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 76 of 345
Found at i:20804979 original size:32 final size:31
Alignment explanation
Indices: 20804942--20805021 Score: 92
Period size: 32 Copynumber: 2.6 Consensus size: 31
20804932 AAAGTATAAT
*
20804942 TTTTTGGATAAGTTCAAGCACCAACTAGGTAC
1 TTTTTGGACAAGTTCAAGCACCAACTAGG-AC
* * *
20804974 TTTTTGGACAAGTGT-AGGTACCAAGTAGGAC
1 TTTTTGGACAAGT-TCAAGCACCAACTAGGAC
20805005 -TTTTGGACAAGTTCAAG
1 TTTTTGGACAAGTTCAAG
20805022 TGGCAAACTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
29 1 0.02
30 14 0.34
31 2 0.05
32 23 0.56
33 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (31 bp):
TTTTTGGACAAGTTCAAGCACCAACTAGGAC
Found at i:20819296 original size:13 final size:13
Alignment explanation
Indices: 20819262--20819372 Score: 82
Period size: 13 Copynumber: 8.4 Consensus size: 13
20819252 AAGTAAATGG
*
20819262 AATGGTTAGATGA
1 AATGGTTATATGA
* *
20819275 AGTGTTTATATGA
1 AATGGTTATATGA
20819288 AATGGTTATATG-
1 AATGGTTATATGA
*
20819300 AATCGGTTATATAAA
1 AAT-GGTTATAT-GA
***
20819315 AATAAATATATGA
1 AATGGTTATATGA
*
20819328 AATGGTGATATG-
1 AATGGTTATATGA
20819340 AATCGGTTATATGGA
1 AAT-GGTTATAT-GA
* *
20819355 AATAGATATATGA
1 AATGGTTATATGA
20819368 AATGG
1 AATGG
20819373 AACATTCGAT
Statistics
Matches: 74, Mismatches: 18, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
12 6 0.08
13 50 0.68
14 12 0.16
15 6 0.08
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (13 bp):
AATGGTTATATGA
Found at i:20819329 original size:40 final size:40
Alignment explanation
Indices: 20819281--20819372 Score: 148
Period size: 40 Copynumber: 2.3 Consensus size: 40
20819271 ATGAAGTGTT
*
20819281 TATATGAAATGGTTATATGAATCGGTTATATAAAAATAAA
1 TATATGAAATGGTGATATGAATCGGTTATATAAAAATAAA
** *
20819321 TATATGAAATGGTGATATGAATCGGTTATATGGAAATAGA
1 TATATGAAATGGTGATATGAATCGGTTATATAAAAATAAA
20819361 TATATGAAATGG
1 TATATGAAATGG
20819373 AACATTCGAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.43, C:0.02, G:0.21, T:0.34
Consensus pattern (40 bp):
TATATGAAATGGTGATATGAATCGGTTATATAAAAATAAA
Found at i:20823073 original size:43 final size:42
Alignment explanation
Indices: 20823023--20823164 Score: 135
Period size: 42 Copynumber: 3.3 Consensus size: 42
20823013 TCCCAAACGT
* * *
20823023 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATA-CGATGCCAATGTCCCAGACAG
* * *
20823066 GGTCTTACACGAAATGAAATACGATGTCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAG
* * **
20823108 GGTCTTACACATAAATCTCAAAT-CAATGCCAACATCCCAGAC-G
1 GGTCTTACAC-GAAA--TCAAATACGATGCCAATGTCCCAGACAG
20823151 TGGTCTTACACGAA
1 -GGTCTTACACGAA
20823165 TTCACATATC
Statistics
Matches: 81, Mismatches: 14, Indels: 8
0.79 0.14 0.08
Matches are distributed among these distances:
42 28 0.35
43 23 0.28
44 25 0.31
45 5 0.06
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:20823104 original size:42 final size:43
Alignment explanation
Indices: 20823023--20823175 Score: 141
Period size: 43 Copynumber: 3.6 Consensus size: 43
20823013 TCCCAAACGT
* * *
20823023 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAG
* * *
20823066 GGTCTTACACGAAATGAAATA-CGATGTCAATGTCCCAGACAT
1 GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAG
* * * **
20823108 GGTCTTACACATAAATCTCAA-ATCAATGCCAACATCCCAGAC-G
1 GGTCTTACAC-GAAATC-AAATATCGATGCCAATGTCCCAGACAG
* *
20823151 TGGTCTTACACGAATTCACATATCG
1 -GGTCTTACACGAAATCAAATATCG
20823176 GAATCCTATG
Statistics
Matches: 86, Mismatches: 19, Indels: 10
0.75 0.17 0.09
Matches are distributed among these distances:
42 29 0.34
43 30 0.35
44 27 0.31
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
GGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:20827196 original size:19 final size:19
Alignment explanation
Indices: 20827165--20827213 Score: 80
Period size: 19 Copynumber: 2.5 Consensus size: 19
20827155 ACTTTTTTCT
*
20827165 TTTTACTTTCCCCTTAAAAC
1 TTTTAC-TTCCCCTCAAAAC
20827185 TTTTACTTCCCCTCAAAAC
1 TTTTACTTCCCCTCAAAAC
20827204 TTTTACTTCC
1 TTTTACTTCC
20827214 TCCAAATCCC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 22 0.79
20 6 0.21
ACGTcount: A:0.22, C:0.33, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTACTTCCCCTCAAAAC
Found at i:20829641 original size:14 final size:14
Alignment explanation
Indices: 20829622--20829655 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
20829612 TTATGATGCT
20829622 TATATGTTTATATTG
1 TATATGTTTAT-TTG
20829637 T-TATGTTTATTTG
1 TATATGTTTATTTG
20829650 TATATG
1 TATATG
20829656 GCTTACTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 13 0.72
15 1 0.06
ACGTcount: A:0.24, C:0.00, G:0.15, T:0.62
Consensus pattern (14 bp):
TATATGTTTATTTG
Found at i:20831501 original size:46 final size:44
Alignment explanation
Indices: 20831442--20831556 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
20831432 ACAGAACAGA
* *
20831442 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
20831488 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
20831532 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
20831557 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:20831537 original size:44 final size:45
Alignment explanation
Indices: 20831442--20831575 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
20831432 ACAGAACAGA
* *
20831442 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
20831488 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
20831532 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
20831576 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:20833532 original size:17 final size:18
Alignment explanation
Indices: 20833497--20833539 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
20833487 TTCTTTTAAC
* *
20833497 TTTCTTTTTTTTTTCCAT
1 TTTCTTTTGTTTCTCCAT
20833515 TTTCTTTTGTTTCT-CAT
1 TTTCTTTTGTTTCTCCAT
*
20833532 TTTGTTTT
1 TTTCTTTT
20833540 CCTCCCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.05, C:0.14, G:0.05, T:0.77
Consensus pattern (18 bp):
TTTCTTTTGTTTCTCCAT
Found at i:20841074 original size:27 final size:27
Alignment explanation
Indices: 20841034--20841088 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
20841024 AGTCTAAACA
* *
20841034 TCAAAAATCCATAATTTCTGTGAGATT
1 TCAAAAAGCCATAATTTCTGTAAGATT
*
20841061 TCAAAAAGCTATAATTTCTGTAAGATT
1 TCAAAAAGCCATAATTTCTGTAAGATT
20841088 T
1 T
20841089 TTGAGCCTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (27 bp):
TCAAAAAGCCATAATTTCTGTAAGATT
Found at i:20841101 original size:9 final size:9
Alignment explanation
Indices: 20841087--20841112 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20841077 TCTGTAAGAT
20841087 TTTTGAGCC
1 TTTTGAGCC
20841096 TTTTGAGCC
1 TTTTGAGCC
20841105 TTTTGAGC
1 TTTTGAGC
20841113 ATCTATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (9 bp):
TTTTGAGCC
Found at i:20846991 original size:65 final size:67
Alignment explanation
Indices: 20846916--20847101 Score: 261
Period size: 71 Copynumber: 2.7 Consensus size: 67
20846906 TAGTACCACT
*
20846916 CATGCGACCTAGC-CGATTTGTC-T-GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
1 CATGCGACCTAGCAC-ATTTATCTTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATC
20846978 ACG
65 ACG
20846981 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
1 CATGCGACCTAGC-ACATTTATC-TT--CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGA
20847046 ATCACG
62 ATCACG
20847052 CATGCGACCTAGCTACATTTATCTTTCACGTAGCTCTCTTGTCTACATGG
1 CATGCGACCTAGC-ACATTTATC-TT--CGTAGCTCTCTTGTCTACATGG
20847102 GATACATCTC
Statistics
Matches: 113, Mismatches: 1, Indels: 8
0.93 0.01 0.07
Matches are distributed among these distances:
65 13 0.12
66 6 0.05
67 1 0.01
68 1 0.01
71 92 0.81
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (67 bp):
CATGCGACCTAGCACATTTATCTTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCA
CG
Found at i:20847027 original size:71 final size:71
Alignment explanation
Indices: 20846939--20847101 Score: 326
Period size: 71 Copynumber: 2.3 Consensus size: 71
20846929 CGATTTGTCT
20846939 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
20847004 TTTCAC
66 TTTCAC
20847010 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
20847075 TTTCAC
66 TTTCAC
20847081 GTAGCTCTCTTGTCTACATGG
1 GTAGCTCTCTTGTCTACATGG
20847102 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.36
Consensus pattern (71 bp):
GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
TTTCAC
Found at i:20847139 original size:71 final size:70
Alignment explanation
Indices: 20846939--20847135 Score: 274
Period size: 71 Copynumber: 2.8 Consensus size: 70
20846929 CGATTTGTCT
* * *
20846939 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTATC
20847004 TTTCAC
65 TTTCAC
* * *
20847010 GTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTATC
1 GTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGCGACCTAGCTACATTTATC
20847075 TTTCAC
65 TTTCAC
* *
20847081 GTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACGCATGTGACCTAGCTAC
1 GTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGCGACCTAGCTAC
20847136 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 23 0.19
69 1 0.01
70 1 0.01
71 95 0.79
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (70 bp):
GTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGCGACCTAGCTACATTTATCT
TTCAC
Found at i:20849361 original size:22 final size:23
Alignment explanation
Indices: 20849305--20849363 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
20849295 ATCCTTAGTC
20849305 CACATGGGCGTGTG--CCTCAAT
