Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 195 of 362
Found at i:65374747 original size:98 final size:94
Alignment explanation
Indices: 65374440--65374790 Score: 301
Period size: 92 Copynumber: 3.7 Consensus size: 94
65374430 TGTGCTAGTA
* * * *
65374440 TAAGACATGTCTGGGACATGCATCGGCCA-C-AT-TATGAAAGCCAGTGTAAGACATGTCTGGGA
1 TAAGACCTGTCTGGGACATGCATC-GACATCGATATATGAGAGCCAGTGTAAGACCTGTCTGGGA
* *
65374502 CAT-GCATCAGCATTGAGAC--GAGAGCCAGTT
65 CATGGCATCAGC-TTGA-ACATGA-AGTCAGTG
* * * * * * *
65374532 TAAGACATGTCTGGGACATGCATCGGCCTCGAGATATGCA-AGCTAGTGTAAGATCTATCTGGGA
1 TAAGACCTGTCTGGGACATGCATCGACATCGATATATG-AGAGCCAGTGTAAGACCTGTCTGGGA
* *
65374596 CATGGCATCGGCTTG-ACATG-TGTCAGTG
65 CATGGCATCAGCTTGAACATGAAGTCAGTG
* *
65374624 TAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGCCAGTGTAAGACCTGTCTCGGA
1 TAAGACCTGTCTGGGACAT-GCATCGACATCGATATATGAGAGCCAGTGTAAGACCTGTCTGGGA
65374689 CATGGCATCAGCTTCGATACATGAAAGTCAGTG
65 CATGGCATCAGCTT-GA-ACATG-AAGTCAGTG
*** * * * * *
65374722 TAAGACCTGTCTAAAACATGCCATCGACTTAGATATAT--GAGCCAGTGTATGACCTTGTTTGGA
1 TAAGACCTGTCTGGGACATG-CATCGACATCGATATATGAGAGCCAGTGTAAGACC-TGTCTGGG
65374785 ACATGG
64 ACATGG
65374791 GATTGGCATT
Statistics
Matches: 211, Mismatches: 32, Indels: 27
0.78 0.12 0.10
Matches are distributed among these distances:
91 2 0.01
92 51 0.24
93 49 0.23
94 32 0.15
95 8 0.04
96 20 0.09
97 12 0.06
98 37 0.18
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (94 bp):
TAAGACCTGTCTGGGACATGCATCGACATCGATATATGAGAGCCAGTGTAAGACCTGTCTGGGAC
ATGGCATCAGCTTGAACATGAAGTCAGTG
Found at i:65379341 original size:27 final size:27
Alignment explanation
Indices: 65379311--65379488 Score: 115
Period size: 27 Copynumber: 6.6 Consensus size: 27
65379301 ATATTGAGCC
* * *
65379311 CGCACACTCAGTGCTATACAATCAACT
1 CGCACACTTAGTGCTACACAATCAAAT
* **
65379338 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACACAATCAAAT
* * * *
65379365 CGCACACTTAGTGCTACATAGTTAGACT
1 CGCACACTTAGTGCTACACAATCA-AAT
** *** *
65379393 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACACAATCAAAT
* * **
65379420 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CACAATCAAAT
* * * *
65379447 CGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTACACAATCAAAT
65379474 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65379489 GTACAATTTA
Statistics
Matches: 123, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACACAATCAAAT
Found at i:65379404 original size:55 final size:55
Alignment explanation
Indices: 65379311--65379488 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 55
65379301 ATATTGAGCC
* * *
65379311 CGCACACTCAGTGCTATACA-A-TCAACTCGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTAT-CATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
* * *
65379365 CGCACACTTAGTGCTA-CATAGTT-AGACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTATCATA-TTCA-ACTCGCACACTTAGTGCCACATAGTCAAAT
** * *
65379420 CGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAAT
1 CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
65379474 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65379489 GTACAATTTA
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.02
53 1 0.01
54 56 0.54
55 45 0.43
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (55 bp):
CGCACACTTAGTGCTATCATATTCAACTCGCACACTTAGTGCCACATAGTCAAAT
Found at i:65379450 original size:82 final size:81
Alignment explanation
Indices: 65379332--65379487 Score: 215
Period size: 82 Copynumber: 1.9 Consensus size: 81
65379322 TGCTATACAA
* * *
65379332 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTTAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAG-TAGAATCGCA
65379397 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
65379414 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCA
65379478 CACTTAGTGC
65 CACTTAGTGC
65379488 TGTACAATTT
Statistics
Matches: 65, Mismatches: 8, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
81 20 0.31
82 45 0.69
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCAACATAGTAGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65387066 original size:30 final size:30
Alignment explanation
Indices: 65387030--65387092 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
65387020 TATAATTAAG
65387030 ATATATTAACTTATCAATTTAGATATTATA
1 ATATATTAACTTATCAATTTAGATATTATA
65387060 ATATATTAACTTATCAATTTAGATATTATA
1 ATATATTAACTTATCAATTTAGATATTATA
65387090 ATA
1 ATA
65387093 GAAAATTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.46
Consensus pattern (30 bp):
ATATATTAACTTATCAATTTAGATATTATA
Found at i:65388305 original size:143 final size:143
Alignment explanation
Indices: 65388047--65388323 Score: 536
Period size: 143 Copynumber: 1.9 Consensus size: 143
65388037 AATTGAACAT
*
65388047 AAGAATTTAGAGTGGTTGGGCCTCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
1 AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
65388112 TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
66 TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
65388177 TTTCACCATACAC
131 TTTCACCATACAC
65388190 AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
1 AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
*
65388255 TTTTCTAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
66 TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
65388320 TTTC
131 TTTC
65388324 TACCCAAATC
Statistics
Matches: 132, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 132 1.00
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (143 bp):
AAGAATTTAGAGTGGTTGGGCCCCAATTGCCTACTCCACTACCTTAGCTTTCCACAACTAAGTAT
TTTTCCAAATTCACTAATTTGATCAACCTTTGAGGATAATGTTTAACCTTACAACTCCCTTAAGA
TTTCACCATACAC
Found at i:65403851 original size:48 final size:48
Alignment explanation
Indices: 65403797--65403969 Score: 190
Period size: 48 Copynumber: 3.6 Consensus size: 48
65403787 ATCGTAATGG
*
65403797 CATGTAAGACCATAGCTGAGACATGGCATTGGCATC-AGTATATGATCC
1 CATGTAAGACCATAGCTGGGACATGGCATTGGCATCGA-TATATGATCC
* *
65403845 CATGTAACACCAT-GTCTGGGACATGGCATTGGCATCGATATGTGATCC
1 CATGTAAGACCATAG-CTGGGACATGGCATTGGCATCGATATATGATCC
* * * * * * **
65403893 CATGTAAGACCATATCTGGGATATGGCGTTGGCATTGATATGTAATTT
1 CATGTAAGACCATAGCTGGGACATGGCATTGGCATCGATATATGATCC
*
65403941 CGTGTAAGACCAT-GTCTGGGACATGGCAT
1 CATGTAAGACCATAG-CTGGGACATGGCAT
65403970 CGATATGAGA
Statistics
Matches: 106, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
47 1 0.01
48 104 0.98
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.28
Consensus pattern (48 bp):
CATGTAAGACCATAGCTGGGACATGGCATTGGCATCGATATATGATCC
Found at i:65406337 original size:23 final size:23
Alignment explanation
Indices: 65406307--65406353 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
65406297 TGTGATTTTG
65406307 TGAAGTTTTGTAAAAGTGTTTCA
1 TGAAGTTTTGTAAAAGTGTTTCA
65406330 TGAAGTTTTGTAAAAGTGTTTCA
1 TGAAGTTTTGTAAAAGTGTTTCA
65406353 T
1 T
65406354 TATAGTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.04, G:0.21, T:0.45
Consensus pattern (23 bp):
TGAAGTTTTGTAAAAGTGTTTCA
Found at i:65410202 original size:54 final size:54
Alignment explanation
Indices: 65410120--65410227 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
65410110 GCTAACATGG
*
65410120 GAATTGGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
1 GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
65410174 GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
1 GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
65410228 AAAAGTGATT
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.07, G:0.36, T:0.24
Consensus pattern (54 bp):
GAATTAGTGAGAAGCTGGCTTTAAATAGAGTGAACCAGATGAGTTGGTGAGGGA
Found at i:65411156 original size:22 final size:22
Alignment explanation
Indices: 65411131--65411177 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
65411121 GTTGCTGCAA
* *
65411131 TGTCTACGGTGTTGAGCGC-TCC
1 TGTCTACAGCGTTGAGC-CATCC
65411153 TGTCTACAGCGTTGAGCCATCC
1 TGTCTACAGCGTTGAGCCATCC
65411175 TGT
1 TGT
65411178 TGACTTACTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.13, C:0.28, G:0.28, T:0.32
Consensus pattern (22 bp):
TGTCTACAGCGTTGAGCCATCC
Found at i:65414119 original size:10 final size:10
Alignment explanation
Indices: 65414104--65414144 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
65414094 CAAATGTTAT
65414104 AAAAGAAAAA
1 AAAAGAAAAA
65414114 AAAAGAAAAA
1 AAAAGAAAAA
65414124 AAGAAGAAAACA
1 AA-AAGAAAA-A
*
65414136 GAAAGAAAA
1 AAAAGAAAA
65414145 GAATAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.83, C:0.02, G:0.15, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:65414144 original size:19 final size:18
Alignment explanation
Indices: 65414104--65414181 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
65414094 CAAATGTTAT
* *
65414104 AAAAGAAAAAAAAAGAAA
1 AAAAGAAGAAAACAGAAA
65414122 AAAAGAAGAAAACAGAAA
1 AAAAGAAGAAAACAGAAA
* *
65414140 GAAAAGAATAATAATA-AAGA
1 -AAAAGAAGAA-AACAGAA-A
*
65414160 AAAAGAAGAAGACA-AAA
1 AAAAGAAGAAAACAGAAA
65414177 AAAAG
1 AAAAG
65414182 TACAAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
17 6 0.12
18 20 0.40
19 20 0.40
20 4 0.08
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.04
Consensus pattern (18 bp):
AAAAGAAGAAAACAGAAA
Found at i:65414968 original size:43 final size:42
Alignment explanation
Indices: 65414888--65414969 Score: 128
Period size: 43 Copynumber: 1.9 Consensus size: 42
65414878 GATAATCCTA
***
65414888 GAAAAAAAATTTAAAAAGAGGAGAAGATAATTTTGGGTTGTT
1 GAAAAAAAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
65414930 GAAAAAATAATTTAAAAAGAGGAGAAGATAAACATGGGTT
1 GAAAAAA-AATTTAAAAAGAGGAGAAGATAAACATGGGTT
65414970 ATTGGATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
42 7 0.19
43 29 0.81
ACGTcount: A:0.51, C:0.01, G:0.23, T:0.24
Consensus pattern (42 bp):
GAAAAAAAATTTAAAAAGAGGAGAAGATAAACATGGGTTGTT
Found at i:65420189 original size:20 final size:20
Alignment explanation
Indices: 65420160--65420204 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
65420150 AGCACATGTA
*
