Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 333 of 373
Found at i:111711829 original size:19 final size:17
Alignment explanation
Indices: 111711795--111711832 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 17
111711785 TTTCTTCCTT
111711795 TTGTTTTTTCTTGTTTG
1 TTGTTTTTTCTTGTTTG
111711812 TTGTTTTTCTCTTTGTTTG
1 TTGTTTTT-TC-TTGTTTG
111711831 TT
1 TT
111711833 TCTCTGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.42
18 2 0.11
19 9 0.47
ACGTcount: A:0.00, C:0.08, G:0.16, T:0.76
Consensus pattern (17 bp):
TTGTTTTTTCTTGTTTG
Found at i:111712055 original size:15 final size:16
Alignment explanation
Indices: 111712035--111712069 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
111712025 TGGGTTTCAA
111712035 TTTTATAATTT-AGAC
1 TTTTATAATTTGAGAC
*
111712050 TTTTATACTTTGAGAC
1 TTTTATAATTTGAGAC
111712066 TTTT
1 TTTT
111712070 TATTTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (16 bp):
TTTTATAATTTGAGAC
Found at i:111712368 original size:44 final size:44
Alignment explanation
Indices: 111712302--111713166 Score: 430
Period size: 44 Copynumber: 18.7 Consensus size: 44
111712292 ATTCGCTCCA
* * *
111712302 CTGCTCCACTGCGACTTCAGGGAGATAAGGTTTATAACTTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
* * * **
111712346 ATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
* * * * **
111712390 CTGCTCTACCGCAACTTTAGGGAGATAAGATTCACCATGGTAGA-TTTGAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-----T-ATA-ACTTCAAT
* * * * * *
111712440 CCGAC-CTACTGCAACTTCAAAGG-TATAAGATTTATAGCTTTAAT
1 CTG-CTCCACTGCAACTTC-AGGGAGATAAGATTTATAACTTCAAT
* * * * * *
111712484 CTGCTCTACTGCAACCTCAGAGAGATAAGATTTGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAACTTCAAT
* * * *
111712529 CTGCTCCGCTGCAACTTTAGGGAGATAAGGCTTGTTATGGTAGA-TTTAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-G-AT-TTA---TA-ACTTCAAT
* * * * * ** *
111712579 CTGAC-CTACTGCAACTTCAAAGG-TATAGGATTTGTCGCTTTAAT
1 CTG-CTCCACTGCAACTTC-AGGGAGATAAGATTTATAACTTCAAT
** * *
111712623 CCACTTCACTGCAACTTCAAGGAGATAAGATTTGTGATTTGTAACTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGA-TT-T-A----TAACTTCAAT
* * *
111712674 CTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-------GATTTATAACTTCAAT
* * ** * *
111712725 TTGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-TATAACTTCAAT
* *
111712770 CTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAA-
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
* * **
111712813 CTTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGATTTGTAGTTTCAAT
1 C-TGCTCCACTGCAACTTCAGGGAGATAA-------GATTTATAACTTCAAT
* * * * ** * * *
111712865 CTGCCCCACTACAAATTCAAGGAGATAAGATTCGCTATCTTTAGT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-TATAACTTCAAT
* * * * *
111712910 CTGTTCCACTGCAACTTTAGGGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
* *
111712954 CTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAA-------GATTTATAACTTCAAT
* ** *
111713005 TTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAAT
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATT-TATAACTTCAAT
* * * * * *
111713050 CTACTCCACTGTAACTTCAGAGAGATAAGACTTGTAACTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
* * * * *
111713094 CTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTCAAC
1 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
111713138 CTGCTCCACTGCAACTTCAGGGAGATAAG
1 CTGCTCCACTGCAACTTCAGGGAGATAAG
111713167 GTTTGTGATT
Statistics
Matches: 626, Mismatches: 137, Indels: 116
0.71 0.16 0.13
Matches are distributed among these distances:
43 9 0.01
44 269 0.43
45 137 0.22
46 2 0.00
47 3 0.00
48 3 0.00
49 2 0.00
50 49 0.08
51 146 0.23
52 1 0.00
56 1 0.00
57 2 0.00
58 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (44 bp):
CTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAAT
Found at i:111712589 original size:139 final size:138
Alignment explanation
Indices: 111712326--111712702 Score: 391
Period size: 139 Copynumber: 2.7 Consensus size: 138
111712316 CTTCAGGGAG
* * * * * * *
111712326 ATAAGGTTTATAACTTTAATATGCTCCACTGCAACTTTAGGGAGATAAGATTTGTGGCTTCAATC
1 ATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATC
* *
111712391 TGCTCTACCGCAACTTTAGGGAGATAAGATTCACCATGGTAGATTTGATCCGACCTACTGCAACT
66 TGCTCCACCGCAACTTTAGGGAGATAAGATTCACCATGGTAGATTTAATCCGACCTACTGCAACT
111712456 TCAAAGGT
131 TCAAAGGT
* * *
111712464 ATAAGATTTATAGCTTTAATCTGCTCTACTGCAACCTCAGAGAGATAAGATTTGCTATCTTCAGT
1 ATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG-TAGCTTCAAT
* * * *** *
111712529 CTGCTCCGCTGCAACTTTAGGGAGATAAGGCTT-GTTATGGTAGATTTAATCTGACCTACTGCAA
65 CTGCTCCACCGCAACTTTAGGGAGATAA-GATTCACCATGGTAGATTTAATCCGACCTACTGCAA
111712593 CTTCAAAGGT
129 CTTCAAAGGT
* * * **
111712603 ATAGGATTTGTCGCTTTAATCCACT-TCACTGCAACTTCA-AGGAGATAAGATTTGTGATTTGTA
1 ATAAGATTTATAGCTTTAATCTGCTCT-ACTGCAACTTCAGA-GAGATAAGATTTGT-A---G--
* * *
111712666 ACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAG
58 -CTTCAATCTGCTCCACCGCAACTTTAGGGAGATAAG
111712703 GTTTGTGATT
Statistics
Matches: 198, Mismatches: 30, Indels: 16
0.81 0.12 0.07
Matches are distributed among these distances:
138 50 0.25
139 113 0.57
140 3 0.02
144 1 0.01
145 31 0.16
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (138 bp):
ATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAATC
TGCTCCACCGCAACTTTAGGGAGATAAGATTCACCATGGTAGATTTAATCCGACCTACTGCAACT
TCAAAGGT
Found at i:111712684 original size:51 final size:51
Alignment explanation
Indices: 111712629--111713177 Score: 388
Period size: 51 Copynumber: 11.7 Consensus size: 51
111712619 TAATCCACTT
* *
111712629 CACTGCAACTTCAAGGAGATAAGATTTGTGATTTGTAACTTCAATCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * *
111712680 CACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * *
111712731 CACTGCAACTTTAGGGAGATAAGATTCGCT-A----T--CTTCAGTCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCTC
*
111712776 CACTGCAACTTCAGGGAGAT-A-A-----GACTTGTAACTTCAA-CTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATC-TGCTC
* * ** *
111712820 CACTGCAACTTCAGAGAGATAAGGTTTGTGATTTGTAGTTTCAATCTGCCC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * * * * * *
111712871 CACTACAAATTCAAGGAGATAAGATTCGCT-A----T--CTTTAGTCTGTTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCTC
* * *
111712916 CACTGCAACTTTAGGGAGAT-A-A-----GACTTGTAACTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* * *
111712960 TACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAATTTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* *
111713011 CACTGCAACTTCAGGGAGATAAGATTCGCT-A----T--CTTCAATCTACTC
1 CACTGCAACTTCAGGGAGATAAGATTTG-TGATTTGTAACTTCAATCTGCTC
* * * *
111713056 CACTGTAACTTCAGAGAGAT-A-A-----GACTTGTAACTTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
* *
111713100 CACTGCAACTTCAGGGAGATAAGGTTTGTGA----T---TTCAACCTGCTC
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
*
111713144 CACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
1 CACTGCAACTTCAGGGAGATAAGATTTGTGATTT
111713178 CACCGATGTT
Statistics
Matches: 393, Mismatches: 55, Indels: 104
0.71 0.10 0.19
Matches are distributed among these distances:
38 3 0.01
42 3 0.01
43 4 0.01
44 131 0.33
45 86 0.22
47 4 0.01
51 158 0.40
52 4 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (51 bp):
CACTGCAACTTCAGGGAGATAAGATTTGTGATTTGTAACTTCAATCTGCTC
Found at i:111712828 original size:140 final size:140
Alignment explanation
Indices: 111712661--111713133 Score: 766
Period size: 140 Copynumber: 3.4 Consensus size: 140
111712651 GATTTGTGAT
* *
111712661 TTGTAACTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATT
1 TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATT
*
111712726 TGCTCCACTGCAACTTTAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
66 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
111712791 GAGATAAGAC
131 GAGATAAGAC
* * * *
111712801 TTGTAACTTCAACTTGCTCCACTGCAACTTCAGAGAGATAAGGTTTGTGATTTGTAGTTTCAATC
1 TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATT
* * * * * * *
111712866 TGCCCCACTACAAATTCAAGGAGATAAGATTCGCTATCTTTAGTCTGTTCCACTGCAACTTTAGG
66 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
111712931 GAGATAAGAC
131 GAGATAAGAC
* *
111712941 TTGTAACTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAACTTCAATT
1 TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATT
* * * *
111713006 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAATCTACTCCACTGTAACTTCAGA
66 TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
111713071 GAGATAAGAC
131 GAGATAAGAC
111713081 TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
1 TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTT
111713134 CAACCTGCTC
Statistics
Matches: 301, Mismatches: 32, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
140 301 1.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (140 bp):
TTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATT
TGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGG
GAGATAAGAC
Found at i:111714442 original size:14 final size:14
Alignment explanation
Indices: 111714414--111714453 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 14
111714404 CACCTTGGCC
111714414 TCTCATTTTTCTTTCT
1 TCTC-TTTTT-TTTCT
111714430 TCTCTTTTTTTTCT
1 TCTCTTTTTTTTCT
111714444 TCTCTTTTTT
1 TCTCTTTTTT
111714454 GGTAAAGTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 15 0.62
15 5 0.21
16 4 0.17
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.75
Consensus pattern (14 bp):
TCTCTTTTTTTTCT
Found at i:111718972 original size:24 final size:22
Alignment explanation
Indices: 111718933--111719005 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
111718923 TTTCAAAATA
*
111718933 AATAAATAGAGTTTAAAATAAGGT
1 AATAAATA-AATTTAAAATAA-GT
*
111718957 ATATAAA-ACAATTTAAAACAAGT
1 A-ATAAATA-AATTTAAAATAAGT
* *
111718980 AATAAATAAATTTTAAATAAAT
1 AATAAATAAATTTAAAATAAGT
111719002 AATA
1 AATA
111719006 CCTAAAAACG
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
22 20 0.49
23 4 0.10
24 12 0.29
25 5 0.12
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.30
