Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 72 of 295
Found at i:20782495 original size:10 final size:10
Alignment explanation
Indices: 20782480--20782524 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
20782470 AATATATATT
20782480 TAAAAAATTA
1 TAAAAAATTA
20782490 TAAAAAATTCA
1 TAAAAAATT-A
*
20782501 -AAAAAATTC
1 TAAAAAATTA
20782510 TAAAAAATATA
1 TAAAAAAT-TA
20782521 TAAA
1 TAAA
20782525 GTAAGTTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
10 24 0.80
11 6 0.20
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:20784511 original size:70 final size:70
Alignment explanation
Indices: 20784437--20784601 Score: 156
Period size: 70 Copynumber: 2.4 Consensus size: 70
20784427 CTATCGGAGA
* * * *
20784437 CTACAAAATAAATCTT-CA-CTTTTATAGTGATCTACTAGTCCAGTTAGCAATGTACTTGCCTTA
1 CTACAAAATAAAT-TTCCATC-TTCATAGTGATATACTAGTCCAGTTAGCAATATACATGCCTTA
20784500 CCAGAGG
64 CCAGAGG
* * * * * *
20784507 CTACACAATATATTTCCATCTTCATAGTGATATGCTTGTTCGGTTAGCAATATACATGCCTTACC
1 CTACAAAATAAATTTCCATCTTCATAGTGATATACTAGTCCAGTTAGCAATATACATGCCTTACC
*
20784572 GGAGG
66 AGAGG
* * * *
20784577 CTGCACAATATATCTCC-TCTTCATA
1 CTACAAAATAAATTTCCATCTTCATA
20784602 TTTATACATA
Statistics
Matches: 80, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
69 10 0.12
70 69 0.86
71 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (70 bp):
CTACAAAATAAATTTCCATCTTCATAGTGATATACTAGTCCAGTTAGCAATATACATGCCTTACC
AGAGG
Found at i:20784900 original size:23 final size:23
Alignment explanation
Indices: 20784870--20784915 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
20784860 ATAAGAATGA
*
20784870 TATACAAAATTTGGCTTTAGAGG
1 TATACAAAATTTAGCTTTAGAGG
*
20784893 TATACAAAATTTAGTTTTAGAGG
1 TATACAAAATTTAGCTTTAGAGG
20784916 CTCATTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (23 bp):
TATACAAAATTTAGCTTTAGAGG
Found at i:20789907 original size:17 final size:17
Alignment explanation
Indices: 20789881--20789915 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
20789871 GATAGTGTAT
*
20789881 ACTGAAACTGTAGTAAA
1 ACTGAAACTGTAGCAAA
*
20789898 ACTGAGACTGTAGCAAA
1 ACTGAAACTGTAGCAAA
20789915 A
1 A
20789916 TTGATTGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.14, G:0.20, T:0.20
Consensus pattern (17 bp):
ACTGAAACTGTAGCAAA
Found at i:20792211 original size:564 final size:563
Alignment explanation
Indices: 20791130--20792260 Score: 1796
Period size: 564 Copynumber: 2.0 Consensus size: 563
20791120 GGCTGTGGTC
* * * *
20791130 AGGCTAGGGGTCAAATGGTATGGGCCGTAGTCAGAGAGCATCGTGCAGAGGTGCTGGACAGACTG
1 AGGCTAGGGGTCAAATGGTATGGGCCATAGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGACTA
* * * * * **
20791195 AGGCAAGATAGTCTGTTCTTGTTTATGCTGCATGTCGCTGAGAGGACAAATATGCTCTGGATGTT
66 AGGCAAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAAATATGCTCTGGACATT
* * * *
20791260 ATCACCGGTATGTTCTTGATGTATGATGTACCTTACTTTGCTTTAGTAGACATAAGTTTCATAGA
131 AACACCGATATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGAAGACATAAGTTTCATAGA
*
20791325 TTCCTATGTAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAGG
196 TTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAGG
* *
20791390 TGAGTGTACTAAGTCCACTGAAGTAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCAGTTA
261 TGAGAGTACTAAGTCCACTGAAGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCAGTTA
* *
20791455 GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTGATGGTGCTTCTGTTTGGGGAGTTTGACTTGAT
326 GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTGAT
* * * *
20791520 TCTGGGTATGGACTGGTTGGTCAAGCACCGTGTCACTTTGGATTGCGCGACTAAGAGGGTCATCT
391 TCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGCGCGACTAAGAGGGTCATCT
*
20791585 TGAGAACTGAGGAGGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACGTG
456 TGAGAACTGAGGAAGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACGTG
** *
20791650 ATCTCTGTACCGGTAGCTGAGAAACTAGTTCGTAAAGGATGTG
521 ATCTCTACACCGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
** * * *
20791693 AGGCTAGGGGTGGTAATGGTATGGGCTATGGTCAGAGAGCATCGGGCAGAAGTGCTGGATAGACT
1 AGGCTAGGGGT-CAAATGGTATGGGCCATAGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGACT
* *
20791758 AAGGCGAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAGATATGCTCTGGACAT
65 AAGGCAAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAAATATGCTCTGGACAT
* * * *
20791823 TAACGCCGATATGTTCTTGATTTATGATATACTTTACTTTGCTTTGGAAGACAT-AGATTTCATA
130 TAACACCGATATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGAAGACATAAG-TTTCATA
* *
20791887 GATTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTTCTAGTGA
194 GATTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGA
** * *
20791952 GGTGAGAGTACTAAGTCCACTGGGGCAATTGGTTCGGGTTAGCAAACTGTATAGAGATGTTCCGT
259 GGTGAGAGTACTAAGTCCACTGAAGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCAGT
20792017 TAGAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTG
324 TAGAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTG
* *
20792082 ATTCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGTGCGACTAAGAGGGTCGT
389 ATTCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGCGCGACTAAGAGGGTCAT
*
20792147 CTTGAGAACTGAGGAAGATAATGAGGTAGTCGTGATTGGAGAGCGTTGGAACTACTTGGCTAACG
454 CTTGAGAACTGAGGAAGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACG
*
20792212 TGATCTCTACACTGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
519 TGATCTCTACACCGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
20792257 AGGC
1 AGGC
20792261 GTACTTGGCC
Statistics
Matches: 517, Mismatches: 49, Indels: 3
0.91 0.09 0.01
Matches are distributed among these distances:
563 13 0.03
564 504 0.97
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.30
Consensus pattern (563 bp):
AGGCTAGGGGTCAAATGGTATGGGCCATAGTCAGAGAGCATCGGGCAGAAGTGCTGGACAGACTA
AGGCAAGACAGCCTGTTCTTGTTTATGCTGCACGTCACTGAAAGGACAAATATGCTCTGGACATT
AACACCGATATGTTCTTGATGTATGATATACCTTACTTTGCTTTAGAAGACATAAGTTTCATAGA
TTCCTATGCAGCTAGCACTGTGTCTGGAAACTTGGGGATTCTGGTTGAGAGTACTCCTAGAGAGG
TGAGAGTACTAAGTCCACTGAAGCAATCGGTTCGGGTTAGCAAACTGTATAGAGATGTTCAGTTA
GAGGTTCAAGGGTTGGTATTTCTGGCTAATCTAATGGTGCTTCTGTTTGGGGAGTTTGACCTGAT
TCTGGGTATGGACTGGTTGGTCAAGCACCATGTCACTCTGAACTGCGCGACTAAGAGGGTCATCT
TGAGAACTGAGGAAGATAATGAGGTAGTCGCGATTGGAGAGCGTTGGAACTACTTGGCTAACGTG
ATCTCTACACCGGTAGCTAAGAAACTAGTTCGTAAAGGATGTG
Found at i:20794440 original size:19 final size:19
Alignment explanation
Indices: 20794416--20794458 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
20794406 GGTTAATTGG
20794416 AGAGGGTGATTTAGATACT
1 AGAGGGTGATTTAGATACT
20794435 AGAGGGTGATTTAGATACT
1 AGAGGGTGATTTAGATACT
20794454 AGAGG
1 AGAGG
20794459 ATGTTTTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.05, G:0.35, T:0.28
Consensus pattern (19 bp):
AGAGGGTGATTTAGATACT
Found at i:20797547 original size:25 final size:27
Alignment explanation
Indices: 20797510--20797559 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
20797500 TCAAACATGC
20797510 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
20797536 ATTTCGGT-AATTTATCTCCTAGGG
1 ATTTAGGTCAATTTAACTCCTAGGG
20797560 TAAAATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.24, C:0.16, G:0.22, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:20799121 original size:25 final size:26
Alignment explanation
Indices: 20799046--20799126 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
20799036 TGAAATTCCA
20799046 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
20799072 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
20799098 ATCATGAAACA-TTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
20799123 ATCA
1 ATCA
20799127 ATTTGTACCA
Statistics
Matches: 53, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
25 17 0.32
26 36 0.68
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:20802187 original size:186 final size:186
Alignment explanation
Indices: 20801870--20802212 Score: 535
Period size: 186 Copynumber: 1.8 Consensus size: 186
20801860 GATGAATTTT
* * *
20801870 CTTGTGTTTAGATCCTAGACAAAAATTGAAATATATTAAATTTGCACTTAGTGAAATGTCTAGTG
1 CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
* * * *
20801935 CTGAAAAAGCTTGTGAAATGATGTAAAAGTTGAAATAAAATTTATATGAATTGTTTGATGAGTGT
66 CTGAAAAAGCTTATGAAATGATGTAAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTGT
20802000 AAGCCTCCACTTCATAATGCTTGTAGCTAATCAGGTGTGTTTTCTTGTGTTTGTTG
131 AAGCCTCCACTTCATAATGCTTGTAGCTAATCAGGTGTGTTTTCTTGTGTTTGTTG
* * *
20802056 CTTGTGTTTAGTTCCTAGAAAAAAATTGAAGTATATTGAATTTGCACTTAATGAAATGTCTAATG
1 CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
** **
20802121 CTGAAAAAGCTTATGAAATGAT-TCAACGGTTGAAAGAAGTTTTACATGAATTGTTTGATAAGTG
66 CTGAAAAAGCTTATGAAATGATGT-AAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTG
*
20802185 TAAGCCTCCACTTCATAGTGCTTGTAGC
130 TAAGCCTCCACTTCATAATGCTTGTAGC
20802213 CAATTGATTA
Statistics
Matches: 141, Mismatches: 15, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
185 1 0.01
186 140 0.99
ACGTcount: A:0.33, C:0.11, G:0.20, T:0.37
Consensus pattern (186 bp):
CTTGTGTTTAGATCCTAGAAAAAAATTGAAATATATTAAATTTGCACTTAATGAAATGTCTAATG
CTGAAAAAGCTTATGAAATGATGTAAAAGTTGAAAGAAAATTTACATGAATTGTTTGATAAGTGT
AAGCCTCCACTTCATAATGCTTGTAGCTAATCAGGTGTGTTTTCTTGTGTTTGTTG
Found at i:20806685 original size:15 final size:14
Alignment explanation
Indices: 20806665--20806694 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
20806655 GGATTTATTA
20806665 TTTTTTTTTGGTTTG
1 TTTTTTTTT-GTTTG
20806680 TTTTTTTTTGTTTG
1 TTTTTTTTTGTTTG
20806694 T
1 T
20806695 AGTAGGTCGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.00, G:0.17, T:0.83
Consensus pattern (14 bp):
TTTTTTTTTGTTTG
Found at i:20806955 original size:44 final size:44
Alignment explanation
Indices: 20806892--20807556 Score: 241
Period size: 44 Copynumber: 14.8 Consensus size: 44
20806882 TAATTTCAAC
*
20806892 CTACTCCACTGCAACTTCAGGGAGATAAGATTAGTATCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
