Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 106 of 313
Found at i:34925848 original size:78 final size:78
Alignment explanation
Indices: 34925718--34926313 Score: 335
Period size: 88 Copynumber: 7.2 Consensus size: 78
34925708 CAATTTTCGT
** *
34925718 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTCTGTTTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCT
* *
34925783 CACGCGCTGAGCTA
65 CACACGCTGAGATA
* * *
34925797 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTCAGAT
1 TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GGCT
*
34925861 CACACACTGAGATA
65 CACACGCTGAGATA
* * * * * * *
34925875 TTTTTTTAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC
* *
34925939 TCACATG-TCGAGGTA
64 TCACACGCT-GAGATA
*** * *
34925954 TTTTCAAAACCTGTTTTTCAGATTCTGTTTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGA
1 TTTTCAATTTCTGTTTTTCA-A---------AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** *
34926019 GCCTTGGCTCACGTGCTGAGTTA
56 GCCTTGGCTCACACGCTGAGATA
* *
34926042 TTTTCAATTTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTT
1 TTTTCAATTTCTG----TTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--CT
*** * * *
34926107 TAATTTCTACGAGAGTTGAGTTGA
60 T-GGCTC-AC-A-CGCTGAGAT-A
* * * * *
34926131 GTCTTTTAATTTCTATTTTTC---AAAAATCAACTCATATTGTGAGAGGTGAGTTGAACCTTCAG
1 -T-TTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTT-GG
** *
34926193 -TCACA-TATCGAGGTA
63 CTCACACGCT-GAGATA
** * *
34926208 TTTTCAAAATCTGCTTTTCAAGTTAAGTTTCAAAAAATCAACTCTTATTGCGAGAGGTGAGTTGA
1 TTTTCAATTTCTG-TTTT----TCAA-----AAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
** *
34926273 GCCTTGGCTCACGTGCTGAGCTA
56 GCCTTGGCTCACACGCTGAGATA
34926296 TTTTCAATTTCTGTTTTT
1 TTTTCAATTTCTGTTTTT
34926314 AATGTCTGTT
Statistics
Matches: 400, Mismatches: 71, Indels: 88
0.72 0.13 0.16
Matches are distributed among these distances:
75 8 0.02
76 5 0.01
77 18 0.05
78 54 0.14
79 65 0.16
80 20 0.05
81 2 0.00
82 36 0.09
83 1 0.00
84 34 0.09
85 2 0.00
86 2 0.00
87 11 0.03
88 120 0.30
89 3 0.01
90 1 0.00
91 11 0.03
92 7 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.37
Consensus pattern (78 bp):
TTTTCAATTTCTGTTTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTC
ACACGCTGAGATA
Found at i:34925943 original size:79 final size:78
Alignment explanation
Indices: 34925718--34925943 Score: 256
Period size: 79 Copynumber: 2.9 Consensus size: 78
34925708 CAATTTTCGT
* ** * * *
34925718 TTTTCAATTTCTGCCTTTCAAAAAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCT
1 TTTTCAATTTATATCTTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGAT
* * *
34925783 CACGCGCTGAGCTA
65 CACACACTGAGATA
* * * *
34925797 TTTTCAATTTCTGTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATC
1 TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
34925862 ACACACTGAGATA
66 ACACACTGAGATA
* * * * *
34925875 TTTTTTTAATTTATATTTTTC-AAAAAAATCAACTCACATTGCGAGATGTGAGTTGAGCCTCGGG
1 --TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGA
34925939 TCACA
64 TCACA
34925944 TGTCGAGGTA
Statistics
Matches: 127, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
78 51 0.40
79 61 0.48
80 15 0.12
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.34
Consensus pattern (78 bp):
TTTTCAATTTATATCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGATC
ACACACTGAGATA
Found at i:34926127 original size:30 final size:30
Alignment explanation
Indices: 34926086--34926145 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
34926076 ACTCATATTG
34926086 CGAGAGGTGAGTTGAG-CTTTTTAATTTCTA
1 CGAGAGGTGAGTTGAGTC-TTTTAATTTCTA
*
34926116 CGAGAGTTGAGTTGAGTCTTTTAATTTCTA
1 CGAGAGGTGAGTTGAGTCTTTTAATTTCTA
34926146 TTTTTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 27 0.96
31 1 0.04
ACGTcount: A:0.23, C:0.10, G:0.25, T:0.42
Consensus pattern (30 bp):
CGAGAGGTGAGTTGAGTCTTTTAATTTCTA
Found at i:34926246 original size:254 final size:249
Alignment explanation
Indices: 34925740--34926313 Score: 763
Period size: 254 Copynumber: 2.3 Consensus size: 249
34925730 GCCTTTCAAA
* *
34925740 AAAAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
34925805 TTCTG----TCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
66 TTCTGTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
* * *
34925866 ACTGAGATATTTTTTTAATTTATATTTTTCAAAAAAATCAACTCACATTGCGAGATGTGAGTTGA
131 ACTGAGATAGTCTTTTAATTTATATTTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTTGA
* * * * **
34925931 GCCTCGGGTCACATGTCGAGGTATTTTCAAAACCTGTTTTTCAGATTCTGTTTTC
195 ACCTCGAGTCACATATCGAGGTATTTTCAAAACCTGCTTTTCAGATTAAGTTTTC
* *
34925986 -AAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGCTCACGTGCTGAGTTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
* * *
34926050 TTCTGTTTTTTTTTCAAAAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTC
66 TTCTGTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC--TTCAGA--TC
* * * * * *
34926114 TACGAGAGTTGAGTTGAGTCTTTTAATTTCTATTTTTC-AAAAATCAACTCATATTGTGAGAGGT
127 -AC-ACA-CTGAGAT-AGTCTTTTAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGT
*
34926178 GAGTTGAACCTTC-AGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-TTTC
188 GAGTTGAACC-TCGAGTCACATATCGAGGTATTTTCAAAACCTGCTTTTCAGA-TTAAGTTTTC
*
34926239 AAAAAATCAACTCTTATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
34926304 TTCTGTTTTT
66 TTCTGTTTTT
34926314 AATGTCTGTT
Statistics
Matches: 287, Mismatches: 26, Indels: 22
0.86 0.08 0.07
Matches are distributed among these distances:
245 65 0.23
249 42 0.15
250 1 0.00
251 3 0.01
252 2 0.01
253 7 0.02
254 141 0.49
255 7 0.02
256 19 0.07
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (249 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGTGCTGAGCTATTTTCAAT
TTCTGTTTTTCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAGATCACAC
ACTGAGATAGTCTTTTAATTTATATTTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAA
CCTCGAGTCACATATCGAGGTATTTTCAAAACCTGCTTTTCAGATTAAGTTTTC
Found at i:34927579 original size:13 final size:15
Alignment explanation
Indices: 34927547--34927589 Score: 54
Period size: 13 Copynumber: 3.0 Consensus size: 15
34927537 TTTCTAATAC
34927547 GTATATATATGTATT
1 GTATATATATGTATT
*
34927562 TTATATATAT-TA-T
1 GTATATATATGTATT
*
34927575 GTATATATATATATT
1 GTATATATATGTATT
34927590 TTTAATGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 4 0.17
15 10 0.42
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
GTATATATATGTATT
Found at i:34929273 original size:45 final size:45
Alignment explanation
Indices: 34929222--34929481 Score: 269
Period size: 45 Copynumber: 5.8 Consensus size: 45
34929212 CATACCTGGC
*
34929222 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCG
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * * *
34929267 ATCTGCTCCCTGTCTAATACAGAGACGCCAAATCTGCT-TCTTCA
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * *
34929311 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCCGTTATCTCCG
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * * *
34929356 ATTTGTTCCCCGTCTAATACAGAGATGCCAAATTTGTCATCTT-G
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
* * * * * *
34929400 CATCTGCT--TCGATGTAA-ACACATGAAGGTCAGATCTGCTATATCTTCG
1 -ATCTGCTCCCCG-TCTAATACAGA-G-ATGCCAAATCTG-T-TATCTTCG
34929448 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
1 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34929482 ATCTTGGATC
Statistics
Matches: 173, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
43 6 0.03
44 46 0.27
45 89 0.51
46 1 0.01
47 19 0.11
48 6 0.03
49 6 0.03
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCG
Found at i:34929373 original size:89 final size:89
Alignment explanation
Indices: 34929222--34929388 Score: 262
Period size: 89 Copynumber: 1.9 Consensus size: 89
34929212 CATACCTGGC
* * *
34929222 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGCTCCCTGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTCCGATCTGCTCCCCGTCTAATAC
34929287 AGAGACGCCAAATCTGCTTCTTCA
66 AGAGACGCCAAATCTGCTTCTTCA
* * * *
34929311 ATCTGCTCCCTGTCTAATACAGAGATGCCAAATCCGTTATCTCCGATTTGTTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTCCGATCTGCTCCCCGTCTAATAC
*
34929376 AGAGATGCCAAAT
66 AGAGACGCCAAAT
34929389 TTGTCATCTT
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
89 70 1.00
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACGCCAAATCCGTTATCTCCGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATCTGCTTCTTCA
Found at i:34929550 original size:78 final size:78
Alignment explanation
Indices: 34929421--34930105 Score: 1074
Period size: 78 Copynumber: 8.8 Consensus size: 78
34929411 ATGTAAACAC
* *
34929421 ATGAAGGTCAGATCTGCTATATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
34929486 TGGATCTGCTTCA
66 TGGATCTGCTTCA
*
34929499 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
34929563 CTAGATCTGCTTCA
65 TTGGATCTGCTTCA
* * * *
34929577 ATGAAGGTCAGATCTACTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
34929642 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
34929655 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
34929720 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * *
34929733 ATGAAGGTCAGATATGCTATGTCTTTGATCTGCTCCCTGTCTAATAAAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
