Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 180 of 222
Found at i:57665071 original size:28 final size:28
Alignment explanation
Indices: 57665040--57665094 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
57665030 TTATAAGACA
57665040 TGTTGATTGAGAAAACT-CAATTGATTGT
1 TGTTGATTGAGAAAA-TGCAATTGATTGT
* *
57665068 TGTTGATTGTGAATATGCAATTGATTG
1 TGTTGATTGAGAAAATGCAATTGATTG
57665095 ATTGAAATAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.04
28 23 0.96
ACGTcount: A:0.29, C:0.05, G:0.24, T:0.42
Consensus pattern (28 bp):
TGTTGATTGAGAAAATGCAATTGATTGT
Found at i:57668348 original size:11 final size:11
Alignment explanation
Indices: 57668334--57668363 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
57668324 TGGACTTTTA
57668334 TTATATTTATT
1 TTATATTTATT
*
57668345 TTATATATATT
1 TTATATTTATT
57668356 TTATATTT
1 TTATATTT
57668364 GGGTTTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTATATTTATT
Found at i:57668746 original size:50 final size:51
Alignment explanation
Indices: 57668613--57668758 Score: 136
Period size: 50 Copynumber: 2.9 Consensus size: 51
57668603 GTAACTCGTA
* *
57668613 ACTGTAATGTCAGGGAAGCAAGGTTCACCATTGTAGCTTTAATCTGTTCCG
1 ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCG
* * * * * * * * *
57668664 -CTGCATTATCTGGGAAGTAATATTTGCTATTGTAGCTTTAATC--TTCTTG
1 ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTC-CG
* * *
57668713 ACTGTAATGTCGGGGACGCAAGATTCGCCATTGTGGCTTTAATCTG
1 ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTG
57668759 CTCCACTACA
Statistics
Matches: 70, Mismatches: 21, Indels: 7
0.71 0.21 0.07
Matches are distributed among these distances:
48 3 0.04
49 1 0.01
50 66 0.94
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (51 bp):
ACTGTAATGTCAGGGAAGCAAGATTCGCCATTGTAGCTTTAATCTGTTCCG
Found at i:57669029 original size:41 final size:41
Alignment explanation
Indices: 57668932--57669220 Score: 132
Period size: 46 Copynumber: 6.7 Consensus size: 41
57668922 CTTCAATTTG
* * *
57668932 CTCCGCTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGATCTA
1 CTCCACTGTAATCTTAGGGAGATAAGACCTG--ATTC---GATCTA
* * *
57668978 TTCCATTGTAATCTTAGGGAGATAAGACCTGATGCGATCTA
1 CTCCACTGTAATCTTAGGGAGATAAGACCTGATTCGATCTA
* * * ** *
57669019 CTCTACTGTAA-CTTCAGAGAGATAAGATCCTTTATTTTAATCTG
1 CTCCACTGTAATCTT-AGGGAGATAAGA-CC-TGA-TTCGATCTA
* * * * * ** * * *
57669063 TTCCACTATAATCTCAGGGAAATATGATTAGTGGCTTCAATCTG
1 CTCCACTGTAATCTTAGGGAGATAAGA--CCT-GATTCGATCTA
* * *
57669107 CTCCGCTGTAATCTTAGGGAGATAAGATCTGTAATTCTTCGGTCTA
1 CTCCACTGTAATCTTAGGGAGATAAGACCTG--A---TTCGATCTA
* * *
57669153 TTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
1 CTCCACTGTAATCTTAGGGAGATAAGACCTGATTCGATCTA
* *
57669194 CTCTACTGTAA-CTTCAGAGAGATAAGA
1 CTCCACTGTAATCTT-AGGGAGATAAGA
57669221 TCCTTTATTT
Statistics
Matches: 181, Mismatches: 49, Indels: 31
0.69 0.19 0.12
Matches are distributed among these distances:
40 5 0.03
41 53 0.29
42 3 0.02
43 2 0.01
44 56 0.31
45 3 0.02
46 59 0.33
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (41 bp):
CTCCACTGTAATCTTAGGGAGATAAGACCTGATTCGATCTA
Found at i:57669130 original size:175 final size:175
Alignment explanation
Indices: 57668775--57669230 Score: 673
Period size: 175 Copynumber: 2.6 Consensus size: 175
57668765 TACATTATCT
** * * * *
57668775 GGGAGATAAGGGCTGAAATTATTCGGTCTATTCCACTGCAATCTCAGGGAGATAATACCTGATAC
1 GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
* * * *
57668840 GATCTGCTCTACTGTAACTTC--AGATATAAGATCATTTATTTTAATCCACTCCACTGTAATCTC
66 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTC
* *
57668903 AAGGAGATAGGATTACTAGCTTCAATTTGCTCCGCTGTAATCTCA
131 AAGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
* * * *
57668948 GGGAGATAAGATCTGAAATTCTTTGATCTATTCCATTGTAATCTTAGGGAGATAAGACCTGATGC
1 GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
***
57669013 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTGTTCCACTATAATCTC
66 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTC
* * * * *
57669078 AGGGAAATATGATTAGTGGCTTCAATCTGCTCCGCTGTAATCTTA
131 AAGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
*
57669123 GGGAGATAAGATCTGTAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
1 GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
57669188 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
66 GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTT
57669231 CGTTGTCGAT
Statistics
Matches: 252, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 75 0.30
175 177 0.70
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (175 bp):
GGGAGATAAGATCTGAAATTCTTCGGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGC
GATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCACTCCACTATAATCTC
AAGGAAATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
Found at i:57669165 original size:46 final size:45
Alignment explanation
Indices: 57668937--57669179 Score: 171
Period size: 44 Copynumber: 5.5 Consensus size: 45
57668927 ATTTGCTCCG
* *
57668937 CTGTAATCTCAGGGAGATAAGATCTGAAATTCTTTGATCTATTCCA
1 CTGTAATCTCAGGGAGATAAGATCTG-TATTCTTCGATCTATTCCA
* * * * * *
57668983 TTGTAATCTTAGGGAGATAAGACCTG-A---TGCGATCTACTCTA
1 CTGTAATCTCAGGGAGATAAGATCTGTATTCTTCGATCTATTCCA
* * * *
57669024 CTGTAA-CTTCAGAGAGATAAGATCCTTTATT-TT-AATCTGTTCCA
1 CTGTAATC-TCAGGGAGATAAGAT-CTGTATTCTTCGATCTATTCCA
* * * ** * ** *
57669068 CTATAATCTCAGGGAAATATGAT-TAGT-GGCTTCAATCTGCTCCG
1 CTGTAATCTCAGGGAGATAAGATCT-GTATTCTTCGATCTATTCCA
* *
57669112 CTGTAATCTTAGGGAGATAAGATCTGTAATTCTTCGGTCTATTCCA
1 CTGTAATCTCAGGGAGATAAGATCTGT-ATTCTTCGATCTATTCCA
57669158 CTGTAATCTCAGGGAGATAAGA
1 CTGTAATCTCAGGGAGATAAGA
57669180 CCTGATGCGA
Statistics
Matches: 147, Mismatches: 38, Indels: 24
0.70 0.18 0.11
Matches are distributed among these distances:
40 1 0.01
41 27 0.18
42 3 0.02
43 4 0.03
44 55 0.37
45 3 0.02
46 54 0.37
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (45 bp):
CTGTAATCTCAGGGAGATAAGATCTGTATTCTTCGATCTATTCCA
Found at i:57689721 original size:19 final size:20
Alignment explanation
Indices: 57689697--57689784 Score: 59
Period size: 19 Copynumber: 4.7 Consensus size: 20
57689687 AATTTATTAC
57689697 AATTTAAACTA-TAATAATA
1 AATTTAAACTACTAATAATA
*
57689716 AATTTAAAC-ACTATTAA-A
1 AATTTAAACTACTAATAATA
*
57689734 AA--TAAA-TATTACA-AATA
1 AATTTAAACTACTA-ATAATA
*
57689751 ATATTAAATACTA-TAATAATA
1 A-ATTTAA-ACTACTAATAATA
57689772 AATTTAAAC-ACTA
1 AATTTAAACTACTA
57689785 TTAAAAATAA
Statistics
Matches: 53, Mismatches: 5, Indels: 22
0.66 0.06 0.28
Matches are distributed among these distances:
16 9 0.17
17 2 0.04
18 6 0.11
19 18 0.34
20 8 0.15
21 8 0.15
22 2 0.04
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
AATTTAAACTACTAATAATA
Found at i:57689740 original size:22 final size:19
Alignment explanation
Indices: 57689697--57689740 Score: 52
Period size: 22 Copynumber: 2.2 Consensus size: 19
57689687 AATTTATTAC
*
57689697 AATTTAAACTATAATAATA
1 AATTTAAACTATAAAAATA
57689716 AATTTAAACACTATTAAAAATA
1 AATTT-AA-ACTA-TAAAAATA
57689738 AAT
1 AAT
57689741 ATTACAAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 5 0.24
20 2 0.10
21 4 0.19
22 10 0.48
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (19 bp):
AATTTAAACTATAAAAATA
Found at i:57689768 original size:15 final size:15
Alignment explanation
Indices: 57689748--57689825 Score: 51
Period size: 15 Copynumber: 5.5 Consensus size: 15
57689738 AATATTACAA
57689748 ATAATATTAAATACT
1 ATAATATTAAATACT
* *
57689763 ATAATAATAAAT-TT
1 ATAATATTAAATACT
* *
57689777 AAACACTATTAAA-AAT
1 ATA-A-TATTAAATACT
*
57689793 A-AATATTACA-A--
1 ATAATATTAAATACT
57689804 ATAATATTAAATACT
1 ATAATATTAAATACT
57689819 ATAATAT
1 ATAATAT
57689826 ATGAAAGTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
11 1 0.02
12 8 0.16
13 8 0.16
14 4 0.08
15 20 0.41
16 8 0.16
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
ATAATATTAAATACT
Found at i:57689775 original size:56 final size:56
Alignment explanation
Indices: 57689704--57689824 Score: 242
Period size: 56 Copynumber: 2.2 Consensus size: 56
57689694 TACAATTTAA
57689704 ACTATAATAATAAATTTAAACACTATTAAAAATAAATATTACAAATAATATTAAAT
1 ACTATAATAATAAATTTAAACACTATTAAAAATAAATATTACAAATAATATTAAAT
57689760 ACTATAATAATAAATTTAAACACTATTAAAAATAAATATTACAAATAATATTAAAT
1 ACTATAATAATAAATTTAAACACTATTAAAAATAAATATTACAAATAATATTAAAT
57689816 ACTATAATA
1 ACTATAATA
57689825 TATGAAAGTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 65 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (56 bp):
ACTATAATAATAAATTTAAACACTATTAAAAATAAATATTACAAATAATATTAAAT
Found at i:57689796 original size:22 final size:23
Alignment explanation
Indices: 57689740--57689800 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 23
57689730 TAAAAATAAA
* *
57689740 TATTACAAAT-AATATTAAATAC
1 TATTAAAAATAAATATTAAACAC
*
57689762 TA-TAATAATAAAT-TTAAACAC
1 TATTAAAAATAAATATTAAACAC
57689783 TATTAAAAATAAATATTA
1 TATTAAAAATAAATATTA
57689801 CAAATAATAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 14 0.44
22 15 0.47
23 3 0.09
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.36
Consensus pattern (23 bp):
TATTAAAAATAAATATTAAACAC
Found at i:57689811 original size:25 final size:23
Alignment explanation
Indices: 57689733--57689814 Score: 71
Period size: 22 Copynumber: 3.6 Consensus size: 23
57689723 ACACTATTAA
*
57689733 AAATAAATATTACAAAT-AATATT
1 AAAT-AATATTAAAAATAAATATT
* *
57689756 AAATACTA-TAATAATAAAT-TT
1 AAATAATATTAAAAATAAATATT
* *
57689777 AAACACTATTAAAAATAAATATT
1 AAATAATATTAAAAATAAATATT
57689800 ACAAATAATATTAAA
1 --AAATAATATTAAA
57689815 TACTATAATA
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
21 14 0.30
22 16 0.34
23 6 0.13
25 11 0.23
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (23 bp):
AAATAATATTAAAAATAAATATT
Found at i:57689816 original size:19 final size:18
Alignment explanation
Indices: 57689736--57689816 Score: 51
Period size: 19 Copynumber: 4.3 Consensus size: 18
57689726 CTATTAAAAA
57689736 TAAATATTACAAATAATAT
1 TAAATATTACAAATAA-AT
57689755 TAAATACTATA-ATAATAAATT
1 TAAATA-T-TACA-AATAAA-T
* * **
57689776 TAAACACTATTAA-AAA-
