Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 148 of 204
Found at i:45078296 original size:35 final size:35
Alignment explanation
Indices: 45078250--45078323 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
45078240 TTATTGTTTG
* * *
45078250 TATTAAAGTGTATGACATATTTGGATTTCTTTGGT
1 TATTAAAGTGTATGACAGATTTAGATTTCTTTCGT
* *
45078285 TATTAAAGTGTATGGCAGGTTTAGATTTCTTTCGT
1 TATTAAAGTGTATGACAGATTTAGATTTCTTTCGT
45078320 TATT
1 TATT
45078324 GTCTGCCATT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (35 bp):
TATTAAAGTGTATGACAGATTTAGATTTCTTTCGT
Found at i:45082088 original size:31 final size:30
Alignment explanation
Indices: 45082032--45082089 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
45082022 TGGTGACTGG
* *
45082032 TTTGTTATTTTACTAAAGTTTAGTGACTAT
1 TTTGTTATTTTAATAAAGTTGAGTGACTAT
*
45082062 TTTGTTATTTTAATCGAAGTTGAGTGAC
1 TTTGTTATTTTAAT-AAAGTTGAGTGAC
45082090 CATTAGTGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.26, C:0.07, G:0.17, T:0.50
Consensus pattern (30 bp):
TTTGTTATTTTAATAAAGTTGAGTGACTAT
Found at i:45087194 original size:21 final size:21
Alignment explanation
Indices: 45087129--45087200 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
45087119 GACTCAACTA
45087129 TTAAAATTTTAATAAAAATAAT
1 TTAAAATTTTAATAAAAAT-AT
* * * *
45087151 GTATATTTTTCAT-AAAA-AT
1 TTAAAATTTTAATAAAAATAT
45087170 TTAAAATTTTAATAAAAATAT
1 TTAAAATTTTAATAAAAATAT
45087191 TTAAAATTTT
1 TTAAAATTTT
45087201 GACAAATTTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 16 0.40
22 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
TTAAAATTTTAATAAAAATAT
Found at i:45087338 original size:32 final size:32
Alignment explanation
Indices: 45087302--45087362 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
45087292 CCATTCAAAA
*
45087302 TAAAATAATTAAATTAAATTTTAAAAGTTGGC
1 TAAAATAATTAAATTAAAATTTAAAAGTTGGC
* *
45087334 TAAAATAATTTAATTAAAATTTGAAAGTT
1 TAAAATAATTAAATTAAAATTTAAAAGTT
45087363 AAAGCTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.08, T:0.39
Consensus pattern (32 bp):
TAAAATAATTAAATTAAAATTTAAAAGTTGGC
Found at i:45096114 original size:20 final size:21
Alignment explanation
Indices: 45096089--45096129 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
45096079 TTTGCATCAA
*
45096089 TTGTTA-AAAGTATTGATACT
1 TTGTTAGAAAGTATCGATACT
*
45096109 TTGTTAGCAAGTATCGATACT
1 TTGTTAGAAAGTATCGATACT
45096130 CGTGGTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (21 bp):
TTGTTAGAAAGTATCGATACT
Found at i:45098277 original size:3 final size:3
Alignment explanation
Indices: 45098269--45098333 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
45098259 GGGTTTTCAA
* * * * *
45098269 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
45098314 AAT AAT GAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
45098334 CTAAGGCTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.60, C:0.02, G:0.09, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:45098555 original size:79 final size:78
Alignment explanation
Indices: 45098415--45098561 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 78
45098405 AAAATATTAG
* * *
45098415 GTAAATCAATATAAAAAGAAATATAATAGAAATAATTATGCAAAACTAACTAATTTAATAATATG
1 GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
45098480 ATAATAATAACAA
66 ATAATAATAACAA
* ** * *
45098493 GTAAAT-AA-ATAAAAAGGAAAATAATAATAGTAATAATAATGTTAAATTAATTAATATAATAAT
1 GTAAATCAATATAAAAA-G-AAAT-ATAATAGAAATAATAATGCAAAACTAACTAATATAATAAT
45098556 AAGATA
63 AAGATA
45098562 GCAAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 7 0.12
77 3 0.05
78 10 0.17
79 38 0.66
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (78 bp):
GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
ATAATAATAACAA
Found at i:45099890 original size:44 final size:44
Alignment explanation
Indices: 45099824--45100021 Score: 161
Period size: 44 Copynumber: 4.5 Consensus size: 44
45099814 CATTCCAACT
* * * *
45099824 CACTGTATCTTCAGGG-GTATAAGAATTGTCGCTTCGATTGAATC
1 CACTGTAACTTCAGGGAG-ATAAGACTTGTAGCTTCAATTGAATC
** *
45099868 CACTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCATTC
1 CACTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATTGAATC
* * * *
45099912 CACTGTAACTTAAGGGTGATAAGACTTATAGCTTCAATCTG-CTC
1 CACTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAAT-TGAATC
* * * * *
45099956 CGCTGCAACTTCAGGGAGATGAA-ATTTGT-GTCTTCAATCGACTC
1 CACTGTAACTTCAGGGAGAT-AAGACTTGTAG-CTTCAATTGAATC
* * *
45100000 CACTATGACCTCAGGGAGATAA
1 CACTGTAACTTCAGGGAGATAA
45100022 AGTGTGTAGC
Statistics
Matches: 124, Mismatches: 25, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
43 4 0.03
44 117 0.94
45 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (44 bp):
CACTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATTGAATC
Found at i:45100054 original size:88 final size:88
Alignment explanation
Indices: 45099870--45100056 Score: 200
Period size: 88 Copynumber: 2.1 Consensus size: 88
45099860 ATTGAATCCA
* * * *
45099870 CTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCATTCCACTGTAACTTAAGGGTGATAAG
1 CTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCACTCCACTATAACCTAAGGGAGATAAG
45099935 ACTTATAGCTTCAATCTGCTCCG
66 ACTTATAGCTTCAATCTGCTCCG
* * * * *
45099958 CTGCAACTTCAGGGAGATGAA-ATTTGT-GTCTTCAATCGACTCCACTATGACCTCAGGGAGATA
1 CTGTAACTTCAGGGAGAT-AAGACTTGTAG-CTTCAATCCACTCCACTATAACCTAAGGGAGATA
* * * *
45100021 A-AGTGTGTAGCTTTAATCTGCTCTG
64 AGACT-TATAGCTTCAATCTGCTCCG
*
45100046 TTGTAACTTCA
1 CTGTAACTTCA
45100057 AAAAGATAAG
Statistics
Matches: 81, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
87 3 0.04
88 76 0.94
89 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (88 bp):
CTGTAACTTCAGGGAGATAAGACTTGTAGCTTCAATCCACTCCACTATAACCTAAGGGAGATAAG
ACTTATAGCTTCAATCTGCTCCG
Found at i:45100246 original size:46 final size:47
Alignment explanation
Indices: 45100129--45100259 Score: 122
Period size: 46 Copynumber: 2.8 Consensus size: 47
45100119 GGTTTGCGAC
* *
45100129 TTTT-AACCTGCTCCATTACAACTTCAAGGAGATAAGATTTGGAGCCTA
1 TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAGATTT-G-GCCTA
* * * * * * **
45100177 TCTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTT-GTTTA
1 TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAGATTTGGCCTA
* *
45100223 TTTTCAACCTGCTCCACTACAACTTCAACGAGATAAG
1 TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAG
45100260 GTTTATAGCT
Statistics
Matches: 64, Mismatches: 18, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
46 32 0.50
48 3 0.05
49 29 0.45
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (47 bp):
TTTTCAACCTGCTCCACTACAACTTCAAGGAAATAAGATTTGGCCTA
Found at i:45100467 original size:44 final size:43
Alignment explanation
Indices: 45100178--45100747 Score: 311
Period size: 44 Copynumber: 12.8 Consensus size: 43
45100168 TGGAGCCTAT
* * * * * *
45100178 CTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTTGTTTAT
1 CTTCAATCTGCTCTACTGCAACTTCA-GGAGATAAGACTTG--TAA
* * * * * ** * *
45100224 TTTCAACCTGCTCCACTACAACTTCAACGAGATAAGGTTTATAG
1 CTTCAATCTGCTCTACTGCAACTTC-AGGAGATAAGACTTGTAA
* * * * *
45100268 CTTTAATCTGCTCTACTGCAACTTCGGAGAGATAAGATTTACTAT
1 CTTCAATCTGCTCTACTGCAACTTCAG-GAGATAAGACTT-GTAA
* * * * * * *
45100313 CTCCGATCTACTCCACTGCAACTTCAGAAGATAATA-TCTATAA
1 CTTCAATCTGCTCTACTGCAACTTCAGGAGATAAGACT-TGTAA
* * * ** * * *
45100356 CTTCAATCCGCCCCACTAAAACTTCAGGGAGACAATATTTGTAA
1 CTTCAATCTGCTCTACTGCAACTTCA-GGAGATAAGACTTGTAA
** * *
45100400 CCTTCAGGCTGCTCCACTACAACTTCGAGGAGATAAGACTTGTAA
1 -CTTCAATCTGCTCTACTGCAACTTC-AGGAGATAAGACTTGTAA
* * * **
45100445 CTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTTGTGT
1 CTTCAATCTGCTCTACTGCAACTTC-AGGAGATAAGACTTGTAA
* ** ** * * * *
45100489 CTTCAATCTACTCCGCTGTGACCTCAGAGAGATAAGATTTACTAT
1 CTTCAATCTGCTCTACTGCAACTTCAG-GAGATAAGACTT-GTAA
*
45100534 CTTCAATTTGCTCTACTGCAACTTCATGGAGATAAGACTTGTAA
1 CTTCAATCTGCTCTACTGCAACTTCA-GGAGATAAGACTTGTAA
* * * * * **
45100578 CTTCAATCTACTCTGCTGTAACTTCAAGGAGATGAG-GTTCGTGT
1 CTTCAATCTGCTCTACTGCAACTTC-AGGAGATAAGACTT-GTAA
* *
45100622 CTTCAATCTGCTCCACTGCAA-TCTCAGGAAGATAAGATTTGCTATA
1 CTTCAATCTGCTCTACTGCAACT-TCAGG-AGATAAGACTTG-TA-A
* *
45100668 -TTTAGTCTGCTCTACTGCAACTTCAGAGAGATAAGACTTGTAA
1 CTTCAATCTGCTCTACTGCAACTTCAG-GAGATAAGACTTGTAA
* *
45100711 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGA
1 CTTCAATCTGCTCTACTGCAACTTCA-GGAGATAAGA
45100748 TTCGTCATAA
Statistics
Matches: 402, Mismatches: 100, Indels: 46
0.73 0.18 0.08
Matches are distributed among these distances:
43 31 0.08
44 209 0.52
45 127 0.32
46 34 0.08
47 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (43 bp):
CTTCAATCTGCTCTACTGCAACTTCAGGAGATAAGACTTGTAA
Found at i:45100485 original size:89 final size:89
Alignment explanation
Indices: 45100178--45100749 Score: 380
Period size: 89 Copynumber: 6.4 Consensus size: 89
45100168 TGGAGCCTAT
* * * * ** * * *
45100178 CTTCAATCTACTCCACTGCAACTTTAGGGAAATAAGATTTGTTTATTTTCAACCTGCTCCACTAC
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTG--TAACTTCAATCTACTCCACTGC
** *
45100243 AACTTCA-ACGAGATAAGGTTTA-TAG
64 AACTTCAGA-GAGATAAGACTTAGTAA
* * * * * * *
45100268 CTTTAATCTGCTCTACTGCAACTTC-GGAGAGATAAGATTTACTATCTCCGATCTACTCCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAAG-GAGATAAGATTT-GTAACTTCAATCTACTCCACTGC
*
45100332 AACTTCAGA-AGATAATA-TCTA-TAA
64 AACTTCAGAGAGATAAGACT-TAGTAA
* * ** * * * ** * *
45100356 CTTCAATCCGCCCCACTAAAACTTCAGGGAGACAATATTTGTAACCTTCAGGCTGCTCCACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAA-CTTCAATCTACTCCACTGCA
45100421 ACTTC-GAGGAGATAAGACTT-GTAA
65 ACTTCAGA-GAGATAAGACTTAGTAA
** * ** * **
45100445 CTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTTGTGTCTTCAATCTACTCCGCTGTGA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTACTCCACTGCAA
* * * *
45100510 CCTCAGAGAGATAAGATTTACTAT
66 CTTCAGAGAGATAAGACTTAGTAA
* * * * ** *
45100534 CTTCAATTTGCTCTACTGCAACTTCATGGAGATAAGACTTGTAACTTCAATCTACTCTGCTGTAA
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTACTCCACTGCAA
* * * **
45100599 CTTCA-AGGAGATGAG-GTTCGTGT
66 CTTCAGA-GAGATAAGACTTAGTAA
* * * *
45100622 CTTCAATCTGCTCCACTGCAA-TCTC-AGGAAGATAAGATTTGCTATA-TTTAGTCTGCTCTACT
1 CTTCAATCTGCTCCACTGCAACT-TCAAGG-AGATAAGATTTG-TA-ACTTCAATCTACTCCACT
45100684 GCAACTTCAGAGAGATAAGACTT-GTAA
62 GCAACTTCAGAGAGATAAGACTTAGTAA
* *
45100711 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT
45100750 CGTCATAATG
Statistics
Matches: 376, Mismatches: 85, Indels: 43
0.75 0.17 0.09
Matches are distributed among these distances:
87 8 0.02
88 123 0.33
89 204 0.54
90 41 0.11
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.31
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGATTTGTAACTTCAATCTACTCCACTGCAA
CTTCAGAGAGATAAGACTTAGTAA
Found at i:45100493 original size:133 final size:131
Alignment explanation
Indices: 45100225--45100752 Score: 440
Period size: 133 Copynumber: 4.0 Consensus size: 131
45100215 TTTGTTTATT
* ** * * * * *
45100225 TTCAACCTGCTCCACT-ACAACTTCAACGAGATAAGGTTTATAGCTTTAATCTGCTCTACTGCAA
1 TTCAATCTGCTCCACTGA-AACTTCAGGGAGATAAGATTTGTAACTTCAGTCTGCTCTACTGCAA
* * * * * * * ** *
45100289 CTTCGGAGAGATAAGATTTACTATCTCCGATCTACTCCACTGCAACTTC-AGAAGAT-A-ATATC
65 CTTCAG-GAGATAAGACTT-GTAACTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGAT-TC
*
45100351 -TATAAC
127 GTGT--C
* * * * * * * *
45100357 TTCAATCCGCCCCACTAAAACTTCAGGGAGACAATATTTGTAACCTTCAGGCTGCTCCACTACAA
1 TTCAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGTAA-CTTCAGTCTGCTCTACTGCAA
*