34929798 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34929811 ATGAAGGTCCA-ATCTG-TCATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGT-CAGATCTGCT-ATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
34929874 CTTGGATCTGCTTCA
64 CTTGGATCTGCTTCA
34929889 ATGAAGGTCCA-ATCTG-TCATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGT-CAGATCTGCT-ATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
34929952 CTTGGATCTGCTTCA
64 CTTGGATCTGCTTCA
* * * *
34929967 ATGAAGGTCAGATTTGCTGTGTCTTCGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
34930032 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * **
34930045 GTGAAAGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCGAATATGGAGATGCCAAATC
1 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATC
34930106 TGTTTCTTCG
Statistics
Matches: 569, Mismatches: 32, Indels: 12
0.93 0.05 0.02
Matches are distributed among these distances:
77 5 0.01
78 559 0.98
79 5 0.01
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:34929844 original size:37 final size:37
Alignment explanation
Indices: 34929795--34929922 Score: 97
Period size: 37 Copynumber: 3.4 Consensus size: 37
34929785 TGCCAAATCA
34929795 TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTCATG
1 TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTCATG
* *
34929832 TCTTTGATCTGCTCCCCGTCTAAT-ACAGAGATGCCAA---ATCA--
1 TCTTGGATCTGCT-----TC-AATGA-AG-G-T-CCAATCTGTCATG
34929873 TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTCATG
1 TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTCATG
*
34929910 TCTTTGATCTGCT
1 TCTTGGATCTGCT
34929923 CCCCGTCTAA
Statistics
Matches: 70, Mismatches: 5, Indels: 32
0.65 0.05 0.30
Matches are distributed among these distances:
32 4 0.06
33 1 0.01
34 1 0.01
35 8 0.11
36 3 0.04
37 24 0.34
41 12 0.17
42 3 0.04
43 8 0.11
44 1 0.01
45 1 0.01
46 4 0.06
ACGTcount: A:0.22, C:0.24, G:0.19, T:0.35
Consensus pattern (37 bp):
TCTTGGATCTGCTTCAATGAAGGTCCAATCTGTCATG
Found at i:34932479 original size:20 final size:20
Alignment explanation
Indices: 34932451--34932494 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
34932441 ACCCTCGTAA
*
34932451 ACTTCTTCCAAGATTAACTT
1 ACTTATTCCAAGATTAACTT
34932471 ACTTATTCCAAGATTAACTT
1 ACTTATTCCAAGATTAACTT
34932491 ACTT
1 ACTT
34932495 CCACGGTGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.41
Consensus pattern (20 bp):
ACTTATTCCAAGATTAACTT
Found at i:34934780 original size:51 final size:51
Alignment explanation
Indices: 34934704--34934800 Score: 142
Period size: 51 Copynumber: 1.9 Consensus size: 51
34934694 GCATGATTTG
* * *
34934704 TTTCTCTTCCTGTTTTACCATCCTCAAAAGAT-CTAGAGACACATCAAAATA
1 TTTCTCCTCATGTTTTACCATCCTCAAAAGATACT-GAGAAACATCAAAATA
*
34934755 TTTCTCCTCATGTTTTACCATCCTCAACAGATACTGAGAAACATCA
1 TTTCTCCTCATGTTTTACCATCCTCAAAAGATACTGAGAAACATCA
34934801 CAATCCTGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 39 0.95
52 2 0.05
ACGTcount: A:0.32, C:0.27, G:0.08, T:0.33
Consensus pattern (51 bp):
TTTCTCCTCATGTTTTACCATCCTCAAAAGATACTGAGAAACATCAAAATA
Found at i:34938459 original size:17 final size:17
Alignment explanation
Indices: 34938437--34938469 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34938427 GATATGATAC
34938437 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
34938454 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
34938470 AATTCGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:34938470 original size:18 final size:17
Alignment explanation
Indices: 34938437--34938470 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34938427 GATATGATAC
*
34938437 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
34938454 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
34938471 ATTCGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:34938770 original size:23 final size:22
Alignment explanation
Indices: 34938727--34938784 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
34938717 AAAAGGTATC
* *
34938727 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34938748 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
34938771 TGCATATCATATCT
1 TACAAATCATATCT
34938785 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34938787 original size:19 final size:19
Alignment explanation
Indices: 34938763--34938817 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
34938753 AATCATATCT
34938763 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
34938782 TCTAAGATTGCA-ATAATA
1 TCTAAGATTGCATATCATA
34938800 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
34938818 TGAATATTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
18 17 0.52
19 16 0.48
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34939705 original size:18 final size:18
Alignment explanation
Indices: 34939682--34939721 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
34939672 AATAAATAAA
34939682 ATCTTGATTTTTAGTAAC
1 ATCTTGATTTTTAGTAAC
34939700 ATCTTGATTTTTAGTAAC
1 ATCTTGATTTTTAGTAAC
34939718 ATCT
1 ATCT
34939722 GTCAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.10, T:0.50
Consensus pattern (18 bp):
ATCTTGATTTTTAGTAAC
Found at i:34945088 original size:44 final size:45
Alignment explanation
Indices: 34945034--34945126 Score: 138
Period size: 44 Copynumber: 2.1 Consensus size: 45
34945024 TACAATATTT
34945034 ATTCCATTCAACCAAACACA-AGAA-TACT-ATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACA-ATA-AATTACTGATTACAGCTCTATTCC
34945078 ATTCCATTCAACCAAACAATTAAATTACTGATTACAGCTCTATTCC
1 ATTCCATTCAACCAAACAA-TAAATTACTGATTACAGCTCTATTCC
34945124 ATT
1 ATT
34945127 ACAGCCCTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
43 1 0.02
44 20 0.44
45 5 0.11
46 19 0.42
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (45 bp):
ATTCCATTCAACCAAACAATAAATTACTGATTACAGCTCTATTCC
Found at i:34945129 original size:16 final size:16
Alignment explanation
Indices: 34945108--34945162 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
34945098 TAAATTACTG
*
34945108 ATTACAGCTCTATTCC
1 ATTACAGCCCTATTCC
*
34945124 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCC
* *
34945140 ATTACAACCCTATTTC
1 ATTACAGCCCTATTCC
34945156 ATTACAG
1 ATTACAG
34945163 TGAACAAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTACAGCCCTATTCC
Found at i:34945805 original size:17 final size:17
Alignment explanation
Indices: 34945783--34945817 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34945773 ATATAATATG
34945783 TGTATATAA-AATGGTGT
1 TGTATA-AATAATGGTGT
34945800 TGTATAAATAATGGTGT
1 TGTATAAATAATGGTGT
34945817 T
1 T
34945818 AGTGGTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.34, C:0.00, G:0.23, T:0.43
Consensus pattern (17 bp):
TGTATAAATAATGGTGT
Found at i:34948522 original size:25 final size:27
Alignment explanation
Indices: 34948470--34948546 Score: 73
Period size: 27 Copynumber: 2.7 Consensus size: 27
34948460 TGTATAGTAG
* * *
34948470 TTTAAAATAAATAATATATGGAAAAAGAAC
1 TTTAAAATAAATAACATAT---AAGAGAGC
*
34948500 TTTAAAATAAATAACATATAAGAGAGT
1 TTTAAAATAAATAACATATAAGAGAGC
* *
34948527 TTTAACATAAATAATATATA
1 TTTAAAATAAATAACATATA
34948547 TATAAAGACT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.56
30 18 0.44
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (27 bp):
TTTAAAATAAATAACATATAAGAGAGC
Found at i:34948631 original size:20 final size:20
Alignment explanation
Indices: 34948592--34948631 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34948582 AATTTTTTAG
*
34948592 AAATAAATAAATGAATAAGT
1 AAATAAATAAATGAACAAGT
* *
34948612 AAATAGATAAATGAGCAAGT
1 AAATAAATAAATGAACAAGT
34948632 TTAGCAAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.15, T:0.23
Consensus pattern (20 bp):
AAATAAATAAATGAACAAGT
Found at i:34952890 original size:23 final size:22
Alignment explanation
Indices: 34952862--34952906 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34952852 AAACTAAATC
34952862 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
34952885 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
34952907 AAGATTGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:34952941 original size:35 final size:37
Alignment explanation
Indices: 34952878--34952975 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
34952868 ATTACAAAAT
34952878 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
34952914 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
34952949 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
34952976 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:34952983 original size:17 final size:19
Alignment explanation
Indices: 34952885--34952975 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
34952875 AATCATATCT
34952885 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34952904 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
34952922 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
34952939 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34952958 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
34952976 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34953131 original size:21 final size:20
Alignment explanation
Indices: 34953094--34953132 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34953084 TTGGACGTCG
**
34953094 TTTTTTTTTGGGTTTATTAT
1 TTTTTTTTTGGACTTATTAT