1 TAAATATTACAAATAAAT
57689792 TAAATATTACAAATAATAT
1 TAAATATTACAAATAA-AT
57689811 TAAATA
1 TAAATA
57689817 CTATAATATA
Statistics
Matches: 47, Mismatches: 7, Indels: 16
0.67 0.10 0.23
Matches are distributed among these distances:
16 9 0.19
17 2 0.04
18 4 0.09
19 16 0.34
20 3 0.06
21 13 0.28
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
TAAATATTACAAATAAAT
Found at i:57696236 original size:16 final size:16
Alignment explanation
Indices: 57696215--57696248 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
57696205 CCAATATCCA
* *
57696215 ATTATCATATTTGCAC
1 ATTATCACATTTACAC
57696231 ATTATCACATTTACAC
1 ATTATCACATTTACAC
57696247 AT
1 AT
57696249 ATATATTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.03, T:0.41
Consensus pattern (16 bp):
ATTATCACATTTACAC
Found at i:57696325 original size:20 final size:19
Alignment explanation
Indices: 57696295--57696335 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
57696285 TAATATATAT
57696295 ATCAATTTAA-TCCATTTCA
1 ATCAATTTAATTCCA-TTCA
57696314 ATCAACTTTAATTCCATTCA
1 ATCAA-TTTAATTCCATTCA
57696334 AT
1 AT
57696336 ATTAAAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 11 0.55
21 4 0.20
ACGTcount: A:0.37, C:0.22, G:0.00, T:0.41
Consensus pattern (19 bp):
ATCAATTTAATTCCATTCA
Found at i:57701100 original size:25 final size:27
Alignment explanation
Indices: 57701045--57701110 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
57701035 TTTGAACATT
* *
57701045 TTTAAATTCTTAATTTGGAATTTGTAC
1 TTTAAGTTTTTAATTTGGAATTTGTAC
* * **
57701072 TTT-A-TTTTTAATTTGGATTTTTTTG
1 TTTAAGTTTTTAATTTGGAATTTGTAC
57701097 TTTAAGTTTTTAAT
1 TTTAAGTTTTTAAT
57701111 GAATTAGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 19 0.59
26 2 0.06
27 11 0.34
ACGTcount: A:0.24, C:0.03, G:0.11, T:0.62
Consensus pattern (27 bp):
TTTAAGTTTTTAATTTGGAATTTGTAC
Found at i:57701363 original size:15 final size:15
Alignment explanation
Indices: 57701340--57701369 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
57701330 AAAAAATTTA
57701340 ATTTAATTTTGTTTT
1 ATTTAATTTTGTTTT
*
57701355 ATTTTATTTTGTTTT
1 ATTTAATTTTGTTTT
57701370 TAGTAGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (15 bp):
ATTTAATTTTGTTTT
Found at i:57708209 original size:30 final size:30
Alignment explanation
Indices: 57708175--57708237 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
57708165 TAAAAACACC
*
57708175 TTAGAAACATTTGGAAAGTCAAAGAAAACG
1 TTAGAAAAATTTGGAAAGTCAAAGAAAACG
**
57708205 TTAGAAAAATTTGGAAAGTTGAAGAAAACG
1 TTAGAAAAATTTGGAAAGTCAAAGAAAACG
57708235 TTA
1 TTA
57708238 CAACTCTCCC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.49, C:0.06, G:0.21, T:0.24
Consensus pattern (30 bp):
TTAGAAAAATTTGGAAAGTCAAAGAAAACG
Found at i:57712435 original size:39 final size:39
Alignment explanation
Indices: 57712390--57712467 Score: 147
Period size: 39 Copynumber: 2.0 Consensus size: 39
57712380 ACCATTTTTC
*
57712390 AACATACTTCTTTTTAAACTCGGTCTGAACGAAACCCTA
1 AACATACTTCTTTTTAAACTCAGTCTGAACGAAACCCTA
57712429 AACATACTTCTTTTTAAACTCAGTCTGAACGAAACCCTA
1 AACATACTTCTTTTTAAACTCAGTCTGAACGAAACCCTA
57712468 GGAAACTTTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.35, C:0.26, G:0.09, T:0.31
Consensus pattern (39 bp):
AACATACTTCTTTTTAAACTCAGTCTGAACGAAACCCTA
Found at i:57714464 original size:35 final size:35
Alignment explanation
Indices: 57714315--57714466 Score: 178
Period size: 35 Copynumber: 4.3 Consensus size: 35
57714305 AATCTAACCA
* * *
57714315 AAACACACTAGATGCTCATAAGAGCCAATCCATCTG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCCG
* ** *
57714351 AAACACACTAATGCTTGTAAGAGCTAATCCCTCCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCG
* * *
57714386 AAACACACCAATGCTCATTAGAGCTAATCCGTCCA
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCG
* * *
57714421 AAACACACCAATGCTCATAAGAGCTAGTCTAACCG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCG
57714456 AAACACACCAA
1 AAACACACCAA
57714467 AACAGAGAGT
Statistics
Matches: 99, Mismatches: 17, Indels: 1
0.85 0.15 0.01
Matches are distributed among these distances:
35 89 0.90
36 10 0.10
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.18
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCG
Found at i:57719729 original size:19 final size:18
Alignment explanation
Indices: 57719707--57719745 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
57719697 GAAATAAATT
57719707 AAAATAATTAATTAAGATAA
1 AAAATAA-TAATTAA-ATAA
57719727 AAAATAATAATTAAATAA
1 AAAATAATAATTAAATAA
57719745 A
1 A
57719746 TCAAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 7 0.37
20 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (18 bp):
AAAATAATAATTAAATAA
Found at i:57722430 original size:29 final size:29
Alignment explanation
Indices: 57722371--57722431 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
57722361 GTTTTAATTC
* *
57722371 TTTTCATAATTTTATGTTTTTAAATATAA
1 TTTTCATAATTTTATGTTTTCAAATAAAA
* * **
57722400 TTTTTATATTTTTATGTTTTCATTTAAAA
1 TTTTCATAATTTTATGTTTTCAAATAAAA
57722429 TTT
1 TTT
57722432 AACATTTAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTTCATAATTTTATGTTTTCAAATAAAA
Found at i:57722865 original size:7 final size:7
Alignment explanation
Indices: 57722849--57722890 Score: 75
Period size: 7 Copynumber: 6.0 Consensus size: 7
57722839 CGAATATAGG
57722849 GTTTCCA
1 GTTTCCA
*
57722856 GTTTCTA
1 GTTTCCA
57722863 GTTTCCA
1 GTTTCCA
57722870 GTTTCCA
1 GTTTCCA
57722877 GTTTCCA
1 GTTTCCA
57722884 GTTTCCA
1 GTTTCCA
57722891 TTCCCCGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.14, C:0.26, G:0.14, T:0.45
Consensus pattern (7 bp):
GTTTCCA
Found at i:57725526 original size:15 final size:16
Alignment explanation
Indices: 57725506--57725538 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
57725496 TAAAAAACTA
57725506 ATAAAATAAAT-TTTT
1 ATAAAATAAATATTTT
*
57725521 ATAAAATCAATATTTT
1 ATAAAATAAATATTTT
57725537 AT
1 AT
57725539 TGGTAATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAATAAATATTTT
Found at i:57730283 original size:24 final size:24
Alignment explanation
Indices: 57730256--57730305 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
57730246 TAACAAAGTA
57730256 CATAATTTGTAATAGGTATCAAAT
1 CATAATTTGTAATAGGTATCAAAT
57730280 CATAATTTGTAATAGGTATCAAAT
1 CATAATTTGTAATAGGTATCAAAT
57730304 CA
1 CA
57730306 CATACGTACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (24 bp):
CATAATTTGTAATAGGTATCAAAT
Found at i:57730529 original size:42 final size:42
Alignment explanation
Indices: 57730435--57730529 Score: 145
Period size: 42 Copynumber: 2.3 Consensus size: 42
57730425 GCTAGGCTCA
*
57730435 AGCCTGATAAAAATTCACCGGCACTACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCGGCACTACGCCTGCTAGGCTTTT
* *
57730477 AGTCTGATATAAATTCACCTGCACTACGCCTGCTAGGCTTTT
1 AGCCTGATATAAATTCACCGGCACTACGCCTGCTAGGCTTTT
* *
57730519 GGCCTCATATA
1 AGCCTGATATA
57730530 TCACACTAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (42 bp):
AGCCTGATATAAATTCACCGGCACTACGCCTGCTAGGCTTTT
Found at i:57739758 original size:24 final size:23
Alignment explanation
Indices: 57739724--57739770 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 23
57739714 TCAAACTTTT
57739724 AATTTTTTTTC-AAGTATGCTTC
1 AATTTTTTTTCAAAGTATGCTTC
57739746 AATTATTTCTTTCATAAGTATGCTT
1 AATT-TTT-TTTCA-AAGTATGCTT
57739771 TAATAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 4 0.19
23 3 0.14
24 4 0.19
26 10 0.48
ACGTcount: A:0.26, C:0.13, G:0.09, T:0.53
Consensus pattern (23 bp):
AATTTTTTTTCAAAGTATGCTTC
Found at i:57742729 original size:31 final size:32
Alignment explanation
Indices: 57742693--57742757 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
57742683 CTTAGATAAT
57742693 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
57742724 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
57742756 TT
1 TT
57742758 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:57743272 original size:10 final size:10
Alignment explanation
Indices: 57743251--57743395 Score: 73
Period size: 10 Copynumber: 14.1 Consensus size: 10
57743241 TTCTTTAAAT
57743251 AAAAGCAAAAA
1 AAAAGC-AAAA
57743262 AAATAGC-AAA
1 AAA-AGCAAAA
* *
57743272 AACAGTAAAA
1 AAAAGCAAAA
*
57743282 AAAAAC-AAA
1 AAAAGCAAAA
57743291 AAAAGCAAAA
1 AAAAGCAAAA
**
57743301 AAGCGCAAAA
1 AAAAGCAAAA
* *
57743311 AAGAG-TAAA
1 AAAAGCAAAA
**
57743320 AAGCGCAAAAA
1 AAAAGC-AAAA
*
57743331 AAAAACAAAA
1 AAAAGCAAAA
57743341 AAAAGCAAAAA
1 AAAAGC-AAAA
57743352 AAAAGCGCAAAA
1 AAAA--GCAAAA
*
57743364 AAAGAG-TAAA
1 AAA-AGCAAAA
**
57743374 AAGCGCAAAAA
1 AAAAGC-AAAA
57743385 AAAAGCAAAA
1 AAAAGCAAAA
57743395 A
1 A
57743396 GTAAAAAAGC
Statistics
Matches: 101, Mismatches: 22, Indels: 23
0.69 0.15 0.16
Matches are distributed among these distances:
9 18 0.18
10 45 0.45
11 25 0.25
12 10 0.10
13 3 0.03
ACGTcount: A:0.74, C:0.11, G:0.12, T:0.03
Consensus pattern (10 bp):
AAAAGCAAAA
Found at i:57743281 original size:19 final size:19
Alignment explanation
Indices: 57743258--57743353 Score: 68
Period size: 19 Copynumber: 4.9 Consensus size: 19
57743248 AATAAAAGCA
*
57743258 AAAAAAATAGCAAAAACAGT
1 AAAAAAA-AGCAAAAAAAGT
* *
57743278 AAAAAAAAACAAAAAAAGC
1 AAAAAAAAGCAAAAAAAGT
**
57743297 AAAAAAGCGCAAAAAAGAGT
1 AAAAAAAAGCAAAAAA-AGT
** **
57743317 -AAAAAGCGCAAAAAAAAAAC
1 AAAAAAAAGC--AAAAAAAGT
57743337 AAAAAAAAGCAAAAAAA
1 AAAAAAAAGCAAAAAAA
57743354 AAGCGCAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
19 38 0.62
20 10 0.16
21 13 0.21
ACGTcount: A:0.76, C:0.10, G:0.10, T:0.03
Consensus pattern (19 bp):
AAAAAAAAGCAAAAAAAGT
Found at i:57743375 original size:34 final size:33
Alignment explanation
Indices: 57743317--57743390 Score: 94
Period size: 33 Copynumber: 2.2 Consensus size: 33
57743307 AAAAAAGAGT
57743317 AAAAAGCGCAAAAAAAAAACAAAAAAAAGCAAAA
1 AAAAAGCGCAAAAAAAAAAC-AAAAAAAGCAAAA
* ** **
57743351 AAAAAGCGCAAAAAAAGAGTAAAAAGCGCAAAA
1 AAAAAGCGCAAAAAAAAAACAAAAAAAGCAAAA
57743384 AAAAAGC
1 AAAAAGC
57743391 AAAAAGTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
33 18 0.51
34 17 0.49
ACGTcount: A:0.73, C:0.12, G:0.14, T:0.01
Consensus pattern (33 bp):
