Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr9
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: 38630433
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2298367 characters in sequence are not A, C, G, or T
File 59 of 97
Found at i:23717036 original size:3 final size:3
Alignment explanation
Indices: 23717028--23717072 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
23717018 TCATTTCCTA
23717028 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
23717073 TCTCTAATTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:23721780 original size:19 final size:21
Alignment explanation
Indices: 23721742--23721781 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
23721732 CCACTCATGC
*
23721742 CACATTGTACATTAAATCAAG
1 CACATTGTACAATAAATCAAG
23721763 CACATTG-ACAAT-AATCAAG
1 CACATTGTACAATAAATCAAG
23721782 TTTTCTCAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (21 bp):
CACATTGTACAATAAATCAAG
Found at i:23721974 original size:36 final size:37
Alignment explanation
Indices: 23721933--23722078 Score: 125
Period size: 37 Copynumber: 3.8 Consensus size: 37
23721923 CAGCCGAAGT
*
23721933 CATCATGTG-TACCCCCACATCGCGCACAACTAATTC
1 CATCATGTGCTACCCCCACATCGCACACAACTAATTC
* * * *
23721969 CATCATGTGCTCCCCCCACATTGCACACATGGCATAAAT-
1 CATCATGTGCTACCCCCACATCGCACACA--AC-TAATTC
* *
23722008 CATCATCGTCATCTGCACCCCCACATCGCACACAACTAATGC
1 CATCAT-GT--GCT--ACCCCCACATCGCACACAACTAATTC
* *
23722050 CATCATGTGCTCCCCCCACATCGCGCACA
1 CATCATGTGCTACCCCCACATCGCACACA
23722079 TAAGTAATCT
Statistics
Matches: 86, Mismatches: 14, Indels: 19
0.72 0.12 0.16
Matches are distributed among these distances:
36 9 0.10
37 32 0.37
39 9 0.10
40 6 0.07
41 5 0.06
42 9 0.10
44 16 0.19
ACGTcount: A:0.27, C:0.41, G:0.12, T:0.21
Consensus pattern (37 bp):
CATCATGTGCTACCCCCACATCGCACACAACTAATTC
Found at i:23722093 original size:39 final size:39
Alignment explanation
Indices: 23721932--23722094 Score: 117
Period size: 37 Copynumber: 4.2 Consensus size: 39
23721922 ACAGCCGAAG
23721932 TCATCATGTG-TACCCCCACATCGCGCAC--AACTAAT-
1 TCATCATGTGCTACCCCCACATCGCGCACATAACTAATC
* * * **
23721967 TCCATCATGTGCTCCCCCCACATTGCACACATGGCATAAATC
1 T-CATCATGTGCTACCCCCACATCGCGCACATAAC-T-AATC
* *
23722009 ATCATCGTCATCTGC-ACCCCCACAT--CGCACACAACTAATGC
1 -TCA---TCATGTGCTACCCCCACATCGCGCACATAACTAAT-C
* *
23722050 -CATCATGTGCTCCCCCCACATCGCGCACATAAGTAATC
1 TCATCATGTGCTACCCCCACATCGCGCACATAACTAATC
23722088 TCATCAT
1 TCATCAT
23722095 CCACACTCCC
Statistics
Matches: 97, Mismatches: 15, Indels: 28
0.69 0.11 0.20
Matches are distributed among these distances:
35 1 0.01
36 16 0.16
37 24 0.25
38 1 0.01
39 21 0.22
40 4 0.04
41 5 0.05
42 8 0.08
43 1 0.01
44 9 0.09
45 7 0.07
ACGTcount: A:0.28, C:0.39, G:0.11, T:0.23
Consensus pattern (39 bp):
TCATCATGTGCTACCCCCACATCGCGCACATAACTAATC
Found at i:23724343 original size:24 final size:24
Alignment explanation
Indices: 23724307--23724353 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
23724297 AAGACAGGAC
23724307 TCAACACCCATACAAACTCAAAGT
1 TCAACACCCATACAAACTCAAAGT
*
23724331 TCAACACCTATACAAACTCAAAG
1 TCAACACCCATACAAACTCAAAG
23724354 CCCAATGTCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.47, C:0.32, G:0.04, T:0.17
Consensus pattern (24 bp):
TCAACACCCATACAAACTCAAAGT
Found at i:23735703 original size:28 final size:27
Alignment explanation
Indices: 23735667--23735719 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
23735657 ATATCCTGGT
*
23735667 GGTGGAAAATTACAATTTTGCCCCTGA
1 GGTGGAAAATTACAATTTTACCCCTGA
*
23735694 GGTGGCAAAATTACCATTTTACCCCT
1 GGTGG-AAAATTACAATTTTACCCCT
23735720 ATACTCCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (27 bp):
GGTGGAAAATTACAATTTTACCCCTGA
Found at i:23735787 original size:20 final size:20
Alignment explanation
Indices: 23735764--23735809 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
23735754 CTTCTAAACC
23735764 TCAAATCATACT-TCAATAAG
1 TCAAATCATACTCT-AATAAG
*
23735784 TCAAATTATACTCTAATAAG
1 TCAAATCATACTCTAATAAG
23735804 TCAAAT
1 TCAAAT
23735810 GGGGTCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.46, C:0.17, G:0.04, T:0.33
Consensus pattern (20 bp):
TCAAATCATACTCTAATAAG
Found at i:23736766 original size:12 final size:12
Alignment explanation
Indices: 23736737--23736766 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23736727 TATTGGTTTT
*
23736737 TTTAAATAAAAA
1 TTTAACTAAAAA
23736749 TTTAACTAAAAA
1 TTTAACTAAAAA
23736761 TTTAAC
1 TTTAAC
23736767 ACTATTACTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (12 bp):
TTTAACTAAAAA
Found at i:23737736 original size:15 final size:15
Alignment explanation
Indices: 23737716--23737745 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23737706 ATCTATCAAG
23737716 AATTCTCTCTTGTAA
1 AATTCTCTCTTGTAA
*
23737731 AATTCTTTCTTGTAA
1 AATTCTCTCTTGTAA
23737746 TTCTTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (15 bp):
AATTCTCTCTTGTAA
Found at i:23758858 original size:6 final size:6
Alignment explanation
Indices: 23758839--23758871 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23758829 GTCTTTCAAT
*
23758839 AATG-A AATGTA AATGCA AATGCA AATGCA AATG
1 AATGCA AATGCA AATGCA AATGCA AATGCA AATG
23758872 TAATGTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
5 4 0.15
6 22 0.85
ACGTcount: A:0.52, C:0.09, G:0.18, T:0.21
Consensus pattern (6 bp):
AATGCA
Found at i:23758960 original size:15 final size:15
Alignment explanation
Indices: 23758940--23758969 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
23758930 ATCTGTCAAG
23758940 AATTCTCTCCTGTAA
1 AATTCTCTCCTGTAA
*
23758955 AATTCTCTCTTGTAA
1 AATTCTCTCCTGTAA
23758970 TTCTTATCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (15 bp):
AATTCTCTCCTGTAA
Found at i:23760962 original size:2 final size:2
Alignment explanation
Indices: 23760955--23760979 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23760945 ATGGAATGTC
23760955 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
23760980 GTATGTATGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23775478 original size:13 final size:13
Alignment explanation
Indices: 23775441--23775481 Score: 59
Period size: 12 Copynumber: 3.3 Consensus size: 13
23775431 GTTGGAAATG
23775441 AATTTCCAATGG-
1 AATTTCCAATGGA
*
23775453 AATTT-CGATGGA
1 AATTTCCAATGGA
23775465 AATTTCCAATGGA
1 AATTTCCAATGGA
23775478 AATT
1 AATT
23775482 CCATTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 5 0.20
12 10 0.40
13 10 0.40
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.34
Consensus pattern (13 bp):
AATTTCCAATGGA
Found at i:23775490 original size:24 final size:24
Alignment explanation
Indices: 23775441--23775490 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
23775431 GTTGGAAATG
* *
23775441 AATTTCCAATGGAATTTCGATGGA
1 AATTTCCAATGGAAATTCCATGGA
*
23775465 AATTTCCAATGGAAATTCCATTGA
1 AATTTCCAATGGAAATTCCATGGA
23775489 AA
1 AA
23775491 ATTATTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (24 bp):
AATTTCCAATGGAAATTCCATGGA
Found at i:23778078 original size:24 final size:26
Alignment explanation
Indices: 23778037--23778097 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
23778027 CACTAAAAGT
*
23778037 TTCTTCATCTTCGTCCTCAACT-TCTTC
1 TTCTTCATCTTCG-CCTCAA-TGTCATC
*
23778064 TTCTTCAT-TTC-CCTCCATGTCATC
1 TTCTTCATCTTCGCCTCAATGTCATC
23778088 TTCTTCATCT
1 TTCTTCATCT
23778098 ACATCTCCTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 1 0.03
24 17 0.57
25 1 0.03
26 3 0.10
27 8 0.27
ACGTcount: A:0.11, C:0.36, G:0.03, T:0.49
Consensus pattern (26 bp):
TTCTTCATCTTCGCCTCAATGTCATC
Found at i:23778093 original size:30 final size:30
Alignment explanation
Indices: 23778057--23778126 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
23778047 TCGTCCTCAA
* * *
23778057 CTTCTTCTTCTTCATTTCCCTCCATGTCAT
1 CTTCTTCATCTACATCTCCCTCCATGTCAT
* *
23778087 CTTCTTCATCTACATCTCCTTGCATGTCAT
1 CTTCTTCATCTACATCTCCCTCCATGTCAT
23778117 CTTCTTCATC
1 CTTCTTCATC
23778127 CTCAATTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.13, C:0.36, G:0.04, T:0.47
Consensus pattern (30 bp):
CTTCTTCATCTACATCTCCCTCCATGTCAT
Found at i:23778102 original size:15 final size:14
Alignment explanation
Indices: 23778083--23778126 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
23778073 TCCCTCCATG
23778083 TCATCTTCTTCATC
1 TCATCTTCTTCATC
* *
23778097 TACATCTCCTTGCATG
1 T-CATCTTCTT-CATC
23778113 TCATCTTCTTCATC
1 TCATCTTCTTCATC
23778127 CTCAATTAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.16, C:0.34, G:0.05, T:0.45
Consensus pattern (14 bp):
TCATCTTCTTCATC
Found at i:23787123 original size:30 final size:30
Alignment explanation
Indices: 23787089--23787206 Score: 118
Period size: 30 Copynumber: 3.9 Consensus size: 30
23787079 CTCATTGAAT
23787089 TTTCGTTGGAAATGGATTTCCAACGAAAAA
1 TTTCGTTGGAAATGGATTTCCAACGAAAAA
* **
23787119 TTTCGTTGGAAATGGATTTCCAATGAAATT
1 TTTCGTTGGAAATGGATTTCCAACGAAAAA
** *
23787149 TTTCGTTGGGGA-GGAAATTCCAAC-AGAAAA
1 TTTCGTTGGAAATGG-ATTTCCAACGA-AAAA
23787179 -TTCTGTTGGAAAT-GATTTTCCAACGAAA
1 TTTC-GTTGGAAATGGA-TTTCCAACGAAA
23787207 TTTCATTAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 12
0.74 0.13 0.13
Matches are distributed among these distances:
29 7 0.10
30 62 0.89
31 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.32
Consensus pattern (30 bp):
TTTCGTTGGAAATGGATTTCCAACGAAAAA
Found at i:23787152 original size:60 final size:60
