Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 104 of 129
Found at i:18869662 original size:68 final size:67
Alignment explanation
Indices: 18869514--18869662 Score: 192
Period size: 68 Copynumber: 2.2 Consensus size: 67
18869504 ATTTGATATT
* ****
18869514 ATTTTCAAGATTATCACAGTGATCTAATTACAGTGATGATAAATTTACAAAGATGAGGATTTGGT
1 ATTTTC-AGATTATCACAGTGATCTAATTACAATGATGATAAATTTACAAAGATGAGGATTACCA
*
18869579 ATT
65 ATG
*
18869582 ATTTTCAAGATTATCACAGTGATCTAATTACAATGATGATAAATTTACAAAGATGATTTGATTAC
1 ATTTTC-AGATTATCACAGTGATCTAATTACAATGATGATAAATTTACAAAGATGA--GGATTAC
18869647 CAATG
63 CAATG
18869652 ATTTTC-GATTA
1 ATTTTCAGATTA
18869663 AGATGTTTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
68 60 0.83
70 12 0.17
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (67 bp):
ATTTTCAGATTATCACAGTGATCTAATTACAATGATGATAAATTTACAAAGATGAGGATTACCAA
TG
Found at i:18872057 original size:63 final size:63
Alignment explanation
Indices: 18871953--18872075 Score: 212
Period size: 63 Copynumber: 2.0 Consensus size: 63
18871943 ATAGTGATCT
18871953 AAAAACAGTGATCACTTAGGTTATCTTCCCTCTCAACGAGGGCTTTCTACAAATTTCGAACCC
1 AAAAACAGTGATCACTTAGGTTATCTTCCCTCTCAACGAGGGCTTTCTACAAATTTCGAACCC
* *
18872016 AAAAGCAGTGATCACTTAGGTTATC-TCTCCTTTCAACGAGGGCTTTCTACAAATTTCGAA
1 AAAAACAGTGATCACTTAGGTTATCTTC-CCTCTCAACGAGGGCTTTCTACAAATTTCGAA
18872076 TCCCTATCTT
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
62 2 0.04
63 55 0.96
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (63 bp):
AAAAACAGTGATCACTTAGGTTATCTTCCCTCTCAACGAGGGCTTTCTACAAATTTCGAACCC
Found at i:18872241 original size:2 final size:2
Alignment explanation
Indices: 18872234--18872264 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
18872224 ATGCTAATTC
18872234 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18872265 GAGAGAGAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18872269 original size:2 final size:2
Alignment explanation
Indices: 18872264--18872290 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
18872254 ATATATATAT
18872264 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
18872291 ATAGAAACGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18881704 original size:15 final size:15
Alignment explanation
Indices: 18881671--18881704 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
18881661 CGTGGCACTT
* *
18881671 CTTTCATTTTGTTTT
1 CTTTCATTTTCTTTG
18881686 CTTTCATTTTCTTTG
1 CTTTCATTTTCTTTG
18881701 CTTT
1 CTTT
18881705 TTTAAAGCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.18, G:0.06, T:0.71
Consensus pattern (15 bp):
CTTTCATTTTCTTTG
Found at i:18883273 original size:39 final size:41
Alignment explanation
Indices: 18883196--18883276 Score: 130
Period size: 39 Copynumber: 2.0 Consensus size: 41
18883186 CTAAAGAAAC
*
18883196 ATTCATATTAAAAAATAATGATGTTAAGAAAACGGTATCTT
1 ATTCATATTAAAAAATAATGATGTTAAGAAAACAGTATCTT
*
18883237 ATTCATATTAAAAAAT-AT-ATGTTAAGAAAATAGTATCTT
1 ATTCATATTAAAAAATAATGATGTTAAGAAAACAGTATCTT
18883276 A
1 A
18883277 ATATAGTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
39 20 0.53
40 2 0.05
41 16 0.42
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (41 bp):
ATTCATATTAAAAAATAATGATGTTAAGAAAACAGTATCTT
Found at i:18886164 original size:12 final size:12
Alignment explanation
Indices: 18886118--18886182 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 12
18886108 AAAATTTTCA
*
18886118 AAAATCAAACTT
1 AAAATCAAAATT
* *
18886130 GAAATCATAATT
1 AAAATCAAAATT
**
18886142 AAAATTTAAATT
1 AAAATCAAAATT
* *
18886154 TAAATCAAAATC
1 AAAATCAAAATT
18886166 AACAAT-AAAATT
1 AA-AATCAAAATT
18886178 AAAAT
1 AAAAT
18886183 TGTGAGCTTT
Statistics
Matches: 39, Mismatches: 13, Indels: 3
0.71 0.24 0.05
Matches are distributed among these distances:
11 3 0.08
12 33 0.85
13 3 0.08
ACGTcount: A:0.60, C:0.09, G:0.02, T:0.29
Consensus pattern (12 bp):
AAAATCAAAATT
Found at i:18890110 original size:51 final size:51
Alignment explanation
Indices: 18890001--18890112 Score: 127
Period size: 51 Copynumber: 2.2 Consensus size: 51
18889991 GAGAGATTTT
* * * * * **
18890001 TAGGATTTAATTTCAAAATCAATTCACATTAAAATGATATTAAGAGATTTT
1 TAGGATTTAATTCCAAAATCAATTCACATTAAAATGAAATAAAGAAAATCA
* *
18890052 TAGGATTTAATTCCAAAATCAATTCACATTAAAATTAAATCAAATAAAATCA
1 TAGGATTTAATTCCAAAATCAATTCACATTAAAATGAAAT-AAAGAAAATCA
18890104 TA-GATTTAA
1 TAGGATTTAA
18890113 GAATAATTGA
Statistics
Matches: 51, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
51 44 0.86
52 7 0.14
ACGTcount: A:0.47, C:0.10, G:0.07, T:0.36
Consensus pattern (51 bp):
TAGGATTTAATTCCAAAATCAATTCACATTAAAATGAAATAAAGAAAATCA
Found at i:18890230 original size:164 final size:164
Alignment explanation
Indices: 18890048--18890374 Score: 510
Period size: 164 Copynumber: 2.0 Consensus size: 164
18890038 TATTAAGAGA
18890048 TTTTTAGGATTTAATTCCAAAATCAATTCACATTAAAATTAAATCAAATAAAATCATAGATTTAA
1 TTTTTAGGATTTAATTCCAAAATCAATTCACATTAAAATTAAATCAAATAAAATCATAGATTTAA
* * * * *
18890113 GAATAATTGATTAAGTATAAATTTCTATATAAATCTGTGATGACATAGAGGTGAGGGGGTCAAAA
66 GAAGAATTGATTAAGCATAAATTTCTATATAAATCTGAGATGACACAGAGGTAAGGGGGTCAAAA
* * *
18890178 GGGAAAGTTCTCCCTTTTTTATTCTTTCTTCAAT
131 AGAAAAGTTCTCCCTTTTTTATTCTTCCTTCAAT
* * *
18890212 TTTTTGGGATTTAATTCCAGAATTAATTCACATTAAAATTAAATCAAATAAAATCATAGATTTAA
1 TTTTTAGGATTTAATTCCAAAATCAATTCACATTAAAATTAAATCAAATAAAATCATAGATTTAA
* * * *
18890277 GGAGAATTGATTGAGCATAAATTTTTATATAAATTTGAGATGACACAGAGGTAAGGGGGTCAAAA
66 GAAGAATTGATTAAGCATAAATTTCTATATAAATCTGAGATGACACAGAGGTAAGGGGGTCAAAA
*
18890342 AGAAAAGTTTTCCCTTTTTTATTCTTCCTTCAA
131 AGAAAAGTTCTCCCTTTTTTATTCTTCCTTCAA
18890375 CTTTGGTTCT
Statistics
Matches: 147, Mismatches: 16, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
164 147 1.00
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.37
Consensus pattern (164 bp):
TTTTTAGGATTTAATTCCAAAATCAATTCACATTAAAATTAAATCAAATAAAATCATAGATTTAA
GAAGAATTGATTAAGCATAAATTTCTATATAAATCTGAGATGACACAGAGGTAAGGGGGTCAAAA
AGAAAAGTTCTCCCTTTTTTATTCTTCCTTCAAT
Found at i:18890985 original size:5 final size:5
Alignment explanation
Indices: 18890972--18891067 Score: 58
Period size: 5 Copynumber: 18.8 Consensus size: 5
18890962 GGTTTTTCTT
*
18890972 TTTTCA TTTTA TTTTA -TTT- TTTGA TTTTA TTTTTA TTTTGA TTTATCA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT-A TTT-T-A
** *
18891020 TTTTA -TTT- TTTTA AGTT- TTTTA TTTCA TTTTA TTATTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTT
18891068 GCTAAATTTT
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
4 13 0.18
5 33 0.46
6 16 0.23
7 9 0.13
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:18890986 original size:13 final size:12
Alignment explanation
Indices: 18890978--18891067 Score: 76
Period size: 12 Copynumber: 7.2 Consensus size: 12
18890968 TCTTTTTTCA
18890978 TTTTATTTTATT
1 TTTTATTTTATT
18890990 TTTTGATTTTA-T
1 TTTT-ATTTTATT
18891002 TTTTATTTTGATT
1 TTTTATTTT-ATT
* *
18891015 TATCATTTTATTT
1 TTTTATTTTA-TT
18891028 TTTTAAGTTTT-TT
1 TTTT-A-TTTTATT
*
18891041 ATTTCATTTTATT
1 -TTTTATTTTATT
*
18891054 ATTTATTTTATT
1 TTTTATTTTATT
18891066 TT
1 TT
18891068 GCTAAATTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
11 5 0.08
12 26 0.42
13 23 0.37
14 4 0.06
15 4 0.06
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (12 bp):
TTTTATTTTATT
Found at i:18890986 original size:18 final size:18
Alignment explanation
Indices: 18890965--18891030 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
18890955 GATCATAGGT
*
18890965 TTTTCTTTTTTCATTTTA
1 TTTTATTTTTTCATTTTA
*
18890983 TTTTATTTTTTGATTTTA
1 TTTTATTTTTTCATTTTA
* *
18891001 TTTT-TATTTTGATTTATCA
1 TTTTATTTTTTCATTT-T-A
18891020 TTTTATTTTTT
1 TTTTATTTTTT
18891031 TAAGTTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.24
18 21 0.51
19 5 0.12
20 5 0.12
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (18 bp):
TTTTATTTTTTCATTTTA
Found at i:18891010 original size:17 final size:16
Alignment explanation
Indices: 18890972--18891067 Score: 70
Period size: 17 Copynumber: 5.6 Consensus size: 16
18890962 GGTTTTTCTT
*
18890972 TTTTCATTTTATTTTATT
1 TTTT-ATTTTATTTT-TA
18890990 TTTTGATTTTATTTTTA
1 TTTT-ATTTTATTTTTA
18891007 TTTTGA-TTTATCATTTTA
1 TTTT-ATTTTAT--TTTTA
*
18891025 TTTT-TTTAAGTTTTTTA
1 TTTTATTTTA--TTTTTA
*
18891042 TTTCATTTTATTATTTA
1 TTTTATTTTATT-TTTA
18891059 TTTTATTTT
1 TTTTATTTT
18891068 GCTAAATTTT
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
16 7 0.11
17 30 0.46
18 27 0.42
19 1 0.02
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (16 bp):
TTTTATTTTATTTTTA
Found at i:18892045 original size:13 final size:13
Alignment explanation
Indices: 18892022--18892104 Score: 51
Period size: 13 Copynumber: 5.8 Consensus size: 13
18892012 ATCGTAGGTT
18892022 TTTTTTAATTTTAA
1 TTTTTT-ATTTTAA
*
18892036 TTTTTTATTTTAGTTT
1 TTTTTTATTTTA---A
18892052 TATTTTTATTTTATCA
1 T-TTTTTATTTTA--A
*
18892068 TTTTATATTTTAA
1 TTTTTTATTTTAA
*
18892081 GTTTTTTA-TTTCA
1 -TTTTTTATTTTAA
18892094 TTTTATTATTT
1 TTTT-TTATTT
18892105 ATTTTATTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
12 4 0.07
13 14 0.25
14 14 0.25
15 10 0.18
16 3 0.05
17 11 0.20
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (13 bp):
TTTTTTATTTTAA
Found at i:18892052 original size:25 final size:25
Alignment explanation
Indices: 18892024--18892072 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
18892014 CGTAGGTTTT
*
18892024 TTTTAATTTTAATTTT-TTATTTTAG
1 TTTT-ATTTTAATTTTATCATTTTAG
*
18892049 TTTTATTTTTATTTTATCATTTTA
1 TTTTATTTTAATTTTATCATTTTA
18892073 TATTTTAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (25 bp):
TTTTATTTTAATTTTATCATTTTAG
Found at i:18892057 original size:5 final size:5
Alignment explanation
Indices: 18892038--18892114 Score: 50
Period size: 5 Copynumber: 14.8 Consensus size: 5
18892028 AATTTTAATT
* * **
18892038 TTTTA TTTTA GTTTTA TTTTTA TTTTA TCATT- TTATA TTTTA AGTT-