AAAAAGCGCAAAAAAAAAACAAAAAAAGCAAAA
Found at i:57743379 original size:54 final size:50
Alignment explanation
Indices: 57743278--57743413 Score: 190
Period size: 54 Copynumber: 2.7 Consensus size: 50
57743268 CAAAAACAGT
57743278 AAAAAAAAAC-AAAAAAAGCAAAAAAGCGCAAAAAAGAGTAAAAAGCGCA
1 AAAAAAAAACAAAAAAAAGCAAAAAAGCGCAAAAAAGAGTAAAAAGCGCA
57743327 AAAAAAAAACAAAAAAAAGCAAAAAAAAAGCGCAAAAAAAGAGTAAAAAGCGCA
1 AAAAAAAAACAAAAAAAAGC---AAAAAAGCGC-AAAAAAGAGTAAAAAGCGCA
* *
57743381 AAAAAAAAGC---AAAAAGTAAAAAAGCGCAAAAAA
1 AAAAAAAAACAAAAAAAAGCAAAAAAGCGCAAAAAA
57743414 AAAGTTTCCT
Statistics
Matches: 80, Mismatches: 2, Indels: 12
0.85 0.02 0.13
Matches are distributed among these distances:
47 6 0.08
48 10 0.12
49 10 0.12
50 9 0.11
51 6 0.08
53 10 0.12
54 29 0.36
ACGTcount: A:0.74, C:0.11, G:0.13, T:0.02
Consensus pattern (50 bp):
AAAAAAAAACAAAAAAAAGCAAAAAAGCGCAAAAAAGAGTAAAAAGCGCA
Found at i:57743394 original size:20 final size:20
Alignment explanation
Indices: 57743288--57743396 Score: 97
Period size: 20 Copynumber: 5.8 Consensus size: 20
57743278 AAAAAAAAAC
57743288 AAAAAAAGCAAAAAAGCGC-A
1 AAAAAAAGC-AAAAAGCGCAA
* *
57743308 AAAAAGAGTAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCGCAA
*
57743328 AAAAAAAACAAAAA----AA
1 AAAAAAAGCAAAAAGCGCAA
**
57743344 AGCAAAA--AAAAAGCGCAA
1 AAAAAAAGCAAAAAGCGCAA
* *
57743362 AAAAAGAGTAAAAAGCGCAA
1 AAAAAAAGCAAAAAGCGCAA
57743382 AAAAAAAGCAAAAAG
1 AAAAAAAGCAAAAAG
57743397 TAAAAAAGCG
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
14 5 0.07
16 7 0.10
18 6 0.09
19 9 0.13
20 43 0.61
ACGTcount: A:0.72, C:0.11, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAAAAAGCAAAAAGCGCAA
Found at i:57743415 original size:20 final size:19
Alignment explanation
Indices: 57743288--57743387 Score: 86
Period size: 19 Copynumber: 5.4 Consensus size: 19
57743278 AAAAAAAAAC
57743288 AAAAAAAGCAAAAAAGCGCA
1 AAAAAAAG-AAAAAAGCGCA
* *
57743308 AAAAAGAGTAAAAAGCGCA
1 AAAAAAAGAAAAAAGCGCA
57743327 AAAAAAA-AACAAAA----A
1 AAAAAAAGAA-AAAAGCGCA
*
57743342 AAAGCAAA-AAAAAAGCGCA
1 AAA-AAAAGAAAAAAGCGCA
*
57743361 AAAAAAGAGTAAAAAGCGCA
1 AAAAAA-AGAAAAAAGCGCA
57743381 AAAAAAA
1 AAAAAAA
57743388 AGCAAAAAGT
Statistics
Matches: 65, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
15 8 0.12
16 5 0.08
18 3 0.05
19 26 0.40
20 23 0.35
ACGTcount: A:0.73, C:0.11, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAGAAAAAAGCGCA
Found at i:57743417 original size:28 final size:28
Alignment explanation
Indices: 57743309--57743417 Score: 99
Period size: 28 Copynumber: 4.0 Consensus size: 28
57743299 AAAAGCGCAA
57743309 AAAAGAGTAAAAAGCGCAAAAAAAAA--
1 AAAAGAGTAAAAAGCGCAAAAAAAAAGC
*
57743335 ACAA-A--AAAAA--GCAAAAAAAAAGCGC
1 AAAAGAGTAAAAAGCGCAAAAAAAAA--GC
57743360 AAAAAAAGAGTAAAAAGCGCAAAAAAAAAGC
1 ---AAAAGAGTAAAAAGCGCAAAAAAAAAGC
57743391 AAAA-AGTAAAAAAGCGCAAAAAAAAAG
1 AAAAGAGT-AAAAAGCGCAAAAAAAAAG
57743418 TTTCCTACCT
Statistics
Matches: 68, Mismatches: 2, Indels: 24
0.72 0.02 0.26
Matches are distributed among these distances:
21 11 0.16
23 5 0.07
25 1 0.01
26 3 0.04
27 3 0.04
28 26 0.38
29 1 0.01
31 7 0.10
33 11 0.16
ACGTcount: A:0.72, C:0.10, G:0.15, T:0.03
Consensus pattern (28 bp):
AAAAGAGTAAAAAGCGCAAAAAAAAAGC
Found at i:57746606 original size:31 final size:32
Alignment explanation
Indices: 57746570--57746634 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
57746560 CTTAGATAAT
57746570 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
57746601 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
57746633 TT
1 TT
57746635 GTAATTTGCC
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 9 0.27
32 24 0.73
ACGTcount: A:0.31, C:0.09, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTAAAGAGTTTTTATTAGGATTCAATTACTC
Found at i:57747967 original size:42 final size:43
Alignment explanation
Indices: 57747899--57748024 Score: 148
Period size: 42 Copynumber: 3.0 Consensus size: 43
57747889 AAGGCTGCAC
* * * * *
57747899 AGAAGCACATAAGTGCTAAACAGAAACCCGTAAGGGTTGAA-T
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
*
57747941 AGAAGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAAACT
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
* * * *
57747984 -GAAGCTCAAAAGAGCTGAACAAAAACCTATTAGGGTTAAAC
1 AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAAC
57748025 GGAAACTCAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
42 71 0.99
43 1 0.01
ACGTcount: A:0.44, C:0.17, G:0.22, T:0.17
Consensus pattern (43 bp):
AGAAGCTCATAAGAGCTGAACAGAAACCCATAAGGGTTAAACT
Found at i:57755095 original size:18 final size:18
Alignment explanation
Indices: 57755072--57755116 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
57755062 CGTTCGTTTC
57755072 CAAATCATTATTC-ATTT
1 CAAATCATTATTCAATTT
57755089 ACAAATCATTATTCAATTT
1 -CAAATCATTATTCAATTT
*
57755108 CAAAACATT
1 CAAATCATT
57755117 TTTCTTATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (18 bp):
CAAATCATTATTCAATTT
Found at i:57758042 original size:15 final size:15
Alignment explanation
Indices: 57758017--57758051 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57758007 GACTCTATTT
*
57758017 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
57758031 TAATTAATATTAAGA
1 TAATTAATATTAAGA
57758046 TAATTA
1 TAATTA
57758052 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:57764474 original size:4 final size:4
Alignment explanation
Indices: 57764456--57764535 Score: 51
Period size: 4 Copynumber: 19.5 Consensus size: 4
57764446 CCCAATTTTT
*
57764456 TTTA TTT- TTTA -TTA TTTA TTTA -TTA TTTTA TTTTA TTTTC TTTA CTTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA -TTTA -TTTA TTTA -TTTA
**
57764505 TTTA TTGC TTTA TTTTA TTT- TATTA TTTA TT
1 TTTA TTTA TTTA -TTTA TTTA T-TTA TTTA TT
57764536 ACTTATTTGG
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
3 10 0.16
4 31 0.50
5 21 0.34
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:57764488 original size:5 final size:5
Alignment explanation
Indices: 57764450--57764528 Score: 51
Period size: 5 Copynumber: 15.6 Consensus size: 5
57764440 AGGCAACCCA
57764450 ATTTT -TTTT ATTTT -TTATT A-TTT ATTTATT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATT-TT ATTTT A-TT-TT ATTTT ATTTT ATTTT
* *
57764495 -CTTT ACTTT A-TTT ATTGCTTT ATTTT ATTTT ATT
1 ATTTT ATTTT ATTTT A-T--TTT ATTTT ATTTT ATT
57764529 ATTTATTACT
Statistics
Matches: 62, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
4 16 0.26
5 35 0.56
6 3 0.05
7 4 0.06
8 4 0.06
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.76
Consensus pattern (5 bp):
ATTTT
Found at i:57764490 original size:31 final size:31
Alignment explanation
Indices: 57764450--57764543 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 31
57764440 AGGCAACCCA
57764450 ATTTT-TTTTATTTTTTATTATTTATTTATT
1 ATTTTATTTTATTTTTTATTATTTATTTATT
*
57764480 ATTTTATTTTATTTTCT-TTACTTTATTTATT
1 ATTTTATTTTATTTTTTATTA-TTTATTTATT
**
57764511 GCTTTATTTTA--TTTTATTATTTA-TTACTT
1 ATTTTATTTTATTTTTTATTATTTATTTA-TT
57764540 ATTT
1 ATTT
57764544 GGATATTAAT
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
28 3 0.06
29 11 0.20
30 11 0.20
31 29 0.54
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (31 bp):
ATTTTATTTTATTTTTTATTATTTATTTATT
Found at i:57764727 original size:22 final size:21
Alignment explanation
Indices: 57764678--57764737 Score: 57
Period size: 22 Copynumber: 2.8 Consensus size: 21
57764668 GCCCAGAATG
* *
57764678 CCTGCAGCCAAACTACCCTATT
1 CCTGCAGCC-AACCACCCTATC
*
57764700 CTTGCAGCCAACCACCCTTATC
1 CCTGCAGCCAACCACCC-TATC
* *
57764722 CCTGCACCCAAGCACC
1 CCTGCAGCCAACCACC
57764738 ACCCCTCAGC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 7 0.23
22 24 0.77
ACGTcount: A:0.25, C:0.47, G:0.10, T:0.18
Consensus pattern (21 bp):
CCTGCAGCCAACCACCCTATC
Found at i:57765850 original size:6 final size:6
Alignment explanation
Indices: 57765839--57765897 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
57765829 TTCCTAAAGC
* *
57765839 ATAAAA ATAAAA ATAATAA AT--AA ATAAAA ATCAAA ATAAAT A-AAAA
1 ATAAAA ATAAAA ATAA-AA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* *
57765885 AGAAAA AGAAAA A
1 ATAAAA ATAAAA A
57765898 AATATAATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 33 0.73
7 4 0.09
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.15
Consensus pattern (6 bp):
ATAAAA
Found at i:57765865 original size:23 final size:22
Alignment explanation
Indices: 57765839--57765901 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
57765829 TTCCTAAAGC
57765839 ATAAAAATAAAAATAATAAATAA
1 ATAAAAATAAAAATAATAAA-AA
*
57765862 ATAAAAATCAAAATAAATAAAAA
1 ATAAAAATAAAAAT-AATAAAAA
* *
57765885 AGAAAAAGAAAAA-AATA
1 ATAAAAATAAAAATAATA
57765902 TAATTTGGGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 4 0.11
23 25 0.71
24 6 0.17
ACGTcount: A:0.79, C:0.02, G:0.03, T:0.16
Consensus pattern (22 bp):
ATAAAAATAAAAATAATAAAAA
Found at i:57765885 original size:17 final size:17
Alignment explanation
Indices: 57765843--57765884 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
57765833 TAAAGCATAA
57765843 AAATAAAAATAATAAAT
1 AAATAAAAATAATAAAT
*
57765860 AAATAAAAATCA-AAAT
1 AAATAAAAATAATAAAT
57765876 AAATAAAAA
1 AAATAAAAA
57765885 AGAAAAAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (17 bp):
AAATAAAAATAATAAAT
Found at i:57765891 original size:17 final size:16
Alignment explanation
Indices: 57765843--57765891 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
57765833 TAAAGCATAA
*
57765843 AAATAAAAATAATAAAT
1 AAATAAAAA-AAAAAAT
**
57765860 AAATAAAAATCAAAAT
1 AAATAAAAAAAAAAAT
57765876 AAATAAAAAAGAAAAA
1 AAATAAAAAA-AAAAA
57765892 GAAAAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (16 bp):
AAATAAAAAAAAAAAT
Found at i:57766478 original size:15 final size:15
Alignment explanation
Indices: 57766453--57766487 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
57766443 AACTCTATTT
*
57766453 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
57766467 TAATTAATATTAAGA
1 TAATTAATATTAAGA
57766482 TAATTA
1 TAATTA
