTAA
1 TTTTTTAATTAA
90654168 TTAATTAATT
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:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTAATTAAA
Found at i:90654287 original size:93 final size:94
Alignment explanation
Indices: 90654173--90654355 Score: 287
Period size: 93 Copynumber: 2.0 Consensus size: 94
90654163 ATTAATTAAT
* ** * *
90654173 TAATTTTTTTTGCTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAACCAAGCACCT
1 TAATTTTTTTTGCTTAAGAATATATCAAACCTTTTGACGCGAAAAGAGATGACAACCAAACACCT
* *
90654238 TACCCCGGTTACTCAGCCTAACACACTCC
66 CACCCCGGTTACTCAGCCCAACACACTCC
*
90654267 TAATTTTTTTT-CTTAAGAATATATCAAACCTTTTGACGCGAAAAGAGATGACAGCCAAACACCT
1 TAATTTTTTTTGCTTAAGAATATATCAAACCTTTTGACGCGAAAAGAGATGACAACCAAACACCT
90654331 CACCCCGGTTACTCAGCCCAACACA
66 CACCCCGGTTACTCAGCCCAACACA
90654356 TTCTTAAAAA
Statistics
Matches: 81, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
93 70 0.86
94 11 0.14
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.27
Consensus pattern (94 bp):
TAATTTTTTTTGCTTAAGAATATATCAAACCTTTTGACGCGAAAAGAGATGACAACCAAACACCT
CACCCCGGTTACTCAGCCCAACACACTCC
Found at i:90655512 original size:8 final size:7
Alignment explanation
Indices: 90655499--90655592 Score: 63
Period size: 8 Copynumber: 13.0 Consensus size: 7
90655489 ACCCAAACAA
90655499 AATAAAGT
1 AATAAA-T
90655507 AATAAAT
1 AATAAAT
90655514 AATAAAAT
1 AAT-AAAT
90655522 AAAATAAAGT
1 --AATAAA-T
*
90655532 AATGAAT
1 AATAAAT
90655539 AAATAAAT
1 -AATAAAT
*
90655547 AATAAAAC
1 AAT-AAAT
90655555 AATAAAAT
1 AAT-AAAT
90655563 AAT-AA-
1 AATAAAT
90655568 AATAAA-
1 AATAAAT
90655574 AATAAAT
1 AATAAAT
90655581 AA-AAAT
1 AATAAAT
90655587 AA-AAAT
1 AATAAAT
90655593 TGTGTTGCCT
Statistics
Matches: 74, Mismatches: 4, Indels: 18
0.77 0.04 0.19
Matches are distributed among these distances:
5 3 0.04
6 20 0.27
7 10 0.14
8 34 0.46
9 3 0.04
10 4 0.05
ACGTcount: A:0.73, C:0.01, G:0.03, T:0.22
Consensus pattern (7 bp):
AATAAAT
Found at i:90657113 original size:16 final size:16
Alignment explanation
Indices: 90657092--90657123 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
90657082 TTGTAGGTAT
90657092 TAGCATAAGGGTCATA
1 TAGCATAAGGGTCATA
90657108 TAGCATAAGGGTCATA
1 TAGCATAAGGGTCATA
90657124 GTATCGTCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
TAGCATAAGGGTCATA
Found at i:90671568 original size:29 final size:31
Alignment explanation
Indices: 90671519--90671577 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
90671509 AATGTGTATC
* *
90671519 TATTTATTTGATGGATGAAAT-T-GAGATAG
1 TATTTATTTAATAGATGAAATGTGGAGATAG
90671548 TATTTATTCTAATAGAT-AAATGTGGAGATA
1 TATTTATT-TAATAGATGAAATGTGGAGATA
90671578 TTAAATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 12 0.48
30 7 0.28
31 6 0.24
ACGTcount: A:0.37, C:0.02, G:0.20, T:0.41
Consensus pattern (31 bp):
TATTTATTTAATAGATGAAATGTGGAGATAG
Found at i:90683232 original size:27 final size:26
Alignment explanation
Indices: 90683184--90683243 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
90683174 GCGAAGCTGC
* *
90683184 CAGATATTGTGACGAAGTCACCGGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
90683211 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
90683237 CAGATAT
1 CAGATAT
90683244 ATATATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90683334 original size:27 final size:26
Alignment explanation
Indices: 90683286--90683337 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90683276 GCGAGGCTGC
*
90683286 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90683312 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
90683338 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90690479 original size:27 final size:27
Alignment explanation
Indices: 90690444--90690502 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
90690434 AACCTCAGAG
90690444 TTAGACTTATCTGGGCCTTGGCCCAGT
1 TTAGACTTATCTGGGCCTTGGCCCAGT
90690471 TTAGACTTATCTGGGCCTTGGCCCAGT
1 TTAGACTTATCTGGGCCTTGGCCCAGT
*
90690498 ATAGA
1 TTAGA
90690503 AATCAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (27 bp):
TTAGACTTATCTGGGCCTTGGCCCAGT
Found at i:90690821 original size:27 final size:26
Alignment explanation
Indices: 90690773--90690824 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
90690763 GCGAGGCTGC
*
90690773 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
90690799 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
90690825 TTACAGTGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:90694401 original size:14 final size:14
Alignment explanation
Indices: 90694384--90694414 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
90694374 CTGTTATTTA
*
90694384 TTATTTTTATGTTT
1 TTATTTTTATCTTT
90694398 TTATTTTTATCTTT
1 TTATTTTTATCTTT
90694412 TTA
1 TTA
90694415 AAACTACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (14 bp):
TTATTTTTATCTTT
Found at i:90696414 original size:13 final size:13
Alignment explanation
Indices: 90696396--90696427 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
90696386 CCCGTGTCCA
90696396 TTCACACAGGTAG
1 TTCACACAGGTAG
90696409 TTCACACAGGTAG
1 TTCACACAGGTAG
90696422 TTCACA
1 TTCACA
90696428 TGTTGGATTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (13 bp):
TTCACACAGGTAG
Found at i:90700571 original size:40 final size:40
Alignment explanation
Indices: 90700523--90700608 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
90700513 GAATTATGGG
** *
90700523 TACTGAATATTGTTTTGAATACCGAATTGAACTGTGAAAT
1 TACTGAATATTGTTACGAATACCGAATTGAACTGTAAAAT
* * *
90700563 TACTGAATATTGTTACGTATACTGCATTGAACTGTAAAAT
1 TACTGAATATTGTTACGAATACCGAATTGAACTGTAAAAT
*
90700603 TTCTGA
1 TACTGA
90700609 TGAAACTAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGAATATTGTTACGAATACCGAATTGAACTGTAAAAT
Found at i:90700827 original size:12 final size:12
Alignment explanation
Indices: 90700810--90700836 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
90700800 ATGTGTCGAC
90700810 TACTATTACTGT
1 TACTATTACTGT
90700822 TACTATTACTGT
1 TACTATTACTGT
90700834 TAC
1 TAC
90700837 CGATTCGACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (12 bp):
TACTATTACTGT
Found at i:90700875 original size:51 final size:50
Alignment explanation
Indices: 90700793--90700934 Score: 145
Period size: 45 Copynumber: 2.9 Consensus size: 50
90700783 TTACTGATCA
* * *
90700793 AGCAC-TTATGTGTCGACTACTATTACTGTTACTATTACTGTTACCGATTC
1 AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTG-TACCGATTC
*
90700843 -GACACTTTGTGTGTTGAATACTATTACCGTTACTATTA---TA--GATTC
1 AG-CACTTTGTGTGTTGAATACTATTACTGTTACTATTACTGTACCGATTC
* * *
90700888 AGTACTTTGTGTGTTGAATACTGTTACTGTTACTGTTACTGCTACCG
1 AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTG-TACCG
90700935 TTACTAATTA
Statistics
Matches: 75, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
45 37 0.49
46 1 0.01
47 2 0.03
49 3 0.04
50 3 0.04
51 29 0.39
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (50 bp):
AGCACTTTGTGTGTTGAATACTATTACTGTTACTATTACTGTACCGATTC
Found at i:90700917 original size:6 final size:6
Alignment explanation
Indices: 90700906--90700939 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
90700896 GTGTGTTGAA
* *
90700906 TACTGT TACTGT TACTGT TACTGC TACCGT TACT
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACT
90700940 AATTACTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.18, C:0.24, G:0.15, T:0.44
Consensus pattern (6 bp):
TACTGT
Found at i:90707589 original size:48 final size:47
Alignment explanation