1 TTTTA TTTTA -TTTTA -TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA
*
18892084 TTTTA TTTCA TTTTA TTATTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -T-TTTA TTTTA TTTT
18892115 GCTATTTTTT
Statistics
Matches: 55, Mismatches: 11, Indels: 12
0.71 0.14 0.15
Matches are distributed among these distances:
4 3 0.05
5 34 0.62
6 14 0.25
7 4 0.07
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:18892098 original size:45 final size:45
Alignment explanation
Indices: 18892024--18892111 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 45
18892014 CGTAGGTTTT
*
18892024 TTTTAATTTTAATTTTTTATTTTAGTTTTATT-TTTATTTTATCA
1 TTTTAATTTTAATTTTTTATTTCAGTTTTATTATTTATTTTATCA
18892068 TTTTATATTTTAAGTTTTTTATTTCA-TTTTATTATTTATTTTAT
1 TTTTA-ATTTTAA-TTTTTTATTTCAGTTTTATTATTTATTTTAT
18892112 TTTGCTATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
44 5 0.12
45 14 0.35
46 21 0.52
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (45 bp):
TTTTAATTTTAATTTTTTATTTCAGTTTTATTATTTATTTTATCA
Found at i:18892120 original size:17 final size:17
Alignment explanation
Indices: 18892085--18892126 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
18892075 TTTTAAGTTT
* *
18892085 TTTATTTCATTTTATTA
1 TTTATTTTATTTTACTA
*
18892102 TTTATTTTATTTTGCTA
1 TTTATTTTATTTTACTA
18892119 TTT-TTTTA
1 TTTATTTTA
18892127 GTGAGCAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTATTTTATTTTACTA
Found at i:18895046 original size:10 final size:10
Alignment explanation
Indices: 18895033--18895066 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
18895023 AAAAATGATG
18895033 AAAAGAAAAA
1 AAAAGAAAAA
*
18895043 AAAAGGAAAA
1 AAAAGAAAAA
18895053 AAAAGAAAAA
1 AAAAGAAAAA
18895063 AAAA
1 AAAA
18895067 TTGATGAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:18895400 original size:25 final size:26
Alignment explanation
Indices: 18895351--18895400 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
18895341 GAAAAGGTGT
**
18895351 GCAAAAAAAATAATAATAAGCAAAAA
1 GCAAAAAAAATAATAATAAAAAAAAA
18895377 GCAAAAAAAA-AATAATAAAAAAAA
1 GCAAAAAAAATAATAATAAAAAAAA
18895401 GGAAAGACTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.78, C:0.06, G:0.06, T:0.10
Consensus pattern (26 bp):
GCAAAAAAAATAATAATAAAAAAAAA
Found at i:18898257 original size:29 final size:30
Alignment explanation
Indices: 18898205--18898314 Score: 94
Period size: 29 Copynumber: 3.9 Consensus size: 30
18898195 ATTATTTAAC
* *
18898205 ATTT-ATAAAATTTATTAATAAATAATAATT
1 ATTTAATAAAA-TTATTTATTAATAATAATT
* *
18898235 -TTTATTTAAATTATTTATTAAT-AT-ATT
1 ATTTAATAAAATTATTTATTAATAATAATT
18898262 ATTTAATAAAATTAATTTATT-ATAATAA--
1 ATTTAATAAAATT-ATTTATTAATAATAATT
18898290 A-TTAATAAAATTATTTCA-TAATAAT
1 ATTTAATAAAATTATTT-ATTAATAAT
18898315 CAAAATGAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
26 5 0.07
27 20 0.30
28 15 0.22
29 22 0.33
30 5 0.07
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
ATTTAATAAAATTATTTATTAATAATAATT
Found at i:18898262 original size:15 final size:13
Alignment explanation
Indices: 18898231--18898305 Score: 62
Period size: 13 Copynumber: 5.6 Consensus size: 13
18898221 AATAAATAAT
*
18898231 AATT-TTTATTTA
1 AATTATTTATTAA
18898243 AATTATTTATTAA
1 AATTATTTATTAA
*
18898256 TATATTATTTAATAA
1 -A-ATTATTTATTAA
*
18898271 AATTAATTTATTAT
1 AATT-ATTTATTAA
* * *
18898285 AATAAATTAATAA
1 AATTATTTATTAA
18898298 AATTATTT
1 AATTATTT
18898306 CATAATAATC
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
12 4 0.08
13 22 0.45
14 12 0.24
15 11 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
AATTATTTATTAA
Found at i:18898275 original size:21 final size:21
Alignment explanation
Indices: 18898251--18898310 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
18898241 TAAATTATTT
18898251 ATTAATATATTATTTAATAAA
1 ATTAATATATTATTTAATAAA
*
18898272 ATTAATTTATTA--TAAT-AA
1 ATTAATATATTATTTAATAAA
* *
18898290 ATTAATAAAATTATTTCATAA
1 ATTAAT-ATATTATTTAATAA
18898311 TAATCAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
18 8 0.26
19 8 0.26
21 14 0.45
22 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
ATTAATATATTATTTAATAAA
Found at i:18898291 original size:18 final size:18
Alignment explanation
Indices: 18898260--18898295 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
18898250 TATTAATATA
18898260 TTATTTAATAAAATTAAT
1 TTATTTAATAAAATTAAT
18898278 TTATTATAAT-AAATTAAT
1 TTATT-TAATAAAATTAAT
18898296 AAAATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTATTTAATAAAATTAAT
Found at i:18898313 original size:27 final size:26
Alignment explanation
Indices: 18898242--18898314 Score: 83
Period size: 27 Copynumber: 2.7 Consensus size: 26
18898232 ATTTTTATTT
* *
18898242 AAATTATTTATTAATATATTATTTAATA
1 AAATTATTTA-TAATA-ATAAATTAATA
*
18898270 AAATTAATTTATTATAATAAATTAATA
1 AAATT-ATTTATAATAATAAATTAATA
18898297 AAATTATTTCATAATAAT
1 AAATTATTT-ATAATAAT
18898315 CAAAATGAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
26 4 0.10
27 21 0.54
28 9 0.23
29 5 0.13
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATTATTTATAATAATAAATTAATA
Found at i:18899565 original size:81 final size:81
Alignment explanation
Indices: 18899478--18899641 Score: 265
Period size: 81 Copynumber: 2.0 Consensus size: 81
18899468 TGAGATAGCT
* * * *
18899478 TTTATATATAATATAGATATGATAGTGTTAGCCTTGAATTAATCCTTATTTTGAAATTACAAAAC
1 TTTATATATAATATAGATATGATAGTGCTAGCCTTAAATTAATCCTTATTTTGAAATGAAAAAAC
18899543 ATTAAACTAAACAAGC
66 ATTAAACTAAACAAGC
* *
18899559 TTTATATATAATATAGATATGATAGTGCTAGCCTTAAATTGATCTTTATTTTGAAATGAAAAAAC
1 TTTATATATAATATAGATATGATAGTGCTAGCCTTAAATTAATCCTTATTTTGAAATGAAAAAAC
*
18899624 ATTAAATTAAACAAGC
66 ATTAAACTAAACAAGC
18899640 TT
1 TT
18899642 GATCGAGTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 76 1.00
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (81 bp):
TTTATATATAATATAGATATGATAGTGCTAGCCTTAAATTAATCCTTATTTTGAAATGAAAAAAC
ATTAAACTAAACAAGC
Found at i:18907319 original size:15 final size:16
Alignment explanation
Indices: 18907294--18907327 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
18907284 CTTGATGACA
18907294 TATCTTTAACAATTGG
1 TATCTTTAACAATTGG
*
18907310 TATC-TTAACATTTGG
1 TATCTTTAACAATTGG
18907325 TAT
1 TAT
18907328 GATCTCAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
TATCTTTAACAATTGG
Found at i:18910997 original size:21 final size:21
Alignment explanation
Indices: 18910971--18911010 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
18910961 AGTGTTGGGG
* *
18910971 TAATTTTTTTTTCTTTTTCAT
1 TAATTTTTGTATCTTTTTCAT
18910992 TAATTTTTGTATCTTTTTC
1 TAATTTTTGTATCTTTTTC
18911011 TTGGTGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.15, C:0.10, G:0.03, T:0.72
Consensus pattern (21 bp):
TAATTTTTGTATCTTTTTCAT
Found at i:18917219 original size:41 final size:41
Alignment explanation
Indices: 18917174--18917263 Score: 101
Period size: 41 Copynumber: 2.2 Consensus size: 41
18917164 ATATTCGTAA
* * * * *
18917174 TTGCATCACTTACCTGTGCATCATTAA-AGAGACATTTGCAT
1 TTGCATCACTTACATCTGCATCA-CAAGAAAGACAATTGCAT
* *
18917215 TTGCATCGCTTGCATCTGCATCACAAGAAAGACAATTGCAT
1 TTGCATCACTTACATCTGCATCACAAGAAAGACAATTGCAT
18917256 TTGCATCA
1 TTGCATCA
18917264 TTTGTATTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
40 2 0.05
41 38 0.95
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (41 bp):
TTGCATCACTTACATCTGCATCACAAGAAAGACAATTGCAT
Found at i:18917698 original size:22 final size:22
Alignment explanation
Indices: 18917656--18917705 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
18917646 CTCGGTCGAT
*
18917656 TCTTTAAGACCTTCGGACATAA
1 TCTTTAAAACCTTCGGACATAA
*
18917678 TCTTTAAAACTTTCAGG-CATAA
1 TCTTTAAAACCTTC-GGACATAA
*
18917700 TTTTTA
1 TCTTTA
18917706 CTTGCGGTGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (22 bp):
TCTTTAAAACCTTCGGACATAA
Found at i:18917747 original size:37 final size:36
Alignment explanation
Indices: 18917700--18917771 Score: 108
Period size: 37 Copynumber: 2.0 Consensus size: 36
18917690 TCAGGCATAA
* * *
18917700 TTTTTACTTGCGGTGTTGTCTCGGTCTATTCTTTAT
1 TTTTTACTTGCAGTGTTGTCTCGATCAATTCTTTAT
18917736 TTTTTGACTTGCAGTGTTGTCTCGATCAATTCTTTA
1 TTTTT-ACTTGCAGTGTTGTCTCGATCAATTCTTTA
18917772 AGACCTTCGG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 5 0.16
37 27 0.84
ACGTcount: A:0.12, C:0.17, G:0.18, T:0.53
Consensus pattern (36 bp):
TTTTTACTTGCAGTGTTGTCTCGATCAATTCTTTAT
Found at i:18917808 original size:22 final size:22
Alignment explanation
Indices: 18917783--18917835 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 22
18917773 GACCTTCGGA
*
18917783 CATAATTTCTAAGA-CTTTTAGG
1 CATAATTTCTAAGAGC-TCTAGG
*
18917805 CATAATCTT-TAAGAGCTCTGGG
1 CATAAT-TTCTAAGAGCTCTAGG
18917827 CATAATTTC
1 CATAATTTC
18917836 GACTCGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
21 2 0.08
22 21 0.81
23 3 0.12
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (22 bp):
CATAATTTCTAAGAGCTCTAGG
Found at i:18917940 original size:22 final size:21
Alignment explanation
Indices: 18917899--18917967 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 21
18917889 CCAATCAATT
*
18917899 TTTTAAGACC-TCCGGACATAA
1 TTTTAAGACCTTCAGG-CATAA
18917920 TTTCTAAGACCTTCAGGCATAA
1 TTT-TAAGACCTTCAGGCATAA
* *
18917942 TCTTTAAGACTTTCAGGTATAA
1 T-TTTAAGACCTTCAGGCATAA
18917964 TTTT
1 TTTT
18917968 GACTTGCAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
21 6 0.14
22 30 0.71
23 6 0.14
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (21 bp):
TTTTAAGACCTTCAGGCATAA
Found at i:18917964 original size:132 final size:132
Alignment explanation
Indices: 18917660--18918054 Score: 454
Period size: 132 Copynumber: 3.0 Consensus size: 132
18917650 GTCGATTCTT
* * **
18917660 TAAGACCTTC-GGACATAATCTTTAAAACTTTCAGGCATAATTTTTACTTGCGGTGTTGTCTCGG
1 TAAGACCTTCAGG-CATAATCTTTAAGACTTTCAGGCATAATTTTGACTTGCAATGTTGTCTCGG
* * * * * *