57766488 TTAAGGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:57771406 original size:5 final size:5
Alignment explanation
Indices: 57771396--57771525 Score: 242
Period size: 5 Copynumber: 26.0 Consensus size: 5
57771386 ATATGAACAT
57771396 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
57771446 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATA ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG ATATG
*
57771496 ATATG GTATG ATATG ATATG ATATG ATATG
1 ATATG ATATG ATATG ATATG ATATG ATATG
57771526 TGCTATAAGC
Statistics
Matches: 121, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 121 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATATG
Found at i:57775968 original size:51 final size:51
Alignment explanation
Indices: 57775852--57776241 Score: 443
Period size: 51 Copynumber: 7.7 Consensus size: 51
57775842 TCATTCAATA
*
57775852 CACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAG-TTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
57775902 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
57775953 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
* * ** * *
57776004 CACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTT-CGATA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGGTT
* * * * * *
57776055 CACATAGTAGCCTTCACTTAGTACTACACATGTGA-CCA-TCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTTA-CGGTT
* * * * *
57776106 CACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTA
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGGTT
* * * * * * *
57776157 CACATTGTAGCCTTCACTTAGTACTACACATGTGA-CCA-TCATTTATCGATT
1 CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTTA-CGGTT
*
57776208 CACGTAGTAGCCTTCACACAGTACTACACACGTG
1 CACGTAGTAGCCTTCACATAGTACTACACACGTG
57776242 TTCATCGATA
Statistics
Matches: 290, Mismatches: 39, Indels: 21
0.83 0.11 0.06
Matches are distributed among these distances:
49 7 0.02
50 41 0.14
51 232 0.80
52 7 0.02
53 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (51 bp):
CACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGTTTTTACGGTT
Found at i:57776037 original size:102 final size:102
Alignment explanation
Indices: 57775850--57776241 Score: 499
Period size: 102 Copynumber: 3.9 Consensus size: 102
57775840 TATCATTCAA
* * *
57775850 TACACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGT--TTTA-CGGTTCACGTAGTAG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGA-CAA-TCATTTATCGATTCACGTAGTAG
* * *
57775912 CCTTCACATAGTACTACACACGTGATC-AAGTTTTTACGG
64 CCTTCACACAGTACTACACACGTGACCAAAGCTTTT-CGG
* * * * *
57775951 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGATCAAGT-TTTTA-CGGTTCACATAGTAG
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGA-CAA-TCATTTATCGATTCACGTAGTAG
* * *
57776014 CCTTCACATAGTACTACACACGTGACCAAAACTTTTCGA
64 CCTTCACACAGTACTACACACGTGACCAAAGCTTTTCGG
* * *
57776053 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACAATCATTTATCGATTCACGTAGTAGCC
*
57776118 TTCACACAGTACTACACACGTGACCAAAGCTTCTCGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTTTCGG
* * * *
57776155 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACAATCATTTATCGATTCACGTAGTAGCC
57776220 TTCACACAGTACTACACACGTG
66 TTCACACAGTACTACACACGTG
57776242 TTCATCGATA
Statistics
Matches: 267, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
100 1 0.00
101 47 0.18
102 213 0.80
103 6 0.02
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACATAGTACTACACACGTGACAATCATTTATCGATTCACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAAGCTTTTCGG
Found at i:57776122 original size:153 final size:151
Alignment explanation
Indices: 57775850--57776241 Score: 493
Period size: 153 Copynumber: 2.6 Consensus size: 151
57775840 TATCATTCAA
* * * * *
57775850 TACACGTAGTAGCCTCCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCT
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTT-CGATTCACGTAGTAGCCT
* * * *
57775915 TCACATAGTACTACACACGTGATCAAGTTTTTACGGTTCACGTAGTAGCCTTCACATAGTACTAC
65 TCACATAGTACTACACACGTGACCAAGTTTATACGATTCACGTAGTAGCCTTCACACAGTACTAC
* * *
57775980 ACACGTGATC-AAGTTTTTACGG
130 ACACGTGACCAAAGCTTCT-CGG
* * *
57776002 TTCACATAGTAGCCTTCACATAGTACTACACACGTGACCAAAACTTTTCGATACACATAGTAGCC
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACC-AAA-TTTTCGATTCACGTAGTAGCC
* *
57776067 TTCACTTAGTACTACACATGTGACCATCA-TTTAT-CGATTCACGTAGTAGCCTTCACACAGTAC
64 TTCACATAGTACTACACACGTGACCA--AGTTTATACGATTCACGTAGTAGCCTTCACACAGTAC
57776130 TACACACGTGACCAAAGCTTCTCGG
127 TACACACGTGACCAAAGCTTCTCGG
* * * *
57776155 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACATAGTACTACACACGTGACCA-AATTT-TCGATTCACGTAGTAGCC
*
57776220 TTCACACAGTACTACACACGTG
64 TTCACATAGTACTACACACGTG
57776242 TTCATCGATA
Statistics
Matches: 206, Mismatches: 27, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
152 39 0.19
153 152 0.74
154 14 0.07
155 1 0.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (151 bp):
TACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAATTTTCGATTCACGTAGTAGCCTT
CACATAGTACTACACACGTGACCAAGTTTATACGATTCACGTAGTAGCCTTCACACAGTACTACA
CACGTGACCAAAGCTTCTCGG
Found at i:57785353 original size:20 final size:20
Alignment explanation
Indices: 57785311--57785356 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
57785301 TAGAAATATT
* *
57785311 GATACCTTAGGAAATATAAC
1 GATACCTTAAGAAAGATAAC
* *
57785331 GATACCTTAAGAAAGGTATC
1 GATACCTTAAGAAAGATAAC
57785351 GATACC
1 GATACC
57785357 GAGGATACCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (20 bp):
GATACCTTAAGAAAGATAAC
Found at i:57789457 original size:12 final size:11
Alignment explanation
Indices: 57789440--57789473 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
57789430 GCCTATATGT
57789440 CAGGCCGTGTGG
1 CAGGCCGTGT-G
57789452 CAGGCCGTGTG
1 CAGGCCGTGTG
57789463 CTAGGCCGTGT
1 C-AGGCCGTGT
57789474 AACAACTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 2 0.10
12 19 0.90
ACGTcount: A:0.09, C:0.26, G:0.44, T:0.21
Consensus pattern (11 bp):
CAGGCCGTGTG
Found at i:57791660 original size:52 final size:49
Alignment explanation
Indices: 57791575--57791941 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
57791565 TTTGAGTACT
* ** *
57791575 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57791621 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57791673 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGTTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57791719 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
57791771 TCTGATCAAGT---AATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
57791817 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
57791869 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57791915 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
57791942 GCTGCACTTA
Statistics
Matches: 289, Mismatches: 14, Indels: 36
0.85 0.04 0.11
Matches are distributed among these distances:
46 152 0.53
48 2 0.01
49 7 0.02
50 3 0.01
52 125 0.43
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:57791695 original size:98 final size:98
Alignment explanation
Indices: 57791575--57791930 Score: 586
Period size: 98 Copynumber: 3.6 Consensus size: 98
57791565 TTTGAGTACT
* *
57791575 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
57791640 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
57791673 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGTTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
57791738 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
57791771 TCTGATCAAGTAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
57791836 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
57791869 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
57791931 AGTGATAAGT
Statistics
Matches: 242, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 242 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:57791953 original size:37 final size:37
Alignment explanation
Indices: 57791905--57792050 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
57791895 GATAGCTTTA
*
57791905 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57791942 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57791979 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
57792016 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
57792051 ATCATATGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:57793367 original size:49 final size:49
Alignment explanation
Indices: 57793306--57793449 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
57793296 ATGTGAACAT
* *
57793306 GTGATTATGTGATTCCGTGTAAGACCATAGCTGGGCTGTGGCATCGGTAA
1 GTGA-TATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
57793356 GTGATATGTGATTTCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
57793405 GTGATTTGTGATTATGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCG
57793450 AGAAAACGAA
Statistics
Matches: 86, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.95
50 4 0.05
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.33
Consensus pattern (49 bp):
GTGATATGTGATTACGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:57796657 original size:52 final size:49
Alignment explanation
Indices: 57796572--57796938 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
57796562 TTTGAGTACT
* ** *
57796572 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57796618 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57796670 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGTTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57796716 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
57796768 TCTGATCAAGT---AATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
57796814 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* ** *
57796866 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
57796912 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
57796939 GCTGCACTTA
Statistics
Matches: 289, Mismatches: 14, Indels: 36
0.85 0.04 0.11
Matches are distributed among these distances:
46 152 0.53
48 2 0.01
49 7 0.02
50 3 0.01
52 125 0.43
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:57796692 original size:98 final size:98
