Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 157 of 161
Found at i:48902473 original size:22 final size:23
Alignment explanation
Indices: 48902448--48902493 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
48902438 AAGGAGGGGG
48902448 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* *
48902470 ATCGATTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
48902493 A
1 A
48902494 GAGATTGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.30, C:0.04, G:0.33, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:48902499 original size:23 final size:22
Alignment explanation
Indices: 48902455--48902504 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
48902445 GGGATCGATG
**
48902455 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
48902477 GTATTTTGGGGAGAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
48902500 GTATT
1 GTATT
48902505 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.32, T:0.36
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:48903218 original size:38 final size:39
Alignment explanation
Indices: 48903112--48903247 Score: 238
Period size: 39 Copynumber: 3.5 Consensus size: 39
48903102 ATAAAGTATG
*
48903112 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
48903151 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
*
48903190 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAATA
48903229 GTTTTAATTAATAATAAAA
1 GTTTTAATTAATAATAAAA
48903248 TAAAGTAGCA
Statistics
Matches: 93, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
38 15 0.16
39 75 0.81
40 3 0.03
ACGTcount: A:0.49, C:0.02, G:0.16, T:0.32
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATA
Found at i:48907763 original size:15 final size:15
Alignment explanation
Indices: 48907743--48907773 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
48907733 TTTACTTTCC
48907743 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
48907758 AGAGAGGTAGAAAAG
1 AGAGAGGTAGAAAAG
48907773 A
1 A
48907774 AAATCTGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (15 bp):
AGAGAGGTAGAAAAG
Found at i:48914696 original size:205 final size:203
Alignment explanation
Indices: 48914309--48915075 Score: 1196
Period size: 205 Copynumber: 3.7 Consensus size: 203
48914299 TAGGCCGCAG
* * * *
48914309 CATAACAGATCTGGCCTTCAGATGTTATACTAAAACAGATCCAAGATGGTTTGGCATCCTTGTGT
1 CATAGCAGATCTCGCCTTCAGATGTT-TACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGT
* *
48914374 TTACAAGGAGCAAATCAAAGACATAGCTGATTTGGCTTTTACGTGATTACGATGAAGCAAATCTA
65 TTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTA
*
48914439 AGATGATTTGCCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGA
130 AGATGATTTGTCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGA
*
48914504 GAGCAGACG
195 GAGCAGACA
48914513 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
*
48914578 TTTACAAGGAGCAAAGCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
*
48914643 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAATGAATTGAAGTTTGGCATCTTCACTTTGATGG
129 AAGATGATTTGTCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGG
48914708 AGAGCAGACA
194 AGAGCAGACA
48914718 CATAGCAGATCTCGCCTTCAGATGATTTCACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
1 CATAGCAGATCTCGCCTTCAGATG-TTT-ACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* *
48914783 TTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTTTCATGTGATTACGA-GAAAGCAAATC
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATG-AAGCAAATC
* * *
48914847 TAAGATGATTTGTCGTCTCTGTATCGTCAGTGAACGAATCGAAGTTTGGCATCTTCACTTTGATG
128 TAAGATGATTTGTCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATG
48914912 GAGAGCAGACA
193 GAGAGCAGACA
* * * * *
48914923 CATAGCAGATCTCACATTCGGATGTTTATGCTGAAGCGGATCCAAGATGGTTTGGCATCCTTATG
1 CATAGCAGATCTCGCCTTCAGATGTTTA--CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTG
* * * * * *
48914988 CTTACAAGGAGCAAATCGAA-TCATAGTTGATTTGGCTTTCACGTGCTTACGTTAAAGCAAATCT
64 TTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCT
* *
48915052 AAGATGATTTGGCATCTCTGTATT
129 AAGATGATTTGTCGTCTCTGTATT
48915076 TCCAGGGAAC
Statistics
Matches: 524, Mismatches: 33, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
203 1 0.00
204 85 0.16
205 438 0.84
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (203 bp):
CATAGCAGATCTCGCCTTCAGATGTTTACTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGTT
TACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTTTCACGTGATTACGATGAAGCAAATCTAA
GATGATTTGTCGTCTCTGTATTGTCAGAGAATGAATCGAAGTTTGGCATCTTCACTTTGATGGAG
AGCAGACA
Found at i:48915344 original size:44 final size:44
Alignment explanation
Indices: 48915192--48915761 Score: 441
Period size: 44 Copynumber: 13.0 Consensus size: 44
48915182 GATTTCAGCA
* *
48915192 TGGCATCCATGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATT
* * * * * **
48915236 TGACATTCCTGTACTTAGAGTGAAGCAGATCGAAGATTTC-GCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG-ATT
* * * * *
48915279 TAGCATCCCCGTGCTTATAGGGAACA-AGTTGAAAACAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATT
*
48915323 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATT
* * * ** **
48915367 TGACATTCCTGTGCTTACAGTAAAGCAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG-ATT
* * * *
48915411 TGGCATCCCTGTGCTTATAGGGAACA-AGTTGAAAAACAGTAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCG-AAGATAGCAGATT
*
48915456 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATT
* * * * * **
48915500 TGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG-ATT
*
48915544 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATT
* * * * * **
48915588 TGACATTCCTGTGCCTACAGTGAAGCAGATCGAAGATTTCAGCA--
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG-ATT
* * * *
48915632 TGGCATCCCTATGTTTATAGGGAACA-AGTTGAGGATAGCAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATT
* * * * *
48915676 TGGCATCCCTGTGTTTATAGGGAACA-AGTTGAAAACAACAGATT
1 TGGCATCCCTGTGCTTATAGGGAACAGA-TCGAAGATAGCAGATT
*
48915720 TGGCATCCCTGTGTTTATAGGGAACAGATC-AA-ATAAGCAGAT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT-AGCAGAT
48915762 CGAAGAACTC
Statistics
Matches: 412, Mismatches: 89, Indels: 51
0.75 0.16 0.09
Matches are distributed among these distances:
41 1 0.00
42 14 0.03
43 57 0.14
44 247 0.60
45 89 0.22
46 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATT
Found at i:48915508 original size:133 final size:132
Alignment explanation
Indices: 48915192--48915762 Score: 719
Period size: 133 Copynumber: 4.3 Consensus size: 132
48915182 GATTTCAGCA
* * * *
48915192 TGGCATCCATGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTACTTAGAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGT
* *
48915257 GAAGCAGATCGAAGATTTC-GCATAGCATCCCCGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
48915321 TT
131 TT
*
48915323 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGT
* *
48915388 AAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAAACAGTAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTG-AAAACAGCAG
48915453 ATT
130 ATT
48915456 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGT
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGT
* * *
48915521 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAAC-AGATCGAAGATAGCAG
66 GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAG-TTGAAAACAGCAG
*
48915585 ATC
130 ATT
* * * * * ** * * * *
48915588 TGACATTCCTGTGCCTACAGTGAAGCAGATCGAAGATTTCAG--CATGGCATCCCTATGTTTATA
1 TGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAGATC-TGACATTCCTATGCTTACA
* * * ** *
48915651 GGGAA-CA-AGTTGAGGATAGCAG-ATTTGGCATCCCTGTGTTTATAGGGAACAAGTTGAAAACA
64 GTGAAGCAGA-TCGAAGATTTCAGCA--TGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACA
*
48915713 ACAGATT
126 GCAGATT
*
48915720 TGGCATCCCTGTGTTTATAGGGAACAGATC-AA-ATAAGCAGATC
1 TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGAT-AGCAGATC
48915763 GAAGAACTCA
Statistics
Matches: 384, Mismatches: 44, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
129 2 0.01
130 7 0.02
131 98 0.26
132 135 0.35
133 142 0.37
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (132 bp):
TGGCATCCCTGTGCTTATAGGGAACAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGT
GAAGCAGATCGAAGATTTCAGCATGGCATCCCTGTGCTTATAGGGAACAAGTTGAAAACAGCAGA
TT
Found at i:48915548 original size:88 final size:88
Alignment explanation
Indices: 48915129--48915688 Score: 516
Period size: 88 Copynumber: 6.4 Consensus size: 88
48915119 AGACGGGGGG
* * * * * *
48915129 CAGATCAAAGATAGCAGATATCG-CCTTCCTGAG-TTACAGTGAAGTAGATCAAAGATTTCAGCA
1 CAGATCGAAGATAGCAGATCT-GACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
*
48915192 TGGCATCCATGTGCTTATAGGGAA
65 TGGCATCCCTGTGCTTATAGGGAA
* *
48915216 CAGATCGAAGATAGCAGATCTGACATTCCTGTACTTAGAGTGAAGCAGATCGAAGATTTC-GCAT
1 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
* *
48915280 AGCATCCCCGTGCTTATAGGGAA
66 GGCATCCCTGTGCTTATAGGGAA
* * * * * * * * **
48915303 CA-AGTTGAAAACAGCAGATTTGGCATCCCTGTGCTTATAGGGAA-CAGATCGAAGATAGCAG-A
1 CAGA-TCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCA
* * * **
48915365 TCTGACATTCCTGTGCTTACAGTAAA
65 --TGGCATCCCTGTGCTTATAGGGAA
** * * * * * **
48915391 GCAGATCGAAGATTTCAG--CATGGCATCCCTGTGCTTATAGGGAA-CA-AGTTGAA-A-AACAG
1 -CAGATCGAAGATAGCAGATC-TGACATTCCTGTGCTTACAGTGAAGCAGA-TCGAAGATTTCAG
*
48915450 TAGATTTGGCATCCCTGTGCTTATAGGGAA
63 --CA--TGGCATCCCTGTGCTTATAGGGAA
*
48915480 CAGATCGAAGATAGCAGATCTGACATTCCTATGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
48915545 GGCATCCCTGTGCTTATAGGGAA
66 GGCATCCCTGTGCTTATAGGGAA
*
48915568 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCCTACAGTGAAGCAGATCGAAGATTTCAGCAT
1 CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
* *
48915633 GGCATCCCTATGTTTATAGGGAA
66 GGCATCCCTGTGCTTATAGGGAA
* * * * *
48915656 CA-AGTTGAGGATAGCAGATTTGGCATCCCTGTG
1 CAGA-TCGAAGATAGCAGATCTGACATTCCTGTG
48915689 TTTATAGGGA
Statistics
Matches: 390, Mismatches: 63, Indels: 39
0.79 0.13 0.08
Matches are distributed among these distances:
86 20 0.05
87 87 0.22
88 219 0.56
89 50 0.13
90 9 0.02
91 2 0.01
92 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (88 bp):
CAGATCGAAGATAGCAGATCTGACATTCCTGTGCTTACAGTGAAGCAGATCGAAGATTTCAGCAT
GGCATCCCTGTGCTTATAGGGAA
Found at i:48916254 original size:22 final size:23
Alignment explanation
Indices: 48916222--48916278 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
