Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 207 of 292
Found at i:61426340 original size:16 final size:17
Alignment explanation
Indices: 61426302--61426333 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61426292 ACAATAAATC
61426302 AAAGATTATACAAGAAA
1 AAAGATTATACAAGAAA
61426319 AAAGATTATA-AAGAA
1 AAAGATTATACAAGAA
61426334 GATAGATGAA
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:0.66, C:0.03, G:0.12, T:0.19
Consensus pattern (17 bp):
AAAGATTATACAAGAAA
Found at i:61429274 original size:44 final size:44
Alignment explanation
Indices: 61429211--61429297 Score: 156
Period size: 44 Copynumber: 2.0 Consensus size: 44
61429201 GTAGGTCAAA
*
61429211 TAATATTAAAATAACCTACACTAATCAGAGTTTAAGTGGGAAAC
1 TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAAC
*
61429255 TAATATTAAAATAATCTACACTAATCAGAGCTTAAGTGGGAAA
1 TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAA
61429298 TTAAAAACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.46, C:0.13, G:0.14, T:0.28
Consensus pattern (44 bp):
TAATATTAAAATAACCTACACTAATCAGAGCTTAAGTGGGAAAC
Found at i:61432444 original size:131 final size:132
Alignment explanation
Indices: 61432273--61432621 Score: 343
Period size: 131 Copynumber: 2.7 Consensus size: 132
61432263 GTAAAACCGA
* * * * * * *
61432273 AACCCAGCAC-AGTAGGGCACGATTTCTCGAATTTCTAAACAGT-GAGCATT-GCTTTATTTT-T
1 AACCCAGCACGA-TAGGGCACGATTCCCCGAATTGCCAAACA-TCGAGCATTACCTTCATTTTAA
* * * *
61432334 AGAATTTTTA-AGAAACATGAGTGAAATTCTAAAGGGGATATTAGATTATTTTAAACCAAC-AGG
64 AGAATTTTTAGA-AAACATGAATGAAATTCCAAA-GGGACATTAGATTATTTTAAACAAACGA-G
61432397 AAATCGC
126 AAATCGC
* * *
61432404 AACCCAGCACGATAGGGCGCGATTCCCCGAATTGCCAAACATCGAGTATTACCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGCATTACCTTCATTTTAAAG
* * * * * *
61432469 AGTTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTCGATTATTTTGAGCAAACGAGAATTT
66 AATTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTAGATTATTTTAAACAAACGAGAAATC
61432534 GC
131 GC
* * * * * ** *
61432536 AA-CCAGCACGTTAGGGCACGATTCCGCGAATTGCCAAATACCGAACATCGCCTTCATTTCAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGCATTACCTTCATTTTAAAG
*
61432600 GATTTTTAGAAAACATGAATGA
66 AATTTTTAGAAAACATGAATGA
61432622 TTATAAAACT
Statistics
Matches: 179, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
130 1 0.01
131 111 0.62
132 37 0.21
133 29 0.16
134 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (132 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTGCCAAACATCGAGCATTACCTTCATTTTAAAG
AATTTTTAGAAAACATGAATGAAATTCCAAAGGGACATTAGATTATTTTAAACAAACGAGAAATC
GC
Found at i:61442196 original size:15 final size:15
Alignment explanation
Indices: 61442173--61442202 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61442163 TCTCATCACC
*
61442173 AAAACTAAACAAAAG
1 AAAAATAAACAAAAG
61442188 AAAAATAAACAAAAG
1 AAAAATAAACAAAAG
61442203 CTTTGTAATA
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:0.77, C:0.10, G:0.07, T:0.07
Consensus pattern (15 bp):
AAAAATAAACAAAAG
Found at i:61447295 original size:21 final size:20
Alignment explanation
Indices: 61447258--61447296 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
61447248 GCTAAAACTA
*
61447258 AACCCCAAAACCCAAATAAG
1 AACCCCAAAACACAAATAAG
*
61447278 AACCCTCAAAACATAAATA
1 AACCC-CAAAACACAAATA
61447297 CAAATTTCTC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.56, C:0.31, G:0.03, T:0.10
Consensus pattern (20 bp):
AACCCCAAAACACAAATAAG
Found at i:61448417 original size:25 final size:25
Alignment explanation
Indices: 61448389--61448437 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
61448379 TCAAGCCTAT
*
61448389 TTTGATTTGGATCGTAGAGAGCAAC
1 TTTGATTTGGATCATAGAGAGCAAC
61448414 TTTGATTTGGATCATAGAGAGCAA
1 TTTGATTTGGATCATAGAGAGCAA
61448438 TCTAACCTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (25 bp):
TTTGATTTGGATCATAGAGAGCAAC
Found at i:61449522 original size:26 final size:25
Alignment explanation
Indices: 61449491--61449791 Score: 139
Period size: 26 Copynumber: 12.3 Consensus size: 25
61449481 AAAGTACAAC
*
61449491 ATAAAAAGTTTAAAATAAATAATAT
1 ATAAAAAATTTAAAATAAATAATAT
*
61449516 ATAAAAAGGTTTAAAATAAATAATAT
1 ATAAAAA-ATTTAAAATAAATAATAT
** * * *
61449542 ATGAAATGATTCAGAATAAACAATAT
1 AT-AAAAAATTTAAAATAAATAATAT
*
61449568 AT---AAATTTAAAAT-AA-AGTAT
1 ATAAAAAATTTAAAATAAATAATAT
** * * *
61449588 A-AATCAATTTGAAATAAATAGTTT
1 ATAAAAAATTTAAAATAAATAATAT
* * *
61449612 ATAAAGCAATTTAAAGTTAATAATAT
1 ATAAA-AAATTTAAAATAAATAATAT
**
61449638 ATAAAATAATTTAAAAT-AATAATGC
1 ATAAAA-AATTTAAAATAAATAATAT
*
61449663 A-AAACAAA-TTAAAATAAATAATGT
1 ATAAA-AAATTTAAAATAAATAATAT
* * **
61449687 GTTAAAACAATTT-AAACAAATACCAT
1 -ATAAAA-AATTTAAAATAAATAATAT
* *
61449713 ATGAAAAACTTAAAATAAATAATA-
1 ATAAAAAATTTAAAATAAATAATAT
* *
61449737 AT-AAAACTGTTCAAAATAAAT-A-CT
1 ATAAAAAAT-TT-AAAATAAATAATAT
* * *
61449761 ATGAAAGATTTATAATAAATAA-A-
1 ATAAAAAATTTAAAATAAATAATAT
61449784 ATAAAAAA
1 ATAAAAAA
61449792 GAATACAATA
Statistics
Matches: 209, Mismatches: 45, Indels: 46
0.70 0.15 0.15
Matches are distributed among these distances:
20 5 0.02
21 2 0.01
22 16 0.08
23 27 0.13
24 31 0.15
25 44 0.21
26 79 0.38
27 5 0.02
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (25 bp):
ATAAAAAATTTAAAATAAATAATAT
Found at i:61450066 original size:11 final size:11
Alignment explanation
Indices: 61450052--61450091 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
61450042 TGTTTTCTCC
*
61450052 CTATTTTGCTA
1 CTATTTTACTA
61450063 CTATTTTACTA
1 CTATTTTACTA
* *
61450074 TTATGTTACTA
1 CTATTTTACTA
61450085 CTATTTT
1 CTATTTT
61450092 GCTGTTATTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.23, C:0.15, G:0.05, T:0.57
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:61452035 original size:44 final size:44
Alignment explanation
Indices: 61451976--61452414 Score: 277
Period size: 44 Copynumber: 9.6 Consensus size: 44
61451966 AGCTTCAATA
* *
61451976 TGCTCCATTGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTCAACC
* * * **
61452020 TGCTCCACTGTAACTTTAGTGAGATAAGGTTTGTGATTTGTAGCTTCAATG
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-A-----A-CTTCAACC
* * * * ** **
61452071 TACTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-TAACTTCAACC
** * * *
61452116 TGCTCCACTATAACTTCAAGGAGATAAGATTTGTAACTTCGACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTCAACC
* * * **
61452160 TGCCCCACTGCAACTTAAGGG-GATAAGGTTCGTGGCTTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTCAACC
* *
61452203 TGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGATTTGTAGCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGT-A-----A-CTTCAACC
* * * * * **
61452254 TACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTCAGTC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTT-TGTAACTTCAACC
* * * ** *
61452299 TGCTCCATTGCAACTTCAAGGAGATGAGACTTGTAAATTCAACC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTCAACC
* * *** * *
61452343 TGCTCCACTGCAACTTCAGGAAGATAAGGTTAGGGGCTTCGATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTCAACC
* * *
61452387 TGCTCTACTGCAACTTTAAGGAGATAAG
1 TGCTCCACTGCAACTTCAGGGAGATAAG
61452415 ATTCACCATG
Statistics
Matches: 299, Mismatches: 79, Indels: 34
0.73 0.19 0.08
Matches are distributed among these distances:
43 35 0.12
44 125 0.42
45 65 0.22
50 1 0.00
51 70 0.23
52 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTAACTTCAACC
Found at i:61452174 original size:89 final size:89
Alignment explanation
Indices: 61452054--61452370 Score: 314
Period size: 89 Copynumber: 3.5 Consensus size: 89
61452044 TAAGGTTTGT
* ** * * *
61452054 GATTTGTAGCTTCAATGTACTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTTTCAGTCTGC
1 GATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGC
*
61452119 TCCACTATAACTTCAAGGAGATAA
66 TCCACTACAACTTCAAGGAGATAA
* * * * ** **
61452143 GATTTGTAACTTCGACCTGCCCCACTGCAACTTAAGGG-GATAAGGTTCG-TGGCTTCAACCTGC
1 GATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGC
*
61452206 TCCACTACAACTTCAGGGAGATAA
66 TCCACTACAACTTCAAGGAGATAA
* * * * *
61452230 GGTTTGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTC
1 -------GATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTC
* * *
61452295 AGTCTGCTCCATTGCAACTTCAAGGAGATGA
59 AGTCTGCTCCACTACAACTTCAAGGAGATAA
* * *
61452326 GACTTGTAAATTCAACCTGCTCCACTGCAACTTCAGGAAGATAAG
1 GATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
61452371 GTTAGGGGCT
Statistics
Matches: 180, Mismatches: 39, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
87 31 0.17
88 10 0.06
89 69 0.38
94 31 0.17
95 9 0.05
96 30 0.17
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (89 bp):
GATTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTCGCTATCTTCAGTCTGC
TCCACTACAACTTCAAGGAGATAA
Found at i:61452316 original size:183 final size:182
Alignment explanation
Indices: 61451984--61452414 Score: 583
Period size: 183 Copynumber: 2.3 Consensus size: 182
61451974 TATGCTCCAT
** * *
61451984 TGCAACTTCAGGGAGATAAGGCTTGTAACTTCAACCTGCTCCACTGTAACTTTAGTGAGATAAGG
1 TGCAACTTCAGGG-GATAAGG-TTGTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGG
* * * *
61452049 TTTGTGATTTGTAGCTTCAATGTACTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTTTCAG
64 TTTGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAG
* * * *
61452114 TCTGCTCCACTATAACTTCAAGGAGATAAGATTTGTAACTTCGACCTGCCCCAC
129 TCTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTGCCCCAC
* * *
61452168 TGCAACTTAAGGGGATAAGGTTCGTGGCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGT
1 TGCAACTTCAGGGGATAAGGTT-GTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGT
*
61452233 TTGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTCAGT
65 TTGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGT
* * * *
61452298 CTGCTCCATTGCAACTTCAAGGAGATGAGACTTGTAAATTCAACCTGCTCCAC
130 CTGCTCCACTACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTGCCCCAC
* * * * * *
61452351 TGCAACTTCAGGAAGATAAGGTTAGGGGCTTCGATCTGCTCTACTGCAACTTTAAGGAGATAAG
1 TGCAACTTCAGG-GGATAAGGTT-GTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAG
61452415 ATTCACCATG
Statistics
Matches: 215, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
182 2 0.01
183 159 0.74
184 54 0.25
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (182 bp):
TGCAACTTCAGGGGATAAGGTTGTGGCTTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGGTT
TGTGATTTGTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTC
TGCTCCACTACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTGCCCCAC
Found at i:61452449 original size:183 final size:183
Alignment explanation
Indices: 61452059--61452454 Score: 438
Period size: 183 Copynumber: 2.2 Consensus size: 183
61452049 TTTGTGATTT
* * * *
61452059 GTAGCTTCAAT-GTACTCCACTGCAACTTTAGGGAGATAAGATTCGCTATTTTCAGTCTGCTCCA
1 GTAGATTCAATCG-ACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTCTGCTCCA
* * * * *
61452123 CTATAACTTCAAGGAGATAAGATTTGTAACTTCGACCTGCCCCACTGCAACTTAAGGGGATAAGG
65 CTACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTGCCCCACTGCAACTTAAGGAGATAAGG
* * * * **** *
61452188 TTCGTGGCTTCAACCTGCTCCACTACAACTTCAGGGAGATAAGGTTTGTGATTT
130 TTAGGGGCTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTG
* * * *
61452242 GTAGCTTCAATCTACTCCACTGCAACTTCAGAGAGATAAGATTCTCTATCTTCAGTCTGCTCCAT
1 GTAGATTCAATCGACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTCTGCTCCAC
* * * *
61452307 TGCAACTTCAAGGAGATGAGACTTGTAAATTCAACCTGCTCCACTGCAACTTCAGGAAGATAAGG
66 TACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTGCCCCACTGCAACTTAAGG-AGATAAGG
* * * * *
61452372 TTAGGGGCTTCGATCTGCTCTACTGCAACTTTAAGGAGATAAGATTCACCA-TG
130 TTAGGGGCTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTG
** *
61452425 GTAGATTTGATCCGAC-CTACTGCAACTTCA
1 GTAGATTCAAT-CGACTCCACTGCAACTTCA
61452455 AAGGTACAGG
Statistics
Matches: 176, Mismatches: 34, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
183 128 0.73
184 48 0.27
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (183 bp):
GTAGATTCAATCGACTCCACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAGTCTGCTCCAC
TACAACTTCAAGGAGATAAGACTTGTAAATTCAACCTGCCCCACTGCAACTTAAGGAGATAAGGT
TAGGGGCTTCAACCTGCTCCACTACAACTTCAAGGAGATAAGATTCACCATTG
Found at i:61453255 original size:88 final size:88
Alignment explanation
Indices: 61452629--61453220 Score: 853
Period size: 88 Copynumber: 6.7 Consensus size: 88
61452619 TTTCATTGTA
* * * *
