Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 187 of 255
Found at i:62009669 original size:9 final size:9
Alignment explanation
Indices: 62009651--62009704 Score: 51
Period size: 9 Copynumber: 6.3 Consensus size: 9
62009641 ACAACTAATC
62009651 GAAAAAGAA
1 GAAAAAGAA
*
62009660 GAAAACGAA
1 GAAAAAGAA
*
62009669 GAAGAAGAA
1 GAAAAAGAA
*
62009678 -AAATAG-A
1 GAAAAAGAA
*
62009685 GAAAAAG-G
1 GAAAAAGAA
62009693 GAAAAAGAA
1 GAAAAAGAA
62009702 GAA
1 GAA
62009705 GAGAGGTTCG
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
7 1 0.03
8 16 0.46
9 18 0.51
ACGTcount: A:0.70, C:0.02, G:0.26, T:0.02
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:62009673 original size:15 final size:15
Alignment explanation
Indices: 62009650--62009679 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
62009640 CACAACTAAT
62009650 CGAAAAAGAAGAAAA
1 CGAAAAAGAAGAAAA
*
62009665 CGAAGAAGAAGAAAA
1 CGAAAAAGAAGAAAA
62009680 ATAGAGAAAA
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:0.70, C:0.07, G:0.23, T:0.00
Consensus pattern (15 bp):
CGAAAAAGAAGAAAA
Found at i:62015031 original size:14 final size:15
Alignment explanation
Indices: 62015012--62015041 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
62015002 GGTCGGGTTT
62015012 GGAGTGT-TATACTC
1 GGAGTGTCTATACTC
62015026 GGAGTGTCTATACTC
1 GGAGTGTCTATACTC
62015041 G
1 G
62015042 ATTTTAGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.20, C:0.17, G:0.30, T:0.33
Consensus pattern (15 bp):
GGAGTGTCTATACTC
Found at i:62016416 original size:108 final size:110
Alignment explanation
Indices: 62016286--62016505 Score: 358
Period size: 108 Copynumber: 2.0 Consensus size: 110
62016276 ATGTTTAGCC
62016286 CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCATTTTTTTG-AAAAATATTTATATTTTTTT
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCA-TTTTTTGAAAAAATATTTATATTTTTTT
*
62016350 AATTTAATGTTTA-AAATTTATATA-TTTTCCCTTTTATCAAAATTG
65 AATGTAATGTTTACAAATTTATATATTTTTCCC-TTTATCAAAATTG
*
62016395 CAAACCCA-TTTAAGTCTACCCATTTTATTTTTTTATTTTTTGAAAAAATATTTATATTTTTTTA
1 CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCATTTTTTGAAAAAATATTTATATTTTTTTA
62016459 ATGTAATGTTTACTAAATTTATATATTTTTTCCCTTTATCAAAATTG
66 ATGTAATGTTTAC-AAATTTATATA-TTTTTCCCTTTATCAAAATTG
62016506 TCATATTACG
Statistics
Matches: 104, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
107 7 0.07
108 58 0.56
109 8 0.08
110 11 0.11
111 13 0.12
112 7 0.07
ACGTcount: A:0.31, C:0.12, G:0.04, T:0.53
Consensus pattern (110 bp):
CAAACCCATTTTAAGTCTACCCATTTTATTTTTTCATTTTTTGAAAAAATATTTATATTTTTTTA
ATGTAATGTTTACAAATTTATATATTTTTCCCTTTATCAAAATTG
Found at i:62019411 original size:17 final size:17
Alignment explanation
Indices: 62019389--62019421 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
62019379 TTTAAATAGA
62019389 TTAGTTGAAGTAAAAAT
1 TTAGTTGAAGTAAAAAT
62019406 TTAGTTGAAGTAAAAA
1 TTAGTTGAAGTAAAAA
62019422 GACACCAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.18, T:0.33
Consensus pattern (17 bp):
TTAGTTGAAGTAAAAAT
Found at i:62024190 original size:12 final size:12
Alignment explanation
Indices: 62024173--62024198 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62024163 TTTTTCCTTC
62024173 TATCAATTATAT
1 TATCAATTATAT
62024185 TATCAATTATAT
1 TATCAATTATAT
62024197 TA
1 TA
62024199 GGGATAGCCA
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:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (12 bp):
TATCAATTATAT
Found at i:62027864 original size:20 final size:20
Alignment explanation
Indices: 62027821--62027866 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
62027811 ACGGGATTTG
* * *
62027821 CACTTTGATGCCCTTGTTTG
1 CACTTTGATGCCCCTGTATA
*
62027841 CACTTTGGTGCCCCTGTATA
1 CACTTTGATGCCCCTGTATA
62027861 CACTTT
1 CACTTT
62027867 ATTGTCTTTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.13, C:0.28, G:0.17, T:0.41
Consensus pattern (20 bp):
CACTTTGATGCCCCTGTATA
Found at i:62037088 original size:3 final size:3
Alignment explanation
Indices: 62037075--62037112 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
62037065 TGCTTTCTAC
*
62037075 AAG AGG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
62037113 AATGATTCGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:62053697 original size:18 final size:18
Alignment explanation
Indices: 62053676--62053710 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62053666 AATCAGCAAT
* *
62053676 CAGTAACGGTAGCAGTAG
1 CAGTAACAGTAACAGTAG
62053694 CAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTA
62053711 TTCAACACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (18 bp):
CAGTAACAGTAACAGTAG
Found at i:62053745 original size:45 final size:45
Alignment explanation
Indices: 62053694--62053800 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
62053684 GTAGCAGTAG
* * *
62053694 CAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTC-AAATCGGTAA
* *
62053739 TAGTAACGGTAACAGTATTCGACACACAAAGTGTCAAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
62053784 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
62053801 ACAGGAGTCG
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCAAATCGGTAA
Found at i:62053795 original size:12 final size:12
Alignment explanation
Indices: 62053778--62053802 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
62053768 AGTGTCAAAT
62053778 CGGTAACAGTAA
1 CGGTAACAGTAA
62053790 CGGTAACAGTAA
1 CGGTAACAGTAA
62053802 C
1 C
62053803 AGGAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:62054057 original size:40 final size:40
Alignment explanation
Indices: 62054005--62054093 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
62053995 GTAATTCACT
* * **
62054005 TTATT-AGAAATTTTACAGTTCAATACAGTATACGTAACA
1 TTATTCAGTAATTTCACAGTTCAATACAGTATACAAAACA
* *
62054044 TTATTCAGTAATTTCACAGTTCAATTCAGTATTCAAAACA
1 TTATTCAGTAATTTCACAGTTCAATACAGTATACAAAACA
*
62054084 ATATTCAGTA
1 TTATTCAGTA
62054094 TCCCATAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 5 0.12
40 37 0.88
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (40 bp):
TTATTCAGTAATTTCACAGTTCAATACAGTATACAAAACA
Found at i:62054886 original size:5 final size:5
Alignment explanation
Indices: 62054876--62054931 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
62054866 TTTATATATA
62054876 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
62054926 ATAAT A
1 ATAAT A
62054932 ATATACTTAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:62058972 original size:93 final size:93
Alignment explanation
Indices: 62058860--62059029 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
62058850 CGCCCATAAG
*
62058860 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
62058924 AACGAGTTCGGATTCCTAGTTACATCTCA
65 AACGAGTTCGGATTCCTAGTTACATCTCA
*
62058953 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
62059018 ACGAGTTCGGAT
66 ACGAGTTCGGAT
62059030 GCTCAATCAT
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATTCCTAGTTACATCTCA
Found at i:62059028 original size:46 final size:45
Alignment explanation
Indices: 62058853--62059027 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
62058843 TGTAACCCGC
* *
62058853 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
*
62058899 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATTC-CTAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* *
62058945 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGCGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
*
62058992 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
62059028 ATGCTCAATC
Statistics
Matches: 111, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 4 0.04
46 63 0.57
47 31 0.28
48 2 0.02
49 5 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:62063289 original size:45 final size:45
Alignment explanation
Indices: 62063239--62063345 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
62063229 GTTGCAGTAG
* * *
62063239 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATTTG-TAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAA-TCGATAA
*
62063284 CAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGATAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
62063329 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
62063346 ACAGTAGTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 2 0.04
45 55 0.96
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGATAA
Found at i:62063602 original size:40 final size:40
Alignment explanation
Indices: 62063558--62063638 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
62063548 CTTCATTAGA
* ** *
62063558 AATTTTACAGTTCAATGCAGTATACGTAACATTATTCAGT
1 AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAGT
* *
62063598 AATTTCACAGTTCAATTCAGTATTCAAAACAATATTCAGT
1 AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAGT
62063638 A
1 A
62063639 TCCCATAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (40 bp):
AATTTCACAGTTCAATGCAGTATACAAAACAATATTCAGT
Found at i:62064427 original size:5 final size:5
Alignment explanation
Indices: 62064417--62064451 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