1 CACATGGGCGTGTGCCCCTCAAT
* * * *
20849326 CACACGGCCATGTGCCCCTC-TT
1 CACATGGGCGTGTGCCCCTCAAT
20849348 CACATGGGCGTGTGCC
1 CACATGGGCGTGTGCC
20849364 TTAGCCACAC
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 11 0.38
22 14 0.48
23 4 0.14
ACGTcount: A:0.15, C:0.36, G:0.27, T:0.22
Consensus pattern (23 bp):
CACATGGGCGTGTGCCCCTCAAT
Found at i:20849387 original size:43 final size:43
Alignment explanation
Indices: 20849305--20849387 Score: 103
Period size: 43 Copynumber: 1.9 Consensus size: 43
20849295 ATCCTTAGTC
* * * *
20849305 CACATGGGCGTGTGCCTCAATCACACGGCCATGTGCCCCTCTT
1 CACATGGGCGTGTGCCTCAACCACACGACCATATACCCCTCTT
* * *
20849348 CACATGGGCGTGTGCCTTAGCCACACGACCGTATACCCCT
1 CACATGGGCGTGTGCCTCAACCACACGACCATATACCCCT
20849388 TCTCATATGG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.18, C:0.37, G:0.23, T:0.22
Consensus pattern (43 bp):
CACATGGGCGTGTGCCTCAACCACACGACCATATACCCCTCTT
Found at i:20851237 original size:17 final size:18
Alignment explanation
Indices: 20851203--20851238 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20851193 TGAATTTCTA
20851203 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
20851221 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
20851238 T
1 T
20851239 AACTCATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:20853855 original size:70 final size:70
Alignment explanation
Indices: 20853768--20853910 Score: 277
Period size: 70 Copynumber: 2.0 Consensus size: 70
20853758 TATTCGTTCA
20853768 TTTAATTCTGGTTTTATAACAAACTTAACTGTAATTTTACTGACTGAATTTAAACGATTAAATGT
1 TTTAATTCTGGTTTTATAACAAACTTAACTGTAATTTTACTGACTGAATTTAAACGATTAAATGT
20853833 TTCGG
66 TTCGG
*
20853838 TTTAATTCTGGTTTTATAACAAACTTAACTGTAATTTTACTGACTGAATTTAAGCGATTAAATGT
1 TTTAATTCTGGTTTTATAACAAACTTAACTGTAATTTTACTGACTGAATTTAAACGATTAAATGT
20853903 TTCGG
66 TTCGG
20853908 TTT
1 TTT
20853911 GACATGATAA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 72 1.00
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.44
Consensus pattern (70 bp):
TTTAATTCTGGTTTTATAACAAACTTAACTGTAATTTTACTGACTGAATTTAAACGATTAAATGT
TTCGG
Found at i:20855907 original size:18 final size:18
Alignment explanation
Indices: 20855878--20855922 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
20855868 ATAAAAAATA
*
20855878 TATTTTTATTATATAA-T
1 TATTTATATTATATAATT
20855895 TATTATATATTATATAATT
1 TATT-TATATTATATAATT
20855914 TATTTATAT
1 TATTTATAT
20855923 AAATAACGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 4 0.16
18 16 0.64
19 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTTATATTATATAATT
Found at i:20855963 original size:102 final size:95
Alignment explanation
Indices: 20855841--20856044 Score: 268
Period size: 95 Copynumber: 2.1 Consensus size: 95
20855831 TTTTAAAAAA
* *
20855841 TAAAATATATTTAACATAATGATAAATATAAAAAATATATTTTTATTATATAATTATTATATATT
1 TAAAATATATTTAACATAATGAT--ATATAAAAAATATA-TTTTATTATATAATCA-CATAT-TT
**
20855906 ATATAATTT-ATTTATATAAATAACGGAGTTATTAATT
61 AT-T-ATTTGATTT-TATAAATAAAAGAGTTATTAATT
*
20855943 TTAAATAT-TGTTAACATAATGATATATAAAAAATATATTTTATTATATAATCACATATTTATTA
1 TAAAATATAT-TTAACATAATGATATATAAAAAATATATTTTATTATATAATCACATATTTATTA
20856007 TTTGATTTTATAAATAAAAGAGTTATTAATT
65 TTTGATTTTATAAATAAAAGAGTTATTAATT
20856038 TAAAATA
1 TAAAATA
20856045 AAAAAAACTT
Statistics
Matches: 94, Mismatches: 6, Indels: 11
0.85 0.05 0.10
Matches are distributed among these distances:
95 31 0.33
96 5 0.05
97 4 0.04
98 4 0.04
99 15 0.16
100 14 0.15
101 1 0.01
102 20 0.21
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (95 bp):
TAAAATATATTTAACATAATGATATATAAAAAATATATTTTATTATATAATCACATATTTATTAT
TTGATTTTATAAATAAAAGAGTTATTAATT
Found at i:20856188 original size:107 final size:108
Alignment explanation
Indices: 20856063--20856269 Score: 249
Period size: 107 Copynumber: 1.9 Consensus size: 108
20856053 TTGAAACAAC
** * *
20856063 ATGAAATAAAAAAGTACAAATATGCTTAGAAGATGAATAAAATCTAG-GACTCAAAGATGAA-AT
1 ATGAAATAAAAAAGTACAAATATGAGTAGAAGAAGAATAAAA-CTAGAGACTCAAAGAT-AAGAC
* **
20856126 CACTATTATTTAACCATCTAACCAAATGAGCTAATATGATAAAAT
64 CAATAACATTTAACCATCTAACCAAATGAGCTAATATGATAAAAT
* * * * *
20856171 ATGAAATAAAAAA-TACAAATGTTAGTAGAAGAAGAATCAAACTTGAGACTCAAGGATAAGACCA
1 ATGAAATAAAAAAGTACAAATATGAGTAGAAGAAGAATAAAACTAGAGACTCAAAGATAAGACCA
* *
20856235 ATAACATTTAACGATCTTACCAAATGAGCTAATAT
66 ATAACATTTAACCATCTAACCAAATGAGCTAATAT
20856270 AACAAAAAAG
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
106 5 0.06
107 65 0.78
108 13 0.16
ACGTcount: A:0.50, C:0.13, G:0.13, T:0.25
Consensus pattern (108 bp):
ATGAAATAAAAAAGTACAAATATGAGTAGAAGAAGAATAAAACTAGAGACTCAAAGATAAGACCA
ATAACATTTAACCATCTAACCAAATGAGCTAATATGATAAAAT
Found at i:20858523 original size:3 final size:3
Alignment explanation
Indices: 20858463--20858505 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
20858453 CATATTGGAC
20858463 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
20858506 CTCTGATTAC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:20876687 original size:46 final size:46
Alignment explanation
Indices: 20876637--20876812 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
20876627 TGGTTGAGCA
20876637 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20876683 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20876728 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20876776 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20876813 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20876793 original size:93 final size:93
Alignment explanation
Indices: 20876634--20876805 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
20876624 GGATGGTTGA
* *
20876634 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20876699 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
20876727 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20876792 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
20876806 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20884258 original size:46 final size:46
Alignment explanation
Indices: 20884208--20884383 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
20884198 TGGTTGAGCA
20884208 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20884254 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20884299 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20884347 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20884384 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20884364 original size:93 final size:93
Alignment explanation
Indices: 20884205--20884376 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
20884195 GGATGGTTGA
* *
20884205 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20884270 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
20884298 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20884363 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
20884377 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20891830 original size:46 final size:46
Alignment explanation
Indices: 20891780--20891955 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
20891770 TGGTTGAGCA
20891780 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20891826 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20891871 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20891919 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20891956 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20891936 original size:93 final size:93
Alignment explanation
Indices: 20891777--20891948 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
20891767 GGATGGTTGA
* *
20891777 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20891842 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
20891870 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
20891935 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
20891949 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20896992 original size:28 final size:29
Alignment explanation
Indices: 20896949--20897006 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
20896939 AGTTCTTTCA
*
20896949 AGCCATGAAACAGGAAGATCATGTGAGCC
1 AGCCATGAAACAGGAAGATCATGCGAGCC
* *
20896978 AGCCAT-AATCAGGAAGCTCATGCGAGCC
1 AGCCATGAAACAGGAAGATCATGCGAGCC
20897006 A
1 A
20897007 ATATCGAGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.36, C:0.24, G:0.26, T:0.14
Consensus pattern (29 bp):
AGCCATGAAACAGGAAGATCATGCGAGCC
Found at i:20897044 original size:25 final size:24
Alignment explanation
Indices: 20896989--20897108 Score: 109
Period size: 25 Copynumber: 4.9 Consensus size: 24
20896979 GCCATAATCA
* * *
20896989 GGAAGCTCATGCGAGCCAATATCG
1 GGAAGCTCATGAGAGCCATTATTG
*
20897013 AGAAGCTC-TGAAGAGCCATTAATTG
1 GGAAGCTCATG-AGAGCCATT-ATTG
20897038 GGAAGCTCATGAGAGCCAATTATTG
1 GGAAGCTCATGAGAGCC-ATTATTG
* * * *
20897063 GGAAGCTCGTGAGAGCCAAATAATA
1 GGAAGCTCATGAGAGCC-ATTATTG
*
20897088 GGAAGCTCAAGAGAGCC-TTAT
1 GGAAGCTCATGAGAGCCATTAT
20897109 ATCGGGATGC
Statistics
Matches: 79, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
23 4 0.05
24 14 0.18
25 56 0.71
26 5 0.06
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (24 bp):
GGAAGCTCATGAGAGCCATTATTG
Found at i:20897092 original size:50 final size:48
Alignment explanation
Indices: 20896978--20897104 Score: 141
Period size: 50 Copynumber: 2.6 Consensus size: 48
20896968 CATGTGAGCC
*
20896978 AGCC-ATAATCAGGAAGCTCATGCGAGCCAATATCGAGAAGCTCTGAAG
1 AGCCAATAAT-AGGAAGCTCATGAGAGCCAATATCGAGAAGCTCTGAAG
* * * *
20897026 AGCCATTAATTGGGAAGCTCATGAGAGCCAATTATTGGGAAGCTCGTG-AG