48916212 AAGTGGGGGG
*
48916222 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATTGTATTTTGAGGATAGA
*
48916244 ATCGATTGTATTTTGGGGATAGA
1 ATCGATTGTATTTTGAGGATAGA
**
48916267 AGAGATTGTATT
1 ATCGATTGTATT
48916279 AGAGGGGGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 17 0.57
23 13 0.43
ACGTcount: A:0.30, C:0.04, G:0.30, T:0.37
Consensus pattern (23 bp):
ATCGATTGTATTTTGAGGATAGA
Found at i:48916273 original size:23 final size:22
Alignment explanation
Indices: 48916229--48916278 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
48916219 GGGATCGATG
**
48916229 GTATTTTGAGGAAGAATCGATT
1 GTATTTTGAGGAAGAAGAGATT
*
48916251 GTATTTTGGGGATAGAAGAGATT
1 GTATTTTGAGGA-AGAAGAGATT
48916274 GTATT
1 GTATT
48916279 AGAGGGGGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.30, C:0.02, G:0.30, T:0.38
Consensus pattern (22 bp):
GTATTTTGAGGAAGAAGAGATT
Found at i:48916876 original size:38 final size:40
Alignment explanation
Indices: 48916753--48916907 Score: 244
Period size: 40 Copynumber: 3.9 Consensus size: 40
48916743 ATAAAGTATG
*
48916753 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
48916793 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
*
48916833 GTTTTAATTAATAAT-AAAACAAAATAGTAT-GGGGAGTA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
* *
48916871 GTTTTAATTAATAAT-AAAACAAAGTAGCATTGGGGGA
1 GTTTTAATTAATAATAAAAACAAAATAGTA-TGGGGGA
48916908 GTGGAATCAA
Statistics
Matches: 109, Mismatches: 4, Indels: 4
0.93 0.03 0.03
Matches are distributed among these distances:
38 34 0.31
39 16 0.15
40 59 0.54
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (40 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
Found at i:48916905 original size:78 final size:80
Alignment explanation
Indices: 48916753--48916907 Score: 244
Period size: 78 Copynumber: 2.0 Consensus size: 80
48916743 ATAAAGTATG
*
48916753 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATGGTTTTAATTAATAATAAAAACAAAA
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAAACAAAA
*
48916818 TAGTATGGGGGAATA
66 TAGCATGGGGGAATA
* *
48916833 GTTTTAATTAATAAT-AAAACAAAATAGTAT-GGGGAGTAGTTTTAATTAATAAT-AAAACAAAG
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAAACAAAA
48916895 TAGCATTGGGGGA
66 TAGCA-TGGGGGA
48916908 GTGGAATCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
77 12 0.17
78 28 0.40
79 15 0.21
80 15 0.21
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.30
Consensus pattern (80 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATAGTTTTAATTAATAATAAAAACAAAA
TAGCATGGGGGAATA
Found at i:48924273 original size:28 final size:29
Alignment explanation
Indices: 48924214--48924271 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 29
48924204 TAATATGATC
*
48924214 AATTAAAATACAATAATCTTAAAAAATATA
1 AATTAAAATA-AATAATCTCAAAAAATATA
48924244 AATTAAAAT-AATAATCTCATAAATAATA
1 AATTAAAATAAATAATCTCA-AAA-AATA
48924272 AAAAATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 9 0.36
29 3 0.12
30 13 0.52
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (29 bp):
AATTAAAATAAATAATCTCAAAAAATATA
Found at i:48931839 original size:25 final size:28
Alignment explanation
Indices: 48931807--48931861 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 28
48931797 AAGTTCATAT
48931807 ATTAATAT-TTTT-AT-ATTTATTTATA
1 ATTAATATGTTTTAATAATTTATTTATA
48931832 ATTAATATGTTTTAATAAATTTATTTATA
1 ATTAATATGTTTTAAT-AATTTATTTATA
48931861 A
1 A
48931862 GTCCATTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
25 8 0.31
26 4 0.15
27 2 0.08
29 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (28 bp):
ATTAATATGTTTTAATAATTTATTTATA
Found at i:48936961 original size:16 final size:16
Alignment explanation
Indices: 48936939--48936976 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
48936929 TCGGCAAATC
*
48936939 CCGAAATGTCGAAAAG
1 CCGAAATGCCGAAAAG
*
48936955 TCGAAATGCCGAAAAG
1 CCGAAATGCCGAAAAG
48936971 CCGAAA
1 CCGAAA
48936977 GTCTGGCTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.11
Consensus pattern (16 bp):
CCGAAATGCCGAAAAG
Found at i:48937235 original size:29 final size:29
Alignment explanation
Indices: 48937203--48937277 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
48937193 AATTGATTCA
* *
48937203 GGCCGGATGGGCCATATGAATGTGATTTG
1 GGCCGAATGGGCCATATGAATGAGATTTG
*
48937232 GGCCTAATGGGCCATATGAATGAGA-TTG
1 GGCCGAATGGGCCATATGAATGAGATTTG
* * *
48937260 AGCCTAGTGGGCCATATG
1 GGCCGAATGGGCCATATG
48937278 CATGTAAGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 19 0.46
29 22 0.54
ACGTcount: A:0.24, C:0.16, G:0.35, T:0.25
Consensus pattern (29 bp):
GGCCGAATGGGCCATATGAATGAGATTTG
Found at i:48937273 original size:28 final size:29
Alignment explanation
Indices: 48937209--48937277 Score: 104
Period size: 28 Copynumber: 2.4 Consensus size: 29
48937199 TTCAGGCCGG
* *
48937209 ATGGGCCATATGAATGTGATTTGGGCCTA
1 ATGGGCCATATGAATGAGATTTGAGCCTA
48937238 ATGGGCCATATGAATGAGA-TTGAGCCTA
1 ATGGGCCATATGAATGAGATTTGAGCCTA
*
48937266 GTGGGCCATATG
1 ATGGGCCATATG
48937278 CATGTAAGTA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.26, C:0.14, G:0.32, T:0.28
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGATTTGAGCCTA
Found at i:48942653 original size:16 final size:16
Alignment explanation
Indices: 48942632--48942662 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
48942622 CTTCAACATG
48942632 GGATATATTGCCGATA
1 GGATATATTGCCGATA
48942648 GGATATATTGCCGAT
1 GGATATATTGCCGAT
48942663 GCCATGTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (16 bp):
GGATATATTGCCGATA
Found at i:48942823 original size:47 final size:44
Alignment explanation
Indices: 48942712--48942925 Score: 171
Period size: 47 Copynumber: 4.7 Consensus size: 44
48942702 CGCGTACTGG
* * * *
48942712 TGCATGTCCCAGACATGTCTTACACTAGCATAACT-TTTAGCCGA
1 TGCATGTCCCAAACATGTCTTACACTGGC-TATCTCTGTAGCCGA
* * *
48942756 TGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGA
1 TGCATGTCCCAAACATGTCTTACACTGGCTATCTCTGT--A-GCCGA
*
48942803 TGCATGTCCCAAACATGTCTTACTCTGGCACTCATCTCTGT-GCCGA
1 TGCATGTCCCAAACATGTCTTACACTGG--CT-ATCTCTGTAGCCGA
* * * *
48942849 TGCCATGTCCCAAACATGGTCTTACGCTGGCTCTCATAATGTGGCCGA
1 TG-CATGTCCCAAACAT-GTCTTACACTGGCTATC-T-CTGTAGCCGA
* ** *
48942897 AGCATGTCTTAGACATGTCTTACACTGGC
1 TGCATGTCCCAAACATGTCTTACACTGGC
48942926 GTACAAATCA
Statistics
Matches: 141, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 28 0.20
45 2 0.01
46 23 0.16
47 57 0.40
48 17 0.12
49 2 0.01
50 8 0.06
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCATGTCCCAAACATGTCTTACACTGGCTATCTCTGTAGCCGA
Found at i:48943305 original size:30 final size:30
Alignment explanation
Indices: 48943265--48943321 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
48943255 AATTTACATC
* *
48943265 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
48943295 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
48943322 TGCCTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:48943963 original size:22 final size:22
Alignment explanation
Indices: 48943938--48943979 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
48943928 CCTCTGCATC
48943938 GACGGGACTCCGCACTGCCACG
1 GACGGGACTCCGCACTGCCACG
*
48943960 GACGGGACTCCTCACTGCCA
1 GACGGGACTCCGCACTGCCA
48943980 TTGCTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (22 bp):
GACGGGACTCCGCACTGCCACG
Found at i:48944082 original size:11 final size:10
Alignment explanation
Indices: 48944066--48944104 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
48944056 AAGGGGGAAG
48944066 GAGAAGAGAAA
1 GAGAAGAG-AA
48944077 GAGAAGAGAA
1 GAGAAGAGAA
48944087 GAGAAGAAGAA
1 GAGAAG-AGAA
48944098 GAAGAAG
1 G-AGAAG
48944105 GAGGAGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.31
11 13 0.50
12 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAGAAGAGAA
Found at i:48944087 original size:16 final size:16
Alignment explanation
Indices: 48944066--48944104 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
48944056 AAGGGGGAAG
48944066 GAGAAGAGAA-AGAGAA
1 GAGAAGAGAAGA-AGAA
48944082 GAGAAGAGAAGAAGAA
1 GAGAAGAGAAGAAGAA
48944098 GAAGAAG
1 G-AGAAG
48944105 GAGGAGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAGAGAAGAAGAA
Found at i:48944097 original size:6 final size:5
Alignment explanation
Indices: 48944066--48944104 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
48944056 AAGGGGGAAG
48944066 GAGAA GAGAAA GAGAA GAGAA GAGAA GAAGAA GAAGAA G
1 GAGAA GAG-AA GAGAA GAGAA GAGAA G-AGAA G-AGAA G
48944105 GAGGAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 16 0.50
6 16 0.50
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:48944151 original size:6 final size:6
Alignment explanation
Indices: 48944140--48944210 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
48944130 TGAGGGAAGA
* * *
48944140 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AGAAGGAG AAGAAG AATAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AA-AAG AAAAAG AAAAAG
* * *
48944190 AGAAAG AGAAGG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
48944211 GGTAATATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
5 4 0.07
6 44 0.81
7 3 0.06
8 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:48944200 original size:20 final size:20
Alignment explanation
Indices: 48944143--48944200 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
48944133 GGGAAGAAAA
*
48944143 AAGAAAAAGA-AAA-AGAAA
1 AAGAAAAAGAGAAAGAGAAG
*
48944161 AAGAAAAAGAGAAGGAGAAG
1 AAGAAAAAGAGAAAGAGAAG
*
48944181 AAGAATAAGAGAAAGAGAAG
1 AAGAAAAAGAGAAAGAGAAG
48944201 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.29
19 2 0.06
20 22 0.65
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.02
Consensus pattern (20 bp):
AAGAAAAAGAGAAAGAGAAG
Found at i:48944200 original size:26 final size:26
Alignment explanation
Indices: 48944136--48944208 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
48944126 TTGGTGAGGG
**
48944136 AAGAAAAA-AGAAAAAGAAAAAGAAA
1 AAGAAAAAGAGAAGGAGAAAAAGAAA
* *
48944161 AAGAAAAAGAGAAGGAGAAGAAGAAT
1 AAGAAAAAGAGAAGGAGAAAAAGAAA
* *
48944187 AAGAGAAAGAGAAGGAAAAAAA
1 AAGAAAAAGAGAAGGAGAAAAA
48944209 AAGGTAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 8 0.20
26 32 0.80
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (26 bp):
AAGAAAAAGAGAAGGAGAAAAAGAAA
Found at i:48944973 original size:16 final size:16
Alignment explanation
Indices: 48944952--48945003 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 16
