Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 103066607
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: 103066607
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 238 characters in sequence are not A, C, G, or T
File 151 of 345
Found at i:41318251 original size:266 final size:266
Alignment explanation
Indices: 41317928--41318416 Score: 689
Period size: 266 Copynumber: 1.8 Consensus size: 266
41317918 AGGGGTATAG
* ** *
41317928 GATTTGCTATTTTCAATCTGCTCCATTGTAACTTCAGGGAGATAAGATTTATAACTTCAA-TCTA
1 GATTTGCTATCTTCAATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTATAACTTCAACT-TA
** * * *
41317992 CTCCACTGTAACTTTAGGGAGATAAGATTTATAGCTTTAATCTGCTCTACTGCAACTTCAAAAAG
65 CTCCACTACAACTTCAAGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAG
* * *
41318057 ATAAGATTT-TCTATTTTCAGTCTACTAC-ATTACAACTTCAGAGAGATAAGACTTGTGACTTCA
130 ATAAGATTTGT-TATCTTCAATCTACT-CGACTACAACTTCAGAGAGATAAGACTTGTGACTTCA
* *
41318120 A-CTTGCTCCACTGCAACTTTAGGGGGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTC
193 ATC-TGCTCCACTACAACTTTAAGGGGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTC
41318184 AGAAAGATAA
257 AGAAAGATAA
* * *
41318194 GATTTTCTATCTTCAATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTGTAACTTCAACTTGC
1 GATTTGCTATCTTCAATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTATAACTTCAACTTAC
* * *
41318259 TCCACTACAACTTCAAGGAGATAAGGTTTATAGCTTTAATCTACTGTACTGCAACTTCAAAGAGA
66 TCCACTACAACTTCAAGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAGA
* * * * *
41318324 TAAGATTTGTTATCTTCAATTTACTCGACTGCAACTTCAGAGAGATAAGATTTGTGGCTTTAATC
131 TAAGATTTGTTATCTTCAATCTACTCGACTACAACTTCAGAGAGATAAGACTTGTGACTTCAATC
41318389 TGCTCCACTACAACTTTAAGGGGATAAG
196 TGCTCCACTACAACTTTAAGGGGATAAG
41318417 ATTCACCATG
Statistics
Matches: 194, Mismatches: 25, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
265 1 0.01
266 190 0.98
267 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (266 bp):
GATTTGCTATCTTCAATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTATAACTTCAACTTAC
TCCACTACAACTTCAAGGAGATAAGATTTATAGCTTTAATCTACTCTACTGCAACTTCAAAAAGA
TAAGATTTGTTATCTTCAATCTACTCGACTACAACTTCAGAGAGATAAGACTTGTGACTTCAATC
TGCTCCACTACAACTTTAAGGGGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTTCAGAA
AGATAA
Found at i:41318384 original size:89 final size:88
Alignment explanation
Indices: 41317670--41318419 Score: 434
Period size: 89 Copynumber: 8.4 Consensus size: 88
41317660 TTGCAATTTC
* * * * * * * * * * * *
41317670 AATCTACTCCACTACAACTTTAAGGAAATAAGATTTGTAGCTTTAATATGCTCTACTGAAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCCACTGCAACTTC
* * * *
41317735 AGAGAAATAAGATTTGTAACTTC
66 AGAGAGATAAGATTTATAGCTTT
* * ** * * * * * * * *
41317758 ATTCTGCTCCATTATAACTTTAAGGAGTTAAGATTTGCTATCTTCAATTTGCTCTACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAACTTCAATCTACTCCACTGCAACTT
* * * * *
41317823 TAGGGAGATAAAATTTGTGGCTTT
65 CAGAGAGATAAGATTTATAGCTTT
* * * * * * * * *
41317847 AATTTTCTCTACTGCAACTTCAGGGAGATATGATTCACCACGACGAATTAAATCCATTCCACTGC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTA-TA--AC---TTCAATCTACTCCACTGC
* * * *
41317912 AACTTCAG-GGGTATAGGATTTGCTA-TTTT
60 AACTTCAGAGAG-ATAAGATTT-ATAGCTTT
* * *
41317941 CAATCTGCTCCATTGTAACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCCACTGTAACTT
1 -AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCCACTGCAACTT
* *
41318006 TAGGGAGATAAGATTTATAGCTTT
65 CAGAGAGATAAGATTTATAGCTTT
* *** * ** * * * *
41318030 AATCTGCTCTACTGCAACTTCAAAAAGATAAGATTTTCTATTTTCAGTCTACTACATTACAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTTATAACTTCAATCTACTCCACTGCAACTT
* * *
41318095 CAGAGAGATAAGACTTGT-GACTTC
65 CAGAGAGATAAGATTTATAG-CTTT
* * * * * *
41318119 AA-CTTGCTCCACTGCAACTTTAGGGGGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTT
1 AATC-TGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCCACTGCAACTT
* * * *
41318183 CAGAAAGATAAGATTTTCTATCTTC
65 CAGAGAGATAAGA-TTTATAGCTTT
* * * * * *
41318208 AATCTGCTCCACAGTAACTTCAGGGAGATAAGACTTGTAACTTCAA-CTTGCTCCACTACAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATC-TACTCCACTGCAACTT
*
41318272 CA-AGGAGATAAGGTTTATAGCTTT
65 CAGA-GAGATAAGATTTATAGCTTT
* ** ** * * * *
41318296 AATCTACTGTACTGCAACTTCAAAGAGATAAGATTTGTTATCTTCAATTTACTCGACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTT-ATAACTTCAATCTACTCCACTGCAACTT
* *
41318361 CAGAGAGATAAGATTTGTGGCTTT
65 CAGAGAGATAAGATTTATAGCTTT
* *
41318385 AATCTGCTCCACTACAACTTTAAGGG-GATAAGATT
1 AATCTGCTCCACTGCAAC-TTCAGGGAGATAAGATT
41318420 CACCATGATA
Statistics
Matches: 495, Mismatches: 143, Indels: 47
0.72 0.21 0.07
Matches are distributed among these distances:
88 133 0.27
89 288 0.58
90 8 0.02
91 1 0.00
92 2 0.00
93 2 0.00
94 30 0.06
95 31 0.06
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (88 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTATAACTTCAATCTACTCCACTGCAACTTC
AGAGAGATAAGATTTATAGCTTT
Found at i:41319029 original size:15 final size:15
Alignment explanation
Indices: 41318988--41319029 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
41318978 TGGCATTGAA
41318988 TTGAGTATTGAAATGG
1 TTGAG-ATTGAAATGG
*
41319004 TTGAGAATGAAATGG
1 TTGAGATTGAAATGG
41319019 TATGA-ATTGAA
1 T-TGAGATTGAA
41319030 TATTGGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (15 bp):
TTGAGATTGAAATGG
Found at i:41322742 original size:40 final size:40
Alignment explanation
Indices: 41322697--41322881 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 40
41322687 TACACATTCA
* *
41322697 AATGCCTTCGGGACATAGCCCGG-TTACAGTAACTCGCACG
1 AATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACG
* * *
41322737 AATGCCTTCGGGACTTAACCCGGATTTAGTAGCTCGCTCG
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
* *
41322777 AAAGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACG
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACG
* * * * *
41322817 TATGCCGTC-GGATCTTAGTCCGGATTTAGTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCACG
*
41322857 AAAGCCTTCGGGACTTAGCCCGGAT
1 AATGCCTTCGGGACTTAGCCCGGAT
41322882 ATCATTCGAA
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.02
40 109 0.89
41 10 0.08
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACG
Found at i:41328015 original size:42 final size:42
Alignment explanation
Indices: 41327955--41328104 Score: 167
Period size: 43 Copynumber: 3.5 Consensus size: 42
41327945 GATTACCGAG
* * *
41327955 ATGTGATTACATGTAAGACCATGTTGGGGCATCGGCATTG-T
1 ATGTGATTACATGTAAGACCATGTTGGGACATTGGCATCGTT
*
41327996 ATTGTGATTACATGTAAGACCCTGTCTGGGACATTGGCATCGTT
1 A-TGTGATTACATGTAAGACCATGT-TGGGACATTGGCATCGTT
* * **
41328040 ATATGATTTCATGTAAGACCATGTTTGGGACATTGGCATCAAT
1 ATGTGATTACATGTAAGACCATG-TTGGGACATTGGCATCGTT
* * *
41328083 ATGTGCTAACATGCAAGACCAT
1 ATGTGATTACATGTAAGACCAT
41328105 ATCTGGGATA
Statistics
Matches: 91, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
41 1 0.01
42 22 0.24
43 65 0.71
44 3 0.03
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTTGGGACATTGGCATCGTT
Found at i:41328102 original size:86 final size:84
Alignment explanation
Indices: 41327958--41328120 Score: 193
Period size: 86 Copynumber: 1.9 Consensus size: 84
41327948 TACCGAGATG
* ** * * * *
41327958 TGATTACATGTAAGACCATGTTGGGGCATCGGCATTGTATTGTGATTACATGTAAGACCCTGTCT
1 TGATTACATGTAAGACCATGTTGGGACATCGGCATAATATTGTGATAACATGCAAGACCATATCT
41328023 GGGACATTGGCATCGTTATA
66 GGGACA-TGGCATCGTTATA
* * *
41328043 TGATTTCATGTAAGACCATGTTTGGGACATTGGCATCAATA-TGTGCTAACATGCAAGACCATAT
1 TGATTACATGTAAGACCATG-TTGGGACATCGGCAT-AATATTGTGATAACATGCAAGACCATAT
*
41328107 CTGGGATATGGCAT
64 CTGGGACATGGCAT
41328121 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 25 0.38
86 38 0.58
87 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (84 bp):
TGATTACATGTAAGACCATGTTGGGACATCGGCATAATATTGTGATAACATGCAAGACCATATCT
GGGACATGGCATCGTTATA
Found at i:41328769 original size:12 final size:12
Alignment explanation
Indices: 41328752--41328776 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
41328742 TGGCCGTGTG
41328752 TGGCACATGGGC
1 TGGCACATGGGC
41328764 TGGCACATGGGC
1 TGGCACATGGGC
41328776 T
1 T
41328777 TGTGGCCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (12 bp):
TGGCACATGGGC
Found at i:41335357 original size:26 final size:26
Alignment explanation
Indices: 41335328--41335409 Score: 137
Period size: 26 Copynumber: 3.2 Consensus size: 26
41335318 TGATACAAAT
*
41335328 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
41335354 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
*
41335380 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGATTAGGTAAATGTTCCA
41335406 TGAT
1 TGAT
41335410 GGGAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 52 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (26 bp):
TGATAATGGATTAGGTAAATGTTCCA
Found at i:41345149 original size:60 final size:59
Alignment explanation
Indices: 41345022--41345160 Score: 165
Period size: 60 Copynumber: 2.3 Consensus size: 59
41345012 TTTAGTGTTA
* *
41345022 ACTGGGCCTTAGCCCATATCAGTATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGCC-TAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
41345083 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGTCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
41345143 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
41345161 GAACACAGTT
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
59 3 0.04
60 51 0.74
61 12 0.17
62 3 0.04
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAGTATCAATCTGGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:41345178 original size:20 final size:19
Alignment explanation
Indices: 41345153--41345198 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
41345143 ATTGGGCCTT
*
41345153 GCCCATATGAACACAGTTGG
1 GCCCATATCAACACAGTT-G
* *
41345173 GCCCATTTCAATACAGTTG
1 GCCCATATCAACACAGTTG
41345192 GCCCATA
1 GCCCATA
41345199 ACAGAACAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (19 bp):
GCCCATATCAACACAGTTG
Found at i:41356706 original size:27 final size:26
Alignment explanation
Indices: 41356662--41356713 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
41356652 CTCACTGCAA
*
41356662 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
41356689 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
41356714 CCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:41356800 original size:27 final size:26
Alignment explanation
Indices: 41356762--41356821 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
41356752 ATATATATAT
* *
41356762 ATATTTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
41356788 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
41356815 ATATCTG
1 ATATCTG
41356822 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:41358588 original size:26 final size:26
Alignment explanation
Indices: 41358557--41358607 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
41358547 GTATTCAGTT
41358557 ATAACA-AATATAAATTCTAACATTTC
1 ATAACAGAATATAAATT-TAACATTTC
* *
41358583 ATAACAGCATATATATTTAACATTT
1 ATAACAGAATATAAATTTAACATTT
41358608 AACAACAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.47, C:0.14, G:0.02, T:0.37
Consensus pattern (26 bp):
ATAACAGAATATAAATTTAACATTTC
Found at i:41358614 original size:26 final size:27
Alignment explanation
Indices: 41358564--41358614 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
41358554 GTTATAACAA
* *
41358564 ATATAAATTCTAACATTTCATAACAGC
1 ATATAAATTCTAACATTTAACAACAGC
*
41358591 ATATATATT-TAACATTTAACAACA
1 ATATAAATTCTAACATTTAACAACA
41358615 ATTAAACATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.47, C:0.16, G:0.02, T:0.35
Consensus pattern (27 bp):
ATATAAATTCTAACATTTAACAACAGC
Found at i:41359270 original size:21 final size:21
