Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 73 of 378
Found at i:19309522 original size:20 final size:20
Alignment explanation
Indices: 19309499--19309547 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
19309489 CACAGAACAA
*
19309499 AACAAAATAGAACAGAGTAG
1 AACAAAACAGAACAGAGTAG
19309519 AACAAAACAGAACAGAGTAG
1 AACAAAACAGAACAGAGTAG
*
19309539 AACAGAACA
1 AACAAAACA
19309548 AGAAATGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.61, C:0.14, G:0.18, T:0.06
Consensus pattern (20 bp):
AACAAAACAGAACAGAGTAG
Found at i:19309543 original size:10 final size:10
Alignment explanation
Indices: 19309506--19309544 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
19309496 CAAAACAAAA
19309506 TAGAACAGAG
1 TAGAACAGAG
* *
19309516 TAGAACAAAA
1 TAGAACAGAG
*
19309526 CAGAACAGAG
1 TAGAACAGAG
19309536 TAGAACAGA
1 TAGAACAGA
19309545 ACAAGAAATG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.56, C:0.13, G:0.23, T:0.08
Consensus pattern (10 bp):
TAGAACAGAG
Found at i:19311486 original size:31 final size:31
Alignment explanation
Indices: 19311442--19311501 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
19311432 ATTTCACATA
* * *
19311442 CCCGTGTGGACTACCTATGTGGGCCCACACG
1 CCCGTATGCACTACCCATGTGGGCCCACACG
*
19311473 CCCGTATGCACTACCCGTGTGGGCCCACA
1 CCCGTATGCACTACCCATGTGGGCCCACA
19311502 TGCTCGTGTG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.17, C:0.38, G:0.27, T:0.18
Consensus pattern (31 bp):
CCCGTATGCACTACCCATGTGGGCCCACACG
Found at i:19314099 original size:2 final size:2
Alignment explanation
Indices: 19314092--19314136 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
19314082 GTGAATTTCC
19314092 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19314134 AT A
1 AT A
19314137 CCGATTGCAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19318913 original size:30 final size:30
Alignment explanation
Indices: 19318874--19318934 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
19318864 TGATCTCGGG
*
19318874 TACGAGTAAGGGGTGTTACATTTAGTGGTA
1 TACGAGTAAGAGGTGTTACATTTAGTGGTA
*
19318904 TACGGGTAAGAGGTGTTACATTTAGTGGTA
1 TACGAGTAAGAGGTGTTACATTTAGTGGTA
19318934 T
1 T
19318935 CAGAGCTACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.07, G:0.33, T:0.34
Consensus pattern (30 bp):
TACGAGTAAGAGGTGTTACATTTAGTGGTA
Found at i:19335218 original size:12 final size:12
Alignment explanation
Indices: 19335198--19335231 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
19335188 TTTTGGCACG
*
19335198 GCCTAGCACATA
1 GCCTGGCACATA
19335210 GCCTGGCACATA
1 GCCTGGCACATA
19335222 GCCTGGCACA
1 GCCTGGCACA
19335232 CGGGCTGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.26, C:0.35, G:0.24, T:0.15
Consensus pattern (12 bp):
GCCTGGCACATA
Found at i:19335399 original size:42 final size:42
Alignment explanation
Indices: 19335351--19335446 Score: 147
Period size: 42 Copynumber: 2.3 Consensus size: 42
19335341 ACGGCCTGTG
* * *
19335351 ACACGGGCGTGTCTTTGGCCGTGTGAGACACACGGTCGGGCC
1 ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCGAGCC
*
19335393 ACACGGGCTTGTCTTTGGCCATGTGAGACACACGGCCGAGCC
1 ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCGAGCC
*
19335435 ACATGGGCGTGT
1 ACACGGGCGTGT
19335447 GTCCCCTGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 48 1.00
ACGTcount: A:0.17, C:0.28, G:0.35, T:0.20
Consensus pattern (42 bp):
ACACGGGCGTGTCTTTGGCCATGTGAGACACACGGCCGAGCC
Found at i:19340445 original size:49 final size:49
Alignment explanation
Indices: 19340332--19340432 Score: 202
Period size: 49 Copynumber: 2.1 Consensus size: 49
19340322 TATATCAAAG
19340332 TATGCTTAACACTATTCATTGCAATGGCTAGTTACAACCAAAATAATTT
1 TATGCTTAACACTATTCATTGCAATGGCTAGTTACAACCAAAATAATTT
19340381 TATGCTTAACACTATTCATTGCAATGGCTAGTTACAACCAAAATAATTT
1 TATGCTTAACACTATTCATTGCAATGGCTAGTTACAACCAAAATAATTT
19340430 TAT
1 TAT
19340433 CATTTAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 52 1.00
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.36
Consensus pattern (49 bp):
TATGCTTAACACTATTCATTGCAATGGCTAGTTACAACCAAAATAATTT
Found at i:19341207 original size:25 final size:25
Alignment explanation
Indices: 19341152--19341211 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
19341142 TGTTCAAGCG
*
19341152 AGCC-ATATCAGGAAGCTCACAAAG
1 AGCCTATATCAGGAAGCTCACAAAA
* *
19341176 AGCCTATATCAGGATGCTCATAAAA
1 AGCCTATATCAGGAAGCTCACAAAA
**
19341201 ATTCTATATCA
1 AGCCTATATCA
19341212 AGACACTCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 4 0.13
25 26 0.87
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (25 bp):
AGCCTATATCAGGAAGCTCACAAAA
Found at i:19343017 original size:16 final size:16
Alignment explanation
Indices: 19342996--19343026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19342986 CGTGTTATAG
19342996 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
19343012 CATATATATTTGAAA
1 CATATAAATTTGAAA
19343027 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:19345119 original size:28 final size:28
Alignment explanation
Indices: 19345084--19345145 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
19345074 ATATTTAAAC
*
19345084 AATA-AAAATAAAAATAAAATTA-TATAA
1 AATATAAAATAAAAA-AAAATTAGCATAA
**
19345111 AATATAAAATTCAAAAAAATTAGCATAA
1 AATATAAAATAAAAAAAAATTAGCATAA
19345139 AATATAA
1 AATATAA
19345146 TTAGACTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.26
Consensus pattern (28 bp):
AATATAAAATAAAAAAAAATTAGCATAA
Found at i:19347638 original size:25 final size:24
Alignment explanation
Indices: 19347599--19347651 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 24
19347589 TTAGTTTTAC
19347599 TTTTTTTTATATATTATATTAGGT
1 TTTTTTTTATATATTATATTAGGT
*
19347623 TTTTATTTTATCTATTATATTAGGT
1 TTTT-TTTTATATATTATATTAGGT
19347648 TTTT
1 TTTT
19347652 GTTTCCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (24 bp):
TTTTTTTTATATATTATATTAGGT
Found at i:19354800 original size:17 final size:19
Alignment explanation
Indices: 19354778--19354812 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
19354768 GATATGATAC
19354778 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
19354795 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
19354813 ATCAAGGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:19355103 original size:22 final size:21
Alignment explanation
Indices: 19355068--19355143 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
19355058 AAAAGGTATC
* *
19355068 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
19355089 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
19355112 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
19355131 TGC-AATCATATCT
1 TACAAATCATATCT
19355144 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:19355160 original size:35 final size:37
Alignment explanation
Indices: 19355097--19355175 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
19355087 ATTACAAAAT
19355097 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
19355133 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
19355168 CATATCAT
1 CATATCAT
19355176 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:19355173 original size:14 final size:15
Alignment explanation
Indices: 19355118--19355173 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
19355108 AGATTGCATA
19355118 TCATATCTAAGATTG
1 TCATATCTAAGATTG
19355133 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
19355151 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
19355168 -CATATC
1 TCATATC
19355174 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:19355183 original size:17 final size:19
Alignment explanation
Indices: 19355104--19355175 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
19355094 AATCATATCT
19355104 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
19355123 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
19355141 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
19355158 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
19355176 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:19355331 original size:21 final size:20
Alignment explanation
Indices: 19355293--19355332 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
19355283 CTTGAACTTC
**
19355293 ATTTTTTTTTTGGTTTATTA
1 ATTTTTTTTTTGACTTATTA
19355313 ATTTTATTTTTTGACTTATT
1 ATTTT-TTTTTTGACTTATT
19355333 TCTGGGCTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.72
Consensus pattern (20 bp):
ATTTTTTTTTTGACTTATTA
Found at i:19357275 original size:12 final size:12
Alignment explanation
Indices: 19357258--19357288 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
19357248 ATTTAGGGAA
19357258 GAAGGTGAGAAC
1 GAAGGTGAGAAC
19357270 GAAGGTGAGAAC
1 GAAGGTGAGAAC
19357282 GAAGGTG
1 GAAGGTG
19357289 GAGATGTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.39, C:0.06, G:0.45, T:0.10
Consensus pattern (12 bp):
GAAGGTGAGAAC
Found at i:19362321 original size:48 final size:50
Alignment explanation
Indices: 19362228--19362331 Score: 124
Period size: 48 Copynumber: 2.1 Consensus size: 50
19362218 CCTTATTTAA
19362228 TTATTTCTTTATTCTTTATTCCTTATTTATCATTATTAGTATATTA-T-G
1 TTATTTCTTTATTCTTTATTCCTTATTTATCATTATTAGTATATTATTAG
* ** * **
19362276 TTATTTCTTTATTGTTTATTGTTTATTT-TTATTATTCTTATTATTATTAG
1 TTATTTCTTTATTCTTTATTCCTTATTTATCATTATTAGTA-TATTATTAG
19362326 TTATTT
1 TTATTT
19362332 GAATTATCTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 9 0.19
48 30 0.64
49 1 0.02
50 7 0.15
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.67
Consensus pattern (50 bp):
TTATTTCTTTATTCTTTATTCCTTATTTATCATTATTAGTATATTATTAG
Found at i:19364022 original size:6 final size:6
Alignment explanation
Indices: 19364011--19364061 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
19364001 TTTTATTCTA
* *
19364011 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
19364059 TTT
1 TTT
19364062 CTTAGACTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (6 bp):
TTTTAT
Found at i:19371359 original size:15 final size:16
Alignment explanation
Indices: 19371332--19371361 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19371322 AAAAAAAATC
19371332 AAAAAATATAAATTTT
1 AAAAAATATAAATTTT
19371348 AAAAAATA-AAATTT
1 AAAAAATATAAATTT
19371362 AATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATATAAATTTT
Found at i:19373283 original size:16 final size:16
Alignment explanation
Indices: 19373241--19373291 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
19373231 TATTGGTTAA
19373241 AATA-ATTTATTATTTT
1 AATATATTT-TTATTTT
*
19373257 ACTAT-TATTTTATTTT
1 AATATAT-TTTTATTTT
*
19373273 AATATATTTTTATATT
1 AATATATTTTTATTTT
19373289 AAT
1 AAT
19373292 TAATGATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
AATATATTTTTATTTT
Found at i:19377815 original size:16 final size:16
Alignment explanation
Indices: 19377794--19377826 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19377784 AAAGTGAAAC
19377794 TATAAAACCACTCAAG
1 TATAAAACCACTCAAG
19377810 TATAAAACCACTCAAG
1 TATAAAACCACTCAAG
19377826 T
1 T
19377827 CGAGAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
TATAAAACCACTCAAG
Found at i:19383039 original size:43 final size:43
Alignment explanation
Indices: 19382983--19383105 Score: 140
Period size: 43 Copynumber: 2.9 Consensus size: 43
19382973 CATATATCGT
* * * * *
19382983 TGCCACTGCCCCAGACAGGGTCTTACACGAAATCGATGA-ACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATC-ATAATACAA
* *
19383026 TGCCAATGTCCCAGACATGGTCTTACACGTAATCTTAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACAA
* * *