Alignment explanation
Indices: 23787088--23787209 Score: 144
Period size: 60 Copynumber: 2.0 Consensus size: 60
23787078 TCTCATTGAA
* *
23787088 TTTTCGTTGGAAATGG-ATTTCCAAC-GAAAAATT-TCGTTGGAAATGGA-TTTCCAATGAAAT
1 TTTTCGTTGGAAA-GGAAATTCCAACAG-AAAATTCT-GTTGGAAAT-GATTTTCCAACGAAAT
**
23787148 TTTTCGTTGGGGAGGAAATTCCAACAGAAAATTCTGTTGGAAATGATTTTCCAACGAAAT
1 TTTTCGTTGGAAAGGAAATTCCAACAGAAAATTCTGTTGGAAATGATTTTCCAACGAAAT
23787208 TT
1 TT
23787210 CATTAGAAAT
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
59 4 0.07
60 48 0.89
61 2 0.04
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (60 bp):
TTTTCGTTGGAAAGGAAATTCCAACAGAAAATTCTGTTGGAAATGATTTTCCAACGAAAT
Found at i:23788340 original size:20 final size:20
Alignment explanation
Indices: 23788315--23788360 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
23788305 TTTTGACCCC
23788315 ATTTGACTTATT-AGAGTATA
1 ATTTGACTTATTGA-AGTATA
*
23788335 ATTTGACTTATTGAAGTATG
1 ATTTGACTTATTGAAGTATA
23788355 ATTTGA
1 ATTTGA
23788361 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 23 0.96
21 1 0.04
ACGTcount: A:0.33, C:0.04, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTTGACTTATTGAAGTATA
Found at i:23788436 original size:28 final size:27
Alignment explanation
Indices: 23788405--23788457 Score: 79
Period size: 28 Copynumber: 1.9 Consensus size: 27
23788395 TTTGGAGTAT
*
23788405 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTT-CCACCTC
*
23788433 AGGGGCAAAATTGTAATTTTCCACC
1 AGGGGCAAAATGGTAATTTTCCACC
23788458 ACCAGGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGCAAAATGGTAATTTTCCACCTC
Found at i:23788463 original size:28 final size:28
Alignment explanation
Indices: 23788405--23788463 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
23788395 TTTGGAGTAT
* *
23788405 AGGGGTAAAATGGTAATTTTGCCACCTC
1 AGGGGCAAAATGGTAATTTTGCCACCCC
*
23788433 AGGGGCAAAATTGTAATTTT-CCACCACC
1 AGGGGCAAAATGGTAATTTTGCCACC-CC
23788461 AGG
1 AGG
23788464 ATATTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (28 bp):
AGGGGCAAAATGGTAATTTTGCCACCCC
Found at i:23791176 original size:47 final size:47
Alignment explanation
Indices: 23791107--23791208 Score: 186
Period size: 47 Copynumber: 2.2 Consensus size: 47
23791097 AGACAGAGAT
* *
23791107 AATTCTGCCAATTGGTTGAGATCTACATTTTTAGGGAGAAACATGAC
1 AATTCTGCCAATTGGTTGAGATCTACATTTCTAAGGAGAAACATGAC
23791154 AATTCTGCCAATTGGTTGAGATCTACATTTCTAAGGAGAAACATGAC
1 AATTCTGCCAATTGGTTGAGATCTACATTTCTAAGGAGAAACATGAC
23791201 AATTCTGC
1 AATTCTGC
23791209 AAGCAATTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 53 1.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (47 bp):
AATTCTGCCAATTGGTTGAGATCTACATTTCTAAGGAGAAACATGAC
Found at i:23791883 original size:8 final size:8
Alignment explanation
Indices: 23791870--23791895 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
23791860 TCAGAGTAAT
23791870 GGAGAAAG
1 GGAGAAAG
23791878 GGAGAAAG
1 GGAGAAAG
23791886 GGAGAAAG
1 GGAGAAAG
23791894 GG
1 GG
23791896 TGTGGCGCCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (8 bp):
GGAGAAAG
Found at i:23792448 original size:17 final size:19
Alignment explanation
Indices: 23792426--23792465 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
23792416 AAAGGAAGAA
23792426 ATATTT-ATACT-GTAAAT
1 ATATTTAATACTCGTAAAT
23792443 ATATTTAGATACTCGTAAAT
1 ATATTTA-ATACTCGTAAAT
23792463 ATA
1 ATA
23792466 ATAAATAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
19 5 0.25
20 9 0.45
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (19 bp):
ATATTTAATACTCGTAAAT
Found at i:23794025 original size:13 final size:13
Alignment explanation
Indices: 23794007--23794031 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23793997 TTCCAGAAAA
23794007 TTTATAAAATCAT
1 TTTATAAAATCAT
23794020 TTTATAAAATCA
1 TTTATAAAATCA
23794032 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23799609 original size:5 final size:5
Alignment explanation
Indices: 23799602--23799641 Score: 71
Period size: 5 Copynumber: 8.0 Consensus size: 5
23799592 CTATTCAATC
*
23799602 TAACC TAACT TAACT TAACT TAACT TAACT TAACT TAACT
1 TAACT TAACT TAACT TAACT TAACT TAACT TAACT TAACT
23799642 GGACTTGGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.40, C:0.23, G:0.00, T:0.38
Consensus pattern (5 bp):
TAACT
Found at i:23799647 original size:15 final size:15
Alignment explanation
Indices: 23799602--23799647 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
23799592 CTATTCAATC
* *
23799602 TAACCTAACTTAACT
1 TAACTTAACTGAACT
*
23799617 TAACTTAACTTAACT
1 TAACTTAACTGAACT
*
23799632 TAACTTAACTGGACT
1 TAACTTAACTGAACT
23799647 T
1 T
23799648 GGGGCCACGC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.37, C:0.22, G:0.04, T:0.37
Consensus pattern (15 bp):
TAACTTAACTGAACT
Found at i:23799707 original size:15 final size:15
Alignment explanation
Indices: 23799687--23799728 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
23799677 TAAAACAACC
23799687 TTAAAATCAAAAACT
1 TTAAAATCAAAAACT
* *
23799702 TTAAAATCCAAAGCT
1 TTAAAATCAAAAACT
23799717 TTAAAATCAAAA
1 TTAAAATCAAAA
23799729 TATCTGATCT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.26
Consensus pattern (15 bp):
TTAAAATCAAAAACT
Found at i:23801138 original size:13 final size:13
Alignment explanation
Indices: 23801120--23801144 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23801110 TTCCAGAAAA
23801120 TTTATAAAATCAT
1 TTTATAAAATCAT
23801133 TTTATAAAATCA
1 TTTATAAAATCA
23801145 CAATTTCTCT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:23809376 original size:76 final size:76
Alignment explanation
Indices: 23809248--23809399 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
23809238 TAGTATCCTG
*
23809248 GTTTCGAATCTTTTATTTCACGATCTGACTGGTCAGAAGTTTGTTCACTAGTAGTTGTTTCTTTA
1 GTTTCGAATCTTTTATTTCACGATCTGACAGGTCAGAAGTTTGTTCACTAGTAGTTGTTTCTTTA
23809313 TGATCAATTAT
66 TGATCAATTAT
*
23809324 GTTTCGAATCTTTTATTTCACGATCTGACAGGTCAGAAGTTTGTTCATTAGTAGTTGTTTCTTTA
1 GTTTCGAATCTTTTATTTCACGATCTGACAGGTCAGAAGTTTGTTCACTAGTAGTTGTTTCTTTA
23809389 TGATCAATTAT
66 TGATCAATTAT
23809400 CAGTAAAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (76 bp):
GTTTCGAATCTTTTATTTCACGATCTGACAGGTCAGAAGTTTGTTCACTAGTAGTTGTTTCTTTA
TGATCAATTAT
Found at i:23809897 original size:38 final size:38
Alignment explanation
Indices: 23809794--23809898 Score: 129
Period size: 38 Copynumber: 2.8 Consensus size: 38
23809784 CCCTCCGTAC
* * * * *
23809794 AGCTCTCTAACAACATCGGGGTATATATATCGCTGTCT
1 AGCTCTCCAACACCATCGGGGTATATATCTCACCGTCT
* *
23809832 AGCTCTCCAACGCCATTGGGGTATATATCTCACCGTCT
1 AGCTCTCCAACACCATCGGGGTATATATCTCACCGTCT
* *
23809870 AGCTCTCCAACACCATCGAGGTCTATATC
1 AGCTCTCCAACACCATCGGGGTATATATC
23809899 GCCATCCAAC
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.29
Consensus pattern (38 bp):
AGCTCTCCAACACCATCGGGGTATATATCTCACCGTCT
Found at i:23814786 original size:9 final size:10
Alignment explanation
Indices: 23814763--23814790 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
23814753 TTTGAGAGAA
23814763 AAAAAGTCGT
1 AAAAAGTCGT
23814773 AAAAAGTCGT
1 AAAAAGTCGT
23814783 AAAAAGTC
1 AAAAAGTC
23814791 CATGGTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.54, C:0.11, G:0.18, T:0.18
Consensus pattern (10 bp):
AAAAAGTCGT
Found at i:23822558 original size:18 final size:17
Alignment explanation
Indices: 23822532--23822575 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
23822522 TTTAATATAA
23822532 ATATATTAAAATTTATTT
1 ATATATT-AAATTTATTT
* *
23822550 ATATTTTAAGTTTATTT
1 ATATATTAAATTTATTT
*
23822567 ATTTATTAA
1 ATATATTAA
23822576 TAAAATATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
ATATATTAAATTTATTT
Found at i:23823091 original size:86 final size:86
Alignment explanation
Indices: 23822882--23823136 Score: 368
Period size: 86 Copynumber: 2.9 Consensus size: 86
23822872 AAATTGCTCT
* * *
23822882 TCCTCCGTCGTCCCTATCTGCCACTGGGCTTTCTACTGCCTCCCTTCACCTCTCATTTCCTTTTG
1 TCCTCCGTCGTCCCTATCTG-CGCTGGGCTTTCTACCGCCTCCCTTCACCTCTCCTTTCCTTTTG
*
23822947 AACCAAGGTCTGAAGAAACTCC
65 AACCGAGGTCTGAAGAAACTCC
* *
23822969 TCCTCCGTCGTCCCTATCCGTCGCTGGGCTTTCTACCGCCTCCCTTCACCTTTCCTTTCCTTTTG
1 TCCTCCGTCGTCCCTATCTG-CGCTGGGCTTTCTACCGCCTCCCTTCACCTCTCCTTTCCTTTTG
23823034 AACCGAGGT-TGAAGAAACTCC
65 AACCGAGGTCTGAAGAAACTCC
* ** * **
23823055 TCCTCCGTTGTCCCTATCTGCGGCCAGGCTTTCTACCGCCTCCCTCCAAGTCTCCTTTCCTTTTG
1 TCCTCCGTCGTCCCTATCTGC-GCTGGGCTTTCTACCGCCTCCCTTCACCTCTCCTTTCCTTTTG
23823120 AACCGAGGTCTGAAGAA
65 AACCGAGGTCTGAAGAA
23823137 GCTCTAAAAG
Statistics
Matches: 151, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
85 1 0.01
86 76 0.50
87 74 0.49
ACGTcount: A:0.15, C:0.38, G:0.16, T:0.32
Consensus pattern (86 bp):
TCCTCCGTCGTCCCTATCTGCGCTGGGCTTTCTACCGCCTCCCTTCACCTCTCCTTTCCTTTTGA
ACCGAGGTCTGAAGAAACTCC
Found at i:23824671 original size:21 final size:20
Alignment explanation
Indices: 23824611--23824672 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 20
23824601 TCAAACAATC
23824611 AAAAATTTAATAACTAATTAAACT
1 AAAAA-TTAATAACT-A--AAACT
23824635 AAAAATTAATCAACTAAAACT
1 AAAAATTAAT-AACTAAAACT
23824656 AAACTAATTAAT-ACTAA
1 AAA--AATTAATAACTAA
23824673 TAATCAAAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
21 13 0.37
23 13 0.37
24 9 0.26
ACGTcount: A:0.60, C:0.11, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATTAATAACTAAAACT
Found at i:23853039 original size:35 final size:33