65420160 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAATTT
*
65420180 TTCATCAAATTTTACAATTT
1 TTCATAAAATTTTACAATTT
65420200 TTCAT
1 TTCAT
65420205 TTTAGTCCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (20 bp):
TTCATAAAATTTTACAATTT
Found at i:65420687 original size:17 final size:17
Alignment explanation
Indices: 65420658--65420691 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
65420648 GACCTCTAGT
65420658 TTTGAATTCCATAGCTA
1 TTTGAATTCCATAGCTA
65420675 TTTG-ATTCTCATAGCTA
1 TTTGAATTC-CATAGCTA
65420692 CTAGAATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.44
Consensus pattern (17 bp):
TTTGAATTCCATAGCTA
Found at i:65430216 original size:36 final size:36
Alignment explanation
Indices: 65430160--65430231 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
65430150 GCCACGAAAG
65430160 AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
1 AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
* * *
65430196 AAAGTTCACCGGTTTGGCAGTAAAGGCAAACTAACT
1 AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
65430232 CTATGGTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (36 bp):
AAAGTTCACCAGTTTAGCAGTAAAGGAAAACTAACT
Found at i:65434502 original size:32 final size:32
Alignment explanation
Indices: 65434466--65434529 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
65434456 GTTGAAGATG
65434466 ACAAAATAAGATGATATTTTCTTTTTATCATC
1 ACAAAATAAGATGATATTTTCTTTTTATCATC
65434498 ACAAAATAAGATGATATTTTCTTTTTATCATC
1 ACAAAATAAGATGATATTTTCTTTTTATCATC
65434530 TTTTAATTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (32 bp):
ACAAAATAAGATGATATTTTCTTTTTATCATC
Found at i:65450934 original size:46 final size:48
Alignment explanation
Indices: 65450867--65450963 Score: 144
Period size: 48 Copynumber: 2.1 Consensus size: 48
65450857 ACAGGATAGA
* *
65450867 AATGAGCCATGTAAGTCCATA-T-CAGATATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGAGACAGG
* *
65450913 AATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGAGACAGG
65450961 AAT
1 AAT
65450964 AATTCATGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
46 20 0.44
47 1 0.02
48 24 0.53
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (48 bp):
AATGAGCCATGTAAGCCCATATTACAGATATATGGCATTGGAGACAGG
Found at i:65454037 original size:29 final size:29
Alignment explanation
Indices: 65453995--65454082 Score: 142
Period size: 29 Copynumber: 3.1 Consensus size: 29
65453985 CTATTTTCAC
*
65453995 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCCTTTAGGCCCAAATCACATTTAT
65454024 ATGGCCCTTTAGGCCCAAATCACATTTAT
1 ATGGCCCTTTAGGCCCAAATCACATTTAT
* *
65454053 GTGGCCCTTTAGGCCTAAATCACA-TTAT
1 ATGGCCCTTTAGGCCCAAATCACATTTAT
65454081 AT
1 AT
65454083 TCATGCTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 5 0.09
29 50 0.91
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (29 bp):
ATGGCCCTTTAGGCCCAAATCACATTTAT
Found at i:65454326 original size:16 final size:16
Alignment explanation
Indices: 65454294--65454336 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
65454284 ATAGCCAAAC
*
65454294 TTTCGGCATTTCAGCA
1 TTTCGGCTTTTCAGCA
*
65454310 -TTCTGGCTTTTCGGCA
1 TTTC-GGCTTTTCAGCA
65454326 TTTCGGCTTTT
1 TTTCGGCTTTT
65454337 GCCGATCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.13
16 17 0.74
17 3 0.13
ACGTcount: A:0.09, C:0.23, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTCAGCA
Found at i:65456344 original size:22 final size:22
Alignment explanation
Indices: 65456319--65456363 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
65456309 TAACATTAAC
65456319 ATGTCTAGAAGGAATATATTAT
1 ATGTCTAGAAGGAATATATTAT
* *
65456341 ATGTCTAGGAGGCATATATTAT
1 ATGTCTAGAAGGAATATATTAT
65456363 A
1 A
65456364 ATCTAGCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.36
Consensus pattern (22 bp):
ATGTCTAGAAGGAATATATTAT
Found at i:65467370 original size:19 final size:19
Alignment explanation
Indices: 65467348--65467387 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
65467338 TGATTTCATT
*
65467348 ATTGTGCAAAAATTTTGTG
1 ATTGTGCAAAAATTTCGTG
*
65467367 ATTGTGCGAAAATTTCGTG
1 ATTGTGCAAAAATTTCGTG
65467386 AT
1 AT
65467388 GAAATCCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (19 bp):
ATTGTGCAAAAATTTCGTG
Found at i:65470020 original size:64 final size:64
Alignment explanation
Indices: 65469939--65470122 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
65469929 AGACATTATG
* *
65469939 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
65470003 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGACCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
65470068 AA
63 AA
* * * *
65470070 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
65470123 CGAACTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.19
64 21 0.22
65 8 0.08
66 16 0.17
67 30 0.31
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:65479112 original size:30 final size:30
Alignment explanation
Indices: 65479076--65479135 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65479066 TTCCCGAGCC
*
65479076 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
65479106 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
65479136 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:65486790 original size:13 final size:13
Alignment explanation
Indices: 65486774--65486808 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
65486764 TGCTGTGGAA
65486774 AAGTACTTTTGAG
1 AAGTACTTTTGAG
65486787 AAGTACTTTTGAG
1 AAGTACTTTTGAG
*
65486800 AAGTGCTTT
1 AAGTACTTT
65486809 GGAAACTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.40
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:65503150 original size:74 final size:74
Alignment explanation
Indices: 65503071--65503219 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
65503061 TATTAATTAG
65503071 ATATTTATTAAGTTAATATATTATATATATATAAAGTAAAACAAAAGAAAAAGAAATGAAAAAAA
1 ATATTTATTAAGTTAATATATTATATATATATAAAGTAAAACAAAAGAAAAAGAAATGAAAAAAA
65503136 GAAGATAGA
66 GAAGATAGA
65503145 ATATTTATTAAGTTAATATATTATATATATATAAAGTAAAACAAAAGAAAAAGAAATGAAAAAAA
1 ATATTTATTAAGTTAATATATTATATATATATAAAGTAAAACAAAAGAAAAAGAAATGAAAAAAA
65503210 GAAGATAGA
66 GAAGATAGA
65503219 A
1 A
65503220 AAGAAACAGA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.61, C:0.01, G:0.11, T:0.27
Consensus pattern (74 bp):
ATATTTATTAAGTTAATATATTATATATATATAAAGTAAAACAAAAGAAAAAGAAATGAAAAAAA
GAAGATAGA
Found at i:65506660 original size:39 final size:39
Alignment explanation
Indices: 65506602--65506857 Score: 336
Period size: 39 Copynumber: 6.6 Consensus size: 39
65506592 TTCCAACCCA
* *
65506602 AATGCCTTCGGAACTTAGCCCGGATATAACATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
65506641 AATGCCTTCGGGACATAGCCTGAATATAATATCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* *
65506680 AATGCCTTCGGGACTTAGCCCGAATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
65506719 AATGCCTTCAGGACTTTGCCCGGATATAATATCAGCATG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
*
65506758 AATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
* * *
65506797 AATGCCTTTGGGACTTAGCCCGGATCTAAATCTCA-CAC-
1 AATGCCTTCGGGACTTAGCCCGGATAT-AATATCAGCACG
* * *
65506835 AAGGCCTGCGGGTCTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
65506858 TCAAAATCCT
Statistics
Matches: 191, Mismatches: 25, Indels: 3
0.87 0.11 0.01
Matches are distributed among these distances:
38 19 0.10
39 167 0.87
40 5 0.03
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
Found at i:65511701 original size:46 final size:46
Alignment explanation
Indices: 65511634--65511806 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
65511624 TGTAACCCGC
65511634 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
65511680 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * *
65511730 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
65511771 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
65511807 ATGCCCAAAT
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 29 0.27
46 35 0.32
47 27 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:65511798 original size:91 final size:92
Alignment explanation
Indices: 65511641--65511811 Score: 299
Period size: 91 Copynumber: 1.9 Consensus size: 92
65511631 CGCCCATAAG
*
65511641 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCA
65511706 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGCTCGGATGCCTAGTTACATCTCA
*
65511734 CGAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
65511798 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
65511812 CAAATATCCA
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
91 46 0.61
93 29 0.39
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:65514215 original size:29 final size:29
Alignment explanation
Indices: 65514176--65514263 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
65514166 CAAAGATAAC
*
65514176 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
65514205 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
65514234 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
65514264 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:65514234 original size:15 final size:15
Alignment explanation
Indices: 65514176--65514254 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
65514166 CAAAGATAAC
*
65514176 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
65514190 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
65514205 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
65514219 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
65514234 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
65514249 AAGAAA
1 AAGAAA
65514255 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:65514263 original size:15 final size:15
Alignment explanation
Indices: 65514187--65514263 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
65514177 AGAAAACCGA
65514187 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
65514202 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
