Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 418 of 427
Found at i:121455579 original size:16 final size:16
Alignment explanation
Indices: 121455558--121455588 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
121455548 GATATTTTAA
121455558 TATATTATATTAATAT
1 TATATTATATTAATAT
*
121455574 TATATTATGTTAATA
1 TATATTATATTAATA
121455589 AAATAATAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TATATTATATTAATAT
Found at i:121455689 original size:23 final size:23
Alignment explanation
Indices: 121455663--121455709 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
121455653 AACGGGAAGC
121455663 AGGG-AAGAAAAAGAGAAAGAGAA
1 AGGGAAAGAAAAAGA-AAAGAGAA
*
121455686 AGGGAAAGAAAAATAAAAGAGAA
1 AGGGAAAGAAAAAGAAAAGAGAA
121455709 A
1 A
121455710 ACTAAGGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (23 bp):
AGGGAAAGAAAAAGAAAAGAGAA
Found at i:121462365 original size:40 final size:38
Alignment explanation
Indices: 121462302--121462429 Score: 169
Period size: 35 Copynumber: 3.5 Consensus size: 38
121462292 ATGGGAAATG
**
121462302 CCATACCTACATTTCTTAACTCAGTATGGATTTGATAATA
1 CCATACCTACATTTCACAACTCAGTATGGA--TGATAATA
*
121462342 CCATACCTACATTTCACAGCTCAGTAT-G--GATAATA
1 CCATACCTACATTTCACAACTCAGTATGGATGATAATA
121462377 CCATACCTACATTTCACAACTCAGTATGGATG---ATA
1 CCATACCTACATTTCACAACTCAGTATGGATGATAATA
121462412 CCATACCTACATTTCACA
1 CCATACCTACATTTCACA
121462430 TTTTGCCATG
Statistics
Matches: 81, Mismatches: 4, Indels: 11
0.84 0.04 0.11
Matches are distributed among these distances:
35 54 0.67
36 1 0.01
38 1 0.01
39 1 0.01
40 24 0.30
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (38 bp):
CCATACCTACATTTCACAACTCAGTATGGATGATAATA
Found at i:121462386 original size:75 final size:73
Alignment explanation
Indices: 121462256--121462429 Score: 212
Period size: 75 Copynumber: 2.4 Consensus size: 73
121462246 GGTTTTCCTC
*** * * **
121462256 ATTGAAATACCATACCTACATTTTTTTTAGCTCGGTATGGGAAATGCCATACCTACATTTCTTAA
1 ATTGAAATACCATACCTACA--TTTCACAGCTCAGTATGGGAAATACCATACCTACATTTCACAA
121462321 CTCAGTATGG
64 CTCAGTATGG
121462331 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAGCTCAGTATGGGA-AATACCATACCTACATTTCACA
121462395 ACTCAGTATGG
63 ACTCAGTATGG
121462406 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
121462430 TTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 3 0.03
75 44 0.49
76 4 0.04
77 15 0.17
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.33
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAGCTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:121464681 original size:244 final size:244
Alignment explanation
Indices: 121464245--121464726 Score: 874
Period size: 244 Copynumber: 2.0 Consensus size: 244
121464235 GGAACAAGAA
*
121464245 TGACTCCTTTACCAAATTGGTCAAATAGATCGGCGATTGCTTCATCTATATGCCTTAAAGCCCTA
1 TGACTCATTTACCAAATTGGTCAAATAGATCGGCGATTGCTTCATCTATATGCCTTAAAGCCCTA
* * * *
121464310 GGGAAAATAACCAAACCATAAACGCTCAAGGCGAAGACATCAACTCTTTTTTTTATATCTGGGTG
66 GGGAAAATAACCAAACCATAAACACTCAAGGCGAAAACATCAACTCTTTTTTTCATATCAGGGTG
*
121464375 TGTCAGGATCAGCTTTCTCAAATTTTCCCAAGGGATGCACTTTCCATTGCCTTTCTGCGGGACTC
131 TGTCAGGATCAGCTTTCTCAAATTTTCCCAAGGAATGCACTTTCCATTGCCTTTCTGCGGGACTC
*
121464440 GAGCTGTAACCCACTACTCACTCATCTCAGTGATGTTCATCAATCTCAG
196 GAGCTGCAACCCACTACTCACTCATCTCAGTGATGTTCATCAATCTCAG
121464489 TGACTCATTTACCAAATTGGTCAAATAGATCGGCGATTGCTTCATCTATATGCCTTAAAGCCCTA
1 TGACTCATTTACCAAATTGGTCAAATAGATCGGCGATTGCTTCATCTATATGCCTTAAAGCCCTA
121464554 GGGAAAATAACCAAACCATAAACACTCAAGGCGAAAACATCAACTCTTTTTTTCATATCAGGGTG
66 GGGAAAATAACCAAACCATAAACACTCAAGGCGAAAACATCAACTCTTTTTTTCATATCAGGGTG
* *
121464619 TGTCAGGATCAGCTTTCTCAAATTTTCCCAAGGAATGCACTTTCCATTGCGTTTCTGCGGGACTT
131 TGTCAGGATCAGCTTTCTCAAATTTTCCCAAGGAATGCACTTTCCATTGCCTTTCTGCGGGACTC
*
121464684 GAGCTGCAACCCACTGCTCACTCATCTCAGTGATGTTCATCAA
196 GAGCTGCAACCCACTACTCACTCATCTCAGTGATGTTCATCAA
121464727 CCTCTTTACA
Statistics
Matches: 228, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
244 228 1.00
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (244 bp):
TGACTCATTTACCAAATTGGTCAAATAGATCGGCGATTGCTTCATCTATATGCCTTAAAGCCCTA
GGGAAAATAACCAAACCATAAACACTCAAGGCGAAAACATCAACTCTTTTTTTCATATCAGGGTG
TGTCAGGATCAGCTTTCTCAAATTTTCCCAAGGAATGCACTTTCCATTGCCTTTCTGCGGGACTC
GAGCTGCAACCCACTACTCACTCATCTCAGTGATGTTCATCAATCTCAG
Found at i:121466799 original size:93 final size:93
Alignment explanation
Indices: 121466687--121466859 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
121466677 CGCCCATAAG
* *
121466687 CGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGA-CATTCGCATCCATAAGTGAACTCAGACTCAACTC
121466751 AACGAGCTCGGATGCCTAGTTACATCTCT
65 AACGAGCTCGGATGCCTAGTTACATCTCT
* *
121466780 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
121466845 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
121466860 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
93 72 0.97
94 2 0.03
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:121466850 original size:46 final size:47
Alignment explanation
Indices: 121466680--121466855 Score: 193
Period size: 46 Copynumber: 3.8 Consensus size: 47
121466670 TGTAACCCGC
* *
121466680 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
* * *
121466726 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA-G-C-ATTTGCAT
*
121466776 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGA-CATTTGCAT
1 C-CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
* * *
121466819 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGA
121466856 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 1 0.01
46 61 0.55
47 30 0.27
48 1 0.01
49 1 0.01
50 6 0.05
51 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGAGCATTTGCAT
Found at i:121466874 original size:46 final size:46
Alignment explanation
Indices: 121466731--121466874 Score: 120
Period size: 46 Copynumber: 3.1 Consensus size: 46
121466721 CGCATCCATA
* * *
121466731 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATC-CT
* *
121466780 --CGAACTCGGACTCAACTCAACGAGTTCGGA----CATTTGCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC-T
* *
121466823 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
121466870 AGTGA
1 AGTGA
121466875 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
41 1 0.01
42 1 0.01
43 5 0.07
46 33 0.43
47 29 0.38
48 4 0.05
50 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCT
Found at i:121470558 original size:19 final size:17
Alignment explanation
Indices: 121470526--121470561 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
121470516 TCCGAATGGG
121470526 AAGAAAAAAAAATAAAA
1 AAGAAAAAAAAATAAAA
121470543 AAGAAGAAATAAAATAAAA
1 AAGAA-AAA-AAAATAAAA
121470562 TCACATTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAGAAAAAAAAATAAAA
Found at i:121471400 original size:87 final size:83
Alignment explanation
Indices: 121471200--121471421 Score: 230
Period size: 87 Copynumber: 2.6 Consensus size: 83
121471190 TTGCTCAACG
*
121471200 AAGATAAGATCTGTAATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCAGGTCTTTGACC
1 AAGATAAGATCTGTAATTTTAG-CTGTTACCCTACTGCTTAGGGGGTTAAGGCAGATCTTTGACC
*
121471265 TGCTCCACCACTGTTCGGA
65 TGCTCCACCACTGTTCAGA
* ** * * *
121471284 GAGCCAGGATCTGTAAATTTTAGGCTGTTACCCTACTGCTTCGGGGGTTACGGCGAGTATCTTTG
1 AAGATAAGATCTGT-AATTTTA-GCTGTTACCCTACTGCTTAGGGGGTTAAGGC-AG-ATCTTTG
* * *
121471349 ATCTGCTCCACTATTGCTT-AGA
62 ACCTGCTCCACCACTG-TTCAGA
* * * *
121471371 AAGATAAGATCTGTAATCTTCAACTTGTTACCCTATTGCTTAGGGAGTTAA
1 AAGATAAGATCTGTAAT-TTTAGC-TGTTACCCTACTGCTTAGGGGGTTAA
121471422 AGCCTGCAAT
Statistics
Matches: 110, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
84 10 0.09
85 35 0.32
86 7 0.06
87 56 0.51
88 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (83 bp):
AAGATAAGATCTGTAATTTTAGCTGTTACCCTACTGCTTAGGGGGTTAAGGCAGATCTTTGACCT
GCTCCACCACTGTTCAGA
Found at i:121471407 original size:44 final size:44
Alignment explanation
Indices: 121471359--121471472 Score: 122
Period size: 44 Copynumber: 2.6 Consensus size: 44
121471349 ATCTGCTCCA
* *
121471359 CTATTGCTTAGAAAGAT-AAGATCTGTAATCTTCAACTTGTTACC
1 CTATTGCTTAGAAAGATAAAG-CCTGCAATCTTCAACTTGTTACC
** * **
121471403 CTATTGCTTAGGGAGTTAAAGCCTGCAATCTTCAGTTTGTTACC
1 CTATTGCTTAGAAAGATAAAGCCTGCAATCTTCAACTTGTTACC
** *
121471447 CTATTGCTTAGGGAGTTAAAGCCTGC
1 CTATTGCTTAGAAAGATAAAGCCTGC
121471473 TGTTTTCGAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 59 0.95
45 3 0.05
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (44 bp):
CTATTGCTTAGAAAGATAAAGCCTGCAATCTTCAACTTGTTACC
Found at i:121479289 original size:39 final size:38
Alignment explanation
Indices: 121479160--121479293 Score: 107
Period size: 39 Copynumber: 3.5 Consensus size: 38
121479150 ATTATATCGA
* *
121479160 TAATAAAATTTATTTTATTTTTAA-AAATATTTAAAATAT
1 TAATATAATTTA-TTTATTTTTAATATATA-TTAAAATAT
**
121479199 TAATATAAAATATTATATTTTTAATAT-TATTAAAAGTA-
1 TAATATAATTTATT-TATTTTTAATATATATTAAAA-TAT