Alignment explanation
Indices: 23852996--23853112 Score: 94
Period size: 35 Copynumber: 3.5 Consensus size: 33
23852986 GAAAAGTTAG
* * *
23852996 TTTT-AGGTTTTGGTTGATCCCGGGAAAAACCA
1 TTTTAAGGTTGTGGTTAATCCCGTGAAAAACCA
* * * *
23853028 TTGTTAAAGGTTGTGGCTAAACCTGTGAAAAGCCA
1 TT-TT-AAGGTTGTGGTTAATCCCGTGAAAAACCA
* * *
23853063 TTTT-GGGTTTTGGTTAATCCCATGAAAAACCA
1 TTTTAAGGTTGTGGTTAATCCCGTGAAAAACCA
23853095 TTATTCAAGGTTGTGGTT
1 TT-TT-AAGGTTGTGGTT
23853113 GAGCCTATGA
Statistics
Matches: 63, Mismatches: 16, Indels: 9
0.72 0.18 0.10
Matches are distributed among these distances:
32 25 0.40
33 4 0.06
34 2 0.03
35 32 0.51
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (33 bp):
TTTTAAGGTTGTGGTTAATCCCGTGAAAAACCA
Found at i:23853123 original size:35 final size:33
Alignment explanation
Indices: 23853019--23853125 Score: 90
Period size: 35 Copynumber: 3.2 Consensus size: 33
23853009 TTGATCCCGG
* *
23853019 GAAAAACCATTGTTAAAGGTTGTGGCTAAACCTGT
1 GAAAAACCATT-TT-AAGGTTGTGGTTAAACCTAT
* * * * *
23853054 GAAAAGCCATTTT-GGGTTTTGGTTAATCCCAT
1 GAAAAACCATTTTAAGGTTGTGGTTAAACCTAT
* *
23853086 GAAAAACCATTATTCAAGGTTGTGGTTGAGCCTAT
1 GAAAAACCATT-TT-AAGGTTGTGGTTAAACCTAT
23853121 GAAAA
1 GAAAA
23853126 GCTATTGTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
32 23 0.41
33 2 0.04
34 2 0.04
35 29 0.52
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (33 bp):
GAAAAACCATTTTAAGGTTGTGGTTAAACCTAT
Found at i:23853124 original size:67 final size:67
Alignment explanation
Indices: 23852996--23853127 Score: 174
Period size: 67 Copynumber: 2.0 Consensus size: 67
23852986 GAAAAGTTAG
* * * *
23852996 TTTTAGGTTTTGGTTGATCCCGGGAAAAACCATTGTTAAAGGTTGTGGCTAAACCTGTGAAAAGC
1 TTTTAGGTTTTGGTTAATCCCAGGAAAAACCATTATTAAAGGTTGTGGCTAAACCTATGAAAAGC
23853061 CA
66 CA
* * * * * *
23853063 TTTTGGGTTTTGGTTAATCCCATGAAAAACCATTATTCAAGGTTGTGGTTGAGCCTATGAAAAGC
1 TTTTAGGTTTTGGTTAATCCCAGGAAAAACCATTATTAAAGGTTGTGGCTAAACCTATGAAAAGC
23853128 TATTGTAAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
67 55 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (67 bp):
TTTTAGGTTTTGGTTAATCCCAGGAAAAACCATTATTAAAGGTTGTGGCTAAACCTATGAAAAGC
CA
Found at i:23857407 original size:254 final size:254
Alignment explanation
Indices: 23856958--23857466 Score: 894
Period size: 254 Copynumber: 2.0 Consensus size: 254
23856948 GGAATCGTGG
*
23856958 AAAGAAAAAATAAGACTTTAGAAGAAATGGCTAAAACCATGCTATGTGAGAATATCCTACCTAGA
1 AAAGAAAAAATAAGACTTTAGAAGAAATGGCTAAAACCATGCTATATGAGAATATCCTACCTAGA
* *
23857023 TACTTTTGGGCAGAAGTTGTAAATACATCTTGCTACATCATAAACAGAGCCATGGTTAGACCAAT
66 TACTTTTGGGCAGAAGCTATAAATACATCTTGCTACATCATAAACAGAGCCATGGTTAGACCAAT
*
23857088 TTTGAAAAAGACTCCTTATGAACTTTACAAAGGAAAAAAACCCAACATAAATTATTTTCATCCAT
131 TTTGAAAAAGACTCCTTATGAACTTTACAAAGGAAAAAAACCCAACATAAATTACTTTCATCCAT
*
23857153 TTGGTTGCAAATGTTATGTCCTAAACAATGGAAAGGAAAATCTAGGTAAATTTGATGCT
196 TTAGTTGCAAATGTTATGTCCTAAACAATGGAAAGGAAAATCTAGGTAAATTTGATGCT
* * *
23857212 AAAGAAAAAATAGGACTTTAGAAGAAATGGGTAAAACCATGCTATATGAGAATAAT-CTATCTAG
1 AAAGAAAAAATAAGACTTTAGAAGAAATGGCTAAAACCATGCTATATGAGAAT-ATCCTACCTAG
* *
23857276 ATACTTTTGGGCAGAAGCTATAAATACATCTTGCTACATCATAAATAGAGCTATGGTTAGACCAA
65 ATACTTTTGGGCAGAAGCTATAAATACATCTTGCTACATCATAAACAGAGCCATGGTTAGACCAA
* *
23857341 TTTTGAAAAAGACTCTTTATGAACTTTACAAAGGAAAGAAACCCAACATAAATTACTTTCATCCA
130 TTTTGAAAAAGACTCCTTATGAACTTTACAAAGGAAAAAAACCCAACATAAATTACTTTCATCCA
23857406 TTTAGTTGCAAATGTTATGTCCTAAACAATGGAAAGGAAAATCTAGGTAAATTTGATGCT
195 TTTAGTTGCAAATGTTATGTCCTAAACAATGGAAAGGAAAATCTAGGTAAATTTGATGCT
23857466 A
1 A
23857467 TAAGTGATGA
Statistics
Matches: 242, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
254 240 0.99
255 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (254 bp):
AAAGAAAAAATAAGACTTTAGAAGAAATGGCTAAAACCATGCTATATGAGAATATCCTACCTAGA
TACTTTTGGGCAGAAGCTATAAATACATCTTGCTACATCATAAACAGAGCCATGGTTAGACCAAT
TTTGAAAAAGACTCCTTATGAACTTTACAAAGGAAAAAAACCCAACATAAATTACTTTCATCCAT
TTAGTTGCAAATGTTATGTCCTAAACAATGGAAAGGAAAATCTAGGTAAATTTGATGCT
Found at i:23873733 original size:12 final size:13
Alignment explanation
Indices: 23873703--23873734 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
23873693 TTATAGAAAG
23873703 AGAAA-GAAAAAT
1 AGAAAGGAAAAAT
23873715 AGAAAGGAAAAAT
1 AGAAAGGAAAAAT
23873728 -GAAAGGA
1 AGAAAGGA
23873735 GTAGAGTAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 12 0.63
13 7 0.37
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (13 bp):
AGAAAGGAAAAAT
Found at i:23885957 original size:43 final size:43
Alignment explanation
Indices: 23885887--23886048 Score: 202
Period size: 43 Copynumber: 3.8 Consensus size: 43
23885877 GTAATTATGT
* *
23885887 TGACTCGACTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGACTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
* *
23885930 TGACCCGATTATGTGCGAGTAGGGAGTGTGCATAACCCGGTGA
1 TGACCCGACTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
** *
23885973 TGACCCGGTTATGTTCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGACTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* * *
23886016 TGACCC-AGCCATGTGCAAGTAAGGAGTGCGCAT
1 TGACCCGA-CTATGTGCGAGTAGGGAGTGCGCAT
23886049 GAGCTGGTGA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.01
43 103 0.99
ACGTcount: A:0.24, C:0.20, G:0.35, T:0.21
Consensus pattern (43 bp):
TGACCCGACTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:23886107 original size:2 final size:2
Alignment explanation
Indices: 23886102--23886131 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
23886092 GGTATATACG
23886102 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23886132 CTANNNNNNN
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23890103 original size:3 final size:3
Alignment explanation
Indices: 23890095--23890120 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
23890085 TCAGGGTACA
23890095 GTG GTG GTG GTG GTG GTG GTG GTG GT
1 GTG GTG GTG GTG GTG GTG GTG GTG GT
23890121 CGACCTGGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
GTG
Found at i:23903183 original size:11 final size:12
Alignment explanation
Indices: 23903163--23903203 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 12
23903153 GAGTTTATTT
23903163 AATT-TTTTAAA
1 AATTATTTTAAA
23903174 AA-TATTTTAAA
1 AATTATTTTAAA
23903185 AATTTATTTTAAA
1 AA-TTATTTTAAA
*
23903198 CATTAT
1 AATTAT
23903204 GTCTAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
10 1 0.04
11 11 0.42
12 4 0.15
13 10 0.38
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
AATTATTTTAAA
Found at i:23903701 original size:12 final size:12
Alignment explanation
Indices: 23903684--23903721 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
23903674 AGTTAGACTT
23903684 AAGAGAGAGGGA
1 AAGAGAGAGGGA
*
23903696 AAGAGAGAGAGA
1 AAGAGAGAGGGA
*
23903708 GAGAGAGAGGGA
1 AAGAGAGAGGGA
23903720 AA
1 AA
23903722 AAAAAAATCG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (12 bp):
AAGAGAGAGGGA
Found at i:23913950 original size:42 final size:42
Alignment explanation
Indices: 23913881--23914006 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
23913871 TGTAATGATA
* *
23913881 TTGACCCGGCTATGCGCCAGT-AGGAGTGTGCATAAGCCGATG
1 TTGACCCGGCTATGTGCGAGTGA-GAGTGTGCATAAGCCGATG
*
23913923 TTGACCCGGCTATGTGCGAGTGAGAGTGTGCATAAGCCGATA
1 TTGACCCGGCTATGTGCGAGTGAGAGTGTGCATAAGCCGATG
* * * * * *
23913965 CTGACCTGGTTATGTGTGAGTGGGAGTGCGCATAAGCCGATG
1 TTGACCCGGCTATGTGCGAGTGAGAGTGTGCATAAGCCGATG
23914007 CATATGAGCT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
42 72 0.99
43 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.35, T:0.24
Consensus pattern (42 bp):
TTGACCCGGCTATGTGCGAGTGAGAGTGTGCATAAGCCGATG
Found at i:23922658 original size:47 final size:47
Alignment explanation
Indices: 23922589--23922684 Score: 192
Period size: 47 Copynumber: 2.0 Consensus size: 47
23922579 GATGAAATAA
23922589 ACCCAACAAAAGCTTGACATATCATCCATAAATATTAAAAAGAACCT
1 ACCCAACAAAAGCTTGACATATCATCCATAAATATTAAAAAGAACCT
23922636 ACCCAACAAAAGCTTGACATATCATCCATAAATATTAAAAAGAACCT
1 ACCCAACAAAAGCTTGACATATCATCCATAAATATTAAAAAGAACCT
23922683 AC
1 AC
23922685 TGCCATTGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.49, C:0.24, G:0.06, T:0.21
Consensus pattern (47 bp):
ACCCAACAAAAGCTTGACATATCATCCATAAATATTAAAAAGAACCT
Found at i:23927938 original size:19 final size:20
Alignment explanation
Indices: 23927911--23927956 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
23927901 AGGAGACAAG
*
23927911 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
23927930 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
23927949 ATAATATT
1 ATAATATT
23927957 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:23928404 original size:20 final size:20
Alignment explanation
Indices: 23928359--23928396 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
23928349 TTTTGGCCCC
23928359 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
23928379 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
23928397 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:23954228 original size:36 final size:36
Alignment explanation
Indices: 23954138--23954234 Score: 131
Period size: 36 Copynumber: 2.7 Consensus size: 36
23954128 GTCTTGGTAG
* * * * *
23954138 AGGTTATGCTTGATCTTGGTCAAAGGCATGTTGTGA
1 AGGTTACGCTTGATCCTGTTAAAAGGCATGTTGTAA
23954174 AGGTTACGCTTGATCCTGTTAAAAGGCATGTTGTAA
1 AGGTTACGCTTGATCCTGTTAAAAGGCATGTTGTAA