Alignment explanation
Indices: 57796572--57796927 Score: 586
Period size: 98 Copynumber: 3.6 Consensus size: 98
57796562 TTTGAGTACT
* *
57796572 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
57796637 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
57796670 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGTTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
57796735 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * *
57796768 TCTGATCAAGTAATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
57796833 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* * * *
57796866 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAA
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
57796928 AGTGATAAGT
Statistics
Matches: 242, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 242 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (98 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:57796950 original size:37 final size:37
Alignment explanation
Indices: 57796902--57797047 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
57796892 GATAGCTTTA
*
57796902 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57796939 GCTGCACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
57796976 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
57797013 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
57797048 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:57801663 original size:38 final size:38
Alignment explanation
Indices: 57801620--57801740 Score: 104
Period size: 38 Copynumber: 3.2 Consensus size: 38
57801610 TTTTAGTCAA
* *
57801620 AATATAAAAGACATGGAAATTAATATCCTTTTGGAAAG
1 AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
* * * * **
57801658 AATATAATTAGTATAT-GAATTTAAT-TAATTTCAGCCAA-
1 AATATAA-AAG-ATATGGAAATTAATATACTTT-TGGAAAG
* *
57801696 AATATAAAAGATATGAAAATTAATATTCTTTTGGAAAG
1 AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
57801734 AATATAA
1 AATATAA
57801741 TTAATATATG
Statistics
Matches: 61, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
36 4 0.07
37 12 0.20
38 29 0.48
39 13 0.21
40 3 0.05
ACGTcount: A:0.49, C:0.06, G:0.12, T:0.34
Consensus pattern (38 bp):
AATATAAAAGATATGGAAATTAATATACTTTTGGAAAG
Found at i:57801666 original size:137 final size:138
Alignment explanation
Indices: 57801388--57801679 Score: 471
Period size: 137 Copynumber: 2.1 Consensus size: 138
57801378 ACATAGATAA
57801388 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
** *
57801453 TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGATGTGGAAATTAATATTCTTTTGGA
66 TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGA
57801518 AAGAATAT
131 AAGAATAT
* * * * *
57801526 AATTAACATATGAATTTGATTCATACAAAATATTAATTGTCTATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
*
57801591 TAAA-AATTGTATTAATTAATTTTA-GTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGG
66 TAAACAATTATATTAATTAA-TTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGG
57801654 AAAGAATAT
130 AAAGAATAT
*
57801663 AATTAGTATATGAATTT
1 AATTAATATATGAATTT
57801680 AATTAATTTC
Statistics
Matches: 142, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
137 74 0.52
138 68 0.48
ACGTcount: A:0.45, C:0.05, G:0.09, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAAATTATAAATA
TAAACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGA
AAGAATAT
Found at i:57801686 original size:76 final size:76
Alignment explanation
Indices: 57801602--57801755 Score: 254
Period size: 76 Copynumber: 2.0 Consensus size: 76
57801592 AAAAATTGTA
* * *
57801602 TTAATTAATTTTAGTCAAAATATAAAAGACATGGAAATTAATATCCTTTTGGAAAGAATATAATT
1 TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
*
57801667 AGTATATGAAT
66 AATATATGAAT
* *
57801678 TTAATTAATTTCAGCCAAAATATAAAAGATATGAAAATTAATATTCTTTTGGAAAGAATATAATT
1 TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
57801743 AATATATGAAT
66 AATATATGAAT
57801754 TT
1 TT
57801756 GATTCATACA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 72 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (76 bp):
TTAATTAATTTCAGCCAAAATATAAAAGACATGAAAATTAATATCCTTTTGGAAAGAATATAATT
AATATATGAAT
Found at i:57802008 original size:73 final size:73
Alignment explanation
Indices: 57801823--57802037 Score: 317
Period size: 75 Copynumber: 2.9 Consensus size: 73
57801813 ATAAAAGATA
* * *
57801823 TGGAAAGAATATAATTCATTTGTCTAACTTTTCATTTGTCTTCTCTATTAAAAAGATG-ATAATC
1 TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGA-GAATAATC
57801887 CTATATTTT
65 CTATATTTT
* *
57801896 TGGGGAAATAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGGGAATAAT
1 T--GGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAAT
57801961 CCTAT-TCTTT
64 CCTATAT-TTT
* *
57801971 TGGAAAGAATATAATTCTTTTTTCTAACTTTCCATTTGCCTTCTCTATTAATAAGAGAATAATCC
1 TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAATCC
57802036 TA
66 TA
57802038 GTTTTCCTTT
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
73 63 0.49
74 2 0.02
75 64 0.50
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (73 bp):
TGGAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGAGAATAATCC
TATATTTT
Found at i:57802403 original size:33 final size:33
Alignment explanation
Indices: 57802361--57802425 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
57802351 ACACCACGGG
57802361 GCATACCGGTAATCCAAAAATATGTTCCTCAAA
1 GCATACCGGTAATCCAAAAATATGTTCCTCAAA
*
57802394 GCATACCGGTAATCCAAAACTATGTTCCTCAA
1 GCATACCGGTAATCCAAAAATATGTTCCTCAA
57802426 GGCAAGTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (33 bp):
GCATACCGGTAATCCAAAAATATGTTCCTCAAA
Found at i:57805675 original size:18 final size:20
Alignment explanation
Indices: 57805644--57805680 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
57805634 ATGAGATTAT
57805644 TATTTATATTTCAA-ATATC
1 TATTTATATTTCAAGATATC
57805663 TATTTAT-TTTCAAGATAT
1 TATTTATATTTCAAGATAT
57805681 TCAACTCTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTATATTTCAAGATATC
Found at i:57807284 original size:10 final size:10
Alignment explanation
Indices: 57807269--57807293 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
57807259 TACTCGGATT
57807269 AGCTAAATCA
1 AGCTAAATCA
57807279 AGCTAAATCA
1 AGCTAAATCA
57807289 AGCTA
1 AGCTA
57807294 CAACGATATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (10 bp):
AGCTAAATCA
Found at i:57812656 original size:29 final size:29
Alignment explanation
Indices: 57812614--57812672 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
57812604 TCATGGAAGA
* * *
57812614 GGTGAATAACTTGTTCGTTGAGAGTTCGT
1 GGTGAAGAACTTGTTCATTGAGAATTCGT
57812643 GGTGAAGAACTTGTTCATTGAGAATTCGT
1 GGTGAAGAACTTGTTCATTGAGAATTCGT
57812672 G
1 G
57812673 TCAAGGTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.24, C:0.10, G:0.31, T:0.36
Consensus pattern (29 bp):
GGTGAAGAACTTGTTCATTGAGAATTCGT
Found at i:57826338 original size:25 final size:24
Alignment explanation
Indices: 57826310--57826361 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
57826300 ATTTTGAAAG
57826310 AAATAAAAAAGATATTTATACTAAT
1 AAATAAAAAAGATA-TTATACTAAT
*** *
57826335 AAATGCTAAATATATTATACTAAT
1 AAATAAAAAAGATATTATACTAAT
57826359 AAA
1 AAA
57826362 AAACTAAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAAAAAGATATTATACTAAT
Found at i:57826368 original size:25 final size:23
Alignment explanation
Indices: 57826321--57826370 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
57826311 AATAAAAAAG
**
57826321 ATATTTATACTAATAAATGCTAA
1 ATATTTATACTAATAAAAACTAA
57826344 ATATATTATACTAATAAAAAACTAA
1 ATAT-TTATACTAAT-AAAAACTAA
57826369 AT
1 AT
57826371 CTTTTAGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 10 0.43
25 9 0.39
ACGTcount: A:0.54, C:0.08, G:0.02, T:0.36
Consensus pattern (23 bp):
ATATTTATACTAATAAAAACTAA
Found at i:57826427 original size:17 final size:17
Alignment explanation
Indices: 57826405--57826450 Score: 74
Period size: 17 Copynumber: 2.7 Consensus size: 17
57826395 TTTAACTTGT
*
57826405 CTTGCAAGTAAATTTAA
1 CTTGCAAGTAAAATTAA
*
57826422 CTTGCAAGTAAAATTGA
1 CTTGCAAGTAAAATTAA
57826439 CTTGCAAGTAAA
1 CTTGCAAGTAAA
57826451 CTCTTCAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.30
Consensus pattern (17 bp):
CTTGCAAGTAAAATTAA
Found at i:57828379 original size:30 final size:30
Alignment explanation
Indices: 57828343--57828400 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
57828333 AACCTATTAC
57828343 AACCTATGGATAAACCAAGTTGCATGTTAA
1 AACCTATGGATAAACCAAGTTGCATGTTAA
57828373 AACCTATGGATAAACCAAGTTGCATGTT
1 AACCTATGGATAAACCAAGTTGCATGTT
57828401 CAAGAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (30 bp):
AACCTATGGATAAACCAAGTTGCATGTTAA
Found at i:57835093 original size:31 final size:31
Alignment explanation
Indices: 57835047--57835120 Score: 141
Period size: 31 Copynumber: 2.4 Consensus size: 31
57835037 TTTACCAGGC
57835047 TAACTAAC-ACTAGTACCTGTTAACTGCTAA
1 TAACTAACTACTAGTACCTGTTAACTGCTAA
57835077 TAACTAACTACTAGTACCTGTTAACTGCTAA
1 TAACTAACTACTAGTACCTGTTAACTGCTAA
57835108 TAACTAACTACTA
1 TAACTAACTACTA
57835121 ACAACTAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 8 0.19
31 35 0.81
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (31 bp):
TAACTAACTACTAGTACCTGTTAACTGCTAA
Found at i:57835121 original size:14 final size:14
Alignment explanation
Indices: 57835067--57835129 Score: 54
Period size: 14 Copynumber: 4.3 Consensus size: 14
57835057 TAGTACCTGT
*
57835067 TAACTGCTAATAAC
1 TAACTACTAATAAC
* *
57835081 TAACTACTAGTACC
1 TAACTACTAATAAC
*
57835095 TGTTAACTGCTAATAAC
1 ---TAACTACTAATAAC
*
57835112 TAACTACTAACAAC
1 TAACTACTAATAAC
57835126 TAAC
1 TAAC
57835130 AATATCAGTT
Statistics
Matches: 38, Mismatches: 8, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
14 27 0.71
17 11 0.29
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (14 bp):
TAACTACTAATAAC
Found at i:57845461 original size:30 final size:30
Alignment explanation
Indices: 57845425--57845485 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
57845415 TCCCAAAGCT
57845425 CATACACTTTCCTCTCACCCACATGCCCCG