1 AGCCAATAA-TAGGAAGCTCATGAGAGCCAA-TATCGAGAAGCTC-TGAAG
*
20897076 AGCCAAATAATAGGAAGCTCAAGAGAGCC
1 AGCC-AATAATAGGAAGCTCATGAGAGCC
20897105 TTATATCGGG
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
48 4 0.06
49 21 0.32
50 35 0.53
51 6 0.09
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (48 bp):
AGCCAATAATAGGAAGCTCATGAGAGCCAATATCGAGAAGCTCTGAAG
Found at i:20902838 original size:40 final size:40
Alignment explanation
Indices: 20902646--20902831 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
20902636 TCGAATGATG
* * * *
20902646 TCCGGGGTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
20902686 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20902726 TCCAGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
20902766 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
20902807 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
20902832 AACGAGTAGC
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 118 0.91
41 10 0.08
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:20902838 original size:80 final size:79
Alignment explanation
Indices: 20902702--20902854 Score: 195
Period size: 80 Copynumber: 1.9 Consensus size: 79
20902692 CTAAGATCCG
**
20902702 AAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAA
1 AAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAA
20902766 TCCGGGTTAAGTCCCA
65 TCC-GGTTAAGTCCCA
* * * *
20902782 AAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTAT
1 AAGGCATTTGTGCGAGTTACTA-AATCCAGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAA
20902845 ATCCGGTTAA
64 ATCCGGTTAA
20902855 ATTCTGAAGG
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
79 9 0.14
80 53 0.83
81 2 0.03
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCGAGTTACTAAATCCAGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAAT
CCGGTTAAGTCCCA
Found at i:20913256 original size:28 final size:28
Alignment explanation
Indices: 20913210--20913278 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
20913200 TTTAAAACCC
*
20913210 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
20913237 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
20913265 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
20913279 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:20914929 original size:20 final size:20
Alignment explanation
Indices: 20914906--20914943 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
20914896 CACATCCAAA
*
20914906 TACAAAATTTTAAAAATCTT
1 TACAAAATATTAAAAATCTT
*
20914926 TACAAAATATTGAAAATC
1 TACAAAATATTAAAAATC
20914944 GCGAATAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.53, C:0.11, G:0.03, T:0.34
Consensus pattern (20 bp):
TACAAAATATTAAAAATCTT
Found at i:20921253 original size:19 final size:19
Alignment explanation
Indices: 20921229--20921292 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
20921219 GGGGTATATC
20921229 GGTAATTTTGCTCTTTAGG
1 GGTAATTTTGCTCTTTAGG
* * * *
20921248 GGTAATTTCGGTAATTT--C
1 GGTAATTTTGCT-CTTTAGG
20921266 GGTAATTTTGCTCTTTAGG
1 GGTAATTTTGCTCTTTAGG
20921285 GGTAATTT
1 GGTAATTT
20921293 CGTGATCTAC
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
17 3 0.09
18 10 0.29
19 18 0.53
20 3 0.09
ACGTcount: A:0.19, C:0.09, G:0.25, T:0.47
Consensus pattern (19 bp):
GGTAATTTTGCTCTTTAGG
Found at i:20921262 original size:9 final size:9
Alignment explanation
Indices: 20921248--20921273 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20921238 GCTCTTTAGG
20921248 GGTAATTTC
1 GGTAATTTC
20921257 GGTAATTTC
1 GGTAATTTC
20921266 GGTAATTT
1 GGTAATTT
20921274 TGCTCTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTAATTTC
Found at i:20929086 original size:18 final size:18
Alignment explanation
Indices: 20929026--20929085 Score: 84
Period size: 18 Copynumber: 3.3 Consensus size: 18
20929016 TCATTGTAGC
*
20929026 AACAGTAATCAGTGCAGT
1 AACAGTAATTAGTGCAGT
* *
20929044 AACAATAATTAGTGTAGT
1 AACAGTAATTAGTGCAGT
*
20929062 AACAGTTATTAGTGCAGT
1 AACAGTAATTAGTGCAGT
20929080 AACAGT
1 AACAGT
20929086 TTAAACAGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (18 bp):
AACAGTAATTAGTGCAGT
Found at i:20929493 original size:27 final size:27
Alignment explanation
Indices: 20929417--20929496 Score: 106
Period size: 27 Copynumber: 3.0 Consensus size: 27
20929407 AAACATACAT
* *
20929417 CACATAGGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
20929444 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
20929471 CACATAAGGGCAAAACGGCCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
20929497 TCAATTTGAG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:20929645 original size:17 final size:18
Alignment explanation
Indices: 20929613--20929646 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20929603 CATAATGCGG
20929613 GCCCATGTGAGCCCACAC
1 GCCCATGTGAGCCCACAC
*
20929631 GCCCGTGTG-GCCCACA
1 GCCCATGTGAGCCCACA
20929647 TAGCCAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.18, C:0.44, G:0.26, T:0.12
Consensus pattern (18 bp):
GCCCATGTGAGCCCACAC
Found at i:20932815 original size:27 final size:27
Alignment explanation
Indices: 20932796--20933060 Score: 296
Period size: 27 Copynumber: 9.8 Consensus size: 27
20932786 ATTACCAAAG
*
20932796 TACCCCCGATTTACAGAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
*
20932823 TACCCCCGATTTACATAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
20932850 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
20932877 TACCCTCGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
20932904 TACCCTCGATTTATAAAATTACCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** *
20932931 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
* * *
20932958 TACCCTCGATTTACAAAATTATCGTTT
1 TACCCCCGATTTACAGAATTACCGTTT
** * **
20932985 TACCGTCGATTTATAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
** **
20933012 TACCCTTGATTTACAGAATTACTATTT
1 TACCCCCGATTTACAGAATTACCGTTT
* *
20933039 TACCCTCGATTTACAAAATTAC
1 TACCCCCGATTTACAGAATTAC
20933061 AGAAATACCC
Statistics
Matches: 210, Mismatches: 28, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 210 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCCCGATTTACAGAATTACCGTTT
Found at i:20932843 original size:54 final size:54
Alignment explanation
Indices: 20932796--20933060 Score: 377
Period size: 54 Copynumber: 4.9 Consensus size: 54
20932786 ATTACCAAAG
* * * * * *
20932796 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
20932850 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* *
20932904 TACCCTCGATTTATAAAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * * *
20932958 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
* * ** *
20933012 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTAC
20933061 AGAAATACCC
Statistics
Matches: 189, Mismatches: 22, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 189 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTT
Found at i:20933013 original size:81 final size:81
Alignment explanation
Indices: 20932796--20933059 Score: 386
Period size: 81 Copynumber: 3.3 Consensus size: 81
20932786 ATTACCAAAG
* * * * * *
20932796 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
* *
20932861 TACAAAATTACCGTTT
66 TACAGAATTACTGTTT
*
20932877 TACCCTCGATTTACAGAATTA-CTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
1 TACCCTCGATTTACAAAATTATC-GTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGAT
20932941 TTACAGAATTACTGTTT
65 TTACAGAATTACTGTTT
* * **
20932958 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
*
20933023 TACAGAATTACTATTT
66 TACAGAATTACTGTTT
20933039 TACCCTCGATTTACAAAATTA
1 TACCCTCGATTTACAAAATTA
20933060 CAGAAATACC
Statistics
Matches: 168, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
80 1 0.01
81 166 0.99
82 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
TACAGAATTACTGTTT
Found at i:20933086 original size:81 final size:80
Alignment explanation
Indices: 20932796--20933089 Score: 372
Period size: 81 Copynumber: 3.6 Consensus size: 80
20932786 ATTACCAAAG
* * * * * * *
20932796 TACCCCCGATTTACAGAATTATCGTTTTACCCCCGATTTACATAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTA-CGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATT
* *
20932861 TACAAAATTACCGTTT
65 TACAGAATTACTGTTT
* *
20932877 TACCCTCGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACCGTTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTAC-GTTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATT
20932942 TACAGAATTACTGTTT
65 TACAGAATTACTGTTT
* * *
20932958 TACCCTCGATTTACAAAATTATCGTTTTACCGTCGATTTATAGAATTACTATTTTACCCTTGATT
1 TACCCTCGATTTACAAAATTA-CGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATT
*
20933023 TACAGAATTACTATTT
65 TACAGAATTACTGTTT
*** * *
20933039 TACCCTCGATTTACAAAATTACAGAAATACCCTCAATTTGTAAAATTACCA
1 TACCCTCGATTTACAAAATTAC-GTTTTACCCTCGATTTATAAAATTACCA
20933090 AAATACCCCT
Statistics
Matches: 189, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
80 2 0.01
81 186 0.98
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (80 bp):
TACCCTCGATTTACAAAATTACGTTTTACCCTCGATTTATAAAATTACCATTTTACCCTTGATTT
ACAGAATTACTGTTT
Found at i:20933097 original size:81 final size:80
Alignment explanation
Indices: 20932850--20933188 Score: 261
Period size: 81 Copynumber: 4.2 Consensus size: 80
20932840 ATTACCGTTT
* * * * *** *
20932850 TACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTTACAGAATTACTGTTTTACCCTCGATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GAAATACCCTCAATT