48944942 AAAATAATAT
48944952 AAATAATAAAATATGA
1 AAATAATAAAATATGA
* *
48944968 AAATAAT-AAATTTTA
1 AAATAATAAAATATGA
**
48944983 AAA-AATAAAATCCGA
1 AAATAATAAAATATGA
48944998 AAATAA
1 AAATAA
48945004 AAATAAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 3 0.10
15 17 0.59
16 9 0.31
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (16 bp):
AAATAATAAAATATGA
Found at i:48944990 original size:30 final size:29
Alignment explanation
Indices: 48944951--48945007 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 29
48944941 TAAAATAATA
* *
48944951 TAAATAATAAAATATGAAAATAATAAATTT
1 TAAAAAATAAAATACGAAAATAA-AAATTT
*
48944981 TAAAAAATAAAATCCGAAAATAAAAAT
1 TAAAAAATAAAATACGAAAATAAAAAT
48945008 AAAAAAGGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 4 0.17
30 20 0.83
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.26
Consensus pattern (29 bp):
TAAAAAATAAAATACGAAAATAAAAATTT
Found at i:48945091 original size:142 final size:142
Alignment explanation
Indices: 48944613--48945295 Score: 973
Period size: 141 Copynumber: 4.9 Consensus size: 142
48944603 AAATTAGAAA
* *
48944613 TTTTTACTAAATTAATATAAAAAAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATA
1 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACA--TGAAACATTATGTACTAAAATAATA
* * * *
48944678 TAAAAAATAAAATACGAAAATAGTATATTTT--TAAA-AAAATCCGAAAA-CAAAATAAAAAAAA
64 TAAAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAAT-AAAAAAG
* *
48944739 GCCAAAATCACAG-A
128 GCCAAAATCAGAGTT
* *
48944753 TTTTTACTAAATTAATAT--AAAAACAAAAATAATACATGGAACATTATGTACTAAAATAATAT-
1 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATA
* * *
48944815 --AAA-AAAATACGAAAATAATATATCTTAAAAAATAAAATCCAAAAATAAAAATAAAAAGGGCC
66 AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCC
*
48944877 AAAATCAG-GGT
131 AAAATCAGAGTT
48944888 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATA
1 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATA
* * *
48944953 AATAATAAAATATGAAAATAATAAATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCC
66 AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCC
48945018 AAAATCAGAGTT
131 AAAATCAGAGTT
*
48945030 TTTTTTCTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATATA
1 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATA
* * *
48945095 AAAAATAAAATA-TAAAAAAATAAATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCC
66 AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCC
48945159 AAAATCAGAGTT
131 AAAATCAGAGTT
*
48945171 TTTTTTCTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
1 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACA--TGAAACATTATGTACTAAAATAATA
* * *
48945235 TAAAAGAATAAAATACGAAAATAGTATATTTTAAAAATTTAAAATCTGAAAAT-AAAATAAA
64 TAAAA-AATAAAATACGAAAATAATATATTTTAAAAA-ATAAAATCCGAAAATAAAAATAAA
48945296 TACCAAAATA
Statistics
Matches: 496, Mismatches: 30, Indels: 30
0.89 0.05 0.05
Matches are distributed among these distances:
132 21 0.04
133 3 0.01
134 4 0.01
135 43 0.09
136 30 0.06
137 43 0.09
138 17 0.03
140 39 0.08
141 142 0.29
142 107 0.22
143 9 0.02
144 25 0.05
145 13 0.03
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (142 bp):
TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACATGAAACATTATGTACTAAAATAATATA
AAAAATAAAATACGAAAATAATATATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGGCC
AAAATCAGAGTT
Found at i:48945101 original size:12 final size:13
Alignment explanation
Indices: 48945084--48945154 Score: 56
Period size: 14 Copynumber: 5.3 Consensus size: 13
48945074 ATTATGTACT
48945084 AAAAT-AATATAA
1 AAAATAAATATAA
48945096 AAAATAAAATATAAA
1 AAAAT-AAATAT-AA
*
48945111 AAAATAAATTTTAA
1 AAAATAAA-TATAA
**
48945125 AAAATAAA-ATCCG
1 AAAATAAATAT-AA
*
48945138 AAAATAAAAATAA
1 AAAATAAATATAA
48945151 AAAA
1 AAAA
48945155 GGCCAAAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
12 6 0.13
13 12 0.26
14 20 0.43
15 9 0.19
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:48945108 original size:14 final size:14
Alignment explanation
Indices: 48945089--48945134 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
48945079 GTACTAAAAT
48945089 AATATAAAAAATAA
1 AATATAAAAAATAA
48945103 AATATAAAAAAATAA
1 AATAT-AAAAAATAA
* *
48945118 ATTTTAAAAAATAA
1 AATATAAAAAATAA
48945132 AAT
1 AAT
48945135 CCGAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATATAAAAAATAA
Found at i:48945114 original size:15 final size:15
Alignment explanation
Indices: 48945083--48945134 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 15
48945073 CATTATGTAC
48945083 TAAAATAATATAAAAAA
1 TAAAAT-ATA-AAAAAA
48945100 TAAAATATAAAAAAA
1 TAAAATATAAAAAAA
* *
48945115 T-AAATTTTAAAAAA
1 TAAAATATAAAAAAA
48945129 TAAAAT
1 TAAAAT
48945135 CCGAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.38
15 11 0.34
16 3 0.09
17 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAATATAAAAAAA
Found at i:48945302 original size:141 final size:141
Alignment explanation
Indices: 48944613--48946033 Score: 1019
Period size: 146 Copynumber: 10.0 Consensus size: 141
48944603 AAATTAGAAA
* *
48944613 TTTTTACTAAATTAATATAAAAAAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATA
1 TTTTTTCTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
* * *
48944678 TAAAAAATAAAATACGAAAATAGTATATTTT--TAAA-AAAATCCGAAAACAAAATAAAAAAAAG
65 TAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAT--AAAATAG
* *
48944740 CCAAAATCACAG-A
128 CCAAAATCAGAGTT
* * *
48944753 TTTTTACTAAATTAATAT-AAAAACAAAAATAATACA--TGGAACATTATGTACTAAAATAATAT
1 TTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
* * *
48944815 ---AAA-AAAATACGAAAATAATATATCTTAAAAAATAAAATCCAAAAATAAAAATAAAA-AGGG
66 AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-AAAATAAAATA--G
*
48944875 CCAAAATCAG-GGT
128 CCAAAATCAGAGTT
*
48944888 TTTTTTCTAAATTAATATAAAAAAACAAAAATAATACA--TGAAACATTATGTACTAAAATAATA
1 TTTTTTCTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
* * * * *
48944951 TAAATAATAAAATATGAAAATAATAAATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGG
65 TAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-AAAATAAAATA-G
48945016 CCAAAATCAGAGTT
128 CCAAAATCAGAGTT
48945030 TTTTTTCTAAATTAATATAAAAAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATA
1 TTTTTTCTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATA
* * * * *
48945093 TAAAAAATAAAATA-TAAAAAAATAAATTTTAAAAAATAAAATCCGAAAATAAAAATAAAAAAGG
65 TAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAAT-AAAATAAAATA-G
48945157 CCAAAATCAGAGTT
128 CCAAAATCAGAGTT
48945171 TTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
1 TTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
* *
48945236 AAAAGAATAAAATACGAAAATAGTATATTTTAAAAATTTAAAATCTGAAAATAAAAT-AAATA-C
66 AAAA-AATAAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAAATAGC
* **
48945299 CAAAATATATTGAACT
129 CAAAAT-CA--GAGTT
*** ** * ** ** * * * *** * **
48945315 ACATGCCGGGTATATTATATATATATCATAATTTAAACCAAAATATTTTACTTATTATCATTTTA
1 TTTTTTC---TAAATTA-ATATA-A--A-AAACTAAAATAATACATTTGAAACATTAT-GTACTA
*** ** * * ***** ** **
48945380 AAATAATAATAAAAATATTTGTATTTG-AATTGGGTATA-TTTATTTTTTTTAAT--GTAGTATG
57 AAATAAT-ATAAAAA-A-TAAAATACGAAAAT-AGTATATTTTAAAAAATAAAATCCG-AAAAT-
**** * * ****
48945441 ACCGGCCAAAAT---CAGAGTTTTTGTT
116 A--AAATAAAATAGCCAAAATCAGAGTT
* *** ** *
48945466 CTAAAT-T-AATATAA-A-AAAATAA-TACATTTGAA-ACA-TTA--------TGTACTAAAATA
1 TTTTTTCTAAAT-TAATATAAAA-AACTA-AAAT-AATACATTTGAAACATTATGTACTAAAATA
*
48945516 ATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAA
62 ATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAT--AAA
* *
48945581 ATAAACGGCCAAAATTAGAATT
124 AT--A--GCCAAAATCAGAGTT
* *
48945603 TTTTAT-TAAATTAATATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATAT
1 TTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
*
48945667 AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCAAAAATAAAATAAAAAATAAA
66 AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAT--AAAAT--A
48945732 CGGCCAAAATCAGAGTT
127 --GCCAAAATCAGAGTT
* * * *
48945749 TTTTAT-TAAATTAATAAAAAAAACTAAAATAATACAATTGGAACATTATGTACTAAAATAATAT
1 TTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
* *
48945813 AAAAAATAAAATACGAAAATAGTATATTTTCAAAAATAAAATCCAAAAATAAAATAAAAATAAAC
66 AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAAT-AAAAT--A-
*
48945878 GGCCAAAATAAGAGTTTTTCT
127 -GCCAAAATCAGAG----T-T
* **
48945899 GTTTTTTATTAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGCGCTAAAATAA
1 -TTTTTT-CTAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAA
* * *
48945964 TAT-AAAAATAAAATACGAAAATAATATATTTTAAAAATTTAAAATCTGAAAATAAAAT-AAATA
63 TATAAAAAATAAAATACGAAAATAGTATATTTTAAAAA-ATAAAATCCGAAAATAAAATAAAATA
48946027 -CCAAAAT
127 GCCAAAAT
48946034 ATATTGAACT
Statistics
Matches: 1056, Mismatches: 142, Indels: 159
0.78 0.10 0.12
Matches are distributed among these distances:
129 9 0.01
130 20 0.02
131 18 0.02
132 23 0.02
133 4 0.00
134 8 0.01
135 38 0.04
136 30 0.03
137 59 0.06
138 28 0.03
139 8 0.01
140 44 0.04
141 153 0.14
142 111 0.11
143 14 0.01
144 28 0.03
145 37 0.04
146 197 0.19
147 32 0.03
148 5 0.00
149 2 0.00
150 2 0.00
151 9 0.01
152 26 0.02
153 60 0.06
154 78 0.07
155 9 0.01
156 4 0.00
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.30
Consensus pattern (141 bp):
TTTTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT
AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATAAAATAAAATAGCCA
AAATCAGAGTT
Found at i:48945685 original size:25 final size:25
Alignment explanation
Indices: 48945657--48945731 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
48945647 ATTATGTACT
48945657 AAAATAATATAAAAAATAAAATACGA
1 AAAATAATATAAAAAATAAAATAC-A
* *
48945683 AAATAGTATATTTTAAAAAATAAAATCCA
1 AAA-A-TA-A-TATAAAAAATAAAATACA
*
48945712 AAAATAAAATAAAAAATAAA
1 AAAATAATATAAAAAATAAA
48945732 CGGCCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 11 0.27
26 4 0.10
27 3 0.07
28 3 0.07
29 5 0.12
30 15 0.37
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACA
Found at i:48945716 original size:13 final size:12
Alignment explanation
Indices: 48945696--48945731 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
48945686 TAGTATATTT
48945696 TAAAAAATAAAA
1 TAAAAAATAAAA
*
48945708 TCCAAAAATAAAA
1 T-AAAAAATAAAA
48945721 TAAAAAATAAA
1 TAAAAAATAAA
48945732 CGGCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:48945861 original size:13 final size:12