* * * *
121479237 CATATTTAA-TTATTTATATTTAATCATATAATAAAATAT
1 TA-ATATAATTTATTTATTTTTAAT-ATATATTAAAATAT
121479276 TAATATAATTTA-TTATTT
1 TAATATAATTTATTTATTT
121479294 CAATAAATTA
Statistics
Matches: 75, Mismatches: 12, Indels: 17
0.72 0.12 0.16
Matches are distributed among these distances:
37 9 0.12
38 27 0.36
39 38 0.51
40 1 0.01
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
TAATATAATTTATTTATTTTTAATATATATTAAAATAT
Found at i:121479403 original size:15 final size:15
Alignment explanation
Indices: 121479383--121479439 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
121479373 ATTCAATACT
121479383 AATATTTTAATAATA
1 AATATTTTAATAATA
*
121479398 AATATTTATTATAATTATA
1 AATA--T-TT-TAATAATA
*
121479417 AATATATTAATAATA
1 AATATTTTAATAATA
*
121479432 AATGTTTT
1 AATATTTT
121479440 GTAGTATAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 17 0.52
16 1 0.03
17 2 0.06
18 2 0.06
19 11 0.33
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:121479412 original size:19 final size:19
Alignment explanation
Indices: 121479385--121479421 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
121479375 TCAATACTAA
*
121479385 TATTTTAATAATAAATATT
1 TATTATAATAATAAATATT
*
121479404 TATTATAATTATAAATAT
1 TATTATAATAATAAATAT
121479422 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATAATAATAAATATT
Found at i:121481116 original size:2 final size:2
Alignment explanation
Indices: 121481104--121481139 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
121481094 ATTTTTAAAA
*
121481104 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121481140 GTTAGTTTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:121481471 original size:2 final size:2
Alignment explanation
Indices: 121481464--121481495 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
121481454 CAATACATAC
121481464 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121481496 TTGTGGCTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121482429 original size:27 final size:28
Alignment explanation
Indices: 121482373--121482429 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 28
121482363 TGAGCTTTTG
* *
121482373 ATTTTTAATATATATTAAATATTTTTAT
1 ATTTTAAATATATATTAAATATTTTAAT
*
121482401 ATTTTAAAT-TATATT-ATTATTCTTAAT
1 ATTTTAAATATATATTAAATATT-TTAAT
121482428 AT
1 AT
121482430 ATATTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 5 0.20
27 12 0.48
28 8 0.32
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTTTAAATATATATTAAATATTTTAAT
Found at i:121509024 original size:11 final size:11
Alignment explanation
Indices: 121509008--121509037 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
121508998 CGTAGGATCT
121509008 AGTCACAGCCA
1 AGTCACAGCCA
121509019 AGTCACAGCCA
1 AGTCACAGCCA
121509030 AGTCACAG
1 AGTCACAG
121509038 GTCTAGACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.33, G:0.20, T:0.10
Consensus pattern (11 bp):
AGTCACAGCCA
Found at i:121516192 original size:24 final size:24
Alignment explanation
Indices: 121516165--121516210 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
121516155 AATGCTCAAC
*
121516165 AAATATATAAAAAAATTAAATATT
1 AAATAAATAAAAAAATTAAATATT
* *
121516189 AAATAAATAATAAATTTAAATA
1 AAATAAATAAAAAAATTAAATA
121516211 GGTTAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATAAATAAAAAAATTAAATATT
Found at i:121518089 original size:18 final size:18
Alignment explanation
Indices: 121518062--121518114 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 18
121518052 ATAAGTTATC
*
121518062 AATTATTTTTTTTATCAA
1 AATTAATTTTTTTATCAA
121518080 AATTAA---TTTT-TCAA
1 AATTAATTTTTTTATCAA
*
121518094 AACTAATCTTTTTTATCAA
1 AATTAAT-TTTTTTATCAA
121518113 AA
1 AA
121518115 ACTTTCACAA
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
14 9 0.32
15 4 0.14
18 9 0.32
19 6 0.21
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTAATTTTTTTATCAA
Found at i:121522005 original size:21 final size:21
Alignment explanation
Indices: 121521981--121522020 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
121521971 TGGGAAATAT
* *
121521981 ATTTTAATATTAAATACAAAA
1 ATTTAAATATTAAAAACAAAA
*
121522002 ATTTAAATTTTAAAAACAA
1 ATTTAAATATTAAAAACAA
121522021 GATTAAGAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTTAAATATTAAAAACAAAA
Found at i:121523956 original size:22 final size:20
Alignment explanation
Indices: 121523915--121523957 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
121523905 GATAATAGAT
*
121523915 ATAAAATTTTAAAGTAAATA
1 ATAAAATTTTAAAATAAATA
*
121523935 ATAAAATGATTTAAAATGAATA
1 ATAAAAT--TTTAAAATAAATA
121523957 A
1 A
121523958 CACATAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (20 bp):
ATAAAATTTTAAAATAAATA
Found at i:121528199 original size:17 final size:17
Alignment explanation
Indices: 121528179--121528225 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
121528169 TCTCTATTCA
121528179 ATTTCAATATCAATATC
1 ATTTCAATATCAATATC
*
121528196 ATTTC-TTATTCAATATC
1 ATTTCAATA-TCAATATC
*
121528213 A-TTCAATGTCAAT
1 ATTTCAATATCAAT
121528226 CATTTAATCA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.36, C:0.17, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTTCAATATCAATATC
Found at i:121529266 original size:21 final size:20
Alignment explanation
Indices: 121529232--121529271 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
121529222 CCCTAATTTC
*
121529232 TCTTTTTTCTTTTCTTTCTT
1 TCTTTTTTCCTTTCTTTCTT
121529252 TCTTTTTCTCCTTTCTTTCT
1 TCTTTTT-TCCTTTCTTTCT
121529272 CCTGTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (20 bp):
TCTTTTTTCCTTTCTTTCTT
Found at i:121529312 original size:15 final size:16
Alignment explanation
Indices: 121529292--121529322 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
121529282 TTTCAATTCG
121529292 GTTTCTTTG-TTCTTT
1 GTTTCTTTGTTTCTTT
121529307 GTTTCTTTGTTTCTTT
1 GTTTCTTTGTTTCTTT
121529323 TTTTATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.00, C:0.13, G:0.13, T:0.74
Consensus pattern (16 bp):
GTTTCTTTGTTTCTTT
Found at i:121529314 original size:8 final size:8
Alignment explanation
Indices: 121529292--121529322 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
121529282 TTTCAATTCG
121529292 GTTTCTTT
1 GTTTCTTT
121529300 G-TTCTTT
1 GTTTCTTT
121529307 GTTTCTTT
1 GTTTCTTT
121529315 GTTTCTTT
1 GTTTCTTT
121529323 TTTTATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.32
8 15 0.68
ACGTcount: A:0.00, C:0.13, G:0.13, T:0.74
Consensus pattern (8 bp):
GTTTCTTT
Found at i:121529345 original size:17 final size:17
Alignment explanation
Indices: 121529323--121529356 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
121529313 TTGTTTCTTT
121529323 TTTTATGTTTTATTTTA
1 TTTTATGTTTTATTTTA
121529340 TTTTATGTTTTATTTTA
1 TTTTATGTTTTATTTTA
121529357 ATTATGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (17 bp):
TTTTATGTTTTATTTTA
Found at i:121535649 original size:20 final size:20
Alignment explanation
Indices: 121535610--121535650 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
121535600 GTCATGGAGG
*
121535610 TACTTTTAATAATTTCTTTT
1 TACTTTTAATAATTTATTTT
121535630 TACTTTTAATTAA-TTATTTT
1 TACTTTTAA-TAATTTATTTT
121535650 T
1 T
121535651 TATAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 16 0.84
21 3 0.16
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (20 bp):
TACTTTTAATAATTTATTTT
Found at i:121538986 original size:2 final size:2
Alignment explanation
Indices: 121538979--121539006 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
121538969 AAAATTAATA
121538979 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
121539007 CTTCAAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:121542081 original size:19 final size:19
Alignment explanation
Indices: 121542057--121542099 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
121542047 ATAAATTCAT
121542057 AATGTTGGAATTGTGCATA
1 AATGTTGGAATTGTGCATA
*
121542076 AATGTTGGCATTGTGCATA
1 AATGTTGGAATTGTGCATA
*
121542095 CATGT
1 AATGT
121542100 AGAAATGGGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.26, T:0.37
Consensus pattern (19 bp):
AATGTTGGAATTGTGCATA
Found at i:121543713 original size:16 final size:15
Alignment explanation
Indices: 121543692--121543746 Score: 74
Period size: 16 Copynumber: 3.5 Consensus size: 15
121543682 GCACAATAAC
121543692 ATTTATATTAACTCTA
1 ATTTATATTAA-TCTA
*
121543708 ATTTATATTTAATTTA
1 ATTTATA-TTAATCTA
121543724 ATTATATATTAATCTA
1 ATT-TATATTAATCTA
121543740 ATTTATA
1 ATTTATA
121543747 AAAATGGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
15 4 0.11
16 23 0.66
17 8 0.23
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTATATTAATCTA
Found at i:121544363 original size:22 final size:22
Alignment explanation
Indices: 121544319--121544364 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
121544309 ATAGTTAATA
* *
121544319 TTAAATTTTGAATTTGATTAAT
1 TTAAATTTTGAATTGGATAAAT
121544341 TTAAA-TTTGAATTGGACTAAAT