34953114 TTTTATTTTTGGACTTATT
1 TTTT-TTTTTGGACTTATT
34953133 TCTGGGCCCG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTGGACTTATTAT
Found at i:34953394 original size:45 final size:44
Alignment explanation
Indices: 34953338--34953463 Score: 171
Period size: 44 Copynumber: 2.8 Consensus size: 44
34953328 TGCTATCTTT
* * *
34953338 GATCTGTTCCCCGTCTAATACAGAGACGCCAAATCTGTTATATTC
1 GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGCT-TATTC
* *
34953383 GATCTGCTCCCCGTCTAATATAGAGAAGCCAAATCTGCTTCTTC
1 GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGCTTATTC
* * *
34953427 AATTTGCTCCCCGTCTAATACAGAGATGCCAAATCTG
1 GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTG
34953464 GCATCTTGGA
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 37 0.51
45 35 0.49
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (44 bp):
GATCTGCTCCCCGTCTAATACAGAGAAGCCAAATCTGCTTATTC
Found at i:34953452 original size:44 final size:45
Alignment explanation
Indices: 34953325--34953463 Score: 172
Period size: 45 Copynumber: 3.1 Consensus size: 45
34953315 GGAAGGTGAT
* ** * *
34953325 ATCTGCTATCTTTGATCTGTTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
* * *
34953370 ATCTGTTATATTCGATCTGCTCCCCGTCTAATATAGAGAAGCCAA
1 ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
* * *
34953415 ATCTGCT-TCTTCAATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
34953459 ATCTG
1 ATCTG
34953464 GCATCTTGGA
Statistics
Matches: 82, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
44 37 0.45
45 45 0.55
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (45 bp):
ATCTGCTATATTCAATCTGCTCCCCGTCTAATACAGAGAAGCCAA
Found at i:34953865 original size:78 final size:78
Alignment explanation
Indices: 34953493--34953839 Score: 590
Period size: 78 Copynumber: 4.4 Consensus size: 78
34953483 ATGTAAACAC
* * **
34953493 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCCATGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
34953557 TTGAATCTGCTTCA
65 TTGAATCTGCTTCA
34953571 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
34953636 TTAATCTGCTTCA
66 TGAATCTGCTTCA
34953649 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
34953714 TTAATCTGCTTCA
66 TGAATCTGCTTCA
34953727 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
*
34953792 TGGATCTGCTTCA
66 TGAATCTGCTTCA
*
34953805 ATGAAGGT-CAGATCTGCTATGTCTTTGATCTGCTC
1 ATGAAGGTCCA-ATCTGTTATGTCTTTGATCTGCTC
34953840 TCTGTAGAAT
Statistics
Matches: 259, Mismatches: 8, Indels: 4
0.96 0.03 0.01
Matches are distributed among these distances:
77 2 0.01
78 255 0.98
79 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.34
Consensus pattern (78 bp):
ATGAAGGTCCAATCTGTTATGTCTTTGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATCT
TGAATCTGCTTCA
Found at i:34954402 original size:21 final size:20
Alignment explanation
Indices: 34954377--34954423 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
34954367 ACGTCACCAG
*
34954377 TCATTCTTTC-GTCGAAGTTTA
1 TCATTCTTTCTCTCGAAG--TA
*
34954398 TCATTATTTCTCTCGAAGTA
1 TCATTCTTTCTCTCGAAGTA
34954418 TCATTC
1 TCATTC
34954424 CTACTCAGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 7 0.32
21 9 0.41
22 6 0.27
ACGTcount: A:0.21, C:0.21, G:0.11, T:0.47
Consensus pattern (20 bp):
TCATTCTTTCTCTCGAAGTA
Found at i:34964239 original size:20 final size:18
Alignment explanation
Indices: 34964203--34964247 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 18
34964193 AAACCTTGAA
34964203 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
34964221 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
34964241 -TTTCCCT
1 TTTTCCCT
34964248 GCTTTTCGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:34964480 original size:20 final size:20
Alignment explanation
Indices: 34964457--34964496 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
34964447 TATAATTATT
*
34964457 TAATTAATAAATATCTTTTA
1 TAATTAATAAATATATTTTA
34964477 TAATTAATAAATATATTTTA
1 TAATTAATAAATATATTTTA
34964497 ATACTTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTAATAAATATATTTTA
Found at i:34967502 original size:24 final size:22
Alignment explanation
Indices: 34967479--34967521 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
34967469 TTTATAATAT
34967479 TTCGGGTGTGTTTGGGCTGGATA
1 TTCGGGTGTGTTTGGG-TGGATA
*
34967502 TTCTGGTGTGTTTGGGTGGA
1 TTCGGGTGTGTTTGGGTGGA
34967522 ATCCACGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.07, C:0.07, G:0.44, T:0.42
Consensus pattern (22 bp):
TTCGGGTGTGTTTGGGTGGATA
Found at i:34971805 original size:16 final size:17
Alignment explanation
Indices: 34971774--34971808 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
34971764 TAACAAAATT
34971774 ATAATAAATCAACAATA
1 ATAATAAATCAACAATA
*
34971791 ATAATAACT-AACAATA
1 ATAATAAATCAACAATA
34971807 AT
1 AT
34971809 TAGGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (17 bp):
ATAATAAATCAACAATA
Found at i:34971878 original size:38 final size:39
Alignment explanation
Indices: 34971790--34971911 Score: 144
Period size: 38 Copynumber: 3.2 Consensus size: 39
34971780 AATCAACAAT
* ** *
34971790 AATAATAACTAACAATAAT--TAGGGTTTTTTTACTAAC
1 AATAATAACCAACAATAATAATAAAGATTTTTTACTAAC
**
34971827 AATAATAACCAACAATCCTAATAATAG-TTTTTTACTAAC
1 AATAATAACCAACAATAATAATAA-AGATTTTTTACTAAC
*
34971866 AATAATAA-CAACAATAATAATAAGGATTTTTTACTAAC
1 AATAATAACCAACAATAATAATAAAGATTTTTTACTAAC
34971904 AATAATAA
1 AATAATAA
34971912 TAACTAACAA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
37 17 0.23
38 33 0.45
39 22 0.30
40 1 0.01
ACGTcount: A:0.49, C:0.12, G:0.05, T:0.34
Consensus pattern (39 bp):
AATAATAACCAACAATAATAATAAAGATTTTTTACTAAC
Found at i:34971919 original size:16 final size:16
Alignment explanation
Indices: 34971898--34971944 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
34971888 AGGATTTTTT
34971898 ACTAACAATAATAATA
1 ACTAACAATAATAATA
34971914 ACTAACAA-AA-AA-A
1 ACTAACAATAATAATA
34971927 A-TCAACAATAATAATA
1 ACT-AACAATAATAATA
34971943 AC
1 AC
34971945 CGCAAAAACA
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
12 1 0.04
13 7 0.27
14 4 0.15
15 4 0.15
16 10 0.38
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (16 bp):
ACTAACAATAATAATA
Found at i:34972061 original size:25 final size:26
Alignment explanation
Indices: 34972018--34972073 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
34972008 CTATTTTTTT
34972018 TCCTTCTCCTTCTTCTTCTTCTCTTC
1 TCCTTCTCCTTCTTCTTCTTCTCTTC
* * *
34972044 TCCTT-TCTTTCTTTTTCTTTTCTTC
1 TCCTTCTCCTTCTTCTTCTTCTCTTC
34972069 TCCTT
1 TCCTT
34972074 GCTGCTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (26 bp):
TCCTTCTCCTTCTTCTTCTTCTCTTC
Found at i:34972062 original size:20 final size:18
Alignment explanation
Indices: 34972014--34972062 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 18
34972004 TTTTCTATTT
34972014 TTTTTCCTTCTCCTTCTTC
1 TTTTT-CTTCTCCTTCTTC
34972033 TTCTTCTCTTCTCCTTTCTTTC
1 TT-TT-TCTTCTCC-TTC-TTC
34972055 TTTTTCTT
1 TTTTTCTT
34972063 TTCTTCTCCT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
19 2 0.08
20 13 0.50
21 6 0.23
22 5 0.19
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTTCTTCTCCTTCTTC
Found at i:34972219 original size:20 final size:20
Alignment explanation
Indices: 34972194--34972232 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34972184 TTACACAATC
*
34972194 CTTTTTTTTCGTTTTTAACT
1 CTTTTTTTTCCTTTTTAACT
34972214 CTTTTTTTTCCTTTTTAAC
1 CTTTTTTTTCCTTTTTAAC
34972233 AGAAAATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.18, G:0.03, T:0.69
Consensus pattern (20 bp):
CTTTTTTTTCCTTTTTAACT
Found at i:34973613 original size:11 final size:11
Alignment explanation
Indices: 34973599--34973643 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
34973589 AGATAAATAT
34973599 TATTTTATTAA
1 TATTTTATTAA
*
34973610 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
34973623 TATTTTATTAT
1 TATTTTATTAA
34973634 TATTTTATTA
1 TATTTTATTA
34973644 GTATAAAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:34975856 original size:47 final size:46
Alignment explanation
Indices: 34975740--34975908 Score: 212
Period size: 46 Copynumber: 3.7 Consensus size: 46
34975730 TTTCTGAAAT
* * * * * *
34975740 GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTAATAT
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGACAG
* *
34975786 GAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGACGGG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGAC-AG
* *
34975833 GAAATGAATAAGACCATGTTTGAAAGATACCATGACAACATGACAG
1 GAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGACAG
* * *
34975879 AAAATGAGTAAGACTATAGTTGAAAGATAC
1 GAAATGAGTAAGACCATGGTTGAAAGATAC
34975909 TATGGCATCA
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 66 0.62
47 41 0.38
ACGTcount: A:0.43, C:0.13, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGACAG
Found at i:34983620 original size:46 final size:46
Alignment explanation
Indices: 34983568--34983784 Score: 276
Period size: 46 Copynumber: 4.7 Consensus size: 46
34983558 GCTTTCTGAA
* *
34983568 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
* *
34983614 ATGAAAT-ATGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGA-GTAAGACCATGGTTGAAAGATACCATGACAACATGAC
* *
34983660 ATGAAATGAATAAGACCATGTTTGAAAGATACCATGACAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