45100422 CTTCGAGGAGATAAGACTTGTAACTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTTGT
65 CTTC-AGGAGATAAGACTTGTAACTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTCGT
45100487 GTC
129 GTC
* * ** * * * * * *
45100490 TTCAATCTACTCCGCTGTGACCTCAGAGAGATAAGATTTACTATCTTCAATTTGCTCTACTGCAA
1 TTCAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTT-GTAACTTCAGTCTGCTCTACTGCAA
* * *
45100555 CTTCATGGAGATAAGACTTGTAACTTCAATCTACTCTGCTGTAACTTCAAGGAGATGAGGTTCGT
65 CTTCA-GGAGATAAGACTTGTAACTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTCGT
45100620 GTC
129 GTC
* * *
45100623 TTCAATCTGCTCCACTGCAA-TCTCAGGAAGATAAGATTTGCTATA-TTTAGTCTGCTCTACTGC
1 TTCAATCTGCTCCACTGAAACT-TCAGGGAGATAAGATTTG-TA-ACTTCAGTCTGCTCTACTGC
* ** * *
45100686 AACTTCAGAGAGATAAGACTTGTAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGATTC
63 AACTTCAG-GAGATAAGACTTGTAACTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTC
45100751 GT
127 GT
45100753 CATAATGACT
Statistics
Matches: 314, Mismatches: 69, Indels: 25
0.77 0.17 0.06
Matches are distributed among these distances:
132 55 0.18
133 250 0.80
134 5 0.02
135 4 0.01
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (131 bp):
TTCAATCTGCTCCACTGAAACTTCAGGGAGATAAGATTTGTAACTTCAGTCTGCTCTACTGCAAC
TTCAGGAGATAAGACTTGTAACTTCAATCTGCTCTGCTGCAACTTCAAGGAGATGAGATTCGTGT
C
Found at i:45112616 original size:50 final size:50
Alignment explanation
Indices: 45112500--45112655 Score: 204
Period size: 50 Copynumber: 3.1 Consensus size: 50
45112490 GATCATAACA
** * *
45112500 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATATTCTCATATTGA
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * ** *
45112551 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
45112601 TGCCAACGCCATGTCCCAGACATAGTCTTACATGGGACCTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
45112651 TGCCA
1 TGCCA
45112656 GACATGGTCT
Statistics
Matches: 90, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
50 57 0.63
51 33 0.37
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:45112666 original size:37 final size:37
Alignment explanation
Indices: 45112616--45112692 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
45112606 ACGCCATGTC
45112616 CCAGACATAGTCTTACATGGGACCTCTCATATCGGTG
1 CCAGACATAGTCTTACATGGGACCTCTCATATCGGTG
* * *
45112653 CCAGACATGGTCTTACATTGGACCTCTCATCTCGGTG
1 CCAGACATAGTCTTACATGGGACCTCTCATATCGGTG
45112690 CCA
1 CCA
45112693 ACGCCATCCG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (37 bp):
CCAGACATAGTCTTACATGGGACCTCTCATATCGGTG
Found at i:45112771 original size:56 final size:48
Alignment explanation
Indices: 45112653--45112783 Score: 145
Period size: 48 Copynumber: 2.6 Consensus size: 48
45112643 CATATCGGTG
*
45112653 CCAGACATGGTCTTACATTGGACCTCTCATCTCGGTGCCAACGCCATC
1 CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATC
* *
45112701 CGAGACATGGTCTTACATGGGACCTCTCATGACCTCAAGGATGCCAATGCCATGTC
1 CCAGACATGGTCTTACATGGGACCTCTCAT---CTC--GG-TGCCAACGCCA--TC
* *
45112757 CCAGACATGATCTTACATGGGATCTCT
1 CCAGACATGGTCTTACATGGGACCTCT
45112784 TTACCTAAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
48 28 0.41
51 3 0.04
53 2 0.03
54 10 0.14
56 26 0.38
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.25
Consensus pattern (48 bp):
CCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACGCCATC
Found at i:45115188 original size:3 final size:3
Alignment explanation
Indices: 45115180--45115244 Score: 51
Period size: 3 Copynumber: 21.0 Consensus size: 3
45115170 GGGTTTTCAA
* * * * *
45115180 AAT AAT AAT ACT AAT AAT AAT GAG AAT AAT -AT GAAT GAT AAT AAA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT
45115225 AAT AAT AAAT AAT GAAT AAT
1 AAT AAT -AAT AAT -AAT AAT
45115245 CTAAGGTTTG
Statistics
Matches: 48, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
2 2 0.04
3 38 0.79
4 8 0.17
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:45115466 original size:79 final size:78
Alignment explanation
Indices: 45115326--45115472 Score: 181
Period size: 79 Copynumber: 1.9 Consensus size: 78
45115316 AAAATATTAG
* * *
45115326 GTAAATCAATATAAAAAGAAATATAATAGAAATAATTATGCAAAACTAACTAATTTAATAATATG
1 GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
45115391 ATAATAATAACAA
66 ATAATAATAACAA
* ** * *
45115404 GTAAAT-AA-ATAAAAAGGAAAATAATAATAGTAATAATAATGTTAAATTAATTAATATAATAAT
1 GTAAATCAATATAAAAA-G-AAAT-ATAATAGAAATAATAATGCAAAACTAACTAATATAATAAT
45115467 AAGATA
63 AAGATA
45115473 GCAAAAATAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
76 7 0.12
77 3 0.05
78 10 0.17
79 38 0.66
ACGTcount: A:0.60, C:0.03, G:0.07, T:0.29
Consensus pattern (78 bp):
GTAAATCAATATAAAAAGAAATATAATAGAAATAATAATGCAAAACTAACTAATATAATAATAAG
ATAATAATAACAA
Found at i:45123716 original size:33 final size:33
Alignment explanation
Indices: 45123674--45123740 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
45123664 AAAGGACTTT
* *
45123674 GAATTATGGAGTGAATTTTGAGAAGACAAAAGA
1 GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
45123707 GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
1 GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
45123740 G
1 G
45123741 CTTAAGTTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.03, G:0.27, T:0.22
Consensus pattern (33 bp):
GAATTATGGAGTGAAATTTAAGAAGACAAAAGA
Found at i:45124222 original size:28 final size:28
Alignment explanation
Indices: 45124190--45124250 Score: 122
Period size: 28 Copynumber: 2.2 Consensus size: 28
45124180 CCTTAAGAAG
45124190 AAGGATTGGTATTTGTTGCATACAGTCC
1 AAGGATTGGTATTTGTTGCATACAGTCC
45124218 AAGGATTGGTATTTGTTGCATACAGTCC
1 AAGGATTGGTATTTGTTGCATACAGTCC
45124246 AAGGA
1 AAGGA
45124251 AGAGTGTTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
AAGGATTGGTATTTGTTGCATACAGTCC
Found at i:45128302 original size:103 final size:103
Alignment explanation
Indices: 45128194--45128392 Score: 326
Period size: 103 Copynumber: 1.9 Consensus size: 103
45128184 ATGGGTGTAC
* * ** *
45128194 AATAATACTTTGTTATCTTTAAAATTTACTGATGCGACTTTATTTTATTAGTGTCTAAAAATTAT
1 AATAATACTTTGTTACCTTTAAAATTTAATGATGCGACACTATTTTATTAGTGCCTAAAAATTAT
45128259 GTTTTTTAGGATGATCCTAATATAAGTTATTCTCGTAT
66 GTTTTTTAGGATGATCCTAATATAAGTTATTCTCGTAT
* * *
45128297 AATAATACTTTGTTACCTTTAAAATTTAATGATGTGGCACTATTTTATTGGTGCCTAAAAATTAT
1 AATAATACTTTGTTACCTTTAAAATTTAATGATGCGACACTATTTTATTAGTGCCTAAAAATTAT
45128362 GTTTTTTAGGATGATCCTAATATAAGTTATT
66 GTTTTTTAGGATGATCCTAATATAAGTTATT
45128393 GTCATTTTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 88 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.46
Consensus pattern (103 bp):
AATAATACTTTGTTACCTTTAAAATTTAATGATGCGACACTATTTTATTAGTGCCTAAAAATTAT
GTTTTTTAGGATGATCCTAATATAAGTTATTCTCGTAT
Found at i:45140143 original size:24 final size:27
Alignment explanation
Indices: 45140104--45140156 Score: 85
Period size: 25 Copynumber: 2.1 Consensus size: 27
45140094 AAAAAACTTT
45140104 AACCCTAACCCTTAAAAAAT-TAA-AA
1 AACCCTAACCCTTAAAAAATCTAATAA
45140129 AACCCTAACCC-TAAAAAATCTAATAA
1 AACCCTAACCCTTAAAAAATCTAATAA
45140155 AA
1 AA
45140157 GTGTGTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 8 0.31
25 14 0.54
26 4 0.15
ACGTcount: A:0.57, C:0.25, G:0.00, T:0.19
Consensus pattern (27 bp):
AACCCTAACCCTTAAAAAATCTAATAA
Found at i:45144282 original size:156 final size:157
Alignment explanation
Indices: 45144116--45144424 Score: 530
Period size: 157 Copynumber: 2.0 Consensus size: 157
45144106 ATAAGAATAT
*
45144116 TAATTATTAAGAATTTTATTAAATTATATA-TTTAAGTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
45144180 AAATATGATTAAATTATTTATTATTCATATTAATAATCTTATCAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
45144245 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
* *
45144272 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATGTTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
* *
45144337 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
* *
45144402 TAATCATTTACCAAAATAAATTT
131 TAATAATTTACCAAAACAAATTT
45144425 ATGCTAAGGG
Statistics
Matches: 143, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
156 30 0.21
157 113 0.79
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAAGTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTCATAATAATAATCTTATCAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:45144578 original size:16 final size:16
Alignment explanation
Indices: 45144554--45144621 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
45144544 GATTTGATAT
*
45144554 TACAGCTCTAATCCAA
1 TACACCTCTAATCCAA
45144570 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
45144586 TACACTTCTAATCCAA
1 TACACCTCTAATCCAA
*
45144602 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
45144618 TACA
1 TACA
45144622 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.38, C:0.32, G:0.01, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45158327 original size:46 final size:46
Alignment explanation
Indices: 45158243--45158646 Score: 302
Period size: 46 Copynumber: 8.6 Consensus size: 46
45158233 TTTGAGTACT
* * *
45158243 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCT-TTAGCTACACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATCAGCTACACTTA
* * *
45158289 TCTGATCAAGTGACAAGTGGA-AAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAAGT-GATAAGTGAT-AG--CTA---TCAGCTACACTTA
* * *
45158341 TCTGATCAAGTGATAAAGTGATAAGTGATAGCT-TCGGCTATACTTA
1 TCTGATCAAGTGA-CAAGTGATAAGTGATAGCTATCAGCTACACTTA
45158387 TCTGATCAAGTGACAAAGTGATAAGTGATAGCT-TCAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTATCAGCTACACTTA
*
45158433 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCT-TCGGCTACACTTA
1 TCTGATCAAGTGAC-------AAGTGATAAGTGATAGCTATCAGCTACACTTA
* *
45158485 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTA
1 TCTGATCAAGTGAC-------AAGTGATAAGTGATAGCTATCAGCTACACTTA
* *
45158537 TCTGATCAAGAGACAAAGTGATAAGTGATAGCT-TTAGCTACACTTA
1 TCTGATCAAGTGAC-AAGTGATAAGTGATAGCTATCAGCTACACTTA
* * *
45158583 TCTGATCAA--GA-AA--CA-AAGTGATAG--GT-GGCTACACTTA
1 TCTGATCAAGTGACAAGTGATAAGTGATAGCTATCAGCTACACTTA
*
45158620 TCTGATC-AGGGACAAGTGATAAGTGAT
1 TCTGATCAAGTGACAAGTGATAAGTGAT
45158647 CATACGTAAG
Statistics
Matches: 313, Mismatches: 21, Indels: 52
0.81 0.05 0.13
Matches are distributed among these distances:
36 1 0.00
37 17 0.05
38 3 0.01
39 11 0.04
40 1 0.00
41 1 0.00
42 9 0.03
44 2 0.01
45 10 0.03
46 124 0.40
48 1 0.00
50 1 0.00
52 121 0.39
53 11 0.04
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (46 bp):
TCTGATCAAGTGACAAGTGATAAGTGATAGCTATCAGCTACACTTA
Found at i:45158328 original size:52 final size:48
Alignment explanation
Indices: 45158243--45158592 Score: 437
Period size: 46 Copynumber: 7.2 Consensus size: 48
45158233 TTTGAGTACT
* **
45158243 TCTGATCAAGTG--ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
45158289 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
45158341 TCTGATCAAGTG--ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
45158387 TCTGATCAAGTGAC--AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
45158433 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
45158485 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGAC-A-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
45158537 TCTGATCAAGAGAC--AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
45158583 TCTGATCAAG
1 TCTGATCAAG
45158593 AAACAAAGTG
Statistics
Matches: 275, Mismatches: 15, Indels: 28
0.86 0.05 0.09
Matches are distributed among these distances:
46 138 0.50
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.48
