Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 114 of 295
Found at i:34345874 original size:21 final size:21
Alignment explanation
Indices: 34345850--34345893 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
34345840 TCATTCATGG
34345850 GATTGATGGAAATTCGTTTTA
1 GATTGATGGAAATTCGTTTTA
34345871 GATTGATGGAAATTCGTTTTA
1 GATTGATGGAAATTCGTTTTA
34345892 GA
1 GA
34345894 AACATGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.05, G:0.25, T:0.41
Consensus pattern (21 bp):
GATTGATGGAAATTCGTTTTA
Found at i:34355809 original size:90 final size:90
Alignment explanation
Indices: 34355650--34355817 Score: 266
Period size: 90 Copynumber: 1.9 Consensus size: 90
34355640 CAAAGTGGAC
*
34355650 GCCTTTGTGGCCATCTAATTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCC
1 GCCTTTGTGGCCATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCC
34355715 TTGCGGCTATCTAATGTGAGTAGGT
66 TTGCGGCTATCTAATGTGAGTAGGT
* * * *
34355740 GCCTTTGTGGCTATCTAACTATATGGACGA-CTCTATGGCTATCTTGTATATGTGTTTGGATGCT
1 GCCTTTGTGGCCATCTAACTATATGGAC-ACCTCTATGGCTATCTTCTATATGAGTTTGGATGCC
*
34355804 TTTGCGGCTATCTA
65 CTTGCGGCTATCTA
34355818 TGTCAAAGGA
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
90 70 0.99
91 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (90 bp):
GCCTTTGTGGCCATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCC
TTGCGGCTATCTAATGTGAGTAGGT
Found at i:34355839 original size:90 final size:90
Alignment explanation
Indices: 34355652--34355846 Score: 243
Period size: 90 Copynumber: 2.2 Consensus size: 90
34355642 AAGTGGACGC
* *
34355652 CTTTGTGGCCATCTAATTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCCTT
1 CTTTGTGGCTATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCCTT
* * * *
34355717 GCGGCTATCTAATGTGAGTAGGTGC
66 GCGGCTATCTAATGTCAGAAGGAGA
* * **
34355742 CTTTGTGGCTATCTAACTATATGGACGA-CTCTATGGCTATCTTGTATATGTGTTTGGATGCTTT
1 CTTTGTGGCTATCTAACTATATGGAC-ACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCCT
34355806 TGCGGCTATCT-ATGTCA-AAGGAAGA
65 TGCGGCTATCTAATGTCAGAAGG-AGA
*
34355831 CTTATGTGGTTATCTA
1 CTT-TGTGGCTATCTA
34355847 TATCAAGGGA
Statistics
Matches: 91, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
88 3 0.03
89 9 0.10
90 78 0.86
91 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (90 bp):
CTTTGTGGCTATCTAACTATATGGACACCTCTATGGCTATCTTCTATATGAGTTTGGATGCCCTT
GCGGCTATCTAATGTCAGAAGGAGA
Found at i:34363871 original size:26 final size:26
Alignment explanation
Indices: 34363818--34363888 Score: 81
Period size: 26 Copynumber: 2.7 Consensus size: 26
34363808 TTATTTTTTC
* *
34363818 AAAAATAATAATAA-ATAAAAAGAAAT
1 AAAAATATTAA-AATATTAAAAGAAAT
* *
34363844 AAATATATTAAAATATTAAAATAAAT
1 AAAAATATTAAAATATTAAAAGAAAT
*
34363870 AAAAATATTAAAATTTTAA
1 AAAAATATTAAAATATTAA
34363889 CTTTCTCTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.05
26 36 0.95
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (26 bp):
AAAAATATTAAAATATTAAAAGAAAT
Found at i:34371474 original size:19 final size:18
Alignment explanation
Indices: 34371445--34371484 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
34371435 CAAAATGTAC
34371445 AATATAATTAAATAATAT
1 AATATAATTAAATAATAT
*
34371463 AATATAAATTAAATAATTT
1 AATAT-AATTAAATAATAT
34371482 AAT
1 AAT
34371485 TAACTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATATAATTAAATAATAT
Found at i:34375297 original size:17 final size:19
Alignment explanation
Indices: 34375265--34375311 Score: 71
Period size: 17 Copynumber: 2.6 Consensus size: 19
34375255 GAAGAGGCCT
34375265 AAACTCTATCATCCTCTCA
1 AAACTCTATCATCCTCTCA
34375284 AAACTC-AT-ATCCTCTCA
1 AAACTCTATCATCCTCTCA
*
34375301 AAACCCTATCA
1 AAACTCTATCA
34375312 AATTCTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 14 0.56
18 4 0.16
19 7 0.28
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (19 bp):
AAACTCTATCATCCTCTCA
Found at i:34376865 original size:29 final size:29
Alignment explanation
Indices: 34376833--34376890 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
34376823 ACATTACCCA
*
34376833 CATTTAAAAAGATGGATATGCATGCATGC
1 CATTTAAAAAGATGGATATCCATGCATGC
*
34376862 CATTTAAAAATATGGATATCCATGCATGC
1 CATTTAAAAAGATGGATATCCATGCATGC
34376891 TTAACAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (29 bp):
CATTTAAAAAGATGGATATCCATGCATGC
Found at i:34385569 original size:37 final size:37
Alignment explanation
Indices: 34385519--34385597 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34385509 TTATTACGAA
* *
34385519 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
34385556 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
34385593 GTCTT
1 GTCTT
34385598 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:34385794 original size:47 final size:47
Alignment explanation
Indices: 34385716--34386204 Score: 780
Period size: 47 Copynumber: 10.4 Consensus size: 47
34385706 CCCTTCGGGA
* * * * * * *
34385716 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34385763 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34385810 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34385857 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34385904 CTTATCACACATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34385951 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34385998 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
34386045 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34386092 CTTATCACATATATACACTTTCACATTCATCACATCTGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34386139 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34386186 CTTATCACACATATACACT
1 CTTATCACATATATACACT
34386205 GTCTTGGCTG
Statistics
Matches: 408, Mismatches: 34, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 408 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34389553 original size:37 final size:35
Alignment explanation
Indices: 34389512--34389592 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
34389502 TTTTGTTTTT
34389512 AAACACG-AGAACTTTGAAACA-AAATAATAATTTTTGA
1 AAACACGAAG-ACTTTGAAACACAAA-AAT--TTTTTGA
* *
34389549 AAACACGAAGATTTTGAAACACGAAAATTTTTTGA
1 AAACACGAAGACTTTGAAACACAAAAATTTTTTGA
34389584 AAACACGAA
1 AAACACGAA
34389593 AACACAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 16 0.40
37 20 0.50
38 4 0.10
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (35 bp):
AAACACGAAGACTTTGAAACACAAAAATTTTTTGA
Found at i:34389581 original size:18 final size:18
Alignment explanation
Indices: 34389540--34389594 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 18
34389530 ACAAAATAAT
34389540 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
34389558 GA-TTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
34389574 AATTTTTTGAAAACACGAA
1 AA-TTTTTGAAAACACGAA
34389593 AA
1 AA
34389595 CACAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.31
17 5 0.16
18 6 0.19
19 11 0.34
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:34389612 original size:42 final size:42
Alignment explanation
Indices: 34389547--34389632 Score: 102
Period size: 41 Copynumber: 2.0 Consensus size: 42
34389537 AATAATTTTT
*
34389547 GAAAACACGAAGATTTTGAAACACGAAAATTTTTTGAAAACAC
1 GAAAACACGAAAATTTTGAAACACGAAAA-TTTTTGAAAACAC
** ***
34389590 GAAAACAC-AAAATTTTTTAACACGGGGATTTTTGAAAACAC
1 GAAAACACGAAAATTTTGAAACACGAAAATTTTTGAAAACAC
34389631 GA
1 GA
34389633 CAGTTTTTGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
41 15 0.41
42 14 0.38
43 8 0.22
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (42 bp):
GAAAACACGAAAATTTTGAAACACGAAAATTTTTGAAAACAC
Found at i:34389680 original size:21 final size:22
Alignment explanation
Indices: 34389651--34389697 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
34389641 GAAACATGAG
34389651 AATTTT-TTTT-AAAACAC-AA
1 AATTTTATTTTGAAAACACAAA
34389670 AATTTTATTTTGAAAACACAAA
1 AATTTTATTTTGAAAACACAAA
34389692 AATTTT
1 AATTTT
34389698 GATAAATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.24
20 4 0.16
21 7 0.28
22 8 0.32
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (22 bp):
AATTTTATTTTGAAAACACAAA
Found at i:34389747 original size:36 final size:37
Alignment explanation
Indices: 34389704--34389894 Score: 144
Period size: 36 Copynumber: 5.2 Consensus size: 37
34389694 TTTTGATAAA
* *
34389704 TTATGAAACACGAGGATTTTTTTG-AAACGCGGAAAT
1 TTATGAAACACGAGGAATTTTTTGAAAACACGGAAAT
*
34389740 TTATGAAACA--AGGTCAATTTTTTGAAAACACGAAAAT
1 TTATGAAACACGAGG--AATTTTTTGAAAACACGGAAAT
* * *
34389777 TTTTGAAAGACGA-GAATTTTTTGAAAACACGGAGAT
1 TTATGAAACACGAGGAATTTTTTGAAAACACGGAAAT
* * ** * *
34389813 TTATAAAACACGAAAGTTTTTTTTGAAAACAAGAAAAT
1 TTATGAAACACG-AGGAATTTTTTGAAAACACGGAAAT
* * *
34389851 TT-TCAAAATACGA-GAA-TTTTTGAAAACAGGGGAAAT
1 TTAT-GAAACACGAGGAATTTTTTGAAAACA-CGGAAAT
*
34389887 TTTTGAAA
1 TTATGAAA
34389895 ACATGAAAAT
Statistics
Matches: 124, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
34 3 0.02
35 12 0.10
36 58 0.47
37 22 0.18
38 28 0.23
39 1 0.01
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.31
Consensus pattern (37 bp):
TTATGAAACACGAGGAATTTTTTGAAAACACGGAAAT
Found at i:34389781 original size:18 final size:18
Alignment explanation
Indices: 34389758--34390248 Score: 251
Period size: 17 Copynumber: 27.2 Consensus size: 18
34389748 CAAGGTCAAT
34389758 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
34389776 TTTTTG-AAAGACGAGAAT
1 TTTTTGAAAACACGA-AAA
* *
34389794 TTTTTGAAAACACGGAGA
1 TTTTTGAAAACACGAAAA
* *
34389812 TTTAT-AAAACACGAAAGTTT
1 TTTTTGAAAACACGAAA---A
*
34389832 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * *
34389850 -TTTTCAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
* *
34389867 TTTTTGAAAACAGGGGAAA
1 TTTTTGAAAACA-CGAAAA
*
34389886 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
34389904 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAAAA
* *
34389921 -TTTTCAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
34389938 TTTTT-TAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
34389955 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA-AAA
* *
34389974 TTTTTGGAATACA--AACA
1 TTTTT-GAAAACACGAAAA
* *
34389991 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
34390008 TTTTT-AAAACATGACAATT
1 TTTTTGAAAACACGA-AA-A
34390027 TTTTTG-AAACACGAGAAATTTA
1 TTTTTGAAAACAC--GAAA---A
* **
34390049 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGAAAA
* *
34390067 ATTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
34390084 TTTGTG-AAACTCGAGAA
1 TTTTTGAAAACACGAAAA
* * **
34390101 TTGTTGAAAAAAATAAAAA
1 TTTTTG-AAAACACGAAAA
* *
34390120 ATTTTGAAAATACG-AAA
1 TTTTTGAAAACACGAAAA
**
34390137 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * *
34390155 TTTTAG-AAATATGGAAA
1 TTTTTGAAAACACGAAAA
34390172 TTTTTAGAAAACACGAAAA
1 TTTTT-GAAAACACGAAAA
* *
34390191 ATTTTGAAAA-A-TAAAA
1 TTTTTGAAAACACGAAAA
*
34390207 TTTTTTGAAAACACGAGAA
1 -TTTTTGAAAACACGAAAA
34390226 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
34390245 TTTT
1 TTTT
34390249 CTGATTTTTC
Statistics
Matches: 349, Mismatches: 90, Indels: 67
0.69 0.18 0.13
Matches are distributed among these distances:
15 4 0.01
16 9 0.03
17 139 0.40
18 90 0.26
19 69 0.20
20 12 0.03
21 15 0.04
22 6 0.02
23 5 0.01
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:34389796 original size:73 final size:75