62064407 TTTCTTTTAT
62064417 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA
62064452 CTTAATTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:62066478 original size:16 final size:16
Alignment explanation
Indices: 62066457--62066489 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
62066447 TAGTTAATAC
62066457 TTTTATTTTTTTAAAT
1 TTTTATTTTTTTAAAT
62066473 TTTTATTTTTTTAAAT
1 TTTTATTTTTTTAAAT
62066489 T
1 T
62066490 GTGTGTCTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATTTTTTTAAAT
Found at i:62082315 original size:47 final size:47
Alignment explanation
Indices: 62082214--62082383 Score: 168
Period size: 47 Copynumber: 3.6 Consensus size: 47
62082204 GGAAATTGAG
* * * ** *
62082214 ATCCGAACTCGTTGAGTTGTGGTCCGAGTTC-GTGA-GAATTATGAGGC
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCACT-ATGGA-TGCGAAGC
* *
62082261 ATTCGAACTCGTTGAGTTGTGTTTCGAGTTCACCTATGGATG-GAAGC
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCA-CTATGGATGCGAAGC
*
62082308 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-C
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCACTATGGATGCGAAGC
* * **
62082354 ACCCGAGCTCGTTGAGTTGCATTCCGAGTT
1 ATCCGAACTCGTTGAGTTGTGTTCCGAGTT
62082384 TATTATGGGT
Statistics
Matches: 105, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
46 35 0.33
47 65 0.62
48 2 0.02
49 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (47 bp):
ATCCGAACTCGTTGAGTTGTGTTCCGAGTTCACTATGGATGCGAAGC
Found at i:62082365 original size:46 final size:46
Alignment explanation
Indices: 62082264--62082391 Score: 168
Period size: 46 Copynumber: 2.8 Consensus size: 46
62082254 ATGAGGCATT
* * *
62082264 CGAACTCGTTGAGTTGTGTTTCGAGTTCACCTATGGATGGAAGCATC
1 CGAACTCGTTGAGTTGTGTTCCGAGTTCA-TTATGGATGGAAGCACC
62082311 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGCGAA-CACC
1 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATG-GAAGCACC
* ** *
62082357 CGAGCTCGTTGAGTTGCATTCCGAGTTTATTATGG
1 CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGG
62082392 GTGAGATTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
46 42 0.58
47 31 0.42
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGTGTTCCGAGTTCATTATGGATGGAAGCACC
Found at i:62090854 original size:42 final size:43
Alignment explanation
Indices: 62090749--62090855 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
62090739 TAGCCCAGCT
* *
62090749 ATGGTCTTACACAAAATCAAATAACGATGCCAATGTCCCAAAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
* * **
62090792 ATGGTCTTACACGTAATCACATAATGATGCCAATGT-CCTGAC
1 ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
*
62090834 ATGGTCTTACACATAGTCACAT
1 ATGGTCTTACACATAATCACAT
62090856 CTCGTTAATC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 24 0.43
43 32 0.57
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACATAATCACATAACGATGCCAATGTCCCAAAC
Found at i:62097858 original size:137 final size:137
Alignment explanation
Indices: 62097686--62097962 Score: 482
Period size: 137 Copynumber: 2.0 Consensus size: 137
62097676 AAAAAATGTT
* *
62097686 AAACTAGCAATAATGTTTATACCGGCTAAGTTAAGATTGAGTCAACAATGAAATCAATATTTAAA
1 AAACTAGCAATAATGTTTATACCGGCTAAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
* * *
62097751 ACATGAGAAATTTTTTGAAAAATTTAGTAATTTATAATGCATAAATTTACTCAAAACATTGAAAT
66 ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
62097816 TTTTAAA
131 TTTTAAA
* *
62097823 AAACTAGCAATAATGTTTATACTGGCTGAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
1 AAACTAGCAATAATGTTTATACCGGCTAAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
62097888 ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
66 ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
*
62097953 TTTTTAA
131 TTTTAAA
62097960 AAA
1 AAA
62097963 TTTGAGTAAT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.34
Consensus pattern (137 bp):
AAACTAGCAATAATGTTTATACCGGCTAAGCTAAGATTCAGTCAACAATGAAATCAATATTTAAA
ACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAATTACTCAAAACATTGAAAT
TTTTAAA
Found at i:62097999 original size:55 final size:54
Alignment explanation
Indices: 62097880--62098010 Score: 131
Period size: 55 Copynumber: 2.4 Consensus size: 54
62097870 ATGAAATCAA
* * *
62097880 TATTTAAAACATGAGAAATGTTTTGAAAAATTTAGTAATTTATAATACATAAAAT
1 TATTAAAAACAT-TGAAATGTTTTGAAAAATTTAGTAATTCATAATACATAAAAT
* * * * * *
62097935 TACTCAAAACATTGAAAT-TTTTTAAAAATTTGAGTAATTCGTAATATATGATAAT
1 TATTAAAAACATTGAAATGTTTTGAAAAATTT-AGTAATTCATAATACAT-AAAAT
62097990 TATTAAAAACATT-AAAGTGTT
1 TATTAAAAACATTGAAA-TGTT
62098011 AATTACAAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
53 12 0.19
54 22 0.35
55 26 0.42
56 2 0.03
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.39
Consensus pattern (54 bp):
TATTAAAAACATTGAAATGTTTTGAAAAATTTAGTAATTCATAATACATAAAAT
Found at i:62098317 original size:14 final size:14
Alignment explanation
Indices: 62098298--62098324 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62098288 TCTAATCTAA
62098298 TCGAGTAAAATTAT
1 TCGAGTAAAATTAT
62098312 TCGAGTAAAATTA
1 TCGAGTAAAATTA
62098325 AAAAAAAAGT
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:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (14 bp):
TCGAGTAAAATTAT
Found at i:62098619 original size:25 final size:25
Alignment explanation
Indices: 62098560--62098621 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
62098550 TTATAAAATT
*
62098560 ATTATAATTTTTTTAACAATATAAA
1 ATTATAATTTTTATAACAATATAAA
* * *
62098585 ATTTAGAATTTTTATAA-ATATTTTAA
1 A-TTATAATTTTTATAACA-ATATAAA
62098611 ATTATAATTTT
1 ATTATAATTTT
62098622 ATTTTGAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTATAATTTTTATAACAATATAAA
Found at i:62102582 original size:22 final size:22
Alignment explanation
Indices: 62102554--62102597 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
62102544 TAGGATTTTA
62102554 AATATTTTTAGATTTAGGGTTT
1 AATATTTTTAGATTTAGGGTTT
*
62102576 AATATTTTTAGGTTTAGGGTTT
1 AATATTTTTAGATTTAGGGTTT
62102598 TTAAAAAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
AATATTTTTAGATTTAGGGTTT
Found at i:62105381 original size:27 final size:27
Alignment explanation
Indices: 62105343--62105396 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
62105333 GTACTAGAAG
62105343 TTAGAATGAAATACCCAAACAAAGATA
1 TTAGAATGAAATACCCAAACAAAGATA
62105370 TTAGAATGAAATACCCAAACAAAGATA
1 TTAGAATGAAATACCCAAACAAAGATA
62105397 CTTTTCTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.56, C:0.15, G:0.11, T:0.19
Consensus pattern (27 bp):
TTAGAATGAAATACCCAAACAAAGATA
Found at i:62114222 original size:25 final size:25
Alignment explanation
Indices: 62114194--62114256 Score: 90
Period size: 25 Copynumber: 2.5 Consensus size: 25
62114184 ATGATATAAT
62114194 ACTTATTATAATCTTCTAAATTATA
1 ACTTATTATAATCTTCTAAATTATA
* *
62114219 ACTTATTATATTCTTTTAAATTATA
1 ACTTATTATAATCTTCTAAATTATA
*
62114244 ATTTTATTATAAT
1 A-CTTATTATAAT
62114257 TTAATATTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
25 24 0.73
26 9 0.27
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (25 bp):
ACTTATTATAATCTTCTAAATTATA
Found at i:62118874 original size:17 final size:18
Alignment explanation
Indices: 62118852--62118885 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62118842 GAACCTAAAC
62118852 TAACC-GACAACATATAG
1 TAACCGGACAACATATAG
*
62118869 TAACCGGACAACCTATA
1 TAACCGGACAACATATA
62118886 ATTTCATAAA
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:0.44, C:0.26, G:0.12, T:0.18
Consensus pattern (18 bp):
TAACCGGACAACATATAG
Found at i:62129366 original size:40 final size:40
Alignment explanation
Indices: 62129269--62129366 Score: 94
Period size: 40 Copynumber: 2.4 Consensus size: 40
62129259 TTTAATTAAT
*
62129269 TTTTTAAAATTTAAAAAATATTTTTATAAGTTTTTCCTTAA
1 TTTTT-AAATTTAAAAAATATTTTTATAAGTTTTTCCTAAA
** * *
62129310 -CCTTAAACTTATAAAAATACTTTTTATAA-TTTTTTC-AAA
1 TTTTTAAATTTA-AAAAATA-TTTTTATAAGTTTTTCCTAAA
62129349 TTTTTAAATTTTAAAAAA
1 TTTTTAAA-TTTAAAAAA
62129367 ATTAAGTAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 9
0.73 0.13 0.15
Matches are distributed among these distances:
39 8 0.18
40 25 0.56
41 12 0.27
ACGTcount: A:0.42, C:0.07, G:0.01, T:0.50
Consensus pattern (40 bp):
TTTTTAAATTTAAAAAATATTTTTATAAGTTTTTCCTAAA
Found at i:62129696 original size:41 final size:41
Alignment explanation
Indices: 62129639--62129717 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
62129629 CTAAAAAGGG
62129639 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGACAAA
1 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGACAAA
62129680 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGAC
1 AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGAC
62129718 CAAACCTCCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.39, C:0.25, G:0.13, T:0.23
Consensus pattern (41 bp):
AAACAACTGACCTTAAGATGTACTCCATTCTCAAGGACAAA
Found at i:62132491 original size:21 final size:21
Alignment explanation
Indices: 62132466--62132507 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
62132456 CCTAAACTTA