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (48 bp):
TCTGATCAAGTGACATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:45158363 original size:98 final size:97
Alignment explanation
Indices: 45158243--45158592 Score: 494
Period size: 98 Copynumber: 3.6 Consensus size: 97
45158233 TTTGAGTACT
* *
45158243 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
45158308 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
45158341 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
45158401 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
45158433 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
45158498 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * *
45158537 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAG
45158593 AAACAAAGTG
Statistics
Matches: 226, Mismatches: 14, Indels: 24
0.86 0.05 0.09
Matches are distributed among these distances:
92 41 0.18
95 1 0.00
96 1 0.00
98 141 0.62
101 1 0.00
104 41 0.18
ACGTcount: A:0.34, C:0.15, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:45161306 original size:43 final size:45
Alignment explanation
Indices: 45161229--45161312 Score: 111
Period size: 43 Copynumber: 1.9 Consensus size: 45
45161219 ATTTTTATTT
* *
45161229 TTATTTAATTATATTTAGTAATAATTATATTAAAATATAATTAAA
1 TTATTTAATTATATTTAATAATAATTATAGTAAAATATAATTAAA
*
45161274 TTATTT-ATTAT-TTTAATAATAATCT-TAGTAAAATTTAAT
1 TTATTTAATTATATTTAATAATAAT-TATAGTAAAATATAAT
45161313 AACAATAATT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
43 23 0.66
44 6 0.17
45 6 0.17
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (45 bp):
TTATTTAATTATATTTAATAATAATTATAGTAAAATATAATTAAA
Found at i:45161492 original size:16 final size:16
Alignment explanation
Indices: 45161468--45161521 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 16
45161458 TAAATTACTG
*
45161468 ATTACAGTTCTATTCC
1 ATTATAGTTCTATTCC
45161484 ATTATAGTTCTATTCC
1 ATTATAGTTCTATTCC
**
45161500 ATT-TCAACTCTATTCC
1 ATTAT-AGTTCTATTCC
45161516 ATTATA
1 ATTATA
45161522 ACTCTATTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 1 0.03
16 31 0.94
17 1 0.03
ACGTcount: A:0.28, C:0.22, G:0.04, T:0.46
Consensus pattern (16 bp):
ATTATAGTTCTATTCC
Found at i:45161535 original size:16 final size:16
Alignment explanation
Indices: 45161476--45161529 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
45161466 TGATTACAGT
**
45161476 TCTATTCCATTATAGT
1 TCTATTCCATTATAAC
45161492 TCTATTCCATT-TCAAC
1 TCTATTCCATTAT-AAC
45161508 TCTATTCCATTATAAC
1 TCTATTCCATTATAAC
45161524 TCTATT
1 TCTATT
45161530 TTATTACAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
15 1 0.03
16 32 0.94
17 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (16 bp):
TCTATTCCATTATAAC
Found at i:45179210 original size:22 final size:23
Alignment explanation
Indices: 45179175--45179219 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
45179165 CCGTCATACT
*
45179175 TCAATGTCGCGACA-CCGAGGCA
1 TCAATGCCGCGACATCCGAGGCA
* *
45179197 TCAATGCCGTGACATCCGTGGCA
1 TCAATGCCGCGACATCCGAGGCA
45179220 GGGGGCACGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (23 bp):
TCAATGCCGCGACATCCGAGGCA
Found at i:45181201 original size:21 final size:22
Alignment explanation
Indices: 45181171--45181234 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
45181161 CAAAAGCAGT
* *
45181171 ATACAACACATAAAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
*
45181193 A-ACGACACACT-TGGTGCCT-A
1 ATACGACACA-TATAGTGCCTGA
45181213 ATACGACACATATAGTGCCTGA
1 ATACGACACATATAGTGCCTGA
45181235 TCGGCAAAGC
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 3 0.09
21 28 0.82
22 3 0.09
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (22 bp):
ATACGACACATATAGTGCCTGA
Found at i:45181343 original size:6 final size:6
Alignment explanation
Indices: 45181332--45181375 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
45181322 CAAATCACTT
* *
45181332 TTTCAA TTTCAA TTTCAA TTTCAC TTTCAA TGTACAA -TTCAA TT
1 TTTCAA TTTCAA TTTCAA TTTCAA TTTCAA T-TTCAA TTTCAA TT
45181376 CGATACAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
5 4 0.12
6 24 0.75
7 4 0.12
ACGTcount: A:0.32, C:0.18, G:0.02, T:0.48
Consensus pattern (6 bp):
TTTCAA
Found at i:45182368 original size:14 final size:17
Alignment explanation
Indices: 45182349--45182386 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
45182339 ATTTATTTCT
45182349 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
45182363 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
45182380 TAATATA
1 TAATATA
45182387 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:45182404 original size:11 final size:11
Alignment explanation
Indices: 45182366--45182404 Score: 51
Period size: 12 Copynumber: 3.4 Consensus size: 11
45182356 ATATTTATAA
45182366 TATAATTAATT
1 TATAATTAATT
*
45182377 TAATAATATACTT
1 T-ATAAT-TAATT
45182390 TATAATTAATT
1 TATAATTAATT
45182401 TATA
1 TATA
45182405 TATTTATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 9 0.38
12 10 0.42
13 5 0.21
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (11 bp):
TATAATTAATT
Found at i:45185113 original size:51 final size:51
Alignment explanation
Indices: 45185053--45185195 Score: 191
Period size: 51 Copynumber: 2.8 Consensus size: 51
45185043 TACCAGTTCA
* *
45185053 CATAGTAGCCTGCACATAGTACTACAAATGTGACCATCACTATCCGATACA-
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATA-AG
* * * * *
45185104 CGTAGTAGCCTACACATAGTACTACACACGTGATCA-AAGCTATCCGGTAAG
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCATCA-CTATCCGATAAG
45185155 CATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
1 CATAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
45185196 TTCAATTTCA
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
50 2 0.03
51 75 0.96
52 1 0.01
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (51 bp):
CATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATAAG
Found at i:45185210 original size:51 final size:49
Alignment explanation
Indices: 45185049--45185225 Score: 151
Period size: 51 Copynumber: 3.5 Consensus size: 49
45185039 ATGATACCAG
* * * *
45185049 TTCACATAGTAGCCTGCACATAGTACTACAAATGTGACCATCACTATCCGA
1 TTCACATAGTAGCCTACACATAGTACTACACACGTGACCATCACT-TTC-A
* * * * * *
45185100 TACACGTAGTAGCCTACACATAGTACTACACACGTGATCA-AAGCTATCCG
1 TTCACATAGTAGCCTACACATAGTACTACACACGTGACCATCA-CT-TTCA
* * *
45185150 GTAAGCATAGTAGCCTGCACATAGTACTACACACGTGACCATCACTTTCAA
1 TTCA-CATAGTAGCCTACACATAGTACTACACACGTGACCATCACTTTC-A
45185201 TTTCACATAGT-GACCTACACATAGT
1 -TTCACATAGTAG-CCTACACATAGT
45185226 CCATGCCACA
Statistics
Matches: 100, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
50 5 0.05
51 92 0.92
52 3 0.03
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.25
Consensus pattern (49 bp):
TTCACATAGTAGCCTACACATAGTACTACACACGTGACCATCACTTTCA
Found at i:45188842 original size:25 final size:25
Alignment explanation
Indices: 45188814--45189134 Score: 171
Period size: 25 Copynumber: 12.8 Consensus size: 25
45188804 GTGAGTTGTA
45188814 TATCGGGAAGCTCATGCA-AGCCATT
1 TATCGGGAAGCTCATG-AGAGCCATT
* * * *
45188839 TATCGAGAAGCTTAAGAGAGCTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* **
45188864 AATCGGGAAGCTCATGAGAGCCAAG
1 TATCGGGAAGCTCATGAGAGCCATT
** **
45188889 TATCGGGAAGCTCAAAAGAGTTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* * * **
45188914 AATTGGGAAGCTCATGAGAGCAAAG
1 TATCGGGAAGCTCATGAGAGCCATT
* * *
45188939 TATCGAGAAGCTCAAGAGAGCTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* * * **
45188964 AATCGGGAAGCTCATGAAAGCAAAG
1 TATCGGGAAGCTCATGAGAGCCATT
* ** **
45188989 TATAGGGAAGCTCAAAAGAGTTATT
1 TATCGGGAAGCTCATGAGAGCCATT
* ** * **
45189014 AATTAGAAAGCTCATGAGAGCCAAG
1 TATCGGGAAGCTCATGAGAGCCATT
* *
45189039 TATCGGGAAGCTCAAGAGAGCTA-T
1 TATCGGGAAGCTCATGAGAGCCATT
* ** *
45189063 TACTTGGGAAGCTCAT-ATGAGCTGTA
1 TA-TCGGGAAGCTCATGA-GAGCCATT
* * * **
45189089 TATTGGGAAGCTCTTGCGAGCCAAA
1 TATCGGGAAGCTCATGAGAGCCATT
*
45189114 TATCGGGAAGCTCAAGAGAGC
1 TATCGGGAAGCTCATGAGAGC
45189135 TGTGGTGTGT
Statistics
Matches: 212, Mismatches: 79, Indels: 10
0.70 0.26 0.03
Matches are distributed among these distances:
24 4 0.02
25 206 0.97
26 2 0.01
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.21
Consensus pattern (25 bp):
TATCGGGAAGCTCATGAGAGCCATT
Found at i:45188956 original size:100 final size:100
Alignment explanation
Indices: 45188839--45189078 Score: 390
Period size: 100 Copynumber: 2.4 Consensus size: 100
45188829 GCAAGCCATT
* * * *
45188839 TATCGAGAAGCTTAAGAGAGCTATTAATCGGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAA
1 TATCGAGAAGCTCAAGAGAGCTATTAATCGGGAAGCTCATGAAAGCAAAGTATAGGGAAGCTCAA
* *
45188904 AAGAGTTATTAATTGGGAAGCTCATGAGAGCAAAG
66 AAGAGTTATTAATTAGAAAGCTCATGAGAGCAAAG
45188939 TATCGAGAAGCTCAAGAGAGCTATTAATCGGGAAGCTCATGAAAGCAAAGTATAGGGAAGCTCAA
1 TATCGAGAAGCTCAAGAGAGCTATTAATCGGGAAGCTCATGAAAGCAAAGTATAGGGAAGCTCAA
*
45189004 AAGAGTTATTAATTAGAAAGCTCATGAGAGCCAAG
66 AAGAGTTATTAATTAGAAAGCTCATGAGAGCAAAG
* * *
45189039 TATCGGGAAGCTCAAGAGAGCTATTACTTGGGAAGCTCAT
1 TATCGAGAAGCTCAAGAGAGCTATTAATCGGGAAGCTCAT
45189079 ATGAGCTGTA
Statistics
Matches: 130, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 130 1.00
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.21
Consensus pattern (100 bp):
TATCGAGAAGCTCAAGAGAGCTATTAATCGGGAAGCTCATGAAAGCAAAGTATAGGGAAGCTCAA
AAGAGTTATTAATTAGAAAGCTCATGAGAGCAAAG
Found at i:45189101 original size:50 final size:50
Alignment explanation
Indices: 45188818--45189078 Score: 344
Period size: 50 Copynumber: 5.2 Consensus size: 50
45188808 GTTGTATATC
** * * *
45188818 GGGAAGCTCATGCA-AGCCATTTATCGAGAAGCTTAAGAGAGCTATTAATC
1 GGGAAGCTCATG-AGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* *
45188868 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAAAGAGTTATTAATT
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* * *
45188918 GGGAAGCTCATGAGAGCAAAGTATCGAGAAGCTCAAGAGAGCTATTAATC
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* * * * *
45188968 GGGAAGCTCATGAAAGCAAAGTATAGGGAAGCTCAAAAGAGTTATTAATT
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
* * *
45189018 AGAAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTACTT
1 GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
45189068 GGGAAGCTCAT
1 GGGAAGCTCAT
45189079 ATGAGCTGTA
Statistics
Matches: 182, Mismatches: 28, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
49 1 0.01
50 181 0.99
ACGTcount: A:0.37, C:0.15, G:0.27, T:0.21
Consensus pattern (50 bp):
GGGAAGCTCATGAGAGCCAAGTATCGGGAAGCTCAAGAGAGCTATTAATT
Found at i:45190678 original size:3 final size:3
Alignment explanation
Indices: 45190672--45190729 Score: 62
Period size: 3 Copynumber: 19.0 Consensus size: 3
45190662 ATCATTACAT
* * * *
45190672 TTA TTA TTA TTA TTG TTA TTG TTA TTA TTA TTA CTA TTA TTA CTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
*
45190721 TTA CTA TTA
1 TTA TTA TTA
45190730 GTTTTATTTT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
3 42 0.95
4 2 0.05
ACGTcount: A:0.29, C:0.05, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:45190813 original size:14 final size:14
Alignment explanation
Indices: 45190796--45190825 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
45190786 GCTTTATTAT
45190796 TATATATACATACA
1 TATATATACATACA
*
45190810 TATATATACTTACA
1 TATATATACATACA
45190824 TA
1 TA
45190826 CTCTTGTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (14 bp):
TATATATACATACA
Found at i:45191644 original size:74 final size:75