*
20806936 CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGGT-TGTAGCTATAGT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTA--TCT-T---TA-A-T
* * * * * * *
20806987 TTATTCCACTGTAACTTCAGGGAGATAAGACTCGCTATATTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTTAAT
* * **
20807032 CTACTCAACTGCAACTTCAGGGGGATAAGATTTGTGGCTTTAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * * * *
20807076 ATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATG-ATGACTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATT-----TGTAT--CTTTAAT
* * * * * ** *
20807126 CCA-TCTTACTGCAACTTCAGAGG-TATAGGACTTGTCGCTTCAAT
1 CTACTC-CACTGCAACTTCAG-GGAGATAAGATTTGTATCTTTAAT
* * * *
20807170 CTACTCCACTGCAACTTCAGAGAGATAA-ATATG---CTTCACT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * ** * * **** * *
20807210 ACAACTTC-GGGGAGA--TAAGATTCACAATGA--TG-A-CTTCAAT
1 -CTACTCCACTGCA-ACTTCAGGGAGATAA-GATTTGTATCTTTAAT
* * * * ** *
20807250 CCA-TCCTACTGCAACTTCAGAGG-TATAGGACTTGTCGCTTCAAT
1 CTACTCC-ACTGCAACTTCAG-GGAGATAAGATTTGTATCTTTAAT
* * * *
20807294 CTACTCCATTGCAACTTCAGAGAGATAAGATTTGTAGCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * *
20807338 CTACTCTACTGCAACTTCAGAGAGATAAGATTTGCTAT-TTTCGAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTT-AAT
* * * * * * *
20807383 CTACTCCATTGCAACTTCAAGGAGATATGATCTATAGCTTCAAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
* * * *
20807427 CTGCTCCACTGCAACTTCAGAGAGATAAGATTTGCTATATTTGAT
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTTAAT
* * * * * *
20807472 CTATTCCATTGCAACTTCAAGGAGAAAAAATCTGTAACTTGTAGCTTTAAT
1 CTACTCCACTGCAACTTC-AGG-GAGATAA---G--ATTTGTATCTTTAAT
*
20807523 CTACTCTACTGCAACTTCAGGGAGATAAGATTTG
1 CTACTCCACTGCAACTTCAGGGAGATAAGATTTG
20807557 CCACGATAAC
Statistics
Matches: 452, Mismatches: 120, Indels: 98
0.67 0.18 0.15
Matches are distributed among these distances:
38 2 0.00
39 12 0.03
40 18 0.04
41 12 0.03
42 2 0.00
43 5 0.01
44 198 0.44
45 90 0.20
46 6 0.01
47 6 0.01
49 10 0.02
50 31 0.07
51 54 0.12
52 6 0.01
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTTAAT
Found at i:20807185 original size:94 final size:89
Alignment explanation
Indices: 20806991--20807197 Score: 209
Period size: 94 Copynumber: 2.3 Consensus size: 89
20806981 TATAGTTTAT
* * * *
20806991 TCCACTGTAACTTCAGGGAGATAAGACTCGCTATATTCAATCTACTCAACTGCAACTTCAGGGGG
1 TCCACTGCAACTTCAGGGAGATAAGACTCACTATATTCAATCCACTCAACTGCAACTTCAGAGGG
* * * *
20807056 ATAAGATTTGTGGCTTTAATATGC
66 ATAAGACTTGTCGCTTCAATATAC
* * * *
20807080 TTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCA-TCTTACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGATAAGACTCAC--T-AT-A-TTCAATCCACTC-AACTGCAACTTC
* * *
20807144 AGAGGTATAGGACTTGTCGCTTCAATCTAC
60 AGAGGGATAAGACTTGTCGCTTCAATATAC
*
20807174 TCCACTGCAACTTCAGAGAGATAA
1 TCCACTGCAACTTCAGGGAGATAA
20807198 ATATGCTTCA
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
89 26 0.28
91 1 0.01
92 2 0.02
93 3 0.03
94 62 0.66
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGACTCACTATATTCAATCCACTCAACTGCAACTTCAGAGGG
ATAAGACTTGTCGCTTCAATATAC
Found at i:20807293 original size:124 final size:124
Alignment explanation
Indices: 20807073--20807321 Score: 471
Period size: 124 Copynumber: 2.0 Consensus size: 124
20807063 TTGTGGCTTT
*
20807073 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCTTACTGC
1 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
20807138 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTGCAACTTCAGAGAGATA
66 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTGCAACTTCAGAGAGATA
*
20807197 AATATGCTTCACTACAACTTCGGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
1 AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
*
20807262 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCATTGCAACTTCAGAGAGATA
66 AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTGCAACTTCAGAGAGATA
20807321 A
1 A
20807322 GATTTGTAGC
Statistics
Matches: 122, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
124 122 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (124 bp):
AATATGCTTCACTACAACTTCAGGGAGATAAGATTCACAATGATGACTTCAATCCATCCTACTGC
AACTTCAGAGGTATAGGACTTGTCGCTTCAATCTACTCCACTGCAACTTCAGAGAGATA
Found at i:20807386 original size:45 final size:45
Alignment explanation
Indices: 20807259--20807557 Score: 250
Period size: 44 Copynumber: 6.6 Consensus size: 45
20807249 TCCATCCTAC
* * *
20807259 TGCAACTTCAGAG-GTATAGGACTTG-TCGCTTCAATCTACTCCAT
1 TGCAACTTCAGAGAG-ATAAGATTTGCTAGCTTCAATCTACTCCAT
* *
20807303 TGCAACTTCAGAGAGATAAGATTTG-TAGCTTCAATCTACTCTAC
1 TGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTACTCCAT
** *
20807347 TGCAACTTCAGAGAGATAAGATTTGCTATTTTCGATCTACTCCAT
1 TGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTACTCCAT
* * * * *
20807392 TGCAACTTCA-AGGAGATATGATCT-ATAGCTTCAATCTGCTCCAC
1 TGCAACTTCAGA-GAGATAAGATTTGCTAGCTTCAATCTACTCCAT
** ** *
20807436 TGCAACTTCAGAGAGATAAGATTTGCTATATTTGATCTATTCCAT
1 TGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTACTCCAT
* * * * * *
20807481 TGCAACTTCA-AGGAGAAAAAATCTGTAACTTGTAGCTTTAATCTACTCTAC
1 TGCAACTTCAGA-GAGATAAGAT-T-T-GC---TAGCTTCAATCTACTCCAT
*
20807532 TGCAACTTCAGGGAGATAAGATTTGC
1 TGCAACTTCAGAGAGATAAGATTTGC
20807558 CACGATAACT
Statistics
Matches: 201, Mismatches: 41, Indels: 22
0.76 0.16 0.08
Matches are distributed among these distances:
44 98 0.49
45 66 0.33
46 1 0.00
47 1 0.00
48 2 0.01
49 1 0.00
50 1 0.00
51 31 0.15
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (45 bp):
TGCAACTTCAGAGAGATAAGATTTGCTAGCTTCAATCTACTCCAT
Found at i:20807408 original size:89 final size:89
Alignment explanation
Indices: 20807292--20807557 Score: 347
Period size: 89 Copynumber: 2.9 Consensus size: 89
20807282 TGTCGCTTCA
20807292 ATCTACTCCATTGCAACTTC-AGAGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTC
1 ATCTACTCCATTGCAACTTCAAG-GAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTC
20807356 AGAGAGATAAGATTTGCTAT-TTTCG
65 AGAGAGATAAGATTTGCTATATTT-G
* * * * *
20807381 ATCTACTCCATTGCAACTTCAAGGAGATATGATCTATAGCTTCAATCTGCTCCACTGCAACTTCA
1 ATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTCA
20807446 GAGAGATAAGATTTGCTATATTTG
66 GAGAGATAAGATTTGCTATATTTG
* * * *
20807470 ATCTATTCCATTGCAACTTCAAGGAGAAAAAATCTGTAACTTGTAGCTTTAATCTACTCTACTGC
1 ATCTACTCCATTGCAACTTCAAGGAG--ATAA---G--ATTTGTAGCTTCAATCTACTCTACTGC
*
20807535 AACTTCAGGGAGATAAGATTTGC
59 AACTTCAGAGAGATAAGATTTGC
20807558 CACGATAACT
Statistics
Matches: 153, Mismatches: 15, Indels: 11
0.85 0.08 0.06
Matches are distributed among these distances:
89 102 0.67
90 5 0.03
91 2 0.01
94 1 0.01
96 43 0.28
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (89 bp):
ATCTACTCCATTGCAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTACTCTACTGCAACTTCA
GAGAGATAAGATTTGCTATATTTG
Found at i:20819333 original size:21 final size:21
Alignment explanation
Indices: 20819289--20819350 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
20819279 GTACAATTTG
*
20819289 TAATAA-AATATATAAATGACAA
1 TAATAATAATAGATAAA--ACAA
20819311 TAATAATAATAGATAAAACAA
1 TAATAATAATAGATAAAACAA
*
20819332 TAATAATAATGAGAAAAAA
1 TAATAATAAT-AGATAAAA
20819351 AGGAAAAAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.39
22 13 0.36
23 9 0.25
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.24
Consensus pattern (21 bp):
TAATAATAATAGATAAAACAA
Found at i:20819372 original size:22 final size:22
Alignment explanation
Indices: 20819345--20819390 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
20819335 TAATAATGAG
20819345 AAAAAAAGGAAAAAACAAATAAAT
1 AAAAAAA-G-AAAAACAAATAAAT
20819369 AAAAAAAGAAAAACAAATAAAT
1 AAAAAAAGAAAAACAAATAAAT
20819391 GTATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 14 0.64
23 1 0.05
24 7 0.32
ACGTcount: A:0.80, C:0.04, G:0.07, T:0.09
Consensus pattern (22 bp):
AAAAAAAGAAAAACAAATAAAT
Found at i:20821162 original size:14 final size:15
Alignment explanation
Indices: 20821136--20821165 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
20821126 ATCGTTTATA
20821136 TATTATATTTTTTTC
1 TATTATATTTTTTTC
20821151 TATTAT-TTTTTTTC
1 TATTATATTTTTTTC
20821165 T
1 T
20821166 CTTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (15 bp):
TATTATATTTTTTTC
Found at i:20826784 original size:33 final size:33
Alignment explanation
Indices: 20826747--20826817 Score: 97
Period size: 33 Copynumber: 2.2 Consensus size: 33
20826737 TTTCCCCCAA
* * *
20826747 TACTTAACCTGATTATTGAGGCATCATCGCTGC
1 TACTTAACCTGATTATAGAGGCACCATCACTGC
* *
20826780 TACTTAACCTGCTTATAGGGGCACCATCACTGC
1 TACTTAACCTGATTATAGAGGCACCATCACTGC
20826813 TACTT
1 TACTT
20826818 GGCCTGCTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (33 bp):
TACTTAACCTGATTATAGAGGCACCATCACTGC
Found at i:20826824 original size:33 final size:32
Alignment explanation
Indices: 20826766--20826882 Score: 108
Period size: 33 Copynumber: 3.5 Consensus size: 32
20826756 TGATTATTGA
**
20826766 GGCATCATCGCTGCTACTTAACCTGCTTATAGG
1 GGCATCATC-CTGCTACTTGGCCTGCTTATAGG
* **
20826799 GGCACCATCACTGCTACTTGGCCTGCTTATTTG
1 GGCATCATC-CTGCTACTTGGCCTGCTTATAGG
** * * *
20826832 AACATCATTCCTACTACTTGGGCTGCATATAGG
1 GGCATCA-TCCTGCTACTTGGCCTGCTTATAGG
20826865 GGCATCATCCCTGCTACT
1 GGCATCAT-CCTGCTACT
20826883 AGTCCGGATT
Statistics
Matches: 65, Mismatches: 17, Indels: 4
0.76 0.20 0.05
Matches are distributed among these distances:
32 1 0.02
33 62 0.95
34 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.20, T:0.31
Consensus pattern (32 bp):
GGCATCATCCTGCTACTTGGCCTGCTTATAGG
Found at i:20836365 original size:11 final size:11
Alignment explanation
Indices: 20836349--20836380 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
20836339 ATGTATGGGT
20836349 AGGTATGGGAA
1 AGGTATGGGAA
*
20836360 AGGTATGGGCA
1 AGGTATGGGAA
20836371 AGGTATGGGA
1 AGGTATGGGA
20836381 TATATTCTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.47, T:0.19