*
62132466 TAAAAATATTTTTTA-AATTT
1 TAAAAATAGTTTTTATAATTT
62132486 TAAAAATAGTTTTTATAATTT
1 TAAAAATAGTTTTTATAATTT
62132507 T
1 T
62132508 TTTGAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TAAAAATAGTTTTTATAATTT
Found at i:62133611 original size:3 final size:3
Alignment explanation
Indices: 62133603--62133635 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
62133593 TATATAGAAT
62133603 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
62133636 ATGTCCGATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:62133794 original size:13 final size:13
Alignment explanation
Indices: 62133763--62133799 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
62133753 ATTTTTTATT
62133763 AAAAATTATATTTA
1 AAAAATTAT-TTTA
*
62133777 TAAAATTATTTTA
1 AAAAATTATTTTA
62133790 AAAAATTATT
1 AAAAATTATT
62133800 ATTGGCAGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAAATTATTTTA
Found at i:62134901 original size:31 final size:31
Alignment explanation
Indices: 62134863--62134925 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
62134853 TCTTTAAAGG
62134863 GTAAAGATAACCTATATTATCAATGTCATGT
1 GTAAAGATAACCTATATTATCAATGTCATGT
*
62134894 GTAAAGATAACCTATGTTATCAATGTCATGT
1 GTAAAGATAACCTATATTATCAATGTCATGT
62134925 G
1 G
62134926 AAACATTATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (31 bp):
GTAAAGATAACCTATATTATCAATGTCATGT
Found at i:62137596 original size:41 final size:40
Alignment explanation
Indices: 62137426--62137599 Score: 214
Period size: 40 Copynumber: 4.4 Consensus size: 40
62137416 AAGCCAAGTA
* * *
62137426 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
62137464 CCTTCGAGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
62137504 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
62137544 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
62137585 CCTTCGGGACTTAGC
1 CCTTCGGGACTTAGC
62137600 TCGGTTATCA
Statistics
Matches: 121, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
38 11 0.09
39 18 0.15
40 68 0.56
41 20 0.17
42 4 0.03
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:62140980 original size:48 final size:46
Alignment explanation
Indices: 62140868--62140988 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
62140858 AGATATGTGT
* * * *
62140868 GCTAGTATAAGACATGTCTAGGACATGCATTGGCATTGAGACAAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATCGAGACAAAA
* * * *
62140914 GCTAATGTAAGGCATGTCTGGGACATGCATTGGCCTCGAGATAGACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATCGAGACA-A-AA
*
62140962 GCTAGTGTAAGACTTGTCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
62140989 GCGTCAGCTT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
46 36 0.58
47 1 0.02
48 25 0.40
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATTGGCATCGAGACAAAA
Found at i:62141111 original size:49 final size:49
Alignment explanation
Indices: 62141008--62141117 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 49
62140998 TGTTGTGTGT
* * *
62141008 CAGTGTAAGACTTGTCTGGGACATGGCATCGACACTGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTCATAGATGAAAGC
* * *
62141057 TAGTGTAAGACCTGTCTGGGACATGGCATCGGC-CTCACTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTCA-TAGATGAAAGC
62141106 CAGTGTAAGACC
1 CAGTGTAAGACC
62141118 ATGTTTGAGA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 3 0.06
49 50 0.94
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACACTCATAGATGAAAGC
Found at i:62141949 original size:13 final size:13
Alignment explanation
Indices: 62141931--62141957 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
62141921 TTACGAGCTA
62141931 TTATTCGGCCGTG
1 TTATTCGGCCGTG
62141944 TTATTCGGCCGTG
1 TTATTCGGCCGTG
62141957 T
1 T
62141958 GTGCTCTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.07, C:0.22, G:0.30, T:0.41
Consensus pattern (13 bp):
TTATTCGGCCGTG
Found at i:62143554 original size:13 final size:13
Alignment explanation
Indices: 62143536--62143563 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
62143526 GAAATTATTC
62143536 CTCTAATTAATGT
1 CTCTAATTAATGT
62143549 CTCTAATTAATGT
1 CTCTAATTAATGT
62143562 CT
1 CT
62143564 AAACCATTAC
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:0.29, C:0.18, G:0.07, T:0.46
Consensus pattern (13 bp):
CTCTAATTAATGT
Found at i:62157164 original size:29 final size:29
Alignment explanation
Indices: 62157124--62157283 Score: 155
Period size: 29 Copynumber: 5.6 Consensus size: 29
62157114 AAATTTATAG
* * *
62157124 TTTTGCCCCTATATTTCTAGATTTTTCAA
1 TTTTGCCACTATTTTTCTAGATTTTACAA
* * *
62157153 TTATGCCACTATTTTTCTAAATTTTACAG
1 TTTTGCCACTATTTTTCTAGATTTTACAA
* *
62157182 TTTTGCCACTAGTTTTCCAGAGTTTT-CAA
1 TTTTGCCACTATTTTTCTAGA-TTTTACAA
*** * *
62157211 TTCAACCACT-TTTTTTTATATTTTACAA
1 TTTTGCCACTATTTTTCTAGATTTTACAA
* *
62157239 TTTTGCCACTATTTTT-AAGATTGTACAA
1 TTTTGCCACTATTTTTCTAGATTTTACAA
62157267 TTTTGCCACTATTTTTC
1 TTTTGCCACTATTTTTC
62157284 ACAAAAATTA
Statistics
Matches: 103, Mismatches: 24, Indels: 8
0.76 0.18 0.06
Matches are distributed among these distances:
27 4 0.04
28 41 0.40
29 54 0.52
30 4 0.04
ACGTcount: A:0.24, C:0.19, G:0.07, T:0.50
Consensus pattern (29 bp):
TTTTGCCACTATTTTTCTAGATTTTACAA
Found at i:62157184 original size:58 final size:57
Alignment explanation
Indices: 62157117--62157283 Score: 178
Period size: 58 Copynumber: 2.9 Consensus size: 57
62157107 TTTCCAGAAA
* *
62157117 TTTATAGTTTTGCCCCTATATTTCTAGATTTTTCAATTATGCCACTATTTTTCTAAAT
1 TTTACAGTTTTGCCACTAT-TTTCTAGATTTTTCAATTATGCCACTATTTTTCTAAAT
* * * * *
62157175 TTTACAGTTTTGCCACTAGTTTTCCAGAGTTTTCAATTCA-ACCACT-TTTTTTTATAT
1 TTTACAGTTTTGCCACTA-TTTTCTAGATTTTTCAATT-ATGCCACTATTTTTCTAAAT
* * * *
62157232 TTTACAATTTTGCCACTATTTT-TAAGATTGTACAATTTTGCCACTATTTTTC
1 TTTACAGTTTTGCCACTATTTTCT-AGATTTTTCAATTATGCCACTATTTTTC
62157284 ACAAAAATTA
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
56 19 0.21
57 31 0.35
58 37 0.42
59 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.50
Consensus pattern (57 bp):
TTTACAGTTTTGCCACTATTTTCTAGATTTTTCAATTATGCCACTATTTTTCTAAAT
Found at i:62157247 original size:28 final size:28
Alignment explanation
Indices: 62157124--62157282 Score: 140
Period size: 28 Copynumber: 5.6 Consensus size: 28
62157114 AAATTTATAG
* * *
62157124 TTTTGCCCCTATATTTCTAGATTTTTCAA
1 TTTTGCCACTAT-TTTTTAGATTTTACAA
* * *
62157153 TTATGCCACTATTTTTCTAAATTTTACAG
1 TTTTGCCACTATTTTT-TAGATTTTACAA
**
62157182 TTTTGCCACTAGTTTTCCAGAGTTTT-CAA
1 TTTTGCCACTA-TTTTTTAGA-TTTTACAA
*** * *
62157211 TTCAACCACTTTTTTTTATATTTTACAA
1 TTTTGCCACTATTTTTTAGATTTTACAA
* *
62157239 TTTTGCCACTATTTTTAAGATTGTACAA
1 TTTTGCCACTATTTTTTAGATTTTACAA
62157267 TTTTGCCACTATTTTT
1 TTTTGCCACTATTTTT
62157283 CACAAAAATT
Statistics
Matches: 101, Mismatches: 25, Indels: 9
0.75 0.19 0.07
Matches are distributed among these distances:
27 4 0.04
28 49 0.49
29 40 0.40
30 8 0.08
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.50
Consensus pattern (28 bp):
TTTTGCCACTATTTTTTAGATTTTACAA
Found at i:62157649 original size:15 final size:15
Alignment explanation
Indices: 62157629--62157657 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62157619 ATAATGATAT
62157629 TGATTGATTGCATTA
1 TGATTGATTGCATTA
62157644 TGATTGATTGCATT
1 TGATTGATTGCATT
62157658 GTATTTGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.24, C:0.07, G:0.21, T:0.48
Consensus pattern (15 bp):
TGATTGATTGCATTA
Found at i:62158294 original size:17 final size:17
Alignment explanation
Indices: 62158274--62158347 Score: 53
Period size: 17 Copynumber: 4.2 Consensus size: 17
62158264 GACTATTTGT
*
62158274 TATGTTAAATTGATTGA
1 TATGTGAAATTGATTGA
*
62158291 TATGTGAAATTGTTTG-
1 TATGTGAAATTGATTGA
62158307 TCAT-TGTATTGAATTGATTGA
1 T-ATGTG-A---AATTGATTGA
* *
62158328 TATATGAAATTGTTTGA
1 TATGTGAAATTGATTGA
62158345 TAT
1 TAT
62158348 TACTTACAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 14
0.72 0.06 0.22
Matches are distributed among these distances:
16 3 0.07
17 29 0.63
20 11 0.24
21 3 0.07
ACGTcount: A:0.31, C:0.01, G:0.19, T:0.49
Consensus pattern (17 bp):
TATGTGAAATTGATTGA
Found at i:62164048 original size:33 final size:33
Alignment explanation
Indices: 62164006--62164071 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
62163996 CCCGAGTCAG
62164006 TGTACTATATGGGGAACCAACATCAAATTAGGA
1 TGTACTATATGGGGAACCAACATCAAATTAGGA
62164039 TGTACTATATGGGGAACCAACATCAAATTAGGA
1 TGTACTATATGGGGAACCAACATCAAATTAGGA
62164072 GTGGACAAGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.24
Consensus pattern (33 bp):
TGTACTATATGGGGAACCAACATCAAATTAGGA
Found at i:62179622 original size:49 final size:48
Alignment explanation
Indices: 62179569--62179727 Score: 148
Period size: 48 Copynumber: 3.3 Consensus size: 48
62179559 AGAATTATCC
*
62179569 GGGACATGACATCGACACTGATAAATGAGAGCCAGTGTAAGACCTGTCT
1 GGGACATGACATCG-CACTGATAAATGAAAGCCAGTGTAAGACCTGTCT
* * *
62179618 GGGACATGGCATTGGC-CTCGATAAATGAAAG-TAGTGTAAGACCTGTCT
1 GGGACATGACA-TCGCACT-GATAAATGAAAGCCAGTGTAAGACCTGTCT
* * * *
62179666 GGGACACGACATTG-ACT-TTAATATGCTAA-CCAGTGTAAGACCATGTCT
1 GGGACATGACATCGCACTGATAA-ATG-AAAGCCAGTGTAAGACC-TGTCT