Alignment explanation
Indices: 41359232--41359271 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
41359222 ATTACTCCAA
*
41359232 AGAAGTCGATTGATCCATCTT
1 AGAAGTCGATTCATCCATCTT
41359253 AGAAGTCAGATTCA-CCATC
1 AGAAGTC-GATTCATCCATC
41359272 AAGACTGAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (21 bp):
AGAAGTCGATTCATCCATCTT
Found at i:41363885 original size:25 final size:25
Alignment explanation
Indices: 41363858--41364048 Score: 220
Period size: 25 Copynumber: 7.6 Consensus size: 25
41363848 CGATAAAACG
*
41363858 ATCGGCACAAAGCCATCAATAACAG
1 ATCGGCACAAAGCCATCAATAACAT
** * *
41363883 ATCAACACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
* *
41363908 ATCGGCACAAAGCCATCAATAATAG
1 ATCGGCACAAAGCCATCAATAACAT
* * *
41363933 ATCGGGACATAGCCATCAATATCAT
1 ATCGGCACAAAGCCATCAATAACAT
*
41363958 ATCGGCACAAAGCCATAAATAACAT
1 ATCGGCACAAAGCCATCAATAACAT
* * * *
41363983 ACCAGCACAAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
* * *
41364008 ATCGGTACAAAGCCTTCAATAGCAT
1 ATCGGCACAAAGCCATCAATAACAT
41364033 ATCGGCACAAAGCCAT
1 ATCGGCACAAAGCCAT
41364049 AATTAAAATA
Statistics
Matches: 136, Mismatches: 30, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 136 1.00
ACGTcount: A:0.41, C:0.27, G:0.14, T:0.18
Consensus pattern (25 bp):
ATCGGCACAAAGCCATCAATAACAT
Found at i:41364319 original size:41 final size:41
Alignment explanation
Indices: 41364197--41364319 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
41364187 AAAAGCCACC
* * *
41364197 GGTGGATCCACGGTCGTCAAGCAACCCTGCGATCCTTAATC
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
*
41364238 GGTGGATCCACGGTCGTCAAGCAACCATGCGATTCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
* *
41364279 GGTGGATCCACGATCGTCAAGAAACCATGCGATCCTCAATT
1 GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
41364320 TCTTCCTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 75 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (41 bp):
GGTGGATCCACGGTCGTCAAGCAACCATGCGATCCTCAATT
Found at i:41364608 original size:27 final size:27
Alignment explanation
Indices: 41364578--41364873 Score: 188
Period size: 27 Copynumber: 11.0 Consensus size: 27
41364568 GGTAAATCTA
* * *
41364578 CAAACCAAGGATATTTCGGTAATTTTG
1 CAAATCAAGGGTATTTCAGTAATTTTG
* * *
41364605 CAAAACAATGGTATTTCTGTAATTTTTG
1 CAAATCAAGGGTATTTCAGTAA-TTTTG
*
41364633 -AAAGTCAAGGGTATTTCTA-TAAATTTG
1 CAAA-TCAAGGGTATTTC-AGTAATTTTG
* * *
41364660 TAAATCAGGGGTATTTCTA-TAATTTTC
1 CAAATCAAGGGTATTTC-AGTAATTTTG
* * **
41364687 CAAATCAACGGTATTTTAGTAATTTCC
1 CAAATCAAGGGTATTTCAGTAATTTTG
* * ** *
41364714 CAAATTAGGGGTATTTTGGTAATTTTA
1 CAAATCAAGGGTATTTCAGTAATTTTG
* **
41364741 CAAATCAAGGGTATTTCAATAATTTCA
1 CAAATCAAGGGTATTTCAGTAATTTTG
* ** *
41364768 CAAATCAGGGGTATTTTGGTAATTTTT
1 CAAATCAAGGGTATTTCAGTAATTTTG
* ** *
41364795 CTAATTGAGGGTA-TTCTGGTAATTTTG
1 CAAATCAAGGGTATTTC-AGTAATTTTG
* *
41364822 TAAACCAAGGGTA-TTCAGTAATTTTG
1 CAAATCAAGGGTATTTCAGTAATTTTG
* * * *
41364848 TAAACCAAGGCTACTTCAGTAATTTT
1 CAAATCAAGGGTATTTCAGTAATTTT
41364874 ACCCTATAGG
Statistics
Matches: 215, Mismatches: 47, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
26 24 0.11
27 169 0.79
28 22 0.10
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.39
Consensus pattern (27 bp):
CAAATCAAGGGTATTTCAGTAATTTTG
Found at i:41364763 original size:81 final size:80
Alignment explanation
Indices: 41364559--41364846 Score: 233
Period size: 81 Copynumber: 3.6 Consensus size: 80
41364549 CACCCTACAA
* * ** * * *
41364559 GGGTATTTTGGTAAATCTACAAACCAAGGATATTTCGGTAATTTTGCAAAACAATGGTATTTCTG
1 GGGTATTTTGGTAAATTTACAAACCAAGGGTATTTCAATAATTTTCCAAATCAACGGTATTT-TG
* * *
41364624 TAATTTTTGAAAGTCAA
65 TAATTTTTCAAA-TTAG
* ** * * *
41364641 GGGTATTTCT-ATAAATTTGTAAATCAGGGGTATTTCTATAATTTTCCAAATCAACGGTATTTTA
1 GGGTATTT-TGGTAAATTTACAAACCAAGGGTATTTCAATAATTTTCCAAATCAACGGTATTTT-
**
41364705 GTAATTTCCCAAATTAG
64 GTAATTTTTCAAATTAG
* * **
41364722 GGGTATTTTGGTAATTTTACAAATCAAGGGTATTTCAATAA-TTTCACAAATCAGGGGTATTTTG
1 GGGTATTTTGGTAAATTTACAAACCAAGGGTATTTCAATAATTTTC-CAAATCAACGGTATTTT-
*
41364786 GTAATTTTTCTAATT-G
64 GTAATTTTTCAAATTAG
* * ** *
41364802 AGGGTATTCTGGTAATTTTGTAAACCAAGGGTA-TTCAGTAATTTT
1 -GGGTATTTTGGTAAATTTACAAACCAAGGGTATTTCAATAATTTT
41364847 GTAAACCAAG
Statistics
Matches: 166, Mismatches: 34, Indels: 13
0.78 0.16 0.06
Matches are distributed among these distances:
80 13 0.08
81 94 0.57
82 58 0.35
83 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAAATTTACAAACCAAGGGTATTTCAATAATTTTCCAAATCAACGGTATTTTGT
AATTTTTCAAATTAG
Found at i:41364842 original size:26 final size:26
Alignment explanation
Indices: 41364802--41364873 Score: 108
Period size: 26 Copynumber: 2.7 Consensus size: 26
41364792 TTTCTAATTG
*
41364802 AGGGTATTCTGGTAATTTTGTAAACCA
1 AGGGTATTC-AGTAATTTTGTAAACCA
41364829 AGGGTATTCAGTAATTTTGTAAACCA
1 AGGGTATTCAGTAATTTTGTAAACCA
*
41364855 AGGCTACTTCAGTAATTTT
1 AGGGTA-TTCAGTAATTTT
41364874 ACCCTATAGG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
26 21 0.50
27 21 0.50
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (26 bp):
AGGGTATTCAGTAATTTTGTAAACCA
Found at i:41364892 original size:27 final size:27
Alignment explanation
Indices: 41364862--41364936 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
41364852 CCAAGGCTAC
* *
41364862 TTCAGTAATTTTACCCTATAGGGGAAT
1 TTCAGTAATTCTACCCTACAGGGGAAT
*
41364889 TTCAGTAATTCTACCCTACAGGGGTAT
1 TTCAGTAATTCTACCCTACAGGGGAAT
* * *
41364916 TTTAGTAATACTAGCCTACAG
1 TTCAGTAATTCTACCCTACAG
41364937 ATATGAGATT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (27 bp):
TTCAGTAATTCTACCCTACAGGGGAAT
Found at i:41367400 original size:15 final size:15
Alignment explanation
Indices: 41367359--41367400 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
41367349 TGGCATTGAA
41367359 TTGAGTATTGAAATGG
1 TTGAG-ATTGAAATGG
*
41367375 TTGAGAATGAAATGG
1 TTGAGATTGAAATGG
41367390 TATGA-ATTGAA
1 T-TGAGATTGAA
41367401 TATTGGTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 15 0.65
16 8 0.35
ACGTcount: A:0.38, C:0.00, G:0.29, T:0.33
Consensus pattern (15 bp):
TTGAGATTGAAATGG
Found at i:41372455 original size:39 final size:39
Alignment explanation
Indices: 41372401--41372711 Score: 523
Period size: 39 Copynumber: 8.0 Consensus size: 39
41372391 AAGACACTGA
* *
41372401 AAATGAATCTGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
41372440 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
41372479 AAATATATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
41372518 AAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
41372557 AAATGTATCCGGACTAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
41372596 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTAG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
*
41372635 AAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTGCTGG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
* *
41372674 AAATGTATCCGGGTTAAAGTCCCGCAGGCTTTGTGCTG
1 AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTG
41372712 ATAATATAAT
Statistics
Matches: 258, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 258 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
AAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGG
Found at i:41375470 original size:20 final size:20
Alignment explanation
Indices: 41375445--41375510 Score: 87
Period size: 20 Copynumber: 3.3 Consensus size: 20
41375435 CGCCATTGGA
* *
41375445 AGAAGCACTAAAGTGCTCGT
1 AGAAGCATTCAAGTGCTCGT
* * *
41375465 AGAAGCATTCAAGTTCTTGC
1 AGAAGCATTCAAGTGCTCGT
41375485 AGAAGCATTCAAGTGCTCGT
1 AGAAGCATTCAAGTGCTCGT
41375505 AGAAGC
1 AGAAGC
41375511 CTCGATTCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (20 bp):
AGAAGCATTCAAGTGCTCGT
Found at i:41375688 original size:20 final size:18
Alignment explanation
Indices: 41375655--41375691 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
41375645 TGTTCTGTTG
41375655 ATATGCTTAATTTAATTA
1 ATATGCTTAATTTAATTA
41375673 ATATGGCTTAAATTTAATT
1 ATAT-GCTT-AATTTAATT
41375692 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.05, G:0.08, T:0.49
Consensus pattern (18 bp):
ATATGCTTAATTTAATTA
Found at i:41383364 original size:29 final size:29
Alignment explanation
Indices: 41383330--41383407 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
41383320 GTGACGAGAT
* *
41383330 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
41383359 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
**
41383388 CGGCACTGGGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
41383408 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:41393738 original size:29 final size:29
Alignment explanation
Indices: 41393704--41393780 Score: 102
Period size: 29 Copynumber: 2.7 Consensus size: 29
41393694 GTGACGAGAT
* *
41393704 CGGCACTAAGTGTGCGTGCTGGAAATATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
* *
41393733 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 CGGCACTAAGTGTGCGAGCTGGAAAAATA
*
41393762 CGGCACT-GGTGTGCGAGCT
1 CGGCACTAAGTGTGCGAGCT
41393781 CGGAGGGTAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
28 10 0.24
29 31 0.76
ACGTcount: A:0.27, C:0.18, G:0.32, T:0.22
Consensus pattern (29 bp):
CGGCACTAAGTGTGCGAGCTGGAAAAATA
Found at i:41401208 original size:37 final size:37
Alignment explanation
Indices: 41401158--41401267 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
41401148 TAGCTCAGAT
* *
41401158 AAAATCTCCACACGAAGTTATCGGGTCTTACCCGGAC
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
41401195 AAAATCTCCACACGTACTCATCGGGTCTTACCCGGAC
1 AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
*
41401232 ATAATCTCCACACGTAGTCATTC-GGTCTTACCCGGA
1 AAAATCTCCACACGTAGTCA-TCGGGTCTTACCCGGA
41401268 ATATATTTCC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
37 65 0.97
38 2 0.03
ACGTcount: A:0.27, C:0.32, G:0.17, T:0.24
Consensus pattern (37 bp):
AAAATCTCCACACGTAGTCATCGGGTCTTACCCGGAC
Found at i:41401466 original size:48 final size:48
Alignment explanation
Indices: 41401408--41402534 Score: 1761
Period size: 48 Copynumber: 23.0 Consensus size: 48
41401398 ATATACACAC
* *
41401408 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401456 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401504 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401554 AT-TCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
41401601 ATCTCATATATATATTTCACATTAGCCATTCGACTTTACCATATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401651 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401699 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41401749 ATCTCATACCTATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401797 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401847 ATCTCATACATATTTCACATTAGCCATTCGGGTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41401895 ATCTTATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATC-T-CATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41401945 ATCTCATACATATTTCACATTAGCCATTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41401993 ATCACATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41402041 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41402091 ATCTCATACATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41402139 ATCTCATATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41402191 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41402239 ATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41402287 ATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41402337 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41402385 ATCTCATATATATATATTTCACATTAGCCATTCGACTTTACCACATATACAT
1 ATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41402437 ATCTCATACATATTTCACATTAGACATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
