Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 206 of 211
Found at i:63815139 original size:50 final size:50
Alignment explanation
Indices: 63815015--63815263 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
63815005 ATAATAAACA
* * ** * *
63815015 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
63815066 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
63815116 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
63815166 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
63815221 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
63815264 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:63815193 original size:100 final size:104
Alignment explanation
Indices: 63815014--63815263 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
63815004 GATAATAAAC
**
63815014 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
63815079 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
63815116 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
63815179 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
63815221 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
63815264 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:63815379 original size:13 final size:13
Alignment explanation
Indices: 63815358--63815389 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
63815348 GCTTGGATCA
*
63815358 TCATCAAATAAAT
1 TCATAAAATAAAT
63815371 TCATAAAATAAAT
1 TCATAAAATAAAT
63815384 TCATAA
1 TCATAA
63815390 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:63815883 original size:13 final size:13
Alignment explanation
Indices: 63815865--63815890 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63815855 GCCCAAACGT
63815865 CGAAATTTTCAAA
1 CGAAATTTTCAAA
63815878 CGAAATTTTCAAA
1 CGAAATTTTCAAA
63815891 AAATCATTTT
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:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:63816156 original size:40 final size:39
Alignment explanation
Indices: 63816046--63816177 Score: 124
Period size: 40 Copynumber: 3.4 Consensus size: 39
63816036 GACTTCGAAT
* * *
63816046 CGATAAGACACTGGGTGTCAAATTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAAATTA-TACTTCGG-TTTATC
* * * *
63816087 CGATGAGGCATTGGGTG-CCAATT-TACTTCGGTTTAGC
1 CGATGAGACACTGGGTGTCAAATTATACTTCGGTTTATC
* **
63816124 CGATGAGACACTAGGTGTCAAATTAATACTTCGAATTATC
1 CGATGAGACACTGGGTGTCAAATT-ATACTTCGGTTTATC
*
63816164 CGATGAGGCACTGG
1 CGATGAGACACTGG
63816178 TTGCCAAACT
Statistics
Matches: 72, Mismatches: 16, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
37 17 0.24
38 13 0.18
40 28 0.39
41 14 0.19
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.30
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATTATACTTCGGTTTATC
Found at i:63816553 original size:17 final size:17
Alignment explanation
Indices: 63816510--63816554 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
63816500 GTAAATTTTA
* *
63816510 AATATTTTATTGTGCTT
1 AATATATTATTGTGCCT
*
63816527 AATATTTTATTGTGCCT
1 AATATATTATTGTGCCT
*
63816544 ATTATATTATT
1 AATATATTATT
63816555 TTGTCTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.27, C:0.07, G:0.09, T:0.58
Consensus pattern (17 bp):
AATATATTATTGTGCCT
Found at i:63820111 original size:16 final size:15
Alignment explanation
Indices: 63820090--63820124 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
63820080 ATCTTTCTTA
*
63820090 TTTATATTATTTATTT
1 TTTATATTATAT-TTT
63820106 TTTATATTATATTTT
1 TTTATATTATATTTT
63820121 TTTA
1 TTTA
63820125 GTCTTGGGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTATATTATATTTT
Found at i:63822759 original size:29 final size:30
Alignment explanation
Indices: 63822712--63822771 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 30
63822702 GGACTCTTGG
*
63822712 AATTTAGTTTTTATATTTTTA-TTTTTAAA
1 AATTTAGTTTTTATATTTTTAGATTTTAAA
*
63822741 AATTTAG-TTTTATGGTTTTTAGATTTTAAA
1 AATTTAGTTTTTAT-ATTTTTAGATTTTAAA
63822771 A
1 A
63822772 TTGAGGTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 6 0.22
29 13 0.48
30 8 0.30
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (30 bp):
AATTTAGTTTTTATATTTTTAGATTTTAAA
Found at i:63828244 original size:7 final size:7
Alignment explanation
Indices: 63828232--63828266 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
63828222 AACTATGGAT
63828232 TTAAACC
1 TTAAACC
63828239 TTAAACC
1 TTAAACC
*
63828246 CTAAACC
1 TTAAACC
*
63828253 CTAAACC
1 TTAAACC
63828260 TTAAACC
1 TTAAACC
63828267 AGAATCAATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.43, C:0.34, G:0.00, T:0.23
Consensus pattern (7 bp):
TTAAACC
Found at i:63835028 original size:18 final size:19
Alignment explanation
Indices: 63834993--63835035 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
63834983 TTTAGTTTAG
63834993 TTTTAATATTTAAATTTGA
1 TTTTAATATTTAAATTTGA
*
63835012 TTTTAATGTTT-AATTTGA
1 TTTTAATATTTAAATTTGA
63835030 TATTTA
1 T-TTTA
63835036 GACTAAACAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (19 bp):
TTTTAATATTTAAATTTGA
Found at i:63835203 original size:24 final size:25
Alignment explanation
Indices: 63835171--63835223 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
63835161 TTAAATGAGA
* *
63835171 TGAAGAAAA-ACTCAAGCATCAAAT
1 TGAAAAAAATACTCAAGCACCAAAT
*
63835195 TGAAAAAAATACTCAAGCACCTAAT
1 TGAAAAAAATACTCAAGCACCAAAT
63835220 TGAA
1 TGAA
63835224 CATTGAAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 8 0.32
25 17 0.68
ACGTcount: A:0.53, C:0.17, G:0.11, T:0.19
Consensus pattern (25 bp):
TGAAAAAAATACTCAAGCACCAAAT
Found at i:63838872 original size:18 final size:17
Alignment explanation
Indices: 63838845--63838878 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
63838835 CCCTTAATAA
63838845 ATTTTATGAATCTTTTAT
1 ATTTTATGAAT-TTTTAT
*
63838863 ATTTTTTGAATTTTTA
1 ATTTTATGAATTTTTA
63838879 CTTTTTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (17 bp):
ATTTTATGAATTTTTAT
Found at i:63840197 original size:19 final size:21
Alignment explanation
Indices: 63840157--63840202 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
63840147 ATGTATGGTT
63840157 TATAAAATTTTGTATATGATA
1 TATAAAATTTTGTATATGATA
63840178 TATAAAATTATT-TAT-T-ATA
1 TATAAAATT-TTGTATATGATA
63840197 TATAAA
1 TATAAA
63840203 TAAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 9 0.38
20 1 0.04
21 12 0.50
22 2 0.08
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (21 bp):
TATAAAATTTTGTATATGATA
Found at i:63840841 original size:18 final size:18
Alignment explanation
Indices: 63840818--63840854 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
63840808 TAACATAGTG
63840818 CAATTGTTTTATACAATT
1 CAATTGTTTTATACAATT
63840836 CAATTGTTTTATACAATT
1 CAATTGTTTTATACAATT
63840854 C
1 C
63840855 GTCTCAAGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.14, G:0.05, T:0.49
Consensus pattern (18 bp):
CAATTGTTTTATACAATT
Found at i:63858877 original size:25 final size:25
Alignment explanation
Indices: 63858849--63858899 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
63858839 GTTTAGTTAT
*
63858849 AAAACT-TAAATACATAAATTTAAAA
1 AAAACTATAAAT-CATAAAATTAAAA
* *
63858874 AAAATTATAAATCCTAAAATTAAAA
1 AAAACTATAAATCATAAAATTAAAA
63858899 A
1 A
63858900 TTTGGAATAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAACTATAAATCATAAAATTAAAA
Found at i:63862451 original size:56 final size:57
Alignment explanation
Indices: 63862375--63862481 Score: 153
Period size: 56 Copynumber: 1.9 Consensus size: 57
63862365 ATAAATCAGC
* **
63862375 TCATAACTAAGTTCAAATGCAATAGCAT-CTAAGTACCATCATGCAATAAAACATCT
1 TCATAACTAAGTTCAAATGCAATAGCATCCTAAGAACCATCACCCAATAAAACATCT
* * *
63862431 TCATGACTCAGTTCAAATGCAATAGCTTCCTAAGAACCATCACCCAATAAA
1 TCATAACTAAGTTCAAATGCAATAGCATCCTAAGAACCATCACCCAATAAA
63862482 CTATTTCCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
56 25 0.57
57 19 0.43
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.25
Consensus pattern (57 bp):
TCATAACTAAGTTCAAATGCAATAGCATCCTAAGAACCATCACCCAATAAAACATCT
Found at i:63863064 original size:27 final size:27
Alignment explanation
Indices: 63863016--63863070 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
63863006 TTCTTCTTCG
*
63863016 AGCATTTGAACTGAGTTAGAATCCTAA
1 AGCATTTGAACTGAATTAGAATCCTAA
* * *
63863043 AGCATTTGAATTGAATTTGAATCTTAA
1 AGCATTTGAACTGAATTAGAATCCTAA
63863070 A
1 A
63863071 ACCATCAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (27 bp):
AGCATTTGAACTGAATTAGAATCCTAA
Found at i:63867428 original size:19 final size:20
Alignment explanation
Indices: 63867400--63867441 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
63867390 TTTAAATGTT
63867400 TTATTATTAA-AT-TATATTA
1 TTATTATTAATATATAT-TTA
*
63867419 TTATTCTTAATATATATTTA
1 TTATTATTAATATATATTTA
63867439 TTA
1 TTA
63867442 ACATTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 8 0.40
21 3 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
TTATTATTAATATATATTTA
Found at i:63885323 original size:21 final size:21
Alignment explanation
Indices: 63885298--63885337 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
63885288 CAATAACCAT
*
63885298 TTACATATACATAA-AAATAAA
1 TTACAT-TACACAACAAATAAA
63885319 TTACATTACACAACAAATA
1 TTACATTACACAACAAATA
63885338 CAATCCATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.57, C:0.15, G:0.00, T:0.28