61452629 ATTTCAGGGAGAAGAGATTTGTAGTTTCGATCTACTCC-CTAGAACTTCAAGGAGATAAGAATTA
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
*
61452693 TGGCTTCGAGCCGCTCCAATATC
66 TGGCTTCGAGCCGCTCCAATACC
* * *
61452716 ATTTCAGGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTGGAACTTCAAAGAGATAAGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* *
61452781 TGGCTTCGAGCCACTCCAATCCC
66 TGGCTTCGAGCCGCTCCAATACC
* * * *
61452804 ATTTCAAGGAGAAGAGATTTGTAGCTTCAATCTACTCCGCTAGAACTTCAAGGAGATACGAATTA
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
*
61452869 TGGCTTCGAGCCGCTCCAATGCC
66 TGGCTTCGAGCCGCTCCAATACC
* * * *
61452892 ATTTCAGGGAGAAGAGATTTATAGCTTCGATCTACTCCGCTGGAACTTCAAGAAGATATGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
*
61452957 TGGCTTCGAGCCGCTCCAATTCC
66 TGGCTTCGAGCCGCTCCAATACC
* * *
61452980 ATTTCAAGAAGAAGAGATTTGTAGTTTCGATCTACTCCGCTGGAACTTCAAGGAGATATGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* *
61453045 TGGCTTCGAGCTGCTCCAATTCC
66 TGGCTTCGAGCCGCTCCAATACC
* * * *
61453068 ATTTCAAGGAGAAAAGATTTGTAGTTTCGATCTACTCCGCTGGAACTTTAAGGAGATACGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
* **
61453133 TGGCTTCAAGCCGCTCCAATTTC
66 TGGCTTCGAGCCGCTCCAATACC
* ** *
61453156 ATTTCAGGGAGAAGAGATTTGTAGCTTCGATCTACTCCATTAGAACTTCAAGGAGATAAGAATTG
1 ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
61453221 ATGATTTCAA
Statistics
Matches: 460, Mismatches: 44, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
87 36 0.08
88 424 0.92
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (88 bp):
ATTTCAAGGAGAAGAGATTTGTAGCTTCGATCTACTCCGCTGGAACTTCAAGGAGATAAGAATTG
TGGCTTCGAGCCGCTCCAATACC
Found at i:61453371 original size:130 final size:130
Alignment explanation
Indices: 61453226--61454033 Score: 1121
Period size: 130 Copynumber: 6.2 Consensus size: 130
61453216 AATTGATGAT
* * * * * *
61453226 TTCAACCTGCTCCACTACTGCTTAAGGAGATAGGATGGTGACTTAAACCTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* ** * * * **
61453291 AGGGAGACAAGATTTGTTATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATC
66 AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
*
61453356 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATTTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * *
61453421 AGGGAGATAAGATTCGTTGTCTACGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
66 AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
61453486 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATTTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * *
61453551 AGGGAGATAAGATTCGTTGTCTACGATCTGCTTCACTACTATTTAGGGAGATAAGATCTGTAATC
66 AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
61453616 TTCAGCCTATTCCACTACTGCTTAGGGAGATAGGATGGTGGCTTAAATCTGCTCCACTACTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * * * * *
61453681 AGGGAGATAATATTCGTCATATTCGATCTGCTCCACTACTGCTTAGGGTGATAAGATATGTAATC
66 AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* * * * *
61453746 TTCAGCCCATTCCACTACTGCTTAGGGAGATAGGATTGTGGCTTAAATATGCTCCACTATTGCTT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * * ** * *
61453811 AAGGTGACAAAATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATT
66 AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
* *
61453876 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATTGTGGCTTAAATCTGCTCCACTACTGCAT
1 TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
* * ** * **
61453941 AGGGAAACAAGATTCGTCGTCTTCGATTTATTCTACTACTACTTAGGGAGATAAGATCTACAATC
66 AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
61454006 TTCAGCCTACTCCACTACTGCTTAGGGA
1 TTCAGCCTACTCCACTACTGCTTAGGGA
61454034 AACAAGATTC
Statistics
Matches: 613, Mismatches: 65, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 613 1.00
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (130 bp):
TTCAGCCTACTCCACTACTGCTTAGGGAGATAGGATAGTGGCTTAAATCTGCTCCACTACTGCTT
AGGGAGACAAGATTCGTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATC
Found at i:61453980 original size:44 final size:44
Alignment explanation
Indices: 61453277--61454057 Score: 242
Period size: 44 Copynumber: 18.0 Consensus size: 44
61453267 CTTAAACCTG
* * ** * *
61453277 CTCCACTACTGCTTAGGGAGACAAGATTTGTTATCTTTGATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * *
61453321 CTCCACTACTGCTTAGGGAGACAAGA-TC-TACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAAACAAGATTCGT-C-GTCTTCGA-TCTA
* * * * * ** * *
61453365 CTCCACTACTGCTTAGGGAGATAGGA-TAGT-GGCTTAAATTTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * * * *
61453407 CTCCACTACTGCTTAGGGAGATAAGATTCGTTGTCTACGATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * * ** *
61453451 CTCCACTACTACTTAGGGAGATAAGA-TCTGTAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAAACAAGATTC-GTCGTCTTCGA-TCTA
* * * * * * ** * *
61453495 TTCCACTACTGCTTAGGGAGATAGGA-TAGT-GGCTTAAATTTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * * * *
61453537 CTCCACTACTGCTTAGGGAGATAAGATTCGTTGTCTACGATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* ** * * ** *
61453581 CTTCACTACTATTTAGGGAGATAAGA-TCTGTAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAAACAAGATTC-GTCGTCTTCGA-TCTA
* * * * * * ** *
61453625 TTCCACTACTGCTTAGGGAGATAGGA-TGGT-GGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * * * * *
61453667 CTCCACTACTGCTTAGGGAGATAATATTCGTCATATTCGATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
** * ** * *
61453711 CTCCACTACTGCTTAGGGTGATAAGATAT-GTAATCTTC-AGCCCA
1 CTCCACTACTGCTTAGGGAAACAAGAT-TCGTCGTCTTCGA-TCTA
* * * * * ** * *
61453755 TTCCACTACTGCTTAGGGAGATAGGATT-GT-GGCTTAAATATG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * ** * ** *
61453797 CTCCACTATTGCTTAAGGTGACAAAATTCACCGTCTTCGATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * ** * *
61453841 CTCCACTACTGCTTAGGGAGATAAGA-TCTGTAATTTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAAACAAGATTC-GTCGTCTTCGA-TCTA
* * * * ** *
61453885 CTCCACTACTGCTTAGGGAGATAGGATT-GT-GGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* *
61453927 CTCCACTACTGCATAGGGAAACAAGATTCGTCGTCTTCGATTTA
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
* * * * * * *
61453971 TTCTACTACTACTTAGGGAGATAAGA-TC-TACAATCTTC-AGCCTA
1 CTCCACTACTGCTTAGGGAAACAAGATTCGT-C-GTCTTCGA-TCTA
*
61454015 CTCCACTACTGCTTAGGGAAACAAGATTCGTAGTCTTCGATCT
1 CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCT
61454058 GTTCCATTGC
Statistics
Matches: 555, Mismatches: 148, Indels: 68
0.72 0.19 0.09
Matches are distributed among these distances:
42 139 0.25
43 41 0.07
44 368 0.66
45 6 0.01
46 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAAACAAGATTCGTCGTCTTCGATCTA
Found at i:61456079 original size:21 final size:21
Alignment explanation
Indices: 61456054--61456095 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
61456044 TCTTGTCGGC
61456054 ACATGATCTTTCTCTTTTTTT
1 ACATGATCTTTCTCTTTTTTT
61456075 ACATGATCTTTCTCTTTTTTT
1 ACATGATCTTTCTCTTTTTTT
61456096 TTCTTCTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.19, G:0.05, T:0.62
Consensus pattern (21 bp):
ACATGATCTTTCTCTTTTTTT
Found at i:61459672 original size:25 final size:23
Alignment explanation
Indices: 61459642--61460024 Score: 177
Period size: 26 Copynumber: 15.7 Consensus size: 23
61459632 AGATGAATTA
61459642 AAATAATATAAAAATATTTAAAAGT
1 AAATAATATAAAAA-ATTTAAAA-T
**
61459667 AAATAATATAACAAGGTTTAAAAT
1 AAATAATATAA-AAAATTTAAAAT
* *
61459691 AAATGATGAATAAAACCATTTAAAAT
1 AAATAAT--ATAAAA-AATTTAAAAT
* *
61459717 ACA-AA-ATAAAAAGTTTAAAAT
1 AAATAATATAAAAAATTTAAAAT
61459738 AAATAATATATAAAAAGGTTTAAAAT
1 AAATAATATA-AAAAA--TTTAAAAT
** * *
61459764 AAATAATATATGAAACGGTTTAGAAC
1 AAATAATATA--AAA-AATTTAAAAT
* * *
61459790 AAAAAATATATAAATTTTAAAAT
1 AAATAATATAAAAAATTTAAAAT
** *
61459813 AAAGT-ATA-AATCAATTTGAAAT
1 AAA-TAATATAAAAAATTTAAAAT
* *
61459835 AAATAGTTTATAAAACAATTTAAAGT
1 AAATA--ATATAAAA-AATTTAAAAT
*
61459861 GAATAATATATAAAATAATTTAAAAT
1 AAAT-A-ATATAAAA-AATTTAAAAT
*
61459887 -AATAATACAATACAAA-TTAAAAT
1 AAATAATATAA-A-AAATTTAAAAT
*
61459910 AAATAATGTGATAAAACAATTTAAAAC
1 AAATAA--T-ATAAAA-AATTTAAAAT
* * *
61459937 AAATACTGTATGAAAAACTTAAAAT
1 AAATA--ATATAAAAAATTTAAAAT
*
61459962 AAATAATA-ATAAAACTGTTCAAAAT
1 AAATAATATA-AAAAAT-TT-AAAAT
* * * *
61459987 AAATACTATGAAAGATTTATAAT
1 AAATAATATAAAAAATTTAAAAT
*
61460010 AAATAAAATAAAAAA
1 AAATAATATAAAAAA
61460025 GAATACAAAA
Statistics
Matches: 269, Mismatches: 57, Indels: 66
0.69 0.15 0.17
Matches are distributed among these distances:
21 11 0.04
22 20 0.07
23 48 0.18
24 28 0.10
25 57 0.21
26 86 0.32
27 19 0.07
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (23 bp):
AAATAATATAAAAAATTTAAAAT
Found at i:61459751 original size:47 final size:50
Alignment explanation
Indices: 61459642--61459870 Score: 143
Period size: 47 Copynumber: 4.7 Consensus size: 50
61459632 AGATGAATTA
*
61459642 AAATAATATA-AAAATATTTAAAAGTAAATAATATAACAAGGTTTAAAAT
1 AAATAATATATAAAACATTTAAAAGTAAATAATATAACAAGGTTTAAAAT
*
61459691 AAATGATGA-ATAAAACCATTTAAAA-TACAA-AATA-AA-AA-GTTTAAAAT
1 AAATAAT-ATATAAAA-CATTTAAAAGTA-AATAATATAACAAGGTTTAAAAT
* *
61459738 AAATAATATATAAAA-AGGTTTAAAA-TAAATAATATATGA-AACGGTTTAGAAC
1 AAATAATATATAAAACA--TTTAAAAGTAAATAATATA--ACAA-GGTTTAAAAT
* * *
61459790 AAAAAATATAT-AAA-TTTTAAAA-TAAAGT-ATA-AATCAA--TTTGAAAT
1 AAATAATATATAAAACATTTAAAAGTAAA-TAATATAA-CAAGGTTTAAAAT
* * *
61459835 AAATAGTTTATAAAACAATTT-AAAGTGAATAATATA
1 AAATAATATATAAAAC-ATTTAAAAGTAAATAATATA
61459871 TAAAATAATT
Statistics
Matches: 143, Mismatches: 15, Indels: 44
0.71 0.07 0.22
Matches are distributed among these distances:
45 14 0.10
46 7 0.05
47 38 0.27
48 15 0.10
49 24 0.17
50 15 0.10
51 13 0.09
52 17 0.12
ACGTcount: A:0.59, C:0.03, G:0.07, T:0.30
Consensus pattern (50 bp):
AAATAATATATAAAACATTTAAAAGTAAATAATATAACAAGGTTTAAAAT
Found at i:61459796 original size:73 final size:71
Alignment explanation
Indices: 61459649--61459991 Score: 180
Period size: 73 Copynumber: 4.6 Consensus size: 71
61459639 TTAAAATAAT
* *
61459649 ATAAAAATATTTAAAAGTAAATAATATAACAAGGTTTAAAATAAATGATGAATAAAACCATTTAA
1 ATAAAAA-ATTTAAAA-TAAATAATATAAAAAGGTTTAAAATAAATAATGAATAAAACCATTTAA
* *
61459714 AATACAAA
64 AACAAAAA
* * **
61459722 ATAAAAAGTTTAAAATAAATAATATATAAAAAGGTTTAAAATAAATAAT-ATATGAAACGGTTTA
1 ATAAAAAATTTAAAATAAAT-A-ATATAAAAAGGTTTAAAATAAATAATGA-ATAAAACCATTTA
*
61459786 GAACAAAAA
63 AAACAAAAA
* * * * ** *
61459795 ATATATAAATTTTAAAATAAAGT-ATA-AATCAA--TTTGAAATAAATAGTTTATAAAACAATTT
1 ATA-A-AAAATTTAAAATAAA-TAATATAA-AAAGGTTTAAAATAAATAATGAATAAAACCATTT
**
61459856 AAAGTGAATAATA
62 AAA-ACAA-AA-A
* * * *
61459869 TATAAAATAATTTAAAAT-AATAATACAATACAA--ATTAAAATAAATAATGTGATAAAACAATT
1 -ATAAAA-AATTTAAAATAAATAATATAA-A-AAGGTTTAAAATAAATAATG-AATAAAACCATT
*
61459931 TAAAACAAATACTGT
61 TAAAACAAA-A---A
* * ** *
61459946 ATGAAAAACTTAAAATAAATAATAATAAAACTGTTCAAAATAAATA
1 ATAAAAAATTTAAAATAAATAAT-ATAAAAAGGTTTAAAATAAATA
61459992 CTATGAAAGA
Statistics
Matches: 209, Mismatches: 37, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
71 29 0.14
72 14 0.07
73 64 0.31
74 16 0.08
75 44 0.21
76 28 0.13
77 14 0.07
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.29
Consensus pattern (71 bp):
ATAAAAAATTTAAAATAAATAATATAAAAAGGTTTAAAATAAATAATGAATAAAACCATTTAAAA
CAAAAA
Found at i:61459967 original size:76 final size:74
Alignment explanation
Indices: 61459757--61459970 Score: 181
Period size: 76 Copynumber: 2.9 Consensus size: 74
61459747 ATAAAAAGGT
* ** * * *
61459757 TTAAAATAAATAATAT-ATGAAACGGTTTAGAACAAAAAATATAT-AAAT--TTTAAAATAAAGT
1 TTAAAATAAATAAT-TGATAAAACAATTTAAAACAAATAATATATAAAATAACTTAAAATAAA-T
*
61459818 -ATAAATCAAT
64 AATAAATCAAA
* * * *** *
61459828 TTGAAATAAATAGTTTATAAAACAATTTAAAGTGAATAATATATAAAATAATTTAAAAT-AATAA
1 TTAAAATAAATAATTGATAAAACAATTTAAAACAAATAATATATAAAATAACTTAAAATAAATAA
61459892 TACAATACAAA
66 TA-AAT-CAAA
* * *
61459903 TTAAAATAAATAATGTGATAAAACAATTTAAAACAAATACTGTATGAAA-AACTTAAAATAAATA
1 TTAAAATAAATAAT-TGATAAAACAATTTAAAACAAATAATATATAAAATAACTTAAAATAAATA
61459967 ATAA
65 ATAA
61459971 TAAAACTGTT
Statistics
Matches: 113, Mismatches: 21, Indels: 14
0.76 0.14 0.09
Matches are distributed among these distances:
70 1 0.01
71 32 0.28
72 5 0.04
73 5 0.04
74 11 0.10
75 25 0.22
76 34 0.30
ACGTcount: A:0.59, C:0.05, G:0.06, T:0.30
Consensus pattern (74 bp):
TTAAAATAAATAATTGATAAAACAATTTAAAACAAATAATATATAAAATAACTTAAAATAAATAA
TAAATCAAA
Found at i:61460034 original size:12 final size:12
Alignment explanation