1 TTAAATTTTGAATTGGA-TAAAT
121544363 TT
1 TT
121544365 TTAAATGTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 10 0.48
22 11 0.52
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (22 bp):
TTAAATTTTGAATTGGATAAAT
Found at i:121547129 original size:16 final size:15
Alignment explanation
Indices: 121547108--121547160 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 15
121547098 GCACAATAAC
121547108 ATTTATATTAACTCTA
1 ATTTATATTAA-TCTA
*
121547124 ATTTATATTTAATTTA
1 ATTTATA-TTAATCTA
*
121547140 ATTGTATACTAATCTA
1 ATT-TATATTAATCTA
121547156 ATTTA
1 ATTTA
121547161 CAAAAATGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.06
16 22 0.69
17 8 0.25
ACGTcount: A:0.38, C:0.08, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTATATTAATCTA
Found at i:121547727 original size:18 final size:18
Alignment explanation
Indices: 121547690--121547727 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
121547680 AAATTTAAGT
*
121547690 ATTAAATTGAATATTGAA
1 ATTAAATTGAATATTCAA
121547708 ATTAAATT-AATATATCAA
1 ATTAAATTGAATAT-TCAA
121547726 AT
1 AT
121547728 AGAATATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (18 bp):
ATTAAATTGAATATTCAA
Found at i:121549107 original size:13 final size:13
Alignment explanation
Indices: 121549091--121549120 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
121549081 GTGCTGCAAA
121549091 AAAAATGCTTATG
1 AAAAATGCTTATG
*
121549104 AAAAATGCTTTTG
1 AAAAATGCTTATG
121549117 AAAA
1 AAAA
121549121 GCTTGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.13, T:0.30
Consensus pattern (13 bp):
AAAAATGCTTATG
Found at i:121550720 original size:38 final size:38
Alignment explanation
Indices: 121550669--121550748 Score: 160
Period size: 38 Copynumber: 2.1 Consensus size: 38
121550659 ATTGGGGAAA
121550669 TTTTAAGCTACAATTTGATATTCGACACGGTAGATTAG
1 TTTTAAGCTACAATTTGATATTCGACACGGTAGATTAG
121550707 TTTTAAGCTACAATTTGATATTCGACACGGTAGATTAG
1 TTTTAAGCTACAATTTGATATTCGACACGGTAGATTAG
121550745 TTTT
1 TTTT
121550749 TATTGATGAG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (38 bp):
TTTTAAGCTACAATTTGATATTCGACACGGTAGATTAG
Found at i:121558618 original size:30 final size:30
Alignment explanation
Indices: 121558574--121558636 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
121558564 TCTTAACAAG
121558574 CAAATGCCTCTAAAATAATAACAAAACTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
* * *
121558604 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAACTAA
121558634 CAA
1 CAA
121558637 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAACTAA
Found at i:121562567 original size:102 final size:100
Alignment explanation
Indices: 121562431--121562633 Score: 232
Period size: 102 Copynumber: 2.0 Consensus size: 100
121562421 TAAGTGTTGG
* * * ** * * *
121562431 AATTGTTTTTATAAGAAAAAAAATTAGTATAAGGATAAATTTAGTCTTTGATTTTTA-TTTTTTT
1 AATTGTTTTTACAAGAAAAAAAAATAGTACAAGGATAAATTTAACCTTTAATGTGTATTTTTTTT
*
121562495 GGCATTTTAAATTTAATTTTTTTAGTTAAATTTGATCATT
66 AGC-TTTT--A-TT-ATTTTTTTAGTTAAATTTGATCATT
*
121562535 AATTG-TTTTACAA-AAAAAAAAATGGTACAAGGATAAATTTAACCTTTAATGTGTATTTTTTTT
1 AATTGTTTTTACAAGAAAAAAAAATAGTACAAGGATAAATTTAACCTTTAATGTGTATTTTTTTT
* *
121562598 AGCTTTTATTATTTTTTTTGTTAAATTTTATCATT
66 AGCTTTTATTATTTTTTTAGTTAAATTTGATCATT
121562633 A
1 A
121562634 GTTTTTATAA
Statistics
Matches: 86, Mismatches: 12, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
98 24 0.28
99 2 0.02
100 1 0.01
102 38 0.44
103 16 0.19
104 5 0.06
ACGTcount: A:0.35, C:0.04, G:0.10, T:0.51
Consensus pattern (100 bp):
AATTGTTTTTACAAGAAAAAAAAATAGTACAAGGATAAATTTAACCTTTAATGTGTATTTTTTTT
AGCTTTTATTATTTTTTTAGTTAAATTTGATCATT
Found at i:121570296 original size:32 final size:32
Alignment explanation
Indices: 121570260--121570325 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
121570250 GGGAAAAAAG
121570260 ATAACCATTTTCGATAAAGTAAATGGTACAGC
1 ATAACCATTTTCGATAAAGTAAATGGTACAGC
* *
121570292 ATAACCATTTTCGGTAAAGTAAATGGTACGGC
1 ATAACCATTTTCGATAAAGTAAATGGTACAGC
121570324 AT
1 AT
121570326 TCTTTAGCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (32 bp):
ATAACCATTTTCGATAAAGTAAATGGTACAGC
Found at i:121571070 original size:45 final size:45
Alignment explanation
Indices: 121571018--121571595 Score: 419
Period size: 45 Copynumber: 13.2 Consensus size: 45
121571008 TGCCACAGTG
* * * *
121571018 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACTTGTGAA-GCA
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTAC-TGTCAAGGCT
* * * * * **
121571063 ATCTCTTTATTAACCTTCTCAGCCGAGTTATTTACTGTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* * * *
121571108 GTTTCTTTCTTCACCTTCTC-GTTCGAGCTC-TTTACTGTCAAGGCC
1 GTCTCTTTCTTCATCTTCTCAGCT-GAGC-CATTTACTGTCAAGGCT
* *
121571153 GTCTCTTTCTTCATCTTCTCAGCCGAGCCATTAACTGT--A-GCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* * * ** *
121571195 GTCTCTTGTC-TCGTCTTCTCAGCTGAGCTATTCACTGTCCTGGCC
1 GTCTCTT-TCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* ** *
121571240 ATCTCTTTCTTCATCTTCTCAGCTGAGTTATTTATTGTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* * **
121571285 GTCTCTTTGTTCATCTTTTCAGCTGAGATATTTACTGTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* * *
121571330 GTCTCTTTCTTCATCTTTTCAGCTGAACCATTTTCTGT--A-GCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* *
121571372 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTTAATG---A---T
1 GTCTCTT-TCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* ** * *
121571411 GTTTCTTTCTTCATCTTCTCAGCTGAGTTATTTATTTTCAAGGCT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
* * * *
121571456 GTCTCTTTGTTCATCTTCTCCGCTGAGCTC-TTTATTGT--A-GTT
1 GTCTCTTTCTTCATCTTCTCAGCTGAGC-CATTTACTGTCAAGGCT
* * * *
121571498 GTCTCTCTT-TTCATCTCCTCAG-TGGAGCTATTTACTGTCATGGCC
1 GTCTCT-TTCTTCATCTTCTCAGCT-GAGCCATTTACTGTCAAGGCT
* * * * * *
121571543 ATCTCGTTCTTCATCTTCTCAGCTGAGCTATTCACTGTCGAGGCC
1 GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
*
121571588 ATCTCTTT
1 GTCTCTTT
121571596 GTTTGCCTTC
Statistics
Matches: 427, Mismatches: 79, Indels: 54
0.76 0.14 0.10
Matches are distributed among these distances:
38 2 0.00
39 31 0.07
41 2 0.00
42 96 0.22
43 9 0.02
44 11 0.03
45 274 0.64
46 2 0.00
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (45 bp):
GTCTCTTTCTTCATCTTCTCAGCTGAGCCATTTACTGTCAAGGCT
Found at i:121571321 original size:177 final size:175
Alignment explanation
Indices: 121571018--121571595 Score: 622
Period size: 177 Copynumber: 3.3 Consensus size: 175
121571008 TGCCACAGTG
* * * * * * *
121571018 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACT-TGTGAAGCAATCTCTTTATTAACCTTCT
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGTGTG--GCCATCTCTTTCTTCATCTTCT
* * * * * *
121571082 CAGCCGAGTTATTTACTGTCAAGGCTGTTTCTTTCTTCACCTTCTCGTTCGAGCTCTTTACTGTC
64 CAGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTCGCT-GAGCTCTTTACTGTC
* *
121571147 AAGGCCGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTAACTGTAGCT
128 AAGGCTGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
* *
121571195 GTCTCTTGTCTCGTCTTCTCAGCTGAGCTATTCACTGTCCTGGCCATCTCTTTCTTCATCTTCTC
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGT-GTGGCCATCTCTTTCTTCATCTTCTC
* * *
121571260 AGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTTTCAGCTGAGATATTTACTGTCA
65 AGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTC-GCTGAGCTCTTTACTGTCA
* * * *
121571325 AGGCTGTCTCTTTCTTCATCTTTTCAGCTGAACCATTTTCTGTAGCT
129 AGGCTGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
* *
121571372 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTAATGATGT-----T-TCTTTCTTCATCTTCTC
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTG-TGTGGCCATCTCTTTCTTCATCTTCTC
* *
121571431 AGCTGAGTTATTTATTTTCAAGGCTGTCTCTTTGTTCATCTTCTCCGCTGAGCTCTTTATTGT--
65 AGCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCT-CGCTGAGCTCTTTACTGTCA
* * ** * *
121571494 A-GTTGTCTCTCTT-TTCATCTCCTCAGTGGAGCTATTTACTGTCATGGCC
129 AGGCTGTCTCT-TTCTTCATCTTCTCAGCCGAGCCATTTACTGT-A--GCT
* * *
121571543 ATCTCGT-TCTTCATCTTCTCAGCTGAGCTATTCACTGTCGAGGCCATCTCTTT
1 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTCACTGT-GTGGCCATCTCTTT
121571596 GTTTGCCTTC
Statistics
Matches: 337, Mismatches: 47, Indels: 34
0.81 0.11 0.08
Matches are distributed among these distances:
168 30 0.09
169 4 0.01
170 3 0.01
171 106 0.31
172 2 0.01
176 1 0.00
177 185 0.55
178 4 0.01
179 2 0.01
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (175 bp):
GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTCACTGTGTGGCCATCTCTTTCTTCATCTTCTCA
GCTGAGTTATTTATTGTCAAGGCTGTCTCTTTGTTCATCTTCTCGCTGAGCTCTTTACTGTCAAG
GCTGTCTCTTTCTTCATCTTCTCAGCCGAGCCATTTACTGTAGCT
Found at i:121571322 original size:132 final size:134
Alignment explanation
Indices: 121571018--121571355 Score: 317
Period size: 132 Copynumber: 2.5 Consensus size: 134
121571008 TGCCACAGTG
* * * * ** * * *