*
23954210 ATGTTACGCTTGATCCTGTTGAAAA
1 AGGTTACGCTTGATCCTGTT-AAAA
23954235 AGGAAGTTGA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
36 50 0.93
37 4 0.07
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (36 bp):
AGGTTACGCTTGATCCTGTTAAAAGGCATGTTGTAA
Found at i:23958482 original size:20 final size:19
Alignment explanation
Indices: 23958457--23958494 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
23958447 AATCAATTTT
*
23958457 TTTTCATTTGATTTTCCTTG
1 TTTTCATTTCA-TTTCCTTG
23958477 TTTTCATTTCATTTCCTT
1 TTTTCATTTCATTTCCTT
23958495 TCTTTTCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.11, C:0.18, G:0.05, T:0.66
Consensus pattern (19 bp):
TTTTCATTTCATTTCCTTG
Found at i:23958500 original size:20 final size:20
Alignment explanation
Indices: 23958457--23958501 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
23958447 AATCAATTTT
* *
23958457 TTTTCATTTGATTTTCCTTG
1 TTTTCATTTCATTTTCCTTC
23958477 TTTTCATTTCA-TTTCCTTTC
1 TTTTCATTTCATTTTCC-TTC
23958497 TTTTC
1 TTTTC
23958502 TTACTTCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.09, C:0.20, G:0.04, T:0.67
Consensus pattern (20 bp):
TTTTCATTTCATTTTCCTTC
Found at i:23959353 original size:49 final size:51
Alignment explanation
Indices: 23959294--23959477 Score: 203
Period size: 55 Copynumber: 3.5 Consensus size: 51
23959284 GTAACCACAC
* *
23959294 ATGTGCGGTGTGGGAGTGCACATGCCGGTGATGAC-GG-G-TGATTCCAGCT
1 ATGTGCGGTGTGGGAGTGCACATG-AGCTGATGACGGGAGATGATTCCAGCT
*
23959343 ATGTGTGGTGTGGGAGTGCACATGAGCTGATGACTGGTGGATGATGATTCCAGCT
1 ATGTGCGGTGTGGGAGTGCACATGAGCTGATGAC--G-GGA-GATGATTCCAGCT
* *
23959398 ATGTGCGGTGTGGGTGTGCACATGAGCTGATGATCGGTGGATGATGATTTCAGCT
1 ATGTGCGGTGTGGGAGTGCACATGAGCTGATGA-C-G-GGA-GATGATTCCAGCT
* *
23959453 ATGTGTGGTGTAGGAGTGCACATGA
1 ATGTGCGGTGTGGGAGTGCACATGA
23959478 TCTAATGAGC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
48 8 0.07
49 23 0.19
52 2 0.02
54 1 0.01
55 83 0.70
56 1 0.01
ACGTcount: A:0.19, C:0.14, G:0.39, T:0.28
Consensus pattern (51 bp):
ATGTGCGGTGTGGGAGTGCACATGAGCTGATGACGGGAGATGATTCCAGCT
Found at i:23959411 original size:55 final size:55
Alignment explanation
Indices: 23959332--23959477 Score: 240
Period size: 55 Copynumber: 2.7 Consensus size: 55
23959322 TGATGACGGG
23959332 TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATGA-CTGGTGGATGA
1 TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATGATC-GGTGGATGA
* *
23959387 TGATTCCAGCTATGTGCGGTGTGGGTGTGCACATGAGCTGATGATCGGTGGATGA
1 TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGA
* *
23959442 TGATTTCAGCTATGTGTGGTGTAGGAGTGCACATGA
1 TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGA
23959478 TCTAATGAGC
Statistics
Matches: 84, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
55 83 0.99
56 1 0.01
ACGTcount: A:0.20, C:0.13, G:0.37, T:0.30
Consensus pattern (55 bp):
TGATTCCAGCTATGTGTGGTGTGGGAGTGCACATGAGCTGATGATCGGTGGATGA
Found at i:23974080 original size:28 final size:28
Alignment explanation
Indices: 23974049--23974113 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
23974039 TAAAATTATA
*
23974049 ATTTTGCCCCTGGGGTGGCAAAATGACT
1 ATTTTGCCCCTCGGGTGGCAAAATGACT
* *
23974077 ATTTTACCCCTCGGGTGGTAAAATGACT
1 ATTTTGCCCCTCGGGTGGCAAAATGACT
23974105 ATTTTGCCC
1 ATTTTGCCC
23974114 TTATGCTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (28 bp):
ATTTTGCCCCTCGGGTGGCAAAATGACT
Found at i:23976810 original size:2 final size:2
Alignment explanation
Indices: 23976805--23976893 Score: 99
Period size: 2 Copynumber: 43.5 Consensus size: 2
23976795 TATGTATGTG
*
23976805 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A CTA CTA TA NTA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA -TA TA -TA TA
* * * *
23976847 TA TA TA CA TA TA TG TA TG TG TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23976889 TA TA T
1 TA TA T
23976894 CAATCATCAT
Statistics
Matches: 76, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
1 1 0.01
2 69 0.91
3 6 0.08
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:23977055 original size:42 final size:42
Alignment explanation
Indices: 23976937--23977061 Score: 187
Period size: 42 Copynumber: 3.0 Consensus size: 42
23976927 CATCTCATAT
** * *
23976937 GCAACGGCTTATGCACACTCCCACTCGCACATAGCCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGTCA
* *
23976979 ACAACGGCTTATGTGCACTCCTACTAGCACATAGTCGGGTCA
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGTCA
*
23977021 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTTGGGTC
1 GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGTC
23977062 CACATCAACA
Statistics
Matches: 74, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.23, C:0.32, G:0.22, T:0.22
Consensus pattern (42 bp):
GCAACGGCTTATGTGCACTCCTACTCGCACATAGTCGGGTCA
Found at i:23980111 original size:14 final size:14
Alignment explanation
Indices: 23980094--23980120 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23980084 CAAAATTAAT
23980094 TAATTAACTAAAAC
1 TAATTAACTAAAAC
23980108 TAATTAACTAAAA
1 TAATTAACTAAAA
23980121 TTAAAACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (14 bp):
TAATTAACTAAAAC
Found at i:23984591 original size:21 final size:22
Alignment explanation
Indices: 23984561--23984607 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
23984551 GGATATGTTC
*
23984561 ATGCAATTCATGACAAAGACTG
1 ATGCAATTCATAACAAAGACTG
23984583 ATGC-ATTCATAACAAAGACTG
1 ATGCAATTCATAACAAAGACTG
23984604 ATGC
1 ATGC
23984608 CTCCATTCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.23
Consensus pattern (22 bp):
ATGCAATTCATAACAAAGACTG
Found at i:24015033 original size:36 final size:36
Alignment explanation
Indices: 24014992--24015068 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
24014982 GTCTTGGTAG
* *
24014992 AGGTTACGCCTGATCCTGA-TAAAAGACATGTTGTGA
1 AGGTTACACCTGATCCT-ATTAAAAGACATGTTGTAA
* * *
24015028 AGGTTACACTTGATCCTATTAAAAGGCTTGTTGTAA
1 AGGTTACACCTGATCCTATTAAAAGACATGTTGTAA
24015064 AGGTT
1 AGGTT
24015069 CCACATAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 1 0.03
36 34 0.97
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (36 bp):
AGGTTACACCTGATCCTATTAAAAGACATGTTGTAA
Found at i:24015080 original size:36 final size:36
Alignment explanation
Indices: 24015011--24015090 Score: 88
Period size: 36 Copynumber: 2.2 Consensus size: 36
24015001 CTGATCCTGA
* * * *
24015011 TAAAAGACATGTTGTGAAGGTTACACTTGATCCTAT
1 TAAAAGGCATGTTGTAAAGGTTACACATAATCCTAT
* * *
24015047 TAAAAGGCTTGTTGTAAAGGTTCCACATAATCCTGT
1 TAAAAGGCATGTTGTAAAGGTTACACATAATCCTAT
24015083 TGAAAAGG
1 T-AAAAGG
24015091 AAAGTTGATA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 30 0.83
37 6 0.17
ACGTcount: A:0.34, C:0.14, G:0.21, T:0.31
Consensus pattern (36 bp):
TAAAAGGCATGTTGTAAAGGTTACACATAATCCTAT
Found at i:24032521 original size:47 final size:47
Alignment explanation
Indices: 24032426--24032521 Score: 129
Period size: 47 Copynumber: 2.0 Consensus size: 47
24032416 CTTTTATTAG
* * * *
24032426 ATAAATCAAACTTGTCTTAATGGTCATGCTTTGTAGCGCCCGAGCCA
1 ATAAAGCAAACTTGTCTTAATGGTCATGCTTTGTAGCACCAGAACCA
* * *
24032473 ATAAAGCAAACTTTTCTTAATGGTCATTCTTTGTAGCACTAGAACCA
1 ATAAAGCAAACTTGTCTTAATGGTCATGCTTTGTAGCACCAGAACCA
24032520 AT
1 AT
24032522 CCACCGTACC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (47 bp):
ATAAAGCAAACTTGTCTTAATGGTCATGCTTTGTAGCACCAGAACCA
Found at i:24034473 original size:35 final size:35
Alignment explanation
Indices: 24034321--24034463 Score: 216
Period size: 35 Copynumber: 4.1 Consensus size: 35
24034311 CCTACTTAGC
* * **
24034321 TCATGTGTACTCCCTACATGCACAAGGT-AATATCA
1 TCATGTGCACTCCCTACACGCAC-ATTTCAATATCA
24034356 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
24034391 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
* *
24034426 TCATGTGCACTCCTTACACTCACATTTCAATATCA
1 TCATGTGCACTCCCTACACGCACATTTCAATATCA
24034461 TCA
1 TCA
24034464 CACACACTCC
Statistics
Matches: 101, Mismatches: 6, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
34 2 0.02
35 99 0.98
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.30
Consensus pattern (35 bp):
TCATGTGCACTCCCTACACGCACATTTCAATATCA
Found at i:24040625 original size:31 final size:30
Alignment explanation
Indices: 24040583--24040642 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
24040573 GTATCCCCCC
*
24040583 CCCCCCCCATCGTGCACATGGGCACTATCNT
1 CCCCCCACATCGTGCACATGGGCACTATC-T
24040614 CCCCCCACATCGTGCACATGGGCACTATC
1 CCCCCCACATCGTGCACATGGGCACTATC
24040643 ATCATCCATC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.18, C:0.45, G:0.17, T:0.18
Consensus pattern (30 bp):
CCCCCCACATCGTGCACATGGGCACTATCT
Found at i:24041547 original size:19 final size:19
Alignment explanation
Indices: 24041504--24041547 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
24041494 GAGAACAAGA
* *
24041504 AGAAGAAGCTGTTGGAAAT
1 AGAAGAAGCTGCTGGAAAG
**
24041523 TCAAGAAGCTGCTGGAAAG
1 AGAAGAAGCTGCTGGAAAG
24041542 AGAAGA
1 AGAAGA
24041548 TATTTATAGC
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.43, C:0.09, G:0.32, T:0.16
Consensus pattern (19 bp):
AGAAGAAGCTGCTGGAAAG
Found at i:24050374 original size:12 final size:12
Alignment explanation
Indices: 24050357--24050382 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24050347 GGGCTGATTG
24050357 CCTCTACCTCGA
1 CCTCTACCTCGA
24050369 CCTCTACCTCGA
1 CCTCTACCTCGA
24050381 CC
1 CC