Indices: 90707484--90707649 Score: 201
Period size: 48 Copynumber: 3.5 Consensus size: 47
90707474 TATGTGTGCT
* * * *
90707484 AGTGTAAGACATGTTTGGGACATGCATCGGCCAC-A-TTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATAT-AAAGCC
* *
90707530 AGTGTAAGACATGTCTGGGATATGCATCTGCCTCGAGATATACAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
* *
90707578 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATATAAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATA-AAGCC
* *
90707626 AGTGTAAGACCTGTCTAGGACATG
1 AGTGTAAGACATGTCTGGGACATG
90707650 GCGTCAGCTT
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
46 30 0.29
47 2 0.02
48 73 0.70
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGATATAAAGCC
Found at i:90707747 original size:142 final size:145
Alignment explanation
Indices: 90707574--90707845 Score: 335
Period size: 142 Copynumber: 1.9 Consensus size: 145
90707564 GAGATATACA
* * *
90707574 AGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATAT-ATAAG-CTAGTGTAAGACC
1 AGCCAGTGTAAAACATATCTAGGACAAGCATCGGCCTCGAGATATGA-AAGTC-AGTGTAAGACC
* * * *
90707637 TG-TCTAGGACATGGCGTC-AGC-TTGTTGTG-T-GTCAGTGTAAGACC-TGTCTGGGACATGAC
64 TGCT-TAGGACATAGCATCGA-CTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGAC
90707696 GTCGACACCGATAGATGAG
127 GTCGACACCGATAGATGAG
* * *
90707715 AGCCAGTGTAAAACCTATCTGGGACACAGCATCGGCCTCGATATATGAAAGTCAGTGTAAGACCT
1 AGCCAGTGTAAAACATATCTAGGACA-AGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCT
* *
90707780 GCTTGGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGGCGTC
65 GCTTAGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGACGTC
90707845 G
130 G
90707846 GTATCTTATA
Statistics
Matches: 110, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
141 22 0.20
142 45 0.41
143 11 0.10
144 1 0.01
145 13 0.12
146 18 0.16
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.24
Consensus pattern (145 bp):
AGCCAGTGTAAAACATATCTAGGACAAGCATCGGCCTCGAGATATGAAAGTCAGTGTAAGACCTG
CTTAGGACATAGCATCGACTTTGATGTGCTAGCCAGTGTAAGACCATGTCTGGGACATGACGTCG
ACACCGATAGATGAG
Found at i:90707757 original size:49 final size:49
Alignment explanation
Indices: 90707704--90707797 Score: 118
Period size: 49 Copynumber: 1.9 Consensus size: 49
90707694 ACGTCGACAC
* *
90707704 CGATAGATGAGAGCCAGTGTAAAACCT-ATCTGGGACACAGCATCGGCCT
1 CGATAGATGAAAGCCAGTGTAAAACCTGCT-TGGGACACAGCATCGGCCT
* * * *
90707753 CGATATATGAAAGTCAGTGTAAGACCTGCTTGGGACATAGCATCG
1 CGATAGATGAAAGCCAGTGTAAAACCTGCTTGGGACACAGCATCG
90707798 ACTTTGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
49 37 0.97
50 1 0.03
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (49 bp):
CGATAGATGAAAGCCAGTGTAAAACCTGCTTGGGACACAGCATCGGCCT
Found at i:90710580 original size:46 final size:46
Alignment explanation
Indices: 90710530--90710701 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
90710520 GGTTGAGCAT
90710530 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * *
90710576 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* *
90710621 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
*
90710669 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
90710702 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 4 0.04
46 59 0.55
47 28 0.26
48 4 0.04
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:90710685 original size:93 final size:93
Alignment explanation
Indices: 90710526--90710696 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
90710516 GGATGGTTGA
*
90710526 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90710591 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
90710619 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
90710684 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
90710697 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90710963 original size:19 final size:20
Alignment explanation
Indices: 90710926--90710963 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
90710916 ATAAGGTGGT
90710926 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
90710946 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
90710964 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:90712274 original size:28 final size:28
Alignment explanation
Indices: 90712226--90712316 Score: 130
Period size: 28 Copynumber: 3.2 Consensus size: 28
90712216 GTGACAGAGT
*
90712226 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
*
90712255 CACCAGAACAGATAATTTGTGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
90712283 CACCAGAATAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
90712311 CACCAG
1 CACCAG
90712317 GACGCTTCCT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
28 50 0.88
29 7 0.12
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:90713539 original size:12 final size:13
Alignment explanation
Indices: 90713520--90713552 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
90713510 GGGTTCGGCT
90713520 ATGGAGAAGGAAG
1 ATGGAGAAGGAAG
*
90713533 A-GGAGAAGGTAG
1 ATGGAGAAGGAAG
90713545 ATGGAGAA
1 ATGGAGAA
90713553 AAAGAAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.45, C:0.00, G:0.45, T:0.09
Consensus pattern (13 bp):
ATGGAGAAGGAAG
Found at i:90727621 original size:20 final size:21
Alignment explanation
Indices: 90727596--90727637 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
90727586 TTTTTGAAAC
90727596 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
90727616 AGGGCAACACGCCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
90727637 A
1 A
90727638 TTAATTCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.29, G:0.36, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:90728881 original size:46 final size:46
Alignment explanation
Indices: 90728757--90728920 Score: 135
Period size: 46 Copynumber: 3.6 Consensus size: 46
90728747 GCCATTGCCA
* * * *
90728757 TGTCCCAGACATGGTCTTTCACTA--ACACATCTCGTAGCCGATGCA
1 TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCG-AGCCGATGCT
* * *
90728802 TGTCCCAAACAT-GTCTTACACTGGCTTA-T-GTCTCGAGGCCGAAGCT
1 TGTCCCAGACATGGTCTTACACTAGC--ACTCGTCTCGA-GCCGATGCT
*
90728848 TGTCCCAGACAT-GTCTTACACTAGCACTCGTCTCAATGCCGATG-T
1 TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGA-GCCGATGCT
*
90728893 CGTGCCTCAGACATGGTCTTACACTAGC
1 TGT-CC-CAGACATGGTCTTACACTAGC
90728921 TCTCAAAATG
Statistics
Matches: 96, Mismatches: 13, Indels: 17
0.76 0.10 0.13
Matches are distributed among these distances:
44 10 0.10
45 16 0.17
46 49 0.51
47 7 0.07
48 14 0.15
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (46 bp):
TGTCCCAGACATGGTCTTACACTAGCACTCGTCTCGAGCCGATGCT
Found at i:90735186 original size:21 final size:20
Alignment explanation
Indices: 90735148--90735189 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
90735138 TTTTTCAAAC
* *
90735148 AGGGCACACGCCCGTGTGGA
1 AGGGCACACACCCATGTGGA
90735168 AGGGCAACACACCCATGTGGA
1 AGGGC-ACACACCCATGTGGA
90735189 A
1 A
90735190 TTAATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.29, C:0.29, G:0.33, T:0.10
Consensus pattern (20 bp):
AGGGCACACACCCATGTGGA
Found at i:90739259 original size:13 final size:14
Alignment explanation
Indices: 90739238--90739270 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
90739228 TTTATTAATG
90739238 AAATATATTAAA-AT
1 AAAT-TATTAAATAT
90739252 AAATTATTAAATAT
1 AAATTATTAAATAT
90739266 AAATT
1 AAATT
90739271 TATATTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAATTATTAAATAT
Found at i:90752296 original size:19 final size:21
Alignment explanation
