Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 84 of 120
Found at i:25029728 original size:21 final size:21
Alignment explanation
Indices: 25029703--25029796 Score: 135
Period size: 19 Copynumber: 4.7 Consensus size: 21
25029693 ATTTTTGAGG
25029703 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
25029724 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
25029743 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
25029764 ATAT--AATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
25029783 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
25029797 GATTTAATTT
Statistics
Matches: 68, Mismatches: 1, Indels: 9
0.87 0.01 0.12
Matches are distributed among these distances:
18 2 0.03
19 34 0.50
20 9 0.13
21 23 0.34
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:25029746 original size:40 final size:38
Alignment explanation
Indices: 25029702--25029796 Score: 145
Period size: 40 Copynumber: 2.4 Consensus size: 38
25029692 AATTTTTGAG
25029702 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATAT--AATCTTAGATAT
25029742 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
1 GATATGCAATCTTAGATATGATATATAATCTTAGATAT
* *
25029780 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
25029797 GATTTAATTT
Statistics
Matches: 52, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
38 14 0.27
39 12 0.23
40 26 0.50
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATATAATCTTAGATAT
Found at i:25031003 original size:19 final size:20
Alignment explanation
Indices: 25030962--25031003 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
25030952 ATTTCTAGGC
* *
25030962 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
25030982 CATTGT-ATATTTAATATAG
1 CATTGTAATATTTAATATAG
25031001 CAT
1 CAT
25031004 CACATCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Found at i:25031365 original size:98 final size:98
Alignment explanation
Indices: 25031245--25031439 Score: 354
Period size: 98 Copynumber: 2.0 Consensus size: 98
25031235 CTAAAAACAA
* *
25031245 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
25031310 TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
*
25031343 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
25031408 TTAAATCTTGGATAAGTGGATGTTCTTTTAAA
66 TTAAATCTTGGATAAGTGGATGCTCTTTTAAA
25031440 ATTTTATTGT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.28, C:0.11, G:0.25, T:0.36
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGCTCTTTTAAAG
Found at i:25033834 original size:11 final size:11
Alignment explanation
Indices: 25033813--25033850 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
25033803 AAAAAATTAA
25033813 AAAAGTATTTTT
1 AAAA-TATTTTT
*
25033825 AACATATTTTT
1 AAAATATTTTT
25033836 AAAATA-TTTT
1 AAAATATTTTT
25033846 AAAAT
1 AAAAT
25033851 TAAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 12 0.50
12 3 0.12
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:25033871 original size:50 final size:49
Alignment explanation
Indices: 25033788--25033907 Score: 143
Period size: 50 Copynumber: 2.4 Consensus size: 49
25033778 GATCCATTTT
* * * *
25033788 TATTTTAAAAATTTTAAAAAATTAAAAAAGTATTTTTAACATATTTTTAAAA
1 TATTTT-AAAA-TTAAAAAAAATAAAAAAGTATTTTAAAAATA-TTTTAAAA
25033840 TATTTTAAAATTAAAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAA
1 TATTTTAAAATTAAAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAA
**
25033889 T-TTAAAAAAATTAAAAAAA
1 TATT-TTAAAATTAAAAAAA
25033908 GTATGTAAAA
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
48 2 0.03
49 22 0.36
50 27 0.44
51 4 0.07
52 6 0.10
ACGTcount: A:0.59, C:0.01, G:0.02, T:0.38
Consensus pattern (49 bp):
TATTTTAAAATTAAAAAAAATAAAAAAGTATTTTAAAAATATTTTAAAA
Found at i:25033897 original size:41 final size:40
Alignment explanation
Indices: 25033829--25033943 Score: 162
Period size: 40 Copynumber: 2.9 Consensus size: 40
25033819 ATTTTTAACA
*
25033829 TATTTTTAAAATATTTTAAAATTAAAAAAAAT-AAAAAAG
1 TATTTTAAAAATATTTTAAAATTAAAAAAAATAAAAAAAG
*
25033868 TATTTTAAAAATATTTTAAAATTTAAAAAAATTAAAAAAAG
1 TATTTTAAAAATATTTTAAAA-TTAAAAAAAATAAAAAAAG
* *
25033909 TA-TGTAAAACATATTTTAAAATTAAAAACAATAAA
1 TATTTTAAAA-ATATTTTAAAATTAAAAAAAATAAA
25033944 TATATTTATT
Statistics
Matches: 68, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
39 20 0.29
40 28 0.41
41 20 0.29
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.35
Consensus pattern (40 bp):
TATTTTAAAAATATTTTAAAATTAAAAAAAATAAAAAAAG
Found at i:25036536 original size:3 final size:3
Alignment explanation
Indices: 25036528--25036577 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
25036518 CACTCATCTA
25036528 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25036576 AA
1 AA
25036578 CACTTATACT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:25037298 original size:30 final size:30
Alignment explanation
Indices: 25037229--25037300 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
25037219 ATTTTCCCCC
* *
25037229 TTTCTTTTCTTTCCCTTTTTCTTCCCCTGT
1 TTTCTTCTCTTTCCCTGTTTCTTCCCCTGT
* **
25037259 TTTCGTCTCTTTCCCTGTTTCTT-TTCTGT
1 TTTCTTCTCTTTCCCTGTTTCTTCCCCTGT
25037288 TCTTCTTCTCTTT
1 T-TTCTTCTCTTT
25037301 TTCTATTCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.00, C:0.31, G:0.06, T:0.64
Consensus pattern (30 bp):
TTTCTTCTCTTTCCCTGTTTCTTCCCCTGT
Found at i:25038942 original size:22 final size:22
Alignment explanation
Indices: 25038917--25038958 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25038907 ATTAAAAATT
*
25038917 AAATTGAATAAAATTATATTTA
1 AAATTGAATAAAATAATATTTA
* *
25038939 AAATTTAATAACATAATATT
1 AAATTGAATAAAATAATATT
25038959 GTCTCATTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
AAATTGAATAAAATAATATTTA
Found at i:25054482 original size:42 final size:42
Alignment explanation
Indices: 25054423--25054505 Score: 130
Period size: 42 Copynumber: 2.0 Consensus size: 42
25054413 CTGAACTTTA
25054423 CCGAGAGAAAACAGTTGCTGGATTTTGTGACCACATTCAACG
1 CCGAGAGAAAACAGTTGCTGGATTTTGTGACCACATTCAACG
* * * *
25054465 CCGAGAGATACCAGTTGCTGGATTTTGTGGCTACATTCAAC
1 CCGAGAGAAAACAGTTGCTGGATTTTGTGACCACATTCAAC
25054506 AATGACAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.27
Consensus pattern (42 bp):
CCGAGAGAAAACAGTTGCTGGATTTTGTGACCACATTCAACG
Found at i:25063106 original size:18 final size:17
Alignment explanation
Indices: 25063083--25063116 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
25063073 ACAGTTGACC
*
25063083 GGAAAGGAAAAGGAAAAA
1 GGAAA-GAAAAAGAAAAA
25063101 GGAAAGAAAAAGAAAA
1 GGAAAGAAAAAGAAAA
25063117 GAAGGGAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAAGAAAAA
Found at i:25063126 original size:19 final size:18
Alignment explanation
Indices: 25063083--25063128 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
25063073 ACAGTTGACC
* *
25063083 GGAAAGGAAAAGGAAAAA
1 GGAAAGAAAAAGAAAAAA
25063101 GGAAAGAAAAAGAAAAGAA
1 GGAAAGAAAAAGAAAA-AA
*
25063120 GGGAAGAAA
1 GGAAAGAAA
25063129 TAAATGGAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (18 bp):
GGAAAGAAAAAGAAAAAA
Found at i:25069940 original size:13 final size:13
Alignment explanation
Indices: 25069922--25069946 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25069912 TATATTTGTC
25069922 CTAGTGTCATGGA
1 CTAGTGTCATGGA
25069935 CTAGTGTCATGG
1 CTAGTGTCATGG
25069947 GTTGCGCAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.16, G:0.32, T:0.32
Consensus pattern (13 bp):
CTAGTGTCATGGA
Found at i:25073864 original size:50 final size:50
Alignment explanation
Indices: 25073749--25073991 Score: 405
Period size: 50 Copynumber: 4.8 Consensus size: 50
25073739 GATAATAACA
* ** *
25073749 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
25073800 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
25073850 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
25073900 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
25073950 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25073992 TTACCCAAAT
Statistics
Matches: 180, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 147 0.82
51 33 0.18
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:25074107 original size:13 final size:13
Alignment explanation
Indices: 25074086--25074116 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25074076 GCTTAGATCA
*
25074086 TCATCAAATAAAT
1 TCATAAAATAAAT
25074099 TCATAAAATAAAT
1 TCATAAAATAAAT
25074112 TCATA
1 TCATA
25074117 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:25079157 original size:29 final size:29
Alignment explanation
Indices: 25079096--25079158 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
25079086 CTTCTCTTTT
****
25079096 TCTTTTAACAAGTCTTCTACTTCTCTTTT
1 TCTTTTAACAAGTCTTCTACTTCTCAAGC
25079125 TCTTTTAACAAGTCTTCTACTT-TACAAGC
1 TCTTTTAACAAGTCTTCTACTTCT-CAAGC
25079154 TCTTT
1 TCTTT
25079159 CTACCAGAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.21, C:0.24, G:0.05, T:0.51
Consensus pattern (29 bp):
TCTTTTAACAAGTCTTCTACTTCTCAAGC
Found at i:25079158 original size:35 final size:29
Alignment explanation
Indices: 25079086--25079146 Score: 122
Period size: 29 Copynumber: 2.1 Consensus size: 29
25079076 CAGCTTTGCT
25079086 CTTCTCTTTTTCTTTTAACAAGTCTTCTA
1 CTTCTCTTTTTCTTTTAACAAGTCTTCTA
25079115 CTTCTCTTTTTCTTTTAACAAGTCTTCTA
1 CTTCTCTTTTTCTTTTAACAAGTCTTCTA
25079144 CTT
1 CTT
25079147 TACAAGCTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.16, C:0.25, G:0.03, T:0.56
Consensus pattern (29 bp):
CTTCTCTTTTTCTTTTAACAAGTCTTCTA
Found at i:25081449 original size:50 final size:50
Alignment explanation
Indices: 25081334--25081576 Score: 405
Period size: 50 Copynumber: 4.8 Consensus size: 50
25081324 GATAATAACA
* ** *
25081334 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* **
25081385 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
25081435 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
25081485 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
25081535 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
25081577 TTACCCAAAT
Statistics
Matches: 180, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 147 0.82
51 33 0.18
ACGTcount: A:0.20, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:25081692 original size:13 final size:13
Alignment explanation
Indices: 25081671--25081701 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
25081661 GCTTAGATCA
*
25081671 TCATCAAATAAAT
1 TCATAAAATAAAT
25081684 TCATAAAATAAAT
1 TCATAAAATAAAT
25081697 TCATA
1 TCATA
25081702 GTTGCTGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:25083204 original size:43 final size:43
Alignment explanation
Indices: 25083152--25083253 Score: 186
Period size: 43 Copynumber: 2.4 Consensus size: 43
25083142 AGATATGCTA
25083152 GTGTCTCAGGCCGTGTGGGTATTCAAAGTAGGGACACACGGCC
1 GTGTCTCAGGCCGTGTGGGTATTCAAAGTAGGGACACACGGCC
25083195 GTGTCTCAGGCCGTGTGGGTATTCAAAGTAGGGACACACGGCC
1 GTGTCTCAGGCCGTGTGGGTATTCAAAGTAGGGACACACGGCC
* *
25083238 GTGTCCCAGCCCGTGT
1 GTGTCTCAGGCCGTGT
25083254 CCAAATTAGG
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.19, C:0.25, G:0.34, T:0.22
Consensus pattern (43 bp):
GTGTCTCAGGCCGTGTGGGTATTCAAAGTAGGGACACACGGCC
Found at i:25083979 original size:35 final size:35
Alignment explanation