41402485 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41402533 AT
1 AT
41402535 ATTTATCTTG
Statistics
Matches: 1001, Mismatches: 55, Indels: 46
0.91 0.05 0.04
Matches are distributed among these distances:
47 43 0.04
48 547 0.55
49 4 0.00
50 315 0.31
52 92 0.09
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:41401519 original size:98 final size:98
Alignment explanation
Indices: 41401417--41402534 Score: 1849
Period size: 98 Copynumber: 11.4 Consensus size: 98
41401407 CATCTCCTAC
* *
41401417 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
41401482 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
41401515 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT-TCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
41401579 TTCGACTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* * *
41401612 ATATTTCACATTAGCCATTCGACTTTACCATATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
41401677 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
41401710 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACCTATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
41401775 TTCGGCTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
41401808 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
41401873 TTCGGGTTTACCACATATACATATCTTATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
41401906 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* * *
41401971 TTCAGCTTTACCACATATACATA--TCACATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
* *
41402002 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
41402067 CATTCGGCTTTACCACATATACATATCTC--ATAC
64 CATTCGGCTTTACCACATATACATATCTCATATAT
* *
41402100 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATATATATATATTTCACATTA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC----ATACATATTTCACATTA
*
41402165 GCCATTCGGCTTTACCACATATACATATCTC--ATAC
62 GCCATTCGGCTTTACCACATATACATATCTCATATAT
*
41402200 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
41402265 TTCGGTTTTACCACATATACATATCTCATATAT
66 TTCGGCTTTACCACATATACATATCTCATATAT
41402298 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
41402363 TTCGGCTTTACCACATATACATATCTCATATATAT
66 TTCGGCTTTACCACATATACATATCTC--ATATAT
* *
41402398 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGACA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
41402463 TTCGGCTTTACCACATATACGTATCTC--ATAC
66 TTCGGCTTTACCACATATACATATCTCATATAT
* * *
41402494 ATATTTCACACTAGCCATTCGGCTTTACCACACATATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
41402535 ATTTATCTTG
Statistics
Matches: 970, Mismatches: 39, Indels: 24
0.94 0.04 0.02
Matches are distributed among these distances:
96 133 0.14
97 93 0.10
98 550 0.57
100 194 0.20
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (98 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATAT
Found at i:41401949 original size:246 final size:245
Alignment explanation
Indices: 41401417--41402534 Score: 1899
Period size: 246 Copynumber: 4.6 Consensus size: 245
41401407 CATCTCCTAC
* *
41401417 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
41401482 TTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACA
66 TTCGGCTTTACCACATATACATATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACA
* *
41401547 TATACATAT-TC--ATACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATA
129 TATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * * *
41401609 TATATATTTCACATTAGCCATTCGACTTTACCATATATACATATC--T-CATAC
192 TACATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTATATATAT
* *
41401660 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATTAGC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--ATACATATTTCACATTAGC
*
41401725 CATTCGGCTTTACCACATATACATATCTCATACCTATTTCACACTAGCCATTCGGCTTTACCACA
64 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
41401790 TATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
129 TATACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA
**
41401855 CATATTTCACATTAGCCATTCGGGTTTACCACATATACATATCT-TATATAT
194 CATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTATATATAT
41401906 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
41401971 TTCAGCTTTACCACATATACATATCACATACATATTTCACACTAGCCATTCGGCTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
41402036 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
131 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
41402101 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATATATAT
196 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCT-ATATATAT
41402152 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
41402217 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACATA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
41402282 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
131 TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
*
41402347 TATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
196 TATTTCACATTAGCCATTCGACTTTACCACATATACATATCT-ATATATAT
* *
41402398 ATATTTCACATTAGCCATTCGACTTTACCACATATACATATCTCATACATATTTCACATTAGACA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* *
41402463 TTCGGCTTTACCACATATACGTATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACA
66 TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
*
41402528 TATATAT
131 TACATAT
41402535 ATTTATCTTG
Statistics
Matches: 836, Mismatches: 30, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
243 86 0.10
244 231 0.28
245 47 0.06
246 472 0.56
ACGTcount: A:0.32, C:0.26, G:0.06, T:0.36
Consensus pattern (245 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATA
TACATATCTCATATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACA
TATTTCACATTAGCCATTCGACTTTACCACATATACATATCTATATATAT
Found at i:41408357 original size:9 final size:9
Alignment explanation
Indices: 41408343--41408382 Score: 80
Period size: 9 Copynumber: 4.4 Consensus size: 9
41408333 TTTGTTTATG
41408343 GCTTACTAA
1 GCTTACTAA
41408352 GCTTACTAA
1 GCTTACTAA
41408361 GCTTACTAA
1 GCTTACTAA
41408370 GCTTACTAA
1 GCTTACTAA
41408379 GCTT
1 GCTT
41408383 TTAAAGCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (9 bp):
GCTTACTAA
Found at i:41420630 original size:40 final size:40
Alignment explanation
Indices: 41420521--41420728 Score: 240
Period size: 40 Copynumber: 5.2 Consensus size: 40
41420511 TCTTCGGAAT
* * *
41420521 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * ** * *
41420560 TTAACCTGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * * *
41420600 TTAGCCCGAATATAA-CAACTCGCACGAATGCCTTCAGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
*
41420640 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
41420680 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
41420720 TTAGCCCGG
1 TTAGCCCGG
41420729 GTATCATTCA
Statistics
Matches: 140, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 3 0.02
40 136 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:41423954 original size:58 final size:59
Alignment explanation
Indices: 41423852--41423973 Score: 151
Period size: 58 Copynumber: 2.1 Consensus size: 59
41423842 ATATGAAAAA
41423852 GAAAAAAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCG-AATGTACTAAG
1 GAAAAAAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAAT-TACTAAG
* ** ***
41423911 GAAAGAAAAG-AAAAAAATTTGTTCATCCTT-TCTCATCTTCTTGGCCGAAATTACTAAG
1 GAAAAAAAAGAAAAAAAAAATGTTCATCCTTCTC-CATAGGCTTGGCCGAAATTACTAAG
41423969 GAAAA
1 GAAAA
41423974 GGGGGAGGAT
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
57 2 0.04
58 40 0.74
59 12 0.22
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.25
Consensus pattern (59 bp):
GAAAAAAAAGAAAAAAAAAATGTTCATCCTTCTCCATAGGCTTGGCCGAAATTACTAAG
Found at i:41425248 original size:40 final size:40
Alignment explanation
Indices: 41425162--41425328 Score: 144
Period size: 40 Copynumber: 4.2 Consensus size: 40
41425152 AAATTGAATG
* * ** *
41425162 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTG-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGTGACT
* * *
41425201 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
* * * *
41425241 ATGTCCGGGCTAAGGCCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGTGACT
* * *
41425281 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGA-GTGACT
41425321 ATATCCGG
1 ATATCCGG
41425329 TTATATTCCG
Statistics
Matches: 102, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
39 17 0.17
40 83 0.81
41 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGACT
Found at i:41431820 original size:40 final size:40
Alignment explanation
Indices: 41431771--41431938 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
41431761 TCTTCGGAAT
* * *
41431771 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
41431810 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * * *
41431850 TTAGCCCGGATATAACAACTCGCACGAATGCATTCGAGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
41431890 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
41431930 TTAGCCCGG
1 TTAGCCCGG
41431939 GTATCATTCA
Statistics
Matches: 103, Mismatches: 24, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
39 3 0.03
40 99 0.96
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:41431898 original size:80 final size:80
Alignment explanation
Indices: 41431762--41431938 Score: 196
Period size: 80 Copynumber: 2.2 Consensus size: 80
41431752 AACCGAGTTT
* * * * * * **
41431762 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCATTCGAGTCTTAACCCGGATATAAT
*
41431826 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* ** *
41431841 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCATTCGAGTCTTAGCCCGGATATAA
1 CTTCGGGACTTAGCCCGGATATAACAACAAGCAC-AATTGCATTCGAGTCTTAACCCGGATATAA
* *
41431905 TCACTAGCATAAATGC
65 TAACTAGCACAAATGC
41431921 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
41431939 GTATCATTCA
Statistics
Matches: 80, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 10 0.12
80 68 0.85
81 2 0.03
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACAAGCACAATTGCATTCGAGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:41439229 original size:23 final size:23
Alignment explanation
Indices: 41439176--41439241 Score: 89
Period size: 23 Copynumber: 2.9 Consensus size: 23
41439166 ATTTCATAAT
* *
41439176 ACTGGGCCA-AAGCCCTTTCAATA
1 ACTGGGGCATAAGCCCTTT-TATA
*
41439199 ACTAGGGCATAAGCCCTTTTATA
1 ACTGGGGCATAAGCCCTTTTATA
41439222 ACTGGGGCATAAGCCCTTTT
1 ACTGGGGCATAAGCCCTTTT
41439242 TCACTTCCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 29 0.76
24 9 0.24
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (23 bp):
ACTGGGGCATAAGCCCTTTTATA
Found at i:41439317 original size:20 final size:20
Alignment explanation
Indices: 41439292--41439351 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
41439282 TATGATTACC
41439292 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
41439312 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
41439332 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
41439352 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:41439426 original size:25 final size:25
Alignment explanation
Indices: 41439394--41439441 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41439384 ATACATAAAC
* * *
41439394 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41439419 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41439442 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41447208 original size:38 final size:38
Alignment explanation
Indices: 41447149--41447310 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
41447139 TCAATCATGC
*