Indices: 90752255--90752303 Score: 66
Period size: 19 Copynumber: 2.3 Consensus size: 21
90752245 AATCATTTCT
90752255 TTATTTATTATTTTGAATTTTTA
1 TTATTTATTA-TTTGAA-TTTTA
90752278 TTATTTATTA-TTGAA-TTTA
1 TTATTTATTATTTGAATTTTA
90752297 TTATTTA
1 TTATTTA
90752304 ATTTTTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 11 0.42
21 5 0.19
23 10 0.38
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (21 bp):
TTATTTATTATTTGAATTTTA
Found at i:90752297 original size:12 final size:12
Alignment explanation
Indices: 90752262--90752307 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
90752252 TCTTTATTTA
90752262 TTATT-TTGAAT
1 TTATTATTGAAT
90752273 TT-TTATT--AT
1 TTATTATTGAAT
90752282 TTATTATTGAAT
1 TTATTATTGAAT
*
90752294 TTATTATTTAAT
1 TTATTATTGAAT
90752306 TT
1 TT
90752308 TTTCTTCTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 4 0.13
10 7 0.23
11 4 0.13
12 15 0.50
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (12 bp):
TTATTATTGAAT
Found at i:90753731 original size:30 final size:30
Alignment explanation
Indices: 90753695--90753755 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
90753685 AAGTTTATAG
*
90753695 TAATAGTGCGAACTATGATAATAGTAATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
*
90753725 TAATAGTGAGAACTATGATAATAGTGATAA
1 TAATAGTGAGAACTATGATAATAGTAATAA
90753755 T
1 T
90753756 GAACTTTGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.46, C:0.05, G:0.18, T:0.31
Consensus pattern (30 bp):
TAATAGTGAGAACTATGATAATAGTAATAA
Found at i:90753751 original size:18 final size:18
Alignment explanation
Indices: 90753695--90753751 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
90753685 AAGTTTATAG
*
90753695 TAATAGTGCGAACTATGA
1 TAATAGTGAGAACTATGA
90753713 TAATAGT---AA-TA--A
1 TAATAGTGAGAACTATGA
90753725 TAATAGTGAGAACTATGA
1 TAATAGTGAGAACTATGA
90753743 TAATAGTGA
1 TAATAGTGA
90753752 TAATGAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
12 8 0.24
14 2 0.06
15 4 0.12
16 2 0.06
18 17 0.52
ACGTcount: A:0.46, C:0.05, G:0.19, T:0.30
Consensus pattern (18 bp):
TAATAGTGAGAACTATGA
Found at i:90761997 original size:65 final size:66
Alignment explanation
Indices: 90761840--90762016 Score: 293
Period size: 65 Copynumber: 2.7 Consensus size: 66
90761830 ATTTTCCAAT
* *
90761840 CTTGTTCTTCACCAGTGCTTGAAGTATTTGGCACTAGTCTATAGCATTGTTCATTTTTTTTTCTG
1 CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTCATTTATTTTTCTG
90761905 C
66 C
* *
90761906 CTTGTTCTTCACTAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTTA-TTATTTTTCTG
1 CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTCATTTATTTTTCTG
90761970 C
66 C
* *
90761971 CTTGTTCTTCACCGGTGCTTGAAGTAGTTGGCACTAATCTATAGCA
1 CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCA
90762017 CTGCTTGTTT
Statistics
Matches: 104, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
65 54 0.52
66 50 0.48
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.44
Consensus pattern (66 bp):
CTTGTTCTTCACCAGTGCTTGAAGTAGTTGGCACTAGTCTATAGCATTGTTCATTTATTTTTCTG
C
Found at i:90764776 original size:26 final size:26
Alignment explanation
Indices: 90764746--90764805 Score: 102
Period size: 26 Copynumber: 2.3 Consensus size: 26
90764736 ATTTGCTATT
90764746 ATAGATCAAGAAGAGCAAAATTCTGG
1 ATAGATCAAGAAGAGCAAAATTCTGG
*
90764772 ATAGATCAAGAAGAGCGAAATTCTGG
1 ATAGATCAAGAAGAGCAAAATTCTGG
90764798 AGTAGATC
1 A-TAGATC
90764806 GGGGAAAAGA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 26 0.81
27 6 0.19
ACGTcount: A:0.43, C:0.12, G:0.25, T:0.20
Consensus pattern (26 bp):
ATAGATCAAGAAGAGCAAAATTCTGG
Found at i:90765125 original size:46 final size:48
Alignment explanation
Indices: 90765053--90765155 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
90765043 GACAAGACAG
* * * *
90765053 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
90765099 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
90765147 GACAGGAAT
1 GACAGGAAT
90765156 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:90769461 original size:46 final size:48
Alignment explanation
Indices: 90769389--90769491 Score: 147
Period size: 46 Copynumber: 2.2 Consensus size: 48
90769379 GACAGGACAG
* * * *
90769389 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
90769435 GACAGGAATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
90769483 GACAGGAAT
1 GACAGGAAT
90769492 AATTCATGTA
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
46 27 0.54
47 1 0.02
48 22 0.44
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:90770944 original size:39 final size:41
Alignment explanation
Indices: 90770892--90770980 Score: 119
Period size: 39 Copynumber: 2.2 Consensus size: 41
90770882 AAAATTTATA
* * * *
90770892 TTTAATACAATAAAATATTTATTATATCTAT-TTA-TGTTT
1 TTTAATATAATAAAACATTTATTATATCTATGGTAGTATTT
*
90770931 TTTAATATAATAAAACATTTATTATATTTATGGTAGTATTT
1 TTTAATATAATAAAACATTTATTATATCTATGGTAGTATTT
90770972 TTTAATATA
1 TTTAATATA
90770981 CATACTTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
39 28 0.65
40 2 0.05
41 13 0.30
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.53
Consensus pattern (41 bp):
TTTAATATAATAAAACATTTATTATATCTATGGTAGTATTT
Found at i:90771097 original size:12 final size:11
Alignment explanation
Indices: 90771076--90771105 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
90771066 AAAATTAATT
90771076 TTAAATAAAAA
1 TTAAATAAAAA
90771087 TTAATATAAAAA
1 TTAA-ATAAAAA
90771099 TTAAATA
1 TTAAATA
90771106 TGGGCGAGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
TTAAATAAAAA
Found at i:90772361 original size:11 final size:11
Alignment explanation
Indices: 90772345--90772378 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
90772335 CGCATCTAGT
90772345 TTTGTTCTTGA
1 TTTGTTCTTGA
90772356 TTTGTTCTTGA
1 TTTGTTCTTGA
*
90772367 TTTATTCTTGA
1 TTTGTTCTTGA
90772378 T
1 T
90772379 GATTTGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.12, C:0.09, G:0.15, T:0.65
Consensus pattern (11 bp):
TTTGTTCTTGA
Found at i:90777125 original size:18 final size:18
Alignment explanation
Indices: 90777104--90777163 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
90777094 AATCGGTTAA
*
90777104 TCAGTAATATTCATTTAT
1 TCAGTAATAGTCATTTAT
*
90777122 TCAGT-ATCAGTCGTTTAT
1 TCAGTAAT-AGTCATTTAT
* * *
90777140 TCTGTAACAGTCAATTAT
1 TCAGTAATAGTCATTTAT
90777158 TCAGTA
1 TCAGTA
90777164 GTAGACAGCC
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
17 2 0.06
18 30 0.91
19 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (18 bp):
TCAGTAATAGTCATTTAT
Found at i:90778359 original size:19 final size:19
Alignment explanation
Indices: 90778332--90778375 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
90778322 AATCCGTAGC
90778332 TTTCCCTTTTTCTT-TTTCT
1 TTTCCCTTTTT-TTCTTTCT
*
90778351 TTTCTCTTTTTTTCTTTC-
1 TTTCCCTTTTTTTCTTTCT
90778369 TTTCCCT
1 TTTCCCT
90778376 GCTAACCGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTCCCTTTTTTTCTTTCT
Found at i:90778421 original size:13 final size:13
Alignment explanation
Indices: 90778403--90778427 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
90778393 TTCTTTCCTT
90778403 TTTCTTTATTTCA
1 TTTCTTTATTTCA
90778416 TTTCTTTATTTC
1 TTTCTTTATTTC
90778428 TTTTATTTTA
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:0.12, C:0.16, G:0.00, T:0.72
Consensus pattern (13 bp):
TTTCTTTATTTCA
Found at i:90784474 original size:16 final size:16
Alignment explanation
Indices: 90784449--90784483 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