****
20932915 TATAAAATTACCGTTT
65 TATAAAATTACCAAAA
** *** * *
20932931 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATCGTTTTACCGTCGATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTA-CGAAATACCCTCAATT
* * ***
20932996 TATAGAATTACTATTT
65 TATAAAATTACCAAAA
*
20933012 TACCCTTGATTTACAGAATTACTATTTTACCCTCGATTTACAAAATTACAGAAATACCCTCAATT
1 TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTAC-GAAATACCCTCAATT
*
20933077 TGTAAAATTACCAAAA
65 TATAAAATTACCAAAA
* * *** * ***
20933093 TACCCCTAGTTTGTA-A-AATTACCAAAATACCACT-GGTTTGTGAAATTACCGAAATACCCTCA
1 TA-CCCTTGATT-TACAGAATTACCATTTTACC-CTCGATTTACAAAATTA-CGAAATACCCTCA
*
20933155 ATTTGTAAAATTACCAAAA
62 ATTTATAAAATTACCAAAA
*
20933174 TACCCCTGATTTACA
1 TACCCTTGATTTACA
20933189 AAGTTACAGA
Statistics
Matches: 218, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
79 2 0.01
80 8 0.04
81 194 0.89
82 12 0.06
83 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.36
Consensus pattern (80 bp):
TACCCTTGATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACGAAATACCCTCAATTT
ATAAAATTACCAAAA
Found at i:20933268 original size:27 final size:27
Alignment explanation
Indices: 20932696--20933264 Score: 193
Period size: 27 Copynumber: 21.0 Consensus size: 27
20932686 AATACTTTAG
*
20932696 TTTACTAAAATTACCGAAATACCCTTAGT
1 TTTAC-AAAATTACCGAAATACCCTT-GA
* *
20932725 TTGTA-AAAA-TACTGAAATACCCTCGA
1 TT-TACAAAATTACCGAAATACCCTTGA
** *
20932751 TTTGTAAAATTACTGAAATA-CCTTCGA
1 TTTACAAAATTACCGAAATACCCTT-GA
* ** **
20932778 CTTGTAAAATTACC-AAAGTACCCCCGA
1 TTTACAAAATTACCGAAA-TACCCTTGA
* * *** **
20932805 TTTACAGAATTATCGTTTTACCCCCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** *
20932832 TTTACATAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
*** *
20932859 TTTACAAAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
20932886 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* ***
20932913 TTTATAAAATTACCGTTTTACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * *** *
20932940 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *** * *
20932967 TTTACAAAATTATCGTTTTACCGTCGA
1 TTTACAAAATTACCGAAATACCCTTGA
* * * **
20932994 TTTATAGAATTA-CTATTTTACCCTTGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* * ** *
20933021 TTTACAGAATTA-CTATTTTACCCTCGA
1 TTTACAAAATTACCGA-AATACCCTTGA
* **
20933048 TTTACAAAATTACAGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
20933075 TTTGTAAAATTACCAAAATACCCCT-A
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
20933101 GTTTGTAAAATTACCAAAATACCAC-TGG
1 -TTTACAAAATTACCGAAATACC-CTTGA
*** **
20933129 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
20933156 TTTGTAAAATTACCAAAATACCCCTGA
1 TTTACAAAATTACCGAAATACCCTTGA
* *
20933183 TTTACAAAGTTACAGAAATACCCTTGA
1 TTTACAAAATTACCGAAATACCCTTGA
** * *
20933210 CTTT-CTAAAAATTATAGAAATACCATTGG
1 -TTTAC--AAAATTACCGAAATACCCTTGA
*
20933239 TTTACAAAATTACTGAAATACCCTTG
1 TTTACAAAATTACCGAAATACCCTTG
20933265 GTTTGTAGAT
Statistics
Matches: 444, Mismatches: 79, Indels: 36
0.79 0.14 0.06
Matches are distributed among these distances:
25 1 0.00
26 16 0.04
27 390 0.88
28 14 0.03
29 21 0.05
30 2 0.00
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACCGAAATACCCTTGA
Found at i:20933352 original size:27 final size:27
Alignment explanation
Indices: 20933321--20933413 Score: 116
Period size: 27 Copynumber: 3.4 Consensus size: 27
20933311 TACCCCTATT
* *
20933321 AGGTAAAAAGACCGTAAAGCTCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
* *
20933348 GGGTAAAGTGACCGTAAAGCCCCTGTA
1 AGGTAAAATGACCGTAAAGCCCCTGTA
*
20933375 AGGTAAAGTGACCGTAATA-CCCCTGTA
1 AGGTAAAATGACCGTAA-AGCCCCTGTA
*
20933402 TGGTAAAATGAC
1 AGGTAAAATGAC
20933414 GAATATGCCC
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 57 0.98
28 1 0.02
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.20
Consensus pattern (27 bp):
AGGTAAAATGACCGTAAAGCCCCTGTA
Found at i:20934648 original size:9 final size:9
Alignment explanation
Indices: 20934636--20934692 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
20934626 TTTGATAAAC
20934636 ATGATATGT
1 ATGATATGT
*
20934645 ATGATATGCAC
1 ATGATATG--T
*
20934656 ATGACATGT
1 ATGATATGT
*
20934665 ATGATATGCAC
1 ATGATATG--T
20934676 ATGATATGT
1 ATGATATGT
20934685 ATGATATG
1 ATGATATG
20934693 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:20934659 original size:20 final size:20
Alignment explanation
Indices: 20934634--20934696 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
20934624 ATTTTGATAA
20934634 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
20934654 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
20934674 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
20934694 ACA
1 ACA
20934697 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:20934878 original size:23 final size:23
Alignment explanation
Indices: 20934752--20935039 Score: 425
Period size: 24 Copynumber: 12.1 Consensus size: 23
20934742 AGGAAGTGAA
*
20934752 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
20934776 AAAGGGCTTATGCCCCAGTTATAA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
20934800 AAAGGGCTTATGCCCCAGTTATCA
1 AAAGGGCTTATGCCCCAGTTAT-T
*
20934824 AAAGGGCTTATGCCCTAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
20934847 AAAAGGGCTTATGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
20934871 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
*
20934896 AAAGGGCTTATGCCCCAATTATT
1 AAAGGGCTTATGCCCCAGTTATT
20934919 AAAGGGCTTATGCCCCAGTTATGAT
1 AAAGGGCTTATGCCCCAGTTAT--T
20934944 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
20934967 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
20934990 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
20935013 AAAAAGGG-TTTTGCCCCAGTTATT
1 --AAAGGGCTTATGCCCCAGTTATT
20935037 AAA
1 AAA
20935040 AGAGGCTAAG
Statistics
Matches: 249, Mismatches: 8, Indels: 16
0.91 0.03 0.06
Matches are distributed among these distances:
22 3 0.01
23 91 0.37
24 104 0.42
25 51 0.20
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:20936340 original size:28 final size:28
Alignment explanation
Indices: 20936299--20936367 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
20936289 TTTAAAACCC
*
20936299 TAGGGGT-ATATCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
20936326 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
20936354 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
20936368 TGATCTACGC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 7 0.17
28 33 0.82
ACGTcount: A:0.19, C:0.10, G:0.28, T:0.43
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:20940148 original size:18 final size:17
Alignment explanation
Indices: 20940109--20940188 Score: 97
Period size: 18 Copynumber: 4.6 Consensus size: 17
20940099 TAGCCCATTA
*
20940109 CAGTAACAGTATCAGTG
1 CAGTAACAGTATTAGTG
* *
20940126 TAGTAATAGTAATTAGTG
1 CAGTAACAGT-ATTAGTG
*
20940144 CAGTAATAGTAATTAGTG
1 CAGTAACAGT-ATTAGTG
*
20940162 CAGTAACAGTATTAGTA
1 CAGTAACAGTATTAGTG
20940179 CAGTAACAGT
1 CAGTAACAGT
20940189 TTAAACAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
17 24 0.43
18 32 0.57
ACGTcount: A:0.39, C:0.10, G:0.21, T:0.30
Consensus pattern (17 bp):
CAGTAACAGTATTAGTG
Found at i:20941989 original size:68 final size:64
Alignment explanation
Indices: 20941900--20942121 Score: 221
Period size: 67 Copynumber: 3.4 Consensus size: 64
20941890 TAACACGGGA
* *
20941900 TGTATACCATGTGTACAAGAGAGCTACGAGACATTATGAGGTAGCTAGGTCGCATGAGTGATACT
1 TGTACACCATGTGTACAAGAGAGCTACGAG--A-TA-GAAGTAGCTAGGTCGCATGAGTGATACT
20941965 ATG
62 ATG
* * * * * * *
20941968 TGTACACCATGTGGACAAGAGAGCTACGAGATAGATGTAGCTAGGTTGCATGTGTGGTTTCAAGT
1 TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGAGT-GATACTA-T
20942033 G
64 G
* * * ** * * *
20942034 AAGGAAACCATGTAAACAAGAGAGCTACGAGATA-AAGTGGCTAGGTCACATGGGTGATACTATG
1 -TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGAGTGATACTATG
20942098 TGTACACCATGTGTACAAGAGAGC
1 TGTACACCATGTGTACAAGAGAGC
20942122 CAAAATTATG
Statistics
Matches: 125, Mismatches: 26, Indels: 11
0.77 0.16 0.07
Matches are distributed among these distances:
63 19 0.15
64 21 0.17
65 10 0.08
66 19 0.15
67 28 0.22
68 28 0.22
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (64 bp):
TGTACACCATGTGTACAAGAGAGCTACGAGATAGAAGTAGCTAGGTCGCATGAGTGATACTATG
Found at i:20942622 original size:49 final size:49
Alignment explanation
Indices: 20942565--20942662 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
20942555 GCAAGCAAAG
20942565 GAATTCTATATTCTGAGATATTTAAGTTTCTATGAGACTGGTTCAGAAT
1 GAATTCTATATTCTGAGATATTTAAGTTTCTATGAGACTGGTTCAGAAT
20942614 GAATTCTATATTCTGAGATATTTAAGTTTCTATGAGACTGGTTCAGAAT
1 GAATTCTATATTCTGAGATATTTAAGTTTCTATGAGACTGGTTCAGAAT
20942663 AACTACGTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.18, T:0.41
Consensus pattern (49 bp):
GAATTCTATATTCTGAGATATTTAAGTTTCTATGAGACTGGTTCAGAAT
Found at i:20945288 original size:30 final size:30
Alignment explanation
Indices: 20945254--20945310 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
20945244 CGAGCCTAGG
20945254 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
1 GGCAAAAGTGTAAATATGCAAAAGTTTAGA
* * * *
20945284 GGCAAAATTGTAATTTTGCCAAAGTTT
1 GGCAAAAGTGTAAATATGCAAAAGTTT
20945311 GAGTTAAGGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (30 bp):
GGCAAAAGTGTAAATATGCAAAAGTTTAGA
Found at i:20947728 original size:27 final size:27
Alignment explanation
Indices: 20947687--20947755 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 27
20947677 AAATATACAT