19383069 TGTCAATGTCCCAGACATGGTCTTACATGTAATCATA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCATA
19383106 TCTTGATGAG
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 2 0.03
43 67 0.97
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAATCATAATACAA
Found at i:19388178 original size:38 final size:38
Alignment explanation
Indices: 19388136--19388429 Score: 158
Period size: 38 Copynumber: 7.0 Consensus size: 38
19388126 TTTCAAAGTA
*
19388136 ACATGTATAACCATGGCATATTCACTTAGCACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
* *
19388174 ACATGTTTAACCATGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* ** *
19388215 GAATCAATATATGTAACTGTGGCATATCCACTCAGCACCACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
* * * *
19388259 ACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAAT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACG-T--T
* *
19388300 GAATCAATATATGTAACCATGGCATATCCACTTAGCACTACGTT
1 --A-C-ATGTA--TAACCATGGCATATCCACTTAGCACCACGTT
*
19388344 ACATGTATCAA-TATGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTAT-AACCATG-G----C-----ATATCCACTTAGCACCACGTT
* * * *
19388392 ACACGTATAACCGTGGTATATCCACTTAACACCACGTT
1 ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
19388430 TTTTCATTCC
Statistics
Matches: 198, Mismatches: 28, Indels: 60
0.69 0.10 0.21
Matches are distributed among these distances:
38 83 0.42
39 5 0.03
40 7 0.04
41 4 0.02
42 2 0.01
43 3 0.02
44 4 0.02
45 6 0.03
46 2 0.01
47 53 0.27
48 29 0.15
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCATGGCATATCCACTTAGCACCACGTT
Found at i:19388252 original size:85 final size:85
Alignment explanation
Indices: 19388143--19388349 Score: 342
Period size: 85 Copynumber: 2.4 Consensus size: 85
19388133 GTAACATGTA
* *
19388143 TAACCATGGCATATTCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTTAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTGAGCACCA
19388208 CGCTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
** * *
19388228 TAACTGTGGCATATCCACTCAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTGAGCACCA
*
19388293 CGTTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
*
19388313 TAACCATGGCATATCCACTTAGCACTACGTTACATGT
1 TAACCATGGCATATCCACTTAGCACCACGTTACATGT
19388350 ATCAATATGT
Statistics
Matches: 111, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
85 111 1.00
ACGTcount: A:0.31, C:0.25, G:0.14, T:0.29
Consensus pattern (85 bp):
TAACCATGGCATATCCACTTAGCACCACGTTACATGTTTAACCATGGTATATCCACTGAGCACCA
CGCTAATGAATCAATATATG
Found at i:19388375 original size:48 final size:48
Alignment explanation
Indices: 19388261--19388399 Score: 190
Period size: 48 Copynumber: 2.9 Consensus size: 48
19388251 ACCACGTTAC
* * *
19388261 ATGTTTAACCGTGGTATATCCACTGAGCACCACGTTA-ATGAATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* * * *
19388308 ATATGTAACCATGGCATATCCACTTAGCACTACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
* *
19388356 ATGTGTAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
19388400 AACCGTGGTA
Statistics
Matches: 78, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
47 31 0.40
48 47 0.60
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAAT
Found at i:19388425 original size:133 final size:132
Alignment explanation
Indices: 19388181--19388429 Score: 374
Period size: 133 Copynumber: 1.9 Consensus size: 132
19388171 GTTACATGTT
*
19388181 TAACCATGGTATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACTGTGGCATATCCAC
1 TAACCATGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACTGTGGCATATCCAC
* * *
19388246 TCAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
66 TCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATA
19388311 TG
131 TG
* * * * *
19388313 TAACCATGGCATATCCACTTAGCACTACGTTACATGTATCAATATGTGTAA-TCGTGGTATATCC
1 TAACCATGGCATATCCACTTAGCACCACGCTA-ATGAATCAATATATGTAACT-GTGGCATATCC
* *
19388377 ACTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAACACCACGTT
64 ACTCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAACACCACGTT
19388430 TTTTCATTCC
Statistics
Matches: 104, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
132 30 0.29
133 74 0.71
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (132 bp):
TAACCATGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACTGTGGCATATCCAC
TCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATA
TG
Found at i:19393960 original size:38 final size:38
Alignment explanation
Indices: 19393918--19394211 Score: 192
Period size: 38 Copynumber: 7.0 Consensus size: 38
19393908 TTTCAAAGTA
* *
19393918 ACATGTATAACCATGGCATATTCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
19393956 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
19393997 GAATCAATATATGTAACCGTGGCATATCCACTCAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * * *
19394041 ACATGTTTAACCGTGGTATATCCACTGAACACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
19394082 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
** *
19394126 ACATGGATCAATTTGTGTAATTGTGGTATATCCACTTAGCACCACGTT
1 ACAT-G-T--A------TAACCGTGGCATATCCACTTAGCACCACGTT
* *
19394174 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
19394212 TTTTCATTCC
Statistics
Matches: 205, Mismatches: 25, Indels: 52
0.73 0.09 0.18
Matches are distributed among these distances:
38 87 0.42
39 2 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 2 0.01
44 6 0.03
45 6 0.03
46 3 0.01
47 54 0.26
48 33 0.16
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:19394017 original size:47 final size:47
Alignment explanation
Indices: 19393963--19394174 Score: 244
Period size: 47 Copynumber: 4.7 Consensus size: 47
19393953 GTTACATGTT
*
19393963 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
19394010 TAACCGTGGCATATCCACTCAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
19394048 TAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
19394095 TAACCGTGGCATATCCACTTAGCACCACGTTACATGGATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
**
19394143 TAATTGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
19394175 CACGTATAAC
Statistics
Matches: 139, Mismatches: 16, Indels: 19
0.80 0.09 0.11
Matches are distributed among these distances:
38 26 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 56 0.40
48 41 0.29
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:19394023 original size:85 final size:85
Alignment explanation
Indices: 19393925--19394130 Score: 358
Period size: 85 Copynumber: 2.4 Consensus size: 85
19393915 GTAACATGTA
* * * *
19393925 TAACCATGGCATATTCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAACACCA
19393990 CGCTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
*
19394010 TAACCGTGGCATATCCACTCAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAACACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAACACCA
*
19394075 CGTTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
19394095 TAACCGTGGCATATCCACTTAGCACCACGTTACATG
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATG
19394131 GATCAATTTG
Statistics
Matches: 114, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 114 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAACACCA
CGCTAATGAATCAATATATG
Found at i:19394157 original size:48 final size:48
Alignment explanation
Indices: 19394048--19394176 Score: 179
Period size: 48 Copynumber: 2.7 Consensus size: 48
19394038 GTTACATGTT
* *
19394048 TAACCGTGGTATATCCACTGAACACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
* * * *
19394095 TAACCGTGGCATATCCACTTAGCACCACGTTACATGGATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
**
19394143 TAATTGTGGTATATCCACTTAGCACCACGTTACA
1 TAACCGTGGTATATCCACTTAGCACCACGTTACA
19394177 CGTATAACCG
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
47 29 0.40
48 43 0.60
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.29
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAATATATG
Found at i:19394207 original size:133 final size:132
Alignment explanation
Indices: 19393963--19394211 Score: 372
Period size: 133 Copynumber: 1.9 Consensus size: 132
19393953 GTTACATGTT
*
19393963 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
* *
19394028 TCAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATA
66 TCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATA
19394093 TG
131 TG
* * * * ** *
19394095 TAACCGTGGCATATCCACTTAGCACCACGTTACATGGATCAATTTGTGTAATTGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGCTA-ATGAATCAATATATGTAACCGTGGCATATCCA
* * *
19394160 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
65 CTCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAACACCACGTT
19394212 TTTTCATTCC
Statistics
Matches: 103, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
132 30 0.29
133 73 0.71
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
TCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAACACCACGTTAATGAATCAATATA
TG
Found at i:19404494 original size:3 final size:3
Alignment explanation
Indices: 19404488--19404608 Score: 111
Period size: 3 Copynumber: 39.3 Consensus size: 3
19404478 TGAATTTCTA
* * *
19404488 TAT TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * * * *
19404534 GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT CAT
1 -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
19404581 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
19404609 TATAAATATT
Statistics
Matches: 98, Mismatches: 13, Indels: 14
0.78 0.10 0.11
Matches are distributed among these distances:
2 3 0.03
3 86 0.88
4 9 0.09
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:19417239 original size:72 final size:72
Alignment explanation
Indices: 19417153--19418505 Score: 632
Period size: 72 Copynumber: 18.0 Consensus size: 72
19417143 GTATTTTGAT
* * *
19417153 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
19417218 TGAGGTA
66 TGAGGTA
* *
19417225 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
19417290 TGAGGTA
66 TGAGGTA
* *
19417297 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
19417362 TGAGGTA
66 TGAGGTA
* * * * * *
19417369 ATTTCAATTTCTGTTTACAAAATTCAACTCAGATTACGAGAAATGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
19417434 TGAGGT-
66 TGAGGTA
* * * **
19417440 ATTTTCAATTTCTGTTTTTCAAACAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
1 ATTTT-AATTTCT-ATTTT----C-AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
19417505 GACACGTTGAGGTA
59 GACACGCTGAGGTA
* * * *
19417519 ATTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
19417584 TGAGGT-
66 TGAGGTA
* * * **
19417590 ATTTTCAATTTTTATCTTTCAAAAAAAAAAATT-AACTCATAATGTGAGAGGTGAGTTGAGCCTC
1 ATTTT-AATTTCTAT-TTTC-------AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTC
* *
19417654 -GGGCACGCTGAGGT-
57 AAGACACGCTGAGGTA
** ** * ** * * * * *
19417668 ATTGGCAATTT-T-TGTTTCTTAATTTATGTTTCAAAATT-CAACTCATATTGCGAGAAATGAG-
1 ATT-TTAATTTCTAT-TTTCAAAATTCA--ACTC-ATATTGCGA--GA-AAT--GAG--TTGAGC
** * * ** **
19417729 -TTGAGCCTCAAGACACATTGAGGT
54 CTCAAG--ACACG-CTGA--G-GTA
* * * * *
19417753 AATTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCAAGAAATGAGTTGAGCCTCAAGACATG
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
19417818 CTGAGGT-
65 CTGAGGTA
* * * *** *
19417825 ATTTTCAATTTCTGTTTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGCGAGTTGAGCCTCAG
1 ATTTT-AATTTCT-ATTTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
19417890 GGCACGCTGAGGTA
59 GACACGCTGAGGTA
* * * * * *
19417904 ATTTCAATTTCTATTTTCAAAATTCAACTCATATTGCAAGTAGTGAGTTGAACCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
19417969 TGAGGT-
66 TGAGGTA
* * * ** * **