Alignment explanation
Indices: 34389707--34389902 Score: 181
Period size: 74 Copynumber: 2.7 Consensus size: 75
34389697 TGATAAATTA
* * * *
34389707 TGAAACACGAGGATTTTTTTG-AAACGCGGAAATTTAT-GAA-AC-AAGGTCAATTTTTTGAAAA
1 TGAAACACGAGAATTTTTTTGAAAACACGGAAATTTATAAAACACGAAAGT--ATTTTTTGAAAA
*
34389768 CACGAAAATTTT
64 CAAGAAAATTTT
* * *
34389780 TGAAAGACGAGAA-TTTTTTGAAAACACGGAGATTTATAAAACACGAAAGTTTTTTTTGAAAACA
1 TGAAACACGAGAATTTTTTTGAAAACACGGAAATTTATAAAACACGAAAGTATTTTTTGAAAACA
34389844 AGAAAATTTT
66 AGAAAATTTT
** * * * *
34389854 CAAAATACGAGAA--TTTTTGAAAACAGGGGAAATTTTTGAAAACATGAAA
1 TGAAACACGAGAATTTTTTTGAAAACA-CGGAAATTTAT-AAAACACGAAA
34389903 ATTTTTGAAA
Statistics
Matches: 102, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
72 7 0.07
73 37 0.36
74 42 0.41
75 12 0.12
76 4 0.04
ACGTcount: A:0.44, C:0.09, G:0.17, T:0.30
Consensus pattern (75 bp):
TGAAACACGAGAATTTTTTTGAAAACACGGAAATTTATAAAACACGAAAGTATTTTTTGAAAACA
AGAAAATTTT
Found at i:34389941 original size:34 final size:35
Alignment explanation
Indices: 34389758--34390248 Score: 145
Period size: 36 Copynumber: 13.6 Consensus size: 35
34389748 CAAGGTCAAT
* *
34389758 TTTTTGAAAACACGAAAATTTTTGAAAGACGA-GAA-T
1 TTTTTG-AAACATGAAAATTTTTGAAA-AC-ACGAAGA
* * * * *
34389794 TTTTTGAAAACACGGAGATTTAT-AAAACACGAAAGTTT
1 TTTTTG-AAACATGAAAATTTTTGAAAACACG-AAG--A
* * *
34389832 TTTTTGAAAACAAGAAAA-TTTTCAAAATACG-AGAA
1 TTTTTG-AAACATGAAAATTTTTGAAAACACGAAG-A
* * * *
34389867 TTTTTGAAAACAGGGGAAATTTTTGAAAACATGAAAA
1 TTTTTG-AAACA-TGAAAATTTTTGAAAACACGAAGA
* *
34389904 TTTTTGAAACACT-AGAA-TTTTCAAAACACGAAGA
1 TTTTTGAAACA-TGAAAATTTTTGAAAACACGAAGA
* *
34389938 TTTTTTAAACATGAAAATTTTTGAAAACACGAGGA
1 TTTTTGAAACATGAAAATTTTTGAAAACACGAAGA
* * * *
34389973 TTTTTTGGAATACA--AACATTTTAG-AAACATGAAAA
1 -TTTTT-GAA-ACATGAAAATTTTTGAAAACACGAAGA
* * *
34390008 TTTTTAAAACATGACAATTTTTTTG-AAACACGAGAAATTTA
1 TTTTTGAAACATGA-AA-ATTTTTGAAAACAC--G-AA--GA
* * *
34390049 TTTTTTAAAACATAAAAAATTTT-AAAACACG-AGAA
1 -TTTTTGAAACATGAAAATTTTTGAAAACACGAAG-A
* * * * ** *
34390084 TTTGTGAAAC-TCGAGAATTGTTGAAAAAAATAAAAA
1 TTTTTGAAACAT-GAAAATTTTTG-AAAACACGAAGA
* ** *
34390120 ATTTTGAAA-AT-ACGAAATTTTTTTAAACACGAAAA
1 TTTTTGAAACATGA--AAATTTTTGAAAACACGAAGA
* * * *
34390155 TTTTAGAAATATGGAAATTTTTAGAAAACACGAAAA
1 TTTTTGAAACATGAAAATTTTT-GAAAACACGAAGA
* *
34390191 ATTTTGAAAAAT-AAAATTTTTTGAAAACACG-AGAA
1 TTTTTGAAACATGAAAA-TTTTTGAAAACACGAAG-A
* *
34390226 TTTTTGAAAACACGAAAAATTTT
1 TTTTTG-AAACATGAAAATTTTT
34390249 CTGATTTTTC
Statistics
Matches: 339, Mismatches: 76, Indels: 80
0.68 0.15 0.16
Matches are distributed among these distances:
32 3 0.01
33 5 0.01
34 52 0.15
35 85 0.25
36 110 0.32
37 27 0.08
38 29 0.09
39 2 0.01
40 10 0.03
41 3 0.01
42 13 0.04
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (35 bp):
TTTTTGAAACATGAAAATTTTTGAAAACACGAAGA
Found at i:34389978 original size:35 final size:35
Alignment explanation
Indices: 34389845--34390028 Score: 101
Period size: 35 Copynumber: 5.3 Consensus size: 35
34389835 TTGAAAACAA
* * * **
34389845 GAAAATTTTCAAAATACGAGAATTTTTGAAAACAGGG
1 GAAAATTTTCAAAACACGAAAATTTTT-TAAACA-CT
* * * *
34389882 GAAATTTTTGAAAACATGAAAATTTTTGAAACACT
1 GAAAATTTTCAAAACACGAAAATTTTTTAAACACT
* *
34389917 -AGAATTTTCAAAACACGAAGATTTTTTAAACA-T
1 GAAAATTTTCAAAACACGAAAATTTTTTAAACACT
* ** * *
34389950 GAAAATTTTTGAAAACACGAGGATTTTTTGGAATAC-
1 GAAAA-TTTTCAAAACACGAAAATTTTTT-AAACACT
* *
34389986 -AAACATTTT-AGAAACATGAAAATTTTTAAAACA-T
1 GAAA-ATTTTCA-AAACACGAAAATTTTTTAAACACT
*
34390020 GACAATTTT
1 GAAAATTTT
34390029 TTTGAAACAC
Statistics
Matches: 113, Mismatches: 26, Indels: 19
0.72 0.16 0.12
Matches are distributed among these distances:
33 1 0.01
34 38 0.34
35 43 0.38
36 9 0.08
37 22 0.19
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (35 bp):
GAAAATTTTCAAAACACGAAAATTTTTTAAACACT
Found at i:34390208 original size:35 final size:34
Alignment explanation
Indices: 34390116--34390235 Score: 118
Period size: 35 Copynumber: 3.4 Consensus size: 34
34390106 GAAAAAAATA
**
34390116 AAAAATTTTG-AAAATACGAAATTTTTTTAAACACG
1 AAAAATTTTGAAAAATA--AAATTTTTGAAAACACG
* *
34390151 -AAAATTTTAGAAATATGGAAATTTTTAGAAAACACG
1 AAAAATTTT-GAAAAAT-AAAATTTTT-GAAAACACG
34390187 AAAAATTTTGAAAAATAAAATTTTTTGAAAACACG
1 AAAAATTTTGAAAAATAAAA-TTTTTGAAAACACG
* *
34390222 AGAATTTTTGAAAA
1 AAAAATTTTGAAAA
34390236 CACGAAAAAT
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
34 8 0.11
35 33 0.46
36 22 0.31
37 8 0.11
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.33
Consensus pattern (34 bp):
AAAAATTTTGAAAAATAAAATTTTTGAAAACACG
Found at i:34390379 original size:21 final size:20
Alignment explanation
Indices: 34390353--34390394 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
34390343 CGTTACCTTA
34390353 TTTTTGAAAACACGAGAAATT
1 TTTTTGAAAACACGA-AAATT
*
34390374 TTTTTGAAGACACGAAAATT
1 TTTTTGAAAACACGAAAATT
34390394 T
1 T
34390395 CGAAACGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTTTTGAAAACACGAAAATT
Found at i:34390771 original size:10 final size:10
Alignment explanation
Indices: 34390756--34390817 Score: 54
Period size: 10 Copynumber: 5.9 Consensus size: 10
34390746 AATTGAACCC
34390756 CTTTTTTCTT
1 CTTTTTTCTT
34390766 CTTTTTTCTT
1 CTTTTTTCTT
* *
34390776 TTTTCTTTTTCT
1 CTTT-TTTCT-T
34390788 CTCTTTTTCTT
1 CT-TTTTTCTT
34390799 -TTTTTCTCTT
1 CTTTTT-TCTT
*
34390809 TTTTTTTCT
1 CTTTTTTCT
34390818 GCTGGGCTGG
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 4 0.09
10 21 0.49
11 10 0.23
12 6 0.14
13 2 0.05
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (10 bp):
CTTTTTTCTT
Found at i:34390778 original size:17 final size:16
Alignment explanation
Indices: 34390756--34390812 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 16
34390746 AATTGAACCC
34390756 CTTTTTTCTTCTTTTTT
1 CTTTTTTCTT-TTTTTT
*
34390773 CTTTTTTC-TTTTTCT
1 CTTTTTTCTTTTTTTT
34390788 CTCTTTTTCTTTTTTTCT
1 CT-TTTTTCTTTTTTT-T
34390806 CTTTTTT
1 CTTTTTT
34390813 TTTCTGCTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
15 7 0.20
16 7 0.20
17 18 0.51
18 3 0.09
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTTCTTTTTTTT
Found at i:34390787 original size:23 final size:23
Alignment explanation
Indices: 34390758--34390802 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
34390748 TTGAACCCCT
34390758 TTTTTCT-TCTTTTTTCTTTTTTC
1 TTTTTCTCTC-TTTTTCTTTTTTC
34390781 TTTTTCTCTCTTTTTCTTTTTT
1 TTTTTCTCTCTTTTTCTTTTTT
34390803 TCTCTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (23 bp):
TTTTTCTCTCTTTTTCTTTTTTC
Found at i:34390794 original size:16 final size:15
Alignment explanation
Indices: 34390764--34390815 Score: 72
Period size: 16 Copynumber: 3.5 Consensus size: 15
34390754 CCCTTTTTTC
34390764 TTCTTTTTTCT-TTT
1 TTCTTTTTTCTCTTT
34390778 TTCTTTTTCTCTCTTT
1 TTCTTTTT-TCTCTTT
34390794 TTCTTTTTTTCTCTTT
1 TTC-TTTTTTCTCTTT
34390810 TT-TTTT
1 TTCTTTT
34390816 CTGCTGGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 12 0.34
15 3 0.09
16 15 0.43
17 5 0.14
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTCTTTTTTCTCTTT
Found at i:34390998 original size:15 final size:13
Alignment explanation
Indices: 34390952--34390985 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
34390942 TTTCTTCTTC
*
34390952 TTTTTT-CTACTT
1 TTTTTTGCTGCTT
34390964 TTTTTTGCTGCTT
1 TTTTTTGCTGCTT
34390977 TTTTTTGCT
1 TTTTTTGCT
34390986 TTGGTTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 6 0.30
13 14 0.70
ACGTcount: A:0.03, C:0.15, G:0.09, T:0.74
Consensus pattern (13 bp):
TTTTTTGCTGCTT
Found at i:34391537 original size:29 final size:29
Alignment explanation
Indices: 34391504--34391620 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
34391494 TGTAATTTTT
*
34391504 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
34391533 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
34391563 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
34391592 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
34391621 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:34391559 original size:30 final size:30
Alignment explanation
Indices: 34391519--34391620 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
34391509 ATTTAGGATT
*
34391519 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
34391549 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
34391579 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
34391609 AAAATGCAATTT
1 AAAATGAAATTT
34391621 TTATTTTTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:34391643 original size:14 final size:15
Alignment explanation
Indices: 34391619--34391651 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
34391609 AAAATGCAAT
34391619 TTTTATTTTTTAAAA
1 TTTTATTTTTTAAAA
*
34391634 TTTT-TTTTTTGAAA
1 TTTTATTTTTTAAAA
34391648 TTTT
1 TTTT
34391652 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (15 bp):
TTTTATTTTTTAAAA
Found at i:34392077 original size:53 final size:55
Alignment explanation
Indices: 34391894--34392109 Score: 304
Period size: 53 Copynumber: 4.0 Consensus size: 55
34391884 ACGTGAGCCT
* * *
34391894 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAA
*
34391949 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAG--A---AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACAGAAATTGAAA
* *
34392000 AGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTG-AAAATAGAAATT-AAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
34392053 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
34392108 AG
1 AG
34392110 TAGAAATTGA
Statistics
Matches: 146, Mismatches: 7, Indels: 16
0.86 0.04 0.09
Matches are distributed among these distances:
49 7 0.05
50 6 0.04
51 34 0.23
53 40 0.27
54 11 0.08
55 36 0.25
56 6 0.04
57 6 0.04
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.30
Consensus pattern (55 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
Found at i:34392107 original size:14 final size:14
Alignment explanation
Indices: 34392088--34392122 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
34392078 GAGTTGATTT
34392088 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
34392102 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
34392116 TTGAAAA
1 TTGAAAA
34392123 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:34392349 original size:175 final size:174
Alignment explanation
Indices: 34392056--34392461 Score: 525
Period size: 175 Copynumber: 2.3 Consensus size: 174
34392046 AATTAAAAGG
* *
34392056 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATTGAA
1 CTCAACTCACCTCTTGCAATATGAGTTGA--TTTGAAAAACAGAAATTGAAAAGCAGAAATTGAA
* *
34392121 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAACA-
64 AATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTGAAA-AG
* * *
34392185 CAGAAATT-AAAAACAGAATTTGAAAAGACCTCAGCGTGTG-GCTTGAGA
126 CAGAAATTAAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGC-CGAGA
** *
34392233 CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAGTAG-AATTAGTAAAGCAGAAATTGAAA
1 CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAACAGAAATT-GAAAAGCAGAAATTGAAA
* *
34392297 ATACCTCAGCGTGCCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATA
65 ATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCAGA
* * * *
34392362 GATTGAAAAAAACATAAATTGAAAATACCTCAGCATGTGAGCCGAGG