Consensus pattern (21 bp):
TTACATTACACAACAAATAAA
Found at i:63887263 original size:10 final size:10
Alignment explanation
Indices: 63887248--63887281 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
63887238 ATTCAACATA
63887248 TTTTAACTAT
1 TTTTAACTAT
63887258 TTTTAAC-AT
1 TTTTAACTAT
63887267 ATTTTAACTAT
1 -TTTTAACTAT
63887278 TTTT
1 TTTT
63887282 TTAATAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 2 0.09
10 18 0.82
11 2 0.09
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (10 bp):
TTTTAACTAT
Found at i:63887267 original size:20 final size:20
Alignment explanation
Indices: 63887242--63887281 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
63887232 TCTAATATTC
63887242 AACATATTTTAACTATTTTT
1 AACATATTTTAACTATTTTT
63887262 AACATATTTTAACTATTTTT
1 AACATATTTTAACTATTTTT
63887282 TTAATAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
AACATATTTTAACTATTTTT
Found at i:63890554 original size:31 final size:31
Alignment explanation
Indices: 63890495--63890581 Score: 106
Period size: 31 Copynumber: 2.8 Consensus size: 31
63890485 GCCACTCAAC
*
63890495 TTCAAAAGTTATAATTT-AGTCATTGAACTGA
1 TTCAAAAGTTTTAATTTAAGTCATTGAACT-A
* * *
63890526 TT-GAAAGTTTTCATTTAAGTTATTGAACTA
1 TTCAAAAGTTTTAATTTAAGTCATTGAACTA
*
63890556 TTCAAAAGTTTTTATTTAAGTCATTG
1 TTCAAAAGTTTTAATTTAAGTCATTG
63890582 GACTTTTAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
30 14 0.30
31 33 0.70
ACGTcount: A:0.34, C:0.08, G:0.13, T:0.45
Consensus pattern (31 bp):
TTCAAAAGTTTTAATTTAAGTCATTGAACTA
Found at i:63892491 original size:13 final size:13
Alignment explanation
Indices: 63892475--63892527 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 13
63892465 TTTAAAACAA
63892475 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* * * *
63892488 ACTTCTCCACATC
1 ACTTTTCAAAAGC
* *
63892501 ACTTTTTAAAATC
1 ACTTTTCAAAAGC
63892514 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
63892527 A
1 A
63892528 ATGAAGAACT
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 30 1.00
ACGTcount: A:0.36, C:0.26, G:0.04, T:0.34
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:63895380 original size:17 final size:17
Alignment explanation
Indices: 63895358--63895421 Score: 56
Period size: 17 Copynumber: 3.4 Consensus size: 17
63895348 TGTAATATAC
63895358 TTTTTAATTAATTATTA
1 TTTTTAATTAATTATTA
**
63895375 TTTTTAAAAAAACTGTAATATA
1 TTTTT-AATTAA-T-T-AT-TA
63895397 TTTTTTAATTAATTATTA
1 -TTTTTAATTAATTATTA
63895415 TTTTTAA
1 TTTTTAA
63895422 CTTATTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
17 12 0.32
18 6 0.16
19 3 0.08
20 2 0.05
21 3 0.08
22 6 0.16
23 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTTAATTAATTATTA
Found at i:63895390 original size:40 final size:40
Alignment explanation
Indices: 63895340--63895421 Score: 155
Period size: 40 Copynumber: 2.0 Consensus size: 40
63895330 GCAAATTAAA
63895340 AAAAAAACTGTAATATACTTTTTAATTAATTATTATTTTT
1 AAAAAAACTGTAATATACTTTTTAATTAATTATTATTTTT
*
63895380 AAAAAAACTGTAATATATTTTTTAATTAATTATTATTTTT
1 AAAAAAACTGTAATATACTTTTTAATTAATTATTATTTTT
63895420 AA
1 AA
63895422 CTTATTTTGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (40 bp):
AAAAAAACTGTAATATACTTTTTAATTAATTATTATTTTT
Found at i:63905808 original size:30 final size:30
Alignment explanation
Indices: 63905728--63905808 Score: 76
Period size: 30 Copynumber: 2.7 Consensus size: 30
63905718 CTATACTTAA
* ***
63905728 AGTCACTAAACTATTAATAAATTTACATTTT
1 AGTCACTAAACTATTAA-AAAGTTACAAAAT
*
63905759 AGTCAC-ACAA-TTTTAAAAAAGTTACAAAAT
1 AGTCACTA-AACTATT-AAAAAGTTACAAAAT
63905789 AGTCACTAAACTATTAAAAA
1 AGTCACTAAACTATTAAAAA
63905809 TTTTCATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
30 26 0.65
31 14 0.35
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AGTCACTAAACTATTAAAAAGTTACAAAAT
Found at i:63918634 original size:21 final size:20
Alignment explanation
Indices: 63918587--63918636 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
63918577 AAATTCCGTA
63918587 ATAATAA-TTTTTAAAAAAT
1 ATAATAATTTTTTAAAAAAT
* *
63918606 ATATTAATTTTTCTAAACAAT
1 ATAATAATTTTT-TAAAAAAT
*
63918627 CTAATAATTT
1 ATAATAATTT
63918637 ATGGTGTGCG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 6 0.24
20 4 0.16
21 15 0.60
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (20 bp):
ATAATAATTTTTTAAAAAAT
Found at i:63918870 original size:16 final size:16
Alignment explanation
Indices: 63918826--63918860 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
63918816 TTTGACATTA
*
63918826 AAAATTATAATATAAT
1 AAAATTATCATATAAT
63918842 AAAATTATCATATAAT
1 AAAATTATCATATAAT
63918858 AAA
1 AAA
63918861 TATATTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (16 bp):
AAAATTATCATATAAT
Found at i:63918874 original size:19 final size:22
Alignment explanation
Indices: 63918829--63918876 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 22
63918819 GACATTAAAA
63918829 ATTATAATATAATAAAATTATC
1 ATTATAATATAATAAAATTATC
*
63918851 A-TATAATA-AAT-ATATTAT-
1 ATTATAATATAATAAAATTATC
63918869 ATTATAAT
1 ATTATAAT
63918877 TTAAATTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 12 0.50
20 3 0.12
21 7 0.29
22 1 0.04
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTATAATATAATAAAATTATC
Found at i:63920553 original size:43 final size:46
Alignment explanation
Indices: 63920475--63920566 Score: 136
Period size: 43 Copynumber: 2.1 Consensus size: 46
63920465 ATAGAGGCGT
* *
63920475 AATGGAATAAATGCGTAATAGGTAATTCTTTTGTTTGGTTGAATGG
1 AATGAAATAAATGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
*
63920521 AATGAAATACATGC-TAA-AGGT-ATTCTTCTGTTTGGTTGAATGG
1 AATGAAATAAATGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
63920564 AAT
1 AAT
63920567 AGAGGTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 24 0.56
44 4 0.09
45 3 0.07
46 12 0.28
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.38
Consensus pattern (46 bp):
AATGAAATAAATGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
Found at i:63922462 original size:22 final size:21
Alignment explanation
Indices: 63922437--63922485 Score: 89
Period size: 22 Copynumber: 2.3 Consensus size: 21
63922427 TTTTACTTAT
63922437 TATTATATTAAATTATCTAAA
1 TATTATATTAAATTATCTAAA
63922458 GTATTATATTAAATTATCTAAA
1 -TATTATATTAAATTATCTAAA
63922480 TATTAT
1 TATTAT
63922486 TTATTATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 6 0.22
22 21 0.78
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATATTAAATTATCTAAA
Found at i:63922511 original size:31 final size:33
Alignment explanation
Indices: 63922459--63922521 Score: 80
Period size: 31 Copynumber: 2.0 Consensus size: 33
63922449 TTATCTAAAG
63922459 TATTATATTAAATTATCTAAA-TA-TTATTTAT
1 TATTATATTAAATTATCTAAATTATTTATTTAT
63922490 TATTATATTTAACATT-T-TAAATTATTTATTTA
1 TATTATA-TTAA-ATTATCTAAATTATTTATTTA
63922522 AATATTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
31 11 0.39
32 7 0.25
33 10 0.36
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (33 bp):
TATTATATTAAATTATCTAAATTATTTATTTAT
Found at i:63929460 original size:29 final size:28
Alignment explanation
Indices: 63929418--63929478 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 28
63929408 ATTTTTATTT
63929418 TACTTTACTTTCATGTCTGAAGTTGTTAA
1 TACTTTACTTTCATGTCTGAAGTTGTT-A
63929447 TACTTTACTTTCATGTCTGAAGTTGTTA
1 TACTTTACTTTCATGTCTGAAGTTGTTA
63929475 TACT
1 TACT
63929479 GGCTTATGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 5 0.16
29 27 0.84
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (28 bp):
TACTTTACTTTCATGTCTGAAGTTGTTA
Found at i:63940038 original size:3 final size:3
Alignment explanation
Indices: 63940032--63940080 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
63940022 CTACTACTAT
*
63940032 TGA TGA TGA TGA TGA TGG TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
63940080 T
1 T
63940081 AATGGGAAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:63941130 original size:12 final size:12
Alignment explanation
Indices: 63941113--63941141 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
63941103 CCAGAGTGAT
63941113 AACATATTGTTA
1 AACATATTGTTA
63941125 AACATATTGTTA
1 AACATATTGTTA
63941137 AACAT
1 AACAT
63941142 GTTTAGAAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.45, C:0.10, G:0.07, T:0.38
Consensus pattern (12 bp):
AACATATTGTTA
Found at i:63941293 original size:176 final size:174
Alignment explanation
Indices: 63940979--63941474 Score: 571
Period size: 172 Copynumber: 2.8 Consensus size: 174
63940969 ACAGTAACCC
* * * *
63940979 TATGTTCATAGAATTCAGTGTATTGAGAGTCTACTTAGTCAACGGTTGTATTATCATATCATCCA
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTAC-TATTCAATGGTCGTA-TATCATATCATCCA
63941044 TCCATTATGTTTAGAAGGTTTTGTCATTGATATGGTGTGTTTTACTGTTGTTCTAAACCCCAGAG
64 TCCA-TA-GTTTAGAAGGTTTTG---TTGATATGGTGTGTTTTACT-TTGTTCTAAACCCCAGAG
* *
63941109 TGATAACATATTGTTAAACATATT-GT-TAAACAT-GTTTAGAAGGTCTGTGCA
123 TGATAACATATTGTCAAACATATTAGTGT-AA-ATGGCTTAGAAGGTCTGTGCA
* *
63941160 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTTAATGGACGTATCATCATATCATCCAT
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTCAATGGTCGTAT-ATCATATCATCCAT
63941225 CCATCACGTTTAGAAGGTTTTGTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATA
65 CCAT-A-GTTTAGAAGGTTTTGTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATA
* * * *
63941290 ACATATTGTCAAACATGTTGAGTGTTATTGGCTTAGAAGGTCTGTGTA
128 ACATATTGTCAAACATATT-AGTGTAAATGGCTTAGAAGGTCTGTGCA
* * * * *
63941338 TATGTTCATAGAATTTGGTGTATTG-G-G---AGTATTCAATTGTCGCATTTCCATATCATCCAT
1 TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTCAATGGTCGTATAT-CATATCATCCAT
* * *
63941398 -CAT-GTTTGGAAGGTTTTCTCATTGATATGGTGTGTTTTACTTTGTTCTAAGCCCCAGAGTGAT
65 CCATAGTTTAGAAGG-TTT-T-GTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGAT
*
63941461 AGCATATTGTCAAA
127 AACATATTGTCAAA
63941475 AGTGTTGATC
Statistics
Matches: 281, Mismatches: 24, Indels: 29
0.84 0.07 0.09
Matches are distributed among these distances:
169 9 0.03
170 3 0.01
171 1 0.00
172 58 0.21
173 25 0.09
176 41 0.15
177 22 0.08
178 43 0.15
179 3 0.01
180 43 0.15
181 33 0.12
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (174 bp):
TATGTTCATAGAATTCGGTGTATTGAGAGTCTACTATTCAATGGTCGTATATCATATCATCCATC
CATAGTTTAGAAGGTTTTGTTGATATGGTGTGTTTTACTTTGTTCTAAACCCCAGAGTGATAACA
TATTGTCAAACATATTAGTGTAAATGGCTTAGAAGGTCTGTGCA
Found at i:63943842 original size:132 final size:132
Alignment explanation
Indices: 63943597--63944238 Score: 760
Period size: 132 Copynumber: 5.0 Consensus size: 132
63943587 AACCCCACCT
* * * *
63943597 GCAGTGGCATTGGCAGCTCCT-CTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTT
1 GCAGTGGCATTGGCAGCT-CTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTT
* ** * * * * * *
63943661 TCGCTGGTGCCACGGTTCCACTTGCATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTA
65 TTGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTA
63943726 GTG
130 GTG
* * * *
63943729 GCATTGGCAATAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTT
1 GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* * * *
63943794 TGCTAGAGCCACAGTTCCACTTGTGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAG
66 TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
63943859 TG
131 TG
* * * * * *
63943861 GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTT
1 GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
*
63943926 TG-CAGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAGTGGTA
66 TGCCA-GAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTA
63943990 GTG
130 GTG
* *
63943993 GCA---GC--T--C--CTCTG-T--TGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTT
1 GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
* *
63944046 TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAATCCCATCTGCAGTGGTAG
66 TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
63944111 TG
131 TG
* * *
63944113 GCAGTGGCATTGGCAGCTCCT-CT-GTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTT
1 GCAGTGGCATTGGCAGCT-CTGCTGGT-GGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTT
* ** **
63944176 TTTGCCGGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT-TGGCAGTG
64 TTTGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCT-GCAGTG
63944239 ACAGCATGTT
Statistics
Matches: 443, Mismatches: 50, Indels: 34
0.84 0.09 0.06
Matches are distributed among these distances:
120 102 0.23
121 2 0.00
122 1 0.00
123 7 0.02
125 1 0.00
127 2 0.00
129 4 0.01
130 3 0.01
131 5 0.01
132 316 0.71
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (132 bp):
GCAGTGGCATTGGCAGCTCTGCTGGTGGTAGAGCCCCAGTCTTCATCCCATGCTGGGCTGCTTTT
TGCCAGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCAGTGGTAG
TG
Found at i:63944062 original size:252 final size:252
Alignment explanation
Indices: 63943741--63944238 Score: 716
Period size: 252 Copynumber: 2.0 Consensus size: 252
63943731 ATTGGCAATA
* * * *
63943741 GCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTGCTAGAGCCAC
1 GCAGCTCTGCTGGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCAC
* * * *
63943806 AGTTCCACTTGTGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAGTGGTAGTGGCAT
66 AGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCAT
* * ** *
63943871 TGGAAGCT-CTGCTG-GAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTTGCTTTTTGCAGGAG
131 TGGAAGCTCCT-CTGTG-GGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAG
** ** *
63943934 CCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATCT-GCAGTGGTAGTG
194 CCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT-TGGCAGTGGTAGTG
*
63943993 GCAGCTCCT-CTGTTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCA
1 GCAGCT-CTGCTGGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCA
* *
63944057 CAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGCAGTGGCA
65 CAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCA
* * *
63944122 TTGGCAGCTCCTCTGTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTGCCGGAGC
130 TTGGAAGCTCCTCTGTGGGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGC
63944187 CACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
195 CACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTG
63944239 ACAGCATGTT
Statistics
Matches: 218, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
251 1 0.00
252 212 0.97
253 5 0.02
ACGTcount: A:0.17, C:0.28, G:0.27, T:0.27
Consensus pattern (252 bp):
GCAGCTCTGCTGGTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCCAGAGCCAC
AGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAAGCCCATCTGCAGCGGTAGTGGCAGTGGCAT
TGGAAGCTCCTCTGTGGGCAGAGCCCCACGCTTCATCCCACGCTGGGCTGCTTTTTGCAGGAGCC
ACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATTGGCAGTGGTAGTG
Found at i:63944189 original size:384 final size:384
Alignment explanation
Indices: 63943536--63944230 Score: 1025
Period size: 384 Copynumber: 1.8 Consensus size: 384
63943526 ATGCTGAGCA
* * *
63943536 GCTTTTTGCTGGAGCCGCAGTTTCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
1 GCTTTTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
* * ** *
63943601 TGGCATTGGCAGCTCCTCTGTTGGTAGAGCCCCTGTCTTCATCCCATGATGAGCTGCTTTTCGCT
66 TGGCAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGATGAGCTGCTTTTCGCC
* * * * *
63943666 GGTGCCACGGTTCCACTTGCATTGCTGAAGGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
131 AGAGCCACAGTTCCACTTGCATTGCTCAAAGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
* * ** *
63943731 ATTGGCAATAGCAGCTCTGCTGGTGGTAGAGCCCCAGTTTTCATCCCATGCTGGGCTGCTTTTTG
196 AGTGGCAATAGCAGCTCTGCTGGTGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTG
* ** **
63943796 CTAGAGCCACAGTTCCACTTGTGTTGCTCAAGGCTTGAGACTGAAGCCCATCTGCGGCGGTAGTG
261 CCAGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATCTGCGGCGGTAGTG
63943861 GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTT
326 GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTT
* * *
63943920 GCTTTTTGCAGGAGCCACAGTTCCACTTGCGTTGCTCAAGGCTTGAGACTGAATCCCATCTGCAG
1 GCTTTTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
* * * *
63943985 TGGTAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGCTGGGCTGCTTTTTGCC
66 TGGCAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGATGAGCTGCTTTTCGCC
* * * *
63944050 AGAGCCACAGTTCCACTTGCGTTGCTCAAAGCTTGAGACTGAATCCCATCTGCAGTGGTAGTGGC
131 AGAGCCACAGTTCCACTTGCATTGCTCAAAGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
* *
63944115 AGTGGCATTGGCAGCTCCT-CT-GTGGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTT
196 AGTGGCAATAGCAGCT-CTGCTGGT-GGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTT
*
63944178 TGCCGGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT
259 TGCCAGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCAT
63944231 TGGCAGTGAC
Statistics
Matches: 272, Mismatches: 37, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
383 2 0.01
384 268 0.99
385 2 0.01
ACGTcount: A:0.18, C:0.28, G:0.27, T:0.27
Consensus pattern (384 bp):
GCTTTTTGCAGGAGCCACAGTTCCACTTGCATTGCTCAAGGCTTGAGACTGAACCCCACCTGCAG
TGGCAGTGGCAGCTCCTCTGTTGGCAGAGCCCCACTCTTCATCCCATGATGAGCTGCTTTTCGCC
AGAGCCACAGTTCCACTTGCATTGCTCAAAGCTTGAGACCGAAGCCCATCTCCAGTGGTAGTGGC
AGTGGCAATAGCAGCTCTGCTGGTGGCAGAGCCCCAGGCTTCATCCCACGCTGGGCTGCTTTTTG
CCAGAGCCACAGTTCCACTTGAATTGCTCAACACTTGAGACTGAAGCCCATCTGCGGCGGTAGTG
GTAGTGGCATTGGAAGCTCTGCTGGAGGTAGAGCCCCACTCTTCATCCCATTCTGGGTT
Found at i:63954088 original size:2 final size:2
Alignment explanation
Indices: 63954081--63954126 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
63954071 AAAGCAATCC
63954081 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
63954123 CT CT
1 CT CT
63954127 GTTTTCTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:63954777 original size:31 final size:31
Alignment explanation
Indices: 63954742--63954808 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 31
63954732 GTCCAATCTT
* * * *
63954742 GTTCAAAGATCAAAATGGATCTAGTTGCTAA
1 GTTCAAAGACCAAAATAGATCTAGTTACAAA
*
63954773 GTTCAATGACCAAAATAGATCTAGTTACAAA
1 GTTCAAAGACCAAAATAGATCTAGTTACAAA
63954804 GTTCA
1 GTTCA
63954809 TGGGCAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.28
Consensus pattern (31 bp):
GTTCAAAGACCAAAATAGATCTAGTTACAAA
Found at i:63963852 original size:19 final size:19
Alignment explanation
Indices: 63963808--63963852 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
63963798 GGGTTTTACC
*
63963808 TTTTATTCTTCATATTTAT
1 TTTTATTCTTCACATTTAT
* * *
63963827 GTATATTCTTCACATTTTT
1 TTTTATTCTTCACATTTAT
63963846 TTTTATT
1 TTTTATT
63963853 TTTTCCTTTC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.20, C:0.11, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTATTCTTCACATTTAT
Found at i:63976002 original size:191 final size:189
Alignment explanation
Indices: 63975645--63976023 Score: 512
Period size: 191 Copynumber: 2.0 Consensus size: 189
63975635 TGACGAAATA
* *
63975645 CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTTGACAACTAAATCCATTTTGATCGTA
1 CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAAC-TGACAACTAAATCCATTTTGACCCTA
*
63975710 GAAATTGACAATGTAAACATTCAATGACGTAACACTATAAGATTGTACCCTGTCATCACCTCTAG
65 GAAATTGACAATGCAAACATTCAATGACGTAACACTATAAGATTGTACCCTGTCATCACCTCTAG
* * * *
63975775 GTGTCACATTATCAAACTTTGATGAAATACAAGTTCAAAGACCAAAATGAACCTAATTGT
130 GAGTCAAATTATCAAACTTTGATGAAATACAAGTTCAAACACCAAAATGAACATAATTGT
* * ** *
63975835 CAAGTTCAGATAACAAAGTGAACCTACTTGCCATAAA-TGCAACAACTAAATCCATTTTGACCCT
1 CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTG--ACAACTAAATCCATTTTGACCCT
* * * *
63975899 TGAAATTGACAAATGCATAA-ATTTAATGATGTGACACTATAAGATTGTACCACT-TCATCACCT
64 AGAAATTGAC-AATGCA-AACATTCAATGACGTAACACTATAAGATTGTACC-CTGTCATCACCT
* * *
63975962 TTAGGAGTCAAATTATCAAATTTTGATGAAATTCAAGTTCAAACACCAAAATGAACATAATT
126 CTAGGAGTCAAATTATCAAACTTTGATGAAATACAAGTTCAAACACCAAAATGAACATAATT
63976024 ACCATAAACT
Statistics
Matches: 165, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
188 2 0.01
190 62 0.38
191 97 0.59
192 4 0.02
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (189 bp):
CAAGTTCAAAGAACAAAAAGAACCTAATTGCCATAAACTGACAACTAAATCCATTTTGACCCTAG
AAATTGACAATGCAAACATTCAATGACGTAACACTATAAGATTGTACCCTGTCATCACCTCTAGG
AGTCAAATTATCAAACTTTGATGAAATACAAGTTCAAACACCAAAATGAACATAATTGT
Found at i:63979076 original size:17 final size:16
Alignment explanation
Indices: 63979043--63979073 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
63979033 TTTAAAGTAA
63979043 AAAAATTATTAAAAAT
1 AAAAATTATTAAAAAT
63979059 AAAAATTATTAAAAA
1 AAAAATTATTAAAAA
63979074 ATATATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTATTAAAAAT
Found at i:63979463 original size:31 final size:30
Alignment explanation
Indices: 63979418--63979497 Score: 87
Period size: 31 Copynumber: 2.7 Consensus size: 30
63979408 ATTAAAATTG
*
63979418 TATTTTAA-TATTCAAAAATGAA-AAAA-AA
1 TATTTTAATTTTTCAAAAAT-AATAAAATAA
63979446 TCA-TTTAACCTTTTTCAAAAATAATAAAATAA
1 T-ATTTTAA--TTTTTCAAAAATAATAAAATAA
63979478 TATTTTAATTTTTCAAAAAT
1 TATTTTAATTTTTCAAAAAT
63979498 TTATAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
28 6 0.14
29 1 0.02
30 14 0.32
31 15 0.34
32 8 0.18
ACGTcount: A:0.51, C:0.07, G:0.01, T:0.40
Consensus pattern (30 bp):
TATTTTAATTTTTCAAAAATAATAAAATAA
Found at i:63979521 original size:30 final size:30
Alignment explanation
Indices: 63979456--63979519 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
63979446 TCATTTAACC
*
63979456 TTTTTCAAAAATAATAAAATAATATTTTAA
1 TTTTTCAAAAATAATAAAATAATATTCTAA
* *
63979486 TTTTTCAAAAAT-TTATAATTAA-ATTCTAA
1 TTTTTCAAAAATAATA-AAATAATATTCTAA
63979515 TTTTT
1 TTTTT
63979520 TCTTAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 13 0.43
30 17 0.57
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (30 bp):
TTTTTCAAAAATAATAAAATAATATTCTAA
Found at i:63981622 original size:2 final size:2
Alignment explanation
Indices: 63981615--63981654 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
63981605 CAAATATAAG
63981615 TA TA TA TA TA TA -A TA 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 TA TA TA TA TA TA TA TA T
63981655 GAGCGGAACC
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:63986233 original size:19 final size:18
Alignment explanation
Indices: 63986211--63986255 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 18
63986201 AGAAAACACC
63986211 ATATATATGTATGTTACGT
1 ATATATATGTATG-TACGT
*
63986230 ATATATATGTATGTATGT
1 ATATATATGTATGTACGT
63986248 ATATATAT
1 ATATATAT
63986256 AAAATGTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 12 0.48
19 13 0.52
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (18 bp):
ATATATATGTATGTACGT
Found at i:63987001 original size:16 final size:17
Alignment explanation
Indices: 63986981--63987021 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
63986971 ACAATACAAA
63986981 AATTTAAGTTTTATT-AT
1 AATTTAA-TTTTATTCAT
*
63986998 -ATTTTATTTTATTCAT
1 AATTTAATTTTATTCAT
63987014 AATTTAAT
1 AATTTAAT
63987022 ATATTTTCTC
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (17 bp):
AATTTAATTTTATTCAT
Found at i:63987323 original size:41 final size:41
Alignment explanation
Indices: 63987272--63987432 Score: 207
Period size: 41 Copynumber: 3.9 Consensus size: 41
63987262 AGGTAAATGC
* * * *
63987272 ATTATCGGCGCTTAGCTACAAACGCCGCTAAAGGCCAGAGA
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGA
* * * * *
63987313 ATTAGTGGCGCTCAGATAAAAACACCACTAAAGATCC-GAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG-GCCAGAGA
* *
63987354 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGA
63987395 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAG
63987433 CTCAGATAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
40 2 0.02
41 98 0.96
42 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCAGAGA
Found at i:63987368 original size:82 final size:82
Alignment explanation
Indices: 63987270--63987427 Score: 253
Period size: 82 Copynumber: 1.9 Consensus size: 82
63987260 AAAGGTAAAT
* * * *
63987270 GCATTATCGGCGCTTAGCTACAAACGCCGCTAAAGGCCAGAGAATTAGTGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
63987335 CACCACTAAAGATCCGA
66 CACCACTAAAGATCCGA
*
63987352 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAA
1 GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
* *
63987417 CGCCGCTAAAG
66 CACCACTAAAG
63987428 GCCAGCTCAG
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
82 69 1.00
ACGTcount: A:0.35, C:0.25, G:0.25, T:0.16
Consensus pattern (82 bp):
GCATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGGCCAGAGAATTAGCGGCGCTCAGATAAAAA
CACCACTAAAGATCCGA
Found at i:63987436 original size:28 final size:28
Alignment explanation
Indices: 63987404--63987460 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
63987394 GATTAGCGGC
63987404 GCTCAGATAAAAACGCCGCTAAAGGCCA
1 GCTCAGATAAAAACGCCGCTAAAGGCCA
63987432 GCTCAGATAAAAACGCCGCTAAAGGCCA
1 GCTCAGATAAAAACGCCGCTAAAGGCCA
63987460 G
1 G
63987461 AGGATTAGCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.28, G:0.23, T:0.11
Consensus pattern (28 bp):
GCTCAGATAAAAACGCCGCTAAAGGCCA
Found at i:63987478 original size:69 final size:69
Alignment explanation
Indices: 63987367--63987497 Score: 262
Period size: 69 Copynumber: 1.9 Consensus size: 69
63987357 AGCGGCGCTT
63987367 AGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCA
1 AGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCA
63987432 GCTC
66 GCTC
63987436 AGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
1 AGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGG
63987498 TTTAAAAAAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.37, C:0.24, G:0.27, T:0.11
Consensus pattern (69 bp):
AGATAAAAACGCCGCTAAAGGCCAGAGGATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGGCCA
GCTC
Found at i:63988642 original size:6 final size:7
Alignment explanation
Indices: 63988623--63988649 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
63988613 CACTCATTCA
63988623 TATTTTT
1 TATTTTT
63988630 TATTTTT
1 TATTTTT
63988637 TATTTTT
1 TATTTTT
63988644 TATTTT
1 TATTTT
63988650 AGATTTTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TATTTTT
Found at i:63990591 original size:9 final size:9
Alignment explanation
Indices: 63990562--63990610 Score: 62
Period size: 9 Copynumber: 5.4 Consensus size: 9
63990552 ATAGTGATTC
63990562 AATTCGGTT
1 AATTCGGTT
* *
63990571 AAGTCGGGT
1 AATTCGGTT
*
63990580 AATTAGGTT
1 AATTCGGTT
*
63990589 AATTCGATT
1 AATTCGGTT
63990598 AATTCGGTT
1 AATTCGGTT
63990607 AATT
1 AATT
63990611 TTTAACAAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:63996497 original size:16 final size:16
Alignment explanation
Indices: 63996476--63996517 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
63996466 AATTTGTATC
*
63996476 CGAAATAATCTAAACT
1 CGAAATAATCTAAAAT
*
63996492 CGAAATAATTTAAAAT
1 CGAAATAATCTAAAAT
*
63996508 CGAAACAATC
1 CGAAATAATC
63996518 CAATCTCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.52, C:0.17, G:0.07, T:0.24
Consensus pattern (16 bp):
CGAAATAATCTAAAAT
Found at i:64017015 original size:2 final size:2
Alignment explanation
Indices: 64017010--64017034 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
64017000 TGAGATTGTA
64017010 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
64017035 AATTAATTGT
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:64023636 original size:30 final size:32
Alignment explanation
Indices: 64023565--64023640 Score: 90
Period size: 31 Copynumber: 2.5 Consensus size: 32
64023555 TTAAAATTGT
*
64023565 ACATG-AATTTTGATTTAATATGCAATTTAAT
1 ACATGAAATTTTGATTTAATATGCAATTTAAC
*
64023596 ACAT-AAATTTTGATTT-A-GTGCAA-TTATAC
1 ACATGAAATTTTGATTTAATATGCAATTTA-AC
64023625 ACATGAAATTTTGATT
1 ACATGAAATTTTGATT
64023641 GTGATTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 3 0.08
29 10 0.25
30 12 0.30
31 15 0.38
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (32 bp):
ACATGAAATTTTGATTTAATATGCAATTTAAC
Found at i:64023845 original size:30 final size:29