19417975 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGTTCAC
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---AC
*
19418039 ATGCTGAGGT-
62 ACGCTGAGGTA
* ** **
19418049 ATTTTCAATTTCTATCTTTCAAAAAAAAATT-AACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 ATTTT-AATTTCTAT-TTTC-----AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
*
19418113 GGCACGCTGAGGTATTGGCA
59 GACACGCTGAGG---T---A
** * *** * * * ** * **
19418133 ATTTTTGTTTCTTAATTT-ATGTTTCAAAATTCA-ACT-C-ATATTGTGAGAAATGAG--TTGAG
1 ATTTTAATTTC-TATTTTCAAAATTC--AACTCATATTGCGAGA-AATGAG--TTGAGCCTCAAG
* * * * **
19418192 CCTCAAGACACGTTGAGGT
60 --ACACG-C-TG-AG-GTA
* * * * *
19418211 AATTTCAATTTCTGTTTTCAAAATTCAACTCAGATAGCGAGAAATGAGTTGAGCCTCAAGACATG
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
19418276 CTGAGGT-
65 CTGAGGTA
* * * *
19418283 ATTTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTAAACCTCAAGACACG
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*
19418348 TTGAGGT-
65 CTGAGGTA
* * * ** *
19418355 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---AC
* *
19418419 ATGTTGAGGT-
62 ACGCTGAGGTA
* * * ** *
19418429 ATTTTCAATTTCTATCTTTCAAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCAGGA
1 ATTTT-AATTTCTAT-TTTC---AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGA
*
19418494 CACACTGAGGTA
61 CACGCTGAGGTA
19418506 TTGGAAATTT
Statistics
Matches: 993, Mismatches: 191, Indels: 189
0.72 0.14 0.14
Matches are distributed among these distances:
69 4 0.00
70 1 0.00
71 14 0.01
72 480 0.48
73 18 0.02
74 50 0.05
75 10 0.01
76 17 0.02
77 48 0.05
78 176 0.18
79 92 0.09
80 31 0.03
81 5 0.01
82 2 0.00
83 13 0.01
84 14 0.01
85 7 0.01
86 10 0.01
87 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
TGAGGTA
Found at i:19417524 original size:150 final size:145
Alignment explanation
Indices: 19417166--19418823 Score: 1337
Period size: 150 Copynumber: 11.0 Consensus size: 145
19417156 TTTATTTCTA
* * * **
19417166 TTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* * *
19417231 ATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
66 ATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
* *
19417296 AATTTT-TATTTCT-A
131 -ATTTTCAATTTCTGT
* *
19417310 TTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* * *
19417375 ATTTCTGTTTACAAAATTCAACTCAGATTACGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
66 ATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
19417440 ATTTTCAATTTCTGT
131 ATTTTCAATTTCTGT
* *
19417455 TTTTCAAACAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 TTTT----C-AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAA
* * *
19417520 TTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCT
61 TTTCAATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* *
19417585 GAGGTATTTTCAATTTTTAT
126 GAGGTATTTTCAATTTCTGT
* * * * * * * *
19417605 CTTTCAAAAAAAAAAATTAACTCATAATGTGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGTA
1 TTTTC------AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG--
*
19417669 TTGGCAATTTTTGTTTCTTAATTTATGTTT-CAAAATTCAACTCATATTGCGAGAAATGAGTTGA
58 -T---AA------TTTC--AATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGA
** *
19417733 GCCTCAAGACACATTGAGGTAATTTCAATTTCTG-
111 GCCTCAAGACACGCTGAGGTATTTTCAATTTCTGT
* * * * * * *
19417767 TTTTCAAAATTCAACTCAGATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* * * *** * *
19417832 ATTTCTGTTTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGGCACGC
66 ATTTCTG--TTT----ACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
* *
19417897 TGAGGTAATTTCAATTTCT-A
125 TGAGGTATTTTCAATTTCTGT
* * * * *
19417917 TTTTCAAAATTCAACTCATATTGCAAGTAGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* * * ** * ** *
19417982 ATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGTTCACATGCTGA
66 ATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACGCTGA
*
19418046 GGTATTTTCAATTTCTAT
128 GGTATTTTCAATTTCTGT
* * * * ** * *
19418064 CTTTCAAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATT
1 TTTTC----AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGG---T
* *
19418129 GGCAATTTTTGTTTCTTAATTTATGTTT-CAAAATTCAACTCATATTGTGAGAAATGAGTTGAGC
59 ---AA------TTTC--AATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGC
* *
19418193 CTCAAGACACGTTGAGGTAATTTCAATTTCTG-
113 CTCAAGACACGCTGAGGTATTTTCAATTTCTGT
* * * * * * *
19418225 TTTTCAAAATTCAACTCAGATAGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
* * * * *
19418290 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTAAACCTCAAGACACGTTGAGGT
66 ATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
*
19418355 ATTTTCAATTTATG-
131 ATTTTCAATTTCTGT
* * * *
19418369 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGTTGAGGTATTT
1 TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAG---ACACGTTGAGGTAATT
* * * * * ** * *
19418433 TCAATTTCTATCTTTCAAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCAGGACACA
63 TCAATTTC--TGTTT--ACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACG
*** *
19418498 CTGAGGTATTGGAAATTTTTGTTTCTTAATTT
124 CTGAGGTA-T-----TTTCAATTTC----TGT
* * *
19418530 ATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTAATTT
1 -T-TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
* * * * *
19418595 GAATTTCTGTTTTCAAAAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTG
64 CAATTTCTG-TTT-ACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
*
19418660 AGGTATTTTCAATTTTTGT
127 AGGTATTTTCAATTTCTGT
* * * * * **
19418679 CTTTCAAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAGGACGCACTGAGGTAATTT
1 TTTTC--AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTT
* * ** * * *
19418742 TAATTTCTGTTTTTA-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTG
64 CAATTTCTG--TTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
19418806 AGGTATTTTCAATTTCTG
127 AGGTATTTTCAATTTCTG
19418824 CTTTCCAATT
Statistics
Matches: 1245, Mismatches: 185, Indels: 166
0.78 0.12 0.10
Matches are distributed among these distances:
143 25 0.02
144 261 0.21
145 15 0.01
146 105 0.08
147 53 0.04
148 11 0.01
149 14 0.01
150 310 0.25
151 79 0.06
153 7 0.01
154 3 0.00
156 38 0.03
157 52 0.04
158 1 0.00
159 50 0.04
160 4 0.00
161 26 0.02
162 31 0.02
163 104 0.08
164 44 0.04
165 12 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (145 bp):
TTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
ATTTCTGTTTACAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGT
ATTTTCAATTTCTGT
Found at i:19417735 original size:84 final size:85
Alignment explanation
Indices: 19417520--19418685 Score: 250
Period size: 72 Copynumber: 15.1 Consensus size: 85
19417510 GTTGAGGTAA
* * *
19417520 TTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCT
1 TTTCAATTTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
**
19417585 GAGGTATTTTCAATTTTTATC
65 GAGGTATTGGCAATTTTTATC
**** * * ** * *
19417606 TTTCAA---A--AAAAAAAATT-AACTCATAATGTGAGAGGTGAGTTGAGCCTC-GGGCACGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
*
19417664 AGGTATTGGCAATTTTTGT-
66 AGGTATTGGCAATTTTTATC
* **
19417683 TTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATT
1 TT-TCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* * *
19417748 GAGGTAATT-TCAATTTCTGT-
65 GAGGT-ATTGGCAATTTTTATC
* * *
19417768 TTTC-----A------A-AATTCAACTCAGATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
** * * *
19417821 AGGTATTTTCAATTTCTGTT
66 AGGTATTGGCAATTTTTATC
** * * *** * *
19417841 TTTCAA---A----AAAAAAATCGACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGGCACGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
* *
19417899 AGGTAATT-TCAATTTCTAT-
66 AGGT-ATTGGCAATTTTTATC
* * * * *
19417918 TTTC-----A-------AAATTCAACTCATATTGCAAGTAGTGAGTTGAACCTCAAGACACGTTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
**
19417971 AGGTATTTTCAA--TTTAT-
66 AGGTATTGGCAATTTTTATC
* * ** * ** *
19417988 GTT---TTCA------AAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGTTCACATG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACG
** *
19418042 CTGAGGTATTTTCAATTTCTATC
63 CTGAGGTATTGGCAATTTTTATC
** * ** ** *
19418065 TTTCAA---A----AAAAAATT-AACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
*
19418122 AGGTATTGGCAATTTTTGT-
66 AGGTATTGGCAATTTTTATC
* * *
19418141 TTCTTAATTTATGTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTT
1 TT-TCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* * *
19418206 GAGGTAATT-TCAATTTCTGT-
65 GAGGT-ATTGGCAATTTTTATC
* * *
19418226 TTTC-----A------A-AATTCAACTCAGATAGCGAGAAATGAGTTGAGCCTCAAGACATGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
** * *
19418279 AGGTATTTTCAATTTCTGT-
66 AGGTATTGGCAATTTTTATC
* * * *
19418298 TTTC-----A------A-AATTCAACTCATATTGCGAGTAATGAGTTAAACCTCAAGACACGTTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
**
19418351 AGGTATTTTCAA--TTTAT-
66 AGGTATTGGCAATTTTTATC
* * ** * *
19418368 GTT---TTCA------AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG---ACACG
* ** *
19418422 TTGAGGTATTTTCAATTTCTATC
63 CTGAGGTATTGGCAATTTTTATC
* * * ** * *
19418445 TTTCAA---A------AAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCAGGACACACTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
* *
19418501 AGGTATTGGAAATTTTTGT-
66 AGGTATTGGCAATTTTTATC
* * *
19418520 TTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTT
1 TT-TCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* * *
19418585 GAGGTAATTTG-AATTTCTGT-
65 GAGGT-ATTGGCAATTTTTATC
* *
19418605 TTTCAA---A------AAAA-TCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
** *
19418660 AGGTATTTTCAATTTTTGTC
66 AGGTATTGGCAATTTTTATC
19418680 TTTCAA
1 TTTCAA
19418686 AAAAATCAAC
Statistics
Matches: 861, Mismatches: 145, Indels: 159
0.74 0.12 0.14
Matches are distributed among these distances:
70 11 0.01
71 11 0.01
72 276 0.32
73 15 0.02
74 91 0.11
75 14 0.02
76 32 0.04
77 41 0.05
78 108 0.13
79 66 0.08
80 10 0.01
81 2 0.00
83 6 0.01
84 38 0.04
85 124 0.14
86 16 0.02
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.34
Consensus pattern (85 bp):
TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
AGGTATTGGCAATTTTTATC
Found at i:19417895 original size:235 final size:234
Alignment explanation
Indices: 19417473--19418305 Score: 1223
Period size: 235 Copynumber: 3.6 Consensus size: 234
19417463 CAAAAAATCG
**
19417473 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
1 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
*
19417538 AAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTT
66 AAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
*
19417603 ATCTTTCAAAAAAAAAAATTAACTCATAATGTGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGT
131 ATCTTTC-AAAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGT
19417668 ATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCA
195 ATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCA
*
19417708 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTTTCA
1 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
*
19417773 AAATTCAACTCAGATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
66 AAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
* * ** * *
19417838 GTTTTTCAAAAAAAAAATCGACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGGCACGCTGAGGT
131 ATCTTTCAAAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGAGGT
*
19417903 AATT-TCAA------TTTC------TAT-TTTCAAAATTCA
195 -ATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCA
* * * * * *
19417930 ACTCATATTGCAAGTAGTGAGTTGAACCTCAAGACACGTTGAGGTATTTTCAATTTATGTTTTCA