130 AATT--AAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGA
*
34392409 CTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATT-AAAAG
1 CTCAACTCACCTCTTGCAATATGAGTTGA--TTTGAAAAACAGAAATTGAAAAG
34392462 GCTTAACTCA
Statistics
Matches: 200, Mismatches: 20, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
172 1 0.00
173 15 0.08
174 4 0.02
175 73 0.37
176 60 0.30
177 34 0.17
178 9 0.05
179 4 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (174 bp):
CTCAACTCACCTCTTGCAATATGAGTTGATTTGAAAAACAGAAATTGAAAAGCAGAAATTGAAAA
TACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCAGAA
ATTAAAAAACAGAAATTGAAAAGACCTCAGCATGTGAGCCGAGA
Found at i:34392357 original size:87 final size:89
Alignment explanation
Indices: 34392053--34392457 Score: 481
Period size: 87 Copynumber: 4.6 Consensus size: 89
34392043 AGAAATTAAA
* * **
34392053 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-GAAAAGTAGAAAT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAGCAGAAATTAGAAAAACAGAAAT
*
34392117 TGAAAATACCTCAGC-GTGCCCTG
66 TGAAAATACCTCAGCTGTGCCTTG
34392140 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGAAACA-CAGAAATT--AAAAACAGA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGA--TTTTTGAAA-AGCAGAAATTAGAAAAACAGA
* * *
34392202 ATTTGAAAAGACCTCAGCGTGTGGCTTG
63 AATTGAAAATACCTCAGC-TGTGCCTTG
* * * *
34392230 AGACTCAACTCACCTCTTGCAATATGAGTTGA--TTTGAAAAGTAG-AATTAGTAAAGCAGAAAT
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAGCAGAAATTAGAAAAACAGAAAT
34392292 TGAAAATACCTCAGC-GTGCCTTG
66 TGAAAATACCTCAGCTGTGCCTTG
* * * * * *
34392315 AGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTGAAAAGCATAGATTGAAAAAAACATAAA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAGCAGAAATT-AGAAAAACAGAAA
34392380 TTGAAAATACCTCAGCATGTGAGCC--G
65 TTGAAAATACCTCAGC-TGT--GCCTTG
* *
34392406 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTA
1 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAGCAGAAATTA
34392458 AAAGGCTTAA
Statistics
Matches: 273, Mismatches: 29, Indels: 29
0.82 0.09 0.09
Matches are distributed among these distances:
85 41 0.15
86 9 0.03
87 64 0.23
88 26 0.10
89 42 0.15
90 39 0.14
91 49 0.18
93 3 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (89 bp):
AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAGCAGAAATTAGAAAAACAGAAAT
TGAAAATACCTCAGCTGTGCCTTG
Found at i:34392386 original size:15 final size:16
Alignment explanation
Indices: 34392353--34392386 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34392343 TTGATTTTTG
* *
34392353 AAAAGCATAGATTGAA
1 AAAAACATAAATTGAA
34392369 AAAAACATAAATTGAA
1 AAAAACATAAATTGAA
34392385 AA
1 AA
34392387 TACCTCAGCA
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:0.65, C:0.06, G:0.12, T:0.18
Consensus pattern (16 bp):
AAAAACATAAATTGAA
Found at i:34392879 original size:193 final size:193
Alignment explanation
Indices: 34392405--34393786 Score: 2494
Period size: 193 Copynumber: 7.2 Consensus size: 193
34392395 CATGTGAGCC
** *
34392405 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
34392470 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
* *
34392535 AACTCATTTCTCGCAATATGAGTTGA-TTTTTTTT---AATTTAAAAATACCTCAACATGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
*
34392595 GATGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCTTAACT
1 GA-GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
*
34392660 CACCTCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
34392725 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
*
34392789 GAGACTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
34392854 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
**
34392919 ACTCACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
34392981 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
34393046 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* *
34393111 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTT--AAATTTAAAAATACCTCAACATGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
34393172 GATGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GA-GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACT
*
34393237 CACCTCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
34393302 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
130 AACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
34393366 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
* * *
34393431 ACCTCTCGCAATATGAGTCAACTTAAAACATAAACTAAAAATACCTCGGCATGCCCCGAGGCTTA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* **
34393496 ACTCACTTCTCACAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
34393559 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
34393624 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
*
34393689 ACTCACTTCTCGCAATATGAGTTGA--TTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTT
131 ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
34393750 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTT
34393787 CCTTGGAAAG
Statistics
Matches: 1151, Mismatches: 32, Indels: 17
0.96 0.03 0.01
Matches are distributed among these distances:
190 121 0.11
191 136 0.12
192 348 0.30
193 491 0.43
194 55 0.05
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (193 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:34393276 original size:577 final size:578
Alignment explanation
Indices: 34392405--34393786 Score: 2601
Period size: 577 Copynumber: 2.4 Consensus size: 578
34392395 CATGTGAGCC
** *
34392405 GAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTGAAAAACAAAAATTAAAAGGCTTAACT
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAAAGGCTTAACT
34392470 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
65 CACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTC
34392535 AACTCATTTCTCGCAATATGAGTTGA-TTTTTTTT-AATTTAAAAATACCTCAACATGTCTTGAT
130 AACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAATTTAAAAATACCTCAACATGTCTTGAT
*
34392598 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAATAAAAATTAAAAGGCTTAACTCAC
195 GGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCAC
34392663 CTCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
260 CTCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAAC
34392728 TCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAGA
325 TCACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAGA
34392793 CTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCT
390 CTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCT
* *
34392858 CTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACTC
455 CTCGCAATATGAGTCAACTTAAAACATAAACTAAAAATACCTCGGCATGCCCCGAGGCTCAACTC
*
34392923 ACTTCTCGCAATATGAGTTGA-TTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
520 ACTTCTCACAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
34392981 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
34393046 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
34393111 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAATTTAAAAATACCTCAACATGTCTTGATG
131 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAATTTAAAAATACCTCAACATGTCTTGATG
34393176 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
34393241 TCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
261 TCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
*
34393306 CACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAGGC
326 CACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAGAC
34393371 TCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
391 TCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
*
34393436 TCGCAATATGAGTCAACTTAAAACATAAACTAAAAATACCTCGGCATGCCCCGAGGCTTAACTCA
456 TCGCAATATGAGTCAACTTAAAACATAAACTAAAAATACCTCGGCATGCCCCGAGGCTCAACTCA
34393501 CTTCTCACAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
521 CTTCTCACAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
34393559 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
34393624 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
66 ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
* *** *
34393689 ACTCACTTCTCGCAATATGAGTTGATTTTTTAAAAAATTTAAAAATACCTCAACGTGTCTTGA-G
131 ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAATTTAAAAATACCTCAACATGTCTTGATG
34393753 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
196 GCTCAACTCATTTCTCGCAATATGAGTTGATTTT
34393787 CCTTGGAAAG
Statistics
Matches: 789, Mismatches: 14, Indels: 5
0.98 0.02 0.01
Matches are distributed among these distances:
575 122 0.15
576 38 0.05
577 404 0.51
578 225 0.29
ACGTcount: A:0.35, C:0.21, G:0.13, T:0.30
Consensus pattern (578 bp):
GAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCA
ACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAAATTTAAAAATACCTCAACATGTCTTGATG
GCTCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
TCTCGCAACATGAGTCAATTTAAAACATAAACTAAAAATACCTCGGCGTGCCCCGAGGCTCAACT
CACTTCTCGCAATATGAGTTGATTTTTTTTTAAAAATTTAAAAATACCTCAACGTGTCTTGAGAC
TCAACTCATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACCTC
TCGCAATATGAGTCAACTTAAAACATAAACTAAAAATACCTCGGCATGCCCCGAGGCTCAACTCA
CTTCTCACAATATGAGTTGATTTTTTTAAAAAAATTTAAAAATACCTCAACGTGTCTT
Found at i:34401840 original size:37 final size:35
Alignment explanation
Indices: 34401799--34401879 Score: 94
Period size: 37 Copynumber: 2.3 Consensus size: 35
34401789 TTTTGTTTTT
34401799 AAACACG-AGAACTTTGAAACA-AAATAATAATTTTTGA
1 AAACACGAAG-ACTTTGAAACACAAA-AAT--TTTTTGA
* *
34401836 AAACACGAAGATTTTGAAACACGAAAATTTTTTGA
1 AAACACGAAGACTTTGAAACACAAAAATTTTTTGA
34401871 AAACACGAA
1 AAACACGAA
34401880 AACACAAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
35 16 0.40
37 20 0.50
38 4 0.10
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.25
Consensus pattern (35 bp):
AAACACGAAGACTTTGAAACACAAAAATTTTTTGA
Found at i:34401868 original size:18 final size:18
Alignment explanation
Indices: 34401827--34401881 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 18
34401817 ACAAAATAAT
34401827 AATTTTTGAAAACACGAA
1 AATTTTTGAAAACACGAA
*
34401845 GA-TTTTG-AAACACGAA
1 AATTTTTGAAAACACGAA
34401861 AATTTTTTGAAAACACGAA
1 AA-TTTTTGAAAACACGAA
34401880 AA
1 AA
34401882 CACAAAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
16 10 0.31
17 5 0.16
18 6 0.19
19 11 0.34
ACGTcount: A:0.49, C:0.11, G:0.13, T:0.27
Consensus pattern (18 bp):
AATTTTTGAAAACACGAA
Found at i:34402032 original size:36 final size:36
Alignment explanation
Indices: 34401989--34402095 Score: 112
Period size: 36 Copynumber: 2.9 Consensus size: 36
34401979 TTTTGATAAA
* * *
34401989 TTATGAAACACGAGGATTTTTTTGAAACGCGGAAAT
1 TTATGAAACACGAGGAATTTTTTGAAACACGAAAAT
34402025 TTATGAAACA--AGGTCAATTTTTTGAAAACACGAAAAT
1 TTATGAAACACGAGG--AATTTTTTG-AAACACGAAAAT
* *
34402062 TTTTGAAAGACGA-GAATTTTTTGAAAACACGAAA
1 TTATGAAACACGAGGAATTTTTTG-AAACACGAAA
34402096 GTTTTTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
34 3 0.05
36 38 0.62
37 18 0.30
38 1 0.02
39 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.30
Consensus pattern (36 bp):
TTATGAAACACGAGGAATTTTTTGAAACACGAAAAT
Found at i:34402074 original size:17 final size:18
Alignment explanation
Indices: 34402043--34402519 Score: 210
Period size: 17 Copynumber: 26.2 Consensus size: 18
34402033 CAAGGTCAAT
34402043 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