90784439 CAAAAATATT
90784449 AAATAATTTTTTGAGA
1 AAATAATTTTTTGAGA
*
90784465 AAATATTTTTTTGAGA
1 AAATAATTTTTTGAGA
90784481 AAA
1 AAA
90784484 AAAAAAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (16 bp):
AAATAATTTTTTGAGA
Found at i:90784683 original size:23 final size:23
Alignment explanation
Indices: 90784655--90784704 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
90784645 TAAAAATAAT
**
90784655 TTTAAATTC-TTGTTATTTATTAA
1 TTTAAATTCATT-TTACATATTAA
90784678 TTTAAATTCATTTTACATATTAA
1 TTTAAATTCATTTTACATATTAA
90784701 TTTA
1 TTTA
90784705 TTTTTTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.34, C:0.06, G:0.02, T:0.58
Consensus pattern (23 bp):
TTTAAATTCATTTTACATATTAA
Found at i:90786698 original size:27 final size:27
Alignment explanation
Indices: 90786649--90786807 Score: 166
Period size: 27 Copynumber: 5.9 Consensus size: 27
90786639 GCGAGGCTGC
* *
90786649 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
90786676 CAGATATTGTGGCAGAGCTACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
90786702 CAGATATATGTGGCAGAGCCATCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
90786729 CAGATAATCGTGGCATAACCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
90786756 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
90786783 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
90786808 GACGCTTCCT
Statistics
Matches: 111, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
26 10 0.09
27 96 0.86
28 5 0.05
ACGTcount: A:0.35, C:0.21, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:90786753 original size:54 final size:54
Alignment explanation
Indices: 90786667--90786807 Score: 203
Period size: 54 Copynumber: 2.6 Consensus size: 54
90786657 GTGACGAAGT
* * * *
90786667 CACCAGATACAGAT-ATTGTGGCAGAGCTACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
*
90786721 CATCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
* *
90786775 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATCGTGGCATAACCACCAG
90786808 GACGCTTCCT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
53 5 0.06
54 73 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATCGTGGCATAACCACCAGAACAGATATATGTGGCAGAGC
Found at i:90786941 original size:26 final size:27
Alignment explanation
Indices: 90786912--90786987 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
90786902 CAAAATTAAC
90786912 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTGCAA
*
90786938 CCTAGGGGTATAACAGTAATTTTTCATA
1 CCTAGGGGTATAACAGTAATTTTGCA-A
* * *
90786966 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
90786988 AATTACTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.36
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTGCAA
Found at i:90788454 original size:25 final size:26
Alignment explanation
Indices: 90788425--90788529 Score: 189
Period size: 25 Copynumber: 4.2 Consensus size: 26
90788415 TGAAATTCCC
90788425 ATCATGGAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
90788450 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90788476 ATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
90788500 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90788526 ATCA
1 ATCA
90788530 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 0, Indels: 5
0.94 0.00 0.06
Matches are distributed among these distances:
24 10 0.13
25 48 0.62
26 19 0.25
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90793818 original size:27 final size:27
Alignment explanation
Indices: 90793770--90793873 Score: 115
Period size: 27 Copynumber: 3.9 Consensus size: 27
90793760 GCGAGGCTGC
* *
90793770 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
90793797 CAGATATTGTAGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
90793823 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
90793850 CAGATAATCGTGGCATAGCCACCA
1 CAGAT-ATTGTGGCAGAGCCACCA
90793874 AGACGCTTCC
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.12
27 56 0.84
28 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:90794007 original size:26 final size:27
Alignment explanation
Indices: 90793978--90794053 Score: 100
Period size: 26 Copynumber: 2.8 Consensus size: 27
90793968 CAAAATTAAC
*
90793978 CCTAGGGGTATAACAGTAATTTTGC-A
1 CCTAGGGGTATAACAGTAATTTTCCAA
90794004 CCTAGGGGTATAACAGTAATTTTCCATA
1 CCTAGGGGTATAACAGTAATTTTCCA-A
* * *
90794032 CATAGGGGTATTATAGTAATTT
1 CCTAGGGGTATAACAGTAATTT
90794054 AACTGCTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 24 0.55
28 20 0.45
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.34
Consensus pattern (27 bp):
CCTAGGGGTATAACAGTAATTTTCCAA
Found at i:90795525 original size:26 final size:26
Alignment explanation
Indices: 90795495--90795602 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
90795485 TGAAATTCCC
*
90795495 ATCATGGAACATTTATCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90795521 ATCATGGAACATTTACTTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90795547 ATCATGAAACATTTACCTAGCCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
90795573 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90795599 ATCA
1 ATCA
90795603 ATTTGTATCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90796891 original size:23 final size:23
Alignment explanation
Indices: 90796846--90796908 Score: 72
Period size: 23 Copynumber: 2.6 Consensus size: 23
90796836 CCATTAATTA
*
90796846 TTGAATTTGAAGTGTATATATATATT
1 TTGAATTTGAA--ATATATATATA-T
*
90796872 TGTGAATTTTAAATATATATATAT
1 T-TGAATTTGAAATATATATATAT
90796896 TTGAATTTGAAAT
1 TTGAATTTGAAAT
90796909 TCATGTTTCT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 11 0.33
24 2 0.06
25 10 0.30
26 1 0.03
27 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (23 bp):
TTGAATTTGAAATATATATATAT
Found at i:90802974 original size:16 final size:15
Alignment explanation
Indices: 90802948--90802981 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
90802938 TGTGGAATCC
*
90802948 TTTCTAAAAATAGTT
1 TTTCTAAAAATAATT
90802963 TTTCTCAAAAATAATT
1 TTTCT-AAAAATAATT
90802979 TTT
1 TTT
90802982 TAAGGATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (15 bp):
TTTCTAAAAATAATT
Found at i:90804402 original size:23 final size:23
Alignment explanation
Indices: 90804376--90804424 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
90804366 GATTTTAAAC
*
90804376 AAATACTCAT-TTTTATATTATGA
1 AAATACTCATATTTTATACTAT-A
*
90804399 AAATATTCATATTTTATACTATA
1 AAATACTCATATTTTATACTATA
90804422 AAA
1 AAA
90804425 CATTTATTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (23 bp):
AAATACTCATATTTTATACTATA
Found at i:90808889 original size:23 final size:23
Alignment explanation
Indices: 90808859--90808903 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
90808849 AGAACTTTTA
90808859 ATCGGGAAGCTCACAAAGAGCTT
1 ATCGGGAAGCTCACAAAGAGCTT
*
90808882 ATCGGGAAGCTCATAAAGAGCT
1 ATCGGGAAGCTCACAAAGAGCT
90808904 ATGTAACGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.27, T:0.18
Consensus pattern (23 bp):
ATCGGGAAGCTCACAAAGAGCTT
Found at i:90808917 original size:26 final size:25
Alignment explanation
Indices: 90808802--90808919 Score: 91
Period size: 26 Copynumber: 4.7 Consensus size: 25
90808792 GCTTATACGG
* *
90808802 GCTATATAATGGGAAGCTCA-TAAGA
1 GCTAT-TAACGGGAAGCTCACAAAGA
* * *
90808827 GCCA-TAATCAGGAAGTTCACAAAGA
1 GCTATTAA-CGGGAAGCTCACAAAGA
* *
90808852 ACTTTTAATCGGGAAGCTCACAAAGA
1 GCTATTAA-CGGGAAGCTCACAAAGA
* *
90808878 GC--TTATCGGGAAGCTCATAAAGA
1 GCTATTAACGGGAAGCTCACAAAGA