Alignment explanation
Indices: 45191501--45191644 Score: 202
Period size: 74 Copynumber: 1.9 Consensus size: 75
45191491 TCTTTTCAAA
* *
45191501 CTCAAATTTTCAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATTTC
1 CTCAAATTTTAAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
45191566 TTTTTTCTTT
66 TTTTTTCTTT
* * * * * *
45191576 CTCAAGTTTTAAATGATCTCGGGATTTATAAA-AGATCGTGTCCTAACTTACTGGTCGTGATC-C
1 CTCAAATTTTAAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
45191639 TTTTTT
66 TTTTTT
45191645 AAAATCCGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
73 7 0.11
74 27 0.44
75 27 0.44
ACGTcount: A:0.26, C:0.18, G:0.17, T:0.40
Consensus pattern (75 bp):
CTCAAATTTTAAACGATCTCGGGAATTAAAAAGAGATCGTGTCCTAACTTACTGGGCATGATCTC
TTTTTTCTTT
Found at i:45197480 original size:19 final size:19
Alignment explanation
Indices: 45197456--45197495 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45197446 GAATTTAGGC
45197456 AAATATTGAGTA-AAAATTG
1 AAATATT-AGTATAAAATTG
*
45197475 AAATATTAGTATGAAATTG
1 AAATATTAGTATAAAATTG
45197494 AA
1 AA
45197496 TTGTGTTGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.53, C:0.00, G:0.15, T:0.33
Consensus pattern (19 bp):
AAATATTAGTATAAAATTG
Found at i:45197965 original size:41 final size:39
Alignment explanation
Indices: 45197908--45198020 Score: 151
Period size: 37 Copynumber: 2.9 Consensus size: 39
45197898 TTTCTTCGAG
45197908 TCGATGAGACACTGGGTGTCAATTTATTACTTCAGATTTA
1 TCGATGAGACACTGGGTGTCAATTTATTACTTC-GATTTA
*
45197948 TTCGATGAGGCACTGGGTGTCAA--T-TTACTTCGATTTA
1 -TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTA
* *
45197985 ACTGATGAGACACTGGGTGTCAATTTACTACTTCGA
1 TC-GATGAGACACTGGGTGTCAATTTATTACTTCGA
45198021 AGTATCCGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
36 1 0.02
37 25 0.39
38 7 0.11
39 2 0.03
40 8 0.12
41 21 0.33
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGTCAATTTATTACTTCGATTTA
Found at i:45198950 original size:110 final size:110
Alignment explanation
Indices: 45198771--45198990 Score: 341
Period size: 110 Copynumber: 2.0 Consensus size: 110
45198761 TAGCATACGG
* * * * *
45198771 GCGTGTGAGGCCATTTTGAAAGGGCACACGGTCTGGCACATGGGCGTGTGGTTCGGCTGTGTGAC
1 GCGTGTGAGGCCATTTCGAAAGGGCACACGATCTAGCACACGGGCATGTGGTTCGGCTGTGTGAC
* * *
45198836 CCAAGTCAGAGAGTTACACAGGTATAAACATTGGCTGGGACACGA
66 CCAAGCCAGAGAGTTACACAGGTATAAACACTGGCTGAGACACGA
* *
45198881 GCGTGTGAGGCCATTTCGAAAGGGCATACGATCTAGCACACGGGCATGTGGTTCGGCTGTGTGAT
1 GCGTGTGAGGCCATTTCGAAAGGGCACACGATCTAGCACACGGGCATGTGGTTCGGCTGTGTGAC
*
45198946 CCAAGCCAGAGAGTTACACAGGTATAGACACTGGCTGAGACACGA
66 CCAAGCCAGAGAGTTACACAGGTATAAACACTGGCTGAGACACGA
45198991 CCGCGTGTCC
Statistics
Matches: 99, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
110 99 1.00
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.21
Consensus pattern (110 bp):
GCGTGTGAGGCCATTTCGAAAGGGCACACGATCTAGCACACGGGCATGTGGTTCGGCTGTGTGAC
CCAAGCCAGAGAGTTACACAGGTATAAACACTGGCTGAGACACGA
Found at i:45203544 original size:16 final size:17
Alignment explanation
Indices: 45203510--45203548 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
45203500 TTGGAAAAGA
*
45203510 AAATATTTTTTAATAAT
1 AAATATTTTATAATAAT
45203527 AAATATTTTATAAT-AT
1 AAATATTTTATAATAAT
45203543 AAATAT
1 AAATAT
45203549 GAGTACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTTTATAATAAT
Found at i:45204022 original size:13 final size:13
Alignment explanation
Indices: 45203989--45204023 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
45203979 ATATATATTT
45203989 AAAAATT-ATATA
1 AAAAATTAATATA
45204001 AAAAA-TAATATA
1 AAAAATTAATATA
45204013 AAAAATTAATA
1 AAAAATTAATA
45204024 CGGTCGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 1 0.05
12 15 0.71
13 5 0.24
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AAAAATTAATATA
Found at i:45204509 original size:19 final size:21
Alignment explanation
Indices: 45204466--45204512 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
45204456 TTCAAATACT
*
45204466 AGAAAA-T-ATCAAGTTTTCT
1 AGAAAATTAATCAAGTTTTCC
45204485 AGAAAATTAATCAA-TTTTCC
1 AGAAAATTAATCAAGTTTTCC
45204505 A-AAAATTA
1 AGAAAATTA
45204513 TTTCTCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 13 0.52
20 7 0.28
21 5 0.20
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (21 bp):
AGAAAATTAATCAAGTTTTCC
Found at i:45207908 original size:17 final size:18
Alignment explanation
Indices: 45207867--45207908 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
45207857 CATATCTTCT
*
45207867 AAGATTGCATATCATATTT
1 AAGATTGCATATCA-ATTG
*
45207886 AAGATTGCATATC-CTTG
1 AAGATTGCATATCAATTG
45207903 AAGATT
1 AAGATT
45207909 ATGTTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 8 0.38
19 13 0.62
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (18 bp):
AAGATTGCATATCAATTG
Found at i:45208703 original size:132 final size:132
Alignment explanation
Indices: 45208346--45208721 Score: 502
Period size: 132 Copynumber: 2.9 Consensus size: 132
45208336 ACTTCAGGGG
* * * *
45208346 GATAAGGCTGGTGGCTTAAATTTGCTTCCCTACTACCTCGGGAAGATAAGAGTCGCCGTCTTTGA
1 GATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTTGA
* *
45208411 TCTGCTCCACTACTGCTTAGGGAGACAGGA--T-C--TC--CAACCTACTCCACTACTGCTCAGA
66 TCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTAAGA
45208469 GA
131 GA
* * * * *
45208471 GATAGGACTGGTGGCTTAAATCTGCTT-CCTACTATCTCT-GGAGGATAAGATTCGTCGTCTTCG
1 GATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCT-TGGGAAGATAAGATTCGCCGTCTTTG
45208534 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTTAA
65 ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGC-TAA
45208599 G-GA
129 GAGA
*
45208602 GATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAATATAAGATTCGCCGTCTTTGA
1 GATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTTGA
* * * * * *
45208667 TATACTACACTACTTCTTAGGAAGACATGATCTACAATCTTCAACCTACTCCACT
66 TCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACT
45208722 GCAAACTCAG
Statistics
Matches: 217, Mismatches: 23, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
124 59 0.27
125 24 0.11
126 1 0.00
127 1 0.00
129 2 0.01
131 48 0.22
132 82 0.38
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
GATAGGGCTGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTTGA
TCTGCTCCACTACTGCTTAGGGAGACAAGATCTACAATCTTCAACCTACTCCACTACTGCTAAGA
GA
Found at i:45208842 original size:88 final size:89
Alignment explanation
Indices: 45208715--45208984 Score: 364
Period size: 89 Copynumber: 3.0 Consensus size: 89
45208705 CTTCAACCTA
* * ** *
45208715 CTCCACTGCAAACTCAGAGAGGCAAGGCTGGTGTTTTCGATCTTCTTCATTGCCAGTACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTTCTTCGCTGCCAATACAGGAAG
*
45208780 ACAAGATCTGCTATTTTTAGTCTG
66 ACAAGATCTGCTATTTTCAGTCTG
* * *
45208804 CTCCACTGC-AACTCAGGGAGGCAAAGCTGGTGTCTTCGATCTGCTTTGCTGCCAATACAGGAAG
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTTCTTCGCTGCCAATACAGGAAG
* *
45208868 ACAAGATCTGTTATCTTCAGTCTG
66 ACAAGATCTGCTATTTTCAGTCTG
* *
45208892 CTCCACTGCAAACTCAAGGAGGCAAGGCTGGTGTCTTTGAT-TTGCTTCGCTGCCAATACAGGAA
1 CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTT-CTTCGCTGCCAATACAGGAA
* * * *
45208956 GATAAGATTTGCTATTGTCAGCCTG
65 GACAAGATCTGCTATTTTCAGTCTG
45208981 CTCC
1 CTCC
45208985 GCTTTAACTT
Statistics
Matches: 157, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
88 78 0.50
89 79 0.50
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (89 bp):
CTCCACTGCAAACTCAGGGAGGCAAGGCTGGTGTCTTCGATCTTCTTCGCTGCCAATACAGGAAG
ACAAGATCTGCTATTTTCAGTCTG
Found at i:45209133 original size:44 final size:44
Alignment explanation
Indices: 45209061--45209180 Score: 150
Period size: 44 Copynumber: 2.7 Consensus size: 44
45209051 TCATCATTTT
* * *
45209061 AATCCGCTCCACTGCAACTTCAGAGAGATAGGACTAGTAGCTTC
1 AATCTGCTCCACTGTAACTTCAGAGAGATAAGACTAGTAGCTTC
* * * **
45209105 AATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTATTTTC
1 AATCTGCTCCACTGTAACTTCAGAGAGATAAGACTAGTAGCTTC
* *
45209149 AACCTGCTCCTCTGTAACTTCAGAGAGATAAG
1 AATCTGCTCCACTGTAACTTCAGAGAGATAAG
45209181 GTTTGATGTG
Statistics
Matches: 65, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (44 bp):
AATCTGCTCCACTGTAACTTCAGAGAGATAAGACTAGTAGCTTC
Found at i:45209562 original size:44 final size:43
Alignment explanation
Indices: 45209513--45209786 Score: 171
Period size: 44 Copynumber: 6.2 Consensus size: 43
45209503 GCTTTCTTCA
*
45209513 ATAAGACTTGTAACTTTTATTCGCTCCACTGCAACTTCAGGGAG
1 ATAAGA-TTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAG
* * * *
45209557 ATAAGATATGTAACTTTAATTTGCTCCACTGTAACTTTAAGGAG
1 ATAAGAT-TGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAG
* * ** *
45209601 ATAGGATTATTGGCTTTAATTTGCTCCACTGCAACTTCAGGGAG
1 ATAAGATT-GTAACTTTAATTCGCTCCACTGCAACTTCAGGGAG
* * * * * *
45209645 ATTAGATTCGTCATCTTCAGTCTAC-C-CCACTACAACTTCAATGG-G
1 ATAAGATT-GT-AACTTTAAT-T-CGCTCCACTGCAACTTC-AGGGAG
** * * * *
45209690 ATAAGACTTGCTTTC-TTCAGTCTGCTCCACTACAACTTTAGGGAG
1 ATAAGA-TTG-TAACTTTAATTC-GCTCCACTGCAACTTCAGGGAG
* *
45209735 ATAAGACTTGTAACTTTAATCCGCTCCACTGCAACCTT-AGAGAG
1 ATAAGA-TTGTAACTTTAATTCGCTCCACTGCAA-CTTCAGGGAG
*
45209779 ATAGGATT
1 ATAAGATT
45209787 TGTGGTTTCA
Statistics
Matches: 177, Mismatches: 39, Indels: 29
0.72 0.16 0.12
Matches are distributed among these distances:
42 1 0.01
43 5 0.03
44 107 0.60
45 56 0.32
46 8 0.05
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (43 bp):
ATAAGATTGTAACTTTAATTCGCTCCACTGCAACTTCAGGGAG
Found at i:45209681 original size:45 final size:45
Alignment explanation
Indices: 45209626--45209744 Score: 127
Period size: 45 Copynumber: 2.6 Consensus size: 45
45209616 TTAATTTGCT
* *
45209626 CCACTGCAACTTCAGGGAGATTAGA-TT-CGTCATCTTCAGTCTACC
1 CCACTACAACTTCAGGGAGATAAGACTTGC-T-ATCTTCAGTCTACC
* * * *
45209671 CCACTACAACTTCAATGG-GATAAGACTTGCTTTCTTCAGTCTGCT
1 CCACTACAACTTC-AGGGAGATAAGACTTGCTATCTTCAGTCTACC
*
45209716 CCACTACAACTTTAGGGAGATAAGACTTG
1 CCACTACAACTTCAGGGAGATAAGACTTG
45209745 TAACTTTAAT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
44 3 0.05
45 52 0.84
46 6 0.10
47 1 0.02
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (45 bp):
CCACTACAACTTCAGGGAGATAAGACTTGCTATCTTCAGTCTACC
Found at i:45219165 original size:16 final size:17
Alignment explanation
Indices: 45219131--45219169 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
45219121 TTGGAAAAGA
*
45219131 AAATATTTTTTAATAAT
1 AAATATTTTATAATAAT
45219148 AAATATTTTATAAT-AT
1 AAATATTTTATAATAAT
45219164 AAATAT
1 AAATAT
45219170 GAGTACTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTTTATAATAAT
Found at i:45220130 original size:19 final size:21
Alignment explanation
Indices: 45220087--45220133 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
45220077 TTCAAATACT
*
45220087 AGAAAA-T-ATCAAGTTTTCT
1 AGAAAATTAATCAAGTTTTCC
45220106 AGAAAATTAATCAA-TTTTCC
1 AGAAAATTAATCAAGTTTTCC
45220126 A-AAAATTA
1 AGAAAATTA
45220134 TTTCTCGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 13 0.52
20 7 0.28
21 5 0.20
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (21 bp):
AGAAAATTAATCAAGTTTTCC
Found at i:45224252 original size:14 final size:14
Alignment explanation
Indices: 45224218--45224256 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45224208 CCAGAAAAGT
45224218 AAGTCATTTTCCAA
1 AAGTCATTTTCCAA
* **
45224232 AAATCATTTTCCGG
1 AAGTCATTTTCCAA
45224246 AAGTCATTTTC
1 AAGTCATTTTC
45224257 AGTGAAACAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (14 bp):
AAGTCATTTTCCAA
Found at i:45227937 original size:73 final size:73