18917724 TCTATTCTTTATTTTTTGACTTGCAGTGTTGTCTCGATCAATTCTTTAAGACCTTCGGACATAAT
65 TCAATTCTTTATTTTTAGACTTGCGGTGTTATCTCAATCAATTCTTTAAGACCTCCGGACATAAT
18917789 TTC
130 TTC
* * * * * * * * * *
18917792 TAAGACTTTTAGGCATAATCTTTAAGAGCTCT-GGGCATAATTTCGACTCGTAATGTTATCCCGA
1 TAAGACCTTCAGGCATAATCTTTAAGA-CTTTCAGGCATAATTTTGACTTGCAATGTTGTCTCGG
* * * *
18917856 TCGATTCTTCATTTTTAGACTTGCGGTGTTATCCCAATCAATTTTTTAAGACCTCCGGACATAAT
65 TCAATTCTTTATTTTTAGACTTGCGGTGTTATCTCAATCAATTCTTTAAGACCTCCGGACATAAT
18917921 TTC
130 TTC
* *
18917924 TAAGACCTTCAGGCATAATCTTTAAGACTTTCAGGTATAATTTTGACTTGCAATGTTGTCTTGGT
1 TAAGACCTTCAGGCATAATCTTTAAGACTTTCAGGCATAATTTTGACTTGCAATGTTGTCTCGGT
* * * * * *
18917989 TAATTCTTTATTTTTTA-ACTTGCGATGTTATCTCAATCGATTCTGTAAGACCTCTGGGCATAAT
66 CAATTCTTTA-TTTTTAGACTTGCGGTGTTATCTCAATCAATTCTTTAAGACCTCCGGACATAAT
18918053 TT
130 TT
18918055 TGACTCACGG
Statistics
Matches: 214, Mismatches: 45, Indels: 8
0.80 0.17 0.03
Matches are distributed among these distances:
131 3 0.01
132 200 0.93
133 11 0.05
ACGTcount: A:0.25, C:0.18, G:0.16, T:0.41
Consensus pattern (132 bp):
TAAGACCTTCAGGCATAATCTTTAAGACTTTCAGGCATAATTTTGACTTGCAATGTTGTCTCGGT
CAATTCTTTATTTTTAGACTTGCGGTGTTATCTCAATCAATTCTTTAAGACCTCCGGACATAATT
TC
Found at i:18918148 original size:22 final size:22
Alignment explanation
Indices: 18918091--18918148 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18918081 TTTTTAAGAT
* ** *
18918091 CTTCAGGCATAATTTTTTAAAC
1 CTTCAAGCATAATCCTTAAAAC
* *
18918113 CTTCAATCACAATCCTTAAAAC
1 CTTCAAGCATAATCCTTAAAAC
18918135 CTTCAAGCATAATC
1 CTTCAAGCATAATC
18918149 TCTAATACAT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (22 bp):
CTTCAAGCATAATCCTTAAAAC
Found at i:18918468 original size:22 final size:23
Alignment explanation
Indices: 18918422--18918473 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
18918412 TTGATTCTTA
*
18918422 AAGACCTCCGAGCATAATTCTCT
1 AAGACCTCCGAGCACAATTCTCT
18918445 AAGACCTCC-AGGCACAA-TCTCT
1 AAGACCTCCGA-GCACAATTCTCT
*
18918467 AAAACCT
1 AAGACCT
18918474 TTGGATATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.35, C:0.33, G:0.12, T:0.21
Consensus pattern (23 bp):
AAGACCTCCGAGCACAATTCTCT
Found at i:18918661 original size:22 final size:23
Alignment explanation
Indices: 18918602--18918662 Score: 79
Period size: 23 Copynumber: 2.7 Consensus size: 23
18918592 TTGTCCCAGT
**
18918602 CAATTCTTTAAGACCTCCGGGCA
1 CAATTCTTTAAGACCTCCAAGCA
* *
18918625 TAATTCTCTAAGACCTCCAAGCA
1 CAATTCTTTAAGACCTCCAAGCA
18918648 CAA-TCTTTAAGACCT
1 CAATTCTTTAAGACCT
18918663 TTGGGTATAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 11 0.34
23 21 0.66
ACGTcount: A:0.31, C:0.30, G:0.11, T:0.28
Consensus pattern (23 bp):
CAATTCTTTAAGACCTCCAAGCA
Found at i:18918673 original size:45 final size:44
Alignment explanation
Indices: 18918606--18918691 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 44
18918596 CCCAGTCAAT
18918606 TCTTTAAGACCTCCGGGCATAATTCTCTAAGACCTCCAAGCACAA
1 TCTTTAAGACCTCCGGGCATAATTC-CTAAGACCTCCAAGCACAA
** * *
18918651 TCTTTAAGACCTTTGGGTATAATTCCTAAGACCTCCGAGCA
1 TCTTTAAGACCTCCGGGCATAATTCCTAAGACCTCCAAGCA
18918692 TAATTTCGAC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 15 0.41
45 22 0.59
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (44 bp):
TCTTTAAGACCTCCGGGCATAATTCCTAAGACCTCCAAGCACAA
Found at i:18918694 original size:22 final size:23
Alignment explanation
Indices: 18918603--18918696 Score: 93
Period size: 22 Copynumber: 4.2 Consensus size: 23
18918593 TGTCCCAGTC
* *
18918603 AATTCTTTAAGACCTCCGGGCAT
1 AATTCTCTAAGACCTCCGAGCAT
* *
18918626 AATTCTCTAAGACCTCCAAGCAC
1 AATTCTCTAAGACCTCCGAGCAT
* ** * *
18918649 AA-TCTTTAAGACCTTTGGGTAT
1 AATTCTCTAAGACCTCCGAGCAT
18918671 AATTC-CTAAGACCTCCGAGCAT
1 AATTCTCTAAGACCTCCGAGCAT
18918693 AATT
1 AATT
18918697 TCGACTTGCG
Statistics
Matches: 54, Mismatches: 16, Indels: 3
0.74 0.22 0.04
Matches are distributed among these distances:
22 31 0.57
23 23 0.43
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.30
Consensus pattern (23 bp):
AATTCTCTAAGACCTCCGAGCAT
Found at i:18918970 original size:38 final size:39
Alignment explanation
Indices: 18918922--18919013 Score: 109
Period size: 38 Copynumber: 2.4 Consensus size: 39
18918912 TATAATTTCT
* *
18918922 ACTTGCAGTGTTGTCCT-AGTTCGTTTT-TTTATTATTCC
1 ACTTGCAGTGTTGTCCTCAG-TCATTTTCTTTACTATTCC
* *
18918960 ACTTGTAGTGTTGT-CTCAGTCATTTTCTTTACTATTCG
1 ACTTGCAGTGTTGTCCTCAGTCATTTTCTTTACTATTCC
*
18918998 ACTTGCGGTGTTGTCC
1 ACTTGCAGTGTTGTCC
18919014 GGTCATTATT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
37 8 0.18
38 36 0.80
39 1 0.02
ACGTcount: A:0.13, C:0.20, G:0.18, T:0.49
Consensus pattern (39 bp):
ACTTGCAGTGTTGTCCTCAGTCATTTTCTTTACTATTCC
Found at i:18919456 original size:16 final size:16
Alignment explanation
Indices: 18919432--18919468 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
18919422 AGCCACCCCT
*
18919432 TACAGCCTACCCTTGC
1 TACATCCTACCCTTGC
18919448 TACATCCTACCCTTGC
1 TACATCCTACCCTTGC
18919464 TACAT
1 TACAT
18919469 TTGTAGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.41, G:0.08, T:0.30
Consensus pattern (16 bp):
TACATCCTACCCTTGC
Found at i:18920387 original size:29 final size:29
Alignment explanation
Indices: 18920331--18920392 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
18920321 AAACCACCTG
*
18920331 AACCATTGACTGAACCATTAATCAGCTCA
1 AACCATTGACTGAACCATTAAACAGCTCA
* * *
18920360 AACCATTGACTGAATCATTAAACCGCTCG
1 AACCATTGACTGAACCATTAAACAGCTCA
18920389 AACC
1 AACC
18920393 GCTCGAACTG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.37, C:0.29, G:0.11, T:0.23
Consensus pattern (29 bp):
AACCATTGACTGAACCATTAAACAGCTCA
Found at i:18920394 original size:9 final size:9
Alignment explanation
Indices: 18920380--18920411 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
18920370 TGAATCATTA
18920380 AACCGCTCG
1 AACCGCTCG
18920389 AACCGCTCG
1 AACCGCTCG
*
18920398 AACTGCTCG
1 AACCGCTCG
18920407 AACCG
1 AACCG
18920412 TCCGAATCGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.25, C:0.41, G:0.22, T:0.12
Consensus pattern (9 bp):
AACCGCTCG
Found at i:18920482 original size:16 final size:15
Alignment explanation
Indices: 18920461--18920490 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
18920451 CAGGTAATTT
18920461 TATATTATTATATATA
1 TATATTATT-TATATA
18920477 TATATTATTTATAT
1 TATATTATTTATAT
18920491 TATTTTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTATTTATATA
Found at i:18920491 original size:9 final size:9
Alignment explanation
Indices: 18920459--18920495 Score: 51
Period size: 9 Copynumber: 4.3 Consensus size: 9
18920449 TTCAGGTAAT
18920459 TTTATATTA
1 TTTATATTA
18920468 -TTATA-TA
1 TTTATATTA
*
18920475 TATATATTA
1 TTTATATTA
18920484 TTTATATTA
1 TTTATATTA
18920493 TTT
1 TTT
18920496 TGGTTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.08
8 9 0.38
9 13 0.54
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTATATTA
Found at i:18920819 original size:12 final size:12
Alignment explanation
Indices: 18920786--18920819 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
18920776 TTATTTAAAA
*
18920786 AATTAATAAATT
1 AATTAATAATTT
18920798 AATTAATAATTT
1 AATTAATAATTT
*
18920810 TATTAATAAT
1 AATTAATAAT
18920820 AAAAACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAATAATTT
Found at i:18920998 original size:35 final size:35
Alignment explanation
Indices: 18920958--18921030 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
18920948 ATTCAGAATG
* *
18920958 AAAATCAAAACCCTAAACCTTAAAATTAAAACCCT
1 AAAATCAAAACCCTAAACCCTAAAACTAAAACCCT
*
18920993 AAAATCAAAATCCTAAACCCTAAAACTAAAACCCT
1 AAAATCAAAACCCTAAACCCTAAAACTAAAACCCT
18921028 AAA
1 AAA
18921031 CTCTTCAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (35 bp):
AAAATCAAAACCCTAAACCCTAAAACTAAAACCCT
Found at i:18921010 original size:21 final size:21
Alignment explanation
Indices: 18920986--18921031 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
18920976 CTTAAAATTA
*
18920986 AAACCCTAAAA-TCAAAATCCT
1 AAACCCTAAAACT-AAAACCCT
18921007 AAACCCTAAAACTAAAACCCT
1 AAACCCTAAAACTAAAACCCT
18921028 AAAC
1 AAAC
18921032 TCTTCAAATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 22 0.96
22 1 0.04
ACGTcount: A:0.54, C:0.30, G:0.00, T:0.15
Consensus pattern (21 bp):
AAACCCTAAAACTAAAACCCT
Found at i:18921031 original size:13 final size:14
Alignment explanation
Indices: 18921007--18921188 Score: 57
Period size: 14 Copynumber: 12.4 Consensus size: 14
18920997 TCAAAATCCT
18921007 AAACCCTAAAACTA
1 AAACCCTAAAACTA
* *
18921021 AAACCCTAAACTCTTC
1 AAACCCTAAA-AC-TA
* *
18921037 AAATCTTAAAA-TCA
1 AAACCCTAAAACT-A
* *
18921051 AAACCTTAAAACATC
1 AAACCCTAAAAC-TA
* *
18921066 AAACCTTAAAA-TCG
1 AAACCCTAAAACT-A
*
18921080 AAACCCCAAAA-TCA
1 AAACCCTAAAACT-A
* *
18921094 AAACCCTAAATCCCA
1 AAACCCTAAA-ACTA
* *
18921109 CAAACCTTGAAACT-
1 -AAACCCTAAAACTA
*
18921123 AAACCCTAAAACCTCT
1 AAACCCTAAAA-CT-A
** *
18921139 AAACCCCGAAATTA
1 AAACCCTAAAACTA
*
18921153 AAACCCTAAACCCTCA
1 AAACCCTAAA-ACT-A
*
18921169 AAACCTTAAAACTA
1 AAACCCTAAAACTA
18921183 AAACCC
1 AAACCC
18921189 CAAACCCCAA
Statistics
Matches: 122, Mismatches: 32, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
13 11 0.09
14 56 0.46
15 18 0.15
16 37 0.30
ACGTcount: A:0.49, C:0.31, G:0.02, T:0.18
Consensus pattern (14 bp):
AAACCCTAAAACTA
Found at i:18921090 original size:29 final size:29
Alignment explanation
Indices: 18921035--18921090 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
18921025 CCTAAACTCT
* **
18921035 TCAAATCTTAAAATCAAAACCTTAAAACA
1 TCAAACCTTAAAATCAAAACCCCAAAACA
*
18921064 TCAAACCTTAAAATCGAAACCCCAAAA
1 TCAAACCTTAAAATCAAAACCCCAAAA
18921091 TCAAAACCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.54, C:0.25, G:0.02, T:0.20
Consensus pattern (29 bp):
TCAAACCTTAAAATCAAAACCCCAAAACA
Found at i:18921114 original size:59 final size:58