Indices: 25083933--25084002 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
25083923 AGAGTAAGCT
*
25083933 TTAAAAGCTTAGTAAGTTCATATAACAAGAAATTA
1 TTAAAAGCTTAGAAAGTTCATATAACAAGAAATTA
*
25083968 TTAAAAGCTTAGAAAGTTCGTATAACAAGAAATTA
1 TTAAAAGCTTAGAAAGTTCATATAACAAGAAATTA
25084003 ACTTACCATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (35 bp):
TTAAAAGCTTAGAAAGTTCATATAACAAGAAATTA
Found at i:25092119 original size:73 final size:73
Alignment explanation
Indices: 25092000--25092146 Score: 285
Period size: 73 Copynumber: 2.0 Consensus size: 73
25091990 GCAATCCCGA
25092000 TACAAAGTCCATAGTAATTCTTTCCCAGTTCCATTCCAATACCGTGACTGGTTGTAATAATCCCG
1 TACAAAGTCCATAGTAATTCTTTCCCAGTTCCATTCCAATACCGTGACTGGTTGTAATAATCCCG
25092065 AAGGTACC
66 AAGGTACC
*
25092073 TACAAAGTCCATAGTAATTCTTTCCCAGTTCCATTCCAATATCGTGACTGGTTGTAATAATCCCG
1 TACAAAGTCCATAGTAATTCTTTCCCAGTTCCATTCCAATACCGTGACTGGTTGTAATAATCCCG
25092138 AAGGTACC
66 AAGGTACC
25092146 T
1 T
25092147 GATGTTCAGC
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 73 1.00
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.31
Consensus pattern (73 bp):
TACAAAGTCCATAGTAATTCTTTCCCAGTTCCATTCCAATACCGTGACTGGTTGTAATAATCCCG
AAGGTACC
Found at i:25092496 original size:104 final size:104
Alignment explanation
Indices: 25092334--25092543 Score: 393
Period size: 104 Copynumber: 2.0 Consensus size: 104
25092324 ATTCTTAGGA
25092334 ACACAAACTCTGCCTCTGAATAACAGACAATCATTAGGTCCAATCTGAAATTTTGAATCAGAAGT
1 ACACAAACTCTGCCTCTGAATAACAGACAATCATTAGGTCCAATCTGAAATTTTGAATCAGAAGT
25092399 TATTTCACATTATACCCGTTTAGCTTACAATTCATTATC
66 TATTTCACATTATACCCGTTTAGCTTACAATTCATTATC
* *
25092438 ACACAAACTCTGCCTCTGAATAACAGACAATCATTAGGTCCAATTTGAATTTTTGAATCAGAAGT
1 ACACAAACTCTGCCTCTGAATAACAGACAATCATTAGGTCCAATCTGAAATTTTGAATCAGAAGT
*
25092503 TATTTCACATTATACCCGTTTAGCTTGCAATTCATTATC
66 TATTTCACATTATACCCGTTTAGCTTACAATTCATTATC
25092542 AC
1 AC
25092544 TTTTATTTGC
Statistics
Matches: 103, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
104 103 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (104 bp):
ACACAAACTCTGCCTCTGAATAACAGACAATCATTAGGTCCAATCTGAAATTTTGAATCAGAAGT
TATTTCACATTATACCCGTTTAGCTTACAATTCATTATC
Found at i:25097153 original size:25 final size:25
Alignment explanation
Indices: 25097119--25097190 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
25097109 AGTCCTCTCT
* *
25097119 CGAGCCATATAATGGGAAGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
* *
25097144 CGAGCTATATAACAGGAGGCTTATC
1 CGAGCTATATAACGGGAAGCTTATC
25097169 C-AGGCTATATAACGGGAAGCTT
1 CGA-GCTATATAACGGGAAGCTT
25097191 GGGAGAGCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (25 bp):
CGAGCTATATAACGGGAAGCTTATC
Found at i:25097553 original size:21 final size:21
Alignment explanation
Indices: 25097528--25097569 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25097518 TAAATTTAAC
25097528 TCAATTTAATAAAATTCACAT
1 TCAATTTAATAAAATTCACAT
* **
25097549 TCAATTTCATCCAATTCACAT
1 TCAATTTAATAAAATTCACAT
25097570 CTTATGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTTAATAAAATTCACAT
Found at i:25098036 original size:68 final size:66
Alignment explanation
Indices: 25097939--25098070 Score: 210
Period size: 68 Copynumber: 2.0 Consensus size: 66
25097929 ACGATATGAG
*
25097939 AAATATAAAAATTACTAAAAACCATGATCTGGAATAAGAGAATACTTACCAAATTAAGCTAAATA
1 AAATATAAAAATTACTAAAAACCACGATCTGGAATAA-A-AATACTTACCAAATTAAGCTAAATA
25098004 AAT
64 AAT
** *
25098007 AAATATAAAAATTACTAAAAATTACGATCTGGGATAAAAATACTTACCAAATTAAGCTAAATAA
1 AAATATAAAAATTACTAAAAACCACGATCTGGAATAAAAATACTTACCAAATTAAGCTAAATAA
25098071 TCTTGCTTGA
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
66 26 0.43
67 1 0.02
68 33 0.55
ACGTcount: A:0.55, C:0.11, G:0.08, T:0.26
Consensus pattern (66 bp):
AAATATAAAAATTACTAAAAACCACGATCTGGAATAAAAATACTTACCAAATTAAGCTAAATAAA
T
Found at i:25099217 original size:49 final size:49
Alignment explanation
Indices: 25099145--25099240 Score: 192
Period size: 49 Copynumber: 2.0 Consensus size: 49
25099135 CCGGTGTGCG
25099145 CATTTTGAATAACCCCCCATTGAGGGGTTAGTTTAATCGCTTTTGTTCA
1 CATTTTGAATAACCCCCCATTGAGGGGTTAGTTTAATCGCTTTTGTTCA
25099194 CATTTTGAATAACCCCCCATTGAGGGGTTAGTTTAATCGCTTTTGTT
1 CATTTTGAATAACCCCCCATTGAGGGGTTAGTTTAATCGCTTTTGTT
25099241 TAATCTTATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.40
Consensus pattern (49 bp):
CATTTTGAATAACCCCCCATTGAGGGGTTAGTTTAATCGCTTTTGTTCA
Found at i:25106205 original size:3 final size:3
Alignment explanation
Indices: 25106197--25106262 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
25106187 TAGTCCCCAT
25106197 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
25106245 TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
25106263 CTACTATATA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25108599 original size:74 final size:73
Alignment explanation
Indices: 25108470--25108613 Score: 216
Period size: 74 Copynumber: 2.0 Consensus size: 73
25108460 ATCGGATTTG
* *
25108470 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTTTTCTTAATTCCTAAGATCGTTTAAAAC
1 AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCAAGATCGTTTAAAAC
25108535 TTGAGAAA
66 TTGAGAAA
* ** * *
25108543 AAAAAGGGGATCATGCCTAGTAAGTTAGGACATGATCTCTTCTTGATTCCCGAGATCGTTTAAAA
1 AAAAA-GGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCAAGATCGTTTAAAA
25108608 CTTGAG
65 CTTGAG
25108614 TTTGAAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 5 0.08
74 58 0.92
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (73 bp):
AAAAAGGGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCCCAAGATCGTTTAAAAC
TTGAGAAA
Found at i:25110353 original size:23 final size:23
Alignment explanation
Indices: 25110326--25110371 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25110316 CACATGTACA
* *
25110326 CATACATGTATTTTTATAATATT
1 CATACATATATTTTTAAAATATT
*
25110349 CATACATATTTTTTTAAAATATT
1 CATACATATATTTTTAAAATATT
25110372 TATAAGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (23 bp):
CATACATATATTTTTAAAATATT
Found at i:25111614 original size:3 final size:3
Alignment explanation
Indices: 25111608--25111700 Score: 82
Period size: 3 Copynumber: 31.3 Consensus size: 3
25111598 TAATATTATC
* * * * *
25111608 AAT AAT AAT AGT AAT AGT AAA AAT ACT AAT AAT AAT GAA- AGT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
* * * *
25111653 AAT AAT ACT AAT CAT AAT AAT AAT AAT AAC AAT AAT AA- AAA AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
25111700 A
1 A
25111701 TTAGTTAATT
Statistics
Matches: 70, Mismatches: 17, Indels: 6
0.75 0.18 0.06
Matches are distributed among these distances:
2 3 0.04
3 65 0.93
4 2 0.03
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:25112534 original size:5 final size:6
Alignment explanation
Indices: 25112510--25112548 Score: 51
Period size: 6 Copynumber: 6.2 Consensus size: 6
25112500 ATAGCCAAAG
*
25112510 ATAAAA ATTAAAA AGAAAA ATAAAA ATAAAA ATATAAA A
1 ATAAAA A-TAAAA ATAAAA ATAAAA ATAAAA ATA-AAA A
25112549 AAGCTACTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
6 19 0.66
7 10 0.34
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (6 bp):
ATAAAA
Found at i:25117475 original size:11 final size:11
Alignment explanation
Indices: 25117459--25117483 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25117449 CTTTAGATAT
25117459 TTGTACTTAAG
1 TTGTACTTAAG
25117470 TTGTACTTAAG
1 TTGTACTTAAG
25117481 TTG
1 TTG
25117484 CGTCTTTCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.20, T:0.48
Consensus pattern (11 bp):
TTGTACTTAAG
Found at i:25128961 original size:27 final size:27
Alignment explanation
Indices: 25128931--25129003 Score: 83
Period size: 32 Copynumber: 2.5 Consensus size: 27
25128921 TGTCTTGAAT
25128931 TTGTTAGATATTGATTATGTTTTAAGC
1 TTGTTAGATATTGATTATGTTTTAAGC
*
25128958 TTGTTATATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTG-----ATTATGTTTTAAGC
*
25128990 TTGTTGGATATTGA
1 TTGTTAGATATTGA
25129004 AATGATTGAC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
27 13 0.34
32 25 0.66
ACGTcount: A:0.26, C:0.03, G:0.18, T:0.53
Consensus pattern (27 bp):
TTGTTAGATATTGATTATGTTTTAAGC
Found at i:25128983 original size:32 final size:32
Alignment explanation
Indices: 25128944--25129004 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
25128934 TTAGATATTG
*
25128944 ATTATGTTTTAAGCTTGTTATATATTGAATTT
1 ATTATGTTTTAAGCTTGTTAGATATTGAATTT
*
25128976 ATTATGTTTTAAGCTTGTTGGATATTGAA
1 ATTATGTTTTAAGCTTGTTAGATATTGAA
25129005 ATGATTGACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.52
Consensus pattern (32 bp):
ATTATGTTTTAAGCTTGTTAGATATTGAATTT
Found at i:25130316 original size:20 final size:21
Alignment explanation
Indices: 25130287--25130333 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
25130277 CATCTAAACA
25130287 CCAG-AAAAGTAAATCA-TTT
1 CCAGAAAAAGTAAATCATTTT
25130306 CCAGAAAAAGTAAATCATTTT
1 CCAGAAAAAGTAAATCATTTT
25130327 CCAGAAA
1 CCAGAAA
25130334 TCATTTTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 4 0.15
20 12 0.46
21 10 0.38
ACGTcount: A:0.49, C:0.17, G:0.11, T:0.23
Consensus pattern (21 bp):
CCAGAAAAAGTAAATCATTTT
Found at i:25143080 original size:21 final size:20
Alignment explanation
Indices: 25143051--25143094 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
25143041 TTATGTTAAC
* *
25143051 AATTGAATTTAAAAATATATA
1 AATTAAATTT-AAAATAAATA
*
25143072 AATTAAATTTTAAATAAATA
1 AATTAAATTTAAAATAAATA
25143092 AAT
1 AAT
25143095 AGTTGAAGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (20 bp):
AATTAAATTTAAAATAAATA
Found at i:25146331 original size:50 final size:49
Alignment explanation
Indices: 25146277--25146664 Score: 116
Period size: 50 Copynumber: 8.2 Consensus size: 49
25146267 TTAGTGTCAC
*
25146277 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGT
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGAT-TTGT
* * *
25146327 AGTTTC--CTTCCGAC-CCACTGCAACTT-TAGG-GGTATAG----GATTTGT
1 AGTTTCATCTT--G-CTCCATTGCAACTTCAAGGAGATA-AGATTTGATTTGT
* * *
25146371 AGTTTCATCTTACTCTATTGCAACTTCAAGGAGATAAGATTT-ACTATGGT
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGA-T-TTGT
* * * * *
25146421 AGTTTCAATC-CGAC-CCACTGCAACTT-AA-GAGGTATAG----GGTTTAT
1 AGTTTC-ATCTTG-CTCCATTGCAACTTCAAGGAGATA-AGATTTGATTTGT
* * * * * *
25146465 AGCTTCATCTTGCTCCAATGCATCTTTAGGGAGATAAGATTTGATATTAT
1 AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGAT-TTGT
* * * *
25146515 AACTTTGATC-TGATCCATTGCAACTTC-AGG-GATATAG----GATTTAT
1 -AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATA-AGATTTGATTTGT
* * * * *
25146559 AGCTTCATCTTGCTCCACTACATCTTC-AGAGAGATAAGATTTGATATTAT
1 AGTTTCATCTTGCTCCATTGCAACTTCAAG-GAGATAAGATTTGAT-TTGT
* * * * *
25146609 AACTTTGATC-T--TCCACTGCAACTTCAGGGAGATAAGATTCGCCA-TTGT
1 -AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTG--ATTTGT
25146657 AGTTTCAT
1 AGTTTCAT
25146665 TCCAACCCAC
Statistics
Matches: 246, Mismatches: 50, Indels: 87
0.64 0.13 0.23
Matches are distributed among these distances:
43 11 0.04
44 57 0.23
45 17 0.07
46 15 0.06
47 6 0.02
48 43 0.17
49 20 0.08
50 60 0.24
51 17 0.07
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (49 bp):
AGTTTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGATTTGT
Found at i:25146381 original size:94 final size:94