34402061 TTTTTG-AAAGACGAGAAT
1 TTTTTGAAAACACGA-AAA
*
34402079 TTTTTGAAAACACGAAAGTTTT
1 TTTTTGAAAACACGAAA----A
* *
34402101 TTTTTTAAAACAAGAAAA
1 TTTTTGAAAACACGAAAA
* * *
34402119 -TTTTCAAAATACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
34402136 TTTTTTAAAACAGGGGAAA
1 TTTTTGAAAACA-CGAAAA
*
34402155 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
34402173 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAAAA
*
34402190 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
** * *
34402207 TTTTTTTAAACATGAGAA
1 TTTTTGAAAACACGAAAA
* *
34402225 TTTTTGAAAACACGAGGAT
1 TTTTTGAAAACACGA-AAA
*
34402244 TTTTTGAAATACA--AACA
1 TTTTTGAAA-ACACGAAAA
* *
34402261 TTTTAG-AAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
34402278 TTTTT-AAAACATGACAATT
1 TTTTTGAAAACACGA-AA-A
34402297 TTTTTG-AAACACGAGAAATTTA
1 TTTTTGAAAACAC--GAAA---A
* **
34402319 TTTTTTAAAACATAAAAA
1 TTTTTGAAAACACGAAAA
* *
34402337 ATTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* * *
34402354 TTTGTG-AAACTCGAGAA
1 TTTTTGAAAACACGAAAA
* * **
34402371 TTGTTGAAAAAAAATAAAAA
1 TTTTTG--AAAACACGAAAA
* * *
34402391 ATTTTGAAAATAAG-AAA
1 TTTTTGAAAACACGAAAA
**
34402408 TTTTTTTAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * * *
34402426 TTTTAG-AAATATGGAAA
1 TTTTTGAAAACACGAAAA
34402443 TTTTTAGAAAACACGAAAA
1 TTTTT-GAAAACACGAAAA
* *
34402462 ATTTTGAAAA-A-TAAAA
1 TTTTTGAAAACACGAAAA
*
34402478 TTTTTTGAAAACACGAGAA
1 -TTTTTGAAAACACGAAAA
*
34402497 TTTTTGAAAACACAAAAAA
1 TTTTTGAAAACAC-GAAAA
34402516 TTTT
1 TTTT
34402520 CTGATTTTTC
Statistics
Matches: 340, Mismatches: 85, Indels: 67
0.69 0.17 0.14
Matches are distributed among these distances:
15 3 0.01
16 11 0.03
17 116 0.34
18 99 0.29
19 64 0.19
20 15 0.04
21 5 0.01
22 22 0.06
23 5 0.01
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:34402101 original size:36 final size:35
Alignment explanation
Indices: 34402043--34402505 Score: 188
Period size: 36 Copynumber: 12.8 Consensus size: 35
34402033 CAAGGTCAAT
*
34402043 TTTTTGAAAACACGAAAATTTTTGAAAGACGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAGAA
* * *
34402078 TTTTTTGAAAACACGAAAGTTTTTTTTTTAAA-ACAAGAAA
1 -TTTTTGAAAACACGAAA----ATTTTTGAAACACGAG-AA
* * * * * * *
34402118 ATTTTCAAAATACGAGAATTTTTTAAAACAGGGGAAA
1 TTTTTGAAAACACGA-AAATTTTTGAAACACGAG-AA
* *
34402155 TTTTTGAAAACATGAAAATTTTTGAAACACTAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAGAA
* * *
34402190 -TTTTGAAAACACGAAGATTTTTTTAAACATGAGAA
1 TTTTTGAAAACACGAA-AATTTTTGAAACACGAGAA
* * * *
34402225 TTTTTGAAAACACGAGGATTTTTTGAAATAC-AAACA
1 TTTTTGAAAACACGA-AAATTTTTGAAACACGAGA-A
* * * * *
34402261 TTTTAG-AAACATGAAAATTTTTAAAACATGACAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAGAA
* ** *
34402295 TTTTTTTG-AAACACGAGAAATTTATTTTTTAAAACATAAAAA
1 --TTTTTGAAAACAC--GAAA---A-TTTTTGAAACACGAGAA
* * * *
34402337 ATTTT-AAAACACGAGAATTTGTGAAACTCGAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAGAA
* * ** * **
34402371 TTGTTGAAAAAAAATAAAAAATTTTGAAA-ATAAGAAA
1 TTTTTG--AAAACACGAAAATTTTTGAAACACGAG-AA
** * * *
34402408 TTTTTTTAAACACGAAAATTTTAGAAATATG-GAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAG-AA
* ** *
34402443 TTTTTAGAAAACACGAAAAATTTTGAAA-AATAAAA
1 TTTTT-GAAAACACGAAAATTTTTGAAACACGAGAA
*
34402478 TTTTTTGAAAACACGAGAATTTTTGAAA
1 -TTTTTGAAAACACGAAAATTTTTGAAA
34402506 ACACAAAAAA
Statistics
Matches: 320, Mismatches: 78, Indels: 59
0.70 0.17 0.13
Matches are distributed among these distances:
34 39 0.12
35 76 0.24
36 107 0.33
37 37 0.12
38 7 0.02
39 16 0.05
40 22 0.07
41 1 0.00
42 15 0.05
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAGAA
Found at i:34402110 original size:22 final size:22
Alignment explanation
Indices: 34402078--34402122 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
34402068 AAGACGAGAA
* *
34402078 TTTTTTGAAAACACGAAAGTTT
1 TTTTTTGAAAACAAGAAAATTT
*
34402100 TTTTTTTAAAACAAGAAAATTT
1 TTTTTTGAAAACAAGAAAATTT
34402122 T
1 T
34402123 CAAAATACGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.09, T:0.44
Consensus pattern (22 bp):
TTTTTTGAAAACAAGAAAATTT
Found at i:34402402 original size:16 final size:16
Alignment explanation
Indices: 34402381--34402411 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34402371 TTGTTGAAAA
34402381 AAAATAAAAAATTTTG
1 AAAATAAAAAATTTTG
*
34402397 AAAATAAGAAATTTT
1 AAAATAAAAAATTTT
34402412 TTTAAACACG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.32
Consensus pattern (16 bp):
AAAATAAAAAATTTTG
Found at i:34402479 original size:35 final size:35
Alignment explanation
Indices: 34402387--34402506 Score: 127
Period size: 35 Copynumber: 3.4 Consensus size: 35
34402377 AAAAAAAATA
**
34402387 AAAAATTTTG-AAAATAAGAAATTTTTTTAAACACG
1 AAAAATTTTGAAAAATAA-AAATTTTTGAAAACACG
* **
34402422 -AAAATTTTAGAAATATGGAAATTTTTAGAAAACACG
1 AAAAATTTT-GAAAAATAAAAATTTTT-GAAAACACG
*
34402458 AAAAATTTTGAAAAATAAAATTTTTTGAAAACACG
1 AAAAATTTTGAAAAATAAAAATTTTTGAAAACACG
* *
34402493 AGAATTTTTGAAAA
1 AAAAATTTTGAAAA
34402507 CACAAAAAAT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
34 8 0.11
35 30 0.43
36 24 0.34
37 8 0.11
ACGTcount: A:0.52, C:0.05, G:0.11, T:0.33
Consensus pattern (35 bp):
AAAAATTTTGAAAAATAAAAATTTTTGAAAACACG
Found at i:34402650 original size:21 final size:20
Alignment explanation
Indices: 34402624--34402665 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
34402614 CGTTACCTTA
34402624 TTTTTGAAAACACGAGAAATT
1 TTTTTGAAAACACGA-AAATT
*
34402645 TTTTTGAAGACACGAAAATT
1 TTTTTGAAAACACGAAAATT
34402665 T
1 T
34402666 CGAAACGCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTTTTGAAAACACGAAAATT
Found at i:34402705 original size:19 final size:21
Alignment explanation
Indices: 34402681--34402724 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 21
34402671 CGCGAGGATC
34402681 TTTTTTCTGAA-AATA-CGAT
1 TTTTTTCTGAATAATATCGAT
* *
34402700 TTTTTTTTGAATATTATCGAT
1 TTTTTTCTGAATAATATCGAT
34402721 TTTT
1 TTTT
34402725 AAAAGGGCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 3 0.14
21 8 0.38
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.59
Consensus pattern (21 bp):
TTTTTTCTGAATAATATCGAT
Found at i:34403051 original size:7 final size:7
Alignment explanation
Indices: 34403039--34403082 Score: 61
Period size: 7 Copynumber: 5.9 Consensus size: 7
34403029 TTTTTTCTTG
34403039 TTTTTTC
1 TTTTTTC
34403046 TTTTTTC
1 TTTTTTC
34403053 TTTTTCTC
1 TTTTT-TC
34403061 TTTTTTTC
1 -TTTTTTC
34403069 TTTTTTC
1 TTTTTTC
34403076 TCTTTTT
1 T-TTTTT
34403083 TTTCTGCTGG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 20 0.59
8 9 0.26
9 5 0.15
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:34403059 original size:23 final size:23
Alignment explanation
Indices: 34403030--34403081 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 23
34403020 TTGAACCCCT
34403030 TTTTTCT-TGTTTTTTCTTTTTTC
1 TTTTTCTCT-TTTTTTCTTTTTTC
34403053 TTTTTCTCTTTTTTTCTTTTTTC
1 TTTTTCTCTTTTTTTCTTTTTTC
34403076 TCTTTT
1 T-TTTT
34403082 TTTTCTGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 22 0.81
24 5 0.19
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (23 bp):
TTTTTCTCTTTTTTTCTTTTTTC
Found at i:34403084 original size:17 final size:17
Alignment explanation
Indices: 34403029--34403084 Score: 80
Period size: 17 Copynumber: 3.4 Consensus size: 17
34403019 ATTGAACCCC
*
34403029 TTTTTTCTTGTTTTTTC-
1 TTTTTTCTT-TTTTCTCT
34403046 TTTTTTC-TTTTTCTCT
1 TTTTTTCTTTTTTCTCT
34403062 TTTTTTCTTTTTTCTCT
1 TTTTTTCTTTTTTCTCT
34403079 TTTTTT
1 TTTTTT
34403085 TCTGCTGGGC
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
15 6 0.17
16 8 0.22
17 22 0.61
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (17 bp):
TTTTTTCTTTTTTCTCT
Found at i:34403184 original size:17 final size:17
Alignment explanation
Indices: 34403164--34403205 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
34403154 CTGGGCCTGG
34403164 GGGCCTGCTGCTGCGCT
1 GGGCCTGCTGCTGCGCT
34403181 GGGCCTGCTGCTGCGCT
1 GGGCCTGCTGCTGCGCT
34403198 GGGCCTGC
1 GGGCCTGC
34403206 ATTTGGGCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.00, C:0.36, G:0.43, T:0.21
Consensus pattern (17 bp):
GGGCCTGCTGCTGCGCT
Found at i:34403236 original size:13 final size:13
Alignment explanation
Indices: 34403220--34403279 Score: 61
Period size: 13 Copynumber: 4.7 Consensus size: 13
34403210 GGGCTGCTTA
*
34403220 TTTCTTCTTCTTT
1 TTTCTGCTTCTTT
34403233 TTTCTGCTTCTTT
1 TTTCTGCTTCTTT
* * *
34403246 CTTCTTCTTTTTT
1 TTTCTGCTTCTTT
34403259 TTTGCTGCTT-TTT
1 TTT-CTGCTTCTTT
34403272 TTT-TGCTT
1 TTTCTGCTT
34403280 TGGTTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
11 5 0.12
13 30 0.75
14 5 0.12
ACGTcount: A:0.00, C:0.20, G:0.07, T:0.73
Consensus pattern (13 bp):
TTTCTGCTTCTTT
Found at i:34403241 original size:23 final size:23
Alignment explanation
Indices: 34403213--34403258 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
34403203 TGCATTTGGG
34403213 CTGCTTATTTCTTCTTCTTTTTT
1 CTGCTTATTTCTTCTTCTTTTTT
*
34403236 CTGCTTCTTTCTTCTTCTTTTTT
1 CTGCTTATTTCTTCTTCTTTTTT
34403259 TTTGCTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.02, C:0.24, G:0.04, T:0.70
Consensus pattern (23 bp):
CTGCTTATTTCTTCTTCTTTTTT
Found at i:34403421 original size:18 final size:17
Alignment explanation
Indices: 34403366--34403421 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 17
34403356 CGATATATTA
*
34403366 TTTTTTATTTTTTCTTTC
1 TTTTTT-TTCTTTCTTTC
*
34403384 TTTTTTTCCCCTTT-TTTC
1 TTTTTTT--TCTTTCTTTC
34403402 TTTTTTTTCTTTCTTCTC
1 TTTTTTTTCTTTCTT-TC
34403420 TT
1 TT
34403422 CTTCTTCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 4 0.13
17 3 0.10
18 21 0.68
19 3 0.10
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTTCTTTCTTTC
Found at i:34403846 original size:30 final size:30
Alignment explanation
Indices: 34403806--34403907 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
34403796 ATTTAGTATT
*
34403806 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
34403836 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
34403866 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
34403896 AAAATGCAATTT
1 AAAATGAAATTT
34403908 TTATTTTTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:34404660 original size:40 final size:40
Alignment explanation
Indices: 34404603--34404825 Score: 247
Period size: 40 Copynumber: 5.6 Consensus size: 40
34404593 CCAGCATGAT
* * *
34404603 TGCTCTTTGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
34404643 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
34404683 TGCTCTTCGGGACTTAGCCCGGATACATCGCTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * * *
34404723 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCACGAA
* *
34404764 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCAC-AA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACGAA
*
34404804 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
34404826 CATCATTCGA
Statistics
Matches: 158, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 136 0.86
41 19 0.12
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:34404811 original size:120 final size:120
Alignment explanation
Indices: 34404595--34404825 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
34404585 ACACGTCACC
* * * * *