Alignment explanation
Indices: 48945842--48945876 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
48945832 TAGTATATTT
48945842 TCAAAAATAAAA
1 TCAAAAATAAAA
48945854 TCCAAAAATAAAA
1 T-CAAAAATAAAA
48945867 T-AAAAATAAA
1 TCAAAAATAAA
48945877 CGGCCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (12 bp):
TCAAAAATAAAA
Found at i:48957298 original size:17 final size:17
Alignment explanation
Indices: 48957278--48957312 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48957268 CAATATCTTT
48957278 AAGAGATAAATATTAAA
1 AAGAGATAAATATTAAA
48957295 AAGAGATAAATATTAAA
1 AAGAGATAAATATTAAA
48957312 A
1 A
48957313 TTATACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (17 bp):
AAGAGATAAATATTAAA
Found at i:48960033 original size:12 final size:12
Alignment explanation
Indices: 48960018--48960065 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
48960008 TTAATGGCAA
48960018 TGTTAACATGGC
1 TGTTAACATGGC
*
48960030 TGTTAACATACGCC
1 TGTTAACAT--GGC
48960044 ATGTTAACATGGC
1 -TGTTAACATGGC
48960057 TGTTAACAT
1 TGTTAACAT
48960066 ACGCCATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (12 bp):
TGTTAACATGGC
Found at i:48960047 original size:27 final size:27
Alignment explanation
Indices: 48960017--48960080 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
48960007 TTTAATGGCA
48960017 ATGTTAACATGGCTGTTAACATACGCC
1 ATGTTAACATGGCTGTTAACATACGCC
48960044 ATGTTAACATGGCTGTTAACATACGCC
1 ATGTTAACATGGCTGTTAACATACGCC
48960071 ATGTTAACAT
1 ATGTTAACAT
48960081 CGATTTGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (27 bp):
ATGTTAACATGGCTGTTAACATACGCC
Found at i:48960050 original size:15 final size:15
Alignment explanation
Indices: 48960030--48960080 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
48960020 TTAACATGGC
48960030 TGTTAACATACGCCA
1 TGTTAACATACGCCA
*
48960045 TGTTAACAT--GGC-
1 TGTTAACATACGCCA
48960057 TGTTAACATACGCCA
1 TGTTAACATACGCCA
48960072 TGTTAACAT
1 TGTTAACAT
48960081 CGATTTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 9 0.29
13 2 0.06
14 2 0.06
15 18 0.58
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (15 bp):
TGTTAACATACGCCA
Found at i:48960105 original size:41 final size:40
Alignment explanation
Indices: 48960056--48960132 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
48960046 GTTAACATGG
*
48960056 CTGTTAACATACGCCATGTTAACATCGATTTGTTGACGTAA
1 CTGTTAACAAACGCCATGTTAACATCGA-TTGTTGACGTAA
* * *
48960097 CTGTTAACAAATGCCATGTTAGCATTGATTGTTGAC
1 CTGTTAACAAACGCCATGTTAACATCGATTGTTGAC
48960133 TTGACATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 8 0.25
41 24 0.75
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (40 bp):
CTGTTAACAAACGCCATGTTAACATCGATTGTTGACGTAA
Found at i:48960577 original size:27 final size:28
Alignment explanation
Indices: 48960547--48960610 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
48960537 AAATAAACTA
48960547 TTTTTATAAATTTTATAA-AA-TATTATT
1 TTTTTATAAA-TTTATAATAATTATTATT
* * *
48960574 TTTTAATTAATTTATAATAATTTTTATT
1 TTTTTATAAATTTATAATAATTATTATT
48960602 TTTTTATAA
1 TTTTTATAA
48960611 TTTCAGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.23
27 10 0.33
28 13 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTTATAAATTTATAATAATTATTATT
Found at i:48960611 original size:27 final size:25
Alignment explanation
Indices: 48960547--48960613 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 25
48960537 AAATAAACTA
48960547 TTTTTATAAATTTTATAAAATATTATT
1 TTTTTAT-AA-TTTATAAAATATTATT
* *
48960574 TTTTAATTAATTTATAATAATTTTTATT
1 TTTTTA-TAATTTATAA-AA-TATTATT
48960602 TTTTTATAATTT
1 TTTTTATAATTT
48960614 CAGATTGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 7 0.21
27 15 0.44
28 12 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATTTATAAAATATTATT
Found at i:48969568 original size:25 final size:25
Alignment explanation
Indices: 48969534--48969581 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
48969524 CTCGAACCCA
48969534 CGTCCTCTTGTATTAGCAACAATAT
1 CGTCCTCTTGTATTAGCAACAATAT
48969559 CGTCCTCTTGTATTAGCAACAAT
1 CGTCCTCTTGTATTAGCAACAAT
48969582 GTCCATGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (25 bp):
CGTCCTCTTGTATTAGCAACAATAT
Found at i:48977777 original size:29 final size:30
Alignment explanation
Indices: 48977745--48977814 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
48977735 GTCAATAATT
*
48977745 TATAAAATTTG-AATCAAATCAAA-TTTTCA
1 TATAAAATTTGCAA-AAAATCAAAGTTTTCA
* *
48977774 TATATAAAATTGCAAAAAATCAAAGTTTTTA
1 TATA-AAATTTGCAAAAAATCAAAGTTTTCA
*
48977805 TATAATATTT
1 TATAAAATTT
48977815 ATCTCAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
29 4 0.12
30 18 0.55
31 11 0.33
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (30 bp):
TATAAAATTTGCAAAAAATCAAAGTTTTCA
Found at i:48978166 original size:21 final size:19
Alignment explanation
Indices: 48978126--48978168 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
48978116 TTATAATTAA
*
48978126 TTAAAATATTTTTCTTTTT
1 TTAAAATATTTTACTTTTT
* *
48978145 TTAAAATATATTTAGTTATT
1 TTAAAATAT-TTTACTTTTT
48978165 TTAA
1 TTAA
48978169 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAAAATATTTTACTTTTT
Found at i:48978856 original size:40 final size:41
Alignment explanation
Indices: 48978812--48978898 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
48978802 TTTTACATTC
48978812 GCGGCGTTTTCAAT-AAAACACCGCAAAAAAC-AAAGCAATA
1 GCGGCGTTTTCAATCAAAACACCGCAAAAAACTAAAG-AATA
** * * *
48978852 GCGGCGTTTTTGATCAAAACGCCGCTAAAAACTGAAGAATA
1 GCGGCGTTTTCAATCAAAACACCGCAAAAAACTAAAGAATA
48978893 GCGGCG
1 GCGGCG
48978899 CTTCTGGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 12 0.30
41 25 0.62
42 3 0.08
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (41 bp):
GCGGCGTTTTCAATCAAAACACCGCAAAAAACTAAAGAATA
Found at i:48978946 original size:41 final size:41
Alignment explanation
Indices: 48978891--48979162 Score: 375
Period size: 41 Copynumber: 6.6 Consensus size: 41
48978881 AACTGAAGAA
*
48978891 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * *
48978932 TAACGGCGCTTCTGGGAAAACGCTGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * *
48978973 TAGCGGCGCCTT-TGTAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCG-CTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
* *
48979014 TAGCGGCGCTTCTGGAAAAACGCTGCTATATGTAGAGGTTT
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
* *
48979055 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * ** *
48979096 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
*
48979137 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTCTGGAAAAACGCCGC
48979163 AAAAAAGTAA
Statistics
Matches: 206, Mismatches: 23, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
40 3 0.01
41 200 0.97
42 3 0.01
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (41 bp):
TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTT
Found at i:48979027 original size:123 final size:123
Alignment explanation
Indices: 48978891--48979162 Score: 427
Period size: 123 Copynumber: 2.2 Consensus size: 123
48978881 AACTGAAGAA
* * *
48978891 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTCGAGGTTTTAACGGCGCTTCTGGGAAAACGCT
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTTTAACGGCGCTTCTGGAAAAACGCC
*
48978956 GCTATAGGTAGAGGTTTTAGCGGCGCCTTTGTAAAAACGCCGCTATAGATCGAGGTTT
66 GCTATAGGTAGAGGTTTTAGCGGCGCCTTTGTAAAAACGCCGCTATAGACCGAGGTTT
* * * * *
48979014 TAGCGGCGCTTCTGGAAAAACGCTGCTATATGTAGAGGTTTTAGCGGCGCTTTTGTAAAAACGCC
1 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTTTAACGGCGCTTCTGGAAAAACGCC
* * *
48979079 GCTATAGGTAGAGGTTTTAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
66 GCTATAGGTAGAGGTTTTAGCGGCGCCTTTGTAAAAACGCCGCTATAGACCGAGGTTT
*
48979137 TAGCGGCGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTCTGGAAAAACGCCGC
48979163 AAAAAAGTAA
Statistics
Matches: 135, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 135 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (123 bp):
TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTAGAGGTTTTAACGGCGCTTCTGGAAAAACGCC
GCTATAGGTAGAGGTTTTAGCGGCGCCTTTGTAAAAACGCCGCTATAGACCGAGGTTT
Found at i:48979497 original size:18 final size:18
Alignment explanation
Indices: 48979468--48979518 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
48979458 TTGTCCCTTG
48979468 TTATATATATATATTAA-A
1 TTATA-ATATATATTAAGA
*
48979486 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
48979505 TTATAATATATATT
1 TTATAATATATATT
48979519 TAGGGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:48979958 original size:15 final size:15
Alignment explanation
Indices: 48979938--48979969 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48979928 TTTAATGTAG
*
48979938 AAGATAAATGTATAT
1 AAGATAAATATATAT
48979953 AAGATAAATATATAT
1 AAGATAAATATATAT
48979968 AA
1 AA
48979970 ATTATTATTT
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:0.59, C:0.00, G:0.09, T:0.31
Consensus pattern (15 bp):
AAGATAAATATATAT
Found at i:48993112 original size:43 final size:43
Alignment explanation
Indices: 48993091--48993330 Score: 403
Period size: 43 Copynumber: 5.6 Consensus size: 43
48993081 AAAAAGCGCA
*
48993091 GCTAAAAGCCTTGACGTTTAGCGGCGC-TTTACCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAAACGCC
*
48993134 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
48993177 GCTAAAAGCCTTGACCTTTAGCGGCGC-TTTACCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAAACGCC
* *
48993220 GCTAAATGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
*
48993263 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
48993306 GCTAAAAGCCTTGACCTTTAGCGGC
1 GCTAAAAGCCTTGACCTTTAGCGGC
48993331 ATTTTTTCCA
Statistics
Matches: 186, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
42 3 0.02
43 176 0.95
44 7 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (43 bp):
GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
Found at i:48993294 original size:129 final size:129
Alignment explanation
Indices: 48993091--48993330 Score: 455
Period size: 129 Copynumber: 1.9 Consensus size: 129
48993081 AAAAAGCGCA
48993091 GCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAGC
1 GCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAGC
48993156 GGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
66 GGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
*
48993220 GCTAAATGCCTTGACGTTTAGCGGCGCTTTTA-CCACAAACGCCGCTAAAAGCCTTGACCTTTAG
1 GCTAAAAGCCTTGACGTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAG
48993284 CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGC
65 CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGC
48993331 ATTTTTTCCA
Statistics
Matches: 109, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
129 105 0.96
130 4 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (129 bp):
GCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAGC
GGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
Found at i:48994236 original size:16 final size:16
Alignment explanation
Indices: 48994215--48994248 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
48994205 TATTTGCAAG
48994215 ATACATCAATACTCCT
1 ATACATCAATACTCCT
48994231 ATACATCAATACTCCT
1 ATACATCAATACTCCT
48994247 AT
1 AT
48994249 GGCACTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
ATACATCAATACTCCT
Found at i:48996741 original size:24 final size:24
Alignment explanation
Indices: 48996709--48996767 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
48996699 TTCTTTCCAC
48996709 ATTCAACATTTGTAACATATAGAT
1 ATTCAACATTTGTAACATATAGAT
*
48996733 ATTCAACATTTGTAATATATAGAT
1 ATTCAACATTTGTAACATATAGAT
48996757 ATTCAACATTT
1 ATTCAACATTT
48996768 TTCTCATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (24 bp):
ATTCAACATTTGTAACATATAGAT
Found at i:49009273 original size:19 final size:18
Alignment explanation
Indices: 49009235--49009272 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
49009225 CCCTAATGCA
*
49009235 TTATCTGTCTTGTTACTT
1 TTATCTGTCTTGCTACTT
49009253 TTATCTGTACTTGCTA-TT
1 TTATCTGT-CTTGCTACTT
49009271 TT
1 TT
49009273 TTTTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATCTGTCTTGCTACTT
Found at i:49016441 original size:26 final size:26
Alignment explanation
Indices: 49016412--49016515 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
49016402 TGGTACAAAT
49016412 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
49016438 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49016464 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
49016490 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49016516 AGATGGGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49023481 original size:26 final size:26
Alignment explanation
Indices: 49023452--49023551 Score: 164
Period size: 26 Copynumber: 3.8 Consensus size: 26
49023442 TGGTACAAAT
49023452 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49023478 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
49023504 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
49023530 TTATAATGGTTTAGGTAAATGT
1 TGATAATGGGTTAGGTAAATGT
49023552 GTCAAGATGG
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 68 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:49025066 original size:26 final size:26
Alignment explanation
Indices: 49025037--49025089 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
49025027 TTTACAGTTT
*
49025037 TACCTCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
*
49025063 TACCCCTAGGGATAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
49025089 T
1 T
49025090 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:49032799 original size:76 final size:76
Alignment explanation
Indices: 49032673--49032823 Score: 275
Period size: 76 Copynumber: 2.0 Consensus size: 76
49032663 AGGTAATAGC
*
49032673 AAGCACGGCACAAAAAGGAAAAAATGACTTTTTTCTCAAGAGGGTATCCAACTGTCTCCCAACTA
1 AAGCACGGCACAAAAAGGAAAAAATGACTTTTTTCGCAAGAGGGTATCCAACTGTCTCCCAACTA
*
49032738 AAGGAAAATGG
66 AAGAAAAATGG
*
49032749 AAGCACGGCACATAAAGGAAAAAATGACTTTTTTCGCAAGAGGGTATCCAACTGTCTCCCAACTA
1 AAGCACGGCACAAAAAGGAAAAAATGACTTTTTTCGCAAGAGGGTATCCAACTGTCTCCCAACTA
49032814 AAGAAAAATG
66 AAGAAAAATG
49032824 AAAGGTGAGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (76 bp):
AAGCACGGCACAAAAAGGAAAAAATGACTTTTTTCGCAAGAGGGTATCCAACTGTCTCCCAACTA
AAGAAAAATGG
Found at i:49035758 original size:41 final size:41
Alignment explanation
Indices: 49035708--49035842 Score: 141
Period size: 41 Copynumber: 3.3 Consensus size: 41
49035698 GTAATTAATA
*
49035708 TTAATTATTTATTAAATTTAATTAGAATATATAAACTATAT
1 TTAAATATTTATTAAATTTAATTAGAATATATAAACTATAT
* * * * *
49035749 TTAAATATTTA--AATATAATAATTA-AATATTTGTAATTAGAT
1 TTAAATATTTATTAA-AT-TTAATTAGAATATAT-AAACTATAT
* *
49035790 ATTGATTATTTATTAAATTTAATTAGAATATATAAACTATAT
1 -TTAAATATTTATTAAATTTAATTAGAATATATAAACTATAT
49035832 TTAAATATTTA
1 TTAAATATTTA
49035843 AATATAATAA
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
39 2 0.03
40 8 0.11
41 31 0.43
42 21 0.29
43 8 0.11
44 2 0.03
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.48
Consensus pattern (41 bp):
TTAAATATTTATTAAATTTAATTAGAATATATAAACTATAT
Found at i:49035775 original size:21 final size:21
Alignment explanation
Indices: 49035749--49035863 Score: 82
Period size: 21 Copynumber: 5.5 Consensus size: 21
49035739 TAAACTATAT
49035749 TTAAATATTTAAATATAATAA
1 TTAAATATTTAAATATAATAA
*
49035770 TTAAATATTTGTAAT-TAGAT-A
1 TTAAATATTT-AAATATA-ATAA
* * *
49035791 TTGATTATTTATTAA-AT-TTAA
1 TTAAATATTTA--AATATAATAA
*
49035812 TTAGAATATATAAACTAT-AT--
1 TTA-AATATTTAAA-TATAATAA
49035832 TTAAATATTTAAATATAATAA
1 TTAAATATTTAAATATAATAA
49035853 TTAAATATTTA
1 TTAAATATTTA
49035864 TAATTAAATA
Statistics
Matches: 72, Mismatches: 10, Indels: 24
0.68 0.09 0.23
Matches are distributed among these distances:
18 3 0.04
19 11 0.15
20 6 0.08
21 35 0.49
22 17 0.24
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (21 bp):
TTAAATATTTAAATATAATAA
Found at i:49035802 original size:83 final size:82
Alignment explanation
Indices: 49035698--49035875 Score: 320
Period size: 83 Copynumber: 2.1 Consensus size: 82
49035688 ATATTTTTAA
49035698 GTAATTAATATTAATTATTTATTAAATTTAATTAGAATATATAAACTATATTTAAATATTTAAAT
1 GTAATTAATATTAATTATTTATTAAATTTAATTAGAATATATAAACTATATTTAAATATTTAAAT
49035763 ATAATAATTAAATATTT
66 ATAATAATTAAATATTT
*
49035780 GTAATTAGATATTGATTATTTATTAAATTTAATTAGAATATATAAACTATATTTAAATATTTAAA
1 GTAATTA-ATATTAATTATTTATTAAATTTAATTAGAATATATAAACTATATTTAAATATTTAAA
49035845 TATAATAATTAAATATTT
65 TATAATAATTAAATATTT
*
49035863 ATAATTAAATATT
1 GTAATT-AATATT
49035876 TGGAAGAAGA
Statistics
Matches: 92, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
82 7 0.08
83 84 0.91
84 1 0.01
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.47
Consensus pattern (82 bp):
GTAATTAATATTAATTATTTATTAAATTTAATTAGAATATATAAACTATATTTAAATATTTAAAT
ATAATAATTAAATATTT
Found at i:49035845 original size:38 final size:38
Alignment explanation
Indices: 49035719--49035850 Score: 122
Period size: 38 Copynumber: 3.3 Consensus size: 38
49035709 TAATTATTTA
49035719 TTAAATTTAATTAGAATATATAAACTATATTTAAATAT
1 TTAAATTTAATTAGAATATATAAACTATATTTAAATAT
* * * * * *
49035757 TTAAATATAATAATTA-AATATTTGTAATTAGATATTGATTATTT
1 TTAAAT-T--TAATTAGAATATAT-AAACT--ATATTTA-AATAT
49035801 ATTAAATTTAATTAGAATATATAAACTATATTTAAATAT
1 -TTAAATTTAATTAGAATATATAAACTATATTTAAATAT
*
49035840 TTAAATATAAT
1 TTAAATTTAAT
49035851 AATTAAATAT
Statistics
Matches: 72, Mismatches: 13, Indels: 18
0.70 0.13 0.17
Matches are distributed among these distances:
38 16 0.22
39 4 0.06
40 12 0.17
41 9 0.12
42 9 0.12
43 12 0.17
44 4 0.06
45 6 0.08
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (38 bp):
TTAAATTTAATTAGAATATATAAACTATATTTAAATAT
Found at i:49035868 original size:14 final size:14
Alignment explanation
Indices: 49035840--49035876 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
49035830 ATTTAAATAT
*
49035840 TTAAATA-TAATAA
1 TTAAATATTTATAA
49035853 TTAAATATTTATAA
1 TTAAATATTTATAA
49035867 TTAAATATTT
1 TTAAATATTT
49035877 GGAAGAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 7 0.32
14 15 0.68
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TTAAATATTTATAA
Found at i:49035870 original size:27 final size:27
Alignment explanation
Indices: 49035757--49035874 Score: 73
Period size: 27 Copynumber: 4.3 Consensus size: 27
49035747 ATTTAAATAT
*
49035757 TTAAATATAATAATTAAATATTTGTAA
1 TTAAATATAATAATTAAATATTTATAA
* * * * * *
49035784 TTAGATATTGATTATTTATTAAATT-TAA
1 TTAAATA-TAATAATTAAAT-ATTTATAA
* *
49035812 TTAGAATAT-ATAA--ACTATATTTAAATAT
1 TTA-AATATAATAATTA-AATATTT--ATAA
49035840 TTAAATATAATAATTAAATATTTATAA
1 TTAAATATAATAATTAAATATTTATAA
49035867 TTAAATAT
1 TTAAATAT
49035875 TTGGAAGAAG
Statistics
Matches: 66, Mismatches: 15, Indels: 20
0.65 0.15 0.20
Matches are distributed among these distances:
25 3 0.05
26 1 0.02
27 25 0.38
28 24 0.36
29 12 0.18
30 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (27 bp):
TTAAATATAATAATTAAATATTTATAA
Found at i:49036737 original size:19 final size:19
Alignment explanation
Indices: 49036713--49036750 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
49036703 CAACAGGACC
49036713 GAAAGCACCCAAAATCAAA
1 GAAAGCACCCAAAATCAAA
49036732 GAAAGCACCCAAAATCAAA
1 GAAAGCACCCAAAATCAAA
49036751 CCTAATACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.26, G:0.11, T:0.05
Consensus pattern (19 bp):
GAAAGCACCCAAAATCAAA
Found at i:49037980 original size:50 final size:51
Alignment explanation
Indices: 49037903--49038028 Score: 209
Period size: 50 Copynumber: 2.5 Consensus size: 51
49037893 GACCATGGCA
*
49037903 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
*
49037954 A-AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATG
1 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
* *
49038004 ACAAGTGAAAAGTGGTAGCTTCGGC
1 ACAAGTGATAAGTGATAGCTTCGGC
49038029 AACCTGATCA
Statistics
Matches: 70, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 48 0.69
51 22 0.31
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAATG
Found at i:49039894 original size:20 final size:22
Alignment explanation
Indices: 49039854--49039895 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
49039844 ATTGTTAATA
*
49039854 TAATAAATATATTTTATTATTT
1 TAATAAATATATTTTAATATTT
49039876 TAATAAAT-TA-TTTAATATTT
1 TAATAAATATATTTTAATATTT
49039896 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 2 0.11
22 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TAATAAATATATTTTAATATTT
Found at i:49040390 original size:109 final size:109
Alignment explanation
Indices: 49040199--49040418 Score: 440
Period size: 109 Copynumber: 2.0 Consensus size: 109
49040189 TTTAAATAAA
49040199 AATACTCGCTTATTAGTCACGTAATTAAAAAATGATGTTGTAATGAATCTGAATTTAACATAATA
1 AATACTCGCTTATTAGTCACGTAATTAAAAAATGATGTTGTAATGAATCTGAATTTAACATAATA