Consensus pattern (22 bp):
AATAAATAAATTTAAAATAAGT
Found at i:111720069 original size:14 final size:13
Alignment explanation
Indices: 111720038--111720102 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 13
111720028 TTACAATTCA
*
111720038 TTTGTTTTCTTCAT
1 TTTGTTTT-TTCTT
111720052 TTTGTTTTTTCTT
1 TTTGTTTTTTCTT
*
111720065 GTTTGTCATTTTTCTC
1 -TTTGT--TTTTTCTT
111720081 TTTGTTTGTTTCTT
1 TTTGTTT-TTTCTT
111720095 TGTTGTTT
1 T-TTGTTT
111720103 GTATTGCTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
13 6 0.14
14 19 0.44
15 11 0.26
16 7 0.16
ACGTcount: A:0.03, C:0.11, G:0.12, T:0.74
Consensus pattern (13 bp):
TTTGTTTTTTCTT
Found at i:111721497 original size:17 final size:18
Alignment explanation
Indices: 111721471--111721509 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111721461 ACTTGTGTGG
111721471 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
111721487 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
111721505 AAAAT
1 AAAAT
111721510 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:111721686 original size:15 final size:15
Alignment explanation
Indices: 111721666--111721696 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
111721656 AAAACAATAT
111721666 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
111721681 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
111721696 A
1 A
111721697 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:111725067 original size:15 final size:15
Alignment explanation
Indices: 111725057--111725086 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111725047 TCCCTTCTTG
111725057 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
111725072 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
111725087 TCGATCTCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:111725854 original size:17 final size:18
Alignment explanation
Indices: 111725828--111725866 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
111725818 CAAATTGTGG
111725828 AAAA-TGTTCTC-AATAT
1 AAAATTGTTCTCTAATAT
*
111725844 AAAATTGTTCTCTCATAT
1 AAAATTGTTCTCTAATAT
111725862 AAAAT
1 AAAAT
111725867 CAAAAGCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 7 0.35
18 9 0.45
ACGTcount: A:0.44, C:0.13, G:0.05, T:0.38
Consensus pattern (18 bp):
AAAATTGTTCTCTAATAT
Found at i:111726043 original size:15 final size:15
Alignment explanation
Indices: 111726023--111726053 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
111726013 AAAACAATAT
111726023 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
111726038 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
111726053 A
1 A
111726054 CTTACATGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:111726602 original size:23 final size:24
Alignment explanation
Indices: 111726576--111726623 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 24
111726566 CACTTAACTG
111726576 TATATTTACTTCCGATTT-AAGGA
1 TATATTTACTTCCGATTTAAAGGA
* *
111726599 TATATTTTCTTCCTATTTAAAGGA
1 TATATTTACTTCCGATTTAAAGGA
111726623 T
1 T
111726624 GAGAAGGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.48
Consensus pattern (24 bp):
TATATTTACTTCCGATTTAAAGGA
Found at i:111730180 original size:15 final size:15
Alignment explanation
Indices: 111730160--111730191 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
111730150 CACACCCTGC
111730160 TTGTTTTATTTTACT
1 TTGTTTTATTTTACT
*
111730175 TTGTTTTTTTTTACT
1 TTGTTTTATTTTACT
111730190 TT
1 TT
111730192 TGTCCTATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.78
Consensus pattern (15 bp):
TTGTTTTATTTTACT
Found at i:111730242 original size:14 final size:14
Alignment explanation
Indices: 111730225--111730258 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
111730215 TTAAGTTTTA
111730225 TATTTTTTCTTATT
1 TATTTTTTCTTATT
111730239 TATTTTTTCTTATT
1 TATTTTTTCTTATT
*
111730253 AATTTT
1 TATTTT
111730259 CAAAAGCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (14 bp):
TATTTTTTCTTATT
Found at i:111730337 original size:24 final size:25
Alignment explanation
Indices: 111730276--111730337 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 25
111730266 TTGAAATGTG
111730276 TATTTGAAATGT-TTTATAATATATA
1 TATTTGAAAT-TATTTATAATATATA
* *
111730301 TTTTTTAAA--ATTTA-AATATATA
1 TATTTGAAATTATTTATAATATATA
111730323 TATTTGAAATTATTT
1 TATTTGAAATTATTT
111730338 TTAAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
22 15 0.50
23 4 0.13
24 4 0.13
25 7 0.23
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (25 bp):
TATTTGAAATTATTTATAATATATA
Found at i:111730388 original size:22 final size:22
Alignment explanation
Indices: 111730331--111730389 Score: 79
Period size: 21 Copynumber: 2.8 Consensus size: 22
111730321 TATATTTGAA
*
111730331 ATTA-TTTTTAAAATTTTAAAT
1 ATTATTTTTTAAAATATTAAAT
111730352 ATTATTTTTT-AAATATTAAAT
1 ATTATTTTTTAAAATATTAAAT
111730373 A-TATTTTTTAATAATAT
1 ATTATTTTTTAA-AATAT
111730390 AAAACATTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.24
21 16 0.47
22 10 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTATTTTTTAAAATATTAAAT
Found at i:111730392 original size:21 final size:21
Alignment explanation
Indices: 111730331--111730383 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
111730321 TATATTTGAA
* *
111730331 ATTATTTTTAAAATTTTAAAT
1 ATTATTTTTTAAATATTAAAT
111730352 ATTATTTTTTAAATATTAAAT
1 ATTATTTTTTAAATATTAAAT
111730373 A-TATTTTTTAA
1 ATTATTTTTTAA
111730384 TAATATAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 10 0.33
21 20 0.67
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTATTTTTTAAATATTAAAT
Found at i:111730467 original size:17 final size:17
Alignment explanation
Indices: 111730447--111730506 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
111730437 GTTTTATAAT
111730447 ATTTTAAATATTTTTAA
1 ATTTTAAATATTTTTAA
111730464 ATTTTAATATATATTTTAA
1 ATTTTAA-ATAT-TTTTAA
* *
111730483 ACATTTAAATATTATTAA
1 A-TTTTAAATATTTTTAA
*
111730501 TTTTTA
1 ATTTTA
111730507 CAAAGTGATT
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 11 0.31
18 9 0.25
19 11 0.31
20 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (17 bp):
ATTTTAAATATTTTTAA
Found at i:111730477 original size:20 final size:21
Alignment explanation
Indices: 111730454--111730498 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
111730444 AATATTTTAA
* *
111730454 ATATTTTTAA-ATTTTAATAT
1 ATATTTTAAACATTTAAATAT
111730474 ATATTTTAAACATTTAAATAT
1 ATATTTTAAACATTTAAATAT
111730495 -TATT
1 ATATT
111730499 AATTTTTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (21 bp):
ATATTTTAAACATTTAAATAT
Found at i:111730489 original size:27 final size:26
Alignment explanation
Indices: 111730438--111730506 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 26
111730428 TTATTATTAG
*
111730438 TTTTATAATATTTTAAATATTTTTAAA
1 TTTTATAATATTTTAAACA-TTTTAAA
111730465 TTTTAATATATATTTTAAACA-TTTAAA
1 TTTT-ATA-ATATTTTAAACATTTTAAA
*
111730492 TATTATTAAT-TTTTA
1 TTTTA-TAATATTTTA
111730507 CAAAGTGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 5 0.14
26 3 0.08
27 15 0.41
28 3 0.08
29 11 0.30
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (26 bp):
TTTTATAATATTTTAAACATTTTAAA
Found at i:111730595 original size:22 final size:23
Alignment explanation
Indices: 111730542--111730587 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
111730532 TATATTTTTA
*
111730542 TAAACATTTAAATATTATTAATT
1 TAAACATTTAAATATTAGTAATT
111730565 TAAACATTTAAAT-TTAGTAATT
1 TAAACATTTAAATATTAGTAATT
111730587 T
1 T
111730588 TTATATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (23 bp):
TAAACATTTAAATATTAGTAATT
Found at i:111730595 original size:57 final size:59
Alignment explanation
Indices: 111730471--111730597 Score: 181
Period size: 57 Copynumber: 2.2 Consensus size: 59
111730461 TAAATTTTAA
*
111730471 TATATATTTTAAACATTTAAATATTATTAATTTTTACAAAGTGATTAAATTTAGTAATTTT
1 TATATTTTTTAAACATTTAAATATTATTAA-TTTTACAAAGT-ATTAAATTTAGTAATTTT
111730532 TATATTTTTATAAACATTTAAATATTATTAA-TTTA-AACA-T-TTAAATTTAGTAATTTT
1 TATATTTTT-TAAACATTTAAATATTATTAATTTTACAA-AGTATTAAATTTAGTAATTTT
111730589 TATATTTTT
1 TATATTTTT
111730598 GAGATAGGAA
Statistics
Matches: 63, Mismatches: 1, Indels: 8
0.88 0.01 0.11
Matches are distributed among these distances:
57 26 0.41
59 3 0.05
60 5 0.08
61 8 0.13
62 21 0.33
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (59 bp):
TATATTTTTTAAACATTTAAATATTATTAATTTTACAAAGTATTAAATTTAGTAATTTT
Found at i:111731429 original size:32 final size:33
Alignment explanation
Indices: 111731387--111731500 Score: 99
Period size: 33 Copynumber: 3.5 Consensus size: 33
111731377 TACCCAAATG
* *
111731387 GTACAACTTGGAATGGTTATGTACACTTTGTGT
1 GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
* *
111731420 GTAC-ACTTGGAAAGGTTAGGTATACTTTGCGT
1 GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
* * * ** *
111731452 ATACCA-TATGAAAAGGAAAGGTATACTTTGTGT
1 GTACAACT-TGGAAAGGTTAGGTACACTTTGTGT
111731485 GTAGC-ACTTGGAAAGG
1 GTA-CAACTTGGAAAGG
111731501 AATGCACACC
Statistics
Matches: 66, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
32 28 0.42
33 36 0.55
34 2 0.03
ACGTcount: A:0.30, C:0.11, G:0.26, T:0.32
Consensus pattern (33 bp):
GTACAACTTGGAAAGGTTAGGTACACTTTGTGT
Found at i:111731500 original size:33 final size:32
Alignment explanation
Indices: 111731411--111731502 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 32
111731401 GGTTATGTAC
**
111731411 ACTTTGTGTGTACACTTGGAAAGGTTAGGTAT
1 ACTTTGTGTGTACACTTGGAAAGGAAAGGTAT
* * *
111731443 ACTTTGCGTATAC-CATATGAAAAGGAAAGGTAT
1 ACTTTGTGTGTACAC-T-TGGAAAGGAAAGGTAT
111731476 ACTTTGTGTGTAGCACTTGGAAAGGAA
1 ACTTTGTGTGTA-CACTTGGAAAGGAA
111731503 TGCACACCTC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
31 1 0.02
32 12 0.25
33 32 0.67
34 2 0.04
35 1 0.02
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (32 bp):
ACTTTGTGTGTACACTTGGAAAGGAAAGGTAT
Found at i:111734960 original size:29 final size:29
Alignment explanation
Indices: 111734887--111734960 Score: 87
Period size: 29 Copynumber: 2.5 Consensus size: 29
111734877 TAAAATTTTT