90808901 GCTATGTAACGGGAAGCTC
1 GCTAT-TAACGGGAAGCTC
90808920 TGGATAACCA
Statistics
Matches: 73, Mismatches: 14, Indels: 11
0.74 0.14 0.11
Matches are distributed among these distances:
23 21 0.29
24 11 0.15
25 9 0.12
26 32 0.44
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (25 bp):
GCTATTAACGGGAAGCTCACAAAGA
Found at i:90809765 original size:28 final size:28
Alignment explanation
Indices: 90809725--90809781 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
90809715 GAAAATTCAC
90809725 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
90809753 TTCACAAAAGTTGTTTATCTATCAACAA
1 TTCACAAAAGTTGTTTATCTATCAACAA
90809781 T
1 T
90809782 CTTTCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.37
Consensus pattern (28 bp):
TTCACAAAAGTTGTTTATCTATCAACAA
Found at i:90824846 original size:21 final size:21
Alignment explanation
Indices: 90824820--90824863 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
90824810 AGGCTTAAAA
90824820 AAACCAAGTGCATAGAAGGTT
1 AAACCAAGTGCATAGAAGGTT
*
90824841 AAACCAAGTGCATAGGAGGTT
1 AAACCAAGTGCATAGAAGGTT
90824862 AA
1 AA
90824864 GTATTTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.14, G:0.25, T:0.18
Consensus pattern (21 bp):
AAACCAAGTGCATAGAAGGTT
Found at i:90825055 original size:68 final size:67
Alignment explanation
Indices: 90824913--90825113 Score: 174
Period size: 68 Copynumber: 3.0 Consensus size: 67
90824903 TTAAGAAGCC
* * * * **
90824913 AAGTTCTTGAGAAAG-TTAAATAATTTAAGAAGTACGCA-ACCTTGGAAGGTTGAGAGCTTTGAA
1 AAGTTCTTGA-AAAGATTAAATACTTTAAAAAGTATG-AGA-CTTAGAAGGTCAAGAGCTTTGAA
* **
90824976 ATTTT
63 AATAA
** * *
90824981 GGGTTCTTGAAAAGGTTAAGTACTTTAAAAAGTACATGAG-CTTAGAAGGTCAAGAGCTTTGAAA
1 AAGTTCTTGAAAAGATTAAATACTTTAAAAAGT--ATGAGACTTAGAAGGTCAAGAGCTTTGAAA
90825045 ATAA
64 ATAA
* * * *
90825049 AAGTTCTTGAGATGATTAAATACTTTAAAGAGTATGAGACCTTAGAAGGTCAAGATCTTTGAAAA
1 AAGTTCTTGAAAAGATTAAATACTTTAAAAAGTATGAGA-CTTAGAAGGTCAAGAGCTTTGAAAA
90825114 GGAGGGTGCT
Statistics
Matches: 107, Mismatches: 20, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
66 5 0.05
67 4 0.04
68 95 0.89
69 1 0.01
70 2 0.02
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (67 bp):
AAGTTCTTGAAAAGATTAAATACTTTAAAAAGTATGAGACTTAGAAGGTCAAGAGCTTTGAAAAT
AA
Found at i:90825159 original size:68 final size:66
Alignment explanation
Indices: 90825087--90825258 Score: 154
Period size: 68 Copynumber: 2.5 Consensus size: 66
90825077 AGAGTATGAG
* *
90825087 ACCTTAGAAGGTCAAGATCTTTGAAAAG-GAGGGTGCTTGAG-GAGGCTGAA-TACTTTAAGAAG
1 ACCTT-GAAGGTCAAGA-CTTTGAAAAGCGA-AGTGCTTAAGAG-GGCT-AAGTACTTTAAGAAG
90825149 TACGCA
61 TACGCA
* * * *
90825155 ACCTTGAAAGGCCGAAAGA-TTTGAAAAGCTAAGTTCTTAAGAGGGCTAAGTACTTTAATAAGTA
1 ACCTTG-AAGGTC--AAGACTTTGAAAAGCGAAGTGCTTAAGAGGGCTAAGTACTTTAAGAAGTA
90825219 CGCA
63 CGCA
* *
90825223 ACCTTTGAAGGTCAAAAGCTTTGAAAAGCTAAGTGC
1 ACC-TTGAAGGTCAAGA-CTTTGAAAAGCGAAGTGC
90825259 CTGGAAGGTA
Statistics
Matches: 86, Mismatches: 9, Indels: 18
0.76 0.08 0.16
Matches are distributed among these distances:
66 3 0.03
67 3 0.03
68 71 0.83
69 5 0.06
70 4 0.05
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.24
Consensus pattern (66 bp):
ACCTTGAAGGTCAAGACTTTGAAAAGCGAAGTGCTTAAGAGGGCTAAGTACTTTAAGAAGTACGC
A
Found at i:90826668 original size:46 final size:46
Alignment explanation
Indices: 90826618--90826790 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
90826608 TGGTTGAGCA
90826618 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
90826664 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
90826709 CATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
90826757 -CCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
90826791 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
45 8 0.07
46 56 0.52
47 28 0.26
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:90826774 original size:93 final size:93
Alignment explanation
Indices: 90826615--90826785 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
90826605 GGATGGTTGA
* *
90826615 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
90826680 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
90826708 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCGAATG-CCCAAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAATGTCCCAA-CTCGTTGAG
90826772 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
90826786 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 4 0.05
93 70 0.95
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGGCCGAGTTCACTTATGGATGCAAATGTCCCAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:90831229 original size:40 final size:40
Alignment explanation
Indices: 90831185--90831269 Score: 118
Period size: 40 Copynumber: 2.1 Consensus size: 40
90831175 TATCTTGTAA
*
90831185 ACTAAGTGCCGTACATAGCCGAAGCTATCTC-AAACAGCAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACA-CAC
* * *
90831225 ACTAAGTGCCATATATAGCCGAAGCTATGTCGAATCACAC
1 ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
90831265 ACTAA
1 ACTAA
90831270 AATCTGTAGT
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
40 36 0.90
41 4 0.10
ACGTcount: A:0.36, C:0.27, G:0.16, T:0.20
Consensus pattern (40 bp):
ACTAAGTGCCATACATAGCCGAAGCTATCTCGAAACACAC
Found at i:90833762 original size:29 final size:29
Alignment explanation
Indices: 90833664--90833891 Score: 181
Period size: 29 Copynumber: 7.8 Consensus size: 29
90833654 TGTGCTAAAC
* * *
90833664 GATGGTTGTAACCGTCCCTTTTCATA-TT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* ** * * *
90833692 CTATGGTCGAAACCGTCCCTTTTCATTAATC
1 -GATGGTCGTCACCATCCCTTTTCA-TAGTT
* *
90833723 GATGGTCGTCATCATCCCTTTTCATAGCT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * *
90833752 GATGGTCGTCACCACCCCTTTTCATAATC
1 GATGGTCGTCACCATCCCTTTTCATAGTT
** ** *
90833781 GATGGTTATCATTATCCCATTTCATAGTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
*
90833810 GATGGTCGTCACCATCCCTTTTCATATTT
1 GATGGTCGTCACCATCCCTTTTCATAGTT
* * * *
90833839 GATAGCCG-AAGCTATCCCTTTTCATAGTT
1 GATGGTCGTCA-CCATCCCTTTTCATAGTT
* *
90833868 TATGGTCGTCACCATCCATTTTCA
1 GATGGTCGTCACCATCCCTTTTCA
90833892 GAATCGATAG
Statistics
Matches: 153, Mismatches: 42, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
28 1 0.01
29 129 0.84
30 22 0.14
31 1 0.01
ACGTcount: A:0.21, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
GATGGTCGTCACCATCCCTTTTCATAGTT
Found at i:90833855 original size:58 final size:57
Alignment explanation
Indices: 90833678--90833922 Score: 224
Period size: 58 Copynumber: 4.2 Consensus size: 57
90833668 GTTGTAACCG
* ** * * **
90833678 TCCCTTTTCATA-TTCTATGGTCGAAACCGTCCCTTTTCATTAATCGATGGTCGTCA-TCA
1 TCCCTTTTCATAGTT-GATGGTCGTCACCATCCCTTTTCA-TAATCGATAG-CGAAACT-A
* * * ** * *
90833737 TCCCTTTTCATAGCTGATGGTCGTCACCACCCCTTTTCATAATCGATGGTTATCATTA
1 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGA-AACTA
* * * *
90833795 TCCCATTTCATAGTTGATGGTCGTCACCATCCCTTTTCATATTTGATAGCCGAAGCTA
1 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACTA
* * *
90833853 TCCCTTTTCATAGTTTATGGTCGTCACCATCCATTTTCAGAATCGATAGTCGAAACTA
1 TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAG-CGAAACTA
90833911 TCCCTTTTCATA
1 TCCCTTTTCATA
90833923 ATCTAAGGCT
Statistics
Matches: 154, Mismatches: 28, Indels: 9
0.81 0.15 0.05
Matches are distributed among these distances:
58 120 0.78
59 33 0.21
60 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (57 bp):
TCCCTTTTCATAGTTGATGGTCGTCACCATCCCTTTTCATAATCGATAGCGAAACTA
Found at i:90833999 original size:15 final size:15
