Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold32
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: 5587194
ACGTcount: A:0.26, C:0.15, G:0.16, T:0.26
Warning! 895791 characters in sequence are not A, C, G, or T
File 23 of 33
Found at i:3223642 original size:91 final size:91
Alignment explanation
Indices: 3223484--3223710 Score: 339
Period size: 91 Copynumber: 2.5 Consensus size: 91
3223474 AAAAGTCACA
* * *
3223484 TTTTTACCTAGATGTATCGATACATTTTTCAATGTATCCATACATGTATGAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTACAATGTATCGATACATGTATGAATGTATCGATACAT
* *
3223549 TCTTTAATG-TTTCGATACATTCTGTC
66 TCTTCAATGCATT-GATACATTCTGTC
* *
3223575 TTTTTACCCAGATGTATCGATACATTTTCCAATGTATCGATACATGTATGAATGTATCGATATAT
1 TTTTTACCCAGATGTATCGATACATTTTACAATGTATCGATACATGTATGAATGTATCGATACAT
3223640 TCTTCAATGCATTGATACATTCTGTC
66 TCTTCAATGCATTGATACATTCTGTC
* ** *
3223666 TTTTTACCCAGATGTATTGATACATTGAATAATGTATCGATACAT
1 TTTTTACCCAGATGTATCGATACATTTTACAATGTATCGATACAT
3223711 CTAGTTAAAA
Statistics
Matches: 124, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
91 122 0.98
92 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.13, T:0.42
Consensus pattern (91 bp):
TTTTTACCCAGATGTATCGATACATTTTACAATGTATCGATACATGTATGAATGTATCGATACAT
TCTTCAATGCATTGATACATTCTGTC
Found at i:3226002 original size:96 final size:97
Alignment explanation
Indices: 3225835--3226052 Score: 348
Period size: 96 Copynumber: 2.3 Consensus size: 97
3225825 CCCTTCTTCC
* * *
3225835 GAAGGGATACTCCAACCCCTCTTTTAAACACATTAAAGTTTAAATCTTATTTTCACTCAAATTGT
1 GAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTCAAATTGT
*
3225900 CATCATCGGGAACACT-CAACCCCATTCCTCG
66 CATCATCGGGAACACTCCAACCCAATTCCTCG
* *
3225931 GAGGGGATACTCCAACCCCGCTTTTAAACATATCAAAGTTTAAATCTTATTCTCACTCAAATTGT
1 GAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTCAAATTGT
* *
3225996 CATCATCGGGGACACTCCAACCCAATTCCTCT
66 CATCATCGGGAACACTCCAACCCAATTCCTCG
*
3226028 GAAGGGATACTCCAACCCCGTTTTT
1 GAAGGGATACTCCAACCCCGCTTTT
3226053 TAATCAAAAA
Statistics
Matches: 111, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
96 75 0.68
97 36 0.32
ACGTcount: A:0.30, C:0.28, G:0.12, T:0.29
Consensus pattern (97 bp):
GAAGGGATACTCCAACCCCGCTTTTAAACACATCAAAGTTTAAATCTTATTCTCACTCAAATTGT
CATCATCGGGAACACTCCAACCCAATTCCTCG
Found at i:3242316 original size:88 final size:88
Alignment explanation
Indices: 3242136--3242374 Score: 201
Period size: 88 Copynumber: 2.7 Consensus size: 88
3242126 TGGGATTAGT
* *
3242136 TGACATTGGCATCTACATCATTTCATATGCATTTGCCACTTTATTGATTCTTGCATTTGCATCAT
1 TGACATTGGCATCTACATCATTTCATATGCATTTGCCACTTTATTAATGCTTGCATTTGCATCAT
* * * *
3242201 TTCACGCACATGTGCATTTTATA
66 TTCACGCACATCTGCACTCTAGA
* * * * * ** * *
3242224 TGACATTGGTATTTGCATTATTTCATATGTATTTGCCTTTTTATTAATGCTTGTATTTTCATCAT
1 TGACATTGGCATCTACATCATTTCATATGCATTTGCCACTTTATTAATGCTTGCATTTGCATCAT
* * * *
3242289 TTCATGCGCATCTGCACTCTGGG
66 TTCACGCACATCTGCACTCTAGA
**** * * * * * * *
3242312 TGACATCAATATTTTCATCATTTCATAAGCA-TTGCCAATTTATTGATGCTTACATTTACATCA
1 TGACATTGGCATCTACATCATTTCATATGCATTTGCCACTTTATTAATGCTTGCATTTGCATCA
3242375 CCTCATGTGC
Statistics
Matches: 119, Mismatches: 32, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
87 26 0.22
88 93 0.78
ACGTcount: A:0.24, C:0.19, G:0.13, T:0.44
Consensus pattern (88 bp):
TGACATTGGCATCTACATCATTTCATATGCATTTGCCACTTTATTAATGCTTGCATTTGCATCAT
TTCACGCACATCTGCACTCTAGA
Found at i:3243505 original size:163 final size:166
Alignment explanation
Indices: 3243216--3243526 Score: 398
Period size: 163 Copynumber: 1.9 Consensus size: 166
3243206 TTTCTTCCTA
* * *
3243216 TTTTCAAATAACGAGGTTTTCTTCTCCGTAATTTTTTTGGGAGGAGTTTTCTTATTTTTAATTTT
1 TTTTCAAATAACGAGGTTTTCTACTCCGTAATTTTTTTAGGAGGAGTTTTCTTATTTTCAATTTT
** * *
3243281 TAAAATTCATCAAGTATTATTATTTATTTCATATTAAATTAGTTTTCAAAAATTAATTCATTTTC
66 TAAAATTCATCAAACATCATCATTTATTTCATATTAAATTAGTTTTCAAAAATTAATTCATTTTC
3243346 ATGAGTTTTTGAATTTTTTTCTTGACATTTCCCTTT
131 ATGAGTTTTTGAATTTTTTTCTTGACATTTCCCTTT
* * ** * *
3243382 TTTTGAAAT-ACGATGTTTTCTACTTTGTAA-TTTTTTAGGA-GATTTTTCTTGGTTTTCAA-TT
1 TTTTCAAATAACGAGGTTTTCTACTCCGTAATTTTTTTAGGAGGAGTTTTCTT-ATTTTCAATTT
* * *
3243443 TTAAAATTCATCAAACATCATCATTTGATTT-ATATTAATTTAGTTTTTAAAAATTCATTCATTT
65 TTAAAATTCATCAAACATCATCATTT-ATTTCATATTAAATTAGTTTTCAAAAATTAATTCATTT
***
3243507 TCATTCTTTTTTGAATTTTT
129 TCATGAGTTTTTGAATTTTT
3243527 CTTTGAAATC
Statistics
Matches: 124, Mismatches: 19, Indels: 7
0.83 0.13 0.05
Matches are distributed among these distances:
163 80 0.65
164 19 0.15
165 17 0.14
166 8 0.06
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (166 bp):
TTTTCAAATAACGAGGTTTTCTACTCCGTAATTTTTTTAGGAGGAGTTTTCTTATTTTCAATTTT
TAAAATTCATCAAACATCATCATTTATTTCATATTAAATTAGTTTTCAAAAATTAATTCATTTTC
ATGAGTTTTTGAATTTTTTTCTTGACATTTCCCTTT
Found at i:3244206 original size:24 final size:25
Alignment explanation
Indices: 3244169--3244215 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
3244159 GTTCAGTTGA
*
3244169 AAAACAAGAGAGAAAAAAAGAAAGG
1 AAAACAAGAAAGAAAAAAAGAAAGG
*
3244194 AAAA-AAGAAAGAAAAAAGGAAA
1 AAAACAAGAAAGAAAAAAAGAAA
3244216 AAATGGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.77, C:0.02, G:0.21, T:0.00
Consensus pattern (25 bp):
AAAACAAGAAAGAAAAAAAGAAAGG
Found at i:3244210 original size:13 final size:12
Alignment explanation
Indices: 3244167--3244215 Score: 62
Period size: 12 Copynumber: 4.0 Consensus size: 12
3244157 TGGTTCAGTT
*
3244167 GAAAAACAAGAGA
1 GAAAAA-AAGAAA
3244180 GAAAAAAAGAAA
1 GAAAAAAAGAAA
*
3244192 GGAAAAAAGAAA
1 GAAAAAAAGAAA
*
3244204 GAAAAAAGGAAA
1 GAAAAAAAGAAA
3244216 AAATGGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
12 26 0.81
13 6 0.19
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAA
Found at i:3244213 original size:19 final size:20
Alignment explanation
Indices: 3244179--3244218 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
3244169 AAAACAAGAG
3244179 AGAAAAAAAGAAAGGAAAAA
1 AGAAAAAAAGAAAGGAAAAA
*
3244199 AGAAAGAAA-AAAGGAAAAA
1 AGAAAAAAAGAAAGGAAAAA
3244218 A
1 A
3244219 TGGAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAGAAAGGAAAAA
Found at i:3246263 original size:156 final size:155
Alignment explanation
Indices: 3245972--3246979 Score: 982
Period size: 156 Copynumber: 6.4 Consensus size: 155
3245962 TCCCATTTCT
* * ** *
3245972 AGTCTTTTAGGGTTACCGGGATACTTTTACGTCGAAGGTATACACATAGGGGCATTTTCGTAATT
1 AGTCCTTTAGGGTTGCTAGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATT
* * *
3246037 TGT-TAGAA-CAACTCCTAGGTCATCATCGGGTCTTCTTTTATGCTGAAGGTGGGCATTTAGGAT
66 T-TCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCTGAAGGT-GGCATTTAGGAT
3246100 AGGTTCATCCCATCTCTAGTCTTTTTA
129 AGGTTCATCCCATCTCTAGTCTTTTTA
* * * * *
3246127 AGTCCTTTAGGGTAGCTAAGATACTTTTATGTCGAAGGTATACCCATAAGGGCATTTTTGTAATT
1 AGTCCTTTAGGGTTGCTAGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATT
* ** *
3246192 TTCTAGAACCAACTCCTAGGTCATCTTCGGGTCTGCTTTTATGCTGAAGGTAGGCTTTTAGGATA
66 TTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCTGAAGGT-GGCATTTAGGATA
*
3246257 GTTTCATCCCATCTCTAGTCTTTTTA
130 GGTTCATCCCATCTCTAGTCTTTTTA
* * * ** * *
3246283 AGTCATTTAGGGTTG-TCGAGATACTTTTATGTCGAATATATACCCATAAGGGCATTTTCATAAT
1 AGTCCTTTAGGGTTGCTAG-GATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAAT
* *
3246347 TTTCTTGAACCAACTACTAGGTCGTCACCGGGTCCGCTTTTTTGCTTTTATG-TCGAAGGTGGGC
65 TTTCTAGAACCAACTCCTAGGTCGTCACCGGGT---C-----TGCTTTTATGCT-GAAGGT-GGC
*
3246411 ATTTAGG-TAGGTTCATCCCATCTCTAGTTTTTTTA
120 ATTTAGGATAGGTTCATCCCATCTCTAGTCTTTTTA
* *
3246446 AGTCCTTTAGGGTTGCTGGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTTGTAATT
1 AGTCCTTTAGGGTTGCTAGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATT
* * * **
3246511 TTCTAGAACTAACTCCTAAGTCGTCACCGGGTCAGCTTTTATGCCAAAGGTGAGCATTTAGGATA
66 TTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCTGAAGGTG-GCATTTAGGATA
*
3246576 GGCTT-GT-CCATCTCTAGTCTTTTTA
130 GG-TTCATCCCATCTCTAGTCTTTTTA
* * *
3246601 AGTCCTTTAGGGTTGC-CGGAATACTTTTACGTCGAAGGCATACCCATAGGGGCATTTTCATAAT
1 AGTCCTTTAGGGTTGCTAGG-ATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAAT
** * * *
3246665 TTTCTAGAACCAACTTTTAGGTCGTCACCGAGTCCGCTTTTATGCCGAAGGTGGACATTTAGGAT
65 TTTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCTGAAGGTGG-CATTTAGGAT
*
3246730 AGGTTCATCCCATCTATA-TCCTTTTTA
129 AGGTTCATCCCATCTCTAGT-CTTTTTA
* * ** * * * * * *
3246757 AGTCCATTATGGTTATTAGGATATTTTTAAGTCAAAGGTATACCCATAGGGGCATTTGCATATTT
1 AGTCCTTTAGGGTTGCTAGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATT
* ** * * * ** * * * * * *
3246822 TTTTCAGAGTCGAGTCCTAGTTTATAACCGGGTCTGCTTTTATGCCGAATGTGGGTATATAGGAA
66 TTCT-AGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCTGAAGGT-GGCATTTAGGAT
* * * *
3246887 AGGTACATCCCTTTTATTA-TCCTTTTTA
129 AGGTTCATCCCATCT-CTAGT-CTTTTTA
* * * * * *
3246915 AGTCCTTTAAGGGTAT-C-AGG-TACTTATATGTCAAAGGTAT-CTCTTAGGGGCATTTTCATAA
1 AGTCCTTT-AGGGT-TGCTAGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAA
3246976 TTTT
64 TTTT
3246980 TCTTGAACTT
Statistics
Matches: 721, Mismatches: 104, Indels: 55
0.82 0.12 0.06
Matches are distributed among these distances:
154 7 0.01
155 220 0.31
156 254 0.35
157 74 0.10
158 23 0.03
159 5 0.01
160 2 0.00
163 109 0.15
164 27 0.04
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (155 bp):
AGTCCTTTAGGGTTGCTAGGATACTTTTACGTCGAAGGTATACCCATAGGGGCATTTTCGTAATT
TTCTAGAACCAACTCCTAGGTCGTCACCGGGTCTGCTTTTATGCTGAAGGTGGCATTTAGGATAG
GTTCATCCCATCTCTAGTCTTTTTA
Found at i:3246980 original size:157 final size:157
Alignment explanation
Indices: 3246691--3246980 Score: 368
Period size: 157 Copynumber: 1.9 Consensus size: 157
3246681 TTAGGTCGTC
* * *
3246691 ACCGAGTCCGCTTTTATGCCGAAGGTGGACATTTAGGATAGGTTCATCCCATCTATATCCTTTTT
1 ACCGAGTCCGCTTTTATGCCGAAGGTGGACATATAGGAAAGGTACATCCCATCTATATCCTTTTT
* * * * *
3246756 AAGTCCATTATGGTTATTAGGATATTTTTAAGTCAAAGGTATACCCATAGGGGCATTTGCATATT
66 AAGTCCATTAAGGGTATCAGGATACTTATAAGTCAAAGGTATACCCATAGGGGCATTTGCATATT
3246821 TTTTTCAGAGTCGAGTCCTAGTTTATA
131 TTTTTCAGAGTCGAGTCCTAGTTTATA
* * * ** * *
3246848 ACCGGGTCTGCTTTTATGCCGAATGTGGGTATATAGGAAAGGTACATCCCTTTTATTATCCTTTT
1 ACCGAGTCCGCTTTTATGCCGAAGGTGGACATATAGGAAAGGTACATCCCATCTA-TATCCTTTT
* * * * * *
3246913 TAAGTCCTTTAAGGGTATCAGG-TACTTATATGTCAAAGGTAT-CTCTTAGGGGCATTTTCATAA
65 TAAGTCCATTAAGGGTATCAGGATACTTATAAGTCAAAGGTATACCCATAGGGGCATTTGCATAT
3246976 TTTTT
130 TTTTT
3246981 CTTGAACTTA
Statistics
Matches: 111, Mismatches: 21, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
156 22 0.20
157 62 0.56
158 27 0.24
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.39
Consensus pattern (157 bp):
ACCGAGTCCGCTTTTATGCCGAAGGTGGACATATAGGAAAGGTACATCCCATCTATATCCTTTTT
AAGTCCATTAAGGGTATCAGGATACTTATAAGTCAAAGGTATACCCATAGGGGCATTTGCATATT
TTTTTCAGAGTCGAGTCCTAGTTTATA
Found at i:3248891 original size:79 final size:79
Alignment explanation
Indices: 3248808--3249355 Score: 474
Period size: 79 Copynumber: 6.9 Consensus size: 79
3248798 ATGGGGTCGA
* * *
3248808 AGTATCCCTTCAGAAGTAACGGGGTTAGAGTATCCCCAATGGTGAAAAATCGA-TGTTTTGTAAA
1 AGTATCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGAGTGTTTTG-AAA
3248872 TAAAACCGGGGTTGG
65 TAAAACCGGGGTTGG
* * * *** * * *
3248887 AGTATCCCCTT-GGAAATAACAGGGTTGGAGTATTCTTGATTATGGAAAATTGA-TGTTTTAGAA
1 AGTAT-CCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGAGTGTTTT-GAA
* *
3248950 ATAAAGCTGGGGTTGG
64 ATAAAACCGGGGTTGG
* ** *
3248966 AGCATCTCC-T-AGGAAATAACGGGGTTGGAGTATCCCTGATTATGAAAAATC-AGTGTTTTAGA
1 AGTATC-CCTTCA-GAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGAGTGTTTT-GA
3249028 AATAAAAACCGGGGTTGG
63 AAT-AAAACCGGGGTTGG
* * *
3249046 AGTATCTCC-TCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAAAAACCAGTGTTTTGG
1 AGTATC-CCTTCAGAAATAACGGGGTTGGAGTATCCCCAATTGTG--AAAAATCGAGTGTTTT-G
**
3249110 AAATAAAACTAGGGTTGG
62 AAATAAAACCGGGGTTGG
* * *
3249128 GGTATCCCCTCAGAAATGAA-GGGGTTGGAGTATCCCAAATTGTGAAAAATC-AGTGTTTTGGAA
1 AGTATCCCTTCAGAAAT-AACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGAGTGTTTT-GAA
**
3249191 ATAAAAACTAGGGTTGG
64 AT-AAAACCGGGGTTGG
* * * * * * * *
3249208 AGTATTCCCTTGA-AAATAGCAGGGTTAGAGTATCCCCGATTATGGAAAAT-TAGTGTTTTGGAA
1 AGTA-TCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGAGTGTTTT-GAA
* *
3249271 ATAAAAATCGGGGTTAG
64 AT-AAAACCGGGGTTGG
* * *
3249288 AGTA-CCCTTCAGAAATAACGGGGTTGGAGTATCACCAATTGTGGAAAATCGACGT-TTTAGAAA
1 AGTATCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGA-GTGTTTTGAAA
3249351 TAAAA
65 TAAAA
3249356 ACATGAATGA
Statistics
Matches: 391, Mismatches: 59, Indels: 39
0.80 0.12 0.08
Matches are distributed among these distances:
78 13 0.03
79 160 0.41
80 139 0.36
81 11 0.03
82 53 0.14
83 15 0.04
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (79 bp):
AGTATCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATTGTGAAAAATCGAGTGTTTTGAAAT
AAAACCGGGGTTGG
Found at i:3249194 original size:241 final size:240
Alignment explanation
Indices: 3248808--3249335 Score: 629
Period size: 241 Copynumber: 2.2 Consensus size: 240
3248798 ATGGGGTCGA
* * * * *
3248808 AGTATCCCTTCAGAAGTAACGGGGTTAGAGTATCCCCAATGGTG-AAAAATCGATGTTTTGTAAA
1 AGTATCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAAAACCATGTTTTGGAAA
* ** * *** *
3248872 TAAAACCGGGGTTGGAGTATCCCCTTGGAAATAACAGGGTTGGAGTATTCTTGATTATGGAAAAT
66 TAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCAAATTATGAAAAAT
* * * * * *
3248937 TGATGTTTTAGAAAT-AAAGCTGGGGTTGGAGCA-TCTCCTAGGAAATAACGGGGTTGGAGTATC
131 AGATGTTTTAGAAATAAAAACTAGGGTTGGAGCATTC-CCTAGAAAATAACAGGGTTAGAGTATC
* *
3249000 CCTGATTATGAAAAATCAGTGTTTTAGAAATAAAAACCGGGGTTGG
195 CCCGATTATGAAAAATCAGTGTTTTAGAAATAAAAACCGGGGTTAG
3249046 AGTATCTCC-TCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAAAAACCAGTGTTTTGG
1 AGTATC-CCTTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTG-AAAAAAACCA-TGTTTTGG
* * * *
3249110 AAATAAAACTAGGGTTGGGGTATCCCCTCAGAAATGAA-GGGGTTGGAGTATCCCAAATTGTGAA
63 AAATAAAACCAGGGTTGGAGTATCCCCTCAGAAAT-AACAGGGTTGGAGTATCCCAAATTATGAA
* * * *
3249174 AAATCAG-TGTTTTGGAAATAAAAACTAGGGTTGGAGTATTCCCTTGAAAATAGCAGGGTTAGAG
127 AAAT-AGATGTTTTAGAAATAAAAACTAGGGTTGGAGCATTCCCTAGAAAATAACAGGGTTAGAG
* * * *
3249238 TATCCCCGATTATGGAAAATTAGTGTTTTGGAAATAAAAATCGGGGTTAG
191 TATCCCCGATTATGAAAAATCAGTGTTTTAGAAATAAAAACCGGGGTTAG
* * *
3249288 AGTA-CCCTTCAGAAATAACGGGGTTGGAGTATCACCAATTGTGGAAAA
1 AGTATCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAA
3249336 TCGACGTTTT
Statistics
Matches: 245, Mismatches: 36, Indels: 16
0.82 0.12 0.05
Matches are distributed among these distances:
238 39 0.16
239 2 0.01
240 13 0.05
241 105 0.43
242 84 0.34
243 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.27
Consensus pattern (240 bp):
AGTATCCCTTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGAAAAAAACCATGTTTTGGAAA
TAAAACCAGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCAAATTATGAAAAAT
AGATGTTTTAGAAATAAAAACTAGGGTTGGAGCATTCCCTAGAAAATAACAGGGTTAGAGTATCC
CCGATTATGAAAAATCAGTGTTTTAGAAATAAAAACCGGGGTTAG
Found at i:3251161 original size:17 final size:17
Alignment explanation
Indices: 3251139--3251174 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
3251129 GGCGAAAGTG
3251139 TGAGGAATGTGGAGTTT
1 TGAGGAATGTGGAGTTT
3251156 TGAGGAATGTGGAGTTT
1 TGAGGAATGTGGAGTTT
3251173 TG
1 TG
3251175 GGAGGCTCTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (17 bp):
TGAGGAATGTGGAGTTT
Found at i:3253738 original size:20 final size:19
Alignment explanation
Indices: 3253692--3253747 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
3253682 AAAACCCTTA
*
3253692 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
3253712 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
* *
3253732 AATGTATTGATACATG
1 AAAGTATCGATACATG
3253748 AAAAAGATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:3253835 original size:13 final size:13
Alignment explanation
Indices: 3253817--3253842 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3253807 TACACAAAAT
3253817 ATGTATCGATACA
1 ATGTATCGATACA
3253830 ATGTATCGATACA
1 ATGTATCGATACA
3253843 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3253842 original size:32 final size:34
Alignment explanation
Indices: 3253799--3253863 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 34
3253789 TAGCCAAACT
*
3253799 TGTATCAATACAC-AAAATA-TGTATCGATACAA
1 TGTATCAATACACAAAAAAATTGTATCGATACAA
*
3253831 TGTATCGATACACAAAAAAATTGTATCGATACA
1 TGTATCAATACACAAAAAAATTGTATCGATACA
3253864 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 12 0.41
33 5 0.17
34 12 0.41
ACGTcount: A:0.46, C:0.15, G:0.11, T:0.28
Consensus pattern (34 bp):
TGTATCAATACACAAAAAAATTGTATCGATACAA
Found at i:3258961 original size:44 final size:43
Alignment explanation
Indices: 3258885--3259032 Score: 129
Period size: 44 Copynumber: 3.4 Consensus size: 43