Consensus pattern (11 bp):
AGGTATGGGAA
Found at i:20840448 original size:18 final size:18
Alignment explanation
Indices: 20840425--20840478 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
20840415 CCCAACTATT
*
20840425 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
20840443 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
20840461 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
20840479 ATAAACGGTC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:20844264 original size:24 final size:25
Alignment explanation
Indices: 20844237--20844370 Score: 79
Period size: 23 Copynumber: 5.4 Consensus size: 25
20844227 ACATTTTAAA
20844237 ATTTTAAAT-ATAATAATA-AATAAT
1 ATTTTAAATAAT-ATAATATAATAAT
* *
20844261 A-TTTAAATAATTTAATATAATGAT
1 ATTTTAAATAATATAATATAATAAT
20844285 ATTTGTAAATAATAT--T-TAA-ACAT
1 ATTT-TAAATAATATAATATAATA-AT
*
20844308 -TTTTAGGAAAAATATAATAATAAATAAT
1 ATTTTA--AATAATATAAT-AT-AATAAT
* *
20844336 A-TTTAAATAATTTAATATAATGAT
1 ATTTTAAATAATATAATATAATAAT
**
20844360 ACATTAAATAA
1 ATTTTAAATAA
20844371 AAATTAATAT
Statistics
Matches: 86, Mismatches: 9, Indels: 29
0.69 0.07 0.23
Matches are distributed among these distances:
21 2 0.02
22 3 0.03
23 24 0.28
24 16 0.19
25 13 0.15
26 18 0.21
27 1 0.01
28 8 0.09
29 1 0.01
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (25 bp):
ATTTTAAATAATATAATATAATAAT
Found at i:20844294 original size:37 final size:37
Alignment explanation
Indices: 20844246--20844360 Score: 135
Period size: 37 Copynumber: 3.1 Consensus size: 37
20844236 AATTTTAAAT
20844246 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
* ** * * *
20844283 ATATTTGTAAATAATATTTAAACATTTTTAGGA-AAAAT-
1 ATAATAATAAATAATATTTAAATA-ATTTA--ATATAATG
20844321 ATAATAATAAATAATATTTAAATAATTTAATATAATG
1 ATAATAATAAATAATATTTAAATAATTTAATATAATG
20844358 ATA
1 ATA
20844361 CATTAAATAA
Statistics
Matches: 61, Mismatches: 12, Indels: 10
0.73 0.14 0.12
Matches are distributed among these distances:
35 1 0.02
36 4 0.07
37 27 0.44
38 24 0.39
39 4 0.07
40 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.41
Consensus pattern (37 bp):
ATAATAATAAATAATATTTAAATAATTTAATATAATG
Found at i:20844398 original size:75 final size:75
Alignment explanation
Indices: 20844239--20844398 Score: 196
Period size: 75 Copynumber: 2.1 Consensus size: 75
20844229 ATTTTAAAAT
** * *
20844239 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATATTTGTAAATAATATTTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
** *
20844304 ACATTTTTAG
66 ACAAATTGAG
***
20844314 GAAAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACAT-TAAATAAAAATTAA
1 TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
*
20844378 TATAAATTGAG
66 -ACAAATTGAG
*
20844389 TTTAGATATA
1 TTTAAATATA
20844399 CAAATACTTT
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
74 12 0.17
75 57 0.83
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (75 bp):
TTTAAATATAATAATAAATAATATTTAAATAATTTAATATAATGATACATGTAAATAAAAATTAA
ACAAATTGAG
Found at i:20844942 original size:21 final size:21
Alignment explanation
Indices: 20844901--20844944 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
20844891 TAAAAAATTC
* *
20844901 AAATCAAATATTAATATTTTA
1 AAATAAAATATTAATAATTTA
20844922 AAATAAAAT-TTAATAAATTTA
1 AAATAAAATATTAAT-AATTTA
20844943 AA
1 AA
20844945 TTAATGCAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATAAAATATTAATAATTTA
Found at i:20844945 original size:20 final size:21
Alignment explanation
Indices: 20844895--20844945 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
20844885 CTTTAATAAA
* *
20844895 AAATTCAAATCAAATATTAAT
1 AAATTTAAATAAAATATTAAT
*
20844916 -ATTTTAAAATAAAAT-TTAAT
1 AAATTT-AAATAAAATATTAAT
20844936 AAATTTAAAT
1 AAATTTAAAT
20844946 TAATGCAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (21 bp):
AAATTTAAATAAAATATTAAT
Found at i:20854676 original size:43 final size:44
Alignment explanation
Indices: 20854629--20854719 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 44
20854619 TTATATTAAT
* *
20854629 AAATTCAAAGGTTAGATTATTAAGATATTAAT-AGAAAATTATG
1 AAATTCAAAGGTTAAATTATTAAGATATTAATAAAAAAATTATG
* * * *
20854672 AAATTTAACGGTTAAATTATTATGATATTATTAAAAAAATTATG
1 AAATTCAAAGGTTAAATTATTAAGATATTAATAAAAAAATTATG
20854716 AAAT
1 AAAT
20854720 AATATAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 27 0.66
44 14 0.34
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.37
Consensus pattern (44 bp):
AAATTCAAAGGTTAAATTATTAAGATATTAATAAAAAAATTATG
Found at i:20857491 original size:90 final size:89
Alignment explanation
Indices: 20857339--20857624 Score: 268
Period size: 81 Copynumber: 3.3 Consensus size: 89
20857329 CACACTTGGT
* * * * * * *
20857339 TGTGGATAAACCA-CAAAGTTGTAGGTTAATATGCTGCCAAATGGTTTTGAATGCACAACATATT
1 TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
20857403 TGCAGATAAGAGCTGCCAAAATATG
66 TGCAGATAAGAGCTGCCAAAA-ATG
* *
20857428 TGTGGATGAACCACCAGTGTTGCAGGTTAATACGCTGTCAGATAGTTGTGAATGCACAACATATT
1 TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
**
20857493 TGC---T----GCT-AAAAAAATG
66 TGCAGATAAGAGCTGCCAAAAATG
* * * * * * ** *
20857509 GGTGGGTGTACCA-CAAGTGTTGTAGGTTAATGCACTGCCAGATAGTTGTGAATATACAACATGT
1 TGTGGATGAACCACCAA-TGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATAT
* *
20857573 TTGCAGATAAGAACTGCCGGAAAAATT
65 TTGCAGATAAGAGCTGCC--AAAAATG
20857600 TGTGGATGAACCACCAATGTTGCAG
1 TGTGGATGAACCACCAATGTTGCAG
20857625 ATTATTAAAC
Statistics
Matches: 154, Mismatches: 30, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
80 2 0.01
81 57 0.37
82 4 0.03
83 3 0.02
84 1 0.01
87 1 0.01
88 2 0.01
89 12 0.08
90 46 0.30
91 23 0.15
92 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (89 bp):
TGTGGATGAACCACCAATGTTGCAGGTTAATACGCTGCCAGATAGTTGTGAATGCACAACATATT
TGCAGATAAGAGCTGCCAAAAATG
Found at i:20867603 original size:5 final size:5
Alignment explanation
Indices: 20867593--20867620 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20867583 ATTCTTTTAT
20867593 TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TAT
20867621 TTACTTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:20867661 original size:19 final size:19
Alignment explanation
Indices: 20867637--20867675 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
20867627 AAGTAATAAG
20867637 TAAATAGA-TTATTATTATT
1 TAAATAGATTTATT-TTATT
*
20867656 TAAATATATTTATTTTATT
1 TAAATAGATTTATTTTATT
20867675 T
1 T
20867676 TAGCACATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
TAAATAGATTTATTTTATT
Found at i:20875770 original size:54 final size:54
Alignment explanation
Indices: 20875706--20875814 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
20875696 GCGATGGTTA
20875706 TGGGTTAGAGGTGTTACAAAGAGTGTCATAAAACCCCTATAAATCACAATGAAC
1 TGGGTTAGAGGTGTTACAAAGAGTGTCATAAAACCCCTATAAATCACAATGAAC
20875760 TGGGTTAGAGGTGTTACAAAGAGTGTCATAAAACCCCTATAAATCACAATGAAC
1 TGGGTTAGAGGTGTTACAAAGAGTGTCATAAAACCCCTATAAATCACAATGAAC
20875814 T
1 T
20875815 AACTCAAAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (54 bp):
TGGGTTAGAGGTGTTACAAAGAGTGTCATAAAACCCCTATAAATCACAATGAAC
Found at i:20877588 original size:31 final size:31
Alignment explanation
Indices: 20877550--20877610 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
20877540 GAAAGAAAAA
20877550 AAAATTGCGCCAAAAAACTTACTCAAATGTT
1 AAAATTGCGCCAAAAAACTTACTCAAATGTT
20877581 AAAATTGCGCCAAAAAACTTACTCAAATGT
1 AAAATTGCGCCAAAAAACTTACTCAAATGT
20877611 CATGACAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.46, C:0.20, G:0.10, T:0.25
Consensus pattern (31 bp):
AAAATTGCGCCAAAAAACTTACTCAAATGTT
Found at i:20877759 original size:46 final size:46
Alignment explanation
Indices: 20877688--20877776 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
20877678 AGTAGTTATG
**
20877688 TAGGAATCAAATTCCTAAAAAATAATATTTCATAATAATATCCCAT
1 TAGGAATCAAATTCCTAAAAAATAATATCACATAATAATATCCCAT
* *
20877734 TAGGAATCAAATTGCTAAAAGATAATATCACATAATAATATCC
1 TAGGAATCAAATTCCTAAAAAATAATATCACATAATAATATCC
20877777 TAACATCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.30
Consensus pattern (46 bp):
TAGGAATCAAATTCCTAAAAAATAATATCACATAATAATATCCCAT
Found at i:20877862 original size:15 final size:15
Alignment explanation
Indices: 20877842--20877886 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
20877832 ACTATGACTA
20877842 AAACTATTAATACAT
1 AAACTATTAATACAT
**
20877857 AAACTACCAAT--A-
1 AAACTATTAATACAT
20877869 AAACTATTAATACAT
1 AAACTATTAATACAT
20877884 AAA
1 AAA
20877887 TAACTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
12 9 0.39
13 1 0.04
14 1 0.04
15 12 0.52
ACGTcount: A:0.58, C:0.16, G:0.00, T:0.27
Consensus pattern (15 bp):
AAACTATTAATACAT
Found at i:20878515 original size:34 final size:35
Alignment explanation
Indices: 20878471--20878537 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
20878461 CTGTAAAATG
20878471 TTTTCCGTAAAATGAATT-CTGGAAAATATTTTAC
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
* *
20878505 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGAATTACTGGAAAATATTTT
20878538 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 16 0.53
35 14 0.47
ACGTcount: A:0.34, C:0.10, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTTCCGTAAAATGAATTACTGGAAAATATTTTAC
Found at i:20879912 original size:27 final size:27
Alignment explanation
Indices: 20879882--20879951 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
20879872 AATAATCAAT
*
20879882 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* * *
20879909 TCAATATCTAACCAATTCAAGATATATA
1 TCAATATCCAA-CAATTCAAAACATATA
*
20879937 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
20879952 CTAAAATCTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 21 0.60
28 14 0.40
ACGTcount: A:0.50, C:0.20, G:0.03, T:0.27
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:20884218 original size:6 final size:6
Alignment explanation