24050383 AACCATAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.54, G:0.08, T:0.23
Consensus pattern (12 bp):
CCTCTACCTCGA
Found at i:24053170 original size:216 final size:214
Alignment explanation
Indices: 24052934--24053455 Score: 669
Period size: 220 Copynumber: 2.4 Consensus size: 214
24052924 AATGGTATAA
* * * * * *
24052934 ATATATTACATATACATATATTTAATTTGTATATAAATATTACTATAATTTACAATAAACTTTAT
1 ATATATTATAAATACATATATTTAATTTATACATAAACATTACTATAACTTACAATAAACTTTAT
* * * *
24052999 TTATATGATCACATTTAATAACTTTATCAGTTATCACTTTAGATTTTATAATATATTGTTTATAA
66 TTATATGATTACATTTAATAACTTTATCAGTTATCACCTTAAATTTTATAACATATTGTTTATAA
* *
24053064 TTAGTTATTATTTATACAAACTTTGACATAAAACATTATAACATATAAGTTATATTATT-AATTT
131 TTAGTTATTATTTATACAAACTTTGACATAAAACATTATAACATATAAGTTATATCATTAAATAT
* *
24053128 CATATATATATATAATAAAG
196 -ATATAAATATATAACAAAG
* * *
24053148 TCATATATTATAAATACATATATTTAATTTATACATAAGCAATACTATAACTTACAATAGACTTT
1 --ATATATTATAAATACATATATTTAATTTATACATAAACATTACTATAACTTACAATAAACTTT
* *
24053213 GTTTATATGATTATATACATTTAATAACTTTATTAGTTATCACCTTAAATTTTATAACATATTGT
64 ATTTATATG---AT-TACATTTAATAACTTTATCAGTTATCACCTTAAATTTTATAACATATTGT
* * * * *
24053278 TTATAATTAGTTATTATTTATACGAACTTTGATATAAAACATTTTAACATATAATTTGTATCATT
125 TTATAATTAGTTATTATTTATACAAACTTTGACATAAAACATTATAACATATAAGTTATATCATT
24053343 AAATATATATAAATATATAACAAAG
190 AAATATATATAAATATATAACAAAG
* * *
24053368 A-A-A-TAT-ATTATATATATTTAATTTATACATAAACATTGCTATAACTT-CTAATAAACTTTA
1 ATATATTATAAATACATATATTTAATTTATACATAAACATTACTATAACTTAC-AATAAACTTTA
* *
24053428 TTTATATGATTGCATTTAATAAGTTTAT
65 TTTATATGATTACATTTAATAACTTTAT
24053456 TAGNNNNNNN
Statistics
Matches: 267, Mismatches: 33, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
210 16 0.06
211 2 0.01
213 1 0.00
214 53 0.20
215 3 0.01
216 63 0.24
217 1 0.00
218 1 0.00
219 2 0.01
220 121 0.45
221 4 0.01
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.45
Consensus pattern (214 bp):
ATATATTATAAATACATATATTTAATTTATACATAAACATTACTATAACTTACAATAAACTTTAT
TTATATGATTACATTTAATAACTTTATCAGTTATCACCTTAAATTTTATAACATATTGTTTATAA
TTAGTTATTATTTATACAAACTTTGACATAAAACATTATAACATATAAGTTATATCATTAAATAT
ATATAAATATATAACAAAG
Found at i:24053616 original size:2 final size:2
Alignment explanation
Indices: 24053609--24053638 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24053599 NNNNNNTTAC
24053609 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24053639 ATTATGGATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24054641 original size:19 final size:19
Alignment explanation
Indices: 24054617--24054662 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
24054607 GATGGTATCT
24054617 TTCACAAGGCCTAGGTGTC
1 TTCACAAGGCCTAGGTGTC
*
24054636 TTCACAATGCCTAGGTGTC
1 TTCACAAGGCCTAGGTGTC
*
24054655 TTTACAAG
1 TTCACAAG
24054663 ACCCTGTCGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (19 bp):
TTCACAAGGCCTAGGTGTC
Found at i:24055799 original size:41 final size:40
Alignment explanation
Indices: 24055754--24055831 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
24055744 AGGAGTGCTT
*
24055754 ATTTTTCTAGACTATTTTTTAAATTTTCTAAAAAGCAAAAG
1 ATTTTACT-GACTATTTTTTAAATTTTCTAAAAAGCAAAAG
* * * *
24055795 ATTTTAGTTACTCTTTTTTAAATTTTCTAAAGAGCAA
1 ATTTTACTGACTATTTTTTAAATTTTCTAAAAAGCAA
24055832 GATGTTTTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
40 26 0.81
41 6 0.19
ACGTcount: A:0.36, C:0.10, G:0.08, T:0.46
Consensus pattern (40 bp):
ATTTTACTGACTATTTTTTAAATTTTCTAAAAAGCAAAAG
Found at i:24055848 original size:38 final size:39
Alignment explanation
Indices: 24055768--24055848 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
24055758 TTCTAGACTA
*
24055768 TTTTTTAAATTTTCTAAAAAGCAAAAGATTTTAGTTACTC
1 TTTTTTAAATTTTCTAAAAAGCAAAAGATTTTAG-TAATC
* *
24055808 TTTTTTAAATTTTCTAAAGAGCAAGATG-TTTTAG-AATC
1 TTTTTTAAATTTTCTAAAAAGCAA-AAGATTTTAGTAATC
24055846 TTT
1 TTT
24055849 AACCTAACCC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 6 0.16
40 29 0.78
41 2 0.05
ACGTcount: A:0.35, C:0.09, G:0.10, T:0.47
Consensus pattern (39 bp):
TTTTTTAAATTTTCTAAAAAGCAAAAGATTTTAGTAATC
Found at i:24057917 original size:20 final size:20
Alignment explanation
Indices: 24057889--24057929 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
24057879 ATCAAATCAG
*
24057889 ACGAGTCACATAATGAAATA
1 ACGAATCACATAATGAAATA
24057909 ACGAATCACATAATGAAATA
1 ACGAATCACATAATGAAATA
24057929 A
1 A
24057930 TGAAAAATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.54, C:0.15, G:0.12, T:0.20
Consensus pattern (20 bp):
ACGAATCACATAATGAAATA
Found at i:24059020 original size:26 final size:27
Alignment explanation
Indices: 24058970--24059035 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
24058960 AAAATAAATA
* *
24058970 ATTTTATTAATTATTTTTTACTTTTAT
1 ATTTTATTAATTATTATATACTTTTAT
*
24058997 ATTTT-TTAATTATTATATATTTTTA-
1 ATTTTATTAATTATTATATACTTTTAT
* *
24059022 ATATAATTAATTAT
1 ATTTTATTAATTAT
24059036 ATTATAATTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
25 3 0.09
26 25 0.76
27 5 0.15
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (27 bp):
ATTTTATTAATTATTATATACTTTTAT
Found at i:24068181 original size:63 final size:63
Alignment explanation
Indices: 24068077--24068195 Score: 166
Period size: 63 Copynumber: 1.9 Consensus size: 63
24068067 AGCTCGTTAT
* * *
24068077 CTCTAAGCTCTCTGAATTGTATCAACTCTGTCAACTCTCTGTTAAGCACCATCGTCTTCAGCA
1 CTCTAAGCTCTCTGAACTATATCAACTCAGTCAACTCTCTGTTAAGCACCATCGTCTTCAGCA
* * * * *
24068140 CTCTCAGCTCTCTGAACTATATGAGCTCAGTCAACTCTCTGTTGAGCACGATCGTC
1 CTCTAAGCTCTCTGAACTATATCAACTCAGTCAACTCTCTGTTAAGCACCATCGTC
24068196 ATCGTGCTGT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 48 1.00
ACGTcount: A:0.23, C:0.30, G:0.15, T:0.32
Consensus pattern (63 bp):
CTCTAAGCTCTCTGAACTATATCAACTCAGTCAACTCTCTGTTAAGCACCATCGTCTTCAGCA
Found at i:24068482 original size:23 final size:22
Alignment explanation
Indices: 24068452--24068512 Score: 77
Period size: 22 Copynumber: 2.7 Consensus size: 22
24068442 ATTTTTATTT
24068452 AACATGGCGTGTAACACGTTGGG
1 AACATGGCGTGTAACA-GTTGGG
* * **
24068475 AACATGGCATGTAACATTTTTG
1 AACATGGCGTGTAACAGTTGGG
24068497 AACATGGCGTGTAACA
1 AACATGGCGTGTAACA
24068513 TTTTTTGAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
22 18 0.55
23 15 0.45
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (22 bp):
AACATGGCGTGTAACAGTTGGG
Found at i:24068521 original size:23 final size:23
Alignment explanation
Indices: 24068428--24068577 Score: 171
Period size: 23 Copynumber: 6.6 Consensus size: 23
24068418 ATGTGTTAGC
*
24068428 ACATGGCGTGTAACATTTTTATTTA
1 ACATGGCGTGTAACA-TTTT-TTGA
** **
24068453 ACATGGCGTGTAACACGTTGGGA
1 ACATGGCGTGTAACATTTTTTGA
*
24068476 ACATGGCATGTAACA-TTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
24068498 ACATGGCGTGTAACATTTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
24068521 AC-TTGCGTGTAATA-TTTTTGA
1 ACATGGCGTGTAACATTTTTTGA
* *
24068542 ACATGGTGTGTAACATTTTTTAA
1 ACATGGCGTGTAACATTTTTTGA
24068565 ACATGGCGTGTAA
1 ACATGGCGTGTAA
24068578 TAACATGAGT
Statistics
Matches: 105, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
21 9 0.09
22 37 0.35
23 42 0.40
24 2 0.02
25 15 0.14
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (23 bp):
ACATGGCGTGTAACATTTTTTGA
Found at i:24074826 original size:20 final size:20
Alignment explanation
Indices: 24074809--24074846 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
24074799 CCTCAAATCT
24074809 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
24074829 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
24074847 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:24075566 original size:31 final size:31
Alignment explanation
Indices: 24075532--24075755 Score: 179
Period size: 31 Copynumber: 7.3 Consensus size: 31
24075522 GGGTATTTCA
* *
24075532 CGTGACATTCTGAGTGGAAGCAAATTTATGA
1 CGTGACATTCTGAGTGGTAGCAAATTTATGG
* ** * * *
24075563 CGTGACATGCAAATTTGTTA-CAGATTTATGG
1 CGTGACATTCTGA-GTGGTAGCAAATTTATGG
* * *
24075594 CGTCACATGT-TGAGTGGTAGCAGATTCATGG
1 CGTGACAT-TCTGAGTGGTAGCAAATTTATGG
* ** *
24075625 GGTGACACGCTGAGTGGAAGCAAATTTATGG
1 CGTGACATTCTGAGTGGTAGCAAATTTATGG
* *
24075656 CGTGACACGT-TGAGTGGTAG-AAATTGATGG
1 CGTGACA-TTCTGAGTGGTAGCAAATTTATGG
** *
24075686 CGTGACACGCTTAGTGGTAGCAAATTTATGG
1 CGTGACATTCTGAGTGGTAGCAAATTTATGG
* *
24075717 GGTGACATGT-TGAGTGGTAGCAAATTGATGG
1 CGTGACAT-TCTGAGTGGTAGCAAATTTATGG
24075748 CGTGACAT
1 CGTGACAT
24075756 GTTAAGTGGT
Statistics
Matches: 148, Mismatches: 37, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
30 29 0.20
31 116 0.78
32 3 0.02
ACGTcount: A:0.27, C:0.13, G:0.31, T:0.29
Consensus pattern (31 bp):
CGTGACATTCTGAGTGGTAGCAAATTTATGG
Found at i:24075711 original size:61 final size:62
Alignment explanation
Indices: 24075586--24075754 Score: 259
Period size: 61 Copynumber: 2.7 Consensus size: 62
24075576 TTTGTTACAG
* * * *
24075586 ATTTATGGCGTCACATGTTGAGTGGTAGCAGATTCATGGGGTGACACGCTGAGTGGAAGCAA
1 ATTTATGGCGTGACATGTTGAGTGGTAGCAAATTGATGGCGTGACACGCTGAGTGGAAGCAA
* * *
24075648 ATTTATGGCGTGACACGTTGAGTGGTAG-AAATTGATGGCGTGACACGCTTAGTGGTAGCAA
1 ATTTATGGCGTGACATGTTGAGTGGTAGCAAATTGATGGCGTGACACGCTGAGTGGAAGCAA
*
24075709 ATTTATGGGGTGACATGTTGAGTGGTAGCAAATTGATGGCGTGACA
1 ATTTATGGCGTGACATGTTGAGTGGTAGCAAATTGATGGCGTGACA
24075755 TGTTAAGTGG
Statistics
Matches: 97, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
61 54 0.56
62 43 0.44