121571018 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACTTGTGAA-GCAATCTCTTTATTAACCTTCT
1 GTCTCTTTCTTCATCTTCTCAGCCGAGACATTAAC-TGT-AAGGCTGTCTCTTTCTTCATCTTCT
* * * ** ** * * *
121571082 CAGCCGAGTTATTTACTGTCAAGGCTGTTTCTTTCTTCACCTTCTCGTTCGAGCTCTTTACTGTC
64 CAGCTGAGCTATTCACTGTCCTGGCCATCTCTTTCTTCACCTTCTCGCTCGAGCTATTTACTGTC
121571147 AAGGCC
129 AAGGCC
* *
121571153 GTCTCTTTCTTCATCTTCTCAGCCGAGCCATTAACTGT-A-GCTGTCTCTTGTC-TCGTCTTCTC
1 GTCTCTTTCTTCATCTTCTCAGCCGAGACATTAACTGTAAGGCTGTCTCTT-TCTTCATCTTCTC
* * *
121571215 AGCTGAGCTATTCACTGTCCTGGCCATCTCTTTCTTCATCTTCTCAGCT-GAGTTATTTATTGTC
65 AGCTGAGCTATTCACTGTCCTGGCCATCTCTTTCTTCACCTTCTC-GCTCGAGCTATTTACTGTC
*
121571279 AAGGCT
129 AAGGCC
* * * * * *
121571285 GTCTCTTTGTTCATCTTTTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTTTC
1 GTCTCTTTCTTCATCTTCTCAGCCGAGACATTAACTGT-AAGGCTGTCTCTTTCTTCATCTTCTC
121571350 AGCTGA
65 AGCTGA
121571356 ACCATTTTCT
Statistics
Matches: 166, Mismatches: 31, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
132 101 0.61
133 3 0.02
134 6 0.04
135 56 0.34
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (134 bp):
GTCTCTTTCTTCATCTTCTCAGCCGAGACATTAACTGTAAGGCTGTCTCTTTCTTCATCTTCTCA
GCTGAGCTATTCACTGTCCTGGCCATCTCTTTCTTCACCTTCTCGCTCGAGCTATTTACTGTCAA
GGCC
Found at i:121571404 original size:87 final size:87
Alignment explanation
Indices: 121571018--121571595 Score: 348
Period size: 87 Copynumber: 6.6 Consensus size: 87
121571008 TGCCACAGTG
* * * * * ** * * *
121571018 GTCTCTTTTTTCATCTTCTCAGCTGAGCCATTCACTTGTGAA-GCAATCTCTTTATTAACCTTCT
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTAC-TGTCAAGGCCGTCTCTTTCTTCATCTTCT
* ** *
121571082 CAGCCGAGTTATTTACTGTCAAGGCT
65 CAGCTGAGCCATTTTCTGT--A-GCT
* * * *
121571108 GTTTCTT-TCTTCACCTTCTC-GTTCGAGCTCTTTACTGTCAAGGCCGTCTCTTTCTTCATCTTC
1 GTCTCTTGTC-TCATCTTCTCAGCT-GAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTC
* **
121571171 TCAGCCGAGCCATTAACTGTAGCT
64 TCAGCTGAGCCATTTTCTGTAGCT
* * ** *
121571195 GTCTCTTGTCTCGTCTTCTCAGCTGAGCTATTCACTGTCCTGGCCATCTCTTTCTTCATCTTCTC
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCTC
**
121571260 AGCTGAGTTATTTAT-TGTCAAGGCT
66 AGCTGAGCCATTT-TCTGT--A-GCT
* * * *
121571285 GTCTCTTTGT-TCATCTTTTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTTT
1 GTCTC-TTGTCTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCT
*
121571349 CAGCTGAACCATTTTCTGTAGCT
65 CAGCTGAGCCATTTTCTGTAGCT
* * *
121571372 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTAATG---A---TGTTTCTTTCTTCATCTTCTC
1 GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCTC
** *
121571431 AGCTGAGTTATTTAT-TTTCAAGGCT
66 AGCTGAGCCATTT-TCTGT--A-GCT
* * * ** *
121571456 GTCTCTTTGT-TCATCTTCTCCGCTGAGCTCTTTATTGT--A-GTTGTCTCTCTT-TTCATCTCC
1 GTCTC-TTGTCTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCT-TTCTTCATCTTC
* * *
121571516 TCAG-TGGAGCTATTTACTGTCATGGCC
64 TCAGCT-GAGCCATTTTCTGT-A--GCT
* * * * *
121571543 ATCTCGT-TCTTCATCTTCTCAGCTGAGCTATTCACTGTCGAGGCCATCTCTTT
1 GTCTCTTGTC-TCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTT
121571596 GTTTGCCTTC
Statistics
Matches: 389, Mismatches: 70, Indels: 59
0.75 0.14 0.11
Matches are distributed among these distances:
81 31 0.08
82 1 0.00
83 1 0.00
84 33 0.08
85 6 0.02
86 7 0.02
87 156 0.40
88 8 0.02
89 13 0.03
90 129 0.33
91 4 0.01
ACGTcount: A:0.15, C:0.26, G:0.15, T:0.43
Consensus pattern (87 bp):
GTCTCTTGTCTCATCTTCTCAGCTGAGCTATTTACTGTCAAGGCCGTCTCTTTCTTCATCTTCTC
AGCTGAGCCATTTTCTGTAGCT
Found at i:121571453 original size:126 final size:126
Alignment explanation
Indices: 121571288--121571595 Score: 318
Period size: 126 Copynumber: 2.4 Consensus size: 126
121571278 CAAGGCTGTC
* * *
121571288 TCTTTGTTCATCTTTTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTTTCAGC
1 TCTTTCTTCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTCTCAGC
*
121571353 TGAAC-CATTT-TCTGTAGCTGTCTCT-TGTCTCATCTTCTCAGCT-GAGCTATTTAATGATGTT
66 TGAACTC-TTTAT-TGTAGCTGTCTCTCT-TCTCATCTCCTCAG-TGGAGCTATTTAATGATGTT
* * * * *
121571414 TCTTTCTTCATCTTCTCAGCTGAGTTATTTATTTTCAAGGCTGTCTCTTTGTTCATCTTCTCCGC
1 TCTTTCTTCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTCTCAGC
* * * *
121571479 TGAGCTCTTTATTGTAGTTGTCTCTCTTTTCATCTCCTCAGTGGAGCTATTTACTGTCATGGCCA
66 TGAACTCTTTATTGTAGCTGTCTCTCTTCTCATCTCCTCAGTGGAGCTATTTAATG--AT-G---
*
121571544 TC
125 TT
* * * * **
121571546 TCGTTCTTCATCTTCTCAGCTGAGCTATTCACTGTCGAGGCCATCTCTTT
1 TCTTTCTTCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTT
121571596 GTTTGCCTTC
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
125 1 0.01
126 100 0.67
127 3 0.02
128 2 0.01
129 1 0.01
132 43 0.29
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (126 bp):
TCTTTCTTCATCTTCTCAGCTGAGATATTTACTGTCAAGGCTGTCTCTTTCTTCATCTTCTCAGC
TGAACTCTTTATTGTAGCTGTCTCTCTTCTCATCTCCTCAGTGGAGCTATTTAATGATGTT
Found at i:121573447 original size:16 final size:16
Alignment explanation
Indices: 121573426--121573458 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
121573416 GTAACATTTC
121573426 ACAGGCAAAAGGATAA
1 ACAGGCAAAAGGATAA
121573442 ACAGGCAAAAGGATAA
1 ACAGGCAAAAGGATAA
121573458 A
1 A
121573459 ATACCAGGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.24, T:0.06
Consensus pattern (16 bp):
ACAGGCAAAAGGATAA
Found at i:121576661 original size:59 final size:59
Alignment explanation
Indices: 121576501--121576645 Score: 263
Period size: 59 Copynumber: 2.4 Consensus size: 59
121576491 ATATGCAAGC
*
121576501 CCATTTGGGGAGACTACTCAACCCACCAACCACTACACTCCACCCGTACCAGCCATACACT
1 CCATGTGGGGA-A-TACTCAACCCACCAACCACTACACTCCACCCGTACCAGCCATACACT
121576562 CCATGTGGGGAATACTCAACCCACCAACCACTACACTCCACCCGTACCAGCCATACACT
1 CCATGTGGGGAATACTCAACCCACCAACCACTACACTCCACCCGTACCAGCCATACACT
121576621 CCATGTGGGGAATACTCAACCCACC
1 CCATGTGGGGAATACTCAACCCACC
121576646 CAGCCCAACA
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
59 72 0.87
60 1 0.01
61 10 0.12
ACGTcount: A:0.30, C:0.41, G:0.13, T:0.16
Consensus pattern (59 bp):
CCATGTGGGGAATACTCAACCCACCAACCACTACACTCCACCCGTACCAGCCATACACT
Found at i:121578377 original size:26 final size:26
Alignment explanation
Indices: 121578341--121578475 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
121578331 CATGAAATTC
121578341 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
121578367 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
121578393 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
121578418 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
121578444 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
121578470 TTATCA
1 TTATCA
121578476 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:121578421 original size:51 final size:51
Alignment explanation
Indices: 121578341--121578475 Score: 243
Period size: 51 Copynumber: 2.6 Consensus size: 51
121578331 CATGAAATTC
*
121578341 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATG-AACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
121578393 TTATCATGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
1 TTATCATGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
121578444 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCAT-GAACATTTACCTAACCTATTATCA
121578476 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.33
Consensus pattern (51 bp):
TTATCATGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:121584194 original size:26 final size:26
Alignment explanation
Indices: 121584158--121584292 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
121584148 CATGAAATTC
121584158 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
121584184 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
121584210 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
121584236 TTATCATG-AACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
121584261 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
121584287 TTATCA
1 TTATCA
121584293 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
25 24 0.23
26 80 0.77
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:121584269 original size:51 final size:52
Alignment explanation
Indices: 121584158--121584292 Score: 245
Period size: 51 Copynumber: 2.6 Consensus size: 52
121584148 CATGAAATTC
* *
121584158 TTATCATGAAACATTTACCTAACCCATTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
121584210 TTATCATGGAACATTTACCTAACCTATTATCATG-AACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
121584261 TTATCATGGAACATTTACCTAACCTATTATCA
1 TTATCATGGAACATTTACCTAACCTATTATCA
121584293 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
51 49 0.60
52 32 0.40
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.33
Consensus pattern (52 bp):
TTATCATGGAACATTTACCTAACCTATTATCATGAAACATTTACCTAACCCA
Found at i:121585615 original size:22 final size:19
Alignment explanation
Indices: 121585590--121585639 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
121585580 GACATAACTC
*
121585590 ATATTATATATTATAAAATA
1 ATATTATATATCATAAAA-A