1 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
* * ** * **
19417995 AAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCT-TGGTTCACATGCTGAGGTATTTTCAATT
66 AAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAG---ACATGCTGAGGTATTTTCAATT
19418059 TCTATCTTTC-AAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
128 TCTATCTTTCAAAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGCACGCTGA
19418123 GGTATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCA
192 GGTATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCA
*
19418166 ACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
1 ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
*
19418231 AAATTCAACTCAGATAGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
66 AAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
*
19418296 GT-TTTCAAAA
131 ATCTTTCAAAA
19418306 TTCAACTCAT
Statistics
Matches: 525, Mismatches: 52, Indels: 43
0.85 0.08 0.07
Matches are distributed among these distances:
221 1 0.00
222 103 0.20
223 58 0.11
224 30 0.06
229 8 0.02
233 4 0.01
234 67 0.13
235 150 0.29
236 103 0.20
237 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (234 bp):
ACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCA
AAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCT
ATCTTTCAAAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTA
TTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCA
Found at i:19418231 original size:385 final size:367
Alignment explanation
Indices: 19417159--19418822 Score: 1705
Period size: 385 Copynumber: 4.4 Consensus size: 367
19417149 TGATATTTTT
* *
19417159 ATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* * * * ** * *
19417224 AATTTT-TATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACAC
66 -ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGGCAC
* * *
19417288 -GTTGAGGTAATTTT-TATTTCTAT-TTTC----AAAATTCAACTCATATTGCGAGAAATGAGTT
129 AGCTGAGGT-ATTTTCAATTTCTATCTTTCAAAAAAAATTCAACTCATAATGCGAGAAATGAGTT
** * *
19417346 GAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTACAAAATTCAACTCAGATTACGAGAA
193 GAGCCTCAAGACACACTGAGGTAATTTCAATTTATGTTT-CAAAATTCAACTCAGATTGCGAGAA
* *
19417411 ATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAACAAAAAATCGACT
257 ATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTTC--A-AAAAAATCAACT
** *
19417476 CATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCA
319 CATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * *
19417525 ATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* * * * * *
19417590 ATTTTCAATTTTTATCTTTCAAAAAAAAAAATTAACTCATAATGTGAGAGGTGAGTTGAGCCTCG
66 ATTTTCAATTTATGT-TTTC------AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAG
** * * *
19417655 GGCAC-GCTGAGGTATTGGCAATTT-T-TGTTTCTTAATTTATGTTTCAAAATTCAACTCATATT
124 GGCACAGCTGAGGTATTTTCAATTTCTATCTTTC--AA---A-----AAAAATTCAACTCATAAT
* *
19417717 GCGAGAAATGAGTTGAGCCTCAAGACACATTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAAC
179 GCGAGAAATGAGTTGAGCCTCAAGACACACTGAGGTAATTTCAATTTATG-TTTCAAAATTCAAC
* *
19417782 TCAGATTGCAAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAA
243 TCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTTC--
* *** * *
19417847 AAAAAAAATCGACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGGCACGCTGAGGTAATTTCA
306 -AAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * * * *
19417910 ATTTCTATTTTCAAAATTCAACTCATATTGCAAGTAGTGAGTTGAACCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* * *
19417975 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTTGGTTCACA
66 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-GCACA
**
19418040 TGCTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAATT-AACTCATAATGCGAGAGGTGAGTT
130 -GCTGAGGTATTTTCAATTTCTATCTTTC-AAAAAAAATTCAACTCATAATGCGAGAAATGAGTT
** * *
19418104 GAGCCTCGGGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCAACT
193 GAGCCTCAAGACACACTGAGG---T---AA------TTTC--AATTTATGTTTCAAAATTCAACT
* * * *
19418169 CATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTG-TTTTC--A
244 CAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTTCAAA
* * * * *
19418231 AAATTCAACTCAGATAGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
309 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * *
19418290 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTAAACCTCAAGACACGTTGAGGT
1 ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
* *
19418355 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACA
66 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG-GCACA
* * **
19418420 TGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAA-TCAACTTATAATGCGAGAGGTGAGTTG
130 -GCTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAATTCAACTCATAATGCGAGAAATGAGTTG
*
19418484 AGCCTCAGGACACACTGAGGTATTGGAAATTTTTGTTTCTTAATTTATGTTTCAAAATTCAACTC
194 AGCCTCAAGACACACTGAGG---T---AA------TTTC--AATTTATGTTTCAAAATTCAACTC
* * *
19418549 ATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTAATTTGAATTTCTG-TTTTCAAAA
245 AGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTTCAAAA
* * *
19418613 AAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCA
310 AAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
* * ** * * * **
19418671 ATTTTTGTCTTTCAAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAGGACGCACTGA
1 ATTTCTGT-TTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGA
* * *
19418734 GGTAATTTT-AATTTCTGTTTTTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGG
63 GGT-ATTTTCAATTTATG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGG
19418798 GCAC-GCTGAGGTATTTTCAATTTCT
125 GCACAGCTGAGGTATTTTCAATTTCT
19418823 GCTTTCCAAT
Statistics
Matches: 1133, Mismatches: 111, Indels: 93
0.85 0.08 0.07
Matches are distributed among these distances:
365 5 0.00
366 67 0.06
367 4 0.00
370 1 0.00
371 8 0.01
372 15 0.01
373 68 0.06
374 6 0.01
376 1 0.00
378 36 0.03
379 156 0.14
380 201 0.18
381 100 0.09
382 43 0.04
383 53 0.05
384 17 0.02
385 274 0.24
386 71 0.06
387 7 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (367 bp):
ATTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGT
ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGGCACAG
CTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAATTCAACTCATAATGCGAGAAATGAGTTGAG
CCTCAAGACACACTGAGGTAATTTCAATTTATGTTTCAAAATTCAACTCAGATTGCGAGAAATGA
GTTGAGCCTCAAGACATGCTGAGGTAATTTCAATTTCTGTTTTTCAAAAAAATCAACTCATATTG
CGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCA
Found at i:19418643 original size:74 final size:74
Alignment explanation
Indices: 19418537--19418828 Score: 347
Period size: 73 Copynumber: 4.0 Consensus size: 74
19418527 TTTATGTTTC
* * * *
19418537 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGTTGAGGTAATTTGAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
19418602 TGTTTTCAA
66 TGTTTTCAA
* * * *
19418611 AAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
19418676 TGTCTTTCAA
66 TGT-TTTCAA
** * * * * *
19418686 AAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAGGACGCACTGAGGTAATTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
19418749 TGTTTT-TA
66 TGTTTTCAA
** * * * *
19418757 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
*
19418822 TGCTTTC
66 TGTTTTC
19418829 CAATTTCTGC
Statistics
Matches: 188, Mismatches: 26, Indels: 8
0.85 0.12 0.04
Matches are distributed among these distances:
71 13 0.07
72 3 0.02
73 93 0.49
74 62 0.33
75 17 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAA
Found at i:19418663 original size:159 final size:162
Alignment explanation
Indices: 19418361--19418666 Score: 431
Period size: 159 Copynumber: 1.9 Consensus size: 162
19418351 AGGTATTTTC
** *
19418361 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGTTGA
1 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAG-T-ACATGTTGA
* * **
19418426 GGTATTTTCAATTTCTATCTTTCAAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCA
64 GGTAATTTCAATTTCTATCTTTCAAAAAAAATCAACTAATAATGCGAGAAATGAGTTGAGCCTCA
*
19418491 GGACACACTGAGGTATTGGAAATTTTTGTTTCTT
129 AGACACACTGAGGTATTGGAAATTTTTGTTTCTT
*
19418525 AATTTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAG-ACATGTTGAG
1 AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTC-AGTACATGTTGAG
* * *
19418588 GTAATTTGAATTTCTGT-TTTC-AAAAAAATCAACTAATATTGCGAGAAATGAGTTGAGCCTCAA
65 GTAATTTCAATTTCTATCTTTCAAAAAAAATCAACTAATAATGCGAGAAATGAGTTGAGCCTCAA
**
19418651 GACATGCTGAGGTATT
130 GACACACTGAGGTATT
19418667 TTCAATTTTT
Statistics
Matches: 127, Mismatches: 14, Indels: 7
0.86 0.09 0.05
Matches are distributed among these distances:
159 51 0.40
160 4 0.03
161 24 0.19
163 39 0.31
164 9 0.07
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (162 bp):
AATTTATGTTTTCAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGTACATGTTGAGG
TAATTTCAATTTCTATCTTTCAAAAAAAATCAACTAATAATGCGAGAAATGAGTTGAGCCTCAAG
ACACACTGAGGTATTGGAAATTTTTGTTTCTT
Found at i:19418834 original size:14 final size:15
Alignment explanation
Indices: 19418815--19418843 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
19418805 GAGGTATTTT
19418815 CAATTTCTG-CTTTC
1 CAATTTCTGCCTTTC
19418829 CAATTTCTGCCTTTC
1 CAATTTCTGCCTTTC
19418844 AAAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.14, C:0.31, G:0.07, T:0.48
Consensus pattern (15 bp):
CAATTTCTGCCTTTC
Found at i:19420444 original size:3 final size:3
Alignment explanation
Indices: 19420438--19420769 Score: 211
Period size: 3 Copynumber: 108.3 Consensus size: 3
19420428 TGAATTTCTA
* * * * *
19420438 TAT TAT TAT TAT TAT TGT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * * *
19420486 TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT CAT TAT
1 TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
19420531 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
19420579 TAT TAT TAT TAT TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT
* *
19420625 T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
* * * *
19420665 TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T
* * * * *
19420713 TAT TATT TAT ACAA TACT TAA TAT TAT TAT TAT TAT TAT TA- CAT TAC
1 TAT TA-T TAT -TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
19420760 TAT TAT TAT T
1 TAT TAT TAT T
19420770 TATAAATATT
Statistics
Matches: 260, Mismatches: 39, Indels: 60
0.72 0.11 0.17
Matches are distributed among these distances:
2 20 0.08
3 207 0.80
4 29 0.11
5 4 0.02
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:19420694 original size:19 final size:19
Alignment explanation
Indices: 19420670--19420706 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
19420660 TTCTATATTA
*
19420670 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
19420689 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
19420707 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:19420947 original size:3 final size:3
Alignment explanation
Indices: 19420941--19421001 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
19420931 CTATTATTGC
* *
19420941 TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT TTT TAT TAT TAT TATT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
*
19420987 TAT ATAA TAT TAT TA
1 TAT -TAT TAT TAT TA
19421002 ATAGGTACTT
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
3 45 0.90
4 5 0.10
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:19436808 original size:17 final size:18
Alignment explanation
Indices: 19436786--19436824 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
19436776 ATCAAAGGAT
19436786 ATAAACTTA-AT-CTTAAC
1 ATAAACTTATATGC-TAAC
19436803 ATAAACTTATATGCTAAC