*
20947687 CACATAGGGGCAAAACAACCATCTTAC
1 CACATAAGGGCAAAACAACCATCTTAC
* * ** *
20947714 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAACCATCTTAC
*
20947741 CACATAAGGGAAAAA
1 CACATAAGGGCAAAA
20947756 TGATTATTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.45, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
CACATAAGGGCAAAACAACCATCTTAC
Found at i:20950074 original size:13 final size:12
Alignment explanation
Indices: 20950056--20950097 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 12
20950046 TGGCAATCAC
20950056 GTCACACGGCTGT
1 GTCACACGGC-GT
20950069 GTCACACGGGCGT
1 GTCACAC-GGCGT
20950082 GTCACACGGGCGT
1 GTCACAC-GGCGT
20950095 GTC
1 GTC
20950098 CCTGCTGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
13 25 0.89
14 3 0.11
ACGTcount: A:0.14, C:0.31, G:0.36, T:0.19
Consensus pattern (12 bp):
GTCACACGGCGT
Found at i:20958412 original size:40 final size:40
Alignment explanation
Indices: 20958316--20958499 Score: 248
Period size: 40 Copynumber: 4.5 Consensus size: 40
20958306 TATTCGGATG
20958316 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC---TAGTTGCT
*
20958359 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
**
20958399 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAG-TGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTG-CT
* *
20958439 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
*
20958479 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
20958500 ATACTTGGGT
Statistics
Matches: 129, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 15 0.12
40 81 0.63
41 2 0.02
43 31 0.24
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTGCT
Found at i:20962217 original size:35 final size:35
Alignment explanation
Indices: 20962168--20962240 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
20962158 ATGGATCCTC
* *
20962168 GCTTCACATTTTGGTTCTAGAAGAAGTAACATGAA
1 GCTTCACATCTTGGTTCTAGAAGAAGTAACATAAA
*
20962203 GCTTCACGTCTTGGTTCTAGAAGAAGTAACATAAA
1 GCTTCACATCTTGGTTCTAGAAGAAGTAACATAAA
20962238 GCT
1 GCT
20962241 CTGGGTACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (35 bp):
GCTTCACATCTTGGTTCTAGAAGAAGTAACATAAA
Found at i:20981422 original size:38 final size:39
Alignment explanation
Indices: 20981371--20981455 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
20981361 GAGAATTACA
*
20981371 ATATAATACTGAG-TTTTTTTTAAGAACAAATCAAGTTG
1 ATATAATACTGAGTTTTTTTTTAAGAACAAATCAAGTCG
20981409 ATATAATACTGAGTTTTTTTTTAAGAACAAATCAAGTCG
1 ATATAATACTGAGTTTTTTTTTAAGAACAAATCAAGTCG
*
20981448 ATACAATA
1 ATATAATA
20981456 TAGAAATCAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 13 0.30
39 31 0.70
ACGTcount: A:0.41, C:0.09, G:0.12, T:0.38
Consensus pattern (39 bp):
ATATAATACTGAGTTTTTTTTTAAGAACAAATCAAGTCG
Found at i:20983249 original size:26 final size:27
Alignment explanation
Indices: 20983210--20983285 Score: 95
Period size: 26 Copynumber: 2.9 Consensus size: 27
20983200 CCCTGGTTTA
*
20983210 TAAAATTATCGAAATACCGTC-AATTG
1 TAAAATTATCGAAATACCCTCGAATTG
*
20983236 TAAAATTA-CTGAAATACCCTCGACTTG
1 TAAAATTATC-GAAATACCCTCGAATTG
20983263 TAAAATTATC-AAAGTACCCTCGA
1 TAAAATTATCGAAA-TACCCTCGA
20983286 TTTACAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
25 1 0.02
26 21 0.48
27 21 0.48
28 1 0.02
ACGTcount: A:0.41, C:0.20, G:0.11, T:0.29
Consensus pattern (27 bp):
TAAAATTATCGAAATACCCTCGAATTG
Found at i:20983280 original size:27 final size:26
Alignment explanation
Indices: 20983156--20983285 Score: 102
Period size: 27 Copynumber: 4.8 Consensus size: 26
20983146 TTTAGTTTAC
* * *
20983156 TAAAATTACTGAAATACCTTTGACTTG
1 TAAAATTA-TCAAATACCCTCGACTTG
* ** *
20983183 TAAAATTACCAAAGTACCC-CTGGTTTA
1 TAAAATTATCAAA-TACCCTC-GACTTG
* *
20983210 TAAAATTATCGAAATACCGTC-AATTG
1 TAAAATTATC-AAATACCCTCGACTTG
*
20983236 TAAAATTACTGAAATACCCTCGACTTG
1 TAAAATTA-TCAAATACCCTCGACTTG
20983263 TAAAATTATCAAAGTACCCTCGA
1 TAAAATTATCAAA-TACCCTCGA
20983286 TTTACAAAAT
Statistics
Matches: 80, Mismatches: 16, Indels: 14
0.73 0.15 0.13
Matches are distributed among these distances:
26 26 0.32
27 50 0.62
28 4 0.05
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (26 bp):
TAAAATTATCAAATACCCTCGACTTG
Found at i:20983294 original size:27 final size:26
Alignment explanation
Indices: 20983184--20983417 Score: 114
Period size: 27 Copynumber: 8.7 Consensus size: 26
20983174 TTTGACTTGT
* * *
20983184 AAAATTACCAAAGTACCC-CTGGTTTAT
1 AAAATTATCAAA-TACCCTC-GATTTAC
* *
20983211 AAAATTATCGAAATACCGTCAATTGT--
1 AAAATTATC-AAATACCCTCGATT-TAC
* * **
20983237 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTA-TCAAATACCCTCGATTTAC
20983264 AAAATTATCAAAGTACCCTCGATTTAC
1 AAAATTATCAAA-TACCCTCGATTTAC
* *** *
20983291 AAAATTACCGTTTTACCCTCGATTTAT
1 AAAATTATC-AAATACCCTCGATTTAC
* **
20983318 AGAATTATCATTTTACCCTCGATTTAC
1 AAAATTATCA-AATACCCTCGATTTAC
* ****
20983345 AGAATTATTGTTTTACCCTCGATTTAC
1 AAAATTA-TCAAATACCCTCGATTTAC
* * *
20983372 AAAATTACCGAAATACCCTTGGTTTAC
1 AAAATTATC-AAATACCCTCGATTTAC
*
20983399 AAAATTACCAAAATACCCT
1 AAAATTATC-AAATACCCT
20983418 TGATCAGTAA
Statistics
Matches: 164, Mismatches: 32, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
25 1 0.01
26 22 0.13
27 135 0.82
28 6 0.04
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.33
Consensus pattern (26 bp):
AAAATTATCAAATACCCTCGATTTAC
Found at i:20983308 original size:54 final size:53
Alignment explanation
Indices: 20983206--20983407 Score: 183
Period size: 54 Copynumber: 3.8 Consensus size: 53
20983196 GTACCCCTGG
* * * ***
20983206 TTTATAAAATTATCGAAATACCGTCAATTGT--AAAATTACTGAAATACCCTCGA
1 TTTATAAAATTATC-AAATACCCTCGATT-TACAAAATTACCGTTTTACCCTCGA
* *
20983259 CTTGTAAAATTATCAAAGTACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
1 TTTATAAAATTATCAAA-TACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
* ** * **
20983313 TTTATAGAATTATCATTTTACCCTCGATTTACAGAATTATTGTTTTACCCTCGA
1 TTTATAAAATTATCA-AATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
* * * *
20983367 TTTACAAAATTACCGAAATACCCTTGGTTTACAAAATTACC
1 TTTATAAAATTATC-AAATACCCTCGATTTACAAAATTACC
20983408 AAAATACCCT
Statistics
Matches: 118, Mismatches: 26, Indels: 9
0.77 0.17 0.06
Matches are distributed among these distances:
52 4 0.03
53 21 0.18
54 92 0.78
55 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (53 bp):
TTTATAAAATTATCAAATACCCTCGATTTACAAAATTACCGTTTTACCCTCGA
Found at i:20983418 original size:27 final size:27
Alignment explanation
Indices: 20983367--20983526 Score: 160
Period size: 27 Copynumber: 5.9 Consensus size: 27
20983357 TTACCCTCGA
* * *
20983367 TTTACAAAATTACCGAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
20983394 TTTACAAAATTACCAAAATA-CCCTTG
1 TTTATAAAATTACCAAAATACCCCTGG
* * * *
20983420 ATCAGTAAAATTACTAAAATACCCCTAG
1 TTTA-TAAAATTACCAAAATACCCCTGG
* *
20983448 TTTATAAAATTACTAAAATACCCCTAG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
20983475 TATGTAAAATTACCAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
20983502 CTTGTAAAATTACTAAAATACCCCT
1 TTTATAAAATTACCAAAATACCCCT
20983527 AATTTGTGAA
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.05
27 101 0.89
28 7 0.06
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:20983443 original size:81 final size:81
Alignment explanation
Indices: 20983358--20983525 Score: 196
Period size: 81 Copynumber: 2.1 Consensus size: 81
20983348 ATTATTGTTT
* * * * * *
20983358 TACCCTCGA-TTTACAAAATTACCGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTTGA
1 TACCC-CGAGTTTACAAAATTACCAAAATACCCCTAGTATACAAAATTACCAAAATACCCCTGGC
20983421 TCAGTAAAATTACTAAAA
65 T-AGTAAAATTACTAAAA
* * * **
20983439 TACCCCTAGTTTATAAAATTACTAAAATACCCCTAGTATGTAAAATTACCAAAATACCCCTGGCT
1 TACCCCGAGTTTACAAAATTACCAAAATACCCCTAGTATACAAAATTACCAAAATACCCCTGGCT
*
20983504 TGTAAAATTACTAAAA
66 AGTAAAATTACTAAAA
20983520 TACCCC
1 TACCCC
20983526 TAATTTGTGA
Statistics
Matches: 73, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
80 2 0.03
81 65 0.89
82 6 0.08
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.29
Consensus pattern (81 bp):
TACCCCGAGTTTACAAAATTACCAAAATACCCCTAGTATACAAAATTACCAAAATACCCCTGGCT
AGTAAAATTACTAAAA
Found at i:20983525 original size:54 final size:54
Alignment explanation
Indices: 20983372--20983579 Score: 199
Period size: 54 Copynumber: 3.9 Consensus size: 54
20983362 CTCGATTTAC
* * * * *
20983372 AAAATTACCGAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTTG-ATCAGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGTAT--GT
* *
20983426 AAAATTACTAAAATACCCCTAGTTTATAAAATTACTAAAATACCCCTAGTATGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGTATGT
* * * *
20983480 AAAATTACCAAAATACCCCTGGCTTGTAAAATTACTAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGTATGT
* * * * * **
20983534 GAAATTATCGAAATA-CTCTCGATTCGTAAAA-TACTAAAATACCCCT
1 AAAATTACCAAAATACCCCT-GGTTTATAAAATTACTAAAATACCCCT
20983580 GTAGGATAGA
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
53 18 0.14
54 106 0.81
55 5 0.04
56 2 0.02
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGGTTTATAAAATTACTAAAATACCCCTAGTATGT
Found at i:20983533 original size:27 final size:27
Alignment explanation
Indices: 20983399--20983579 Score: 161
Period size: 27 Copynumber: 6.7 Consensus size: 27
20983389 CTTGGTTTAC
* * * **
20983399 AAAATTACCAAAATACCCTTGATCAGT
1 AAAATTACTAAAATACCCCTAATTTGT
* *
20983426 AAAATTACTAAAATACCCCTAGTTTAT
1 AAAATTACTAAAATACCCCTAATTTGT
* *
20983453 AAAATTACTAAAATACCCCTAGTATGT
1 AAAATTACTAAAATACCCCTAATTTGT
* ***
20983480 AAAATTACCAAAATACCCCTGGCTTGT