1 CATACACTTTCCTCTCACCCACATGCCCCG
*
57845455 CATACACTTTCCTCTCTCCCACATGCCCCG
1 CATACACTTTCCTCTCACCCACATGCCCCG
57845485 C
1 C
57845486 TTGGCAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.51, G:0.07, T:0.25
Consensus pattern (30 bp):
CATACACTTTCCTCTCACCCACATGCCCCG
Found at i:57846236 original size:27 final size:28
Alignment explanation
Indices: 57846199--57846254 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
57846189 AATTTTTAAA
*
57846199 AATATTTTTTATA-TTTTTTTATAATTT
1 AATAATTTTTATAGTTTTTTTATAATTT
*
57846226 AATAATTTTTATAGTTTTTTTATATTTT
1 AATAATTTTTATAGTTTTTTTATAATTT
57846254 A
1 A
57846255 TAAAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (28 bp):
AATAATTTTTATAGTTTTTTTATAATTT
Found at i:57865632 original size:6 final size:6
Alignment explanation
Indices: 57865621--57865704 Score: 159
Period size: 6 Copynumber: 14.0 Consensus size: 6
57865611 ACATGGATTA
*
57865621 TATATG TATATG TATATG TATATG TATATA TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG TATATG TATATG
57865669 TATATG TATATG TATATG TATATG TATATG TATATG
1 TATATG TATATG TATATG TATATG TATATG TATATG
57865705 CAATTGTCTC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 76 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (6 bp):
TATATG
Found at i:57868516 original size:25 final size:25
Alignment explanation
Indices: 57868482--57868536 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
57868472 ACACACCATA
*
57868482 GCTCTTATGAGCGTCCCGATATTTG
1 GCTCTCATGAGCGTCCCGATATTTG
* * *
57868507 GCTCTCATGAGCTTCTCGTTATTTG
1 GCTCTCATGAGCGTCCCGATATTTG
57868532 GCTCT
1 GCTCT
57868537 GCGGAGCTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.13, C:0.25, G:0.22, T:0.40
Consensus pattern (25 bp):
GCTCTCATGAGCGTCCCGATATTTG
Found at i:57868715 original size:50 final size:49
Alignment explanation
Indices: 57868626--57868749 Score: 115
Period size: 50 Copynumber: 2.5 Consensus size: 49
57868616 GCTTCCCGAT
** * * * *
57868626 TACAGCTCTTATGAGCTTCCTGATAATTGGCTCGCAAGAGTTTCCCATTA
1 TACAGCTCACATGAGCTTCCTGATAATTGGCTCGAAAGAG-CTACCAGTA
* * *
57868676 TACAGCTCACATGAGCTTCCTG-TTATATGGTTTGAAAGAGCTACCAGTA
1 TACAGCTCACATGAGCTTCCTGATAAT-TGGCTCGAAAGAGCTACCAGTA
*
57868725 TATATGCTCACATGAGCATTCCTGA
1 TACA-GCTCACATGAGC-TTCCTGA
57868750 ATATTAATTG
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
49 12 0.20
50 42 0.70
51 6 0.10
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.32
Consensus pattern (49 bp):
TACAGCTCACATGAGCTTCCTGATAATTGGCTCGAAAGAGCTACCAGTA
Found at i:57878743 original size:27 final size:27
Alignment explanation
Indices: 57878651--57878744 Score: 76
Period size: 27 Copynumber: 3.6 Consensus size: 27
57878641 ATTTAATATT
* **
57878651 AATATAATAATATTATTATAA-AATTTA
1 AATAT-ATATTATTATTATAATTTTTTA
57878678 AAT-T-TATTATTA-TATAATTTTTTGA
1 AATATATATTATTATTATAATTTTTT-A
57878703 AA-ATAT-TTATTTATTCAT-ATTTTTTA
1 AATATATATTA-TTATT-ATAATTTTTTA
57878729 AATATATATTATTATT
1 AATATATATTATTATT
57878745 TCTTGTCAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
23 5 0.09
24 10 0.18
25 7 0.13
26 8 0.15
27 20 0.36
28 5 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (27 bp):
AATATATATTATTATTATAATTTTTTA
Found at i:57878983 original size:48 final size:47
Alignment explanation
Indices: 57878893--57879093 Score: 174
Period size: 55 Copynumber: 4.1 Consensus size: 47
57878883 ACTAAAATGG
* * * *
57878893 TATT-TTTTTTAATCGCGCCTATCTGGCATTGC-CGAATCAATTTTTT
1 TATTATTTTTTAATCGCGCCAATCTGACA-GGCGTGAATCAATTTTTT
* *
57878939 TATTATTTTTTTAATCGCGCCAATTTGACAGGCGTGAATTAA-TTTTT
1 TATTA-TTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTTT
* *
57878986 TATTATTTTTTAATCGTGCCTATCTGACAGGCGTGAATCAATTTTTT
1 TATTATTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTTT
* * **
57879033 ATATTAAAAATATTTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTT
1 -TA-T-----TA-TTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTTT
57879088 ATATTA
1 -TATTA
57879094 AAAAATATTT
Statistics
Matches: 129, Mismatches: 14, Indels: 21
0.79 0.09 0.13
Matches are distributed among these distances:
46 36 0.28
47 17 0.13
48 29 0.22
49 3 0.02
54 3 0.02
55 41 0.32
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (47 bp):
TATTATTTTTTAATCGCGCCAATCTGACAGGCGTGAATCAATTTTTT
Found at i:57879014 original size:46 final size:46
Alignment explanation
Indices: 57878893--57879089 Score: 182
Period size: 46 Copynumber: 4.1 Consensus size: 46
57878883 ACTAAAATGG
* * *
57878893 TATT-TTTTTTAATCGCGCCTATCTGGCATTGC-CGAATCAATTTTTT
1 TATTATTTTTTAATCGCGCCTATCTGACA-GGCGTGAATCAA-TTTTT
* * *
57878939 TATTATTTTTTTAATCGCGCCAATTTGACAGGCGTGAATTAATTTTT
1 TATTA-TTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAATTTTT
*
57878986 TATTATTTTTTAATCGTGCCTATCTGACAGGCGTGAATCAATTTTTT
1 TATTATTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAA-TTTTT
* **
57879033 ATATTAAAAATATTTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTT
1 -TA-T-----TA-TTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAATTTTT
57879087 TAT
1 TAT
57879090 ATTAAAAAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
46 36 0.29
47 17 0.14
48 29 0.23
49 1 0.01
52 1 0.01
53 2 0.02
54 7 0.06
55 32 0.26
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.45
Consensus pattern (46 bp):
TATTATTTTTTAATCGCGCCTATCTGACAGGCGTGAATCAATTTTT
Found at i:57879068 original size:55 final size:56
Alignment explanation
Indices: 57878991--57879107 Score: 191
Period size: 55 Copynumber: 2.1 Consensus size: 56
57878981 TTTTTTATTA
* * **
57878991 TTTTTTAATCGTGCCTATCTGACAGGCGTGAATCAATTTTTTATATT-AAAAATAT
1 TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
57879046 TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
1 TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
57879102 TTTTTT
1 TTTTTT
57879108 GTTTAAATAA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 43 0.75
56 14 0.25
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (56 bp):
TTTTTTAATCGCGCCTACCTGACAGGCACGAATCAATTTTTTATATTAAAAAATAT
Found at i:57882902 original size:9 final size:9
Alignment explanation
Indices: 57882888--57882912 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
57882878 AATAATATCT
57882888 ATATTTAAC
1 ATATTTAAC
57882897 ATATTTAAC
1 ATATTTAAC
57882906 ATATTTA
1 ATATTTA
57882913 TAAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (9 bp):
ATATTTAAC
Found at i:57885020 original size:20 final size:20
Alignment explanation
Indices: 57884992--57885029 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
57884982 ATACAATTGT
*
57884992 TCAAAAGATATAACTATTTA
1 TCAAAAGATAGAACTATTTA
*
57885012 TCAAGAGATAGAACTATT
1 TCAAAAGATAGAACTATT
57885030 GTTTAATTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
TCAAAAGATAGAACTATTTA
Found at i:57892713 original size:19 final size:19
Alignment explanation
Indices: 57892686--57892760 Score: 105
Period size: 19 Copynumber: 3.8 Consensus size: 19
57892676 AATCATATCT
*
57892686 TCTAAGATTGCATACCATA
1 TCTAAGATTGCATATCATA
*
57892705 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
*
57892726 TCTAAGATTGCATATTATA
1 TCTAAGATTGCATATCATA
57892745 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
57892761 CTTGAAGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 32 0.65
21 17 0.35
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:57893384 original size:45 final size:45
Alignment explanation
Indices: 57893333--57893448 Score: 151
Period size: 45 Copynumber: 2.6 Consensus size: 45
57893323 TTAGTCTGCC
* * *
57893333 CCACTGCAATTTCAGGGGGATAAGACTTACTTTCTTGAGTCAGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCACTTTCTTGAGTCAGCT
* * *
57893378 CCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGACTCACTTTCTTGAGTCAGCT
* **
57893423 CCTCCACAACTTCAGGGAGATAAGAC
1 CCACTGCAACTTCAGGGAGATAAGAC
57893449 CTGATATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 62 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAGATAAGACTCACTTTCTTGAGTCAGCT
Found at i:57893719 original size:88 final size:88
Alignment explanation
Indices: 57893567--57894360 Score: 1131
Period size: 88 Copynumber: 9.0 Consensus size: 88
57893557 TTTGATAAGA
* * * * * * *
57893567 CTGGTGTCATCGATCTGCTTCGCTGTCGGTGA-AAGAAGGCAAGATCTACTATCTTTAGCCTGCT
1 CTGGTATCTTCGATCTGCTTCACTGTCGGT-ACAGGAAGGCAAGATCTGCTATCTTCAACCTGCT
*
57893631 CCGCTACAACCCAGGGAGGCAAGG
65 CCACTACAACCCAGGGAGGCAAGG
* * * * *
57893655 CTAGTGTCTTTGATCTACTTCACTGTCGGTACAGGAAGGCAAGATCTGCTAGCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
*
57893720 CACTACGACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* *
57893743 CTGGTATCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
57893808 CACTACAACCTAAGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * *
57893831 CTGGTATCTTTGATCTGCTTCACTATCGGTGCAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
57893896 CACTACAACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* *
57893919 CTGGTATCTTCAATCTGCGTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
*
57893984 CACTACAACCCAGGGAGACAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * *
57894007 CTGATATCTTCGATCTGCTTCACTGTCGGTACAGGAAAGCAAGATTTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* *
57894072 CACTAGAACCCATGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
57894095 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
57894160 CACTACAACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * * * * * * *
57894183 CTGGTATCTTCGATCTGTTTCGCTGTTGATGCAGGAAGGGAAGATTTGCTATCTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
*
57894248 CACTACGACCCAGGGAGGCAAGG
66 CACTACAACCCAGGGAGGCAAGG
* * * * * * * *
57894271 CTGGTATTTTTGATCGGCTTCGCTATCGATGCAGGAAGGCAAGATCTGCTATCTTCAACCTACTC
1 CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
* * *
57894336 CACTACGACCCAAGGAGACAAGG
66 CACTACAACCCAGGGAGGCAAGG
57894359 CT
1 CT
57894361 TTGTGATTTC
Statistics
Matches: 640, Mismatches: 65, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
87 1 0.00
88 639 1.00
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (88 bp):