Alignment explanation
Indices: 45227818--45228213 Score: 513
Period size: 73 Copynumber: 5.4 Consensus size: 73
45227808 AACAATAAGC
* * **
45227818 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTTGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
45227883 TTGGGGGA
66 TTCGGGGA
** * * * * * *
45227891 TTTAGCGGTATTTTTGAGGAGGCACCGCAAAAAACCTAAGCTAAAACGACGCCGTTTTGTAAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
45227956 TTCGAGGA
66 TTCGGGGA
* * *
45227964 TTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
45228029 TTCGGGGA
66 TTCGGGGA
* * * *
45228037 TTTAGCGACGTTTTTAAGAAAGCGCCGCATAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
45228102 TTGGGGGA
66 TTCGGGGA
* * * * * * * *
45228110 TTTAGCTGCGTTTTTGAGGAAGTGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
45228175 TTTGGGGA
66 TTCGGGGA
45228183 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAA
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAA
45228214 TGCTCAGGGC
Statistics
Matches: 272, Mismatches: 51, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
73 272 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:45228197 original size:219 final size:219
Alignment explanation
Indices: 45227818--45228213 Score: 612
Period size: 219 Copynumber: 1.8 Consensus size: 219
45227808 AACAATAAGC
* * *
45227818 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTTGTTTTGTGAGCT
1 TTTAGCGACGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
* * * * *
45227883 TTGGGGGATTTAGCGGTATTTTTGAGGAGGCACCGCAAAAAACCTAAGCTAAAACGACGCCGTTT
66 TTGGGGGATTTAGCGGCATTTTTGAGGAAGCACCGCAAAAAACCTAAGCCAAAACAACACCGTTT
*
45227948 TGTAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAA
131 TATAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAA
45228013 CGCCGTTTTGTGAGCTTTCGGGGA
196 CGCCGTTTTGTGAGCTTTCGGGGA
*
45228037 TTTAGCGACGTTTTTAAGAAAGCGCCGCATAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGACGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
* * ** *
45228102 TTGGGGGATTTAGCTGCGTTTTTGAGGAAGTGCCGCAAAAAATCTAAGCCAAAACAACACCGTTT
66 TTGGGGGATTTAGCGGCATTTTTGAGGAAGCACCGCAAAAAACCTAAGCCAAAACAACACCGTTT
* * * * *
45228167 TATGAGCTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAA
131 TATAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAA
45228214 TGCTCAGGGC
Statistics
Matches: 157, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
219 157 1.00
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (219 bp):
TTTAGCGACGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
TTGGGGGATTTAGCGGCATTTTTGAGGAAGCACCGCAAAAAACCTAAGCCAAAACAACACCGTTT
TATAAGCTTTCGAGGATTTAACGGCGTTTTTAAGAAAACGCCGCAAAAAACCTAAGCCAAAACAA
CGCCGTTTTGTGAGCTTTCGGGGA
Found at i:45228311 original size:114 final size:114
Alignment explanation
Indices: 45228110--45228320 Score: 287
Period size: 114 Copynumber: 1.9 Consensus size: 114
45228100 CTTTGGGGGA
* ** * * *
45228110 TTTAGCTGCGTTTTTGAGGAAGTGCCGCAAAAAATCTAAGCCAAAACAACACCGTTTTATGAGCT
1 TTTAGCGGCGTTTTCAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTTTATGAGCT
* * *
45228175 TTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGC
66 TTGGGGGATTTAACGGCATTTTTAAGAAAGCGCCGCAAATGCTCAGGGC
* ** *
45228224 TTTAGCGGCGTTTTCAAGAAAGCGCCGCAAATAACCTAAGCCAAAACAACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTCAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTTTATGAGCT
* *
45228289 TTGGGGGATTTAACGGCATTTTTGAGGAAGCG
66 TTGGGGGATTTAACGGCATTTTTAAGAAAGCG
45228321 TCGTAAAAAA
Statistics
Matches: 82, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
114 82 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (114 bp):
TTTAGCGGCGTTTTCAAGAAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTTTATGAGCT
TTGGGGGATTTAACGGCATTTTTAAGAAAGCGCCGCAAATGCTCAGGGC
Found at i:45228354 original size:187 final size:187
Alignment explanation
Indices: 45228037--45228436 Score: 602
Period size: 187 Copynumber: 2.1 Consensus size: 187
45228027 CTTTCGGGGA
* * *
45228037 TTTAGCGACGTTTTTAAGAAAGCGCCGCATAGAACCTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACAACGTCGTTTTGTGAGCT
* * * * *
45228102 TTGGGGGATTTAGCTGCGTTTTTGAGGAAGTGCCGCAAAAAATCTAAGCCAAAACAACACCGTTT
66 TTGGGGGATTTAACGGCATTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTT
* *
45228167 TATGAGCTTTTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGC
131 TATGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGC
* *
45228224 TTTAGCGGCGTTTTCAAGAAAGCGCCGCAAATAACCTAAGCCAAAACAACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACAACGTCGTTTTGTGAGCT
* * * *
45228289 TTGGGGGATTTAACGGCATTTTTGAGGAAGCGTCGTAAAAAACCTAAGCCAAAACGACGCCGTTT
66 TTGGGGGATTTAACGGCATTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTT
* * * *
45228354 TGTGAGCTTTCGGGGATTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
131 TATGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGC
* *
45228411 TTTAGCGGTGTTTTTAGGAAAGCGCC
1 TTTAGCGGCGTTTTTAAGAAAGCGCC
45228437 ACTAATGCTC
Statistics
Matches: 190, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
187 190 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (187 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACCTAAGCCAAAACAACGTCGTTTTGTGAGCT
TTGGGGGATTTAACGGCATTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACAACACCGTTT
TATGAGCTTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGC
Found at i:45228362 original size:73 final size:73
Alignment explanation
Indices: 45228224--45228698 Score: 372
Period size: 73 Copynumber: 6.4 Consensus size: 73
45228214 TGCTCAGGGC
** * * * *
45228224 TTTAGCGGCGTTTTCAAGAAAGCGCCGCAAATAACCTAAGCCAAAACAACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
45228289 TTGGGGGA
66 TTCGGGGA
* * * *
45228297 TTTAACGGCATTTTTGAGGAAGCGTCGTAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
45228362 TTCGGGGA
66 TTCGGGGA
* ** ** * * *** **
45228370 TTTAGCGGTGTTTTT-AGGAAAGCG-C-CACTAATGCTCAGGGCTTTA-G-CGGTGTTTT-TAGG
1 TTTAGCGGCGTTTTTGAGG-AAGCGCCGCAAAAAACCT-AAGCCAAAACGACGCCGTTTTGT--G
* *
45228429 AAAGCGCCACTAATGCTCAGGGC
62 --A--G---CT--T--TCGGGGA
* * * *
45228452 TTTAACGGCGTTTTTGAGGAAGCGCCGCAAAAAATCTAAGCCAAAACAACTCCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
45228517 TTCGGGGA
66 TTCGGGGA
* * * * *
45228525 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTCGTTTTGTGAGCT
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
*
45228590 TTGGGGGA
66 TTCGGGGA
* * * * *
45228598 TTTAGCGGCATTTTTGAGGAGGCGCCGCAAAAAACCTAAGCCAAAAC-AGTGCCGTTTTGAGTGC
1 TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGA-CGCCGTTTTGTGAGC
*
45228662 TTTCAGGGA
65 TTTCGGGGA
45228671 TTTAGCGGCGTTTTT-AGGAAAGCGCCGC
1 TTTAGCGGCGTTTTTGAGG-AAGCGCCGC
45228699 TAATGCTTAG
Statistics
Matches: 310, Mismatches: 69, Indels: 46
0.73 0.16 0.11
Matches are distributed among these distances:
69 1 0.00
70 7 0.02
71 7 0.02
72 12 0.04
73 229 0.74
75 2 0.01
77 2 0.01
78 2 0.01
80 2 0.01
82 24 0.08
83 8 0.03
84 7 0.02
85 6 0.02
86 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (73 bp):
TTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCT
TTCGGGGA
Found at i:45228427 original size:41 final size:41
Alignment explanation
Indices: 45228370--45228477 Score: 182
Period size: 41 Copynumber: 2.6 Consensus size: 41
45228360 CTTTCGGGGA
45228370 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
45228411 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
1 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
* *
45228452 TTTAACGGCGTTTTTGAGG-AAGCGCC
1 TTTAGCGGTGTTTTT-AGGAAAGCGCC
45228478 GCAAAAAATC
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
41 61 0.95
42 3 0.05
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (41 bp):
TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
Found at i:45228583 original size:228 final size:228
Alignment explanation
Indices: 45228183--45228605 Score: 641
Period size: 228 Copynumber: 1.9 Consensus size: 228
45228173 CTTTTGGGGA
* *
45228183 TTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTCAGGGCTTTAGCGGCGTTTTCAAGAAAGCG
1 TTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGCTTTAACGGCGTTTTCAAGAAAGCG
* * *
45228248 CCGCAAATAACCTAAGCCAAAACAACGTCGTTTTGTGAGCTTTGGGGGATTTAACGGCATTTTTG
66 CCGCAAAAAACCTAAGCCAAAACAACGTCGTTTTGTGAGCTTTCGGGGATTTAACGGCATTTTTA
* * *
45228313 AGGAAGCGTCGTAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGG
131 AGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGG
45228378 TGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
196 TGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
* * * ** *
45228411 TTTAGCGGTGTTTTTAGGAAAGCGCCACTAATGCTCAGGGCTTTAACGGCGTTTTTGAGGAAGCG
1 TTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGCTTTAACGGCGTTTTCAAGAAAGCG
* * *
45228476 CCGCAAAAAATCTAAGCCAAAACAAC-TCCGTTTTGTGAGCTTTCGGGGATTTAGCGGCGTTTTT
66 CCGCAAAAAACCTAAGCCAAAACAACGT-CGTTTTGTGAGCTTTCGGGGATTTAACGGCATTTTT
* * * *
45228540 AAGAAAGCGCCGCAAAGAACTTAAGCCAAAACGACGTCGTTTTGTGAGCTTTGGGGGATTTAGCG
130 AAGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCG
45228605 G
195 G
45228606 CATTTTTGAG
Statistics
Matches: 173, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
227 1 0.01
228 172 0.99
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (228 bp):
TTTAGCGGCGTTTTTAAGAAAGCGCCACAAATGCTCAGGGCTTTAACGGCGTTTTCAAGAAAGCG
CCGCAAAAAACCTAAGCCAAAACAACGTCGTTTTGTGAGCTTTCGGGGATTTAACGGCATTTTTA
AGAAAGCGCCGCAAAAAACCTAAGCCAAAACGACGCCGTTTTGTGAGCTTTCGGGGATTTAGCGG
TGTTTTTAGGAAAGCGCCACTAATGCTCAGGGC
Found at i:45228951 original size:22 final size:21
Alignment explanation
Indices: 45228926--45228973 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
45228916 GTGTTACCAT
*
45228926 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
* *
45228948 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
45228969 TTTAA
1 TTTAA
45228974 AGGCCGGGGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:45228972 original size:21 final size:21
Alignment explanation
Indices: 45228934--45229055 Score: 61
Period size: 21 Copynumber: 5.9 Consensus size: 21
45228924 ATTTTAAGGT
*
45228934 TTATGGATTATGGGTTTAGGGG
1 TTATGGTTTAT-GGTTTAGGGG
**
45228956 TTATGGTTTATGGTTTAAAGG
1 TTATGGTTTATGGTTTAGGGG
**** * *
45228977 CCGGGGTTTAAGGTTTAGAGG
1 TTATGGTTTATGGTTTAGGGG
** * *
45228998 TTAT-GTGCAT-GTTAAGGGT
1 TTATGGTTTATGGTTTAGGGG
* *
45229017 TTATGGTTTTAGGGTTTA-GGT
1 TTATGG-TTTATGGTTTAGGGG
*
45229038 TTATGGTTTAGGGTTTAG
1 TTATGGTTTATGGTTTAG
45229056 ATTAACTAAT
Statistics
Matches: 73, Mismatches: 23, Indels: 9
0.70 0.22 0.09
Matches are distributed among these distances:
19 10 0.14
20 15 0.21
21 34 0.47
22 14 0.19
ACGTcount: A:0.19, C:0.02, G:0.35, T:0.43
Consensus pattern (21 bp):
TTATGGTTTATGGTTTAGGGG
Found at i:45229034 original size:7 final size:7
Alignment explanation
Indices: 45229012--45229055 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
45229002 GTGCATGTTA
45229012 AGGGTTT
1 AGGGTTT
*
45229019 ATGGTTTT
1 A-GGGTTT
45229027 AGGGTTT
1 AGGGTTT
45229034 A-GGTTT
1 AGGGTTT
*
45229040 ATGGTTT
1 AGGGTTT
45229047 AGGGTTT
1 AGGGTTT
45229054 AG
1 AG
45229056 ATTAACTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
6 6 0.19
7 20 0.62
8 6 0.19
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (7 bp):
AGGGTTT
Found at i:45229052 original size:14 final size:13
Alignment explanation
Indices: 45229012--45229055 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
45229002 GTGCATGTTA
45229012 AGGGTTTATGGTTTT
1 AGGGTTTA-GG-TTT