Indices: 61460019--61460044 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61460009 TAAATAAAAT
61460019 AAAAAAGAATAC
1 AAAAAAGAATAC
61460031 AAAAAAGAATAC
1 AAAAAAGAATAC
61460043 AA
1 AA
61460045 TATAATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.08, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAGAATAC
Found at i:61462250 original size:35 final size:35
Alignment explanation
Indices: 61462211--61462279 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
61462201 GACAATGTTT
*
61462211 GTTATGACCATTTAAAGAATTCAAACA-TATTTTTA
1 GTTATGACCATCTAAAGAATTCAAA-AGTATTTTTA
61462246 GTTATGACCATCTAAAGAATTCAAAAGTATTTTT
1 GTTATGACCATCTAAAGAATTCAAAAGTATTTTT
61462280 CTTTACAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.39, C:0.12, G:0.10, T:0.39
Consensus pattern (35 bp):
GTTATGACCATCTAAAGAATTCAAAAGTATTTTTA
Found at i:61463840 original size:27 final size:28
Alignment explanation
Indices: 61463802--61463862 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
61463792 TCTGTATTTT
*
61463802 TTTTTATATTT-GAATTTAGTATCTCTA
1 TTTTTATATTTAGAATTTAATATCTCTA
* *
61463829 TTTTTATTTTTGAGAATTTAATTTCTCTA
1 TTTTTATATTT-AGAATTTAATATCTCTA
61463858 TTTTT
1 TTTTT
61463863 TAAGTTTCAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 10 0.34
29 19 0.66
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.64
Consensus pattern (28 bp):
TTTTTATATTTAGAATTTAATATCTCTA
Found at i:61465555 original size:28 final size:28
Alignment explanation
Indices: 61465514--61465576 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
61465504 GTCATTATCA
*
61465514 ACCCCATAAGTTATAAAACTCTTT-CTAT
1 ACCCCATAAATTATAAAACT-TTTCCTAT
*
61465542 ACCCCATAAATTATAAGACTTTTCCTAT
1 ACCCCATAAATTATAAAACTTTTCCTAT
61465570 ACCCCAT
1 ACCCCAT
61465577 TAATATGGGA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
27 3 0.09
28 29 0.91
ACGTcount: A:0.35, C:0.29, G:0.03, T:0.33
Consensus pattern (28 bp):
ACCCCATAAATTATAAAACTTTTCCTAT
Found at i:61466800 original size:2 final size:2
Alignment explanation
Indices: 61466793--61466831 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
61466783 ATTAATAATC
61466793 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61466832 TTAAGTATTT
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:61468921 original size:6 final size:6
Alignment explanation
Indices: 61468910--61468945 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
61468900 CATATATGAA
*
61468910 AAATAT AAATAT AAATAT AAATAC AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
61468946 CACATAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:61471204 original size:25 final size:25
Alignment explanation
Indices: 61471155--61471204 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
61471145 TCATGTGTCT
*
61471155 CATTTTCATGTTTCAATTCACTATCC
1 CATTTTCA-GTTTCAATTCAATATCC
61471181 CATTTTCA-TTTCACATTCAATATC
1 CATTTTCAGTTTCA-ATTCAATATC
61471205 ATCCAATATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 5 0.23
25 9 0.41
26 8 0.36
ACGTcount: A:0.26, C:0.26, G:0.02, T:0.46
Consensus pattern (25 bp):
CATTTTCAGTTTCAATTCAATATCC
Found at i:61472313 original size:21 final size:22
Alignment explanation
Indices: 61472279--61472323 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
61472269 TGGCCGTGAG
61472279 TTCTTCTTCCTTTCTTACCCTTT
1 TTCTTCTTCCTTTCTT-CCCTTT
*
61472302 TTCTT-TT-CTTTCTTTCCTTT
1 TTCTTCTTCCTTTCTTCCCTTT
61472322 TT
1 TT
61472324 AATTTCGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 7 0.33
21 7 0.33
22 2 0.10
23 5 0.24
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (22 bp):
TTCTTCTTCCTTTCTTCCCTTT
Found at i:61476237 original size:13 final size:13
Alignment explanation
Indices: 61476219--61476282 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
61476209 AGTTTAACAT
61476219 TGTTTTTGAAAAA
1 TGTTTTTGAAAAA
61476232 TGTTTTT-AAAAA
1 TGTTTTTGAAAAA
* * *
61476244 GTGTTGTGGAAAAG
1 -TGTTTTTGAAAAA
*
61476258 TGTTTTTGAGAAA
1 TGTTTTTGAAAAA
**
61476271 TACTTTTGAAAA
1 TGTTTTTGAAAA
61476283 GTTTAGTTTA
Statistics
Matches: 39, Mismatches: 10, Indels: 4
0.74 0.19 0.08
Matches are distributed among these distances:
12 5 0.13
13 30 0.77
14 4 0.10
ACGTcount: A:0.36, C:0.02, G:0.20, T:0.42
Consensus pattern (13 bp):
TGTTTTTGAAAAA
Found at i:61478888 original size:13 final size:13
Alignment explanation
Indices: 61478855--61478882 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
61478845 TAACAAAAAG
61478855 ATAATTTATTTTA
1 ATAATTTATTTTA
61478868 ATAATTTATTTTA
1 ATAATTTATTTTA
61478881 AT
1 AT
61478883 TTTTTAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATAATTTATTTTA
Found at i:61491692 original size:97 final size:97
Alignment explanation
Indices: 61491573--61491778 Score: 403
Period size: 97 Copynumber: 2.1 Consensus size: 97
61491563 AATCTAGTAC
61491573 ATTTGATATTTTTATTCTCTTTTCCCTGGTTTTATTTTATCTATTTGCTTTAGTAAATCTTGTTT
1 ATTTG-TATTTTTATTCTCTTTTCCCTGGTTTTATTTTATCTATTTGCTTTAGTAAATCTTGTTT
61491638 CAAGCTTGTTGACATGATGGTTTCTTCCTTTTT
65 CAAGCTTGTTGACATGATGGTTTCTTCCTTTTT
61491671 ATTTGTATTTTTATTCTCTTTTCCCTGGTTTTATTTTATCTATTTGCTTTAGTAAATCTTGTTTC
1 ATTTGTATTTTTATTCTCTTTTCCCTGGTTTTATTTTATCTATTTGCTTTAGTAAATCTTGTTTC
61491736 AAGCTTGTTGACATGATGGTTTCTTCCTTTTT
66 AAGCTTGTTGACATGATGGTTTCTTCCTTTTT
61491768 ATTTGTATTTT
1 ATTTGTATTTT
61491779 CGTTTGTTTT
Statistics
Matches: 108, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 103 0.95
98 5 0.05
ACGTcount: A:0.16, C:0.14, G:0.12, T:0.58
Consensus pattern (97 bp):
ATTTGTATTTTTATTCTCTTTTCCCTGGTTTTATTTTATCTATTTGCTTTAGTAAATCTTGTTTC
AAGCTTGTTGACATGATGGTTTCTTCCTTTTT
Found at i:61494560 original size:20 final size:19
Alignment explanation
Indices: 61494527--61494573 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 19
61494517 TTTTAATTTA
61494527 TTTGGTTTTATTTATTGTT
1 TTTGGTTTTATTTATTGTT
61494546 TTTGGTTTCTATTTATTGTT
1 TTTGGTTT-TATTTATTGTT
61494566 TTT-GTTTT
1 TTTGGTTTT
61494574 TGTATGGGCC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 1 0.04
19 12 0.44
20 14 0.52
ACGTcount: A:0.09, C:0.02, G:0.15, T:0.74
Consensus pattern (19 bp):
TTTGGTTTTATTTATTGTT
Found at i:61495413 original size:11 final size:11
Alignment explanation
Indices: 61495397--61495431 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
61495387 ATTTAAACCT
61495397 AAAAATTA-ATA
1 AAAAATTAGA-A
61495408 AAAAATTAGAA
1 AAAAATTAGAA
61495419 AAAAATTAGAA
1 AAAAATTAGAA
61495430 AA
1 AA
61495432 CTATAAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 22 0.96
12 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (11 bp):
AAAAATTAGAA
Found at i:61495576 original size:18 final size:18
Alignment explanation
Indices: 61495469--61495567 Score: 56
Period size: 18 Copynumber: 5.3 Consensus size: 18
61495459 AGTATCTAGC
*
61495469 ATTATAAAATACTATTAATAT
1 ATTATAAAA-A-TATTAA-AA
*
61495490 ATTATAAAAATATGAAAA
1 ATTATAAAAATATTAAAA
* * *
61495508 ATCATTGAAATTATTAACAA
1 ATTA-TAAAAATATTAA-AA
* ** *
61495528 A-AATAGGAACATTAAAA
1 ATTATAAAAATATTAAAA
*
61495545 ATTATAAAAATATTAAAT
1 ATTATAAAAATATTAAAA
61495563 ATTAT
1 ATTAT
61495568 TAATATATTG
Statistics
Matches: 58, Mismatches: 17, Indels: 9
0.69 0.20 0.11
Matches are distributed among these distances:
17 3 0.05
18 27 0.47
19 15 0.26
20 4 0.07
21 9 0.16
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (18 bp):
ATTATAAAAATATTAAAA
Found at i:61498570 original size:19 final size:19
Alignment explanation
Indices: 61498515--61498570 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 19
61498505 ATTGGTGTAA
*
61498515 ATTT-AAATTTTTTCTATTT
1 ATTTAAAATCTTTT-TATTT
*
61498534 ATTTAAAATCATTTTATTT
1 ATTTAAAATCTTTTTATTT
*
61498553 ATTTCAAA-CTTTTGTATT
1 ATTTAAAATCTTTT-TATT
61498571 GAGTTATTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.13
19 20 0.65
20 7 0.23
ACGTcount: A:0.30, C:0.07, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTAAAATCTTTTTATTT
Found at i:61501585 original size:17 final size:17
Alignment explanation
Indices: 61501539--61501598 Score: 68
Period size: 16 Copynumber: 3.5 Consensus size: 17
61501529 TCACATCAAC
*
61501539 AAAAAATTTAAAAATTA
1 AAAAAATTCAAAAATTA
*
61501556 TACAAATATTCAAAAATTA
1 -A-AAAAATTCAAAAATTA
*
61501575 AAAAAATTC-AAAATTC
1 AAAAAATTCAAAAATTA
61501591 AAAAAATT
1 AAAAAATT
61501599 AGCATTTTTG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.38
17 7 0.19
18 2 0.05
19 14 0.38
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAAATTCAAAAATTA
Found at i:61502208 original size:199 final size:198
Alignment explanation
Indices: 61501869--61502232 Score: 665
Period size: 199 Copynumber: 1.8 Consensus size: 198
61501859 TCAAAAATTC
* *
61501869 CATCTGGACCTTAAGTTTTATGGTTTTCAATTAAGACAGGTTTTACGTAGCATTTAGTGTCTTTA
1 CATCTGGACCTTAAGTTTTATGGTTTTCAATTAAGACACGTTTTACGTAGCATTTAGTGCCTTTA
* *
61501934 AAGCTTATTAAGAGTTTAATTTGAAAGAAAATTTGCTGTAACTTTCATCTCCATTAATGCTACAT
66 AAGCTTATTAAGAGTTTAATTTGAAAGAAAATTTGCTGTAACTTTCATCTCCACTAATGCTAAAT
*
61501999 TAAGCTATCTATTGATATTGAAATCCGTAGCAATGAATGCAGCAAGTTTTCTTATATAGGAAAAA
131 TAAGCTATCTATTGATATTAAAATCCGTAGCAATGAATGCAGCAAGTTTTCTTATATAGGAAAAA
61502064 ATG
196 ATG
61502067 CATCTGGACCTTAAGTTTTTATGGTTTTCAATTAAGACACGTTTTACGTAGCATTTAGTGCCTTT
1 CATCTGGACCTTAAG-TTTTATGGTTTTCAATTAAGACACGTTTTACGTAGCATTTAGTGCCTTT
61502132 AAAGCTTATTAAGAGTTTAATTTGAAAGAAAATTTGCTGTAACTTTCATCTCCACTAATGCTAAA
65 AAAGCTTATTAAGAGTTTAATTTGAAAGAAAATTTGCTGTAACTTTCATCTCCACTAATGCTAAA
*
61502197 TTAAGCTATCTATTGATATTAAAATGCGTAGCAATG
130 TTAAGCTATCTATTGATATTAAAATCCGTAGCAATG
61502233 TTTCACCAAA
Statistics
Matches: 159, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
198 15 0.09
199 144 0.91
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (198 bp):
CATCTGGACCTTAAGTTTTATGGTTTTCAATTAAGACACGTTTTACGTAGCATTTAGTGCCTTTA
AAGCTTATTAAGAGTTTAATTTGAAAGAAAATTTGCTGTAACTTTCATCTCCACTAATGCTAAAT
TAAGCTATCTATTGATATTAAAATCCGTAGCAATGAATGCAGCAAGTTTTCTTATATAGGAAAAA
ATG
Found at i:61502988 original size:18 final size:18
Alignment explanation
Indices: 61502965--61502999 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
61502955 TTATTTGTAA
61502965 TTAATTTTTTAAAAATAT
1 TTAATTTTTTAAAAATAT
*
61502983 TTAATTTTTTACAAATA
1 TTAATTTTTTAAAAATA
61503000 ATACGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (18 bp):
TTAATTTTTTAAAAATAT
Found at i:61503343 original size:31 final size:31
Alignment explanation
Indices: 61503298--61503381 Score: 84
Period size: 31 Copynumber: 2.7 Consensus size: 31
61503288 GATTTAATTT
* * *
61503298 AATTTTATACATGAACTTTGTTTTTATGTGC
1 AATTTGATACATGAACTTTGATTTAATGTGC
*
61503329 AATTTGATATATGAACTTTGATTTAATGT-C
1 AATTTGATACATGAACTTTGATTTAATGTGC
*
61503359 -ATTAT-ATACATGAAACTTGGATT
1 AATT-TGATACATG-AACTTTGATT
61503382 GCGGTTCATA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
29 9 0.20
30 11 0.24
31 25 0.56
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.46
Consensus pattern (31 bp):
AATTTGATACATGAACTTTGATTTAATGTGC
Found at i:61505743 original size:207 final size:207
Alignment explanation
Indices: 61505388--61505803 Score: 778
Period size: 207 Copynumber: 2.0 Consensus size: 207
61505378 ACCCGAGATC
* *
61505388 CGACCCAAGACCCCCAAGATCTGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTTCAGTCCTTT
1 CGACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTACAGTCCTTT
*
61505453 CACTTTTTGGATGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTT
66 CACTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTT
61505518 TTCTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTC
131 TTCTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTC
61505583 CCTATTTCTTTT
196 CCTATTTCTTTT
*
61505595 CGACCCAAGACCCCCAAGCTCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTACAGTCCTTT
1 CGACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTACAGTCCTTT
* *
61505660 CGCTTTTTGGACGTTTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTT
66 CACTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTT
61505725 TTCTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTC
131 TTCTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTC
61505790 CCTATTTCTTTT
196 CCTATTTCTTTT
61505802 CG
1 CG
61505804 CGCGCTTCAT
Statistics
Matches: 203, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
207 203 1.00
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.45
Consensus pattern (207 bp):
CGACCCAAGACCCCCAAGATCCGCGTGTTTTTGGACTAAGGGTCTATTTACCCTTACAGTCCTTT