41447149 ACTGGGCCGTAGCCCTTTTCATATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
41447188 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
41447226 ACTGGGCCGAAGCCTTTTCATATTTC--A--T-AT--T
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
*
41447257 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTC-TAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
41447294 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
41447311 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 4, Indels: 16
0.85 0.03 0.12
Matches are distributed among these distances:
31 26 0.23
33 3 0.03
34 1 0.01
35 2 0.02
36 1 0.01
37 18 0.16
38 50 0.45
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:41447214 original size:31 final size:31
Alignment explanation
Indices: 41447172--41447285 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
41447162 CCTTTTCATA
41447172 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
41447209 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
41447241 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
41447272 TTTCATGTTTCATA
1 TTTCATATTTCATA
41447286 TTTCTAATAC
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:41447283 original size:69 final size:68
Alignment explanation
Indices: 41447172--41447310 Score: 260
Period size: 69 Copynumber: 2.0 Consensus size: 68
41447162 CCTTTTCATA
41447172 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTC-TAATACTGGGCCGAA
41447237 GCCT
65 GCCT
*
41447241 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCTAATACTGGGCCGAAG
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCTAATACTGGGCCGAAG
41447306 CCT
66 CCT
41447309 TT
1 TT
41447311 ACTGTAAACG
Statistics
Matches: 69, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
68 21 0.30
69 48 0.70
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.40
Consensus pattern (68 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCTAATACTGGGCCGAAG
CCT
Found at i:41447548 original size:24 final size:24
Alignment explanation
Indices: 41447502--41447596 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
41447492 GCTTTATCAT
*
41447502 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
41447527 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
41447551 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
41447574 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
41447597 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:41447581 original size:47 final size:49
Alignment explanation
Indices: 41447502--41447595 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
41447492 GCTTTATCAT
*
41447502 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
41447551 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
41447596 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:41447672 original size:20 final size:20
Alignment explanation
Indices: 41447647--41447706 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
41447637 TATGATTACC
41447647 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
41447667 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
41447687 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
41447707 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:41447781 original size:25 final size:25
Alignment explanation
Indices: 41447749--41447796 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41447739 ATACATAAAC
* * *
41447749 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
41447774 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
41447797 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:41455106 original size:27 final size:27
Alignment explanation
Indices: 41455076--41455281 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
41455066 TTAGTTTATC
41455076 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
41455103 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
41455130 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
41455157 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
41455184 AAATTACCAAAATACCCTTGGTTTGCA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
41455211 AAATTATCAAAATACCCCTAGTTTGAA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
41455238 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGGTTTGTA
**
41455265 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
41455282 TCGACCTGTA
Statistics
Matches: 155, Mismatches: 24, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 155 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:41455295 original size:27 final size:27
Alignment explanation
Indices: 41455265--41455325 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
41455255 CTAATTTGTG
41455265 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
41455292 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
41455319 AAATTAC
1 AAATTAC
41455326 CAATGTACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:41455308 original size:81 final size:81
Alignment explanation
Indices: 41455076--41455282 Score: 297
Period size: 81 Copynumber: 2.6 Consensus size: 81
41455066 TTAGTTTATC
* * *
41455076 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGCAAAATTATCAAA
* *
41455141 ATACCCCTGGTTTGTA
66 ATACCCCTAGTTTGAA
* * * *
41455157 AAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCTTGGTTTGCAAAATTATCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGCAAAATTATCAAA
41455222 ATACCCCTAGTTTGAA
66 ATACCCCTAGTTTGAA
* * **
41455238 AAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCT
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCT
41455283 CGACCTGTAA
Statistics
Matches: 110, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 110 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGGTTTGCAAAATTATCAAA
ATACCCCTAGTTTGAA
Found at i:41455348 original size:27 final size:27
Alignment explanation
Indices: 41455304--41455379 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
41455294 ATTATTGAAA
* **
41455304 TACCCTCGACTTGTAAAATTACCAATG
1 TACCCTCGATTTACAAAATTACCAATG
** *
41455331 TACCC-CTGATTTACAAAATTACCGTTT
1 TACCCTC-GATTTACAAAATTACCAATG
41455358 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTAC
41455380 TGAAACACCC
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 39 0.95
28 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACCAATG
Found at i:41455411 original size:27 final size:27
Alignment explanation
Indices: 41455381--41455699 Score: 320
Period size: 27 Copynumber: 11.9 Consensus size: 27
41455371 CAAAATTACT
*
41455381 GAAACACCCTTGTAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
*
41455408 GAAATACCCTTATAGGGTAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
41455435 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* *
41455462 AAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
41455489 GAAATACCCCTATAGGATAGAAATACC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * *
41455516 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
41455543 AAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
*
41455570 GAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCCTTGTAGGGTAGAAATACC
* * * * *
41455597 GAAATACCCCTATAGGATAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
41455624 AAAATACCC-TGTAGGGTAGAATTACG
1 GAAATACCCTTGTAGGGTAGAAATACC
* * *
41455650 GAGATACCCTTGTGGGGTA-AAATTACG
1 GAAATACCCTTGTAGGGTAGAAA-TACC
* *
41455677 GAGATACCCTTGTGGGGTA-AAAT
1 GAAATACCCTTGTAGGGTAGAAAT
41455700 TACCATTTTA
Statistics
Matches: 252, Mismatches: 38, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.10
27 228 0.90
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAAATACC
Found at i:41456037 original size:67 final size:67
Alignment explanation
Indices: 41455929--41456078 Score: 255
Period size: 67 Copynumber: 2.2 Consensus size: 67
41455919 GAGGAAGCGT
* **
41455929 TCTGGCAGCCTAGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTCCTGGTGACTTCGTCACAA
41455994 TA
66 TA
*
41455996 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATATCTGTCCTGGTGACTTCGTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTCCTGGTGACTTCGTCACAA
41456061 TA
66 TA
*
41456063 TCTGGAAGCCTCGCTG
1 TCTGGCAGCCTCGCTG
41456079 TAATTTCTGT
Statistics
Matches: 78, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 78 1.00
ACGTcount: A:0.18, C:0.29, G:0.23, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTCCTGGTGACTTCGTCACAA
TA
Found at i:41456054 original size:27 final size:26
Alignment explanation
Indices: 41456016--41456066 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
41456006 TCGCTGCAAT
*
41456016 CTGGTGGCTTCGCCACATATATCTGTC
1 CTGGTGACTTCGCCACA-ATATCTGTC
*
41456043 CTGGTGACTTCGTCACAATATCTG
1 CTGGTGACTTCGCCACAATATCTG
41456067 GAAGCCTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.18, C:0.27, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGACTTCGCCACAATATCTGTC
Found at i:41456216 original size:6 final size:6
Alignment explanation
Indices: 41456185--41456272 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
41456175 TTGCATTCAC
* *
41456185 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
41456234 -TCACCTG ATTCTG ATTTTG ATTCTG ATTCT- AGTTCTG AT
1 AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
41456273 AATGTTTCTT
Statistics
Matches: 66, Mismatches: 8, Indels: 16
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.06
6 53 0.80
7 7 0.11
8 2 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:41456220 original size:31 final size:31
Alignment explanation
Indices: 41456185--41456263 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
41456175 TTGCATTCAC
* *
41456185 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
41456216 ATTCTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTGTCACCTGATACTG
*
41456247 ATTTTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
41456264 AGTTCTGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTCACCTGATACTG
Found at i:41456272 original size:18 final size:18
Alignment explanation
Indices: 41456185--41456272 Score: 74
Period size: 19 Copynumber: 4.8 Consensus size: 18
41456175 TTGCATTCAC
*
41456185 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
*
41456203 -TTACCTGATACTGATTCTG
1 ATT--CTGATTCTGATTCTG
*
41456222 ATTCTGATTCTG-TCACCTG
1 ATTCTGATTCTGAT--TCTG
*
41456241 ATTCTGATTTTGATTCTG
1 ATTCTGATTCTGATTCTG
41456259 ATTCT-AGTTCTGAT
1 ATTCTGA-TTCTGAT
41456273 AATGTTTCTT
Statistics
Matches: 56, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
17 4 0.07
18 22 0.39
19 27 0.48
20 3 0.05
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTG
Found at i:41472909 original size:27 final size:27
Alignment explanation
Indices: 41472844--41473022 Score: 263
Period size: 27 Copynumber: 6.7 Consensus size: 27
41472834 TTTGGTTTAC
41472844 AAAATTACCAAAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
41472870 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
41472897 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
41472924 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
41472951 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
41472978 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
41473005 GAAATTACTAAAATACCC
1 AAAATTACCAAAATACCC
41473023 TCGACCTGTA
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
26 14 0.10
27 124 0.89
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:41473036 original size:27 final size:27
Alignment explanation
Indices: 41472844--41473120 Score: 258
Period size: 27 Copynumber: 10.3 Consensus size: 27
41472834 TTTGGTTTAC
*
41472844 AAAATTACCAAAATACCCT-GCTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * *
41472870 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
41472897 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