Alignment explanation
Indices: 18921049--18921184 Score: 168
Period size: 59 Copynumber: 2.3 Consensus size: 58
18921039 ATCTTAAAAT
*
18921049 CAAAACCTTAAAACATCAAACCTTAAAA-TCGAAACCCCAAAATCAAAACCCTAAATCCCA
1 CAAAACCTTAAAAC-T-AAACCCTAAAACTCGAAACCCCAAAATCAAAACCCTAAA-CCCA
* * * * *
18921109 C-AAACCTTGAAACTAAACCCTAAAACCTCTAAACCCCGAAATTAAAACCCTAAACCCT
1 CAAAACCTTAAAACTAAACCCTAAAA-CTCGAAACCCCAAAATCAAAACCCTAAACCCA
18921167 CAAAACCTTAAAACTAAA
1 CAAAACCTTAAAACTAAA
18921185 ACCCCAAACC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
57 10 0.15
58 5 0.08
59 50 0.76
60 1 0.02
ACGTcount: A:0.50, C:0.32, G:0.02, T:0.16
Consensus pattern (58 bp):
CAAAACCTTAAAACTAAACCCTAAAACTCGAAACCCCAAAATCAAAACCCTAAACCCA
Found at i:18921159 original size:30 final size:30
Alignment explanation
Indices: 18921080--18921173 Score: 93
Period size: 30 Copynumber: 3.2 Consensus size: 30
18921070 CTTAAAATCG
* * *
18921080 AAACCCCAAAATCAAAACCCTAAATCC-CA
1 AAACCCCGAAATTAAAACCCTAAAACCTCA
** * *
18921109 CAAACCTTGAAACT-AAACCCTAAAACCTCT
1 -AAACCCCGAAATTAAAACCCTAAAACCTCA
*
18921139 AAACCCCGAAATTAAAACCCTAAACCCTCA
1 AAACCCCGAAATTAAAACCCTAAAACCTCA
18921169 AAACC
1 AAACC
18921174 TTAAAACTAA
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
29 22 0.44
30 28 0.56
ACGTcount: A:0.48, C:0.36, G:0.02, T:0.14
Consensus pattern (30 bp):
AAACCCCGAAATTAAAACCCTAAAACCTCA
Found at i:18921185 original size:30 final size:29
Alignment explanation
Indices: 18921093--18921200 Score: 110
Period size: 30 Copynumber: 3.7 Consensus size: 29
18921083 CCCCAAAATC
*
18921093 AAAACCCTAAATCCCACAAACCTTGAAACT
1 AAAACCCTAAACCCCA-AAACCTTGAAACT
* * ** *
18921123 -AAACCCTAAAACCTCTAAACCCCGAAATT
1 AAAACCCT-AAACCCCAAAACCTTGAAACT
*
18921152 AAAACCCTAAACCCTCAAAACCTTAAAACT
1 AAAACCCTAAACCC-CAAAACCTTGAAACT
*
18921182 AAAACCCCAAACCCCAAAA
1 AAAACCCTAAACCCCAAAA
18921201 TCGAAACCTA
Statistics
Matches: 62, Mismatches: 13, Indels: 7
0.76 0.16 0.09
Matches are distributed among these distances:
29 27 0.44
30 35 0.56
ACGTcount: A:0.49, C:0.35, G:0.02, T:0.14
Consensus pattern (29 bp):
AAAACCCTAAACCCCAAAACCTTGAAACT
Found at i:18921233 original size:21 final size:20
Alignment explanation
Indices: 18921195--18921242 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
18921185 ACCCCAAACC
18921195 CCAAAATCGAAACCTAAAAT
1 CCAAAATCGAAACCTAAAAT
* *
18921215 CTAAAATCTAAATCCTAAAAT
1 CCAAAATCGAAA-CCTAAAAT
18921236 CCAAAAT
1 CCAAAAT
18921243 TTTGAAAACC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.54, C:0.23, G:0.02, T:0.21
Consensus pattern (20 bp):
CCAAAATCGAAACCTAAAAT
Found at i:18923345 original size:16 final size:16
Alignment explanation
Indices: 18923326--18923356 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18923316 TTTTACCCAT
*
18923326 TTTTTATTTTTTTTAA
1 TTTTTATTCTTTTTAA
18923342 TTTTTATTCTTTTTA
1 TTTTTATTCTTTTTA
18923357 TTTCAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTTTATTCTTTTTAA
Found at i:18925301 original size:3 final size:3
Alignment explanation
Indices: 18925293--18925334 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
18925283 ACATTATCCC
18925293 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
18925335 AAGCTTTCAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:18929643 original size:39 final size:40
Alignment explanation
Indices: 18929579--18929654 Score: 104
Period size: 39 Copynumber: 1.9 Consensus size: 40
18929569 TAAGTTTAAA
18929579 TTTAATATAAAATAAAAATTATTTTATTTT-ATTTTATTT
1 TTTAATATAAAATAAAAATTATTTTATTTTAATTTTATTT
*
18929618 TTTAATA-AAAAT-AAATTTGATTTTTATTTTAATTTTA
1 TTTAATATAAAATAAAAATT-A-TTTTATTTTAATTTTA
18929655 AATCTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
37 5 0.15
38 6 0.18
39 16 0.48
40 6 0.18
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (40 bp):
TTTAATATAAAATAAAAATTATTTTATTTTAATTTTATTT
Found at i:18929654 original size:33 final size:32
Alignment explanation
Indices: 18929589--18929655 Score: 82
Period size: 33 Copynumber: 2.1 Consensus size: 32
18929579 TTTAATATAA
* * *
18929589 AATAAAAATTATTTTATTTTATTTTATTTTTT
1 AATAAAAATAATTTGATTTTATTTTATATTTT
18929621 AATAAAAATAAATTTGATTTTTATTTTA-ATTTT
1 AATAAAAAT-AATTTGA-TTTTATTTTATATTTT
18929654 AA
1 AA
18929656 ATCTAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 9 0.30
33 11 0.37
34 10 0.33
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (32 bp):
AATAAAAATAATTTGATTTTATTTTATATTTT
Found at i:18929748 original size:22 final size:21
Alignment explanation
Indices: 18929707--18929748 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
18929697 TATATAAAAA
* *
18929707 TAAAATAATAAATTTTTTAAT
1 TAAAATAATAAATATATTAAT
18929728 TAAAATAATAAAATATATTAA
1 TAAAATAAT-AAATATATTAA
18929749 ATTTTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAAATAATAAATATATTAAT
Found at i:18931336 original size:25 final size:24
Alignment explanation
Indices: 18931281--18931336 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
18931271 TATTTTTAAC
18931281 AATTAATTTTCATTAATTAATTAT
1 AATTAATTTTCATTAATTAATTAT
*
18931305 -GTCTAATTTT-ATAGTAATTAATTAT
1 AAT-TAATTTTCAT--TAATTAATTAT
18931330 AATTAAT
1 AATTAAT
18931337 AATAAGCGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
23 3 0.12
24 7 0.27
25 15 0.58
26 1 0.04
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.52
Consensus pattern (24 bp):
AATTAATTTTCATTAATTAATTAT
Found at i:18931698 original size:14 final size:14
Alignment explanation
Indices: 18931681--18931722 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
18931671 TATTGAGGTT
18931681 ATTTTAAA-TATATA
1 ATTTTAAATTAT-TA
* *
18931695 ATTTAAAATTATTT
1 ATTTTAAATTATTA
18931709 ATTTTAAATTATTA
1 ATTTTAAATTATTA
18931723 GATAAGATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 20 0.87
15 3 0.13
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
ATTTTAAATTATTA
Found at i:18933334 original size:17 final size:17
Alignment explanation
Indices: 18933309--18933345 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
18933299 AGCGGCTATC
* *
18933309 GAAATCAATCACACATA
1 GAAAACAATCACACAGA
18933326 GAAAACAATCACACAGA
1 GAAAACAATCACACAGA
18933343 GAA
1 GAA
18933346 TCCAAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.57, C:0.22, G:0.11, T:0.11
Consensus pattern (17 bp):
GAAAACAATCACACAGA
Found at i:18940751 original size:66 final size:67
Alignment explanation
Indices: 18940675--18940800 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 67
18940665 CTTCTTTGTT
* * * *
18940675 CGATAGTTTTAACCTATTTTACA-TAAATGATATTAATTTTA-AGATTATTCTCATCTTTTAATA
1 CGATACTTTTAACATATTGTACATTAAATGATATTAATTTTACA-ATTATTCTCATATTTTAATA
18940738 TTA
65 TTA
* * *
18940741 CGATACTTTTAACATATTGTATATTAAATTATATTAATTTTACAATTATTTTCATATTTT
1 CGATACTTTTAACATATTGTACATTAAATGATATTAATTTTACAATTATTCTCATATTTT
18940801 TACATTAACA
Statistics
Matches: 51, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 19 0.37
67 31 0.61
68 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.51
Consensus pattern (67 bp):
CGATACTTTTAACATATTGTACATTAAATGATATTAATTTTACAATTATTCTCATATTTTAATAT
TA
Found at i:18940865 original size:21 final size:21
Alignment explanation
Indices: 18940832--18940891 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
18940822 GTTTAGAATT
*
18940832 ATTTTTTA-TTTATAATAATA
1 ATTTTTTACATTATAATAATA
*
18940852 ATTTTTTACATTATCAAT-TTA
1 ATTTTTTACATTAT-AATAATA
* *
18940873 ATTATTTACATTACAATAA
1 ATTTTTTACATTATAATAA
18940892 AATCTGTTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 11 0.34
21 18 0.56
22 3 0.09
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTTTTACATTATAATAATA
Found at i:18941502 original size:21 final size:22
Alignment explanation
Indices: 18941478--18941544 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 22
18941468 AGAGTTATTA
18941478 TTTAT-TTGTAATAATAATTCT
1 TTTATGTTGTAATAATAATTCT
* *
18941499 TTTATGTTGCAA-AA-AATATCA
1 TTTATGTTGTAATAATAAT-TCT
*
18941520 TTTATGTTATAATAAT-ATT-T
1 TTTATGTTGTAATAATAATTCT
18941540 TTTAT
1 TTTAT
18941545 ACTTGTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
20 8 0.22
21 20 0.54
22 9 0.24
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (22 bp):
TTTATGTTGTAATAATAATTCT
Found at i:18941991 original size:22 final size:20
Alignment explanation
Indices: 18941952--18941991 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
18941942 TTGATTAAAT
*
18941952 TAATTTTTTATTTATAATAC
1 TAATTTTTTAGTTATAATAC
18941972 TAATTTTTTACGTTACTAAT
1 TAATTTTTTA-GTTA-TAAT
18941992 TTATTATGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 3 0.18
22 4 0.24
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
TAATTTTTTAGTTATAATAC
Found at i:18942471 original size:17 final size:17
Alignment explanation
Indices: 18942424--18942485 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
18942414 TAATAATTCT
*
18942424 TTTATGTTACCAAAAATA
1 TTTATGTTA-CAATAATA
* *
18942442 -TTAT-TGTAAAATATTA
1 TTTATGT-TACAATAATA
18942458 TTTATGTTACAATAATA
1 TTTATGTTACAATAATA
*
18942475 TTTTTGTTACA
1 TTTATGTTACA
18942486 CTGGTTCTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
16 6 0.17
17 28 0.80
18 1 0.03
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (17 bp):
TTTATGTTACAATAATA
Found at i:18942768 original size:21 final size:20
Alignment explanation
Indices: 18942697--18942768 Score: 58
Period size: 21 Copynumber: 3.5 Consensus size: 20
18942687 TGTTTAGAAT
18942697 TATTTTTTAT-TTATAATAA
1 TATTTTTTATGTTATAATAA
* *
18942716 TAATTTTTTTATGTTGTCAACTTA
1 T-A-TTTTTTATGTTAT-AA-TAA
*
18942740 -ATTATTTATGTTATAATAA
1 TATTTTTTATGTTATAATAA
18942759 TATCTTTTTA
1 TAT-TTTTTA
18942769 CGTTTGTTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 12
0.69 0.10 0.21
Matches are distributed among these distances:
19 3 0.08
20 5 0.12
21 24 0.60
22 4 0.10
23 2 0.05
24 2 0.05
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (20 bp):