1 ATAAACTTATATGCTAAC
19436821 ATAA
1 ATAA
19436825 CTCCAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 10 0.50
19 1 0.05
ACGTcount: A:0.49, C:0.15, G:0.03, T:0.33
Consensus pattern (18 bp):
ATAAACTTATATGCTAAC
Found at i:19441726 original size:21 final size:21
Alignment explanation
Indices: 19441700--19441741 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19441690 AAAATTAGCG
*
19441700 CTTCTTGTTCTGCTCTTCTTA
1 CTTCTTGTTCCGCTCTTCTTA
19441721 CTTCTTGTTCCGCTCTTCTTA
1 CTTCTTGTTCCGCTCTTCTTA
19441742 GGTTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.31, G:0.10, T:0.55
Consensus pattern (21 bp):
CTTCTTGTTCCGCTCTTCTTA
Found at i:19445734 original size:39 final size:38
Alignment explanation
Indices: 19445611--19445735 Score: 119
Period size: 39 Copynumber: 3.3 Consensus size: 38
19445601 TCTATAAAGA
*
19445611 TGATT-TA-GAGTATTGTGGTATATGCTTGAATGTTATG
1 TGATTATATGAGTA-TGTGATATATGCTTGAATGTTATG
* * * * *
19445648 TGATTTTACGAGTACTATGACATATGCTTAAATGTTATG
1 TGATTATATGAGTA-TGTGATATATGCTTGAATGTTATG
* * *
19445687 AGATTATATGAGTATGGTGATATATGCTTGTATGTTAGG
1 TGATTATATGAGTAT-GTGATATATGCTTGAATGTTATG
*
19445726 TGACTATATG
1 TGATTATATG
19445736 TGAAATATGC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
37 5 0.07
38 3 0.04
39 62 0.89
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (38 bp):
TGATTATATGAGTATGTGATATATGCTTGAATGTTATG
Found at i:19450562 original size:69 final size:70
Alignment explanation
Indices: 19450500--19450859 Score: 236
Period size: 69 Copynumber: 5.2 Consensus size: 70
19450490 TCTTCGATTG
* *
19450500 CGAGCCTTAATATGACAAG-TAGGAGCTTTGCTCTTGCTAACTATGTTGGAGGCTGCGGCTCTTC
1 CGAGCCTTAATATGACAAGCTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTTC
19450564 G-CTAA
66 GCCT-A
* * * * *** ** * * **
19450569 TGAGCCTTAATAT-A-ATAGATGGGAGCTTTGTTCTCAATAACTGCATTAGAGGCTGCGATTCTT
1 CGAGCCTTAATATGACA-AGCTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTT
**
19450632 TACCTA
65 CGCCTA
* * *** * *
19450638 CAAGCCTTAATATGAC-AGCTGGGAGCTTTGCT-TTCGCTAACTACATTGGAAGCTGTAGCTCGT
1 CGAGCCTTAATATGACAAGCTAGGAGCTTTGCTCTT-GCTAACTGTGTTGGAGGCTGTGGCTC-T
19450701 T-GCCTA
64 TCGCCTA
* * ** *
19450707 CGAGCCTTAATATGACAA--TTGAGAGCTTTACTCTTGCTAACTGTGTCAGAGGTTGTGGCTCTT
1 CGAGCCTTAATATGACAAGCTAG-GAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTT
*** *
19450770 CTTTTG
65 CGCCTA
* * * * *
19450776 CTAGCCTTAATATGAC-AGCTAGGAGCTTTGTTCTCGCTGACTGTGTTGGAGGCTATGGCTCTTC
1 CGAGCCTTAATATGACAAGCTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTTC
* *
19450840 TCCTG
66 GCCTA
*
19450845 TGAGCCTTAATATGA
1 CGAGCCTTAATATGA
19450860 TATGAATTTT
Statistics
Matches: 220, Mismatches: 58, Indels: 26
0.72 0.19 0.09
Matches are distributed among these distances:
67 1 0.00
68 9 0.04
69 200 0.91
70 10 0.05
ACGTcount: A:0.22, C:0.21, G:0.24, T:0.34
Consensus pattern (70 bp):
CGAGCCTTAATATGACAAGCTAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGTGGCTCTTC
GCCTA
Found at i:19459184 original size:21 final size:21
Alignment explanation
Indices: 19459158--19459197 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
19459148 CAAAATGACG
*
19459158 TAGTTTTGCCTTTTAACTTAA
1 TAGTTTTGACTTTTAACTTAA
19459179 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
19459198 TAAAAAAGGT
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:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:19469820 original size:33 final size:33
Alignment explanation
Indices: 19469782--19469860 Score: 83
Period size: 33 Copynumber: 2.4 Consensus size: 33
19469772 GAATTTTGAA
19469782 ATTTTTATATTTTAAAAAACTTA-TA-TTTT-AT
1 ATTTTTATATTTTAAAAAA-TTATTATTTTTCAT
* *
19469813 ATCTTTTTTAATTTTAAAGAATTATTATTTTTCAT
1 AT-TTTTAT-ATTTTAAAAAATTATTATTTTTCAT
*
19469848 ATTTTTAAATTTT
1 ATTTTTATATTTT
19469861 TTTAAAATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
31 2 0.05
32 8 0.21
33 17 0.44
34 8 0.21
35 4 0.10
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (33 bp):
ATTTTTATATTTTAAAAAATTATTATTTTTCAT
Found at i:19478021 original size:2 final size:2
Alignment explanation
Indices: 19478014--19478041 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
19478004 CTAGGTTAGG
19478014 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19478042 ACCTATCTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19480115 original size:2 final size:2
Alignment explanation
Indices: 19480108--19480136 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
19480098 AAATACATTA
19480108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19480137 ATTGATGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19481891 original size:19 final size:20
Alignment explanation
Indices: 19481852--19481893 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
19481842 ACCATAATTA
19481852 TAAATAATTAAGTTTTTAAAAG
1 TAAATAATTAAG--TTTAAAAG
*
19481874 TAAATAATTAAGTTAAAAAG
1 TAAATAATTAAGTTTAAAAG
19481894 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
TAAATAATTAAGTTTAAAAG
Found at i:19482509 original size:7 final size:7
Alignment explanation
Indices: 19482497--19482521 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
19482487 TATGTTTAAT
19482497 AAATATA
1 AAATATA
19482504 AAATATA
1 AAATATA
19482511 AAATATA
1 AAATATA
19482518 AAAT
1 AAAT
19482522 CATGCGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATATA
Found at i:19483451 original size:25 final size:23
Alignment explanation
Indices: 19483423--19483481 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
19483413 AATATAATTA
*
19483423 AAAATATTTTATATTAATATTAAAT
1 AAAA-ATTTTATATCAAT-TTAAAT
*
19483448 AAAAATAATTATATCAATTTAAAT
1 AAAAAT-TTTATATCAATTTAAAT
*
19483472 AAAAAATTTA
1 AAAAATTTTA
19483482 CGTCTCCCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.10
24 13 0.45
25 13 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAATTTTATATCAATTTAAAT
Found at i:19483474 original size:24 final size:26
Alignment explanation
Indices: 19483413--19483476 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
19483403 ACACCATTAA
* * *
19483413 AATA-TAATTAAAAATATTTTATATT
1 AATATTAAATAAAAATATATTATATC
19483438 AATATTAAATAAAAATA-ATTATATC
1 AATATTAAATAAAAATATATTATATC
19483463 AAT-TTAAATAAAAA
1 AATATTAAATAAAAA
19483477 ATTTACGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.31
25 13 0.37
26 11 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AATATTAAATAAAAATATATTATATC
Found at i:19492504 original size:37 final size:37
Alignment explanation
Indices: 19492423--19492495 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
19492413 TCGGTTAGAC
* * **
19492423 TAGCTTTTCAGAGCCATTGGTGTGTTATTGGGTGGAG
1 TAGCTCTTCGGAGCCATTGGTGTGTTATCAGGTGGAG
19492460 TAGCTCTTCGGAGCCATTGGTGTGTTATCAGGTGGA
1 TAGCTCTTCGGAGCCATTGGTGTGTTATCAGGTGGA
19492496 TCGACTCTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.16, C:0.14, G:0.34, T:0.36
Consensus pattern (37 bp):
TAGCTCTTCGGAGCCATTGGTGTGTTATCAGGTGGAG
Found at i:19492542 original size:37 final size:37
Alignment explanation
Indices: 19492482--19492552 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
19492472 GCCATTGGTG
* * *
19492482 TGTTATCAGGTGGATCGACTCTTATGTGCATTTGGCA
1 TGTTATCAGGTGGATAGACTCTTACGAGCATTTGGCA
*
19492519 TGTTATCGGGTGGATTAGA-TCTTACGAGCATTTG
1 TGTTATCAGGTGGA-TAGACTCTTACGAGCATTTG
19492553 CCGTGTTTCG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
37 26 0.90
38 3 0.10
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (37 bp):
TGTTATCAGGTGGATAGACTCTTACGAGCATTTGGCA
Found at i:19496975 original size:60 final size:61
Alignment explanation
Indices: 19496881--19497012 Score: 167
Period size: 60 Copynumber: 2.2 Consensus size: 61
19496871 AAATCAATAA
* * * * * * *
19496881 ATATTAAGAATGTTATTAAATTATATATTATTATTTTTATTAATTTATATTTAATAATAATT
1 ATATTAA-AATATGATTAAATTATATATTATTATTATTATTAAATCACATTTAATAATAATC
*
19496943 ATATTAAAATATGATTAAATTATTTATT-TTATTATTATTAAATCACATTTAATAATAATC
1 ATATTAAAATATGATTAAATTATATATTATTATTATTATTAAATCACATTTAATAATAATC
*
19497003 CTATTAAAAT
1 ATATTAAAAT
19497013 TTAATAATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
60 36 0.59
61 18 0.30
62 7 0.11
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (61 bp):
ATATTAAAATATGATTAAATTATATATTATTATTATTATTAAATCACATTTAATAATAATC
Found at i:19499244 original size:52 final size:52
Alignment explanation
Indices: 19499174--19499296 Score: 203
Period size: 52 Copynumber: 2.4 Consensus size: 52
19499164 TATCTAGGAT
* *
19499174 ATGGCATTGTGCTCAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
*
19499226 GTGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
1 ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
19499278 ATGGC-ATGGTGCTAAGTGA
1 ATGGCAAT-GTGCTAAGTGA
19499297 GAAATTTCCC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
51 2 0.03
52 64 0.97
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (52 bp):
ATGGCAATGTGCTAAGTGAAATAAGACCATGGCATCTAAGTGAAATAAGTCC
Found at i:19499249 original size:28 final size:27
Alignment explanation
Indices: 19499174--19499296 Score: 141
Period size: 24 Copynumber: 4.7 Consensus size: 27
19499164 TATCTAGGAT
*
19499174 ATGGCATTGTGCTCAGTGAAATAAGACC
1 ATGGCA-TGTGCTAAGTGAAATAAGACC
*
19499202 ATGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGACC
*
19499226 GTGGCAATGTGCTAAGTGAAATAAGACC
1 ATGGC-ATGTGCTAAGTGAAATAAGACC
*
19499254 ATGGCA--T-CTAAGTGAAATAAGTCC
1 ATGGCATGTGCTAAGTGAAATAAGACC
19499278 ATGGCATGGTGCTAAGTGA
1 ATGGCAT-GTGCTAAGTGA
19499297 GAAATTTCCC
Statistics
Matches: 81, Mismatches: 6, Indels: 16
0.79 0.06 0.16
Matches are distributed among these distances:
24 41 0.51
25 3 0.04
27 3 0.04
28 34 0.42
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.24
Consensus pattern (27 bp):
ATGGCATGTGCTAAGTGAAATAAGACC
Found at i:19499375 original size:51 final size:51
Alignment explanation
Indices: 19499320--19499468 Score: 228
Period size: 51 Copynumber: 2.9 Consensus size: 51
19499310 TGAACCTTAG
19499320 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
1 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* * * *
19499371 GAATATAATAGCTTTGGACACAAGTGTGGTACTATGTGAAGACCATTTTGT
1 GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
* *
19499422 GAATAAAATAACTTT-GGCTACAAGGGTGGTACTATGTGAAGGCCACT
1 GAATAAAATAGCTTTGGGC-ACAAGTGTGGTACTATGTGAAGGCCACT
19499469 GGGTATCTGT
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
50 2 0.02
51 85 0.98
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.30
Consensus pattern (51 bp):
GAATAAAATAGCTTTGGGCACAAGTGTGGTACTATGTGAAGGCCACTTTGT
Found at i:19503037 original size:29 final size:29
Alignment explanation
Indices: 19502995--19503055 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
19502985 CGATCCACAA
19502995 AACCTCGAGTGTCCCCTAAATAGAAAATT
1 AACCTCGAGTGTCCCCTAAATAGAAAATT
19503024 AACCTCGAGTGTCCCCTAAATAGAAAATT
1 AACCTCGAGTGTCCCCTAAATAGAAAATT
19503053 AAC
1 AAC
19503056 TCTCTCTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (29 bp):
AACCTCGAGTGTCCCCTAAATAGAAAATT
Found at i:19512568 original size:12 final size:12
Alignment explanation
Indices: 19512553--19512593 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
19512543 CAGTCAGAAG
*
19512553 CAGATACAAATT
1 CAGATTCAAATT
*
19512565 CAGATTCAGATT
1 CAGATTCAAATT
19512577 CAGATTCAAATT
1 CAGATTCAAATT
19512589 ACAGA
1 -CAGA
19512594 AATAGATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (12 bp):
CAGATTCAAATT
Found at i:19514782 original size:15 final size:17
Alignment explanation
Indices: 19514761--19514801 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
19514751 TAATCTTTTA