** * * * *
34983706 GGGGATATGAATAAGACCATGGTTGAAAGATACCACGGCAACATGAC
1 -ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
*
34983753 A-GAAAATGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATAC
34983785 TATGGCATCA
Statistics
Matches: 149, Mismatches: 18, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
45 1 0.01
46 107 0.72
47 41 0.28
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGACAACATGAC
Found at i:34983639 original size:21 final size:21
Alignment explanation
Indices: 34983569--34983640 Score: 54
Period size: 21 Copynumber: 3.2 Consensus size: 21
34983559 CTTTCTGAAA
*
34983569 TGAAATGTGTAAGACCATGGT
1 TGAAATATGTAAGACCATGGT
* ** * *
34983590 TGAAAGATACCATGACAACATGAT
1 TGAAATAT-GTAAGAC--CATGGT
34983614 ATGAAATATGTAAGACCATGGT
1 -TGAAATATGTAAGACCATGGT
34983636 TGAAA
1 TGAAA
34983641 GATACCATGG
Statistics
Matches: 36, Mismatches: 11, Indels: 8
0.65 0.20 0.15
Matches are distributed among these distances:
21 11 0.31
22 9 0.25
24 9 0.25
25 7 0.19
ACGTcount: A:0.42, C:0.11, G:0.22, T:0.25
Consensus pattern (21 bp):
TGAAATATGTAAGACCATGGT
Found at i:34983760 original size:93 final size:91
Alignment explanation
Indices: 34983568--34983784 Score: 285
Period size: 93 Copynumber: 2.3 Consensus size: 91
34983558 GCTTTCTGAA
** *
34983568 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGACAACATGATATGAAATATGTAAGACCAT
1 ATGAAATGAATAAGACCAT-GTTGAAAGATACCATGACAACATGATAGGAAATATGTAAGACCAT
* *
34983633 GGTTGAAAGATACCATGGCAACGTGAC
65 GGTTGAAAGATACCACGGCAACATGAC
* **
34983660 ATGAAATGAATAAGACCATGTTTGAAAGATACCATGACAACATGA-CGGGGATATGAATAAGACC
1 ATGAAATGAATAAGACCATG-TTGAAAGATACCATGACAACATGATAGGAAATATG--TAAGACC
34983724 ATGGTTGAAAGATACCACGGCAACATGAC
63 ATGGTTGAAAGATACCACGGCAACATGAC
*
34983753 A-GAAAATGAGTAAGACCATAGTTGAAAGATAC
1 ATG-AAATGAATAAGACCAT-GTTGAAAGATAC
34983785 TATGGCATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
91 7 0.06
92 42 0.38
93 61 0.55
94 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.23, T:0.21
Consensus pattern (91 bp):
ATGAAATGAATAAGACCATGTTGAAAGATACCATGACAACATGATAGGAAATATGTAAGACCATG
GTTGAAAGATACCACGGCAACATGAC
Found at i:34983937 original size:26 final size:26
Alignment explanation
Indices: 34983879--34983971 Score: 75
Period size: 26 Copynumber: 3.5 Consensus size: 26
34983869 ACCAAATGAC
*
34983879 AAATGGTTATATGAATTGATTATACA
1 AAATGGTTATATGAAATGATTATACA
*
34983905 AAATGGTTATGTGAAATG-TT-TACA
1 AAATGGTTATATGAAATGATTATACA
* *
34983929 AGAATTGGTCATATGGAGAT-ATATATACA
1 A-AA-TGGTTATAT-GAAATGAT-TATACA
* *
34983958 AAATAGTTGTATGA
1 AAATGGTTATATGA
34983972 GATAATTAAG
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
24 5 0.09
25 4 0.08
26 25 0.47
27 11 0.21
28 3 0.06
29 5 0.09
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.35
Consensus pattern (26 bp):
AAATGGTTATATGAAATGATTATACA
Found at i:34985349 original size:27 final size:27
Alignment explanation
Indices: 34985311--34985364 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
34985301 AAAAAAACAA
*
34985311 AAACTGTTAAAAAAACTGATGTGACAG
1 AAACTGTTAAAAAAACCGATGTGACAG
34985338 AAACTGTTAAAAAAACCGATGTGACAG
1 AAACTGTTAAAAAAACCGATGTGACAG
34985365 GGATGGAGGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (27 bp):
AAACTGTTAAAAAAACCGATGTGACAG
Found at i:34991592 original size:26 final size:26
Alignment explanation
Indices: 34991557--34991606 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
34991547 AAGAAGAAGA
34991557 AAAGGGATCAGTCAGGGCTGTGCATG
1 AAAGGGATCAGTCAGGGCTGTGCATG
34991583 AAAGGGATCAGTCAGGGCTGTGCA
1 AAAGGGATCAGTCAGGGCTGTGCA
34991607 CGATCATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.28, C:0.16, G:0.38, T:0.18
Consensus pattern (26 bp):
AAAGGGATCAGTCAGGGCTGTGCATG
Found at i:34994420 original size:13 final size:12
Alignment explanation
Indices: 34994397--34994424 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34994387 GGGTTTCTTC
34994397 TTTTCTTTTTTT
1 TTTTCTTTTTTT
34994409 TTTTCTTTTTTT
1 TTTTCTTTTTTT
34994421 TTTT
1 TTTT
34994425 AATGTCCTTT
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:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (12 bp):
TTTTCTTTTTTT
Found at i:34997068 original size:21 final size:23
Alignment explanation
Indices: 34997017--34997065 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 23
34997007 CTATTTTTTT
34997017 AATAACATTAATTTATTTTATTAAAA
1 AATAACATTAATTTA---TATTAAAA
34997043 AATAACATTAATTTA-ATTAAAA
1 AATAACATTAATTTATATTAAAA
34997065 A
1 A
34997066 TAAGTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.35
26 15 0.65
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (23 bp):
AATAACATTAATTTATATTAAAA
Found at i:35003109 original size:23 final size:23
Alignment explanation
Indices: 35003057--35003110 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
35003047 ATTACATTTC
*
35003057 AAAACACAACTTTTGATTTTTTTT
1 AAAACA-AACTTTTGATTTTTTTA
**
35003081 TTAACAAACTTTTGATTTTTTTA
1 AAAACAAACTTTTGATTTTTTTA
35003104 AAAACAA
1 AAAACAA
35003111 TATTCATGCC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (23 bp):
AAAACAAACTTTTGATTTTTTTA
Found at i:35008166 original size:15 final size:15
Alignment explanation
Indices: 35008146--35008179 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
35008136 GTTTTCTTTC
35008146 AAATTAAGGTTCATG
1 AAATTAAGGTTCATG
35008161 AAATTAAGGTTCATG
1 AAATTAAGGTTCATG
35008176 AAAT
1 AAAT
35008180 GGTATCCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (15 bp):
AAATTAAGGTTCATG
Found at i:35008881 original size:19 final size:21
Alignment explanation
Indices: 35008843--35008881 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
35008833 AAGCACCACC
*
35008843 AAAATCAGAGAATCAAAAACA
1 AAAATCAGAGAATAAAAAACA
35008864 AAAATCA-A-AATAAAAAAC
1 AAAATCAGAGAATAAAAAAC
35008882 GAAGGTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 1 0.06
21 7 0.41
ACGTcount: A:0.72, C:0.13, G:0.05, T:0.10
Consensus pattern (21 bp):
AAAATCAGAGAATAAAAAACA
Found at i:35009572 original size:3 final size:3
Alignment explanation
Indices: 35009564--35009676 Score: 90
Period size: 3 Copynumber: 37.0 Consensus size: 3
35009554 AATTTTGCTA
* *
35009564 TAT TAT TAT TA- TAT TAT TGT TACT TAT TAT TAT TAT TAT TGT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* * *
35009609 GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT TAT TAT
1 -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT
*
35009656 TA- TATT TAC TAT TAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT
35009677 AAATATTAAT
Statistics
Matches: 89, Mismatches: 11, Indels: 20
0.74 0.09 0.17
Matches are distributed among these distances:
2 7 0.08
3 71 0.80
4 11 0.12
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:35009756 original size:15 final size:16
Alignment explanation
Indices: 35009738--35009770 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
35009728 TATGGTTTCT
35009738 TTTAATATTAT-TATA
1 TTTAATATTATATATA
*
35009753 TTTACTATTATATATA
1 TTTAATATTATATATA
35009769 TT
1 TT
35009771 ATATTTAATA
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:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATATTATATATA
Found at i:35009872 original size:16 final size:17
Alignment explanation
Indices: 35009851--35009893 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
35009841 TTATTGTTAT
35009851 TATTATTATTA-TTACA
1 TATTATTATTATTTACA
*
35009867 TATTATTA-TATTTATA
1 TATTATTATTATTTACA
*
35009883 TAATATTATTA
1 TATTATTATTA
35009894 ATAGGTACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 19 0.83
17 2 0.09
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTATTATTATTTACA
Found at i:35009872 original size:19 final size:19
Alignment explanation
Indices: 35009848--35009893 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
35009838 CTATTATTGT
35009848 TATTATTAT-TATTAT-TACA
1 TATTATTATAT-TTATATA-A
35009867 TATTATTATATTTATATAA
1 TATTATTATATTTATATAA
35009886 TATTATTA
1 TATTATTA
35009894 ATAGGTACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 22 0.88
20 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTATTATATTTATATAA
Found at i:35010011 original size:26 final size:26
Alignment explanation
Indices: 35009959--35010070 Score: 86
Period size: 26 Copynumber: 4.4 Consensus size: 26
35009949 ATGCTATATC
* * * *
35009959 ATATTTTTATTATATTATCTTAGGTAT
1 ATATTTTT-TAATACTATATTATGTAT
*
35009986 ATATTTTTTAATACTATATTGTGTAT
1 ATATTTTTTAATACTATATTATGTAT
* * ** *
35010012 GTATTTTTCAACGCCATATTATGTAT
1 ATATTTTTTAATACTATATTATGTAT
* *
35010038 ATA--TTTTAATACTACATTATATAT
1 ATATTTTTTAATACTATATTATGTAT
35010062 AT-TTTTTTA
1 ATATTTTTTA
35010071 TGTTATGTAT
Statistics
Matches: 65, Mismatches: 18, Indels: 6
0.73 0.20 0.07
Matches are distributed among these distances:
24 17 0.26
25 5 0.08
26 35 0.54
27 8 0.12
ACGTcount: A:0.31, C:0.07, G:0.06, T:0.55
Consensus pattern (26 bp):
ATATTTTTTAATACTATATTATGTAT
Found at i:35010249 original size:22 final size:22
Alignment explanation
Indices: 35010203--35010264 Score: 60
Period size: 22 Copynumber: 2.9 Consensus size: 22
35010193 AATGTATGTG
*
35010203 TATA-TATCGTATATGTTTTATA
1 TATATTAT-GTATATATTTTATA
35010225 TATATTATGTATATATTTTCA-A
1 TATATTATGTATATATTTT-ATA
35010247 TATTATTA-GT-TATATTTT
1 TA-TATTATGTATATATTTT