*
62179714 GGGACATGGCATCG
1 GGGACATGACATCG
62179728 GCATTTGATC
Statistics
Matches: 90, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
45 3 0.03
46 3 0.03
47 17 0.19
48 43 0.48
49 22 0.24
50 2 0.02
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.23
Consensus pattern (48 bp):
GGGACATGACATCGCACTGATAAATGAAAGCCAGTGTAAGACCTGTCT
Found at i:62183860 original size:50 final size:50
Alignment explanation
Indices: 62183731--62184023 Score: 300
Period size: 50 Copynumber: 5.8 Consensus size: 50
62183721 AACTGAAGCT
* * * * * *
62183731 ATCTGGTACGCATAGTAGGCTGCACTTAGTACTACACATGCGATC-AACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
*
62183780 ATCTGGTACACGTAGTAGCCTGCATTTAGTACTACACATGTGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
** * * * * * **
62183830 ATCTAATACATGTAATAGCCTGCACTTAGTATTACACATGTGATCGAAGGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAA-CC
* * * *
62183881 TTCGGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
* *
62183931 ATCTGGTACACGTAGTAGCCTGTACTTAGTACTACACACGTGACCTACAACC
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCT--AACC
*** * * *
62183983 ATCTTAAACACATAATAGCCTGCACATAGTACTACACATGT
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGT
62184024 ATTCTCACAA
Statistics
Matches: 196, Mismatches: 44, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 39 0.20
50 83 0.42
51 37 0.19
52 37 0.19
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (50 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAACC
Found at i:62183926 original size:101 final size:99
Alignment explanation
Indices: 62183750--62184022 Score: 303
Period size: 101 Copynumber: 2.7 Consensus size: 99
62183740 GCATAGTAGG
* * * *
62183750 CTGCACTTAGTACTACACATGCGATCAACAATCTGGTACACGTAGTAGCCTGCATTTAGTACTAC
1 CTGCACTTAGTACTACACATGTGATCAACAATCGGGTACACATAGTAGCCTGCACTTAGTACTAC
* *
62183815 ACATGTGACCTAACCATCTAATACATGTAATAGC
66 ACATGCGACCTAACCATCTAATACACGTAATAGC
* ***
62183849 CTGCACTTAGTATTACACATGTGATCGAAGGTTTCGGGTACACATAGTAGCCTGCACTTAGTACT
1 CTGCACTTAGTACTACACATGTGATC-AA-CAATCGGGTACACATAGTAGCCTGCACTTAGTACT
** *
62183914 ACACATGCGACCTAACCATCTGGTACACGTAGTAGC
64 ACACATGCGACCTAACCATCTAATACACGTAATAGC
* * * **** * *
62183950 CTGTACTTAGTACTACACACGTGACCTACAACCATCTTAAACACATAATAGCCTGCACATAGTAC
1 CTGCACTTAGTACTACACATGTGA--T-CAACAATCGGGTACACATAGTAGCCTGCACTTAGTAC
62184015 TACACATG
63 TACACATG
62184023 TATTCTCACA
Statistics
Matches: 144, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
99 24 0.17
100 2 0.01
101 81 0.56
102 33 0.23
103 3 0.02
104 1 0.01
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (99 bp):
CTGCACTTAGTACTACACATGTGATCAACAATCGGGTACACATAGTAGCCTGCACTTAGTACTAC
ACATGCGACCTAACCATCTAATACACGTAATAGC
Found at i:62187157 original size:79 final size:79
Alignment explanation
Indices: 62187026--62187184 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
62187016 AGGAAAGACT
62187026 TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
1 TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
62187091 CATTCATTACTTCA
66 CATTCATTACTTCA
* *
62187105 TGGTATTTAAGCAGTCTTAATGACTTACCTCACTTTCTTTACAACCCTACCTGGTGTTCAGTTTT
1 TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
62187170 CATTCATTACTTCA
66 CATTCATTACTTCA
62187184 T
1 T
62187185 TCTTGCAATG
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.23, C:0.25, G:0.11, T:0.42
Consensus pattern (79 bp):
TGGTATTTAAGCAGTCTTAATGACTCACCTCACTTTCTTTACAACCCTACCTGGTGTTCAATTTT
CATTCATTACTTCA
Found at i:62197177 original size:16 final size:16
Alignment explanation
Indices: 62197144--62197175 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
62197134 TATTATTATT
62197144 ATTATTAATTTTTTAA
1 ATTATTAATTTTTTAA
62197160 ATTATT-ATTTTTTAA
1 ATTATTAATTTTTTAA
62197175 A
1 A
62197176 ATATGCAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATTATTAATTTTTTAA
Found at i:62201295 original size:28 final size:27
Alignment explanation
Indices: 62201263--62201389 Score: 98
Period size: 28 Copynumber: 4.6 Consensus size: 27
62201253 ATTTGATACC
62201263 GAGCACTAAGTGTGCGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATCGGT-ATT
* * *
62201291 GAGCACTAAGTGTGC-AACTTGGTTTT
1 GAGCACTAAGTGTGCGAAATCGGTATT
* * * * *
62201317 AAGCATTAAGTGTG-TAATTTGG-ATTT
1 GAGCACTAAGTGTGCGAAATCGGTA-TT
*
62201343 CCGAGCACTAAGTGTACGAAATCGGTTATT
1 --GAGCACTAAGTGTGCGAAATCGG-TATT
*
62201373 GAACACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
62201390 GAAAATTTTT
Statistics
Matches: 77, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
26 22 0.29
27 6 0.08
28 41 0.53
29 5 0.06
30 2 0.03
31 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATCGGTATT
Found at i:62206089 original size:40 final size:39
Alignment explanation
Indices: 62205998--62206180 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 39
62205988 TCCTCGTTCA
* * *
62205998 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
62206037 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
62206076 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
62206116 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
62206157 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
62206181 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 37 0.30
40 77 0.63
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:62206189 original size:41 final size:41
Alignment explanation
Indices: 62206112--62206189 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
62206102 TTAGTATCTC
* * *
62206112 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
62206153 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
62206190 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:62213947 original size:40 final size:39
Alignment explanation
Indices: 62213856--62214038 Score: 179
Period size: 40 Copynumber: 4.6 Consensus size: 39
62213846 TCCTCGTTCA
* * * *
62213856 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
62213895 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCATG
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA-C
*
62213935 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* ** * * * *
62213974 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
62214015 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
62214039 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
39 36 0.30
40 76 0.63
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:62214047 original size:41 final size:41
Alignment explanation
Indices: 62213970--62214047 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
62213960 TTAGTATCTC
* * *
62213970 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
62214011 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
62214048 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:62218334 original size:40 final size:40
Alignment explanation
Indices: 62218279--62218460 Score: 287
Period size: 40 Copynumber: 4.6 Consensus size: 40
62218269 TATTCGAATG
62218279 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
62218319 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
*
62218359 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
* *
62218399 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACT
* *
62218439 ATATCC-GACTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
62218461 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 13 0.10
40 116 0.88
41 3 0.02
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACT
Found at i:62234582 original size:42 final size:41
Alignment explanation
Indices: 62234530--62234684 Score: 150
Period size: 42 Copynumber: 3.7 Consensus size: 41
62234520 CTAAGACTAT
* *
62234530 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGA-TTC
* * * *
62234572 GTGTGAGACCATAT-TCAGGATATGGAATTGATGTGAGATTTC
1 GTGTAAGACCATATCT-GGGATATGGCATCGATGTGAGA-TTC
* * * * *
62234614 TTGTAAGACCATAGCTGGGCTATTGGCATCGATGCGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATGTGAGAT-TC
*
62234657 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
62234685 TGGTATGGTA
Statistics
Matches: 90, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 55 0.61
43 34 0.38
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATGTGAGATTC
Found at i:62237245 original size:46 final size:46
Alignment explanation
Indices: 62237195--62237556 Score: 388
Period size: 46 Copynumber: 7.8 Consensus size: 46
62237185 TGGTTGAGCA
62237195 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62237241 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
62237286 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62237334 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
62237379 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62237427 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
62237472 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
62237520 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62237557 GCGGGTTACA
Statistics
Matches: 267, Mismatches: 22, Indels: 54
0.78 0.06 0.16
Matches are distributed among these distances:
42 6 0.02