34404595 AGCATGATTGCTCTTTGGGATTTAGCACGGATATATCACTAGCACGAATGCTCTTCGGGACTTAG
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGGACTTAG
* *
34404660 CCCGGATACATCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATACATCGCT
66 CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
* * *
34404715 AGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACCAATGC-CTTC-GGATCTT
1 AGCATGAATGCTCTTCGGGACTTAGCACGGATATA-TAACTAGCACCAATGCTCTTCGGGA-CTT
* **
34404778 AGTCCGGATATGGTCACTTAGCA-CAAAGC-CTTCGGGACTTAGCCCGGA
64 AGCCCGGATA-CATCAC-TAGCATCAAAGCTCTTCGGGACTTAGCCCGGA
34404826 CATCATTCGA
Statistics
Matches: 94, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
119 3 0.03
120 65 0.69
121 21 0.22
122 5 0.05
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (120 bp):
AGCATGAATGCTCTTCGGGACTTAGCACGGATATATAACTAGCACCAATGCTCTTCGGGACTTAG
CCCGGATACATCACTAGCATCAAAGCTCTTCGGGACTTAGCCCGGATACATCGCT
Found at i:34405172 original size:29 final size:29
Alignment explanation
Indices: 34405133--34405211 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
34405123 CTTAATAATC
*
34405133 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
34405163 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
34405192 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
34405212 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:34405256 original size:43 final size:43
Alignment explanation
Indices: 34405193--34405293 Score: 184
Period size: 43 Copynumber: 2.3 Consensus size: 43
34405183 TGCATTTCAA
*
34405193 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTCCCAATCTCACAACCGTGAACACTTATT
34405236 GCCCGCACACTTAGTCCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTCCCAATCTCACAACCGTGAACACTTATT
*
34405279 GCCCGCTCACTTAGT
1 GCCCGCACACTTAGT
34405294 GCTGAAAACC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.26, C:0.37, G:0.14, T:0.24
Consensus pattern (43 bp):
GCCCGCACACTTAGTCCCAATCTCACAACCGTGAACACTTATT
Found at i:34407202 original size:37 final size:37
Alignment explanation
Indices: 34407152--34407230 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
34407142 TTATTACGAA
* *
34407152 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
34407189 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
34407226 GTCTT
1 GTCTT
34407231 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:34407427 original size:47 final size:47
Alignment explanation
Indices: 34407349--34407830 Score: 735
Period size: 47 Copynumber: 10.4 Consensus size: 47
34407339 CCCTTCGGGA
* * * * * * *
34407349 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34407396 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34407443 CTCATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34407490 CTTATTACATATATACACTTTCACATTCATCACATTGG-C--T----
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34407530 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34407577 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
34407624 CTTACCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
34407671 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34407718 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
34407765 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
34407812 CTTATCACACATATACACT
1 CTTATCACATATATACACT
34407831 GTCTTGGCTG
Statistics
Matches: 398, Mismatches: 30, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
40 35 0.09
41 1 0.00
43 1 0.00
44 1 0.00
46 1 0.00
47 359 0.90
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:34414345 original size:55 final size:55
Alignment explanation
Indices: 34414209--34414352 Score: 166
Period size: 55 Copynumber: 2.6 Consensus size: 55
34414199 TGCGACATGG
* * * * *
34414209 CCGTGGGCGAACCTGTTAAAAC-AACACAGGCGTTCGACATGCCCGTGTCTAGAAC
1 CCGTGGTCGAACCTGTT-AAACTAACACGGGCGTGCAACAGGCCCGTGTCTAGAAC
* * * * *
34414264 CCGTGGTTGAATCTATCAAA-TCAACACGGGCGTGCAACAGGCCCGTGTCTAGCAC
1 CCGTGGTCGAACCTGTTAAACT-AACACGGGCGTGCAACAGGCCCGTGTCTAGAAC
34414319 CCGTGGTCGAACCTGTTAAACTAACACGGGCGTG
1 CCGTGGTCGAACCTGTTAAACTAACACGGGCGTG
34414353 GGCATACATA
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
54 3 0.04
55 68 0.94
56 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (55 bp):
CCGTGGTCGAACCTGTTAAACTAACACGGGCGTGCAACAGGCCCGTGTCTAGAAC
Found at i:34417464 original size:20 final size:21
Alignment explanation
Indices: 34417431--34417470 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
34417421 ATAGTTGCTC
34417431 AGTTATGTCTTGTT-TTTAAT
1 AGTTATGTCTTGTTATTTAAT
34417451 AGTTA-GTCTATGTTATTTAA
1 AGTTATGTCT-TGTTATTTAA
34417471 CTTGTTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 9 0.50
21 5 0.28
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (21 bp):
AGTTATGTCTTGTTATTTAAT
Found at i:34420369 original size:41 final size:41
Alignment explanation
Indices: 34420323--34420466 Score: 182
Period size: 41 Copynumber: 3.5 Consensus size: 41
34420313 TAGAGTGTTA
*
34420323 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGTGAG
1 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
* * **
34420364 TATGATATGGATATTTACTTAAGCTTCACCTTCAAGGCGAG
1 CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
* * * *
34420405 CATGATAT-AGGTATTTACTTAAGCTTTGTCTTCAAGGCAAA
1 CATGATATGA-ATATTTACTTAAGCTTTGCCTTCAAGGCGAG
*
34420446 CATGATATGGATATTTACTTA
1 CATGATATGAATATTTACTTA
34420467 GATTTCAAGG
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.37
Consensus pattern (41 bp):
CATGATATGAATATTTACTTAAGCTTTGCCTTCAAGGCGAG
Found at i:34420904 original size:21 final size:21
Alignment explanation
Indices: 34420856--34420906 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
34420846 TCCAAAATCT
34420856 TATAAATATATATTCAAAAAA
1 TATAAATATATATTCAAAAAA
* * *
34420877 TAAAAATTTATATT-AAATATA
1 TATAAATATATATTCAAA-AAA
34420898 TATAAATAT
1 TATAAATAT
34420907 TAAATATATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 3 0.12
21 21 0.88
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TATAAATATATATTCAAAAAA
Found at i:34421825 original size:74 final size:73
Alignment explanation
Indices: 34421737--34421875 Score: 224
Period size: 74 Copynumber: 1.9 Consensus size: 73
34421727 TTCATTAAAA
* *
34421737 TTGGTAAATTTTTAGTTTGATTTGATAAACTAATATAAATTAGTATCCAAATATTAATTTGGTAA
1 TTGGTAAATTTTTAGTTTAATTTGATAAACTAATATAAAGTAGTATCCAAATATTAATTTGGTAA
34421802 AAATATAT
66 AAATATAT
* * *
34421810 TTGGTAATATTTTTAGTTTAATTTGGTAAACTAATATAAAGTAGTATCTATATATTAATTTGGTA
1 TTGGTAA-ATTTTTAGTTTAATTTGATAAACTAATATAAAGTAGTATCCAAATATTAATTTGGTA
34421875 A
65 A
34421876 GAAAATAATG
Statistics
Matches: 60, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
73 7 0.12
74 53 0.88
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (73 bp):
TTGGTAAATTTTTAGTTTAATTTGATAAACTAATATAAAGTAGTATCCAAATATTAATTTGGTAA
AAATATAT
Found at i:34421868 original size:37 final size:37
Alignment explanation
Indices: 34421756--34421875 Score: 111
Period size: 37 Copynumber: 3.2 Consensus size: 37
34421746 TTTTAGTTTG
* * * *
34421756 ATTTGATAAACTAATATAAATTAGTATCCAAATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
** * * *
34421793 ATTTGGTAAA--AATATATTTGGTAATATTTTTAGT-TTA
1 ATTTGGTAAACTAATATA--AAGTAGTATCTATA-TATTA
34421830 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
1 ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
34421867 ATTTGGTAA
1 ATTTGGTAA
34421876 GAAAATAATG
Statistics
Matches: 63, Mismatches: 14, Indels: 12
0.71 0.16 0.13
Matches are distributed among these distances:
35 6 0.10
36 1 0.02
37 49 0.78
38 1 0.02
39 6 0.10
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.43
Consensus pattern (37 bp):
ATTTGGTAAACTAATATAAAGTAGTATCTATATATTA
Found at i:34425474 original size:7 final size:7
Alignment explanation
Indices: 34425462--34425491 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
34425452 TTCATAATCA
34425462 ATTTTTT
1 ATTTTTT
34425469 ATTTTTT
1 ATTTTTT
*
34425476 ATGTTTT
1 ATTTTTT
34425483 ATTTTTT
1 ATTTTTT
34425490 AT
1 AT
34425492 AATAGTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (7 bp):
ATTTTTT
Found at i:34426797 original size:42 final size:42
Alignment explanation
Indices: 34426738--34426823 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
34426728 AAAGACATCC
34426738 ATTTAATAACATAGCACGTAATCATATAATGGATATCAATAT
1 ATTTAATAACATAGCACGTAATCATATAATGGATATCAATAT
34426780 ATTTAATAACATAGCACGTAATCATATAATGGATATCAATAT
1 ATTTAATAACATAGCACGTAATCATATAATGGATATCAATAT
34426822 AT
1 AT
34426824 GTGATGTGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (42 bp):
ATTTAATAACATAGCACGTAATCATATAATGGATATCAATAT
Found at i:34431105 original size:34 final size:34
Alignment explanation
Indices: 34431062--34431131 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
34431052 GTATGGCTGC
*
34431062 TACTGATACTGTGATGGGCTAAGGCCCTAATGCA
1 TACTGATACTGTGAAGGGCTAAGGCCCTAATGCA
*
34431096 TACTGATACTGTGAAGGGCTAAGGCCCTACTGCA
1 TACTGATACTGTGAAGGGCTAAGGCCCTAATGCA
34431130 TA
1 TA
34431132 TTTCATACTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (34 bp):
TACTGATACTGTGAAGGGCTAAGGCCCTAATGCA
Found at i:34437398 original size:20 final size:20
Alignment explanation
Indices: 34437370--34437428 Score: 50
Period size: 20 Copynumber: 3.0 Consensus size: 20
34437360 CATAGGGTTG
*
34437370 TTAACTTAATTAATTTAAGA
1 TTAATTTAATTAATTTAAGA
* * *
34437390 TTTATTTAACTAAATTT-AGG
1 TTAATTTAA-TTAATTTAAGA
*
34437410 TTAATTAAATTAA-TTAAGA
1 TTAATTTAATTAATTTAAGA
34437429 AAATAATTTC
Statistics
Matches: 29, Mismatches: 8, Indels: 5
0.69 0.19 0.12
Matches are distributed among these distances:
18 2 0.07
19 5 0.17
20 16 0.55
21 6 0.21
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (20 bp):
TTAATTTAATTAATTTAAGA
Found at i:34438575 original size:15 final size:14
Alignment explanation
Indices: 34438549--34438579 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 14
34438539 TCCTCTACTT
34438549 TTTTTCTTTCTTTC
1 TTTTTCTTTCTTTC
34438563 TTTTTCTTCTCTTTC
1 TTTTTCTT-TCTTTC
34438578 TT
1 TT
34438580 GATCTTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.50
15 8 0.50
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTCTTTCTTTC
Found at i:34440506 original size:18 final size:17
Alignment explanation
Indices: 34440483--34440518 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
34440473 GTTGTGTTAT
34440483 ATGATAAATTAATGATTG
1 ATGATAAATTAA-GATTG
34440501 ATGATAAATTAAGATTG
1 ATGATAAATTAAGATTG
34440518 A
1 A
34440519 AAGAATGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.17, T:0.36
Consensus pattern (17 bp):
ATGATAAATTAAGATTG
Found at i:34444666 original size:131 final size:132
Alignment explanation
Indices: 34444497--34444757 Score: 416
Period size: 131 Copynumber: 2.0 Consensus size: 132
34444487 AATTTAGAGA
* * * * **
34444497 ACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTGAACAAACGGGAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCAC
* *
34444562 GATAGGGCATGATTCCCCAAATTGCCAAACTTCGAACATTACCTTTGTTTTAAA-AGATTTTGAA
66 GATAGGGCATGATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGATTTTGAA
34444626 AC
131 AC
34444628 ACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCAC
1 ACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCAC
* * *
34444693 GATAGGGCATGATTCTCCAAATTGCCAAACATCGAACATTGCCTTCGTTTTAAAGAGTTTTTGAA