Alignment explanation
Indices: 64023811--64023889 Score: 77
Period size: 29 Copynumber: 2.6 Consensus size: 29
64023801 GAAATAGATC
* *
64023811 AAATCAAAATTTCATGTATAAAATTACTTA
1 AAATC-AAAGTTCATATATAAAATTACTTA
* *
64023841 AAATCAAAGTTCATATGTAAAATTACATATT
1 AAATCAAAGTTCATATATAAAATTAC-T-TA
* *
64023872 AAACCAAAATTCATATAT
1 AAATCAAAGTTCATATAT
64023890 GATTTTGAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
29 18 0.45
30 6 0.15
31 16 0.40
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.34
Consensus pattern (29 bp):
AAATCAAAGTTCATATATAAAATTACTTA
Found at i:64023885 original size:31 final size:29
Alignment explanation
Indices: 64023815--64023889 Score: 78
Period size: 31 Copynumber: 2.5 Consensus size: 29
64023805 TAGATCAAAT
* *
64023815 CAAAATTTCATGTATAAAATTACTTAAAAT
1 CAAAA-TTCATATATAAAATTACTTAAAAC
* * *
64023845 CAAAGTTCATATGTAAAATTACATATTAAAC
1 CAAAATTCATATATAAAATTAC-T-TAAAAC
64023876 CAAAATTCATATAT
1 CAAAATTCATATAT
64023890 GATTTTGAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
29 15 0.42
30 5 0.14
31 16 0.44
ACGTcount: A:0.49, C:0.12, G:0.04, T:0.35
Consensus pattern (29 bp):
CAAAATTCATATATAAAATTACTTAAAAC
Found at i:64025741 original size:6 final size:6
Alignment explanation
Indices: 64025730--64025763 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
64025720 GTTAACGAAC
64025730 TGTATA TGTATA TGTATA TGTATA TGTATA TGTA
1 TGTATA TGTATA TGTATA TGTATA TGTATA TGTA
64025764 CAAGACACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (6 bp):
TGTATA
Found at i:64027729 original size:46 final size:46
Alignment explanation
Indices: 64027676--64027768 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
64027666 TTTGATCCTA
64027676 AACTTGGAAAGCTGGATGATGTGGCATGATCTCAAACTGCCACATC
1 AACTTGGAAAGCTGGATGATGTGGCATGATCTCAAACTGCCACATC
64027722 AACTTGGAAAGCTGGATGATGTGGCATGATCTCAAACTGCCACATC
1 AACTTGGAAAGCTGGATGATGTGGCATGATCTCAAACTGCCACATC
64027768 A
1 A
64027769 TCAACTTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.24
Consensus pattern (46 bp):
AACTTGGAAAGCTGGATGATGTGGCATGATCTCAAACTGCCACATC
Found at i:64029515 original size:29 final size:28
Alignment explanation
Indices: 64029461--64029515 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
64029451 CCCCAATTTA
* *
64029461 AAAATAAATTAAAAAAGTATTCATTTTT
1 AAAATAAATTAAAAAAGTACTAATTTTT
*
64029489 AAAATAAATTTTAAAAAGTACTAATTT
1 AAAATAAA-TTAAAAAAGTACTAATTT
64029516 GAAAAAAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 8 0.35
29 15 0.65
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (28 bp):
AAAATAAATTAAAAAAGTACTAATTTTT
Found at i:64029520 original size:28 final size:28
Alignment explanation
Indices: 64029454--64029521 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
64029444 TCCCAGCCCC
*
64029454 CAATTTAAAAATAAATTAAAAAAGTATT
1 CAATTTAAAAATAAATTAAAAAAGTACT
* * *
64029482 CATTTTTAAAATAAATTTTAAAAAGTACT
1 CAATTTAAAAATAAA-TTAAAAAAGTACT
64029511 -AATTTGAAAAA
1 CAATTT-AAAAA
64029522 AAAGTTATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 17 0.53
29 15 0.47
ACGTcount: A:0.56, C:0.04, G:0.04, T:0.35
Consensus pattern (28 bp):
CAATTTAAAAATAAATTAAAAAAGTACT
Found at i:64033940 original size:57 final size:57
Alignment explanation
Indices: 64033838--64033960 Score: 165
Period size: 57 Copynumber: 2.2 Consensus size: 57
64033828 TTTATCAGTT
* ** *
64033838 ATCGTTGTCGGGCAATTTGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACC
1 ATCGTTGCCGGGCAATCCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACA
* * * **
64033895 ATCTTTGCCGGGCAATCCGGGATGGTTGAATAAATAGTTTGGACAATTACTAAAACA
1 ATCGTTGCCGGGCAATCCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACA
64033952 ATCGTTGCC
1 ATCGTTGCC
64033961 AGTCAACTTA
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (57 bp):
ATCGTTGCCGGGCAATCCGGGATGGCTGAATAAACAGTTCAGACAATTACTAAAACA
Found at i:64034872 original size:24 final size:24
Alignment explanation
Indices: 64034845--64034896 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
64034835 AATCAAAGTC
* * *
64034845 AAATATATTATGCTAATAAATGCT
1 AAATACATTATACTAATAAATACT
*
64034869 AAATACATTATACTCATAAATACT
1 AAATACATTATACTAATAAATACT
64034893 AAAT
1 AAAT
64034897 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATACATTATACTAATAAATACT
Found at i:64039283 original size:24 final size:24
Alignment explanation
Indices: 64039256--64039312 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
64039246 AAACCTAATT
64039256 CTAATCAAA-GTCAAATATATTATG
1 CTAAT-AAATGTCAAATATATTATG
* *
64039280 CTAATAAATGTTAAATATATTATA
1 CTAATAAATGTCAAATATATTATG
*
64039304 CTCATAAAT
1 CTAATAAAT
64039313 ACTAAATCTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 3 0.10
24 26 0.90
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGTCAAATATATTATG
Found at i:64039318 original size:24 final size:24
Alignment explanation
Indices: 64039268--64039319 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
64039258 AATCAAAGTC
* **
64039268 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
64039292 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
64039316 AAAT
1 AAAT
64039320 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:64058987 original size:16 final size:16
Alignment explanation
Indices: 64058966--64058998 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
64058956 CAAGCAGTAC
64058966 ATACGGCTTTCATCAA
1 ATACGGCTTTCATCAA
*
64058982 ATACGGTTTTCATCAA
1 ATACGGCTTTCATCAA
64058998 A
1 A
64058999 CACATTACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.33
Consensus pattern (16 bp):
ATACGGCTTTCATCAA
Found at i:64061466 original size:14 final size:14
Alignment explanation
Indices: 64061447--64061474 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64061437 GGACATAGAC
64061447 TTTCTAATAAAAAT
1 TTTCTAATAAAAAT
64061461 TTTCTAATAAAAAT
1 TTTCTAATAAAAAT
64061475 GTACTTATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTCTAATAAAAAT
Found at i:64063788 original size:2 final size:2
Alignment explanation
Indices: 64063781--64063820 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
64063771 TGTGAAATGC
* *
64063781 CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA CG CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
64063821 TATACATACA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.47, G:0.03, T:0.03
Consensus pattern (2 bp):
CA
Found at i:64066490 original size:132 final size:132
Alignment explanation
Indices: 64066244--64066490 Score: 386
Period size: 132 Copynumber: 1.9 Consensus size: 132
64066234 TACACCTCTA
* **
64066244 TTAAACCATTAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTTTGTCTC
1 TTAAACCATTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTC
* * *
64066309 CCTAAGCAGTAGTAGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAG
66 CCTAAGCAATAGTAGAGCAGATCAAAGACGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAG
64066374 AT
131 AT
* * * *
64066376 TTAAGCCATTAATCCTATCTCCCTGAGCAGCAGTGGAGTGGGTTGAATATTGTAGATCCTGTCTC
1 TTAAACCATTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTC
* *
64066441 CCTAAGCAATAGTGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAG
66 CCTAAGCAATAGTAGAGCAGATCAAAGACGGTAAATCTTATCTTCCCAAG
64066491 CTGAGCAGAT
Statistics
Matches: 103, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 103 1.00
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (132 bp):
TTAAACCATTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTC
CCTAAGCAATAGTAGAGCAGATCAAAGACGGTAAATCTTATCTTCCCAAGATAGTGGAGAAGCAG
AT
Found at i:64066527 original size:132 final size:132
Alignment explanation
Indices: 64066256--64066558 Score: 337
Period size: 132 Copynumber: 2.3 Consensus size: 132
64066246 AAACCATTAG
** *
64066256 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATTTTGTCTCCCTAAGCAGTAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAATAG
* * * * * * * *
64066321 TAGAGCAGATCAAAGATGGTGAATCTTATCTTCCCAAGATAGTGGAGAAGCAGATTTAAGCCATT
66 TAGAGCAGATCAAAGACGGTAAATCTTATCTTCCCAAGATAGAGCAGAAGCAGACTGAAGCAACT
64066386 AA
131 AA
* * *
64066388 TCCTATCTCCCTGAGCAGCAGTGGAGTGGGTTGAATATTGTAGATCCTGTCTCCCTAAGCAATAG
1 TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAATAG
* * * * *
64066453 TGGAGCAGATCAAAGACGGTAAATCTTATCTTTCCAAGCT-GAGCAG-ATCAAGACTGAAGATAA
66 TAGAGCAGATCAAAGACGGTAAATCTTATCTTCCCAAGATAGAGCAGAAGC-AGACTGAAG-CAA
64066516 CTAA
129 CTAA
*
64066520 -CCTTATCTCCCTGAAGTTA-CAGTGGAGCT-GGTTGAAGAT
1 TCC-TATCTCCCTG-AG-CAGCAGTGGAG-TAGGTTGAAGAT
64066559 ATCAATCTTA
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
130 2 0.01
131 13 0.09
132 108 0.75
133 19 0.13
134 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
TCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAAGCAATAG
TAGAGCAGATCAAAGACGGTAAATCTTATCTTCCCAAGATAGAGCAGAAGCAGACTGAAGCAACT
AA
Found at i:64066569 original size:44 final size:44
Alignment explanation
Indices: 64066507--64066645 Score: 199
Period size: 44 Copynumber: 3.1 Consensus size: 44
64066497 AGATCAAGAC
* * * *
64066507 TGAAGATAACTAACCTTATCTCCCTGAAGTTACAGTGGAGCTGGT
1 TGAAGATATC-AATCTTATCTCCCTAAAGTTGCAGTGGAGCTGGT
*
64066552 TGAAGATATCAATCTTATCTCCCTAAAATTGCAGTGGAGCTGGT
1 TGAAGATATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCTGGT
*
64066596 TGAAGATATCAATCTTATCTCCTTAAAGTTGCAGTGGAG-TAGGT