43 15 0.06
45 9 0.03
46 121 0.45
47 87 0.33
48 9 0.03
50 14 0.05
51 6 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:62237351 original size:93 final size:93
Alignment explanation
Indices: 62237192--62237549 Score: 689
Period size: 93 Copynumber: 3.8 Consensus size: 93
62237182 GGATGGTTGA
62237192 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
62237257 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
62237285 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
62237350 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
62237378 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
62237443 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
62237471 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
62237536 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
62237550 CTTATGGGCG
Statistics
Matches: 262, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 262 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:62239205 original size:8 final size:8
Alignment explanation
Indices: 62239187--62239220 Score: 59
Period size: 8 Copynumber: 4.1 Consensus size: 8
62239177 CAAATGTACG
62239187 ACCTCCCCC
1 ACCT-CCCC
62239196 ACCTCCCC
1 ACCTCCCC
62239204 ACCTCCCC
1 ACCTCCCC
62239212 ACCTCCCC
1 ACCTCCCC
62239220 A
1 A
62239221 ATTCCTCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 21 0.84
9 4 0.16
ACGTcount: A:0.15, C:0.74, G:0.00, T:0.12
Consensus pattern (8 bp):
ACCTCCCC
Found at i:62243201 original size:39 final size:40
Alignment explanation
Indices: 62243100--62243363 Score: 310
Period size: 40 Copynumber: 6.7 Consensus size: 40
62243090 TTGAATGATG
* *
62243100 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
62243139 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
62243180 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
62243219 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
62243258 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
62243298 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
62243337 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
62243364 AACGAGGAGC
Statistics
Matches: 202, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
39 73 0.36
40 116 0.57
41 12 0.06
42 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:62243381 original size:80 final size:77
Alignment explanation
Indices: 62243101--62243396 Score: 280
Period size: 80 Copynumber: 3.7 Consensus size: 77
62243091 TGAATGATGT
* * **
62243101 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAG-GACTA-ATCCGGGTTAAG-TCCCGAAGGCATT
*
62243164 TGTGCGAGA-TACTAATT
62 TGTGCGA-ATTACTAA-A
* * *
62243181 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAG-CCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACTAA-TCCGGGTTAAGTCCCGAAGGCATTTG
*
62243244 TGCGAGTTACTAAA
64 TGCGAATTACTAAA
* *
62243258 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-GACT-AATCCGGGTTAAGTCCCGAAGGCATTT
62243323 GTGCGAATTACTATAA
63 GTGCGAATTACTA-AA
* ** * *
62243339 CCGGGCTATGTCCCGAAGGCATTTGAACGAGGAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGA-CTA-ATCCGGGTTAAGTCCCGAAGG
62243397 TACGTGATTT
Statistics
Matches: 185, Mismatches: 20, Indels: 23
0.81 0.09 0.10
Matches are distributed among these distances:
78 34 0.18
79 72 0.39
80 77 0.42
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (77 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGGACTAATCCGGGTTAAGTCCCGAAGGCATTTGTG
CGAATTACTAAA
Found at i:62245671 original size:27 final size:27
Alignment explanation
Indices: 62245653--62245721 Score: 111
Period size: 27 Copynumber: 2.6 Consensus size: 27
62245643 GTAGGCTACT
62245653 ATTACTGAAATACCCCTGTAGGATAGA
1 ATTACTGAAATACCCCTGTAGGATAGA
* *
62245680 ATTACTGAAATGCCTCTGTAGGATAGA
1 ATTACTGAAATACCCCTGTAGGATAGA
*
62245707 ATTACAGAAATACCC
1 ATTACTGAAATACCC
62245722 TTAGTTTACA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (27 bp):
ATTACTGAAATACCCCTGTAGGATAGA
Found at i:62245736 original size:27 final size:27
Alignment explanation
Indices: 62245706--62246075 Score: 184
Period size: 27 Copynumber: 13.7 Consensus size: 27
62245696 TGTAGGATAG
**
62245706 AATTA-CAGAAATACCCTTAGTTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
** * * *
62245733 AATTATTAAAATACCC-TCGCTTAGCAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* *
62245760 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
62245787 AATTACCAAAATAGCCC-TAATTTGTGA
1 AATTACCAAAATA-CCCTTAGTTTGTAA
*** * *
62245814 AATTATTGAAATACCCTT-GTCCTATAA
1 AATTACCAAAATACCCTTAGT-TTGTAA
* * **
62245841 AATTACTAAAATACCCTCAACTTGTAA
1 AATTACCAAAATACCCTTAGTTTGTAA
*
62245868 AATTACCAAAATGCCCTCTA-TTTGTAA
1 AATTACCAAAATACCCT-TAGTTTGTAA
* *
62245895 AATTACCAAAATACCCCT-GATTTGGAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * *
62245922 AATTATCGAAATACCCTT-GATTTGGAA
1 AATTACCAAAATACCCTTAG-TTTGTAA
* * **
62245949 AATTA-CAGAAATACCCCTAATTTACAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
* * * ***
62245976 AATTA-CAGAAGTACCATTGACTTCCAAA
1 AATTACCA-AAATACCCTT-AGTTTGTAA
* * * *
62246004 AATTA-TAGAAATGCCATTGGTTTGTAA
1 AATTACCA-AAATACCCTTAGTTTGTAA
*
62246031 AATTACCAAAATACCCTTAGTTTGTAG
1 AATTACCAAAATACCCTTAGTTTGTAA
* *
62246058 ATTTACCAAAACACCCTT
1 AATTACCAAAATACCCTT
62246076 GTAGGGTGAA
Statistics
Matches: 266, Mismatches: 63, Indels: 28
0.75 0.18 0.08
Matches are distributed among these distances:
26 8 0.03
27 230 0.86
28 28 0.11
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AATTACCAAAATACCCTTAGTTTGTAA
Found at i:62245799 original size:81 final size:82
Alignment explanation
Indices: 62245706--62246049 Score: 208
Period size: 81 Copynumber: 4.2 Consensus size: 82
62245696 TGTAGGATAG
* *
62245706 AATTA-CAGAAATACCCTTAGTTTACAAAATTATTAAAATACCCTCG-CTTAGCAAAATTACCAA
1 AATTACCA-AAATACCCTTAATTTACAAAATTATCAAAATACCCTCGACTTAGCAAAATTACCAA
*
62245769 AATACCCCTGGTTTGTAA
65 AATACCCCTGATTTGTAA
*** ** * * * * *
62245787 AATTACCAAAATAGCCC-TAATTTGTGAAATTATTGAAATACCCTTGTCCTA-TAAAATTACTAA
1 AATTACCAAAATA-CCCTTAATTTACAAAATTATCAAAATACCCTCGACTTAGCAAAATTACCAA
* *
62245850 AATA-CCCTCAACTTGTAA
65 AATACCCCT-GATTTGTAA
* ** * * * * *
62245868 AATTACCAAAATGCCCTCT-ATTTGTAAAATTACCAAAATACCC-CTGA-TTTGGAAAATTATCG
1 AATTACCAAAATACCCT-TAATTTACAAAATTATCAAAATACCCTC-GACTTAGCAAAATTACCA
* *
62245930 AAATACCCTTGATTTGGAA
64 AAATACCCCTGATTTGTAA
* * * * * *
62245949 AATTA-CAGAAATACCCCTAATTTACAAAATTA-CAGAAGTACCATTGACTT-CCAAAAATTA-T
1 AATTACCA-AAATACCCTTAATTTACAAAATTATCA-AAATACCCTCGACTTAGC-AAAATTACC
* ** *
62246010 AGAAATGCCATTGGTTTGTAA
63 A-AAATACCCCTGATTTGTAA
62246031 AATTACCAAAATACCCTTA
1 AATTACCAAAATACCCTTA
62246050 GTTTGTAGAT
Statistics
Matches: 201, Mismatches: 45, Indels: 33
0.72 0.16 0.12
Matches are distributed among these distances:
80 13 0.06
81 135 0.67
82 51 0.25
83 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (82 bp):
AATTACCAAAATACCCTTAATTTACAAAATTATCAAAATACCCTCGACTTAGCAAAATTACCAAA
ATACCCCTGATTTGTAA
Found at i:62245951 original size:108 final size:108
Alignment explanation
Indices: 62245713--62245981 Score: 300
Period size: 108 Copynumber: 2.5 Consensus size: 108
62245703 TAGAATTACA
* *
62245713 GAAATACCCTT-AGTTTACAAAATTATTAAAATACCCTCGCTTAGCAAAATTACCAAAATACCCC
1 GAAATACCCTTGA-TTTACAAAATTACTAAAATACCCTCACTTAGCAAAATTACCAAAATACCCC
* * *
62245777 TGGTTTGTAAAATTACCAAAATAGCCCTAATTTGTGAAATTATT
65 TGATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATC
* * * *
62245821 GAAATACCCTTG-TCCTATAAAATTACTAAAATACCCTCAACTT-GTAAAATTACCAAAATGCCC
1 GAAATACCCTTGAT-TTACAAAATTACTAAAATACCCTC-ACTTAGCAAAATTACCAAAATACCC
*
62245884 TCT-ATTTGTAAAATTACCAAAATACCCCTGATTTG-GAAAATTATC
64 -CTGATTTGTAAAATTACCAAAATACCCCTAATTTGTG-AAATTATC
** * *
62245929 GAAATACCCTTGATTTGGAAAATTAC-AGAAATACCCCTAATTTA-CAAAATTAC
1 GAAATACCCTTGATTTACAAAATTACTA-AAATA-CCCTCACTTAGCAAAATTAC
62245982 AGAAGTACCA
Statistics
Matches: 136, Mismatches: 16, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
107 3 0.02
108 123 0.90
109 10 0.07
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (108 bp):
GAAATACCCTTGATTTACAAAATTACTAAAATACCCTCACTTAGCAAAATTACCAAAATACCCCT
GATTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTATC
Found at i:62246335 original size:41 final size:41
Alignment explanation
Indices: 62246290--62246367 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
62246280 AGGAAGAAAA
62246290 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
* *
62246331 TGAGGATCGCATGGTTGCTTGATGACTGTGGATCCAC
1 TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCAC
62246368 TGGTGGCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.32, T:0.27
Consensus pattern (41 bp):
TGAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCGAT
Found at i:62246561 original size:22 final size:23
Alignment explanation
Indices: 62246512--62246573 Score: 76
Period size: 22 Copynumber: 2.8 Consensus size: 23
62246502 AATTATTCTG
**
62246512 ATTATGGCTTTACGCCAACCTAC
1 ATTATGGCTTTGTGCCAACCTAC
62246535 A-TATGGCTTTGTGCCAACCTA-
1 ATTATGGCTTTGTGCCAACCTAC
62246556 ATTAT-GCTTGTGTGCCAA
1 ATTATGGCTT-TGTGCCAA