Indices: 20884207--20884237 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
20884197 AATATTTCCC
*
20884207 ACAGAA ACAGAA ACAGAA ACAAAA ACAGAA A
1 ACAGAA ACAGAA ACAGAA ACAGAA ACAGAA A
20884238 ATACAAACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.71, C:0.16, G:0.13, T:0.00
Consensus pattern (6 bp):
ACAGAA
Found at i:20888812 original size:20 final size:20
Alignment explanation
Indices: 20888795--20888835 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
20888785 CCACAAAAGC
20888795 CAAA-ACCAAAAAACAAAAA
1 CAAACACCAAAAAACAAAAA
*
20888814 CAAACACCAAAAGA-AAAAA
1 CAAACACCAAAAAACAAAAA
20888833 CAA
1 CAA
20888836 CCCAACAACC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 8 0.40
ACGTcount: A:0.76, C:0.22, G:0.02, T:0.00
Consensus pattern (20 bp):
CAAACACCAAAAAACAAAAA
Found at i:20891598 original size:46 final size:47
Alignment explanation
Indices: 20891531--20891624 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 47
20891521 AGCACGTTAT
20891531 CGGTGATGAGTCTACCAGGAACGAAAGCACT-GAGTTATCGATGCAC
1 CGGTGATGAGTCTACCAGGAACGAAAGCACTAGAGTTATCGATGCAC
20891577 CGGTGATGAGTCTACCAGGAACGAAAGCACTGAGAGTTATCGATGCAC
1 CGGTGATGAGTCTACCAGGAACGAAAGCACT-AGAGTTATCGATGCAC
20891625 GCATGTAAAA
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
46 31 0.67
48 15 0.33
ACGTcount: A:0.31, C:0.21, G:0.29, T:0.19
Consensus pattern (47 bp):
CGGTGATGAGTCTACCAGGAACGAAAGCACTAGAGTTATCGATGCAC
Found at i:20892743 original size:13 final size:13
Alignment explanation
Indices: 20892727--20892766 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
20892717 CAATCTCATA
20892727 TCTCAATTTCAAT
1 TCTCAATTTCAAT
20892740 TCTCAA-TTCAATT
1 TCTCAATTTCAA-T
20892753 TCTC-ATTTC-AT
1 TCTCAATTTCAAT
20892764 TCT
1 TCT
20892767 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:20892752 original size:18 final size:19
Alignment explanation
Indices: 20892714--20892754 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
20892704 TGGTTCATGT
20892714 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
20892733 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
20892751 TTTC
1 TTTC
20892755 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:20892944 original size:39 final size:38
Alignment explanation
Indices: 20892878--20893011 Score: 92
Period size: 39 Copynumber: 3.4 Consensus size: 38
20892868 CCAATATGGC
* * * *
20892878 ACCCAGTGCCTCATCGGATAGTTCGAAGCAATATTTGAT
1 ACCCAGTGTCTCATCGGCTAG-CCGAAGAAATATTTGAT
* * *
20892917 ACCCAGTGTCTCATCGGCCTAGCCGAAGTAA-AGTTGGT
1 ACCCAGTGTCTCATCGG-CTAGCCGAAGAAATATTTGAT
* * * * *
20892955 ACCCAGT-ACTTCATCGAATCTATCCGAAGAAATATAGTGAC
1 ACCCAGTGTC-TCATCG--GCTAGCCGAAGAAATAT-TTGAT
20892996 ACCCAGTGTCTCATCG
1 ACCCAGTGTCTCATCG
20893012 ACTCGAGGTC
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
37 1 0.01
38 18 0.25
39 34 0.47
40 4 0.05
41 15 0.21
42 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.25
Consensus pattern (38 bp):
ACCCAGTGTCTCATCGGCTAGCCGAAGAAATATTTGAT
Found at i:20894560 original size:5 final size:5
Alignment explanation
Indices: 20894550--20894602 Score: 61
Period size: 5 Copynumber: 10.0 Consensus size: 5
20894540 TTACTTATTT
* *
20894550 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATTTA
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
20894598 ATATA
1 ATATA
20894603 TATTTTAACA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
5 30 0.73
6 7 0.17
7 4 0.10
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATATA
Found at i:20894566 original size:12 final size:12
Alignment explanation
Indices: 20894549--20894604 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
20894539 TTTACTTATT
20894549 TATATAATATAA
1 TATATAATATAA
20894561 TATATAATATAATA
1 TATATAATAT-A-A
20894575 TACTATAATATAA
1 TA-TATAATATAA
*
20894588 TA-ATAATTTAA
1 TATATAATATAA
20894599 TATATA
1 TATATA
20894605 TTTTAACACA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 10 0.26
12 13 0.33
13 4 0.10
14 4 0.10
15 8 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:20904124 original size:21 final size:21
Alignment explanation
Indices: 20904098--20904148 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
20904088 GTGTGAAAGG
20904098 AGGCACATGACATTGTGGCTA
1 AGGCACATGACATTGTGGCTA
20904119 AGGCACATGACATTGTGGCTA
1 AGGCACATGACATTGTGGCTA
20904140 AGGCACATG
1 AGGCACATG
20904149 CCCGTGTGCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (21 bp):
AGGCACATGACATTGTGGCTA
Found at i:20910529 original size:47 final size:47
Alignment explanation
Indices: 20910453--20910611 Score: 230
Period size: 47 Copynumber: 3.4 Consensus size: 47
20910443 ATGACAACTC
* *
20910453 GCACATACATTCCAAAGACAGCTCACACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
* * * *
20910500 GCACATACATTTCAAATATAG-TTAGCACATGCATGGTAAAACAGCTC
1 GCACATACATTTCAAAGATAGCTCA-CACATGCATGGTAAAACTGCTT
**
20910547 GTGCATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
1 GCACATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
20910594 GCACATACATTTCAAAGA
1 GCACATACATTTCAAAGA
20910612 CAACTAGCAC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
46 2 0.02
47 92 0.96
48 2 0.02
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.25
Consensus pattern (47 bp):
GCACATACATTTCAAAGATAGCTCACACATGCATGGTAAAACTGCTT
Found at i:20911358 original size:40 final size:40
Alignment explanation
Indices: 20911307--20911403 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 40
20911297 AAACCAATAA
20911307 GGGCACCGAAGTGC-ATACAGGGACACCAAAGTGCAACCAG
1 GGGCACCGAAGTGCAAT-CAGGGACACCAAAGTGCAACCAG
* * * * *
20911347 GGGCACGGAAGTGCAATCAGGGGCACCAGAGTGCAATTCAA
1 GGGCACCGAAGTGCAATCAGGGACACCAAAGTGCAA-CCAG
*
20911388 GGGCACCGGAGTGCAA
1 GGGCACCGAAGTGCAA
20911404 ATCATACATC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
40 30 0.62
41 18 0.38
ACGTcount: A:0.32, C:0.25, G:0.34, T:0.09
Consensus pattern (40 bp):
GGGCACCGAAGTGCAATCAGGGACACCAAAGTGCAACCAG
Found at i:20911383 original size:20 final size:20
Alignment explanation
Indices: 20911307--20911403 Score: 83
Period size: 20 Copynumber: 4.8 Consensus size: 20
20911297 AAACCAATAA
20911307 GGGCACC-GAAGTGC-ATACAG
1 GGGCACCAG-AGTGCAAT-CAG
* * *
20911327 GGACACCAAAGTGCAACCAG
1 GGGCACCAGAGTGCAATCAG
*
20911347 GGGCA-CGGAAGTGCAATCAG
1 GGGCACCAG-AGTGCAATCAG
*
20911367 GGGCACCAGAGTGCAATTCAA
1 GGGCACCAGAGTGCAA-TCAG
*
20911388 GGGCACCGGAGTGCAA
1 GGGCACCAGAGTGCAA
20911404 ATCATACATC
Statistics
Matches: 62, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 40 0.65
21 21 0.34
ACGTcount: A:0.32, C:0.25, G:0.34, T:0.09
Consensus pattern (20 bp):
GGGCACCAGAGTGCAATCAG
Found at i:20915676 original size:12 final size:13
Alignment explanation
Indices: 20915651--20915684 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
20915641 ATTATTACGT
20915651 ATTTAAATAAAAA
1 ATTTAAATAAAAA
20915664 ATTTAAA-AAAAA
1 ATTTAAATAAAAA
*
20915676 AGTTAAATA
1 ATTTAAATA
20915685 TGACATTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
ATTTAAATAAAAA
Found at i:20915927 original size:3 final size:3
Alignment explanation
Indices: 20915919--20915946 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
20915909 CCTTAATGAT
20915919 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20915947 CAACCATATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:20916503 original size:29 final size:30
Alignment explanation
Indices: 20916464--20916523 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
20916454 TAATTACACA
20916464 AACCTTTAAGTAATGGCAGTTATAATTTTT
1 AACCTTTAAGTAATGGCAGTTATAATTTTT
*
20916494 AACC-TTAAGTAATGGCGGTTATAATTTTT
1 AACCTTTAAGTAATGGCAGTTATAATTTTT
20916523 A
1 A
20916524 TATTTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (30 bp):
AACCTTTAAGTAATGGCAGTTATAATTTTT
Found at i:20917094 original size:3 final size:3
Alignment explanation
Indices: 20917088--20917121 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
20917078 AAACCCTAAA
* *
20917088 AAG AAG AAG AAA AAG AAA AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
20917122 GACTGTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20917108 original size:18 final size:18
Alignment explanation
Indices: 20917085--20917121 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
20917075 AAAAAACCCT
20917085 AAAAAGAAGAAGAAAAAG
1 AAAAAGAAGAAGAAAAAG
*
20917103 AAAAAGAAGAAGAAGAAG
1 AAAAAGAAGAAGAAAAAG
20917121 A
1 A
20917122 GACTGTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (18 bp):
AAAAAGAAGAAGAAAAAG
Found at i:20924390 original size:14 final size:13
Alignment explanation
Indices: 20924368--20924409 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
20924358 AGATAAAATA
20924368 AATTGTTTTTTAT
1 AATTGTTTTTTAT
20924381 AATTGTTTTTTAT
1 AATTGTTTTTTAT
*
20924394 AATTATATTTTTAT
1 AATTGT-TTTTTAT
20924408 AA
1 AA
20924410 AATAATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
13 18 0.67
14 9 0.33
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (13 bp):
AATTGTTTTTTAT
Found at i:20924699 original size:21 final size:21
Alignment explanation
Indices: 20924673--20924739 Score: 68
Period size: 23 Copynumber: 3.2 Consensus size: 21
20924663 CATGTTTGAT
20924673 ATTATAAATTTTAATTATAAA
1 ATTATAAATTTTAATTATAAA
*
20924694 ATTATATAATTTATAATTTTAAA
1 ATTATA-AATTT-TAATTATAAA
* *
20924717 AATAT-TA-TTT-ATTATAAA
1 ATTATAAATTTTAATTATAAA
20924735 ATTAT
1 ATTAT
20924740 TAGTATGATA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
18 11 0.28
19 1 0.03
20 2 0.05
21 7 0.18
22 5 0.13
23 13 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTATAAATTTTAATTATAAA
Found at i:20925517 original size:31 final size:31
Alignment explanation
Indices: 20925479--20925541 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
20925469 TAAAGAGGAA
*
20925479 GAAAAAGATTGTGATTTCTCAGTCAAACTTT
1 GAAAAAGATTATGATTTCTCAGTCAAACTTT
20925510 GAAAAAGATTATGATTTCTCAGTCAAACTTT
1 GAAAAAGATTATGATTTCTCAGTCAAACTTT