TATTTTTTATGTTATAATAA
Found at i:18943135 original size:15 final size:15
Alignment explanation
Indices: 18943112--18943143 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
18943102 TTTATTTACA
*
18943112 TTAACTTTTTTTTAT
1 TTAAATTTTTTTTAT
18943127 TTAAATTTTTTTTAT
1 TTAAATTTTTTTTAT
18943142 TT
1 TT
18943144 GTAATAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (15 bp):
TTAAATTTTTTTTAT
Found at i:18943526 original size:435 final size:435
Alignment explanation
Indices: 18942680--18943573 Score: 898
Period size: 435 Copynumber: 2.1 Consensus size: 435
18942670 GTGTTAACAT
* ** **
18942680 TTTTTTTTGTTTAGAATTATTTTTTATTTATAATAATAATTTTTTTATGTTGTCAACTTAATTAT
1 TTTTTTTTATTTA-AATT-TTTTTTATTTATAATAATAATTTTTTTACATTACCAACTTAATTAT
* * * * * **
18942745 TTATGTTATAATAATATCTTTTTACGTTTGTTGTTACTTTTATTACGTTTAGGATTATCATAATT
64 TTATGTTACAATAATATCTTTTTACCTATGTTGTTACTTTTATTACGTTTAGAATCATCATAAAC
* * *
18942810 TTTTTCTTAAAGATGTTACTATACTTCTAATCATTTTACGTCAAAAAATACTCACTTTTACAATT
129 TCTTTATTAAAGATGTTACTATACTTCTAATCATTTTACGTCAAAAAATACTCAATTTTACAATT
* * * * *
18942875 ATTTTTATCTTTTTACATTAACACTTATTTTTTAAGTGTAAGAATTTTTTTTATTTATATAATAC
194 ATTCTCATCTTTTTACATTAACACTTATTTATTAAGTGTAAGAATTTTTTTGATTTATATAATAA
* * * * ** * *
18942940 TAATTTTTTTGCATTATCAATTTAATTATTTATATTTTAATAATTTTTTTACACTTATTGTTACT
259 TAATTTTTTTACATTATCAACTTAATTAATTACATTACAATAATTTCTTTACACTTATTCTTACT
* * * * * *
18943005 TTTCATTATATTTAGAATTATCACAATATTTTATTAAGATATAATGATATTTGTAATCATTTTAC
324 TTTCATTATATTTAAAATTATCACAATATTCTATTAAGATATAATGACATATCTAATCATCTTAC
** * * * *
18943070 ATCAAATAATATTACTTTTACGATTATTTTCAT-TTATTTACATTAAC
389 ATCAAATAATAGCAATTTTACGATAATTCTAATATT-TTTACATTAAC
* *
18943117 TTTTTTTTATTTAAATTTTTTTTATTTGTAATAAT-ATTTCTTTTACATTACCAATTTAATTATT
1 TTTTTTTTATTTAAATTTTTTTTATTTATAATAATAATTT-TTTTACATTACCAACTTAATTATT
* *
18943181 TTTGTTACAATAATATCTTTTTATACCTAT-TT-TTACTTTTTATTACGTTTATAATCATCA-AA
65 TATGTTACAATAATATC-TTTT-TACCTATGTTGTTAC-TTTTATTACGTTTAGAATCATCATAA
* * * * *
18943243 ACTCTTTATT-AAGGTGTTA-TAATACTTCTAACTCATTTTATGTTAAACAATA-TTAATTTTAC
127 ACTCTTTATTAAAGATGTTACT-ATACTTCTAA-TCATTTTACGTCAAAAAATACTCAATTTTAC
* * * * *
18943305 GATTATTCTCATGTTTTTACGTTAACATTTATTTATT-AGTTTAA-AATTATTGTTTGAGTTTA-
190 AATTATTCTCATCTTTTTACATTAACACTTATTTATTAAGTGTAAGAATT-TT-TTTGA-TTTAT
* ** * *
18943367 AT-GTAATAATTTTTTTATGTTATCAACTTAATTAATTACGTTACAATAATATCTCTTTATACTT
252 ATAATAATAATTTTTTTACATTATCAACTTAATTAATTACATTACAATAAT-T-TCTTTACACTT
* * * * *
18943431 GTTCTTACTTTT-ATTATGTTTAAAATTATCACAACT-TTCTCTTAAGATGTTATGACATATCTA
315 ATTCTTACTTTTCATTATATTTAAAATTATCACAA-TATTCTATTAAGATATAATGACATATCTA
** * **
18943494 ATACATCTTATGTCAAATGATAGCAATTTTACGATAATTCTAATATTTTTATGTTAAC
379 AT-CATCTTACATCAAATAATAGCAATTTTACGATAATTCTAATATTTTTACATTAAC
* * *
18943552 TTATTTTCAATTAAATTTTTTT
1 TTTTTTTTATTTAAATTTTTTT
18943574 AAATGTTATA
Statistics
Matches: 371, Mismatches: 72, Indels: 30
0.78 0.15 0.06
Matches are distributed among these distances:
432 4 0.01
433 46 0.12
434 109 0.29
435 163 0.44
436 32 0.09
437 17 0.05
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.53
Consensus pattern (435 bp):
TTTTTTTTATTTAAATTTTTTTTATTTATAATAATAATTTTTTTACATTACCAACTTAATTATTT
ATGTTACAATAATATCTTTTTACCTATGTTGTTACTTTTATTACGTTTAGAATCATCATAAACTC
TTTATTAAAGATGTTACTATACTTCTAATCATTTTACGTCAAAAAATACTCAATTTTACAATTAT
TCTCATCTTTTTACATTAACACTTATTTATTAAGTGTAAGAATTTTTTTGATTTATATAATAATA
ATTTTTTTACATTATCAACTTAATTAATTACATTACAATAATTTCTTTACACTTATTCTTACTTT
TCATTATATTTAAAATTATCACAATATTCTATTAAGATATAATGACATATCTAATCATCTTACAT
CAAATAATAGCAATTTTACGATAATTCTAATATTTTTACATTAAC
Found at i:18945114 original size:22 final size:22
Alignment explanation
Indices: 18945089--18945134 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
18945079 ACTTAATTTA
*
18945089 TATATACATTAAAAATTAAAAT
1 TATATACATTAAAAATAAAAAT
*
18945111 TATATATATTAAAAATAAAAAT
1 TATATACATTAAAAATAAAAAT
18945133 TA
1 TA
18945135 AATTTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TATATACATTAAAAATAAAAAT
Found at i:18945145 original size:22 final size:22
Alignment explanation
Indices: 18945098--18945147 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
18945088 ATATATACAT
* * *
18945098 TAAAAATTAAAATTATATATAT
1 TAAAAATAAAAATTAAATATAA
*
18945120 TAAAAATAAAAATTAAATTTAA
1 TAAAAATAAAAATTAAATATAA
18945142 TAAAAA
1 TAAAAA
18945148 ATATATAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TAAAAATAAAAATTAAATATAA
Found at i:18951949 original size:24 final size:23
Alignment explanation
Indices: 18951906--18951982 Score: 79
Period size: 24 Copynumber: 3.3 Consensus size: 23
18951896 CATTAAATCG
18951906 AAAAAAAT--AATA-ATAGTAATA
1 AAAAAAATAAAATATATA-TAATA
*
18951927 AAAAATATATAAATATATATAATA
1 AAAAAAATA-AAATATATATAATA
*
18951951 ATAAAAAATAAAAAATATATATATA
1 A-AAAAAATAAAATATATATA-ATA
18951976 AAAAAAA
1 AAAAAAA
18951983 GTTTGGTCAA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 7 0.15
24 26 0.55
25 14 0.30
ACGTcount: A:0.73, C:0.00, G:0.01, T:0.26
Consensus pattern (23 bp):
AAAAAAATAAAATATATATAATA
Found at i:18951949 original size:30 final size:27
Alignment explanation
Indices: 18951922--18951973 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
18951912 ATAATAATAG
*
18951922 TAATAAAAAATATATAAATATATAT-AA
1 TAATAAAAAATA-AAAAATATATATAAA
18951949 TAATAAAAAATAAAAAATATATATA
1 TAATAAAAAATAAAAAATATATATA
18951974 TAAAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (27 bp):
TAATAAAAAATAAAAAATATATATAAA
Found at i:18954429 original size:13 final size:13
Alignment explanation
Indices: 18954399--18954441 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
18954389 TTCATATTTT
18954399 AAAATAATAAAAT-
1 AAAATAA-AAAATA
* *
18954412 TAAATAAAGAATA
1 AAAATAAAAAATA
18954425 AAAATAAAAAATA
1 AAAATAAAAAATA
18954438 AAAA
1 AAAA
18954442 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (13 bp):
AAAATAAAAAATA
Found at i:18954462 original size:16 final size:16
Alignment explanation
Indices: 18954432--18954462 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18954422 ATAAAAATAA
18954432 AAAATAAAAAAAATTT
1 AAAATAAAAAAAATTT
*
18954448 AAAATATAAAAAATT
1 AAAATAAAAAAAATT
18954463 ACACCCAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAAATAAAAAAAATTT
Found at i:18956418 original size:25 final size:21
Alignment explanation
Indices: 18956359--18956408 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 21
18956349 GATTTTTTTA
18956359 TTTTTTT-TATTATTTATGTTT
1 TTTTTTTGTATT-TTTATGTTT
18956380 TTTTTTTGTATTTTTATGTTT
1 TTTTTTTGTATTTTTATGTTT
18956401 ATTTTTTT
1 -TTTTTTT
18956409 AGAGTATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.12, C:0.00, G:0.06, T:0.82
Consensus pattern (21 bp):
TTTTTTTGTATTTTTATGTTT
Found at i:18956566 original size:60 final size:60
Alignment explanation
Indices: 18956454--18956878 Score: 343
Period size: 59 Copynumber: 6.9 Consensus size: 60
18956444 AAAAACATAT
* * *
18956454 AAAATAAAATTTTCCAAAAAAA-AATTTTTAAGGAAAAG-TGAAAATATCAATTTTTTTTA
1 AAAATAAAATTTT-CAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTA
18956513 AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTT-
1 AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTA
* *
18956572 AAAATAAAATTATCAAAAAAA-ATATTTTTAAGGAAAAA-TTGAAAGTATCAATTTTTCTTA
1 AAAATAAAATTTTCAAAAAAATAT-TTTTTAA-GAAAAAGTTGAAAGTATCAATTTTTTTTA
* * * *
18956632 AAAATAAAATTTCTAAAATAAAACTTTTCAAAAACATTTTGAGAAAATGTTGAAAGTATCAATTT
1 AAAATAAAATTT-TCAAA-AAAA-TATT--------TTTTAAGAAAAAGTTGAAAGTATCAATTT
** *
18956697 TCCTTC
55 TTTTTA
* * * *
18956703 AAATTAAAATATTTTTTTAAAAAAATATTTTTGAA-AAAAAGTTGAAAGTATCAATTTTTTTTT
1 AAAAT-AAA-A--TTTTCAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTA
* * * *
18956766 AAAATAAAAATTATCAAGAAAAACA-TTTTAAAGAAAAAGTTGAAAGTATCAATTTTCTTTA
1 AAAAT-AAAATTTTCAA-AAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTA
* *** * *
18956827 AAACAAAAAAACCTC---CAAATA--CTTTAAGAAAAAGTTGAAAGTATCAATTTTT
1 AAA-ATAAAATTTTCAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTT
18956879 CTTATATAAA
Statistics
Matches: 304, Mismatches: 37, Indels: 53
0.77 0.09 0.13
Matches are distributed among these distances:
56 28 0.09
57 4 0.01
58 10 0.03
59 74 0.24
60 47 0.15
61 45 0.15
62 6 0.02
63 33 0.11
64 5 0.02
70 5 0.02
71 29 0.10
72 6 0.02
73 5 0.02
74 4 0.01
75 3 0.01
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (60 bp):
AAAATAAAATTTTCAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAATTTTTTTTA
Found at i:18956570 original size:30 final size:29
Alignment explanation
Indices: 18956536--18956632 Score: 74
Period size: 30 Copynumber: 3.3 Consensus size: 29
18956526 CAAAAAAATA
18956536 TTTTTTAAGAAAAAGTTGAAAGTATCAATT
1 TTTTTTAAGAAAAA-TTGAAAGTATCAATT
* ** *
18956566 TTTTTTAAAATAAAATT-ATCAA--AAAAAAT
1 TTTTTTAAGA-AAAATTGA--AAGTATCAATT
*
18956595 ATTTTTAAGGAAAAATTGAAAGTATCAATT
1 TTTTTTAA-GAAAAATTGAAAGTATCAATT
*
18956625 TTTCTTAA
1 TTTTTTAA
18956633 AAATAAAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 14
0.66 0.15 0.19
Matches are distributed among these distances:
28 2 0.04
29 18 0.37
30 23 0.47
31 6 0.12
ACGTcount: A:0.47, C:0.04, G:0.08, T:0.40
Consensus pattern (29 bp):
TTTTTTAAGAAAAATTGAAAGTATCAATT
Found at i:18956740 original size:16 final size:16
Alignment explanation
Indices: 18956708--18956742 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
18956698 CCTTCAAATT
**
18956708 AAAATATTTTTTTAAA
1 AAAATATTTTTGAAAA
18956724 AAAATATTTTTGAAAA
1 AAAATATTTTTGAAAA
18956740 AAA
1 AAA
18956743 GTTGAAAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
AAAATATTTTTGAAAA
Found at i:18956818 original size:61 final size:59
Alignment explanation
Indices: 18956645--18956881 Score: 202
Period size: 63 Copynumber: 4.0 Consensus size: 59
18956635 ATAAAATTTC
* * * * *
18956645 TAAAATAAAACTTTTC--AAAAACATTTTGAGAAAATGTTGAAAGTATCAATTTTCCTT
1 TAAAATAAAAATTATCAAAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
* * * * * *
18956702 CAAATTAAAATATTTTTTTAAAAAAATATTTTTGAA-AAAAAGTTGAAAGTATCAATTTTTTTT
1 TAAAATAAAA-A--TTATCAAAAAAACA-TTTT-AAGAAAAAGTTGAAAGTATCAATTTTTCTT
18956765 TAAAATAAAAATTATCAAGAAAAACATTTTAAAGAAAAAGTTGAAAGTATCAA-TTTTCTT
1 TAAAATAAAAATTATCAA-AAAAACATTTT-AAGAAAAAGTTGAAAGTATCAATTTTTCTT
* * * *
18956825 TAAAACAAAAA-AACCTC-CAAATAC--TTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
1 TAAAATAAAAATTA--TCAAAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
18956882 ATATAAAAGC
Statistics
Matches: 148, Mismatches: 20, Indels: 24
0.77 0.10 0.12
Matches are distributed among these distances:
56 22 0.15
57 18 0.12
59 6 0.04
60 31 0.21
61 27 0.18
62 7 0.05
63 36 0.24
64 1 0.01
ACGTcount: A:0.48, C:0.08, G:0.08, T:0.36
Consensus pattern (59 bp):
TAAAATAAAAATTATCAAAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT
Found at i:18960894 original size:16 final size:16
Alignment explanation
Indices: 18960864--18960893 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
18960854 ATGGATGGAA
18960864 AAAAAAAGTAAAAAAT
1 AAAAAAAGTAAAAAAT
18960880 AAAAAAA-TAAAAAA
1 AAAAAAAGTAAAAAA
18960894 AAATGAAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (16 bp):
AAAAAAAGTAAAAAAT
Found at i:18962088 original size:20 final size:21
Alignment explanation
Indices: 18962063--18962112 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
18962053 TGTTGAGTGT
*
18962063 GAATCTTTAAA-CTCAAATGA
1 GAATCTTTAAACCTCAAACGA
18962083 GAATCTTTAAATCCTCAAACGA
1 GAATCTTTAAA-CCTCAAACGA
18962105 GAATCTTT
1 GAATCTTT
18962113 GACTGTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 11 0.41
22 16 0.59
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (21 bp):
GAATCTTTAAACCTCAAACGA
Found at i:18962129 original size:21 final size:21
Alignment explanation
Indices: 18962035--18962135 Score: 71
Period size: 21 Copynumber: 4.8 Consensus size: 21
18962025 AAGAAATCTC
*
18962035 CAAATGAGAATCTTTGAGTGT
1 CAAATGAGAATCTTTGACTGT
** * * *
18962056 TGAGTGTGAATCTTTAAAC--T
1 CAAATGAGAATCTTT-GACTGT
* * *
18962076 CAAATGAGAATCTTTAAATCCT
1 CAAATGAGAATCTTTGACT-GT
*
18962098 CAAACGAGAATCTTTGACTGT
1 CAAATGAGAATCTTTGACTGT
*
18962119 TAAATGAGAATCTTTGA
1 CAAATGAGAATCTTTGA
18962136 AGTGTGAAAC
Statistics
Matches: 59, Mismatches: 17, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
19 2 0.03
20 12 0.20
21 27 0.46
22 18 0.31
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.34
Consensus pattern (21 bp):
CAAATGAGAATCTTTGACTGT
Found at i:18962187 original size:20 final size:20
Alignment explanation
Indices: 18962159--18962313 Score: 106
Period size: 20 Copynumber: 7.8 Consensus size: 20
18962149 AAATTTATCG
*
18962159 AATGTGAATCTTTGAATTCA
1 AATGAGAATCTTTGAATTCA
18962179 AATGAGAATCTTTGAATTCA
1 AATGAGAATCTTTGAATTCA
**
18962199 AATGAGAATCTTCAAATTTCA
1 AATGAGAATCTTTGAA-TTCA
* *
18962220 AATGAAAATCTTT-AAGGTATGA
1 AATGAGAATCTTTGAA--T-TCA
* * *
18962242 AACTCA-AA-ATTT--A-TCG
1 AA-TGAGAATCTTTGAATTCA
* *
18962258 AATGTGAATCTTCGAATTCA
1 AATGAGAATCTTTGAATTCA
* *
18962278 AATAAGAATCTTTGATTTTCA
1 AATGAGAATCTTTGA-ATTCA
18962299 AATGAGAATCTTTGA
1 AATGAGAATCTTTGA
18962314 TATGTGAAAC
Statistics
Matches: 104, Mismatches: 21, Indels: 19
0.72 0.15 0.13
Matches are distributed among these distances:
15 1 0.01
16 5 0.05
17 2 0.02
19 1 0.01
20 50 0.48
21 37 0.36
22 6 0.06
23 2 0.02
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (20 bp):
AATGAGAATCTTTGAATTCA
Found at i:18962243 original size:99 final size:99
Alignment explanation
Indices: 18962060--18962310 Score: 319
Period size: 99 Copynumber: 2.5 Consensus size: 99
18962050 GAGTGTTGAG
* * * * ** *
18962060 TGTGAATCTTTAAACTCAAATGAGAATCTTTAAATCCTCAAACGAGAATCTTTGACTGTTAAATG
1 TGTGAATCTTTGAATTCAAATGAGAATCTTTGAAT--TCAAATGAGAATCTTCAAATGTTAAATG
* *
18962125 AGAATCTTTGAAGTGTGAAAC-CTAAAATTTATCGAA
64 AAAATCTTTGAAGTATGAAACTC-AAAATTTATCGAA
18962161 TGTGAATCTTTGAATTCAAATGAGAATCTTTGAATTCAAATGAGAATCTTCAAAT-TTCAAATGA
1 TGTGAATCTTTGAATTCAAATGAGAATCTTTGAATTCAAATGAGAATCTTCAAATGTT-AAATGA
18962225 AAATCTTT-AAGGTATGAAACTCAAAATTTATCGAA
65 AAATCTTTGAA-GTATGAAACTCAAAATTTATCGAA
* * *
18962260 TGTGAATCTTCGAATTCAAATAAGAATCTTTGATTTTCAAATGAGAATCTT
1 TGTGAATCTTTGAATTCAAATGAGAATCTTTGA-ATTCAAATGAGAATCTT
18962311 TGATATGTGA
Statistics
Matches: 134, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
98 4 0.03
99 81 0.60
100 17 0.13
101 32 0.24
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (99 bp):
TGTGAATCTTTGAATTCAAATGAGAATCTTTGAATTCAAATGAGAATCTTCAAATGTTAAATGAA
AATCTTTGAAGTATGAAACTCAAAATTTATCGAA
Found at i:18962300 original size:21 final size:21
Alignment explanation
Indices: 18962274--18962314 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
18962264 AATCTTCGAA
18962274 TTCAAATAAGAATCTTTGATT
1 TTCAAATAAGAATCTTTGATT
*
18962295 TTCAAATGAGAATCTTTGAT
1 TTCAAATAAGAATCTTTGAT
18962315 ATGTGAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (21 bp):
TTCAAATAAGAATCTTTGATT
Found at i:18962559 original size:114 final size:114
Alignment explanation
Indices: 18962382--18962715 Score: 519
Period size: 114 Copynumber: 2.9 Consensus size: 114
18962372 CTTTTGGATG
*
18962382 TGAATCTCCAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATGCAAATCTCTAAATTTTT
1 TGAATCTCTAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATGCAAATCTCTAAATTTTT
* *
18962447 GAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTAGATA
66 TAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTAAATA
* * *
18962496 TGAATCTCTAAAATTCAAACGAAAAGCTTTGAACTCAACTTATGGATG-AGAATCTCTACATTTT
1 TGAATCTCTAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATGCA-AATCTCTAAATTTT
* * * *
18962560 TTAGTGAGAACCTTTGAACATAGATGTAAAACTCCAAGATTTCTTAAATG
65 TTAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTAAATA
* *
18962610 TGAATCT-TCAAAATTCAAATAAAAAGCTTTGAACTCAATTTTTGGATGCAAATCTCTAAATTTT
1 TGAATCTCT-AAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATGCAAATCTCTAAATTTT
*
18962674 TTAGTGAGAATCTTTGAACTTAGATGTGAAACTCTAAGATTT
65 TTAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTT
18962716 TTTGAATGTA
Statistics
Matches: 198, Mismatches: 19, Indels: 6
0.89 0.09 0.03
Matches are distributed among these distances:
113 2 0.01
114 195 0.98
115 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (114 bp):
TGAATCTCTAAAATTCAAATGAAAAGCTTTGAACTCAACTTTTGGATGCAAATCTCTAAATTTTT
TAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTAAATA
Found at i:18963063 original size:44 final size:44
Alignment explanation
Indices: 18963005--18963191 Score: 207
Period size: 45 Copynumber: 4.2 Consensus size: 44
18962995 CAAGGAACAA
* * * **
18963005 TTTACTTTTCCAAAGTCGTTGAGCCTCTGATTAGAGGAGTTTTG
1 TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAACTTTG
** *
18963049 TTTATTTTTTC-AAAGTTGTTGACCCTCTGATTAGAGGAACTTTG
1 TTTA-TTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAACTTTG
* * *
18963093 TTTATTTTTCAAAAAGTCATTAAGCCTCTGATTAAAGGAGCTTTG
1 TTTATTTTTC-AAAAGTCATTGAGCCTCTGATTAGAGGAACTTTG
* *
18963138 TTTATTTTTCAAAAAGTCATTGAACCTCT-ATTTAGAGGAATTTTG
1 TTTATTTTTC-AAAAGTCATTGAGCCTCTGA-TTAGAGGAACTTTG
18963183 TTTATTTTT
1 TTTATTTTT
18963192 GAAAGTTGTG
Statistics
Matches: 123, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
43 6 0.05
44 38 0.31
45 79 0.64
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.45
Consensus pattern (44 bp):
TTTATTTTTCAAAAGTCATTGAGCCTCTGATTAGAGGAACTTTG
Found at i:18963119 original size:89 final size:89
Alignment explanation
Indices: 18963016--18963191 Score: 239
Period size: 90 Copynumber: 2.0 Consensus size: 89
18963006 TTACTTTTCC
* * * * ** *
18963016 AAAGTCGTTGAGCCTCTGATTAGAGGAGTTTTGTTTATTTTTTC-AAAGTTGTTGACCCTCTGA-
1 AAAGTCATTAAGCCTCTGATTAAAGGAGCTTTGTTTA-TTTTTCAAAAGTCATTGAACCTCT-AT
18963079 TTAGAGGAACTTTGTTTATTTTTCAA
64 TTAGAGGAACTTTGTTTATTTTTCAA
18963105 AAAGTCATTAAGCCTCTGATTAAAGGAGCTTTGTTTATTTTTCAAAAAGTCATTGAACCTCTATT
1 AAAGTCATTAAGCCTCTGATTAAAGGAGCTTTGTTTATTTTTC-AAAAGTCATTGAACCTCTATT
*
18963170 TAGAGGAATTTTGTTTATTTTT
65 TAGAGGAACTTTGTTTATTTTT
18963192 GAAAGTTGTG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
88 6 0.08
89 34 0.45
90 36 0.47
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.44
Consensus pattern (89 bp):
AAAGTCATTAAGCCTCTGATTAAAGGAGCTTTGTTTATTTTTCAAAAGTCATTGAACCTCTATTT
AGAGGAACTTTGTTTATTTTTCAA
Found at i:18965173 original size:33 final size:34
Alignment explanation
Indices: 18965102--18965175 Score: 91
Period size: 33 Copynumber: 2.2 Consensus size: 34
18965092 ATTTATTTTA
*
18965102 TTTTTTATTATTTATGTGTTTTTTTTTTTGGGTAT
1 TTTTTTATTATTTATGTGTTTTTTTTTTTGAG-AT
18965137 TTTTTTATT-TTT-TGTGTTTATTTTTTTT-AGAGT
1 TTTTTTATTATTTATGTGTTT-TTTTTTTTGAGA-T
18965170 TTTTTT
1 TTTTTT
18965176 GCATGAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
32 1 0.03
33 15 0.42
34 11 0.31
35 9 0.25
ACGTcount: A:0.11, C:0.00, G:0.12, T:0.77
Consensus pattern (34 bp):
TTTTTTATTATTTATGTGTTTTTTTTTTTGAGAT
Found at i:18965175 original size:35 final size:35
Alignment explanation
Indices: 18965102--18965175 Score: 100
Period size: 34 Copynumber: 2.1 Consensus size: 35
18965092 ATTTATTTTA
*
18965102 TTTTTTATTATTTATGTGTTTTTTTTTTTGGGTAT
1 TTTTTTATTATTTATGTGTTTTTTTTTTTGAGTAT
18965137 TTTTTTATT-TTT-TGTGTTTATTTTTTTTAGAGT-T
1 TTTTTTATTATTTATGTGTTT-TTTTTTTT-GAGTAT
18965171 TTTTT
1 TTTTT
18965176 GCATGAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
33 7 0.19
34 17 0.47
35 12 0.33
ACGTcount: A:0.11, C:0.00, G:0.12, T:0.77
Consensus pattern (35 bp):
TTTTTTATTATTTATGTGTTTTTTTTTTTGAGTAT
Found at i:18965205 original size:12 final size:13
Alignment explanation
Indices: 18965181--18965209 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
18965171 TTTTTGCATG
18965181 AATAAATTTAAAA
1 AATAAATTTAAAA
18965194 AATAAA-TTAAAA
1 AATAAATTTAAAA