CACTTTTTGGACGATTTACAATGTAGTTTCTTTTTCTTTTTAATTTTTACCCCTTAATTTTATTT
TTCTTTCATTTTGGTCCCTATGGAATGGCACGTTTAAGGAGTTCGGGATAATTTCATATTTAGTC
CCTATTTCTTTT
Found at i:61506104 original size:2 final size:2
Alignment explanation
Indices: 61506097--61506129 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
61506087 ATGTCATGTT
61506097 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 T
61506130 TTTTTTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:61507023 original size:18 final size:18
Alignment explanation
Indices: 61507000--61507036 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
61506990 ACTCAATATA
61507000 AGCCCTTTATAAATATCT
1 AGCCCTTTATAAATATCT
61507018 AGCCCTTTATAAATATCT
1 AGCCCTTTATAAATATCT
61507036 A
1 A
61507037 ACATTCGCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (18 bp):
AGCCCTTTATAAATATCT
Found at i:61509104 original size:27 final size:27
Alignment explanation
Indices: 61509056--61509214 Score: 157
Period size: 27 Copynumber: 5.9 Consensus size: 27
61509046 GCGAGGCTGC
* *
61509056 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
61509083 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
*
61509109 CAGATATATGTGGCAGAGCCACTAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* * *
61509136 TAGATAATTGTGGCATAGCCACCA-AGA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
* *
61509163 CAGATATATGTAGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
61509190 CAGATATTTGTGGCATAGCCACCAG
1 CAGATA-TTGTGGCAGAGCCACCAG
61509215 GACGCTTTCT
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
26 11 0.10
27 93 0.85
28 5 0.05
ACGTcount: A:0.35, C:0.20, G:0.24, T:0.21
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:61509156 original size:54 final size:55
Alignment explanation
Indices: 61509074--61509214 Score: 198
Period size: 54 Copynumber: 2.6 Consensus size: 55
61509064 GTGACGAAGT
* *
61509074 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAGACAGATATATGTAGCAGAGC
* * *
61509128 CACTAGATTAGATAATTGTGGCATAGCCACCA-AGACAGATATATGTAGTAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAGACAGATATATGTAGCAGAGC
*
61509182 CACCAGATCAGATATTTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
61509215 GACGCTTTCT
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
53 5 0.07
54 71 0.93
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (55 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAGACAGATATATGTAGCAGAGC
Found at i:61510866 original size:26 final size:26
Alignment explanation
Indices: 61510810--61510916 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
61510800 TGAAATGCCC
*
61510810 ATCATGGAACATTTACC-AAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
61510835 ATCATGGAACATTTACCTAGCCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
61510861 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
61510887 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61510913 ATCA
1 ATCA
61510917 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 17 0.23
26 57 0.77
ACGTcount: A:0.36, C:0.24, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61515119 original size:16 final size:16
Alignment explanation
Indices: 61515100--61515131 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
61515090 AATTTTTTAT
*
61515100 AAAATTTTTGTTTTTG
1 AAAATCTTTGTTTTTG
61515116 AAAATCTTTGTTTTTG
1 AAAATCTTTGTTTTTG
61515132 TAAACCCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.12, T:0.59
Consensus pattern (16 bp):
AAAATCTTTGTTTTTG
Found at i:61516136 original size:27 final size:27
Alignment explanation
Indices: 61516088--61516246 Score: 193
Period size: 27 Copynumber: 5.9 Consensus size: 27
61516078 GCGAGGCTGC
* *
61516088 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
61516115 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
61516141 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
61516168 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
61516195 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
61516222 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
61516247 GACGCTTCTC
Statistics
Matches: 117, Mismatches: 7, Indels: 16
0.84 0.05 0.11
Matches are distributed among these distances:
26 10 0.09
27 102 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:61516247 original size:54 final size:54
Alignment explanation
Indices: 61516106--61516249 Score: 254
Period size: 54 Copynumber: 2.7 Consensus size: 54
61516096 GTGACGAAGT
* *
61516106 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
61516160 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
61516214 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
61516250 GCTTCTCCAT
Statistics
Matches: 87, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
53 5 0.06
54 82 0.94
ACGTcount: A:0.34, C:0.24, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:61517891 original size:26 final size:26
Alignment explanation
Indices: 61517860--61517967 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61517850 TGAAATGCCC
*
61517860 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
61517886 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
61517912 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
61517938 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
61517964 ATCA
1 ATCA
61517968 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:61519031 original size:2 final size:2
Alignment explanation
Indices: 61519024--61519057 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
61519014 TCATTTCTTT
61519024 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
61519058 CTAATTAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:61522205 original size:26 final size:26
Alignment explanation
Indices: 61522168--61522251 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
61522158 TGATACAAAT
* *
61522168 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
61522194 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
61522220 TGATAATGGGTTAGGTAAATGTTTTA
1 TGATAATGGGTTAGGTAAATGTTTCA
61522246 TGATAA
1 TGATAA
61522252 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:61524281 original size:137 final size:137
Alignment explanation
Indices: 61524035--61524321 Score: 511
Period size: 137 Copynumber: 2.1 Consensus size: 137
61524025 GAGTAGTCTC
*
61524035 CCCAAACGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
*
61524100 TGTTATCTGAATAAGTGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
61524165 ACTGTTA
131 ACTGTTA
*
61524172 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
* *
61524237 TGTTATCTGAATAAGGGGTTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
61524302 ACTGTTA
131 ACTGTTA
**
61524309 CCTGAATGGGCTT
1 CCCAAATGGGCTT
61524322 AGGCCCAATA
Statistics
Matches: 143, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 143 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATAGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGCTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:61525712 original size:7 final size:7
Alignment explanation
Indices: 61525702--61525764 Score: 53
Period size: 7 Copynumber: 9.4 Consensus size: 7
61525692 ACTTTATGTT
61525702 TTATATA
1 TTATATA
61525709 -T-TATA
1 TTATATA
61525714 TTATATA
1 TTATATA
*
61525721 TAATATA
1 TTATATA
*
61525728 ATA-ATA
1 TTATATA
*
61525734 TAATATA
1 TTATATA
61525741 TTATATA
1 TTATATA
61525748 TTA-ATA
1 TTATATA
*
61525754 CTTAAATA
1 -TTATATA
61525762 TTA
1 TTA
61525765 AGTTAATATA
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 4 0.09
6 9 0.20
7 29 0.64
8 3 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (7 bp):
TTATATA
Found at i:61525739 original size:20 final size:20
Alignment explanation
Indices: 61525711--61525753 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61525701 TTTATATATT
*
61525711 ATATTATATATAATATAATA
1 ATATAATATATAATATAATA
* *
61525731 ATATAATATATTATATATTA
1 ATATAATATATAATATAATA
61525751 ATA
1 ATA
61525754 CTTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATATAATATATAATATAATA
Found at i:61525748 original size:34 final size:36
Alignment explanation
Indices: 61525703--61525797 Score: 97
Period size: 39 Copynumber: 2.6 Consensus size: 36
61525693 CTTTATGTTT
*
61525703 TATATATTATATTATATATAATA-TAA-TAATATAA
1 TATATAATATATTATATATAATATTAAGTAATATAA
*
61525737 TATATTATATATTA-ATACTTAAATATTAAGTTAATATAA
1 TATATAATATATTATATA--T-AATATTAAG-TAATATAA
*
61525776 TATATAATAATATTTTATATAA
1 TATATAAT-ATATTATATATAA
61525798 AAAATATCTT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
33 3 0.06
34 12 0.24
35 1 0.02
36 4 0.08
37 3 0.06
38 2 0.04
39 16 0.33
40 5 0.10
41 3 0.06
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (36 bp):
TATATAATATATTATATATAATATTAAGTAATATAA
Found at i:61527143 original size:3 final size:3
Alignment explanation
Indices: 61527130--61527176 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
61527120 CATTTCTTAT
*
61527130 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
61527177 TTCTCATGGC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:61533100 original size:29 final size:30
Alignment explanation
Indices: 61533067--61533145 Score: 99
Period size: 29 Copynumber: 2.6 Consensus size: 30
61533057 ATTATTTAAT
*
61533067 TAATAAATATCT-TTTAACTT-AATAATAAG
1 TAATAAATATCTATTT-ACTTAAATAAAAAG
61533096 TAATAAATATCTATTTACTTAAATAAAAAG
1 TAATAAATATCTATTTACTTAAATAAAAAG
*
61533126 TAATTAAATATTTATGTTAC
1 TAA-TAAATATCTAT-TTAC
61533146 AATTGTATAC
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
29 16 0.36
30 14 0.32
31 10 0.23
32 4 0.09
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (30 bp):
TAATAAATATCTATTTACTTAAATAAAAAG
Found at i:61534145 original size:31 final size:31
Alignment explanation
Indices: 61534110--61534176 Score: 134
Period size: 31 Copynumber: 2.2 Consensus size: 31
61534100 TTTTTTCAAG
61534110 TTCTTCATTTTCCATAATAGTTGTTTTAACA
1 TTCTTCATTTTCCATAATAGTTGTTTTAACA
61534141 TTCTTCATTTTCCATAATAGTTGTTTTAACA
1 TTCTTCATTTTCCATAATAGTTGTTTTAACA
61534172 TTCTT
1 TTCTT
61534177 TATGGTCTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.54
Consensus pattern (31 bp):
TTCTTCATTTTCCATAATAGTTGTTTTAACA
Found at i:61539812 original size:44 final size:44
Alignment explanation
Indices: 61539764--61539848 Score: 111
Period size: 44 Copynumber: 1.9 Consensus size: 44
61539754 TTGTTTAGGG
**
61539764 AGATAAGA-TCACAATCCTCAGTCTGCTTC-CTTGCTACCTCAGGA
1 AGATAAGACT-ACAATCCTCAACCTG-TTCTCTTGCTACCTCAGGA
*
61539808 AGATAAGACTACAATCTTCAACCTGTTCTCTTGCTACCTCA
1 AGATAAGACTACAATCCTCAACCTGTTCTCTTGCTACCTCA
61539849 AAGAGATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 3 0.08
44 32 0.89
45 1 0.03
ACGTcount: A:0.28, C:0.29, G:0.13, T:0.29
Consensus pattern (44 bp):
AGATAAGACTACAATCCTCAACCTGTTCTCTTGCTACCTCAGGA
Found at i:61539856 original size:44 final size:43
Alignment explanation
Indices: 61539763--61539857 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 43
61539753 ATTGTTTAGG
** *
61539763 GAGATAAGATCACAATCCTCAGTCTGCTTCCTTGCTACCTCAG
1 GAGATAAGATCACAATCCTCAACCTGCTTCCTTGCTACCTCAA
*
61539806 GAAGATAAGA-CTACAATCTTCAACCTG-TTCTCTTGCTACCTCAAA
1 G-AGATAAGATC-ACAATCCTCAACCTGCTTC-CTTGCTACCTC-AA
61539851 GAGATAA
1 GAGATAA
61539858 TGTTGGTGGC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
43 5 0.11
44 37 0.84
45 2 0.05
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (43 bp):
GAGATAAGATCACAATCCTCAACCTGCTTCCTTGCTACCTCAA
Found at i:61539966 original size:44 final size:44
Alignment explanation
Indices: 61539918--61540002 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
61539908 CCACCTTTGA
* *
61539918 TCTGC-TCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTTAG
1 TCTGCTTCC-CTACTACTTCAGGAAGATAAGA-CTACAATCTTTAG
* *
61539962 TCTGCTTCCTTATTACTTCAGGAAGATAAGACTACAATCTT
1 TCTGCTTCCCTACTACTTCAGGAAGATAAGACTACAATCTT
61540003 CAACCTGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 21 0.60
45 14 0.40
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (44 bp):
TCTGCTTCCCTACTACTTCAGGAAGATAAGACTACAATCTTTAG
Found at i:61540033 original size:177 final size:177
Alignment explanation
Indices: 61539621--61540128 Score: 694
Period size: 176 Copynumber: 2.9 Consensus size: 177
61539611 TGATCATTTG
* * * *
61539621 CTACCTCAAGAAGATAAGACTACAATCTTTAACCTGCTTTCTTGCTAGCTCAGAGAGATAAGGTT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTT
** * * * * * * *
61539686 GGTGGCTAAAATGGACTCCTCTGCTATCTTGGGAAGATAAGATTCGCTATCTTCGATTTGCTCCA
66 GGTGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTCGCCATCTTTGATCTGCTCCA
* * *
61539751 CTATTGTTTAGGGAGATAAGATC-ACAATCCTCAGTCTGCTTCCTTG
131 CTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCCTTA
* * *
61539797 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGTTCTCTTGCTACCTCAAAGAGATAATGTT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTT
* *
61539862 GGTGGCTAAAATCTACTCCCCTGCTACCTCGAAAAGATAAGATTCGCCACCTTTGATCTGCTCCA
66 GGTGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTCGCCATCTTTGATCTGCTCCA
* *
61539927 CTACTGCTTAGGGAGATAAGATCTACAATCTTTAGTCTGCTTCCTTA
131 CTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCCTTA
* * * *
61539974 TTACTTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAGGCT
1 CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTT
* * * * *
61540039 GGTGGCTAAAATCTGCTCCCCTACTACCTCGAGATGATAAGATTCACCATTTTTCGATCTGCTCC
66 GGTGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTCGCCATCTTT-GATCTGCTCC
* *
61540104 TCTACTACTTAGGGAGATAAGATCT
130 ACTACTGCTTAGGGAGATAAGATCT
61540129 GACTTCACCG
Statistics
Matches: 291, Mismatches: 39, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
176 133 0.46
177 125 0.43
178 33 0.11
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
CTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGTT
GGTGGCTAAAATCTACTCCCCTGCTACCTCGAGAAGATAAGATTCGCCATCTTTGATCTGCTCCA
CTACTGCTTAGGGAGATAAGATCTACAATCCTCAGTCTGCTTCCTTA
Found at i:61546861 original size:49 final size:49
Alignment explanation
Indices: 61546750--61546853 Score: 151
Period size: 48 Copynumber: 2.1 Consensus size: 49
61546740 CACGGGTAGT
* *
61546750 TCACACGCCCGTGTCTATTTAACAGATTGCAACACGGCCTAAGCCACAC
1 TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
61546799 -CACACGACCGTGTCTATTTAACAGACTCT-AAACACGGCCTAAGCCAC-C
1 TCACACGACCGTGTCTATTTAACAGA-T-TGAAACACGGCCTAAGCCACAC
61546847 TCACACG
1 TCACACG
61546854 GGCGTGTCCC
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
48 25 0.50
49 24 0.48
50 1 0.02
ACGTcount: A:0.30, C:0.36, G:0.15, T:0.19
Consensus pattern (49 bp):
TCACACGACCGTGTCTATTTAACAGATTGAAACACGGCCTAAGCCACAC
Found at i:61548877 original size:88 final size:86
Alignment explanation
Indices: 61548609--61549070 Score: 209
Period size: 88 Copynumber: 5.2 Consensus size: 86
61548599 TCTGATCATT
* *
61548609 TGCTACCTCAAGAAGATAAGACTACAATCTTCAACCTGCTTTCTTGCTAGCTCAGAGAGATAAGG
1 TGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTA-CTCAGAGAGATAA-G
*
61548674 TTGGTGGCTAAAATATACTCCCC
64 TTGGTGGCTAAAATCTACTCCCC
* ** * * * * * * *
61548697 TGCTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCTCCACTATTGCT--T-AGGGAGATA
1 TGCTACCTCAGGAAGATAAGACT-ACAATCTTCAACCTGCT---CTCTTGCTACTCAGAGAGATA
*** * * * * * *
61548759 AGATCACAAT-CCT-TAGTCTGCTTCCT
62 AG-T--TGGTGGCTAAAATCTACTCCCC
*
61548785 TGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAATG
1 TGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTA-CTCAGAGAGATAA-G
61548850 TTGGTGGCTAAAATCTACTCCCC
64 TTGGTGGCTAAAATCTACTCCCC
* * * * * * ** * * * * * *
61548873 TGCTACCT-TGAAAAGATAAGATTCGCCACCTTTGATCTGCTC-CACTACTGCTTAGGGAGATAA
1 TGCTACCTCAG-GAAGATAAGACT-ACAATCTTCAACCTGCTCTC-TTGCTACTCAGAGAGATAA
***** ** * * * *
61548936 GATCTACAATCTTTAGTCTGCTTCCT
63 G-T-TGGTGGCTAAAATCTACTCCCC
** *
61548962 TATTACTTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAGG
1 TGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTA-CTCAGAGAGATAA-G
* *
61549027 CTGGTGGCTAAAATCTGCTCCCC
64 TTGGTGGCTAAAATCTACTCCCC
* * *
61549050 TACTACCTCGGGATGATAAGA
1 TGCTACCTCAGGAAGATAAGA
61549071 TTCACCATTT
Statistics
Matches: 251, Mismatches: 100, Indels: 46
0.63 0.25 0.12
Matches are distributed among these distances:
84 7 0.03
86 1 0.00
87 19 0.08
88 145 0.58
89 70 0.28
90 3 0.01
92 6 0.02
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (86 bp):
TGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACTCAGAGAGATAAGTT
GGTGGCTAAAATCTACTCCCC
Found at i:61548891 original size:176 final size:177
Alignment explanation
Indices: 61548608--61549118 Score: 763
Period size: 176 Copynumber: 2.9 Consensus size: 177
61548598 GTCTGATCAT
* * *
61548608 TTGCTACCTCAAGAAGATAAGACTACAATCTTCAACCTGCTTTCTTGCTAGCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * * *
61548673 GTTGGTGGCTAAAATATACTCCCCTGCTATCTTGGGAAGATAAGATTCGCTATCTTCGATCTGCT
66 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
*
61548738 CCACTATTGCTTAGGGAGATAAGATC-ACAATCCTTAGTCTGCTTCC
131 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTTAGTCTGCTTCC
* *
61548784 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAT
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
** *
61548849 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTTGAAAAGATAAGATTCGCCACCTTTGATCTGCT
66 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
*
61548914 CCACTACTGCTTAGGGAGATAAGATCTACAATCTTTAGTCTGCTTCC
131 CCACTACTGCTTAGGGAGATAAGATCTACAATCCTTAGTCTGCTTCC
** * *
61548961 TTATTACTTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTATCTCAGAGAGATAAG
1 TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
* * * * * * *
61549026 GCTGGTGGCTAAAATCTGCTCCCCTACTACCTCGGGATGATAAGATTCACCATTTTTTGATCTGC
66 GTTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCA-TCTTTGATCTGC
* *
61549091 TCCTCTACTACTTAGGGAGATAAGATCT
130 TCCACTACTGCTTAGGGAGATAAGATCT
61549119 GACTTCACCG
Statistics
Matches: 301, Mismatches: 32, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
176 143 0.48
177 122 0.41
178 36 0.12
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (177 bp):
TTGCTACCTCAGGAAGATAAGACTACAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAG
GTTGGTGGCTAAAATCTACTCCCCTGCTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTGCT
CCACTACTGCTTAGGGAGATAAGATCTACAATCCTTAGTCTGCTTCC
Found at i:61548956 original size:44 final size:44
Alignment explanation
Indices: 61548908--61548992 Score: 102
Period size: 44 Copynumber: 1.9 Consensus size: 44
61548898 CCACCTTTGA
* *
61548908 TCTGC-TCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTTAG
1 TCTGCTTCC-CTACTACTTCAGGAAGATAAGA-CTACAATCTTTAG
* *
61548952 TCTGCTTCCTTATTACTTCAGGAAGATAAGACTACAATCTT
1 TCTGCTTCCCTACTACTTCAGGAAGATAAGACTACAATCTT
61548993 CAACCTGCTC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
44 21 0.60
45 14 0.40
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.34
Consensus pattern (44 bp):
TCTGCTTCCCTACTACTTCAGGAAGATAAGACTACAATCTTTAG
Found at i:61561402 original size:24 final size:22
Alignment explanation
Indices: 61561375--61561418 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
61561365 AAAAACTAAA
61561375 AAAATAAATGATATAAAAAAGATT
1 AAAATAAAT-A-ATAAAAAAGATT
*
61561399 AAAATAAGTAATAAAAAAGA
1 AAAATAAATAATAAAAAAGA
61561419 GAAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAATAAATAATAAAAAAGATT
Found at i:61561426 original size:24 final size:24
Alignment explanation
Indices: 61561372--61561431 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
61561362 AAAAAAAACT
*
61561372 AAAAAAATAAATGATATAAAAAAG
1 AAAAAAATAAATAATATAAAAAAG
** *
61561396 ATTAAAATAAGTAATA-AAAAAGAG
1 AAAAAAATAAATAATATAAAAA-AG
61561420 AAAAAAAATAAA
1 -AAAAAAATAAA
61561432 GGTTTAAAAC
Statistics
Matches: 27, Mismatches: 7, Indels: 3
0.73 0.19 0.08
Matches are distributed among these distances:
23 5 0.19
24 14 0.52
25 8 0.30
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (24 bp):
AAAAAAATAAATAATATAAAAAAG
Found at i:61562783 original size:13 final size:13
Alignment explanation
Indices: 61562757--61562797 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
61562747 ACAACCTCAT
*
61562757 TTTTCTTCTA-TA
1 TTTTCTACTATTA
61562769 TTTTCTACTATTA
1 TTTTCTACTATTA
*
61562782 TTTTTTACTATT-
1 TTTTCTACTATTA
61562794 TTTT
1 TTTT
61562798 GTTATTTGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
12 13 0.50
13 13 0.50
ACGTcount: A:0.17, C:0.12, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTCTACTATTA
Found at i:61564608 original size:30 final size:30
Alignment explanation
Indices: 61564572--61564633 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
61564562 TACTTGGGCG
61564572 ACACAAACAGCGAGAAGAAAAAAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
*
61564602 ACACAAACAGCGAGAAGAAAATAGAATTCT
1 ACACAAACAGCGAGAAGAAAAAAGAATTCT
61564632 AC
1 AC
61564634 TTTTGCATAC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.18, G:0.16, T:0.11
Consensus pattern (30 bp):
ACACAAACAGCGAGAAGAAAAAAGAATTCT
Found at i:61566993 original size:26 final size:26
Alignment explanation
Indices: 61566957--61567066 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
61566947 TGATACAAAT
*
61566957 TGATAACAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
61566983 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
61567009 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
61567035 TGATAAT-GAGTTAGGTAAATGTTTCA
1 TGATAATAG-GTTAGGTAAATGTTCCA
61567061 TGATAA
1 TGATAA
61567067 GAATTTCATG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
25 1 0.01
26 79 0.99
ACGTcount: A:0.35, C:0.06, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:61569120 original size:136 final size:137
Alignment explanation
Indices: 61568852--61569136 Score: 518
Period size: 136 Copynumber: 2.1 Consensus size: 137
61568842 AGTAGTCTCT
*
61568852 CCAAATGGGCTTGCATATATTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATAGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
61568917 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
61568982 CTGTTAC
131 CTGTTAC
*
61568989 CCAAATGGGCTTGCATAT-GTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCAAATGGGCTTGCATATAGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
*
61569053 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
61569118 CTGTTAC
131 CTGTTAC
**
61569125 CTGAATGGGCTT
1 CCAAATGGGCTT
61569137 AGGCCCAATG
Statistics
Matches: 143, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
136 125 0.87
137 18 0.13
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCAAATGGGCTTGCATATAGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTAAAAAGGGCTCTGGCCCAGTACCA
CTGTTAC
Found at i:61575057 original size:23 final size:24
Alignment explanation
Indices: 61575014--61575062 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
61575004 ATGGTTTTTT
* *
61575014 AATATTATTTGATAAAGTTTC-AA
1 AATATTATTTCATAAACTTTCTAA
61575037 AATATT-TTTCATAAATCTTTCTAA
1 AATATTATTTCATAAA-CTTTCTAA
61575061 AA
1 AA
61575063 ATAATAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.45
Consensus pattern (24 bp):
AATATTATTTCATAAACTTTCTAA
Found at i:61575743 original size:5 final size:5
Alignment explanation
Indices: 61575733--61575768 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
61575723 TGTGTTCTTA
*
61575733 ATTTT ATTTT ATTTT AATTTT ATTTT ATATT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
61575769 CACTAATTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 23 0.82
6 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (5 bp):
ATTTT
Found at i:61575751 original size:16 final size:16
Alignment explanation
Indices: 61575730--61575760 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61575720 CTGTGTGTTC
61575730 TTAATTTTATTTTATT
1 TTAATTTTATTTTATT
61575746 TTAATTTTATTTTAT
1 TTAATTTTATTTTAT
61575761 ATTATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTAATTTTATTTTATT
Found at i:61581531 original size:18 final size:18
Alignment explanation
Indices: 61581505--61581543 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61581495 CTCAGGAAAC
*
61581505 TTTATATCCTTGAGGGAT
1 TTTAAATCCTTGAGGGAT
**
61581523 TTTAAATCCTTTTGGGAT
1 TTTAAATCCTTGAGGGAT
61581541 TTT
1 TTT
61581544 CATATAAATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (18 bp):
TTTAAATCCTTGAGGGAT
Found at i:61586662 original size:3 final size:3
Alignment explanation
Indices: 61586654--61586777 Score: 59
Period size: 3 Copynumber: 42.7 Consensus size: 3
61586644 AAGCAATAGG
* *
61586654 TAA TAA TAA -ATA TAA TAA TAGA -AA T-A TAA TAT TAA -AGA TAA TAC
1 TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA TAA TAA TA-A TAA TAA
* * * *
61586698 TAA GT-A TAA T-A TAA TAA TAA TAA T-G TAA TAA TGA TAG TAA TGA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