20925541 G
1 G
20925542 TTTATGTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.35
Consensus pattern (31 bp):
GAAAAAGATTATGATTTCTCAGTCAAACTTT
Found at i:20927879 original size:46 final size:47
Alignment explanation
Indices: 20927826--20927988 Score: 120
Period size: 46 Copynumber: 3.3 Consensus size: 47
20927816 TTATTGAGAT
20927826 TGAAGGTT-TAAATTTATGGTATCTAAATGATCTGTATGAATGTGTC
1 TGAAGGTTATAAATTTATGGTATCTAAATGATCTGTATGAATGTGTC
* * * * * * *
20927872 TGAAGGTTGATAAATTTTATATTGACATATTTTATATG-T-TGGAATTATTGAGAT-
1 TGAAGGTT-ATAAA--TT-TA-TG--GTA-TCTAAATGATCT-GTATGAATGTG-TC
*
20927926 TGAAGGTT-GAAATTTATGGTATCTAAATGATCTGTATGAATGTGTC
1 TGAAGGTTATAAATTTATGGTATCTAAATGATCTGTATGAATGTGTC
20927972 TGAAGGTTGATAAATTT
1 TGAAGGTT-ATAAATTT
20927989 CCTATTGTGT
Statistics
Matches: 85, Mismatches: 16, Indels: 30
0.65 0.12 0.23
Matches are distributed among these distances:
45 7 0.08
46 26 0.31
47 1 0.01
48 12 0.14
49 2 0.02
50 4 0.05
51 2 0.02
52 5 0.06
53 1 0.01
54 18 0.21
55 7 0.08
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.42
Consensus pattern (47 bp):
TGAAGGTTATAAATTTATGGTATCTAAATGATCTGTATGAATGTGTC
Found at i:20927915 original size:100 final size:100
Alignment explanation
Indices: 20927796--20927988 Score: 377
Period size: 100 Copynumber: 1.9 Consensus size: 100
20927786 ATGCAAATTA
*
20927796 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTTAAATTTATGGTATCTAAATGATCTGT
1 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
20927861 ATGAATGTGTCTGAAGGTTGATAAATTTTATATTG
66 ATGAATGTGTCTGAAGGTTGATAAATTTTATATTG
20927896 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
1 ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
20927961 ATGAATGTGTCTGAAGGTTGATAAATTT
66 ATGAATGTGTCTGAAGGTTGATAAATTT
20927989 CCTATTGTGT
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 92 1.00
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.43
Consensus pattern (100 bp):
ACATATTTTATATGTTGGAATTATTGAGATTGAAGGTTGAAATTTATGGTATCTAAATGATCTGT
ATGAATGTGTCTGAAGGTTGATAAATTTTATATTG
Found at i:20938418 original size:17 final size:17
Alignment explanation
Indices: 20938396--20938432 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
20938386 CAAGGATTAT
20938396 TACCCATATAATTTAAC
1 TACCCATATAATTTAAC
*
20938413 TACCCATGTAATTTAAC
1 TACCCATATAATTTAAC
20938430 TAC
1 TAC
20938433 TCGTTCTCCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (17 bp):
TACCCATATAATTTAAC
Found at i:20940667 original size:13 final size:13
Alignment explanation
Indices: 20940649--20940675 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
20940639 GCTCGACAGC
20940649 GACACGCCCGTGT
1 GACACGCCCGTGT
20940662 GACACGCCCGTGT
1 GACACGCCCGTGT
20940675 G
1 G
20940676 CGATTGCTTC
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:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:20950623 original size:16 final size:16
Alignment explanation
Indices: 20950602--20950634 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20950592 GTTTGGCTAT
20950602 TAGAAATGGTTGTTAA
1 TAGAAATGGTTGTTAA
20950618 TAGAAATGGTTGTTAA
1 TAGAAATGGTTGTTAA
20950634 T
1 T
20950635 GACTTTTGTA
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:0.36, C:0.00, G:0.24, T:0.39
Consensus pattern (16 bp):
TAGAAATGGTTGTTAA
Found at i:20952942 original size:17 final size:18
Alignment explanation
Indices: 20952920--20952953 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20952910 CACATTGAAG
20952920 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
20952937 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
20952954 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:20954238 original size:28 final size:28
Alignment explanation
Indices: 20954196--20954298 Score: 127
Period size: 28 Copynumber: 3.7 Consensus size: 28
20954186 TGGCCCCTTT
*
20954196 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
20954224 -GAGCCCAATCACATTCATATGGCCCATT
1 AG-GCCCAATCACATTCATATGGCCCATC
* ** *
20954252 AGGCCCAATCACTTTTGTATGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
20954280 AGGCCCAATCACACTCATA
1 AGGCCCAATCACATTCATA
20954299 GTCATGCAAT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 1 0.02
28 60 0.97
29 1 0.02
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:20954273 original size:56 final size:57
Alignment explanation
Indices: 20954179--20954298 Score: 145
Period size: 56 Copynumber: 2.1 Consensus size: 57
20954169 ATCCATACTT
* * *
20954179 ATTCATTTGGCCCCTTTAGGCCCAATCTCATTCATATGGCCCATC-GAGCCCAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAG-GCCCAATCAC
* ** *
20954236 ATTCATATGG-CCCATTAGGCCCAATCACTTTTGTATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCAC
*
20954292 ACTCATA
1 ATTCATA
20954299 GTCATGCAAT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
56 44 0.81
57 10 0.19
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (57 bp):
ATTCATATGGCCCCATTAGGCCCAATCACATTCATATGGCCCATCAGGCCCAATCAC
Found at i:20954746 original size:21 final size:21
Alignment explanation
Indices: 20954722--20954761 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20954712 ACCAAACAAC
20954722 AAGTGACTCGCAAATCATCTT
1 AAGTGACTCGCAAATCATCTT
* **
20954743 AAGTTACTCTTAAATCATC
1 AAGTGACTCGCAAATCATC
20954762 CATGATCATT
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:0.35, C:0.23, G:0.10, T:0.33
Consensus pattern (21 bp):
AAGTGACTCGCAAATCATCTT
Found at i:20955227 original size:24 final size:24
Alignment explanation
Indices: 20955199--20955247 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
20955189 CCCCTCATCT
20955199 CCTAACTTTTCTCCCTGATAACTC
1 CCTAACTTTTCTCCCTGATAACTC
20955223 CCTAACTTTTCTCCCTGATAACTC
1 CCTAACTTTTCTCCCTGATAACTC
20955247 C
1 C
20955248 TTAATCCCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.20, C:0.39, G:0.04, T:0.37
Consensus pattern (24 bp):
CCTAACTTTTCTCCCTGATAACTC
Found at i:20960171 original size:39 final size:39
Alignment explanation
Indices: 20960117--20960196 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
20960107 GGTGGAGTCG
* *
20960117 TATATTTATAGCTGTTTTTAAGGAGAGAAGCATCAATCA
1 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
20960156 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
1 TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
20960195 TA
1 TA
20960197 GTAGCGTGAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (39 bp):
TATATTTATAGCTGTTTATAAAGAGAGAAGCATCAATCA
Found at i:20961588 original size:27 final size:28
Alignment explanation
Indices: 20961536--20961589 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
20961526 AAATTAAAAA
*
20961536 TATTTAAAAAATAATTTTATATAATTTC
1 TATTTAAAAAATAATTTTACATAATTTC
* *
20961564 TATTTTAAAAATAATTTTGCA-AATTT
1 TATTTAAAAAATAATTTTACATAATTT
20961590 TTGAAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
TATTTAAAAAATAATTTTACATAATTTC
Found at i:20962968 original size:18 final size:18
Alignment explanation
Indices: 20962941--20962997 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
20962931 GTACTTTATG
*
20962941 TTTA-TTAATAATACATT
1 TTTATTTAATAATAAATT
*
20962958 TTTATTTAATATTAAATT
1 TTTATTTAATAATAAATT
20962976 TTTATTATATATAATATAATT
1 TTTATT-TA-ATAATA-AATT
20962997 T
1 T
20962998 AGATTAAACA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
17 4 0.12
18 17 0.52
19 2 0.06
20 5 0.15
21 5 0.15
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATTTAATAATAAATT
Found at i:20967193 original size:46 final size:43
Alignment explanation
Indices: 20967122--20967213 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 43
20967112 CATTTTAACT
20967122 TTGATCCTCTATTTTTTTAGGCTACATAAAAAT-GTCAAATTTCAA
1 TTGATCCTCTA-TTTTTTAGGCTAC--AAAAATGGTCAAATTTCAA
*
20967167 TTGATTCCTCTA-TTTTTAGGTTCTACAAAAATGGTCAAATTTTAA
1 TTGA-TCCTCTATTTTTTAGG--CTACAAAAATGGTCAAATTTCAA
20967212 TT
1 TT
20967214 TCAGTCCCTA
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
44 14 0.33
45 17 0.40
46 11 0.26
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.45
Consensus pattern (43 bp):
TTGATCCTCTATTTTTTAGGCTACAAAAATGGTCAAATTTCAA
Found at i:20969978 original size:19 final size:20
Alignment explanation
Indices: 20969954--20969991 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20969944 TAATGTTTAT
*
20969954 TTAACC-AAATTAACTGAAA
1 TTAACCAAAAGTAACTGAAA
20969973 TTAACCAAAAGTAACTGAA
1 TTAACCAAAAGTAACTGAA
20969992 TTGGTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (20 bp):
TTAACCAAAAGTAACTGAAA
Found at i:20978640 original size:48 final size:48
Alignment explanation
Indices: 20978585--20978816 Score: 252
Period size: 48 Copynumber: 4.8 Consensus size: 48
20978575 GAATTACCGT
*
20978585 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCGAGGCCGA
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
* * * * *
20978633 TGCCATGTCCCAAACATGGTCTTACACTAGCACACATATCAATGCCGA
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
* * * * * *
20978681 TGCCATG-TCTCAGACATGGTCTTACATTGGCTCTCACAAC-ATCGCCGA
1 TGCCATGTTC-CAAACATGGTCTTACACTGGCTCACATATCGA-GGCCGA
* * *
20978729 TGCCATGTTCCAAACATGGTCTTACATTGGCTCTCATATCGTGGCCGA
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
* * * * *
20978777 CGCTATGTCCCAAACATGGTCTTACACTAGCGCACATATC
1 TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATC
20978817 ACTCAAATGT
Statistics
Matches: 153, Mismatches: 27, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
47 2 0.01
48 149 0.97
49 2 0.01
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
TGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCCGA
Found at i:20992922 original size:8 final size:8
Alignment explanation
Indices: 20992909--20993032 Score: 81
Period size: 8 Copynumber: 16.0 Consensus size: 8
20992899 TTATGTTTAG
20992909 TATATTAT
1 TATATTAT
20992917 TATATTAT
1 TATATTAT
20992925 TATATTAT
1 TATATTAT
20992933 TATATTAT
1 TATATTAT
*
20992941 TATATAATAAA
1 TATAT--T-AT
*
20992952 GATATT-T
1 TATATTAT