3258875 CCTGCCTGAC
* * * * *
3258885 GTATGGTTATCACCTTGGTCAGATTCTTTTCATTTTGATTTAAT
1 GTATGGTTACCACCCTAGTCAAATTC-TTTCATTTTGATTTGAT
* * *
3258929 GTATGGTTACCACCTTAGTCAAATATGC-TTCATTCCT-ATTTGAC
1 GTATGGTTACCACCCTAGTCAAAT-T-CTTTCATT-TTGATTTGAT
* * *
3258973 ATATGGTTACCACCCTAGTCAGATTCTTTTCATTTTGGTTTGAT
1 GTATGGTTACCACCCTAGTCAAATTC-TTTCATTTTGATTTGAT
*
3259017 GTATGGCTACCACCCT
1 GTATGGTTACCACCCT
3259033 GGTCGAACAA
Statistics
Matches: 84, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
42 1 0.01
43 2 0.02
44 78 0.93
45 2 0.02
46 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.43
Consensus pattern (43 bp):
GTATGGTTACCACCCTAGTCAAATTCTTTCATTTTGATTTGAT
Found at i:3259178 original size:43 final size:43
Alignment explanation
Indices: 3259124--3259279 Score: 210
Period size: 42 Copynumber: 3.7 Consensus size: 43
3259114 TGGTCTTTTT
* * *
3259124 TCTGCCCGTCGGCTAAGACCAGGGAGACTTTCTTTATCTTTTG
1 TCTGCCCGTCGGCTTAGACCCGGGAGACTTTCTTTATCCTTTG
3259167 TCTGCCCGTCGGCTTAGACCCGGGAGACTTT-TTTATCCTTTG
1 TCTGCCCGTCGGCTTAGACCCGGGAGACTTTCTTTATCCTTTG
* *
3259209 TCTGCCCGTCGGCTTAGGCCCGAGG-GAC-TTCTTTATCCTTCG
1 TCTGCCCGTCGGCTTAGACCCG-GGAGACTTTCTTTATCCTTTG
* * *
3259251 TCTGCTCGTCGGCTTTGACCCGAGAGACT
1 TCTGCCCGTCGGCTTAGACCCGGGAGACT
3259280 CTTTTGCCCT
Statistics
Matches: 100, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
41 3 0.03
42 66 0.66
43 31 0.31
ACGTcount: A:0.13, C:0.29, G:0.25, T:0.33
Consensus pattern (43 bp):
TCTGCCCGTCGGCTTAGACCCGGGAGACTTTCTTTATCCTTTG
Found at i:3259385 original size:43 final size:43
Alignment explanation
Indices: 3259332--3259913 Score: 499
Period size: 43 Copynumber: 13.6 Consensus size: 43
3259322 CCTTCATCTC
* * * *
3259332 AAGTTTGCTTGTCAGCTTTGA-CCTAAGAAACTTCTTCACCCTT
1 AAGTCTGCTTGTCGGCTTTGACCCT-AGAGACTTCTTCGCCCTT
* * *
3259375 AAGTCTGCTTGTCGGCTTTG-CCCTTGGGGACTTCTTTGCCCTT
1 AAGTCTGCTTGTCGGCTTTGACCC-TAGAGACTTCTTCGCCCTT
* * *
3259418 AAGTCTGCTTATCGGCTTTGACCCTAGAGACTTCTTTGCCCTA
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* * * * *
3259461 AAGTTTCCTTGTCCGCATTGACCCTAGAGATTTCCTT-GCCCTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTT-CTTCGCCCTT
* * *
3259504 AAGTCTGCCTGTTGGCTTTGACCCTAGAGACTTCTTCGCCTTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* * * * *
3259547 AAGTCTGCCTATCGACTTAGACCCTAGAGACTTCTTCGCCCTA
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* * * * * ** *
3259590 AAGTCTACCTATCGGCTCTGACCTTAGAGACTTCTTTACCCTA
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* * * * *
3259633 AAGTCTACCTGTTGGCTTAGACCCTGGAGACTTCTTCGCCCTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* ** * * *
3259676 AAGTCTTCTTGTCAACTTTGACCTTGGAGACTTCCTCGCCCTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
*** * * *
3259719 AAGTCTGCCAATCGGCTTTGACCCTAGAGACTTTTTCACCCTA
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* * * * *
3259762 AAATCTGTTTGTCAGCTTTGACCCTTGAGACTTTTTTC-CCCTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGAC-TTCTTCGCCCTT
* * * *
3259805 AAGTCTGCTTGTCGGCTTTGATCCTGGAGACTTCTTCACCTTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* * * * * *
3259848 AAGTCAGCTTGTCAGCTTTGACCTTGGAGATTTCTTCACCCTT
1 AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
* **
3259891 TA-TCTGCCCGTCGGCTTTGACCC
1 AAGTCTGCTTGTCGGCTTTGACCC
3259914 GGGAGACCTC
Statistics
Matches: 437, Mismatches: 95, Indels: 15
0.80 0.17 0.03
Matches are distributed among these distances:
42 24 0.05
43 400 0.92
44 13 0.03
ACGTcount: A:0.17, C:0.29, G:0.18, T:0.36
Consensus pattern (43 bp):
AAGTCTGCTTGTCGGCTTTGACCCTAGAGACTTCTTCGCCCTT
Found at i:3259970 original size:85 final size:84
Alignment explanation
Indices: 3259862--3260019 Score: 192
Period size: 85 Copynumber: 1.9 Consensus size: 84
3259852 CAGCTTGTCA
** * * *
3259862 GCTTTGACCTTGGAGATTTCTTCACCCTTT-ATCTGCCCGTCGGCTTTGACCCGGGAGACCTCTT
1 GCTTTGACCCAGGAGATTCCTTCA-CCTTTCATCTGCCCGTCAGCTTTAACCCGGGAGACCTCTT
*
3259926 TATCTTTTAACTACTCGTCG
65 AATCTTTTAACTACTCGTCG
* * * *
3259946 GCTTTGACCCAGGAGACTTCCTTCATCTTTCATTTGCCCGTCAGCTTTAACTCGGGAGACTTCTT
1 GCTTTGACCCAGGAGA-TTCCTTCACCTTTCATCTGCCCGTCAGCTTTAACCCGGGAGACCTCTT
*
3260011 AATTTTTTA
65 AATCTTTTA
3260020 TCTGCTAGTC
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
84 18 0.30
85 43 0.70
ACGTcount: A:0.16, C:0.28, G:0.18, T:0.38
Consensus pattern (84 bp):
GCTTTGACCCAGGAGATTCCTTCACCTTTCATCTGCCCGTCAGCTTTAACCCGGGAGACCTCTTA
ATCTTTTAACTACTCGTCG
Found at i:3259993 original size:43 final size:42
Alignment explanation
Indices: 3259858--3260049 Score: 138
Period size: 42 Copynumber: 4.5 Consensus size: 42
3259848 AAGTCAGCTT
** * *
3259858 GTCAGCTTTGACCTTGGAGA-TTTCTTCACCCTTTATCTGCCC
1 GTCAGCTTTGACCCGGGAGACTTCCTTCA-TCTTTATCTGCCC
* * * * * *
3259900 GTCGGCTTTGACCCGGGAGACCT-CTTTATCTTTTAACTACTC
1 GTCAGCTTTGACCCGGGAGACTTCCTTCATC-TTTATCTGCCC
* * *
3259942 GTCGGCTTTGACCCAGGAGACTTCCTTCATCTTTCATTTGCCC
1 GTCAGCTTTGACCCGGGAGACTTCCTTCATCTTT-ATCTGCCC
* * * * **
3259985 GTCAGCTTTAACTCGGGAGACTT-CTTAATTTTTTATCTGCTA
1 GTCAGCTTTGACCCGGGAGACTTCCTTCA-TCTTTATCTGCCC
* *
3260027 GTCAGCTTAGACCCGAGAGACTT
1 GTCAGCTTTGACCCGGGAGACTT
3260050 TTTCGTCAAC
Statistics
Matches: 116, Mismatches: 29, Indels: 10
0.75 0.19 0.06
Matches are distributed among these distances:
41 1 0.01
42 81 0.70
43 34 0.29
ACGTcount: A:0.18, C:0.28, G:0.19, T:0.36
Consensus pattern (42 bp):
GTCAGCTTTGACCCGGGAGACTTCCTTCATCTTTATCTGCCC
Found at i:3260077 original size:42 final size:42
Alignment explanation
Indices: 3260031--3260122 Score: 121
Period size: 42 Copynumber: 2.2 Consensus size: 42
3260021 CTGCTAGTCA
* * *
3260031 GCTTAGACCCGAGAGACTTTTTCGTCAACCATTTGCCTGTTG
1 GCTTAGACCCGAGAGACTTCTTCATCAACCATCTGCCTGTTG
* ** *
3260073 GCTTAGACCCGGGAGACTTCTTCATCCGCCATCTGCCTTTTG
1 GCTTAGACCCGAGAGACTTCTTCATCAACCATCTGCCTGTTG
3260115 GCTTAGAC
1 GCTTAGAC
3260123 TCAGGAAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (42 bp):
GCTTAGACCCGAGAGACTTCTTCATCAACCATCTGCCTGTTG
Found at i:3260265 original size:84 final size:84
Alignment explanation
Indices: 3260174--3260403 Score: 234
Period size: 84 Copynumber: 2.7 Consensus size: 84
3260164 CTCGAGAAAT
* * * * *
3260174 AACCTTCATCTATTATTTACTTGTCAGCTAAGTCCCCGGTAAACCCCATCT-CTCC-T-TGGTGG
1 AACCTTCATCCATTGTTTACTTGTCGGCTAAGTCCTCGGTAAA-CCCAT-TAC-CCTTATGGTGA
* *
3260236 CCTATCAACTCAGTCTCTGGTC
63 CCTATCAACTCAGTCTCCGATC
* * * * *
3260258 AACCTTCATCCATTGTTTACCTATCGGCTTAGTCGTCGGTAAACCCATTACCCTTATGTTGACCT
1 AACCTTCATCCATTGTTTACTTGTCGGCTAAGTCCTCGGTAAACCCATTACCCTTATGGTGACCT
*
3260323 ATCAGCTCAGTCTCCGATC
66 ATCAACTCAGTCTCCGATC
* * ** *
3260342 AACCTTCATCCATTGTTCACTTGTCGGC-AGAGTCCTCGGTAAGCCTTTTACCCTTATAGTGA
1 AACCTTCATCCATTGTTTACTTGTCGGCTA-AGTCCTCGGTAAACCCATTACCCTTATGGTGA
3260404 ATTATCAGTT
Statistics
Matches: 119, Mismatches: 23, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
82 3 0.03
83 7 0.06
84 109 0.92
ACGTcount: A:0.21, C:0.30, G:0.15, T:0.33
Consensus pattern (84 bp):
AACCTTCATCCATTGTTTACTTGTCGGCTAAGTCCTCGGTAAACCCATTACCCTTATGGTGACCT
ATCAACTCAGTCTCCGATC
Found at i:3260803 original size:84 final size:85
Alignment explanation
Indices: 3260615--3261118 Score: 284
Period size: 84 Copynumber: 6.0 Consensus size: 85
3260605 TGTTGACTTG
* * * *
3260615 GTCCCAAGTACTTTCTTTTATCTTTTC-TTGACTTGTCGGTCTAATCTCGATCAACTTTTTTATC
1 GTCCCAGGTAATTCCTTTTATC-CTTCGTTGACTTGTCGGTCTAATCTCGATCAACTTTTTTATC
** **
3260679 CTTTGTTTACCC-ATCGGCCCA
65 CTTCATTT-CCCTATCGGCTTA
* * * * * *
3260700 ATCCCAAGTAAATCC-TTTATCCCTCGTTAACTTGTCAGT-TCAATCTCGATCAAC-TTTTTATC
1 GTCCCAGGTAATTCCTTTTATCCTTCGTTGACTTGTCGGTCT-AATCTCGATCAACTTTTTTATC
* *
3260762 CTTCATTTCCCTGTCGGCTTG
65 CTTCATTTCCCTATCGGCTTA
* * * * * * *
3260783 GTCCCAGGTACTTCCTTTTATCGTTTGTTAACTTGTTGGTCTAATCCCGGTCAACTTTTTTATCC
1 GTCCCAGGTAATTCCTTTTATCCTTCGTTGACTTGTCGGTCTAATCTCGATCAACTTTTTTATCC
** * * *
3260848 TTTGTTTACCTACCGGCCTA
66 TTCATTTCCCTATCGGCTTA
* * * * * * * *
3260868 -ACCC-GAGTAAATCC-ATTATCCCTCGTTGACTTATCAGTTCAAATCCCGATCAAC-TTTTTAT
1 GTCCCAG-GTAATTCCTTTTATCCTTCGTTGACTTGTC-GGTCTAATCTCGATCAACTTTTTTAT
* * * *
3260929 CCATCATTCCCCTGTTGGCTTA
64 CCTTCATTTCCCTATCGGCTTA
* * * * * *
3260951 GTCCGAGGTATTTCCTTTTATCTTTTGTTGACTTGTCGGTCTAATCTCGGTAAACTTTTTTATCC
1 GTCCCAGGTAATTCCTTTTATCCTTCGTTGACTTGTCGGTCTAATCTCGATCAACTTTTTTATCC
** * **
3261016 TTTGTTTACCC-ATCGACCCA
66 TTCATTT-CCCTATCGGCTTA
* * * * * * *
3261036 GTCCC-GAGTAAAT-CTTTTATCCGTC-TTGACTTGTTGGTTTAATCTTGGTCAA-TTGTTTAT-
1 GTCCCAG-GTAATTCCTTTTATCCTTCGTTGACTTGTCGGTCTAATCTCGATCAACTTTTTTATC
* *
3261096 CTGTCGTTT-ACTATCGGCTTA
65 CT-TCATTTCCCTATCGGCTTA
3261117 GT
1 GT
3261119 TTCGGGTAAA
Statistics
Matches: 310, Mismatches: 93, Indels: 36
0.71 0.21 0.08
Matches are distributed among these distances:
80 1 0.00
81 10 0.03
82 15 0.05
83 91 0.29
84 115 0.37
85 75 0.24
86 3 0.01
ACGTcount: A:0.18, C:0.26, G:0.14, T:0.42
Consensus pattern (85 bp):
GTCCCAGGTAATTCCTTTTATCCTTCGTTGACTTGTCGGTCTAATCTCGATCAACTTTTTTATCC
TTCATTTCCCTATCGGCTTA
Found at i:3260850 original size:168 final size:168
Alignment explanation
Indices: 3260429--3261069 Score: 775
Period size: 168 Copynumber: 3.9 Consensus size: 168
3260419 TTGGTCAACC
* *
3260429 TTTATCCTTCATTCACCTGTTGACTTGGTCCCAGGTACTTCCTTTTATCTTTTGCTGACTTGTTG
1 TTTATCCTTCATTCACCTGTTGACTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCG
* * * * * * *
3260494 GTCCAATCTCGATCAAC-TTTTTAGCCTTTGTTTACCCGCCGACCTAGTCCTAGGTAAATCCTTT
66 GTCTAATCTCGATCAACTTTTTTATCCTTTGTTTACCCACCGACCCAATCCCAAGTAAATCCTTT
*
3260558 ATCCCTCGTTGACTTGTCGGTTCAATCCCGATC-A---
131 ATCCCTCGTTGACTTGTCAGTTCAATCCCGATCAACTT
* * * * *
3260592 ---A-CCTTCATTCTCTTGTTGACTTGGTCCCAAGTACTTTCTTTTATCTTTTCTTGACTTGTCG
1 TTTATCCTTCATTCACCTGTTGACTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCG
* *
3260653 GTCTAATCTCGATCAACTTTTTTATCCTTTGTTTACCCATCGGCCCAATCCCAAGTAAATCCTTT
66 GTCTAATCTCGATCAACTTTTTTATCCTTTGTTTACCCACCGACCCAATCCCAAGTAAATCCTTT
* *
3260718 ATCCCTCGTTAACTTGTCAGTTCAATCTCGATCAACTT
131 ATCCCTCGTTGACTTGTCAGTTCAATCCCGATCAACTT
* * * * *
3260756 TTTATCCTTCATTTC-CCTGTCGGCTTGGTCCCAGGTACTTCCTTTTATCGTTTGTTAACTTGTT
1 TTTATCCTTCA-TTCACCTGTTGACTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTC
* * * * * * *
3260820 GGTCTAATCCCGGTCAACTTTTTTATCCTTTGTTTACCTACCGGCCTAA-CCCGAGTAAATCCAT
65 GGTCTAATCTCGATCAACTTTTTTATCCTTTGTTTACCCACCGACCCAATCCCAAGTAAATCCTT
*
3260884 TATCCCTCGTTGACTTATCAGTTCAAATCCCGATCAACTT
130 TATCCCTCGTTGACTTGTCAGTTC-AATCCCGATCAACTT
* * * * * *
3260924 TTTATCCATCATTCCCCTGTTGGCTTAGTCCGAGGTATTTCCTTTTATCTTTTGTTGACTTGTCG
1 TTTATCCTTCATTCACCTGTTGACTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCG
* * * * * *
3260989 GTCTAATCTCGGTAAACTTTTTTATCCTTTGTTTACCCATCGACCCAGTCCCGAGTAAATCTTTT
66 GTCTAATCTCGATCAACTTTTTTATCCTTTGTTTACCCACCGACCCAATCCCAAGTAAATCCTTT
*
3261054 ATCCGTC-TTGACTTGT
131 ATCCCTCGTTGACTTGT
3261070 TGGTTTAATC
Statistics
Matches: 408, Mismatches: 57, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
159 69 0.17
160 70 0.17
161 1 0.00
167 39 0.10
168 206 0.50
169 23 0.06
ACGTcount: A:0.18, C:0.27, G:0.14, T:0.41
Consensus pattern (168 bp):
TTTATCCTTCATTCACCTGTTGACTTGGTCCCAGGTACTTCCTTTTATCTTTTGTTGACTTGTCG
GTCTAATCTCGATCAACTTTTTTATCCTTTGTTTACCCACCGACCCAATCCCAAGTAAATCCTTT
ATCCCTCGTTGACTTGTCAGTTCAATCCCGATCAACTT
Found at i:3265270 original size:13 final size:12
Alignment explanation
Indices: 3265243--3265288 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
3265233 TTGCCTTGTT
*
3265243 TTTCCTTTTTTC
1 TTTCTTTTTTTC
3265255 TTTCTTTTTCTTC
1 TTTCTTTTT-TTC
*
3265268 TTTCCTTTTTTC
1 TTTCTTTTTTTC
3265280 --TCTTTTTTT
1 TTTCTTTTTTT
3265289 GTTTTAGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
10 8 0.27
12 11 0.37
13 11 0.37
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTCTTTTTTTC
Found at i:3265989 original size:166 final size:166
Alignment explanation
Indices: 3265751--3266218 Score: 449
Period size: 166 Copynumber: 2.8 Consensus size: 166
3265741 CAATATATAC
* * * ** *
3265751 AAAAAAATTCAAAATTCATG-AAAT-AATTTAAATTTTCCAAAACTGATTTAATAAAAATTTAAT
1 AAAAAAATTCAAAAATCATGAAAATGAA--TGAATTTTTCAAAACTGATTTAATATGAATTAAAT
* ** * *
3265814 GAAAATATTAGATGTATT-TAAAAAATTTTAGATCGA-GAAAAACCCCCCATAAAA-ATTTACAG
64 -AAAATATTAGATGAATTAT-AAAAATTAAAAAACGATGAAAAACCCCCCA-AAAATATTTACAG
3265876 AGAAGAAAAC-TCAGT-TTTTCGATAAAAAAGAATTTCAAGG
126 AGAAGAAAACTTC-GTATTTTCGATAAAAAAGAATTTCAAGG
* *
3265916 AAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTCAAAACTAATCTAATATGAATTAAATA
1 AAAAAAATTCAAAAA-TCATGAAAATGAATGAATTTTTCAAAACTGATTTAATATGAATTAAATA
* * *
3265981 AGAATATTAGATGAATTATAAAAATTAAAAAACGATGAAAATCCTCCCAAAAATATTTTCAGAGA
65 A-AATATTAGATGAATTATAAAAATTAAAAAACGATGAAAAACCCCCCAAAAATATTTACAGAGA
* * * *
3266046 AGAAAACTTCGTATTTTGGATACAAAGGAGTTTCAAGG
129 AGAAAACTTCGTATTTTCGATAAAAAAGAATTTCAAGG
* * *
3266084 --AAAAATTCAAAAATCTATGAAAATGAATGAATTTTTTAGAACTGATTTAATATGAATTAAACA
1 AAAAAAATTCAAAAATC-ATGAAAATGAATGAATTTTTCAAAACTGATTTAATATGAATTAAATA
* * * * * * **
3266147 ATAATATTTA-ATTAATTTTAGAAAA-T-AAAAACTAATGAAAATCCTCCCAAAAA-AATTATGG
65 A-AATA-TTAGATGAATTATA-AAAATTAAAAAAC-GATGAAAAACCCCCCAAAAATATTTACAG
3266208 AGAAGAAAACT
126 AGAAGAAAACT
3266219 CCGCATTTCG
Statistics
Matches: 257, Mismatches: 33, Indels: 26
0.81 0.10 0.08
Matches are distributed among these distances:
165 39 0.15
166 151 0.59
167 42 0.16
168 25 0.10
ACGTcount: A:0.51, C:0.10, G:0.10, T:0.29
Consensus pattern (166 bp):
AAAAAAATTCAAAAATCATGAAAATGAATGAATTTTTCAAAACTGATTTAATATGAATTAAATAA
AATATTAGATGAATTATAAAAATTAAAAAACGATGAAAAACCCCCCAAAAATATTTACAGAGAAG
AAAACTTCGTATTTTCGATAAAAAAGAATTTCAAGG
Found at i:3267709 original size:86 final size:84
Alignment explanation
Indices: 3267606--3268034 Score: 395
Period size: 85 Copynumber: 5.1 Consensus size: 84
3267596 GGACAAAGAA
* * * * *
3267606 GTTTACCAAGGACTGAGCCGACAGGTAAACAAAGAGATGAAG-GTTGATCAGAGACTAAGCTAAT
1 GTTTA-CAGGGACTGAGCCGATAGGTAAACGAAG-GATGAAGAATTGATCAGAGACTAAGCTGAT
3267670 AGGTCACCATAAATGTAAAGG
64 AGGTCACCATAAATGTAAAGG
* * * * * *
3267691 GACTTATCAGGGATTGAGCCGATAAGTAAACAAAGAGATGAAG-GTTGATCAGAGACTGAGCTGA
1 G-TTTA-CAGGGACTGAGCCGATAGGTAAACGAAG-GATGAAGAATTGATCAGAGACTAAGCTGA
* *** *
3267755 CAGGTCACCATTGGTGTAAGGG
63 TAGGTCACCATAAATGTAAAGG
* * * * *
3267777 GTTTACTAGGGACAGAGTCGATAGGTAAATGAAGGATGAAGAATTGA-CTAGGGACTAAGCCGAT
1 GTTTAC-AGGGACTGAGCCGATAGGTAAACGAAGGATGAAGAATTGATC-AGAGACTAAGCTGAT
*
3267841 AGGTCACCATAAATGTAAAAG
64 AGGTCACCATAAATGTAAAGG
* * * * *
3267862 GTTTACCAGGGACTGAGCCGGTAGGTAAACGAAGGATGAAGAATTGAT-TGAGGACT-GGC-CAC
1 GTTTA-CAGGGACTGAGCCGATAGGTAAACGAAGGATGAAGAATTGATCAGA-GACTAAGCTGAT
*
3267924 AAGTCACCATAAATGTAAAGG
64 AGGTCACCATAAATGTAAAGG
* * * * * *
3267945 GTTTACCGAGGACTGAGCTGAGAGGTAAATGAAGGATGAAGAATTGATTAGGGACTAAG-TCGAT
1 GTTTACAG-GGACTGAGCCGATAGGTAAACGAAGGATGAAGAATTGATCAGAGACTAAGCT-GAT
*
3268009 AGGTCACCATTAATGTAAAGG
64 AGGTCACCATAAATGTAAAGG
3268030 GTTTA
1 GTTTA
3268035 TCAAGGATGT
Statistics
Matches: 279, Mismatches: 53, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
82 2 0.01
83 64 0.23
84 14 0.05
85 126 0.45
86 73 0.26
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.21
Consensus pattern (84 bp):
GTTTACAGGGACTGAGCCGATAGGTAAACGAAGGATGAAGAATTGATCAGAGACTAAGCTGATAG
GTCACCATAAATGTAAAGG
Found at i:3267841 original size:42 final size:42
Alignment explanation
Indices: 3267781--3267908 Score: 104
Period size: 42 Copynumber: 3.0 Consensus size: 42
3267771 TAAGGGGTTT
*
3267781 ACTAGGGAC-AGAGTCGATAGGTAAATGAAGGATGAAGAATTG
1 ACTAGGGACTA-AGCCGATAGGTAAATGAAGGATGAAGAATTG
* *
3267823 ACTAGGGACTAAGCCGATAGGTCACCAT-AA--ATGTAA-AAGGTTT
1 ACTAGGGACTAAGCCGATAGGT-A-AATGAAGGATG-AAGAA--TTG
* * * *
3267866 ACCAGGGACTGAGCCGGTAGGTAAACGAAGGATGAAGAATTG
1 ACTAGGGACTAAGCCGATAGGTAAATGAAGGATGAAGAATTG
3267908 A
1 A
3267909 TTGAGGACTG
Statistics
Matches: 67, Mismatches: 9, Indels: 20
0.70 0.09 0.21
Matches are distributed among these distances:
41 6 0.09
42 27 0.40
43 27 0.40
44 7 0.10
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.19
Consensus pattern (42 bp):
ACTAGGGACTAAGCCGATAGGTAAATGAAGGATGAAGAATTG
Found at i:3267979 original size:168 final size:169
Alignment explanation
Indices: 3267606--3268034 Score: 474
Period size: 168 Copynumber: 2.5 Consensus size: 169
3267596 GGACAAAGAA
* ** * * **
3267606 GTTTACCAAGGACTGAGCCGACAGGTAAACAAAGAGATGAAG-GTTGATCAGAGACTAAGCTAAT
1 GTTTACCAAGGACTGAGCTGACAGGTAAATGAAG-GATGAAGAATTGAT-AGGGACTAAGCCGAT
* * * *
3267670 AGGTCACCATAAATGTAAAGGGACTTATCAGGGATTGAGCCGATAAGTAAACAAAGAGATGAAGG
64 AGGTCACCATAAATGTAAAGGG-TTTACCAGGGACTGAGCCGATAAGTAAACAAAGAGATGAAGA
* * *** *
3267735 TTGATCAGAGACTGAGCTGACAGGTCACCATTGGTGTAAGGG
128 TTGATCAGAGACTGAGCTCACAAGTCACCATAAATGTAAAGG
* * * *
3267777 GTTTACTAGGGACAGAG-TCGATAGGTAAATGAAGGATGAAGAATTGACTAGGGACTAAGCCGAT
1 GTTTACCAAGGACTGAGCT-GACAGGTAAATGAAGGATGAAGAATTGA-TAGGGACTAAGCCGAT