*
111734887 AAATTTTCTAAAAATTAAATAAAAGTAGATA
1 AAATTTTC-AAAAA-TAAATAAAAGTAGAGA
*
111734918 AAATTTTTAAAAATAAAT-AAAGTGAGAGA
1 AAATTTTCAAAAATAAATAAAAGT-AGAGA
*
111734947 AAATTATCAAAAAT
1 AAATTTTCAAAAAT
111734961 TATTTTTTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.13
29 21 0.55
30 5 0.13
31 7 0.18
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (29 bp):
AAATTTTCAAAAATAAATAAAAGTAGAGA
Found at i:111741138 original size:5 final size:6
Alignment explanation
Indices: 111741124--111741148 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111741114 CTAATCATTG
111741124 TTTTAT TTTTAT TTTTAT TTTTAT T
1 TTTTAT TTTTAT TTTTAT TTTTAT T
111741149 GTTGACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:111741964 original size:9 final size:9
Alignment explanation
Indices: 111741952--111741991 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
111741942 TCTTTTATGA
111741952 TTTTTAATT
1 TTTTTAATT
111741961 TTTTTACATT
1 TTTTTA-ATT
* *
111741971 TTTATAACT
1 TTTTTAATT
111741980 TTTTTAATT
1 TTTTTAATT
111741989 TTT
1 TTT
111741992 ATTTATTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
9 18 0.69
10 8 0.31
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (9 bp):
TTTTTAATT
Found at i:111745642 original size:16 final size:16
Alignment explanation
Indices: 111745621--111745656 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
111745611 GAGGATTACA
111745621 CTTTGGGTAAAGTTCC
1 CTTTGGGTAAAGTTCC
111745637 CTTTGGGTAAAGTTCC
1 CTTTGGGTAAAGTTCC
111745653 CTTT
1 CTTT
111745657 TTTTTTTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (16 bp):
CTTTGGGTAAAGTTCC
Found at i:111752743 original size:32 final size:32
Alignment explanation
Indices: 111752706--111752773 Score: 136
Period size: 32 Copynumber: 2.1 Consensus size: 32
111752696 TAGTTTTAAA
111752706 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
1 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
111752738 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
1 TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
111752770 TTAA
1 TTAA
111752774 AAAATTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (32 bp):
TTAAGTTCCGTTGAAATATACGTAAAAGTTTT
Found at i:111760287 original size:20 final size:19
Alignment explanation
Indices: 111760262--111760300 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
111760252 CCCAGACCCC
111760262 AAACAAAATAAATCCCAAAT
1 AAACAAAATAAAT-CCAAAT
**
111760282 AAACAATTTAAATCCAAAT
1 AAACAAAATAAATCCAAAT
111760301 TATTACAGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.62, C:0.18, G:0.00, T:0.21
Consensus pattern (19 bp):
AAACAAAATAAATCCAAAT
Found at i:111762182 original size:30 final size:32
Alignment explanation
Indices: 111762139--111762200 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 32
111762129 CTTAAAATTG
*
111762139 TTTTATATATTATTGATTTTAAAAATTTATTT
1 TTTTATATATTATTGATTTTAAAAACTTATTT
* *
111762171 TTTTA-AT-TTATTTATTTTTAAAACTTATTT
1 TTTTATATATTATTGATTTTAAAAACTTATTT
111762201 ATTATCTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 20 0.74
31 2 0.07
32 5 0.19
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (32 bp):
TTTTATATATTATTGATTTTAAAAACTTATTT
Found at i:111762183 original size:17 final size:17
Alignment explanation
Indices: 111762163--111762203 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
111762153 GATTTTAAAA
** *
111762163 ATTTATTTTTTTAATTT
1 ATTTATTTTTAAAACTT
111762180 ATTTATTTTTAAAACTT
1 ATTTATTTTTAAAACTT
111762197 ATTTATT
1 ATTTATT
111762204 ATCTTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATTTATTTTTAAAACTT
Found at i:111767403 original size:29 final size:29
Alignment explanation
Indices: 111767353--111767411 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 29
111767343 ATCTTTCATT
111767353 TTAACAAATAACACTGGAGCTCTCC-ACGG
1 TTAACAAATAACACTGGAGCTC-CCTACGG
111767382 TTAACAAATAACACTGTG-GCTCCCTACGG
1 TTAACAAATAACACTG-GAGCTCCCTACGG
111767411 T
1 T
111767412 GACTAACTAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
28 2 0.07
29 25 0.89
30 1 0.04
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (29 bp):
TTAACAAATAACACTGGAGCTCCCTACGG
Found at i:111776692 original size:15 final size:17
Alignment explanation
Indices: 111776662--111776703 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
111776652 CGTACAATGG
111776662 CATCAA-TCATGCAATA
1 CATCAATTCATGCAATA
111776678 C-TCAATTCATG-AATA
1 CATCAATTCATGCAATA
*
111776693 CATCATTTCAT
1 CATCAATTCAT
111776704 ACCATACTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.38, C:0.24, G:0.05, T:0.33
Consensus pattern (17 bp):
CATCAATTCATGCAATA
Found at i:111778061 original size:13 final size:14
Alignment explanation
Indices: 111778043--111778071 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
111778033 TCTTTCTTTT
111778043 TTTGTTTTATT-TA
1 TTTGTTTTATTATA
111778056 TTTGTTTTATTATA
1 TTTGTTTTATTATA
111778070 TT
1 TT
111778072 ATAATATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.76
Consensus pattern (14 bp):
TTTGTTTTATTATA
Found at i:111780096 original size:18 final size:17
Alignment explanation
Indices: 111780064--111780099 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
111780054 AAATTTTTTC
*
111780064 TATTTTTTTATGAAAAA
1 TATTGTTTTATGAAAAA
*
111780081 TATTGTTTTATGGAAAA
1 TATTGTTTTATGAAAAA
111780098 TA
1 TA
111780100 AAAAAGTGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (17 bp):
TATTGTTTTATGAAAAA
Found at i:111787874 original size:14 final size:12
Alignment explanation
Indices: 111787843--111787869 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
111787833 TTTTAATGTC
111787843 TAATTTAATATA
1 TAATTTAATATA
111787855 TAATTTAATATA
1 TAATTTAATATA
111787867 TAA
1 TAA
111787870 AATTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATTTAATATA
Found at i:111790091 original size:41 final size:41
Alignment explanation
Indices: 111789969--111790104 Score: 158
Period size: 41 Copynumber: 3.4 Consensus size: 41
111789959 AAAACATCGG
*
111789969 CACCCAGTGCCTCATCGGA-TAAT-TCGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAACTAATCT-GAAGTAATAAATTGA
* * * * *
111790009 CACCCAGTGTCTCA-CTAGCTAAACTGAAG---TAAATTGG
1 CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
111790046 CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
1 CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
*
111790087 CACCCAGTGTCTCATCGA
1 CACCCAGTGCCTCATCGA
111790105 CTCGAAGTCG
Statistics
Matches: 78, Mismatches: 12, Indels: 11
0.77 0.12 0.11
Matches are distributed among these distances:
37 20 0.26
38 12 0.15
39 1 0.01
40 20 0.26
41 25 0.32
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (41 bp):
CACCCAGTGCCTCATCGAACTAATCTGAAGTAATAAATTGA
Found at i:111795394 original size:12 final size:12
Alignment explanation
Indices: 111795377--111795401 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
111795367 ATTTACCACA
111795377 TGAAAAATATTT
1 TGAAAAATATTT
111795389 TGAAAAATATTT
1 TGAAAAATATTT
111795401 T
1 T
111795402 TTTCAACTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (12 bp):
TGAAAAATATTT
Found at i:111797171 original size:40 final size:40
Alignment explanation
Indices: 111797127--111797207 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
111797117 TCAAATACAT
111797127 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
* * * * **
111797167 TTAAAACAATTCTTAAAACAATACACAAATTGAAAATATA
1 TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
111797207 T
1 T
111797208 AATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.63, C:0.10, G:0.02, T:0.25
Consensus pattern (40 bp):
TTAAAACAAATATTAAAACAAGAAACAAATAAAAAATATA
Found at i:111797272 original size:23 final size:23
Alignment explanation
Indices: 111797229--111797275 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
111797219 ATTATATTAA
* *
111797229 AATTAAAATTAAAATATAAATAT
1 AATTAAAAATAAAATAAAAATAT
111797252 AATTAAAAATAATAA-AAAAATAT
1 AATTAAAAATAA-AATAAAAATAT
111797275 A
1 A
111797276 TTTATTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 19 0.90
24 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (23 bp):
AATTAAAAATAAAATAAAAATAT
Found at i:111799356 original size:9 final size:9
Alignment explanation
Indices: 111799342--111799393 Score: 86
Period size: 9 Copynumber: 5.8 Consensus size: 9
111799332 TTTGGTTAAA
111799342 AATTACCCG
1 AATTACCCG
*
111799351 AATTACTCG
1 AATTACCCG
111799360 AATTACCCG
1 AATTACCCG
111799369 AATTACCCG
1 AATTACCCG
*
111799378 AATTAACCG
1 AATTACCCG
111799387 AATTACC
1 AATTACC
111799394 GAAAAATACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 39 1.00
ACGTcount: A:0.37, C:0.29, G:0.10, T:0.25
Consensus pattern (9 bp):
AATTACCCG
Found at i:111807772 original size:24 final size:26
Alignment explanation
Indices: 111807744--111807794 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
111807734 AGCTTATTTC
*
111807744 ATTAAAT-AAA-AAATTTTAAAATAT
1 ATTAAATCAAATAAATTTAAAAATAT
*
111807768 ATTAAATCAAATACATTTAAAAATAT
1 ATTAAATCAAATAAATTTAAAAATAT
111807794 A
1 A
111807795 AAAACAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (26 bp):
ATTAAATCAAATAAATTTAAAAATAT
Found at i:111815680 original size:13 final size:13
Alignment explanation
Indices: 111815662--111815702 Score: 55
Period size: 14 Copynumber: 3.0 Consensus size: 13
111815652 GTTTATTTTA
*
111815662 TTGAAAATGATTT
1 TTGAAAATAATTT
111815675 TTGAAAAATAATTT
1 TTG-AAAATAATTT
111815689 TTAGAAAATAATTT
1 TT-GAAAATAATTT
111815703 ATTTTTTGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 3 0.12
14 21 0.84
15 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (13 bp):
TTGAAAATAATTT
Found at i:111821078 original size:30 final size:30
Alignment explanation
Indices: 111821044--111821104 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
111821034 TTTATAGCAA
*
111821044 TAGTGATTTGTATTAAATATAATATTTTCT
1 TAGTGATTCGTATTAAATATAATATTTTCT
111821074 TAGTGATTCGTATTAAATATAATATTTTCT
1 TAGTGATTCGTATTAAATATAATATTTTCT
111821104 T
1 T
111821105 CATTCACAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (30 bp):