65514216 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
65514230 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
65514246 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
65514261 ATA
1 ATA
65514264 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:65517232 original size:46 final size:46
Alignment explanation
Indices: 65517165--65517337 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
65517155 TGTAACCCGC
65517165 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
65517211 CCATAAGTGAACTCGGCCTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * *
65517261 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGAC--TCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
65517302 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG
65517338 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
40 1 0.01
41 3 0.03
42 1 0.01
43 2 0.02
44 28 0.26
46 34 0.32
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.28, C:0.31, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:65517329 original size:91 final size:92
Alignment explanation
Indices: 65517172--65517342 Score: 281
Period size: 91 Copynumber: 1.9 Consensus size: 92
65517162 CGCCCATAAG
* * *
65517172 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGCCTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCATCCATAAGTGAACTCAGACTCAACTCA
65517237 ACGAGCTCGGATGCCTAGTTACATCTCA
65 ACGAGCTCGGATGCCTAGTTACATCTCA
*
65517265 CGAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
65517329 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
65517343 CAAATATCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 44 0.60
93 29 0.40
ACGTcount: A:0.27, C:0.32, G:0.21, T:0.20
Consensus pattern (92 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCA
Found at i:65522349 original size:39 final size:39
Alignment explanation
Indices: 65522306--65522607 Score: 333
Period size: 39 Copynumber: 7.7 Consensus size: 39
65522296 TTCCAACCCA
* * * **
65522306 AATGCCTTCGGAACTTAACCTGGATAAAACATTAGCACG
1 AATGCCTTCGGGACTTAACCTGGATATAATACCAGCACG
* ** * *
65522345 AATGCCTTCGGGACTTAGCCCAGATATAATATCAGCACT
1 AATGCCTTCGGGACTTAACCTGGATATAATACCAGCACG
*
65522384 AATGCCTTCGGGACTTAGATC-GGATATAATACCAGCACG
1 AATGCCTTCGGGACTTA-ACCTGGATATAATACCAGCACG
* *
65522423 AATGCCTTCGAGACTT-AGCTCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAACCT-GGATATAATACCAGCACG
* * *
65522462 AATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACG
1 AATGCCTTCGGGACTTAACCTGGATATAATACCAGCACG
* * *
65522501 AATACCTTTGGGACTT-AGCTCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAACCT-GGATATAATACCAGCACG
* *
65522540 AATGCCTTTGGGACTT-AGCTCGGATATAATACCAGCACG
1 AATGCCTTCGGGACTTAACCT-GGATATAATACCAGCACG
* *
65522579 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAACCTGGATATAA
65522608 ATCTCACACA
Statistics
Matches: 226, Mismatches: 31, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
37 2 0.01
38 1 0.00
39 220 0.97
40 3 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCTGGATATAATACCAGCACG
Found at i:65522438 original size:78 final size:78
Alignment explanation
Indices: 65522339--65522607 Score: 430
Period size: 78 Copynumber: 3.4 Consensus size: 78
65522329 ATAAAACATT
* * * *
65522339 AGCACGAATGCCTTCGGGACTTAGCCCAGATATAATATCAGCACTAATGCCTTCGGGACTTAGAT
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCT
65522404 CGGATATAATACC
66 CGGATATAATACC
* * *
65522417 AGCACGAATGCCTTCGAGACTTAGCTCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCC
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCT
*
65522482 CGGATATAATATC
66 CGGATATAATACC
* * * *
65522495 AGCACGAATACCTTTGGGACTTAGCTCGGATATAATACCAGCACGAATGCCTTTGGGACTTAGCT
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCT
65522560 CGGATATAATACC
66 CGGATATAATACC
65522573 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
65522608 ATCTCACACA
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 174 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (78 bp):
AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATACCAGCACGAATGCCTTCGGGACTTAGCT
CGGATATAATACC
Found at i:65522514 original size:117 final size:117
Alignment explanation
Indices: 65522339--65522607 Score: 475
Period size: 117 Copynumber: 2.3 Consensus size: 117
65522329 ATAAAACATT
* * *
65522339 AGCACGAATGCCTTCGGGACTTAGCCCAGATATAATATCAGCACTAATGCCTTCGGGACTTAGAT
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACGAATACCTTCGGGACTTAGAT
65522404 CGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCTCGGATATAATACC
66 CGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCTCGGATATAATACC
* *
65522456 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACGAATACCTTTGGGACTTAGCT
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACGAATACCTTCGGGACTTAGAT
* *
65522521 CGGATATAATACCAGCACGAATGCCTTTGGGACTTAGCTCGGATATAATACC
66 CGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCTCGGATATAATACC
65522573 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
1 AGCACGAATGCCTTCGGGACTTAGCCCGGATATAA
65522608 ATCTCACACA
Statistics
Matches: 145, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 145 1.00
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (117 bp):
AGCACGAATGCCTTCGGGACTTAGCCCGGATATAATATCAGCACGAATACCTTCGGGACTTAGAT
CGGATATAATACCAGCACGAATGCCTTCGAGACTTAGCTCGGATATAATACC
Found at i:65527261 original size:12 final size:12
Alignment explanation
Indices: 65527244--65527271 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
65527234 ATGTGTTGAC
65527244 TACCGTTACTGT
1 TACCGTTACTGT
65527256 TACCGTTACTGT
1 TACCGTTACTGT
65527268 TACC
1 TACC
65527272 AATTCGGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.18, C:0.29, G:0.14, T:0.39
Consensus pattern (12 bp):
TACCGTTACTGT
Found at i:65527309 original size:45 final size:45
Alignment explanation
Indices: 65527250--65527360 Score: 150
Period size: 45 Copynumber: 2.5 Consensus size: 45
65527240 TGACTACCGT
* * *
65527250 TACTGTTACCGTTACTGTTACCAATTCGGCACTTTGTGTGTCGAA
1 TACTGATACTGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
* * * *
65527295 TACTGATACTGTTACCGTTATCGATTCAGCACTTTGTGTGTTGAA
1 TACTGATACTGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
*
65527340 TACTGCTACTGTTACTGTTAC
1 TACTGATACTGTTACTGTTAC
65527361 TGTTTCAGCT
Statistics
Matches: 56, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 56 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTGATACTGTTACTGTTACCAATTCAGCACTTTGTGTGTCGAA
Found at i:65527592 original size:18 final size:18
Alignment explanation
Indices: 65527552--65527637 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
65527542 AAAGATTGAC
* *
65527552 TATTACTGAATAATTTAAT
1 TATTACTGAATAA-CTGAT
65527571 TATTACTGAATAACTGAT
1 TATTACTGAATAACTGAT
* *
65527589 TATTATTGAATAATTGAT
1 TATTACTGAATAACTGAT
* *
65527607 TGTTACCGAATAACTGAT
1 TATTACTGAATAACTGAT
*
65527625 TGTTACTGAATAA
1 TATTACTGAATAA
65527638 ATAATCGTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
18 45 0.78
19 13 0.22
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (18 bp):
TATTACTGAATAACTGAT
Found at i:65527625 original size:36 final size:37
Alignment explanation
Indices: 65527552--65527637 Score: 120
Period size: 36 Copynumber: 2.4 Consensus size: 37
65527542 AAAGATTGAC
*
65527552 TATTACTGAATAATTTAATTATTACTGAATAACTGAT
1 TATTACTGAATAATTTAATTATTACCGAATAACTGAT
* * *
65527589 TATTATTGAATAA-TTGATTGTTACCGAATAACTGAT
1 TATTACTGAATAATTTAATTATTACCGAATAACTGAT
*
65527625 TGTTACTGAATAA
1 TATTACTGAATAA
65527638 ATAATCGTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 31 0.72
37 12 0.28
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (37 bp):
TATTACTGAATAATTTAATTATTACCGAATAACTGAT
Found at i:65532393 original size:31 final size:32
Alignment explanation
Indices: 65532352--65532414 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
65532342 TTATTTATAA
*
65532352 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
65532383 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
65532415 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:65534254 original size:12 final size:12
Alignment explanation
Indices: 65534237--65534261 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65534227 GCCGACTACT
65534237 GTTACTGTTACC
1 GTTACTGTTACC
65534249 GTTACTGTTACC
1 GTTACTGTTACC
65534261 G
1 G
65534262 ATTCGGCACT
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:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:65534298 original size:45 final size:45
Alignment explanation
Indices: 65534239--65534347 Score: 137
Period size: 45 Copynumber: 2.4 Consensus size: 45
65534229 CGACTACTGT
* ** *
65534239 TACTGTTACCGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGAGTCGAA
* ** * *
65534284 TACTGATACTGTTACCATTATCGATTCAACACTTTGTGAGTTGAA
1 TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGAGTCGAA
65534329 TACTGTTACTGTTACTGTT
1 TACTGTTACTGTTACTGTT
65534348 TCGAATTTGT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
45 52 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACTGTTACCGATTCAACACTTTGTGAGTCGAA
Found at i:65534526 original size:18 final size:18
Alignment explanation
Indices: 65534497--65534563 Score: 89
Period size: 18 Copynumber: 3.7 Consensus size: 18
65534487 TAATATCGAC
65534497 TGTTACTGAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
65534515 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
65534533 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
65534551 TGTTACTGAATAA
1 TGTTACTGAATAA
65534564 ATAATCGTTC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:65544790 original size:96 final size:96
Alignment explanation
Indices: 65544626--65544909 Score: 351
Period size: 96 Copynumber: 3.0 Consensus size: 96
65544616 GACATTTGGG
* **
65544626 TGATATGTGTA-CTAGTGTAAGACCATGTCTGGGACATGGCATCAACCACATCATGAGAGTGAGT
1 TGATATGTG-AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGT
*
65544690 GTAAGACCATGTCTGGGACATGGCATCGATGT
65 GTAAGACCATGTCTGGGACATGGCATCGATAT
* * * *