19514761 AAAATTATAAAAAT-AT
1 AAAATTATAAAAATAAT
*
19514777 -AAATTATTAAAATAAT
1 AAAATTATAAAAATAAT
19514793 AAAATTATA
1 AAAATTATA
19514802 TTTTTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 12 0.57
16 2 0.10
17 7 0.33
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAAATTATAAAAATAAT
Found at i:19517553 original size:31 final size:31
Alignment explanation
Indices: 19517518--19517579 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
19517508 CTTAATAGCC
*
19517518 TAGTGACTTAAATAAAAACTTTCAAATAGTT
1 TAGTGACATAAATAAAAACTTTCAAATAGTT
* * *
19517549 TAGTGACATAAATGAAAATTTTTAAATAGTT
1 TAGTGACATAAATAAAAACTTTCAAATAGTT
19517580 CAGCAACCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.37
Consensus pattern (31 bp):
TAGTGACATAAATAAAAACTTTCAAATAGTT
Found at i:19519889 original size:45 final size:45
Alignment explanation
Indices: 19519840--19519994 Score: 152
Period size: 45 Copynumber: 3.4 Consensus size: 45
19519830 GGCCTTTGGC
* * *
19519840 TGTGGGTACACAACAAA-AATCTTGCAGATGAAATCTGCTTCTAGA
1 TGTGGGTACACAACAAATAA-CTCGCAGATGGAATCTGCCTCTAGA
* * * * *
19519885 TGTGGATTTCACAGCAAATAACCCGCAGATGGAATCTGCCTCT-GG
1 TGTGG-GTACACAACAAATAACTCGCAGATGGAATCTGCCTCTAGA
* * * *
19519930 TCGTGGATATACAACAAATAACTCGTAGATGGAATCTGCCTCTAGC
1 T-GTGGGTACACAACAAATAACTCGCAGATGGAATCTGCCTCTAGA
19519976 TGTGGGTACACAAACAAAT
1 TGTGGGTACAC-AACAAAT
19519995 TTTCCAGATA
Statistics
Matches: 88, Mismatches: 17, Indels: 9
0.77 0.15 0.08
Matches are distributed among these distances:
45 46 0.52
46 40 0.45
47 2 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (45 bp):
TGTGGGTACACAACAAATAACTCGCAGATGGAATCTGCCTCTAGA
Found at i:19521433 original size:25 final size:26
Alignment explanation
Indices: 19521339--19521447 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
19521329 TGATACAAAT
19521339 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
19521365 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
19521391 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
19521417 TGATAAT-GGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
19521442 TGATAA
1 TGATAA
19521448 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 24 0.30
26 56 0.70
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:19523511 original size:136 final size:137
Alignment explanation
Indices: 19523230--19523515 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
19523220 GAGTAGTCTC
19523230 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
19523295 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
19523360 ACTGTTA
131 ACTGTTA
19523367 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
19523432 TGTTAT-TGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
19523496 ACTGTTA
131 ACTGTTA
**
19523503 CCTGAATGGGCTT
1 CCCAAATGGGCTT
19523516 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 75 0.51
137 71 0.49
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:19527317 original size:26 final size:26
Alignment explanation
Indices: 19527281--19527390 Score: 193
Period size: 26 Copynumber: 4.2 Consensus size: 26
19527271 TGATACAAAT
19527281 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
19527307 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
19527333 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
19527359 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
19527385 TGATAA
1 TGATAA
19527391 GATTTCATGT
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:19529446 original size:136 final size:137
Alignment explanation
Indices: 19529165--19529450 Score: 538
Period size: 136 Copynumber: 2.1 Consensus size: 137
19529155 GAGTAGTCTC
19529165 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
19529230 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
19529295 ACTGTTA
131 ACTGTTA
19529302 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
19529367 TGTTAT-TGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
19529431 ACTGTTA
131 ACTGTTA
**
19529438 CCTGAATGGGCTT
1 CCCAAATGGGCTT
19529451 AGGCCCAATA
Statistics
Matches: 146, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
136 75 0.51
137 71 0.49
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTATAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:19531623 original size:30 final size:30
Alignment explanation
Indices: 19531557--19531625 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
19531547 GTGTACTAGT
*
19531557 CATGTGTCTCACACGGCCCAATCACACTCC
1 CATGTGTCTCACACGGCCCAATCACACACC
* * * *
19531587 CGTGTGTCTCACACGGCTCAGTCACACACT
1 CATGTGTCTCACACGGCCCAATCACACACC
*
19531617 TATGTGTCT
1 CATGTGTCT
19531626 AGCCGTATGG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.20, C:0.36, G:0.17, T:0.26
Consensus pattern (30 bp):
CATGTGTCTCACACGGCCCAATCACACACC
Found at i:19532602 original size:40 final size:41
Alignment explanation
Indices: 19532542--19532645 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
19532532 AACACACCAG
* *
19532542 TTTGGCACCCAGTGCCTCATCGGA-TAAT-TCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGAATTAATAT-AAAGTAATAA
* * *
19532582 TTTGACACCCAGTGCCTCATCAAATTAATATGAAGTATTAA
1 TTTGACACCCAGTGCCTCATCGAATTAATATAAAGTAATAA
* *
19532623 ATTGACACCCAGTGTCTCATCGA
1 TTTGACACCCAGTGCCTCATCGA
19532646 CTCGAAGTCG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 21 0.39
41 32 0.59
42 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (41 bp):
TTTGACACCCAGTGCCTCATCGAATTAATATAAAGTAATAA
Found at i:19533487 original size:20 final size:19
Alignment explanation
Indices: 19533454--19533492 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
19533444 ATTCGTCTCC
19533454 TTCTTTCTCCCTTTTCTTTT
1 TTCTTTCTCCC-TTTCTTTT
**
19533474 TTCTTTCTTTCTTTCTTTT
1 TTCTTTCTCCCTTTCTTTT
19533493 CTATTTCGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (19 bp):
TTCTTTCTCCCTTTCTTTT
Found at i:19539858 original size:40 final size:40
Alignment explanation
Indices: 19539805--19539943 Score: 106
Period size: 40 Copynumber: 3.5 Consensus size: 40
19539795 AACACACCAG
* **
19539805 TTTGGCACCTAGTG-CGTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCTAGTGTC-TCATCGGATAAACCGAAGTAATAA
* *
19539845 TTTGACACTTAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCTAGTGTCTCATCGGATAAACCGAAGTAATAA
* * * * * * *
19539883 -TTGGCACCCAGTGCCTCATCGAATTAATCTGAAGTAGTAA
1 TTTGACACCTAGTGTCTCATCGGA-TAAACCGAAGTAATAA
* *
19539923 ATTGACACCCAGTGTCTCATC
1 TTTGACACCTAGTGTCTCATC
19539944 AACTCGAAGT
Statistics
Matches: 78, Mismatches: 16, Indels: 9
0.76 0.16 0.09
Matches are distributed among these distances:
37 17 0.22
38 11 0.14
39 1 0.01
40 30 0.38
41 19 0.24
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (40 bp):
TTTGACACCTAGTGTCTCATCGGATAAACCGAAGTAATAA
Found at i:19544950 original size:22 final size:21
Alignment explanation
Indices: 19544925--19545157 Score: 77
Period size: 22 Copynumber: 10.6 Consensus size: 21
19544915 ATGTTGTATG
19544925 TATTTTCATTATATATATTATT
1 TATTTT-ATTATATATATTATT
*
19544947 TATTTTACTATAT-T-TTATT
1 TATTTTATTATATATATTATT
*
19544966 TATTATATTATTATATATGT-TT
1 TATTTTATTA-TATATAT-TATT
* * *
19544988 AATTTTTATTATATATTTTATA
1 TA-TTTTATTATATATATTATT
* *
19545010 TATATATATTATTTATATCTATAT
1 TAT-TTTATTATATATAT-TAT-T
* *
19545034 TATATGTT-TTAGTACATGTTATTTT
1 TAT-T-TTATTA-TATATATTA--TT
19545059 TATATATTATATATGATATATTATT
1 TAT-T-TTAT-TAT-ATATATTATT
* * *
19545084 CATATTATTACATAT-TTATT
1 TATTTTATTATATATATTATT
** * * *
19545104 TA-TAAAGTTAGTAAATACTATG
1 TATTTTA-TTA-TATATATTATT
* *
19545126 TA-TTT-TTATATATATCAAT
1 TATTTTATTATATATATTATT
19545145 TATTTTATTATAT
1 TATTTTATTATAT
19545158 TTTTATATGA
Statistics
Matches: 153, Mismatches: 37, Indels: 43
0.66 0.16 0.18
Matches are distributed among these distances:
19 22 0.14
20 19 0.12
21 22 0.14
22 37 0.24
23 15 0.10
24 10 0.07
25 17 0.11
26 3 0.02
27 8 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (21 bp):
TATTTTATTATATATATTATT
Found at i:19544960 original size:17 final size:16
Alignment explanation
Indices: 19544936--19545027 Score: 53
Period size: 17 Copynumber: 5.3 Consensus size: 16
19544926 ATTTTCATTA
19544936 TATATATTATTTATTT
1 TATATATTATTTATTT
*
19544952 TACTATATTTTATTTATTA
1 TA-TATA--TTATTTATTT
*
19544971 TAT-TATTATATATGTT
1 TATATATTATTTAT-TT
* *
19544987 TAATTTTTATTATATATTT
1 T-A--TATATTATTTATTT
19545006 TATATATATATATTA-TT
1 TATATAT-TAT-TTATTT
19545023 TATAT
1 TATAT
19545028 CTATATTATA
Statistics
Matches: 61, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
15 7 0.11
16 8 0.13
17 17 0.28
18 4 0.07
19 15 0.25
20 10 0.16
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (16 bp):
TATATATTATTTATTT
Found at i:19544964 original size:19 final size:20
Alignment explanation
Indices: 19544905--19544969 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
19544895 TTATATTTGC
* *
19544905 ATTTTACTATATGTTGTATGT
1 ATTTTACTATATATT-TATTT
*
19544926 ATTTTCATTATATATATTATTT
1 ATTTT-ACTATATAT-TTATTT
19544948 ATTTTACTATAT-TTTATTT
1 ATTTTACTATATATTTATTT
19544967 ATT
1 ATT
19544970 ATATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 9 0.24
20 1 0.03
21 11 0.29
22 16 0.42
23 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTACTATATATTTATTT
Found at i:19545013 original size:31 final size:31
Alignment explanation
Indices: 19544926--19545014 Score: 87
Period size: 31 Copynumber: 2.8 Consensus size: 31
19544916 TGTTGTATGT
*
19544926 ATTTTCATTATATATATTAT-T-TATTTTAC
1 ATTTTTATTATATATATTATATATATTTTAC
19544955 TATATTTTATT-TATTATATTATTATATATGTTTA-
1 -AT-TTTTATTATA-TATATTA-TATATAT-TTTAC
*
19544989 ATTTTTATTATATATTTTATATATAT
1 ATTTTTATTATATATATTATATATAT
19545015 ATATTATTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
30 4 0.08
31 20 0.40
32 14 0.28
33 5 0.10
34 3 0.06
35 4 0.08
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (31 bp):
ATTTTTATTATATATATTATATATATTTTAC
Found at i:19545018 original size:37 final size:37
Alignment explanation
Indices: 19544933--19545044 Score: 101
Period size: 37 Copynumber: 3.1 Consensus size: 37
19544923 TGTATTTTCA
*
19544933 TTATATATATTAT-TTATTT-TA-CTATATTTTAT-TT
1 TTATAT-TATTATATTATTTATATCTATATTATATATT
* * *
19544967 ATTATATTATTATATATGTTTA-ATTTTTATTATATATT
1 -TTATATTATTATAT-TATTTATATCTATATTATATATT
*
19545005 TTATA-TATATATATTATTTATATCTATATTATATGTT
1 TTATATTAT-TATATTATTTATATCTATATTATATATT
19545042 TTA
1 TTA
19545045 GTACATGTTA
Statistics
Matches: 62, Mismatches: 8, Indels: 12
0.76 0.10 0.15
Matches are distributed among these distances:
34 6 0.10
35 7 0.11
36 13 0.21
37 34 0.55
38 2 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (37 bp):
TTATATTATTATATTATTTATATCTATATTATATATT
Found at i:19545035 original size:15 final size:14
Alignment explanation
Indices: 19544932--19545036 Score: 60
Period size: 15 Copynumber: 7.4 Consensus size: 14
19544922 ATGTATTTTC
*
19544932 ATTATATATATTAT
1 ATTATTTATATTAT
*
19544946 -TTATTT-TACTAT
1 ATTATTTATATTAT
*
19544958 ATT-TTATTTATTAT
1 ATTATT-TATATTAT
*
19544972 ATTATTATATATGTTT
1 ATTATT-TATAT-TAT
19544988 AATT-TTTAT-TATAT
1 -ATTATTTATAT-TAT
19545002 ATT-TTATATATATAT
1 ATTATT-TATAT-TAT
19545017 ATTATTTATATCTAT
1 ATTATTTATAT-TAT
19545032 ATTAT
1 ATTAT
19545037 ATGTTTTAGT
Statistics
Matches: 74, Mismatches: 8, Indels: 17
0.75 0.08 0.17
Matches are distributed among these distances:
12 7 0.09
13 13 0.18
14 14 0.19
15 31 0.42
16 6 0.08
17 3 0.04
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (14 bp):
ATTATTTATATTAT
Found at i:19545212 original size:23 final size:22
Alignment explanation
Indices: 19545186--19545245 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