35010265 TTTTATACTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
21 8 0.22
22 19 0.53
23 9 0.25
ACGTcount: A:0.32, C:0.03, G:0.06, T:0.58
Consensus pattern (22 bp):
TATATTATGTATATATTTTATA
Found at i:35010673 original size:21 final size:20
Alignment explanation
Indices: 35010648--35010717 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 20
35010638 TGTATTGTGC
*
35010648 ATGTATTTTTAACACTATATT
1 ATGTATTTTTAATA-TATATT
35010669 ATGTATATACTCTTAATAT-TATT
1 ATGTAT-T--T-TTAATATATATT
35010692 ATGTATTTTTAATATATATGT
1 ATGTATTTTTAATATATAT-T
35010713 ATGTA
1 ATGTA
35010718 CATACTTATC
Statistics
Matches: 42, Mismatches: 1, Indels: 12
0.76 0.02 0.22
Matches are distributed among these distances:
19 7 0.17
20 4 0.10
21 12 0.29
22 2 0.05
23 10 0.24
24 2 0.05
25 5 0.12
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (20 bp):
ATGTATTTTTAATATATATT
Found at i:35013693 original size:2 final size:2
Alignment explanation
Indices: 35013681--35013752 Score: 53
Period size: 2 Copynumber: 38.0 Consensus size: 2
35013671 TTCATTTCCA
* * * *
35013681 AT AT AT GT AT AT AT -T GT AT AT AT -T TT AT AT AT AT -T AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
35013720 AT AT AT AT AT AT CT TT A- AT AT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35013753 GTTTATGCAA
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
1 4 0.07
2 51 0.93
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (2 bp):
AT
Found at i:35013711 original size:11 final size:13
Alignment explanation
Indices: 35013697--35013752 Score: 53
Period size: 15 Copynumber: 4.2 Consensus size: 13
35013687 GTATATATTG
35013697 TATATATT-T-TA
1 TATATATTATGTA
35013708 TATATATTATGTA
1 TATATATTATGTA
* *
35013721 TATATATATATCTT
1 TATATAT-TATGTA
35013735 TAATATATATATGTA
1 T-ATATAT-TATGTA
35013750 TAT
1 TAT
35013753 GTTTATGCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 8 0.22
12 1 0.03
13 9 0.24
14 7 0.19
15 12 0.32
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (13 bp):
TATATATTATGTA
Found at i:35013717 original size:9 final size:9
Alignment explanation
Indices: 35013681--35013731 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
35013671 TTCATTTCCA
35013681 ATATATGTAT
1 ATATAT-TAT
35013691 ATAT-TGTAT
1 ATATAT-TAT
*
35013700 ATATTTTAT
1 ATATATTAT
35013709 ATATATTAT
1 ATATATTAT
*
35013718 GTATA-TAT
1 ATATATTAT
35013726 ATATAT
1 ATATAT
35013732 CTTTAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
8 7 0.19
9 24 0.67
10 5 0.14
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (9 bp):
ATATATTAT
Found at i:35013878 original size:24 final size:24
Alignment explanation
Indices: 35013851--35013936 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 24
35013841 TGTTTTCTAA
35013851 TATATTTTTTTATATATTATCATG
1 TATATTTTTTTATATATTATCATG
* *
35013875 TATA-TATTTTA-ATATTATTA-G
1 TATATTTTTTTATATATTATCATG
*
35013896 TTATATATTTTTTATACTATT-TCGTG
1 -TATAT-TTTTTTATA-TATTATCATG
* *
35013922 TATATATATTTATAT
1 TATATTTTTTTATAT
35013937 TATCCTTATT
Statistics
Matches: 49, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
21 1 0.02
22 12 0.24
23 7 0.14
24 17 0.35
25 7 0.14
26 5 0.10
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.60
Consensus pattern (24 bp):
TATATTTTTTTATATATTATCATG
Found at i:35013957 original size:12 final size:12
Alignment explanation
Indices: 35013942--35013975 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
35013932 TATATTATCC
35013942 TTATTAT-TATT
1 TTATTATATATT
35013953 ATTATTATATATT
1 -TTATTATATATT
35013966 TTATTATATA
1 TTATTATATA
35013976 CGTATAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATTATATATT
Found at i:35014253 original size:22 final size:21
Alignment explanation
Indices: 35014211--35014255 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 21
35014201 ACATTTCTAA
35014211 TATGTATTTCTAATACTATGT
1 TATGTATTTCTAATACTATGT
*
35014232 TATGT-TTTC--ATA-TATAT
1 TATGTATTTCTAATACTATGT
35014249 TATGTAT
1 TATGTAT
35014256 ATACTTTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 9 0.41
18 4 0.18
20 4 0.18
21 5 0.23
ACGTcount: A:0.29, C:0.07, G:0.09, T:0.56
Consensus pattern (21 bp):
TATGTATTTCTAATACTATGT
Found at i:35015991 original size:40 final size:40
Alignment explanation
Indices: 35015942--35016053 Score: 172
Period size: 40 Copynumber: 2.8 Consensus size: 40
35015932 CGTCTGGATA
* *
35015942 AAAAACGCCGCTATAGATCGAGCATTAGCTGCGCTTTTTG
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTATG
35015982 AAAAACGCCGCTA-AGGATCGAGCATTAGCGGCGCTTTATG
1 AAAAACGCCGCTATA-GATCGAGCATTAGCGGCGCTTTATG
* *
35016022 AAAAACGCCGCTATAGGTTGAGCATTAGCGGC
1 AAAAACGCCGCTATAGATCGAGCATTAGCGGC
35016054 ATTTTTTGCA
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 1 0.02
40 64 0.97
41 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTATAGATCGAGCATTAGCGGCGCTTTATG
Found at i:35016165 original size:40 final size:40
Alignment explanation
Indices: 35016110--35016371 Score: 139
Period size: 40 Copynumber: 6.7 Consensus size: 40
35016100 AGCTTTAGTG
* * * * *
35016110 GCATTAGCAGTGCTTTTTTAAAAACGTCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTACAGATCGA
* *
35016150 GCATTAGTGGCGCTTTTTGAAAAACGCCGCTACAGATTGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTACAGATCGA
* * * * * **
35016190 GCATTAGCGGCTCTTTTTGAAAAACTCCGCAAAAAAATTAA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGC-TACAGATCGA
** * * ** * **
35016231 GCACAACACGTCG-TTTTATG----TTG-AGCTTTAG-T-G-
1 GCATTA-GCGGCGCTTTT-TGAAAAACGCCGCTACAGATCGA
* *
35016264 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGA
1 GCATTAGCGGCGCTTTTTGAAAAACGCCGCTACAGATCGA
* * * * *
35016304 GCATTAGTGGTGCTTTTTGAAAAAACGTAC-CTATAGATTGA
1 GCATTAGCGGCGCTTTTTG-AAAAACG-CCGCTACAGATCGA
35016345 GCATTAGCGGCGCTTTTTGAAAAACGC
1 GCATTAGCGGCGCTTTTTGAAAAACGC
35016372 TACAAAAAAA
Statistics
Matches: 165, Mismatches: 43, Indels: 29
0.70 0.18 0.12
Matches are distributed among these distances:
32 5 0.03
33 8 0.05
35 1 0.01
36 2 0.01
37 8 0.05
38 1 0.01
39 1 0.01
40 85 0.52
41 48 0.29
42 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.30
Consensus pattern (40 bp):
GCATTAGCGGCGCTTTTTGAAAAACGCCGCTACAGATCGA
Found at i:35016295 original size:154 final size:152
Alignment explanation
Indices: 35015963--35016391 Score: 579
Period size: 147 Copynumber: 2.8 Consensus size: 152
35015953 TATAGATCGA
* * * *
35015963 GCATTAGCTGCGCTTTTTGAAAAACGCCGCTA-AGGATCGAGCATTAGCGGCGCTTTATGAAAAA
1 GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATA-GATCGAGCATTAGTGGCGCTTTTTGAAAAA
* * *
35016027 CGCCGCTATAGGTTGAGCATTAGCGGCAT-TTTTTG--CAA---AAAAAAATTAAGCACAACGCA
65 CGCCGCTATAGATTGAGCATTAGCGGC-TCTTTTTGAAAAACCCAAAAAAATTAAGCACAACACA
35016086 GTCGTTTTATGTTGAGCTTTAGTG
129 GTCGTTTTATGTTGAGCTTTAGTG
* *
35016110 GCATTAGCAGTGCTTTTTTAAAAACGTCGCTATAGATCGAGCATTAGTGGCGCTTTTTGAAAAAC
1 GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGAAAAAC
*
35016175 GCCGCTACAGATTGAGCATTAGCGGCTCTTTTTGAAAAACTCCGCAAAAAAATTAAGCACAACAC
66 GCCGCTATAGATTGAGCATTAGCGGCTCTTTTTGAAAAA--CC-CAAAAAAATTAAGCACAACAC
35016240 -GTCGTTTTATGTTGAGCTTTAGTG
128 AGTCGTTTTATGTTGAGCTTTAGTG
* *
35016264 GCATTAGCGGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGTGGTGCTTTTTGAAAAAA
1 GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTG-AAAAA
* *
35016329 CGTAC-CTATAGATTGAGCATTAGCGGCGCTTTTTGAAAAACGCTACAAAAAAATTAAGCACAA
65 CG-CCGCTATAGATTGAGCATTAGCGGCTCTTTTTGAAAAAC-C--CAAAAAAATTAAGCACAA
35016392 GCCGCAATTT
Statistics
Matches: 250, Mismatches: 18, Indels: 20
0.87 0.06 0.07
Matches are distributed among these distances:
146 1 0.00
147 87 0.35
148 1 0.00
149 2 0.01
153 1 0.00
154 80 0.32
155 77 0.31
156 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (152 bp):
GCATTAGCAGTGCTTTTTGAAAAACGCCGCTATAGATCGAGCATTAGTGGCGCTTTTTGAAAAAC
GCCGCTATAGATTGAGCATTAGCGGCTCTTTTTGAAAAACCCAAAAAAATTAAGCACAACACAGT
CGTTTTATGTTGAGCTTTAGTG
Found at i:35016340 original size:41 final size:41
Alignment explanation
Indices: 35016264--35016368 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 41
35016254 AGCTTTAGTG
*
35016264 GCATTAGCGGTGCTTTTTG-AAAAACGCCGCTATAGATCGA
1 GCATTAGCGGTGCTTTTTGAAAAAACGACGCTATAGATCGA
* *
35016304 GCATTAGTGGTGCTTTTTGAAAAAACGTAC-CTATAGATTGA
1 GCATTAGCGGTGCTTTTTGAAAAAACG-ACGCTATAGATCGA
*
35016345 GCATTAGCGGCGCTTTTTGAAAAA
1 GCATTAGCGGTGCTTTTTGAAAAA
35016369 CGCTACAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
40 18 0.31
41 39 0.67
42 1 0.02
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (41 bp):
GCATTAGCGGTGCTTTTTGAAAAAACGACGCTATAGATCGA
Found at i:35017050 original size:19 final size:18
Alignment explanation
Indices: 35017028--35017066 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
35017018 CAATTTGATC
*
35017028 AATTTTTTTGAATTTTATA
1 AATTTTGTTGAATTTT-TA
35017047 AATTTTGTTGAATTTTTA
1 AATTTTGTTGAATTTTTA
35017065 AA
1 AA
35017067 AATTAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
AATTTTGTTGAATTTTTA
Found at i:35018730 original size:23 final size:23
Alignment explanation
Indices: 35018704--35018749 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
35018694 GTATTGTAGG
35018704 TAGCCTTAAAGACAATGTAATCC
1 TAGCCTTAAAGACAATGTAATCC
35018727 TAGCCTTAAAGACAATGTAATCC
1 TAGCCTTAAAGACAATGTAATCC
35018750 AATGATAGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.13, T:0.26