65544722 TGATATGTGCGCTAGTGTAAGACTATGTCTAGGACATGGCATCGGCCACATCATGAGAGCCAGTG
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
* *
65544787 TAAGACCATGTTTGGGACATGGCATCGGTAT
66 TAAGACCATGTCTGGGACATGGCATCGATAT
* * *
65544818 TGAGACGGGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCTTTACAT-AT--GAGCCA
1 TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACC---ACATCATGAGAGCCA
* * * *
65544880 TTATAAGACCATATCTTGGACATGGCATCG
63 GTGTAAGACCATGTCTGGGACATGGCATCG
65544910 GCAATTTACT
Statistics
Matches: 162, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
96 156 0.96
98 2 0.01
99 4 0.02
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (96 bp):
TGATATGTGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATCATGAGAGCCAGTG
TAAGACCATGTCTGGGACATGGCATCGATAT
Found at i:65544813 original size:48 final size:47
Alignment explanation
Indices: 65544639--65544911 Score: 221
Period size: 48 Copynumber: 5.7 Consensus size: 47
65544629 TATGTGTACT
** **
65544639 AGTGTAAGACCATGTCTGGGACATGGCATCAACCACATCATGAGAGTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-ATGAGAGCC
*** * * *
65544687 AGTGTAAGACCATGTCTGGGACATGGCATCGATG-TTGATATGTGCGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCG--GCCACATATGAGAGCC
* *
65544735 AGTGTAAGACTATGTCTAGGACATGGCATCGGCCACATCATGAGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-ATGAGAGCC
* * * * * * *
65544783 AGTGTAAGACCATGTTTGGGACATGGCATCGG-TATTGAGACGGGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--CATATGAGAGCC
*
65544831 AGTGTAAGACCATGTCTGGGACATGGCATCGACCTTTACATAT--GAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCC---ACATATGAGAGCC
* * * *
65544879 ATTATAAGACCATATCTTGGACATGGCATCGGC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
65544912 AATTTACTCT
Statistics
Matches: 177, Mismatches: 38, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
46 1 0.01
47 3 0.02
48 167 0.94
49 3 0.02
50 2 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCCACATATGAGAGCC
Found at i:65545425 original size:24 final size:24
Alignment explanation
Indices: 65545398--65545494 Score: 158
Period size: 24 Copynumber: 4.0 Consensus size: 24
65545388 AGGCTGTCAA
65545398 GAGAAGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
*
65545422 GAGAGGATTTAGGAGCTGATAAGG
1 GAGAAGATTTAGGAGCTGATAAGG
* *
65545446 GAGAGGATTTAGGAGCTGATAAAG
1 GAGAAGATTTAGGAGCTGATAAGG
65545470 GAGAAGATTTAGGAGCTGATCAAGG
1 GAGAAGATTTAGGAGCTGAT-AAGG
65545495 AGCGGGAGTT
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
24 65 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.05, G:0.38, T:0.21
Consensus pattern (24 bp):
GAGAAGATTTAGGAGCTGATAAGG
Found at i:65553590 original size:40 final size:40
Alignment explanation
Indices: 65553516--65553737 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
65553506 AACCTAAGTA
* *
65553516 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
65553555 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
65553595 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
65553635 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
65553675 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
65553715 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
65553738 CATTCGAATA
Statistics
Matches: 173, Mismatches: 8, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 12 0.07
40 158 0.91
41 3 0.02
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:65562040 original size:40 final size:40
Alignment explanation
Indices: 65561966--65562186 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
65561956 AACCCAAGTA
* * *
65561966 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
65562005 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
65562045 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
*
65562084 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
65562124 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
65562164 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
65562187 CATTCGAATA
Statistics
Matches: 168, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 48 0.29
40 117 0.70
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:65562097 original size:79 final size:80
Alignment explanation
Indices: 65561966--65562186 Score: 349
Period size: 79 Copynumber: 2.8 Consensus size: 80
65561956 AACCCAAGTA
* * * *
65561966 CCTTCGGGATTTAG-CCAGATATAG-CAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATA
65562029 GTCAATAGCACAAAAG
65 GTCAATAGCACAAAAG
65562045 CCTTC-GGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
* *
65562109 TCAATAGCATAAATG
66 TCAATAGCACAAAAG
*
65562124 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATAT
65562187 CATTCGAATA
Statistics
Matches: 132, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
78 7 0.05
79 68 0.52
80 57 0.43
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.24
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAG
TCAATAGCACAAAAG
Found at i:65565876 original size:40 final size:39
Alignment explanation
Indices: 65565832--65566025 Score: 262
Period size: 40 Copynumber: 4.9 Consensus size: 39
65565822 GGATATAGCT
* * * *
65565832 ACTCGCTCGAATGCCTTCGGGGCATAGCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT-TAGTA
* *
65565872 ACTCGCACCAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
*
65565912 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-TTTAGTA
* *
65565952 ACTCGCACAAATGCCTTCGAGACTTAGCCCGAATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCG-GTTTAGTA
*
65565992 GCTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTT
65566026 ATCATCCGAA
Statistics
Matches: 140, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 2 0.01
40 136 0.97
41 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGTTTAGTA
Found at i:65570448 original size:34 final size:34
Alignment explanation
Indices: 65570405--65570473 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
65570395 GTAACAATCT
*
65570405 AGTATCAGTGTGGGCCCTAGCCCATTACAATAAC
1 AGTATCAGTGTGCGCCCTAGCCCATTACAATAAC
* *
65570439 AGTATCAGTGTGCGCCTTAGCCCATTACAGTAAC
1 AGTATCAGTGTGCGCCCTAGCCCATTACAATAAC
65570473 A
1 A
65570474 ATAATAGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (34 bp):
AGTATCAGTGTGCGCCCTAGCCCATTACAATAAC
Found at i:65570757 original size:26 final size:27
Alignment explanation
Indices: 65570727--65570785 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
65570717 ATGCTTTAAT
65570727 ACAGTCAAATATATC-ATAGGGGTATA
1 ACAGTCAAATATATCTATAGGGGTATA
* * * *
65570753 TCAGTC-ATTTTATCTCTAGGGGTATA
1 ACAGTCAAATATATCTATAGGGGTATA
65570779 ACAGTCA
1 ACAGTCA
65570786 TTTCGATAGT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.32
Consensus pattern (27 bp):
ACAGTCAAATATATCTATAGGGGTATA
Found at i:65571002 original size:20 final size:20
Alignment explanation
Indices: 65570977--65571031 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
65570967 GAAAGAACCA
*
65570977 AGAAAATGGGTCAAAATCAG
1 AGAAAATGGGCCAAAATCAG
65570997 AGAAAATGGGCCAAAATCAG
1 AGAAAATGGGCCAAAATCAG
65571017 AGAAAATGGGCCAAA
1 AGAAAATGGGCCAAA
65571032 CTACGAAATC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.51, C:0.13, G:0.25, T:0.11
Consensus pattern (20 bp):
AGAAAATGGGCCAAAATCAG
Found at i:65580557 original size:17 final size:19
Alignment explanation
Indices: 65580521--65580557 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
65580511 AAAGCCCATA
65580521 ACACGACCCATGTAGGCCC
1 ACACGACCCATGTAGGCCC
*
65580540 ACACG-CCCGTGT-GGCCC
1 ACACGACCCATGTAGGCCC
65580557 A
1 A
65580558 TTAATCTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.22, C:0.43, G:0.24, T:0.11
Consensus pattern (19 bp):
ACACGACCCATGTAGGCCC
Found at i:65582999 original size:43 final size:42
Alignment explanation
Indices: 65582921--65583034 Score: 122
Period size: 43 Copynumber: 2.7 Consensus size: 42
65582911 AGCTCGTACA
***
65582921 ATGCCAATGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAAATA-CG
* * *
65582964 ATGCCACTGTCCTAGACAG-GGTCTTACACAAAATCAAGTACG
1 ATGCCAATGTCCCAGAC-GTGGTCTTACACAAAATCAAATACG
** *
65583006 ATGCCAACATCCCAAACGTGGTCTTACAC
1 ATGCCAATGTCCCAGACGTGGTCTTACAC
65583035 GATAACACAT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
41 1 0.02
42 24 0.41
43 32 0.55
44 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACAAAATCAAATACG
Found at i:65585705 original size:48 final size:48
Alignment explanation
Indices: 65585646--65585824 Score: 254
Period size: 48 Copynumber: 3.7 Consensus size: 48
65585636 ATATGTGTGA
* *
65585646 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGC
*
65585694 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCA--CATCATGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGG-CATTGAT-ATGAGAGC
* * * * *
65585742 CAATGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGAGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGC
65585790 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
65585825 ATTTACCCTA
Statistics
Matches: 115, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
47 4 0.03
48 108 0.94
49 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGAGAGC
Found at i:65585813 original size:96 final size:96
Alignment explanation
Indices: 65585649--65585823 Score: 305
Period size: 96 Copynumber: 1.8 Consensus size: 96
65585639 TGTGTGATAG
* * * * *
65585649 TGTAAGACCATGTCTGGGACATGGCATCGGCATTGATATGTGCGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
65585714 GACATGGCATCGGCCACATCATGAGAGCCAA
66 GACATGGCATCGGCCACATCATGAGAGCCAA
65585745 TGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
65585810 GACATGGCATCGGC
66 GACATGGCATCGGC
65585824 AATTTACCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
96 74 1.00
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.22
Consensus pattern (96 bp):
TGTAAGACCATGTCTGAGACATGGCATCGGCATTGAGACGAGAGCTAGTGTAAGACCATGTCTGG
GACATGGCATCGGCCACATCATGAGAGCCAA
Found at i:65588760 original size:48 final size:48
Alignment explanation
Indices: 65588699--65589071 Score: 584
Period size: 48 Copynumber: 7.8 Consensus size: 48