*
20992959 TATGTT-T
1 TATATTAT
20992966 TA-ATTA-
1 TATATTAT
20992972 TAT-TATAT
1 TATAT-TAT
20992980 TATATTA-
1 TATATTAT
20992987 TAT-TATAT
1 TATAT-TAT
20992995 TATATTA-
1 TATATTAT
20993002 TAT-TATAT
1 TATAT-TAT
20993010 TATATTA-
1 TATATTAT
20993017 TAT-TATAT
1 TATAT-TAT
20993025 TATATTAT
1 TATATTAT
20993033 ATAAACTAAA
Statistics
Matches: 93, Mismatches: 6, Indels: 34
0.70 0.05 0.26
Matches are distributed among these distances:
6 8 0.09
7 24 0.26
8 50 0.54
9 5 0.05
10 1 0.01
11 5 0.05
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (8 bp):
TATATTAT
Found at i:20992978 original size:5 final size:5
Alignment explanation
Indices: 20992968--20993034 Score: 134
Period size: 5 Copynumber: 13.4 Consensus size: 5
20992958 TTATGTTTTA
20992968 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
20993018 ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT AT
20993035 AAACTAAAGA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 62 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:20993049 original size:9 final size:9
Alignment explanation
Indices: 20993035--20993064 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
20993025 TATATTATAT
20993035 AAACTAAAG
1 AAACTAAAG
20993044 AAACTAAAG
1 AAACTAAAG
*
20993053 AAACAAAAG
1 AAACTAAAG
20993062 AAA
1 AAA
20993065 GGAAATAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.73, C:0.10, G:0.10, T:0.07
Consensus pattern (9 bp):
AAACTAAAG
Found at i:20994679 original size:45 final size:45
Alignment explanation
Indices: 20994615--20994788 Score: 303
Period size: 45 Copynumber: 3.9 Consensus size: 45
20994605 TACTTCTACT
*
20994615 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTGTTACC
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
* *
20994660 GTTACCAATTCGGCACTTTGTGTGTCAAATATTGTTACTATTACC
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
20994705 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
* *
20994750 GTTACCGATTCGGCACTTTGTGTGTTGGATATTGTTACT
1 GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACT
20994789 GTACTGTTAC
Statistics
Matches: 122, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 122 1.00
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.41
Consensus pattern (45 bp):
GTTACCGATTCGGCACTTTGTGTGTCGAATATTGTTACTATTACC
Found at i:20995005 original size:18 final size:18
Alignment explanation
Indices: 20994984--20995138 Score: 109
Period size: 18 Copynumber: 8.6 Consensus size: 18
20994974 TAACTGATTA
*
20994984 TTACTGAATAATTGACTT
1 TTACTGAATAATTGACTG
* *
20995002 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
20995020 CTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
20995038 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
20995056 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* **
20995074 TTACTGAATAACTGGTTAG
1 TTACTGAATAATTGACT-G
* * *
20995093 -TATTGAATATTTGATTG
1 TTACTGAATAATTGACTG
* *
20995110 TTACCGAATAACTGACTG
1 TTACTGAATAATTGACTG
20995128 TTACTGAATAA
1 TTACTGAATAA
20995139 ATAATTGTTC
Statistics
Matches: 107, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
17 5 0.05
18 99 0.93
19 3 0.03
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:20995146 original size:36 final size:36
Alignment explanation
Indices: 20994972--20995147 Score: 115
Period size: 36 Copynumber: 4.9 Consensus size: 36
20994962 AAAGGTATAA
* * *
20994972 AATAACTGATTATTACTGAATAATTGACTT-TTACCG
1 AATAACTGACTGTTACTGAATAATT-AATTGTTACCG
* * * * * *
20995008 GATAATTGACTGCTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGACTGTTACTGAATAATTA-ATTGTTACCG
* * * ** *
20995044 AATAACTGAATATTACTGAATAATTGATCATTACTG
1 AATAACTGACTGTTACTGAATAATTAATTGTTACCG
** * * *
20995080 AATAACTGGTTAG-TATTGAATATTTGATTGTTACCG
1 AATAACTGACT-GTTACTGAATAATTAATTGTTACCG
*
20995116 AATAACTGACTGTTACTGAATAAATAATTGTT
1 AATAACTGACTGTTACTGAATAATTAATTGTT
20995148 CTGAGAGTTA
Statistics
Matches: 102, Mismatches: 33, Indels: 10
0.70 0.23 0.07
Matches are distributed among these distances:
34 1 0.01
35 5 0.05
36 93 0.91
37 3 0.03
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.38
Consensus pattern (36 bp):
AATAACTGACTGTTACTGAATAATTAATTGTTACCG
Found at i:20996792 original size:48 final size:48
Alignment explanation
Indices: 20996737--20996974 Score: 255
Period size: 48 Copynumber: 5.0 Consensus size: 48
20996727 AGAGTGAATT
*
20996737 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATGTCAAG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAG
* * * * *
20996785 GCCGATGCCATG-TCCTAGACATGGTCTTACACTAGCACACATATTAAT
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAAG
* * * * * * **
20996833 GCCGATGCCATG-TCCTAGACATGGTCTTACATTGGATCCCACAACATT
1 GCCGATGCCATGTTCC-AAACATGGTCTTACACTGGCTCACATATCAAG
* * **
20996881 GCCGATGCCTTGTTCCAAACATGGTCTTACACTGGCTCTCATATCGTG
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAG
* * *
20996929 GCCGACGCCATGTCCCAAACATGGTCTTACACTGGCACACATATCA
1 GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCA
20996975 CCTAAATGTC
Statistics
Matches: 158, Mismatches: 30, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 3 0.02
48 152 0.96
49 3 0.02
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATCAAG
Found at i:21006197 original size:22 final size:22
Alignment explanation
Indices: 21006172--21006218 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
21006162 TTAATTTCCT
21006172 AATTAAATAGTCTTCTCAACCC
1 AATTAAATAGTCTTCTCAACCC
21006194 AATTAAATAGTCTTCTCAACCC
1 AATTAAATAGTCTTCTCAACCC
21006216 AAT
1 AAT
21006219 CCTAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.38, C:0.26, G:0.04, T:0.32
Consensus pattern (22 bp):
AATTAAATAGTCTTCTCAACCC
Found at i:21006394 original size:56 final size:58
Alignment explanation
Indices: 21006304--21006416 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 58
21006294 TTTTCAGGTC
* *
21006304 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAATGTTTC-CATTTCTCTATTTTA
1 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTTA
* *
21006361 ATTTTCATTTTGGA-AAAATCACATTTATTTCCAAAAGTTTCTCATTTCTCAATTTT
1 ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTT
21006417 CACCATTTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 24 0.47
57 27 0.53
ACGTcount: A:0.29, C:0.18, G:0.06, T:0.47
Consensus pattern (58 bp):
ATTTTCATTTTGGAGAAAACCACATTCATTTCCAAAAGTTTCTCATTTCTCAATTTTA
Found at i:21009162 original size:24 final size:24
Alignment explanation
Indices: 21009135--21009181 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
21009125 AAGTGAGAGT
21009135 TAGTATGTTAAGTATGGTAGTTGG
1 TAGTATGTTAAGTATGGTAGTTGG
21009159 TAGTATGTTAAGTATGGTAGTTG
1 TAGTATGTTAAGTATGGTAGTTG
21009182 TTGTATAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.43
Consensus pattern (24 bp):
TAGTATGTTAAGTATGGTAGTTGG
Found at i:21009192 original size:20 final size:22
Alignment explanation
Indices: 21009142--21009193 Score: 63
Period size: 24 Copynumber: 2.4 Consensus size: 22
21009132 AGTTAGTATG
21009142 TTAAGTATGGTAGTTGGTAGTA
1 TTAAGTATGGTAGTTGGTAGTA
*
21009164 TGTTAAGTATGGTAGTT-GTTGTA
1 --TTAAGTATGGTAGTTGGTAGTA
21009187 -TAAGTAT
1 TTAAGTAT
21009194 ATATCTGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 7 0.26
23 5 0.19
24 15 0.56
ACGTcount: A:0.27, C:0.00, G:0.29, T:0.44
Consensus pattern (22 bp):
TTAAGTATGGTAGTTGGTAGTA
Found at i:21010076 original size:40 final size:39
Alignment explanation
Indices: 21010023--21010112 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 39
21010013 TCCCACCCAG
* *
21010023 CACACC-ATATGGGGATAAAATCGA-CCAGCCTAGCCCTA
1 CACACCAATATGGGGATAAAATCAACCCAGCC-AACCCTA
*
21010061 CACACCAAGTATGGGGATAAAATCAACCCATCCAACCCTA
1 CACACCAA-TATGGGGATAAAATCAACCCAGCCAACCCTA
21010101 CACACCAA-ATGG
1 CACACCAATATGG
21010113 TACCGTATAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
38 10 0.22
39 1 0.02
40 30 0.65
41 5 0.11
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (39 bp):
CACACCAATATGGGGATAAAATCAACCCAGCCAACCCTA
Found at i:21012053 original size:23 final size:23
Alignment explanation
Indices: 21012025--21012068 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
21012015 GACACTGAAA
21012025 CCCATACAGTCTTACTATCTCAC
1 CCCATACAGTCTTACTATCTCAC
21012048 CCCATACAGTCTTACTATCTC
1 CCCATACAGTCTTACTATCTC
21012069 TGAGATGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.25, C:0.39, G:0.05, T:0.32
Consensus pattern (23 bp):
CCCATACAGTCTTACTATCTCAC
Found at i:21021030 original size:14 final size:14
Alignment explanation
Indices: 21021011--21021045 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
21021001 CCTTTTTAGA
21021011 GATTAACCAAGAAC
1 GATTAACCAAGAAC
21021025 GATTAACCAAGAAC
1 GATTAACCAAGAAC
21021039 GATTAAC
1 GATTAAC
21021046 AATAGACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.14, T:0.17
Consensus pattern (14 bp):
GATTAACCAAGAAC
Found at i:21026064 original size:25 final size:25
Alignment explanation
Indices: 21026027--21026104 Score: 106
Period size: 24 Copynumber: 3.2 Consensus size: 25
21026017 GCCTAGCCTC
21026027 TTTTGA-TAACTGGGGCAAAACCCT
1 TTTTGATTAACTGGGGCAAAACCCT
21026051 TTTTGATTAACTGGGGCAAAA-CCT
1 TTTTGATTAACTGGGGCAAAACCCT
* * * *
21026075 TTTCGGTAAACTGGGGCAAAGCCCT
1 TTTTGATTAACTGGGGCAAAACCCT
21026100 TTTTG
1 TTTTG
21026105 CACTTCTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
24 26 0.55
25 21 0.45
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.32
Consensus pattern (25 bp):
TTTTGATTAACTGGGGCAAAACCCT
Found at i:21026174 original size:21 final size:21
Alignment explanation
Indices: 21026150--21026200 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
21026140 AATAATGAGT
21026150 ATATCATGTGCATATCATAAC
1 ATATCATGTGCATATCATAAC
**
21026171 ATATCATGTGCATATCATGTC
1 ATATCATGTGCATATCATAAC
21026192 ATATCATGT
1 ATATCATGT
21026201 AGATCAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (21 bp):
ATATCATGTGCATATCATAAC