62246574 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 5 0.14
22 29 0.83
23 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (23 bp):
ATTATGGCTTTGTGCCAACCTAC
Found at i:62251113 original size:47 final size:44
Alignment explanation
Indices: 62251040--62251164 Score: 146
Period size: 47 Copynumber: 2.7 Consensus size: 44
62251030 GTCTCGAGGC
*
62251040 CGATGCATGTCCCAGACATGTTTTACACTAGCACTCATCTCAATGT-
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACTCAT-T--ATGTG
*
62251086 CGATGCCATGTCCCAGA-ATGGTCTTACACTAGCTCTCATTATGTGG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACTCATTATGT-G
*
62251132 CTGATGCATGTCCCAGACATGTCTGACACTAGC
1 C-GATGCATGTCCCAGACATGTCTTACACTAGC
62251165 TCACAATAAC
Statistics
Matches: 70, Mismatches: 3, Indels: 12
0.82 0.04 0.14
Matches are distributed among these distances:
44 4 0.06
46 32 0.46
47 34 0.49
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACTCATTATGTG
Found at i:62251165 original size:46 final size:45
Alignment explanation
Indices: 62251040--62251166 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 45
62251030 GTCTCGAGGC
* *
62251040 CGATGCATGTCCCAGACATGTTTTACACTAGCACTCATCTCAATGT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-AATGT
62251086 CGATGCCATGTCCCAGA-ATGGTCTTACACTAGCTCTCAT-T-ATGT
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTAATGT
*
62251130 GGCTGATGCATGTCCCAGACATGTCTGACACTAGCTC
1 --C-GATGCATGTCCCAGACATGTCTTACACTAGCTC
62251167 ACAATAACCC
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
44 4 0.06
46 34 0.47
47 34 0.47
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTAATGT
Found at i:62254874 original size:20 final size:20
Alignment explanation
Indices: 62254849--62254895 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
62254839 TTAGGGACAA
*
62254849 ATGAAAAGTT-GAAAATTTTT
1 ATGAAAAATTCGAAAA-TTTT
*
62254869 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCGAAAATTTT
62254889 ATGAAAA
1 ATGAAAA
62254896 CATGTGCTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.11, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCGAAAATTTT
Found at i:62260325 original size:43 final size:43
Alignment explanation
Indices: 62260200--62260338 Score: 140
Period size: 42 Copynumber: 3.2 Consensus size: 43
62260190 TGTGTTATCA
** *
62260200 TGTAAGACCACATCTGGGAC-GTTGGCATCGAT-TTGTGATTTACG
1 TGTAAGACCATGTCTAGGACAG-TGGCATCGATATT-TGATTT-CG
* * * *
62260244 TGTAAAACCATGTCTGGGACATTGGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTCG
* * *
62260286 TGTAAGACCCTGTCTAGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTCG
62260329 TGTAAGACCA
1 TGTAAGACCA
62260339 CATCTGGGAC
Statistics
Matches: 79, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
42 28 0.35
43 25 0.32
44 26 0.33
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTGGCATCGATATTTGATTTCG
Found at i:62260355 original size:43 final size:43
Alignment explanation
Indices: 62260185--62260356 Score: 165
Period size: 43 Copynumber: 4.0 Consensus size: 43
62260175 CATAGGATTC
*
62260185 CGATATGTG-TTATCATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTA-CATGTAAGACCACATCTGGGACGTTGGCAT
* * ** *
62260228 CGAT-TTGTGATTTACGTGTAAAACCATGTCTGGGACATTGGCAT
1 CGATATT-TGA-TTACATGTAAGACCACATCTGGGACGTTGGCAT
* * * * *
62260272 CG-TATATGATTTCGTGTAAGACC-CTGTCTAGGACAG-TGGCAT
1 CGATATTTGATTACATGTAAGACCAC-ATCTGGGAC-GTTGGCAT
62260314 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
62260357 TGTACAAGCT
Statistics
Matches: 103, Mismatches: 17, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 30 0.29
43 41 0.40
44 29 0.28
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
Found at i:62267316 original size:40 final size:40
Alignment explanation
Indices: 62267166--62267317 Score: 209
Period size: 40 Copynumber: 3.8 Consensus size: 40
62267156 CATTTGAATG
* * *
62267166 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGA-T
*
62267206 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
*
62267246 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
* *
62267286 ATA-CCTGGGTTAAGACCCGAAGGCAATTGTGC
1 ATATCC-GGGCTAAGACCCGAAGGCATTTGTGC
62267318 TTGTGGTTAT
Statistics
Matches: 102, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
39 2 0.02
40 97 0.95
41 3 0.03
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGAT
Found at i:62267329 original size:80 final size:80
Alignment explanation
Indices: 62267166--62267337 Score: 206
Period size: 80 Copynumber: 2.2 Consensus size: 80
62267156 CATTTGAATG
* * * *
62267166 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
62267231 TTTGTGCGAGTTGAT
66 ATTGTGCGAGTGGAT
* *
62267246 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATA-CCTGGGTTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGACTATATCC-GGGCTAAGACCCGAAGG
** *
62267309 CAATTGTGCTTGTGGTT
64 CAATTGTGCGAGTGGAT
62267326 ATATCC-GGCTAA
1 ATATCCGGGCTAA
62267338 ATTCCGAAGA
Statistics
Matches: 79, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
79 8 0.10
80 69 0.87
81 2 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCGAGTGACTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCGAGTGGAT
Found at i:62273623 original size:53 final size:53
Alignment explanation
Indices: 62273525--62273627 Score: 134
Period size: 53 Copynumber: 1.9 Consensus size: 53
62273515 GGGGGAGAGT
* *
62273525 TGTGACAGCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCGGGACCGCTAGAC
1 TGTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCAGGACCGCTAGAC
** * * * *
62273578 TGTGACACCCCTAATTTGACCCTAGTTGGGAAGTGGTTTCAGGACCGCTA
1 TGTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCAGGACCGCTA
62273628 AACCGAGTTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
53 42 1.00
ACGTcount: A:0.23, C:0.26, G:0.28, T:0.22
Consensus pattern (53 bp):
TGTGACACCCCTAAAGTGACCCTAGTCGGAAAGCGGTCTCAGGACCGCTAGAC
Found at i:62276103 original size:39 final size:40
Alignment explanation
Indices: 62275982--62276204 Score: 248
Period size: 39 Copynumber: 5.7 Consensus size: 40
62275972 GCTCCTCGTT
* *
62275982 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * * *
62276022 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
62276062 CAAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
62276101 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
62276140 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
62276181 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
62276205 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 17
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.01
39 86 0.53
40 63 0.39
41 11 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:62291048 original size:46 final size:44
Alignment explanation
Indices: 62290987--62291163 Score: 192
Period size: 46 Copynumber: 3.9 Consensus size: 44
62290977 ATGTTTAGGC
62290987 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
* *** * * *
62291031 ATGTCCGAACTCCTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTGGGC
1 A--TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-TGCGA
*
62291080 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-A
* * *
62291125 CACCCGAGCTCGTGGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62291164 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 17, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
44 4 0.04
45 1 0.01
46 68 0.62
47 31 0.28
48 1 0.01
49 4 0.04
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (44 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGA
Found at i:62291095 original size:93 final size:93
Alignment explanation
Indices: 62290984--62291155 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
62290974 AGGATGTTTA
*** *
62290984 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCCTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCCTGGAG
62291049 TTGAGTCCGAGTTCGAGAGATGTAACTG
66 TTGAGTCCGAGTTCGAGAGATGTAACTG
* * *
62291077 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAGCTCGTGGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCCTGGAG
62291142 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62291156 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCCTGGAG
TTGAGTCCGAGTTCGAGAGATGTAACTG
Found at i:62294627 original size:38 final size:38
Alignment explanation
Indices: 62294549--62294627 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
62294539 GGCTTCTTTG
* * * *
62294549 TTTGTTATTTATTGTTTAATGTGTTGGGTTATTTATTT
1 TTTGTTATTTATTCTTTAATGTGCTGAGTTATTTAGTT
* *
62294587 TTTGTTATTTGTTCTTTGATTGTGCTGAGTTATTT-GTT
1 TTTGTTATTTATTCTTT-AATGTGCTGAGTTATTTAGTT
62294625 TTT
1 TTT
62294628 CTTAATGGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 20 0.59
39 14 0.41
ACGTcount: A:0.13, C:0.03, G:0.19, T:0.66
Consensus pattern (38 bp):
TTTGTTATTTATTCTTTAATGTGCTGAGTTATTTAGTT
Found at i:62295235 original size:12 final size:13
Alignment explanation
Indices: 62295218--62295250 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
62295208 TTCCCTTTTA
62295218 TTTAACATAA-TT
1 TTTAACATAAGTT
62295230 TTTAAC-TAAGTT
1 TTTAACATAAGTT
62295242 TTTAACATA