Alignment explanation
Indices: 90833979--90834017 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
90833969 TATGATAATA
**
90833979 TAAAATAATAGCATT
1 TAAAATAATAAAATT
90833994 TAAAATAA-AAAATT
1 TAAAATAATAAAATT
90834008 TAAAATAATA
1 TAAAATAATA
90834018 TTTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
TAAAATAATAAAATT
Found at i:90839146 original size:83 final size:84
Alignment explanation
Indices: 90839039--90839198 Score: 268
Period size: 83 Copynumber: 1.9 Consensus size: 84
90839029 GTTGTTCTTA
* *
90839039 TAGTTAGTTAACACTATAGATTAGGTTTATTTTCACTTTTAACCCATCTCTTTTACTTGTAATGA
1 TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTATAATGA
*
90839104 CATTCTACTCTTAATGAGC
66 CATTATACTCTTAATGAGC
* *
90839123 TAGTTAGTT-ACACTGTAGCTTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTATAATGA
1 TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTATAATGA
90839187 CATTATACTCTT
66 CATTATACTCTT
90839199 TGTTTAATGC
Statistics
Matches: 71, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
83 62 0.87
84 9 0.13
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (84 bp):
TAGTTAGTTAACACTATAGATTAGGTTTATTTCCACTTTTAACCCATCTCTTTTACTTATAATGA
CATTATACTCTTAATGAGC
Found at i:90843712 original size:6 final size:6
Alignment explanation
Indices: 90843701--90843731 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
90843691 AGTTTTACCA
90843701 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT T
90843732 GTCTCAAGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:90846738 original size:26 final size:26
Alignment explanation
Indices: 90846666--90846722 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
90846656 TCGCATCCCT
90846666 ATTTTACCCCTAGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
*
90846692 ATTTTACCCCTGGTAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
90846718 ATTTT
1 ATTTT
90846723 GTCCTTATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.12, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:90848830 original size:46 final size:46
Alignment explanation
Indices: 90848626--90848791 Score: 305
Period size: 46 Copynumber: 3.6 Consensus size: 46
90848616 TTATTTCGTT
* *
90848626 TATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
90848672 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
90848718 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
*
90848764 TATCTTTCATCCATGGTCTTATTCATTT
1 TATCTTTCAACCATGGTCTTATTCATTT
90848792 ATCGTCATAT
Statistics
Matches: 117, Mismatches: 3, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
46 117 1.00
ACGTcount: A:0.17, C:0.23, G:0.14, T:0.45
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGG
Found at i:90848837 original size:92 final size:92
Alignment explanation
Indices: 90848626--90848830 Score: 304
Period size: 92 Copynumber: 2.2 Consensus size: 92
90848616 TTATTTCGTT
*
90848626 TATCTTTCAACCATGGTCTTATTCATTTCTTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
* **
90848691 TATTCATTTCCTGTCATGTTGCCATGG
66 TATTCATTTCCTGTCATATTGCCAAAG
* *
90848718 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCATGTTGCCATGGTATCTTTCATCCATGGTCT
1 TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
* *
90848783 TATTCATTT-ATCGTCATATTGTCAAAG
66 TATTCATTTCCT-GTCATATTGCCAAAG
* *
90848810 TATCTTTCAACTATAGTCTTA
1 TATCTTTCAACCATGGTCTTA
90848831 CACATTTGAA
Statistics
Matches: 102, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 1 0.01
92 101 0.99
ACGTcount: A:0.20, C:0.22, G:0.13, T:0.44
Consensus pattern (92 bp):
TATCTTTCAACCATGGTCTTATTCATTTCCTGTCACGTTGCCATGGTATCTTTCAACCATGGTCT
TATTCATTTCCTGTCATATTGCCAAAG
Found at i:90848874 original size:45 final size:45
Alignment explanation
Indices: 90848812--90848927 Score: 160
Period size: 45 Copynumber: 2.6 Consensus size: 45
90848802 TGTCAAAGTA
* *
90848812 TCTTTCAACTATAGTCTTACACATTTGAATCGCGATGCAATAGCG
1 TCTTTCAGCTATAGTCTTACTCATTTGAATCGCGATGCAATAGCG
* * * * *
90848857 TCTTTCAGCTATGGTCTTACTCGTCTGAATCGTGATGCCATAGCG
1 TCTTTCAGCTATAGTCTTACTCATTTGAATCGCGATGCAATAGCG
*
90848902 TCTTTAAGCTATAGTCTTACTCATTT
1 TCTTTCAGCTATAGTCTTACTCATTT
90848928 CTGTTATGAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.38
Consensus pattern (45 bp):
TCTTTCAGCTATAGTCTTACTCATTTGAATCGCGATGCAATAGCG
Found at i:90857484 original size:20 final size:20
Alignment explanation
Indices: 90857443--90857484 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
90857433 ATGTTATGAA
* *
90857443 TCGCTCATACCAGTAGTTAC
1 TCGCTCATACCAGCAGTGAC
*
90857463 TCGCTCATACTAGCAGTGAC
1 TCGCTCATACCAGCAGTGAC
90857483 TC
1 TC
90857485 CGACCACTCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (20 bp):
TCGCTCATACCAGCAGTGAC
Found at i:90859871 original size:37 final size:36
Alignment explanation
Indices: 90859790--90859883 Score: 125
Period size: 36 Copynumber: 2.6 Consensus size: 36
90859780 AATCCATAGC
*
90859790 CATGGCATAATTCAGGGAGGTCTGCCAGATTGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
* * * *
90859826 TAAGGCATAATCCAGGGCGGTTTGCCAGATTCGCCTA
1 CATGGCATAATCCAGGGAGGTCTGCCAGATT-GCCTA
90859863 CATGGCATAATCCAGTGGAGG
1 CATGGCATAATCCAG-GGAGG
90859884 CTAGCGACAT
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
36 26 0.54
37 18 0.38
38 4 0.08
ACGTcount: A:0.26, C:0.22, G:0.29, T:0.23
Consensus pattern (36 bp):
CATGGCATAATCCAGGGAGGTCTGCCAGATTGCCTA
Found at i:90860259 original size:16 final size:18
Alignment explanation
Indices: 90860232--90860265 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
90860222 AATAATTATT
90860232 TTAAATTAATTTT-TCAA
1 TTAAATTAATTTTCTCAA
90860249 TTAAA-TAATTTTCTCAA
1 TTAAATTAATTTTCTCAA
90860266 CTATATTCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATTAATTTTCTCAA
Found at i:90861350 original size:12 final size:12
Alignment explanation
Indices: 90861333--90861358 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
90861323 TAGTCTTTCA
90861333 ATCAATTTGCTC
1 ATCAATTTGCTC
90861345 ATCAATTTGCTC
1 ATCAATTTGCTC
90861357 AT
1 AT
90861359 TTCTGATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (12 bp):
ATCAATTTGCTC
Found at i:90871579 original size:34 final size:34
Alignment explanation
Indices: 90871536--90871604 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
90871526 TAGGTCTACA
90871536 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
90871570 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
1 TATGTTAAATTCTTGCATGAAAAATCTAACACAT
90871604 T
1 T
90871605 TGGTGCCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (34 bp):
TATGTTAAATTCTTGCATGAAAAATCTAACACAT
Found at i:90875874 original size:24 final size:24
Alignment explanation
Indices: 90875842--90875892 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
90875832 ACCATTATTT
* *
90875842 TTAATAAATTAGATGTTGATAAAA
1 TTAATAAATTAGATGATGACAAAA
90875866 TTAATAAATTAGATGATGACAAAA
1 TTAATAAATTAGATGATGACAAAA
90875890 TTA
1 TTA
90875893 TCAAAGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.02, G:0.12, T:0.35
Consensus pattern (24 bp):
TTAATAAATTAGATGATGACAAAA
Found at i:90881413 original size:25 final size:26
Alignment explanation
Indices: 90881384--90881440 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
90881374 ACAATAATAA
90881384 TTATTTTC-TAAATAATATATTAATT
1 TTATTTTCTTAAATAATATATTAATT
** *
90881409 TTA-TTTCTTATTTAATATTTTAATT
1 TTATTTTCTTAAATAATATATTAATT
*
90881434 TAATTTT
1 TTATTTT
90881441 AATAATGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 4 0.15
25 19 0.73