1 TGAAGATATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCT-GGT
64066640 TGAAGA
1 TGAAGA
64066646 AAGTGTGCCT
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
43 1 0.01
44 76 0.88
45 9 0.10
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (44 bp):
TGAAGATATCAATCTTATCTCCCTAAAGTTGCAGTGGAGCTGGT
Found at i:64066712 original size:46 final size:46
Alignment explanation
Indices: 64066662--64066754 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
64066652 GCCTTATCTC
64066662 CCCGAAGCTATAGTGGGTTAGGAAGAGGCTACTTGAAGAATAGAAG
1 CCCGAAGCTATAGTGGGTTAGGAAGAGGCTACTTGAAGAATAGAAG
64066708 CCCGAAGCTATAGTGGGTTAGGAAGAGGCTACTTGAAGAATAGAAG
1 CCCGAAGCTATAGTGGGTTAGGAAGAGGCTACTTGAAGAATAGAAG
64066754 C
1 C
64066755 GCTAAGGTCC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.14, G:0.32, T:0.19
Consensus pattern (46 bp):
CCCGAAGCTATAGTGGGTTAGGAAGAGGCTACTTGAAGAATAGAAG
Found at i:64068223 original size:3 final size:3
Alignment explanation
Indices: 64068200--64068256 Score: 69
Period size: 3 Copynumber: 19.0 Consensus size: 3
64068190 TCATTACTAC
* * * *
64068200 TAT TAC TAT TGT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
64068248 TGT TAT TAT
1 TAT TAT TAT
64068257 ATTTTTGTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:64069293 original size:23 final size:23
Alignment explanation
Indices: 64069231--64069302 Score: 75
Period size: 20 Copynumber: 3.3 Consensus size: 23
64069221 AAACTGTAAT
64069231 ACAT-AAAAA-AAATTATTTAAA
1 ACATGAAAAATAAATTATTTAAA
*
64069252 ATATG--AAAT-AATT-TCTTAAA
1 ACATGAAAAATAAATTAT-TTAAA
64069272 ACATGAAAAATAAATTATTTAAA
1 ACATGAAAAATAAATTATTTAAA
*
64069295 GCATGAAA
1 ACATGAAA
64069303 GAGTTTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
19 1 0.02
20 16 0.39
21 3 0.07
22 4 0.10
23 16 0.39
24 1 0.02
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.31
Consensus pattern (23 bp):
ACATGAAAAATAAATTATTTAAA
Found at i:64070922 original size:44 final size:45
Alignment explanation
Indices: 64070837--64070927 Score: 123
Period size: 44 Copynumber: 2.0 Consensus size: 45
64070827 AAGTCTTATC
* * *
64070837 TTATGCAATTGTCACGGGTTTAGACTTACGTAGGTTGTGACACAA
1 TTATCCAATTGTCACGGGTTTAGACTTACATAGGCTGTGACACAA
*
64070882 TTATCCAATTGTTACGGGTTT-GACTTACAT-GGACTGTGACACAA
1 TTATCCAATTGTCACGGGTTTAGACTTACATAGG-CTGTGACACAA
64070926 TT
1 TT
64070928 GCTATGTGTG
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 2 0.05
44 20 0.49
45 19 0.46
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.35
Consensus pattern (45 bp):
TTATCCAATTGTCACGGGTTTAGACTTACATAGGCTGTGACACAA
Found at i:64079753 original size:13 final size:14
Alignment explanation
Indices: 64079726--64079754 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64079716 CAAAATAATA
64079726 ATAATAAACTCTTT
1 ATAATAAACTCTTT
64079740 ATAATAAA-TCTTT
1 ATAATAAACTCTTT
64079753 AT
1 AT
64079755 TTTGTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAATAAACTCTTT
Found at i:64093817 original size:60 final size:60
Alignment explanation
Indices: 64093681--64093817 Score: 165
Period size: 58 Copynumber: 2.3 Consensus size: 60
64093671 AAACTGTAAG
*
64093681 AGTTGGGTGACCAAAAAATACAAAATTGAATAGTCGAGTGGCAATTTTGTAACTATTCAT
1 AGTTGGGTGACCAAAAAATACAAAATTGAATAGTCAAGTGGCAATTTTGTAACTATTCAT
* * * * *
64093741 AGTTGGGTGACC-AAAAA-A-AAAATTCTAATAGTTAAGTGATC-ATTTTGTAATTTTTCAT
1 AGTTGGGTGACCAAAAAATACAAAATT-GAATAGTCAAGTG-GCAATTTTGTAACTATTCAT
64093799 AGTTGGGTGACCATAAAAA
1 AGTTGGGTGACCA-AAAAA
64093818 GCTTTCAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
57 6 0.09
58 38 0.57
59 6 0.09
60 17 0.25
ACGTcount: A:0.39, C:0.10, G:0.19, T:0.32
Consensus pattern (60 bp):
AGTTGGGTGACCAAAAAATACAAAATTGAATAGTCAAGTGGCAATTTTGTAACTATTCAT
Found at i:64101187 original size:222 final size:222
Alignment explanation
Indices: 64100801--64101351 Score: 960
Period size: 222 Copynumber: 2.5 Consensus size: 222
64100791 ACATTTAGTT
* *
64100801 ATGAAGAAGAAAATGAGAAATCATCCTCATTGTCAAAGTCCTCCAAAAATACAATAATTCAAGAT
1 ATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGAT
* * * *
64100866 GCACAATATCCAAATGAAATTGGTTCTTAAATCAAAAAATGGATTGAGTCCCTTTCTCAATCCCC
66 GCACAACATCCAAATGAAATTGGTTCTCAAATCAAAAAATGGACTGAGTCCCTCTCTCAATCCCC
* *
64100931 AGAAGCAGCATTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACCCAAATTTCCTCAAAAC
131 AGAAGCAGCAGTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACACAAATTTCCTCAAAAC
*
64100996 CAATTAAGTAATGGTATGAAATTTGCC
196 CAATTAAGTAATGGTATAAAATTTGCC
64101023 ATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGAT
1 ATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGAT
* * *
64101088 GCACAACATCCTAATGAAATTAGTTCTCAAATTAAAAAATGGACTGAGTCCCTCTCTCAATCCCC
66 GCACAACATCCAAATGAAATTGGTTCTCAAATCAAAAAATGGACTGAGTCCCTCTCTCAATCCCC
64101153 AGAAGCAGCAGTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACACAAATTTCCTCAAAAC
131 AGAAGCAGCAGTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACACAAATTTCCTCAAAAC
*
64101218 CAATTAAGTCATGGTATAAAATTTGCC
196 CAATTAAGTAATGGTATAAAATTTGCC
64101245 ATGAATG-AGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
1 ATGAA-GAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGA
*
64101309 TGCACAAGATCCAAATGAAATTGGTTCTCAAATCAAAAAATGG
65 TGCACAACATCCAAATGAAATTGGTTCTCAAATCAAAAAATGG
64101352 GATAGAAGAG
Statistics
Matches: 311, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
222 310 1.00
223 1 0.00
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (222 bp):
ATGAAGAAGAAAATGAGAAATCATCATCATCGTCAAAGTCCTCCAAAAATACAATAATTCAAGAT
GCACAACATCCAAATGAAATTGGTTCTCAAATCAAAAAATGGACTGAGTCCCTCTCTCAATCCCC
AGAAGCAGCAGTGGCCTTTTCACAAATGAAAGAGGAACCATCCAAAACACAAATTTCCTCAAAAC
CAATTAAGTAATGGTATAAAATTTGCC
Found at i:64106239 original size:2 final size:2
Alignment explanation
Indices: 64106232--64106261 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
64106222 TCTAGGTCTT
*
64106232 TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
64106262 ATGAAGACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:64107594 original size:33 final size:32
Alignment explanation
Indices: 64107555--64107634 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 32
64107545 AAAATAAAAA
*
64107555 TCACTCGATCACATATGCACATTCTAAGACTTT
1 TCACTCGATC-CAAATGCACATTCTAAGACTTT
64107588 TCACTCGAATCCAAATGCACATTCTAAGACTTT
1 TCACTCG-ATCCAAATGCACATTCTAAGACTTT
64107621 TCACTCGAATCCAA
1 TCACTCG-ATCCAA
64107635 TTCATTCTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
33 42 0.93
34 3 0.07
ACGTcount: A:0.33, C:0.29, G:0.09, T:0.30
Consensus pattern (32 bp):
TCACTCGATCCAAATGCACATTCTAAGACTTT
Found at i:64118700 original size:2 final size:2
Alignment explanation
Indices: 64118693--64118720 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
64118683 ATCACTCGCA
64118693 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
64118721 GACATGTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64122781 original size:14 final size:12
Alignment explanation
Indices: 64122747--64122773 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
64122737 AGTATAACAA
64122747 TATAAATTTAAT
1 TATAAATTTAAT
64122759 TATAAATTTAAT
1 TATAAATTTAAT
64122771 TAT
1 TAT
64122774 CAAAATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATAAATTTAAT
Found at i:64125532 original size:16 final size:16
Alignment explanation
Indices: 64125511--64125546 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
64125501 TTTGGTTCGC
64125511 TGTATTGAATTAGAGA
1 TGTATTGAATTAGAGA
* *
64125527 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGA
64125543 TGTA
1 TGTA
64125547 ATGGAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (16 bp):
TGTATTGAATTAGAGA
Found at i:64125551 original size:16 final size:16
Alignment explanation
Indices: 64125519--64125564 Score: 65
Period size: 16 Copynumber: 2.9 Consensus size: 16
64125509 GCTGTATTGA
* *
64125519 ATTAGAGATGTATTGG
1 ATTAGAGGTGTAATGG
64125535 ATTAGAGGTGTAATGG
1 ATTAGAGGTGTAATGG
*
64125551 AATAGAGGTGTAAT
1 ATTAGAGGTGTAAT
64125565 AGTAAATCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.33
Consensus pattern (16 bp):
ATTAGAGGTGTAATGG
Found at i:64125808 original size:18 final size:17
Alignment explanation
Indices: 64125786--64125820 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
64125776 TTATTATTAA
*
64125786 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
64125804 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
64125821 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:64125879 original size:61 final size:61
Alignment explanation
Indices: 64125801--64126120 Score: 220
Period size: 61 Copynumber: 5.3 Consensus size: 61
64125791 TTTTAATTAA
* * *
64125801 AATATATAAT-TTAATAAAATTCTTAATAATTAATATTCTGATATGAATTTACTCAAATAAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
* * * * * *
64125862 AATATATGATACTATAAAA-TATAAATTAACATAATTATTATTAAAT--ATATTA-T-AATTAA-
1 AATATATAATACTATAAAATTCTTAA-TAA-TTAA-TATTATTATATGAAT-TTACTCAAATAAT
* * * *
64125921 AATATATAAT-TTAATAAAAGTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
* ** * * * *
64125982 AATATATGATACTATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATCTTAATTAA-
1 AATATATAATACTATAAAATTCTTAATAATT-A-AT-ATTATTATATGAATTTA-CTCAAATAAT
* * *
64126041 AATATATAAT-TTAATAAAATTCTTAATAATTATTATTATTATATGAATTTACTCAAATCAT