65588689 TGTTACAACA
* * *
65588699 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65588747 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65588795 TTCGCATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* *
65588843 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * * *
65588891 TTCACATTAGCCATTTGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
65588939 TTCACATTCGTCATTCGGCTTTACCACATATACATATCACACAAATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
*
65588987 TTCACATTAGCCATTCGGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
* * *
65589035 TTCACATTAGCCATTCGGCTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
65589072 ATTTATCTTG
Statistics
Matches: 300, Mismatches: 25, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 300 1.00
ACGTcount: A:0.32, C:0.27, G:0.07, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACATATAT
Found at i:65591950 original size:46 final size:46
Alignment explanation
Indices: 65591883--65592104 Score: 225
Period size: 46 Copynumber: 4.8 Consensus size: 46
65591873 TGTAACCCGC
* * *
65591883 CCATAAGCGAACTCGGACTCAACTCAACGAGTT-TGAGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CGTTCGCAT
* * * **
65591929 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGATG-CCTAATT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCA-T
* * ** *
65591975 ACATTTCA-CAAACTCGGACTCAACTCAACAAGTTCGGACGTTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
65592022 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
65592068 CCATAAGTGAACTCGAACTTAACTCAATGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65592105 TGGCCAAATA
Statistics
Matches: 144, Mismatches: 26, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
45 4 0.03
46 104 0.72
47 32 0.22
48 4 0.03
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:65592017 original size:93 final size:93
Alignment explanation
Indices: 65591892--65592060 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
65591882 CCCATAAGCG
* * * **
65591892 AACTCGGACTCAACTCAACGAGTTTGAGCGTTCGTATCCATAAGTGAACTCGGGCTCAACTCAAC
1 AACTCGGACTCAACTCAACAAGTTGGAGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
65591957 GAGTTCGGATGCCTAATTACATTTCACA
66 GAGTTCGGATGCCTAATTACATTTCACA
65591985 AACTCGGACTCAACTCAACAAGTTCGGA-CGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 AACTCGGACTCAACTCAACAAGTT-GGAGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
65592049 CGAGTTCGGATG
65 CGAGTTCGGATG
65592061 TTCGCATCCA
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
93 68 0.97
94 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACAAGTTGGAGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAAC
GAGTTCGGATGCCTAATTACATTTCACA
Found at i:65594314 original size:40 final size:40
Alignment explanation
Indices: 65594257--65594412 Score: 249
Period size: 40 Copynumber: 3.9 Consensus size: 40
65594247 GATGATAACC
65594257 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCT
* *
65594297 GGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACTATTTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCT
* **
65594337 GGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCT
* *
65594377 GGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACTAT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAT
65594413 ATCCGGCTAA
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCT
Found at i:65594388 original size:80 final size:80
Alignment explanation
Indices: 65594255--65594432 Score: 268
Period size: 80 Copynumber: 2.2 Consensus size: 80
65594245 CGGATGATAA
* **
65594255 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATTTCTGGGCTAAGTCCCAAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTGGGCTAAGTCCCAAAGGCATTTG
* * *
65594320 TGCGAGTTACTATTT
66 AGCGAGTAACTATAT
*
65594335 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTGGGCTAAGTCCCAAAGGCATTTG
65594400 AGCGAGTAACTATAT
66 AGCGAGTAACTATAT
**
65594415 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
65594433 TACTTGGTTG
Statistics
Matches: 89, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
79 14 0.16
80 75 0.84
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACTGGGCTAAGTCCCAAAGGCATTTG
AGCGAGTAACTATAT
Found at i:65594413 original size:40 final size:40
Alignment explanation
Indices: 65594251--65594432 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 40
65594241 TACTCGGATG
65594251 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** * *
65594291 ATTTCTGGGCTAAGTCCCAAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
** *
65594331 ATTTCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
65594371 ATAACTGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* **
65594411 ATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
65594433 TACTTGGTTG
Statistics
Matches: 125, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 14 0.11
40 111 0.89
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:65601480 original size:30 final size:30
Alignment explanation
Indices: 65601446--65601506 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
65601436 TCCTTAACTC
65601446 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
65601476 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
65601506 A
1 A
65601507 GGCTCGGAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:65604098 original size:46 final size:46
Alignment explanation
Indices: 65604029--65604252 Score: 238
Period size: 46 Copynumber: 4.8 Consensus size: 46
65604019 TGTAACCCGC
** * *
65604029 CCATAAGCAAACTCGGACTCAACTCAACGAGATT-GGGTGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGATGTTCGCAT
* ** * * *
65604075 CCATAAGTGAACTCGGACCCAACTCAATAAGTTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTCGCAT
* * * * * **
65604121 ACATTCCA-CGAACTCAGACTCAACTGAACGAGTTCGGACATTCGCAT
1 CCA-T-AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
65604168 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
65604214 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
65604253 GCCAAATATC
Statistics
Matches: 143, Mismatches: 29, Indels: 12
0.78 0.16 0.07
Matches are distributed among these distances:
45 3 0.02
46 109 0.76
47 30 0.21
48 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGCAT
Found at i:65604151 original size:93 final size:93
Alignment explanation
Indices: 65604038--65604206 Score: 241
Period size: 93 Copynumber: 1.8 Consensus size: 93
65604028 CCCATAAGCA
* *** *
65604038 AACTCGGACTCAACTCAACGAGATT-GGGTGTTTGCATCCATAAGTGAACTCGGACCCAACTCAA
1 AACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCAA
*
65604102 TAAGTTCGGATGCCTAGTTACATTCCACG
65 CAAGTTCGGATGCCTAGTTACATTCCACG
* *
65604131 AACTCAGACTCAACTGAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCAAC
*
65604196 GAGTTCGGATG
66 AAGTTCGGATG
65604207 TTCGCATCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 64 0.97
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (93 bp):
AACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACCCAACTCAAC
AAGTTCGGATGCCTAGTTACATTCCACG
Found at i:65608284 original size:40 final size:40
Alignment explanation
Indices: 65608221--65608384 Score: 267
Period size: 40 Copynumber: 4.1 Consensus size: 40
65608211 TGGGATTTAA
*
65608221 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACTTAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65608261 CCAGATATAGTAACTCGCGCAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
65608301 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65608341 CTGGATATAGCAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
65608381 CCGG
1 CCGG
65608385 TTATCATCCA
Statistics
Matches: 116, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 115 0.99
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65616308 original size:40 final size:40
Alignment explanation
Indices: 65616230--65616405 Score: 239
Period size: 40 Copynumber: 4.4 Consensus size: 40
65616220 AAACCAAGTA
* * *
65616230 CCTTCGAGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * * *
65616269 CCTTCGGGACTTAGCCTGGTTATGGTAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65616309 CCTTCAGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
65616349 CCTTTGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65616389 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
65616406 AGTTATCATC
Statistics
Matches: 120, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 13 0.11
40 107 0.89
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65618036 original size:28 final size:28
Alignment explanation
Indices: 65618003--65618058 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
65617993 GTTTTCACTA
65618003 AATCTTTTTAAAATTTCCATTACTTCTT
1 AATCTTTTTAAAATTTCCATTACTTCTT
*
65618031 AATCTTTTTAATATTTCCATTACTTCTT
1 AATCTTTTTAAAATTTCCATTACTTCTT
65618059 TCCTAGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (28 bp):
AATCTTTTTAAAATTTCCATTACTTCTT
Found at i:65619557 original size:10 final size:10
Alignment explanation
Indices: 65619542--65619574 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
65619532 AGTTTAGAAG
*
65619542 AAACTGGATT
1 AAACTGAATT
65619552 AAACTGAATT
1 AAACTGAATT
65619562 AAACTGAATT
1 AAACTGAATT
65619572 AAA
1 AAA
65619575 GCGCAGAATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.09, G:0.12, T:0.27
Consensus pattern (10 bp):
AAACTGAATT
Found at i:65623881 original size:17 final size:17
Alignment explanation
Indices: 65623859--65623911 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 17
65623849 ATATACAAAC
65623859 CGTGTGTCACACACGGT
1 CGTGTGTCACACACGGT
* *
65623876 CGTGTG--AC-C-TGGC
1 CGTGTGTCACACACGGT
65623889 CGTGTGTCACACACGGT
1 CGTGTGTCACACACGGT
*
65623906 CATGTG
1 CGTGTG
65623912 ACCTGGCCGT
Statistics
Matches: 27, Mismatches: 5, Indels: 8
0.68 0.12 0.20
Matches are distributed among these distances:
13 8 0.30
14 1 0.04
15 4 0.15
16 1 0.04
17 13 0.48
ACGTcount: A:0.15, C:0.28, G:0.32, T:0.25
Consensus pattern (17 bp):
CGTGTGTCACACACGGT