66 GATAGGGCATGATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGATTTTGAA
34444758 TGAATAATTA
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
131 109 0.92
132 9 0.08
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (132 bp):
ACATGAGTGAAATTCCAAAAGAAAATTCGATTATTTTGAACAAACGAAAAATTGCAACCCAGCAC
GATAGGGCATGATTCCCCAAATTGCCAAACATCGAACATTACCTTCGTTTTAAAGAGATTTTGAA
AC
Found at i:34447867 original size:88 final size:88
Alignment explanation
Indices: 34447530--34447912 Score: 351
Period size: 88 Copynumber: 4.3 Consensus size: 88
34447520 TTTAGTTTGC
* * * * ** *
34447530 TCCACTGCAACTTTAGGGAGATAAGA-CTCACAATTTTTAGCCTGTTACCCTACTGTTTAGAGGG
1 TCCACTGCAACTTTAGGGAGACAAGATCT-ATAATCTTCAGCCTGTTACCCTACTACTAAG-GGG
** ** * * *
34447594 TTAAGGCTCACCGTCTTCGATTTGC
64 TTAAGGCTTGCTATCTTTGATCTGT
* ** * * * *
34447619 TCCACTACTGC-TTAAGGAGACAATATCTATAATTTTTAGCCTGTTACCCTACTACTTAAGGGGT
1 TCCACTGCAACTTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTAC-TAAGGGGT
** * * *
34447683 TAAGGCTCACTATCTTCGATTTGC
65 TAAGGCTTGCTATCTTTGATCTGT
* ** ** *
34447707 TCCACTGTC-ATTTTAGGGAGACAAGATCTGCAATCTTCAGTTTGTTACCCTACTACTTAGGGGG
1 TCCACTG-CAACTTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTAC-TAAGGGG
34447771 TTAAGGCTTGCT-TCTTTGATCTGT
64 TTAAGGCTTGCTATCTTTGATCTGT
*
34447795 TCCACTGCAACTTTAGGGAGACAAGATCTATAATCTTCGGCCTGTTACCCTACTACTAAGGAGGT
1 TCCACTGCAACTTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTACTAAGG-GGT
* *
34447860 TAAGGCTTGCTGTCCTTGATCTGT
65 TAAGGCTTGCTATCTTTGATCTGT
* *
34447884 TCCACTGCAACTTCAGGAAGACAAGATCT
1 TCCACTGCAACTTTAGGGAGACAAGATCT
34447913 GTGAATTCAC
Statistics
Matches: 248, Mismatches: 39, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
87 5 0.02
88 138 0.56
89 105 0.42
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (88 bp):
TCCACTGCAACTTTAGGGAGACAAGATCTATAATCTTCAGCCTGTTACCCTACTACTAAGGGGTT
AAGGCTTGCTATCTTTGATCTGT
Found at i:34459706 original size:131 final size:129
Alignment explanation
Indices: 34459367--34459701 Score: 453
Period size: 131 Copynumber: 2.6 Consensus size: 129
34459357 GTCCAACGAA
* * * * *
34459367 AAAATTGAAACCCAGCAC-AGTAGGGCACGATTCCTCGAATTTCTAGACATTGAACATTGCCTT-
1 AAAATTGCAACCCAGCACGA-TAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTC
* * * * * * *
34459430 ATTTT-AGAATTTAGAGAACATGAGTGAAATTCTAAAGGGATATTCGATTATTTTAAACAAACGG
65 GTTTTAAAAATTTTGAAAACATGAGTGAAATTCTAAAGGAATATTCAATTATTTTAAACAAACAG
* * *
34459494 GAAATTGCAACCCAGCACGATAGGGCACGATTCCCCAAATTTCCAAACATCGAACATTACCTTCG
1 AAAATTGCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCG
*
34459559 TTTTAAAAGATTTTGAAAGACATGAGTGAAATTCTAAAGGAATATTCAATTATTTTGAACAAACA
66 TTTTAAAA-ATTTTGAAA-ACATGAGTGAAATTCTAAAGGAATATTCAATTATTTTAAACAAACA
34459624 G
129 G
* *
34459625 AAAATTGCAACCCAGCACGATAGGGCA-AATTCCCCGAATTGCCAAACATCGAACATTGCCTTCG
1 AAAATTGCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCG
34459689 TTTTAAAAATTTT
66 TTTTAAAAATTTT
34459702 TTGAANNNNN
Statistics
Matches: 182, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
127 53 0.29
128 5 0.03
129 7 0.04
130 48 0.26
131 69 0.38
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.27
Consensus pattern (129 bp):
AAAATTGCAACCCAGCACGATAGGGCACGATTCCCCGAATTTCCAAACATCGAACATTGCCTTCG
TTTTAAAAATTTTGAAAACATGAGTGAAATTCTAAAGGAATATTCAATTATTTTAAACAAACAG
Found at i:34475913 original size:17 final size:17
Alignment explanation
Indices: 34475891--34475924 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34475881 TAAATGTCAC
34475891 TTGAATTAAATTAATTT
1 TTGAATTAAATTAATTT
*
34475908 TTGAATTAATTTAATTT
1 TTGAATTAAATTAATTT
34475925 GACAGTTAAA
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:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
TTGAATTAAATTAATTT
Found at i:34476060 original size:13 final size:13
Alignment explanation
Indices: 34476042--34476067 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34476032 AAATTTATCG
34476042 AAATTATTATAAT
1 AAATTATTATAAT
34476055 AAATTATTATAAT
1 AAATTATTATAAT
34476068 TATGATTTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAATTATTATAAT
Found at i:34477903 original size:22 final size:22
Alignment explanation
Indices: 34477878--34477924 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
34477868 TCATGTCGTG
* *
34477878 ACGAGAAACTCCTTACGTCGCA
1 ACGAGAAACTCCCTACATCGCA
34477900 ACGAGAAACTCCCTACATCGCA
1 ACGAGAAACTCCCTACATCGCA
34477922 ACG
1 ACG
34477925 TCAACTTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.34, G:0.17, T:0.15
Consensus pattern (22 bp):
ACGAGAAACTCCCTACATCGCA
Found at i:34479037 original size:61 final size:60
Alignment explanation
Indices: 34478959--34479106 Score: 192
Period size: 61 Copynumber: 2.5 Consensus size: 60
34478949 TAGTAGTCAC
* * *
34478959 CTATGTTTTTTTTTCTTTTTTGGTCAC-CTAATTATGAAAAGTTACAAAATGGTCATCCAA
1 CTATGTTTTTTTTTCTTTTTTGGTCACTC-AACTATAAAAAGTTACAAAATGGTCAACCAA
*
34479019 CTATGTTTTCTTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAATATGGTCAACCAA
1 CTATGTTTT-TTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAAAATGGTCAACCAA
* * *
34479080 CTAT-TTAATTTTGTCTTTCTTGGTCAC
1 CTATGTT-TTTTTTTCTTTTTTGGTCAC
34479107 CGGCTGACTA
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
60 27 0.35
61 50 0.64
62 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.11, T:0.46
Consensus pattern (60 bp):
CTATGTTTTTTTTTCTTTTTTGGTCACTCAACTATAAAAAGTTACAAAATGGTCAACCAA
Found at i:34479758 original size:8 final size:9
Alignment explanation
Indices: 34479727--34479758 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
34479717 TTTTAAAATA
34479727 ATTTTTATT
1 ATTTTTATT
34479736 ATTTTTATT
1 ATTTTTATT
34479745 ATTTTT-TT
1 ATTTTTATT
34479753 ATTTTT
1 ATTTTT
34479759 GTTGATATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 8 0.35
9 15 0.65
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
ATTTTTATT
Found at i:34486881 original size:4 final size:4
Alignment explanation
Indices: 34486872--34486911 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
34486862 TTGATTGTAG
*
34486872 ATGT ATGT ATGT ATTT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
34486912 TCTGCACACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.25, C:0.00, G:0.23, T:0.53
Consensus pattern (4 bp):
ATGT
Found at i:34491433 original size:20 final size:19
Alignment explanation
Indices: 34491344--34491434 Score: 51
Period size: 20 Copynumber: 4.7 Consensus size: 19
34491334 AAATTATTAA
* *
34491344 ATTAAATCTTTTACACAATT
1 ATTAAATCTCTTACA-AAAT
* *
34491364 ATTGAATCTCTTA-TAAAT
1 ATTAAATCTCTTACAAAAT
* * *
34491382 TTTAAATTTCTTTCAAAAGT
1 ATTAAATCTCTTACAAAA-T
* *
34491402 -TCTTAATTTCTTACAAAACT
1 AT-TAAATCTCTTACAAAA-T
34491422 ATTAAATCTCTTA
1 ATTAAATCTCTTA
34491435 AACAATTACA
Statistics
Matches: 53, Mismatches: 14, Indels: 8
0.71 0.19 0.11
Matches are distributed among these distances:
18 12 0.23
19 4 0.08
20 36 0.68
21 1 0.02
ACGTcount: A:0.37, C:0.14, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTAAATCTCTTACAAAAT
Found at i:34491668 original size:20 final size:20
Alignment explanation
Indices: 34491640--34491703 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
34491630 AACTTTTTAA
*
34491640 ATTACTAAATATCTTACAAG
1 ATTATTAAATATCTTACAAG
*
34491660 ATTATTAAATATCTTAAAATG
1 ATTATTAAATATCTTACAA-G
* *
34491681 ATTATTGAATCTCTTACAA-
1 ATTATTAAATATCTTACAAG
34491700 ATTA
1 ATTA
34491704 CTATTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
19 4 0.11
20 17 0.45
21 17 0.45
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.41
Consensus pattern (20 bp):
ATTATTAAATATCTTACAAG
Found at i:34493784 original size:29 final size:30
Alignment explanation
Indices: 34493752--34493813 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 30
34493742 GATATTGTTA
*
34493752 TTTTGTCAGTTTCTATT-GAGAGAATTACT
1 TTTTGTCAATTTCTATTAGAGAGAATTACT
34493781 TTTTGTCAATTTCTATTGAGAGAGAATTACT
1 TTTTGTCAATTTCTATT-AGAGAGAATTACT
34493812 TT
1 TT
34493814 CCTATTGAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 16 0.53
31 14 0.47
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (30 bp):
TTTTGTCAATTTCTATTAGAGAGAATTACT
Found at i:34498443 original size:22 final size:22
Alignment explanation
Indices: 34498415--34498460 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
34498405 CCAGCAACTA
34498415 AAGTGCATAAATTAAAAGATGG
1 AAGTGCATAAATTAAAAGATGG
34498437 AAGTGCATAAATTAAAAGATGG
1 AAGTGCATAAATTAAAAGATGG
34498459 AA
1 AA
34498461 CGAGCTCAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.52, C:0.04, G:0.22, T:0.22
Consensus pattern (22 bp):
AAGTGCATAAATTAAAAGATGG
Found at i:34498472 original size:26 final size:22
Alignment explanation
Indices: 34498419--34498465 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
34498409 CAACTAAAGT
*
34498419 GCATAAATTAAAAGATGGAAGT
1 GCATAAATTAAAAGATGGAAGA
34498441 GCATAAATTAAAAGATGGAACGA
1 GCATAAATTAAAAGATGGAA-GA
34498464 GC
1 GC
34498466 TCAATAAGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 20 0.87
23 3 0.13
ACGTcount: A:0.49, C:0.09, G:0.23, T:0.19
Consensus pattern (22 bp):
GCATAAATTAAAAGATGGAAGA
Found at i:34498914 original size:13 final size:13
Alignment explanation
Indices: 34498896--34498920 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34498886 GAATTAGTAT
34498896 GTGTGAAAATTTC
1 GTGTGAAAATTTC
34498909 GTGTGAAAATTT
1 GTGTGAAAATTT
34498921 TATCGTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:34500089 original size:43 final size:41
Alignment explanation
Indices: 34499999--34500163 Score: 124
Period size: 43 Copynumber: 3.9 Consensus size: 41
34499989 ATCCGATATG
* *
34499999 TGATTTCGTGTAAGACCACATCTGGGACGTTGGCATCG-ACTT
1 TGATTTAGTGTAAGACCACATCTGGGAAG-TGGCATCGTA-TT
** *
34500041 ATGATTTATGTGTAAGACCATGTCTGGGAAATCGGCATCGTATT
1 -TGATTTA-GTGTAAGACCACATCTGGGAAGT-GGCATCGTATT
34500085 TGATTTCA-TGTAAGACC-CTATCTGGGATAGTGGCATCGATATT
1 TGATTT-AGTGTAAGACCAC-ATCTGGGA-AGTGGCATCG-TATT
* *
34500128 TGA-TTACATGTAAGACCACGA-CTGGGACGTTGGCAT
1 TGATTTA-GTGTAAGACCAC-ATCTGGGAAG-TGGCAT
34500164 TGTACGACCT
Statistics
Matches: 101, Mismatches: 10, Indels: 22
0.76 0.08 0.17
Matches are distributed among these distances:
41 1 0.01
42 26 0.26
43 43 0.43
44 30 0.30
45 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (41 bp):
TGATTTAGTGTAAGACCACATCTGGGAAGTGGCATCGTATT
Found at i:34500716 original size:23 final size:24
Alignment explanation
Indices: 34500690--34500735 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
34500680 TGCCATGTGA
*
34500690 TATGGCTTGGTTTTGGT-TATGAT
1 TATGGCTTGATTTTGGTATATGAT
*
34500713 TATGGTTTGATTTTGGTATATGA
1 TATGGCTTGATTTTGGTATATGA
34500736 AATGTGATGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.17, C:0.02, G:0.28, T:0.52
Consensus pattern (24 bp):
TATGGCTTGATTTTGGTATATGAT
Found at i:34502645 original size:37 final size:37
Alignment explanation
Indices: 34502604--34502677 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
34502594 TGTGCATATA
* *
34502604 AATCTAGTCTATTCAGGAAAAACATACCATATTTAAC
1 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
34502641 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
1 AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
34502678 CATTTCCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.28
Consensus pattern (37 bp):