* * * *
3267841 AGGTCACCATAAATGTAAAAGGTTTACCAGGGACTGAGCCGGTAGGTAAACGAAG-GATGAAGAA
64 AGGTCACCATAAATGTAAAGGGTTTACCAGGGACTGAGCCGATAAGTAAACAAAGAGATGAAG-A
*
3267905 TTGAT-TGAGGACTG-GC-CACAAGTCACCATAAATGTAAAGG
128 TTGATCAGA-GACTGAGCTCACAAGTCACCATAAATGTAAAGG
* * *
3267945 GTTTACCGAGGACTGAGCTGAGAGGTAAATGAAGGATGAAGAATTGATTAGGGACTAAGTCGATA
1 GTTTACCAAGGACTGAGCTGACAGGTAAATGAAGGATGAAGAATTGA-TAGGGACTAAGCCGATA
*
3268010 GGTCACCATTAATGTAAAGGGTTTA
65 GGTCACCATAAATGTAAAGGGTTTA
3268035 TCAAGGATGT
Statistics
Matches: 217, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
168 97 0.45
169 12 0.06
170 44 0.20
171 63 0.29
172 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.29, T:0.21
Consensus pattern (169 bp):
GTTTACCAAGGACTGAGCTGACAGGTAAATGAAGGATGAAGAATTGATAGGGACTAAGCCGATAG
GTCACCATAAATGTAAAGGGTTTACCAGGGACTGAGCCGATAAGTAAACAAAGAGATGAAGATTG
ATCAGAGACTGAGCTCACAAGTCACCATAAATGTAAAGG
Found at i:3271321 original size:21 final size:19
Alignment explanation
Indices: 3271274--3271328 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
3271264 GTAAGGCAGC
3271274 TTTGTATCGATACAACACT
1 TTTGTATCGATACAACACT
* **
3271293 TATGTATCGATACATTTACT
1 TTTGTATCGATACA-ACACT
3271313 GTTTGTATCGATACAA
1 -TTTGTATCGATACAA
3271329 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.31, C:0.16, G:0.13, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACAACACT
Found at i:3271776 original size:83 final size:83
Alignment explanation
Indices: 3271637--3271790 Score: 204
Period size: 83 Copynumber: 1.9 Consensus size: 83
3271627 TACAAAGGAG
* * * * *
3271637 TGGTGATAGGTCACCATAAATGTAAAAGGTTTACCGAGAACTGAGCTGACAGGTAAATAAAGGAT
1 TGGTGACAGGTCACCATAAAGGTAAAAGGTTTACAGAGAACTAAGCCGACAGGTAAATAAAGGAT
3271702 GAAGAATTGACTTGGGAC
66 GAAGAATTGACTTGGGAC
* * *
3271720 TGGTGACAGGTCACCATAAAGGT-AAAGCGTTTACTAG-GGACTAAGCCGATAGGTAAATGAAGG
1 TGGTGACAGGTCACCATAAAGGTAAAAG-GTTTAC-AGAGAACTAAGCCGACAGGTAAATAAAGG
3271783 ATGAAGAA
64 ATGAAGAA
3271791 GTCTCCCGAG
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
82 4 0.07
83 56 0.92
84 1 0.02
ACGTcount: A:0.38, C:0.12, G:0.29, T:0.21
Consensus pattern (83 bp):
TGGTGACAGGTCACCATAAAGGTAAAAGGTTTACAGAGAACTAAGCCGACAGGTAAATAAAGGAT
GAAGAATTGACTTGGGAC
Found at i:3279012 original size:95 final size:96
Alignment explanation
Indices: 3278880--3279114 Score: 278
Period size: 95 Copynumber: 2.4 Consensus size: 96
3278870 TTGAAAAATA
* * *
3278880 GGGTTGGAGTATCCCCTCGAAAGAATGGAGTTGGAGTATCCCCAACAATGACAATTTAAGCAAAA
1 GGGTTGGAGTATCCCCTCGAAAAAATGGGGTTGGAGTATCCCCAACAACGACAATTTAAGCAAAA
3278945 ATAAGAATT-ATCTTGATAAG-TTTAAAAAC
66 ATAAGAATTAATCTTGATAAGTTTTAAAAAC
* * * * * ** *
3278974 GAGGTTAGAGTATCCTCTC-AGAATAATGGGGTTAGAGTACCCCCAATGACGATAATTTAAGCAA
1 G-GGTTGGAGTATCCCCTCGA-AAAAATGGGGTTGGAGTATCCCCAACAACGACAATTTAAGCAA
* **
3279038 AATTAAGGTTTAAATCTTGATAAGTTTTAAAAAC
64 AAATAAGAATT-AATCTTGATAAGTTTTAAAAAC
*
3279072 GGGTTTGGAGTATCCCCTCGAAAAAATGGGCTTGGAGTATCCC
1 GGG-TTGGAGTATCCCCTCGAAAAAATGGGGTTGGAGTATCCC
3279115 TAACGAAGGG
Statistics
Matches: 115, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
94 2 0.02
95 58 0.50
97 13 0.11
98 41 0.36
99 1 0.01
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (96 bp):
GGGTTGGAGTATCCCCTCGAAAAAATGGGGTTGGAGTATCCCCAACAACGACAATTTAAGCAAAA
ATAAGAATTAATCTTGATAAGTTTTAAAAAC
Found at i:3281534 original size:22 final size:22
Alignment explanation
Indices: 3281508--3281583 Score: 93
Period size: 22 Copynumber: 3.5 Consensus size: 22
3281498 CATTTCTCAT
3281508 TGTATCGATACAATTGTAAGTA
1 TGTATCGATACAATTGTAAGTA
* * * * *
3281530 TGTATTGATATATTTCTCA-T-
1 TGTATCGATACAATTGTAAGTA
3281550 TGTATCGATACAATTGTAAGTA
1 TGTATCGATACAATTGTAAGTA
3281572 TGTATCGATACA
1 TGTATCGATACA
3281584 TTTACTAATG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
20 14 0.33
21 2 0.05
22 26 0.62
ACGTcount: A:0.33, C:0.11, G:0.16, T:0.41
Consensus pattern (22 bp):
TGTATCGATACAATTGTAAGTA
Found at i:3281558 original size:42 final size:42
Alignment explanation
Indices: 3281495--3281603 Score: 166
Period size: 42 Copynumber: 2.6 Consensus size: 42
3281485 GAATATACCA
*
3281495 ATACATTTCTCATTGTATCGATACAATTGTAAGTATGTATTG
1 ATACATTTCTCATTGTATCGATACAATTGTAAGTATGTATCG
*
3281537 ATATATTTCTCATTGTATCGATACAATTGTAAGTATGTATCG
1 ATACATTTCTCATTGTATCGATACAATTGTAAGTATGTATCG
* *
3281579 ATACATTTACT-AATGTATCCATACA
1 ATACATTT-CTCATTGTATCGATACA
3281604 TTTCCTACGT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 59 0.97
43 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (42 bp):
ATACATTTCTCATTGTATCGATACAATTGTAAGTATGTATCG
Found at i:3282513 original size:61 final size:61
Alignment explanation
Indices: 3282331--3282516 Score: 185
Period size: 61 Copynumber: 3.0 Consensus size: 61
3282321 GATGATAACG
* * * * * * * * * *
3282331 ATGAGAAAAATGCCAATGTGCTGATTGAAGGTCAACGATGTTGGACTTAAGGGTGCGAAGA
1 ATGATAAAGATGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGCGAAGA
* * * * * **
3282392 ATGATAAAGGTGCTAATATGCTGATTCATGACCAACGACATTGCAG-TTAAAGATAAGAAGA
1 ATGATAAAGATGCTAATATGCTGATTCAAGGCCAACGATATTG-GGCTTAAAGATGCGAAGA
* *
3282453 ATGATAAAGATGCTGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGA
1 ATGATAAAGATGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGCGAAGA
3282514 ATG
1 ATG
3282517 CCAATGTGCT
Statistics
Matches: 97, Mismatches: 26, Indels: 4
0.76 0.20 0.03
Matches are distributed among these distances:
60 1 0.01
61 96 0.99
ACGTcount: A:0.37, C:0.12, G:0.27, T:0.24
Consensus pattern (61 bp):
ATGATAAAGATGCTAATATGCTGATTCAAGGCCAACGATATTGGGCTTAAAGATGCGAAGA
Found at i:3282684 original size:52 final size:52
Alignment explanation
Indices: 3282453--3282710 Score: 180
Period size: 52 Copynumber: 5.0 Consensus size: 52
3282443 GATAAGAAGA
* ** * *
3282453 ATGATAAAGATGCTGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG
1 ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
* * * * * * *
3282505 ATG-CGAAGAATGCCAATGTGCTGATTCACA-ACTAGTGACATTAGACTTTAAG
1 ATGACAAAG-ATGCCAATATGCTGATTCA-AGGCCAGCGATATTAGACTTAAAG
* ** * * * ** * * * *
3282557 ATGAGATGGGTGCCAATGTGTTGATTCAAGATCAACGATATTGGGCTT-AGG
1 ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
*** * *
3282608 AATGTTGAAGATGCCAATACGCTGATTCAAGGCCAGTGATATTAGACTTAAAG
1 -ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
* * *
3282661 ATGACAAAGGTGCCGATATGCTGATTCAAGGCCAGCAATATTAGACTTAA
1 ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAA
3282711 GAAAGAAAAA
Statistics
Matches: 150, Mismatches: 50, Indels: 12
0.71 0.24 0.06
Matches are distributed among these distances:
51 6 0.04
52 140 0.93
53 4 0.03
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (52 bp):
ATGACAAAGATGCCAATATGCTGATTCAAGGCCAGCGATATTAGACTTAAAG
Found at i:3282702 original size:104 final size:104
Alignment explanation
Indices: 3282453--3282702 Score: 263
Period size: 104 Copynumber: 2.4 Consensus size: 104
3282443 GATAAGAAGA
* * *
3282453 ATGATAAAGATGCTGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
1 ATGACAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
** * *
3282518 CAATGTGCTGATTCACAACTAGTGACATTAGACTTTAAG
66 CAATACGCTGATTCACAACCAGTGACATTAGACTTAAAG
* ** * * * ** * * *
3282557 ATGAGATGGGTGCCAATGTGTTGATTCAAGATCAACGATATTGGGCTT-AGGAATGTTGAAG-AT
1 ATGACAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAG-ATG-CGAAGAAT
* *
3282620 GCCAATACGCTGATTCA-AGGCCAGTGATATTAGACTTAAAG
64 GCCAATACGCTGATTCACA-ACCAGTGACATTAGACTTAAAG
*
3282661 ATGACAAAGGTGCCGATATGCTGATTCAAGGCCAGCAATATT
1 ATGACAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATT
3282703 AGACTTAAGA
Statistics
Matches: 114, Mismatches: 29, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
103 3 0.03
104 107 0.94
105 4 0.04
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (104 bp):
ATGACAAAGGTGCCGATATGCTGATTCAAGGCCAGCGATATTGGGCTTAAAGATGCGAAGAATGC
CAATACGCTGATTCACAACCAGTGACATTAGACTTAAAG
Found at i:3282722 original size:52 final size:52
Alignment explanation
Indices: 3282619--3282765 Score: 156
Period size: 52 Copynumber: 2.8 Consensus size: 52
3282609 ATGTTGAAGA
* ** * *
3282619 TGCCAATACGCTGATTCAAGGCCAGTGATATTAGACTTAA-AGATGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAGA-AAGAAAAAGG
*
3282671 TGCCGATATGCTGATTCAAGGCCAGCAATATTAGACTTAAGAAAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAGAAAGAAAAAGG
* * * * *
3282723 TGTCAATGTGCTGATTCACA-GCCAACAACATTGGACTT-AGAAA
1 TGCCAATATGCTGATTCA-AGGCCAGCAATATTAGACTTAAGAAA
3282766 AAGATGGTTT
Statistics
Matches: 81, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 5 0.06
52 74 0.91
53 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.23
Consensus pattern (52 bp):
TGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAGAAAGAAAAAGG
Found at i:3282845 original size:31 final size:30
Alignment explanation
Indices: 3282807--3282910 Score: 100
Period size: 32 Copynumber: 3.3 Consensus size: 30
3282797 TCAAGGCCAA
3282807 GTGGGCTTTTGAGAGGGTTGCCAACACTTGT
1 GTGGGCTTTTGA-AGGGTTGCCAACACTTGT
* **
3282838 GTGGGCTTTTGAAAAGGATTGCCATTGACTTGT
1 GTGGGCTTTTG--AAGGGTTGCCA-ACACTTGT
* * *
3282871 ATGGGCTTTAGAAGGGGTTGCCACCGACTTGT
1 GTGGGCTTTTGAA-GGGTTGCCAAC-ACTTGT
3282903 GTGGGCTT
1 GTGGGCTT
3282911 AAGAAAAGGT
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
31 13 0.22
32 30 0.51
33 16 0.27
ACGTcount: A:0.17, C:0.15, G:0.35, T:0.33
Consensus pattern (30 bp):
GTGGGCTTTTGAAGGGTTGCCAACACTTGT
Found at i:3282892 original size:32 final size:33
Alignment explanation
Indices: 3282807--3282947 Score: 144
Period size: 33 Copynumber: 4.4 Consensus size: 33
3282797 TCAAGGCCAA
* * * *
3282807 GTGGGCTTTTG-AGAGGGTTGCCAAC-ACTTGT
1 GTGGGCTTTAGAAAAGGATTGCCACCGACTTGT
* **
3282838 GTGGGCTTTTGAAAAGGATTGCCATTGACTTGT
1 GTGGGCTTTAGAAAAGGATTGCCACCGACTTGT
* * *
3282871 ATGGGCTTTAG-AAGGGGTTGCCACCGACTTGT
1 GTGGGCTTTAGAAAAGGATTGCCACCGACTTGT
* * *
3282903 GTGGGCTTAAGAAAAGGTTTGCCACCGGCTTGT
1 GTGGGCTTTAGAAAAGGATTGCCACCGACTTGT
3282936 GTGGGCTTTAGA
1 GTGGGCTTTAGA
3282948 GGATGAGGTG
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
31 11 0.12
32 36 0.40
33 44 0.48
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (33 bp):
GTGGGCTTTAGAAAAGGATTGCCACCGACTTGT
Found at i:3282917 original size:65 final size:65
Alignment explanation
Indices: 3282808--3282947 Score: 176
Period size: 65 Copynumber: 2.2 Consensus size: 65
3282798 CAAGGCCAAG
* ** **
3282808 TGGGCTTTTG-AGAGGGTTGCCAACACTTGTGTGGGCTTTTGAAAAGGATTGCCATTGACTTGTA
1 TGGGCTTTAGAAGAGGGTTGCCAACACTTGTGTGGGCTTAAGAAAAGGATTGCCACCGACTTGTA
* * *
3282872 TGGGCTTTAGAAG-GGGTTGCCACCGACTTGTGTGGGCTTAAGAAAAGGTTTGCCACCGGCTTGT
1 TGGGCTTTAGAAGAGGGTTGCCAAC-ACTTGTGTGGGCTTAAGAAAAGGATTGCCACCGACTTGT
*
3282936 G
65 A
3282937 TGGGCTTTAGA
1 TGGGCTTTAGA
3282948 GGATGAGGTG
Statistics
Matches: 65, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
64 19 0.29
65 46 0.71
ACGTcount: A:0.19, C:0.16, G:0.34, T:0.31
Consensus pattern (65 bp):
TGGGCTTTAGAAGAGGGTTGCCAACACTTGTGTGGGCTTAAGAAAAGGATTGCCACCGACTTGTA
Found at i:3283750 original size:13 final size:13
Alignment explanation
Indices: 3283712--3283743 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
3283702 ACATAAATGT
3283712 TGTATCGATACAA
1 TGTATCGATACAA
3283725 TGTATCGATACAA
1 TGTATCGATACAA
3283738 TGTATC
1 TGTATC
3283744 ACTACAAAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3283791 original size:20 final size:20
Alignment explanation
Indices: 3283766--3283820 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
3283756 CTGCCAAGGA
3283766 AATGTATCGATACATT-ACTC
1 AATGTATCGATACATTGA-TC
3283786 AATGTATCGATACATTGATC
1 AATGTATCGATACATTGATC
**
3283806 TTTGTATCGATACAT
1 AATGTATCGATACAT
3283821 CTGGGAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (20 bp):
AATGTATCGATACATTGATC
Found at i:3290405 original size:16 final size:16
Alignment explanation
Indices: 3290386--3290418 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
3290376 CTATGGTTTG
3290386 ACCCTCACATGGCATC
1 ACCCTCACATGGCATC
3290402 ACCCTCACATGGCATC
1 ACCCTCACATGGCATC
3290418 A
1 A
3290419 TTAACAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.42, G:0.12, T:0.18
Consensus pattern (16 bp):
ACCCTCACATGGCATC
Found at i:3290909 original size:21 final size:20
Alignment explanation
Indices: 3290880--3290922 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
3290870 AGCTAGTATG
*
3290880 GGGACTGCCCGGTTGCGACCT
1 GGGACTG-CCGGTCGCGACCT
*
3290901 GGGAGTGCCGGTCGCGACCT
1 GGGACTGCCGGTCGCGACCT
3290921 GG
1 GG
3290923 TGGTGCTGCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.09, C:0.30, G:0.44, T:0.16
Consensus pattern (20 bp):
GGGACTGCCGGTCGCGACCT
Found at i:3291381 original size:13 final size:13
Alignment explanation
Indices: 3291363--3291401 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
3291353 ATAATCCCCT
*
3291363 TGTATCGATACAG
1 TGTATCGATACAA
3291376 TGTATCGATACAA
1 TGTATCGATACAA
*
3291389 TGTGTCGATACAA
1 TGTATCGATACAA
3291402 AGAAAAATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3297450 original size:13 final size:13
Alignment explanation
Indices: 3297432--3297457 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3297422 AATTTTTTTG
3297432 TGTATCGATACAT
1 TGTATCGATACAT
3297445 TGTATCGATACAT
1 TGTATCGATACAT
3297458 ACTTGGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3308210 original size:62 final size:62
Alignment explanation
Indices: 3308106--3308226 Score: 179
Period size: 62 Copynumber: 2.0 Consensus size: 62
3308096 CCAAATGTGG
* * *** *
3308106 AAGGTTACTCACGAGAGACATAGGTAATTTACATCGTGGAAGTTATTGCTATGCTTATGAGA
1 AAGGTTACTCACAAAAGACATAGGTAATTTACATCCCAGAAGTTATTGCTATGCCTATGAGA
*
3308168 AAGGTTACTTACAAAAGACATAGGTAATTTACATCCCAGAAGTTATTGCTATGCCTATG
1 AAGGTTACTCACAAAAGACATAGGTAATTTACATCCCAGAAGTTATTGCTATGCCTATG
3308227 TAGAGGATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 52 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.31
Consensus pattern (62 bp):
AAGGTTACTCACAAAAGACATAGGTAATTTACATCCCAGAAGTTATTGCTATGCCTATGAGA
Found at i:3312510 original size:20 final size:19
Alignment explanation
Indices: 3312485--3312543 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
3312475 TACTGCTAGT
*
3312485 TTCATGTATCGATACATTTG
1 TTCATGTATCGATACA-ATG
*
3312505 TTCATGTATTGATACAATG
1 TTCATGTATCGATACAATG
**
3312524 AACATGTATCGATACAATG
1 TTCATGTATCGATACAATG
3312543 T
1 T
3312544 ATCGATACAA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (19 bp):
TTCATGTATCGATACAATG
Found at i:3312545 original size:13 final size:13
Alignment explanation
Indices: 3312527--3312553 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
3312517 TACAATGAAC
3312527 ATGTATCGATACA
1 ATGTATCGATACA
3312540 ATGTATCGATACA
1 ATGTATCGATACA
3312553 A
1 A
3312554 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3314327 original size:86 final size:83
Alignment explanation
Indices: 3314213--3314656 Score: 347
Period size: 85 Copynumber: 5.2 Consensus size: 83
3314203 CGAGGGGATA
* * * *
3314213 AAAGGGTTTACTAGGGATTATGCTGACAGGTAAACAAAGAGATGAATG-TTGATCAGAGACTAAG
1 AAAGGGTTTACCAGGGACTAAGCCGACAGGTAAACAAAG-GATGAA-GATTGA-CAGAGACTAAG
3314277 CTGACAGGTCACCATAAATGT
63 CTGACAGGTCACCATAAATGT
* *** * *
3314298 AAAGGGACTTATTGGGGACTAAGCCGACAGGTAAACAAAGAGATGAAGGTTGACCA-ACGACTGA
1 AAAGGG-TTTACCAGGGACTAAGCCGACAGGTAAACAAAG-GATGAAGATTGA-CAGA-GACTAA
* * * * *
3314362 GCTAATAGGTCACTATTAGTGT
62 GCTGACAGGTCACCATAAATGT
* * * * * * *
3314384 AAAGAGTTTACCAGGGACTAAGCTGACAAGTAAACGAAGGATAAAGAATTGACCGAGGGCTAAGC
1 AAAGGGTTTACCAGGGACTAAGCCGACAGGTAAACAAAGGATGAAG-ATTGACAGA-GACTAAGC
** *
3314449 CAATAGGTCACCATAAATGT
64 TGACAGGTCACCATAAATGT
* ** * * * * * * * *
3314469 AAAAGGTTTACTGGGGATTGAGCCAACAAGTAAACGAAGGATGAAGAATTGACCGGGGACT-GGC
1 AAAGGGTTTACCAGGGACTAAGCCGACAGGTAAACAAAGGATGAAG-ATTGA-CAGAGACTAAGC
*
3314533 -GACAGGTCACCATAAATAT
64 TGACAGGTCACCATAAATGT
* * * * *
3314552 AAAGGGTTTACCAAGGACTAAGCCGATAGGTAAACAAAGGATGAAGAATTGACTGGGGATTAAGC
1 AAAGGGTTTACCAGGGACTAAGCCGACAGGTAAACAAAGGATGAAG-ATTGAC-AGAGACTAAGC
*
3314617 TGACAGGTCACCATAAATAT
64 TGACAGGTCACCATAAATGT
*
3314637 AAAGGGTTTACCAAGGACTA
1 AAAGGGTTTACCAGGGACTA
3314657 GCAGCAGCTC
Statistics
Matches: 291, Mismatches: 59, Indels: 18
0.79 0.16 0.05
Matches are distributed among these distances:
82 1 0.00
83 64 0.22
84 11 0.04
85 146 0.50
86 69 0.24
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.20
Consensus pattern (83 bp):
AAAGGGTTTACCAGGGACTAAGCCGACAGGTAAACAAAGGATGAAGATTGACAGAGACTAAGCTG
ACAGGTCACCATAAATGT
Found at i:3314684 original size:126 final size:123
Alignment explanation
Indices: 3314539--3314770 Score: 322
Period size: 126 Copynumber: 1.9 Consensus size: 123
3314529 TGGCGACAGG
*
3314539 TCACCATAAATATAAAGGGTTTACCAAGGACTAAGCCGATAGGTAAACAAAGGATGAAGAATTGA
1 TCACCATAAATATAAAGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAAGGATGAAGAATTGA
** *
3314604 -CTGGGGATTAAGCTGACAGGTCACCATAAATATAAAGGGTTTACCAAGGACTAGCAGCAGC
66 TC-AAGGATT-AGC-AACAGGTCACCATAAA-ATAAAGGGTTTACCAAGGACTAGCAGCAGC
* ** * *
3314665 TCACCATAAATGTAAAGGGTTTACCGGGGACTAAGCCTACAGGTAAACAAAGGATGAAGACTTGA
1 TCACCATAAATATAAAGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAAGGATGAAGAATTGA
* *
3314730 TCAAGGATTGGCAATAGGTCACCATAAAATAAAGGGTTTAC
66 TCAAGGATTAGCAACAGGTCACCATAAAATAAAGGGTTTAC
3314771 TAGGGATTAA
Statistics
Matches: 94, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
123 13 0.14
124 14 0.15
125 2 0.02
126 64 0.68
127 1 0.01
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.21
Consensus pattern (123 bp):
TCACCATAAATATAAAGGGTTTACCAAGGACTAAGCCGACAGGTAAACAAAGGATGAAGAATTGA
TCAAGGATTAGCAACAGGTCACCATAAAATAAAGGGTTTACCAAGGACTAGCAGCAGC
Found at i:3316653 original size:13 final size:13
Alignment explanation
Indices: 3316635--3316659 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3316625 TTCAACAATT
3316635 TGTATCGATACAA
1 TGTATCGATACAA
3316648 TGTATCGATACA
1 TGTATCGATACA
3316660 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:3316748 original size:13 final size:13
Alignment explanation
Indices: 3316730--3316755 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3316720 CATTATTCCA
3316730 TGTATCGATACAT
1 TGTATCGATACAT
3316743 TGTATCGATACAT
1 TGTATCGATACAT
3316756 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3317899 original size:11 final size:11
Alignment explanation
Indices: 3317883--3317907 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
3317873 TTTAAGCTTT
3317883 TCATGATTAAA
1 TCATGATTAAA
3317894 TCATGATTAAA
1 TCATGATTAAA
3317905 TCA
1 TCA
3317908 AGTCCAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.36
Consensus pattern (11 bp):
TCATGATTAAA
Found at i:3321150 original size:52 final size:52
Alignment explanation
Indices: 3321065--3321189 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
3321055 ATATGAAAAG
* *
3321065 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3321117 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
3321169 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
3321190 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:3321202 original size:52 final size:51
Alignment explanation
Indices: 3321065--3321209 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
3321055 ATATGAAAAG
*
3321065 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
3321117 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
3321169 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3321210 ATGTATCAAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:3321300 original size:33 final size:33
Alignment explanation
Indices: 3321263--3321329 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3321253 AGTAGCTTAA
3321263 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3321296 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3321329 A
1 A
3321330 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3321303 original size:13 final size:13
Alignment explanation
Indices: 3321285--3321309 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3321275 CAAAAAAATA
3321285 TGTATCGATACAT
1 TGTATCGATACAT
3321298 TGTATCGATACA
1 TGTATCGATACA
3321310 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3322679 original size:49 final size:49
Alignment explanation
Indices: 3322536--3323349 Score: 982
Period size: 49 Copynumber: 16.8 Consensus size: 49
3322526 GTGATAAAGA
* * * * *
3322536 TGCCAATATGTTGATTCATGGCCAACGATATTGGGCTTAAAGATGAGAAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT--G---AAGG
* * * * *
3322590 ATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGAAGA
1 -TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
3322640 TGCCAATATGCTGATTCAAGGCCAGCGATATCGGGCTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
3322683 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
3322732 TGCCAATATGCTGATTCAAGGCCAGCGATATCAGG-CTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATAT-TGGACTTAAAGATGAAGG
* * * *
3322775 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
3322824 TGCCAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
3322873 TGCCAATATGCTGATTCAACGCCAGCGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * *
3322916 TGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * * *
3322965 TGCCAATGTGCTGAGTCAAGGCTAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
3323014 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
3323063 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
3323112 TGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
3323161 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGCTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* *
3323210 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGCTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
* * * *
3323259 TGCCAATGTACTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAGAAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGAT-G--AAGG
*
3323311 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
3323350 GAAGGGTTGC
Statistics
Matches: 663, Mismatches: 73, Indels: 49
0.84 0.09 0.06
Matches are distributed among these distances:
42 2 0.00
43 106 0.16
45 3 0.00
47 3 0.00
49 470 0.71
50 5 0.01
52 38 0.06
53 1 0.00
55 35 0.05
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGG
Found at i:3323393 original size:33 final size:33
Alignment explanation
Indices: 3323349--3323446 Score: 155
Period size: 33 Copynumber: 3.0 Consensus size: 33
3323339 TATTGGGCTT
3323349 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGGA
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTGGA
*
3323383 AGAAGGTTGCCACCGACTTGTCTGGGCTTTAGGA
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTT-GGA
3323417 AG-A-GTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGTTGCCACCGACTTGTGTGGGCTTTGG
3323447 GAAAAAGAGT
Statistics
Matches: 61, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
31 2 0.03
32 24 0.39
33 26 0.43
34 9 0.15
ACGTcount: A:0.17, C:0.19, G:0.36, T:0.28
Consensus pattern (33 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTGGA
Found at i:3323429 original size:32 final size:32
Alignment explanation
Indices: 3323342--3323449 Score: 150
Period size: 32 Copynumber: 3.4 Consensus size: 32
3323332 CCAGCTATAT
*
3323342 TGGGC-TTA-GAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
*
3323372 TGGGCTTT-GGAAGAAGGTTGCCACCGACTTGTC
1 TGGGCTTTAGGAAG-A-GTTGCCACCGACTTGTG
3323405 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
*
3323437 TGGGCTTTGGGAA
1 TGGGCTTTAGGAA
3323450 AAAGAGTGCC
Statistics
Matches: 69, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
30 5 0.07
31 6 0.09
32 28 0.41
33 25 0.36
34 5 0.07
ACGTcount: A:0.18, C:0.19, G:0.36, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGGAAGAGTTGCCACCGACTTGTG
Found at i:3323609 original size:125 final size:128
Alignment explanation
Indices: 3323451--3324375 Score: 550
Period size: 125 Copynumber: 7.0 Consensus size: 128
3323441 CTTTGGGAAA
** *
3323451 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAAATGCCACAGAGTTGTGGGCTTTGAAAAG
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
3323516 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGGAAAAAAGAGTGCCACAAAG-T-T-G-
66 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAA-GG-AAAAAG-GTGCCACAAAGTTGTGGA
3323577 T
128 T
* *
3323578 -AG-GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGAGCTTTGAAAAG
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
* ** * **
3323641 GAAAAAAGAGTGCCACAAAGTTGCGGGCTTT-AAAA-GAAAAAGGTGCCACGGAGTTGTGGGCAT
66 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAAAGTTGT-GG-A-
3323704 T
128 T
* *
3323705 AAAAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGGTGCCACGGAGTTGTGGGCTTT-A
1 ---AAGAGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
**
3323769 AAA--GAAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAA-GAAAAAGGTGCCACGGAGTTGTGG
62 AAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAAAGTTGT-G
*
3323830 GCTT
126 G-AT
* * * * *
3323834 AAACGGGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGAAATTGTGGGCTTT-A
1 -AA-GAGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGA
*** * *
3323897 AAAGGGTGCCACGGAGTTGTAGGTGCCACAGAGTTGTGGGCTTT-AAAA-GAAAAAGGTGCCACG
62 AAA-GG-G--A---AAAAG-A-GTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACA
* *
3323960 GAGTTGTGGGCTTTGAAAAGGAAAA
118 AAG-T-T--G---T-----GG--AT
* *
3323985 AAGAGTGTCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAA-
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
* * * **
3324048 AGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAA-GAAGAAGGTGCCACGGAGTTGTGGGCTT
66 GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAAAGTTGT-GG---
*
3324111 TAA
127 -AT
3324114 AAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT
1 AAG----A-GTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTT
* * * * * *
3324178 --AAA-CG-----G-GTGCCACAGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGACATTGT
60 GAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCAC-A-A----
* * *
3324233 GGGCTTTGAAAAGGAAAA
119 -AG--TTG---TGG--AT
**
3324251 AAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAG-AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
* * * * **
3324316 GGAAAAAAGAGTGCCACAGAGTTATGTGCTTT-AAAA-GAAAAAGGTGCCACGGAGTTGTGG
65 GGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAAAGTTGTGG
3324376 GCTTTAAAAA
Statistics
Matches: 643, Mismatches: 79, Indels: 150
0.74 0.09 0.17
Matches are distributed among these distances:
120 9 0.01
121 7 0.01
122 2 0.00
124 5 0.01
125 83 0.13
126 5 0.01
127 14 0.02
128 77 0.12
129 27 0.04
130 36 0.06
131 8 0.01
132 73 0.11
133 39 0.06
134 25 0.04
135 34 0.05
136 1 0.00
137 32 0.05
138 21 0.03
139 24 0.04
140 24 0.04
141 15 0.02
142 19 0.03
143 4 0.01
145 1 0.00
146 1 0.00
148 30 0.05
149 18 0.03
150 9 0.01
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.21
Consensus pattern (128 bp):
AAGAGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
GGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGGAAAAAGGTGCCACAAAGTTGTGGAT
Found at i:3323625 original size:33 final size:33
Alignment explanation
Indices: 3323578--3324544 Score: 612
Period size: 34 Copynumber: 30.0 Consensus size: 33
3323568 ACAAAGTTGT
*
3323578 AGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
3323611 AGGTGCCACGGAGTTGTGAGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAA
** *
3323647 AGAGTGCCACAAAGTTGCGGGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
3323681 AGGTGCCACGGAGTTGTGGGCATT--AA-AAAG
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
3323711 A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
3323744 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
3323777 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
3323811 AGGTGCCACGGAGTTGTGGGC-TTAAACG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
3323839 -GGTGCCACGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* * *
3323872 AAGTGCCACGAAATTGTGGGCTTTAAAAG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *** *
3323901 -GGTGCCACGGAGTTGTAGG-TGCCACAG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* * ****** ***
3323928 AGTTG---TGG-GCTT-T-AAAAGAAAAAGGTGCCA
1 AGGTGCCACGGAG-TTGTGGGCTTTAAAA-G-AAAA
* * **** ****** *
3323958 CGGAGTTGTGG-GCTT-T-GAAAAGGAAA-AAAG
1 AGGTGCCACGGAG-TTGTGGGCTTTAAAAGAAAA
* ** *
3323988 AGTGT-CACA-GAG-TTGTG-GGCTTTAAAAGA-AAAA
1 AG-GTGC-CACG-GAGT-TGTGGGCTTTAAA-AGAAAA
*
3324021 G-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
3324054 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
3324088 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
3324121 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
3324155 AGGTGCCACGGAGTTGTGGGC-TTAAACG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
3324183 -GGTGCCACAGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* *
3324216 AAGTGCCAC-GACATTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGA-GTTGTGGGCTTT-AAAA-G-AAAA
**
3324252 AGAGTGCCACAAAGTTGTGGGCTTTAAAAGAAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAG-AAAA
3324287 AGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAA-G-AAAA
* * *
3324323 AGAGTGCCACAGAGTTATGTGCTTTAAAAGAAAA
1 AG-GTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
3324357 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAA
*
3324391 AGGTGCCACGGAGTTGTGGGC-TTAAACG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
* *
3324419 -GGTGCCATGGAGTTGTGGAC-TTAAAGATGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAA-A-GAAAA
* *
3324452 AAGTGCCACGGAATTGTGGGCTTTAAAAG----
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
3324481 -GGTGCCACGGAGTTGTGGGCTTT-AAAGGAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
*
3324512 AGGTGCCACGGAGTTGTGGGCTTT-GAAGAAAA
1 AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
3324544 A
1 A
3324545 ATGCCATTGA
Statistics
Matches: 755, Mismatches: 104, Indels: 151
0.75 0.10 0.15
Matches are distributed among these distances:
24 5 0.01
25 5 0.01
27 78 0.10
28 39 0.05
29 23 0.03
30 9 0.01
31 12 0.02
32 55 0.07
33 161 0.21
34 249 0.33
35 29 0.04
36 34 0.05
37 55 0.07
38 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (33 bp):
AGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAA
Found at i:3323647 original size:88 final size:90
Alignment explanation
Indices: 3323489--3323663 Score: 293
Period size: 88 Copynumber: 2.0 Consensus size: 90
3323479 AAGAAAAAAA
*
3323489 TGCCACAGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGG
1 TGCCACAGAGTTGTGGGCTTTGAAAA-GGAAAAAGAGTGCCACGGAGTTGTGAGCTTTAAAAA-G
3323554 GAAAAAAGAGTGCCACAAAGTTGTAGG
64 GAAAAAAGAGTGCCACAAAGTTGTAGG
*
3323581 TGCCACAGAGTTGTGGGCTTT-AAAA-GAAAAAG-GTGCCACGGAGTTGTGAGCTTTGAAAAGGA
1 TGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTAAAAAGGA
3323643 AAAAAGAGTGCCACAAAGTTG
66 AAAAAGAGTGCCACAAAGTTG
3323664 CGGGCTTTAA
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
87 24 0.30
88 25 0.31
89 7 0.09
91 4 0.05
92 21 0.26
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (90 bp):
TGCCACAGAGTTGTGGGCTTTGAAAAGGAAAAAGAGTGCCACGGAGTTGTGAGCTTTAAAAAGGA
AAAAAGAGTGCCACAAAGTTGTAGG
Found at i:3323850 original size:27 final size:27
Alignment explanation
Indices: 3323812--3323863 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
3323802 AAAAGAAAAA
*
3323812 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAACG
3323839 GGTGCCACGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
3323864 GATGAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAACG
Found at i:3323923 original size:17 final size:17
Alignment explanation
Indices: 3323901--3323933 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
3323891 GCTTTAAAAG
*
3323901 GGTGCCACGGAGTTGTA
1 GGTGCCACAGAGTTGTA
3323918 GGTGCCACAGAGTTGT
1 GGTGCCACAGAGTTGT
3323934 GGGCTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.18, C:0.18, G:0.39, T:0.24
Consensus pattern (17 bp):
GGTGCCACAGAGTTGTA
Found at i:3324189 original size:344 final size:343
Alignment explanation
Indices: 3323557--3324530 Score: 1462
Period size: 344 Copynumber: 2.9 Consensus size: 343
3323547 AAAAAGGGAA
3323557 AAAAGAGTGCCACAAAGTTGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGG
1 AAAAG-GTGCCAC-AAGTTGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGG
* * *
3323622 AGTTGTGAGCTTTGAAAAGGAAAAAAGAGTGCCACAAAGTTGCGGGCTTTAAAAGAAAAAGGTGC
64 AGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGC
* *
3323687 CACGGAGTTGTGGGCATTAAAAAG----A-GTGCCACGGAGTCGTGGGCTTTGAAAAGAAGAAGG
129 CACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
3323747 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
194 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
3323812 GGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTG
259 GGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTG
3323877 CCACGAAATTGTGGGCTTT-
324 CCACGAAATTGTGGGCTTTG
*
3323896 AAAAGGGTGCCACGGAGTTGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGG
1 AAAA-GGTGCCAC-AAGTTGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGG
*
3323961 AGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGTCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGC
64 AGTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGC
3324026 CACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
129 CACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGG
3324091 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