TAGTGATTCGTATTAAATATAATATTTTCT
Found at i:111823693 original size:24 final size:24
Alignment explanation
Indices: 111823650--111823704 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
111823640 TTTGAGTCCA
*
111823650 TTTATTTTTCGATTTGTTTTTATT
1 TTTATTTTTCGATTTGTTTTTATC
*
111823674 TTTATTTTT-GCA-TTGCTTTTTGTC
1 TTTATTTTTCG-ATTTG-TTTTTATC
111823698 TTTATTT
1 TTTATTT
111823705 ATCACTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 4 0.15
24 23 0.85
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (24 bp):
TTTATTTTTCGATTTGTTTTTATC
Found at i:111828870 original size:24 final size:25
Alignment explanation
Indices: 111828834--111828883 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 25
111828824 GAGGGTTATT
111828834 ATTATTATTATTTAAAATTAAAATA
1 ATTATTATTATTTAAAATTAAAATA
* *
111828859 ATTATT-TTATTTAATATTAATATA
1 ATTATTATTATTTAAAATTAAAATA
111828883 A
1 A
111828884 AATTTAAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
ATTATTATTATTTAAAATTAAAATA
Found at i:111829522 original size:14 final size:14
Alignment explanation
Indices: 111829503--111829547 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
111829493 TTTTATATGT
111829503 TATAAATAACAGAA
1 TATAAATAACAGAA
*
111829517 TAT-AA-AAC-G-T
1 TATAAATAACAGAA
111829527 TATAAATAACAGAA
1 TATAAATAACAGAA
111829541 TATAAAT
1 TATAAAT
111829548 CATTATAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
10 3 0.12
11 3 0.12
12 6 0.24
13 3 0.12
14 10 0.40
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.27
Consensus pattern (14 bp):
TATAAATAACAGAA
Found at i:111829531 original size:24 final size:24
Alignment explanation
Indices: 111829501--111829556 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
111829491 AATTTTATAT
111829501 GTTATAAATAACAGAATATAAAAC
1 GTTATAAATAACAGAATATAAAAC
*
111829525 GTTATAAATAACAGAATATAAATC
1 GTTATAAATAACAGAATATAAAAC
*
111829549 ATTATAAA
1 GTTATAAA
111829557 CTTATAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (24 bp):
GTTATAAATAACAGAATATAAAAC
Found at i:111840328 original size:30 final size:30
Alignment explanation
Indices: 111840287--111840351 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
111840277 TAGAGGACAT
* *
111840287 ACGGCCGTGTAATATAACCGTGTGTCACAC
1 ACGGCCATGTAACATAACCGTGTGTCACAC
111840317 ACGGCCATGTAACATAACCGTGTGTCACAC
1 ACGGCCATGTAACATAACCGTGTGTCACAC
111840347 ACGGC
1 ACGGC
111840352 TGAGACACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (30 bp):
ACGGCCATGTAACATAACCGTGTGTCACAC
Found at i:111845407 original size:26 final size:26
Alignment explanation
Indices: 111845336--111845408 Score: 62
Period size: 26 Copynumber: 2.7 Consensus size: 26
111845326 TTAACCTTCA
*
111845336 AAAATAATAAAAATTTGATATAATCCTTT
1 AAAATAAT-AAAA-TT-ATATAATACTTT
111845365 AAAA-AAGTATAAA-TATATAA-ACTATT
1 AAAATAA-TA-AAATTATATAATACT-TT
111845391 AAAATAATAAAATTATAT
1 AAAATAATAAAATTATAT
111845409 TTTTACTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
25 5 0.13
26 19 0.50
27 3 0.08
28 3 0.08
29 8 0.21
ACGTcount: A:0.59, C:0.04, G:0.03, T:0.34
Consensus pattern (26 bp):
AAAATAATAAAATTATATAATACTTT
Found at i:111847353 original size:21 final size:21
Alignment explanation
Indices: 111847329--111847375 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
111847319 AATCATTTTC
111847329 TTAATCAATACTCTTATCAAA
1 TTAATCAATACTCTTATCAAA
111847350 TTAATCAATACTCTTATCAAA
1 TTAATCAATACTCTTATCAAA
111847371 TTAAT
1 TTAAT
111847376 TGGCAAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
TTAATCAATACTCTTATCAAA
Found at i:111848536 original size:19 final size:20
Alignment explanation
Indices: 111848512--111848556 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
111848502 AATTTGGGAT
111848512 AAATTT-GAAACAAA-TAAAA
1 AAATTTGGAAA-AAAGTAAAA
*
111848531 AAATTTGGAAAAAAGTAGAA
1 AAATTTGGAAAAAAGTAAAA
111848551 AAATTT
1 AAATTT
111848557 AAAAATAGGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.24
Consensus pattern (20 bp):
AAATTTGGAAAAAAGTAAAA
Found at i:111859157 original size:28 final size:29
Alignment explanation
Indices: 111859125--111859275 Score: 143
Period size: 29 Copynumber: 5.3 Consensus size: 29
111859115 GTGATCATGA
* * *
111859125 ATAT-AATGTGATTTCGGCCGGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
* * *
111859153 ATATAAATGAG-ATTGGGCCTAATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
111859181 ATATGAATGTGAATTGGGTCTGATGGGCC
1 ATATGAATGTGAATTGGGCCTGATGGGCC
*
111859210 ATATGAACT-TGAATTGGGCCAGATGGGCC
1 ATATGAA-TGTGAATTGGGCCTGATGGGCC
* *
111859239 ATAT-AA-ATGAGTTGGGCCT-AGTGGGCC
1 ATATGAATGTGAATTGGGCCTGA-TGGGCC
*
111859266 ATATGCATGT
1 ATATGAATGT
111859276 ATGTAGGGGT
Statistics
Matches: 101, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
26 1 0.01
27 20 0.20
28 29 0.29
29 50 0.50
30 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGAATTGGGCCTGATGGGCC
Found at i:111862994 original size:51 final size:51
Alignment explanation
Indices: 111862918--111863029 Score: 188
Period size: 51 Copynumber: 2.2 Consensus size: 51
111862908 ATTACATTTA
*
111862918 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
* *
111862969 TCACTTATCACTGATCAGATAAGTGTAGCTGAGGCTACCACTTATCACTTG
1 TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
*
111863020 TCACTGATCA
1 TCACTTATCA
111863030 GAAATACTCA
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TCACTTATCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTG
Found at i:111865614 original size:15 final size:15
Alignment explanation
Indices: 111865596--111865626 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
111865586 TATGAAAGGG
*
111865596 GTGATAATGATAATA
1 GTGACAATGATAATA
111865611 GTGACAATGATAATA
1 GTGACAATGATAATA
111865626 G
1 G
111865627 AAGCCCATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.23, T:0.29
Consensus pattern (15 bp):
GTGACAATGATAATA
Found at i:111866182 original size:100 final size:99
Alignment explanation
Indices: 111866008--111866198 Score: 310
Period size: 100 Copynumber: 1.9 Consensus size: 99
111865998 GACCCCTTTC
* * *
111866008 AATTTTGTAAAATTACTTTGAATGCCTTTTAAGTTTTAATTTTTTATTTTGATATTATAATTAGT
1 AATTTTGTAAAATTACTTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAGT
*
111866073 GCTTAAAAAAAGGAAAAATTTGTGTTCTCCCCTA
66 GCTTAAAAAAAAGAAAAATTTGTGTTCTCCCCTA
111866107 AATTTTGTAAAATTACTTTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAG
1 AATTTTGTAAAATTAC-TTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAG
* * *
111866172 TGTTTGAAAAAAAGATAAATTTGTGTT
65 TGCTTAAAAAAAAGAAAAATTTGTGTT
111866199 TGACCCCCCA
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
99 16 0.19
100 68 0.81
ACGTcount: A:0.34, C:0.07, G:0.12, T:0.47
Consensus pattern (99 bp):
AATTTTGTAAAATTACTTTGAAGGCCCTTTAAGTTTTAATTTTTTAATTTGATATTATAATTAGT
GCTTAAAAAAAAGAAAAATTTGTGTTCTCCCCTA
Found at i:111866371 original size:61 final size:61
Alignment explanation
Indices: 111866303--111866423 Score: 165
Period size: 61 Copynumber: 2.0 Consensus size: 61
111866293 ATATAAAGTA
* * *
111866303 GTATCTAATTATTAATTTGGT-AAAAATAAAGTTTAAT-ATTAGCAATATCTAAGTACAAATC
1 GTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTA-CAATATCTAA-TACAAATC
* *
111866364 GTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTATACTATCTAATACAAAT
1 GTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTACAATATCTAATACAAAT
111866424 TGAGCATTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
61 26 0.49
62 23 0.43
63 4 0.08
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.36
Consensus pattern (61 bp):
GTATCTAAATATTAATTAGGTAAAAAATAAAGTTAAATAATTACAATATCTAATACAAATC
Found at i:111868452 original size:20 final size:20
Alignment explanation
Indices: 111868427--111868471 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
111868417 CAAAGAACAG
111868427 AAAAAA-ACATAAACTGAAAT
1 AAAAAATAC-TAAACTGAAAT
* *
111868447 AAAAAATACTCAATTGAAAT
1 AAAAAATACTAAACTGAAAT
111868467 AAAAA
1 AAAAA
111868472 TAAAATCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 20 0.91
21 2 0.09
ACGTcount: A:0.69, C:0.09, G:0.04, T:0.18
Consensus pattern (20 bp):
AAAAAATACTAAACTGAAAT
Found at i:111869513 original size:23 final size:24
Alignment explanation
Indices: 111869485--111869532 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
111869475 GCCTATTTTA
111869485 TTTTGGG-CTGTA-ATTTTAATTGT
1 TTTTGGGTCT-TAGATTTTAATTGT
*
111869508 TTTTGGGTCTTAGTTTTTAATTGT
1 TTTTGGGTCTTAGATTTTAATTGT
111869532 T
1 T
111869533 AGGGTCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.15, C:0.04, G:0.21, T:0.60
Consensus pattern (24 bp):
TTTTGGGTCTTAGATTTTAATTGT
Found at i:111880177 original size:43 final size:43
Alignment explanation
Indices: 111880116--111880281 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
111880106 AAAATGCCAC
* * *
111880116 AAAAGATCATGACTTTTAGTGGCGTTTGTGGGAAAGGCGCCGCT
1 AAAAG-TCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * * * **
111880160 AAAATTTATGGCTTTTAGCGGCGTTTGAGGGAAAAGTGTTGCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
** * *
111880203 AAAAGTCATGGCTTTTAATGACGTTTTTGGGAAAAGCGCCGCT
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
111880246 AAAAGTCACGGCTTTTAGCAGCGTTTGTGGGAAAAG
1 AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAG
111880282 ATAAATCTAA
Statistics
Matches: 97, Mismatches: 25, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
43 93 0.96
44 4 0.04
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (43 bp):
AAAAGTCATGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
Found at i:111880236 original size:86 final size:87
Alignment explanation
Indices: 111880116--111880281 Score: 235
Period size: 86 Copynumber: 1.9 Consensus size: 87
111880106 AAAATGCCAC
* * * * * * *
111880116 AAAAGATCATGACTTTTAGTGGCGTTTGTGGGAAAGGCGCCGCTAAAATTTATGGCTTTTAGCGG
1 AAAAGATCATGACTTTTAATGACGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCAG
111880181 CGTTTGAGGGAAAAGTGTTGCT
66 CGTTTGAGGGAAAAGTGTTGCT
* *
111880203 AAAAG-TCATGGCTTTTAATGACGTTTTTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCAG
1 AAAAGATCATGACTTTTAATGACGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCAG
*
111880267 CGTTTGTGGGAAAAG
66 CGTTTGAGGGAAAAG
111880282 ATAAATCTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
86 64 0.93
87 5 0.07
ACGTcount: A:0.27, C:0.14, G:0.30, T:0.30
Consensus pattern (87 bp):
AAAAGATCATGACTTTTAATGACGTTTGTGGGAAAAGCGCCGCTAAAAGTCACGGCTTTTAGCAG
CGTTTGAGGGAAAAGTGTTGCT
Found at i:111880537 original size:21 final size:21
Alignment explanation
Indices: 111880513--111880564 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
111880503 TCTGCTGCCA
* *
111880513 TCGCTACTGCCTCTGCCTCCC
1 TCGCTGCTGCCACTGCCTCCC
*
111880534 TCGCTGCTGCCACTGCCTCTC
1 TCGCTGCTGCCACTGCCTCCC
111880555 TCGCTGCTGC
1 TCGCTGCTGC
111880565 ATCCGCTCTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.04, C:0.48, G:0.19, T:0.29
Consensus pattern (21 bp):
TCGCTGCTGCCACTGCCTCCC
Found at i:111884989 original size:13 final size:13
Alignment explanation
Indices: 111884971--111885004 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
111884961 ATCGCACACG
*
111884971 GGCGTGTCATACA
1 GGCGTGTCAGACA
*
111884984 GGCGTGTCAGACG
1 GGCGTGTCAGACA
111884997 GGCGTGTC
1 GGCGTGTC
111885005 CCTGTCGAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.41, T:0.21
Consensus pattern (13 bp):
GGCGTGTCAGACA
Found at i:111889234 original size:55 final size:54
Alignment explanation
Indices: 111889092--111889235 Score: 141
Period size: 55 Copynumber: 2.6 Consensus size: 54
111889082 TGTGGCATGG
*
111889092 CCGTGGGCGAACCTTCCAAA-ACAACACGGGCGTACGACACGCCCGTGCCTGGAAA
1 CCGTGGGCGAACCTT-CAAATA-AACACGGGCGTGCGACACGCCCGTGCCTGGAAA
* * * *
111889147 TCGTGGTCGAACCTATCAAATAAACACAGGCGTGCGACAC-CCTCGTG-CTGAGCAA
1 CCGTGGGCGAACCT-TCAAATAAACACGGGCGTGCGACACGCC-CGTGCCTG-GAAA
* * *
111889202 CCGTGGGCGAACCTGTCAGATTAACATGGGCGTG
1 CCGTGGGCGAACCT-TCAAATAAACACGGGCGTG
111889236 GAAGAAGTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
54 5 0.07
55 66 0.90
56 2 0.03
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (54 bp):
CCGTGGGCGAACCTTCAAATAAACACGGGCGTGCGACACGCCCGTGCCTGGAAA
Found at i:111893858 original size:20 final size:19
Alignment explanation
Indices: 111893835--111893877 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
111893825 TTATATTTCA
111893835 TTTTTATTT-GTTATCAAT
1 TTTTTATTTAGTTATCAAT
*
111893853 GTTTTTATTTATTTATCAAT
1 -TTTTTATTTAGTTATCAAT
111893873 TTTTT
1 TTTTT
111893878 TAAATCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.64
20 8 0.36
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (19 bp):
TTTTTATTTAGTTATCAAT
Found at i:111893859 original size:19 final size:20
Alignment explanation
Indices: 111893835--111893879 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
111893825 TTATATTTCA
111893835 TTTTTATTT-GTTATCAATG
1 TTTTTATTTAGTTATCAATG
* *
111893854 TTTTTATTTATTTATCAATT
1 TTTTTATTTAGTTATCAATG
111893874 TTTTTA
1 TTTTTA
111893880 AATCTAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTATTTAGTTATCAATG
Found at i:111894166 original size:7 final size:7
Alignment explanation
Indices: 111894146--111894255 Score: 64
Period size: 7 Copynumber: 15.3 Consensus size: 7
111894136 ACTAATTAAT
111894146 CTAAACC
1 CTAAACC
111894153 CTAAAACC
1 CT-AAACC
111894161 CTAAACC
1 CTAAACC
**
111894168 CTAAAAA
1 CTAAACC
* *
111894175 ATAAACT
1 CTAAACC
111894182 C-ATAACC
1 CTA-AACC
111894189 CTTAAACC
1 C-TAAACC
111894197 CTAAACC
1 CTAAACC
*
111894204 TTAAATCC
1 CTAAA-CC
111894212 C--AACC
1 CTAAACC
111894217 CTTAAACC
1 C-TAAACC
* *
111894225 ATAATCC
1 CTAAACC
111894232 CTAAACC
1 CTAAACC
*
111894239 CATAATCC
1 C-TAAACC
*
111894247 ATAAACC
1 CTAAACC
111894254 CT
1 CT
111894256 TAAAATAATA
Statistics
Matches: 77, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
5 3 0.04
6 3 0.04
7 47 0.61
8 23 0.30
9 1 0.01
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:111894236 original size:28 final size:27
Alignment explanation
Indices: 111894185--111894240 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
111894175 ATAAACTCAT
* *
111894185 AACCCTTAAACCCTAAACCTTAAATCCC
1 AACCCTTAAACCATAAACCCTAAA-CCC
*
111894213 AACCCTTAAACCATAATCCCTAAACCC
1 AACCCTTAAACCATAAACCCTAAACCC
111894240 A
1 A
111894241 TAATCCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 4 0.16
28 21 0.84
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (27 bp):
AACCCTTAAACCATAAACCCTAAACCC
Found at i:111894241 original size:15 final size:15
Alignment explanation
Indices: 111894219--111894254 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
111894209 TCCCAACCCT
*
111894219 TAAA-CCATAATCCC
1 TAAACCCATAATCCA
111894233 TAAACCCATAATCCA
1 TAAACCCATAATCCA
111894248 TAAACCC
1 TAAACCC
111894255 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.44, C:0.36, G:0.00, T:0.19
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:111894248 original size:22 final size:22
Alignment explanation
Indices: 111894146--111894255 Score: 79
Period size: 22 Copynumber: 5.1 Consensus size: 22
111894136 ACTAATTAAT
*
111894146 CTAAACCC-TAAAACCCTAAACC
1 CTAAACCCAT-AAACCATAAACC
**
111894168 CTAAA-AAATAAACTCAT-AACC
1 CTAAACCCATAAAC-CATAAACC
*
111894189 CTTAAACCC-TAAACCTTAAATCC
1 C-TAAACCCATAAACCATAAA-CC
* *
111894212 C--AACCCTTAAACCATAATCC
1 CTAAACCCATAAACCATAAACC
*
111894232 CTAAACCCATAATCCATAAACC
1 CTAAACCCATAAACCATAAACC
111894254 CT
1 CT
111894256 TAAAATAATA
Statistics
Matches: 68, Mismatches: 11, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
20 8 0.12
21 20 0.29
22 37 0.54
23 3 0.04
ACGTcount: A:0.45, C:0.35, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAAACCCATAAACCATAAACC
Found at i:111894450 original size:8 final size:7
Alignment explanation
Indices: 111894415--111894458 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
111894405 TACTAATTAA
*
111894415 CCTAAAC
1 CCTAATC
*
111894422 CCTAAAC
1 CCTAATC
111894429 CCTTAATC
1 CC-TAATC
111894437 CCTAATC
1 CCTAATC
111894444 CCATAATC
1 CC-TAATC
111894452 CCTAATC
1 CCTAATC
111894459 TATAATCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
7 21 0.62
8 13 0.38
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (7 bp):
CCTAATC
Found at i:111894457 original size:15 final size:15
Alignment explanation
Indices: 111894421--111894458 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
111894411 TTAACCTAAA
* *
111894421 CCCTAAACCCTTAAT
1 CCCTAATCCCATAAT
111894436 CCCTAATCCCATAAT
1 CCCTAATCCCATAAT
111894451 CCCTAATC
1 CCCTAATC
111894459 TATAATCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.32, C:0.42, G:0.00, T:0.26
Consensus pattern (15 bp):
CCCTAATCCCATAAT
Found at i:111894648 original size:14 final size:14
Alignment explanation
Indices: 111894615--111894658 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
111894605 CATAAACCTC
*
111894615 AAACCCTTAACCAT
1 AAACCCTAAACCAT
* *
111894629 ATACCCTAAACCGT
1 AAACCCTAAACCAT
*
111894643 AAACCCTAAACTAT
1 AAACCCTAAACCAT
111894657 AA
1 AA
111894659 TGATAATTAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.45, C:0.32, G:0.02, T:0.20
Consensus pattern (14 bp):
AAACCCTAAACCAT
Found at i:111894948 original size:20 final size:20
Alignment explanation
Indices: 111894909--111894948 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
111894899 TGTATTTTAA
*
111894909 TATAATTAAACTAGTTAAAT
1 TATAATTAAACTAGTGAAAT
111894929 TATAATTAAAC-AGATGAAAT
1 TATAATTAAACTAG-TGAAAT
111894949 ATTTTTGGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 2 0.11
20 16 0.89
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (20 bp):
TATAATTAAACTAGTGAAAT
Found at i:111901294 original size:51 final size:51
Alignment explanation
Indices: 111901146--111901406 Score: 373
Period size: 51 Copynumber: 5.2 Consensus size: 51
111901136 ACTTCTGATC
* * *
111901146 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * *
111901197 AGTGAAAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
111901247 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATA
1 AGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* * * * *
111901298 AGTGACAAATGATAAGTGGTAG-CTTAGCTACTCTTATCTGATTAGTGGCA
1 AGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
* *
111901348 AGTGATAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
111901399 AGTGATAA
1 AGTGATAA
111901407 ATGTGATCAG
Statistics
Matches: 184, Mismatches: 24, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
50 87 0.47
51 97 0.53
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.30
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAGTGACA
Found at i:111901308 original size:101 final size:101
Alignment explanation
Indices: 111901146--111901409 Score: 447
Period size: 101 Copynumber: 2.6 Consensus size: 101
111901136 ACTTCTGATC
*
111901146 AGTGACAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGAAAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGAAAAATGATA
111901211 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
*
111901247 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGACAAATGATA
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGAAAAATGATA
* *
111901312 AGTGGTAGCTTAGCTACTCTTATCTGATTAGTGGCA
66 AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
* * * * *
111901348 AGTGATAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACAAGTGATAAATG
1 AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGAAAAATG
111901410 TGATCAGTGT
Statistics
Matches: 154, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 154 1.00
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (101 bp):
AGTGATAAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATCAGTGATAAGTGAAAAATGATA
AGTGGTAGCTTAGCTACTCTTATCTGATCAGTGACA
Found at i:111911170 original size:15 final size:15
Alignment explanation
Indices: 111911112--111911172 Score: 70
Period size: 16 Copynumber: 4.0 Consensus size: 15
111911102 TTTTCTGAAA
111911112 AAACATAATT-TTCT
1 AAACATAATTATTCT
*
111911126 AAATATAAATTATTCT
1 AAACAT-AATTATTCT
* *
111911142 AAATAATGATTATTCT
1 AAA-CATAATTATTCT
111911158 AAACATAATTATTCT
1 AAACATAATTATTCT
111911173 CAAAACGTTA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.13