Alignment explanation
Indices: 25146280--25146606 Score: 363
Period size: 94 Copynumber: 3.5 Consensus size: 94
25146270 GTGTCACAGT
* * **
25146280 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGTTGTTGTAGTTTCCTTCCGACCCAC
1 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGATATTGTAGTTTCAATCCGACCCAC
* * *
25146345 TGCAACTTTAGGGGTATAGGATTTGTAGT
66 TGCAACTTAAGGGGTATAGGATTTATAGC
* * *
25146374 TTCATCTTACTCTATTGCAACTTCAAGGAGATAAGATTT-ACTATGGTAGTTTCAATCCGACCCA
1 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGA-TATTGTAGTTTCAATCCGACCCA
* *
25146438 CTGCAACTTAAGAGGTATAGGGTTTATAGC
65 CTGCAACTTAAGGGGTATAGGATTTATAGC
* * * * * * * * *
25146468 TTCATCTTGCTCCAATGCATCTTTAGGGAGATAAGATTTGATATTATAACTTT-GATCTGATCCA
1 TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGATATTGT-AGTTTCAATCCGACCCA
* * *
25146532 TTGCAACTTCAGGGATATAGGATTTATAGC
65 CTGCAACTTAAGGGGTATAGGATTTATAGC
* * *
25146562 TTCATCTTGCTCCACTACATCTTC-AGAGAGATAAGATTTGATATT
1 TTCATCTTGCTCCATTGCAACTTCAAG-GAGATAAGATTTGATATT
25146607 ATAACTTTGA
Statistics
Matches: 196, Mismatches: 33, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
93 1 0.01
94 190 0.97
95 5 0.03
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (94 bp):
TTCATCTTGCTCCATTGCAACTTCAAGGAGATAAGATTTGATATTGTAGTTTCAATCCGACCCAC
TGCAACTTAAGGGGTATAGGATTTATAGC
Found at i:25146607 original size:94 final size:92
Alignment explanation
Indices: 25146435--25146647 Score: 311
Period size: 94 Copynumber: 2.3 Consensus size: 92
25146425 TCAATCCGAC
* * * * *
25146435 CCACTGCAACTTAAGAGG-TATAGGGTTTATAGCTTCATCTTGCTCCAATGCATCTTTAGGGAGA
1 CCACTGCAACTTCAG-GGATATAGGATTTATAGCTTCATCTTGCTCCAATACATCTTCAGAGAGA
25146499 TAAGATTTGATATTATAACTTTGATCTGAT
65 TAAGATTTGATATTATAACTTTGATCT--T
* *
25146529 CCATTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTGCTCCACTACATCTTCAGAGAGAT
1 CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTGCTCCAATACATCTTCAGAGAGAT
25146594 AAGATTTGATATTATAACTTTGATCTT
66 AAGATTTGATATTATAACTTTGATCTT
* *
25146621 CCACTGCAACTTCAGGGAGATAAGATT
1 CCACTGCAACTTCAGGGATATAGGATT
25146648 CGCCATTGTA
Statistics
Matches: 108, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
92 25 0.23
93 2 0.02
94 81 0.75
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.35
Consensus pattern (92 bp):
CCACTGCAACTTCAGGGATATAGGATTTATAGCTTCATCTTGCTCCAATACATCTTCAGAGAGAT
AAGATTTGATATTATAACTTTGATCTT
Found at i:25146634 original size:48 final size:48
Alignment explanation
Indices: 25146478--25146647 Score: 165
Period size: 48 Copynumber: 3.6 Consensus size: 48
25146468 TTCATCTTGC
* * *
25146478 TCCAATGCATCTTTAGGGAGATAAGATTTGATATTATAACTTTGATCT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATCT
* * *
25146526 GATCCATTGCAACTTCAGGGATATAGGATTT-ATAGCTTCAT--C-TTG--C-
1 --TCCACTGCAACTTCAGGGAGATAAGATTTGATA--TT-ATAACTTTGATCT
* * *
25146572 TCCACTACATCTTCAGAGAGATAAGATTTGATATTATAACTTTGATCT
1 TCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATCT
25146620 TCCACTGCAACTTCAGGGAGATAAGATT
1 TCCACTGCAACTTCAGGGAGATAAGATT
25146648 CGCCATTGTA
Statistics
Matches: 96, Mismatches: 14, Indels: 22
0.73 0.11 0.17
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 24 0.25
45 6 0.06
47 2 0.02
48 25 0.26
49 6 0.06
50 25 0.26
51 2 0.02
52 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.35
Consensus pattern (48 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTGATATTATAACTTTGATCT
Found at i:25146903 original size:44 final size:44
Alignment explanation
Indices: 25146830--25147003 Score: 124
Period size: 44 Copynumber: 3.8 Consensus size: 44
25146820 AAGATTCGCC
* * *
25146830 ATTT-TAGATTCAATCTGAC-CCACTACAACTTCAGGGGTATAGA
1 ATTTGTAGCTTCAATCTG-CTCTACTGCAACTTCAGGGGTATAGA
* *
25146873 ATTTGTAGCTTCAATCTGCTCTATTGCAACTTCAAGGAG-ATA-A
1 ATTTGTAGCTTCAATCTGCTCTACTGCAACTTC-AGGGGTATAGA
* * * *
25146916 GATTCGCAATGGTAACTTCAATTTGAC-CCACTGCAACTTCAGGGGTATAGG
1 -ATT-----T-GTAGCTTCAATCTG-CTCTACTGCAACTTCAGGGGTATAGA
* *
25146967 ATTTGTAGTTTCAATCTACTCTACTGCAACTTCAGGG
1 ATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAGGG
25147004 AAATAATATT
Statistics
Matches: 101, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
43 7 0.07
44 54 0.53
45 5 0.05
49 5 0.05
50 29 0.29
51 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (44 bp):
ATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAGGGGTATAGA
Found at i:25146936 original size:94 final size:94
Alignment explanation
Indices: 25146770--25147436 Score: 684
Period size: 94 Copynumber: 7.1 Consensus size: 94
25146760 CCGACCCACT
* * * * *
25146770 GGGTATAGAATTTGTTGCTTC-ATCTTGCTCCACTGTAACTTC-AGGAAGATAAGATTCGCCATT
1 GGGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGCAACTTCAAGG-AGATAAGATTCGCTATG
* * *
25146833 TTAGATTCAATCTGACCCACTACAACTTCAG
64 GTAGATTTAATCTGACCCACTGCAACTTCAG
* * * *
25146864 GGGTATAGAATTTGTAGCTTCAATCTGCTCTATTGCAACTTCAAGGAGATAAGATTCGCAATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGT
* *
25146929 A-ACTTCAATTTGACCCACTGCAACTTCAG
66 AGA-TTTAATCTGACCCACTGCAACTTCAG
* * * * * * *
25146958 GGGTATAGGATTTGTAGTTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGT
* * * *
25147023 AGATTTAAT-TTATCCCATTGTAACTTCAA
66 AGATTTAATCTGA-CCCACTGCAACTTCAG
* * * * *
25147052 GGGTATAGGA-TTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCACTATGG
1 GGGTATAGGATTTG-TAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGG
* *
25147116 TAGATTTAAT-TCGACCCACTGTAACTTTAG
65 TAGATTTAATCT-GACCCACTGCAACTTCAG
* * * * * * *
25147146 GGGTATATGATTTTTGGCTTCAATCTGCTACACTACAACTTCAAGGAGATAAGATTCCCTATAGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGT
* *
25147211 AGATTTAATCCGACCTACTGCAACTTCAG
66 AGATTTAATCTGACCCACTGCAACTTCAG
* * ** * *
25147240 GGATATAGGATTTGTAGCTTTAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTCGCTATGGT
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGT
* * *
25147305 AGATTTAATTTGACCTATTGCAACTTCA-
66 AGATTTAATCTGACCCACTGCAACTTCAG
* * ** * *
25147333 AGGTATAGGATTTGTAGCTTAAATCTGCTCCACTATAACTT-TAGGAAGATAAGATTTGCTATGG
1 GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGG-AGATAAGATTCGCTATGG
* * *
25147397 TAGATTCAATCTGACCTACTACAACTTCAG
65 TAGATTTAATCTGACCCACTGCAACTTCAG
25147427 GGGTATAGGA
1 GGGTATAGGA
25147437 ATTATGGTTT
Statistics
Matches: 481, Mismatches: 81, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
92 2 0.00
93 81 0.17
94 388 0.81
95 10 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (94 bp):
GGGTATAGGATTTGTAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTCGCTATGGT
AGATTTAATCTGACCCACTGCAACTTCAG
Found at i:25147174 original size:282 final size:281
Alignment explanation
Indices: 25146771--25147439 Score: 832
Period size: 282 Copynumber: 2.4 Consensus size: 281
25146761 CGACCCACTG
* * * * **
25146771 GGTATAGAATTTGTTGCTTC-ATCTTGCTCCACTGTAACTTCAGGAAGATAAGATTCGCCATTTT
1 GGTATAGGATTTGTAGCTTCAATC-TGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGT
* *
25146835 AGATTCAATCTGACCCACTACAACTTCAGGGGTATAGAATTTGTAGCTTCAATCTGCT-CTATTG
65 AGATTCAATCTGACCCACTACAACTTCAGGGGTATAGAATTTGTAGCTTCAATCTGCTAC-ACTA
* * ** *
25146899 CAACTTCAAGGAGATAAGATTCGCAATGGTA-ACTTCAATTTGACCCACTGCAACTTCAGGGGTA
129 CAACTTCAAGGAGATAAGATTCCCAATAGTAGA-TTCAATCCGACCCACTGCAACTTCAGGGATA
** * *
25146963 TAGGATTTGTAG-TTTCAATCTACTCTACTGCAACTTCAGGGAAATAATATTTGCTATGGTAGAT
193 TAGGATTTGTAGCTTT-AATCTACTCTACTGCAACTTCAAAGAAATAAAATTCGCTATGGTAGAT
*
25147027 TTAATTT-ATCCCATTGTAACTTCAA
257 TTAATTTGA-CCCATTGCAACTTCAA
* * * * *
25147052 GGGTATAGGA-TTGATGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGTTAAGATTCACTATGG
1 -GGTATAGGATTTG-TAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGG
* ** * * *
25147116 TAGATTTAAT-TCGACCCACTGTAACTTTAGGGGTATATG-ATTTTTGGCTTCAATCTGCTACAC
64 TAGATTCAATCT-GACCCACTACAACTTCAGGGGTATA-GAATTTGTAGCTTCAATCTGCTACAC
* * *
25147179 TACAACTTCAAGGAGATAAGATTCCCTATAGTAGATTTAATCCGACCTACTGCAACTTCAGGGAT
127 TACAACTTCAAGGAGATAAGATTCCCAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGAT
* * *
25147244 ATAGGATTTGTAGCTTTAATCTGCTTTACTGCAACTTCAAAGAGATAAAATTCGCTATGGTAGAT
192 ATAGGATTTGTAGCTTTAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCGCTATGGTAGAT
*
25147309 TTAATTTGACCTATTGCAACTTCAA
257 TTAATTTGACCCATTGCAACTTCAA
* * *
25147334 GGTATAGGATTTGTAGCTTAAATCTGCTCCACTATAACTTTAGGAAGATAAGATTTGCTATGGTA
1 GGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGTA
*
25147399 GATTCAATCTGACCTACTACAACTTCAGGGGTATAGGAATT
66 GATTCAATCTGACCCACTACAACTTCAGGGGTATA-GAATT
25147440 ATGGTTTCAC
Statistics
Matches: 327, Mismatches: 49, Indels: 22
0.82 0.12 0.06
Matches are distributed among these distances:
281 86 0.26
282 231 0.71
283 10 0.03
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (281 bp):
GGTATAGGATTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATGGTA
GATTCAATCTGACCCACTACAACTTCAGGGGTATAGAATTTGTAGCTTCAATCTGCTACACTACA
ACTTCAAGGAGATAAGATTCCCAATAGTAGATTCAATCCGACCCACTGCAACTTCAGGGATATAG
GATTTGTAGCTTTAATCTACTCTACTGCAACTTCAAAGAAATAAAATTCGCTATGGTAGATTTAA
TTTGACCCATTGCAACTTCAA
Found at i:25155822 original size:19 final size:18
Alignment explanation
Indices: 25155789--25155830 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
25155779 TATCTATTTA
* *
25155789 TCATAATTATGATTAATT
1 TCATTATTATGATTAATG
25155807 TCATTATTAGTGATTAATG
1 TCATTATTA-TGATTAATG
25155826 TCATT
1 TCATT
25155831 GTATAGCAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.50
Consensus pattern (18 bp):
TCATTATTATGATTAATG
Found at i:25159339 original size:17 final size:16
Alignment explanation
Indices: 25159312--25159343 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
25159302 ATTTACTTAG
25159312 TTTGTTATATATTTGT
1 TTTGTTATATATTTGT
25159328 TTTGTATATATATTTG
1 TTTGT-TATATATTTG
25159344 ATTGTGAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (16 bp):
TTTGTTATATATTTGT
Found at i:25164701 original size:31 final size:29
Alignment explanation
Indices: 25164631--25164710 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
25164621 ATTTGTCACT
* * **
25164631 TTTTTAAAGTTTAGTGACTGAGTTGTAAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
25164660 TTTTCAAAGTTCAGTGACTGAAATGTTAC
1 TTTTCAAAGTTCAGTGACTGAAATGTAAC
*
25164689 TTTAATCAAAGTTGAGTGACTG
1 TTT--TCAAAGTTCAGTGACTG
25164711 GTAGAACAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
29 27 0.63
31 16 0.37
ACGTcount: A:0.30, C:0.10, G:0.20, T:0.40
Consensus pattern (29 bp):
TTTTCAAAGTTCAGTGACTGAAATGTAAC
Found at i:25165347 original size:22 final size:20
Alignment explanation
Indices: 25165308--25165355 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
25165298 CTTATTTTGG
25165308 GGTTTTGATTAGATTTTTGAAA
1 GGTTTTGATTAGATTTTT--AA
*
25165330 GGTTTTGATTTTGA-TTTTAA
1 GGTTTTGA-TTAGATTTTTAA
25165350 GGTTTT
1 GGTTTT
25165356 AGTTTGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.33
22 12 0.50
23 4 0.17
ACGTcount: A:0.21, C:0.00, G:0.23, T:0.56
Consensus pattern (20 bp):
GGTTTTGATTAGATTTTTAA
Found at i:25170879 original size:25 final size:26
Alignment explanation
Indices: 25170823--25170890 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
25170813 GGTCACCGAT
*
25170823 TTCAGCTCTTATGAGCTTCCCGATAC
1 TTCAGCTCATATGAGCTTCCCGATAC
*
25170849 TT-AGCTCGTATGAGCTTCCC-ATTA-