Consensus pattern (23 bp):
TAGCCTTAAAGACAATGTAATCC
Found at i:35019950 original size:26 final size:26
Alignment explanation
Indices: 35019921--35019973 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
35019911 TCAAACATGC
35019921 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
35019947 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
35019973 A
1 A
35019974 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):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:35021495 original size:26 final size:26
Alignment explanation
Indices: 35021459--35021516 Score: 107
Period size: 26 Copynumber: 2.2 Consensus size: 26
35021449 CATGAAATTC
35021459 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
*
35021485 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
35021511 TTATCA
1 TTATCA
35021517 ATTTGTATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.07, T:0.34
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:35023230 original size:19 final size:19
Alignment explanation
Indices: 35023206--35023269 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
35023196 CGGGTTTGTA
35023206 TTATTATAATTCAAGTTAT
1 TTATTATAATTCAAGTTAT
* ** *
35023225 TTATTATTAAGT-ATTTTTT
1 TTATTA-TAATTCAAGTTAT
*
35023244 TTACTATAATTCAAGTTAT
1 TTATTATAATTCAAGTTAT
35023263 TTATTAT
1 TTATTAT
35023270 TAAGTATTAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
18 4 0.12
19 25 0.76
20 4 0.12
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (19 bp):
TTATTATAATTCAAGTTAT
Found at i:35023284 original size:38 final size:38
Alignment explanation
Indices: 35023210--35023284 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
35023200 TTTGTATTAT
**
35023210 TATAATTCAAGTTATTTATTATTAAGTATTTTTTTTAC
1 TATAATTCAAGTTATTTATTATTAAGTATTAATTTTAC
35023248 TATAATTCAAGTTATTTATTATTAAGTATTAATTTTA
1 TATAATTCAAGTTATTTATTATTAAGTATTAATTTTA
35023285 AATTTATTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.04, G:0.05, T:0.56
Consensus pattern (38 bp):
TATAATTCAAGTTATTTATTATTAAGTATTAATTTTAC
Found at i:35023808 original size:37 final size:39
Alignment explanation
Indices: 35023713--35023810 Score: 94
Period size: 37 Copynumber: 2.5 Consensus size: 39
35023703 CTTCGACCTC
*
35023713 GAGCCGATGAGACACTGGGCGTCATACTATTACTTCGGATA
1 GAGCCGATGAGACACT-GG-GTCACACTATTACTTCGGATA
** ** *
35023754 GATTCGATGAGGTACTGGGT-ACCACT-TTACTTCGGCTA
1 GAGCCGATGAGACACTGGGTCA-CACTATTACTTCGGATA
35023792 -AGCCGATGAGACACTGGGT
1 GAGCCGATGAGACACTGGGT
35023811 GTCAACTTTG
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
37 15 0.33
38 12 0.26
39 5 0.11
40 2 0.04
41 12 0.26
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
GAGCCGATGAGACACTGGGTCACACTATTACTTCGGATA
Found at i:35023819 original size:38 final size:39
Alignment explanation
Indices: 35023713--35023825 Score: 113
Period size: 38 Copynumber: 2.9 Consensus size: 39
35023703 CTTCGACCTC
*
35023713 GAGCCGATGAGACACTGGGCGTCATACTATTACTTCGGATA
1 GAGCCGATGAGACACTGGGTGTCA-ACT-TTACTTCGGATA
** ** * * *
35023754 GATTCGATGAGGTACTGGGT-ACCACTTTACTTCGGCTA
1 GAGCCGATGAGACACTGGGTGTCAACTTTACTTCGGATA
*
35023792 -AGCCGATGAGACACTGGGTGTCAACTTTGCTTCG
1 GAGCCGATGAGACACTGGGTGTCAACTTTACTTCG
35023826 AACTATCTAA
Statistics
Matches: 56, Mismatches: 15, Indels: 5
0.74 0.20 0.07
Matches are distributed among these distances:
37 15 0.27
38 22 0.39
39 3 0.05
40 1 0.02
41 15 0.27
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.27
Consensus pattern (39 bp):
GAGCCGATGAGACACTGGGTGTCAACTTTACTTCGGATA
Found at i:35024500 original size:19 final size:19
Alignment explanation
Indices: 35024476--35024513 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
35024466 AAATTTATAT
35024476 GATATATTTGGTATAATTA
1 GATATATTTGGTATAATTA
35024495 GATATATTTGGTATAATTA
1 GATATATTTGGTATAATTA
35024514 ATACTAATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (19 bp):
GATATATTTGGTATAATTA
Found at i:35025889 original size:20 final size:18
Alignment explanation
Indices: 35025866--35025904 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
35025856 AAATAAATTT
35025866 AATTCATAAAAATATATATA
1 AATTCA-AAAAATAT-TATA
*
35025886 AATTCAAAACATATTATA
1 AATTCAAAAAATATTATA
35025904 A
1 A
35025905 CCAAAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTCAAAAAATATTATA
Found at i:35026003 original size:9 final size:9
Alignment explanation
Indices: 35025985--35026104 Score: 113
Period size: 9 Copynumber: 13.6 Consensus size: 9
35025975 GTTTAAATTT
35025985 CATAACTTA
1 CATAACTTA
*
35025994 CATAATTTA
1 CATAACTTA
35026003 CATAACTTA
1 CATAACTTA
35026012 CATAA--TA
1 CATAACTTA
* *
35026019 TATAAATATA
1 CATAACT-TA
* *
35026029 TATCAC--A
1 CATAACTTA
35026036 CCATAACTTA
1 -CATAACTTA
*
35026046 CATAACTCA
1 CATAACTTA
*
35026055 CATTACTTA
1 CATAACTTA
35026064 CATAACTTA
1 CATAACTTA
*
35026073 CATAAGTTA
1 CATAACTTA
*
35026082 CATAACTCA
1 CATAACTTA
35026091 CATAACTTA
1 CATAACTTA
35026100 CATAA
1 CATAA
35026105 TACATAAATA
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
7 7 0.08
8 4 0.04
9 72 0.80
10 7 0.08
ACGTcount: A:0.46, C:0.21, G:0.01, T:0.33
Consensus pattern (9 bp):
CATAACTTA
Found at i:35026126 original size:5 final size:5
Alignment explanation
Indices: 35026116--35026148 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
35026106 ACATAAATAG
35026116 ATATC ATATC ATATC ATATC ATATC ATATC ATA
1 ATATC ATATC ATATC ATATC ATATC ATATC ATA
35026149 ATTTACATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATC
Found at i:35030098 original size:31 final size:31
Alignment explanation
Indices: 35030061--35030123 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
35030051 GTATTGTAGG
35030061 AAAAATGCCTAGAAGAAGATTACGAAATCTA
1 AAAAATGCCTAGAAGAAGATTACGAAATCTA
35030092 AAAAATGCCTAGAAGAAGATTACGAAATCTA
1 AAAAATGCCTAGAAGAAGATTACGAAATCTA
35030123 A
1 A
35030124 GTATTGTTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.52, C:0.13, G:0.16, T:0.19
Consensus pattern (31 bp):
AAAAATGCCTAGAAGAAGATTACGAAATCTA
Found at i:35031247 original size:13 final size:14
Alignment explanation
Indices: 35031231--35031259 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35031221 TTTTAAATAT
35031231 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
35031244 TTATAATGGTTTAA
1 TTATAATGGTTTAA
35031258 TT
1 TT
35031260 TGTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:35032029 original size:43 final size:43
Alignment explanation
Indices: 35031982--35032155 Score: 172
Period size: 43 Copynumber: 4.3 Consensus size: 43
35031972 GAACGCTACT
* * *
35031982 TTTAGCGGCGTTTGTGGTGAAAACGCCACTAAAGGTGATGTTC
1 TTTAGCGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCATGTTC
35032025 TTTAGCGGCG--T-T--T------GCCGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCATGTTC
* * * *
35032057 TTTAACAGCGTTTGTGGTGAAAGCACCGCTAAAGGTCATGTAC
1 TTTAGCGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCATGTTC
* * * *
35032100 TTTAGCGGCGTTTGTGGTTAAAGTGCGGCTAAAGCTCATGTTC
1 TTTAGCGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCATGTTC
35032143 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
35032156 TTTCAGATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 22
0.75 0.10 0.15
Matches are distributed among these distances:
32 25 0.24
34 1 0.01
35 1 0.01
37 1 0.01
38 1 0.01
40 1 0.01
41 1 0.01
43 75 0.71
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGTGAAAGCGCCGCTAAAGGTCATGTTC
Found at i:35032055 original size:32 final size:32
Alignment explanation
Indices: 35032010--35032070 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
35032000 GAAAACGCCA
* * *
35032010 CTAAAGGTGATGTTCTTTAGCGGCGTTTGCCG
1 CTAAAGGTCATGTTCTTTAACAGCGTTTGCCG
35032042 CTAAAGGTCATGTTCTTTAACAGCGTTTG
1 CTAAAGGTCATGTTCTTTAACAGCGTTTG
35032071 TGGTGAAAGC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (32 bp):
CTAAAGGTCATGTTCTTTAACAGCGTTTGCCG
Found at i:35032929 original size:4 final size:4
Alignment explanation
Indices: 35032920--35032953 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
35032910 CCGAAGCAAC
35032920 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
1 CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CT
35032954 CTACGTCATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
CTTT
Found at i:35036084 original size:17 final size:17
Alignment explanation
Indices: 35036059--35036092 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
35036049 ATATGAAAAC
*
35036059 TAATCTTAGAAGATTTG
1 TAATATTAGAAGATTTG
35036076 TAATATTAGAAGATTTG
1 TAATATTAGAAGATTTG
35036093 ATTTTGTAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (17 bp):
TAATATTAGAAGATTTG
Found at i:35041766 original size:30 final size:29
Alignment explanation
Indices: 35041698--35041768 Score: 83
Period size: 28 Copynumber: 2.4 Consensus size: 29
35041688 TTCTAAAAAA
* *
35041698 AAATAAACAAATT-TTATAAAGAGTTTTAT
1 AAATAAA-AAATTATTACAAAGAGTTTCAT
*
35041727 AAA-AAAAAATTATTACAAATAGATTTCAT
1 AAATAAAAAATTATTACAAAGAG-TTTCAT
35041756 AAATAAAAAATTA
1 AAATAAAAAATTA
35041769 ATAGATTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
27 5 0.14
28 11 0.31
29 11 0.31
30 9 0.25
ACGTcount: A:0.59, C:0.04, G:0.04, T:0.32
Consensus pattern (29 bp):
AAATAAAAAATTATTACAAAGAGTTTCAT
Found at i:35050204 original size:30 final size:30