61586741 TAA CAA TAA TAA T-A TAA AAA GAA TAGA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA
61586778 GTAAAAATAG
Statistics
Matches: 90, Mismatches: 17, Indels: 28
0.67 0.13 0.21
Matches are distributed among these distances:
2 13 0.14
3 70 0.78
4 7 0.08
ACGTcount: A:0.60, C:0.02, G:0.07, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:61586684 original size:26 final size:29
Alignment explanation
Indices: 61586654--61586717 Score: 80
Period size: 26 Copynumber: 2.3 Consensus size: 29
61586644 AAGCAATAGG
*
61586654 TAATAATAAATATAATAAT-AG-A-AATA
1 TAATAATAAAGATAATAATAAGTATAATA
* *
61586680 TAATATTAAAGATAATACTAAGTATAATA
1 TAATAATAAAGATAATAATAAGTATAATA
61586709 TAATAATAA
1 TAATAATAA
61586718 TAATGTAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 16 0.52
27 2 0.06
28 1 0.03
29 12 0.39
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (29 bp):
TAATAATAAAGATAATAATAAGTATAATA
Found at i:61587443 original size:16 final size:16
Alignment explanation
Indices: 61587422--61587475 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
61587412 AGAGGAAAAA
61587422 GGAGAAGAA-AGAGAAG
1 GGAGAA-AAGAGAGAAG
61587438 GGAGAAAAGAGAGAAG
1 GGAGAAAAGAGAGAAG
* * *
61587454 GGAGGAAGGAGAG-GG
1 GGAGAAAAGAGAGAAG
61587469 GGAGAAA
1 GGAGAAA
61587476 GGAAGAGCTC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 9 0.27
16 24 0.73
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (16 bp):
GGAGAAAAGAGAGAAG
Found at i:61587477 original size:15 final size:16
Alignment explanation
Indices: 61587431--61587478 Score: 62
Period size: 16 Copynumber: 3.1 Consensus size: 16
61587421 AGGAGAAGAA
*
61587431 AGAGAAGGGAGAAAAG
1 AGAGAAGGGAGAAAGG
*
61587447 AGAGAAGGGAGGAAGG
1 AGAGAAGGGAGAAAGG
*
61587463 AGAG-GGGGAGAAAGG
1 AGAGAAGGGAGAAAGG
61587478 A
1 A
61587479 AGAGCTCCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
15 10 0.36
16 18 0.64
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGAAGGGAGAAAGG
Found at i:61587581 original size:9 final size:9
Alignment explanation
Indices: 61587563--61587597 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
61587553 AAGGTAAAAA
61587563 TTTA-TTTT
1 TTTATTTTT
*
61587571 TTTGTTTTT
1 TTTATTTTT
61587580 TTTATTTTT
1 TTTATTTTT
61587589 TTTATTTTT
1 TTTATTTTT
61587598 GAATAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
8 3 0.12
9 21 0.88
ACGTcount: A:0.09, C:0.00, G:0.03, T:0.89
Consensus pattern (9 bp):
TTTATTTTT
Found at i:61589156 original size:131 final size:130
Alignment explanation
Indices: 61588954--61589454 Score: 729
Period size: 130 Copynumber: 3.8 Consensus size: 130
61588944 GACCTGAGGC
* * * * *
61588954 TCAACTCACCTCTCGCAATATGAGTTG--ATTTTTGTCA-AACAAAAATTGAAATTACCTCAGCG
1 TCAACCCACCTCTCGCAATATGAGTTGTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
* *
61589016 TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTGAAAAAGTAGAGATTAAAAGGT
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
*
61589081 TCAACCCACCTCTCGCCATATGAGTTGTTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGC
1 TCAACCCACCTCTCGCAATATGAGTTG-TTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGC
*
61589146 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAAATTAAAAGG
65 GTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGG
61589211 T
130 T
* *
61589212 TCAACCCACCTCTCGCAATATGAGTTGGTTCTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
1 TCAACCCACCTCTCGCAATATGAGTTGTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
61589277 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
66 TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
* ** * * *
61589342 TCAACCCACCTCTCGCCATATGAGTTGTTTTTGAACAGCATAAATTGAAAATAGAAATTGAAAAT
1 TCAACCCACCTCTCGCAATATGAGTTGTTTTT--------T-TTTTGACAACAGAAATTGAAATT
*
61589407 ACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
57 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
61589455 AATTAAAACA
Statistics
Matches: 339, Mismatches: 22, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
127 25 0.07
130 136 0.40
131 112 0.33
138 1 0.00
139 65 0.19
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (130 bp):
TCAACCCACCTCTCGCAATATGAGTTGTTTTTTTTTTGACAACAGAAATTGAAATTACCTCAGCG
TGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAGTAGAGATTAAAAGGT
Found at i:61589401 original size:13 final size:13
Alignment explanation
Indices: 61589383--61589407 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61589373 TGAACAGCAT
61589383 AAATTGAAAATAG
1 AAATTGAAAATAG
61589396 AAATTGAAAATA
1 AAATTGAAAATA
61589408 CCTCAGCGTG
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:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (13 bp):
AAATTGAAAATAG
Found at i:61589517 original size:72 final size:72
Alignment explanation
Indices: 61589383--61589548 Score: 239
Period size: 72 Copynumber: 2.3 Consensus size: 72
61589373 TGAACAGCAT
* * * *
61589383 AAATTG-AAAATAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATA
1 AAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
61589447 TGAGTTG
66 TGAGTTG
*
61589454 AAATT-AAAACACAAAAATTGAAAATACCTCAGCGTGCCCCGAGGCTCAACTCACCTCTAGCAAT
1 AAATTGAAAA-ACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAAT
61589518 ATGAGTTG
65 ATGAGTTG
**
61589526 ATTTTGAAAAACAAAAATT-AAAA
1 AAATTGAAAAACAAAAATTGAAAA
61589549 GGCTTAACTC
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
71 12 0.14
72 69 0.81
73 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (72 bp):
AAATTGAAAAACAAAAATTGAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTAGCAATA
TGAGTTG
Found at i:61589643 original size:122 final size:126
Alignment explanation
Indices: 61589423--61589657 Score: 336
Period size: 122 Copynumber: 1.9 Consensus size: 126
61589413 GCGTGACCTG
* *
61589423 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAATTGAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCCCAGCG
* *
61589488 TGCCCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTAAA
66 TGCCCCGAGGCTCAACTCACCCCTAGCAATATGAGCTGATTTTTGAAAAACAAAAATTAAA
* * * * *
61589548 AGGCTTAACTCACCTCTCGCAATATGAG-T-CAATTTAAA-ACATAAACT-AAGAATACCCCGGC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAA-AATACCCCAGC
*
61589609 GTGCCCCGAGGCTCAACTCACCCCTCGCAATATGAGCTGATTTTTGAAA
65 GTGCCCCGAGGCTCAACTCACCCCTAGCAATATGAGCTGATTTTTGAAA
61589658 CAAAAGGAAT
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
121 2 0.02
122 53 0.54
123 15 0.15
124 1 0.01
125 27 0.28
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.23
Consensus pattern (126 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGAAATTAAAACACAAAAACTGAAAATACCCCAGCG
TGCCCCGAGGCTCAACTCACCCCTAGCAATATGAGCTGATTTTTGAAAAACAAAAATTAAA
Found at i:61589701 original size:73 final size:73
Alignment explanation
Indices: 61589548--61589768 Score: 188
Period size: 73 Copynumber: 3.1 Consensus size: 73
61589538 AAAAATTAAA
* * * * * * * **
61589548 AGGCTTAACTCACCTCTCGCAATATGAGTCAA---TTTAAAACATAAACTAAGAATACCCCGGC-
1 AGGCTTGACTCACCCCTCGCAATATGAGTCAATTTTTTGAAACAAAAATTAAAAATACCTCAACG
* *
61589609 GTGCCCCG
66 GTGACCTG
** *
61589617 AGGCTCAACTCACCCCTCGCAATATGAG-CTGA-TTTTTGAAACAAAAGGAATT-AAAATACCTC
1 AGGCTTGACTCACCCCTCGCAATATGAGTC-AATTTTTTGAAAC-AAA--AATTAAAAATACCTC
61589679 AAC-GTGACCTG
62 AACGGTGACCTG
* * *
61589690 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAATTAAAAATACCTCAGCG
1 AGGCTTGACTCACCCCTCGCAATATGAGTCAATTTTTTGAAACAAAAATTAAAAATACCTCAACG
61589755 TGTGACCTG
66 -GTGACCTG
61589764 AGGCT
1 AGGCT
61589769 CAACTCATTT
Statistics
Matches: 123, Mismatches: 18, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
68 1 0.01
69 27 0.22
71 11 0.09
72 14 0.11
73 43 0.35
74 27 0.22
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (73 bp):
AGGCTTGACTCACCCCTCGCAATATGAGTCAATTTTTTGAAACAAAAATTAAAAATACCTCAACG
GTGACCTG
Found at i:61589775 original size:74 final size:72
Alignment explanation
Indices: 61589548--61589826 Score: 246
Period size: 74 Copynumber: 3.9 Consensus size: 72
61589538 AAAAATTAAA
* * * * * *
61589548 AGGCTTAACTCACCTCTCGCAATATGAGTCAA--TTTAAAACATAAACTAAGAATACCCCGGC-G
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAATTAAAAATACCTCAGCGG
* *
61589610 TGCCCCG
66 TGACCTG
* * *
61589617 AGGCTCAACTCACCCCTCGCAATATGAG-CTGATTTTTGAAACAAAAGGAATT-AAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTC-AATTTTTGAAAC-ATA--AATTAAAAATACCTCA
*
61589680 AC-GTGACCTG
62 GCGGTGACCTG
**
61589690 AGGCTTGACTCACCTCTCGCAATATGAGTCAATTTTTTGAAACATAAATTAAAAATACCTCAGCG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAA-TTTTTGAAACATAAATTAAAAATACCTCAGCG
61589755 TGTGACCTG
65 -GTGACCTG
** *** ** * *
61589764 AGGCTCAACTCATTTCTTATAATATGAGTTGATTTTTGAAAACATGAATTAAAGATACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTG-AAACATAAATTAAAAATACCTCAG
61589827 AGTACCCAAA
Statistics
Matches: 169, Mismatches: 29, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
68 1 0.01
69 27 0.16
71 11 0.07
72 14 0.08
73 49 0.29
74 67 0.40
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (72 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTCAATTTTTGAAACATAAATTAAAAATACCTCAGCGG
TGACCTG
Found at i:61599465 original size:25 final size:27
Alignment explanation
Indices: 61599428--61599480 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
61599418 TCAAACATGC
61599428 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
61599454 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
61599480 A
1 A
61599481 AAACTGTAAA
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:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:61601004 original size:26 final size:26
Alignment explanation
Indices: 61600966--61601049 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
61600956 CATGAAATTC
* *
61600966 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
61600992 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
61601018 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
61601044 TTATCA
1 TTATCA
61601050 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:61606780 original size:26 final size:26
Alignment explanation
Indices: 61606742--61606825 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
61606732 CATGAAATTC
* *
61606742 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
61606768 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
*
61606794 TTATCATGGAACATTTACCTAAACTA
1 TTATCATGGAACATTTACCTAACCTA
61606820 TTATCA
1 TTATCA
61606826 ATTTGTATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:61611477 original size:26 final size:26
Alignment explanation
Indices: 61611448--61611555 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61611438 TGATACAAAT
61611448 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61611474 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61611500 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61611526 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61611552 TGAT
1 TGAT
61611556 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61615475 original size:38 final size:38
Alignment explanation
Indices: 61615421--61615499 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
61615411 TAACTAATCC
*
61615421 TCTTTAATGCAGTATGGCTATTCCTCTAGCTTAGGACA
1 TCTTTAATGCAATATGGCTATTCCTCTAGCTTAGGACA
61615459 TCTTTAATGCAATATGGCTATTCCTCTAGCTTAGGACA
1 TCTTTAATGCAATATGGCTATTCCTCTAGCTTAGGACA
61615497 TCT
1 TCT
61615500 CAATTTGGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (38 bp):
TCTTTAATGCAATATGGCTATTCCTCTAGCTTAGGACA
Found at i:61616846 original size:19 final size:19
Alignment explanation
Indices: 61616822--61616858 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
61616812 AATTTTAAAA
61616822 AATATTTTTATATAAATTT
1 AATATTTTTATATAAATTT
61616841 AATATTTTTATATAAATT
1 AATATTTTTATATAAATT
61616859 CACACTTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATATTTTTATATAAATTT
Found at i:61622851 original size:3 final size:3
Alignment explanation
Indices: 61622843--61622950 Score: 146
Period size: 3 Copynumber: 35.7 Consensus size: 3
61622833 AATAACAGTT
* * * * *
61622843 TAA TAA TAA TAG CAA TAA TTA TAC TAG TAA -ACA TAAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TA-A TAA TAA TAA
61622889 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
61622937 TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TA
61622951 GCGAATGTGT
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
2 1 0.01
3 88 0.95