49040264 TTTTTAATATATGCAAAAACAATGTAAAATACAAAATTATAGAT
66 TTTTTAATATATGCAAAAACAATGTAAAATACAAAATTATAGAT
49040308 AATACTCGCTTATTAGTCACGTAATTAAAAAATGATGTTGTAATGAATCTGAATTTAACATAATA
1 AATACTCGCTTATTAGTCACGTAATTAAAAAATGATGTTGTAATGAATCTGAATTTAACATAATA
49040373 TTTTTAATATATGCAAAAACAATGTAAAATACAAAATTATAGAT
66 TTTTTAATATATGCAAAAACAATGTAAAATACAAAATTATAGAT
49040417 AA
1 AA
49040419 AAATAAATTT
Statistics
Matches: 111, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 111 1.00
ACGTcount: A:0.46, C:0.09, G:0.10, T:0.35
Consensus pattern (109 bp):
AATACTCGCTTATTAGTCACGTAATTAAAAAATGATGTTGTAATGAATCTGAATTTAACATAATA
TTTTTAATATATGCAAAAACAATGTAAAATACAAAATTATAGAT
Found at i:49043642 original size:28 final size:28
Alignment explanation
Indices: 49043593--49043649 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
49043583 CGTACATGTA
* *
49043593 TATACAGTATTATCTTTTATTACTTTAT
1 TATACAGTATGATCTTTAATTACTTTAT
* *
49043621 TATATAGTATGATTTTTAATTACTTTAT
1 TATACAGTATGATCTTTAATTACTTTAT
49043649 T
1 T
49043650 TTTTTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (28 bp):
TATACAGTATGATCTTTAATTACTTTAT
Found at i:49056386 original size:75 final size:74
Alignment explanation
Indices: 49056220--49056703 Score: 629
Period size: 75 Copynumber: 6.4 Consensus size: 74
49056210 CTTTCCAAGG
* * *
49056220 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAG--ACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
*
49056283 G-TTGTCAAA
66 GCTTTTC-AA
*
49056292 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
49056357 GCTTTTCAA
66 GCTTTTCAA
*
49056366 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGGTATTTTCAATTTC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTC
49056431 TGCTTTTCAA
65 TGCTTTTCAA
49056441 GAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGAC-CGTTGAGGTATTTTCAATTCC
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAA----
*
49056505 TGTTCAATTTATGTTTTTC-A
61 T-TTC------TGCTTTTCAA
* * *
49056525 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
*
49056590 GTTTTTCAA
66 GCTTTTCAA
** * ** *
49056599 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTCAAATTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
*
49056664 AC-TTTCAA
66 GCTTTTCAA
*
49056672 AAAATCAACTCATATTGCGAGAGGTGGGTTGA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGA
49056704 ACCTTTTAAT
Statistics
Matches: 377, Mismatches: 18, Indels: 33
0.88 0.04 0.08
Matches are distributed among these distances:
72 39 0.10
73 45 0.12
74 100 0.27
75 121 0.32
78 1 0.00
79 6 0.02
80 1 0.00
83 41 0.11
84 16 0.04
85 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.31
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
GCTTTTCAA
Found at i:49056568 original size:158 final size:159
Alignment explanation
Indices: 49056347--49056635 Score: 492
Period size: 158 Copynumber: 1.8 Consensus size: 159
49056337 TTGAGGTATT
*
49056347 TTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
1 TTCAATTTATGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
* *
49056412 TTGAGGTATTTTCAATTTCTGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
66 CTGAGGTAATTTCAATTTCTGCTTTTCAA-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
49056477 TCAAGACCGTTGAGGTATTTTCAATTCCTG
130 TCAAGACCGTTGAGGTATTTTCAATTCCTG
* * *
49056507 TTCAATTTATGTTTTTC-A-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
1 TTCAATTTATGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
*
49056570 CTGAGGTAATTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
66 CTGAGGTAATTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
49056635 C
131 C
49056636 GGGGCACGCC
Statistics
Matches: 122, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
157 37 0.30
158 69 0.57
159 1 0.01
160 15 0.12
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (159 bp):
TTCAATTTATGCTTTTCAAGAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACA
CTGAGGTAATTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAAGACCGTTGAGGTATTTTCAATTCCTG
Found at i:49057895 original size:13 final size:12
Alignment explanation
Indices: 49057863--49057908 Score: 58
Period size: 11 Copynumber: 3.8 Consensus size: 12
49057853 ATATATATAT
*
49057863 AAAAATATAATA
1 AAAAATAAAATA
49057875 AAATAATAGAAATA
1 AAA-AATA-AAATA
49057889 AAAAATAAAA-A
1 AAAAATAAAATA
49057900 AAAAATAAA
1 AAAAATAAA
49057909 TTTTTTACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
11 10 0.32
12 6 0.19
13 8 0.26
14 7 0.23
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.17
Consensus pattern (12 bp):
AAAAATAAAATA
Found at i:49058240 original size:48 final size:48
Alignment explanation
Indices: 49058169--49058265 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
49058159 TCCCTTTTTT
49058169 TCTCTCTACGGTACAAAATGAATTTTTTTAGAAAATTTTTGACTTATA
1 TCTCTCTACGGTACAAAATGAATTTTTTTAGAAAATTTTTGACTTATA
*
49058217 TCTCTCTACGGTACAAAATGAATTTTTTTAGAAAATTTTTTACTTATA
1 TCTCTCTACGGTACAAAATGAATTTTTTTAGAAAATTTTTGACTTATA
49058265 T
1 T
49058266 ACGTTTTGGA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.45
Consensus pattern (48 bp):
TCTCTCTACGGTACAAAATGAATTTTTTTAGAAAATTTTTGACTTATA
Found at i:49058823 original size:28 final size:28
Alignment explanation
Indices: 49058774--49058830 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
49058764 CGTACATGTA
* *
49058774 TATACAGTATTATCTTTTATTACTTTAT
1 TATACAGTATGATCTTTAATTACTTTAT
* *
49058802 TATATAGTATGATTTTTAATTACTTTAT
1 TATACAGTATGATCTTTAATTACTTTAT
49058830 T
1 T
49058831 TTTTTTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.05, T:0.58
Consensus pattern (28 bp):
TATACAGTATGATCTTTAATTACTTTAT
Found at i:49061794 original size:591 final size:591
Alignment explanation
Indices: 49060673--49062444 Score: 3472
Period size: 591 Copynumber: 3.0 Consensus size: 591
49060663 TCTTACTTGA
49060673 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
1 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
49060738 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
66 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
49060803 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
131 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
49060868 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
196 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
*
49060933 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCAAGCATGTAAAGACCTACTAACATCTGCTG
261 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
49060998 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
326 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
49061063 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
391 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
49061128 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
456 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
49061193 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
521 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
49061258 AATGCT
586 AATGCT
49061264 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
1 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
49061329 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
66 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
49061394 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
131 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
49061459 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
196 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
49061524 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
261 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
*
49061589 ATACTTTTATCTGACTATTTTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
326 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
49061654 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
391 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
49061719 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
456 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
49061784 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
521 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
49061849 AATGCT
586 AATGCT
49061855 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
1 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
49061920 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
66 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
*
49061985 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGAGGAGGCTTAGAATGA
131 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
*
49062050 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCCTCTTCATC
196 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
*
49062115 TTGAAACTGTCTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
261 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
49062180 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
326 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
* *
49062245 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCTTTCATTGCCTTCTCAGACTTCATGGT
391 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
*
49062310 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCTCAATCGCTGCCATTTGTT
456 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
49062375 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
521 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
49062440 AATGC
586 AATGC
49062445 CTTCTTGAGG
Statistics
Matches: 1172, Mismatches: 9, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
591 1172 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (591 bp):
GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
TTGAAACTGACTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
AATGCT
Found at i:49069650 original size:102 final size:102
Alignment explanation
Indices: 49069536--49069724 Score: 249
Period size: 107 Copynumber: 1.8 Consensus size: 102
49069526 CACAAGTTCA
*
49069536 TTTTTTTCATTTCAATTACAATGGTAAAATTTCAGTTTTGA-T-AGTTAAACTCAAATATAATG-
1 TTTTTTTCATTTCAATTACAATGGCAAAATTTCAGTTTTGACTCAGTTAAACTCAAATATAA-GA
49069598 TCTAATCTTTATATTTTTACGCTCTATTTTTTTCTTTT
65 TCTAATCTTTATATTTTTACGCTCTATTTTTTTCTTTT
* * * *
49069636 TTTTTTTGCTATTTCAATTATAATGGCAAAATTTTAGTTTTGATCCCTCTGTTAAACTCAAATTT
1 TTTTTTT-C-ATTTCAATTACAATGGCAAAATTTCAGTTTTGA---CTCAGTTAAACTCAAATAT
*
49069701 AAGATTTAATCTTTATATTTTTAC
61 AAGATCTAATCTTTATATTTTTAC