Found at i:21026194 original size:10 final size:11
Alignment explanation
Indices: 21026150--21026200 Score: 70
Period size: 10 Copynumber: 4.8 Consensus size: 11
21026140 AATAATGAGT
21026150 ATATCATGTGC
1 ATATCATGTGC
**
21026161 ATATCAT-AAC
1 ATATCATGTGC
21026171 ATATCATGTGC
1 ATATCATGTGC
21026182 ATATCATGT-C
1 ATATCATGTGC
21026192 ATATCATGT
1 ATATCATGT
21026201 AGATCAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
10 18 0.51
11 17 0.49
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (11 bp):
ATATCATGTGC
Found at i:21034075 original size:25 final size:25
Alignment explanation
Indices: 21034047--21034119 Score: 110
Period size: 25 Copynumber: 2.9 Consensus size: 25
21034037 CCTCTTTTAA
*
21034047 TAACTAGGGCAAAGCCCTTTTTGAT
1 TAACTGGGGCAAAGCCCTTTTTGAT
* *
21034072 TAACTGGGGCAAAGCCCTTTTCGGT
1 TAACTGGGGCAAAGCCCTTTTTGAT
*
21034097 AAACTGGGGCAAAGCCCTTTTTG
1 TAACTGGGGCAAAGCCCTTTTTG
21034120 CACTTCTTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.29
Consensus pattern (25 bp):
TAACTGGGGCAAAGCCCTTTTTGAT
Found at i:21039237 original size:43 final size:44
Alignment explanation
Indices: 21039172--21039262 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 44
21039162 CTATCAAAAT
* *
21039172 ATGATATTCGGGCTTGGGGCCTAGCAGGCTATAATGCCGGTGAA
1 ATGATATTCGGGCTTGGAGCCTAGCAGGCTATAATACCGGTGAA
*
21039216 ATGATA-TCGGGCTTTGAGCCTAGCAGGCTATAATACCGGTGAA
1 ATGATATTCGGGCTTGGAGCCTAGCAGGCTATAATACCGGTGAA
21039259 ATGA
1 ATGA
21039263 AATGTTATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
43 38 0.86
44 6 0.14
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (44 bp):
ATGATATTCGGGCTTGGAGCCTAGCAGGCTATAATACCGGTGAA
Found at i:21039603 original size:38 final size:38
Alignment explanation
Indices: 21039538--21039770 Score: 349
Period size: 38 Copynumber: 6.1 Consensus size: 38
21039528 ATTTGATGTG
* *
21039538 TATCCGGGCTTAAAGACCCACAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* * *
21039578 TATCCGGGGTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
21039616 TATCCGGGTTAAATACCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
*
21039654 TATCTGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
21039692 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
21039730 TATCCGGGTTAAATCCCGCAGGCCTAGTACTAGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
21039768 TAT
1 TAT
21039771 TCAGGCCTTG
Statistics
Matches: 177, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
38 165 0.93
39 4 0.02
40 8 0.05
ACGTcount: A:0.21, C:0.22, G:0.25, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:21039822 original size:44 final size:44
Alignment explanation
Indices: 21039767--21039897 Score: 153
Period size: 45 Copynumber: 3.0 Consensus size: 44
21039757 TACTAGTATT
* * *
21039767 ATATTCAGGCCTTGAGCCTAGCAGGCTATTATGCCGGTGAGAT-
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
21039810 ACTATTCGGGCCTTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
1 A-TATTCGGGCC-TTGAGCCTAGCAGGCTATAATGCCGGTGACATG
* * * *
21039856 ATA-TCGAGCCTCGAGCCTAGTAGGC-AAAATGCCGGTGA-ATG
1 ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
21039897 A
1 A
21039898 ATAAAAGTCT
Statistics
Matches: 78, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
41 4 0.05
42 12 0.15
43 14 0.18
44 15 0.19
45 32 0.41
46 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (44 bp):
ATATTCGGGCCTTGAGCCTAGCAGGCTATAATGCCGGTGACATG
Found at i:21040763 original size:19 final size:20
Alignment explanation
Indices: 21040739--21040776 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21040729 CACAACCAAA
*
21040739 TACCAAATT-TTAAAAATTT
1 TACCAAATTCTCAAAAATTT
21040758 TACCAAATTCTCAAAAATT
1 TACCAAATTCTCAAAAATT
21040777 ATGAAAATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (20 bp):
TACCAAATTCTCAAAAATTT
Found at i:21050346 original size:27 final size:27
Alignment explanation
Indices: 21050308--21050364 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
21050298 GTTTTTATTA
21050308 TCTGAATTGTATGTTAAATATCTAACT
1 TCTGAATTGTATGTTAAATATCTAACT
21050335 TCTGAATTGTATGTTAAATATCTAACT
1 TCTGAATTGTATGTTAAATATCTAACT
21050362 TCT
1 TCT
21050365 TCTTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.46
Consensus pattern (27 bp):
TCTGAATTGTATGTTAAATATCTAACT
Found at i:21053152 original size:21 final size:19
Alignment explanation
Indices: 21053093--21053152 Score: 61
Period size: 18 Copynumber: 3.1 Consensus size: 19
21053083 AGATGATAAA
21053093 AATAATTTTTATTTCTATTT
1 AATAA-TTTTATTTCTATTT
*
21053113 AATAATTTT-TCATCT-TTT
1 AATAATTTTAT-TTCTATTT
21053131 AATAATTTTGATTTCTAATTT
1 AATAATTTT-ATTTCT-ATTT
21053152 A
1 A
21053153 GTCCTTAGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
18 13 0.39
19 10 0.30
20 6 0.18
21 4 0.12
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.60
Consensus pattern (19 bp):
AATAATTTTATTTCTATTT
Found at i:21065139 original size:37 final size:37
Alignment explanation
Indices: 21065085--21065184 Score: 114
Period size: 37 Copynumber: 2.7 Consensus size: 37
21065075 TTCTAACCAA
* *
21065085 AACACCCCAAATTCTCATAAGAGCTAATCCACCTGAT
1 AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
* * * *
21065122 AGCACACCAAATGCTCATAAAAGCCAGTCCACCTGAT
1 AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
21065159 AACACA-CAAATGGCTCCA-AAGAGCTA
1 AACACACCAAAT-GCT-CATAAGAGCTA
21065185 GTCTAACCGA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 5 0.10
37 45 0.87
38 2 0.04
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (37 bp):
AACACACCAAATGCTCATAAGAGCTAATCCACCTGAT
Found at i:21067624 original size:35 final size:35
Alignment explanation
Indices: 21067568--21067647 Score: 97
Period size: 35 Copynumber: 2.3 Consensus size: 35
21067558 GATTAATGGG
* *
21067568 CCCACATGCCTATGTGTGCTCACATGCCAGTATGA
1 CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
* * * *
21067603 CCCACATGCTTGTGTGGGCTCACACGCCAGTGTGT
1 CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
*
21067638 CCCACGTGCC
1 CCCACATGCC
21067648 CAGATTGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.17, C:0.35, G:0.24, T:0.24
Consensus pattern (35 bp):
CCCACATGCCTATGTGGGCTCACACGCCAGTATGA
Found at i:21075016 original size:43 final size:43
Alignment explanation
Indices: 21074896--21075016 Score: 140
Period size: 43 Copynumber: 2.8 Consensus size: 43
21074886 AGCTCGTACA
* * *
21074896 ATGCCAATGTCCCAGACGTGGTCTTACATGT-AATCAAATATTG
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
* *
21074939 ATGCCACTGTCCCAGGCAGGGTCTTACACG-AAATCAAATA-CG
1 ATGCCA-TGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
*
21074981 ATGCCGATGTCCCAGATATGGTCTTACACGTAAATC
1 ATGCC-ATGTCCCAGACATGGTCTTACACGTAAATC
21075017 TCAAATCAAC
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
42 27 0.41
43 39 0.59
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (43 bp):
ATGCCATGTCCCAGACATGGTCTTACACGTAAATCAAATATCG
Found at i:21081789 original size:159 final size:156
Alignment explanation
Indices: 21081587--21082134 Score: 588
Period size: 159 Copynumber: 3.6 Consensus size: 156
21081577 ATTAAATGTG
* * *
21081587 TTACACTTATTCG-CATTTGCAAATTACTCTTGTTTTTCTTTATTGAAGGAAAATAAGATTTTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAA-GAAAATAA-A-TTTCT
* * * ** *
21081651 CTAAAAAAATTATACTATAATTAAAACTTTTATTTAAATTGAGGTCACGAGTCAATCGAACATTA
63 CTAAAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAGATCACAAGTCAATCGAGTATAA
*
21081716 ATTCAAGTGAAAAATAAATGAAAAAAATA
128 ATTCAATTGAAAAATAAATGAAAAAAATA
* * *
21081745 TTACATTTATTGGTCATTTGCACATTATTCTTATTTTTCTTTATTTAAGAAAGATAAAATTCTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAA-AT-AAATT-TCT
* * * * *
21081810 CTAAAAAAATTATACTGTAAATAAAAATCTTATTTCAATTG-GCATCACAAGTCAACCGAGTATA
63 CTAAAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAG-ATCACAAGTCAATCGAGTATA
21081874 AATTCAATTGAAAAATAAATG--AAAAATA
127 AATTCAATTGAAAAATAAATGAAAAAAATA
* * *
21081902 TTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAAG-AAAT--A------TA
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAAATAAATTTCTCTA
* * * * * * * *
21081958 TATATA-TATAATGTAATTAAAACTCTTA-TTAAATTGACATCACAAGTAAATCGAGTATCAATT
66 AAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAGATCACAAGTCAATCGAGTATAAATT
* *
21082021 CAATTGAAAAATGAACGAAAAAAATA
131 CAATTGAAAAATAAATGAAAAAAATA
* * *
21082047 TTACA-TTTTTTGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAGAAAGAAATTTCTCT
1 TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGA-AAATAAATTTCTCT
* *
21082111 AAAAAAAGTATACTATAGTTAAAA
65 AAAAAAATTATACTATAATTAAAA
21082135 TTTTTTACTA
Statistics
Matches: 322, Mismatches: 49, Indels: 41
0.78 0.12 0.10
Matches are distributed among these distances:
143 44 0.14
144 57 0.18
145 17 0.05
146 3 0.01
148 1 0.00
152 1 0.00
154 5 0.02
155 15 0.05
156 2 0.01
157 50 0.16
158 18 0.06
159 107 0.33
160 2 0.01
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (156 bp):
TTACACTTATTGGTCATTTGCACATTACTCTTGTTTTTCTTTATTTAAGAAAATAAATTTCTCTA
AAAAAATTATACTATAATTAAAACTCTTATTTAAATTGAGATCACAAGTCAATCGAGTATAAATT
CAATTGAAAAATAAATGAAAAAAATA
Found at i:21082090 original size:144 final size:144
Alignment explanation
Indices: 21081820--21082095 Score: 385
Period size: 144 Copynumber: 1.9 Consensus size: 144
21081810 CTAAAAAAAT
* * * *
21081820 TATACTGTAAATAAAAATCTTATTTCAATTGGCATCACAAGTCAACCGAGTATAAATTCAATTGA
1 TATAATGTAAATAAAAATCTTATTTAAATTGACATCACAAGTAAACCGAGTATAAATTCAATTGA
*
21081885 AAAATAAATGAAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAA
66 AAAATAAACGAAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAA
21081950 GAAATATATATATA
131 GAAATATATATATA
* * * *
21081964 TATAATGTAATTAAAACTCTTA-TTAAATTGACATCACAAGTAAATCGAGTATCAATTCAATTGA
1 TATAATGTAAATAAAAATCTTATTTAAATTGACATCACAAGTAAACCGAGTATAAATTCAATTGA
* * * * * *
21082028 AAAATGAACGAAAAAAATATTACA-TTTTTTGTCATTTGCACATTACTCTTGTTTTTCTTTATTT