4 4 0.04
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:61632014 original size:14 final size:15
Alignment explanation
Indices: 61631992--61632021 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
61631982 GAATATCAAG
61631992 ATAAGAATTAAGAAC
1 ATAAGAATTAAGAAC
61632007 ATAA-AATTAAGAAC
1 ATAAGAATTAAGAAC
61632021 A
1 A
61632022 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.63, C:0.07, G:0.10, T:0.20
Consensus pattern (15 bp):
ATAAGAATTAAGAAC
Found at i:61633480 original size:15 final size:15
Alignment explanation
Indices: 61633460--61633508 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
61633450 ACTATTTAAA
*
61633460 AATGATAGTAATAAT
1 AATGATAATAATAAT
*
61633475 AATGATAATAATATT
1 AATGATAATAATAAT
* **
61633490 AATGGTAATGGTAAT
1 AATGATAATAATAAT
61633505 AATG
1 AATG
61633509 CAAGGAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.49, C:0.00, G:0.16, T:0.35
Consensus pattern (15 bp):
AATGATAATAATAAT
Found at i:61633640 original size:3 final size:3
Alignment explanation
Indices: 61633628--61633845 Score: 200
Period size: 3 Copynumber: 73.3 Consensus size: 3
61633618 AATAGGTAAA
* *
61633628 AAT AAT -AT AAT AAT AAT -AT AAT AGT AAT AAT AAC AAT -AT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * *
61633673 AAT AGT AGT AAT AGT 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
* * * * *
61633721 AATT AAT GAT AAT AAA AAT AAT AGT AA- AGAA AAT AA- AGGT AA- AATT
1 AA-T AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A-AT AAT AA-T
* * * *
61633767 AAT AAT AAT ACT AACG AAT -AT AAGT AAT AAT AGT AA- AAT AAT GAT
1 AAT AAT AAT AAT AA-T AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
61633812 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
61633846 TATTAAATTA
Statistics
Matches: 176, Mismatches: 25, Indels: 28
0.77 0.11 0.12
Matches are distributed among these distances:
2 14 0.08
3 150 0.85
4 12 0.07
ACGTcount: A:0.62, C:0.01, G:0.06, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:61634388 original size:3 final size:3
Alignment explanation
Indices: 61634380--61634404 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
61634370 AAAAAAGGTA
61634380 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
61634405 TATATGTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:61635506 original size:15 final size:15
Alignment explanation
Indices: 61635486--61635515 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
61635476 TCTTCTCCAT
61635486 TTTTCTTCTCTTTCG
1 TTTTCTTCTCTTTCG
*
61635501 TTTTCTTCTTTTTCG
1 TTTTCTTCTCTTTCG
61635516 ATTAGTTGTG
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:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTCTTCTCTTTCG
Found at i:61639446 original size:44 final size:44
Alignment explanation
Indices: 61639376--61639997 Score: 150
Period size: 44 Copynumber: 13.9 Consensus size: 44
61639366 AGGAATTGTC
* * * * * **
61639376 GCTTCAATTTTCTCCACTATAGCTTCAAGGG-GATAAGATTATTA
1 GCTTCAATCTGCTCCACTGTAACTTC-AGGGAAATAAGATTAGCA
* *
61639420 GCTTCAATCTGCTTCACTGTAACTTCAGGGAAATAAGATTCGCA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGATTAGCA
* * * * ** *
61639464 TCTTCAATCTGCTCCACTGCAAGTCCAGGGAGGTAAGATTTGTAACTTGTA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGA--T-T-A---GCA
*** *
61639515 GCATT-AATCCATTCCACT-TCAACTTCAGGGAAATAAGATTCGCA
1 GC-TTCAATCTGCTCCACTGT-AACTTCAGGGAAATAAGATTAGCA
* * * * * * *
61639559 TCTTCAATCTACTCCACTATAACTTTAGGGAGATAAGGTTTA-TA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAA-GATTAGCA
* * ** * * * *
61639603 GCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGATTAGC-A
* * * * ** *
61639648 TCTTCAATTTTCTCCACTGCAACTTCAGGGGGATAAGACTT-GTA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGA-TTAGCA
** * * * * * *
61639692 ATTTCAACCTGCTCTACTGGAACTTCAGGGAGATAAGGTTTA-TA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAA-GATTAGCA
* * *** * * *
61639736 GCTTTAATCTGCTCTACTACGACTTTAGAGAGATAAGATTTA-CTA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGA-TTAGC-A
* * * * *
61639781 TCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTT-GTA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGA-TTAGCA
** * * * * * *
61639825 ATTTCAACCTGCTCTACTGCAACTTCAGGGAGATAAGGTTTA-TA
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAA-GATTAGCA
* *** * * * ** * *
61639869 GCTTTAATCCATTCTATTGCAATCTT-AAAGAGATAAGATTTGCTA
1 GCTTCAATCTGCTCCACTGTAA-CTTCAGGGAAATAAGATTAGC-A
* * * * *
61639914 TCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTAG-T
1 GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGATTAGCA
* * ** *
61639957 GACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGATT
1 G-CTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGATT
61639998 CGCCATAATG
Statistics
Matches: 434, Mismatches: 116, Indels: 56
0.72 0.19 0.09
Matches are distributed among these distances:
43 13 0.03
44 281 0.65
45 105 0.24
46 3 0.01
47 1 0.00
48 1 0.00
49 1 0.00
51 27 0.06
52 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (44 bp):
GCTTCAATCTGCTCCACTGTAACTTCAGGGAAATAAGATTAGCA
Found at i:61639672 original size:89 final size:89
Alignment explanation
Indices: 61639398--61639997 Score: 423
Period size: 89 Copynumber: 6.7 Consensus size: 89
61639388 TCCACTATAG
* * * *
61639398 CTTCAAGGG-GATAAGA-TTATTAGCTTCAATCTGCT-TCACTGTAACTTCAGGGAAATAAGATT
1 CTTC-AGGGAGATAAGATTTA-TAGCTTTAATCTGCTCT-ACTGCAACTTCAGAGAGATAAGATT
*
61639460 CGC-ATCTTCAATCTGCTCCACTGCAA
63 TGCTATCTTCAATCTGCTCCACTGCAA
* * * * *** * * * *
61639486 GTCCAGGGAGGTAAGATTTGTAACTTGTAGCATTAATCCATTCCACTTCAACTTCAGGGAAATAA
1 CTTCAGGGAGATAAGA-TT-T-A----TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAA
* * **
61639551 GATTCGC-ATCTTCAATCTACTCCACTATAA
59 GATTTGCTATCTTCAATCTGCTCCACTGCAA
* * * *
61639581 CTTTAGGGAGATAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGC
1 CTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC
* *
61639646 TATCTTCAATTTTCTCCACTGCAA
66 TATCTTCAATCTGCTCCACTGCAA
* * * * * * * *
61639670 CTTCAGGGGGATAAGACTTGTA-ATTTCAACCTGCTCTACTGGAACTTCAGGGAGATAAGGTTT-
1 CTTCAGGGAGATAAGATTTATAGCTTT-AATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG
* * * * * *
61639733 ATAGCTTTAATCTGCTCTACTACGA
65 CTATCTTCAATCTGCTCCACTGCAA
* * * * * *
61639758 CTTTAGAGAGATAAGATTTACTATCTTCAATCTGCTCTACTGCAACTTCAGGGAGATAAGACTTG
1 CTTCAGGGAGATAAGATTTA-TAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTG
* *
61639823 -TAAT-TTCAACCTGCTCTACTGCAA
65 CT-ATCTTCAATCTGCTCCACTGCAA
* *** * *
61639847 CTTCAGGGAGATAAGGTTTATAGCTTTAATCCATTCTATTGCAATCTT-AAAGAGATAAGATTTG
1 CTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAA-CTTCAGAGAGATAAGATTTG
61639911 CTATCTTCAATCTGCTCCACTGCAA
65 CTATCTTCAATCTGCTCCACTGCAA
* * * * * * *
61639936 CTTCAAGGAGATAAGA-TTAGT-GACTTCAACCTACTCCACTACAACTTCAGGGAGATAAGATT
1 CTTCAGGGAGATAAGATTTA-TAG-CTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATT
61639998 CGCCATAATG
Statistics
Matches: 396, Mismatches: 95, Indels: 41
0.74 0.18 0.08
Matches are distributed among these distances:
87 4 0.01
88 118 0.30
89 197 0.50
90 4 0.01
91 1 0.00
92 2 0.01
93 1 0.00
94 2 0.01
95 67 0.17
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (89 bp):
CTTCAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAGAGAGATAAGATTTGC
TATCTTCAATCTGCTCCACTGCAA
Found at i:61639722 original size:133 final size:133
Alignment explanation
Indices: 61639527--61639994 Score: 620
Period size: 133 Copynumber: 3.5 Consensus size: 133
61639517 ATTAATCCAT
* * * * * * ** *
61639527 TCCACTTCAACTTCAGGGAAATAAGA-TTCG-CATCTTCAATCTACTCCACTATAACTTTAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGACTT-GTAAT-TTCAACCTGCTCTACTGCAACTTCAGGGA
61639590 GATAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAA
64 GATAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAA
* *
61639655 TTTTC
129 TCTGC
* *
61639660 TCCACTGCAACTTCAGGGGGATAAGACTTGTAATTTCAACCTGCTCTACTGGAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCTACTGCAACTTCAGGGAGA
* *
61639725 TAAGGTTTATAGCTTTAATCTGCTCTACTACGACTTTAGAGAGATAAGATTTACTATCTTCAATC
66 TAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAATC
61639790 TGC
131 TGC
*
61639793 TCTACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCTACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCTACTGCAACTTCAGGGAGA
*** * * *
61639858 TAAGGTTTATAGCTTTAATCCATTCTATTGCAA-TCTTAAAGAGATAAGATTTGCTATCTTCAAT
66 TAAGGTTTATAGCTTTAATCTGCTCTACTACAACT-TTAGAGAGATAAGATTTGCTATCTTCAAT
61639922 CTGC
130 CTGC
* * * * * *
61639926 TCCACTGCAACTTCAAGGAGATAAGA-TTAGTGACTTCAACCTACTCCACTACAACTTCAGGGAG
1 TCCACTGCAACTTCAGGGAGATAAGACTT-GTAATTTCAACCTGCTCTACTGCAACTTCAGGGAG
61639990 ATAAG
65 ATAAG
61639995 ATTCGCCATA
Statistics
Matches: 299, Mismatches: 32, Indels: 8
0.88 0.09 0.02
Matches are distributed among these distances:
132 3 0.01
133 292 0.98
134 4 0.01
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (133 bp):
TCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCTCTACTGCAACTTCAGGGAGA
TAAGGTTTATAGCTTTAATCTGCTCTACTACAACTTTAGAGAGATAAGATTTGCTATCTTCAATC
TGC
Found at i:61647269 original size:26 final size:27
Alignment explanation
Indices: 61647240--61647295 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
61647230 TTTCCATATG
*
61647240 ACCAATTCTTGTA-AA-CATTTCATACA
1 ACCAATT-TTGTACAACCAATTCATACA
*
61647266 ACC-ATTTTGTACAACCAATTCATATA
1 ACCAATTTTGTACAACCAATTCATACA
61647292 ACCA
1 ACCA
61647296 TTCGTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
24 5 0.20
25 5 0.20
26 15 0.60
ACGTcount: A:0.39, C:0.25, G:0.04, T:0.32
Consensus pattern (27 bp):
ACCAATTTTGTACAACCAATTCATACA
Found at i:61647490 original size:46 final size:45
Alignment explanation
Indices: 61647423--61647581 Score: 237
Period size: 46 Copynumber: 3.5 Consensus size: 45
61647413 TATTCATTTC
* *
61647423 TATCTTTCAACCCTGGTCTTATTCATTTCCTGTCATGTTGCTATGG
1 TATCTTTCAACCATGGTCTTATTCATTT-CTGTCATGTTGCCATGG
61647469 TATCTTTCAACCATGGTCTTATTCATTTTCTGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTATTCA-TTTCTGTCATGTTGCCATGG
* * *
61647515 TATCTTTCAACCATGGTCTTATTCATTTCTCGTCATATTACCATAG
1 TATCTTTCAACCATGGTCTTATTCATTTCT-GTCATGTTGCCATGG
*
61647561 TATCTTTCAACTATGGTCTTA
1 TATCTTTCAACCATGGTCTTA
61647582 CATATCTGAA
Statistics
Matches: 105, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
45 5 0.05
46 97 0.92
47 3 0.03
ACGTcount: A:0.19, C:0.23, G:0.13, T:0.45
Consensus pattern (45 bp):
TATCTTTCAACCATGGTCTTATTCATTTCTGTCATGTTGCCATGG
Found at i:61647620 original size:45 final size:46
Alignment explanation
Indices: 61647562--61647672 Score: 136
Period size: 45 Copynumber: 2.5 Consensus size: 46
61647552 TTACCATAGT
* * **
61647562 ATCTTTCAACTATGGTCTTACAT-ATCTGAATCGTGATGCCATAAC
1 ATCTTTCAGCTATGGTCTTACATCACCTGAATCGCAATGCCATAAC
* *
61647607 ATCTTTCAGCTATGGTCTTA-ATCGCCTGAATCGCAATGCCATAGC
1 ATCTTTCAGCTATGGTCTTACATCACCTGAATCGCAATGCCATAAC
* *
61647652 GTCTTTCGGCTATGGTCTTAC
1 ATCTTTCAGCTATGGTCTTAC
61647673 TTGTTTTTGG
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.04
45 54 0.96
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (46 bp):
ATCTTTCAGCTATGGTCTTACATCACCTGAATCGCAATGCCATAAC
Found at i:61647740 original size:33 final size:33
Alignment explanation
Indices: 61647691--61647843 Score: 107
Period size: 33 Copynumber: 4.6 Consensus size: 33
61647681 GGTATGATGT
*
61647691 CATAGTCCAACTATGGTCTTACATATGTATTGC
1 CATAGCCCAACTATGGTCTTACATATGTATTGC
* * * *
61647724 CATGGCCCAACCATGGTCTTACACT-CGTAGTGC
1 CATAGCCCAACTATGGTCTTACA-TATGTATTGC
* * * *
61647757 TATATCCCAGA-TATGGTTTTATCATCA-GGA-TGC
1 CATAGCCCA-ACTATGGTCTTA-CAT-ATGTATTGC
* * *
61647790 CATAGCCTAACTATGGTCTTACACATATATTGC
1 CATAGCCCAACTATGGTCTTACATATGTATTGC
* * *
61647823 CATGGCCCAGCCATGGTCTTA
1 CATAGCCCAACTATGGTCTTA
61647844 TCCATCAATT
Statistics
Matches: 90, Mismatches: 22, Indels: 16
0.70 0.17 0.12
Matches are distributed among these distances:
31 1 0.01
32 4 0.04
33 79 0.88
34 6 0.07
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (33 bp):
CATAGCCCAACTATGGTCTTACATATGTATTGC
Found at i:61648191 original size:51 final size:52
Alignment explanation
Indices: 61648074--61648191 Score: 157
Period size: 52 Copynumber: 2.3 Consensus size: 52
61648064 CAGATCACAT
* * *
61648074 TTATCACTTGTCACTTGTCATTGATCAAATAAGTGGTAGCTAAAGCTACCGC
1 TTATCACTTGTCACTTGTCACTAATCAAATAAGTGGTAGCTAAAGCTACCAC
* * * * *
61648126 TTATCACTTATCACTTGTCACTAATCAGATAAGT-GTAGTTGAGGCTACCAC