49069725 ACCCTTTTGT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
100 7 0.09
101 1 0.01
102 30 0.40
106 2 0.03
107 35 0.47
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (102 bp):
TTTTTTTCATTTCAATTACAATGGCAAAATTTCAGTTTTGACTCAGTTAAACTCAAATATAAGAT
CTAATCTTTATATTTTTACGCTCTATTTTTTTCTTTT
Found at i:49089079 original size:10 final size:10
Alignment explanation
Indices: 49089064--49089092 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
49089054 AAGGAAAAAA
49089064 AAAGGGAAGG
1 AAAGGGAAGG
49089074 AAAGGGAAGG
1 AAAGGGAAGG
49089084 AAAGGGAAG
1 AAAGGGAAG
49089093 ACGAAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (10 bp):
AAAGGGAAGG
Found at i:49091495 original size:56 final size:55
Alignment explanation
Indices: 49091435--49091584 Score: 176
Period size: 56 Copynumber: 2.7 Consensus size: 55
49091425 ATGTAGAAAT
* * *
49091435 ATGAAACATTTAAAAATGATTAAAGTTTTCTCCAAAATGAAAATGAAAATAGAGAA
1 ATGAAACATTTAGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAAT-GAGAA
* * ** *
49091491 ATGAAATCATTTAGAAGTTAATGTGGTTTTCTCCAAAATGGAAATGAAAATGAGAA
1 ATGAAA-CATTTAGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAATGAGAA
* *
49091547 ATGAATTCATTTAGAAATGAATAAGGATTTCT-CAAAAT
1 ATGAA-ACATTTAGAAATGAATAAGGTTTTCTCCAAAAT
49091585 TGATCGTAAG
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
55 6 0.08
56 36 0.46
57 36 0.46
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (55 bp):
ATGAAACATTTAGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAATGAGAA
Found at i:49099464 original size:24 final size:24
Alignment explanation
Indices: 49099436--49099487 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49099426 TTAGTAGGTC
* *
49099436 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
49099460 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
49099484 AAAT
1 AAAT
49099488 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:49101338 original size:30 final size:29
Alignment explanation
Indices: 49101303--49101365 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
49101293 TTATATATGT
49101303 AATAGATTT-GAA-AACATAAATATGTATATA
1 AATAGATTTAGAAGAA-AT-AATATGTATA-A
*
49101333 AATAGATTTAGAAGAAATTATATGTATAA
1 AATAGATTTAGAAGAAATAATATGTATAA
49101362 AATA
1 AATA
49101366 ACATAGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.17
30 18 0.60
31 5 0.17
32 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (29 bp):
AATAGATTTAGAAGAAATAATATGTATAA
Found at i:49109518 original size:21 final size:21
Alignment explanation
Indices: 49109484--49109534 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
49109474 AAGATAAAGA
*
49109484 TAAAATTAAACCCT-AAAACG
1 TAAAATAAAACCCTCAAAACG
*
49109504 TAAAATAAGAACCCTCAAAATG
1 TAAAATAA-AACCCTCAAAACG
49109526 TAAACATAA
1 TAAA-ATAA
49109535 TATTCTCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 6 0.23
22 9 0.35
23 4 0.15
ACGTcount: A:0.57, C:0.18, G:0.06, T:0.20
Consensus pattern (21 bp):
TAAAATAAAACCCTCAAAACG
Found at i:49112371 original size:4 final size:4
Alignment explanation
Indices: 49112351--49112409 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
49112341 GAATATGTAT
* * * * * *
49112351 GTGC GTGG GTGC ATGC GTGC GTGC GTGG GTGC ATGC ATAC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
*
49112399 GTAC GTGC GTG
1 GTGC GTGC GTG
49112410 TATGTGTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.08, C:0.20, G:0.46, T:0.25
Consensus pattern (4 bp):
GTGC
Found at i:49112376 original size:20 final size:20
Alignment explanation
Indices: 49112351--49112397 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
49112341 GAATATGTAT
* *
49112351 GTGCGTGGGTGCATGCGTGC
1 GTGCGTGGGTGCATGCATAC
49112371 GTGCGTGGGTGCATGCATAC
1 GTGCGTGGGTGCATGCATAC
49112391 GTGCGTG
1 GTGCGTG
49112398 CGTACGTGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.09, C:0.19, G:0.47, T:0.26
Consensus pattern (20 bp):
GTGCGTGGGTGCATGCATAC
Found at i:49113442 original size:29 final size:28
Alignment explanation
Indices: 49113385--49113443 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
49113375 TGAAAATGTC
*
49113385 AATTAGGGATTAAATTGAGAAAAGTATA
1 AATTAGGGATTAAATTGAGAAAAGAATA
* *
49113413 AATTGAGGGGTTAAATTGTGAAATA-AATA
1 AATT-AGGGATTAAATTGAGAAA-AGAATA
49113442 AA
1 AA
49113444 AAATATGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 21 0.81
30 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (28 bp):
AATTAGGGATTAAATTGAGAAAAGAATA
Found at i:49121683 original size:30 final size:30
Alignment explanation
Indices: 49121647--49121707 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
49121637 GAGTTTTCAG
*
49121647 GATCCACACGGGCATG-CCACATGCCTATGT
1 GATCCACACGGGCA-GACCACATGCCCATGT
49121677 GATCCACACGGGCAGACCACATGCCCATGT
1 GATCCACACGGGCAGACCACATGCCCATGT
49121707 G
1 G
49121708 CCAGCCCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (30 bp):
GATCCACACGGGCAGACCACATGCCCATGT
Found at i:49123104 original size:5 final size:5
Alignment explanation
Indices: 49123094--49123125 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
49123084 GACTATTGTG
49123094 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
49123126 GAACAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:49128852 original size:25 final size:25
Alignment explanation
Indices: 49128805--49128852 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49128795 TCCGAGCTAA
*
49128805 TCAGGAAACTCATAAGAGTTTTTAC
1 TCAGGAAACTCATAAGAGCTTTTAC
*
49128830 TCAGGAAGCTCAT-AGAGCCTTTT
1 TCAGGAAACTCATAAGAG-CTTTT
49128853 TGATATCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (25 bp):
TCAGGAAACTCATAAGAGCTTTTAC
Found at i:49133366 original size:29 final size:29
Alignment explanation
Indices: 49133324--49133380 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
49133314 GAAGTCGAAT
49133324 TTATAATGAAATTGGATTATTAGATACCC
1 TTATAATGAAATTGGATTATTAGATACCC
*
49133353 TTATAATGAAATTGGATTATTGGATACC
1 TTATAATGAAATTGGATTATTAGATACC
49133381 TTAGTGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (29 bp):
TTATAATGAAATTGGATTATTAGATACCC
Found at i:49134126 original size:21 final size:21
Alignment explanation
Indices: 49134100--49134139 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49134090 TTTGGGTGGA
49134100 TCAACTCTTACGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTGT
*
49134121 TCAACTCTTATGAGCTTCT
1 TCAACTCTTACGAGCTTCT
49134140 ATTGGCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (21 bp):
TCAACTCTTACGAGCTTCTGT
Found at i:49137373 original size:22 final size:22
Alignment explanation
Indices: 49137348--49137413 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
49137338 AAAGCACATG
49137348 GGCGTGTGCATTGTCTCCACAC
1 GGCGTGTGCATTGTCTCCACAC
* ** *
49137370 GGCGTGTCCCAAAG-C-CCAC-G
1 GGCGTGT-GCATTGTCTCCACAC
49137390 GGCGTGTGCATTGTCTCCACAC
1 GGCGTGTGCATTGTCTCCACAC
49137412 GG
1 GG
49137414 GTATGTGAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 3 0.09
20 8 0.25
21 8 0.25
22 10 0.31
23 3 0.09
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.21
Consensus pattern (22 bp):
GGCGTGTGCATTGTCTCCACAC
Found at i:49137384 original size:42 final size:42
Alignment explanation
Indices: 49137331--49137413 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
49137321 GGACACGGGT
* *
49137331 GTGTCCTAAAGCACATGGGCGTGTGCATTGTCTCCACACGGC
1 GTGTCCCAAAGCACACGGGCGTGTGCATTGTCTCCACACGGC
*
49137373 GTGTCCCAAAGCCCACGGGCGTGTGCATTGTCTCCACACGG
1 GTGTCCCAAAGCACACGGGCGTGTGCATTGTCTCCACACGG
49137414 GTATGTGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.18, C:0.31, G:0.29, T:0.22
Consensus pattern (42 bp):
GTGTCCCAAAGCACACGGGCGTGTGCATTGTCTCCACACGGC
Found at i:49140221 original size:46 final size:46
Alignment explanation
Indices: 49140154--49140244 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
49140144 AAATTGTCAC
*
49140154 CCACGCTCATACAAGGATTCAAACACAAGACCTCTAGCAAGCTAAT
1 CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGCAAGCTAAT
*
49140200 CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGGAAGCTAA
1 CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGCAAGCTAA
49140245 CTCCTTACCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.16
Consensus pattern (46 bp):
CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGCAAGCTAAT
Found at i:49149802 original size:6 final size:6
Alignment explanation
Indices: 49149787--49149834 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
49149777 ATTGAGTCCA
* *
49149787 TTTATT TTTATG TTTATT TTTGTT TTTATT TTTA-T TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
49149833 TT
1 TT
49149835 CCTCTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:49153077 original size:18 final size:19
Alignment explanation
Indices: 49153051--49153095 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
49153041 TACTTATACT
*
49153051 TTAAGTATAATATATT-TA
1 TTAATTATAATATATTATA
49153069 TTAATTATAATATATTATA
1 TTAATTATAATATATTATA
49153088 TTAATTAT
1 TTAATTAT
49153096 TAATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAATTATAATATATTATA
Found at i:49167270 original size:43 final size:43
Alignment explanation
Indices: 49167222--49167601 Score: 528
Period size: 43 Copynumber: 8.6 Consensus size: 43
49167212 CCGGCATTAC
49167222 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
49167265 GCCTGCTAGGTACGAGGGCCCGAATACACATCACCAGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
49167308 GCCTGCTAGGCACGATGGCTCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
49167351 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * * *
49167394 GCCTGCTAGGCACGAAGGCTCGAATATACATCACTGACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
49167437 GCCTGCTAGGCACAAAGG-TCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
49167479 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCATTCGGTCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAAT----A-CA-CA-----TCACCGGCACGAA
49167533 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
49167576 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
49167602 TAATACCAGC
Statistics
Matches: 300, Mismatches: 25, Indels: 24
0.86 0.07 0.07
Matches are distributed among these distances:
42 37 0.12
43 215 0.72
47 1 0.00
48 4 0.01
49 4 0.01
50 1 0.00
54 38 0.13
ACGTcount: A:0.30, C:0.32, G:0.25, T:0.13
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:49167642 original size:38 final size:38
Alignment explanation
Indices: 49167594--49167736 Score: 196