15 14 0.36
16 18 0.46
17 2 0.05
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.43
Consensus pattern (15 bp):
AAACATAATTATTCT
Found at i:111911280 original size:16 final size:16
Alignment explanation
Indices: 111911252--111911296 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
111911242 TGGACATAAC
111911252 TATTTTCAAACAACAAT
1 TATTTT-AAACAACAAT
*
111911269 TGTTTTAAACAACAAT
1 TATTTTAAACAACAAT
*
111911285 TATTCTAAACAA
1 TATTTTAAACAA
111911297 GAGTTGTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.36
Consensus pattern (16 bp):
TATTTTAAACAACAAT
Found at i:111916487 original size:26 final size:26
Alignment explanation
Indices: 111916458--111916510 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
111916448 TTTACAGTTT
111916458 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
111916484 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
111916510 T
1 T
111916511 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:111921277 original size:6 final size:6
Alignment explanation
Indices: 111921221--111921249 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
111921211 GGAAAGAGAG
111921221 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
111921250 GATAAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:111931760 original size:41 final size:41
Alignment explanation
Indices: 111931715--111931796 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
111931705 TAAAATATTG
111931715 ACATATATAATTTTTTAAAATATTTTACTATATCTTAACTT
1 ACATATATAATTTTTTAAAATATTTTACTATATCTTAACTT
111931756 ACATATATAATTTTTTAAAATATTTTACTATATCTTAACTT
1 ACATATATAATTTTTTAAAATATTTTACTATATCTTAACTT
111931797 CTAACTTTGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.10, G:0.00, T:0.51
Consensus pattern (41 bp):
ACATATATAATTTTTTAAAATATTTTACTATATCTTAACTT
Found at i:111931967 original size:16 final size:17
Alignment explanation
Indices: 111931942--111931974 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
111931932 TATATTTTTA
*
111931942 TATATGTAAAA-AAATT
1 TATATCTAAAATAAATT
111931958 TATATCTAAAATAAATT
1 TATATCTAAAATAAATT
111931975 CATAGGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (17 bp):
TATATCTAAAATAAATT
Found at i:111934388 original size:16 final size:15
Alignment explanation
Indices: 111934367--111934396 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
111934357 TAATTTGAGA
111934367 TTTAATATTTATATAT
1 TTTAATATTT-TATAT
111934383 TTTAATATTTTATA
1 TTTAATATTTTATA
111934397 AAATTTGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTAATATTTTATAT
Found at i:111936042 original size:15 final size:16
Alignment explanation
Indices: 111936018--111936047 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111936008 ATGTGTCTCT
111936018 TTTTTGTTAATATTTA
1 TTTTTGTTAATATTTA
111936034 TTTTT-TTAATATTT
1 TTTTTGTTAATATTT
111936048 TGCTATACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTGTTAATATTTA
Found at i:111937356 original size:13 final size:13
Alignment explanation
Indices: 111937340--111937364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111937330 AATTTAACCC
111937340 TTCATTTTACATT
1 TTCATTTTACATT
111937353 TTCATTTTACAT
1 TTCATTTTACAT
111937365 AGTATGATAA
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:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (13 bp):
TTCATTTTACATT
Found at i:111938699 original size:30 final size:30
Alignment explanation
Indices: 111938663--111938721 Score: 109
Period size: 30 Copynumber: 2.0 Consensus size: 30
111938653 ATCATAAAGA
*
111938663 AACCTAGTACATCTAACATTAGGTTTATCC
1 AACCTAGTACATCTAACATAAGGTTTATCC
111938693 AACCTAGTACATCTAACATAAGGTTTATC
1 AACCTAGTACATCTAACATAAGGTTTATC
111938722 AACTATCTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (30 bp):
AACCTAGTACATCTAACATAAGGTTTATCC
Found at i:111942128 original size:47 final size:46
Alignment explanation
Indices: 111942070--111942242 Score: 156
Period size: 47 Copynumber: 3.7 Consensus size: 46
111942060 GAGAGCCAAA
* *
111942070 GTAAGACCATGTCCGGGACATGGCATCGGCGTAGATACAAGTGCTAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTAGATA-AAGTGC-AGT
* * * *
111942118 GTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGATGATGATAGCCAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCCTAGATAAAG-T-G-CAGT
* * *
111942165 GTATGA-TATGTCTGGGACATGGCATCGGCCTTGACGATGATAGT-CAGT
1 GTAAGACCATGTCTGGGACATGGCATCGGCC-T-A-GAT-AAAGTGCAGT
111942213 GTAAGACCATGTCTGGGACATGGCATCGGC
1 GTAAGACCATGTCTGGGACATGGCATCGGC
111942243 AACTCACCCC
Statistics
Matches: 101, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
45 2 0.02
46 13 0.13
47 33 0.33
48 25 0.25
49 23 0.23
51 4 0.04
52 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (46 bp):
GTAAGACCATGTCTGGGACATGGCATCGGCCTAGATAAAGTGCAGT
Found at i:111942182 original size:94 final size:94
Alignment explanation
Indices: 111942016--111942193 Score: 225
Period size: 94 Copynumber: 1.9 Consensus size: 94
111942006 TCACTTGTGT
* *
111942016 GTGCTAGTGTAAGATATGTCTTGGACATGCATCAACCACATTATGAGAGCCAAAGTAAGACCATG
1 GTGCTAGTGTAAGACATGTCTTGGACATGCATCAACCACATGATGAGAGCCAAAGTAAGACCATG
111942081 TCCGGGACATGGCATCGGCGTAGATACAA
66 TCCGGGACATGGCATCGGCGTAGATACAA
** * * ** * *
111942110 GTGCTAGTGTAAGACATGT-TTGGGACATGCATCGGCCTCGATGATGATAGCCAGTGTATGA-TA
1 GTGCTAGTGTAAGACATGTCTT-GGACATGCATCAACCAC-ATGATGAGAGCCAAAGTAAGACCA
*
111942173 TGTCTGGGACATGGCATCGGC
64 TGTCCGGGACATGGCATCGGC
111942194 CTTGACGATG
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
93 2 0.03
94 53 0.75
95 16 0.23
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.25
Consensus pattern (94 bp):
GTGCTAGTGTAAGACATGTCTTGGACATGCATCAACCACATGATGAGAGCCAAAGTAAGACCATG
TCCGGGACATGGCATCGGCGTAGATACAA
Found at i:111942857 original size:11 final size:11
Alignment explanation
Indices: 111942843--111942887 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
111942833 AGATAAATAT
111942843 TATTTTATTAA
1 TATTTTATTAA
*
111942854 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
111942867 TATTTTATTAT
1 TATTTTATTAA
111942878 TATTTTATTA
1 TATTTTATTA
111942888 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:111945069 original size:46 final size:46
Alignment explanation
Indices: 111945017--111945336 Score: 489
Period size: 46 Copynumber: 7.0 Consensus size: 46
111945007 AGTGTGCTCT
111945017 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
111945063 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
111945109 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
111945155 CTGATATGAAATGTATAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
111945201 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
111945247 ATGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
111945293 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
111945337 TCACGTCAAA
Statistics
Matches: 255, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 254 1.00
ACGTcount: A:0.39, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:111953988 original size:14 final size:13
Alignment explanation
Indices: 111953969--111953999 Score: 53
Period size: 13 Copynumber: 2.3 Consensus size: 13
111953959 AGGGTTATTC
111953969 TTTTTCTTCTTTTT
1 TTTTTCTT-TTTTT
111953983 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
111953996 TTTT
1 TTTT
111954000 GGGGGGTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.53
14 8 0.47
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:111953992 original size:10 final size:11
Alignment explanation
Indices: 111953969--111953998 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
111953959 AGGGTTATTC
*
111953969 TTTTTCTTCTT
1 TTTTTTTTCTT
111953980 TTTTTTTTCTT
1 TTTTTTTTCTT
111953991 TTTTTTTT
1 TTTTTTTT
111953999 TGGGGGGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:111957340 original size:132 final size:132
Alignment explanation
Indices: 111957103--111957366 Score: 528
Period size: 132 Copynumber: 2.0 Consensus size: 132
111957093 CTTAACCTCG
111957103 ACCTTAGATCTTGCAAGCTTCTATTATCACCCAAAGTTTCCCTTTATCTTGAAACCACATACAAA
1 ACCTTAGATCTTGCAAGCTTCTATTATCACCCAAAGTTTCCCTTTATCTTGAAACCACATACAAA
111957168 TGTATTTAAATTCCTTCAACCCTGAGGGGTTTAAAGAGTCCATAACCTCTTTAAGGTCCTCATAT
66 TGTATTTAAATTCCTTCAACCCTGAGGGGTTTAAAGAGTCCATAACCTCTTTAAGGTCCTCATAT
111957233 AA
131 AA
111957235 ACCTTAGATCTTGCAAGCTTCTATTATCACCCAAAGTTTCCCTTTATCTTGAAACCACATACAAA
1 ACCTTAGATCTTGCAAGCTTCTATTATCACCCAAAGTTTCCCTTTATCTTGAAACCACATACAAA
111957300 TGTATTTAAATTCCTTCAACCCTGAGGGGTTTAAAGAGTCCATAACCTCTTTAAGGTCCTCATAT
66 TGTATTTAAATTCCTTCAACCCTGAGGGGTTTAAAGAGTCCATAACCTCTTTAAGGTCCTCATAT
111957365 AA
131 AA
111957367 TCCATCGGTG
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
132 132 1.00
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.33
Consensus pattern (132 bp):
ACCTTAGATCTTGCAAGCTTCTATTATCACCCAAAGTTTCCCTTTATCTTGAAACCACATACAAA
TGTATTTAAATTCCTTCAACCCTGAGGGGTTTAAAGAGTCCATAACCTCTTTAAGGTCCTCATAT
AA
Found at i:111975450 original size:3 final size:3
Alignment explanation
Indices: 111975432--111975470 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
111975422 AAATAGAAGA
111975432 TAT TAT T-T TAT T-T TAT TAT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
111975471 TTAATTTAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
2 4 0.12
3 26 0.79
4 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:111975450 original size:13 final size:14
Alignment explanation
Indices: 111975432--111975473 Score: 70
Period size: 13 Copynumber: 3.1 Consensus size: 14
111975422 AAATAGAAGA
111975432 TATTATT-TTATTT
1 TATTATTATTATTT
111975445 TATTATTATTA-TT
1 TATTATTATTATTT
111975458 TATTATTATTATTT
1 TATTATTATTATTT
111975472 TA
1 TA
111975474 ATTTAGCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 20 0.74
14 7 0.26
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (14 bp):
TATTATTATTATTT
Found at i:111982448 original size:43 final size:43
Alignment explanation
Indices: 111982354--111982499 Score: 127
Period size: 43 Copynumber: 3.4 Consensus size: 43
111982344 ACCGAGATGT
* * * * *
111982354 GATTACATGTAAGA-CATGTTTGAGACATTGGCATTGTATTGT