1 AATATATAATACT-ATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
*
64126102 AATATATTATACTATAAAA
1 AATATATAATACTATAAAA
64126121 GATAATTTGA
Statistics
Matches: 194, Mismatches: 40, Indels: 50
0.68 0.14 0.18
Matches are distributed among these distances:
57 11 0.06
58 9 0.05
59 48 0.25
60 44 0.23
61 62 0.32
62 10 0.05
63 10 0.05
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
AATATATAATACTATAAAATTCTTAATAATTAATATTATTATATGAATTTACTCAAATAAT
Found at i:64125934 original size:14 final size:15
Alignment explanation
Indices: 64125885--64125936 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
64125875 ATAAAATATA
64125885 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
64125900 TATTAAATATATTAT
1 AATTAAATATATTAT
64125915 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
64125928 AATTTAATA
1 AATTAAATA
64125937 AAAGTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:64126193 original size:120 final size:120
Alignment explanation
Indices: 64125772--64126181 Score: 696
Period size: 120 Copynumber: 3.4 Consensus size: 120
64125762 ATATTTAAAT
64125772 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* * * *
64125837 TCTGATATGAATTTACTCAAATAATAATATATGATACTATAAAATATAAATTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
* *
64125892 ATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAAGTCTTAATAATTAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
64125957 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
* *
64126012 ATAATTATTATTAAATATATCTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTATTAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
* *
64126077 TATTATATGAATTTACTCAAATCATAATATATTATACTATAAAAGATAATTTGAA-
66 TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTT-AAC
* *
64126132 ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
64126182 TAAAATAATT
Statistics
Matches: 274, Mismatches: 15, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
120 272 0.99
121 2 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAATAT
TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGATAATTTAAC
Found at i:64126294 original size:39 final size:40
Alignment explanation
Indices: 64126220--64126304 Score: 154
Period size: 39 Copynumber: 2.1 Consensus size: 40
64126210 TAAGTGAGTA
64126220 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
64126260 AGAATTGAACTCTAAAAAT-AAAAAAAAACATAACCATAT
1 AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
*
64126299 TGAATT
1 AGAATT
64126305 ATCATCAACA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 25 0.57
40 19 0.43
ACGTcount: A:0.60, C:0.12, G:0.06, T:0.22
Consensus pattern (40 bp):
AGAATTGAACTCTAAAAATAAAAAAAAAACATAACCATAT
Found at i:64126966 original size:30 final size:30
Alignment explanation
Indices: 64126920--64127013 Score: 170
Period size: 30 Copynumber: 3.1 Consensus size: 30
64126910 TTTTATTATG
*
64126920 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
64126951 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
64126981 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
64127011 CCA
1 CCA
64127014 TAAATATGGA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
30 55 0.89
31 7 0.11
ACGTcount: A:0.27, C:0.27, G:0.06, T:0.40
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:64126975 original size:15 final size:15
Alignment explanation
Indices: 64126930--64127006 Score: 68
Period size: 15 Copynumber: 5.1 Consensus size: 15
64126920 CCAATATCTC
64126930 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
64126945 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
64126960 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
64126975 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
64126990 GATACCCATATCTTT
1 GATACCCATATCTTT
64127005 GA
1 GA
64127007 CTTTCCATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
14 8 0.17
15 30 0.65
16 8 0.17
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:64135760 original size:118 final size:118
Alignment explanation
Indices: 64135564--64135799 Score: 321
Period size: 118 Copynumber: 2.0 Consensus size: 118
64135554 AAAATGGTTT
** **
64135564 CTAAAAACCATTTTTGGGTGATTGAATTGAAGGGTTTTTTTTTTTTTGAGCTTTAAGGATTTGAT
1 CTAAAAACCATTTTCAGGTGATTGAATTGAAGGG--TAATTTTTTTTGAGCTTTAAGGATTTGAT
* * * *
64135629 TTTTTGTTTTTACACTTTAAAGATTCTTACCTGTATGCCAATGGAAATGTATGGA
64 TTTTTGGTTTTACACTTTAAAGAGTATTACATGTATGCCAATGGAAATGTATGGA
* *
64135684 CTAAAAACCATTTTCATGTGATTGAATTGAAGGG-AATTTTTTTTGAGCTTTTAAGGTTTTGATT
1 CTAAAAACCATTTTCAGGTGATTGAATTGAAGGGTAATTTTTTTTGAGC-TTTAAGGATTTGATT
* * *
64135748 TTTTGGTTTTACACTTTTAAGAGTATTGCATGTATGCCATTGGAAATGTATG
65 TTTTGGTTTTACACTTTAAAGAGTATTACATGTATGCCAATGGAAATGTATG
64135800 AACAACCTTT
Statistics
Matches: 102, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
117 12 0.12
118 59 0.58
120 31 0.30
ACGTcount: A:0.26, C:0.09, G:0.19, T:0.45
Consensus pattern (118 bp):
CTAAAAACCATTTTCAGGTGATTGAATTGAAGGGTAATTTTTTTTGAGCTTTAAGGATTTGATTT
TTTGGTTTTACACTTTAAAGAGTATTACATGTATGCCAATGGAAATGTATGGA
Found at i:64144641 original size:4 final size:4
Alignment explanation
Indices: 64144632--64144680 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
64144622 AATAAGTAAC
64144632 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA ATTA
64144680 A
1 A
64144681 AATTTGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (4 bp):
ATTA
Found at i:64146295 original size:60 final size:58
Alignment explanation
Indices: 64146202--64146324 Score: 210
Period size: 60 Copynumber: 2.1 Consensus size: 58
64146192 TTGTTTTTTA
*
64146202 TAATTATTTTAAAATTAATTTGTTAGCAATTTAGGATTATGTTATAAATTGTTGTGCTT
1 TAATTATTTTAAAATTAATTTATTAGCAATTTAGGATTATGTTATAAATTGTTGTG-TT
*
64146261 GTAATTATTTTAAAATTAATTTATTAGTAATTTAGGATTATGTTATAAATTGTTGTGTT
1 -TAATTATTTTAAAATTAATTTATTAGCAATTTAGGATTATGTTATAAATTGTTGTGTT
64146320 TAATT
1 TAATT
64146325 TAGTATTTGG
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
58 5 0.08
59 2 0.03
60 54 0.89
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (58 bp):
TAATTATTTTAAAATTAATTTATTAGCAATTTAGGATTATGTTATAAATTGTTGTGTT
Found at i:64146638 original size:104 final size:104
Alignment explanation
Indices: 64146511--64146776 Score: 344
Period size: 104 Copynumber: 2.6 Consensus size: 104
64146501 TTGTTATAGT
* *
64146511 TAGTTATTTTATTAGTAATTTATGGGATTAGG-T-TACAAATTGTTAGTGTTTAG-TATAGGGTT
1 TAGTTATTTTGTTAGTAATTTAT--GATTAGGTTATATAAATTGTTAGTGTTTAGTTAT-GGGTT
* ****
64146573 TTGTGGCTTTTTAGTAATGTAACTTTT-TTTTA-AATAATTTTA
63 TTGTGACTTTTTAGTAATGT-A-TTTTAAAAAATAATAATTTTA
* *
64146615 TAGTTATTCTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGTGTTTTG
1 TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGGGTTTTG
*
64146680 TGATTTTTTAGTAATGTATTTTAAAAAATAATAATTTTA
66 TGACTTTTTAGTAATGTATTTTAAAAAATAATAATTTTA
* *
64146719 TAGTTATTTTGTTAGTAATGTATGATTAGGTTATATAAATTGTTAGTGTTTATTTATG
1 TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATG
64146777 ATTAGGTTAT
Statistics
Matches: 144, Mismatches: 13, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
102 11 0.08
103 3 0.02
104 127 0.88
105 3 0.02
ACGTcount: A:0.29, C:0.02, G:0.17, T:0.53
Consensus pattern (104 bp):
TAGTTATTTTGTTAGTAATTTATGATTAGGTTATATAAATTGTTAGTGTTTAGTTATGGGTTTTG
TGACTTTTTAGTAATGTATTTTAAAAAATAATAATTTTA
Found at i:64146780 original size:34 final size:35
Alignment explanation
Indices: 64146739--64146809 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 35
64146729 GTTAGTAATG
64146739 TATGATTAGGTTATATAAATTGTTAGTGTTTA-TT
1 TATGATTAGGTTATATAAATTGTTAGTGTTTAGTT
64146773 TATGATTAGGTTATATAAATTGTTAGTGTTTAGTT
1 TATGATTAGGTTATATAAATTGTTAGTGTTTAGTT
64146808 TA
1 TA
64146810 GTGTTTTGTG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 32 0.89
35 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (35 bp):
TATGATTAGGTTATATAAATTGTTAGTGTTTAGTT
Found at i:64146798 original size:17 final size:17
Alignment explanation
Indices: 64146744--64146798 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
64146734 TAATGTATGA
64146744 TTAGGTTATATAAATTG
1 TTAGGTTATATAAATTG
**
64146761 TTAGTGTT-TATTTA-TG
1 TTAG-GTTATATAAATTG
64146777 ATTAGGTTATATAAATTG
1 -TTAGGTTATATAAATTG
64146795 TTAG
1 TTAG
64146799 TGTTTAGTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 8
0.71 0.10 0.19
Matches are distributed among these distances:
16 5 0.17
17 20 0.67
18 5 0.17
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (17 bp):
TTAGGTTATATAAATTG
Found at i:64154245 original size:52 final size:53
Alignment explanation
Indices: 64154189--64154297 Score: 118
Period size: 52 Copynumber: 2.1 Consensus size: 53
64154179 GACTTAAACG
*
64154189 AATTAAATAAA-AG-ATAAAT-TTAATTTAAATATATATTTAAAATTTAGATGAA
1 AATT-AATAAATAGTATAAATCTT-ATTTAAATATATATTTAAAAATTAGATGAA
* * ** *
64154241 AATT-ATAAATCGTTTTCATCTTATTTAAATATATATTTAAAAATTAGATTAA
1 AATTAATAAATAGTATAAATCTTATTTAAATATATATTTAAAAATTAGATGAA
64154293 AATTA
1 AATTA
64154298 TTATTATTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
50 5 0.11
51 1 0.02
52 39 0.83
53 2 0.04
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (53 bp):
AATTAATAAATAGTATAAATCTTATTTAAATATATATTTAAAAATTAGATGAA
Found at i:64155475 original size:23 final size:22
Alignment explanation
Indices: 64155449--64155492 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