1 TTATCACTTGTCACTTGTCACTAATCAAATAAGTGGTAGCTAAAGCTACCAC
61648177 TTATCACTTGTCACT
1 TTATCACTTGTCACT
61648192 GATCAGAAGT
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
51 27 0.47
52 30 0.53
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (52 bp):
TTATCACTTGTCACTTGTCACTAATCAAATAAGTGGTAGCTAAAGCTACCAC
Found at i:61649620 original size:80 final size:81
Alignment explanation
Indices: 61649482--61649766 Score: 274
Period size: 80 Copynumber: 3.5 Consensus size: 81
61649472 TTAGTTTACC
* * * * * * *
61649482 AAATTACTGAAATACCC-CAAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCCAA
*
61649546 ATATCCTCGATTTGTA
66 ATACCCTCGATTTGTA
* ** * * *
61649562 AAATTACTGAAGTACTGTCGA-TTGTAAAATTACTAAAATACCCTCAATTTGTATAATTACCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCCAA
*
61649626 ATACCCTC-AGTTTGCA
66 ATACCCTCGA-TTTGTA
* *
61649642 AAATTACTGAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTA-CCAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCCAA
* *
61649706 AGTACCCTTGATTTATA
66 A-TACCCTCGATTTGTA
* * ** ** *
61649723 GAATTAC-CATTTTACCCTCGATTTACAAAATTATTAAAATACCC
1 AAATTACTGA-AATACCCTCGATTTGTAAAATTACTAAAATACCC
61649767 CTGTAGGGTA
Statistics
Matches: 168, Mismatches: 31, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
79 1 0.01
80 84 0.50
81 82 0.49
82 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTACCCAA
ATACCCTCGATTTGTA
Found at i:61649728 original size:81 final size:80
Alignment explanation
Indices: 61649482--61649766 Score: 263
Period size: 81 Copynumber: 3.5 Consensus size: 80
61649472 TTAGTTTACC
* * * * * * * *
61649482 AAATTACTGAAATACCC-CAAGTTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTGTAAAATTA-CCAA
* *
61649546 ATATCCTCGATTTGTA
65 ATACCCTTGATTTGTA
* ** * * *
61649562 AAATTACTGAAGTACTGTCGA-TTGTAAAATTACTAAAATACCCTCAATTTGTATAATTACCGAA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACC-AA
* *
61649626 ATACCC-TCAGTTTGCA
65 ATACCCTTGA-TTTGTA
*
61649642 AAATTACTGAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAA
*
61649707 GTACCCTTGATTTATA
66 -TACCCTTGATTTGTA
* * ** * *
61649723 GAATTAC-CATTTTACCCTCGATTTACAAAATTATTAAAATACCC
1 AAATTACTGA-AATACCCTCGATTTATAAAATTACTAAAATACCC
61649767 CTGTAGGGTA
Statistics
Matches: 167, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
79 3 0.02
80 79 0.47
81 83 0.50
82 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTTATAAAATTACTAAAATACCCTCGATTTGTAAAATTACCAAA
TACCCTTGATTTGTA
Found at i:61649754 original size:27 final size:27
Alignment explanation
Indices: 61649506--61649766 Score: 202
Period size: 27 Copynumber: 9.7 Consensus size: 27
61649496 CCCCAAGTTG
* * *
61649506 TAAAATTACCAAAGTACCCCCGGTTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
61649533 TAAAATTACCCAAATATCCTCGATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
** * ** *
61649560 TAAAATTACTGAAGTACTGTCGA-TTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
61649586 TAAAATTACTAAAATACCCTCAATTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
61649613 TATAATTACCGAAATACCCTC-AGTTTG
1 TAAAATTACCAAAATACCCTCGA-TTTA
* **
61649640 CAAAATTACTGAAATACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* * *
61649667 TAAAATTACTAAAATACCCTCGACTTG
1 TAAAATTACCAAAATACCCTCGATTTA
* *
61649694 TAAAATTACCAAAGTACCCTTGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* ***
61649721 TAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACCAAAATACCCTCGATTTA
* **
61649748 CAAAATTATTAAAATACCC
1 TAAAATTACCAAAATACCC
61649767 CTGTAGGGTA
Statistics
Matches: 186, Mismatches: 45, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
26 22 0.12
27 163 0.88
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTCGATTTA
Found at i:61649781 original size:27 final size:27
Alignment explanation
Indices: 61649759--61649946 Score: 232
Period size: 27 Copynumber: 7.0 Consensus size: 27
61649749 AAAATTATTA
61649759 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
61649786 AAATACCCCTGTAGGGTAGAAATACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
61649813 AAATACCCTTGTAGGGTAGAAATATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
61649840 AAATACCCCTGTAGGATAGGATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
61649867 AAATACCCTTGTAGGGTAGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* *
61649894 AAATACCCTTGTAGGGTAGAATTACAG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * *
61649921 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
61649947 ATTTTGCCCC
Statistics
Matches: 142, Mismatches: 19, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:61649945 original size:81 final size:81
Alignment explanation
Indices: 61649759--61649946 Score: 270
Period size: 81 Copynumber: 2.3 Consensus size: 81
61649749 AAAATTATTA
61649759 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTG
61649824 TAGGGTAGAAATATCG
66 TAGGGTAGAAATATCG
* * * * *
61649840 AAATACCCCTGTAGGATAGGATTACTGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCTTG
1 AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTG
*
61649905 TAGGGTAGAATTA-CAG
66 TAGGGTAGAAATATC-G
* * * *
61649921 AGATACCCTTGTGGGGTAAAATTACC
1 AAATACCCCTGTAGGGTAGAATTACC
61649947 ATTTTGCCCC
Statistics
Matches: 93, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
80 1 0.01
81 92 0.99
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCTTG
TAGGGTAGAAATATCG
Found at i:61651585 original size:6 final size:6
Alignment explanation
Indices: 61651576--61651644 Score: 52
Period size: 6 Copynumber: 11.2 Consensus size: 6
61651566 AACCAAAATG
* * * *
61651576 AGAATC AGAATC AGAATT AGAATT AG-GTGAC AGAATC AGAATC AGTATC
1 AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC
61651625 AGGTAA-C AGAATC AGAATC A
1 A-G-AATC AGAATC AGAATC A
61651645 AAATATGAAT
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
5 3 0.06
6 41 0.80
7 5 0.10
8 2 0.04
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:61651609 original size:25 final size:25
Alignment explanation
Indices: 61651581--61651644 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
61651571 AAATGAGAAT
* * *
61651581 CAGAATCAGAATTAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGGTAA
*
61651606 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
61651631 CAGAATCAGAATCA
1 CAGAATCAGAATCA
61651645 AAATATGAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:61651805 original size:27 final size:27
Alignment explanation
Indices: 61651765--61651872 Score: 105
Period size: 27 Copynumber: 4.1 Consensus size: 27
61651755 CAGCATGGCT
* * *
61651765 ACCAGA-ACAGATATTGTGACAGAGTC
1 ACCAGATAAAGATATTGTGGCAGAGCC
*
61651791 ACCAGATAAAGATATTATGGCAGAGCC
1 ACCAGATAAAGATATTGTGGCAGAGCC
* *
61651818 ACCAAATAAATAT-TTGTGGCAGAGCC
1 ACCAGATAAAGATATTGTGGCAGAGCC
* * *
61651844 ACTAGA-AACAGATAATGTGGCAAAGCC
1 ACCAGATAA-AGATATTGTGGCAGAGCC
61651871 AC
1 AC
61651873 TTAACAGAAT
Statistics
Matches: 67, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
25 2 0.03
26 25 0.37
27 40 0.60
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (27 bp):
ACCAGATAAAGATATTGTGGCAGAGCC
Found at i:61652059 original size:22 final size:21
Alignment explanation
Indices: 61652031--61652095 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
61652021 GCAAATACGT
61652031 TTGGCACACAACCATAATCAGG
1 TTGGCACA-AACCATAATCAGG
* *
61652053 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACA-AACCATAAT-CAGG
*
61652075 TTGGCGCAAAGCCATAATCAG
1 TTGGCACAAA-CCATAATCAG
61652096 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 3 0.09
22 29 0.85
23 2 0.06
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (21 bp):
TTGGCACAAACCATAATCAGG
Found at i:61652770 original size:27 final size:27
Alignment explanation
Indices: 61652548--61652763 Score: 292
Period size: 27 Copynumber: 8.1 Consensus size: 27
61652538 CAAAGGAATC
*
61652548 TCGGTAATTCTACCCTACACGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
61652575 TCGATATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
61652602 TCAGTAATCCTATCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* * *
61652629 TCGGTATTTCTACCCAACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
* *
61652656 TCGGTATTTCTACCCTACAAGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
61652683 TCGGTAATTCTA-CCTATAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
61652709 TCGGTAATTCTA-CCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
*
61652735 TCGGTAATTCAACCCTACAGGGGTATT
1 TCGGTAATTCTACCCTACAGGGGTATT
61652762 TC
1 TC
61652764 AATAATTTTG
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 48 0.29
27 119 0.71
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (27 bp):
TCGGTAATTCTACCCTACAGGGGTATT
Found at i:61652811 original size:106 final size:107
Alignment explanation
Indices: 61652595--61652823 Score: 232
Period size: 106 Copynumber: 2.1 Consensus size: 107
61652585 TACCCTACAA
* * * * **
61652595 GGGTATTTCAGTAATCCTATCCTACAGGGGTATTTCGGTATTTCTACCCAACAAGGGTATTTCGG
1 GGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGTAATTCAACCCAACAAGGGTATTTCAA
** *** **
61652660 TATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCTATAG
66 TATTTCTACAATACAAGGGTAAAACGGTAATTCTACAAATAG
* *
61652702 GGGTATTTCGGTAATTCTA-CCTACAGGGGTATTTCGGTAATTCAACCCTACAGGGGTATTTCAA
1 GGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGTAATTCAACCCAACAAGGGTATTTCAA
* * * *
61652766 TAATTTTGTA-AAT-CGAGGGTAAAACGGTAATTCTATAAATCG
66 T-A-TTTCTACAATACAAGGGTAAAACGGTAATTCTACAAATAG
61652808 GGGTACTTT-GGTAATT
1 GGGTA-TTTCGGTAATT
61652824 TTACAAGGCG
Statistics
Matches: 100, Mismatches: 19, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
106 73 0.73
107 22 0.22
108 5 0.05
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (107 bp):
GGGTATTTCGGTAATTCTATCCTACAGGGGTATTTCGGTAATTCAACCCAACAAGGGTATTTCAA
TATTTCTACAATACAAGGGTAAAACGGTAATTCTACAAATAG
Found at i:61652849 original size:53 final size:53
Alignment explanation
Indices: 61652755--61653109 Score: 317
Period size: 53 Copynumber: 6.7 Consensus size: 53
61652745 AACCCTACAG
* *** * *
61652755 GGGTATTTCAATAATTTTGTA-AATCGAGGGTAAAACGGTAATTCTATAAATCG-
1 GGGTATTTCAGTAA-TTT-TACAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * * **
61652808 GGGTACTTT-GGTAATTTTACAAGGCGAGGGTATTTCAGTAATATTACAAATTAA
1 GGGTA-TTTCAGTAATTTTACAA-TCGAGGGTATTTCGGTAATTTTACAAATCGA
* ** * ** *
61652862 GGGTATTTTAGTAATTTTGTAAACAGAGGGTATTTCAATAATTTTACAAATTGA
1 GGGTATTTCAGTAATTTTACAATC-GAGGGTATTTCGGTAATTTTACAAATCGA
* *
61652916 TGGTATTTCAGTAATTTTACAATCGACGGTATTTCGGTAATTTTACAAATCGA
1 GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* *
61652969 GGGTATTTCAGTAATTTTACAATCGACGGTATTTTGGTAATTTTAC-AATCGA
1 GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCGA
* * * * * *
61653021 CGGTATTTCGGTAATTTTACAAATCGAGGATATTTGGGTAATTTTATAAATCGG
1 GGGTATTTCAGTAATTTTAC-AATCGAGGGTATTTCGGTAATTTTACAAATCGA
* *
61653075 GGGTACTTT-GGTAATTTTACAA-CTGGGGGTATTTC
1 GGGTA-TTTCAGTAATTTTACAATC-GAGGGTATTTC
61653110 AATAATTTGG
Statistics
Matches: 251, Mismatches: 41, Indels: 20
0.80 0.13 0.06
Matches are distributed among these distances:
51 2 0.01
52 30 0.12
53 133 0.53
54 83 0.33
55 3 0.01
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (53 bp):
GGGTATTTCAGTAATTTTACAATCGAGGGTATTTCGGTAATTTTACAAATCGA
Found at i:61652880 original size:107 final size:107
Alignment explanation
Indices: 61652755--61652986 Score: 254
Period size: 107 Copynumber: 2.2 Consensus size: 107
61652745 AACCCTACAG
* ** *
61652755 GGGTATTTCAATAATTTTGTAAATC-GAGGGTAAAACGGTAATTCTATAAATCG-GGGTACTTT-
1 GGGTATTTCAGTAATTTTGTAAA-CAGAGGGTAAAACAATAATTCTACAAATCGAGGGTA-TTTC
* * *
61652817 GGTAATTTTACAAGGCGAGGGTATTTCAGTAATATTACAAATTAA
64 AGTAATTTTACAA-GCGACGGTATTTCAGTAATATTACAAATCAA
* *** * * *
61652862 GGGTATTTTAGTAATTTTGTAAACAGAGGGTATTTCAATAATTTTACAAATTGATGGTATTTCAG
1 GGGTATTTCAGTAATTTTGTAAACAGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCAG
* * * *
61652927 TAATTTTACAATCGACGGTATTTCGGTAATTTTACAAATCGA
66 TAATTTTACAAGCGACGGTATTTCAGTAATATTACAAATCAA
61652969 GGGTATTTCAGTAATTTT
1 GGGTATTTCAGTAATTTT
61652987 ACAATCGACG
Statistics
Matches: 103, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
106 1 0.01
107 86 0.83
108 16 0.16
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (107 bp):
GGGTATTTCAGTAATTTTGTAAACAGAGGGTAAAACAATAATTCTACAAATCGAGGGTATTTCAG
TAATTTTACAAGCGACGGTATTTCAGTAATATTACAAATCAA
Done.