AATCTAGTCCATTAAGGAAAAACATACCATATTTAAC
Found at i:34503241 original size:23 final size:23
Alignment explanation
Indices: 34503215--34503263 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
34503205 GAATGCTTAG
34503215 TAAGCTTGTATAAACTTTAAACA
1 TAAGCTTGTATAAACTTTAAACA
34503238 TAAGCTTGTATAAACTTTAAACA
1 TAAGCTTGTATAAACTTTAAACA
34503261 TAA
1 TAA
34503264 CATACCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.35
Consensus pattern (23 bp):
TAAGCTTGTATAAACTTTAAACA
Found at i:34517901 original size:45 final size:45
Alignment explanation
Indices: 34517751--34518137 Score: 186
Period size: 45 Copynumber: 8.6 Consensus size: 45
34517741 ATATACGGAT
* * * **
34517751 TCATACATGCGAAA-TCATAGAAGA-AGATTCATATATATGGCGGAC
1 TCATACATGC-AAATTCATAGAAGATA-ACTCATAGATATGTCAAAC
* * *
34517796 TCATACATGCAGA-TCATAGAAGATGA-TACATAGGTATGTCAAAC
1 TCATACATGCAAATTCATAGAAGATAACT-CATAGATATGTCAAAC
* * ** *
34517840 TTATATATGCGGATTCATAGAAGATAACTCATAGATATGTCGAAC
1 TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
* * * * * * *
34517885 TCATACATGTAAATTCACAAAAG-GAACTTCATAGATAAAGT-AGAT
1 TCATACATGCAAATTCATAGAAGATAAC-TCATAGAT-ATGTCAAAC
* ** * * * *
34517930 TCAAACATGCGGATTCAAAGAAGATGATTCATAGATATGGCAAAC
1 TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
* * * * *
34517975 TCATACATGCAAATTTACAGAAG-GAACTTCATAGATAAAG-CAAAT
1 TCATACATGCAAATTCATAGAAGATAAC-TCATAGAT-ATGTCAAAC
* * * * * *
34518020 TCAAACATACGAATTCATAGAAGATGATTCATAGATATGACAAAC
1 TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
* * * * * *
34518065 TCATACATGGAAACTT-ACAGAAG-GAACTTCATAGATAAAGT-AGAT
1 TCATACATGCAAA-TTCATAGAAGATAAC-TCATAGAT-ATGTCAAAC
* *
34518110 TCATACATGTAGATTCATAGAAGA-AACT
1 TCATACATGCAAATTCATAGAAGATAACT
34518138 TTATAAGCAT
Statistics
Matches: 252, Mismatches: 73, Indels: 35
0.70 0.20 0.10
Matches are distributed among these distances:
43 1 0.00
44 46 0.18
45 193 0.77
46 12 0.05
ACGTcount: A:0.43, C:0.15, G:0.17, T:0.26
Consensus pattern (45 bp):
TCATACATGCAAATTCATAGAAGATAACTCATAGATATGTCAAAC
Found at i:34517952 original size:90 final size:89
Alignment explanation
Indices: 34517846--34518137 Score: 388
Period size: 90 Copynumber: 3.3 Consensus size: 89
34517836 AAACTTATAT
* * * *
34517846 ATGCGGATTCATAGAAGATAACTCATAGATATGTCGAACTCATACATGTAAATTCACAAAAGGAA
1 ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAATT-ACAGAAGGAA
34517911 CTTCATAGATAAAGTAGATTCAAAC
65 CTTCATAGATAAAGTAGATTCAAAC
* * * *
34517936 ATGCGGATTCAAAGAAGATGATTCATAGATATGGCAAACTCATACATGCAAATTTACAGAAGGAA
1 ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAA-TTACAGAAGGAA
* *
34518001 CTTCATAGATAAAGCAAATTCAAAC
65 CTTCATAGATAAAGTAGATTCAAAC
* * * * *
34518026 ATACGAATTCATAGAAGATGATTCATAGATATGACAAACTCATACATGGAAACTTACAGAAGGAA
1 ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAA-TTACAGAAGGAA
*
34518091 CTTCATAGATAAAGTAGATTCATAC
65 CTTCATAGATAAAGTAGATTCAAAC
**
34518116 ATGTAGATTCATAGAAGA-AACT
1 ATGCGGATTCATAGAAGATAACT
34518138 TTATAAGCAT
Statistics
Matches: 177, Mismatches: 24, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
89 2 0.01
90 173 0.98
91 2 0.01
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.25
Consensus pattern (89 bp):
ATGCGGATTCATAGAAGATAACTCATAGATATGACAAACTCATACATGCAAATTACAGAAGGAAC
TTCATAGATAAAGTAGATTCAAAC
Found at i:34518138 original size:45 final size:45
Alignment explanation
Indices: 34517851--34518208 Score: 150
Period size: 45 Copynumber: 8.0 Consensus size: 45
34517841 TATATATGCG
* *
34517851 GATTCATAGAAGATAAC-TCATAGAT-ATGTC-GAACTCATACATGTA
1 GATTCATAGAAGA-AACTTCATAGATAAAG-CAG-ATTCATACATGTA
* * * * * * **
34517896 AATTCACAAAAGGAACTTCATAGATAAAGTAGATTCAAACATGCG
1 GATTCATAGAAGAAACTTCATAGATAAAGCAGATTCATACATGTA
* * ** * * *
34517941 GATTCAAAGAAGATGA-TTCATAGATATGGCAAACTCATACATGCA
1 GATTCATAGAAGA-AACTTCATAGATAAAGCAGATTCATACATGTA
* * * * * *
34517986 AATTTACAGAAGGAACTTCATAGATAAAGCAAATTCAAACA--TA
1 GATTCATAGAAGAAACTTCATAGATAAAGCAGATTCATACATGTA
* * * * *
34518029 CGAATTCATAGAAGATGA-TTCATAGAT-ATGACAAACTCATACATGGA
1 -G-ATTCATAGAAGA-AACTTCATAGATAAAG-CAGATTCATACATGTA
* * * *
34518076 AACTT-ACAGAAGGAACTTCATAGATAAAGTAGATTCATACATGTA
1 GA-TTCATAGAAGAAACTTCATAGATAAAGCAGATTCATACATGTA
* ** *
34518121 GATTCATAGAAGAAACTTTATAAGCAT--AGTGGATTCATTCATGT-
1 GATTCATAGAAGAAACTTCAT-AG-ATAAAGCAGATTCATACATGTA
* * *
34518165 GAATTCATAAAAG-AACTTCATA-ATCATAGCATATTCATACATGT
1 G-ATTCATAGAAGAAACTTCATAGAT-AAAGCAGATTCATACATGT
34518209 GCTTAAAGAT
Statistics
Matches: 230, Mismatches: 62, Indels: 43
0.69 0.19 0.13
Matches are distributed among these distances:
41 2 0.01
43 2 0.01
44 30 0.13
45 182 0.79
46 11 0.05
47 3 0.01
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (45 bp):
GATTCATAGAAGAAACTTCATAGATAAAGCAGATTCATACATGTA
Found at i:34518201 original size:44 final size:46
Alignment explanation
Indices: 34518106--34518209 Score: 124
Period size: 44 Copynumber: 2.3 Consensus size: 46
34518096 TAGATAAAGT
* * *
34518106 AGATTCATACATGT-AGATTCATAGAAGAAACTTTATAAGCATAGT
1 AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
* * *
34518151 GGATTCATTCATGTGA-ATTCATAAAAG-AACTTCATAATCATAGC
1 AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
*
34518195 ATATTCATACATGTG
1 AGATTCATACATGTG
34518210 CTTAAAGATC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
44 26 0.53
45 22 0.45
46 1 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (46 bp):
AGATTCATACATGTGAGATTCATAAAAGAAACTTCATAAGCATAGC
Found at i:34520075 original size:15 final size:15
Alignment explanation
Indices: 34520051--34520081 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34520041 AGGCATGGTT
*
34520051 GATTAGGTTGAATTG
1 GATTAAGTTGAATTG
34520066 GATTAAGTTGAATTG
1 GATTAAGTTGAATTG
34520081 G
1 G
34520082 CATGTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (15 bp):
GATTAAGTTGAATTG
Found at i:34521044 original size:16 final size:18
Alignment explanation
Indices: 34521017--34521050 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34521007 TAGAACCAAG
34521017 TTGAGAAAATT-ATTTAA
1 TTGAGAAAATTAATTTAA
34521034 TTGAG-AAATTAATTTAA
1 TTGAGAAAATTAATTTAA
34521051 ATTAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (18 bp):
TTGAGAAAATTAATTTAA
Found at i:34523303 original size:37 final size:37
Alignment explanation
Indices: 34523262--34523503 Score: 297
Period size: 37 Copynumber: 6.5 Consensus size: 37
34523252 TAGTCTGCTA
* ***
34523262 GACTTGTCGTCATGTTTCAAGTTATGACAATTTTCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* * * *
34523299 GACTTTTCCTTATGTTTCAAGTTATGACAACCCGTTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* ** *
34523336 AACTTAACCT-ATCGTTTCAAGTTATGACATTCCGCTG
1 GACTTGTCCTCAT-GTTTCAAGTTATGACAATCCGCTG
* *
34523373 GACTTGTCCTCACGTTTCAAGTTATGACATTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* *
34523410 GACTTGTCCTCATGTTTCAAGTTATGGCAGTCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
* * *
34523447 GACTTATCATCATGCTTCAAGTTATGACAATCCGCTG
1 GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
34523484 GACTTGTCCTCATGTTTCAA
1 GACTTGTCCTCATGTTTCAA
34523504 TATACGATGG
Statistics
Matches: 174, Mismatches: 29, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
36 2 0.01
37 171 0.98
38 1 0.01
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (37 bp):
GACTTGTCCTCATGTTTCAAGTTATGACAATCCGCTG
Found at i:34523538 original size:74 final size:74
Alignment explanation
Indices: 34523262--34523538 Score: 227
Period size: 74 Copynumber: 3.7 Consensus size: 74
34523252 TAGTCTGCTA
* * * *** * * * * *
34523262 GACTTGTCGTCATGTTTCAAGTTATGACAATTTTCTGGACTTTTCCTTATGTTTCAAGTTATGAC
1 GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
* *
34523327 AACCCGTTG
66 AATCCGCTG
* ** * * * *
34523336 AACTTAACCT-ATCGTTTCAAGTTATGACATTCCGCTGGACTTGTCCTCACGTTTCAAGTTATGA
1 GACTTGTCCTCAT-GTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGA
*
34523400 CATTCCGCTG
65 CAATCCGCTG
* * * * * *
34523410 GACTTGTCCTCATGTTTCAAGTTATGGCAGTCCGCTGGACTTATCATCATGCTTCAAGTTATGAC
1 GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
34523475 AATCCGCTG
66 AATCCGCTG
** * *
34523484 GACTTGTCCTCATGTTTCAA-TATACGATGGTCCGTTGCA-TGTGTCCTCAGGCTTC
1 GACTTGTCCTCATGTTTCAAGT-TACGACAGTCCGCTGCACT-TGTCCTCACGCTTC
34523539 TATGCTAAGG
Statistics
Matches: 166, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
73 4 0.02
74 160 0.96
75 2 0.01
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (74 bp):
GACTTGTCCTCATGTTTCAAGTTACGACAGTCCGCTGCACTTGTCCTCACGCTTCAAGTTATGAC
AATCCGCTG
Found at i:34523731 original size:22 final size:22
Alignment explanation
Indices: 34523683--34523741 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
34523673 GGAAATTCTG
*
34523683 AAATTTT-AGTG-TG-AAGTTA
1 AAATTTTAAGTGTTGAAACTTA
*
34523702 AAAATTTAAGTGTTGAAACTTA
1 AAATTTTAAGTGTTGAAACTTA
*
34523724 AAATTTTAAGTGTCGAAA
1 AAATTTTAAGTGTTGAAA
34523742 TGCAGAAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 6 0.18
20 4 0.12
21 2 0.06
22 21 0.64
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.37
Consensus pattern (22 bp):
AAATTTTAAGTGTTGAAACTTA
Found at i:34532538 original size:6 final size:6
Alignment explanation
Indices: 34532529--34532573 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
34532519 CAAGTTCAAC
* *
34532529 ACATAG ACATAT ACATAT ACATAT ACATAT GCATACAT ACATAT A
1 ACATAT ACATAT ACATAT ACATAT ACATAT ACAT--AT ACATAT A
34532574 TGGTTGGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 29 0.85
8 5 0.15
ACGTcount: A:0.49, C:0.18, G:0.04, T:0.29
Consensus pattern (6 bp):
ACATAT
Found at i:34539639 original size:20 final size:20
Alignment explanation
Indices: 34539599--34539635 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
34539589 TCTTTTATTT
34539599 AAAAAATATATAAAAATATA
1 AAAAAATATATAAAAATATA
*
34539619 AAAAAAT-TATTAAAATA
1 AAAAAATATATAAAAATA
34539636 ATAATAATCA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 9 0.56
20 7 0.44
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAAATATATAAAAATATA
Found at i:34540613 original size:2 final size:2
Alignment explanation
Indices: 34540606--34540635 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
34540596 TGTGCGCATG
34540606 AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34540636 AATTGATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34540808 original size:2 final size:2
Alignment explanation
Indices: 34540801--34540825 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
34540791 TGATAACTTG
34540801 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
34540826 AAAGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34543033 original size:35 final size:35
Alignment explanation
Indices: 34542971--34543038 Score: 91
Period size: 35 Copynumber: 1.9 Consensus size: 35
34542961 ATAGAGGCAT
* *
34542971 ATGTTCGAGTACCCATGCTAGTATACTCATACAGA
1 ATGTACGAGTACCCATACTAGTATACTCATACAGA
* * *
34543006 ATGTACGAGTTCCCATATTAGTGTACTCATACA
1 ATGTACGAGTACCCATACTAGTATACTCATACA
34543039 CCCAAGTACC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (35 bp):
ATGTACGAGTACCCATACTAGTATACTCATACAGA
Found at i:34543232 original size:35 final size:35
Alignment explanation
Indices: 34543166--34543232 Score: 89
Period size: 35 Copynumber: 1.9 Consensus size: 35
34543156 GTACTTGGGC
* *
34543166 GTATGAGTACACTAATATGGGAACCCGAACATTTT