45229027 AGGGTTTAGGTTT
1 AGGGTTTAGGTTT
*
45229040 ATGGTTTAGGGTTT
1 AGGGTTTA-GGTTT
45229054 AG
1 AG
45229056 ATTAACTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 10 0.38
14 8 0.31
15 8 0.31
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (13 bp):
AGGGTTTAGGTTT
Found at i:45234183 original size:42 final size:42
Alignment explanation
Indices: 45234124--45234277 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 42
45234114 TATATATTTT
* * * *
45234124 TAAAGG-TTATGTTTTTAGCAGCGTTTTTGTGAGAAGCGCCGC
1 TAAAGGTTTATGTCTTTAGCGGCGTTTGTGT-AAAAGCGCCGC
45234166 TAAAGGTTTAT-TCTTTAGCGGCGTTTGTGATAAAAGCGCCGC
1 TAAAGGTTTATGTCTTTAGCGGCGTTTGTG-TAAAAGCGCCGC
* *
45234208 TAAAGGTCTT-GGTCTTTAGCGGCGTTTGTGAAAAAAGCGCCGC
1 TAAAGGT-TTATGTCTTTAGCGGCGTTTGTG-TAAAAGCGCCGC
45234251 TAAAGGTTT-TGGTCTTTAGCGGCGTTT
1 TAAAGGTTTAT-GTCTTTAGCGGCGTTT
45234278 TTTCCAGCGC
Statistics
Matches: 100, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
42 40 0.40
43 60 0.60
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (42 bp):
TAAAGGTTTATGTCTTTAGCGGCGTTTGTGTAAAAGCGCCGC
Found at i:45234235 original size:43 final size:42
Alignment explanation
Indices: 45234157--45234277 Score: 197
Period size: 43 Copynumber: 2.8 Consensus size: 42
45234147 TTTTTGTGAG
** *
45234157 AAGCGCCGCTAAAGGTTTATTCTTTAGCGGCGTTTGTGATAA
1 AAGCGCCGCTAAAGGTTTGGTCTTTAGCGGCGTTTGTGAAAA
45234199 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGAAAA
1 AAGCGCCGCTAAAGGT-TTGGTCTTTAGCGGCGTTTGTGAAAA
45234242 AAGCGCCGCTAAAGGTTTTGGTCTTTAGCGGCGTTT
1 AAGCGCCGCTAAAGG-TTTGGTCTTTAGCGGCGTTT
45234278 TTTCCAGCGC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
42 16 0.22
43 57 0.77
44 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (42 bp):
AAGCGCCGCTAAAGGTTTGGTCTTTAGCGGCGTTTGTGAAAA
Found at i:45235074 original size:61 final size:60
Alignment explanation
Indices: 45234977--45235096 Score: 168
Period size: 61 Copynumber: 2.0 Consensus size: 60
45234967 AAGTTTTTCC
* * *
45234977 ACAAAGGCGTTCCTTAATATCAGTACTCACCGCAAAGGCTTTCCTGTCTAGAGCTTTGCT
1 ACAAAAGCGTTCCTTAACATCAGTACTCACCACAAAGGCTTTCCTGTCTAGAGCTTTGCT
* * * *
45235037 ACAAAAGCGTTCTTTAACATTCAGTACTCACTACAAAGGCTTTCTTGTCTAGAGTTTTGC
1 ACAAAAGCGTTCCTTAACA-TCAGTACTCACCACAAAGGCTTTCCTGTCTAGAGCTTTGC
45235097 CATAAAGACT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
60 16 0.31
61 36 0.69
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.33
Consensus pattern (60 bp):
ACAAAAGCGTTCCTTAACATCAGTACTCACCACAAAGGCTTTCCTGTCTAGAGCTTTGCT
Found at i:45238111 original size:22 final size:21
Alignment explanation
Indices: 45238066--45238110 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
45238056 GCAAACAAGC
45238066 AAACAAGCAAAAATGAACAGA
1 AAACAAGCAAAAATGAACAGA
45238087 AAAC-AGCACAAAATGGAAC-GA
1 AAACAAGCA-AAAAT-GAACAGA
45238108 AAA
1 AAA
45238111 ATTGTAATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 14 0.64
22 4 0.18
ACGTcount: A:0.64, C:0.16, G:0.16, T:0.04
Consensus pattern (21 bp):
AAACAAGCAAAAATGAACAGA
Found at i:45238948 original size:29 final size:27
Alignment explanation
Indices: 45238916--45238977 Score: 63
Period size: 28 Copynumber: 2.2 Consensus size: 27
45238906 TTACTTATAG
*
45238916 TATTTAATTTCAATAATGT-TTAAATTTAT
1 TATTTAATTT-AA-AATGTAATAAA-TTAT
*
45238945 TATTATAGTTTAAAATGTAATAAATTAT
1 TATT-TAATTTAAAATGTAATAAATTAT
45238973 TATTT
1 TATTT
45238978 TAGTCCGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 1 0.03
28 13 0.45
29 10 0.34
30 5 0.17
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (27 bp):
TATTTAATTTAAAATGTAATAAATTAT
Found at i:45241105 original size:24 final size:24
Alignment explanation
Indices: 45241035--45241096 Score: 97
Period size: 24 Copynumber: 2.5 Consensus size: 24
45241025 ATTTCATAAT
*
45241035 AGAATACAAATGCATACTCAGATTC
1 AGAA-ACAAATGCATATTCAGATTC
45241060 AGAAACAAATGCATATTCAGATTC
1 AGAAACAAATGCATATTCAGATTC
*
45241084 GGAAACAAATGCA
1 AGAAACAAATGCA
45241097 ATCATAGATC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
24 31 0.89
25 4 0.11
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.21
Consensus pattern (24 bp):
AGAAACAAATGCATATTCAGATTC
Found at i:45245790 original size:12 final size:12
Alignment explanation
Indices: 45245764--45245812 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 12
45245754 TTTTTTAAAA
45245764 TTTTAAAAT-AT
1 TTTTAAAATAAT
45245775 TTTTAAAATAATTT
1 TTTTAAAATAA--T
*
45245789 TTTTAAAAATTAT
1 TTTT-AAAATAAT
45245802 TTTTAAAATAA
1 TTTTAAAATAA
45245813 ATTGTTAGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
11 9 0.28
12 7 0.22
13 5 0.16
14 5 0.16
15 6 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTTAAAATAAT
Found at i:45245797 original size:15 final size:14
Alignment explanation
Indices: 45245774--45245812 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
45245764 TTTTAAAATA
45245774 TTTTTAAAATAATT
1 TTTTTAAAATAATT
45245788 TTTTT-AAA-AATT
1 TTTTTAAAATAATT
45245800 ATTTTTAAAATAA
1 -TTTTTAAAATAA
45245813 ATTGTTAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 4 0.18
13 8 0.36
14 8 0.36
15 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTTTTAAAATAATT
Found at i:45249247 original size:25 final size:25
Alignment explanation
Indices: 45249205--45249313 Score: 107
Period size: 25 Copynumber: 4.4 Consensus size: 25
45249195 ATCATGTAAT
45249205 CGGGAAGCTCTTTCGAGCCATATAA
1 CGGGAAGCTCTTTCGAGCCATATAA
* *
45249230 CGGGAAGTTCATTT-GAGCCATGTAA
1 CGGGAAGCTC-TTTCGAGCCATATAA
* * *
45249255 CAGGAAGCTCTTGCGAGCCA-ATTAT
1 CGGGAAGCTCTTTCGAGCCATA-TAA
* * *
45249280 CGGGAAGCTCATACAAGCCATA-AA
1 CGGGAAGCTCTTTCGAGCCATATAA
45249304 CGGGAAGCTC
1 CGGGAAGCTC
45249314 AAGAGAGCCA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
24 13 0.19
25 51 0.75
26 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCTTTCGAGCCATATAA
Found at i:45249299 original size:50 final size:50
Alignment explanation
Indices: 45249197--45249313 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
45249187 CCAATGCAAT
* * ***
45249197 CATGTAATCGGGAAGCTCTTTCGAGCCATATAACGGGAAGTTCATTTGAGC
1 CATGTAA-CGGGAAGCTCTTGCGAGCCATATAACGGGAAGCTCATACAAGC
* *
45249248 CATGTAACAGGAAGCTCTTGCGAGCCA-ATTATCGGGAAGCTCATACAAGC
1 CATGTAACGGGAAGCTCTTGCGAGCCATA-TAACGGGAAGCTCATACAAGC
*
45249298 CAT-AAACGGGAAGCTC
1 CATGTAACGGGAAGCTC
45249314 AAGAGAGCCA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 12 0.21
50 37 0.66
51 7 0.12
ACGTcount: A:0.31, C:0.22, G:0.25, T:0.22
Consensus pattern (50 bp):
CATGTAACGGGAAGCTCTTGCGAGCCATATAACGGGAAGCTCATACAAGC
Found at i:45250355 original size:21 final size:19
Alignment explanation
Indices: 45250329--45250367 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
45250319 TTTGCCCGGG
45250329 CCCAAAACTAAATAAATAAAA
1 CCCAAAA-TAAA-AAATAAAA
45250350 CCCAAAATAAAAAATAAA
1 CCCAAAATAAAAAATAAA
45250368 CAGTCCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.39
20 4 0.22
21 7 0.39
ACGTcount: A:0.69, C:0.18, G:0.00, T:0.13
Consensus pattern (19 bp):
CCCAAAATAAAAAATAAAA
Found at i:45251600 original size:26 final size:26
Alignment explanation
Indices: 45251571--45251837 Score: 165
Period size: 26 Copynumber: 10.2 Consensus size: 26
45251561 TGCAAATTAT
*
45251571 TTATTTATTTTAAACCT-TTTTATACA
1 TTATTTATTTTAAA-CTATTTTATATA
* * *
45251597 TTATTCATTTTAAATTGTTTTAT-TA
1 TTATTTATTTTAAACTATTTTATATA
* *
45251622 TTATTTATTTT-AAGT-TTTTCACATA
1 TTATTTATTTTAAACTATTTT-ATATA
* * *
45251647 TTATGTATTTTAAACTATATTAAACTA
1 TTATTTATTTTAAACTATTTTATA-TA
** *
45251674 TTATCCATTTTAAA-TTTTTTATATA
1 TTATTTATTTTAAACTATTTTATATA
*
45251699 TTATTTATTTTAAACTATTATATATA
1 TTATTTATTTTAAACTATTTTATATA
* * *
45251725 TTATTTATTTTGAATTGTTTT-TATA
1 TTATTTATTTTAAACTATTTTATATA
* * * *
45251750 CATATCATTGTCTTAAGACTATTTTGTATA
1 -TTAT--TTATTTTAA-ACTATTTTATATA
* * *
45251780 TTGTTTATTTGAAATTTCT-TTTTACATA
1 TTATTTATTTTAAA---CTATTTTATATA
*
45251808 TTATTTATTTTAAAC--TTTTATAAA
1 TTATTTATTTTAAACTATTTTATATA
45251832 TTATTT
1 TTATTT
45251838 TAAATTGTCT
Statistics
Matches: 186, Mismatches: 40, Indels: 32
0.72 0.16 0.12
Matches are distributed among these distances:
23 4 0.02
24 17 0.09
25 43 0.23
26 60 0.32
27 23 0.12
28 25 0.13
29 10 0.05
30 4 0.02
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (26 bp):
TTATTTATTTTAAACTATTTTATATA
Found at i:45251861 original size:26 final size:26
Alignment explanation
Indices: 45251832--45251936 Score: 92
Period size: 26 Copynumber: 4.1 Consensus size: 26
45251822 CTTTTATAAA
*
45251832 TTATTTTAAATTGTCTTCTATGTTAT
1 TTATTTTAAATTGTCTTCTATATTAT
* * *
45251858 TTATTTTAATTTG-CTTTGTATGTTAT
1 TTATTTTAAATTGTC-TTCTATATTAT
* *
45251884 TTATTTTAATTTGTGTTGC-ATATTAT
1 TTATTTTAAATTGTCTT-CTATATTAT
* *
45251910 TTACTTTGAATTGT-TT-TATATTAT
1 TTATTTTAAATTGTCTTCTATATTAT
45251934 TTA
1 TTA
45251937 CCTCAAATTA
Statistics
Matches: 67, Mismatches: 8, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
24 10 0.15
25 3 0.04
26 54 0.81
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.63
Consensus pattern (26 bp):
TTATTTTAAATTGTCTTCTATATTAT
Found at i:45251910 original size:52 final size:50
Alignment explanation
Indices: 45251832--45251936 Score: 115
Period size: 52 Copynumber: 2.1 Consensus size: 50
45251822 CTTTTATAAA
* * *
45251832 TTATTTTAAATTGTCTTCTATGTTATTTA-TTTTAATTTGCTTTGTATGTTAT
1 TTATTTTAAATTGTCTTCTATATTATTTACTTTGAA-TTG-TTT-TATATTAT
* *
45251884 TTATTTTAATTTGTGTTGC-ATATTATTTACTTTGAATTGTTTTATATTAT
1 TTATTTTAAATTGTCTT-CTATATTATTTACTTTGAATTGTTTTATATTAT
45251934 TTA
1 TTA
45251937 CCTCAAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
50 10 0.22
51 3 0.07
52 27 0.59
53 6 0.13
ACGTcount: A:0.23, C:0.05, G:0.10, T:0.63
Consensus pattern (50 bp):
TTATTTTAAATTGTCTTCTATATTATTTACTTTGAATTGTTTTATATTAT
Found at i:45252323 original size:9 final size:9
Alignment explanation
Indices: 45252309--45252353 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
45252299 AAATCGAAGT
45252309 GTTCCAAGG
1 GTTCCAAGG
*
45252318 GTTCCAAGT
1 GTTCCAAGG
*
45252327 GTTCCAAGT
1 GTTCCAAGG
45252336 GTTCTCAAGG
1 GTTC-CAAGG
45252346 GTTCCAAG
1 GTTCCAAG
45252354 TGTCGTGTCC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (9 bp):
GTTCCAAGG
Found at i:45252328 original size:18 final size:19
Alignment explanation
Indices: 45252305--45252353 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
45252295 ATAAAAATCG
45252305 AAGTGTTCCAAGGGTTC-C
1 AAGTGTTCCAAGGGTTCTC
*
45252323 AAGTGTTCCAAGTGTTCTC
1 AAGTGTTCCAAGGGTTCTC
*
45252342 AAGGGTTCCAAG
1 AAGTGTTCCAAG
45252354 TGTCGTGTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 16 0.57
19 12 0.43
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (19 bp):
AAGTGTTCCAAGGGTTCTC
Found at i:45254567 original size:17 final size:18
Alignment explanation
Indices: 45254534--45254570 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
45254524 TGATATATTT
45254534 ATGTTATTAAATGTTATG
1 ATGTTATTAAATGTTATG
45254552 ATGTT-TTAATAT-TTATG
1 ATGTTATTAA-ATGTTATG
45254569 AT
1 AT
45254571 TGTACGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.54
Consensus pattern (18 bp):
ATGTTATTAAATGTTATG
Found at i:45255197 original size:30 final size:29
Alignment explanation
Indices: 45255141--45255197 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
45255131 CTTTTTTACT
* **
45255141 TTTCCCTCAAAACTTTTACTGTTTCCCAC
1 TTTCCCCCAAAACTTTTACTCCTTCCCAC
45255170 TTTCCCCCAAAACTTTTACTCCCTTCCC
1 TTTCCCCCAAAACTTTTACT-CCTTCCC
45255198 CTCCCAACCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 19 0.79
30 5 0.21