26 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (26 bp):
TTATTTTCTTAAATAATATATTAATT
Found at i:90881613 original size:22 final size:21
Alignment explanation
Indices: 90881581--90881627 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
90881571 AACATGCACG
*
90881581 GCAGCAAAAGCAACGGCAGTA
1 GCAGCAAAAGCAACGGCAGCA
*
90881602 GCAGCCAAAAGCAGCGGCAGCA
1 GCAG-CAAAAGCAACGGCAGCA
90881624 GCAG
1 GCAG
90881628 GAGCAGGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.38, C:0.28, G:0.32, T:0.02
Consensus pattern (21 bp):
GCAGCAAAAGCAACGGCAGCA
Found at i:90887098 original size:16 final size:18
Alignment explanation
Indices: 90887059--90887092 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90887049 TAAATTTATA
90887059 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
90887076 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
90887093 AATTTAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:90887791 original size:10 final size:11
Alignment explanation
Indices: 90887759--90887791 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
90887749 ATTTTGTTTC
90887759 TTTAATTTATT
1 TTTAATTTATT
90887770 TTT-ATTTATT
1 TTTAATTTATT
90887780 TTTAATTT-TT
1 TTTAATTTATT
90887790 TT
1 TT
90887792 GATCCAGGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTAATTTATT
Found at i:90890434 original size:18 final size:19
Alignment explanation
Indices: 90890411--90890446 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
90890401 TTTATGGAAA
90890411 AGTCAAACCAAA-TTCAAG
1 AGTCAAACCAAAGTTCAAG
*
90890429 AGTCAAATCAAAGTTCAA
1 AGTCAAACCAAAGTTCAA
90890447 ACCAAACTGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.50, C:0.19, G:0.11, T:0.19
Consensus pattern (19 bp):
AGTCAAACCAAAGTTCAAG
Found at i:90892417 original size:24 final size:26
Alignment explanation
Indices: 90892373--90892433 Score: 90
Period size: 25 Copynumber: 2.4 Consensus size: 26
90892363 TCCTTTATCC
*
90892373 TTTTTTATTTTATTTTTCTTTTTAAG-
1 TTTTTTA-TTTATTTTACTTTTTAAGT
90892399 TTTTTTATTTA-TTTACTTTTTAAGT
1 TTTTTTATTTATTTTACTTTTTAAGT
90892424 TTTTTTATTT
1 TTTTTTATTT
90892434 GTCCTTTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 12 0.36
25 14 0.42
26 7 0.21
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (26 bp):
TTTTTTATTTATTTTACTTTTTAAGT
Found at i:90892447 original size:4 final size:4
Alignment explanation
Indices: 90892438--90892481 Score: 52
Period size: 4 Copynumber: 10.5 Consensus size: 4
90892428 TTATTTGTCC
* *
90892438 TTTA TTTA TTTA TTTTA TTTC TTTGT TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA TTT-A TTTA TTTA TTTA TTTA TT
90892482 ATTGGTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
4 28 0.80
5 7 0.20
ACGTcount: A:0.18, C:0.02, G:0.02, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:90892456 original size:13 final size:13
Alignment explanation
Indices: 90892438--90892478 Score: 64
Period size: 13 Copynumber: 3.2 Consensus size: 13
90892428 TTATTTGTCC
90892438 TTTATTTATTTAT
1 TTTATTTATTTAT
* *
90892451 TTTATTTCTTTGT
1 TTTATTTATTTAT
90892464 TTTATTTATTTAT
1 TTTATTTATTTAT
90892477 TT
1 TT
90892479 ATTATTGGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.78
Consensus pattern (13 bp):
TTTATTTATTTAT
Found at i:90892556 original size:21 final size:22
Alignment explanation
Indices: 90892519--90892624 Score: 112
Period size: 21 Copynumber: 4.9 Consensus size: 22
90892509 ATTTGAAATG
90892519 TTTTATAATATTATTTTTAAAAA
1 TTTTA-AATATTATTTTTAAAAA
90892542 TTTTAAATA-TATTTTTTAAAAA
1 TTTTAAATATTA-TTTTTAAAAA
** *
90892564 AATTAAATATTATTTTTTTAAAA
1 TTTTAAATATTA-TTTTTAAAAA
90892587 --TTAAATATTATTTTT-AAAA
1 TTTTAAATATTATTTTTAAAAA
**
90892606 TTTTAAATACAATTTTTAA
1 TTTTAAATATTATTTTTAA
90892625 TATTATAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
19 4 0.05
20 5 0.07
21 25 0.34
22 22 0.30
23 17 0.23
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAAATATTATTTTTAAAAA
Found at i:90892564 original size:24 final size:23
Alignment explanation
Indices: 90892525--90892605 Score: 100
Period size: 22 Copynumber: 3.7 Consensus size: 23
90892515 AATGTTTTAT
**
90892525 AATATTA-TTTTTAAAAATTTTA
1 AATATTATTTTTTAAAAAAATTA
90892547 AATA-TATTTTTTAAAAAAATTA
1 AATATTATTTTTTAAAAAAATTA
*
90892569 AATATTATTTTTT--TAAAATTA
1 AATATTATTTTTTAAAAAAATTA
90892590 AATATTA-TTTTTAAAA
1 AATATTATTTTTTAAAA
90892606 TTTTAAATAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
20 5 0.10
21 16 0.31
22 22 0.43
23 8 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (23 bp):
AATATTATTTTTTAAAAAAATTA
Found at i:90892739 original size:23 final size:24
Alignment explanation
Indices: 90892688--90892748 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 24
90892678 ATTATTTATT
*
90892688 TTATAATA-TTTT-AAATGTATAT
1 TTATAATATTTTTAAAATGTATAA
* *
90892710 TTTTAATATTTTTAAAAT-TCTAA
1 TTATAATATTTTTAAAATGTATAA
*
90892733 TTATAATTTTTTTAAA
1 TTATAATATTTTTAAA
90892749 TTATTAATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
22 7 0.22
23 21 0.66
24 4 0.12
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (24 bp):
TTATAATATTTTTAAAATGTATAA
Found at i:90892756 original size:23 final size:22
Alignment explanation
Indices: 90892688--90892757 Score: 61
Period size: 22 Copynumber: 3.1 Consensus size: 22
90892678 ATTATTTATT
* *
90892688 TTATAA-TATTTTAAATGTATAT
1 TTATAATTTTTTTAAAT-TATAA
* * *
90892710 TTTTAATATTTTTAAAATTCTAA
1 TTATAAT-TTTTTTAAATTATAA
90892733 TTATAATTTTTTTAAATTATTAA
1 TTATAATTTTTTTAAATTA-TAA
90892756 TT
1 TT
90892758 TTTTAAATTA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
22 15 0.41
23 14 0.38
24 8 0.22
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (22 bp):
TTATAATTTTTTTAAATTATAA
Found at i:90892769 original size:16 final size:17
Alignment explanation
Indices: 90892731--90892769 Score: 64
Period size: 16 Copynumber: 2.4 Consensus size: 17
90892721 TTAAAATTCT
90892731 AATTA-TAATTTTTTTA
1 AATTATTAATTTTTTTA
90892747 AATTATTAA-TTTTTTA
1 AATTATTAATTTTTTTA
90892763 AATTATT
1 AATTATT
90892770 TTTAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 19 0.86
17 3 0.14
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
AATTATTAATTTTTTTA
Found at i:90896165 original size:30 final size:30
Alignment explanation
Indices: 90896124--90896197 Score: 85
Period size: 30 Copynumber: 2.5 Consensus size: 30
90896114 TAGTTGGTCT
* * * *
90896124 GGGTGAAATGAACTTGAACCACCTATGTTC
1 GGGTGATATGAACTCGAACCACCCATGTCC
**
90896154 GGGTGATATGAACTCGAACTGCCCATGTCC
1 GGGTGATATGAACTCGAACCACCCATGTCC
*
90896184 GAGTGATATGAACT
1 GGGTGATATGAACT
90896198 GCTTTACGAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (30 bp):
GGGTGATATGAACTCGAACCACCCATGTCC
Found at i:90907373 original size:20 final size:21
Alignment explanation
Indices: 90907340--90907378 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
90907330 GTTATAATAT
90907340 TTTTTAATTATTTAATATAAA
1 TTTTTAATTATTTAATATAAA
*
90907361 TTTTTACTT-TTTAATATA
1 TTTTTAATTATTTAATATA
90907379 TATATATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTTTAATTATTTAATATAAA
Found at i:90907534 original size:15 final size:15
Alignment explanation
Indices: 90907514--90907542 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
90907504 ATCTTTAAAA
90907514 ATAATTAAATAAATC
1 ATAATTAAATAAATC
90907529 ATAATTAAATAAAT
1 ATAATTAAATAAAT
90907543 ATATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (15 bp):
ATAATTAAATAAATC
Found at i:90907564 original size:22 final size:23
Alignment explanation