Alignment explanation
Indices: 35050168--35050231 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
35050158 AAAGAGACAA
**
35050168 CTTATATTAGTAAATGAACCTAAACATGTC
1 CTTATATTAGTAAACAAACCTAAACATGTC
* *
35050198 CTTATATTAGTAGACAAACCTACACATGTC
1 CTTATATTAGTAAACAAACCTAAACATGTC
35050228 CTTA
1 CTTA
35050232 GTCTAATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (30 bp):
CTTATATTAGTAAACAAACCTAAACATGTC
Found at i:35052441 original size:26 final size:26
Alignment explanation
Indices: 35052412--35052519 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
35052402 TGGTACAAAT
35052412 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
35052438 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35052464 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
35052490 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35052516 TGAT
1 TGAT
35052520 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35054547 original size:137 final size:137
Alignment explanation
Indices: 35054301--35054587 Score: 556
Period size: 137 Copynumber: 2.1 Consensus size: 137
35054291 GAGTAGTCTC
35054301 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAGATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAGATGGGCCTATGGGCCATAC
35054366 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35054431 ACTATTA
131 ACTATTA
35054438 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAGATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAGATGGGCCTATGGGCCATAC
35054503 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35054568 ACTATTA
131 ACTATTA
**
35054575 CCTGAATGGGCTT
1 CCCAAATGGGCTT
35054588 AGGCCCAATG
Statistics
Matches: 148, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
137 148 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAGATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:35057052 original size:58 final size:59
Alignment explanation
Indices: 35056966--35057086 Score: 228
Period size: 58 Copynumber: 2.1 Consensus size: 59
35056956 TAAGTAGAAT
35056966 TAAAAATATATAAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
1 TAAAAATATATAAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
35057025 TAAAAATATAT-AAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
1 TAAAAATATATAAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
35057083 -AAAA
1 TAAAA
35057087 TAAAAAAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
57 4 0.06
58 47 0.76
59 11 0.18
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (59 bp):
TAAAAATATATAAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
Found at i:35057092 original size:8 final size:8
Alignment explanation
Indices: 35057078--35057150 Score: 69
Period size: 8 Copynumber: 9.0 Consensus size: 8
35057068 TATATACATT
35057078 TATAAAAA
1 TATAAAAA
35057086 -ATAAAAA
1 TATAAAAA
* *
35057093 AATATAAA
1 TATAAAAA
35057101 TATAAAGAA
1 TATAAA-AA
35057110 -ATAAAAA
1 TATAAAAA
*
35057117 TTATAAAAT
1 -TATAAAAA
35057126 TATAAAAA
1 TATAAAAA
*
35057134 TATAAAAT
1 TATAAAAA
35057142 TATTAAAAA
1 TA-TAAAAA
35057151 ACACGTTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
7 9 0.17
8 31 0.58
9 13 0.25
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (8 bp):
TATAAAAA
Found at i:35057097 original size:25 final size:23
Alignment explanation
Indices: 35057077--35057140 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 23
35057067 ATATATACAT
35057077 TTATAAAAAATAAAAAAATATAA
1 TTATAAAAAATAAAAAAATATAA
* * *
35057100 ATATAAAGAAATAAAAATTATAAAA
1 TTATAAA-AAATAAAAA-AATATAA
35057125 TTATAAAAATATAAAA
1 TTATAAAAA-ATAAAA
35057141 TTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 6 0.18
24 11 0.32
25 17 0.50
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
TTATAAAAAATAAAAAAATATAA
Found at i:35057100 original size:17 final size:17
Alignment explanation
Indices: 35057078--35057140 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
35057068 TATATACATT
35057078 TATAAAAAATAAAAAAA
1 TATAAAAAATAAAAAAA
* *
35057095 TAT-AAATAT-AAAGAA
1 TATAAAAAATAAAAAAA
* * *
35057110 -ATAAAAATTATAAAAT
1 TATAAAAAATAAAAAAA
35057126 TATAAAAATATAAAA
1 TATAAAAA-ATAAAA
35057141 TTATTAAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 7
0.67 0.18 0.14
Matches are distributed among these distances:
14 2 0.06
15 9 0.27
16 8 0.24
17 10 0.30
18 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
TATAAAAAATAAAAAAA
Found at i:35057104 original size:23 final size:25
Alignment explanation
Indices: 35057077--35057140 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 25
35057067 ATATATACAT
35057077 TTATAAAAAATAAAAAAATAT-AAA
1 TTATAAAAAATAAAAAAATATAAAA
*
35057101 -TATAAAGAAAT-AAAAATTATAAAA
1 TTATAAA-AAATAAAAAAATATAAAA
35057125 TTATAAAAATATAAAA
1 TTATAAAAA-ATAAAA
35057141 TTATTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.41
24 9 0.26
25 8 0.24
26 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
TTATAAAAAATAAAAAAATATAAAA
Found at i:35057123 original size:33 final size:31
Alignment explanation
Indices: 35057079--35057139 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
35057069 ATATACATTT
*
35057079 ATAAAAAATAAAAAAATATAAATATAAAGAA
1 ATAAAAAATAAAAAAATAAAAATATAAAGAA
**
35057110 ATAAAAATTATAAAATTATAAAAATATAAA
1 ATAAAAA--ATAAAAAAATAAAAATATAAA
35057140 ATTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
33 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (31 bp):
ATAAAAAATAAAAAAATAAAAATATAAAGAA
Found at i:35057148 original size:17 final size:17
Alignment explanation
Indices: 35057110--35057150 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
35057100 ATATAAAGAA
35057110 ATAAAAATTATAAAATT
1 ATAAAAATTATAAAATT
35057127 ATAAAAA-TATAAAATT
1 ATAAAAATTATAAAATT
35057143 ATTAAAAA
1 A-TAAAAA
35057151 ACACGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAATTATAAAATT
Found at i:35061607 original size:26 final size:26
Alignment explanation
Indices: 35061578--35061685 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
35061568 TGGTACAAAT
35061578 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
35061604 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35061630 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
35061656 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
35061682 TGAT
1 TGAT
35061686 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:35063713 original size:137 final size:137
Alignment explanation
Indices: 35063467--35063753 Score: 520
Period size: 137 Copynumber: 2.1 Consensus size: 137
35063457 GAGTAGTCTC
35063467 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
*
35063532 TGTTATCTGAATAAGGGGCTAAGGCCTAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35063597 ACTATTA
131 ACTATTA
* *
35063604 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAGATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
*
35063669 TGTTATCTGAATAAGGGTCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
35063734 ACTATTA
131 ACTATTA
**
35063741 CCTGAATGGGCTT
1 CCCAAATGGGCTT
35063754 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
137 144 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTAAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTATTA
Found at i:35065753 original size:58 final size:58
Alignment explanation
Indices: 35065667--35065845 Score: 342
Period size: 58 Copynumber: 3.1 Consensus size: 58
35065657 TAAGTAGAAT
35065667 TAAAAATATATAAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
1 TAAAAATATAT-AAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
35065726 TAAAAATATATAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
1 TAAAAATATATAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
35065784 TAAAAATATATAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
1 TAAAAATATATAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
35065842 -AAAA
1 TAAAA
35065846 TAAAAAAATA
Statistics
Matches: 120, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
57 4 0.03
58 105 0.88
59 11 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (58 bp):
TAAAAATATATAAAAAATATAATATTTTGAAAGAAAAATATAATATATACATTTATAA
Found at i:35065763 original size:32 final size:32
Alignment explanation
Indices: 35065727--35065825 Score: 113
Period size: 32 Copynumber: 3.3 Consensus size: 32
35065717 CATTTATAAT
35065727 AAAAATATATAAAAAATATAATATTTTGAAAG
1 AAAAATATATAAAAAATATAATATTTTGAAAG
* * *
35065759 -AAAA-ATAT--AATATAT-ACA-TTT-ATAAT
1 AAAAATATATAAAAAATATAATATTTTGA-AAG
35065785 AAAAATATATAAAAAATATAATATTTTGAAAG
1 AAAAATATATAAAAAATATAATATTTTGAAAG
35065817 AAAAATATA
1 AAAAATATA
35065826 ATATATACAT
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
25 1 0.02
26 5 0.09
27 6 0.11
28 10 0.19
30 10 0.19
31 6 0.11
32 14 0.26
33 1 0.02
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (32 bp):
AAAAATATATAAAAAATATAATATTTTGAAAG
Found at i:35065851 original size:8 final size:8
Alignment explanation
Indices: 35065837--35065909 Score: 69
Period size: 8 Copynumber: 9.0 Consensus size: 8
35065827 TATATACATT
35065837 TATAAAAA
1 TATAAAAA
35065845 -ATAAAAA
1 TATAAAAA
* *
35065852 AATATAAA
1 TATAAAAA
35065860 TATAAAGAA
1 TATAAA-AA
35065869 -ATAAAAA
1 TATAAAAA
*
35065876 TTATAAAAT
1 -TATAAAAA
35065885 TATAAAAA
1 TATAAAAA
*
35065893 TATAAAAT
1 TATAAAAA
35065901 TATTAAAAA