18965206 AATA
1 AATA
18965210 TAAAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATTTAAAA
Found at i:18965285 original size:61 final size:60
Alignment explanation
Indices: 18965213--18965529 Score: 255
Period size: 60 Copynumber: 5.1 Consensus size: 60
18965203 AAAAATATAA
*
18965213 AAAATTTTCAAAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTTGAAAAT
1 AAAATTATCAAAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTT-AAAAT
* * * * * *
18965274 AAAATTCTC-AAAAAGAGTATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTAAAAT
1 AAAATTATCAAAAAAAAATATTTTTAAAG-AAAAGTTGAAAGTATCAATTTTTTTTAAAAT
* * *
18965334 AAAATTTATAAAATAAAAAATTTTCAAAAGCATTTTAAGGAAAAGTTGAAAGTATCAATTTTCTT
1 AAAA-TTATCAAA-AAAAAA---T----A--TTTTTAAAGAAAAGTTGAAAGTATCAATTTT-TT
* *
18965399 TGAAATT
54 TTAAAAT
* * * *
18965406 AAAATT-TCAGAAAAAAATATTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAAT
1 AAAATTATCAAAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTT-TTTAAAAT
* * * * * *
18965466 AAAAATTATC-AAGAAAAACATTTTT-AAGAAAATGTTGAAGGCATCAATTTTCTTTAAAAC
1 -AAAATTATCAAAAAAAAATATTTTTAAAGAAAA-GTTGAAAGTATCAATTTTTTTTAAAAT
18965526 AAAA
1 AAAA
18965530 AAACCTACAA
Statistics
Matches: 205, Mismatches: 33, Indels: 38
0.74 0.12 0.14
Matches are distributed among these distances:
59 5 0.02
60 72 0.35
61 68 0.33
62 5 0.02
63 4 0.02
66 2 0.01
69 6 0.03
70 4 0.02
71 23 0.11
72 16 0.08
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (60 bp):
AAAATTATCAAAAAAAAATATTTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTTAAAAT
Found at i:18965333 original size:60 final size:61
Alignment explanation
Indices: 18965213--18965529 Score: 252
Period size: 61 Copynumber: 5.1 Consensus size: 61
18965203 AAAAATATAA
* * * *
18965213 AAAATTTTCAAAAAAAAATATTTTTAAAG-AAAAGTTGAAAGTATCAATTTTTTTTGAAAAT
1 AAAATTATC-AAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAAT
* * *
18965274 AAAATTCTCAAAAAGAGTATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTT-AAAAT
1 AAAATTATCAAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAAT
* * *
18965334 AAAATTTATAAAATAAAAAATTTTCAAAAGCATTTTAAGGAAAAGTTGAAAGTATC-AATTTTCT
1 AAAA-TTAT-CAA-AAAAAATATT--------TTTTAAGAAAAAGTTGAAAGTATCAAATTTTC-
*
18965398 TTGAAATT
54 TTGAAAAT
* * * *
18965406 AAAATT-TCAGAAAAAAATA-TTTTTAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAAT
1 AAAATTATCA-AAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAAT
* * * * * * *
18965466 AAAAATTATCAAGAAAAACA-TTTTTAAGAAAATGTTGAAGGCATC-AATTTTCTTTAAAAC
1 -AAAATTATCAAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAAT
18965526 AAAA
1 AAAA
18965530 AAACCTACAA
Statistics
Matches: 209, Mismatches: 29, Indels: 38
0.76 0.11 0.14
Matches are distributed among these distances:
59 4 0.02
60 66 0.32
61 74 0.35
62 5 0.02
63 7 0.03
68 1 0.00
69 8 0.04
70 9 0.04
71 27 0.13
72 8 0.04
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (61 bp):
AAAATTATCAAAAAAAATATTTTTTAAGAAAAAGTTGAAAGTATCAAATTTTCTTGAAAAT
Found at i:18965489 original size:132 final size:132
Alignment explanation
Indices: 18965234--18965474 Score: 369
Period size: 132 Copynumber: 1.8 Consensus size: 132
18965224 AAAAAAATAT
* * *
18965234 TTTTAAAGAAAAGTTGAAAGTATCAATTTTTTTTGAAAATAAAATTCTCAAAAAGAGTATTTTTT
1 TTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTCTCAAAAAAAATATTTTTT
*
18965299 AAGAAAAAGTTGAAAGTATCAAATTTTCTTAAAATAAAATTTATAAAATAAAAAATTTTCAAAAG
66 AAGAAAAAGTTGAAAGTATCAAATTTTCTTAAAATAAAAATTATAAAATAAAAAATTTTCAAAAG
18965364 CA
131 CA
* *
18965366 TTTTAAGGAAAAGTTGAAAGTATCAATTTTCTTTGAAATTAAAATT-TCAGAAAAAAATA-TTTT
1 TTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTCTCA-AAAAAAATATTTTT
* * *
18965429 TAAGGAAAAGTTGAAAGTATTAATTTTTCTTAAAAATAAAAATTAT
65 TAAGAAAAAGTTGAAAGTATCAAATTTTCTT-AAAATAAAAATTAT
18965475 CAAGAAAAAC
Statistics
Matches: 98, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
131 35 0.36
132 63 0.64
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (132 bp):
TTTTAAAGAAAAGTTGAAAGTATCAATTTTCTTTGAAAATAAAATTCTCAAAAAAAATATTTTTT
AAGAAAAAGTTGAAAGTATCAAATTTTCTTAAAATAAAAATTATAAAATAAAAAATTTTCAAAAG
CA
Found at i:18966914 original size:16 final size:16
Alignment explanation
Indices: 18966879--18966911 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18966869 ATTTTAGCAT
18966879 AATATAAAATTAACTA
1 AATATAAAATTAACTA
*
18966895 AATATTAAATT-ACTA
1 AATATAAAATTAACTA
18966910 AA
1 AA
18966912 ATAGCATTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (16 bp):
AATATAAAATTAACTA
Found at i:18967220 original size:9 final size:9
Alignment explanation
Indices: 18967208--18967326 Score: 60
Period size: 9 Copynumber: 12.7 Consensus size: 9
18967198 AAAATTTTTA
18967208 AAAAAATTT
1 AAAAAATTT
*
18967217 AAAATA-TT
1 AAAAAATTT
18967225 AAAAAATTGT
1 AAAAAATT-T
*
18967235 AAAAATTTTT
1 AAAAA-ATTT
*
18967245 AAATAAAATCT
1 -AA-AAAATTT
*
18967256 AAAATATTT
1 AAAAAATTT
* *
18967265 TAAAAATTA
1 AAAAAATTT
*
18967274 AAAAAAGTT
1 AAAAAATTT
*
18967283 AAAGAAATAT
1 AAA-AAATTT
* *
18967293 GAAATATGTT
1 AAAAAAT-TT
*
18967303 TAAAAATTT
1 AAAAAATTT
* *
18967312 TAAAAATTC
1 AAAAAATTT
18967321 AAAAAA
1 AAAAAA
18967327 AAGAAAATTT
Statistics
Matches: 81, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
8 7 0.09
9 44 0.54
10 21 0.26
11 6 0.07
12 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (9 bp):
AAAAAATTT
Found at i:18967261 original size:39 final size:39
Alignment explanation
Indices: 18967198--18967272 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
18967188 ACTTTAAAAG
*
18967198 AAAATTTTTAAAAAAATTTAAAATA-TTAAAAAATTGTA
1 AAAATTTTTAAAAAAATCTAAAATATTTAAAAAATTGTA
*
18967236 AAAATTTTTAAATAAAATCTAAAATATTTTAAAAATT
1 AAAATTTTTAAA-AAAATCTAAAATATTTAAAAAATT
18967273 AAAAAAAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
38 12 0.36
39 12 0.36
40 9 0.27
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (39 bp):
AAAATTTTTAAAAAAATCTAAAATATTTAAAAAATTGTA
Found at i:18967278 original size:39 final size:38
Alignment explanation
Indices: 18967198--18967279 Score: 110
Period size: 40 Copynumber: 2.1 Consensus size: 38
18967188 ACTTTAAAAG
* *
18967198 AAAATTTTTAAAAAAATTTAAAATATTAAAAAATTGTA
1 AAAATTTTTAAAAAAATCTAAAATATTAAAAAATTGAA
* *
18967236 AAAATTTTTAAATAAAATCTAAAATATTTTAAAAATTAAA
1 AAAATTTTTAAA-AAAATCTAAAATA-TTAAAAAATTGAA
18967276 AAAA
1 AAAA
18967280 GTTAAAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 12 0.32
39 12 0.32
40 14 0.37
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.35
Consensus pattern (38 bp):
AAAATTTTTAAAAAAATCTAAAATATTAAAAAATTGAA
Found at i:18967335 original size:25 final size:25
Alignment explanation
Indices: 18967305--18967353 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
18967295 AATATGTTTA
18967305 AAAATTT-TAAAAATTCAAAAAAAAG
1 AAAATTTATAAAAATT-AAAAAAAAG
*
18967330 AAAATTTATTAAAATTAAAAAAAA
1 AAAATTTATAAAAATTAAAAAAAA
18967354 TTCACGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAAATTTATAAAAATTAAAAAAAAG
Found at i:18967478 original size:27 final size:27
Alignment explanation
Indices: 18967448--18967522 Score: 77
Period size: 25 Copynumber: 2.9 Consensus size: 27
18967438 TAAAAGTATG
*
18967448 AAAATTTTAAAAAAAATTAA-AAATTTTA
1 AAAATTTTAAAAAAAA-TAACAAA-CTTA
*
18967476 AAAATTTT-GAAAAAATAACAAACTT-
1 AAAATTTTAAAAAAAATAACAAACTTA
*
18967501 AAAATTTTAATAAAAA-AACAAA
1 AAAATTTTAAAAAAAATAACAAA
18967523 AAAATCTTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 14 0.34
26 10 0.24
27 9 0.22
28 8 0.20
ACGTcount: A:0.65, C:0.04, G:0.01, T:0.29
Consensus pattern (27 bp):
AAAATTTTAAAAAAAATAACAAACTTA
Found at i:18967516 original size:28 final size:28
Alignment explanation
Indices: 18967448--18967524 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 28
18967438 TAAAAGTATG
* *
18967448 AAAATTTTAA-AAAAAATTAAAAATTTT
1 AAAATTTTAATAAAAAAATAAAAATCTT
* *
18967475 AAAAATTT--TGAAAAAATAACAAA-CTT
1 AAAATTTTAATAAAAAAATAA-AAATCTT
*
18967501 AAAATTTTAATAAAAAAACAAAAA
1 AAAATTTTAATAAAAAAATAAAAA
18967525 AATCTTAAGA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
26 17 0.44
27 13 0.33
28 9 0.23
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (28 bp):
AAAATTTTAATAAAAAAATAAAAATCTT
Found at i:18967644 original size:20 final size:20
Alignment explanation
Indices: 18967616--18967678 Score: 110
Period size: 20 Copynumber: 3.2 Consensus size: 20
18967606 ATTTTCTACA
*
18967616 TTTTAAAAAAAATTTTATAT
1 TTTTTAAAAAAATTTTATAT
18967636 TTTTTAAAAAAATTTTATAT
1 TTTTTAAAAAAATTTTATAT
18967656 TTTTTAAAAAAATTTTAT-T
1 TTTTTAAAAAAATTTTATAT
18967675 TTTT
1 TTTT
18967679 AATTTTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 5 0.12
20 37 0.88
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTTTAAAAAAATTTTATAT
Found at i:18967683 original size:33 final size:32
Alignment explanation
Indices: 18967592--18967709 Score: 94
Period size: 32 Copynumber: 3.4 Consensus size: 32
18967582 AAAAATTTTT
* *
18967592 AAATTTT-TTTTTAAATTTTCTACATTTTAAAAA
1 AAATTTTATTTTTTAATTTTATA-ATTTT-AAAA
*
18967625 AAATTTTATATTTTTTAAAAAAATTTTATATTTTTTAAAA
1 AAA-TTT-TATTTTTT-----AATTTTATA-ATTTTAAAA
* *
18967665 AAATTTTATTTTTTAATTTTTTAATTTTAAGA
1 AAATTTTATTTTTTAATTTTATAATTTTAAAA
18967697 AAATTTTATTTTT
1 AAATTTTATTTTT
18967710 ATTAAAATTT
Statistics
Matches: 70, Mismatches: 7, Indels: 17
0.74 0.07 0.18
Matches are distributed among these distances:
32 20 0.29
33 11 0.16
34 3 0.04
35 1 0.01
36 5 0.07
38 8 0.11
39 3 0.04
40 7 0.10
41 12 0.17
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (32 bp):
AAATTTTATTTTTTAATTTTATAATTTTAAAA
Found at i:18967700 original size:52 final size:53
Alignment explanation
Indices: 18967637--18967791 Score: 146
Period size: 52 Copynumber: 3.0 Consensus size: 53
18967627 ATTTTATATT
18967637 TTTTAAAAAAATTTTATATTTTTTAAAAAAATTTTATTTTTTAATTTTTTAA-
1 TTTTAAAAAAATTTTATATTTTTTAAAAAAATTTTATTTTTTAATTTTTTAAG
*