64155439 TAAAAGATGA
*
64155449 AAACAATTAATTGGATCAATTAT
1 AAACAATTAATTAGA-CAATTAT
*
64155472 AAACACTTAATTAGACAATTA
1 AAACAATTAATTAGACAATTA
64155493 ATTAATTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.50, C:0.11, G:0.07, T:0.32
Consensus pattern (22 bp):
AAACAATTAATTAGACAATTAT
Found at i:64161526 original size:29 final size:30
Alignment explanation
Indices: 64161494--64161563 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
64161484 TTAAAAATTT
* *
64161494 AGAATTTAGTTTATGTATTTTT-AT-TTTCA
1 AGAATTTAGTTT-TCTATTTTTCATATTACA
64161523 AGAATTTAGTCTTTCTATTTTTCATATTACA
1 AGAATTTAGT-TTTCTATTTTTCATATTACA
64161554 A-AATTTAGTT
1 AGAATTTAGTT
64161564 CCAATTGTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
29 19 0.53
30 12 0.33
31 5 0.14
ACGTcount: A:0.30, C:0.07, G:0.09, T:0.54
Consensus pattern (30 bp):
AGAATTTAGTTTTCTATTTTTCATATTACA
Found at i:64161761 original size:30 final size:30
Alignment explanation
Indices: 64161713--64161779 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
64161703 CAGTCGGACT
* *
64161713 TAAATT-TTGAAATTTAAAAAGTAGAGA-GAC
1 TAAATTCTTGAAATAT-AAAAGTACA-ATGAC
64161743 TAAATTCTTGAAA-ATAAAAGTACAATGAC
1 TAAATTCTTGAAATATAAAAGTACAATGAC
64161772 TAAATTCT
1 TAAATTCT
64161780 AAATTTTTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
28 1 0.03
29 19 0.58
30 7 0.21
31 6 0.18
ACGTcount: A:0.49, C:0.07, G:0.12, T:0.31
Consensus pattern (30 bp):
TAAATTCTTGAAATATAAAAGTACAATGAC
Found at i:64163586 original size:20 final size:19
Alignment explanation
Indices: 64163557--64163610 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
64163547 ATATATATAC
* *
64163557 AAATACATAAATATCTTAA
1 AAATATATAAAAATCTTAA
*
64163576 AATATATATAATAAATTTTAA
1 AA-ATATATAA-AAATCTTAA
64163597 AAATATATAAAAAT
1 AAATATATAAAAAT
64163611 AATATTGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 6 0.20
20 15 0.50
21 9 0.30
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATATAAAAATCTTAA
Found at i:64163615 original size:11 final size:10
Alignment explanation
Indices: 64163533--64163611 Score: 56
Period size: 10 Copynumber: 7.8 Consensus size: 10
64163523 ATCCTAATTC
*
64163533 TAAAAAAATA
1 TAAAAATATA
64163543 -AAAAATATA
1 TAAAAATATA
*
64163552 TATACAAATACA
1 TA-A-AAATATA
* *
64163564 TAAATATCT-
1 TAAAAATATA
64163573 TAAAATATATA
1 TAAAA-ATATA
*
64163584 TAATAAAT-TT
1 TAA-AAATATA
64163594 TAAAAATATA
1 TAAAAATATA
64163604 TAAAAATA
1 TAAAAATA
64163612 ATATTGTTGA
Statistics
Matches: 53, Mismatches: 9, Indels: 14
0.70 0.12 0.18
Matches are distributed among these distances:
9 16 0.30
10 20 0.38
11 7 0.13
12 10 0.19
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.32
Consensus pattern (10 bp):
TAAAAATATA
Found at i:64163624 original size:26 final size:22
Alignment explanation
Indices: 64163574--64163657 Score: 69
Period size: 22 Copynumber: 3.6 Consensus size: 22
64163564 TAAATATCTT
*
64163574 AAAATATATATAATAAATTTTA
1 AAAATATATAAAATAAATTTTA
64163596 AAAATATATAAAAATAATATTGTTGA
1 AAAATATAT-AAAATAA-ATT-TT-A
* * *
64163622 AAAAAATAATAACATAAAATTTA
1 AAAATAT-ATAAAATAAATTTTA
* *
64163645 AGAATTTATAAAA
1 AAAATATATAAAA
64163658 ATCCATAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
22 14 0.29
23 11 0.22
24 5 0.10
25 4 0.08
26 13 0.27
27 2 0.04
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (22 bp):
AAAATATATAAAATAAATTTTA
Found at i:64170913 original size:3 final size:3
Alignment explanation
Indices: 64170905--64170932 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
64170895 TTAAAAACCG
64170905 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
64170933 TTTTTTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:64173619 original size:6 final size:6
Alignment explanation
Indices: 64173599--64173633 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
64173589 GATTAATACC
*
64173599 AAAATA AAAATTT AAAATT AAAATT AAAATT AAAA
1 AAAATT AAAA-TT AAAATT AAAATT AAAATT AAAA
64173634 GTGAAAACAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (6 bp):
AAAATT
Found at i:64173668 original size:13 final size:13
Alignment explanation
Indices: 64173650--64173677 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
64173640 ACATAAAAAT
64173650 AATAAAAGGGGTA
1 AATAAAAGGGGTA
64173663 AATAAAAGGGGTA
1 AATAAAAGGGGTA
64173676 AA
1 AA
64173678 AATATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (13 bp):
AATAAAAGGGGTA
Found at i:64182220 original size:23 final size:22
Alignment explanation
Indices: 64182189--64182232 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
64182179 GAAATTCCTT
64182189 TTTAATTAAAAATTATACAAAAA
1 TTTAATTAAAAATTATA-AAAAA
*
64182212 TTTAGTTAAAAATTATAAAAA
1 TTTAATTAAAAATTATAAAAA
64182233 TAAAAAGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAATTAAAAATTATAAAAAA
Found at i:64183512 original size:14 final size:14
Alignment explanation
Indices: 64183493--64183520 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
64183483 TCATCATTTG
64183493 CCTATAACCAAAAC
1 CCTATAACCAAAAC
64183507 CCTATAACCAAAAC
1 CCTATAACCAAAAC
64183521 TCATAAACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.36, G:0.00, T:0.14
Consensus pattern (14 bp):
CCTATAACCAAAAC
Found at i:64190398 original size:27 final size:27
Alignment explanation
Indices: 64190362--64190430 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
64190352 AAATAAAAAA
*
64190362 TTACCAAAATGT-TATAATTTTTTTTAT
1 TTACCAAAATATATATAA-TTTTTTTAT
64190389 TTACCAAAATATATATAATTTTTTTAT
1 TTACCAAAATATATATAATTTTTTTAT
64190416 TTACCAAAATATATA
1 TTACCAAAATATATA
64190431 AAAAAACAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 35 0.88
28 5 0.12
ACGTcount: A:0.41, C:0.09, G:0.01, T:0.49
Consensus pattern (27 bp):
TTACCAAAATATATATAATTTTTTTAT
Found at i:64190537 original size:27 final size:27
Alignment explanation
Indices: 64190495--64190547 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
64190485 ACTCCCTGGG
*
64190495 ACAAGGGAACATTGTTGGCGGCACCAA
1 ACAAGGGAACACTGTTGGCGGCACCAA
*
64190522 ACAAGGGAACCCTGTTGGCGGCACCA
1 ACAAGGGAACACTGTTGGCGGCACCA
64190548 CTCGTGTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.26, G:0.30, T:0.13
Consensus pattern (27 bp):
ACAAGGGAACACTGTTGGCGGCACCAA
Found at i:64190820 original size:3 final size:3
Alignment explanation
Indices: 64190812--64190846 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
64190802 AATTTTATAG
64190812 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
64190847 AGATGTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:64190956 original size:12 final size:12
Alignment explanation
Indices: 64190812--64190956 Score: 64
Period size: 12 Copynumber: 11.8 Consensus size: 12
64190802 AATTTTATAG
*
64190812 TATTATTATTAT
1 TATTATTATTAA
*
64190824 TATTATTATTAT
1 TATTATTATTAA
64190836 TATTATTATTAA
1 TATTATTATTAA
* *
64190848 GA-TGTTACTTAA
1 TATTATTA-TTAA
* *
64190860 TATTATTGTTAG
1 TATTATTATTAA
* ** *
64190872 TA-AAAAATTAC
1 TATTATTATTAA
*
64190883 TATTATT-TTTA
1 TATTATTATTAA
64190894 TAGTTAGTTATTAA
1 TA-TTA-TTATTAA
*
64190908 TAATT-TTAGTTAG
1 T-ATTATTA-TTAA
*
64190921 TATTATTTTGTATA
1 TATTATTAT-TA-A
**
64190935 TAAAATTATTAA
1 TATTATTATTAA
64190947 TATTATTATT
1 TATTATTATT
64190957 GTGTTAGTTA
Statistics
Matches: 96, Mismatches: 26, Indels: 22
0.67 0.18 0.15
Matches are distributed among these distances:
11 14 0.15
12 54 0.56
13 15 0.16
14 12 0.12
15 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (12 bp):
TATTATTATTAA
Found at i:64194893 original size:27 final size:27
Alignment explanation
Indices: 64194855--64194907 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
64194845 ATAACACGAG
64194855 TGGTGCCGCCAACAGGGTTCCCTTGTT
1 TGGTGCCGCCAACAGGGTTCCCTTGTT
*
64194882 TGGTGCCGCCAACAGTGTTCCCTTGT
1 TGGTGCCGCCAACAGGGTTCCCTTGT
64194908 CCCAGGGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.11, C:0.30, G:0.28, T:0.30
Consensus pattern (27 bp):
TGGTGCCGCCAACAGGGTTCCCTTGTT
Found at i:64194952 original size:12 final size:11
Alignment explanation
Indices: 64194934--64194963 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
64194924 ATCAGTCTAG
*
64194934 GTTTTTTTTCT
1 GTTTTTTTTTT
64194945 GTTTTTTTTTT
1 GTTTTTTTTTT
64194956 GTTTTTTT
1 GTTTTTTT
64194964 ATATATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.10, T:0.87
Consensus pattern (11 bp):
GTTTTTTTTTT
Found at i:64195026 original size:28 final size:27
Alignment explanation
Indices: 64194960--64195032 Score: 119
Period size: 27 Copynumber: 2.7 Consensus size: 27
64194950 TTTTTTGTTT
64194960 TTTTATATATTTTGGTAAATAAAAAAA
1 TTTTATATATTTTGGTAAATAAAAAAA
*
64194987 TTATATATATTTTGGTAAATAAAAAAA
1 TTTTATATATTTTGGTAAATAAAAAAA
*
64195014 TTTTATAACATTTTGGTAA
1 TTTTAT-ATATTTTGGTAA
64195033 TTTTTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 31 0.74
28 11 0.26
ACGTcount: A:0.45, C:0.01, G:0.08, T:0.45
Consensus pattern (27 bp):
TTTTATATATTTTGGTAAATAAAAAAA
Found at i:64195437 original size:19 final size:18
Alignment explanation
Indices: 64195413--64195450 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
64195403 TGCAATTTTA
*
64195413 ATTATTTAATTTATAATAT
1 ATTATTTAATATA-AATAT
64195432 ATTATTTAATATAAATAT
1 ATTATTTAATATAAATAT
64195450 A
1 A
64195451 ATCTAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATTATTTAATATAAATAT
Done.