194 TGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA
*
3324156 GGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACAGAGTTGTGGACTTAAAGATGAAAAAAGTG
259 GGTGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTG
*
3324221 CCACGACATTGTGGGCTTTG
324 CCACGAAATTGTGGGCTTTG
*** *
3324241 AAAA-G-G--A-AAAAAG-A-GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAAGGTGCCACGGA
1 AAAAGGTGCCACAAGTTGTAGGTGCCACAGAGTTGTGGGCTTTAAAAG-AAAAAGGTGCCACGGA
* *
3324299 GTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAGAGTTATGTGCTTTAAAAGAAAAAGGTGCC
65 GTTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCC
*
3324364 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT---AA-ACG--GGT
130 ACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGT
* * * *
3324422 GCCATGGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT-AAAAG----
195 GCCACGGAGTTGTGGGCTTTAAA-A-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
*
3324481 -GGTGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGG
258 AGGTGCCACGGAGTTGTGGGC-TTAAACG----GGTGCCACGGAGTTGTGG
3324531 GCTTTGAAGA
Statistics
Matches: 595, Mismatches: 25, Indels: 39
0.90 0.04 0.06
Matches are distributed among these distances:
325 20 0.03
326 6 0.01
329 5 0.01
330 41 0.07
331 27 0.05
332 2 0.00
333 2 0.00
336 28 0.05
337 127 0.21
338 2 0.00
339 145 0.24
340 2 0.00
342 1 0.00
343 2 0.00
344 181 0.30
345 4 0.01
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (343 bp):
AAAAGGTGCCACAAGTTGTAGGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAG
TTGTGGGCTTTGAAAAGGAAAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCA
CGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAGAAGGTG
CCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGG
TGCCACGGAGTTGTGGGCTTAAACGGGTGCCACGGAGTTGTGGACTTAAAGATGAAAAAAGTGCC
ACGAAATTGTGGGCTTTG
Found at i:3324195 original size:27 final size:27
Alignment explanation
Indices: 3324156--3324207 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3324146 AAAAGAAAAA
* *
3324156 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACAGAGTTGTGGACTTAAACG
3324183 GGTGCCACAGAGTTGTGGACTTAAA
1 GGTGCCACAGAGTTGTGGACTTAAA
3324208 GATGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.17, G:0.37, T:0.23
Consensus pattern (27 bp):
GGTGCCACAGAGTTGTGGACTTAAACG
Found at i:3324304 original size:71 final size:68
Alignment explanation
Indices: 3324184--3324544 Score: 357
Period size: 71 Copynumber: 5.5 Consensus size: 68
3324174 GCTTAAACGG
* * *
3324184 GTGCCACAGAGTTGTGGAC-TTAAAGATGAAAAAAGTGCCAC-GACATTGTGGGCTTTGAAAAGG
1 GTGCCACAGAGTTGTGGGCTTTAAA-A-GAAAAAGGTGCCACGGA-GTTGTGGGCTTT-AAAAGG
3324247 AAAAAAGA
62 -AAAAAGA
*
3324255 GTGCCACAAAGTTGTGGGCTTTAAAAGAAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAG-AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGG-A
3324320 AAAAGA
63 AAAAGA
* * *
3324326 GTGCCACAGAGTTATGTGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
3324391 AG-
66 AGA
* * * * *
3324393 GTGCCACGGAGTTGTGGGC-TTAAACG-----GGTGCCATGGAGTTGTGGAC-TTAAAGATGAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAA
3324451 AA-A
65 AAGA
* *
3324454 GTGCCACGGAATTGTGGGCTTTAAAAG-----GGTGCCACGGAGTTGTGGGCTTT-AAAGG-AAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
3324512 AG-
66 AGA
* *
3324514 GTGCCACGGAGTTGTGGGCTTT-GAAGAAAAA
1 GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAA
3324545 ATGCCATTGA
Statistics
Matches: 255, Mismatches: 22, Indels: 33
0.82 0.07 0.11
Matches are distributed among these distances:
59 3 0.01
60 30 0.12
61 45 0.18
62 26 0.10
63 2 0.01
66 6 0.02
67 16 0.06
68 6 0.02
69 5 0.02
70 29 0.11
71 80 0.31
72 7 0.03
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (68 bp):
GTGCCACAGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAA
AGA
Found at i:3324430 original size:27 final size:27
Alignment explanation
Indices: 3324392--3324443 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
3324382 AAAAGAAAAA
*
3324392 GGTGCCACGGAGTTGTGGGCTTAAACG
1 GGTGCCACGGAGTTGTGGACTTAAACG
*
3324419 GGTGCCATGGAGTTGTGGACTTAAA
1 GGTGCCACGGAGTTGTGGACTTAAA
3324444 GATGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.15, G:0.38, T:0.25
Consensus pattern (27 bp):
GGTGCCACGGAGTTGTGGACTTAAACG
Found at i:3324580 original size:121 final size:120
Alignment explanation
Indices: 3324353--3324599 Score: 277
Period size: 121 Copynumber: 2.0 Consensus size: 120
3324343 GCTTTAAAAG
*
3324353 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAC
1 AAAAAGGTGCCACGGAGTTGTGGGCTTT-AAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAA
*** * * *
3324418 GGGTGCCATGGAGTTGTGGACTTAAAGATGAAAAAAGTGCCACGGAATTGTGGGCTTT
65 AAATGCCATGGAGTCGTGGACTT--AGATGAAAAAAGTGCCACGGAATCGTGGACTTT
* *
3324476 AAAAGGGTGCCACGGAGTTGTGGGCTTT-AAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG
1 AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGC-TT--A-
* * * *
3324540 AAAAAATGCCATTGAGTCGTGGACCTT-GA-GACAAAA-TGCCACTGAGTCGTGGACTTT
62 AAAAAATGCCATGGAGTCGTGGA-CTTAGATGAAAAAAGTGCCACGGAATCGTGGACTTT
3324597 AAA
1 AAA
3324600 GAAAAAGATG
Statistics
Matches: 106, Mismatches: 13, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
121 48 0.45
122 8 0.08
123 29 0.27
124 1 0.01
125 17 0.16
126 3 0.03
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (120 bp):
AAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTAAAAA
AATGCCATGGAGTCGTGGACTTAGATGAAAAAAGTGCCACGGAATCGTGGACTTT
Found at i:3324598 original size:93 final size:94
Alignment explanation
Indices: 3324483--3324692 Score: 246
Period size: 93 Copynumber: 2.2 Consensus size: 94
3324473 TTTAAAAGGG
* * * * * * *
3324483 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAGGTGCCACGGAGTTGTGGGCTTTGAAG-AAAAAAT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACGGAGTCGTGGACTTTG-AGCAAAAAAT
*
3324547 GCCATTGAGTCGTGGACCTTGAGACA-A-AA
65 GCCACTGAGTCGTGGACCTTGAGA-AGAGAA
* * * *
3324576 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACTGAGTCGTGGACTTTGAGCAGAGATTG
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACGGAGTCGTGGACTTTGAGCAAAAAATG
* *
3324641 CCACTGAGTCGTGGACTTTGAGAAGAGAT
66 CCACTGAGTCGTGGACCTTGAGAAGAGAA
*
3324670 TGCCACTTAGTCGTGGACTTTAA
1 TGCCACTGAGTCGTGGACTTTAA
3324693 GAAGAGCTTG
Statistics
Matches: 99, Mismatches: 15, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
92 3 0.03
93 73 0.74
94 23 0.23
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.25
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAGATGCCACGGAGTCGTGGACTTTGAGCAAAAAATG
CCACTGAGTCGTGGACCTTGAGAAGAGAA
Found at i:3324646 original size:31 final size:31
Alignment explanation
Indices: 3324515--3324721 Score: 215
Period size: 31 Copynumber: 6.7 Consensus size: 31
3324505 AAGGAAAAGG
* * * * *
3324515 TGCCACGGAGTTGTGGGCTTTGAAGAA-AAAA
1 TGCCACTGAGTCGTGGACTTTG-AGAAGAGAT
* * *
3324546 TGCCATTGAGTCGTGGACCTTGAGACA-A-AA
1 TGCCACTGAGTCGTGGACTTTGAGA-AGAGAT
* *
3324576 TGCCACTGAGTCGTGGACTTTAAAGAAAAAGA-
1 TGCCACTGAGTCGTGGACTTT-GAG-AAGAGAT
*
3324608 TGCCACTGAGTCGTGGACTTTGAGCAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
3324639 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
* * *
3324670 TGCCACTTAGTCGTGGACTTTAAGAAGAGCT
1 TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
*
3324701 TGCCACTTAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
3324722 TTTTTTTTTA
Statistics
Matches: 155, Mismatches: 15, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
30 28 0.18
31 103 0.66
32 23 0.15
33 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.26
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAGAAGAGAT
Found at i:3324695 original size:93 final size:93
Alignment explanation
Indices: 3324483--3324721 Score: 245
Period size: 93 Copynumber: 2.6 Consensus size: 93
3324473 TTTAAAAGGG
* * * * * * * * * *
3324483 TGCCACGGAGTTGTGGGCTTTAAAGGAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAG-AAAAAA
1 TGCCACTGAGTCGTGGACTTTAAA-GAAAAGCATGCCACTGAGTCGTGGACTTTG-AGCAGAGAT
*
3324546 TGCCATTGAGTCGTGGACCTTGAGACAAAA
64 TGCCACTGAGTCGTGGACCTTGAGACAAAA
3324576 TGCCACTGAGTCGTGGACTTTAAAGAAAAAG-ATGCCACTGAGTCGTGGACTTTGAGCAGAGATT
1 TGCCACTGAGTCGTGGACTTTAAAG-AAAAGCATGCCACTGAGTCGTGGACTTTGAGCAGAGATT
* *
3324640 GCCACTGAGTCGTGGACTTTGAGA-AGAGAT
65 GCCACTGAGTCGTGGACCTTGAGACA-A-AA
* * * *
3324670 TGCCACTTAGTCGTGGACTTT-AAGAAGAGCTTGCCACTTAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAGCATGCCACTGAGTCGTGGACTTT
3324722 TTTTTTTTTA
Statistics
Matches: 124, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
92 8 0.06
93 95 0.77
94 21 0.17
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (93 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAGCATGCCACTGAGTCGTGGACTTTGAGCAGAGATTG
CCACTGAGTCGTGGACCTTGAGACAAAA
Found at i:3326042 original size:17 final size:17
Alignment explanation
Indices: 3326022--3326085 Score: 80
Period size: 17 Copynumber: 3.9 Consensus size: 17
3326012 CTTTGCATTT
3326022 TTTTTGTGTTTTTTTTG
1 TTTTTGTGTTTTTTTTG
*
3326039 TTTTTTTG-TTTTTTT-
1 TTTTTGTGTTTTTTTTG
*
3326054 TTTGTGTGTTTTTTTTG
1 TTTTTGTGTTTTTTTTG
3326071 TTTGTT-TGTTTTTTT
1 TTT-TTGTGTTTTTTT
3326086 CTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
15 6 0.15
16 14 0.35
17 19 0.47
18 1 0.03
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (17 bp):
TTTTTGTGTTTTTTTTG
Found at i:3326055 original size:32 final size:32
Alignment explanation
Indices: 3326019--3326091 Score: 119
Period size: 32 Copynumber: 2.2 Consensus size: 32
3326009 TGCCTTTGCA
*
3326019 TTTTTTTTGTGTTTTTTTTGTTTTTTTGTTTT
1 TTTTTTTTGTGTTTTTTTTGTTTGTTTGTTTT
*
3326051 TTTTTTGTGTGTTTTTTTTGTTTGTTTGTTTT
1 TTTTTTTTGTGTTTTTTTTGTTTGTTTGTTTT
3326083 TTTCTTTTT
1 TTT-TTTTT
3326092 TTTTCATCAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.00, C:0.01, G:0.14, T:0.85
Consensus pattern (32 bp):
TTTTTTTTGTGTTTTTTTTGTTTGTTTGTTTT
Found at i:3326095 original size:11 final size:11
Alignment explanation
Indices: 3326019--3326095 Score: 75
Period size: 11 Copynumber: 6.6 Consensus size: 11
3326009 TGCCTTTGCA
*
3326019 TTTTTTTTGTG
1 TTTTTTTTGTT
3326030 TTTTTTTTGTT
1 TTTTTTTTGTT
3326041 TTTTTGTTT-TT
1 TTTTT-TTTGTT
*
3326052 TTTTTGTGTGTTT
1 TTTTT-TTTG-TT
3326065 TTTTTGTTTGTT
1 TTTTT-TTTGTT
*
3326077 TGTTTTTTTCTT
1 T-TTTTTTTGTT
3326089 TTTTTTT
1 TTTTTTT
3326096 CATCACTTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
11 31 0.53
12 12 0.21
13 15 0.26
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (11 bp):
TTTTTTTTGTT
Found at i:3326109 original size:1 final size:1
Alignment explanation
Indices: 3326019--3326095 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
3326009 TGCCTTTGCA
* * * * * * * * * *
3326019 TTTTTTTTGTGTTTTTTTTGTTTTTTTGTTTTTTTTTTGTGTGTTTTTTTTGTTTGTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
3326084 TTCTTTTTTTTT
1 TTTTTTTTTTTT
3326096 CATCACTTTT
Statistics
Matches: 54, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.01, G:0.13, T:0.86
Consensus pattern (1 bp):
T
Found at i:3332893 original size:52 final size:52
Alignment explanation
Indices: 3332808--3332932 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
3332798 ATATGAAAAG
* *
3332808 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
3332860 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
3332912 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
3332933 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:3332945 original size:52 final size:51
Alignment explanation
Indices: 3332808--3332952 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
3332798 ATATGAAAAG
*
3332808 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
3332860 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
3332912 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
3332953 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:3333043 original size:33 final size:33
Alignment explanation
Indices: 3333006--3333072 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
3332996 AGTAGCTTAA
3333006 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
3333039 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
3333072 A
1 A
3333073 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:3333046 original size:13 final size:13
Alignment explanation
Indices: 3333028--3333052 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3333018 CAAAAAAATA
3333028 TGTATCGATACAT
1 TGTATCGATACAT
3333041 TGTATCGATACA
1 TGTATCGATACA
3333053 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:3336544 original size:13 final size:13
Alignment explanation
Indices: 3336526--3336550 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
3336516 CATTACTCAA
3336526 TGTATCGATACAC
1 TGTATCGATACAC
3336539 TGTATCGATACA
1 TGTATCGATACA
3336551 TCTGGGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:3345141 original size:156 final size:156
Alignment explanation
Indices: 3344734--3346482 Score: 1373
Period size: 156 Copynumber: 11.3 Consensus size: 156
3344724 AATTACAAAA
* * * * ** **
3344734 ATACCTTCGACGTGAAAGTATCTTGGTACCCCTAAAGGACTTAAAAAGGGTTTTAAAAGGGATGA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAA-GACTAGAAAAGGGATGA
* * *** ** * * ** *
3344799 ACCTATCAC-AAATACCTACCTTCATCATAAAAGCGGACCTGACGATGACCTAGGACTCAG-TTT
65 ACCTATC-CTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTC
* * * *
3344862 TATGAAATTATGAAAATACCCTTATGGGT
129 TA-AAAATTACGAAAATGCCCCTATGGGT
* * * * *
3344891 ATACCTTCGACGTAAAAGTACCTCAGCAACCCTAAAGGACCTAAAAATACTAGAAAAAGGATGAA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAA
* * * *
3344956 CCTATCCTAAATGTCCACCTTTGGCATAAAAGCGGACCTAGTGACGACTTAGGAGTTGGCTT-TA
66 CCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCTA
* **
3345020 AAAATTATGAAAATGCCCCTCA-AAGT
131 AAAATTACGAAAATGCCCCT-ATGGGT
* ** * * * * *
3345046 ATACTTTTAACGTAAAAGTATCTTGGTGACCCTAAAGGACTTAAAAGGACTAGAAATGGTGATGA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGG-GATGA
* * * * * *
3345111 ACCTATCCTAAATGCCCACCTTTGGCATAAAAGCAGACCCGGTGACGACTTAAGACTCGG-TTCT
65 ACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCT
** *
3345175 AGGAATTACGAAAATGCCCTTATGGGT
130 AAAAATTACGAAAATGCCCCTATGGGT
* * * * *
3345202 ATACCTTCGACGTAAAAGTACCTTGATAACCTTAAAGGACCTAAAACGACTAGAAAAGGGATGAA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAA
* * * * *
3345267 CCTATCCTAAATGCCCA-CTTTCGGCATAAAAGCGGACCTGGTGACAACCTAAGA-CTCGATTAT
66 CCTATCCTAAATGCCCACCTTT-GGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCT
* * *
3345330 AAGAAATTACAAAAATACCCTTATGGGT
130 AA-AAATTACGAAAATGCCCCTATGGGT
* * * * * *
3345358 ATACCTTCAACGTAAAAGTA-C-C-CT-A-GC--AA--CCCT-AAATGACTATAAAAGAGG-TGA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAG-GGATGA
* * * * * * * *
3345412 ACCTATCCTAAATGCCCACTTTTGGCATAAAATCAGACTTGGTGACAACTTAAGAGTTGG-TTTT
65 ACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCT
* * * *
3345476 AAAAATTACAAAAAAGCCACTAGGGGT
130 AAAAATTACGAAAATGCCCCTATGGGT
* * *
3345503 ATACCTTCGACATAAAAGTATCTCGATAACCCTAAAAGACCTAAAAAGACTAG-AAAGGGATGAA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAA
* * * * * * **
3345567 CCTATCCTAAATGTCCACCTTTGGCATAAAAGCGAACCCGGTGACAACTTAGGA-CTCAATTCTA
66 CCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCTA
*
3345631 AAAATTACGAAAATACCCCTATGGGT
131 AAAATTACGAAAATGCCCCTATGGGT
* * * * * * *
3345657 ATATCTTCGACGTAAAAGTACCCCGGTAACCCT-AAGAACTTAAAAAGACTATAAAAGGGGTGAA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAA
* * * * *
3345721 TCTATTCTAAATTCCAACCTTTGGCATAAAAGCGGA-CTCGGTGACGACCTAGGAGCTGG-TTCT
66 CCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCT-GGTGACGACCTAGGAGTTGGATTCT
* * *
3345784 AAAAATTATGAAAGTGCCCCTAGAGGGT
130 AAAAATTACGAAAATGCCCCTA-TGGGT
* * * * * *
3345812 ATACCTTTGACATAAAAGTATCCCGGTAACCCT-AAGGA-C-ATAAGGACTAGAAATGGTGATGA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGG-GATGA
** * ** * * *
3345874 ACCTATCCTAAATGGTCACCTTCGGCATAAAAGCAAACCTGGTGATGACCTAGGACTCGGATT-T
65 ACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCT
*
3345938 AAAAAAAATTACGAAAATGGCCCTA-GGGT
130 ---AAAAATTACGAAAATGCCCCTATGGGT
* * * ** * * * **
3345967 ATACCTTCGACATGAAAGTATTTTAGTACCCCTAAAGGACTTAAAAAGGATTCTAAAAGGGATGA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAA-GACTAGAAAAGGGATGA
* ** * ** * * *
3346032 ACCTATCATAAATGCCTTCCTTTGTCATAAAAGCGGACCTAATGATGACCTAGGA-CTCGATTCT
65 ACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCT
* * *
3346096 ATGAAATTATGAAAATGCCCCTATAGGT
130 A-AAAATTACGAAAATGCCCCTATGGGT
* * * ** * *
3346124 ATACCTTCGACATGAAAGTACCTCGACAACCTTAAAGGACCTAAAAAGAGTAGAAAAGGGATGAA
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAA
* * * * *
3346189 CCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCCGATGACCACCTAAGAGTTAG-TTCTA
66 CCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCTA
*
3346253 AAAATTACGAAAATACCCCTA--GGT
131 AAAATTACGAAAATGCCCCTATGGGT
* * * * *
3346277 ATACCTTTGACGTAAAAGTA--TCGGTGACCCTAAAAGG-CTTAAAAGGACTAGAAATGGTGATG
1 ATACCTTCGACGTAAAAGTATCTCGGTAACCCT-AAAGGACCTAAAAAGACTAGAAAAGG-GATG
* * * * * * * * *
3346339 AACCTATCCTCAATGCCCACCTTCGACATAAAAGCGGACCCGATGATGACCTAGGA-CTCGATTT
64 AACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTC
* * * *
3346403 TAGGAAATTACGAAAATACCCTTA-GGGG
129 TA-AAAATTACGAAAATGCCCCTATGGGT
* * * * *
3346431 ATACCTTC-ATCATGAAAGTATC-CTGAAACCCCTAAAGGACTTAAAAAGACTA
1 ATACCTTCGA-CGTAAAAGTATCTCGGTAA-CCCTAAAGGACCTAAAAAGACTA
3346483 TAGAAGAGGT
Statistics
Matches: 1275, Mismatches: 265, Indels: 105
0.78 0.16 0.06
Matches are distributed among these distances:
145 38 0.03
146 68 0.05
147 11 0.01
148 1 0.00
149 3 0.00
150 1 0.00
151 25 0.02
152 66 0.05
153 73 0.06
154 257 0.20
155 233 0.18
156 330 0.26
157 108 0.08
158 53 0.04
159 8 0.01
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (156 bp):
ATACCTTCGACGTAAAAGTATCTCGGTAACCCTAAAGGACCTAAAAAGACTAGAAAAGGGATGAA
CCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCTGGTGACGACCTAGGAGTTGGATTCTA
AAAATTACGAAAATGCCCCTATGGGT
Found at i:3347630 original size:14 final size:14
Alignment explanation
Indices: 3347611--3347652 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
3347601 TTTCACTCTA
3347611 CTTTCTCCTTTTTT
1 CTTTCTCCTTTTTT
**
3347625 CTTTCTTTTTTTTT
1 CTTTCTCCTTTTTT
3347639 CTTTCTCTCTTTTT
1 CTTTCTC-CTTTTT
3347653 CAGCTGAAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 18 0.78
15 5 0.22
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (14 bp):
CTTTCTCCTTTTTT
Found at i:3348354 original size:167 final size:162
Alignment explanation
Indices: 3348177--3348690 Score: 556
Period size: 167 Copynumber: 3.1 Consensus size: 162
3348167 TATTAGATAC
* * *
3348177 ATTTTAAAAATTTTAGACTAATG-AAAATCCTTCT-GAAAATATTTATGGAATGAAAAACCCGGT
1 ATTTTAAAAATTATA-ACCAA-GAAAAATCCTTCTCGAAAATATTTATGGAAT-AAAAACCC-AT
* * * * *
3348240 TTTTGGGAAAATAGGGATTTCAAAGAAACAAATTCAAAAACTCATGAAAATGAATGAATTTTTGA
62 ATTTAGGAAAA-AGGGATTTCAAGGAAA-AAAATCAAAAA-TAATGAAAATGAATGAATTTTTGA
* *
3348305 AAACTGAATTAATATGAAACAAATGATGATGTTTGATG-
124 AAACTGAATTAATATGAAATAAATAATGATGTTTGATGA
* * * * ** *
3348343 ATTTATAAAAATTGAAAACCGAGAAAAATCC-CCTCGAAAAAATTTACAGAGTAGAAAACACCAT
1 ATTT-TAAAAATT-ATAACCAAGAAAAATCCTTCTCGAAAATATTTATGGAATA-AAAAC-CCAT
* *
3348407 ATTTAGGAAAAAGGGAAATTTGAAGGAAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTTA
62 ATTTAGGAAAAAGGG--ATTTCAAGGAAAAAAATCAAAAAT-AATGAAAATGAATGAATTTTTGA
3348472 AAACTGAATTAATATGAAATAAATAATGATGTTTGATGA
124 AAACTGAATTAATATGAAATAAATAATGATGTTTGATGA
*
3348511 ATTTTAAAAATTGATAACCAAGAAAAATCCTT-TCGAAACAT-TTTATGGAATAAAAAACACTAT
1 ATTTTAAAAATT-ATAACCAAGAAAAATCCTTCTCGAAA-ATATTTATGGAAT-AAAAAC-CCAT
*
3348574 ATTTCA-GAAAAAGAGAAGTTTCAAGGAAAAAAATCAAAAATTAATGAAAATGAATGAATTTTTG
62 ATTT-AGGAAAAAG-GGA-TTTCAAGGAAAAAAATCAAAAA-TAATGAAAATGAATGAATTTTTG
* * * *
3348638 AAAACTGATTTAATATAAAATAAATAATAATATTTGATGA
123 AAAACTGAATTAATATGAAATAAATAATGATGTTTGATGA
3348678 ATTTTAAAAATTA
1 ATTTTAAAAATTA
3348691 AAAATTAAGA
Statistics
Matches: 297, Mismatches: 34, Indels: 34
0.81 0.09 0.09
Matches are distributed among these distances:
166 15 0.05
167 260 0.88
168 22 0.07
ACGTcount: A:0.50, C:0.08, G:0.13, T:0.29
Consensus pattern (162 bp):
ATTTTAAAAATTATAACCAAGAAAAATCCTTCTCGAAAATATTTATGGAATAAAAACCCATATTT
AGGAAAAAGGGATTTCAAGGAAAAAAATCAAAAATAATGAAAATGAATGAATTTTTGAAAACTGA
ATTAATATGAAATAAATAATGATGTTTGATGA
Found at i:3348703 original size:167 final size:167
Alignment explanation
Indices: 3348256--3348720 Score: 594
Period size: 167 Copynumber: 2.8 Consensus size: 167
3348246 GAAAATAGGG
* * * *
3348256 ATTTCAAAGAAACAAATTCAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGAATTAATATG
1 ATTTCAAGGAAA-AAAATCAAAAATTAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATG
* * *
3348321 AAACAAATGATGATGTTTGATG-ATTTATAAAAATTGAAAACCGAGAAAAATCCCCTCGAAAAAA
65 AAATAAATAATGATGTTTGATGAATTT-TAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAA
* * *
3348385 TTTACAGAGTAGAAAACACCATATTTAGGAAAAAGGGAA
129 TTTACAGAATAAAAAACACCATATTTAGGAAAAAGAGAA
* * *
3348424 ATTTGAAGGAAAAAAATCAAAAATGAATGAAAATGAATGAATTTTTTAAAACTGAATTAATATGA
1 ATTTCAAGGAAAAAAATCAAAAATTAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGA
* ** * *
3348489 AATAAATAATGATGTTTGATGAATTTTAAAAATTGATAACCAAGAAAAATCCTTTCGAAACATTT
66 AATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATT
** *
3348554 TATGGAATAAAAAACACTATATTTCA-GAAAAAGAGAA
131 TACAGAATAAAAAACACCATATTT-AGGAAAAAGAGAA
* * *
3348591 GTTTCAAGGAAAAAAATCAAAAATTAATGAAAATGAATGAATTTTTGAAAACTGATTTAATATAA
1 ATTTCAAGGAAAAAAATCAAAAATTAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGA
* * * ** * *
3348656 AATAAATAATAATATTTGATGAATTTTAAAAATTAAAAATTAAGAAAACTCTTCCT-GAAAAAAT
66 AATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATC-CCCTCGAAAAAAT
3348720 T
130 T
3348721 AACGGAGAAG
Statistics
Matches: 255, Mismatches: 39, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
167 239 0.94
168 16 0.06
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (167 bp):
ATTTCAAGGAAAAAAATCAAAAATTAATGAAAATGAATGAATTTTTGAAAACTGAATTAATATGA
AATAAATAATGATGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCCTCGAAAAAATT
TACAGAATAAAAAACACCATATTTAGGAAAAAGAGAA
Found at i:3352655 original size:30 final size:30
Alignment explanation
Indices: 3352619--3352677 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
3352609 ATAAAATCTT
3352619 AGACTCGATCTAGACGCCAAGGTACTAATA
1 AGACTCGATCTAGACGCCAAGGTACTAATA
3352649 AGACTCGATCTAGACGCCAAGGTACTAAT
1 AGACTCGATCTAGACGCCAAGGTACTAAT
3352678 TCGAATCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (30 bp):
AGACTCGATCTAGACGCCAAGGTACTAATA
Found at i:3353225 original size:151 final size:149
Alignment explanation
Indices: 3352929--3354489 Score: 507
Period size: 156 Copynumber: 10.2 Consensus size: 149
3352919 AAAAATTACA
*
3352929 AAAATGCCCCTAGGGGATACCTTCGATGTAAAAATACTCGATACCCCTAAAGGACCTAAAACGGA
1 AAAATGCCCCTAGGGGATACCTTCGATGCAAAAATACTCGATACCCCTAAAGGACCTAAAA--GA
* * ** * *
3352994 TAGAATTGGGATAACCTATCCTAAATGCCCACTTTCAGCAAAAAACGGACCCGGTGACGACCTAG
64 TAGAATTGGGATAACCTATCCTAAATGCCCACCTTCAGCAAAAAACAGACCCGACGACAACCTAA
* **
3353059 GAGTTGGTTCTAGAAATTATG
129 GACTCAGTTCTAGAAATTATG
* * * *
3353080 AAAATACCCCTAGGGGATACCTTCGATGCGAAAGTATCTC-AGTACCCCTAAAGGACTTAAAA-A
1 AAAATGCCCCTAGGGGATACCTTCGATGCAAAAATA-CTCGA-TACCCCTAAAGGACCTAAAAGA
* * * * *
3353143 -A-AATCTTGGATGAACCTATCGTAAATGCCTACCTTCGGCATAAAAACAGACTCGACGACAACC
64 TAGAAT-TGGGAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGACGACAACC
3353206 TAAGACTCAGTTCTAAGAAATTATG
126 TAAGACTCAGTTCT-AGAAATTATG
* * * ** *
3353231 AAAATGCCCCTATGGGTATACCTTCGATGTAAAAATACCGCGGCAACCCTAAAGGACCTAAAAAG
1 AAAATGCCCCTA-GGGGATACCTTCGATGCAAAAATA-CTCGATACCCCTAAAGGACCT-AAAAG
** ** * * ** **
3353296 ACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCCGGTGATGAC
63 A-TAGAATTGGGAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGACGACAAC
* * * **
3353361 CTAGGACAT-GGTTCTAAAAATTACA
125 CTAAGAC-TCAGTTCTAGAAATTATG
* * * * * * * * * *
3353386 AAAAAGCCCCTAAGGGATGCCTTTGACGTAAAAGTA-TC-ATAATGACCCTAAAGAACTTAAAAG
1 AAAATGCCCCTAGGGGATACCTTCGATGCAAAAATACTCGAT-A--CCCCTAAAGGACCTAAAA-
** * * *** *
3353449 GACTAGAAACGGTGATGAAACTATCCTAAATGCCCACCATC-GACATAAAAGTGGACCCGA-TAC
62 GA-TAGAATTGG-GAT-AACCTATCCTAAATGCCCACCTTCAG-CA-AAAAACAGACCCGACGA-
* * * *
3353512 CGACCTAAGACTCGGTTCTAGGAATTACG
121 CAACCTAAGACTCAGTTCTAGAAATTATG
* ** * * * * * * * *
3353541 AAAAGGCCTTTATGGGTATACTTTCGACGTAAAAGTACCCGGTAACCCTAAAGGACCTAAAAAGA
1 AAAATGCCCCTA-GGGGATACCTTCGATGCAAAAATACTCGATACCCCTAAAGGACCT-AAAAGA
** * ** ** **
3353606 CTAGAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACC
64 -TAGAATTGGGAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGACGACAACC
* *
3353671 TAGGACTC-GATTCTAAGAAATTACG
126 TAAGACTCAG-TTCT-AGAAATTATG
* * * * * *
3353696 AAAATACCCCAATA-GGTATACCTTTGATGTAAAAATACCTCGCA-A-CCCTAAAGGA-TTATAA
1 AAAATGCCCC--TAGGGGATACCTTCGATGCAAAAATA-CTCG-ATACCCCTAAAGGACCTAAAA
* * ** *** ** **
3353757 -A-AG----GGG-TGAACCAATCCTAAATGCCCACATTTGGCATAAAAGTGGACTTGGTGACAAC
62 GATAGAATTGGGAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGACGACAAC
* * ** * *
3353815 CTAGGAGTTGGTTATAAAAATTATG
125 CTAAGACTCAGTTCTAGAAATTATG
* * * * **
3353840 AAAATGCCTCTAGAGGTATACCTTTGA--CATAAAAGTA-TCCGGGTAATCCTAAAGGACCTAAA
1 AAAATGCCCCTAG-GGGATACCTTCGATGCA-AAAA-TACT-C-GATACCCCTAAAGGACCT-AA
* *** * * *
3353902 AAAACTAGAAAAAGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCC-AGTGA
60 AAGA-TAGAATTGGGAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGA-CGA
* *
3353966 CAACCTAAGACTCAGTTTTAGAAAATTACG
121 CAACCTAAGACTCAGTTCTAG-AAATTATG
** * * * * * ** * *
3353996 AAAATATCCCTATGGGTATATCTTCGACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAAG
1 AAAATGCCCCTA-GGGGATACCTTCGATGCAAAAATA-CTCGATACCCCTAAAGGACCT-AAAAG
* ** * * * ** *** * ** **
3354061 ACTATAAAAAGGAAGAAACTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACTCGGTGATGAC
63 A-TA-GAATTGGGATAACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGACGACAAC
* * *
3354126 CTAGGAGTTC-GTTTCTAAAAATTATG
125 CTAAGA-CTCAG-TTCTAGAAATTATG
* * * * * * * * * *
3354152 AAAATACCCTTAGGGCTATACTTTCGACGTAAAAGTATCTCGATAACCCTAAAGGACATAAAGGA
1 AAAATGCCCCTAGGG-GATACCTTCGATGCAAAAATA-CTCGATACCCCTAAAGGACCTAAAAGA
* * * * * **
3354217 CAAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCTCG-TGATGA
64 -TAGAATTGG-GAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACC-CGACGACAA
* * *
3354281 CC-AAGGACTCGGTTCGAAAAAACATTATG
124 CCTAA-GACTCAGTTC--TAGAA-ATTATG
* * * * * * ** * *
3354310 AAAATGCCCTTATAGGTATACCTTCGATGTAAAAGTACCCCGGCAACCCTAAAGGACCTAAAAAT
1 AAAATGCCCCTA-GGGGATACCTTCGATGCAAAAATA-CTCGATACCCCTAAAGGACCT-AAAAG
* ** * * **
3354375 ACTAAAAAAGGGATGAACCTATCCTAAATGCTCACCTTCGGCATAAAAACAGACCCGGTGACAAC
63 A-TAGAATTGGGAT-AACCTATCCTAAATGCCCACCTTCAGCA-AAAAACAGACCCGACGACAAC
* *
3354440 CTAAGACTC-GATTCTAAAAAATTACG
125 CTAAGACTCAG-TTCT-AGAAATTATG
*
3354466 AAAATGCCCCTAAGGGATACCTTC
1 AAAATGCCCCTAGGGGATACCTTC
3354490 TACGTGAAAG
Statistics
Matches: 1116, Mismatches: 215, Indels: 154
0.75 0.14 0.10
Matches are distributed among these distances:
142 4 0.00
143 5 0.00
144 33 0.03
145 65 0.06
146 5 0.00
147 6 0.01
148 7 0.01
149 25 0.02
150 31 0.03
151 54 0.05
152 60 0.05
153 12 0.01
154 107 0.10
155 240 0.22
156 300 0.27
157 37 0.03
158 110 0.10
159 15 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (149 bp):
AAAATGCCCCTAGGGGATACCTTCGATGCAAAAATACTCGATACCCCTAAAGGACCTAAAAGATA
GAATTGGGATAACCTATCCTAAATGCCCACCTTCAGCAAAAAACAGACCCGACGACAACCTAAGA
CTCAGTTCTAGAAATTATG
Found at i:3353339 original size:156 final size:156
Alignment explanation
Indices: 3353150--3354533 Score: 1278
Period size: 156 Copynumber: 9.0 Consensus size: 156
3353140 AAAAAATCTT
* * * * * ** *
3353150 GGATGAACCTATCGTAAATGCCTACCTTCGGCATAAAAACAGACTCGACGACAACCTAAGACTCA
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGACTCG
* * * * *
3353215 GTTCTAAGAAATTATGAAAATGCCCCTATGGGTATACCTTCGATGTAAAAATACCGCGGCAACCC
66 GTTCTAAGAAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGTAACCC
3353280 TAAAGGACCTAAAAAGACTAGAAAAG
131 TAAAGGACCTAAAAAGACTAGAAAAG
* ** *
3353306 GGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCCGGTGATGACCTAGGACAT-
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGAC-TC
* * * * * * ** *
3353370 GGTTCTAA-AAATTACAAAAAAGCCCCTAAGGG-ATGCCTTTGACGTAAAAGTATCAT-AATGAC
65 GGTTCTAAGAAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA-CCTCGGTAAC
* * * *
3353432 CCTAAAGAACTTAAAAGGACTAGAAACG
129 CCTAAAGGACCTAAAAAGACTAGAAAAG
* * * * * *
3353460 GTGATGAAACTATCCTAAATGCCCACCATCGACATAAAAGTGGACCCGAT-ACCGACCTAAGACT
1 G-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGA-CAACCTAAGACT
* * ** *
3353524 CGGTTCT-AGGAATTACGAAAAGGCCTTTATGGGTATACTTTCGACGTAAAAGTACC-CGGTAAC
64 CGGTTCTAAGAAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGTAAC
3353587 CCTAAAGGACCTAAAAAGACTAGAAAAG
129 CCTAAAGGACCTAAAAAGACTAGAAAAG
* * ** *
3353615 GGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACCTAGGACTCG
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGACTCG
* * * * * * * *
3353680 ATTCTAAGAAATTACGAAAATACCCCAATAGGTATACCTTTGATGTAAAAATACCTC-GCAACCC
66 GTTCTAAGAAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGTAACCC
*
3353744 TAAAGGA--T--------TATAAAAG
131 TAAAGGACCTAAAAAGACTAGAAAAG
* * * * * ** * * *
3353760 GGGTGAACCAATCCTAAATGCCCACATTTGGCATAAAAGTGGACTTGGTGACAACCTAGGAGTTG
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGACTCG
* * * * * * *
3353825 GTTATAA-AAATTATGAAAATGCCTCTA-GAGGTATACCTTTGACATAAAAGTATCC-GGGTAAT
66 GTTCTAAGAAATTACGAAAATGCCCCTATG-GGTATACCTTCGACGTAAAAGTA-CCTCGGTAAC
* *
3353887 CCTAAAGGACCTAAAAAAACTAGAAAAA
129 CCTAAAGGACCTAAAAAGACTAGAAAAG
* * *
3353915 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGACTCA
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGACTCG
* ** * *
3353980 GTT-TTAGAAAATTACGAAAATATCCCTATGGGTATATCTTCGACGTAAAAGTACCTCGGCAACC
66 GTTCTAAG-AAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGTAACC
* * *
3354044 CTAAAGGACTTAAAAAGACTATAAAAA
130 CTAAAGGACCTAAAAAGACTAGAAAAG
* * * * * ** * *
3354071 GGAAGAAACTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACTCGGTGATGACCTAGGAGTTC
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGA-CTC
* * * * * * *
3354136 GTTTCTAA-AAATTATGAAAATACCCTTA-GGGCTATACTTTCGACGTAAAAGTATCTCGATAAC
65 GGTTCTAAGAAATTACGAAAATGCCCCTATGGG-TATACCTTCGACGTAAAAGTACCTCGGTAAC
* * * *
3354199 CCTAAAGGACAT-AAAGGACAAGAAATG
129 CCTAAAGGACCTAAAAAGACTAGAAAAG
* **
3354226 GTGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCTC-GTGATGACC-AAGGAC
1 G-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACC-CGGTGACAACCTAA-GAC
* * * * * * * *
3354289 TCGGTTCGAAAAAACATTATGAAAATGCCCTTATAGGTATACCTTCGATGTAAAAGTACCCCGGC
63 TCGGTTC-TAAGAA-ATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGT
* *
3354354 AACCCTAAAGGACCTAAAAATACTAAAAAAG
126 AACCCTAAAGGACCTAAAAAGACTAGAAAAG
* * *
3354385 GGATGAACCTATCCTAAATGCTCACCTTCGGCATAAAAACAGACCCGGTGACAACCTAAGACTCG
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGACTCG
* * * * * *
3354450 ATTCTAAAAAATTACGAAAATGCCCCTAAGGG-ATACCTTCTACGTGAAAGTATCC-CGGTACCC
66 GTTCTAAGAAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTA-CCTCGGTAACC
*
3354513 CTAAAGGACTTAAAAAGACTA
130 CTAAAGGACCTAAAAAGACTA
3354534 TAGAAGAGGT
Statistics
Matches: 986, Mismatches: 200, Indels: 85
0.78 0.16 0.07
Matches are distributed among these distances:
144 36 0.04
145 82 0.08
147 1 0.00
153 1 0.00
154 105 0.11
155 303 0.31
156 317 0.32
157 15 0.02
158 111 0.11
159 15 0.02
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (156 bp):
GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAAGACTCG
GTTCTAAGAAATTACGAAAATGCCCCTATGGGTATACCTTCGACGTAAAAGTACCTCGGTAACCC
TAAAGGACCTAAAAAGACTAGAAAAG
Found at i:3353483 original size:155 final size:154
Alignment explanation
Indices: 3353150--3354533 Score: 1083
Period size: 155 Copynumber: 9.0 Consensus size: 154
3353140 AAAAAATCTT
* * * * * ** * *
3353150 GGATGAACCTATCGTAAATGCCTACCTTCGGCATAAAAACAGACTCGACGACAACCTAAGACTCA
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCG
** * * * * * * *
3353215 GTTCTAAGAAATTATGAAAATGCCCCTATGGGTATACCTTCGATGTAAAAATA-CCGCGGCAACC
66 GTTCTAA-AAATTACAAAAAAGCCCCTAAGGG-ATACCTTTGACGTAAAAGTATCC-TGGTAACC
3353279 CTAAAGGACCTAAAAAGACTAGAAAAG
128 CTAAAGGACCTAAAAAGACTAGAAAAG
* **
3353306 GGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGACCCGGTGATGACCTAGGACAT-
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGAC-TC
* * ** *
3353370 GGTTCTAAAAATTACAAAAAAGCCCCTAAGGGATGCCTTTGACGTAAAAGTATCATAATGACCCT
65 GGTTCTAAAAATTACAAAAAAGCCCCTAAGGGATACCTTTGACGTAAAAGTATCCTGGTAACCCT
* * * *
3353435 AAAGAACTTAAAAGGACTAGAAACG
130 AAAGGACCTAAAAAGACTAGAAAAG
* * * * * * *
3353460 GTGATGAAACTATCCTAAATGCCCACCATCGACATAAAAGTGGACCCGAT-ACCGACCTAAGACT
1 G-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGA-CAACCTAGGACT
** * * ** * *
3353524 CGGTTCTAGGAATTACGAAAAGGCCTTTATGGGTATA-CTTTCGACGTAAAAGTA-CCCGGTAAC
64 CGGTTCTAAAAATTACAAAAAAGCCCCTAAGGG-ATACCTTT-GACGTAAAAGTATCCTGGTAAC
3353587 CCTAAAGGACCTAAAAAGACTAGAAAAG
127 CCTAAAGGACCTAAAAAGACTAGAAAAG
* * **
3353615 GGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACCTAGGACTCG
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCG
* * * * * * * *
3353680 ATTCTAAGAAATTACGAAAATA-CCCCAATAGGTATACCTTTGATGTAAAAATA-CCTCGCAACC
66 GTTCTAA-AAATTAC-AAAAAAGCCCCTA-AGGGATACCTTTGACGTAAAAGTATCCTGGTAACC
*
3353743 CTAAAGGA--T--------TATAAAAG
128 CTAAAGGACCTAAAAAGACTAGAAAAG
* * * * * ** * *