1 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTAATGC
*
111982396 GATTACGTGTAAGACCATGTCTGAGCCATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCG-TAATGC
* * * * * *
111982439 GATTTCGTGTAAGACCCTGACTGGGACAGTGGCATCG-ATATGT
1 GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTA-ATGC
* *
111982482 GATAACATGTAAGACCAT
1 GATTACGTGTAAGACCAT
111982500 ATTTGAGATA
Statistics
Matches: 83, Mismatches: 17, Indels: 7
0.78 0.16 0.07
Matches are distributed among these distances:
41 1 0.01
42 15 0.18
43 64 0.77
44 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGAGACATTGGCATCGTAATGC
Found at i:111994028 original size:29 final size:27
Alignment explanation
Indices: 111993959--111994073 Score: 113
Period size: 29 Copynumber: 4.0 Consensus size: 27
111993949 ACATACATGT
* * * *
111993959 ATATGGCCTACTAGGCCCAATCTCGTTC
1 ATATGGCCCATTAGG-CCAATCACATTC
*
111993987 ATATGGCCTATTAGGCTCAATTCACATTC
1 ATATGGCCCATTAGGC-CAA-TCACATTC
111994016 ATATGGCCCATTAGGACCAAATCACATTC
1 ATATGGCCCATTAGG-CC-AATCACATTC
* *
111994045 ATATGGCCCACTAGGCCCAATCACTTTC
1 ATATGGCCCATTAGG-CCAATCACATTC
111994073 A
1 A
111994074 CAGTCATACT
Statistics
Matches: 76, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
27 1 0.01
28 27 0.36
29 45 0.59
30 3 0.04
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (27 bp):
ATATGGCCCATTAGGCCAATCACATTC
Found at i:111999021 original size:8 final size:7
Alignment explanation
Indices: 111998990--111999030 Score: 64
Period size: 7 Copynumber: 5.6 Consensus size: 7
111998980 ATAATAAAAT
111998990 ATATAAA
1 ATATAAA
111998997 ATATAAA
1 ATATAAA
111999004 ATATAAA
1 ATATAAA
111999011 ATATCAAA
1 ATAT-AAA
111999019 ATATCAAA
1 ATAT-AAA
111999027 ATAT
1 ATAT
111999031 TAGAATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 18 0.55
8 15 0.45
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (7 bp):
ATATAAA
Found at i:111999037 original size:16 final size:15
Alignment explanation
Indices: 111998983--111999030 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 15
111998973 GATGTGAATA
111998983 ATAAAATATATAAAAT
1 ATAAAATAT-TAAAAT
111998999 ATAAAATA-TAAAAT
1 ATAAAATATTAAAAT
*
111999013 ATCAAAATATCAAAAT
1 AT-AAAATATTAAAAT
111999029 AT
1 AT
111999031 TAGAATAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 8 0.28
15 6 0.21
16 15 0.52
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAATATTAAAAT
Found at i:111999208 original size:20 final size:20
Alignment explanation
Indices: 111999156--111999212 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 20
111999146 ATACTACATC
*
111999156 AATATGTACATATATAAAAAA
1 AATATGTACATA-ATATAAAA
* * *
111999177 AATACGT-GATAATATTAAA
1 AATATGTACATAATATAAAA
111999196 AATATGTACATAATATA
1 AATATGTACATAATATA
111999213 GTGTTAAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 10 0.36
21 6 0.21
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (20 bp):
AATATGTACATAATATAAAA
Found at i:111999254 original size:22 final size:24
Alignment explanation
Indices: 111999191--111999255 Score: 80
Period size: 25 Copynumber: 2.8 Consensus size: 24
111999181 CGTGATAATA
*
111999191 TTAAAAATATGTACATAATATAGTG
1 TTAAAAATATATACATAATATAG-G
*
111999216 TTAAAAATACATACATAATATA-G
1 TTAAAAATATATACATAATATAGG
*
111999239 TT-AAGATATATACATAA
1 TTAAAAATATATACATAA
111999256 GATAACATGT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
22 13 0.36
23 3 0.08
25 20 0.56
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (24 bp):
TTAAAAATATATACATAATATAGG
Found at i:111999284 original size:34 final size:33
Alignment explanation
Indices: 111999244--111999309 Score: 87
Period size: 34 Copynumber: 2.0 Consensus size: 33
111999234 TATAGTTAAG
*
111999244 ATATATACATAAGATAACATGTAAAAATATATAT
1 ATATATAAATAAGATAACAT-TAAAAATATATAT
* * *
111999278 ATATATAAATAATATAATATTAAAGATATATA
1 ATATATAAATAAGATAACATTAAAAATATATA
111999310 CATAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (33 bp):
ATATATAAATAAGATAACATTAAAAATATATAT
Found at i:111999306 original size:25 final size:25
Alignment explanation
Indices: 111999278--111999411 Score: 84
Period size: 25 Copynumber: 5.6 Consensus size: 25
111999268 AAATATATAT
111999278 ATATATAAATAATATAATATTAAAG
1 ATATATAAATAATATAATATTAAAG
* * * * *
111999303 ATATATACATAAAATAGTATAAAAT
1 ATATATAAATAATATAATATTAAAG
* * *
111999328 ATATATATACGTAATATAAAATTTAA-
1 ATATATA-A-ATAATATAATATTAAAG
** *
111999354 A-ATATACCTAATAT-AT-TAAAAG
1 ATATATAAATAATATAATATTAAAG
*
111999376 A-ATATATATAATATAATATT-AAG
1 ATATATAAATAATATAATATTAAAG
*
111999399 AAATAT-AATAATA
1 ATATATAAATAATA
111999412 ACAAAAAAAA
Statistics
Matches: 82, Mismatches: 21, Indels: 14
0.70 0.18 0.12
Matches are distributed among these distances:
21 3 0.04
22 13 0.16
23 18 0.22
24 5 0.06
25 32 0.39
26 1 0.01
27 10 0.12
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (25 bp):
ATATATAAATAATATAATATTAAAG
Found at i:111999308 original size:16 final size:18
Alignment explanation
Indices: 111999265--111999309 Score: 51
Period size: 16 Copynumber: 2.7 Consensus size: 18
111999255 AGATAACATG
111999265 TAAAAATATATATATATA
1 TAAAAATATATATATATA
*
111999283 TAAATA-ATATA-ATAT-
1 TAAAAATATATATATATA
*
111999298 TAAAGATATATA
1 TAAAAATATATA
111999310 CATAAAATAG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 5 0.21
16 9 0.38
17 5 0.21
18 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (18 bp):
TAAAAATATATATATATA
Found at i:112000035 original size:30 final size:30
Alignment explanation
Indices: 111999885--112000059 Score: 228
Period size: 30 Copynumber: 5.8 Consensus size: 30
111999875 TAGGTACAAG
* *
111999885 TGGTGGTGGAGCAA-GTGTGGTTAGTGGAGT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
* ** * *
111999915 AGGTAATGGAGCAA-GTGTGGCTAGTGGATT
1 TGGTGGTGGA-AAAGGTGTGGCTAGTGGAGT
*
111999945 TGGTGGTGGAGAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
111999975 TGGTGGTGGAAAAGGAGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
112000005 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
*
112000035 TGGTGGTGGAAAAGGTGTAGCTAGT
1 TGGTGGTGGAAAAGGTGTGGCTAGT
112000060 TGAGAAAAGT
Statistics
Matches: 130, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
29 2 0.02
30 128 0.98
ACGTcount: A:0.21, C:0.04, G:0.48, T:0.27
Consensus pattern (30 bp):
TGGTGGTGGAAAAGGTGTGGCTAGTGGAGT
Found at i:112000856 original size:16 final size:16
Alignment explanation
Indices: 112000837--112000876 Score: 59
Period size: 14 Copynumber: 2.7 Consensus size: 16
112000827 TGAAAAATAT
112000837 AAATTGAAAAAAGCAG
1 AAATTGAAAAAAGCAG
112000853 AAATTG--AAAAGCAG
1 AAATTGAAAAAAGCAG
112000867 AAATT-AAAAA
1 AAATTGAAAAA
112000877 GACCTTAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 13 0.59
15 3 0.14
16 6 0.27
ACGTcount: A:0.65, C:0.05, G:0.15, T:0.15
Consensus pattern (16 bp):
AAATTGAAAAAAGCAG
Found at i:112000989 original size:73 final size:75
Alignment explanation
Indices: 112000893--112001100 Score: 312
Period size: 76 Copynumber: 2.8 Consensus size: 75
112000883 AGCATGTGAG
* * *
112000893 CCGAGACTCAACTCACCTCTCGCAATATGAGTT-A-ATTTTTGACAAACAGAAATTGAAATTACC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
112000956 TCAGCGTGTC
66 TCAGCGTGTC
* * * *
112000966 CCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTTAAAAATAC
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAA-TTGAAAATAC
112001031 CTCAGCGTGTC
65 CTCAGCGTGTC
* *
112001042 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACAGAAATTGAA
1 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAA
112001101 GAACAGAAAT
Statistics
Matches: 119, Mismatches: 13, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
73 31 0.26
74 1 0.01
75 19 0.16
76 68 0.57
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (75 bp):
CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAATACC
TCAGCGTGTC
Found at i:112001107 original size:14 final size:14
Alignment explanation
Indices: 112001088--112001114 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
112001078 TTTTTTTACA
112001088 AACAGAAATTGAAG
1 AACAGAAATTGAAG
112001102 AACAGAAATTGAA
1 AACAGAAATTGAA
112001115 AAGAACTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (14 bp):
AACAGAAATTGAAG
Found at i:112001263 original size:14 final size:14
Alignment explanation
Indices: 112001244--112001293 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
112001234 GAGTTGATTT
* *
112001244 TTGAAAAATATAAA
1 TTGAAAAACAGAAA
112001258 TTGAAAAAACAGAAA
1 TTG-AAAAACAGAAA
*
112001273 TTGAAAAGCAGAAA
1 TTGAAAAACAGAAA
112001287 TT-AAAAA
1 TTGAAAAA
112001294 GACCTCAGCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 15 0.48
15 12 0.39
ACGTcount: A:0.64, C:0.04, G:0.12, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:112001403 original size:78 final size:75
Alignment explanation
Indices: 112001273--112001514 Score: 316
Period size: 78 Copynumber: 3.2 Consensus size: 75
112001263 AAAACAGAAA
* * * *
112001273 TTGAAAAGCAGAAATT-AAAAAGACCTCAGCATGTGAGGCAAGACTCAACTCACCTCTCACAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-A-GCAAGGCTCAACTCACCTCTCGCAATA
112001337 TGAGTTGATTTTT
64 TGAGTTGA-TTTT
* * *
112001350 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGT-AG-CAAGGCTCAACTCACCTCTCGCAATA
112001415 TGAGTTGATTTT
64 TGAGTTGATTTT
*
112001427 TTGAAAAATAGAAATTG-AAAACACCTCAGCATGT-G--AGGCTCAACTCACCTCTCGCAATATG
1 TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCAAGGCTCAACTCACCTCTCGCAATATG
112001488 AGTTGA-TTT
66 AGTTGATTTT
*
112001497 TTGAAAAACATAAATTGA
1 TTGAAAAACAGAAATTGA
112001515 GCAGAAATTG
Statistics
Matches: 149, Mismatches: 13, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
70 18 0.12
71 32 0.21
74 1 0.01
76 15 0.10
77 34 0.23
78 49 0.33
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (75 bp):
TTGAAAAACAGAAATTGAAAAACACCTCAGCATGTAGCAAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTTT
Found at i:112001466 original size:417 final size:407
Alignment explanation
Indices: 112000764--112001653 Score: 1200
Period size: 417 Copynumber: 2.1 Consensus size: 407
112000754 AAAGTAGATT