1 TTTAACATA
62295251 TAAACAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 3 0.16
12 14 0.74
13 2 0.11
ACGTcount: A:0.39, C:0.09, G:0.03, T:0.48
Consensus pattern (13 bp):
TTTAACATAAGTT
Found at i:62295841 original size:20 final size:21
Alignment explanation
Indices: 62295804--62295842 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
62295794 GAAATTGAAG
*
62295804 AAGGAAAGGGAAATACTAGCA
1 AAGGAAAGGGAAAAACTAGCA
62295825 AAGGAAA-GGAAAAACTAG
1 AAGGAAAGGGAAAAACTAG
62295843 TGGATTTAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.56, C:0.08, G:0.28, T:0.08
Consensus pattern (21 bp):
AAGGAAAGGGAAAAACTAGCA
Found at i:62298731 original size:49 final size:49
Alignment explanation
Indices: 62298674--62298767 Score: 170
Period size: 49 Copynumber: 1.9 Consensus size: 49
62298664 CTTTTGAATG
62298674 CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAACTTC
1 CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAACTTC
* *
62298723 CCAAAATGTATGCCATATTTTTTATGCTTTAATGGATTAAGGTAA
1 CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAA
62298768 GTTTAGTAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.39
Consensus pattern (49 bp):
CCAAAATGTATGACATATTCTTTATGCTTTAATGGATTAAGGTAACTTC
Found at i:62299606 original size:13 final size:13
Alignment explanation
Indices: 62299588--62299640 Score: 97
Period size: 13 Copynumber: 4.1 Consensus size: 13
62299578 GAAGTAATCG
*
62299588 CACACGGGCGTGT
1 CACACGAGCGTGT
62299601 CACACGAGCGTGT
1 CACACGAGCGTGT
62299614 CACACGAGCGTGT
1 CACACGAGCGTGT
62299627 CACACGAGCGTGT
1 CACACGAGCGTGT
62299640 C
1 C
62299641 CCTGTCGAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.21, C:0.32, G:0.32, T:0.15
Consensus pattern (13 bp):
CACACGAGCGTGT
Found at i:62314579 original size:23 final size:24
Alignment explanation
Indices: 62314553--62314602 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
62314543 CAGGATTTTT
*
62314553 TCAAGAACCA-TGTAATAGGAAGC
1 TCAAGAACCATTATAATAGGAAGC
**
62314576 TCAAGAAGGATTATAATAGGAAGC
1 TCAAGAACCATTATAATAGGAAGC
62314600 TCA
1 TCA
62314603 TAAGAGCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.44, C:0.14, G:0.22, T:0.20
Consensus pattern (24 bp):
TCAAGAACCATTATAATAGGAAGC
Found at i:62315698 original size:14 final size:14
Alignment explanation
Indices: 62315679--62315705 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
62315669 TGAAATCGGT
62315679 AAAATTTTCATACC
1 AAAATTTTCATACC
62315693 AAAATTTTCATAC
1 AAAATTTTCATAC
62315706 GTCTTTCCTA
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:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTTTCATACC
Found at i:62316852 original size:17 final size:17
Alignment explanation
Indices: 62316832--62316868 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
62316822 ATTGAATAAT
62316832 ATATGAATTAGAAGCTA
1 ATATGAATTAGAAGCTA
*
62316849 ATATGAATTTGAAGCTA
1 ATATGAATTAGAAGCTA
62316866 ATA
1 ATA
62316869 ATTAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (17 bp):
ATATGAATTAGAAGCTA
Found at i:62319898 original size:21 final size:21
Alignment explanation
Indices: 62319872--62319914 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
62319862 AAAATTAAAC
62319872 TAAAGAATCCAACAACTAAGT
1 TAAAGAATCCAACAACTAAGT
62319893 TAAAGAATCCAACAACTAAGT
1 TAAAGAATCCAACAACTAAGT
62319914 T
1 T
62319915 CACAAGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.19, G:0.09, T:0.21
Consensus pattern (21 bp):
TAAAGAATCCAACAACTAAGT
Found at i:62319981 original size:20 final size:20
Alignment explanation
Indices: 62319956--62319995 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
62319946 CTTAAACTTT
62319956 TAACAACTTCACAAATTAAC
1 TAACAACTTCACAAATTAAC
62319976 TAACAACTTCACAAATTAAC
1 TAACAACTTCACAAATTAAC
62319996 CCCTGAGTTA
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:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (20 bp):
TAACAACTTCACAAATTAAC
Found at i:62322468 original size:22 final size:22
Alignment explanation
Indices: 62322440--62322486 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
62322430 AATAGACTCA
62322440 AGAGATAGAGCAACGTTTGTAT
1 AGAGATAGAGCAACGTTTGTAT
62322462 AGAGATAGAGCAACGTTTGTAT
1 AGAGATAGAGCAACGTTTGTAT
62322484 AGA
1 AGA
62322487 ATGAAGACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.26
Consensus pattern (22 bp):
AGAGATAGAGCAACGTTTGTAT
Found at i:62323130 original size:16 final size:16
Alignment explanation
Indices: 62323109--62323143 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
62323099 TCACAAAACA
62323109 CATGGTAACCCGCTCC
1 CATGGTAACCCGCTCC
62323125 CATGGTAACCCGCTCC
1 CATGGTAACCCGCTCC
62323141 CAT
1 CAT
62323144 TTTCATTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (16 bp):
CATGGTAACCCGCTCC
Found at i:62326550 original size:178 final size:178
Alignment explanation
Indices: 62326251--62326582 Score: 619
Period size: 178 Copynumber: 1.9 Consensus size: 178
62326241 GTTAAATACA
* *
62326251 TAGGCTAACTTATTAAAAACAAGACATAGCTAAGTAATTTCTTCAACTCAAATCTCAACAAAAAT
1 TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCAACAAAAAT
62326316 AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
66 AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
62326381 AAGAAATGGCTTGTTAGGCTCAAGAGGATTTACTAGGGATCAAATTAT
131 AAGAAATGGCTTGTTAGGCTCAAGAGGATTTACTAGGGATCAAATTAT
*
62326429 TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCGACAAAAAT
1 TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCAACAAAAAT
* *
62326494 AGGGATTAAATTAATTTAGGTGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
66 AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
62326559 AAGAAATGGCTTGTTAGGCTCAAG
131 AAGAAATGGCTTGTTAGGCTCAAG
62326583 GGGTTTATTG
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 149 1.00
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (178 bp):
TAGGCTAAATTATTAAAAACAAGACATAGCTAAGCAATTTCTTCAACTCAAATCTCAACAAAAAT
AGGGATCAAATTAATTTAGGGGATTTCAACAATAATGGGTTAAGGGTCAGTATTAAGGGTAATAC
AAGAAATGGCTTGTTAGGCTCAAGAGGATTTACTAGGGATCAAATTAT
Found at i:62336386 original size:18 final size:18
Alignment explanation
Indices: 62336363--62336398 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
62336353 GTTGGAGGTA
*
62336363 GCTGATTGCCTTAATTTT
1 GCTGATTGCCTCAATTTT
62336381 GCTGATTGCCTCAATTTT
1 GCTGATTGCCTCAATTTT
62336399 CAACCATCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.17, C:0.19, G:0.17, T:0.47
Consensus pattern (18 bp):
GCTGATTGCCTCAATTTT
Found at i:62348778 original size:15 final size:15
Alignment explanation
Indices: 62348758--62348787 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
62348748 TCTCTTCTAG
62348758 TCAACAGAACAATTC
1 TCAACAGAACAATTC
62348773 TCAACAGAACAATTC
1 TCAACAGAACAATTC
62348788 AACATGCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.27, G:0.07, T:0.20
Consensus pattern (15 bp):
TCAACAGAACAATTC
Found at i:62349125 original size:15 final size:15
Alignment explanation
Indices: 62349107--62349150 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
62349097 GAAGCCCAGA
62349107 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
62349122 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
*
62349137 ATAAGGAAATCCAA
1 ATAAAGAAATCCAA
62349151 TTTACATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.57, C:0.14, G:0.14, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:62365587 original size:26 final size:26
Alignment explanation
Indices: 62365522--62365580 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
62365512 TATTTTCTTG
* * *
62365522 AAATTTTACCAAGGGCAAAATCATCA
1 AAATTTTACTAGGGGTAAAATCATCA
*
62365548 AAATTTTACTAGGGGTAAAATCGTCA
1 AAATTTTACTAGGGGTAAAATCATCA
62365574 AAATTTT
1 AAATTTT
62365581 GATAGGGCAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.31
Consensus pattern (26 bp):
AAATTTTACTAGGGGTAAAATCATCA
Found at i:62368683 original size:25 final size:26
Alignment explanation
Indices: 62368646--62368698 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 26
62368636 TCAAACATGC
62368646 ATTTAGGTCAATTTAATC-CTAGGGGT
1 ATTTAGGTCAATTT-ATCACTAGGGGT
*
62368672 ATTTCGGT-AATTTATCTACTAGGGGT
1 ATTTAGGTCAATTTATC-ACTAGGGGT
62368698 A
1 A
62368699 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 3 0.12
25 5 0.21
26 16 0.67
ACGTcount: A:0.26, C:0.11, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTCAATTTATCACTAGGGGT
Found at i:62370214 original size:26 final size:26
Alignment explanation
Indices: 62370183--62370264 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
62370173 TGAAATGCCC
62370183 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
62370209 ATCATGGAACATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
62370235 ATCATAGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
62370261 ATCA
1 ATCA
62370265 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 53 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:62373293 original size:17 final size:17
Alignment explanation
Indices: 62373271--62373305 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62373261 ATTACAAGAT