1 TA-TAAAAA
35065910 ACACGTTTTG
Statistics
Matches: 53, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
7 9 0.17
8 31 0.58
9 13 0.25
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.27
Consensus pattern (8 bp):
TATAAAAA
Found at i:35065856 original size:25 final size:23
Alignment explanation
Indices: 35065836--35065899 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 23
35065826 ATATATACAT
35065836 TTATAAAAAATAAAAAAATATAA
1 TTATAAAAAATAAAAAAATATAA
* * *
35065859 ATATAAAGAAATAAAAATTATAAAA
1 TTATAAA-AAATAAAAA-AATATAA
35065884 TTATAAAAATATAAAA
1 TTATAAAAA-ATAAAA
35065900 TTATTAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 6 0.18
24 11 0.32
25 17 0.50
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (23 bp):
TTATAAAAAATAAAAAAATATAA
Found at i:35065859 original size:17 final size:17
Alignment explanation
Indices: 35065837--35065899 Score: 51
Period size: 17 Copynumber: 3.8 Consensus size: 17
35065827 TATATACATT
35065837 TATAAAAAATAAAAAAA
1 TATAAAAAATAAAAAAA
* *
35065854 TAT-AAATAT-AAAGAA
1 TATAAAAAATAAAAAAA
* * *
35065869 -ATAAAAATTATAAAAT
1 TATAAAAAATAAAAAAA
35065885 TATAAAAATATAAAA
1 TATAAAAA-ATAAAA
35065900 TTATTAAAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 7
0.67 0.18 0.14
Matches are distributed among these distances:
14 2 0.06
15 9 0.27
16 8 0.24
17 10 0.30
18 4 0.12
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (17 bp):
TATAAAAAATAAAAAAA
Found at i:35065863 original size:23 final size:25
Alignment explanation
Indices: 35065836--35065899 Score: 80
Period size: 23 Copynumber: 2.6 Consensus size: 25
35065826 ATATATACAT
35065836 TTATAAAAAATAAAAAAATAT-AAA
1 TTATAAAAAATAAAAAAATATAAAA
*
35065860 -TATAAAGAAAT-AAAAATTATAAAA
1 TTATAAA-AAATAAAAAAATATAAAA
35065884 TTATAAAAATATAAAA
1 TTATAAAAA-ATAAAA
35065900 TTATTAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
23 14 0.41
24 9 0.26
25 8 0.24
26 3 0.09
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.27
Consensus pattern (25 bp):
TTATAAAAAATAAAAAAATATAAAA
Found at i:35065882 original size:33 final size:31
Alignment explanation
Indices: 35065838--35065898 Score: 77
Period size: 33 Copynumber: 1.9 Consensus size: 31
35065828 ATATACATTT
*
35065838 ATAAAAAATAAAAAAATATAAATATAAAGAA
1 ATAAAAAATAAAAAAATAAAAATATAAAGAA
**
35065869 ATAAAAATTATAAAATTATAAAAATATAAA
1 ATAAAAA--ATAAAAAAATAAAAATATAAA
35065899 ATTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 7 0.28
33 18 0.72
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (31 bp):
ATAAAAAATAAAAAAATAAAAATATAAAGAA
Found at i:35065907 original size:17 final size:17
Alignment explanation
Indices: 35065869--35065909 Score: 66
Period size: 17 Copynumber: 2.4 Consensus size: 17
35065859 ATATAAAGAA
35065869 ATAAAAATTATAAAATT
1 ATAAAAATTATAAAATT
35065886 ATAAAAA-TATAAAATT
1 ATAAAAATTATAAAATT
35065902 ATTAAAAA
1 A-TAAAAA
35065910 ACACGTTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 10 0.43
17 13 0.57
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
ATAAAAATTATAAAATT
Found at i:35066884 original size:43 final size:43
Alignment explanation
Indices: 35066836--35066921 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
35066826 CGCCCATCTT
35066836 CCCTACAAGCATGCAAAAATTCTTGCGTGGGGATCCTCACCTG
1 CCCTACAAGCATGCAAAAATTCTTGCGTGGGGATCCTCACCTG
* *
35066879 CCCTACACGCATGCAAGAATTCTTGCGTGGGGATCCTCACCTG
1 CCCTACAAGCATGCAAAAATTCTTGCGTGGGGATCCTCACCTG
35066922 TTTCAGCACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.23
Consensus pattern (43 bp):
CCCTACAAGCATGCAAAAATTCTTGCGTGGGGATCCTCACCTG
Found at i:35073825 original size:35 final size:36
Alignment explanation
Indices: 35073773--35073850 Score: 140
Period size: 35 Copynumber: 2.2 Consensus size: 36
35073763 CATGAATCTG
*
35073773 TCTTTCCTTTTACAACACCCTCCAAAGATCAACCCC
1 TCTTTCCTTTTACAACACCCTCCAAAGATCAACCCA
35073809 TCTTTCC-TTTACAACACCCTCCAAAGATCAACCCA
1 TCTTTCCTTTTACAACACCCTCCAAAGATCAACCCA
35073844 TCTTTCC
1 TCTTTCC
35073851 CTTGGATGAC
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
35 34 0.83
36 7 0.17
ACGTcount: A:0.27, C:0.41, G:0.03, T:0.29
Consensus pattern (36 bp):
TCTTTCCTTTTACAACACCCTCCAAAGATCAACCCA
Found at i:35095328 original size:17 final size:17
Alignment explanation
Indices: 35095306--35095340 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
35095296 CAAAATTAAA
*
35095306 TTTTTAAAAATGTTTAT
1 TTTTTAAAAATGCTTAT
35095323 TTTTTAAAAATGCTTAT
1 TTTTTAAAAATGCTTAT
35095340 T
1 T
35095341 ATATTATGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTTTAAAAATGCTTAT
Found at i:35095995 original size:5 final size:5
Alignment explanation
Indices: 35095985--35096011 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
35095975 TTAAATATTA
35095985 AATAT AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AATAT AA
35096012 ATTTGGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (5 bp):
AATAT
Found at i:35097663 original size:26 final size:27
Alignment explanation
Indices: 35097612--35097664 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
35097602 TTTTTATGTT
*
35097612 TAAAAGTAAGTTAAAAAAAATAAAAAA
1 TAAAAGTAAGATAAAAAAAATAAAAAA
*
35097639 TAAAAG-AAGATAAAATAAAACAAAAA
1 TAAAAGTAAGATAAAA-AAAATAAAAA
35097665 CAGAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (27 bp):
TAAAAGTAAGATAAAAAAAATAAAAAA
Found at i:35099276 original size:21 final size:21
Alignment explanation
Indices: 35099251--35099294 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
35099241 ATCGATACAT
35099251 TTTAAAAAATATTGATACTCA
1 TTTAAAAAATATTGATACTCA
*
35099272 TTTAAAAAGTATTGATACTCA
1 TTTAAAAAATATTGATACTCA
35099293 TT
1 TT
35099295 GGGTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (21 bp):
TTTAAAAAATATTGATACTCA
Found at i:35101449 original size:21 final size:21
Alignment explanation
Indices: 35101422--35101476 Score: 71
Period size: 21 Copynumber: 2.7 Consensus size: 21
35101412 TAGCACATGA
35101422 CCGTGTGACAG-AGGGACAC-G
1 CCGTGTGA-AGTAGGGACACGG
35101442 CCTGTGTGAAGTAGGGACACGG
1 CC-GTGTGAAGTAGGGACACGG
35101464 CCGTGTGAA-TAGG
1 CCGTGTGAAGTAGG
35101477 TTGTGTAACC
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
20 8 0.25
21 21 0.66
22 3 0.09
ACGTcount: A:0.24, C:0.20, G:0.40, T:0.16
Consensus pattern (21 bp):
CCGTGTGAAGTAGGGACACGG
Found at i:35102134 original size:5 final size:5
Alignment explanation
Indices: 35102124--35102174 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
35102114 GTAACTTCCA
* *
35102124 AAAAT AAAAT AAAA- AAATAA AAAAT CAAAT AAAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAA-AT AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT
35102175 CTAAAACAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
4 3 0.08
5 30 0.75
6 7 0.17
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:35102153 original size:12 final size:12
Alignment explanation
Indices: 35102124--35102168 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
35102114 GTAACTTCCA
*
35102124 AAAATAAAATAAA
1 AAAATAAAA-AAT
35102137 AAAATAAAAAAT
1 AAAATAAAAAAT
*
35102149 CAAAT-AAAAAT
1 AAAATAAAAAAT
35102160 AAAATAAAA
1 AAAATAAAA
35102169 TAAAATCTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.36
12 9 0.32
13 9 0.32
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:35102157 original size:11 final size:11
Alignment explanation
Indices: 35102123--35102174 Score: 65
Period size: 10 Copynumber: 5.0 Consensus size: 11
35102113 CGTAACTTCC
35102123 AAAAATAAAAT
1 AAAAATAAAAT
*
35102134 AAAAA-AATA-
1 AAAAATAAAAT
*
35102143 AAAAATCAAAT
1 AAAAATAAAAT
35102154 AAAAATAAAAT
1 AAAAATAAAAT
35102165 -AAAATAAAAT
1 AAAAATAAAAT
35102175 CTAAAACAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
9 5 0.14
10 15 0.43
11 15 0.43
ACGTcount: A:0.81, C:0.02, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:35102185 original size:16 final size:16
Alignment explanation
Indices: 35102123--35102187 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
35102113 CGTAACTTCC
35102123 AAAAATAAAAT-AAA-
1 AAAAATAAAATCAAAT
*
35102137 AAAATAAAAAATCAAAT
1 AAAA-ATAAAATCAAAT
*
35102154 AAAAATAAAATAAAAT
1 AAAAATAAAATCAAAT
*
35102170 AAAATCTAAAA-CAAAT
1 AAAA-ATAAAATCAAAT
35102186 AA
1 AA
35102188 GTTACCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
14 4 0.10
15 6 0.14
16 23 0.55
17 9 0.21
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (16 bp):
AAAAATAAAATCAAAT
Found at i:35103285 original size:12 final size:12
Alignment explanation
Indices: 35103265--35103304 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
35103255 TTTATTAATA
* *
35103265 TTTTAAATTGAT
1 TTTTTAATTTAT
35103277 TTTTTAATTTA-
1 TTTTTAATTTAT
35103288 TTTTTAATTTAT
1 TTTTTAATTTAT
35103300 TTTTT
1 TTTTT
35103305 TTATTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (12 bp):
TTTTTAATTTAT
Found at i:35103302 original size:10 final size:11
Alignment explanation
Indices: 35103263--35103303 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
35103253 AGTTTATTAA
*
35103263 TATTTTAAATT
1 TATTTTTAATT
*
35103274 GATTTTTTAATT
1 TA-TTTTTAATT
35103286 TATTTTTAATT
1 TATTTTTAATT
35103297 TATTTTT
1 TATTTTT
35103304 TTTATTTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
11 17 0.65
12 9 0.35
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (11 bp):
TATTTTTAATT
Done.