41472924 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
41472951 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
41472978 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* * **
41473005 GAAATTACTAAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*** *
41473032 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
41473059 AAAATTACCAAAGTACCCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* ****
41473086 AGAATTACCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
41473113 AAAATTAC
1 AAAATTAC
41473121 TGTTTTACCC
Statistics
Matches: 214, Mismatches: 33, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
26 18 0.08
27 194 0.91
28 2 0.01
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:41473344 original size:106 final size:108
Alignment explanation
Indices: 41473045--41473574 Score: 586
Period size: 106 Copynumber: 5.0 Consensus size: 108
41473035 ATTATTGAAA
* *** * *
41473045 TACCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTTATAGAATTACCGTTTTACCCTC-GAT
1 TACCCTCGA-TTTTAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGAT
** * * *
41473109 TTGTAAAATTACTGTTTTACCCTC-AGTTTACAGAATTACTATTT
65 TTACAGAATTACTATTTTACCCTCGA-TTTACAGAATTACCATTT
* * *
41473153 TACCCTCGA-TTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTATTGTTTTACCCT-TG
1 TACCCTCGATTTTA-A-AATTACCATTTTACCCTCGA-TTTACAGAATTATCGTTTTACCCTCAG
* *
41473215 ATTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
63 ATTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
*
41473261 TACCCTCGATTTGTAAAATTA-CGTTTTACCCTCGATTTACA-AATTATCGTTTTACCCTCAG-T
1 TACCCTCGATTT-TAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGAT
* *
41473323 TTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCGTTT
65 TTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
* * * *
41473367 TACCC-CTAATTTACATAATTACCATTTTACCC-AGATTTACATAATTATCGTTTTACCCTC-GA
1 TACCCTCGATTTTA-A-AATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGA
*
41473429 TTTACAGAATTA-TCGTTTTACCCTCGATTTACAGAATTACCATTT
64 TTTACAGAATTACT-ATTTTACCCTCGATTTACAGAATTACCATTT
* * * * *
41473474 TACCCTCGA-TTTAGAATTACTATTTTACCCTTGATTTACAAAATTA-CTGTTTTACCCT-TGAT
1 TACCCTCGATTTTAAAATTACCATTTTACCCTCGATTTACAGAATTATC-GTTTTACCCTCAGAT
* *
41473536 TTACAAAATTACTATTTTACCCTCGATTTACAAAATTAC
65 TTACAGAATTACTATTTTACCCTCGATTTACAGAATTAC
41473575 TAAAATACCC
Statistics
Matches: 370, Mismatches: 32, Indels: 42
0.83 0.07 0.09
Matches are distributed among these distances:
104 2 0.01
105 21 0.06
106 144 0.39
107 98 0.26
108 99 0.27
109 4 0.01
110 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (108 bp):
TACCCTCGATTTTAAAATTACCATTTTACCCTCGATTTACAGAATTATCGTTTTACCCTCAGATT
TACAGAATTACTATTTTACCCTCGATTTACAGAATTACCATTT
Found at i:41473576 original size:27 final size:27
Alignment explanation
Indices: 41473072--41473575 Score: 564
Period size: 27 Copynumber: 18.9 Consensus size: 27
41473062 ATTACCAAAG
* *
41473072 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
** *
41473099 TACCCTCGATTTGTAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
41473126 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACTGTTT
*
41473153 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
41473180 TACCCTC-AGTTTACAGAATTATTGTTT
1 TACCCTCGA-TTTACAGAATTACTGTTT
* *
41473207 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
41473234 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
** *
41473261 TACCCTCGATTTGTAAAATTAC-GTTT
1 TACCCTCGATTTACAGAATTACTGTTT
41473287 TACCCTCGATTTACA-AATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
41473313 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACTGTTT
* *
41473340 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * **
41473367 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACTGTTT
* *
41473394 TACCC-AGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
41473420 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
**
41473447 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
41473474 TACCCTCGATTT--AGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
41473499 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
41473526 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
41473553 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
41473576 AAAATACCCT
Statistics
Matches: 417, Mismatches: 44, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
25 29 0.07
26 58 0.14
27 326 0.78
28 4 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:41474838 original size:25 final size:25
Alignment explanation
Indices: 41474808--41474855 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41474798 CTTATACATG
* * *
41474808 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41474833 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41474856 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41474958 original size:20 final size:20
Alignment explanation
Indices: 41474898--41474958 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41474888 ATAAATATGG
*
41474898 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
41474918 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41474938 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41474958 T
1 T
41474959 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:41475035 original size:24 final size:24
Alignment explanation
Indices: 41475008--41475150 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
41474998 GAGGAAGTGA
41475008 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41475032 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41475056 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41475079 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
41475103 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
41475127 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41475151 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:41475101 original size:47 final size:47
Alignment explanation
Indices: 41475008--41475150 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
41474998 GAGGAAGTGA
41475008 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
41475056 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
41475103 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
41475151 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:41475124 original size:71 final size:72
Alignment explanation
Indices: 41475008--41475151 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
41474998 GAGGAAGTGA
*
41475008 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
41475071 CCAGTTAT
65 CCAGTTAT
** * *
41475079 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
41475144 CAGTTAT
66 CAGTTAT
41475151 A
1 A
41475152 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:41475375 original size:31 final size:31
Alignment explanation
Indices: 41475340--41475403 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41475330 CGTTTACAGT
*
41475340 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41475371 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41475402 AA
1 AA
41475404 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41478227 original size:26 final size:26
Alignment explanation
Indices: 41478187--41478334 Score: 176
Period size: 27 Copynumber: 5.6 Consensus size: 26
41478177 TTTGGTTTAC
*
41478187 AAATTACCAAATA-CCCT-GCTTTGTA
1 AAATTACAAAATACCCCTAG-TTTGTA
* * *
41478212 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTAC-AAAATACCCCTAGTTTGTA
*
41478239 AAATTACCAAATACCCCTAGTTTGT-
1 AAATTACAAAATACCCCTAGTTTGTA
41478264 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTA-CAAAATACCCCTAGTTTGTA
41478291 AAATTATCAAAATACCCCTAGTTTGTGA
1 AAATTA-CAAAATACCCCTAGTTTGT-A
41478319 AAATTACCAAAATACC
1 AAATTA-CAAAATACC
41478335 TCCCTAAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
25 13 0.12
26 37 0.35
27 40 0.37
28 17 0.16
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (26 bp):
AAATTACAAAATACCCCTAGTTTGTA
Found at i:41478246 original size:52 final size:53
Alignment explanation
Indices: 41478170--41478334 Score: 205
Period size: 52 Copynumber: 3.2 Consensus size: 53
41478160 ATCCATGTTT
* * *
41478170 AAAATA-CTTTGGTTTA-CAAATTACCAAATA-CCCT-GCTTTGTAAAATTACT
1 AAAATACCCTTGGTTTATAAAATTACCAAATACCCCTAG-TTTGTAAAATTACC
41478220 AAAATACCCTTGGTTTATAAAATTACCAAATACCCCTAGTTTGT-AAATTACC
1 AAAATACCCTTGGTTTATAAAATTACCAAATACCCCTAGTTTGTAAAATTACC
* * * *
41478272 AAAATACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTGAAAATTACC
1 AAAATACCCTTGGTTTATAAAATTA-CCAAATACCCCTAGTTTGT-AAAATTACC
41478327 AAAATACC
1 AAAATACC
41478335 TCCCTAAAAT
Statistics
Matches: 101, Mismatches: 7, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
50 6 0.06
51 9 0.09
52 42 0.42
53 27 0.27
54 1 0.01
55 16 0.16
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.32
Consensus pattern (53 bp):
AAAATACCCTTGGTTTATAAAATTACCAAATACCCCTAGTTTGTAAAATTACC
Found at i:41478383 original size:27 final size:27
Alignment explanation
Indices: 41478187--41478428 Score: 166
Period size: 27 Copynumber: 9.3 Consensus size: 27
41478177 TTTGGTTTAC
*
41478187 AAATTACC-AAATACCCT-GCTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * * *
41478212 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*
41478239 AAATTACC-AAATACCC-CTAGTTTGT-
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
41478264 AAATTACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
41478291 AAATTATCAAAATACCC-CTAGTTTGTGA
1 AAATTACCAAAATACCCTCGA-TTTGT-A
**
41478319 AAATTACCAAAATA-CCTC----CCTA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
41478341 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
41478368 AAATTACCAAAGTACCCTCGATTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* ****
41478395 GAATTACCGTTTTACCCTCGATTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
41478422 AAATTAC
1 AAATTAC
41478429 TGTTTTACCC
Statistics
Matches: 175, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
22 12 0.07
23 5 0.03
25 15 0.09
26 38 0.22
27 90 0.51
28 15 0.09
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:41478413 original size:54 final size:54
Alignment explanation
Indices: 41478380--41478883 Score: 610
Period size: 54 Copynumber: 9.4 Consensus size: 54
41478370 ATTACCAAAG
* ** * *
41478380 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
**
41478434 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
** * *
41478488 TACCCTC-AGTTTACAGAATTATTGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* ** *
41478542 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
**
41478595 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCGTTT
* * * *
41478649 TACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTC-GATTTACAGAATTACCGTTT
* * *
41478703 TACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * **
41478756 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
* * * * *
41478810 TACCCTTGATTTACA-AATTACTGTTTTACCCTTGATTTACAAAATTA-CTTTT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
*
41478862 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
41478884 TAAAATACCC
Statistics
Matches: 390, Mismatches: 51, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
52 18 0.05
53 125 0.32
54 245 0.63
55 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTTT
Found at i:41478433 original size:27 final size:27
Alignment explanation
Indices: 41478380--41478884 Score: 472
Period size: 27 Copynumber: 18.9 Consensus size: 27
41478370 ATTACCAAAG
* *
41478380 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
41478407 TACCCTCGATTTGTAAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
41478434 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAAAATTACTGTTT
* * *
41478461 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
41478488 TACCCTC-AGTTTACAGAATTATTGTTT
1 TACCCTCGA-TTTATAAAATTACTGTTT
* * *
41478515 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
41478542 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
41478569 TACCCTCGATTTGTAAAATTAC-GTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
41478595 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * *
41478622 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTATAAAATTACTGTTT
* *
41478649 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* * * **
41478676 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTATAAAATTACTGTTT
* *
41478703 TACCC-CGATTTACATAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* *
41478729 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTATAAAATTACT-GTTT
* * **
41478756 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
41478783 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
41478810 TACCCTTGATTTA-CAAATTACTGTTT
1 TACCCTCGATTTATAAAATTACTGTTT
* *
41478836 TACCCTTGATTTACAAAATTACT-TTT
1 TACCCTCGATTTATAAAATTACTGTTT
*
41478862 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTATAAAATTACT
41478885 AAAATACCCT
Statistics
Matches: 422, Mismatches: 44, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
26 96 0.23
27 323 0.77
28 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGTTT
Found at i:41478653 original size:134 final size:133
Alignment explanation
Indices: 41478380--41478883 Score: 685
Period size: 134 Copynumber: 3.8 Consensus size: 133
41478370 ATTACCAAAG
*
41478380 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTGTA-AAATTACTGTTTTACCCTC-AG
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGA-TT-TACAAATTACCGTTTTACCCTCGA-
* *
41478443 TTTACAGAATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATT
63 TTTACAAAATTAC-GTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATT
* *
41478508 ATTGTTT
127 ACTATTT
* * * *
41478515 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACA-AATTACCGTTTTACCCTCGATT
**
41478580 TGTAAAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACT
65 TACAAAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACT
41478645 ATTT
130 ATTT
* *
41478649 TACCCTCGATTTATAGAATTACCGTTTTACCC-CTAATTTACATAATTACCATTTTACCC-CGAT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTC-GATTTACA-AATTACCGTTTTACCCTCGAT
* *
41478712 TTACATAATTATCGTTTTACCCTCGATTTACAGAATTATCGTTTTACCCTC-GATTTACAGAATT
64 TTACAAAATTA-CGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAG-TTTACAGAATT
*
41478776 ACCATTT
127 ACTATTT
** * * *
41478783 TACCCTCGATTTATAGAATTACTATTTTACCCTTGATTTACAAATTACTGTTTTACCCTTGATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAATTACCGTTTTACCCTCGATTT
* *
41478848 ACAAAATTACTTTTTACCCTCGATTTACAAAATTAC
66 ACAAAATTACGTTTTACCCTCGATTTACAGAATTAC
41478884 TAAAATACCC
Statistics
Matches: 328, Mismatches: 33, Indels: 18
0.87 0.09 0.05
Matches are distributed among these distances:
133 54 0.16
134 213 0.65
135 60 0.18
136 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (133 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTACAAATTACCGTTTTACCCTCGATTT
ACAAAATTACGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAGAATTACTA
TTT
Found at i:41480147 original size:25 final size:25
Alignment explanation
Indices: 41480118--41480165 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41480108 CCTTATAATG
* * *
41480118 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41480143 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41480166 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41480268 original size:20 final size:20
Alignment explanation
Indices: 41480208--41480268 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41480198 ATAAATATGG
*
41480208 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
41480228 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41480248 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41480268 T
1 T
41480269 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:41480345 original size:24 final size:24
Alignment explanation
Indices: 41480318--41480460 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
41480308 GAGGAAGTGA
41480318 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41480342 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41480366 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41480389 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
41480413 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
41480437 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41480461 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:41480411 original size:47 final size:47
Alignment explanation
Indices: 41480318--41480460 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
41480308 GAGGAAGTGA
41480318 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
41480366 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
41480413 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
41480461 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:41480434 original size:71 final size:72
Alignment explanation
Indices: 41480318--41480461 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
41480308 GAGGAAGTGA
*
41480318 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
41480381 CCAGTTAT
65 CCAGTTAT
** * *
41480389 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
41480454 CAGTTAT
66 CAGTTAT
41480461 A
1 A
41480462 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:41480686 original size:30 final size:31
Alignment explanation
Indices: 41480652--41480714 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
41480642 CGTTTACAGT
41480652 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41480682 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41480713 AA
1 AA
41480715 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41483573 original size:27 final size:27
Alignment explanation
Indices: 41483503--41483678 Score: 236
Period size: 27 Copynumber: 6.7 Consensus size: 27
41483493 CTTTGTTTAC
41483503 AAAATTACC-AAATA-CCCT-GCTTTGT
1 AAAATTACCAAAATACCCCTAG-TTTGT
* * * *
41483528 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAGTTTGT
41483555 -AAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
41483581 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
41483608 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
*
41483635 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTAGTTTGT
* *
41483662 GAAATTA-CTAAATACCC
1 AAAATTACCAAAATACCC
41483679 TCGACCTGTA
Statistics
Matches: 135, Mismatches: 12, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
25 8 0.06
26 36 0.27
27 90 0.67
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAGTTTGT
Found at i:41483689 original size:80 final size:80
Alignment explanation
Indices: 41483503--41483732 Score: 238
Period size: 80 Copynumber: 2.9 Consensus size: 80
41483493 CTTTGTTTAC
* * * *
41483503 AAAATTACCAAATACCCT-G-CTTTGTAAAATTA-CTAAAATACCCTTGGTTTAT-AAATTACCA
1 AAAATTACAAAATACCCTCGAC-TTGTAAAATTATC-AAAATACCCCTAGTTTGTAAAATTACCA
*
41483564 AAATACCCCTAGTTTGT
64 AAATACCCCTAATTTGT
* *
41483581 AAAATTACCAAAATACCC-CTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAAATTA-CAAAATACCCTCGA-CTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCA
41483645 AAATACCCCTAATTTGT
64 AAATACCCCTAATTTGT
* * * ** * *
41483662 GAAATTACTAAATACCCTCGACCTGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAA
1 AAAATTACAAAATACCCTCGACTTGTAAAATTATCAAAATACCCCTAG-TTTGTAAAATTACCAA
*
41483726 AGTACCC
65 AATACCC
41483733 TCGATTTATA
Statistics
Matches: 127, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
78 7 0.06
79 14 0.11
80 72 0.57
81 34 0.27
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTACAAAATACCCTCGACTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTACCAAA
ATACCCCTAATTTGT
Found at i:41483702 original size:53 final size:54
Alignment explanation
Indices: 41483525--41483736 Score: 173
Period size: 54 Copynumber: 3.9 Consensus size: 54
41483515 TACCCTGCTT
* * ** * * **
41483525 TGTAAAATTACTAAAATACCCTTGGTTTAT-AAATTACCAAAATACCC-CTAGTT
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTA-CAAAATACCCTCGAGCC
* * **
41483578 TGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTATCAAAATACCC-CTAGTT
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTA-CAAAATACCCTCGAGCC
* *
41483632 TGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTAAATACCCTCGA-CC
1 TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACAAAATACCCTCGAGCC
*** * * *
41483685 TGTAAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTCGA
1 TGTAAAATTACCAAAATACCCCT-AATTTGTAAAATTA-CAAAATACCCTCGA
41483737 TTTATAGAAT
Statistics
Matches: 136, Mismatches: 19, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
52 4 0.03
53 61 0.45
54 71 0.52
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
TGTAAAATTACCAAAATACCCCTAATTTGTAAAATTACAAAATACCCTCGAGCC
Found at i:41483704 original size:27 final size:26
Alignment explanation
Indices: 41483663--41483736 Score: 103
Period size: 27 Copynumber: 2.8 Consensus size: 26
41483653 CTAATTTGTG
41483663 AAATTACTAAATACCCTCGACCTGTA
1 AAATTACTAAATACCCTCGACCTGTA
* *
41483689 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACT-AAATACCCTCGACCTGTA
*
41483716 AAATTACCAAAGTACCCTCGA
1 AAATTACTAAA-TACCCTCGA
41483737 TTTATAGAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 10 0.24
27 32 0.76
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.27
Consensus pattern (26 bp):
AAATTACTAAATACCCTCGACCTGTA
Found at i:41483758 original size:27 final size:27
Alignment explanation
Indices: 41483728--41484234 Score: 594
Period size: 27 Copynumber: 18.8 Consensus size: 27
41483718 ATTACCAAAG
*
41483728 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * *
41483755 TACCCTCGATTTGTAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
41483782 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
41483809 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
41483836 TACCCTC-AGTTTACAGAATTATTGTTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
* *
41483863 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
41483890 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
41483917 TACCCTCGATTTGTAAAATTA-CGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
41483943 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
**
41483970 TACCCTC-AGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
41483997 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
41484024 TACCC-CTAATTTACATAATTACCATTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* *
41484051 TACCC-CAGATTTACATAATTATCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
*
41484078 TACCCTCGATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
41484105 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
41484132 TACCCTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
41484159 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * **
41484186 TACCCTTGATTTACAAAATTACTATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
41484213 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
41484235 TAAAATACCC
Statistics
Matches: 425, Mismatches: 46, Indels: 18
0.87 0.09 0.04
Matches are distributed among these distances:
26 27 0.06
27 394 0.93
28 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:41484271 original size:81 final size:81
Alignment explanation
Indices: 41483863--41484278 Score: 223
Period size: 81 Copynumber: 5.1 Consensus size: 81
41483853 ATTATTGTTT
* * ** * * ***** *
41483863 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