19545176 TTAGATTATT
*
19545186 ATTATTTTATATATTCTTCTTAC
1 ATTATTTTATATATT-TTATTAC
*
19545209 ATTATATTATATATTTTATTAC
1 ATTATTTTATATATTTTATTAC
19545231 ATATATTTTAT-TATT
1 AT-TATTTTATATATT
19545246 ATATGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTATTTTATATATTTTATTAC
Found at i:19545234 original size:14 final size:14
Alignment explanation
Indices: 19545217--19545243 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19545207 ACATTATATT
19545217 ATATATTTTATTAC
1 ATATATTTTATTAC
19545231 ATATATTTTATTA
1 ATATATTTTATTA
19545244 TTATATGATT
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:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATATTTTATTAC
Found at i:19545244 original size:17 final size:17
Alignment explanation
Indices: 19545224--19545275 Score: 65
Period size: 17 Copynumber: 3.1 Consensus size: 17
19545214 ATTATATATT
19545224 TTATTACATATATTTTA
1 TTATTACATATATTTTA
19545241 TTATT--ATATGATTTATA
1 TTATTACATAT-ATTT-TA
19545258 TTATTACATAT-TTTTA
1 TTATTACATATATTTTA
19545274 TT
1 TT
19545276 TGTAAATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 15 0.48
19 4 0.13
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (17 bp):
TTATTACATATATTTTA
Found at i:19545247 original size:34 final size:33
Alignment explanation
Indices: 19545209--19545275 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 33
19545199 TTCTTCTTAC
* *
19545209 ATTATATTATATATTTTATTACATATATTTTATT
1 ATTATATGATATATATTATTACATAT-TTTTATT
*
19545243 ATTATATGATTTATATTATTACATATTTTTATT
1 ATTATATGATATATATTATTACATATTTTTATT
19545276 TGTAAATTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 23 0.77
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.61
Consensus pattern (33 bp):
ATTATATGATATATATTATTACATATTTTTATT
Found at i:19545259 original size:14 final size:13
Alignment explanation
Indices: 19545210--19545261 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 13
19545200 TCTTCTTACA
19545210 TTATATTATATAT
1 TTATATTATATAT
19545223 TT-TATTACATATATT
1 TTATATT--ATATA-T
19545238 TTATTATTATATGAT
1 TTA-TATTATAT-AT
19545253 TTATATTAT
1 TTATATTAT
19545262 TACATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.12
13 2 0.06
14 11 0.33
15 11 0.33
16 1 0.03
17 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATTATATAT
Found at i:19548011 original size:26 final size:26
Alignment explanation
Indices: 19547982--19548034 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
19547972 TTAAACATGC
*
19547982 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGAT-AATTTAACTCCTAGGGGT
* *
19548008 ATTTCGATAATTTATCTCCTAGGGGT
1 ATTTAGATAATTTAACTCCTAGGGGT
19548034 A
1 A
19548035 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAGATAATTTAACTCCTAGGGGT
Found at i:19549556 original size:26 final size:26
Alignment explanation
Indices: 19549520--19549603 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
19549510 CATGAAATTC
19549520 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
19549546 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
19549572 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
19549598 TTATCA
1 TTATCA
19549604 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:19561059 original size:289 final size:288
Alignment explanation
Indices: 19560348--19561059 Score: 1012
Period size: 289 Copynumber: 2.5 Consensus size: 288
19560338 CTGAAGCTAG
* *
19560348 ATCCAAGATGATTTGGCATCCTTGTGCTTACAAGGAACAAACCGAAGACATAACTGATTTGGTTT
1 ATCCAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTGATTTGGTTT
* * *
19560413 TCACGTGTTTACGTTGAAGCAAGTCTAAAATGATTTGGCATCTCTGTATTGACAAAGAACAAACC
66 T-ACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAACAAATC
* * ** *
19560478 AAAGTTTGGCGTCTCCATATTTGACGGAGGGCAGACACATAGCAGACCTAACCTTCAGATGTTTA
130 GAAGTTTGGCATCTCCATATTCAACGAAGGGCAGACACATAGCAGACCTAACCTTCAGATGTTTA
*
19560543 TACTGAAGCAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAAGAACAAATCAAGGACATAGC
195 TACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAAGAACAAATCAAGGACATAGC
**
19560608 AGATTTGACTCTTAGATGTTCTCAAACAA
260 AGATTTGACTCACAGATGTTCTCAAACAA
* * * *
19560637 ATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGGAA-CCATAGCTGATTTGGTA
1 ATCCAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATC-GAAGACATAACTGATTTGGT-
* * * *
19560701 TTCACGTGTTTACGTTGAAGCAAGTTTAAGATGATTTGGCATATCTGTATTGTCAGAGAACAAAT
64 TTTACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAACAAAT
*
19560766 CGAAGTTTGGCATCTCCATATTCAACGAAGGGCAGACACATAGCAGATCTAACCTTCAGATGTTT
129 CGAAGTTTGGCATCTCCATATTCAACGAAGGGCAGACACATAGCAGACCTAACCTTCAGATGTTT
* *
19560831 ATACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGGACATAG
194 ATACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAAGAACAAATCAAGGACATAG
19560896 CAGATTTGACTCACAGATGTTCTCAAACAA
259 CAGATTTGACTCACAGATGTTCTCAAACAA
* ** * * *
19560926 ATCCAAGATGATTTGATATCCTTGTGCTTACAAGGAGTAAATCGAAGGCATAATTGATATGGCTT
1 ATCCAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTGATTTGG-TT
* * * * * * * * * * *
19560991 TTACGTGCTTACGCTGAATCAAATCTAAGATGATTTTGTATCCCTGCATTGGCAGAGAGCAGATC
65 TTACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAACAAATC
19561056 GAAG
130 GAAG
19561060 ACAGCAGATT
Statistics
Matches: 372, Mismatches: 47, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
288 3 0.01
289 363 0.98
290 6 0.02
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (288 bp):
ATCCAAGATGATTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAACTGATTTGGTTT
TACGTGTTTACGTTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGACAGAGAACAAATCG
AAGTTTGGCATCTCCATATTCAACGAAGGGCAGACACATAGCAGACCTAACCTTCAGATGTTTAT
ACTGAAGAAGATCCAAGATGATTTGGCATTCTTGTGTTTACAAAGAACAAATCAAGGACATAGCA
GATTTGACTCACAGATGTTCTCAAACAA
Found at i:19562923 original size:22 final size:21
Alignment explanation
Indices: 19562898--19563077 Score: 91
Period size: 22 Copynumber: 8.1 Consensus size: 21
19562888 ATGTTGTATG
19562898 TATTTTCATTATATATATTATT
1 TATTTT-ATTATATATATTATT
*
19562920 TATTTTACTATAT-T-TTATT
1 TATTTTATTATATATATTATT
*
19562939 TATTATATTATTATATATGT-TT
1 TATTTTATTA-TATATAT-TATT
*
19562961 AATTTTTATTATATATATTATAT
1 TA-TTTTATTATATATATTAT-T
* *
19562984 ATATATTATTTATATCTATATTATA
1 -TATTTTA-TTATA--TATATTATT
* * * *
19563009 TGTTTTAGTACATGTTATT-TT
1 TATTTTATTATAT-ATATTATT
19563030 TATATATTATATATGATATATTATT
1 TAT-T-TTAT-TAT-ATATATTATT
* * *
19563055 CATATTATTACATAT-TTATT
1 TATTTTATTATATATATTATT
19563075 TAT
1 TAT
19563078 AAAGTTAGTA
Statistics
Matches: 119, Mismatches: 22, Indels: 36
0.67 0.12 0.20
Matches are distributed among these distances:
19 13 0.11
20 11 0.09
21 16 0.13
22 25 0.21
23 23 0.19
24 17 0.14
25 6 0.05
26 8 0.07
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (21 bp):
TATTTTATTATATATATTATT
Found at i:19562935 original size:32 final size:32
Alignment explanation
Indices: 19562898--19563009 Score: 99
Period size: 32 Copynumber: 3.4 Consensus size: 32
19562888 ATGTTGTATG
19562898 TATTTTCATTATATATATTATT-TAT-T-TTACTA
1 TATTTT-ATTATATATATTATTATATATGTT--TA
19562930 TATTTTATT-TATTATATTATTATATATGTTTA
1 TATTTTATTATA-TATATTATTATATATGTTTA
*
19562962 -ATTTTTATTATATATATTATATATATATTATTTA
1 TA-TTTTATTATATATATTAT-TATATA-TGTTTA
*
19562996 TATCTATATTATAT
1 TAT-TTTATTATAT
19563010 GTTTTAGTAC
Statistics
Matches: 68, Mismatches: 2, Indels: 17
0.78 0.02 0.20
Matches are distributed among these distances:
30 2 0.03
31 13 0.19
32 26 0.38
33 9 0.13
34 8 0.12
35 10 0.15
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (32 bp):
TATTTTATTATATATATTATTATATATGTTTA
Found at i:19562937 original size:19 final size:20
Alignment explanation
Indices: 19562878--19562942 Score: 69
Period size: 22 Copynumber: 3.1 Consensus size: 20
19562868 TTATATTTGC
* *
19562878 ATTTTACTATATGTTGTATGT
1 ATTTTACTATATATT-TATTT
*
19562899 ATTTTCATTATATATATTATTT
1 ATTTT-ACTATATAT-TTATTT
19562921 ATTTTACTATAT-TTTATTT
1 ATTTTACTATATATTTATTT
19562940 ATT
1 ATT
19562943 ATATTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 9 0.24
20 1 0.03
21 11 0.29
22 16 0.42
23 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.63
Consensus pattern (20 bp):
ATTTTACTATATATTTATTT
Found at i:19562996 original size:15 final size:15
Alignment explanation
Indices: 19562906--19563007 Score: 74
Period size: 15 Copynumber: 7.0 Consensus size: 15
19562896 TGTATTTTCA
19562906 TTATATATATTATTTAT
1 TTATATATA-TA-TTAT
*
19562923 TT-TACTATATTTTAT
1 TTATA-TATATATTAT
19562938 TTAT-TATATTATTAT
1 TTATATATA-TATTAT
* * *
19562953 ATATGTTTA-ATT-T
1 TTATATATATATTAT
19562966 TTAT-TATATA-TA-
1 TTATATATATATTAT
19562978 TTATATATATATTAT
1 TTATATATATATTAT
*
19562993 TTATATCTATATTAT
1 TTATATATATATTAT
19563008 ATGTTTTAGT
Statistics
Matches: 69, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
12 8 0.12
13 11 0.16
14 9 0.13
15 28 0.41
16 7 0.10
17 6 0.09
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.63
Consensus pattern (15 bp):
TTATATATATATTAT
Found at i:19563015 original size:20 final size:20
Alignment explanation
Indices: 19562907--19563078 Score: 66
Period size: 20 Copynumber: 8.8 Consensus size: 20
19562897 GTATTTTCAT
*
19562907 TATATATATTATTTATTTTA
1 TATATATATTATTTATATTA
*
19562927 CTATATTTTATT-TATTATATTA
1 -TATA-TATATTAT-TTATATTA
*
19562949 T-TATATA-TGTTTA-A-T-
1 TATATATATTATTTATATTA
*
19562964 T-T-T-TATTATATATATTA
1 TATATATATTATTTATATTA
19562981 TATATATATTATTTATATCTA
1 TATATATATTATTTATAT-TA
* *
19563002 TAT-TATA-TGTTT-TAGTA
1 TATATATATTATTTATATTA
* * *
19563019 CATGT-TATTTTTATATATTATA
1 TATATATATTATT-TATA-T-TA
*
19563041 TATGATATATTATTCATATTA
1 TAT-ATATATTATTTATATTA
*
19563062 T-TACATATTTATTTATA
1 TATATATA-TTATTTATA
19563079 AAGTTAGTAA
Statistics
Matches: 114, Mismatches: 17, Indels: 41
0.66 0.10 0.24
Matches are distributed among these distances:
13 2 0.02
14 5 0.04
15 3 0.03
16 2 0.02
17 8 0.07
18 11 0.10
19 14 0.12
20 28 0.25
21 14 0.12
22 17 0.15
23 4 0.04
24 6 0.05
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.60
Consensus pattern (20 bp):
TATATATATTATTTATATTA
Found at i:19563185 original size:23 final size:22
Alignment explanation
Indices: 19563159--19563218 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
19563149 TTAGATTATT
*
19563159 ATTATTTTATATATTCTTCTTAC
1 ATTATTTTATATATT-TTATTAC
*
19563182 ATTATATTATATATTTTATTAC
1 ATTATTTTATATATTTTATTAC
19563204 ATATATTTTAT-TATT
1 AT-TATTTTATATATT
19563219 ATATGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.36
23 21 0.64
ACGTcount: A:0.32, C:0.07, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTATTTTATATATTTTATTAC
Found at i:19563207 original size:14 final size:14
Alignment explanation
Indices: 19563190--19563216 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19563180 ACATTATATT
19563190 ATATATTTTATTAC
1 ATATATTTTATTAC
19563204 ATATATTTTATTA
1 ATATATTTTATTA
19563217 TTATATGATT
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:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (14 bp):
ATATATTTTATTAC
Found at i:19563217 original size:17 final size:17
Alignment explanation
Indices: 19563197--19563264 Score: 70
Period size: 17 Copynumber: 4.0 Consensus size: 17
19563187 ATTATATATT
19563197 TTATTACATATATTTTA
1 TTATTACATATATTTTA
19563214 TTATT--ATATGATTTATA
1 TTATTACATAT-ATTT-TA
19563231 TTATTACATAT-TTTTA
1 TTATTACATATATTTTA
* *
19563247 TTTTTAAATTATATTTTA
1 TTATTACA-TATATTTTA
19563265 CTATATTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
15 4 0.09
16 12 0.28
17 18 0.42
18 5 0.12
19 4 0.09
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (17 bp):