3353760 GGGTGAACCAATCCTAAATGCCCACATTTGGCATAAAAGTGGACTTGGTGACAACCTAGGAGTTG
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCG
* ** * * * * * *
3353825 GTTATAAAAATTATGAAAATGCCTCTAGAGGTATACCTTTGACATAAAAGTATCCGGGTAATCCT
66 GTTCTAAAAATTACAAAAAAGCCCCTA-AGGGATACCTTTGACGTAAAAGTATCCTGGTAACCCT
* *
3353890 AAAGGACCTAAAAAAACTAGAAAAA
130 AAAGGACCTAAAAAGACTAGAAAAG
* * * *
3353915 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAGACTCA
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCG
* * * * * * *
3353980 GTTTTAGAAAATTACGAAAATA-TCCCTATGGGTATATCTTCGACGTAAAAGTA-CCTCGGCAAC
66 GTTCTA-AAAATTAC-AAAAAAGCCCCTAAGGG-ATACCTTTGACGTAAAAGTATCCT-GGTAAC
* * *
3354043 CCTAAAGGACTTAAAAAGACTATAAAAA
127 CCTAAAGGACCTAAAAAGACTAGAAAAG
* * * * * ** *
3354071 GGAAGAAACTATCCTAAATGCCCACCTTTGGCATAAAAGTGGACTCGGTGATGACCTAGGAGTTC
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGA-CTC
* * * * *
3354136 GTTTCTAAAAATTATGAAAATA--CCCTTAGGGCTATA-CTTTCGACGTAAAAGTAT-CTCGATA
65 GGTTCTAAAAATTA-CAAAAAAGCCCCTAAGGG--ATACCTTT-GACGTAAAAGTATCCT-GGTA
* * * *
3354197 ACCCTAAAGGACAT-AAAGGACAAGAAATG
125 ACCCTAAAGGACCTAAAAAGACTAGAAAAG
* ** *
3354226 GTGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCGGACCTC-GTGATGACCAAGGACT
1 G-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACC-CGGTGACAACCTAGGACT
* ** * * * * * * * *
3354290 CGGTTCGAAAAAACATTATGAAAATGCCCTTATAGGTATACCTTCGATGTAAAAGTACCCCGGCA
64 CGGTTC--TAAAA-ATTACAAAAAAGCCCCTA-AGGGATACCTTTGACGTAAAAGTATCCTGGTA
* *
3354355 ACCCTAAAGGACCTAAAAATACTAAAAAAG
125 ACCCTAAAGGACCTAAAAAGACTAGAAAAG
* * * *
3354385 GGATGAACCTATCCTAAATGCTCACCTTCGGCATAAAAACAGACCCGGTGACAACCTAAGACTCG
1 GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCG
* * * * * *
3354450 ATTCTAAAAAATTACGAAAATGCCCCTAAGGGATACCTTCT-ACGTGAAAGTATCCCGGTACCCC
66 GTTCT-AAAAATTACAAAAAAGCCCCTAAGGGATACCTT-TGACGTAAAAGTATCCTGGTAACCC
*
3354514 TAAAGGACTTAAAAAGACTA
129 TAAAGGACCTAAAAAGACTA
3354534 TAGAAGAGGT
Statistics
Matches: 966, Mismatches: 215, Indels: 95
0.76 0.17 0.07
Matches are distributed among these distances:
143 3 0.00
144 31 0.03
145 82 0.08
147 1 0.00
153 1 0.00
154 103 0.11
155 308 0.32
156 303 0.31
157 23 0.02
158 90 0.09
159 18 0.02
160 3 0.00
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (154 bp):
GGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCGGACCCGGTGACAACCTAGGACTCG
GTTCTAAAAATTACAAAAAAGCCCCTAAGGGATACCTTTGACGTAAAAGTATCCTGGTAACCCTA
AAGGACCTAAAAAGACTAGAAAAG
Found at i:3353891 original size:145 final size:145
Alignment explanation
Indices: 3353610--3354060 Score: 374
Period size: 145 Copynumber: 3.0 Consensus size: 145
3353600 AAAAGACTAG
*
3353610 AAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACCTAGG
1 AAAAGGGATGAACCAATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACCTAGG
* * ** *
3353675 ACTCGATTCTAAGAAATTACGAAAATACCCCAATAGGTATACCTTTGATGTAAAAATACCTCGCA
66 ACTCGATTATAAGAAATTACGAAAATACCCCAAGAGGTATACCTTTGACATAAAAATACCGCGCA
3353740 ACCCTAAAGGATTAT
131 ACCCTAAAGGATTAT
* * **
3353755 AAAAGGGGTGAACCAATCCTAAATGCCCA-CATTTGGCATAAAAGTGGACTTGGTGACAACCTAG
1 AAAAGGGATGAACCAATCCTAAATGCCCATC-TTTGGCATAAAAGTAGACCCGGTGACAACCTAG
* * * * * * * * *
3353819 GAGTTGGTTATAA-AAATTATGAAAATGCCTCTAGAGGTATACCTTTGACATAAAAGTATCCGGG
65 GACTCGATTATAAGAAATTACGAAAATACCCCAAGAGGTATACCTTTGACATAAAAATA-CCGCG
* * *
3353883 TAATCCTAAAGGACCTAAAAAAACTAG
129 CAACCCTAAAGGA--T--------TAT
* * * * * * *
3353910 AAAAAGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCCAGTGACAACCTAAG
1 AAAAGGGATGAACCAATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACCTAGG
* * * * * * * *
3353975 ACTC-AGTT-TTAGAAAATTACGAAAATATCCCTATG-GGTATATCTTCGACGTAAAAGTACCTC
66 ACTCGA-TTATAAG-AAATTACGAAAATA-CCCCAAGAGGTATACCTTTGACATAAAAATACCGC
3354037 GGCAACCCTAAAGGACTTA-
128 -GCAACCCTAAAGGA-TTAT
3354056 AAAAG
1 AAAAG
3354061 ACTATAAAAA
Statistics
Matches: 238, Mismatches: 50, Indels: 35
0.74 0.15 0.11
Matches are distributed among these distances:
144 38 0.16
145 80 0.34
146 4 0.02
147 3 0.01
154 2 0.01
155 63 0.26
156 45 0.19
157 3 0.01
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.23
Consensus pattern (145 bp):
AAAAGGGATGAACCAATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCCGGTGACAACCTAGG
ACTCGATTATAAGAAATTACGAAAATACCCCAAGAGGTATACCTTTGACATAAAAATACCGCGCA
ACCCTAAAGGATTAT
Found at i:3353950 original size:300 final size:301
Alignment explanation
Indices: 3352919--3354533 Score: 1187
Period size: 311 Copynumber: 5.3 Consensus size: 301
3352909 CTAAGTGCAA
** * * * * * * *
3352919 AAAAATTACAAAAATGCCCCTA-GGGGATACCTTCGATGTAAAAATACTC-GATACCCCTAAAGG
1 AAAAATTATGAAAATGCCTCTATGGGTATACTTTCGACGTAAAAGTAC-CGGGTAACCCTAAAGG
* ** * * * *
3352982 ACCTAAAACGGA-TAGAATTGGGAT-AACCTATCCTAAATGCCCACTTTCAGCA-AAAAACGGAC
65 ACCTAAAA-AGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
* * * * * * * *
3353044 CCGGTGACGACCTAGGAGTTGGTTCT-AGAAATTATGAAAATACCCCTA-GGGGATACCTTCGAT
129 CCGGTGACAACCTAGGACTCGATTCTAAGAAATTACGAAAATACCCCTATAGGTATACCTTCGAC
** * * * * * * * *
3353107 GCGAAAGTATCTCAGTACCCCTAAAGGACTTAAAAAAAATCTTGGATGAACCTATCGTAAATGCC
194 GTAAAAGTACCTCGGCAACCCTAAAGGACTT--ATAAAA---GGGATGAAACTATCCTAAATGCC
* * * *** ** * * * **
3353172 TACCTTCGGCATAAAAACAGACTCGACGACAACCTAAGACTCAGTTCT
254 CACATTTGGCATAAAAGTGGACTCGGTGACGACCTAGGAGTTGGTTCT
* * * * *
3353220 AAGAAATTATGAAAATGCCCCTATGGGTATACCTTCGATGTAAAAATACCGCGGCAACCCTAAAG
1 AA-AAATTATGAAAATGCCTCTATGGGTATACTTTCGACGTAAAAGTACCG-GGTAACCCTAAAG
* *
3353285 GACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTTGGCATAAAAGCGGAC
64 GACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGAC
** * * * * *
3353350 CCGGTGATGACCTAGGACAT-GGTTCTAA-AAATTAC-AAAAAAGCCCCTA-AGGGATGCCTTTG
129 CCGGTGACAACCTAGGAC-TCGATTCTAAGAAATTACGAAAATA-CCCCTATAGGTATACCTTCG
*** *
3353411 ACGTAAAAGTA--TCATAATGACCCTAAAGAACTTAAAAGGACTAGAAACGGTGATGAAACTATC
192 ACGTAAAAGTACCTCGGCA--ACCCTAAAGGACTT------A-TA-AAA-GG-GATGAAACTATC
* * * * * * *
3353474 CTAAATGCCCACCA-TCGACATAAAAGTGGACCCGAT-ACCGACCTAAGACTCGGTTCT
245 CTAAATGCCCA-CATTTGGCATAAAAGTGGACTCGGTGA-CGACCTAGGAGTTGGTTCT
** * * * *
3353531 AGGAATTACGAAAAGGCCTTTATGGGTATACTTTCGACGTAAAAGTACCCGGTAACCCTAAAGGA
1 AAAAATTATGAAAATGCCTCTATGGGTATACTTTCGACGTAAAAGTACCGGGTAACCCTAAAGGA
* * *
3353596 CCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCATCTTTGGCATAAAAGTAGACCC
66 CCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCC
* * *
3353661 GGTGACAACCTAGGACTCGATTCTAAGAAATTACGAAAATACCCCAATAGGTATACCTTTGATGT
131 GGTGACAACCTAGGACTCGATTCTAAGAAATTACGAAAATACCCCTATAGGTATACCTTCGACGT
* * * *
3353726 AAAAATACCTC-GCAACCCTAAAGGA-TTATAAAAGGGGTGAACCAATCCTAAATGCCCACATTT
196 AAAAGTACCTCGGCAACCCTAAAGGACTTATAAAAGGGATGAAACTATCCTAAATGCCCACATTT
* * *
3353789 GGCATAAAAGTGGACTTGGTGACAACCTAGGAGTTGGTTAT
261 GGCATAAAAGTGGACTCGGTGACGACCTAGGAGTTGGTTCT
* *
3353830 AAAAATTATGAAAATGCCTCTA-GAGGTATACCTTT-GACATAAAAGTATCCGGGTAATCCTAAA
1 AAAAATTATGAAAATGCCTCTATG-GGTATA-CTTTCGACGTAAAAGTA-CCGGGTAACCCTAAA
* *
3353893 GGACCTAAAAAAACTAGAAAAAGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGA
63 GGACCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGA
* * * * * *
3353958 CCCAGTGACAACCTAAGACTC-AGTT-TTAGAAAATTACGAAAATATCCCTATGGGTATATCTTC
128 CCCGGTGACAACCTAGGACTCGA-TTCTAAG-AAATTACGAAAATACCCCTATAGGTATACCTTC
* *
3354021 GACGTAAAAGTACCTCGGCAACCCTAAAGGACTTAAAAAGACTATAAAAAGGAAGAAACTATCCT
191 GACGTAAAAGTACCTCGGCAACCCTAAAGGAC-T--------TATAAAAGGGATGAAACTATCCT
* * *
3354086 AAATGCCCACCTTTGGCATAAAAGTGGACTCGGTGATGACCTAGGAGTTCGTTTCT
247 AAATGCCCACATTTGGCATAAAAGTGGACTCGGTGACGACCTAGGAGTT-GGTTCT
* *
3354142 AAAAATTATGAAAATACC-CT-TAGGGCTATACTTTCGACGTAAAAGTATCTC-GATAACCCTAA
1 AAAAATTATGAAAATGCCTCTAT-GGG-TATACTTTCGACGTAAAAGTA-C-CGGGTAACCCTAA
* * * * * *
3354204 AGGACAT-AAAGGACAAGAAATGGTGATGAACCTATCCTAAATGCCCACCTTCAGCATAAAAGCG
62 AGGACCTAAAAAGACTAGAAAAGG-GATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCA
** * * * * * * *
3354268 GACCTC-GTGATGACCAAGGACTCGGTTCGAAAAAACATTATGAAAATGCCCTTATAGGTATACC
126 GACC-CGGTGACAACCTAGGACTCGATTC-TAAGAA-ATTACGAAAATACCCCTATAGGTATACC
* * *
3354332 TTCGATGTAAAAGTACCCCGGCAACCCTAAAGGACCTAAAAATACTAAAAAAGGGATGAACCTAT
188 TTCGACGTAAAAGTACCTCGGCAACCCTAAAGGA-CT-----TA-T--AAAAGGGATGAAACTAT
* * * *** * * * * * *
3354397 CCTAAATGCTCACCTTCGGCATAAAAACAGACCCGGTGACAACCTAAGACTCGATTCT
244 CCTAAATGCCCACATTTGGCATAAAAGTGGACTCGGTGACGACCTAGGAGTTGGTTCT
* * * * * * * *
3354455 AAAAAATTACGAAAATGCCCCTAAGGG-ATACCTTCTACGTGAAAGTATCCCGGTACCCCTAAAG
1 -AAAAATTATGAAAATGCCTCTATGGGTATACTTTCGACGTAAAAGTA-CCGGGTAACCCTAAAG
*
3354519 GACTTAAAAAGACTA
64 GACCTAAAAAGACTA
3354534 TAGAAGAGGT
Statistics
Matches: 1075, Mismatches: 173, Indels: 119
0.79 0.13 0.09
Matches are distributed among these distances:
298 3 0.00
299 89 0.08
300 143 0.13
301 19 0.02
302 21 0.02
303 28 0.03
304 33 0.03
305 30 0.03
306 73 0.07
307 2 0.00
308 1 0.00
309 99 0.09
310 64 0.06
311 167 0.16
312 118 0.11
313 45 0.04
314 134 0.12
315 6 0.01
ACGTcount: A:0.38, C:0.22, G:0.18, T:0.22
Consensus pattern (301 bp):
AAAAATTATGAAAATGCCTCTATGGGTATACTTTCGACGTAAAAGTACCGGGTAACCCTAAAGGA
CCTAAAAAGACTAGAAAAGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAGACCC
GGTGACAACCTAGGACTCGATTCTAAGAAATTACGAAAATACCCCTATAGGTATACCTTCGACGT
AAAAGTACCTCGGCAACCCTAAAGGACTTATAAAAGGGATGAAACTATCCTAAATGCCCACATTT
GGCATAAAAGTGGACTCGGTGACGACCTAGGAGTTGGTTCT
Found at i:3354950 original size:166 final size:165
Alignment explanation
Indices: 3354630--3354950 Score: 377
Period size: 166 Copynumber: 1.9 Consensus size: 165
3354620 TGAAAATTCC
*
3354630 ATTTCGTACCTTAATGGAAGCTCGAAAAAATACGAAAAGTTTTGAAAATCTTTTATACCCCTACG
1 ATTTCGTACCTTAATGGAAGCTCGAAAAAATACAAAAAGTTTTGAAAATCTTTTATACCCCTACG
* * * *
3354695 GATGCCCATAGAAATATAAAAGAATAAAAAATGATTAAAATTTATTTTGGTTATGAAAGTGTTAA
66 GATGCCCATAGAAATATAAAAGAAGAAAAAATGATTAAAATTTATTTTGATGATGAAACTG-TAA
* * * * **
3354760 TTTAATTATTTATTTATTTAATTTTTGAAAAATGTA
130 TCTAACTAGTTATGTACCTAATTTTTGAAAAATGTA
* *
3354796 ATTTCGTACC-TAATGGAAGC-CTGAAAAGATACAAAAAATTTTTGAAAATCTTTTATACCCCTA
1 ATTTCGTACCTTAATGGAAGCTC-GAAAAAATAC-AAAAAGTTTTGAAAATCTTTTATACCCCTA
* *
3354859 CGGATGCCCATAGGAATATAAAAGATTAGAAAAAATGATT-AAATTTGATTTTTATGATCGAAAA
64 CGGATGCCCATAGAAATATAAAAGA--AGAAAAAATGATTAAAATTT-ATTTTGATGAT-G-AAA
3354923 CTAG-AATCT-ACTAGTTA-GT-CCTAATTTT
124 CT-GTAATCTAACTAGTTATGTACCTAATTTT
3354951 CCAATTTATC
Statistics
Matches: 132, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
164 1 0.01
165 19 0.14
166 69 0.52
167 7 0.05
168 26 0.20
169 5 0.04
170 4 0.03
171 1 0.01
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.35
Consensus pattern (165 bp):
ATTTCGTACCTTAATGGAAGCTCGAAAAAATACAAAAAGTTTTGAAAATCTTTTATACCCCTACG
GATGCCCATAGAAATATAAAAGAAGAAAAAATGATTAAAATTTATTTTGATGATGAAACTGTAAT
CTAACTAGTTATGTACCTAATTTTTGAAAAATGTA
Found at i:3355860 original size:13 final size:12
Alignment explanation
Indices: 3355825--3355864 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
3355815 CTATTTTCTC
3355825 CTTTTTTC-TTT
1 CTTTTTTCTTTT
*
3355836 CTTTTTTTTTTT
1 CTTTTTTCTTTT
3355848 CTTTTTGTCTTTT
1 CTTTTT-TCTTTT
3355861 CTTT
1 CTTT
3355865 CTCTCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 7 0.28
12 9 0.36
13 9 0.36
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (12 bp):
CTTTTTTCTTTT
Found at i:3356740 original size:166 final size:166
Alignment explanation
Indices: 3356544--3356959 Score: 460
Period size: 166 Copynumber: 2.5 Consensus size: 166
3356534 AAACTCATGT
* * *
3356544 AAATGAATGAATTTTTTAAAACTAAATTAATATGAATCAAATGATGATGTTTTATGAATTGTAAA
1 AAATGAATGAATTTTTAAAAACTAAATTAATATGAAT-AAATAATGATGTTTGATGAATTGTAAA
* * *
3356609 AATTGAAAACCGAGAAAAATCCCCTCGAAAA-AATTTA-CAAAGTAGAAAACACTGTATTTAGGA
65 AATTGAAAACCAAGAAAAATCCCCTC-AAAACAATTTATCAAA-TAGAAAACACCGTATTTAGAA
* * *
3356672 AAAATGGAAGTTTCAAGG-AAAAAATCAAAAATAAATGA
128 AAAATAGAAGTTTCAAGGAAAAAAATAAAAAATAAATCA
* * * * *
3356710 AAATGAATGAATTTTTAAAAAATGAATTAATATAAAATAAATAATGATGTTTGATGATTTTTAAA
1 AAATGAATGAATTTTTAAAAACTAAATTAATAT-GAATAAATAATGATGTTTGATGAATTGTAAA
** ** * *
3356775 AATTGAAAACCAAGAAAAATCCGTTCAAAACAATTTATGGAATAGAAAATACCGTATTTCGAAAA
65 AATTGAAAACCAAGAAAAATCCCCTCAAAACAATTTATCAAATAGAAAACACCGTATTTAGAAAA
* *
3356840 AATAGAAGTTTCGAGGAAAAAAATAAAAAATGAATCA
130 AATAGAAGTTTCAAGGAAAAAAATAAAAAATAAATCA
* * * * * * * * *
3356877 AAATAAATTAATTTTTGAAAACTTATTTAATATGAAATAAATAATAATATTTGATAAATTTTAAA
1 AAATGAATGAATTTTTAAAAACTAAATTAATATG-AATAAATAATGATGTTTGATGAATTGTAAA
* **
3356942 AATTAAAAATTAAGAAAA
65 AATTGAAAACCAAGAAAA
3356960 CTCCGTTATT
Statistics
Matches: 209, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
165 4 0.02
166 115 0.55
167 90 0.43
ACGTcount: A:0.53, C:0.06, G:0.12, T:0.30
Consensus pattern (166 bp):
AAATGAATGAATTTTTAAAAACTAAATTAATATGAATAAATAATGATGTTTGATGAATTGTAAAA
ATTGAAAACCAAGAAAAATCCCCTCAAAACAATTTATCAAATAGAAAACACCGTATTTAGAAAAA
ATAGAAGTTTCAAGGAAAAAAATAAAAAATAAATCA
Found at i:3363241 original size:29 final size:28
Alignment explanation
Indices: 3363111--3363740 Score: 596
Period size: 28 Copynumber: 22.2 Consensus size: 28
3363101 ATTTTAAGGG
3363111 TTTGCAAAGGATGCCACTGACTTGTGGGC
1 TTTG-AAAGGATGCCACTGACTTGTGGGC
3363140 TTTGAAAGG-TGCCACTGACTTGTGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
* *
3363167 TTGGAAAAGATGCCACTGACTTGTGGG-
1 TTTGAAAGGATGCCACTGACTTGTGGGC
** * *
3363194 TTTGGAAAAAATGCTACTGACTTATGGGC
1 TTT-GAAAGGATGCCACTGACTTGTGGGC
*
3363223 TTTTGAAAGGATGCCACTGACTTGTGGAC
1 -TTTGAAAGGATGCCACTGACTTGTGGGC
* *
3363252 TTGGGAAA-GACGCCACTGACTTGTGGGC
1 TT-TGAAAGGATGCCACTGACTTGTGGGC
*
3363280 TTTTGAAAGGATGCCACTAACTTGTGGGC
1 -TTTGAAAGGATGCCACTGACTTGTGGGC
*
3363309 TTTTGAAAGGATGCCACTGACTTGTGGAC
1 -TTTGAAAGGATGCCACTGACTTGTGGGC
* ***
3363338 TTTGAAAAGGATGCCACTAACTTGTATAC
1 TTTG-AAAGGATGCCACTGACTTGTGGGC
*
3363367 TTTGAAAGGATGCCACTGACTTGTGGAC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
*
3363395 TTTGAAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
** * * *
3363423 TTAAAAAGG-TGCCACGGAGTTGTGGAC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
* * * * * *
3363450 -TTAAAAGGTTGCCACGGAGTTATGGAC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
*
3363477 -TT-AAAGGGGTTGCCA-TCGACTTATGTGGGC
1 TTTGAAA--GGATGCCACT-GAC-T-TGTGGGC
* *
3363507 TTCGAAAGGGTGCCACT-AGCTTGTGGGC
1 TTTGAAAGGATGCCACTGA-CTTGTGGGC
*
3363535 TTTGAAA-AAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGA-TGCCACTGACTTGTGGGC
3363563 TTTGAAAGGATGCCACTGACTTGTGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
* **
3363591 TTTTGAAAAGATGCCACTGACTCATGGGC
1 -TTTGAAAGGATGCCACTGACTTGTGGGC
* * *
3363620 TTTGGAAGAATGCCACTCACTTGTGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
* **
3363648 TTTTGAAAAGATGCCACTGACTCATGGGC
1 -TTTGAAAGGATGCCACTGACTTGTGGGC
* * **
3363677 TTTGGAAGAATGCCACTGACTCATGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC
* * *
3363705 TTTAAAAGAAGTGCCACTAACTTGTGGGC
1 TTTGAAAGGA-TGCCACTGACTTGTGGGC
*
3363734 TTCGAAA
1 TTTGAAA
3363741 AAGGTTGTAT
Statistics
Matches: 507, Mismatches: 70, Indels: 48
0.81 0.11 0.08
Matches are distributed among these distances:
26 10 0.02
27 60 0.12
28 244 0.48
29 172 0.34
30 16 0.03
31 2 0.00
32 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (28 bp):
TTTGAAAGGATGCCACTGACTTGTGGGC
Found at i:3363248 original size:57 final size:56
Alignment explanation
Indices: 3363111--3363740 Score: 605
Period size: 57 Copynumber: 11.1 Consensus size: 56
3363101 ATTTTAAGGG
*
3363111 TTTGCAAAGGATGCCACTGACTTGTGGGCTTTG-AAAGGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
* * * * *
3363167 TTGGAAAAGATGCCACTGACTTGTGGG-TTTGGAAAAAATGCTACTGACTTATGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGCTTT-GAAAAGATGCCACTGACTTGTGGGC
* * * *
3363223 TTTTGAAAGGATGCCACTGACTTGTGGACTTGGGAAAGACGCCACTGACTTGTGGGC
1 -TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
* * *
3363280 TTTTGAAAGGATGCCACTAACTTGTGGGCTTTTGAAAGGATGCCACTGACTTGTGGAC
1 -TTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGC
* *** * *
3363338 TTTGAAAAGGATGCCACTAACTTGTATACTTTGAAAGGATGCCACTGACTTGTGGAC
1 TTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
* * * * * *
3363395 TTTGAAAGGATGCCACTAACTTGTGGGC-TTAAAAAGGTGCCACGGAGTTGTGGAC
1 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
* * * * * * * *
3363450 -TTAAAAGGTTGCCACGGAGTTATGGAC-TT-AAAGGGGTTGCCA-TCGACTTATGTGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAA--AGATGCCACT-GAC-T-TGTGGGC
* *
3363507 TTCGAAAGGGTGCCACT-AGCTTGTGGGCTTTGAAAA-AGTGCCACTGACTTGTGGGC
1 TTTGAAAGGATGCCACTGA-CTTGTGGGCTTTGAAAAGA-TGCCACTGACTTGTGGGC
**
3363563 TTTGAAAGGATGCCACTGACTTGTGGGCTTTTGAAAAGATGCCACTGACTCATGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGC
* * * **
3363620 TTTGGAAGAATGCCACTCACTTGTGGGCTTTTGAAAAGATGCCACTGACTCATGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTGACTTGTGGGC
* * ** *
3363677 TTTGGAAGAATGCCACTGACTCATGGGCTTT-AAAAGAAGTGCCACTAACTTGTGGGC
1 TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAG-A-TGCCACTGACTTGTGGGC
*
3363734 TTCGAAA
1 TTTGAAA
3363741 AAGGTTGTAT
Statistics
Matches: 483, Mismatches: 69, Indels: 43
0.81 0.12 0.07
Matches are distributed among these distances:
53 3 0.01
54 25 0.05
55 58 0.12
56 79 0.16
57 239 0.49
58 73 0.15
59 3 0.01
60 3 0.01
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (56 bp):
TTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGC
Found at i:3363483 original size:26 final size:26
Alignment explanation
Indices: 3363426--3363481 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 26
3363416 TGTGGGCTTA
*
3363426 AAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGTGCCACGGAGTTATGGACTT
3363452 AAAAGGTTGCCACGGAGTTATGGACTT
1 AAAAGG-TGCCACGGAGTTATGGACTT
3363479 AAA
1 AAA
3363482 GGGGTTGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.23
Consensus pattern (26 bp):
AAAAGGTGCCACGGAGTTATGGACTT
Found at i:3371906 original size:21 final size:21
Alignment explanation
Indices: 3371880--3371935 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
3371870 TTTTACAATT
*
3371880 TGTATCGATACAAACAGT-AAA
1 TGTATCGATACAAAC-CTAAAA
**
3371901 TGTATCGATACATGCCTAAAA
1 TGTATCGATACAAACCTAAAA
3371922 TGTATCGATACAAA
1 TGTATCGATACAAA
3371936 ACCACCCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 1 0.03
21 28 0.97
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (21 bp):
TGTATCGATACAAACCTAAAA
Found at i:3372026 original size:20 final size:19
Alignment explanation
Indices: 3371961--3372142 Score: 102
Period size: 20 Copynumber: 9.7 Consensus size: 19
3371951 AGACAGGAAA
* *
3371961 TGTATCGATACATATATAAA
1 TGTATCGATACATAT-TCAT
*
3371981 TGTATCGATACATATACTATT
1 TGTATCGATACATATTC-A-T
3372002 TGTATCGATACATTATTCAT
1 TGTATCGATACA-TATTCAT
*
3372022 TGTATTGATAC--ATTCTAGT
1 TGTATCGATACATATTC-A-T
* * **
3372041 T-TTTTGACCCA-A---A-
1 TGTATCGATACATATTCAT
3372054 TGTATCGATAC--ATT--T
1 TGTATCGATACATATTCAT
3372069 TGTATCGATACAT-TTACTATT
1 TGTATCGATACATATT-C-A-T
3372090 TGTATCGATACAATATTCAT
1 TGTATCGATAC-ATATTCAT
3372110 TGTATCGATACAATATTCAT
1 TGTATCGATAC-ATATTCAT
3372130 TGTATCGATACAT
1 TGTATCGATACAT
3372143 TATGGGTTTT
Statistics
Matches: 131, Mismatches: 12, Indels: 39
0.72 0.07 0.21
Matches are distributed among these distances:
13 2 0.02
14 5 0.04
15 12 0.09
16 2 0.02
17 4 0.03
18 7 0.05
19 5 0.04
20 59 0.45
21 26 0.20
22 7 0.05
23 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (19 bp):
TGTATCGATACATATTCAT
Found at i:3372074 original size:15 final size:15
Alignment explanation
Indices: 3372054--3372083 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
3372044 TTGACCCAAA
3372054 TGTATCGATACATTT
1 TGTATCGATACATTT
3372069 TGTATCGATACATTT
1 TGTATCGATACATTT
3372084 ACTATTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (15 bp):
TGTATCGATACATTT
Found at i:3372153 original size:108 final size:108
Alignment explanation
Indices: 3371961--3372178 Score: 314
Period size: 108 Copynumber: 2.0 Consensus size: 108
3371951 AGACAGGAAA
*
3371961 TGTATCGATACATATATAAATGTATCGATACATATACTATTTGTATCGATACATTATTCATTGTA
1 TGTATCGATACATATATAAATGTATCGATACATATACTATTTGTATCGATACAATATTCATTGTA
* * *
3372026 TTGATACATTCTAGTTTTTTGACCCAAATGTATCGATACATTT
66 TCGATACATTATAGGTTTTTGACCCAAATGTATCGATACATTT
* ** *
3372069 TGTATCGATACATTTACTATTTGTATCGATACA-ATATTCA-TTGTATCGATACAATATTCATTG
1 TGTATCGATACATATA-TAAATGTATCGATACATATACT-ATTTGTATCGATACAATATTCATTG
* *
3372132 TATCGATACATTATGGGTTTTTGACCCAAATGTATCGATATATTT
64 TATCGATACATTATAGGTTTTTGACCCAAATGTATCGATACATTT
3372177 TG
1 TG
3372179 CAATGTATTG
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
108 83 0.85
109 15 0.15
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (108 bp):
TGTATCGATACATATATAAATGTATCGATACATATACTATTTGTATCGATACAATATTCATTGTA
TCGATACATTATAGGTTTTTGACCCAAATGTATCGATACATTT
Found at i:3375327 original size:20 final size:19
Alignment explanation
Indices: 3375272--3375327 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
3375262 AAAACCCTTA
*
3375272 AAAGTATCGATACATAATTC
1 AAAGTATCGATACAT-GTTC
3375292 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
3375312 AATGTATCGATACATG
1 AAAGTATCGATACATG
3375328 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 31 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:3375403 original size:19 final size:19
Alignment explanation
Indices: 3375379--3375443 Score: 70
Period size: 21 Copynumber: 3.6 Consensus size: 19
3375369 TAGCCAAACT
3375379 TGTATCGATACACAAAATA
1 TGTATCGATACACAAAATA
3375398 TGTATCGAT--AC---A-A
1 TGTATCGATACACAAAATA
3375411 TGTATCGATACACAAAAAATA
1 TGTATCGATACAC--AAAATA
3375432 TGTATCGATACA
1 TGTATCGATACA
3375444 TTGGCTTGTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
14 1 0.03
15 2 0.05
17 2 0.05
19 9 0.24
20 1 0.03
21 13 0.34
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (19 bp):
TGTATCGATACACAAAATA
Found at i:3375415 original size:13 final size:13
Alignment explanation
Indices: 3375397--3375422 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3375387 TACACAAAAT
3375397 ATGTATCGATACA
1 ATGTATCGATACA
3375410 ATGTATCGATACA
1 ATGTATCGATACA
3375423 CAAAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:3375420 original size:32 final size:33
Alignment explanation
Indices: 3375379--3375443 Score: 114
Period size: 34 Copynumber: 2.0 Consensus size: 33
3375369 TAGCCAAACT
3375379 TGTATCGATACAC-AAAATATGTATCGATACAA
1 TGTATCGATACACAAAAATATGTATCGATACAA
3375411 TGTATCGATACACAAAAAATATGTATCGATACA
1 TGTATCGATACAC-AAAAATATGTATCGATACA
3375444 TTGGCTTGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 13 0.42
34 18 0.58
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.28
Consensus pattern (33 bp):
TGTATCGATACACAAAAATATGTATCGATACAA
Found at i:3376953 original size:149 final size:149
Alignment explanation
Indices: 3376771--3377171 Score: 518
Period size: 149 Copynumber: 2.7 Consensus size: 149
3376761 GTGATCTTAG
* *
3376771 AGGACTTAAAAAGGAAAAGCGAACCTACGCCTAATACGTACCATTGGCATAGAAGCAATCTAGTG
1 AGGACTTAAAAAGGAAAAGTGAACCTACGCCTAATACGTACC-TTGGCATAGAAGCAACCTAGTG
* * * *
3376836 ATAAATTAAAACTCGATTTTAGAAAAATTATAAAAATATCCCTATGGGTA-TACCTTCGACATGA
65 ACAAATTAAGACTCGATTTTAGAAAAATTATGAAAATATCCCTATGAGTATTACCTTCGACATGA
** *
3376900 AAATATTTCGGTAACCCTAA
130 AAATATCCCGATAACCCTAA
* *
3376920 AGGACTTAAAAAGAAAAAGTGAACCTACGCCTAATACGTACCCTTGGCATAGAAGCAACCTGGTG
1 AGGACTTAAAAAGGAAAAGTGAACCTACGCCTAATACGTA-CCTTGGCATAGAAGCAACCTAGTG
* * ** * * *
3376985 ACACATTAGGACTCTTTTTTAGAAAAATTATGAAAATGTCCTTATGAGTATTACCTTTGACATGA
65 ACAAATTAAGACTCGATTTTAGAAAAATTATGAAAATATCCCTATGAGTATTACCTTCGACATGA
* *
3377050 AAGTATCCCGATAACCTTAA
130 AAATATCCCGATAACCCTAA
* * * * * *
3377070 AGGACTTACAAAGGAAAAGTGAACCTACGCCTAATACATACCTTCGACATAAAAGCGACCCA-TG
1 AGGACTTAAAAAGGAAAAGTGAACCTACGCCTAATACGTACCTT-GGCATAGAAGCAACCTAGTG
*
3377134 ACAAATTAAGACTCGATTCTAGAAAAATTATGAAAATA
65 ACAAATTAAGACTCGATTTTAGAAAAATTATGAAAATA
3377172 CCTTTACAAG
Statistics
Matches: 215, Mismatches: 34, Indels: 6
0.84 0.13 0.02
Matches are distributed among these distances:
149 136 0.63
150 79 0.37
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (149 bp):
AGGACTTAAAAAGGAAAAGTGAACCTACGCCTAATACGTACCTTGGCATAGAAGCAACCTAGTGA
CAAATTAAGACTCGATTTTAGAAAAATTATGAAAATATCCCTATGAGTATTACCTTCGACATGAA
AATATCCCGATAACCCTAA
Found at i:3379481 original size:159 final size:161
Alignment explanation
Indices: 3379263--3379727 Score: 557
Period size: 159 Copynumber: 2.9 Consensus size: 161
3379253 AATTTTTCAG
*
3379263 AAATAGGAAAATTTTAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTACAAAACTTAT
1 AAATAGGAAAA-TTTAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTTAT
* *
3379328 TTACTATGAATTAAATGATGATATTTGATGAATTTTAGAAATTATAAATCAAGAAAAATCCTCCC
65 TTACTATGAATTAAATAATAATATTTGATGAATTTTA-AAATTATAAA-CAAGAAAAATCCTCCC
* *
3379393 GAAAACATTTACGGAGTAGAAAA-AT-CA-T-GA
128 GAAAAAATTTACGGAGTACAAAACATGCATTCGA
*
3379423 AAATAGGAAAGTTTAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAA-TTGAT
1 AAATAGGAAAATTTAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTT-AT
* *** * *
3379487 TTAATATGGGCTAAATAATAATACTTGATGAATTTTAAAAATAATAAACCAAGAAAAATCC-CCC
65 TTACTATGAATTAAATAATAATATTTGATGAATTTT-AAAATTATAAA-CAAGAAAAATCCTCCC
* * *
3379551 TAAAAAATTTACGGAGTACAAAACTTGTATTTCGA
128 GAAAAAATTTACGGAGTACAAAACATGCA-TTCGA
* ** * * * *
3379586 AAACAAAAAAATTTCAAGGAAAAAATGAAAAATTAATG-AAATAAAAAGAATTTTTCAAAACTGA
1 AAATAGGAAAATTT-AAGGAAAAAATGAAAAACTCATGAAAAT-AAATGAATTTTTCAAAACTTA
* * *
3379650 TTTACTATGAATTAAATAATAATATTTGATGAATTTTAAAATTTATAAACCAGTGAAAATCCTCT
64 TTTACTATGAATTAAATAATAATATTTGATGAATTTTAAAA-TTATAAACAAG-AAAAATCCTCC
3379715 CGAAAAAATTTAC
127 CGAAAAAATTTAC
3379728 AAAGAAGAAA
Statistics
Matches: 258, Mismatches: 34, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
158 25 0.10
159 100 0.39
160 12 0.05
162 1 0.00
163 23 0.09
164 83 0.32
165 14 0.05
ACGTcount: A:0.51, C:0.09, G:0.11, T:0.29
Consensus pattern (161 bp):
AAATAGGAAAATTTAAGGAAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTTATT
TACTATGAATTAAATAATAATATTTGATGAATTTTAAAATTATAAACAAGAAAAATCCTCCCGAA
AAAATTTACGGAGTACAAAACATGCATTCGA
Found at i:3379653 original size:164 final size:163
Alignment explanation
Indices: 3379117--3379842 Score: 588
Period size: 166 Copynumber: 4.4 Consensus size: 163
3379107 TACTATATAA
* * * * *
3379117 AAAAAAT-ACAAAATTCAT-AAAATAAATTAAATTTTCTC-AAACTGA-TTAATAGGAATTTAAT
1 AAAAAATGA-AAAACTCATGAAAATAAA-TGAATTTT-TCAAAACTGATTTACTATGAATTAAAT
* * * * * *** ***
3379178 AAAAATATTTGATAAATTTTAAAAATTTTAAATCGAGAAAAAT-CTCTTTAAAAACATTTATATA
63 AATAATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCCGAAAAA-ATTTACGGA
** * * * ** *
3379242 GTAGAAAACTCAATTTTTCAGAAATAGGAAAATTTTAAGG
127 GTAGAAAA-T-TGTATTTGA-AAACAAAAAAATTTCAAGG
* * *
3379282 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTACAAAACTTATTTACTATGAATTAAATGAT
1 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTACTATGAATTAAATAAT
* * * *
3379347 GATATTTGATGAATTTTAGAAATTATAAATCAAGAAAAATCCTCCCGAAAACATTTACGGAGTAG
66 AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAG
* * * ** *
3379412 AAAAAT-CA--TGAAAATAGGAAAGTTT-AAGG
131 AAAATTGTATTTGAAAACAAAAAAATTTCAAGG
* * ***
3379441 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAATTGATTTAATATGGGCTAAATAAT
1 AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTACTATGAATTAAATAAT
* * * *
3379506 AATACTTGATGAATTTTAAAAATAATAAACCAAGAAAAATCC-CCCTAAAAAATTTACGGAGTAC
66 AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAG
3379570 AAAACTTGTATTTCGAAAACAAAAAAATTTCAAGG
131 AAAA-TTGTATTT-GAAAACAAAAAAATTTCAAGG
* * *
3379605 AAAAAATGAAAAATTAATG-AAATAAAAAGAATTTTTCAAAACTGATTTACTATGAATTAAATAA
1 AAAAAATGAAAAACTCATGAAAAT-AAATGAATTTTTCAAAACTGATTTACTATGAATTAAATAA
* * * ** *
3379669 TAATATTTGATGAATTTTAAAATTTATAAACC-AGTGAAAATCCTCTCGAAAAAATTTACAAAGA
65 TAATATTTGATGAATTTTAAAAATTATAAACCAAG-AAAAATCCTCCCGAAAAAATTTACGGAGT
* **
3379733 AGAAAATTTTGTATTTTGGAAACAAGAGGAA-TTCTAA--
129 AGAAAA--TTGTA-TTTGAAAACAA-AAAAATTTC-AAGG
* * * *
3379770 AAGAAAATCAATAACTTATG-AAATAAAAGGAATTTTTCAAAACTGATTTGA-TA-GTAATTAAA
1 AA-AAAATGAAAAACTCATGAAAAT-AAATGAATTTTTCAAAACTGATTT-ACTATG-AATTAAA
3379832 TAATAATATTT
62 TAATAATATTT
3379843 AAAGAATTAT
Statistics
Matches: 464, Mismatches: 76, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
158 23 0.05
159 99 0.21
160 14 0.03
161 2 0.00
162 1 0.00
163 18 0.04
164 92 0.20
165 51 0.11
166 148 0.32
167 16 0.03
ACGTcount: A:0.51, C:0.08, G:0.10, T:0.31
Consensus pattern (163 bp):
AAAAAATGAAAAACTCATGAAAATAAATGAATTTTTCAAAACTGATTTACTATGAATTAAATAAT
AATATTTGATGAATTTTAAAAATTATAAACCAAGAAAAATCCTCCCGAAAAAATTTACGGAGTAG
AAAATTGTATTTGAAAACAAAAAAATTTCAAGG
Found at i:3380639 original size:21 final size:21
Alignment explanation
Indices: 3380583--3380631 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
3380573 ACAACGAATA
* **
3380583 ATGTATCAATACGTTGCAAGC
1 ATGTATCAATACATTATAAGC
3380604 ATGTATCAATACATTATAAGC
1 ATGTATCAATACATTATAAGC
3380625 ATGTATC
1 ATGTATC
3380632 GGTACATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.37, C:0.16, G:0.14, T:0.33
Consensus pattern (21 bp):
ATGTATCAATACATTATAAGC
Found at i:3380743 original size:21 final size:20
Alignment explanation
Indices: 3380696--3380749 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
3380686 CATTTCAAAC
*
3380696 ATGTATCGATATATTCACTT
1 ATGTATCGATACATTCACTT
*
3380716 ATGTATCGATACATTTACTT
1 ATGTATCGATACATTCACTT
3380736 ATTGTATCGATACA
1 A-TGTATCGATACA
3380750 ATTTGTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTCACTT
Found at i:3381733 original size:17 final size:18
Alignment explanation
Indices: 3381713--3381746 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
3381703 TGATTTTTGC
*
3381713 ATTCTTGTAT-TTTTTAT
1 ATTCTCGTATATTTTTAT
3381730 ATTCTCGTATATTTTTA
1 ATTCTCGTATATTTTTA
3381747 CTAACTTCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.65
Consensus pattern (18 bp):
ATTCTCGTATATTTTTAT
Found at i:3383756 original size:150 final size:148
Alignment explanation
Indices: 3383469--3383771 Score: 484
Period size: 150 Copynumber: 2.0 Consensus size: 148
3383459 CAGAACCCAA
* *
3383469 CAATTCCCAAACCCATGTTCCTACAGATCCTATAAGAAGAAAGTCAAAGACAAAGAAAGTTATTG
1 CAATTCCCAAACCCACGTTCCTACAGATCCCATAAGAAGAAAGTC-AAGAC-AAGAAAGTTATTG
3383534 CTTCAGTCTATTGATTTCACCATAAAACTCACAAGAAAGGAAAATGAACTAAACATGCAAAGGAG
64 CTTCAGTCTATTGATTTCACCATAAAACTCACAAGAAAGGAAAATGAACTAAACATGCAAAGGAG
3383599 CCCCTAAGGAATACACATTT
129 CCCCTAAGGAATACACATTT
*
3383619 CAATTCCCAAGCCCACGTTCCTACAGATCCCATAAGAAGAAAGTC-AGAC-AGAAAGTTATTGCT
1 CAATTCCCAAACCCACGTTCCTACAGATCCCATAAGAAGAAAGTCAAGACAAGAAAGTTATTGCT
** *
3383682 TCAGTCTATTGATTTCACCATAAAACTCACAAGAAAGGAAAATGAAGGAACTAAATGTGCAGAGG
66 TCAGTCTATTGATTTCACCATAAAACTCACAAGAAAGGAAAAT----GAACTAAACATGCAAAGG
3383747 AGCCCCTAAGGAATACACATTT
127 AGCCCCTAAGGAATACACATTT
3383769 CAA
1 CAA
3383772 ATTGTCCTGA
Statistics
Matches: 143, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
146 57 0.40
148 4 0.03
150 82 0.57
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (148 bp):
CAATTCCCAAACCCACGTTCCTACAGATCCCATAAGAAGAAAGTCAAGACAAGAAAGTTATTGCT
TCAGTCTATTGATTTCACCATAAAACTCACAAGAAAGGAAAATGAACTAAACATGCAAAGGAGCC
CCTAAGGAATACACATTT
Found at i:3385606 original size:30 final size:30
Alignment explanation
Indices: 3385570--3385649 Score: 83
Period size: 30 Copynumber: 2.7 Consensus size: 30
3385560 TTTTATTACC
*
3385570 CCCAAATAAGCCCTTAGCCTTTAATATGTA
1 CCCAAATAAGCCCTTAACCTTTAATATGTA
* * * *
3385600 CCCAAATATGTCTTTAACCTTTAATTTGTA
1 CCCAAATAAGCCCTTAACCTTTAATATGTA
*
3385630 CCCAGA-AAGTCCC-TAACCTT
1 CCCAAATAAG-CCCTTAACCTT
3385650 ATGCCTAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
29 9 0.22
30 31 0.77
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.33
Consensus pattern (30 bp):
CCCAAATAAGCCCTTAACCTTTAATATGTA
Found at i:3387183 original size:3 final size:3
Alignment explanation
Indices: 3387175--3387226 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
3387165 AGGAGCACAG
3387175 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
3387223 ATA A
1 ATA A
3387227 AAGATCGAGC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:3389846 original size:6 final size:6
Alignment explanation
Indices: 3389837--3389871 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
3389827 TATTTTTTTC
*
3389837 CAGAAT CAGAAT CAGAAT CAGAAT GAGAAT CAGAA
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAA
3389872 CCAAAACCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.51, C:0.14, G:0.20, T:0.14
Consensus pattern (6 bp):
CAGAAT
Found at i:3390552 original size:39 final size:38
Alignment explanation
Indices: 3390492--3390591 Score: 89
Period size: 39 Copynumber: 2.6 Consensus size: 38
3390482 ATAAATTTTA
* * *
3390492 TAAAATATAAGATTTATTAAAATATGACATAAAAATAAT
1 TAAAATATAAGATATATTAAAA-ATAAAATAAAAATAAT
* *
3390531 TAAAATATAATATA-ATATAAAAATAAAATAAAAAT-GT
1 TAAAATATAAGATATAT-TAAAAATAAAATAAAAATAAT
3390568 TAGAAATATTTAA-ATATATTAAAA
1 TA-AAATA--TAAGATATATTAAAA
3390592 TATATATAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
37 3 0.06
38 18 0.35
39 25 0.49
40 5 0.10
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (38 bp):
TAAAATATAAGATATATTAAAAATAAAATAAAAATAAT
Found at i:3390556 original size:16 final size:16
Alignment explanation
Indices: 3390523--3390561 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
3390513 ATATGACATA
3390523 AAAATAATTAAAATAT
1 AAAATAATTAAAATAT
*
3390539 AATATAATATAAAA-AT
1 AAAATAAT-TAAAATAT
3390555 AAAATAA
1 AAAATAA
3390562 AAATGTTAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAATAATTAAAATAT
Done.