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (62 bp):
ATTTATGGCGTGACATGTTGAGTGGTAGCAAATTGATGGCGTGACACGCTGAGTGGAAGCAA
Found at i:24075756 original size:31 final size:31
Alignment explanation
Indices: 24075590--24075766 Score: 214
Period size: 31 Copynumber: 5.7 Consensus size: 31
24075580 TTACAGATTT
* * * *
24075590 ATGGCGTCACATGTTGAGTGGTAGCAGATTC
1 ATGGCGTGACACGTTGAGTGGTAGCAAATTG
* * * *
24075621 ATGGGGTGACACGCTGAGTGGAAGCAAATTT
1 ATGGCGTGACACGTTGAGTGGTAGCAAATTG
24075652 ATGGCGTGACACGTTGAGTGGTAG-AAATTG
1 ATGGCGTGACACGTTGAGTGGTAGCAAATTG
*
24075682 ATGGCGTGACACGCTT-AGTGGTAGCAAATTT
1 ATGGCGTGACACG-TTGAGTGGTAGCAAATTG
* *
24075713 ATGGGGTGACATGTTGAGTGGTAGCAAATTG
1 ATGGCGTGACACGTTGAGTGGTAGCAAATTG
* *
24075744 ATGGCGTGACATGTTAAGTGGTA
1 ATGGCGTGACACGTTGAGTGGTA
24075767 ACAGATTATC
Statistics
Matches: 126, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
30 28 0.22
31 98 0.78
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (31 bp):
ATGGCGTGACACGTTGAGTGGTAGCAAATTG
Found at i:24078750 original size:21 final size:21
Alignment explanation
Indices: 24078726--24078767 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
24078716 AGACAGAATG
24078726 CTCTTAGTTGACAAAGCGCCT
1 CTCTTAGTTGACAAAGCGCCT
* *
24078747 CTCTTAGTTGACTAAGTGCCT
1 CTCTTAGTTGACAAAGCGCCT
24078768 ACTGTCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.33
Consensus pattern (21 bp):
CTCTTAGTTGACAAAGCGCCT
Found at i:24084040 original size:73 final size:72
Alignment explanation
Indices: 24083890--24084086 Score: 181
Period size: 73 Copynumber: 2.7 Consensus size: 72
24083880 CAATTCAAAT
* * * *
24083890 TTTCTAGCAG-AATGCTCTTAGTCGACTAACTTATGTCTTAGTCAACTAAGTTGTCTTTGTTTTT
1 TTTCTAGCAGTAA-GCACTTAGTCGACTAACTTATTTCTTGGTCAACTAAGTTGTCTTTG-TTCT
** *
24083954 TGTTTCCAG
64 TGAGTCCAA
24083963 TTTCT-GACAGTAAGCACTTAGTCGACTAACTTATTTCTTGGTCAACTAAGTTGGT-TTTG-TCT
1 TTTCTAG-CAGTAAGCACTTAGTCGACTAACTTATTTCTTGGTCAACTAAGTT-GTCTTTGTTCT
24084025 TGAAGTCCATA
64 TG-AGTCCA-A
*** *
24084036 TTTCTAGCAGTAATTTCTT-GATCGACTAACTTA-TTCTTTGGTCGACTAAGT
1 TTTCTAGCAGTAAGCACTTAG-TCGACTAACTTATTTC-TTGGTCAACTAAGT
24084087 CTTTTTTGTC
Statistics
Matches: 105, Mismatches: 11, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
71 4 0.04
72 9 0.09
73 87 0.83
74 5 0.05
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.43
Consensus pattern (72 bp):
TTTCTAGCAGTAAGCACTTAGTCGACTAACTTATTTCTTGGTCAACTAAGTTGTCTTTGTTCTTG
AGTCCAA
Found at i:24085355 original size:36 final size:36
Alignment explanation
Indices: 24085303--24085412 Score: 202
Period size: 36 Copynumber: 3.1 Consensus size: 36
24085293 GTGACGACAT
*
24085303 TCTGGTTGAAGGGTCACATCCCCTGCCACAGCATCA
1 TCTGATTGAAGGGTCACATCCCCTGCCACAGCATCA
24085339 TCTGATTGAAGGGTCACATCCCCTGCCACAGCATCA
1 TCTGATTGAAGGGTCACATCCCCTGCCACAGCATCA
*
24085375 TCTGATTGAAGGGTCACATCCCCTGGCACAGCATCA
1 TCTGATTGAAGGGTCACATCCCCTGCCACAGCATCA
24085411 TC
1 TC
24085413 GAGAACGTTA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 72 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.23
Consensus pattern (36 bp):
TCTGATTGAAGGGTCACATCCCCTGCCACAGCATCA
Found at i:24087711 original size:31 final size:31
Alignment explanation
Indices: 24087670--24087822 Score: 155
Period size: 31 Copynumber: 4.7 Consensus size: 31
24087660 CTGAAGAAAG
* *
24087670 AAAT-AAATGTTGTTACATGCTATGCATATC
1 AAATAAAATGTTGTTACACGCCATGCATATC
*
24087700 AAATAAAATGTTTTTACACGCCATGCATATC
1 AAATAAAATGTTGTTACACGCCATGCATATC
* *
24087731 AAGTAAAATATTGTTACACGCCATGCACATCAAGTC
1 AAATAAAATGTTGTTACACGCCATG--CAT--A-TC
*
24087767 ACAAGTCAAATGTTGTTACACGCCATGCATATC
1 A-AA-TAAAATGTTGTTACACGCCATGCATATC
* * *
24087800 AAGTCAAATGTTGTTACATGCCA
1 AAATAAAATGTTGTTACACGCCA
24087823 ACGCTGAATA
Statistics
Matches: 104, Mismatches: 11, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
30 4 0.04
31 64 0.62
32 1 0.01
33 6 0.06
34 1 0.01
35 1 0.01
36 6 0.06
37 1 0.01
38 20 0.19
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.30
Consensus pattern (31 bp):
AAATAAAATGTTGTTACACGCCATGCATATC
Found at i:24087772 original size:38 final size:38
Alignment explanation
Indices: 24087730--24087805 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 38
24087720 CCATGCATAT
24087730 CAAGTAAAATATTGTTACACGCCATGCACATCAAGTCA
1 CAAGTAAAATATTGTTACACGCCATGCACATCAAGTCA
* * *
24087768 CAAGTCAAATGTTGTTACACGCCATGCATATCAAGTCA
1 CAAGTAAAATATTGTTACACGCCATGCACATCAAGTCA
24087806 AATGTTGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.37, C:0.24, G:0.14, T:0.25
Consensus pattern (38 bp):
CAAGTAAAATATTGTTACACGCCATGCACATCAAGTCA
Found at i:24088494 original size:23 final size:23
Alignment explanation
Indices: 24088468--24088515 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
24088458 TGGAGTGTTG
*
24088468 CATGCTCAACCCATGGCATGTCA
1 CATGCTCAACCCATGCCATGTCA
* *
24088491 CATGTTCAAGCCATGCCATGTCA
1 CATGCTCAACCCATGCCATGTCA
24088514 CA
1 CA
24088516 CGTTTTCACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.33, G:0.17, T:0.23
Consensus pattern (23 bp):
CATGCTCAACCCATGCCATGTCA
Found at i:24088686 original size:23 final size:23
Alignment explanation
Indices: 24088659--24088712 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
24088649 GAACCCTGCA
24088659 GTGTCACAAATTCCCTCCATGGC
1 GTGTCACAAATTCCCTCCATGGC
*
24088682 GTGTCACAGATTCCCTCCATGGC
1 GTGTCACAAATTCCCTCCATGGC
24088705 GTGTCACA
1 GTGTCACA
24088713 TACTCTAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.33, G:0.20, T:0.26
Consensus pattern (23 bp):
GTGTCACAAATTCCCTCCATGGC
Found at i:24088769 original size:23 final size:23
Alignment explanation
Indices: 24088741--24088845 Score: 68
Period size: 23 Copynumber: 4.5 Consensus size: 23
24088731 GTCACAACCA
*
24088741 TGTCACATATTCTCACCGTGCCG
1 TGTCACAAATTCTCACCGTGCCG
* * * * *
24088764 TTTCACACATTATCACCTTGTCG
1 TGTCACAAATTCTCACCGTGCCG
* * *
24088787 TGTCACAAATTCCCTCCATAG-CG
1 TGTCACAAATTCTCACCGT-GCCG
* *
24088810 TGTCACAAACTCTCAACCCTGCCG
1 TGTCACAAATTCTC-ACCGTGCCG
* *
24088834 TGCCACAGATTC
1 TGTCACAAATTC
24088846 CCTTCATGGC
Statistics
Matches: 61, Mismatches: 18, Indels: 5
0.73 0.21 0.06
Matches are distributed among these distances:
23 46 0.75
24 15 0.25
ACGTcount: A:0.23, C:0.35, G:0.13, T:0.29
Consensus pattern (23 bp):
TGTCACAAATTCTCACCGTGCCG
Found at i:24088776 original size:174 final size:174
Alignment explanation
Indices: 24088526--24088868 Score: 463
Period size: 174 Copynumber: 2.0 Consensus size: 174
24088516 CGTTTTCACT
* * * *
24088526 ATGGCGTGTCACACACTCTAAACTCTATCGTGTCACACCCGTGTCACATATTCTCAACGTGCCAT
1 ATGGCGTGTCACACACTCTAAACCCTATCCTGTCACAACCATGTCACATATTCTCAACGTGCCAT
* * * * *
24088591 TTCACACATTATCACCCTGCCATGTCA-AAGATTTCCTTCATGGCATGTCATAAACTCTGAACCC
66 TTCACACATTATCACCCTGCCATGTCACAA-ATTCCCTCCATAGCATGTCACAAACTCTCAACCC
* * *
24088655 TGCAGTGTCACAAATTCCCTCCATGGCGTGTCACAGATTCCCTCC
130 TGCAGTGCCACAAATTCCCTCCATGGCATGTCACAAATTCCCTCC
* * * *
24088700 ATGGCGTGTCACATACTCTAAACCCTGTCCTGTCACAACCATGTCACATATTCTCACCGTGCCGT
1 ATGGCGTGTCACACACTCTAAACCCTATCCTGTCACAACCATGTCACATATTCTCAACGTGCCAT
* * * *
24088765 TTCACACATTATCACCTTGTCGTGTCACAAATTCCCTCCATAGCGTGTCACAAACTCTCAACCCT
66 TTCACACATTATCACCCTGCCATGTCACAAATTCCCTCCATAGCATGTCACAAACTCTCAACCCT
* * *
24088830 GCCGTGCCACAGATTCCCTTCATGGCATGTCACAAATTC
131 GCAGTGCCACAAATTCCCTCCATGGCATGTCACAAATTC
24088869 TGAACAATGT
Statistics
Matches: 145, Mismatches: 23, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
174 143 0.99
175 2 0.01
ACGTcount: A:0.24, C:0.34, G:0.14, T:0.28
Consensus pattern (174 bp):
ATGGCGTGTCACACACTCTAAACCCTATCCTGTCACAACCATGTCACATATTCTCAACGTGCCAT
TTCACACATTATCACCCTGCCATGTCACAAATTCCCTCCATAGCATGTCACAAACTCTCAACCCT
GCAGTGCCACAAATTCCCTCCATGGCATGTCACAAATTCCCTCC
Found at i:24088933 original size:23 final size:23
Alignment explanation
Indices: 24088885--24088982 Score: 69
Period size: 23 Copynumber: 4.3 Consensus size: 23
24088875 ATGTCATGTT
* **
24088885 ACATATGCTCACCATATCGT-CTC
1 ACATATTCTCACCATGGCGTGC-C
24088908 ACATATTCTCACCATGGCGTGCC
1 ACATATTCTCACCATGGCGTGCC
* *
24088931 AC--ATTCTCA-CACTGGTGTGTC
1 ACATATTCTCACCA-TGGCGTGCC
* ** *
24088952 ATATATTCTCACCATGATGTGTC
1 ACATATTCTCACCATGGCGTGCC
24088975 ACATATTC
1 ACATATTC
24088983 CCTCTGAGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 10
0.77 0.10 0.12
Matches are distributed among these distances:
20 2 0.03
21 15 0.24
23 42 0.68
24 3 0.05
ACGTcount: A:0.24, C:0.30, G:0.13, T:0.33
Consensus pattern (23 bp):
ACATATTCTCACCATGGCGTGCC
Found at i:24088978 original size:44 final size:46
Alignment explanation
Indices: 24088901--24089028 Score: 129
Period size: 44 Copynumber: 2.8 Consensus size: 46
24088891 GCTCACCATA
* *
24088901 TCGTCTCACATATTCTCACCATGGCGTGCCACAT-TCTCACACTG-G
1 TCGTGTCACATATTCTCACCATGACGTGCCACATAT-TCACACTGAG
* * * * *
24088946 T-GTGTCATATATTCTCACCATGATGTGTCACATATTCCCTCTGAG
1 TCGTGTCACATATTCTCACCATGACGTGCCACATATTCACACTGAG
* *
24088991 TCGTGTCACATATTCTCACCCT-ACCGTGTCACATATTC
1 TCGTGTCACATATTCTCACCATGA-CGTGCCACATATTC
24089029 CTTCCATAGC
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
44 33 0.48
45 5 0.07
46 31 0.45
ACGTcount: A:0.21, C:0.31, G:0.14, T:0.34
Consensus pattern (46 bp):
TCGTGTCACATATTCTCACCATGACGTGCCACATATTCACACTGAG
Found at i:24089041 original size:23 final size:22
Alignment explanation
Indices: 24088970--24089042 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
24088960 TCACCATGAT
*
24088970 GTGTCACATATTCCCT-CTGAGTC