** ***
41483928 TGTAAAATTA-CGTTT
66 TACAAAATTACCGCAA
* * * * *** *
41483943 TACCCTCGATTTACAGAATTATCGTTTTACCCTC-AGTTTACAGAATTACTATTTTACCCTCGAT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGA-TTTACAAAATTACTAAAATACCCTTGAT
* * ***
41484007 TTATAGAATTACCGTTT
65 TTACAAAATTACCGCAA
* * * ** *
41484024 TACCC-CTAATTTACATAATTACCATTTTACCC-CAGATTTACATAATTATCGT--TTTACCCTC
1 TACCCTC-GATTTACAAAATTACCATTTTACCCTC-GATTTACAAAATTA-C-TAAAATACCCTT
* * ***
41484085 GATTTACAGAATTATCGTTT
62 GATTTACAAAATTACCGCAA
* * * ***
41484105 TACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
* ***
41484170 TACAAAATTACTGTTT
66 TACAAAATTACCGCAA
* * *
41484186 TACCCTTGATTTACAAAATTACTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
***
41484251 TGTGAAATTACCGCAA
66 TACAAAATTACCGCAA
*
41484267 TACCCTCAATTT
1 TACCCTCGATTT
41484279 GTAAAACTAC
Statistics
Matches: 284, Mismatches: 41, Indels: 21
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 68 0.24
81 209 0.74
82 4 0.01
83 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGATT
TACAAAATTACCGCAA
Found at i:41485500 original size:25 final size:25
Alignment explanation
Indices: 41485472--41485519 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
41485462 TTATACCATG
* * *
41485472 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
41485497 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
41485520 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:41485622 original size:20 final size:20
Alignment explanation
Indices: 41485562--41485622 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
41485552 ATAAATATGG
*
41485562 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
41485582 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41485602 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
41485622 T
1 T
41485623 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:41485699 original size:24 final size:24
Alignment explanation
Indices: 41485672--41485813 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
41485662 GAGGAAGTGA
41485672 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41485696 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
41485720 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
41485743 AAAAGGGCTTATG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
41485766 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
41485790 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
41485814 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 9 0.08
23 24 0.22
24 65 0.60
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:41485786 original size:70 final size:72
Alignment explanation
Indices: 41485672--41485814 Score: 211
Period size: 70 Copynumber: 2.0 Consensus size: 72
41485662 GAGGAAGTGA
*
41485672 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
41485735 CCAGTTAT
65 CCAGTTAT
** * *
41485743 AAAAGGGCTTATG-CCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
41485807 CAGTTAT
66 CAGTTAT
41485814 A
1 A
41485815 TGATAAAGCA
Statistics
Matches: 65, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
70 40 0.62
71 25 0.38
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:41486040 original size:31 final size:31
Alignment explanation
Indices: 41486005--41486068 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
41485995 CGTTTACAGT
*
41486005 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
41486036 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
41486067 AA
1 AA
41486069 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:41487653 original size:48 final size:48
Alignment explanation
Indices: 41487571--41487738 Score: 169
Period size: 48 Copynumber: 3.5 Consensus size: 48
41487561 GGTACCAATT
* * * *
41487571 CCATGTCCCCGACAGGGTCTTACATGAATC-CACATATCATCGTCGATG
1 CCATGTCCCAGACATGGTCTTACA-CAAGCACACATATCATCGTCGATG
** * ** * *
41487619 CCATGTTACAGACATGTTCTTACACTGGCTCACATATCATC-ACTGATG
1 CCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGTC-GATG
* * *
41487667 CCATGTCCCAGACATGGTCTTACAGAAGCACATATATCATTGTCGATG
1 CCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGTCGATG
*
41487715 CCATGTCCCAGACATGGCCTTACA
1 CCATGTCCCAGACATGGTCTTACA
41487739 TATAATCTCA
Statistics
Matches: 96, Mismatches: 21, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
47 2 0.02
48 93 0.97
49 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (48 bp):
CCATGTCCCAGACATGGTCTTACACAAGCACACATATCATCGTCGATG
Found at i:41492158 original size:40 final size:40
Alignment explanation
Indices: 41492102--41492349 Score: 338
Period size: 40 Copynumber: 6.2 Consensus size: 40
41492092 TGAATGATAC
* * * *
41492102 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
41492142 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
41492182 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
41492222 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
41492262 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTACAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
41492302 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
41492342 CC-GGCTAA
1 CCGGGCTAA
41492350 ATTCCGAAGA
Statistics
Matches: 185, Mismatches: 22, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
39 5 0.03
40 178 0.96
41 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:41492315 original size:120 final size:120
Alignment explanation
Indices: 41492102--41492349 Score: 374
Period size: 120 Copynumber: 2.1 Consensus size: 120
41492092 TGAATGATAC
* * *
41492102 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATCATATTCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATCATATCCGGGCTAAGACCCGAAGGCATTTG
* * * *
41492167 TGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
66 TGCGAGTTGCTACACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGGTTATAT
* *
41492222 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAG-TGATCATATCCGGGCTAAGACCCGAAGGCATTT
**
41492286 GTGCGAGTTGCTACACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
65 GTGCGAGTTGCTACACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGGTTATAT
41492342 CC-GGCTAA
1 CCGGGCTAA
41492350 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 11, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
119 6 0.05
120 108 0.93
121 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (120 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTGATCATATCCGGGCTAAGACCCGAAGGCATTTG
TGCGAGTTGCTACACCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGGTTATAT
Found at i:41499392 original size:40 final size:40
Alignment explanation
Indices: 41499337--41499604 Score: 412
Period size: 40 Copynumber: 6.7 Consensus size: 40
41499327 TGAATGATAC
* * * *
41499337 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT-ATAT
41499377 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
41499417 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
41499457 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
*
41499497 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
41499537 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
41499577 CCGGGTTAAGACCCGAAGGCAATTGTGC
1 CCGGGCTAAGACCCGAAGGCATTTGTGC
41499605 TTGTGGTTAT
Statistics
Matches: 216, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
40 213 0.99
41 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:41499550 original size:120 final size:120
Alignment explanation
Indices: 41499333--41499624 Score: 462
Period size: 120 Copynumber: 2.4 Consensus size: 120
41499323 CATTTGAATG
* * *
41499333 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATCATATCCGGGCTAAGACCCGAAGGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGC
* *
41499397 ATTTGTGCGAGTTGCTATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTT
65 ATTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* *
41499453 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
41499518 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
66 TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
* * * *
41499573 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAA
41499625 ATTCCGAAGA
Statistics
Matches: 158, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
119 6 0.04
120 150 0.95
121 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (120 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCA
TTTGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGCT
Found at i:41502090 original size:26 final size:26
Alignment explanation
Indices: 41502061--41502112 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
41502051 GAAACATATA
41502061 AGTTAGTTCAATTCCATCACCCTAGT
1 AGTTAGTTCAATTCCATCACCCTAGT
41502087 AGTTAGTTCAATTCCATCACCCTAGT
1 AGTTAGTTCAATTCCATCACCCTAGT
41502113 GATCTGCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (26 bp):
AGTTAGTTCAATTCCATCACCCTAGT
Found at i:41504945 original size:34 final size:34
Alignment explanation
Indices: 41504903--41504977 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
41504893 TTAACGAAAG
41504903 ATAAATAAAAGAAAAGATAGGAGAATGCTCATGA
1 ATAAATAAAAGAAAAGATAGGAGAATGCTCATGA
* *
41504937 ATAAATAAAAGAAGAGGTAGGAGAATGCTCATGA
1 ATAAATAAAAGAAAAGATAGGAGAATGCTCATGA
41504971 ATAAATA
1 ATAAATA
41504978 TATTGAAGCG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.55, C:0.05, G:0.21, T:0.19
Consensus pattern (34 bp):
ATAAATAAAAGAAAAGATAGGAGAATGCTCATGA
Found at i:41508814 original size:17 final size:17
Alignment explanation
Indices: 41508792--41508826 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
41508782 ATTACTTTAC
41508792 CTTTTTGCATCAAAACA
1 CTTTTTGCATCAAAACA
*
41508809 CTTTTTGCATCAATACA
1 CTTTTTGCATCAAAACA
41508826 C
1 C
41508827 AACCTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (17 bp):
CTTTTTGCATCAAAACA
Found at i:41512181 original size:42 final size:43
Alignment explanation
Indices: 41512134--41512235 Score: 111
Period size: 42 Copynumber: 2.4 Consensus size: 43
41512124 GTGCAAGTTT
* *** *
41512134 CACACGGCCAAGACACACA-CCCGTGTTTTAGGTTGTGTATCA
1 CACACGGCCAAGACACACAGCCCATGTGCCAGGCTGTGTATCA
*
41512176 CACACGGCCAA-AC-CACATGCCCATGTGCCAGGCTGTTTATCA
1 CACACGGCCAAGACACACA-GCCCATGTGCCAGGCTGTGTATCA
*
41512218 CACACGGTCAAGACACAC
1 CACACGGCCAAGACACAC
41512236 GCTTGTGTGT
Statistics
Matches: 49, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
40 4 0.08
41 2 0.04
42 38 0.78
43 2 0.04
44 3 0.06
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.19
Consensus pattern (43 bp):
CACACGGCCAAGACACACAGCCCATGTGCCAGGCTGTGTATCA
Found at i:41525679 original size:49 final size:50
Alignment explanation
Indices: 41525586--41525713 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 50
41525576 ACATCAAAGT
* * * *
41525586 CAATGCCATGTGCTAGAAAGGTCTTACAC-TGACTTTCATATATCGAG-GC
1 CAATGCCATGTCCCAGACAGGTCTTACACTTGACTCTCATATATCG-GTGC
* ** * *
41525635 CGATGTTATGTCCCAGACAGGTCTTACACTTG-CTCTCATCTATCGGTGT
1 CAATGCCATGTCCCAGACAGGTCTTACACTTGACTCTCATATATCGGTGC
41525684 CAATGCCATGTCCCAGACAGGTCTTACACT
1 CAATGCCATGTCCCAGACAGGTCTTACACT
41525714 GACACACAAC
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
48 1 0.02
49 62 0.95
50 2 0.03
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.30
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACAGGTCTTACACTTGACTCTCATATATCGGTGC
Found at i:41527173 original size:29 final size:28
Alignment explanation
Indices: 41527141--41527243 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
41527131 GTGACGAGAT
* *
41527141 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
41527170 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
41527199 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
41527228 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