1 GTATGAGTACACTAACATGGGAACCCAAACATTTT
* * *
34543201 GTATGAGTACACTAGCATGGGTACTCAAACAT
1 GTATGAGTACACTAACATGGGAACCCAAACAT
34543233 ATGCCTCTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 27 1.00
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (35 bp):
GTATGAGTACACTAACATGGGAACCCAAACATTTT
Found at i:34551641 original size:3 final size:3
Alignment explanation
Indices: 34551633--34551659 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34551623 ATAAATCACG
34551633 CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT
34551660 TTTTCAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:34559120 original size:20 final size:20
Alignment explanation
Indices: 34559095--34559133 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34559085 CTCGCAGGTA
34559095 TGGCGACGTGGAGACGGACT
1 TGGCGACGTGGAGACGGACT
*
34559115 TGGCGACGTGGAGGCGGAC
1 TGGCGACGTGGAGACGGAC
34559134 GTGTGTGGTG
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:0.18, C:0.21, G:0.49, T:0.13
Consensus pattern (20 bp):
TGGCGACGTGGAGACGGACT
Found at i:34559928 original size:134 final size:133
Alignment explanation
Indices: 34559790--34560138 Score: 380
Period size: 133 Copynumber: 2.6 Consensus size: 133
34559780 GCAACTTCAG
* * * * * *
34559790 GGAGATAAGACTGGTGACTTAAATCTGCTCCATTACCGCTACATGG-AGATAAGATTCACCGTCT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACTAC-GGGAAGATAAGATTCACCGTCT
* * * * *
34559854 TCGATCTGCTTCACTGCTA-CTTCAGGGAGATAAGATCTACAATTTTCAGCCTGCTCCTTTGCTA
65 TCGATCTGCTCCACTACTATCTCCA-GGAGATAAGATCTA-AATCTTCAACCTGCTCCTTTGCTA
*
34559918 CCTTAA
128 CCTCAA
* * * ****
34559924 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACTTCGGGAAGATAAGATTTGTTGTCTT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACTACGGGAAGATAAGATTCACCGTCTT
* * * *
34559989 TGATCTGCTCCCCTACTATCTCCATGAGATAAGATCTAAATCTTCAACTTGCTCCTTTGCTACCT
66 CGATCTGCTCCACTACTATCTCCAGGAGATAAGATCTAAATCTTCAACCTGCTCCTTTGCTACCT
34560054 CAA
131 CAA
* * * * *
34560057 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCT-CGGAAAGATAAGATTCGCTGTCT
1 GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCA-CTACGGGAAGATAAGATTCACCGTCT
*
34560121 TCGATCTACTCCACTACT
65 TCGATCTGCTCCACTACT
34560139 GCTTATGGAG
Statistics
Matches: 183, Mismatches: 29, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
133 101 0.55
134 78 0.43
135 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (133 bp):
GGAGATAAGGCTTGTGGCTTAAATCTGCTCCACTACCACTACGGGAAGATAAGATTCACCGTCTT
CGATCTGCTCCACTACTATCTCCAGGAGATAAGATCTAAATCTTCAACCTGCTCCTTTGCTACCT
CAA
Found at i:34559974 original size:44 final size:43
Alignment explanation
Indices: 34559923--34560098 Score: 124
Period size: 44 Copynumber: 4.0 Consensus size: 43
34559913 TGCTACCTTA
*
34559923 AGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACTTC
1 AGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
* ** * ** *
34559966 GGGAAGATAAGATTTGTTGTCTTTGATCTGCTCCCCTACTATCTCC
1 AGG-AGATAAGGCTTG-TGGCTTAAATCTGCTCCCCTACTACCT-C
* * ** * ** *
34560012 ATGAGATAAGATCTAAAT--CTTCAA-CTTGCTCCTTTGCTACCTC
1 AGGAGATAAG-GCT-TGTGGCTTAAATC-TGCTCCCCTACTACCTC
34560055 AAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
1 -AGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
34560099 GGAAAGATAA
Statistics
Matches: 95, Mismatches: 28, Indels: 19
0.67 0.20 0.13
Matches are distributed among these distances:
42 1 0.01
43 6 0.06
44 54 0.57
45 30 0.32
46 4 0.04
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (43 bp):
AGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
Found at i:34560164 original size:133 final size:132
Alignment explanation
Indices: 34559836--34560166 Score: 439
Period size: 133 Copynumber: 2.5 Consensus size: 132
34559826 CGCTACATGG
* * * * * *
34559836 AGATAAGATTCACCGTCTTCGATCTGCTTCACTGCTACTTCAGGGAGATAAGATCTACAATTTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTACTT-ATGGAGATAAGATCTA-AATCTTC
* * *
34559901 AGCCTGCTCCTTTGCTACCTTAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACTTC
64 AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
*
34559966 GGGA
129 GGAA
* * * * *
34559970 AGATAAGATTTGTTGTCTTTGATCTGCTCCCCTACTATCTCCAT-GAGATAAGATCTAAATCTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTA-CT-TATGGAGATAAGATCTAAATCTTC
*
34560034 AACTTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
64 AACCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTC
34560099 GGAA
129 GGAA
* * *
34560103 AGATAAGATTCGCTGTCTTCGATCTACTCCACTACTGCTTATGGAGACAAGATCTATAATCTTC
1 AGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTACTTATGGAGATAAGATCTA-AATCTTC
34560167 TTTAATCTAT
Statistics
Matches: 169, Mismatches: 24, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
131 2 0.01
132 14 0.08
133 108 0.64
134 42 0.25
135 3 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (132 bp):
AGATAAGATTCGCTGTCTTCGATCTGCTCCACTACTACTTATGGAGATAAGATCTAAATCTTCAA
CCTGCTCCTTTGCTACCTCAAGGAGATAAGGCTTGTGGCTTAAATCTGCTCCCCTACTACCTCGG
AA
Found at i:34560204 original size:47 final size:47
Alignment explanation
Indices: 34560153--34560303 Score: 180
Period size: 46 Copynumber: 3.3 Consensus size: 47
34560143 ATGGAGACAA
* * *
34560153 GATCTATAATCTTCTTTAATCTATCCCACTGCATTTCAGGGGTATAG
1 GATCTATAATTTTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAG
* * * *
34560200 GATCTA-CATTTTCTTTAACCCATCCTACTGCGTTTCAGGGGCATAG
1 GATCTATAATTTTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAG
** * *
34560246 GATCT-GCATTTTCTTCAATCCATCCCACTGCGTCTCAGGGGTATAG
1 GATCTATAATTTTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAG
*
34560292 GATCTGTAATTT
1 GATCTATAATTT
34560304 CATGGATCTG
Statistics
Matches: 88, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
46 78 0.89
47 10 0.11
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (47 bp):
GATCTATAATTTTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAG
Found at i:34560297 original size:46 final size:46
Alignment explanation
Indices: 34560164--34560297 Score: 196
Period size: 46 Copynumber: 2.9 Consensus size: 46
34560154 ATCTATAATC
* * *
34560164 TTCTTTAATCTATCCCACTGCATTTCAGGGGTATAGGATCTACATT
1 TTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAGGATCTGCATT
* * *
34560210 TTCTTTAACCCATCCTACTGCGTTTCAGGGGCATAGGATCTGCATT
1 TTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAGGATCTGCATT
* *
34560256 TTCTTCAATCCATCCCACTGCGTCTCAGGGGTATAGGATCTG
1 TTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAGGATCTG
34560298 TAATTTCATG
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (46 bp):
TTCTTTAATCCATCCCACTGCGTTTCAGGGGTATAGGATCTGCATT
Found at i:34572409 original size:11 final size:10
Alignment explanation
Indices: 34572389--34572437 Score: 50
Period size: 9 Copynumber: 4.9 Consensus size: 10
34572379 AGAAATTTGT
34572389 AAAAAAAATG
1 AAAAAAAATG
34572399 AAAATAAAATG
1 AAAA-AAAATG
34572410 AATAAAAAA--
1 AA-AAAAAATG
34572419 ATAAAAAAAT-
1 A-AAAAAAATG
34572429 AAAAAAAAT
1 AAAAAAAAT
34572438 ATAATATAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 15 0.43
10 6 0.17
11 12 0.34
12 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.14
Consensus pattern (10 bp):
AAAAAAAATG
Found at i:34572421 original size:8 final size:8
Alignment explanation
Indices: 34572399--34572435 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
34572389 AAAAAAAATG
34572399 AAAATAAA
1 AAAATAAA
*
34572407 ATGAATAAA
1 A-AAATAAA
34572416 AAAATAAA
1 AAAATAAA
34572424 AAAATAAA
1 AAAATAAA
34572432 AAAA
1 AAAA
34572436 ATATAATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
8 19 0.73
9 7 0.27
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.14
Consensus pattern (8 bp):
AAAATAAA
Found at i:34572436 original size:17 final size:17
Alignment explanation
Indices: 34572399--34572464 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
34572389 AAAAAAAATG
*
34572399 AAAATAAAATGAATAAA
1 AAAATAAAATAAATAAA
34572416 AAAATAAAA-AAATAAAA
1 AAAATAAAATAAAT-AAA
* *
34572433 AAAATATAATATAATATA
1 AAAATAAAATA-AATAAA
* *
34572451 ATAATAATATAAAT
1 AAAATAAAATAAAT
34572465 TGATTAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.08
17 23 0.57
18 11 0.28
19 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
AAAATAAAATAAATAAA
Found at i:34572524 original size:20 final size:20
Alignment explanation
Indices: 34572484--34572524 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
34572474 TGATAATAGG
*
34572484 ACAGTAATAATAGTAATAAT
1 ACAGTAATAATAGTAAAAAT
34572504 ACAGTAATAA-AGTAGAAAAT
1 ACAGTAATAATAGTA-AAAAT
34572524 A
1 A
34572525 GTAATGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.59, C:0.05, G:0.12, T:0.24
Consensus pattern (20 bp):
ACAGTAATAATAGTAAAAAT
Found at i:34572596 original size:26 final size:26
Alignment explanation
Indices: 34572551--34572600 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
34572541 AAGCATGATA
*
34572551 ATATGTTAATGATAAAAATAAAAATG
1 ATATGTTAATAATAAAAATAAAAATG
* *
34572577 ATATGTTAATAATTATAATAAAAA
1 ATATGTTAATAATAAAAATAAAAA
34572601 AATAGTAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (26 bp):
ATATGTTAATAATAAAAATAAAAATG
Found at i:34572779 original size:3 final size:3
Alignment explanation
Indices: 34572747--34572849 Score: 55
Period size: 3 Copynumber: 33.0 Consensus size: 3
34572737 TTAATACGGG
* * * * *
34572747 TAA TAA TAT TAA AAA TTAA TAA GAA GAA TAA TAA TATG TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA
* * * * * *
34572794 TAA AAA TAG TAA CAA CAA TAA TAAA TACA GTAA TAA TAT TAT TAA -AA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TA-A -TAA TAA TAA TAA TAA TAA
34572841 TAA TAA TAA
1 TAA TAA TAA
34572850 AAATGTCCAA
Statistics
Matches: 78, Mismatches: 16, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 2 0.03
3 65 0.83
4 9 0.12
5 2 0.03
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:34575404 original size:46 final size:46
Alignment explanation
Indices: 34575298--34575618 Score: 408
Period size: 46 Copynumber: 7.0 Consensus size: 46
34575288 TTTGACATGA
* * * * ** * * *
34575298 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGC
** * *
34575345 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGTCACGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*** *** * *
34575391 TGCCATGGTATCTTTCAACCATGGTCTTATTTATTTCCCGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
34575437 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
34575483 TGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
34575529 TGCCATGGTATTTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
34575575 TGCCATGGTATCTTTCAACCATTGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
34575619 AGAGCACACT
Statistics
Matches: 247, Mismatches: 27, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
46 218 0.88
47 29 0.12
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.40
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Found at i:34577793 original size:18 final size:20
Alignment explanation
Indices: 34577778--34577814 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
34577768 TAATAATAAA
*
34577778 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
34577798 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
34577815 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Done.