CTGGTATCTTCGATCTGCTTCACTGTCGGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTC
CACTACAACCCAGGGAGGCAAGG
Found at i:57901130 original size:21 final size:19
Alignment explanation
Indices: 57901093--57901167 Score: 123
Period size: 19 Copynumber: 3.8 Consensus size: 19
57901083 AATCATATCT
57901093 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
57901112 TCCAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
57901133 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
57901152 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
57901168 CTTGAAGATT
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
19 34 0.65
21 18 0.35
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:57903755 original size:41 final size:41
Alignment explanation
Indices: 57903691--57903787 Score: 133
Period size: 41 Copynumber: 2.4 Consensus size: 41
57903681 GCAGAAAGCG
* *
57903691 CTTCCAGCTGAAAGCTTTCTTTTGCAAATCAACTGAAAACT
1 CTTCCAGTTGAAAGCTTTCTTTTGCAAATCAACTAAAAACT
* *
57903732 CTTCCAGTTGAAAG-TATTGTTTTGCAAATCAACTAAAAATT
1 CTTCCAGTTGAAAGCT-TTCTTTTGCAAATCAACTAAAAACT
*
57903773 TTTCCAGTTGAAAGC
1 CTTCCAGTTGAAAGC
57903788 GTTTTCGTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
40 1 0.02
41 48 0.98
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.34
Consensus pattern (41 bp):
CTTCCAGTTGAAAGCTTTCTTTTGCAAATCAACTAAAAACT
Found at i:57905763 original size:24 final size:24
Alignment explanation
Indices: 57905731--57905781 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
57905721 ATTCGAAAAT
57905731 GAATGTGTTTTCCCACTAAGTTTA
1 GAATGTGTTTTCCCACTAAGTTTA
57905755 GAATGTGTTTTCCCACTAAGTTTA
1 GAATGTGTTTTCCCACTAAGTTTA
57905779 GAA
1 GAA
57905782 ATAACTTGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
GAATGTGTTTTCCCACTAAGTTTA
Found at i:57907984 original size:21 final size:21
Alignment explanation
Indices: 57907960--57907999 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
57907950 TTTTGTGTAA
57907960 AATTAACATTTATAGATCTAG
1 AATTAACATTTATAGATCTAG
57907981 AATTAACATTTATAGATCT
1 AATTAACATTTATAGATCT
57908000 TACACGTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTAACATTTATAGATCTAG
Found at i:57929982 original size:18 final size:19
Alignment explanation
Indices: 57929953--57929988 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
57929943 GTTTGTTTGC
*
57929953 TTAAGTTGAAATGAATGAT
1 TTAAGTTGAAATCAATGAT
57929972 TTAAG-TGAAATCAATGA
1 TTAAGTTGAAATCAATGA
57929989 CCCTATATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.44, C:0.03, G:0.19, T:0.33
Consensus pattern (19 bp):
TTAAGTTGAAATCAATGAT
Found at i:57932537 original size:42 final size:42
Alignment explanation
Indices: 57932490--57932610 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
57932480 TTAGAGTTAC
57932490 TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
1 TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
* * *
57932532 TGAGATTTCGTGTAAGACCATAGT-TGGG-CTATGGCACCGATG
1 TGAGATTACGTGTAAGACCATA-TCTGGGAC-ATGGCATCGATA
* *
57932574 TGAGATTACATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTACGTGTAAGACCATATCTGGGACATGGCAT
57932611 TGGTATTGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.03
42 65 0.96
43 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
TGAGATTACGTGTAAGACCATATCTGGGACATGGCATCGATA
Found at i:57938321 original size:25 final size:25
Alignment explanation
Indices: 57938274--57938336 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
57938264 GTTGTATAAT
* * *
57938274 GAGAAGCTCTTGCAAGCCGTTTATC
1 GAGAAGCTCATACAAGCCATTTATC
*
57938299 -AGGAATCTCATACAAGCCATTTATC
1 GA-GAAGCTCATACAAGCCATTTATC
57938324 GAGAAGCTCATAC
1 GAGAAGCTCATAC
57938337 GACCCATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 1 0.03
25 29 0.94
26 1 0.03
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (25 bp):
GAGAAGCTCATACAAGCCATTTATC
Found at i:57943570 original size:25 final size:25
Alignment explanation
Indices: 57943542--57943611 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
57943532 TCCTGTACAT
* *
57943542 GTATGCTCACACAATCTGTGAATCG
1 GTATGCTCACACAAGCTGTGAATCA
**
57943567 GTATGCTCACATGAGCTGTGAATCA
1 GTATGCTCACACAAGCTGTGAATCA
*
57943592 GTATGCTCACACGAGCTGTG
1 GTATGCTCACACAAGCTGTG
57943612 GGTTAGAACG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
GTATGCTCACACAAGCTGTGAATCA
Found at i:57949776 original size:87 final size:87
Alignment explanation
Indices: 57949623--57949877 Score: 339
Period size: 87 Copynumber: 2.9 Consensus size: 87
57949613 TGATCTGATC
* *
57949623 TGGCAGTTTAACTATAACTTATTGGTATAGTGGTTTATCGCACTGTACCGCTTGTACGTCAACTT
1 TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTT
*
57949688 TGTTGTGTACTATTATCTAATA
66 TGTTGCGTACTATTATCTAATA
* * * * *
57949710 TGGCAGTTTAACTACAACTTATTAGTATAGCGGTTTACCGCACTATACCGCTTGTACCTCATCTT
1 TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTT
* *
57949775 TGCTGCGTACTATTATCTAATC
66 TGTTGCGTACTATTATCTAATA
** * * * * * * *
57949797 TAACAGTTTAACTGCAACTTATCGGTACAGTGGTTTACCGTACTGTACCGCATGTACGTCAGCGT
1 TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTT
57949862 TGTTGCGTACTATTAT
66 TGTTGCGTACTATTAT
57949878 ATGATCTGGA
Statistics
Matches: 144, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
87 144 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (87 bp):
TGGCAGTTTAACTACAACTTATTGGTATAGTGGTTTACCGCACTGTACCGCTTGTACGTCAACTT
TGTTGCGTACTATTATCTAATA
Found at i:57949892 original size:87 final size:87
Alignment explanation
Indices: 57949615--57949924 Score: 325
Period size: 87 Copynumber: 3.6 Consensus size: 87
57949605 ACTGATTTTG
* * * * * * *
57949615 ATCTGATCTGGCAGTTTAACTATAACTTATTGGTATAGTGGTTTATCGCACTGTACCGCTTGTAC
1 ATCTAATCTGGAAGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTAC
*
57949680 GTCAACTTTGTTGTGTACTATT
66 GTCAACTTTGTTGCGTACTATT
* * ** * *
57949702 ATCTAATATGGCAGTTTAACTACAACTTATTAGTATAGCGGTTTACCGCACTATACCGCTTGTAC
1 ATCTAATCTGGAAGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTAC
* * *
57949767 CTCATCTTTGCTGCGTACTATT
66 GTCAACTTTGTTGCGTACTATT
* * * * *
57949789 ATCTAATCT-AACAGTTTAACTGCAACTTATCGGTACAGTGGTTTACCGTACTGTACCGCATGTA
1 ATCTAATCTGGA-AGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTA
* *
57949853 CGTCAGCGTTGTTGCGTACTATT
65 CGTCAACTTTGTTGCGTACTATT
* * * * * *
57949876 ATATGATCTGGAAGTTTAAACTGCAACATGTCTGTACAGCGGTTTACCG
1 ATCTAATCTGGAAGTTT-AACTACAACTTATCGGTACAGCGGTTTACCG
57949925 TAATGCACTG
Statistics
Matches: 187, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
87 159 0.85
88 28 0.15
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (87 bp):
ATCTAATCTGGAAGTTTAACTACAACTTATCGGTACAGCGGTTTACCGCACTGTACCGCTTGTAC
GTCAACTTTGTTGCGTACTATT
Found at i:57951630 original size:18 final size:19
Alignment explanation
Indices: 57951593--57951631 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
57951583 GTGACCCCTG
*
57951593 TTTCCAAAATTTTTCAATT
1 TTTCCAAAAGTTTTCAATT
*
57951612 TTTCC-AAAGTTTTCTATT
1 TTTCCAAAAGTTTTCAATT
57951630 TT
1 TT
57951632 ATTTCAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.26, C:0.15, G:0.03, T:0.56
Consensus pattern (19 bp):
TTTCCAAAAGTTTTCAATT
Found at i:57952906 original size:21 final size:21
Alignment explanation
Indices: 57952882--57952921 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
57952872 AAAGCTAAAT
57952882 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCGTAAGAGCTGAAC
*
57952903 AGAAGCTCGTGAGAGCTGA
1 AGAAGCTCGTAAGAGCTGA
57952922 TCCACCCAAT
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:0.35, C:0.17, G:0.33, T:0.15
Consensus pattern (21 bp):
AGAAGCTCGTAAGAGCTGAAC
Found at i:57954979 original size:101 final size:102
Alignment explanation
Indices: 57954854--57955038 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
57954844 AAAGTAATGG
*
57954854 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
57954917 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
65 ACTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
* * *
57954955 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGTAGTA
1 TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
*
57955020 CTATGTGTAGGCTACTATG
66 CTATGTGCAGGCTACTATG
57955039 TGAACCAAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 3
0.91 0.06 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.52
102 33 0.43
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.31
Consensus pattern (102 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGCTACTATGCGTACCGGATAGTTTCGA
Found at i:57954984 original size:51 final size:51
Alignment explanation
Indices: 57954846--57955036 Score: 253
Period size: 51 Copynumber: 3.8 Consensus size: 51
57954836 TAAAAGTGAA
57954846 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGA-
1 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
57954896 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* * * *
57954947 AGT-TTCGATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGAT
1 AGTAAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
* *
57954998 GGTAATGGTCACATGTGTAGTACTATGTGTAGGCTACTA
1 AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
57955037 TGTGAACCAA
Statistics
Matches: 120, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.03
50 42 0.35
51 73 0.61
52 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (51 bp):
AGTAATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGAT
Found at i:57955111 original size:45 final size:45
Alignment explanation
Indices: 57955042--57955134 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
57955032 TACTATGTGA
*
57955042 ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGATTCC
1 ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
*
57955087 ACCAGACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
1 ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
57955132 ACC
1 ACC
57955135 GAGTATCTGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.33
Consensus pattern (45 bp):
ACCAAACATCATTGATTAATAAGGTGGTTTCTATGTGCTGAATCC
Found at i:57981466 original size:3 final size:3
Alignment explanation