Found at i:65623954 original size:30 final size:30
Alignment explanation
Indices: 65623858--65623934 Score: 145
Period size: 30 Copynumber: 2.6 Consensus size: 30
65623848 AATATACAAA
*
65623858 CCGTGTGTCACACACGGTCGTGTGACCTGG
1 CCGTGTGTCACACACGGTCATGTGACCTGG
65623888 CCGTGTGTCACACACGGTCATGTGACCTGG
1 CCGTGTGTCACACACGGTCATGTGACCTGG
65623918 CCGTGTGTCACACACGG
1 CCGTGTGTCACACACGG
65623935 CTGAGACACA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.16, C:0.31, G:0.31, T:0.22
Consensus pattern (30 bp):
CCGTGTGTCACACACGGTCATGTGACCTGG
Found at i:65630115 original size:48 final size:48
Alignment explanation
Indices: 65629935--65630112 Score: 189
Period size: 48 Copynumber: 3.7 Consensus size: 48
65629925 TCTCATAATG
* * * *
65629935 ATGCCATGTCCCAGACATGGTCTTACATTGGCTCACA-CGTCGAGGTCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATC-TCGACGCCA
* * * * *
65629983 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACA-TGGGATCACATCTCGACGCCA
* * * *
65630031 ATGCCATGTCCCAGACATGGTCTTATACGGGATCTCATCTCGATGCCA
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATCTCGACGCCA
* *
65630079 ATGCCATGTCCTAGACATGGTTTTACATGGGATC
1 ATGCCATGTCCCAGACATGGTCTTACATGGGATC
65630113 TCACATAACT
Statistics
Matches: 106, Mismatches: 21, Indels: 6
0.80 0.16 0.05
Matches are distributed among these distances:
47 2 0.02
48 102 0.96
49 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACATGGGATCACATCTCGACGCCA
Found at i:65636100 original size:25 final size:25
Alignment explanation
Indices: 65636072--65636145 Score: 85
Period size: 25 Copynumber: 3.0 Consensus size: 25
65636062 CAAGTTGTAG
*
65636072 ATCGGTATGCTCTCACGATCTATGA
1 ATCGGTATGCTCTCACGAACTATGA
* * *
65636097 ATCGGTATGCTCTTACAAACTATAA
1 ATCGGTATGCTCTCACGAACTATGA
** *
65636122 ATCAATATGCTCTCACGAGCTATG
1 ATCGGTATGCTCTCACGAACTATG
65636146 GAGTATCCGC
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (25 bp):
ATCGGTATGCTCTCACGAACTATGA
Found at i:65643865 original size:21 final size:21
Alignment explanation
Indices: 65643841--65643882 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65643831 TCATCAGATC
*
65643841 TACACCTTGAGGCATCGAGGG
1 TACACCTTGAGGAATCGAGGG
**
65643862 TACAGGTTGAGGAATCGAGGG
1 TACACCTTGAGGAATCGAGGG
65643883 AGGTGGGGCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.26, C:0.17, G:0.38, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGAGGG
Found at i:65646158 original size:30 final size:30
Alignment explanation
Indices: 65646113--65646172 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
65646103 ATTTAATACG
*
65646113 AACTTTGGCAAAATTACATTTTTACCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
* * *
65646143 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
65646173 GGCTCGAGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:65648200 original size:61 final size:61
Alignment explanation
Indices: 65648076--65648295 Score: 230
Period size: 61 Copynumber: 3.6 Consensus size: 61
65648066 CATAAAGGTG
* * * * * * * * *
65648076 TTCCTTAACATTCAATACTTACCACATAGGCTTTCATGTCCAG-TGTTTGGCTAGAAAGGCA
1 TTCCTTAACATTCAGTACTCACCACAAAGGCTTTCCTGTTCAGAT-TTTTGCCACAAAGACA
*
65648137 TTCCTTAACATTCAGTACTCACCAGAAAGGCTTTCCTGTTCAGATTTTTGCCACAAAGACA
1 TTCCTTAACATTCAGTACTCACCACAAAGGCTTTCCTGTTCAGATTTTTGCCACAAAGACA
* * * * *
65648198 TTCCTTAACATTCAGTACTCACCGCAAAGGCTTTCCT-ATCTAGATTTTTTCCATAAA-AGTA
1 TTCCTTAACATTCAGTACTCACCACAAAGGCTTTCCTGTTC-AGATTTTTGCCACAAAGA-CA
* * *
65648259 TTCCTTAACATTTAGTACTCGCTACAAAGGCTTTCCT
1 TTCCTTAACATTCAGTACTCACCACAAAGGCTTTCCT
65648296 ATCCAGAAAT
Statistics
Matches: 136, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
60 3 0.02
61 132 0.97
62 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (61 bp):
TTCCTTAACATTCAGTACTCACCACAAAGGCTTTCCTGTTCAGATTTTTGCCACAAAGACA
Found at i:65648234 original size:32 final size:32
Alignment explanation
Indices: 65648130--65648234 Score: 76
Period size: 32 Copynumber: 3.4 Consensus size: 32
65648120 GTTTGGCTAG
65648130 AAAGGCATTCCTTAACATTCAGTACTCACCAG-
1 AAAGGCATTCCTTAACATTCAGTACTCACC-GC
* * ** ** *
65648162 AAAGGCTTTCC-T---GTTCAGATTTTTGCCAC
1 AAAGGCATTCCTTAACATTCAG-TACTCACCGC
*
65648191 AAAGACATTCCTTAACATTCAGTACTCACCGC
1 AAAGGCATTCCTTAACATTCAGTACTCACCGC
*
65648223 AAAGGCTTTCCT
1 AAAGGCATTCCT
65648235 ATCTAGATTT
Statistics
Matches: 50, Mismatches: 17, Indels: 12
0.63 0.22 0.15
Matches are distributed among these distances:
28 5 0.10
29 13 0.26
30 1 0.02
31 1 0.02
32 25 0.50
33 5 0.10
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.30
Consensus pattern (32 bp):
AAAGGCATTCCTTAACATTCAGTACTCACCGC
Found at i:65648795 original size:30 final size:30
Alignment explanation
Indices: 65648759--65648851 Score: 132
Period size: 30 Copynumber: 3.1 Consensus size: 30
65648749 TACCAAGCCA
*
65648759 TGTAACTCTCTGAGTTGCCCCACACGCTTG
1 TGTAACTCTCTGAGTTGCCCCACACGCCTG
* * *
65648789 TGTAACTCTCCGAGCTGCCCCACATGCCTG
1 TGTAACTCTCTGAGTTGCCCCACACGCCTG
* *
65648819 TGTAACTCTCTGAGTTACCCCACACGCCCG
1 TGTAACTCTCTGAGTTGCCCCACACGCCTG
65648849 TGT
1 TGT
65648852 GTTAGGCTGT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 54 1.00
ACGTcount: A:0.17, C:0.37, G:0.19, T:0.27
Consensus pattern (30 bp):
TGTAACTCTCTGAGTTGCCCCACACGCCTG
Found at i:65650864 original size:131 final size:131
Alignment explanation
Indices: 65650609--65650852 Score: 416
Period size: 131 Copynumber: 1.9 Consensus size: 131
65650599 AACCTTTAAT
* *
65650609 AGTTTTACAAATTGACTCTCGGGCTAGCTAAATTAAGCTAAAACAACCTCAAAAACATAGAAATC
1 AGTTTTACAAATTGACCCCCGGGCTAGCTAAATTAAGCTAAAACAACCTCAAAAACATAGAAATC
* *
65650674 ATTAAAAACGGGGGTTGAAAACAATTACATGCACTAATGGAAGCTTGGCCAAACCTAGCCTTTAG
66 ATTAAAAACGGGGCTTGAAAACAATTACATGCACTAAAGGAAGCTTGGCCAAACCTAGCCTTTAG
65650739 C
131 C
* *
65650740 AGTTTTACAAATTGACCCCCGGGCTAGCTAGATTAAGCTAAAACGACCTCAAAAACATAGAAATC
1 AGTTTTACAAATTGACCCCCGGGCTAGCTAAATTAAGCTAAAACAACCTCAAAAACATAGAAATC
* *
65650805 ATTAAAAACGGGGCTTGAAAACACTTACATGCGCTAAAGGAAGCTTGG
66 ATTAAAAACGGGGCTTGAAAACAATTACATGCACTAAAGGAAGCTTGG
65650853 TTGAACCTAG
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
131 105 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (131 bp):
AGTTTTACAAATTGACCCCCGGGCTAGCTAAATTAAGCTAAAACAACCTCAAAAACATAGAAATC
ATTAAAAACGGGGCTTGAAAACAATTACATGCACTAAAGGAAGCTTGGCCAAACCTAGCCTTTAG
C
Found at i:65659201 original size:33 final size:32
Alignment explanation
Indices: 65659185--65659246 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
65659175 TATTATGTTA
* *
65659185 ATATAATATGTATATATGTTATACTAATAAATT
1 ATATAAAATGTATATATATTATA-TAATAAATT
* *
65659218 GTATAAAATGTATGTATATTATATAATAA
1 ATATAAAATGTATATATATTATATAATAA
65659247 GGTATAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 6 0.24
33 19 0.76
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (32 bp):
ATATAAAATGTATATATATTATATAATAAATT
Found at i:65659204 original size:21 final size:22
Alignment explanation
Indices: 65659173--65659213 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
65659163 ATATATATTA
65659173 TATATTATGTTAATA-TAATATG
1 TATATTATGTT-ATACTAATATG
65659195 TATA-TATGTTATACTAATA
1 TATATTATGTTATACTAATA
65659214 AATTGTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 3 0.17
21 11 0.61
22 4 0.22
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (22 bp):
TATATTATGTTATACTAATATG
Found at i:65660543 original size:43 final size:43
Alignment explanation
Indices: 65660495--65660580 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
65660485 CATGTGATTG
65660495 ATATTGAAATGGAAAAGATGAGAAATG-TGTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGAT-TATGAGATGAGAAA
*
65660538 ATATTGAAATGGAAAATATGAGAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAAGATGAGAAATGATTATGAGATGAGAAA
65660581 TGAAATATGA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
43 40 0.98
44 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (43 bp):
ATATTGAAATGGAAAAGATGAGAAATGATTATGAGATGAGAAA
Found at i:65660595 original size:19 final size:18
Alignment explanation
Indices: 65660555--65660600 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
65660545 AATGGAAAAT
* *
65660555 ATGAGAAATGATTATGAG
1 ATGAGAAATGAATATGAA
65660573 ATGAGAAATGAAATATGAA
1 ATGAGAAATG-AATATGAA
*
65660592 ATGATAAAT
1 ATGAGAAAT
65660601 TGAGAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 10 0.42
19 14 0.58
ACGTcount: A:0.52, C:0.00, G:0.22, T:0.26
Consensus pattern (18 bp):
ATGAGAAATGAATATGAA
Found at i:65665307 original size:46 final size:48
Alignment explanation
Indices: 65665205--65665376 Score: 207
Period size: 46 Copynumber: 3.7 Consensus size: 48
65665195 GTTCTTTGAG
* *
65665205 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGATG-A
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
* *
65665252 GAGCTAGTGTAAG-CCATGTCTGGGACAT-GCATCGGCCTCAAGATGTA
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
*
65665299 AGCCAGTGTAAGA-CATGTTTGGGACAT-GCATCGG-CTACGAGATGT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGATGTA
* *
65665344 -GTCAGTGTAAGACCATGTCTGGAACATGGCATC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATC
65665377 AGCACGGATA
Statistics
Matches: 109, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
44 11 0.10
45 14 0.13
46 57 0.52
47 16 0.15
48 11 0.10
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGATGTA
Found at i:65666744 original size:46 final size:46
Alignment explanation
Indices: 65666688--65666860 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
65666678 TGGTTGAGCA
*
65666688 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
65666734 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACAGGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-A---CG
* *
65666781 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
*
65666827 -CTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TC-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65666861 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 12, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 3 0.03
46 60 0.56