1 TTCAGCTCATATGAGCTTCCCGA-TAC
*
25170873 TTCAGCTCACATGAGCTT
1 TTCAGCTCATATGAGCTT
25170891 TCTGTTATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
24 3 0.08
25 32 0.86
26 2 0.05
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (26 bp):
TTCAGCTCATATGAGCTTCCCGATAC
Found at i:25171623 original size:25 final size:25
Alignment explanation
Indices: 25171561--25171611 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
25171551 AATGAAAGAA
25171561 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
25171586 AGTAAAATGTGGTTTGAATATGCAT
1 AGTAAAATGTGGTTTGAATATGCAT
25171611 A
1 A
25171612 TGTGAATTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.37, C:0.04, G:0.24, T:0.35
Consensus pattern (25 bp):
AGTAAAATGTGGTTTGAATATGCAT
Found at i:25173741 original size:26 final size:26
Alignment explanation
Indices: 25173710--25173804 Score: 81
Period size: 26 Copynumber: 3.7 Consensus size: 26
25173700 GTAGATTCGG
25173710 AGAGCCATTAATCGGGAAGGCTACAA
1 AGAGCCATTAATCGGGAAGGCTACAA
* *
25173736 AGAGCCTTTAATTGGGAAGGTCATA-AA
1 AGAGCCATTAATCGGGAAGG-C-TACAA
* **
25173763 A-AGCCTTTAATC-GGAAAACTCACAA
1 AGAGCCATTAATCGGGAAGGCT-ACAA
25173788 AGAGCCA-TATATCGGGA
1 AGAGCCATTA-ATCGGGA
25173805 CGCTTATAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
23 1 0.02
24 2 0.04
25 9 0.16
26 35 0.62
27 7 0.12
28 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.23, T:0.20
Consensus pattern (26 bp):
AGAGCCATTAATCGGGAAGGCTACAA
Found at i:25177759 original size:312 final size:311
Alignment explanation
Indices: 25177164--25177762 Score: 1015
Period size: 312 Copynumber: 1.9 Consensus size: 311
25177154 TTTTTTCAGG
*
25177164 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGGT
1 CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
25177229 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
66 GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
* * *
25177294 CATGGATGACTGATAACACACTGAGGCATTATCTCTTGTATATTCATTATACTAGAAAGTGTTTT
131 CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
* *
25177359 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTGTATTTAGCAGATTTGTGAGCAATTGTTCCTTG
196 CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
*
25177424 CATTTTTAAAAAATAGTTGTGTTCATAATTTTGATTGTTATTATACATGCA
261 CATTTATAAAAAATAGTTGTGTTCATAATTTTGATTGTTATTATACATGCA
* *
25177475 CATTGAGGGATAGACGAGGTAGTGCTGTAGCTAAGACAAATGTTATTGGATTCATGTGCATATGA
1 CATTGAGGGATAGACGAGATAG-GCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGA
* * *
25177540 TTTGTTGAAGTTTTCTGTGTTAATGTAGTTGATAT-TCTGGGTAATAGCTACTTATTGGCTAGGT
65 TGTGTTGAAGTTGTCTGTGTTAATGTAGTTGAT-TGTCTGGGTAATAGCTACTTATTGGCAAGGT
25177604 AACATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGGAAACT-T
129 AACATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTA-GAAACTGT
*
25177668 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTTC
193 TTTCTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCC
*
25177733 TTGCATTTATGAAAAATCAG-TGTGTTCATA
258 TTGCATTTATAAAAAAT-AGTTGTGTTCATA
25177763 TTATTATACA
Statistics
Matches: 270, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
311 21 0.08
312 241 0.89
313 8 0.03
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.39
Consensus pattern (311 bp):
CATTGAGGGATAGACGAGATAGGCTGTAGCTAAGACAAATATTATTGGATTCATGTGCATATGAT
GTGTTGAAGTTGTCTGTGTTAATGTAGTTGATTGTCTGGGTAATAGCTACTTATTGGCAAGGTAA
CATGGATGACTGATAACACACTGAGGCATTATATCTTGTATATTCATGATACTAGAAACTGTTTT
CTCTTGTGCAAGGCAATTGTTTAGATCTTCTTATATTTAGCAGAGTTGTGAGCAATTGTTCCTTG
CATTTATAAAAAATAGTTGTGTTCATAATTTTGATTGTTATTATACATGCA
Found at i:25182830 original size:18 final size:18
Alignment explanation
Indices: 25182807--25182843 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25182797 AAATTAATGG
*
25182807 TATTTTTCGAACCAGTTA
1 TATTTTTCGAAACAGTTA
25182825 TATTTTTCGAAACAGTTA
1 TATTTTTCGAAACAGTTA
25182843 T
1 T
25182844 CTTATCATAC
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:0.30, C:0.14, G:0.11, T:0.46
Consensus pattern (18 bp):
TATTTTTCGAAACAGTTA
Found at i:25194914 original size:55 final size:56
Alignment explanation
Indices: 25194846--25194971 Score: 191
Period size: 55 Copynumber: 2.3 Consensus size: 56
25194836 TGACTTTCGA
* *
25194846 CACTAAGTGTGCGAATTTAATTGTGAAGCACTAAGT-TGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAATTTAATGGTGAAGCACTAAGTGTGCGAGTTTAATTATAAAG
* * * *
25194901 CACTAAGTGTGCGAGTTTAATGGTTAAGCACTAAGTGTGCGAGTTTGATTATTAAG
1 CACTAAGTGTGCGAATTTAATGGTGAAGCACTAAGTGTGCGAGTTTAATTATAAAG
25194957 CACTAAGTGTGCGAA
1 CACTAAGTGTGCGAA
25194972 CTTATTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 33 0.52
56 30 0.48
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.32
Consensus pattern (56 bp):
CACTAAGTGTGCGAATTTAATGGTGAAGCACTAAGTGTGCGAGTTTAATTATAAAG
Found at i:25194929 original size:28 final size:28
Alignment explanation
Indices: 25194846--25194970 Score: 189
Period size: 28 Copynumber: 4.5 Consensus size: 28
25194836 TGACTTTCGA
* *
25194846 CACTAAGTGTGCGAATTTAATTGTGAAG
1 CACTAAGTGTGCGAGTTTAATTGTTAAG
*
25194874 CACTAAGT-TGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTTAAG
*
25194901 CACTAAGTGTGCGAGTTTAATGGTTAAG
1 CACTAAGTGTGCGAGTTTAATTGTTAAG
* *
25194929 CACTAAGTGTGCGAGTTTGATTATTAAG
1 CACTAAGTGTGCGAGTTTAATTGTTAAG
25194957 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
25194971 ACTTATTAAA
Statistics
Matches: 89, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 25 0.28
28 64 0.72
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTTAAG
Found at i:25195149 original size:2 final size:2
Alignment explanation
Indices: 25195142--25195180 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
25195132 ATTTGGAATC
25195142 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25195181 GATTCTTTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25195865 original size:93 final size:93
Alignment explanation
Indices: 25195744--25196924 Score: 1199
Period size: 93 Copynumber: 12.7 Consensus size: 93
25195734 TGTGGTAATT
*
25195744 ATGCTGCCTAA-TTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
* * * **
25195808 TATAAGTACTGTCCAAATTGGTATATGT
66 TATAAATGCTGTCCAAATTGGCATATAC
* * * *
25195836 ATGTTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCAACTTTTG-G
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
* *
25195900 TTAATAAATGCTGTCCAATTTTGCATATAC
66 -T-ATAAATGCTGTCCAAATTGGCATATAC
* * * * * * ** * *
25195930 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
* * *
25195994 GAATAAATGCTGTCCAATTTTGCATATAC
65 GTATAAATGCTGTCCAAATTGGCATATAC
* * * * * * ** * *
25196023 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
* * *
25196087 GAATAAATGCTGTCCAATTTTGCATATAC
65 GTATAAATGCTGTCCAAATTGGCATATAC
* * * * * * * ** * *
25196116 ATGCTGTCAAATTTT-GTGTATAAGTGCTGCCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
* * *
25196180 GAATAAATGCTGTCCAATTTTGCATATAC
65 GTATAAATGCTGTCCAAATTGGCATATAC
* * * * * * ** * *
25196209 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
* * * *
25196273 GAATAAATGCTGTCTAATTTTGCATATAC
65 GTATAAATGCTGTCCAAATTGGCATATAC
* * * * * * ** * *
25196302 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGT
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTT-GT
* * * *
25196366 GAATAAATGCCGTCCAATTTTGCATATAC
65 GTATAAATGCTGTCCAAATTGGCATATAC
* * *
25196395 ATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATATTTTGCATATACATGCTGTCAAATTTT
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCC--A-ATTTTGCATATACATGCTGTCAAATTTT
* * * **
25196459 GTGTATAAGTGTTGTCCAAATTGGTATATGT
63 GTGTATAAATGCTGTCCAAATTGGCATATAC
*
25196490 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
* * * **
25196555 TATAAGTGCTGCCCAAATTGGTATATGT
66 TATAAATGCTGTCCAAATTGGCATATAC
*
25196583 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
* * **
25196648 TATAAGTGCTGTCCAAATTGGTATATGT
66 TATAAATGCTGTCCAAATTGGCATATAC
* *
25196676 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCTAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
* * **
25196741 TATAAGTGCTGTCCAAATTGGTATATGT
66 TATAAATGCTGTCCAAATTGGCATATAC
*
25196769 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
* * **
25196834 TATAAGTGCTGTCCAAATTGGTATATGT
66 TATAAATGCTGTCCAAATTGGCATATAC
* * *
25196862 ATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAAGCTGTCCAATTTTG
1 ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTG
25196925 CATATACAAG
Statistics
Matches: 1024, Mismatches: 56, Indels: 17
0.93 0.05 0.02
Matches are distributed among these distances:
92 10 0.01
93 907 0.89
94 34 0.03
95 37 0.04
96 36 0.04
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (93 bp):
ATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTG
TATAAATGCTGTCCAAATTGGCATATAC
Found at i:25196442 original size:26 final size:23
Alignment explanation
Indices: 25195744--25197070 Score: 640
Period size: 23 Copynumber: 57.0 Consensus size: 23
25195734 TGTGGTAATT
* * * * *
25195744 ATGCTGCCTAATTTGGTGAATAA
1 ATGCTGTCAAATTTTGTGTATAC
* **
25195767 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25195790 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * * **
25195812 AGTACTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * * *
25195836 ATGTTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* *
25195860 ATGCTGTCCAATTTTGTATATAC
1 ATGCTGTCAAATTTTGTGTATAC
* *
25195883 ATGCTGTCAACTTTTG-GTTAATAA
1 ATGCTGTCAAATTTTGTG-T-ATAC
* **
25195907 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25195930 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25195952 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25195976 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196000 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196023 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196045 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196069 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196093 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196116 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * * **
25196138 AGTGCTGCCCAAA-TTGGTATATGT
1 A-TGCTG-TCAAATTTTGTGTATAC
* * * *
25196162 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196186 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196209 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196231 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196255 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196279 ATGCTGTCTAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196302 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196324 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196348 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* * **
25196372 ATGCCGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196395 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
25196417 AGTGCTGTCCAAATATTT-TGCATATAC
1 A-TGCTGT-CAAAT-TTTGTG--TATAC
25196444 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * * **
25196466 AGTGTTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196490 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196514 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196537 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * * **
25196559 AGTGCTGCCCAAA-TTGGTATATGT
1 A-TGCTG-TCAAATTTTGTGTATAC
* * * *
25196583 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196607 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196630 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196652 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196676 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196700 ATGCTGTCTAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196723 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196745 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196769 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196793 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
25196816 ATGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196838 AGTGCTGTCCAAA-TTGGTATATGT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196862 ATGCTGCCCAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* **
25196886 ATGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
* * **
25196909 AAGCTGTCCAATTTTGCATATAC
1 ATGCTGTCAAATTTTGTGTATAC
*
25196932 AAGCTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTGTATAC
* * * *
25196954 AGTGTTGTCCAAA-TTAGTATATAT
1 A-TGCTGT-CAAATTTTGTGTATAC
* * * *
25196978 ATGCTGCCTAATTTTGGTGAATAA
1 ATGCTGTCAAATTTT-GTGTATAC
* * *
25197002 ATGTTGTCCAATTTTGTATATAC
1 ATGCTGTCAAATTTTGTGTATAC
*
25197025 ATGCTGTCAAATTTTGGTGTATAA
1 ATGCTGTCAAATTTT-GTGTATAC
*
25197049 ATGCTGT-ACAATTTTGTATATA
1 ATGCTGTCA-AATTTTGTGTATA
25197071 TATATATATA
Statistics
Matches: 984, Mismatches: 248, Indels: 144
0.72 0.18 0.10
Matches are distributed among these distances:
22 51 0.05
23 594 0.60
24 318 0.32
25 10 0.01
26 10 0.01
27 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.39
Consensus pattern (23 bp):
ATGCTGTCAAATTTTGTGTATAC
Found at i:25196974 original size:116 final size:116
Alignment explanation
Indices: 25195862--25197040 Score: 472
Period size: 116 Copynumber: 10.1 Consensus size: 116
25195852 GTGAATAAAT
* * * * * * *
25195862 GCTGTCCAATTTTGTATATACATGCTGTCAACTTTTG-GTTAATAAATGCTGTCCAATTTTGCAT
1 GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTG-T-ATAAGTGCTGTCCAAATTAGTAT
* * * * * * * * ** *
25195926 ATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTAT
64 ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
* * * ** *
25195978 GCTGCCCAATTTTG-GTGAATA-AATGCTGTCCAATTTTGCATATACA-TGCTGT-CAAATTTTG
1 GCTGTCCAATTTTGCAT--ATACAA-GCTGTCAAATTTTGTGTATA-AGTGCTGTCCAAA-TTAG
* * * ** * *
25196039 TGTATA-AGTGCTGTCCAA-ATTGGT-ATATGTATGCTGCCCAATTTTG-GTGAATA-AA
61 TATATATA-TGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGCAT--ATACAA
* * *
25196094 TGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGCCCAAATTGGTATA
1 -GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATA
* *
25196159 TGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAT
65 TATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
* ** * * * * *
25196211 GCTGTCAAATTTTGTGTATA-AGTGCTGTCCAAA--TTG-GTATATGTATGCTGCCCAATTTTGG
1 GCTGTCCAATTTTGCATATACA-AGCTGT-CAAATTTTGTGTATAAG--TGCTGTCCAA-ATTAG
* * * * * * ** *
25196272 TGA-ATAAATGCTGTCTAATTTT-G-CATATACATGCTGTCAAATTTTGTGTATA-AGT
61 T-ATATATATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGCATATACA-A
* * * ** * * * * * * * * *
25196327 GCTGTCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCCGTCCAATTTTGCATA
1 GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTAGTATA
* * * * * *
25196392 TACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATATTTTGCATATACAT
65 TATATGCTGCCCAATTTTGGTGAATAAATGCTGTCC--A-ATTTTGCATATACAA
* ** * * * * * *
25196446 GCTGTCAAATTTTGTGTATA-AGTGTTGTCCAAA--TTG-GTATATGTATGCTGCCCAATTTTGG
1 GCTGTCCAATTTTGCATATACA-AGCTGT-CAAATTTTGTGTATAAG--TGCTGTCCAA-ATTAG
* * * * * ** *
25196507 TGA-ATAAATGCTGTCCAATTTT-G-CATATACATGCTGTCAAATTTTGTGTATA-AGT
61 T-ATATATATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGCATATACA-A
* * * * ** * * * * * * * *
25196562 GCTGCCCAAATTGGTATATGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATA
1 GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTAGTATA
* * * * * * * * ** *
25196627 TACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATGTAT
65 TATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
* * * ** *
25196678 GCTGCCCAATTTTG-GTGAATA-AATGCTGTCTAATTTTGCATATACA-TGCTGT-CAAATTTTG
1 GCTGTCCAATTTTGCAT--ATACAA-GCTGTCAAATTTTGTGTATA-AGTGCTGTCCAAA-TTAG
* * * ** * *
25196739 TGTATA-AGTGCTGTCCAA-ATTGGT-ATATGTATGCTGCCCAATTTTG-GTGAATA-AA
61 TATATATA-TGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGCAT--ATACAA
* *
25196794 TGCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATA
1 -GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATA
*
25196859 TGTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
65 TATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
*
25196911 GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTGTATAAGTGTTGTCCAAATTAGTATAT
1 GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATAT
* * * *
25196976 ATATGCTGCCTAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACAT
66 ATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
*
25197027 GCTGTCAAATTTTG
1 GCTGTCCAATTTTG
25197041 GTGTATAAAT
Statistics
Matches: 813, Mismatches: 174, Indels: 152
0.71 0.15 0.13
Matches are distributed among these distances:
114 6 0.01
115 33 0.04
116 508 0.62
117 170 0.21
118 21 0.03
119 70 0.09
120 5 0.01
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.39
Consensus pattern (116 bp):
GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTAGTATAT
ATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
Found at i:25197021 original size:47 final size:47
Alignment explanation
Indices: 25196913--25197070 Score: 210
Period size: 47 Copynumber: 3.4 Consensus size: 47
25196903 ATATACAAGC
* * *
25196913 TGTCCAATTTTGCATATACAAGCTGTCAAATTTT-GTGTATAAGTGT
1 TGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGT
* * * * * *
25196959 TGTCCAAATTAGTATATATATGCTGCCTAATTTTGGTGAATAAATGT
1 TGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGT
*
25197006 TGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGC
1 TGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGT
*
25197053 TGTACAATTTTGTATATA
1 TGTCCAATTTTGTATATA
25197071 TATATATATA
Statistics
Matches: 94, Mismatches: 17, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
46 27 0.29
47 67 0.71
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.42
Consensus pattern (47 bp):
TGTCCAATTTTGTATATACATGCTGTCAAATTTTGGTGTATAAATGT
Found at i:25197072 original size:2 final size:2
Alignment explanation
Indices: 25197065--25197101 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
25197055 TACAATTTTG
25197065 TA TA TA TA TA 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 T
25197102 GCTGCTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25197095 original size:116 final size:115
Alignment explanation
Indices: 25196795--25197070 Score: 331
Period size: 116 Copynumber: 2.4 Consensus size: 115
25196785 GTGAATAAAT
* * * ** * *
25196795 GCTGTCCAATTTTGCATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATAT
1 GCTGTCAAATTTTGCATATACAAGCTGTCAAATTTTGTATATAAGTATTAT-CAAATTAGTATAT
*
25196860 GTATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
65 ATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
* * * *
25196911 GCTGTCCAATTTTGCATATACAAGCTGTCAAATTTTGTGTATAAGTGTTGTCCAAATTAGTATAT
1 GCTGTCAAATTTTGCATATACAAGCTGTCAAATTTTGTATATAAGTATTAT-CAAATTAGTATAT
* * * *
25196976 ATATGCTGCCTAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACAT
65 ATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
**
25197027 GCTGTCAAATTTTGGTGTATA-AATGCTGT-ACAATTTTGTATATA
1 GCTGTCAAATTTT-GCATATACAA-GCTGTCA-AATTTTGTATATA
25197071 TATATATATA
Statistics
Matches: 145, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
116 123 0.85
117 22 0.15
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (115 bp):
GCTGTCAAATTTTGCATATACAAGCTGTCAAATTTTGTATATAAGTATTATCAAATTAGTATATA
TATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGCATATACAA
Found at i:25198192 original size:20 final size:19
Alignment explanation
Indices: 25198166--25198216 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
25198156 TTGGAGTAGG
* *
25198166 AATATCGATACCTTAGGAA
1 AATATCGATACCATAAGAA
25198185 ATATATCGATACCATAAGAA
1 A-ATATCGATACCATAAGAA
25198205 AAGTATCGATAC
1 AA-TATCGATAC
25198217 TAGATCGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (19 bp):
AATATCGATACCATAAGAA
Found at i:25198462 original size:22 final size:23
Alignment explanation
Indices: 25198435--25198477 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
25198425 AAATTGCTCA
* *
25198435 ACTTTACTTTTTAT-TCAAAAAC
1 ACTTTAATTGTTATATCAAAAAC
25198457 ACTTTAATTGTTATATCAAAA
1 ACTTTAATTGTTATATCAAAA
25198478 CATATGATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (23 bp):
ACTTTAATTGTTATATCAAAAAC
Found at i:25201613 original size:30 final size:29
Alignment explanation
Indices: 25201577--25201675 Score: 84
Period size: 30 Copynumber: 3.5 Consensus size: 29
25201567 TCAATAAAAG
25201577 ATAAAATTATATTT-ATGCATATTAAAAATA
1 ATAAAATTATATTTAAT-CA-ATTAAAAATA
*
25201607 ATAAAATTTTGATTTAATCAATTAAAAATA
1 ATAAAATTAT-ATTTAATCAATTAAAAATA
* * *
25201637 ATAGACATTATA---AATTAA-T-AAAATT
1 ATA-AAATTATATTTAATCAATTAAAAATA
25201662 ATAAAATTATATTT
1 ATAAAATTATATTT
25201676 TAATTCTTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 15
0.73 0.08 0.19
Matches are distributed among these distances:
24 7 0.12
25 8 0.14
26 1 0.02
27 5 0.09
30 23 0.40
31 11 0.19
32 2 0.04
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (29 bp):
ATAAAATTATATTTAATCAATTAAAAATA
Found at i:25201668 original size:17 final size:18
Alignment explanation
Indices: 25201626--25201670 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 18
25201616 TGATTTAATC
25201626 AATTA-AAAA-TAATAGA
1 AATTATAAAATTAATAGA
*
25201642 CATTAT-AAATTAATA-A
1 AATTATAAAATTAATAGA
25201658 AATTATAAAATTA
1 AATTATAAAATTA
25201671 TATTTTAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (18 bp):
AATTATAAAATTAATAGA
Found at i:25202877 original size:3 final size:3
Alignment explanation
Indices: 25202869--25202905 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
25202859 GTGCGTCTAT
25202869 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
25202906 CTATTGTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:25204635 original size:29 final size:29
Alignment explanation
Indices: 25204599--25204758 Score: 131
Period size: 29 Copynumber: 5.3 Consensus size: 29
25204589 TCAATGCTCA
*
25204599 CCACAAAGGCTTTCCTGTCCAGAGTTTTG
1 CCACAAAGGCTTTCCTGTCCAAAGTTTTG
* * * * *
25204628 CCACAAAGGCTTTTCTTTTCATATAGTACTTA
1 CCACAAAGGCTTTCCTGTCCA-A-AGT-TTTG
* * *
25204660 CCATAAAGGCTTTCTTGTCCAAAATTTTG
1 CCACAAAGGCTTTCCTGTCCAAAGTTTTG
** * * *
25204689 CCACAAAATCTTTCCTTTTCATATAGTTCTTA
1 CCACAAAGGCTTTCCTGTCCA-A-AGTT-TTG
*
25204721 CCACAAAGGCTTTCCTGTCCAAAATTTTG
1 CCACAAAGGCTTTCCTGTCCAAAGTTTTG
25204750 CCACAAAGG
1 CCACAAAGG
25204759 GGTTCCTCTC
Statistics
Matches: 97, Mismatches: 28, Indels: 12
0.71 0.20 0.09
Matches are distributed among these distances:
29 46 0.47
30 6 0.06
31 8 0.08
32 37 0.38
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (29 bp):
CCACAAAGGCTTTCCTGTCCAAAGTTTTG
Found at i:25204734 original size:32 final size:31
Alignment explanation
Indices: 25204598--25204736 Score: 108
Period size: 32 Copynumber: 4.5 Consensus size: 31
25204588 TTCAATGCTC
* * *
25204598 ACCACAAAGGCTTTCC-TGTC-CAGAGTTTT
1 ACCACAAAGGCTTTCCTTTTCATATAGTTTT
* * *
25204627 GCCACAAAGGCTTTTCTTTTCATATAGTACTT
1 ACCACAAAGGCTTTCCTTTTCATATAGT-TTT
* * *
25204659 ACCATAAAGGCTTT-CTTGTCCA-A-AATTTT
1 ACCACAAAGGCTTTCCTT-TTCATATAGTTTT
* **
25204688 GCCACAAAATCTTTCCTTTTCATATAGTTCTT
1 ACCACAAAGGCTTTCCTTTTCATATAGTT-TT
25204720 ACCACAAAGGCTTTCCT
1 ACCACAAAGGCTTTCCT
25204737 GTCCAAAATT
Statistics
Matches: 82, Mismatches: 20, Indels: 13
0.71 0.17 0.11
Matches are distributed among these distances:
29 29 0.35
30 9 0.11
31 11 0.13
32 33 0.40
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.37
Consensus pattern (31 bp):
ACCACAAAGGCTTTCCTTTTCATATAGTTTT
Found at i:25204765 original size:61 final size:61
Alignment explanation
Indices: 25204598--25204758 Score: 250
Period size: 61 Copynumber: 2.6 Consensus size: 61
25204588 TTCAATGCTC
* * *
25204598 ACCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAGGCTTTTCTTTTCATATAGTACTT
1 ACCACAAAGGCTTTCCTGTCCAAAATTTTGCCACAAAGGCTTTCCTTTTCATATAGTACTT
* * ** *
25204659 ACCATAAAGGCTTTCTTGTCCAAAATTTTGCCACAAAATCTTTCCTTTTCATATAGTTCTT
1 ACCACAAAGGCTTTCCTGTCCAAAATTTTGCCACAAAGGCTTTCCTTTTCATATAGTACTT
25204720 ACCACAAAGGCTTTCCTGTCCAAAATTTTGCCACAAAGG
1 ACCACAAAGGCTTTCCTGTCCAAAATTTTGCCACAAAGG
25204759 GGTTCCTCTC
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 88 1.00
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.35
Consensus pattern (61 bp):
ACCACAAAGGCTTTCCTGTCCAAAATTTTGCCACAAAGGCTTTCCTTTTCATATAGTACTT
Found at i:25208133 original size:19 final size:18
Alignment explanation
Indices: 25208111--25208200 Score: 65
Period size: 19 Copynumber: 4.5 Consensus size: 18
25208101 TATATATATA
25208111 ATTTTTATAATGTTTTTAT
1 ATTTTTATAAT-TTTTTAT
25208130 ATTTTTATAAATTTTTTTAAAT
1 ATTTTTAT-AA-TTTTTT--AT
*
25208152 ATTTTT-TCTATATTTTTAT
1 ATTTTTAT-AAT-TTTTTAT
*
25208171 ATTTTCTATTAATTTTTATAA
1 ATTTT-TA-TAATTTTT-TAT
25208192 ATTTTTATA
1 ATTTTTATA
25208201 CTCTTTATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
19 17 0.29
20 15 0.26
21 17 0.29
22 9 0.16
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (18 bp):
ATTTTTATAATTTTTTAT
Found at i:25208143 original size:10 final size:10
Alignment explanation
Indices: 25208105--25208200 Score: 65
Period size: 10 Copynumber: 9.4 Consensus size: 10
25208095 TTTATTTATA
25208105 TATATAATTTT
1 TATA-AATTTT
25208116 TAT-AATGTTT
1 TATAAAT-TTT
*
25208126 T-TATATTTT
1 TATAAATTTT
25208135 TATAAATTTT
1 TATAAATTTT
*
25208145 TTTAAATATTTTT
1 TAT-AA-A-TTTT
* *
25208158 TCTATATTTT
1 TATAAATTTT
25208168 TAT--ATTTT
1 TATAAATTTT
*
25208176 CTATTAATTTT
1 -TATAAATTTT
25208187 TATAAATTTT
1 TATAAATTTT
25208197 TATA
1 TATA
25208201 CTCTTTATTT
Statistics
Matches: 69, Mismatches: 7, Indels: 19
0.73 0.07 0.20
Matches are distributed among these distances:
8 5 0.07
9 11 0.16
10 34 0.49
11 11 0.16
12 2 0.03
13 6 0.09
ACGTcount: A:0.31, C:0.02, G:0.01, T:0.66
Consensus pattern (10 bp):
TATAAATTTT
Found at i:25208209 original size:29 final size:29
Alignment explanation
Indices: 25208154--25208209 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
25208144 TTTTAAATAT
* * *
25208154 TTTTTCTATATTTTTATATTTTCTATTAA
1 TTTTTATAAATTTTTATATCTTCTATTAA
25208183 TTTTTATAAATTTTTATACTCTT-TATT
1 TTTTTATAAATTTTTATA-TCTTCTATT
25208210 TTTAAATATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 20 0.87
30 3 0.13
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTATAAATTTTTATATCTTCTATTAA
Found at i:25208231 original size:25 final size:25
Alignment explanation
Indices: 25208182--25208231 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
25208172 TTTTCTATTA
*
25208182 ATTTTTATAAATTTTTATACTCTTT
1 ATTTTTATAAATTTTTATACACTTT
25208207 ATTTTTA-AATATTATTTA-ACACTTT
1 ATTTTTATAA-ATT-TTTATACACTTT
25208232 TAGTAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 16 0.73
26 4 0.18
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (25 bp):
ATTTTTATAAATTTTTATACACTTT
Found at i:25220292 original size:142 final size:142
Alignment explanation
Indices: 25220036--25220320 Score: 561
Period size: 142 Copynumber: 2.0 Consensus size: 142
25220026 CCAAGCCTTC
25220036 ACGTAAAATAACCCATAATAAATTTGGCCAAATAATTTGAGCTCATGAATTGATTTGACATGTTT
1 ACGTAAAATAACCCATAATAAATTTGGCCAAATAATTTGAGCTCATGAATTGATTTGACATGTTT
*
25220101 TGAAGTACTTTGTGAAGCTTAAAAACATATCTTTGATTCATATCTTCGATCTATAAAGAAACAGG
66 TGAAGTACTTTGTGAAGCTTAAAAACATATCTTTGATTCATATCTTCGATCCATAAAGAAACAGG
25220166 CTCAACCCAAAG
131 CTCAACCCAAAG
25220178 ACGTAAAATAACCCATAATAAATTTGGCCAAATAATTTGAGCTCATGAATTGATTTGACATGTTT
1 ACGTAAAATAACCCATAATAAATTTGGCCAAATAATTTGAGCTCATGAATTGATTTGACATGTTT
25220243 TGAAGTACTTTGTGAAGCTTAAAAACATATCTTTGATTCATATCTTCGATCCATAAAGAAACAGG
66 TGAAGTACTTTGTGAAGCTTAAAAACATATCTTTGATTCATATCTTCGATCCATAAAGAAACAGG
25220308 CTCAACCCAAAG
131 CTCAACCCAAAG
25220320 A
1 A
25220321 TGCTTAAACC
Statistics
Matches: 142, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
142 142 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (142 bp):
ACGTAAAATAACCCATAATAAATTTGGCCAAATAATTTGAGCTCATGAATTGATTTGACATGTTT
TGAAGTACTTTGTGAAGCTTAAAAACATATCTTTGATTCATATCTTCGATCCATAAAGAAACAGG
CTCAACCCAAAG
Found at i:25237502 original size:3 final size:3
Alignment explanation
Indices: 25237494--25237520 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
25237484 TGTGAGAAGT
25237494 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
25237521 TTGGTAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:25237909 original size:22 final size:22
Alignment explanation
Indices: 25237884--25237926 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
25237874 AAGTATGATA
25237884 TTAAA-GTGTGTAAATGTGTTAC
1 TTAAATGTGTGTAAA-GTGTTAC
*
25237906 TTAAATGTGTTTAAAGTGTTA
1 TTAAATGTGTGTAAAGTGTTA
25237927 TAATTATGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (22 bp):
TTAAATGTGTGTAAAGTGTTAC
Found at i:25244238 original size:20 final size:20
Alignment explanation
Indices: 25244213--25244251 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
25244203 TGCAATTTGG
25244213 TATCGATAC-CAATTAAAAAT
1 TATCGATACTC-ATTAAAAAT
25244233 TATCGATACTCATTAAAAA
1 TATCGATACTCATTAAAAA
25244252 AATATTGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.31
Consensus pattern (20 bp):
TATCGATACTCATTAAAAAT
Found at i:25257460 original size:21 final size:21
Alignment explanation
Indices: 25257436--25257477 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25257426 TATGCGTACT
*
25257436 TTGAAATTAATAGTAATCACA
1 TTGAAATTAATAGGAATCACA
* *
25257457 TTGAATTTTATAGGAATCACA
1 TTGAAATTAATAGGAATCACA
25257478 ACTTTGGCAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.36
Consensus pattern (21 bp):
TTGAAATTAATAGGAATCACA
Found at i:25257605 original size:21 final size:21
Alignment explanation
Indices: 25257564--25257605 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
25257554 TAGAAACCGG
* *
25257564 TAGAATTTTTATTCCAGAAAT
1 TAGAATTTATATTCCAAAAAT
25257585 TAGAATTTATACTT-CAAAAAT
1 TAGAATTTATA-TTCCAAAAAT
25257606 AAATTCTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (21 bp):
TAGAATTTATATTCCAAAAAT
Found at i:25261913 original size:16 final size:16
Alignment explanation
Indices: 25261892--25261922 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
25261882 TCTCAACCCC
*
25261892 ATGCAGTATGTCATGT
1 ATGCAGTATGCCATGT
25261908 ATGCAGTATGCCATG
1 ATGCAGTATGCCATG
25261923 CTCAGAATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (16 bp):
ATGCAGTATGCCATGT
Found at i:25267460 original size:49 final size:49
Alignment explanation
Indices: 25267407--25267506 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 49
25267397 ATTTTTCAAG
* *
25267407 TCATTTT-CATTTTCATTTTGGAGAAAA-TTGTATTCATTTCCAAATGATT
1 TCATTTTCCATTTTCATTTTGGAGAAAACCT-TAATCATTTCCAAATG-TT
25267456 TCATTTTCCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTT
1 TCATTTTCCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTT
25267505 TC
1 TC
25267507 TTATTTCTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
49 11 0.23
50 35 0.74
51 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (49 bp):
TCATTTTCCATTTTCATTTTGGAGAAAACCTTAATCATTTCCAAATGTT
Found at i:25279562 original size:21 final size:21
Alignment explanation
Indices: 25279538--25279595 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
25279528 TGATGCTGGG
25279538 AGGATGTCATTTGATGCACCA
1 AGGATGTCATTTGATGCACCA
* *
25279559 AGGATGTCTTTTGATGCAGCA
1 AGGATGTCATTTGATGCACCA
* *
25279580 AGAATGTCATGTGATG
1 AGGATGTCATTTGATG
25279596 ATCCCAGATA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.28, C:0.14, G:0.28, T:0.31
Consensus pattern (21 bp):
AGGATGTCATTTGATGCACCA
Found at i:25283063 original size:18 final size:19
Alignment explanation
Indices: 25283027--25283065 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
25283017 TTATAATTTC
* *
25283027 TTATAATTTTTAGTCATTA
1 TTATAATTTTTAATAATTA
25283046 TTAT-ATTTTTAATAATTA
1 TTATAATTTTTAATAATTA
25283064 TT
1 TT
25283066 TAAGAAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTATAATTTTTAATAATTA
Found at i:25284694 original size:33 final size:32
Alignment explanation
Indices: 25284644--25284712 Score: 77
Period size: 33 Copynumber: 2.1 Consensus size: 32
25284634 TCGAATAATT
*
25284644 ATAATATAAAATATAAA-TAGATTGAAAATAAA
1 ATAATATAAAATATAAATTAGAAT-AAAATAAA
* * *
25284676 ATAATATCTAAATTTAAATTAGAATAAACTAAA
1 ATAATAT-AAAATATAAATTAGAATAAAATAAA
25284709 ATAA
1 ATAA
25284713 AGCTTAAAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 7 0.23
33 19 0.61
34 5 0.16
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.30
Consensus pattern (32 bp):
ATAATATAAAATATAAATTAGAATAAAATAAA
Found at i:25285673 original size:60 final size:60
Alignment explanation
Indices: 25285568--25285687 Score: 141
Period size: 60 Copynumber: 2.0 Consensus size: 60
25285558 TAACACATGT
* ** *
25285568 TTATACGATGTGGGTTCACCTTTATGATGGTGCGAACCAACATCGTGCGGTCTCATAGAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAA
** * ** * *
25285628 TTATACGATGTGGGTTTGCCTATATGATGGAATGAACGTATATCGTGTAGTCTCATAGAA
1 TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAA
25285688 GGGTACGCGA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.33
Consensus pattern (60 bp):
TTATACGATGTGGGTTCACCTATATGATGGAACGAACCAACATCGTGCAGTCTCATAGAA
Found at i:25287416 original size:19 final size:19
Alignment explanation
Indices: 25287394--25287437 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
25287384 TTTTTTGTAA
*
25287394 TTATATATT-TATATTTGCT
1 TTAT-TATTATATATTTGCG
*
25287413 TTATTTTTATATATTTGCG
1 TTATTATTATATATTTGCG
25287432 TTATTA
1 TTATTA
25287438 ACTCTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (19 bp):
TTATTATTATATATTTGCG
Found at i:25288912 original size:21 final size:21
Alignment explanation
Indices: 25288873--25288912 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
25288863 GATAACTTAT