Indices: 90907539--90907586 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
90907529 ATAATTAAAT
* *
90907539 AAATATATATTTAAAAT-TTTTA
1 AAATATACATTTAAAATATTATA
90907561 AAATATACATTTAAAATATTATA
1 AAATATACATTTAAAATATTATA
90907584 AAA
1 AAA
90907587 AAATAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATATACATTTAAAATATTATA
Found at i:90907670 original size:21 final size:22
Alignment explanation
Indices: 90907646--90907686 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
90907636 TTTTATATTA
90907646 TTAAAAAA-TATATTTAAAATT
1 TTAAAAAATTATATTTAAAATT
*
90907667 TTAAAAAATTGTATTTAAAA
1 TTAAAAAATTATATTTAAAA
90907687 AAATATTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
TTAAAAAATTATATTTAAAATT
Found at i:90907718 original size:35 final size:35
Alignment explanation
Indices: 90907646--90907720 Score: 91
Period size: 35 Copynumber: 2.1 Consensus size: 35
90907636 TTTTATATTA
**
90907646 TTAAAAAATATATTTAAAATTTTAAAAAATTGTAT
1 TTAAAAAATATATTTAAAATTTTAAAAAATTAAAT
*
90907681 TTAAAAAA-ATATTATAAAATATTT-AAAATTTAAAT
1 TTAAAAAATATATT-TAAAAT-TTTAAAAAATTAAAT
90907716 TTAAA
1 TTAAA
90907721 TTTTTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
34 5 0.14
35 27 0.77
36 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (35 bp):
TTAAAAAATATATTTAAAATTTTAAAAAATTAAAT
Found at i:90907824 original size:25 final size:26
Alignment explanation
Indices: 90907765--90907856 Score: 77
Period size: 24 Copynumber: 3.7 Consensus size: 26
90907755 TAAATAAATG
* *
90907765 ACAAATAAAAAAACTTAAAAAGTAAAT
1 ACAAA-AAAAAAACTTAAAAAGGAAAA
*
90907792 A-AATAAAAAAACTT-AAAAGGAAAA
1 ACAAAAAAAAAACTTAAAAAGGAAAA
* *
90907816 AC-AAAAAAAAA-TGAAAAAGGACAA
1 ACAAAAAAAAAACTTAAAAAGGAAAA
*
90907840 AGAATAAAAAAAA-TTAA
1 ACAA-AAAAAAAACTTAA
90907857 CGTGAATGAA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
23 1 0.02
24 27 0.51
25 11 0.21
26 13 0.25
27 1 0.02
ACGTcount: A:0.74, C:0.05, G:0.08, T:0.13
Consensus pattern (26 bp):
ACAAAAAAAAAACTTAAAAAGGAAAA
Found at i:90907899 original size:30 final size:28
Alignment explanation
Indices: 90907846--90907913 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
90907836 ACAAAGAATA
* * **
90907846 AAAAAAATTAACGTGAATGAAAAAATTT
1 AAAAAATTTAACCTGAATGAAAAAAAAT
90907874 AAAAAATTTAACCTGAATGAAAAAAAAAAT
1 AAAAAATTTAACCTGAATG--AAAAAAAAT
90907904 AAAAAATTTA
1 AAAAAATTTA
90907914 CCTATTTCAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 17 0.50
30 17 0.50
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (28 bp):
AAAAAATTTAACCTGAATGAAAAAAAAT
Found at i:90911483 original size:32 final size:32
Alignment explanation
Indices: 90911433--90911496 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
90911423 TATTTCAATG
90911433 TAACTTAGAGAAAATGAAAGAATAAAAACTTA
1 TAACTTAGAGAAAATGAAAGAATAAAAACTTA
90911465 TAACTTAGA-AAAACTGAAAGAATAAAAACTTA
1 TAACTTAGAGAAAA-TGAAAGAATAAAAACTTA
90911497 CTTTTGGCCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
31 4 0.13
32 27 0.87
ACGTcount: A:0.59, C:0.08, G:0.11, T:0.22
Consensus pattern (32 bp):
TAACTTAGAGAAAATGAAAGAATAAAAACTTA
Found at i:90946374 original size:19 final size:20
Alignment explanation
Indices: 90946341--90946387 Score: 87
Period size: 19 Copynumber: 2.4 Consensus size: 20
90946331 CAATAAAATA
90946341 TTTTCTGGAAAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
90946361 TTTTCTGG-AAATGATTTAC
1 TTTTCTGGAAAATGATTTAC
90946380 TTTTCTGG
1 TTTTCTGG
90946388 TGTTTGGATG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.70
20 8 0.30
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (20 bp):
TTTTCTGGAAAATGATTTAC
Found at i:90950016 original size:12 final size:12
Alignment explanation
Indices: 90949995--90950024 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
90949985 TACTATTAGA
*
90949995 AATGTCTAAATC
1 AATGTGTAAATC
90950007 AATGTGTAAATC
1 AATGTGTAAATC
90950019 AATGTG
1 AATGTG
90950025 AAGTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (12 bp):
AATGTGTAAATC
Found at i:90951550 original size:22 final size:22
Alignment explanation
Indices: 90951466--90951544 Score: 56
Period size: 27 Copynumber: 3.4 Consensus size: 22
90951456 CAAAATTCTT
90951466 TTAAAATATGAAAA-CTCAAAAA
1 TTAAAATATGAAAATCT-AAAAA
*
90951488 -TAAAA-ATAAAAATCCTTAAAAA
1 TTAAAATATGAAAAT-C-TAAAAA
90951510 TTTAAATATATATGAAAAATCTAAAAA
1 -TT-AA-A-ATATG-AAAATCTAAAAA
90951537 TTAAAATA
1 TTAAAATA
90951545 ATAAAACTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 19
0.68 0.03 0.29
Matches are distributed among these distances:
20 6 0.13
21 5 0.11
22 6 0.13
23 4 0.09
24 2 0.04
25 4 0.09
26 3 0.07
27 7 0.16
28 3 0.07
29 5 0.11
ACGTcount: A:0.63, C:0.06, G:0.03, T:0.28
Consensus pattern (22 bp):
TTAAAATATGAAAATCTAAAAA
Found at i:90957021 original size:28 final size:26
Alignment explanation
Indices: 90956957--90957028 Score: 65
Period size: 27 Copynumber: 2.6 Consensus size: 26
90956947 TATTTAAGTT
90956957 TATTTAAAATAAAAATATTAAATTTAAA
1 TATTT-AAATAAAAA-ATTAAATTTAAA
**
90956985 T-TAAAAAATAAAAAATTATAATATTAAA
1 TAT-TTAAATAAAAAATTA-AAT-TTAAA
90957013 TATTTAAATATAAAAA
1 TATTTAAATA-AAAAA
90957029 ACTTTTGACT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
26 4 0.11
27 13 0.37
28 12 0.34
29 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
TATTTAAATAAAAAATTAAATTTAAA
Found at i:90969097 original size:20 final size:20
Alignment explanation
Indices: 90969061--90969098 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
90969051 ATGAATTATG
*
90969061 ATTGTATTAATGTTATTTAA
1 ATTGTATTAATGCTATTTAA
90969081 ATTG-ATTAATTGCTATTT
1 ATTGTATTAA-TGCTATTT
90969099 TGTTTTAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.03, G:0.11, T:0.55
Consensus pattern (20 bp):
ATTGTATTAATGCTATTTAA
Found at i:90990202 original size:18 final size:18
Alignment explanation
Indices: 90990179--90990214 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
90990169 GCTCTTTACA
90990179 AAAAATTTTGAAAAAATT
1 AAAAATTTTGAAAAAATT
*
90990197 AAAAATTTTGAAGAAATT
1 AAAAATTTTGAAAAAATT
90990215 TTGAACAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (18 bp):
AAAAATTTTGAAAAAATT
Found at i:90992114 original size:18 final size:17
Alignment explanation
Indices: 90992055--90992115 Score: 59
Period size: 18 Copynumber: 3.4 Consensus size: 17
90992045 ATTATGCGTG
**
90992055 AATTTAATTTTTTTATTT
1 AATTTAATTTTTTT-TAA
*
90992073 AATTTAATTATTTTTAA
1 AATTTAATTTTTTTTAA
*
90992090 ATTTTTATATTTTTTTTAA
1 A-ATTTA-ATTTTTTTTAA
90992109 AATTTAA
1 AATTTAA
90992116 AATTTCAGCT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
17 3 0.09
18 21 0.60
19 11 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
AATTTAATTTTTTTTAA
Found at i:90992120 original size:19 final size:19
Alignment explanation
Indices: 90992078--90992120 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
90992068 TATTTAATTT
* * *
90992078 AATTATTTTTAAATTTTTA
1 AATTTTTTTTAAAATTTAA
*
90992097 TATTTTTTTTAAAATTTAA
1 AATTTTTTTTAAAATTTAA
90992116 AATTT
1 AATTT
90992121 CAGCTCTTAT
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTTTTTAAAATTTAA
Found at i:90992175 original size:17 final size:16
Alignment explanation
Indices: 90992147--90992187 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
90992137 GATAATCATT
90992147 AAATTTATTAAGACTA
1 AAATTTATTAAGACTA
*
90992163 AAATTTGATTAAGATTA
1 AAATTT-ATTAAGACTA
90992180 AAACTTTA
1 AAA-TTTA
90992188 AAATTCGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (16 bp):
AAATTTATTAAGACTA
Done.