47 29 0.27
48 2 0.02
49 1 0.01
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:65666844 original size:93 final size:93
Alignment explanation
Indices: 65666685--65666855 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
65666675 GGATGGTTGA
*
65666685 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
65666750 TGAGTCCGAGTTCGTGAGATGTAACAGG
66 TGAGTCCGAGTTCGTGAGATGTAACAGG
* * *
65666778 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTC-CGAACTCGTTGAG
65666842 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
65666856 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACAGG
Found at i:65667122 original size:19 final size:20
Alignment explanation
Indices: 65667085--65667122 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65667075 ATAAGGTGGT
65667085 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65667105 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65667123 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65669178 original size:79 final size:81
Alignment explanation
Indices: 65669042--65669224 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
65669032 TCGAATGATG
* *
65669042 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
65669106 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
65669121 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
65669183 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
65669201 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
65669225 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:65669240 original size:40 final size:40
Alignment explanation
Indices: 65669043--65669226 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
65669033 CGAATGATGT
* * * *
65669043 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
65669083 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
65669123 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65669161 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
65669202 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
65669227 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:65669248 original size:79 final size:79
Alignment explanation
Indices: 65669095--65669249 Score: 208
Period size: 79 Copynumber: 2.0 Consensus size: 79
65669085 GGACTAAGAT
* **
65669095 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
65669160 ATCCGGGTTAAGTC
66 ATCCGGGTTAAGTC
* *
65669174 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
65669237 TATATCC-GGTTAA
63 TAAATCCGGGTTAA
65669250 ATTCGAAGGT
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
78 2 0.03
79 41 0.61
80 24 0.36
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAGTC
Found at i:65681678 original size:40 final size:40
Alignment explanation
Indices: 65681609--65681822 Score: 265
Period size: 40 Copynumber: 5.4 Consensus size: 40
65681599 AAACCAAGTA
* * *
65681609 CCTTCGGG-TTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
* * *
65681647 CGTTCGGGACTTAACCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
65681687 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
65681727 CCTTCGGGACATGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * **
65681767 CCTTCGGGTCTTAGCCCGGATATAGTAACTAACACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
65681807 CCTTCGGG-CTTCGCCC
1 CCTTCGGGACTTAGCCC
65681823 TATTATCAAT
Statistics
Matches: 155, Mismatches: 18, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 7 0.05
39 11 0.07
40 137 0.88
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:65688285 original size:46 final size:46
Alignment explanation
Indices: 65688235--65688407 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
65688225 TGGTTGAGCA
*
65688235 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
65688281 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
65688328 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
65688374 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
65688408 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:65688391 original size:93 final size:93
Alignment explanation
Indices: 65688232--65688402 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65688222 GGATGGTTGA
* *
65688232 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
65688297 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
65688325 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
65688390 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
65688403 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65688669 original size:19 final size:20
Alignment explanation
Indices: 65688632--65688669 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65688622 ATAAGGTGGT
65688632 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
65688652 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
65688670 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:65712499 original size:19 final size:20
Alignment explanation
Indices: 65712475--65712512 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
65712465 GGTACCACCA
65712475 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
65712494 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
65712513 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:65712895 original size:46 final size:46
Alignment explanation
Indices: 65712737--65712909 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
65712727 AACCCGCCCC
* * * *
65712737 TAAGTGAACTCGGACTCAACTCAATGAGCTCAGG-CGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCA
* * * *
65712783 TAAATGAACTCGGACTCATCTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
65712831 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
65712876 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65712910 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 4 0.04
46 56 0.54
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:65712901 original size:93 final size:93
Alignment explanation
Indices: 65712742--65712912 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
65712732 GCCCCTAAGT
* * *
65712742 GAACTCGGACTCAACTCAATGAGCTCAGGCGTTCGCATCCATAAATGAACTCGGACTCATCTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
65712807 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
65712835 GAACTCGGACTCAACTCAACGAGTTC-GGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAATGAACTCGGACTCAACTCA
65712899 ACGAGTTCGGATGC
65 ACGAGTTCGGATGC
65712913 TCAACCATCC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 69 0.97
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65712928 original size:46 final size:45
Alignment explanation
Indices: 65712787--65712928 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 45
65712777 CATCCATAAA
*
65712787 TGAACTCGGACTCATCTCAACGAGTTCGGATGC-CTAGTTA-CATCTCA-
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT-AG
* * * *
65712834 CGAACTCGGACTCAACTCAACGAGTTCGGACAT-TTGCATCCAT-AAG
1 TGAACTCGGACTCAACTCAACGAGTTCGG--ATGCT-CAACCATCTAG
65712880 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CTAG
65712926 TGA
1 TGA
65712929 CATGTCACTT
Statistics
Matches: 77, Mismatches: 9, Indels: 19
0.73 0.09 0.18
Matches are distributed among these distances:
44 8 0.10
45 2 0.03
46 33 0.43
47 30 0.39
49 3 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (45 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCTAG
Found at i:65717327 original size:27 final size:26
Alignment explanation
Indices: 65717280--65717330 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
65717270 CAAGGCTGCC
*
65717280 AGATATTGTGATGAAGTCACCAGAAT
1 AGATATTGTGATGAAGCCACCAGAAT
* *
65717306 AGATATATGTGGTGAGGCCACCAGA
1 AGATAT-TGTGATGAAGCCACCAGA
65717331 TTACAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (26 bp):
AGATATTGTGATGAAGCCACCAGAAT
Found at i:65717996 original size:27 final size:27
Alignment explanation
Indices: 65717966--65718111 Score: 202
Period size: 27 Copynumber: 5.4 Consensus size: 27
65717956 GGGGCAAAAT
* * * *
65717966 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * * *
65717993 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65718020 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65718047 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
65718074 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
65718101 GGTAATTCTAC
1 GGTAATTCTAC
65718112 AACTTATCCA
Statistics
Matches: 112, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 112 1.00
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:65721986 original size:39 final size:39
Alignment explanation
Indices: 65721941--65722209 Score: 421
Period size: 39 Copynumber: 6.9 Consensus size: 39
65721931 ATGCAAGACA
* *
65721941 CTGGAAATGTATCCGGTCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
65721980 CTGGAAATATATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
65722019 CTAGAAATGTATCCGTGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
*
65722058 CTGGAAATGTATCCGGGCCAAAGTCTCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* *
65722097 ATGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
65722136 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
* * * **
65722175 CGGGAAATTTATCCAGGTTAAAGTCCCGCAGGCTT
1 CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTT
65722210 TGTACTGGTA
Statistics
Matches: 211, Mismatches: 19, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 211 1.00
ACGTcount: A:0.22, C:0.26, G:0.29, T:0.23
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCCAAAGTCCCGCAGGCTTCGTG
Found at i:65727297 original size:25 final size:25
Alignment explanation
Indices: 65727249--65727297 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
65727239 AATAATTGAA
* *
65727249 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATGGATTGATTATGAATATT
**
65727274 ATGAAATTTATTGATTATGAATAT
1 ATGAAATGGATTGATTATGAATAT
65727298 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (25 bp):
ATGAAATGGATTGATTATGAATATT
Found at i:65729675 original size:21 final size:21
Alignment explanation