*
25288873 AATAATTACATTGTCAATTAG
1 AATAATTAAATTGTCAATTAG
25288894 AATAATTAAATCTGT-AATT
1 AATAATTAAAT-TGTCAATT
25288913 GTTTAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.40
Consensus pattern (21 bp):
AATAATTAAATTGTCAATTAG
Found at i:25289201 original size:27 final size:27
Alignment explanation
Indices: 25289167--25289228 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
25289157 ATATATTTAC
25289167 TTTTTAAATTTTTAAAATTTTAAAATA
1 TTTTTAAATTTTTAAAATTTTAAAATA
**
25289194 TTTTTAAATTTTTTTAATTTTAAAATA
1 TTTTTAAATTTTTAAAATTTTAAAATA
25289221 TTTTTAAA
1 TTTTTAAA
25289229 ATACTTTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTAAATTTTTAAAATTTTAAAATA
Found at i:25289202 original size:10 final size:10
Alignment explanation
Indices: 25289174--25289228 Score: 55
Period size: 10 Copynumber: 5.9 Consensus size: 10
25289164 TACTTTTTAA
25289174 ATTTTTAAA-
1 ATTTTTAAAT
*
25289183 ATTTTAAAAT
1 ATTTTTAAAT
25289193 ATTTTTAAAT
1 ATTTTTAAAT
*
25289203 -TTTTT-TA-
1 ATTTTTAAAT
*
25289210 ATTTTAAAAT
1 ATTTTTAAAT
25289220 ATTTTTAAA
1 ATTTTTAAA
25289229 ATACTTTTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
8 5 0.14
9 14 0.39
10 17 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTTTTAAAT
Found at i:25289258 original size:21 final size:21
Alignment explanation
Indices: 25289220--25289259 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25289210 ATTTTAAAAT
**
25289220 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATAAATTTTTTA
25289241 ATTTTTAAAATAAATTTTT
1 ATTTTTAAAATAAATTTTT
25289260 GGTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
ATTTTTAAAATAAATTTTTTA
Found at i:25289266 original size:22 final size:21
Alignment explanation
Indices: 25289219--25289277 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
25289209 AATTTTAAAA
* *
25289219 TATTTTTAAAAT-ACTTTTTT
1 TATTTTTAAAATAAATTTTTG
25289239 TAATTTTTAAAATAAATTTTTGG
1 T-ATTTTTAAAATAAATTTTT-G
25289262 TATTTATTAAAA-AAAT
1 TATTT-TTAAAATAAAT
25289278 GGGCCGGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
20 1 0.03
21 11 0.33
22 14 0.42
23 7 0.21
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (21 bp):
TATTTTTAAAATAAATTTTTG
Found at i:25293693 original size:30 final size:31
Alignment explanation
Indices: 25293659--25293718 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
25293649 AAACCTTTTA
*
25293659 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
* *
25293689 TTTTCCCCTAAAAATTTTATTCCCTTCCCA
1 TTTTCCCCCAAAAATTTTACTCCCTTCCCA
25293719 TCCCATCCCA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.22, C:0.38, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAAATTTTACTCCCTTCCCAC
Found at i:25294488 original size:5 final size:5
Alignment explanation
Indices: 25294478--25294503 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25294468 CTCGAAAATT
25294478 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
25294504 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:25295606 original size:43 final size:44
Alignment explanation
Indices: 25295549--25295661 Score: 156
Period size: 43 Copynumber: 2.6 Consensus size: 44
25295539 GGATTTTGTG
25295549 TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATTT-CCTA
1 TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATTTACCTA
* * * * *
25295592 TAAGACCACATCTGGGATGTTTGCATCGATTTGAGATTTACGTG
1 TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATTTACCTA
* *
25295636 TAAGACCATGTCTGGGACATTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
25295662 AGTATATGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
43 36 0.61
44 23 0.39
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.31
Consensus pattern (44 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATTTGAGATTTACCTA
Found at i:25303453 original size:43 final size:43
Alignment explanation
Indices: 25303385--25303592 Score: 203
Period size: 43 Copynumber: 4.9 Consensus size: 43
25303375 TTTGATAAGT
* * * *
25303385 GATTTCGTGTAAGATCACGTCTGGGATGTTTGCATCGATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGA
* *
25303428 GATTTTGTGTAAGACCATGTTTGGGACGTTGGCATCGATTTGA
1 GATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGA
* *
25303471 GATTTACGTGTAAGACCAT-TCTGGGACATTGGCATCG-TAT-A
1 GATTT-CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGA
* *
25303512 TGATTTCGTGTAAGACCCTGTCTGGGATAG-TGGCATCGATAGTT--
1 -GATTTCGTGTAAGACCATGTCTGGGA-CGTTGGCATCGAT--TTGA
* * * *
25303556 GATTACATGTAAGACCACGTCTGGAACGTTGGCATCG
1 GATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCG
25303593 TATGAGCTTT
Statistics
Matches: 137, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
41 13 0.09
42 23 0.17
43 88 0.64
44 12 0.09
45 1 0.01
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (43 bp):
GATTTCGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGA
Found at i:25303538 original size:85 final size:84
Alignment explanation
Indices: 25303428--25303595 Score: 198
Period size: 85 Copynumber: 2.0 Consensus size: 84
25303418 ATCGATTTGA
* * * * *
25303428 GATTTTGTGTAAGACCATGTTTGGGA-CGTTGGCATCGAT-TTGAGATTTACGTGTAAGACCA-T
1 GATTTCGTGTAAGACCATGTCTGGGATAG-TGGCATCGATATT--GA-TTACATGTAAGACCACG
*
25303490 TCTGGGACATTGGCATCGTATAT
62 TCTGGAACATTGGCATCGTATAT
*
25303513 GATTTCGTGTAAGACCCTGTCTGGGATAGTGGCATCGATAGTTGATTACATGTAAGACCACGTCT
1 GATTTCGTGTAAGACCATGTCTGGGATAGTGGCATCGATA-TTGATTACATGTAAGACCACGTCT
*
25303578 GGAACGTTGGCATCGTAT
65 GGAACATTGGCATCGTAT
25303596 GAGCTTTTTG
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
84 14 0.20
85 54 0.76
86 1 0.01
87 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (84 bp):
GATTTCGTGTAAGACCATGTCTGGGATAGTGGCATCGATATTGATTACATGTAAGACCACGTCTG
GAACATTGGCATCGTATAT
Found at i:25305810 original size:30 final size:30
Alignment explanation
Indices: 25305776--25305857 Score: 119
Period size: 30 Copynumber: 2.7 Consensus size: 30
25305766 AAGAGTTATC
* *
25305776 ACTCACATAAGCTGGCATTATAAAAGGGTT
1 ACTCACACAAGCTGACATTATAAAAGGGTT
* *
25305806 ACTCACACAAGTTGACATTATAACAGGGTT
1 ACTCACACAAGCTGACATTATAAAAGGGTT
*
25305836 GCTCACACAAGCTGACATTATA
1 ACTCACACAAGCTGACATTATA
25305858 TTGAGGTTAC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (30 bp):
ACTCACACAAGCTGACATTATAAAAGGGTT
Found at i:25310598 original size:40 final size:38
Alignment explanation
Indices: 25310530--25310762 Score: 153
Period size: 40 Copynumber: 5.9 Consensus size: 38
25310520 ACAAAGGGGT
* *
25310530 ACCGTAGTAGAAATAGGGGCACGA-ATGTGCACTTTGGAGC
1 ACCGAAGTACAAATAGGGGCAC-ATATGTGCA-TTTGG-GC
* *
25310570 ACCGAAGTACAAATAGGGGCACATATGTGCATTCAGGGGT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
** * * * *
25310610 ACTAAAGTACAAACAAGGGCACGTATGGGCATTTAGGGC
1 ACCGAAGTACAAATAGGGGCACATATGTGCATTT-GGGC
* * *
25310649 TACTGAAGTACAAATAGGGGCACATATGTGCATTCAAGGGT
1 -ACCGAAGTACAAATAGGGGCACATATGTGCATT--TGGGC
* * ** * * *
25310690 ACTGAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT-TGGG-C
** *
25310730 ATGGAAGTACAAATAAGGGCACATATGTGCATT
1 ACCGAAGTACAAATAGGGGCACATATGTGCATT
25310763 CATACAATAA
Statistics
Matches: 154, Mismatches: 31, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
39 10 0.06
40 139 0.90
41 5 0.03
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21
Consensus pattern (38 bp):
ACCGAAGTACAAATAGGGGCACATATGTGCATTTGGGC
Found at i:25310666 original size:80 final size:80
Alignment explanation
Indices: 25310573--25310764 Score: 296
Period size: 80 Copynumber: 2.4 Consensus size: 80
25310563 TTGGAGCACC
* *
25310573 GAAGTACAAATAGGGGCACATATGTGCATTCAGGGGTACTAAAGTACAAACAAGGGCACGTATGG
1 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGC
*
25310638 GCATTTAGGGCTACT-
66 GCATTCAGGGCTA-TG
* * *
25310653 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACTGAAGTACAAACAGGGGCATGTATGC
1 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGC
*
25310718 GCATTCAGGGTTATG
66 GCATTCAGGGCTATG
*
25310733 GAAGTACAAATAAGGGCACATATGTGCATTCA
1 GAAGTACAAATAGGGGCACATATGTGCATTCA
25310765 TACAATAATT
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
79 1 0.01
80 102 0.99
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (80 bp):
GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACTAAAGTACAAACAAGGGCACGTATGC
GCATTCAGGGCTATG
Found at i:25310763 original size:40 final size:39
Alignment explanation
Indices: 25310573--25310764 Score: 233
Period size: 40 Copynumber: 4.8 Consensus size: 39
25310563 TTGGAGCACC
25310573 GAAGTACAAATAGGGGCACATATGTGCATTCAGGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTCA-GGGTACT
* * * * * *
25310613 AAAGTACAAACAAGGGCACGTATGGGCATTTAGGGCTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
25310653 GAAGTACAAATAGGGGCACATATGTGCATTCAAGGGTACT
1 GAAGTACAAATAGGGGCACATATGTGCATTC-AGGGTACT
* ** *
25310693 GAAGTACAAACAGGGGCATGTATGCGCATTCAGGGTTA-T
1 GAAGTACAAATAGGGGCACATATGTGCATTCAGGG-TACT
*
25310732 GGAAGTACAAATAAGGGCACATATGTGCATTCA
1 -GAAGTACAAATAGGGGCACATATGTGCATTCA
25310765 TACAATAATT
Statistics
Matches: 127, Mismatches: 21, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 8 0.06
40 115 0.91
41 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (39 bp):
GAAGTACAAATAGGGGCACATATGTGCATTCAGGGTACT
Found at i:25323809 original size:40 final size:40
Alignment explanation
Indices: 25323765--25323949 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
25323755 ACCAAAGAAA
* *
25323765 AAACAAGGGCAGGCATGTGCATTCAGGGGTACTGTAA-TAC
1 AAACAAGGGCACGTATGTGCATTCAGGGGTACTG-AAGTAC
* ** *
25323805 AAACAGGGGCACAAATGTGCACTCAGGGGTA-TCGAAGTAC
1 AAACAAGGGCACGTATGTGCATTCAGGGGTACT-GAAGTAC
* * *
25323845 AAATAGGGGCACGTATATGCATTCAGGGGTACCT-AAGTAC
1 AAACAAGGGCACGTATGTGCATTCAGGGGTA-CTGAAGTAC
* * * *
25323885 AAACAAGGGCACGGATGCGCACTCAAGGGTACTGAAGTAC
1 AAACAAGGGCACGTATGTGCATTCAGGGGTACTGAAGTAC
*
25323925 AAACAAGGGCATGTATGTGCATTCA
1 AAACAAGGGCACGTATGTGCATTCA
25323950 TACGATAATT
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 5 0.04
40 113 0.95
42 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (40 bp):
AAACAAGGGCACGTATGTGCATTCAGGGGTACTGAAGTAC
Found at i:25323907 original size:80 final size:80
Alignment explanation
Indices: 25323765--25323949 Score: 221
Period size: 80 Copynumber: 2.3 Consensus size: 80
25323755 ACCAAAGAAA
* * * * * *
25323765 AAACAAGGGCAGGCATGTGCATTCAGGGGTACTGTAATACAAACAGGGGCACAAATGTGCACTCA
1 AAACAAGGGCACGTATATGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
*
25323830 GGGGTA-TCGAAGTAC
66 AGGGTACT-GAAGTAC
* * **
25323845 AAATAGGGGCACGTATATGCATTCAGGGGTAC-CTAAGTACAAACAAGGGCACGGATGCGCACTC
1 AAACAAGGGCACGTATATGCATTCAGGGGTACTCTAA-TACAAACAAGGGCACAAATGCGCACTC
25323909 AAGGGTACTGAAGTAC
65 AAGGGTACTGAAGTAC
* *
25323925 AAACAAGGGCATGTATGTGCATTCA
1 AAACAAGGGCACGTATATGCATTCA
25323950 TACGATAATT
Statistics
Matches: 88, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
79 3 0.03
80 84 0.95
81 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.29, T:0.18
Consensus pattern (80 bp):
AAACAAGGGCACGTATATGCATTCAGGGGTACTCTAATACAAACAAGGGCACAAATGCGCACTCA
AGGGTACTGAAGTAC
Found at i:25333859 original size:27 final size:27
Alignment explanation
Indices: 25333828--25334045 Score: 265
Period size: 27 Copynumber: 8.1 Consensus size: 27
25333818 TTACACTGTT
* * *
25333828 ATGACCAAAATACCCCCATACGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
25333855 ATGACCGAAATATCCCTATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
** * *
25333882 ATGACCGAAATACCCATATAAGATAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
25333909 ATGACCGAAATACCCCAATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
*
25333936 ATGACCGAAATACCCCCATAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25333963 ATGACTGAAATACCCCCACAGGGTAGA
1 ATGACCGAAATACCCCCATAGGGTAAA
* *
25333990 ATGACCGAAGTACCCCCATAAGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
* * *
25334017 ATGATCGAAACAGCCCCATAGGGTAAA
1 ATGACCGAAATACCCCCATAGGGTAAA
25334044 AT
1 AT
25334046 TACTGTTATA
Statistics
Matches: 164, Mismatches: 27, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 164 1.00
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.17
Consensus pattern (27 bp):
ATGACCGAAATACCCCCATAGGGTAAA
Found at i:25341792 original size:22 final size:22
Alignment explanation
Indices: 25341764--25341807 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
25341754 TACTGGTCAC
25341764 TATGCTGCAACACGGAGGGTTG
1 TATGCTGCAACACGGAGGGTTG
*
25341786 TATGCTGCAACATGGAGGGTTG
1 TATGCTGCAACACGGAGGGTTG
25341808 GATACGGCAA
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:0.23, C:0.16, G:0.36, T:0.25
Consensus pattern (22 bp):
TATGCTGCAACACGGAGGGTTG
Found at i:25341817 original size:22 final size:22
Alignment explanation
Indices: 25341770--25341820 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
25341760 TCACTATGCT
* * * *
25341770 GCAACACGGAGGGTTGTATGCT
1 GCAACATGGAGGGTTGGATACG
25341792 GCAACATGGAGGGTTGGATACG
1 GCAACATGGAGGGTTGGATACG
25341814 GCAACAT
1 GCAACAT
25341821 AGGGAGCAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.20
Consensus pattern (22 bp):
GCAACATGGAGGGTTGGATACG
Found at i:25350799 original size:54 final size:54
Alignment explanation
Indices: 25350717--25350826 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
25350707 TAGCTCCTCC
25350717 AAAAGCCGTCCAGATCCAAACCTTGAAGATTATTTGAAATTAAATCAGAAAACT
1 AAAAGCCGTCCAGATCCAAACCTTGAAGATTATTTGAAATTAAATCAGAAAACT
25350771 AAAAGCCGTCCAGATCCAAACCTTGAAGATTATTTGAAATTAAATCAGAAAACT
1 AAAAGCCGTCCAGATCCAAACCTTGAAGATTATTTGAAATTAAATCAGAAAACT
25350825 AA
1 AA
25350827 GTAGTGAGCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.45, C:0.18, G:0.13, T:0.24
Consensus pattern (54 bp):
AAAAGCCGTCCAGATCCAAACCTTGAAGATTATTTGAAATTAAATCAGAAAACT
Found at i:25351051 original size:40 final size:40
Alignment explanation
Indices: 25350986--25351080 Score: 109
Period size: 40 Copynumber: 2.4 Consensus size: 40
25350976 TTAAAATTTA
* * *
25350986 TTGCAAATAAACTTCAAGTAATGTGGACAAGCTACCATTG
1 TTGCAAATAAACTGCAAGTAATGTGGACAAGCCACCAGTG
* * * *
25351026 TTGCAAATAAGCTGCCAGTATTGTGGATAAGCCACCAGTG
1 TTGCAAATAAACTGCAAGTAATGTGGACAAGCCACCAGTG
* *
25351066 TTGCAGACAAACTGC
1 TTGCAAATAAACTGC
25351081 TAGTTCTTAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (40 bp):
TTGCAAATAAACTGCAAGTAATGTGGACAAGCCACCAGTG
Found at i:25355263 original size:19 final size:19
Alignment explanation
Indices: 25355239--25355282 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
25355229 AGGGATCAAA
* *
25355239 TTGAGACAAATCA-GAAATT
1 TTGAGA-AAAACATGAAAAT
25355258 TTGAGAAAAACATGAAAAT
1 TTGAGAAAAACATGAAAAT
25355277 TTGAGA
1 TTGAGA
25355283 TGCAGAGGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (19 bp):
TTGAGAAAAACATGAAAAT
Found at i:25356466 original size:40 final size:40
Alignment explanation
Indices: 25356393--25356553 Score: 198
Period size: 40 Copynumber: 4.0 Consensus size: 40
25356383 GAGGTACCAC
* * *
25356393 AGTACAAAAAGGAGTACATATGTGCATTTAGGGGTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTCAGGGGTATCGA
* * *
25356433 AGTACAAAAAGGGGCACGTATGAGGATTCAGGGGTATCGA
1 AGTACAAAAAGGGGCACATATGTGCATTCAGGGGTATCGA
* * * *
25356473 AGTACAAATAGGGGCACGTATGTGCTTTCAGGGGTACCGA
1 AGTACAAAAAGGGGCACATATGTGCATTCAGGGGTATCGA
* *
25356513 AGTACAAACAA-GGGCACATATGGGCATTTAGGGGTATCGA
1 AGTACAAA-AAGGGGCACATATGTGCATTCAGGGGTATCGA
25356553 A
1 A
25356554 ATAAGTCTCA
Statistics
Matches: 103, Mismatches: 17, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 102 0.99
41 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.31, T:0.21
Consensus pattern (40 bp):
AGTACAAAAAGGGGCACATATGTGCATTCAGGGGTATCGA
Found at i:25357337 original size:22 final size:21
Alignment explanation
Indices: 25357301--25357344 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
25357291 AAGATGACAA
* *
25357301 ACTTTATTTTGTTATTATTTT
1 ACTTTATTTTATTATTAATTT
25357322 ACTTTACTTTTATTATTAATTT
1 ACTTTA-TTTTATTATTAATTT
25357344 A
1 A
25357345 TAATTATACC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (21 bp):
ACTTTATTTTATTATTAATTT
Found at i:25360852 original size:20 final size:20
Alignment explanation
Indices: 25360805--25360852 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
25360795 TTGTATATGA
25360805 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
25360825 TATACACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
25360845 TTTGCACT
1 TTTGCACT
25360853 ATAGTGCCTC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.10, C:0.29, G:0.21, T:0.40
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:25362007 original size:20 final size:20
Alignment explanation
Indices: 25361960--25362013 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
25361950 AATTTTAATC
*
25361960 AAGTATCGATACACATATATA
1 AAGTATCGATAC-CATAAATA
*
25361981 AAGTATCGATACCATAAATT
1 AAGTATCGATACCATAAATA
*
25362001 AATTATCGATACC
1 AAGTATCGATACC
25362014 CCTGTTTTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.44, C:0.17, G:0.09, T:0.30
Consensus pattern (20 bp):
AAGTATCGATACCATAAATA
Found at i:25364765 original size:42 final size:41
Alignment explanation
Indices: 25364709--25364940 Score: 205
Period size: 42 Copynumber: 5.5 Consensus size: 41
25364699 CATTGAATAA
* *
25364709 AAAGGGGTTGCTAAGTGCTGATTCCTCGAATTATTGACTTT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
* * *
25364750 AAAGGTGGTTGCTAAGTGCTGATTCAACCGTATCATTGACTGTG
1 AAAGG-GGTTGCTAAGTGCTGATTC-CCCGTATTATTGACT-TT
* * * *
25364794 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATAT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
* * * * * *
25364835 AAATGTGGTTGCTAAGTGCTGAATCCACCATATTTTTTACTGTG
1 AAA-GGGGTTGCTAAGTGCTGATTCC-CCGTATTATTGACT-TT
* * * *
25364879 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
* *
25364920 -AAGTTGGTTGTTAAGTGCTGA
1 AAAG-GGGTTGCTAAGTGCTGA
25364941 ATCCACCGAG
Statistics
Matches: 149, Mismatches: 35, Indels: 14
0.75 0.18 0.07
Matches are distributed among these distances:
40 3 0.02
41 23 0.15
42 57 0.38
43 57 0.38
44 9 0.06
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (41 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGTATTATTGACTTT
Found at i:25364803 original size:43 final size:42
Alignment explanation
Indices: 25364709--25364909 Score: 201
Period size: 43 Copynumber: 4.7 Consensus size: 42
25364699 CATTGAATAA
* *
25364709 AAAGGGGTTGCTAAGTGCTGATTC-CTCGAATTATTGACT-TT
1 AAAGGGGTTGCTAAGTGCTGATTCAC-CGTATTATTGACTGTG
*
25364750 AAAGGTGGTTGCTAAGTGCTGATTCAACCGTATCATTGACTGTG
1 AAAGG-GGTTGCTAAGTGCTGATTC-ACCGTATTATTGACTGTG
* * * * *
25364794 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATAT-
1 AAAGGGGTTGCTAAGTGCTGATTCACCGTATTATTGACTGTG
* * * * *
25364835 AAATGTGGTTGCTAAGTGCTGAATCCACCATATTTTTTACTGTG
1 AAA-GGGGTTGCTAAGTGCTG-ATTCACCGTATTATTGACTGTG
* *
25364879 AAAGGGGTTGCTATGTGCTGATTCCCCGTAT
1 AAAGGGGTTGCTAAGTGCTGATTCACCGTAT
25364910 CACTGAATTT
Statistics
Matches: 129, Mismatches: 24, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
41 8 0.06
42 54 0.42
43 57 0.44
44 10 0.08
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (42 bp):
AAAGGGGTTGCTAAGTGCTGATTCACCGTATTATTGACTGTG
Found at i:25364852 original size:85 final size:85
Alignment explanation
Indices: 25364709--25364943 Score: 319
Period size: 85 Copynumber: 2.8 Consensus size: 85
25364699 CATTGAATAA
* * * * * * *
25364709 AAAGGGGTTGCTAAGTGCTGATTCCTCGAATTATTGACTTTAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTTAAATGTGGTTGCTAAGTGCTGAAT
*
25364774 CAACCGTATCATTGACTGTG
66 CAACCATATCATTGACTGTG
*
25364794 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATATAAATGTGGTTGCTAAGTGCTGAAT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTTAAATGTGGTTGCTAAGTGCTGAAT
* ** *
25364859 CCACCATATTTTTTACTGTG
66 CAACCATATCATTGACTGTG
* * *
25364879 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTAAGT-TGGTTGTTAAGTGCTGAAT
1 AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTTAAATGTGGTTGCTAAGTGCTGAAT
25364943 C
66 C
25364944 CACCGAGTAA
Statistics
Matches: 133, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
84 19 0.14
85 114 0.86
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (85 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGTATTACTGAATTTAAATGTGGTTGCTAAGTGCTGAAT
CAACCATATCATTGACTGTG
Found at i:25368628 original size:16 final size:17
Alignment explanation
Indices: 25368578--25368632 Score: 51
Period size: 19 Copynumber: 3.2 Consensus size: 17
25368568 ATAAATCACA
* *
25368578 AAAAATAAAGAATAAAG
1 AAAAATAAATAATAAAT
25368595 AATAAA-AAATTAATTAAAT
1 AA-AAATAAA-TAA-TAAAT
25368614 AAAAATAAA-AATAAAT
1 AAAAATAAATAATAAAT
25368630 AAA
1 AAA
25368633 CCAAATTGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 8 0.25
17 7 0.22
18 8 0.25
19 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.04, T:0.20
Consensus pattern (17 bp):
AAAAATAAATAATAAAT
Found at i:25373857 original size:41 final size:41
Alignment explanation
Indices: 25373810--25373933 Score: 196
Period size: 41 Copynumber: 3.0 Consensus size: 41
25373800 ATAGGTAAAG
25373810 TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCAT
1 TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCAT
* * * *
25373851 TAGCGGCATTTATGAGAAAAATGCCGCAAAAAGTCAAGCAT
1 TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCAT
*
25373892 TAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAGCAT
1 TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCAT
25373932 TA
1 TA
25373934 ACAGGGCTAT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
40 30 0.41
41 44 0.59
ACGTcount: A:0.40, C:0.19, G:0.23, T:0.17
Consensus pattern (41 bp):
TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCAT
Found at i:25373909 original size:81 final size:80
Alignment explanation
Indices: 25373810--25373960 Score: 234
Period size: 81 Copynumber: 1.9 Consensus size: 80
25373800 ATAGGTAAAG
* *
25373810 TAGCGGCGTTTATGAGAAAAACGCCACAAAAGGTCAAGCATTAGC-GGCATTTATGAGAAAAATG
1 TAGCGGCGTCTATGAGAAAAACGCCACAAAAGGTCAAGCATTAACAGGC---TATGAGAAAAATG
25373874 CCGCAAAAAGTCAAGCAT
63 CCGCAAAAAGTCAAGCAT
25373892 TAGCGGCG-CTATGAGAAAAACGCCACAAAAGGTCAAGCATTAACAGGGCTATGAGAAAAATGCC
1 TAGCGGCGTCTATGAGAAAAACGCCACAAAAGGTCAAGCATTAACA-GGCTATGAGAAAAATGCC
25373956 GCAAA
65 GCAAA
25373961 GTATCATTTT
Statistics
Matches: 65, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
80 20 0.31
81 34 0.52
82 8 0.12
83 3 0.05
ACGTcount: A:0.41, C:0.19, G:0.24, T:0.16
Consensus pattern (80 bp):
TAGCGGCGTCTATGAGAAAAACGCCACAAAAGGTCAAGCATTAACAGGCTATGAGAAAAATGCCG
CAAAAAGTCAAGCAT
Done.