1 AAAATTACTAAAATACCCCTAATTTGT
20983507 AAAATTACTAAAATACCCCTAATTTGT
1 AAAATTACTAAAATACCCCTAATTTGT
* * * * *
20983534 GAAATTA-TCGAAATA-CTCTCGATTCGT
1 AAAATTACT-AAAATACCCCT-AATTTGT
20983561 AAAA-TACTAAAATACCCCT
1 AAAATTACTAAAATACCCCT
20983580 GTAGGATAGA
Statistics
Matches: 125, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
26 11 0.09
27 114 0.91
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTAATTTGT
Found at i:20983863 original size:25 final size:25
Alignment explanation
Indices: 20983825--20983894 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
20983815 AGGAAGTGCT
* *
20983825 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
20983850 AAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
20983875 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
20983895 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:20983907 original size:24 final size:23
Alignment explanation
Indices: 20983824--20983907 Score: 78
Period size: 25 Copynumber: 3.4 Consensus size: 23
20983814 GAGGAAGTGC
* *
20983824 TAAAAGGGCTATGCCCCAGTTTACC
1 TAAAAGGGCTTTGCCCCAG-TTA-T
* *
20983849 GAAAAGGGCTTTGCCCCAATTTAT
1 TAAAAGGGCTTTGCCCC-AGTTAT
*
20983873 CAAAAAGGGCTTTGCCCCAGTTAT
1 -TAAAAGGGCTTTGCCCCAGTTAT
20983897 TAAAAGAGGCT
1 TAAAAG-GGCT
20983908 AGGCCTCCAA
Statistics
Matches: 49, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
23 5 0.10
24 9 0.18
25 34 0.69
26 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.25
Consensus pattern (23 bp):
TAAAAGGGCTTTGCCCCAGTTAT
Found at i:20983918 original size:50 final size:50
Alignment explanation
Indices: 20983825--20983919 Score: 113
Period size: 50 Copynumber: 1.9 Consensus size: 50
20983815 AGGAAGTGCT
**
20983825 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAATTTATCA
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAATTTATCA
* **
20983875 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGAGGCTAGGCCTCCAATT
1 AAAAGGGCTATGCCCCAGTTTACCGAAAAG-GGCTAGGCC-CCAATT
20983920 ATATGATAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
48 5 0.13
49 10 0.26
50 23 0.61
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (50 bp):
AAAAGGGCTATGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAATTTATCA
Found at i:20985194 original size:5 final size:5
Alignment explanation
Indices: 20985184--20985260 Score: 50
Period size: 6 Copynumber: 14.2 Consensus size: 5
20985174 TATATCTTTC
* *
20985184 AAAAT AAAAT AATAAT AAAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AA-AAT AAAA-T AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
20985235 AAAAAT AAGAAT -AAA- AAAAT AAAAT A
1 -AAAAT AA-AAT AAAAT AAAAT AAAAT A
20985261 GGAGGATTCA
Statistics
Matches: 58, Mismatches: 6, Indels: 16
0.73 0.08 0.20
Matches are distributed among these distances:
4 5 0.09
5 19 0.33
6 34 0.59
ACGTcount: A:0.75, C:0.01, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:20985250 original size:18 final size:17
Alignment explanation
Indices: 20985184--20985251 Score: 73
Period size: 18 Copynumber: 3.9 Consensus size: 17
20985174 TATATCTTTC
*
20985184 AAAATAAAATAATAATA
1 AAAATAAAATAAAAATA
* * *
20985201 AAATTGAAATGAAAATA
1 AAAATAAAATAAAAATA
*
20985218 AAAATCAAAAGAAAAATA
1 AAAAT-AAAATAAAAATA
20985236 AAAATAAGAATAAAAA
1 AAAATAA-AATAAAAA
20985252 AATAAAATAG
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
17 19 0.47
18 21 0.52
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:20985258 original size:6 final size:6
Alignment explanation
Indices: 20985184--20985251 Score: 59
Period size: 6 Copynumber: 11.7 Consensus size: 6
20985174 TATATCTTTC
* * * * * *
20985184 AAAAT- AAAATA ATAAT- AAAATT GAAATG AAAATA AAAATC AAAAGA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
20985230 AAAATA AAAATA AGAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
20985252 AATAAAATAG
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
5 9 0.18
6 40 0.82
ACGTcount: A:0.75, C:0.01, G:0.06, T:0.18
Consensus pattern (6 bp):
AAAATA
Found at i:20992272 original size:18 final size:18
Alignment explanation
Indices: 20992249--20992286 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
20992239 GAGTTAAACC
20992249 TTAGGCAATGTAGATGGA
1 TTAGGCAATGTAGATGGA
20992267 TTAGGCAATGTAGATGGA
1 TTAGGCAATGTAGATGGA
20992285 TT
1 TT
20992287 GAACTGCTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.32, C:0.05, G:0.32, T:0.32
Consensus pattern (18 bp):
TTAGGCAATGTAGATGGA
Found at i:20996914 original size:40 final size:40
Alignment explanation
Indices: 20996836--20997059 Score: 310
Period size: 40 Copynumber: 5.5 Consensus size: 40
20996826 ACCCAAGTAT
* *
20996836 CTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* **
20996875 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCATGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
20996915 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
20996955 CTTCGGGACTTAGCCCGGGTATAG-CAACTACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTA---GCACAAATGC
* *
20996998 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
20997038 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
20997060 CATCCGAATA
Statistics
Matches: 166, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
39 12 0.07
40 117 0.70
41 1 0.01
43 36 0.22
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:20997032 original size:83 final size:80
Alignment explanation
Indices: 20996836--20997059 Score: 317
Period size: 83 Copynumber: 2.8 Consensus size: 80
20996826 ACCCAAGTAT
* * * *
20996836 CTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATAGT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
**
20996900 CACTAGCATGAATGC
66 CACTAGCACAAATGC
* *
20996915 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGGTATAG-
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
20996979 CAACTACTCGCACAAATGC
66 C-ACTA---GCACAAATGC
*
20996998 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
20997060 CATCCGAATA
Statistics
Matches: 129, Mismatches: 11, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
79 13 0.10
80 49 0.38
83 67 0.52
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
CACTAGCACAAATGC
Found at i:20998644 original size:40 final size:40
Alignment explanation
Indices: 20998536--20998745 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
20998526 CGGGATTTAA
* * * * *
20998536 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
20998576 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
20998616 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
20998656 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
20998696 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
20998736 CCGGATATAT
1 CCGGATATAT
20998746 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:21006779 original size:40 final size:40
Alignment explanation
Indices: 21006671--21006880 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
21006661 CGGGATTTAA
* * * * *
21006671 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
21006711 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
21006751 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
21006791 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
21006831 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
21006871 CCGGATATAT
1 CCGGATATAT
21006881 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:21011964 original size:15 final size:15
Alignment explanation
Indices: 21011926--21011969 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
21011916 CATAGTATCG
* *
21011926 TATCTTGGGTTTCTT
1 TATCTTGGATTTCTC
21011941 TAT-TCTGGATTTCTC
1 TATCT-TGGATTTCTC
21011956 TATCTTGGATTTCT
1 TATCTTGGATTTCT
21011970 TTATTCGGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:21014512 original size:46 final size:45
Alignment explanation
Indices: 21014353--21014526 Score: 206
Period size: 46 Copynumber: 3.8 Consensus size: 45
21014343 GGTTGAGCAT
* *
21014353 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
*** * * * *
21014398 CCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCAACGC
*
21014443 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
21014491 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21014527 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
45 31 0.29
46 46 0.43
47 28 0.26
48 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:21017463 original size:15 final size:15
Alignment explanation
Indices: 21017419--21017474 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
21017409 GTATCTTGGG
*
21017419 TTTCTTTATTCTAGA
1 TTTCTTTATTCTGGA
21017434 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
21017449 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
21017464 TTTCCTTATTC
1 TTTCTTTATTC
21017475 GGTTTCCTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 2 0.06
15 31 0.89
16 2 0.06
ACGTcount: A:0.14, C:0.18, G:0.09, T:0.59
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:21019908 original size:46 final size:46
Alignment explanation
Indices: 21019858--21020031 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 46
21019848 GGTTGAGCAT
*
21019858 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
*** * * ** *
21019904 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACGTC
* * *
21019951 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
* *
21019997 CGAGCTAGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
21020032 GCGGTTACAT
Statistics
Matches: 104, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