*
121585610 ATA-TATTTATTCATAAAAA
1 ATATTATATA-TCATAAAAA
121585629 ATATTATATAT
1 ATATTATATAT
121585640 GTTTCTCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTATATATCATAAAAA
Found at i:121585671 original size:19 final size:20
Alignment explanation
Indices: 121585626--121585676 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
121585616 TTATTCATAA
* *
121585626 AAAATATTATATATGTTTCTC
1 AAAATA-TAAATAAGTTTCTC
121585647 ATAAATATAAATAAGTTTCT-
1 A-AAATATAAATAAGTTTCTC
121585667 AAAATTATAA
1 AAAA-TATAA
121585677 CAAAGAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 3 0.12
20 6 0.23
21 12 0.46
22 5 0.19
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (20 bp):
AAAATATAAATAAGTTTCTC
Found at i:121591135 original size:28 final size:27
Alignment explanation
Indices: 121591095--121591148 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
121591085 AAGTTAGAAA
121591095 ATTTTTATGTATTTGTTTTA-TATATTTG
1 ATTTTTATGTA-TT-TTTTACTATATTTG
* *
121591123 ATTTTTCTTTATTTTTTACTATATTT
1 ATTTTTATGTATTTTTTACTATATTT
121591149 TAAATTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.22
27 9 0.39
28 9 0.39
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (27 bp):
ATTTTTATGTATTTTTTACTATATTTG
Found at i:121592643 original size:18 final size:18
Alignment explanation
Indices: 121592622--121592659 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
121592612 GATGACCACA
* *
121592622 AAGGTGAAGATGAAGCTG
1 AAGGCGAAGATGAAGATG
121592640 AAGGCGAAGATGAAGATG
1 AAGGCGAAGATGAAGATG
121592658 AA
1 AA
121592660 AGAGATGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.37, T:0.13
Consensus pattern (18 bp):
AAGGCGAAGATGAAGATG
Found at i:121598059 original size:39 final size:41
Alignment explanation
Indices: 121597983--121598061 Score: 117
Period size: 39 Copynumber: 2.0 Consensus size: 41
121597973 GTTATTAAAG
*
121597983 CTAAAATGGGTCCATTTCTTAAAAAAGGAAATTAAAATAAC
1 CTAAAATGGGCCCATTTCTTAAAAAAGGAAATTAAAATAAC
* *
121598024 CTAAAATGGGCCCATTT-TT-TAAAAGGGAATTAAAATAA
1 CTAAAATGGGCCCATTTCTTAAAAAAGGAAATTAAAATAA
121598062 TTTATTGTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 17 0.49
40 2 0.06
41 16 0.46
ACGTcount: A:0.47, C:0.11, G:0.14, T:0.28
Consensus pattern (41 bp):
CTAAAATGGGCCCATTTCTTAAAAAAGGAAATTAAAATAAC
Found at i:121601365 original size:93 final size:89
Alignment explanation
Indices: 121601246--121601417 Score: 245
Period size: 93 Copynumber: 1.9 Consensus size: 89
121601236 ATTTTCAATG
* * *
121601246 AAGTTATATAAAATGGAAGGTTAGGTGATGATAAATAATTCATTTTTAAAAAATTGCATCAATAT
1 AAGTTATATAAAATGGAACGTCAGGTGATGATAAATAATTCATTTTTAAAAAA---AAT-AATAT
*
121601311 TTTTAATTGTATTGTATAAATTTTTTTA
62 TTTTAATTATATTGTATAAATTTTTTTA
* * *
121601339 AAGTTATATAAAATGGAACGTCAGGTGATGATAACTAGTTTATTTTTAAAAAAAATAATATTTTT
1 AAGTTATATAAAATGGAACGTCAGGTGATGATAAATAATTCATTTTTAAAAAAAATAATATTTTT
121601404 AATTATATTGTATA
66 AATTATATTGTATA
121601418 TTTTCTTTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 22 0.31
90 2 0.03
93 48 0.67
ACGTcount: A:0.41, C:0.03, G:0.13, T:0.42
Consensus pattern (89 bp):
AAGTTATATAAAATGGAACGTCAGGTGATGATAAATAATTCATTTTTAAAAAAAATAATATTTTT
AATTATATTGTATAAATTTTTTTA
Found at i:121602146 original size:13 final size:13
Alignment explanation
Indices: 121602128--121602153 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
121602118 TTATGTGCTT
121602128 GATATATTGAAAA
1 GATATATTGAAAA
121602141 GATATATTGAAAA
1 GATATATTGAAAA
121602154 AGAGTTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
GATATATTGAAAA
Found at i:121603535 original size:13 final size:13
Alignment explanation
Indices: 121603519--121603543 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121603509 TTTCCACAGC
121603519 ACTTTTCAAAAAT
1 ACTTTTCAAAAAT
121603532 ACTTTTCAAAAA
1 ACTTTTCAAAAA
121603544 CATTGCCAAA
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
ACTTTTCAAAAAT
Found at i:121604831 original size:26 final size:27
Alignment explanation
Indices: 121604792--121604842 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
121604782 AAATTTCAAG
121604792 ATTATTTTATTTTAAAAT-TTATTTTT
1 ATTATTTTATTTTAAAATATTATTTTT
121604818 ATTATTTT-TATTTAAAATATTATTT
1 ATTATTTTAT-TTTAAAATATTATTT
121604843 GTAAAGATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 1 0.04
26 16 0.70
27 6 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTATTTTATTTTAAAATATTATTTTT
Found at i:121610732 original size:19 final size:18
Alignment explanation
Indices: 121610692--121610730 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 18
121610682 TTATTCAAGT
121610692 ATTTAATTATTTTTTTAGA
1 ATTTAATTATTTTTTTA-A
121610711 ATTTAATTTATTTTGTTTAA
1 ATTTAA-TTATTTT-TTTAA
121610731 TTAAAAGTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATTTAATTATTTTTTTAA
Found at i:121611743 original size:17 final size:17
Alignment explanation
Indices: 121611687--121611749 Score: 58
Period size: 17 Copynumber: 3.7 Consensus size: 17
121611677 TAATAAATAA
*
121611687 TAAATTATTTAATTTAAT
1 TAAAATATTT-ATTTAAT
* *
121611705 TTAAATGATTT-TTTAAA
1 TAAAAT-ATTTATTTAAT
*
121611722 AAAAATATTTATTTAAT
1 TAAAATATTTATTTAAT
121611739 TAAAAT-TTTAT
1 TAAAATATTTAT
121611750 GTTTATCTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
16 9 0.25
17 19 0.53
18 4 0.11
19 4 0.11
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TAAAATATTTATTTAAT
Found at i:121613862 original size:23 final size:24
Alignment explanation
Indices: 121613812--121613864 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
121613802 TATCAATTTA
* * *
121613812 AAAGAATATATTCATTCGAAAAAT
1 AAAGAATAAATTCATTCAAAAAAG
*
121613836 AAAGAATAAATT-GTTCAAAAAAG
1 AAAGAATAAATTCATTCAAAAAAG
121613859 AAAGAA
1 AAAGAA
121613865 AAAACCTTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.60, C:0.06, G:0.11, T:0.23
Consensus pattern (24 bp):
AAAGAATAAATTCATTCAAAAAAG
Found at i:121621618 original size:23 final size:23
Alignment explanation
Indices: 121621575--121621619 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
121621565 CAATGAAAAA
*
121621575 TAAAATAAAATTTCAAAATTTGT
1 TAAAATAAAATATCAAAATTTGT
*
121621598 TAAAATAAATATAT-AACATTTG
1 TAAAATAAA-ATATCAAAATTTG
121621620 ATTGAATCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.38
Consensus pattern (23 bp):
TAAAATAAAATATCAAAATTTGT
Found at i:121621988 original size:15 final size:15
Alignment explanation
Indices: 121621968--121621997 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
121621958 TATTTTTTAG
*
121621968 TTTTTTTAAATATAA
1 TTTTTTAAAATATAA
121621983 TTTTTTAAAATATAA
1 TTTTTTAAAATATAA
121621998 AATATAAATA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTTTAAAATATAA
Found at i:121623871 original size:28 final size:28
Alignment explanation
Indices: 121623839--121623930 Score: 82
Period size: 28 Copynumber: 3.2 Consensus size: 28
121623829 CTATTTTTAT
121623839 TATGTTATTATTGATTAATTTTAAATAA
1 TATGTTATTATTGATTAATTTTAAATAA
* * * *
121623867 TATGTTTCACTATTTATTCCCTATTTT---TAT
1 TATG-TT-ATTATTGATT---AATTTTAAATAA
121623897 TATGTTATTATTGATTAATTTTAAATAA
1 TATGTTATTATTGATTAATTTTAAATAA
121623925 TATGTT
1 TATGTT
121623931 TCACTATTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
25 5 0.10
28 20 0.42
29 4 0.08
30 14 0.29
33 5 0.10
ACGTcount: A:0.32, C:0.05, G:0.07, T:0.57
Consensus pattern (28 bp):
TATGTTATTATTGATTAATTTTAAATAA
Found at i:121623891 original size:58 final size:58
Alignment explanation
Indices: 121623826--121623942 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
121623816 AATGCTCTCC
121623826 TCCCTATTTTTATTATGTTATTATTGATTAATTTTAAATAATATGTTTCACTATTTAT
1 TCCCTATTTTTATTATGTTATTATTGATTAATTTTAAATAATATGTTTCACTATTTAT
121623884 TCCCTATTTTTATTATGTTATTATTGATTAATTTTAAATAATATGTTTCACTATTTAT
1 TCCCTATTTTTATTATGTTATTATTGATTAATTTTAAATAATATGTTTCACTATTTAT
121623942 T
1 T
121623943 ATATGTTATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.29, C:0.09, G:0.05, T:0.57
Consensus pattern (58 bp):
TCCCTATTTTTATTATGTTATTATTGATTAATTTTAAATAATATGTTTCACTATTTAT
Found at i:121628025 original size:19 final size:19
Alignment explanation
Indices: 121628001--121628075 Score: 116
Period size: 19 Copynumber: 3.9 Consensus size: 19
121627991 TTTTAAATTT
121628001 TTTTAAAAAATTAAAAATA
1 TTTTAAAAAATTAAAAATA
121628020 TTTTAAAAAATTAAAAATA
1 TTTTAAAAAATTAAAAATA
121628039 TTTTAAAAAATTAAAAAT-
1 TTTTAAAAAATTAAAAATA
* *
121628057 TATTAAAATTATTAAAAAT
1 TTTTAAAA-AATTAAAAAT
121628076 GATAAAAATA
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
18 7 0.13
19 46 0.87
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TTTTAAAAAATTAAAAATA
Found at i:121628027 original size:11 final size:11
Alignment explanation
Indices: 121628011--121628047 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
121628001 TTTTAAAAAA
121628011 TTAAAAATATT
1 TTAAAAATATT
121628022 TTAAAAA-A--
1 TTAAAAATATT
121628030 TTAAAAATATT
1 TTAAAAATATT
121628041 TTAAAAA
1 TTAAAAA