TTATTACATATATTTTA
Found at i:19563220 original size:34 final size:33
Alignment explanation
Indices: 19563182--19563260 Score: 104
Period size: 34 Copynumber: 2.4 Consensus size: 33
19563172 TTCTTCTTAC
*
19563182 ATTATATTATATATTTTATTACATATATTTTATT
1 ATTATATTATATATATTATTACATAT-TTTTATT
* *
19563216 ATTATATGATTTATATTATTACATATTTTTATT
1 ATTATATTATATATATTATTACATATTTTTATT
* *
19563249 TTTAAATTATAT
1 ATTATATTATAT
19563261 TTTACTATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 15 0.39
34 23 0.61
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (33 bp):
ATTATATTATATATATTATTACATATTTTTATT
Found at i:19563232 original size:14 final size:13
Alignment explanation
Indices: 19563183--19563234 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 13
19563173 TCTTCTTACA
19563183 TTATATTATATAT
1 TTATATTATATAT
19563196 TT-TATTACATATATT
1 TTATATT--ATATA-T
19563211 TTATTATTATATGAT
1 TTA-TATTATAT-AT
19563226 TTATATTAT
1 TTATATTAT
19563235 TACATATTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 11
0.75 0.00 0.25
Matches are distributed among these distances:
12 4 0.12
13 2 0.06
14 11 0.33
15 11 0.33
16 1 0.03
17 4 0.12
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (13 bp):
TTATATTATATAT
Found at i:19570028 original size:306 final size:306
Alignment explanation
Indices: 19569475--19570087 Score: 1136
Period size: 306 Copynumber: 2.0 Consensus size: 306
19569465 GCGACTCGAT
19569475 TTAGCGGTCCCGAAATCACTTCCCGACTAGGGTCAGAATAGGGCTATCACACACACAATTACTAT
1 TTAGCGGTCCCGAAATCACTTCCCGACTAGGGTCAGAATAGGGCTATCACACACACAATTACTAT
* * *
19569540 ACTTTTAATCAAAACATCGAAACATTCAAAACCAAACCTGCCTCAAAGTCGTCGAGGACACTCTC
66 ACTCTTAATCAAAACATCGAAACATTCAAAACAAAACCTGCCTCAAAGTCGTCGAGGACACTCCC
* *
19569605 TGACCTGATGTTATGTGGATCCACATCGAAAACATGCTCCTGCATTTTTCTAGCAATTGGCCGGA
131 TGACCTGATGTTATGTGGATCCACATCGAAAACATGCTCCTGCATTTTTCCAGCAATTGCCCGGA
*
19569670 TGGCGATTTTTACAGTGCTCACAAAATGGAGTGCTCGCACTACTACCAACACCCTCCTCAAAACC
196 TGGCGATTTTTACAGTGCTCACAAAATGGAGCGCTCGCACTACTACCAACACCCTCCTCAAAACC
19569735 ACTATTACCACTCAAATGCGTTCTAACACTTTTCGAAAAATAAGGC
261 ACTATTACCACTCAAATGCGTTCTAACACTTTTCGAAAAATAAGGC
19569781 TTAGCGGTCCCGAAATCACTTCCCGACTAGGGTCAGAATAGGGCTATCACACACACAATTACTAT
1 TTAGCGGTCCCGAAATCACTTCCCGACTAGGGTCAGAATAGGGCTATCACACACACAATTACTAT
*
19569846 ACTCTTAATCAAAACATCGAAACATTCACAACAAAACCTGCCTCAAAGTCGTCGAGGACACTCCC
66 ACTCTTAATCAAAACATCGAAACATTCAAAACAAAACCTGCCTCAAAGTCGTCGAGGACACTCCC
*
19569911 TGACCTGATGTTATGTGGATCCACATCGAAAACATGCTCTTGCATTTTTCCAGCAATTGCCCGGA
131 TGACCTGATGTTATGTGGATCCACATCGAAAACATGCTCCTGCATTTTTCCAGCAATTGCCCGGA
*
19569976 TGGCGATTTTTACAGTGCTCACAAAATGGAGCGCTCGCACTACTACCAACACCCTCCTCAAAACT
196 TGGCGATTTTTACAGTGCTCACAAAATGGAGCGCTCGCACTACTACCAACACCCTCCTCAAAACC
*
19570041 ACTATTACCACTCAAATGCGTTCTAACACTTTTCGAAAAATGAGGC
261 ACTATTACCACTCAAATGCGTTCTAACACTTTTCGAAAAATAAGGC
19570087 T
1 T
19570088 CTAACATCGT
Statistics
Matches: 297, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
306 297 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (306 bp):
TTAGCGGTCCCGAAATCACTTCCCGACTAGGGTCAGAATAGGGCTATCACACACACAATTACTAT
ACTCTTAATCAAAACATCGAAACATTCAAAACAAAACCTGCCTCAAAGTCGTCGAGGACACTCCC
TGACCTGATGTTATGTGGATCCACATCGAAAACATGCTCCTGCATTTTTCCAGCAATTGCCCGGA
TGGCGATTTTTACAGTGCTCACAAAATGGAGCGCTCGCACTACTACCAACACCCTCCTCAAAACC
ACTATTACCACTCAAATGCGTTCTAACACTTTTCGAAAAATAAGGC
Found at i:19572418 original size:19 final size:20
Alignment explanation
Indices: 19572390--19572428 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
19572380 TCCCATTATT
19572390 TATTTATTTTT-TGTTTTAA
1 TATTTATTTTTATGTTTTAA
*
19572409 TATTTGTTTTTATGTTTTAA
1 TATTTATTTTTATGTTTTAA
19572429 ATATATTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (20 bp):
TATTTATTTTTATGTTTTAA
Found at i:19572434 original size:23 final size:25
Alignment explanation
Indices: 19572408--19572454 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
19572398 TTTTGTTTTA
*
19572408 ATATTTG-TTT-TTATGTTTTAAAT
1 ATATTTGATTTATTATATTTTAAAT
19572431 ATATTTGATTTATTATATTTTAAA
1 ATATTTGATTTATTATATTTTAAA
19572455 GTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 3 0.14
25 11 0.52
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (25 bp):
ATATTTGATTTATTATATTTTAAAT
Found at i:19574944 original size:21 final size:21
Alignment explanation
Indices: 19574918--19574966 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
19574908 AATCATAGCA
*
19574918 CTGAGGAGGCCATGTGGGAGC
1 CTGAGGAGGCCATATGGGAGC
19574939 CTGAGGAGGCCATATGGGAGC
1 CTGAGGAGGCCATATGGGAGC
19574960 CTGAGGA
1 CTGAGGA
19574967 TGCGATGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.22, C:0.18, G:0.45, T:0.14
Consensus pattern (21 bp):
CTGAGGAGGCCATATGGGAGC
Found at i:19580359 original size:25 final size:25
Alignment explanation
Indices: 19580331--19580379 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
19580321 TGCGTCATCA
19580331 TCGACAGTCCTCTACTGCATCGCCG
1 TCGACAGTCCTCTACTGCATCGCCG
* **
19580356 TCGATAGTCCTCTGTTGCATCGCC
1 TCGACAGTCCTCTACTGCATCGCC
19580380 ATGTAAGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.14, C:0.37, G:0.20, T:0.29
Consensus pattern (25 bp):
TCGACAGTCCTCTACTGCATCGCCG
Found at i:19581111 original size:2 final size:2
Alignment explanation
Indices: 19581104--19581129 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19581094 AAACGATTTC
19581104 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
19581130 TAACAAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19583158 original size:21 final size:23
Alignment explanation
Indices: 19583132--19583177 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
19583122 CTTATCTATA
* *
19583132 AATTTAA-ATGGAT-TAAATTAC
1 AATTTAAGATGAATATAAAGTAC
19583153 AATTTAAGATGAATATAAAGTAC
1 AATTTAAGATGAATATAAAGTAC
19583176 AA
1 AA
19583178 ATCAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 5 0.24
23 9 0.43
ACGTcount: A:0.52, C:0.04, G:0.11, T:0.33
Consensus pattern (23 bp):
AATTTAAGATGAATATAAAGTAC
Found at i:19595683 original size:27 final size:27
Alignment explanation
Indices: 19595652--19595703 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
19595642 AGTTTTGTAC
19595652 TTAATTAGGTTTTGGTTAAGTGAATAG
1 TTAATTAGGTTTTGGTTAAGTGAATAG
19595679 TTAATTAGGTTTTGGTTAAGTGAAT
1 TTAATTAGGTTTTGGTTAAGTGAAT
19595704 TTGCATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (27 bp):
TTAATTAGGTTTTGGTTAAGTGAATAG
Found at i:19598093 original size:13 final size:13
Alignment explanation
Indices: 19598059--19598096 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
19598049 ATTTCAAATT
19598059 ATTTTAAAACCAG
1 ATTTTAAAACCAG
19598072 ATCTTTAAAACCA-
1 AT-TTTAAAACCAG
19598085 AGTTTTAAAACC
1 A-TTTTAAAACC
19598097 CAAAATCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (13 bp):
ATTTTAAAACCAG
Found at i:19602474 original size:42 final size:42
Alignment explanation
Indices: 19602379--19602474 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
19602369 CTAGACACTT
* * *
19602379 GCCCATGTCCTTGTCCGTTTGGCTCACACAGCCTGAACATAC
1 GCCCATGTCCTTGTCCATATGGCTCACACAGCCTGAACACAC
** * * *
19602421 ATCCATGTCCTTGTCCATATGGCTCACACGGCCTGGATACAC
1 GCCCATGTCCTTGTCCATATGGCTCACACAGCCTGAACACAC
*
19602463 GCCCATATCCTT
1 GCCCATGTCCTT
19602475 ACCCGTGTGA
Statistics
Matches: 43, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.20, C:0.35, G:0.18, T:0.27
Consensus pattern (42 bp):
GCCCATGTCCTTGTCCATATGGCTCACACAGCCTGAACACAC
Found at i:19603246 original size:26 final size:27
Alignment explanation
Indices: 19603194--19603246 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
19603184 GATCAGAAAA
*
19603194 AATAAAAAGAAAAGAAAAAGAATGAAG
1 AATAAAAAGAAAAGAAAAAGAACGAAG
19603221 AATAAAAAG-AAAG-AAAAGTAACGAAG
1 AATAAAAAGAAAAGAAAAAG-AACGAAG
19603247 GAGAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 5 0.21
26 10 0.42
27 9 0.38
ACGTcount: A:0.72, C:0.02, G:0.19, T:0.08
Consensus pattern (27 bp):
AATAAAAAGAAAAGAAAAAGAACGAAG
Found at i:19603253 original size:26 final size:25
Alignment explanation
Indices: 19603197--19603261 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
19603187 CAGAAAAAAT
* *
19603197 AAAAAGAAAAGAAAAAGAATGAAGAAT
1 AAAAAG-AAAG-AAAAGAACGAAGAAG
*
19603224 AAAAAGAAAGAAAAGTAACGAAGGAG
1 AAAAAGAAAGAAAAG-AACGAAGAAG
19603250 -AAAAG-AAGAAAA
1 AAAAAGAAAGAAAA
19603262 CTTAAGAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 7 0.21
25 10 0.29
26 11 0.32
27 6 0.18
ACGTcount: A:0.72, C:0.02, G:0.22, T:0.05
Consensus pattern (25 bp):
AAAAAGAAAGAAAAGAACGAAGAAG
Found at i:19606558 original size:15 final size:16
Alignment explanation
Indices: 19606538--19606567 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19606528 TGAAATAAAA
19606538 CCTCAC-ATTTCACTT
1 CCTCACAATTTCACTT
19606553 CCTCACAATTTCACT
1 CCTCACAATTTCACT
19606568 CGATTGATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.40, G:0.00, T:0.37
Consensus pattern (16 bp):
CCTCACAATTTCACTT
Found at i:19607575 original size:15 final size:15
Alignment explanation
Indices: 19607557--19607585 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19607547 AAAGTTACAA
19607557 AATGCAAAATATTTT
1 AATGCAAAATATTTT
19607572 AATGCAAAATATTT
1 AATGCAAAATATTT
19607586 ATAGACTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (15 bp):
AATGCAAAATATTTT
Found at i:19619874 original size:13 final size:12
Alignment explanation
Indices: 19619852--19619886 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
19619842 CCTGATCTGC
19619852 AAAAAAAAACAA
1 AAAAAAAAACAA
19619864 AAAACAAAAACAA
1 AAAA-AAAAACAA
19619877 AACAAAAAAA
1 AA-AAAAAAA
19619887 AAGAATTACA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 15 0.71
14 2 0.10
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:19619878 original size:18 final size:17
Alignment explanation
Indices: 19619851--19619885 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
19619841 CCCTGATCTG
19619851 CAAAAAAAAACAAAAAA
1 CAAAAAAAAACAAAAAA
19619868 CAAAAACAAAACAAAAAA
1 CAAAAA-AAAACAAAAAA
19619886 AAAGAATTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (17 bp):
CAAAAAAAAACAAAAAA
Found at i:19628653 original size:13 final size:12
Alignment explanation
Indices: 19628637--19628664 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
19628627 TTTTCCTTTC
19628637 TTTTTTTTTTTA
1 TTTTTTTTTTTA
19628649 TTTTTTTTTTTA
1 TTTTTTTTTTTA
19628661 TTTT
1 TTTT
19628665 GAGGAAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.07, C:0.00, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTTTTTTTTA
Found at i:19638347 original size:30 final size:31
Alignment explanation
Indices: 19638307--19638383 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 31
19638297 GCAATGTAAT
*
19638307 ACAC-AAACTTTAATTT-GATACAATAATAC
1 ACACGAAACTTTGATTTGGATACAATAATAC
* * *
19638336 ACATGAAACTTTGATTTGGATTCAATCATAC
1 ACACGAAACTTTGATTTGGATACAATAATAC
*
19638367 ACACGAAAATTTGATTT
1 ACACGAAACTTTGATTT
19638384 TGATTTTGAT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 3 0.08
30 11 0.28
31 26 0.65
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.34
Consensus pattern (31 bp):
ACACGAAACTTTGATTTGGATACAATAATAC
Found at i:19638410 original size:21 final size:21
Alignment explanation
Indices: 19638380--19638419 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
19638370 CGAAAATTTG
19638380 ATTTTGATTTTG-ATTCAATAA
1 ATTTTGA-TTTGAATTCAATAA
*
19638401 ATTTTTATTTGAATTCAAT
1 ATTTTGATTTGAATTCAAT
19638420 TATACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.05, G:0.07, T:0.55
Consensus pattern (21 bp):
ATTTTGATTTGAATTCAATAA
Done.