ACGTcount: A:0.19, C:0.40, G:0.02, T:0.39
Consensus pattern (29 bp):
TTTCCCCCAAAACTTTTACTCCTTCCCAC
Found at i:45255256 original size:30 final size:29
Alignment explanation
Indices: 45255222--45255281 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
45255212 TCTACCCAAA
45255222 ATTTA-TTTCCCACCAAAATTTTACTCTCCC
1 ATTTACTTTCCC-CCAAAATTTTACTC-CCC
** *
45255252 ATTTACTTTTTCTCAAAATTTTACTCCCC
1 ATTTACTTTCCCCCAAAATTTTACTCCCC
45255281 A
1 A
45255282 AAACCCTCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 4 0.15
30 18 0.69
31 4 0.15
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (29 bp):
ATTTACTTTCCCCCAAAATTTTACTCCCC
Found at i:45255335 original size:30 final size:31
Alignment explanation
Indices: 45255301--45255360 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
45255291 AAACATTTTA
* *
45255301 TTTTCCCTTAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
*
45255331 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCTAAAACTTTTACTCCCTTCCCA
45255361 TCCCACCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.37, G:0.00, T:0.43
Consensus pattern (31 bp):
TTTTCCCCTAAAACTTTTACTCCCTTCCCAC
Found at i:45256120 original size:15 final size:15
Alignment explanation
Indices: 45256100--45256130 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
45256090 CTCAAAAATT
*
45256100 TTTGATTTGATTCGA
1 TTTGATTCGATTCGA
45256115 TTTGATTCGATTCGA
1 TTTGATTCGATTCGA
45256130 T
1 T
45256131 CGAATGCTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.10, G:0.19, T:0.52
Consensus pattern (15 bp):
TTTGATTCGATTCGA
Found at i:45271321 original size:36 final size:36
Alignment explanation
Indices: 45271281--45271349 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
45271271 GATTTAAGGT
*
45271281 TTAAGGGTTAAGAGTCAGGGGTTTAGGGGTTAGACG
1 TTAAGGGTTAAGAGTCAGGGATTTAGGGGTTAGACG
* *
45271317 TTAAGGGTTAAGAGTTAGGGATTTAGGGTTTAG
1 TTAAGGGTTAAGAGTCAGGGATTTAGGGGTTAG
45271350 GGATTCAGGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (36 bp):
TTAAGGGTTAAGAGTCAGGGATTTAGGGGTTAGACG
Found at i:45271324 original size:22 final size:22
Alignment explanation
Indices: 45271257--45271333 Score: 61
Period size: 21 Copynumber: 3.6 Consensus size: 22
45271247 TAGAGATCAT
** *
45271257 GGTTTAAGGGTTGGGATTTAA-
1 GGTTTAAGGGTTAAGAGTTAAG
* *
45271278 GGTTTAAGGGTTAAGAGTCAGG
1 GGTTTAAGGGTTAAGAGTTAAG
*
45271300 GGTTTAGGGGTT-AGACGTTAAG
1 GGTTTAAGGGTTAAGA-GTTAAG
*
45271322 GG-TTAAGAGTTA
1 GGTTTAAGGGTTA
45271334 GGGATTTAGG
Statistics
Matches: 43, Mismatches: 10, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
21 26 0.60
22 17 0.40
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (22 bp):
GGTTTAAGGGTTAAGAGTTAAG
Found at i:45271574 original size:15 final size:14
Alignment explanation
Indices: 45271522--45271570 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
45271512 ACTATTTTAA
* *
45271522 GGTTTAAGGAGTAT
1 GGTTTAGGGATTAT
45271536 GGATTTAGGGATTAT
1 GG-TTTAGGGATTAT
*
45271551 GGATTAGGGATTAT
1 GGTTTAGGGATTAT
45271565 GGTTTA
1 GGTTTA
45271571 AGGGTAAGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
14 18 0.60
15 12 0.40
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.39
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:45271724 original size:287 final size:290
Alignment explanation
Indices: 45271167--45271739 Score: 836
Period size: 287 Copynumber: 2.0 Consensus size: 290
45271157 GTTTAGGGTT
*
45271167 TTTAGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGTT
1 TTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGTT
* *
45271232 TAGGGAGTATGGATTTAGAGATCATGGTTTAAGGGTTGGGATTTAAGGTTTAAGGGTTAAGAGTC
66 TAAGGAGTATGGATTTAGAGATCATGGATTAA--G--GGGATTTAAGGTTTAAGGGTTAAGAGTC
* * * *
45271297 AGGGGTTTAGGGGTTAGACGTTAAGGGTTAAGAGTTAGGGATTTAGGGTTTAGGGATTCAGGGGT
127 AGAGGTTTAGGGGTTAGACGTTAAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGACTCAGAGGT
*
45271362 CGAGTTAGGGTTTTAGTTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATA
192 CGAGTTAGGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATA
45271427 ATTGTAAAAGAGATAATAATAAATTTGTTTGGGG
257 ATTGTAAAAGAGATAATAATAAATTTGTTTGGGG
**
45271461 TTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCTGGTTTAGGAGTTACTATTTTAAGGTT
1 TTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGTT
* * * *
45271526 TAAGGAGTATGGATTTAGGGATTATGGATT-A-GGGA-TTATGGTTTAAGGG-TAAG-GTTTAGA
66 TAAGGAGTATGGATTTAGAGATCATGGATTAAGGGGATTTAAGGTTTAAGGGTTAAGAG-TCAGA
* * * *
45271586 GGTTTAGGGGTTAGACATTTTAGGGTTAAGAGTTAGGGATTTAAGGTTTA-GGCCTCAGATGTC-
130 GGTTTAGGGGTTAGAC-GTTAAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGACTCAGAGGTCG
* *
45271649 AGGTTAGGGTTTTGGGTTTAGATTATTTAGTTTTTTAATTTATATTTTAAATATGTTCTTATATA
194 A-GTTAGGGTTTTAGGTTTAGATTAATTA-TTTTTTAATTTATATTTTAAATATGTTCTTATATA
*
45271714 ATTTTAAAAGAGATAATAATAAATTT
257 ATTGTAAAAGAGATAATAATAAATTT
45271740 AATATATTGA
Statistics
Matches: 254, Mismatches: 21, Indels: 15
0.88 0.07 0.05
Matches are distributed among these distances:
285 2 0.01
286 56 0.22
287 103 0.41
288 4 0.02
293 1 0.00
294 88 0.35
ACGTcount: A:0.29, C:0.03, G:0.26, T:0.42
Consensus pattern (290 bp):
TTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCAGTTTAGGAGTTACTATTTTAAGGTT
TAAGGAGTATGGATTTAGAGATCATGGATTAAGGGGATTTAAGGTTTAAGGGTTAAGAGTCAGAG
GTTTAGGGGTTAGACGTTAAGGGTTAAGAGTTAGGGATTTAAGGTTTAGGGACTCAGAGGTCGAG
TTAGGGTTTTAGGTTTAGATTAATTATTTTTTAATTTATATTTTAAATATGTTCTTATATAATTG
TAAAAGAGATAATAATAAATTTGTTTGGGG
Found at i:45293985 original size:3 final size:3
Alignment explanation
Indices: 45293977--45294039 Score: 62
Period size: 3 Copynumber: 22.0 Consensus size: 3
45293967 CCTGAGCAGT
* *
45293977 AGA AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGA A-A TAGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA
*
45294020 AG- AGA AGA AGA AGA ATA AGA
1 AGA AGA AGA AGA AGA AGA AGA
45294040 GTAAAATGGA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
2 7 0.14
3 41 0.84
4 1 0.02
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.05
Consensus pattern (3 bp):
AGA
Found at i:45293999 original size:17 final size:17
Alignment explanation
Indices: 45293977--45294045 Score: 77
Period size: 17 Copynumber: 4.0 Consensus size: 17
45293967 CCTGAGCAGT
45293977 AGAAGAAGAAGAGAAAA
1 AGAAGAAGAAGAGAAAA
*
45293994 AGAAGAATAAGAGAAGAA
1 AGAAGAAGAAGAGAA-AA
* *
45294012 A-TAGAAGAAGAGAAGA
1 AGAAGAAGAAGAGAAAA
*
45294028 AGAAGAATAAGAGTAAAA
1 AGAAGAAGAAGAG-AAAA
45294046 TGGAAGGAGC
Statistics
Matches: 42, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
16 2 0.05
17 34 0.81
18 6 0.14
ACGTcount: A:0.67, C:0.00, G:0.28, T:0.06
Consensus pattern (17 bp):
AGAAGAAGAAGAGAAAA
Found at i:45294005 original size:20 final size:20
Alignment explanation
Indices: 45293977--45294031 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
45293967 CCTGAGCAGT
45293977 AGAAGAAGA-AGAGAAAAAGA
1 AGAAGAAGAGA-AGAAAAAGA
* *
45293997 AGAATAAGAGAAGAAATAGA
1 AGAAGAAGAGAAGAAAAAGA
45294017 AGAAG-AGAAGAAGAA
1 AGAAGAAG-AGAAGAA
45294032 GAATAAGAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 2 0.07
20 27 0.90
21 1 0.03
ACGTcount: A:0.67, C:0.00, G:0.29, T:0.04
Consensus pattern (20 bp):
AGAAGAAGAGAAGAAAAAGA
Found at i:45311216 original size:16 final size:16
Alignment explanation
Indices: 45311197--45311227 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45311187 CACGGTAACG
45311197 GAATAGAGCTGTAATT
1 GAATAGAGCTGTAATT
*
45311213 GAATAGAGTTGTAAT
1 GAATAGAGCTGTAAT
45311228 CAATAATTTA
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:0.39, C:0.03, G:0.26, T:0.32
Consensus pattern (16 bp):
GAATAGAGCTGTAATT
Found at i:45314572 original size:84 final size:84
Alignment explanation
Indices: 45314426--45314594 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
45314416 AAGTTCAGAT
* *
45314426 GAACGAAATCCTCCCAACCACAAAAAGCACCTCTCTGCAGGTGTTTTCCACATACCATATAGCAT
1 GAACGAAATCCTCCCAACCACAAAAAGCACATCTCTGCAGGTGTTTTCCACATACCAGATAGCAT
45314491 GTGAAATACATCTGCCTTG
66 GTGAAATACATCTGCCTTG
* *
45314510 GAACGAAATCCTCCCAACCACATAAAGCACATCTCTGTAGGTGTTTTCCACATACCAGATAGCAT
1 GAACGAAATCCTCCCAACCACAAAAAGCACATCTCTGCAGGTGTTTTCCACATACCAGATAGCAT
45314575 GTGAAATACATCTGCCTTG
66 GTGAAATACATCTGCCTTG
45314594 G
1 G
45314595 CACCAGTGTT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (84 bp):
GAACGAAATCCTCCCAACCACAAAAAGCACATCTCTGCAGGTGTTTTCCACATACCAGATAGCAT
GTGAAATACATCTGCCTTG
Found at i:45316564 original size:27 final size:27
Alignment explanation
Indices: 45316523--45316578 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
45316513 CTAAAAAAAG
*
45316523 AAATTTCCCATAGTCAAGTTCATACAT
1 AAATTTCCCACAGTCAAGTTCATACAT
45316550 AAATTTCCCACAGTCAAGTTCATACAT
1 AAATTTCCCACAGTCAAGTTCATACAT
45316577 AA
1 AA
45316579 TAAAACATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTTCCCACAGTCAAGTTCATACAT
Found at i:45317565 original size:10 final size:10
Alignment explanation
Indices: 45317534--45317575 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
45317524 TCTAATTATA
45317534 ATAATTTATTT
1 ATAA-TTATTT
*
45317545 AT-ATGATTT
1 ATAATTATTT
45317554 ATAATTATTT
1 ATAATTATTT
*
45317564 ATAATAATTT
1 ATAATTATTT
45317574 AT
1 AT
45317576 TTATATTGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 7 0.26
10 18 0.67
11 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
ATAATTATTT
Found at i:45317573 original size:20 final size:20
Alignment explanation
Indices: 45317534--45317575 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
45317524 TCTAATTATA
*
45317534 ATAATTTATTTATATGATTT
1 ATAATTTATTTATATAATTT
45317554 ATAA-TTATTTATAATAATTT
1 ATAATTTATTTAT-ATAATTT
45317574 AT
1 AT
45317576 TTATATTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
ATAATTTATTTATATAATTT
Found at i:45317587 original size:14 final size:14
Alignment explanation
Indices: 45317529--45317580 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 14
45317519 TTTAATCTAA
45317529 TTATAATAATTTAT
1 TTATAATAATTTAT
*
45317543 TTATATGATTTATAATTAT
1 TTATA--A--TA-ATTTAT
45317562 TTATAATAATTTAT
1 TTATAATAATTTAT
45317576 TTATA
1 TTATA
45317581 TTGATTTTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 10
0.72 0.05 0.23
Matches are distributed among these distances:
14 15 0.48
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.32
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (14 bp):
TTATAATAATTTAT
Found at i:45318488 original size:184 final size:183
Alignment explanation
Indices: 45318179--45318545 Score: 689
Period size: 184 Copynumber: 2.0 Consensus size: 183
45318169 ATGTTGGCAA
*
45318179 GGAGGATGAAAGCATACCCTTACATCCCAATAGTTTTCCAATAACCCCCGGAAGATATTCTTGAT
1 GGAGGATGAAAGCATACCCTTACATCCCAATAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
*
45318244 CAATTAAGGATAGATAGTTGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
66 CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
45318309 GTTATCTATATAAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
131 GTTATCTATAT-AAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
*
45318363 GGAGGATGAAAGCATACCCTTACATCCCAATAGTTTTCCAAGAACCCTCGGAAGATATTCTTGAT
1 GGAGGATGAAAGCATACCCTTACATCCCAATAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
45318428 CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
66 CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
*
45318493 GTTGTCTATATAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
131 GTTATCTATATAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
45318546 TTTATCCTTT
Statistics