18967689 TTTTAAGAAAATTTTAT-TTTTATT---AAAATTTTAGATTTTTTAATTTTTTAAG
1 TTTTAAAAAAATTTTATATTTT-TTAAAAAAATTTT--ATTTTTTAATTTTTTAAG
* * * * * *
18967741 TTTT--CATAATTTT-TATTTTTCAAAAATATTTCAGTTTTTTATAATTTTTAA
1 TTTTAAAAAAATTTTATATTTTTTAAAAAAATTTTA-TTTTTTA-ATTTTTTAA
18967792 ATTATTTCAT
Statistics
Matches: 86, Mismatches: 7, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
49 10 0.12
50 12 0.14
51 28 0.33
52 36 0.42
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (53 bp):
TTTTAAAAAAATTTTATATTTTTTAAAAAAATTTTATTTTTTAATTTTTTAAG
Found at i:18967731 original size:17 final size:16
Alignment explanation
Indices: 18967624--18967788 Score: 71
Period size: 17 Copynumber: 9.5 Consensus size: 16
18967614 CATTTTAAAA
18967624 AAAATTTTATATTTTTT
1 AAAATTTTA-ATTTTTT
18967641 AAAAAAATTTTATATTTTTT
1 ---AAAATTTTA-ATTTTTT
18967661 AAAAAAATTTT-ATTTTTT
1 ---AAAATTTTAATTTTTT
** **
18967679 AATTTTTTAATTTTAAG
1 AAAATTTTAATTTT-TT
*
18967696 AAAATTTTATTTTTATT
1 AAAATTTTAATTTT-TT
18967713 AAAATTTTAGATTTTTT
1 AAAATTTTA-ATTTTTT
** * *
18967730 AATTTTTTAAGTTTTC
1 AAAATTTTAATTTTTT
* * *
18967746 ATAATTTTTATTTTTCA
1 AAAATTTTAATTTTT-T
*
18967763 AAAATATTTCAGTTTTTT
1 AAAAT-TTT-AATTTTTT
*
18967781 ATAATTTT
1 AAAATTTT
18967789 TAAATTATTT
Statistics
Matches: 114, Mismatches: 25, Indels: 15
0.74 0.16 0.10
Matches are distributed among these distances:
15 6 0.05
16 20 0.18
17 37 0.32
18 18 0.16
19 5 0.04
20 28 0.25
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (16 bp):
AAAATTTTAATTTTTT
Found at i:18967754 original size:10 final size:8
Alignment explanation
Indices: 18967668--18967754 Score: 50
Period size: 8 Copynumber: 10.4 Consensus size: 8
18967658 TTTAAAAAAA
18967668 TTTT-ATT
1 TTTTAATT
18967675 TTTTAATT
1 TTTTAATT
18967683 TTTTAATT
1 TTTTAATT
** **
18967691 TTAAGAAAA
1 TT-TTAATT
*
18967700 TTTTATTT
1 TTTTAATT
**
18967708 TTATTAAAA
1 TT-TTAATT
18967717 TTTTAGATT
1 TTTTA-ATT
18967726 TTTTAATT
1 TTTTAATT
18967734 TTTTAAGTT
1 TTTTAA-TT
*
18967743 TTCATAATT
1 TT-TTAATT
18967752 TTT
1 TTT
18967755 ATTTTTCAAA
Statistics
Matches: 58, Mismatches: 16, Indels: 11
0.68 0.19 0.13
Matches are distributed among these distances:
7 4 0.07
8 28 0.48
9 23 0.40
10 3 0.05
ACGTcount: A:0.30, C:0.01, G:0.03, T:0.66
Consensus pattern (8 bp):
TTTTAATT
Found at i:18967755 original size:51 final size:48
Alignment explanation
Indices: 18967663--18967808 Score: 136
Period size: 51 Copynumber: 2.9 Consensus size: 48
18967653 TATTTTTTAA
* * *
18967663 AAAAATTTT--ATTTTTTAATTTTTTAATTTTAAGAAAATTTTATTTTT
1 AAAAATTTTAGATTTTTTAATTTTTTAATTTTCA-TAATTTTTATTTTT
18967710 ATTAAAATTTTAGATTTTTTAATTTTTTAAGTTTTCATAATTTTTATTTTT
1 A--AAAATTTTAGATTTTTTAATTTTTTAA-TTTTCATAATTTTTATTTTT
* *
18967761 CAAAAATATTTCAGTTTTTTATAATTTTTAAATTATTTCAT-ATTTTTA
1 -AAAAAT-TTT-AGATTTTT-TAATTTTTTAA-T-TTTCATAATTTTTA
18967809 AAAATTTTAA
Statistics
Matches: 83, Mismatches: 6, Indels: 14
0.81 0.06 0.14
Matches are distributed among these distances:
47 1 0.01
49 8 0.10
50 5 0.06
51 32 0.39
52 13 0.16
53 18 0.22
54 6 0.07
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (48 bp):
AAAAATTTTAGATTTTTTAATTTTTTAATTTTCATAATTTTTATTTTT
Found at i:18967797 original size:27 final size:27
Alignment explanation
Indices: 18967767--18967820 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
18967757 TTTTCAAAAA
* *
18967767 TATTTCAGT-TTTTTATAATTTTTAAAT
1 TATTTCA-TATTTTTAAAAATTTTAAAT
18967794 TATTTCATATTTTTAAAAATTTTAAAT
1 TATTTCATATTTTTAAAAATTTTAAAT
18967821 AAATTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (27 bp):
TATTTCATATTTTTAAAAATTTTAAAT
Found at i:18967837 original size:9 final size:10
Alignment explanation
Indices: 18967820--18967849 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
18967810 AAATTTTAAA
18967820 TAAATTTTTT
1 TAAATTTTTT
*
18967830 TGAATTTTTT
1 TAAATTTTTT
18967840 TAAATTTTTT
1 TAAATTTTTT
18967850 AAAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (10 bp):
TAAATTTTTT
Found at i:18968233 original size:129 final size:129
Alignment explanation
Indices: 18968070--18968354 Score: 410
Period size: 129 Copynumber: 2.2 Consensus size: 129
18968060 TTTATATTTA
* * *
18968070 ATTTTATTTAAAAATTACTATAATACTATTATTAAATTACAAATTAAATGTTAATATAATATAAA
1 ATTTTATTCAAAATTTACTATAATACCATTATTAAATTACAAATTAAATGTTAATATAATATAAA
* *
18968135 ATTAATTACATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
66 ATTAACTAAATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
* * * * *
18968199 ATTTTGTTCAAAATTTATTATAATACCCTTATTAAATTACATATTAAATGTTAATATAATGTAAA
1 ATTTTATTCAAAATTTACTATAATACCATTATTAAATTACAAATTAAATGTTAATATAATATAAA
* * * * * *
18968264 ATTAACTAAATATTAAATTATTAAAATATTCTTTTCATTGTTTCGTAGAAATTTCACATGTGGC
66 ATTAACTAAATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
18968328 ATTTTATTTC-AAATTTACTATAATACC
1 ATTTTA-TTCAAAATTTACTATAATACC
18968355 TATCAAATTA
Statistics
Matches: 137, Mismatches: 18, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
129 134 0.98
130 3 0.02
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (129 bp):
ATTTTATTCAAAATTTACTATAATACCATTATTAAATTACAAATTAAATGTTAATATAATATAAA
ATTAACTAAATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
Found at i:18968418 original size:129 final size:127
Alignment explanation
Indices: 18968070--18968415 Score: 371
Period size: 129 Copynumber: 2.7 Consensus size: 127
18968060 TTTATATTTA
* * * ** * * *
18968070 ATTTTATTTAAAAATTACTATAATACTATTATTAAATTACAAATTAAATGTTAATATAATATAAA
1 ATTTTGTTCAAAATTTACTATAATACCCTTATCAAATTACATATTAAA-GTTAATATAA-GTAAA
* *
18968135 ATTAATTACATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
64 ATTAACTAAATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
* *
18968199 ATTTTGTTCAAAATTTATTATAATACCCTTATTAAATTACATATTAAATGTTAATATAATGTAAA
1 ATTTTGTTCAAAATTTACTATAATACCCTTATCAAATTACATATTAAA-GTTAATATAA-GTAAA
* * * * * *
18968264 ATTAACTAAATATTAAATTATTAAAATATTCTTTTCATTGTTTCGTAGAAATTTCACATGTGGC
64 ATTAACTAAATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
* * *
18968328 ATTTTATTTC-AAATTTACTATAATA-CC-TATCAAATTATATATTAAA-TTAACTA-CA-TAAA
1 ATTTT-GTTCAAAATTTACTATAATACCCTTATCAAATTACATATTAAAGTTAA-TATAAGTAAA
** *
18968387 ACTTAACTATGTATTAAATTATTATAATA
64 A-TTAACTAAATATTAAATTATTAAAATA
18968416 AAACAAAAAT
Statistics
Matches: 190, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
123 5 0.03
124 24 0.13
125 5 0.03
126 2 0.01
127 17 0.09
128 2 0.01
129 132 0.69
130 3 0.02
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.43
Consensus pattern (127 bp):
ATTTTGTTCAAAATTTACTATAATACCCTTATCAAATTACATATTAAAGTTAATATAAGTAAAAT
TAACTAAATATTAAATTATTAAAATACTCTTATCATTGCTTCATAAAAATTTAACATGTGGC
Found at i:18968666 original size:18 final size:19
Alignment explanation
Indices: 18968640--18968681 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
18968630 AAATAATATA
*
18968640 TATTAATTTTAATATTT-T
1 TATTTATTTTAATATTTAT
*
18968658 TATTTATTTTATTATTTAT
1 TATTTATTTTAATATTTAT
18968677 TATTT
1 TATTT
18968682 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TATTTATTTTAATATTTAT
Found at i:18968679 original size:15 final size:15
Alignment explanation
Indices: 18968652--18968684 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
18968642 TTAATTTTAA
18968652 TATTTTTATTTATTT
1 TATTTTTATTTATTT
18968667 TATTATTTA-TTATTT
1 TATT-TTTATTTATTT
18968682 TAT
1 TAT
18968685 ATTAAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TATTTTTATTTATTT
Found at i:18970172 original size:20 final size:20
Alignment explanation
Indices: 18970135--18970180 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
18970125 ATCTTAAACC
*
18970135 TCAAATTAACCCTAAAATCA
1 TCAAAGTAACCCTAAAATCA
18970155 TCAAAGTAACCCCT-AAATCA
1 TCAAAGTAA-CCCTAAAATCA
18970175 -CAAAGT
1 TCAAAGT
18970181 TTTTGAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
19 6 0.25
20 14 0.58
21 4 0.17
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (20 bp):
TCAAAGTAACCCTAAAATCA
Found at i:18970373 original size:34 final size:34
Alignment explanation
Indices: 18970308--18970389 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
18970298 AAAAATGGAT
**
18970308 TTTTCAAGAGCTTTTAAAAGGTTCTTTGGAATCCA
1 TTTTCAAGAGC-TTTAAAAGGTTCTCAGGAATCCA
**
18970343 TTTTCAAGAGCTTT-AAAGGCTTCTCAGGAATGGA
1 TTTTCAAGAGCTTTAAAAGG-TTCTCAGGAATCCA
*
18970377 TTTTCAAAAGCTT
1 TTTTCAAGAGCTT
18970390 GAAATCCTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
33 5 0.12
34 25 0.61
35 11 0.27
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (34 bp):
TTTTCAAGAGCTTTAAAAGGTTCTCAGGAATCCA
Found at i:18971982 original size:14 final size:13
Alignment explanation
Indices: 18971958--18971991 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
18971948 ATCTTTATAA
*
18971958 TTTAATTTAATTT
1 TTTATTTTAATTT
18971971 TTTCATTTTAATTT
1 TTT-ATTTTAATTT
18971985 TTTATTT
1 TTTATTT
18971992 AAAAATTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTATTTTAATTT
Found at i:18972123 original size:18 final size:18
Alignment explanation
Indices: 18972102--18972136 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18972092 TTTGTCAAAA
18972102 AATAATTTAATAATTTTT
1 AATAATTTAATAATTTTT
*
18972120 AATAATTTATTAATTTT
1 AATAATTTAATAATTTT
18972137 ATAAATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATAATTTAATAATTTTT
Found at i:18972167 original size:26 final size:26
Alignment explanation
Indices: 18972103--18972171 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
18972093 TTGTCAAAAA
* * *
18972103 ATAATTTAAT-AATTTTTAATAATTT
1 ATAATTTGATAAATGTTAAATAATTT
*
18972128 ATTAATTTTATAAATGTTAAATAATTT
1 A-TAATTTGATAAATGTTAAATAATTT
18972155 A-AATTTGATTAAATGTT
1 ATAATTTGA-TAAATGTT
18972172 CAAAAATACC
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
25 7 0.19
26 16 0.43
27 14 0.38
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (26 bp):
ATAATTTGATAAATGTTAAATAATTT
Done.