46 69 0.66
47 35 0.34
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC
Found at i:21020021 original size:93 final size:92
Alignment explanation
Indices: 21019854--21020023 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 92
21019844 GGATGGTTGA
* * *
21019854 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTT
1 GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTAGTTGAGTT
21019919 GAGTCCGAGTTCGAGAGATGTAACTAG
66 GAGTCCGAGTTCGAGAGATGTAACTAG
* * *
21019946 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTAGTTGAGT
1 GCAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTAGTTGAGT
21020011 TGAGTCCGAGTTC
65 TGAGTCCGAGTTC
21020024 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
92 4 0.06
93 67 0.94
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (92 bp):
GCATCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTAGTTGAGTT
GAGTCCGAGTTCGAGAGATGTAACTAG
Found at i:21024632 original size:40 final size:39
Alignment explanation
Indices: 21024574--21024712 Score: 138
Period size: 37 Copynumber: 3.5 Consensus size: 39
21024564 AAACACTAGT
* *
21024574 TTGGCACCCAATGCCTCATTGGATAATTCGAAGTAGTAAA
1 TTGGCACCCAGTGCCTCATTGGATAATAC-AAGTAGTAAA
* * *
21024614 TTGGCACCCAGTGTCTCATTGGTTAA-AC-AGAAGTAAA
1 TTGGCACCCAGTGCCTCATTGGATAATACAAGTAGTAAA
* * * *
21024651 TTGCCACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAA
1 TTGGCACCCAGTGCCTCATTGGA-TAATAC-AAGTAGTAAA
* *
21024692 TTGACACCCAGTGTCTCATTG
1 TTGGCACCCAGTGCCTCATTG
21024713 ACTCGAAGGC
Statistics
Matches: 80, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 26 0.32
38 3 0.04
39 2 0.03
40 23 0.29
41 26 0.32
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (39 bp):
TTGGCACCCAGTGCCTCATTGGATAATACAAGTAGTAAA
Found at i:21024700 original size:41 final size:39
Alignment explanation
Indices: 21024578--21024713 Score: 125
Period size: 41 Copynumber: 3.5 Consensus size: 39
21024568 ACTAGTTTGG
* * *
21024578 CACCCAATGCCTCATTGGA-TAATTCGAAGTAGTAAATTGG
1 CACCCAGTGCCTCATT-GATTAA-TCAAAGTAGTAAATTGA
* * * * *
21024618 CACCCAGTGTCTCATTGGTTAA--ACAGAAGTAAATTGC
1 CACCCAGTGCCTCATTGATTAATCAAAGTAGTAAATTGA
*
21024655 CACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATTG-ATTAAT-CAAAGTAGTAAATTGA
*
21024696 CACCCAGTGTCTCATTGA
1 CACCCAGTGCCTCATTGA
21024714 CTCGAAGGCA
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
37 26 0.34
38 4 0.05
39 1 0.01
40 18 0.24
41 27 0.36
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (39 bp):
CACCCAGTGCCTCATTGATTAATCAAAGTAGTAAATTGA
Found at i:21024861 original size:2 final size:2
Alignment explanation
Indices: 21024849--21024877 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21024839 CAAATAATCA
21024849 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21024878 CAATTTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21025976 original size:25 final size:25
Alignment explanation
Indices: 21025937--21025984 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
21025927 TTTAACAAAT
*
21025937 AAATCCTTAATCAAAATTTTTTTCA
1 AAATCCTTAATCAAAATATTTTTCA
21025962 AAATCACTTAA-CAAAATATTTTT
1 AAATC-CTTAATCAAAATATTTTT
21025985 AAATAACAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATCCTTAATCAAAATATTTTTCA
Found at i:21031569 original size:43 final size:43
Alignment explanation
Indices: 21031505--21031679 Score: 205
Period size: 43 Copynumber: 4.1 Consensus size: 43
21031495 TCACATAAAG
* * *
21031505 CTCATA-CAATGCC-ATATCCCAGATATGGTCTTACATGTTAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
21031546 CTCATATCGATGCCAATGTCCCAGACATGGTCTTACATGAAAT
1 CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* * * *
21031589 CAT-ATAACAATGCCAATGTTCCAGACATGGTCTTAGACGTAAT
1 C-TCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
* *
21031632 CACA-ATACAATGCCAATGTCCCAGACATGGTTTTACATGTAAT
1 CTCATAT-CAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
21031675 CTCAT
1 CTCAT
21031680 CTCGACAATC
Statistics
Matches: 110, Mismatches: 18, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
41 6 0.05
42 7 0.06
43 96 0.87
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
CTCATATCAATGCCAATGTCCCAGACATGGTCTTACATGTAAT
Found at i:21031999 original size:17 final size:18
Alignment explanation
Indices: 21031970--21032003 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
21031960 GTTCAATTTA
21031970 ACAAAATTTACACTTTTT
1 ACAAAATTTACACTTTTT
21031988 ACAAAA-TTACACTTTT
1 ACAAAATTTACACTTTT
21032004 GCCCCTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.41, C:0.18, G:0.00, T:0.41
Consensus pattern (18 bp):
ACAAAATTTACACTTTTT
Found at i:21035775 original size:47 final size:48
Alignment explanation
Indices: 21035679--21035776 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
21035669 GTATGTGATG
21035679 TTAGATAAAATTTGTAAAAAATTTCCCCTGATGGTAAAAGGTTATTTT
1 TTAGATAAAATTTGTAAAAAATTTCCCCTGATGGTAAAAGGTTATTTT
*
21035727 TTAGATAAAATTTGTAAAAATTTTCCCCTGATGGTAAAAGGTTATTTT
1 TTAGATAAAATTTGTAAAAAATTTCCCCTGATGGTAAAAGGTTATTTT
21035775 TT
1 TT
21035777 CTCAGCTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (48 bp):
TTAGATAAAATTTGTAAAAAATTTCCCCTGATGGTAAAAGGTTATTTT
Found at i:21039561 original size:20 final size:20
Alignment explanation
Indices: 21039538--21039599 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
21039528 ATTTTGAAAT
21039538 TTATGGTAGAAAATGAAAGA
1 TTATGGTAGAAAATGAAAGA
* * *
21039558 TTATGCT-GAAATTTTGAAA-T
1 TTATGGTAGAAA--ATGAAAGA
21039578 TTATGGTAGAAAATGAAAGA
1 TTATGGTAGAAAATGAAAGA
21039598 TT
1 TT
21039600 GTTGATAGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
19 9 0.28
20 14 0.44
21 9 0.28
ACGTcount: A:0.44, C:0.02, G:0.21, T:0.34
Consensus pattern (20 bp):
TTATGGTAGAAAATGAAAGA
Found at i:21039564 original size:40 final size:40
Alignment explanation
Indices: 21039519--21039599 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
21039509 CAATGATGAG
21039519 TATGCTGAAATTTTGAAATTTATGGTAGAAAATGAAAGAT
1 TATGCTGAAATTTTGAAATTTATGGTAGAAAATGAAAGAT
21039559 TATGCTGAAATTTTGAAATTTATGGTAGAAAATGAAAGAT
1 TATGCTGAAATTTTGAAATTTATGGTAGAAAATGAAAGAT
21039599 T
1 T
21039600 GTTGATAGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.42, C:0.02, G:0.20, T:0.36
Consensus pattern (40 bp):
TATGCTGAAATTTTGAAATTTATGGTAGAAAATGAAAGAT
Found at i:21039885 original size:21 final size:20
Alignment explanation
Indices: 21039851--21039896 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
21039841 CTAAAATGTG
* *
21039851 AATTTGATTGAATTGAATATA
1 AATTTCATTAAATTGAAT-TA
*
21039872 AATTTCATTAAATTGAGTTA
1 AATTTCATTAAATTGAATTA
21039892 AATTT
1 AATTT
21039897 ACTCATATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (20 bp):
AATTTCATTAAATTGAATTA
Found at i:21043744 original size:2 final size:2
Alignment explanation
Indices: 21043737--21043785 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
21043727 CTCTTCCTTT
21043737 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
21043779 TA TA TA T
1 TA TA TA T
21043786 TAGTTAAAAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21044610 original size:2 final size:2
Alignment explanation
Indices: 21044598--21044631 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21044588 GTGCCTATTA
*
21044598 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21044632 TAATTAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21048481 original size:21 final size:21
Alignment explanation
Indices: 21048455--21048495 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21048445 ATCTGCTCAA
* *
21048455 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
21048476 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
21048496 TCGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:21054798 original size:34 final size:37
Alignment explanation
Indices: 21054760--21054828 Score: 99
Period size: 38 Copynumber: 1.9 Consensus size: 37
21054750 GGTGAAACAA
21054760 TTTATATAAAAT-AT-ATAA-AAATATTAGAATAAAT
1 TTTATATAAAATAATAATAATAAATATTAGAATAAAT
*
21054794 TTTATTTAAAATAATAAATAATAAATATTAGAATA
1 TTTATATAAAATAAT-AATAATAAATATTAGAATA
21054829 TAGATACTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 11 0.37
35 2 0.07
37 4 0.13
38 13 0.43
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (37 bp):
TTTATATAAAATAATAATAATAAATATTAGAATAAAT
Found at i:21055466 original size:9 final size:9
Alignment explanation
Indices: 21055452--21055477 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21055442 GTTACATAGA
21055452 AACTAAATG
1 AACTAAATG
21055461 AACTAAATG
1 AACTAAATG
21055470 AACTAAAT
1 AACTAAAT
21055478 AAGTTATGGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.12, G:0.08, T:0.23
Consensus pattern (9 bp):
AACTAAATG
Found at i:21055550 original size:23 final size:23
Alignment explanation
Indices: 21055515--21055560 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21055505 TGTTGATCTT
* * *
21055515 CATGTTGAGCTGCTGCTAGTCTC
1 CATGCTGAACTGCTACTAGTCTC
*
21055538 CATGCTGAACTGCTACTGGTCTC
1 CATGCTGAACTGCTACTAGTCTC
21055561 TTGTTGCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (23 bp):
CATGCTGAACTGCTACTAGTCTC
Found at i:21060050 original size:23 final size:23
Alignment explanation
Indices: 21060015--21060060 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21060005 TGTTGATCTT
* * *
21060015 CATGTTGAGCTGCTGCTAGTCTC
1 CATGCTGAACTGCTACTAGTCTC
*
21060038 CATGCTGAACTGCTACTGGTCTC
1 CATGCTGAACTGCTACTAGTCTC
21060061 TTGTTGCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (23 bp):
CATGCTGAACTGCTACTAGTCTC