66 AAAATAAACG--AAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTT
21082092 AAGA
129 AAGA
21082096 GAAAGAAATT
Statistics
Matches: 115, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
143 45 0.39
144 58 0.50
145 12 0.10
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (144 bp):
TATAATGTAAATAAAAATCTTATTTAAATTGACATCACAAGTAAACCGAGTATAAATTCAATTGA
AAAATAAACGAAAAATATTACACTTATTGGCCATTTGCACATTACTCTGGTTTTTCCTTATTTAA
GAAATATATATATA
Found at i:21084118 original size:52 final size:52
Alignment explanation
Indices: 21083995--21084154 Score: 148
Period size: 52 Copynumber: 3.1 Consensus size: 52
21083985 CGGATCACAT
*
21083995 ATCATACCGATGT-CATATCCCAGATATGGTCTTATACGGAATCACATTATCAC
1 ATCATACCGAT-TCCATAGCCCAGATATGGTCTTATACGGAATCACA-TATCAC
* * *
21084048 ATCACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAA-CACGA-ATCAC
1 ATCATACCGATTCCATAGCCCAGATATGGTCTTATAC-GGAATCAC-ATATCAC
** * * * * *
21084100 ATTGTACCGATTCCATAGCTC-GAATATGGTCTTATATGAAAGCATATATCAC
1 ATCATACCGATTCCATAGCCCAG-ATATGGTCTTATACGGAATCACATATCAC
21084152 ATC
1 ATC
21084155 TTTTTCGTTA
Statistics
Matches: 87, Mismatches: 14, Indels: 13
0.76 0.12 0.11
Matches are distributed among these distances:
51 5 0.06
52 42 0.48
53 35 0.40
54 5 0.06
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.28
Consensus pattern (52 bp):
ATCATACCGATTCCATAGCCCAGATATGGTCTTATACGGAATCACATATCAC
Found at i:21088859 original size:22 final size:23
Alignment explanation
Indices: 21088825--21088868 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
21088815 AATAAATAGG
21088825 AATAAATAAAAT-AAAATTTTAA
1 AATAAATAAAATAAAAATTTTAA
* *
21088847 AATAATTAGAATAAAAATTTTA
1 AATAAATAAAATAAAAATTTTA
21088869 GGTGAAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAAATAAAATAAAAATTTTAA
Found at i:21090886 original size:45 final size:45
Alignment explanation
Indices: 21090818--21090915 Score: 151
Period size: 45 Copynumber: 2.2 Consensus size: 45
21090808 GGTTTTACAT
*
21090818 TTTTCAGTCTTATCTACAGTTTTCACAAAACACCAACACTAGTTA
1 TTTTCAGTCTTATCTACAATTTTCACAAAACACCAACACTAGTTA
** * *
21090863 TTTTCAGTCTTATCTGTAATTTTCACAAAACACTAACGCTAGTTA
1 TTTTCAGTCTTATCTACAATTTTCACAAAACACCAACACTAGTTA
21090908 TTTTCAGT
1 TTTTCAGT
21090916 ATTTTTAGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 48 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.40
Consensus pattern (45 bp):
TTTTCAGTCTTATCTACAATTTTCACAAAACACCAACACTAGTTA
Found at i:21092872 original size:42 final size:42
Alignment explanation
Indices: 21092813--21092897 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
21092803 GAGTCCCTGT
21092813 GAATGTAAGGGATTGTTTTTTTACTATTTATGCCGTAAAGGA
1 GAATGTAAGGGATTGTTTTTTTACTATTTATGCCGTAAAGGA
*
21092855 GAATGTAAGGGATTGTTTTTTTACTATTTATGTCGTAAAGGA
1 GAATGTAAGGGATTGTTTTTTTACTATTTATGCCGTAAAGGA
21092897 G
1 G
21092898 TTTGAATGGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (42 bp):
GAATGTAAGGGATTGTTTTTTTACTATTTATGCCGTAAAGGA
Found at i:21093000 original size:21 final size:21
Alignment explanation
Indices: 21092976--21093021 Score: 51
Period size: 20 Copynumber: 2.2 Consensus size: 21
21092966 GACAGTTTTA
* *
21092976 GGAGTGAAATT-AGGGATATAG
1 GGAGTAAAATTGAGGGAT-GAG
21092997 GGAG-AAAATTGAGGGATGAG
1 GGAGTAAAATTGAGGGATGAG
21093017 GGAGT
1 GGAGT
21093022 TAGCAGTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.43, T:0.20
Consensus pattern (21 bp):
GGAGTAAAATTGAGGGATGAG
Found at i:21093018 original size:20 final size:20
Alignment explanation
Indices: 21092982--21093020 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21092972 TTTAGGAGTG
*
21092982 AAATTAGGGATATAGGGAGA
1 AAATTAGGGATAGAGGGAGA
21093002 AAATTGAGGGAT-GAGGGAG
1 AAATT-AGGGATAGAGGGAG
21093021 TTAGCAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.18
Consensus pattern (20 bp):
AAATTAGGGATAGAGGGAGA
Found at i:21099169 original size:28 final size:27
Alignment explanation
Indices: 21099122--21099175 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 27
21099112 CATGTAAATA
21099122 TAAAAAATTTAAAAAATATATACTTTTT
1 TAAAAAATTTAAAAAATATATA-TTTTT
*
21099150 TAAAAAA-TTAAAAATCTATATATTTT
1 TAAAAAATTTAAAAA-ATATATATTTT
21099176 ATTTTATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (27 bp):
TAAAAAATTTAAAAAATATATATTTTT
Found at i:21099296 original size:16 final size:17
Alignment explanation
Indices: 21099272--21099304 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
21099262 TATGAATTTT
*
21099272 TTTATAATTTA-TAAAA
1 TTTAAAATTTATTAAAA
21099288 TTTAAAATTTATTAAAA
1 TTTAAAATTTATTAAAA
21099305 GTTCTCCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTAAAATTTATTAAAA
Found at i:21105910 original size:18 final size:17
Alignment explanation
Indices: 21105885--21105939 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
21105875 AAAAGTACGT
21105885 TAAA-TTATTAATTAATA
1 TAAATTTATT-ATTAATA
*
21105902 TAAATTTATT-TTATTA
1 TAAATTTATTATTAATA
*
21105918 T-ATTTTATTATTTAATA
1 TAAATTTATTA-TTAATA
21105935 TAAAT
1 TAAAT
21105940 ATCTTAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
15 7 0.23
16 6 0.20
17 10 0.33
18 7 0.23
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTTATTATTAATA
Found at i:21109901 original size:14 final size:14
Alignment explanation
Indices: 21109884--21109921 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
21109874 CTTTCGTACG
21109884 ATTTC-TTTCACTTT
1 ATTTCATTTCA-TTT
21109898 ATTTCATTTCATTT
1 ATTTCATTTCATTT
*
21109912 ATTTTATTTC
1 ATTTCATTTC
21109922 TACTGACTAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.18, C:0.16, G:0.00, T:0.66
Consensus pattern (14 bp):
ATTTCATTTCATTT
Found at i:21112370 original size:22 final size:22
Alignment explanation
Indices: 21112344--21112426 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 22
21112334 CCCAAATCGG
*
21112344 TTGTTTTGCTACTATTTCGCTA
1 TTGTTTTGCTACTATTTCACTA
** ** *
21112366 TTGTTTTATTGTTGTTTCACTA
1 TTGTTTTGCTACTATTTCACTA
*
21112388 TTGTTTTGCTACCATTTCACTA
1 TTGTTTTGCTACTATTTCACTA
* * *
21112410 TTATATTGCTATTATTT
1 TTGTTTTGCTACTATTT
21112427 TATTGTTATT
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.17, C:0.14, G:0.11, T:0.58
Consensus pattern (22 bp):
TTGTTTTGCTACTATTTCACTA
Found at i:21112847 original size:21 final size:22
Alignment explanation
Indices: 21112821--21112862 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21112811 ATTTGAAGTT
21112821 AAAAG-TGCTTTT-ATTATTTTA
1 AAAAGTTG-TTTTCATTATTTTA
21112842 AAAAGTTGTTTTCATTATTTT
1 AAAAGTTGTTTTCATTATTTT
21112863 CTAATTTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (22 bp):
AAAAGTTGTTTTCATTATTTTA
Found at i:21112887 original size:17 final size:18
Alignment explanation
Indices: 21112857--21112891 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21112847 TTGTTTTCAT
21112857 TATTTTCTAATTTTCAAA
1 TATTTTCTAATTTTCAAA
*
21112875 TATTTT-TATTTTTCAAA
1 TATTTTCTAATTTTCAAA
21112892 AATTATTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTTTCTAATTTTCAAA
Found at i:21122485 original size:3 final size:3
Alignment explanation
Indices: 21122477--21122513 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
21122467 AGGAAAAATA
* *
21122477 AAT AAT AAT AGT AAT AAT AAT GAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
21122514 TGAAAAAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21122680 original size:3 final size:3
Alignment explanation
Indices: 21122672--21122708 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
21122662 GTAAATAGTG
21122672 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
21122709 ATATTATAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:21125238 original size:52 final size:52
Alignment explanation
Indices: 21125181--21125307 Score: 245
Period size: 52 Copynumber: 2.4 Consensus size: 52
21125171 CAAATAAAAT
*
21125181 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAGGGCTAA
1 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAAGGCTAA
21125233 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAAGGCTAA
1 AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAAGGCTAA
21125285 AAGAATCCATTTTTATGTTCTTC
1 AAGAATCCATTTTTATGTTCTTC
21125308 ATTCGTCTAG
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.43
Consensus pattern (52 bp):
AAGAATCCATTTTTATGTTCTTCTTCATTTTGGAACTGATTGCTAAGGCTAA
Found at i:21127943 original size:9 final size:9
Alignment explanation
Indices: 21127916--21127960 Score: 63
Period size: 9 Copynumber: 4.8 Consensus size: 9
21127906 TGAGGGTCTA
21127916 GCTATACAT
1 GCTATACAT
21127925 GCCATATACAT
1 G-C-TATACAT
21127936 GCTATACAT
1 GCTATACAT
21127945 GCTATACAT
1 GCTATACAT
*
21127954 GTTATAC
1 GCTATAC
21127961 TATGTTTTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
9 23 0.70
10 2 0.06
11 8 0.24
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.33
Consensus pattern (9 bp):
GCTATACAT
Found at i:21129275 original size:105 final size:105
Alignment explanation
Indices: 21129093--21129303 Score: 332
Period size: 105 Copynumber: 2.0 Consensus size: 105
21129083 AATGCAAGAT
* * *
21129093 TGAGTAACACAGCCACTAGAATGAGGCCACGAAGAAATATGGGAAATGCGAATGGTAATCGCAAT
1 TGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATATGGGAAATGCGAATGGTAATCACAAT
* *
21129158 ACTATGAGAGATTCTATAGTAAGATCCGAGGCTAGAGCAC
66 ACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGCAC
* * **
21129198 TGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATGTGGGAAATGCGAGTGGTAATCACGGT
1 TGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATATGGGAAATGCGAATGGTAATCACAAT
*
21129263 TCAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGCAC
66 ACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGCAC
21129303 T
1 T
21129304 AATGGGCGTC
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 96 1.00
ACGTcount: A:0.37, C:0.18, G:0.27, T:0.18
Consensus pattern (105 bp):
TGAGTAACACAGCCACTAGAAGGAGGCCACAAAGAAATATGGGAAATGCGAATGGTAATCACAAT
ACAATGAGAGATTCTACAGTAAGATCCGAGGCTAGAGCAC
Done.