1 GTGTCACATATTCCTTCCT-AG-C
** *
24088993 GTGTCACATATTCTCACCCTACC
1 GTGTCACATATTC-CTTCCTAGC
24089016 GTGTCACATATTCCTTCCATAGC
1 GTGTCACATATTCCTTCC-TAGC
24089039 GTGT
1 GTGT
24089043 TACAAACTCT
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 3 0.07
23 34 0.83
24 2 0.05
25 2 0.05
ACGTcount: A:0.19, C:0.32, G:0.15, T:0.34
Consensus pattern (22 bp):
GTGTCACATATTCCTTCCTAGC
Found at i:24089042 original size:46 final size:48
Alignment explanation
Indices: 24088970--24089112 Score: 161
Period size: 47 Copynumber: 3.1 Consensus size: 48
24088960 TCACCATGAT
* * * *
24088970 GTGTCACATATTCCCT-C-TGAGTCGTGTCACATATTCT-CACCCTACC
1 GTGTCACATATTCCCTCCAT-AGCCGTGTCACAAACTCTAAACCCTACC
* * *
24089016 GTGTCACATATTCCTTCCATAG-CGTGTTACAAACTCTAAACCCTGCC
1 GTGTCACATATTCCCTCCATAGCCGTGTCACAAACTCTAAACCCTACC
* *
24089063 GTGTCACACATTCCCACCAT-GCCGTGTCACAAACTCTAAACCCTACC
1 GTGTCACATATTCCCTCCATAGCCGTGTCACAAACTCTAAACCCTACC
24089110 GTG
1 GTG
24089113 ACATAGCCGT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
46 28 0.34
47 53 0.65
48 1 0.01
ACGTcount: A:0.24, C:0.35, G:0.13, T:0.28
Consensus pattern (48 bp):
GTGTCACATATTCCCTCCATAGCCGTGTCACAAACTCTAAACCCTACC
Found at i:24091930 original size:30 final size:30
Alignment explanation
Indices: 24091906--24091973 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
24091896 AAAATTTATT
*
24091906 TAATTTAGTAATTTATTATTAAAATATTAA
1 TAATTTAATAATTTATTATTAAAATATTAA
* * *
24091936 TAATTTAATATTTTATTTTTGAAAAGATTAA
1 TAATTTAATAATTTATTATT-AAAATATTAA
24091967 TAATTTA
1 TAATTTA
24091974 CTATTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TAATTTAATAATTTATTATTAAAATATTAA
Found at i:24091969 original size:31 final size:30
Alignment explanation
Indices: 24091906--24091978 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 30
24091896 AAAATTTATT
* * *
24091906 TAATTTAGTAATTTATTATTAAAATATTAA
1 TAATTTAATATTTTATTATTAAAAGATTAA
*
24091936 TAATTTAATATTTTATTTTTGAAAAGATTAA
1 TAATTTAATATTTTATTATT-AAAAGATTAA
*
24091967 TAATTTACTATT
1 TAATTTAATATT
24091979 AAATATTAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 17 0.46
31 20 0.54
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.52
Consensus pattern (30 bp):
TAATTTAATATTTTATTATTAAAAGATTAA
Found at i:24091988 original size:21 final size:21
Alignment explanation
Indices: 24091962--24092002 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
24091952 TTTTGAAAAG
*
24091962 ATTAATAATTTACTATTAAAT
1 ATTAATAATTTAATATTAAAT
24091983 ATTAATAATTTAATATTAAA
1 ATTAATAATTTAATATTAAA
24092003 AAATTAAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
ATTAATAATTTAATATTAAAT
Found at i:24092318 original size:84 final size:86
Alignment explanation
Indices: 24092141--24092338 Score: 242
Period size: 84 Copynumber: 2.3 Consensus size: 86
24092131 TAATTTAATA
* * * * * ** *
24092141 ATAAATATTTATAACATATTTTTACTTTTTTTCTCTTTCAATTTCTTTTTTAAAGTATTGCAAGT
1 ATAAATATTAATAATATATTTTTAC-TTTTTTATCTTTCAA-TTCTTTTTAAAAATATTAAAACT
*
24092206 ATATTTAATTTAACAATTTATTG
64 ATATTTAATTTAACAATATATTG
* *
24092229 ATAAATATTAATAATTTATTATTACTTTTTTATCTTTCAA-T-TTTTTAAAAATATTAAAACTAT
1 ATAAATATTAATAATATATTTTTACTTTTTTATCTTTCAATTCTTTTTAAAAATATTAAAACTAT
24092292 ATTTAATTTAACAATATATT-
66 ATTTAATTTAACAATATATTG
*
24092312 ATTAA-ATTAATAATATATTTTTACTTT
1 ATAAATATTAATAATATATTTTTACTTT
24092339 AATTTCTTTT
Statistics
Matches: 96, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
82 20 0.21
83 4 0.04
84 36 0.38
85 1 0.01
87 14 0.15
88 21 0.22
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.54
Consensus pattern (86 bp):
ATAAATATTAATAATATATTTTTACTTTTTTATCTTTCAATTCTTTTTAAAAATATTAAAACTAT
ATTTAATTTAACAATATATTG
Found at i:24092340 original size:19 final size:19
Alignment explanation
Indices: 24092293--24092341 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
24092283 TAAAACTATA
*
24092293 TTTAATTTAACAATATATT
1 TTTAATTTAATAATATATT
* *
24092312 ATTAAATTAATAATATATT
1 TTTAATTTAATAATATATT
*
24092331 TTTACTTTAAT
1 TTTAATTTAAT
24092342 TTCTTTTTTT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTAATTTAATAATATATT
Found at i:24096157 original size:15 final size:15
Alignment explanation
Indices: 24096115--24096161 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
24096105 TTTAAAGATC
*
24096115 AAAGATTTTGGTTTT
1 AAAGATTTTGATTTT
* *
24096130 AAAGCTTTGGATTTT
1 AAAGATTTTGATTTT
*
24096145 AAAGTTTTTGATTTT
1 AAAGATTTTGATTTT
24096160 AA
1 AA
24096162 GGTTGTTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.30, C:0.02, G:0.17, T:0.51
Consensus pattern (15 bp):
AAAGATTTTGATTTT
Found at i:24100376 original size:19 final size:20
Alignment explanation
Indices: 24100349--24100394 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
24100339 AGGAGACAAG
*
24100349 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
24100368 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
24100387 ATAATATT
1 ATAATATT
24100395 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:24105189 original size:31 final size:29
Alignment explanation
Indices: 24105111--24105177 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
24105101 CCTTTATTTC
*
24105111 ACTCTCTCTTCTCTCTCCTACCGGCGGCT
1 ACTCTCTCTTCTCTCTCCTACCGGCAGCT
*
24105140 ACTCTCTCTCCTCTCTCCTACCGGCAGCT
1 ACTCTCTCTTCTCTCTCCTACCGGCAGCT
24105169 ACTCTCTCT
1 ACTCTCTCT
24105178 ATCTATGCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.09, C:0.46, G:0.10, T:0.34
Consensus pattern (29 bp):
ACTCTCTCTTCTCTCTCCTACCGGCAGCT
Found at i:24105547 original size:10 final size:10
Alignment explanation
Indices: 24105518--24105547 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
24105508 CCTGCCAATA
24105518 CTTTTTTTTT
1 CTTTTTTTTT
*
24105528 CTTTTCTTTT
1 CTTTTTTTTT
24105538 CTTTTTTTTT
1 CTTTTTTTTT
24105548 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (10 bp):
CTTTTTTTTT
Found at i:24105915 original size:1 final size:1
Alignment explanation
Indices: 24105909--24105980 Score: 108
Period size: 1 Copynumber: 72.0 Consensus size: 1
24105899 CTTACCAAAG
* * * *
24105909 TTTTTTTTTTCTTTTTTTTTCTTTGTTGTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
24105974 TTTTTTT
1 TTTTTTT
24105981 NNNNNNNNNN
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.00, C:0.03, G:0.03, T:0.94
Consensus pattern (1 bp):
T
Found at i:24107455 original size:81 final size:81
Alignment explanation
Indices: 24107311--24107462 Score: 205
Period size: 81 Copynumber: 1.9 Consensus size: 81
24107301 TAAATTCCCA
* * * **
24107311 TCTTTGCTTTAGACTACCTTTTTGGCTTTTCACCCTAGACCTTCATCTTTTTCACTCACTTTTTT
1 TCTTCGCTCTAGACTACCTTTTCGGCTTTTCACCCTAGACCTTCATCTTTCACACTCACTTTTTT
24107376 TTCTTTCTTTTTTTCG
66 TTCTTTCTTTTTTTCG
* * * * **
24107392 TCTTCGCTCTAGACTGCCTTTTCGGGTTTTTACCCTAGAGCTTCATCTTTCACACTTGCTTTTTT
1 TCTTCGCTCTAGACTACCTTTTCGGCTTTTCACCCTAGACCTTCATCTTTCACACTCACTTTTTT
24107457 TTCTTT
66 TTCTTT
24107463 TTCCTTTTTT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 60 1.00
ACGTcount: A:0.11, C:0.26, G:0.10, T:0.53
Consensus pattern (81 bp):
TCTTCGCTCTAGACTACCTTTTCGGCTTTTCACCCTAGACCTTCATCTTTCACACTCACTTTTTT
TTCTTTCTTTTTTTCG
Found at i:24112403 original size:555 final size:553
Alignment explanation
Indices: 24111353--24112460 Score: 2198
Period size: 555 Copynumber: 2.0 Consensus size: 553
24111343 GCCTTTTCAA
24111353 GGGCAATTGGCTCTGTCTTTGCAAACCTAATGATCCATCGAAAGACCTTTCCTCTTTACTAGTAA
1 GGGCAATTGGCTCTGTCTTTGCAAACCTAATGATCCATCGAAAGACCTTTCCTCTTTACTAGTAA
24111418 TCATCTCCATTAACCTTTCTAATTGTTCCTTTATCTCGTCCTGACGTTTCTCTATCTTGTCCATT
66 TCATCTCCATTAACCTTTCTAATTGTTCCTTTATCTCGTCCTGACGTTTCTCTATCTTGTCCATT
24111483 CGTCTTGACTGCTCATCTCCCATGATTCTAATTTGAGTCCACGTATCACACAAACAGCCAAAGGG
131 CGTCTTGACTGCTCATCTCCCATGATTCTAATTTGAGTCCACGTATCACACAAACAGCCAAAGGG
24111548 CTTTCTCAAGCTTTTATCTTTTTACCAAAATGAAAACAAATTAGATTGAGTGATAAGTTCTTCCT
196 CTTTCTCAAGCTTTTATCTTTTTACCAAAATGAAAACAAATTAGATTGAGTGATAAGTTCTTCCT
24111613 TACTAGAGATCTTCCTAAATGTACTCCTTTTTTATACAAAACTTGGAAAAAGATTTTTTATTCCA
261 TACTAGAGATCTTCCTAAATGTACTCCTTTTTTATACAAAACTTGGAAAAAGATTTTTTATTCCA
24111678 TGAAACCAATGACATTGTTGCCTCTTCTTTCATTGTATGTAGCAAAGTCAAATGACAGTACTTAC
326 TGAAACCAATGACATTGTTGCCTCTTCTTTCATTGTATGTAGCAAAGTCAAATGACAGTACTTAC
24111743 AAAAAAGTGGATGAATGATAAACGCATGGCTGTCAAAATCAATGGATGTTTAAATGCATGACAAG
391 AAAAAAGTGGATGAATGATAAACGCATGGCTGTCAAAATCAATGGATGTTTAAATGCATGACAAG
24111808 ATGACTTATGAGTCAATAGATGGTGAATGATTTGGGGCACTTTTTATGCATGATGAGATTACAAC
456 ATGACTTATGAGTCAATAGATGGTGAATGATTTGGGGCACTTTTTATGCATGATGAGATTACAAC
24111873 AAAATACTAAGTTGTGTAAAACATTTATTTTTTT
521 AAAAT-CTAAGTTGTGTAAAACATTTATTTTTTT
24111907 NGGGCAATTGGCTCTGTCTTTGCAAACCTAATGATCCATCGAAAGACCTTTCCTCTTTACTAGTA
1 -GGGCAATTGGCTCTGTCTTTGCAAACCTAATGATCCATCGAAAGACCTTTCCTCTTTACTAGTA
24111972 ATCATCTCCATTAACCTTTCTAATTGTTCCTTTATCTCGTCCTGACGTTTCTCTATCTTGTCCAT
65 ATCATCTCCATTAACCTTTCTAATTGTTCCTTTATCTCGTCCTGACGTTTCTCTATCTTGTCCAT
24112037 TCGTCTTGACTGCTCATCTCCCATGATTCTAATTTGAGTCCACGTATCACACAAACAGCCAAAGG
130 TCGTCTTGACTGCTCATCTCCCATGATTCTAATTTGAGTCCACGTATCACACAAACAGCCAAAGG
24112102 GCTTTCTCAAGCTTTTATCTTTTTACCAAAATGAAAACAAATTAGATTGAGTGATAAGTTCTTCC
195 GCTTTCTCAAGCTTTTATCTTTTTACCAAAATGAAAACAAATTAGATTGAGTGATAAGTTCTTCC
24112167 TTACTAGAGATCTTCCTAAATGTACTCCTTTTTTATACAAAACTTGGAAAAAGATTTTTTATTCC
260 TTACTAGAGATCTTCCTAAATGTACTCCTTTTTTATACAAAACTTGGAAAAAGATTTTTTATTCC
24112232 ATGAAACCAATGACATTGTTGCCTCTTCTTTCATTGTATGTAGCAAAGTCAAATGACAGTACTTA