Indices: 57981460--57981489 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
57981450 GGCAGCAGGT
57981460 GAA GAA GAA G-A GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
57981490 GCAAGAAATG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:57981496 original size:17 final size:14
Alignment explanation
Indices: 57981460--57981489 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
57981450 GGCAGCAGGT
57981460 GAAGAAGAAGAGAA
1 GAAGAAGAAGAGAA
57981474 GAAGAAGAAGAAGAA
1 GAAGAAGAAG-AGAA
57981489 G
1 G
57981490 GCAAGAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (14 bp):
GAAGAAGAAGAGAA
Found at i:57982285 original size:93 final size:92
Alignment explanation
Indices: 57982174--57982343 Score: 286
Period size: 93 Copynumber: 1.8 Consensus size: 92
57982164 TACAAAAAAG
* *
57982174 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATATGAAAATTTACAAAAAAAGAAT
1 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAA-TTAAAAAAAAAGAAT
57982239 ATGCCTAAGTTTAGAAATCAATAGCGTC
65 ATGCCTAAGTTTAGAAATCAATAGCGTC
* * *
57982267 AATGTAGCTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGCAAATTAAAAAAAAAGAATT
1 AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAGAATA
57982332 TGCCTAAGTTTA
66 TGCCTAAGTTTA
57982344 AACTTCCATC
Statistics
Matches: 72, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
92 26 0.36
93 46 0.64
ACGTcount: A:0.44, C:0.11, G:0.15, T:0.31
Consensus pattern (92 bp):
AATGTAACTATCTGCCTAAGTTTAGATATTAGTAGCAATAATAGGAAAATTAAAAAAAAAGAATA
TGCCTAAGTTTAGAAATCAATAGCGTC
Found at i:57989893 original size:3 final size:3
Alignment explanation
Indices: 57989885--57989929 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
57989875 TGTTCTGTAT
*
57989885 TTG TTG TTG TTG TTG TTG TTG TTG TTG -TG TTA TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
57989930 CGACGATTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.02, C:0.00, G:0.31, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:57993878 original size:30 final size:29
Alignment explanation
Indices: 57993830--57993926 Score: 104
Period size: 30 Copynumber: 3.3 Consensus size: 29
57993820 TGGGCTCGAG
** **
57993830 GTGATTGATTTGCCATTTTTGAAAACATTA
1 GTGATTGATTTATCATTTTTG-AAAGTTTA
* *
57993860 GTGATTGATTTATAATTTTCGTAAAGTTTA
1 GTGATTGATTTATCATTTTTG-AAAGTTTA
* *
57993890 GTGATTGAGTTATCACTTTTGAAAGTTTA
1 GTGATTGATTTATCATTTTTGAAAGTTTA
57993919 GTGATTGA
1 GTGATTGA
57993927 AATGTTATTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
29 16 0.29
30 40 0.71
ACGTcount: A:0.29, C:0.06, G:0.20, T:0.45
Consensus pattern (29 bp):
GTGATTGATTTATCATTTTTGAAAGTTTA
Found at i:57993921 original size:29 final size:30
Alignment explanation
Indices: 57993857--57993926 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 30
57993847 TTTGAAAACA
*
57993857 TTAGTGATTGATTTATAATTTTCGTAAAGT
1 TTAGTGATTGAGTTATAATTTTCGTAAAGT
*
57993887 TTAGTGATTGAGTTATCACTTTT-G-AAAGT
1 TTAGTGATTGAGTTAT-AATTTTCGTAAAGT
57993916 TTAGTGATTGA
1 TTAGTGATTGA
57993927 AATGTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 16 0.43
30 16 0.43
31 5 0.14
ACGTcount: A:0.29, C:0.04, G:0.20, T:0.47
Consensus pattern (30 bp):
TTAGTGATTGAGTTATAATTTTCGTAAAGT
Found at i:57995227 original size:20 final size:21
Alignment explanation
Indices: 57995191--57995229 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57995181 AATCTTATTC
57995191 TCTAATATGATTATTTTTAAA
1 TCTAATATGATTATTTTTAAA
57995212 TCTATATAT-ATT-TTTTTA
1 TCTA-ATATGATTATTTTTA
57995230 TTTTTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 7 0.41
22 4 0.24
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (21 bp):
TCTAATATGATTATTTTTAAA
Found at i:57997737 original size:9 final size:9
Alignment explanation
Indices: 57997719--57997747 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
57997709 AACCATCAAA
57997719 AAAT-AAAT
1 AAATAAAAT
57997727 AAATAAAAT
1 AAATAAAAT
57997736 AAATAAAAT
1 AAATAAAAT
57997745 AAA
1 AAA
57997748 ATACATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.20
9 16 0.80
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (9 bp):
AAATAAAAT
Found at i:57997744 original size:14 final size:14
Alignment explanation
Indices: 57997718--57997757 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
57997708 CAACCATCAA
57997718 AAAATAAAT-AAAT
1 AAAATAAATAAAAT
57997731 AAAATAAATAAAAT
1 AAAATAAATAAAAT
*
57997745 AAAATACATAAAA
1 AAAATAAATAAAA
57997758 AAATCAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 9 0.36
14 16 0.64
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:57998075 original size:28 final size:27
Alignment explanation
Indices: 57998043--57998104 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
57998033 AAATTATAAA
57998043 ATAAAAATATAAGTA-TGTATATATATTT
1 ATAAAAATAT--GTACTGTATATATATTT
*
57998071 ATAAAAATATGTACGTGTATGTATATTT
1 ATAAAAATATGTAC-TGTATATATATTT
57998099 ATAAAA
1 ATAAAA
57998105 GAGATACATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
26 3 0.10
28 28 0.90
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (27 bp):
ATAAAAATATGTACTGTATATATATTT
Found at i:57999699 original size:28 final size:28
Alignment explanation
Indices: 57999638--57999691 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
57999628 ATATAGCTAA
* *
57999638 AATAATAATAATTACATATGATAATAAT
1 AATAATAATAATTACATATGAAAAAAAT
57999666 AATAATAATAATTACAT-T-AAAAAAAT
1 AATAATAATAATTACATATGAAAAAAAT
57999692 TAACTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 6 0.25
27 1 0.04
28 17 0.71
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (28 bp):
AATAATAATAATTACATATGAAAAAAAT
Found at i:58000242 original size:22 final size:21
Alignment explanation
Indices: 58000217--58000302 Score: 81
Period size: 19 Copynumber: 4.2 Consensus size: 21
58000207 TGCAAATTAA
58000217 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTAC-AAATCAT
*
58000239 ATCTTCTAAGATTACATATCAT
1 ATC-TCTAAGATTACAAATCAT
* *
58000261 A--TCTAAGATTGCATATCAT
1 ATCTCTAAGATTACAAATCAT
* *
58000280 A--TCTAAGATTGCATATCAT
1 ATCTCTAAGATTACAAATCAT
58000299 ATCT
1 ATCT
58000303 AAAATTGCAT
Statistics
Matches: 59, Mismatches: 2, Indels: 7
0.87 0.03 0.10
Matches are distributed among these distances:
19 37 0.63
21 1 0.02
22 10 0.17
23 11 0.19
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (21 bp):
ATCTCTAAGATTACAAATCAT
Found at i:58000250 original size:23 final size:22
Alignment explanation
Indices: 58000220--58000264 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
58000210 AAATTAAATC
58000220 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
*
58000243 TCTAAGATTACATATCATATCT
1 TCTAAGATTACAAATCATATCT
58000265 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:58000267 original size:19 final size:19
Alignment explanation
Indices: 58000243--58000315 Score: 128
Period size: 19 Copynumber: 3.8 Consensus size: 19
58000233 AATCATATCT
*
58000243 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
58000262 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
58000281 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58000300 TCTAAAATTGCATATC
1 TCTAAGATTGCATATC
58000316 CTCAAAAATT
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58000680 original size:44 final size:44
Alignment explanation
Indices: 58000632--58000976 Score: 182
Period size: 44 Copynumber: 7.8 Consensus size: 44
58000622 CTGTAACCAC
* *
58000632 AGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * ** * ** *
58000676 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * * * * **
58000720 AGGGAAGTAGAAT-TACTAGCTTCAATGTACTCCACTGTAACCAC-T
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCAC--T-ACTGCTT
** *
58000765 -GGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTGCTT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * ** * ** *
58000808 AGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * * * * **
58000852 AGGGAAGTAGAAT-TACTAGCTTCAATGTACTCCACTGTAAC--CAC
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCAC--T-ACTGCTT
* * * **
58000896 AGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTTTTT
1 AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
* * * *
58000940 AGGGAGATAAGATCTGA-AATCTTCAATCTATTCCACT
1 AGGGAGGTAAAATCT-ACCATCTTCAATCTACTCCACT
58000977 GTAATGCCAA
Statistics
Matches: 213, Mismatches: 75, Indels: 26
0.68 0.24 0.08
Matches are distributed among these distances:
42 5 0.02
43 37 0.17
44 134 0.63
45 36 0.17
46 1 0.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
AGGGAGGTAAAATCTACCATCTTCAATCTACTCCACTACTGCTT
Found at i:58000784 original size:132 final size:132
Alignment explanation
Indices: 58000543--58000978 Score: 725
Period size: 132 Copynumber: 3.3 Consensus size: 132
58000533 ACTGCAACTG
* * * * *
58000543 TAGGGAGATAAGA-CTTACAATCTTCAACCTATTCCACTGCTGACTAGGG-AGATAGGATTACT-
1 TAGGGAGATAAGATC-TAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAG-TAGAATTACTA
58000605 GACTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTA
64 G-CTTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTA
58000670 CTGCT
128 CTGCT
58000675 TAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGC
1 TAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGC
* *
58000740 TTCAATGTACTCCACTGTAACCACTGGGAGGTAAAATCCGCCATCTTCGATCTACTCCACTACTG
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTG
58000805 CT
131 CT
58000807 TAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGC
1 TAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGC
* *
58000872 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTGCTCCACTACTT
66 TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTG
*
58000937 TT
131 CT
*
58000939 TAGGGAGATAAGATCTGAAATCTTCAATCTATTCCACTGT
1 TAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGT
58000979 AATGCCAAAG
Statistics
Matches: 288, Mismatches: 13, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
132 284 0.99
133 4 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (132 bp):
TAGGGAGATAAGATCTAAAATCTTCAATCTATTCCACTGTTGCCTAGGGAAGTAGAATTACTAGC
TTCAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTG
CT
Done.