Found at i:21063509 original size:17 final size:17
Alignment explanation
Indices: 21063468--21063502 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
21063458 CCAATCATAA
21063468 TGGAATAAATATCAAAT
1 TGGAATAAATATCAAAT
*
21063485 TGGAATAAATGTCAAAT
1 TGGAATAAATATCAAAT
21063502 T
1 T
21063503 TGTATAAGAA
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:0.49, C:0.06, G:0.14, T:0.31
Consensus pattern (17 bp):
TGGAATAAATATCAAAT
Found at i:21068174 original size:29 final size:28
Alignment explanation
Indices: 21068142--21068212 Score: 74
Period size: 29 Copynumber: 2.4 Consensus size: 28
21068132 AATTAGTAAT
21068142 GATAAAATTATATTTTAA-CTTTTAAAAAA
1 GATAAAATTATA-TTTAATCTTTT-AAAAA
21068171 GATAAAAATT-TGATTTAATCTTTTAAAAA
1 GAT-AAAATTAT-ATTTAATCTTTTAAAAA
*
21068200 GTATAAAAATATA
1 G-ATAAAATTATA
21068213 GACAATAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (28 bp):
GATAAAATTATATTTAATCTTTTAAAAA
Found at i:21078518 original size:2 final size:2
Alignment explanation
Indices: 21078476--21078500 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21078466 GTACCATAAC
21078476 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
21078501 CCTTGAGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:21085746 original size:14 final size:15
Alignment explanation
Indices: 21085729--21085757 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21085719 TCACGAAAAT
21085729 TTCACACAT-ATAAA
1 TTCACACATAATAAA
21085743 TTCACACATAATAAA
1 TTCACACATAATAAA
21085758 CATATAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:21091348 original size:25 final size:25
Alignment explanation
Indices: 21091320--21091411 Score: 123
Period size: 25 Copynumber: 3.7 Consensus size: 25
21091310 GACACACTAC
* * *
21091320 AGCTCGTATGAGCTTTCCGATTCAT
1 AGCTCGTATGAGCATACTGATTCAT
*
21091345 AGCTCATGA-GAGCATACTGATTCAT
1 AGCTCGT-ATGAGCATACTGATTCAT
21091370 AGCTCGTATGAGCATACTGATTCAT
1 AGCTCGTATGAGCATACTGATTCAT
*
21091395 AACTCGTATGAGCATAC
1 AGCTCGTATGAGCATAC
21091412 ATGAATATGA
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
24 1 0.02
25 57 0.97
26 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (25 bp):
AGCTCGTATGAGCATACTGATTCAT
Found at i:21092733 original size:20 final size:21
Alignment explanation
Indices: 21092704--21092766 Score: 78
Period size: 20 Copynumber: 3.1 Consensus size: 21
21092694 TACTTAAATT
21092704 TTAATTATAAAATATA-TATA
1 TTAATTATAAAATATATTATA
* * *
21092724 TTAGTTATAAATTATATTAAA
1 TTAATTATAAAATATATTATA
21092745 TTAATT-TAAAATA-ATTATA
1 TTAATTATAAAATATATTATA
21092764 TTA
1 TTA
21092767 TAAGATATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
19 8 0.22
20 20 0.56
21 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (21 bp):
TTAATTATAAAATATATTATA
Found at i:21092892 original size:15 final size:15
Alignment explanation
Indices: 21092872--21092910 Score: 78
Period size: 15 Copynumber: 2.6 Consensus size: 15
21092862 CTATAATTAA
21092872 TTATTAAATAGATAT
1 TTATTAAATAGATAT
21092887 TTATTAAATAGATAT
1 TTATTAAATAGATAT
21092902 TTATTAAAT
1 TTATTAAAT
21092911 GATTATATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (15 bp):
TTATTAAATAGATAT
Found at i:21092931 original size:26 final size:28
Alignment explanation
Indices: 21092866--21092934 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
21092856 GTAATACTAT
*
21092866 AATTA-ATTATTAAATAGATATTTATTA
1 AATTATATTATTAAATAGATATATATTA
*
21092893 AATAGATATTTATTAAAT-GAT-TATATTA
1 AAT-TATA-TTATTAAATAGATATATATTA
*
21092921 CATTATATTATTAA
1 AATTATATTATTAA
21092935 TAAATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
26 7 0.20
27 6 0.17
28 9 0.26
29 4 0.11
30 9 0.26
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (28 bp):
AATTATATTATTAAATAGATATATATTA
Found at i:21092990 original size:16 final size:16
Alignment explanation
Indices: 21092961--21092995 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21092951 GTAATAAAAG
21092961 AAACAAAAAGGAAACA
1 AAACAAAAAGGAAACA
21092977 AAACATAAAA-GAAACA
1 AAACA-AAAAGGAAACA
21092993 AAA
1 AAA
21092996 AGCATTGGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.77, C:0.11, G:0.09, T:0.03
Consensus pattern (16 bp):
AAACAAAAAGGAAACA
Found at i:21093454 original size:11 final size:11
Alignment explanation
Indices: 21093423--21093474 Score: 50
Period size: 12 Copynumber: 4.5 Consensus size: 11
21093413 GTTAAGATTA
*
21093423 AAATTGAAATT
1 AAATAGAAATT
21093434 AAAGTAGAAATT
1 AAA-TAGAAATT
*
21093446 GAATAGAAATT
1 AAATAGAAATT
*
21093457 TAATAAGAAATTT
1 AAAT-AGAAA-TT
21093470 AAATA
1 AAATA
21093475 TTAAATGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 14 0.41
12 15 0.44
13 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.31
Consensus pattern (11 bp):
AAATAGAAATT
Found at i:21093971 original size:21 final size:21
Alignment explanation
Indices: 21093919--21093977 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
21093909 GTCGATCAAA
21093919 CACTATATGTGTCGTATTAGG
1 CACTATATGTGTCGTATTAGG
* ** *
21093940 CACCACGTGTGTCGTTTTAGG
1 CACTATATGTGTCGTATTAGG
*
21093961 CACTTTATGTGTCGTAT
1 CACTATATGTGTCGTAT
21093978 ATTGCTTCTG
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.39
Consensus pattern (21 bp):
CACTATATGTGTCGTATTAGG
Found at i:21094553 original size:2 final size:2
Alignment explanation
Indices: 21094546--21094579 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
21094536 TACCTAGGTC
21094546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21094580 GTCGTATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21110108 original size:31 final size:31
Alignment explanation
Indices: 21110065--21110127 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
21110055 TAAAGAACAC
21110065 TTGTCAAATAATGATTGGAAGTCCCAAGTTA
1 TTGTCAAATAATGATTGGAAGTCCCAAGTTA
* *
21110096 TTGTTAAATAATGATTGGAAGTCTCAAGTTA
1 TTGTCAAATAATGATTGGAAGTCCCAAGTTA
21110127 T
1 T
21110128 CAGTTGTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (31 bp):
TTGTCAAATAATGATTGGAAGTCCCAAGTTA
Found at i:21111307 original size:9 final size:9
Alignment explanation
Indices: 21111295--21111330 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
21111285 TTTATTTTTT
21111295 ATTTTTATA
1 ATTTTTATA
21111304 ATTTTTTATA
1 A-TTTTTATA
21111314 TATTTTTATA
1 -ATTTTTATA
21111324 ATTTTTA
1 ATTTTTA
21111331 AAGTTGATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 8 0.32
10 16 0.64
11 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTTTATA
Found at i:21112073 original size:16 final size:18
Alignment explanation
Indices: 21112052--21112084 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
21112042 TTTAATATAA
21112052 AATTAA-AC-AAATTTAC
1 AATTAACACTAAATTTAC
21112068 AATTAACACTAAATTTA
1 AATTAACACTAAATTTA
21112085 TTCTATTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (18 bp):
AATTAACACTAAATTTAC
Found at i:21127005 original size:106 final size:106
Alignment explanation
Indices: 21126820--21127042 Score: 338
Period size: 106 Copynumber: 2.1 Consensus size: 106
21126810 TATGGATTAC
* * * * *
21126820 CGAGCTTTGTACTATGGTGCTTTGGTGTGGTGTAGTTAACACTTTTTTAAGCCATTTGGTATGGT
1 CGAGCTTTGCACTATGATGCCTTGATGTGGTGTAGTTAACACTTTTTTAAGCCATTTGGTATAGT
21126885 GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
66 GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
* * *
21126926 CGAGCTTTGCACTATGATGCCTTGATGTGGTGTAGTTAACTCTTTTTTGAGCCATTTGGTGTAGT
1 CGAGCTTTGCACTATGATGCCTTGATGTGGTGTAGTTAACACTTTTTTAAGCCATTTGGTATAGT
* * *
21126991 GGAGGGATGAAATATATTACATGATAGGATATTTGTGCCTA
66 GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
*
21127032 CGGGCTTTGCA
1 CGAGCTTTGCA
21127043 TTACGGTCTT
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
106 105 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (106 bp):
CGAGCTTTGCACTATGATGCCTTGATGTGGTGTAGTTAACACTTTTTTAAGCCATTTGGTATAGT
GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
Found at i:21127082 original size:106 final size:106
Alignment explanation
Indices: 21126820--21127083 Score: 332
Period size: 106 Copynumber: 2.5 Consensus size: 106
21126810 TATGGATTAC
* * * * *
21126820 CGAGCTTTGTACTATGGTGCTTTGGTGTGGTGTAGTTAACACTTTTTTAAGCCATTTGGTATGGT
1 CGAGCTTTGCACTACGATGCTTTGGTGTGGTGTAGTTAACACTTTTTTGAGCCATTTGGTATAGT
21126885 GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
66 GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
* * * * *
21126926 CGAGCTTTGCACTATGATGCCTTGATGTGGTGTAGTTAACTCTTTTTTGAGCCATTTGGTGTAGT
1 CGAGCTTTGCACTACGATGCTTTGGTGTGGTGTAGTTAACACTTTTTTGAGCCATTTGGTATAGT
* * *
21126991 GGAGGGATGAAATATATTACATGATAGGATATTTGTGCCTA
66 GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
* * * * * * *
21127032 CGGGCTTTGCATTACGGT-CTTTGGGTGTGGTGTTGTTATCACTCTATTGAGC
1 CGAGCTTTGCACTACGATGCTTT-GGTGTGGTGTAGTTAACACTTTTTTGAGC
21127084 TATCTGGTCT
Statistics
Matches: 135, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
105 3 0.02
106 132 0.98
ACGTcount: A:0.22, C:0.12, G:0.27, T:0.39
Consensus pattern (106 bp):
CGAGCTTTGCACTACGATGCTTTGGTGTGGTGTAGTTAACACTTTTTTGAGCCATTTGGTATAGT
GAAGGGATGAAATATATTACATGATAAGATATTTGTGCATA
Found at i:21135027 original size:14 final size:14
Alignment explanation
Indices: 21135010--21135042 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
21135000 GTTAAGATTA
21135010 TTAGG-TTATTCGGG
1 TTAGGTTTATT-GGG
21135024 TTAGGTTTATTGGG
1 TTAGGTTTATTGGG
21135038 TTAGG
1 TTAGG
21135043 GGTTAGTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.15, C:0.03, G:0.36, T:0.45
Consensus pattern (14 bp):
TTAGGTTTATTGGG
Done.