* * *
112000764 TTGAAAATACCTCGACATGTGAACCCAAGGCTCAACTCACATCTCGCAATATGAGTTGATTTTTG
1 TTGAAAATACCTC-A-ACGTG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG
*
112000829 AAAAATATAAATTGAAAAAAGCAGAAATTGAAAAGCAGAAATTAAAAAGACCTTAGCATGTGAGC
63 AAAAATATAAATTGAAAAAAGCAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGC
* * *
112000894 CGAGACTCAACTCACCTCTCGCAATATGAGTTAATTTTTGACAAACAGAAATTGAAATTACCTCA
128 CAAGACTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTCA
* *
112000959 GCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTTA
193 GCGTGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTTA
* * * *
112001024 AAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAA
258 AAAACACCTCAGCATG--CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA
*
112001089 ACAGAAATTGAAGAACAGAAATTGAAAAGAACTCAGCATGTGAG-C-CGAGGCTCAACTCACCTC
319 ACAGAAATTG-AG--CAGAAATTGAAAAGAACTCA--ACG-G-GTCTCGAGGCTCAACTCACCTC
*
112001152 TTGCAATATGAGTT-AATTTTTGACAAACAGAAA
377 TCGCAATATGAGTTGAATTTTTG---AACAGAAA
* * * *
112001185 TTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTTGAAA
1 TTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
*
112001250 AATATAAATTGAAAAAA-CAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGGCAA
66 AATATAAATTGAAAAAAGCAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCAA
*
112001314 GACTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAAACAGAAATTGAAAAATACCTCA
131 GACTCAACTCACCTCTCACAATATGAGTT-A-ATTTTTGACAAACAGAAATTG-AAAATACCTCA
*
112001379 GCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAATAGAAA-T
193 GCGTGT--CCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATT
*
112001442 TGAAAACACCTCAGCATG-TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
256 TAAAAACACCTCAGCATGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* * * * *
112001506 ATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTCTCGCAATAT
321 AGAAATTGAGCAGAAATTGAAAAGAACTCAACGGGTCTCGAGGCTCAACTCACCTCTCGCAATAT
* ** *
112001571 GAGTTGATTTTTTGATGATAAA
386 GAGTTGAATTTTTGAACAGAAA
* ** * *
112001593 TTGAAAATACCTCAATGTGACTTGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 TTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
112001654 TGAATTAAAA
Statistics
Matches: 420, Mismatches: 41, Indels: 29
0.86 0.08 0.06
Matches are distributed among these distances:
408 58 0.14
409 2 0.00
410 31 0.07
411 7 0.02
412 18 0.04
414 2 0.00
415 17 0.04
417 106 0.25
418 60 0.14
419 23 0.05
420 33 0.08
421 30 0.07
422 33 0.08
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (407 bp):
TTGAAAATACCTCAACGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAA
AATATAAATTGAAAAAAGCAGAAATTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGCCAA
GACTCAACTCACCTCTCACAATATGAGTTAATTTTTGACAAACAGAAATTGAAAATACCTCAGCG
TGTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAATAGAAATTTAAAA
ACACCTCAGCATGCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
TTGAGCAGAAATTGAAAAGAACTCAACGGGTCTCGAGGCTCAACTCACCTCTCGCAATATGAGTT
GAATTTTTGAACAGAAA
Found at i:112001481 original size:71 final size:71
Alignment explanation
Indices: 112001273--112001678 Score: 318
Period size: 71 Copynumber: 5.3 Consensus size: 71
112001263 AAAACAGAAA
* * * *
112001273 TTGAAAAGCAGAAATTAAAAAGACCTCAGCATGTGAGGCAAGACTCAACTCACCTCTCACAATAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGA-G---G-CTCAACTCACCTCTCGCAATAT
112001338 GAGTTGATTTTT
61 GAGTTGA-TTTT
* *
112001350 TTGACAAACAGAAATTGAAAAATACCTCAGCGTGTAAGCCAAGGCTCAACTCACCTCTCGCAATA
1 TTGAAAAACAGAAATTG-AAAATACCTCAGCATGT--G---AGGCTCAACTCACCTCTCGCAATA
112001415 TGAGTTGATTTT
60 TGAGTTGATTTT
* *
112001427 TTGAAAAATAGAAATTGAAAACACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
112001492 GA-TTT
66 GATTTT
** * *
112001497 TTGAAAAACATAAATTGAGCAGAAATTGAAAATACCTCAACGGGTCTTGAGGTTCAACTCACCTC
1 TTG------A-AAA---A-CAGAAATTGAAAATACCTC-A-GCAT-GTGAGGCTCAACTCACCTC
112001562 TCGCAATATGAGTTGATTTT
52 TCGCAATATGAGTTGATTTT
** * * * *
112001582 TTG---ATGATAAATTGAAAATACCTCAATGTGACT-TGAGGTTCAACTCACCTCTCACAATATG
1 TTGAAAAACAGAAATTGAAAATACCTC-A-G-CA-TGTGAGGCTCAACTCACCTCTCGCAATATG
112001643 AGTTGATTTT
62 AGTTGATTTT
112001653 TTGAATTAAAACAGAAATTGAAAATA
1 TTG-A--AAAACAGAAATTGAAAATA
112001679 GAAATGGAAA
Statistics
Matches: 275, Mismatches: 25, Indels: 58
0.77 0.07 0.16
Matches are distributed among these distances:
70 6 0.02
71 92 0.33
72 1 0.00
73 1 0.00
74 1 0.00
75 1 0.00
76 16 0.06
77 50 0.18
78 43 0.16
79 1 0.00
80 2 0.01
81 17 0.06
82 2 0.01
83 3 0.01
84 33 0.12
85 6 0.02
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.29
Consensus pattern (71 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCATGTGAGGCTCAACTCACCTCTCGCAATATGAGTT
GATTTT
Found at i:112001619 original size:155 final size:156
Alignment explanation
Indices: 112001395--112001747 Score: 450
Period size: 155 Copynumber: 2.2 Consensus size: 156
112001385 AAGCCAAGGC
112001395 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAGAAATTGAAAACACCTCAGCATG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATA-AAATTGAAAACACCTCAGCATG
* * *
112001460 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-A-AAAACATAAATTG-AGCAGAA
65 TGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGAA
* * *
112001521 ATTGAAAATACCTCAACGGGTCTTGAGGT
130 ATGGAAAACACCTC-A-GCGTCTTGAGGT
** * *
112001550 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-ATGAT-AAATTGAAAATACCTCAATGTGA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTC-A-G-CA
*
112001613 CT-TGAGGTTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATTAAAACAGAAATTGAAAA
63 -TGTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAA-TAAAACAGAAATTG-AAA
*
112001677 TAGAAATGGAAAACACCTCAGCGTCTTGAGGT
125 CAGAAATGGAAAACACCTCAGCGTCTTGAGGT
*
112001709 TCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAA
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAA
112001748 CACATAAATT
Statistics
Matches: 172, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
152 15 0.09
153 1 0.01
154 4 0.02
155 68 0.40
156 7 0.04
157 1 0.01
159 50 0.29
160 8 0.05
161 18 0.10
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (156 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAATAAAATTGAAAACACCTCAGCATGT
GAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGAATAAAACAGAAATTGAAACAGAAA
TGGAAAACACCTCAGCGTCTTGAGGT
Found at i:112001895 original size:75 final size:73
Alignment explanation
Indices: 112001806--112002069 Score: 354
Period size: 76 Copynumber: 3.6 Consensus size: 73
112001796 CGACGTGTGG
*
112001806 CCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATAC
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTTTAAAAA-CAAAAATTGAAAATAC
112001871 CTCAGCGTGT
64 CTCAGCGTGT
* *
112001881 CCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTGATAAAA-ATAGAATTTGAAAAT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT-A-AAAACA-A-AAATTGAAAAT
*
112001945 ATCTCAGCGTGT
62 ACCTCAGCGTGT
* * * *
112001957 CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAATACCT
112002022 CAGC--GT
66 CAGCGTGT
** *
112002028 CTTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTT
1 CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
112002070 TTGAAACATA
Statistics
Matches: 170, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
71 41 0.24
73 16 0.09
74 9 0.05
75 40 0.24
76 64 0.38
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (73 bp):
CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAAAACAAAAATTGAAAATACCT
CAGCGTGT
Found at i:112002197 original size:72 final size:73
Alignment explanation
Indices: 112002079--112002220 Score: 232
Period size: 72 Copynumber: 2.0 Consensus size: 73
112002069 TTTGAAACAT
* * *
112002079 AAATTAAAAAAACGAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
112002144 ATGAGTTG
66 ATGAGTTG
* *
112002152 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTTGCAAT
1 AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
112002216 ATGAG
66 ATGAG
112002221 CTGATTTTGA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
72 59 0.92
73 5 0.08
ACGTcount: A:0.39, C:0.24, G:0.15, T:0.22
Consensus pattern (73 bp):
AAATTAAAAAAACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTCGCAAT
ATGAGTTG
Found at i:112002247 original size:160 final size:157
Alignment explanation
Indices: 112001813--112002234 Score: 492
Period size: 160 Copynumber: 2.7 Consensus size: 157
112001803 TGGCCCGAGA
** *
112001813 CTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTAAAAAGCAAAAATTGAAAATACCTCAGCG
1 CTCAACTCACCTCTCGCAATATGAGTTGA-TAATTGAAAAA-CAAAAATTGAAAATACCTCAGC-
* * * *
112001878 TGTCCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT------T-GA-TAAAAATA-G
63 -GTCCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAATAAATTAAAAAAACG
* *
112001934 -AATTTGAAAATATCTCAGCGTGTCCTGAGG
127 AAAATTGAAAATACCTCAGCGTGTCCTGAGG
** * *
112001964 CTCAACTCACCTCTCGCAATATGAGTTGATTTTTGACAAACAAAAATTGAAATTACCTCAGCGTC
1 CTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTC
** * * *
112002029 TTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTTGAAACATAAATTAAAAAAACGA
66 CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGA---TTTTTGAAAAATAAATTAAAAAAACGA
112002094 AAATTGAAAATACCTCAGCGTGTCCTGAGG
128 AAATTGAAAATACCTCAGCGTGTCCTGAGG
112002124 CTCAACTCACCTCTCGCAATATGAGTTGA-AATT-AAAACACAAAAATTGAAAATACCTCAGCGT
1 CTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGT
*
112002187 GCCCCGAGGCTCAACTCACCTCTTGCAATATGAGCTGA-TTTTGAAAAA
65 --CCCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAA
112002235 GTAGAAATTA
Statistics
Matches: 233, Mismatches: 22, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
147 34 0.15
149 21 0.09
150 13 0.06
151 29 0.12
156 1 0.00
157 10 0.04
158 10 0.04
159 27 0.12
160 57 0.24
161 31 0.13
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.28
Consensus pattern (157 bp):
CTCAACTCACCTCTCGCAATATGAGTTGATAATTGAAAAACAAAAATTGAAAATACCTCAGCGTC
CCGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTGAAAAATAAATTAAAAAAACGAAAA
TTGAAAATACCTCAGCGTGTCCTGAGG
Done.