121628048 ATTAAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 7 0.30
9 1 0.04
10 1 0.04
11 14 0.61
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
TTAAAAATATT
Found at i:121628061 original size:10 final size:10
Alignment explanation
Indices: 121628010--121628084 Score: 63
Period size: 9 Copynumber: 7.9 Consensus size: 10
121628000 TTTTTAAAAA
121628010 ATTAAAAATAT
1 ATTAAAAAT-T
*
121628021 TTTAAAAA--
1 ATTAAAAATT
121628029 ATTAAAAATAT
1 ATTAAAAAT-T
*
121628040 TTTAAAAA--
1 ATTAAAAATT
121628048 ATTAAAAATT
1 ATTAAAAATT
121628058 ATT-AAAATT
1 ATTAAAAATT
*
121628067 ATTAAAAATG
1 ATTAAAAATT
121628077 A-TAAAAAT
1 ATTAAAAAT
121628085 ATATATTATT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
8 14 0.26
9 16 0.30
10 9 0.17
11 14 0.26
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:121628065 original size:28 final size:27
Alignment explanation
Indices: 121628025--121628107 Score: 75
Period size: 26 Copynumber: 3.1 Consensus size: 27
121628015 AAATATTTTA
121628025 AAAAATTA-AAAATATTTTAAAAAATT
1 AAAAATTATAAAATATTTTAAAAAATT
*
121628051 AAAAATTATTAAAAT-TATT-AAAAATGAT
1 AAAAATTA-TAAAATATTTTAAAAAAT--T
* *
121628079 AAAAA-TATATATTATTTTTAAAAAATT
1 AAAAATTATAAAATA-TTTTAAAAAATT
121628106 AA
1 AA
121628108 TTAAATGACG
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
26 18 0.39
27 8 0.17
28 14 0.30
29 6 0.13
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.37
Consensus pattern (27 bp):
AAAAATTATAAAATATTTTAAAAAATT
Found at i:121628081 original size:9 final size:9
Alignment explanation
Indices: 121628006--121628089 Score: 57
Period size: 9 Copynumber: 9.1 Consensus size: 9
121627996 AATTTTTTTA
121628006 AAAAATTA-
1 AAAAATTAT
*
121628014 AAAATATTTT
1 AAAA-ATTAT
121628024 AAAAAATTA-
1 -AAAAATTAT
*
121628033 AAAATATTTT
1 AAAA-ATTAT
*
121628043 AAAAAAT-T
1 AAAAATTAT
121628051 AAAAATTAT
1 AAAAATTAT
*
121628060 TAAAATTATT
1 AAAAATTA-T
*
121628070 AAAAATGAT
1 AAAAATTAT
121628079 AAAAATATAT
1 AAAAAT-TAT
121628089 A
1 A
121628090 TTATTTTTAA
Statistics
Matches: 59, Mismatches: 9, Indels: 14
0.72 0.11 0.17
Matches are distributed among these distances:
8 15 0.25
9 23 0.39
10 17 0.29
11 4 0.07
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (9 bp):
AAAAATTAT
Found at i:121628083 original size:19 final size:19
Alignment explanation
Indices: 121628048--121628084 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
121628038 ATTTTAAAAA
* *
121628048 ATTAAAAATTATTAAAATT
1 ATTAAAAATGATAAAAATT
121628067 ATTAAAAATGATAAAAAT
1 ATTAAAAATGATAAAAAT
121628085 ATATATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
ATTAAAAATGATAAAAATT
Found at i:121628905 original size:10 final size:10
Alignment explanation
Indices: 121628890--121628916 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
121628880 TAAATAAAAT
121628890 TTAAAATACA
1 TTAAAATACA
121628900 TTAAAATACA
1 TTAAAATACA
121628910 TTAAAAT
1 TTAAAAT
121628917 TTTATTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (10 bp):
TTAAAATACA
Found at i:121631681 original size:23 final size:23
Alignment explanation
Indices: 121631653--121631699 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
121631643 ATGAAGCATA
121631653 ATAAATATTAAAAAATATATATG
1 ATAAATATTAAAAAATATATATG
* * * *
121631676 ATAAATTTTTAAAATTATTTATG
1 ATAAATATTAAAAAATATATATG
121631699 A
1 A
121631700 AATAAAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (23 bp):
ATAAATATTAAAAAATATATATG
Found at i:121634426 original size:17 final size:18
Alignment explanation
Indices: 121634404--121634441 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
121634394 GTGTTAATCA
121634404 TTTTTAATA-TTGTTATT
1 TTTTTAATATTTGTTATT
*
121634421 TTTTTAATATTTTTTATT
1 TTTTTAATATTTGTTATT
121634439 TTT
1 TTT
121634442 ATAAAGGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTAATATTTGTTATT
Found at i:121643111 original size:32 final size:32
Alignment explanation
Indices: 121643047--121643111 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
121643037 TTTGATAATA
* * **
121643047 ACTAAAAATTAAATGTTTATATACATTTATTT
1 ACTAAAAATTAAATGATAATATACATAAATTT
121643079 ACTAAAAATTAAATGATAATA-ACTATAAATTT
1 ACTAAAAATTAAATGATAATATAC-ATAAATTT
121643111 A
1 A
121643112 GTTAAAAAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 2 0.07
32 26 0.93
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (32 bp):
ACTAAAAATTAAATGATAATATACATAAATTT
Found at i:121643181 original size:24 final size:23
Alignment explanation
Indices: 121643137--121643182 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
121643127 ATTGGATTAT
*
121643137 TTATTTAATTTAAATATATAAAA
1 TTATTTAATTTAAATAGATAAAA
* *
121643160 TTATTTATTTTTAAATGGATAAA
1 TTATTTA-ATTTAAATAGATAAA
121643183 GAAAATGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (23 bp):
TTATTTAATTTAAATAGATAAAA
Found at i:121643856 original size:21 final size:20
Alignment explanation
Indices: 121643824--121643862 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
121643814 AAGAGTAAAT
121643824 TAATCTTTTTATTAAAAAAA
1 TAATCTTTTTATTAAAAAAA
*
121643844 TAATTTTTATTATTAAAAA
1 TAATCTTT-TTATTAAAAA
121643863 TTAATCCGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
TAATCTTTTTATTAAAAAAA
Found at i:121654465 original size:3 final size:3
Alignment explanation
Indices: 121654457--121654512 Score: 76
Period size: 3 Copynumber: 18.7 Consensus size: 3
121654447 TCTAAGGACC
* * * *
121654457 ATA ATA ATA ATA ACA ATA ATA GTA ATA GTA ATA GTA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
121654505 ATA ATA AT
1 ATA ATA AT
121654513 TCTTTGTGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:121659980 original size:21 final size:21
Alignment explanation
Indices: 121659955--121659994 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
121659945 TAACGGGATT
*
121659955 GCTGATGTTACAAGTTAACCA
1 GCTGATGTGACAAGTTAACCA
*
121659976 GCTGATGTGGCAAGTTAAC
1 GCTGATGTGACAAGTTAAC
121659995 TTGCCACATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (21 bp):
GCTGATGTGACAAGTTAACCA
Found at i:121669773 original size:42 final size:42
Alignment explanation
Indices: 121669715--121669798 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
121669705 AGATTCAAAT
121669715 AATAAATATTTAAGAGTTAATATTACGAATAATAATTTAAAA
1 AATAAATATTTAAGAGTTAATATTACGAATAATAATTTAAAA
* * * **
121669757 AATAAATATTTGAGAGTTAATATTGCTAATTGTAATTTAAAA
1 AATAAATATTTAAGAGTTAATATTACGAATAATAATTTAAAA
121669799 TATTTTAGTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.50, C:0.02, G:0.10, T:0.38
Consensus pattern (42 bp):
AATAAATATTTAAGAGTTAATATTACGAATAATAATTTAAAA
Found at i:121670318 original size:6 final size:6
Alignment explanation
Indices: 121670309--121670333 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
121670299 TTGGCAGTCG
121670309 CAGCTT CAGCTT CAGCTT CAGCTT C
1 CAGCTT CAGCTT CAGCTT CAGCTT C
121670334 TTCCTTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.16, T:0.32
Consensus pattern (6 bp):
CAGCTT
Found at i:121672883 original size:14 final size:14
Alignment explanation
Indices: 121672864--121672892 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
121672854 AAATAAAAGT
121672864 GAAAGTGGATAGTG
1 GAAAGTGGATAGTG
121672878 GAAAGTGGATAGTG
1 GAAAGTGGATAGTG
121672892 G
1 G
121672893 TAAAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.45, T:0.21
Consensus pattern (14 bp):
GAAAGTGGATAGTG
Found at i:121673545 original size:28 final size:27
Alignment explanation
Indices: 121673498--121673550 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 27
121673488 TATTATAATT
121673498 TTATTTTATATCATAAAAAATTTAAAA
1 TTATTTTATATCATAAAAAATTTAAAA
*
121673525 TTATTTATATATTA-AATAAAATTTAA
1 TTATTT-TATATCATAA-AAAATTTAA
121673551 TTTGACTTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
27 8 0.35
28 15 0.65
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TTATTTTATATCATAAAAAATTTAAAA
Found at i:121674719 original size:1 final size:1
Alignment explanation
Indices: 121674704--121674752 Score: 53
Period size: 1 Copynumber: 49.0 Consensus size: 1
121674694 CCGTTATTTG
* * * * *
121674704 TTTTCTTTTTCTTTTTCTTTTTCTTTCTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
121674753 GTGTGTGGTT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 38 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:121674732 original size:16 final size:14
Alignment explanation
Indices: 121674704--121674752 Score: 64
Period size: 13 Copynumber: 3.4 Consensus size: 14
121674694 CCGTTATTTG
*
121674704 TTTTCTTTTTCTTT
1 TTTTTTTTTTCTTT
121674718 TTCTTTTTCTTTCTTT
1 TT-TTTTT-TTTCTTT
121674734 TTTTTTTTTT-TTT
1 TTTTTTTTTTCTTT
121674747 TTTTTT
1 TTTTTT
121674753 GTGTGTGGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 9 0.28
14 5 0.16
15 9 0.28
16 9 0.28
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (14 bp):
TTTTTTTTTTCTTT
Found at i:121674733 original size:22 final size:19
Alignment explanation