Indices: 65729649--65729689 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
65729639 AATTCACTTT
65729649 AAATTCTGT-TTTTATTTTTCC
1 AAATTCT-TATTTTATTTTTCC
65729670 AAATTCTTAATTTTATTTTT
1 AAATTCTT-ATTTTATTTTT
65729690 TTCATTTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 1 0.06
21 7 0.39
22 10 0.56
ACGTcount: A:0.24, C:0.10, G:0.02, T:0.63
Consensus pattern (21 bp):
AAATTCTTATTTTATTTTTCC
Found at i:65729808 original size:11 final size:11
Alignment explanation
Indices: 65729794--65729824 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
65729784 CTACTTCCCC
65729794 TTTACTATTAT
1 TTTACTATTAT
65729805 TTTACTATTAT
1 TTTACTATTAT
65729816 TTTACTATT
1 TTTACTATT
65729825 TTACAAGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (11 bp):
TTTACTATTAT
Found at i:65738687 original size:40 final size:40
Alignment explanation
Indices: 65738632--65738809 Score: 272
Period size: 40 Copynumber: 4.5 Consensus size: 40
65738622 CGGATGATAA
*
65738632 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
65738672 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
65738712 CCGGGCTAAGTCCCGAAGGCATTTGCT-CGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTATAT
*
65738752 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
65738792 CC-GGCTAAATCCCAAAGG
1 CCGGGCTAAGTCCCGAAGG
65738810 TACTTGGTTT
Statistics
Matches: 129, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
39 16 0.12
40 112 0.87
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:65742143 original size:40 final size:40
Alignment explanation
Indices: 65742095--65742300 Score: 351
Period size: 40 Copynumber: 5.2 Consensus size: 40
65742085 GGACTAAGAT
65742095 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
65742135 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
65742175 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* * *
65742215 CCAAAGGCATTTGTGCGAGTTACTATATTCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
* *
65742255 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
*
65742294 CCAAAGG
1 CCGAAGG
65742301 TACTTGGGTT
Statistics
Matches: 157, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.08
40 144 0.92
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
Found at i:65750198 original size:21 final size:20
Alignment explanation
Indices: 65750168--65750206 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
65750158 GAAAACTTGT
65750168 ATAACTATCATCAAACATTC
1 ATAACTATCATCAAACATTC
65750188 ATAATCTATCATCAAACAT
1 ATAA-CTATCATCAAACAT
65750207 CAAAATTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (20 bp):
ATAACTATCATCAAACATTC
Found at i:65750541 original size:26 final size:26
Alignment explanation
Indices: 65750512--65750567 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
65750502 ACATTAAAAA
65750512 CACTTAATAATGTGTCCAAAAATTTC
1 CACTTAATAATGTGTCCAAAAATTTC
65750538 CACTTAATAATGTGTCCAAAAATTTC
1 CACTTAATAATGTGTCCAAAAATTTC
65750564 CACT
1 CACT
65750568 CATATTAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (26 bp):
CACTTAATAATGTGTCCAAAAATTTC
Found at i:65755443 original size:46 final size:46
Alignment explanation
Indices: 65755376--65755588 Score: 263
Period size: 46 Copynumber: 4.6 Consensus size: 46
65755366 GCCCATAAGC
* *
65755376 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATGAGT
*
65755422 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATGAGT
* * *
65755468 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCATGAGT
* * * *
65755515 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATGAGT
65755561 GAACTCGGACTCAACTCAACGAGTTCGG
1 GAACTCGGACTCAACTCAACGAGTTCGG
65755589 ATGCTCAACC
Statistics
Matches: 148, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
42 2 0.01
43 3 0.02
44 2 0.01
45 2 0.01
46 100 0.68
47 28 0.19
48 3 0.02
49 2 0.01
50 3 0.02
51 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (46 bp):
GAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATGAGT
Found at i:65755536 original size:93 final size:93
Alignment explanation
Indices: 65755422--65755592 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
65755412 ATCCATGAGT
* * *
65755422 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65755487 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
65755515 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65755580 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65755593 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:65757734 original size:31 final size:30
Alignment explanation
Indices: 65757685--65757746 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 30
65757675 TCATTAACTC
65757685 AAACGTTTGCAAAATTACAATTTTTGCCCCT
1 AAACGTTTGCAAAATTACAATTTTT-CCCCT
* * * *
65757716 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACGTTTGCAAAATTACAATTTTTCCCCT
65757746 A
1 A
65757747 GGCTCGAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.29, C:0.24, G:0.06, T:0.40
Consensus pattern (30 bp):
AAACGTTTGCAAAATTACAATTTTTCCCCT
Found at i:65764937 original size:44 final size:44
Alignment explanation
Indices: 65764826--65765077 Score: 161
Period size: 46 Copynumber: 5.5 Consensus size: 44
65764816 GTTGATGCCG
* * * *
65764826 TGTCCCAAACAGGTCTTACACT-GACACATGTAACCATGCCGATGCA
1 TGTCCCAAACATGTCTTACACTAG-CACATCT--CAAGGCCGATGCA
* *
65764872 TGTCCCAAACATATCTTACACTAGCACATCT--AGTAGCCGACGCA
1 TGTCCCAAACATGTCTTACACTAGCACATCTCAAG--GCCGATGCA
* * * *
65764916 TGTCCCAGACATGTCTGACACTGGCTAAAATCTCAAGGCCGATGCA
1 TGTCCCAAACATGTCTTACACTAGC--ACATCTCAAGGCCGATGCA
* * ***
65764962 TGTCCCATACATGTCTTACACTAGCACTCGTCTCAATATCGATGCCA
1 TGTCCCAAACATGTCTTACACTAGCA--CATCTCAAGGCCGATG-CA
* * * * *
65765009 TGTCCCAGACATGGTCTTACACTGGCTC-TCATTATGTGGCCGATGCA
1 TGTCCCAAACAT-GTCTTACACTAGCACATC-TCA--AGGCCGATGCA
*
65765056 TGTCCCAAACATGTCTAACACT
1 TGTCCCAAACATGTCTTACACT
65765078 GGTGCACATA
Statistics
Matches: 163, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
42 1 0.01
44 30 0.18
45 2 0.01
46 84 0.52
47 27 0.17
48 19 0.12
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (44 bp):
TGTCCCAAACATGTCTTACACTAGCACATCTCAAGGCCGATGCA
Found at i:65765058 original size:94 final size:90
Alignment explanation
Indices: 65764863--65765077 Score: 238
Period size: 94 Copynumber: 2.3 Consensus size: 90
65764853 ATGTAACCAT
* *
65764863 GCCGATGCATGTCCCAAACATATCTTACACTAGCACATCTAGTAGCCGACGCATGTCCCAGACAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCACATCTAATAGCCGACGCATGTCCCAGACAT
65764928 GTCTGACACTGGCTAAAATCTCAAG
66 GTCTGACACTGGCTAAAATCTCAAG
* * * *
65764953 GCCGATGCATGTCCCATACATGTCTTACACTAGCACTCGTCTCAATA-TCGATGCCATGTCCCAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCA--CATCT-AATAGCCGACG-CATGTCCCAG
* *** *
65765017 ACATGGTCTTACACTGGCTCTCAT-T-ATGTG
62 ACAT-GTCTGACACTGGCTAAAATCTCA--AG
*
65765047 GCCGATGCATGTCCCAAACATGTCTAACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
65765078 GGTGCACATA
Statistics
Matches: 105, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
90 33 0.31
92 9 0.09
93 18 0.17
94 45 0.43
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.26
Consensus pattern (90 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCACATCTAATAGCCGACGCATGTCCCAGACAT
GTCTGACACTGGCTAAAATCTCAAG
Found at i:65775398 original size:23 final size:23
Alignment explanation
Indices: 65775368--65775427 Score: 120
Period size: 23 Copynumber: 2.6 Consensus size: 23
65775358 CATGCCATTA
65775368 TACCAAAATGAGATCTCTATTTG
1 TACCAAAATGAGATCTCTATTTG
65775391 TACCAAAATGAGATCTCTATTTG
1 TACCAAAATGAGATCTCTATTTG
65775414 TACCAAAATGAGAT
1 TACCAAAATGAGAT
65775428 AGTGGATAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (23 bp):
TACCAAAATGAGATCTCTATTTG
Found at i:65783383 original size:49 final size:49
Alignment explanation
Indices: 65783279--65783411 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 49
65783269 ACACATCAAA
* * * *
65783279 GTCGATGCCATGTCCCAAAAAGGTCTTACATTGACTTTCATATATCGAG
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATAACGAG
* * * *
65783328 GCCGATGCTATGTCCCAAACAGGTCTTACACTGGCTCTCATCTAACG-G
1 GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATAACGAG
* * *
65783376 TGTCGATGCCATGTCCTAGACAGGTCTTTCACTGAC
1 -GTCGATGCCATGTCCCAAACAGGTCTTACACTGAC
65783412 ACACAATAAG
Statistics
Matches: 69, Mismatches: 14, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (49 bp):
GTCGATGCCATGTCCCAAACAGGTCTTACACTGACTCTCATATAACGAG
Found at i:65787678 original size:24 final size:24
Alignment explanation
Indices: 65787651--65787705 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
65787641 AAACTTATCA
**
65787651 ACTCACATTGCTTTACTAGTCAAT
1 ACTCACATTAATTTACTAGTCAAT
*
65787675 ACTCACTTTAATTTACTAGTCAAT
1 ACTCACATTAATTTACTAGTCAAT
65787699 ACTCACA
1 ACTCACA
65787706 ATATATATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.36
Consensus pattern (24 bp):
ACTCACATTAATTTACTAGTCAAT
Found at i:65793719 original size:40 final size:40
Alignment explanation
Indices: 65793664--65793889 Score: 213
Period size: 40 Copynumber: 5.6 Consensus size: 40
65793654 ACTCGATATC
*
65793664 TCACACACTAAGTGTCGTACATAGCCGAAGCTATCTCAAA
1 TCACACACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
* * * * *
65793704 TCACACACTAAGTGTCATATATAGCTGAAACTATGTCGAATC
1 TCACACACTAAGTGTCATACATAGCCGAAGCTATCTC-AA-A
* * *
65793746 TCGCACACTAAGTGTCGTACATAGCTGAAGCTATCTCAAA
1 TCACACACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
* * * * *
65793786 TCGCACACTAAGTGCCATATATAGCCGAAGCTATGTGAAA
1 TCACACACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
* * * **
65793826 TCTCACACACTAAGGGCCATATATAGCCGAAGCTATCTCGATC
1 --TCACACACTAAGTGTCATACATAGCCGAAGCTATCTC-AAA
*
65793869 TCGCACACTAAGTG-C-TACATA
1 TCACACACTAAGTGTCATACATA
65793890 TAGTTGATTC
Statistics
Matches: 154, Mismatches: 27, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
39 5 0.03
40 67 0.44
41 16 0.10
42 65 0.42
43 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (40 bp):
TCACACACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
Done.