Period size: 38 Copynumber: 3.8 Consensus size: 38
49167584 GGCACGAAGG
* * * *
49167594 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* * *
49167632 CCCTGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
49167670 CCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
**
49167708 CCCGGATATTTTACCAGCACGAAGCCTGC
1 CCCGGATATAATACCAGCACGAAGCCTGC
49167737 GGGTCTTTAA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:49167689 original size:76 final size:78
Alignment explanation
Indices: 49167593--49167757 Score: 217
Period size: 76 Copynumber: 2.1 Consensus size: 78
49167583 AGGCACGAAG
* * * * * *
49167593 GCCCGAATATAATACCAGCACTAGGCCTGCAGGATTTATCCCTGATATAATACCAGCACGAAGCC
1 GCCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCC
49167658 TACGGG-ATTTAA
66 TACGGGTATTTAA
**
49167670 -CCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATTTTACCAGCACGAAGCC
1 GCCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCC
* *
49167734 TGCGGGTCTTTAA
66 TACGGGTATTTAA
*
49167747 GCCCAGATACA
1 GCCCGGATACA
49167758 CATCAAATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
76 61 0.81
77 5 0.07
78 9 0.12
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (78 bp):
GCCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCC
TACGGGTATTTAA
Found at i:49173277 original size:14 final size:14
Alignment explanation
Indices: 49173258--49173284 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49173248 AGAAAATTGT
49173258 AGGAAGGGAAGAAA
1 AGGAAGGGAAGAAA
49173272 AGGAAGGGAAGAA
1 AGGAAGGGAAGAA
49173285 TGACAGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (14 bp):
AGGAAGGGAAGAAA
Found at i:49176829 original size:26 final size:26
Alignment explanation
Indices: 49176793--49176842 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
49176783 TGAAGGTGAT
49176793 CGTCTAAACCATTCTATTAAAACTGA
1 CGTCTAAACCATTCTATTAAAACTGA
49176819 CGTCTAAACCATTCTATTAAAACT
1 CGTCTAAACCATTCTATTAAAACT
49176843 AACCACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
CGTCTAAACCATTCTATTAAAACTGA
Found at i:49193327 original size:29 final size:29
Alignment explanation
Indices: 49193294--49193349 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
49193284 CTTCAAAAAT
49193294 AAATAAAAGA-AAAAATAG-AATTAAAATGG
1 AAATAAAA-ATAAAAATAGTAA-TAAAATGG
49193323 AAATAAAAATAAAAATAGTAATAAAAT
1 AAATAAAAATAAAAATAGTAATAAAAT
49193350 AAAGGGATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.04
29 22 0.88
30 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (29 bp):
AAATAAAAATAAAAATAGTAATAAAATGG
Found at i:49193464 original size:21 final size:21
Alignment explanation
Indices: 49193440--49193480 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49193430 CTGTAAAGTC
*
49193440 GCATCGATACTATCGAACCTT
1 GCATCAATACTATCGAACCTT
* *
49193461 GCATCAATACTGTTGAACCT
1 GCATCAATACTATCGAACCT
49193481 CCAAGCACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
GCATCAATACTATCGAACCTT
Found at i:49194948 original size:18 final size:18
Alignment explanation
Indices: 49194920--49194970 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
49194910 ATATAATGCA
49194920 AAATAATAATAATATAACT
1 AAATAA-AATAATATAACT
* *
49194939 AAATAAAATAATAAAATT
1 AAATAAAATAATATAACT
49194957 AAATTAAAA-AATAT
1 AAA-TAAAATAATAT
49194971 GAAGGGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAAATAATATAACT
Found at i:49195128 original size:33 final size:33
Alignment explanation
Indices: 49195065--49195128 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
49195055 GAGGCTGGGG
*
49195065 GCACGGGAGAAAGAGAGCACAGAGGGGGGTTAT
1 GCACGGGAGAAAGAGAGCACAGACGGGGGTTAT
* * *
49195098 GCACGGGAGAAAGAGGGCACGGACGTGGGTT
1 GCACGGGAGAAAGAGAGCACAGACGGGGGTT
49195129 TTATGGGTGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.30, C:0.14, G:0.47, T:0.09
Consensus pattern (33 bp):
GCACGGGAGAAAGAGAGCACAGACGGGGGTTAT
Found at i:49198066 original size:17 final size:19
Alignment explanation
Indices: 49198019--49198058 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
49198009 CATTTTATTT
49198019 AACATAAACTATATCTAAA
1 AACATAAACTATATCTAAA
49198038 AACATAAACTATATCTAAA
1 AACATAAACTATATCTAAA
49198057 AA
1 AA
49198059 TCAACTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (19 bp):
AACATAAACTATATCTAAA
Found at i:49198167 original size:13 final size:13
Alignment explanation
Indices: 49198149--49198180 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
49198139 GGAATTAAAT
49198149 TGACTTACCAAAG
1 TGACTTACCAAAG
49198162 TGACTTACCAAAG
1 TGACTTACCAAAG
49198175 TGACTT
1 TGACTT
49198181 TAAACCTTAA
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:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (13 bp):
TGACTTACCAAAG
Found at i:49200771 original size:20 final size:20
Alignment explanation
Indices: 49200730--49200777 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
49200720 TATCAGAAGA
* * *
49200730 AAAT-AAAAGAAAATTTAGT
1 AAATAAAAACAAAATTAAAT
49200749 AAATAAAAACAAAATTAAAT
1 AAATAAAAACAAAATTAAAT
*
49200769 AAAGAAAAA
1 AAATAAAAA
49200778 ATAATGACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (20 bp):
AAATAAAAACAAAATTAAAT
Found at i:49202754 original size:35 final size:35
Alignment explanation
Indices: 49202686--49202812 Score: 202
Period size: 35 Copynumber: 3.6 Consensus size: 35
49202676 AGTACATTGA
*
49202686 TAATCCAACCGAAACACACCAGATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCA-ATGCTCATAAGAGC
*
49202722 TAATCCATCCGGAACACACCAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
*
49202757 TAATCCATCCGGAACACACCAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
*
49202792 T-ATCCATCCAAAACACACCAA
1 TAATCCATCCGAAACACACCAA
49202813 AACAAAGAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
34 18 0.21
35 50 0.57
36 19 0.22
ACGTcount: A:0.40, C:0.32, G:0.12, T:0.16
Consensus pattern (35 bp):
TAATCCATCCGAAACACACCAATGCTCATAAGAGC
Found at i:49207911 original size:27 final size:25
Alignment explanation
Indices: 49207867--49207916 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
49207857 ATTAGCCAAC
49207867 TATAAAAATAAAAATTTCTAAAAAA
1 TATAAAAATAAAAATTTCTAAAAAA
49207892 TATAATAAATAAAAAATTTCTAAAA
1 TATAA-AAAT-AAAAATTTCTAAAA
49207917 TTTTAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
TATAAAAATAAAAATTTCTAAAAAA
Found at i:49211940 original size:28 final size:28
Alignment explanation
Indices: 49211903--49211956 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
49211893 AAAAGACTCA
49211903 AAAGCACAAGCTAAACTAAGCCATTCTC
1 AAAGCACAAGCTAAACTAAGCCATTCTC
49211931 AAAGCACAAGCTAAACTAAGCCATTC
1 AAAGCACAAGCTAAACTAAGCCATTC
49211957 AACACCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (28 bp):
AAAGCACAAGCTAAACTAAGCCATTCTC
Found at i:49219681 original size:7 final size:7
Alignment explanation
Indices: 49219669--49219700 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
49219659 TGCATAATTC
49219669 AAAATAA
1 AAAATAA
49219676 AAAATAA
1 AAAATAA
49219683 AAAATAA
1 AAAATAA
49219690 AAAATAA
1 AAAATAA
49219697 AAAA
1 AAAA
49219701 GGGGAGCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:49220118 original size:3 final size:3
Alignment explanation
Indices: 49220110--49220151 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
49220100 TCATCTTCCA
49220110 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
49220152 TCCGTTTATT
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:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:49229016 original size:18 final size:18
Alignment explanation
Indices: 49228993--49229036 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
49228983 ATAATGTTAT
*
49228993 ATAATATTAATTTAATTA
1 ATAATATTAAGTTAATTA
*
49229011 ATAATATTAAGTTATTTA
1 ATAATATTAAGTTAATTA
*
49229029 ATTATATT
1 ATAATATT
49229037 GGATGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATAATATTAAGTTAATTA
Found at i:49235642 original size:25 final size:24
Alignment explanation
Indices: 49235606--49235656 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
49235596 CACACAAGTC
49235606 TTTTCCCTATTTCTCTC-TTCTTT
1 TTTTCCCTATTTCTCTCTTTCTTT
* *
49235629 TTTTCTCCTTATTTTTTTCTTTCTTT
1 TTTTC-CC-TATTTCTCTCTTTCTTT
49235655 TT
1 TT
49235657 CACGGCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 2 0.09
25 8 0.35
26 8 0.35
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCCCTATTTCTCTCTTTCTTT
Found at i:49235645 original size:14 final size:15
Alignment explanation
Indices: 49235615--49235653 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
49235605 CTTTTCCCTA
*
49235615 TTTCTCTCTTCTTTT
1 TTTCTCTCTTATTTT
49235630 TTTCTC-CTTATTTT
1 TTTCTCTCTTATTTT
*
49235644 TTTCTTTCTT
1 TTTCTCTCTT
49235654 TTTCACGGCT
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:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTCTCTTATTTT
Found at i:49235721 original size:17 final size:15
Alignment explanation
Indices: 49235695--49235732 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
49235685 GCAATAGCAG
49235695 CTCTTTTCTTTC-TT
1 CTCTTTTCTTTCTTT
*
49235709 CT-TTCTCTTTCTTT
1 CTCTTTTCTTTCTTT
49235723 CTCTTTTCTT
1 CTCTTTTCTT
49235733 CACTCGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CTCTTTTCTTTCTTT
Found at i:49238790 original size:14 final size:14
Alignment explanation
Indices: 49238771--49238802 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
49238761 AGGTCATTTA
49238771 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
49238785 GCCCAACCAAACTG
1 GCCCAACCAAACGG
49238799 GCCC
1 GCCC
49238803 GGTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:49239370 original size:43 final size:44
Alignment explanation
Indices: 49239303--49239431 Score: 147
Period size: 43 Copynumber: 3.0 Consensus size: 44
49239293 TGACACTAGG
* * * *
49239303 ATGTGCAGGAGCCCCGGACACCATCGGCAAACTAAGCCCTTGGT
1 ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
* * ** *
49239347 AT-TGCAGGAGCCTCGGGCGCCATCGGC-ACCTCGGTGCTTCG-
1 ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
*
49239388 ATGTGCGGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
1 ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
49239432 CGTGCGGGGG
Statistics
Matches: 67, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
41 2 0.03
42 31 0.46
43 32 0.48
44 2 0.03
ACGTcount: A:0.18, C:0.33, G:0.32, T:0.18
Consensus pattern (44 bp):
ATGTGCAGGAGCCTCGGGCACCATCGGCAACCTAGGCCCTTGGT
Done.