Indices: 121674704--121674752 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 19
121674694 CCGTTATTTG
121674704 TTTTCTTTTTCTTTTTCTTTT
1 TTTTCTTTTT-TTTTT-TTTT
121674725 TCTTTCTTTTTTTTTTTTTT
1 T-TTTCTTTTTTTTTTTTTT
121674745 TTTT-TTTT
1 TTTTCTTTT
121674753 GTGTGTGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 4 0.15
19 3 0.11
20 5 0.19
21 6 0.22
22 9 0.33
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (19 bp):
TTTTCTTTTTTTTTTTTTT
Found at i:121676698 original size:14 final size:14
Alignment explanation
Indices: 121676664--121676697 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
121676654 GTCAGTCACG
*
121676664 ATTTTCTATCTTTA
1 ATTTTTTATCTTTA
121676678 ATTTTTTATCTTT-
1 ATTTTTTATCTTTA
121676691 ATTTTTT
1 ATTTTTT
121676698 TGATTTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (14 bp):
ATTTTTTATCTTTA
Found at i:121685323 original size:11 final size:11
Alignment explanation
Indices: 121685307--121685331 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
121685297 AAAATATGGA
121685307 AATAAATATAT
1 AATAAATATAT
121685318 AATAAATATAT
1 AATAAATATAT
121685329 AAT
1 AAT
121685332 CTAGAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAAATATAT
Found at i:121704997 original size:20 final size:20
Alignment explanation
Indices: 121704958--121705008 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
121704948 CGTGTTTGCT
* *
121704958 TTCCGTTTAGCTCTTATGAGC
1 TTCCG-TTAACTCATATGAGC
*
121704979 TTCCGTTAACTCATATGAGT
1 TTCCGTTAACTCATATGAGC
*
121704999 TTCGGTTAAC
1 TTCCGTTAAC
121705009 CCTTTTGGGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.41
Consensus pattern (20 bp):
TTCCGTTAACTCATATGAGC
Found at i:121705087 original size:39 final size:40
Alignment explanation
Indices: 121705030--121705139 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 40
121705020 TTCAGTTCAA
121705030 CACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCG-TTTAG
1 CACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTTAG
* *
121705069 CACTTATGTGCTTTAGTTAGCCTCCGGGCTTCCGTTTTAG
1 CACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTTAG
* *
121705109 CACTTATGTGCTTCAGCTAGACTTCGGGCTT
1 CACTTATGTGCTTCAGTTAGCCTTCGGGCTT
121705140 TAGATCATGA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
39 32 0.50
40 32 0.50
ACGTcount: A:0.14, C:0.25, G:0.23, T:0.38
Consensus pattern (40 bp):
CACTTATGTGCTTCAGTTAGCCTTCGGGCTTCCGTTTTAG
Found at i:121706548 original size:22 final size:22
Alignment explanation
Indices: 121706523--121706565 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
121706513 TATCCAGACA
*
121706523 ATAACAACAAAATAGTAGCAAT
1 ATAACAACAAAATAATAGCAAT
*
121706545 ATAATAACAAAATAATAGCAA
1 ATAACAACAAAATAATAGCAA
121706566 AACAATGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAATAGCAAT
Found at i:121706578 original size:22 final size:21
Alignment explanation
Indices: 121706531--121706599 Score: 59
Period size: 22 Copynumber: 3.2 Consensus size: 21
121706521 CAATAACAAC
* * *
121706531 AAAATAGTAGCAATATAATAA
1 AAAATAATAGCAAAACAATAA
121706552 CAAAATAATAGCAAAACAATGAA
1 -AAAATAATAGCAAAACAAT-AA
* *
121706575 AAAACACT-GACAAAACAATAA
1 AAAATAATAG-CAAAACAATAA
121706596 AAAA
1 AAAA
121706600 AGTAACATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 7 0.17
22 31 0.77
23 2 0.05
ACGTcount: A:0.67, C:0.12, G:0.07, T:0.14
Consensus pattern (21 bp):
AAAATAATAGCAAAACAATAA
Found at i:121715302 original size:13 final size:13
Alignment explanation
Indices: 121715284--121715310 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
121715274 GATAAGCTAC
121715284 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
121715297 TCTTTTTTTTTTT
1 TCTTTTTTTTTTT
121715310 T
1 T
121715311 TGCAATGTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TCTTTTTTTTTTT
Found at i:121717594 original size:25 final size:23
Alignment explanation
Indices: 121717554--121717605 Score: 59
Period size: 25 Copynumber: 2.2 Consensus size: 23
121717544 AATATATATC
* *
121717554 TTTTTTTTGGTGTTTTAGAACTA
1 TTTTTTTTGGCGTTTTACAACTA
*
121717577 TTTTTTTTGTGCGTTTTTACTACTA
1 TTTTTTTTG-GCG-TTTTACAACTA
121717602 TTTT
1 TTTT
121717606 GCTGTCATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 2 0.08
25 13 0.54
ACGTcount: A:0.13, C:0.08, G:0.13, T:0.65
Consensus pattern (23 bp):
TTTTTTTTGGCGTTTTACAACTA
Found at i:121720417 original size:46 final size:46
Alignment explanation
Indices: 121720370--121720638 Score: 360
Period size: 46 Copynumber: 5.8 Consensus size: 46
121720360 GCTCTCTGAT
** * * *
121720370 ATGAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACCTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
121720416 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
*
121720462 ATGAAACGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
** *
121720508 GGGAAATGAATAAGACCATGGTTGAAAGATACCAAGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* *
121720554 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
* * * *
121720600 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 ATG-AAATGAATAAGACCATGGTTGAAAGATACCATGGCA
121720639 TCATGTCAAA
Statistics
Matches: 202, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 1 0.00
46 201 1.00
ACGTcount: A:0.42, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
Found at i:121726181 original size:21 final size:21
Alignment explanation
Indices: 121726148--121726187 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
121726138 TAACCACCCT
121726148 TATTGCCTATATATTTTTATA
1 TATTGCCTATATATTTTTATA
121726169 TATT-CCTATTATATTTTTA
1 TATTGCCTA-TATATTTTTA
121726188 ATGTGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.28, C:0.10, G:0.03, T:0.60
Consensus pattern (21 bp):
TATTGCCTATATATTTTTATA
Found at i:121728189 original size:22 final size:20
Alignment explanation
Indices: 121728164--121728208 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
121728154 ATTAATAAAA
121728164 TTAAAAAAAAATATATTATCTT
1 TTAAAAAAAAATAT-TTA-CTT
**
121728186 TTAAAAATTAATATTTACTT
1 TTAAAAAAAAATATTTACTT
121728206 TTA
1 TTA
121728209 TTAAACAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 12 0.57
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (20 bp):
TTAAAAAAAAATATTTACTT
Found at i:121728524 original size:31 final size:32
Alignment explanation
Indices: 121728481--121728557 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 32
121728471 TTAATATAAC
*
121728481 ATTTGGTACTTAAACCTT-ACACTTTTTCCTA
1 ATTTGGTACTTAAACCTTGACAATTTTTCCTA
* *
121728512 ATTTAGTACTTAAA-CTTGACAATTTTTCTTA
1 ATTTGGTACTTAAACCTTGACAATTTTTCCTA
*
121728543 AGTTGGTACTTAAAC
1 ATTTGGTACTTAAAC
121728558 TTTTTGAGGG
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.44
Consensus pattern (32 bp):
ATTTGGTACTTAAACCTTGACAATTTTTCCTA
Found at i:121729051 original size:58 final size:58
Alignment explanation
Indices: 121728974--121729084 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
121728964 CAAATTGAAC
* *
121728974 CTAAAAAAAGTTTAGGTACCAAATTAGTAAAAA-GTGTCAAATTCAGGTACAAATTAGG
1 CTAAAAAAAATTTACGTACCAAATTAG-AAAAAGGTGTCAAATTCAGGTACAAATTAGG
* *
121729032 CTAAAAAAAATTTACGTACCAAATTAGAAAAAGGTGTTAAGTTCAGGTACAAA
1 CTAAAAAAAATTTACGTACCAAATTAGAAAAAGGTGTCAAATTCAGGTACAAA
121729085 ATGTTATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
57 5 0.10
58 43 0.90
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (58 bp):
CTAAAAAAAATTTACGTACCAAATTAGAAAAAGGTGTCAAATTCAGGTACAAATTAGG
Found at i:121729790 original size:13 final size:13
Alignment explanation
Indices: 121729772--121729798 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
121729762 TCTCAATGCA
121729772 TGTTGAACTCGCC
1 TGTTGAACTCGCC
121729785 TGTTGAACTCGCC
1 TGTTGAACTCGCC
121729798 T
1 T
121729799 TCATGTTCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.22, T:0.33
Consensus pattern (13 bp):
TGTTGAACTCGCC
Found at i:121731909 original size:27 final size:27
Alignment explanation
Indices: 121731871--121731923 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
121731861 CTGTTGTTGA
121731871 TTGATTATTTGCTGCTCAACAAAACCC
1 TTGATTATTTGCTGCTCAACAAAACCC
121731898 TTGATTATTTGCTGCTCAACAAAACC
1 TTGATTATTTGCTGCTCAACAAAACC
121731924 TTATAGGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (27 bp):
TTGATTATTTGCTGCTCAACAAAACCC
Found at i:121733749 original size:15 final size:15
Alignment explanation
Indices: 121733713--121733754 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
121733703 ATAGTGAAAA
121733713 TATAATTTTATTATTT
1 TATAATTTT-TTATTT
121733729 TAATAATTTTTGT-TTT
1 T-ATAATTTTT-TATTT
121733745 TATAATTTTT
1 TATAATTTTT
121733755 AAAGGATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 9 0.38
16 6 0.25
17 9 0.38
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TATAATTTTTTATTT
Found at i:121737231 original size:18 final size:18
Alignment explanation
Indices: 121737193--121737251 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