325 ATGAAACCAATGACATTGTTGCCTCTTCTTTCATTGTATGTAGCAAAGTCAAATGACAGTACTTA
24112297 CAAAAAAGTGGATGAATGATAAACGCATGGCTGTCAAAATCAATGGATGTTTAAATGCATGACAA
390 CAAAAAAGTGGATGAATGATAAACGCATGGCTGTCAAAATCAATGGATGTTTAAATGCATGACAA
24112362 GATGACTTATGAGTCAATAGATGGTGAATGATTTGGGGCACTTTTTATGCATGATGAGATTACAA
455 GATGACTTATGAGTCAATAGATGGTGAATGATTTGGGGCACTTTTTATGCATGATGAGATTACAA
24112427 CAAAATCTAAGTTGTGTAAAACATTTATTTTTTT
520 CAAAATCTAAGTTGTGTAAAACATTTATTTTTTT
24112461 CATTAATCAT
Statistics
Matches: 553, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
554 28 0.05
555 525 0.95
ACGTcount: A:0.30, C:0.19, G:0.15, T:0.35
Consensus pattern (553 bp):
GGGCAATTGGCTCTGTCTTTGCAAACCTAATGATCCATCGAAAGACCTTTCCTCTTTACTAGTAA
TCATCTCCATTAACCTTTCTAATTGTTCCTTTATCTCGTCCTGACGTTTCTCTATCTTGTCCATT
CGTCTTGACTGCTCATCTCCCATGATTCTAATTTGAGTCCACGTATCACACAAACAGCCAAAGGG
CTTTCTCAAGCTTTTATCTTTTTACCAAAATGAAAACAAATTAGATTGAGTGATAAGTTCTTCCT
TACTAGAGATCTTCCTAAATGTACTCCTTTTTTATACAAAACTTGGAAAAAGATTTTTTATTCCA
TGAAACCAATGACATTGTTGCCTCTTCTTTCATTGTATGTAGCAAAGTCAAATGACAGTACTTAC
AAAAAAGTGGATGAATGATAAACGCATGGCTGTCAAAATCAATGGATGTTTAAATGCATGACAAG
ATGACTTATGAGTCAATAGATGGTGAATGATTTGGGGCACTTTTTATGCATGATGAGATTACAAC
AAAATCTAAGTTGTGTAAAACATTTATTTTTTT
Found at i:24117286 original size:10 final size:10
Alignment explanation
Indices: 24117271--24117314 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
24117261 NNNNNNNNAC
24117271 TTTTTTATTT
1 TTTTTTATTT
*
24117281 TTTTTTCTTT
1 TTTTTTATTT
* *
24117291 TCTTTTCTTT
1 TTTTTTATTT
24117301 TTCTTTTATTT
1 TT-TTTTATTT
24117312 TTT
1 TTT
24117315 GTTTGTTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.05, C:0.09, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTATTT
Found at i:24117296 original size:11 final size:11
Alignment explanation
Indices: 24117273--24117313 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
24117263 NNNNNNACTT
24117273 TTTTATTTTT-
1 TTTTATTTTTC
*
24117283 TTTT-CTTTTC
1 TTTTATTTTTC
*
24117293 TTTTCTTTTTC
1 TTTTATTTTTC
24117304 TTTTATTTTT
1 TTTTATTTTT
24117314 TGTTTGTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
9 4 0.15
10 8 0.31
11 14 0.54
ACGTcount: A:0.05, C:0.10, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTATTTTTC
Found at i:24117301 original size:16 final size:15
Alignment explanation
Indices: 24117273--24117324 Score: 68
Period size: 16 Copynumber: 3.3 Consensus size: 15
24117263 NNNNNNACTT
24117273 TTTTATTTTTTTTTC
1 TTTTATTTTTTTTTC
*
24117288 TTTTCTTTTCTTTTTC
1 TTTTATTTT-TTTTTC
*
24117304 TTTTATTTTTTGTTTG
1 TTTTATTTTTT-TTTC
24117320 TTTTA
1 TTTTA
24117325 ATATTAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 10 0.31
16 22 0.69
ACGTcount: A:0.06, C:0.08, G:0.04, T:0.83
Consensus pattern (15 bp):
TTTTATTTTTTTTTC
Found at i:24129450 original size:24 final size:24
Alignment explanation
Indices: 24129423--24129488 Score: 69
Period size: 24 Copynumber: 2.8 Consensus size: 24
24129413 CTAAATCCAT
** *
24129423 AACAACCAAAATGTCAAATATTCA
1 AACAACCAAAACCTCAAATATACA
* *
24129447 AACAACAAAAACCTTAAATATACA
1 AACAACCAAAACCTCAAATATACA
* *
24129471 AACAATCAAAACCACAAA
1 AACAACCAAAACCTCAAA
24129489 AACCACAAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.61, C:0.23, G:0.02, T:0.15
Consensus pattern (24 bp):
AACAACCAAAACCTCAAATATACA
Found at i:24145016 original size:19 final size:19
Alignment explanation
Indices: 24144972--24145007 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
24144962 CACACACATT
24144972 TACATAT-GTATATATATA
1 TACATATAGTATATATATA
*
24144990 TATATATAGTATATATAT
1 TACATATAGTATATATAT
24145008 GTACGTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TACATATAGTATATATATA
Found at i:24145066 original size:20 final size:20
Alignment explanation
Indices: 24145024--24145086 Score: 92
Period size: 20 Copynumber: 3.2 Consensus size: 20
24145014 ATATACCCAT
* *
24145024 CATCATCATC-TCACTAACC
1 CATCATCATCATCACCAGCC
*
24145043 CATCATCATCATCACCAGCT
1 CATCATCATCATCACCAGCC
24145063 CATCATCATCATCACCAGCC
1 CATCATCATCATCACCAGCC
24145083 CATC
1 CATC
24145087 GCACTCCCTA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 10 0.26
20 29 0.74
ACGTcount: A:0.30, C:0.43, G:0.03, T:0.24
Consensus pattern (20 bp):
CATCATCATCATCACCAGCC
Found at i:24145136 original size:43 final size:43
Alignment explanation
Indices: 24145086--24145244 Score: 203
Period size: 43 Copynumber: 3.7 Consensus size: 43
24145076 ACCAGCCCAT
** *
24145086 CGCACTCCCTACTCGCACATTGCTGGGTCATCACCGGGTTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTTATG
* *
24145129 CGCACTCCCTACCCACACATAACCGGGTCATCACCGGGTTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTTATG
* * * *
24145172 CGTACTCCTTACTCGCACATAACCAGGTCATC-CTCGGCTTATG
1 CGCACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTTATG
* *
24145215 CGCACTCCCTACTCGCACATAGCCGAGTCA
1 CGCACTCCCTACTCGCACATAACCGGGTCA
24145245 ACATAATTAC
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
42 1 0.01
43 98 0.99
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.23
Consensus pattern (43 bp):
CGCACTCCCTACTCGCACATAACCGGGTCATCACCGGGTTATG
Found at i:24154833 original size:42 final size:42
Alignment explanation
Indices: 24154786--24154875 Score: 144
Period size: 42 Copynumber: 2.1 Consensus size: 42
24154776 AACCTCGACC
* *
24154786 CTTTACAATAAAATCATGGGAAGTGGACAAGTACTCAATCCA
1 CTTTACAACAAAATCATGGGAAGTGGACAACTACTCAATCCA
* *
24154828 CTTTACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCA
1 CTTTACAACAAAATCATGGGAAGTGGACAACTACTCAATCCA
24154870 CTTTAC
1 CTTTAC
24154876 CACTCAACCC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (42 bp):
CTTTACAACAAAATCATGGGAAGTGGACAACTACTCAATCCA
Found at i:24154882 original size:17 final size:17
Alignment explanation
Indices: 24154860--24154895 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
24154850 GTGGAGACCT
*
24154860 ACTCAATCCACTTTACC
1 ACTCAACCCACTTTACC
24154877 ACTCAACCCACTTTACC
1 ACTCAACCCACTTTACC
24154894 AC
1 AC
24154896 AAATCATGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.44, G:0.00, T:0.25
Consensus pattern (17 bp):
ACTCAACCCACTTTACC
Found at i:24154923 original size:58 final size:59
Alignment explanation
Indices: 24154818--24154933 Score: 162
Period size: 58 Copynumber: 2.0 Consensus size: 59
24154808 GTGGACAAGT
* * * *
24154818 ACTCAATCCACTTTACAACAAAATCATGGGAAGTGGAGACCTACTCAATCCACTTTACC
1 ACTCAACCCACTTTACAACAAAATCATGAGAAGAGGAGACATACTCAATCCACTTTACC
* * *
24154877 ACTCAACCCACTTTACCAC-AAATCATGAGAAGAGGAGATATACTCAATCCATTTTAC
1 ACTCAACCCACTTTACAACAAAATCATGAGAAGAGGAGACATACTCAATCCACTTTAC
24154934 AACAAAATCA
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
58 33 0.66
59 17 0.34
ACGTcount: A:0.37, C:0.28, G:0.11, T:0.24
Consensus pattern (59 bp):
ACTCAACCCACTTTACAACAAAATCATGAGAAGAGGAGACATACTCAATCCACTTTACC
Found at i:24154966 original size:43 final size:44
Alignment explanation
Indices: 24154932--24155017 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
24154922 AATCCATTTT
24154932 ACAACA-AAATCATGGAAATGTGGAGACCTTCTCAATCCACATC
1 ACAACACAAATCATGGAAATGTGGAGACCTTCTCAATCCACATC
** * * *
24154975 ACAACACTCATCATGGGAATGTGGAGACTTTCTTAATCCACAT
1 ACAACACAAATCATGGAAATGTGGAGACCTTCTCAATCCACAT
24155018 TTATAGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
43 6 0.16
44 31 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (44 bp):
ACAACACAAATCATGGAAATGTGGAGACCTTCTCAATCCACATC
Found at i:24155736 original size:105 final size:104
Alignment explanation
Indices: 24155606--24155815 Score: 366
Period size: 105 Copynumber: 2.0 Consensus size: 104
24155596 TGGGCGAGCT
* * * *
24155606 ATAGCTAGTGAGAAATCCACCTAAATCCTCTAGTTCATAGACATCAATAATTTTGGAACAATAAA
1 ATAGCAAGTGAGAAATCCACCTAAATCCACTAGTTCACAAACATCAATAATTTTGGAACAATAAA
*
24155671 CCATATTTTTAGAATAAAAAATCTAAGGTTTAAAGATTC
66 CCATATTTTCAGAATAAAAAATCTAAGGTTTAAAGATTC
24155710 ATAGCAAGTGAGAAAATCCACCTAAATCCACTAGTTCACAAACATCAATAATTTTGGAACAATAA
1 ATAGCAAGTGAG-AAATCCACCTAAATCCACTAGTTCACAAACATCAATAATTTTGGAACAATAA
24155775 ACCATATTTTCAGAATAAAAAATCTAAGGTTTAAAGATTC
65 ACCATATTTTCAGAATAAAAAATCTAAGGTTTAAAGATTC
24155815 A
1 A
24155816 AGAGTGGAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
104 11 0.11
105 89 0.89
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.29
Consensus pattern (104 bp):
ATAGCAAGTGAGAAATCCACCTAAATCCACTAGTTCACAAACATCAATAATTTTGGAACAATAAA
CCATATTTTCAGAATAAAAAATCTAAGGTTTAAAGATTC
Found at i:24158738 original size:20 final size:20
Alignment explanation
Indices: 24158713--24158756 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
24158703 TAGAAGAATA
*
24158713 AAAATATATTTAA-ATTTTTT
1 AAAATA-ATTTAAGAGTTTTT
24158733 AAAATAATTTAAGAGTTTTT
1 AAAATAATTTAAGAGTTTTT
24158753 AAAA
1 AAAA
24158757 GTGTCGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (20 bp):
AAAATAATTTAAGAGTTTTT
Found at i:24160340 original size:2 final size:2
Alignment explanation
Indices: 24160252--24160324 Score: 87
Period size: 2 Copynumber: 37.0 Consensus size: 2
24160242 TATACAAATT
** * *
24160252 TA TA TA TA TA TA TA TA T- TA TA TA TA TA CC T- TA GNA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
24160293 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24160325 GATGTAGGTA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
1 2 0.03
2 59 0.95
3 1 0.02
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.47
Consensus pattern (2 bp):
TA
Done.