Matches: 179, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
183 42 0.23
184 137 0.77
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (183 bp):
GGAGGATGAAAGCATACCCTTACATCCCAATAGTTTTCCAAGAACCCCCGGAAGATATTCTTGAT
CAATTAAGGATAGATAGTCGTTTTATGCATGATGATTTTGAAATAATACTGTAATTATTTTGGGT
GTTATCTATATAAAAAAATTCTATTTAGGTCAAAATCTGAAATTTTAAACAAT
Found at i:45321015 original size:28 final size:28
Alignment explanation
Indices: 45320893--45321321 Score: 306
Period size: 28 Copynumber: 15.1 Consensus size: 28
45320883 TTATGACAGC
* * *
45320893 CCGTATGGACTATCTTTCAAGCAAAAAT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
**
45320921 TTGTAGGGACTATCTTTCATA-CAAGAGT
1 CCGTAGGGACTATCTTTCA-AGCAAGAGT
* * *
45320949 CGGTAGGGACTATCTTTCATGCAAGATT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
** *
45320977 TTGCAGGGACTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * *
45321005 CCATAGAGACTATCTTT-AATGCAAAAGT
1 CCGTAGGGACTATCTTTCAA-GCAAGAGT
** * *
45321033 CCACATGGATTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * * *
45321061 CCGTAAGGATTATCTTTCATGCAAGAGC
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* *
45321089 CCGCAGGGACTATCTTTATCTTTTAAACAAGAGT
1 CCGTAGGGACTATC-TT-TC----AAGCAAGAGT
* ** * * * *
45321123 TCACAGAGACTATTTTTCATGCAAAAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* ** * * * *
45321151 TCACAGGGACTCTGTTTCATGCAAGAGC
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
*
45321179 CCGTAGGGATTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * *** *
45321207 CTGCAATAACTATCTTTCATGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
* * *
45321235 CTGCAAGGACTATCTTTCAAGCAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
*
45321263 TCGTAGGGACTATCTTTCACA-CAAGAGT
1 CCGTAGGGACTATCTTTCA-AGCAAGAGT
*
45321291 CCGTAGGGACTATCTTTCAAGTAAGAGT
1 CCGTAGGGACTATCTTTCAAGCAAGAGT
45321319 CCG
1 CCG
45321322 CAGAAACTAA
Statistics
Matches: 317, Mismatches: 72, Indels: 24
0.77 0.17 0.06
Matches are distributed among these distances:
27 3 0.01
28 285 0.90
29 6 0.02
30 2 0.01
32 2 0.01
33 2 0.01
34 17 0.05
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (28 bp):
CCGTAGGGACTATCTTTCAAGCAAGAGT
Found at i:45321219 original size:118 final size:118
Alignment explanation
Indices: 45320987--45321223 Score: 294
Period size: 118 Copynumber: 2.0 Consensus size: 118
45320977 TTGCAGGGAC
* * * *
45320987 TATCTTTCAAGCAAGAGTCCATAGAGACTATCTTTAATGCAAAAGTCCACATGGATTATCTTTCA
1 TATCTTTCAAACAAGAGTCCACAGAGACTATCTTTAATGCAAAAGTCCACAGGGACTATCTTTCA
* * * *
45321052 AGCAAGAGTCCGTAAGGATTATCTTTCATGCAAGAGCCCGCAGGGACTATCTT
66 AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAAGAACTATCTT
* * * * * * *
45321105 TATCTTTTAAACAAGAGTTCACAGAGACTATTTTTCATGCAAAAGTTCACAGGGACTCTGTTTCA
1 TATCTTTCAAACAAGAGTCCACAGAGACTATCTTTAATGCAAAAGTCCACAGGGACTATCTTTCA
* * * * *
45321170 TGCAAGAGCCCGTAGGGATTATCTTTCAAGCAAGAGTCTGCAATAACTATCTT
66 AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAAGAACTATCTT
45321223 T
1 T
45321224 CATGCAAGAG
Statistics
Matches: 99, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
118 99 1.00
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.30
Consensus pattern (118 bp):
TATCTTTCAAACAAGAGTCCACAGAGACTATCTTTAATGCAAAAGTCCACAGGGACTATCTTTCA
AGCAAGAGCCCGTAAGGATTATCTTTCAAGCAAGAGCCCGCAAGAACTATCTT
Found at i:45321303 original size:84 final size:84
Alignment explanation
Indices: 45320899--45321319 Score: 344
Period size: 84 Copynumber: 4.9 Consensus size: 84
45320889 CAGCCCGTAT
* * ** * *
45320899 GGACTATCTTTCAAGCAAAAATTTGTAGGGACTATCTTTCATACAAGAGTCGGTAGGGACTATCT
1 GGACTATCTTTCAAGCAAGAGTCCGTAGGGACTATCTTTCATACAAGAGTCCGCAGGGACTATCT
* * *
45320964 TTCATGCAAGATTTTGCAG
66 TTCATGCAAGAGTCTGCAA
* * * * * * * *
45320983 GGACTATCTTTCAAGCAAGAGTCCATAGAGACTATCTTTAATGCAAAAGTCCACATGGATTATCT
1 GGACTATCTTTCAAGCAAGAGTCCGTAGGGACTATCTTTCATACAAGAGTCCGCAGGGACTATCT
* * *
45321048 TTCAAGCAAGAGTCCGTAA
66 TTCATGCAAGAGTCTGCAA
* * * * * * * *
45321067 GGATTATCTTTCATGCAAGAGCCCGCAGGGACTATCTTTATCTTTTAAACAAGAGTTCACAGAGA
1 GGACTATCTTTCAAGCAAGAGTCCGTAGGGACTATC-TT-TC----ATACAAGAGTCCGCAGGGA
* *
45321132 CTATTTTTCATGCAAAAGT-T-CACA
60 CTATCTTTCATGCAAGAGTCTGCA-A
* * * * * * ***
45321156 GGGACTCTGTTTCATGCAAGAGCCCGTAGGGATTATCTTTCA-AGCAAGAGTCTGCAATAACTAT
1 -GGACTATCTTTCAAGCAAGAGTCCGTAGGGACTATCTTTCATA-CAAGAGTCCGCAGGGACTAT
45321220 CTTTCATGCAAGAGTCTGCAA
64 CTTTCATGCAAGAGTCTGCAA
* * *
45321241 GGACTATCTTTCAAGCAAGAGTTCGTAGGGACTATCTTTCACACAAGAGTCCGTAGGGACTATCT
1 GGACTATCTTTCAAGCAAGAGTCCGTAGGGACTATCTTTCATACAAGAGTCCGCAGGGACTATCT
* *
45321306 TTCAAGTAAGAGTC
66 TTCATGCAAGAGTC
45321320 CGCAGAAACT
Statistics
Matches: 260, Mismatches: 65, Indels: 24
0.74 0.19 0.07
Matches are distributed among these distances:
83 1 0.00
84 186 0.72
85 5 0.02
86 3 0.01
88 3 0.01
89 3 0.01
90 59 0.23
ACGTcount: A:0.31, C:0.20, G:0.20, T:0.29
Consensus pattern (84 bp):
GGACTATCTTTCAAGCAAGAGTCCGTAGGGACTATCTTTCATACAAGAGTCCGCAGGGACTATCT
TTCATGCAAGAGTCTGCAA
Found at i:45321362 original size:20 final size:20
Alignment explanation
Indices: 45321337--45321379 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
45321327 ACTAATTGTA
*
45321337 AGTATGAATCCTTATGTATG
1 AGTATGAATCCTCATGTATG
45321357 AGTATGAATCCTCATGTATG
1 AGTATGAATCCTCATGTATG
45321377 AGT
1 AGT
45321380 CCACTAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (20 bp):
AGTATGAATCCTCATGTATG
Found at i:45321401 original size:29 final size:29
Alignment explanation
Indices: 45321357--45321533 Score: 264
Period size: 29 Copynumber: 6.1 Consensus size: 29
45321347 CTTATGTATG
* *
45321357 AGTATGAATCCTCATGTATGAGTCCACTA
1 AGTATGAATCCACATGTATGAGTCCACCA
* * *
45321386 ATTATGAATCTACATGTATTAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
45321415 AGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
*
45321444 GGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
* * *
45321473 AGTATGAATCCACATGTATAAGTTCACCC
1 AGTATGAATCCACATGTATGAGTCCACCA
*
45321502 GGTATGAATCCACATGTATGAGTCCACCA
1 AGTATGAATCCACATGTATGAGTCCACCA
45321531 AGT
1 AGT
45321534 CTTTGTGATA
Statistics
Matches: 130, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 130 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (29 bp):
AGTATGAATCCACATGTATGAGTCCACCA
Found at i:45326747 original size:68 final size:69
Alignment explanation
Indices: 45326638--45326825 Score: 245
Period size: 68 Copynumber: 2.8 Consensus size: 69
45326628 TTTATCTGAC
* * * ** *
45326638 TCCATAGCCCAACTAAGGTCATACATTTTATGAACCCATGTTTAATATCTTGGAAAACTCCATAT
1 TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATATCCTGGAAAACTCCATAT
45326703 GTT-
66 GTTG
* * ***
45326706 TCCATAGTCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTGGTGGACTCCATAT
1 TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATATCCTGGAAAACTCCATAT
45326771 GTTG
66 GTTG
* *
45326775 T-CACAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATGTCCTG
1 TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATATCCTG
45326826 ACGGGCTCTA
Statistics
Matches: 106, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
68 105 0.99
69 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (69 bp):
TCCATAGCCTAACTATGGTCTTACACATTATGAACCCATGTTTAATATCCTGGAAAACTCCATAT
GTTG
Found at i:45333039 original size:24 final size:24
Alignment explanation
Indices: 45333003--45333049 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 24
45332993 TGAAATATTT
45333003 TTTTTTATTTTATTTTGAGAAAATGA
1 TTTTTTA-TTTATTTT-AGAAAATGA
45333029 TTTTTTA-TTATTTTAGAAAAT
1 TTTTTTATTTATTTTAGAAAAT
45333050 TGAAAAACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 7 0.33
26 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.60
Consensus pattern (24 bp):
TTTTTTATTTATTTTAGAAAATGA
Found at i:45334681 original size:19 final size:19
Alignment explanation
Indices: 45334654--45334693 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
45334644 TCGGGCCCAA
*
45334654 AAAATCCAATACCCAAA-AC
1 AAAACCCAA-ACCCAAATAC
45334673 AAAACCCAAACCCAAATAC
1 AAAACCCAAACCCAAATAC
45334692 AA
1 AA
45334694 TCCAAACCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.60, C:0.33, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAACCCAAACCCAAATAC
Found at i:45335082 original size:12 final size:12
Alignment explanation
Indices: 45335054--45335083 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
45335044 TACTTATTCA
*
45335054 TTTTATTATTTG
1 TTTTCTTATTTG
45335066 TTTTCTTATTTG
1 TTTTCTTATTTG
45335078 TTTTCT
1 TTTTCT
45335084 GTTACAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.07, G:0.07, T:0.77
Consensus pattern (12 bp):
TTTTCTTATTTG
Found at i:45336120 original size:4 final size:4
Alignment explanation
Indices: 45336111--45336135 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
45336101 TTTGGTGTTC
45336111 ATTT ATTT ATTT ATTT ATTT ATTT A
1 ATTT ATTT ATTT ATTT ATTT ATTT A
45336136 CATGCCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (4 bp):
ATTT
Found at i:45337736 original size:23 final size:24
Alignment explanation
Indices: 45337709--45337760 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
45337699 TGTATCATTT
* *
45337709 TAAAAATACAATAAT-TAAAAAAG
1 TAAAAACAAAATAATATAAAAAAG
* *
45337732 TAAAAACAAAATTATATAAAAAAT
1 TAAAAACAAAATAATATAAAAAAG
45337756 TAAAA
1 TAAAA
45337761 TTTGTAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 12 0.50
24 12 0.50
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (24 bp):
TAAAAACAAAATAATATAAAAAAG
Found at i:45338724 original size:20 final size:20
Alignment explanation
Indices: 45338699--45338744 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45338689 TATATATATG
* **
45338699 ATTAAGAGATAATTATGTTA
1 ATTAAGACATAATTAACTTA
*
45338719 ATTAAGACATGATTAACTTA
1 ATTAAGACATAATTAACTTA
45338739 ATTAAG
1 ATTAAG
45338745 CTAGATTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (20 bp):
ATTAAGACATAATTAACTTA
Found at i:45340279 original size:13 final size:13
Alignment explanation
Indices: 45340261--45340286 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45340251 TTGGATCTGT
45340261 ACCAAAACAATCA
1 ACCAAAACAATCA
45340274 ACCAAAACAATCA
1 ACCAAAACAATCA
45340287 TGAAACATAT
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:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:45348546 original size:25 final size:24
Alignment explanation
Indices: 45348518--45348572 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
45348508 TAGGTGGATC
45348518 TAAATTTTG-AAAATAAATAAATAAA
1 TAAATTTTGAAAAAT-AA-AAATAAA
*
45348543 TAAATTTTTAAAAATAAAAATAAA
1 TAAATTTTGAAAAATAAAAATAAA
*
45348567 AAAATT
1 TAAATT
45348573 ACAAAAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 10 0.37
26 5 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (24 bp):
TAAATTTTGAAAAATAAAAATAAA
Found at i:45352508 original size:3 final size:3
Alignment explanation
Indices: 45352500--45352531 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
45352490 ACCATATACA
45352500 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
45352532 ACTGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:45354206 original size:19 final size:18
Alignment explanation
Indices: 45354165--45354207 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
45354155 CAAATTTTAT
**
45354165 ATTTTTTTATTTTTGGTA
1 ATTTTTTTATTTTTAATA
45354183 ATTTTTATTATTTTTAATA
1 ATTTTT-TTATTTTTAATA
*
45354202 GTTTTT
1 ATTTTT
45354208 GGAAATTTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.72
Consensus pattern (18 bp):
ATTTTTTTATTTTTAATA
Done.