121737183 GTGAGTATAA
* * *
121737193 AATTAACCGAATTAGTCG
1 AATTAACCAAATTACTTG
121737211 AATTAACCAAATTACTTG
1 AATTAACCAAATTACTTG
121737229 AATT-ACTCAAATTAAC-TG
1 AATTAAC-CAAATT-ACTTG
121737247 AATTA
1 AATTA
121737252 TTTGTATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 2 0.06
18 31 0.89
19 2 0.06
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.32
Consensus pattern (18 bp):
AATTAACCAAATTACTTG
Found at i:121737286 original size:6 final size:6
Alignment explanation
Indices: 121737271--121737316 Score: 58
Period size: 6 Copynumber: 7.5 Consensus size: 6
121737261 AATTATATGT
*
121737271 TTTTTA -TTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
121737317 ATTAAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
5 5 0.14
6 21 0.60
7 8 0.23
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.04, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:121738055 original size:22 final size:23
Alignment explanation
Indices: 121738030--121738082 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
121738020 TATTTTGAGG
*
121738030 TTAAAATATAATTTTAT-TATTA
1 TTAAAATATAATTTTATAAATTA
** *
121738052 TTAATTTAAAATTTTATAAATTA
1 TTAAAATATAATTTTATAAATTA
121738075 -TAAAATAT
1 TTAAAATAT
121738083 CTAAATGAAA
Statistics
Matches: 23, Mismatches: 7, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TTAAAATATAATTTTATAAATTA
Found at i:121738489 original size:35 final size:35
Alignment explanation
Indices: 121738443--121738510 Score: 118
Period size: 35 Copynumber: 1.9 Consensus size: 35
121738433 ACACTCAAAC
*
121738443 TTACATCTTTATCTATTGACAATAATATTCATATT
1 TTACATCTTTATCTATTGACAATAATACTCATATT
*
121738478 TTACATTTTTATCTATTGACAATAATACTCATA
1 TTACATCTTTATCTATTGACAATAATACTCATA
121738511 AAGTAAGATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.03, T:0.47
Consensus pattern (35 bp):
TTACATCTTTATCTATTGACAATAATACTCATATT
Found at i:121746139 original size:11 final size:11
Alignment explanation
Indices: 121746122--121746158 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
121746112 TTTAAGTGAG
121746122 CAAAAAAAAAA
1 CAAAAAAAAAA
121746133 -AAAAAAAAAA
1 CAAAAAAAAAA
*
121746143 CAAAAACAAAA
1 CAAAAAAAAAA
121746154 CAAAA
1 CAAAA
121746159 TGGACCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:121758822 original size:21 final size:21
Alignment explanation
Indices: 121758798--121758862 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
121758788 AAATCTAACT
121758798 GAAGCACAAAAGTGCTAAACA
1 GAAGCACAAAAGTGCTAAACA
** *
121758819 GAAGC-CCGAAG-GCT-AACT
1 GAAGCACAAAAGTGCTAAACA
* *
121758837 GAAGCACATAAGTGCTAAACG
1 GAAGCACAAAAGTGCTAAACA
121758858 GAAGC
1 GAAGC
121758863 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 7 0.20
21 13 0.37
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAGCACAAAAGTGCTAAACA
Found at i:121758850 original size:39 final size:39
Alignment explanation
Indices: 121758792--121758880 Score: 160
Period size: 39 Copynumber: 2.3 Consensus size: 39
121758782 TACTCGAAAT
121758792 CTAACTGAAGCACAAAAGTGCTAAACAGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACAGAAGCCCGAAGG
* *
121758831 CTAACTGAAGCACATAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACAAAAGTGCTAAACAGAAGCCCGAAGG
121758870 CTAACTGAAGC
1 CTAACTGAAGC
121758881 TCATCAAAGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 48 1.00
ACGTcount: A:0.40, C:0.24, G:0.24, T:0.12
Consensus pattern (39 bp):
CTAACTGAAGCACAAAAGTGCTAAACAGAAGCCCGAAGG
Found at i:121762172 original size:38 final size:38
Alignment explanation
Indices: 121762127--121762211 Score: 127
Period size: 38 Copynumber: 2.2 Consensus size: 38
121762117 GGCTTAGAGA
121762127 CCCGCAGGCTAT-ATGCTAGAATTATATCCGGGTTAAAT
1 CCCGCAGGCT-TCATGCTAGAATTATATCCGGGTTAAAT
* * *
121762165 CCCGCAGGCTTCGTGCTGGTATTATATCCGGGTTAAAT
1 CCCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAAT
121762203 CCCGCAGGC
1 CCCGCAGGC
121762212 CTAGTGCTGG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.02
38 42 0.98
ACGTcount: A:0.22, C:0.26, G:0.25, T:0.27
Consensus pattern (38 bp):
CCCGCAGGCTTCATGCTAGAATTATATCCGGGTTAAAT
Found at i:121762219 original size:38 final size:38
Alignment explanation
Indices: 121762147--121762230 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 38
121762137 ATATGCTAGA
* *
121762147 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
121762185 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
121762223 ATTATATC
1 ATTATATC
121762231 TAAGTTTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (38 bp):
ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
Found at i:121762259 original size:40 final size:38
Alignment explanation
Indices: 121762147--121762267 Score: 143
Period size: 38 Copynumber: 3.1 Consensus size: 38
121762137 ATATGCTAGA
**
121762147 ATTATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
** * *
121762185 ATTATATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGT
1 ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
* *
121762223 ATTATATCTAAGTTTAAAGTCCCGTAGGCTTCGTGCTGGT
1 ATTATATC-AAGGTTAAA-TCCCGCAGGCTTCGTGCTGGT
*
121762263 GTTAT
1 ATTAT
121762268 GTTCGGGTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
38 44 0.61
39 6 0.08
40 22 0.31
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (38 bp):
ATTATATCAAGGTTAAATCCCGCAGGCTTCGTGCTGGT
Found at i:121765323 original size:13 final size:11
Alignment explanation
Indices: 121765295--121765337 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
121765285 AGTTAAATAT
121765295 TATTTTATTAA
1 TATTTTATTAA
121765306 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
121765319 TA-TTTATTAT
1 TATTTTATTAA
121765329 TATTTTATT
1 TATTTTATT
121765338 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:121765324 original size:23 final size:23
Alignment explanation
Indices: 121765298--121765341 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
121765288 TAAATATTAT
121765298 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
121765321 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
121765342 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:121766680 original size:2 final size:2
Alignment explanation
Indices: 121766675--121766701 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
121766665 AAATATATGA
121766675 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
121766702 GTAAATGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:121794004 original size:29 final size:26
Alignment explanation
Indices: 121793957--121794023 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
121793947 ATATTTATTT
*
121793957 TAATATTTTT-AATATATTTGATATATTA
1 TAAT-TTTTTAAATATATTT--TATATAA
*
121793985 TATATTTTTTAAATTTATTTTATATAA
1 TA-ATTTTTTAAATATATTTTATATAA
121794012 TAATTTTTTAAA
1 TAATTTTTTAAA
121794024 AAAATAATAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 10 0.29
27 8 0.23
28 7 0.20
29 10 0.29
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATTTTTTAAATATATTTTATATAA
Found at i:121795413 original size:17 final size:19
Alignment explanation
Indices: 121795391--121795427 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
121795381 TTGTTAGCTC
*
121795391 TCTTCT-TAATTTC-TTTT
1 TCTTCTGTAAATTCATTTT
121795408 TCTTCTGTAAATTCATTTT
1 TCTTCTGTAAATTCATTTT
121795427 T
1 T
121795428 GAGATGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.16, C:0.16, G:0.03, T:0.65
Consensus pattern (19 bp):
TCTTCTGTAAATTCATTTT
Found at i:121797010 original size:27 final size:25
Alignment explanation
Indices: 121796957--121797010 Score: 63
Period size: 27 Copynumber: 2.1 Consensus size: 25
121796947 AGTAGAAGGG
* *
121796957 AATGGAAAATAAACAAATTTTAATA
1 AATGGAAAATAAAAAAATTGTAATA
*
121796982 AATGGAAAACATAAAAAAATTGTATTA
1 AATGG-AAA-ATAAAAAAATTGTAATA
121797009 AA
1 AA
121797011 AGAAATGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 5 0.21
26 3 0.12
27 16 0.67
ACGTcount: A:0.61, C:0.04, G:0.09, T:0.26
Consensus pattern (25 bp):
AATGGAAAATAAAAAAATTGTAATA
Found at i:121797056 original size:96 final size:96
Alignment explanation
Indices: 121796885--121797065 Score: 267
Period size: 96 Copynumber: 1.9 Consensus size: 96
121796875 TCTCCCTAAC
* *
121796885 AAATGAAAAACATAGAAAAACTGAATTAAAAGAAATGGAAAATGGAGGAGAACAGAGAGAGAAGT
1 AAATGAAAAACATAAAAAAACTGAATTAAAAGAAATGGAAAATGGAGGAAAACAGAGAGAGAAGT
*
121796950 AGAAGGGAATGGAAAATAAACAAATTTTAAT
66 AGAAGAGAATGGAAAATAAACAAATTTTAAT
* * * *
121796981 AAATGGAAAACATAAAAAAATTGTATTAAAAGAAATGGAAAATAGG-GGAAAATAGAGAGAGAAG
1 AAATGAAAAACATAAAAAAACTGAATTAAAAGAAATGGAAAAT-GGAGGAAAACAGAGAGAGAAG
121797045 TAG-AGTAGAATGGAAAATAAA
65 TAGAAG-AGAATGGAAAATAAA
121797066 GAAAAACAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
95 2 0.03
96 72 0.95
97 2 0.03
ACGTcount: A:0.58, C:0.03, G:0.23, T:0.16
Consensus pattern (96 bp):
AAATGAAAAACATAAAAAAACTGAATTAAAAGAAATGGAAAATGGAGGAAAACAGAGAGAGAAGT
AGAAGAGAATGGAAAATAAACAAATTTTAAT
Done.