*
62373271 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
62373288 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
62373305 C
1 C
62373306 TTTCTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:62373832 original size:3 final size:3
Alignment explanation
Indices: 62373824--62373886 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
62373814 ACTAATTCAT
62373824 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62373872 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
62373887 AAAACTAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:62378527 original size:20 final size:20
Alignment explanation
Indices: 62378502--62378541 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
62378492 TTTAGGGTTA
62378502 GGGTTTGTATTATTTTGTTC
1 GGGTTTGTATTATTTTGTTC
62378522 GGGTTTGTATTATTTTGTTC
1 GGGTTTGTATTATTTTGTTC
62378542 TTGATGAACA
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:0.10, C:0.05, G:0.25, T:0.60
Consensus pattern (20 bp):
GGGTTTGTATTATTTTGTTC
Found at i:62379862 original size:3 final size:3
Alignment explanation
Indices: 62379848--62379883 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
62379838 TAGTCACCTT
*
62379848 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
62379884 GGCATTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:62380645 original size:7 final size:7
Alignment explanation
Indices: 62380635--62380670 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
62380625 CACCGAACCC
62380635 TGGACCT
1 TGGACCT
62380642 TGGACCT
1 TGGACCT
62380649 TGGACCT
1 TGGACCT
62380656 TGGA-CT
1 TGGACCT
*
62380662 TGAACCT
1 TGGACCT
62380669 TG
1 TG
62380671 AACATTGAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 5 0.19
7 22 0.81
ACGTcount: A:0.17, C:0.25, G:0.28, T:0.31
Consensus pattern (7 bp):
TGGACCT
Found at i:62380795 original size:6 final size:7
Alignment explanation
Indices: 62380778--62380832 Score: 58
Period size: 7 Copynumber: 8.0 Consensus size: 7
62380768 TTGGGTTTGG
62380778 GGTTCAA
1 GGTTCAA
62380785 GGTTCAA
1 GGTTCAA
*
62380792 -GTTCGA
1 GGTTCAA
*
62380798 GGTTCGA
1 GGTTCAA
*
62380805 GGTTCGA
1 GGTTCAA
*
62380812 GGTTCGA
1 GGTTCAA
*
62380819 GGTTTAA
1 GGTTCAA
62380826 GGTTCAA
1 GGTTCAA
62380833 AGTTTTGAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
6 5 0.12
7 38 0.88
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.31
Consensus pattern (7 bp):
GGTTCAA
Found at i:62380811 original size:14 final size:14
Alignment explanation
Indices: 62380778--62380822 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
62380768 TTGGGTTTGG
*
62380778 GGTTCAAGGTTC-A
1 GGTTCGAGGTTCGA
*
62380791 AGTTCGAGGTTCGA
1 GGTTCGAGGTTCGA
62380805 GGTTCGAGGTTCGA
1 GGTTCGAGGTTCGA
62380819 GGTT
1 GGTT
62380823 TAAGGTTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.18, C:0.13, G:0.38, T:0.31
Consensus pattern (14 bp):
GGTTCGAGGTTCGA
Found at i:62380828 original size:21 final size:20
Alignment explanation
Indices: 62380778--62380832 Score: 74
Period size: 21 Copynumber: 2.7 Consensus size: 20
62380768 TTGGGTTTGG
62380778 GGTTCAAGGTTCAAGTTCGA
1 GGTTCAAGGTTCAAGTTCGA
* *
62380798 GGTTCGAGGTTCGAGGTTCGA
1 GGTTCAAGGTTC-AAGTTCGA
*
62380819 GGTTTAAGGTTCAA
1 GGTTCAAGGTTCAA
62380833 AGTTTTGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.22, C:0.13, G:0.35, T:0.31
Consensus pattern (20 bp):
GGTTCAAGGTTCAAGTTCGA
Found at i:62382277 original size:19 final size:20
Alignment explanation
Indices: 62382253--62382292 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
62382243 TTAAATTTTT
*
62382253 AGCACTGAATTT-TATTATA
1 AGCACTAAATTTATATTATA
62382272 AGCACTAAATTTATATTATA
1 AGCACTAAATTTATATTATA
62382292 A
1 A
62382293 AATTGTTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.10, G:0.07, T:0.40
Consensus pattern (20 bp):
AGCACTAAATTTATATTATA
Found at i:62393515 original size:34 final size:34
Alignment explanation
Indices: 62393472--62393541 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
62393462 TAAAGAAAGA
*
62393472 AAGAAAGAAAAATAAGCAAATGAATTGAACTGAT
1 AAGAAAGAAAAATAAGCAAATGAATTAAACTGAT
*
62393506 AAGAAAGAAAAATAAGCAAATGGATTAAACTGAT
1 AAGAAAGAAAAATAAGCAAATGAATTAAACTGAT
62393540 AA
1 AA
62393542 ACTAATCAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (34 bp):
AAGAAAGAAAAATAAGCAAATGAATTAAACTGAT
Found at i:62397826 original size:17 final size:17
Alignment explanation
Indices: 62397804--62397838 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
62397794 ATTACAAAAT
*
62397804 CAAATCTTATTAGATTA
1 CAAATCTTATAAGATTA
*
62397821 CAAATCTTCTAAGATTA
1 CAAATCTTATAAGATTA
62397838 C
1 C
62397839 TTTCTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.17, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTATAAGATTA
Found at i:62404764 original size:67 final size:69
Alignment explanation
Indices: 62404681--62404811 Score: 203
Period size: 70 Copynumber: 1.9 Consensus size: 69
62404671 ATAAACAATA
* *
62404681 TAATGGTTTTGCCTTTTAAC-TT-AATAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
1 TAATGGTTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
62404744 AACT
66 AACT
* *
62404748 TAATGGTTTTGACTTTTAACTTTAGAAAAGGTAAACATTTATCAAAACAACGTAGTTTTGCCTT
1 TAATGGTTTTGACTTTTAACTTTA-AAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTT
62404812 TTCTTATTCG
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
67 19 0.33
68 2 0.04
70 36 0.63
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.39
Consensus pattern (69 bp):
TAATGGTTTTGACTTTTAACTTTAAAAAGGTAAACAATTATCAAAACAACATAGTTTTGCCTTAT
AACT
Found at i:62412071 original size:16 final size:17
Alignment explanation
Indices: 62412043--62412087 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
62412033 GAACAGAATT
*
62412043 GAAGAAGAAAAAGA-AGA
1 GAAGAA-AAAAAGAGAAA
*
62412060 GATGAAAAAAAGAGAAA
1 GAAGAAAAAAAGAGAAA
62412077 GAAGAAAAAAA
1 GAAGAAAAAAA
62412088 ATAACGTCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 7 0.29
17 17 0.71
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.02
Consensus pattern (17 bp):
GAAGAAAAAAAGAGAAA
Found at i:62422029 original size:27 final size:27
Alignment explanation
Indices: 62421997--62422058 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
62421987 CCACCAAAAT
* * *
62421997 AATAAACACGGGATAGTCTGCCGGGAC
1 AATAAACACAGGATAGCCCGCCGGGAC
* * *
62422024 AGTAAACATAGGATAGCCCGCTGGGAC
1 AATAAACACAGGATAGCCCGCCGGGAC
62422051 AATAAACA
1 AATAAACA
62422059 TAAGGTAGTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.21, G:0.26, T:0.15
Consensus pattern (27 bp):
AATAAACACAGGATAGCCCGCCGGGAC
Found at i:62425292 original size:6 final size:6
Alignment explanation
Indices: 62425281--62425317 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
62425271 ATCCCTAGGG
62425281 TTCTTT TTC-TT TTCTTTT TTCTTT TT-TTT TTCTTT TT
1 TTCTTT TTCTTT TTC-TTT TTCTTT TTCTTT TTCTTT TT
62425318 AATTTTTCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.36
6 13 0.46
7 5 0.18
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TTCTTT
Found at i:62425304 original size:18 final size:18
Alignment explanation
Indices: 62425281--62425317 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
62425271 ATCCCTAGGG
62425281 TTCTTTTTCTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
*
62425299 TTCTTTTTTTTTTCTTTT
1 TTCTTTTTCTTTTCTTTT
62425317 T
1 T
62425318 AATTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TTCTTTTTCTTTTCTTTT
Found at i:62425317 original size:11 final size:11
Alignment explanation
Indices: 62425284--62425317 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
62425274 CCTAGGGTTC
62425284 TTTTTCTTTTCT
1 TTTTTCTTTT-T
62425296 TTTTTCTTTTT
1 TTTTTCTTTTT
62425307 TTTTTCTTTTT
1 TTTTTCTTTTT
62425318 AATTTTTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:62425323 original size:18 final size:18
Alignment explanation
Indices: 62425284--62425325 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
62425274 CCTAGGGTTC
**
62425284 TTTTTCTTTTCTTTTTTC
1 TTTTTCTTTTCTTTTTAA
*
62425302 TTTTTTTTTTCTTTTTAA
1 TTTTTCTTTTCTTTTTAA
62425320 TTTTTC
1 TTTTTC
62425326 ATCCATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTCTTTTTAA
Found at i:62425669 original size:4 final size:4
Alignment explanation
Indices: 62425662--62425687 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
62425652 TTTATTTGTG
62425662 ATCT ATCT ATCT ATCT ATCT ATCT AT
1 ATCT ATCT ATCT ATCT ATCT ATCT AT
62425688 AGTTAAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.50
Consensus pattern (4 bp):
ATCT
Found at i:62429081 original size:27 final size:28
Alignment explanation
Indices: 62429031--62429086 Score: 96
Period size: 27 Copynumber: 2.0 Consensus size: 28
62429021 TATGCTACTA
62429031 GTTTTTTCTTCTTTTTTTTTTTTACTTAC
1 GTTTTTTCTTC-TTTTTTTTTTTACTTAC
62429060 GTTTTTTCTTC-TTTTTTTTTTACTTAC
1 GTTTTTTCTTCTTTTTTTTTTTACTTAC
62429087 CTCCATCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.59
29 11 0.41
ACGTcount: A:0.07, C:0.14, G:0.04, T:0.75
Consensus pattern (28 bp):
GTTTTTTCTTCTTTTTTTTTTTACTTAC
Done.