41527244 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:41549815 original size:25 final size:25
Alignment explanation
Indices: 41549781--41549845 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
41549771 GATACAGAGA
*
41549781 AAATTCTCACACAAGCTATGACGGC
1 AAATGCTCACACAAGCTATGACGGC
* * *
41549806 AAATGCTCACACGAGCTATGACTGT
1 AAATGCTCACACAAGCTATGACGGC
41549831 AAATGCTCACACAAG
1 AAATGCTCACACAAG
41549846 TTGTGAAATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.17, T:0.20
Consensus pattern (25 bp):
AAATGCTCACACAAGCTATGACGGC
Found at i:41556133 original size:23 final size:23
Alignment explanation
Indices: 41556107--41556150 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
41556097 AGTGGTTTGG
*
41556107 TTTGAGATGATGATAT-GATGAGT
1 TTTGAGAT-ATGAAATAGATGAGT
*
41556130 TTTGTGATATGAAATAGATGA
1 TTTGAGATATGAAATAGATGA
41556151 TATTATGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.34, C:0.00, G:0.27, T:0.39
Consensus pattern (23 bp):
TTTGAGATATGAAATAGATGAGT
Found at i:41556174 original size:34 final size:34
Alignment explanation
Indices: 41556111--41556179 Score: 79
Period size: 34 Copynumber: 2.0 Consensus size: 34
41556101 GTTTGGTTTG
* *
41556111 AGATGATGATATGATGAGTTTTGTGATATGAAAT
1 AGATGATGATATGATGAGATTAGTGATATGAAAT
*
41556145 AGATGAT-ATTATGATGA-ATTAGTGAATATGGAAT
1 AGATGATGA-TATGATGAGATTAGTG-ATATGAAAT
41556179 A
1 A
41556180 TATGCAAGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
33 6 0.20
34 24 0.80
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (34 bp):
AGATGATGATATGATGAGATTAGTGATATGAAAT
Found at i:41557836 original size:13 final size:15
Alignment explanation
Indices: 41557807--41557838 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
41557797 GAGAAAAGCT
41557807 GATTCAGAGGCAAGA
1 GATTCAGAGGCAAGA
41557822 GATTC-GAGG-AAGA
1 GATTCAGAGGCAAGA
41557835 GATT
1 GATT
41557839 GATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.38, C:0.09, G:0.34, T:0.19
Consensus pattern (15 bp):
GATTCAGAGGCAAGA
Found at i:41567006 original size:20 final size:20
Alignment explanation
Indices: 41566983--41567057 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
41566973 TGAACAAGGA
* *
41566983 CACCGAAGTGTATATAGAGG
1 CACCGAAGTGCAAATAGAGG
41567003 CACCGAAGTGCAAATAGAGG
1 CACCGAAGTGCAAATAGAGG
* *
41567023 CACCGCAGTGCAAACAGAGG
1 CACCGAAGTGCAAATAGAGG
41567043 CACCGAAGTGCAAAT
1 CACCGAAGTGCAAAT
41567058 CCCGTACAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.37, C:0.23, G:0.28, T:0.12
Consensus pattern (20 bp):
CACCGAAGTGCAAATAGAGG
Found at i:41572511 original size:37 final size:36
Alignment explanation
Indices: 41572461--41572547 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
41572451 TACGAAGTCT
41572461 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
41572497 GTACCCGGACATAATCTCCACACGTAGTCATCGGGTC
1 -TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
41572534 TCACCCGGAACATA
1 T-ACCCGG-ACATA
41572548 TTTCCAAGTT
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 42 0.88
38 5 0.10
ACGTcount: A:0.26, C:0.33, G:0.20, T:0.21
Consensus pattern (36 bp):
TACCCGGACATAATCTCCACACGTAGTCATCGGGTC
Found at i:41572664 original size:49 final size:49
Alignment explanation
Indices: 41572596--41572936 Score: 547
Period size: 49 Copynumber: 7.0 Consensus size: 49
41572586 ATTCACATTA
* * * *
41572596 GCCATTCGGCTTTACCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
41572645 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* *
41572694 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
41572743 GCCATTAGGCCTTATCACATATACATATACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* * *
41572792 GCCATTAGGCCTTATCACATATACATACATTTTCGCATTCATCGCATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
* * *
41572841 GCCATTAGGCCTCATCACATATATATACATTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
*
41572890 GCCATTAGGCCTTATCACATATACATACATTTTCACATTCATCACAT
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACAT
41572937 ATATATACAT
Statistics
Matches: 275, Mismatches: 17, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 275 1.00
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
Found at i:41572933 original size:27 final size:27
Alignment explanation
Indices: 41572903--41572963 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
41572893 ATTAGGCCTT
41572903 ATCACATATACATACATTTTCACATTC
1 ATCACATATACATACATTTTCACATTC
*
41572930 ATCACATATATATACATTTTCACATTC
1 ATCACATATACATACATTTTCACATTC
41572957 ATCACAT
1 ATCACAT
41572964 CGGCCATTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (27 bp):
ATCACATATACATACATTTTCACATTC
Found at i:41572939 original size:76 final size:76
Alignment explanation
Indices: 41572852--41573012 Score: 313
Period size: 76 Copynumber: 2.1 Consensus size: 76
41572842 CCATTAGGCC
41572852 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
1 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
41572917 CATTTTCACAT
66 CATTTTCACAT
*
41572928 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTATACATA
1 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
41572993 CATTTTCACAT
66 CATTTTCACAT
41573004 TCATCACAT
1 TCATCACAT
41573013 CGGCCATTAG
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 84 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.36
Consensus pattern (76 bp):
TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATA
CATTTTCACAT
Found at i:41572956 original size:125 final size:125
Alignment explanation
Indices: 41572805--41573050 Score: 420
Period size: 125 Copynumber: 2.0 Consensus size: 125
41572795 ATTAGGCCTT
* * *
41572805 ATCACATATACATACATTTTCGCATTCATCGCATCGGCCATTAGGCCTCATCACATATATATACA
1 ATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACA
*
41572870 TTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATACATACATTTTCACATTC
66 TTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACATTTTCACATTC
* * *
41572930 ATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCCTTATCACTTATACATACA
1 ATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACA
*
41572995 TTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATATACATTTTCAC
66 TTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACATTTTCAC
41573051 GAATCTTGAT
Statistics
Matches: 113, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
125 113 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.34
Consensus pattern (125 bp):
ATCACATATACATACATTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACA
TTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATACATACATTTTCACATTC
Found at i:41572983 original size:49 final size:49
Alignment explanation
Indices: 41572928--41573050 Score: 219
Period size: 49 Copynumber: 2.5 Consensus size: 49
41572918 ATTTTCACAT
41572928 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
1 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
* * *
41572977 TTATCACTTATACATACATTTTCACATTCATCACATCGGCCATTAGGCC
1 TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
41573026 TCATCACATATATATACATTTTCAC
1 TCATCACATATATATACATTTTCAC
41573051 GAATCTTGAT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 68 1.00
ACGTcount: A:0.31, C:0.28, G:0.07, T:0.35
Consensus pattern (49 bp):
TCATCACATATATATACATTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:41578373 original size:17 final size:18
Alignment explanation
Indices: 41578351--41578388 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
41578341 TTACTTTATC
41578351 GTTTTAAA-A-TACACATT
1 GTTTTAAATATTACAC-TT
41578368 GTTTTAAATATTACACTT
1 GTTTTAAATATTACACTT
41578386 GTT
1 GTT
41578389 ATTATTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.34, C:0.11, G:0.08, T:0.47
Consensus pattern (18 bp):
GTTTTAAATATTACACTT
Found at i:41581325 original size:40 final size:40
Alignment explanation
Indices: 41581250--41581327 Score: 106
Period size: 40 Copynumber: 1.9 Consensus size: 40
41581240 CTAATTTTAA
* *
41581250 AAAATTTAAATAAACATATAAAAATGTATAAATATTATTT
1 AAAATATAAATAAACATATAAAAATATATAAATATTATTT
41581290 AAAATATATAATAAA-ATA-AAAAATATATAATATATTAT
1 AAAATATA-AATAAACATATAAAAATATATAA-ATATTAT
41581328 ATATTATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 11 0.32
40 17 0.50
41 6 0.18
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (40 bp):
AAAATATAAATAAACATATAAAAATATATAAATATTATTT
Found at i:41582159 original size:21 final size:21
Alignment explanation
Indices: 41582134--41582186 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
41582124 CGTTGTTTCT
*
41582134 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
* *
41582155 AATCTCACCGTTACAGTAACT
1 AATCTCACCGCTACAGTAACC
41582176 AATCTCACCGC
1 AATCTCACCGC
41582187 CACCGTTGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:41582754 original size:29 final size:30
Alignment explanation
Indices: 41582722--41582779 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
41582712 ATTAATTTTT
*
41582722 TAAAATTATAATTAAA-TTAATATAATATG
1 TAAAATTATAACTAAATTTAATATAATATG
* *
41582751 TAAAGTTATAACTAAATTTATTATAATAT
1 TAAAATTATAACTAAATTTAATATAATAT
41582780 CGATTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 14 0.56
30 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (30 bp):
TAAAATTATAACTAAATTTAATATAATATG
Found at i:41587146 original size:13 final size:13
Alignment explanation
Indices: 41587128--41587154 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
41587118 GAAGCAATCG
41587128 CACACGGGCGTGT
1 CACACGGGCGTGT
41587141 CACACGGGCGTGT
1 CACACGGGCGTGT
41587154 C
1 C
41587155 CCTGTCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:41590231 original size:40 final size:39
Alignment explanation
Indices: 41590148--41590299 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 39
41590138 TCGAATGATG
* * * * *
41590148 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
41590188 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
41590228 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTATTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* * *
41590267 CCCGGGTTAAGTCCAAAAGGCATTCGTGCGAGT
1 TCCGGGCTAAGTCC-GAAGGCATTCGTGCGAGT
41590300 CACTATAACC
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 35 0.39
40 48 0.53
41 7 0.08
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:41590312 original size:40 final size:39
Alignment explanation
Indices: 41590204--41590299 Score: 120
Period size: 39 Copynumber: 2.4 Consensus size: 39
41590194 CTAGGATCCG
* **
41590204 AAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCG
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGCCAA
* * * *
41590243 AAGGCATTTGTGCAAGTTATTAAACCCGGGTTAAGTCCAA
1 AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAG-CCAA
41590283 AAGGCATTCGTGCGAGT
1 AAGGCATTCGTGCGAGT
41590300 CACTATAACC
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
39 30 0.64
40 17 0.36
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (39 bp):
AAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGCCAA
Found at i:41590327 original size:40 final size:40
Alignment explanation
Indices: 41590201--41590340 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
41590191 GGACTAGGAT
* * *
41590201 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGC-TAAGC
1 CCGAAGGCATTCGTGCGAGTCAATAAACCCGGGCTTAATC
* * * *
41590240 CCGAAGGCATTTGTGCAAGTTATTAAACCCGGG-TTAAGTC
1 CCGAAGGCATTCGTGCGAGTCAATAAACCCGGGCTTAA-TC
** * *
41590280 CAAAAGGCATTCGTGCGAGTCACTATAA-CCGGGCTTCATC
1 CCGAAGGCATTCGTGCGAGTCAATA-AACCCGGGCTTAATC
* *
41590320 CCGAAGGCATTTGAGCGAGTC
1 CCGAAGGCATTCGTGCGAGTC
41590341 GTTATATCCG
Statistics
Matches: 81, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
39 32 0.40
40 44 0.54
41 5 0.06
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTCAATAAACCCGGGCTTAATC
Done.